Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 123 of 438
Found at i:36274411 original size:46 final size:45
Alignment explanation
Indices: 36274361--36274529 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
36274351 ATCTCGTAAT
36274361 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTGAGGC
* * * *
36274407 CGATGCATGTCCCGGACATGTCTTACACTAGAAC-TCGTCTCGATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-G-GCTTCGTCTTGAGGC
* * * * ** *
36274453 CGATGTCATATCCCATACATGGTCTTACACAGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGTCTTGAGGC
*
36274501 CGATGCATGTCCCAGACACGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
36274530 AGCCCACAAT
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
46 52 0.53
47 25 0.26
48 21 0.21
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTGAGGC
Found at i:36279580 original size:40 final size:40
Alignment explanation
Indices: 36279535--36279701 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
36279525 CGGAATATAA
36279535 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
36279575 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
36279615 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
36279655 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
36279694 CCGGATAT
1 CCGGATAT
36279702 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36279685 original size:80 final size:79
Alignment explanation
Indices: 36279535--36279701 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
36279525 CGGAATATAA
* *
36279535 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
36279600 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
36279615 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
36279677 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
36279694 CCGGATAT
1 CCGGATAT
36279702 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:36280549 original size:17 final size:19
Alignment explanation
Indices: 36280526--36280571 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
36280516 AAGAAGCATG
36280526 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
36280544 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
36280562 AATCATGCTC
1 AATCATGCTC
36280572 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:36287592 original size:40 final size:40
Alignment explanation
Indices: 36287547--36287713 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
36287537 CGGAATATAA
36287547 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
36287587 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
36287627 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
36287667 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
36287706 CCGGATAT
1 CCGGATAT
36287714 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:36287697 original size:80 final size:79
Alignment explanation
Indices: 36287547--36287713 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
36287537 CGGAATATAA
* *
36287547 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
36287612 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
36287627 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
36287689 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
36287706 CCGGATAT
1 CCGGATAT
36287714 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:36288562 original size:17 final size:19
Alignment explanation
Indices: 36288539--36288584 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
36288529 AAGAAGCATG
36288539 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
36288557 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
36288575 AATCATGCTC
1 AATCATGCTC
36288585 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:36289935 original size:22 final size:22
Alignment explanation
Indices: 36289904--36289947 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36289894 CAAAAATAAT
*
36289904 CAAAACTAATAAAAATTTATTA
1 CAAAACTAATAAAAATTCATTA
* *
36289926 CAAAATTAATTAAAATTCATTA
1 CAAAACTAATAAAAATTCATTA
36289948 GGTTAATAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (22 bp):
CAAAACTAATAAAAATTCATTA
Found at i:36297787 original size:29 final size:29
Alignment explanation
Indices: 36297693--36297765 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
36297683 GTGACGAGAT
36297693 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36297722 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36297751 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
36297766 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:36297861 original size:2 final size:2
Alignment explanation
Indices: 36297856--36297892 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
36297846 GTGTGCGTAC
36297856 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36297893 CTCCGATCGA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36304235 original size:29 final size:29
Alignment explanation
Indices: 36304141--36304213 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
36304131 GTGACGAGAT
36304141 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36304170 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36304199 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
36304214 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:36311965 original size:40 final size:39
Alignment explanation
Indices: 36311901--36312072 Score: 157
Period size: 40 Copynumber: 4.3 Consensus size: 39
36311891 TCTTCAGAAT
* **
36311901 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAA-TGCCTTCGGGTC
* * *** *
36311940 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
36311980 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTCGGGTC
** * * * *
36312020 TTAGCCCGGATATAATTACTAGCATAAATGCATTCGGGAC
1 TTAGCCCGGATATAACAACTCGCA-CAATGCCTTCGGGTC
*
36312060 TTAGCCCAGATAT
1 TTAGCCCGGATAT
36312073 CATTCAAATG
Statistics
Matches: 108, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.03
40 103 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTCGCACAATGCCTTCGGGTC
Found at i:36312049 original size:80 final size:80
Alignment explanation
Indices: 36311901--36312072 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 80
36311891 TCTTCAGAAT
* * ** *
36311901 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
* *
36311965 AAATGCCTTCGGGTC
66 AAATGCATTCGGGAC
** * *
36311980 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCA
1 TTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCA
*
36312044 TAAATGCATTCGGGAC
65 CAAATGCATTCGGGAC
*
36312060 TTAGCCCAGATAT
1 TTAGCCCGGATAT
36312073 CATTCAAATG
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 4 0.05
80 72 0.92
81 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
TTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATAACTAGCAC
AAATGCATTCGGGAC
Found at i:36320024 original size:40 final size:40
Alignment explanation
Indices: 36319976--36320147 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 40
36319966 TCTTCGAAAT
* * *
36319976 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** * * *
36320015 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGATT
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * **
36320055 TTAGCCTGGATATAACAACTCGCATGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
36320095 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
*
36320135 TTAGCCCAGATAT
1 TTAGCCCGGATAT
36320148 CATTCAAATG
Statistics
Matches: 104, Mismatches: 27, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
39 3 0.03
40 100 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:36323130 original size:21 final size:21
Alignment explanation
Indices: 36323106--36323182 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 21
36323096 AGTACATATT
*
36323106 AACATGTAATTAAACAACTTA
1 AACATATAATTAAACAACTTA
* *
36323127 AACATACATTTTAAATACATA-TT-
1 AACATATA-ATT-AA-ACA-ACTTA
36323150 AACATATAATTAAACAACTTA
1 AACATATAATTAAACAACTTA
36323171 AACATAATAATT
1 AACAT-ATAATT
36323183 TGTACATACG
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 13 0.30
22 10 0.23
23 9 0.20
24 5 0.11
25 1 0.02
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (21 bp):
AACATATAATTAAACAACTTA
Found at i:36323152 original size:44 final size:44
Alignment explanation
Indices: 36323089--36323176 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
36323079 TATTCAATAG
* *
36323089 CATTTTAAGTACATATTAACATGTAATTAAACAACTTAAACATA
1 CATTTTAAATACATATTAACATATAATTAAACAACTTAAACATA
36323133 CATTTTAAATACATATTAACATATAATTAAACAACTTAAACATA
1 CATTTTAAATACATATTAACATATAATTAAACAACTTAAACATA
36323177 ATAATTTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (44 bp):
CATTTTAAATACATATTAACATATAATTAAACAACTTAAACATA
Found at i:36323180 original size:22 final size:22
Alignment explanation
Indices: 36323112--36323182 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
36323102 TATTAACATG
36323112 TAATTAAACAACTTAAACATACA
1 TAATTAAACAACTTAAACATA-A
*
36323135 T-TTTAAATACATA-TT-AACAT-A
1 TAATT-AA-ACA-ACTTAAACATAA
36323156 TAATTAAACAACTTAAACATAA
1 TAATTAAACAACTTAAACATAA
36323178 TAATT
1 TAATT
36323183 TGTACATACG
Statistics
Matches: 39, Mismatches: 2, Indels: 15
0.70 0.04 0.27
Matches are distributed among these distances:
19 1 0.03
20 5 0.13
21 9 0.23
22 10 0.26
23 8 0.21
24 5 0.13
25 1 0.03
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (22 bp):
TAATTAAACAACTTAAACATAA
Found at i:36328126 original size:37 final size:37
Alignment explanation
Indices: 36328076--36328202 Score: 229
Period size: 37 Copynumber: 3.4 Consensus size: 37
36328066 TTATTACGAA
36328076 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
36328113 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
36328150 GTCTTACCCGGACATAATCTCCACAC-TAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
36328186 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
36328203 TTTCCAAGTT
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
36 20 0.23
37 68 0.77
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:36328300 original size:48 final size:48
