Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 199 of 228
Found at i:58391852 original size:43 final size:43
Alignment explanation
Indices: 58391696--58391858 Score: 218
Period size: 43 Copynumber: 3.8 Consensus size: 43
58391686 AAGTCATGTT
* * *
58391696 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGTTCTTGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
* *
58391739 TTCAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
* *
58391782 TTTAGCAGCGTTTTCGGGAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
* *** *
58391825 TTTAACGGCGTTTTTTCTAAAAACGCCGCTAAAG
1 TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAG
58391859 TTAGCGACGC
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
Found at i:58400364 original size:30 final size:32
Alignment explanation
Indices: 58400304--58400366 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
58400294 CACTTATTTT
58400304 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
58400337 CACCTATGCCGAATGCAACATATATATATA
1 CACCTATGCCGAATGCAACACATAAATATA
58400367 CATATCTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:58400625 original size:41 final size:41
Alignment explanation
Indices: 58400580--58400735 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
58400570 ACCGGCTCTT
*
58400580 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
58400621 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
58400662 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
58400703 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
58400736 TAACGATAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:58408010 original size:30 final size:32
Alignment explanation
Indices: 58407950--58408013 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
58407940 CACTTATTTT
58407950 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
58407983 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
58408014 ATATACATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:58408277 original size:41 final size:41
Alignment explanation
Indices: 58408232--58408387 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
58408222 ACCGGCTCTT
*
58408232 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
58408273 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
58408314 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
58408355 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
58408388 TAACGATAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:58411773 original size:18 final size:19
Alignment explanation
Indices: 58411740--58411784 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
58411730 TTAAAATTTT
58411740 ATTTTAATTTATTTAT-AC
1 ATTTTAATTTATTTATCAC
58411758 ATTTTAATTT-TATTATGCAC
1 ATTTTAATTTAT-TTAT-CAC
58411778 ATTTTAA
1 ATTTTAA
58411785 CTGTATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.04
18 14 0.58
20 9 0.38
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTAATTTATTTATCAC
Found at i:58416910 original size:7 final size:7
Alignment explanation
Indices: 58416898--58416923 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
58416888 TAAATCTTGA
58416898 GTTTAGG
1 GTTTAGG
58416905 GTTTAGG
1 GTTTAGG
58416912 GTTTAGG
1 GTTTAGG
58416919 GTTTA
1 GTTTA
58416924 AGATCTTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:58419054 original size:23 final size:23
Alignment explanation
Indices: 58419011--58419055 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
58419001 AGAACAATAA
* *
58419011 AATGTTTATAATAATTTTAAAAG
1 AATGTATATAATAATTATAAAAG
58419034 AATGTATAT-ATATATTATAAAA
1 AATGTATATAATA-ATTATAAAA
58419056 TATGAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (23 bp):
AATGTATATAATAATTATAAAAG
Found at i:58419253 original size:3 final size:3
Alignment explanation
Indices: 58419224--58419272 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
58419214 ATATGTAAGT
* *
58419224 ATA ATT ATA ATA CTA TATA AT- ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
58419269 ATA A
1 ATA A
58419273 CAAAAGTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:58419875 original size:12 final size:11
Alignment explanation
Indices: 58419848--58419881 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
58419838 CTTTATATTT
*
58419848 TAAATTAAAAA
1 TAAATAAAAAA
58419859 TAAATAAAAAA
1 TAAATAAAAAA
58419870 TAAAATAAAAAA
1 T-AAATAAAAAA
58419882 GAATGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
TAAATAAAAAA
Found at i:58419878 original size:22 final size:24
Alignment explanation
Indices: 58419848--58419905 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 24
58419838 CTTTATATTT
*
58419848 TAAATTAAAAATA-AAT-AAAAAA
1 TAAAATAAAAATAGAATGAAAAAA
58419870 TAAAATAAAAA-AGAATGGAAAAAA
1 TAAAATAAAAATAGAAT-GAAAAAA
*
58419894 TGAAA-AAAAATA
1 TAAAATAAAAATA
58419906 CGATTCACCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 13 0.43
23 5 0.17
24 11 0.37
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (24 bp):
TAAAATAAAAATAGAATGAAAAAA
Found at i:58427948 original size:57 final size:59
Alignment explanation
Indices: 58427872--58427994 Score: 142
Period size: 57 Copynumber: 2.1 Consensus size: 59
58427862 GGTTTAATAA
* * * * ** *
58427872 TTTTTTTAATTTAAATTAGACTCTGAATTTAATAATTATTC-CGTATTGAGA-TTAAAC
1 TTTTTTTAATTCAAATTAGACTCTAAACTTAACAATTATTCTCACATTGAGACATAAAC
* * *
58427929 TTTTTTTTATTCAAGTTAGACTCTAAACTTAACAATTGTTCTCACATTGAGACATAAAC
1 TTTTTTTAATTCAAATTAGACTCTAAACTTAACAATTATTCTCACATTGAGACATAAAC
58427988 TTTTTTT
1 TTTTTTT
58427995 GTCCAAGTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 34 0.63
58 8 0.15
59 12 0.22
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (59 bp):
TTTTTTTAATTCAAATTAGACTCTAAACTTAACAATTATTCTCACATTGAGACATAAAC
Found at i:58428465 original size:19 final size:19
Alignment explanation
Indices: 58428441--58428478 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
58428431 TTATCAGTAT
58428441 TTATTTATAAATTTATTTA
1 TTATTTATAAATTTATTTA
* *
58428460 TTATTTATTATTTTATTTA
1 TTATTTATAAATTTATTTA
58428479 ATAATAAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTATAAATTTATTTA
Found at i:58430535 original size:11 final size:10
Alignment explanation
Indices: 58430519--58430580 Score: 54
Period size: 11 Copynumber: 5.9 Consensus size: 10
58430509 TTTTTTTATA
58430519 ATATAATAATT
1 ATATAA-AATT
58430530 ATATAAAATT
1 ATATAAAATT
*
58430540 TTA-AAAATT
1 ATATAAAATT
58430549 ATATCAAAATT
1 ATAT-AAAATT
* *
58430560 AATATATATATA
1 -ATATA-AAATT
58430572 ATATAAAAT
1 ATATAAAAT
58430581 GGTTGATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
9 8 0.19
10 9 0.21
11 18 0.43
12 7 0.17
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATAAAATT
Found at i:58439951 original size:22 final size:22
Alignment explanation
Indices: 58439925--58439969 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
58439915 GAACTTCACA
58439925 ATTTTTCTTAATTTGGTACTTT
1 ATTTTTCTTAATTTGGTACTTT
*
58439947 ATTTTTTTTAATTTGGTACTTT
1 ATTTTTCTTAATTTGGTACTTT
58439969 A
1 A
58439970 ACTTGATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.64
Consensus pattern (22 bp):
ATTTTTCTTAATTTGGTACTTT
Found at i:58452683 original size:31 final size:31
Alignment explanation
Indices: 58452646--58452707 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
58452636 AGATAATTTT
58452646 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
58452677 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
58452708 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:58453793 original size:18 final size:18
Alignment explanation
Indices: 58453770--58453805 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
58453760 CAATTAAACC
58453770 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
58453788 ATTTGATTTATCTATTTA
1 ATTTGATTGATATATTTA
58453806 TAAATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:58453862 original size:16 final size:16
Alignment explanation
Indices: 58453829--58453884 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 16
58453819 GCAATATATG
*
58453829 TATAAACAATTTA-AAA
1 TATAAA-AATTTATTAA
58453845 TATAAAAATTTATTAA
1 TATAAAAATTTATTAA
58453861 TATGTATATAAATTTATTAA
1 TA--TA-A-AAATTTATTAA
58453881 TATA
1 TATA
58453885 TGTAAAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 6 0.18
16 10 0.29
18 4 0.12
19 1 0.03
20 13 0.38
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
TATAAAAATTTATTAA
Found at i:58453888 original size:22 final size:20
Alignment explanation
Indices: 58453845--58453883 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
58453835 CAATTTAAAA
