Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 83 of 173
Found at i:25851261 original size:22 final size:22
Alignment explanation
Indices: 25851233--25851276 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25851223 TACCTTCATA
25851233 CTTTAAACCTTCAAACCAAACT
1 CTTTAAACCTTCAAACCAAACT
* * *
25851255 CTTTAAATCTTGATACCAAACT
1 CTTTAAACCTTCAAACCAAACT
25851277 TAAATTTTGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (22 bp):
CTTTAAACCTTCAAACCAAACT
Found at i:25853238 original size:16 final size:17
Alignment explanation
Indices: 25853217--25853249 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25853207 AATATTAGAG
25853217 GCAAAAACAT-AATTTT
1 GCAAAAACATAAATTTT
*
25853233 GCAAAAGCATAAATTTT
1 GCAAAAACATAAATTTT
25853250 AGACTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (17 bp):
GCAAAAACATAAATTTT
Found at i:25861335 original size:50 final size:49
Alignment explanation
Indices: 25861271--25861418 Score: 143
Period size: 49 Copynumber: 3.0 Consensus size: 49
25861261 TGTCATATCT
* ** *
25861271 CAGATATGGTCTTACATGAGAGTTCTCATATAGGGGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGAGACCTCTCATATAGGGG-CCACGCCATGTCC
* ** * * * *
25861321 TAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCACGCCATGTCC
1 CAGACATGGTCTTACATGAGACCTCTCATATAGGGGCCACGCCATGTCC
* * * *
25861370 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 CAGACATGGTCTTACATGAGACCTCTCATATAGGGGCC-ACGCCATGTC
25861419 TCATCTCGGT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 46 0.56
50 36 0.44
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (49 bp):
CAGACATGGTCTTACATGAGACCTCTCATATAGGGGCCACGCCATGTCC
Found at i:25861377 original size:49 final size:50
Alignment explanation
Indices: 25861312--25861418 Score: 171
Period size: 49 Copynumber: 2.2 Consensus size: 50
25861302 AGGGGCCCAT
* * *
25861312 GCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCC-AC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAAC
*
25861361 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAAC
25861411 GCCATGTC
1 GCCATGTC
25861419 TCATCTCGGT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
49 43 0.81
50 10 0.19
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAAC
Found at i:25861425 original size:24 final size:24
Alignment explanation
Indices: 25861393--25861442 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
25861383 ACATGGGACC
25861393 TCTCATCTCGGTGCCAACGCCATG
1 TCTCATCTCGGTGCCAACGCCATG
25861417 TCTCATCTCGGTGCCAACGCCATG
1 TCTCATCTCGGTGCCAACGCCATG
25861441 TC
1 TC
25861443 CCAGACATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.38, G:0.20, T:0.26
Consensus pattern (24 bp):
TCTCATCTCGGTGCCAACGCCATG
Found at i:25871106 original size:25 final size:25
Alignment explanation
Indices: 25871076--25871131 Score: 82
Period size: 23 Copynumber: 2.3 Consensus size: 25
25871066 CCAGTTGAAT
25871076 AAAAGGAAAATTCG-ATGGATCTCTG
1 AAAAGGAAAATT-GAATGGATCTCTG
25871101 AAAAGG--AATTGAATGGATCTCTG
1 AAAAGGAAAATTGAATGGATCTCTG
25871124 AAAAGGAA
1 AAAAGGAA
25871132 TTGACGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 1 0.04
23 21 0.75
25 6 0.21
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.21
Consensus pattern (25 bp):
AAAAGGAAAATTGAATGGATCTCTG
Found at i:25871116 original size:23 final size:23
Alignment explanation
Indices: 25871090--25871135 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25871080 GGAAAATTCG
25871090 ATGGATCTCTGAAAAGGAATTGA
1 ATGGATCTCTGAAAAGGAATTGA
25871113 ATGGATCTCTGAAAAGGAATTGA
1 ATGGATCTCTGAAAAGGAATTGA
25871136 CGGTAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.26
Consensus pattern (23 bp):
ATGGATCTCTGAAAAGGAATTGA
Found at i:25873406 original size:38 final size:39
Alignment explanation
Indices: 25873354--25873445 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 39
25873344 AGTTTAAGTC
* * * *
25873354 TTTAACTATATCATAATTTGAACAT-TATTAATATGAG-T
1 TTTAATTATGTCATAATCTGAACATCT-TTAATAAGAGTT
*
25873392 TTTAATTATGTCATAATCTGAACATCTTTAATAAGGGTT
1 TTTAATTATGTCATAATCTGAACATCTTTAATAAGAGTT
25873431 TTTAATTATGTCATA
1 TTTAATTATGTCATA
25873446 GTTTAGGACA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
38 30 0.64
39 17 0.36
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.46
Consensus pattern (39 bp):
TTTAATTATGTCATAATCTGAACATCTTTAATAAGAGTT
Found at i:25876079 original size:51 final size:53
Alignment explanation
Indices: 25876024--25876132 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 53
25876014 TTTCTCCTCC
*
25876024 CATTTCTT-TACCTATT-CTCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
1 CATTTCTTGTACCTATTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
* *** * *
25876075 CATTTGTTGTGGTTTTTGATCTCTCTCGGTCTCTTTTTTCATTTTTTTCCTGT
1 CATTTCTTGTACCTATTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
25876128 CATTT
1 CATTT
25876133 TGTTGTGGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
51 7 0.14
52 4 0.08
53 38 0.78
ACGTcount: A:0.07, C:0.24, G:0.10, T:0.59
Consensus pattern (53 bp):
CATTTCTTGTACCTATTGATCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGT
Found at i:25876098 original size:53 final size:54
Alignment explanation
Indices: 25876041--25876147 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 54
25876031 TTACCTATTC
25876041 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCA-TTTGTTGTGGTTTTTGA
1 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTTGTTGTGGTTTTTGA
*
25876094 TCTCTCTCGGTCTCTTTTTTCATTTTTTTCCTGTCATTTTGTTGTGGTTTTTGA
1 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTTGTTGTGGTTTTTGA
25876148 AATTCACTGC
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
53 35 0.67
54 17 0.33
ACGTcount: A:0.06, C:0.20, G:0.15, T:0.60
Consensus pattern (54 bp):
TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTTGTTGTGGTTTTTGA
Found at i:25879818 original size:17 final size:17
Alignment explanation
Indices: 25879796--25879829 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25879786 AAGAATAAGA
25879796 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25879813 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25879830 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:25879933 original size:117 final size:117
Alignment explanation
Indices: 25879712--25880200 Score: 802
Period size: 117 Copynumber: 4.3 Consensus size: 117
25879702 AAGTAGATTA
25879712 TAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA--TT-TT
1 TAAATTATATTTAATAATAATTATTTTAAATTATA-TTT-TAGTATTATATATTATGATTTTATT
*
25879773 AGTAAATTCATATAAG---A---A-TAAGAATTTTATTAAATTATATATTTTAT
64 AGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
25879820 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
25879885 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* * *
25879937 TAAATTATATTTTATAACAATTATGTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
25880002 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
*
25880054 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATCATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
*
25880119 TAAATTCATATAAGAATATTTATTAAAAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* * *
25880171 TAAATTATATTTTATAACAATTATGTTAAA
1 TAAATTATATTTAATAATAATTATTTTAAA
25880201 ATATGATTAA
Statistics
Matches: 358, Mismatches: 12, Indels: 13
0.93 0.03 0.03
Matches are distributed among these distances:
107 18 0.05
108 26 0.07
109 13 0.04
110 18 0.05
113 1 0.00
116 1 0.00
117 281 0.78
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (117 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
Found at i:25879951 original size:15 final size:17
Alignment explanation
Indices: 25879913--25879946 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25879903 TTTATTAACA
25879913 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25879930 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25879947 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:25879960 original size:16 final size:15
Alignment explanation
Indices: 25879913--25879960 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
25879903 TTTATTAACA
*
25879913 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
25879930 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
25879945 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
25879961 GTTAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:25880050 original size:17 final size:17
Alignment explanation
Indices: 25880030--25880063 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25880020 TTTATTAACA
25880030 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25880047 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25880064 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:25880167 original size:17 final size:17
Alignment explanation
Indices: 25880147--25880180 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25880137 TTTATTAAAA
25880147 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25880164 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
25880181 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:25880194 original size:16 final size:15
Alignment explanation
Indices: 25880147--25880194 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
25880137 TTTATTAAAA
*
25880147 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
25880164 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
