Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 55 of 135
Found at i:19152563 original size:17 final size:16
Alignment explanation
Indices: 19152475--19152561 Score: 88
Period size: 17 Copynumber: 5.4 Consensus size: 16
19152465 TTTTGATTTT
* *
19152475 TTTAAGTTTAAATTAAT
1 TTTAAATTT-AATTAAA
*
19152492 TTTAAATTTTATTTAAA
1 TTTAAA-TTTAATTAAA
*
19152509 TTTAAATTT-ATT-TA
1 TTTAAATTTAATTAAA
*
19152523 TTTAAATTTATTTTAAA
1 TTTAAATTTA-ATTAAA
19152540 TTTAAATTTAATTAAA
1 TTTAAATTTAATTAAA
19152556 TTTAAA
1 TTTAAA
19152562 ATGATATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
14 10 0.17
15 2 0.03
16 16 0.28
17 27 0.47
18 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:19152570 original size:17 final size:16
Alignment explanation
Indices: 19152535--19152577 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
19152525 TAAATTTATT
* *
19152535 TTAAATTTAAATTTAA
1 TTAAATTTAAAATGAA
19152551 TTAAATTTAAAATGATA
1 TTAAATTTAAAATGA-A
*
19152568 TTAAAATTAA
1 TTAAATTTAA
19152578 TAAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TTAAATTTAAAATGAA
Found at i:19153299 original size:20 final size:20
Alignment explanation
Indices: 19153274--19153322 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
19153264 GATAACAATT
19153274 ATAATAAAAAT-AAATATTAA
1 ATAATAAAAATAAAATATT-A
**
19153294 ATAATATTAATAAAATATTA
1 ATAATAAAAATAAAATATTA
*
19153314 GTAATAAAA
1 ATAATAAAA
19153323 TAATAAACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAATAAAAATAAAATATTA
Found at i:19153309 original size:14 final size:14
Alignment explanation
Indices: 19153292--19153327 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
19153282 AATAAATATT
*
19153292 AAATAATATTAATA
1 AAATAATAGTAATA
*
19153306 AAATATTAGTAATA
1 AAATAATAGTAATA
19153320 AAATAATA
1 AAATAATA
19153328 AACAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AAATAATAGTAATA
Found at i:19154474 original size:29 final size:27
Alignment explanation
Indices: 19154442--19154896 Score: 162
Period size: 30 Copynumber: 15.5 Consensus size: 27
19154432 TGAACTTTTT
*
19154442 AAAATTCTATTTTTAACCCCGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTT-ACC
* *
19154471 AAAAATTACCATTTTACCCCCGGACTTT-CT
1 -AAAATT-CCATTTTAACCCC-GA-TTTACC
*
19154501 AAAATTCCATTTTAACCCTGATTTTACC
1 AAAATTCCATTTTAACCCCGA-TTTACC
*
19154529 AAAATTACCATTTT-ACCCTCGAACTTT-CT
1 AAAATT-CCATTTTAACCC-CG-A-TTTACC
19154558 AAAATTCCATTTTTAACCCCGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTT-ACC
* * *
19154587 AAAAATTACCA--TTACACCCTCAAACCTT-CT
1 -AAAATT-CCATTTTA-ACCC-C-GA-TTTACC
* * *
19154617 AAAATTCCATTTTTAATCTCGGTTTCACC
1 AAAATTCCA-TTTTAACCCCGATTT-ACC
* ** *
19154646 AAAAATTACCATTTTACCGCCCGAACTCCC
1 -AAAATT-CCATTTTAAC-CCCGATTTACC
*
19154676 TAAAATTCCATTTTTAA-CCCTAGTTTCACC
1 -AAAATTCCA-TTTTAACCCCGA-TTT-ACC
* *
19154706 AAAAATTACCATTTT-ACCCTCGAACCTT-CT
1 -AAAATT-CCATTTTAACCC-CG-A-TTTACC
*
19154736 AAAATTCCATTTTTAACCCTGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTT-ACC
*
19154765 AAAAATTACCATTTT-ACCCCTAAACTTT-CC
1 -AAAATT-CCATTTTAACCCC--GA-TTTACC
* **
19154795 AAGATTCCATTTTTAACCTTGATTTCACC
1 AAAATTCCA-TTTTAACCCCGATTT-ACC
19154824 AAAATTACCATTTT-ACCCCTGAACTTT-CC
1 AAAATT-CCATTTTAACCCC-G-A-TTTACC
19154853 AAAATTCCATTTTTAAACCCCGATTTCACC
1 AAAATTCCA-TTTT-AACCCCGATTT-ACC
19154883 AAAATTACCATTTT
1 AAAATT-CCATTTT
19154897 TCCCCCGGGT
Statistics
Matches: 320, Mismatches: 50, Indels: 110
0.67 0.10 0.23
Matches are distributed among these distances:
27 15 0.05
28 53 0.17
29 95 0.30
30 109 0.34
31 37 0.12
32 11 0.03
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (27 bp):
AAAATTCCATTTTAACCCCGATTTACC
Found at i:19154482 original size:59 final size:59
Alignment explanation
Indices: 19154410--19154901 Score: 642
Period size: 59 Copynumber: 8.4 Consensus size: 59
19154400 CTCAAACAGT
* *
19154410 CCAAAAATTACCATTTTACCCCTGAACTTTTTAAAATTCTATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
* * * *
19154469 CCAAAAATTACCATTTTACCCCCGGACTTTCTAAAATTCCA-TTTTAACCCTGATTTTA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
19154527 CC-AAAATTACCATTTTA-CCCTCGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCT-GAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
19154585 CCAAAAATTACCA--TTACACCCTCAAACCTTCTAAAATTCCATTTTTAATCTCGGTTTCA
1 CCAAAAATTACCATTTTAC-CCCT-GAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
* ** *
19154644 CCAAAAATTACCATTTTACCGCCCGAACTCCCTAAAATTCCATTTTTAA-CCCTAGTTTCA
1 CCAAAAATTACCATTTTACC-CCTGAACTTTCTAAAATTCCATTTTTAACCCCGA-TTTCA
* *
19154704 CCAAAAATTACCATTTTA-CCCTCGAACCTTCTAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCT-GAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
* * * **
19154763 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAGATTCCATTTTTAACCTTGATTTCA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
*
19154822 CC-AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTT-AACCCCGATTTCA
*
19154881 CC-AAAATTACCATTTTTCCCC
1 CCAAAAATTACCATTTTACCCC
19154902 CGGGTATCCA
Statistics
Matches: 381, Mismatches: 39, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
56 3 0.01
57 35 0.09
58 77 0.20
59 208 0.55
60 52 0.14
61 6 0.02
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCGATTTCA
Found at i:19167344 original size:38 final size:38
Alignment explanation
Indices: 19167077--19167429 Score: 145
Period size: 38 Copynumber: 9.4 Consensus size: 38
19167067 TCTTTATCTC
* * * *
19167077 TGAAATTGAAGTAAGAGCAAGATCTTTTCCTATCCACT
1 TGAAATTGAAGTAATAGCAACATCATTTCCTATCCTCT
* * *
19167115 TGAAATTGAAGTAGAGTTGGATA-A-CGTCTT--TAT-CTC-
1 TGAAATTGAAGTA-A-TAGCA-ACATCAT-TTCCTATCCTCT
* *
19167151 TGAAATTGAAGTAAGAGCAACGTCATTTCCTATCCGT-T
1 TGAAATTGAAGTAATAGCAACATCATTTCCTATCC-TCT
* * * *
19167189 TGAAATTGAAGTAGAGTGGATAAC-GCGTCTT--TAT-CTC-
1 TGAAATTGAAGTA-A-TAG-CAACATCAT-TTCCTATCCTCT
*
19167226 TGAAATTGAAGTAAGAGCAACATCATTTCCTATCCTCT
1 TGAAATTGAAGTAATAGCAACATCATTTCCTATCCTCT
* * * *
19167264 TGAAATTGAAGTAGAGTTGGATA-ACGCGACTT--TAT-CTC-
1 TGAAATTGAAGTA-A-TAGCA-ACA-TC-ATTTCCTATCCTCT
*
19167302 TGAAATTGATGTAATAGCAACATCATTTCCTATCCTCT
1 TGAAATTGAAGTAATAGCAACATCATTTCCTATCCTCT
* * ** *
19167340 TGAAATTGAAGTAGAGTTGGATA-A-CAAGT-CT-TCATCT
1 TGAAATTGAAGTA-A-TAGCA-ACATCATTTCCTATCCTCT
* * * *
19167377 CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCT
1 -TGAAATTGAAGTAATAGCAACATCATTTCCTATCCTCT
19167416 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
19167430 AGTTGGATAT
Statistics
Matches: 232, Mismatches: 44, Indels: 78
0.66 0.12 0.22
Matches are distributed among these distances:
33 1 0.00
34 12 0.05
35 9 0.04
36 30 0.13
37 32 0.14
38 98 0.42
39 20 0.09
40 18 0.08
41 9 0.04
42 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (38 bp):
TGAAATTGAAGTAATAGCAACATCATTTCCTATCCTCT
Found at i:19167666 original size:226 final size:226
Alignment explanation
Indices: 19167019--19167768 Score: 1077
Period size: 226 Copynumber: 3.3 Consensus size: 226
19167009 CAGACCGCAC
* * * **
19167019 CAAGATCTTTTCCTATCCTCTTGAAATTAAAGTAGAG-TGGATAACATGTCTTTATCTCTGAAAT
1 CAAGATCATTGCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAATCTTTATCTCTGAAAT
* *
19167083 TGAAGTAAGAGCAAGATCTTTTCCTATCCACTTGAAATTGAAGTAGAGTTGGATAAC-GTCTTTA
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAGTCTTTA
* *
19167147 TCTCTGAAATTGAAGTAAGAGCAACG-TCATTTCCTATCCGT-TTGAAATTGAAGTAGAGTGGAT
131 TCTCTGAAATTGAAGTAAGAGCAA-GATCATTTCCCATCC-TCTTGAAATTGAAGTAAAGTGGAT
****
19167210 AACGCGTCTTTATCTCTGAAATTGAAGTAAGAG
194 ATTAAGTCTTTATCTCTGAAATTGAAGTAAGAG
* * **
19167243 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACGCGA-CTTTATCTCTGAAA
1 CAAGATCATTGCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AAATCTTTATCTCTGAAA
* * *
19167307 TTGATGTAATAGCAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTT
65 TTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTT
* *
19167372 CATCTCTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGTTGGA
129 TATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAAAG-TGGA
19167437 TATTAAGTCTTTATCTCTGAAATTGAAGTAAGAG
193 TATTAAGTCTTTATCTCTGAAATTGAAGTAAGAG
* * **
19167471 CAAGATCA-TGCCATATCCTCTTGCAATTGAAGTAAAGTTGGATATTAAATCTTTATCTCTGAAA
1 CAAGATCATTGCC-TATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAATCTTTATCTCTGAAA
* *
19167535 TTGAAGTAAGAGCAAGATCATTTCAT-TCCTCTTG-AATTGAAGTAAAGTTGGATAACGAGTCTT
65 TTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAAC-AGTCTT
* *
19167598 TATCTCTGAAAATGAAGTAAGAGCAAGATCTTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGA
129 TATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAAAG-TGGA
19167663 TATTAAGTCTTTATCTCTGAAATTGAAGTAAGAG
193 TATTAAGTCTTTATCTCTGAAATTGAAGTAAGAG
* *
19167697 CAAGATCATTGCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCT-TGAAAT
1 CAAGATCATTGCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAATCTTTATCTCTGAAAT
19167761 TGAAGTAA
66 TGAAGTAA
19167769 AGTTGGGGAT
Statistics
Matches: 473, Mismatches: 43, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
224 34 0.07
225 89 0.19
226 171 0.36
227 73 0.15
228 106 0.22
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (226 bp):
CAAGATCATTGCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAATCTTTATCTCTGAAAT
TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAGTCTTTA
TCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCCATCCTCTTGAAATTGAAGTAAAGTGGATAT
TAAGTCTTTATCTCTGAAATTGAAGTAAGAG
Found at i:19167765 original size:37 final size:37
Alignment explanation
Indices: 19167716--19167806 Score: 137
Period size: 37 Copynumber: 2.4 Consensus size: 37
19167706 TGCCTATCCC
* *
19167716 CTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTAT
1 CTTGAAATTGAAGTAAAGTTGGAGAACAAGTCTTTAT
* *
19167753 CTTGAAATTGAAGTAAAGTTGGGGATCAAGTCTTTAT
1 CTTGAAATTGAAGTAAAGTTGGAGAACAAGTCTTTAT
19167790 CTCTGAAATTGAAGTAA
1 CT-TGAAATTGAAGTAA
19167807 GAGCAAGATG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
37 35 0.71
38 14 0.29
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (37 bp):
CTTGAAATTGAAGTAAAGTTGGAGAACAAGTCTTTAT
Found at i:19167780 original size:76 final size:76
Alignment explanation
Indices: 19167019--19167768 Score: 1061
Period size: 76 Copynumber: 10.0 Consensus size: 76
19167009 CAGACCGCAC
