Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 191 of 345
Found at i:54316323 original size:39 final size:40
Alignment explanation
Indices: 54316077--54316300 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
54316067 TATTCGAATG
* *
54316077 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
54316118 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
54316158 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
54316198 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
54316238 ATATCCGGGCTAAG-TCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
54316277 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54316301 CTTGTGCAAG
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 36 0.22
40 95 0.59
41 29 0.18
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:54319480 original size:7 final size:7
Alignment explanation
Indices: 54319468--54319492 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
54319458 GTTGTCTTCT
54319468 TGTTTGA
1 TGTTTGA
54319475 TGTTTGA
1 TGTTTGA
54319482 TGTTTGA
1 TGTTTGA
54319489 TGTT
1 TGTT
54319493 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:54321129 original size:21 final size:21
Alignment explanation
Indices: 54321105--54321144 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
54321095 GAATAAAATA
54321105 ATGAAAAAAAAAAAGGAAAGT
1 ATGAAAAAAAAAAAGGAAAGT
** *
54321126 ATGATGAAAACAAAGGAAA
1 ATGAAAAAAAAAAAGGAAA
54321145 AAAAAAAGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.20, T:0.10
Consensus pattern (21 bp):
ATGAAAAAAAAAAAGGAAAGT
Found at i:54322313 original size:27 final size:28
Alignment explanation
Indices: 54322257--54322326 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
54322247 AAATTTGTAC
54322257 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
54322285 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
54322312 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54322327 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:54324029 original size:27 final size:27
Alignment explanation
Indices: 54323999--54324102 Score: 163
Period size: 27 Copynumber: 3.9 Consensus size: 27
54323989 CATATATCAC
* * *
54323999 ATAAGGGCAAAACAATCATCTTACCAT
1 ATAAGGGCAAAATAGTCATTTTACCAT
54324026 ATAAGGGCAAAATAGTCATTTTACCAT
1 ATAAGGGCAAAATAGTCATTTTACCAT
* *
54324053 ATAAGGGAAAAATAGTCATTTTACCAC
1 ATAAGGGCAAAATAGTCATTTTACCAT
54324080 ATAAGGGCAAAATAGTCATTTTA
1 ATAAGGGCAAAATAGTCATTTTA
54324103 TCAATATGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.27
Consensus pattern (27 bp):
ATAAGGGCAAAATAGTCATTTTACCAT
Found at i:54326193 original size:19 final size:19
Alignment explanation
Indices: 54326169--54326206 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
54326159 AGGACCTCGA
54326169 TGGGCCAAAATGGGC-CGTG
1 TGGGCC-AAATGGGCTCGTG
*
54326188 TGGGCCTAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
54326207 GGCTCCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.16, C:0.21, G:0.42, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:54326855 original size:21 final size:20
Alignment explanation
Indices: 54326831--54326871 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
54326821 TATCCCCATA
54326831 TGGTGTGTTGGTCGGTACGGG
1 TGGTGTGTTGGTCGG-ACGGG
*
54326852 TGGTGTGTTGGTTGGACGGG
1 TGGTGTGTTGGTCGGACGGG
54326872 GCTGGGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.05, C:0.07, G:0.54, T:0.34
Consensus pattern (20 bp):
TGGTGTGTTGGTCGGACGGG
Found at i:54329830 original size:26 final size:25
Alignment explanation
Indices: 54329797--54329884 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 25
54329787 AAAGAAAAAT
54329797 ACAGTCATACATCACATAAGGGCAAA
1 ACAGTCAT-CATCACATAAGGGCAAA
* *
54329823 ACAGTCATCTTGCCATATAAGGGCAAA
1 ACAGTCATCAT--CACATAAGGGCAAA
* * * *
54329850 ATAGTTATTTTACCACATAAGGGCAAA
1 ACAGTCA--TCATCACATAAGGGCAAA
54329877 ACAGTCAT
1 ACAGTCAT
54329885 TTGATCAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
25 3 0.06
26 8 0.17
27 36 0.75
29 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (25 bp):
ACAGTCATCATCACATAAGGGCAAA
Found at i:54329886 original size:27 final size:27
Alignment explanation
Indices: 54329809--54329886 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
54329799 AGTCATACAT
* *
54329809 CACATAAGGGCAAAACAGTCATCTTGC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
54329836 CATATAAGGGCAAAATAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
54329863 CACATAAGGGCAAAACAGTCATTT
1 CACATAAGGGCAAAACAGTCATTT
54329887 GATCAATCTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:54339779 original size:26 final size:26
Alignment explanation
Indices: 54339750--54339802 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
54339740 GACTTAAGGC
54339750 ATTGTTTGGTGTACACCTAGATCCAA
1 ATTGTTTGGTGTACACCTAGATCCAA
54339776 ATTGTTTGGTGTACACCTAGATCCAA
1 ATTGTTTGGTGTACACCTAGATCCAA
54339802 A
1 A
54339803 AAGCTAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (26 bp):
ATTGTTTGGTGTACACCTAGATCCAA
Found at i:54349889 original size:39 final size:40
Alignment explanation
Indices: 54349740--54349996 Score: 298
Period size: 40 Copynumber: 6.5 Consensus size: 40
54349730 TGGATGATAA
* * *
54349740 CCGGGCTAAGTCCTGAAGGCATTT-TGCTCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTG--CGAGTTACTA-TAT
* *
54349781 -CGGGCTAAGTCCCAAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
54349821 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54349861 CCGGGCTAAGTCCC-AAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54349900 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54349940 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54349979 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54349997 TACTTGGCTT
Statistics
Matches: 197, Mismatches: 12, Indels: 17
0.87 0.05 0.08
Matches are distributed among these distances:
38 16 0.08
39 55 0.28
40 100 0.51
41 22 0.11
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54349928 original size:79 final size:80
Alignment explanation
Indices: 54349781--54349996 Score: 291
Period size: 79 Copynumber: 2.7 Consensus size: 80
54349771 GTGACTAGTT
*
54349781 CGGGCTAAGTCCCAAAGGCATTT-TGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 CGGGCTAAGTCCCAAAGGCATTTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATT
*
54349844 TGTGCGAGTTACTATATC
63 GGTGCGAGTTACTATATC
54349862 CGGGCTAAGTCCC-AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
1 CGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
54349926 GCGAGTTACTATATC
66 GCGAGTTACTATATC
* * * * *
54349941 CGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
54349997 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
78 17 0.14
79 76 0.61
80 15 0.12
81 17 0.14
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTATATC
Found at i:54357839 original size:28 final size:27
Alignment explanation
Indices: 54357776--54357843 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
54357766 ATAGTGAGTC
54357776 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
54357803 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
54357831 CGCACACTTAGTG
1 CGCACACTTAGTG
54357844 TCATTCTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:54366411 original size:40 final size:40
Alignment explanation
Indices: 54366366--54366495 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
54366356 CGGAATATAA
54366366 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
54366406 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
54366446 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
54366486 CCGGATATAA
1 CCGGATATAA
54366496 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:54366510 original size:40 final size:40
Alignment explanation
Indices: 54366382--54366533 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
54366372 ATAAGCATGT
* * *
54366382 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
54366422 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
54366462 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
54366502 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
54366534 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:54366516 original size:80 final size:80
Alignment explanation
Indices: 54366382--54366533 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
54366372 ATAAGCATGT
* *
54366382 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
54366447 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
54366462 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
54366525 CCCGGATAT
64 CCCGGATAT
54366534 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:54368825 original size:28 final size:27
Alignment explanation
Indices: 54368762--54368829 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
54368752 ATAGTGAGTC
54368762 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
54368789 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
54368817 CGCACACTTAGTG
1 CGCACACTTAGTG
54368830 TCATTCTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:54371902 original size:40 final size:40
Alignment explanation
Indices: 54371807--54372063 Score: 355
Period size: 40 Copynumber: 6.5 Consensus size: 40
54371797 TGGATGATAA
*
54371807 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
