Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 202 of 240
Found at i:61551952 original size:11 final size:11
Alignment explanation
Indices: 61551936--61551970 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
61551926 CCCTTCCCCC
61551936 CTCCCTTCTCT
1 CTCCCTTCTCT
61551947 CTCCCTTCTCT
1 CTCCCTTCTCT
61551958 CTTCCC-TCTCT
1 C-TCCCTTCTCT
61551969 CT
1 CT
61551971 TCTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:61554739 original size:47 final size:47
Alignment explanation
Indices: 61554676--61555021 Score: 436
Period size: 47 Copynumber: 7.3 Consensus size: 47
61554666 CCCTTCGGGA
* * *
61554676 CTTATCACATTTATACACT-TCCACATCCGTCACATTGGCCATTCGGC
1 CTTATCACA-TTATACACTGTTCACATTCATCACATTGGCCATTCGGC
61554723 CTTATCACATTTATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACA-TTATACACTGTTCACATTCATCACATTGGCCATTCGGC
* *
61554770 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACAT-TATACACTGTTCACATTCATCACATTGGCCATTCGGC
*
61554817 CTTATCACA-CATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATTATACAC-TGTTCACATTCATCACATTGGCCATTCGGC
*
61554864 CTTATCACA-CATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATTATACAC-TGTTCACATTCATCACATTGGCCATTCGGC
* * *
61554911 CTTATCACA-CATACACATGTTCACCTTTATCACATTGGCCATTCGGC
1 CTTATCACATTATACAC-TGTTCACATTCATCACATTGGCCATTCGGC
* *
61554958 CTTATCACGCATATATATACT-TTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CAT-TATACACTGTTCACATTCATCACATTGGCCATTCGGC
*
61555007 CCTATCACATATATA
1 CTTATCACAT-TATA
61555022 TACTTGTACA
Statistics
Matches: 275, Mismatches: 16, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
45 4 0.01
46 2 0.01
47 230 0.84
49 33 0.12
50 1 0.00
51 5 0.02
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATTATACACTGTTCACATTCATCACATTGGCCATTCGGC
Found at i:61554919 original size:22 final size:22
Alignment explanation
Indices: 61554892--61554965 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
61554882 GTTCACATTC
61554892 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
61554914 ATCACACAT-ACACATGTTC-ACCTTT
1 ATCACA-TTGGC-CA--TTCGGCC-TT
61554939 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
61554961 ATCAC
1 ATCAC
61554966 GCATATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 17 0.44
23 5 0.13
24 5 0.13
25 12 0.31
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:61559094 original size:30 final size:32
Alignment explanation
Indices: 61559026--61559094 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
61559016 TATATATTGT
* *
61559026 AATATTATAATATTATATCTTAATTATTAAGTA
1 AATA-TATAATATTATATATTAATTAATAAGTA
* *
61559059 TATATATTATATTATATATT-A-TAATAAGTA
1 AATATATAATATTATATATTAATTAATAAGTA
61559089 AATATA
1 AATATA
61559095 ATAAAAGAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 13 0.42
31 1 0.03
32 14 0.45
33 3 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (32 bp):
AATATATAATATTATATATTAATTAATAAGTA
Found at i:61559161 original size:11 final size:11
Alignment explanation
Indices: 61559098--61559171 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
61559088 AAATATAATA
61559098 AAAG-AAAAAG
1 AAAGAAAAAAG
*
61559108 AAATAGAAAAAG
1 AAAGA-AAAAAG
* *
61559120 AAAGAAAGAAC
1 AAAGAAAAAAG
*
61559131 AAATG-AAATAG
1 AAA-GAAAAAAG
* *
61559142 AAGGGAAAAAG
1 AAAGAAAAAAG
*
61559153 AAAGAAAAAGG
1 AAAGAAAAAAG
61559164 AAAGAAAA
1 AAAGAAAA
61559172 GGAGAAAGAC
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
10 4 0.08
11 33 0.69
12 11 0.23
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.04
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:61559178 original size:29 final size:29
Alignment explanation
Indices: 61559120--61559178 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
61559110 ATAGAAAAAG
* * *
61559120 AAAGAAAGAACAAATGAAATAGAAGGGAA
1 AAAGAAAGAACAAAGGAAAGAAAAGGGAA
61559149 AAAGAAAGAA-AAAGGAAAGAAAAGGAGAA
1 AAAGAAAGAACAAAGGAAAGAAAAGG-GAA
61559178 A
1 A
61559179 GACCAAAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.69, C:0.02, G:0.25, T:0.03
Consensus pattern (29 bp):
AAAGAAAGAACAAAGGAAAGAAAAGGGAA
Found at i:61560125 original size:40 final size:39
Alignment explanation
Indices: 61560002--61560142 Score: 110
Period size: 40 Copynumber: 3.6 Consensus size: 39
61559992 CAACTTCGAG
* * *
61560002 TCGATGAGACACT-GGATGTCAACTTACTACTTCGTATTAA
1 TCGATGAGACACTAGG-TGTCAAATTATTACTTCGAATT-A
* * * *
61560042 TTCGATGAGGCACTATGTGT-GAA-T-TTACTTCGATTTA
1 -TCGATGAGACACTAGGTGTCAAATTATTACTTCGAATTA
* *
61560079 GTCGATGAGACACTGGGTGTCAAATTATTACTTTGAATTA
1 -TCGATGAGACACTAGGTGTCAAATTATTACTTCGAATTA
* *
61560119 TCCGATGAGGCACTAGGTGCCAAA
1 T-CGATGAGACACTAGGTGTCAAA
61560143 CTAGTGTGTT
Statistics
Matches: 78, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 3 0.04
40 31 0.40
41 15 0.19
42 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (39 bp):
TCGATGAGACACTAGGTGTCAAATTATTACTTCGAATTA
Found at i:61563667 original size:13 final size:15
Alignment explanation
Indices: 61563639--61563682 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
61563629 AAAATATGTT
61563639 TATGAAAAAATAAAA
1 TATGAAAAAATAAAA
61563654 TATG-AAAAAT-AAA
1 TATGAAAAAATAAAA
61563667 TA--AAAAAATGAAAA
1 TATGAAAAAAT-AAAA
61563681 TA
1 TA
61563683 ATAAATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.23
13 5 0.19
14 11 0.42
15 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (15 bp):
TATGAAAAAATAAAA
Found at i:61563951 original size:157 final size:156
Alignment explanation
Indices: 61563659--61564068 Score: 587
Period size: 157 Copynumber: 2.6 Consensus size: 156
61563649 TAAAATATGA
* * ** * *
61563659 AAAAT-AAATAAAAAAATGAAAATAATAAATTTACTGAAAGTAATAAAAT-TCGAAAAAAATAAA
1 AAAATAAAATAAAAAAACGAAAATAATATATTTTTTGAAAGTAATAAAATCT-GAAAATAAGAAA
61563722 AATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAA
65 AATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAA
*
61563787 TATATTTC-AAACATTATGTACTAAAAT
130 TACATTTCGAAA-ATTATGTACTAAAAT
*
61563814 AATATAAAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAA
1 AAAATAAAATAA-AAAA-ACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAA
*
61563879 AAATACGAACAAA-GGCAAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATA
64 AAATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATA
61563943 ATACATTTCGAAAATTATGTACTAAAAT
129 ATACATTTCGAAAATTATGTACTAAAAT
* * * *
61563971 AAAATAAAATAAATAGACACGAAGATAGTATATATTTTGAAAGTAATAAAATCCT-AAAATAAGA
1 AAAATAAAATAAA-A-AAACGAAAATAATATATTTTTTGAAAGTAATAAAAT-CTGAAAATAAGA
* *
61564035 AAAATACGAACAAATGGCCAAAATGAGGGTTTTT
63 AAAATACGAACAAAGGGCCAAAATAAGGGTTTTT
61564069 ACATAAAGTT
Statistics
Matches: 230, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
155 4 0.02
156 7 0.03
157 143 0.62
158 75 0.33
159 1 0.00
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.26
Consensus pattern (156 bp):
AAAATAAAATAAAAAAACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAA
ATACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAAT
ACATTTCGAAAATTATGTACTAAAAT
Found at i:61564520 original size:27 final size:27
Alignment explanation
Indices: 61564473--61564542 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
61564463 GAACAAATGG
* *
61564473 GGTGCCGCCTGTGGCAGTGGCACCTTT
1 GGTGCCGCCTGTGGCACTGGCACCATT
* *
61564500 GGTGCCGCCTTTGTCACTGGCACCATT
1 GGTGCCGCCTGTGGCACTGGCACCATT
61564527 GGTGCCGCCTGTGGCA
1 GGTGCCGCCTGTGGCA
61564543 GTCCCTCCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.09, C:0.31, G:0.34, T:0.26
Consensus pattern (27 bp):
GGTGCCGCCTGTGGCACTGGCACCATT
Found at i:61567276 original size:43 final size:43
Alignment explanation
Indices: 61567220--61567309 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
61567210 CATTACCCAA
61567220 ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
1 ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
*
61567263 ACACATAAAAAAAATCTACTAACTATGATTGGTTTTATCAAAC
1 ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
61567306 ACAC
1 ACAC
61567310 GTAACATAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.28
Consensus pattern (43 bp):
ACACATAAAAAAAATCTACTAACTAAGATTGGTTTTATCAAAC
Found at i:61570791 original size:73 final size:74
Alignment explanation
Indices: 61570704--61570875 Score: 212
Period size: 72 Copynumber: 2.4 Consensus size: 74
61570694 TTTGGAAGAT
*
61570704 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAATAAA-ATTTGGGGGG-TTGGGAGGAAGTAAAATTC
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAA-AAAGATTTGGGGGGTTTGGGAGGAAATAAAATT-
61570767 TCTAGGGG-AA
64 TCTAGGGGAAA
* * * *
61570777 GTAAAAGTTTTGGGGAGAAAATAAAA--AAAAAGTTTTGGGGGGTTTGGGGGGAAATAAAATTTT
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAGATTTGGGGGGTTTGGGAGGAAATAAAATTTC
*
61570840 TGGGGGAAA
66 TAGGGGAAA
* *
61570849 GTAAAATTTTTAGGG-GAAAGTAAAAGG
1 GTAAAAGTTTTGGGGAGAAAGTAAAAGG
61570876 GTTTAAAGGA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
70 3 0.04
71 26 0.31
72 31 0.36
73 25 0.29
ACGTcount: A:0.40, C:0.01, G:0.34, T:0.25
Consensus pattern (74 bp):
GTAAAAGTTTTGGGGAGAAAGTAAAAGGAAAAAGATTTGGGGGGTTTGGGAGGAAATAAAATTTC
TAGGGGAAA
Found at i:61570846 original size:18 final size:19
Alignment explanation
Indices: 61570823--61570873 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
61570813 GGGGGGTTTG
61570823 GGGGGAAA-TAAAATTTTT
1 GGGGGAAAGTAAAATTTTT
61570841 GGGGGAAAGTAAAATTTTT
1 GGGGGAAAGTAAAATTTTT
*
61570860 AGGGGAAAGTAAAA
1 GGGGGAAAGTAAAA
61570874 GGGTTTAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 8 0.26
19 23 0.74
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.25
Consensus pattern (19 bp):
GGGGGAAAGTAAAATTTTT
Found at i:61570880 original size:20 final size:19
Alignment explanation
Indices: 61570824--61570880 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
61570814 GGGGGTTTGG
** *
61570824 GGGGAAA-TAAAATTTTTG
1 GGGGAAAGTAAAAGGTTTA
**
61570842 GGGGAAAGTAAAATTTTTA
1 GGGGAAAGTAAAAGGTTTA
61570861 GGGGAAAGTAAAAGGGTTTA
1 GGGGAAAGTAAAA-GGTTTA
61570881 AAGGAGTTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 7 0.21
19 23 0.68
20 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (19 bp):
GGGGAAAGTAAAAGGTTTA
Found at i:61573070 original size:16 final size:16
Alignment explanation
Indices: 61573049--61573081 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
61573039 TCTACGTTCT
61573049 TGACATCCCATCTTTG
1 TGACATCCCATCTTTG
61573065 TGACATCCCATCTTTG
1 TGACATCCCATCTTTG
61573081 T
1 T
61573082 CTCAGTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.39