* * *
19167019 CAAGATCTTTTCCTATCCTCTTGAAATTAAAGTAGAG-TGGATAACATGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
19167083 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
19167094 CAAGATCTTTTCCTATCCACTTGAAATTGAAGTAGAGTTGGATAAC--GTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
19167157 TGAAGTAAGAG
66 TGAAGTAAGAG
**
19167168 CAACG-TCATTTCCTATCCGT-TTGAAATTGAAGTAGAG-TGGATAACGCGTCTTTATCTCTGAA
1 CAA-GATCATTTCCTATCC-TCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
19167230 ATTGAAGTAAGAG
64 ATTGAAGTAAGAG
* ** *
19167243 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACGCGACTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
* *
19167308 TGATGTAATAG
66 TGAAGTAAGAG
* *
19167319 CAACATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
19167384 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * **
19167395 CAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGTTGGATATTAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
19167460 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * ** *
19167471 CAAGATCA-TGCCATATCCTCTTGCAATTGAAGTAAAGTTGGATATTAAATCTTTATCTCTGAAA
1 CAAGATCATTTCC-TATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAA
19167535 TTGAAGTAAGAG
65 TTGAAGTAAGAG
* * * *
19167547 CAAGATCATTTCAT-TCCTCTTG-AATTGAAGTAAAGTTGGATAACGAGTCTTTATCTCTGAAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
19167610 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * **
19167621 CAAGATCTTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATTAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
19167686 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
19167697 CAAGATCATTGCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCT-TGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
19167761 TGAAGTAA
66 TGAAGTAA
19167769 AGTTGGGGAT
Statistics
Matches: 614, Mismatches: 49, Indels: 24
0.89 0.07 0.03
Matches are distributed among these distances:
73 8 0.01
74 119 0.19
75 130 0.21
76 355 0.58
77 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (76 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:19168112 original size:11 final size:11
Alignment explanation
Indices: 19168078--19168181 Score: 77
Period size: 11 Copynumber: 9.0 Consensus size: 11
19168068 ATTTTGATTT
19168078 TTTAAGTTTAAA
1 TTTAA-TTTAAA
19168090 -TTAATTTCAAA
1 TTTAATTT-AAA
*
19168101 TTTTATTTAAA
1 TTTAATTTAAA
**
19168112 TTTAAATTTATC
1 TTT-AATTTAAA
*
19168124 TTAAATTTAAA
1 TTTAATTTAAA
19168135 TTTATTTATTTAAA
1 TTTA---ATTTAAA
*
19168149 TTTATTTTAAA
1 TTTAATTTAAA
19168160 TTTAAATTT-AA
1 TTT-AATTTAAA
*
19168171 TTAAATTTAAA
1 TTTAATTTAAA
19168182 ATGATATTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
10 8 0.11
11 37 0.51
12 17 0.23
14 11 0.15
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:19168116 original size:6 final size:6
Alignment explanation
Indices: 19168078--19168181 Score: 80
Period size: 6 Copynumber: 18.0 Consensus size: 6
19168068 ATTTTGATTT
* *
19168078 TTTAAG TTTAAA -TT-AA TTTCAAA TTT-TA TTTAAA TTTAAA TTT--A
1 TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
19168122 TCTTAAA TTTAAA TTTATTTA TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA
1 T-TTAAA TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
19168171 -TTAAA TTTAAA
1 TTTAAA TTTAAA
19168182 ATGATATTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
4 6 0.08
5 18 0.23
6 43 0.54
7 7 0.09
8 5 0.06
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:19168118 original size:17 final size:16
Alignment explanation
Indices: 19168092--19168181 Score: 121
Period size: 17 Copynumber: 5.5 Consensus size: 16
19168082 AGTTTAAATT
19168092 AATTTCAAATTTTATTTA
1 AATTT-AAA-TTTATTTA
19168110 AATTTAAATTTATCTTA
1 AATTTAAATTTAT-TTA
19168127 AATTTAAATTTATTT-
1 AATTTAAATTTATTTA
19168142 -ATTTAAATTTATTTTA
1 AATTTAAATTTA-TTTA
*
19168158 AATTTAAATTTAATTA
1 AATTTAAATTTATTTA
19168174 AATTTAAA
1 AATTTAAA
19168182 ATGATATTAA
Statistics
Matches: 67, Mismatches: 1, Indels: 10
0.86 0.01 0.13
Matches are distributed among these distances:
14 11 0.16
15 3 0.04
16 18 0.27
17 30 0.45
18 5 0.07
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTAAATTTATTTA
Found at i:19168149 original size:31 final size:32
Alignment explanation
Indices: 19168092--19168181 Score: 119
Period size: 31 Copynumber: 2.7 Consensus size: 32
19168082 AGTTTAAATT
19168092 AATTTCAAATTTTATTTAAATTTAAATTTATCTTA
1 AATTT-AAA-TTTATTT-AATTTAAATTTATCTTA
*
19168127 AATTTAAATTTATTT-ATTTAAATTTATTTTA
1 AATTTAAATTTATTTAATTTAAATTTATCTTA
*
19168158 AATTTAAATTTAATTAAATTTAAA
1 AATTTAAATTT-ATTTAATTTAAA
19168182 ATGATATTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
31 26 0.51
32 3 0.06
33 14 0.27
34 3 0.06
35 5 0.10
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (32 bp):
AATTTAAATTTATTTAATTTAAATTTATCTTA
Found at i:19168190 original size:17 final size:17
Alignment explanation
Indices: 19168078--19168197 Score: 117
Period size: 17 Copynumber: 7.3 Consensus size: 17
19168068 ATTTTGATTT
* *
19168078 TTTAAGTTTAAATT-AA
1 TTTAAATTTATATTAAA
19168094 TTTCAAATTT-TATTTAAA
1 TTT-AAATTTATA-TTAAA
*
19168112 TTTAAATTTATCTTAAA
1 TTTAAATTTATATTAAA
19168129 TTTAAATTTAT-TT--A
1 TTTAAATTTATATTAAA
*
19168143 TTTAAATTTATTTTAAA
1 TTTAAATTTATATTAAA
19168160 TTTAAATTTA-ATTAAA
1 TTTAAATTTATATTAAA
* *
19168176 TTTAAAATGATATTAAA
1 TTTAAATTTATATTAAA
*
19168193 ATTAA
1 TTTAA
19168198 TAAATTAAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
14 12 0.13
15 2 0.02
16 19 0.21
17 50 0.56
18 6 0.07
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATATTAAA
Found at i:19168916 original size:20 final size:19
Alignment explanation
Indices: 19168891--19168942 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
19168881 GATAACAATT
19168891 ATAATAAATATAAATATTAA
1 ATAATAAATATAAATATT-A
19168911 ATAATATTAATA-AAATATTA
1 ATAATA--AATATAAATATTA
*
19168931 GTAATAAA-ATAA
1 ATAATAAATATAA
19168943 TAAACAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 1 0.04
18 4 0.14
20 12 0.43
21 7 0.25
22 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAATAAATATAAATATTA
Found at i:19170057 original size:29 final size:26
Alignment explanation
Indices: 19170025--19170124 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 26
19170015 AAACAGTCCA
19170025 AAAATTACCATTTTACCCCAAAACTTTCT
1 AAAATT-CCATTTTACCCC--AACTTTCT
* *
19170054 AAAATTCCATTTTTAACCTCGA-TTTCT
1 AAAATTCCA-TTTT-ACCCCAACTTTCT
19170081 CCAAAATTACCATTTTACCCCCGAACTTTCT
1 --AAAATT-CCATTTTA-CCCC-AACTTTCT
19170112 AAAATTCCATTTT
1 AAAATTCCATTTT
19170125 TAACCCCGGT
Statistics
Matches: 59, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
27 5 0.08
28 12 0.20
29 29 0.49
30 8 0.14
31 5 0.08
ACGTcount: A:0.33, C:0.27, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAATTCCATTTTACCCCAACTTTCT
Found at i:19170175 original size:59 final size:59
Alignment explanation
Indices: 19170022--19170390 Score: 503
Period size: 59 Copynumber: 6.3 Consensus size: 59
19170012 CCCAAACAGT
* *
19170022 CCAAAAATTACCATTTTACCCCAAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCT
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCA
* * *
19170081 CC-AAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCA
** *
19170139 CCAAAAATTACCATTACACCCCCAAACCTTCTAAAATTCCATTTTTAACCTC-AGTTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCTCGA-TTTCA
* ** * *
19170198 CTAAAAATTACCATTTTACCCCCAAACTCCCTAAAATTCCATTTTTAACCCCGGTTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCA
* * *
19170257 CCAAAAATTACCTTTTTACCCCCAAACTTTCCAACATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCA
** * * *
19170316 CC-AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAAACTTCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTT-AACCTCGATTTCA
19170375 CC-AAAATTACCATTTT
1 CCAAAAATTACCATTTT
19170391 GCCTCCGGGT
Statistics
Matches: 273, Mismatches: 33, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
58 92 0.34
59 181 0.66
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCTAAAATTCCATTTTTAACCTCGATTTCA
Found at i:19175178 original size:12 final size:13
Alignment explanation
Indices: 19175156--19175214 Score: 50
Period size: 13 Copynumber: 4.4 Consensus size: 13
19175146 TTCATTGACT
19175156 TTTTATATTATTA
1 TTTTATATTATTA
19175169 TTTT-TATTATTTA
1 TTTTATATTA-TTA
* *
19175182 TTATATAATATTTAA
1 TTTTATATTA-TT-A
19175197 TTTTATATT-TTCA
1 TTTTATATTATT-A
19175210 TTTTA
1 TTTTA
19175215 ACTAATATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 5 0.13
13 18 0.47
14 7 0.18
15 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATATTATTA
Found at i:19175643 original size:121 final size:121
Alignment explanation
Indices: 19175400--19175635 Score: 427
Period size: 121 Copynumber: 2.0 Consensus size: 121
19175390 AAAAAAGAGT
* *
19175400 TTAAATAAAAGTATAATATATTAGTTAAAATAAAAAATATACATTTAAATTAAACTATATATTTA
1 TTAAATAAAAGTAGAATATATTAGTTAAAATAAAAAATATACATTTAAATTAAACTATATATGTA
19175465 AATATTATATAATAAATAAAAAATAAATAATGTAAAAAGTAAATTAGGTGATGCCA
66 AATATTATATAATAAATAAAAAATAAATAATGTAAAAAGTAAATTAGGTGATGCCA
*
19175521 TTAAATAAAAGTAGAATATATTAGTTAAAATAAAAAATATACATTTAAATTAAATTATATATGTA
1 TTAAATAAAAGTAGAATATATTAGTTAAAATAAAAAATATACATTTAAATTAAACTATATATGTA
* *
19175586 AATATTATATAATAAATAAAAAATAAATAATGTAAAAAGTGAATTGGGTG
66 AATATTATATAATAAATAAAAAATAAATAATGTAAAAAGTAAATTAGGTG
19175636 GTTCCATTTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 110 1.00
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (121 bp):
TTAAATAAAAGTAGAATATATTAGTTAAAATAAAAAATATACATTTAAATTAAACTATATATGTA
AATATTATATAATAAATAAAAAATAAATAATGTAAAAAGTAAATTAGGTGATGCCA
Found at i:19176549 original size:6 final size:6
Alignment explanation
Indices: 19176540--19176574 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
19176530 TGGATACATG
*
19176540 CATGTC CATGAC CATGAC CATGAC CATGAC CATGA
1 CATGAC CATGAC CATGAC CATGAC CATGAC CATGA
19176575 TGGGATGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (6 bp):
CATGAC
Found at i:19182425 original size:16 final size:16
Alignment explanation
Indices: 19182363--19182428 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
19182353 TTAATACTAA
19182363 AGTTAATTATGTTAATT
1 AGTT-ATTATGTTAATT
* *
19182380 AATTATTATTTTGAA-T