Alignment explanation
Indices: 36328242--36328393 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
36328232 TGTTACAACA
*
36328242 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
36328290 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
36328338 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
36328386 TTCACATT
1 TTCACATT
36328394 CATCACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:36328442 original size:49 final size:49
Alignment explanation
Indices: 36328385--36328718 Score: 568
Period size: 49 Copynumber: 6.9 Consensus size: 49
36328375 CACACATATA
*
36328385 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
36328434 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
36328481 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
36328528 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
36328577 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
36328626 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
36328675 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
36328719 CATCTCATAC
Statistics
Matches: 275, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 91 0.33
49 184 0.67
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:36332341 original size:40 final size:40
Alignment explanation
Indices: 36332292--36332432 Score: 185
Period size: 40 Copynumber: 3.5 Consensus size: 40
36332282 CCAGCATGAT
* *
36332292 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
36332332 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * **
36332372 TGCTCTTCGGAATTTAGCCCGGATATATTCACTAGCATAAA
1 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCACGAA
* *
36332413 TGC-CTTTGGGACTTAGCCCG
1 TGCTCTTCGGAACTTAGCCCG
36332433 AGTATCATTC
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 75 0.84
41 14 0.16
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:36334392 original size:37 final size:37
Alignment explanation
Indices: 36334341--36334468 Score: 229
Period size: 37 Copynumber: 3.4 Consensus size: 37
36334331 TTATTACGAA
36334341 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
36334378 ATCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
36334415 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
36334452 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
36334469 TTTCCAAGTT
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 82 0.94
38 5 0.06
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:36334566 original size:48 final size:48
Alignment explanation
Indices: 36334508--36334659 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
36334498 TGTTACAACA
*
36334508 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
36334556 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
36334604 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
36334652 TTCACATT
1 TTCACATT
36334660 CATCACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:36334708 original size:49 final size:49
Alignment explanation
Indices: 36334651--36334983 Score: 568
Period size: 49 Copynumber: 6.9 Consensus size: 49
36334641 CACACATATA
*
36334651 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
36334700 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA-A-ATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
36334747 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
36334794 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
36334843 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
36334892 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
36334941 -TTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
36334984 CATCTCATAC
Statistics
Matches: 272, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
45 1 0.00
46 1 0.00
47 83 0.31
48 43 0.16
49 144 0.53
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:36334751 original size:96 final size:96
Alignment explanation
Indices: 36334651--36334983 Score: 546
Period size: 96 Copynumber: 3.5 Consensus size: 96
36334641 CACACATATA
* *
36334651 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
36334716 TCGGCCATTAGGCCTTATCACATAAATACTC
66 TTGGCCATTAGGCCTTATCACATAAATACAC
*
36334747 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
36334810 TTGGCCATTAGGCCTTATCACATGTATATACAC
66 TTGGCCATTAGGCCTTATCACA--TAAATACAC
36334843 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
36334908 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TTGGCCATTAGGCCTTATCACATA-A-ATACAC
*
36334941 -TTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
36334984 CATCTCATAC
Statistics
Matches: 222, Mismatches: 9, Indels: 11
0.92 0.04 0.05
Matches are distributed among these distances:
94 45 0.20
96 82 0.37
97 42 0.19
98 53 0.24
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATAAATACAC
Found at i:36350748 original size:24 final size:24
Alignment explanation
Indices: 36350658--36350802 Score: 102
Period size: 24 Copynumber: 6.0 Consensus size: 24
36350648 CTATAGATAA
36350658 GAAATT-TA-AGCACTATGTGTGC
1 GAAATTATATAGCACTATGTGTGC
** **
36350680 GAGGTTATGCAGCACTATGTGTGC
1 GAAATTATATAGCACTATGTGTGC
* * * *
36350704 AAAAACTAAATGGCACTATGTGTGC
1 -GAAATTATATAGCACTATGTGTGC
36350729 GAAATTATATAGCACTATGTGTGC
1 GAAATTATATAGCACTATGTGTGC
* *
36350753 GAGGAA--ATGTGGCACTATGTGTGC
1 GA--AATTATATAGCACTATGTGTGC
* *
36350777 -AAATGAGTAAGAGCACTATGTGTGC
1 GAAATTA-T-ATAGCACTATGTGTGC
36350802 G
1 G
36350803 GACCTTTAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
21 2 0.02
22 4 0.04
23 3 0.03
24 53 0.57
25 29 0.31
26 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (24 bp):
GAAATTATATAGCACTATGTGTGC
Found at i:36350793 original size:73 final size:70
Alignment explanation
Indices: 36350658--36350802 Score: 184
Period size: 73 Copynumber: 2.0 Consensus size: 70
36350648 CTATAGATAA
**
36350658 GAAATTTAAGCACTATGTGTGCGAGGTTATGCAGCACTATGTGTGCAAAAACTAAATGGCACTAT
1 GAAATTTAAGCACTATGTGTGCGAGGAAATGCAGCACTATGTGTGCAAAAACTAAA-GGCACTAT
36350723 GTGTGC
65 GTGTGC
** * *
36350729 GAAATTATATAGCACTATGTGTGCGAGGAAATGTGGCACTATGTGTGCAAATGAGT-AAGAGCAC
1 GAAATT-TA-AGCACTATGTGTGCGAGGAAATGCAGCACTATGTGTGCAAA-AACTAAAG-GCAC
36350793 TATGTGTGC
62 TATGTGTGC
36350802 G
1 G
36350803 GACCTTTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
71 6 0.09
72 3 0.05
73 53 0.83
74 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (70 bp):
GAAATTTAAGCACTATGTGTGCGAGGAAATGCAGCACTATGTGTGCAAAAACTAAAGGCACTATG
TGTGC
Found at i:36353615 original size:40 final size:40
Alignment explanation
Indices: 36353541--36353686 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
36353531 CCGCACCAAG
* * * * * *
36353541 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
36353581 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
36353621 GCCTTCGGGTCTTAGCCCAGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
36353661 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
36353687 TTTTCAGCAT
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:36353701 original size:40 final size:40
Alignment explanation
Indices: 36353573--36353724 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
36353563 ATCACGATTT
* * * * *
36353573 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
*
36353613 GCACGAA-TGCCTTCGGGTCTTAGCCCAGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
36353653 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
36353693 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
36353725 CATTCAATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.04
40 89 0.94
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:36361214 original size:34 final size:30
Alignment explanation
Indices: 36361143--36361202 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
36361133 CTCACTTATC
36361143 CGAATTTCGTCAAATACAACCATAGAATCA
1 CGAATTTCGTCAAATACAACCATAGAATCA
36361173 CGAATTTCGTCAAATACAACCATAGAATCA
1 CGAATTTCGTCAAATACAACCATAGAATCA
36361203 ATCATTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.23, G:0.10, T:0.23
Consensus pattern (30 bp):
CGAATTTCGTCAAATACAACCATAGAATCA
Found at i:36362706 original size:15 final size:15
Alignment explanation
Indices: 36362686--36362714 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36362676 CATTGAAAAT
36362686 TTTATTTTATTTTTA
1 TTTATTTTATTTTTA
36362701 TTTATTTTATTTTT
1 TTTATTTTATTTTT
36362715 TTAAAATCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATTTTATTTTTA
Found at i:36371592 original size:55 final size:53
Alignment explanation
Indices: 36371505--36371759 Score: 261
Period size: 55 Copynumber: 4.8 Consensus size: 53
36371495 ATTAGGGTTT
*
36371505 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * *
36371560 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * *
36371615 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * *
36371668 AAGGATACCATGTAAGACCATGTCAAGACAAGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * ** *
36371717 AAGGATACCACGTAAGACCATGACAATTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
36371760 GTGCCCGCAT
Statistics
Matches: 169, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
49 38 0.22
52 7 0.04
53 41 0.24
54 11 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:36371711 original size:108 final size:110
Alignment explanation
Indices: 36371512--36371712 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
36371502 TTTAAGGATA
*
36371512 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
36371577 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACAAGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
36371622 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTC-TAAGGCAAGGAAACCATGTAAG
*
36371684 ACCATGTCAAGACAAGGCAATGGTAAGTT
65 ACCATGTCAAGACAAGGCAATGATAAGTT
36371713 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAACGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACAAGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:36371969 original size:20 final size:20
Alignment explanation
Indices: 36371944--36371984 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36371934 GTATTAATAA
*
