Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 72 of 235
Found at i:24728092 original size:40 final size:40
Alignment explanation
Indices: 24728062--24728269 Score: 292
Period size: 40 Copynumber: 5.2 Consensus size: 40
24728052 GGACTAAGAT
* * * *
24728062 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
24728102 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
24728142 CCGAAGGCATTCATGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
24728182 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
24728222 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
24728261 CCGAAGGCA
1 CCGAAGGCA
24728270 CTTGAACGAG
Statistics
Matches: 153, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 32 0.21
40 121 0.79
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:24728146 original size:80 final size:80
Alignment explanation
Indices: 24728009--24728269 Score: 292
Period size: 80 Copynumber: 3.3 Consensus size: 80
24727999 TTGAATGCTG
* * * * * ** *
24728009 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAGACCCGAAGGCCTT
*
24728073 TGTGCGAGATACTAAA
65 TGTGCGAGTTACTAAA
* * * *
24728089 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGCCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGACCCGAAGGCCTTT
* *
24728154 ATGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * * *
24728169 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGACCCGAAGGCCTTT
*
24728233 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
24728248 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
24728270 CTTGAACGAG
Statistics
Matches: 153, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
79 32 0.21
80 115 0.75
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGACCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:24736043 original size:40 final size:40
Alignment explanation
Indices: 24736013--24736220 Score: 301
Period size: 40 Copynumber: 5.2 Consensus size: 40
24736003 GGACTAAGAT
* * * *
24736013 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
24736053 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
24736093 CCGAAGGCATTCGTGCGAGTTATTAAATCCGAGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
24736133 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
24736173 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
24736212 CCGAAGGCA
1 CCGAAGGCA
24736221 CTTGAACGAG
Statistics
Matches: 155, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
39 32 0.21
40 123 0.79
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:24736097 original size:80 final size:80
Alignment explanation
Indices: 24735960--24736220 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
24735950 TTGAATGCTG
* * * * * **
24735960 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
24736023 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
24736040 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
24736105 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * * *
24736120 TCCGAGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
24736184 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
24736199 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
24736221 CTTGAACGAG
Statistics
Matches: 155, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
79 33 0.21
80 116 0.75
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:24744111 original size:39 final size:40
Alignment explanation
Indices: 24743960--24744129 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
24743950 GGACTAAGAT
* * *
24743960 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
24744000 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
24744040 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
24744080 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
24744119 CCGAAGGCATT
1 CCGAAGGCATT
24744130 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:24744149 original size:79 final size:80
Alignment explanation
Indices: 24743982--24744164 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
24743972 GTGCGAGATA
* * * *
24743982 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
24744047 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
24744062 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
24744126 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
24744141 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
24744165 TACGCGAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:24751904 original size:40 final size:40
Alignment explanation
Indices: 24751821--24752083 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
24751811 TTGAATGCTG
* * * * * *
24751821 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
24751861 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
24751901 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
24751941 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
24751981 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
24752021 TCCGGGTTATGTCCCGAAGGCA-TGGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
24752060 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24752084 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 22, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
39 34 0.17
40 155 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:24752103 original size:79 final size:80
Alignment explanation
Indices: 24751860--24752118 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
24751850 AAGTGAATAT
* * * * * *
24751860 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
*** * *
24751924 TCGTGTGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
24751940 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
24752005 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
24752020 ATCCGGGTTATGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
24752084 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
24752099 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
24752119 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 49 0.32
80 91 0.59
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:24757663 original size:17 final size:17
Alignment explanation
Indices: 24757638--24757671 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24757628 TATGTATGCA
*
24757638 GTGAAATCTATGTTTTG
1 GTGAAATCTATGGTTTG
*
24757655 GTGAGATCTATGGTTTG
1 GTGAAATCTATGGTTTG
24757672 ACGGATTCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.29, T:0.44
Consensus pattern (17 bp):
GTGAAATCTATGGTTTG
Found at i:24761835 original size:42 final size:42
Alignment explanation
Indices: 24761716--24761877 Score: 182
Period size: 42 Copynumber: 3.8 Consensus size: 42
24761706 TACCGTACCA
* * *
24761716 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATACCAGATATGGTCTTACACGTAGTCTCGTATCG
* * *
24761758 ATGCCA-ATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCCATATA--CCAGATATGGTCTTACACGTAGTCTCGTATCG
** * * * *
24761801 ATTTCATATACCAAATATGGTTTTACATGTAGTCTCGTATTG
1 ATGCCATATACCAGATATGGTCTTACACGTAGTCTCGTATCG
*
24761843 ATGCCATATCCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATACCAGATATGGTCTTACACGTAGTCT
24761878 TAGTAACCCT
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.02
42 60 0.62
43 31 0.32
44 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (42 bp):
ATGCCATATACCAGATATGGTCTTACACGTAGTCTCGTATCG
Found at i:24761840 original size:85 final size:84
Alignment explanation
Indices: 24761720--24761877 Score: 235
Period size: 85 Copynumber: 1.9 Consensus size: 84
24761710 GTACCAATGC
* * *
24761720 CATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCCAGCTATGGTCTTAC
1 CATATACCAAATATGGTCTTACATGTAATCTCGTATCGATGCC-ATAGCCCAGATATGGTCTTAC
24761785 ACGAAGTCTCATATCGATTT
65 ACGAAGTCTCATATCGATTT
* * * *
24761805 CATATACCAAATATGGTTTTACATGTAGTCTCGTATTGATGCCATATCCCAGATATGGTCTTACA
1 CATATACCAAATATGGTCTTACATGTAATCTCGTATCGATGCCATAGCCCAGATATGGTCTTACA
*
24761870 CGTAGTCT
66 CGAAGTCT
24761878 TAGTAACCCT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 27 0.42
85 38 0.58
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (84 bp):
CATATACCAAATATGGTCTTACATGTAATCTCGTATCGATGCCATAGCCCAGATATGGTCTTACA
CGAAGTCTCATATCGATTT
Found at i:24763554 original size:25 final size:23
Alignment explanation
Indices: 24763500--24763559 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 23
24763490 GAAGAAAATT
*
24763500 CTAAATTTTATAGGATATATGTG
1 CTAAATTTTATAGAATATATGTG
*
24763523 CTGAATTTTATAGAATATATGTG
1 CTAAATTTTATAGAATATATGTG
24763546 CGGTAAATTTTATA
1 C--TAAATTTTATA
24763560 TTGAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 22 0.69
25 10 0.31
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (23 bp):
CTAAATTTTATAGAATATATGTG
Found at i:24768136 original size:40 final size:40
Alignment explanation
Indices: 24768047--24768310 Score: 369
Period size: 40 Copynumber: 6.7 Consensus size: 40
24768037 TTGAATGATG
* *
24768047 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
24768086 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
24768126 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24768165 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24768205 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24768245 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24768286 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24768311 AACGAGGAGC
Statistics
Matches: 207, Mismatches: 11, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 144 0.70
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24768328 original size:120 final size:118
Alignment explanation
Indices: 24768047--24768343 Score: 347
Period size: 120 Copynumber: 2.5 Consensus size: 118
24768037 TTGAATGATG
* *
24768047 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
*
24768107 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* ** * *
24768165 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
24768230 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
24768286 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
24768344 TACGTGATTT
Statistics
Matches: 154, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 65 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24773057 original size:30 final size:30
Alignment explanation
Indices: 24773023--24773083 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24773013 TCCTTAACTC
24773023 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
24773053 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
24773083 A
1 A
24773084 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:24775961 original size:26 final size:26
Alignment explanation
Indices: 24775925--24775974 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
24775915 TTCTTGTTGA
24775925 TTTATCTTGAAAATAGACTAATTAGG
1 TTTATCTTGAAAATAGACTAATTAGG
*
24775951 TTTATCTTGAAAATAGACTCATTA
1 TTTATCTTGAAAATAGACTAATTA
24775975 TGGATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (26 bp):
TTTATCTTGAAAATAGACTAATTAGG
Found at i:24776767 original size:67 final size:66
Alignment explanation