25880179 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
25880195 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:25880372 original size:39 final size:41
Alignment explanation
Indices: 25880328--25880432 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 41
25880318 TTCCTTATGT
* *
25880328 TATTACACCTCTATTCCATTCAACCAAACACAAGAA-TACC
1 TATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACC
25880368 -ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTACC
1 TATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTACC
25880413 TATTACGCCTCTATTCCATT
1 TATTACGCCTCTATTCCATT
25880433 ACGCATCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 1 0.02
41 4 0.07
44 19 0.34
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.30, G:0.04, T:0.30
Consensus pattern (41 bp):
TATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACC
Found at i:25880407 original size:44 final size:46
Alignment explanation
Indices: 25880344--25880434 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
25880334 ACCTCTATTC
*
25880344 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
25880388 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
25880434 C
1 C
25880435 GCATCTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.43
45 4 0.09
46 21 0.48
ACGTcount: A:0.38, C:0.31, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:25880435 original size:16 final size:16
Alignment explanation
Indices: 25880414--25880482 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
25880404 AGAATTACCT
25880414 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
25880430 ATTACGCATCTATTCC
1 ATTACGCCTCTATTCC
25880446 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
25880462 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
25880478 ATTAC
1 ATTAC
25880483 AGCGAACCAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:25880762 original size:15 final size:15
Alignment explanation
Indices: 25880742--25880784 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
25880732 GACAAAAAAA
25880742 TAAAAGAAAATATGT
1 TAAAAGAAAATATGT
25880757 TAAAAGAAAATATGT
1 TAAAAGAAAATATGT
25880772 TAAAAGAAAATAT
1 TAAAAGAAAATAT
25880785 TAAATAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.26
Consensus pattern (15 bp):
TAAAAGAAAATATGT
Found at i:25897006 original size:24 final size:25
Alignment explanation
Indices: 25896968--25897015 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
25896958 AAATCTTTGT
*
25896968 ACAAAAAGTTTAAAGGATAATACAA
1 ACAAAAAGTTCAAAGGATAATACAA
25896993 ACAAAAAG-TCAAAGGATAATACA
1 ACAAAAAGTTCAAAGGATAATACA
25897016 TTTACAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.17
Consensus pattern (25 bp):
ACAAAAAGTTCAAAGGATAATACAA
Found at i:25897062 original size:16 final size:16
Alignment explanation
Indices: 25897041--25897071 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25897031 CAATCAATTC
*
25897041 TTAGATATCATTTTTG
1 TTAGATATAATTTTTG
25897057 TTAGATATAATTTTT
1 TTAGATATAATTTTT
25897072 TTCTCGGTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (16 bp):
TTAGATATAATTTTTG
Found at i:25910057 original size:30 final size:30
Alignment explanation
Indices: 25910023--25910081 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
25910013 AATTGCCGAA
25910023 AAATTTGAATCCAATTTCAAATGATTCGAG
1 AAATTTGAATCCAATTTCAAATGATTCGAG
*
25910053 AAATTTGAATCCAATTTCAAATTATTCGA
1 AAATTTGAATCCAATTTCAAATGATTCGA
25910082 AAAGCAAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.36
Consensus pattern (30 bp):
AAATTTGAATCCAATTTCAAATGATTCGAG
Found at i:25910920 original size:19 final size:19
Alignment explanation
Indices: 25910896--25910932 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25910886 GAAAGAAGAA
* *
25910896 AAGGAAAACATGGAAAAAG
1 AAGGAAAAAAGGGAAAAAG
25910915 AAGGAAAAAAGGGAAAAA
1 AAGGAAAAAAGGGAAAAA
25910933 ATGGAAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.27, T:0.03
Consensus pattern (19 bp):
AAGGAAAAAAGGGAAAAAG
Found at i:25912632 original size:19 final size:20
Alignment explanation
Indices: 25912592--25912632 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
25912582 CAAAAACCCT
*
25912592 CAAAACTTTTTATTTCCCCC
1 CAAAACTTTTTATCTCCCCC
25912612 CAAAA-TTTTTA-CTCCCTCC
1 CAAAACTTTTTATCTCCC-CC
25912631 CA
1 CA
25912633 CTTTTCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.27, C:0.37, G:0.00, T:0.37
Consensus pattern (20 bp):
CAAAACTTTTTATCTCCCCC
Found at i:25915280 original size:27 final size:26
Alignment explanation
Indices: 25915229--25915302 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
25915219 AGAGGTCAAT
* * *
25915229 AAATGACCGAATTACCCCTACAGGGTA
1 AAATGATCGAGTTACCCC-ATAGGGTA
25915256 AAATGA-CTGAGTTAACCCCATAGGGTA
1 AAATGATC-GAGTT-ACCCCATAGGGTA
25915283 AAATGATCGAGTTACCCCAT
1 AAATGATCGAGTTACCCCAT
25915303 CTAAATACCC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 8 0.19
27 28 0.67
28 6 0.14
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (26 bp):
AAATGATCGAGTTACCCCATAGGGTA
Found at i:25915757 original size:28 final size:27
Alignment explanation
Indices: 25915716--25915781 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
25915706 ATTGCACTGT
* *
25915716 ATTGATACTATATTGGGCTAAGGCCCAC
1 ATTG-TACTGTATTAGGCTAAGGCCCAC
*
25915744 ATTGTTACTGTATTAGGCTAGGGCCCAC
1 ATTG-TACTGTATTAGGCTAAGGCCCAC
*
25915772 ACTGTACTGT
1 ATTGTACTGT
25915782 TACTGAATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (27 bp):
ATTGTACTGTATTAGGCTAAGGCCCAC
Found at i:25932163 original size:43 final size:43
Alignment explanation
Indices: 25932109--25932364 Score: 166
Period size: 43 Copynumber: 5.8 Consensus size: 43
25932099 TTTCAGAAAT
25932109 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
* *
25932152 AAACGCTGCTAAAGACCATGACCTTTAGACCTTTAGTGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAG--C------GGCGCTTTTCCCAC
* * * *
25932203 AAACGCCGCTAAAGAACA-GTACCTTTAGCGACGCTTCTACCAC
1 AAACGCCGCTAAAGATCATG-ACCTTTAGCGGCGCTTTTCCCAC
* * * * ***
25932246 AAACGCCACTAAA-AGTCATAACTTTTAGCGGCGCTTATATTAC
1 AAACGCCGCTAAAGA-TCATGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
25932289 AAACGTCGCTATAA-A--AGTGTCTTTTAGCGACGCTTTTTCC-C
1 AAACGCCGCTA-AAGATCA-TGACCTTTAGCGGCGCTTTTCCCAC
* * *
25932330 AAACGCCGCTAAA-AACATAACTTTTAGCGGCGCTT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTT
25932365 ATATTACAAA
Statistics
Matches: 170, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
40 3 0.02
41 27 0.16
42 18 0.11
43 78 0.46
44 3 0.02
45 1 0.01
49 1 0.01
50 1 0.01
51 38 0.22
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:25932204 original size:51 final size:51
Alignment explanation
Indices: 25932128--25932230 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
25932118 TAAAGATCAT
* *
25932128 GACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGACCA-TGACCTTTA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAGT-ACCTTTA
*
25932179 GACCTTTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGAACAGTACCTTTA
1 GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAGTACCTTTA
25932230 G
1 G
25932231 CGACGCTTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 47 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (51 bp):
GACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAGTACCTTTA
Found at i:25932323 original size:42 final size:42
Alignment explanation
Indices: 25932266--25932397 Score: 153
Period size: 42 Copynumber: 3.2 Consensus size: 42
25932256 AAAAGTCATA
* *
25932266 ACTTTTAGCGGCGCTTATATTACAAACGTCGCTATAAAAGTG
1 ACTTTTAGCGGCGCTTATATTACAAACGCCGCTATAAAAATG
* * * *
25932308 TCTTTTAGCGACGCTT-T-TTCCCAAACGCCGCTA-AAAACATA
1 ACTTTTAGCGGCGCTTATATT-ACAAACGCCGCTATAAAA-ATG
* *
25932349 ACTTTTAGCGGCGCTTATATTACAAATGCCGTTATAAAAATG
1 ACTTTTAGCGGCGCTTATATTACAAACGCCGCTATAAAAATG
25932391 ACTTTTA
1 ACTTTTA
25932398 CAAACGCCGC
Statistics
Matches: 73, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
40 6 0.08
41 27 0.37
42 34 0.47
43 6 0.08
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (42 bp):
ACTTTTAGCGGCGCTTATATTACAAACGCCGCTATAAAAATG
Found at i:25932363 original size:83 final size:85
Alignment explanation
Indices: 25932201--25932397 Score: 249
Period size: 83 Copynumber: 2.3 Consensus size: 85
25932191 CGCTTTTCCC
* *
25932201 ACAAACGCCGCTA-AAGAACA-GTACCTTTAGCGACGCTTCTACCACAAACGCCACTAAAAGTCA
1 ACAAACGCCGCTATAA-AA-ATG-ACTTTTAGCGACGCTTCTACCACAAACGCCACTAAAAGACA
25932264 TAACTTTTAGCGGCGCTTATATT
63 TAACTTTTAGCGGCGCTTATATT
* * * * * *
25932287 ACAAACGTCGCTATAAAAGTGTCTTTTAGCGACGCTTTTTCC-CAAACGCCGCTAAAA-ACATAA
1 ACAAACGCCGCTATAAAAATGACTTTTAGCGACGCTTCTACCACAAACGCCACTAAAAGACATAA
25932350 CTTTTAGCGGCGCTTATATT
66 CTTTTAGCGGCGCTTATATT
* *
25932370 ACAAATGCCGTTATAAAAATGACTTTTA
1 ACAAACGCCGCTATAAAAATGACTTTTA
25932398 CAAACGCCGC
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
83 48 0.50
84 14 0.15
85 17 0.18
86 15 0.16
87 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (85 bp):
ACAAACGCCGCTATAAAAATGACTTTTAGCGACGCTTCTACCACAAACGCCACTAAAAGACATAA
CTTTTAGCGGCGCTTATATT
Found at i:25932406 original size:27 final size:27
Alignment explanation
Indices: 25932368--25932424 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
25932358 GGCGCTTATA
* * *
25932368 TTACAAATGCCGTTATAAAA-ATGACTT
1 TTACAAACGCCGCTA-AAAACATAACTT
25932395 TTACAAACGCCGCTAAAAACATAACTT
1 TTACAAACGCCGCTAAAAACATAACTT
25932422 TTA