54371848 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54371888 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54371928 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54371968 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54372008 CCGGGCTATGTCCCGAAGGCA-TTG-ACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54372046 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54372064 TACTTGGCTT
Statistics
Matches: 199, Mismatches: 14, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
37 15 0.08
38 12 0.06
39 2 0.01
40 142 0.71
41 24 0.12
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54372914 original size:12 final size:12
Alignment explanation
Indices: 54372897--54372921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54372887 GAACAGTATA
54372897 TTATGAGATATT
1 TTATGAGATATT
54372909 TTATGAGATATT
1 TTATGAGATATT
54372921 T
1 T
54372922 AAGTTTTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATGAGATATT
Found at i:54373566 original size:56 final size:56
Alignment explanation
Indices: 54373480--54373588 Score: 182
Period size: 56 Copynumber: 1.9 Consensus size: 56
54373470 GTCGTCTGAG
54373480 TTAGAAAAGATTCATAATGTATTTCATATATCAATACTTAGACGATACAGATCTTA
1 TTAGAAAAGATTCATAATGTATTTCATATATCAATACTTAGACGATACAGATCTTA
* * * *
54373536 TTAGAAAATATTCATAGTGTATTTCATATATCAATGCTTAGACGATATAGATC
1 TTAGAAAAGATTCATAATGTATTTCATATATCAATACTTAGACGATACAGATC
54373589 AGATCCTTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (56 bp):
TTAGAAAAGATTCATAATGTATTTCATATATCAATACTTAGACGATACAGATCTTA
Found at i:54381033 original size:56 final size:56
Alignment explanation
Indices: 54380946--54381064 Score: 193
Period size: 56 Copynumber: 2.1 Consensus size: 56
54380936 AGCATTGTCG
*
54380946 TCTGAGTTAGAAAAGATTCATAATGTATTTCATATATCAATACTTAGACGATACATA
1 TCTGA-TTAGAAAAGATTCATAATGTATTTCATATATCAATACTTAGACGATACAGA
* * *
54381003 TCTGATTAGAAAATATTCATAGTGTATTTCATATATCAATGCTTAGACGATACAGA
1 TCTGATTAGAAAAGATTCATAATGTATTTCATATATCAATACTTAGACGATACAGA
54381059 TCTGAT
1 TCTGAT
54381065 CTTTCACATG
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 53 0.91
57 5 0.09
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (56 bp):
TCTGATTAGAAAAGATTCATAATGTATTTCATATATCAATACTTAGACGATACAGA
Found at i:54384517 original size:22 final size:24
Alignment explanation
Indices: 54384483--54384526 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
54384473 ATTGATTTGG
*
54384483 TTTGAGATGATGATAT-GATGAGT
1 TTTGAGATGATGAAATGGATGAGT
*
54384506 TTTGTGAT-ATGAAATGGATGA
1 TTTGAGATGATGAAATGGATGA
54384527 TATTATGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.39
Consensus pattern (24 bp):
TTTGAGATGATGAAATGGATGAGT
Found at i:54385137 original size:11 final size:11
Alignment explanation
Indices: 54385121--54385146 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
54385111 AAGGACGAAA
54385121 TGAACTTTTTG
1 TGAACTTTTTG
54385132 TGAACTTTTTG
1 TGAACTTTTTG
54385143 TGAA
1 TGAA
54385147 TGGTTTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (11 bp):
TGAACTTTTTG
Found at i:54390901 original size:47 final size:47
Alignment explanation
Indices: 54390733--54390901 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
54390723 ACCCATAAGC
* * *
54390733 GAACTCGGACTCAACTCAACGTGTTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAG
* * * *
54390780 GAACTTGGACTCAACTCAACGAGTTCGGA--CGT--TTGCATCCATAAG
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCAG
* **
54390825 TAAACTCAAACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAG
1 -GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAG
* *
54390873 GAACTCGGACTCAACTCAACAAGCTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
54390902 ACTCAAATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 25 0.26
47 50 0.52
48 5 0.05
49 1 0.01
50 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAG
Found at i:54392566 original size:68 final size:65
Alignment explanation
Indices: 54392452--54392713 Score: 224
Period size: 68 Copynumber: 3.9 Consensus size: 65
54392442 TAGATGGAGC
* * * * * *
54392452 GTAGCTAGGTCACATGTATGATGCCGAGTGCACATCATGT-GTACAAGAAAGCTACGAGACACCC
1 GTAGCTAGGTCACATGTGTGAT-ACGAGTG-AC-CCATGTAG-ACAAGAGAGCTACGAGA-AACA
**
54392516 TGTA-
61 TAAAT
* *
54392520 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCACATGTGTGATACGAG-TG-A-CCCATGTAGACAAGAGAGCTACGAGAAACATA
54392585 AAT
63 AAT
* * *
54392588 GTAGCTAGGTCGCATGTGTGATACGAG-GACCCATGTAGACAAGAGAGCTACGTGAAAGATAAAT
1 GTAGCTAGGTCACATGTGTGATACGAGTGACCCATGTAGACAAGAGAGCTACGAGAAACATAAAT
* * * *
54392652 GTAGCTAGGTCGCATGCGTGATTCCAAGTGACGGACACCATGTAGACAAGAGAGCTACGAGA
1 GTAGCTAGGTCACATGTGTGA-TACGAGT----GAC-CCATGTAGACAAGAGAGCTACGAGA
54392714 CAAATCGGCT
Statistics
Matches: 167, Mismatches: 16, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
64 55 0.33
65 5 0.03
66 1 0.01
67 7 0.04
68 70 0.42
69 2 0.01
70 3 0.02
71 24 0.14
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (65 bp):
GTAGCTAGGTCACATGTGTGATACGAGTGACCCATGTAGACAAGAGAGCTACGAGAAACATAAAT
Found at i:54392643 original size:64 final size:64
Alignment explanation
Indices: 54392520--54392710 Score: 256
Period size: 64 Copynumber: 2.8 Consensus size: 64
54392510 ACACCCTGTA
*
54392520 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCGCATGTGTGATACGAG--G-A-CCCATGTAGACAAGAGAGCTACGTGAAAGATA
54392585 AAT
62 AAT
54392588 GTAGCTAGGTCGCATGTGTGATACGAGGACCCATGTAGACAAGAGAGCTACGTGAAAGATAAAT
1 GTAGCTAGGTCGCATGTGTGATACGAGGACCCATGTAGACAAGAGAGCTACGTGAAAGATAAAT
* *
54392652 GTAGCTAGGTCGCATGCGTGATTCCAAGTGACGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGTGTGA-T---A-CGA-GGAC-CCATGTAGACAAGAGAGCTACG
54392711 AGACAAATCG
Statistics
Matches: 113, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
64 55 0.49
65 2 0.02
66 1 0.01
68 27 0.24
69 2 0.02
70 4 0.04
71 22 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (64 bp):
GTAGCTAGGTCGCATGTGTGATACGAGGACCCATGTAGACAAGAGAGCTACGTGAAAGATAAAT
Found at i:54399628 original size:68 final size:68
Alignment explanation
Indices: 54399582--54399779 Score: 263
Period size: 68 Copynumber: 2.9 Consensus size: 68
54399572 ACACCCTGTA
* *
54399582 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGAGAAACATA
54399647 AAT
66 AAT
* *
54399650 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTGAAAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGAGAAACATA
54399715 AAT
66 AAT
* * * * * *
54399718 GTAGCTAGGTCGCATGCGTGATTCCAAGTGACGGA-CACCATGTAGACAAGAGAGCTACGAGA
1 GTAGCTAGGTCACATGTGTGA-T--ACGAGATGTATC-CCATGTAGACAAGAGAGCTACGAGA
54399780 CAAATCGGCT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 87 0.73
69 1 0.01
70 1 0.01
71 30 0.25
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (68 bp):
GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGAGAAACATA
AAT
Found at i:54408393 original size:18 final size:18
Alignment explanation
Indices: 54408356--54408394 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
54408346 TTGGAAATCA
*
54408356 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
54408374 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
54408392 AAA
1 AAA
54408395 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:54409725 original size:18 final size:18
Alignment explanation
Indices: 54409702--54409737 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54409692 TACCTCAAAA
54409702 TAGAATGAATGGGAAGTT
1 TAGAATGAATGGGAAGTT
*
54409720 TAGAATGAATGGTAAGTT
1 TAGAATGAATGGGAAGTT
54409738 AAGTACCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (18 bp):
TAGAATGAATGGGAAGTT
Found at i:54417792 original size:40 final size:40
Alignment explanation
Indices: 54417747--54417876 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
54417737 CGGAATATAA
54417747 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
54417787 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
54417827 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
54417867 CCGGATATAA
1 CCGGATATAA
54417877 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:54417891 original size:40 final size:40
Alignment explanation
Indices: 54417763--54417914 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
54417753 ATAAGCATGT
* * *
54417763 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
54417803 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
54417843 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
54417883 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
54417915 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:54417897 original size:80 final size:80
Alignment explanation
Indices: 54417763--54417914 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
54417753 ATAAGCATGT
* *
54417763 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
54417828 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
54417843 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
54417906 CCCGGATAT
64 CCCGGATAT
54417915 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:54419070 original size:11 final size:11
Alignment explanation
Indices: 54419049--54419079 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
54419039 ACTTAGCCAA
54419049 ATCTCCTTCTAG
1 ATCT-CTTCTAG
54419061 ATCTCTTCTAG
1 ATCTCTTCTAG
54419072 ATCTCTTC
1 ATCTCTTC