Consensus pattern (16 bp):
TGACATCCCATCTTTG
Found at i:61574581 original size:20 final size:20
Alignment explanation
Indices: 61574558--61574625 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
61574548 CATGGTATCA
* *
61574558 ATACTTTGAGGAAGGTATTG
1 ATACTTTGAGGAAAGTATAG
61574578 ATACTTTG-GGTAAAGTATAG
1 ATACTTTGAGG-AAAGTATAG
* * *
61574598 ATACTCTGAGTAAAGTATCG
1 ATACTTTGAGGAAAGTATAG
61574618 ATACTTTG
1 ATACTTTG
61574626 TTAAGGGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.05
20 37 0.93
21 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (20 bp):
ATACTTTGAGGAAAGTATAG
Found at i:61574642 original size:40 final size:40
Alignment explanation
Indices: 61574551--61574642 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
61574541 GGTGGGACAT
* * *
61574551 GGTATCAATACTTTGAGGAAGGTATTGATACTTTGGGTAA
1 GGTATCAATACTCTGAGGAAAGTATCGATACTTTGGGTAA
* * *
61574591 AGTAT-AGATACTCTGAGTAAAGTATCGATACTTT-GTTAA
1 GGTATCA-ATACTCTGAGGAAAGTATCGATACTTTGGGTAA
61574630 GGGTATCAATACT
1 -GGTATCAATACT
61574643 TTTTTATTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
39 5 0.12
40 36 0.86
41 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (40 bp):
GGTATCAATACTCTGAGGAAAGTATCGATACTTTGGGTAA
Found at i:61575885 original size:21 final size:20
Alignment explanation
Indices: 61575854--61575895 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
61575844 CCTCACGTTC
61575854 CATTTTTCTTTTCTTTCTTT
1 CATTTTTCTTTTCTTTCTTT
*
61575874 CATTTTTACTTTTGTTTCTTT
1 CATTTTT-CTTTTCTTTCTTT
61575895 C
1 C
61575896 CTTTCTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.71
Consensus pattern (20 bp):
CATTTTTCTTTTCTTTCTTT
Found at i:61580139 original size:18 final size:17
Alignment explanation
Indices: 61580113--61580148 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
61580103 TTTGGTTATA
61580113 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
61580131 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
61580148 T
1 T
61580149 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:61584184 original size:21 final size:21
Alignment explanation
Indices: 61584143--61584185 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
61584133 AATAAAGTAG
*
61584143 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
61584164 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
61584185 A
1 A
61584186 AATTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:61585729 original size:20 final size:21
Alignment explanation
Indices: 61585706--61585749 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
61585696 TATTATTATA
61585706 TTTAAAATTTT-AAAATATTT
1 TTTAAAATTTTAAAAATATTT
61585726 TTT-AAATTTTAAAAATATTT
1 TTTAAAATTTTAAAAATATTT
61585746 TTTA
1 TTTA
61585750 TTAATTACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTAAAATTTTAAAAATATTT
Found at i:61587285 original size:20 final size:19
Alignment explanation
Indices: 61587249--61587287 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
61587239 AAAATATTTT
*
61587249 TATTTTTTTATTTTTAAAA
1 TATTTTTGTATTTTTAAAA
*
61587268 TATTTTTGTGTTTATTAAAA
1 TATTTTTGTATTT-TTAAAA
61587288 ATCGGGCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTGTATTTTTAAAA
Found at i:61599140 original size:23 final size:23
Alignment explanation
Indices: 61599113--61599158 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
61599103 AACAAATACC
61599113 CATATTTATATAAT-TAAAACATT
1 CATATTT-TATAATATAAAACATT
*
61599136 CATATTTTATACTATAAAACATT
1 CATATTTTATAATATAAAACATT
61599159 TATTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (23 bp):
CATATTTTATAATATAAAACATT
Found at i:61599215 original size:24 final size:22
Alignment explanation
Indices: 61599158--61599217 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 22
61599148 TATAAAACAT
61599158 TTATTAT-TAAATATTTATAAA
1 TTATTATATAAATATTTATAAA
*
61599179 TT-TTA-ATATATATTTATTAAA
1 TTATTATATAAATATTTA-TAAA
61599200 TTATTGATATAAATATTT
1 TTATT-ATATAAATATTT
61599218 TTCAATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 12 0.38
21 8 0.25
22 2 0.06
23 1 0.03
24 9 0.28
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTATTATATAAATATTTATAAA
Found at i:61600240 original size:16 final size:15
Alignment explanation
Indices: 61600214--61600272 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
61600204 AGAAAGTAAA
*
61600214 AGAGCTGTAATGAAAT
1 AGAGTTGTAATG-AAT
*
61600230 AGGGTTGTAATTGAAT
1 AGAGTTGTAA-TGAAT
*
61600246 AAAGTTGTAATGGAAT
1 AGAGTTGTAAT-GAAT
61600262 AGAGTTGTAAT
1 AGAGTTGTAAT
61600273 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 1 0.03
16 33 0.92
17 2 0.06
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (15 bp):
AGAGTTGTAATGAAT
Found at i:61602519 original size:26 final size:26
Alignment explanation
Indices: 61602488--61602582 Score: 129
Period size: 26 Copynumber: 3.7 Consensus size: 26
61602478 GTAATGGGCC
61602488 TAAATTACTGAAATACCCTCGATGGG
1 TAAATTACTGAAATACCCTCGATGGG
** *
61602514 TAAATTACCAAAATACCCTCGATGGT
1 TAAATTACTGAAATACCCTCGATGGG
* * *
61602540 TAAATTACTCAAATACCC-CCATAGG
1 TAAATTACTGAAATACCCTCGATGGG
61602565 TAAATTACTGAAATACCC
1 TAAATTACTGAAATACCC
61602583 CGTAGGAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 21 0.35
26 39 0.65
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (26 bp):
TAAATTACTGAAATACCCTCGATGGG
Found at i:61606720 original size:14 final size:14
Alignment explanation
Indices: 61606701--61606731 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61606691 TAAACCATAG
61606701 TAATAAAAATAATA
1 TAATAAAAATAATA
*
61606715 TAATAATAATAATA
1 TAATAAAAATAATA
61606729 TAA
1 TAA
61606732 AAAGTGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAATAAAAATAATA
Found at i:61607443 original size:9 final size:8
Alignment explanation
Indices: 61607406--61607451 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
61607396 AATTTGATTT
*
61607406 TTTTTATT
1 TTTTTATA
61607414 TTTTTA-A
1 TTTTTATA
61607421 TTTTTTATA
1 -TTTTTATA
61607430 TTTTTATA
1 TTTTTATA
61607438 TGTTTTATA
1 T-TTTTATA
61607447 TTTTT
1 TTTTT
61607452 GCACTATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
8 25 0.74
9 9 0.26
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (8 bp):
TTTTTATA
Found at i:61607443 original size:17 final size:16
Alignment explanation
Indices: 61607407--61607451 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
61607397 ATTTGATTTT
* *
61607407 TTTTATTTTTTTAATT
1 TTTTATATTTTTAATG
61607423 TTTTATATTTTTATATG
1 TTTTATATTTTTA-ATG
61607440 TTTTATATTTTT
1 TTTTATATTTTT
61607452 GCACTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTATATTTTTAATG
Found at i:61608932 original size:72 final size:72
Alignment explanation
Indices: 61608695--61608946 Score: 382
Period size: 72 Copynumber: 3.5 Consensus size: 72
61608685 ACATGTGAAC
* * *
61608695 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTTTACAACAGAAATTGAAATTACCT
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
* *
61608759 CAGCGTGTCC
63 CAACGTGTCT
* *
61608769 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGTAGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
61608834 ACGTGTCT
65 ACGTGTCT
61608842 TGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
61608906 TGTGTCT
66 CGTGTCT
61608913 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
61608947 TTCTTTCAAA
Statistics
Matches: 165, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
71 39 0.24
72 55 0.33
73 41 0.25
74 30 0.18
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:61609115 original size:90 final size:89
Alignment explanation
Indices: 61608881--61609124 Score: 291
Period size: 88 Copynumber: 2.8 Consensus size: 89
61608871 TTGAATTTTG
* * * **
61608881 AAAACAGAAATTGAAATTACCTCA-ATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
61608945 GATTCTTTCAAAAACATAATAATG
66 GATTCTTTCAAAAACATAATAATC
* *
61608969 AAAACAGAAATAGAAAATACCTC-GGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAATACCTCAGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
61609033 GATTTTTTTGAAAAACA-GA-AATC
66 GA-TTCTTTCAAAAACATAATAATC
** *
61609056 AAAAGGC-TTAATTGAAAATACCTCAGCGTGTGTCCTGAGGCTCAACTCACCTCCCGCAATATGA
1 AAAA--CAGAAATTGAAAATACCTCAG-GTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
61609120 GTTGA
63 GTTGA
61609125 AATTAAAACA
Statistics
Matches: 134, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
87 7 0.05
88 73 0.54
89 14 0.10
90 40 0.30
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (89 bp):
AAAACAGAAATTGAAAATACCTCAGGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTCTTTCAAAAACATAATAATC
Found at i:61609452 original size:75 final size:73
Alignment explanation
Indices: 61609344--61609697 Score: 376
Period size: 75 Copynumber: 4.8 Consensus size: 73
61609334 AGTGTGTAAT
* * * *
61609344 CTGAAGCTCAACTCACCTCTCGTAAGATGAGTTGATCTTTTAAAAACAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAATACCTC
*
61609409 AGCATGTGAAC
66 AGC--GTG-TC
* *
61609420 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTAAAAACAGAAATTGAAAATAC
**
61609484 CTCAATGTGTC
63 CTCAGCGTGTC
* ** * * * * *
61609495 TTGAGGCTCAACTCATTTCTTGCAATATAAGTTGA-ATTTTGAAAACA-AAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAATACCTC
61609558 AGCGTGTC
66 AGCGTGTC
** * *
61609566 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTAAAAACAGAAATTGAAAATACC
61609631 TCAGCGTGTC
64 TCAGCGTGTC
* * * *
61609641 CTGAGGCTTAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT-AAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAA
61609698 GGCTTAACTC
Statistics
Matches: 239, Mismatches: 31, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
71 56 0.23
72 26 0.11
74 9 0.04
75 85 0.36
76 34 0.14
78 29 0.12
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (73 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAGAAATTGAAAATACCTC
AGCGTGTC
Found at i:61609646 original size:146 final size:147
Alignment explanation
Indices: 61609344--61609690 Score: 414
Period size: 146 Copynumber: 2.3 Consensus size: 147
61609334 AGTGTGTAAT
* * * * * *
61609344 CTGAAGCTCAACTCACCTCTCGTAAGATGAGTTGATCTTTTAAAAACAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGA--TTTTGAAAACA-AAATTGAAAATACCTC
61609409 AGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAA
63 AGCA-GTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAA
*
61609474 TTGAAAATACCTCAATGTGTC
127 TTGAAAATACCTCAACGTGTC
* ** * *
61609495 TTGAGGCTCAACTCATTTCTTGCAATATAAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAG
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTG-ATTTTGAAAACAAAATTGAAAATACCTCAG
* ** *
61609560 C-GTG-TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTTTT-AACAACAGAAAT
65 CAGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAA-AACAGAAAT
* *
61609621 TGAAATTACCTCAGCGTGTC
128 TGAAAATACCTCAACGTGTC
* *
61609641 CTGAGGCTTAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAA
1 CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTG-AAAACAAAA
61609691 ATTAAAAGGC
Statistics
Matches: 169, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
145 8 0.05
146 73 0.43
147 33 0.20
149 18 0.11
150 10 0.06
151 26 0.15
152 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (147 bp):
CTGAGGCTCAACTCACCTCTAGCAATATAAGTTGATTTTGAAAACAAAATTGAAAATACCTCAGC
AGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGA
AAATACCTCAACGTGTC
Found at i:61609847 original size:70 final size:70
Alignment explanation
Indices: 61609697--61609871 Score: 203
Period size: 70 Copynumber: 2.5 Consensus size: 70
61609687 AAAAATTAAA
* * * * * * **
61609697 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACTTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
61609761 CCCCG
66 CCCCG
*
61609766 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
61609830 GTCTTG
65 GCCCCG
61609836 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
61609872 CCTTGGAAAG
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
69 27 0.30
70 60 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:61622945 original size:140 final size:141
Alignment explanation
Indices: 61622679--61622959 Score: 478
Period size: 140 Copynumber: 2.0 Consensus size: 141
61622669 ACTTGAAAAC
* * *
61622679 AAACTCATAAAAAATAGAGATTTCAATATTCTCTAGTTGATGCATAAAATAGAGTGAAATTTGGA
1 AAACTCATAAAAAACAGAGATTTCAATATTCTCCAGCTGATGCATAAAATAGAGTGAAATTTGGA
61622744 TAAAAAAAAAGAAAAACATTTTACTTGAATTAACTCTGTTAACATGATGAGGCTGTCCAACTGAG
66 TAAAAAAAAAGAAAAACATTTTACTTGAATTAACTCTGTTAACATGATGAGGCTGTCCAACTGAG
*
61622809 TTGTCTTTAGT
131 CTGTCTTTAGT
61622820 AAACTCATAAAAAACAGAGATTTCAATATTCTCCAGCTGATGCATAAAATAGAGTGAAATTTCGG
1 AAACTCATAAAAAACAGAGATTTCAATATTCTCCAGCTGATGCATAAAATAGAGTGAAATTT-GG
*
61622885 -T-AAGAAAAAGAAAAACATTTTACCTT-AATTAACTCTGTTAACATGATGAGGCTGTCCAACTG
65 ATAAAAAAAAAGAAAAACATTTTA-CTTGAATTAACTCTGTTAACATGATGAGGCTGTCCAACTG
61622947 AGCTGTCTTTAGT
129 AGCTGTCTTTAGT
61622960 TGAATCCTTT
Statistics
Matches: 133, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
140 68 0.51
141 63 0.47
142 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (141 bp):
AAACTCATAAAAAACAGAGATTTCAATATTCTCCAGCTGATGCATAAAATAGAGTGAAATTTGGA
TAAAAAAAAAGAAAAACATTTTACTTGAATTAACTCTGTTAACATGATGAGGCTGTCCAACTGAG
CTGTCTTTAGT
Found at i:61623753 original size:15 final size:15
Alignment explanation
Indices: 61623733--61623762 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61623723 TTAAATACCT
*
61623733 TTTTAGAATTTTATA
1 TTTTAGAATTCTATA
61623748 TTTTAGAATTCTATA
1 TTTTAGAATTCTATA
61623763 AAAAATTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (15 bp):
TTTTAGAATTCTATA
Found at i:61623907 original size:22 final size:24
Alignment explanation
Indices: 61623860--61623914 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
61623850 ATTGTCGTGT
* *
61623860 TTTTATA-ATTTATGTTTTTTAGA
1 TTTTATATATATATGTTTTTGAGA
61623883 TTTTATATATATAT-TTTTTGA-A
1 TTTTATATATATATGTTTTTGAGA
*
61623905 TTTTTTATAT
1 TTTTATATAT
61623915 GTTTATTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.36
23 13 0.46
24 5 0.18
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (24 bp):
TTTTATATATATATGTTTTTGAGA
Found at i:61626554 original size:13 final size:13
Alignment explanation
Indices: 61626536--61626562 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61626526 AAACCCAACA
61626536 TCTGAATTCACTG
1 TCTGAATTCACTG
61626549 TCTGAATTCACTG
1 TCTGAATTCACTG
61626562 T
1 T
61626563 ATTTTACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TCTGAATTCACTG
Found at i:61630048 original size:19 final size:19
Alignment explanation
Indices: 61630024--61630062 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
61630014 TTCCAAACAG
61630024 TATGCTGCTTACCTGATAT
1 TATGCTGCTTACCTGATAT
61630043 TATGCTGCTTACCTGATAT
1 TATGCTGCTTACCTGATAT
61630062 T
1 T
61630063 TTCATACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
TATGCTGCTTACCTGATAT
Found at i:61633158 original size:16 final size:16
Alignment explanation
Indices: 61633137--61633176 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
61633127 TGAATTACTG
*
61633137 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
*
61633153 ATTACAACTTTATTCC
1 ATTACAACTCTATTCC
61633169 ATTACAAC
1 ATTACAAC
61633177 GAACCAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:61638266 original size:21 final size:21
Alignment explanation
Indices: 61638227--61638267 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61638217 ATCTGCTCAA
* *
61638227 ACTCCACCTGTTTTAGAGTAC
1 ACTCCACCTGCTGTAGAGTAC
*
61638248 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTAGAGTA
61638268 TTGCTCGTCT
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:0.29, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTAGAGTAC
Found at i:61643070 original size:18 final size:18
Alignment explanation
Indices: 61643043--61643078 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61643033 GAAGAGCATG
*
61643043 TATTTTAATTATTCGAGT
1 TATTTGAATTATTCGAGT
61643061 TATTTGAATTATTCGAGT
1 TATTTGAATTATTCGAGT
61643079 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.53
Consensus pattern (18 bp):
TATTTGAATTATTCGAGT
Found at i:61643143 original size:18 final size:18
Alignment explanation
Indices: 61643117--61643154 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
61643107 TGAATATTAC
61643117 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
* *
61643135 AATTTGAATAATTCGAAT
1 AATTCGAATAACTCGAAT
61643153 AA
1 AA
61643155 CAGATTGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:61652235 original size:15 final size:15
Alignment explanation
Indices: 61652215--61652243 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61652205 AACATCACTT
61652215 ATAGCAACTTTATTC
1 ATAGCAACTTTATTC
61652230 ATAGCAACTTTATT
1 ATAGCAACTTTATT
61652244 TAACTTGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.41
Consensus pattern (15 bp):
ATAGCAACTTTATTC
Found at i:61653198 original size:63 final size:63
Alignment explanation
Indices: 61653103--61653239 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 63
61653093 ATGGGGCCCT
* * * * ** *
61653103 CCACCATTCGGGCCAAGAGTTTGTGGCTTATACTCATGGCTTTCAACATTCGGCCTGGGCCAA
1 CCACCATTCGGCCCAAGAGTTTGTGGCCTATACGCATGACACTCAACATTCAGCCTGGGCCAA
* *
61653166 CCACCATTTGGCCCAATG-GTTTGTGGCCTATACGCATGACACTCAACATTCAGCCTGGGCCCA
1 CCACCATTCGGCCCAA-GAGTTTGTGGCCTATACGCATGACACTCAACATTCAGCCTGGGCCAA
*
61653229 CCACCAATCGG
1 CCACCATTCGG
61653240 TCCTGCATAT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
63 61 0.98
64 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (63 bp):
CCACCATTCGGCCCAAGAGTTTGTGGCCTATACGCATGACACTCAACATTCAGCCTGGGCCAA
Found at i:61654866 original size:19 final size:19
Alignment explanation
Indices: 61654828--61654865 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
61654818 TCTCCATTTT
*
61654828 TTAATGAAAATATTAAAAA
1 TTAATGAAAATAATAAAAA
61654847 TTAATGAAAAATAATAAAA
1 TTAATG-AAAATAATAAAA
61654866 TAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
TTAATGAAAATAATAAAAA
Found at i:61665465 original size:86 final size:84
Alignment explanation
Indices: 61665368--61665535 Score: 225
Period size: 86 Copynumber: 2.0 Consensus size: 84
61665358 ATCAATTTGA
* * *
61665368 GATTTCGTGTAAGACCAC-GTTTGGGAC-GTTGGCATCGAT-TTGAGATTTACGTGTAAGACCAT
1 GATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATT--GA-TTACATGTAAGACCAC
61665430 GTCTGGGACATTGGCATCGTATAT
61 GTCTGGGACATTGGCATCGTATAT
61665454 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATAGTTGATTACATGTAAGACCACGTCT
1 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATA-TTGATTACATGTAAGACCACGTCT
*
61665519 GGGACGTTGGCATCGTA
65 GGGACATTGGCATCGTA
61665536 CAAGCTTTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
85 35 0.47
86 36 0.49
87 1 0.01
88 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (84 bp):
GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTGATTACATGTAAGACCACGTCTG
GGACATTGGCATCGTATAT
Found at i:61665533 original size:43 final size:43
Alignment explanation
Indices: 61665331--61665533 Score: 204
Period size: 43 Copynumber: 4.7 Consensus size: 43
61665321 TTGTGATTTT
* * * * *
61665331 GTGTAAGACCACATTTGGGATGTTGGCATCAAT-TTGAGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-AGATTAC
*
61665374 GTGTAAGACCACGTTTGGGACGTTGGCATCGAT-TTGAGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATT-AGA-TTAC
* * *
61665418 GTGTAAGACCATGTCTGGGACATTGGCATCG-TA-TATGATTTC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTA-GATTAC
61665460 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATAGTT-GATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATA-TTAGATTAC
*
61665503 ATGTAAGACCACGTCTGGGACGTTGGCATCG
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG
61665534 TACAAGCTTT
Statistics
Matches: 138, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
42 32 0.23
43 73 0.53
44 32 0.23
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATTAGATTAC
Found at i:61665546 original size:86 final size:85
Alignment explanation
Indices: 61665367--61665539 Score: 219
Period size: 85 Copynumber: 2.0 Consensus size: 85
61665357 CATCAATTTG
* * *
61665367 AGATTTCGTGTAAGACCACGTTTGGGACGTTGGCATCGATTTGAGATTTACGTGTAAGACCATGT
1 AGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-AGATTTACATGTAAGACCACGT
*
61665432 CTGGGACATTGGCATCGTATA
65 CTGGGACATTGGCATCGTACA
*
61665453 TGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATAGTT-GA-TTACATGTAAGACCA
1 AGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT--TTAGATTTACATGTAAGACCA
*
61665514 CGTCTGGGACGTTGGCATCGTACA
62 CGTCTGGGACATTGGCATCGTACA
61665538 AG
1 AG
61665540 CTTTTCGAGC
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
85 37 0.49
86 36 0.47
87 1 0.01
88 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (85 bp):
AGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTAGATTTACATGTAAGACCACGTC
TGGGACATTGGCATCGTACA
Found at i:61669789 original size:16 final size:18
Alignment explanation
Indices: 61669768--61669807 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
