Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 107 of 189
Found at i:29873619 original size:24 final size:26
Alignment explanation
Indices: 29873591--29873641 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
29873581 CTTTAAAAAT
29873591 AATTTAGAA-ATA-TAAAATAATTAA
1 AATTTAGAAGATATTAAAATAATTAA
*
29873615 AATTTAGAAGGATATTAAATTAATTAA
1 AATTTAGAA-GATATTAAAATAATTAA
29873642 TTCACTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 9 0.39
26 3 0.13
27 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (26 bp):
AATTTAGAAGATATTAAAATAATTAA
Found at i:29889539 original size:28 final size:22
Alignment explanation
Indices: 29889485--29889531 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
29889475 ACATAATAAC
29889485 CATATCAAGGTCAAAATAAAGA
1 CATATCAAGGTCAAAATAAAGA
29889507 CATATCAAGGTCAAAATAAAGA
1 CATATCAAGGTCAAAATAAAGA
29889529 CAT
1 CAT
29889532 TCATATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.53, C:0.15, G:0.13, T:0.19
Consensus pattern (22 bp):
CATATCAAGGTCAAAATAAAGA
Found at i:29903711 original size:18 final size:19
Alignment explanation
Indices: 29903688--29903723 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
29903678 ACAAACTCTC
*
29903688 AAATAAATCCA-TAATTTA
1 AAATAAAACCATTAATTTA
29903706 AAATAAAACCATTAATTT
1 AAATAAAACCATTAATTT
29903724 CTAAGTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAAAACCATTAATTTA
Found at i:29920355 original size:45 final size:45
Alignment explanation
Indices: 29920306--29920400 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
29920296 TTGTGTACCT
* **
29920306 ACATCC-AGTGGAAAATTCCATCTGTAGGTTATTTGTTGTCT-ATCC
1 ACATCCAAG-GGAAAATTCCATCCG-AGGTTAAATGTTGTCTAATCC
* * *
29920351 ACATCCAAGGGCAGATTCCATCCGGGGTTAAATGTTGTCTAATCC
1 ACATCCAAGGGAAAATTCCATCCGAGGTTAAATGTTGTCTAATCC
29920396 ACATC
1 ACATC
29920401 TAGAGGCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 13 0.31
45 27 0.64
46 2 0.05
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
ACATCCAAGGGAAAATTCCATCCGAGGTTAAATGTTGTCTAATCC
Found at i:29924716 original size:20 final size:21
Alignment explanation
Indices: 29924680--29924720 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
29924670 TGGTGAAGGA
29924680 GAAGAGCGCCGCTGGATTATG
1 GAAGAGCGCCGCTGGATTATG
29924701 GAAGAGCGCC-CTGGATTATG
1 GAAGAGCGCCGCTGGATTATG
29924721 TCTAAAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.24, C:0.20, G:0.37, T:0.20
Consensus pattern (21 bp):
GAAGAGCGCCGCTGGATTATG
Found at i:29929935 original size:27 final size:26
Alignment explanation
Indices: 29929896--29930171 Score: 268
Period size: 27 Copynumber: 10.2 Consensus size: 26
29929886 ATTCATGGGC
*
29929896 AAATGACTGAAATACCCTTGACGGGTA
1 AAATGAC-GAAATACCCTTGAAGGGTA
* * * *
29929923 AAATTATCAAAATACCCTCGAAGGATA
1 AAATGA-CGAAATACCCTTGAAGGGTA
*
29929950 AAAAGACCGAAATACCCTTGAAGGGTA
1 AAATGA-CGAAATACCCTTGAAGGGTA
*
29929977 AAATGATCGAAATGCCCTTGAAGGGTA
1 AAATGA-CGAAATACCCTTGAAGGGTA
*
29930004 AAATGACTGAAATACCCCTGAAGGGTA
1 AAATGAC-GAAATACCCTTGAAGGGTA
*
29930031 AAATGACTGAAATACCCTTAAAGGGTA
1 AAATGAC-GAAATACCCTTGAAGGGTA
*
29930058 AAATGACCGAAATACCCCTGAAGGGTA
1 AAATGA-CGAAATACCCTTGAAGGGTA
* * * *
29930085 AAATAACTAAAATGCCCTCGAAGGGTA
1 AAATGAC-GAAATACCCTTGAAGGGTA
* *
29930112 AAATGACCGAAATACCAC-TAAAGGATA
1 AAATGA-CGAAATACC-CTTGAAGGGTA
* *
29930139 AAATAACAGAAATACCC-TCATAGGGTA
1 AAATGAC-GAAATACCCTTGA-AGGGTA
29930166 AAATGA
1 AAATGA
29930172 TTGTTATACC
Statistics
Matches: 206, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.03
27 196 0.95
28 4 0.02
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (26 bp):
AAATGACGAAATACCCTTGAAGGGTA
Found at i:29930000 original size:54 final size:55
Alignment explanation
Indices: 29929896--29930171 Score: 305
Period size: 54 Copynumber: 5.1 Consensus size: 55
29929886 ATTCATGGGC
* * * * *
29929896 AAATGACTGAAATACCCTTGACGGGTAAAATTATC-AAAATACCCTCGAAGGATA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTAAAATACCCTCGAAGGGTA
* * * * *
29929950 AAAAGACCGAAATACCCTTGAAGGGTAAAATGATC-GAAATGCCCTTGAAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTAAAATACCCTCGAAGGGTA
* * **
29930004 AAATGACTGAAATACCCCTGAAGGGTAAAATGA-CTGAAATACCCTTAAAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTAAAATACCCTCGAAGGGTA
* *
29930058 AAATGACCGAAATACCCCTGAAGGGTAAAAT-AACTAAAATGCCCTCGAAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTAAAATACCCTCGAAGGGTA
* * * *
29930112 AAATGACCGAAATACCACTAAAGGATAAAAT-AAC-AGAAATACCCTC-ATAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTA-AAATACCCTCGA-AGGGTA
29930166 AAATGA
1 AAATGA
29930172 TTGTTATACC
Statistics
Matches: 196, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
53 4 0.02
54 192 0.98
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (55 bp):
AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTAAAATACCCTCGAAGGGTA
Found at i:29930033 original size:81 final size:80
Alignment explanation
Indices: 29929896--29930169 Score: 322
Period size: 81 Copynumber: 3.4 Consensus size: 80
29929886 ATTCATGGGC
* * * *
29929896 AAATGACTGAAATACCCTTGACGGGTAAAATTA-TCAAAATACCCTCGAAGGATAAAAAGACCGA
1 AAATGAC-GAAATACCCTTGAAGGGTAAAATAACT-AAAATACCCTCGAAGGGTAAAATGACCGA
*
29929960 AATACCCTTGAAGGGTA
64 AATACCCTTAAAGGGTA
* * * *
29929977 AAATGATCGAAATGCCCTTGAAGGGTAAAATGACTGAAATACCC-CTGAAGGGTAAAATGACTGA
1 AAATGA-CGAAATACCCTTGAAGGGTAAAATAACTAAAATACCCTC-GAAGGGTAAAATGACCGA
29930041 AATACCCTTAAAGGGTA
64 AATACCCTTAAAGGGTA
* *
29930058 AAATGACCGAAATACCCCTGAAGGGTAAAATAACTAAAATGCCCTCGAAGGGTAAAATGACCGAA
1 AAATGA-CGAAATACCCTTGAAGGGTAAAATAACTAAAATACCCTCGAAGGGTAAAATGACCGAA
*
29930123 ATACCAC-TAAAGGATA
65 ATACC-CTTAAAGGGTA
* *
29930139 AAATAACAGAAATACCC-TCATAGGGTAAAAT
1 AAATGAC-GAAATACCCTTGA-AGGGTAAAAT
29930170 GATTGTTATA
Statistics
Matches: 168, Mismatches: 18, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
80 4 0.02
81 160 0.95
82 4 0.02
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (80 bp):
AAATGACGAAATACCCTTGAAGGGTAAAATAACTAAAATACCCTCGAAGGGTAAAATGACCGAAA
TACCCTTAAAGGGTA
Found at i:29930543 original size:28 final size:28
Alignment explanation
Indices: 29930501--29930592 Score: 112
Period size: 28 Copynumber: 3.2 Consensus size: 28
29930491 TTACTATATT
29930501 ACACTGATTACTGTATTGGGCTAAGGCCC
1 ACACT-ATTACTGTATTGGGCTAAGGCCC
*
29930530 TCACTATTACTGTATTGGGCTAAGGTCCAC
1 ACACTATTACTGTATTGGGCTAAGG-CC-C
* * * *
29930560 AAACTGTTACTATAATGGGCTAAGGCCC
1 ACACTATTACTGTATTGGGCTAAGGCCC
29930588 ACACT
1 ACACT
29930593 GTACTGATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
28 25 0.46
29 8 0.15
30 21 0.39
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (28 bp):
ACACTATTACTGTATTGGGCTAAGGCCC
Found at i:29943022 original size:50 final size:50
Alignment explanation
Indices: 29942947--29943188 Score: 324
Period size: 50 Copynumber: 4.8 Consensus size: 50
29942937 TTTCTGGTAC
* * * * * * *
29942947 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGA-ATCCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * * **
29942997 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
29943047 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
29943097 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
29943147 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
29943189 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
50 169 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:29946114 original size:27 final size:27
Alignment explanation
Indices: 29946079--29946355 Score: 313
Period size: 27 Copynumber: 10.3 Consensus size: 27
29946069 ATTCATGGGC
*
29946079 AAATGACCGAAATACCCTTGATGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* *
29946106 AAATAACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* *
29946133 AAATGATCGAAATGCCCTTGAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* * * *
29946160 AAATGACTGAAATACCCTTAAAAGGCA
1 AAATGACCGAAATACCCTTGAAGGGTA
* *
29946187 AAATGACCGAAATACCCCTAAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
*
29946214 AAATGATCGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
** * *
29946241 AAATGACTAAAATACCCCTAAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* * * *
29946268 AAATAATCGAAATGCCCTCGAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
*
29946295 AAATGACCGAAATACCCTTGAAAGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* * * *
29946322 AAATAACCAAAATA-CCTTCATAAGGTA
1 AAATGACCGAAATACCCTTGA-AGGGTA
29946349 AAATGAC
1 AAATGAC
29946356 TATTATACCC
Statistics
Matches: 207, Mismatches: 42, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 5 0.02
27 202 0.98
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTTGAAGGGTA
Found at i:29946214 original size:81 final size:81
Alignment explanation
Indices: 29946079--29946325 Score: 352
Period size: 81 Copynumber: 3.0 Consensus size: 81
29946069 ATTCATGGGC
* * *
29946079 AAATGACCGAAATACCCTTGATGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGATCGAA
1 AAATGACTGAAATACCCTTAAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGATCGAA
*
29946144 ATGCCCTTGAAGGGTA
66 ATACCCTTGAAGGGTA
* * * *
29946160 AAATGACTGAAATACCCTTAAAAGGCAAAATGACCGAAATACCC-CTAAAGGGTAAAATGATCGA
1 AAATGACTGAAATACCCTTAAAGGGTAAAATAACCGAAATACCCTC-GAAGGGTAAAATGATCGA
29946224 AATACCCTTGAAGGGTA
65 AATACCCTTGAAGGGTA
* * * * *
29946241 AAATGACTAAAATACCCCTAAAGGGTAAAATAATCGAAATGCCCTCGAAGGGTAAAATGACCGAA
1 AAATGACTGAAATACCCTTAAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGATCGAA
*
29946306 ATACCCTTGAAAGGTA
66 ATACCCTTGAAGGGTA
29946322 AAAT
1 AAAT
29946326 AACCAAAATA
Statistics
Matches: 146, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 144 0.99
82 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (81 bp):
AAATGACTGAAATACCCTTAAAGGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGATCGAA
ATACCCTTGAAGGGTA
Found at i:29946546 original size:27 final size:27
Alignment explanation
Indices: 29946501--29946573 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 27
29946491 ATAAGGAAAG
**
29946501 TATACTG-TACTGGTGGCTTTGCCACA
1 TATACTGTTACTGGCAGCTTTGCCACA
* *
29946527 TATACTGTTACTGGCAGCTTTGCTACG
1 TATACTGTTACTGGCAGCTTTGCCACA
* *
29946554 T-CACTATTACTGGCAGCTTT
1 TATACTGTTACTGGCAGCTTT
29946574 ACGGCGATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 24 0.60
27 16 0.40
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (27 bp):
TATACTGTTACTGGCAGCTTTGCCACA
Found at i:29946750 original size:30 final size:30
Alignment explanation
Indices: 29946684--29946773 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
