Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 231 of 328
Found at i:69302012 original size:31 final size:31
Alignment explanation
Indices: 69301977--69302094 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
69301967 CTTGTCACAT
* *
69301977 GTAGCTGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
69302008 GTAGCCGGAGCTACCATTTTTCACTTATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
69302039 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
69302070 GTAGTAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
69302095 TGTCATTTGT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:69302244 original size:50 final size:50
Alignment explanation
Indices: 69302076--69302245 Score: 263
Period size: 49 Copynumber: 3.4 Consensus size: 50
69302066 TCAGGTAGTA
* * *
69302076 GAAGCTACCACTTTTCACTTGTCATTTGTACTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCC
69302127 GAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAGATAA-TGTAGCC
1 GAAGCTATCACTTATCACTTTCA-TTTGTCCTTGATCAGATAAGTGTAGCC
* *
69302176 GAAGCAATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCC
69302226 GAAGCTATCACTTATCACTT
1 GAAGCTATCACTTATCACTT
69302246 GTTGCCATGG
Statistics
Matches: 109, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
48 3 0.03
49 43 0.39
50 42 0.39
51 21 0.19
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (50 bp):
GAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGTGTAGCC
Found at i:69315361 original size:29 final size:28
Alignment explanation
Indices: 69315317--69315406 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 28
69315307 TGAGCATGAC
*
69315317 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
* *
69315346 TGTAAATGTGATTTGGGCCTAATGGGCTA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
* *
69315375 TATAAATGTGATTGGGCCTAGTGGGCAA
1 TATAAATGTGATTGGGCCTAATGGGCCA
69315403 TATA
1 TATA
69315407 CAGGTATGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
28 20 0.37
29 34 0.63
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:69323216 original size:25 final size:25
Alignment explanation
Indices: 69323188--69323282 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
69323178 CTCTTTTAAT
69323188 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
69323213 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
69323238 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
69323263 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
69323283 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:69323515 original size:27 final size:27
Alignment explanation
Indices: 69323485--69323546 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
69323475 GGGGAAAAAT
69323485 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCCACAAGGGTATCTC
* * * *
69323512 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCCACAAGGGTATCTC
69323539 GGTAATTT
1 GGTAATTT
69323547 GGATACACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTTTACCCCACAAGGGTATCTC
Found at i:69326061 original size:40 final size:39
Alignment explanation
Indices: 69326017--69326133 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 39
69326007 ATGATAAATA
* *
69326017 GACTATGTTCGGCACTAAGTGTG-AGATTTGAAATAGCTTC
1 GACTATATT-GGCACTAAGTGTGCA-AATTGAAATAGCTTC
* * *
69326057 GACTATAAATAGCACTAAGTGTGCAAATTGGAATAGCTTC
1 GACTAT-ATTGGCACTAAGTGTGCAAATTGAAATAGCTTC
* *
69326097 GGCTATATGTGGCACTAAGTGTGCAATATTGAGATAG
1 GACTATAT-TGGCACTAAGTGTGCAA-ATTGAAATAG
69326134 TTTTGGTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 52 0.83
41 10 0.16
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (39 bp):
GACTATATTGGCACTAAGTGTGCAAATTGAAATAGCTTC
Found at i:69332717 original size:30 final size:30
Alignment explanation
Indices: 69332662--69332792 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
69332652 ATAGTGAATC
*
69332662 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
69332691 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
69332721 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
69332749 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
69332779 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69332793 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:69332772 original size:58 final size:58
Alignment explanation
Indices: 69332661--69332792 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
69332651 TATAGTGAAT
* * * * *
69332661 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
69332720 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
69332778 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
69332793 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:69348124 original size:27 final size:27
Alignment explanation
Indices: 69348086--69348425 Score: 454
Period size: 27 Copynumber: 12.7 Consensus size: 27
69348076 CGTACTTGAA
* * *
69348086 CCCTCATTTGATAAAATGAAGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
69348113 CCCTCATGTGATAAAATGACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69348140 CCCTCATGTGATAAAATGACTATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69348167 CCCTCATGTGATAAAATGACTATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69348194 CCCTCATGTGATAAAATGACTATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69348221 CCCTCATATGATAAAATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69348248 CCCTCATATGATAAAATGACTATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69348275 CCCTC--GTGATAAAATGATGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69348300 CCTTTATGTGAT-AAATGACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69348326 CCC-CATGTGATAAAATGGCGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* ** *
69348352 CCCTCATGTGTTAAAATGAAAATTTGG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69348379 CCCTTATGTGATAAAATGACGATTTGG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69348406 CCCTTATGTGATAAAATGAC
1 CCCTCATGTGATAAAATGAC
69348426 CGAAATACAC
Statistics
Matches: 280, Mismatches: 29, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
25 26 0.09
26 30 0.11
27 224 0.80
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACGATTTTG
Found at i:69348447 original size:27 final size:26
Alignment explanation
Indices: 69348417--69348504 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
69348407 CCTTATGTGA
69348417 TAAAATGACCGAAATACACTCATAGGG
1 TAAAATGACCGAAATAC-CTCATAGGG
* * * *
69348444 TAAAATGACCGAAATGCCCCACAAGG
1 TAAAATGACCGAAATACCTCATAGGG
* * **
69348470 TAGAATGACTGAAATACCCTTGTAGGG
1 TAAAATGACCGAAATA-CCTCATAGGG
69348497 TAAAATGA
1 TAAAATGA
69348505 TTTTAATACC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 19 0.40
27 28 0.60
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.19
Consensus pattern (26 bp):
TAAAATGACCGAAATACCTCATAGGG
Found at i:69348610 original size:23 final size:23
Alignment explanation
Indices: 69348567--69348615 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
69348557 CTGTATTTGA
69348567 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
69348590 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
69348613 GCA
1 GCA
69348616 CTGCATGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:69348897 original size:18 final size:19
Alignment explanation
Indices: 69348868--69348918 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
69348858 TCTGCTTGCA
*
69348868 TACTGCACTGATTACT-GT
1 TACTACACTGATTACTGGT
* *
69348886 TACTACATTGATCA-TGGT
1 TACTACACTGATTACTGGT
69348904 TACTACACTGATTAC
1 TACTACACTGATTAC
69348919 GATTACTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (19 bp):
TACTACACTGATTACTGGT
Found at i:69348924 original size:18 final size:17
Alignment explanation
Indices: 69348868--69348925 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
69348858 TCTGCTTGCA
*
69348868 TACTGCACTGATTACTGT
1 TACTACACTGATTAC-GT
* * *
69348886 TACTACATTGATCATGGT
1 TACTACACTGATTA-CGT
69348904 TACTACACTGATTACGAT
1 TACTACACTGATTACG-T
69348922 TACT
1 TACT
69348926 GAAATGGGCT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 1 0.03
18 30 0.97
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (17 bp):
TACTACACTGATTACGT
Found at i:69348958 original size:34 final size:34
Alignment explanation
Indices: 69348910--69348993 Score: 125
Period size: 34 Copynumber: 2.4 Consensus size: 34
69348900 TGGTTACTAC
*
69348910 ACTGATTACGATTACTGAAATGGGCTAAAG-CCCAG
1 ACTGA-TACTATTACTGAAATGGGCT-AAGCCCCAG
*
69348945 ACTGCTACTATTACTGAAATGGGCTAAGCCCCAG
1 ACTGATACTATTACTGAAATGGGCTAAGCCCCAG
69348979 ACTGATACTATTACT
1 ACTGATACTATTACT
69348994 AATACGGGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 3 0.07
34 38 0.84
35 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (34 bp):
ACTGATACTATTACTGAAATGGGCTAAGCCCCAG
Found at i:69349003 original size:34 final size:34
Alignment explanation
Indices: 69348910--69349003 Score: 111
Period size: 34 Copynumber: 2.7 Consensus size: 34
69348900 TGGTTACTAC
* *
69348910 ACTGATTACGATTACTGAAATGGGCTAAAGCCCAG
1 ACTGA-TACTATTACTGAAACGGGCTAAAGCCCAG
* *
69348945 ACTGCTACTATTACTGAAATGGGCT-AAGCCCCAG
1 ACTGATACTATTACTGAAACGGGCTAAAG-CCCAG
69348979 ACTGATACTATTACT-AATACGGGCT
1 ACTGATACTATTACTGAA-ACGGGCT
69349004 TAGGCCCGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
33 5 0.09
34 44 0.83
35 4 0.08
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (34 bp):
ACTGATACTATTACTGAAACGGGCTAAAGCCCAG
Found at i:69377013 original size:27 final size:27
Alignment explanation
Indices: 69376975--69377315 Score: 463
Period size: 27 Copynumber: 12.7 Consensus size: 27
69376965 CGTACTTGAA
* * *
69376975 CCCTCATTTGATAAAATGAAGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
69377002 CCCTCATGTGATAAAATGACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69377029 CCCTCATGTGATAAAATGACTATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69377056 CCCTCATGTGATAAAATGACTATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69377083 CCCTCATGTGATAAAATGACTATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69377110 CCCTCATATGATAAAATGACGATTTTT
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69377137 CCCTCATATGATAAAATGACTATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69377164 CCCTC--GTGATAAAATGATGATTTTA
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69377189 CCTTTATGTGATAAAATGACGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69377216 CCC-CATGTGATAAAATGGCGATTTTG
1 CCCTCATGTGATAAAATGACGATTTTG
* ** *
69377242 CCCTCATGTGTTAAAATGAAAATTTGG
1 CCCTCATGTGATAAAATGACGATTTTG
* *
69377269 CCCTTATGTGATAAAATGACGATTTGG
1 CCCTCATGTGATAAAATGACGATTTTG
*
69377296 CCCTTATGTGATAAAATGAC
1 CCCTCATGTGATAAAATGAC
69377316 CGAAATACAC
Statistics
Matches: 282, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
25 19 0.07
26 24 0.09
27 239 0.85
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (27 bp):
CCCTCATGTGATAAAATGACGATTTTG
Found at i:69377337 original size:27 final size:26
Alignment explanation
Indices: 69377307--69377394 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
69377297 CCTTATGTGA
69377307 TAAAATGACCGAAATACACTCATAGGG
1 TAAAATGACCGAAATAC-CTCATAGGG
* * * *
69377334 TAAAATGACCGAAATGCCCCACAAGG
1 TAAAATGACCGAAATACCTCATAGGG
* * **
69377360 TAGAATGACTGAAATACCCTTGTAGGG
1 TAAAATGACCGAAATA-CCTCATAGGG
69377387 TAAAATGA
1 TAAAATGA
69377395 TTTTAATACC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
26 19 0.40
27 28 0.60
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.19
Consensus pattern (26 bp):
TAAAATGACCGAAATACCTCATAGGG
Found at i:69377500 original size:23 final size:23
Alignment explanation
Indices: 69377457--69377505 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
69377447 CTGTATTTGA
69377457 GCATGCCATGTTATATGTATGTT
1 GCATGCCATGTTATATGTATGTT
69377480 GCAT-CCATGTATAATAT-TATGTT
1 GCATGCCATGT-T-ATATGTATGTT
69377503 GCA
1 GCA
69377506 CTGCATGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (23 bp):
GCATGCCATGTTATATGTATGTT
Found at i:69377788 original size:18 final size:19
Alignment explanation
Indices: 69377759--69377809 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
69377749 TCTGCTTGCA
*
69377759 TACTGCACTGATTACT-GT
1 TACTACACTGATTACTGGT
* *
69377777 TACTACATTGATCA-TGGT
1 TACTACACTGATTACTGGT
69377795 TACTACACTGATTAC
1 TACTACACTGATTAC
69377810 GATTACTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (19 bp):
TACTACACTGATTACTGGT
Found at i:69377815 original size:18 final size:17
Alignment explanation
Indices: 69377759--69377816 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
69377749 TCTGCTTGCA
*
69377759 TACTGCACTGATTACTGT
1 TACTACACTGATTAC-GT
* * *
69377777 TACTACATTGATCATGGT
1 TACTACACTGATTA-CGT
69377795 TACTACACTGATTACGAT
1 TACTACACTGATTACG-T
69377813 TACT
1 TACT
69377817 GAAATGGGCT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 1 0.03
18 30 0.97
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.38
Consensus pattern (17 bp):
TACTACACTGATTACGT
Found at i:69377849 original size:34 final size:34
Alignment explanation
Indices: 69377801--69377884 Score: 125
Period size: 34 Copynumber: 2.4 Consensus size: 34
69377791 TGGTTACTAC
*
69377801 ACTGATTACGATTACTGAAATGGGCTAAAG-CCCAG
1 ACTGA-TACTATTACTGAAATGGGCT-AAGCCCCAG
*
69377836 ACTGCTACTATTACTGAAATGGGCTAAGCCCCAG
1 ACTGATACTATTACTGAAATGGGCTAAGCCCCAG
69377870 ACTGATACTATTACT
1 ACTGATACTATTACT
69377885 AATACGGGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 3 0.07
34 38 0.84
35 4 0.09
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (34 bp):
ACTGATACTATTACTGAAATGGGCTAAGCCCCAG
Found at i:69377894 original size:34 final size:33
Alignment explanation
Indices: 69377801--69377904 Score: 111
Period size: 34 Copynumber: 3.0 Consensus size: 33
69377791 TGGTTACTAC
* *
69377801 ACTGATTACGATTACTGAAATGGGCTAAAGCCCAG
1 ACTGA-TACTATTACTGAAACGGGCT-AAGCCCAG
* *
69377836 ACTGCTACTATTACTGAAATGGGCTAAGCCCCAG
1 ACTGATACTATTACTGAAACGGGCTAAG-CCCAG
*
69377870 ACTGATACTATTACT-AATACGGGCTTAGGCCCAG
1 ACTGATACTATTACTGAA-ACGGGC-TAAGCCCAG
69377904 A
1 A
69377905 ATGTATTCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
33 5 0.08
34 49 0.80
35 7 0.11
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (33 bp):
ACTGATACTATTACTGAAACGGGCTAAGCCCAG
Found at i:69381431 original size:31 final size:31
Alignment explanation
Indices: 69381396--69381460 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
69381386 CATATACTTT
69381396 CACTTGATTATTTCAACACCAACCATTTAAG
1 CACTTGATTATTTCAACACCAACCATTTAAG
69381427 CACTTGATTATTTCAACACCAACCATTTAAG
1 CACTTGATTATTTCAACACCAACCATTTAAG
69381458 CAC
1 CAC
69381461 AAAAATACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (31 bp):
CACTTGATTATTTCAACACCAACCATTTAAG
Found at i:69384919 original size:21 final size:21
Alignment explanation
Indices: 69384895--69384943 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
69384885 CATAATAAGG
*
69384895 ATTAAATTG-TGAAATGTGCAA
1 ATTAAATGGTTGAAATGTG-AA
*
69384916 ATTATATGGTTGAAATGTGAA
1 ATTAAATGGTTGAAATGTGAA
69384937 A-TAAATG
1 ATTAAATG
69384944 AAAGTTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.21
21 10 0.42
22 9 0.38
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (21 bp):
ATTAAATGGTTGAAATGTGAA
Found at i:69385384 original size:40 final size:40
Alignment explanation
Indices: 69385337--69385457 Score: 143
Period size: 40 Copynumber: 3.0 Consensus size: 40
69385327 ATGACAAATT
* *
69385337 GACTATATTTGGCACTTAGTGTGCAATTTGACATAGCTTC
1 GACTATATATGGCACTTAGTGTGCGATTTGACATAGCTTC
* * * **
69385377 GATTATATATGGCACTTAATGTGTGATTCAACATAGCTTC
1 GACTATATATGGCACTTAGTGTGCGATTTGACATAGCTTC
* * * *
69385417 GACAATATATGGCATTTAGTGTGCGATTTGAGATATCTTC
1 GACTATATATGGCACTTAGTGTGCGATTTGACATAGCTTC
69385457 G
1 G
69385458 GCTGTGTACG
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (40 bp):
GACTATATATGGCACTTAGTGTGCGATTTGACATAGCTTC
Found at i:69388429 original size:40 final size:40
Alignment explanation
Indices: 69388367--69388541 Score: 205
Period size: 40 Copynumber: 4.4 Consensus size: 40
69388357 AAGCCAAGTA
* * *
69388367 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCTCAAATG
* * *
69388406 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
*
69388446 CCTTCGAGACTTAGCCCGGATATAGTAACTCG-TACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCT-CAAATG
* * *
69388486 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCTCAAATG
69388526 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
69388542 TGGTTATCAC
Statistics
Matches: 119, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
39 13 0.11
40 106 0.89
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
Found at i:69398590 original size:40 final size:40
Alignment explanation
Indices: 69398546--69398621 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
69398536 ATTGTATGAT
* * *
69398546 TGCACATACGTGCTCTTGTTTGTACTTCGGTACCCCTAAA
1 TGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTAAA
* *
69398586 TGCACATACGTGCCCCTATTTGTACTTTGGTGCCCC
1 TGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
69398622 GATTCCGACG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.34
Consensus pattern (40 bp):
TGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTAAA
Found at i:69401586 original size:40 final size:40
Alignment explanation
Indices: 69401531--69401707 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
69401521 GGGTGATAAT
* * *
69401531 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
* *
69401571 CGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
69401611 CGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
69401651 CGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
69401691 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
69401708 TACTTGGCTT
Statistics
Matches: 122, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.13
40 106 0.87
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:69418335 original size:29 final size:28
Alignment explanation
Indices: 69418289--69418343 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
69418279 CTGAAGTACT
*
69418289 GATATCATAGCCTGAAGCCAAATCAGCC
1 GATATCATAGCCCGAAGCCAAATCAGCC
*
69418317 GATATGCATGGCCCGAAGCCAAATCAG
1 GATAT-CATAGCCCGAAGCCAAATCAG
69418344 TATAACTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (28 bp):
GATATCATAGCCCGAAGCCAAATCAGCC
Found at i:69423294 original size:28 final size:28
Alignment explanation
Indices: 69423252--69423321 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
69423242 ATAGTAAGTC
69423252 CGCACACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTTAATAATCAAACT
*
69423280 CGCGCACTTAGTGCTTAATAATCAAACT
1 CGCACACTTAGTGCTTAATAATCAAACT
69423308 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69423322 CAATCTCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCAAACT
Found at i:69428374 original size:40 final size:39
Alignment explanation
Indices: 69428266--69428415 Score: 147
Period size: 40 Copynumber: 3.8 Consensus size: 39
69428256 ATTGAATGAT
* * * * *
69428266 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-ACTAC
* *
69428306 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-ACTAC
* * * *
69428346 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTCTGAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTACT-AC
* * *
69428386 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
69428416 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 2 0.02
40 90 0.98