1 TTA
25932425 AAAAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
TTACAAACGCCGCTAAAAACATAACTT
Found at i:25936986 original size:148 final size:149
Alignment explanation
Indices: 25936788--25937122 Score: 505
Period size: 148 Copynumber: 2.3 Consensus size: 149
25936778 CCCTTTTATC
* * *
25936788 CATTTGGAATAAAACAACACTATTTTGCTATGCTAAAAGGGCACTATTTTTTAAAGTAAAATTA-
1 CATTTGGAATAAAACGACACTGTTTTGCTATGATAAAAGGGCACTATTTTTTAAAGTAAAATTAT
* * *
25936852 TTTTTTGTGGCATTTTTTTATAAAAACTCTGCTATTGCTTACCTTTTGCAGCGTTTGTCA-GAAA
66 TTTTTTGTGGCA-TTTTTTATAAAAACGCCGCTATTGCTTACCTTTTGCAGCGTTTGTCATAAAA
25936916 AACGCAGCAAAAAATTATTT
130 AACGCAGCAAAAAATTATTT
* * *
25936936 CATTTGGAATAAAACGACATTGTTTTGCTAT-ATAAAATGGCGCTATTTTTTTAAAGTAAAATTA
1 CATTTGGAATAAAACGACACTGTTTTGCTATGATAAAAGGGCACTA-TTTTTTAAAGTAAAATTA
* * *
25937000 TTTTTTTGTGGCATTTTTTATAAAAACGCCGCTATTGCTTACCTTTTGCGGTGTTTTTCATAAAA
65 TTTTTTTGTGGCATTTTTTATAAAAACGCCGCTATTGCTTACCTTTTGCAGCGTTTGTCATAAAA
*
25937065 AACGCCGCAAAAAATTATTT
130 AACGCAGCAAAAAATTATTT
*
25937085 CATTTGGAATAAAACGACACTGTTTTGCTATGTTAAAA
1 CATTTGGAATAAAACGACACTGTTTTGCTATGATAAAA
25937123 ATCTTTTATT
Statistics
Matches: 168, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
147 11 0.07
148 88 0.52
149 64 0.38
150 5 0.03
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (149 bp):
CATTTGGAATAAAACGACACTGTTTTGCTATGATAAAAGGGCACTATTTTTTAAAGTAAAATTAT
TTTTTTGTGGCATTTTTTATAAAAACGCCGCTATTGCTTACCTTTTGCAGCGTTTGTCATAAAAA
ACGCAGCAAAAAATTATTT
Found at i:25938142 original size:82 final size:82
Alignment explanation
Indices: 25937993--25938154 Score: 227
Period size: 82 Copynumber: 2.0 Consensus size: 82
25937983 CCCAATAAGC
* *
25937993 TTATTTAATATATAAATTAAAAAAAACTAATTAATATAAATCCTAAACCCTAACCCAACCTTGAA
1 TTATTTAATATATAAATTAAAAAAAACTAATTAATATAAACCCTAAACCCTAACCCAACCTTAAA
* *
25938058 TCCCTAACCCCTAAACA
66 TCCATAAACCCTAAACA
* * * * *
25938075 TTATTTAATATATAAATTAAAACACACTAATTAATCTAAACCCTAAACCTTAACCTAACAC-TAA
1 TTATTTAATATATAAATTAAAAAAAACTAATTAATATAAACCCTAAACCCTAACCCAAC-CTTAA
25938139 ATCCATAAACCCTAAA
65 ATCCATAAACCCTAAA
25938155 TCCCTAACTC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
82 69 0.99
83 1 0.01
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.28
Consensus pattern (82 bp):
TTATTTAATATATAAATTAAAAAAAACTAATTAATATAAACCCTAAACCCTAACCCAACCTTAAA
TCCATAAACCCTAAACA
Found at i:25938240 original size:14 final size:15
Alignment explanation
Indices: 25938223--25938255 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25938213 CTTAAATCAG
*
25938223 AATCCTTAA-TCCAT
1 AATCCCTAATTCCAT
25938237 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
25938252 AATC
1 AATC
25938256 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:25938342 original size:21 final size:20
Alignment explanation
Indices: 25938308--25938349 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
25938298 TAAATTAACC
*
25938308 ATATATATACCCTAAACTAT
1 ATATATAAACCCTAAACTAT
25938328 ATATATTAAACCCTAAACTAT
1 ATATA-TAAACCCTAAACTAT
25938349 A
1 A
25938350 ATGATAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATATAAACCCTAAACTAT
Found at i:25938718 original size:41 final size:41
Alignment explanation
Indices: 25938661--25938746 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
25938651 AAATGTTTTT
*
25938661 CGGCGCTTTTTGGAAAACACCGCTAAAGCCCCAAGCATTAG
1 CGGCGCTTCTTGGAAAACACCGCTAAAGCCCCAAGCATTAG
* *
25938702 CGGCGCTTCTTGGAAAACGCCGCTAAAGCCCCGAGCATTAG
1 CGGCGCTTCTTGGAAAACACCGCTAAAGCCCCAAGCATTAG
25938743 CGGC
1 CGGC
25938747 ACTTTTCCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (41 bp):
CGGCGCTTCTTGGAAAACACCGCTAAAGCCCCAAGCATTAG
Found at i:25938805 original size:81 final size:81
Alignment explanation
Indices: 25938694--25938844 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 81
25938684 TAAAGCCCCA
* * ** * *
25938694 AGCATTAGCGGCGCTTCTTGGAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCACTT-TTCCAAA
1 AGCATTAGCGCCACTTCTTCAAAAACGCCGCTAAAGCCCAGAGCATTAGCGACACTTCTT-CAAA
25938758 AACGCCGCTAAAAATAG
65 AACGCCGCTAAAAATAG
* *
25938775 AGCATTAGCGCCACTTCTTCAAAAATGCCGCTAAAGCCCAGAGCATTAGCGACGCTTCTTCAAAA
1 AGCATTAGCGCCACTTCTTCAAAAACGCCGCTAAAGCCCAGAGCATTAGCGACACTTCTTCAAAA
25938840 ACGCC
66 ACGCC
25938845 AAGAAAGCCC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 59 0.97
82 2 0.03
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (81 bp):
AGCATTAGCGCCACTTCTTCAAAAACGCCGCTAAAGCCCAGAGCATTAGCGACACTTCTTCAAAA
ACGCCGCTAAAAATAG
Found at i:25938854 original size:41 final size:41
Alignment explanation
Indices: 25938674--25938844 Score: 195
Period size: 41 Copynumber: 4.2 Consensus size: 41
25938664 CGCTTTTTGG
* * **
25938674 AAAACACCGCTAAAGCCCCA-AGCATTAGCGGCGCTTCTTGG
1 AAAACGCCGCTAAAG-CCCAGAGCATTAGCGGCACTTCTTCA
*
25938715 AAAACGCCGCTAAAGCCCCGAGCATTAGCGGCACTT-TTCCA
1 AAAACGCCGCTAAAGCCCAGAGCATTAGCGGCACTTCTT-CA
*** *
25938756 AAAACGCCGCTAAA-AATAGAGCATTAGCGCCACTTCTTCA
1 AAAACGCCGCTAAAGCCCAGAGCATTAGCGGCACTTCTTCA
* * *
25938796 AAAATGCCGCTAAAGCCCAGAGCATTAGCGACGCTTCTTCA
1 AAAACGCCGCTAAAGCCCAGAGCATTAGCGGCACTTCTTCA
25938837 AAAACGCC
1 AAAACGCC
25938845 AAGAAAGCCC
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
40 36 0.33
41 73 0.67
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAGCCCAGAGCATTAGCGGCACTTCTTCA
Found at i:25960862 original size:28 final size:29
Alignment explanation
Indices: 25960808--25960862 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
25960798 ACAAAACTGG
*
25960808 GAAAAGTTCTCTCCTTTTAATGTGAAAAT
1 GAAAAGTTCTCTCCTTTTAATGAGAAAAT
*
25960837 GAAAA-TTCTCTCTTCTTTAAT-AGAAA
1 GAAAAGTTCTCTCCT-TTTAATGAGAAA
25960863 CCAATAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (29 bp):
GAAAAGTTCTCTCCTTTTAATGAGAAAAT
Found at i:25967994 original size:49 final size:51
Alignment explanation
Indices: 25967919--25968016 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 51
25967909 ACATGTGAAA
* *
25967919 ATGTGATTATGTGATTTCTGTGTAAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATTATGTGATTTATGTGTAAGACCATAGCTGGACTATGGCATCGGT
*
25967970 ATGTGA-TATGTGA-TTATGTGTAAGACCATAGTTGGACTATGGCATCG
1 ATGTGATTATGTGATTTATGTGTAAGACCATAGCTGGACTATGGCATCG
25968017 AGAAAACAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 31 0.70
50 7 0.16
51 6 0.14
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (51 bp):
ATGTGATTATGTGATTTATGTGTAAGACCATAGCTGGACTATGGCATCGGT
Found at i:25976245 original size:16 final size:16
Alignment explanation
Indices: 25976224--25976254 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25976214 AGTTTCACAC
25976224 TCGAAACCCGAAAAAA
1 TCGAAACCCGAAAAAA
25976240 TCGAAACCCGAAAAA
1 TCGAAACCCGAAAAA
25976255 TATACTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.13, T:0.06
Consensus pattern (16 bp):
TCGAAACCCGAAAAAA
Found at i:25991383 original size:21 final size:22
Alignment explanation
Indices: 25991351--25991397 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
25991341 ACTATTTTTG
*
25991351 AGAAGAAAGTTGATGCTGCAGA
1 AGAAGAAAGTTGATGCTGAAGA
*
25991373 AGAAG-AAGTTGTTGCTGAAGA
1 AGAAGAAAGTTGATGCTGAAGA
25991394 AGAA
1 AGAA
25991398 AGAGTTGCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.32, T:0.19
Consensus pattern (22 bp):
AGAAGAAAGTTGATGCTGAAGA
Found at i:25991403 original size:21 final size:20
Alignment explanation
Indices: 25991351--25991404 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
25991341 ACTATTTTTG
*
25991351 AGAAGAA-AGTTGATGCTGC
1 AGAAGAAGAGTTGATGCTGA
*
25991370 AGAAGAAGAAGTTGTTGCTGA
1 AGAAGAAG-AGTTGATGCTGA
25991391 AGAAGAAAGAGTTG
1 AGAAG-AAGAGTTG
25991405 CTAAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 7 0.23
21 20 0.67
22 3 0.10
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (20 bp):
AGAAGAAGAGTTGATGCTGA
Found at i:26000810 original size:46 final size:46
Alignment explanation
Indices: 26000738--26000909 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
26000728 AACCCGCCCG
* *
26000738 TAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
*
26000784 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACATCCA
* * * * *
26000832 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
*
26000877 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGG
26000910 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.54
47 27 0.26
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACATCCA
Found at i:26000856 original size:93 final size:93
Alignment explanation
Indices: 26000742--26000913 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
26000732 CGCCCGTAAG
* * *
26000742 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
26000807 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
26000835 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
26000900 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
26000914 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:26008486 original size:46 final size:45
Alignment explanation
Indices: 26008328--26008496 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 45
26008318 GCCCTAAAGC
* * * * *
26008328 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAAAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGAC-TTCGCTTCCATAAGT
* * * * * *
26008374 GAACTCGGACTCAACTCAAACGAGTTCGGATGCCTAG-TTACATCTCA-C
1 GAACTCGGACTCAACTC-AACGAGTTCAGA--CTTCGCTTCCA--TAAGT
26008422 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTTCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGAC-TTCGCTTCCATAAGT