1 AGTTATTATGTT-AATT
19182396 A---ATTA-GTT-ATT
1 AGTTATTATGTTAATT
19182407 AGTTATTATGTTAATT
1 AGTTATTATGTTAATT
19182423 AGTTAT
1 AGTTAT
19182429 GACATTAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
10 1 0.03
11 2 0.05
12 2 0.05
13 4 0.10
14 4 0.10
15 3 0.08
16 18 0.46
17 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.55
Consensus pattern (16 bp):
AGTTATTATGTTAATT
Found at i:19188475 original size:22 final size:22
Alignment explanation
Indices: 19188421--19188475 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
19188411 CAGAGTATAA
* * *
19188421 CAGATATAGATGCAAAGGATAT
1 CAGATAAAGATGCAAAGCACAT
** *
19188443 CAGATTCAGATGCAGAGCACAT
1 CAGATAAAGATGCAAAGCACAT
19188465 CAGATAAAGAT
1 CAGATAAAGAT
19188476 TTAGATTCCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.20
Consensus pattern (22 bp):
CAGATAAAGATGCAAAGCACAT
Found at i:19191960 original size:16 final size:14
Alignment explanation
Indices: 19191932--19191982 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
19191922 AAAATTTTTC
19191932 TTTCATTTTTTCTCTT
1 TTTC-TTTTTTCTC-T
19191948 TTTCTTTTCTTCTCT
1 TTTCTTTT-TTCTCT
19191963 TTTCTTTCTTTC-C-
1 TTTCTTT-TTTCTCT
19191976 TTTCTTT
1 TTTCTTT
19191983 CTTTACCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 7 0.21
14 1 0.03
15 15 0.45
16 10 0.30
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTCTTTTTTCTCT
Found at i:19191974 original size:8 final size:9
Alignment explanation
Indices: 19191927--19191986 Score: 63
Period size: 8 Copynumber: 6.9 Consensus size: 9
19191917 GCATTAAAAT
19191927 TTTTCTTTC
1 TTTTCTTTC
*
19191936 ATTT-TTTC
1 TTTTCTTTC
*
19191944 TCTT-TTTC
1 TTTTCTTTC
19191952 TTTTCTTCTC
1 TTTTCTT-TC
19191962 TTTTCTTTC
1 TTTTCTTTC
*
19191971 TTTCCTTTC
1 TTTTCTTTC
19191980 -TTTCTTT
1 TTTTCTTT
19191987 ACCTTTTACT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
8 19 0.44
9 15 0.35
10 9 0.21
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:19194663 original size:10 final size:10
Alignment explanation
Indices: 19194648--19194672 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19194638 ACTATACATT
19194648 ATTGTCTAAA
1 ATTGTCTAAA
19194658 ATTGTCTAAA
1 ATTGTCTAAA
19194668 ATTGT
1 ATTGT
19194673 TCCAAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (10 bp):
ATTGTCTAAA
Found at i:19198723 original size:52 final size:52
Alignment explanation
Indices: 19198640--19198826 Score: 239
Period size: 52 Copynumber: 3.6 Consensus size: 52
19198630 AAATGCAAAA
* *
19198640 AGGTCCGATGGCTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
19198692 AGGTTCGATGACTATGTGTCATCATGAGTATACGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * * ** *
19198744 AAGTCCGATGACTATGTGTCATTGTGAGTGTATGATTCCCTTACGGAACAAG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
19198796 AGGTCTGATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
19198827 TAAATGAAAT
Statistics
Matches: 113, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 113 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:19198883 original size:60 final size:60
Alignment explanation
Indices: 19198775--19198893 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
19198765 TTGTGAGTGT
* * *
19198775 ATGATTCCCTTACGGAACAAGAGGTCTGATGACTATGTGTCATCGTGAGTATTAAATGAA
1 ATGAGTCCCTTACGGAACAAGAGGTCCGATGACTATGTGTCATCGTGAGTATCAAATGAA
** * *
19198835 ATGAGTCCCATTACGGATTAAG-GGTCCGATGACTTTGTGTCATTGTGAGTATCAAATGA
1 ATGAGTCCC-TTACGGAACAAGAGGTCCGATGACTATGTGTCATCGTGAGTATCAAATGA
19198894 GAGTTGAAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 41 0.80
61 10 0.20
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (60 bp):
ATGAGTCCCTTACGGAACAAGAGGTCCGATGACTATGTGTCATCGTGAGTATCAAATGAA
Found at i:19203529 original size:79 final size:78
Alignment explanation
Indices: 19203401--19203553 Score: 234
Period size: 79 Copynumber: 1.9 Consensus size: 78
19203391 TTTGTTTGAG
* * *
19203401 AACAAAAATTAATTGAATAATTCTGTTTCAAGATTTTATTCCTACCGTTCAACAAAATTTATTCA
1 AACAAAAATCAATTGAACAATTCTGTTTCAAGATTCTATTCCTACCGTTCAACAAAATTTATTCA
19203466 ATTTTCTGTTTTCA
66 ATTTT-TGTTTTCA
* * **
19203480 AACAAAAATCAATTGAACAATTCTGTTTCAGGATTCTATTCGTGTCGTTCAACAAAATTTATTCA
1 AACAAAAATCAATTGAACAATTCTGTTTCAAGATTCTATTCCTACCGTTCAACAAAATTTATTCA
19203545 ATTTTTGTT
66 ATTTTTGTT
19203554 GTTAACGGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
78 4 0.06
79 63 0.94
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (78 bp):
AACAAAAATCAATTGAACAATTCTGTTTCAAGATTCTATTCCTACCGTTCAACAAAATTTATTCA
ATTTTTGTTTTCA
Found at i:19209571 original size:20 final size:19
Alignment explanation
Indices: 19209542--19209591 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
19209532 AATTAAAAAA
*
19209542 TATATATTTTTCATAATTTC
1 TATAT-TTTTTAATAATTTC
* *
19209562 TATACTTTTTAAATAATTTT
1 TATA-TTTTTTAATAATTTC
19209582 TATATTTTTT
1 TATATTTTTT
19209592 TGAATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 5 0.20
20 19 0.76
21 1 0.04
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATTTTTTAATAATTTC
Found at i:19216817 original size:16 final size:18
Alignment explanation
Indices: 19216778--19216811 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19216768 TAAGTTTATA
19216778 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
19216795 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
19216812 AATTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:19218046 original size:4 final size:4
Alignment explanation
Indices: 19218032--19218064 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
19218022 TGATGACGAT
*
19218032 GATG G-TG GATG GATG GATG GATG GATG GGTG GA
1 GATG GATG GATG GATG GATG GATG GATG GATG GA
19218065 ATTGGAGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.21, C:0.00, G:0.55, T:0.24
Consensus pattern (4 bp):
GATG
Found at i:19222253 original size:13 final size:13
Alignment explanation
Indices: 19222235--19222263 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
19222225 AACTAATCAT
19222235 TGTATTGAATTTC
1 TGTATTGAATTTC
19222248 TGTATTGAATTTC
1 TGTATTGAATTTC
19222261 TGT
1 TGT
19222264 TTTCACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (13 bp):
TGTATTGAATTTC
Found at i:19225198 original size:18 final size:17
Alignment explanation
Indices: 19225170--19225204 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
19225160 ATATTTTAAA
19225170 ATTATATTTTATAATTC
1 ATTATATTTTATAATTC
19225187 ATTATAATTTTATAATTC
1 ATTAT-ATTTTATAATTC
19225205 GTAAGAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTATATTTTATAATTC
Found at i:19226502 original size:16 final size:16
Alignment explanation
Indices: 19226463--19226502 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
19226453 CGTTTAATTT
* *
19226463 GCTGTAACGGAATAGA
1 GCTGTAATGAAATAGA
*
19226479 GCTGTAATGAAATAGG
1 GCTGTAATGAAATAGA
19226495 GCTGTAAT
1 GCTGTAAT
19226503 CAATATTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (16 bp):
GCTGTAATGAAATAGA
Found at i:19226689 original size:58 final size:57
Alignment explanation
Indices: 19226625--19226788 Score: 181
Period size: 58 Copynumber: 2.8 Consensus size: 57
19226615 TTGTTATTAA
* * * *
19226625 ATTTTAATA-AGATTATTGTTAAATATAATTTAATAAAAAAATTAAATATTTTAATCAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAAAATT-AATAATTTAATAAC
* * * *
19226683 ATTTTAACATAATTATTATTAAATATAATTTAATAAAATAGTTTATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAAATTAATAATTTAATAAC
19226740 ATTCTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATAA-TAATA
1 ATT-TTAATATAATTATTATT-AAATAT-AATTTAATAAAAA-AATTAATA
19226789 TATAATAGGG
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
57 13 0.15
58 53 0.60
59 20 0.22
60 3 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAAATTAATAATTTAATAAC
Found at i:19226916 original size:31 final size:29
Alignment explanation
Indices: 19226842--19226923 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 29
19226832 AATGTGCAGC
*
19226842 TGTATACATAAACTTTAATTTGGTGCAAT
1 TGTATACATAAACTTTAATTTGGTGCAAA
* * * *
19226871 TGTACACGTAAAACTCTAATTGTGGTTCAAA
1 TGTATACAT-AAACTTTAATT-TGGTGCAAA
*
19226902 TGTATACTTGAAACTTTAATTT
1 TGTATACAT-AAACTTTAATTT
19226924 TAATTTAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
29 7 0.17
30 11 0.26
31 24 0.57
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (29 bp):
TGTATACATAAACTTTAATTTGGTGCAAA
Found at i:19240960 original size:23 final size:24
Alignment explanation
Indices: 19240934--19240980 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
19240924 TCTTCGTAAA
* *
19240934 ATTAGGTTTTAGTTATTTC-TTTT
1 ATTAGGCTTTAGGTATTTCGTTTT
19240957 ATTAGGCTTTAGGTATTTCGTTTT
1 ATTAGGCTTTAGGTATTTCGTTTT
19240981 GTTTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.60
Consensus pattern (24 bp):
ATTAGGCTTTAGGTATTTCGTTTT
Found at i:19245549 original size:14 final size:15
Alignment explanation
Indices: 19245532--19245561 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19245522 ATATTTTATG
19245532 AATGCTATTTG-GTT
1 AATGCTATTTGTGTT
19245546 AATGCTATTTGTGTT
1 AATGCTATTTGTGTT
19245561 A
1 A
19245562 CTGTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (15 bp):
AATGCTATTTGTGTT
Found at i:19251531 original size:3 final size:3
Alignment explanation
Indices: 19251523--19251571 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
19251513 TATAAGTGTT
*
19251523 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19251571 A
1 A
19251572 CTTAAGGGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19256748 original size:24 final size:24
Alignment explanation
Indices: 19256720--19256778 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
19256710 CTTTAACTCA
19256720 TTACGAGCCCAGAATGATTAGCTC
1 TTACGAGCCCAGAATGATTAGCTC
19256744 TTACGAGCCCAGAATGATTAGCTC
1 TTACGAGCCCAGAATGATTAGCTC
*
19256768 TTATGAGCCCA
1 TTACGAGCCCA
19256779 AACAGAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (24 bp):
TTACGAGCCCAGAATGATTAGCTC
Found at i:19271591 original size:30 final size:29
Alignment explanation
Indices: 19271557--19271837 Score: 172
Period size: 30 Copynumber: 9.4 Consensus size: 29
19271547 TATTTTCTCT
* * *
19271557 AAAATCACATTTTAACCTTGAGCTTTCCC
1 AAAATTACATTTTAACCTTAAGCTTTTCC
* **
19271586 AAAAATTACATTTTGACCCCCAAGCTTTTCC
1 -AAAATTACATTTT-AACCTTAAGCTTTTCC
