Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 81 of 144
Found at i:18162787 original size:30 final size:30
Alignment explanation
Indices: 18162736--18162819 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
18162726 AATGGTGTTT
* * * *
18162736 TAACCCCCAAACTTTCTAAAAATTATTTTT
1 TAACCCCTAAACTTTCCAAAAATTATATTC
* * *
18162766 TGACCCTTAAATTTTCCAAAAATTATATTC
1 TAACCCCTAAACTTTCCAAAAATTATATTC
18162796 TAACCCCTAAACTTTCCAAAAATT
1 TAACCCCTAAACTTTCCAAAAATT
18162820 TGAATTTGGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.37
Consensus pattern (30 bp):
TAACCCCTAAACTTTCCAAAAATTATATTC
Found at i:18164826 original size:20 final size:21
Alignment explanation
Indices: 18164798--18164848 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
18164788 TTGTGCAATG
*
18164798 GTATAGATACC-TTTAATAAA
1 GTATCGATACCGTTTAATAAA
** *
18164818 GTATCGATACCGTTTGTTTAA
1 GTATCGATACCGTTTAATAAA
18164839 GTATCGATAC
1 GTATCGATAC
18164849 TTAGCCCCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (21 bp):
GTATCGATACCGTTTAATAAA
Found at i:18171327 original size:28 final size:28
Alignment explanation
Indices: 18171240--18171330 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 28
18171230 ATATTAGCGC
*
18171240 GCTTATCG-TATTATTTCGCACTTCGGT
1 GCTTATCGTTATTATTTTGCACTTCGGT
* * * *
18171267 GCTTATAGTTATAAAATTTACACTTCGGT
1 GCTTATCGTTAT-TATTTTGCACTTCGGT
*
18171296 GCTTATCGTTATTATTTTGCACTTTGGT
1 GCTTATCGTTATTATTTTGCACTTCGGT
18171324 GCTTATC
1 GCTTATC
18171331 ATTTTTCACT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
27 7 0.13
28 22 0.42
29 23 0.44
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (28 bp):
GCTTATCGTTATTATTTTGCACTTCGGT
Found at i:18171348 original size:21 final size:22
Alignment explanation
Indices: 18171304--18171349 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
18171294 GTGCTTATCG
*
18171304 TTATTATTTTGCACTTTGGTGC
1 TTATCATTTTGCACTTTGGTGC
*
18171326 TTATCATTTTTCACTTT-GTGC
1 TTATCATTTTGCACTTTGGTGC
18171347 TTA
1 TTA
18171350 GTGATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.57
Consensus pattern (22 bp):
TTATCATTTTGCACTTTGGTGC
Found at i:18180004 original size:43 final size:42
Alignment explanation
Indices: 18179940--18180036 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
18179930 TATATTTTTA
*
18179940 TTTAATTTA-GAGTTTTTTTTTAAGAAGA-GAAAATTA-ATTTTGGG
1 TTTAATTTATGAG--TTTTTTTAA-AAAACG-AAATTATA-TTTGGG
*
18179984 TTTAGTTTATGAGTTTTTTTAAAAAACGAAATTATATTTGGG
1 TTTAATTTATGAGTTTTTTTAAAAAACGAAATTATATTTGGG
18180026 TTTAATTTATG
1 TTTAATTTATG
18180037 GATGGGTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
42 25 0.53
43 11 0.23
44 8 0.17
45 3 0.06
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.49
Consensus pattern (42 bp):
TTTAATTTATGAGTTTTTTTAAAAAACGAAATTATATTTGGG
Found at i:18180172 original size:9 final size:9
Alignment explanation
Indices: 18180158--18180193 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
18180148 ATAATATAAT
18180158 TTTATTCGA
1 TTTATTCGA
18180167 TTTATTCGA
1 TTTATTCGA
*
18180176 ATTATTCGA
1 TTTATTCGA
*
18180185 GTTATTCGA
1 TTTATTCGA
18180194 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (9 bp):
TTTATTCGA
Found at i:18180182 original size:18 final size:18
Alignment explanation
Indices: 18180159--18180196 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18180149 TAATATAATT
*
18180159 TTATTCGATTTATTCGAA
1 TTATTCGAGTTATTCGAA
18180177 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
18180195 TT
1 TT
18180197 CAAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCGAA
Found at i:18180584 original size:23 final size:22
Alignment explanation
Indices: 18180507--18180583 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
18180497 AAAAAAACAT
*
18180507 ATTTTTATTTTTAAAAATCTAA
1 ATTTTTATTTTTAAAAATCAAA
*
18180529 ATTTTCTTTTTTTAAAAA--AAA
1 ATTTT-TATTTTTAAAAATCAAA
* *
18180550 TCATTACTT-TTCTTAAAAATCAAA
1 --ATT-TTTATTTTTAAAAATCAAA
18180574 ATTTTTATTT
1 ATTTTTATTT
18180584 CGAAATAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
21 4 0.10
22 19 0.45
23 15 0.36
24 4 0.10
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTTATTTTTAAAAATCAAA
Found at i:18180686 original size:19 final size:19
Alignment explanation
Indices: 18180659--18180706 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
18180649 AGATTTTCTG
18180659 TTTTT-AAAAT-TTTAAATT
1 TTTTTAAAAATCTTT-AATT
*
18180677 TTTTTAAAAATCTTTATTT
1 TTTTTAAAAATCTTTAATT
18180696 TTCTTTAAAAA
1 TT-TTTAAAAA
18180707 CAAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 11 0.42
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTAAAAATCTTTAATT
Found at i:18180797 original size:49 final size:49
Alignment explanation
Indices: 18180744--18180899 Score: 165
Period size: 49 Copynumber: 3.1 Consensus size: 49
18180734 AAATAAAAAC
18180744 TTTATTTAAAAAATTTAAACTTTTTCCTTTAAAATATTAAAAACATATT
1 TTTATTTAAAAAATTTAAACTTTTTCCTTTAAAATATTAAAAACATATT
* * **
18180793 TTTATTTTTAAAAATCTAAACTTTTAT--TTTAAAATAGTTAAAAA-ATAAA
1 TTTA-TTTAAAAAATTTAAACTTTT-TCCTTTAAAATA-TTAAAAACATATT
*** * *
18180842 AAAAATTAAAAAATTTAAACTTTTTCCTTTAAAATGATTAAAACACAGATT
1 TTTATTTAAAAAATTTAAACTTTTTCCTTTAAAAT-ATTAAAA-ACATATT
18180893 TTTATTT
1 TTTATTT
18180900 TTGAAAAACT
Statistics
Matches: 82, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
47 1 0.01
48 17 0.21
49 31 0.38
50 27 0.33
51 6 0.07
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (49 bp):
TTTATTTAAAAAATTTAAACTTTTTCCTTTAAAATATTAAAAACATATT
Found at i:18180830 original size:238 final size:241
Alignment explanation
Indices: 18180612--18181073 Score: 600
Period size: 245 Copynumber: 1.9 Consensus size: 241
18180602 AATTTTGTTT
* * **
18180612 AAAAATTTAAACTTTTTCCTTTAAAATGATTAAAA-ATAGATTTTCTGTTTTT-AAAATTTTAAA
1 AAAAATTTAAACTTTTTCCTTTAAAATGATTAAAACACAGATTTT-TATTTTTGAAAA-ACTAAA
** * * *
18180675 -TTTTTTT-AAAAATCTTTATTTTTCTTTAAAAA-CAAAATTTTTATTTTGAAATAATTAAAAAA
64 TTTTTTTTAAAAAATCACTATTTTTC-TTAAAAATCAAAACTTTTA-CTTCAAATAATTAAAAAA
** *
18180737 TAAAAACTTTATTT-AAAAAATTTAAACTTTTTCCTTTAAAAT-ATTAAAAACAT-ATTTTTATT
127 TAAAAACTTTATTTAAAAAAATTTAAACTTTTTCCACTAAAATGACTAAAAA-ATAATTTTTATT
18180799 TTTAAAAATCTAAACTTTTATTTTAAAATAGTTAAAAAATAAAAAAAATTA
191 TTTAAAAATCTAAACTTTTATTTTAAAATAGTTAAAAAATAAAAAAAATTA
18180850 AAAAATTTAAACTTTTTCCTTTAAAATGATTAAAACACAGATTTTTATTTTTGAAAAACTAAACT
1 AAAAATTTAAACTTTTTCCTTTAAAATGATTAAAACACAGATTTTTATTTTTGAAAAACTAAA--
*
18180915 TTCTTTTTTTACAAAAATCACTATTTTTCTTAAAAATCAAAACTTTTACTTCAAATAGTTAAAAA
64 -T-TTTTTTTA-AAAAATCACTATTTTTCTTAAAAATCAAAACTTTTACTTCAAATAATTAAAAA
* * * *
18180980 ATCAAAATTTTGTTTAAAAAAATTTAAACTTTTTCCACTAAATTGACTAAAAAATAGATTTTTAT
126 ATAAAAACTTTATTTAAAAAAATTTAAACTTTTTCCACTAAAATGACTAAAAAATA-ATTTTTAT
18181045 TTTTAAAAATCTAAACTTTCT-TTTTAAAA
190 TTTTAAAAATCTAAACTTT-TATTTTAAAA
18181074 AAAATCACTC
Statistics
Matches: 192, Mismatches: 17, Indels: 21
0.83 0.07 0.09
Matches are distributed among these distances:
238 45 0.23
239 12 0.06
243 7 0.04
244 33 0.17
245 52 0.27
246 7 0.04
247 35 0.18
248 1 0.01
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (241 bp):
AAAAATTTAAACTTTTTCCTTTAAAATGATTAAAACACAGATTTTTATTTTTGAAAAACTAAATT
TTTTTTAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTTACTTCAAATAATTAAAAAATAAA
AACTTTATTTAAAAAAATTTAAACTTTTTCCACTAAAATGACTAAAAAATAATTTTTATTTTTAA
AAATCTAAACTTTTATTTTAAAATAGTTAAAAAATAAAAAAAATTA
Found at i:18180846 original size:140 final size:139
Alignment explanation
Indices: 18180407--18180828 Score: 465
Period size: 140 Copynumber: 3.0 Consensus size: 139
18180397 AAATCACCAC
* * * *
18180407 TTTTCTTAAAAACCAAAGTTTTTATTTCGAAATTGTTAAAAATAAATAAATTTTATTTAAATAAT
1 TTTTCTTAAAAAACAAAATTTTTATTTCGAAATAGTTAAAAAT-AA-AAATTTTATTTAAAAAAT
* * *
18180472 TTAAATTTTTTCCTTTAAATTGACTAAAAAAACATATTTTTATTTTTAAAAATCTAAATTTTCTT
64 TTAAACTTTTTCCTTTAAAATGA-T-TAAAAACATATTTTTATTTTTAAAAATCTAAA---T-TT
* *
18180537 TTTTTAAAAAAAATCATTAC
123 TTTTT-AAAATAAT--TTAA
* * *
18180557 TTTTCTTAAAAATCAAAATTTTTATTTCGAAATAGTT-AAAATTAAAATTTTGTTT-AAAAATTT
1 TTTTCTTAAAAAACAAAATTTTTATTTCGAAATAGTTAAAAATAAAAATTTTATTTAAAAAATTT
* * * * * *
18180620 AAACTTTTTCCTTTAAAATGATTAAAAATAGATTTTCTGTTTTTAAAATTTTAAATTTTTTTAAA
66 AAACTTTTTCCTTTAAAATGATTAAAAACATATTTT-TATTTTTAAAAATCTAAATTTTTTTTAA
* *
18180685 AAT-CTTTAT
130 AATAATTTAA
* * * *
18180694 TTTTCTTTAAAAACAAAATTTTTATTTTGAAATAATTAAAAAATAAAAACTTTATTTAAAAAATT
1 TTTTCTTAAAAAACAAAATTTTTATTTCGAAATAGTT-AAAAATAAAAATTTTATTTAAAAAATT
18180759 TAAACTTTTTCCTTTAAAAT-ATTAAAAACATATTTTTATTTTTAAAAATCTAAACTTTTATTTT
65 TAAACTTTTTCCTTTAAAATGATTAAAAACATATTTTTATTTTTAAAAATCTAAA-TTTT-TTTT
18180823 AAAATA
128 AAAATA
18180829 GTTAAAAAAT
Statistics
Matches: 234, Mismatches: 31, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
137 36 0.15
138 15 0.06
139 34 0.15
140 39 0.17
141 6 0.03
142 1 0.00
144 11 0.05
145 16 0.07
146 26 0.11
147 10 0.04
148 1 0.00
149 5 0.02
150 34 0.15
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (139 bp):
TTTTCTTAAAAAACAAAATTTTTATTTCGAAATAGTTAAAAATAAAAATTTTATTTAAAAAATTT
AAACTTTTTCCTTTAAAATGATTAAAAACATATTTTTATTTTTAAAAATCTAAATTTTTTTTAAA
ATAATTTAA
Found at i:18180867 original size:98 final size:100
Alignment explanation
Indices: 18180699--18180916 Score: 316
Period size: 101 Copynumber: 2.2 Consensus size: 100
18180689 TTTATTTTTC
* * * * *
18180699 TTTAAAAACAAAATTTTTATTTTGAAATAATTAAAAAATAAAAACTTTATTTAAAAAATTTAAAC
1 TTTAAAAACTAAACTTTTATTTTAAAATAATTAAAAAATAAAAA--TAAATTAAAAAATTTAAAC
*
18180764 TTTTTCCTTTAAAAT-ATTAAAA-ACATATTTTTATT
64 TTTTTCCTTTAAAATGATTAAAACACAGATTTTTATT
*
18180799 TTTAAAAATCTAAACTTTTATTTTAAAATAGTTAAAAAATAAAAA-AAATTAAAAAATTTAAACT
1 TTTAAAAA-CTAAACTTTTATTTTAAAATAATTAAAAAATAAAAATAAATTAAAAAATTTAAACT
18180863 TTTTCCTTTAAAATGATTAAAACACAGATTTTTATT
65 TTTTCCTTTAAAATGATTAAAACACAGATTTTTATT
18180899 TTTGAAAAACTAAACTTT
1 TTT-AAAAACTAAACTTT
18180917 CTTTTTTTAC
Statistics
Matches: 107, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
98 31 0.29
99 7 0.07
100 32 0.30
101 37 0.35
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (100 bp):
TTTAAAAACTAAACTTTTATTTTAAAATAATTAAAAAATAAAAATAAATTAAAAAATTTAAACTT
TTTCCTTTAAAATGATTAAAACACAGATTTTTATT
Found at i:18195652 original size:21 final size:21
Alignment explanation
Indices: 18195623--18195680 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
18195613 TTCCGGTGCC
*
18195623 ATACGACCCCTACC-AGAAACA
1 ATACCACCCCTACCAAG-AACA
18195644 ATACCACCCCTACCAAGAACA
1 ATACCACCCCTACCAAGAACA
* *
18195665 GTACTACCCCTACCAA
1 ATACCACCCCTACCAA
18195681 TGCCTCGACC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.40, C:0.41, G:0.07, T:0.12
Consensus pattern (21 bp):
ATACCACCCCTACCAAGAACA
Found at i:18202330 original size:60 final size:60
Alignment explanation
Indices: 18202218--18202374 Score: 194
Period size: 60 Copynumber: 2.6 Consensus size: 60
18202208 CTATAATAGA
* * * * *
18202218 GGTCACCCAATTATAGTTATTTTTCT-TTTTGGTTACTCAACTATGAAAAGTTACAAAAT
1 GGTCACCCAACTATATTTTTTTTTCTCTTTTGGTCACCCAACTATGAAAAGTTACAAAAT
18202277 GGTCACCCAACTATGATTTTTTTTTCTCTTTTGGTCACCCAACTAT-AAAAGTTACAAAAT
1 GGTCACCCAACTAT-ATTTTTTTTTCTCTTTTGGTCACCCAACTATGAAAAGTTACAAAAT
* * **
18202337 GATCATCCAACTAT-TCAATTTTTTCTCTTTTGGTCACC
1 GGTCACCCAACTATAT-TTTTTTTTCTCTTTTGGTCACC
18202375 AGTTGGCTTA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
58 1 0.01
59 33 0.38
60 36 0.42
61 16 0.19
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (60 bp):
GGTCACCCAACTATATTTTTTTTTCTCTTTTGGTCACCCAACTATGAAAAGTTACAAAAT
Found at i:18207670 original size:70 final size:67
Alignment explanation
Indices: 18207571--18207703 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 67
18207561 TTCGAACAAG
* * * *
18207571 AAAAGGTAAAACTACGTCGTTTTGATAAATGTTTACCCTTTCTAAAGTTAAAAGTCAAAATCATT
1 AAAAGATAAAACTACGTCATTTTGATAAATGTTTACCC-AT-T-AAGTTAAAAGGCAAAATCATT
18207636 AAGTT
63 AAGTT
* *
18207641 AAAAGATAAAATTATGTCATTTTGATAAATGTTTACCCATTAAGTTAAAAGGCAAAATCATTA
1 AAAAGATAAAACTACGTCATTTTGATAAATGTTTACCCATTAAGTTAAAAGGCAAAATCATTA
18207704 TATTGTTTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 21 0.37
68 1 0.02
69 1 0.02
70 34 0.60
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (67 bp):
AAAAGATAAAACTACGTCATTTTGATAAATGTTTACCCATTAAGTTAAAAGGCAAAATCATTAAG
TT
Found at i:18211703 original size:15 final size:16
Alignment explanation
Indices: 18211673--18211705 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18211663 GTCTCTCTCT
18211673 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
*