26008468 GAACTCGGACTCAACTCAACGAGTTCAGA
1 GAACTCGGACTCAACTCAACGAGTTCAGA
26008497 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 15, Indels: 16
0.76 0.11 0.12
Matches are distributed among these distances:
45 3 0.03
46 48 0.48
47 28 0.28
48 19 0.19
49 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACTTCGCTTCCATAAGT
Found at i:26008515 original size:46 final size:44
Alignment explanation
Indices: 26008371--26008515 Score: 116
Period size: 46 Copynumber: 3.1 Consensus size: 44
26008361 CGCATCCAAA
*
26008371 AGTGAACTCGGACTCAACTCAAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTC-AACGAGTTCAGATGCC-A---ACCATCT
* * ** *
26008419 CA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCTTCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAG--ATGC-CAACCATCT
26008465 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGC-CAACCAT-CT
26008511 AGTGA
1 AGTGA
26008516 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.10
45 1 0.01
46 33 0.43
47 13 0.17
48 17 0.22
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCAACCATCT
Found at i:26024724 original size:189 final size:189
Alignment explanation
Indices: 26024403--26024770 Score: 594
Period size: 189 Copynumber: 1.9 Consensus size: 189
26024393 GAAATCCATC
* * * *
26024403 GAAAAGAATGGAAATTGGGAGATGGTCGACTTGCCGGAAGACAGAATTACAATTGGTTTGAAGTG
1 GAAAAGAATGGAAATTGGGACATGGTCGACTTGCCGAAAGACAAAAATACAATTGGTTTGAAGTG
*
26024468 GGTGTTTAAGACAAAATTTGGTGCAGATGGAAGCATCCAAAAGCACAAAGCTCGTCTTGTAGCGA
66 GGTGTTCAAGACAAAATTTGGTGCAGATGGAAGCATCCAAAAGCACAAAGCTCGTCTTGTAGCGA
** *
26024533 AAGGTTATGCATAGTAATATGGTGTTGATTTCGAAGAAACCTTCTCTCCTGTTTCTATT
131 AAGGTTATGCATAACAATATGGTGTTGATTTCAAAGAAACCTTCTCTCCTGTTTCTATT
* * *
26024592 GAAAAGAATGGAACTTGGGACATGGTCGACTTGTCGAAAGACAAAAATGCAATTGGTTTGAAGTG
1 GAAAAGAATGGAAATTGGGACATGGTCGACTTGCCGAAAGACAAAAATACAATTGGTTTGAAGTG
* * *
26024657 GGTGTTCAAGA-AAAACTTTGGTGTAGATGGAAGCATCCAAAAGCACAAAGCTTGTCTTGTGGCG
66 GGTGTTCAAGACAAAA-TTTGGTGCAGATGGAAGCATCCAAAAGCACAAAGCTCGTCTTGTAGCG
26024721 AAAGGTTATGCATAACAATATGGTGTTGATTTCAAAGAAACCTTCTCTCC
130 AAAGGTTATGCATAACAATATGGTGTTGATTTCAAAGAAACCTTCTCTCC
26024771 GGTAGCTCGA
Statistics
Matches: 164, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
188 4 0.02
189 160 0.98
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (189 bp):
GAAAAGAATGGAAATTGGGACATGGTCGACTTGCCGAAAGACAAAAATACAATTGGTTTGAAGTG
GGTGTTCAAGACAAAATTTGGTGCAGATGGAAGCATCCAAAAGCACAAAGCTCGTCTTGTAGCGA
AAGGTTATGCATAACAATATGGTGTTGATTTCAAAGAAACCTTCTCTCCTGTTTCTATT
Found at i:26027760 original size:61 final size:61
Alignment explanation
Indices: 26027633--26027753 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 61
26027623 TTTATTAATT
* **
26027633 TTTTTAGAATTAGAACTAAATTGACAAATTTTGTAAATTTTGAGGACTAAATTTATTGAAC
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGGACTAAATTTATTGAAC
* *
26027694 TTTTTAGAATTCA-AACTAAAATGACAAGTTTTGTAAACATTGAGTG-CTAAATTTGTTGAA
1 TTTTTAGAATT-AGAACTAAAATGACAAATTTTGTAAACATTGAG-GACTAAATTTATTGAA
26027754 TATTTTATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
61 51 0.96
62 2 0.04
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGGACTAAATTTATTGAAC
Found at i:26028675 original size:17 final size:17
Alignment explanation
Indices: 26028636--26028681 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
26028626 CCTGGTTTTT
26028636 TTATAAAAA-TAA-T-A
1 TTATAAAAATTAATTAA
26028650 TTA-AAAAATTAATTAA
1 TTATAAAAATTAATTAA
*
26028666 TTATAAAAATAAATTA
1 TTATAAAAATTAATTA
26028682 GGGAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.19
14 6 0.22
15 1 0.04
16 4 0.15
17 11 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTATAAAAATTAATTAA
Found at i:26028692 original size:29 final size:30
Alignment explanation
Indices: 26028636--26028697 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
26028626 CCTGGTTTTT
*
26028636 TTATAAAAATAATATTAAAAAATTAATTAA
1 TTATAAAAATAATATTAAAAAATAAATTAA
***
26028666 TTATAAAAATAA-ATTAGGGAATAAATTAA
1 TTATAAAAATAATATTAAAAAATAAATTAA
26028695 TTA
1 TTA
26028698 CGACGGTAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (30 bp):
TTATAAAAATAATATTAAAAAATAAATTAA
Found at i:26037914 original size:17 final size:16
Alignment explanation
Indices: 26037888--26037922 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
26037878 GAACAGAGAA
26037888 TTTTGAAACAATCAAC
1 TTTTGAAACAATCAAC
26037904 TTTTCGAAACAATCAAC
1 TTTT-GAAACAATCAAC
26037921 TT
1 TT
26037923 AATACATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (16 bp):
TTTTGAAACAATCAAC
Found at i:26042389 original size:10 final size:9
Alignment explanation
Indices: 26042374--26042465 Score: 60
Period size: 10 Copynumber: 9.3 Consensus size: 9
26042364 TACTATTTTT
26042374 ATTTTTATGA
1 ATTTTTAT-A
26042384 ATTTTTAATA
1 ATTTTT-ATA
*
26042394 ATTTTAATA
1 ATTTTTATA
26042403 A-TTTTATAA
1 ATTTTTAT-A
*
26042412 ATTCTTATA
1 ATTTTTATA
26042421 ATTCTTTATATA
1 A-T-TTT-TATA
*
26042433 TATTTTTAAA
1 -ATTTTTATA
26042443 TATTTTTATA
1 -ATTTTTATA
*
26042453 TTTTTTTATA
1 -ATTTTTATA
26042463 ATT
1 ATT
26042466 ATTTGAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
8 5 0.07
9 10 0.15
10 39 0.58
11 7 0.10
12 5 0.07
13 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:26042450 original size:22 final size:22
Alignment explanation
Indices: 26042416--26042469 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 22
26042406 TTATAAATTC
* * *
26042416 TTATAATTCTTTATATATATTT
1 TTATAATTATTTTTATATTTTT
26042438 TTA-AA-TATTTTTATATTTTT
1 TTATAATTATTTTTATATTTTT
26042458 TTATAATTATTT
1 TTATAATTATTT
26042470 GAAAAATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 15 0.56
21 4 0.15
22 8 0.30
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATAATTATTTTTATATTTTT
Found at i:26043693 original size:25 final size:23
Alignment explanation
Indices: 26043665--26043725 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
26043655 AATCCATTGC
26043665 TAATAATTTGAAATAAATAATGAGT
1 TAATAATTTGAAATAAA-AATG-GT
26043690 TAATAATTATTG--ATAAAAATGGT
1 TAATAA-T-TTGAAATAAAAATGGT
*
26043713 TAATAGTTTGAAA
1 TAATAATTTGAAA
26043726 GTGTTGTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
21 3 0.10
22 1 0.03
23 8 0.26
24 4 0.13
25 11 0.35
26 1 0.03
27 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (23 bp):
TAATAATTTGAAATAAAAATGGT
Found at i:26066392 original size:18 final size:18
Alignment explanation
Indices: 26066369--26066406 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
26066359 TTAATTTCAT
26066369 AAAAGTT-TATTATCTATC
1 AAAAGTTGT-TTATCTATC
26066387 AAAAGTTGTTTATCTATC
1 AAAAGTTGTTTATCTATC
26066405 AA
1 AA
26066407 CAACCTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (18 bp):
AAAAGTTGTTTATCTATC
Found at i:26093964 original size:5 final size:5
Alignment explanation
Indices: 26093942--26093980 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
26093932 AGCAAAACCC
* *
26093942 AAAGA AAAGGC AAGGA AAAGA AAAGA AAAGA AAAGA AAA
1 AAAGA AAA-GA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
26093981 AGCTTTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 26 0.90
6 3 0.10
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:26100234 original size:24 final size:24
Alignment explanation
Indices: 26100188--26100263 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
26100178 CAACAAATTT
*
26100188 TTGACAATTTTATCCTTAATAAAA
1 TTGACAATTTTAGCCTTAATAAAA
*
26100212 TTGACAATTTT-GCCTCTAGTAAAA
1 TTGACAATTTTAGCCT-TAATAAAA
**
26100236 TTTTGATGATTTT-GCCCTTAATAAAA
1 --TTGACAATTTTAG-CCTTAATAAAA
26100262 TT
1 TT
26100264 TCGAGAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
23 3 0.07
24 20 0.47
26 17 0.40
27 3 0.07
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (24 bp):
TTGACAATTTTAGCCTTAATAAAA
Found at i:26105747 original size:26 final size:26
Alignment explanation
Indices: 26105709--26105768 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
26105699 GGCAACTAAT
* * *
26105709 GCCTGCTACATATACAGCGGCACAAA
1 GCCTGCTAAATATACACCGACACAAA
*
26105735 GCCTTCTAAATATACACCGACACAAA
1 GCCTGCTAAATATACACCGACACAAA
*
26105761 GCTTGCTA
1 GCCTGCTA
26105769 CGCCCTAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (26 bp):
GCCTGCTAAATATACACCGACACAAA
Found at i:26109111 original size:6 final size:6
Alignment explanation
Indices: 26109102--26109147 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
26109092 GATAATCATA
* *
26109102 AAAAAT AAAAA- AATTAAT TAA-AT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
26109148 AACCAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 6 0.18
6 26 0.79
7 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:26111227 original size:12 final size:12
Alignment explanation
Indices: 26111210--26111234 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26111200 TTTGAGTCAT
26111210 TTTAATTATTGG
1 TTTAATTATTGG
26111222 TTTAATTATTGG
1 TTTAATTATTGG
26111234 T
1 T
26111235 CTTCATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TTTAATTATTGG
Found at i:26122737 original size:12 final size:12
Alignment explanation
Indices: 26122704--26122751 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
26122694 ATTTTAAAAA
*
26122704 TTTTATTTTAAG
1 TTTTATTTTTAG
*
26122716 TTTTAGTTTTAG
1 TTTTATTTTTAG
*
26122728 TTTTATTTTTCAT
1 TTTTATTTTT-AG
*
26122741 TTTTATCTTTA
1 TTTTATTTTTA
