Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 36 of 103
Found at i:13539806 original size:16 final size:17
Alignment explanation
Indices: 13539776--13539813 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
13539766 TATATTTTTC
*
13539776 TATTTCTTTTCACTTAA
1 TATTTCTTTTAACTTAA
13539793 TATTT-TTTTAACTTAA
1 TATTTCTTTTAACTTAA
*
13539809 CATTT
1 TATTT
13539814 GATAACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTCTTTTAACTTAA
Found at i:13541609 original size:19 final size:18
Alignment explanation
Indices: 13541580--13541615 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
13541570 AATTTGACTA
13541580 ATAATAAAATAAAATAAG
1 ATAATAAAATAAAATAAG
13541598 ATAATAAAAATAAAATAA
1 ATAAT-AAAATAAAATAA
13541616 AGCACATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
ATAATAAAATAAAATAAG
Found at i:13552817 original size:42 final size:42
Alignment explanation
Indices: 13552759--13552933 Score: 253
Period size: 42 Copynumber: 4.1 Consensus size: 42
13552749 TTATGTGATA
*
13552759 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTG
* *
13552801 ATGATGACCCAACTATGTGCGTGTAGGAGTGCACATGAGTTG
1 ATGATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTG
* *
13552843 ATGATGACCCAACTATGTGCCGTGT-GGAGTGCACTTGAGCTA
1 ATGATGACCCAACTATGTG-CGTGTGGGAGTGCACATGAGCTG
* * *
13552885 ATGATGACCTAGCTATGTGCGAGTGGGGAGTGCACATGAGCTG
1 ATGATGACCCAACTATGTGCGTGT-GGGAGTGCACATGAGCTG
13552928 ATGATG
1 ATGATG
13552934 GTGGGATGAT
Statistics
Matches: 119, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
41 4 0.03
42 89 0.75
43 26 0.22
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (42 bp):
ATGATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTG
Found at i:13575222 original size:14 final size:13
Alignment explanation
Indices: 13575203--13575236 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
13575193 ATACTATTTA
13575203 TTTATTTTGTTTTG
1 TTTATTTT-TTTTG
13575217 TTTATTTTTTTTG
1 TTTATTTTTTTTG
13575230 TTATATT
1 TT-TATT
13575237 GCTGATGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (13 bp):
TTTATTTTTTTTG
Found at i:13582443 original size:29 final size:29
Alignment explanation
Indices: 13582411--13582500 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
13582401 GGGAGATGGA
13582411 TGGGATGTCTGGCTATGTGCATGATGTGG
1 TGGGATGTCTGGCTATGTGCATGATGTGG
* * *
13582440 TGGGATG-C--AC-ATGAGC-TGGT-TGAG
1 TGGGATGTCTGGCTATGTGCATGATGTG-G
13582464 ATGGGATGTCTGGCTATGTGCATGATGTGG
1 -TGGGATGTCTGGCTATGTGCATGATGTGG
13582494 TGGGATG
1 TGGGATG
13582501 CACATGAGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
23 2 0.04
24 4 0.09
25 12 0.26
26 2 0.04
28 2 0.04
29 19 0.40
30 4 0.09
31 2 0.04
ACGTcount: A:0.17, C:0.10, G:0.42, T:0.31
Consensus pattern (29 bp):
TGGGATGTCTGGCTATGTGCATGATGTGG
Found at i:13582467 original size:54 final size:54
Alignment explanation
Indices: 13582409--13582520 Score: 215
Period size: 54 Copynumber: 2.1 Consensus size: 54
13582399 GAGGGAGATG
*
13582409 GATGGGATGTCTGGCTATGTGCATGATGTGGTGGGATGCACATGAGCTGGTTGA
1 GATGGGATGTCTGGCTATGTGCATGATGTGGTGGGATGCACATGAGCTGGGTGA
13582463 GATGGGATGTCTGGCTATGTGCATGATGTGGTGGGATGCACATGAGCTGGGTGA
1 GATGGGATGTCTGGCTATGTGCATGATGTGGTGGGATGCACATGAGCTGGGTGA
13582517 GATG
1 GATG
13582521 CACATAATGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.19, C:0.11, G:0.42, T:0.29
Consensus pattern (54 bp):
GATGGGATGTCTGGCTATGTGCATGATGTGGTGGGATGCACATGAGCTGGGTGA
Found at i:13584316 original size:35 final size:33
Alignment explanation
Indices: 13584258--13584386 Score: 124
Period size: 32 Copynumber: 3.8 Consensus size: 33
13584248 TTTACCGGGA
*
13584258 TCAACCAAAACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACCACAACCTCACAA-TGGTTTTTCAAAGGC
** *
13584290 TCAACCACAACCTTTCACAATGGTTTTTCACGGGT
1 TCAACCACAACC--TCACAATGGTTTTTCAAAGGC
13584325 TCAACCTA-AACC-CA-AAGTGGTTTTTCAAAGGC
1 TCAACC-ACAACCTCACAA-TGGTTTTTCAAAGGC
13584357 TCAACCACAACCTACAACAATGGTTTTTCA
1 TCAACCACAACCT-C-ACAATGGTTTTTCA
13584387 CGGGATCAAC
Statistics
Matches: 79, Mismatches: 7, Indels: 19
0.75 0.07 0.18
Matches are distributed among these distances:
31 3 0.04
32 35 0.44
34 1 0.01
35 35 0.44
36 5 0.06
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.26
Consensus pattern (33 bp):
TCAACCACAACCTCACAATGGTTTTTCAAAGGC
Found at i:13584329 original size:67 final size:66
Alignment explanation
Indices: 13584237--13584406 Score: 279
Period size: 67 Copynumber: 2.5 Consensus size: 66
13584227 CCAAAGCCTG
13584237 TCACAATGGTTTTT-ACCGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAAC
1 TCACAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAAC
13584301 CTT
65 C-T
* *
13584304 TCACAATGGTTTTTCACGGGTTCAACCTAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACC
1 TCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACC
13584369 T
66 T
*
13584370 ACAACAATGGTTTTTCACGGGATCAACCAAAACCCAA
1 TC-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
13584407 CAACTAACTT
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
66 2 0.02
67 93 0.97
68 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (66 bp):
TCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAGGCTCAACCACAACC
T
Found at i:13584396 original size:35 final size:33
Alignment explanation
Indices: 13584239--13584409 Score: 152
Period size: 35 Copynumber: 5.1 Consensus size: 33
13584229 AAAGCCTGTC
13584239 ACAATGGTTTTT-ACCGGGATCAACCAAAACCCA
1 ACAATGGTTTTTCA-CGGGATCAACCAAAACCCA
* ** * *
13584272 A-AGTGGTTTTTCAAAGGCTCAACCACAACCTTTC-
1 ACAATGGTTTTTCACGGGATCAACCAAAACC---CA
* *
13584306 ACAATGGTTTTTCACGGGTTCAACCTAAACCCA
1 ACAATGGTTTTTCACGGGATCAACCAAAACCCA
* ** * *
13584339 A-AGTGGTTTTTCAAAGGCTCAACCACAACCTACA
1 ACAATGGTTTTTCACGGGATCAACCAAAACC--CA
13584373 ACAATGGTTTTTCACGGGATCAACCAAAACCCA
1 ACAATGGTTTTTCACGGGATCAACCAAAACCCA
13584406 ACAA
1 ACAA
13584410 CTAACTTTTT
Statistics
Matches: 107, Mismatches: 22, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
32 46 0.43
33 9 0.08
34 4 0.04
35 48 0.45
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (33 bp):
ACAATGGTTTTTCACGGGATCAACCAAAACCCA
Found at i:13585583 original size:37 final size:37
Alignment explanation
Indices: 13585542--13585619 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
13585532 CATCAGCATC
**
13585542 CAAATCCTAACCATAAGCAATTATCACAGTAGAATGT
1 CAAATCCTAACCATAAGCAATTATCACAACAGAATGT
*
13585579 CAAATTCTAACCATAAGCAATTATCACAACAGAATGT
1 CAAATCCTAACCATAAGCAATTATCACAACAGAATGT
13585616 CAAA
1 CAAA
13585620 AGCAACTAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (37 bp):
CAAATCCTAACCATAAGCAATTATCACAACAGAATGT
Found at i:13598911 original size:12 final size:11
Alignment explanation
Indices: 13598884--13598938 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
13598874 AACCAAGTTG
13598884 TTTCTTCCTTTC
1 TTTC-TCCTTTC
* *
13598896 TCTCT-TTTTC
1 TTTCTCCTTTC
13598906 TTTCTCCTTTC
1 TTTCTCCTTTC
*
13598917 TTTCT--TTCC
1 TTTCTCCTTTC
13598926 TTTCTCCTTTC
1 TTTCTCCTTTC
13598937 TT
1 TT
13598939 CCAACTGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
9 8 0.24
10 8 0.24
11 15 0.44
12 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTCTCCTTTC
Found at i:13598930 original size:20 final size:21
Alignment explanation
Indices: 13598884--13598938 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
13598874 AACCAAGTTG
* *
13598884 TTTCTTCCTTTCTCTCTTTTTC
1 TTTC-TCCTTTCTTTCTTTTCC
13598906 TTTCTCCTTTCTTTC-TTTCC
1 TTTCTCCTTTCTTTCTTTTCC
13598926 TTTCTCCTTTCTT
1 TTTCTCCTTTCTT
13598939 CCAACTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 17 0.55
21 10 0.32
22 4 0.13
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTCTCCTTTCTTTCTTTTCC
Found at i:13600315 original size:19 final size:21
Alignment explanation
Indices: 13600291--13600334 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
13600281 CCTATAAATA
13600291 TCTTG-AATTTCCAGCAGCT-
1 TCTTGAAATTTCCAGCAGCTG
13600310 TCTTGAAATTTCCAGCAGCTG
1 TCTTGAAATTTCCAGCAGCTG
13600331 TCTT
1 TCTT
13600335 CTTCTTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.22
20 14 0.61
21 4 0.17
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (21 bp):
TCTTGAAATTTCCAGCAGCTG
Found at i:13601189 original size:43 final size:43
Alignment explanation
Indices: 13601119--13601232 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
13601109 TATATCGACT
*
13601119 CAGCTATGTGCGAGTAGGGAGTGCGCATAAGCCAAGGATGACC
1 CAGCTATGTGCGAGTAGGGAGTGCGCATAACCCAAGGATGACC
* * * * *
13601162 CGGTTATGTGCGAGTAGGGAGTACGCATAACCCGATGATGACC
1 CAGCTATGTGCGAGTAGGGAGTGCGCATAACCCAAGGATGACC
*
13601205 CAGCCATGTGCGAGTAGGGAGTGCGCAT
1 CAGCTATGTGCGAGTAGGGAGTGCGCAT
13601233 GAGCTGGTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.25, C:0.21, G:0.35, T:0.18
Consensus pattern (43 bp):
CAGCTATGTGCGAGTAGGGAGTGCGCATAACCCAAGGATGACC
Found at i:13601244 original size:43 final size:43
Alignment explanation
Indices: 13601119--13601245 Score: 148
Period size: 43 Copynumber: 3.0 Consensus size: 43
13601109 TATATCGACT
*
13601119 CAGCTATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GATGACC
1 CAGCTATGTGCGAGTAGGGAGTGCGCATAAG-CAGGTGATGACC
* * * * * *
13601162 CGGTTATGTGCGAGTAGGGAGTACGCATAACCCGATGATGACC
1 CAGCTATGTGCGAGTAGGGAGTGCGCATAAGCAGGTGATGACC
* * *
13601205 CAGCCATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 CAGCTATGTGCGAGTAGGGAGTGCGCATAAGCAGGTGATGA
13601246 TGATGATGAG
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.25, C:0.20, G:0.36, T:0.19
Consensus pattern (43 bp):
CAGCTATGTGCGAGTAGGGAGTGCGCATAAGCAGGTGATGACC
Found at i:13601260 original size:20 final size:20
Alignment explanation
Indices: 13601231--13601270 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13601221 GGGAGTGCGC
*
13601231 ATGAGCTGGTGATG-ATGATG
1 ATGAGATGGTG-TGCATGATG
13601251 ATGAGATGGTGTGCATGATG
1 ATGAGATGGTGTGCATGATG
13601271 GTGATGGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.25, C:0.05, G:0.40, T:0.30
Consensus pattern (20 bp):
ATGAGATGGTGTGCATGATG
Found at i:13603777 original size:19 final size:20
Alignment explanation
Indices: 13603755--13603794 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
13603745 CAAGATAAAT
13603755 TTTTTA-GAATAAAATAATA
1 TTTTTATGAATAAAATAATA