29946674 TACTACATTG
*
29946684 CACTGATTACTGTATTGGACTAAGGCCC-C-
1 CACTG-TTACTGTATTGGGCTAAGGCCCACA
*
29946713 TACTGTTACTGTATTGGGCTAAGGCCCACA
1 CACTGTTACTGTATTGGGCTAAGGCCCACA
* * *
29946743 CACTGTTACTATAATGGGCTAAGGCCTACA
1 CACTGTTACTGTATTGGGCTAAGGCCCACA
29946773 C
1 C
29946774 TGTACTGATA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
28 21 0.40
29 5 0.09
30 27 0.51
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (30 bp):
CACTGTTACTGTATTGGGCTAAGGCCCACA
Found at i:29948554 original size:24 final size:24
Alignment explanation
Indices: 29948508--29948556 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
29948498 ACTTTTTCTA
* *
29948508 TAAATATAATAAATTATATTTATT
1 TAAATATAATAAAGTATAGTTATT
29948532 TAAATATTAATAAAGTA-AGTTATT
1 TAAATA-TAATAAAGTATAGTTATT
29948556 T
1 T
29948557 TCACATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
TAAATATAATAAAGTATAGTTATT
Found at i:29957680 original size:6 final size:6
Alignment explanation
Indices: 29957669--29957697 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
29957659 TTATATAATT
29957669 TATTTA TATTTA TATTTA TATTTA TATTT
1 TATTTA TATTTA TATTTA TATTTA TATTT
29957698 GTTCGCTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:29961830 original size:39 final size:38
Alignment explanation
Indices: 29961747--29962007 Score: 281
Period size: 39 Copynumber: 6.7 Consensus size: 38
29961737 TAGAAAAATT
* ** *
29961747 TTGTACTTCGGTACCCCTAAAAGCAC-TACGTGCCTCTG
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTGCC-CCG
*
29961785 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCG
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCG
* * **
29961823 ATTGTACTTCGATACCCCTGAACGCACTTACGTGCCTTTG
1 -TTGTACTTCGGTACCCCTGATCGCACTTACGTGCC-CCG
* * * *
29961863 TTGTACTTAGGTAGCCCTGAACGCACTTACGTGCCCCTA
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCC-G
*
29961902 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTG
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCC-G
* *
29961941 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCTTG
1 TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCC-CG
* * * *
29961980 TTGTACTTCAGTACTCTTGATAGCACTT
1 TTGTACTTCGGTACCCCTGATCGCACTT
29962008 TCATGCCATG
Statistics
Matches: 192, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
38 25 0.13
39 166 0.86
40 1 0.01
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (38 bp):
TTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCCG
Found at i:29961881 original size:78 final size:78
Alignment explanation
Indices: 29961747--29961993 Score: 345
Period size: 78 Copynumber: 3.2 Consensus size: 78
29961737 TAGAAAAATT
* *
29961747 TTGTACTTCGGTACCCCTAAAAGCAC-TACGTGCCTCTGTTGTACTTCGGTACCCCTGATCGCAC
1 TTGTACTTCGGTACCCCTGAACGCACTTACGTGCCTCTGTTGTACTTCGGTACCCCTGATCGCAC
29961811 TTATGTGCCCCGA
66 TTATGTGCCCCGA
* * * * *
29961824 TTGTACTTCGATACCCCTGAACGCACTTACGTGCCTTTGTTGTACTTAGGTAGCCCTGAACGCAC
1 TTGTACTTCGGTACCCCTGAACGCACTTACGTGCCTCTGTTGTACTTCGGTACCCCTGATCGCAC
* *
29961889 TTACGTGCCCCTA
66 TTATGTGCCCCGA
* * *
29961902 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTGTTGTACTTCGGTACCCCTGATCGCAC
1 TTGTACTTCGGTACCCCTGAACGCACTTACGTGCCTCTGTTGTACTTCGGTACCCCTGATCGCAC
*
29961967 TTATGTGCCCTTG-
66 TTATGTGCCC-CGA
*
29961980 TTGTACTTCAGTAC
1 TTGTACTTCGGTAC
29961994 TCTTGATAGC
Statistics
Matches: 147, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
77 23 0.16
78 124 0.84
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.32
Consensus pattern (78 bp):
TTGTACTTCGGTACCCCTGAACGCACTTACGTGCCTCTGTTGTACTTCGGTACCCCTGATCGCAC
TTATGTGCCCCGA
Found at i:29961981 original size:117 final size:116
Alignment explanation
Indices: 29961747--29961987 Score: 367
Period size: 117 Copynumber: 2.1 Consensus size: 116
29961737 TAGAAAAATT
* * *
29961747 TTGTACTTCGGTACCCCTAAAAGCACTACGTGCCTCTGTTGTACTTCGGTACCCCTGATCGCACT
1 TTGTACTTAGGTACCCCTAAAAGCACTACGTGCCCCTATTGTACTTCGGTACCCCTGATCGCACT
*
29961812 TATGTGCCCCGATTGTACTTCGATACCCCTGAACGCACTTACGTGCCTTTG
66 TATGTGCCCCGATTGTACTTCGATACCCCTGAACGCACTTACGTGCCCTTG
* * *
29961863 TTGTACTTAGGTAGCCCTGAACGCACTTACGTGCCCCTATTGTACTTCGGTACCCCTGATCGCAC
1 TTGTACTTAGGTACCCCTAAAAGCAC-TACGTGCCCCTATTGTACTTCGGTACCCCTGATCGCAC
* * *
29961928 TTATGTGCCCCTG-TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCTTG
65 TTATGTGCCCC-GATTGTACTTCGATACCCCTGAACGCACTTACGTGCCCTTG
29961980 TTGTACTT
1 TTGTACTT
29961988 CAGTACTCTT
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
116 22 0.19
117 90 0.80
118 1 0.01
ACGTcount: A:0.17, C:0.31, G:0.20, T:0.33
Consensus pattern (116 bp):
TTGTACTTAGGTACCCCTAAAAGCACTACGTGCCCCTATTGTACTTCGGTACCCCTGATCGCACT
TATGTGCCCCGATTGTACTTCGATACCCCTGAACGCACTTACGTGCCCTTG
Found at i:29961987 original size:19 final size:19
Alignment explanation
Indices: 29961887--29961987 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 19
29961877 CCCTGAACGC
* *
29961887 ACTTACGTGCCCCTATTGT
1 ACTTATGTGCCCCTGTTGT
** * * *
29961906 ACTTCGGTACCCCTGATCGC
1 ACTTATGTGCCCCTG-TTGT
29961926 ACTTATGTGCCCCTGTTGT
1 ACTTATGTGCCCCTGTTGT
** * * *
29961945 ACTTCGGTACCCCTGATCGC
1 ACTTATGTGCCCCTG-TTGT
*
29961965 ACTTATGTGCCCTTGTTGT
1 ACTTATGTGCCCCTGTTGT
29961984 ACTT
1 ACTT
29961988 CAGTACTCTT
Statistics
Matches: 58, Mismatches: 22, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
19 31 0.53
20 27 0.47
ACGTcount: A:0.14, C:0.32, G:0.19, T:0.36
Consensus pattern (19 bp):
ACTTATGTGCCCCTGTTGT
Found at i:29963854 original size:45 final size:45
Alignment explanation
Indices: 29963314--29963852 Score: 801
Period size: 45 Copynumber: 12.0 Consensus size: 45
29963304 GGCCCGGTTA
* *
29963314 AAGATAACAGATCTTGTCTTCCTGTATTAGCAGCGAAGTA-AGTCA
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-TCG
* * *
29963359 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
29963404 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
29963449 AAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
29963494 AAGATAGCAGATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
*
29963539 AAGATAACAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
29963584 AAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
*
29963629 AAGATAACAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
29963674 AAGATAGCAGATCTAGTCTTCCTATATTGGTAGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
29963719 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCA
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
29963764 AAGATAACATATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCA
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
29963809 AAGATAATAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATC
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
29963853 AATGATAGCA
Statistics
Matches: 456, Mismatches: 37, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
45 455 1.00
46 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
Found at i:29963927 original size:44 final size:44
Alignment explanation
Indices: 29963864--29963977 Score: 176
Period size: 44 Copynumber: 2.6 Consensus size: 44
29963854 ATGATAGCAG
29963864 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAATC-AA
* * *
29963908 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAATCAA
*
29963952 TCCTATCTCCCTGAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
29963978 GCGGATCAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 63 0.98
45 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAATCAA
Found at i:29964004 original size:44 final size:42
Alignment explanation
Indices: 29963868--29964026 Score: 142
Period size: 44 Copynumber: 3.6 Consensus size: 42
29963858 TAGCAGTCTT
* * * *
29963868 ATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAACAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAG--ATAGATCTC
* *
29963912 ATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGA-A-ATCAATCC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGATAGATC--T-C
*
29963955 TATCTCCCTGAAGTTGCAGTGGAGCGGATCAAAATGATAGATCTC
1 -ATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAA-GATAGATCTC
* * *
29964000 ATCTCTCTGAGGTTGCAGTAGAGCAGA
1 ATCTCCCTGAAGTTGCAGTGGAGCAGA
29964027 TCGTATCAGA
Statistics
Matches: 96, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 2 0.02
44 78 0.81
45 5 0.05
46 3 0.03
47 1 0.01
48 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (42 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGATAGATCTC
Found at i:29965415 original size:3 final size:3
Alignment explanation
Indices: 29965409--29965459 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
29965399 TCACTACTAC
* * *
29965409 TAT TAT TAT TAT TGT TAT T-T ATAT TAT TAT TAT AAT TAT CTAT CAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT
29965455 TAT TA
1 TAT TA
29965460 GCGTAAGTGC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 34 0.87
4 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:29965433 original size:21 final size:21
Alignment explanation
Indices: 29965409--29965459 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
29965399 TCACTACTAC
** *
29965409 TATTATTATTATTGTTATTTA
1 TATTATTATTATAATTATCTA
29965430 TATTATTATTATAATTATCTA
1 TATTATTATTATAATTATCTA
29965451 TCATTATTA
1 T-ATTATTA
29965460 GCGTAAGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTATTATTATAATTATCTA
Found at i:29968351 original size:36 final size:35
Alignment explanation
Indices: 29968260--29968354 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 35
29968250 ACTTTGATGT
*
29968260 GCTCGCAACTTAAGTGGAGCTCGCGTATTTGGGTGA
1 GCTCACAACTTAAGT-GAGCTCGCGTATTTGGGTGA
** ** *
29968296 GCTCACAACTTTTGATGAGCTCGCAG-ATTTGTTTTA
1 GCTCACAACTTAAG-TGAGCTCGC-GTATTTGGGTGA
29968332 GCTCACAACTTCAAGTGAGCTCG
1 GCTCACAACTT-AAGTGAGCTCG
29968355 TGGGTTTGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
36 45 0.94
37 3 0.06
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (35 bp):
GCTCACAACTTAAGTGAGCTCGCGTATTTGGGTGA
Found at i:29978022 original size:16 final size:17
Alignment explanation
Indices: 29977994--29978028 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
29977984 AATAAAATAA
29977994 TAATAATAATATAATTT
1 TAATAATAATATAATTT
29978011 TAATAA-AATATAATTT
1 TAATAATAATATAATTT
29978027 TA
1 TA
29978029 TATTTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAATAATAATATAATTT
Found at i:29978283 original size:17 final size:17
Alignment explanation
Indices: 29978260--29978301 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