36371944 ATTTAATTAAGTAAGTAAGT
1 ATTTAAGTAAGTAAGTAAGT
*
36371964 ATTTAAGTAAGTGAGTAAGT
1 ATTTAAGTAAGTAAGTAAGT
36371984 A
1 A
36371985 AAGAAGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.37
Consensus pattern (20 bp):
ATTTAAGTAAGTAAGTAAGT
Found at i:36371971 original size:16 final size:16
Alignment explanation
Indices: 36371950--36371980 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36371940 ATAAATTTAA
36371950 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
36371966 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
36371981 AGTAAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:36379117 original size:55 final size:54
Alignment explanation
Indices: 36379030--36379284 Score: 278
Period size: 55 Copynumber: 4.8 Consensus size: 54
36379020 ATTAGGGTTT
*
36379030 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
36379085 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
36379140 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
36379193 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
36379242 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
36379285 GTACCGCGTA
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:36379236 original size:108 final size:110
Alignment explanation
Indices: 36379037--36379237 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
36379027 TTTAAGGATA
*
36379037 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
36379102 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
36379147 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
36379209 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
36379238 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:36379495 original size:16 final size:16
Alignment explanation
Indices: 36379474--36379504 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36379464 ATAAATTTGA
36379474 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
36379490 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
36379505 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:36383776 original size:42 final size:42
Alignment explanation
Indices: 36383727--36383838 Score: 154
Period size: 43 Copynumber: 2.6 Consensus size: 42
36383717 TGAGATTACG
* *
36383727 TGTAAGACCATATCTGGGATACGGCATCGATATGAGA-CTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATC-CCA
* *
36383769 TGTAAGACCATATCGGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCCCA
*
36383812 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
36383839 TGGTATAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
42 25 0.41
43 35 0.57
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:36388600 original size:3 final size:3
Alignment explanation
Indices: 36388577--36388652 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
36388567 CCTGGGCAGT
* *
36388577 AGA AGA ATA AG- AGA A-A A-A AGA AGA ATA AG- AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * *
36388621 AGA AAA AGA AG- AGA AGG AGA AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
36388653 GAAAATGGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
2 10 0.17
3 49 0.83
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (3 bp):
AGA
Found at i:36388611 original size:23 final size:23
Alignment explanation
Indices: 36388585--36388655 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
36388575 GTAGAAGAAT
*
36388585 AAGAGAAAAAAGAAGAATAAGAG
1 AAGAGAAAGAAGAAGAATAAGAG
36388608 AAGA-AGAAGAAGAAGAA-AA-AG
1 AAGAGA-AAGAAGAAGAATAAGAG
36388629 AAGAGAAGGAGAAGAAGAATAAGAG
1 AAGAGAA--AGAAGAAGAATAAGAG
36388654 AA
1 AA
36388656 AATGGAAGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.17
22 4 0.10
23 24 0.59
24 2 0.05
25 4 0.10
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (23 bp):
AAGAGAAAGAAGAAGAATAAGAG
Found at i:36388614 original size:26 final size:26
Alignment explanation
Indices: 36388591--36388644 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
36388581 GAATAAGAGA
* *
36388591 AAAAAGAAGAATAAGAGAAGAAGAAG
1 AAAAAGAAAAAGAAGAGAAGAAGAAG
* *
36388617 AAGAAGAAAAAGAAGAGAAGGAGAAG
1 AAAAAGAAAAAGAAGAGAAGAAGAAG
36388643 AA
1 AA
36388645 GAATAAGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.02
Consensus pattern (26 bp):
AAAAAGAAAAAGAAGAGAAGAAGAAG
Found at i:36388615 original size:32 final size:32
Alignment explanation
Indices: 36388577--36388657 Score: 112
Period size: 32 Copynumber: 2.5 Consensus size: 32
36388567 CCTGGGCAGT
36388577 AGAAGAATAAGAGAAAAAAGAAGA-ATAAGAGA
1 AGAAGAATAAGAGAAAAAAGAAGAGA-AAGAGA
* *
36388609 AGAAGAAGAAGA-AGAAAAAGAAGAGAAGGAGA
1 AGAAGAATAAGAGA-AAAAAGAAGAGAAAGAGA
36388641 AGAAGAATAAGAGAAAA
1 AGAAGAATAAGAGAAAA
36388658 TGGAAGGAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
31 1 0.02
32 40 0.93
33 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (32 bp):
AGAAGAATAAGAGAAAAAAGAAGAGAAAGAGA
Found at i:36389005 original size:23 final size:26
Alignment explanation
Indices: 36388957--36389023 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 26
36388947 GTTTTCCTAT
*
36388957 TATTACTAGT-TTAATAAAATATT-A
1 TATTACTAGTAGTAATAAAATATTAA
36388981 -ATTACTAGTAGTAATAATAA-A-TAA
1 TATTACTAGTAGTAATAA-AATATTAA
36389005 TATTAACTAGTATGTAATA
1 TATT-ACTAGTA-GTAATA
36389024 TTGCATGTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
23 10 0.28
24 8 0.22
25 5 0.14
26 7 0.19
27 6 0.17
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTACTAGTAGTAATAAAATATTAA
Found at i:36393615 original size:2 final size:2
Alignment explanation
Indices: 36393608--36393635 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36393598 ATAATTTATG
36393608 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36393636 TATTAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36395007 original size:32 final size:32
Alignment explanation
Indices: 36394969--36395029 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
36394959 ATATGAATTT
* * *
36394969 ATTTTATATATTTTAGTTATTAA-ATATAATAC
1 ATTTTAT-GATTTTAATAATTAATATATAATAC
36395001 ATTTTATGATTTTAATAATTAATATATAA
1 ATTTTATGATTTTAATAATTAATATATAA
36395030 AAATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (32 bp):
ATTTTATGATTTTAATAATTAATATATAATAC
Found at i:36396539 original size:46 final size:47
Alignment explanation
Indices: 36396486--36396608 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 47
36396476 TGGTATGTGA
*
36396486 GCCAGTGTAAGATATGTTTGGGACATGCATCA-GCCACATCATGAGT
1 GCCAGTGTAAGACATGTTTGGGACATGCATCAGGCCACATCATGAGT
* * * *
36396532 GCCAGTGTAAGACATGTCTGGGATATGAAT-AGGCTACATCATGAGT
1 GCCAGTGTAAGACATGTTTGGGACATGCATCAGGCCACATCATGAGT
* *
36396578 GTCAGTGTAAGACATGTTTGGGACACGCATC
1 GCCAGTGTAAGACATGTTTGGGACATGCATC
36396609 GGCATTGAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.02
46 64 0.98
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTTTGGGACATGCATCAGGCCACATCATGAGT
Found at i:36396718 original size:38 final size:39
Alignment explanation
Indices: 36396676--36396750 Score: 116
Period size: 38 Copynumber: 1.9 Consensus size: 39
36396666 ATACAAGCTA
*
36396676 GTGTAAGACCTATCTGGGACATGGCGTCAG-CTTGATGT
1 GTGTAAGACCTATCTGGGACATGGCATCAGCCTTGATGT
* *
36396714 GTGTAAGACCTGTTTGGGACATGGCATCAGCCTTGAT
1 GTGTAAGACCTATCTGGGACATGGCATCAGCCTTGAT
36396751 ATATGAAAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 27 0.82
39 6 0.18
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (39 bp):
GTGTAAGACCTATCTGGGACATGGCATCAGCCTTGATGT
Found at i:36398086 original size:19 final size:21
Alignment explanation
Indices: 36398048--36398086 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
36398038 GTCATAGTAG
36398048 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
36398069 CCACA-GGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
36398087 ATTTCAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 7 0.39
21 5 0.28
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:36402879 original size:28 final size:27
Alignment explanation
Indices: 36402816--36402885 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
36402806 ATAGTGAGTC
36402816 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
36402843 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
36402871 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36402886 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:36407494 original size:46 final size:46
Alignment explanation
Indices: 36407420--36407548 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 46
36407410 GGTGGTATGT
* * *
36407420 GAGCCAATGTAAGACATGTCTGGGACATGCATCGGCCACAT-CATGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCA-ATACACGA
* * *
36407466 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGG-CATTGAGACGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCAAT-ACACGA
*
36407512 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCC
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCC
36407549 TCGGGATATA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 1 0.01
45 2 0.03
46 68 0.94
47 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCAATACACGA
Found at i:36407722 original size:49 final size:49
Alignment explanation
Indices: 36407611--36407780 Score: 164
Period size: 49 Copynumber: 3.5 Consensus size: 49
36407601 TGTATGTCAA
* *
36407611 TGTAAGACCTATCTGGGACATGGCATCGACACCGATAGATGAAAGCCAG
1 TGTAAGACCTGTCTGAGACATGGCATCGACACCGATAGATGAAAGCCAG
* * * **
36407660 TGTAAGACCTGTCTGAGACATGGCATCGGCATCGATATATGAAAGTTAG
1 TGTAAGACCTGTCTGAGACATGGCATCGACACCGATAGATGAAAGCCAG
* * * * ** * **
36407709 TGTAAGACTTGTCTCAGACACGACATCGACTTCAAT-G-TGCTAGCCAG
1 TGTAAGACCTGTCTGAGACATGGCATCGACACCGATAGATGAAAGCCAG
*
36407756 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACC-TGTCTGAGACATGGC
36407781 GTCGGCATTT
Statistics
Matches: 96, Mismatches: 24, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
47 14 0.15
48 11 0.11
49 71 0.74
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (49 bp):
TGTAAGACCTGTCTGAGACATGGCATCGACACCGATAGATGAAAGCCAG
Found at i:36410110 original size:40 final size:40
Alignment explanation