58453845 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
58453865 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
58453884 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:58457690 original size:3 final size:3
Alignment explanation
Indices: 58457676--58457735 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
58457666 TTTGCATTGC
* * * * *
58457676 CAT CAC CAT CAT CAT CAT CAT TAT CAG CAT CAC CAT CTT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
*
58457724 CAT CAT CTT CAT
1 CAT CAT CAT CAT
58457736 GTGAGAACCC
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.30, C:0.35, G:0.02, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:58462019 original size:13 final size:13
Alignment explanation
Indices: 58462001--58462026 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58461991 AATATCTTTG
58462001 GTTTTTGTTGTTT
1 GTTTTTGTTGTTT
58462014 GTTTTTGTTGTTT
1 GTTTTTGTTGTTT
58462027 TTAATGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (13 bp):
GTTTTTGTTGTTT
Found at i:58468022 original size:40 final size:40
Alignment explanation
Indices: 58467985--58468209 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
58467975 GCTACTCGTT
* *
58467985 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
58468025 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
58468065 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
58468105 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
58468144 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
58468185 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
58468210 CATCATTTGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:58468169 original size:119 final size:120
Alignment explanation
Indices: 58467987--58468209 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
58467977 TACTCGTTCA
*
58467987 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
58468052 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
58468107 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
58468169 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
58468210 CATCATTTGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:58469283 original size:10 final size:10
Alignment explanation
Indices: 58469248--58469281 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
58469238 ACATGAGAGC
*
58469248 TTTTCTCTTC
1 TTTTCTCTTT
58469258 TTTTCTCTTT
1 TTTTCTCTTT
*
58469268 TTTTTTCTTT
1 TTTTCTCTTT
58469278 TTTT
1 TTTT
58469282 TTTGGTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCTCTTT
Found at i:58469421 original size:56 final size:56
Alignment explanation
Indices: 58469354--58469536 Score: 294
Period size: 56 Copynumber: 3.1 Consensus size: 56
58469344 TATTAGTTTA
58469354 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58469410 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGAAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATT-A-AC-AC----AACATGTTTCATGACATGTT
*
58469473 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58469529 TTGCCCAT
1 TTGCCCAT
58469537 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 14
0.89 0.01 0.10
Matches are distributed among these distances:
56 59 0.50
57 1 0.01
58 2 0.02
59 2 0.02
60 2 0.02
61 2 0.02
62 1 0.01
63 50 0.42
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:58469468 original size:63 final size:63
Alignment explanation
Indices: 58469390--58469514 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
58469380 CCATTAACAC
58469390 AACATGTTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGA
1 AACATGTTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGA
*
58469453 AACATGTTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATG
1 AACATGTTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATG
58469515 TTTCATGACA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (63 bp):
AACATGTTTCATGACATGTTTTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGA
Found at i:58474371 original size:23 final size:23
Alignment explanation
Indices: 58474344--58474416 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
58474334 AGTGTTATTG
58474344 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
58474367 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58474390 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58474413 ATCA
1 ATCA
58474417 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:58481598 original size:8 final size:8
Alignment explanation
Indices: 58481585--58481621 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
58481575 CACTAGAGAC
58481585 CAGTGTTA
1 CAGTGTTA
58481593 CAGTGTTA
1 CAGTGTTA
58481601 CAGTGTTA
1 CAGTGTTA
58481609 CAGTGTTA
1 CAGTGTTA
58481617 CAGTG
1 CAGTG
58481622 AGTCCCGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (8 bp):
CAGTGTTA
Found at i:58481735 original size:23 final size:23
Alignment explanation
Indices: 58481708--58481780 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
58481698 AGTGTTATTG
58481708 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
58481731 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58481754 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
58481777 ATCA
1 ATCA
58481781 ATGTGGCACT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:58483548 original size:16 final size:16
Alignment explanation
Indices: 58483529--58483562 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58483519 TAAGGTTATG
*
58483529 AGAATTTGGGGTTCTT
1 AGAATTTAGGGTTCTT
*
58483545 AGAATTTAGGGTTTTT
1 AGAATTTAGGGTTCTT
58483561 AG
1 AG
58483563 GTCCGAGCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.29, T:0.44
Consensus pattern (16 bp):
AGAATTTAGGGTTCTT
Found at i:58503291 original size:3 final size:3
Alignment explanation
Indices: 58503283--58503311 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
58503273 AATTGAGTCT
58503283 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
58503312 TGAAGTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:58505352 original size:16 final size:15
Alignment explanation
Indices: 58505314--58505357 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
58505304 TATATAATTT
58505314 AATAA-TATTTTTAA
1 AATAATTATTTTTAA
*
58505328 TATAATTATTTTTAA
1 AATAATTATTTTTAA
*
58505343 AATATTTTATTTTTA
1 AATA-ATTATTTTTA
58505358 TATTTTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 4 0.16
15 12 0.48
16 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATAATTATTTTTAA
Found at i:58507275 original size:5 final size:4
Alignment explanation
Indices: 58507255--58507300 Score: 67
Period size: 4 Copynumber: 11.5 Consensus size: 4
58507245 ATTAAAACTA
*
58507255 AAAT AAAT AAAT AAAT GAAAT AGA- AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
58507301 TAACAAGGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 2 0.05
4 32 0.84
5 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:58507281 original size:24 final size:23
Alignment explanation
Indices: 58507254--58507299 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
58507244 AATTAAAACT
58507254 AAAATAAATAAATAAATGAAATAG
1 AAAATAAATAAATAAAT-AAATAG
58507278 AAAATAAATAAATAAATAAATA
1 AAAATAAATAAATAAATAAATA
58507300 ATAACAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAATAAATAAATAAATAAATAG
Found at i:58513484 original size:22 final size:22
Alignment explanation
Indices: 58513458--58513502 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
58513448 TTTTAATAAA
58513458 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
58513480 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
58513502 A
1 A
58513503 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:58518083 original size:22 final size:22
Alignment explanation
Indices: 58518058--58518102 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
58518048 TTTAATAAAA
58518058 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
58518080 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
58518102 A
1 A
58518103 CAATTTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:58520178 original size:21 final size:21
Alignment explanation
Indices: 58520152--58520194 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
58520142 TCTTTAGTAG
58520152 GGGTGAACATTCGATCGAATC
1 GGGTGAACATTCGATCGAATC
58520173 GGGTGAACATTCGATCGAATC
1 GGGTGAACATTCGATCGAATC
58520194 G
1 G
58520195 AAAATTTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (21 bp):
GGGTGAACATTCGATCGAATC
Found at i:58520977 original size:30 final size:30
Alignment explanation
Indices: 58520943--58521001 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
58520933 GGAAGTGAGA
*