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTACTAC
Found at i:69431714 original size:6 final size:6
Alignment explanation
Indices: 69431703--69431887 Score: 154
Period size: 6 Copynumber: 30.8 Consensus size: 6
69431693 AACCAAAATG
*
69431703 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC A-AATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
69431750 AGTAA-C AGAATT AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
69431799 AGAATC AGTAAT- AGAATC AGAAT- AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* *
69431846 AGAATC AGAATC AGAATT ACG-TTAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-GAAT-C AGAATC AGAATC AGAAT
69431888 GTGAATGCAA
Statistics
Matches: 146, Mismatches: 16, Indels: 34
0.74 0.08 0.17
Matches are distributed among these distances:
5 21 0.14
6 111 0.76
7 12 0.08
8 2 0.01
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:69431802 original size:84 final size:84
Alignment explanation
Indices: 69431703--69431887 Score: 309
Period size: 84 Copynumber: 2.2 Consensus size: 84
69431693 AACCAAAATG
*
69431703 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCA-AATCAATATTAGTAACAGAATTAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAAT-AGAATCAATATTAGTAACAGAATCAGAAT
*
69431767 CAGAATCAGAATTAGGTGAC
65 CAGAATCAGAATTACGTGAC
* *
69431787 AGAATCAGAATCAGAATCAGTAATAGAATCAGAATAGAATCAGTATTAGTAACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATAGAATCAATATTAGTAACAGAATCAGAATC
*
69431852 AGAATCAGAATTACGTTAC
66 AGAATCAGAATTACGTGAC
69431871 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
69431888 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
83 1 0.01
84 94 0.99
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.22
Consensus pattern (84 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATAGAATCAATATTAGTAACAGAATCAGAATC
AGAATCAGAATTACGTGAC
Found at i:69432042 original size:27 final size:26
Alignment explanation
Indices: 69432005--69432070 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
69431995 AGCATGGCTG
*
69432005 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
69432031 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
69432058 CCAGAATCAGATA
1 CCAGAA-CAGATA
69432071 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:69432075 original size:27 final size:27
Alignment explanation
Indices: 69432005--69432078 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
69431995 AGCATGGCTG
* *
69432005 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
69432031 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
69432058 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
69432079 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:69432085 original size:27 final size:27
Alignment explanation
Indices: 69432029--69432086 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
69432019 GTGACAGAGT
* * *
69432029 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
69432056 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
69432083 CACC
1 CACC
69432087 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:69432468 original size:27 final size:26
Alignment explanation
Indices: 69432392--69432468 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 26
69432382 ATCGGTCAAT
* * *
69432392 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
69432419 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
69432445 AGATATTTGTGGCATAGCCACCAG
1 AGATA-TTGTGGCAGAGCCACCAG
69432469 GACGTTTCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.16
27 38 0.84
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:69432700 original size:27 final size:27
Alignment explanation
Indices: 69432670--69432865 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
69432660 GGGGCAAAAT
* * *
69432670 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
69432697 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
69432724 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
69432751 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
69432778 GGTAATTCTATCCTATAAGGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
69432805 AGTAATTCTACCCTA-TAGGGTTATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
** *
69432832 GAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
69432859 AGTAATT
1 GGTAATT
69432866 TCACAATCAA
Statistics
Matches: 139, Mismatches: 28, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
26 3 0.02
27 133 0.96
28 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:69432814 original size:81 final size:81
Alignment explanation
Indices: 69432672--69432865 Score: 246
Period size: 81 Copynumber: 2.4 Consensus size: 81
69432662 GGCAAAATGG
* * * * * * *
69432672 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
69432737 TACAAGGG-TATTTCGA
66 TA-AAGGGTTATTTCGA
* * * *
69432753 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGTTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
*
69432818 TATAGGGTTATTTCGA
66 TAAAGGGTTATTTCGA
* *
69432834 AAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATT
69432866 TCACAATCAA
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 4 0.04
81 93 0.96
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
TAAAGGGTTATTTCGA
Found at i:69432859 original size:54 final size:54
Alignment explanation
Indices: 69432670--69432865 Score: 250
Period size: 54 Copynumber: 3.6 Consensus size: 54
69432660 GGGGCAAAAT
* * * *
69432670 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
69432724 GGTATTTCTACCCTACAAGGGTATTTC-GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * * * *
69432778 GGTAATTCTATCCTATAAGGTTATTTCAGTAATTCTACCCTATAGGGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
** *
69432832 GAAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTACAAGGGTATTTCAGTAATT
69432866 TCACAATCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:69432900 original size:27 final size:27
Alignment explanation
Indices: 69432870--69433252 Score: 522
Period size: 27 Copynumber: 14.2 Consensus size: 27
69432860 GTAATTTCAC
*
69432870 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69432897 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69432924 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
69432951 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
69432978 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69433005 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
69433032 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
69433059 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69433086 AA-CTGAGGGTAAAATGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
69433113 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
69433140 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
69433167 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
69433194 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
69433221 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
69433248 AATCG
1 AATCG
69433253 GGAGTACTTT
Statistics
Matches: 313, Mismatches: 35, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.01
27 306 0.98
28 4 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:69433283 original size:81 final size:81
Alignment explanation
Indices: 69432870--69433249 Score: 591
Period size: 81 Copynumber: 4.7 Consensus size: 81
69432860 GTAATTTCAC
* * * *
69432870 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
* *
69432935 AACCAGTAATTCTGTA
66 AAACGGTAATTCTGTA
* * * *
69432951 AATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
*
69433016 AAACAGTAATTCTGTA
66 AAACGGTAATTCTGTA
**
69433032 AA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGT
1 AATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGT
* *
69433096 AAAATGGTAATTCTATA
65 AAAACGGTAATTCTGTA
* *
69433113 AATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
69433178 AAACGGTAATTCTGTA
66 AAACGGTAATTCTGTA
69433194 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAA
69433250 TCGGGAGTAC
Statistics
Matches: 275, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
80 1 0.00
81 273 0.99
82 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAACGGTAATTCTGTA
Found at i:69437482 original size:28 final size:28
Alignment explanation
Indices: 69437442--69437511 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
69437432 ATAGTAAGTC
*
69437442 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
69437470 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
69437498 CGCACACTTAGTGC
1 CGCACACTTAGTGC
69437512 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:69439094 original size:48 final size:48
Alignment explanation
Indices: 69439042--69439264 Score: 320
Period size: 48 Copynumber: 4.6 Consensus size: 48
69439032 TCATGTTGTG
* *
69439042 GCCGATGCCATGTCCTAGATATGGTCTTACATTAGAACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGAACACATATCAAT
*
69439090 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGAACACATATCAGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGAACACATATCAAT
* *
69439138 GCCGATGCCATGTCCCAAACATGGTCTTACATTAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGAACACATATCAAT
** * * *
69439186 ATCGATGCCATGTCCTAGACATGGTCTTACAATAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGAACACATATCAAT
* * * *
69439234 GTCGATGTCATGTCCCAAACATGGTTTTACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACA
69439265 CTGGCTCTCA
Statistics
Matches: 159, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 159 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACATTAGAACACATATCAAT
Found at i:69439115 original size:96 final size:96
Alignment explanation
Indices: 69438994--69439264 Score: 337