18211689 TTTTTTAACAT-TTTA
1 TTTTTTAAAATATTTA
18211704 TT
1 TT
18211706 ATACTCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:18211876 original size:13 final size:15
Alignment explanation
Indices: 18211854--18211885 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18211844 CTTATAAAAT
18211854 AAAATAAAATAT-TA
1 AAAATAAAATATATA
18211868 AAAAT-AAATATATA
1 AAAATAAAATATATA
18211882 AAAA
1 AAAA
18211886 AAACATCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAAAATATATA
Found at i:18218243 original size:6 final size:6
Alignment explanation
Indices: 18218205--18218245 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
18218195 TGAACGTTTG
* * *
18218205 TTTTTC TTCTTC TTCTTC TGTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
18218246 TATAATTCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTC
Found at i:18227001 original size:2 final size:2
Alignment explanation
Indices: 18226996--18227041 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
18226986 ATATACACAC
18226996 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
18227038 AT AT
1 AT AT
18227042 TGTTATTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18227072 original size:11 final size:11
Alignment explanation
Indices: 18227056--18227084 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
18227046 ATTAAAAAAT
18227056 ATTTTTTTGAA
1 ATTTTTTTGAA
18227067 ATTTTTTTGAA
1 ATTTTTTTGAA
18227078 ATTTTTT
1 ATTTTTT
18227085 AATATTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (11 bp):
ATTTTTTTGAA
Found at i:18227074 original size:12 final size:12
Alignment explanation
Indices: 18227052--18227084 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18227042 TGTTATTAAA
18227052 AAATATTTTTTTG
1 AAAT-TTTTTTTG
18227065 AAA-TTTTTTTG
1 AAATTTTTTTTG
18227076 AAATTTTTT
1 AAATTTTTT
18227085 AATATTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 5 0.26
13 3 0.16
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (12 bp):
AAATTTTTTTTG
Found at i:18227733 original size:3 final size:3
Alignment explanation
Indices: 18227717--18227775 Score: 100
Period size: 3 Copynumber: 19.0 Consensus size: 3
18227707 ACTATTTCTC
18227717 AAT AAT AACCT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA--T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18227764 AAT AAT AAT AAT
1 AAT AAT AAT AAT
18227776 TATTATTATT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 51 0.94
5 3 0.06
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18230630 original size:31 final size:30
Alignment explanation
Indices: 18230587--18230656 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
18230577 AGGTATCCTC
*
18230587 GTTATATATTTTTATCATTTTAATAATTTTT
1 GTTA-ATATTTTTATCATTTTAATAATTTGT
* *
18230618 GTTACATATTTTTATCATTTTAGTCATTTGT
1 GTTA-ATATTTTTATCATTTTAATAATTTGT
18230649 GTTAATAT
1 GTTAATAT
18230657 CATTACATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.60
Consensus pattern (30 bp):
GTTAATATTTTTATCATTTTAATAATTTGT
Found at i:18230851 original size:30 final size:31
Alignment explanation
Indices: 18230787--18230855 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
18230777 AAATTTTAAA
18230787 TTAATAAA-GATAAAATTATACTTTAATCTTT
1 TTAA-AAATGATAAAATTATACTTTAATCTTT
*
18230818 TTAAAAATGATAAAATTTTGA-TTTAAT-TTT
1 TTAAAAATGATAAAATTAT-ACTTTAATCTTT
18230848 TTAAAAAT
1 TTAAAAAT
18230856 TATATTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
30 14 0.40
31 20 0.57
32 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (31 bp):
TTAAAAATGATAAAATTATACTTTAATCTTT
Found at i:18231579 original size:18 final size:19
Alignment explanation
Indices: 18231558--18231596 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
18231548 AGAAAAATAG
18231558 AAAGAA-AAAAAAAAGTTA
1 AAAGAACAAAAAAAAGTTA
*
18231576 AAAGAACATAAAAAAGTTA
1 AAAGAACAAAAAAAAGTTA
18231595 AA
1 AA
18231597 TTGCTCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (19 bp):
AAAGAACAAAAAAAAGTTA
Found at i:18235875 original size:17 final size:18
Alignment explanation
Indices: 18235833--18235867 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18235823 ATAAAATTTG
18235833 AAATAATTATACATTTAA
1 AAATAATTATACATTTAA
18235851 AAATAATTATA-ATTTAA
1 AAATAATTATACATTTAA
18235868 TAGAAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATAATTATACATTTAA
Found at i:18235912 original size:12 final size:13
Alignment explanation
Indices: 18235897--18235929 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
18235887 ACATTAAATT
18235897 AATTAAAATTA-G
1 AATTAAAATTATG
*
18235909 AATTAAAATTATT
1 AATTAAAATTATG
18235922 AATTAAAA
1 AATTAAAA
18235930 AATTGTGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (13 bp):
AATTAAAATTATG
Found at i:18238342 original size:13 final size:13
Alignment explanation
Indices: 18238324--18238348 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18238314 TTGAAATCCC
18238324 TTTTTATATTTTT
1 TTTTTATATTTTT
18238337 TTTTTATATTTT
1 TTTTTATATTTT
18238349 AAAACACTGA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATATTTTT
Found at i:18239622 original size:49 final size:49
Alignment explanation
Indices: 18239569--18239663 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
18239559 TGAACTTTAG
*
18239569 GGTATAAGATTCACCGTTAAAGCTTCAATCTTTCCCATCACATCTCTAA
1 GGTATAAGATTCACCGTTAAAGCTTCAACCTTTCCCATCACATCTCTAA
* *** * *
18239618 GGTATAAGGTTCACCGTTGTGGCTTCAACCTTTCCCTTCATATCTC
1 GGTATAAGATTCACCGTTAAAGCTTCAACCTTTCCCATCACATCTC
18239664 CATGGTACAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (49 bp):
GGTATAAGATTCACCGTTAAAGCTTCAACCTTTCCCATCACATCTCTAA
Found at i:18239789 original size:147 final size:147
Alignment explanation
Indices: 18239590--18239856 Score: 381
Period size: 147 Copynumber: 1.8 Consensus size: 147
18239580 CACCGTTAAA
*
18239590 GCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCACCGTTGTGGCTTCAACCTTTCCCT
1 GCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCACCGTTGCGGCTTCAACCTTTCCCT
*
18239655 TCATATCTCCATGGTACAAAATTCATCATTGCGGCCTCAATATTTCCCATTATTTTTTTAAGGTA
66 CCATATCTCCATGGTACAAAATTCATCATTGCGGCCTCAATATTTCCCATTATTTTTTTAAGGTA
18239720 TAAGGTTTTCTGTTGCG
131 TAAGGTTTTCTGTTGCG
* * * * * * *
18239737 GCTTTAATCTTTCCCGTCACGTCTCTGAGGTATGAGGTTCGCCGTTGCGGCTTTAACCTTTCCCT
1 GCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCACCGTTGCGGCTTCAACCTTTCCCT
* * * ** * * *
18239802 CCATATCTTCATGGTACAAGATTCGTTGTTGCTGCTTCAATCTTTCCCATTATTT
66 CCATATCTCCATGGTACAAAATTCATCATTGCGGCCTCAATATTTCCCATTATTT
18239857 CTCCAAGGTA
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
147 103 1.00
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.39
Consensus pattern (147 bp):
GCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCACCGTTGCGGCTTCAACCTTTCCCT
CCATATCTCCATGGTACAAAATTCATCATTGCGGCCTCAATATTTCCCATTATTTTTTTAAGGTA
TAAGGTTTTCTGTTGCG
Found at i:18239958 original size:92 final size:92
Alignment explanation
Indices: 18239784--18239951 Score: 219
Period size: 92 Copynumber: 1.8 Consensus size: 92
18239774 TTCGCCGTTG
* * * * * *
18239784 CGGCTTTAACCTTTCCCTCCATATCTTCATGGTACAAGATTCGTTGTTGCTGCTTCAATCTTTCC
1 CGGCTTCAACCTTTCCCTCCATATCTCCATGGCACAAGATTCGTCGTTGCGGCCTCAATCTTTCC
**
18239849 CATTATTTCTCCAAGGTATACGCATTA
66 CATTACGTCTCCAAGGTATACGCATTA
* * * * *
18239876 CGGCTTCAACCTTTCCCTTCATATCTCCATGGCATAGGATTTGTCGTTGCGGCCTCAGTCTTTCC
1 CGGCTTCAACCTTTCCCTCCATATCTCCATGGCACAAGATTCGTCGTTGCGGCCTCAATCTTTCC
18239941 CATTACGTCTC
66 CATTACGTCTC
18239952 TCAGGTACAA
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
92 63 1.00
ACGTcount: A:0.18, C:0.30, G:0.15, T:0.38
Consensus pattern (92 bp):
CGGCTTCAACCTTTCCCTCCATATCTCCATGGCACAAGATTCGTCGTTGCGGCCTCAATCTTTCC
CATTACGTCTCCAAGGTATACGCATTA
Found at i:18250742 original size:12 final size:12
Alignment explanation
Indices: 18250725--18250749 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18250715 TGACCCGTTT
18250725 TCCTATAATCTA
1 TCCTATAATCTA
18250737 TCCTATAATCTA
1 TCCTATAATCTA
18250749 T
1 T
18250750 AATATAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (12 bp):
TCCTATAATCTA
Found at i:18257881 original size:14 final size:14
Alignment explanation
Indices: 18257862--18257890 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18257852 GCAGATGGAT
18257862 TCGTATAATTCTTA
1 TCGTATAATTCTTA
18257876 TCGTATAATTCTTA
1 TCGTATAATTCTTA
18257890 T
1 T
18257891 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:18260038 original size:22 final size:22
Alignment explanation
Indices: 18260013--18260057 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
18260003 TAGATGAATT
18260013 TAAATTTAAAAGAG-TTTAAAGA
1 TAAA-TTAAAAGAGTTTTAAAGA
**
18260035 TAAATTAGTAGAGTTTTAAAGA
1 TAAATTAAAAGAGTTTTAAAGA
18260057 T
1 T
18260058 TAGAGGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.36
Consensus pattern (22 bp):
TAAATTAAAAGAGTTTTAAAGA
Found at i:18261951 original size:7 final size:7
Alignment explanation
Indices: 18261939--18261969 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
18261929 GTTTATTTTT
18261939 GTTTTGA
1 GTTTTGA
18261946 GTTTTGA
1 GTTTTGA
18261953 GTTTTGA
1 GTTTTGA
18261960 GTTTTGA
1 GTTTTGA
18261967 GTT
1 GTT
18261970 GGATCCTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.29, T:0.58
Consensus pattern (7 bp):
GTTTTGA
Found at i:18269426 original size:2 final size:2
Alignment explanation
Indices: 18269419--18269471 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
18269409 GAAAATCAAG
*
18269419 TA TA TA TA TA CA 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
18269461 TA TA TA TA TA T
1 TA TA TA TA TA T
18269472 TCTTGAATGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18273987 original size:55 final size:55
Alignment explanation
Indices: 18273921--18274028 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
18273911 GAAAAGACTT
*
18273921 ATCTTAGATTCCTTGACTCTACTTGTTCCTTCATGGGTGACCTTAAGTTTGTCTC
1 ATCTTAGATTCCTTGACTCTACTTGTTCCTTCATGGGTGACCTCAAGTTTGTCTC
*
18273976 ATCTTGGATTCCTTGACTCTACTTGTTCCTTCATGGGTGACCTCAAGTTTGTC
1 ATCTTAGATTCCTTGACTCTACTTGTTCCTTCATGGGTGACCTCAAGTTTGTC
18274029 CCATATTTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.43
Consensus pattern (55 bp):
ATCTTAGATTCCTTGACTCTACTTGTTCCTTCATGGGTGACCTCAAGTTTGTCTC
Found at i:18280964 original size:15 final size:15
Alignment explanation
Indices: 18280931--18280965 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18280921 AAAGTGCAGA
*
18280931 AAAAAGAAAAATATG
1 AAAAAGAAAAAAATG
*
18280946 AAAAAGAAAAAAATT
1 AAAAAGAAAAAAATG
18280961 AAAAA
1 AAAAA
18280966 AAATATTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (15 bp):
AAAAAGAAAAAAATG
Found at i:18283796 original size:16 final size:16
Alignment explanation
Indices: 18283777--18283817 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
18283767 AAAGACAAGA
18283777 TTCGAGGAAGAATCTT
1 TTCGAGGAAGAATCTT
18283793 TTCGAGGAAGAATCTT
1 TTCGAGGAAGAATCTT
18283809 TTCGAGGAA
1 TTCGAGGAA
18283818 AGAGAGAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (16 bp):
TTCGAGGAAGAATCTT
Found at i:18288028 original size:121 final size:123
Alignment explanation
Indices: 18287776--18288135 Score: 607
Period size: 121 Copynumber: 2.9 Consensus size: 123
18287766 CTATATTTTA
* * *
18287776 TTTTATTTAATATCTCATATTAAAATGAAAATATTCCTTTAGATAAATATATGGAAGGTTTATTA
1 TTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATATATAGAAGGTTTATTA
18287841 AAACATTATATCCTTTCTAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCC
66 AAACATTATATCCTTTCTAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCC
* * *
18287899 TTTTATTTAATATCTCTTATTAAAATGAAATTATTCCTTTAGAGAAATATATTGAAAG-TTATTA
1 TTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATATATAGAAGGTTTATTA
*
18287963 AAACATTATATACTTTC-AAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCC
66 AAACATTATATCCTTTCTAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCC
* * *
18288020 TTTTATTTAATATCTCATGTTAAAATGGAATTATTCCTTTATAGAAATATATAGAAGGTTTATTA
1 TTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATATATAGAAGGTTTATTA
18288085 AAACCATTATATCCTTTCTAAAAGGATATTAACTTCCATGTTTTTAATATT
66 AAA-CATTATATCCTTTCTAAAAGGATATTAACTTCCATGTTTTTAATATT
18288136 TAACGAAATC
Statistics
Matches: 221, Mismatches: 13, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
121 92 0.42
122 31 0.14
123 66 0.30
124 32 0.14
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (123 bp):
TTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATATATAGAAGGTTTATTA
AAACATTATATCCTTTCTAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCC
Found at i:18297862 original size:15 final size:17
Alignment explanation
Indices: 18297837--18297870 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18297827 AGTCTTGGAG
18297837 CATTGTTCTA-TTTCTT
1 CATTGTTCTATTTTCTT
18297853 CATT-TTCTATTTTCTT
1 CATTGTTCTATTTTCTT
18297869 CA
1 CA
18297871 CCGGAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.15, C:0.21, G:0.03, T:0.62
Consensus pattern (17 bp):
CATTGTTCTATTTTCTT
Found at i:18299944 original size:13 final size:13
Alignment explanation
Indices: 18299926--18300017 Score: 73
Period size: 13 Copynumber: 7.1 Consensus size: 13
18299916 AGTTTAGTAT
18299926 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
18299939 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
18299952 TG-TGGTGGAAAAG
1 TGCT-TTTGAAAAG
*
18299965 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
18299978 TG-TGGTGGAAAAG
1 TGCT-TTTGAAAAG
18299991 TGCTTTTGAGAAA-
1 TGCTTTTGA-AAAG
*
18300004 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
18300017 T
1 T
18300018 TTAATTTAAG
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
12 5 0.08
13 50 0.83
14 5 0.08
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:18300017 original size:26 final size:26
Alignment explanation
Indices: 18299933--18299997 Score: 130
Period size: 26 Copynumber: 2.5 Consensus size: 26
18299923 TATTGCTTTT
18299933 GAAAAGTGCTTTTAAAAAGTGTGGTG
1 GAAAAGTGCTTTTAAAAAGTGTGGTG
18299959 GAAAAGTGCTTTTAAAAAGTGTGGTG
1 GAAAAGTGCTTTTAAAAAGTGTGGTG
18299985 GAAAAGTGCTTTT
1 GAAAAGTGCTTTT
18299998 GAGAAATGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (26 bp):
GAAAAGTGCTTTTAAAAAGTGTGGTG
Found at i:18300314 original size:13 final size:14
Alignment explanation
Indices: 18300289--18300330 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
18300279 AATTATATTT
*
18300289 TAAAGATTTAAATA
1 TAAATATTTAAATA
18300303 TAAATA-TTAAATA
1 TAAATATTTAAATA
**
18300316 TTTATATTTAAATA
1 TAAATATTTAAATA
18300330 T
1 T
18300331 TAGCATAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TAAATATTTAAATA
Found at i:18300318 original size:21 final size:21
Alignment explanation
Indices: 18300288--18300332 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18300278 AAATTATATT
18300288 TTAAAGATTTAAATATAAATA
1 TTAAAGATTTAAATATAAATA
* * *
18300309 TTAAATATTTATATTTAAATA
1 TTAAAGATTTAAATATAAATA
18300330 TTA
1 TTA
18300333 GCATAGTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTAAAGATTTAAATATAAATA
Found at i:18302218 original size:72 final size:72
Alignment explanation
Indices: 18302010--18302193 Score: 316
Period size: 72 Copynumber: 2.6 Consensus size: 72
18302000 AACAAATTTT
* * * *
18302010 ATATCCAAAATC-AAATATAAACAACTATTGATAAAACTAAATTACACATAAATAAGTAAAACAT
1 ATATCCAAAAACAAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
18302074 AAATTCA
66 AAATTCA
*
18302081 ATATCCAAAAACCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
1 ATATCCAAAAACAAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
18302146 AAATTCA
66 AAATTCA
18302153 ATATCCAAAAACAAAACATAAACAACTATTGATAAAACTAG
1 ATATCCAAAAACAAAACATAAACAACTATTGATAAAACTAG
18302194 TTTAGCATTG
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 11 0.10
72 96 0.90
ACGTcount: A:0.57, C:0.16, G:0.04, T:0.23
Consensus pattern (72 bp):
ATATCCAAAAACAAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACAT
AAATTCA
Found at i:18302669 original size:18 final size:18
Alignment explanation
Indices: 18302624--18302693 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
18302614 CGTTTCCATC
*
18302624 AATGTTAACAACATTTGA
1 AATGTTAACATCATTTGA
*
18302642 AAT-TTGAACATTATTTGA
1 AATGTT-AACATCATTTGA
* *
18302660 AGTGTTAACATCATTTAA
1 AATGTTAACATCATTTGA
**
18302678 AAAATTAACATCATTT
1 AATGTTAACATCATTT
18302694 CCTGCATTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
17 2 0.05
18 38 0.90
19 2 0.05
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.39
Consensus pattern (18 bp):
AATGTTAACATCATTTGA
Found at i:18311998 original size:24 final size:24
Alignment explanation
Indices: 18311971--18312018 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
18311961 GATTCAGACA
*
18311971 TATTCTCATATATGAAAT-CAAATG
1 TATTCTCATA-ATCAAATACAAATG
18311995 TATTCTCATAATCAAATACAAATG
1 TATTCTCATAATCAAATACAAATG
18312019 CATATCCAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (24 bp):
TATTCTCATAATCAAATACAAATG
Found at i:18312049 original size:12 final size:12
Alignment explanation
Indices: 18312006--18312056 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
18311996 ATTCTCATAA
18312006 TCAAATACAAAT
1 TCAAATACAAAT
* * * *
18312018 GCATATCCAGAT
1 TCAAATACAAAT
*
18312030 TCAGATACAAAT
1 TCAAATACAAAT
18312042 TCAAATACAAAT
1 TCAAATACAAAT
18312054 TCA
1 TCA
18312057 GACACAGACC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.25
Consensus pattern (12 bp):
TCAAATACAAAT
Found at i:18313494 original size:12 final size:12
Alignment explanation
Indices: 18313474--18313507 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18313464 AATTTGGAAG
*
18313474 AATAAAAAAGA-
1 AATAAAAAAAAT
18313485 AATAAAAAAAAT
1 AATAAAAAAAAT
18313497 AATAAAAAAAA
1 AATAAAAAAAA
18313508 CAAAAGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (12 bp):
AATAAAAAAAAT
Found at i:18315854 original size:19 final size:19
Alignment explanation
Indices: 18315832--18315894 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
18315822 AAAAGAGTGA
18315832 TGAAAAAAGGAAGTGAAAT
1 TGAAAAAAGGAAGTGAAAT
* *
18315851 TG-AAAAA-GAAATG-AGT
1 TGAAAAAAGGAAGTGAAAT
18315867 GATGAAAAAAGGAAGTGAAAT
1 --TGAAAAAAGGAAGTGAAAT
18315888 TGAAAAA
1 TGAAAAA
18315895 GAAATGAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
16 2 0.06
17 5 0.14
18 7 0.20
19 14 0.40
20 5 0.14
21 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (19 bp):
TGAAAAAAGGAAGTGAAAT
Found at i:18315858 original size:18 final size:18
Alignment explanation
Indices: 18315835--18315895 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
18315825 AGAGTGATGA
18315835 AAAAAGGAAGTGAAATTG
1 AAAAAGGAAGTGAAATTG
* *
18315853 AAAAA-GAAATG-AGTGATG
1 AAAAAGGAAGTGAAAT--TG
18315871 AAAAAAGGAAGTGAAATTG
1 -AAAAAGGAAGTGAAATTG
18315890 AAAAAG
1 AAAAAG
18315896 AAATGAGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.06
17 5 0.15
18 13 0.38
19 7 0.21
20 5 0.15
21 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (18 bp):
AAAAAGGAAGTGAAATTG
Found at i:18315868 original size:37 final size:37
Alignment explanation
Indices: 18315818--18315905 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
18315808 CATTGAGAAG
*
18315818 AAAGAAAAGAGTGATGAAAAAAGGAAGTGAAATTGAA
1 AAAGAAATGAGTGATGAAAAAAGGAAGTGAAATTGAA
18315855 AAAGAAATGAGTGATGAAAAAAGGAAGTGAAATTGAA
1 AAAGAAATGAGTGATGAAAAAAGGAAGTGAAATTGAA
18315892 AAAGAAATGAGTGA
1 AAAGAAATGAGTGA
18315906 AGAGGTGAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.15
Consensus pattern (37 bp):
AAAGAAATGAGTGATGAAAAAAGGAAGTGAAATTGAA
Found at i:18315906 original size:21 final size:21
Alignment explanation
Indices: 18315843--18315906 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
18315833 GAAAAAAGGA
18315843 AGTGAAATTGAAAAAGAAATG
1 AGTGAAATTGAAAAAGAAATG
*
18315864 AGTG--A-TG--AAA-AAAGG
1 AGTGAAATTGAAAAAGAAATG
18315879 AAGTGAAATTGAAAAAGAAATG
1 -AGTGAAATTGAAAAAGAAATG
18315901 AGTGAA
1 AGTGAA
18315907 GAGGTGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
15 4 0.12
16 7 0.21
18 3 0.09
19 3 0.09
21 13 0.38
22 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (21 bp):
AGTGAAATTGAAAAAGAAATG
Found at i:18323830 original size:33 final size:33
Alignment explanation
Indices: 18323788--18323858 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
18323778 ATGCGAACTT
18323788 AAAGCCTCATTTCGAGCAAGATATGTGTTTAGA
1 AAAGCCTCATTTCGAGCAAGATATGTGTTTAGA
18323821 AAAGCCTCATTTCGAGCAAGATATGTGTTTAGA
1 AAAGCCTCATTTCGAGCAAGATATGTGTTTAGA
18323854 AAAGC
1 AAAGC
18323859 TTTAGGACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (33 bp):
AAAGCCTCATTTCGAGCAAGATATGTGTTTAGA
Found at i:18327902 original size:171 final size:168
Alignment explanation
Indices: 18327599--18328093 Score: 576
Period size: 171 Copynumber: 3.0 Consensus size: 168
18327589 TGCAATTATC
* *
18327599 CAAAACAAGTGATGTGACTATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAA
1 CAAAAC-AGTGATGCG-GTATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAA
* * * * *
18327664 GGCTCAAAGTGAGCAAATCTTTGAACCCCAACTTCCAGATGAGATA-TTGAGAAGCAGGTTGAAG
64 GGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTT-AGAAGCGGGTCGAAG
* * *
18327728 CAATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGGA
128 CAATAAAACGATTAGCTTCCTGATGAGATAT-GAGAAGTGGA
*
18327770 TCAAAACAGTGATGCGGTTATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
1 -CAAAACAGTGATGCGG-TATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAA
* * *
18327835 GGCTCACAGTGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTTAGAAGCGGGTCAAAGC
64 GGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTTAGAAGCGGGTCGAAGC
*
18327900 AATAAAACGATTAGCTTCCTGATGAGATATTGAAAAGTGGA
129 AATAAAACGATTAGCTTCCTGATGAGATA-TGAGAAGTGGA
* * *
18327941 C-CAA-A-T--T-C-G--TCTTCCTGATGAGATACAGAGAAGTATACC-AA-C--T----CAAGG
1 CAAAACAGTGATGCGGTATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGG
* * * * *
18327989 CTTAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGTGGATCGAAGCAA
66 CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTTAGAAGCGGGTCGAAGCAA
*
18328054 TAAAATGATTAGCTTCCTGATGAGATACTGAGAAGTGGA
131 TAAAACGATTAGCTTCCTGATGAGATA-TGAGAAGTGGA
18328093 C
1 C
18328094 CAAATTCGTC
Statistics
Matches: 290, Mismatches: 30, Indels: 26
0.84 0.09 0.08
Matches are distributed among these distances:
152 98 0.34
156 1 0.00
158 1 0.00
159 2 0.01
160 28 0.10
163 1 0.00
164 1 0.00
165 1 0.00
167 1 0.00
168 1 0.00
169 2 0.01
170 1 0.00
171 143 0.49
172 9 0.03
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (168 bp):
CAAAACAGTGATGCGGTATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACAAGG
CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTTAGAAGCGGGTCGAAGCAA
TAAAACGATTAGCTTCCTGATGAGATATGAGAAGTGGA
Found at i:18328074 original size:152 final size:152
Alignment explanation
Indices: 18327842--18328125 Score: 478
Period size: 152 Copynumber: 1.9 Consensus size: 152
18327832 CCAGGCTCAC
* * * *
18327842 AGTGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTTAGAAGCGGGTCAAAGCAATAAAA
1 AGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCGGATCAAAGCAATAAAA
*
18327907 CGATTAGCTTCCTGATGAGATATTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
66 CGATTAGCTTCCTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
18327972 AGTATACCAACTCAAGGCTTAA
131 AGTATACCAACTCAAGGCTTAA
* *
18327994 AGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGTGGATCGAAGCAATAAAA
1 AGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCGGATCAAAGCAATAAAA
* * *
18328059 TGATTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGA
66 CGATTAGCTTCCTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
18328124 AG
131 AG
18328126 CGGATTGAAA
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
152 122 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (152 bp):
AGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTGAGAAGCGGATCAAAGCAATAAAA
CGATTAGCTTCCTGATGAGATACTGAAAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
AGTATACCAACTCAAGGCTTAA
Found at i:18328166 original size:201 final size:201
Alignment explanation
Indices: 18327950--18329589 Score: 2494
Period size: 201 Copynumber: 8.1 Consensus size: 201
18327940 ACCAAATTCG
*
18327950 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTTAAAGTGAGCAAATCTTCGAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
* * *
18328015 CAGCTTCCTAATGAGATACTGAGAAG-TGGATCGAAGCAATAAAATGATTAGCTTCCTGATGAGA
66 CAGCTTCCTGATGAGATACTGAGAAGCAGG-TCGAAGCAATAAAATGGTTAGCTTCCTGATGAGA
*
18328079 TACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCGGATTGAAACAAGTGAG
130 TACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAG
18328144 GCGGTCA
195 GCGGTCA
* *
18328151 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTAAGCAAATTTTCGAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
* * *
18328216 TAGCTTCTTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
66 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
*
