Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 48 of 203
Found at i:15659974 original size:6 final size:6
Alignment explanation
Indices: 15659963--15659992 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
15659953 TTAGTGATTT
15659963 AATATA AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA
15659993 TACAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:15660029 original size:18 final size:17
Alignment explanation
Indices: 15659961--15660026 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 17
15659951 GATTAGTGAT
15659961 TTAATATAAATATA-AA
1 TTAATATAAATATATAA
15659977 TATAAATATAAATATATACAA
1 T-T-AATATAAATATAT--AA
*
15659998 TTATTATTTAACATATATAA
1 TTA--ATATAA-ATATATAA
15660018 TTAATATAA
1 TTAATATAA
15660027 CATTCGGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.03
17 1 0.03
18 17 0.43
19 1 0.03
20 6 0.15
21 8 0.20
22 6 0.15
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAATATAAATATATAA
Found at i:15672468 original size:20 final size:20
Alignment explanation
Indices: 15672445--15672498 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
15672435 AATCTGATAA
15672445 GATATGCTATGTTATG-ATTC
1 GATATGCTATGTTATGTA-TC
*
15672465 GATATGCCATGTTATGTATC
1 GATATGCTATGTTATGTATC
*
15672485 GATATGATATGTTA
1 GATATGCTATGTTA
15672499 CGTAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (20 bp):
GATATGCTATGTTATGTATC
Found at i:15673243 original size:6 final size:6
Alignment explanation
Indices: 15673232--15673256 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15673222 GGCATTAGAG
15673232 GGTGCT GGTGCT GGTGCT GGTGCT G
1 GGTGCT GGTGCT GGTGCT GGTGCT G
15673257 CACTATCATT
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:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTGCT
Found at i:15674892 original size:29 final size:29
Alignment explanation
Indices: 15674840--15674895 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
15674830 GCATGAGATT
*
15674840 GGACCAAATTGTAAAGTTTCAAAATTTCA
1 GGACCAAATTGTAAAGTCTCAAAATTTCA
*
15674869 GGACCAAATTGTAGAGTC-CTAAAATTT
1 GGACCAAATTGTAAAGTCTC-AAAATTT
15674896 TGAGGCCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (29 bp):
GGACCAAATTGTAAAGTCTCAAAATTTCA
Found at i:15678495 original size:27 final size:27
Alignment explanation
Indices: 15678443--15678982 Score: 520
Period size: 27 Copynumber: 20.3 Consensus size: 27
15678433 AGAGATCGAT
* * *
15678443 AAATGATCGAATT-GCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
15678469 AAATGACCGAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
15678496 AAATGATCGAATTACCCCCAAAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
15678523 AAATAACCGAATTACCCTCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
*
15678550 AAATGATCGAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* *
15678577 AAATGACCGAATTACCCCCACAAGATA
1 AAATGACCGAATTACCCCCACAGGGTA
*
15678604 AAAT-------TTACCCCCCACAGAGTA
1 AAATGACCGAATTA-CCCCCACAGGGTA
* *
15678625 AAATGACCGAATTACCCCCATAGGATA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
15678652 AAATGATCGTATTACCCCCACAGGATA
1 AAATGACCGAATTACCCCCACAGGGTA
**
15678679 AAATGATTGAATTACCCCCACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
** ***
15678706 AAATGATAGAATTACCTTTACAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
15678733 AAATGACTGAATTACCCCCACAGAGAA
1 AAATGACCGAATTACCCCCACAGGGTA
*
15678760 AAATGACCGAATTACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
** * *
15678787 AAATGACTAAATTACCCTCACAAGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * * *
15678814 AAATGACTGAATTACCTCCATAGAGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
15678841 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * * *
15678868 AAATGATCGAAATACCCTCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * * *
15678895 AAATGATCGAAATACCCCTATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* ** * * *
15678922 AAATAACTAAAATACCCCTATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
* * *
15678949 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAATTACCCCCACAGGGTA
15678976 AAATGAC
1 AAATGAC
15678983 TGTTATACCC
Statistics
Matches: 437, Mismatches: 68, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
20 3 0.01
21 14 0.03
26 12 0.03
27 405 0.93
28 3 0.01
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACCGAATTACCCCCACAGGGTA
Found at i:15678631 original size:48 final size:48
Alignment explanation
Indices: 15678564--15678655 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
15678554 GATCGAATTA
*
15678564 CCCCCACAGGGTAAAATGACCGAATTACCCCCACAAGATAAAATTTAC
1 CCCCCACAGAGTAAAATGACCGAATTACCCCCACAAGATAAAATTTAC
* *
15678612 CCCCCACAGAGTAAAATGACCGAATTACCCCCATAGGATAAAAT
1 CCCCCACAGAGTAAAATGACCGAATTACCCCCACAAGATAAAAT
15678656 GATCGTATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.40, C:0.30, G:0.13, T:0.16
Consensus pattern (48 bp):
CCCCCACAGAGTAAAATGACCGAATTACCCCCACAAGATAAAATTTAC
Found at i:15678745 original size:156 final size:156
Alignment explanation
Indices: 15678457--15678912 Score: 481
Period size: 156 Copynumber: 2.9 Consensus size: 156
15678447 GATCGAATTG
* * * *
15678457 CCCCATAGGGTAAAATGACCGAATTACCCCCACAGGGTAAAATGATCGAATTACCCCCAAAGGGT
1 CCCCACAGAGTAAAATGACCGAATTACCCCCACAGGATAAAATGATCGAATTACCCCCAAAGGAT
* *
15678522 AAAATAACCGAATTACCCTCACAGGGTAAAATGATCGAATTACCCCCACAGGGTAAAATGACCGA
66 AAAATAACCGAATTACCCCCACAGGGTAAAATGATAGAATTACCCCCACAGGGTAAAATGACCGA
15678587 ATTACCCCCACA-AGATAAAATTTACC
131 ATTACCCCCACAGAGA-AAAATTTACC
* * *
15678613 CCCCACAGAGTAAAATGACCGAATTACCCCCATAGGATAAAATGATCGTATTACCCCCACAGGAT
1 CCCCACAGAGTAAAATGACCGAATTACCCCCACAGGATAAAATGATCGAATTACCCCCAAAGGAT
* ** *** *
15678678 AAAATGATTGAATTACCCCCACAGGGTAAAATGATAGAATTACCTTTACAGGGTAAAATGACTGA
66 AAAATAACCGAATTACCCCCACAGGGTAAAATGATAGAATTACCCCCACAGGGTAAAATGACCGA
15678743 ATTACCCCCACAGAGAAAAATGACCGAATTA-C
131 ATTACCCCCACAGAGAAAAAT-------TTACC
* * ** * * *
15678775 CCCCATAGGGTAAAATGACTAAATTACCCTCACAAGG-TAAAATGA-CTGAATTACCTCCATA-G
1 CCCCACAGAGTAAAATGACCGAATTACCCCCAC-AGGATAAAATGATC-GAATTACCCCCAAAGG
* * * * * * * * *
15678837 AGTAAAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGAT
64 A-TAAAATAACCGAATTACCCCCACAGGGTAAAATGATAGAATTACCCCCACAGGGTAAAATGAC
*
15678902 CGAAATACCCC
128 CGAATTACCCC
15678913 TATAGGGTAA
Statistics
Matches: 251, Mismatches: 38, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
156 131 0.52
157 3 0.01
161 3 0.01
162 108 0.43
163 6 0.02
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (156 bp):
CCCCACAGAGTAAAATGACCGAATTACCCCCACAGGATAAAATGATCGAATTACCCCCAAAGGAT
AAAATAACCGAATTACCCCCACAGGGTAAAATGATAGAATTACCCCCACAGGGTAAAATGACCGA
ATTACCCCCACAGAGAAAAATTTACC
Found at i:15679295 original size:26 final size:27
Alignment explanation
Indices: 15679217--15679296 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 27
15679207 TTGCCACATG
* *
15679217 TACTG-TTATTGGTAGCTTTGATGCGA
1 TACTGATTATTGGCAGCTTTGCTGCGA
* * * *
15679243 TACTGA-TACTGGCAGCTGTACTACGA
1 TACTGATTATTGGCAGCTTTGCTGCGA
*
15679269 TGCT-ATTATTGGCAGCTTTGCTGCGA
1 TACTGATTATTGGCAGCTTTGCTGCGA
15679295 TA
1 TA
15679297 TTGGTGTGTT
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
25 1 0.03
26 39 0.98
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (27 bp):
TACTGATTATTGGCAGCTTTGCTGCGA
Found at i:15679442 original size:28 final size:28
Alignment explanation
Indices: 15679398--15679519 Score: 156
Period size: 28 Copynumber: 4.4 Consensus size: 28
15679388 TATTGCACTG
* * *
15679398 CACTGTTTCTGTATTGGGCTAAGCCCCA
1 CACTGTTACTATATTGGGCTAAGGCCCA
* *
15679426 CACTGTTACTATTTTGGGCTAAGGTCCA
1 CACTGTTACTATATTGGGCTAAGGCCCA
15679454 CACTGTTACTATATTGGGCTAAGGCCCA
1 CACTGTTACTATATTGGGCTAAGGCCCA
* * * *
15679482 TATTATTACTATATCGGGCTAAGGCCCA
1 CACTGTTACTATATTGGGCTAAGGCCCA
15679510 CACTG-TACTA
1 CACTGTTACTA
15679520 CTACTGAATA
Statistics
Matches: 80, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 5 0.06
28 75 0.94
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (28 bp):
CACTGTTACTATATTGGGCTAAGGCCCA
Found at i:15679491 original size:56 final size:56
Alignment explanation
Indices: 15679398--15679552 Score: 166
Period size: 56 Copynumber: 2.7 Consensus size: 56
15679388 TATTGCACTG
* * * * * * * *
15679398 CACTGTTTCTGTATTGGGCTAAGCCCCACACTGTTACTATTTTGGGCTAAGGTCCA
1 CACTGTTACTATATTGGGCTAAGGCCCATACTATTACTATATCGGGCTAAGGCCCA
*
15679454 CACTGTTACTATATTGGGCTAAGGCCCATATTATTACTATATCGGGCTAAGGCCCA
1 CACTGTTACTATATTGGGCTAAGGCCCATACTATTACTATATCGGGCTAAGGCCCA
* * *
15679510 CACTGTACTACTACTGAATAGGCTCAGGCCCATACTATTACTA
1 CACTGT--TACTA-T-ATTGGGCTAAGGCCCATACTATTACTA
15679553 CATGTTGTAT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
56 53 0.65
58 5 0.06
59 1 0.01
60 23 0.28
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (56 bp):
CACTGTTACTATATTGGGCTAAGGCCCATACTATTACTATATCGGGCTAAGGCCCA
Found at i:15681313 original size:6 final size:6
Alignment explanation
Indices: 15681304--15681329 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15681294 ATAATAATAT
15681304 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
15681330 CTCAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:15685528 original size:6 final size:6
Alignment explanation
Indices: 15685519--15685544 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15685509 ATTATAATAT
15685519 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
15685545 CTCAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:15689413 original size:6 final size:6
Alignment explanation
Indices: 15689373--15689400 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15689363 ATTATAATAT
15689373 AATTTA AATTTA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATT
15689401 CAAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:15692761 original size:30 final size:31
Alignment explanation
Indices: 15692722--15692781 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
15692712 GGAGGTGAGA
*
15692722 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
15692753 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
15692782 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:15693008 original size:9 final size:9
Alignment explanation
Indices: 15692994--15693048 Score: 92
Period size: 9 Copynumber: 6.1 Consensus size: 9
15692984 TATAGTTTGA
15692994 TATTCGAAT
1 TATTCGAAT
15693003 TATTCGAAT
1 TATTCGAAT
*
15693012 TATTCGAGT
1 TATTCGAAT
15693021 TATTCGAAT
1 TATTCGAAT
*
15693030 TATTCGAGT
1 TATTCGAAT
15693039 TATTCGAAT
1 TATTCGAAT
15693048 T
1 T
15693049 CGAAAACTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15693118 original size:9 final size:9
Alignment explanation
Indices: 15693101--15693131 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15693091 TTGAGTTGAT
15693101 TCGAATAAC
1 TCGAATAAC
*
15693110 TCGATTAAC
1 TCGAATAAC
15693119 TCGAATAAC
1 TCGAATAAC
15693128 TCGA
1 TCGA
15693132 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:15694239 original size:40 final size:41
Alignment explanation
Indices: 15694194--15694274 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
15694184 GTAGCAGTTT
* * *
15694194 GGGCCTTAGCTCATCTCAGTA-CAGTATCAAATATGCAGTA
1 GGGCCTTAGCCCATCACAGTATCAGTAGCAAATATGCAGTA
* **
15694234 GGGCCTTTGCCCATCACAGTATCAGTAGCAGTTATGCAGTA
1 GGGCCTTAGCCCATCACAGTATCAGTAGCAAATATGCAGTA
15694275 TTCAGTAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 18 0.53
41 16 0.47
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (41 bp):
GGGCCTTAGCCCATCACAGTATCAGTAGCAAATATGCAGTA
Found at i:15695387 original size:22 final size:22
Alignment explanation
Indices: 15695325--15695387 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
15695315 ATTATATAGA
* * *
15695325 AAAATAATAACAAAGTAAAATTT
1 AAAATAATAATATA-TATAATTT
* * *
15695348 AAAAAAATAATGTGTATAATTT
1 AAAATAATAATATATATAATTT
15695370 AAAATAATAATATATATA
1 AAAATAATAATATATATA
15695388 GATGACATTT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 22 0.71
23 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAATAATAATATATATAATTT
Found at i:15695607 original size:20 final size:20
Alignment explanation
Indices: 15695584--15695622 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15695574 ATTAAGTTAA
15695584 TGATAAATT-TAAAATAATAT
1 TGATAAATTAT-AAATAATAT
15695604 TGATAAATTATAAATAATA
1 TGATAAATTATAAATAATA
15695623 ATGCATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TGATAAATTATAAATAATAT
Found at i:15695693 original size:23 final size:24
Alignment explanation
Indices: 15695665--15695718 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
15695655 TATATTAAAC
*
15695665 AATATTAA-TAATAAA-ACTAAAAT
1 AATATTAAGT-ATAAACACCAAAAT
*
15695688 AATATTAAGTTTAAACACCAAAAT
1 AATATTAAGTATAAACACCAAAAT
15695712 AATATTA
1 AATATTA
15695719 GATTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (24 bp):
AATATTAAGTATAAACACCAAAAT
Found at i:15698502 original size:31 final size:31
Alignment explanation
Indices: 15698466--15698528 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
15698456 ACTCCCCACG
*
15698466 TCTAATTTCTAATTATCTATCAAATTCTATA
1 TCTAATATCTAATTATCTATCAAATTCTATA
* *
15698497 TCTAATATCTAATTATCTATCACATTTTATA
1 TCTAATATCTAATTATCTATCAAATTCTATA
15698528 T
1 T
15698529 GCTTCAATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (31 bp):
TCTAATATCTAATTATCTATCAAATTCTATA
Found at i:15700588 original size:46 final size:44
Alignment explanation
Indices: 15700515--15700614 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 44
15700505 AATAATAACA
*
15700515 GATACACGGT-GGATTCAGCACACAGCAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGGATTCAGCACACAGCAACCA-CC-TTATAATCAAT
* *
15700561 GATATCCGGTGGGATT-AGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGTGGGATTCAGCACACAGCAACCACCTTATAATCAAT
15700605 GATACCGGTG
1 GATACCGGTG
15700615 CACATAGTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 6 0.12
44 13 0.27
45 2 0.04
46 22 0.45
47 6 0.12
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (44 bp):
GATACCGGTGGGATTCAGCACACAGCAACCACCTTATAATCAAT
Found at i:15708314 original size:84 final size:84
Alignment explanation
Indices: 15708175--15708341 Score: 196
Period size: 84 Copynumber: 2.0 Consensus size: 84
15708165 ACAATGCCAT
* * *
15708175 ATCCCAGATATGGTCTTACATGATATCACATATCAATGCCAATAGCCAGCTATGGTCTTACACGA
1 ATCCCAGACAAGGTCTTACACGATATCACATATCAATGCCAATAGCCAGCTATGGTCTTACACGA
** *
15708240 ATGTCATACCGATGCCAAC
66 ATCACATAACGATGCCAAC
* * * *
15708259 ATCCCAGACAAGGTCTTACACGA-ATCTCGTATCGATGCCAAT-GTCCCAGAC-ATGGTCTTTCA
1 ATCCCAGACAAGGTCTTACACGATATCACATATCAATGCCAATAG--CCAG-CTATGGTCTTACA
15708321 CGAATCACATAACGATGCCAA
63 CGAATCACATAACGATGCCAA
15708342 TGGCCCAGGC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
82 1 0.01
83 16 0.23
84 52 0.74
85 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (84 bp):
ATCCCAGACAAGGTCTTACACGATATCACATATCAATGCCAATAGCCAGCTATGGTCTTACACGA
ATCACATAACGATGCCAAC
Found at i:15708342 original size:42 final size:42
Alignment explanation
Indices: 15708168--15708373 Score: 177
Period size: 42 Copynumber: 4.9 Consensus size: 42
15708158 AACTCGCACA
* * * *
15708168 ATGCC-ATATCCCAGATATGGTCTTACATGATATCACATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-ATCACATATCG
** *
15708210 ATGCCAATAG--CCAG-CTATGGTCTTACACGAATGTCATACCG
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACACGAATCACATATCG
** * * *
15708251 ATGCCAACATCCCAGACAAGGTCTTACACGAATCTCGTATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCACATATCG
* *
15708293 ATGCCAATGTCCCAGACATGGTCTTTCACGAATCACATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAATCACATATCG
* * * * *
15708335 ATGCCAATGGCCCAGGCACGGTGTTTCACGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AATCACAT
15708374 CTCAGTATCC
Statistics
Matches: 133, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
41 14 0.11
42 108 0.81
43 11 0.08
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:15712949 original size:42 final size:42
Alignment explanation
Indices: 15712903--15713046 Score: 207
Period size: 42 Copynumber: 3.4 Consensus size: 42
15712893 ATAGCCAACT
* **
15712903 ATGGTCTTACACGAATTTCATACCGATGCCAACATCCCAGAC
1 ATGGTCTTACACGAATCTCATACCGATGCCAATGTCCCAGAC
* * *
15712945 ATGGTCTTACACGAATCTCGTATCGATGCCAATGTCCCATAC
1 ATGGTCTTACACGAATCTCATACCGATGCCAATGTCCCAGAC
* *
15712987 ATGGTCTTACACGAATCACATAGCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATACCGATGCCAATGTCCCAGAC
15713029 ATGGTCTTACACGTAATC
1 ATGGTCTTACACG-AATC
15713047 ACATCTTAGT
Statistics
Matches: 91, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 87 0.96
43 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATACCGATGCCAATGTCCCAGAC
Found at i:15715270 original size:16 final size:16
Alignment explanation
Indices: 15715249--15715283 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
15715239 TATCTTTGTT
15715249 TATTAAAAGATTGATA
1 TATTAAAAGATTGATA
15715265 TATTAAAAGATTGATA
1 TATTAAAAGATTGATA
15715281 TAT
1 TAT
15715284 ATAATATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (16 bp):
TATTAAAAGATTGATA
Found at i:15717639 original size:42 final size:42
Alignment explanation
Indices: 15717593--15717698 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
15717583 ATAGCCAACT
** *
15717593 ATGGTCTTACACAAATTTCATACCG-ATGCCAACATCCCAGAC
1 ATGGTCTTACACAAATCACATA-AGAATGCCAACATCCCAGAC
* * **
15717635 ATGGTCTTACACGAATCACGTAAGAATGCCAATGTCCCAGAC
1 ATGGTCTTACACAAATCACATAAGAATGCCAACATCCCAGAC
*
15717677 ATGGTCTTACACGTAATCACAT
1 ATGGTCTTACAC-AAATCACAT
15717699 CTCAGTATCC
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 45 0.85
43 7 0.13
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (42 bp):
ATGGTCTTACACAAATCACATAAGAATGCCAACATCCCAGAC
Found at i:15719367 original size:42 final size:42
Alignment explanation
Indices: 15719261--15719459 Score: 192
Period size: 42 Copynumber: 4.8 Consensus size: 42
15719251 ATAACTCGCA
* * *
15719261 CAATGCC-ATATCCCAGATATGGTCTTACATG-TTATCACATAT
1 CAATGCCAATATCCCAGACATGGTCTTACACGAATAT--CATAT
* * *
15719303 CAATGCCAATA-GCCA-ACTATGGTCTTAAACGAATTTCATAT
1 CAATGCCAATATCCCAGAC-ATGGTCTTACACGAATATCATAT
* * *
15719344 CAATGCCAACATCCCAGACATGGTCTGACACGAATATCGTAT
1 CAATGCCAATATCCCAGACATGGTCTTACACGAATATCATAT
* * * * *
15719386 CGATGCCAATGTCCCATACATGGTCTTACACGAATCA-CGTAA
1 CAATGCCAATATCCCAGACATGGTCTTACACGAAT-ATCATAT
*
15719428 CAATGCCAATTTCCCAGACATGGTCTTACACG
1 CAATGCCAATATCCCAGACATGGTCTTACACG
15719460 TAATCACATC
Statistics
Matches: 130, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
41 16 0.12
42 106 0.82
43 8 0.06
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (42 bp):
CAATGCCAATATCCCAGACATGGTCTTACACGAATATCATAT
Found at i:15724058 original size:42 final size:42
Alignment explanation
Indices: 15724012--15724155 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 42
15724002 ATAGCCAACT
* * *
15724012 ATGGTCTTACACGAATTTCATACCGCTGCCAACATCCTAGAC
1 ATGGTCTTACACGAATCTCATACCGATGCCAACATCCCAGAC
* * ** *
15724054 ATGGTCTTACACGAATCTCGTATCGATGCCAATGTCCCATAC
1 ATGGTCTTACACGAATCTCATACCGATGCCAACATCCCAGAC
* * * * **
15724096 ATGGTCTTACATGAATCACGTA-AGAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATACCG-ATGCCAACATCCCAGAC
15724138 ATGGTCTTACACGTAATC
1 ATGGTCTTACACG-AATC
15724156 ACATCTTAGT
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 82 0.94
43 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATACCGATGCCAACATCCCAGAC
Found at i:15728765 original size:6 final size:6
Alignment explanation