26122752 TCTTTGTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.71
Consensus pattern (12 bp):
TTTTATTTTTAG
Found at i:26128063 original size:37 final size:37
Alignment explanation
Indices: 26128001--26128071 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
26127991 GATAATAATT
*
26128001 TTAATATTAAATTAATAAAATACTATTAAGATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
*
26128038 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAA
26128072 TACTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 6 0.20
37 22 0.73
38 2 0.07
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
Found at i:26128509 original size:9 final size:9
Alignment explanation
Indices: 26128489--26128519 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
26128479 AAAATATCAT
26128489 ATTAATTTTA
1 ATTAA-TTTA
26128499 ATTAATTTA
1 ATTAATTTA
26128508 ATTAATTTA
1 ATTAATTTA
26128517 ATT
1 ATT
26128520 TTCCTTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:26134073 original size:26 final size:23
Alignment explanation
Indices: 26134036--26134089 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
26134026 ATATATCACA
*
26134036 ATTAT-AACATTACATAATATAAAT
1 ATTATAAACATT--ATAAAATAAAT
26134060 ATTATAAACAATTATAAAATAAAT
1 ATTATAAAC-ATTATAAAATAAAT
26134084 A-TATAA
1 ATTATAA
26134090 TGAGATAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.19
24 16 0.59
25 3 0.11
26 3 0.11
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTATAAACATTATAAAATAAAT
Found at i:26134718 original size:26 final size:23
Alignment explanation
Indices: 26134668--26134719 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 23
26134658 TTGGGTAAGC
* *
26134668 CTTTCTTTTCTTTAGTTTTTTTT
1 CTTTCTTTTCTTTAGTATTTATT
26134691 CTTTCTTGTTCTTTCTAGTATTTATT
1 CTTTCTT-TTC-TT-TAGTATTTATT
26134717 CTT
1 CTT
26134720 AGTGACGCCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.29
24 3 0.12
25 2 0.08
26 12 0.50
ACGTcount: A:0.08, C:0.15, G:0.06, T:0.71
Consensus pattern (23 bp):
CTTTCTTTTCTTTAGTATTTATT
Found at i:26136123 original size:24 final size:24
Alignment explanation
Indices: 26136091--26136137 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
26136081 TGGTGATGTG
26136091 ATGAGATGAGATGCATTGAAATCA
1 ATGAGATGAGATGCATTGAAATCA
26136115 ATGAGATGAGATGCATTGAAATC
1 ATGAGATGAGATGCATTGAAATC
26136138 TCAACCTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (24 bp):
ATGAGATGAGATGCATTGAAATCA
Found at i:26136319 original size:22 final size:22
Alignment explanation
Indices: 26136291--26136333 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
26136281 ACAATTCCTG
26136291 AATATATCATAATAATCAACAT
1 AATATATCATAATAATCAACAT
** *
26136313 AATATATTTTAATAATTAACA
1 AATATATCATAATAATCAACA
26136334 AATCATTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATATCATAATAATCAACAT
Found at i:26139068 original size:17 final size:19
Alignment explanation
Indices: 26139048--26139082 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
26139038 TTACTTCTAA
26139048 TTCACTT-AT-TATTCTTC
1 TTCACTTAATCTATTCTTC
26139065 TTCACTTAATCTATTCTT
1 TTCACTTAATCTATTCTT
26139083 AAATATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (19 bp):
TTCACTTAATCTATTCTTC
Found at i:26142736 original size:20 final size:20
Alignment explanation
Indices: 26142713--26142872 Score: 101
Period size: 20 Copynumber: 7.8 Consensus size: 20
26142703 ATATGGCATA
26142713 TTAGAAATTTTGGTAAATTC
1 TTAGAAATTTTGGTAAATTC
*
26142733 TTAGATACTAATTTTGGTAAAGTC
1 TTAG--A--AATTTTGGTAAATTC
*
26142757 TTAGAAATTTTTGTGT-AACT-
1 TTAGAAA-TTTTG-GTAAATTC
*** * *
26142777 TTAGAAATTTCAATAATTTA
1 TTAGAAATTTTGGTAAATTC
* *
26142797 TTAGAAATTTTGGTAACTAC
1 TTAGAAATTTTGGTAAATTC
* * *
26142817 TTAGAACTTTTTGTAAATCC
1 TTAGAAATTTTGGTAAATTC
* *
26142837 TTAAAAATTTTGG-AATTTCC
1 TTAGAAATTTTGGTAAATT-C
*
26142857 TTATAAATTTTGGTAA
1 TTAGAAATTTTGGTAA
26142873 TATACAAAAT
Statistics
Matches: 107, Mismatches: 23, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.01
19 8 0.07
20 66 0.62
21 10 0.09
22 4 0.04
24 18 0.17
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (20 bp):
TTAGAAATTTTGGTAAATTC
Found at i:26146519 original size:23 final size:23
Alignment explanation
Indices: 26146468--26146513 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
26146458 GGTTTTCACT
**
26146468 GCATTAGAAAATTAATTGTTTAA
1 GCATTAGAAAATTAACGGTTTAA
*
26146491 GCATTAGAAGATTAACGGTTTAA
1 GCATTAGAAAATTAACGGTTTAA
26146514 TGATTAATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (23 bp):
GCATTAGAAAATTAACGGTTTAA
Found at i:26157660 original size:45 final size:45
Alignment explanation
Indices: 26157571--26157745 Score: 255
Period size: 45 Copynumber: 3.9 Consensus size: 45
26157561 ACCGTTACAC
* *
26157571 GGTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATTT
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTT
** *
26157614 GGTGGAATCAGCACATAGCAACCACCTTTATTTTCAATGATTTTT
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTT
* * **
26157659 GGTGGAGTCAGCACATAGCAACCACCTTTATAATCAATGGTACCT
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTT
26157704 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATA
1 GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATA
26157746 CTCAGTACAC
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
43 5 0.04
44 13 0.11
45 98 0.84
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATATTT
Found at i:26161779 original size:32 final size:32
Alignment explanation
Indices: 26161738--26161828 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
26161728 GGCCCATTTT
26161738 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAAG
1 TATTTTAAAAATATTT-AAAAATTAAAAAAAAG
*
26161770 TATTTTAAAAATATTTTAAAATT-AAAAAAA-
1 TATTTTAAAAATATTTAAAAATTAAAAAAAAG
** *
26161800 TA--AAAAAAATATTTTAAAATTAAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAAA
26161829 TTAAAAAAGT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
28 17 0.31
29 7 0.13
30 2 0.04
31 7 0.13
32 18 0.33
33 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAAAG
Found at i:26161808 original size:28 final size:29
Alignment explanation
Indices: 26161776--26161836 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 29
26161766 AAAGTATTTT
26161776 AAAAATATTTTAAAATT-AAAAAAATAAA
1 AAAAATATTTTAAAATTAAAAAAAATAAA
*
26161804 AAAAATATTTTAAAATTAAAAAAAATTAA
1 AAAAATATTTTAAAATTAAAAAAAATAAA
26161833 AAAA
1 AAAA
26161837 GTATGTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 17 0.55
29 14 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (29 bp):
AAAAATATTTTAAAATTAAAAAAAATAAA
Found at i:26161845 original size:28 final size:28
Alignment explanation
Indices: 26161776--26161846 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
26161766 AAAGTATTTT
*
26161776 AAAAATATTTTAAAATTAAAAAAATAAA
1 AAAAATATTGTAAAATTAAAAAAATAAA
* *
26161804 AAAAATATTTTAAAATTAAAAAAAATTAA
1 AAAAATATTGTAAAATT-AAAAAAATAAA
*
26161833 AAAAGTA-TGTAAAA
1 AAAAATATTGTAAAA
26161847 AAATATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 23 0.59
29 16 0.41
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
AAAAATATTGTAAAATTAAAAAAATAAA
Found at i:26161847 original size:29 final size:28
Alignment explanation
Indices: 26161776--26161847 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
26161766 AAAGTATTTT
* *
26161776 AAAAATATTTTAAAATTAAAAAAATAAA
1 AAAAATATGTAAAAATTAAAAAAATAAA
* * *
26161804 AAAAATATTTTAAAATTAAAAAAAATTAA
1 AAAAATATGTAAAAATT-AAAAAAATAAA
*
26161833 AAAAGTATGTAAAAA
1 AAAAATATGTAAAAA
26161848 AATATTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 17 0.44
29 22 0.56
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (28 bp):
AAAAATATGTAAAAATTAAAAAAATAAA
Found at i:26161847 original size:41 final size:38
Alignment explanation
Indices: 26161751--26161868 Score: 137
Period size: 41 Copynumber: 3.0 Consensus size: 38
26161741 TTTAAAAATT
* * ***
26161751 TTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAAATAAAAAAAA-TATTTTAAAATTA-AAAAAAA
26161791 TTAAAAAAATAAAAAAAATATTTTAAAATTAAAAAAAA
1 TTAAAAAAATAAAAAAAATATTTTAAAATTAAAAAAAA
*
26161829 TTAAAAAAGTATGTAAAAAAATATTTTAAAATTAAAAAAA
1 TTAAAAAA--AT-AAAAAAAATATTTTAAAATTAAAAAAA
26161869 TAAATATATT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
38 12 0.17
39 12 0.17
40 19 0.28
41 26 0.38
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (38 bp):
TTAAAAAAATAAAAAAAATATTTTAAAATTAAAAAAAA
Found at i:26161855 original size:69 final size:70
Alignment explanation
Indices: 26161738--26161872 Score: 202
Period size: 69 Copynumber: 1.9 Consensus size: 70
26161728 GGCCCATTTT
** **
26161738 TATTTTAAAAATTTTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAA
1 TATTTTAAAAATTAAAAAAAATT-AAAAAAAGTATTAAAAAAATATTTTAAAATTAAAAAAATAA
26161803 AAAAAA
65 AAAAAA
26161809 TATTTT-AAAATTAAAAAAAATT-AAAAAAGTATGTAAAAAAATATTTTAAAATTAAAAAAATAA
1 TATTTTAAAAATTAAAAAAAATTAAAAAAAGTAT-TAAAAAAATATTTTAAAATTAAAAAAATAA
26161872 A
65 A
26161873 TATATTTATT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 10 0.17
69 29 0.49
70 14 0.24
71 6 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (70 bp):
TATTTTAAAAATTAAAAAAAATTAAAAAAAGTATTAAAAAAATATTTTAAAATTAAAAAAATAAA
AAAAA
Found at i:26175518 original size:18 final size:18
Alignment explanation
Indices: 26175497--26175533 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
26175487 CAACACTTTG
26175497 TCATCAATCAACTACATA