61669758 ATTTAATTAG
61669768 AAAATACA-TA-TTTTTA
1 AAAATACATTATTTTTTA
*
61669784 AAAATATATTATTTTTTA
1 AAAATACATTATTTTTTA
61669802 AAAATA
1 AAAATA
61669808 TATTCAATCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
17 2 0.10
18 12 0.57
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAATACATTATTTTTTA
Found at i:61673098 original size:3 final size:3
Alignment explanation
Indices: 61673090--61673124 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
61673080 GGAGAAACAG
*
61673090 CAT CAT CAT CAT CAT CAT CAT CAT CAT CCT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
61673125 ACCGCAGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.37, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:61676085 original size:29 final size:29
Alignment explanation
Indices: 61676042--61676097 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
61676032 CTACCAATTA
61676042 GCTAGGTTGGCTTTGTTTTAAATTGGGAT
1 GCTAGGTTGGCTTTGTTTTAAATTGGGAT
* *
61676071 GCTAGGTTGGGTTTGTTTTAGATTGGG
1 GCTAGGTTGGCTTTGTTTTAAATTGGG
61676098 CGAATATGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.36, T:0.45
Consensus pattern (29 bp):
GCTAGGTTGGCTTTGTTTTAAATTGGGAT
Found at i:61683254 original size:24 final size:23
Alignment explanation
Indices: 61683210--61683254 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
61683200 ATTTTTACAC
*
61683210 TTTAATAGTTTGTTTTATGTGAT
1 TTTAATAGTTTGTATTATGTGAT
61683233 TTTAATAAGTTTGATATT-TGTG
1 TTTAAT-AGTTTG-TATTATGTG
61683255 TCACGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 10 0.53
25 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (23 bp):
TTTAATAGTTTGTATTATGTGAT
Found at i:61683328 original size:20 final size:19
Alignment explanation
Indices: 61683286--61683328 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
61683276 CGTTATCATA
*
61683286 TATTTTAATTATTTTACAT
1 TATTTTAATTATTTTAAAT
61683305 TATTTT-ATTATATCTTAAAT
1 TATTTTAATTAT-T-TTAAAT
61683325 TATT
1 TATT
61683329 CTGAAGTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 9 0.43
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTTAATTATTTTAAAT
Found at i:61695450 original size:12 final size:12
Alignment explanation
Indices: 61695433--61695462 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
61695423 ACAAAATCCG
61695433 AATTTAATTTCC
1 AATTTAATTTCC
*
61695445 AATTTAATTTCT
1 AATTTAATTTCC
61695457 AATTTA
1 AATTTA
61695463 TTTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:61701323 original size:24 final size:26
Alignment explanation
Indices: 61701265--61701323 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
61701255 ATTCAAAAAA
*
61701265 GACTTTGGTTAAATGCATTAGCTTAT
1 GACTTTGGTTAAATGCATTAGCTTAG
*
61701291 GACTGTGGTTAAATG-A-TATG-TTAG
1 GACTTTGGTTAAATGCATTA-GCTTAG
61701315 GACTTTGGT
1 GACTTTGGT
61701324 GTCACGCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 13 0.45
25 2 0.07
26 14 0.48
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.41
Consensus pattern (26 bp):
GACTTTGGTTAAATGCATTAGCTTAG
Found at i:61705182 original size:51 final size:50
Alignment explanation
Indices: 61705038--61705221 Score: 138
Period size: 51 Copynumber: 3.6 Consensus size: 50
61705028 AAAATGATGG
* * ** * * * *
61705038 TCACGTGTCTAGTACTATGGTGCAGGCTACTACGTGTACCGAAATGATA-GG
1 TCACATGTGTAGTACTAT-GTGCAGGCTACTACACGTACTG-GATGCTATGA
* * * * **
61705089 TCGCATATGTAGTACTATGTGCAGACCACTATGCGTACTGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACACGTACTGGAT-GCTAT-GA
* * * * *
61705140 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTATTGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACACGTACTGGATGCT-ATGA
61705191 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
61705222 TGTGAACCAA
Statistics
Matches: 104, Mismatches: 24, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
49 2 0.02
50 21 0.20
51 80 0.77
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACACGTACTGGATGCTATGA
Found at i:61705202 original size:102 final size:102
Alignment explanation
Indices: 61705038--61705223 Score: 250
Period size: 102 Copynumber: 1.8 Consensus size: 102
61705028 AAAATGATGG
* *
61705038 TCACGTGTCTAGTACTATGGTGCAGGCTACTACGTGTACCGAAATGATAGGTCGCATATGTAGTA
1 TCACGTGTCTAGTACTATGGTGCAGGCTACTACATGTACCGAAATGATAGGTCACATATGTAGTA
61705103 CTATGTGCAGACCACTATGCGTACTGGATAGCTTCGA
66 CTATGTGCAGACCACTATGCGTACTGGATAGCTTCGA
* ** * * *
61705140 TCACGTGTGTAGTACTAT-GTGCAGGCTACTACATGTATTG-GATGGTAATGGTCACATGTGTAG
1 TCACGTGTCTAGTACTATGGTGCAGGCTACTACATGTACCGAAATGAT-A-GGTCACATATGTAG
* *
61705203 TACTATGTGCAGGCTACTATG
64 TACTATGTGCAGACCACTATG
61705224 TGAACCAAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
100 4 0.06
101 20 0.28
102 48 0.67
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTCTAGTACTATGGTGCAGGCTACTACATGTACCGAAATGATAGGTCACATATGTAGTA
CTATGTGCAGACCACTATGCGTACTGGATAGCTTCGA
Found at i:61705283 original size:45 final size:45
Alignment explanation
Indices: 61705227--61705319 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 45
61705217 TACTATGTGA
* *
61705227 ACCAAACATCATTAATTAGTAACGTGGTTGCTATGTGCTGATTCC
1 ACCAAACATCATTAATTAATAACGTGGTTGCTATGTGCTGAATCC
* * *
61705272 ACCAGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCAAACATCATTAATTAATAACGTGGTTGCTATGTGCTGAATCC
61705317 ACC
1 ACC
61705320 GAGTATCTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (45 bp):
ACCAAACATCATTAATTAATAACGTGGTTGCTATGTGCTGAATCC
Found at i:61708426 original size:4 final size:4
Alignment explanation
Indices: 61708417--61708449 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
61708407 TTGCTTGTAC
61708417 ATAA ATAA ATAAA ATAA A-AA ATAA ATAA ATAA A
1 ATAA ATAA AT-AA ATAA ATAA ATAA ATAA ATAA A
61708450 GGCTCAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:61714698 original size:21 final size:21
Alignment explanation
Indices: 61714672--61714712 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61714662 AGACGAGCAA
* *
61714672 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
61714693 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
61714713 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:61718323 original size:55 final size:55
Alignment explanation
Indices: 61718258--61718364 Score: 196
Period size: 55 Copynumber: 1.9 Consensus size: 55
61718248 TGTAGCCACC
* *
61718258 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACTTATCACTTTGTCTCTGAT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACTTATCACTTTATCTCTGAT
61718313 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACTTATCACTTTATCTCT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACTTATCACTTTATCTCT
61718365 TGATCAGATA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.43
Consensus pattern (55 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACTTATCACTTTATCTCTGAT
Found at i:61718364 original size:37 final size:37
Alignment explanation
Indices: 61718312--61718382 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
61718302 TTGTCTCTGA
*
61718312 TTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCAC
1 TTATCACTTTATCTCTTGATCAGATAAGTGTAGCCAC
61718349 TTATCACTTTATCTCTTGATCAGATAAGTGTAGC
1 TTATCACTTTATCTCTTGATCAGATAAGTGTAGC
61718383 TAAAGCTATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.39
Consensus pattern (37 bp):
TTATCACTTTATCTCTTGATCAGATAAGTGTAGCCAC
Found at i:61718425 original size:52 final size:52
Alignment explanation
Indices: 61718363--61718660 Score: 368
Period size: 52 Copynumber: 5.9 Consensus size: 52
61718353 CACTTTATCT
* *
61718363 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
*
61718415 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC---T---TTGTCA
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
* * * *
61718461 CTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
* *
61718513 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCA
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
* * * *
61718559 CTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
* *
61718611 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
1 CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT-TCACTTG
61718661 ATCAGAAGTA
Statistics
Matches: 209, Mismatches: 24, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
46 83 0.40
49 1 0.00
52 119 0.57
53 6 0.03
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (52 bp):
CTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTTCACTTGTCA
Found at i:61718468 original size:98 final size:98
Alignment explanation
Indices: 61718345--61718666 Score: 545
Period size: 98 Copynumber: 3.3 Consensus size: 98
61718335 ATAAGTGTAG
* * * ** * * *
61718345 CCACTTATCACTTTATCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
**
61718410 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
*
61718443 TCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
61718508 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
61718541 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
61718606 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
61718639 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
61718667 AGTACTCAAA
Statistics
Matches: 212, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 212 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
Found at i:61720910 original size:11 final size:11
Alignment explanation
Indices: 61720891--61720973 Score: 75
Period size: 11 Copynumber: 7.9 Consensus size: 11
61720881 AAATAAATCA
61720891 TTCCTCTCAAT
1 TTCCTCTCAAT
*
61720902 TTGCTCTCAAT
1 TTCCTCTCAAT
61720913 TTCCTCTCAAT
1 TTCCTCTCAAT
**
61720924 TTTATCTCAA-
1 TTCCTCTCAAT
*
61720934 ATCC-CT--AT
1 TTCCTCTCAAT
**
61720942 TTAATCTCAAT
1 TTCCTCTCAAT
*
61720953 TTGCTCTCAAT
1 TTCCTCTCAAT
61720964 TTCCTCTCAA
1 TTCCTCTCAA
61720974 ATCCCTATTT
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 4 0.07
10 1 0.02
11 48 0.87
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.45
Consensus pattern (11 bp):
TTCCTCTCAAT
Found at i:61720961 original size:40 final size:40
Alignment explanation
Indices: 61720906--61720985 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
61720896 CTCAATTTGC
*
61720906 TCTCAATTTCCTCTCAATTTTATCTCAAATCCCTATTTAA
1 TCTCAATTTCCTCTCAATTTCATCTCAAATCCCTATTTAA
* *
61720946 TCTCAATTTGCTCTCAATTTCCTCTCAAATCCCTATTTAA
1 TCTCAATTTCCTCTCAATTTCATCTCAAATCCCTATTTAA
61720986 AAGAGCTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.26, C:0.29, G:0.01, T:0.44
Consensus pattern (40 bp):
TCTCAATTTCCTCTCAATTTCATCTCAAATCCCTATTTAA