Indices: 36410016--36410160 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
36410006 TACTCGAATG
* *
36410016 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAACGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
36410057 ACATCCGGACTAAGAT-TCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
36410097 ATATCTGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
36410137 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
36410161 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.67
41 27 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:36417190 original size:14 final size:14
Alignment explanation
Indices: 36417143--36417190 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
36417133 GTACGAATGG
*
36417143 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
36417157 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
36417171 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
36417185 ATTGGT
1 AATGGT
36417191 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:36420415 original size:12 final size:12
Alignment explanation
Indices: 36420398--36420432 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
36420388 TAGGTTTCCA
36420398 AAAATGAAAATT
1 AAAATGAAAATT
36420410 AAAATGAAAATT
1 AAAATGAAAATT
*
36420422 AAAATGGAAAT
1 AAAATGAAAAT
36420433 GGAAATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (12 bp):
AAAATGAAAATT
Found at i:36420615 original size:26 final size:25
Alignment explanation
Indices: 36420586--36420653 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
36420576 TCTCGAAATT
36420586 TTACTAGGGGTAAAATTGTCAAAAAC
1 TTACTAGGGGTAAAATTGTC-AAAAC
* * *
36420612 TTACCAGGGGTAGAATTGTCAAAAT
1 TTACTAGGGGTAAAATTGTCAAAAC
36420637 TTAACT-GGGGTAAAATT
1 TT-ACTAGGGGTAAAATT
36420654 AGGGTGAGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 16 0.44
26 20 0.56
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.29
Consensus pattern (25 bp):
TTACTAGGGGTAAAATTGTCAAAAC
Found at i:36420646 original size:25 final size:26
Alignment explanation
Indices: 36420581--36420653 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
36420571 AATTTTCTCG
*
36420581 AAATTTTACTAGGGGTAAAATTGTCAA
1 AAATTTAACT-GGGGTAAAATTGTCAA
* * * *
36420608 AAACTTACCAGGGGTAGAATTGTC-A
1 AAATTTAACTGGGGTAAAATTGTCAA
36420633 AAATTTAACTGGGGTAAAATT
1 AAATTTAACTGGGGTAAAATT
36420654 AGGGTGAGAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
25 18 0.49
26 13 0.35
27 6 0.16
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.30
Consensus pattern (26 bp):
AAATTTAACTGGGGTAAAATTGTCAA
Found at i:36430309 original size:55 final size:54
Alignment explanation
Indices: 36430201--36430309 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
36430191 CGTGAAAGAA
** *
36430201 AAAGAAAAAAAAAAATTGTTCATCCATTCTAAACACTTGGCCGAATGTCCTAAG
1 AAAGAAAAAAAAAAATTGTTCATCCATTCTAAACACTTGGCCGAAAATACTAAG
* * * * * *
36430255 AAAGAAAAGAAAAATTTGTTCATCCTTTCTCATCTTCTTGGCCGAAAATACTAAG
1 AAAGAAAAAAAAAAATTGTTCATCCATTCTAAAC-ACTTGGCCGAAAATACTAAG
36430310 GAAAAGGGGA
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
54 29 0.64
55 16 0.36
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (54 bp):
AAAGAAAAAAAAAAATTGTTCATCCATTCTAAACACTTGGCCGAAAATACTAAG
Found at i:36431556 original size:40 final size:40
Alignment explanation
Indices: 36431490--36431656 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
36431480 AAATTGAATG
* * *
36431490 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
36431529 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
36431569 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
36431609 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
36431649 ATATCCGG
1 ATATCCGG
36431657 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:36439593 original size:40 final size:40
Alignment explanation
Indices: 36439527--36439693 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
36439517 AAATTGAATG
* * *
36439527 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
36439566 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
36439606 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
36439646 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
36439686 ATATCCGG
1 ATATCCGG
36439694 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:36444236 original size:62 final size:62
Alignment explanation
Indices: 36444165--36444287 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
36444155 TCTTTCAATT
36444165 TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTATTAGTATAGA
1 TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTATTAGTATAGA
*
36444227 TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTGTTAGTATAG
1 TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTATTAGTATAG
36444288 CATTATGTCT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.39
Consensus pattern (62 bp):
TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTATTAGTATAGA
Found at i:36447030 original size:41 final size:42
Alignment explanation
Indices: 36446980--36447098 Score: 123
Period size: 41 Copynumber: 2.8 Consensus size: 42
36446970 ATATGATTAT
* *
36446980 GTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGAT-TC
1 GTGTAAGACCATGTCTGGGACATTGGCATTGTATGTGATGGC
* * * * *
36447021 GTGTAAGACCCTGCCTAGGACAGTGGCATCGATATGTGATGGC
1 GTGTAAGACCATGTCTGGGACATTGGCATTG-TATGTGATGGC
* * * *
36447064 CTGTAAGACCACGTCTGAGACGTTGGCATTGTATG
1 GTGTAAGACCATGTCTGGGACATTGGCATTGTATG
36447099 ATATGTGTGA
Statistics
Matches: 60, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
41 26 0.43
42 11 0.18
43 23 0.38
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATTGTATGTGATGGC
Found at i:36451363 original size:28 final size:28
Alignment explanation
Indices: 36451303--36451363 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
36451293 TAATATCATT
* * *
36451303 ACAGTCTGGGCCTTAGCCCTATACAGTA
1 ACAGTCTGGGCCTAAGCCCAATACAATA
*
36451331 ACAGTGTGGGCCTAAGCCCAATACAATA
1 ACAGTCTGGGCCTAAGCCCAATACAATA
*
36451359 TCAGT
1 ACAGT
36451364 ACAGTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCAATACAATA
Found at i:36451565 original size:27 final size:25
Alignment explanation
Indices: 36451525--36451604 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 25
36451515 AGAAACATTA
*
36451525 AATGTGGCAAAGCCACCAGTATCAGT
1 AATGTGGCATAGCCACCAGTA-CAGT
36451551 AATTGTGGCATAGCCACCAGTAACAGT
1 AA-TGTGGCATAGCCACCAGT-ACAGT
* * *
36451578 GAACGTGACATAGTCACCAGTACAGT
1 -AATGTGGCATAGCCACCAGTACAGT
36451604 A
1 A
36451605 CTTTCTCCAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 1 0.02
26 7 0.15
27 36 0.77
28 3 0.06
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (25 bp):
AATGTGGCATAGCCACCAGTACAGT
Found at i:36455647 original size:27 final size:26
Alignment explanation
Indices: 36455588--36455662 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
36455578 AGAAACAATA
* * *
36455588 AATGTGGCAAAGCCACTAGTATCAGT
1 AATGTGGCATAGCCACCAGTAACAGT
36455614 AATTGTGGCATAGCCACCAGTAACAGT
1 AA-TGTGGCATAGCCACCAGTAACAGT
* *
36455641 GAATGTGACATAGTCACCAGTA
1 -AATGTGGCATAGCCACCAGTA
36455663 GAGTACTTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.05
27 38 0.90
28 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (26 bp):
AATGTGGCATAGCCACCAGTAACAGT
Found at i:36459558 original size:46 final size:46
Alignment explanation
Indices: 36459483--36459848 Score: 464
Period size: 46 Copynumber: 8.0 Consensus size: 46
36459473 TTATCTTTCA
* * * * **
36459483 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
36459529 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
36459575 CACGTTGCCATGGTATCTTTCAACCATGGTCTTA-TGCATTTCACGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATGT
* ***
36459621 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
36459667 CATGTTGCCATGGTATCTCTCAACCATGGTTTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * *
36459713 CACGTTGCCATGGTATCATTCAACCATGGTCTTGCACATTTCATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
36459759 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
36459805 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
36459849 TTCAGAAAGC
Statistics
Matches: 283, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 281 0.99
47 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:36459848 original size:138 final size:138
Alignment explanation
Indices: 36459483--36459838 Score: 525
Period size: 138 Copynumber: 2.6 Consensus size: 138
36459473 TTATCTTTCA
* * * * ** *
36459483 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTT
* * **
36459548 TCAACCATGGTCTTATTCTTTTTATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATGCA
66 TCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCATTCAACCATGGTCTTACACA
36459613 TTTCACGT
131 TTTCACGT
* ** *
36459621 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCATCATGTTGCCATGGTATCTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTT
* *
36459686 TCAACCATGGTTTTATTCTTTTCATGTCACGTTGCCATGGTATCATTCAACCATGGTCTTGCACA
66 TCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCATTCAACCATGGTCTTACACA
36459751 TTTCATC-T
131 TTTCA-CGT
* *
36459759 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTT
36459824 TCAACCATGGTCTTA
66 TCAACCATGGTCTTA
36459839 CACATTTCAT
Statistics
Matches: 194, Mismatches: 23, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
138 193 0.99
139 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.42
Consensus pattern (138 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCATTCAACCATGGTCTTACACA
TTTCACGT
Found at i:36461708 original size:11 final size:11
Alignment explanation
Indices: 36461692--36461739 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
36461682 TTTTTTATAC
36461692 TAATAAAATAA
1 TAATAAAATAA
*
36461703 TAATAAAATATCT
1 TAATAAAATA--A
* *
36461716 TATTAAAATAT
1 TAATAAAATAA
36461727 TAATAAAATAA
1 TAATAAAATAA
36461738 TA
1 TA
36461740 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:36465046 original size:3 final size:3
Alignment explanation
Indices: 36465038--36465100 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