Indices: 24776580--24776787 Score: 187
Period size: 67 Copynumber: 3.2 Consensus size: 66
24776570 ATATAGTTCG
** * *
24776580 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CAGT--T-TATCTC
1 GCTCTCTTGT-CTACATGGTTTACACATAGTACCACCCATGCGACCTAGCTCA-TCATATATCTC
24776640 GTA
64 GTA
* * * * * * *
24776643 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCAACCTAGCT--TCATATATCC
1 GCTCTCTTGTCTACATGGT-T--TACACATAGTACCACCCATGCGACCTAGCTCATCATATATCT
24776706 CGTA
63 CGTA
* *
24776710 GCTCTCTTGTCTACATGGTTTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTTTACACATAGTACCACCCATGCGACCTAGCT-CATCAT-ATATCTC
24776775 GTA
64 GTA
24776778 GCTCTCTTGT
1 GCTCTCTTGT
24776788 ACACATGATG
Statistics
Matches: 114, Mismatches: 19, Indels: 19
0.75 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 17 0.15
64 24 0.21
66 23 0.20
67 31 0.27
68 18 0.16
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (66 bp):
GCTCTCTTGTCTACATGGTTTACACATAGTACCACCCATGCGACCTAGCTCATCATATATCTCGT
A
Found at i:24777197 original size:30 final size:30
Alignment explanation
Indices: 24777163--24777223 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24777153 TCCTTAACTC
24777163 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
24777193 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
24777223 A
1 A
24777224 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:24778573 original size:30 final size:31
Alignment explanation
Indices: 24778539--24778625 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 31
24778529 CACGTATAAC
*
24778539 AGAGAACATCTACAAAGGCTTCCA-ATTAT-T
1 AGAGAACAACTACAAAGGCTTCCACA-TATCT
*
24778569 AGAGAACAACCACAAAGGCTTCCACATATCT
1 AGAGAACAACTACAAAGGCTTCCACATATCT
* * *
24778600 A-AGAACACCTACACAGGATTCCACAT
1 AGAGAACAACTACAAAGGCTTCCACAT
24778626 TTCGGTAATC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
30 46 0.94
31 3 0.06
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.20
Consensus pattern (31 bp):
AGAGAACAACTACAAAGGCTTCCACATATCT
Found at i:24778795 original size:54 final size:54
Alignment explanation
Indices: 24778730--24778937 Score: 274
Period size: 54 Copynumber: 3.9 Consensus size: 54
24778720 CTTTGCCAAC
* * * * **
24778730 ATGATG-CGATAGTCCCAAACTAGGTCTTACACTATGTTGTCTTCATTTCCCTGT
1 ATGATGTC-ATAGTCCCAGACTAGGTCTTACACTATATGGTCTTCTTTTCCCCAT
* * *
24778784 ATGATGTGATAGTCCCAGACAAGGTCTTACAATATATGGTCTTCTTTTCCCCAT
1 ATGATGTCATAGTCCCAGACTAGGTCTTACACTATATGGTCTTCTTTTCCCCAT
**
24778838 ATGATGTCATAGTTTCAGACTAGGTCTTACACTATATGGTCTTCTTTTCCCCAT
1 ATGATGTCATAGTCCCAGACTAGGTCTTACACTATATGGTCTTCTTTTCCCCAT
* * *
24778892 ATGATGTCATAGTTCCAGACTAGGTCTTGCATTATATGGTCTTCTT
1 ATGATGTCATAGTCCCAGACTAGGTCTTACACTATATGGTCTTCTT
24778938 GCCATGGCCA
Statistics
Matches: 136, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
54 136 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (54 bp):
ATGATGTCATAGTCCCAGACTAGGTCTTACACTATATGGTCTTCTTTTCCCCAT
Found at i:24782080 original size:14 final size:14
Alignment explanation
Indices: 24782063--24782089 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24782053 ATTAATTATA
24782063 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
24782077 TTATAGTTTAGGG
1 TTATAGTTTAGGG
24782090 CATATGGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:24782300 original size:7 final size:7
Alignment explanation
Indices: 24782145--24782300 Score: 80
Period size: 7 Copynumber: 22.0 Consensus size: 7
24782135 TATGATTATA
24782145 GGTTTAG
1 GGTTTAG
* *
24782152 GGATTAT
1 GGTTTAG
24782159 GGTTTAAG
1 GGTTT-AG
*
24782167 GG-TTGG
1 GGTTTAG
*
24782173 GGTTTAA
1 GGTTTAG
24782180 GGTTTAG
1 GGTTTAG
*
24782187 GGGTTAG
1 GGTTTAG
*
24782194 TGATTTAG
1 -GGTTTAG
*
24782202 GGTTCAG
1 GGTTTAG
* *
24782209 GGTTCAA
1 GGTTTAG
*
24782216 GGTTTAA
1 GGTTTAG
*
24782223 GGTTCAG
1 GGTTTAG
* *
24782230 GGTTCAT
1 GGTTTAG
*
24782237 GGTTTAT
1 GGTTTAG
*
24782244 GTTTTAG
1 GGTTTAG
* *
24782251 GATTTAA
1 GGTTTAG
* *
24782258 GATTTAC
1 GGTTTAG
24782265 GGTTTAG
1 GGTTTAG
* *
24782272 GGATTAA
1 GGTTTAG
*
24782279 GGATTAG
1 GGTTTAG
24782286 GAGTTTAG
1 G-GTTTAG
24782294 GGTTTAG
1 GGTTTAG
24782301 ATTAATTAAT
Statistics
Matches: 115, Mismatches: 30, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
6 3 0.03
7 98 0.85
8 14 0.12
ACGTcount: A:0.22, C:0.03, G:0.35, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:24782627 original size:21 final size:21
Alignment explanation
Indices: 24782603--24782649 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
24782593 TTAGGGTGTA
24782603 GGTTTAT-AGTCTAAGATTTAG
1 GGTTTATGA-TCTAAGATTTAG
* *
24782624 GGTTTATGATCTAGGATTTGG
1 GGTTTATGATCTAAGATTTAG
24782645 GGTTT
1 GGTTT
24782650 GGTGTTTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.21, C:0.04, G:0.30, T:0.45
Consensus pattern (21 bp):
GGTTTATGATCTAAGATTTAG
Found at i:24783305 original size:8 final size:8
Alignment explanation
Indices: 24783252--24783366 Score: 75
Period size: 7 Copynumber: 14.8 Consensus size: 8
24783242 TTTATATGTT
24783252 AATTTAAA
1 AATTTAAA
24783260 AATTATAAA
1 AATT-TAAA
24783269 AATCTTCAAAAA
1 AAT-TT---AAA
24783281 AATTT-AA
1 AATTTAAA
*
24783288 AATTT-GA
1 AATTTAAA
24783295 AATTTAAA
1 AATTTAAA
24783303 AA--TAAA
1 AATTTAAA
*
24783309 GA-TTAAA
1 AATTTAAA
24783316 AA-TTAAA
1 AATTTAAA
24783323 AA-TTAAA
1 AATTTAAA
*
24783330 AATTCAAA
1 AATTTAAA
*
24783338 AACTTAAA
1 AATTTAAA
24783346 AATTT-AA
1 AATTTAAA
*
24783353 TATTTAAA
1 AATTTAAA
*
24783361 ACTTTA
1 AATTTA
24783367 GTCCATATTT
Statistics
Matches: 87, Mismatches: 11, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
6 5 0.06
7 38 0.44
8 27 0.31
9 8 0.09
10 1 0.01
11 2 0.02
12 6 0.07
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (8 bp):
AATTTAAA
Found at i:24783308 original size:20 final size:20
Alignment explanation
Indices: 24783278--24783349 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
24783268 AAATCTTCAA
* *
24783278 AAAAATTTAAAATTTGAAATTT
1 AAAAA-TTAAAA-TTAAAAATT
24783300 AAAAA-TAAAGATTAAAAATT
1 AAAAATTAAA-ATTAAAAATT
24783320 AAAAATTAAAAATTCAAAAACTT
1 AAAAATT-AAAATT-AAAAA-TT
24783343 AAAAATT
1 AAAAATT
24783350 TAATATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
20 16 0.37
21 5 0.12
22 13 0.30
23 9 0.21
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (20 bp):
AAAAATTAAAATTAAAAATT
Found at i:24783318 original size:21 final size:21
Alignment explanation
Indices: 24783298--24783348 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
24783288 AATTTGAAAT
*
24783298 TTAAAAATAAAGATT-AAAAA
1 TTAAAAATAAAAATTCAAAAA
24783318 TTAAAAATTAAAAATTCAAAAA
1 TTAAAAA-TAAAAATTCAAAAA
24783340 CTTAAAAAT
1 -TTAAAAAT
24783349 TTAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 7 0.26
21 7 0.26
22 6 0.22
23 7 0.26
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
TTAAAAATAAAAATTCAAAAA
Found at i:24789119 original size:35 final size:35
Alignment explanation
Indices: 24789049--24789120 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
24789039 TTTAATTGTG
*
24789049 TTATTAATTTATTATTTTAAATTATAAATTTAAAT
1 TTATTAATTTATTATTTTAAATTATAAATTAAAAT
* *
24789084 TTATTAATTT-TTATATTT-AGTTTTAAAGTTAAAAT
1 TTATTAATTTATTAT-TTTAAATTATAAA-TTAAAAT
24789119 TT
1 TT
24789121 TAATAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 11 0.34
35 21 0.66
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (35 bp):
TTATTAATTTATTATTTTAAATTATAAATTAAAAT
Found at i:24790477 original size:47 final size:46
Alignment explanation
Indices: 24790415--24790544 Score: 136
Period size: 47 Copynumber: 2.8 Consensus size: 46
24790405 ACAACTCTTA
* * **
24790415 GCCGATGCGTGTCCCAGACACGTTTTACACTGGCTA-TCATCGTTGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGC-ACTCAT-AATGAG
* ** * *
24790462 GCCGATGCATGTCCCAGGCGTGGTCTTATACTGGCACTCATAATGTG
1 GCCGATGCATGTCCCAGAC-ACGTCTTACACTGGCACTCATAATGAG
*
24790509 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGCAC
24790545 ACAAGAAATC
Statistics
Matches: 68, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
46 14 0.21
47 39 0.57
48 15 0.22
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGAG
Found at i:24799249 original size:40 final size:40
Alignment explanation
Indices: 24799190--24799331 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 40
24799180 AACCCAAGTA
* *
24799190 CCTTCGGGATTTA-ACCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
*
24799229 CCTTCGAGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * * * *
24799269 CCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGAT-ATAGCAACTCGCACAAATG
*
24799309 CCTTCGGGACTTATCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
24799332 CATTCAAATG
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 12 0.13
40 74 0.83
41 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:24806540 original size:43 final size:42
Alignment explanation
Indices: 24806458--24806540 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
24806448 ATGATTGTTG
* *
24806458 AAAGGGCTTTCCCGAAGACCTCTTACGAAATTCTCTTGCTTC
1 AAAGGGCTTCCCCGAAGACCTCTTACGAAATCCTCTTGCTTC
*
24806500 NAAAGGGCTTCCCCGAAGATCTCTTACGAAACTCCT-TTGCT
1 -AAAGGGCTTCCCCGAAGACCTCTTACGAAA-TCCTCTTGCT
24806541 CCCATATCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 33 0.92
44 3 0.08
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (42 bp):
AAAGGGCTTCCCCGAAGACCTCTTACGAAATCCTCTTGCTTC
Found at i:24808818 original size:40 final size:40
Alignment explanation
Indices: 24808749--24808954 Score: 317
Period size: 40 Copynumber: 5.2 Consensus size: 40
24808739 AACCCAAGTA
* * *
24808749 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
24808788 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
24808828 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
24808868 CCTT-GGGAACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGG-ACTTAGCCCGGATATAGTAACTAGCACAAATG
*
24808908 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
24808948 CCTTCGG
1 CCTTCGG
24808955 ATCTTAGTCC
Statistics
Matches: 154, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 135 0.88
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:24810387 original size:13 final size:13
Alignment explanation
Indices: 24810371--24810398 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24810361 TTTATTATTT
24810371 TTAACACAAAATA
1 TTAACACAAAATA
24810384 TTAACACAAAATA
1 TTAACACAAAATA
24810397 TT
1 TT
24810399 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:24813025 original size:47 final size:45
Alignment explanation
Indices: 24812914--24813225 Score: 306
Period size: 47 Copynumber: 6.7 Consensus size: 45
24812904 TATATGTGCT
* * *
24812914 GATGCATGTCCCAGACATGTCTTACACTAGCAC-AACTCTT-AGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-TCTTGGGCC
* * * *
24812958 GATGCGTGTCCCATATATGTCCTACACTGGCTA-TCATCGTTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATC-TTG-GGCC
* * * *
24813005 AATGCATGTCCCAGACATGTCTTACTCTGGCACTCGTCTCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCT-TGGGCC
* **
24813051 GATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTTG-GGCC
* * *