1 TCATCAATCAACTACATA
26175515 TCATCAATCAACTACATA
1 TCATCAATCAACTACATA
26175533 T
1 T
26175534 TAGTCTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (18 bp):
TCATCAATCAACTACATA
Found at i:26189150 original size:24 final size:27
Alignment explanation
Indices: 26189118--26189210 Score: 102
Period size: 28 Copynumber: 3.4 Consensus size: 27
26189108 TATTTTTTCC
26189118 TCATAATTAGTTA-AT-ATAT-ATTTA
1 TCATAATTAGTTACATAATATAATTTA
*
26189142 TCATAATTAATTTACATAATATAATTTA
1 TCATAATT-AGTTACATAATATAATTTA
* *
26189170 CCATAATTAGTTTACATAATATAAATTCA
1 TCATAATTAG-TTACATAATAT-AATTTA
*
26189199 CCATAATTAGTT
1 TCATAATTAGTT
26189211 TAAATGATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
24 8 0.14
25 4 0.07
26 2 0.03
27 5 0.08
28 25 0.42
29 15 0.25
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (27 bp):
TCATAATTAGTTACATAATATAATTTA
Found at i:26189166 original size:14 final size:15
Alignment explanation
Indices: 26189129--26189240 Score: 85
Period size: 14 Copynumber: 7.7 Consensus size: 15
26189119 CATAATTAGT
*
26189129 TAATATATATTTATCA
1 TAATATA-ATTTACCA
26189145 TAAT-TAATTTA-CA
1 TAATATAATTTACCA
26189158 TAATATAATTTACCA
1 TAATATAATTTACCA
*
26189173 TAAT-TAGTTTA-CA
1 TAATATAATTTACCA
*
26189186 TAATATAAATTCACCA
1 TAATAT-AATTTACCA
* *
26189202 TAAT-TAGTTTA-AA
1 TAATATAATTTACCA
* *
26189215 TGATATAAATTCACCA
1 TAATAT-AATTTACCA
26189231 TAAT-TAATTT
1 TAATATAATTT
26189241 TCATATTTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
13 16 0.21
14 28 0.37
15 18 0.24
16 14 0.18
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.43
Consensus pattern (15 bp):
TAATATAATTTACCA
Found at i:26189204 original size:57 final size:58
Alignment explanation
Indices: 26189129--26189245 Score: 146
Period size: 57 Copynumber: 2.0 Consensus size: 58
26189119 CATAATTAGT
* * * * * *
26189129 TAATATATATTTATCATAATTAATTTACATAATAT-AATTTACCATAATTAGTTTACA
1 TAATATAAATTCACCATAATTAATTTAAATAATATAAATTCACCATAATTAATTTACA
* * *
26189186 TAATATAAATTCACCATAATTAGTTTAAATGATATAAATTCACCATAATTAATTTTCA
1 TAATATAAATTCACCATAATTAATTTAAATAATATAAATTCACCATAATTAATTTACA
26189244 TA
1 TA
26189246 TTTATGTTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 29 0.58
58 21 0.42
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (58 bp):
TAATATAAATTCACCATAATTAATTTAAATAATATAAATTCACCATAATTAATTTACA
Found at i:26189206 original size:29 final size:29
Alignment explanation
Indices: 26189129--26189245 Score: 146
Period size: 29 Copynumber: 4.1 Consensus size: 29
26189119 CATAATTAGT
* * *
26189129 TAATATATATTTATCATAATTAATTTACA
1 TAATATAAATTCACCATAATTAATTTACA
* *
26189158 TAATAT-AATTTACCATAATTAGTTTACA
1 TAATATAAATTCACCATAATTAATTTACA
* *
26189186 TAATATAAATTCACCATAATTAGTTTAAA
1 TAATATAAATTCACCATAATTAATTTACA
* *
26189215 TGATATAAATTCACCATAATTAATTTTCA
1 TAATATAAATTCACCATAATTAATTTACA
26189244 TA
1 TA
26189246 TTTATGTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 25 0.32
29 52 0.68
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (29 bp):
TAATATAAATTCACCATAATTAATTTACA
Found at i:26197686 original size:26 final size:25
Alignment explanation
Indices: 26197634--26197710 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
26197624 TGTCATTTTC
* *
26197634 GCTCTTTCGAGCC-ATGATCGGTAA
1 GCTCTTTCGAGCCGATAAACGGTAA
26197658 GCTCATTTCGAGCCGATAAACGGTAA
1 GCTC-TTTCGAGCCGATAAACGGTAA
* *
26197684 GCTCTATCGAGCTG--AAACGGTAA
1 GCTCTTTCGAGCCGATAAACGGTAA
26197707 GCTC
1 GCTC
26197711 CGTAGAGCTG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
23 13 0.28
24 4 0.09
25 17 0.36
26 13 0.28
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
GCTCTTTCGAGCCGATAAACGGTAA
Found at i:26197705 original size:23 final size:23
Alignment explanation
Indices: 26197652--26197733 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
26197642 GAGCCATGAT
* *
26197652 CGGTAAGCTCATTTCGAGCCGATAAA
1 CGGTAAGCTC-TATCGAGCTG--AAA
26197678 CGGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTCTATCGAGCTGAAA
** *
26197701 CGGTAAGCTCCGTAGAGCTGAAA
1 CGGTAAGCTCTATCGAGCTGAAA
*
26197724 CAGTAAGCTC
1 CGGTAAGCTC
26197734 ATACAAGCTG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 32 0.64
25 8 0.16
26 10 0.20
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (23 bp):
CGGTAAGCTCTATCGAGCTGAAA
Found at i:26197742 original size:23 final size:22
Alignment explanation
Indices: 26197675--26197743 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
26197665 TCGAGCCGAT
26197675 AAACGGTAAGCTCTATCGAGCTG
1 AAACGGTAAGCTCTA-CGAGCTG
26197698 AAACGGTAAGCTCCGTA-GAGCTG
1 AAACGGTAAGCT-C-TACGAGCTG
* *
26197721 AAACAGTAAGCTCATACAAGCTG
1 AAACGGTAAGCTC-TACGAGCTG
26197744 TGCTGAGTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.08
23 34 0.85
24 1 0.03
25 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (22 bp):
AAACGGTAAGCTCTACGAGCTG
Found at i:26200965 original size:5 final size:5
Alignment explanation
Indices: 26200955--26200988 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
26200945 TAATAGTTTA
26200955 AAATT AAATT AAATT AAATT AAATT AAATT AAAT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAAT
26200989 ATTTATCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:26204416 original size:18 final size:18
Alignment explanation
Indices: 26204385--26204419 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26204375 GGGAGTAACT
* *
26204385 TCGAGCATATCTTGGTGA
1 TCGAGAATAACTTGGTGA
26204403 TCGAGAATAACTTGGTG
1 TCGAGAATAACTTGGTG
26204420 GAGAGCGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (18 bp):
TCGAGAATAACTTGGTGA
Found at i:26205180 original size:33 final size:34
Alignment explanation
Indices: 26205143--26205222 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
26205133 TTAGTTGAAA
*
26205143 GTGTCTTCAACAGAGTACTC-TAATACTTCATTG
1 GTGTCTTCAACACAGTACTCTTAATACTTCATTG
* *
26205176 GTGTCTTCAACACAGTACTCTTATTACTTCGTTG
1 GTGTCTTCAACACAGTACTCTTAATACTTCATTG
26205210 GTGTCTTCAACAC
1 GTGTCTTCAACAC
26205223 TTTCAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
33 19 0.44
34 24 0.56
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (34 bp):
GTGTCTTCAACACAGTACTCTTAATACTTCATTG
Found at i:26206837 original size:14 final size:14
Alignment explanation
Indices: 26206818--26206846 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26206808 TTAAGTCCAG
26206818 TTTCGTAGTTATAT
1 TTTCGTAGTTATAT
26206832 TTTCGTAGTTATAT
1 TTTCGTAGTTATAT
26206846 T
1 T
26206847 CGAACTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.59
Consensus pattern (14 bp):
TTTCGTAGTTATAT
Found at i:26222671 original size:25 final size:25
Alignment explanation
Indices: 26222660--26222781 Score: 165
Period size: 25 Copynumber: 4.9 Consensus size: 25
26222650 GAGCATGCTG
*
26222660 ATTTACAGCTCGTGTGAGCATACCG
1 ATTTACAGCTCGTGTGAGCATACCA
* * *
26222685 ATATATAGCTCGTGTGAGCATACTA
1 ATTTACAGCTCGTGTGAGCATACCA
*
26222710 ATTT-CAGCTCGTGAGAGCATACCA
1 ATTTACAGCTCGTGTGAGCATACCA
26222734 ATTTACAGCTCGTGTGAGCATACCA
1 ATTTACAGCTCGTGTGAGCATACCA
* * *
26222759 ATTTACAACTCGTCTAAGCATAC
1 ATTTACAGCTCGTGTGAGCATAC
26222782 ATGTACAGGA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
24 21 0.25
25 63 0.75
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (25 bp):
ATTTACAGCTCGTGTGAGCATACCA
Found at i:26222728 original size:49 final size:50
Alignment explanation
Indices: 26222643--26222771 Score: 170
Period size: 49 Copynumber: 2.6 Consensus size: 50
26222633 CGACCCACAA
* * * * * *
26222643 CTCGTATGAGCATGCTGATTTACAGCTCGTGTGAGCATACCGATATATAG
1 CTCGTGTGAGCATACTAATTTACAGCTCGTGAGAGCATACCAATATACAG
*
26222693 CTCGTGTGAGCATACTAATTT-CAGCTCGTGAGAGCATACCAATTTACAG
1 CTCGTGTGAGCATACTAATTTACAGCTCGTGAGAGCATACCAATATACAG
* *
26222742 CTCGTGTGAGCATACCAATTTACAACTCGT
1 CTCGTGTGAGCATACTAATTTACAGCTCGT
26222772 CTAAGCATAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 44 0.64
50 25 0.36
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (50 bp):
CTCGTGTGAGCATACTAATTTACAGCTCGTGAGAGCATACCAATATACAG
Found at i:26223915 original size:20 final size:20
Alignment explanation
Indices: 26223882--26223920 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26223872 ATCGTATGGT
26223882 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
26223902 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
26223921 TTTGAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:26224430 original size:42 final size:42
Alignment explanation
Indices: 26224362--26224466 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
26224352 GTGGTAGACA
* * * *
26224362 GCCTGGCAGACGGGCATGTGAGGCTATTTCGAAGGGTACACG
1 GCCTAGCACACGGGCGTGTGGGGCTATTTCGAAGGGTACACG
*
26224404 GCCTAGCACACGGGCGTGTGGGGCTATTTTGAAGGGTACACG
1 GCCTAGCACACGGGCGTGTGGGGCTATTTCGAAGGGTACACG
*
26224446 GCTTAGCACACGGGCGTGTGG
1 GCCTAGCACACGGGCGTGTGG
26224467 CTTGGCCGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.19, C:0.22, G:0.39, T:0.20
Consensus pattern (42 bp):
GCCTAGCACACGGGCGTGTGGGGCTATTTCGAAGGGTACACG
Found at i:26226560 original size:21 final size:21
Alignment explanation
Indices: 26226520--26226560 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26226510 TCCCTTTAGT
* **
26226520 GGTATCGCGATATCCTCCTTG
1 GGTATCACGATATCAACCTTG
26226541 GGTATCACGATATCAACCTT
1 GGTATCACGATATCAACCTT
26226561 TCAAAGAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGTATCACGATATCAACCTTG
Found at i:26228682 original size:30 final size:30
Alignment explanation