58520943 TGGGAAGAGAATAAAAGTTTTAGG-GAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGAGAAAAG
* *
58520973 TGGGAGGGAGTAAAAATTTTAGGAGAAAA
1 TGGGAGAGAATAAAAATTTTAGGAGAAAA
58521002 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.46, C:0.00, G:0.34, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGAGAAAAG
Found at i:58521229 original size:9 final size:9
Alignment explanation
Indices: 58521215--58521251 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
58521205 TATAGTTTAA
58521215 TATTCGAAT
1 TATTCGAAT
58521224 TATTCGAAT
1 TATTCGAAT
58521233 TATTC-AAGT
1 TATTCGAA-T
58521242 TATTCGAAT
1 TATTCGAAT
58521251 T
1 T
58521252 TAAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:58531551 original size:2 final size:2
Alignment explanation
Indices: 58531544--58531580 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
58531534 GAAAGCAGTT
58531544 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
58531581 TTTTTTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:58534452 original size:3 final size:3
Alignment explanation
Indices: 58534444--58534473 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
58534434 TAGATCATAA
*
58534444 GAT GAT GAT GAT GAT GAT GAT GAC GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
58534474 TAGAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:58543841 original size:24 final size:24
Alignment explanation
Indices: 58543814--58543865 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
58543804 TTAGTAAGTC
*
58543814 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
58543838 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
58543862 AAAT
1 AAAT
58543866 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:58545811 original size:24 final size:24
Alignment explanation
Indices: 58545784--58545835 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
58545774 TTAGTAAGTC
*
58545784 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
58545808 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
58545832 AAAT
1 AAAT
58545836 CTCTTAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:58547101 original size:25 final size:26
Alignment explanation
Indices: 58547050--58547101 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
58547040 AAACAGTAAC
* *
58547050 ACAATTAACAATAAAACAAGAGTAAT
1 ACAATTAACAACAAAACAAGAGCAAT
* *
58547076 ACAA-TAACAACAAAATAATAGCAAT
1 ACAATTAACAACAAAACAAGAGCAAT
58547101 A
1 A
58547102 TACTAGTGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.63, C:0.13, G:0.06, T:0.17
Consensus pattern (26 bp):
ACAATTAACAACAAAACAAGAGCAAT
Found at i:58547634 original size:3 final size:3
Alignment explanation
Indices: 58547626--58547682 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
58547616 TTTCACTTAA
58547626 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
58547674 ATT ATT ATT
1 ATT ATT ATT
58547683 TTTGACCCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:58551782 original size:40 final size:42
Alignment explanation
Indices: 58551703--58551794 Score: 152
Period size: 40 Copynumber: 2.2 Consensus size: 42
58551693 AAAATTTATA
*
58551703 TTTAATATAATAAAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAAACATTTATTATATTTATGGTAGTGTTT
*
58551745 TTTGATATAAT-AAAACATTTATTATA-TTATGGTAGTGTTT
1 TTTAATATAATAAAAACATTTATTATATTTATGGTAGTGTTT
58551785 TTTAATATAA
1 TTTAATATAA
58551795 ATATTTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 23 0.49
41 14 0.30
42 10 0.21
ACGTcount: A:0.38, C:0.01, G:0.10, T:0.51
Consensus pattern (42 bp):
TTTAATATAATAAAAACATTTATTATATTTATGGTAGTGTTT
Found at i:58552601 original size:16 final size:16
Alignment explanation
Indices: 58552580--58552612 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
58552570 TTAGCTGTAT
58552580 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
58552596 TGGAATCGAGGCGTAA
1 TGGAATAGAGGCGTAA
58552612 T
1 T
58552613 AGTAATCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.09, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:58552818 original size:16 final size:16
Alignment explanation
Indices: 58552781--58552822 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
58552771 TTAATCATAT
*
58552781 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
58552797 TT-AAATATATTATAA
1 TTAAAATATATTATAA
58552812 TTAAAATATAT
1 TTAAAATATAT
58552823 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:58552829 original size:14 final size:15
Alignment explanation
Indices: 58552790--58552831 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
58552780 TTTAAACATA
*
58552790 ATTATTATTAAATAT
1 ATTATAATTAAATAT
58552805 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
58552819 A-TATAATTTAATA
1 ATTATAATTAAATA
58552832 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:58552949 original size:14 final size:15
Alignment explanation
Indices: 58552900--58552951 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
58552890 ATAAAATATA
58552900 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
58552915 TATTAAATATATTAT
1 AATTAAATATATTAT
58552930 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
58552943 AATTTAATA
1 AATTAAATA
58552952 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:58553060 original size:16 final size:16
Alignment explanation
Indices: 58553017--58553062 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
58553007 ACTATAAAAG
*
58553017 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
58553033 ATTATT-AAATATATT
1 ATAATTAAAATATATT
58553048 ATAATTAAAATATAT
1 ATAATTAAAATATAT
58553063 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:58553069 original size:14 final size:15
Alignment explanation
Indices: 58553017--58553071 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
58553007 ACTATAAAAG
58553017 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
58553033 ATTATTAAATATATT
1 ATAATTAAATATATT
58553048 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
58553061 ATAATTTAATA
1 ATAATTAAATA
58553072 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:58553180 original size:16 final size:16
Alignment explanation
Indices: 58553137--58553182 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
58553127 ACTATAAAAG
*
58553137 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
58553153 ATTATT-AAATATATT
1 ATAATTAAAATATATT
58553168 ATAATTAAAATATAT
1 ATAATTAAAATATAT
58553183 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:58553189 original size:14 final size:15
Alignment explanation
Indices: 58553137--58553191 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
58553127 ACTATAAAAG
58553137 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
58553153 ATTATTAAATATATT
1 ATAATTAAATATATT
58553168 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
58553181 ATAATTTAATA
1 ATAATTAAATA
58553192 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:58553327 original size:120 final size:120
Alignment explanation
Indices: 58552779--58553316 Score: 997
Period size: 120 Copynumber: 4.5 Consensus size: 120
58552769 ATTTAATCAT
58552779 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
58552844 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
58552900 AATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
58552965 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
58553020 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
58553085 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
58553140 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
58553205 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
58553260 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
58553317 TAAAATAATT
Statistics
Matches: 409, Mismatches: 7, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
120 404 0.99
121 5 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:58560152 original size:22 final size:21
Alignment explanation
Indices: 58560109--58560160 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
58560099 AAAAATCATT
* *
58560109 AAAAATTGTAAAAGTTATAAA
1 AAAAATTATAAAAGTTACAAA
*
58560130 AAAAATTATGAAAGTTAGCAAA
1 AAAAATTATAAAAGTTA-CAAA
*
58560152 AAACATTAT
1 AAAAATTAT
58560161 TTGGAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.27
Consensus pattern (21 bp):
AAAAATTATAAAAGTTACAAA
Found at i:58562964 original size:14 final size:15
Alignment explanation
Indices: 58562945--58562974 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
58562935 TAACAGGGTG
58562945 TATTATAA-TTTAAA
1 TATTATAATTTTAAA
58562959 TATTATAATTTTAAA
1 TATTATAATTTTAAA
58562974 T
1 T