24813099 GATGCATGTCCCAGACATGTCTTACTCTGGCACTCGTCTCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCT-TGGGCC
* **
24813145 GATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTTG-GGCC
*
24813193 GATGCATGTCCCAGACATGTATTACACTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
24813226 ACAAGAAATT
Statistics
Matches: 218, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
44 28 0.13
45 4 0.02
46 44 0.20
47 96 0.44
48 46 0.21
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTTGGGCC
Found at i:24813116 original size:94 final size:94
Alignment explanation
Indices: 24812863--24813225 Score: 452
Period size: 94 Copynumber: 3.9 Consensus size: 94
24812853 GATAAGTTGT
* * * *
24812863 CGATGCCATGTCCTAGACATGGTCTTATACTAGCTCTCGTATATATGT-GCTGATGCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTC--ATA-ATGTGGCCGATGCATGTCCCA
* * *
24812927 GACATGTCTTACACTAGCACAAC-TCT-T-AGC
63 GACATGTCTTACACTGGCAC-TCGTCTCTGTGC
* * * * * ** * *
24812957 CGATG-CGTGTCCCATATAT-GTCCTACACTGGCTA-TCATCGTTGAGGCCAATGCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGC-ACTCAT-AATGTGGCCGATGCATGTCCCAG
*
24813019 ACATGTCTTACTCTGGCACTCGTCTCTGTGC
64 ACATGTCTTACACTGGCACTCGTCTCTGTGC
24813050 CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGAC
*
24813115 ATGTCTTACTCTGGCACTCGTCTCTGTGC
66 ATGTCTTACACTGGCACTCGTCTCTGTGC
24813144 CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGAC
*
24813209 ATGTATTACACTGGCAC
66 ATGTCTTACACTGGCAC
24813226 ACAAGAAATT
Statistics
Matches: 232, Mismatches: 28, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
90 5 0.02
91 35 0.15
92 13 0.06
93 17 0.07
94 147 0.63
95 15 0.06
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCACTCGTCTCTGTGC
Found at i:24813129 original size:141 final size:140
Alignment explanation
Indices: 24812865--24813225 Score: 355
Period size: 141 Copynumber: 2.6 Consensus size: 140
24812855 TAAGTTGTCG
* * * *
24812865 ATGCCATGTCCTAGACATGGTCTTATACTAGCTCTCGTATATATGT-GCTGATGCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTATACTGGCACTC--ATA-ATGTGGCCGATGCATGTCCCAGA
* * * * * * * *
24812929 CATGTCTTACACTAGCA--CA-ACTCTTAGCCGATGCGTGTCCCATATATGTCCTACACTGGCTA
63 CATGTATTACACTGGCACTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCCTACACTGGC-A
24812991 -TCATCGT-TGAGGCCA
126 CTCATC-TCTG-GGCCA
* * *
24813006 ATG-CATGTCCCAGACAT-GTCTTACT-CTGGCACTCGT-CTCTGTGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTA-TACTGGCACTCATAATGTG-GCCGATG-CATGTCCCAGA
* * * *
24813067 CATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACTCTGGCAC
63 CAT-GTATTACACTGGCACTCATAATGTGGCCGATGCATGTCCCAGACATGTCCTACACTGGCAC
* * *
24813132 TCGTCTCTGTGCCG
127 TCATCTCTGGGCCA
24813146 ATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGACAT
24813211 GTATTACACTGGCAC
66 GTATTACACTGGCAC
24813226 ACAAGAAATT
Statistics
Matches: 181, Mismatches: 25, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
135 2 0.01
137 7 0.04
138 14 0.08
139 25 0.14
140 35 0.19
141 70 0.39
142 25 0.14
143 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (140 bp):
ATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCATGTCCCAGACAT
GTATTACACTGGCACTCATAATGTGGCCGATGCATGTCCCAGACATGTCCTACACTGGCACTCAT
CTCTGGGCCA
Found at i:24813584 original size:30 final size:30
Alignment explanation
Indices: 24813550--24813607 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
24813540 AAATTCACAT
* *
24813550 CTTTGGAAAAATGATCATTTTGCCCCTAAA
1 CTTTGGAAAAATGACCATTTTACCCCTAAA
*
24813580 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGAAAAATGACCATTTTACCCCTA
24813608 TGCTCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGAAAAATGACCATTTTACCCCTAAA
Found at i:24814918 original size:26 final size:26
Alignment explanation
Indices: 24814882--24814949 Score: 120
Period size: 26 Copynumber: 2.6 Consensus size: 26
24814872 ACGGTGGCAC
24814882 TTGGGCCTTAGCCCATGTAGCCTCAG
1 TTGGGCCTTAGCCCATGTAGCCTCAG
24814908 TTGGGCCTTAGCCCATGTAGCCTCAG
1 TTGGGCCTTAGCCCATGTAGCCTCAG
24814934 TTGGG-CTTGAGCCCAT
1 TTGGGCCTT-AGCCCAT
24814950 ATCACAATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 3 0.07
26 38 0.93
ACGTcount: A:0.15, C:0.29, G:0.28, T:0.28
Consensus pattern (26 bp):
TTGGGCCTTAGCCCATGTAGCCTCAG
Found at i:24818572 original size:48 final size:48
Alignment explanation
Indices: 24818331--24818564 Score: 387
Period size: 48 Copynumber: 4.9 Consensus size: 48
24818321 GATTAGTCAA
* * *
24818331 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
*
24818379 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGCGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
*
24818427 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAGATATGTAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
* *
24818475 ATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTGT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
* *
24818523 ATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
24818565 GTGTGTATAT
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 175 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTAT
Found at i:24818760 original size:37 final size:37
Alignment explanation
Indices: 24818705--24818807 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
24818695 GGAAATATAT
24818705 TCCGGGTAAGA-CTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCT-GATGACTACGTGTGGAGATTATG
* *
24818742 TCCGGGTAAGACCTGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
* * *
24818779 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCTGATGACTACGTGTGG
24818808 GGACTATTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 57 0.97
38 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
Found at i:24822729 original size:47 final size:47
Alignment explanation
Indices: 24822654--24822867 Score: 156
Period size: 46 Copynumber: 4.6 Consensus size: 47
24822644 TAAGGCGCCT
* *
24822654 ATGCCATGTCCTAGACATGGTCTCACACTCACTCAT-ATCTC-AAGTCA
1 ATGCCATGTCCCAGACAT-GTCTTACACTCACT-ATCATCTCGAAGTCA
* * * *
24822701 ATGCCATTTCCCAGACATAGTCTTACACTGACTATCATCTCGTAGTCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTCACTATCATCTCGAAGTCA
** * * * *
24822749 ATG-CATGTCCCAGACATGTCTTACACTGGCT-TGCGTCTCGAGGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTCACTAT-CATCTCGAAGTCA
* * *
24822795 ATG-CATGTCCCAAACATGTCTTACACT-AGCCT-TCGTCTC-AATGTCG
1 ATGCCATGTCCCAGACATGTCTTACACTCA--CTATCATCTCGAA-GTCA
*
24822841 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCCAGACAT-GTCTTACA
24822868 TTGGCTCTCA
Statistics
Matches: 140, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 62 0.44
47 61 0.44
48 15 0.11
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGTCTTACACTCACTATCATCTCGAAGTCA
Found at i:24822788 original size:46 final size:47
Alignment explanation
Indices: 24822709--24822915 Score: 194
Period size: 46 Copynumber: 4.4 Consensus size: 47
24822699 CAATGCCATT
* *
24822709 TCCCAGACATAGTCTTACACTGACTATCATCTCGTA-GTCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCATCTCGTAGGCCGATGCATG
*
24822756 TCCCAGACATGTCTTACACTGGCT-TGCGTCTCG-AGGCCGATGCATG
1 TCCCAGACATGTCTTACACTGGCTAT-CATCTCGTAGGCCGATGCATG
* * * * * *
24822802 TCCCAAACATGTCTTACACTAGCCT-TCGTCTC-AATGTCGATGCCATG
1 TCCCAGACATGTCTTACACT-GGCTATCATCTCGTAGGCCGATG-CATG
* * * *
24822849 TCCTAGACATGGTCTTACATTGGCTCTCATAAT-GT-GGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGGCTATCAT-CTCGTAGGCCGATGCATG
24822896 TCCCAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
24822916 AGCTCTCACA
Statistics
Matches: 133, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
45 2 0.02
46 70 0.53
47 42 0.32
48 18 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
TCCCAGACATGTCTTACACTGGCTATCATCTCGTAGGCCGATGCATG
Found at i:24827904 original size:40 final size:40
Alignment explanation
Indices: 24827802--24827937 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
24827792 TATTATAATC
* * * *
24827802 TCGCACACTTAGTGCCTTT-CATAGTCGAAGCTATTTCAAT
1 TCGCACACTAAGTG-CTTTATATAGCCGAAGCTATTTCGAT
* * ** *
24827842 CTCTCACATTAAGTGCCATATATAGCCTAAGCTATTTCGAT
1 -TCGCACACTAAGTGCTTTATATAGCCGAAGCTATTTCGAT
24827883 TCGCACACTAAGTGCTTTATATAGCCGAAGCTA-TTCTGAT
1 TCGCACACTAAGTGCTTTATATAGCCGAAGCTATTTC-GAT
24827923 TCGCACACTAAGTGC
1 TCGCACACTAAGTGC
24827938 CAAACATAGT
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.04
40 48 0.61
41 28 0.35
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (40 bp):
TCGCACACTAAGTGCTTTATATAGCCGAAGCTATTTCGAT
Found at i:24828408 original size:29 final size:29
Alignment explanation
Indices: 24828344--24828409 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
24828334 CTTTCATTTA
* *
24828344 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
24828373 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
24828401 TTTACTCAA
1 TTT-CTCAA
24828410 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:24830419 original size:27 final size:26
Alignment explanation
Indices: 24830375--24830426 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
24830365 CTCGCTGTAA
*
24830375 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
24830402 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
24830427 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:24830500 original size:30 final size:31
Alignment explanation
Indices: 24830442--24830501 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
24830432 CTCGCTGCAA
* *
24830442 TCTGGTGGCTTCGCCACATATATATATCTGT
1 TCTGGTGGCCTAGCCACATATATATATCTGT
*
24830473 TCTGGTGGCCTAGCCACA-ATCTATATCTG
1 TCTGGTGGCCTAGCCACATATATATATCTG
24830502 GTGACTTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (31 bp):
TCTGGTGGCCTAGCCACATATATATATCTGT
Found at i:24833661 original size:42 final size:42
Alignment explanation
Indices: 24833586--24833738 Score: 193
Period size: 42 Copynumber: 3.6 Consensus size: 42
24833576 TGAGACTATT
**
24833586 TGTAAGACCATATAT-GGATATGGCATC-ATTATGAGATTTTG
1 TGTAAGACCATATATGGGATATGGCATCGA-TATGAGATTTCA
24833627 TGTAAGACCATATATGGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATATGGGATATGGCATCGATATGAGATTTCA
** * * *
24833669 TGTAAGACCATAGCTGGGCTATTGGTATCGATATGAGATTACA
1 TGTAAGACCATATATGGGATA-TGGCATCGATATGAGATTTCA
* *
24833712 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATATGGGATATGGCAT
24833739 TGGTATAGTA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 15 0.15
42 45 0.46
43 38 0.39
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATATGGGATATGGCATCGATATGAGATTTCA
Found at i:24836871 original size:19 final size:19
Alignment explanation
Indices: 24836847--24836893 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
24836837 TGTGTGGGAT
24836847 AGCCACATGGCCATGTTAG
1 AGCCACATGGCCATGTTAG
24836866 AGCCACATGGCCATGTTAG
1 AGCCACATGGCCATGTTAG
24836885 AGCCACATG
1 AGCCACATG
24836894 AGTTGGGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (19 bp):
AGCCACATGGCCATGTTAG
Found at i:24838373 original size:31 final size:31
Alignment explanation
Indices: 24838337--24838400 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
24838327 TTTTATTTTG
24838337 CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
