Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 108 of 199
Found at i:30565087 original size:17 final size:17
Alignment explanation
Indices: 30565065--30565098 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
30565055 TTTTTACGAG
30565065 TATATAATTATTTTATT
1 TATATAATTATTTTATT
*
30565082 TATATATTTATTTTATT
1 TATATAATTATTTTATT
30565099 ACACTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATATAATTATTTTATT
Found at i:30565676 original size:12 final size:12
Alignment explanation
Indices: 30565659--30565683 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30565649 TGGTAATTCA
30565659 GGTCGGTTAACC
1 GGTCGGTTAACC
30565671 GGTCGGTTAACC
1 GGTCGGTTAACC
30565683 G
1 G
30565684 ATTGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:30565760 original size:19 final size:16
Alignment explanation
Indices: 30565714--30565744 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30565704 ACTCTTATTT
30565714 AGAATAATTGTTGTTC
1 AGAATAATTGTTGTTC
30565730 AGAATAATTGTTGTT
1 AGAATAATTGTTGTT
30565745 TGAGAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.45
Consensus pattern (16 bp):
AGAATAATTGTTGTTC
Found at i:30565997 original size:16 final size:18
Alignment explanation
Indices: 30565976--30566017 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
30565966 CATCACCGCA
30565976 AAACAACTCT-TA-TTTG
1 AAACAACTCTCTACTTTG
30565992 AAACAAC-CTCTACTTTG
1 AAACAACTCTCTACTTTG
30566009 AGAACAACT
1 A-AACAACT
30566018 ATGTCGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.09
16 9 0.41
17 5 0.23
18 6 0.27
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (18 bp):
AAACAACTCTCTACTTTG
Found at i:30571281 original size:38 final size:38
Alignment explanation
Indices: 30571239--30571318 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
30571229 AGATTGTTAG
* *
30571239 AAGTTCTGTGACTCAAATTCCTATTAAACATAAAATAC
1 AAGTTCTGTGACCCAAATTCCCATTAAACATAAAATAC
* *
30571277 AAGTTGTTTGACCCAAATTCCCATTAAACATAAAATAC
1 AAGTTCTGTGACCCAAATTCCCATTAAACATAAAATAC
30571315 AAGT
1 AAGT
30571319 CAAGCTGCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (38 bp):
AAGTTCTGTGACCCAAATTCCCATTAAACATAAAATAC
Found at i:30571785 original size:9 final size:9
Alignment explanation
Indices: 30571773--30571821 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
30571763 GACTTTTAGC
30571773 ATTTTTATA
1 ATTTTTATA
30571782 ATTTTTGA-A
1 ATTTTT-ATA
*
30571791 AATTTTA-A
1 ATTTTTATA
*
30571799 ATTTTAATA
1 ATTTTTATA
30571808 ATTTTTATA
1 ATTTTTATA
30571817 ATTTT
1 ATTTT
30571822 AAAAATTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 7 0.21
9 26 0.76
10 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:30571808 original size:26 final size:25
Alignment explanation
Indices: 30571773--30571824 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
30571763 GACTTTTAGC
*
30571773 ATTTTTATAATTTTTGAAAATTTTAA
1 ATTTTAATAATTTTT-AAAATTTTAA
*
30571799 ATTTTAATAATTTTTATAATTTTAA
1 ATTTTAATAATTTTTAAAATTTTAA
30571824 A
1 A
30571825 AATTCTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATTTTAATAATTTTTAAAATTTTAA
Found at i:30571868 original size:20 final size:18
Alignment explanation
Indices: 30571843--30571881 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
30571833 TTTTAAAAAA
30571843 TATTTTAAATGATTTTCTAT
1 TATTTTAAAT-ATTTT-TAT
30571863 TATTTTAAATATTTTTAT
1 TATTTTAAATATTTTTAT
30571881 T
1 T
30571882 TTTATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 10 0.53
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TATTTTAAATATTTTTAT
Found at i:30572368 original size:2 final size:2
Alignment explanation
Indices: 30572361--30572388 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30572351 GCACACTTGG
30572361 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
30572389 TGGAACCACC
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:30602831 original size:18 final size:19
Alignment explanation
Indices: 30602808--30602843 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30602798 ACAAACTCTC
*
30602808 AAATAAATCCA-TAATTTA
1 AAATAAAACCATTAATTTA
30602826 AAATAAAACCATTAATTT
1 AAATAAAACCATTAATTT
30602844 CTAAGTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATAAAACCATTAATTTA
Found at i:30603555 original size:17 final size:18
Alignment explanation
Indices: 30603517--30603561 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
30603507 TGGCTCAAAA
30603517 CCCACACGCCCATGTAGG
1 CCCACACGCCCATGTAGG
*
30603535 CCCACACGCCCTTGT-GG
1 CCCACACGCCCATGTAGG
*
30603552 CCCATACGCC
1 CCCACACGCC
30603562 AAATCTGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.18, C:0.49, G:0.20, T:0.13
Consensus pattern (18 bp):
CCCACACGCCCATGTAGG
Found at i:30619434 original size:45 final size:45
Alignment explanation
Indices: 30619385--30619479 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
30619375 TTGTGTACCT
* **
30619385 ACATCC-AGTGGAAAATTCCATCTGTAGGTTATTTGTTGTCT-ATCC
1 ACATCCAAG-GGAAAATTCCATCCG-AGGTTAAATGTTGTCTAATCC
* * *
30619430 ACATCCAAGGGCAGATTCCATCCGGGGTTAAATGTTGTCTAATCC
1 ACATCCAAGGGAAAATTCCATCCGAGGTTAAATGTTGTCTAATCC
30619475 ACATC
1 ACATC
30619480 TAGAGGCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 13 0.31
45 27 0.64
46 2 0.05
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
ACATCCAAGGGAAAATTCCATCCGAGGTTAAATGTTGTCTAATCC
Found at i:30623794 original size:20 final size:21
Alignment explanation
Indices: 30623758--30623798 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
30623748 TGGTGAAGGA
30623758 GAAGAGCGCCGCTGGATTATG
1 GAAGAGCGCCGCTGGATTATG
30623779 GAAGAGCGCC-CTGGATTATG
1 GAAGAGCGCCGCTGGATTATG
30623799 TCTAAAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.24, C:0.20, G:0.37, T:0.20
Consensus pattern (21 bp):
GAAGAGCGCCGCTGGATTATG
Found at i:30626017 original size:40 final size:40
Alignment explanation
Indices: 30625958--30626169 Score: 259
Period size: 40 Copynumber: 5.3 Consensus size: 40
30625948 CATTTGAATG
* *
30625958 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
30625998 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
30626038 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
30626078 ATATCCGGGCTAAGACCCGAAGGCATTTGTCCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
30626118 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
30626158 ATATCC-GGCTAA
1 ATATCCGGGCTAA
30626170 ATTTCGAAGA
Statistics
Matches: 152, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 7 0.05
40 142 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:30631917 original size:27 final size:26
Alignment explanation
Indices: 30631878--30632153 Score: 268
Period size: 27 Copynumber: 10.2 Consensus size: 26
30631868 ATTCATGGGC
*
30631878 AAATGACTGAAATACCCTTGACGGGTA
1 AAATGAC-GAAATACCCTTGAAGGGTA
* * * *
30631905 AAATTATCAAAATACCCTCGAAGGATA
1 AAATGA-CGAAATACCCTTGAAGGGTA
*
30631932 AAATCACCGAAATACCCTTGAAGGGTA
1 AAATGA-CGAAATACCCTTGAAGGGTA
*
30631959 AAATGATCGAAATGCCCTTGAAGGGTA
1 AAATGA-CGAAATACCCTTGAAGGGTA
*
30631986 AAATGACTGAAATACCCCTGAAGGGTA
1 AAATGAC-GAAATACCCTTGAAGGGTA
*
30632013 AAATGACTGAAATACCCTTAAAGGGTA
1 AAATGAC-GAAATACCCTTGAAGGGTA
*
30632040 AAATGACCGAAATACCCCTGAAGGGTA
1 AAATGA-CGAAATACCCTTGAAGGGTA
* * *
30632067 AAATAACTGAAATGCCCTCGAAGGGTA
1 AAATGAC-GAAATACCCTTGAAGGGTA
* *
30632094 AAATGACCGAAATACCAC-TAAAGGATA
1 AAATGA-CGAAATACC-CTTGAAGGGTA
* * *
30632121 AAATAATAGAAATACCC-TCATAGGGTA
1 AAATGA-CGAAATACCCTTGA-AGGGTA
30632148 AAATGA
1 AAATGA
30632154 TTGTTATACC
Statistics
Matches: 208, Mismatches: 34, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
26 5 0.02
27 199 0.96
28 4 0.02
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (26 bp):
AAATGACGAAATACCCTTGAAGGGTA
Found at i:30631982 original size:54 final size:55
Alignment explanation
Indices: 30631878--30632153 Score: 321
Period size: 54 Copynumber: 5.1 Consensus size: 55
30631868 ATTCATGGGC
* * * * * *
30631878 AAATGACTGAAATACCCTTGACGGGTAAAATTATC-AAAATACCCTCGAAGGATA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTGAAATACCCTCGAAGGGTA
* * * *
30631932 AAATCACCGAAATACCCTTGAAGGGTAAAATGATC-GAAATGCCCTTGAAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTGAAATACCCTCGAAGGGTA
* **
30631986 AAATGACTGAAATACCCCTGAAGGGTAAAATGA-CTGAAATACCCTTAAAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTGAAATACCCTCGAAGGGTA
* *
30632040 AAATGACCGAAATACCCCTGAAGGGTAAAAT-AACTGAAATGCCCTCGAAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTGAAATACCCTCGAAGGGTA
* * * * *
30632094 AAATGACCGAAATACCACTAAAGGATAAAATAAT-AGAAATACCCTC-ATAGGGTA
1 AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTGAAATACCCTCGA-AGGGTA
30632148 AAATGA
1 AAATGA
30632154 TTGTTATACC
Statistics
Matches: 195, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.02
54 191 0.98
55 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (55 bp):
AAATGACCGAAATACCCCTGAAGGGTAAAATGATCTGAAATACCCTCGAAGGGTA
Found at i:30632015 original size:81 final size:81
Alignment explanation
Indices: 30631878--30632153 Score: 328
Period size: 81 Copynumber: 3.4 Consensus size: 81
30631868 ATTCATGGGC
* * * * *
30631878 AAATGA-CTGAAATACCCTTGACGGGTAAAATTA-TCAAAATACCCTCGAAGGATAAAATCACCG
1 AAATGATC-GAAATACCCTTGAAGGGTAAAATGACT-GAAATACCCTCGAAGGGTAAAATGACCG
*
30631941 AAATACCCTTGAAGGGTA
64 AAATACCCTTAAAGGGTA
* *
30631959 AAATGATCGAAATGCCCTTGAAGGGTAAAATGACTGAAATACCC-CTGAAGGGTAAAATGACTGA
1 AAATGATCGAAATACCCTTGAAGGGTAAAATGACTGAAATACCCTC-GAAGGGTAAAATGACCGA
30632023 AATACCCTTAAAGGGTA
65 AATACCCTTAAAGGGTA
* * * *
30632040 AAATGACCGAAATACCCCTGAAGGGTAAAATAACTGAAATGCCCTCGAAGGGTAAAATGACCGAA
1 AAATGATCGAAATACCCTTGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAA
*
30632105 ATACCAC-TAAAGGATA
66 ATACC-CTTAAAGGGTA
* * *
30632121 AAATAATAGAAATACCC-TCATAGGGTAAAATGA
1 AAATGATCGAAATACCCTTGA-AGGGTAAAATGA
30632154 TTGTTATACC
Statistics
Matches: 169, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
80 3 0.02
81 162 0.96
82 4 0.02
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.20
Consensus pattern (81 bp):
AAATGATCGAAATACCCTTGAAGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAA
ATACCCTTAAAGGGTA
Found at i:30645021 original size:50 final size:50
Alignment explanation
Indices: 30644946--30645187 Score: 342
Period size: 50 Copynumber: 4.8 Consensus size: 50
30644936 TTTCTGGTAC
* * * * * * *