*
19271617 AAAATTACATTTTAACCCTTAAACTTTTCC
1 AAAATTACATTTTAA-CCTTAAGCTTTTCC
* *
19271647 AAAATTACATTTTAGCCCTTAAACTTTTCC
1 AAAATTACATTTTA-ACCTTAAGCTTTTCC
* * * *
19271677 ATAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTT-AACCTTAAGCTTTTCC
* * * * * *
19271707 AAAATTCCATTTGGACCCTTAAACTTCTCT
1 AAAATTACATTT-TAACCTTAAGCTTTTCC
* * *
19271737 AAAATTACATATTAACAC-TAAACCTTTCC
1 AAAATTACATTTTAAC-CTTAAGCTTTTCC
* * * * *
19271766 AAAATTGCATTTTGA-CTCCAAACTTCTCC
1 AAAATTACATTTTAACCT-TAAGCTTTTCC
* * * *
19271795 AAAATTGCATTTTAACCCCTAAAC-CTTCAC
1 AAAATTACATTTTAA-CCTTAAGCTTTTC-C
19271825 AAAATTACATTTT
1 AAAATTACATTTT
19271838 GGTCTCCAAA
Statistics
Matches: 202, Mismatches: 38, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.00
29 47 0.23
30 141 0.70
31 13 0.06
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTAACCTTAAGCTTTTCC
Found at i:19271651 original size:60 final size:59
Alignment explanation
Indices: 19271551--19271890 Score: 308
Period size: 60 Copynumber: 5.7 Consensus size: 59
19271541 GGCCCCTATT
* * * * * * *
19271551 TTCTCTAAAATCACATTTTAACCTTGAGCTTTCCCAAAAATTACATTTTGACCCCCAAGC
1 TTCTCCAAAATTACATTTTAACCCTAAACTTTTCC-AAAATTACATTTTGACCCCCAAAC
* **
19271611 TTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTT-AGCCCTTAAAC
1 TTCTCCAAAATTACATTTTAACCC-TAAACTTTTCCAAAATTACATTTTGA-CCCCCAAAC
* * * * * **
19271671 TTTTCCATAATTACATTTTGACCCCTAAACTTTTCCAAAATTCCATTTGGACCCTTAAAC
1 TTCTCCAAAATTACATTTT-AACCCTAAACTTTTCCAAAATTACATTTTGACCCCCAAAC
* * * * * *
19271731 TTCTCTAAAATTACATATTAACACTAAACCTTTCCAAAATTGCATTTTGA-CTCCAAAC
1 TTCTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACATTTTGACCCCCAAAC
* * ** *
19271789 TTCTCCAAAATTGCATTTTAACCCCTAAAC-CTTCACAAAATTACATTTTGGTCTCCAAAC
1 TTCTCCAAAATTACATTTTAA-CCCTAAACTTTTC-CAAAATTACATTTTGACCCCCAAAC
* * * * *
19271849 TTCTCCAAAATCACATTTTGACCCCAAACTTCTCTAAAATTA
1 TTCTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTA
19271891 TGATTGTTGG
Statistics
Matches: 232, Mismatches: 40, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
58 26 0.11
59 62 0.27
60 131 0.56
61 13 0.06
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (59 bp):
TTCTCCAAAATTACATTTTAACCCTAAACTTTTCCAAAATTACATTTTGACCCCCAAAC
Found at i:19271858 original size:30 final size:30
Alignment explanation
Indices: 19271587--19271890 Score: 289
Period size: 30 Copynumber: 10.2 Consensus size: 30
19271577 AGCTTTCCCA
* * *
19271587 AAAATTACATTTTGACCCCCAAGCTTTTCC
1 AAAATTACATTTTGACCCCTAAACTTCTCC
* * *
19271617 AAAATTACATTTTAACCCTTAAACTTTTCC
1 AAAATTACATTTTGACCCCTAAACTTCTCC
* *
19271647 AAAATTACATTTT-AGCCCTTAAACTTTTCC
1 AAAATTACATTTTGA-CCCCTAAACTTCTCC
* *
19271677 ATAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCTAAACTTCTCC
* * * *
19271707 AAAATTCCATTTGGACCCTTAAACTTCTCT
1 AAAATTACATTTTGACCCCTAAACTTCTCC
* * *
19271737 AAAATTACATATT-AACACTAAACCTT-TCC
1 AAAATTACATTTTGACCCCTAAA-CTTCTCC
* *
19271766 AAAATTGCATTTTGACTCC-AAACTTCTCC
1 AAAATTACATTTTGACCCCTAAACTTCTCC
* * *
19271795 AAAATTGCATTTTAACCCCTAAACCTTC-AC
1 AAAATTACATTTTGACCCCTAAA-CTTCTCC
* *
19271825 AAAATTACATTTTGGTCTCC-AAACTTCTCC
1 AAAATTACATTTT-GACCCCTAAACTTCTCC
* *
19271855 AAAATCACATTTTGACCCC-AAACTTCTCT
1 AAAATTACATTTTGACCCCTAAACTTCTCC
19271884 AAAATTA
1 AAAATTA
19271891 TGATTGTTGG
Statistics
Matches: 228, Mismatches: 37, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
28 3 0.01
29 66 0.29
30 151 0.66
31 8 0.04
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTCTCC
Found at i:19271955 original size:23 final size:23
Alignment explanation
Indices: 19271928--19271975 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
19271918 GCCCAAACCT
19271928 TTTTTACTTTGAAATTAAAT-TTA
1 TTTTTA-TTTGAAATTAAATATTA
* *
19271951 TTTTTATTTTAAATTTAATATTA
1 TTTTTATTTGAAATTAAATATTA
19271974 TT
1 TT
19271976 ATAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTTATTTGAAATTAAATATTA
Found at i:19271962 original size:17 final size:17
Alignment explanation
Indices: 19271942--19271987 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
19271932 TACTTTGAAA
* *
19271942 TTAAATTTATTTTTATT
1 TTAAATTTAATATTATT
19271959 TTAAATTTAATATTATT
1 TTAAATTTAATATTATT
*
19271976 ATAAATTTAATA
1 TTAAATTTAATA
19271988 AAATGTCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAAATTTAATATTATT
Found at i:19272814 original size:16 final size:16
Alignment explanation
Indices: 19272789--19272839 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
19272779 AATAAGGGTT
19272789 AATAATATTAATAATA
1 AATAATATTAATAATA
*
19272805 AATAACATTAATAATTA
1 AATAATATTAATAA-TA
* *
19272822 AAAAATGTTAATAATA
1 AATAATATTAATAATA
19272838 AA
1 AA
19272840 AAAGAGAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 17 0.57
17 13 0.43
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AATAATATTAATAATA
Found at i:19274052 original size:29 final size:29
Alignment explanation
Indices: 19273963--19274300 Score: 200
Period size: 30 Copynumber: 11.5 Consensus size: 29
19273953 CAAAATTATT
** * *
19273963 CAAAAATTGTATTTTGACCCCCAAAGCTTC
1 CAAAAATTACATTTTGA-CCCTAAAACTTC
* * *
19273993 CAAAAATTACATTTTTAACCCCAAAATTTC
1 CAAAAATTACA-TTTTGACCCTAAAACTTC
* *
19274023 CAAAAATTACATTTTGACCTTGAAACTTC
1 CAAAAATTACATTTTGACCCTAAAACTTC
**
19274052 CAAAAATTGTATTTTGACCCCTAAAACTTC
1 CAAAAATTACATTTTGA-CCCTAAAACTTC
* * * *
19274082 TAAAAATTAAAAATTTGACCCCAAAACTTC
1 CAAAAATT-ACATTTTGACCCTAAAACTTC
** *
19274112 TTAAATTTAC-TTTTGACCCTAAAACTTC
1 CAAAAATTACATTTTGACCCTAAAACTTC
** * ** *
19274140 TGAAAATTACATTTTTA-CCTCCGAACGTC
1 CAAAAATTACATTTTGACCCT-AAAACTTC
* *
19274169 TAAAAATTCCATTTTTGA-CCTCAAAACTTC
1 CAAAAATTACA-TTTTGACCCT-AAAACTTC
* * *
19274199 CAAAAATTACATTTTTACCCTCAAACTTT
1 CAAAAATTACATTTTGACCCTAAAACTTC
* * * * ***
19274228 TAAAAATTCCATTTTTGATCCTGATTTTTC
1 CAAAAATTACA-TTTTGACCCTAAAACTTC
** *
19274258 CAAAAATTACCATTTT-ACCCTCGAACATC
1 CAAAAATTA-CATTTTGACCCTAAAACTTC
*
19274287 C-AAAATTTCATTTT
1 CAAAAATTACATTTT
19274301 TAACCTCAAA
Statistics
Matches: 239, Mismatches: 60, Indels: 21
0.75 0.19 0.07
Matches are distributed among these distances:
27 6 0.03
28 33 0.14
29 75 0.31
30 112 0.47
31 13 0.05
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (29 bp):
CAAAAATTACATTTTGACCCTAAAACTTC
Found at i:19274066 original size:59 final size:58
Alignment explanation
Indices: 19273951--19274331 Score: 243
Period size: 59 Copynumber: 6.4 Consensus size: 58
19273941 CTTTGGAGGT
* ** * *
19273951 CCCAAAATTATTCAAAAATTGTATTTTGACCCCCAAAGCTTCCAAAAATTACATTTTTAAC
1 CCCAAAATT-TCCAAAAATTACATTTTGACCCCGAAA-CTTCCAAAAATT-CATTTTTGAC
** *
19274012 CCCAAAATTTCCAAAAATTACATTTTGACCTTGAAACTTCCAAAAATT-GTATTTTGAC
1 CCCAAAATTTCCAAAAATTACATTTTGACCCCGAAACTTCCAAAAATTCAT-TTTTGAC
* * * * * ** * *
19274070 CCCTAAAACTTCTAAAAATTAAAAATTTGACCCCAAAACTT-CTTAAATTTACTTTTGAC
1 CCC-AAAATTTCCAAAAATT-ACATTTTGACCCCGAAACTTCCAAAAATTCATTTTTGAC
* * ** * * *
19274129 CCTAAAACTTCTGAAAATTACATTTTTACCTCCG-AACGTCTAAAAATTCCATTTTTGAC
1 CCCAAAATTTCCAAAAATTACATTTTGACC-CCGAAACTTCCAAAAATT-CATTTTTGAC
* * * ** *
19274188 CTCAAAACTTCCAAAAATTACATTTTTACCCTC-AAACTTTTAAAAATTCCATTTTTGAT
1 CCCAAAATTTCCAAAAATTACATTTTGACCC-CGAAACTTCCAAAAATT-CATTTTTGAC
** ** * * *
19274247 CCTGATTTTTCCAAAAATTACCATTTT-ACCCTCG-AACATCCAAAATTTCATTTTTAAC
1 CCCAAAATTTCCAAAAATTA-CATTTTGACCC-CGAAACTTCCAAAAATTCATTTTTGAC
* * *
19274305 CTCAAATTTTCCCAAAATTACCATTTT
1 CCCAAAATTTCCAAAAATTA-CATTTT
19274332 TCCCCCGGGT
Statistics
Matches: 254, Mismatches: 55, Indels: 25
0.76 0.16 0.07
Matches are distributed among these distances:
57 13 0.05
58 62 0.24
59 128 0.50
60 42 0.17
61 9 0.04
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.36
Consensus pattern (58 bp):
CCCAAAATTTCCAAAAATTACATTTTGACCCCGAAACTTCCAAAAATTCATTTTTGAC
Found at i:19282487 original size:29 final size:29
Alignment explanation
Indices: 19282434--19282705 Score: 328
Period size: 29 Copynumber: 9.3 Consensus size: 29
19282424 CTAAACTGTT
*
19282434 CAAAAATTATATTTTGACCCCTAAAACTTT
1 CAAAAATTATATTTTGA-CCCTAAAACTTC
* *
19282464 TAAAAATTATATTTTGACTCTAAAACTTC
1 CAAAAATTATATTTTGACCCTAAAACTTC
* *
19282493 CAAAAATTACATTTTGACCCTGAAACTTC
1 CAAAAATTATATTTTGACCCTAAAACTTC
*
19282522 TAAAAATTATATTTTGACCCTAAAACTTC
1 CAAAAATTATATTTTGACCCTAAAACTTC
* * *
19282551 CAAAAATTACATTTTAACCCCAAAACTTC
1 CAAAAATTATATTTTGACCCTAAAACTTC
* * * *
19282580 TAAAAATTATATTTTTAACCTCGAAACTTC
1 CAAAAATTATATTTTGACCCT-AAAACTTC
* *
19282610 CAAAAATTATATTTTTACCCTCAAACTTC
1 CAAAAATTATATTTTGACCCTAAAACTTC
*
19282639 CAAAAATTATATATTTGACCCCAAAACTTC
1 CAAAAATTATAT-TTTGACCCTAAAACTTC
* * * **
19282669 TAAAAATTACATTTTTACCCTCGAACTTC
1 CAAAAATTATATTTTGACCCTAAAACTTC
19282698 CAAAAATT
1 CAAAAATT
19282706 CCATTTTTGA
Statistics
Matches: 207, Mismatches: 33, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
29 141 0.68
30 66 0.32
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (29 bp):
CAAAAATTATATTTTGACCCTAAAACTTC
Found at i:19282539 original size:58 final size:58
Alignment explanation
Indices: 19282434--19282705 Score: 346
Period size: 59 Copynumber: 4.6 Consensus size: 58
19282424 CTAAACTGTT
* * *
19282434 CAAAAATTATATTTTGACCCCTAAAACTTTTAAAAATTATATTTTGACTCTAAAACTTC
1 CAAAAATTACATTTTGA-CCCTAAAACTTCTAAAAATTATATTTTGACCCTAAAACTTC
*
19282493 CAAAAATTACATTTTGACCCTGAAACTTCTAAAAATTATATTTTGACCCTAAAACTTC
1 CAAAAATTACATTTTGACCCTAAAACTTCTAAAAATTATATTTTGACCCTAAAACTTC
* * * * *
19282551 CAAAAATTACATTTTAACCCCAAAACTTCTAAAAATTATATTTTTAACCTCGAAACTTC
1 CAAAAATTACATTTTGACCCTAAAACTTCTAAAAATTATATTTTGACCCT-AAAACTTC
* * * * *
19282610 CAAAAATTATATTTTTACCCTCAAACTTCCAAAAATTATATATTTGACCCCAAAACTTC
1 CAAAAATTACATTTTGACCCTAAAACTTCTAAAAATTATAT-TTTGACCCTAAAACTTC
* * ** *
19282669 TAAAAATTACATTTTTACCCTCGAACTTCCAAAAATT
1 CAAAAATTACATTTTGACCCTAAAACTTCTAAAAATT
19282706 CCATTTTTGA
Statistics
Matches: 189, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
58 83 0.44
59 100 0.53
60 6 0.03
ACGTcount: A:0.41, C:0.21, G:0.03, T:0.35
Consensus pattern (58 bp):
CAAAAATTACATTTTGACCCTAAAACTTCTAAAAATTATATTTTGACCCTAAAACTTC
Found at i:19282729 original size:59 final size:59
Alignment explanation
Indices: 19282435--19282750 Score: 302
Period size: 59 Copynumber: 5.4 Consensus size: 59
19282425 TAAACTGTTC
* * * ** * *
19282435 AAAAATTATATTTTGACCCCTAAAACTTTTAAAAATTATA-TTTTGA-CTCTAAAACTTCC