Indices: 26228648--26228706 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
26228638 TACGAGCTTT
26228648 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * * *
26228678 GGGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
26228707 GAGTCAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:26229173 original size:23 final size:23
Alignment explanation
Indices: 26229147--26229222 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
26229137 AGTGTTATTG
*
26229147 ATCAGTGGTAGCTTCGTCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
26229170 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
26229193 -TAGAGTGGTAGCTTCGGCTACAT
1 AT-CAGTGGTAGCTTCGGCTACAT
26229216 ATCAGTG
1 ATCAGTG
26229223 TGGCACTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:26243166 original size:16 final size:17
Alignment explanation
Indices: 26243132--26243166 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26243122 TTTGGTTTGG
*
26243132 TTATTTTACTTAGTAGT
1 TTATTTAACTTAGTAGT
26243149 TTATTTAACTTAGT-GT
1 TTATTTAACTTAGTAGT
26243165 TT
1 TT
26243167 TTACTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (17 bp):
TTATTTAACTTAGTAGT
Found at i:26244787 original size:97 final size:97
Alignment explanation
Indices: 26244617--26244834 Score: 321
Period size: 97 Copynumber: 2.2 Consensus size: 97
26244607 TACCATCTTT
* * * * **
26244617 GGTTGCCCGATAATGATGATTTTCACTATCTAATTACTCTGTCATCCCGAGATACTTAACAATGA
1 GGTTGCCCGACAATGATG-GTTTCACTATCTAATTACACTGTCATCCCGAGATACCTAACAACAA
*
26244682 TGACTACTAAAATATGTACATTCTACCACCTCG
65 TGAATACTAAAATATGTACATTCTACCACCTCG
*
26244715 GGTTGCCCGACAATGATGGTTTCACTATCTGATTACACTGTCATCCCG-GAATACCTAACAACAA
1 GGTTGCCCGACAATGATGGTTTCACTATCTAATTACACTGTCATCCCGAG-ATACCTAACAACAA
26244779 TGAATACTAAAATATGTACATTCTACCACCTCG
65 TGAATACTAAAATATGTACATTCTACCACCTCG
**
26244812 GGTTGCCCGACAGCGATGGTTTC
1 GGTTGCCCGACAATGATGGTTTC
26244835 TAAACATTAT
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
96 1 0.01
97 91 0.83
98 17 0.16
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (97 bp):
GGTTGCCCGACAATGATGGTTTCACTATCTAATTACACTGTCATCCCGAGATACCTAACAACAAT
GAATACTAAAATATGTACATTCTACCACCTCG
Found at i:26245465 original size:74 final size:74
Alignment explanation
Indices: 26245344--26245494 Score: 293
Period size: 74 Copynumber: 2.0 Consensus size: 74
26245334 TTTCTTTTTT
*
26245344 TCTCAAGATGGATGGTGGAGGAAGATGAAGATTATCATCTTTCCTTCCACTAAGTTGATATATAT
1 TCTCAACATGGATGGTGGAGGAAGATGAAGATTATCATCTTTCCTTCCACTAAGTTGATATATAT
26245409 TATGCTTAA
66 TATGCTTAA
26245418 TCTCAACATGGATGGTGGAGGAAGATGAAGATTATCATCTTTCCTTCCACTAAGTTGATATATAT
1 TCTCAACATGGATGGTGGAGGAAGATGAAGATTATCATCTTTCCTTCCACTAAGTTGATATATAT
26245483 TATGCTTAA
66 TATGCTTAA
26245492 TCT
1 TCT
26245495 TTAATTAACT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (74 bp):
TCTCAACATGGATGGTGGAGGAAGATGAAGATTATCATCTTTCCTTCCACTAAGTTGATATATAT
TATGCTTAA
Found at i:26248479 original size:18 final size:18
Alignment explanation
Indices: 26248456--26248490 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26248446 AAGATTCTTT
* *
26248456 TAAAAATATTTTAAAATA
1 TAAAAAAATTCTAAAATA
26248474 TAAAAAAATTCTAAAAT
1 TAAAAAAATTCTAAAAT
26248491 TTACTGTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAAAAATTCTAAAATA
Found at i:26250923 original size:18 final size:18
Alignment explanation
Indices: 26250878--26250917 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
26250868 CATTTTATAT
26250878 ATATTTT-T-ATTTTTAA
1 ATATTTTATAATTTTTAA
26250894 ATATTTTATAATTTTTAA
1 ATATTTTATAATTTTTAA
*
26250912 TTATTT
1 ATATTT
26250918 ATTAATGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATATTTTATAATTTTTAA
Found at i:26251498 original size:9 final size:9
Alignment explanation
Indices: 26251484--26251882 Score: 80
Period size: 9 Copynumber: 42.0 Consensus size: 9
26251474 TGAAATAAAC
26251484 TTATAAAAA
1 TTATAAAAA
26251493 TTATAAAAA
1 TTATAAAAA
*
26251502 TAATATAAAAT
1 T--TATAAAAA
26251513 TTATAAAAA
1 TTATAAAAA
26251522 -TATAAAAA
1 TTATAAAAA
* *
26251530 ATCTAATAAA
1 TTATAA-AAA
*
26251540 TTCTAACAAA
1 TTATAA-AAA
* *
26251550 GTATAAAAT
1 TTATAAAAA
*
26251559 TTATAAAAG
1 TTATAAAAA
*
26251568 TAATAAAGCACAA
1 TTAT-AA--A-AA
* **
26251581 TTA-GAATT
1 TTATAAAAA
*
26251589 TTACAAAAA
1 TTATAAAAA
26251598 TGTATAAAAA
1 T-TATAAAAA
* *
26251608 TTCTTAAAAC
1 TT-ATAAAAA
* * *
26251618 CTATAATAT
1 TTATAAAAA
*
26251627 TTCACAAAAA
1 TT-ATAAAAA
26251637 -TATAAAAA
1 TTATAAAAA
* *
26251645 TCATAAATA
1 TTATAAAAA
* *
26251654 TTAT-TAGA
1 TTATAAAAA
26251662 -TATTAAAAA
1 TTA-TAAAAA
** *
26251671 TATATTGAGA
1 T-TATAAAAA
* *
26251681 TTGATGTAAAC
1 TT-AT-AAAAA
*
26251692 TTATAACAA
1 TTATAAAAA
26251701 TTAT-AAAA
1 TTATAAAAA
*
26251709 TAATAATAAA
1 TTATAA-AAA
*
26251719 TAATAAAAA
1 TTATAAAAA
* *
26251728 CTTATGAATA
1 -TTATAAAAA
26251738 TTATAAAAA
1 TTATAAAAA
*
26251747 -TATAAGATA
1 TTATAA-AAA
26251756 TTATAAAATA
1 TTATAAAA-A
*
26251766 TT-TATAAAG
1 TTATA-AAAA
26251775 TTAATAAAATA
1 TT-ATAAAA-A
*
26251786 TATTTAAAATA
1 T-TATAAAA-A
26251797 TT-TAAAAA
1 TTATAAAAA
26251805 TTTATAAAAAA
1 -TTAT-AAAAA
26251816 CTTATAAAAAA
1 -TTAT-AAAAA
*
26251827 TCATAAAAA
1 TTATAAAAA
* * *
26251836 CCTAGATATAA
1 -TTATA-AAAA
26251847 -TATAAAAA
1 TTATAAAAA
*
26251855 TTCTAATAAA
1 TTATAA-AAA
*
26251865 TTATAAAAT
1 TTATAAAAA
26251874 TTATAAAAA
1 TTATAAAAA
26251883 AAATCATTTA
Statistics
Matches: 282, Mismatches: 71, Indels: 74
0.66 0.17 0.17
Matches are distributed among these distances:
7 2 0.01
8 35 0.12
9 109 0.39
10 87 0.31
11 44 0.16
12 2 0.01
13 3 0.01
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:26251510 original size:20 final size:19
Alignment explanation
Indices: 26251485--26251531 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
26251475 GAAATAAACT
26251485 TATAAAAATTATAAAAATAA
1 TATAAAAATTATAAAAAT-A
*
26251505 TATAAAATTTATAAAAATA
1 TATAAAAATTATAAAAATA
26251524 TA-AAAAAT
1 TATAAAAAT
26251532 CTAATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.20
19 3 0.12
20 17 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAATTATAAAAATA
Found at i:26251530 original size:19 final size:20
Alignment explanation
Indices: 26251488--26251531 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
26251478 ATAAACTTAT
26251488 AAAAA-TTATAAAAATAATA
1 AAAAATTTATAAAAATAATA
*
26251507 TAAAATTTATAAAAAT-ATA
1 AAAAATTTATAAAAATAATA
26251526 AAAAAT
1 AAAAAT
26251532 CTAATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATTTATAAAAATAATA
Found at i:26251538 original size:20 final size:20
Alignment explanation
Indices: 26251488--26251539 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
26251478 ATAAACTTAT
26251488 AAAAATT-ATAAAAATAATA
1 AAAAATTAATAAAAATAATA
* *
26251507 TAAAATTTATAAAAAT-ATA
1 AAAAATTAATAAAAATAATA
26251526 AAAAATCTAATAAA
1 AAAAAT-TAATAAA
26251540 TTCTAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATTAATAAAAATAATA
Found at i:26251766 original size:10 final size:10
Alignment explanation
Indices: 26251734--26251834 Score: 68
Period size: 11 Copynumber: 10.2 Consensus size: 10
26251724 AAAACTTATG
26251734 AATATTATAA
1 AATATTATAA
26251744 AA-A-TATAA
1 AATATTATAA
*
26251752 GATATTATAA
1 AATATTATAA
26251762 AATATTTATAA
1 AATA-TTATAA
* *
26251773 AGT-TAATAA
1 AATATTATAA
*
26251782 AATATATTTAA
1 AATAT-TATAA
26251793 AATATT-TAA
1 AATATTATAA
26251802 AA-ATTTATAA
1 AATA-TTATAA
*
26251812 AAAACTTATAA
1 AATA-TTATAA
* *
26251823 AAAATCATAA
1 AATATTATAA
26251833 AA
1 AA
26251835 ACCTAGATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
8 7 0.09
9 16 0.22
10 24 0.32
11 27 0.36
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AATATTATAA
Found at i:26251825 original size:11 final size:10
Alignment explanation
Indices: 26251705--26251883 Score: 61
Period size: 10 Copynumber: 18.4 Consensus size: 10
26251695 TAACAATTAT
*
26251705 AAAATAATAA
1 AAAATTATAA
* *
26251715 TAAATAATAA
1 AAAATTATAA
* *
26251725 AAACTTAT-G
1 AAAATTATAA
*
26251734 AATATTAT-A
1 AAAATTATAA
26251743 AAAA-TATAA
1 AAAATTATAA
* *
26251752 GATATTATAA
1 AAAATTATAA
* *
26251762 AATATT-TAT
1 AAAATTATAA
*
26251771 AAAGTTAATAA
1 AAAATT-ATAA
26251782 AATATATT-TAA
1 AA-A-ATTATAA
*
26251793 AATATT-TAA
1 AAAATTATAA
*
26251802 AAATTTATAA
1 AAAATTATAA
26251812 AAAACTTATAA
1 AAAA-TTATAA
*
26251823 AAAATCATAA
1 AAAATTATAA
** * *
26251833 AAACCTAGAT
1 AAAATTATAA
*
26251843 ATAA-TAT-A
1 AAAATTATAA
*
26251851 AAAATTCTAA
1 AAAATTATAA
*
26251861 TAAATTAT-A
1 AAAATTATAA
*
26251870 AAATTTATAA
1 AAAATTATAA
26251880 AAAA
1 AAAA
26251884 AATCATTTAA
Statistics
Matches: 120, Mismatches: 38, Indels: 22
0.67 0.21 0.12
Matches are distributed among these distances:
8 6 0.05
9 39 0.32
10 53 0.44
11 19 0.16
12 1 0.01
13 2 0.02
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTATAA
Found at i:26252493 original size:9 final size:9
Alignment explanation
Indices: 26252472--26252786 Score: 108
Period size: 9 Copynumber: 34.1 Consensus size: 9
26252462 GTTCAAGTTT
26252472 ATTTTT-TA
1 ATTTTTATA
*
26252480 TTTTTTATA
1 ATTTTTATA
26252489 ATTTTTATA
1 ATTTTTATA
* *
26252498 CGTTTATATTA
1 -ATTTTTA-TA
*
26252509 TTTTTTATA
1 ATTTTTATA
26252518 ATTTTT-TA
1 ATTTTTATA
26252526 TATTTATTAT-
1 -ATTT-TTATA
26252536 ATTTTTATA
1 ATTTTTATA
*
26252545 ATATTTATA
1 ATTTTTATA
*
26252554 AGTTTTTATT
1 A-TTTTTATA
26252564 ATTTTT-T-
1 ATTTTTATA
26252571 A---TTATA
1 ATTTTTATA
26252577 ATTTTTTATA
1 A-TTTTTATA
*