*
13603774 -TTTTATTAATAAAATAATA
1 TTTTTATGAATAAAATAATA
13603793 TT
1 TT
13603795 AAAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
18 5 0.28
19 12 0.67
20 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTTTATGAATAAAATAATA
Found at i:13604241 original size:20 final size:20
Alignment explanation
Indices: 13604196--13604233 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13604186 TTTTGGCCCC
13604196 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
13604216 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
13604234 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:13607968 original size:11 final size:11
Alignment explanation
Indices: 13607952--13607976 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13607942 TTTGTATGCG
13607952 ATAAAATAATA
1 ATAAAATAATA
13607963 ATAAAATAATA
1 ATAAAATAATA
13607974 ATA
1 ATA
13607977 TCTTATTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:13608095 original size:19 final size:19
Alignment explanation
Indices: 13608071--13608109 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13608061 GCTAGAGGAA
13608071 AATTTTAGAATAAAATAAT
1 AATTTTAGAATAAAATAAT
* *
13608090 AATTTTTGGATAAAATAAT
1 AATTTTAGAATAAAATAAT
13608109 A
1 A
13608110 TTAAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (19 bp):
AATTTTAGAATAAAATAAT
Found at i:13610488 original size:2 final size:2
Alignment explanation
Indices: 13610446--13610476 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13610436 ATTGTTTTGA
13610446 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13610477 AAAGCTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13617072 original size:19 final size:19
Alignment explanation
Indices: 13617048--13617147 Score: 58
Period size: 19 Copynumber: 5.2 Consensus size: 19
13617038 ATAGTGCCCG
13617048 TGTGCACGATGTGGGGGGA
1 TGTGCACGATGTGGGGGGA
* ****
13617067 TGTGCATGATG-GCACTGA
1 TGTGCACGATGTGGGGGGA
* *
13617085 TTGTGCACGACGTGGGGAGA
1 -TGTGCACGATGTGGGGGGA
** * **
13617105 TGCACACGATAGTGCAGGCTA
1 TGTGCACGAT-GTG-GGGGGA
13617126 TGTGCACGATGTGGGGGGA
1 TGTGCACGATGTGGGGGGA
13617145 TGT
1 TGT
13617148 ACATGAGTCG
Statistics
Matches: 55, Mismatches: 22, Indels: 8
0.65 0.26 0.09
Matches are distributed among these distances:
18 3 0.05
19 32 0.58
20 9 0.16
21 11 0.20
ACGTcount: A:0.20, C:0.15, G:0.42, T:0.23
Consensus pattern (19 bp):
TGTGCACGATGTGGGGGGA
Found at i:13620589 original size:13 final size:13
Alignment explanation
Indices: 13620571--13620595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13620561 GGAGAAATTG
13620571 TGATTTTATAAAA
1 TGATTTTATAAAA
13620584 TGATTTTATAAA
1 TGATTTTATAAA
13620596 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:13664593 original size:2 final size:2
Alignment explanation
Indices: 13664588--13664642 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
13664578 NNNNNGAGAG
13664588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13664630 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
13664643 GTTTGAATTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13669803 original size:26 final size:26
Alignment explanation
Indices: 13669774--13669830 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
13669764 TATACCCATT
13669774 ATCATCATGCACACCATCCCATCATC
1 ATCATCATGCACACCATCCCATCATC
13669800 ATCATCATGCACACCATCCCATCATC
1 ATCATCATGCACACCATCCCATCATC
13669826 ATCAT
1 ATCAT
13669831 TCCTAGCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.32, C:0.40, G:0.04, T:0.25
Consensus pattern (26 bp):
ATCATCATGCACACCATCCCATCATC
Found at i:13669897 original size:43 final size:42
Alignment explanation
Indices: 13669844--13669992 Score: 165
Period size: 43 Copynumber: 3.5 Consensus size: 42
13669834 TAGCTCATGG
* ** *
13669844 GCACTCCCTACTCGCACATGGTTAGGTCATCACCGGGTTATGC
1 GCACTCCCTACTCACACAT-AATAGGTCATCATCGGGTTATGC
* * *
13669887 GCACTTCCTACTCGCACATAACT-GAGTCATCATCGGGTTATGT
1 GCACTCCCTACTCACACATAA-TAG-GTCATCATCGGGTTATGC
* *
13669930 GCACTCCCTACTCACACATAACAGGGTCATCATCGGCTTATGC
1 GCACTCCCTACTCACACATAATA-GGTCATCATCGGGTTATGC
*
13669973 GCACTCTCTACTCACACATA
1 GCACTCCCTACTCACACATA
13669993 GCCGAGTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 89 0.98
44 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.26
Consensus pattern (42 bp):
GCACTCCCTACTCACACATAATAGGTCATCATCGGGTTATGC
Found at i:13675881 original size:20 final size:21
Alignment explanation
Indices: 13675837--13675882 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
13675827 ATCTTACCTT
* *
13675837 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTTCTTCCCTTGAA
13675858 -TTTTCAC-TCTTCCCTTGAA
1 TTTTTCACTTCTTCCCTTGAA
13675877 TTTTTC
1 TTTTTC
13675883 CACCTAGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.13, C:0.24, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTTCACTTCTTCCCTTGAA
Found at i:13681134 original size:19 final size:20
Alignment explanation
Indices: 13681107--13681152 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
13681097 AGGAGACAAG
*
13681107 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
13681126 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
13681145 ATAATATT
1 ATAATATT
13681153 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:13681584 original size:19 final size:19
Alignment explanation
Indices: 13681560--13681597 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13681550 CTATTTGACT
13681560 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
13681579 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
13681598 GTTAAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:13682861 original size:54 final size:54
Alignment explanation
Indices: 13682802--13682982 Score: 125
Period size: 54 Copynumber: 3.2 Consensus size: 54
13682792 AATTTTATAA
13682802 AAAGGAGTTTAAATAGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATG
1 AAAGGAGTTTAAATAGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATG
* * * ** * * ** **
13682856 AAAGGATTTTATAAATTGTCTTGAAATCGAATAATGATTTTGA-AAA-ATAGA-GTAATTGGANA
1 AAAGGA-GTT-TAAATAG---T-AAATC--TTTGTG-TTTT-ACAAACA-AAATGTATTTACATG
*
13682918 AAAGGAGTTTAAATGGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATG
1 AAAGGAGTTTAAATAGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATG
*
13682972 AAAGGATTTTA
1 AAAGGAGTTTA
13682983 TAAATTGTCT
Statistics
Matches: 90, Mismatches: 23, Indels: 28
0.64 0.16 0.20
Matches are distributed among these distances:
52 1 0.01
53 9 0.10
54 26 0.29
55 2 0.02
56 11 0.12
57 1 0.01
59 1 0.01
60 11 0.12
61 2 0.02
62 16 0.18
63 9 0.10
64 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (54 bp):
AAAGGAGTTTAAATAGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATG
Found at i:13682949 original size:116 final size:115
Alignment explanation
Indices: 13682800--13683031 Score: 446
Period size: 116 Copynumber: 2.0 Consensus size: 115
13682790 AAAATTTTAT
13682800 AAAAAGGAGTTTAAATAGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATGAAAGGATTT
1 AAAAAGGAGTTTAAATAGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATGAAAGGATTT
13682865 TATAAATTGTCTTGAAATCGAATAATGATTTTGAAAAATAGAGTAATTGG
66 TATAAATTGTCTTGAAATCGAATAATGATTTTGAAAAATAGAGTAATTGG
*
13682915 ANAAAAGGAGTTTAAATGGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATGAAAGGATT
1 A-AAAAGGAGTTTAAATAGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATGAAAGGATT
13682980 TTATAAATTGTCTTGAAATCGAATAATGATTTTGAAAAATAGAGTAATTGG
65 TTATAAATTGTCTTGAAATCGAATAATGATTTTGAAAAATAGAGTAATTGG
13683031 A
1 A
13683032 GACCACTTGT
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
115 1 0.01
116 114 0.99
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.35
Consensus pattern (115 bp):
AAAAAGGAGTTTAAATAGTAAATCTTTGTGTTTTACAAACAAAATGTATTTACATGAAAGGATTT
TATAAATTGTCTTGAAATCGAATAATGATTTTGAAAAATAGAGTAATTGG
Found at i:13686006 original size:2 final size:2
Alignment explanation
Indices: 13685999--13686044 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
13685989 TAAAAATTAA
* * *
13685999 AT AT AT AT A- AT AT AT TT AT TT AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13686040 AT AT A
1 AT AT A
13686045 CATTCATAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13686354 original size:2 final size:2
Alignment explanation
Indices: 13686347--13686383 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13686337 TCCTTTATTG
13686347 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13686384 TAATGAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13687311 original size:24 final size:23
Alignment explanation
Indices: 13687276--13687323 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
13687266 TTTTTCGTTG
*
13687276 GAAAATTCCAACGAAAATCCGTC
1 GAAAATTCCAACAAAAATCCGTC
*
13687299 GAAAATTTCCAACAAAAATCTGTC
1 GAAAA-TTCCAACAAAAATCCGTC
13687323 G
1 G
13687324 GAAAGTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (23 bp):
GAAAATTCCAACAAAAATCCGTC
Found at i:13688563 original size:20 final size:20
Alignment explanation
Indices: 13688540--13688580 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
13688530 ATCAAATCTC
*
13688540 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATAAAAATCA
*
13688560 ATTTCATTTCGTAAAAATCA
1 ATTTCATTTCATAAAAATCA
13688580 A
1 A
13688581 CAAGGCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTCATTTCATAAAAATCA
Found at i:13693272 original size:53 final size:52
Alignment explanation
Indices: 13693096--13693315 Score: 197
Period size: 53 Copynumber: 4.3 Consensus size: 52
13693086 CAATAACAAG
*
13693096 GATTCTTGCTTTTTAACAAGA--AA-CGATAACCCTTACACAAT-CACAAAGA
1 GATTCTTGCTTTTTAA-GAGATCAAGCGATAACCCTTACACAATCCACAAAGA
* * * * *
13693145 GATTATTG-TTTTTGAACAG--GAAGCGATAACCCTTACACAATCCA-TAAGG
1 GATTCTTGCTTTTT-AAGAGATCAAGCGATAACCCTTACACAATCCACAAAGA
* * *
13693194 GATTCTTTCTTTTTAATGGGATCAAGCGGTAA-CCTTAACACAATCCACAAAGA
1 GATTCTTGCTTTTTAA-GAGATCAAGCGATAACCCTT-ACACAATCCACAAAGA
* * ** *
13693247 GATTCTTGCTTTTTCAAGAGATCAAGTGATAAGCCACACATAATCCACAAAGA
1 GATTCTTGCTTTTT-AAGAGATCAAGCGATAACCCTTACACAATCCACAAAGA
*
13693300 GATTCTTGGTTTTTAA
1 GATTCTTGCTTTTTAA
13693316 ATGGGAAGCG
Statistics
Matches: 139, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