1 AAAAATTACATTTTTA-CCCTCAAACTTCCAAAAATTATATTTTTGACCTC-GAAACTTCT
* * * * *
19282494 AAAAATTACATTTTGACCCTGAAACTTCTAAAAATTATA-TTTTGACC-CTAAAACTTCC
1 AAAAATTACATTTTTACCCTCAAACTTCCAAAAATTATATTTTTGACCTC-GAAACTTCT
* * * *
19282552 AAAAATTACATTTTAACCC-CAAAACTTCTAAAAATTATATTTTTAACCTCGAAACTTCC
1 AAAAATTACATTTTTACCCTC-AAACTTCCAAAAATTATATTTTTGACCTCGAAACTTCT
* * * *
19282611 AAAAATTATATTTTTACCCTCAAACTTCCAAAAATTATATATTTGACCCCAAAACTTCT
1 AAAAATTACATTTTTACCCTCAAACTTCCAAAAATTATATTTTTGACCTCGAAACTTCT
* ** * ***
19282670 AAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGATCTCGATTTTTCT
1 AAAAATTACATTTTTACCCTCAAACTTCCAAAAATTATATTTTTGACCTCGAAACTTCT
19282729 AAAAATTACCA-TTTTACCCTCA
1 AAAAATTA-CATTTTTACCCTCA
19282751 GATGTCTGAA
Statistics
Matches: 224, Mismatches: 27, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
58 74 0.33
59 146 0.65
60 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (59 bp):
AAAAATTACATTTTTACCCTCAAACTTCCAAAAATTATATTTTTGACCTCGAAACTTCT
Found at i:19282763 original size:59 final size:59
Alignment explanation
Indices: 19282666--19282807 Score: 166
Period size: 59 Copynumber: 2.4 Consensus size: 59
19282656 ACCCCAAAAC
19282666 TTCTAAAAATTA-CATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTGA-TCTCGATTT
1 TTCTAAAAATTACCA-TTTTACCCTCGAACTTCCAAAAATTCCATTTTTGATTC-CGATTT
** ***
19282725 TTCTAAAAATTACCATTTTACCCTC-AGA-TGTCTGAAAATTTTGTTTTTGATTCCGATTT
1 TTCTAAAAATTACCATTTTACCCTCGA-ACT-TCCAAAAATTCCATTTTTGATTCCGATTT
*
19282784 TTCCAAAAATTACCATTTTACCCT
1 TTCTAAAAATTACCATTTTACCCT
19282808 TGAGCATTTA
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
58 2 0.03
59 67 0.92
60 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (59 bp):
TTCTAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGATTCCGATTT
Found at i:19282843 original size:59 final size:59
Alignment explanation
Indices: 19282721--19282864 Score: 161
Period size: 58 Copynumber: 2.5 Consensus size: 59
19282711 TTTGATCTCG
* * ** *
19282721 ATTTTTCTAAAAATTACCATTTTACCCTCAGATGTCTGAAAATTTTGTTTTTGATTCCG
1 ATTTTTCCAAAAATTACCATTTTACCCTCAGATGTCTGAAAATTTTATTTTTGAACCCA
*
19282780 ATTTTTCCAAAAATTACCATTTTACCCTTGAGCAT-T-T-AAAATTTTATTTTT-AACCCTA
1 ATTTTTCCAAAAATTACCATTTTACCC-TCAG-ATGTCTGAAAATTTTATTTTTGAACCC-A
* *
19282838 AATTTTCCCAAAATTACCATTTTACCC
1 ATTTTTCCAAAAATTACCATTTTACCC
19282865 CCGGGTATCC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
57 3 0.04
58 38 0.51
59 27 0.36
60 4 0.05
61 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.44
Consensus pattern (59 bp):
ATTTTTCCAAAAATTACCATTTTACCCTCAGATGTCTGAAAATTTTATTTTTGAACCCA
Found at i:19283788 original size:29 final size:30
Alignment explanation
Indices: 19283737--19283818 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 30
19283727 TTCGACAATG
* * *
19283737 ATTTTGCCCACAAACATCTAAAAAT-TACC
1 ATTTTGCCCCCAAATATCCAAAAATGTACC
*
19283766 ATTTTGCCCCCGAATATCC-AAAATGTACC
1 ATTTTGCCCCCAAATATCCAAAAATGTACC
*
19283795 A-TTTGCCCCCAAATTTCCAAAAAT
1 ATTTTGCCCCCAAATATCCAAAAAT
19283819 CATATTTTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.44
29 25 0.56
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.28
Consensus pattern (30 bp):
ATTTTGCCCCCAAATATCCAAAAATGTACC
Found at i:19283799 original size:28 final size:28
Alignment explanation
Indices: 19283737--19283816 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
19283727 TTCGACAATG
* * *
19283737 ATTTTGCCCACAAACATCTAAAAATTACC
1 ATTTTGCCCCCAAATATC-CAAAATTACC
*
19283766 ATTTTGCCCCCGAATATCCAAAATGTACC
1 ATTTTGCCCCCAAATATCCAAAAT-TACC
*
19283795 A-TTTGCCCCCAAATTTCCAAAA
1 ATTTTGCCCCCAAATATCCAAAA
19283817 ATCATATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 24 0.55
29 20 0.45
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.28
Consensus pattern (28 bp):
ATTTTGCCCCCAAATATCCAAAATTACC
Found at i:19283844 original size:30 final size:28
Alignment explanation
Indices: 19283802--19283876 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
19283792 ACCATTTGCC
*
19283802 CCCAAA-TTTCCAAAAATCATATTTTCGA-
1 CCCAAATTTTCCAAAAATCA-ATTTT-AAT
*
19283830 CCTCAAATTTTCCAAAAGTTCAATTTTAAT
1 CC-CAAATTTTCCAAAA-ATCAATTTTAAT
19283860 CCCAAATTTTCCAAAAA
1 CCCAAATTTTCCAAAAA
19283877 AAAATAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 2 0.05
29 19 0.47
30 16 0.40
31 3 0.08
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (28 bp):
CCCAAATTTTCCAAAAATCAATTTTAAT
Found at i:19297897 original size:19 final size:19
Alignment explanation
Indices: 19297873--19297919 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
19297863 TTGATTAGTC
*
19297873 AAAGAAATAATGTAA-AATT
1 AAAGAAATAATGCAATAA-T
19297892 AAAGAAGA-AATGCAATAAT
1 AAAGAA-ATAATGCAATAAT
19297911 AAAGAAATA
1 AAAGAAATA
19297920 GGGTCCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 1 0.04
19 20 0.83
20 3 0.12
ACGTcount: A:0.66, C:0.02, G:0.13, T:0.19
Consensus pattern (19 bp):
AAAGAAATAATGCAATAAT
Found at i:19302283 original size:195 final size:194
Alignment explanation
Indices: 19301941--19302386 Score: 544
Period size: 195 Copynumber: 2.3 Consensus size: 194
19301931 GAAATCGACG
* * * *
19301941 CGATGGCTGAGGTACCGCATATGTTGCAAGTCCTCGACAACTCATGTGAGTAGCATCGTGAGTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTCG
* * * *
19302006 AGAAATGAGAAATGAATCTAAGAATGGATTACAAACCCTACGATGGTTGGGATTTATGCATGAGT
66 AGAAAAGAGAAATGAATCTAAGAATGGATTACAAACCCTACGATGGCTAGGATTTATGCATGAAT
* * * * *
19302071 GCATATTCTCGACAGCTCGTGTGATCAGCATCGTT-AGGGAAATAGTTATA-TGCACAGATACCG
131 GCATATTCTCGACAGCTCATGTGAGCAGCATCGTTAAGGG--ACAGTT-TACAG-ACAGACACCG
19302134 TAT
192 TAT
* *
19302137 CGATGGCTGAGGTACCGCATATGTTGCGAGTACTCGACAGCTCGTGTAAGCAGCATCGTGAGTCG
1 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTCG
* * ** *
19302202 A-AAAAGAGATATGAAATCCT-A-AATGGATTATAGGCCCTACGATGGCTAGGATTTATGCTTGA
66 AGAAAAGAGAAATG-AAT-CTAAGAATGGATTACAAACCCTACGATGGCTAGGATTTATGCATGA
* *
19302264 ATGCATATTCTCGACAGCTCATGTGAGCATCATTGTTAAGGGACAGTTTACAGACAGACACCGTA
129 ATGCATATTCTCGACAGCTCATGTGAGCAGCATCGTTAAGGGACAGTTTACAGACAGACACCGTA
19302329 T
194 T
* * * * *
19302330 CAATGGTTG-GAGTATCGCATATTTTTCGAGTCCTCGACAGCTCGTGTGAGCAGCATC
1 CGATGGCTGAG-GTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATC
19302387 AGGTATTGGT
Statistics
Matches: 216, Mismatches: 29, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
192 1 0.00
193 62 0.29
194 6 0.03
195 77 0.36
196 68 0.31
197 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (194 bp):
CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTCG
AGAAAAGAGAAATGAATCTAAGAATGGATTACAAACCCTACGATGGCTAGGATTTATGCATGAAT
GCATATTCTCGACAGCTCATGTGAGCAGCATCGTTAAGGGACAGTTTACAGACAGACACCGTAT
Found at i:19303932 original size:6 final size:6
Alignment explanation
Indices: 19303907--19303951 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
19303897 ACAATTCATA
* * *
19303907 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
19303952 ATTTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (6 bp):
TCACTT
Found at i:19307099 original size:22 final size:26
Alignment explanation
Indices: 19307072--19307124 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 26
19307062 TTATTCCAAT
*
19307072 TTAATG-AATTATAT-AATTA-AC-A
1 TTAATGAAATTAAATGAATTATACAA
19307094 TTAATGAAATTAAATGAATTATACAA
1 TTAATGAAATTAAATGAATTATACAA
19307120 TTAAT
1 TTAAT
19307125 AAAACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 6 0.23
23 7 0.27
24 5 0.19
25 2 0.08
26 6 0.23
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.40
Consensus pattern (26 bp):
TTAATGAAATTAAATGAATTATACAA
Found at i:19308179 original size:254 final size:254
Alignment explanation
Indices: 19307719--19308217 Score: 827
Period size: 254 Copynumber: 2.0 Consensus size: 254
19307709 TTATAAAACT
*
19307719 AACACTTAACTACCCAACAATAAACATGAAAGAGTTGCAGTACAATATCAACTAATTAACTAACA
1 AACACTTAACTACCCAACAATAAACACGAAAGAGTTGCAGTACAATATCAACTAATTAACTAACA
* * * *
19307784 GCTTAATTGTAATATCCTCAATCTGACTCAATTTCCCGAATTCGAATCTCAAATATTACTACACA
66 GCTTAATTGTAACACCCTCAATCTGACTCAATTTACCGAATTCGAATCTCAAATATTACCACACA
* *
19307849 CAATACTAAAACAAAATCTATGCCCTTATTTATATCTGTAGCCCCAACGAGAAACACAAAAGCCA
131 CAATACTAAAACAAAATCTATGCCCTTATTTAAATCTCTAGCCCCAACGAGAAACACAAAAGCCA
* * * * *
19307914 GTGGCCCAGTGCTGGTCAATTTTAAGACAGCTGAATTAAAAGAGAAACATAATTAGAAA
196 GAGGCCCAGTGCTGATCAATTCTAAAACAACTGAATTAAAAGAGAAACATAATTAGAAA
19307973 AACACTTAACTACCCAACAATAAACACGAAAGAGTTGCAGTACAATATCAACTAATTAACTAACA
1 AACACTTAACTACCCAACAATAAACACGAAAGAGTTGCAGTACAATATCAACTAATTAACTAACA
* *
19308038 GCTTAATTGTAACACCCTCAATCTGACTCAATTTATCGAATTCGAATCTGAAATATTACCACACA
66 GCTTAATTGTAACACCCTCAATCTGACTCAATTTACCGAATTCGAATCTCAAATATTACCACACA
* *
19308103 CAATACTAAAACAAAATCTATGCCCTTATTTAAATCTCTAGCCCCAATGAGAAACACAAAAGCTA
131 CAATACTAAAACAAAATCTATGCCCTTATTTAAATCTCTAGCCCCAACGAGAAACACAAAAGCCA
* * *
19308168 GAGGTCCAGTGCTTATCAATTCTAAAACAACTGAATTAAGAGAGAAACAT
196 GAGGCCCAGTGCTGATCAATTCTAAAACAACTGAATTAAAAGAGAAACAT
19308218 GGACCCAATC
Statistics
Matches: 226, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
254 226 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (254 bp):
AACACTTAACTACCCAACAATAAACACGAAAGAGTTGCAGTACAATATCAACTAATTAACTAACA
GCTTAATTGTAACACCCTCAATCTGACTCAATTTACCGAATTCGAATCTCAAATATTACCACACA
CAATACTAAAACAAAATCTATGCCCTTATTTAAATCTCTAGCCCCAACGAGAAACACAAAAGCCA
GAGGCCCAGTGCTGATCAATTCTAAAACAACTGAATTAAAAGAGAAACATAATTAGAAA
Found at i:19309765 original size:27 final size:27
Alignment explanation
Indices: 19309735--19309792 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
19309725 TGACAGGCAC
*
19309735 CACCAATAGTGTCCATCTGATAGGCGA
1 CACCAATAGTGCCCATCTGATAGGCGA
* * * *
19309762 CACCTATGGTGCCCATCTGGTAGGCGG
1 CACCAATAGTGCCCATCTGATAGGCGA
19309789 CACC
1 CACC
19309793 CAGTACTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.31, G:0.26, T:0.21
Consensus pattern (27 bp):
CACCAATAGTGCCCATCTGATAGGCGA
Found at i:19317390 original size:28 final size:29
Alignment explanation
Indices: 19317358--19317417 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 29
19317348 ACCATCAAAT
*
19317358 TATTTTAA-TCAGGTTTATATTATACCTG
1 TATTTTAATTCAGGTTTATACTATACCTG
*
19317386 TATTTTAATTTCGGGTTTATACTATACCTG
1 TATTTTAA-TTCAGGTTTATACTATACCTG
19317416 TA
1 TA
19317418 AAAAATGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.29