29978250 AGAAAAAAAA
*
29978260 AAGAGAGAGAAAGGAGAAG
1 AAGAGA-AG-AAGAAGAAG
29978279 AAGAGAAGAAGAAGAAG
1 AAGAGAAGAAGAAGAAG
29978296 AA-AGAA
1 AAGAGAA
29978302 AGAAAAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 4 0.18
17 10 0.45
18 2 0.09
19 6 0.27
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AAGAGAAGAAGAAGAAG
Found at i:29978305 original size:14 final size:14
Alignment explanation
Indices: 29978260--29978301 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
29978250 AGAAAAAAAA
*
29978260 AAGAGAGAGAAAGGAG
1 AAGA-AGAG-AAGAAG
29978276 AAGAAGAGAAGAAG
1 AAGAAGAGAAGAAG
29978290 AAGAAGA-AAGAA
1 AAGAAGAGAAGAA
29978302 AGAAAAAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 4 0.16
16 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
AAGAAGAGAAGAAG
Found at i:29978488 original size:20 final size:20
Alignment explanation
Indices: 29978463--29978856 Score: 149
Period size: 27 Copynumber: 18.1 Consensus size: 20
29978453 TTTAGATTAG
*
29978463 AATTTTGTATGAATATTTTA
1 AATTTTGTATGAATATTGTA
*
29978483 AATTTTTTGTATGAATATTATA
1 AA--TTTTGTATGAATATTGTA
* *
29978505 ATTTTTTTATGAATATTGT-
1 AATTTTGTATGAATATTGTA
*
29978524 AATGTTGTATGAATATTGTA
1 AATTTTGTATGAATATTGTA
* *
29978544 ATTATTTTATAATTAA-ATTTGT-
1 A--ATTTTGT-ATGAATA-TTGTA
* * *
29978566 -ATTTATAGTTTTGGAT-TAGTA
1 AATTT-T-G-TATGAATATTGTA
*
29978587 ATTTTTGTATGAATATTGT-
1 AATTTTGTATGAATATTGTA
*
29978606 AATTTTGTATGAATATTATA
1 AATTTTGTATGAATATTGTA
29978626 AATTTTTGTATGAATATTGTAATA
1 AA-TTTTGTATGAATATTG---TA
*
29978650 TTATAGTTTTGTATGAATATTGCA
1 --A-A-TTTTGTATGAATATTGTA
*
29978674 ATTTTTTTGTATGAATATTGTAA
1 A--ATTTTGTATGAATATTGT-A
29978697 TTTTGTAATTTTGTATGAATATT-T-
1 ------AATTTTGTATGAATATTGTA
**
29978721 TTTTTTGTATGAATATTGTAATATTA
1 AATTTTGTATGAATATTG------TA
*
29978747 TAATTTTGTATGAATATTGCA
1 -AATTTTGTATGAATATTGTA
*
29978768 ATTTTTTTGTATGAATATTGTAA
1 A--ATTTTGTATGAATATTGT-A
*
29978791 TTTTGTAATTTTGTATGAATATTATA
1 ------AATTTTGTATGAATATTGTA
* *
29978817 ATTTTTTTATGAATATTGT-
1 AATTTTGTATGAATATTGTA
*
29978836 AATGTTGTATGAATATTGTA
1 AATTTTGTATGAATATTGTA
29978856 A
1 A
29978857 TATTATAATT
Statistics
Matches: 283, Mismatches: 42, Indels: 98
0.67 0.10 0.23
Matches are distributed among these distances:
18 15 0.05
19 58 0.20
20 46 0.16
21 19 0.07
22 61 0.22
23 11 0.04
24 3 0.01
25 1 0.00
26 3 0.01
27 64 0.23
29 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.55
Consensus pattern (20 bp):
AATTTTGTATGAATATTGTA
Found at i:29978606 original size:40 final size:42
Alignment explanation
Indices: 29978562--29978838 Score: 143
Period size: 49 Copynumber: 6.2 Consensus size: 42
29978552 ATAATTAAAT
29978562 TTGT-ATTTATAGTTTTG-GATTAGT-AATTTTTGTATGAATA
1 TTGTAATTTATAGTTTTGAGATTA-TAAATTTTTGTATGAATA
* *
29978602 TTGTAATTT-T-G-TATGAATATTATAAATTTTTGTATGAATA
1 TTGTAATTTATAGTTTTG-AGATTATAAATTTTTGTATGAATA
* *
29978642 TTGTAATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATA
1 TTGTAAT-TTATAGTTTTG-A-GATTA-T--AA-ATTTTTGTATGAATA
* * * ***
29978691 TTGTAATTTTGTAATTTTGTATGAATATTTTTTTTTGTATGAATA
1 TTGTAA-TTTATAGTTTTG-A-GATTATAAATTTTTGTATGAATA
* * *
29978736 TTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATA
1 TTGTAAT-TTATAGTTTTG-A-GATTA-T--AA-ATTTTTGTATGAATA
* * * *
29978785 TTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTATGAATA
1 TTGTAA-TTTATAGTTTTG-A-GATTA-TA-AATTTTTGTATGAATA
29978832 TTGTAAT
1 TTGTAAT
29978839 GTTGTATGAA
Statistics
Matches: 199, Mismatches: 17, Indels: 36
0.79 0.07 0.14
Matches are distributed among these distances:
38 3 0.02
39 2 0.01
40 32 0.16
41 6 0.03
42 1 0.01
43 1 0.01
44 5 0.03
45 42 0.21
46 3 0.02
47 20 0.10
48 4 0.02
49 78 0.39
50 2 0.01
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (42 bp):
TTGTAATTTATAGTTTTGAGATTATAAATTTTTGTATGAATA
Found at i:29978664 original size:27 final size:25
Alignment explanation
Indices: 29978656--29978933 Score: 187
Period size: 27 Copynumber: 11.8 Consensus size: 25
29978646 AATATTATAG
*
29978656 TTTTGTATGAATATTG-CA-ATT-T
1 TTTTGTATGAATATTGTAATATTAT
* *
29978678 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAA-TAT-TAT
29978705 TTTTGTATGAATA---T--T-TT-T
1 TTTTGTATGAATATTGTAATATTAT
29978723 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATTAT
*
29978748 AATTTTGTATGAATATTG-CA-ATT-T
1 --TTTTGTATGAATATTGTAATATTAT
* *
29978772 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAA-TAT-TAT
29978799 TTTTGTATGAATA-T-T-ATA--AT
1 TTTTGTATGAATATTGTAATATTAT
*
29978819 TTTTTTATGAATATTG---TA--A-
1 TTTTGTATGAATATTGTAATATTAT
*
29978838 TGTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATTAT
*
29978863 AATTTTGTATGAATATTG-CA-ATT-T
1 --TTTTGTATGAATATTGTAATATTAT
*
29978887 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATA-T-TAT
29978914 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
29978934 GTGGGGATAT
Statistics
Matches: 205, Mismatches: 17, Indels: 63
0.72 0.06 0.22
Matches are distributed among these distances:
18 13 0.06
19 15 0.07
20 17 0.08
21 3 0.01
22 50 0.24
23 5 0.02
24 8 0.04
25 11 0.05
26 6 0.03
27 77 0.38
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (25 bp):
TTTTGTATGAATATTGTAATATTAT
Found at i:29978709 original size:49 final size:49
Alignment explanation
Indices: 29978598--29978844 Score: 346
Period size: 49 Copynumber: 5.2 Consensus size: 49
29978588 TTTTTGTATG
* *
29978598 AATATTGTAATTTTGTATGAATATTATAA-ATTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* * *
29978646 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
29978695 AATTTTGTAATTTTGTATGAATATT----TTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* *
29978740 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* *
29978789 AATTTTGTAATTTTGTATGAATATTATAA-TTTTTT-TATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
29978836 AATGTTGTA
1 AATATTGTA
29978845 TGAATATTGT
Statistics
Matches: 179, Mismatches: 15, Indels: 11
0.87 0.07 0.05
Matches are distributed among these distances:
45 43 0.24
47 20 0.11
48 31 0.17
49 85 0.47
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.55
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
Found at i:29978748 original size:94 final size:96
Alignment explanation
Indices: 29978602--29978838 Score: 417
Period size: 94 Copynumber: 2.5 Consensus size: 96
29978592 TGTATGAATA
* *
29978602 TTGTAATTTTGTATGAATATTATAAATTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAA
1 TTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAA
29978667 TATTGCAATTTTTTTGTATGAATATTGTAATT
65 TATTGCAATTTTTTTGTATGAATATTGTAATT
29978699 TTGTAATTTTGTATGAATATT-T-TTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAAT
1 TTGTAATTTTGTATGAATATTATATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAAT
29978762 ATTGCAATTTTTTTGTATGAATATTGTAATT
66 ATTGCAATTTTTTTGTATGAATATTGTAATT
29978793 TTGTAATTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAAT
1 TTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGTAAT
29978839 GTTGTATGAA
Statistics
Matches: 135, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
94 91 0.67
95 1 0.01
96 16 0.12
97 27 0.20
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (96 bp):
TTGTAATTTTGTATGAATATTATATTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAAT
ATTGCAATTTTTTTGTATGAATATTGTAATT
Found at i:29978859 original size:47 final size:47
Alignment explanation
Indices: 29978770--29978980 Score: 202
Period size: 49 Copynumber: 4.4 Consensus size: 47
29978760 ATATTGCAAT
* *
29978770 TTTTTTGTATGAATATTGTAAT-TT-TGT-AATTTTGTATGAATATTATAA
1 TTTTTT-TATGAATATTGTAATGTTGTATGAATATTG--T-AATATTATAA
29978818 TTTTTTTATGAATATTGTAATGTTGTATGAATATTGTAATATTATAA
1 TTTTTTTATGAATATTGTAATGTTGTATGAATATTGTAATATTATAA
* * * *
29978865 -TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTAA
1 TTTTTTTATGAATATTGTAA---TGTTGTATGAATATTGTAATATTATAA
* ** *
29978914 -TTTTGTATGAATATTGTAATG-TG-GGGATATATTGTAATATTGTAA
1 TTTTTTTATGAATATTGTAATGTTGTATGA-ATATTGTAATATTATAA
29978959 TTTTTTGTATGAATATTGTAAT
1 TTTTTT-TATGAATATTGTAAT
29978981 TATTTTATAA
Statistics
Matches: 143, Mismatches: 11, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
44 2 0.01
45 19 0.13
46 22 0.15
47 40 0.28
48 9 0.06
49 45 0.31
50 6 0.04
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.53
Consensus pattern (47 bp):
TTTTTTTATGAATATTGTAATGTTGTATGAATATTGTAATATTATAA
Found at i:29978877 original size:115 final size:115
Alignment explanation
Indices: 29978725--29978933 Score: 400
Period size: 115 Copynumber: 1.8 Consensus size: 115
29978715 ATATTTTTTT
29978725 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
*
29978790 ATTTTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
66 ATATTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
29978840 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
*
29978905 ATATTGTAATTTTGTATGAATATTGTAAT
66 ATATTGTAATTTTGTATGAATATTATAAT
29978934 GTGGGGATAT
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 92 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (115 bp):
TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
ATATTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
Found at i:29978885 original size:19 final size:19
Alignment explanation
Indices: 29978863--29978912 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 19
29978853 GTAATATTAT
29978863 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGC
*
29978882 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGC
*
29978904 AATATTGTA
1 AATTTTGTA
29978913 ATTTTGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 8 0.31
22 18 0.69
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.52
Consensus pattern (19 bp):
AATTTTGTATGAATATTGC
Found at i:29978933 original size:19 final size:19
Alignment explanation
Indices: 29978463--29978857 Score: 164
Period size: 19 Copynumber: 20.2 Consensus size: 19
29978453 TTTAGATTAG
*
29978463 AATTTTGTATGAATATTTT
1 AATTTTGTATGAATATTGT
*
29978482 AAATTTTTTGTATGAATATTAT
1 -AA--TTTTGTATGAATATTGT
*
29978504 AATTTTTTTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
29978524 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
29978543 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
29978566 -ATTTATAGTTTTGGAT-TAGT
1 AATTT-T-G-TATGAATATTGT
29978586 AATTTTTGTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
29978606 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
29978625 AAATTTTTGTATGAATATTGTAATATT
1 -AA-TTTTGTATGAATATTG------T
*
29978652 ATAGTTTTGTATGAATATTGC
1 A-A-TTTTGTATGAATATTGT
*