48 9 0.06
49 38 0.27
50 8 0.06
51 4 0.03
52 20 0.14
53 56 0.40
54 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (52 bp):
GATTCTTGCTTTTTAAGAGATCAAGCGATAACCCTTACACAATCCACAAAGA
Found at i:13695840 original size:19 final size:19
Alignment explanation
Indices: 13695816--13695853 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
13695806 CTCACCTAGG
13695816 GTTTGTTCTTCCTTTCTTT
1 GTTTGTTCTTCCTTTCTTT
13695835 GTTTGTTCTTCCTTTCTTT
1 GTTTGTTCTTCCTTTCTTT
13695854 CCCTCTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.21, G:0.11, T:0.68
Consensus pattern (19 bp):
GTTTGTTCTTCCTTTCTTT
Found at i:13695984 original size:8 final size:8
Alignment explanation
Indices: 13695971--13696026 Score: 60
Period size: 8 Copynumber: 6.6 Consensus size: 8
13695961 ATTGGTCCAT
13695971 TTTTAAAA
1 TTTTAAAA
13695979 TTTTAAAA
1 TTTTAAAA
*
13695987 ATTTAAACA
1 TTTTAAA-A
13695996 TTTTATAAA
1 TTTTA-AAA
13696005 TTTTGAAAA
1 TTTT-AAAA
13696014 -TTTAAACA
1 TTTTAAA-A
13696022 TTTTA
1 TTTTA
13696027 TCTCCACCAC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
7 3 0.07
8 18 0.44
9 17 0.41
10 3 0.07
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (8 bp):
TTTTAAAA
Found at i:13695987 original size:9 final size:9
Alignment explanation
Indices: 13695969--13696026 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
13695959 TTATTGGTCC
*
13695969 ATTTTTAAA
1 ATTTTAAAA
13695978 ATTTTAAAA
1 ATTTTAAAA
*
13695987 A-TTTAAAC
1 ATTTTAAAA
*
13695995 ATTTTATAA
1 ATTTTAAAA
*
13696004 ATTTTGAAA
1 ATTTTAAAA
*
13696013 A-TTTAAAC
1 ATTTTAAAA
13696021 ATTTTA
1 ATTTTA
13696027 TCTCCACCAC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 13 0.33
9 26 0.67
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:13696000 original size:17 final size:16
Alignment explanation
Indices: 13695972--13696007 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
13695962 TTGGTCCATT
13695972 TTTAAAATTTTAAAAA
1 TTTAAAATTTTAAAAA
*
13695988 TTTAAACATTTTATAAA
1 TTTAAA-ATTTTAAAAA
13696005 TTT
1 TTT
13696008 TGAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAAAATTTTAAAAA
Found at i:13696026 original size:26 final size:26
Alignment explanation
Indices: 13695971--13696027 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
13695961 ATTGGTCCAT
13695971 TTTTA-AAATTTTAAAAATTTAAACA
1 TTTTATAAATTTTAAAAATTTAAACA
*
13695996 TTTTATAAATTTTGAAAATTTAAACA
1 TTTTATAAATTTTAAAAATTTAAACA
13696022 TTTTAT
1 TTTTAT
13696028 CTCCACCACA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (26 bp):
TTTTATAAATTTTAAAAATTTAAACA
Found at i:13706308 original size:20 final size:20
Alignment explanation
Indices: 13706255--13706328 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
13706245 TAGTAGTGTA
* *
13706255 GTTTAATTTATGTT-TTAAT
1 GTTTATTTTATGTTAATAAT
*
13706274 GTTTATTTTAAGTTAATAAT
1 GTTTATTTTATGTTAATAAT
* *
13706294 G-TTAGTTTTATGTTATTTAT
1 GTTTA-TTTTATGTTAATAAT
*
13706314 ATTTATTTTTATGTT
1 GTTTA-TTTTATGTT
13706329 TTTGTAGGAG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 15 0.34
20 17 0.39
21 12 0.27
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.64
Consensus pattern (20 bp):
GTTTATTTTATGTTAATAAT
Found at i:13707468 original size:21 final size:18
Alignment explanation
Indices: 13707442--13707480 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 18
13707432 TTTAATTAAA
13707442 TTAGTTTTAATTGAGTAATTT
1 TTAG-TTTAATT-AG-AATTT
13707463 TTAGTTTAATTAGAATTT
1 TTAGTTTAATTAGAATTT
13707481 AGATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 2 0.11
20 7 0.39
21 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (18 bp):
TTAGTTTAATTAGAATTT
Found at i:13707488 original size:18 final size:18
Alignment explanation
Indices: 13707431--13707492 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 18
13707421 TTGCTTTAAT
13707431 TTTTAATTA-AA-TTAG-
1 TTTTAATTAGAATTTAGA
**
13707446 TTTTAATTGAGTAATTTTTA
1 TTTTAATT-AG-AATTTAGA
*
13707466 GTTTAATTAGAATTTAGA
1 TTTTAATTAGAATTTAGA
13707484 TTTTAATTA
1 TTTTAATTA
13707493 TTTGAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
15 8 0.22
16 1 0.03
18 16 0.44
19 4 0.11
20 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (18 bp):
TTTTAATTAGAATTTAGA
Found at i:13709487 original size:2 final size:2
Alignment explanation
Indices: 13709480--13709572 Score: 136
Period size: 2 Copynumber: 47.5 Consensus size: 2
13709470 CCATTGTGTT
*
13709480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA NA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
13709521 TG T- TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
13709562 TA TA TG TA TA T
1 TA TA TA TA TA T
13709573 GTTAAAATCA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
1 2 0.02
2 82 0.98
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13713013 original size:43 final size:42
Alignment explanation
Indices: 13712895--13713014 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
13712885 TGACTCGGTT
* * * **
13712895 ATGTGCGAGTAGGGAGTGAGCATAAACTGAG-GATGACCCTGTT
1 ATGTGCGAGTAGGGAGTGCGCAT-AACTG-GTGATCACCCAGCC
* * *
13712938 ATGTCCGAGTAGGGAGTGCTCATAACCCGGTGATCACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAA-CTGGTGATCACCCAGCC
*
13712981 ATGTGCGAGTAGGGAGCGCGCATGAACTGGTGAT
1 ATGTGCGAGTAGGGAGTGCGCAT-AACTGGTGAT
13713015 GATGATGATG
Statistics
Matches: 62, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 3 0.05
43 57 0.92
44 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (42 bp):
ATGTGCGAGTAGGGAGTGCGCATAACTGGTGATCACCCAGCC
Found at i:13715957 original size:60 final size:61
Alignment explanation
Indices: 13715864--13716013 Score: 230
Period size: 60 Copynumber: 2.5 Consensus size: 61
13715854 ATAAGAGATC
* * * * *
13715864 AAAACAGAAAGTTTTTCGCTGCAACGAGATTCAATCTCGCTGCAGCGAAATTTCAACC-CA
1 AAAACAGAAAGTTTCTCGCTGCAGCGAGATTCAATCTCGCTGCAGAGAAATTGCAACCTAA
*
13715924 AAAACAGAATGTTTCTCGCTGCAGCGAGATTCAATCTCGCTGCAGAGAAATTGCAACCTAA
1 AAAACAGAAAGTTTCTCGCTGCAGCGAGATTCAATCTCGCTGCAGAGAAATTGCAACCTAA
*
13715985 AAAACAGAAAGTTTCTCGTTGCAGCGAGA
1 AAAACAGAAAGTTTCTCGCTGCAGCGAGA
13716014 AGCTACAGTG
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 53 0.65
61 28 0.35
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (61 bp):
AAAACAGAAAGTTTCTCGCTGCAGCGAGATTCAATCTCGCTGCAGAGAAATTGCAACCTAA
Found at i:13716293 original size:8 final size:8
Alignment explanation
Indices: 13716280--13716313 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
13716270 CCTATAACAC
*
13716280 ACATATTT
1 ACATATAT
13716288 ACATATAT
1 ACATATAT
*
13716296 ATATATAT
1 ACATATAT
13716304 ACATATAT
1 ACATATAT
13716312 AC
1 AC
13716314 CCATCATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (8 bp):
ACATATAT
Found at i:13716387 original size:43 final size:43
Alignment explanation
Indices: 13716323--13716445 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 43
13716313 CCCATCATCA
* * **
13716323 TCATCACCAGCTCATGCGCACTCCCTACTCGCACAT-GGCTGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAATC-GGG
* * *
13716366 TCATCACCGGGTTATGTGCACTCCCTACTCACACATAATCGGG
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAATCGGG
*
13716409 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATA
1 TCATCACCGGCTTATGCGCACTCCCTACTCGCACATA
13716446 GCCGAGTCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 67 0.99
44 1 0.01
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (43 bp):
TCATCACCGGCTTATGCGCACTCCCTACTCGCACATAATCGGG
Found at i:13718539 original size:38 final size:38
Alignment explanation
Indices: 13718471--13718636 Score: 172
Period size: 38 Copynumber: 4.3 Consensus size: 38
13718461 AATCCTAGCA
* *
13718471 ACCATTATCTGCATGAAATGTCCCATATAATGGGGA-CTGT
1 ACCATTATC--CATGAAATGTCCTAGATAATGGGGATC-GT
* * * *
13718511 ACCATTATCCAAGAAATGTCGTAGATAATGGGAATAGT
1 ACCATTATCCATGAAATGTCCTAGATAATGGGGATCGT
*
13718549 ACCATTATCTGCATGAAATGTCCTAGATAATGGGGATCAT
1 ACCATTATC--CATGAAATGTCCTAGATAATGGGGATCGT
** * * *
13718589 ACCATTATCCATGATTTGTCTTAGGTAGTGGGGATCGT
1 ACCATTATCCATGAAATGTCCTAGATAATGGGGATCGT
13718627 ACCATTATCC
1 ACCATTATCC
13718637 TTGTGATACG
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
38 64 0.60
40 42 0.40
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (38 bp):
ACCATTATCCATGAAATGTCCTAGATAATGGGGATCGT
Found at i:13718629 original size:78 final size:78
Alignment explanation
Indices: 13718471--13718635 Score: 215
Period size: 78 Copynumber: 2.1 Consensus size: 78
13718461 AATCCTAGCA
* *
13718471 ACCATTATCTGCATGAAATGTCCCATATAATGGGGACTGTACCATTATCCAAGAAATGTCGTAGA
1 ACCATTATCTGCATGAAATGTCCCAGATAATGGGGACTATACCATTATCCAAGAAATGTCGTAGA
13718536 TAATGGGAATAGT
66 TAATGGGAATAGT
* * ** *
13718549 ACCATTATCTGCATGAAATGTCCTAGATAATGGGGA-TCATACCATTATCCATGATTTGTCTTAG
1 ACCATTATCTGCATGAAATGTCCCAGATAATGGGGACT-ATACCATTATCCAAGAAATGTCGTAG
* * * *
13718613 GTAGTGGGGATCGT
65 ATAATGGGAATAGT
13718627 ACCATTATC
1 ACCATTATC
13718636 CTTGTGATAC
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
77 1 0.01
78 74 0.99
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (78 bp):
ACCATTATCTGCATGAAATGTCCCAGATAATGGGGACTATACCATTATCCAAGAAATGTCGTAGA
TAATGGGAATAGT
Found at i:13725071 original size:20 final size:20
Alignment explanation
Indices: 13725045--13725090 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
13725035 AATCTTACAT
* *
13725045 TTTTTCACTTGTTTCCTTGAA
1 TTTTACACTT-TTCCCTTGAA
13725066 TTTTCACACTTTTCCCTTGAA
1 TTTT-ACACTTTTCCCTTGAA
13725087 TTTT
1 TTTT
13725091 TCCACCAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTACACTTTTCCCTTGAA
Found at i:13725092 original size:22 final size:22
Alignment explanation
Indices: 13725050--13725090 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13725040 TACATTTTTT
*
13725050 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
13725072 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
13725091 TCCACCAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:13731375 original size:258 final size:256
Alignment explanation
Indices: 13730917--13731688 Score: 1153
Period size: 258 Copynumber: 3.0 Consensus size: 256
13730907 AAATTTTGTA
* *
13730917 CAAAGGTGAGTTTGGCTTGTTACATTGATATGCAGGCTTTTGATAAACAGTTCATAAACGAACTT