30644946 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGA-ATCCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * * **
30644996 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
30645046 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
30645096 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
30645146 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30645188 TTACCCAAAT
Statistics
Matches: 174, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 173 0.99
51 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:30648118 original size:27 final size:27
Alignment explanation
Indices: 30648079--30648355 Score: 313
Period size: 27 Copynumber: 10.3 Consensus size: 27
30648069 ATTCATGGGC
*
30648079 AAATGACCGAAATACCCTTGATGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* * *
30648106 AAATAACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* * *
30648133 AAATGATCGAAATGCCCTTGAATGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* * *
30648160 AAATGACTGAAATACCCTTAAAAGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* *
30648187 AAATGACCGAAATACCCCTAAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
*
30648214 AAATGATCGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
** * *
30648241 AAATGACTAAAATACCCCTAAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* * *
30648268 AAATAACCGAAATGCCCTCGAAGGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
*
30648295 AAATGACCGAAATACCCTTGAAAGGTA
1 AAATGACCGAAATACCCTTGAAGGGTA
* * * *
30648322 AAATAACCAAAATA-CCTTCATAAGGTA
1 AAATGACCGAAATACCCTTGA-AGGGTA
30648349 AAATGAC
1 AAATGAC
30648356 TATTATACCC
Statistics
Matches: 208, Mismatches: 41, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 5 0.02
27 203 0.98
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTTGAAGGGTA
Found at i:30648214 original size:81 final size:81
Alignment explanation
Indices: 30648079--30648352 Score: 345
Period size: 81 Copynumber: 3.4 Consensus size: 81
30648069 ATTCATGGGC
* * ** *
30648079 AAATGACCGAAATACCCTTGATGGGTAAAATAACCAAAATACCCTCGAAGGGTAAAATGATCGAA
1 AAATGACCAAAATACCCTTAAAAGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGATCGAA
* *
30648144 ATGCCCTTGAATGGTA
66 ATACCCTTGAAAGGTA
** * *
30648160 AAATGACTGAAATACCCTTAAAAGGTAAAATGACCGAAATACCC-CTAAAGGGTAAAATGATCGA
1 AAATGACCAAAATACCCTTAAAAGGTAAAATAACCGAAATACCCTC-GAAGGGTAAAATGATCGA
*
30648224 AATACCCTTGAAGGGTA
65 AATACCCTTGAAAGGTA
* * * * *
30648241 AAATGACTAAAATACCCCTAAAGGGTAAAATAACCGAAATGCCCTCGAAGGGTAAAATGACCGAA
1 AAATGACCAAAATACCCTTAAAAGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGATCGAA
30648306 ATACCCTTGAAAGGTA
66 ATACCCTTGAAAGGTA
* *
30648322 AAATAACCAAAATA-CCTTCATAAGGTAAAAT
1 AAATGACCAAAATACCCTT-AAAAGGTAAAAT
30648353 GACTATTATA
Statistics
Matches: 168, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
80 4 0.02
81 163 0.97
82 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.20
Consensus pattern (81 bp):
AAATGACCAAAATACCCTTAAAAGGTAAAATAACCGAAATACCCTCGAAGGGTAAAATGATCGAA
ATACCCTTGAAAGGTA
Found at i:30648755 original size:30 final size:30
Alignment explanation
Indices: 30648684--30648773 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
30648674 TACTACATTG
*
30648684 CACTGATTACTGTATTGGACTAAGGCCC-C-
1 CACTG-TTACTGTATTGGGCTAAGGCCCACA
* *
30648713 TACTGTTGCTGTATTGGGCTAAGGCCCACA
1 CACTGTTACTGTATTGGGCTAAGGCCCACA
* *
30648743 CACTGTTACTGTAATGGGCTAAGGCCTACA
1 CACTGTTACTGTATTGGGCTAAGGCCCACA
30648773 C
1 C
30648774 TGTACTGATA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 20 0.38
29 5 0.10
30 27 0.52
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (30 bp):
CACTGTTACTGTATTGGGCTAAGGCCCACA
Found at i:30650527 original size:24 final size:23
Alignment explanation
Indices: 30650482--30650529 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
30650472 ACTTTTTCTA
*
30650482 TAAATATAATAAATTATATTATT
1 TAAATATAATAAAGTATATTATT
30650505 TAAATATTAATAAAGTA-AGTTATT
1 TAAATA-TAATAAAGTATA-TTATT
30650529 T
1 T
30650530 TCACATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TAAATATAATAAAGTATATTATT
Found at i:30663581 original size:13 final size:13
Alignment explanation
Indices: 30663563--30663594 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
30663553 TTCATAGTAG
30663563 TAAATTGCTTAAT
1 TAAATTGCTTAAT
30663576 TAAATTGCTTAAT
1 TAAATTGCTTAAT
30663589 TAAATT
1 TAAATT
30663595 TCTTTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (13 bp):
TAAATTGCTTAAT
Found at i:30663726 original size:39 final size:39
Alignment explanation
Indices: 30663634--30663894 Score: 308
Period size: 39 Copynumber: 6.7 Consensus size: 39
30663624 TAGAAAAATT
* ** ** * *
30663634 TTGTACTTCGGTACCCCTAAAAGCAC-TACATGCCTCTA
1 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTG
*
30663672 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCGG
1 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTG
* * * **
30663711 TTGTACTTCGATACCCCTGAACGCACTTACGTGCCTTTG
1 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTG
* * * * *
30663750 TTGTACTTAGGTAGCCCTGAACGCACTTACGTGCCCCTA
1 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTG
30663789 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTG
1 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTG
*
30663828 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCTTG
1 TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTG
* * * *
30663867 TTGTACTTCAGTACTCTTGATAGCACTT
1 TTGTACTTCGGTACCCCTGATCGCACTT
30663895 TCATGCCATG
Statistics
Matches: 192, Mismatches: 30, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
38 23 0.12
39 169 0.88
ACGTcount: A:0.18, C:0.31, G:0.19, T:0.33
Consensus pattern (39 bp):
TTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCCTG
Found at i:30663874 original size:19 final size:19
Alignment explanation
Indices: 30663774--30663874 Score: 67
Period size: 19 Copynumber: 5.2 Consensus size: 19
30663764 CCCTGAACGC
* *
30663774 ACTTACGTGCCCCTATTGT
1 ACTTATGTGCCCCTGTTGT
** * * *
30663793 ACTTCGGTACCCCTGATCGC
1 ACTTATGTGCCCCTG-TTGT
30663813 ACTTATGTGCCCCTGTTGT
1 ACTTATGTGCCCCTGTTGT
** * * *
30663832 ACTTCGGTACCCCTGATCGC
1 ACTTATGTGCCCCTG-TTGT
*
30663852 ACTTATGTGCCCTTGTTGT
1 ACTTATGTGCCCCTGTTGT
30663871 ACTT
1 ACTT
30663875 CAGTACTCTT
Statistics
Matches: 58, Mismatches: 22, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
19 31 0.53
20 27 0.47
ACGTcount: A:0.14, C:0.32, G:0.19, T:0.36
Consensus pattern (19 bp):
ACTTATGTGCCCCTGTTGT
Found at i:30663894 original size:117 final size:116
Alignment explanation
Indices: 30663634--30663874 Score: 367
Period size: 117 Copynumber: 2.1 Consensus size: 116
30663624 TAGAAAAATT
* * * *
30663634 TTGTACTTCGGTACCCCTAAAAGCAC-TACATGCCTCTATTGTACTTCGGTACCCCTGATCGCAC
1 TTGTACTTAGGTAGCCCT-GAAGCACTTACATGCCCCTATTGTACTTCGGTACCCCTGATCGCAC
*
30663698 TTATGTGCCCCGGTTGTACTTCGATACCCCTGAACGCACTTACGTGCCTTTG
65 TTATGTGCCCCGGTTGTACTTCGATACCCCTGAACGCACTTACGTGCCCTTG
*
30663750 TTGTACTTAGGTAGCCCTGAACGCACTTACGTGCCCCTATTGTACTTCGGTACCCCTGATCGCAC
1 TTGTACTTAGGTAGCCCTGAA-GCACTTACATGCCCCTATTGTACTTCGGTACCCCTGATCGCAC
* * * *
30663815 TTATGTGCCCCTGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCTTG
65 TTATGTGCCCCGGTTGTACTTCGATACCCCTGAACGCACTTACGTGCCCTTG
30663867 TTGTACTT
1 TTGTACTT
30663875 CAGTACTCTT
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
115 2 0.02
116 20 0.18
117 91 0.81
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (116 bp):
TTGTACTTAGGTAGCCCTGAAGCACTTACATGCCCCTATTGTACTTCGGTACCCCTGATCGCACT
TATGTGCCCCGGTTGTACTTCGATACCCCTGAACGCACTTACGTGCCCTTG
Found at i:30665252 original size:45 final size:45
Alignment explanation
Indices: 30665201--30665469 Score: 421
Period size: 45 Copynumber: 6.0 Consensus size: 45
30665191 GGCCCGGTTA
* *
30665201 AAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
*
30665246 AAGATAACAAATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
30665291 AAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
30665336 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCA
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
30665381 AAGATAACATATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCA
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *
30665426 AAGATAATAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATC
1 AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
30665470 AATGATAGCA
Statistics
Matches: 207, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 207 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (45 bp):
AAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
Found at i:30665544 original size:44 final size:44
Alignment explanation
Indices: 30665481--30665594 Score: 174
Period size: 44 Copynumber: 2.6 Consensus size: 44
30665471 ATGATAGCAG
30665481 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAACCAA
** * * *
30665525 TCTTATCTCCCTGAAGTTGCAAAGGAGCAGACAGAAGAAATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAACCAA
*
30665569 TCCTATCTCCCTGAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
30665595 GCGGATCAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGACAAAAGAAACCAA
Found at i:30667028 original size:3 final size:3
Alignment explanation
Indices: 30667022--30667072 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
30667012 TCACTACTAC
* * *
30667022 TAT TAT TAT TAT TGT TAT T-T ATAT TAT TAT TAT AAT TAT CTAT CAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT
30667068 TAT TA
1 TAT TA
30667073 GCGTAAGTGC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 34 0.87
4 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:30667046 original size:21 final size:21
Alignment explanation
Indices: 30667022--30667072 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
30667012 TCACTACTAC
** *
30667022 TATTATTATTATTGTTATTTA
1 TATTATTATTATAATTATCTA
30667043 TATTATTATTATAATTATCTA
1 TATTATTATTATAATTATCTA
30667064 TCATTATTA
1 T-ATTATTA
30667073 GCGTAAGTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (21 bp):
TATTATTATTATAATTATCTA
Found at i:30667326 original size:17 final size:18
Alignment explanation
Indices: 30667301--30667338 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
30667291 TATATGATAG
* *
30667301 TATTTTTTTTTGTATA-A
1 TATTATTTTTTATATACA
30667318 TATTATTTTTTATATACA
1 TATTATTTTTTATATACA
30667336 TAT
1 TAT