30 20 0.71
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (29 bp):
TATTTTAATTCAGGTTTATACTATACCTG
Found at i:19318732 original size:13 final size:11
Alignment explanation
Indices: 19318707--19318758 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
19318697 TAAAGTAAAG
19318707 AAATATATTAA
1 AAATATATTAA
19318718 AAATATACTTGAA
1 AAATATA-TT-AA
*
19318731 AAAT-TATTAT
1 AAATATATTAA
19318741 AAA-ATATTAA
1 AAATATATTAA
19318751 AAATATAT
1 AAATATAT
19318759 AGAATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 12 0.34
11 13 0.37
12 4 0.11
13 6 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (11 bp):
AAATATATTAA
Found at i:19318855 original size:5 final size:5
Alignment explanation
Indices: 19318845--19318874 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
19318835 TGAGCATTCG
19318845 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
19318875 GTGAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
ATCGA
Found at i:19321731 original size:29 final size:29
Alignment explanation
Indices: 19321697--19321841 Score: 157
Period size: 29 Copynumber: 5.0 Consensus size: 29
19321687 GAAATGAGGG
*
19321697 CAAAATGGTAATTTTTGGATGTTTGGGGT
1 CAAAATGGTAATTTTTGGATGTTCGGGGT
** *
19321726 CAAAATGGTAATTTTTATATATTCGAGGG-
1 CAAAATGGTAATTTTTGGATGTTCG-GGGT
* *
19321755 AAAAATGATAATTTTTGGATGTTCGGGGT
1 CAAAATGGTAATTTTTGGATGTTCGGGGT
** **
19321784 CAAAATGGTAATTTTTTTATGTTCAAGGT
1 CAAAATGGTAATTTTTGGATGTTCGGGGT
* *
19321813 TAAAATGGTAATTTTTGGATTTTCAGGGG
1 CAAAATGGTAATTTTTGGATGTTC-GGGG
19321842 AAAAAATGAA
Statistics
Matches: 92, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
28 3 0.03
29 84 0.91
30 5 0.05
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.41
Consensus pattern (29 bp):
CAAAATGGTAATTTTTGGATGTTCGGGGT
Found at i:19321760 original size:58 final size:58
Alignment explanation
Indices: 19321692--19321841 Score: 210
Period size: 58 Copynumber: 2.6 Consensus size: 58
19321682 CTTTGGAAAT
* *
19321692 GAGGGCAAAATGGTAATTTTTGGATGTTTGGGGTCAAAATGGTAATTTTTATATATTC
1 GAGGGAAAAATGGTAATTTTTGGATGTTCGGGGTCAAAATGGTAATTTTTATATATTC
* * *
19321750 GAGGGAAAAATGATAATTTTTGGATGTTCGGGGTCAAAATGGTAATTTTTTTATGTTC
1 GAGGGAAAAATGGTAATTTTTGGATGTTCGGGGTCAAAATGGTAATTTTTATATATTC
* ** *
19321808 AAGGTTAAAATGGTAATTTTTGGATTTTCAGGGG
1 GAGGGAAAAATGGTAATTTTTGGATGTTC-GGGG
19321842 AAAAAATGAA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
58 77 0.95
59 4 0.05
ACGTcount: A:0.29, C:0.05, G:0.27, T:0.39
Consensus pattern (58 bp):
GAGGGAAAAATGGTAATTTTTGGATGTTCGGGGTCAAAATGGTAATTTTTATATATTC
Found at i:19321843 original size:87 final size:87
Alignment explanation
Indices: 19321697--19321856 Score: 207
Period size: 87 Copynumber: 1.8 Consensus size: 87
19321687 GAAATGAGGG
*** *
19321697 CAAAATGGTAATTTTTGGATGTTTGGGGTCAAAATGGTAATTTTTATATATTCGAGGG-AAAAAT
1 CAAAATGGTAATTTTTGGATGTTCAAGGTCAAAATGGTAATTTTTAGATATTCGAGGGAAAAAAT
19321761 GATAATTTTTGGATGTTCGGGGT
66 GA-AATTTTTGGATGTTCGGGGT
** * * *
19321784 CAAAATGGTAATTTTTTTATGTTCAAGGTTAAAATGGTAATTTTTGGATTTTC-AGGGGAAAAAA
1 CAAAATGGTAATTTTTGGATGTTCAAGGTCAAAATGGTAATTTTTAGATATTCGA-GGGAAAAAA
19321848 TGAAATTTT
65 TGAAATTTT
19321857 GGAAAATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 1 0.02
87 53 0.85
88 8 0.13
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (87 bp):
CAAAATGGTAATTTTTGGATGTTCAAGGTCAAAATGGTAATTTTTAGATATTCGAGGGAAAAAAT
GAAATTTTTGGATGTTCGGGGT
Found at i:19321922 original size:30 final size:29
Alignment explanation
Indices: 19321888--19322018 Score: 102
Period size: 30 Copynumber: 4.4 Consensus size: 29
19321878 TGATTTTGGA
*
19321888 AAAGTTCGAGGGTCAAAATATAATTTTTAC
1 AAAGTTTGAGGGTCAAAATATAA-TTTTAC
* * *
19321918 AAAGTTTGGGGGTCAAAATGTAATTTTAG
1 AAAGTTTGAGGGTCAAAATATAATTTTAC
* ** **
19321947 AGAAGTTTAAGGGTCAAAATGCAATTTTGG
1 A-AAGTTTGAGGGTCAAAATATAATTTTAC
* * * *
19321977 AAATGTTTGAAGGTTAAAATATGATTTCTAG
1 AAA-GTTTGAGGGTCAAAATATAATTT-TAC
19322008 AAAGTTT-AGGG
1 AAAGTTTGAGGG
19322019 ACCTTTTAGG
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
29 11 0.13
30 66 0.80
31 5 0.06
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (29 bp):
AAAGTTTGAGGGTCAAAATATAATTTTAC
Found at i:19321985 original size:60 final size:59
Alignment explanation
Indices: 19321844--19321985 Score: 139
Period size: 60 Copynumber: 2.4 Consensus size: 59
19321834 TTCAGGGGAA
* * * *
19321844 AAAATGAAATTTTGGAAAAT-TTT-GGGGTGAAAATTGATTTTGGAAAAGTTCGAGGGTC
1 AAAATGAAATTTTGG-AAATGTTTGGGGGTCAAAATTAATTTTAGAAAAGTTCAAGGGTC
* * * *
19321902 AAAAT-ATAATTTT-TACAAAGTTTGGGGGTCAAAATGTAATTTTAGAGAAGTTTAAGGGTC
1 AAAATGA-AATTTTGGA-AATGTTTGGGGGTCAAAAT-TAATTTTAGAAAAGTTCAAGGGTC
*
19321962 AAAATGCAATTTTGGAAATGTTTG
1 AAAATGAAATTTTGGAAATGTTTG
19321986 AAGGTTAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
56 1 0.02
57 3 0.05
58 14 0.21
59 10 0.15
60 37 0.56
61 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (59 bp):
AAAATGAAATTTTGGAAATGTTTGGGGGTCAAAATTAATTTTAGAAAAGTTCAAGGGTC
Found at i:19323315 original size:23 final size:23
Alignment explanation
Indices: 19323246--19323315 Score: 106
Period size: 23 Copynumber: 3.1 Consensus size: 23
19323236 ACAAGTTATT
*
19323246 ATTATGTTTGTAACTCT-TTGTC
1 ATTATGTTTGTAACTCTCTTGCC
*
19323268 ATTATGTTTGTAACTCTCCTGCC
1 ATTATGTTTGTAACTCTCTTGCC
*
19323291 ATTATGTTTGTAACTCTCTTACC
1 ATTATGTTTGTAACTCTCTTGCC
19323314 AT
1 AT
19323316 AATATTTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 17 0.40
23 26 0.60
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (23 bp):
ATTATGTTTGTAACTCTCTTGCC
Found at i:19326862 original size:25 final size:23
Alignment explanation
Indices: 19326810--19326879 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 23
19326800 ATTTTTCTTT
* *
19326810 TAATT-TTTTTGTAACTCACCAG
1 TAATTATTTTTGTAACTCTCCTG
*
19326832 TTATTATTATTTTGTAACTCTCCTG
1 TAATTA-T-TTTTGTAACTCTCCTG
* *
19326857 TAATTATGTTTGTAAGTCTCCTG
1 TAATTATTTTTGTAACTCTCCTG
19326880 CCATAATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 4 0.10
23 14 0.36
24 2 0.05
25 19 0.49
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (23 bp):
TAATTATTTTTGTAACTCTCCTG
Found at i:19327515 original size:3 final size:3
Alignment explanation
Indices: 19327507--19327534 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19327497 TACTTAGTGT
19327507 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
19327535 ACAAAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:19327756 original size:29 final size:29
Alignment explanation
Indices: 19327686--19327766 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
19327676 AAGGTGTTAG
*
19327686 ACTTAGGTACCAAACTAGTGGACAGAAAAAA
1 ACTTAGGTACCAATCT-G-GGACAGAAAAAA
* *
19327717 AGTTCGAGTACCAATCTGGGACA-AAAAAA
1 ACTTAG-GTACCAATCTGGGACAGAAAAAA
*
19327746 ACTATAGGTACTAATCTGGGA
1 ACT-TAGGTACCAATCTGGGA
19327767 TAAGTGGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
29 21 0.50
30 7 0.17
31 5 0.12
32 9 0.21
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (29 bp):
ACTTAGGTACCAATCTGGGACAGAAAAAA
Found at i:19328016 original size:23 final size:23
Alignment explanation
Indices: 19327988--19328039 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
19327978 GGGATAGATG
* *
19327988 CATTTAGCGTTCGCCAACATGTT
1 CATTTAACATTCGCCAACATGTT
**
19328011 CATTTAACATTCGGGAACATGTT
1 CATTTAACATTCGCCAACATGTT
*
19328034 CGTTTA
1 CATTTA
19328040 TGTTTGCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (23 bp):
CATTTAACATTCGCCAACATGTT
Found at i:19336064 original size:19 final size:20
Alignment explanation
Indices: 19336041--19336100 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 20
19336031 ATATTTTTGC
*
19336041 ATTTTATAATAATTTTTAAT
1 ATTTTTTAATAATTTTTAAT
*
19336061 -TTTTTTTATAA-TTTTAAT
1 ATTTTTTAATAATTTTTAAT
19336079 ATTTTTTAATAATTTTTCAAT
1 ATTTTTTAATAATTTTT-AAT
19336100 A
1 A
19336101 ACTAATGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 7 0.21
19 19 0.56
20 4 0.12
21 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTTAATAATTTTTAAT
Found at i:19336075 original size:10 final size:10
Alignment explanation
Indices: 19336041--19336101 Score: 63
Period size: 10 Copynumber: 6.1 Consensus size: 10
19336031 ATATTTTTGC
19336041 ATTTTATAATA
1 ATTTT-TAATA
19336052 ATTTTTAAT-
1 ATTTTTAATA
* *
19336061 TTTTTTTATA
1 ATTTTTAATA
19336071 A-TTTTAATA
1 ATTTTTAATA
*
19336080 TTTTTTAATA
1 ATTTTTAATA
19336090 ATTTTTCAATA
1 ATTTTT-AATA
19336101 A
1 A
19336102 CTAATGTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
9 14 0.34
10 17 0.41
11 10 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:19339033 original size:16 final size:17
Alignment explanation
Indices: 19338997--19339035 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
19338987 ATTTTAAACC
* *
19338997 TAAATTTCAAATCAAAT
1 TAAATTTCAAATAAAAA
19339014 TAAATTT-AAATAAAAA
1 TAAATTTCAAATAAAAA
19339030 TAAATT
1 TAAATT
19339036 ATATAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATTTCAAATAAAAA
Found at i:19343511 original size:25 final size:26
Alignment explanation
Indices: 19343483--19343535 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
19343473 ATCTTTTTCA
19343483 AATTATAAAAAAATTTAAAAA-ATAT
1 AATTATAAAAAAATTTAAAAATATAT
* *
19343508 AATTATATAAAATTTTAAAAATATAT
1 AATTATAAAAAAATTTAAAAATATAT
19343534 AA
1 AA
19343536 AAAATGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AATTATAAAAAAATTTAAAAATATAT
Found at i:19344057 original size:17 final size:17
Alignment explanation
Indices: 19344037--19344070 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19344027 AACATTTAAT
* *
19344037 ATTTTTTAAATTTTTTA
1 ATTTATTAAAATTTTTA
19344054 ATTTATTAAAATTTTTA
1 ATTTATTAAAATTTTTA
19344071 TATAATCATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTATTAAAATTTTTA
Found at i:19353786 original size:22 final size:22
Alignment explanation
Indices: 19353761--19353808 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
19353751 ATTGAGAGGA
*
19353761 TTTT-TTTATTCAAAGGAGGATT
1 TTTTATTTATTCAAA-GAGAATT
* *
19353783 TTTTATTTGTTCAGAGAGAATT
1 TTTTATTTATTCAAAGAGAATT
19353805 TTTT
1 TTTT
19353809 GTGGAATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.25, C:0.04, G:0.17, T:0.54
Consensus pattern (22 bp):
TTTTATTTATTCAAAGAGAATT