29978673 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
29978687 AATATTG--T-AATTTTGT
1 AATTTTGTATGAATATTGT
29978703 AATTTTGTATGAATATT-T
1 AATTTTGTATGAATATTGT
**
29978721 TTTTTTGTATGAATATTGTAATATTAT
1 AATTTTGTATGAATATTG--------T
*
29978748 AATTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
*
29978767 AATTTT-TTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
29978781 AATATTG--T-AATTTTGT
1 AATTTTGTATGAATATTGT
*
29978797 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
*
29978816 AATTTTTTTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
29978836 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
29978855 AAT
1 AAT
29978858 ATTATAATTT
Statistics
Matches: 288, Mismatches: 38, Indels: 99
0.68 0.09 0.23
Matches are distributed among these distances:
13 2 0.01
14 12 0.04
15 8 0.03
16 16 0.06
18 24 0.08
19 82 0.28
20 55 0.19
21 21 0.07
22 24 0.08
23 4 0.01
24 3 0.01
25 1 0.00
26 1 0.00
27 35 0.12
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:29978981 original size:115 final size:114
Alignment explanation
Indices: 29978725--29978980 Score: 359
Period size: 115 Copynumber: 2.1 Consensus size: 114
29978715 ATATTTTTTT
29978725 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATG-ATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
* ** *
29978790 ATTTTGTAATTTTGTATGAATATTATAATTTTTTTATGAATATTGTAATG
65 ATATTGTAATTTTGTATGAATATTATAATTGATATATGAATATTGTAATG
29978840 TTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
1 TTGTATG-ATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTA
* *
29978905 ATATTGTAATTTTGTATGAATATTGTAATGTGGGGATATATTGTAATATTGTAATTTT
65 ATATTGTAATTTTGTATGAATATTATAAT-T---GATATA-TG-AATATTGTAA--TG
29978963 TTGTATGAATATTGTAAT
1 TTGTATG-ATATTGTAAT
29978981 TATTTTATAA
Statistics
Matches: 127, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
115 92 0.72
116 1 0.01
119 3 0.02
120 2 0.02
121 10 0.08
123 19 0.15
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.52
Consensus pattern (114 bp):
TTGTATGATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAA
TATTGTAATTTTGTATGAATATTATAATTGATATATGAATATTGTAATG
Found at i:29982178 original size:22 final size:21
Alignment explanation
Indices: 29982143--29982187 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
29982133 TACCTAATTT
*
29982143 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
29982164 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
29982186 TT
1 TT
29982188 CTTTCTTCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:29982195 original size:18 final size:18
Alignment explanation
Indices: 29982145--29982196 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 18
29982135 CCTAATTTTT
29982145 TTCTTC-TT-TTCCTTCC
1 TTCTTCTTTCTTCCTTCC
29982161 TTCTTTTCTTCTGCTTCCTTCC
1 TTC--TTCTT-T-CTTCCTTCC
29982183 TTCTTCTTTCTTCC
1 TTCTTCTTTCTTCC
29982197 GTTTTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.10
18 8 0.27
19 2 0.07
20 6 0.20
22 11 0.37
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCTTCTTTCTTCCTTCC
Found at i:29982286 original size:27 final size:27
Alignment explanation
Indices: 29982253--29982332 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
29982243 AAAATCACAG
* * *
29982253 CATTGGCGCCT-TCTAATATGGCATCAC
1 CATTGGCGCCTCCCAAATA-GGCACCAC
29982280 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
29982307 CATTGGCGCCTCCCAAATAGGCACCA
1 CATTGGCGCCTCCCAAATAGGCACCA
29982333 ATACTATGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 44 0.90
28 5 0.10
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.20
Consensus pattern (27 bp):
CATTGGCGCCTCCCAAATAGGCACCAC
Found at i:29983949 original size:15 final size:15
Alignment explanation
Indices: 29983916--29983958 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
29983906 ATTTGATAAG
* **
29983916 TTGAAAAATTAAGTG
1 TTGAAAAGTTAAGCA
29983931 TTGAAAAGTTAAGCA
1 TTGAAAAGTTAAGCA
*
29983946 TTGAAAAGCTAAG
1 TTGAAAAGTTAAG
29983959 TACTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.21, T:0.28
Consensus pattern (15 bp):
TTGAAAAGTTAAGCA
Found at i:29988627 original size:16 final size:18
Alignment explanation
Indices: 29988606--29988643 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
29988596 TTATTTTTTT
29988606 AAAATATA-AAAAATT-C
1 AAAATATATAAAAATTAC
29988622 AAAATATATAAAAATTAC
1 AAAATATATAAAAATTAC
29988640 AAAA
1 AAAA
29988644 AAAGTAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATATATAAAAATTAC
Found at i:29992302 original size:6 final size:6
Alignment explanation
Indices: 29992288--29992323 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
29992278 AACAAGGATG
* *
29992288 ATATAA ATATGA ATATGA ATATGA ATATGA GTATGA
1 ATATGA ATATGA ATATGA ATATGA ATATGA ATATGA
29992324 CTAATTTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
ATATGA
Found at i:29996153 original size:31 final size:28
Alignment explanation
Indices: 29996074--29996146 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
29996064 AACTTTGATT
*
29996074 AAAA-TTACATTTTAATCACTCAACTTTC
1 AAAAGTTACATTTT-ATCACTAAACTTTC
*
29996102 AAAAGTTACATAATTATCACTAAACTTGTC
1 AAAAGTTACAT-TTTATCACTAAACTT-TC
29996132 AAAATGTTACATTTT
1 AAAA-GTTACATTTT
29996147 GGTCACTCAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
28 4 0.11
29 17 0.45
30 10 0.26
31 7 0.18
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAAGTTACATTTTATCACTAAACTTTC
Found at i:29999419 original size:24 final size:23
Alignment explanation
Indices: 29999374--29999424 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
29999364 TATTTTTATC
* ** *
29999374 TTATTTTTATTTTGAATTCGATT
1 TTATTTTAATTTTGAAACCGATG
29999397 TTATTTTAATATTTGAAACCGATG
1 TTATTTTAAT-TTTGAAACCGATG
29999421 TTAT
1 TTAT
29999425 AAAAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (23 bp):
TTATTTTAATTTTGAAACCGATG
Found at i:30000272 original size:116 final size:116
Alignment explanation
Indices: 30000126--30000467 Score: 445
Period size: 116 Copynumber: 2.9 Consensus size: 116
30000116 TTTTTGGTCC
* * * ** *
30000126 AAACGCCGCGAATATGCATTAAAAGTTTGCAAAACGACGCTGTTTTTAGCTGCGTTTTTAGTGGC
1 AAACTCCGCGAATATGTATTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTGCATTTTTAGTGGC
* *
30000191 ATTTTGACTAAAACACCGCAAAAGGTTTTGCGTTAGTGGCT-TTTTCACCAA
66 GTTTTGACTAAAACACCGCAAAAGGTTATGCGTTAGTGG-TGTTTTCACCAA
* *
30000242 AAACTCCGCGAATATGTACTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTACATTTTTAGTGGC
1 AAACTCCGCGAATATGTATTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTGCATTTTTAGTGGC
* ** * * *
30000307 GTTTTGGCTAAAACACTACAAAAGATTATACATTAGTGGTGTTTTCACCAA
66 GTTTTGACTAAAACACCGCAAAAGGTTATGCGTTAGTGGTGTTTTCACCAA
* * ** * *
30000358 AAA-TGCCGCGAATATGTATTAAGAGTTTACAAAAAGGTGCAATTTTTAGTTGCATTTTTTGTGG
1 AAACT-CCGCGAATATGTATTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTGCATTTTTAGTGG
*
30000422 CGTTTTGACTAAAACGCCGCAAAAGGTTATGCGTTAGTGGTGTTTT
65 CGTTTTGACTAAAACACCGCAAAAGGTTATGCGTTAGTGGTGTTTT
30000468 TTATAAACGC
Statistics
Matches: 193, Mismatches: 31, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
115 2 0.01
116 191 0.99
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (116 bp):
AAACTCCGCGAATATGTATTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTGCATTTTTAGTGGC
GTTTTGACTAAAACACCGCAAAAGGTTATGCGTTAGTGGTGTTTTCACCAA
Found at i:30004963 original size:13 final size:14
Alignment explanation
Indices: 30004947--30004975 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30004937 TTTTAAATAT
30004947 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
30004960 TTATAATGGTTTAA
1 TTATAATGGTTTAA
30004974 TT
1 TT
30004976 CATCGTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:30005835 original size:43 final size:43
Alignment explanation
Indices: 30005788--30006039 Score: 290
Period size: 43 Copynumber: 5.9 Consensus size: 43
30005778 GAATATGACA
* * *
30005788 TTTAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGTTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * ** *
30005831 TTTAGCGGCATTTGTGGGCAAAGCGTTGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * * * ** *
30005874 GTTAGTGACGTTTGTAGAGAAAAATGCCGCTAAAGGTCATATTC
1 TTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCATGTTC
*
30005918 TATAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * *
30005960 TATAGCGGAGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * *
30006003 TTTAGCGACGTTTGTGGGAAAAGTGCCGCTATAGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
30006040 CAAAAAATGC
Statistics
Matches: 174, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
42 38 0.22
43 105 0.60
44 31 0.18
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:30005975 original size:129 final size:129
Alignment explanation
Indices: 30005790--30006039 Score: 351
Period size: 129 Copynumber: 1.9 Consensus size: 129
30005780 ATATGACATT
* * * *
30005790 TAGCGGCGTTTGTGGGGAAAGCGTCGCTAAAGTTCATGTTCTTTAGCGGCATTTGTGGGCAAAGC
1 TAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCATTTGTGGGAAAAGC
** * * *
30005855 GTTGCTAAAGGTTATGTTCGTTAGTGACGTTTGTAGAGAAAAATGCCGCTAAAGGTCATATTCTA
66 GCCGCTAAAAGTCATGTTCGTTAGCGACGTTTGT-GAGAAAAATGCCGCTAAAGGTCATATTCTA
30005920 TAGCGGCGTTTGT-GGGAAAGCGCCGCTAAAGGTCATGTTCTATAGCGG-AGTTTGTGGGAAAAG
1 TAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCA-TTTGTGGGAAAAG
* * * *
30005983 CGCCGCTAAAAGTCATGTTCTTTAGCGACGTTTGTGGGAAAAGTGCCGCTATAGGTC
65 CGCCGCTAAAAGTCATGTTCGTTAGCGACGTTTGTGAGAAAAATGCCGCTAAAGGTC
30006040 CAAAAAATGC
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
128 20 0.19
129 73 0.69
130 13 0.12
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (129 bp):
TAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCATTTGTGGGAAAAGC
GCCGCTAAAAGTCATGTTCGTTAGCGACGTTTGTGAGAAAAATGCCGCTAAAGGTCATATTCTA
Found at i:30008582 original size:18 final size:17
Alignment explanation
Indices: 30008560--30008600 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
30008550 AAAATAAATT
30008560 CAAAATTTCAAAAATCC
1 CAAAATTTCAAAAATCC
* *
30008577 CTAAAATTTTAAAATTCC
1 C-AAAATTTCAAAAATCC
30008595 CAAAAT
1 CAAAAT
30008601 CAATCGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (17 bp):
CAAAATTTCAAAAATCC
Found at i:30009443 original size:48 final size:48
Alignment explanation
Indices: 30009391--30009500 Score: 186
Period size: 48 Copynumber: 2.3 Consensus size: 48
30009381 AAAAAATTCT
30009391 ATTATATTAAAAATTGCCTTATTTAAAACATTATTGTAAAGAATTTCG
1 ATTATATTAAAAATTGCCTTATTTAAAACATTATTGTAAAGAATTTCG
* *