54419080 AACCCAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.16, C:0.32, G:0.06, T:0.45
Consensus pattern (11 bp):
ATCTCTTCTAG
Found at i:54425815 original size:40 final size:40
Alignment explanation
Indices: 54425770--54425937 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
54425760 CGGAATATAA
*
54425770 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
54425810 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
54425850 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
54425890 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
54425930 CCGGATAT
1 CCGGATAT
54425938 CATTCAATTT
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 102 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54425920 original size:80 final size:80
Alignment explanation
Indices: 54425786--54425937 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
54425776 ATAAGCATGT
* *
54425786 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
54425851 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
54425866 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
54425929 CCCGGATAT
64 CCCGGATAT
54425938 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:54432785 original size:19 final size:19
Alignment explanation
Indices: 54432761--54432806 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
54432751 CACTTCTCTC
54432761 TCTATCTTATGATTATCAA
1 TCTATCTTATGATTATCAA
54432780 TCTATCTTATGATTATCAA
1 TCTATCTTATGATTATCAA
54432799 TCTATCTT
1 TCTATCTT
54432807 TTTCAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.04, T:0.50
Consensus pattern (19 bp):
TCTATCTTATGATTATCAA
Found at i:54446012 original size:46 final size:44
Alignment explanation
Indices: 54445951--54446114 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 44
54445941 ATATTTGGGC
*
54445951 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* ***** * * *
54445995 ATGTCCGAGCTCTTTGAGTTGAGTCCGAGTTGTGAGATGTAACTACGC
1 A--TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG-GA-TGCGA
* * *
54446043 ATCTGAGCTCGCTGAGTTGAGACCGAGTTCACTTATGGATGCGAA
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* *
54446088 CACCCGAGCTCATTGAGTTGAGTCCGA
1 -ATCCGAGCTCGTTGAGTTGAGTCCGA
54446115 TTTTGCTTAT
Statistics
Matches: 87, Mismatches: 27, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
44 4 0.05
45 1 0.01
46 77 0.89
47 1 0.01
48 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (44 bp):
ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:54446883 original size:20 final size:20
Alignment explanation
Indices: 54446858--54446895 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54446848 GTTTATTCGC
*
54446858 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
54446878 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
54446896 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:54448555 original size:28 final size:28
Alignment explanation
Indices: 54448523--54448591 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
54448513 GCGTAGATCA
54448523 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
54448551 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
54448579 CGATA-TACCCCTA
1 CGAAATTACCCCTA
54448592 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:54454888 original size:20 final size:20
Alignment explanation
Indices: 54454863--54454900 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54454853 GTTTATTCGC
*
54454863 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
54454883 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
54454901 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:54456560 original size:28 final size:28
Alignment explanation
Indices: 54456527--54456595 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
54456517 GCGTAGATCA
54456527 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
54456555 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
54456583 CGATA-TACCCCTA
1 CGAAATTACCCCTA
54456596 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:54469689 original size:201 final size:201
Alignment explanation
Indices: 54469326--54469707 Score: 622
Period size: 201 Copynumber: 1.9 Consensus size: 201
54469316 CTAAGCATCT
*
54469326 GAGCTCGTTGACTTGAGACCGAGTTCACTTATGGATGAGAACGCCTGAGCTCTCATTGAGTTGAG
1 GAGCTCGTTGACTTCAGACCGAGTTCACTTATGGATGAGAACGCCTGAGC-CTCATTGAGTTGAG
* * *
54469391 TCCGATTTTGTTTATGGACGAGTTACATGGTAGCTTGGCTACATATGTGGCACTATGTGCAAACT
65 TCCGAGTTCGCTTATGGACGAGTTACATGGTAGCTTGGCTACATATGTGGCACTATGTGCAAACT
54469456 TTCCATGTATCCAAGTTATATTCCGATGTGTTCAACGGGTAAAATTCTAGTTATATTCTGATGCT
130 TTCCATGTATCCAAGTTATATTCCGATGTGTTCAACGGGTAAAATTCTAGTTATATTCTGATGCT
54469521 AATGTCC
195 AATGTCC
* * * *
54469528 GAGCTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCTGAG-CTCGTTGAGTTGAGT
1 GAGCTCGTTGACTTCAGACCGAGTTCACTTATGGATGAGAACGCCTGAGCCTCATTGAGTTGAGT
* * * *
54469592 TCGAGTTCGCTTATGGGCGGGTTACATGGTATCTTGGCTACATATGTGGCACTTATGTGCAAACT
66 CCGAGTTCGCTTATGGACGAGTTACATGGTAGCTTGGCTACATATGTGGCAC-TATGTGCAAACT
*
54469657 TTCCATGTATCCGAGTTATATTCCGATGTGTTCAACGGGTAAAATTCTAGT
130 TTCCATGTATCCAAGTTATATTCCGATGTGTTCAACGGGTAAAATTCTAGT
54469708 GAAATGGAAG
Statistics
Matches: 166, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
200 59 0.36
201 62 0.37
202 45 0.27
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (201 bp):
GAGCTCGTTGACTTCAGACCGAGTTCACTTATGGATGAGAACGCCTGAGCCTCATTGAGTTGAGT
CCGAGTTCGCTTATGGACGAGTTACATGGTAGCTTGGCTACATATGTGGCACTATGTGCAAACTT
TCCATGTATCCAAGTTATATTCCGATGTGTTCAACGGGTAAAATTCTAGTTATATTCTGATGCTA
ATGTCC
Found at i:54471317 original size:80 final size:80
Alignment explanation
Indices: 54471233--54471381 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
54471223 TATGGTAACC
* * * *
54471233 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
54471297 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
54471313 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
54471378 CCGG
66 CCGG
54471382 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:54471323 original size:40 final size:38
Alignment explanation
Indices: 54471274--54471381 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
54471264 ATCACGATTT
*
54471274 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
54471314 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
54471354 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
54471382 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:54479432 original size:80 final size:80
Alignment explanation
Indices: 54479348--54479496 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
54479338 TATGGTAACC
* * * * *
54479348 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGAGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
54479412 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
54479428 CGCACGAATGCCTTCGAGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGAGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
54479493 CCGG
66 CCGG
54479497 TTATAATTTC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.02
80 55 0.98
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGAGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:54479438 original size:40 final size:38
Alignment explanation
Indices: 54479389--54479496 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 38
54479379 ATCACGATTT
*
54479389 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
* *
54479429 GCACGAATGCCTTCGAGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
54479469 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
54479497 TTATAATTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 54 0.92
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:54486401 original size:26 final size:27
Alignment explanation
Indices: 54486359--54486410 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
54486349 CATAGGATTC
*
54486359 CGATATGTGATGTGCGAGTAAGACCAT
1 CGATATATGATGTGCGAGTAAGACCAT
54486386 CGATATATG-TGTGCGAGTAAGACCA
1 CGATATATGATGTGCGAGTAAGACCA
54486411 CGTTTAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (27 bp):
CGATATATGATGTGCGAGTAAGACCAT
Found at i:54486496 original size:56 final size:56
Alignment explanation
Indices: 54486387--54486508 Score: 174
Period size: 56 Copynumber: 2.2 Consensus size: 56
54486377 TAAGACCATC
*
54486387 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCACCAGTATATGATTTT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCACCAGTATATGATTCT
* * * *
54486443 GATATATGTGTGCGAGTAAGACCACTTTTAATATGTTGGCATC-GATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCACCAG-TATATGATTCT
*
54486499 AATATATGTG
1 GATATATGTG
54486509 ATTACATGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.02
56 58 0.98
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCACCAGTATATGATTCT
Found at i:54490384 original size:43 final size:42
Alignment explanation
Indices: 54490274--54490435 Score: 139
Period size: 43 Copynumber: 3.8 Consensus size: 42
54490264 TTGAGATGTG
* * * * *
54490274 ATTACATGTAAGACCATGTCAGGGATATTTGCAT-TTTATTGA
1 ATTACGTGTAAGACCATGTCTGGGATATTGGCATCGTTAAT-A
* *
54490316 GATTACGTGTAAGACTATGTTTGGGATATTGGCATCGTTAATCA
1 -ATTACGTGTAAGACCATGTCTGGGATATTGGCATCGTTAAT-A
* * * * *
54490360 ATTTCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATATA
1 ATTACGTGTAAGACCATGTCTGGGATATTGGCATCGTTA-ATA
* * *
54490403 ATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATTACGTGTAAGACCATGTCTGGGATATTGGCAT
54490436 TGTATGAGCT
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
42 6 0.06
43 83 0.86
44 7 0.07
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (42 bp):
ATTACGTGTAAGACCATGTCTGGGATATTGGCATCGTTAATA
Found at i:54493502 original size:40 final size:40
Alignment explanation
Indices: 54493418--54493635 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
54493408 TGGATGATAA
* *
54493418 CCGGGCTAAGTCCCGAAGGCATTTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCA-TTTGTGCGAGTTACTA-TAT
* *
54493459 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54493499 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54493539 CCGGGCTAAGTCCCGAAGGCATTGGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
54493579 CCGGGCTGTGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54493618 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54493636 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
38 14 0.09
39 15 0.10
40 107 0.68
41 21 0.13
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54498286 original size:26 final size:26
Alignment explanation
Indices: 54498250--54498358 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
54498240 ATGAAATGCC
*
54498250 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAACCCAT
54498276 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
* *
54498302 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAACCCAT
54498328 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
54498354 TATCA
1 TATCA
54498359 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:54500405 original size:28 final size:28
Alignment explanation
Indices: 54500365--54500432 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
54500355 ATGAAAATTT
*
54500365 CACTAAGCGTGCGAGTTTGGTTAACGAG
1 CACTAAGTGTGCGAGTTTGGTTAACGAG
54500393 CACTAAGTGTGCGAGTTTGGTTAACGAG
1 CACTAAGTGTGCGAGTTTGGTTAACGAG
*
54500421 CACTAGGTGTGC
1 CACTAAGTGTGC
54500433 AAAGGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGGTTAACGAG
Found at i:54501315 original size:2 final size:2
Alignment explanation
Indices: 54501308--54501332 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
54501298 TGCAAAATTG
54501308 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
54501333 AATTAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54503844 original size:40 final size:40
Alignment explanation
Indices: 54503698--54503953 Score: 355
Period size: 40 Copynumber: 6.5 Consensus size: 40
54503688 TGGATGATAA
*
54503698 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
54503739 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54503779 -CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54503817 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54503857 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54503897 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
54503936 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54503954 TACTTGGCTT
Statistics
Matches: 198, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 41 0.21
39 35 0.18
40 94 0.47
41 24 0.12
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54503904 original size:80 final size:79
Alignment explanation
Indices: 54503698--54503953 Score: 344
Period size: 78 Copynumber: 3.2 Consensus size: 79
54503688 TGGATGATAA
* *
54503698 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATT
* *
54503762 TGTGCGAGTTATTACAT
63 TGTGCGAGTTACTATAT
54503779 -CGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
54503842 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
*
54503857 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
54503921 AGCGAG-TAGCTATAT
65 TGCGAGTTA-CTATAT
* *
54503936 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54503954 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 8, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
77 1 0.01
78 62 0.39
79 37 0.23
80 61 0.38
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:54510978 original size:27 final size:28
Alignment explanation
Indices: 54510948--54511047 Score: 112
Period size: 27 Copynumber: 3.5 Consensus size: 28
54510938 ATAGTGAGTC
54510948 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
54510975 CGCACACCTGGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
54511003 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
54511034 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54511048 AATCTCATGA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
27 20 0.33
28 19 0.32
29 2 0.03
31 19 0.32
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:54515029 original size:40 final size:40
Alignment explanation
Indices: 54514906--54515162 Score: 362
Period size: 40 Copynumber: 6.5 Consensus size: 40
54514896 TGGATGATAA
*
54514906 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
54514947 CCGGGCTAAGTCCCGAAGGCATTT-TGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54514986 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54515026 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54515066 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
54515106 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54515145 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54515163 TACTTGGCTT
Statistics
Matches: 199, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
38 13 0.07
39 48 0.24
40 110 0.55
41 28 0.14
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54515402 original size:30 final size:30
Alignment explanation
Indices: 54515367--54515429 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
54515357 GTGAAGTAAG
54515367 TATGATATTGAGAATTTGTGCATATGAAAT
1 TATGATATTGAGAATTTGTGCATATGAAAT
54515397 TATGATATTGAGAATTTGTGCATATGAAAT
1 TATGATATTGAGAATTTGTGCATATGAAAT
54515427 TAT
1 TAT
54515430 CTGTTTAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (30 bp):
TATGATATTGAGAATTTGTGCATATGAAAT
Found at i:54515427 original size:15 final size:15
Alignment explanation
Indices: 54515379--54515427 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
54515369 TGATATTGAG
54515379 AATTTGTGCATATGA
1 AATTTGTGCATATGA
*
54515394 AA-TTATG-ATATTGA
1 AATTTGTGCATA-TGA
54515408 GAATTTGTGCATATGA
1 -AATTTGTGCATATGA
54515424 AATT
1 AATT
54515428 ATCTGTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.11
14 7 0.25
15 8 0.29
16 7 0.25
17 3 0.11
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (15 bp):
AATTTGTGCATATGA
Found at i:54516951 original size:48 final size:48
Alignment explanation
Indices: 54516899--54517173 Score: 308
Period size: 48 Copynumber: 5.7 Consensus size: 48
54516889 CCGTGCTATA
* * *
54516899 TGTGCCTGTGTAATACCATGTCTAGGACATGGCATCGGAAATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGAGATGATATG
* * * **
54516947 TGTGCTAGTGTAAGGCCATGTCT-GATACATGGCATCGTTGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAG-GACATGGCATCGGAGATGATATG
* * * * *
54516995 TGTGCCAGTGTAGGGCCATGTCTGGGACATGGCATCGGTGATGCTATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGAGATGATATG
* *
54517043 TGTGCCAGTGTAAGACCATGTCTGGGACATGGAATC-GACGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGA-GATGATATG
54517091 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-ATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-AGATGATATG
* **
54517139 TG-GATTCA-TGTAAGACCATGTCGGGGACATGGCAT
1 TGTG--CCAGTGTAAGACCATGTCTAGGACATGGCAT
54517174 TGGTACTTTA
Statistics
Matches: 197, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
47 3 0.02
48 189 0.96
49 4 0.02
50 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGAGATGATATG
Found at i:54517063 original size:96 final size:96
Alignment explanation
Indices: 54516899--54517170 Score: 341
Period size: 96 Copynumber: 2.8 Consensus size: 96
54516889 CCGTGCTATA
* * * *
54516899 TGTGCCTGTGTAATACCATGTCTAGGACATGGCATCGGAAATGATATGTGTGCTAGTGTAAGGCC
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGAAATGATATGTGTGCCAGTGTAAGACC
* * **
54516964 ATGTCTGATACATGGCATCGTTGATGATATG
66 ATGTCTGAGACATGGAATCGACGATGATATG
* * * ** *
54516995 TGTGCCAGTGTAGGGCCATGTCTGGGACATGGCATCGGTGATGCTATGTGTGCCAGTGTAAGACC
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGAAATGATATGTGTGCCAGTGTAAGACC
*
54517060 ATGTCTGGGACATGGAATCGACGATGATATG
66 ATGTCTGAGACATGGAATCGACGATGATATG
* *
54517091 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATGTG-GATTCA-TGTAAGA
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGAAATGATATGTGTG--CCAGTGTAAGA
* *
54517154 CCATGTCGGGGACATGG
64 CCATGTCTGAGACATGG
54517171 CATTGGTACT
Statistics
Matches: 151, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
95 1 0.01
96 148 0.98
97 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (96 bp):
TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGAAATGATATGTGTGCCAGTGTAAGACC
ATGTCTGAGACATGGAATCGACGATGATATG
Found at i:54517158 original size:144 final size:144
Alignment explanation
Indices: 54516892--54517173 Score: 356
Period size: 144 Copynumber: 2.0 Consensus size: 144
54516882 CGTGACACCG
* * * *
54516892 TGCTATATGTGCCTGTGTAATACCATGTCTAGGACATGGCATCGGAAATGATATGTGTGCTAGTG
1 TGCTATATGTGCCAGTGTAAGACCATGTCTAGGACATGGAATCGGAAATGATATGTGTGCCAGTG
* * *** * * *