Period size: 96 Copynumber: 2.8 Consensus size: 96
69438984 GACTGTCACA
* * ** * * * *
69438994 GCCGATACCATGTCCTAGACATGGTCTTACACTGGCTCTCATGT-TGTGGCCGATGCCATGTCCT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGAACACATATCAGT-GCCGATGCCATGTCCC
* *
69439058 AGATATGGTCTTACATTAGAACACATATCAAT
65 AAACATGGTCTTACATTAGAACACATATCAAT
* *
69439090 GCCGATGCCATGTCCCAGACATGGTCTTACATTAGAACACATATCAGTGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGAACACATATCAGTGCCGATGCCATGTCCCA
*
69439155 AACATGGTCTTACATTAGCACACATATCAAT
66 AACATGGTCTTACATTAGAACACATATCAAT
** * * * * *
69439186 ATCGATGCCATGTCCTAGACATGGTCTTACAATAGCACACATATCAATGTCGATGTCATGTCCCA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGAACACATATCAGTGCCGATGCCATGTCCCA
*
69439251 AACATGGTTTTACA
66 AACATGGTCTTACA
69439265 CTGGCTCTCA
Statistics
Matches: 152, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
96 150 0.99
97 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTAGAACACATATCAGTGCCGATGCCATGTCCCA
AACATGGTCTTACATTAGAACACATATCAAT
Found at i:69439296 original size:144 final size:144
Alignment explanation
Indices: 69439044--69439327 Score: 354
Period size: 144 Copynumber: 2.0 Consensus size: 144
69439034 ATGTTGTGGC
* * *
69439044 CGATGCCATGTCCTAGATATGGTCTTACATTAGAACACATATCAATGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCTAGACATGGTCTTACAATAGAACACATATCAATGCCGATGCCATGTCCCAAA
* * * * * *
69439109 CATGGTCTTACATTAGAACACATATCAGTGCCGATGCCATGTCCCAAACATGGTCTTACATTAGC
66 CATGGTCTTACACTAGAACACATATCAGTGCAGATGACATGTCCCAAACATGCTCCTACACTAGC
69439174 ACACATATCAATAT
131 ACACATATCAATAT
* * *
69439188 CGATGCCATGTCCTAGACATGGTCTTACAATAGCACACATATCAATGTCGATGTCATGTCCCAAA
1 CGATGCCATGTCCTAGACATGGTCTTACAATAGAACACATATCAATGCCGATGCCATGTCCCAAA
* * ** * * * * * *
69439253 CATGGTTTTACACTGGCTCTCATGTTGAG-GCAGATGACTTGTCCCAGAGATGCTCCTACACTAG
66 CATGGTCTTACACTAGAACACAT-ATCAGTGCAGATGACATGTCCCAAACATGCTCCTACACTAG
69439317 CACACATATCA
130 CACACATATCA
69439328 TCCAAATGTC
Statistics
Matches: 117, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
144 114 0.97
145 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (144 bp):
CGATGCCATGTCCTAGACATGGTCTTACAATAGAACACATATCAATGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAGAACACATATCAGTGCAGATGACATGTCCCAAACATGCTCCTACACTAGC
ACACATATCAATAT
Found at i:69441221 original size:40 final size:39
Alignment explanation
Indices: 69441176--69441305 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
69441166 CGGAATATAA
69441176 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
69441216 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
69441256 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
69441296 CCGGATATAA
1 CCGGATATAA
69441306 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:69441320 original size:40 final size:40
Alignment explanation
Indices: 69441192--69441342 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
69441182 ATAACCATGT
* * *
69441192 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
69441232 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
69441272 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
69441312 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
69441343 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 15 0.16
40 74 0.81
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:69441326 original size:80 final size:79
Alignment explanation
Indices: 69441192--69441340 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
69441182 ATAACCATGT
*
69441192 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
69441257 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
69441272 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
69441335 CCGGAT
64 CCGGAT
69441341 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:69449202 original size:40 final size:39
Alignment explanation
Indices: 69449157--69449286 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
69449147 CGGAATATAA
69449157 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
69449197 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
69449237 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
69449277 CCGGATATAA
1 CCGGATATAA
69449287 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:69449301 original size:40 final size:40
Alignment explanation
Indices: 69449173--69449324 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
69449163 ATAACCATGT
* * *
69449173 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
69449213 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
69449253 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
69449293 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
69449325 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:69449307 original size:80 final size:80
Alignment explanation
Indices: 69449173--69449322 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
69449163 ATAACCATGT
*
69449173 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
69449237 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
69449253 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
69449316 CCCGGAT
64 CCCGGAT
69449323 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:69455806 original size:46 final size:44
Alignment explanation
Indices: 69455752--69455967 Score: 175
Period size: 46 Copynumber: 4.6 Consensus size: 44
69455742 ATTGTGGGCT
*
69455752 AGTGTAAGACGTGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA--ATGAGAGCC
* * * *
69455798 TGTGTAAGACCATGTCTGGGACATGGCATCAG-TATCAAGTCGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CAA-T-GAGAGCC
* *
69455846 AGTGTAAGACATGTCTGGGACATGCATCGGACTCAA-GACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATGA-G--AGCC
* * * *
69455892 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-ATGAGAGCC
* *
69455938 AGTGTAAGACCATATCTGGGATATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
69455968 TGCACCCTAC
Statistics
Matches: 137, Mismatches: 19, Indels: 26
0.75 0.10 0.14
Matches are distributed among these distances:
43 2 0.01
44 1 0.01
46 63 0.46
47 41 0.30
48 28 0.20
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAATGAGAGCC
Found at i:69460070 original size:28 final size:28
Alignment explanation
Indices: 69460038--69460106 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
69460028 GCGTAGATCA
69460038 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
69460066 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
69460094 CGATA-TACCCCTA
1 CGAAATTACCCCTA
69460107 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:69464342 original size:28 final size:29
Alignment explanation
Indices: 69464310--69464369 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
69464300 GCGTAGATCA
69464310 CGAAATTACCCCT-AAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAAGAGCAAAATTAC
69464338 CGAAATTACCCCTAAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAAGAGCAAAATTAC
69464367 CGA
1 CGA
69464370 TATACCCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.47, C:0.25, G:0.12, T:0.17
Consensus pattern (29 bp):
CGAAATTACCCCTAAAAGAGCAAAATTAC
Found at i:69471173 original size:27 final size:28
Alignment explanation
Indices: 69471067--69471173 Score: 159
Period size: 27 Copynumber: 4.0 Consensus size: 28
69471057 GAGGAAGCGT
69471067 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
69471094 TCTGGTGGCTCTGCCACAAATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
69471121 TTTGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
69471148 TCTGGTGACTCTGTCAC-AATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGT
69471174 TATGGCAGCC
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
26 9 0.12
27 65 0.88
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:69473644 original size:30 final size:30
Alignment explanation
Indices: 69473610--69473670 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
69473600 TTCCTGAGCC
69473610 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
69473640 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
69473670 T
1 T
69473671 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:69478421 original size:27 final size:26
Alignment explanation
Indices: 69478383--69478494 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
69478373 GAGGAAGCGT
69478383 TCTGGTGGCTCTGCCAAAAATATCTGA
1 TCTGGTGGCTCTGCC-AAAATATCTGA
*
69478410 TCTGGTGGCTCTGCCACAAATATCTGT
1 TCTGGTGGCTCTGCCA-AAATATCTGA
*
69478437 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCAAAATATCTG-A
* * * *
69478464 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGGCTCTGCCAAAATATCTGA
69478490 TCTGG
1 TCTGG
69478495 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
26 14 0.18
27 63 0.82
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCAAAATATCTGA
Found at i:69478488 original size:53 final size:54
Alignment explanation
Indices: 69478381--69478494 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
69478371 TGGAGGAAGC
*
69478381 GTTCTGGTGGCTCTGCCAAAAATATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAAAAATATCTGATCTGGTGACTCTGCCACAAATATCT
* *
69478435 GTTCTGGTGGCTCTGCC-ACAATATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 GTTCTGGTGGCTCTGCCAAAAATATCTG-ATCTGGTGACTCTGCCACAAATATCT
69478488 GTTCTGG
1 GTTCTGG
69478495 CAGCCATGCT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
53 23 0.41
54 33 0.59
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCAAAAATATCTGATCTGGTGACTCTGCCACAAATATCT
Found at i:69482347 original size:64 final size:64
Alignment explanation
Indices: 69482266--69482447 Score: 183
Period size: 64 Copynumber: 2.8 Consensus size: 64
69482256 AGACATTATG
* *
69482266 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * * *
69482330 ATGTAGCTAGGTCGCATGCAT-TTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATA
1 ATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGATA
69482394 A
64 A
* * * *
69482395 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
69482448 CGAACTATAT
Statistics
Matches: 94, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 22 0.23
64 35 0.37
65 34 0.36
66 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:69497995 original size:46 final size:46
Alignment explanation
Indices: 69497924--69498012 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
69497914 CATGTACCAG
* *
69497924 ACATGTCTTACACTGGCTTACGTCTCGAGGCCGATG-CATGTCTGAA
1 ACATGTCTTACACTGACTTA-GTCTCAAGGCCGATGCCATGTCTGAA
*
69497970 ACATGTCTTACACTAGCACTT-GTCTCAATGCCGATGCCATGTC
1 ACATGTCTTACACT-G-ACTTAGTCTCAAGGCCGATGCCATGTC
69498013 CCAGTCATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
46 27 0.73
47 7 0.19
48 3 0.08
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
ACATGTCTTACACTGACTTAGTCTCAAGGCCGATGCCATGTCTGAA
Found at i:69502783 original size:40 final size:40
Alignment explanation
Indices: 69502719--69502796 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
69502709 ATGAGAAATT
* *
69502719 AAATGATATCCGGGCTAAGCCCCGAAGACAATTATGCTGG
1 AAATGATAACCGGGCTAAGACCCGAAGACAATTATGCTGG
* * * *
69502759 AAATTATAACCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AAATGATAACCGGGCTAAGACCCGAAGACAATTATGCT
69502797 AGTGGCTACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (40 bp):
AAATGATAACCGGGCTAAGACCCGAAGACAATTATGCTGG
Found at i:69510896 original size:40 final size:40
Alignment explanation
Indices: 69510809--69510959 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 40
69510799 AATTGAATGA
* * * **
69510809 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
69510849 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
69510890 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
* *
69510929 TATCCGGGCTAAGACTCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
69510960 AAATCGTGAT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.06
40 81 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:69510973 original size:40 final size:40
Alignment explanation
Indices: 69510890--69510974 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
69510880 TAGTGGCTAC
* * **
69510890 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
* * *
69510930 ATCCGGGCTAAGACTCGAAGGCATTTGTGCAAATCGTGAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
69510970 ATCCG
1 ATCCG
69510975 AGTTAAGTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAATCATGAT
Found at i:69516934 original size:50 final size:48
Alignment explanation
Indices: 69516814--69516939 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 48
69516804 GTTGCCGATG
**
69516814 CCATGTCCCAGACATGGTCTTACACTAGCTATCATCACCGAGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTATCATCACCGA-GCTGACA
* *
69516863 CCATGTACCAGACATGGTCTTACACTAGTTCTCA-CAT-ATCTGTA-CTGACA
1 CCATGTCCCAGACATGGTCTTACACTAG--CT-ATCATCA-CCG-AGCTGACA
69516913 CCATGTCCCAGACATGGTCTTACACTA
1 CCATGTCCCAGACATGGTCTTACACTA
69516940 ACACATTTTG
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
49 27 0.40
50 31 0.46
51 7 0.10
52 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTATCATCACCGAGCTGACA
Found at i:69517682 original size:20 final size:20
Alignment explanation
Indices: 69517659--69517698 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
69517649 AAATAGTCCC
69517659 TTTAGGTGTTTTCATGCTAA
1 TTTAGGTGTTTTCATGCTAA
69517679 TTTAGGTGTTTTCATGCTAA
1 TTTAGGTGTTTTCATGCTAA
69517699 CACCTTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTAGGTGTTTTCATGCTAA
Found at i:69524053 original size:44 final size:44
Alignment explanation
Indices: 69523914--69524067 Score: 140
Period size: 44 Copynumber: 3.6 Consensus size: 44
69523904 ATATACAACA
** * * *
69523914 CCAATGTCCCAGATGTGGTCTTACATGTAATAA-A-AAATCGTTG
1 CCAATGTCCCAGACATGGTCTTACACGTAA-AATAGAAGTCGATG
* * *
69523957 CCACTATCCCAGACAGGGTCTTACACG--AAATCAGATAG--GATG
1 CCAATGTCCCAGACATGGTCTTACACGTAAAAT-AGA-AGTCGATG
** *
69523999 CTGATGTCCCAGATATGGTCTTACACGTAAAATAGAAGTCGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAAAATAGAAGTCGATG
69524043 CCAATGTCCCAGACATGGTCTTACA
1 CCAATGTCCCAGACATGGTCTTACA
69524068 TGAATTCACA
Statistics
Matches: 86, Mismatches: 17, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 27 0.31
43 25 0.29
44 31 0.36
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (44 bp):
CCAATGTCCCAGACATGGTCTTACACGTAAAATAGAAGTCGATG
Found at i:69526686 original size:52 final size:52
Alignment explanation
Indices: 69526598--69526721 Score: 230
Period size: 52 Copynumber: 2.4 Consensus size: 52
69526588 GATGATGAAA
69526598 AAAGAAAAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAGAAAG-AAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
69526651 AAAGAAAAAGAAAGAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
1 AAAGAAAAAGAAAGAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
*
69526703 AAAGAAAAAGAAGGAAAAA
1 AAAGAAAAAGAAAGAAAAA
69526722 GAGATTTGAG
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
52 56 0.80
53 14 0.20
ACGTcount: A:0.53, C:0.10, G:0.21, T:0.16
Consensus pattern (52 bp):
AAAGAAAAAGAAAGAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAG
Found at i:69527969 original size:40 final size:40
Alignment explanation
Indices: 69527864--69528120 Score: 328
Period size: 40 Copynumber: 6.5 Consensus size: 40
69527854 AGATTGATAA
* **
69527864 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
69527904 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
69527943 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
69527983 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
69528023 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
69528063 CCGGGCTATGTCCCGAAGGTATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
69528103 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
69528121 TACTTGGCTT
Statistics
Matches: 197, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
39 49 0.25
40 147 0.75
41 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:69528076 original size:120 final size:119
Alignment explanation
Indices: 69527864--69528081 Score: 364
Period size: 120 Copynumber: 1.8 Consensus size: 119
69527854 AGATTGATAA
* *
69527864 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
69527929 GCGAGTTACCATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
66 GCGAGTTACCATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
* * *
69527983 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
* *
69528048 TGCGAGTTACTATATCCGGGCTATGTCCCGAAGG
65 TGCGAGTTACCATATCCGGGCTAAGTCCCGAAGG
69528082 TATTCGAGTG
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 45 0.49
120 46 0.51
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
GCGAGTTACCATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTT
Found at i:69530127 original size:25 final size:25
Alignment explanation
Indices: 69530098--69530145 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
69530088 TTATAATATG
* * *
69530098 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
69530123 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
69530146 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:69530214 original size:20 final size:20
Alignment explanation
Indices: 69530189--69530247 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
69530179 TAAATATGGT
69530189 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
69530209 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
69530229 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
69530248 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:69530367 original size:47 final size:48
Alignment explanation
Indices: 69530298--69530416 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
69530288 GAGGAAGTGA
69530298 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
69530345 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
69530393 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
69530417 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:69530392 original size:24 final size:24
Alignment explanation
Indices: 69530298--69530416 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
69530288 GAGGAAGTGA
*
69530298 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
69530322 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
69530345 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
69530369 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
69530393 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
69530417 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:69530643 original size:31 final size:31
Alignment explanation
Indices: 69530608--69530671 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
69530598 CGTTTACAGT
69530608 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
69530639 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
69530670 AA
1 AA
69530672 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:69530677 original size:38 final size:38
Alignment explanation
Indices: 69530625--69530700 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
69530615 TCGGCCCAGT
*
69530625 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
69530663 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
69530701 TTGAGATTGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (38 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:69538426 original size:25 final size:25
Alignment explanation
Indices: 69538397--69538444 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