18328281 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGAGG
131 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
18328346 CGGTCA
196 CGGTCA
* * * *
18328352 TCTTCTTGATGAGATACAGAGAAGTATACCAGCTCAAGGCTCAAAGCGAGCAAATCTTTGAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
* * * * *
18328417 CAACTTCCTGATGAGATACTGAGAAGCGGGTCAAAGTAATAAAATGGTTAGCTTCTTGATGAGAT
66 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
* * * *
18328482 ATTGAGAAGTTGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAGATTGAAACAAGTGAGG
131 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
*
18328547 TGGTCA
196 CGGTCA
18328553 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAA-CC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
* * * *
18328617 CAGTTTCCTAATGAGATACTGAGAAGTAGGTTGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
66 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
18328682 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
131 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
*
18328747 TGGTCA
196 CGGTCA
18328753 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
**
18328818 CAGCTTCCTGATGAGATACTGAGAAATAGGTCGAA-CAATAAAATGGTTAGCTTCCTGATGAGAT
66 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
* * *
18328882 ATTGAGAAGTGGACCAAATTTGTCTTCCTGATGAAATACAGAGAAGCGGATTGAAACAAGTGAGG
131 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
18328947 CGGTCA
196 CGGTCA
** *
18328953 TCTAACTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGCGAGCAAATCTTCGAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
18329018 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
66 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
* *
18329083 ATTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
131 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
18329148 CGGTCA
196 CGGTCA
** * *
18329154 TCTAACTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGCGAGCAAATCTTCAAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
18329219 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
66 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
* * *
18329284 ACTAAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATG
131 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
*
18329349 CAGTCA
196 CGGTCA
* * ** * * *
18329355 TCTTCTTGATAAGATATTGAGAAGTAGACCAAATCAATGAAACCAGGCTTAAAGTGAGCAAATCT
1 TCTTCCTGATGAGATACAGAGAAGTATACC-AA-C--T----CAAGGCTCAAAGTGAGCAAATCT
** * ** *
18329420 TCGAACCTTAGCTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCT
58 TCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCT
* * * * * * * * * **
18329485 GATAAGATACAGAGAAGTGAACCAGATCCGTCTTCTTGATAAGACACAGAGAAGTGGATCAAAAC
123 GATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAAC
* *
18329550 AAGTGATGAGGTCA
188 AAGTGAGGCGGTCA
* *
18329564 TCTTCCTGATTAGATACTGAGAAGTA
1 TCTTCCTGATGAGATACAGAGAAGTA
18329590 GGCCAAATCA
Statistics
Matches: 1328, Mismatches: 100, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
200 378 0.28
201 777 0.59
202 4 0.00
203 1 0.00
205 1 0.00
209 167 0.13
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (201 bp):
TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
CGGTCA
Found at i:18328818 original size:401 final size:401
Alignment explanation
Indices: 18327950--18329589 Score: 2492
Period size: 401 Copynumber: 4.1 Consensus size: 401
18327940 ACCAAATTCG
* *
18327950 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTTAAAGTGAGCAAATCTTCGAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGCGAGCAAATCTTCGAACCC
* * *
18328015 CAGCTTCCTAATGAGATACTGAGAAG-TGGATCGAAGCAATAAAATGATTAGCTTCCTGATGAGA
66 CAGCTTCCTGATGAGATACTGAGAAGCAGG-TCGAAGCAATAAAATGGTTAGCTTCCTGATGAGA
*
18328079 TACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAGCGGATTGAAACAAGTGAG
130 TACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAG
* *
18328144 GCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTAAGCAAATTTT
195 GCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTT
* *
18328209 CGAACCCTAGCTTCTTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAATGGTTAGCTTCCTG
260 CGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTG
*
18328274 ATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCAGATTGAAACA
324 ATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACA
18328339 AGTGAGGCGGTCA
389 AGTGAGGCGGTCA
* * *
18328352 TCTTCTTGATGAGATACAGAGAAGTATACCAGCTCAAGGCTCAAAGCGAGCAAATCTTTGAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGCGAGCAAATCTTCGAACCC
* * * * *
18328417 CAACTTCCTGATGAGATACTGAGAAGCGGGTCAAAGTAATAAAATGGTTAGCTTCTTGATGAGAT
66 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
* * * *
18328482 ATTGAGAAGTTGACCAAATTCGTCTTCCTGATGAGATACAAAGAAGCAGATTGAAACAAGTGAGG
131 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
*
18328547 TGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTC
196 CGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTC
* * * *
18328612 GAACCCAGTTTCCTAATGAGATACTGAGAAGTAGGTTGAAGCAATAAAATGGTTAGCTTCCTGAT
261 GAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGAT
18328677 GAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAG
326 GAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAG
*
18328742 TGAGGTGGTCA
391 TGAGGCGGTCA
*
18328753 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTCGAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGCGAGCAAATCTTCGAACCC
**
18328818 CAGCTTCCTGATGAGATACTGAGAAATAGGTCGAA-CAATAAAATGGTTAGCTTCCTGATGAGAT
66 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
* * *
18328882 ATTGAGAAGTGGACCAAATTTGTCTTCCTGATGAAATACAGAGAAGCGGATTGAAACAAGTGAGG
131 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
** *
18328947 CGGTCATCTAACTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGCGAGCAAATCTTC
196 CGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTC
18329012 GAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGA
261 GAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGA
* *
18329077 TGAGATATTGAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAA
325 TGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAA
18329142 GTGAGGCGGTCA
390 GTGAGGCGGTCA
** *
18329154 TCTAACTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGCGAGCAAATCTTCAAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGCGAGCAAATCTTCGAACCC
18329219 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
66 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
* * *
18329284 ACTAAGAAGTGGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGATG
131 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
* * * ** * * *
18329349 CAGTCATCTTCTTGATAAGATATTGAGAAGTAGACCAAATCAATGAAACCAGGCTTAAAGTGAGC
196 CGGTCATCTTCCTGATGAGATACAGAGAAGTATACC-AA-C--T----CAAGGCTCAAAGTGAGC
* * ** *
18329414 AAATCTTCGAACCTTAGCTTCCTGATAAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTAC
253 AAATCTTCGAACC-CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAG
* * * * * * * * *
18329479 CTTCCTGATAAGATACAGAGAAGTGAACCAGATCCGTCTTCTTGATAAGACACAGAGAAGTGGAT
317 CTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGAT
** * *
18329544 CAAAACAAGTGATGAGGTCA
382 TGAAACAAGTGAGGCGGTCA
* *
18329564 TCTTCCTGATTAGATACTGAGAAGTA
1 TCTTCCTGATGAGATACAGAGAAGTA
18329590 GGCCAAATCA
Statistics
Matches: 1126, Mismatches: 100, Indels: 16
0.91 0.08 0.01
Matches are distributed among these distances:
400 151 0.13
401 445 0.40
402 359 0.32
403 4 0.00
404 1 0.00
406 1 0.00
409 2 0.00
410 163 0.14
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (401 bp):
TCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGCGAGCAAATCTTCGAACCC
CAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGAT
ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGTGAGG
CGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAAGGCTCAAAGTGAGCAAATCTTC
GAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGAT
GAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAG
TGAGGCGGTCA
Found at i:18329919 original size:11 final size:11
Alignment explanation
Indices: 18329903--18330027 Score: 67
Period size: 11 Copynumber: 11.0 Consensus size: 11
18329893 TAAACCCATT
18329903 TTTTAAATTTA
1 TTTTAAATTTA
*
18329914 TTTTAAGATTAA
1 TTTTAA-ATTTA
* *
18329926 GTTT-ATTTTAA
1 TTTTAAATTT-A
* *
18329937 ATTTAAATTTG
1 TTTTAAATTTA
18329948 TTTTAAATTTAA
1 TTTTAAATTT-A
*
18329960 ATTT-AATTTAA
1 TTTTAAATTT-A
* *
18329971 GTTTAAATTTG
1 TTTTAAATTTA
*
18329982 TTTAAAATTTAA
1 TTTTAAATTT-A
*
18329994 GTTT-AATTTAA
1 TTTTAAATTT-A
*
18330005 GTTTAAATTTA
1 TTTTAAATTTA
18330016 TTTTTAAATTTA
1 -TTTTAAATTTA
18330028 AAATTATTCT
Statistics
Matches: 88, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
10 2 0.02
11 50 0.57
12 36 0.41
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (11 bp):
TTTTAAATTTA
Found at i:18329930 original size:17 final size:18
Alignment explanation
Indices: 18329904--18330046 Score: 140
Period size: 17 Copynumber: 8.3 Consensus size: 18
18329894 AAACCCATTT
18329904 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
*
18329922 -TTAAGTTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
*
18329938 TTTAAATTTGTTTTAA-A
1 TTTAAATTTATTTTAAGA
*
18329955 TTTAAATTTAATTTAAG-
1 TTTAAATTTATTTTAAGA
* *
18329972 TTTAAATTT-GTTTAAAA
1 TTTAAATTTATTTTAAGA
* *
18329989 TTTAAGTTTAATTTAAG-
1 TTTAAATTTATTTTAAGA
18330006 TTTAAATTTATTTTTAA-A
1 TTTAAATTTA-TTTTAAGA
* *
18330024 TTTAAAATTATTCTAA-A
1 TTTAAATTTATTTTAAGA
18330041 TTTAAA
1 TTTAAA
18330047 AAGAATAAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
16 6 0.06
17 80 0.76
18 19 0.18
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:18329942 original size:34 final size:34
Alignment explanation
Indices: 18329904--18330046 Score: 164
Period size: 34 Copynumber: 4.2 Consensus size: 34
18329894 AAACCCATTT
* *
18329904 TTTAAATTTATTTTAAGA-TTAAGTTTATTTTAAA
1 TTTAAATTTATTTTAA-ATTTAAATTTAATTTAAA
* *
18329938 TTTAAATTTGTTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
* * * *
18329972 TTTAAATTTGTTTAAAATTTAAGTTTAATTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
*
18330006 TTTAAATTTATTTTTAAATTTAAAATT-ATTCTAAA
1 TTTAAATTTA-TTTTAAATTTAAATTTAATT-TAAA
18330041 TTTAAA
1 TTTAAA
18330047 AAGAATAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
33 1 0.01
34 72 0.76
35 22 0.23
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.55
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
Found at i:18330721 original size:3 final size:3
Alignment explanation
Indices: 18330713--18330739 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18330703 TAAATAATTT
18330713 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
18330740 AAGGAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18331060 original size:18 final size:19
Alignment explanation
Indices: 18331039--18331075 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
18331029 AACTAAAATA
18331039 AAACAGATCTAA-AAAAAG
1 AAACAGATCTAAGAAAAAG
18331057 AAACAGATCTAAGAAAAAG
1 AAACAGATCTAAGAAAAAG
18331076 GGGTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.65, C:0.11, G:0.14, T:0.11
Consensus pattern (19 bp):
AAACAGATCTAAGAAAAAG
Found at i:18331885 original size:60 final size:59
Alignment explanation
Indices: 18331810--18332128 Score: 232
Period size: 59 Copynumber: 5.4 Consensus size: 59
18331800 AAAAATCACG
*
18331810 TTTTGACCCCTGAACTTTCCAAAAATTATATTTTGACCCTCGAACT-TCACAAAAATTATA
1 TTTTGACCCCCGAAC-TTCCAAAAATTATATTTTGACCCTCGAACTCTC-CAAAAATTATA
* * *
18331870 TTTTGACCCCCGAACTTCACAAAAATTACATTTTTG-CCCTCGAACTCTCCAAAAATCACCA
1 TTTTGACCCCCGAACTTC-CAAAAATTATA-TTTTGACCCTCGAACTCTCCAAAAATTA-TA
* * * *
18331931 TTTT-ACCCTCGAACTTCCTAAAATTGCAT-TTTTGA-CCTCGAACTTTCCAAAAATTATG
1 TTTTGACCCCCGAACTTCCAAAAATT--ATATTTTGACCCTCGAACTCTCCAAAAATTATA
* * * * * *
18331989 TTTTTACACCCGATCATCTAAAAATTACTATTTT-ACCCTCGAA-TGTCCAAAAATTGCAT-
1 TTTTGACCCCCGAACTTCCAAAAATTA-TATTTTGACCCTCGAACTCTCCAAAAATT--ATA
* * * * * *
18332048 TTTTGA-CCTCGAACATCCAAAAATTACAATTTTG--CCTCCAAGTATCCAAAAAATT-TCA
1 TTTTGACCCCCGAACTTCCAAAAATTA-TATTTTGACCCTCGAACTCTCC-AAAAATTAT-A
*
18332106 TTTT-ACCCCCGAAGTGTCCAAAA
1 TTTTGACCCCCGAACT-TCCAAAA
18332129 TTACCGTTTT
Statistics
Matches: 210, Mismatches: 29, Indels: 41
0.75 0.10 0.15
Matches are distributed among these distances:
56 1 0.00
57 8 0.04
58 53 0.25
59 79 0.38
60 56 0.27
61 13 0.06
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.33
Consensus pattern (59 bp):