54516957 TAAGGCCATGTCTGATACATGGCATCGTTGATGATATGTGTGCCAGTGTAGGGCCATGTCTGGGA
66 TAAGACCATGTCTGAGACATGGCATCGGCAATGATATGTGTGCCAGTGTAAGACCATGTCGGGGA
54517022 CATGGCATCGGTGA
131 CATGGCATCGGTGA
* * *
54517036 TGCTATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGAATC-GACGATGATATGTGTGCCAGT
1 TGCTATATGTGCCAGTGTAAGACCATGTCTAGGACATGGAATCGGA-AATGATATGTGTGCCAGT
*
54517100 GTAAGACCATGTCT-AGGACATGGCATCGGCAATGATATGTG-GATTCA-TGTAAGACCATGTCG
65 GTAAGACCATGTCTGA-GACATGGCATCGGCAATGATATGTGTG--CCAGTGTAAGACCATGTCG
54517162 GGGACATGGCAT
127 GGGACATGGCAT
54517174 TGGTACTTTA
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
143 4 0.03
144 112 0.95
145 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (144 bp):
TGCTATATGTGCCAGTGTAAGACCATGTCTAGGACATGGAATCGGAAATGATATGTGTGCCAGTG
TAAGACCATGTCTGAGACATGGCATCGGCAATGATATGTGTGCCAGTGTAAGACCATGTCGGGGA
CATGGCATCGGTGA
Found at i:54521535 original size:54 final size:54
Alignment explanation
Indices: 54521358--54521543 Score: 230
Period size: 55 Copynumber: 3.4 Consensus size: 54
54521348 ATTGCCATTT
* * * * * *
54521358 CTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-GAACTAACCAATGCCATGC
1 CTTGGCATGGTCTTACATGATATCTTTGCCTTATAGAACTAATCAATGCCATGC
** * * *
54521411 CTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGT
1 CTTGGCATGGTCTTACATGATATCTTTGCCTTATAG-AACTAATCAATGCCATGC
* * *
54521466 CTTGGCATGGTCTTACATGATTTCTTTGCCTTATAGAACTTATCAATGTCATGC
1 CTTGGCATGGTCTTACATGATATCTTTGCCTTATAGAACTAATCAATGCCATGC
54521520 CTTGGCATGGTCTTACATGATATC
1 CTTGGCATGGTCTTACATGATATC
54521544 CTTATCTTAC
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 28 0.25
54 39 0.34
55 47 0.41
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (54 bp):
CTTGGCATGGTCTTACATGATATCTTTGCCTTATAGAACTAATCAATGCCATGC
Found at i:54521578 original size:47 final size:47
Alignment explanation
Indices: 54521525--54521646 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
54521515 CATGCCTTGG
* *
54521525 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
54521572 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
54521619 CATAGTCTTACATGGTATCATTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
54521647 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:54521868 original size:44 final size:44
Alignment explanation
Indices: 54521783--54521869 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
54521773 GTATCCTTAA
* *
54521783 CCGTCAATTCCTCCTTAAATGCCATGTTATGAACATAGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATAGACTTTT
* * *
54521827 CCGTCAATTCTTCCTTAATTGCCATGGTA-CAATCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAA-CATAGACTTT
54521870 GAGATATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATAGACTTTT
Found at i:54525470 original size:48 final size:48
Alignment explanation
Indices: 54525403--54525581 Score: 268
Period size: 48 Copynumber: 3.7 Consensus size: 48
54525393 CCGTGCTATA
*
54525403 TGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGTGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTGATGATATG
* * *
54525451 TGTGCCAGTTTAAGGCCATGTCTGGGACATGGCATCGGTGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTGATGATATG
* **
54525499 TGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTGATGATATG
* * *
54525547 TGTGCCAGTGTAAGACTATCTCTGGGACATGGCAT
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCAT
54525582 TGGTACTTTA
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTGATGATATG
Found at i:54531027 original size:20 final size:20
Alignment explanation
Indices: 54531002--54531046 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
54530992 AGGGACTAAA
*
54531002 ATGAAAAGTTATAAAATTTG
1 ATGAAAAATTATAAAATTTG
* *
54531022 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTATAAAATTTG
54531042 ATGAA
1 ATGAA
54531047 TACATGTGCT
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:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTATAAAATTTG
Found at i:54533111 original size:29 final size:28
Alignment explanation
Indices: 54533079--54533181 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
54533069 TTGACGAGAT
* *
54533079 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
54533108 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
54533137 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
54533166 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54533182 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:54536505 original size:40 final size:40
Alignment explanation
Indices: 54536460--54536626 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
54536450 CGGAATATAA
54536460 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
54536500 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
54536540 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
54536580 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54536619 CCGGATAT
1 CCGGATAT
54536627 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54536610 original size:80 final size:79
Alignment explanation
Indices: 54536460--54536626 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
54536450 CGGAATATAA
* *
54536460 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
54536525 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
54536540 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
54536602 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
54536619 CCGGATAT
1 CCGGATAT
54536627 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:54537474 original size:17 final size:19
Alignment explanation
Indices: 54537451--54537496 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
54537441 AAGAAGCATG
54537451 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
54537469 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
54537487 AATCATGCTC
1 AATCATGCTC
54537497 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:54543538 original size:26 final size:26
Alignment explanation
Indices: 54543509--54543604 Score: 120
Period size: 26 Copynumber: 3.5 Consensus size: 26
54543499 ATAGTGAGTC
54543509 CGCACACTTAGTGCTATAAATCAACT
1 CGCACACTTAGTGCTATAAATCAACT
*
54543535 CGCACACTTAGTGCTATATATCAAACT
1 CGCACACTTAGTGCTATAAATC-AACT
* * *
54543562 CGCACACTTAGTGCTGTACAAATTAAACC
1 CGCACACTTAGTGC--TATAAA-TCAACT
54543591 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54543605 CATTCTCATG
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 21 0.34
27 18 0.30
29 21 0.34
30 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (26 bp):
CGCACACTTAGTGCTATAAATCAACT
Found at i:54543569 original size:27 final size:27
Alignment explanation
Indices: 54543509--54543604 Score: 131
Period size: 29 Copynumber: 3.5 Consensus size: 27
54543499 ATAGTGAGTC
54543509 CGCACACTTAGTGCTATAAATC-AACT
1 CGCACACTTAGTGCTATAAATCAAACT
*
54543535 CGCACACTTAGTGCTATATATCAAACT
1 CGCACACTTAGTGCTATAAATCAAACT
* * *
54543562 CGCACACTTAGTGCTGTACAAATTAAACC
1 CGCACACTTAGTGC--TATAAATCAAACT
54543591 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54543605 CATTCTCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.34
27 18 0.29
29 23 0.37
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAATCAAACT
Found at i:54551522 original size:26 final size:28
Alignment explanation
Indices: 54551493--54551560 Score: 115
Period size: 26 Copynumber: 2.5 Consensus size: 28
54551483 ATAGTGAGTC
54551493 CGCACACTTAGTGCTATA-AATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
54551519 CGCACAC-TAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
54551546 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54551561 GTACAAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
25 10 0.26
26 11 0.28
27 11 0.28
28 7 0.18
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54553700 original size:40 final size:40
Alignment explanation
Indices: 54553618--54553702 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
54553608 GAGAATTGAG
** * * *
54553618 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGCCCCGAAGAGCAATCATACT
* *
54553658 AGTGATGTATCCGGGCTAGGCCCCGAAGAGCAATCATACT
1 AGTGATGTATCCGGACTAAGCCCCGAAGAGCAATCATACT
54553698 AGTGA
1 AGTGA
54553703 CGTGTATTCG
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:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGCCCCGAAGAGCAATCATACT
Found at i:54553892 original size:29 final size:29
Alignment explanation
Indices: 54553850--54553981 Score: 219
Period size: 29 Copynumber: 4.6 Consensus size: 29
54553840 GCGAATGATT
54553850 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
* *
54553879 GAGGCACTATGTGTGCGAGATCAATAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
54553908 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
54553937 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
* *
54553966 GAGGCATTGTGTGTGC
1 GAGGCACTATGTGTGC
54553982 AAGTTTTTCA
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 96 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:54553921 original size:58 final size:58
Alignment explanation
Indices: 54553847--54553981 Score: 243
Period size: 58 Copynumber: 2.3 Consensus size: 58
54553837 TGTGCGAATG
54553847 ATTGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAATA
1 ATTGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAATA
*