69538387 TTATAATATG
* * *
69538397 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
69538422 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
69538445 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:69538513 original size:20 final size:20
Alignment explanation
Indices: 69538488--69538546 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
69538478 TAAATATGGT
69538488 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
69538508 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
69538528 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
69538547 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:69538666 original size:47 final size:48
Alignment explanation
Indices: 69538597--69538715 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
69538587 GAGGAAGTGA
69538597 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
69538644 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
69538692 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
69538716 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:69538691 original size:24 final size:24
Alignment explanation
Indices: 69538597--69538715 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
69538587 GAGGAAGTGA
*
69538597 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
69538621 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
69538644 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
69538668 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
69538692 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
69538716 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:69538942 original size:31 final size:31
Alignment explanation
Indices: 69538907--69538970 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
69538897 CGTTTACAGT
69538907 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
69538938 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
69538969 AA
1 AA
69538971 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:69539013 original size:37 final size:38
Alignment explanation
Indices: 69538924--69539030 Score: 180
Period size: 38 Copynumber: 2.8 Consensus size: 38
69538914 TCGGCCCAGT
69538924 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
69538962 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATG-
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
69538999 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
69539031 GCATGATTGA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
37 16 0.25
38 49 0.75
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:69545438 original size:29 final size:29
Alignment explanation
Indices: 69545405--69545564 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
69545395 GTGACGAGAT
69545405 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69545434 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
69545463 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
69545492 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
69545521 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
69545550 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
69545565 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:69559541 original size:40 final size:40
Alignment explanation
Indices: 69559433--69559542 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
69559423 ATTGAATGAT
* * * * *
69559433 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
69559473 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
69559513 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
69559543 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:69559557 original size:40 final size:39
Alignment explanation
Indices: 69559433--69559582 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
69559423 ATTGAATGAT
* * * * * * *
69559433 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
69559473 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
69559513 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
69559553 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
69559583 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:69571530 original size:40 final size:40
Alignment explanation
Indices: 69571486--69571709 Score: 359
Period size: 40 Copynumber: 5.7 Consensus size: 40
69571476 GCTACTTGCT
69571486 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
69571526 CAAATGCCTTCGGGTCTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
69571566 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACT--CA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
69571604 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * *
69571644 CAAATGCCTTCGGG-CTTAGCCCGAAT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
69571682 CAAATGCCTTC-GGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
69571710 CATCCAAATA
Statistics
Matches: 172, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
37 2 0.01
38 68 0.40
39 12 0.07
40 90 0.52
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:69571640 original size:78 final size:79
Alignment explanation
Indices: 69571453--69571705 Score: 356
Period size: 78 Copynumber: 3.2 Consensus size: 79
69571443 AAACCAAGTA
* * * *
69571453 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
69571516 GTAACTCGCACAAATG
65 GTAACT-GCACAAATG
* *
69571532 CCTTCGGGTCTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
69571597 TAACT-CACAAATG
66 TAACTGCACAAATG
**
69571610 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGAAT-TAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
69571673 TCACTAGCACAAATG
66 TAACT-GCACAAATG
69571688 CCTTC-GGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
69571706 TTATCATCCA
Statistics
Matches: 159, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
76 7 0.04
77 23 0.14
78 67 0.42
79 12 0.08
80 50 0.31
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTGCACAAATG
Found at i:69589834 original size:71 final size:71
Alignment explanation
Indices: 69589750--69589913 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
69589740 CGATTTGTCT
69589750 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
69589815 CTTTCA
66 CTTTCA
69589821 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
69589886 CTTTCA
66 CTTTCA
69589892 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
69589914 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:69589951 original size:71 final size:70
Alignment explanation
Indices: 69589750--69589947 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
69589740 CGATTTGTCT
* * * *
69589750 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
69589815 CTTTCA
65 CTTTCA
* * * *
69589821 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
69589886 CTTTCA
65 CTTTCA
* *
69589892 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
69589948 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:69597378 original size:70 final size:71
Alignment explanation
Indices: 69597295--69597457 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
69597285 CGATTTGTCT
69597295 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
69597360 ATTTC-
66 ATTTCA
69597365 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
*
69597430 CTTTCA
66 ATTTCA
69597436 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
69597458 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 69 0.76
71 22 0.24
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
ATTTCA
Found at i:69597495 original size:71 final size:69
Alignment explanation
Indices: 69597295--69597491 Score: 238
Period size: 70 Copynumber: 2.8 Consensus size: 69
69597285 CGATTTGTCT
* * * *
69597295 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
69597360 ATTTC
65 ATTTC
* * * *
69597365 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
*
69597430 CTTTC
65 ATTTC
* *
69597435 ACGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 -CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
69597492 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 70 0.59
71 25 0.21
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATA
TTTC
Found at i:69600556 original size:24 final size:24
Alignment explanation
Indices: 69600272--69600554 Score: 500
Period size: 24 Copynumber: 11.9 Consensus size: 24
69600262 GCAAAGACCA
69600272 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
69600296 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
69600320 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
69600344 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
*
69600367 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
69600391 TATGGCACTATGTGTGCGA-TT-C
1 TATGGCACTATGTGTGCGATTTAC
*
69600413 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
69600437 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
69600461 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
69600485 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
69600509 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
*
69600533 TATAGCACTATGTGTGCGATTT
1 TATGGCACTATGTGTGCGATTT
69600555 GCATAGTCAC
Statistics
Matches: 250, Mismatches: 6, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
22 20 0.08
23 25 0.10
24 205 0.82
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:69608614 original size:24 final size:24
Alignment explanation
Indices: 69608322--69608606 Score: 507
Period size: 24 Copynumber: 11.9 Consensus size: 24
69608312 GCAAAGACCA
*
69608322 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
69608346 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
69608370 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