Found at i:61725127 original size:152 final size:151
Alignment explanation
Indices: 61724853--61725148 Score: 434
Period size: 152 Copynumber: 2.0 Consensus size: 151
61724843 GTGTTTAAGT
* * *
61724853 CCTTTGTTCGTATTTTTTCCGGATTTTATTACTTTTAAAAAATATACTATTTTTAAAATTTTTTT
1 CCTTTGTTCGTATTTTTTCCGAATTTTATTACTTTAAAAAAATATACTATTTTTAAAATTTTATT
* *
61724918 ATTTTACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTATTTTTTAAATAAA-T
66 ATTTTACATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTATTTTTTAAATAAATT
*
61724982 TAAAAAAATCCTTATTTCGGC
131 TAAAAAAAACCTTATTTCGGC
* ***
61725003 CCTTTGTTCGTATTTTTTCTCGAATTTTATTACTTTCAATAAAAATATATTA-TTTTCGTATTTT
1 CCTTTGTTCGTATTTTTTC-CGAATTTTATTACTTT-AA-AAAAATATACTATTTTTAAAATTTT
* * *
61725067 ATTATTTTACATTATTTTAGTACATCATGTTTGAACTGTATTAATTTACTGTGTTTTTTAAATAA
63 ATTATTTTACATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTATTTTTTAAATAA
61725132 ATTTAAAAAAAACCTTA
128 ATTTAAAAAAAACCTTA
61725149 AAAAAACGAA
Statistics
Matches: 129, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
150 19 0.15
151 15 0.12
152 70 0.54
153 25 0.19
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (151 bp):
CCTTTGTTCGTATTTTTTCCGAATTTTATTACTTTAAAAAAATATACTATTTTTAAAATTTTATT
ATTTTACATTATTTTAGTACATCATATTTGAAATGTATTAATTTACTGTATTTTTTAAATAAATT
TAAAAAAAACCTTATTTCGGC
Found at i:61726486 original size:26 final size:25
Alignment explanation
Indices: 61726431--61726488 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
61726421 TAATATCTTA
* * *
61726431 AATATATTAAAATAATATTTTATTT
1 AATAAATTAAAAAAATATTTAATTT
61726456 AATAAATTAAAAAAATAATTTAAATTT
1 AATAAATTAAAAAAAT-ATTT-AATTT
61726483 -ATAAAT
1 AATAAAT
61726489 AAATTAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.50
26 10 0.36
27 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATAAATTAAAAAAATATTTAATTT
Found at i:61727700 original size:13 final size:13
Alignment explanation
Indices: 61727682--61727708 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61727672 CAATAAAGTC
61727682 CAATTACAATGGG
1 CAATTACAATGGG
61727695 CAATTACAATGGG
1 CAATTACAATGGG
61727708 C
1 C
61727709 CAAATTCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (13 bp):
CAATTACAATGGG
Found at i:61730372 original size:15 final size:15
Alignment explanation
Indices: 61730329--61730377 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
61730319 AAAAAATATC
*
61730329 ATAAATAACTAAAAT
1 ATAAATGACTAAAAT
** *
61730344 AT-AATGTTTTAAAT
1 ATAAATGACTAAAAT
61730358 ATAAATGACTAAAAT
1 ATAAATGACTAAAAT
61730373 ATAAA
1 ATAAA
61730378 CTAAACTAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAAATGACTAAAAT
Found at i:61735282 original size:20 final size:20
Alignment explanation
Indices: 61735249--61735288 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
61735239 TCAACCTCCA
*
61735249 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
61735269 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
61735289 TTACCCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:61745052 original size:37 final size:39
Alignment explanation
Indices: 61744966--61745060 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
61744956 CACTCCAGTA
* *
61744966 TGGTACCCAGTGCCTCATCAGATAGTTCGAAGCAATAGT
1 TGGTACCCAGTGCCTCATCAGAAAGTCCGAAGCAATAGT
** *
61745005 TGACACCCAGTGTCTCATCAGCAAAG-CCGAAG-AA-AGT
1 TGGTACCCAGTGCCTCATCAG-AAAGTCCGAAGCAATAGT
*
61745042 TGGTACCCAGTACCTCATC
1 TGGTACCCAGTGCCTCATC
61745061 GAATCTATCC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 18 0.39
38 2 0.04
39 23 0.50
40 3 0.07
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
TGGTACCCAGTGCCTCATCAGAAAGTCCGAAGCAATAGT
Found at i:61748758 original size:38 final size:38
Alignment explanation
Indices: 61748716--61748790 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
61748706 ATGGTGGGGG
* * *
61748716 AGTGTTGGAGTGATTTTAGGAGGAAAATATGAGATTGA
1 AGTGTTAGAGTGACTTGAGGAGGAAAATATGAGATTGA
*
61748754 AGTGTTAGAGTGACTTGAGGAGGAAAATATGGGATTG
1 AGTGTTAGAGTGACTTGAGGAGGAAAATATGAGATTG
61748791 TGGAGTCATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.01, G:0.36, T:0.29
Consensus pattern (38 bp):
AGTGTTAGAGTGACTTGAGGAGGAAAATATGAGATTGA
Found at i:61749761 original size:11 final size:11
Alignment explanation
Indices: 61749742--61749785 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
61749732 AACACCGAAC
*
61749742 TTTTTGGGTAA
1 TTTTCGGGTAA
61749753 TTTTCGGGTAA
1 TTTTCGGGTAA
61749764 --TTCGGGTAA
1 TTTTCGGGTAA
61749773 TTTTCGGGTAA
1 TTTTCGGGTAA
61749784 TT
1 TT
61749786 CGGTTAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 9 0.30
11 21 0.70
ACGTcount: A:0.18, C:0.07, G:0.27, T:0.48
Consensus pattern (11 bp):
TTTTCGGGTAA
Found at i:61749769 original size:9 final size:9
Alignment explanation
Indices: 61749755--61749820 Score: 80
Period size: 9 Copynumber: 7.2 Consensus size: 9
61749745 TTGGGTAATT
61749755 TTCGGGTAA
1 TTCGGGTAA
61749764 TTCGGGTAA
1 TTCGGGTAA
61749773 TTTTCGGGTAA
1 --TTCGGGTAA
*
61749784 TTCGGTTAA
1 TTCGGGTAA
*
61749793 TTCGGTTAA
1 TTCGGGTAA
*
61749802 -TCGGATAA
1 TTCGGGTAA
61749810 TTCGGGTAA
1 TTCGGGTAA
61749819 TT
1 TT
61749821 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
8 7 0.14
9 35 0.69
11 9 0.18
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:61749772 original size:20 final size:20
Alignment explanation
Indices: 61749747--61749794 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
61749737 CGAACTTTTT
61749747 GGGTAATTTTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
61749767 GGGTAATTTTCGGGTAATTC
1 GGGTAATTTTCGGGTAATTC
*
61749787 GGTTAATT
1 GGGTAATT
61749795 CGGTTAATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (20 bp):
GGGTAATTTTCGGGTAATTC
Found at i:61749810 original size:17 final size:17
Alignment explanation
Indices: 61749755--61749819 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 17
61749745 TTGGGTAATT
*
61749755 TTCGGGTAATTCGGGTAA
1 TTCGGGTAA-TCGGATAA
*
61749773 TTTTCGGGTAATTCGGTTAA
1 --TTCGGGTAA-TCGGATAA
*
61749793 TTCGGTTAATCGGATAA
1 TTCGGGTAATCGGATAA
61749810 TTCGGGTAAT
1 TTCGGGTAAT
61749820 TTTTAACCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
17 16 0.39
18 8 0.20
20 17 0.41
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (17 bp):
TTCGGGTAATCGGATAA
Found at i:61759352 original size:22 final size:22
Alignment explanation
Indices: 61759324--61759378 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
61759314 GTCTAAACAG
*
61759324 AGAAGAAGATTGCAGAGCAAAC
1 AGAAGAAGATTGCAAAGCAAAC
61759346 AGAAGAAGATTGCAAAGCAAAC
1 AGAAGAAGATTGCAAAGCAAAC
* *
61759368 AAAAGCAGATT
1 AGAAGAAGATT
61759379 CAGCATTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.53, C:0.13, G:0.24, T:0.11
Consensus pattern (22 bp):
AGAAGAAGATTGCAAAGCAAAC
Found at i:61763484 original size:19 final size:19
Alignment explanation
Indices: 61763460--61763498 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61763450 GTTTAAAAAT
61763460 AATATAT-AATAAATAATTA
1 AATATATGAATAAA-AATTA
*
61763479 AATATATGATTAAAAATTA
1 AATATATGAATAAAAATTA
61763498 A
1 A
61763499 TTAATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AATATATGAATAAAAATTA
Found at i:61763538 original size:43 final size:40
Alignment explanation
Indices: 61763455--61763556 Score: 107
Period size: 43 Copynumber: 2.5 Consensus size: 40
61763445 TGTATGTTTA
*
61763455 AAAATAATATATAATAAATAATTAAATATATGATTAAAAAT
1 AAAATAAT-TATAATAAATAATAAAATATATGATTAAAAAT
* * *
61763496 TAATTAATTATAAT-AATATATAAAATATGTATGATATTAAAAT
1 AAAATAATTATAATAAATA-ATAAAATA--TATGAT-TAAAAAT
*
61763539 AAAATAATTAAAATAAAT
1 AAAATAATTATAATAAAT
61763557 TAGGAGTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
39 4 0.08
40 13 0.27
41 6 0.12
42 6 0.12
43 17 0.35
44 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
AAAATAATTATAATAAATAATAAAATATATGATTAAAAAT
Found at i:61764173 original size:38 final size:38
Alignment explanation
Indices: 61764131--61764251 Score: 133
Period size: 38 Copynumber: 3.1 Consensus size: 38
61764121 AAAATTTTAA
* *
61764131 AAAAATTAAAAAAAGTATTTTTAAAATATTTTTAAATT
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT
61764169 AAAAA--AATTAAAAAGTATTTTAAAAATATTTTAAAATTT
1 AAAAATTAA--AAAAAGTATTTTAAAAATATTTTAAAA-TT
*
61764208 AAAAAAAATT-AAAAAAGTA-TGTAAAAATATTTTAAAATT
1 ---AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT
61764247 AAAAA
1 AAAAA
61764252 ATATATATAA
Statistics
Matches: 72, Mismatches: 3, Indels: 18
0.77 0.03 0.19
Matches are distributed among these distances:
36 7 0.10
38 30 0.42
39 4 0.06
40 17 0.24
41 8 0.11
42 5 0.07
43 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (38 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATT
Found at i:61764178 original size:40 final size:39
Alignment explanation
Indices: 61764127--61764252 Score: 184
Period size: 40 Copynumber: 3.2 Consensus size: 39
61764117 TTTAAAAATT
* *
61764127 TTAAAAAAATTAAAAAAAGTATTTTTAAAATATTTTTAAA
1 TTAAAAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAA
61764167 TTAAAAAAATT-AAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
*
61764205 TTTAAAAAAAATTAAAAAAGTA-TGTAAAAATATTTTAAAA
1 -TT-AAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
61764245 TTAAAAAA
1 TTAAAAAA
61764253 TATATATAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
38 31 0.39
39 4 0.05
40 37 0.46
41 8 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (39 bp):
TTAAAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:61764244 original size:10 final size:10
Alignment explanation
Indices: 61764167--61764245 Score: 54
Period size: 10 Copynumber: 7.8 Consensus size: 10
61764157 TATTTTTAAA
*
61764167 TTAAAAA-AA
1 TTAAAAATAT
61764176 TTAAAAAGTATT
1 TTAAAAA-TA-T
61764188 TTAAAAATAT
1 TTAAAAATAT
*
61764198 TTTAAAAT-T
1 TTAAAAATAT
* *
61764207 TAAAAAAAAT
1 TTAAAAATAT
*
61764217 TAAAAAAGTAT
1 TTAAAAA-TAT
*
61764228 GTAAAAATAT
1 TTAAAAATAT
*
61764238 TTTAAAAT
1 TTAAAAAT
61764246 TAAAAAATAT
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
9 13 0.24
10 25 0.45
11 10 0.18
12 7 0.13
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (10 bp):
TTAAAAATAT
Found at i:61764244 original size:11 final size:11
Alignment explanation
Indices: 61764114--61764204 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 11
61764104 GGCCCATTTT
61764114 TATTTT-AAAA
1 TATTTTAAAAA
61764124 -ATTTTAAAAA
1 TATTTTAAAAA
* **
61764134 AATTAAAAAAA
1 TATTTTAAAAA
*
61764145 GTATTTTTAAAA
1 -TATTTTAAAAA
61764157 TATTTTTAAATTAAA
1 TA-TTTT-AA--AAA
* **