30667339 GGGGGTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTATTTTTTATATACA
Found at i:30669965 original size:36 final size:35
Alignment explanation
Indices: 30669874--30669968 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 35
30669864 ACTTTGACGT
*
30669874 GCTCGCAACTTAAGTGGAGCTCGCGTATTTGGGTGA
1 GCTCACAACTTAAGT-GAGCTCGCGTATTTGGGTGA
** ** *
30669910 GCTCACAACTTTTGATGAGCTCGCAG-ATTTGTTTTA
1 GCTCACAACTTAAG-TGAGCTCGC-GTATTTGGGTGA
30669946 GCTCACAACTTCAAGTGAGCTCG
1 GCTCACAACTT-AAGTGAGCTCG
30669969 TGGGTTTGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
36 45 0.94
37 3 0.06
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (35 bp):
GCTCACAACTTAAGTGAGCTCGCGTATTTGGGTGA
Found at i:30679620 original size:16 final size:17
Alignment explanation
Indices: 30679574--30679623 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
30679564 TGGTAGGCGC
**
30679574 TAATGAATAAAATAATAA
1 TAAT-AATAAAATTTTAA
30679592 TAATAATAAAATTTTAA
1 TAATAATAAAATTTTAA
*
30679609 TAA-AATATAATTTTA
1 TAATAATAAAATTTTA
30679624 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 11 0.38
17 14 0.48
18 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TAATAATAAAATTTTAA
Found at i:30680017 original size:7 final size:7
Alignment explanation
Indices: 30680005--30680029 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30679995 GTAAATTTTT
30680005 TTATTAA
1 TTATTAA
30680012 TTATTAA
1 TTATTAA
30680019 TTATTAA
1 TTATTAA
30680026 TTAT
1 TTAT
30680030 CTATATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTATTAA
Found at i:30680110 original size:19 final size:19
Alignment explanation
Indices: 30680054--30680244 Score: 102
Period size: 19 Copynumber: 9.4 Consensus size: 19
30680044 TATAGTTTAG
* *
30680054 ATTAGAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
30680073 ATTTTAAATTTTTTGTATGAAT
1 ATTAT-AA-TTTTT-TATGAAT
30680095 ATTATAATTTTTTATGAAT
1 ATTATAATTTTTTATGAAT
* * *
30680114 ATTGTAATGTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
30680133 ATTGTAATTATTTTAT--A-
1 ATTATAATT-TTTTATGAAT
**
30680150 ATTA-AATTTGTATTTATAGTTTT
1 ATTATAA-TT-T-TTTAT-G-AAT
30680173 GGATTAGTAATTTTTTGTATGAAT
1 --ATTA-TAA-TTTTT-TATGAAT
* *
30680197 ATTGTAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
30680216 ATTATAAATTTTTGTATGAAT
1 ATTAT-AATTTTT-TATGAAT
*
30680237 ATTGTAAT
1 ATTATAAT
30680245 ATTATAGTTT
Statistics
Matches: 135, Mismatches: 19, Indels: 35
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.01
17 6 0.04
18 6 0.04
19 45 0.33
20 25 0.19
21 20 0.15
22 14 0.10
24 1 0.01
25 7 0.05
26 4 0.03
27 5 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.54
Consensus pattern (19 bp):
ATTATAATTTTTTATGAAT
Found at i:30680138 original size:49 final size:47
Alignment explanation
Indices: 30680054--30680140 Score: 71
Period size: 41 Copynumber: 2.0 Consensus size: 47
30680044 TATAGTTTAG
* * *
30680054 ATTAGAATTTTGTATGAATATTTTAAATTTT-T-TG--TA-TG-AAT
1 ATTATAATTTTGTATGAATATTATAATTTTTGTATGAATATTGTAAT
* * *
30680095 ATTATAATTTTTTATGAATATTGTAA-TGTTGTATGAATATTGTAAT
1 ATTATAATTTTGTATGAATATTATAATTTTTGTATGAATATTGTAAT
30680141 TATTTTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
40 3 0.08
41 24 0.67
42 2 0.06
44 2 0.06
45 2 0.06
46 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (47 bp):
ATTATAATTTTGTATGAATATTATAATTTTTGTATGAATATTGTAAT
Found at i:30680144 original size:121 final size:122
Alignment explanation
Indices: 30680016--30680244 Score: 308
Period size: 121 Copynumber: 1.9 Consensus size: 122
30680006 TATTAATTAT
* * * *
30680016 TAATTA-TTAATTATCTATATTTAGTGTTTATAG-TTTAGATTAG-AA-TTTTGTATGAATATTT
1 TAATTATTTAATAAT-TAAATTT-GTATTTATAGTTTTAGATTAGTAATTTTTGTATGAATATTG
30680077 TAAATTTTTTGTATGAATATTAT-AATTTTT-TATGAATATTGTAATGTTGTATGAATATTG
64 T-AA--TTTTGTATGAATATTATAAATTTTTGTATGAATATTGTAATGTTGTATGAATATTG
* *
30680137 TAATTATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTAATTTTTTGTATGAATATTGT
1 TAATTATTTAATAATTAAATTTGTATTTATAGTTTTAGATTAGTAA-TTTTTGTATGAATATTGT
30680202 AATTTTGTATGAATATTATAAATTTTTGTATGAATATTGTAAT
65 AATTTTGTATGAATATTATAAATTTTTGTATGAATATTGTAAT
30680245 ATTATAGTTT
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
120 9 0.09
121 38 0.40
122 15 0.16
123 17 0.18
124 16 0.17
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (122 bp):
TAATTATTTAATAATTAAATTTGTATTTATAGTTTTAGATTAGTAATTTTTGTATGAATATTGTA
ATTTTGTATGAATATTATAAATTTTTGTATGAATATTGTAATGTTGTATGAATATTG
Found at i:30680260 original size:27 final size:25
Alignment explanation
Indices: 30680204--30680529 Score: 253
Period size: 27 Copynumber: 13.8 Consensus size: 25
30680194 AATATTGTAA
*
30680204 TTTTGTATGAATA-T-T-ATA-AAT
1 TTTTGTATGAATATTGTAATATTAT
30680225 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATTAT
*
30680250 AGTTTTGTATGAATATTG-CA-ATT-T
1 --TTTTGTATGAATATTGTAATATTAT
* *
30680274 TTTTGTATGAATATTGTAATTTGTAA
1 TTTTGTATGAATATTGTAATAT-TAT
30680300 TTTTGTATGAATA---T--TATT-T
1 TTTTGTATGAATATTGTAATATTAT
30680319 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATTAT
*
30680344 AATTTTGTATGAATATTG-CA-ATT-T
1 --TTTTGTATGAATATTGTAATATTAT
*
30680368 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATA-T-TAT
30680395 TTTTGTATGAATA-T-T-ATA--AT
1 TTTTGTATGAATATTGTAATATTAT
*
30680415 TTTTTTATGAATATTG---TA--A-
1 TTTTGTATGAATATTGTAATATTAT
*
30680434 TGTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGTAATATTAT
*
30680459 AATTTTGTATGAATATTG-CA-ATT-T
1 --TTTTGTATGAATATTGTAATATTAT
*
30680483 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATA-T-TAT
30680510 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
30680530 GTGGGATATA
Statistics
Matches: 249, Mismatches: 18, Indels: 70
0.74 0.05 0.21
Matches are distributed among these distances:
19 27 0.11
20 17 0.07
21 16 0.06
22 52 0.21
23 5 0.02
24 17 0.07
25 16 0.06
26 19 0.08
27 80 0.32
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (25 bp):
TTTTGTATGAATATTGTAATATTAT
Found at i:30680313 original size:115 final size:115
Alignment explanation
Indices: 30680060--30680575 Score: 438
Period size: 115 Copynumber: 4.5 Consensus size: 115
30680050 TTAGATTAGA
* * * *
30680060 ATTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATTTTTTATGAATATTG-------
1 ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATA
* * * *
30680118 TAATGTTGTATGAATATTGTAA-TTATTT-TAT--A-ATT-AAAT-TTGT
66 TAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGT
* * *
30680161 ATTTATAGTTTTGGAT-TAGTAA-TTTTTTGTATGAATATTGTAATTTTGTATGAATA-T-T-AT
1 ATTT-T-G-TATGAATATTGTAATTTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAAT
* * *
30680221 A-A-ATTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAATATTG-CA-ATT-T
63 ATATAATTTTGTATGAATATTG-CA-ATT-T--TTTTGTATGAATATTGTAATATTGT
* **
30680274 -TTTTGTATGAATATTGTAATTTGTAATTTTGTATGAATATTATTTTTTTGTATGAATATTGTAA
1 ATTTTGTATGAATATTGTAA-TT-T--TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAA
30680338 TATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGT
62 TA-TATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGT
* *
30680393 AATTTTGTATGAATATTATAA-TTTTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATAT
1 -ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATA-
30680456 TATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGT
64 TATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGT
**** *
30680508 AATTTTGTATGAATATTGTAATGTGGGATATATTGTAATATTGTAATTTTTTGTATGAATATTGT
1 -ATTTTGTATGAATATTGTAAT-TTTTTTGTA-TG-AATATTGTAA--TTTTGTATGAATATTGT
30680573 AAT
60 AAT
30680576 TATTTTATAA
Statistics
Matches: 340, Mismatches: 31, Indels: 67
0.78 0.07 0.15
Matches are distributed among these distances:
101 5 0.01
102 33 0.10
103 5 0.01
104 21 0.06
105 1 0.00
106 1 0.00
107 1 0.00
108 1 0.00
109 5 0.01
110 9 0.03
111 4 0.01
112 4 0.01
113 3 0.01
114 6 0.02
115 133 0.39
116 21 0.06
117 4 0.01
118 10 0.03
119 7 0.02
120 12 0.04
121 35 0.10
122 19 0.06
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.54
Consensus pattern (115 bp):
ATTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATA
TAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGT
Found at i:30680333 original size:16 final size:19
Alignment explanation
Indices: 30680183--30680333 Score: 86
Period size: 19 Copynumber: 6.9 Consensus size: 19
30680173 GGATTAGTAA
*
30680183 TTTTTTGTATGAATATTGT
1 TTTTTTGTATGAATATTAT
**
30680202 AATTTTGTATGAATATTAT
1 TTTTTTGTATGAATATTAT
*
30680221 AAATTTTTGTATGAATATTGTAATAT
1 --TTTTTTGTATGAATA---T--TAT
30680247 TATAGTTTTGTATGAATATTGCAAT
1 T-T--TTTTGTATGAATATT---AT
30680272 TTTTTTGTATGAATATTGTAATT
1 TTTTTTGTATGAATA-T-T-A-T
30680295 TGTAATTTTGTATGAATATTAT
1 T-T--TTTTGTATGAATATTAT
30680317 TTTTTTGTATGAATATT
1 TTTTTTGTATGAATATT
30680334 GTAATATTAT
Statistics
Matches: 108, Mismatches: 5, Indels: 38
0.72 0.03 0.25
Matches are distributed among these distances:
19 31 0.29
21 15 0.14
22 18 0.17
23 4 0.04
24 6 0.06
25 5 0.05
26 16 0.15
27 13 0.12
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (19 bp):
TTTTTTGTATGAATATTAT
Found at i:30680341 original size:94 final size:96
Alignment explanation
Indices: 30680194--30680434 Score: 425
Period size: 94 Copynumber: 2.5 Consensus size: 96
30680184 TTTTTGTATG
* *
30680194 AATATTGTAATTTTGTATGAATATTATAAATTTTTGTATGAATATTGTAATATTATAGTTTTGTA
1 AATATTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGTAATATTATAATTTTGTA
30680259 TGAATATTGCAATTTTTTTGTATGAATATTGT
65 TGAATATTGCAATTTTTTTGTATGAATATTGT
30680291 AAT-TTGTAATTTTGTATGAATATTAT-TTTTTTGTATGAATATTGTAATATTATAATTTTGTAT
1 AATATTGTAATTTTGTATGAATATTATATTTTTTGTATGAATATTGTAATATTATAATTTTGTAT
30680354 GAATATTGCAATTTTTTTGTATGAATATTGT
66 GAATATTGCAATTTTTTTGTATGAATATTGT
30680385 AATATTGTAATTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAAT
1 AATATTGTAATTTTGTATGAATATTAT-ATTTTTTGTATGAATATTGTAAT
30680435 GTTGTATGAA
Statistics
Matches: 139, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
94 69 0.50
95 23 0.17
96 38 0.27
97 9 0.06
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (96 bp):
AATATTGTAATTTTGTATGAATATTATATTTTTTGTATGAATATTGTAATATTATAATTTTGTAT
GAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:30680360 original size:19 final size:19
Alignment explanation
Indices: 30680336--30680576 Score: 109
Period size: 19 Copynumber: 12.6 Consensus size: 19
30680326 TGAATATTGT
*