58562975 TATCTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATAATTTTAAA
Found at i:58566899 original size:9 final size:9
Alignment explanation
Indices: 58566885--58567031 Score: 57
Period size: 9 Copynumber: 15.2 Consensus size: 9
58566875 TTTTGGTACG
58566885 ATAATTTTT
1 ATAATTTTT
58566894 ATAATTTTT
1 ATAATTTTT
*
58566903 TTACGATTTTT
1 ATA--ATTTTT
*
58566914 ATATTTATTT
1 ATAATT-TTT
* *
58566924 ACATTTTTTT
1 ATA-ATTTTT
58566934 ATAATTTTCTT
1 ATAA-TTT-TT
*
58566945 ATGACTTTATT
1 AT-AATTT-TT
58566956 A-AATTTGTT
1 ATAATTT-TT
*
58566965 AT-ATTTCT
1 ATAATTTTT
58566973 AT-ATATTTT
1 ATAAT-TTTT
58566982 ATAATTTTT
1 ATAATTTTT
* *
58566991 TTACGATATTT
1 ATA--ATTTTT
58567002 ATAATTTTT
1 ATAATTTTT
* *
58567011 CTATTTTTT
1 ATAATTTTT
*
58567020 CCTAATTTTT
1 -ATAATTTTT
58567030 AT
1 AT
58567032 TATTAAAACT
Statistics
Matches: 105, Mismatches: 20, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
8 5 0.05
9 48 0.46
10 23 0.22
11 28 0.27
12 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:58566913 original size:20 final size:20
Alignment explanation
Indices: 58566888--58567010 Score: 72
Period size: 20 Copynumber: 5.8 Consensus size: 20
58566878 TGGTACGATA
58566888 ATTTTTATAATTTTTTTACG
1 ATTTTTATAATTTTTTTACG
*
58566908 ATTTTTAT-ATTTATTTAC-
1 ATTTTTATAATTTTTTTACG
* *
58566926 ATTTTTTTATAATTTTCTTATG
1 A--TTTTTATAATTTTTTTACG
* *
58566948 ACTTTATTA-AATTTGTTATATTTCTAT
1 A-TTT-TTATAA-TT-TT-T-TTAC--G
58566975 ATATTTTATAATTTTTTTACG
1 AT-TTTTATAATTTTTTTACG
*
58566996 ATATTTATAATTTTT
1 ATTTTTATAATTTTT
58567011 CTATTTTTTC
Statistics
Matches: 78, Mismatches: 12, Indels: 26
0.67 0.10 0.22
Matches are distributed among these distances:
18 1 0.01
19 9 0.12
20 27 0.35
21 14 0.18
22 6 0.08
23 5 0.06
24 1 0.01
25 4 0.05
26 6 0.08
27 5 0.06
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTTATAATTTTTTTACG
Found at i:58566932 original size:19 final size:20
Alignment explanation
Indices: 58566888--58566931 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
58566878 TGGTACGATA
*
58566888 ATTTTTATAATTTTTTTACG
1 ATTTTTATAATTTATTTACG
58566908 ATTTTTAT-ATTTATTTAC-
1 ATTTTTATAATTTATTTACG
58566926 ATTTTT
1 ATTTTT
58566932 TTATAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 8 0.35
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTTTTATAATTTATTTACG
Found at i:58567004 original size:29 final size:28
Alignment explanation
Indices: 58566890--58567009 Score: 84
Period size: 29 Copynumber: 4.1 Consensus size: 28
58566880 GTACGATAAT
58566890 TTTTATAATTTTTTTACGATTTT-TATA
1 TTTTATAATTTTTTTACGATTTTATATA
* ** *
58566917 TTTATTTACATTTTTTTATAATTTTCTTATGA
1 TTT-TATA-ATTTTTTTACGATTTT-ATAT-A
* * * *
58566949 CTTTATTAAATTTGTTA-TATTTCTATATA
1 TTTTA-TAATTTTTTTACGATTT-TATATA
58566978 TTTTATAATTTTTTTACGATATTTATA-A
1 TTTTATAATTTTTTTACGAT-TTTATATA
58567006 TTTT
1 TTTT
58567010 TCTATTTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
27 3 0.04
28 17 0.24
29 25 0.35
30 9 0.13
31 12 0.17
32 5 0.07
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTTATAATTTTTTTACGATTTTATATA
Found at i:58567010 original size:29 final size:29
Alignment explanation
Indices: 58566885--58567019 Score: 70
Period size: 28 Copynumber: 4.7 Consensus size: 29
58566875 TTTTGGTACG
*
58566885 ATAATTTTTATAATTTTTTTACGATTTTT
1 ATAATTTTTATAATTTTTTTACGATATTT
** *
58566914 AT-ATTTATT-TACATTTTTTTATAATTTTCTT
1 ATAATTT-TTATA-ATTTTTTTACGA-TAT-TT
* *
58566945 ATGACTTTATTA-AA-TTTGTT---ATATTT
1 AT-AATTT-TTATAATTTTTTTACGATATTT
*
58566971 CTATATATTTTATAATTTTTTTACGATATTT
1 ATA-AT-TTTTATAATTTTTTTACGATATTT
*
58567002 ATAATTTTTCT-ATTTTTT
1 ATAATTTTTATAATTTTTT
58567020 CCTAATTTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 29
0.68 0.08 0.24
Matches are distributed among these distances:
25 1 0.01
26 7 0.09
27 6 0.07
28 19 0.23
29 19 0.23
30 5 0.06
31 17 0.21
32 1 0.01
33 7 0.09
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.64
Consensus pattern (29 bp):
ATAATTTTTATAATTTTTTTACGATATTT
Found at i:58568912 original size:5 final size:5
Alignment explanation
Indices: 58568902--58568941 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
58568892 TTAAAAAGGA
*
58568902 AAATT AAATT AAATT AAATT AAATT AAATT AAATT CAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
58568942 TCATTTTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:58573434 original size:67 final size:66
Alignment explanation
Indices: 58573318--58573447 Score: 224
Period size: 67 Copynumber: 2.0 Consensus size: 66
58573308 TTTCCATTTT
58573318 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTAC
1 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTAC
58573383 A
66 A
* **
58573384 AGAGAGCACACTCCCGCGAACCTTATTCCTTACAGTGGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCGAACCTCA-TCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCT
58573448 GTAATATAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
66 24 0.40
67 36 0.60
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTAC
A
Found at i:58576353 original size:5 final size:5
Alignment explanation
Indices: 58576343--58576387 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
58576333 TTAAAAAGGA
*
58576343 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT CAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
58576388 TCATTTTCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:58578086 original size:18 final size:19
Alignment explanation
Indices: 58578065--58578114 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
58578055 TTTATCCTTG
58578065 TTATTATTATTATT-TTAT
1 TTATTATTATTATTATTAT
* *
58578083 TTATTTTTCTT-TTATTAT
1 TTATTATTATTATTATTAT
*
58578101 TTA-TATTAGTATTA
1 TTATTATTATTATTA
58578115 GGGTAGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTATTATTATTATTATTAT
Found at i:58578247 original size:14 final size:14
Alignment explanation
Indices: 58578210--58578247 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
58578200 TAGCATGACA
*
58578210 ATTTTTTTATGTTT
1 ATTTTTTTATTTTT
58578224 -TTTTTTTATTTTT
1 ATTTTTTTATTTTT
58578237 ATTTTTTTATT
1 ATTTTTTTATT
58578248 CTAATATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (14 bp):
ATTTTTTTATTTTT
Found at i:58585662 original size:25 final size:24
Alignment explanation
Indices: 58585601--58585664 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
58585591 TTTTGAGTTG
58585601 TTTATGTGTTTATA-TATAATTTT
1 TTTATGTGTTTATATTATAATTTT
* * *
58585624 TTGTTTGTG-CTATATTTTAAATTTT
1 TT-TATGTGTTTATATTAT-AATTTT
58585649 TTTATGTGTTTATATT
1 TTTATGTGTTTATATT
58585665 GTCACTCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
23 6 0.19
24 12 0.38
25 14 0.44
ACGTcount: A:0.22, C:0.02, G:0.11, T:0.66
Consensus pattern (24 bp):
TTTATGTGTTTATATTATAATTTT
Found at i:58587170 original size:3 final size:3
Alignment explanation
Indices: 58587164--58587215 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
58587154 AATATGTTTA
58587164 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
58587212 AAT A
1 AAT A
58587216 GAAGAGCTCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:58594556 original size:32 final size:32
Alignment explanation
Indices: 58594515--58594580 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
58594505 AGAGATTCAA
58594515 TGGGATGCCAAGGAAATGGACAATAAACAATC
1 TGGGATGCCAAGGAAATGGACAATAAACAATC
58594547 TGGGATGCCAAGGAAATGGACAATAAACAATC
1 TGGGATGCCAAGGAAATGGACAATAAACAATC
58594579 TG
1 TG
58594581 AGCTACAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.26, T:0.17
Consensus pattern (32 bp):
TGGGATGCCAAGGAAATGGACAATAAACAATC
Found at i:58594830 original size:15 final size:15
Alignment explanation
Indices: 58594781--58594830 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
58594771 GAATAGGTGA
*
58594781 AGAACTTGTTCGTTG
1 AGAATTTGTTCGTTG
* *
58594796 AGAGTTTG--CGATG
1 AGAATTTGTTCGTTG
58594809 AAGAATTTGTTCGTTG
1 -AGAATTTGTTCGTTG
58594825 AGAATT
1 AGAATT
58594831 CGTGTCAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
13 4 0.15
14 7 0.26
15 12 0.44
16 4 0.15
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (15 bp):
AGAATTTGTTCGTTG
Found at i:58596832 original size:20 final size:20
Alignment explanation
Indices: 58596807--58596844 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
58596797 TTTTCGTGTC
58596807 AGAATCAGATATCAGTATTT
1 AGAATCAGATATCAGTATTT
58596827 AGAATCAGATATCAGTAT
1 AGAATCAGATATCAGTAT
58596845 ATGAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (20 bp):
AGAATCAGATATCAGTATTT
Found at i:58597174 original size:108 final size:105
Alignment explanation
Indices: 58596854--58597174 Score: 398