54553905 ATTGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTA
1 ATTGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAATA
* *
54553963 ATTGAGGCATTGTGTGTGC
1 ATTGAGGCACTATGTGTGC
54553982 AAGTTTTTCA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (58 bp):
ATTGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAATA
Found at i:54554566 original size:40 final size:41
Alignment explanation
Indices: 54554468--54554566 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
54554458 TTCGAATGGT
* ** * *
54554468 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
54554509 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TAACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTAACTA-A
54554550 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
54554567 GGACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTAACTAA
Found at i:54556670 original size:49 final size:49
Alignment explanation
Indices: 54556627--54557032 Score: 623
Period size: 49 Copynumber: 8.1 Consensus size: 49
54556617 GATAAAGCCG
* * *
54556627 AATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
* *
54556676 AATGGCCGATGTGATGAATGTGAAAATGGATGTATATGTGATGAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
*
54556725 AATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
*
54556774 AATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
*
54556823 AATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
54556872 AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGAT---G----A-GGCCT
* *
54556929 AATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
* * *
54556978 AATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGTCT
1 AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
54557027 AATGGC
1 AATGGC
54557033 TAATGTAAAA
Statistics
Matches: 333, Mismatches: 16, Indels: 16
0.91 0.04 0.04
Matches are distributed among these distances:
49 284 0.85
50 1 0.00
52 1 0.00
56 1 0.00
57 46 0.14
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
AATGGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATGAGGCCT
Found at i:54557191 original size:37 final size:37
Alignment explanation
Indices: 54557134--54557252 Score: 211
Period size: 37 Copynumber: 3.2 Consensus size: 37
54557124 GGAATATGTT
*
54557134 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
54557171 CTGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
54557208 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
54557245 CCGGGTAA
1 CCGGGTAA
54557253 AACTTCTTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:54562223 original size:59 final size:59
Alignment explanation
Indices: 54562131--54562262 Score: 210
Period size: 59 Copynumber: 2.2 Consensus size: 59
54562121 GACAAGATTG
* * *
54562131 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
** *
54562190 GCACTAAGTGTGCGAGTTGAAAATTATGTAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTGAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
54562249 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54562263 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 67 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (59 bp):
GCACTAAGTGTGCGAGTTGAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:54562274 original size:29 final size:29
Alignment explanation
Indices: 54562131--54562262 Score: 174
Period size: 30 Copynumber: 4.5 Consensus size: 29
54562121 GACAAGATTG
* * * * *
54562131 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
*
54562161 GCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
* *
54562190 GCACTAAGTGTGCGAGTTGAAAATTATGTA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
54562220 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
54562249 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54562263 GATTCACTAT
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
29 44 0.49
30 46 0.51
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:54569506 original size:29 final size:29
Alignment explanation
Indices: 54569464--54569595 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
54569454 AAAATTGTAC
54569464 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
54569493 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
*
54569522 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATAT
*
54569552 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATAT
54569581 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54569596 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:54569560 original size:59 final size:58
Alignment explanation
Indices: 54569464--54569595 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
54569454 AAAATTGTAC
54569464 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
* *
54569522 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATAT
54569581 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
54569596 GATTCACTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 23 0.32
59 48 0.68
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATAT
Found at i:54569584 original size:88 final size:89
Alignment explanation
Indices: 54569434--54569595 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
54569424 GACAAGATTG
* * *
54569434 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
54569499 AAGTGTGCGAACTGAAAATATATA
66 AAGTGTGCGAACTGAAAATATATA
* * *
54569523 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
54569587 AAGTGTGCG
66 AAGTGTGCG
54569596 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAACTGAAAATATATA
Found at i:54576839 original size:24 final size:24
Alignment explanation
Indices: 54576804--54576912 Score: 98
Period size: 23 Copynumber: 4.6 Consensus size: 24
54576794 ATATCAACTT
54576804 ATAAGAGCTTACTGTTTTTAGCTC
1 ATAAGAGCTTACTGTTTTTAGCTC
* ** * *
54576828 GTTGGAGCTTACCG-TTTCAGCTC
1 ATAAGAGCTTACTGTTTTTAGCTC
*
54576851 ATAAGAGCTTACTGTTCTTAGCTC
1 ATAAGAGCTTACTGTTTTTAGCTC
* * *
54576875 ATCAGAGCTTACCG-TTTCAGCTC
1 ATAAGAGCTTACTGTTTTTAGCTC
*
54576898 A-ATAGAGTTTACTGT
1 ATA-AGAGCTTACTGT
54576913 CCATCAACTC
Statistics
Matches: 64, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
23 35 0.55
24 29 0.45
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (24 bp):
ATAAGAGCTTACTGTTTTTAGCTC
Found at i:54576859 original size:47 final size:47
Alignment explanation
Indices: 54576804--54576912 Score: 157
Period size: 47 Copynumber: 2.3 Consensus size: 47
54576794 ATATCAACTT
* * **
54576804 ATAAGAGCTTACTGTTTTTAGCTCGTTGGAGCTTACCGTTTCAGCTC
1 ATAAGAGCTTACTGTTCTTAGCTCATCAGAGCTTACCGTTTCAGCTC
54576851 ATAAGAGCTTACTGTTCTTAGCTCATCAGAGCTTACCGTTTCAGCTC
1 ATAAGAGCTTACTGTTCTTAGCTCATCAGAGCTTACCGTTTCAGCTC
*
54576898 A-ATAGAGTTTACTGT
1 ATA-AGAGCTTACTGT
54576913 CCATCAACTC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.02
47 55 0.98
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (47 bp):
ATAAGAGCTTACTGTTCTTAGCTCATCAGAGCTTACCGTTTCAGCTC
Found at i:54576909 original size:23 final size:23
Alignment explanation
Indices: 54576804--54576898 Score: 100
Period size: 24 Copynumber: 4.0 Consensus size: 23
54576794 ATATCAACTT
* *
54576804 ATAAGAGCTTACTGTTTTTAGCTC
1 ATAAGAGCTTACCG-TTTCAGCTC
* **
54576828 GTTGGAGCTTACCGTTTCAGCTC
1 ATAAGAGCTTACCGTTTCAGCTC
* *
54576851 ATAAGAGCTTACTGTTCTTAGCTC
1 ATAAGAGCTTACCGTT-TCAGCTC
*
54576875 ATCAGAGCTTACCGTTTCAGCTC
1 ATAAGAGCTTACCGTTTCAGCTC
54576898 A
1 A
54576899 ATAGAGTTTA
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
23 27 0.47
24 30 0.53
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (23 bp):
ATAAGAGCTTACCGTTTCAGCTC
Found at i:54576930 original size:26 final size:24
Alignment explanation
Indices: 54576901--54576955 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
54576891 TCAGCTCAAT
*
54576901 AGAGTTTACTGTCCATCAACTCAGGA
1 AGAGTTTACTGTCCA-CAACTC-GAA
* *
54576927 AGAGCTTACTGTTCACAACTCGAA
1 AGAGTTTACTGTCCACAACTCGAA
54576951 AGAGT
1 AGAGT
54576956 GGGAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 6 0.24
25 6 0.24
26 13 0.52
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (24 bp):
AGAGTTTACTGTCCACAACTCGAA
Found at i:54577954 original size:3 final size:3
Alignment explanation
Indices: 54577946--54577984 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
54577936 GGATGTTTTG
54577946 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
54577985 TAGTATGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:54582029 original size:18 final size:17
Alignment explanation
Indices: 54582003--54582036 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
54581993 GTAGGACTGA
54582003 GATGAGCTTTGTGGGCCT
1 GATGAGC-TTGTGGGCCT
*
54582021 GATGGGCTTGTGGGCC
1 GATGAGCTTGTGGGCC
54582037 CACCCAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.09, C:0.18, G:0.44, T:0.29
Consensus pattern (17 bp):
GATGAGCTTGTGGGCCT
Found at i:54585364 original size:40 final size:40
Alignment explanation
Indices: 54585305--54585446 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
54585295 AAATTGAATG
* *
54585305 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGACAATTATGCTAGAAACT
* * * ***
54585345 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
54585385 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
54585425 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