30680336 AATATTATAATTTTGTATG
1 AATATTGTAATTTTGTATG
* *
30680355 AATATTGCAATTTT-TTTG
1 AATATTGTAATTTTGTATG
*
30680373 --TA-TG-AATATTG--T-
1 AATATTGTAATTTTGTATG
30680385 AATATTGTAATTTTGTATG
1 AATATTGTAATTTTGTATG
* *
30680404 AATATTATAATTTTTTTATG
1 AATATTGTAA-TTTTGTATG
30680424 AATATTGTAATGTTGTATGAATATTG
1 AATATTGTAA--TT-T-TG--TA-TG
*
30680450 TAATATTATAATTTTGTATG
1 -AATATTGTAATTTTGTATG
* *
30680470 AATATTGCAATTTT-TTTG
1 AATATTGTAATTTTGTATG
*
30680488 --TA-TG-AATATTG--T-
1 AATATTGTAATTTTGTATG
30680500 AATATTGTAATTTTGTATG
1 AATATTGTAATTTTGTATG
* *
30680519 AATATTGTAATGTGGGATATATTG
1 AATATTGTAAT-T---TTGTA-TG
30680543 TAATATTGTAATTTTTTGTATG
1 -AATATTGTAA--TTTTGTATG
30680565 AATATTGTAATT
1 AATATTGTAATT
30680577 ATTTTATAAT
Statistics
Matches: 170, Mismatches: 20, Indels: 64
0.67 0.08 0.25
Matches are distributed among these distances:
13 2 0.01
14 14 0.08
15 8 0.05
16 16 0.09
18 8 0.05
19 46 0.27
20 20 0.12
21 14 0.08
22 3 0.02
23 9 0.05
24 3 0.02
25 14 0.08
26 3 0.02
27 10 0.06
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.52
Consensus pattern (19 bp):
AATATTGTAATTTTGTATG
Found at i:30680383 original size:49 final size:49
Alignment explanation
Indices: 30680194--30680440 Score: 364
Period size: 49 Copynumber: 5.2 Consensus size: 49
30680184 TTTTTGTATG
* *
30680194 AATATTGTAATTTTGTATGAATATTATAA-ATTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* * *
30680242 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
30680291 AAT-TTGTAATTTTGTATGAATATT---ATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* *
30680336 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
30680385 AATATTGTAATTTTGTATGAATATTATAA-TTTTTT-TATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
30680432 AATGTTGTA
1 AATATTGTA
30680441 TGAATATTGT
Statistics
Matches: 182, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
45 24 0.13
46 20 0.11
47 20 0.11
48 50 0.27
49 68 0.37
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
Found at i:30680498 original size:49 final size:46
Alignment explanation
Indices: 30680404--30680571 Score: 196
Period size: 49 Copynumber: 3.6 Consensus size: 46
30680394 ATTTTGTATG
* *
30680404 AATATTATAATTTTTTTATGAATATTGTAATGTTGTATGAATATTGT
1 AATATTATAA-TTTTGTATGAATATTGCAATGTTGTATGAATATTGT
*
30680451 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTATAATTTTGTATGAATATTGCAA---TGTTGTATGAATATTGT
* * * *
30680500 AATATTGTAATTTTGTATGAATATTGTAATGTGGGAT--ATATTGT
1 AATATTATAATTTTGTATGAATATTGCAATGTTGTATGAATATTGT
*
30680544 AATATTGTAATTTTTTGTATGAATATTG
1 AATATTATAA--TTTTGTATGAATATTG
30680572 TAATTATTTT
Statistics
Matches: 108, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
44 17 0.16
46 38 0.35
47 10 0.09
49 43 0.40
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (46 bp):
AATATTATAATTTTGTATGAATATTGCAATGTTGTATGAATATTGT
Found at i:30680505 original size:8 final size:8
Alignment explanation
Indices: 30680492--30680554 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
30680482 TTTTTGTATG
30680492 AATATTGT
1 AATATTGT
30680500 AATATTGT
1 AATATTGT
*
30680508 AATTTTGTAT
1 AATATTG--T
30680518 GAATATTGT
1 -AATATTGT
* * *
30680527 AATGTGGG
1 AATATTGT
30680535 ATATATTGT
1 A-ATATTGT
30680544 AATATTGT
1 AATATTGT
30680552 AAT
1 AAT
30680555 TTTTTGTATG
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
8 30 0.70
9 6 0.14
10 1 0.02
11 6 0.14
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (8 bp):
AATATTGT
Found at i:30680569 original size:95 final size:95
Alignment explanation
Indices: 30680404--30680581 Score: 252
Period size: 95 Copynumber: 1.9 Consensus size: 95
30680394 ATTTTGTATG
* * *
30680404 AATATTATAATTTTTTTATGAATATTGTAATGTTGTATGAATATTGTAATATTATAATTTTGTAT
1 AATATTATAATTTTTGTATGAATATTGTAATGTGGGAT-AATATTGTAATATTATAATTTTGTAT
*
30680469 GAATATTGCAATTTTTTTGTATGAATATTGT
65 GAATATTGCAATTATTTTGTATGAATATTGT
* *
30680500 AATATTGTAA-TTTTGTATGAATATTGTAATGTGGGAT-ATATTGTAATATTGTAATTTTTTGTA
1 AATATTATAATTTTTGTATGAATATTGTAATGTGGGATAATATTGTAATATTATAA--TTTTGTA
*
30680563 TGAATATTGTAATTATTTT
64 TGAATATTGCAATTATTTT
30680582 ATAATTAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 16 0.22
95 48 0.66
96 9 0.12
ACGTcount: A:0.33, C:0.01, G:0.14, T:0.53
Consensus pattern (95 bp):
AATATTATAATTTTTGTATGAATATTGTAATGTGGGATAATATTGTAATATTATAATTTTGTATG
AATATTGCAATTATTTTGTATGAATATTGT
Found at i:30683772 original size:22 final size:21
Alignment explanation
Indices: 30683737--30683781 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
30683727 TACCTAATTT
*
30683737 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
30683758 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
30683780 TT
1 TT
30683782 CTTTCTTCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:30683789 original size:18 final size:18
Alignment explanation
Indices: 30683739--30683790 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 18
30683729 CCTAATTTTT
30683739 TTCTTC-TT-TTCCTTCC
1 TTCTTCTTTCTTCCTTCC
30683755 TTCTTTTCTTCTGCTTCCTTCC
1 TTC--TTCTT-T-CTTCCTTCC
30683777 TTCTTCTTTCTTCC
1 TTCTTCTTTCTTCC
30683791 GTTTTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.10
18 8 0.27
19 2 0.07
20 6 0.20
22 11 0.37
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCTTCTTTCTTCCTTCC
Found at i:30683896 original size:27 final size:27
Alignment explanation
Indices: 30683847--30683922 Score: 118
Period size: 27 Copynumber: 2.8 Consensus size: 27
30683837 AAAATCACAG
* *
30683847 CATTGGCGCCT-TCTAATATGGCACCAC
1 CATTGGCGCCTCCCAAATA-GGCACCAC
30683874 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAAATAGGCACCAC
30683901 CATTGGCGCCTCCCAAATAGGC
1 CATTGGCGCCTCCCAAATAGGC
30683923 TACTAACCCG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
27 41 0.89
28 5 0.11
ACGTcount: A:0.24, C:0.37, G:0.20, T:0.20
Consensus pattern (27 bp):
CATTGGCGCCTCCCAAATAGGCACCAC
Found at i:30693878 original size:6 final size:6
Alignment explanation
Indices: 30693864--30693905 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
30693854 AACAAGGATG
* *
30693864 ATATAA ATATGA ATATGA ATATGA ATATGA ATATGA GTATGA
1 ATATGA ATATGA ATATGA ATATGA ATATGA ATATGA ATATGA
30693906 CTAATTTGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
ATATGA
Found at i:30698078 original size:28 final size:30
Alignment explanation
Indices: 30698023--30698084 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 30
30698013 TAAAAACTTG
*
30698023 AAAATATATAAAATTTATTATAAAAAGACAT
1 AAAATATATAAAA-TTATTAAAAAAAGACAT
*
30698054 AAAA-ATATAAAA-TATTAAAAAAAGACTT
1 AAAATATATAAAATTATTAAAAAAAGACAT
30698082 AAA
1 AAA
30698085 TATGAATTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 17 0.59
30 8 0.28
31 4 0.14
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (30 bp):
AAAATATATAAAATTATTAAAAAAAGACAT
Found at i:30700999 original size:24 final size:23
Alignment explanation
Indices: 30700954--30701004 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
30700944 TATTTTTATC
* ** *
30700954 TTATTTTTATTTTGAATTCGATT
1 TTATTTTAATTTTGAAACCGATG
30700977 TTATTTTAATATTTGAAACCGATG
1 TTATTTTAAT-TTTGAAACCGATG
30701001 TTAT
1 TTAT
30701005 AAAAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (23 bp):
TTATTTTAATTTTGAAACCGATG
Found at i:30701836 original size:116 final size:116
Alignment explanation
Indices: 30701705--30702046 Score: 472
Period size: 116 Copynumber: 2.9 Consensus size: 116
30701695 TTTTTGGTCC
* * * * *
30701705 AAACACCGCGAATATGCATTAAAAGTTTGCAAAACGGCGCTGTTTTTAGCTGCGTTTTTAGTGGC
1 AAACTCCGCGAATATGTATTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTGCATTTTTAGTGGC
*
30701770 ATTTTGACTAAAACACCGCAAAAGGTTTTGCGTTAGTGGCT-TTTTCACCAA
66 ATTTTGACTAAAACACCGCAAAAGGTTATGCGTTAGTGG-TGTTTTCACCAA
*
30701821 AAACTCCGCGAATATGTATTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTACATTTTTAGTGGC
1 AAACTCCGCGAATATGTATTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTGCATTTTTAGTGGC
* * * * *
30701886 GTTTTGGCTAAAACACTGCAAAAGGTTATACATTAGTGGTGTTTTCACCAA
66 ATTTTGACTAAAACACCGCAAAAGGTTATGCGTTAGTGGTGTTTTCACCAA
* * ** * *
30701937 AAA-TGCCGCGAATATGTATTAAGAGTTTACAAAAAGGTGCAATTTTTAGTTGCATTTTTTGTGG
1 AAACT-CCGCGAATATGTATTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTGCATTTTTAGTGG
* *
30702001 CCTTTTGACTAAAACGCCGCAAAAGGTTATGCGTTAGTGGTGTTTT
65 CATTTTGACTAAAACACCGCAAAAGGTTATGCGTTAGTGGTGTTTT
30702047 TTATAAACGC
Statistics
Matches: 199, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
115 2 0.01
116 197 0.99
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (116 bp):
AAACTCCGCGAATATGTATTAAGAGTTTGCAAAACGGTGCTGTTTTTAGCTGCATTTTTAGTGGC
ATTTTGACTAAAACACCGCAAAAGGTTATGCGTTAGTGGTGTTTTCACCAA
Found at i:30706541 original size:13 final size:14
Alignment explanation
Indices: 30706525--30706553 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30706515 TTTTAAATAT
30706525 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
30706538 TTATAATGGTTTAA
1 TTATAATGGTTTAA
30706552 TT
1 TT
30706554 CATCGTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:30707413 original size:43 final size:43
Alignment explanation
Indices: 30707366--30707617 Score: 272
Period size: 43 Copynumber: 5.9 Consensus size: 43
30707356 GAATATGACA
* *
30707366 TTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGTTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * ** *
30707409 TTTAGCGGCATTTGTGGGCAAAGCGTTGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * * * ** *
30707452 GTTAGTGACGTTTGTAGAGAAAAATGCCGCTAAAGGTCATATTC
1 TTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGTCATGTTC
* *
30707496 TATAGCGGCATTTGTGGG-AAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
30707538 TATAGCGGAGTTTGTGGGAAAAACGCCGCTAAAAGTCATGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
30707581 TTTAGCGACGTTTGTGGGAAAAGTGCCGTTATAGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
30707618 CAAAAAATGC
Statistics
Matches: 168, Mismatches: 39, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
42 37 0.22
43 101 0.60
44 30 0.18
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:30707553 original size:129 final size:129
Alignment explanation
Indices: 30707368--30707617 Score: 333
Period size: 129 Copynumber: 1.9 Consensus size: 129
30707358 ATATGACATT
* * * * *
30707368 TAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGTTCATGTTCTTTAGCGGCATTTGTGGGCAAAGC