1 CAAAGGTG-GTTTGGCTTGTTATATTGATAGGCAGGCTTTTGATAAACAGTTCATAAACGAACTT
13730982 GTTAAAAGCTTGGTACTGAATAAGAACTTTATGAGTTGTTTACTTTGAGTTTTGCTTTCCTTTCA
65 GTTAAAAGCTTGGTACTGAATAAGAACTTTATGAGTTGTTTACTTTGAGTTTTGCTTTCCTTTCA
*
13731047 TAAAAATTGAATCTAAATAAGTTTCATAGATCATTGAAAAGTTCATGCCACATACAATAAGAAAA
130 TAAAAATTGAATCTAAATAAGTTTCATATATCATTGAAAAGTTCATGCCACATACAATAAG-AAA
* * * *
13731112 CTCATGGTTAAACAAAATTTGCAGCTCAAAATCATGTTTTGGTGATTTCATATGGGTACAAGT
194 CTCATGGTTAAACAAAATTTGCAACTCAAAATCATGTTTTGGTGATTTAATGTGGGTACTAGT
** * *
13731175 CAAAGGTGCGTTTGGCTTGTTATATTGATAGGCAGGCTTTTGATAAATGGTTCGTAAACAAACTT
1 CAAAGGTG-GTTTGGCTTGTTATATTGATAGGCAGGCTTTTGATAAACAGTTCATAAACGAACTT
* * *
13731240 GCTAAAAGCTTGGT-CTTGAA-AAGGAACTTTATGAGTTGTTTCCTTTGAATTTTGCTTTCCTTT
65 GTTAAAAGCTTGGTAC-TGAATAA-GAACTTTATGAGTTGTTTACTTTGAGTTTTGCTTTCCTTT
* *
13731303 CGA-AAAAATTGAATCTAAACAAGTTTTATATATCATTGAAAAGTTCATGCCACATACAATAAGA
128 C-ATAAAAATTGAATCTAAATAAGTTTCATATATCATTGAAAAGTTCATGCCACATACAATAAGA
*
13731367 ATACTCATGGTTAAACAAAATTTGCAAATCAAAATCATGTTTTGGTGATTTAATGTGGGTACTAG
192 A-ACTCATGGTTAAACAAAATTTGCAACTCAAAATCATGTTTTGGTGATTTAATGTGGGTACTAG
13731432 T
256 T
* * * * *
13731433 CAAA---GATTTGGCTTGCTATATTGATAGGCAGGCTTTTGACAAACAGATCACAAACGAACTTG
1 CAAAGGTGGTTTGGCTTGTTATATTGATAGGCAGGCTTTTGATAAACAGTTCATAAACGAACTTG
* * * *
13731495 TTAAAAGCTCGGTACTGAATAAGAACTTTATGAGCTATTTACTTTGGGTTTTGCTTTCCTTTCAT
66 TTAAAAGCTTGGTACTGAATAAGAACTTTATGAGTTGTTTACTTTGAGTTTTGCTTTCCTTTCAT
* *
13731560 AAAAATTGAATCTAAATAAGTTTCATATATCATTGAAAAGTTCACGCAACATACAATAACGAAAC
131 AAAAATTGAATCTAAATAAGTTTCATATATCATTGAAAAGTTCATGCCACATACAATAA-GAAAC
* *
13731625 TCATGATT-AACAAAATTTGCAACTCAAAATCATGTTTTGGTGATTTAACGTGGGTACTAGT
195 TCATGGTTAAACAAAATTTGCAACTCAAAATCATGTTTTGGTGATTTAATGTGGGTACTAGT
13731686 CAA
1 CAA
13731689 CAATTGACCA
Statistics
Matches: 465, Mismatches: 41, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
253 55 0.12
254 163 0.35
255 7 0.02
257 5 0.01
258 234 0.50
259 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (256 bp):
CAAAGGTGGTTTGGCTTGTTATATTGATAGGCAGGCTTTTGATAAACAGTTCATAAACGAACTTG
TTAAAAGCTTGGTACTGAATAAGAACTTTATGAGTTGTTTACTTTGAGTTTTGCTTTCCTTTCAT
AAAAATTGAATCTAAATAAGTTTCATATATCATTGAAAAGTTCATGCCACATACAATAAGAAACT
CATGGTTAAACAAAATTTGCAACTCAAAATCATGTTTTGGTGATTTAATGTGGGTACTAGT
Found at i:13732861 original size:12 final size:12
Alignment explanation
Indices: 13732844--13732871 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13732834 CTTGGCTTGT
13732844 TCCTCTTCCTCC
1 TCCTCTTCCTCC
13732856 TCCTCTTCCTCC
1 TCCTCTTCCTCC
13732868 TCCT
1 TCCT
13732872 ATACATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (12 bp):
TCCTCTTCCTCC
Found at i:13739778 original size:28 final size:28
Alignment explanation
Indices: 13739741--13739809 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
13739731 GGCAAGTAAG
*
13739741 AAAATAGAAATTAGTCAATGCGTATAA-
1 AAAATAGAAATTAGTCAAGGCGTATAAC
* * *
13739768 AAAGATAGAAATTAGTTAGGGCGTGTAAC
1 AAA-ATAGAAATTAGTCAAGGCGTATAAC
13739797 AAAATAGAAATTA
1 AAAATAGAAATTA
13739810 TATAGGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.08
28 30 0.83
29 3 0.08
ACGTcount: A:0.51, C:0.06, G:0.19, T:0.25
Consensus pattern (28 bp):
AAAATAGAAATTAGTCAAGGCGTATAAC
Found at i:13739815 original size:28 final size:28
Alignment explanation
Indices: 13739772--13739856 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
13739762 GTATAAAAAG
*
13739772 ATAGAAATTAGT-TAGGGCGTGTAACAAA
1 ATAGAAATTA-TATAGGACGTGTAACAAA
* *
13739800 ATAGAAATTATATAGGATGTGCAACAAA
1 ATAGAAATTATATAGGACGTGTAACAAA
* * *
13739828 AGAGAGATTATACAGGACGTGTAACAAA
1 ATAGAAATTATATAGGACGTGTAACAAA
13739856 A
1 A
13739857 GAAATATGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 1 0.02
28 47 0.98
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.22
Consensus pattern (28 bp):
ATAGAAATTATATAGGACGTGTAACAAA
Found at i:13740172 original size:28 final size:28
Alignment explanation
Indices: 13740140--13740242 Score: 188
Period size: 28 Copynumber: 3.7 Consensus size: 28
13740130 AGTTATGACA
*
13740140 TGTAATAAAATAGAAATTAGTCAGGGTG
1 TGTAACAAAATAGAAATTAGTCAGGGTG
13740168 TGTAACAAAATAGAAATTAGTCAGGGTG
1 TGTAACAAAATAGAAATTAGTCAGGGTG
*
13740196 TGTAACAAAATAGAAATTAGTCAGTGTG
1 TGTAACAAAATAGAAATTAGTCAGGGTG
13740224 TGTAACAAAATAGAAATTA
1 TGTAACAAAATAGAAATTA
13740243 TGCAAGGCGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (28 bp):
TGTAACAAAATAGAAATTAGTCAGGGTG
Found at i:13740254 original size:28 final size:28
Alignment explanation
Indices: 13740140--13740261 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
13740130 AGTTATGACA
* *
13740140 TGTAATAAAATAGAAATTAGTCAGGGTG
1 TGTAACAAAATAGAAATTAGTCAAGGTG
*
13740168 TGTAACAAAATAGAAATTAGTCAGGGTG
1 TGTAACAAAATAGAAATTAGTCAAGGTG
13740196 TGTAACAAAATAGAAATTAGTC-AGTGTG
1 TGTAACAAAATAGAAATTAGTCAAG-GTG
*
13740224 TGTAACAAAATAGAAATTA-TGCAAGGCG
1 TGTAACAAAATAGAAATTAGT-CAAGGTG
*
13740252 TGTAATAAAA
1 TGTAACAAAA
13740262 GAAATATTTT
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
27 2 0.02
28 83 0.95
29 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (28 bp):
TGTAACAAAATAGAAATTAGTCAAGGTG
Found at i:13740255 original size:56 final size:56
Alignment explanation
Indices: 13740140--13740261 Score: 192
Period size: 56 Copynumber: 2.2 Consensus size: 56
13740130 AGTTATGACA
* *
13740140 TGTAATAAAATAGAAATTAGTCAGGGTGTGTAACAAAATAGAAATTAGTCAGGGTG
1 TGTAATAAAATAGAAATTAGTCAGGGTGTGTAACAAAATAGAAATTAGTCAAGGCG
* *
13740196 TGTAACAAAATAGAAATTAGTCAGTGTGTGTAACAAAATAGAAATTA-TGCAAGGCG
1 TGTAATAAAATAGAAATTAGTCAGGGTGTGTAACAAAATAGAAATTAGT-CAAGGCG
13740252 TGTAATAAAA
1 TGTAATAAAA
13740262 GAAATATTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 1 0.02
56 59 0.98
ACGTcount: A:0.45, C:0.07, G:0.22, T:0.26
Consensus pattern (56 bp):
TGTAATAAAATAGAAATTAGTCAGGGTGTGTAACAAAATAGAAATTAGTCAAGGCG
Found at i:13740396 original size:405 final size:405
Alignment explanation
Indices: 13739655--13740444 Score: 1047
Period size: 405 Copynumber: 2.0 Consensus size: 405
13739645 GTGTAACATT
* **
13739655 GTATTATTAAATGTATTGCATTCAGAATGTTATGAAATTTAAAAATAGTTTGTAAAAAAAATTGG
1 GTATTATTAAATGTATTACATTCAGAATGTTATGAAATTTAAAAATAGCGTGTAAAAAAAATTGG
* * *
13739720 ATTAAAGGTATGGCAAGTAAGAAAATAGAAATTAGTCAATGCGTATAAAAAGATAGAAATTAGTT
66 ATTAAAGGTATGACAAGTAAGAAAATAGAAATTAGTCAAGGCGTATAAAAAGATAGAAATTAGTC
* *
13739785 AGGGCGTGTAACAAAATAGAAATTATATAGGATGTGCAACAAAAGAGAGATTATACAGGACGTGT
131 AGGGCGTGTAACAAAATAGAAATTATACAGGATGTGCAACAAAAGAGAAATTATACAGGACGTGT
*
13739850 AACAAAAGAAATATGTTAGTAAATATCGTGGAGTTTCTCTAATTAATTGTTCAATGTGTGTAGCT
196 AACAAAAGAAATATGTTAGTAAATATCGTGGAGTTTCTCTAATTAACTGTTCAATGTGTGTAGCT
*
13739915 TACATGTGCAAGACTGTATTCTAATGCAAATGGATTTCAAAGAGTACGAAACTGTTGAGGTGAAA
261 TACATGTGCAAGACTATATTCTAATGCAAATGGATTTCAAAGAGTACGAAACTGTTGAGGTGAAA
*
13739980 TAAAAGGAGGAACCGGTCGTAGTGAGTCCAACAGAGGAAGAGGTGAAAGCAGATATCCTTTAGCC
326 TAAAAGGAGGAACCGATCGTAGTGAGTCCAACAGAGGAAGAGGTGAAAGCAGATATCCTTTAGCC
13740045 ACTGCGTGTAATAGC
391 ACTGCGTGTAATAGC
* * *
13740060 GTATTATTAAATGTATTACGTTCAGAATGTTATGAAATTTAGAAATAGCGTGTAACAAAAATTGG
1 GTATTATTAAATGTATTACATTCAGAATGTTATGAAATTTAAAAATAGCGTGTAAAAAAAATTGG
* * * * * *
13740125 ATTAAAGTTATGACATGTAATAAAATAGAAATTAGTCAGGGTGTGTAACAAA-ATAGAAATTAGT
66 ATTAAAGGTATGACAAGTAAGAAAATAGAAATTAGTCAAGGCGTATAA-AAAGATAGAAATTAGT
* * * *
13740189 CAGGGTGTGTAACAAAATAGAAATTAGT-CAGTG-TGTGTAACAAAATAGAAATTATGCAAGG-C
130 CAGGGCGTGTAACAAAATAGAAATTA-TACAG-GATGTGCAACAAAAGAGAAATTATAC-AGGAC
* * * * * ** *
13740251 GTGTAATAAAAGAAATATTTTTGTAAATGT-GATGGAGCTTT-TTTGGTTAACTGTTCAGTGTGT
192 GTGTAACAAAAGAAATATGTTAGTAAATATCG-TGGAG-TTTCTCTAATTAACTGTTCAATGTGT
* * * * *
13740314 GTAGCTTACATGTGTAGGACTATATTCTGATGTAAATGGATTT-AAGAGAGTATGAGAA-TGTTG
255 GTAGCTTACATGTGCAAGACTATATTCTAATGCAAATGGATTTCAA-AGAGTACGA-AACTGTTG
* * * * ** * *
13740377 AGGTGAAATAAATGGAGGAACCGATTGTGGTGAGTCTAATGGAGGAAGAGGTTAAAGCTGATATC
318 AGGTGAAATAAAAGGAGGAACCGATCGTAGTGAGTCCAACAGAGGAAGAGGTGAAAGCAGATATC
13740442 CTT
383 CTT
13740445 GCTATTATAG
Statistics
Matches: 332, Mismatches: 45, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
404 3 0.01
405 316 0.95
406 13 0.04
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (405 bp):
GTATTATTAAATGTATTACATTCAGAATGTTATGAAATTTAAAAATAGCGTGTAAAAAAAATTGG
ATTAAAGGTATGACAAGTAAGAAAATAGAAATTAGTCAAGGCGTATAAAAAGATAGAAATTAGTC
AGGGCGTGTAACAAAATAGAAATTATACAGGATGTGCAACAAAAGAGAAATTATACAGGACGTGT
AACAAAAGAAATATGTTAGTAAATATCGTGGAGTTTCTCTAATTAACTGTTCAATGTGTGTAGCT
TACATGTGCAAGACTATATTCTAATGCAAATGGATTTCAAAGAGTACGAAACTGTTGAGGTGAAA
TAAAAGGAGGAACCGATCGTAGTGAGTCCAACAGAGGAAGAGGTGAAAGCAGATATCCTTTAGCC
ACTGCGTGTAATAGC
Found at i:13740782 original size:14 final size:14
Alignment explanation
Indices: 13740765--13740794 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13740755 GACTATTGAA
*
13740765 GGTTGAGGGTTTAG
1 GGTTGAAGGTTTAG
13740779 GGTTGAAGGTTTAG
1 GGTTGAAGGTTTAG
13740793 GG
1 GG
13740795 AAGATATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (14 bp):
GGTTGAAGGTTTAG
Found at i:13746195 original size:39 final size:39
Alignment explanation
Indices: 13746065--13746247 Score: 121
Period size: 39 Copynumber: 4.8 Consensus size: 39
13746055 TATAACTGTG
*
13746065 CGTGTGCGGTGTGGGA-ATGCACATGAC-A-G-TGCTA-GT
1 CGTGTGCGGTGTGGGAGA-GCACATGACGATGATG-TATGC
* * * * *
13746101 AGTGTGCAGTGTGGGAGAGCACACGCCAATGATGTATGC
1 CGTGTGCGGTGTGGGAGAGCACATGACGATGATGTATGC
* ** * *
13746140 CATGTGCAATGCGGGAGAGCACATGATGATGATGTATGC
1 CGTGTGCGGTGTGGGAGAGCACATGACGATGATGTATGC
* * * *
13746179 CGTGTGTGGTGTGGGAGTGCACATGACGGTGATG-GTG-
1 CGTGTGCGGTGTGGGAGAGCACATGACGATGATGTATGC
* * * *
13746216 AG-GTGCGGTGTGGGAGTGCACTTGATGATGAT
1 CGTGTGCGGTGTGGGAGAGCACATGACGATGAT
13746248 ATTGTAATGT
Statistics
Matches: 115, Mismatches: 27, Indels: 10
0.76 0.18 0.07
Matches are distributed among these distances:
36 47 0.41
37 3 0.03
38 5 0.04
39 60 0.52
ACGTcount: A:0.21, C:0.14, G:0.40, T:0.25
Consensus pattern (39 bp):
CGTGTGCGGTGTGGGAGAGCACATGACGATGATGTATGC
Found at i:13748065 original size:29 final size:29
Alignment explanation
Indices: 13748033--13748123 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
13748023 TAGGCCGCGT
* * * *
13748033 GTGTAACTGAGAAAATATAGAAGGTTGGC
1 GTGTAATTGACAATATATATAAGGTTGGC