Indices: 15728722--15728754 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
15728712 TATTATAATA
15728722 TAAA-T TAAATT TAAATT TAAATT TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
15728755 ATATAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TAAATT
Found at i:15730213 original size:23 final size:23
Alignment explanation
Indices: 15730186--15730235 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
15730176 TAAAACCATA
15730186 ATTACTAAATTTAATGACAAATT
1 ATTACTAAATTTAATGACAAATT
*
15730209 ATTACTAAATTTAATGACCAATT
1 ATTACTAAATTTAATGACAAATT
15730232 ATTA
1 ATTA
15730236 ATTGAGTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTACTAAATTTAATGACAAATT
Found at i:15733623 original size:17 final size:17
Alignment explanation
Indices: 15733601--15733634 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15733591 AGAAACTATA
15733601 GTCAATTATCCAGAATC
1 GTCAATTATCCAGAATC
15733618 GTCAATTATCCAGAATC
1 GTCAATTATCCAGAATC
15733635 ACAATCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (17 bp):
GTCAATTATCCAGAATC
Found at i:15745348 original size:15 final size:15
Alignment explanation
Indices: 15745326--15745373 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
15745316 TATGGAAAAA
15745326 AAAGATGAACAAAT-
1 AAAGATGAACAAATG
15745340 AAGAGATGAACAAATG
1 AA-AGATGAACAAATG
*
15745356 AAAGATGAA-AATTG
1 AAAGATGAACAAATG
15745370 AAAG
1 AAAG
15745374 TTAATATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 10 0.32
15 19 0.61
16 2 0.06
ACGTcount: A:0.60, C:0.04, G:0.21, T:0.15
Consensus pattern (15 bp):
AAAGATGAACAAATG
Found at i:15746335 original size:20 final size:20
Alignment explanation
Indices: 15746280--15746335 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
15746270 GCAAAGTATC
*
15746280 AAATAAATAAAAATATGAAA
1 AAATAAATAAAAAAATGAAA
* *
15746300 ACATAAATCAACAAAAT-AAA
1 AAATAAAT-AAAAAAATGAAA
15746320 AAATAAATAAAGAAAA
1 AAATAAATAAA-AAAA
15746336 GAGAGCGCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.07
20 21 0.72
21 6 0.21
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAATAAAAAAATGAAA
Found at i:15746705 original size:23 final size:22
Alignment explanation
Indices: 15746658--15746703 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
15746648 AAATATTAGT
15746658 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
15746681 TAAAAAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
15746702 TA
1 TA
15746704 TATATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:15752302 original size:41 final size:41
Alignment explanation
Indices: 15752243--15752526 Score: 288
Period size: 41 Copynumber: 6.9 Consensus size: 41
15752233 TTCTTACCTT
*
15752243 TCGGGGCTTTAGTAGCGTTTTTAAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGTAGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
15752284 TAGGGGCTTTAGCAGCGTTTTTGAAAATGCGCCGCTAATGC
1 TCGGGGCTTTAGTAGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * *
15752325 TCGGGGATTTAGTGGCGTTTTTGGAAAAGCGCCGCTAATAC
1 TCGGGGCTTTAGTAGCGTTTTTGAAAAAGCGCCGCTAATGC
* * * ** * * *
15752366 TCTGTGTTTTAGCGGCGTTTTTTTAAAAAGCGTCGCTAAAGC
1 TCGGGGCTTTAGTAGCG-TTTTTGAAAAAGCGCCGCTAATGC
* * * *
15752408 TCAGGGTTTTAGTGGCGTTTTTGAAAAAGCGCCACTAATGC
1 TCGGGGCTTTAGTAGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
15752449 TCGGTGTTTTAAGTA-CGTTTTT-AAAAAGCGCCGCTAATGC
1 TCGGGGCTTT-AGTAGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
15752489 T-GGGTGCTTTAG-CGCCGTTTTTGAAAAAGTGCCGCTAA
1 TCGGG-GCTTTAGTAG-CGTTTTTGAAAAAGCGCCGCTAA
15752527 AAACATTTTA
Statistics
Matches: 202, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.02
40 29 0.14
41 133 0.66
42 36 0.18
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
TCGGGGCTTTAGTAGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:15752403 original size:124 final size:123
Alignment explanation
Indices: 15752260--15752527 Score: 317
Period size: 124 Copynumber: 2.2 Consensus size: 123
15752250 TTTAGTAGCG
* * *
15752260 TTTTTAAAAAAGCGCCGCTAATGCT-AGGGGCTTTAGCAGCGTTTTTGAAAATGCGCCGCTAATG
1 TTTTTAAAAAAGCGCCGCTAAAGCTCA-GGGCTTTAGCAGCGTTTTTGAAAAAGCGCCACTAATG
* * * * *
15752324 CTCGGGGATTT-AGTGGCGTTTTTGGAAAAGCGCCGCTAATACTCTGTGTTTTAGCGGCGT
65 CTCGGGGATTTAAGT-ACGTTTTT-AAAAAGCGCCGCTAATACTCGGTGCTTTAGCGCCGT
* * * **
15752384 TTTTTTAAAAAGCGTCGCTAAAGCTCAGGGTTTTAGTGGCGTTTTTGAAAAAGCGCCACTAATGC
1 TTTTTAAAAAAGCGCCGCTAAAGCTCAGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCACTAATGC
* * * *
15752449 TCGGTGTTTTAAGTACGTTTTTAAAAAGCGCCGCTAATGCTGGGTGCTTTAGCGCCG-
66 TCGGGGATTTAAGTACGTTTTTAAAAAGCGCCGCTAATACTCGGTGCTTTAGCGCCGT
* *
15752506 TTTTTGAAAAAGTGCCGCTAAA
1 TTTTTAAAAAAGCGCCGCTAAA
15752528 AACATTTTAT
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
122 19 0.16
123 29 0.24
124 70 0.57
125 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (123 bp):
TTTTTAAAAAAGCGCCGCTAAAGCTCAGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCACTAATGC
TCGGGGATTTAAGTACGTTTTTAAAAAGCGCCGCTAATACTCGGTGCTTTAGCGCCGT
Found at i:15752438 original size:83 final size:81
Alignment explanation
Indices: 15752250--15752526 Score: 308
Period size: 83 Copynumber: 3.4 Consensus size: 81
15752240 CTTTCGGGGC
* * * * * * *
15752250 TTTAGTAGCGTTTTTAAAAAAGCGCCGCTAATGCTAGGGGCTTTAGCAGCGTTTTTGAAAATGCG
1 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTGTTTTAGCAGCGTTTTTTAAAAAGCG
*
15752315 CCGCTAATGCTCGGGGA
66 CCGCTAATGCTC-GGGT
* * * *
15752332 TTTAGTGGCGTTTTTGGAAAAGCGCCGCTAATACTCTGTGTTTTAGCGGCGTTTTTTTAAAAAGC
1 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTGTTTTAGCAGCG-TTTTTTAAAAAGC
* *
15752397 GTCGCTAAAGCTCAGGGT
65 GCCGCTAATGCTC-GGGT
* *
15752415 TTTAGTGGCGTTTTTGAAAAAGCGCCACTAATGCTCGGTGTTTTAAGTA-CG-TTTTTAAAAAGC
1 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTGTTTT-AGCAGCGTTTTTTAAAAAGC
15752478 GCCGCTAATGCT-GGGT
65 GCCGCTAATGCTCGGGT
* * *
15752494 GCTTTAGCGCCGTTTTTGAAAAAGTGCCGCTAA
1 --TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAA
15752527 AAACATTTTA
Statistics
Matches: 164, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
79 4 0.02
81 49 0.30
82 42 0.26
83 67 0.41
84 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (81 bp):
TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGTGTTTTAGCAGCGTTTTTTAAAAAGCG
CCGCTAATGCTCGGGT
Found at i:15752894 original size:15 final size:15
Alignment explanation
Indices: 15752874--15752921 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
15752864 CTATTTTAAT
*
15752874 GTTTAGGGAGTATGG
1 GTTTAGGGATTATGG
15752889 GTTTAGGGATTA-GG
1 GTTTAGGGATTATGG
*
15752903 GATTAGGGATTAT-G
1 GTTTAGGGATTATGG
15752917 GTTTA
1 GTTTA
15752922 AGGGTCAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.38
Consensus pattern (15 bp):
GTTTAGGGATTATGG
Found at i:15752903 original size:7 final size:7
Alignment explanation
Indices: 15752876--15752914 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
15752866 ATTTTAATGT
15752876 TTAGGGA
1 TTAGGGA
* *
15752883 GTATGGGT
1 TTA-GGGA
15752891 TTAGGGA
1 TTAGGGA
15752898 TTAGGGA
1 TTAGGGA
15752905 TTAGGGA
1 TTAGGGA
15752912 TTA
1 TTA
15752915 TGGTTTAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (7 bp):
TTAGGGA
Found at i:15752964 original size:21 final size:21
Alignment explanation
Indices: 15752874--15752964 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 21
15752864 CTATTTTAAT
*
15752874 GTTTAGGGAGTATGGGTTTAGG
1 GTTTAGGG-GTAAGGGTTTAGG
* * * * *
15752896 GATTAGGGATTAGGGATTATG
1 GTTTAGGGGTAAGGGTTTAGG
* * *
15752917 GTTTAAGGGTCAA-GATTTAAG
1 GTTTAGGGGT-AAGGGTTTAGG
15752938 GTTTAGGGGTAAGGGTTTAGG
1 GTTTAGGGGTAAGGGTTTAGG
*
15752959 GGTTAG
1 GTTTAG
15752965 ACATTAAGGA
Statistics
Matches: 50, Mismatches: 17, Indels: 5
0.69 0.24 0.07
Matches are distributed among these distances:
20 2 0.04
21 40 0.80
22 8 0.16
ACGTcount: A:0.24, C:0.01, G:0.41, T:0.34
Consensus pattern (21 bp):
GTTTAGGGGTAAGGGTTTAGG
Found at i:15753215 original size:14 final size:14
Alignment explanation
Indices: 15753190--15753227 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
15753180 TAGGGAGTCT
*
15753190 GGATTTAGGGATTG
1 GGATTTAAGGATTG
15753204 TGG-TTTAAGGATTG
1 -GGATTTAAGGATTG
15753218 GGATTTAAGG
1 GGATTTAAGG
15753228 TTTAGGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (14 bp):
GGATTTAAGGATTG
Found at i:15753249 original size:15 final size:15
Alignment explanation
Indices: 15753226--15753276 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
15753216 TGGGATTTAA
* *
15753226 GGTTTAGGGGTTATG
1 GGTTAAGGGGTTAGG
*
15753241 GGTTAAGGGTTTAGG
1 GGTTAAGGGGTTAGG
**
15753256 GGTT-AGATGTTAGG
1 GGTTAAGGGGTTAGG
15753270 GGTTAAG
1 GGTTAAG
15753277 AGTTAGGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTAAGGGGTTAGG
Found at i:15753268 original size:14 final size:14
Alignment explanation
Indices: 15753235--15753284 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
15753225 AGGTTTAGGG
* *
15753235 GTTATGGGTTAAGG
1 GTTAGGGGTTAAGA
15753249 GTTTAGGGGTT-AGA
1 G-TTAGGGGTTAAGA
15753263 TGTTAGGGGTTAAGA
1 -GTTAGGGGTTAAGA
15753278 GTTAGGG
1 GTTAGGG
15753285 ATTTAGGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.34
Consensus pattern (14 bp):
GTTAGGGGTTAAGA
Found at i:15753290 original size:29 final size:30
Alignment explanation
Indices: 15753235--15753299 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
15753225 AGGTTTAGGG
* *
15753235 GTTATGGGTTAAGGGTTTAGGGGTTA-GAT
1 GTTAGGGGTTAAGAGTTTAGGGGTTAGGAT
*
15753264 GTTAGGGGTTAAGAG-TTAGGGATTTAGGAT
1 GTTAGGGGTTAAGAGTTTAGGG-GTTAGGAT
15753294 -TTAGGG
1 GTTAGGG
15753300 ATTCAGGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 6 0.19
29 22 0.71
30 3 0.10
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (30 bp):
GTTAGGGGTTAAGAGTTTAGGGGTTAGGAT
Found at i:15753775 original size:40 final size:40