TTTTGACCCCCGAACTTCCAAAAATTATATTTTGACCCTCGAACTCTCCAAAAATTATA
Found at i:18331963 original size:29 final size:29
Alignment explanation
Indices: 18331799--18332142 Score: 231
Period size: 30 Copynumber: 11.7 Consensus size: 29
18331789 CTGAACTATT
* * *
18331799 CAAAAATCACGTTTTGACCC-CTGAACTTTC
1 CAAAAATTACATTTTTACCCTC-GAAC-TTC
* *
18331829 CAAAAATTATATTTTGACCCTCGAACTTC
1 CAAAAATTACATTTTTACCCTCGAACTTC
* * *
18331858 ACAAAAATTATATTTTGACCCCCGAACTTC
1 -CAAAAATTACATTTTTACCCTCGAACTTC
*
18331888 ACAAAAATTACATTTTTGCCCTCGAACTCTC
1 -CAAAAATTACATTTTTACCCTCGAACT-TC
*
18331919 CAAAAATCACCA-TTTTACCCTCGAACTTC
1 CAAAAATTA-CATTTTTACCCTCGAACTTC
* *
18331948 CTAAAATTGCATTTTTGA-CCTCGAACTTTC
1 CAAAAATTACATTTTT-ACCCTCGAAC-TTC
** * *
18331978 CAAAAATTATGTTTTTACACC-CGATCATC
1 CAAAAATTACATTTTTAC-CCTCGAACTTC
*
18332007 TAAAAATTAC-TATTTTACCCTCGAA-TGTC
1 CAAAAATTACAT-TTTTACCCTCGAACT-TC
* *
18332036 CAAAAATTGCATTTTTGA-CCTCGAACATC
1 CAAAAATTACATTTTT-ACCCTCGAACTTC
* * * *
18332065 CAAAAATTACAATTTT-GCCTCCAAGTATC
1 CAAAAATTACATTTTTACCCTCGAACT-TC
* * *
18332094 CAAAAAATTTCA-TTTTACCCCCGAAGTGTC
1 C-AAAAATTACATTTTTACCCTCGAACT-TC
**
18332124 C-AAAATTACCGTTTTACCC
1 CAAAAATTACATTTTTACCC
18332143 CTCGGGCATC
Statistics
Matches: 256, Mismatches: 38, Indels: 41
0.76 0.11 0.12
Matches are distributed among these distances:
28 18 0.07
29 95 0.37
30 136 0.53
31 7 0.03
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (29 bp):
CAAAAATTACATTTTTACCCTCGAACTTC
Found at i:18332100 original size:30 final size:30
Alignment explanation
Indices: 18332008--18332128 Score: 83
Period size: 29 Copynumber: 4.1 Consensus size: 30
18331998 CCGATCATCT
* *
18332008 AAAAATTACTATTTTACCCTCGAA-TGTCC-
1 AAAAATTAC-ATTTTACCCCCGAAGTATCCA
* * *
18332037 AAAAATTGCATTTTTGA-CCTCGAA-CATCC-
1 AAAAATTACA-TTTT-ACCCCCGAAGTATCCA
* *
18332066 AAAAATTACAATTTTGCCTCC-AAGTATCCA
1 AAAAATTAC-ATTTTACCCCCGAAGTATCCA
* *
18332096 AAAAATTTCATTTTACCCCCGAAGTGTCCA
1 AAAAATTACATTTTACCCCCGAAGTATCCA
18332126 AAA
1 AAA
18332129 TTACCGTTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
28 3 0.04
29 49 0.67
30 21 0.29
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (30 bp):
AAAAATTACATTTTACCCCCGAAGTATCCA
Found at i:18336643 original size:31 final size:35
Alignment explanation
Indices: 18336571--18336659 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 35
18336561 TCAAGAAGAG
* *
18336571 TTTTCTAGTTCCTTGTTGGGTCGAGAACATAACAT
1 TTTTCTAATTCCTTATTGGGTCGAGAACATAACAT
*
18336606 TATTTCTAATTCCCTATTGGGTCGAG-A-AT-A-AT
1 T-TTTCTAATTCCTTATTGGGTCGAGAACATAACAT
18336638 TTTTCTAATTCCTTATTGGGTC
1 TTTTCTAATTCCTTATTGGGTC
18336660 ACAAGTGTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
31 20 0.41
32 3 0.06
33 1 0.02
34 2 0.04
35 2 0.04
36 21 0.43
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (35 bp):
TTTTCTAATTCCTTATTGGGTCGAGAACATAACAT
Found at i:18339522 original size:33 final size:33
Alignment explanation
Indices: 18339479--18339550 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
18339469 TTTCAACTGC
* *
18339479 AGCCTCCACATTCACTCCTTTCTCCATTTCCAA
1 AGCCTTCACATTCACTCCTTTCTCCAATTCCAA
18339512 AGCCTTCACATTCACTCCTTTCTCCAATTCCAA
1 AGCCTTCACATTCACTCCTTTCTCCAATTCCAA
18339545 AGCCTT
1 AGCCTT
18339551 AAACACCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.22, C:0.40, G:0.04, T:0.33
Consensus pattern (33 bp):
AGCCTTCACATTCACTCCTTTCTCCAATTCCAA
Found at i:18358981 original size:226 final size:226
Alignment explanation
Indices: 18358584--18359037 Score: 755
Period size: 226 Copynumber: 2.0 Consensus size: 226
18358574 TAGAGTGCGT
*
18358584 ATCTACTACAAAAGTAGCAATGTTGATAAATGGGTCGGCAATGAATGAATTCAAAATGGGTAAAG
1 ATCTACTACAAAAGTAGCAATGTTGATAAATGGGTCGGCAATGAATGAATTCAAAATAGGTAAAG
* *
18358649 GTCTTCGTCAATGTGATCTACTATCGCCTTTTCTATTTATACTGGTTACAAAAGTATTGCATTTG
66 GTCTTCGTCAATGTGATCCACTATCGCCTTTTCTATTTATACTGGTTACAAAAGTATTGCATCTG
18358714 ATGTTGGTGAAAGCGGAAGGGCTGGTGCTGATCGATGGGATTCAAGATATCATAACGGATAGATC
131 ATGTTGGTGAAAGCGGAAGGGCTGGTGCTGATCGATGGGATTCAAGATATCATAACGGATAGATC
* *
18358779 ATTTTCCAATTTATAGTTTGCGGACGATACA
196 ATTTTCCAATTTACAGTTTACGGACGATACA
* * * * **
18358810 ATCTACTACAAGAGTAGCAATGTTGGTAAATGGTTCGGCGATGAATGAATTCCGAATAGGTAAAG
1 ATCTACTACAAAAGTAGCAATGTTGATAAATGGGTCGGCAATGAATGAATTCAAAATAGGTAAAG
* *
18358875 GTCTTTGTTAATGTGATCCACTATCGCCTTTTCTATTTATACTGGTTACAAAAGTATTGCATCTG
66 GTCTTCGTCAATGTGATCCACTATCGCCTTTTCTATTTATACTGGTTACAAAAGTATTGCATCTG
* * * *
18358940 ATGTTGGTGAAAGCGGAAGGGCTGGTGCTGATCGGTGGGATTCAAGATGTCATAACGTATATATC
131 ATGTTGGTGAAAGCGGAAGGGCTGGTGCTGATCGATGGGATTCAAGATATCATAACGGATAGATC
18359005 ATTTTCCAATTTACAGTTTACGGACGATACA
196 ATTTTCCAATTTACAGTTTACGGACGATACA
18359036 AT
1 AT
18359038 TTTCTTTTTG
Statistics
Matches: 211, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
226 211 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (226 bp):
ATCTACTACAAAAGTAGCAATGTTGATAAATGGGTCGGCAATGAATGAATTCAAAATAGGTAAAG
GTCTTCGTCAATGTGATCCACTATCGCCTTTTCTATTTATACTGGTTACAAAAGTATTGCATCTG
ATGTTGGTGAAAGCGGAAGGGCTGGTGCTGATCGATGGGATTCAAGATATCATAACGGATAGATC
ATTTTCCAATTTACAGTTTACGGACGATACA
Found at i:18362488 original size:42 final size:42
Alignment explanation
Indices: 18362388--18362534 Score: 154
Period size: 42 Copynumber: 3.5 Consensus size: 42
18362378 TGATGTATAA
* * * * *
18362388 AAAGGAAGACTAATGTCTCAGGTTGAGCATAAGAATT-TGAAT
1 AAAGGAAGACTCATGTCTCGGGATGAGAATAAG-ATTATGATT
18362430 AAATGGAAGACTCATGTCTCGGGAT-AGGAATAAGATTATGATT
1 AAA-GGAAGACTCATGTCTCGGGATGA-GAATAAGATTATGATT
* * *
18362473 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGAATATGATT
1 AAAGGAAGACTCATGTCTCGGGATGAGAATAAGATTATGATT
* * *
18362515 TAAGGAAGACTTATGACTCG
1 AAAGGAAGACTCATGTCTCG
18362535 ATAGAGCATA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
42 58 0.64
43 32 0.36
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGGGATGAGAATAAGATTATGATT
Found at i:18366804 original size:19 final size:21
Alignment explanation
Indices: 18366782--18366824 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
18366772 AATCAAAAAT
*
18366782 AAATGTTAAA-ATTCA-TTAA
1 AAATATTAAATATTCATTTAA
*
18366801 AAATATTAAATATTTATTTAA
1 AAATATTAAATATTCATTTAA
18366822 AAA
1 AAA
18366825 ATTTTACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 4 0.20
21 7 0.35
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAATATTAAATATTCATTTAA
Found at i:18368021 original size:2 final size:2
Alignment explanation
Indices: 18368014--18368069 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
18368004 TGTTTCCTTT
18368014 TA TA TA 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
18368056 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
18368070 ATAAACTAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18378608 original size:47 final size:46
Alignment explanation
Indices: 18378555--18378679 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 46
18378545 GTTAGTTTGT
* * * * *
18378555 GTTTATTTGAATTTGATGTTGATATTGATTGTGATTTTTTATTTAGG
1 GTTTATTCGAATTTGAT-TTGATTTTGATTGTCATTTTTGATTTAGA
*
18378602 GTTTATTCG-ATTTCGATTTTGATTTTGATTTTCATTTTTGATTTAGA
1 GTTTATTCGAATTT-GA-TTTGATTTTGATTGTCATTTTTGATTTAGA
*
18378649 GTTTATTCGATTTTGATTTGGATTTTGATTG
1 GTTTATTCGAATTTGATTT-GATTTTGATTG
18378680 CTACAGTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
46 7 0.11
47 55 0.83
48 4 0.06
ACGTcount: A:0.19, C:0.03, G:0.19, T:0.58
Consensus pattern (46 bp):
GTTTATTCGAATTTGATTTGATTTTGATTGTCATTTTTGATTTAGA
Found at i:18378633 original size:6 final size:6
Alignment explanation
Indices: 18378610--18378678 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
18378600 GGGTTTATTC
* * * * *
18378610 GATTTC GATTTT GATTTT GATTTT CATTTTT GATTTA GAGTTT -A-TTC
1 GATTTT GATTTT GATTTT GATTTT GA-TTTT GATTTT GATTTT GATTTT
*
18378657 GATTTT GATTTG GATTTT GATT
1 GATTTT GATTTT GATTTT GATT
18378679 GCTACAGTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
6 41 0.82
7 5 0.10
ACGTcount: A:0.19, C:0.04, G:0.17, T:0.59
Consensus pattern (6 bp):
GATTTT
Found at i:18379035 original size:41 final size:42
Alignment explanation
Indices: 18378977--18379133 Score: 194
Period size: 41 Copynumber: 3.6 Consensus size: 42
18378967 TTGTATCATG
*
18378977 GTTTGTATTATATATATGCTCTCTATATATTCAAGTATTGTA
1 GTTTGTATTATATATATGCTCTATATATATTCAAGTATTGTA
18379019 GTTTGT-TTATATATATGCTCTATATATATTCAAGTACTGTGACATA
1 GTTTGTATTATATATATGCTCTATATATATTCAAGTA-T-TG---TA
*
18379065 -TATATATATATATATATATGCTCTATATATATTCAAGTATTGTA
1 GT-T-TGTAT-TATATATATGCTCTATATATATTCAAGTATTGTA
*
18379109 GTTTGT-TTATATATATGCTTTATAT
1 GTTTGTATTATATATATGCTCTATAT
18379134 TTGACATGCA
Statistics
Matches: 101, Mismatches: 4, Indels: 21
0.80 0.03 0.17
Matches are distributed among these distances:
41 46 0.46
42 8 0.08
43 4 0.04
44 3 0.03
45 2 0.02
46 3 0.03
47 4 0.04
48 2 0.02
49 29 0.29
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (42 bp):
GTTTGTATTATATATATGCTCTATATATATTCAAGTATTGTA
Found at i:18379337 original size:7 final size:7
Alignment explanation
Indices: 18379325--18379351 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
18379315 ATATGCAGAT
18379325 TTGTTTA
1 TTGTTTA
18379332 TTGTTTA
1 TTGTTTA
18379339 TTGTTTA
1 TTGTTTA
18379346 TTGTTT
1 TTGTTT
18379352 GCCATTGCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.15, T:0.74
Consensus pattern (7 bp):
TTGTTTA
Found at i:18379661 original size:33 final size:33
Alignment explanation
Indices: 18379569--18379667 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
18379559 CCCTTTGTTA
* * *
18379569 TATTAAATGTTTGTTTCTCGTCTAATAGTAATG
1 TATTAAATGTTTGTTTCTGGTCTGATAGTGATG
* *
18379602 TATTAGAA-GTTTGTTTTTGGTTTGATAGTGATG
1 TATTA-AATGTTTGTTTCTGGTCTGATAGTGATG
*
18379635 TATTAAATGTTTGTTTGTGGTCTGATAGTGATG
1 TATTAAATGTTTGTTTCTGGTCTGATAGTGATG
18379668 AGTAATTTGT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.04
33 53 0.93
34 2 0.04
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.49
Consensus pattern (33 bp):
TATTAAATGTTTGTTTCTGGTCTGATAGTGATG
Found at i:18381484 original size:24 final size:24
Alignment explanation
Indices: 18381356--18381474 Score: 166
Period size: 26 Copynumber: 4.8 Consensus size: 24
18381346 TAAGTTACCC
18381356 TTTTTAATATTATTTTGTATGTTG
1 TTTTTAATATTATTTTGTATGTTG
18381380 TTTTTAATATTATTTTGTATGTTG
1 TTTTTAATATTATTTTGTATGTTG
*
18381404 TTCTTTATTATTTATTTTGTATGTTG
1 TT-TTTAATA-TTATTTTGTATGTTG
* * *
18381430 TTCTTTATTTTTTATTTTGTATGATG
1 TT-TTTA-ATATTATTTTGTATGTTG
18381456 TTTTTAATATTATTTTGTA
1 TTTTTAATATTATTTTGTA
18381475 AGCTATTTTT
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
24 37 0.43
25 10 0.11
26 38 0.44
27 2 0.02
ACGTcount: A:0.19, C:0.02, G:0.11, T:0.68
Consensus pattern (24 bp):
TTTTTAATATTATTTTGTATGTTG
Found at i:18382592 original size:27 final size:27
Alignment explanation
Indices: 18382553--18382606 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18382543 CAATAGTTTT
*
18382553 TCATTCATTTCTTTTCTAAACAATTTG
1 TCATTCATATCTTTTCTAAACAATTTG
* * *
18382580 TCATTCCTATCTTTTGTAAACATTTTG
1 TCATTCATATCTTTTCTAAACAATTTG
18382607 GCGTTTAACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.19, G:0.06, T:0.52
Consensus pattern (27 bp):
TCATTCATATCTTTTCTAAACAATTTG
Found at i:18391503 original size:43 final size:43
Alignment explanation
Indices: 18391441--18391537 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 43
18391431 AACTGCACAA
*
18391441 TTAATAACATGTTACGATATTAACAAGGGTCAAGTAATATAAT
1 TTAATAACATGTCACGATATTAACAAGGGTCAAGTAATATAAT
* * *
18391484 TTAATAACATGTCATGATATTAACACGGGTCAAGTAGTATAAT
1 TTAATAACATGTCACGATATTAACAAGGGTCAAGTAATATAAT
*
18391527 TTAATAGCATG
1 TTAATAACATG
18391538 GCAAGGAGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (43 bp):
TTAATAACATGTCACGATATTAACAAGGGTCAAGTAATATAAT
Found at i:18393213 original size:287 final size:286
Alignment explanation
Indices: 18392866--18393422 Score: 702
Period size: 287 Copynumber: 1.9 Consensus size: 286
18392856 TTTATAAAAT
* * * *
18392866 TTACTAACAAAATTAAATTAAATTAAATTAAAAACAACAAAATTTACCTTTCTTTCTCTCCCTTT
1 TTACTAAAAAAATAAAATTAAATTAAATAAAAAACAACAAAACTTACCTTTCTTTCTCTCCCTTT
* * * * *
18392931 AATCTAC-CTTACTAAATAA-AATAATTAATAACAAATCGCATAAAAATT-AA-AAACCTAAACA
66 AACCTACTC-TACTAAATAACAA-AATTAATAACAAACCACATAAAAATTAAACAAAACAAAACA
* * ***** *
18392992 AATAATTT-TAGCTAA-A-A-AAATTAA-ATTAAATTAAACTAAACAAATAATTTGTAATAATAA
129 AATAATTTAT-GATAATATATAAATTAACATTAAATTAAA-TAAA-AAACAAACAACAA-AACAA
* * *
18393052 TTACCTTTCTTTTAGTTTTTTTTCTTCCTTTAATATACCTACTAAACAAAAAAAATTATAACAAA