*
13748062 GTGTAATTGACAATATATATAAGGTTGGT
1 GTGTAATTGACAATATATATAAGGTTGGC
*
13748091 GTATAATTGACAATATATATAAGGTTGGC
1 GTGTAATTGACAATATATATAAGGTTGGC
13748120 GTGT
1 GTGT
13748124 CATGTAAGTG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.33
Consensus pattern (29 bp):
GTGTAATTGACAATATATATAAGGTTGGC
Found at i:13752158 original size:28 final size:28
Alignment explanation
Indices: 13752067--13752160 Score: 118
Period size: 29 Copynumber: 3.3 Consensus size: 28
13752057 ATGGCAGCTT
13752067 AACATATTTGTCTTAATTTAGAAAAGAA
1 AACATATTTGTCTTAATTTAGAAAAGAA
* *
13752095 AACATGTTTGGTCTTAATTTAGACAAGAA
1 AACATATTT-GTCTTAATTTAGAAAAGAA
* * *
13752124 AATATATTTGTCTTAATTTAAGATAAGCA
1 AACATATTTGTCTTAATTT-AGAAAAGAA
13752153 AA-ATATTT
1 AACATATTT
13752161 TTTATCTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 24 0.41
29 34 0.59
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (28 bp):
AACATATTTGTCTTAATTTAGAAAAGAA
Found at i:13752188 original size:57 final size:57
Alignment explanation
Indices: 13752070--13752200 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 57
13752060 GCAGCTTAAC
* *
13752070 ATATTTGTCTTAATTTAGAAAAGAAAACATGTTTGGTCTTAATTTAGACAAGAAAAT
1 ATATTTGTCTTAATTTAGAAAAGAAAACATGTTTGATCTTAATCTAGACAAGAAAAT
* * * * *
13752127 ATATTTGTCTTAATTTAAGATAAGCAAAATATTTTTTATCTTAATCTAGACAGGAAAAT
1 ATATTTGTCTTAATTT-AGAAAAG-AAAACATGTTTGATCTTAATCTAGACAAGAAAAT
* *
13752186 ATTTTTATCTTAATT
1 ATATTTGTCTTAATT
13752201 AAAGGCAAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 16 0.25
58 6 0.10
59 41 0.65
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (57 bp):
ATATTTGTCTTAATTTAGAAAAGAAAACATGTTTGATCTTAATCTAGACAAGAAAAT
Found at i:13752197 original size:28 final size:28
Alignment explanation
Indices: 13752077--13752200 Score: 113
Period size: 29 Copynumber: 4.3 Consensus size: 28
13752067 AACATATTTG
* * * **
13752077 TCTTAATTTAGAAAAGAAAACATGTTTGG
1 TCTTAATTTAGACAGGAAAATAT-TTTTA
* * *
13752106 TCTTAATTTAGACAAGAAAATATATTTG
1 TCTTAATTTAGACAGGAAAATATTTTTA
* *
13752134 TCTTAATTTAAGATAAGCAAAATATTTTTTA
1 TCTTAATTT-AGA-CAGGAAAATA-TTTTTA
*
13752165 TCTTAATCTAGACAGGAAAATATTTTTA
1 TCTTAATTTAGACAGGAAAATATTTTTA
13752193 TCTTAATT
1 TCTTAATT
13752201 AAAGGCAAGA
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
28 25 0.32
29 32 0.41
30 10 0.13
31 12 0.15
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (28 bp):
TCTTAATTTAGACAGGAAAATATTTTTA
Found at i:13754596 original size:38 final size:40
Alignment explanation
Indices: 13754553--13754655 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 40
13754543 ATAGTGCCTG
*
13754553 TGTGCACGATGTGGGGGGATGTACACGATGGCAC-TGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGCACAGGATA
* * * * *
13754591 TGTGCACGATGTGGGAGGATGCACATGATGGCGCAGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGCACAGGATA
*
13754631 TGTGGACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
13754656 TGAGCCGGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 30 0.56
39 2 0.04
40 22 0.41
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCACAGGATA
Found at i:13761079 original size:38 final size:40
Alignment explanation
Indices: 13761028--13761125 Score: 121
Period size: 38 Copynumber: 2.5 Consensus size: 40
13761018 AAAAGGGTAA
* * *
13761028 AATGTGGGGGGATGTACATGATGGCA-CTGAT-TGTGCAC
1 AATGTGGGAGGATGTACATGATGGCACCGGATATGTACAC
* *
13761066 AATGTGGGAGGATGCACATGATGGCACCGGCTATGTACAC
1 AATGTGGGAGGATGTACATGATGGCACCGGATATGTACAC
*
13761106 GATGTGGGA-GATGTACATGA
1 AATGTGGGAGGATGTACATGA
13761126 GCCAGGTGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 24 0.47
39 13 0.25
40 14 0.27
ACGTcount: A:0.27, C:0.14, G:0.36, T:0.23
Consensus pattern (40 bp):
AATGTGGGAGGATGTACATGATGGCACCGGATATGTACAC
Found at i:13762542 original size:149 final size:146
Alignment explanation
Indices: 13762368--13762662 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 146
13762358 ATGGAGAAAT
13762368 AAGTTGAAAGCCAAAAGGAAAAAGGTAATTAGATAATATTTGGTCAATTTAACTTTTTTTATGAT
1 AAGTTGAAAGCCAAAAGGAAAAAGGTAATTAGATAATATTTGGTCAATTTAACTTTTTTTATGAT
13762433 TATTAATTTTTTTAAGAAAAAGAGTTTTTCTTATATTAAAATTTGGTTATTATAAAAAAATATAT
66 TATTAATTTTTTTAAGAAAAAGAGTTTTTCTTATATTAAAATTTGGTTATTATAAAAAAATATA-
13762498 TTTTTTATTTAAAAAAAA
130 TTTTTTA-TTAAAAAAAA
13762516 ANAGTTGAAAGCCAAAAGGAAAAAGGTAATTAGATAATATTTGGTCAATTTAACTTTTTTTATGA
1 A-AGTTGAAAGCCAAAAGGAAAAAGGTAATTAGATAATATTTGGTCAATTTAACTTTTTTTATGA
13762581 TTATTAATTTTTTTAAGAAAAAGAGTTTTTCTTATATTAAAATTTGGTTATTATAAAAAAATATA
65 TTATTAATTTTTTTAAGAAAAAGAGTTTTTCTTATATTAAAATTTGGTTATTATAAAAAAATATA
13762646 TTTTTTATTAAAAAAAA
130 TTTTTTATTAAAAAAAA
13762663 GAAGGGAGGG
Statistics
Matches: 146, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
147 10 0.07
148 8 0.05
149 128 0.88
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.42
Consensus pattern (146 bp):
AAGTTGAAAGCCAAAAGGAAAAAGGTAATTAGATAATATTTGGTCAATTTAACTTTTTTTATGAT
TATTAATTTTTTTAAGAAAAAGAGTTTTTCTTATATTAAAATTTGGTTATTATAAAAAAATATAT
TTTTTATTAAAAAAAA
Found at i:13763178 original size:3 final size:3
Alignment explanation
Indices: 13763170--13763209 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
13763160 TTAATGTGGG
* *
13763170 TTA TTA TTA TTA TTA TTA TTG TTG TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13763210 ATGTATCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13779576 original size:5 final size:5
Alignment explanation
Indices: 13779542--13779592 Score: 66
Period size: 5 Copynumber: 10.2 Consensus size: 5
13779532 CATTCTATTC
* * * *
13779542 AACTT AACCT AACTT AATTT AATTT AACTT GACTT AACTT AACTT AACTT
1 AACTT AACTT AACTT AACTT AACTT AACTT AACTT AACTT AACTT AACTT
13779592 A
1 A
13779593 GGCCATACTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (5 bp):
AACTT
Found at i:13784836 original size:133 final size:132
Alignment explanation
Indices: 13784655--13784919 Score: 435
Period size: 133 Copynumber: 2.0 Consensus size: 132
13784645 AAATTTAAGA
** *
13784655 CTAGGGGACAAAATTGATGTTAAAGGTAAAACGGTAATTTCACCTTTTGTCATTGGATGTTTATG
1 CTAGGGGACAAAATTGATCATAAAGGTAAAACAGTAATTTCACCTTTTGTCATTGGATGTTTATG
13784720 AGGGTTAACAATAAAAGATTTGCAATTGGACAACTAGTAATTAATATCAAGTATTGAATTGTTTC
66 AGGGTTAACAATAAAAGATTTGCAATTGGACAACTAGTAATTAATATCAAGTATTGAATTGTTTC
13784785 TT
131 TT
13784787 NCTAGGGGACAAAATTTGA-CATAATAGGTAAAACAGTAA-TTCACCTTTTGTCATTGGATGTTT
1 -CTAGGGGACAAAA-TTGATCATAA-AGGTAAAACAGTAATTTCACCTTTTGTCATTGGATGTTT
* * *
13784850 ATGAGGGTTCACAATATAAGGTTTGCAATTGGACAACTAGTAATTAATATCAAGTATTGAATTGT
63 ATGAGGGTTAACAATAAAAGATTTGCAATTGGACAACTAGTAATTAATATCAAGTATTGAATTGT
13784915 TTCTT
128 TTCTT
13784920 GTAATTATAG
Statistics
Matches: 124, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
133 107 0.86
134 17 0.14
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (132 bp):
CTAGGGGACAAAATTGATCATAAAGGTAAAACAGTAATTTCACCTTTTGTCATTGGATGTTTATG
AGGGTTAACAATAAAAGATTTGCAATTGGACAACTAGTAATTAATATCAAGTATTGAATTGTTTC
TT
Found at i:13785218 original size:57 final size:57
Alignment explanation
Indices: 13785152--13785289 Score: 154
Period size: 59 Copynumber: 2.4 Consensus size: 57
13785142 AGCTTTAACT
*
13785152 TGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATTTAGACAAAAAAATA
1 TGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATCTAGACAAAAAAATA
* * * * * * **
13785209 TGTTTGTCTTAATTTAAGATAAGAAAAATATTTTTTGTTTTAATCTAGATAAGGAAATA
1 TGTTTGTCTTAATTT-AGACAAG-AAAACATGTTTGGTCTTAATCTAGACAAAAAAATA
13785268 T-TTTGT-TTAAATTTAGACAAGA
1 TGTTTGTCTT-AATTTAGACAAGA
13785290 TAAAATATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
56 1 0.01
57 23 0.34
58 16 0.24
59 28 0.41
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (57 bp):
TGTTTGTCTTAATTTAGACAAGAAAACATGTTTGGTCTTAATCTAGACAAAAAAATA
Found at i:13785295 original size:29 final size:28
Alignment explanation
Indices: 13785154--13785300 Score: 147
Period size: 29 Copynumber: 5.1 Consensus size: 28
13785144 CTTTAACTTG
*
13785154 TTTGTCTTAATTTAGACAAGAAAACATGT
1 TTTGTCTTAATTTAGACAAGAAAA-ATAT
*
13785183 TTGGTCTTAATTTAGACAA-AAAAATAT
1 TTTGTCTTAATTTAGACAAGAAAAATAT
*
13785210 GTTTGTCTTAATTTAAGATAAGAAAAATATTT
1 -TTTGTCTTAATTT-AGACAAGAAAAATA--T
* * * *
13785242 TTTGTTTTAATCTAGATAAG-GAAATAT
1 TTTGTCTTAATTTAGACAAGAAAAATAT
13785269 TTTGT-TTAAATTTAGACAAGATAAAATAT
1 TTTGTCTT-AATTTAGACAAGA-AAAATAT
13785298 TTT
1 TTT
13785301 TATCTGAATT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
26 2 0.02
27 19 0.19
28 16 0.16
29 37 0.37
30 14 0.14
31 11 0.11
32 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAAATAT
Found at i:13786497 original size:19 final size:19
Alignment explanation
Indices: 13786470--13786507 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13786460 CCATTTGACT
13786470 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
13786489 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
13786508 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:13795126 original size:2 final size:2
Alignment explanation
Indices: 13795119--13795157 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13795109 TCTCTATGGC
13795119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13795158 CAAGCGTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13795368 original size:49 final size:49
Alignment explanation
Indices: 13795305--13795417 Score: 174
Period size: 49 Copynumber: 2.3 Consensus size: 49
13795295 CTCATATGCA
13795305 CTCCCACACCGCACATTGCTGGAATCA-CTCGTCATTACCGGTATGTGCC
1 CTCCCACACCGCACATTGCTGGAATCACCT-GTCATTACCGGTATGTGCC
* *
13795354 CTCCCACACTGCACATTGCTGGAATCACCTGTCATTACTGGTATGTGCC
1 CTCCCACACCGCACATTGCTGGAATCACCTGTCATTACCGGTATGTGCC
* *
13795403 CTCCCATATCGCACA
1 CTCCCACACCGCACA
13795418 CACTGGGTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
49 56 0.97
50 2 0.03
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (49 bp):
CTCCCACACCGCACATTGCTGGAATCACCTGTCATTACCGGTATGTGCC
Found at i:13795477 original size:2 final size:2
Alignment explanation
Indices: 13795458--13795496 Score: 53
Period size: 2 Copynumber: 19.0 Consensus size: 2
13795448 TTATCAATAC
13795458 AT AT CAT AT AT CAT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13795497 CAACATAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 1 0.03