Alignment explanation
Indices: 15753718--15753860 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 40
15753708 AAAATAAAAG
15753718 GCATTAGCGGCGC-TTTTAAAAAACGCCACTATAGATAGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATAGA
*
15753757 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATAGA
** * * * *
15753797 GCATTAGCGG-TTTTTCTTTAAAAATGCCGCTATAGATTGA
1 GCATTAGCGGCGCTTT-TTAAAAAACGCCACTATAGATAGA
* * *
15753837 GCTTTAGCAGCTCTATTTTAAAAA
1 GCATTAGCGGCGCT-TTTTAAAAA
15753861 CACCGTAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
39 16 0.18
40 63 0.71
41 8 0.09
42 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATAGA
Found at i:15758115 original size:43 final size:43
Alignment explanation
Indices: 15758067--15758165 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
15758057 AAAAGCATGT
* **
15758067 TTTAGCGGCGTTTGTGGCAAAAGCGCCGTTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGGTAAAGACCATGATC
* *
15758110 TTTAGCGGCGTTTGTGTCAGAAGCGCCGGTAAAGACCATGATC
1 TTTAGCGGCGTTTGTGGCAAAAGCGCCGGTAAAGACCATGATC
15758153 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
15758166 TTTCATATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGCAAAAGCGCCGGTAAAGACCATGATC
Found at i:15759801 original size:17 final size:18
Alignment explanation
Indices: 15759765--15759801 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15759755 TTTAAATTTA
*
15759765 AATTCAAAATTTAAATGC
1 AATTAAAAATTTAAATGC
15759783 AATTAAAAATTTAAA-GC
1 AATTAAAAATTTAAATGC
15759800 AA
1 AA
15759802 CAATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTAAAAATTTAAATGC
Found at i:15761174 original size:23 final size:23
Alignment explanation
Indices: 15761146--15761236 Score: 100
Period size: 23 Copynumber: 4.1 Consensus size: 23
15761136 TGTGTAACCT
15761146 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
15761169 TTCATA---ATGT-GCGTAACTT
1 TTCATATTCAAGTCTCTTCACTC
*
15761188 TTCATCTTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
15761211 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
15761234 TTC
1 TTC
15761237 TAACTTTTCA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
19 10 0.19
20 3 0.06
22 3 0.06
23 36 0.69
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.44
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:15761191 original size:42 final size:42
Alignment explanation
Indices: 15761133--15761216 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
15761123 CTATTCATGC
*
15761133 ATGTGTGTAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
1 ATGTGCGTAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
* *
15761175 ATGTGCGTAACTTTTCATCTTCAAGTCTCTTCACTCTTCATA
1 ATGTGCGTAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
15761217 TTCAAGTCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.43
Consensus pattern (42 bp):
ATGTGCGTAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
Found at i:15765645 original size:23 final size:23
Alignment explanation
Indices: 15765617--15765707 Score: 82
Period size: 23 Copynumber: 4.1 Consensus size: 23
15765607 TGTGTAACCT
15765617 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * *** *
15765640 TTCATA---ATGTGT-GAAACTT
1 TTCATATTCAAGTCTCTTCACTC
* *
15765659 TTCATCTTCAAGTCTCTTCACTT
1 TTCATATTCAAGTCTCTTCACTC
15765682 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
15765705 TTC
1 TTC
15765708 TAACGTTTCA
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
19 8 0.16
20 4 0.08
22 4 0.08
23 34 0.68
ACGTcount: A:0.22, C:0.26, G:0.07, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:15765662 original size:42 final size:42
Alignment explanation
Indices: 15765604--15765687 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
15765594 CTATTCATGC
*
15765604 ATGTGTGTAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGAAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
* * *
15765646 ATGTGTGAAACTTTTCATCTTCAAGTCTCTTCACTTTTCATA
1 ATGTGTGAAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
15765688 TTCAAGTCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.44
Consensus pattern (42 bp):
ATGTGTGAAACCTTTCATATTCAAGTCTCTTCACTCTTCATA
Found at i:15766291 original size:71 final size:71
Alignment explanation
Indices: 15766173--15766316 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
15766163 GTCTCCTTAC
*
15766173 ACCTGCTTTTGCCAGAGCATCAACCATACCATTATCTTGCCAGTGAATAAATGTGAATTGAACTC
1 ACCTGCTTTTGCCAGAGCATCAACCATACCATTATCTTGCCAATGAATAAATGTGAATTGAACTC
15766238 GAACTA
66 GAACTA
15766244 ACCTGCTTTTGCCAGAGCATCAACCATACCATTATCTTGCCAATGAATAAATGTGAATTGAACTC
1 ACCTGCTTTTGCCAGAGCATCAACCATACCATTATCTTGCCAATGAATAAATGTGAATTGAACTC
15766309 GAACTA
66 GAACTA
15766315 AC
1 AC
15766317 GAGTAAATGA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (71 bp):
ACCTGCTTTTGCCAGAGCATCAACCATACCATTATCTTGCCAATGAATAAATGTGAATTGAACTC
GAACTA
Found at i:15767439 original size:4 final size:4
Alignment explanation
Indices: 15767430--15767487 Score: 116
Period size: 4 Copynumber: 14.5 Consensus size: 4
15767420 GCCATGAGGT
15767430 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
15767478 ATAC ATAC AT
1 ATAC ATAC AT
15767488 TTTACCTGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:15770540 original size:29 final size:29
Alignment explanation
Indices: 15770506--15770564 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
15770496 AGAAGAAACC
15770506 TAACAAAAAGATAGGCAATTTGAAATGTT
1 TAACAAAAAGATAGGCAATTTGAAATGTT
15770535 TAACAAAAAGATAGGCAATTTGAAATGTT
1 TAACAAAAAGATAGGCAATTTGAAATGTT
15770564 T
1 T
15770565 TCTTTGTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (29 bp):
TAACAAAAAGATAGGCAATTTGAAATGTT
Found at i:15771933 original size:13 final size:13
Alignment explanation
Indices: 15771915--15771939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15771905 TAGATTGGAT
15771915 TTGATTATGTAAA
1 TTGATTATGTAAA
15771928 TTGATTATGTAA
1 TTGATTATGTAA
15771940 TCTTGTAAAT
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:15777260 original size:268 final size:267
Alignment explanation
Indices: 15776778--15777276 Score: 835
Period size: 268 Copynumber: 1.9 Consensus size: 267
15776768 CTGAAAAGTT
*
15776778 ACTATTGGGGGTGAGCTTATGAAAAGCTCAGTGTGAGTCGAATAATTATTTAAACGGGAAAAAAA
1 ACTATTGGGGGTGAGCTTATGAAAAGCTCAGTGTGAGTCGAATAATCATTTAAACGGGAAAAAAA
* *
15776843 CATTAAATACAGTGAAACATATTAGTATTAACAGAAGAAAACAGAACCATCATAGGAATTTCATG
66 CATTAAATACAGTGAAACATATTAGCATTAACAGAAGAAAACAGAACCAACATAGGAATTTCATG
* * *
15776908 TCATTACATAGCCATTATCAAATTGATGTCAAACGGTGTATGAGTATAGGTCATCATTCATTTGA
131 TCATTACATAGCCATGATCAAATTGATGTCAAACGGTGTATGAGCATAGGTCATCATTCATTCGA
15776973 GTAACAATCATTAATTTCGATACCATTCAAA-ACAANCCGATTCTAATTTTGAGGTTTGCTTGAA
196 GTAACAATCATTAATTTCGATACCATT-AAATACAA-CCGATTCTAATTTTGAGGTTTGCTTGAA
15777037 AAGCTAAAC
259 AAGCTAAAC
* *
15777046 ACTATTTGGGGGTGAGCTTATGAAAAGCTC-GATGTGAGTCGAATAATCATTTAAATGGG-CAAA
1 ACTA-TTGGGGGTGAGCTTATGAAAAGCTCAG-TGTGAGTCGAATAATCATTTAAACGGGAAAAA
* *
15777109 AAC-TTCAAATACAGTGAAATATATTAGCATTAACAGAAGAAAAGAGAACCAACATAGGAATTTC
64 AACATT-AAATACAGTGAAACATATTAGCATTAACAGAAGAAAACAGAACCAACATAGGAATTTC
15777173 ATGTCATTACATAGCCATGATCAAATTGATGTCAAACGGTGTATGAGCATAGGTCATCATTCATT
128 ATGTCATTACATAGCCATGATCAAATTGATGTCAAACGGTGTATGAGCATAGGTCATCATTCATT
15777238 CGAGTAACAATCATTAATTTCGATACCATTAAATACAAC
193 CGAGTAACAATCATTAATTTCGATACCATTAAATACAAC
15777277 AAAATACAAT
Statistics
Matches: 217, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
267 6 0.03
268 161 0.74
269 50 0.23
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (267 bp):
ACTATTGGGGGTGAGCTTATGAAAAGCTCAGTGTGAGTCGAATAATCATTTAAACGGGAAAAAAA
CATTAAATACAGTGAAACATATTAGCATTAACAGAAGAAAACAGAACCAACATAGGAATTTCATG
TCATTACATAGCCATGATCAAATTGATGTCAAACGGTGTATGAGCATAGGTCATCATTCATTCGA
GTAACAATCATTAATTTCGATACCATTAAATACAACCGATTCTAATTTTGAGGTTTGCTTGAAAA
GCTAAAC
Found at i:15777674 original size:12 final size:11
Alignment explanation
Indices: 15777659--15777700 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
15777649 TTCTTTTTAT
15777659 TTTTATTTGTAC
1 TTTTATTTGT-C
*
15777671 TTTTATTTTTC
1 TTTTATTTGTC
15777682 TTGTTATTTGT-
1 TT-TTATTTGTC
15777693 TTTTATTT
1 TTTTATTT
15777701 TATTTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 6 0.22
11 5 0.19
12 16 0.59
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (11 bp):
TTTTATTTGTC
Found at i:15777679 original size:24 final size:22
Alignment explanation
Indices: 15777638--15777707 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 22
15777628 TAGTTTTGTG
* *
15777638 TTTTATTT-ATTTTCTTTTTAT
1 TTTTATTTGTTTTTATTTTTAT
*
15777659 TTTTATTTGTACTTTTATTTTTCT
1 TTTTATTTGT--TTTTATTTTTAT
*
15777683 TGTTATTTGTTTTTA-TTTTAT
1 TTTTATTTGTTTTTATTTTTAT
15777704 TTTT
1 TTTT
15777708 CAGAATTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
21 16 0.40
22 5 0.12
24 19 0.47
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (22 bp):
TTTTATTTGTTTTTATTTTTAT
Found at i:15779201 original size:2 final size:2
Alignment explanation
Indices: 15779194--15779229 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15779184 GAATTTACAA
15779194 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
15779230 CGCTTGTACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15791892 original size:25 final size:24
Alignment explanation
Indices: 15791864--15791911 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15791854 AGCTTCCTGG
15791864 TTAAAGGCTCTTTCT-GAGCTTCCCA
1 TTAAAGGCTC--TCTGGAGCTTCCCA
*
15791889 TTAATGGCTCTCTGGAGCTTCCC
1 TTAAAGGCTCTCTGGAGCTTCCC
15791912 GATATTGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 9 0.43
25 9 0.43
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (24 bp):
TTAAAGGCTCTCTGGAGCTTCCCA