190 TTACCTTTCTTTTAG-CTTTTTTCTTCATTTAATATACCAACTAAACAAAAAAAATTATAACAAA
18393117 TCACATCAACATTAAACTAATTTTTTTTATTATAA
254 TCA-ATC-ACATTAAACTAATTTTTTTTATTATAA
18393152 TTACTAAAAAAATAAAATTAAATTAAA-AACAACAACAACAAAACTTACCTTTCTTTCTCTCCCT
1 TTACTAAAAAAATAAAATTAAATTAAATAA-AA-AACAACAAAACTTACCTTTCTTTCTCTCCCT
*
18393216 TTAACCTACTCTACTGAATAACAAAATTAATAACAAACCACATAAAAATTAAACAAAACAAAACA
64 TTAACCTACTCTACTAAATAACAAAATTAATAACAAACCACATAAAAATTAAACAAAACAAAACA
* *
18393281 AATAATTTATGATAATTATTATAAATTAACTTTAAATTAAATAAAAAACAAACAACAAAACATTT
129 AATAATTTATGATAA-TA-TATAAATTAACATTAAATTAAATAAAAAACAAACAACAAAACAATT
* *
18393346 ACCTTTCTTTTAGCTTTTTTCTTCATTTAATCTACCAACTAAACAAATAAAATTATAACAAATCA
192 ACCTTTCTTTTAGCTTTTTTCTTCATTTAATATACCAACTAAACAAAAAAAATTATAACAAATCA
18393411 ATCACATTAAAC
257 ATCACATTAAAC
18393423 ATTAAAATTA
Statistics
Matches: 233, Mismatches: 25, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
285 1 0.00
286 27 0.12
287 71 0.30
288 5 0.02
289 30 0.13
290 4 0.02
291 48 0.21
292 18 0.08
293 8 0.03
294 11 0.05
295 10 0.04
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (286 bp):
TTACTAAAAAAATAAAATTAAATTAAATAAAAAACAACAAAACTTACCTTTCTTTCTCTCCCTTT
AACCTACTCTACTAAATAACAAAATTAATAACAAACCACATAAAAATTAAACAAAACAAAACAAA
TAATTTATGATAATATATAAATTAACATTAAATTAAATAAAAAACAAACAACAAAACAATTACCT
TTCTTTTAGCTTTTTTCTTCATTTAATATACCAACTAAACAAAAAAAATTATAACAAATCAATCA
CATTAAACTAATTTTTTTTATTATAA
Found at i:18393949 original size:6 final size:5
Alignment explanation
Indices: 18393921--18393954 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
18393911 CACCACCAAA
18393921 TATTT TATTT TATTT TATTT TATTTT TATTT TAT
1 TATTT TATTT TATTT TATTT TA-TTT TATTT TAT
18393955 AATATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:18408745 original size:83 final size:83
Alignment explanation
Indices: 18408560--18408738 Score: 349
Period size: 83 Copynumber: 2.2 Consensus size: 83
18408550 TTTTGTCCTT
18408560 ACATGAACTAAATAATATAATTCTCTCATTGCAAACAATTAAAATTTGTTACATATACTTATTTT
1 ACATGAACTAAATAATATAATTCTCTCATTGCAAACAATTAAAATTTGTTACATATACTTATTTT
18408625 CATTTTATATTTACTTCA
66 CATTTTATATTTACTTCA
18408643 ACATGAACTAAATAATATAATTCTCTCATTGCAAACAATTAAAATTTGTTACATATACTTATTTT
1 ACATGAACTAAATAATATAATTCTCTCATTGCAAACAATTAAAATTTGTTACATATACTTATTTT
18408708 CATTTTATATTTACTTCA
66 CATTTTATATTTACTTCA
*
18408726 ACATAAACTAAAT
1 ACATGAACTAAAT
18408739 TTTATAAAAC
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 95 1.00
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (83 bp):
ACATGAACTAAATAATATAATTCTCTCATTGCAAACAATTAAAATTTGTTACATATACTTATTTT
CATTTTATATTTACTTCA
Found at i:18409920 original size:67 final size:67
Alignment explanation
Indices: 18409809--18409937 Score: 222
Period size: 67 Copynumber: 1.9 Consensus size: 67
18409799 TTCATGCATT
* *
18409809 AGTTTATTACGAGCATACCAAAGGCCCTAGATTGTAACTGCTATTTCTGCATGTTTTATTGTACA
1 AGTTTATTACGAGCATACCAAAGGCCCCAGATTGTAACTACTATTTCTGCATGTTTTATTGTACA
18409874 TA
66 TA
* *
18409876 AGTTTATTACGAGCATACCAAAGTCCCCAGATTGTAGCTACTATTTCTGCATGTTTTATTGT
1 AGTTTATTACGAGCATACCAAAGGCCCCAGATTGTAACTACTATTTCTGCATGTTTTATTGT
18409938 GCTGTAGTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (67 bp):
AGTTTATTACGAGCATACCAAAGGCCCCAGATTGTAACTACTATTTCTGCATGTTTTATTGTACA
TA
Found at i:18416000 original size:34 final size:34
Alignment explanation
Indices: 18415971--18416036 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
18415961 AAAAATACCT
*
18415971 TTAAATTAA-TATTTATTACTTTGCTAAAATAAAA
1 TTAAA-TAATTATTCATTACTTTGCTAAAATAAAA
*
18416005 TTAAATAATTATTCATTACTTTGTTAAAATAA
1 TTAAATAATTATTCATTACTTTGCTAAAATAA
18416037 GGATATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 3 0.10
34 26 0.90
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (34 bp):
TTAAATAATTATTCATTACTTTGCTAAAATAAAA
Found at i:18417583 original size:17 final size:17
Alignment explanation
Indices: 18417541--18417633 Score: 105
Period size: 17 Copynumber: 5.3 Consensus size: 17
18417531 TTAAACCCAT
18417541 TTTAAGATTTATTTTAAA
1 TTTAA-ATTTATTTTAAA
* *
18417559 GATTAAATTTATTTTGAA
1 -TTTAAATTTATTTTAAA
*
18417577 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
18417594 TTTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
* *
18417612 TTTAGATTTAATTTAAA
1 TTTAAATTTATTTTAAA
18417629 TTTAA
1 TTTAA
18417634 GACTTAATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
17 34 0.55
18 24 0.39
19 4 0.06
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:18417588 original size:35 final size:36
Alignment explanation
Indices: 18417551--18417633 Score: 59
Period size: 35 Copynumber: 2.4 Consensus size: 36
18417541 TTTAAGATTT
* *
18417551 ATTTTAAAGA-TTAAATTTATTTTGAA-TTTAAATTT
1 ATTTTAAA-ATTTAAATTTATTTTAAAGATTAAATTT
* * *
18417586 ATTTT-AAGTTTAAATTTGTTTTAAA-ATTTAGATTT
1 ATTTTAAAATTTAAATTTATTTTAAAGA-TTAAATTT
*
18417621 AATTT-AAATTTAA
1 ATTTTAAAATTTAA
18417634 GACTTAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 16 0.41
35 23 0.59
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (36 bp):
ATTTTAAAATTTAAATTTATTTTAAAGATTAAATTT
Found at i:18419288 original size:30 final size:29
Alignment explanation
Indices: 18419253--18419326 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
18419243 CTAAACTGTC
18419253 CAAAAATTATATTTTGACCCCAAAACTTT
1 CAAAAATTATATTTTGACCCCAAAACTTT
* * *
18419282 CTAAAAATTACATTTTTACCCCTAAACTTT
1 C-AAAAATTATATTTTGACCCCAAAACTTT
* *
18419312 CCAAAATTCTATTTT
1 CAAAAATTATATTTT
18419327 TGAACTCGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 12 0.32
30 26 0.68
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (29 bp):
CAAAAATTATATTTTGACCCCAAAACTTT
Found at i:18419436 original size:59 final size:59
Alignment explanation
Indices: 18419284--18419861 Score: 724
Period size: 59 Copynumber: 9.8 Consensus size: 59
18419274 AAAACTTTCT
* *
18419284 AAAAATTA-CATTTTTACCCCTAAACTTTCCAAAATTCTATTTTTGAA-CTCGATTTCACC
1 AAAAATTACCA-TTTTACCCCTAAACTTTCCAAAATTCCATTTTT-AACCCCGATTTCACC
*
18419343 -AAAATTACCATTTTACCCCAAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * * **
18419401 AAAGATTACCATTTTACCCCTAAAATTTCTAAAATTCCATTTTTTACCCTAATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
**
18419460 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTGAA-CCTAATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTT-AACCCCGATTTCACC
* * * * * * *
18419519 AAAAGTTACCATTTTACCCCCAAAATTTCCAAATTTCCATTTTT-ACTCTGATTTTACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * *
18419577 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTGACCCCGATCTAACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * * * *
18419636 AAAAATTACCATTTTA-GCCTTAACTTTCCAATATCCCATTTTTTACCCCGATCTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* *
18419694 AAAAAATTACCATTTTAGCTCC-AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
1 -AAAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* *
18419754 AAAAATTACCATTTTA-CCCTCAAACTTTCCAAAA-TCTCATTTTTCACCCCGATTTTACC
1 AAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTC-CATTTTTAACCCCGATTTCACC
* *
18419813 AAAAATTACCATTTTACCCCTAAACATTCCAAAATCCCATTTTTAACCC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCC
18419862 TAAAGTATCC
Statistics
Matches: 458, Mismatches: 47, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
57 5 0.01
58 135 0.29
59 276 0.60
60 40 0.09
61 2 0.00
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:18419448 original size:30 final size:30
Alignment explanation
Indices: 18419264--18419626 Score: 98
Period size: 29 Copynumber: 12.3 Consensus size: 30
18419254 AAAAATTATA
* *
18419264 TTTTGACCCC-AAAACTTTCTAAAAATTACA-
1 TTTTTACCCCTAAAA-TTTC-AAAAATTCCAT
* * *
18419294 TTTTTACCCCTAAACTTTCCAAAATTCTAT
1 TTTTTACCCCTAAAATTTCAAAAATTCCAT
* * **
18419324 TTTTGA--ACT-CGATTTCACCAAAATTACCA-
1 TTTTTACCCCTAAAATTTCA--AAAATT-CCAT
*
18419353 -TTTTACCCC-AAAACTTTCCAAAATTCCAT
1 TTTTTACCCCTAAAA-TTTCAAAAATTCCAT
* *
18419382 TTTTAACCCC---GATTTCACCAAAGATTACCA-
1 TTTTTACCCCTAAAATTTCA--AAA-ATT-CCAT
*
18419412 -TTTTACCCCTAAAATTTCTAAAATTCCAT
1 TTTTTACCCCTAAAATTTCAAAAATTCCAT
18419441 TTTTTA-CCCT--AATTTCACCAAAAATTACCA-
1 TTTTTACCCCTAAAATTT---CAAAAATT-CCAT
* *
18419471 -TTTTACCCCTAAACTTTCCAAAATTCCAT
1 TTTTTACCCCTAAAATTTCAAAAATTCCAT
* *
18419500 TTTTGA-ACCT--AATTTCACCAAAAGTTACCA-
1 TTTTTACCCCTAAAATTTCA--AAAA-TT-CCAT
* * *
18419530 -TTTTACCCCCAAAATTTCCAAATTTCCA-
1 TTTTTACCCCTAAAATTTCAAAAATTCCAT
* * *
18419558 TTTTTA-CTCT-GATTTTACCAAAAATTACCA-
1 TTTTTACCCCTAAAATTT--CAAAAATT-CCAT
* * *
18419588 -TTTTACCCCTAAACTTTCCAAAATCCCAT
1 TTTTTACCCCTAAAATTTCAAAAATTCCAT
*
18419617 TTTTGACCCC
1 TTTTTACCCC
18419627 GATCTAACCA
Statistics
Matches: 242, Mismatches: 47, Indels: 88
0.64 0.12 0.23
Matches are distributed among these distances:
27 22 0.09
28 24 0.10
29 84 0.35
30 77 0.32
31 20 0.08
32 15 0.06
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (30 bp):
TTTTTACCCCTAAAATTTCAAAAATTCCAT
Found at i:18419706 original size:235 final size:234
Alignment explanation
Indices: 18419284--18419861 Score: 763
Period size: 235 Copynumber: 2.5 Consensus size: 234
18419274 AAAACTTTCT
* * *
18419284 AAAAATTA-CATTTTTACCCCTAAACTTTCCAAAATTCTATTTTTGAACTCGATTTCACC-AAAA
1 AAAAATTACCA-TTTTACCCCCAAACTTTCC-AAATTCCATTTTT-AACTCGATTTTACCAAAAA
* * * * *
18419347 TTACCATTTTACCCCAAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAGATTACCA
63 TTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATCTAACCAAAAATTACCA
* * * *
18419412 TTTTACCCCTAAAATTTCTAAAATTCCATTTTTTACCCTAATTTCACCAAAAATTACCATTTTA-
128 TTTTACCCCTAAAATTTCCAAAATCCCATTTTTTACCCCAATCTCACCAAAAATTACCATTTTAG
* *
18419476 CCCCTAAACTTTCCAAAATTCCATTTTTGAA-CCTAATTTCACC
193 CCCC-AAACTTTCCAAAATCCCATTTTT-AACCCCAATTTCACC
* *
18419519 AAAAGTTACCATTTTACCCCCAAAATTTCCAAATTTCCATTTTT-ACTCTGATTTTACCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAA-TTCCATTTTTAACTC-GATTTTACCAAAAAT
*
18419583 TACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTGACCCCGATCTAACCAAAAATTACCAT
64 TACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATCTAACCAAAAATTACCAT
* * * * *
18419648 TTTA-GCCTTAACTTTCCAATATCCCATTTTTTACCCCGATCTCACCAAAAAATTACCATTTTAG
129 TTTACCCCTAAAATTTCCAAAATCCCATTTTTTACCCCAATCTCACC-AAAAATTACCATTTTAG
* *
18419712 CTCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
193 CCCCAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
* * * *
18419754 AAAAATTACCATTTTACCCTCAAACTTTCCAAAATCTCATTTTTCACCCCGATTTTACCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAATTC-CATTTTT-AACTCGATTTTACCAAAAAT
*
18419819 TACCATTTTACCCCTAAACATTCCAAAATCCCATTTTTAACCC
64 TACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCC
18419862 TAAAGTATCC
Statistics
Matches: 301, Mismatches: 32, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
233 4 0.01
234 48 0.16
235 186 0.62
236 61 0.20
237 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.35
Consensus pattern (234 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAATTCCATTTTTAACTCGATTTTACCAAAAATTA
CCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCCCGATCTAACCAAAAATTACCATTT
TACCCCTAAAATTTCCAAAATCCCATTTTTTACCCCAATCTCACCAAAAATTACCATTTTAGCCC
CAAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACC
Found at i:18419755 original size:29 final size:27
Alignment explanation
Indices: 18419723--18419816 Score: 66
Period size: 29 Copynumber: 3.2 Consensus size: 27
18419713 TCCAAACTTT
18419723 CCAAAATCCCATTTTTAACCCCGATTTCA
1 CCAAAATCCCATTTTT-ACCCCGATTT-A
* *
18419752 CCAAAAATTACCA-TTTTACCCTCAAACTTT-
1 CC-AAAA-TCCCATTTTTACCC-C-GA-TTTA
*
18419782 CCAAAATCTCATTTTTCACCCCGATTTTA
1 CCAAAATCCCATTTTT-ACCCCGA-TTTA
18419811 CCAAAA
1 CCAAAA
18419817 ATTACCATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
28 7 0.14
29 21 0.41
30 15 0.29
31 5 0.10
32 3 0.06
ACGTcount: A:0.34, C:0.32, G:0.02, T:0.32
Consensus pattern (27 bp):
CCAAAATCCCATTTTTACCCCGATTTA
Found at i:18422638 original size:21 final size:21
Alignment explanation
Indices: 18422614--18422665 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
18422604 TGAGACAATA
18422614 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* *
18422635 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
*
18422656 ATACCGATAC
1 CTACCGATAC
18422666 TAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:18422757 original size:21 final size:21
Alignment explanation
Indices: 18422706--18422750 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
18422696 CCTACAACTT
* *
18422706 CTACAGATGCAAGTATTCAGA
1 CTACTGATACAAGTATTCAGA