Period size: 108 Copynumber: 3.0 Consensus size: 105
58596844 TATGAAAAAA
* * * * * *
58596854 GTATACTGATATTTGATTCTTACAAGAAAAAAATGAAAA-ATTTTTAAATTATACTGGGTGCCAG
1 GTATACTGATATCTGATTCTAACAA-AAAAAAAAGAAAATTTTTTTAAATTGTACTGGGTGCCGG
* *
58596918 CCATTGACAGGCCAGCACCCATAAATTTTTTTTTACTTTTTTC
65 CCATTGACAGACCAGCACCCA-AAATTTTTTTTTTC-TTTTTC
* * *
58596961 GTATACTGATATCTGATTTTGACACAAAAAAAAAAG-AATTTTTTTTAAATTGTACTGGATGCCG
1 GTATACTGATATCTGATTCT-A-ACAAAAAAAAAAGAAAATTTTTTTAAATTGTACTGGGTGCCG
*
58597025 ACCATTGACAGACCAGCACCCAAAATTTTTTTTATT-TTTTTC
64 GCCATTGACAGACCAGCACCCAAAATTTTTTTT-TTCTTTTTC
58597067 GTATACTGATATCTGATTCTAACAATTAAAAAAAAGAAAATTTTTTTAAAATTGTACTGGGTGCC
1 GTATACTGATATCTGATTCTAACAA--AAAAAAAAGAAAATTTTTTT-AAATTGTACTGGGTGCC
**
58597132 GGCCATTGACAGACCAATACCC-AAATTTTTTTTTTCCTTTTTC
63 GGCCATTGACAGACCAGCACCCAAAATTTTTTTTTT-CTTTTTC
58597175 TTCTTTTTCC
Statistics
Matches: 186, Mismatches: 18, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
104 4 0.02
105 1 0.01
106 36 0.19
107 51 0.27
108 90 0.48
109 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (105 bp):
GTATACTGATATCTGATTCTAACAAAAAAAAAAGAAAATTTTTTTAAATTGTACTGGGTGCCGGC
CATTGACAGACCAGCACCCAAAATTTTTTTTTTCTTTTTC
Found at i:58599156 original size:14 final size:14
Alignment explanation
Indices: 58599139--58599171 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
58599129 CGGTGTTGTT
58599139 TTGTTATTATATTA
1 TTGTTATTATATTA
*
58599153 TTGTTATTTTATTA
1 TTGTTATTATATTA
58599167 TTGTT
1 TTGTT
58599172 TGGATATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (14 bp):
TTGTTATTATATTA
Found at i:58603115 original size:3 final size:3
Alignment explanation
Indices: 58603107--58603142 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
58603097 AGGTAGCAAG
58603107 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
58603143 TCATTTTCGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:58604740 original size:61 final size:61
Alignment explanation
Indices: 58604675--58604813 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 61
58604665 ACCAAAAATT
* ** *
58604675 AATTTATTGAATTTTTTAGAATT-AGAACTAAATTGACAAACTTTGTAAATGTTGAAGGTTA
1 AATTTATTGAATTTTTTAGAATTCA-AACTAAAATGACAAACTTTGTAAACATTGAAGGCTA
* *
58604736 AATTTATTG-ATTTTTTAGAATTCAAACTAAAATGACAAATTTTGTAAACATTGATGGCTA
1 AATTTATTGAATTTTTTAGAATTCAAACTAAAATGACAAACTTTGTAAACATTGAAGGCTA
* *
58604796 AATTTGTTGAATATTTTA
1 AATTTATTGAATTTTTTA
58604814 TATTTAGGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
60 51 0.75
61 17 0.25
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (61 bp):
AATTTATTGAATTTTTTAGAATTCAAACTAAAATGACAAACTTTGTAAACATTGAAGGCTA
Found at i:58629614 original size:51 final size:44
Alignment explanation
Indices: 58629456--58629612 Score: 260
Period size: 44 Copynumber: 3.6 Consensus size: 44
58629446 TTTGAGTACT
* * *
58629456 TCTGATCAGTAACAAGTGATTAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTA
58629500 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTA
58629544 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTA
* * *
58629588 TCTTATCAGTGACAAATGACAAGTG
1 TCTGATCAGTGACAAGTGATAAGTG
58629613 ATGTGATATG
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 107 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (44 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTA
Found at i:58629712 original size:47 final size:48
Alignment explanation
Indices: 58629614--58629712 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 48
58629604 TGACAAGTGA
** * *
58629614 TGTGATATGTGATTTTCGTGTAAGACCATATCTAGGATATGGCATTGG
1 TGTGATATGTGATTCCCGTGTAAGACCATAGCTAGGATATGGCATTAG
* *
58629662 TGTGATATGTG-TTCCCGTGTAAGACCATAGCTGGGCTATGGC-TTCAG
1 TGTGATATGTGATTCCCGTGTAAGACCATAGCTAGGATATGGCATT-AG
58629709 TGTG
1 TGTG
58629713 TGATATAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
46 2 0.05
47 31 0.70
48 11 0.25
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.35
Consensus pattern (48 bp):
TGTGATATGTGATTCCCGTGTAAGACCATAGCTAGGATATGGCATTAG
Found at i:58640066 original size:61 final size:58
Alignment explanation
Indices: 58639999--58640111 Score: 154
Period size: 61 Copynumber: 1.9 Consensus size: 58
58639989 AATAATTTTC
**
58639999 ATATTAAAATTAATTTAATATTTATCTTGTATATAAGTATTCTAGTAATTTAATAGATATA
1 ATATTAAAATTAATCAAATATTTATCTTG--T-TAAGTATTCTAGTAATTTAATAGATATA
* * *
58640060 ATATTAAATTTAATCAAATATTTATCTTGTTAAGTATTTTATTAATTTAATA
1 ATATTAAAATTAATCAAATATTTATCTTGTTAAGTATTCTAGTAATTTAATA
58640112 TTAAAGTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
58 20 0.43
59 1 0.02
61 26 0.55
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.50
Consensus pattern (58 bp):
ATATTAAAATTAATCAAATATTTATCTTGTTAAGTATTCTAGTAATTTAATAGATATA
Found at i:58640124 original size:58 final size:60
Alignment explanation
Indices: 58639999--58640133 Score: 161
Period size: 58 Copynumber: 2.3 Consensus size: 60
58639989 AATAATTTTC
* **
58639999 ATATTAAAATTAATTTAATATTTATCTTGTATATAAGTATTCTAGTAATTTAATAGATATA
1 ATATTAAATTTAATCAAATATTTATCTTG-ATATAAGTATTCTAGTAATTTAATAGATATA
* * *
58640060 ATATTAAATTTAATCAAATATTTATCTTG-T-TAAGTATTTTATTAATTTAATA-TTA-A
1 ATATTAAATTTAATCAAATATTTATCTTGATATAAGTATTCTAGTAATTTAATAGATATA
58640116 AGTGATTAAATTTAATCA
1 A-T-ATTAAATTTAATCA
58640134 TCGTTGAACT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
56 2 0.03
57 3 0.05
58 34 0.52
59 1 0.02
61 26 0.39
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (60 bp):
ATATTAAATTTAATCAAATATTTATCTTGATATAAGTATTCTAGTAATTTAATAGATATA
Found at i:58644239 original size:26 final size:26
Alignment explanation
Indices: 58644210--58644260 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
58644200 CCCAAATCTT
*
58644210 TGTTAAAGAAAATACAGTGGTAAAAG
1 TGTTAAAGAAAATACAATGGTAAAAG
58644236 TGTTAAAGAAAATACAATGGTAAAA
1 TGTTAAAGAAAATACAATGGTAAAA
58644261 CTAGGGGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.24
Consensus pattern (26 bp):
TGTTAAAGAAAATACAATGGTAAAAG
Found at i:58644563 original size:20 final size:23
Alignment explanation
Indices: 58644529--58644574 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
58644519 AAGTAAGTTA
58644529 AAAATATTTTAATTAT-TATTTG
1 AAAATATTTTAATTATATATTTG
58644551 AAAAT-TTTT-ATTATAATATTTG
1 AAAATATTTTAATTAT-ATATTTG
58644573 AA
1 AA
58644575 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
AAAATATTTTAATTATATATTTG
Found at i:58655646 original size:40 final size:39
Alignment explanation
Indices: 58655591--58655692 Score: 156
Period size: 40 Copynumber: 2.6 Consensus size: 39
58655581 TGATTAAACT
58655591 TAATCACTTTAATATTAAATTAATAAAATATTTATCAAGA
1 TAATCACTTTAATATTAAATTAATAAAATA-TTATCAAGA
58655631 TAATCACTTTAATATTAAATTAATAAAATATTATCAAGA
1 TAATCACTTTAATATTAAATTAATAAAATATTATCAAGA
*
58655670 TAAGT-A-TTTAAT-TTAATTTAATA
1 TAA-TCACTTTAATATTAAATTAATA
58655693 TTAAATTTGT
Statistics
Matches: 60, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
37 10 0.17
38 6 0.10
39 13 0.22
40 31 0.52
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (39 bp):
TAATCACTTTAATATTAAATTAATAAAATATTATCAAGA
Found at i:58662878 original size:20 final size:20
Alignment explanation
Indices: 58662855--58662898 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
58662845 GTATGGTTAA
* *
58662855 AAGTGGGCTTGTATTGATAG
1 AAGTGGACTTGTAATGATAG
*
58662875 AAGTGGACTTGTAATGGTAG
1 AAGTGGACTTGTAATGATAG
58662895 AAGT
1 AAGT
58662899 CCCCCTGAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.30, C:0.05, G:0.34, T:0.32
Consensus pattern (20 bp):
AAGTGGACTTGTAATGATAG
Found at i:58670989 original size:32 final size:32
Alignment explanation
Indices: 58670948--58671011 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
58670938 AACCAGAAGG
58670948 GGTGTGGTCTTAAACTTTATGCCCCTCCTTGA
1 GGTGTGGTCTTAAACTTTATGCCCCTCCTTGA
58670980 GGTGTGGTCTTAAACTTTATGCCCCTCCTTGA
1 GGTGTGGTCTTAAACTTTATGCCCCTCCTTGA
58671012 AGCTGTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.38
Consensus pattern (32 bp):
GGTGTGGTCTTAAACTTTATGCCCCTCCTTGA
Found at i:58679279 original size:109 final size:109
Alignment explanation
Indices: 58679088--58679303 Score: 423
Period size: 109 Copynumber: 2.0 Consensus size: 109
58679078 TAGAGAACAT
*
58679088 AAATGATCAATATTGGACATTACGTGCAGAGGAGGTAAGGCTCTTTGTCCTCCAAACGTGTCCCA
1 AAATGATCAATATTGGACATTACGTGCAGAGGAGGTAAGGCTCTTTGTCCTCCAAACATGTCCCA
58679153 ATTTGTATTTATACAGTATACCAATCTTAATTCTTGTAAATTGC
66 ATTTGTATTTATACAGTATACCAATCTTAATTCTTGTAAATTGC
58679197 AAATGATCAATATTGGACATTACGTGCAGAGGAGGTAAGGCTCTTTGTCCTCCAAACATGTCCCA
1 AAATGATCAATATTGGACATTACGTGCAGAGGAGGTAAGGCTCTTTGTCCTCCAAACATGTCCCA