1 TAGCGGCATTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCATTTGTGGGAAAAAC
** * * *
30707433 GTTGCTAAAGGTTATGTTCGTTAGTGACGTTTGTAGAGAAAAATGCCGCTAAAGGTCATATTCTA
66 GCCGCTAAAAGTCATGTTCGTTAGCGACGTTTGT-GAGAAAAATGCCGCTAAAGGTCATATTCTA
30707498 TAGCGGCATTTGT-GGGAAAGCGCCGCTAAAGGTCATGTTCTATAGCGG-AGTTTGTGGGAAAAA
1 TAGCGGCATTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCA-TTTGTGGGAAAAA
* * * * *
30707561 CGCCGCTAAAAGTCATGTTCTTTAGCGACGTTTGTGGGAAAAGTGCCGTTATAGGTC
65 CGCCGCTAAAAGTCATGTTCGTTAGCGACGTTTGTGAGAAAAATGCCGCTAAAGGTC
30707618 CAAAAAATGC
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
128 19 0.18
129 73 0.70
130 12 0.12
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (129 bp):
TAGCGGCATTTGTGGGGAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCATTTGTGGGAAAAAC
GCCGCTAAAAGTCATGTTCGTTAGCGACGTTTGTGAGAAAAATGCCGCTAAAGGTCATATTCTA
Found at i:30710815 original size:94 final size:96
Alignment explanation
Indices: 30710690--30710912 Score: 263
Period size: 95 Copynumber: 2.4 Consensus size: 96
30710680 TAAACAAGGG
** ** * * * * *
30710690 ATTAGGGTTTAGGGTTTGTCAATTAAATTAATTAAAAAAATTTTAAAATTGA-ATTA-GTTTTCG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTTTAAAAATCAGATTAGGATTTAG
* * ** * *
30710753 TGTTTATTATTTTTAAGAAAAAATCAATTAA
66 AGTTAAGGATTTTTAAGAAAAAATAAAATAA
*
30710784 ATTAGGGTTTAGGGTTACTTGAGTAATTTAATT-AAAAAATTTTAAAAATCAGATTAGGATTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTTTAAAAATCAGATTAGGATTTAG
*
30710848 AGTTAAGGGTTTTTAAGAAAAAATAAAATAA
66 AGTTAAGGATTTTTAAGAAAAAATAAAATAA
*
30710879 ATTAGGGTTCAGGGTTACTTGAGTAAATTAATTA
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
30710913 TAAATTTATA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
93 16 0.15
94 31 0.29
95 60 0.56
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (96 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTTTAAAAATCAGATTAGGATTTAG
AGTTAAGGATTTTTAAGAAAAAATAAAATAA
Found at i:30711048 original size:48 final size:47
Alignment explanation
Indices: 30710991--30711084 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 47
30710981 CTATTATATT
30710991 AAAAATTGCCTTATTTAAAACATTATTGTAAAGAATTTCGATTATAA
1 AAAAATTGCCTTATTTAAAACATTATTGTAAAGAATTTCGATTATAA
*
30711038 AAAAATTTGCCTTATTTAAAACGTTATTGTAAAGAATTTCGATTATA
1 AAAAA-TTGCCTTATTTAAAACATTATTGTAAAGAATTTCGATTATA
30711085 TTAAAAATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 5 0.11
48 40 0.89
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (47 bp):
AAAAATTGCCTTATTTAAAACATTATTGTAAAGAATTTCGATTATAA
Found at i:30711686 original size:18 final size:18
Alignment explanation
Indices: 30711660--30711702 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30711650 GACTCGAAAA
* * *
30711660 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
30711678 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
30711696 AGGATAC
1 AGGATAC
30711703 GCACCTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:30713555 original size:11 final size:10
Alignment explanation
Indices: 30713541--30713593 Score: 63
Period size: 11 Copynumber: 5.0 Consensus size: 10
30713531 AAATAGGGAT
30713541 TTGAGAGAAA
1 TTGAGAGAAA
30713551 TTTGAGAGGAAA
1 -TTGAGA-GAAA
30713563 TTGAGAGCAAA
1 TTGAGAG-AAA
30713574 TTGAGAGAAAA
1 TTGAGAG-AAA
30713585 TT-AGAGAAA
1 TTGAGAGAAA
30713594 GGATTTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
9 3 0.08
10 5 0.13
11 27 0.69
12 4 0.10
ACGTcount: A:0.49, C:0.02, G:0.28, T:0.21
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:30713569 original size:22 final size:21
Alignment explanation
Indices: 30713541--30713593 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
30713531 AAATAGGGAT
*
30713541 TTGAGAGAAATTTGAGAGGAAA
1 TTGAGAGAAA-TTGAGAGAAAA
30713563 TTGAGAGCAAATTGAGAGAAAA
1 TTGAGAG-AAATTGAGAGAAAA
30713585 TT-AGAGAAA
1 TTGAGAGAAA
30713594 GGATTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 3 0.10
21 4 0.14
22 19 0.66
23 3 0.10
ACGTcount: A:0.49, C:0.02, G:0.28, T:0.21
Consensus pattern (21 bp):
TTGAGAGAAATTGAGAGAAAA
Found at i:30713814 original size:40 final size:40
Alignment explanation
Indices: 30713742--30713817 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
30713732 ACGTGGCAGG
** *
30713742 AAAACGCGTCCTTGAGGGCGCGCTTTATTGCCACGTAGGC
1 AAAACGCGTCCTTGAGGAAGCGCTTTACTGCCACGTAGGC
* * *
30713782 AAAACGCTTCCTTGAGGAAGCGTTTTCCTGCCACGT
1 AAAACGCGTCCTTGAGGAAGCGCTTTACTGCCACGT
30713818 CTCTTGACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (40 bp):
AAAACGCGTCCTTGAGGAAGCGCTTTACTGCCACGTAGGC
Found at i:30714607 original size:34 final size:35
Alignment explanation
Indices: 30714549--30714615 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 35
30714539 CAAACACCAG
30714549 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
30714584 AAAATATTTTACC-G-AAATCATTTTACGGAAAA
1 AAAATATTTT-CCAGTAAATCATTTTACAGAAAA
30714616 TATTTTACTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 17 0.57
35 11 0.37
36 2 0.07
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:30714608 original size:14 final size:14
Alignment explanation
Indices: 30714584--30714623 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
30714574 ACAGAAAAGT
30714584 AAAATATTTTACCG
1 AAAATATTTTACCG
*
30714598 -AAATCATTTTACGG
1 AAAAT-ATTTTACCG
30714612 AAAATATTTTAC
1 AAAATATTTTAC
30714624 TGGCAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.38
Consensus pattern (14 bp):
AAAATATTTTACCG
Found at i:30718250 original size:20 final size:18
Alignment explanation
Indices: 30718214--30718250 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
30718204 GGGGTTATTG
30718214 TGTGTTGTACGGGATATA
1 TGTGTTGTACGGGATATA
30718232 TGTGTTGATAC-GGATATA
1 TGTGTTG-TACGGGATATA
30718250 T
1 T
30718251 TAGTGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.24, C:0.05, G:0.30, T:0.41
Consensus pattern (18 bp):
TGTGTTGTACGGGATATA
Found at i:30722101 original size:21 final size:20
Alignment explanation
Indices: 30722056--30722099 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30722046 GGAAATAAAG
*
30722056 AAAATGAGGAGAGGAGAAAA
1 AAAATGAGGAGAAGAGAAAA
30722076 AAAATGAAGGAGAA-AGAAAA
1 AAAATG-AGGAGAAGAGAAAA
30722096 AAAA
1 AAAA
30722100 ATTGGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (20 bp):
AAAATGAGGAGAAGAGAAAA
Found at i:30726757 original size:9 final size:9
Alignment explanation
Indices: 30726725--30726789 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
30726715 ATAAAATATT
30726725 AAAATTGATA
1 AAAATT-ATA
* *
30726735 TAAACTTATT
1 -AAAATTATA
*
30726745 AAAATCATAA
1 AAAATTAT-A
30726755 AAAATTATA
1 AAAATTATA
30726764 AAAATTAT-
1 AAAATTATA
30726772 AAAATTAATA
1 AAAATT-ATA
*
30726782 AAACTTAT
1 AAAATTAT
30726790 TTAAGAAACC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
8 6 0.14
9 19 0.43
10 14 0.32
11 5 0.11
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:30727439 original size:29 final size:30
Alignment explanation
Indices: 30727385--30727447 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
30727375 TTTAAAATAT
* *
30727385 TTTTAAAATATTTTTAATTAT-TTTTTTAA
1 TTTTAAAATATTTTTAAATATCTTTTTAAA
30727414 TTTTAAAATATTTTTAAA-ATACTTTTTAAA
1 TTTTAAAATATTTTTAAATAT-CTTTTTAAA
30727444 TTTT
1 TTTT
30727448 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 17 0.57
30 11 0.37
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTAAAATATTTTTAAATATCTTTTTAAA
Found at i:30727480 original size:40 final size:40
Alignment explanation
Indices: 30727354--30727489 Score: 204
Period size: 40 Copynumber: 3.4 Consensus size: 40
30727344 TAAATATATT
*
30727354 TATTTTTTAAA-TTTTTTGAATTTTAAAATATTTTTAAAA
1 TATTTTTTAAATTTTTTTTAATTTTAAAATATTTTTAAAA
*
30727393 TA-TTTTTAATTATTTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTAAAT-TTTTTTTAATTTTAAAATATTTTTAAAA
*
30727433 TACTTTTTAAATTTTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTAAATTTTTTTTAATTTTAAAATATTTTTAAAA
*
30727473 TATTTTTTTAAAATTTT
1 TA-TTTTTTAAATTTTT
30727490 AAAATAAATT
Statistics
Matches: 88, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
38 7 0.08
39 2 0.02
40 59 0.67
41 20 0.23
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.62
Consensus pattern (40 bp):
TATTTTTTAAATTTTTTTTAATTTTAAAATATTTTTAAAA
Found at i:30727486 original size:13 final size:11
Alignment explanation
Indices: 30727374--30727479 Score: 95
Period size: 11 Copynumber: 10.4 Consensus size: 11
30727364 ATTTTTTGAA
30727374 TTTTAAAATAT
1 TTTTAAAATAT
30727385 TTTTAAAATAT
1 TTTTAAAATAT
*
30727396 TTTT-AATTAT
1 TTTTAAAATAT
* *
30727406 TTTT---TTAA
1 TTTTAAAATAT
30727414 TTTTAAAATAT
1 TTTTAAAATAT
30727425 TTTTAAAATACT
1 TTTTAAAATA-T
30727437 TTTT-AAAT-T
1 TTTTAAAATAT
* *
30727446 TTTT---TTAA
1 TTTTAAAATAT
30727454 TTTTAAAATAT
1 TTTTAAAATAT
30727465 TTTTAAAATAT
1 TTTTAAAATAT
30727476 TTTT
1 TTTT
30727480 TTAAAATTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
7 1 0.01
8 11 0.14
9 5 0.06
10 9 0.11
11 48 0.61
12 5 0.06
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:30727856 original size:32 final size:30
Alignment explanation
Indices: 30727801--30727859 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
30727791 TTTTTATAAA
30727801 TTTTTTAAGTTTATATAAATTTTAATACTT
1 TTTTTTAAGTTTATATAAATTTTAATACTT
* *
30727831 TTTTTTATGGTTTTTATAGAATTTTAATA
1 TTTTTTA-AGTTTATATA-AATTTTAATA
30727860 AGCTTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
31 8 0.32
32 10 0.40
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTTTTAAGTTTATATAAATTTTAATACTT
Found at i:30727935 original size:28 final size:27
Alignment explanation
Indices: 30727886--30727939 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
30727876 TAAATATGTT
* *
30727886 TTTATTAATTTTATGATTTTTTTATAA
1 TTTATTAAATTTATGATATTTTTATAA
*
30727913 TTTATTAACATTTATTATATTTTTATA
1 TTTATTAA-ATTTATGATATTTTTATA
30727940 TCAATTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTATTAAATTTATGATATTTTTATAA
Found at i:30727958 original size:9 final size:8
Alignment explanation
Indices: 30727922--30727989 Score: 57
Period size: 8 Copynumber: 7.8 Consensus size: 8
30727912 ATTTATTAAC
30727922 ATTTATTAT
1 ATTT-TTAT
30727931 ATTTTTAT
1 ATTTTTAT
30727939 ATCAATTTTCAT
1 AT---TTTT-AT
30727951 ATTTTTCAT
1 ATTTTT-AT
*
30727960 A-TTTAAT
1 ATTTTTAT
30727967 ATTTTTAT
1 ATTTTTAT
30727975 GATTTTTAT
1 -ATTTTTAT