1 CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
24838368 CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
1 CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
24838399 CT
1 CT
24838401 GAACTATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.16, C:0.20, G:0.34, T:0.30
Consensus pattern (31 bp):
CTACTGAGGCCGTGTGGGAGTTTTGGTCAAC
Found at i:24839441 original size:13 final size:14
Alignment explanation
Indices: 24839411--24839442 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
24839401 ATATTATATG
24839411 CATTTTTTATTTAA
1 CATTTTTTATTTAA
24839425 -ATTTTTTA-TTAA
1 CATTTTTTATTTAA
24839437 CATTTT
1 CATTTT
24839443 AATATACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
CATTTTTTATTTAA
Found at i:24841003 original size:39 final size:39
Alignment explanation
Indices: 24840944--24841076 Score: 223
Period size: 39 Copynumber: 3.4 Consensus size: 39
24840934 GATAGTAGAA
* *
24840944 GGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCATGTT
1 GGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGCT
24840983 GGT-TGTATATCCGGGCTAAGTCCTGAAGGCATTCATGCT
1 GGTGT-TATATCCGGGCTAAGTCCTGAAGGCATTCATGCT
*
24841022 GGTGTTATATCCGGGCTAAGTCCTTAAGGCATTCATGCT
1 GGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGCT
24841061 GGTGTTATATCCGGGC
1 GGTGTTATATCCGGGC
24841077 AGTGATATGT
Statistics
Matches: 89, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
38 1 0.01
39 87 0.98
40 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.32
Consensus pattern (39 bp):
GGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCATGCT
Found at i:24841198 original size:39 final size:39
Alignment explanation
Indices: 24841144--24841279 Score: 121
Period size: 39 Copynumber: 3.4 Consensus size: 39
24841134 TAATATATAT
** * *
24841144 ATCCGGGTTAAGTCCCGAATGCATTCATGCTGGTGTTAC
1 ATCCGGGCAAAGTCCCGAAGGCATTCATGCTGGTATTAC
* ** *
24841183 ATCCGGGCAAAGTCCCGCAGGCATTTGTGCTGGTATTAT
1 ATCCGGGCAAAGTCCCGAAGGCATTCATGCTGGTATTAC
* ** *
24841222 ATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTATTAT
1 ATCCGGGC-AAAGTCCCGAAGGCATTCATGCTGGTATTAC
*
24841261 ATCCAGGCTTAAAGTCCCG
1 ATCCGGGC--AAAGTCCCG
24841280 CATGCTTTGT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 62 0.72
40 24 0.28
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (39 bp):
ATCCGGGCAAAGTCCCGAAGGCATTCATGCTGGTATTAC
Found at i:24841274 original size:40 final size:39
Alignment explanation
Indices: 24841171--24841295 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
24841161 AATGCATTCA
* * *
24841171 TGCTGGTGTTACATCCGGGC-AAAGTCCCGCAGGCATTTG
1 TGCTGGTATTATATCCAGGCTAAAGTCCCGCAGGC-TTTG
*
24841210 TGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTTG
1 TGCTGGTATTATATCCAGGCTAAAGTCCCGCAGGCTTTG
*
24841249 TGCTGGTATTATATCCAGGCTTAAAGTCCCGCATGCTTTG
1 TGCTGGTATTATATCCAGGC-TAAAGTCCCGCAGGCTTTG
*
24841289 TGGTGGT
1 TGCTGGT
24841296 GATTGGATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 41 0.52
40 38 0.48
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (39 bp):
TGCTGGTATTATATCCAGGCTAAAGTCCCGCAGGCTTTG
Found at i:24852474 original size:30 final size:29
Alignment explanation
Indices: 24852395--24852479 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
24852385 AGTGTAATAG
* *
24852395 AGAACAGTCACAGAGGCTTCCACTTATCAA
1 AGAACAGT-ACAAAGGCTTCCACATATCAA
* * * * *
24852425 AGAAAAGCCATAAATGCTTCCACATATCTA
1 AGAACAG-TACAAAGGCTTCCACATATCAA
24852455 AGAACAGATACAAAGGCTTCCACAT
1 AGAACAG-TACAAAGGCTTCCACAT
24852480 TTCAGTAAAT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.20
Consensus pattern (29 bp):
AGAACAGTACAAAGGCTTCCACATATCAA
Found at i:24852649 original size:51 final size:53
Alignment explanation
Indices: 24852594--24852731 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 53
24852584 AGGCAACGTG
*
24852594 ATAGTCCTAGAATAGGTCTTACACTATATGGT-TTTT-CCCCCATATGATGCC
1 ATAGTCCTAGACTAGGTCTTACACTATATGGTCTTTTCCCCCCATATGATGCC
* *
24852645 ATAGTCCTAGACTAGGTCTTACACT-TATGGTCTTTTCCCCCCATTTGATGTC
1 ATAGTCCTAGACTAGGTCTTACACTATATGGTCTTTTCCCCCCATATGATGCC
* ** *
24852697 ATACTTTTAGACTAGATCTTACACTATATGGTCTT
1 ATAGTCCTAGACTAGGTCTTACACTATATGGTCTT
24852732 CTTGCCATGG
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
50 6 0.08
51 28 0.36
52 34 0.44
53 9 0.12
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (53 bp):
ATAGTCCTAGACTAGGTCTTACACTATATGGTCTTTTCCCCCCATATGATGCC
Found at i:24861804 original size:27 final size:27
Alignment explanation
Indices: 24861743--24861848 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
24861733 CCACATAGGT
* * *
24861743 GTTCCTTTCACATTGCACCATAAAGGCA
1 GTTCCTTTCATATTGCACCACAAA-GAA
*
24861771 -TTTCTTTCATATTGCACCACAAAGAA
1 GTTCCTTTCATATTGCACCACAAAGAA
*
24861797 GTTCCTTTCATATTTCATCC-CAAAGAA
1 GTTCCTTTCATATTGCA-CCACAAAGAA
* *
24861824 GTTCCTTTCATATTGCGCCATAAAG
1 GTTCCTTTCATATTGCACCACAAAG
24861849 GCTATCATAC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.06
27 60 0.91
28 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (27 bp):
GTTCCTTTCATATTGCACCACAAAGAA
Found at i:24862194 original size:75 final size:76
Alignment explanation
Indices: 24862085--24862225 Score: 214
Period size: 75 Copynumber: 1.9 Consensus size: 76
24862075 CAGAGTTCGC
* * *
24862085 CACAAAGCCTTCTTTTTCAGAATTAGCCATAAAGGCTTCCTTTTTAGTGGTAGTC-ATAAAGGCT
1 CACAAAGCCTTCCTTTTCAGAATTAGCCACAAAGGCTTCATTTTTAGTGGTAG-CAATAAAGGCT
24862149 TCACTAATTAGT
65 TCACTAATTAGT
* *
24862161 CACAAAGGCTTCCTTTTCA-AATTAGCCACAAAGGCTTCATTTTTAGTGTTAGCAATAAAGGCTT
1 CACAAAGCCTTCCTTTTCAGAATTAGCCACAAAGGCTTCATTTTTAGTGGTAGCAATAAAGGCTT
24862225 C
66 C
24862226 CTTTCCTAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
74 1 0.02
75 41 0.69
76 17 0.29
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (76 bp):
CACAAAGCCTTCCTTTTCAGAATTAGCCACAAAGGCTTCATTTTTAGTGGTAGCAATAAAGGCTT
CACTAATTAGT
Found at i:24862212 original size:27 final size:27
Alignment explanation
Indices: 24861889--24862229 Score: 241
Period size: 27 Copynumber: 12.9 Consensus size: 27
24861879 ATTCTTTCGA
* * *
24861889 AGTTCGCCACAAAGGCTCCCTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* ** * *
24861916 TGTTAGCTGCAAAGGCTTCCTTTTAAA
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
**
24861943 AGTTAGCCACAAAGGCTTTTTTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * * * **
24861970 TGTTTGCCATAAAGACTTTATTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* *
24861997 TGTTCA-CCAAAAAGGCTTCCTTTTTAG
1 AGTT-AGCCACAAAGGCTTCCTTTTTAG
* *
24862024 AGTTAGCCACAAATGCTTCCTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * * *
24862051 AGTTTGCCACAAAGCCTTTCTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* *
24862078 AGTTCGCCACAAAGCCTT-CTTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTT-AG
* *
24862105 AATTAGCCATAAAGGCTTCCTTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * * *
24862132 TGGTAGTCATAAAGGCTTCAC----TA-
1 AGTTAGCCACAAAGGCTTC-CTTTTTAG
* *
24862155 A-TTAGTCACAAAGGCTTCCTTTTCA-
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* *
24862180 AATTAGCCACAAAGGCTTCATTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * *
24862207 TGTTAGCAATAAAGGCTTCCTTT
1 AGTTAGCCACAAAGGCTTCCTTT
24862230 CCTAATGTGT
Statistics
Matches: 249, Mismatches: 54, Indels: 22
0.77 0.17 0.07
Matches are distributed among these distances:
21 1 0.00
22 15 0.06
24 2 0.01
25 2 0.01
26 27 0.11
27 195 0.78
28 7 0.03
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
AGTTAGCCACAAAGGCTTCCTTTTTAG
Found at i:24862966 original size:14 final size:14
Alignment explanation
Indices: 24862942--24862981 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
24862932 CCATTTGTTT
24862942 TTCTA-AAAATG-G
1 TTCTAGAAAATGAG
24862954 CTTCTAGAAAATGAG
1 -TTCTAGAAAATGAG
24862969 TTCTAGAAAATGA
1 TTCTAGAAAATGA
24862982 CTTACTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.20
14 19 0.76
15 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (14 bp):
TTCTAGAAAATGAG
Found at i:24863697 original size:27 final size:27
Alignment explanation
Indices: 24863636--24863741 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
24863626 CCACATAGGT
* * *
24863636 GTTCCTTTCACATTGCACCATAAAGGCA
1 GTTCCTTTCATATTGCACCACAAA-GAA
*
24863664 -TTTCTTTCATATTGCACCACAAAGAA
1 GTTCCTTTCATATTGCACCACAAAGAA
*
24863690 GTTCCTTTCATATTTCATCC-CAAAGAA
1 GTTCCTTTCATATTGCA-CCACAAAGAA
* *
24863717 GTTCCTTTCATATTGCGCCATAAAG
1 GTTCCTTTCATATTGCACCACAAAG
24863742 GCTATCATAC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.06
27 60 0.91
28 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (27 bp):
GTTCCTTTCATATTGCACCACAAAGAA
Found at i:24864087 original size:75 final size:76
Alignment explanation
Indices: 24863978--24864118 Score: 214
Period size: 75 Copynumber: 1.9 Consensus size: 76
24863968 CAGAGTTCGC
* * *
24863978 CACAAAGCCTTCTTTTTCAGAATTAGCCATAAAGGCTTCCTTTTTAGTGGTAGTC-ATAAAGGCT
1 CACAAAGCCTTCCTTTTCAGAATTAGCCACAAAGGCTTCATTTTTAGTGGTAG-CAATAAAGGCT
24864042 TCACTAATTAGT
65 TCACTAATTAGT
* *
24864054 CACAAAGGCTTCCTTTTCA-AATTAGCCACAAAGGCTTCATTTTTAGTGTTAGCAATAAAGGCTT
1 CACAAAGCCTTCCTTTTCAGAATTAGCCACAAAGGCTTCATTTTTAGTGGTAGCAATAAAGGCTT
24864118 C
66 C
24864119 CTTTCCTAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
74 1 0.02
75 41 0.69
76 17 0.29
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.34
Consensus pattern (76 bp):
CACAAAGCCTTCCTTTTCAGAATTAGCCACAAAGGCTTCATTTTTAGTGGTAGCAATAAAGGCTT
CACTAATTAGT
Found at i:24864105 original size:27 final size:27
Alignment explanation
Indices: 24863782--24864122 Score: 241
Period size: 27 Copynumber: 12.9 Consensus size: 27
24863772 ATTCTTTCGA
* * *
24863782 AGTTCGCCACAAAGGCTCCCTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* ** * *
24863809 TGTTAGCTGCAAAGGCTTCCTTTTAAA
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
**
24863836 AGTTAGCCACAAAGGCTTTTTTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * * * **
24863863 TGTTTGCCATAAAGACTTTATTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* *
24863890 TGTTCA-CCAAAAAGGCTTCCTTTTTAG
1 AGTT-AGCCACAAAGGCTTCCTTTTTAG
* *
24863917 AGTTAGCCACAAATGCTTCCTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * * *
24863944 AGTTTGCCACAAAGCCTTTCTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* *
24863971 AGTTCGCCACAAAGCCTT-CTTTTTCAG
1 AGTTAGCCACAAAGGCTTCCTTTTT-AG
* *
24863998 AATTAGCCATAAAGGCTTCCTTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * * *
24864025 TGGTAGTCATAAAGGCTTCAC----TA-
1 AGTTAGCCACAAAGGCTTC-CTTTTTAG
* *
24864048 A-TTAGTCACAAAGGCTTCCTTTTCA-
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* *
24864073 AATTAGCCACAAAGGCTTCATTTTTAG
1 AGTTAGCCACAAAGGCTTCCTTTTTAG
* * *
24864100 TGTTAGCAATAAAGGCTTCCTTT
1 AGTTAGCCACAAAGGCTTCCTTT
24864123 CCTAATGTGT
Statistics
Matches: 249, Mismatches: 54, Indels: 22
0.77 0.17 0.07
Matches are distributed among these distances:
21 1 0.00
22 15 0.06
24 2 0.01
25 2 0.01
26 27 0.11
27 195 0.78
28 7 0.03
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (27 bp):
AGTTAGCCACAAAGGCTTCCTTTTTAG
Found at i:24864859 original size:14 final size:14
Alignment explanation