Found at i:19353842 original size:20 final size:21
Alignment explanation
Indices: 19353814--19353854 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
19353804 TTTTTGTGGA
*
19353814 ATAAGATTCAGAG-ATTTTTT
1 ATAACATTCAGAGAATTTTTT
19353834 ATAACATTCAGAGAATTTTTT
1 ATAACATTCAGAGAATTTTTT
19353855 TCAGACATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (21 bp):
ATAACATTCAGAGAATTTTTT
Found at i:19354233 original size:26 final size:26
Alignment explanation
Indices: 19354170--19354234 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
19354160 TCCCAATTAT
19354170 TTTTATTGTTTATATTTGTTTGTTTA
1 TTTTATTGTTTATATTTGTTTGTTTA
*** * *
19354196 TTTTAGCATTTA-ATTTTTTATTTTTA
1 TTTTATTGTTTATATTTGTT-TGTTTA
19354222 TTTTATTGTTTAT
1 TTTTATTGTTTAT
19354235 TTATCTTGTT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.72
Consensus pattern (26 bp):
TTTTATTGTTTATATTTGTTTGTTTA
Found at i:19354504 original size:19 final size:19
Alignment explanation
Indices: 19354480--19354524 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
19354470 TCATATTTTG
19354480 TGCCTTTAAATTAATTACA
1 TGCCTTTAAATTAATTACA
19354499 TGCCTTTAAATTAATTACA
1 TGCCTTTAAATTAATTACA
19354518 TGCCTTT
1 TGCCTTT
19354525 TTGTATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (19 bp):
TGCCTTTAAATTAATTACA
Found at i:19355547 original size:26 final size:26
Alignment explanation
Indices: 19355518--19355568 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
19355508 ATTTGTGATC
* *
19355518 CTTTGCATTTTATTTTATATATGTTG
1 CTTTGCATTCTATTGTATATATGTTG
*
19355544 CTTTGCATTCTATTGTATGTATGTT
1 CTTTGCATTCTATTGTATATATGTT
19355569 ATATTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.10, G:0.14, T:0.59
Consensus pattern (26 bp):
CTTTGCATTCTATTGTATATATGTTG
Found at i:19361803 original size:21 final size:22
Alignment explanation
Indices: 19361779--19361819 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
19361769 ACTATACTAG
19361779 TTCTACCGATACAAG-CATGAT
1 TTCTACCGATACAAGTCATGAT
19361800 TTCTACCGATACAAGTCATG
1 TTCTACCGATACAAGTCATG
19361820 CAACTACCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (22 bp):
TTCTACCGATACAAGTCATGAT
Found at i:19361826 original size:21 final size:20
Alignment explanation
Indices: 19361781--19361832 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
19361771 TATACTAGTT
*
19361781 CTACCGATACAAGCATGATTT
1 CTACCGATACAAGCATGA-TA
19361802 CTACCGATACAAGTCATGCA-A
1 CTACCGATACAAG-CATG-ATA
19361823 CTACCGATAC
1 CTACCGATAC
19361833 CAAAAACTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 23 0.82
22 4 0.14
23 1 0.04
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (20 bp):
CTACCGATACAAGCATGATA
Found at i:19376068 original size:49 final size:49
Alignment explanation
Indices: 19375987--19376525 Score: 239
Period size: 49 Copynumber: 11.0 Consensus size: 49
19375977 ATAGAGTTTG
* * ** * * *
19375987 AAGAAGGATAGGTTGAAGTTGCAATGGCGGACCTAACATCCTAAAATCA
1 AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCTAAAATCA
* * * * ** *
19376036 AAGAGGGAAAGGTTGAAGCCGCAATGGCGGACCTTATACTTTAAAA-CTG
1 AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCTAAAATC-A
* * *
19376085 AAGAGGGATAGGTTGAAGCCGCAACGACAGACCTAACACCCAAAAATCGA
1 AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCTAAAATC-A
* * * * ** * * **
19376135 AA-AGGGAAAGATTAAAGTCGTAACGATAGATCTTACACCCTAAAATTG
1 AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCTAAAATCA
* * * ** * *
19376183 AAGAGGGATAGGTTGAAGTCGTAACGATAGACCTAACACCTTAAAATCG
1 AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCTAAAATCA
** * * ** * * *
19376232 AAGAGGGATCGATT-ATAGCTGCAATAACGTATCTAACACCCTAAAACCA
1 AAGAGGGAAAGGTTGA-AGCCGCAACGACGGACCTAACACCCTAAAATCA
* * * * * * * *
19376281 AATAAGGAAAGGTTGAAGCTGTAACGGCGGACCTTACACCTTAAAAAAT-G
1 AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCT--AAAATCA
* * * * *
19376331 AAGAGGGATAGGTTGAAGCTGTAATGATGGACCTAACACCCTAAAA-CA
1 AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCTAAAATCA
* * * * * * * *
19376379 CGACGAGGGAAAGATTGAAGTCGTAATGACGGATCTTACACCTTAAAAT-A
1 --AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCTAAAATCA
* * * * *
19376429 GAA-AAGGAATAGGTTGAAGCCGCGACGACGGACCTAATACCTTAAAAAT-G
1 -AAGAGGGAA-AGGTTGAAGCCGCAACGACGGACCTAACACCCT-AAAATCA
* * * * * * * *
19376479 AAGAGGGATAGATTGAAGCCACGACGGCAGATCTAACACCTTAAAAT
1 AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCTAAAAT
19376526 AAAAAAAGGA
Statistics
Matches: 371, Mismatches: 105, Indels: 29
0.73 0.21 0.06
Matches are distributed among these distances:
48 18 0.05
49 264 0.71
50 85 0.23
51 4 0.01
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (49 bp):
AAGAGGGAAAGGTTGAAGCCGCAACGACGGACCTAACACCCTAAAATCA
Found at i:19376436 original size:148 final size:149
Alignment explanation
Indices: 19376166--19376497 Score: 372
Period size: 148 Copynumber: 2.2 Consensus size: 149
19376156 AACGATAGAT
* * * *
19376166 CTTACACCCTAAAATTGAAGAGGGATAGGTTGAAG-TCGTAACGATAGACCTAACACCTTAAAAT
1 CTTACACCTTAAAAATGAAGAGGGATAGGTTGAAGCTCGTAACGATAGACCTAACACCCTAAAAA
** *
19376230 CGAAGAGGGATCGATTATAGCTGCAATAACGTATCTAACACCCTAAAACCAAATAAGGAA-AGGT
66 CGAAGAGGGAAAGATTATAGCTGCAATAACGGATCTAACACCCTAAAACCAAATAAGGAATAGGT
* * *
19376294 TGAAGCTGTAACGGCGGAC
131 TGAAGCCGCAACGACGGAC
* *
19376313 CTTACACCTTAAAAAATGAAGAGGGATAGGTTGAAGCT-GTAATGATGGACCTAACACCCTAAAA
1 CTTACACCTT-AAAAATGAAGAGGGATAGGTTGAAGCTCGTAACGATAGACCTAACACCCTAAAA
* * * * * *
19376377 CACGACGAGGGAAAGATTGA-AG-TCGTAATGACGGATCTTACACCTTAAAA-TAGAA-AAGGAA
65 -ACGAAGAGGGAAAGATT-ATAGCT-GCAATAACGGATCTAACACCCTAAAACCA-AATAAGGAA
*
19376438 TAGGTTGAAGCCGCGACGACGGAC
126 TAGGTTGAAGCCGCAACGACGGAC
* * *
19376462 CTAATACCTTAAAAATGAAGAGGGATAGATTGAAGC
1 CTTACACCTTAAAAATGAAGAGGGATAGGTTGAAGC
19376498 CACGACGGCA
Statistics
Matches: 156, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
147 9 0.06
148 80 0.51
149 66 0.42
150 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.20
Consensus pattern (149 bp):
CTTACACCTTAAAAATGAAGAGGGATAGGTTGAAGCTCGTAACGATAGACCTAACACCCTAAAAA
CGAAGAGGGAAAGATTATAGCTGCAATAACGGATCTAACACCCTAAAACCAAATAAGGAATAGGT
TGAAGCCGCAACGACGGAC
Found at i:19376442 original size:99 final size:99
Alignment explanation
Indices: 19376264--19376448 Score: 239
Period size: 100 Copynumber: 1.9 Consensus size: 99
19376254 AATAACGTAT
* * *
19376264 CTAACACCCTAAAACCAAATAAGGAAAGGTTGAAGCTGTAACGGCGGACCTTACACCTTAAAAAA
1 CTAACACCCTAAAACCAAAGAAGGAAAGATTGAAGCTGTAACGACGGACCTTACACCTTAAAAAA
* *
19376329 TGAAGAGGGATAGGTTGAAGCTGTAATGATGGAC
66 TGAAAAGGAATAGGTTGAAGCTGTAATGATGGAC
* * * * *
19376363 CTAACACCCTAAAACACGACGAGGGAAAGATTGAAG-TCGTAATGACGGATCTTACACCTTAAAA
1 CTAACACCCTAAAAC-CAAAGAAGGAAAGATTGAAGCT-GTAACGACGGACCTTACACCTTAAAA
*
19376427 TA-GAAAAGGAATAGGTTGAAGC
64 AATGAAAAGGAATAGGTTGAAGC
19376449 CGCGACGACG
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
99 34 0.47
100 39 0.53
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (99 bp):
CTAACACCCTAAAACCAAAGAAGGAAAGATTGAAGCTGTAACGACGGACCTTACACCTTAAAAAA
TGAAAAGGAATAGGTTGAAGCTGTAATGATGGAC
Found at i:19376462 original size:99 final size:100
Alignment explanation
Indices: 19376264--19376497 Score: 251
Period size: 99 Copynumber: 2.4 Consensus size: 100
19376254 AATAACGTAT
* * * * *
19376264 CTAACACCCTAAAAC-CAAATAAGGAAAGGTTGAAGCTGTAACGGCGGACCTTACACCTTAAAAA
1 CTAACACCCTAAAACACGAAGAGGGAAAGATTGAAGCTGTAACGACGGACCTTACACCTTAAAAA
* * * * * *
19376328 ATGAAGAGGGATAGGTTGAAGCTGTAATGATGGAC
66 ATGAAAAGGAATAGGTTGAAGCCGCAACGACGGAC
* * *
19376363 CTAACACCCTAAAACACGACGAGGGAAAGATTGAAG-TCGTAATGACGGATCTTACACCTTAAAA
1 CTAACACCCTAAAACACGAAGAGGGAAAGATTGAAGCT-GTAACGACGGACCTTACACCTTAAAA
* *
19376427 TA-GAAAAGGAATAGGTTGAAGCCGCGACGACGGAC
65 AATGAAAAGGAATAGGTTGAAGCCGCAACGACGGAC
* * * *
19376462 CTAATACCTTAAAA-ATGAAGAGGGATAGATTGAAGC
1 CTAACACCCTAAAACACGAAGAGGGAAAGATTGAAGC
19376498 CACGACGGCA
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
98 18 0.16
99 54 0.49
100 39 0.35
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (100 bp):
CTAACACCCTAAAACACGAAGAGGGAAAGATTGAAGCTGTAACGACGGACCTTACACCTTAAAAA
ATGAAAAGGAATAGGTTGAAGCCGCAACGACGGAC
Found at i:19376518 original size:247 final size:245
Alignment explanation
Indices: 19376019--19376500 Score: 583
Period size: 247 Copynumber: 2.0 Consensus size: 245
19376009 AATGGCGGAC
* * * * * * *
19376019 CTAACATCCTAAAATCAAAGAGGGAAAGGTTGAAGCCGCAATGGCGGACCTTATACTTTAAAACT
1 CTAACACCCTAAAACCAAAGAAGGAAAGGTTGAAGCCGCAACGGCGGACCTTACACTTAAAAAAT
19376084 GAAGAGGGATAGGTTGAAGCCGCAACGACAGACCTAACACCCAAAAATCGAAAAGGGAAAGATTA
66 GAAGAGGGATAGGTTGAAGCCGCAACGACAGACCTAACACCCAAAAATCGAAAAGGGAAAGATTA
* * * * * * *
19376149 AAGTCGTAACGATAGATCTTACACCCTAAAATTGAAGAGGGATAGGTTGAAGTCGTAACGATAGA
131 AAGTCGTAACGACAGATCTTACACCCTAAAATAGAAAAGGAATAGGTTGAAGCCGCAACGACAGA
* ** *
19376214 CCTAACACCTTAAAATCGAAGAGGGATCGATTATAGCTGCAATAACGTAT
196 CCTAACACCTTAAAATCGAAGAGGGATAGATTATAGCCACAACAACGTAT
* * *
19376264 CTAACACCCTAAAACCAAATAAGGAAAGGTTGAAGCTGTAACGGCGGACCTTACACCTTAAAAAA
1 CTAACACCCTAAAACCAAAGAAGGAAAGGTTGAAGCCGCAACGGCGGACCTTACA-CTTAAAAAA
* * * ** **
19376329 TGAAGAGGGATAGGTTGAAGCTGTAATGATGGACCTAACACCCTAAAACA-CGACGAGGGAAAGA
65 TGAAGAGGGATAGGTTGAAGCCGCAACGACAGACCTAACACCC-AAAA-ATCGAAAAGGGAAAGA
* * * * *
19376393 TTGAAGTCGTAATGACGGATCTTACACCTTAAAATAGAAAAGGAATAGGTTGAAGCCGCGACGAC
128 TTAAAGTCGTAACGACAGATCTTACACCCTAAAATAGAAAAGGAATAGGTTGAAGCCGCAACGAC
* *
19376458 GGACCTAATACCTTAAAAAT-GAAGAGGGATAGATTGA-AGCCAC
193 AGACCTAACACCTT-AAAATCGAAGAGGGATAGATT-ATAGCCAC
19376501 GACGGCAGAT
Statistics
Matches: 198, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
245 47 0.24
246 45 0.23
247 99 0.50
248 7 0.04
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (245 bp):
CTAACACCCTAAAACCAAAGAAGGAAAGGTTGAAGCCGCAACGGCGGACCTTACACTTAAAAAAT
GAAGAGGGATAGGTTGAAGCCGCAACGACAGACCTAACACCCAAAAATCGAAAAGGGAAAGATTA
AAGTCGTAACGACAGATCTTACACCCTAAAATAGAAAAGGAATAGGTTGAAGCCGCAACGACAGA
CCTAACACCTTAAAATCGAAGAGGGATAGATTATAGCCACAACAACGTAT
Found at i:19377181 original size:34 final size:34
Alignment explanation
Indices: 19377140--19377204 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
19377130 GAGAAAGATT
*
19377140 TTTTATTTGTTTAGAAAGAATTTTTTGTGGAGGA
1 TTTTATTTGTTCAGAAAGAATTTTTTGTGGAGGA
*
19377174 TTTTATTTGTTCAGAGAGAATTTTTTGTGGA