61764172 AAAATTAAAAA
1 TATTTTAAAAA
61764183 GTATTTTAAAAA
1 -TATTTTAAAAA
61764195 TATTTTAAAA
1 TATTTTAAAA
61764205 TTTAAAAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 15
0.68 0.15 0.17
Matches are distributed among these distances:
9 5 0.08
10 4 0.07
11 23 0.38
12 19 0.32
13 3 0.05
14 2 0.03
15 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:61766095 original size:51 final size:51
Alignment explanation
Indices: 61765948--61766084 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 51
61765938 CTACCATCAA
* * * *
61765948 ATCTCTAAGAATATAATATCATATCTTCTATGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
61765999 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
61766050 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
61766085 AGTTACCATA
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:61773988 original size:24 final size:23
Alignment explanation
Indices: 61773937--61773991 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
61773927 TGGTCTTCAT
61773937 ATTTTTTCGTTTTAAGCTATTTA
1 ATTTTTTCGTTTTAAGCTATTTA
* *
61773960 ATTTTTTC-TTTTATGTTCATTTA
1 ATTTTTTCGTTTTAAGCT-ATTTA
61773983 ACTTTTTTC
1 A-TTTTTTC
61773992 ATTATTTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 14 0.50
24 7 0.25
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.65
Consensus pattern (23 bp):
ATTTTTTCGTTTTAAGCTATTTA
Found at i:61778571 original size:11 final size:11
Alignment explanation
Indices: 61778555--61778598 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
61778545 GGTGCCGAAC
61778555 AAAGAGAAGAA
1 AAAGAGAAGAA
61778566 AAAGAG-AGAA
1 AAAGAGAAGAA
61778576 AGAAGA-AAG--
1 A-AAGAGAAGAA
61778585 AAAGAGAAGAA
1 AAAGAGAAGAA
61778596 AAA
1 AAA
61778599 AATAGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 5 0.18
11 15 0.54
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:61778575 original size:13 final size:14
Alignment explanation
Indices: 61778556--61778598 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
61778546 GTGCCGAACA
61778556 AAGAGAAGAAAAAG
1 AAGAGAAGAAAAAG
61778570 -AGAGAAAGAAGAAAG
1 AAGAG-AAGAA-AAAG
61778585 AAAGAGAAGAAAAA
1 -AAGAGAAGAAAAA
61778599 AATAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.16
14 5 0.20
15 7 0.28
16 5 0.20
17 4 0.16
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (14 bp):
AAGAGAAGAAAAAG
Found at i:61778581 original size:17 final size:15
Alignment explanation
Indices: 61778559--61778600 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
61778549 CCGAACAAAG
61778559 AGAAGAAAAAGAGAGAA
1 AGAAGAAAAA-AGAG-A
61778576 AGAAGAAAGAAAGAGA
1 AGAAGAAA-AAAGAGA
61778592 AGAA-AAAAA
1 AGAAGAAAAA
61778601 TAGAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 3 0.12
16 5 0.21
17 12 0.50
18 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AGAAGAAAAAAGAGA
Found at i:61778922 original size:40 final size:36
Alignment explanation
Indices: 61778855--61778949 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 36
61778845 TTTTACATTA
**
61778855 TATTATTGTTAGTTATTATTTTTAGTAAAACCCTAAT
1 TATTATTGTTAGTTATTATTTTTAGTAAAAAACT-AT
61778892 TATTATTGTTAGTTAGTATTATTTTTAGTAAAAAACTAT
1 TATTATTGTTAG-T--TATTATTTTTAGTAAAAAACTAT
*
61778931 TATTATTATTA-TTATTATT
1 TATTATTGTTAGTTATTATT
61778950 GTGTTAGTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
35 7 0.13
37 13 0.25
38 1 0.02
39 12 0.23
40 19 0.37
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (36 bp):
TATTATTGTTAGTTATTATTTTTAGTAAAAAACTAT
Found at i:61781853 original size:8 final size:8
Alignment explanation
Indices: 61781825--61781866 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
61781815 GAGCTTAGGC
*
61781825 TGTAAAGT
1 TGTAATGT
*
61781833 TGTTATG-
1 TGTAATGT
61781840 TGTAATGT
1 TGTAATGT
61781848 TGTAATGT
1 TGTAATGT
61781856 TGTAATGT
1 TGTAATGT
61781864 TGT
1 TGT
61781867 TGTAACACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (8 bp):
TGTAATGT
Found at i:61784647 original size:159 final size:158
Alignment explanation
Indices: 61784183--61785234 Score: 1632
Period size: 159 Copynumber: 6.6 Consensus size: 158
61784173 TCAAAACAAT
* *
61784183 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTC-TTTTTTCCTGGATTTTGTTAC
1 TTTAGTAAAAAACCCTTATTTTGGCC-TTTGTTCGTATTTTTCTTTTTTTCC-GAATTTTATTAC
61784247 TTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
64 TTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
61784312 TGTATTAATTTAGTGTGGTTTTTTATATAAA
129 TGTATTAATTTAGTGT-GTTTTTTATATAAA
* * * *
61784343 TTTAGTAAAAAAACCTTTATTTTGGCCCTTTGTTCATATTTTTC-TTTTTGCTCGGATTTTATTA
1 TTTAGT-AAAAAACCCTTATTTTGG-CCTTTGTTCGTATTTTTCTTTTTTTC-CGAATTTTATTA
* *
61784407 CTTTCAAACAATATGCTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAA
63 CTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAA
61784472 ATGTATTAATTTAGTGTGTTTTTTATATAAA
128 ATGTATTAATTTAGTGTGTTTTTTATATAAA
*
61784503 TTTAGTAAAAAAACCCTTATTTTGGCACTTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATGAC
1 TTTAGT-AAAAAACCCTTATTTTGGC-CTTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATTAC
*
61784568 TTTCAAAAAATATACTATTTT-GTATTTTATTATTTTATATTATTTTAGTACACAATGTTTGAAA
64 TTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
61784632 TGTATTAATTTAGTGTGGTTTTTTATATAAA
129 TGTATTAATTTAGTGT-GTTTTTTATATAAA
* * * *
61784663 TTTAGTAAAAAAACCTTTATTTTGGCCCTTTGTTCATATTTTTC-TTTTTGCTCGGATTTTATTA
1 TTTAGT-AAAAAACCCTTATTTTGG-CCTTTGTTCGTATTTTTCTTTTTTTC-CGAATTTTATTA
* *
61784727 CTTTCAAACAATATGCTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAA
63 CTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAA
61784792 ATGTATTAATTTAGTGTGTTTTTTATATAAA
128 ATGTATTAATTTAGTGTGTTTTTTATATAAA
* * *
61784823 TTTAGTAAAAAACCCTTATTTTGGCACTTTATTCGTATTTTTCTTTTTTCCCGAATTTTATGACT
1 TTTAGTAAAAAACCCTTATTTTGGC-CTTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATTACT
*
61784888 TTCAAAAAATATACTATTTT-GTATTTTATTATTTTATATTATTTTAGTACATAATGTTTAAAAT
65 TTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
61784952 GTATTAATTTAGTGTGTTTTTTATATAAA
130 GTATTAATTTAGTGTGTTTTTTATATAAA
61784981 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATTACT
1 TTTAGTAAAAAACCCTTATTTTGGCC-TTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATTACT
* * *
61785046 AT-AAAAAATATACTATTTTCGTATTTTATTATTTTGTATTATTTTAATACATAATGTTTGAAAT
65 TTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
* *
61785110 GTATTATTTTAGTGTGAGTTTTTATATAAA
130 GTATTAATTTAGTGTG-TTTTTTATATAAA
* *
61785140 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTAATTTTCTTATTTT-CGAATTTTATTACT
1 TTTAGTAAAAAACCCTTATTTTGGCC-TTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATTACT
** * *
61785204 TTCAGTAAATATACTATTTTTGTTTTTTATT
65 TTCAAAAAATATACTATTTTCGTATTTTATT
61785235 TCTTTTCGTA
Statistics
Matches: 830, Mismatches: 47, Indels: 31
0.91 0.05 0.03
Matches are distributed among these distances:
157 18 0.02
158 205 0.25
159 211 0.25
160 200 0.24
161 193 0.23
162 3 0.00
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.53
Consensus pattern (158 bp):
TTTAGTAAAAAACCCTTATTTTGGCCTTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATTACTT
TCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATG
TATTAATTTAGTGTGTTTTTTATATAAA
Found at i:61784967 original size:158 final size:158
Alignment explanation
Indices: 61784183--61785234 Score: 1637
Period size: 160 Copynumber: 6.6 Consensus size: 158
61784173 TCAAAACAAT
* * *
61784183 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTCCTGGATTTTGTTACT
1 TTTAGTAAAAAACCCTTATTTTGGCC-TTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATTACT
61784248 TTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
65 TTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
61784313 GTATTAATTTAGTGTGGTTTTTTATATAAA
130 GTATTAATTTAGTGT-GTTTTTTATATAAA
* * * * *
61784343 TTTAGTAAAAAAACCTTTATTTTGGCCCTTTGTTCATATTTTTCTTTTTGCTCGGATTTTATTAC
1 TTTAGT-AAAAAACCCTTATTTTGG-CCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATTAC
* *
61784408 TTTCAAACAATATGCTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
64 TTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
61784473 TGTATTAATTTAGTGTGTTTTTTATATAAA
129 TGTATTAATTTAGTGTGTTTTTTATATAAA
* *
61784503 TTTAGTAAAAAAACCCTTATTTTGGCACTTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATGAC
1 TTTAGT-AAAAAACCCTTATTTTGGC-CTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATTAC
*
61784568 TTTCAAAAAATATACTATTTT-GTATTTTATTATTTTATATTATTTTAGTACACAATGTTTGAAA
64 TTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
61784632 TGTATTAATTTAGTGTGGTTTTTTATATAAA
129 TGTATTAATTTAGTGT-GTTTTTTATATAAA
* * * * *
61784663 TTTAGTAAAAAAACCTTTATTTTGGCCCTTTGTTCATATTTTTCTTTTTGCTCGGATTTTATTAC
1 TTTAGT-AAAAAACCCTTATTTTGG-CCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATTAC
* *
61784728 TTTCAAACAATATGCTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
64 TTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAA
61784793 TGTATTAATTTAGTGTGTTTTTTATATAAA
129 TGTATTAATTTAGTGTGTTTTTTATATAAA
* *
61784823 TTTAGTAAAAAACCCTTATTTTGGCACTTTATTCGTATTTTTCTTTTTTCCCGAATTTTATGACT
1 TTTAGTAAAAAACCCTTATTTTGGC-CTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATTACT
*
61784888 TTCAAAAAATATACTATTTT-GTATTTTATTATTTTATATTATTTTAGTACATAATGTTTAAAAT
65 TTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
61784952 GTATTAATTTAGTGTGTTTTTTATATAAA
130 GTATTAATTTAGTGTGTTTTTTATATAAA
*
61784981 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTTCCGAATTTTATTACT
1 TTTAGTAAAAAACCCTTATTTTGGCC-TTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATTACT
* * *
61785046 AT-AAAAAATATACTATTTTCGTATTTTATTATTTTGTATTATTTTAATACATAATGTTTGAAAT
65 TTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAAT
* *
61785110 GTATTATTTTAGTGTGAGTTTTTATATAAA
130 GTATTAATTTAGTGTG-TTTTTTATATAAA
*
61785140 TTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTAATTTTCTTATTTT--CGAATTTTATTAC
1 TTTAGTAAAAAACCCTTATTTTGGCC-TTTGTTCGTATTTTTCTT-TTTTCCCGAATTTTATTAC
** * *
61785203 TTTCAGTAAATATACTATTTTTGTTTTTTATT
64 TTTCAAAAAATATACTATTTTCGTATTTTATT
61785235 TCTTTTCGTA
Statistics
Matches: 827, Mismatches: 53, Indels: 25
0.91 0.06 0.03
Matches are distributed among these distances:
157 18 0.02
158 205 0.25
159 207 0.25
160 208 0.25
161 187 0.23
162 2 0.00
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.53
Consensus pattern (158 bp):
TTTAGTAAAAAACCCTTATTTTGGCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATTACTT
TCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATG
TATTAATTTAGTGTGTTTTTTATATAAA
Found at i:61785283 original size:16 final size:16
Alignment explanation
Indices: 61785237--61785286 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
61785227 TTTTTATTTC
61785237 TTTTC-GTATTTTATT
1 TTTTCAGTATTTTATT
***
61785252 TTTTCA-TAAACATATT
1 TTTTCAGT-ATTTTATT
61785268 TTTTCAGTATTTTATT
1 TTTTCAGTATTTTATT
61785284 TTT
1 TTT
61785287 AATGCTATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 5
0.70 0.16 0.14
Matches are distributed among these distances:
15 6 0.23
16 19 0.73
17 1 0.04
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (16 bp):
TTTTCAGTATTTTATT
Found at i:61785623 original size:10 final size:10
Alignment explanation
Indices: 61785605--61785649 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
61785595 CTTCTTCTCA
*
61785605 TTTCCTTTTC
1 TTTCTTTTTC
61785615 TTTCTTTTTC
1 TTTCTTTTTC
* *
61785625 TTTCTTCTCC
1 TTTCTTTTTC
*
61785635 TTTCCTTTTC
1 TTTCTTTTTC
61785645 TTTCT
1 TTTCT
61785650 CCTCCTTCTG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:61785635 original size:45 final size:44
Alignment explanation
Indices: 61785517--61785635 Score: 116
Period size: 48 Copynumber: 2.6 Consensus size: 44
61785507 TTCCTTTTTT
61785517 TTTTCTTTCTTTTTCCTTCCTTC-CCTCCCTCTTCTTCTTCTCC
1 TTTTCTTTCTTTTTCCTTCCTTCTCCTCCCTCTTCTTCTTCTCC
* * * * *
61785560 TTCTCTTTCTCTTTTTCCTGCGCCTCCTCCTCCTTCTTCTTCTCATTTCC
1 TTTTC-TT-TCTTTTTCCT--TCCTTCTCCTCCCTCTTCTTCT--TCTCC
*
61785610 TTTTCTTTCTTTTT-CTTTCTTCTCCT
1 TTTTCTTTCTTTTTCCTTCCTTCTCCT
61785636 TTCCTTTTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
43 4 0.07
44 2 0.03
45 17 0.28
47 6 0.10
48 21 0.35
49 2 0.03
50 8 0.13
ACGTcount: A:0.01, C:0.39, G:0.02, T:0.59
Consensus pattern (44 bp):
TTTTCTTTCTTTTTCCTTCCTTCTCCTCCCTCTTCTTCTTCTCC
Found at i:61785654 original size:20 final size:20
Alignment explanation
Indices: 61785614--61785656 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
61785604 ATTTCCTTTT
* *
61785614 CTTTCTTTTTCTTTCTTCTC
1 CTTTCCTTTTCTTTCTCCTC
61785634 CTTTCCTTTTCTTTCTCCTC
1 CTTTCCTTTTCTTTCTCCTC
61785654 CTT
1 CTT
61785657 CTGCCGAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTTCCTTTTCTTTCTCCTC
Found at i:61785749 original size:27 final size:27
Alignment explanation
Indices: 61785701--61785765 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
61785691 TCCCCCAAGG
* * * *
61785701 TGGTGCCGCCTGTGGCAGTGGCACATT
1 TGGTGCCGCCTCTGCCACTGGCACATC
*
61785728 TGGTGCCGCCTCTGCCACTGGCACCTC
1 TGGTGCCGCCTCTGCCACTGGCACATC
*
61785755 TAGTGCCGCCT
1 TGGTGCCGCCT
61785766 GTGGCAGGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.09, C:0.35, G:0.31, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCACTGGCACATC
Found at i:61785994 original size:18 final size:18
Alignment explanation
Indices: 61785958--61785999 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
61785948 AAATAATGTT
61785958 AATTTTGAGTAGAATTTAA
1 AATTTTGAGTAGAATTT-A
61785977 AATTTTGATGT-G-ATTTA
1 AATTTTGA-GTAGAATTTA
61785994 AATTTT
1 AATTTT
61786000 AATTTACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
18 4 0.18
19 9 0.41
20 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (18 bp):
AATTTTGAGTAGAATTTA
Found at i:61787567 original size:114 final size:111
Alignment explanation
Indices: 61787254--61787920 Score: 572
Period size: 114 Copynumber: 5.9 Consensus size: 111
61787244 TTACCACAAT
* * * * * * *
61787254 GCGCCGCGAAATCTCTTAACCAAAACGC-TGTGTTTTCGTCTTGATGTATCTTAAAAGTAGTGGC
1 GCGCCGCAAAATATCTTAA-CAAAACGCAT-AGTTTTGGTCTTGATGTAT-ATAGAATTAGTGGC
* * ** * * *
61787318 GTTTACGCG-AAACGCCATTAAAGGACAGTAATAGCGGCGCTTTCTGGAA
63 GCTTATG-GTAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
* * * * *
61787367 ACGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCATAGTTTTGGTCTTGATGTAT-ATAGAATTAGTGGCG
* * * * * * *
61787431 TTTATAGGAAAACGCCGTTAAAGTACAGTAATAGCGACGCTTTATGGAA
64 CTTAT-GGTAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
* * * * * *
61787480 GCGCCGCAAACTATCTTAAGCGAAACACATCGTTTTGGTCTTGATTTATACTAGAACTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCATAGTTTTGGTCTTGATGTATA-TAGAATTAGTGGCG
* * * **
61787545 CATATGGTCAAACGCCGCTAAAGAATAGTATTAGCGGCGATTTGTAGCTA
64 CTTATGGT-AAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGT-GGAA
* ** * * *
61787595 GCGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGC
1 GCGCCGCAAAATATCTTAAC-AAAACGCATAGTTTTGGTCTTGATGTATATAGAATTAGTGGCGC
* *
61787660 TTACGGTAAACCGCCGCTAAAGAATATTAATAGCGGCGCTTTGTGAGAA
65 TTATGGTAAA-CGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTG-GAA
* * *
61787709 GCGCCGCAAAATATCTTAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAA-CAAAACGCATAGTTTTGGTCTTGATGTATA-TAGAATTAGTGGCG
* * * * **
61787774 CTTA--GTGAAACGCCGTTAAAGCATAGTATTAGCGGCGATTTGTAGCTA
64 CTTATGGT-AAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGT-GGAA
* * *
61787822 GCGCCGCAAAATATCTTAACAAAAACGCAGT-GTTTTGATCTTAATGTATATAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAAC-AAAACGCA-TAGTTTTGGTCTTGATGTATATAGAATTAGTGGCG
* *
61787886 CTTACGGTAAACCGCCGCTAAAGAATATTAATAGC
64 CTTATGGTAAA-CGCCGCTAAAGAATAGTAATAGC
61787921 AGCAAAATAT
Statistics
Matches: 453, Mismatches: 82, Indels: 37
0.79 0.14 0.06
Matches are distributed among these distances:
112 51 0.11
113 167 0.37
114 175 0.39
115 60 0.13
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (111 bp):
GCGCCGCAAAATATCTTAACAAAACGCATAGTTTTGGTCTTGATGTATATAGAATTAGTGGCGCT
TATGGTAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAA
Found at i:61787822 original size:227 final size:226
Alignment explanation
Indices: 61787368--61788151 Score: 836
Period size: 208 Copynumber: 3.5 Consensus size: 226
61787358 TTTCTGGAAA
* * * * * * * * * *
61787368 CGCCGCAAAATAGCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCGT
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTAT-ATAAAATTAGTGGCGC
* * * * * * *
61787432 TTATAGG-AAAACGCCGTTAAAGTACAGTAATAGCGACGCTTTATGGAAGCGCCGCAAACTATCT
65 TTA-CGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCAAAATATCT
* * * ** * * * * * * *
61787496 TAAGCGAAACACATCGTTTTGGTCTTGATTTATACTAGAACTAGTGGCGCATATGGTCAAACGCC
129 TAACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGC-T-TAGTGAAACGCC
* *
61787561 GCTAAAGAATAGTATTAGCGGCGATTTGTAGCTAG
192 GTTAAAGCATAGTATTAGCGGCGATTTGTAGCTAG
61787596 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
* *
61787661 TACGGTAAACCGCCGCTAAAGAATATTAATAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCTT
66 TACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTG-GAAGCGCCGCAAAATATCTT
61787726 AACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTT
130 AACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTT
61787791 AAAGCATAGTATTAGCGGCGATTTGTAGCTAG
195 AAAGCATAGTATTAGCGGCGATTTGTAGCTAG
* *
61787823 CGCCGCAAAATATCTTAACAAAAACGCAGTGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
* *
61787888 TACGGTAAACCGCCGCTAAAGAATATTAATA-----GC--------A-----GCAAAATATCTTA
66 TACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCAAAATATCTTA
61787935 ACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTA
131 ACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTA
* * **
61788000 AAGCATAGTATTAGCGGCGCTTGGATA-AAAG
196 AAGCATAGTATTAGCGGCGATTTG-TAGCTAG
* * * * * * * ** * *
61788031 CGCCACCAAGTATCTGAACCAAAACGCATCGTTTTGGTCTTGATGTATACTTGATTTAGTGGCGA
1 CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATA-TAAAATTAGTGGCGC
* * * * *
61788096 TTTCGGTAAAACGCCGCTAAAGCATAGTATTAGCGGCGATTTGTTGATAGCGCCGC
65 TTACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGA-AGCGCCGC
61788152 GACTTACCAT
Statistics
Matches: 474, Mismatches: 58, Indels: 48
0.82 0.10 0.08
Matches are distributed among these distances:
208 142 0.30
209 40 0.08
213 1 0.00
214 1 0.00
222 2 0.00
223 1 0.00
227 139 0.29
228 77 0.16
229 71 0.15
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (226 bp):
CGCCACAAAATATCTTAACAAAAACGCAGCGTTTTGATCTTAATGTATATAAAATTAGTGGCGCT
TACGGTAAAACGCCGCTAAAGAATAGTAATAGCGGCGCTTTGTGGAAGCGCCGCAAAATATCTTA
ACCAAAACGCATAATTTTGGCCTCGATGTATAGTAGAATTAGTGGCGCTTAGTGAAACGCCGTTA
AAGCATAGTATTAGCGGCGATTTGTAGCTAG
Found at i:61788439 original size:14 final size:14
Alignment explanation
Indices: 61788370--61788440 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
61788360 ACAGTGTAAA
*
61788370 GTTTAAAGTTTAGG
1 GTTTAAGGTTTAGG
* * *
61788384 GTTTACGATGTA-G
1 GTTTAAGGTTTAGG
61788397 GTTTAAGG-TTAGG
1 GTTTAAGGTTTAGG
*
61788410 GTATTAGGGTGTTTAGG
1 GT-TTA-AG-GTTTAGG
61788427 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
61788441 AGTCTGGGGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 2 0.05
13 10 0.23
14 18 0.42
15 2 0.05
16 4 0.09
17 7 0.16
ACGTcount: A:0.23, C:0.01, G:0.35, T:0.41
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:61789623 original size:22 final size:22
Alignment explanation
Indices: 61789597--61789643 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
61789587 ACTATTCCGA
*
61789597 TTAAATATGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
61789619 TTAAATAGGTAAGGCGTTTCTG
1 TTAAATAGGTAAGGCGTTTCTG
61789641 TTA
1 TTA
61789644 TTACAGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (22 bp):
TTAAATAGGTAAGGCGTTTCTG
Found at i:61790025 original size:36 final size:36
Alignment explanation
Indices: 61789983--61790098 Score: 114
Period size: 36 Copynumber: 3.2 Consensus size: 36
61789973 GTTGTTATGT
61789983 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
1 TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
* ** * * *
61790019 TCTGAAATA--ATTTGTTTTTG--ATTATGTTGTTATG
1 TCTGAAATATGCTTTGGATTTGAAATAAT-TTCTGA-G
*
61790053 TTCTGAAATATGCTTTGGATTTGAAATAATTTTTGAG
1 -TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
61790090 TCTGAAATA
1 TCTGAAATA
61790099 ATTTGTTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
32 4 0.07
33 4 0.07
34 9 0.15
35 9 0.15
36 18 0.30
37 9 0.15
38 4 0.07
39 4 0.07
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (36 bp):
TCTGAAATATGCTTTGGATTTGAAATAATTTCTGAG
Found at i:61790049 original size:71 final size:71
Alignment explanation
Indices: 61789950--61790150 Score: 359
Period size: 71 Copynumber: 2.8 Consensus size: 71
61789940 TGAGTGGATT
61789950 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
61790015 TGAGTC
66 TGAGTC
*
61790021 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
61790086 TGAGTC
66 TGAGTC
* *
61790092 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAATTATGATTTGG-TTCTGAAAT