36465028 ATTGCTATGG
36465038 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36465086 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
36465101 ATGTGGTGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36471273 original size:40 final size:40
Alignment explanation
Indices: 36471218--36471421 Score: 275
Period size: 40 Copynumber: 5.1 Consensus size: 40
36471208 TGAATGATAC
* * * *
36471218 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
36471258 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
36471298 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
36471338 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
36471378 CCGGGTTAAGACCCGAAGGTAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
36471418 CCGG
1 CCGG
36471422 CTAAATTCCG
Statistics
Matches: 146, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 144 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:36471351 original size:80 final size:80
Alignment explanation
Indices: 36471214--36471425 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
36471204 CAATTGAATG
* * * *
36471214 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
36471278 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
36471294 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
36471359 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * *
36471374 ATACCCGGGTTAAGACCCGAAGGTAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
36471426 ATTCCGAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 6 0.05
80 111 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:36477091 original size:40 final size:40
Alignment explanation
Indices: 36477035--36477119 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
36477025 CGGGATGTCT
* * *
36477035 ATCCCTGGGTCTTTAGAAGAGGATGACCCGGATAGTGAGA
1 ATCCCTGAGTCATTAGAAGAGGATGACCCAGATAGTGAGA
* *
36477075 ATCCCTGAGTCATTAGAAGAGGTTGACTCAGATAGTGAGA
1 ATCCCTGAGTCATTAGAAGAGGATGACCCAGATAGTGAGA
36477115 ATCCC
1 ATCCC
36477120 AAAGATGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCCTGAGTCATTAGAAGAGGATGACCCAGATAGTGAGA
Found at i:36479645 original size:3 final size:3
Alignment explanation
Indices: 36479637--36479728 Score: 123
Period size: 3 Copynumber: 30.7 Consensus size: 3
36479627 CTTTATTAAA
* * * * *
36479637 TAT TAT TAT TGT TAT T-T CTAA TAT TAT TAA TAT TAT CAC TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
36479682 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
36479729 GATATTAGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
2 1 0.01
3 76 0.99
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:36479863 original size:136 final size:137
Alignment explanation
Indices: 36479706--36479987 Score: 326
Period size: 136 Copynumber: 2.1 Consensus size: 137
36479696 TTATTATTAT
* * * * * * *
36479706 TATTATTATTATTATTATTATTAGATATTAGTGTATACTTTTTATTATATACGTATATGTATATA
1 TATTATTACTATTATCATTATTA-ATATTAATAT-TACTGTATATT-TATA--T-TATATATATA
*
36479771 TATTTATATATAGTATTATTCTTTA-TTACTTTATTTT-A-A-TATT-TT-TATTATATTTGC-T
60 TATTTATACATAGTATTATTCTTTATTTACTTTATTTTAACATTATTATTATATTATATTTGCTT
36479829 TTTTGTATTTCAA
125 TTTTGTATTTCAA
* * *
36479842 TATTATTACTATTATCATTATTATTATTAATATTAGTGTATATTTTTATTATATATATATATTTA
1 TATTATTACTATTATCATTATTAATATTAATATTACTGTATATTTATATTATATATATATATTTA
*
36479907 TACATAGTATTATTTTTTATTTACTTTATTTTAACATTATTATTATATTATATTTGCGTTTTTTT
66 TACATAGTATTATTCTTTATTTACTTTATTTTAACATTATTATTATATTATATTTGC--TTTTTT
*
36479972 GTATTTCAT
129 GTATTTCAA
36479981 TATTATT
1 TATTATT
36479988 GCTAGTTTTA
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
130 32 0.26
131 13 0.10
132 1 0.01
133 4 0.03
134 12 0.10
135 9 0.07
136 33 0.27
139 20 0.16
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (137 bp):
TATTATTACTATTATCATTATTAATATTAATATTACTGTATATTTATATTATATATATATATTTA
TACATAGTATTATTCTTTATTTACTTTATTTTAACATTATTATTATATTATATTTGCTTTTTTGT
ATTTCAA
Found at i:36479947 original size:142 final size:142
Alignment explanation
Indices: 36479700--36479955 Score: 326
Period size: 142 Copynumber: 1.8 Consensus size: 142
36479690 TTATTATTAT
* * *
36479700 TATTATTATTATTATTATTATTATTATTAGATATTAGTGTATACTTTTTATTATATACGTATATG
1 TATTATTACTATTATCATTATTATTATTAGATATTAGTGTATACTTTTTATTATATACATATATG
* * *
36479765 TATATATATTTATATATAGTATTATTCTTTATTACTTTATT-TTAATATTTTTATTATATTTGCT
66 TATACATATTTATATATAGTATTATACTTTATTACATTATTATT-ATATTTTTATTATATTTGCT
36479829 TTTTGTATTTCAA
130 TTTTGTATTTCAA
* *
36479842 TATTATTACTATTATCATTATTATTATTA-ATATTAGTGTATA-TTTTTATTATATATATATATT
1 TATTATTACTATTATCATTATTATTATTAGATATTAGTGTATACTTTTTATTATATACATATATG
**
36479905 TATACATAGTATTAT-T-TTTTATT-TACTTTATTTTAACATTATTATTATATT
66 TATACATA-T-TTATATATAGTATTATACTTTA--TT-ACATTATTATTATATT
36479956 ATATTTGCGT
Statistics
Matches: 98, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
139 6 0.06
140 30 0.31
141 17 0.17
142 43 0.44
143 2 0.02
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (142 bp):
TATTATTACTATTATCATTATTATTATTAGATATTAGTGTATACTTTTTATTATATACATATATG
TATACATATTTATATATAGTATTATACTTTATTACATTATTATTATATTTTTATTATATTTGCTT
TTTGTATTTCAA
Found at i:36484312 original size:27 final size:27
Alignment explanation
Indices: 36484290--36484503 Score: 191
Period size: 27 Copynumber: 7.9 Consensus size: 27
36484280 TCACCACAAC
* *
36484290 ACCCCTAGTTTGTAAAACTACCAAAAT
1 ACCCCTGGTTTGTAAAATTACCAAAAT
* **
36484317 ACCCTTGGTTTACAAAATTACCAAAAT
1 ACCCCTGGTTTGTAAAATTACCAAAAT
36484344 ACCCCTGGTTTGTAAAATTACCAAAAT
1 ACCCCTGGTTTGTAAAATTACCAAAAT
*
36484371 ACCCTTGGTTTGTAAAATTACCAAAAT
1 ACCCCTGGTTTGTAAAATTACCAAAAT
* * * * *
36484398 ACCCTTGATTTGTGAAATTATCGAAAT
1 ACCCCTGGTTTGTAAAATTACCAAAAT
* * * *
36484425 A-CCCTCAGTTTGAAAAACTACTAAAAT
1 ACCCCT-GGTTTGTAAAATTACCAAAAT
* ***
36484452 A-CCCTCGATTTGTAAAATTATTGAAAT
1 ACCCCT-GGTTTGTAAAATTACCAAAAT
**
36484479 A-CCCTCGACTTGTAAAATTACCAAA
1 ACCCCT-GGTTTGTAAAATTACCAAA
36484504 GTAACCTTGA
Statistics
Matches: 154, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 3 0.02
27 151 0.98
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
ACCCCTGGTTTGTAAAATTACCAAAAT
Found at i:36484348 original size:54 final size:54
Alignment explanation
Indices: 36484270--36484401 Score: 192
Period size: 54 Copynumber: 2.4 Consensus size: 54
36484260 GAATACTTTA
* * * *
36484270 GTTTACCAAATCACCACAACACCCCTAGTTTGTAAAACTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAACTACCAAAATACCCTTG
* *
36484324 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAACTACCAAAATACCCTTG
**
36484378 GTTTGTAAAATTACCAAAATACCC
1 GTTTACAAAATTACCAAAATACCC
36484402 TTGATTTGTG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (54 bp):
GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAACTACCAAAATACCCTTG
Found at i:36484410 original size:54 final size:54
Alignment explanation
Indices: 36484298--36484528 Score: 246
Period size: 54 Copynumber: 4.3 Consensus size: 54
36484288 ACACCCCTAG
* * ** * *
36484298 TTTGTAAAACTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGG
1 TTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTTGA
*
36484352 TTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTTGA
1 TTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTTGA
* * * * * * * *
36484406 TTTGTGAAATTATCGAAATACCCTCAGTTTGAAAAACTACTAAAATACCCTCGA
1 TTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTTGA
*** ** * *
36484460 TTTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTAACCTTGA
1 TTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTTGA
**
36484514 TTTACAAAATTACCA
1 TTTGTAAAATTACCA
36484529 TTTTACCCTC
Statistics
Matches: 147, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 147 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTTGA
Found at i:36484436 original size:81 final size:81
Alignment explanation
Indices: 36484297--36484503 Score: 236
Period size: 81 Copynumber: 2.6 Consensus size: 81
36484287 AACACCCCTA
* * ** * * *
36484297 GTTTGTAAAACTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAAT
1 GTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTAGTTTGAAAAAC
*
36484362 TACCAAAATACCCTTG
66 TACCAAAATACCCTCG
* * *
36484378 GTTTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTATCGAAATA-CCCTCAGTTTGAAAAA
1 GTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCT-AGTTTGAAAAA
*
36484442 CTACTAAAATACCCTCG
65 CTACCAAAATACCCTCG
* *** * *
36484459 ATTTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAA
1 GTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAA
36484504 GTAACCTTGA
Statistics
Matches: 104, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
80 4 0.04
81 100 0.96
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
GTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTAGTTTGAAAAAC
TACCAAAATACCCTCG
Found at i:36484562 original size:27 final size:27
Alignment explanation
Indices: 36484313--36484563 Score: 91
Period size: 27 Copynumber: 9.3 Consensus size: 27
36484303 AAAACTACCA
* * * *
36484313 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTACAAAATTATCG
* ** * *
36484340 AAATACCC-CTGGTTTGTAAAATTACCA
1 AAATACCCTC-GATTTACAAAATTATCG
* * ** * *
36484367 AAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCTCGATTTACAAAATTATCG
* ***
36484394 AAATACCCTTGATTTGTGAAATTATCG
1 AAATACCCTCGATTTACAAAATTATCG
* *
36484421 AAATACCCTC-AGTTTGA-AAAACTA-CTA
1 AAATACCCTCGA-TTT-ACAAAATTATC-G
** *
36484448 AAATACCCTCGATTTGTAAAATTATTG
1 AAATACCCTCGATTTACAAAATTATCG
* ** *
36484475 AAATACCCTCGACTTGTAAAATTA-CC
1 AAATACCCTCGATTTACAAAATTATCG
* * *
36484501 AAAGTAACCTTGATTTACAAAATTA-CC
1 AAA-TACCCTCGATTTACAAAATTATCG
** * *
36484528 ATTTTACCCTCAATTTACAAAATTATTG
1 A-AATACCCTCGATTTACAAAATTATCG
36484556 AAATACCC
1 AAATACCC
36484564 CTATAGGGTA
Statistics
Matches: 179, Mismatches: 34, Indels: 22
0.76 0.14 0.09
Matches are distributed among these distances:
26 5 0.03
27 172 0.96
28 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTCGATTTACAAAATTATCG
Found at i:36484578 original size:27 final size:27
Alignment explanation
Indices: 36484555--36484847 Score: 356