Indices: 24864835--24864874 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
24864825 CCATTTGTTT
24864835 TTCTA-AAAATG-G
1 TTCTAGAAAATGAG
24864847 CTTCTAGAAAATGAG
1 -TTCTAGAAAATGAG
24864862 TTCTAGAAAATGA
1 TTCTAGAAAATGA
24864875 CTTACTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.20
14 19 0.76
15 1 0.04
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (14 bp):
TTCTAGAAAATGAG
Found at i:24871522 original size:24 final size:24
Alignment explanation
Indices: 24871495--24871575 Score: 117
Period size: 24 Copynumber: 3.3 Consensus size: 24
24871485 AAGGTCATGA
24871495 ATTGATTAAATGAAGGAATTTAAC
1 ATTGATTAAATGAAGGAATTTAAC
*
24871519 ATTGATTAAATGAAGGAATTTAAT
1 ATTGATTAAATGAAGGAATTTAAC
* *
24871543 ATTTATTAAATGAAAGAATTTAATC
1 ATTGATTAAATGAAGGAATTTAA-C
*
24871568 ATTAATTA
1 ATTGATTA
24871576 GCTACTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 44 0.86
25 7 0.14
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.38
Consensus pattern (24 bp):
ATTGATTAAATGAAGGAATTTAAC
Found at i:24872059 original size:20 final size:20
Alignment explanation
Indices: 24872030--24872084 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
24872020 GTGGTCACAT
*
24872030 ACGCCTGTGTGACTCAAGAC
1 ACGCCCGTGTGACTCAAGAC
**
24872050 ACGCCCGTGTGACTCGGGAC
1 ACGCCCGTGTGACTCAAGAC
*
24872070 ACGCCCGTGTAACTC
1 ACGCCCGTGTGACTC
24872085 TCTGACTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.27, T:0.18
Consensus pattern (20 bp):
ACGCCCGTGTGACTCAAGAC
Found at i:24876919 original size:51 final size:51
Alignment explanation
Indices: 24876864--24877024 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
24876854 CTGATCACAT
*
24876864 TTATCACTTGTCACTGATCATATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
24876915 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
24876966 TTTTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
24877017 TTGTCACT
1 TTATCACT
24877025 GATCAGAAGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 104 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:24892101 original size:31 final size:32
Alignment explanation
Indices: 24892060--24892123 Score: 121
Period size: 31 Copynumber: 2.0 Consensus size: 32
24892050 TGTATGCATT
24892060 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
24892092 TTAG-ATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
24892123 T
1 T
24892124 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.39
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:24893634 original size:26 final size:26
Alignment explanation
Indices: 24893604--24893656 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
24893594 TTTATAGTTT
24893604 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
24893630 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
24893656 T
1 T
24893657 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:24898788 original size:24 final size:24
Alignment explanation
Indices: 24898736--24898890 Score: 158
Period size: 24 Copynumber: 6.4 Consensus size: 24
24898726 CAACTCATAT
*
24898736 GAGCTTACTGATATATCAGCTCATAA
1 GAGCTTACTGAT-T-TCAGCTCGTAA
* *
24898762 GAGCTTACTGATCTCAGCTCGTCA
1 GAGCTTACTGATTTCAGCTCGTAA
24898786 GAGCTTACTG-TTTCCAGCTCGTAA
1 GAGCTTACTGATTT-CAGCTCGTAA
24898810 GAGCTTACTG-TTTCAAGCTCGTAA
1 GAGCTTACTGATTTC-AGCTCGTAA
* *
24898834 GAGCTTACTGTTTTTAGCTCGTCAA
1 GAGCTTACTGATTTCAGCTCGT-AA
* *
24898859 -AGCTTAC-CATTTCAGCTC-AATA
1 GAGCTTACTGATTTCAGCTCGTA-A
24898881 GAGCTTACTG
1 GAGCTTACTG
24898891 TCCATCAGCT
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 18 0.16
24 74 0.67
25 5 0.05
26 12 0.11
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (24 bp):
GAGCTTACTGATTTCAGCTCGTAA
Found at i:24898855 original size:72 final size:72
Alignment explanation
Indices: 24898736--24898915 Score: 204
Period size: 72 Copynumber: 2.5 Consensus size: 72
24898726 CAACTCATAT
* **
24898736 GAGCTTACTGATATATCAGCTCATAAGAGCTTACTGATCTCAGCTCGTCAGAGCTTACTGTTTCC
1 GAGCTTACTG-TATATCAGCTCATAAGAGCTTACTGATCTCAGCTCGTCAAAGCTTACCATTT-C
*
24898801 AGCTC-GTAA
64 AGCTCAAT-A
* * * *
24898810 GAGCTTACTGT-T-TCAAGCTCGTAAGAGCTTACTGTTTTTAGCTCGTCAAAGCTTACCATTTCA
1 GAGCTTACTGTATATC-AGCTCATAAGAGCTTACTGATCTCAGCTCGTCAAAGCTTACCATTTCA
24898873 GCTCAATA
65 GCTCAATA
**
24898881 GAGCTTACTGTCCATCAGCTCATAAGGAGCTTACT
1 GAGCTTACTGTATATCAGCTCATAA-GAGCTTACT
24898916 AATCATAGCT
Statistics
Matches: 91, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
71 20 0.22
72 49 0.54
73 12 0.13
74 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (72 bp):
GAGCTTACTGTATATCAGCTCATAAGAGCTTACTGATCTCAGCTCGTCAAAGCTTACCATTTCAG
CTCAATA
Found at i:24899088 original size:19 final size:19
Alignment explanation
Indices: 24899060--24899123 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
24899050 AAAAGCTATG
*
24899060 TGTTACATGGGTGAATTAC
1 TGTTATATGGGTGAATTAC
* * *
24899079 TGTTATATGGATAAAGTAC
1 TGTTATATGGGTGAATTAC
* * *
24899098 TGTTTAAACGGGTGAGTTAC
1 TG-TTATATGGGTGAATTAC
24899118 TGTTAT
1 TGTTAT
24899124 CGAATGATTT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
19 20 0.61
20 13 0.39
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (19 bp):
TGTTATATGGGTGAATTAC
Found at i:24900304 original size:16 final size:17
Alignment explanation
Indices: 24900283--24900315 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
24900273 GTTTGAGTTT
24900283 AAATGATG-AATGTATG
1 AAATGATGTAATGTATG
24900299 AAATGATGTAATGTATG
1 AAATGATGTAATGTATG
24900316 CTAAATGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (17 bp):
AAATGATGTAATGTATG
Found at i:24901290 original size:17 final size:19
Alignment explanation
Indices: 24901263--24901298 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
24901253 GTCATTCTAT
24901263 TTGACAGAGCTT-GCAAAG
1 TTGACAGAGCTTAGCAAAG
24901281 TTGA-AGAGCTTAGCAAAG
1 TTGACAGAGCTTAGCAAAG
24901299 AGAAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (19 bp):
TTGACAGAGCTTAGCAAAG
Found at i:24903195 original size:17 final size:19
Alignment explanation
Indices: 24903153--24903196 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
24903143 ATGAAATTTT
*
24903153 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
24903172 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
24903190 AA-TATTA
1 AATTATTA
24903197 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:24905789 original size:20 final size:20
Alignment explanation
Indices: 24905764--24905801 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
24905754 GTACGGGTGG
*
24905764 AGTGTAGCGTTTGGTTATGT
1 AGTGTAGCGGTTGGTTATGT
24905784 AGTGTAGCGGTTGGTTAT
1 AGTGTAGCGGTTGGTTAT
24905802 AGGCTGGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.05, G:0.37, T:0.42
Consensus pattern (20 bp):
AGTGTAGCGGTTGGTTATGT
Found at i:24913599 original size:18 final size:18
Alignment explanation
Indices: 24913569--24913634 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
24913559 GGCCCATTCT
*
24913569 GTAA-CAGTAGCAGTGGCA
1 GTAATCAGT-GCAGTAGCA
*
24913587 GTAATCAGTGCAGTAACCA
1 GTAATCAGTGCAGT-AGCA
* *
24913606 -TGATCAATGCAGTAGCA
1 GTAATCAGTGCAGTAGCA
24913623 GTAATCAGTGCA
1 GTAATCAGTGCA
24913635 AAATGCAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
17 3 0.08
18 29 0.76
19 6 0.16
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (18 bp):
GTAATCAGTGCAGTAGCA
Found at i:24914021 original size:26 final size:26
Alignment explanation
Indices: 24913976--24914035 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
24913966 GAACAAATCT
* *
24913976 GTCATTTTACCTTACCGGGGTATTACA
1 GTCA-TTTACCCTACAGGGGTATTACA
*
24914003 GTCATTTACCCTACAGGGGTATTTCA
1 GTCATTTACCCTACAGGGGTATTACA
24914029 GTCATTT
1 GTCATTT
24914036 TATCACATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 26 0.87
27 4 0.13
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (26 bp):
GTCATTTACCCTACAGGGGTATTACA
Found at i:24914060 original size:27 final size:27
Alignment explanation
Indices: 24914029--24914156 Score: 166
Period size: 27 Copynumber: 4.7 Consensus size: 27
24914019 GGGTATTTCA
*
24914029 GTCATTTTATCACATAAGGGCAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
* *
24914056 ATCATTTTATCACATAAGAGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
24914083 GTCATTTTATCACATGAGGGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * *
24914110 GTCATTTTATCATATGAGGACAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
24914137 TTTATTTTATCACATAAGGG
1 GTCATTTTATCACATAAGGG
24914157 TTCAAGTACA
Statistics
Matches: 86, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.34
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:24917972 original size:27 final size:28
Alignment explanation
Indices: 24917938--24918159 Score: 196
Period size: 27 Copynumber: 8.2 Consensus size: 28
24917928 CCAGAAAGCA
* *
24917938 TTCC-TTTTCAAAATTAGCCACAAAGG-
1 TTCCTTTTTCAGAGTTAGCCACAAAGGC
* **
24917964 TTCCTTTTT-AGATTTTTCCACAAAGGC
1 TTCCTTTTTCAGAGTTAGCCACAAAGGC
**
24917991 TTCCTTTTT-AGAGTTAATCACAAAGGC
1 TTCCTTTTTCAGAGTTAGCCACAAAGGC
*
24918018 TTCCTTTTT-AGTGTTCA-CCACAAAGGC
1 TTCCTTTTTCAGAGTT-AGCCACAAAGGC
* *
24918045 TTCC-TTTTCAGAGTTAGTCATAAAGGC
1 TTCCTTTTTCAGAGTTAGCCACAAAGGC
* *
24918072 TT-CGTTTTCA-ATGTTAGCCACAAAAGC
1 TTCCTTTTTCAGA-GTTAGCCACAAAGGC
*
24918099 TTCC-TTTTCAAAGTTAGCCACAAAGGC
1 TTCCTTTTTCAGAGTTAGCCACAAAGGC
* * * *
24918126 TT-CTTTTTTAGTGTTAGCCTCAAAAGC
1 TTCCTTTTTCAGAGTTAGCCACAAAGGC
24918153 TTCCTTT
1 TTCCTTT
24918160 CCTGACGTGT
Statistics
Matches: 163, Mismatches: 22, Indels: 20
0.80 0.11 0.10
Matches are distributed among these distances:
26 25 0.15
27 131 0.80
28 7 0.04
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (28 bp):
TTCCTTTTTCAGAGTTAGCCACAAAGGC
Found at i:24918039 original size:54 final size:54
Alignment explanation
Indices: 24917932--24918159 Score: 255
Period size: 54 Copynumber: 4.2 Consensus size: 54
24917922 TGTTCGCCAG
* * * **
24917932 AAAGCATTCCTTTTCAAAATTAGCCACAAAGG-TTCCTTTTTAGAT-TTTTCCACA
1 AAAGC-TTCCTTTTCAGAGTTAGTCACAAAGGCTTCCTTTTTAG-TGTTAGCCACA
* * *
24917986 AAGGCTTCCTTTTTAGAGTTAATCACAAAGGCTTCCTTTTTAGTGTTCA-CCACA
1 AAAGCTTCCTTTTCAGAGTTAGTCACAAAGGCTTCCTTTTTAGTGTT-AGCCACA
* * * * *
24918040 AAGGCTTCCTTTTCAGAGTTAGTCATAAAGGCTTCGTTTTCAATGTTAGCCACA
1 AAAGCTTCCTTTTCAGAGTTAGTCACAAAGGCTTCCTTTTTAGTGTTAGCCACA
* * * *
24918094 AAAGCTTCCTTTTCAAAGTTAGCCACAAAGGCTTCTTTTTTAGTGTTAGCCTCA
1 AAAGCTTCCTTTTCAGAGTTAGTCACAAAGGCTTCCTTTTTAGTGTTAGCCACA
24918148 AAAGCTTCCTTT
1 AAAGCTTCCTTT
24918160 CCTGACGTGT
Statistics
Matches: 149, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
53 23 0.15
54 126 0.85
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (54 bp):
AAAGCTTCCTTTTCAGAGTTAGTCACAAAGGCTTCCTTTTTAGTGTTAGCCACA
Found at i:24918074 original size:81 final size:80
Alignment explanation
Indices: 24917932--24918159 Score: 223
Period size: 81 Copynumber: 2.8 Consensus size: 80
24917922 TGTTCGCCAG
* **
24917932 AAAGCATTCCTTTTCAAAATTAGCCACAAAGG-TTCCTTTTTAGA-TTTTTCCACAAAGGCTTCC
1 AAAGC-TTCCTTTTCAAAGTTAGCCACAAAGGCTTCCTTTTTAGAGTTAGT-CA-AAAGGCTTCC
* *
24917995 TTTTTAGA-GTTAATCACA
63 TTTTCA-ATGTTAACCACA
* * ** * *