2 29 0.85
3 4 0.12
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13796516 original size:26 final size:27
Alignment explanation
Indices: 13796487--13796537 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
13796477 TCGAGATGCA
* *
13796487 AAATGATCATT-TTGCTCTTTTCTTGG
1 AAATCATCATTATTGCTATTTTCTTGG
*
13796513 AAATCATCATTATTTCTATTTTCTT
1 AAATCATCATTATTGCTATTTTCTT
13796538 CATTTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.53
Consensus pattern (27 bp):
AAATCATCATTATTGCTATTTTCTTGG
Found at i:13799243 original size:35 final size:35
Alignment explanation
Indices: 13799215--13799435 Score: 216
Period size: 35 Copynumber: 6.3 Consensus size: 35
13799205 TTAATTATTT
13799215 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* * * *
13799250 AATTTAATTAATTAAGCCCAACAATTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *** *
13799285 AATTTTAATCAACTAGGTTTAATGACTTAATTAAAC
1 AA-TTTAATCAATTAGGCCCAATAACTTAATTAAAC
****
13799321 AAATTTAATCAATTAGGCCCAATAACTTAATTGTTT
1 -AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
* *
13799357 AATTTAATTAATTAGGCCCAATGA-TTCAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTT-AATTAAAC
* * *
13799392 AATTTAGTTAATTAGG--C-ACAACTTAATTAAAC
1 AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
13799424 AATTTTAATCAA
1 AA-TTTAATCAA
13799436 GTGCTTGAGA
Statistics
Matches: 148, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
32 12 0.08
33 10 0.07
34 2 0.01
35 74 0.50
36 48 0.32
37 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (35 bp):
AATTTAATCAATTAGGCCCAATAACTTAATTAAAC
Found at i:13814420 original size:12 final size:12
Alignment explanation
Indices: 13814403--13814431 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
13814393 AAATCGTAGG
13814403 AAAGTCATCTTA
1 AAAGTCATCTTA
13814415 AAAGTCATCTTA
1 AAAGTCATCTTA
13814427 AAAGT
1 AAAGT
13814432 AGCAACTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (12 bp):
AAAGTCATCTTA
Found at i:13814979 original size:2 final size:2
Alignment explanation
Indices: 13814972--13815001 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13814962 AACTTTCTTC
13814972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13815002 TAACCTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13827005 original size:35 final size:35
Alignment explanation
Indices: 13826959--13827028 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
13826949 TTGCTTGCTC
13826959 ATACTGATCCAGATATTTCCATGTTGCCATTCCTT
1 ATACTGATCCAGATATTTCCATGTTGCCATTCCTT
13826994 ATACTGATCCAGATATTTCCATGTTGCCATTCCTT
1 ATACTGATCCAGATATTTCCATGTTGCCATTCCTT
13827029 CCAGAATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (35 bp):
ATACTGATCCAGATATTTCCATGTTGCCATTCCTT
Found at i:13829757 original size:54 final size:54
Alignment explanation
Indices: 13829508--13829736 Score: 415
Period size: 54 Copynumber: 4.3 Consensus size: 54
13829498 TCTTATGCTT
*
13829508 GGTGTGTGCAAATACTAAGAGCAGGTTAT-ATTATGTTAATCGATCCTATGTTC
1 GGTGTGTGCAAATACTAAGAGCAGGTTATAATTATGTTTATCGATCCTATGTTC
*
13829561 GGTGTATGCAAATACTAAGAGCAGGTTATAATTATGTTTATCGATCCTATGTTC
1 GGTGTGTGCAAATACTAAGAGCAGGTTATAATTATGTTTATCGATCCTATGTTC
*
13829615 GGTGTGTGCAAATACTAAGAGCAGGTTATAATTATATTTATCGATCCTATGTTC
1 GGTGTGTGCAAATACTAAGAGCAGGTTATAATTATGTTTATCGATCCTATGTTC
*
13829669 GGTGTGTGCAAATACTAAGAGCAGGTTATAATTATGTTTATCGATCCAATGTTC
1 GGTGTGTGCAAATACTAAGAGCAGGTTATAATTATGTTTATCGATCCTATGTTC
13829723 GGTGTGTGCAAATA
1 GGTGTGTGCAAATA
13829737 TTTAGAGTAG
Statistics
Matches: 169, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
53 28 0.17
54 141 0.83
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (54 bp):
GGTGTGTGCAAATACTAAGAGCAGGTTATAATTATGTTTATCGATCCTATGTTC
Found at i:13831851 original size:35 final size:35
Alignment explanation
Indices: 13831811--13831944 Score: 124
Period size: 35 Copynumber: 3.8 Consensus size: 35
13831801 TTCCATATAG
* *
13831811 AGTAGTGTTTTACTTATTCTAATTGTTCTGCGTGA
1 AGTAGTGCTTCACTTATTCTAATTGTTCTGCGTGA
* * * * * *
13831846 CGTAGTGCTTCACTTGTTTTAGTTATTCTGCATGA
1 AGTAGTGCTTCACTTATTCTAATTGTTCTGCGTGA
* *
13831881 AGTAGCGCTTCACTTATTCTAATTGTTCTACGTGA
1 AGTAGTGCTTCACTTATTCTAATTGTTCTGCGTGA
* *** * *
13831916 AATAACACTTCACTTGTTTTAATTGTTCT
1 AGTAGTGCTTCACTTATTCTAATTGTTCT
13831945 CTATACAATA
Statistics
Matches: 78, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 78 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (35 bp):
AGTAGTGCTTCACTTATTCTAATTGTTCTGCGTGA
Found at i:13838142 original size:32 final size:31
Alignment explanation
Indices: 13838106--13838168 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 31
13838096 CCAAAAATAC
*
13838106 TCTTTACATAATTTAGTAAAATTTATACCAA
1 TCTTTACATAATTTAGAAAAATTTATACCAA
13838137 NTCTTTACATAATTTAGAAAAATTTATACCAA
1 -TCTTTACATAATTTAGAAAAATTTATACCAA
13838169 AAGACAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.40
Consensus pattern (31 bp):
TCTTTACATAATTTAGAAAAATTTATACCAA
Found at i:13839493 original size:12 final size:11
Alignment explanation
Indices: 13839452--13839499 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
13839442 TTTAAATATC
*
13839452 TTTAATTATTT
1 TTTATTTATTT
*
13839463 TCTATTATGATTT
1 TTTATT-T-ATTT
13839476 TTTATTTATTT
1 TTTATTTATTT
13839487 ATTTATTTATTT
1 -TTTATTTATTT
13839499 T
1 T
13839500 GATTTTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 9 0.29
12 13 0.42
13 9 0.29
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:13839915 original size:207 final size:208
Alignment explanation
Indices: 13839536--13839917 Score: 454
Period size: 207 Copynumber: 1.8 Consensus size: 208
13839526 ATAATTTATG
** *
13839536 TAAATCCTCCAATGATGAAACCTCAAGAAAACCAAAAAGTGGCCTTTTGAGAATTTTTAGATGAG
1 TAAATCCTCCAATGACAAAACCTCAAGAAAACCAAAAAGTGGCCTTTTGAGAATTTTAAGATGAG
* ** ***
13839601 AGAATTTTCCAAAATTTTACCGTAAGTGTTTGGGAGATTTTAGAAAATTTTCAATATCAAGAATT
66 AGAATTTTCCAAAATTTTACCATAAGCATTCAAGAGATTTTAGAAAATTTTCAATATCAAGAATT
** * ** * * *
13839666 TTTATTTATTTTGAGAAACTTTTACCATAAAATTAGGAAAAGAAATAAATAAAAGATAAAATTAT
131 TTTATTTATTTCAAAAAACTAATACAATAAAATCAAGAAAAGAAATAAATAAAAGATAAAATTAT
13839731 AGAATTAAATAAA
196 AGAATTAAATAAA
* *
13839744 TAAATTCTCCAATGACAAAATCTCAAGAAAACC-AAAAGTGG-CTTCTTCGA-AATTTCTAAG-T
1 TAAATCCTCCAATGACAAAACCTCAAGAAAACCAAAAAGTGGCCTT-TT-GAGAATTT-TAAGAT
* * * *
13839805 TAGAGAATTTTTCAAAATTTTACCATGAGCATTCAAGAGATTTT-GAGAAATTTTCAATATTAAG
63 GAGAGAATTTTCCAAAATTTTACCATAAGCATTCAAGAGATTTTAGA-AAATTTTCAATATCAAG
13839869 AATTTTTATTTATTTCAAAAAACTAATA-AATTAGAAA-CAAGAAAAGAAA
127 AATTTTTATTTATTTCAAAAAACTAATACAA-TA-AAATCAAGAAAAGAAA
13839918 ATAGAATTAA
Statistics
Matches: 145, Mismatches: 23, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
206 6 0.04
207 102 0.70
208 37 0.26
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (208 bp):
TAAATCCTCCAATGACAAAACCTCAAGAAAACCAAAAAGTGGCCTTTTGAGAATTTTAAGATGAG
AGAATTTTCCAAAATTTTACCATAAGCATTCAAGAGATTTTAGAAAATTTTCAATATCAAGAATT
TTTATTTATTTCAAAAAACTAATACAATAAAATCAAGAAAAGAAATAAATAAAAGATAAAATTAT
AGAATTAAATAAA
Found at i:13840909 original size:33 final size:34
Alignment explanation
Indices: 13840854--13840918 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
13840844 TTAATATGAT
* **
13840854 TATTTATTTTAATTTATAGAATATTAATAATTTA
1 TATTTAATTTAAAATATAGAATATTAATAATTTA
*
13840888 TATTTAATTTAAAATAT-GAATATTCATAATT
1 TATTTAATTTAAAATATAGAATATTAATAATT
13840919 AAAACATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (34 bp):
TATTTAATTTAAAATATAGAATATTAATAATTTA
Found at i:13861836 original size:13 final size:13
Alignment explanation
Indices: 13861818--13861842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13861808 NNNNAGAAAA
13861818 TTTATAAAATCAT
1 TTTATAAAATCAT
13861831 TTTATAAAATCA
1 TTTATAAAATCA
13861843 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:13862858 original size:18 final size:18
Alignment explanation
Indices: 13862835--13862869 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13862825 AATAATATAA
*
13862835 TTTTATTTTATTCATTTT
1 TTTTATTTTATTAATTTT
13862853 TTTTATTTTATTAATTT
1 TTTTATTTTATTAATTT
13862870 CTTAAATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTATTTTATTAATTTT
Found at i:13863207 original size:19 final size:19
Alignment explanation
Indices: 13863183--13863220 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13863173 CTGCCAAACC
*
13863183 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
13863202 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13863221 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13882339 original size:62 final size:62
Alignment explanation
Indices: 13882273--13882513 Score: 254
Period size: 62 Copynumber: 3.9 Consensus size: 62
13882263 TTACCGCGAT
* * * *
13882273 GAAAATCAATTTGACTGTGGCGAGAACAGTAACTCCTAAGGCAGAAAGTATCTCATTGTGGC
1 GAAAATCAATTTGGCTGCGACGAGAACAGTAACTCCTAAGGCAGAAAGTTTCTCATTGTGGC
* * * * *** *
13882335 GAAAATCAATTTGGCTGCGACGAGAATAGTAACTCCTAAGGAAAAAATTTTCTCATCACGGG
1 GAAAATCAATTTGGCTGCGACGAGAACAGTAACTCCTAAGGCAGAAAGTTTCTCATTGTGGC
* * * ** *
13882397 GAAAATCAATTTGGCTGCGATGAGAA-AGTAACTCCCAAGGTAGAAAGTTTCTTGTCG-GAGC
1 GAAAATCAATTTGGCTGCGACGAGAACAGTAACTCCTAAGGCAGAAAGTTTCTCATTGTG-GC
* * *
13882458 GAAAATCAATTTGGTTGC-AGCGAGAACAGTAACTCCTAATGCAGAGAGTTTCTCAT
1 GAAAATCAATTTGGCTGCGA-CGAGAACAGTAACTCCTAAGGCAGAAAGTTTCTCAT
13882514 AACTCTTAAT
Statistics
Matches: 147, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
60 2 0.01
61 47 0.32
62 98 0.67
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (62 bp):
GAAAATCAATTTGGCTGCGACGAGAACAGTAACTCCTAAGGCAGAAAGTTTCTCATTGTGGC
Found at i:13882482 original size:123 final size:124
Alignment explanation
Indices: 13882273--13882496 Score: 305
Period size: 123 Copynumber: 1.8 Consensus size: 124
13882263 TTACCGCGAT
* * *
13882273 GAAAATCAATTTGACTGTGGCGAGAACAGTAACTCCTAAGGCAGAAAGTATCTCATTGTGGCGAA
1 GAAAATCAATTTGACTGCGACGAGAACAGTAACTCCCAAGGCAGAAAGTATCTCATTGTGGCGAA
*
13882338 AATCAATTTGGCTGCGACGAGAATAGTAACTCCTAAGGAAAAAATTTTCTCATCACGGG
66 AATCAATTTGGCTGCGACGAGAACAGTAACTCCTAAGGAAAAAATTTTCTCATCACGGG
* * *
13882397 GAAAATCAATTTGGCTGCGATGAGAA-AGTAACTCCCAAGGTAGAAAGT-T-TC-TTGTCGGAGC
1 GAAAATCAATTTGACTGCGACGAGAACAGTAACTCCCAAGGCAGAAAGTATCTCATTGT--G-GC
*