18422727 CTACTGATACAAGTATTCAGA
1 CTACTGATACAAGTATTCAGA
18422748 CTA
1 CTA
18422751 TCGATACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (21 bp):
CTACTGATACAAGTATTCAGA
Found at i:18423448 original size:28 final size:28
Alignment explanation
Indices: 18423404--18423458 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
18423394 GATATCTAAT
18423404 TTACTCCTTATTAACCCAAAGGTCATGC
1 TTACTCCTTATTAACCCAAAGGTCATGC
* *
18423432 TTACTCCTTGTTGACCCAAAGGTCATG
1 TTACTCCTTATTAACCCAAAGGTCATG
18423459 ATGCTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (28 bp):
TTACTCCTTATTAACCCAAAGGTCATGC
Found at i:18432649 original size:19 final size:20
Alignment explanation
Indices: 18432627--18432665 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18432617 AATTATGAAT
*
18432627 CAAAA-TAAATAAGAAAATA
1 CAAAATTAAATAAAAAAATA
*
18432646 CAAAATTAATTAAAAAAATA
1 CAAAATTAAATAAAAAAATA
18432666 ATAATAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
CAAAATTAAATAAAAAAATA
Found at i:18432790 original size:29 final size:29
Alignment explanation
Indices: 18432747--18433025 Score: 208
Period size: 29 Copynumber: 9.6 Consensus size: 29
18432737 AGGTCGGGGA
*
18432747 TAAAAATGTAATTTTTAAAAGTTCGAGGG
1 TAAAAATGTAATTTTTAAAAGTTTGAGGG
* **
18432776 CAAAAATGTAATTTTTGAGAAA-TTCAAGGG
1 TAAAAATGTAATTTTT-A-AAAGTTTGAGGG
* *
18432806 T-AAAATGTGATTTTTGAGAAGTTTG-GGG
1 TAAAAATGTAATTTTT-AAAAGTTTGAGGG
* * *
18432834 TAAAAATGTGATTTTTATAAGTTTAAGGG
1 TAAAAATGTAATTTTTAAAAGTTTGAGGG
* *
18432863 CAAATATGTAATTTTTAAGAAGTTT-AGGGG
1 TAAAAATGTAATTTTTAA-AAGTTTGA-GGG
* * *
18432893 TTAAAAATGTAATTTTTGAAAG-GTAAGGGG
1 -TAAAAATGTAATTTTTAAAAGTTTGA-GGG
* * ** * *
18432923 TTAAAATGTGATTTTTGGAAGTTTTAGGA
1 TAAAAATGTAATTTTTAAAAGTTTGAGGG
* * *
18432952 TAAAAATATAATTTTGAGAAGTTTGAGGG
1 TAAAAATGTAATTTTTAAAAGTTTGAGGG
* * *
18432981 TAAAAATGTGATTTTGAGAAGTTTGAGGG
1 TAAAAATGTAATTTTTAAAAGTTTGAGGG
* *
18433010 TCAAAATGTGATTTTT
1 TAAAAATGTAATTTTT
18433026 GGATAGTTCA
Statistics
Matches: 206, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
28 13 0.06
29 148 0.72
30 27 0.13
31 18 0.09
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (29 bp):
TAAAAATGTAATTTTTAAAAGTTTGAGGG
Found at i:18432839 original size:58 final size:58
Alignment explanation
Indices: 18432749--18433026 Score: 264
Period size: 58 Copynumber: 4.8 Consensus size: 58
18432739 GTCGGGGATA
* * * * * *
18432749 AAAATGTAATTTTT-AAAAGTTCGAGGGCAAAAATGTAATTTTTGAGAAATTCAAGGGT
1 AAAATGTGATTTTTGAGAAGTTTG-GGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGT
* * *
18432807 AAAATGTGATTTTTGAGAAGTTTGGGGTAAAAATGTGATTTTT-ATAAGTTTAAGGGC
1 AAAATGTGATTTTTGAGAAGTTTGGGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGT
* * *
18432864 AAATATGTAATTTTTAAGAAGTTTAGGGGTTAAAAATGTAATTTTTGA-AAG-GTAAGGGGTT
1 AAA-ATGTGATTTTTGAGAAGTTT-GGGG-TAAAAATGTAATTTTTGAGAAGTTTAA-GGG-T
* * * *
18432925 AAAATGTGATTTTTG-GAAGTTTTAGGATAAAAATATAA-TTTTGAGAAGTTTGAGGGT
1 AAAATGTGATTTTTGAGAAG-TTTGGGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGT
* *
18432982 AAAAATGTGA-TTTTGAGAAGTTTGAGGGTCAAAATGTGATTTTTG
1 -AAAATGTGATTTTTGAGAAGTTTG-GGGTAAAAATGTAATTTTTG
18433027 GATAGTTCAG
Statistics
Matches: 180, Mismatches: 26, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
57 28 0.16
58 87 0.48
59 27 0.15
60 34 0.19
61 4 0.02
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (58 bp):
AAAATGTGATTTTTGAGAAGTTTGGGGTAAAAATGTAATTTTTGAGAAGTTTAAGGGT
Found at i:18432839 original size:87 final size:88
Alignment explanation
Indices: 18432742--18433025 Score: 315
Period size: 87 Copynumber: 3.2 Consensus size: 88
18432732 CGGAGAGGTC
* ** * *
18432742 GGGGATAAAAATGTAATTTTTAAAAGTTCGAGGGCAAAAATGTAATTTTTGAGAAATTCAAGGGT
1 GGGG-TAAAAATGTGATTTTTAAAAGTTTAAGGGCAAAAATGTAATTTTTGAGAAGTTTAAGGGT
18432807 -AAAATGTGATTTTTGAGAAGTTT
65 AAAAATGTGATTTTTGAGAAGTTT
* * * *
18432830 GGGGTAAAAATGTGATTTTTATAAGTTTAAGGGCAAATATGTAATTTTTAAGAAGTTTAGGGGTT
1 GGGGTAAAAATGTGATTTTTAAAAGTTTAAGGGCAAAAATGTAATTTTTGAGAAGTTTAAGGG-T
* **
18432895 AAAAATGTAATTTTTGA-AAGGTAA
65 AAAAATGTGATTTTTGAGAA-GTTT
* ** * ** * *
18432919 GGGGTTAAAATGTGATTTTTGGAAGTTTTAGGATAAAAATATAA-TTTTGAGAAGTTTGAGGGTA
1 GGGGTAAAAATGTGATTTTTAAAAGTTTAAGGGCAAAAATGTAATTTTTGAGAAGTTTAAGGGTA
18432983 AAAATGTGA-TTTTGAGAAGTTT
66 AAAATGTGATTTTTGAGAAGTTT
*
18433005 GAGGGTCAAAATGTGATTTTT
1 G-GGGTAAAAATGTGATTTTT
18433026 GGATAGTTCA
Statistics
Matches: 164, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
86 9 0.05
87 80 0.49
88 22 0.13
89 53 0.32
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (88 bp):
GGGGTAAAAATGTGATTTTTAAAAGTTTAAGGGCAAAAATGTAATTTTTGAGAAGTTTAAGGGTA
AAAATGTGATTTTTGAGAAGTTT
Found at i:18433939 original size:12 final size:13
Alignment explanation
Indices: 18433922--18433950 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18433912 TCGTTTTGAG
18433922 TTTAATCC-TTTT
1 TTTAATCCATTTT
18433934 TTTAATCCATTTT
1 TTTAATCCATTTT
18433947 TTTA
1 TTTA
18433951 CACACATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTAATCCATTTT
Found at i:18434166 original size:12 final size:13
Alignment explanation
Indices: 18434135--18434183 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 13
18434125 ATATTAATTG
18434135 ATAATAAATTATAAT
1 ATAATAAA-TAT-AT
18434150 ATAATAAATATAT
1 ATAATAAATATAT
*
18434163 -TAATACATATAT
1 ATAATAAATATAT
18434175 ATATATAAA
1 ATA-ATAAA
18434184 ACGTCTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 11 0.37
13 4 0.13
14 7 0.23
15 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:18434166 original size:17 final size:17
Alignment explanation
Indices: 18434125--18434167 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 17
18434115 ATAAATGAAG
18434125 ATATTAATTGATAATAAAT
1 ATATTAA-T-ATAATAAAT
18434144 -TA-TAATATAATAAAT
1 ATATTAATATAATAAAT
18434159 ATATTAATA
1 ATATTAATA
18434168 CATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 9 0.41
16 3 0.14
17 8 0.36
18 2 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
ATATTAATATAATAAAT
Found at i:18434244 original size:22 final size:22
Alignment explanation
Indices: 18434218--18434260 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18434208 ATAAATGTAT
*
18434218 TAAATAA-AATATTAATATATAA
1 TAAATAACAA-ATAAATATATAA
18434240 TAAATAACAAATAAATATATA
1 TAAATAACAAATAAATATATA
18434261 CTATTATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAATAACAAATAAATATATAA
Found at i:18434884 original size:17 final size:17
Alignment explanation
Indices: 18434880--18434964 Score: 102
Period size: 17 Copynumber: 5.1 Consensus size: 17
18434870 AAAATAAATT
18434880 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
18434897 TAAATTTAAACTCAAAA
1 TAAATTTAAATTTAAAA
*
18434914 TAAGTTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
18434931 TAAATTTATACTT-AAA
1 TAAATTTAAATTTAAAA
18434947 TAAA-TTAACATTTAAAA
1 TAAATTTAA-ATTTAAAA
18434964 T
1 T
18434965 TTAAAATTGG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
15 3 0.05
16 10 0.18
17 43 0.77
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:18434888 original size:23 final size:23
Alignment explanation
Indices: 18434862--18434906 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
18434852 ATATTTTTAA
18434862 TTAAATTTAAAATAAATTTAAAT
1 TTAAATTTAAAATAAATTTAAAT
18434885 TTAAATTTAAAATAAATTTAAA
1 TTAAATTTAAAATAAATTTAAA
18434907 CTCAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTAAATTTAAAATAAATTTAAAT
Found at i:18434901 original size:34 final size:34
Alignment explanation
Indices: 18434863--18434964 Score: 111
Period size: 34 Copynumber: 3.0 Consensus size: 34
18434853 TATTTTTAAT
*
18434863 TAAATTTAAAAT-AAATTTAAATTTAAATTTAAAA
1 TAAATTTAAAATCAAA-ATAAATTTAAATTTAAAA
* *
18434897 TAAATTTAAACTCAAAATAAGTTTAAATTTAAAA
1 TAAATTTAAAATCAAAATAAATTTAAATTTAAAA
* * *
18434931 TAAATTTATACT-TAAATAAA-TTAACATTTAAAA
1 TAAATTTAAAATCAAAATAAATTTAA-ATTTAAAA
18434964 T
1 T
18434965 TTAAAATTGG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
32 4 0.07
33 15 0.25
34 38 0.63
35 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (34 bp):
TAAATTTAAAATCAAAATAAATTTAAATTTAAAA
Found at i:18434946 original size:40 final size:37
Alignment explanation
Indices: 18434869--18434971 Score: 98
Period size: 40 Copynumber: 2.6 Consensus size: 37
18434859 TAATTAAATT
* *
18434869 TAAAATAAATTTAAATTTAAATTTAAAATAAATTTAAA
1 TAAAATAAATTTAAATTTAAA-ATAAAATAAACTTAAA
* * *
18434907 CTCAAAATAAGTTTAAATTTAAAATAAATTTATACTTAAA
1 -T-AAAATAAATTTAAATTTAAAATAAA-ATAAACTTAAA
*
18434947 TAAATTAACATTTAAAATTTAAAAT
1 TAAAATAA-ATTT-AAATTTAAAAT
18434972 TGGGTTCCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
38 6 0.11
39 9 0.17
40 38 0.72
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (37 bp):
TAAAATAAATTTAAATTTAAAATAAAATAAACTTAAA
Found at i:18435523 original size:39 final size:39
Alignment explanation
Indices: 18435479--18436287 Score: 373
Period size: 39 Copynumber: 20.7 Consensus size: 39
18435469 TGGTTGATAA
*
18435479 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGTTG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
* ** * * * * *
18435518 CAATCTATCCTAGGATCGGGGTAAGAGATCG-GCTGATGG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAAC-GATTG
* ** * **
18435557 TGATCTGCCTTAGGCTCGGGGTAAGAGATCGAACGGCTG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
* * * * * *
18435596 CAATTTGCCTCAAGATCGGGGTAAGAGATTG-ACTGATGG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAAC-GATTG
* * * *
18435635 TTATCTGCCTCAAGCTCGGGGTAAAAGATCGAACGGTTG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
* * * * * ** * *
18435674 CAATCTGCCTCAGGATCAGGACAAGAGAT-TAACTGATGG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAAC-GATTG
* * * * * * **
18435713 TGATCTGCCCTAGGCTCTGGGTAAAAGATCGAATGGCTG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
* * * * * * *
18435752 CAATCTGCCCCAGGCTTGGGGTAAAAGATTG-GCTGATGG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAAC-GATTG
* * * *
18435791 TGATCTGCCCCAAGCTTGGGGTAAGAGATCGAATGGTTG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
* * * * *
18435830 CAATCTGCCCCAGGATCGGGGTAAGAGATTG-ACTGATGG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAAC-GATTG
* * * * * * *
18435869 TGATTTGCCCCATGCTCGGGGTAAAAAATCAGATA--ACTA
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATC-GA-ACGATTG
* * * * **
18435908 CAATCTGCCCCAGGTTCGGGGTAAGAGATCAAACGGCTG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
** * * * *
18435947 TAATCTGCCTTAAGATCAGGGTAAGAGATTG-ACAGATGG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAAC-GATTG
* * * ** *
18435986 TGATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGCTA
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
* * * * * *
18436025 TAATTTACCCCAGGATCGGGGTAAGAGATTG-ACTGATGG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAAC-GATTG
* ** * **
18436064 TAATCTGCCCCAAGCTCGGGGTAACAGATAAAATGGCTG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
* * * * *
18436103 CAATCTGCCCCATA-CTCGGGGTAGGAGATTG-GCTGATGG
1 TAATCTGCCCCA-AGCTCGGGGTAAGAGATCGAAC-GATTG
* **
18436142 TGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
* * * * ** *
18436181 CAATCTACCCCAAGATCGGGGTAAGAGATTGATTGATGG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
* * *
18436220 TGATCTGCCCCAAGCTCGGGGTAAAAGATCAGAA-GACTG
1 TAATCTGCCCCAAGCTCGGGGTAAGAGATC-GAACGATTG
* * * *
18436259 TGATCTGCCCCATGGTCAGGGTAAGAGAT
1 TAATCTGCCCCAAGCTCGGGGTAAGAGAT
18436288 TGGAATCTTC
Statistics
Matches: 548, Mismatches: 199, Indels: 46
0.69 0.25 0.06
Matches are distributed among these distances:
37 1 0.00
38 12 0.02
39 522 0.95
40 12 0.02
42 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (39 bp):
TAATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGATTG
Found at i:18435574 original size:78 final size:77
Alignment explanation
Indices: 18435481--18435892 Score: 473
Period size: 78 Copynumber: 5.3 Consensus size: 77
18435471 GTTGATAATA
*
18435481 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGTTGCAATCTATCCTAGGATCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGTTGCAATCT-CCCTAGGATCGGGGTAAGAGA
* *
18435546 TCGGCTGATGGTG
65 TTGACTGATGGTG
** * * * * *
18435559 ATCTGCCTTAGGCTCGGGGTAAGAGATCGAACGGCTGCAATTTGCCTCAAGATCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGTTGCAATCTCCCT-AGGATCGGGGTAAGAGA
*
18435624 TTGACTGATGGTT
65 TTGACTGATGGTG
* * * * **
18435637 ATCTGCCTCAAGCTCGGGGTAAAAGATCGAACGGTTGCAATCTGCCTCAGGATCAGGACAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGTTGCAATCTCCCT-AGGATCGGGGTAAGAGA