24918013 AAGGCTTCCTTTTTAGTGTTCA-CCACAAAGGCTTCCTTTTCAGAGTTAGTCATAAAGGCTTCGT
1 AAAGCTTCCTTTTCAAAGTT-AGCCACAAAGGCTTCCTTTTTAGAGTTAGTCA-AAAGGCTTCCT
*
24918077 TTTCAATGTTAGCCACA
64 TTTCAATGTTAACCACA
* *
24918094 AAAGCTTCCTTTTCAAAGTTAGCCACAAAGGCTTCTTTTTTAGTGTTAGCCTCAAAA-GCTTCCT
1 AAAGCTTCCTTTTCAAAGTTAGCCACAAAGGCTTCCTTTTTAGAGTTAG--TCAAAAGGCTTCCT
24918158 TT
64 TT
24918160 CCTGACGTGT
Statistics
Matches: 119, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
80 22 0.18
81 88 0.74
82 6 0.05
83 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (80 bp):
AAAGCTTCCTTTTCAAAGTTAGCCACAAAGGCTTCCTTTTTAGAGTTAGTCAAAAGGCTTCCTTT
TCAATGTTAACCACA
Found at i:24921573 original size:19 final size:19
Alignment explanation
Indices: 24921549--24921590 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
24921539 ACAAAAGACA
*
24921549 TAATAGTAAAATATGAAAT
1 TAATAGTAAAATATGAAAC
*
24921568 TAATAGTAAAATGTGAAAC
1 TAATAGTAAAATATGAAAC
24921587 TAAT
1 TAAT
24921591 TTTATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.12, T:0.31
Consensus pattern (19 bp):
TAATAGTAAAATATGAAAC
Found at i:24938021 original size:40 final size:40
Alignment explanation
Indices: 24937966--24938059 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
24937956 NNNNNNNNNN
* *
24937966 CCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGT
1 CCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTAAGT
*
24938006 CCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGT
1 CCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGT
24938046 CCCGAAGGCATTTG
1 CCCGAAGGCATTTG
24938060 AACGAGGAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGT
Found at i:24945257 original size:80 final size:80
Alignment explanation
Indices: 24945080--24945290 Score: 196
Period size: 80 Copynumber: 2.6 Consensus size: 80
24945070 CCAAATTACG
* * * * * * *
24945080 AAAATACCC-CCAGTTGTAATATTACCAAAGTACCCCCGGTTTATAAAATTACCGAAATATCGTA
1 AAAATACCCTCGAATTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATAACCTA
*
24945144 GATTGTAAAATGACT
66 GATTGTAAAATGACC
** * * *
24945159 AAAATACCCTCGCCTTGTAAAATTACCCAAGTACCCCCAGTTTATAAAATTGCCCAAATAACCTC
1 AAAATACCCTCGAATTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATAACCTA
*
24945224 GATTTGTAAAATTACC
66 GA-TTGTAAAATGACC
* * * * *
24945240 GAAATACCGT-TAATTGTAAAATTACTGAAA-TACCCTC-GATTTATAAAATTA
1 AAAATACCCTCGAATTGTAAAATTAC-CAAAGTACCCCCAG-TTTATAAAATTA
24945291 TTGAAATACC
Statistics
Matches: 106, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
79 10 0.09
80 75 0.71
81 21 0.20
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (80 bp):
AAAATACCCTCGAATTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATAACCTA
GATTGTAAAATGACC
Found at i:24945290 original size:27 final size:27
Alignment explanation
Indices: 24945072--24945302 Score: 141
Period size: 27 Copynumber: 8.7 Consensus size: 27
24945062 TTAGTCTACC
* *
24945072 AAATTA-CGAAAATACCC-CCAGTTGTA
1 AAATTACCG-AAATACCCTCGATTTGTA
* * * *
24945098 ATATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCTCGATTTGTA
* * *
24945125 AAATTACCGAAATATCGTAGA-TTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* ** **
24945151 AAATGACTAAAATACCCTCGCCTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
24945178 AAATTACCCAAGTACCC-CCAGTTTATA
1 AAATTACCGAAATACCCTCGA-TTTGTA
* * *
24945205 AAATTGCCCAAATAACCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
24945232 AAATTACCGAAATACCGT-TAATTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
24945258 AAATTACTGAAATACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
**
24945285 AAATTATTGAAATACCCT
1 AAATTACCGAAATACCCT
24945303 TGTAGGGCAG
Statistics
Matches: 153, Mismatches: 44, Indels: 15
0.72 0.21 0.07
Matches are distributed among these distances:
25 3 0.02
26 51 0.33
27 94 0.61
28 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:24945316 original size:27 final size:27
Alignment explanation
Indices: 24945293--24945749 Score: 556
Period size: 27 Copynumber: 17.0 Consensus size: 27
24945283 TAAAATTATT
* *
24945293 GAAATACCCTTGTAGGGCAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
*
24945320 AAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
24945347 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* ** *
24945374 GAAATACCCCTGTAATGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
** * *
24945401 GAAATACCCCAGTAAGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* ** *
24945428 GAAATACGCAAGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
*
24945455 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
24945482 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
24945509 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
24945536 AAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* **
24945563 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
24945590 GAAATACCCCTGTAGGATAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
24945617 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * * *
24945644 GAAATACCCCTGTA-AGTAGAAGTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
24945670 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
24945697 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACC
*
24945724 GAAATACCCTTGTAGGTTAGAATTAC
1 GAAATACCCTTGTAGGGTAGAATTAC
24945750 TAAGATACCC
Statistics
Matches: 384, Mismatches: 45, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
26 22 0.06
27 362 0.94
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:24946520 original size:245 final size:245
Alignment explanation
Indices: 24946090--24946570 Score: 892
Period size: 245 Copynumber: 2.0 Consensus size: 245
24946080 TGTATCGATA
*
24946090 TTGTGGGCTTCGTGCCGATTATAGACCCGTCATCGATGGCTCTGTGCCAACCTAAATATGGCTTT
1 TTGTGGGCTTCGTGCCGATTATAGACCCGTCATCAATGGCTCTGTGCCAACCTAAATATGGCTTT
24946155 GTGTCATCTTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCCATGTGCCTAACATATTTG
66 GTGTCATCTTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCCATGTGCCTAACATATTTG
*
24946220 TTGACGACTCTGTGTCGATCATATTTACCGAAGGCTGTGTGCCAATTATATTACCGTCACTGATG
131 TTGACGACTCTGTGTCGATCATATTTACCGAAGGCTGTGAGCCAATTATATTACCGTCACTGATG
*
24946285 GCTATGTGCCGAAGTTATTACAGTTAT-TGATGGCTTTGTGCGTGCCGTTG
196 GCTATATGCCGAAGTTATTACAGTTATCT-ATGGCTTTGTGCGTGCCGTTG
* *
24946335 TTGTGGGCTTCGTGCCGATTATAGACCCGTTATTAATGGCTCTGTGCCAACCTAAATATGGCTTT
1 TTGTGGGCTTCGTGCCGATTATAGACCCGTCATCAATGGCTCTGTGCCAACCTAAATATGGCTTT
24946400 GTGTCATCTTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCCATGTGCCTAACATATTTG
66 GTGTCATCTTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCCATGTGCCTAACATATTTG
*
24946465 TTGACGACTCTGTGTCGATCATATTTACCGAAGGCTGTGAGCCAGTTATATTACCGTCACTGATG
131 TTGACGACTCTGTGTCGATCATATTTACCGAAGGCTGTGAGCCAATTATATTACCGTCACTGATG
24946530 GCTATATGCCGAAGTTATTACAGTTATCTATGGCTTTGTGC
196 GCTATATGCCGAAGTTATTACAGTTATCTATGGCTTTGTGC
24946571 CACGTATTCT
Statistics
Matches: 229, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
245 228 1.00
246 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (245 bp):
TTGTGGGCTTCGTGCCGATTATAGACCCGTCATCAATGGCTCTGTGCCAACCTAAATATGGCTTT
GTGTCATCTTGACTATGGCTTCGTGCCAAACGTATTTACCTGTAGCCATGTGCCTAACATATTTG
TTGACGACTCTGTGTCGATCATATTTACCGAAGGCTGTGAGCCAATTATATTACCGTCACTGATG
GCTATATGCCGAAGTTATTACAGTTATCTATGGCTTTGTGCGTGCCGTTG
Found at i:24946615 original size:27 final size:27
Alignment explanation
Indices: 24946593--24946667 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
24946583 TAGGTGGGTT
*
24946593 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
24946620 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
24946647 TGTCACGATATCTGT-TCTGGT
1 TGCCACAATATCTGTATCTGGT
24946668 AGCCATGCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 6 0.14
27 36 0.84
28 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:24946818 original size:6 final size:6
Alignment explanation
Indices: 24946807--24947053 Score: 197
Period size: 6 Copynumber: 40.8 Consensus size: 6
24946797 TTGTCACGTA
* * *
24946807 ATTCTG ATTCTG ATTTTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * * * *
24946855 ATTCTG -TTACTG ATTTTG ATTTTG ATTCTG -TCACCTA ATTCTG ATTCTA
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* * *
24946904 ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTATTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
* * *
24946952 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTTTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
24947001 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
24947049 ATTCT
1 ATTCT
24947054 CATTTTGGTT
Statistics
Matches: 193, Mismatches: 28, Indels: 40
0.74 0.11 0.15
Matches are distributed among these distances:
5 15 0.08
6 162 0.84
7 13 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:24946846 original size:30 final size:30
Alignment explanation
Indices: 24946782--24947053 Score: 298
Period size: 30 Copynumber: 9.4 Consensus size: 30
24946772 TTGTATTCAC
* * *
24946782 ATTCTGATTCTGATTTTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATACTG
*
24946813 ATTCTGATTTTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
24946843 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * * *
24946867 ATTTTGATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
*
24946898 ATTCTAATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
24946928 ATTCTGATTCTGATTCTG-T--T-AT--TG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
24946952 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
* *
24946983 ATTTTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
24947013 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
24947043 ATTCTGATTCT
1 ATTCTGATTCT
24947054 CATTTTGGTT
Statistics
Matches: 204, Mismatches: 23, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
24 41 0.20
26 3 0.01
27 1 0.00
28 1 0.00
29 4 0.02
30 93 0.46
31 61 0.30
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:24946922 original size:85 final size:85
Alignment explanation
Indices: 24946782--24947053 Score: 463
Period size: 85 Copynumber: 3.2 Consensus size: 85
24946772 TTGTATTCAC
* * *
24946782 ATTCTGATTCTGATTTTGTCACGTAATTCTGATTCTGATTTTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
24946847 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * *
24946867 ATTTTGATTTTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
*
24946932 TGATTCTGATTCTGTTATTG
66 TGATTCTGATTCTGTTACTG
* *
24946952 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTTTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
24947017 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
24947037 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
24947054 CATTTTGGTT
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 174 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:24948664 original size:27 final size:27
Alignment explanation
Indices: 24948634--24949069 Score: 477
Period size: 27 Copynumber: 16.2 Consensus size: 27
24948624 AAAGTACTCC
*
24948634 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
24948661 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