13882458 GAAAATCAATTTGGTTGC-AGCGAGAACAGTAACTCCTAA
63 GAAAATCAATTTGGCTGCGA-CGAGAACAGTAACTCCTAA
13882497 TGCAGAGAGT
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
120 4 0.05
121 2 0.02
122 3 0.03
123 57 0.65
124 22 0.25
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (124 bp):
GAAAATCAATTTGACTGCGACGAGAACAGTAACTCCCAAGGCAGAAAGTATCTCATTGTGGCGAA
AATCAATTTGGCTGCGACGAGAACAGTAACTCCTAAGGAAAAAATTTTCTCATCACGGG
Found at i:13882517 original size:26 final size:26
Alignment explanation
Indices: 13882487--13882537 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
13882477 GCGAGAACAG
*
13882487 TAACTCCTAATGCAGAGAGTTTCTCA
1 TAACTCCTAATGCAGAAAGTTTCTCA
*
13882513 TAACTCTTAATGCAGAAAGTTTCTC
1 TAACTCCTAATGCAGAAAGTTTCTC
13882538 GTCGTGGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (26 bp):
TAACTCCTAATGCAGAAAGTTTCTCA
Found at i:13882574 original size:88 final size:88
Alignment explanation
Indices: 13882438--13882600 Score: 238
Period size: 88 Copynumber: 1.9 Consensus size: 88
13882428 CTCCCAAGGT
* * *
13882438 AGAAAGTTTCTTGTCGGAGCGAAAATCAATTTGGTTGCAGCGAGAACAGTAACTCCTAATGCAGA
1 AGAAAGTTTCTCGTCGGAGCGAAAATCAATTTGGCTGCAGCGAGAACAGTAACTCCTAAGGCAGA
*
13882503 GAGTTTCTCATAACTCTTAATGC
66 AAGTTTCTCATAACTCTTAATGC
* * * *
13882526 AGAAAGTTTCTCGTCGTG-GTGAAAATTAATTTGGCTGCGGTGAGAACAGTAACTCCTAAGGCAG
1 AGAAAGTTTCTCGTCG-GAGCGAAAATCAATTTGGCTGCAGCGAGAACAGTAACTCCTAAGGCAG
13882590 AAAGTTTCTCA
65 AAAGTTTCTCA
13882601 CCGTGGCGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
88 65 0.98
89 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.28
Consensus pattern (88 bp):
AGAAAGTTTCTCGTCGGAGCGAAAATCAATTTGGCTGCAGCGAGAACAGTAACTCCTAAGGCAGA
AAGTTTCTCATAACTCTTAATGC
Found at i:13882612 original size:62 final size:62
Alignment explanation
Indices: 13882513--13882684 Score: 191
Period size: 62 Copynumber: 2.8 Consensus size: 62
13882503 GAGTTTCTCA
* * ** * * * * *
13882513 TAACTCTTAATGCAGAAAGTTTCTCGTCGTGGTGAAAATTAATTTGGCTGCGGTGAGAACAG
1 TAACTCATAAGGCAGAAAGTTTCTCACCGTGGCGAAAATCAATTTGGCAGCGATAAGAACAG
*
13882575 TAACTCCTAAGGCAGAAAGTTTCTCACCGTGGCGAAAATCAATTTGGCAGCGATAAGAACAG
1 TAACTCATAAGGCAGAAAGTTTCTCACCGTGGCGAAAATCAATTTGGCAGCGATAAGAACAG
* * *** **
13882637 TAACTCATAAGGAAAAAAGTTTCTCGTTGTGGAAAAAATCAATTTGGC
1 TAACTCATAAGGCAGAAAGTTTCTCACCGTGGCGAAAATCAATTTGGC
13882685 TGTGACGAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 93 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (62 bp):
TAACTCATAAGGCAGAAAGTTTCTCACCGTGGCGAAAATCAATTTGGCAGCGATAAGAACAG
Found at i:13884380 original size:38 final size:38
Alignment explanation
Indices: 13884318--13884442 Score: 175
Period size: 38 Copynumber: 3.4 Consensus size: 38
13884308 TGATGTGGGT
13884318 GGGAGTG--CATG-TGATGATATTGAAATGTGCGAGTA
1 GGGAGTGCACATGATGATGATATTGAAATGTGCGAGTA
13884353 GGGAGTGCACATGATGATGATATTGAAATGTGCGAGTA
1 GGGAGTGCACATGATGATGATATTGAAATGTGCGAGTA
* * *** *
13884391 AGGAATGCACATGATGATGATATTGCCTTGTGCGTGTA
1 GGGAGTGCACATGATGATGATATTGAAATGTGCGAGTA
13884429 GGGAGTGCACATGA
1 GGGAGTGCACATGA
13884443 GCTGAGTGTG
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
35 7 0.09
37 4 0.05
38 68 0.86
ACGTcount: A:0.29, C:0.10, G:0.34, T:0.27
Consensus pattern (38 bp):
GGGAGTGCACATGATGATGATATTGAAATGTGCGAGTA
Found at i:13887807 original size:38 final size:38
Alignment explanation
Indices: 13887747--13887864 Score: 155
Period size: 38 Copynumber: 3.1 Consensus size: 38
13887737 CTGACTCAGC
* * * ***
13887747 TCATGTGCACTCCTTACACGCACAAGGCAATATCATCA
1 TCATGTGCTCTCCCTACTCGCACATTTCAATATCATCA
*
13887785 TCATGTGCTCTCCCTACTCGCACATTTCCATATCATCA
1 TCATGTGCTCTCCCTACTCGCACATTTCAATATCATCA
* *
13887823 TCATGTGCTCTCGCTACTTGCACATTTCAATATCATCA
1 TCATGTGCTCTCCCTACTCGCACATTTCAATATCATCA
13887861 TCAT
1 TCAT
13887865 CATCATCATT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 70 1.00
ACGTcount: A:0.25, C:0.32, G:0.10, T:0.32
Consensus pattern (38 bp):
TCATGTGCTCTCCCTACTCGCACATTTCAATATCATCA
Found at i:13893285 original size:31 final size:29
Alignment explanation
Indices: 13893218--13893274 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
13893208 AAATATTTAT
13893218 AATATCCACAATAGCTAAACAAGATATAC
1 AATATCCACAATAGCTAAACAAGATATAC
* *
13893247 AATATCCACAGTAGCTAAGCAAGATATA
1 AATATCCACAATAGCTAAACAAGATATA
13893275 TTGAATATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.21
Consensus pattern (29 bp):
AATATCCACAATAGCTAAACAAGATATAC
Found at i:13895394 original size:423 final size:420
Alignment explanation
Indices: 13894610--13895452 Score: 1659
Period size: 423 Copynumber: 2.0 Consensus size: 420
13894600 AAGACTTTGG
13894610 ATAAGTCTGAGAATTTTATCTAAGCTATGAATATGTGGGACAAGTATATGGTGAAAATTTGGAAA
1 ATAAGTCTGAGAATTTTATCTAAGCTATGAATATGTGGGACAAGTATATGGTGAAAATTTGGAAA
13894675 CAAATGGATGGCTAGAATTTAAGCAATTAATAAAACAAAAAAAAATGAATAAAATAATATTATAA
66 CAAATGGATGGCTAGAATTTAAGCAATTAATAAAACAAAAAAAAATGAATAAAATAATATTATAA
13894740 TATTTTAAAGGAAAAGTCAGCCATTTAAATCCCATTTTAAGTGATGGCCGGCCATAAGGGAAGAA
131 TATTTTAAAGGAAAAGTCAGCCATTTAAATCCCATTTTAAGTGATGGCCGGCCATAAGGGAAGAA
13894805 CAAGAGAGAAAATAGAGAGGAAAGGAAGAAAAGAGAAAAACAAAGGAAAACTAGAAAATTCAAAA
196 CAAGAGAGAAAATAGAGAGGAAAGGAAGAAAAGAGAAAAACAAAGGAAAACTAGAAAATTCAAAA
13894870 GGAAAATCGCGTTTTTCGCCCGTTTACGCATCTAACGGTAAGAGTTTTTGATTTTAGCTTGATTT
261 GGAAAATCGCGTTTTTCGCCCGTTTACGCATCTAACGGTAAGAGTTTTTGATTTTAGCTTGATTT
13894935 TTACCTTTTCTATGCCTTTATTTCCATTTAGCATGCTTGAGGAGAGAGATCAAAGAGTGACACCA
326 TTACCTTTTCTATGCCTTTATTTCCATTTAGCATGCTTGAGGAGAGAGATCAAAGAGTGACACCA
13895000 TGTGCTGGCCGAAATTCTAGGGGAGGAATT
391 TGTGCTGGCCGAAATTCTAGGGGAGGAATT
13895030 NATAAGTCTGAGAATTTTATCTAAGCTATGAATATGTGGGACAAGTATATGGTGAAAATTTGGAA
1 -ATAAGTCTGAGAATTTTATCTAAGCTATGAATATGTGGGACAAGTATATGGTGAAAATTTGGAA
13895095 ACAAATGGATGGCTAGAATTTAAGCAATTAATAAAAACAAAAAAAAAATGAATAAAATAATATTA
65 ACAAATGGATGGCTAGAATTTAAGCAATTAAT-AAAAC-AAAAAAAAATGAATAAAATAATATTA
13895160 TAATATTTTAAAGGAAAAGTCAGCCATTTAAATCCCATTTTAAGTGATGGCCGGCCATAAGGGAA
128 TAATATTTTAAAGGAAAAGTCAGCCATTTAAATCCCATTTTAAGTGATGGCCGGCCATAAGGGAA
13895225 GAACAAGAGAGAAAATAGAGAGGAAAGGAAGAAAAGAGAAAAACAAAGGAAAACTAGAAAATTCA
193 GAACAAGAGAGAAAATAGAGAGGAAAGGAAGAAAAGAGAAAAACAAAGGAAAACTAGAAAATTCA
13895290 AAAGGAAAATCGCGTTTTTCGCCCGTTTACGCATCTAACGGTAAGAGTTTTTGATTTTAGCTTGA
258 AAAGGAAAATCGCGTTTTTCGCCCGTTTACGCATCTAACGGTAAGAGTTTTTGATTTTAGCTTGA
13895355 TTTTTACCTTTTCTATGCCTTTATTTCCATTTAGCATGCTTGAGGAGAGAGATCAAAGAGTGACA
323 TTTTTACCTTTTCTATGCCTTTATTTCCATTTAGCATGCTTGAGGAGAGAGATCAAAGAGTGACA
13895420 CCATGTGCTGGCCGAAATTCTAGGGGAGGAATT
388 CCATGTGCTGGCCGAAATTCTAGGGGAGGAATT
13895453 TTGGAATTTT
Statistics
Matches: 420, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
421 96 0.23
422 5 0.01
423 319 0.76
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (420 bp):
ATAAGTCTGAGAATTTTATCTAAGCTATGAATATGTGGGACAAGTATATGGTGAAAATTTGGAAA
CAAATGGATGGCTAGAATTTAAGCAATTAATAAAACAAAAAAAAATGAATAAAATAATATTATAA
TATTTTAAAGGAAAAGTCAGCCATTTAAATCCCATTTTAAGTGATGGCCGGCCATAAGGGAAGAA
CAAGAGAGAAAATAGAGAGGAAAGGAAGAAAAGAGAAAAACAAAGGAAAACTAGAAAATTCAAAA
GGAAAATCGCGTTTTTCGCCCGTTTACGCATCTAACGGTAAGAGTTTTTGATTTTAGCTTGATTT
TTACCTTTTCTATGCCTTTATTTCCATTTAGCATGCTTGAGGAGAGAGATCAAAGAGTGACACCA
TGTGCTGGCCGAAATTCTAGGGGAGGAATT
Found at i:13897766 original size:19 final size:19
Alignment explanation
Indices: 13897722--13897758 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13897712 CCATTTGACT
*
13897722 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
13897741 TATTAGAGTATGATTTGA
1 TATTAGAGTATGATTTGA
13897759 AGTTTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:13897855 original size:27 final size:27
Alignment explanation
Indices: 13897804--13897857 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
13897794 TTGGAGTATA
13897804 AGGGCGAAATGGTAATTTTGCCACCCCG
1 AGGGCGAAATGGTAATTTT-CCACCCCG
13897832 AGGGC-AAATCGGTAAATTTT-CACCCC
1 AGGGCGAAAT-GGT-AATTTTCCACCCC
13897858 CTACACTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 10 0.42
28 8 0.33
29 6 0.25
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (27 bp):
AGGGCGAAATGGTAATTTTCCACCCCG
Found at i:13901530 original size:35 final size:35
Alignment explanation
Indices: 13901482--13901729 Score: 225
Period size: 35 Copynumber: 7.1 Consensus size: 35
13901472 TTAATTTTTT
* ** * *
13901482 AATTTAATCAATTAGGCTTAATAAATTAAATAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* * *
13901517 AATTTAATTAATTAAGCCCAACAATTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* * *
13901552 AATTTTAATCAATTAGGCTCAATGACTTAATTAAAC
1 AA-TTTAATTAATTAGGCCCAATAACTTAATTAAAC
* * * * ****
13901588 AAATTTAATCAATTAAGCCTAACAACTTAATTGTTT
1 -AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
*
13901624 AATTTAATTAATTAGGCCCAATGACTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
* * * *
13901659 AATTTAATTAATTA-GTCCAATGATTTAATTAAAT
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
*
13901693 AATTTAATTAATTAGG--C-ACAACTTAATTAAAC
1 AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
13901725 AATTT
1 AATTT
13901730 TAATCAAGTG
Statistics
Matches: 172, Mismatches: 38, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
32 16 0.09
33 1 0.01
34 31 0.18
35 71 0.41
36 51 0.30
37 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (35 bp):
AATTTAATTAATTAGGCCCAATAACTTAATTAAAC
Found at i:13901559 original size:71 final size:70
Alignment explanation
Indices: 13901481--13901729 Score: 290
Period size: 71 Copynumber: 3.6 Consensus size: 70
13901471 CTTAATTTTT
* * * *
13901481 TAATTTAATCAATTAGGCTTAATAAATTAAATAAACAATTTAATTAATTAAGCCCAACAATTTAA
1 TAATTTAATCAATTAGGCTCAATGACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAA
13901546 TTAAA
66 TTAAA
* * * *
13901551 CAATTTTAATCAATTAGGCTCAATGACTTAATTAAACAAATTTAATCAATTAAGCCTAACAACTT
1 TAA-TTTAATCAATTAGGCTCAATGACTTAATTAAAC-AATTTAATTAATTAAGCCCAACAATTT
***
13901616 AATTGTT
64 AATTAAA
* * * **
13901623 TAATTTAATTAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATT-AGTCCAATGATTTAA
1 TAATTTAATCAATTAGGCTCAATGACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAA
13901687 TTAAA
66 TTAAA
* *
13901692 TAATTTAATTAATTAGGCAC-A--ACTTAATTAAACAATTT
1 TAATTTAATCAATTAGGCTCAATGACTTAATTAAACAATTT
13901730 TAATCAAGTG
Statistics