30009439 ATTATA-AAAAAATTTGCCTTATTTAAAACGTTATTGTAAAGAATTTCG
1 ATTATATTAAAAA-TTGCCTTATTTAAAACATTATTGTAAAGAATTTCG
30009487 ATTATATTAAAAAT
1 ATTATATTAAAAAT
30009501 ATTAAAGTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
47 5 0.09
48 47 0.82
49 5 0.09
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (48 bp):
ATTATATTAAAAATTGCCTTATTTAAAACATTATTGTAAAGAATTTCG
Found at i:30010110 original size:18 final size:18
Alignment explanation
Indices: 30010084--30010126 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30010074 GACTCGAAAA
* * *
30010084 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
30010102 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
30010120 AGGATAC
1 AGGATAC
30010127 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:30010784 original size:7 final size:7
Alignment explanation
Indices: 30010774--30010799 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30010764 TTATATACAT
30010774 AATACTA
1 AATACTA
30010781 AATACTA
1 AATACTA
30010788 AATACTA
1 AATACTA
30010795 AATAC
1 AATAC
30010800 CAATTGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:30011987 original size:11 final size:12
Alignment explanation
Indices: 30011971--30012023 Score: 67
Period size: 11 Copynumber: 4.7 Consensus size: 12
30011961 TTAAATAGGG
30011971 ATTTGAGA-GAA
1 ATTTGAGAGGAA
30011982 ATTTGAGAGGAA
1 ATTTGAGAGGAA
*
30011994 A-TTGAGAGCAA
1 ATTTGAGAGGAA
30012005 A-TTGAGAGGAA
1 ATTTGAGAGGAA
*
30012016 ATTAGAGA
1 ATTTGAGA
30012024 AAGGATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 28 0.76
12 9 0.24
ACGTcount: A:0.45, C:0.02, G:0.30, T:0.23
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:30012001 original size:22 final size:21
Alignment explanation
Indices: 30011973--30012025 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 21
30011963 AAATAGGGAT
30011973 TTGAGAGAAATTTGAGAGGAAA
1 TTGAGAGAAA-TTGAGAGGAAA
30011995 TTGAGAGCAAATTGAGAGGAAA
1 TTGAGAG-AAATTGAGAGGAAA
30012017 TT-AGAGAAA
1 TTGAGAGAAA
30012026 GGATTTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.10
21 4 0.13
22 20 0.67
23 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (21 bp):
TTGAGAGAAATTGAGAGGAAA
Found at i:30013040 original size:34 final size:35
Alignment explanation
Indices: 30012982--30013048 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
30012972 CAAACACCAG
30012982 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
30013017 AAAATATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
30013049 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:30016683 original size:20 final size:18
Alignment explanation
Indices: 30016647--30016683 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30016637 GGGGTTATTG
30016647 TGTGTTGTACGGGATATA
1 TGTGTTGTACGGGATATA
30016665 TGTGTTGATAC-GGATATA
1 TGTGTTG-TACGGGATATA
30016683 T
1 T
30016684 TAGTGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.24, C:0.05, G:0.30, T:0.41
Consensus pattern (18 bp):
TGTGTTGTACGGGATATA
Found at i:30019703 original size:16 final size:15
Alignment explanation
Indices: 30019682--30019736 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
30019672 AGTTTTTACA
30019682 TTCTCTTTCTTTCTC
1 TTCTCTTTCTTTCTC
30019697 TT-TCTCTTCTTT-TC
1 TTCTCT-TTCTTTCTC
30019711 TTCT-TTT-TTTCTC
1 TTCTCTTTCTTTCTC
30019724 -TCTCGTTTCTTTC
1 TTCTC-TTTCTTTC
30019737 ATGAATAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
12 6 0.18
13 4 0.12
14 11 0.32
15 13 0.38
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (15 bp):
TTCTCTTTCTTTCTC
Found at i:30020515 original size:21 final size:20
Alignment explanation
Indices: 30020470--30020513 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30020460 GGAAATAAAG
*
30020470 AAAATGAGGAGAGGAGAAAA
1 AAAATGAGGAGAAGAGAAAA
30020490 AAAATGAAGGAGAA-AGAAAA
1 AAAATG-AGGAGAAGAGAAAA
30020510 AAAA
1 AAAA
30020514 ATTGGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (20 bp):
AAAATGAGGAGAAGAGAAAA
Found at i:30025148 original size:9 final size:9
Alignment explanation
Indices: 30025116--30025179 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
30025106 ATAAAATATT
30025116 AAAATTGATA
1 AAAATT-ATA
* *
30025126 TAAACTTATT
1 -AAAATTATA
*
30025136 AAAATCATA
1 AAAATTATA
30025145 AAAATTATA
1 AAAATTATA
30025154 AAAATTAT-
1 AAAATTATA
30025162 AAAATTAATA
1 AAAATT-ATA
*
30025172 AAACTTAT
1 AAAATTAT
30025180 TTAAGAAACC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
8 6 0.14
9 26 0.59
10 7 0.16
11 5 0.11
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:30025156 original size:8 final size:8
Alignment explanation
Indices: 30025094--30025179 Score: 52
Period size: 9 Copynumber: 10.0 Consensus size: 8
30025084 AAATATAAGA
*
30025094 AAAACTAT
1 AAAATTAT
30025102 AAAA--AT
1 AAAATTAT
30025108 AAAA-TATT
1 AAAATTA-T
30025116 AAAATTGAT
1 AAAATT-AT
30025125 ATAAACTTATT
1 A-AAA-TTA-T
*
30025136 AAAATCAT
1 AAAATTAT
30025144 AAAAATTAT
1 -AAAATTAT
30025153 AAAAATTAT
1 -AAAATTAT
30025162 AAAATTAAT
1 AAAATT-AT
30025171 AAAACTTAT
1 AAAA-TTAT
30025180 TTAAGAAACC
Statistics
Matches: 66, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
6 6 0.09
7 1 0.02
8 16 0.24
9 29 0.44
10 10 0.15
11 4 0.06
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.33
Consensus pattern (8 bp):
AAAATTAT
Found at i:30025172 original size:27 final size:28
Alignment explanation
Indices: 30025107--30025179 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 28
30025097 ACTATAAAAA
* *
30025107 TAAAAT-ATTAAAATTGATATAAACTTAT
1 TAAAATAATAAAAATT-ATATAAAATTAT
*
30025135 TAAAATCATAAAAATTATA-AAAATTA-
1 TAAAATAATAAAAATTATATAAAATTAT
*
30025161 TAAAATTAATAAAACTTAT
1 TAAAA-TAATAAAAATTAT
30025180 TTAAGAAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 5 0.13
27 17 0.44
28 9 0.23
29 8 0.21
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (28 bp):
TAAAATAATAAAAATTATATAAAATTAT
Found at i:30025179 original size:18 final size:17
Alignment explanation
Indices: 30025106--30025179 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 17
30025096 AACTATAAAA
*
30025106 ATAAAA-TATTAAAATT
1 ATAAAATTATAAAAATT
* *
30025122 GATATAAACTTATTAAAATC
1 -ATA-AAA-TTATAAAAATT
30025142 ATAAAAATTATAAAAATT
1 AT-AAAATTATAAAAATT
*
30025160 ATAAAATTAATAAAACTT
1 ATAAAATT-ATAAAAATT
30025178 AT
1 AT
30025180 TTAAGAAACC
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
17 9 0.19
18 24 0.50
19 5 0.10
20 10 0.21
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (17 bp):
ATAAAATTATAAAAATT
Found at i:30025254 original size:19 final size:18
Alignment explanation
Indices: 30025199--30025257 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
30025189 CTAATAGAAA
30025199 AAAAATT-TAAAAAAT-T
1 AAAAATTATAAAAAATAT
**
30025215 -AAAATTGATATAAACTTAT
1 AAAAATT-ATA-AAAAATAT
30025234 AAAAATTATAAAAAATCAT
1 AAAAATTATAAAAAAT-AT
30025253 AAAAA
1 AAAAA
30025258 CTTGAATTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
15 6 0.18
17 2 0.06
18 8 0.24
19 11 0.33
20 6 0.18
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAAAAATAT
Found at i:30025790 original size:40 final size:39
Alignment explanation
Indices: 30025746--30025880 Score: 198
Period size: 40 Copynumber: 3.3 Consensus size: 39
30025736 AATATATTTA
30025746 TTTTTTAAATTTTTTGAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTT-AATTTTAAAATATTTTTAAAATAC
*
30025786 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTA-AATTTTTTAATTTTAAAATATTTTTAAAATAC
* *
30025826 TTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATATAT
1 TTTTTTAAA-TTTTTTAATTTTAAAATATTTTT-AAA-ATAC
30025868 TTTTTTAAATTTT
1 TTTTTTAAATTTT
30025881 AAAATAAATT
Statistics
Matches: 86, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
39 1 0.01
40 60 0.70
41 14 0.16
42 11 0.13
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (39 bp):
TTTTTTAAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:30025829 original size:29 final size:29
Alignment explanation
Indices: 30025775--30025832 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
30025765 TTTAAAATAT
* * *
30025775 TTTTAAAATACTTTTTTATTATTTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTTAA
30025804 TTTTAAAATA-TTTTTAAAATACTTTTTAA
1 TTTTAAAATACTTTTT-AAATACTTTTTAA
30025833 AATTTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTAAAATACTTTTTAAATACTTTTTAA
Found at i:30025831 original size:12 final size:11
Alignment explanation
Indices: 30025764--30025870 Score: 81
Period size: 11 Copynumber: 10.4 Consensus size: 11
30025754 ATTTTTTGAA
30025764 TTTTAAAATAT
1 TTTTAAAATAT
30025775 TTTTAAAATACT
1 TTTTAAAATA-T
* *
30025787 TTTT-TATTAT
1 TTTTAAAATAT
*
30025797 TTTT----TAA
1 TTTTAAAATAT
30025804 TTTTAAAATAT
1 TTTTAAAATAT
30025815 TTTTAAAATACT
1 TTTTAAAATA-T
30025827 TTTTAAAAT-T
1 TTTTAAAATAT
*
30025837 TTTT----TAA
1 TTTTAAAATAT
30025844 TTTTAAAATAT
1 TTTTAAAATAT
30025855 TTTTAAAATAT
1 TTTTAAAATAT
30025866 ATTTT
1 -TTTT
30025871 TTTAAATTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
6 1 0.01
7 10 0.13
10 10 0.13
11 38 0.49
12 19 0.24
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:30026244 original size:32 final size:30
Alignment explanation
Indices: 30026191--30026249 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
30026181 TTTTTATAAA
30026191 TTTTTTAAGTTTATATAAATTTTAATACTT
1 TTTTTTAAGTTTATATAAATTTTAATACTT
* *
30026221 TTTTTTATGGTTTTTATAGAATTTTAATA
1 TTTTTTA-AGTTTATATA-AATTTTAATA
30026250 AGCTTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
31 8 0.32
32 10 0.40
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTTTTAAGTTTATATAAATTTTAATACTT
Found at i:30026347 original size:9 final size:8
Alignment explanation
Indices: 30026274--30026378 Score: 59
Period size: 9 Copynumber: 11.6 Consensus size: 8
30026264 TTTAAATATG
30026274 TTTTTATTA
1 TTTTTA-TA
*
30026283 ATTTTATGA
1 TTTTTAT-A
30026292 TTTTTTATAA
1 -TTTTTAT-A
*
30026302 TTTATTAACA
1 TTT-TT-ATA
30026312 TTTATTATA
1 TTT-TTATA
30026321 TTTTTATA
1 TTTTTATA
30026329 TCAATTTTCATA
1 T---TTTT-ATA
30026341 TTTTTCATA
1 TTTTT-ATA
*
30026350 -TTTAATA
1 TTTTTATA
30026357 TTTTTATGA
1 TTTTTAT-A
30026366 TTTTTATA
1 TTTTTATA
30026374 TTTTT
1 TTTTT
30026379 TTATGAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
7 3 0.04
8 21 0.27
9 30 0.38
10 16 0.20
11 5 0.06
12 4 0.05
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (8 bp):
TTTTTATA
Found at i:30026368 original size:16 final size:17
Alignment explanation
Indices: 30026332--30026378 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
30026322 TTTTATATCA
*
30026332 ATTTTCATATTTTTCAT