Period size: 27 Copynumber: 10.9 Consensus size: 27
36484545 CAAAATTATT
*
36484555 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
36484582 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
36484609 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
36484636 GGAATATCCTTATAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
36484663 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
36484690 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* ** * *
36484717 GAAATACCCATACAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
36484744 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
36484771 GAAATACCCCTATAGGGTAGAATT-CC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
36484797 TGAAATACCCCTGTAGGATAGAATTACC
1 -GAAATACCCCTGTAGGGTAGAATTACC
* * *
36484825 GAGATACCCTTGT-GGGTAAAATT
1 GAAATACCCCTGTAGGGTAGAATT
36484848 TCCATTTTAC
Statistics
Matches: 230, Mismatches: 34, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
26 10 0.04
27 218 0.95
28 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:36485135 original size:27 final size:27
Alignment explanation
Indices: 36485075--36485153 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 27
36485065 GGAGGTAGCG
36485075 TTCTGGTGGCTATGCCACAAATATCTAT
1 TTCTGGTGGCTATGCCAC-AATATCTAT
*
36485103 TT-TGGTGGCTCTGCCACAATATCT-T
1 TTCTGGTGGCTATGCCACAATATCTAT
* * *
36485128 TATCTGGTGACTTTGTCACAATATCT
1 T-TCTGGTGGCTATGCCACAATATCT
36485154 GTTTATCGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
25 2 0.04
26 8 0.18
27 33 0.73
28 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAATATCTAT
Found at i:36485423 original size:20 final size:20
Alignment explanation
Indices: 36485376--36485423 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
36485366 TGAAGGCTGG
*
36485376 GTGCCGTTATTGTAGGCTTC
1 GTGCCGATATTGTAGGCTTC
** *
36485396 GTATCGATATTGTGGGCTTC
1 GTGCCGATATTGTAGGCTTC
36485416 GTGCCGAT
1 GTGCCGAT
36485424 TATAGACCCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (20 bp):
GTGCCGATATTGTAGGCTTC
Found at i:36485452 original size:98 final size:98
Alignment explanation
Indices: 36485207--36485445 Score: 388
Period size: 98 Copynumber: 2.4 Consensus size: 98
36485197 TGTGTGCCGT
*
36485207 TATTGTAGGCTTCGTGCCAATTATAGACCCGTTATCAATGGCTGAGTGTCGATCATGTTACCAAA
1 TATTGTAGGCTTCGTGCCAATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCAAA
*
36485272 GGCTGTGTGCCGTTATTGTAGGCTTCGTATCGA
66 GGCTGGGTGCCGTTATTGTAGGCTTCGTATCGA
* * * **
36485305 TATTGTAGGCTTCGTGCCAATTATAAACCCATTATCAATGGATGAGTGCCGATCATGTTACTGAA
1 TATTGTAGGCTTCGTGCCAATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCAAA
36485370 GGCTGGGTGCCGTTATTGTAGGCTTCGTATCGA
66 GGCTGGGTGCCGTTATTGTAGGCTTCGTATCGA
* * *
36485403 TATTGTGGGCTTCGTGCCGATTATAGACCCGTTATCGATGGCT
1 TATTGTAGGCTTCGTGCCAATTATAGACCCGTTATCAATGGCT
36485446 TTGTGCCACG
Statistics
Matches: 128, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 128 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (98 bp):
TATTGTAGGCTTCGTGCCAATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTACCAAA
GGCTGGGTGCCGTTATTGTAGGCTTCGTATCGA
Found at i:36485497 original size:27 final size:27
Alignment explanation
Indices: 36485467--36485547 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
36485457 ATTCTGTTAA
* *
36485467 GTGGCTTTGCCACATTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
36485494 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * *
36485521 GTGACTCTGTCACAATATCAGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
36485547 G
1 G
36485548 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.10
27 42 0.88
28 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:36487485 original size:48 final size:48
Alignment explanation
Indices: 36487423--36487574 Score: 277
Period size: 48 Copynumber: 3.2 Consensus size: 48
36487413 TGTTACAACA
*
36487423 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
36487471 TTCACATTAACCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
36487519 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
36487567 TTCACATT
1 TTCACATT
36487575 CATCACATCG
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 100 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:36487623 original size:49 final size:49
Alignment explanation
Indices: 36487566--36487946 Score: 639
Period size: 49 Copynumber: 7.9 Consensus size: 49
36487556 CACACATATA
*
36487566 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
36487615 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
36487662 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
36487711 TTTCACATTCATCACATTGGCCATTAGGCCTGATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
36487760 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATAT--AC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
36487805 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
36487854 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
36487903 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
36487947 CATCTCATAC
Statistics
Matches: 314, Mismatches: 12, Indels: 12
0.93 0.04 0.04
Matches are distributed among these distances:
45 39 0.12
47 54 0.17
49 221 0.70
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:36487798 original size:22 final size:22
Alignment explanation
Indices: 36487770--36487843 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
36487760 TTTCACATTC
36487770 ATCACATTGGCCATTAGGCCTT
1 ATCACATTGGCCATTAGGCCTT
*** * *
36487792 ATCACATATATACTTTCA--CATT
1 ATCACAT-TGGCCATT-AGGCCTT
36487814 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTAGGCCTT
36487837 ATCACAT
1 ATCACAT
36487844 GTATATACAC
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTAGGCCTT
Found at i:36487845 original size:94 final size:96
Alignment explanation
Indices: 36487566--36487946 Score: 608
Period size: 96 Copynumber: 3.9 Consensus size: 96
36487556 CACACATATA
* *
36487566 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-ATATATA-ACTTTCACATTCATCACA
* *
36487631 TCGGCCATTAGGCCTTATCACA--TATATACTC
64 TTGGCCATTAGGCCTTATCACATGTATATACAC
*
36487662 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-ATATATA-ACTTTCACATTCATCACA
*
36487727 TTGGCCATTAGGCCTGATCACATGTATATACAC
64 TTGGCCATTAGGCCTTATCACATGTATATACAC
36487760 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC-ATATAT-ACTTTCACATTCATCACATT
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACAATATATAACTTTCACATTCATCACATT
36487823 GGCCATTAGGCCTTATCACATGTATATACAC
66 GGCCATTAGGCCTTATCACATGTATATACAC
36487854 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-ATATATA-ACTTTCACATTCATCACA
* *
36487919 TTGGCCATTAGGCCGTATCACATATATA
64 TTGGCCATTAGGCCTTATCACATGTATA
36487947 CATCTCATAC
Statistics
Matches: 269, Mismatches: 10, Indels: 10
0.93 0.03 0.03
Matches are distributed among these distances:
94 87 0.32
96 93 0.35
98 89 0.33
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACAATATATAACTTTCACATTCATCACATT
GGCCATTAGGCCTTATCACATGTATATACAC
Found at i:36487872 original size:143 final size:143
Alignment explanation
Indices: 36487566--36487947 Score: 692
Period size: 143 Copynumber: 2.7 Consensus size: 143
36487556 CACACATATA
* *
36487566 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
36487631 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TTGGCCATTAGGCCTTATCACATATATA--CTTTCACATTCATCACATTGGCCATTAGGCCTTAT
36487696 CACATGTATATACAC
129 CACATGTATATACAC
* *
36487711 TTTCACATTCATCACATTGGCCATTAGGCCTGATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
36487776 TTGGCCATTAGGCCTTATCACATATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
66 TTGGCCATTAGGCCTTATCACATATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
36487841 CATGTATATACAC
131 CATGTATATACAC
36487854 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
36487919 TTGGCCATTAGGCCGTATCACATATATAC
66 TTGGCCATTAGGCCTTATCACATATATAC
36487948 ATCTCATACA
Statistics
Matches: 229, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
143 141 0.62
145 88 0.38
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (143 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
CATGTATATACAC
Found at i:36492964 original size:39 final size:39
Alignment explanation
Indices: 36492916--36493000 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
36492906 CGAAGTTCGA
* *
36492916 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCACATATAGCCTACGGACCTTAAGTCCGG
*
36492955 ATATAATTCCCACATATAGCCTACGGACCTTAAGTCTGG
1 ATATAATTCCCACATATAGCCTACGGACCTTAAGTCCGG
36492994 ATATAAT
1 ATATAAT
36493001 CACCATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (39 bp):
ATATAATTCCCACATATAGCCTACGGACCTTAAGTCCGG
Found at i:36503416 original size:30 final size:30
Alignment explanation
Indices: 36503362--36503418 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36503352 TTTACGAGCA
*
36503362 TTGGGGCAAAAGTGCAAATATGTAAAAGTT
1 TTGGGGCAAAAGTGAAAATATGTAAAAGTT
*
36503392 TTGGGGTCAAAA-TGAAAATTTGTAAAA
1 TTGGGG-CAAAAGTGAAAATATGTAAAA
36503419 ATATGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.28
Consensus pattern (30 bp):
TTGGGGCAAAAGTGAAAATATGTAAAAGTT
Found at i:36506411 original size:46 final size:45
Alignment explanation
Indices: 36506355--36506521 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
36506345 GACGAGGGCT
36506355 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAG-ATGAGAGCC
* * *
36506401 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGATGAGAGCC
* * * * * *
36506447 AGTGTCAGACATGTCTGGGACATGCGTCGGCTAC-GA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGA-GAGCC
*
36506491 AGTGTAAGACATGTCTGGGACATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
36506522 ACGGTTACAT
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.02
44 33 0.31
46 70 0.65
47 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATGAGAGCC
Found at i:36506463 original size:92 final size:90
Alignment explanation
Indices: 36506304--36506515 Score: 237
Period size: 92 Copynumber: 2.3 Consensus size: 90
36506294 AGATTTGTGT