Found at i:15791920 original size:24 final size:24
Alignment explanation
Indices: 15791879--15791960 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
15791869 GGCTCTTTCT
*
15791879 GAGCTTCCC-ATTAATGGCTCTCTG
1 GAGCTTCCCGA-TATTGGCTCTCTG
*
15791903 GAGCTTCCCGATATTGGCTCGCTTG
1 GAGCTTCCCGATATTGGCTCTC-TG
* * * *
15791928 TACCTTCCCGACATTGGCTCGTAT-
1 GAGCTTCCCGATATTGGCTC-TCTG
15791952 GAGCTTCCC
1 GAGCTTCCC
15791961 ATTAAAGGCT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 25 0.54
25 21 0.46
ACGTcount: A:0.15, C:0.32, G:0.22, T:0.32
Consensus pattern (24 bp):
GAGCTTCCCGATATTGGCTCTCTG
Found at i:15804253 original size:3 final size:3
Alignment explanation
Indices: 15804245--15804293 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
15804235 GGGGCTCAAG
15804245 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15804293 A
1 A
15804294 CATCAATTAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15804562 original size:23 final size:24
Alignment explanation
Indices: 15804535--15804594 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
15804525 TTTAATGCTC
**
15804535 ACGAATATGTTCATTTAAC-TTAA
1 ACGAATATGTTCATCAAACATTAA
* *
15804558 TCGAACATGTTCA-CAAACATTAA
1 ACGAATATGTTCATCAAACATTAA
15804581 ACGAATATGTTCAT
1 ACGAATATGTTCAT
15804595 GAACATATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 3 0.10
23 26 0.90
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (24 bp):
ACGAATATGTTCATCAAACATTAA
Found at i:15804616 original size:24 final size:23
Alignment explanation
Indices: 15804554--15804623 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
15804544 TTCATTTAAC
*
15804554 TTAATCGAACATGTTCACAAACA
1 TTAATCGAACATGTTCACGAACA
* * *
15804577 TTAAACGAATATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
*
15804600 TATAATTGAACATGTTCACGAACA
1 T-TAATCGAACATGTTCACGAACA
15804624 ATGTTAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:15811432 original size:21 final size:21
Alignment explanation
Indices: 15811393--15811432 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15811383 TCATTTTCTA
*
15811393 TTAACTTTTTTATTCTTAAGG
1 TTAACTTTTTTATTATTAAGG
15811414 TTAACTTTTTT-TCTATTAA
1 TTAACTTTTTTAT-TATTAA
15811433 TTTTGTCGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.25, C:0.10, G:0.05, T:0.60
Consensus pattern (21 bp):
TTAACTTTTTTATTATTAAGG
Found at i:15815597 original size:31 final size:29
Alignment explanation
Indices: 15815536--15815599 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
15815526 ATAACGTAAA
* *
15815536 TGACTAAAACGTAACATTTCAAACATAAG
1 TGACTAAAACGTAACATGTCAAACAAAAG
15815565 TGACTAAAACGTAACCTAATGT-AAACAAAAG
1 TGACTAAAACGTAA-C--ATGTCAAACAAAAG
15815596 TGAC
1 TGAC
15815600 CATAGGTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 14 0.47
30 1 0.03
31 12 0.40
32 3 0.10
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.22
Consensus pattern (29 bp):
TGACTAAAACGTAACATGTCAAACAAAAG
Found at i:15815906 original size:22 final size:23
Alignment explanation
Indices: 15815872--15815914 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15815862 CATAGCATCA
* *
15815872 AATTTTAATAAAATT-TAAATTT
1 AATTATAAAAAAATTATAAATTT
15815894 AATTATAAAAAAATTATAAAT
1 AATTATAAAAAAATTATAAAT
15815915 ACTAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTATAAAAAAATTATAAATTT
Found at i:15826911 original size:24 final size:24
Alignment explanation
Indices: 15826884--15826935 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15826874 TTAGTAAGTC
*
15826884 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15826908 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15826932 AAAT
1 AAAT
15826936 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:15831240 original size:41 final size:42
Alignment explanation
Indices: 15831164--15831244 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 42
15831154 AATTTTAAAA
* *
15831164 ATAATTATAATTTAATTTAGAATTATTAGTTAAAAAATTGTG
1 ATAATTATAATTTAATTTAGAATTATTAATAAAAAAATTGTG
* *
15831206 ATAATTATAA-TTAATTTATAATTCTTAATAAAAAAATTG
1 ATAATTATAATTTAATTTAGAATTATTAATAAAAAAATTG
15831245 ATGTAAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 25 0.71
42 10 0.29
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (42 bp):
ATAATTATAATTTAATTTAGAATTATTAATAAAAAAATTGTG
Found at i:15839060 original size:22 final size:22
Alignment explanation
Indices: 15839035--15839085 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
15839025 GTACAAATAT
* * *
15839035 AACAGCAAAATGGTAGCAAAAC
1 AACAGCAAAATAGCAACAAAAC
* *
15839057 AACAACAAGATAGCAACAAAAC
1 AACAGCAAAATAGCAACAAAAC
15839079 AACAGCA
1 AACAGCA
15839086 TGAAAAATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.59, C:0.22, G:0.14, T:0.06
Consensus pattern (22 bp):
AACAGCAAAATAGCAACAAAAC
Found at i:15849539 original size:15 final size:17
Alignment explanation
Indices: 15849519--15849558 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
15849509 AATAAATTAT
15849519 TAAAAAATTATAA-AAA
1 TAAAAAATTATAACAAA
*
15849535 TAAAAAATATTTAACAAA
1 TAAAAAAT-TATAACAAA
15849553 TAAAAA
1 TAAAAA
15849559 TTAGTTGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAAAAATTATAACAAA
Found at i:15849557 original size:17 final size:17
Alignment explanation
Indices: 15849519--15849559 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
15849509 AATAAATTAT
15849519 TAAAAA-ATTATAAAAA
1 TAAAAATATTATAAAAA
15849535 TAAAAAATATT-TAACAAA
1 T-AAAAATATTATAA-AAA
15849553 TAAAAAT
1 TAAAAAT
15849560 TAGTTGAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 14 0.64
18 7 0.32
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAAATATTATAAAAA
Found at i:15850267 original size:74 final size:74
Alignment explanation
Indices: 15850146--15850441 Score: 529
Period size: 74 Copynumber: 4.0 Consensus size: 74
15850136 CCCACTCCAT
*
15850146 ACAACTTCAAATTGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
1 ACAACTTCAAATCGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
15850211 AAAAGTAGA
66 AAAAGTAGA
15850220 ACAACTTCAAATCGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
1 ACAACTTCAAATCGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
15850285 AAAAGTAGA
66 AAAAGTAGA
15850294 ACAACTTCAAATCGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
1 ACAACTTCAAATCGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
*
15850359 AAAAGTAAA
66 AAAAGTAGA
* *
15850368 ACAACTTCAAATTGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAAAATTAGAAACCTG
1 ACAACTTCAAATCGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGC--AATTAAAAACCTG
*
15850433 TGAAAAGTA
64 TAAAAAGTA
15850442 AAAAAAAAAA
Statistics
Matches: 215, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
74 195 0.91
76 20 0.09
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (74 bp):
ACAACTTCAAATCGTATAAAAATATCATTGAAGGGTCAACTTTTGTTTGCAATTAAAAACCTGTA
AAAAGTAGA
Found at i:15850756 original size:27 final size:27
Alignment explanation
Indices: 15850718--15850772 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
15850708 TCTACACCAT
15850718 TGGAGTTAAAAGAAGAATCAAATTTTG
1 TGGAGTTAAAAGAAGAATCAAATTTTG
15850745 TGGAGTTAAAAGAAGAATCAAATTTTG
1 TGGAGTTAAAAGAAGAATCAAATTTTG
15850772 T
1 T
15850773 TAGGATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.31
Consensus pattern (27 bp):
TGGAGTTAAAAGAAGAATCAAATTTTG
Found at i:15850905 original size:22 final size:22
Alignment explanation
Indices: 15850879--15850923 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15850869 ATTTTAGAAT
15850879 AAGGTTTTTAAAACCTTATTAA
1 AAGGTTTTTAAAACCTTATTAA
*
15850901 AAGGTTTTTAAAACTTTATTAA
1 AAGGTTTTTAAAACCTTATTAA
15850923 A
1 A
15850924 CTCCATCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (22 bp):
AAGGTTTTTAAAACCTTATTAA
Found at i:15854841 original size:2 final size:2
Alignment explanation
Indices: 15854836--15854902 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
15854826 TTATATATAC
15854836 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
15854878 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
15854903 ATACCCTTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15857222 original size:47 final size:47
Alignment explanation
Indices: 15857168--15857260 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
15857158 AAAAAAGTTT
*
15857168 CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTTTGCAG
1 CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTATGCAG
15857215 CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTATGCA
1 CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTATGCA
15857261 AGTGTGCAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (47 bp):
CGTAATAAGTGCTTGATTACCATGCTATGTGTACTTTATGTATGCAG
Found at i:15859619 original size:22 final size:22
Alignment explanation
Indices: 15859566--15859621 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
15859556 TTTTTATAAA
15859566 TTTGAAGTTTAATATACTATTAT
1 TTTGAA-TTTAATATACTATTAT
*
15859589 TTTAAGAATTTAATCATTCTATT-T
1 TTT--GAATTTAAT-ATACTATTAT
15859613 TTTGAATTT
1 TTTGAATTT
15859622 TAAAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 6 0.21
23 3 0.10
24 10 0.34
25 10 0.34
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.55
Consensus pattern (22 bp):
TTTGAATTTAATATACTATTAT
Found at i:15877522 original size:45 final size:45
Alignment explanation
Indices: 15877194--15877516 Score: 529
Period size: 45 Copynumber: 7.2 Consensus size: 45
15877184 TCGGCCATGG
* * * *
15877194 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* *
15877239 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
15877284 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
15877329 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