1 ATTTTAATATTTTTCAT
30026349 A-TTTAATATTTTT-AT
1 ATTTTAATATTTTTCAT
*
30026364 GATTTTTATATTTTT
1 -ATTTTAATATTTTT
30026379 TTATGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 2 0.08
16 12 0.46
17 12 0.46
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (17 bp):
ATTTTAATATTTTTCAT
Found at i:30039655 original size:45 final size:44
Alignment explanation
Indices: 30039583--30039707 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 44
30039573 GAGCAGGTTA
*
30039583 ATCATGATTCAAACGAGTAAGACCATAGCTGAAAGATGCTATGAC
1 ATCATGATTCAAACGAGTAAGA-CATAGCTGAAAGATACTATGAC
* *
30039628 ATTATGATTCAAACGAGTAAGATCATAGCTGAAAGATACTATGGC
1 ATCATGATTCAAACGAGTAAGA-CATAGCTGAAAGATACTATGAC
* * *
30039673 ATCAGGA-TAAAATGAGTAAGACTATAGCTGAAAGA
1 ATCATGATTCAAACGAGTAAGAC-ATAGCTGAAAGA
30039708 CGTTATGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
43 1 0.01
44 24 0.34
45 46 0.65
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (44 bp):
ATCATGATTCAAACGAGTAAGACATAGCTGAAAGATACTATGAC
Found at i:30040707 original size:48 final size:48
Alignment explanation
Indices: 30040636--30040730 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
30040626 TATCTAAATA
** *
30040636 TAACACCCCTAACTTGTATCCATCGCCGAAATAAGGTTACAGAGCATG
1 TAACACCCCTAACCCGTATCCATCGCCGAAACAAGGTTACAGAGCATG
* *
30040684 TAACACCCCTAACCCGTATCCATCGCCGGAACAAGGTTACGGAGCAT
1 TAACACCCCTAACCCGTATCCATCGCCGAAACAAGGTTACAGAGCAT
30040731 TACCGGAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.20
Consensus pattern (48 bp):
TAACACCCCTAACCCGTATCCATCGCCGAAACAAGGTTACAGAGCATG
Found at i:30042089 original size:25 final size:25
Alignment explanation
Indices: 30042057--30042121 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
30042047 TGTAAACAGT
* *
30042057 AAGCTCATATGAGCTGAATAACGGA
1 AAGCTCATACGAGCTAAATAACGGA
* *
30042082 AAGCTCATGCGAGCTAAATAACGGG
1 AAGCTCATACGAGCTAAATAACGGA
*
30042107 AAGCTCATGCGAGCT
1 AAGCTCATACGAGCT
30042122 GTGGTGTGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.18
Consensus pattern (25 bp):
AAGCTCATACGAGCTAAATAACGGA
Found at i:30059283 original size:16 final size:16
Alignment explanation
Indices: 30059264--30059298 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
30059254 ATTGGATATT
30059264 TATATTTATATTGTAA
1 TATATTTATATTGTAA
30059280 TATATTTATATTGTAA
1 TATATTTATATTGTAA
30059296 TAT
1 TAT
30059299 GGAATGATTG
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:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (16 bp):
TATATTTATATTGTAA
Found at i:30063937 original size:31 final size:31
Alignment explanation
Indices: 30063882--30063960 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
30063872 AGTTGTTATA
* * *
30063882 CCATTGTTGTTGGGTAATCCGAGGTGGTAAG
1 CCATCGTTGTCGGGCAATCCGAGGTGGTAAG
* *
30063913 CCATCGTTGTCGGGCAATCTGAGGTGGTAGG
1 CCATCGTTGTCGGGCAATCCGAGGTGGTAAG
* * *
30063944 TCATCATTGTCGAGCAA
1 CCATCGTTGTCGGGCAA
30063961 CTTGGGATGA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (31 bp):
CCATCGTTGTCGGGCAATCCGAGGTGGTAAG
Found at i:30066531 original size:33 final size:33
Alignment explanation
Indices: 30066494--30066556 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
30066484 CTTAGAATGA
*
30066494 TTGCTTTGTCAATTAGATATTTAGTCCATCGAT
1 TTGCTTTGTCAATTAGATATTTAGCCCATCGAT
30066527 TTGCTTTGTCAATTAGATATTTAGCCCATC
1 TTGCTTTGTCAATTAGATATTTAGCCCATC
30066557 AATTGATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (33 bp):
TTGCTTTGTCAATTAGATATTTAGCCCATCGAT
Found at i:30068992 original size:30 final size:30
Alignment explanation
Indices: 30068956--30069016 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
30068946 TCCCAATAAA
30068956 TATATGATTGTTATTTGTTAACAATATTGT
1 TATATGATTGTTATTTGTTAACAATATTGT
30068986 TATATGATTGTTATTTGTTAACAATATTGT
1 TATATGATTGTTATTTGTTAACAATATTGT
30069016 T
1 T
30069017 TTTCCAGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.54
Consensus pattern (30 bp):
TATATGATTGTTATTTGTTAACAATATTGT
Found at i:30081416 original size:20 final size:20
Alignment explanation
Indices: 30081388--30081444 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
30081378 AAGACTATGA
*
30081388 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
30081408 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
30081428 TCCATTCTATTTACTTA
1 ACCATTCCATTTACTTA
30081445 GCATAATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.46
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:30081514 original size:21 final size:21
Alignment explanation
Indices: 30081489--30081529 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30081479 TAGTGTGTTT
* *
30081489 ATCCATGACATAGGTAAATTC
1 ATCCATAACATAAGTAAATTC
30081510 ATCCATAACATAAGTAAATT
1 ATCCATAACATAAGTAAATT
30081530 TCTCACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (21 bp):
ATCCATAACATAAGTAAATTC
Found at i:30086120 original size:29 final size:29
Alignment explanation
Indices: 30086078--30086135 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
30086068 GTACAATGGG
30086078 GTATACGATGACGCTATTTGTCTTCAATT
1 GTATACGATGACGCTATTTGTCTTCAATT
30086107 GTATACGATGACGCTATTTGTCTTCAATT
1 GTATACGATGACGCTATTTGTCTTCAATT
30086136 ATTCCCTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (29 bp):
GTATACGATGACGCTATTTGTCTTCAATT
Found at i:30089071 original size:54 final size:54
Alignment explanation
Indices: 30088988--30089102 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
30088978 GAGGTCAATT
* **
30088988 AAATGACCGAAATACCCCTGTAAGGTAAAATGACTAAAATACCCCCGA-AGGGTA
1 AAATGATCGAAATACCCCCATAAGGTAAAATGACTAAAATACCCCC-ATAGGGTA
* *
30089042 AAATGATCGAAATACCCCCAT-AGGCTAAAATGATTGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAAGG-TAAAATGACTAAAATACCCCCATAGGGTA
30089096 AAATGAT
1 AAATGAT
30089103 TATTATACCC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 4 0.07
54 50 0.93
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (54 bp):
AAATGATCGAAATACCCCCATAAGGTAAAATGACTAAAATACCCCCATAGGGTA
Found at i:30089102 original size:27 final size:27
Alignment explanation
Indices: 30088996--30089103 Score: 137
Period size: 27 Copynumber: 4.0 Consensus size: 27
30088986 TTAAATGACC
** * *
30088996 GAAATACCCCTGTAAGGTAAAATGACT
1 GAAATACCCCCATAGGGTAAAATGATT
* *
30089023 AAAATACCCCCGA-AGGGTAAAATGATC
1 GAAATACCCCC-ATAGGGTAAAATGATT
*
30089050 GAAATACCCCCATAGGCTAAAATGATT
1 GAAATACCCCCATAGGGTAAAATGATT
30089077 GAAATACCCCCATAGGGTAAAATGATT
1 GAAATACCCCCATAGGGTAAAATGATT
30089104 ATTATACCCC
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 68 0.99
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGATT
Found at i:30097670 original size:19 final size:19
Alignment explanation
Indices: 30097648--30097704 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 19
30097638 TCACTGTCAT
30097648 CCACCGTAATCAAATTTTC
1 CCACCGTAATCAAATTTTC
*
30097667 CCACCGTAATTTTAAATTTTC
1 CCACCGTAA--TCAAATTTTC
*
30097688 CCATCGTAATCAAATTT
1 CCACCGTAATCAAATTT
30097705 GTTATTAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.48
21 17 0.52
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.37
Consensus pattern (19 bp):
CCACCGTAATCAAATTTTC
Found at i:30098244 original size:25 final size:27
Alignment explanation
Indices: 30098207--30098256 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
30098197 AGTAAAATTT
30098207 TGGGAGGGAAATATTCAAAAAAAAAAG
1 TGGGAGGGAAATATTCAAAAAAAAAAG
30098234 TGGG-GGG-AATATTCAAAAAAAAA
1 TGGGAGGGAAATATTCAAAAAAAAA
30098257 GGTAGGCCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.70
26 3 0.13
27 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.26, T:0.16
Consensus pattern (27 bp):
TGGGAGGGAAATATTCAAAAAAAAAAG
Found at i:30108874 original size:46 final size:46
Alignment explanation
Indices: 30108818--30108918 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
30108808 GGTTATGGCT
* * * *
30108818 TTTCTAAAATGACACTTAATGTTTTAACCTTTCTAAGGTTGTGACC
1 TTTCTGAAATGACACTTAATGTTATAACCTTTCTAAGGTTATAACC
* * * *
30108864 TTTTTGAAATGACACTTAATGTTATGACTTTTTTAAGGTTATAACC
1 TTTCTGAAATGACACTTAATGTTATAACCTTTCTAAGGTTATAACC
30108910 TTTCTGAAA
1 TTTCTGAAA
30108919 CATCTCTTAG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.44
Consensus pattern (46 bp):
TTTCTGAAATGACACTTAATGTTATAACCTTTCTAAGGTTATAACC
Found at i:30109958 original size:21 final size:21
Alignment explanation
Indices: 30109924--30109965 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
30109914 TGGTGAAAAT
*
30109924 TATTCTTAAGGTCTCGAGACA
1 TATTCCTAAGGTCTCGAGACA
*
30109945 TATTCCTAATGTCTCGAGACA
1 TATTCCTAAGGTCTCGAGACA
30109966 CTAACAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (21 bp):
TATTCCTAAGGTCTCGAGACA
Found at i:30118906 original size:12 final size:11
Alignment explanation
Indices: 30118889--30118945 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
30118879 AACAAATCCT
30118889 CTCTCATATTTC
1 CTCTCA-ATTTC
30118901 CTCTCAA-TTC
1 CTCTCAATTTC
30118911 CTCTCAATTTC
1 CTCTCAATTTC
*
30118922 CT-TCCAAAATT-
1 CTCT-C-AATTTC
30118933 CTCTCAATTTC
1 CTCTCAATTTC
30118944 CT
1 CT
30118946 TCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 15 0.39
11 12 0.32
12 11 0.29
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:30118936 original size:22 final size:22
Alignment explanation
Indices: 30118906--30118961 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
30118896 ATTTCCTCTC
30118906 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
30118929 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
30118951 AATTCTCTCAA
1 AATTCTCTCAA
30118962 ATCCATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:30118990 original size:51 final size:51
Alignment explanation
Indices: 30118933--30119036 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
30118923 TTCCAAAATT
30118933 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
*
30118984 CTCTCAATTTCCTTCTAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
30119035 CT
1 CT
30119037 TTTTTAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:30120190 original size:7 final size:7
Alignment explanation
Indices: 30120180--30120204 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30120170 ATTCGATTGA
30120180 TATTTAG
1 TATTTAG
30120187 TATTTAG
1 TATTTAG
30120194 TATTTAG
1 TATTTAG
30120201 TATT
1 TATT
30120205 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:30121520 original size:51 final size:50
Alignment explanation
Indices: 30121456--30121680 Score: 186
Period size: 50 Copynumber: 4.5 Consensus size: 50
30121446 ATTTAAAACT
*