* * * * * *
36506304 GCCAGTGTAAGACCATGTATGAGACATGGCATTGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGT
36506369 CTGGGACATGCATCAGCCAC-AGTATGAGA
64 CTGGGACATGCATCAGCCACGAG-AT--GA
* * * *
36506398 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCCAGTGTCAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
* * * *
36506463 GGGACATGCGTCGGCTACGAGATGT
66 GGGACATGCATCAGCCACGAGATGA
*
36506488 GCTAGTGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
36506516 GTCAGCACGG
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
90 28 0.27
92 48 0.47
93 14 0.14
94 12 0.12
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCACGAGATGA
Found at i:36506552 original size:46 final size:43
Alignment explanation
Indices: 36506355--36506558 Score: 171
Period size: 46 Copynumber: 4.5 Consensus size: 43
36506345 GACGAGGGCT
* * * *
36506355 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGA-CAT--GTG-C
* * *
36506401 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCGTCAG-CTACGACATG-T-G-C
* * *
36506447 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGC
1 AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
36506490 TAGTGTAAGACATGTCTGGGACATGCGTCAGC-ACGGTTACATGTGTC
1 -AGTGTAAGACATGTCTGGGACATGCGTCAGCTAC-G--ACATGTG-C
*
36506537 AGTGTAAGACCTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
36506559 CGGCATCGAC
Statistics
Matches: 138, Mismatches: 10, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
43 3 0.02
44 32 0.23
45 3 0.02
46 97 0.70
47 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (43 bp):
AGTGTAAGACATGTCTGGGACATGCGTCAGCTACGACATGTGC
Found at i:36506558 original size:90 final size:91
Alignment explanation
Indices: 36506355--36506521 Score: 221
Period size: 90 Copynumber: 1.8 Consensus size: 91
36506345 GACGAGGGCT
36506355 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTAT-AGAGCCAGTGTAAGACATGTCTGGG
* *
36506420 ACATGCATCGGCCTCGAGATGATAGCC
65 ACATGCATCAGCCTCGACATGATAGCC
* * * * * *
36506447 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAG-AT-GTGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATAGAGCCAGTGTAAGACATGTCTGGG
*
36506510 ACATGCGTCAGC
65 ACATGCATCAGC
36506522 ACGGTTACAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 32 0.48
92 32 0.48
93 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATAGAGCCAGTGTAAGACATGTCTGGGA
CATGCATCAGCCTCGACATGATAGCC
Found at i:36509480 original size:29 final size:29
Alignment explanation
Indices: 36509447--36509502 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
36509437 TTTACGAGCA
*
36509447 TTGGGG-CAAAAGTGCAAATATGTAAAAGT
1 TTGGGGTCAAAA-TGAAAATATGTAAAAGT
*
36509476 TTGGGGTCAAAATGAAAATTTGTAAAA
1 TTGGGGTCAAAATGAAAATATGTAAAA
36509503 ATATGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.43, C:0.05, G:0.25, T:0.27
Consensus pattern (29 bp):
TTGGGGTCAAAATGAAAATATGTAAAAGT
Found at i:36512178 original size:79 final size:78
Alignment explanation
Indices: 36512078--36512233 Score: 204
Period size: 79 Copynumber: 2.0 Consensus size: 78
36512068 TTCTGATATT
** * ** *
36512078 TTTATTTCTATTTTTTTAAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTATTTCTATTTTTCAAAAAAAAATCAACTAATATTACGAGAGGTGAGTTGAGCCTCAGGTCAC
*
36512143 ACGCTAAGGTATC
66 ACACTAAGGTATC
* * *
36512156 TTTAGTTTCTATTTTTCAAAAAAAAATTAATTAATATTACGAGAGGTGAGTTGATCCTCAGGTCA
1 TTTA-TTTCTATTTTTCAAAAAAAAATCAACTAATATTACGAGAGGTGAGTTGAGCCTCAGGTCA
*
36512221 CACACTGAGGTAT
65 CACACTAAGGTAT
36512234 TTTCAATTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
78 4 0.06
79 62 0.94
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (78 bp):
TTTATTTCTATTTTTCAAAAAAAAATCAACTAATATTACGAGAGGTGAGTTGAGCCTCAGGTCAC
ACACTAAGGTATC
Found at i:36512766 original size:88 final size:87
Alignment explanation
Indices: 36512506--36512774 Score: 321
Period size: 88 Copynumber: 3.1 Consensus size: 87
36512496 AGTGGAGCAG
**
36512506 GGAAACAGATTGAAGGTGATGGGCCTTAAA-CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAG
1 GGAAA-AGATTGAAGGCAATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAG
*
36512570 ATCTTGTCTCCCT-AGCAGTAGT
65 ATCTTATCTCCCTAAGCAGTAGT
* * * * * *
36512592 GGAGCAA-ATCGAAGACAAAGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACA
1 GGA-AAAGATTGAAGGCAATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG-AATTTACA
*
36512656 GATCCTATCTCCCTAAGCAGTAGT
64 GATCTTATCTCCCTAAGCAGTAGT
** * *
36512680 GGAAATAGATTGAAGGCAATGGGCCTTAAACCCCTAAATAGTAGGGTAACAGGTTGAATTTATAG
1 GGAAA-AGATTGAAGGCAATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAG
* *
36512745 ATCTTAACCCCCTAAGCAGTAG-
65 ATCTTATCTCCCTAAGCAGTAGT
36512767 GGTAAAAG
1 GG-AAAAG
36512775 GCTGGAAATT
Statistics
Matches: 153, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
85 16 0.10
86 29 0.19
87 25 0.16
88 42 0.27
89 41 0.27
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (87 bp):
GGAAAAGATTGAAGGCAATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGA
TCTTATCTCCCTAAGCAGTAGT
Found at i:36514128 original size:3 final size:3
Alignment explanation
Indices: 36514122--36514354 Score: 94
Period size: 3 Copynumber: 77.3 Consensus size: 3
36514112 AAATATAATA
* * ** *
36514122 ATT ATT ATT ATT -TCT AAT ATT ATT AAT ATT ACC ACT ATT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
36514167 ATT ATT ATT ATT ATT ATAT ATT AGTGT A-T ACTT TTT ATT ATAT ACGT
1 ATT ATT ATT ATT ATT AT-T ATT A-T-T ATT A-TT ATT ATT AT-T A-TT
* * *
36514214 A-T ATGT A-T ATAT ATT -TAT ATAT AGT ATT ATT CTTT ATT ACT -TT
1 ATT AT-T ATT AT-T ATT AT-T AT-T ATT ATT ATT -ATT ATT ATT ATT
* * * *
36514257 ATT -TT AAT ATT TTT ATT A-T ATT -TG CTT -TT -TGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
* * * * *
36514298 AAT ATT TTT ATT ATT -TT AAT ATT ATT ACT ATT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
36514345 ATT ATT ATT A
1 ATT ATT ATT A
36514355 GTGTATATTT
Statistics
Matches: 174, Mismatches: 33, Indels: 46
0.69 0.13 0.18
Matches are distributed among these distances:
2 19 0.11
3 132 0.76
4 21 0.12
5 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:36519790 original size:43 final size:42
Alignment explanation
Indices: 36519691--36519795 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
36519681 GACTATGTGC
* *
36519691 AAGACCATATCTGGGATATGGCATTGATACAAGACTTCGTGT
1 AAGACCATATCTGGGATATGGCATCGATACAAGACTTCATGT
* * * * **
36519733 GAGATCATAGCTGGGCTATTGGCATCGATATGAGA-TTACATGT
1 AAGACCATATCTGGGATA-TGGCATCGATACAAGACTT-CATGT
36519776 AAGACCATATCTGGGATATG
1 AAGACCATATCTGGGATATG
36519796 ACATTGGTAT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
42 18 0.37
43 31 0.63
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
AAGACCATATCTGGGATATGGCATCGATACAAGACTTCATGT
Found at i:36529665 original size:43 final size:44
Alignment explanation
Indices: 36529594--36529683 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 44
36529584 TATCGAAATG
*
36529594 TGATATTCGGGCTTCGGGCATAGCAGGCTATAATACCGGTGAAA
1 TGATATTCGGGCTTCGAGCATAGCAGGCTATAATACCGGTGAAA
* * * *
36529638 TGATA-TCGGGCTTTGAGCTTAGTAGGCTATAATGCCGGTGAAA
1 TGATATTCGGGCTTCGAGCATAGCAGGCTATAATACCGGTGAAA
36529681 TGA
1 TGA
36529684 AATATTATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 36 0.88
44 5 0.12
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (44 bp):
TGATATTCGGGCTTCGAGCATAGCAGGCTATAATACCGGTGAAA
Found at i:36530173 original size:38 final size:38
Alignment explanation
Indices: 36529953--36530188 Score: 294
Period size: 38 Copynumber: 6.2 Consensus size: 38
36529943 ATGATATTTG
* ** * *
36529953 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTATTA
* *
36529991 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
36530029 TATCCGGTTTAATTCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
36530067 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* *
36530105 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * *
36530143 TATCCGAGTTAAATCCCGCAGGCCTAGTGCTGGTGTTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
36530181 TATTCGGG
1 TATCCGGG
36530189 CCTTTGAGCC
Statistics
Matches: 172, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
37 1 0.01
38 171 0.99
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:36530231 original size:45 final size:45
Alignment explanation
Indices: 36530181--36530310 Score: 199
Period size: 45 Copynumber: 2.9 Consensus size: 45
36530171 GCTGGTGTTA
* *
36530181 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
* *
36530226 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGATGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
*
36530271 TATTCAGG-CTTTCGAGCCTAGCAGGCTATAATGCCGATGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGATGA
36530311 AATGATAATC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 4 0.05
45 74 0.95
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGACAC
Found at i:36538470 original size:41 final size:41
Alignment explanation
Indices: 36538414--36538520 Score: 189
Period size: 41 Copynumber: 2.6 Consensus size: 41
36538404 CGTGCAGGGG
36538414 ACACACGGCTAGATCACATGCCCGTAGGGCATACCTGTGTC
1 ACACACGGCTAGATCACATGCCCGTAGGGCATACCTGTGTC
36538455 ACACACGGCTAGATCACATGCCCGTAGGGCATACCTGTGTC
1 ACACACGGCTAGATCACATGCCCGTAGGGCATACCTGTGTC
*
36538496 ACACACGGCCTAGA-CACACGCCCGT
1 ACACACGG-CTAGATCACATGCCCGT
36538521 GTGTTTACCC
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
41 59 0.92
42 5 0.08
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.17
Consensus pattern (41 bp):
ACACACGGCTAGATCACATGCCCGTAGGGCATACCTGTGTC
Found at i:36539388 original size:47 final size:44
Alignment explanation
Indices: 36539331--36539455 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 44
36539321 TCTCGAGGAT
* *
36539331 GATGCATGTCCCTGACATGTCTTACACTAGCTCTCATTTCAATGT-C
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTC--GT-AATGTGC
*
36539377 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTAATGT-G-C
36539425 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
36539456 ACACAATTAA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
45 5 0.07
46 17 0.24