69608394 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
69608418 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
69608442 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
69608466 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
69608490 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTCAC
*
69608514 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
69608538 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTCAC
*
69608562 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTCAC
*
69608586 TATAGCACTATGTGTGCGATT
1 TATGGCACTATGTGTGCGATT
69608607 TGCTATAGTC
Statistics
Matches: 252, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 252 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTCAC
Found at i:69610787 original size:20 final size:20
Alignment explanation
Indices: 69610758--69610802 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
69610748 AGCACATGTA
* *
69610758 TTCATAAAATTTTATAATTT
1 TTCATAAAATTTTACAACTT
*
69610778 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
69610798 TTCAT
1 TTCAT
69610803 TTTAGACCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:69611111 original size:21 final size:21
Alignment explanation
Indices: 69611087--69611128 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
69611077 AGTTTAAGAT
69611087 CACATAAAATAAGATGATTTC
1 CACATAAAATAAGATGATTTC
69611108 CACATAAAATAAGATGATTTC
1 CACATAAAATAAGATGATTTC
69611129 TTTTATCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (21 bp):
CACATAAAATAAGATGATTTC
Found at i:69619732 original size:18 final size:18
Alignment explanation
Indices: 69619709--69619743 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69619699 TTTAAAAACA
69619709 TTTATTTATAATTTTATG
1 TTTATTTATAATTTTATG
* *
69619727 TTTATTTTTATTTTTAT
1 TTTATTTATAATTTTAT
69619744 TAAAACTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTATAATTTTATG
Found at i:69624886 original size:26 final size:24
Alignment explanation
Indices: 69624856--69624905 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
69624846 TAAATAAAAA
*
69624856 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
69624882 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
69624906 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:69624925 original size:21 final size:21
Alignment explanation
Indices: 69624876--69624934 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
69624866 ATAATAAATC
*
69624876 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
69624896 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
69624918 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
69624935 TTCTTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:69630670 original size:79 final size:78
Alignment explanation
Indices: 69630570--69630788 Score: 284
Period size: 79 Copynumber: 2.8 Consensus size: 78
69630560 GCTACTCATT
* * *
69630570 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-A
1 CAAATGCCTTCGGG-CTTAGCCCGG-AATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
69630634 GATTTAGTAACTCGCA
64 -ATTTAGTAACTCGCA
*
69630650 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTGACTCGCACAAATGCCTTCGGGACTTAACCCGAA
1 CAAATGCCTTCGGGCTTAGCCCGGAA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAA
69630715 TTTAGTAACTCGCA
65 TTTAGTAACTCGCA
* * * * *
69630729 CAAATGCCTTCGGACTTA-ACC-GAATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGCTTAGCCCGGAATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
69630789 GACATCATTC
Statistics
Matches: 127, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
76 24 0.19
77 11 0.09
78 3 0.02
79 75 0.59
80 14 0.11
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
TTAGTAACTCGCA
Found at i:69630691 original size:39 final size:40
Alignment explanation
Indices: 69630570--69630790 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
69630560 GCTACTCATT
* * *
69630570 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
69630610 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
69630650 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
69630689 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
* * *
69630729 CAAATGCCTTC-GGACTTA-ACC-GAA-TAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAAC-TCGCA
69630766 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69630791 CATCATTCGA
Statistics
Matches: 160, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
36 12 0.08
37 15 0.09
38 7 0.04
39 47 0.29
40 77 0.48
41 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:69637493 original size:24 final size:25
Alignment explanation
Indices: 69637466--69637527 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
69637456 TCAACCAAAT
* * *
69637466 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
69637490 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
69637515 -CGCACACATAGTG
1 TCGCACACATAGTG
69637528 ACTGAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:69637803 original size:94 final size:94
Alignment explanation
Indices: 69637558--69637838 Score: 456
Period size: 94 Copynumber: 3.0 Consensus size: 94
69637548 ATAGACATTC
* *
69637558 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
69637623 GGCAATTTACTTAATTCAAA-ATCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* * *
69637651 AAATCTTCACACAAAGTGACTTTTAATTCTGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
69637716 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* * * *
69637745 AAATCTGCACATAAAGTGACATTTAATTCCACACACAGAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
69637810 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
69637839 CAGTCACCTT
Statistics
Matches: 173, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 80 0.46
94 93 0.54
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:69649822 original size:49 final size:50
Alignment explanation
Indices: 69649764--69650002 Score: 277
Period size: 49 Copynumber: 4.8 Consensus size: 50
69649754 GTAACCGAAG
* * *
69649764 CTATCTGGTACACATAGTAGCTTGCGCTTAGTACTACACATGCGA-CTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
* * *
69649813 CAATCTGGTACACGTAGTAGCCTACACTT-GTACTACACATGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
* * * * *
69649862 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCT-AA
* * * * * * *
69649912 GTTGTCGGGTACGCATAGTAGCCTGCAGTTAGTACTACACATACGACCTAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
69649963 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
69650003 CGTGACTTAA
Statistics
Matches: 156, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 14 0.09
49 55 0.35
50 50 0.32
51 36 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
Found at i:69649975 original size:101 final size:98
Alignment explanation
Indices: 69649764--69650009 Score: 303
Period size: 101 Copynumber: 2.5 Consensus size: 98
69649754 GTAACCGAAG
* * * * * * *
69649764 CTATCTGGTACACATAGTAGCTTGCGCTTAGTACTACACATGCGACTAACAATCTGGTACACGTA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAACAATCGGGTACACATA
**
69649829 GTAGCCTACACTTGTACTACACATGTGACCTAA
66 GTAGCCTACACTTGTACTACACATACGACCTAA
* * * *** *
69649862 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATTGAAGTTGTCGGGTACGCA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT-AA-CAATCGGGTACACA
* *
69649927 TAGTAGCCTGCAGTTAGTACTACACATACGACCTAA
64 TAGTAGCCTACACTT-GTACTACACATACGACCTAA
69649963 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT
69650010 TAAAACCATC
Statistics
Matches: 124, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 39 0.31
99 2 0.02
100 21 0.17
101 62 0.50
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (98 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTAACAATCGGGTACACATA
GTAGCCTACACTTGTACTACACATACGACCTAA
Found at i:69651524 original size:34 final size:34
Alignment explanation
Indices: 69651471--69651543 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
69651461 TTGTACTGTT
* * * *
69651471 ACTGTTACTGTAATGGGCTAA-GTCCCACACTAAA
1 ACTGATACTATAATGGGCTAAGGT-CCAAACGAAA
69651505 ACTGATACTATAATGGGCTAAGGTCCAAACGAAA
1 ACTGATACTATAATGGGCTAAGGTCCAAACGAAA
69651539 ACTGA
1 ACTGA
69651544 ACTGTTACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 32 0.94
35 2 0.06
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (34 bp):
ACTGATACTATAATGGGCTAAGGTCCAAACGAAA
Found at i:69653314 original size:39 final size:40
Alignment explanation
Indices: 69653259--69653420 Score: 152
Period size: 39 Copynumber: 4.1 Consensus size: 40
69653249 CAAAAGTGTT
* * * *
69653259 ATCAGGAGTACTGAAGTACAACAGA-GGCACGTAAGTGTG
1 ATCAGGGGTACCGAAGTACAACAGAGGGCACATAAGTGCG
* * * * * *
69653298 ATTAGGGATACCGAAGTACAATAG-GGGAAAAATCAAGCGCG
1 ATCAGGGGTACCGAAGTACAACAGAGGG-CACAT-AAGTGCG
*
69653339 ATCAGGGGTACCGAAGTACAA-AAAGGGCACATAAGTGCG
1 ATCAGGGGTACCGAAGTACAACAGAGGGCACATAAGTGCG
* * *
69653378 ATCAGGGGTATCGAAGTACAACA-AGGGCACGTAAGTGCA
1 ATCAGGGGTACCGAAGTACAACAGAGGGCACATAAGTGCG
69653417 ATCA
1 ATCA
69653421 AGAATATAAT
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
39 65 0.66
40 7 0.07
41 27 0.27
ACGTcount: A:0.38, C:0.17, G:0.30, T:0.15
Consensus pattern (40 bp):
ATCAGGGGTACCGAAGTACAACAGAGGGCACATAAGTGCG
Found at i:69653422 original size:20 final size:20
Alignment explanation
Indices: 69653361--69653422 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
69653351 GAAGTACAAA
* *
69653361 AAGGGCACATAAGTGCGATC
1 AAGGGCACGTAAGTGCAATC
* * *
69653381 AGGGGTATCG-AAGTACAA-C
1 AAGGGCA-CGTAAGTGCAATC
69653400 AAGGGCACGTAAGTGCAATC
1 AAGGGCACGTAAGTGCAATC
69653420 AAG
1 AAG
69653423 AATATAATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
18 2 0.06
19 13 0.42
20 15 0.48
21 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.31, T:0.15