26252587 A-GTTTAT-
1 ATTTTTATA
26252594 ATTAATTT-TA
1 ATT--TTTATA
26252604 ATTTTT-TA
1 ATTTTTATA
*
26252612 ATTTTAATA
1 ATTTTTATA
26252621 A-TTTTATGA
1 ATTTTTAT-A
*
26252630 TTTTTTAATA
1 ATTTTT-ATA
**
26252640 ATTTTCCT-
1 ATTTTTATA
26252648 ATTTTTAATA
1 ATTTTT-ATA
**
26252658 A-TTTT-CC
1 ATTTTTATA
26252665 ATTTTTATGA
1 ATTTTTAT-A
*
26252675 TTTTTTATA
1 ATTTTTATA
26252684 ATTTTTTTATA
1 A--TTTTTATA
26252695 ATTTTATATAA
1 ATTTT-TAT-A
26252706 TATTTTTTTATA
1 -A--TTTTTATA
*
26252718 ATTTATTA-G
1 ATTT-TTATA
*
26252727 ATTTATTA-G
1 ATTT-TTATA
26252736 ATTTTTATA
1 ATTTTTATA
*
26252745 ATATTTATA
1 ATTTTTATA
26252754 ATATTTTATTA
1 AT-TTTTA-TA
*
26252765 CTTTTTAGTATA
1 -ATTTT--TATA
26252777 ATTTTTATA
1 ATTTTTATA
26252786 A
1 A
26252787 GTTTATATTA
Statistics
Matches: 234, Mismatches: 32, Indels: 81
0.67 0.09 0.23
Matches are distributed among these distances:
4 2 0.01
5 1 0.00
6 1 0.00
7 3 0.01
8 44 0.19
9 86 0.37
10 58 0.25
11 25 0.11
12 5 0.02
13 5 0.02
14 4 0.02
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:26252494 original size:10 final size:10
Alignment explanation
Indices: 26252479--26252786 Score: 99
Period size: 10 Copynumber: 32.1 Consensus size: 10
26252469 TTTATTTTTT
26252479 ATTTTTTATA
1 ATTTTTTATA
26252489 A-TTTTTATA
1 ATTTTTTATA
** * *
26252498 CGTTTATATT
1 ATTTTTTATA
26252508 ATTTTTTATA
1 ATTTTTTATA
26252518 ATTTTTTAT-
1 ATTTTTTATA
*
26252527 ATTTATTAT-
1 ATTTTTTATA
26252536 A-TTTTTATA
1 ATTTTTTATA
*
26252545 A-TATTTATA
1 ATTTTTTATA
*
26252554 AGTTTTTATTA
1 ATTTTTTA-TA
*
26252565 TTTTTTATTATA
1 -ATTTT-TTATA
26252577 ATTTTTTATA
1 ATTTTTTATA
*
26252587 A--GTTTAT-
1 ATTTTTTATA
*
26252594 ATTAATTT-TA
1 ATT-TTTTATA
26252604 A-TTTTT-TA
1 ATTTTTTATA
*
26252612 A-TTTTAATA
1 ATTTTTTATA
*
26252621 A--TTTTATG
1 ATTTTTTATA
26252629 ATTTTTTAATA
1 ATTTTTT-ATA
**
26252640 A-TTTTCCT-
1 ATTTTTTATA
*
26252648 ATTTTTAATA
1 ATTTTTTATA
**
26252658 A--TTTT-CC
1 ATTTTTTATA
*
26252665 A-TTTTTATG
1 ATTTTTTATA
26252674 ATTTTTTATA
1 ATTTTTTATA
26252684 ATTTTTTTATA
1 A-TTTTTTATA
26252695 ATTTTATATAATA
1 ATTTT-T-T-ATA
*
26252708 TTTTTTTATA
1 ATTTTTTATA
* *
26252718 ATTTATTA-G
1 ATTTTTTATA
* *
26252727 ATTTATTA-G
1 ATTTTTTATA
26252736 A-TTTTTATA
1 ATTTTTTATA
*
26252745 A-TATTTATA
1 ATTTTTTATA
*
26252754 ATATTTTATTA
1 ATTTTTTA-TA
*
26252765 CTTTTTAGTATA
1 ATTTTT--TATA
26252777 A-TTTTTATA
1 ATTTTTTATA
26252786 A
1 A
26252787 GTTTATATTA
Statistics
Matches: 227, Mismatches: 43, Indels: 57
0.69 0.13 0.17
Matches are distributed among these distances:
7 2 0.01
8 40 0.18
9 62 0.27
10 71 0.31
11 31 0.14
12 9 0.04
13 12 0.05
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (10 bp):
ATTTTTTATA
Found at i:26252552 original size:56 final size:57
Alignment explanation
Indices: 26252471--26252586 Score: 164
Period size: 56 Copynumber: 2.0 Consensus size: 57
26252461 AGTTCAAGTT
* * *
26252471 TATTTTTTATTTTTTATAATTTTTATACGTTTATATTA-TTTT-TTATAATTTTTTA
1 TATTTATTATTTTTTATAATATTTATAAGTTTATATTATTTTTATTATAATTTTTTA
*
26252526 TATTTATTATATTTTTATAATATTTATAAGTTTTTATTATTTTTTATTATAATTTTTTA
1 TATTTATTAT-TTTTTATAATATTTATAAGTTTATATTA-TTTTTATTATAATTTTTTA
26252585 TA
1 TA
26252587 AGTTTATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
55 9 0.17
56 25 0.47
58 4 0.08
59 15 0.28
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.69
Consensus pattern (57 bp):
TATTTATTATTTTTTATAATATTTATAAGTTTATATTATTTTTATTATAATTTTTTA
Found at i:26252602 original size:20 final size:19
Alignment explanation
Indices: 26252487--26252643 Score: 67
Period size: 19 Copynumber: 8.8 Consensus size: 19
26252477 TTATTTTTTA
*
26252487 TAATTTTTATACGTTTATAT
1 TAATTTTTATA-ATTTATAT
*
26252507 TATTTTTTATAATTT-T-T
1 TAATTTTTATAATTTATAT
*
26252524 TATATTTATTAT-ATTTTTA-
1 TA-ATTT-TTATAATTTATAT
* *
26252543 TAATATTTATAAGTTTTTAT
1 TAATTTTTATAA-TTTATAT
26252563 T-ATTTTT-T-A-TTATA-
1 TAATTTTTATAATTTATAT
*
26252577 -ATTTTTTATAAGTTTATAT
1 TAATTTTTATAA-TTTATAT
26252596 TAA--TTT-TAATTT-T-T
1 TAATTTTTATAATTTATAT
*
26252610 TAATTTTAATAATTT-TAT
1 TAATTTTTATAATTTATAT
* *
26252628 GATTTTTTAATAATTT
1 TAATTTTT-ATAATTT
26252644 TCCTATTTTT
Statistics
Matches: 106, Mismatches: 12, Indels: 39
0.68 0.08 0.25
Matches are distributed among these distances:
14 9 0.08
15 6 0.06
16 6 0.06
17 18 0.17
18 27 0.25
19 28 0.26
20 12 0.11
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.66
Consensus pattern (19 bp):
TAATTTTTATAATTTATAT
Found at i:26252637 original size:19 final size:18
Alignment explanation
Indices: 26252511--26252703 Score: 80
Period size: 19 Copynumber: 10.4 Consensus size: 18
26252501 TTATATTATT
*
26252511 TTTTATAATTTTTT-ATAT
1 TTTTAT-ATTTTTTAATAA
26252529 TTATTATA-TTTTT-ATAA
1 TT-TTATATTTTTTAATAA
* * *
26252546 TATTTATAAGTTTTTATTATT
1 T-TTTAT-ATTTTTTAATA-A
*
26252567 TTTTATTATAATTTTTTATAA
1 TTTTA-TAT--TTTTTAATAA
*
26252588 GTTTATATTAATTTTAAT--
1 TTTTATATT--TTTTAATAA
*
26252606 TTTT-TA-ATTTTAATAA
1 TTTTATATTTTTTAATAA
26252622 TTTTATGATTTTTTAATAA
1 TTTTAT-ATTTTTTAATAA
*
26252641 TTTTCCTA-TTTTTAATAA
1 TTTT-ATATTTTTTAATAA
** * *
26252659 TTTTCCATTTTTATGAT-T
1 TTTTATATTTTT-TAATAA
*
26252677 TTTTATAATTTTTTTATAA
1 TTTTAT-ATTTTTTAATAA
26252696 TTTTATAT
1 TTTTATAT
26252704 AATATTTTTT
Statistics
Matches: 134, Mismatches: 20, Indels: 42
0.68 0.10 0.21
Matches are distributed among these distances:
14 7 0.05
16 4 0.03
17 18 0.13
18 37 0.28
19 38 0.28
20 17 0.13
21 6 0.04
22 7 0.05
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTATATTTTTTAATAA
Found at i:26252714 original size:23 final size:21
Alignment explanation
Indices: 26252480--26252721 Score: 93
Period size: 21 Copynumber: 11.6 Consensus size: 21
26252470 TTATTTTTTA
*
26252480 TTTTTTATAATTTT-TAT-AC
1 TTTTTTATAATTTTATATAAT
* * * *
26252499 GTTTATATTATTTTTTATAA-
1 TTTTTTATAATTTTATATAAT
26252519 TTTTTTAT-A-TTTAT-T-AT
1 TTTTTTATAATTTTATATAAT
* *
26252536 ATTTTTATAATATTTATA-AGT
1 TTTTTTATAAT-TTTATATAAT
*
26252557 TTTTATTAT-TTTTTATTATAA-
1 TTTT-TTATAATTTTA-TATAAT
*
26252578 TTTTTTATAAGTTTATATTAATT
1 TTTTTTATAATTTTATA-TAA-T
*
26252601 TTAATTTTTTAATTTTA-ATAAT
1 TT--TTTTATAATTTTATATAAT
* * *
26252623 TTTATGAT-TTTTTA-ATAAT
1 TTTTTTATAATTTTATATAAT
**
26252642 TTTCCTAT--TTTTA-ATAATTT
1 TTTTTTATAATTTTATATAA--T
* *
26252662 TCCATTTTTATGATTTTTTATAAT
1 T---TTTTTATAATTTTATATAAT
26252686 TTTTTTATAATTTTATATAATAT
1 TTTTTTATAATTTTATAT-A-AT
26252709 TTTTTTATAATTT
1 TTTTTTATAATTT
26252722 ATTAGATTTA
Statistics
Matches: 169, Mismatches: 27, Indels: 50
0.69 0.11 0.20
Matches are distributed among these distances:
16 1 0.01
17 8 0.05
18 14 0.08
19 27 0.16
20 29 0.17
21 34 0.20
22 9 0.05
23 25 0.15
24 3 0.02
25 15 0.09
26 4 0.02
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTTATAATTTTATATAAT
Found at i:26252714 original size:44 final size:43
Alignment explanation
Indices: 26252622--26252721 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 43
26252612 ATTTTAATAA
*
26252622 TTTTATGATTTTTTAATAATTTTCCTATTTTTAATAATTTTCCAT
1 TTTTATGATTTTTTAATAATTTTCCTATTTTTAATAATATT-C-T
**
26252667 TTTTATGATTTTTT-ATAATTTTTTTATAATTTTATATAATATT-T
1 TTTTATGATTTTTTAATAATTTTCCTAT--TTTTA-ATAATATTCT
*
26252711 TTTTATAATTT
1 TTTTATGATTT
26252722 ATTAGATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
44 22 0.46
45 14 0.29
46 5 0.10
47 7 0.15
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (43 bp):
TTTTATGATTTTTTAATAATTTTCCTATTTTTAATAATATTCT
Found at i:26252750 original size:11 final size:11
Alignment explanation
Indices: 26252665--26252760 Score: 56
Period size: 11 Copynumber: 8.5 Consensus size: 11
26252655 ATAATTTTCC
*
26252665 ATTTTTATGAT
1 ATTTTTATAAT
26252676 -TTTTTATAAT
1 ATTTTTATAAT
*
26252686 TTTTTTATAAT
1 ATTTTTATAAT
*
26252697 -TTTATATAAT
1 ATTTTTATAAT
26252707 ATTTTTTTATAATTT
1 A--TTTTTATAA--T
* *
26252722 ATTAGATTTATTAG
1 ATT---TTTATAAT
26252736 ATTTTTATAAT
1 ATTTTTATAAT
26252747 A--TTTATAAT
1 ATTTTTATAAT
26252756 ATTTT
1 ATTTT
26252761 ATTACTTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 22
0.70 0.07 0.23
Matches are distributed among these distances:
9 9 0.13
10 18 0.27
11 19 0.28
13 10 0.15
14 3 0.04
15 2 0.03
16 6 0.09
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
ATTTTTATAAT
Found at i:26252809 original size:32 final size:33
Alignment explanation
Indices: 26252740--26252818 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 33
26252730 TATTAGATTT
*
26252740 TTATAATATTTATAATATTTTATTACTTTTTAG
1 TTATAATATTTATAATATTATATTACTTTTTAG
*
26252773 -TATAATTTTTATAAGT-TTATATTACTTTTT-G
1 TTATAATATTTATAA-TATTATATTACTTTTTAG
26252804 TTATAAATATCTTAT
1 TTAT-AATAT-TTAT
26252819 TAAGTGGATG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 1 0.03
32 29 0.74
33 5 0.13
34 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (33 bp):
TTATAATATTTATAATATTATATTACTTTTTAG
Found at i:26255687 original size:50 final size:50
Alignment explanation
Indices: 26255613--26255783 Score: 234
Period size: 50 Copynumber: 3.4 Consensus size: 50
26255603 TCGTTTACTA
* * * * ** *
26255613 CCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * **
26255663 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
26255713 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
*
26255763 CCAACGCTATGTCCCAGACAT
1 CCAACGCCATGTCCCAGACAT
26255784 CTGAAAATCA
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 107 1.00
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Done.