30727984 ATTTTT
1 ATTTTT
30727990 TTATGAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
7 3 0.06
8 20 0.39
9 20 0.39
11 4 0.08
12 4 0.08
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (8 bp):
ATTTTTAT
Found at i:30733650 original size:5 final size:5
Alignment explanation
Indices: 30733640--30733665 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30733630 CAAGCAATAA
30733640 TAGTG TAGTG TAGTG TAGTG TAGTG T
1 TAGTG TAGTG TAGTG TAGTG TAGTG T
30733666 GTTTGGGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.42
Consensus pattern (5 bp):
TAGTG
Found at i:30741265 original size:45 final size:44
Alignment explanation
Indices: 30741193--30741317 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 44
30741183 GAGCAGGTTA
*
30741193 ATCATGATTCAAACGAGTAAGACCATAGCTGAAAGATGCTATGAC
1 ATCATGATTCAAACGAGTAAGA-CATAGCTGAAAGATACTATGAC
* *
30741238 ATTATGATTCAAACGAGTAAGATCATAGCTGAAAGATACTATGGC
1 ATCATGATTCAAACGAGTAAGA-CATAGCTGAAAGATACTATGAC
* * *
30741283 ATCAGGA-TAAAATGAGTAAGACTATAGCTGAAAGA
1 ATCATGATTCAAACGAGTAAGAC-ATAGCTGAAAGA
30741318 CGTTATGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
43 1 0.01
44 24 0.34
45 46 0.65
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (44 bp):
ATCATGATTCAAACGAGTAAGACATAGCTGAAAGATACTATGAC
Found at i:30742302 original size:48 final size:48
Alignment explanation
Indices: 30742246--30742340 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
30742236 TATCTAAATA
** *
30742246 TAACACCCCTAACTTGTATCCATCGCCGAAATAAGGTTACGGAGCATG
1 TAACACCCCTAACCCGTATCCATCGCCGAAACAAGGTTACGGAGCATG
* *
30742294 TAACACCCCTAACCCGTATCCATCGCCGGAACGAGGTTACGGAGCAT
1 TAACACCCCTAACCCGTATCCATCGCCGAAACAAGGTTACGGAGCAT
30742341 TACCGGAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (48 bp):
TAACACCCCTAACCCGTATCCATCGCCGAAACAAGGTTACGGAGCATG
Found at i:30743723 original size:25 final size:25
Alignment explanation
Indices: 30743665--30743724 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
30743655 TGTAAACAGT
** *
30743665 AAGCTCATATGAGCTGAATAACGGA
1 AAGCTCATGCGAGCTAAATAACGGA
*
30743690 AAGCTCATGCGAGCTAAATAACGGG
1 AAGCTCATGCGAGCTAAATAACGGA
30743715 AAGCTCATGC
1 AAGCTCATGC
30743725 AGGTTGTGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
AAGCTCATGCGAGCTAAATAACGGA
Found at i:30751525 original size:40 final size:40
Alignment explanation
Indices: 30751488--30751673 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
30751478 GCTACTCGTT
* *
30751488 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
30751528 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30751568 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
30751608 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
30751649 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30751674 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30764035 original size:16 final size:16
Alignment explanation
Indices: 30764014--30764047 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30764004 TGGATATTTG
30764014 TATTTATATTGTAATA
1 TATTTATATTGTAATA
30764030 TATTTATATTGTAATA
1 TATTTATATTGTAATA
30764046 TA
1 TA
30764048 GAATGATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TATTTATATTGTAATA
Found at i:30768687 original size:31 final size:31
Alignment explanation
Indices: 30768652--30768710 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
30768642 TGGGTAATAC
* *
30768652 GAGGTGGTAAGCCATCGTTGTCGGGCAATCT
1 GAGGTGGTAAGCCATCATTGTCGAGCAATCT
* *
30768683 GAGGTGGTAGGTCATCATTGTCGAGCAA
1 GAGGTGGTAAGCCATCATTGTCGAGCAA
30768711 CCTGGGATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.22, C:0.17, G:0.36, T:0.25
Consensus pattern (31 bp):
GAGGTGGTAAGCCATCATTGTCGAGCAATCT
Found at i:30771282 original size:33 final size:33
Alignment explanation
Indices: 30771245--30771311 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
30771235 CTTAGAATGA
*
30771245 TTGCTTTGTCAATTAGATATTTAGTCCATCGAT
1 TTGCTTTGTCAATTAGATATTTAGCCCATCGAT
30771278 TTGCTTTGTCAATTAGATATTTAGCCCATCGAT
1 TTGCTTTGTCAATTAGATATTTAGCCCATCGAT
30771311 T
1 T
30771312 GATTTCTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (33 bp):
TTGCTTTGTCAATTAGATATTTAGCCCATCGAT
Found at i:30773739 original size:30 final size:30
Alignment explanation
Indices: 30773705--30773765 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
30773695 TCCCAATAAA
30773705 TATATGATTGTTATTTGTTAACAAGATTGT
1 TATATGATTGTTATTTGTTAACAAGATTGT
*
30773735 TATATGATTGTTATTTGTTAACAATATTGT
1 TATATGATTGTTATTTGTTAACAAGATTGT
30773765 T
1 T
30773766 TTTCCAGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (30 bp):
TATATGATTGTTATTTGTTAACAAGATTGT
Found at i:30777609 original size:36 final size:36
Alignment explanation
Indices: 30777537--30777610 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
30777527 AGTAAACACT
* *
30777537 ATTCAATTCAACAGCCTTTCAGACATATTTTGATTG
1 ATTCAATTCAACAGCCTTTCAGACATATTCTAATTG
* * *
30777573 ATTCAGTTCAGCAGCCTTTTAGATC-TATTCTAATTG
1 ATTCAATTCAACAGCCTTTCAGA-CATATTCTAATTG
30777609 AT
1 AT
30777611 GGGCTCCTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (36 bp):
ATTCAATTCAACAGCCTTTCAGACATATTCTAATTG
Found at i:30786181 original size:20 final size:20
Alignment explanation
Indices: 30786153--30786209 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
30786143 AAGACTATGA
*
30786153 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
30786173 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
30786193 TCCATTCTATTTACTTA
1 ACCATTCCATTTACTTA
30786210 GCATAATCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.46
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:30786279 original size:21 final size:21
Alignment explanation
Indices: 30786254--30786294 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30786244 TAGTGTGTTT
* *
30786254 ATCCATGACATAGGTAAATTC
1 ATCCATAACATAAGTAAATTC
30786275 ATCCATAACATAAGTAAATT
1 ATCCATAACATAAGTAAATT
30786295 TCTCAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (21 bp):
ATCCATAACATAAGTAAATTC
Found at i:30790883 original size:29 final size:29
Alignment explanation
Indices: 30790841--30790898 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
30790831 GTACAATGGG
30790841 GTATACGATGACGCTATTTGTCTTCAATT
1 GTATACGATGACGCTATTTGTCTTCAATT
30790870 GTATACGATGACGCTATTTGTCTTCAATT
1 GTATACGATGACGCTATTTGTCTTCAATT
30790899 ATTCCCTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (29 bp):
GTATACGATGACGCTATTTGTCTTCAATT
Found at i:30793833 original size:54 final size:54
Alignment explanation
Indices: 30793750--30793864 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
30793740 GAGGTCAATT
* **
30793750 AAATGACCGAAATACCCCTGTAAGGTAAAATGACTAAAATACCCCCGA-AAGGTA
1 AAATGATCGAAATACCCCCATAAGGTAAAATGACTAAAATACCCCC-ATAAGGTA
* * *
30793804 AAATGATCGAAATACCCCCAT-AGGCTAAAATGATTGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAAGG-TAAAATGACTAAAATACCCCCATAAGGTA
30793858 AAATGAT
1 AAATGAT
30793865 TATTATACCC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.08
54 49 0.92
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (54 bp):
AAATGATCGAAATACCCCCATAAGGTAAAATGACTAAAATACCCCCATAAGGTA
Found at i:30793864 original size:27 final size:27
Alignment explanation
Indices: 30793758--30793865 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
30793748 TTAAATGACC
** *
30793758 GAAATACCCCTGTAAGGTAAAATGACT
1 GAAATACCCCCATAAGGTAAAATGATT
* *
30793785 AAAATACCCCCGA-AAGGTAAAATGATC
1 GAAATACCCCC-ATAAGGTAAAATGATT
30793812 GAAATACCCCCAT-AGGCTAAAATGATT
1 GAAATACCCCCATAAGG-TAAAATGATT
*
30793839 GAAATACCCCCATAGGGTAAAATGATT
1 GAAATACCCCCATAAGGTAAAATGATT
30793866 ATTATACCCC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
26 4 0.06
27 63 0.91
28 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCATAAGGTAAAATGATT
Found at i:30794061 original size:12 final size:12
Alignment explanation
Indices: 30794044--30794087 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
30794034 ACATATGCTG
30794044 TTACTGGCAGCT
1 TTACTGGCAGCT
30794056 TTACTGCGACA-CT
1 TTACTG-G-CAGCT
30794069 ATTACTGGCAGCT
1 -TTACTGGCAGCT
30794082 TTACTG
1 TTACTG
30794088 CGATATTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 14 0.50
13 6 0.21
14 8 0.29
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (12 bp):
TTACTGGCAGCT
Found at i:30802988 original size:25 final size:27
Alignment explanation
Indices: 30802951--30803000 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
30802941 AGTAAAATTT
30802951 TGGGAGGGAAATATTCAAAAAAAAAAG
1 TGGGAGGGAAATATTCAAAAAAAAAAG
30802978 TGGG-GGG-AATATTCAAAAAAAAA
1 TGGGAGGGAAATATTCAAAAAAAAA
30803001 GGTAGGCCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.70
26 3 0.13
27 4 0.17
ACGTcount: A:0.54, C:0.04, G:0.26, T:0.16
Consensus pattern (27 bp):
TGGGAGGGAAATATTCAAAAAAAAAAG
Found at i:30804541 original size:554 final size:550
Alignment explanation
Indices: 30803464--30804568 Score: 1639
Period size: 554 Copynumber: 2.0 Consensus size: 550
30803454 TAGAAGAGTT
* * * *
30803464 ATTTTATCTTTTTTATAATAGTCAAACCAACCATTCTAATAGTGAAAGGTTACGGAGAGGCCAAG
1 ATTTTATCTTTTTTATAACAATCAAACCAACCATTCTAATAGTAAAAAGTTACGGAGAGGCCAAG
* **
30803529 AATTTCAAATAAAAAAGCATAAGAACTCAATGTCTCAAAATTAAAGTATAGGGGCTAAAATTTAG
66 AATTTCAAATAAAAAAGCATAAGAACTCAATGTCTCAAAATTAAAATATAGGCACTAAAATTTAG
30803594 ATTTTAAAAGAATACAAGGACCTTTAGCATATTAAACTTCTTTTTTTTCTCACCCAACGATGAAA
131 ATTTTAAAAGAATACAAGGACCTTTAGCATATTAAACTTCTTTTTTTTCTCACCCAACGATGAAA
* ** * *
30803659 GGCTACAAAATGGTCTTTCAACCATTTAATTTTTTTCTTTTGTGGTCATCGGTCGTTAAATGGCT
196 AGCTACAAAATGGTCACTCAACCATTTAATTTTTTTCTTTTGTGGTCATCGGTAGTTAAATGGAT
* *
30803724 AAGTTTCAGCTTTTAAAGTTAGATTAATACCATATTTAACCCTTAAACATTTATACATTGCATCA
261 AAGTCTCAGCTTTTAAAGTTAGATTAATACCATATTTAACCCTCAAACATTTATACATTGCATCA
* * *
30803789 ATGTAGTATTGATTTTAAAAAACTTACCCCTCAATGTTTTCACAGTATGTAATTTGATCCTTTTT
326 ATATAGTATTGATCTAAAAAAACTTACCCCTCAATGTTTTCACAGTATGTAATTTGATCC-TTTT
** * *
30803854 TTACAGTTTTGTTCAAACATTATTACAATTTGGTTACTAATTGATCCTTTTCACATTGTGTTAAC
390 TTACAACTTTGTCCAAACATTATTACAATTTGGTTACTAATTGATCCTTTTCACATTATGTTAAC
* **
30803919 AATTGGACTTGTGTTTTTAAATTCAAAAAGTAAAGTACTAAATTCTTTGAAATAAAAAGTAAGAG
455 AATTAGACTTGTACTTTTAAATTCAAAAAGTAAAGTACTAAATTCTTTGAAATAAAAAGTAAGAG
* *
30803984 ACTAAATTTCAAATTTACAAATCATATAAAAA
520 ACTAAA-TTCAAATGTACAAATAATATAAAAA
* *