15877374 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* *
15877419 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* * * * *
15877464 TGCTTCCTTAATTTGTTCCATAAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
15877509 TGCTTCCT
1 TGCTTCCT
15877517 TAATTTCATG
Statistics
Matches: 263, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 263 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:15887391 original size:45 final size:45
Alignment explanation
Indices: 15887327--15887761 Score: 789
Period size: 45 Copynumber: 9.7 Consensus size: 45
15887317 NNNNNNNNNN
**
15887327 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTAATC
1 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
15887372 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
15887417 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
15887462 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
15887507 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
15887552 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
*
15887597 AAATTCTTCCATGAATTATGCATGATGTTGGCCAAATGCTTCCTC
1 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
*
15887642 AAATTCTTCCATGAATTATGCATGATGTTGGCCAAATGCTTCCTC
1 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
*
15887687 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTT
1 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
* * **
15887732 AATTTGTTCCACAAATTATGCATGATGTTG
1 AAATTCTTCCATGAATTATGCATGATGTTG
15887762 TCCACCTCTT
Statistics
Matches: 381, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 381 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (45 bp):
AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
Found at i:15887896 original size:16 final size:16
Alignment explanation
Indices: 15887875--15887906 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15887865 CATTCTGCAT
15887875 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
15887891 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
15887907 AAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:15893404 original size:42 final size:39
Alignment explanation
Indices: 15893368--15893455 Score: 135
Period size: 38 Copynumber: 2.3 Consensus size: 39
15893358 GGAGTTGTAA
*
15893368 GTGACTATTCATCTACATCAC-TAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATAACTTAAATGCTATAGGAGTT
* *
15893406 GTGACTATTCATTTACATAACTTAAATGCTATAGAAG-T
1 GTGACTATTCATCTACATAACTTAAATGCTATAGGAGTT
15893444 GTGACTATTCAT
1 GTGACTATTCAT
15893456 GCATGTGTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 32 0.70
39 14 0.30
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (39 bp):
GTGACTATTCATCTACATAACTTAAATGCTATAGGAGTT
Found at i:15895899 original size:19 final size:19
Alignment explanation
Indices: 15895885--15895933 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
15895875 AATAATGAAT
*
15895885 AATATTAGTAATAATATAC
1 AATAATAGTAATAATATAC
*
15895904 AATAATAGTAATAATAAAC
1 AATAATAGTAATAATATAC
15895923 AAGTAATAGTA
1 AA-TAATAGTA
15895934 CCATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (19 bp):
AATAATAGTAATAATATAC
Found at i:15896549 original size:14 final size:14
Alignment explanation
Indices: 15896532--15896558 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15896522 GAATAGATGA
15896532 AAAAAAATAAAAAG
1 AAAAAAATAAAAAG
15896546 AAAAAAATAAAAA
1 AAAAAAATAAAAA
15896559 AAACGATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.00, G:0.04, T:0.07
Consensus pattern (14 bp):
AAAAAAATAAAAAG
Found at i:15896557 original size:23 final size:23
Alignment explanation
Indices: 15896508--15896561 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
15896498 ACAAAACAAC
* * *
15896508 AAAAAAAATCAAAAGAATAGATG
1 AAAAAAAATAAAAAGAAAAAATG
15896531 AAAAAAAATAAAAAGAAAAAAAT-
1 AAAAAAAATAAAAAG-AAAAAATG
15896554 AAAAAAAA
1 AAAAAAAA
15896562 CGATTCACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.09
Consensus pattern (23 bp):
AAAAAAAATAAAAAGAAAAAATG
Found at i:15903837 original size:50 final size:50
Alignment explanation
Indices: 15903777--15904337 Score: 346
Period size: 50 Copynumber: 11.2 Consensus size: 50
15903767 TCTGTAATCC
* * *
15903777 TCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCT
1 TCAATCTGTTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCT
* * *** * *
15903827 TCAATCTGTTCCATTGCACTG-CTAGGGAAGTAAGATCCGCTGTTGTAGCT
1 TCAATCTGTTCAATTGCAATGTC-AGGGAAACCAGATCCGCCGTCGTAGCT
* * * *
15903877 TCAATCTTTTTAATTGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCT
1 TCAATCTGTTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCT
*** * * * * *
15903927 TCAATCTGTTCCGCTGCACTGTTAAGGGAGTA--AGATCCGCCGTTGTGGCT
1 TCAATCTGTTCAATTGCAATG-TCAGGGA-AACCAGATCCGCCGTCGTAGCT
* * * * * *
15903977 TCAATCTTTTAAATTGCAATATCCGGGAAACTAGATCTGCCGTCGTAGCT
1 TCAATCTGTTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCT
* *** * * *** * * *
15904027 TCAATCCGTTCCGCTGCATTG-CTAAGGAAGTAAGATCTGCCGTTGTGGCT
1 TCAATCTGTTCAATTGCAATGTC-AGGGAAACCAGATCCGCCGTCGTAGCT
* * *
15904077 TCAATCTTTTAAATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCT
1 TCAATCTGTTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCT
* * * * * * * * *
15904127 TCAATTTATTCCACTGCACTGCTAAGGGAGTA--AGATCCGCCGTTGTGGCT
1 TCAATCTGTTCAATTGCAATG-TCAGGGA-AACCAGATCCGCCGTCGTAGCT
* * * *
15904177 TCAATCTTTTTAATTGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCT
1 TCAATCTGTTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCT
*** * * * * *
15904227 TCAATCTGTTCCGCTGCACTGTTAAGGGAGTA--AGATCCGCCGTTGTGGCT
1 TCAATCTGTTCAATTGCAATG-TCAGGGA-AACCAGATCCGCCGTCGTAGCT
* * * * * * **
15904277 TCAATCTTTTAAATTGCAATATCCGGAAAACTAGATCCATCGTCGTAGCT
1 TCAATCTGTTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCT
15904327 TCAATCTGTTC
1 TCAATCTGTTC
15904338 CGCTGCACTT
Statistics
Matches: 367, Mismatches: 128, Indels: 32
0.70 0.24 0.06
Matches are distributed among these distances:
48 3 0.01
49 16 0.04
50 327 0.89
51 18 0.05
52 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (50 bp):
TCAATCTGTTCAATTGCAATGTCAGGGAAACCAGATCCGCCGTCGTAGCT
Found at i:15903922 original size:100 final size:100
Alignment explanation
Indices: 15903791--15904387 Score: 935
Period size: 100 Copynumber: 6.0 Consensus size: 100
15903781 TTTGTTCAAC
* * **
15903791 TGCAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCATTGCACTGCT-AGGGA
1 TGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGG-
* * *
15903855 AGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAAT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
*
15903891 TGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGTTAAGGGA
1 TGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGGA
15903956 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
* * * * *
15903991 TGCAATATCCGGGAAACTAGATCTGCCGTCGTAGCTTCAATCCGTTCCGCTGCATTGCTAAGGAA
1 TGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGGA
*
15904056 GTAAGATCTGCCGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
* * * *
15904091 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATTTATTCCACTGCACTGCTAAGGGA
1 TGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGGA
*
15904156 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
*
15904191 TGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGTTAAGGGA
1 TGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGGA
15904256 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
* * ** *
15904291 TGCAATATCCGGAAAACTAGATCCATCGTCGTAGCTTCAATCTGTTCCGCTGCACTTGCTAAGGA
1 TGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCAC-TGCTAAGGG
*
15904356 AGTAAGATCCGCCGTTGTGGCTTTAATCTTTT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTT
15904388 TACTTTTCAA
Statistics
Matches: 456, Mismatches: 39, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
100 414 0.91
101 42 0.09
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (100 bp):
TGCAATATCCGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACTGCTAAGGGA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTAAAT
Found at i:15912465 original size:20 final size:20
Alignment explanation
Indices: 15912440--15912479 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
15912430 TAAAGGTCTT
15912440 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
15912460 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
15912480 ATGAGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:15916478 original size:19 final size:19
Alignment explanation
Indices: 15916464--15916512 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
15916454 AATAATGAAT
*
15916464 AATATTAGTAATAATATAC
1 AATAATAGTAATAATATAC
*
15916483 AATAATAGTAATAATAAAC
1 AATAATAGTAATAATATAC
15916502 AAGTAATAGTA
1 AA-TAATAGTA
15916513 CCATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (19 bp):
AATAATAGTAATAATATAC
Found at i:15920847 original size:42 final size:41
Alignment explanation
Indices: 15920801--15920893 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 41
15920791 CAACTCTTTA
15920801 TATAGGAATTGTAAGTGACTATTCATCTACAT-CTCTAAATGC
1 TATAGGAATTGT-AGTGACTATTCATCTACATACT-TAAATGC
* *
15920843 TATAGG-A--GTTGTGACTATTCATTTACATAACTTAAATGC
1 TATAGGAATTGTAGTGACTATTCATCTACAT-ACTTAAATGC
*
15920882 TATAGGAGTTGT
1 TATAGGAATTGT
15920894 GATTATTCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
38 17 0.40
39 15 0.35
40 2 0.05
41 1 0.02
42 8 0.19
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (41 bp):
TATAGGAATTGTAGTGACTATTCATCTACATACTTAAATGC
Found at i:15920890 original size:39 final size:38
Alignment explanation
Indices: 15920815--15920903 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 38
15920805 GGAATTGTAA
15920815 GTGACTATTCATCTACATCTCTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCTCTAAATGCTATAGGAGTT
*
15920853 GTGACTATTCATTTACATAACT-TAAATGCTATAGGAGTT
1 GTGACTATTCATCTACAT--CTCTAAATGCTATAGGAGTT
*
15920892 GTGATTATTCAT
1 GTGACTATTCAT
15920904 GCATGTGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 17 0.36
39 28 0.60
40 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (38 bp):
GTGACTATTCATCTACATCTCTAAATGCTATAGGAGTT
Found at i:15920958 original size:32 final size:32
Alignment explanation
Indices: 15920913--15920986 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
15920903 TGCATGTGTG
*
15920913 TAACTTTTTATATTCAAGTCTCTTCACATTAC
1 TAACTTTTCATATTCAAGTCTCTTCACATTAC
* *
15920945 TAACTCTTCATATTCAAGTCTCTTCACATTTC
1 TAACTTTTCATATTCAAGTCTCTTCACATTAC
15920977 TAACTTTTCA
1 TAACTTTTCA
15920987 AAATTTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.46
Consensus pattern (32 bp):
TAACTTTTCATATTCAAGTCTCTTCACATTAC
Found at i:15921765 original size:30 final size:30
Alignment explanation
Indices: 15921731--15921790 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15921721 GTTTCAGTGA
15921731 CAGTTTACTGTGAGCACTGCTGAGTGCCAC
1 CAGTTTACTGTGAGCACTGCTGAGTGCCAC
15921761 CAGTTTACTGTGAGCACTGCTGAGTGCCAC
1 CAGTTTACTGTGAGCACTGCTGAGTGCCAC
15921791 TCAGCTCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (30 bp):
CAGTTTACTGTGAGCACTGCTGAGTGCCAC
Found at i:15928070 original size:23 final size:23
Alignment explanation
Indices: 15928044--15928088 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
15928034 TGTCATGAAG
*
15928044 GACTCTTGTAAACAGCAGACCAA
1 GACTCTTGTAAACAGAAGACCAA
15928067 GACTCTTGTAAACAGAAGACCA
1 GACTCTTGTAAACAGAAGACCA
15928089 TGCTCCCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (23 bp):
GACTCTTGTAAACAGAAGACCAA
Found at i:15930702 original size:114 final size:113
Alignment explanation
Indices: 15930495--15930950 Score: 428
Period size: 114 Copynumber: 4.0 Consensus size: 113
15930485 AGAATAAGAA
* * * * * *
15930495 TTAGCGGCGTTTTAT-AAAAAGTGCCGC-AAAAACCTAATCCGAACGACGTCGTTTGCCGAGCTT
1 TTAGCAGCGTTTT-TGAAAAAGCGCCACAAAAAACCTAATCCCAACGACGTCGTTTTCTGAGCTT
*
15930558 TCGAGGATTTAGCGGCGTTTCTA-ATAAAGCGCCGTTAATGCTCAGGGAT
65 TCGAGGATTTAGCGGCGTTTCTAGA-AAAGCGCCGCTAATGCTCAGGGAT
* * * *
15930607 TTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAGCCTAATCCCAACGACGCCGTTTTTCTGAGCTT
1 TTAGCAGCGTTTTTGAAAAAGCGCCACAAAAAACCTAATCCCAACGACGTCG-TTTTCTGAGCTT
* * * * * *
15930672 TCGAGTGA-TTAGTGGCGTTTTTA-ATTAAGCGCCGCTAATTCTTAGGGCT
65 TCGAG-GATTTAGCGGCGTTTCTAGA-AAAGCGCCGCTAATGCTCAGGGAT
* ** * *
15930721 TTAGCGGCGTTTTCAAAAAAGCGCCACAAAAAACCTAAGT-ACAACGACAG-CG-TTTCTGACCT
1 TTAGCAGCGTTTTTGAAAAAGCGCCACAAAAAACCTAA-TCCCAACGAC-GTCGTTTTCTGAGC-
* * * *
15930783 TTTCGAGAATTTAGCAGCATTTCTAGAGAAGCGCCGCTAATGCTCAGGGAT
63 TTTCGAGGATTTAGCGGCGTTTCTAGAAAAGCGCCGCTAATGCTCAGGGAT
* * ** * * *
15930834 TTAGTAGCGTTTTTGGAGTAGCGCCACAAAAAAAACTAAGCCCAACGTCGTCGTTTTCT-ATGCT
1 TTAGCAGCGTTTTTGAAAAAGCGCCAC-AAAAAACCTAATCCCAACGACGTCGTTTTCTGA-GCT
* *
15930898 TTC-AGGGATTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTAGGGAT
64 TTCGA-GGATTTAGCGGCGTTTCTAGAAAAGCGCCGCTAATGCTCAGGGAT
15930948 TTA
1 TTA
15930951 AAATAATTTA
Statistics
Matches: 279, Mismatches: 50, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
111 1 0.00
112 31 0.11
113 81 0.29
114 156 0.56
115 10 0.04
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (113 bp):
TTAGCAGCGTTTTTGAAAAAGCGCCACAAAAAACCTAATCCCAACGACGTCGTTTTCTGAGCTTT
CGAGGATTTAGCGGCGTTTCTAGAAAAGCGCCGCTAATGCTCAGGGAT
Found at i:15930918 original size:227 final size:226
Alignment explanation
Indices: 15930495--15930950 Score: 536
Period size: 227 Copynumber: 2.0 Consensus size: 226
15930485 AGAATAAGAA
* * * *
15930495 TTAGCGGCGTTTTATAAAAAGTGCCGCAAAAACCTAATCCGAACGACGTCGTTTGCCGAGCTTTC
1 TTAGCGGCGTTTTATAAAAAGCGCCACAAAAACCTAATACGAACGACGTCGTTTGCCGACCTTTC
* * * *
15930560 GAGGATTTAGCGGCGTTTCTAATAAAGCGCCGTTAATGCTCAGGGATTTAGCAGCGTTTTTGAGA
66 GAGAATTTAGCAGCATTTCTAATAAAGCGCCGCTAATGCTCAGGGATTTAGCAGCGTTTTTGAGA
* ** * * *
15930625 AAGCGCCGCAAAAAGCCTAATCCCAACGACGCCGTTTTTCTGAGCTTTCGAGTGATTAGTGGCGT
131 AAGCGCCACAAAAAAACTAAGCCCAACGACGCCGTTTTTCTGAGCTTTCGAGGGATTAGCGGCGT
* * *
15930690 TTTTA-ATTAAGCGCCGCTAATTCTTAGGGCT
196 TTTTAGA-AAAGCGCCGCTAATGCTTAGGGAT
*
15930721 TTAGCGGCGTTTTCA-AAAAAGCGCCACAAAAAACCTAAGTAC-AACGACAG-CGTTT-CTGACC
1 TTAGCGGCGTTTT-ATAAAAAGCGCCAC-AAAAACCTAA-TACGAACGAC-GTCGTTTGCCGACC
* *
15930782 TTTTCGAGAATTTAGCAGCATTTCTAGA-GAAGCGCCGCTAATGCTCAGGGATTTAGTAGCGTTT
62 -TTTCGAGAATTTAGCAGCATTTCTA-ATAAAGCGCCGCTAATGCTCAGGGATTTAGCAGCGTTT
* * *
15930846 TTG-GAGTAGCGCCACAAAAAAAACTAAGCCCAACGTCGTCG-TTTTCT-ATGCTTTC-AGGGAT
125 TTGAGA-AAGCGCCAC-AAAAAAACTAAGCCCAACGACGCCGTTTTTCTGA-GCTTTCGAGGGA-
15930907 TTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTAGGGAT
186 TTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTAGGGAT
15930948 TTA
1 TTA
15930951 AAATAATTTA
Statistics
Matches: 196, Mismatches: 23, Indels: 21
0.82 0.10 0.09
Matches are distributed among these distances:
226 34 0.17
227 137 0.70
228 25 0.13
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (226 bp):
TTAGCGGCGTTTTATAAAAAGCGCCACAAAAACCTAATACGAACGACGTCGTTTGCCGACCTTTC
GAGAATTTAGCAGCATTTCTAATAAAGCGCCGCTAATGCTCAGGGATTTAGCAGCGTTTTTGAGA
AAGCGCCACAAAAAAACTAAGCCCAACGACGCCGTTTTTCTGAGCTTTCGAGGGATTAGCGGCGT
TTTTAGAAAAGCGCCGCTAATGCTTAGGGAT
Found at i:15933825 original size:21 final size:20
Alignment explanation
Indices: 15933801--15933852 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
15933791 TGGAAGCAAG
*
15933801 GGAAGCAGCGGCTGCAGCGA
1 GGAAGCAGAGGCTGCAGCGA
*
15933821 CGGAAGCGGAGGCTGCAGCGA
1 -GGAAGCAGAGGCTGCAGCGA
15933842 GAGAAGCAGAG
1 G-GAAGCAGAG
15933853 CAGAGCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.29, C:0.21, G:0.46, T:0.04
Consensus pattern (20 bp):
GGAAGCAGAGGCTGCAGCGA
Found at i:15934270 original size:42 final size:42
Alignment explanation
Indices: 15934177--15934455 Score: 445
Period size: 42 Copynumber: 6.7 Consensus size: 42
15934167 GTATAAAAGT
*
15934177 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AAAAAAC
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAC
*
15934218 GCCGCTAAAGACCGTGTTCTTTAGCGGCGCTTAGAAAAAAAC
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAC
*
15934260 GCCGCTAAAGACCATGTTTTTTAGCGGCGCTTAGAAAAAAAC
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAC
* *
15934302 GCTGCTAAAGACCGTGTTCTTTAGCGGCGCTTAG-AAAAAAC
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAC
* *
15934343 GCCGCTAAAGACCCTGTTCTTTAGCGGCGCTTAGAAATAAAC
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAC
* * *
15934385 GCCGTTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAAC
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAC
*
15934427 GCCGCTAAAGATCATGTTCTTTAGCGGCG
1 GCCGCTAAAGACCATGTTCTTTAGCGGCG
15934456 TTTTCTTCTA
Statistics
Matches: 218, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
41 71 0.33
42 147 0.67
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAAC
Found at i:15934340 original size:83 final size:84
Alignment explanation
Indices: 15934177--15934455 Score: 454
Period size: 83 Copynumber: 3.3 Consensus size: 84
15934167 GTATAAAAGT
*
15934177 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AAAAAACGCCGCTAAAGACCGTGTTCTTTA
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCGTGTTCTTTA
15934241 GCGGCGCTTAGAAAAAAAC
66 GCGGCGCTTAGAAAAAAAC
* *
15934260 GCCGCTAAAGACCATGTTTTTTAGCGGCGCTTAGAAAAAAACGCTGCTAAAGACCGTGTTCTTTA
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCGTGTTCTTTA
15934325 GCGGCGCTTAG-AAAAAAC
66 GCGGCGCTTAGAAAAAAAC
* * * * *
15934343 GCCGCTAAAGACCCTGTTCTTTAGCGGCGCTTAGAAATAAACGCCGTTAAAGAACATGTTCTTTA
1 GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCGTGTTCTTTA
*
15934408 GAGGCGCTTAGAAAAAAAC
66 GCGGCGCTTAGAAAAAAAC
*
15934427 GCCGCTAAAGATCATGTTCTTTAGCGGCG
1 GCCGCTAAAGACCATGTTCTTTAGCGGCG
15934456 TTTTCTTCTA
Statistics
Matches: 181, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
83 107 0.59
84 74 0.41
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (84 bp):
GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCGTGTTCTTTA
GCGGCGCTTAGAAAAAAAC
Found at i:15934402 original size:125 final size:125
Alignment explanation
Indices: 15934177--15934455 Score: 468
Period size: 125 Copynumber: 2.2 Consensus size: 125
15934167 GTATAAAAGT
*
15934177 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGACCGTGTTCTTTAG
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGACCCTGTTCTTTAG
* * *
15934242 CGGCGCTTAGAAAAAAACGCCGCTAAAGACCATGTTTTTTAGCGGCGCTTAGAAAAAAAC
66 CGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAAC
* * *
15934302 GCTGCTAAAGACCGTGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGACCCTGTTCTTTAG
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGACCCTGTTCTTTAG
* *
15934367 CGGCGCTTAGAAATAAACGCCGTTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAAC
66 CGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAAC
*
15934427 GCCGCTAAAGATCATGTTCTTTAGCGGCG
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG
15934456 TTTTCTTCTA
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 142 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (125 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGACCCTGTTCTTTAG
CGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAGAAAAAAAC
Found at i:15934559 original size:41 final size:42
Alignment explanation
Indices: 15934426--15934585 Score: 207
Period size: 42 Copynumber: 3.8 Consensus size: 42
15934416 TAGAAAAAAA
* *
15934426 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTCTTCTAAG
1 CGCCGCTAAAGATCCTGTTCTTTAGCGGCGTTTTTTTCTAAG
* * *
15934468 CGCCGCTAAAGAATAC-GGTCTTTAGCGGCGTTTTTTTCTTAG