47 27 0.39
48 21 0.30
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.30
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTAATGTGC
Found at i:36546611 original size:22 final size:22
Alignment explanation
Indices: 36546585--36546629 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
36546575 AAAACATAAG
*
36546585 AAAACCCAAAACTCTTGAAGGA
1 AAAACCCAAAACTCCTGAAGGA
36546607 AAAACCCAAAACTCCTGAAGGA
1 AAAACCCAAAACTCCTGAAGGA
36546629 A
1 A
36546630 CTTGAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.24, G:0.13, T:0.11
Consensus pattern (22 bp):
AAAACCCAAAACTCCTGAAGGA
Found at i:36546821 original size:55 final size:55
Alignment explanation
Indices: 36546732--36546842 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
36546722 GTTCCCTTCC
*
36546732 TAAGTGCCTCCTCAAGTGTTTAAATAGGCATTAGAATGCCTAAGAGCCCTCAAAA
1 TAAGTGCCTCCTCAAGTGTTTAAATAAGCATTAGAATGCCTAAGAGCCCTCAAAA
* * *
36546787 TAAGTGCCTCCTCAGGTGTTTAAATAAGCTTTAGAATGCCTGAGAGCCCTCAAAA
1 TAAGTGCCTCCTCAAGTGTTTAAATAAGCATTAGAATGCCTAAGAGCCCTCAAAA
36546842 T
1 T
36546843 TGGCCTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (55 bp):
TAAGTGCCTCCTCAAGTGTTTAAATAAGCATTAGAATGCCTAAGAGCCCTCAAAA
Found at i:36548937 original size:21 final size:21
Alignment explanation
Indices: 36548908--36548952 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
36548898 TTATTCAATA
*
36548908 AAAATATAA-AAACTAAAATT
1 AAAATATAATAAACGAAAATT
*
36548928 AAAATAATAATAAAGGAAAATT
1 AAAAT-ATAATAAACGAAAATT
36548950 AAA
1 AAA
36548953 TAAAAAGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAATATAATAAACGAAAATT
Found at i:36556237 original size:44 final size:43
Alignment explanation
Indices: 36556130--36556250 Score: 154
Period size: 42 Copynumber: 2.8 Consensus size: 43
36556120 GTAATTCAGT
* * * *
36556130 ATCGATGCCTCTGTCCCAGATAGGGTCTTACACAAAATTAGAT
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACAAAATTAGAA
* *
36556173 A-CGATGCCTATGTCCCAGACATGGTCTTACACATAAATTTGAA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACA-AAATTAGAA
* *
36556216 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACAA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACAA
36556251 TAACTCAGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 29 0.43
43 10 0.15
44 29 0.43
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATCGATGCCTATGTCCCAGACACGGTCTTACACAAAATTAGAA
Found at i:36559321 original size:46 final size:46
Alignment explanation
Indices: 36559230--36559438 Score: 176
Period size: 46 Copynumber: 4.5 Consensus size: 46
36559220 ATGCCAATGC
* * *
36559230 CATGTCCCAGACATGGTCTTACACT-G-ACACATCTTGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AGGCCGATG
*
36559275 CATGTCCTAGACATGTCTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCGATG
* * * * * *
36559321 CATGTCCCAGACATGTCTTACACTAGCTCTCGTTTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG
* * * * * *
36559367 CCATGTCCTAGTCATTGTCTTACATTGGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACA-TGTCTTACACTGGCTCTCAT-CTCGAGGCCGATG
*
36559415 CATGTCCCAGACATGTCTTCCACT
1 CATGTCCCAGACATGTCTTACACT
36559439 ACCACACAAT
Statistics
Matches: 130, Mismatches: 26, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
44 10 0.08
45 15 0.12
46 59 0.45
47 23 0.18
48 22 0.17
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG
Found at i:36559416 original size:94 final size:92
Alignment explanation
Indices: 36559270--36559439 Score: 236
Period size: 94 Copynumber: 1.8 Consensus size: 92
36559260 ATCTTGTAGC
* *
36559270 CGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCCAGACAT
1 CGATGCATGTCCTAGACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGACAT
36559335 GTCTTACACTAGCTCTCGTTTCAATGT
66 GTCTTACACTAGCTCTCGTTTCAATGT
* * *
36559362 CGATGCCATGTCCTAGTCATTGTCTTACATTGGCTCT-CATAAT-GTGGCCAATGCATGTCCCAG
1 CGATG-CATGTCCTAGACA-TGTCTTACACTGGCT-TACAT-ATCGAGGCCAATGCATGTCCCAG
*
36559425 ACATGTCTTCCACTA
62 ACATGTCTTACACTA
36559440 CCACACAATT
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
92 5 0.07
93 12 0.18
94 49 0.72
95 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (92 bp):
CGATGCATGTCCTAGACATGTCTTACACTGGCTTACATATCGAGGCCAATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTTTCAATGT
Found at i:36561079 original size:37 final size:37
Alignment explanation
Indices: 36561000--36561082 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
36560990 AACCTTTAGT
* * *
36561000 TCGGGGCTTACCCGGACAAAATCTCCACCCGTGGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
*
36561037 TCGGGTCTTACCCGGACATAATCTCCACACGTAGTCA
1 TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
36561074 TCGGGTCTT
1 TCGGGTCTT
36561083 TAGAGCTCGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.24
Consensus pattern (37 bp):
TCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCA
Found at i:36561269 original size:47 final size:47
Alignment explanation
Indices: 36561200--36562080 Score: 1264
Period size: 47 Copynumber: 18.3 Consensus size: 47
36561190 CCCTTCGGGA
* * * * *
36561200 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36561247 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
* *
36561294 CTTATCACATATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36561341 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36561388 CTTATCTCATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36561435 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36561482 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* ** ** **
36561529 CTTCACATCGGCCAT-TAGGC-CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATT
1 CTT---ATC--ACATATATACACTT-TCAC--AT-T-CA---TCACA-TCGGC-CAT---TA---
36561592 AGGC
45 -GGC
36561596 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36561643 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36561690 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36561737 CTTATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36561784 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36561831 CTTCTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36561878 CTTCTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36561925 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
36561972 CTTGTCACTTATATACACTTTCACATTCATCACATAGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
36562019 CTAATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36562066 CTTATCACATATATA
1 CTTATCACATATATA
36562081 TATCTCATAC
Statistics
Matches: 761, Mismatches: 47, Indels: 52
0.88 0.05 0.06
Matches are distributed among these distances:
46 1 0.00
47 690 0.91
50 6 0.01
51 7 0.01
52 3 0.00
53 2 0.00
54 4 0.01
55 5 0.01
56 5 0.01
58 5 0.01
59 5 0.01
60 4 0.01
61 2 0.00
62 3 0.00
63 7 0.01
64 6 0.01
67 6 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36561278 original size:25 final size:25
Alignment explanation
Indices: 36561250--36561328 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
36561240 ACTCGGCCTT
*
36561250 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * *
36561275 ATCACAT-T-GGC-CATTCAGCCTT-
1 ATCACATATATGCACTTTCA-CATTC
36561297 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
36561322 ATCACAT
1 ATCACAT
36561329 GGGCCATTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
22 12 0.29
23 5 0.12
24 6 0.14
25 19 0.45
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:36561536 original size:20 final size:20
Alignment explanation
Indices: 36561511--36561551 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
36561501 TTCACATTCA
36561511 TCACATCGGCCATTAGGCCT
1 TCACATCGGCCATTAGGCCT
36561531 TCACATCGGCCATTAGGCCT
1 TCACATCGGCCATTAGGCCT
36561551 T
1 T
36561552 GTCACATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.27
Consensus pattern (20 bp):
TCACATCGGCCATTAGGCCT
Found at i:36561539 original size:67 final size:67
Alignment explanation
Indices: 36561464--36561598 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
36561454 TTCACATTCA
36561464 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36561529 CT
66 CT
*
36561531 TCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36561596 CT
66 CT
36561598 T
1 T
36561599 ATCACATATA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (67 bp):
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
CT
Found at i:36561557 original size:114 final size:114
Alignment explanation
Indices: 36561417--36561645 Score: 449
Period size: 114 Copynumber: 2.0 Consensus size: 114
36561407 TTCACATTCA
36561417 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36561482 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
66 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
36561531 TCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36561596 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
66 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
36561645 T
1 T
36561646 ATCACATATA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.31
Consensus pattern (114 bp):
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:36564445 original size:27 final size:27
Alignment explanation
Indices: 36564407--36564461 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
36564397 TGATCTATAA
36564407 TGATAAAAATTCACAAATTTAATCATT
1 TGATAAAAATTCACAAATTTAATCATT
36564434 TGATAAAAATTCACAAATTTAATCATT
1 TGATAAAAATTCACAAATTTAATCATT
36564461 T
1 T
36564462 TAATGATCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (27 bp):
TGATAAAAATTCACAAATTTAATCATT
Found at i:36567684 original size:44 final size:45
Alignment explanation
Indices: 36567623--36567711 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 45
36567613 ATGAAGATAG
36567623 AAAATTTATTTTTATTATTTTTTTGAGGTTATAATATGATTATAT
1 AAAATTTATTTTTATTATTTTTTTGAGGTTATAATATGATTATAT
36567668 AAAA-TTATTTTTATTATTTTTTTGAGGTTATAATATGATTATAT
1 AAAATTTATTTTTATTATTTTTTTGAGGTTATAATATGATTATAT
36567712 TAGTGCATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 40 0.91
45 4 0.09
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (45 bp):
AAAATTTATTTTTATTATTTTTTTGAGGTTATAATATGATTATAT
Done.