Matches: 153, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
66 17 0.11
68 1 0.01
69 31 0.20
70 14 0.09
71 60 0.39
72 30 0.20
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (70 bp):
TAATTTAATCAATTAGGCTCAATGACTTAATTAAACAATTTAATTAATTAAGCCCAACAATTTAA
TTAAA
Found at i:13901625 original size:142 final size:137
Alignment explanation
Indices: 13901469--13901736 Score: 365
Period size: 142 Copynumber: 1.9 Consensus size: 137
13901459 AAGCCCAGTT
* **
13901469 AACTTAATTTTTTAATTTAATCAATTAGGCTTAATAAATTAAATAAACAATTTAATTAATTAAGC
1 AACTTAATTGTTTAATTTAATCAATTAGGCCCAATAAATTAAATAAACAATTTAATTAATT-AGC
*
13901534 CCAACAATTTAATTAAACAATTTTAATCAATTAGGCTCAATGACTTAATTAAACAAATTTAATCA
65 CCAACAATTTAATTAAACAA-TTTAATCAATTAGGCAC-A--ACTTAATTAAACAAATTTAATCA
13901599 ATTAAGCCTAAC
126 ATTAAGCCTAAC
* * * * *
13901611 AACTTAATTGTTTAATTTAATTAATTAGGCCCAATGACTTAATTAAACAATTTAATTAATTAGTC
1 AACTTAATTGTTTAATTTAATCAATTAGGCCCAATAAATTAAATAAACAATTTAATTAATTAGCC
** * * *
13901676 CAATGATTTAATTAAATAATTTAATTAATTAGGCACAACTTAATTAAACAATTTTAATCAA
66 CAACAATTTAATTAAACAATTTAATCAATTAGGCACAACTTAATTAAACAAATTTAATCAA
13901737 GTGCTTAAGA
Statistics
Matches: 112, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
137 23 0.21
139 1 0.01
140 15 0.13
141 19 0.17
142 54 0.48
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.38
Consensus pattern (137 bp):
AACTTAATTGTTTAATTTAATCAATTAGGCCCAATAAATTAAATAAACAATTTAATTAATTAGCC
CAACAATTTAATTAAACAATTTAATCAATTAGGCACAACTTAATTAAACAAATTTAATCAATTAA
GCCTAAC
Found at i:13903292 original size:37 final size:37
Alignment explanation
Indices: 13903209--13903457 Score: 312
Period size: 37 Copynumber: 6.9 Consensus size: 37
13903199 TTTACTCAGC
***
13903209 TCATGTGCACTCCCTACACGCACAAGGC-A-ATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
* * *
13903244 TCATGTTCACTCCCTACTCACACATTTCAATATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
*
13903281 TCATGTGCACTCCCTACACACACATTTC-A-ATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
* * *
13903316 TCATGTGCACTCCCTACTCGCAAATTTCAATACATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
13903353 TCATGTGCACTCCCTACACGCACATTTC-A-ATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
*** ** *
13903388 TCATGTGCACTTTGTACTTGTACATTTCAATATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
13903425 TCATGTGCACTCCCTACACGCACATTTCAATAT
1 TCATGTGCACTCCCTACACGCACATTTCAATAT
13903458 CATGATACGC
Statistics
Matches: 181, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
35 80 0.44
36 5 0.03
37 96 0.53
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (37 bp):
TCATGTGCACTCCCTACACGCACATTTCAATATATCA
Found at i:13903327 original size:72 final size:72
Alignment explanation
Indices: 13903209--13903460 Score: 387
Period size: 72 Copynumber: 3.5 Consensus size: 72
13903199 TTTACTCAGC
*** * *
13903209 TCATGTGCACTCCCTACACGCACAAGGCAATATCATCATGTTCACTCCCTACTCACACATTTCAA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACTCCCTACTCGCACATTTCAA
13903274 TATATCA
66 TATATCA
* *
13903281 TCATGTGCACTCCCTACACACACATTTCAATATCATCATGTGCACTCCCTACTCGCAAATTTCAA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACTCCCTACTCGCACATTTCAA
*
13903346 TACATCA
66 TATATCA
*** * *
13903353 TCATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACTTTGTACTTGTACATTTCAA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACTCCCTACTCGCACATTTCAA
13903418 TATATCA
66 TATATCA
13903425 TCATGTGCACTCCCTACACGCACATTTCAATATCAT
1 TCATGTGCACTCCCTACACGCACATTTCAATATCAT
13903461 GATACGCACG
Statistics
Matches: 164, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 164 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (72 bp):
TCATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACTCCCTACTCGCACATTTCAA
TATATCA
Found at i:13904926 original size:19 final size:19
Alignment explanation
Indices: 13904882--13904919 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13904872 CCATTTGACT
*
13904882 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
13904901 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
13904920 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:13904996 original size:28 final size:28
Alignment explanation
Indices: 13904963--13905022 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
13904953 ATTTAGAGTA
*
13904963 TAGGGGTAAAATAGTAATTTTGTCACC-C
1 TAGGGGCAAAATAGTAATTTT-TCACCAC
*
13904991 TAGGGGCAAAATTGTAATTTTTCACCAC
1 TAGGGGCAAAATAGTAATTTTTCACCAC
13905019 TAGG
1 TAGG
13905023 ACATTTGTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (28 bp):
TAGGGGCAAAATAGTAATTTTTCACCAC
Found at i:13919825 original size:19 final size:20
Alignment explanation
Indices: 13919801--13919838 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13919791 TGGCAAGGTG
13919801 AAATGGT-ATGGGAGCATGA
1 AAATGGTGATGGGAGCATGA
*
13919820 AAATGGTGTTGGGAGCATG
1 AAATGGTGATGGGAGCATG
13919839 GAAGAGAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.32, C:0.05, G:0.39, T:0.24
Consensus pattern (20 bp):
AAATGGTGATGGGAGCATGA
Found at i:13926246 original size:2 final size:2
Alignment explanation
Indices: 13926239--13926268 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13926229 GAGAACAAAG
*
13926239 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13926269 ACATCCCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13926877 original size:35 final size:35
Alignment explanation
Indices: 13926838--13927030 Score: 219
Period size: 35 Copynumber: 5.4 Consensus size: 35
13926828 CTTACTTCGC
* ***
13926838 TCATGTGCACTCCCTACACACACAAGGCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
*
13926873 TCATGTGCACTCCCTA-ATTGCACATTTCAATATATCA
1 TCATGTGCACTCCCTACA-CGCACATTTC-A-ATATCA
13926910 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
* ** *
13926945 TCATTTGCACAACCTACTCGCACA-TTCAAATATATCA
1 TCATGTGCACTCCCTACACGCACATTTC--A-ATATCA
13926982 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
**
13927017 TCATACGCACTCCC
1 TCATGTGCACTCCC
13927031 GCCCACATCA
Statistics
Matches: 134, Mismatches: 16, Indels: 16
0.81 0.10 0.10
Matches are distributed among these distances:
34 4 0.03
35 65 0.49
36 4 0.03
37 57 0.43
38 4 0.03
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACATTTCAATATCA
Found at i:13926917 original size:37 final size:37
Alignment explanation
Indices: 13926838--13927020 Score: 216
Period size: 37 Copynumber: 5.0 Consensus size: 37
13926828 CTTACTTCGC
* ***
13926838 TCATGTGCACTCCCTACACACACAAGGC-A-ATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
*
13926873 TCATGTGCACTCCCTA-ATTGCACATTTCAATATATCA
1 TCATGTGCACTCCCTACA-CGCACATTTCAATATATCA
13926910 TCATGTGCACTCCCTACACGCACATTTC-A-ATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATATCA
* ** *
13926945 TCATTTGCACAACCTACTCGCACA-TTCAAATATATCA
1 TCATGTGCACTCCCTACACGCACATTTC-AATATATCA
13926982 TCATGTGCACTCCCTACACGCACATTTCAATATCATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATAT-ATCA
13927020 T
1 T
13927021 ACGCACTCCC
Statistics
Matches: 125, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
34 4 0.03
35 47 0.38
36 3 0.02
37 62 0.50
38 9 0.07
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (37 bp):
TCATGTGCACTCCCTACACGCACATTTCAATATATCA
Found at i:13926968 original size:72 final size:72
Alignment explanation
Indices: 13926838--13927020 Score: 269
Period size: 72 Copynumber: 2.5 Consensus size: 72
13926828 CTTACTTCGC
* *** ** *
13926838 TCATGTGCACTCCCTACACACACAAGGCAATATCATCATGTGCACTCCCTAATTGCACATTTC-A
1 TCATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACAACCTAATCGCACA-TTCAA
13926902 ATATATCA
65 ATATATCA
* *
13926910 TCATGTGCACTCCCTACACGCACATTTCAATATCATCATTTGCACAACCTACTCGCACATTCAAA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACAACCTAATCGCACATTCAAA
13926975 TATATCA
66 TATATCA
13926982 TCATGTGCACTCCCTACACGCACATTTCAATATCATCAT
1 TCATGTGCACTCCCTACACGCACATTTCAATATCATCAT
13927021 ACGCACTCCC
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
71 3 0.03
72 98 0.97
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (72 bp):
TCATGTGCACTCCCTACACGCACATTTCAATATCATCATGTGCACAACCTAATCGCACATTCAAA
TATATCA
Found at i:13927599 original size:15 final size:15
Alignment explanation
Indices: 13927579--13927649 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
13927569 CAAAACTAAG
*
13927579 CTTTTTTCTTCCTTT
1 CTTTTTTCTTTCTTT
13927594 C-TTTTTCTTTC-TT
1 CTTTTTTCTTTCTTT
13927607 CTTTCTTTCTTTCTTTT
1 CTTT-TTTCTTTC-TTT
*
13927624 CTCCTTTT-TTTCTTT
1 CT-TTTTTCTTTCTTT
* *
13927639 CCTTTCTCTTT
1 CTTTTTTCTTT
13927650 TTTTTCAACT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 3 0.07
14 14 0.31
15 16 0.36
16 4 0.09
17 7 0.16
18 1 0.02
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
CTTTTTTCTTTCTTT
Found at i:13927604 original size:4 final size:4
Alignment explanation
Indices: 13927579--13927645 Score: 54
Period size: 4 Copynumber: 17.5 Consensus size: 4
13927569 CAAAACTAAG
*
13927579 CTTT -TTT CTTC CTTT C-TT -TTT CTTT C-TT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* *
13927623 -TCTC CTTT TTTT CTTT CCTTT CT
1 CT-TT CTTT CTTT CTTT -CTTT CT
13927646 CTTTTTTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
3 11 0.22
4 34 0.68
5 5 0.10
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
CTTT
Found at i:13927608 original size:21 final size:21
Alignment explanation
Indices: 13927579--13927618 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13927569 CAAAACTAAG
*
13927579 CTTTTTTCTTCCTTTCTTTTT
1 CTTTCTTCTTCCTTTCTTTTT
*
13927600 CTTTCTTCTTTCTTTCTTT
1 CTTTCTTCTTCCTTTCTTT
13927619 CTTTTCTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (21 bp):
CTTTCTTCTTCCTTTCTTTTT
Found at i:13927630 original size:20 final size:20
Alignment explanation
Indices: 13927582--13927646 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
13927572 AACTAAGCTT
13927582 TTTTCTTCCTTTC-TT-TTTC
1 TTTTC-TCCTTTCTTTCTTTC
*
13927601 -TTTCTTCTTTCTTTCTTTC
1 TTTTCTCCTTTCTTTCTTTC
*
13927620 TTTTCTCCTTTTTTTCTTTC
1 TTTTCTCCTTTCTTTCTTTC
*
13927640 CTTTCTC
1 TTTTCTC
13927647 TTTTTTTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
17 6 0.15
18 6 0.15
19 4 0.10
20 23 0.59
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTCCTTTCTTTCTTTC
Done.