1 CGCCGCTAAAG-ATCCTGTTCTTTAGCGGCGTTTTTTTCTAAG
* *
15934510 CGCTGCTAAAGACCCTGTTCTTTAGCGGC-TTTTTTTCTAAG
1 CGCCGCTAAAGATCCTGTTCTTTAGCGGCGTTTTTTTCTAAG
* * *
15934551 TGCCGCTAAAGAACTTGTTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGATCCTGTTCTTTAGCGGCGTTTTT
15934586 GTTTGTAAAC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
41 38 0.38
42 61 0.60
43 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (42 bp):
CGCCGCTAAAGATCCTGTTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:15934576 original size:83 final size:84
Alignment explanation
Indices: 15934430--15934585 Score: 235
Period size: 83 Copynumber: 1.9 Consensus size: 84
15934420 AAAAAACGCC
*
15934430 GCTAAAGATCATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCCGCTAAAGAATACGGTCTTTAGCG
1 GCTAAAGACCATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCCGCTAAAGAATACGGTCTTTAGCG
15934495 GCGTTTTTTTCTTAGCGCT
66 GCGTTTTTTTCTTAGCGCT
* * * * *
15934514 GCTAAAGACCCTGTTCTTTAGCGGC-TTTTTTTCTAAGTGCCGCTAAAGAACT-TGTTCTTTAGC
1 GCTAAAGACCATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCCGCTAAAGAA-TACGGTCTTTAGC
15934577 GGCGTTTTT
65 GGCGTTTTT
15934586 GTTTGTAAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
83 41 0.63
84 24 0.37
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (84 bp):
GCTAAAGACCATGTTCTTTAGCGGCGTTTTCTTCTAAGCGCCGCTAAAGAATACGGTCTTTAGCG
GCGTTTTTTTCTTAGCGCT
Found at i:15936459 original size:24 final size:22
Alignment explanation
Indices: 15936410--15936460 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
15936400 CATAAATAAT
* * *
15936410 ATTTATTATTTAAAAAATTGTC
1 ATTTATCATTTAAAAAATTATA
15936432 ATTTATCAGTTTAATAAAATTATA
1 ATTTATCA-TTTAA-AAAATTATA
15936456 ATTTA
1 ATTTA
15936461 AAAGTTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 5 0.21
24 12 0.50
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTTATCATTTAAAAAATTATA
Found at i:15937779 original size:34 final size:35
Alignment explanation
Indices: 15937735--15937801 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15937725 CAGTAAAATA
*
15937735 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
15937769 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
15937802 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:15940679 original size:31 final size:31
Alignment explanation
Indices: 15940644--15940702 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
15940634 ATGATCAGTG
*
15940644 AACTATTCAAAAAATTTTATTTATGTCACTA
1 AACTATTCAAAAAATTTTATTTAAGTCACTA
* **
15940675 AACTATTCGAAAGTTTTTATTTAAGTCA
1 AACTATTCAAAAAATTTTATTTAAGTCA
15940703 TTGGGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (31 bp):
AACTATTCAAAAAATTTTATTTAAGTCACTA
Found at i:15943350 original size:20 final size:20
Alignment explanation
Indices: 15943325--15943370 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
15943315 ATCAAGAGCT
*
15943325 CAAAACCATTAATAAAGTCC
1 CAAAACCAATAATAAAGTCC
15943345 CAAAACCAATAATAAAGTCC
1 CAAAACCAATAATAAAGTCC
15943365 CAAAAC
1 CAAAAC
15943371 TACTAACAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.54, C:0.26, G:0.04, T:0.15
Consensus pattern (20 bp):
CAAAACCAATAATAAAGTCC
Found at i:15947004 original size:41 final size:40
Alignment explanation
Indices: 15946941--15947017 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
15946931 GTTGAATGCA
* * *
15946941 ATAAATCATTCAAAGCACTAAAATGAATAATTAATTCAGT
1 ATAAATCATTAAAAGCACTAAAATAAACAATTAATTCAGT
* *
15946981 ATAACATCATTAAAAGTATTAAAATAAACAATTAATT
1 ATAA-ATCATTAAAAGCACTAAAATAAACAATTAATT
15947018 TAACTTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 4 0.13
41 27 0.87
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.31
Consensus pattern (40 bp):
ATAAATCATTAAAAGCACTAAAATAAACAATTAATTCAGT
Found at i:15951359 original size:31 final size:33
Alignment explanation
Indices: 15951308--15951370 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 33
15951298 ATATAATTTA
*
15951308 TTATTTTAATAAATTATTT-AATATT-TTAATT
1 TTATTTTAATAAAATATTTAAATATTCTTAATT
15951339 TTATTTTAATAATAAT-TTTAAATATTCTTAAT
1 TTATTTTAATAA-AATATTTAAATATTCTTAAT
15951371 ATATTATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 15 0.54
32 8 0.29
33 5 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (33 bp):
TTATTTTAATAAAATATTTAAATATTCTTAATT
Found at i:15961211 original size:12 final size:11
Alignment explanation
Indices: 15961193--15961222 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
15961183 AATTTTTAAA
15961193 TTTTATAAATT
1 TTTTATAAATT
15961204 TCTTTATAAATT
1 T-TTTATAAATT
15961216 TTTTATA
1 TTTTATA
15961223 TTTTTTTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTATAAATT
Found at i:15971822 original size:45 final size:44
Alignment explanation
Indices: 15971714--15971847 Score: 144
Period size: 45 Copynumber: 3.0 Consensus size: 44
15971704 CTACGTGTAT
* * *
15971714 CGAGTATCATTGATTGTAATGGTGGTTGCTATGTGCTGATTCCGC
1 CGAGTATCATTGATTATAAAGGT-GTTGCTATGTGCTGATTCCAC
* * *
15971759 CGGGTACCATTGATTATAAAGGTAGTTGCTATGTGCTGATTTCAC
1 CGAGTATCATTGATTATAAAGGT-GTTGCTATGTGCTGATTCCAC
* * * * *
15971804 CGAGTATCAATGACTATAAGGGTGGTGCTGTGTGCTGA-TCCAC
1 CGAGTATCATTGATTATAAAGGTGTTGCTATGTGCTGATTCCAC
15971847 C
1 C
15971848 ATGTATCTGT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
43 5 0.07
44 13 0.18
45 56 0.76
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (44 bp):
CGAGTATCATTGATTATAAAGGTGTTGCTATGTGCTGATTCCAC
Found at i:15976953 original size:41 final size:40
Alignment explanation
Indices: 15976905--15976981 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
15976895 ATTAAAGTTA
* * *
15976905 AATTAATTGTTTATTTTAATACTTTTAATGATATTATATTG
1 AATTAATTATTCATTTTAATACTTTGAATGAT-TTATATTG
* *
15976946 AATTAATTATTCATTTTAGTGCTTTGAATGATTTAT
1 AATTAATTATTCATTTTAATACTTTGAATGATTTAT
15976982 TGCATTCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 4 0.13
41 27 0.87
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (40 bp):
AATTAATTATTCATTTTAATACTTTGAATGATTTATATTG
Found at i:15986772 original size:139 final size:140
Alignment explanation
Indices: 15986498--15986774 Score: 448
Period size: 139 Copynumber: 2.0 Consensus size: 140
15986488 ACTGCAGTCT
* * *
15986498 ACATCCCACTATCTTTCTTTTGACATTATTTCCTTTGTTATTGCAAAATTCTTCCTTTTTATTTT
1 ACATCCCACTATCTTTCTTTTCACATTAGTTCCTTTGTTATTGCAAAATTCTTCCTTCTTATTTT
* * * *
15986563 TTTTGCAAATTTTCCATTCGATTACTACTAAAATTTCCTCCCTCTTCTGTGGTGAGTTTCTGTTT
66 TTTTGCAAATTTTCCATTCAATTACTACTAAAATTTCCTCCCTCTTCTCTGCTGAGTTTCTATTT
15986628 TGGTTTAATC
131 TGGTTTAATC
15986638 ACATCCCACTATCTTTCTTTTCACATTAGTTCCTTTGTTATTGCAAAATTCTTCCTTCTT-TTTT
1 ACATCCCACTATCTTTCTTTTCACATTAGTTCCTTTGTTATTGCAAAATTCTTCCTTCTTATTTT
** * *
15986702 TTTTGCATTTTTTCCATTCAATTGCTACTAAAATTTCTTCCCTCTTCTCTGCTGAGTTTCTATTT
66 TTTTGCAAATTTTCCATTCAATTACTACTAAAATTTCCTCCCTCTTCTCTGCTGAGTTTCTATTT
15986767 TGGTTTAA
131 TGGTTTAA
15986775 CCTCTCTTCC
Statistics
Matches: 126, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
139 69 0.55
140 57 0.45
ACGTcount: A:0.19, C:0.22, G:0.08, T:0.51
Consensus pattern (140 bp):
ACATCCCACTATCTTTCTTTTCACATTAGTTCCTTTGTTATTGCAAAATTCTTCCTTCTTATTTT
TTTTGCAAATTTTCCATTCAATTACTACTAAAATTTCCTCCCTCTTCTCTGCTGAGTTTCTATTT
TGGTTTAATC
Found at i:15989873 original size:15 final size:14
Alignment explanation
Indices: 15989850--15989908 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
15989840 TTAATTTTTT
*
15989850 TATAAATTTTAAAA
1 TATAAATTTAAAAA
15989864 TATGAAATTTAAAAA
1 TAT-AAATTTAAAAA
* *
15989879 AATTAATTTAAAAAAA
1 TATAAATTT--AAAAA
15989895 TATAAATTTTAAAA
1 TATAAA-TTTAAAA
15989909 GAAATTAAGC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 8 0.22
15 16 0.44
16 9 0.25
17 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TATAAATTTAAAAA
Found at i:15989886 original size:14 final size:14
Alignment explanation
Indices: 15989869--15989916 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 14
15989859 TAAAATATGA
15989869 AATTTAAAAAAATT
1 AATTTAAAAAAATT
15989883 AATTTAAAAAAATAT
1 AATTTAAAAAAAT-T
15989898 AAATTTTAAAAGAAATT
1 -AA-TTTAAAA-AAATT
15989915 AA
1 AA
15989917 GCTTTGAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 13 0.43
15 1 0.03
16 4 0.13
17 8 0.27
18 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
AATTTAAAAAAATT
Found at i:15989893 original size:16 final size:16
Alignment explanation
Indices: 15989874--15989916 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
15989864 TATGAAATTT
15989874 AAAAAAATTAATTTAA
1 AAAAAAATTAATTTAA
* * *
15989890 AAAAATATAAATTTTA
1 AAAAAAATTAATTTAA
*
15989906 AAAGAAATTAA
1 AAAAAAATTAA
15989917 GCTTTGAAAG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
AAAAAAATTAATTTAA
Found at i:15989997 original size:21 final size:21
Alignment explanation
Indices: 15989967--15990007 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
15989957 TCATTCCAAT
*
15989967 AAAAATAATTT-TTTTATTTA
1 AAAAATAATTTATTATATTTA
15989987 AAAAATGAATTTATTATATTT
1 AAAAAT-AATTTATTATATTT
15990008 TGTTGACGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AAAAATAATTTATTATATTTA
Found at i:15991616 original size:15 final size:16
Alignment explanation
Indices: 15991588--15991619 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15991578 TTAAATATGG
15991588 AAAATTATTTAAATTT
1 AAAATTATTTAAATTT
15991604 AAAATTA-TTAAATTT
1 AAAATTATTTAAATTT
15991619 A
1 A
15991620 TCGATTGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATTATTTAAATTT
Found at i:15993621 original size:3 final size:3
Alignment explanation
Indices: 15993613--15993641 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
15993603 CTCAAACATA
15993613 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
15993642 ACTTCCCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Done.