1 TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATT-TGAAAT
61790151 CTGGATCTGG
Statistics
Matches: 126, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
70 2 0.02
71 124 0.98
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.51
Consensus pattern (71 bp):
TGAAATAATTTGTTTTTGATTATGTTGTTATGTTCTGAAATATGCTTTGGATTTGAAATAATTTC
TGAGTC
Found at i:61790305 original size:14 final size:14
Alignment explanation
Indices: 61790286--61790315 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
61790276 ATAAAAGGTT
61790286 TTTAGTTAATCATC
1 TTTAGTTAATCATC
61790300 TTTAGTTAATCATC
1 TTTAGTTAATCATC
61790314 TT
1 TT
61790316 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:61791050 original size:29 final size:31
Alignment explanation
Indices: 61790995--61791072 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
61790985 ATATTTAAAT
*
61790995 TTTAAATTTAATAAATTATTTATAACAATTA
1 TTTAAATTTAATAAATTAATTATAACAATTA
61791026 TTTAAATTTAATAAA-TAATT-TAACAATTA
1 TTTAAATTTAATAAATTAATTATAACAATTA
*
61791055 TTTAAATTTTATTAAATT
1 TTTAAA-TTTAATAAATT
61791073 TTATTAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 15 0.35
30 12 0.28
31 16 0.37
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (31 bp):
TTTAAATTTAATAAATTAATTATAACAATTA
Found at i:61791428 original size:9 final size:9
Alignment explanation
Indices: 61791405--61791640 Score: 117
Period size: 9 Copynumber: 27.9 Consensus size: 9
61791395 ATATATTCAT
61791405 TTACATAAC
1 TTACATAAC
61791414 --ACATAAC
1 TTACATAAC
61791421 TTACATAAC
1 TTACATAAC
*
61791430 TTTCATAA-
1 TTACATAAC
*
61791438 -TACACAAC
1 TTACATAAC
** *
61791446 TTACGCATC
1 TTACATAAC
61791455 TTACATAA-
1 TTACATAAC
*
61791463 -GACATAAC
1 TTACATAAC
*
61791471 TTACAT--G
1 TTACATAAC
*
61791478 TGTAAATAA-
1 T-TACATAAC
* *
61791487 -TACAAAAA
1 TTACATAAC
61791495 TTACATAAC
1 TTACATAAC
*
61791504 TAACATAA-
1 TTACATAAC
*
61791512 -GACATAAC
1 TTACATAAC
*
61791520 TTACATAAG
1 TTACATAAC
*
61791529 TTTCATAA-
1 TTACATAAC
* *
61791537 -TACACATC
1 TTACATAAC
**
61791545 TTACGCAAC
1 TTACATAAC
*
61791554 TTACACAAC
1 TTACATAAC
61791563 TTACATAAC
1 TTACATAAC
*
61791572 TTACATAAG
1 TTACATAAC
*
61791581 TTTCATAA-
1 TTACATAAC
* *
61791589 -TACACATC
1 TTACATAAC
**
61791597 TTACGCAAC
1 TTACATAAC
*
61791606 TTACACAAC
1 TTACATAAC
61791615 TTACATAAC
1 TTACATAAC
61791624 TTACATAAC
1 TTACATAAC
61791633 TTACATAA
1 TTACATAA
61791641 TGTATATCTT
Statistics
Matches: 173, Mismatches: 37, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
7 38 0.22
8 4 0.02
9 131 0.76
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (9 bp):
TTACATAAC
Found at i:61791446 original size:25 final size:25
Alignment explanation
Indices: 61791405--61791641 Score: 172
Period size: 25 Copynumber: 9.4 Consensus size: 25
61791395 ATATATTCAT
*
61791405 TTACATAACACATAACTTACATAAC
1 TTACATAATACATAACTTACATAAC
* * ** *
61791430 TTTCATAATACACAACTTACGCATC
1 TTACATAATACATAACTTACATAAC
* *
61791455 TTACATAAGACATAACTTACAT--G
1 TTACATAATACATAACTTACATAAC
* * *
61791478 TGTAAATAATACAAAAATTACATAAC
1 T-TACATAATACATAACTTACATAAC
* * *
61791504 TAACATAAGACATAACTTACATAAG
1 TTACATAATACATAACTTACATAAC
* * * **
61791529 TTTCATAATACACATCTTACGCAAC
1 TTACATAATACATAACTTACATAAC
* *
61791554 TTACACAACTTACATAACTTACATAAG
1 TTACATAA--TACATAACTTACATAAC
* * * **
61791581 TTTCATAATACACATCTTACGCAAC
1 TTACATAATACATAACTTACATAAC
*
61791606 TTACACAACTTACATAACTTACATAAC
1 TTACATAA--TACATAACTTACATAAC
61791633 TTACATAAT
1 TTACATAAT
61791642 GTATATCTTG
Statistics
Matches: 153, Mismatches: 52, Indels: 14
0.70 0.24 0.06
Matches are distributed among these distances:
23 1 0.01
24 17 0.11
25 96 0.63
26 1 0.01
27 38 0.25
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (25 bp):
TTACATAATACATAACTTACATAAC
Found at i:61791516 original size:16 final size:16
Alignment explanation
Indices: 61791497--61791528 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61791487 TACAAAAATT
61791497 ACATAACTAACATAAG
1 ACATAACTAACATAAG
*
61791513 ACATAACTTACATAAG
1 ACATAACTAACATAAG
61791529 TTTCATAATA
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:0.53, C:0.19, G:0.06, T:0.22
Consensus pattern (16 bp):
ACATAACTAACATAAG
Found at i:61791650 original size:52 final size:52
Alignment explanation
Indices: 61791414--61791641 Score: 252
Period size: 52 Copynumber: 4.5 Consensus size: 52
61791404 TTTACATAAC
* * * * *
61791414 ACATAACTTACATAACTTTCATAATACACAACTTACGCATCTTACATAA--G
1 ACATAACTTACATAAGTTTCATAATACACATCTTACGCAACTTACACAACTT
** * ** ** * * *
61791464 ACATAACTTACAT--GTGTAAATAATACAAAAATTACATAACTAACATAA--G
1 ACATAACTTACATAAGT-TTCATAATACACATCTTACGCAACTTACACAACTT
61791513 ACATAACTTACATAAGTTTCATAATACACATCTTACGCAACTTACACAACTT
1 ACATAACTTACATAAGTTTCATAATACACATCTTACGCAACTTACACAACTT
61791565 ACATAACTTACATAAGTTTCATAATACACATCTTACGCAACTTACACAACTT
1 ACATAACTTACATAAGTTTCATAATACACATCTTACGCAACTTACACAACTT
* *
61791617 ACATAACTTACATAACTTACATAAT
1 ACATAACTTACATAAGTTTCATAAT
61791642 GTATATCTTG
Statistics
Matches: 152, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 36 0.24
51 2 0.01
52 75 0.49
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (52 bp):
ACATAACTTACATAAGTTTCATAATACACATCTTACGCAACTTACACAACTT
Found at i:61797144 original size:21 final size:21
Alignment explanation
Indices: 61797118--61797188 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
61797108 CTACAACTTA
* *
61797118 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
61797139 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
61797160 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
61797181 AAGCAGAG
1 AAGCAGAG
61797189 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:61797565 original size:41 final size:42
Alignment explanation
Indices: 61797512--61797801 Score: 177
Period size: 42 Copynumber: 6.9 Consensus size: 42
61797502 GTTTTTGTAT
* * *
61797512 AAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTG-TA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* *
61797553 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAA
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCG-TTTGAAA
* * ****
61797596 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * ****
61797638 TTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTC
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * * * * ****
61797680 CTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
* * * * ****
61797722 ACAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
** * * *
61797764 CTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTT
61797802 TTTTCTAAGC
Statistics
Matches: 216, Mismatches: 31, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
41 32 0.15
42 151 0.70
43 33 0.15
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
AAAAACGCCACTAAAGAACATGTTCTTTAGCGGCGTTTGAAA
Found at i:61797739 original size:126 final size:126
Alignment explanation
Indices: 61797601--61797834 Score: 416
Period size: 126 Copynumber: 1.9 Consensus size: 126
61797591 AGAAAAAAAA
*
61797601 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCC-CTTAAGCGCCGCTAAAGAACATGTTCTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTC-TAAGCGCCGCTAAAGAACATGATCTT
61797665 TAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAG
65 TAGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAG
**
61797727 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCTAAGCGCCGCTAAAGAACATGATCTTT
*
61797792 AGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTA
66 AGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTTA
61797835 ACGGCGTTTT
Statistics
Matches: 103, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
126 102 0.99
127 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (126 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCTCTAAGCGCCGCTAAAGAACATGATCTTT
AGCGGCGTTTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAG
Found at i:61797845 original size:42 final size:42
Alignment explanation
Indices: 61797601--61797845 Score: 377
Period size: 42 Copynumber: 5.8 Consensus size: 42
61797591 AGAAAAAAAA
**
61797601 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
* *
61797643 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * *
61797685 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
61797727 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
61797769 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
61797811 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
61797846 GTTTGTAAAC
Statistics
Matches: 189, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.01
42 181 0.96
43 7 0.04
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:61801505 original size:31 final size:31
Alignment explanation
Indices: 61801467--61801536 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
61801457 TATAAAATGA
* *
61801467 TCACTAAACTATTTGAAAGTTTTTATTCAAG
1 TCACTAAACTATTCGAAAATTTTTATTCAAG
*
61801498 TCACTAAACTATTCGAAAATTTTTATTTAAG
1 TCACTAAACTATTCGAAAATTTTTATTCAAG
61801529 TCACTAAA
1 TCACTAAA
61801537 TTGTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (31 bp):
TCACTAAACTATTCGAAAATTTTTATTCAAG
Found at i:61807523 original size:31 final size:31
Alignment explanation
Indices: 61807482--61807540 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
61807472 ATATGTAGAA
*
61807482 TTGAATTAAAATCAATATTTT-ATGTATACAT
1 TTGAACTAAAATCAA-ATTTTAATGTATACAT
61807513 TTGAACTAAAATCAAATTTTAATGTATA
1 TTGAACTAAAATCAAATTTTAATGTATA
61807541 TAACTACTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (31 bp):
TTGAACTAAAATCAAATTTTAATGTATACAT
Found at i:61811604 original size:27 final size:27
Alignment explanation
Indices: 61811551--61811604 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
61811541 ACTTTATGCC
* *
61811551 TTTTTCTGAATTTTTTTTATTTGTTTA
1 TTTTTCTGAATTTTTTATAATTGTTTA
*
61811578 TTTTTTTGAATATTTTTATAATT-TTTA
1 TTTTTCTGAAT-TTTTTATAATTGTTTA
61811605 AATTATTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.72
Consensus pattern (27 bp):
TTTTTCTGAATTTTTTATAATTGTTTA
Found at i:61819805 original size:20 final size:22
Alignment explanation
Indices: 61819780--61819821 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61819770 TCAACATATC
*
61819780 AAATTA-ATA-AATTTTGATGA
1 AAATTACATACAATTTTAATGA
61819800 AAATTACATACAATTTTAATGA
1 AAATTACATACAATTTTAATGA
61819822 TTAGGTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 3 0.16
22 10 0.53
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATTACATACAATTTTAATGA
Done.