24948688 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
24948715 CAATTTACAGAATTACAGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
24948742 TGATTTACAGAATTACTGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
24948769 CAATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
24948796 C-AGTTTACAAAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
24948823 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
24948850 CGATTTGTA-AATTTACCGTTTTACCCT
1 CGATTTACAGAA-TTACCGTTTTACCCT
* * *
24948877 CGATTTACAAAATTACCATTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
**
24948904 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
24948931 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
24948958 CGATTTGTAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
24948985 TGATTTACAGAATTACTGGTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
*
24949012 C-AGTTTACA-AATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
24949038 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
24949065 CGATT
1 CGATT
24949070 GTGAAATTAC
Statistics
Matches: 348, Mismatches: 52, Indels: 18
0.83 0.12 0.04
Matches are distributed among these distances:
26 25 0.07
27 319 0.92
28 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:24949142 original size:54 final size:54
Alignment explanation
Indices: 24949074--24949269 Score: 259
Period size: 54 Copynumber: 3.6 Consensus size: 54
24949064 TCGATTGTGA
* *** *
24949074 AATTACTGAAATACCCCTGTAGGGTAGAATTTTTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
24949128 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
24949182 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
24949236 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACC
24949270 ATTTTGCCCC
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 122 0.99
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:24949269 original size:27 final size:27
Alignment explanation
Indices: 24949074--24949269 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
24949064 TCGATTGTGA
* *
24949074 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*** * *
24949101 AATTTTTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
24949128 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
24949155 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
24949182 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
24949209 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
24949236 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
24949263 AATTACC
1 AATTACC
24949270 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:24949506 original size:27 final size:26
Alignment explanation
Indices: 24949468--24949550 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 26
24949458 CGGAGGAAGC
*
24949468 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
24949495 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
24949521 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
24949548 GTT
1 GTT
24949551 GACCGATCGA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 10 0.19
27 42 0.81
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:24949883 original size:27 final size:27
Alignment explanation
Indices: 24949861--24949934 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
24949851 TAGGTGGGTT
*
24949861 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
* *
24949888 TGCCATAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
24949915 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
24949935 CAGCCATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.12
27 34 0.85
28 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:24950086 original size:6 final size:6
Alignment explanation
Indices: 24950075--24950236 Score: 163
Period size: 6 Copynumber: 26.8 Consensus size: 6
24950065 CTGTCACCAA
* *
24950075 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * * *
24950123 ATTCTG -TTACTG ATTCTT ATTTTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
24950172 ATTCTG ATTCTG -TTGCTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG
24950220 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
24950237 CATTTTGGTT
Statistics
Matches: 129, Mismatches: 16, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
5 9 0.07
6 111 0.86
7 8 0.06
8 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:24950191 original size:85 final size:85
Alignment explanation
Indices: 24950050--24950236 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 85
24950040 TTGCATTCAC
*
24950050 ATTCTGATTCTGATCCTGTCACCAAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCAAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
24950115 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * * *
24950135 ATTCTTATTTTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTGCTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCAAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
24950200 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
24950220 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
24950237 CATTTTGGTT
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 95 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCAAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:24950257 original size:30 final size:30
Alignment explanation
Indices: 24950050--24950236 Score: 224
Period size: 30 Copynumber: 6.4 Consensus size: 30
24950040 TTGCATTCAC
* * *
24950050 ATTCTGATTCTGATCCTGTCACCAAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
24950081 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
24950111 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
* * *
24950135 ATTCTTATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
* *
24950166 ATTCTGATTCTGATTCTGTTGCTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
24950196 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
24950226 ATTCTGATTCT
1 ATTCTGATTCT
24950237 CATTTTGGTT
Statistics
Matches: 134, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
24 19 0.14
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 71 0.53
31 39 0.29
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:24959537 original size:46 final size:46
Alignment explanation
Indices: 24959389--24959749 Score: 303
Period size: 46 Copynumber: 7.7 Consensus size: 46
24959379 ATCGAAATCG
* * *
24959389 AGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTATATCT
1 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TAC--ATCTCA
* * **
24959439 ATGCAGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTTGT
1 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATC-TCA
*
24959486 A-GCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCA
* * *
24959531 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CGTTTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCA
* * **
24959577 ATGCTGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTTGT
1 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATC-TCA
*
24959624 A-GCCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCA
* * *
24959669 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CGTTTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCA
* *
24959715 ATGCTGATGCCATGTCCCAGACATGGTCTTACACT
1 AGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
24959750 GGCTGTGACA
Statistics
Matches: 260, Mismatches: 31, Indels: 42
0.78 0.09 0.13
Matches are distributed among these distances:
44 22 0.08
45 32 0.12
46 116 0.45
47 34 0.13
48 22 0.08
49 1 0.00
50 33 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCA
Found at i:24959600 original size:138 final size:138
Alignment explanation
Indices: 24959389--24959750 Score: 652
Period size: 138 Copynumber: 2.6 Consensus size: 138
24959379 ATCGAAATCG
* * * *
24959389 AGGCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATATCTATGCAGATGCCATGT
1 AGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGT-T-TCAATGCTGATGCCATGT
24959454 CCCAGACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACTA
62 CCCAGACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACTA
24959519 GCTTACATCTCA
127 GCTTACATCTCA
24959531 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTTTCAATGCTGATGCCATGTCCCA
1 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTTTCAATGCTGATGCCATGTCCCA
24959596 GACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACTAGCTT
66 GACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACTAGCTT
24959661 ACATCTCA
131 ACATCTCA
24959669 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTTTCAATGCTGATGCCATGTCCCA
1 AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTTTCAATGCTGATGCCATGTCCCA
24959734 GACATGGTCTTACACTG
66 GACATGGTCTTACACTG
24959751 GCTGTGACAG
Statistics
Matches: 216, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
138 175 0.81
139 1 0.00
140 19 0.09
141 13 0.06
142 8 0.04
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (138 bp):
AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTTTCAATGCTGATGCCATGTCCCA
GACATGGTCTTACACTGACACATCTTGTAGCCGATGCATGTCCTAGACATGTCTTACACTAGCTT
ACATCTCA
Found at i:24959619 original size:92 final size:91
Alignment explanation
Indices: 24959343--24959749 Score: 287
Period size: 92 Copynumber: 4.3 Consensus size: 91
24959333 GGGTAGAATA
* * ** * *
24959343 CCGATGCCATGTCCCAAACATGGTCTTATACTATC-TATCGAAATCGAGGCCGACGCCATGTCCC
1 CCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTTA-C-ATCTCAAGGCCGATG-CATGTCCC
* * * *
24959407 AGACATGGTCTTACACTAGCTCTCGTATATCTATG
61 AGACAT-GTCTTACACTAGCT-ACATCT-TC-AAG
* * ** *
24959442 CAGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTTGTA-GCCGATGCATGTCCTA
1 CCGATG-CATGTCCCAAACAT-GTCTTACACTAG-CTTACATC-TCAAGGCCGATGCATGTCCCA
24959503 GACATGTCTTACACTAGCTTACATC-TCAAGG
62 GACATGTCTTACACTAGC-TACATCTTCAA-G
* * * *
24959534 CCGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CGTTTCAATGCTGATGCCATGTCCCAGA
1 CCGATGCATGTCCCAAACATGTCTTACACTAGCT-TACATCTCAAGGCCGATG-CATGTCCCAGA
**
24959598 CATGGTCTTACACT-GAC-ACATCTTGTAG
64 CAT-GTCTTACACTAG-CTACATCTTCAAG
* * *
24959626 CCGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCTCAAGGCCGATGCATGTCCCAAACA
1 CCGATGCATGTCCCAAACATGTCTTACACTAGCTTACATCTCAAGGCCGATGCATGTCCCAGACA
24959691 TGTCTTACACTAGCT-C-TCGTTTCAATG
66 TGTCTTACACTAGCTACATC--TTCAA-G
* *
24959718 CTGATGCCATGTCCCAGACATGGTCTTACACT
1 CCGATG-CATGTCCCAAACAT-GTCTTACACT
24959750 GGCTGTGACA
Statistics
Matches: 252, Mismatches: 35, Indels: 47
0.75 0.10 0.14
Matches are distributed among these distances:
89 2 0.01
90 23 0.09
91 35 0.14
92 72 0.29
93 29 0.12
94 36 0.14
95 14 0.06
96 7 0.03
97 3 0.01
98 1 0.00
99 30 0.12
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (91 bp):
CCGATGCATGTCCCAAACATGTCTTACACTAGCTTACATCTCAAGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTACATCTTCAAG
Found at i:24960082 original size:13 final size:13
Alignment explanation
Indices: 24960064--24960089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24960054 ATATAATAAT
24960064 TATTTTATGTTAA
1 TATTTTATGTTAA
24960077 TATTTTATGTTAA