30804016 ATTTTATCTTTTTTATAACAATCAAATCAACCATTCTAATGGTAAAAAG-TATCGGAGAGGCCAA
1 ATTTTATCTTTTTTATAACAATCAAACCAACCATTCTAATAGTAAAAAGTTA-CGGAGAGGCCAA
* * *
30804080 GAATTTCAAATAAAAAAGTATAAGAACTCAATGTCTCACAATTAAAATATAGGCACTAAATTTTA
65 GAATTTCAAATAAAAAAGCATAAGAACTCAATGTCTCAAAATTAAAATATAGGCACTAAAATTTA
* *
30804145 GATTTTAAAAGAGGTACAAGGACCTTTAGCATATTTAAGCTTCCTTCTTTTTTCTCACCCAACGA
130 GATTTTAAAAGA-ATACAAGGACCTTTAGCATA-TTAAACTT-CTT-TTTTTTCTCACCCAACGA
* * * *
30804210 TGAAAAGTTACAAAATGGTCACTCAACTATTTGA-TTTTTTCTTTTTTGGTCATCGGTAGTTAAA
191 TGAAAAGCTACAAAATGGTCACTCAACCATTTAATTTTTTTCTTTTGTGGTCATCGGTAGTTAAA
*
30804274 T-GATGAAGTCTCAGCTTTTAAAAG-TAG-TATAATAGCATATTTAACCCTCAAACATTTATACA
256 TGGAT-AAGTCTCAGCTTTT-AAAGTTAGAT-TAATACCATATTTAACCCTCAAACATTTATACA
* * *
30804336 TTGCATCAATATAGTATTGAATCTAAAAAAATTTACCCCTCAATGTTTTCACATTGTGTAATTTG
318 TTGCATCAATATAGTATTG-ATCTAAAAAAACTTACCCCTCAATGTTTTCACAGTATGTAATTTG
*
30804401 ATCC-TTTTTACAACTTTGTCCAAACATTTTTA-AAGTTTGGTTACTAATTGATCCTTTTCACAT
382 ATCCTTTTTTACAACTTTGTCCAAACATTATTACAA-TTTGGTTACTAATTGATCCTTTTCACAT
* * *
30804464 TATGTTGACAATTAGACTTGTACTTTTAAATTCAGAAAGTAATGTACTAAATTCTTTGAAATAAA
446 TATGTTAACAATTAGACTTGTACTTTTAAATTCAAAAAGTAAAGTACTAAATTCTTTGAAATAAA
*
30804529 AAGTAGGAGACTAAATTCAAATGTACAAATAATATAAAAA
511 AAGTAAGAGACTAAATTCAAATGTACAAATAATATAAAAA
30804569 CTTAAAACAT
Statistics
Matches: 497, Mismatches: 46, Indels: 19
0.88 0.08 0.03
Matches are distributed among these distances:
551 2 0.00
552 126 0.25
553 44 0.09
554 134 0.27
555 97 0.20
556 94 0.19
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (550 bp):
ATTTTATCTTTTTTATAACAATCAAACCAACCATTCTAATAGTAAAAAGTTACGGAGAGGCCAAG
AATTTCAAATAAAAAAGCATAAGAACTCAATGTCTCAAAATTAAAATATAGGCACTAAAATTTAG
ATTTTAAAAGAATACAAGGACCTTTAGCATATTAAACTTCTTTTTTTTCTCACCCAACGATGAAA
AGCTACAAAATGGTCACTCAACCATTTAATTTTTTTCTTTTGTGGTCATCGGTAGTTAAATGGAT
AAGTCTCAGCTTTTAAAGTTAGATTAATACCATATTTAACCCTCAAACATTTATACATTGCATCA
ATATAGTATTGATCTAAAAAAACTTACCCCTCAATGTTTTCACAGTATGTAATTTGATCCTTTTT
TACAACTTTGTCCAAACATTATTACAATTTGGTTACTAATTGATCCTTTTCACATTATGTTAACA
ATTAGACTTGTACTTTTAAATTCAAAAAGTAAAGTACTAAATTCTTTGAAATAAAAAGTAAGAGA
CTAAATTCAAATGTACAAATAATATAAAAA
Found at i:30818459 original size:27 final size:26
Alignment explanation
Indices: 30818428--30818605 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
30818418 TAAATTGTAC
30818428 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
30818455 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
30818481 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
30818509 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
30818537 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
30818564 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
30818591 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30818606 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:30818544 original size:82 final size:81
Alignment explanation
Indices: 30818429--30818584 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30818419 AAATTGTACA
* *
30818429 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30818493 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
30818510 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30818575 TGCGAGTTGA
65 TGCGAATTGA
30818585 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30818596 original size:82 final size:81
Alignment explanation
Indices: 30818425--30818605 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
30818415 GATTAAATTG
* *
30818425 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30818490 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
30818506 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30818570 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30818588 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30818606 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30818616 original size:27 final size:27
Alignment explanation
Indices: 30818510--30818616 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
30818500 TGACCATGCG
* * * *
30818510 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
30818538 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
30818565 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
30818592 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
30818617 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:30826551 original size:27 final size:27
Alignment explanation
Indices: 30826516--30826694 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
30826506 TTAAATTGTA
30826516 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
30826543 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
30826570 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
30826597 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
30826625 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
30826652 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
30826679 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
30826695 GACTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:30826632 original size:82 final size:81
Alignment explanation
Indices: 30826518--30826673 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30826508 AAATTGTATA
* *
30826518 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30826582 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
30826599 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30826664 TGCGAGTTGA
65 TGCGAATTGA
30826674 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30826685 original size:82 final size:81
Alignment explanation
Indices: 30826514--30826694 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
30826504 GATTAAATTG
* *
30826514 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30826579 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
30826595 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30826659 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
30826677 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
30826695 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30829638 original size:27 final size:27
Alignment explanation
Indices: 30829608--30829663 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
30829598 CAGGAAAACT
* *
30829608 AAGAATAGCTTTTGTGGAAAATTCTGA
1 AAGAATAGCCTTCGTGGAAAATTCTGA
*
30829635 AAGAATAGCCTTCGTGGAAAATTTTGA
1 AAGAATAGCCTTCGTGGAAAATTCTGA
30829662 AA
1 AA
30829664 ATATTTCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (27 bp):
AAGAATAGCCTTCGTGGAAAATTCTGA
Found at i:30834609 original size:12 final size:11
Alignment explanation
Indices: 30834592--30834648 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
30834582 AACAAATCCT
30834592 CTCTCATATTTC
1 CTCTCA-ATTTC
30834604 CTCTCAA-TTC
1 CTCTCAATTTC
30834614 CTCTCAATTTC
1 CTCTCAATTTC
*
30834625 CT-TCCAAAATT-
1 CTCT-C-AATTTC
30834636 CTCTCAATTTC
1 CTCTCAATTTC
30834647 CT
1 CT
30834649 TCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 15 0.39
11 12 0.32
12 11 0.29
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:30834639 original size:22 final size:22
Alignment explanation
Indices: 30834609--30834664 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
30834599 ATTTCCTCTC
30834609 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
30834632 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
30834654 AATTCTCTCAA
1 AATTCTCTCAA
30834665 ATCCATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:30834693 original size:51 final size:51
Alignment explanation
Indices: 30834636--30834739 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
30834626 TTCCAAAATT
*
30834636 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
30834687 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
30834738 CT
1 CT
30834740 TTTTTAAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (51 bp):
CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
Found at i:30835894 original size:7 final size:7
Alignment explanation
Indices: 30835884--30835908 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30835874 ATTCAATTGA
30835884 TATTTAG
1 TATTTAG
30835891 TATTTAG
1 TATTTAG
30835898 TATTTAG
1 TATTTAG
30835905 TATT
1 TATT
30835909 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:30836583 original size:18 final size:18
Alignment explanation
Indices: 30836557--30836591 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30836547 AGGTGCGTTT
*
30836557 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
30836575 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
30836592 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:30837133 original size:23 final size:23
Alignment explanation
Indices: 30837081--30837544 Score: 327
Period size: 23 Copynumber: 18.9 Consensus size: 23
30837071 TTTGATGTAA
*
30837081 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAATTTAAT
*** *
30837104 CCTAAACCCTAACCTAAATTAAT
1 TAAAAACCCTAACCTAATTTAAT
* * *
30837127 TTAAAACTCTAATCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
30837150 TAAAAACCCTAAACCCTTAACTTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
*
30837175 -AAACCCTAACCTTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
*
30837201 TAAAAACTCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
30837224 TAAAAACCCTAAACCCTTAACTTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
*
30837249 -AAACCCTAACCTTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
30837275 T-AAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
30837297 TAAAAACCCTAAACCCTTAA-TTAA-
1 TAAAAACCCT-AA-CC-TAATTTAAT
30837321 -AAACCCTAACCCTAACCTAATTTAAT
1 TAAA----AACCCTAACCTAATTTAAT
*
30837347 TAAAAACTCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
* *
30837370 TAAAAACCCTAAACT--CTTAACT
1 TAAAAACCCTAACCTAATTTAA-T
*
30837392 TAAAAACCCTAACCTTAACCAAAATTAAT
1 TAAAAACCCTAACC-T-----AATTTAAT
*
30837421 TAAAAACTCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
*
30837444 TAAAAATCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAATTTAAT
30837467 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
30837496 TAAAAACCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAATTTAAT
30837525 TAAAAACCCTAACCTAATTT
1 TAAAAACCCTAACCTAATTT
30837545 TACATAATTT
Statistics
Matches: 362, Mismatches: 35, Indels: 88
0.75 0.07 0.18
Matches are distributed among these distances:
21 4 0.01
22 33 0.09
23 157 0.43
24 15 0.04
25 32 0.09
26 25 0.07
27 19 0.05
28 11 0.03
29 62 0.17
30 4 0.01
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAAAACCCTAACCTAATTTAAT
Found at i:30837174 original size:22 final size:20
Alignment explanation
Indices: 30837145--30837190 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
30837135 CTAATCTAAT
30837145 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
30837166 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
30837186 TTAAC
1 TTAAC
30837191 CTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:30837193 original size:74 final size:74
Alignment explanation
Indices: 30837101--30837536 Score: 646
Period size: 74 Copynumber: 5.8 Consensus size: 74
30837091 AACCTAATTT
* * *
30837101 AACCCTAAACCCTAACCTAAATTAATTTAAAACTCTAATCTAATTTAATTAAAAACCCTAAACCC
1 AACCCT-AACCCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCC
30837166 TTAACTTAAA
65 TTAACTTAAA
*
30837176 AACCCTAACCTTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCT
30837241 TAACTTAAA
66 TAACTTAAA
* *
30837250 AACCCTAACCTTAACCTAATTTAATT-AAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCT
30837314 TAA-TTAAA
66 TAACTTAAA
*
30837322 AACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACTCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCT
30837387 TAACTTAAA
66 TAACTTAAA
* * * *
30837396 AACCCTAACCTTAACCAAAATTAATTAAAAACTCTAACCTAATTTAATTAAAAATCCT-AACCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACC--
*
30837460 ATTTAA-TTAAA
64 -CTTAACTTAAA
30837471 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAA--CT----CTAACCTAATTTAATTAAAAACCCTA
30837536 A
60 A
30837537 CCTAATTTTA
Statistics
Matches: 331, Mismatches: 18, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
72 30 0.09
73 82 0.25
74 149 0.45
75 39 0.12
76 4 0.01
77 2 0.01
81 24 0.07
82 1 0.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (74 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCT
TAACTTAAA
Found at i:30837248 original size:22 final size:20
Alignment explanation
Indices: 30837219--30837264 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
30837209 CTAACCTAAT
30837219 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
30837240 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
30837260 TTAAC
1 TTAAC
30837265 CTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:30837318 original size:21 final size:20
Alignment explanation
Indices: 30837270--30837333 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 20
30837260 TTAACCTAAT
*
30837270 TTAATT-AAAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACC---C
30837292 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
30837313 TTAATTAAAAACCCTAACCC
1 TTAATTAAAAACCCTAACCC
30837333 T
1 T
30837334 AACCTAATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 6 0.15
21 15 0.38
22 6 0.15
23 8 0.21
24 4 0.10
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (20 bp):
TTAATTAAAAACCCTAACCC
Found at i:30837455 original size:52 final size:51
Alignment explanation
Indices: 30837182--30837544 Score: 297
Period size: 52 Copynumber: 7.3 Consensus size: 51
30837172 TAAAAACCCT
* *
30837182 AACCTTAACCTAATTTAATTAAAAA--CT---CTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAAATTAATTAAA
* *
30837228 AACCCTAAACC---CTTAACTTAAAAACCCTAACCTTAACCTAATTTAATT-AA
1 AACCCT-AACCTAATTTAA-TTAAAAACCCTAACC-TAACCTAAATTAATTAAA
* *
30837278 AACCCTAACCTAATTTAATTAAAAACCCTAA---ACCCTTAATTAA--AAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAAATTAATTAAA
*
30837324 CCCTAACCCTAACCTAATTTAATTAAAAA--CT---CTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAAATTAATTAAA
* * *
30837374 AACCCTAAACT--CTTAACTTAAAAACCCTAACCTTAACCAAAATTAATTAAA
1 AACCCTAACCTAATTTAA-TTAAAAACCCTAACC-TAACCTAAATTAATTAAA
* * * *
30837425 AACTCTAACCTAATTTAATTAAAAATCCTAACCTAA-TTTAATTAA--AAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAAATTAATTAAA
*
30837473 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAACCTAAATTAATTAAA
30837529 AACCCTAACCTAATTT
1 AACCCTAACCTAATTT
30837545 TACATAATTT
Statistics
Matches: 255, Mismatches: 25, Indels: 68
0.73 0.07 0.20
Matches are distributed among these distances:
44 8 0.03
45 14 0.05
46 17 0.07
47 17 0.07
48 14 0.05
49 4 0.02
50 44 0.17
51 56 0.22
52 63 0.25
53 9 0.04
54 6 0.02
56 3 0.01
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (51 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACCTAAATTAATTAAA
Found at i:30841584 original size:10 final size:10
Alignment explanation
Indices: 30841564--30841636 Score: 51
Period size: 11 Copynumber: 7.1 Consensus size: 10
30841554 TCACTTAATT
30841564 AATTTTT-AA
1 AATTTTTAAA
30841573 AATTTTTAAA
1 AATTTTTAAA
** *
30841583 AATTCAATGAA
1 AATT-TTTAAA
*
30841594 AATTATATAAA
1 AATT-TTTAAA
30841605 ATATTTTTAAA
1 A-ATTTTTAAA
*
30841616 AATTATT-AA
1 AATTTTTAAA
30841625 AATTATTTAAA
1 AATT-TTTAAA
30841636 A
1 A
30841637 TGTATAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
9 13 0.26
10 13 0.26
11 21 0.42
12 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:30841605 original size:31 final size:29
Alignment explanation
Indices: 30841570--30841646 Score: 82
Period size: 33 Copynumber: 2.5 Consensus size: 29
30841560 AATTAATTTT
30841570 TAAAATTTTTAAAAATTCAATGAAAATTATA
1 TAAAATTTTTAAAAATT--ATGAAAATTATA
* *
30841601 TAAAATATTTTTAAAAATTATTAAAATTATT
1 T-AAA-ATTTTTAAAAATTATGAAAATTATA
* *
30841632 TAAAATGTATAAAAA
1 TAAAATTTTTAAAAA
30841647 ATATATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 9 0.22
30 3 0.08
31 12 0.30
32 3 0.08
33 13 0.32
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (29 bp):
TAAAATTTTTAAAAATTATGAAAATTATA
Found at i:30841617 original size:22 final size:21
Alignment explanation
Indices: 30841592--30841655 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
30841582 AAATTCAATG
30841592 AAAATTATATAAAATATTTTT
1 AAAATTATATAAAATATTTTT
*
30841613 AAAAATTAT-TAAAAT-TATTT
1 -AAAATTATATAAAATATTTTT
*
30841633 AAAATGTATAAAAAATATATTTT
1 AAAAT-TATATAAAATAT-TTTT
30841656 TAATATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
19 5 0.14
20 7 0.20
21 11 0.31
22 9 0.26
23 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AAAATTATATAAAATATTTTT
Found at i:30841627 original size:42 final size:42
Alignment explanation
Indices: 30841565--30841655 Score: 105
Period size: 42 Copynumber: 2.1 Consensus size: 42
30841555 CACTTAATTA
* *
30841565 ATTTTTAAAATTTTTAAAAATTCAATGAAAAT-TATATAAAAT
1 ATTTTTAAAATTATTAAAAATT-AATGAAAATGTATAAAAAAT
* *
30841607 ATTTTTAAAAATTATT-AAAATTATTTAAAATGTATAAAAAAT
1 ATTTTT-AAAATTATTAAAAATTAATGAAAATGTATAAAAAAT
30841649 ATATTTT
1 AT-TTTT
30841656 TAATATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
41 7 0.17
42 23 0.55
43 12 0.29
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (42 bp):
ATTTTTAAAATTATTAAAAATTAATGAAAATGTATAAAAAAT
Found at i:30841637 original size:10 final size:10
Alignment explanation
Indices: 30841564--30841637 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
30841554 TCACTTAATT
30841564 AATT-TTTAA
1 AATTATTTAA
30841573 AATT-TTTAAA
1 AATTATTT-AA
* *
30841583 AATTCAATGAA
1 AATT-ATTTAA
*
30841594 AATTATATAA
1 AATTATTTAA
*
30841604 AATATTTTTAAA
1 AAT-TATTT-AA
30841616 AATTA-TTAA
1 AATTATTTAA
30841625 AATTATTTAA
1 AATTATTTAA
30841635 AAT
1 AAT
30841638 GTATAAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
9 14 0.27
10 21 0.41
11 10 0.20
12 6 0.12
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (10 bp):
AATTATTTAA
Found at i:30841676 original size:42 final size:40
Alignment explanation
Indices: 30841565--30841678 Score: 104
Period size: 43 Copynumber: 2.7 Consensus size: 40
30841555 CACTTAATTA
* *
30841565 ATTTTTAAAATTTTTAAAAATTCAATGAAAATTATATAAAATAT
1 ATTTTTAAAATTTTT-AAAATT---TTAAAATTATAAAAAATAT
* *
30841609 -TTTTAAAAATTATTAAAATTATTTAAAATGTATAAAAAATAT
1 ATTTTTAAAATTTTTAAAA-T-TTTAAAAT-TATAAAAAATAT
*
30841651 ATTTTTAATATTTTTAAACATTTTAAAA
1 ATTTTTAAAATTTTTAAA-ATTTTAAAA
30841679 AATAAGTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
41 6 0.10
42 22 0.38
43 28 0.48
44 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (40 bp):
ATTTTTAAAATTTTTAAAATTTTAAAATTATAAAAAATAT
Found at i:30843533 original size:19 final size:19
Alignment explanation
Indices: 30843508--30843551 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
30843498 TTTTAGAAAT
*
30843508 TATTTTTTATCA-TATTAA
1 TATTTTTTATAATTATTAA
*
30843526 TAATTTTTATAATTATTAA
1 TATTTTTTATAATTATTAA
30843545 TATTTTT
1 TATTTTT
30843552 AAAAATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTTATAATTATTAA
Found at i:30843534 original size:18 final size:18
Alignment explanation
Indices: 30843511--30843552 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
30843501 TAGAAATTAT
*
30843511 TTTTTATCA-TATTAATAA
1 TTTTTATAATTATTAAT-A
30843529 TTTTTATAATTATTAATA
1 TTTTTATAATTATTAATA
30843547 TTTTTA
1 TTTTTA
30843553 AAAATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTATAATTATTAATA
Found at i:30853559 original size:50 final size:50
Alignment explanation
Indices: 30853504--30853697 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 50
30853494 CGTTGAGATT
* * *
30853504 ATGAGAGGTCCCATGTAAGACCATGTCTGGAACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * *
30853554 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
** * * *
30853604 ATGAGAACTCCTATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * ** *
30853653 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30853698 TGTTATTATC
Statistics
Matches: 120, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.32
50 81 0.68
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:30858008 original size:42 final size:42
Alignment explanation
Indices: 30857913--30858010 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 42
30857903 CAAGTCAGGC
* * *
30857913 AGTTACACGGCCTGACACACAGGCGTGTGAGGCCATTTCAAG
1 AGTTACACGGCCTGGCACACAGGCGCGTGAGACCATTTCAAG
* * * **
30857955 AGTT--ATGGCCTGGCACACGGGCGCGTGATACCATTTTGAG
1 AGTTACACGGCCTGGCACACAGGCGCGTGAGACCATTTCAAG
30857995 AGTTACACGGCCTGGC
1 AGTTACACGGCCTGGC
30858011 GTGTGTCTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
40 32 0.71
42 13 0.29
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.21
Consensus pattern (42 bp):
AGTTACACGGCCTGGCACACAGGCGCGTGAGACCATTTCAAG
Done.