58679262 ATTTGTATTTATACAGTATACCAATCTTAATTCTTGTAAATT
66 ATTTGTATTTATACAGTATACCAATCTTAATTCTTGTAAATT
58679304 TTACATTCTA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 106 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (109 bp):
AAATGATCAATATTGGACATTACGTGCAGAGGAGGTAAGGCTCTTTGTCCTCCAAACATGTCCCA
ATTTGTATTTATACAGTATACCAATCTTAATTCTTGTAAATTGC
Found at i:58683522 original size:23 final size:24
Alignment explanation
Indices: 58683496--58683542 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
58683486 TATAATAGTT
* *
58683496 TAGGTATTTAAGTGAG-GAAAAAA
1 TAGGTACTGAAGTGAGTGAAAAAA
*
58683519 TAGGTACTGCAGTGAGTGAAAAAA
1 TAGGTACTGAAGTGAGTGAAAAAA
58683543 CCTATATTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.45, C:0.04, G:0.28, T:0.23
Consensus pattern (24 bp):
TAGGTACTGAAGTGAGTGAAAAAA
Found at i:58689793 original size:15 final size:16
Alignment explanation
Indices: 58689768--58689799 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
58689758 TATCTCACAC
58689768 TCATCTTCTTTTTCTT
1 TCATCTTCTTTTTCTT
58689784 TCAT-TTCTTTTTCTT
1 TCATCTTCTTTTTCTT
58689799 T
1 T
58689800 TTCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TCATCTTCTTTTTCTT
Found at i:58697277 original size:28 final size:28
Alignment explanation
Indices: 58697234--58697288 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
58697224 ATGATGTTCA
*
58697234 TATTTGTACATTTTTCGCTCATTATTTT
1 TATTTGTACATCTTTCGCTCATTATTTT
* *
58697262 TATTTGTTCATCTTTCGCTCGTTATTT
1 TATTTGTACATCTTTCGCTCATTATTT
58697289 ATACATATTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.15, C:0.16, G:0.09, T:0.60
Consensus pattern (28 bp):
TATTTGTACATCTTTCGCTCATTATTTT
Found at i:58698985 original size:14 final size:14
Alignment explanation
Indices: 58698966--58698999 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
58698956 CAAGGTTTTT
*
58698966 GTTTGGGGTTACGA
1 GTTTGGGGTTACAA
58698980 GTTTGGGGTTACAA
1 GTTTGGGGTTACAA
58698994 GTTTGG
1 GTTTGG
58699000 ATTCAAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.06, G:0.41, T:0.38
Consensus pattern (14 bp):
GTTTGGGGTTACAA
Found at i:58700884 original size:6 final size:6
Alignment explanation
Indices: 58700875--58700911 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
58700865 TCTATTTCTA
58700875 AAAAAT AAAAAAT AAAAAGT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAA-T AAAAAT AAAAAT AAAAA
58700912 ATATTTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:58700885 original size:7 final size:7
Alignment explanation
Indices: 58700873--58700914 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
58700863 TTTCTATTTC
58700873 TAAAAAA
1 TAAAAAA
58700880 TAAAAAA
1 TAAAAAA
*
58700887 TAAAAAG
1 TAAAAAA
58700894 T-AAAAA
1 TAAAAAA
58700900 T-AAAAA
1 TAAAAAA
58700906 TAAAAAA
1 TAAAAAA
58700913 TA
1 TA
58700915 TTTTCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 11 0.34
7 21 0.66
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:58700912 original size:13 final size:13
Alignment explanation
Indices: 58700875--58700914 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
58700865 TCTATTTCTA
58700875 AAAAATAAAAAAT
1 AAAAATAAAAAAT
58700888 AAAAAGT-AAAAAT
1 AAAAA-TAAAAAAT
58700901 AAAAATAAAAAAT
1 AAAAATAAAAAAT
58700914 A
1 A
58700915 TTTTCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:58701897 original size:20 final size:20
Alignment explanation
Indices: 58701852--58701899 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
58701842 CAAGCTGACT
* *
58701852 TCAGCTCAATTTCAGCTCCC
1 TCAGCTCAATTTCAACTCCA
*
58701872 TTAGCTCAA-TTCAACTCCAA
1 TCAGCTCAATTTCAACTCC-A
58701892 TCAGCTCA
1 TCAGCTCA
58701900 CTTGAGCTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.27, C:0.35, G:0.08, T:0.29
Consensus pattern (20 bp):
TCAGCTCAATTTCAACTCCA
Found at i:58703330 original size:3 final size:3
Alignment explanation
Indices: 58703316--58703350 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
58703306 TAAATAAAAC
*
58703316 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
58703351 AACGTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:58703544 original size:3 final size:3
Alignment explanation
Indices: 58703538--58703566 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
58703528 GAAATAATAA
58703538 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
58703567 ATAATAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:58703604 original size:23 final size:23
Alignment explanation
Indices: 58703565--58703608 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
58703555 CTACTACTAC
58703565 TAATAATAATAATAATAATAAGG
1 TAATAATAATAATAATAATAAGG
*
58703588 TAATAATTAATTA-AATAATAA
1 TAATAA-TAATAATAATAATAA
58703609 AATTGCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (23 bp):
TAATAATAATAATAATAATAAGG
Found at i:58705041 original size:88 final size:91
Alignment explanation
Indices: 58704974--58705146 Score: 226
Period size: 91 Copynumber: 1.9 Consensus size: 91
58704964 CTTCTTTGTA
* * *
58704974 GCAACTTCAGGGGGACGAGATTCG-TG-G-TTTTAGTCTACTCCACTGCAACGTTAGTGAGATAA
1 GCAACTTCAGGGGGACAAGATTCGATGTGATTTTAGTCTACTCCACTGCAACGTCAGGGAGATAA
* *
58705036 GACTTGTAACTTCAACCTGCCCCACT
66 GACTTGTAGCTTCAATCTGCCCCACT
* * * *
58705062 GCGACTTCAGGGGGATAAGATTGGATGTGATTTTAGTTTACTCCACTGCAACGTCAGGGAGATAA
1 GCAACTTCAGGGGGACAAGATTCGATGTGATTTTAGTCTACTCCACTGCAACGTCAGGGAGATAA
* *
58705127 GACTTGTGGCTTAAATCTGC
66 GACTTGTAGCTTCAATCTGC
58705147 TTCCTACTAT
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
88 20 0.28
89 2 0.03
90 1 0.01
91 48 0.68
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (91 bp):
GCAACTTCAGGGGGACAAGATTCGATGTGATTTTAGTCTACTCCACTGCAACGTCAGGGAGATAA
GACTTGTAGCTTCAATCTGCCCCACT
Found at i:58705394 original size:87 final size:86
Alignment explanation
Indices: 58705292--58707054 Score: 2357
Period size: 87 Copynumber: 20.2 Consensus size: 86
58705282 CTGCCAAATA
* * *
58705292 CAGGAAGACAAGATCTGTTATCTTTAACCAACTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTGTT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
58705357 TCGATCTGCTTCGCTGTTAATG
65 TCGATCTGCTTCGCTGTTAATG
* *
58705379 CATGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTGTT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
*
58705444 TCGATCTGCTTCGCTGTTAACG
65 TCGATCTGCTTCGCTGTTAATG
* * *
58705466 CAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCT-GTTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
* * *
58705531 TCGATCTGCTTTGATGCTAATG
65 TCGATCTGCTTCGCTGTTAATG
** * *
58705553 CAGGAAGGCAAGATCTGCGATATTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTG-TTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
*
58705618 TCGATATGCTTCGCTGTTAATG
65 TCGATCTGCTTCGCTGTTAATG
* *
58705640 CATGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTGTT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
*
58705705 TCGATCTGCTTCGCTGTTAACG
65 TCGATCTGCTTCGCTGTTAATG
* *
58705727 CAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTT
1 CAGGAAGGCAAGATCTGTT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
* *
58705792 TCGATCTGCTTTGCTGTTAACG
65 TCGATCTGCTTCGCTGTTAATG
** *
58705814 CAGGAAGGCAAGATCTGCGATATTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTG-TTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
58705879 TCGATCTGCTTCGCTGTTAATG
65 TCGATCTGCTTCGCTGTTAATG
*
58705901 CATGAAGGCAAGATCTGCTTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTG-TTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
58705966 TCGATCTGCTTCGCTGTTAATG
65 TCGATCTGCTTCGCTGTTAATG
*
58705988 CATGAAGGCAAGATCTGCTTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTG-TTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
58706053 TCGATCTGCTTCGCTGTTAATG
65 TCGATCTGCTTCGCTGTTAATG
* * *
58706075 CAGGAAGGCAAGATTTGCTTTCTTTAACCAGCTCCACTGCAACCGATGAAGGCAAGGCTTTGTTT
1 CAGGAAGGCAAGATCTG-TTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
*
58706140 TCGATCTGCTTGGCTGTTAATG
65 TCGATCTGCTTCGCTGTTAATG
* * *
58706162 CAGGAAGGCAAGACCTGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGACTTTGTTTT
1 CAGGAAGGCAAGATCTGTTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
58706227 CGATCTGCTTCGCT-TTCAATG
66 CGATCTGCTTCGCTGTT-AATG
* * * * *
58706248 CATGAAGGCAAGATCTACTTTTTTTAACCAGCTCCACTACAACCGATAGAGGCAAGGCTTTGCTT
1 CAGGAAGGCAAGATCT-GTTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
58706313 TCGATCTGCTTCGCTGTTAATG
65 TCGATCTGCTTCGCTGTTAATG
* * *
58706335 CAGGAAGGCAAGATCTGCTTTCTTTAACCAGCTTCACTACAACCTATGGAGGCAAGCCTTTGTTT
1 CAGGAAGGCAAGATCTG-TTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTT
58706400 TCGATCTGCTTCGCTGTTAATG
65 TCGATCTGCTTCGCTGTTAATG
* * * **
58706422 CAGGAATGCAAGATATGCTTCTTTAACCAGCTCCACTACAACCGATGGAGGTGAGGCTTTGTTTT
1 CAGGAAGGCAAGATCTGTTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
*
58706487 CGATCTGCTTCGCTGTTAATA
66 CGATCTGCTTCGCTGTTAATG
* * *
58706508 CATGAAGGCAAGATCTGCTTTCTTTAACCAGCTCCACCACAACCGAGGGAGGCAAGG-TTTGTGT
1 CAGGAAGGCAAGATCTG-TTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGT-T
* *
58706572 CTTCGATCTGCTTCACTGTCAATG
64 -TTCGATCTGCTTCGCTGTTAATG
* * *
58706596 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATTACAACTGA-GAGAGGCAAGG-TTTGTG
1 CAGGAAGGCAAGATCTGTT-TCTTTAACCAGCTCCACTACAACCGATG-GAGGCAAGGCTTTGT-
* * *
58706659 TCTCCGACCTGCTTCGCTGTCAATG
63 T-TTCGATCTGCTTCGCTGTTAATG
* * *
58706684 CAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTTCA-TCACAACCGA-GAGAGGCAAGG-TTTGT
1 CAGGAAGGCAAGATCTGTT-TCTTTAACCAGCTCCACT-ACAACCGATG-GAGGCAAGGCTTTGT
*
58706746 GTCTTCGATCTGCTTCGCTGTCAATG
63 -T-TTCGATCTGCTTCGCTGTTAATG
* * *
58706772 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCA-TCATAACCGA-GAGAGGTAAGG-TTTGT
1 CAGGAAGGCAAGATCTGTT-TCTTTAACCAGCTCCACT-ACAACCGATG-GAGGCAAGGCTTTGT
* *
58706834 GTCTTCGACCTGCTTCGCTGTCAATG
63 -T-TTCGATCTGCTTCGCTGTTAATG
* * * *
58706860 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACCACAGCCGAGGGAGGCAAGG-TTTGTGT
1 CAGGAAGGCAAGATCTGTT-TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGT-T
*
58706924 CTTCGATCTGCTTCGCTGTCAATG
64 -TTCGATCTGCTTCGCTGTTAATG
** *
58706948 CAGGAATACAAGATCTGTTGTCTTCAACCAGCTCCA-TCACAACCGA-GAGAGGCAAGG-TTTGT
1 CAGGAAGGCAAGATCTGTT-TCTTTAACCAGCTCCACT-ACAACCGATG-GAGGCAAGGCTTTGT
* * *
58707010 GTCTTCGAACTGCTTCGCTGTCAAGG
63 -T-TTCGATCTGCTTCGCTGTTAATG
58707036 CAGGAAGGCAAGATCTGTT
1 CAGGAAGGCAAGATCTGTT
58707055 ATATTCACTG
Statistics
Matches: 1541, Mismatches: 117, Indels: 35
0.91 0.07 0.02
Matches are distributed among these distances:
85 2 0.00
86 156 0.10
87 944 0.61
88 438 0.28
89 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (86 bp):
CAGGAAGGCAAGATCTGTTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAATG
Found at i:58706128 original size:44 final size:44
Alignment explanation
Indices: 58705902--58706130 Score: 123
Period size: 44 Copynumber: 5.2 Consensus size: 44
58705892 CTGTTAATGC
* *
58705902 ATGAAGGCAAGATCTGCTTTCTTTAACCAGCTCCACTACAACCG
1 ATGAAGGCAAGATTTGCTTTCTTTAACCAGCTCCACTGCAACCG
* * ** * * * * * *
58705946 ATGGAGGCAAGGCTTTG--TT-TTCGATCTGCTTCGCTGTTAA-TG
1 ATGAAGGCAA-GATTTGCTTTCTTTAACCAGCTCCACTG-CAACCG
* *
58705988 CATGAAGGCAAGATCTGCTTTCTTTAACCAGCTCCACTACAACCG
1 -ATGAAGGCAAGATTTGCTTTCTTTAACCAGCTCCACTGCAACCG
* * ** * * * * * *
58706033 ATGGAGGCAAGGCTTTG--TT-TTCGATCTGCTTCGCTGTTAA-TG
1 ATGAAGGCAA-GATTTGCTTTCTTTAACCAGCTCCACTG-CAACCG
*
58706075 CAGGAAGGCAAGATTTGCTTTCTTTAACCAGCTCCACTGCAACCG
1 -ATGAAGGCAAGATTTGCTTTCTTTAACCAGCTCCACTGCAACCG
58706120 ATGAAGGCAAG
1 ATGAAGGCAAG
58706131 GCTTTGTTTT
Statistics
Matches: 123, Mismatches: 48, Indels: 28
0.62 0.24 0.14
Matches are distributed among these distances:
42 31 0.25
43 25 0.20
44 36 0.29
45 31 0.25
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
ATGAAGGCAAGATTTGCTTTCTTTAACCAGCTCCACTGCAACCG
Found at i:58708321 original size:24 final size:24
Alignment explanation
Indices: 58708281--58708326 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
58708271 ATTTTTACTC
*
58708281 TTTCATTTTTTCATTTTTTTTTCA
1 TTTCATTTTTTCATTTTGTTTTCA
**
58708305 TTTCATTTTTTTGTTTTGTTTT
1 TTTCATTTTTTCATTTTGTTTT
58708327 GTTTTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (24 bp):
TTTCATTTTTTCATTTTGTTTTCA
Found at i:58710450 original size:15 final size:15
Alignment explanation
Indices: 58710430--58710459 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
58710420 AATATTCTCT
*
58710430 AATGCATGTAATGCG
1 AATGCATGAAATGCG
58710445 AATGCATGAAATGCG
1 AATGCATGAAATGCG
58710460 TGCCTACAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (15 bp):
AATGCATGAAATGCG
Found at i:58712378 original size:3 final size:3
Alignment explanation
Indices: 58712370--58712410 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
58712360 TAAATAAAAC
58712370 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
58712411 AACGTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:58712687 original size:26 final size:24
Alignment explanation
Indices: 58712638--58712687 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
58712628 GGGACTAAAT
*
58712638 CGAAATAAAAATAAAAAAATGAGG
1 CGAAATAAAAATAAAAAAAGGAGG
*
58712662 CGAAATCAAAATAATAAAAAAGGAGG
1 CGAAATAAAAAT-A-AAAAAAGGAGG
58712688 GATTGATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 1 0.05
26 10 0.45
ACGTcount: A:0.64, C:0.06, G:0.18, T:0.12
Consensus pattern (24 bp):
CGAAATAAAAATAAAAAAAGGAGG
Found at i:58713330 original size:15 final size:15
Alignment explanation
Indices: 58713293--58713331 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
58713283 TATTGTTTCG
*
58713293 AAATAAAAAAATCAA
1 AAATAAAAAAAACAA
* *
58713308 GAAGAAAAAAAACAA
1 AAATAAAAAAAACAA
58713323 AAATAAAAA
1 AAATAAAAA
58713332 TAAGAAAGCA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (15 bp):
AAATAAAAAAAACAA
Found at i:58715055 original size:6 final size:6
Alignment explanation
Indices: 58715046--58715082 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
58715036 TCTATTTCTA
58715046 AAAAAT AAAAAAT AAAAAGT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAA-T AAAAAT AAAAAT AAAAA
58715083 ATATTTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:58715056 original size:7 final size:7
Alignment explanation
Indices: 58715044--58715085 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
58715034 TTTCTATTTC
58715044 TAAAAAA
1 TAAAAAA
58715051 TAAAAAA
1 TAAAAAA
*
58715058 TAAAAAG
1 TAAAAAA
58715065 T-AAAAA
1 TAAAAAA
58715071 T-AAAAA
1 TAAAAAA
58715077 TAAAAAA
1 TAAAAAA
58715084 TA
1 TA
58715086 TTTTCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 11 0.34
7 21 0.66
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:58715083 original size:13 final size:13
Alignment explanation
Indices: 58715046--58715085 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
58715036 TCTATTTCTA
58715046 AAAAATAAAAAAT
1 AAAAATAAAAAAT
58715059 AAAAAGT-AAAAAT
1 AAAAA-TAAAAAAT
58715072 AAAAATAAAAAAT
1 AAAAATAAAAAAT
58715085 A
1 A
58715086 TTTTCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 23 0.92
14 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:58716663 original size:13 final size:12
Alignment explanation
Indices: 58716645--58716694 Score: 57
Period size: 13 Copynumber: 4.0 Consensus size: 12
58716635 TAATTTGATG
58716645 AATTGAATTTATT
1 AATTG-ATTTATT
*
58716658 AATTGATTTGATC
1 AATTGATTT-ATT
58716671 AATTGATTCTATT
1 AATTGATT-TATT
58716684 AATT-ATTTATT
1 AATTGATTTATT
58716695 TAAAAGTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 4 0.12
12 7 0.21
13 21 0.64
14 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (12 bp):
AATTGATTTATT
Found at i:58716666 original size:26 final size:25
Alignment explanation
Indices: 58716637--58716691 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
58716627 GTAGTATTTA
*
58716637 ATTTGATGAATTGAATT-TATTAATT
1 ATTTGATCAATTG-ATTCTATTAATT
58716662 GATTTGATCAATTGATTCTATTAATT
1 -ATTTGATCAATTGATTCTATTAATT
58716688 ATTT
1 ATTT
58716692 ATTTAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.53
Consensus pattern (25 bp):
ATTTGATCAATTGATTCTATTAATT
Found at i:58718726 original size:27 final size:28
Alignment explanation
Indices: 58718696--58718754 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
58718686 TTTTTGTCAA
*
58718696 AATTCACACTTTAATTA-TAAAATAATT
1 AATTCACACTTAAATTATTAAAATAATT
** * *
58718723 AATTTGCACTTAAATTATTAACATATTT
1 AATTCACACTTAAATTATTAAAATAATT
58718751 AATT
1 AATT
58718755 TTAATTATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (28 bp):
AATTCACACTTAAATTATTAAAATAATT
Found at i:58720828 original size:13 final size:13
Alignment explanation
Indices: 58720810--58720834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58720800 GAGATGATGA
58720810 TTTTTTCTAAATT
1 TTTTTTCTAAATT
58720823 TTTTTTCTAAAT
1 TTTTTTCTAAAT
58720835 AAGGCAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTTCTAAATT
Found at i:58722668 original size:19 final size:19
Alignment explanation
Indices: 58722644--58722690 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
58722634 AATGTCTCTT
*
58722644 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
58722663 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
58722682 TATGCATTA
1 TTTGCATTA