54585447 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.03
40 82 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:54585447 original size:40 final size:39
Alignment explanation
Indices: 54585344--54585472 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
54585334 TGCTGGAAAT
* * *
54585344 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
54585384 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
54585424 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
54585464 TATATCCGG
1 TATATCCGG
54585473 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:54592281 original size:70 final size:70
Alignment explanation
Indices: 54592168--54592308 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
54592158 ACGACATGTA
54592168 AGGTTTCTCGAGCATACGAATGTTCATAGGACAACCGAGCCATACACTATGGGTGACAACCTAAG
1 AGGTTTCTCGAGCATACGAATGTTCATAGGACAACCGAGCCATACACTATGGGTGACAACCTAAG
54592233 GGGTC
66 GGGTC
54592238 AGGTTTCTCGAGCATACGAATGTTCATAGGACAACCGAGCCATACACTATGGGTGACAACCTAAG
1 AGGTTTCTCGAGCATACGAATGTTCATAGGACAACCGAGCCATACACTATGGGTGACAACCTAAG
54592303 GGGTC
66 GGGTC
54592308 A
1 A
54592309 CCACAACAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (70 bp):
AGGTTTCTCGAGCATACGAATGTTCATAGGACAACCGAGCCATACACTATGGGTGACAACCTAAG
GGGTC
Found at i:54596736 original size:43 final size:43
Alignment explanation
Indices: 54596685--54596828 Score: 175
Period size: 43 Copynumber: 3.3 Consensus size: 43
54596675 AACATCTCAT
* * *
54596685 ACATGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAG
1 ACATGGTCTTACACGTAATCATATATCGATGCCACTGTCCCAG
* * *
54596728 ACAAGGTCTTACACGAAATCATATAT-GATGCC-CATGTCCTAG
1 ACATGGTCTTACACGTAATCATATATCGATGCCAC-TGTCCCAG
* *
54596770 ACATGGTCTTACACGTAAATCATATATCGATGCCAATGTTCCAG
1 ACATGGTCTTACACGT-AATCATATATCGATGCCACTGTCCCAG
*
54596814 ACATGCTCTTACACG
1 ACATGGTCTTACACG
54596829 ATAACACATA
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 26 0.31
43 32 0.38
44 26 0.31
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
ACATGGTCTTACACGTAATCATATATCGATGCCACTGTCCCAG
Found at i:54603252 original size:6 final size:6
Alignment explanation
Indices: 54603228--54603315 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
54603218 AAGAAACATT
* * * *
54603228 ATCAGA A-CTAGA GTCAGA ATCAGA ATTAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
54603277 ATCAGA ATCAGT ATCAAGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA AT
54603316 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:54603277 original size:31 final size:31
Alignment explanation
Indices: 54603241--54603315 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
54603231 AGAACTAGAG
* * * *
54603241 TCAGAATCAGAATTAGAATTAGGTGACAGAA
1 TCAGAATCAGAATCAGAATCAAGTAACAGAA
*
54603272 TCAGAATCAGAATCAGTATCAAGTAACAGAA
1 TCAGAATCAGAATCAGAATCAAGTAACAGAA
*
54603303 TCAAAATCAGAAT
1 TCAGAATCAGAAT
54603316 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (31 bp):
TCAGAATCAGAATCAGAATCAAGTAACAGAA
Found at i:54605506 original size:40 final size:40
Alignment explanation
Indices: 54605449--54605679 Score: 286
Period size: 40 Copynumber: 5.8 Consensus size: 40
54605439 ATTGAATGAT
* * ** * * *
54605449 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCATTAA
* * * * *
54605489 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCATTAA
*
54605529 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCATTAA
**
54605569 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCATTAA
54605609 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCATTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCATTAA
*
54605649 ATCCGGGCTAAGACTC-ATAGGCATTCGTGCA
1 ATCCGGGCTAAGACCCGA-AGGCATTCGTGCA
54605680 CGTGGTTATA
Statistics
Matches: 171, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 4 0.02
40 164 0.96
41 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCATTAA
Found at i:54609407 original size:29 final size:29
Alignment explanation
Indices: 54609374--54609505 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
54609364 GTGACGAGAT
*
54609374 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
54609403 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
54609432 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
54609461 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
54609490 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
54609506 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:54626688 original size:40 final size:40
Alignment explanation
Indices: 54626631--54626876 Score: 307
Period size: 40 Copynumber: 6.2 Consensus size: 40
54626621 ATTGAATGAT
* * ** * ** *
54626631 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * * *
54626671 ATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGT-GACTAC
1 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TTAA
54626711 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
*
54626751 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
54626791 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
* * * *
54626831 ATCCGGGCTAAGACCCGTAGGCATTCGTGCACGTTGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
54626871 ATCCGG
1 ATCCGG
54626877 TTGTATTCCG
Statistics
Matches: 185, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 178 0.96
41 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAA
Found at i:54628577 original size:27 final size:27
Alignment explanation
Indices: 54628257--54628571 Score: 490
Period size: 27 Copynumber: 11.7 Consensus size: 27
54628247 TTTTACATCA
54628257 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
54628284 GTATTTCTACCCTACA-AGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
54628310 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
54628337 GTAATTCTACCCTACAGGGGTA-TTCTG
1 GTAATTCTACCCTACAGGGGTATTTC-G
* *
54628364 GTAATTCTACCCTACAAGGGTATTTCT
1 GTAATTCTACCCTACAGGGGTATTTCG
*
54628391 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
54628418 GTAATTCTACCCTACAGCGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
54628445 GTAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
54628472 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
54628499 GTAATTCTACCTTACAAGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCG
54628526 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
54628553 GTAATTCTACCCTACAGGG
1 GTAATTCTACCCTACAGGG
54628572 TAATTTTGTA
Statistics
Matches: 261, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
26 27 0.10
27 231 0.89
28 3 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:54629115 original size:27 final size:27
Alignment explanation
Indices: 54628570--54629116 Score: 451
Period size: 27 Copynumber: 20.3 Consensus size: 27
54628560 TACCCTACAG
* *
54628570 GGTAATTTTGTAAA-CTGCGGGTAAAAT
1 GGTAATTCTGTAAATC-GAGGGTAAAAT
* *
54628597 GGTAATTTTGTAAATTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAT
* * *
54628624 GGTAATTCTATAAATTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAT
* * * *
54628651 GATAATTTTGTAAATCGAGGGTGAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAT
*
54628678 GGTAATT-TATAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAT
** * ***
54628704 GGTAATTCTACAAATCGAGGGCATTTT
1 GGTAATTCTGTAAATCGAGGGTAAAAT
* * ***
54628731 AGTAATT-T-TAAAATCGACGGTATTTT
1 GGTAATTCTGT-AAATCGAGGGTAAAAT
* * * * ***
54628757 AGTAATTTTATAAACCGAGGGTACTTT
1 GGTAATTCTGTAAATCGAGGGTAAAAT
* ***
54628784 GGTAATT-T-TACTGATCGAGGGTATTTT
1 GGTAATTCTGTA--AATCGAGGGTAAAAT
* * ***
54628811 GGTAATTTTGTAAA-CAAAGGGTATTTT
1 GGTAATTCTGTAAATC-GAGGGTAAAAT
** * * *
54628838 AATAATTTTGTAAATCGAGGATAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAT
* *
54628865 AGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAT
*
54628892 GGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAT
* * *
54628919 GGTAATTCTATAAATCAAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAT
54628946 GGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAT
* * *
54628973 AGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAT
* * * *
54629000 AGTATTTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAT
54629027 GGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAT
* * *
54629054 AGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAT
*
54629081 GATAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAT
54629108 GGTAATTCT
1 GGTAATTCT
54629117 ATCTTATTTC
Statistics
Matches: 440, Mismatches: 69, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.00
26 47 0.11
27 386 0.88
28 3 0.01
29 2 0.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (27 bp):
GGTAATTCTGTAAATCGAGGGTAAAAT
Found at i:54629161 original size:27 final size:27
Alignment explanation
Indices: 54629121--54629215 Score: 86
Period size: 27 Copynumber: 3.5 Consensus size: 27
54629111 AATTCTATCT
* *
54629121 TATTTCAGTGATTTTACAAATCGAGAA
1 TATTTCAGTAATTTTACAAATCGAGAG
* * * *
54629148 TATTTGAGTAATTTTATAAATCGGGGG
1 TATTTCAGTAATTTTACAAATCGAGAG
* *
54629175 TACTTT-GGTAATTTTACAAGTCGA-AGG
1 TA-TTTCAGTAATTTTACAAATCGAGA-G
54629202 TATTTCAGTAATTT
1 TATTTCAGTAATTT
54629216 GGTAAACTAA
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.06
27 47 0.89
28 3 0.06
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGAG
Found at i:54645934 original size:19 final size:20
Alignment explanation