*
18435702 TTAACTGATGGTG
65 TTGACTGATGGTG
* * * * * * * * * *
18435715 ATCTGCCCTAGGCTCTGGGTAAAAGATCGAATGGCTGCAATCTGCCCCAGGCTTGGGGTAAAAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGTTGCAATCT-CCCTAGGATCGGGGTAAGAGA
*
18435780 TTGGCTGATGGTG
65 TTGACTGATGGTG
* * *
18435793 ATCTGCCCCAAGCTTGGGGTAAGAGATCGAATGGTTGCAATCTGCCCCAGGATCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGTTGCAATCT-CCCTAGGATCGGGGTAAGAGA
18435858 TTGACTGATGGTG
65 TTGACTGATGGTG
* *
18435871 ATTTGCCCCATGCTCGGGGTAA
1 ATCTGCCCCAAGCTCGGGGTAA
18435893 AAAATCAGAT
Statistics
Matches: 282, Mismatches: 50, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
77 3 0.01
78 277 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.24
Consensus pattern (77 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGTTGCAATCTCCCTAGGATCGGGGTAAGAGAT
TGACTGATGGTG
Found at i:18435912 original size:78 final size:77
Alignment explanation
Indices: 18435439--18435936 Score: 457
Period size: 78 Copynumber: 6.4 Consensus size: 77
18435429 CTTCGAATGA
* * ** ** *
18435439 CTGCCATCTGCCCCATGATCGGGGT--GAGATTGGTTGATAATAATCTGCCCCAAGCTCGGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTA
*
18435502 AGAGATCGA-ACGG
66 AAAGATCGATA--G
* ** * * * ** *
18435515 TTGCAATCTATCCTAGGATCGGGGTAAGAGATCGGCTGATGGTGATCTGCCTTAGGCTCGGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTA
*
18435580 AGAGATCGA-ACGG
66 AAAGATCGATA--G
* * * * *
18435593 CTGCAATTTGCCTCAAGATCGGGGTAAGAGATTGACTGATGGTTATCTGCCTCAAGCTCGGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTA
18435658 AAAGATCGA-ACGG
66 AAAGATCGATA--G
* * * ** * * * *
18435671 TTGCAATCTGCCTCAGGATCAGGACAAGAGATTAACTGATGGTGATCTGCCCTAGGCTCTGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTA
*
18435736 AAAGATCGAATGG
66 AAAGATCG-ATAG
* * * * *
18435749 CTGCAATCTGCCCCAGGCTTGGGGTAAAAGATTGGCTGATGGTGATCTGCCCCAAGCTTGGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTA
* *
18435814 AGAGATCGAATGG
66 AAAGATCG-ATAG
* * *
18435827 TTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATTTGCCCCATGCTCGGGGTA
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTA
* *
18435892 AAAAATCAGATAA
66 AAAGATC-GATAG
* *
18435905 CTACAATCTGCCCCAGGTTCGGGGTAAGAGAT
1 CTGCAATCTGCCCCAGGATCGGGGTAAGAGAT
18435937 CAAACGGCTG
Statistics
Matches: 347, Mismatches: 70, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
76 19 0.05
78 326 0.94
79 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (77 bp):
CTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTA
AAAGATCGATAG
Found at i:18435975 original size:156 final size:155
Alignment explanation
Indices: 18435439--18435936 Score: 572
Period size: 156 Copynumber: 3.2 Consensus size: 155
18435429 CTTCGAATGA
* * * ** **
18435439 CTGCCATCTGCCCCATGATCGGGGT--GAGATTGGTTGATAATAATCTGCCCCAAGCTCGGGGTA
1 CTGCAATCTGCCCCAGGTTCGGGGTAAGAGATTGACTGATGGTAATCTGCCCCAAGCTCGGGGTA
** * * * *
18435502 AGAGATCGAACGGTTGCAATCTATCCTAGGATCGGGGTAAGAGATCGGCTGATGGTGATCTGCCT
66 AGAGATCGAACGGTTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCC
*
18435567 TAGGCTCGGGGTAAGAGATCGA-ACGG
131 TAGGCTCGGGGTAAAAGATCGATA--G
* * * * * *
18435593 CTGCAATTTGCCTCAAGATCGGGGTAAGAGATTGACTGATGGTTATCTGCCTCAAGCTCGGGGTA
1 CTGCAATCTGCCCCAGGTTCGGGGTAAGAGATTGACTGATGGTAATCTGCCCCAAGCTCGGGGTA
* * * ** *
18435658 AAAGATCGAACGGTTGCAATCTGCCTCAGGATCAGGACAAGAGATTAACTGATGGTGATCTGCCC
66 AGAGATCGAACGGTTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCC
* *
18435723 TAGGCTCTGGGTAAAAGATCGAATGG
131 TAGGCTCGGGGTAAAAGATCG-ATAG
* * * *
18435749 CTGCAATCTGCCCCAGGCTT-GGGGTAAAAGATTGGCTGATGGTGATCTGCCCCAAGCTTGGGGT
1 CTGCAATCTGCCCCAGG-TTCGGGGTAAGAGATTGACTGATGGTAATCTGCCCCAAGCTCGGGGT
* *
18435813 AAGAGATCGAATGGTTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATTTGCC
65 AAGAGATCGAACGGTTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCC
* * * *
18435878 CCATGCTCGGGGTAAAAAATCAGATAA
130 CTAGGCTCGGGGTAAAAGATC-GATAG
*
18435905 CTACAATCTGCCCCAGGTTCGGGGTAAGAGAT
1 CTGCAATCTGCCCCAGGTTCGGGGTAAGAGAT
18435937 CAAACGGCTG
Statistics
Matches: 287, Mismatches: 50, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
154 21 0.07
155 2 0.01
156 261 0.91
157 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (155 bp):
CTGCAATCTGCCCCAGGTTCGGGGTAAGAGATTGACTGATGGTAATCTGCCCCAAGCTCGGGGTA
AGAGATCGAACGGTTGCAATCTGCCCCAGGATCGGGGTAAGAGATTGACTGATGGTGATCTGCCC
TAGGCTCGGGGTAAAAGATCGATAG
Found at i:18435992 original size:78 final size:78
Alignment explanation
Indices: 18435910--18436289 Score: 449
Period size: 78 Copynumber: 4.9 Consensus size: 78
18435900 GATAACTACA
* * * ** *
18435910 ATCTGCCCCAGGTTCGGGGTAAGAGATCAAACGGCTGTAATCTGCCTTAAGATCAGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCAAACGGCTGTAATCTGCCCCAAGATCGGGGTAAGAGA
*
18435975 TTGACAGATGGTG
66 TTGACTGATGGTG
* * * * * *
18435988 ATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGCTATAATTTACCCCAGGATCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCAAACGGCTGTAATCTGCCCCAAGATCGGGGTAAGAGA
*
18436053 TTGACTGATGGTA
66 TTGACTGATGGTG
* * * * * *
18436066 ATCTGCCCCAAGCTCGGGGTAACAGATAAAATGGCTGCAATCTGCCCCATA-CTCGGGGTAGGAG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCAAACGGCTGTAATCTGCCCCA-AGATCGGGGTAAGAG
*
18436130 ATTGGCTGATGGTG
65 ATTGACTGATGGTG
* * * *
18436144 ATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTGCAATCTACCCCAAGATCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCAAACGGCTGTAATCTGCCCCAAGATCGGGGTAAGAGA
*
18436209 TTGATTGATGGTG
66 TTGACTGATGGTG
* * * * *
18436222 ATCTGCCCCAAGCTCGGGGTAAAAGATCAGAA-GACTGTGATCTGCCCCATGGTCAGGGTAAGAG
1 ATCTGCCCCAAGCTCGGGGTAAAAGATCA-AACGGCTGTAATCTGCCCCAAGATCGGGGTAAGAG
18436286 ATTG
65 ATTG
18436290 GAATCTTCAA
Statistics
Matches: 255, Mismatches: 44, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
77 1 0.00
78 252 0.99
79 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (78 bp):
ATCTGCCCCAAGCTCGGGGTAAAAGATCAAACGGCTGTAATCTGCCCCAAGATCGGGGTAAGAGA
TTGACTGATGGTG
Found at i:18436290 original size:156 final size:156
Alignment explanation
Indices: 18435909--18436290 Score: 507
Period size: 156 Copynumber: 2.4 Consensus size: 156
18435899 AGATAACTAC
* * * ** *
18435909 AATCTGCCCCAGGTTCGGGGTAAGAGATCAAACGGCTGTAATCTGCCTTAAGATCAGGGTAAGAG
1 AATCTGCCCCAAGCTCGGGGTAAAAGATCAAACGGCTGTAATCTGCCCCATGATCAGGGTAAGAG
* * * * *
18435974 ATTGACAGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAATGGCTATAATTTACCCCAGG
66 ATTGGCAGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAACGGCTACAATCTACCCCAAG
18436039 ATCGGGGTAAGAGATTGACTGATGGT
131 ATCGGGGTAAGAGATTGACTGATGGT
* * * * * *
18436065 AATCTGCCCCAAGCTCGGGGTAACAGATAAAATGGCTGCAATCTGCCCCAT-ACTCGGGGTAGGA
1 AATCTGCCCCAAGCTCGGGGTAAAAGATCAAACGGCTGTAATCTGCCCCATGA-TCAGGGTAAGA
* * *
18436129 GATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGAACGGCTGCAATCTACCCCAA
65 GATTGGCAGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAACGGCTACAATCTACCCCAA
*
18436194 GATCGGGGTAAGAGATTGATTGATGGT
130 GATCGGGGTAAGAGATTGACTGATGGT
* * * *
18436221 GATCTGCCCCAAGCTCGGGGTAAAAGATCAGAA-GACTGTGATCTGCCCCATGGTCAGGGTAAGA
1 AATCTGCCCCAAGCTCGGGGTAAAAGATCA-AACGGCTGTAATCTGCCCCATGATCAGGGTAAGA
18436285 GATTGG
65 GATTGG
18436291 AATCTTCAAT
Statistics
Matches: 194, Mismatches: 29, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
155 1 0.01
156 191 0.98
157 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (156 bp):
AATCTGCCCCAAGCTCGGGGTAAAAGATCAAACGGCTGTAATCTGCCCCATGATCAGGGTAAGAG
ATTGGCAGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGAACGGCTACAATCTACCCCAAG
ATCGGGGTAAGAGATTGACTGATGGT
Found at i:18448221 original size:29 final size:29
Alignment explanation
Indices: 18448201--18448515 Score: 281
Period size: 29 Copynumber: 10.8 Consensus size: 29
18448191 TTTGGGGTTG
* * *
18448201 AAAATGTAATTTTCGAAAGTTCGAGGGCA
1 AAAATGTAATTTTTGAAAGTTTGAGGGTA
*
18448230 AAAATGTAATTTTTAAGAAA-TTCGAGGGT-
1 AAAATGTAATTTTT--GAAAGTTTGAGGGTA
*
18448259 AAAATGTGATTTTTGAAAGTTT-AGGGGTA
1 AAAATGTAATTTTTGAAAGTTTGA-GGGTA
* * *
18448288 AAAATGTAATTTTTGGAAGTTCGAGGG-C
1 AAAATGTAATTTTTGAAAGTTTGAGGGTA
18448316 AAAATGTAATTTTTGAGAAGTTCT-AGGGTCA
1 AAAATGTAATTTTTGA-AAGTT-TGAGGGT-A
*
18448347 AAACATGGT--TTTTGGAAAGTTTGAGGGTA
1 AAA-AT-GTAATTTTTGAAAGTTTGAGGGTA
* * *
18448376 AAAATATAATTTTGGAAAGTTCGAGGGTCA
1 AAAATGTAATTTTTGAAAGTTTGAGGGT-A
*
18448406 AAAATGTAATTTTTGTAAAGTTTGAGGGTC
1 AAAATGTAATTTTTG-AAAGTTTGAGGGTA
* *
18448436 AAAATGTGATTTTTGAAAG-TTCAGGGTA
1 AAAATGTAATTTTTGAAAGTTTGAGGGTA
* * *
18448464 AACATGTAATTTTTTG-AAG-TTCAAGGTA
1 AAAATGTAA-TTTTTGAAAGTTTGAGGGTA
*
18448492 AAAATATAATTTTTGAGAAGTTTG
1 AAAATGTAATTTTTGA-AAGTTTG
18448516 GGATTCAAAA
Statistics
Matches: 238, Mismatches: 27, Indels: 41
0.78 0.09 0.13
Matches are distributed among these distances:
27 12 0.05
28 55 0.23
29 93 0.39
30 49 0.21
31 25 0.11
32 2 0.01
33 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTTGAAAGTTTGAGGGTA
Found at i:18448277 original size:58 final size:59
Alignment explanation
Indices: 18448201--18448513 Score: 313
Period size: 58 Copynumber: 5.4 Consensus size: 59
18448191 TTTGGGGTTG
* *
18448201 AAAATGTAATTTTCGAAAGTTCGAGGGCAAAAATGTAATTTTTAAGAAA-TTCGAGGGT-
1 AAAATGTAATTTTTGAAAGTTCGAGGGCAAAAATGTAATTTTT-GGAAAGTTCGAGGGTA
* * * *
18448259 AAAATGTGATTTTTGAAAGTT-TAGGGGTAAAAATGTAATTTTTGG-AAGTTCGAGGG-C
1 AAAATGTAATTTTTGAAAGTTCGA-GGGCAAAAATGTAATTTTTGGAAAGTTCGAGGGTA
* * *
18448316 AAAATGTAATTTTTGAGAAGTTCTAGGGTCAAAACATG--GTTTTTGGAAAGTTTGAGGGTA
1 AAAATGTAATTTTTGA-AAGTTCGAGGG-CAAAA-ATGTAATTTTTGGAAAGTTCGAGGGTA
* * * * *
18448376 AAAATATAATTTTGGAAAGTTCGAGGGTCAAAAATGTAATTTTTGTAAAGTTTGAGGGTC
1 AAAATGTAATTTTTGAAAGTTCGAGGG-CAAAAATGTAATTTTTGGAAAGTTCGAGGGTA
* * * * *
18448436 AAAATGTGATTTTTGAAAGTTC-AGGGTAAACATGTAATTTTTTG-AAGTTC-AAGGTA
1 AAAATGTAATTTTTGAAAGTTCGAGGGCAAAAATGTAATTTTTGGAAAGTTCGAGGGTA
*
18448492 AAAATATAATTTTTGAGAAGTT
1 AAAATGTAATTTTTGA-AAGTT
18448514 TGGGATTCAA
Statistics
Matches: 215, Mismatches: 28, Indels: 25
0.80 0.10 0.09
Matches are distributed among these distances:
56 20 0.09
57 35 0.16
58 69 0.32
59 36 0.17
60 55 0.26
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (59 bp):
AAAATGTAATTTTTGAAAGTTCGAGGGCAAAAATGTAATTTTTGGAAAGTTCGAGGGTA
Found at i:18450388 original size:16 final size:16
Alignment explanation
Indices: 18450369--18450403 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18450359 TTTTAATTTA
*
18450369 AAATAAATTTAAACTT
1 AAATAAATTAAAACTT
*
18450385 AAATAAATTAAAATTT
1 AAATAAATTAAAACTT
18450401 AAA
1 AAA
18450404 ATTGGATTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATAAATTAAAACTT
Found at i:18458024 original size:42 final size:42
Alignment explanation
Indices: 18457977--18458059 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
18457967 ACAAACTGAA
18457977 TAATTAAATAATTAAATA-TTTGAGTTGT-TTTTAATAATTAAC
1 TAATTAAATAATTAAATATTTTG-GTT-TATTTTAATAATTAAC
18458019 TAATTAAATAATTAAATATTTTGGTTTATTTTAATAATTAA
1 TAATTAAATAATTAAATATTTTGGTTTATTTTAATAATTAA
18458060 ATACTTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
41 1 0.03
42 34 0.87
43 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.49
Consensus pattern (42 bp):
TAATTAAATAATTAAATATTTTGGTTTATTTTAATAATTAAC
Found at i:18458029 original size:50 final size:50
Alignment explanation
Indices: 18457908--18458176 Score: 239
Period size: 50 Copynumber: 5.4 Consensus size: 50
18457898 CATAGTTGCA
** * *
18457908 AATAAATAACTAATTAAATAACCAAATAATTAAATATTTGGGTTATTTTTT
1 AATAAATAACTAATTAAATAATTAAATAATTAAATATTTGAGTT-GTTTTT
* * *
18457959 AATAAATAACAAACTGAATAATTAAATAATTAAATATTTGAGTTGTTTTT
1 AATAAATAACTAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTT
* * * **
18458009 AATAATTAACTAATTAAATAATTAAAT-ATT--TTGGTTT-A-TT-TTAAT
1 AATAAATAACTAATTAAATAATTAAATAATTAAAT-ATTTGAGTTGTTTTT
*
18458054 AATTAAAT-ACTTAATTAAATATAATTAAATAATTAAATATTTCTA-TTGTTTTT
1 AA-TAAATAAC-TAATT-AA-ATAATTAAATAATTAAATATTT-GAGTTGTTTTT
* * * *
18458107 AATAAATAGCTAATTAAATAATTAAATAATTAAATATTTGGGCTGCTTTT
1 AATAAATAACTAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTT
* * *
18458157 ATTAATTAAATAATTAAATA
1 AATAAATAACTAATTAAATA
18458177 TTTAGGTTGC
Statistics
Matches: 176, Mismatches: 29, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
45 7 0.04
46 11 0.06
47 4 0.02
48 13 0.07
49 6 0.03
50 75 0.43
51 41 0.23
52 13 0.07
53 6 0.03
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (50 bp):
AATAAATAACTAATTAAATAATTAAATAATTAAATATTTGAGTTGTTTTT
Done.