Consensus pattern (20 bp):
AAGGGCACGTAAGTGCAATC
Found at i:69660965 original size:46 final size:46
Alignment explanation
Indices: 69660790--69660965 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
69660780 TGTAACCCGC
* * *
69660790 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
69660836 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
69660882 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
69660929 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
69660966 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 68 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:69660965 original size:93 final size:93
Alignment explanation
Indices: 69660798--69660969 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
69660788 GCCCATAAGT
* *
69660798 GAACTCAGACTCAACTCAACGAGCTCGGGCTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
69660863 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
69660891 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
69660956 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
69660970 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:69660984 original size:46 final size:44
Alignment explanation
Indices: 69660841--69660984 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
69660831 CGCATCCATA
* * *
69660841 AGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
69660890 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
69660933 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
69660980 AGTGA
1 AGTGA
69660985 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:69665801 original size:27 final size:27
Alignment explanation
Indices: 69665771--69665926 Score: 179
Period size: 27 Copynumber: 5.8 Consensus size: 27
69665761 ACCCAAATAT
69665771 CCTCGATTTATAGAATTACTATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
69665798 CCTCGATTTAAAGAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* * *
69665825 CCTCAATTTATAAAATTACCATTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* *
69665852 CCTTGATTTATAGAATTA-TCGTTTTAC
1 CCTCGATTTATAGAATTACT-ATTTTAC
* **
69665879 CCTCGATTTATAGAACTACCGTTTTAC
1 CCTCGATTTATAGAATTACTATTTTAC
* * *
69665906 CCTCAATTTACAAAATTACTA
1 CCTCGATTTATAGAATTACTA
69665927 AAATACCCTT
Statistics
Matches: 106, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACTATTTTAC
Found at i:69665842 original size:54 final size:55
Alignment explanation
Indices: 69665771--69665925 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 55
69665761 ACCCAAATAT
*
69665771 CCTCGATTTATAGAATTACTATTTTACCCTCGATTTAAAGAATTACT-GTTTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAAGAATTACTCGTTTTAC
* * * *
69665825 CCTCAATTTATAAAATTACCATTTTACCCTTGATTTATAGAATTA-TCGTTTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAAGAATTACTCGTTTTAC
* * *
69665879 CCTCGATTTATAGAACTACCGTTTTACCCTCAATTTACAA-AATTACT
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTA-AAGAATTACT
69665926 AAAATACCCT
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 83 0.97
55 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (55 bp):
CCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAAGAATTACTCGTTTTAC
Found at i:69665860 original size:81 final size:81
Alignment explanation
Indices: 69665775--69665924 Score: 239
Period size: 81 Copynumber: 1.9 Consensus size: 81
69665765 AAATATCCTC
* * *
69665775 GATTTATAGAATTA-CTATTTTACCCTCGATTTAAAGAATTACTGTTTTACCCTCAATTTATAAA
1 GATTTATAGAATTATC-ATTTTACCCTCGATTTAAAGAACTACCGTTTTACCCTCAATTTACAAA
69665839 ATTACCATTTTACCCTT
65 ATTACCATTTTACCCTT
* *
69665856 GATTTATAGAATTATCGTTTTACCCTCGATTTATAGAACTACCGTTTTACCCTCAATTTACAAAA
1 GATTTATAGAATTATCATTTTACCCTCGATTTAAAGAACTACCGTTTTACCCTCAATTTACAAAA
69665921 TTAC
66 TTAC
69665925 TAAAATACCC
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 62 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.41
Consensus pattern (81 bp):
GATTTATAGAATTATCATTTTACCCTCGATTTAAAGAACTACCGTTTTACCCTCAATTTACAAAA
TTACCATTTTACCCTT
Found at i:69665934 original size:54 final size:52
Alignment explanation
Indices: 69665765--69665953 Score: 146
Period size: 54 Copynumber: 3.5 Consensus size: 52
69665755 AAAACTACCC
* *
69665765 AAATATCCTCGATTTATAGAATTACTATTTTACCCTCGATTTAAAGAATTACT
1 AAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAA-AATTACT
*** * * * *
69665818 GTTTTACCCTCAATTTATAAAATTACCATTTTACCCTTGATTTATAGAATTATCGT
1 -AAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA-AAAATTA-C-T
** * * *
69665874 -TTTACCCTCGATTTATAGAACTACCGTTTTACCCTCAATTTACAAAATTACT
1 AAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA-AAAATTACT
* * * *
69665926 AAAATACCCTTGGTTTACAAAATTACCA
1 -AAATACCCTCGATTTATAGAATTACCA
69665954 AAATACCCTC
Statistics
Matches: 105, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 100 0.95
55 2 0.02
56 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (52 bp):
AAATACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAAAATTACT
Found at i:69665934 original size:81 final size:81
Alignment explanation
Indices: 69665750--69665951 Score: 235
Period size: 81 Copynumber: 2.5 Consensus size: 81
69665740 GTACCTCCGG
* * * * * *
69665750 TTTATAAAACTACCCAAATATCCTCGATTTATAGAATTACTATTTTACCCTCGATTTAAAGAATT
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTAAAGAACT
*
69665815 ACTGTTTTACCCTCAA
66 ACCGTTTTACCCTCAA
* *** * *
69665831 TTTATAAAATTACCATTTTACCCTTGATTTATAGAATTA-TCGTTTTACCCTCGATTTATAGAAC
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACT-ATTTTACCCTCGATTTAAAGAAC
69665895 TACCGTTTTACCCTCAA
65 TACCGTTTTACCCTCAA
* * * *
69665912 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTAC
69665952 CAAAATACCC
Statistics
Matches: 100, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 1 0.01
81 99 0.99
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.39
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACTATTTTACCCTCGATTTAAAGAACT
ACCGTTTTACCCTCAA
Found at i:69666050 original size:27 final size:27
Alignment explanation
Indices: 69665917--69666056 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
69665907 CTCAATTTAC
* * **
69665917 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGATTTGT
* **
69665944 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGATTTGT
* *
69665971 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* *
69665998 AAAATTACTAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGT
69666025 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
69666052 AAAAT
1 AAAAT
69666057 ATCGAAATAC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 94 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGT
Found at i:69666051 original size:54 final size:54
Alignment explanation
Indices: 69665917--69666056 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
69665907 CTCAATTTAC
* ** *
69665917 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAGATCAGT
* * **
69665971 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTAG-TTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTAGATCAGT
*
69666025 AAAATTACCAAAATACCCTTGATTTGTAAAAT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAAT
69666057 ATCGAAATAC
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
54 70 0.93
55 5 0.07
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTAGATCAGT
Found at i:69666054 original size:81 final size:80
Alignment explanation
Indices: 69665917--69666094 Score: 223
Period size: 81 Copynumber: 2.2 Consensus size: 80
69665907 CTCAATTTAC
* *
69665917 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAA-TACCAA
**
69665982 AATACCCCTGGT-TTGT
65 AATACCCCT-GTAGGGT
** * ** * *
69665998 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATATCGAA
1 AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATACCAAA
69666063 ATACCCCTGTAGGGT
66 ATACCCCTGTAGGGT
*
69666078 AGAATTACTAAAATACC
1 AAAATTACTAAAATACC
69666095 TCTGTAGGGT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 2 0.02
80 31 0.37
81 51 0.61
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTAGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATACCAAA
ATACCCCTGTAGGGT
Found at i:69666070 original size:27 final size:26
Alignment explanation
Indices: 69665969--69666070 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 26
69665959 CCCTCGATCA
* *
69665969 GTAAAATTACCAAAATACCCCTGGTTT
1 GTAAAA-TATCAAAATACCCCTTGTTT
*
69665996 GTAAAAT-TACTAAAATACCCCTAGTTT
1 GTAAAATAT-C-AAAATACCCCTTGTTT
*
69666023 GTAAAATTACCAAAATA-CCCTTGATTT
1 GTAAAA-TATCAAAATACCCCTTG-TTT
*
69666050 GTAAAATATCGAAATACCCCT
1 GTAAAATATCAAAATACCCCT
69666071 GTAGGGTAGA
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
26 15 0.24
27 46 0.73
28 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
GTAAAATATCAAAATACCCCTTGTTT
Found at i:69666091 original size:27 final size:27
Alignment explanation
Indices: 69666059--69666302 Score: 335
Period size: 27 Copynumber: 9.0 Consensus size: 27
69666049 TGTAAAATAT
69666059 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** *
69666086 TAAAATACCTCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
69666113 CGAAATACCTCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
69666140 TGAAATAACCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
69666167 CGAAATACCCTTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
69666194 AGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
69666221 TGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
69666248 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
69666275 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
69666302 C
1 C
69666303 ATTTTGCCTC
Statistics
Matches: 190, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Done.