30121456 CTAATCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACA
1 CTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACCCTAACA
* *
30121507 TTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAATTAAAAACCCTAA-A
1 CTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACCCTAACA
* ***** *
30121558 C---CC----TTAACTTAAAAACCCT-AA-CCTTAACCTAATTTAATTAAAAACC
1 CTAACCTAATTTAA-TTAAAAACCCTAAACCCTTAA-TTAA---AAACCCTAACA
30121604 CTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAATC-
1 CTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAA-CA
30121654 CTAACCTAATTTAATTAAAAACCCTAA
1 CTAACCTAATTTAATTAAAAACCCTAA
30121681 CCTAATTTAA
Statistics
Matches: 137, Mismatches: 18, Indels: 39
0.71 0.09 0.20
Matches are distributed among these distances:
41 4 0.03
42 3 0.02
44 5 0.04
45 17 0.12
46 1 0.01
48 2 0.01
49 2 0.01
50 35 0.26
51 25 0.18
52 24 0.18
53 13 0.09
54 6 0.04
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (50 bp):
CTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAACA
Found at i:30121534 original size:23 final size:23
Alignment explanation
Indices: 30121402--30121940 Score: 364
Period size: 23 Copynumber: 21.9 Consensus size: 23
30121392 TTTGATGTAA
* *
30121402 TAAAAACCCTAATCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
*** *
30121425 CCTAAACCCTAACCTAAATTAAT
1 TAAAAACCCTAACCTAATTTAAT
* * *
30121448 TTAAAACTCTAATCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
30121471 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAATTTAA-T
30121493 TAAAAACCCTAACATTAACCTAATTTAAT
1 TAAAAA-CC---C--TAACCTAATTTAAT
30121522 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
30121545 TAAAAACCCTAAACCCTTAACTTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
*
30121570 -AAACCCTAACCTTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
30121596 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
30121619 TAAAAACCCTAAACCCTTAA-TTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
*
30121643 -AAACCCTAATCCTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
30121669 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
* * *
30121692 TAAAAATCCTAAACT--CTTAACT
1 TAAAAACCCTAACCTAATTTAA-T
30121714 TAAAAACCCTAACCTTAACCTAAATTAAT
1 TAAAAACCCTAACC-TAA--T---TTAAT
* *
30121743 TAATAACTCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
30121766 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
* *
30121795 TAAAAACCCTAAAC--ACTTAACT
1 TAAAAACCCTAACCTAATTTAA-T
30121817 TAAAAACCCTAACCTTAACCTAAATTAAT
1 TAAAAACCCTAACC-TAA--T---TTAAT
*
30121846 TAAAAACTCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
30121869 TAAAAATCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
30121892 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
30121921 TAAAAACCCTAACCTAATTT
1 TAAAAACCCTAACCTAATTT
30121941 TACATAATTT
Statistics
Matches: 415, Mismatches: 41, Indels: 120
0.72 0.07 0.21
Matches are distributed among these distances:
21 13 0.03
22 34 0.08
23 189 0.46
24 13 0.03
25 28 0.07
26 17 0.04
27 23 0.06
28 14 0.03
29 72 0.17
30 12 0.03
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:30121539 original size:74 final size:74
Alignment explanation
Indices: 30121422--30121781 Score: 582
Period size: 74 Copynumber: 4.9 Consensus size: 74
30121412 AATCTAATTT
* * * * *
30121422 AACCCTAAACCCTAACCTAAATTAATTTAAAACTCTAATCTAATTTAATTAAAAACCCTAAACCC
1 AACCCT-AACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
30121487 TTAACTTAAA
65 TTAACTTAAA
*
30121497 AACCCTAACATTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
30121562 TAACTTAAA
66 TAACTTAAA
30121571 AACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
30121636 TAA-TTAAA
66 TAACTTAAA
* *
30121644 AACCCTAATCC-TAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAATCCTAAACTC
1 AACCCTAA-CCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
30121708 TTAACTTAAA
65 TTAACTTAAA
* * *
30121718 AACCCTAACCTTAACCTAAATTAATTAATAACTCTAACCTAATTTAATTAAAAACCCT-AACCCT
1 AACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
30121782 AACCTAATTT
Statistics
Matches: 268, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
73 75 0.28
74 187 0.70
75 6 0.02
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.29
Consensus pattern (74 bp):
AACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
TAACTTAAA
Found at i:30121684 original size:147 final size:148
Alignment explanation
Indices: 30121422--30121781 Score: 600
Period size: 147 Copynumber: 2.4 Consensus size: 148
30121412 AATCTAATTT
* * *
30121422 AACCCTAAACCCTAACCTAAATTAATTTAAAACTCTAATCTAATTTAATTAAAAACCCTAAACCC
1 AACCCT-AACCTTAACCTAAATTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCC
*
30121487 TTAACTTAAAAACCCTAACATTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAAC
65 TTAACTTAAAAACCCTAACACTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAAC
30121552 CCTAAACCCTTAACTTAAA
130 CCTAAACCCTTAACTTAAA
* *
30121571 AACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTTAACCTAAATTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCT
*
30121636 TAA-TTAAAAACCCTAATC-CTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAAT
66 TAACTTAAAAACCCTAA-CACTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAAC
*
30121699 CCTAAACTCTTAACTTAAA
130 CCTAAACCCTTAACTTAAA
*
30121718 AACCCTAACCTTAACCTAAATTAATTAATAACTCTAACCTAATTTAATTAAAAACCCT-AACCCT
1 AACCCTAACCTTAACCTAAATTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCT
30121782 AACCTAATTT
Statistics
Matches: 199, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
146 6 0.03
147 129 0.65
148 58 0.29
149 6 0.03
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.29
Consensus pattern (148 bp):
AACCCTAACCTTAACCTAAATTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCT
TAACTTAAAAACCCTAACACTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACC
CTAAACCCTTAACTTAAA
Found at i:30121745 original size:51 final size:50
Alignment explanation
Indices: 30121673--30121857 Score: 237
Period size: 51 Copynumber: 3.6 Consensus size: 50
30121663 TTTAATTAAA
*
30121673 AACCCTAACCTAATTTAATTAAAAATCCTAAACTCTTAACTTAAAAACCCT
1 AACCCTAACCTAAATTAATTAAAAA-CCTAAACTCTTAACTTAAAAACCCT
* * * *
30121724 AACCTTAACCTAAATTAATTAATAACTCTAACCTAATTTAA-TTAAAAACCCT
1 AACCCTAACCTAAATTAATTAAAAAC-CTAAACT--CTTAACTTAAAAACCCT
* *
30121776 AACCCTAACCTAATTTAATTAAAAACCCTAAACACTTAACTTAAAAACCCT
1 AACCCTAACCTAAATTAATTAAAAA-CCTAAACTCTTAACTTAAAAACCCT
*
30121827 AACCTTAACCTAAATTAATTAAAAACTCTAA
1 AACCCTAACCTAAATTAATTAAAAAC-CTAA
30121858 CCTAATTTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
50 6 0.05
51 66 0.57
52 38 0.33
53 5 0.04
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (50 bp):
AACCCTAACCTAAATTAATTAAAAACCTAAACTCTTAACTTAAAAACCCT
Found at i:30121804 original size:126 final size:127
Alignment explanation
Indices: 30121526--30121940 Score: 503
Period size: 126 Copynumber: 3.3 Consensus size: 127
30121516 TTTAATTAAA
*
30121526 AACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAACTTAAAAACCCTAACCTTAACCT
1 AACCCTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAACTTAAAAACCCTAACCTTAACCT
* ** * * * *
30121588 AATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACCCT
65 AA-ATAACCAAAAACTCTAACCTAAATTAATTAAAAATCCT-AACCTAATTTAATTAAAAACCCT
* * *
30121650 AATCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAA-TTAAAAATCCTAAACTCTTAACT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAACTTAAAAACCCT-AAC-CTTAACC
** * *
30121714 TAAA-AACCCTAACCT-TAACCTAAATTAATTAATAA-CTCTAACCTAATTTAATTAAAAACCCT
64 TAAATAACCAAAAACTCTAACCTAAATTAATTAAAAATC-CTAACCTAATTTAATTAAAAACCCT
* *
30121776 AACCCTAACCTAATTTAATTAAAAACCCTAAAC--ACTTAACTTAAAAACCCTAACCTTAACCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAACCTTAACCTA
** *
30121839 AATTAATTAAAAACTCTAACCTAATTTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCT
66 AA-TAACCAAAAACTCTAACCTAAATTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCT
30121902 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTT
30121941 TACATAATTT
Statistics
Matches: 247, Mismatches: 28, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
123 19 0.08
124 56 0.23
125 31 0.13
126 128 0.52
127 10 0.04
128 3 0.01
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (127 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAACTTAAAAACCCTAACCTTAACCTA
AATAACCAAAAACTCTAACCTAAATTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCT
Found at i:30121835 original size:20 final size:22
Alignment explanation
Indices: 30121790--30121840 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
30121780 CTAACCTAAT
30121790 TTAA-TTAAAAACCCTAAACAC
1 TTAACTTAAAAACCCTAAACAC
30121811 TTAACTTAAAAACCCT-AAC-C
1 TTAACTTAAAAACCCTAAACAC
*
30121831 TTAACCTAAA
1 TTAACTTAAA
30121841 TTAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 10 0.36
21 7 0.25
22 11 0.39
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
TTAACTTAAAAACCCTAAACAC
Found at i:30121906 original size:103 final size:100
Alignment explanation
Indices: 30121654--30121935 Score: 385
Period size: 103 Copynumber: 2.8 Consensus size: 100
30121644 AACCCTAATC
*
30121654 CTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAAT---CCTAAACTCTTAACTTA
1 CTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAATAACCCTAAACACTTAACTTA
*
30121716 AAAACCCTAACCTTAACCTAAATTAATTAATAACT
66 AAAACCCTAACCTTAACCTAAATTAATTAAAAACT
**
30121751 CTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA-AACCCTAAACACTTAA
1 CTAACCTAATTTAATTAAAAACCCTAA-CCTAATTTAA-TTAA--AAATAACCCTAAACACTTAA
30121815 CTTAAAAACCCTAACCTTAACCTAAATTAATTAAAAACT
62 CTTAAAAACCCTAACCTTAACCTAAATTAATTAAAAACT
* * *
30121854 CTAACCTAATTTAATTAAAAATCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTA
1 CTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAA---TAACCCTAAAC--ACTTA
30121919 A-TTAAAAACCCTAACCT
61 ACTTAAAAACCCTAACCT
30121936 AATTTTACAT
Statistics
Matches: 163, Mismatches: 9, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
97 27 0.17
98 8 0.05
99 7 0.04
101 7 0.04
102 8 0.05
103 85 0.52
104 16 0.10
105 5 0.03
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (100 bp):
CTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAATAACCCTAAACACTTAACTTA
AAAACCCTAACCTTAACCTAAATTAATTAAAAACT
Found at i:30121949 original size:103 final size:99
Alignment explanation
Indices: 30121654--30121903 Score: 409
Period size: 103 Copynumber: 2.5 Consensus size: 99
30121644 AACCCTAATC
* *
30121654 CTAACCTAATTTAATTAAAAAC--CCTAACCTAATTTAATTAAAAATCCTAAACTCTTAACTTAA