58722691 GATTTTCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:58725556 original size:6 final size:6
Alignment explanation
Indices: 58725545--58725633 Score: 67
Period size: 6 Copynumber: 14.7 Consensus size: 6
58725535 AAAAGAGAGA
* * * *
58725545 AAAAAG AAAAAG AAGGAAA- TAGAAG AAAAAAG AAAGAAG AAGAA- TAAAAG
1 AAAAAG AAAAAG AA--AAAG AAAAAG A-AAAAG AAA-AAG AAAAAG AAAAAG
* *
58725595 AAAAAG -AAAAG GAAAAG AAAAAG AAAAAG TAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
58725634 TGAGAGGCCA
Statistics
Matches: 65, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
5 10 0.15
6 41 0.63
7 11 0.17
8 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:58725556 original size:17 final size:16
Alignment explanation
Indices: 58725545--58725633 Score: 74
Period size: 17 Copynumber: 5.2 Consensus size: 16
58725535 AAAAGAGAGA
*
58725545 AAAAAGAA-AAAGAAGG
1 AAAAAGAAGAAA-AAAG
*
58725561 AAATAGAAGAAAAAAG
1 AAAAAGAAGAAAAAAG
58725577 AAAGAAGAAGAATAAAAG
1 AAA-AAGAAGAA-AAAAG
58725595 AAAAAGAA-AAGGAAAAG
1 AAAAAGAAGAA--AAAAG
*
58725612 AAAAAGAAAAAGTAAAAG
1 AAAAAGAAGAA--AAAAG
58725630 AAAA
1 AAAA
58725634 TGAGAGGCCA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
16 15 0.24
17 28 0.44
18 20 0.32
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.03
Consensus pattern (16 bp):
AAAAAGAAGAAAAAAG
Found at i:58725633 original size:18 final size:18
Alignment explanation
Indices: 58725572--58725633 Score: 83
Period size: 18 Copynumber: 3.5 Consensus size: 18
58725562 AATAGAAGAA
*
58725572 AAAAGAAAGAAGAAGAA-T
1 AAAAGAAA-AAGAAAAAGT
*
58725590 AAAAGAAAAAG-AAAAGG
1 AAAAGAAAAAGAAAAAGT
58725607 AAAAGAAAAAGAAAAAGT
1 AAAAGAAAAAGAAAAAGT
58725625 AAAAGAAAA
1 AAAAGAAAA
58725634 TGAGAGGCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
16 3 0.08
17 14 0.36
18 22 0.56
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAAGT
Found at i:58727844 original size:89 final size:89
Alignment explanation
Indices: 58726957--58727832 Score: 1115
Period size: 89 Copynumber: 9.8 Consensus size: 89
58726947 CTAAAAACAA
* * * * * *
58726957 CAGATCTTGCCTTCCTGTACTGACGGCAAAGCAGAAT-GAAGACATCAGCCTTGCCTTCGTGTAT
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAG-ATCGAAGACACCAGCCTTGCCTTCCTGTAC
58727021 TGACAGCGGAGCAGACTGAAGATAG
65 TGACAGCGGAGCAGACTGAAGATAG
* * * *
58727046 CAGATATTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTTCCTGTACT
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
58727111 GACAGCGGAGCAGACTGAAGATAG
66 GACAGCGGAGCAGACTGAAGATAG
* ** * * *
58727135 CAGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATTGAAGACACTAGCCTTGCCTTCCTATACT
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
*
58727200 GACAGCAGAGCAGACTGAAGATAG
66 GACAGCGGAGCAGACTGAAGATAG
* * * *
58727224 CAGATCTTGCCTTCATGTACTAACAGAGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
* *
58727289 GACAGCGAAGCAGACTGAAGATAA
66 GACAGCGGAGCAGACTGAAGATAG
* *
58727313 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGTCTTGCATTCCTGTACT
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
*
58727378 GACAGCGGAGCAGGCTGAAGATAG
66 GACAGCGGAGCAGACTGAAGATAG
* * * * *
58727402 AAGATCTTGCCTTCTTGTACTGACGGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACC
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
*
58727467 GACAGCGGAGTAGACTGAAGATAG
66 GACAGCGGAGCAGACTGAAGATAG
* * *
58727491 CAGATCTTGCCTTCCTATACTGACAGAGAAACAGATCGAAGACACCAGTCTTGCCTTCCTGTACT
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
*
58727556 GACAGCGAAGCAGACTGAAGATAG
66 GACAGCGGAGCAGACTGAAGATAG
* ** * ** **
58727580 TAGATCTTGTTTTCCTATACTGACAGCGAAGCAGATCAAAGACACCAGTTTTGCCTTTTTGTACT
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
* * *
58727645 AACAACGGAGCAGACTAAAGATAG
66 GACAGCGGAGCAGACTGAAGATAG
* * * * * * * * * * *
58727669 TAGATCTTGCTTTCTTATACTGACGGCGAAACAGATCAAAGACACCATCCTTACATTCCTTTACA
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
* *
58727734 GACGGCAGAGCAGACTGAAGATAG
66 GACAGCGGAGCAGACTGAAGATAG
* * *** * * *
58727758 CAGATCTTGCCTTCCTATACCGACAGTGAATTGGATCGAAAACACCGGCCTTGCCTTCTTGTACT
1 CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
*
58727823 GACAGTGGAG
66 GACAGCGGAG
58727833 TAGGTTGAAG
Statistics
Matches: 680, Mismatches: 106, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
88 2 0.00
89 678 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (89 bp):
CAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTACT
GACAGCGGAGCAGACTGAAGATAG
Found at i:58728150 original size:43 final size:42
Alignment explanation
Indices: 58727826--58728151 Score: 146
Period size: 44 Copynumber: 7.5 Consensus size: 42
58727816 TTGTACTGAC
* * *
58727826 AGTGGAGTAGGTTGAAGATTGCAAATTCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATTGAAGATTG--AATTCTGTCTCCCTAAGCAGT
* *
58727870 AGTGGAGCAGATCGAAGATGGTGAA-TCTTATCTTCCC-AAG-A-T
1 AGTGGAGCAGATTGAAGAT--TGAATTC-TGTC-TCCCTAAGCAGT
* * * * * *
58727912 AATGGAGAAGTAGATTTAAGCCATT-AGTCCTATCTCCCTAAGCAGT
1 AGT-G-G-AGCAGATTGAAG--ATTGAATTCTGTCTCCCTAAGCAGT
* * * * *
58727958 AGTGGAGTAGGTTGAAAATTGCAGATTTTGTCTCCCTAAGTAGT
1 AGTGGAGCAGATTGAAGATTG-A-ATTCTGTCTCCCTAAGCAGT
* * * *
58728002 AGTGGAGCAGATCGAAGATAGTGAA-TCT-TATCTTCTCAAGATAGT
1 AGTGGAGCAGATTGAAGAT--TGAATTCTGTCTC-CCT-AAG-CAGT
* * * * * *
58728047 AGAGAAGCAGATTTAAGCCATT-AGTCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATTGAAG--ATTGAATTCTGTCTCCCTAAGCAGT
* *
58728090 AGTGGAGTAGGTTGAAGATTGCAATTCTGTCTCCCTAAGCAGT
1 AGTGGAGCAGATTGAAGATTG-AATTCTGTCTCCCTAAGCAGT
*
58728133 AGTGGAGCAGATCGAAGAT
1 AGTGGAGCAGATTGAAGAT
58728152 GGTGAATCTT
Statistics
Matches: 210, Mismatches: 45, Indels: 55
0.68 0.15 0.18
Matches are distributed among these distances:
41 6 0.03
42 6 0.03
43 71 0.34
44 73 0.35
45 40 0.19
46 10 0.05
47 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
AGTGGAGCAGATTGAAGATTGAATTCTGTCTCCCTAAGCAGT
Found at i:58728183 original size:131 final size:132
Alignment explanation
Indices: 58727826--58728309 Score: 747
Period size: 132 Copynumber: 3.7 Consensus size: 132
58727816 TTGTACTGAC
* *
58727826 AGTGGAGTAGGTTGAAGATTGCAAATTCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
1 AGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
* *
58727891 TGAATCTTATCTTCCCAAGATAATGGAGAAGTAGATTTAAGCCATTAGTCCTATCTCCCTAAGCA
66 TGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCA
58727956 GT
131 GT
* * * *
58727958 AGTGGAGTAGGTTGAAAATTGCAGATTTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGATAG
1 AGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
* *
58728023 TGAATCTTATCTTCTCAAGATAGTAGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCA
66 TGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCA
58728088 GT
131 GT
58728090 AGTGGAGTAGGTTGAAGATTGCA-ATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
1 AGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
* * ** *
58728154 TGAATCTTATCTTCTCAAGATAGTGGAGAAGCAGATTTAAGTCATTAGTTATATCTCCCTGAGCA
66 TGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCA
*
58728219 GC
131 GT
* * * **
58728221 AGTGGAGTAAGTTGAAGATTGCAGA-TCTTGTCTCCTTAAGCAGTATTGGAGCAGATAAAAGATG
1 AGTGGAGTAGGTTGAAGATTGCAGATTC-TGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
*
58728285 GTGAATCTTATCTTCCCAAGGTAGT
65 GTGAATCTTATCTTCCCAAGATAGT
58728310 AGGGAAGTAA
Statistics
Matches: 323, Mismatches: 27, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
131 123 0.38
132 200 0.62
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (132 bp):
AGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGG
TGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCTCCCTAAGCA
GT
Found at i:58728533 original size:88 final size:87
Alignment explanation
Indices: 58728434--58728620 Score: 286
Period size: 88 Copynumber: 2.1 Consensus size: 87
58728424 TCTAATCTCC
* *
58728434 CTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTTTTCCCCCTAAAGTTGTTACGAAGGAGA
1 CTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTCTTCCCCCTAAAGTTGTTACGAAGAAGA
58728499 TTGAAGTTACAAGTCATATCTA
66 TTGAAGTTACAAGTCATATCTA
* * * *
58728521 TCTGAAGTTGCAGTGGAGCAGGCTAAAACCACAAATCTCTTCCCCTTGAAGTTGTTGCGAAGAAG
1 -CTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTCTTCCCCCTAAAGTTGTTACGAAGAAG
*
58728586 ATTGCAGTTACAAGTCATATCTA
65 ATTGAAGTTACAAGTCATATCTA
58728609 CTTGAAG-TGCAG
1 C-TGAAGTTGCAG
58728621 AAGAGTGGAT
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
87 6 0.07
88 85 0.93
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (87 bp):
CTGAAGTTGCAGTGGAGCAGACTAAAACCACAAATCTCTTCCCCCTAAAGTTGTTACGAAGAAGA
TTGAAGTTACAAGTCATATCTA
Done.