Indices: 54645910--54645947 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
54645900 GGTACCACCA
54645910 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
54645929 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
54645948 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:54646243 original size:46 final size:46
Alignment explanation
Indices: 54646176--54646343 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
54646166 CGCCCCTAAG
*
54646176 TGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
* *
54646222 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCATCCATAAA
* * *
54646269 CGAACTCGGACTCAACTCAACGAGTTTGGGCATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
*
54646315 TGAACTCGGACTCAACTCAATGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
54646344 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 54 0.53
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAA
Found at i:54646287 original size:93 final size:93
Alignment explanation
Indices: 54646177--54646347 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
54646167 GCCCCTAAGT
54646177 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
54646242 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
54646270 GAACTCGGACTCAACTCAACGAGTTTGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
54646335 TGAGTTCGGATGC
66 CGAGTTCGGATGC
54646348 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:54657075 original size:46 final size:43
Alignment explanation
Indices: 54656932--54657067 Score: 132
Period size: 47 Copynumber: 3.0 Consensus size: 43
54656922 CCCACCCCTA
54656932 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
54656979 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
54657025 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
54657068 CCTAGTGACA
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 29 0.39
47 30 0.40
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:54664025 original size:93 final size:93
Alignment explanation
Indices: 54663917--54664086 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
54663907 CCCCTAAGTG
* *
54663917 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
54663982 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
*
54664010 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
54664075 GAGTTCGGATGC
66 GAGTTCGGATGC
54664087 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:54664083 original size:46 final size:46
Alignment explanation
Indices: 54663911--54664083 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 46
54663901 AACCCGCCCC
* *
54663911 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
54663957 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCA-TCCA
* *
54664008 -CA---AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
54664050 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
54664084 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 1 0.01
46 59 0.56
47 27 0.25
49 1 0.01
50 4 0.04
51 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:54672700 original size:53 final size:54
Alignment explanation
Indices: 54672632--54672838 Score: 211
Period size: 53 Copynumber: 3.8 Consensus size: 54
54672622 TTCCTTTTTA
* *
54672632 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
54672685 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * * *
54672739 TAGTTTATCAATGCCATGTCTTGACATGCTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
54672794 AACTTACCAATT-CCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACC-ATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
54672839 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 31, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
53 46 0.38
54 33 0.28
55 41 0.34
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:54680900 original size:29 final size:30
Alignment explanation
Indices: 54680834--54680952 Score: 126
Period size: 29 Copynumber: 4.2 Consensus size: 30
54680824 TACATACGTG
*
54680834 CATATGGCCCA-CTAGGCCCAA-TCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
54680862 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
54680891 CTTATGGCCCA-CTAGACCCAATTC-TCATT
1 CATATGGCCCATCTAGGCCCAATTCAT-ATT
*
54680920 CATATGGCCCAT-TAGGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
54680949 -ATAT
1 CATAT
54680953 TTATGCTCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
28 23 0.31
29 51 0.68
30 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.29
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:54680938 original size:58 final size:57
Alignment explanation
Indices: 54680836--54680948 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
54680826 CATACGTGCA
* * **
54680836 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGACCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
*
54680893 TATGGCCCACTAGACCCAATTCTCATTCATATGGCCCAT-TAGGCCCAAATCATATT
1 TATGGCCCACTAGACCCAA-TCTCATTCAAATGGCCCATCT-GGCCCAAATCATATT
54680949 ATATTTATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 19 0.39
58 30 0.61
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (57 bp):
TATGGCCCACTAGACCCAATCTCATTCAAATGGCCCATCTGGCCCAAATCATATTCT
Found at i:54682440 original size:16 final size:16
Alignment explanation
Indices: 54682419--54682451 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54682409 AAAAATTCAA
*
54682419 GATTTCGAGATTTTTG
1 GATTTCAAGATTTTTG
54682435 GATTTCAAGATTTTTG
1 GATTTCAAGATTTTTG
54682451 G
1 G
54682452 GGCGTTATAT
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:0.21, C:0.06, G:0.24, T:0.48
Consensus pattern (16 bp):
GATTTCAAGATTTTTG
Found at i:54683680 original size:15 final size:15
Alignment explanation
Indices: 54683652--54683698 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
54683642 TACTATTAAT
54683652 TTATTAAGATAAAAAC
1 TTATTAA-ATAAAAAC
54683668 TTATTAAATAAAATA-
1 TTATTAAATAAAA-AC
* *
54683683 TGATTAAATTAAAAC
1 TTATTAAATAAAAAC
54683698 T
1 T
54683699 AATCCTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 1 0.04
15 18 0.67
16 8 0.30
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (15 bp):
TTATTAAATAAAAAC
Found at i:54683876 original size:30 final size:30
Alignment explanation
Indices: 54683818--54683876 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
54683808 GTCTTTTGAA
* *
54683818 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAATTTTT
54683848 AATATTTACAAAAAGA-ACAACCACATTTT
1 AATATTTACAAAAAGAGACAACCA-ATTTT
54683877 GGAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAATTTTT
Found at i:54685756 original size:40 final size:40
Alignment explanation
Indices: 54685691--54685781 Score: 146
Period size: 40 Copynumber: 2.3 Consensus size: 40
54685681 GTGTAATAAA
* *
54685691 AATAAAGTCCAACAAATCAATAATTAACTAAGATGAGCTT
1 AATAAAGTCCAACAAATCAAAAATTAACTAAGATAAGCTT
* *
54685731 AATAAAGTCCAACAACTCAAAAATTAACTAAGATAAGTTT
1 AATAAAGTCCAACAAATCAAAAATTAACTAAGATAAGCTT
54685771 AATAAAGTCCA
1 AATAAAGTCCA
54685782 GCGCAATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (40 bp):
AATAAAGTCCAACAAATCAAAAATTAACTAAGATAAGCTT
Found at i:54694375 original size:6 final size:6
Alignment explanation
Indices: 54694364--54694411 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
54694354 TTTGAGTCCC
* * *
54694364 TTTTAT TTTTAT TTTTAT TTTCAA TTTTAT TTTTCTT TATTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT T-TTTAT TTTT
54694412 GAAGACTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 27 0.79
7 4 0.12
8 3 0.09
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:54699535 original size:16 final size:16
Alignment explanation
Indices: 54699511--54699541 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54699501 TTTCTTCACT
54699511 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
54699527 TACTTACTTACTTAA
1 TACTCACTTACTTAA
54699542 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:54699547 original size:20 final size:20
Alignment explanation
Indices: 54699508--54699547 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
54699498 AAATTTCTTC
* *
54699508 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
54699528 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
54699548 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:54699923 original size:55 final size:53
Alignment explanation
Indices: 54699734--54699987 Score: 216
Period size: 55 Copynumber: 4.8 Consensus size: 53
54699724 CGCGGGTATG
* * * * *
54699734 TTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AAC
* * *
54699783 TTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAAC
* * *
54699836 TCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAAC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AAC
* ***
54699891 TTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAGACC
1 TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGA-A-C
* * ** *
54699945 TTACCAATTTCCATGCCTTGGTATGGTCTTACATGGTATCCTT
1 TTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
54699988 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 24, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 36 0.21
50 1 0.01
52 3 0.02
53 47 0.28
54 10 0.06
55 70 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (53 bp):
TTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAAC
Done.