1 CTAACCTAATTTAATTAAAAACTACCTAACCTAATTTAATTAAAAACCCTAAACACTTAACTTAA
*
30121717 AAACCCTAACCTTAACCTAAATTAATTAATAACT
66 AAACCCTAACCTTAACCTAAATTAATTAAAAACT
30121751 CTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACACTTAAC
1 CTAACCTAATTTAATTAAAAA--CT-A-CCTAACCTAATTTAATTAAAAACCCTAAACACTTAAC
30121816 TTAAAAACCCTAACCTTAACCTAAATTAATTAAAAACT
62 TTAAAAACCCTAACCTTAACCTAAATTAATTAAAAACT
30121854 CTAACCTAATTTAATTAAAAA-T-CCTAACCTAATTTAATTAAAAACCCTAA
1 CTAACCTAATTTAATTAAAAACTACCTAACCTAATTTAATTAAAAACCCTAA
30121904 CCCTAACCTA
Statistics
Matches: 144, Mismatches: 3, Indels: 12
0.91 0.02 0.08
Matches are distributed among these distances:
97 49 0.34
99 1 0.01
100 1 0.01
103 93 0.65
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.30
Consensus pattern (99 bp):
CTAACCTAATTTAATTAAAAACTACCTAACCTAATTTAATTAAAAACCCTAAACACTTAACTTAA
AAACCCTAACCTTAACCTAAATTAATTAAAAACT
Found at i:30125977 original size:10 final size:10
Alignment explanation
Indices: 30125957--30126029 Score: 51
Period size: 11 Copynumber: 7.1 Consensus size: 10
30125947 TCACTTAATT
30125957 AATTTTT-AA
1 AATTTTTAAA
30125966 AATTTTTAAA
1 AATTTTTAAA
** *
30125976 AATTCAATGAA
1 AATT-TTTAAA
*
30125987 AATTATATAAA
1 AATT-TTTAAA
30125998 ATATTTTTAAA
1 A-ATTTTTAAA
*
30126009 AATTATT-AA
1 AATTTTTAAA
30126018 AATTATTTAAA
1 AATT-TTTAAA
30126029 A
1 A
30126030 TGTATAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
9 13 0.26
10 13 0.26
11 21 0.42
12 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:30125998 original size:31 final size:29
Alignment explanation
Indices: 30125963--30126039 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 29
30125953 AATTAATTTT
30125963 TAAAATTTTTAAAAATTCAATGAAAATTATA
1 TAAAATTTTTAAAAATT--ATGAAAATTATA
* *
30125994 TAAAATATTTTTAAAAATTATTAAAATTATT
1 T-AAA-ATTTTTAAAAATTATGAAAATTATA
* *
30126025 TAAAATGTATAAAAA
1 TAAAATTTTTAAAAA
30126040 ATATATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 9 0.22
30 3 0.08
31 12 0.30
32 3 0.08
33 13 0.32
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (29 bp):
TAAAATTTTTAAAAATTATGAAAATTATA
Found at i:30126010 original size:22 final size:21
Alignment explanation
Indices: 30125985--30126048 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
30125975 AAATTCAATG
30125985 AAAATTATATAAAATATTTTT
1 AAAATTATATAAAATATTTTT
*
30126006 AAAAATTAT-TAAAAT-TATTT
1 -AAAATTATATAAAATATTTTT
*
30126026 AAAATGTATAAAAAATATATTTT
1 AAAAT-TATATAAAATAT-TTTT
30126049 TAATATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 5 0.14
20 7 0.20
21 11 0.31
22 9 0.26
23 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AAAATTATATAAAATATTTTT
Found at i:30126020 original size:42 final size:42
Alignment explanation
Indices: 30125958--30126048 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 42
30125948 CACTTAATTA
* *
30125958 ATTTTTAAAATTTTTAAAAATTCAATGAAAAT-TATATAAAAT
1 ATTTTTAAAATTATTAAAAATT-AATGAAAATGTATAAAAAAT
* *
30126000 ATTTTTAAAAATTATT-AAAATTATTTAAAATGTATAAAAAAT
1 ATTTTT-AAAATTATTAAAAATTAATGAAAATGTATAAAAAAT
30126042 ATATTTT
1 AT-TTTT
30126049 TAATATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
41 7 0.17
42 23 0.55
43 12 0.29
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (42 bp):
ATTTTTAAAATTATTAAAAATTAATGAAAATGTATAAAAAAT
Found at i:30126030 original size:10 final size:10
Alignment explanation
Indices: 30125957--30126030 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
30125947 TCACTTAATT
30125957 AATT-TTTAA
1 AATTATTTAA
30125966 AATT-TTTAAA
1 AATTATTT-AA
* *
30125976 AATTCAATGAA
1 AATT-ATTTAA
*
30125987 AATTATATAA
1 AATTATTTAA
*
30125997 AATATTTTTAAA
1 AAT-TATTT-AA
30126009 AATTA-TTAA
1 AATTATTTAA
30126018 AATTATTTAA
1 AATTATTTAA
30126028 AAT
1 AAT
30126031 GTATAAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
9 14 0.27
10 21 0.41
11 10 0.20
12 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (10 bp):
AATTATTTAA
Found at i:30126069 original size:42 final size:40
Alignment explanation
Indices: 30125958--30126071 Score: 104
Period size: 43 Copynumber: 2.7 Consensus size: 40
30125948 CACTTAATTA
* *
30125958 ATTTTTAAAATTTTTAAAAATTCAATGAAAATTATATAAAATAT
1 ATTTTTAAAATTTTT-AAAATT---TTAAAATTATAAAAAATAT
* *
30126002 -TTTTAAAAATTATTAAAATTATTTAAAATGTATAAAAAATAT
1 ATTTTTAAAATTTTTAAAA-T-TTTAAAAT-TATAAAAAATAT
*
30126044 ATTTTTAATATTTTTAAACATTTTAAAA
1 ATTTTTAAAATTTTTAAA-ATTTTAAAA
30126072 ATTAAGTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
41 6 0.10
42 22 0.38
43 28 0.48
44 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (40 bp):
ATTTTTAAAATTTTTAAAATTTTAAAATTATAAAAAATAT
Found at i:30127927 original size:19 final size:19
Alignment explanation
Indices: 30127902--30127945 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
30127892 TTTTAGAAAT
*
30127902 TATTTTTTATCA-TATTAA
1 TATTTTTTATAATTATTAA
*
30127920 TAATTTTTATAATTATTAA
1 TATTTTTTATAATTATTAA
30127939 TATTTTT
1 TATTTTT
30127946 AAAAATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTTATAATTATTAA
Found at i:30127928 original size:18 final size:18
Alignment explanation
Indices: 30127905--30127946 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
30127895 TAGAAATTAT
*
30127905 TTTTTATCA-TATTAATAA
1 TTTTTATAATTATTAAT-A
30127923 TTTTTATAATTATTAATA
1 TTTTTATAATTATTAATA
30127941 TTTTTA
1 TTTTTA
30127947 AAAATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTATTAATA
Found at i:30137954 original size:50 final size:50
Alignment explanation
Indices: 30137899--30138092 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 50
30137889 CGTTGAGATT
* * *
30137899 ATGAGAGGTCCCATGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * *
30137949 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * *
30137999 ATGAGAACTCCTATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** *
30138048 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30138093 TGTTATTATC
Statistics
Matches: 120, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.32
50 81 0.68
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:30139320 original size:39 final size:37
Alignment explanation
Indices: 30139253--30139345 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
30139243 ACCAGAATGG
* *
30139253 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
30139292 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
30139329 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
30139346 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:30140465 original size:17 final size:16
Alignment explanation
Indices: 30140433--30140466 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
30140423 TTGGCTATTC
*
30140433 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
30140449 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
30140466 T
1 T
30140467 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:30140513 original size:14 final size:14
Alignment explanation
Indices: 30140455--30140504 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
30140445 CTTTTGTTTC
*
30140455 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
30140468 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
30140483 -TTTATTTCCTTTA
1 TTTTATTTCCTTTA
30140496 TTTTATTTC
1 TTTTATTTC
30140505 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 12 0.40
14 12 0.40
15 6 0.20
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:30140673 original size:14 final size:17
Alignment explanation
Indices: 30140654--30140690 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
30140644 ATTTATTTCT
30140654 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
30140668 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
30140685 TAATAT
1 TAATAT
30140691 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:30145034 original size:42 final size:42
Alignment explanation
Indices: 30144939--30145036 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 42
30144929 CAAGTCAGGC
* * *
30144939 AGTTACACGGCCTGACACACAGGCGTGTGAGGCCATTTCAAG
1 AGTTACACGGCCTGGCACACAGGCGCGTGAGACCATTTCAAG
* * * **
30144981 AGTT--ATGGCCTGGCACACGGGCGCGTGATACCATTTTGAG
1 AGTTACACGGCCTGGCACACAGGCGCGTGAGACCATTTCAAG
30145021 AGTTACACGGCCTGGC
1 AGTTACACGGCCTGGC
30145037 GTGTGTCTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
40 32 0.71
42 13 0.29
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.21
Consensus pattern (42 bp):
AGTTACACGGCCTGGCACACAGGCGCGTGAGACCATTTCAAG
Found at i:30147348 original size:17 final size:17
Alignment explanation
Indices: 30147326--30147359 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30147316 GACTAATCCC
*
30147326 TATACATCACTTAGGTA
1 TATACATCACCTAGGTA
*
30147343 TATACATTACCTAGGTA
1 TATACATCACCTAGGTA
30147360 CATGCCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
TATACATCACCTAGGTA
Found at i:30148100 original size:26 final size:24
Alignment explanation
Indices: 30148020--30148101 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
30148010 ATACGGAACA
* *
30148020 AATA-CAGAGAGCACAAATGTGCT
1 AATATCAGAGAGCACCAACGTGCT
30148043 AA-A-CAGAGAGCACCAACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
30148065 AATATCAGAGAGCACCAACGTGCT
1 AATATCAGAGAGCACCAACGTGCT
30148089 AATATCAGAGAGC
1 AATATCAGAGAGC
30148102 GCACTAAAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
22 20 0.36
23 3 0.05
24 32 0.58
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (24 bp):
AATATCAGAGAGCACCAACGTGCT
Found at i:30148331 original size:2 final size:2
Alignment explanation
Indices: 30148324--30148360 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30148314 TATTCCATTC
30148324 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30148361 ATTCATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30149278 original size:5 final size:5
Alignment explanation
Indices: 30149265--30149336 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
30149255 TTGTTTTATG
30149265 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
30149313 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
30149337 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:30149290 original size:19 final size:19
Alignment explanation
Indices: 30149266--30149308 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
30149256 TGTTTTATGT
30149266 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
30149285 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
30149304 ATATA
1 ATATA
30149309 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Done.