1 TATTTTATGTTAA
24960090 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:24961694 original size:39 final size:40
Alignment explanation
Indices: 24961590--24961694 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 40
24961580 GATTATTCGG
24961590 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
*
24961630 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTT
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
** *
24961670 GTTATATCC-GGCTAAATCCCGAAGG
1 ACTATATCCGGGCTAAGTCCCGAAGG
24961695 TACTTGGGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 15 0.25
40 46 0.75
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
Found at i:24970397 original size:29 final size:30
Alignment explanation
Indices: 24970365--24970422 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
24970355 GTACATTTGA
24970365 AATTTAA-TTTTGTTACTTTTAT-TTTAAAG
1 AATTTAACTTTT-TTACTTTTATGTTTAAAG
* *
24970394 AATTTAACTTTTTTATTTTTTTGTTTAAA
1 AATTTAACTTTTTTACTTTTATGTTTAAA
24970423 AATGTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
AATTTAACTTTTTTACTTTTATGTTTAAAG
Found at i:24970974 original size:106 final size:106
Alignment explanation
Indices: 24970807--24971018 Score: 246
Period size: 106 Copynumber: 2.0 Consensus size: 106
24970797 TAATTATATT
* * * * * *
24970807 TATATTATTATTTAAGTGTTTGATTGAGTTAATGTCGCAAATTAACTCAATATTAATTCAGTTTA
1 TATACTATTATTTAAGTGTGTGATTGAGTTAATGTCACAAATTAACTCAACACTAACTCAG-TTA
24970872 A-AAAATATTAAAATAACCTTATATATTTAAAATAAATTATC
65 AGAAAATATTAAAATAACCTTATATATTTAAAATAAATTATC
* * * * *
24970913 TATACTATTATTTAAGTGTGTGGTTGAGTTGATGTCACGAATTAACTCGACACTAGCTCAGTTAA
1 TATACTATTATTTAAGTGTGTGATTGAGTTAATGTCACAAATTAACTCAACACTAACTCAGTTAA
* * *** *
24970978 GGAAATTATTAAAGTAGTTTTATATATTTAAAATTAATTAT
66 -GAAAATATTAAAATAACCTTATATATTTAAAATAAATTAT
24971019 ATTATTATGA
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
105 4 0.05
106 50 0.57
107 33 0.38
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.42
Consensus pattern (106 bp):
TATACTATTATTTAAGTGTGTGATTGAGTTAATGTCACAAATTAACTCAACACTAACTCAGTTAA
GAAAATATTAAAATAACCTTATATATTTAAAATAAATTATC
Found at i:24980530 original size:34 final size:34
Alignment explanation
Indices: 24980488--24980568 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
24980478 TTAGCCCATT
24980488 TTTCAGTAACAGTACCAGTCTGGGCATGAGCCCA
1 TTTCAGTAACAGTACCAGTCTGGGCATGAGCCCA
* * * * * *
24980522 TTTCAGTAATAGAAGCAGTCTGGGCCTTAGCCTA
1 TTTCAGTAACAGTACCAGTCTGGGCATGAGCCCA
24980556 TTTCAGT-ACAGTA
1 TTTCAGTAACAGTA
24980569 TGTAAACAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (34 bp):
TTTCAGTAACAGTACCAGTCTGGGCATGAGCCCA
Found at i:24981964 original size:3 final size:3
Alignment explanation
Indices: 24981956--24981988 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
24981946 AGAGAAAAGG
24981956 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
24981989 TGCTCAATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:24984990 original size:48 final size:48
Alignment explanation
Indices: 24984938--24985159 Score: 255
Period size: 48 Copynumber: 4.6 Consensus size: 48
24984928 AGATCCTGTA
* * * * *
24984938 TAAGACCATATTTGGGATATGGCATCGGTATTGATATGTGATCCCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * *
24984986 TAAGACCATGGTTGGGACATGGCATTGGCATCGATATGTGGTCCCGTG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* *
24985034 TAAGACCATGTTTGGGACATGGTATTGGCATCGTTATGTGATCCCATG
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * *** * *
24985082 TAAGACCATGTCTGGGACATGGTATTGGCATCGATAAACGGTCCCATA
1 TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * *
24985130 TAAGACCATATCTAGGATATGGCATTGGCA
1 TAAGACCATGTTTGGGACATGGCATTGGCA
24985160 CCCTACTATG
Statistics
Matches: 150, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 150 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATCCCATG
Found at i:24987490 original size:16 final size:16
Alignment explanation
Indices: 24987449--24987494 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
24987439 TTAAATTTTA
*
24987449 AAATCCCCAACTCGTC
1 AAATCCCCAAATCGTC
* *
24987465 AAATTCCCCAAATTGTG
1 AAA-TCCCCAAATCGTC
24987482 AAATCCCCAAATC
1 AAATCCCCAAATC
24987495 CATAACATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.37, C:0.35, G:0.07, T:0.22
Consensus pattern (16 bp):
AAATCCCCAAATCGTC
Found at i:24987657 original size:29 final size:29
Alignment explanation
Indices: 24987615--24987670 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
24987605 AATCCCTTAA
*
24987615 AAGTAAATTGTGAAATCCCTAATCTTTAG
1 AAGTAAATCGTGAAATCCCTAATCTTTAG
24987644 AAGTAAATCGTGAAATCCCTAATCTTT
1 AAGTAAATCGTGAAATCCCTAATCTTT
24987671 CTTCAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (29 bp):
AAGTAAATCGTGAAATCCCTAATCTTTAG
Found at i:24988874 original size:48 final size:47
Alignment explanation
Indices: 24988815--24988945 Score: 176
Period size: 46 Copynumber: 2.8 Consensus size: 47
24988805 TCAACATTGG
*
24988815 TGTATTCCAAAACCAGAATGTTGTAGGCTCAAAATGTGACTACTATCT
1 TGTA-TCCAAAACCAGAATGTTGTAGGCTCAAAATGTGACTACCATCT
* * *
24988863 TGTGTTTCAAAACCAGAATG--CTAGGCTCAAAATGTGACTACCATCT
1 TGT-ATCCAAAACCAGAATGTTGTAGGCTCAAAATGTGACTACCATCT
*
24988909 TGTATCCTAAAACCAAAATGTTGTAGGCTCAAAATGT
1 TGTATCC-AAAACCAGAATGTTGTAGGCTCAAAATGT
24988946 TGTAGACAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
45 2 0.03
46 38 0.54
48 31 0.44
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (47 bp):
TGTATCCAAAACCAGAATGTTGTAGGCTCAAAATGTGACTACCATCT
Found at i:24992319 original size:16 final size:16
Alignment explanation
Indices: 24992298--24992329 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24992288 TTATGATAGT
*
24992298 GTGATGACTCTTGATC
1 GTGATGACTCCTGATC
24992314 GTGATGACTCCTGATC
1 GTGATGACTCCTGATC
24992330 ATTTTAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (16 bp):
GTGATGACTCCTGATC
Found at i:24994180 original size:39 final size:40
Alignment explanation
Indices: 24994085--24994307 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
24994075 TTGAATGATG
*
24994085 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
24994123 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
24994164 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
24994203 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
24994242 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
24994281 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24994308 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:24994271 original size:79 final size:81
Alignment explanation
Indices: 24994085--24994307 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
24994075 TTGAATGATG
* * *
24994085 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
24994146 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
24994164 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
24994226 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
24994242 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
24994306 TG
66 TG
24994308 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:24994329 original size:79 final size:79
Alignment explanation
Indices: 24994085--24994340 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
24994075 TTGAATGATG
* * * *
24994085 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
24994146 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
24994164 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
24994228 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
24994242 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
24994306 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
24994322 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
24994341 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:25002603 original size:39 final size:39
Alignment explanation
Indices: 25002560--25002638 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
25002550 TTGTTTGAGG
25002560 TAAGATTCAATTCTCCATTGTTTTTTATGAGTTCTATCT
1 TAAGATTCAATTCTCCATTGTTTTTTATGAGTTCTATCT
25002599 TAAGATTCAATTCTCCATTGTTTTTTATGAGTTCTATCT
1 TAAGATTCAATTCTCCATTGTTTTTTATGAGTTCTATCT
25002638 T
1 T
25002639 TCCAAATCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.52
Consensus pattern (39 bp):
TAAGATTCAATTCTCCATTGTTTTTTATGAGTTCTATCT
Found at i:25004996 original size:14 final size:14
Alignment explanation
Indices: 25004977--25005020 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
25004967 AAAATTCTAA
25004977 ATTTTTATGAATAC
1 ATTTTTATGAATAC
* * *
25004991 ATTTTT-GGACTAA
1 ATTTTTATGAATAC
25005004 ATTTTTATGAATAC
1 ATTTTTATGAATAC
25005018 ATT
1 ATT
25005021 CTAAAGCTAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (14 bp):
ATTTTTATGAATAC
Found at i:25009442 original size:20 final size:21
Alignment explanation
Indices: 25009417--25009456 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25009407 CCCTTGAAAC
25009417 AGGGCA-CAGGCCCGTGTGGA
1 AGGGCAGCAGGCCCGTGTGGA
*
25009437 AGGGCAGCATGCCCGTGTGG
1 AGGGCAGCAGGCCCGTGTGG
25009457 CTATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.25, G:0.45, T:0.12
Consensus pattern (21 bp):
AGGGCAGCAGGCCCGTGTGGA
Found at i:25010903 original size:46 final size:46
Alignment explanation
Indices: 25010650--25011054 Score: 225
Period size: 46 Copynumber: 8.6 Consensus size: 46
25010640 ATGTCGACGC
* * * *
25010650 CATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGCAAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCT--CAATGCCGATG
* * * * *
25010699 CCATGTCCCAGACAAGTCTTACACTGGCTCTCATCT-ATTGGTGTCAATG
1 -CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA---ATGCCGATG
* * * * * * *
25010748 CCATGTCCCAAACAGGTCTTACACTA--ACACACCACAAGTTGACG-T-
1 -CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAA--TGCCGATG
* * * * * * *
25010793 CATATCCCAGACA-GATCTTACACTAGCTTGTATATCGCGAGGCCAATG
1 CATGTCCCAGACATG-TCTTACACTAGC-TCT-CATCTCAATGCCGATG
*
25010841 CATTGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CA-TGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
*
25010888 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
* * * * * * ** * *
25010934 GATGTCCGACACATGTCTTACACT-GGTTTAAATATCTTGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT---CATCTCAATGCCGATG
* * *
25010982 CATGTCCCAAACATGTCTTACACTAGCACTCATGCT--GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAAT-GCCGATG
*
25011028 CATGTCCCAGACATGTCTTATACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
25011055 ACACATATGA
Statistics
Matches: 274, Mismatches: 60, Indels: 46
0.72 0.16 0.12
Matches are distributed among these distances:
43 1 0.00
44 21 0.08
45 3 0.01
46 102 0.37
47 22 0.08
48 40 0.15
49 71 0.26
50 14 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
Found at i:25022964 original size:30 final size:30
Alignment explanation
Indices: 25022930--25022989 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
25022920 ATTTAATACG
25022930 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
25022960 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
25022990 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Done.