1 TTTTATTTGTTCAGAAAGAATTTTTTGTGGA
19377205 ATAAGATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.51
Consensus pattern (34 bp):
TTTTATTTGTTCAGAAAGAATTTTTTGTGGAGGA
Found at i:19377233 original size:20 final size:20
Alignment explanation
Indices: 19377205--19377242 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19377195 TTTTTGTGGA
*
19377205 ATAAGATTCAGAGATTTTTT
1 ATAACATTCAGAGATTTTTT
19377225 ATAACATTCAGAGATTTT
1 ATAACATTCAGAGATTTT
19377243 GTTTTTCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (20 bp):
ATAACATTCAGAGATTTTTT
Found at i:19377575 original size:16 final size:16
Alignment explanation
Indices: 19377541--19377598 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
19377531 TTATTTTAGC
*
19377541 ATTTAATTTTTTATTTTT
1 ATTT-ATTTTTT-TGTTT
19377559 ATTTATTTTTTTGTTT
1 ATTTATTTTTTTGTTT
*
19377575 ATTTATCTTTTTG-TT
1 ATTTATTTTTTTGTTT
19377590 ATTTATTTT
1 ATTTATTTT
19377599 CATACCATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.27
16 16 0.43
17 7 0.19
18 4 0.11
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (16 bp):
ATTTATTTTTTTGTTT
Found at i:19377901 original size:2 final size:2
Alignment explanation
Indices: 19377894--19377920 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19377884 ATATTTGTGT
19377894 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19377921 TTATTGTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19377949 original size:20 final size:20
Alignment explanation
Indices: 19377912--19377949 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19377902 TATATATATA
*
19377912 TATATATATTTATTGTTACT
1 TATATATATTAATTGTTACT
19377932 TATAT-TATTAATTAGTTA
1 TATATATATTAATT-GTTA
19377950 ATATTTATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
TATATATATTAATTGTTACT
Found at i:19378032 original size:20 final size:23
Alignment explanation
Indices: 19378007--19378057 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 23
19377997 ACTATAACTA
19378007 TAATTATATTT-TTGTGTT-A-T
1 TAATTATATTTATTGTGTTCATT
19378027 TAATTATATTTGATTGTGTTCATT
1 TAATTATATTT-ATTGTGTTCATT
19378051 TAATTAT
1 TAATTAT
19378058 TTAAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.41
22 7 0.26
23 1 0.04
24 8 0.30
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (23 bp):
TAATTATATTTATTGTGTTCATT
Found at i:19380741 original size:26 final size:26
Alignment explanation
Indices: 19380708--19380765 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
19380698 AACCCTAAAC
19380708 CATAAACATAATTAATGAAATACAAA
1 CATAAACATAATTAATGAAATACAAA
*
19380734 CATAAACATAATTAATTAAATACAAA
1 CATAAACATAATTAATGAAATACAAA
19380760 CATAAA
1 CATAAA
19380766 TTGAGTTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (26 bp):
CATAAACATAATTAATGAAATACAAA
Found at i:19381022 original size:33 final size:33
Alignment explanation
Indices: 19380980--19381054 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
19380970 AGTACTGCAA
* *
19380980 TGGGCTGAAAGGAGTAGATAATTGCGGTTATAT
1 TGGGCTGAAAGGAGTAGATAACTGCGGTGATAT
*
19381013 TGGGCTGAAAGGAGTAGATAACTGCGGTGGTAT
1 TGGGCTGAAAGGAGTAGATAACTGCGGTGATAT
19381046 TGGGCTGAA
1 TGGGCTGAA
19381055 GATATCAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.28, C:0.08, G:0.37, T:0.27
Consensus pattern (33 bp):
TGGGCTGAAAGGAGTAGATAACTGCGGTGATAT
Found at i:19382981 original size:17 final size:17
Alignment explanation
Indices: 19382959--19382991 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19382949 CATTTTAAAA
19382959 TATTTT-AATAAAATTAT
1 TATTTTCAA-AAAATTAT
19382976 TATTTTCAAAAAATTA
1 TATTTTCAAAAAATTA
19382992 AAAAATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTTTCAAAAAATTAT
Found at i:19382997 original size:25 final size:27
Alignment explanation
Indices: 19382963--19383013 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
19382953 TTAAAATATT
*
19382963 TTAATAAAATTATTATT-TTCAAAAAA
1 TTAATAAAATCATTATTATTCAAAAAA
*
19382989 TTAA-AAAATCATTATTATTTAAAAA
1 TTAATAAAATCATTATTATTCAAAAA
19383014 TACATTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (27 bp):
TTAATAAAATCATTATTATTCAAAAAA
Found at i:19383746 original size:27 final size:27
Alignment explanation
Indices: 19383703--19383754 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
19383693 TGTCCTTTTC
*
19383703 GGTGCTGCCTATTAGGTAAGCACCATT
1 GGTGCTGCCTATCAGGTAAGCACCATT
* *
19383730 GGTGCTGCCTGTCAGGTAGGCACCA
1 GGTGCTGCCTATCAGGTAAGCACCA
19383755 CCAGATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (27 bp):
GGTGCTGCCTATCAGGTAAGCACCATT
Found at i:19384642 original size:6 final size:6
Alignment explanation
Indices: 19384631--19384663 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
19384621 GAAAAAATAT
19384631 ATATAA ATATAA ATATAA ATATAA ATATGAA AT
1 ATATAA ATATAA ATATAA ATATAA ATAT-AA AT
19384664 TCAACTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:19389387 original size:23 final size:22
Alignment explanation
Indices: 19389351--19389394 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
19389341 TAAATATTTC
*
19389351 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
19389374 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
19389395 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:19400349 original size:23 final size:22
Alignment explanation
Indices: 19400313--19400356 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
19400303 TAAATATTTC
*
19400313 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
19400336 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
19400357 TTATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:19400760 original size:7 final size:7
Alignment explanation
Indices: 19400748--19400787 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
19400738 CCATTCCTAA
19400748 TCATCCC
1 TCATCCC
19400755 TCATCCC
1 TCATCCC
19400762 TCATCCC
1 TCATCCC
19400769 TCATCCC
1 TCATCCC
19400776 TCATCCC
1 TCATCCC
19400783 TCATC
1 TCATC
19400788 TTTCTTTCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.15, C:0.55, G:0.00, T:0.30
Consensus pattern (7 bp):
TCATCCC
Found at i:19408665 original size:24 final size:21
Alignment explanation
Indices: 19408615--19408665 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
19408605 TGATTGATTC
* *
19408615 AAAGGATAAAAAGAGAAAGCA
1 AAAGGATAAAAAAAGAAAACA
19408636 AAAGGATAAGAAAAAGAAGAACA
1 AAAGGATAA-AAAAAGAA-AACA
19408659 AAGAGGA
1 AA-AGGA
19408666 AGGCAAGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.36
22 7 0.28
23 5 0.20
24 4 0.16
ACGTcount: A:0.67, C:0.04, G:0.25, T:0.04
Consensus pattern (21 bp):
AAAGGATAAAAAAAGAAAACA
Found at i:19417020 original size:11 final size:11
Alignment explanation
Indices: 19417004--19417028 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19416994 TTGATGTGAT
19417004 ATTAAGAATGA
1 ATTAAGAATGA
19417015 ATTAAGAATGA
1 ATTAAGAATGA
19417026 ATT
1 ATT
19417029 GGTTGTCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (11 bp):
ATTAAGAATGA
Found at i:19417869 original size:183 final size:183
Alignment explanation
Indices: 19417554--19417923 Score: 668
Period size: 183 Copynumber: 2.0 Consensus size: 183
19417544 AGAACAAATA
*
19417554 TCCACTGCCTAGGATTGATGATTTGTTTGATCAGTTAAAGAGAGCCAGTGTATTTTCCAAGATTG
1 TCCACTACCTAGGATTGATGATTTGTTTGATCAGTTAAAGAGAGCCAGTGTATTTTCCAAGATTG
*
19417619 ATCTTAGATTAGGATATTACCAATTAAGGGTAAAAGAGTCTGATGTGTCAAAGACTACTTTTAGG
66 ATCTTAGATCAGGATATTACCAATTAAGGGTAAAAGAGTCTGATGTGTCAAAGACTACTTTTAGG
**
19417684 ACTCGGTATGGTCATTACGAGTTCTTGCTTATGTTATTCGGACTAACTAATGC
131 ACTCGGTATGGTCATTACGAGTTCTTGCTTATGCCATTCGGACTAACTAATGC
* *
19417737 TCCACTACCTAGGATTGATGATTTGTTTGATTAGTTAAAGAGAGCCAGTGTATTTTTCAAGATTG
1 TCCACTACCTAGGATTGATGATTTGTTTGATCAGTTAAAGAGAGCCAGTGTATTTTCCAAGATTG
19417802 ATCTTAGATCAGGATATTACCAATTAAGGGTAAAAGAGTCTGATGTGTCAAAGACTACTTTTAGG
66 ATCTTAGATCAGGATATTACCAATTAAGGGTAAAAGAGTCTGATGTGTCAAAGACTACTTTTAGG
* *
19417867 ACTCGGTATGGTCATTACGAGTTCTTGGTTATGCCATTTGGACTAACTAATGC
131 ACTCGGTATGGTCATTACGAGTTCTTGCTTATGCCATTCGGACTAACTAATGC
19417920 TCCA
1 TCCA
19417924 GCTGCTTTCA
Statistics
Matches: 179, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 179 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (183 bp):
TCCACTACCTAGGATTGATGATTTGTTTGATCAGTTAAAGAGAGCCAGTGTATTTTCCAAGATTG
ATCTTAGATCAGGATATTACCAATTAAGGGTAAAAGAGTCTGATGTGTCAAAGACTACTTTTAGG
ACTCGGTATGGTCATTACGAGTTCTTGCTTATGCCATTCGGACTAACTAATGC
Found at i:19421492 original size:26 final size:23
Alignment explanation
Indices: 19421438--19421527 Score: 64
Period size: 26 Copynumber: 3.8 Consensus size: 23
19421428 ATCTTAGCGC
19421438 GCTCTCCGTTATTTAGCA-TATAATGT
1 GCTCTCCGTTA-TTAGCACT-TAA--T
19421464 GCTCTCCGTTACTTAGCACGTGTAAT
1 GCTCTCCGTTA-TTAGCAC-T-TAAT
*
19421490 GCTCT-C-TTATTAGCACATTTAT
1 GCTCTCCGTTATTAGCAC-TTAAT
19421512 GCTCTCC--TATTAGCAC
1 GCTCTCCGTTATTAGCAC
19421528 CTCGGTGCTC
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
22 17 0.30
23 9 0.16
24 3 0.05
25 1 0.02
26 23 0.40
28 4 0.07
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (23 bp):
GCTCTCCGTTATTAGCACTTAAT
Found at i:19424240 original size:21 final size:21
Alignment explanation
Indices: 19424202--19424243 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
19424192 AGCTTCCCTT
19424202 CAATACTTGTTTTCATCTCCA
1 CAATACTTGTTTTCATCTCCA
*
19424223 CAATATTTGCTTTT-ATCTCCA
1 CAATACTTG-TTTTCATCTCCA
19424244 ACATTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.24, C:0.26, G:0.05, T:0.45
Consensus pattern (21 bp):
CAATACTTGTTTTCATCTCCA
Found at i:19424806 original size:18 final size:18
Alignment explanation
Indices: 19424780--19424816 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19424770 GGTTATTCCA
*
19424780 TCTTGGTTTTCCATTTTT
1 TCTTAGTTTTCCATTTTT
*
19424798 TCTTAGTTTTCCCTTTTT
1 TCTTAGTTTTCCATTTTT
19424816 T
1 T
19424817 ATTACTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.05, C:0.19, G:0.08, T:0.68
Consensus pattern (18 bp):
TCTTAGTTTTCCATTTTT
Found at i:19424825 original size:18 final size:18
Alignment explanation
Indices: 19424786--19424825 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19424776 TCCATCTTGG
* *
19424786 TTTTCCATTTTTTCTTAG
1 TTTTCCATTTTTTATTAC
*
19424804 TTTTCCCTTTTTTATTAC
1 TTTTCCATTTTTTATTAC
19424822 TTTT
1 TTTT
19424826 TAAGCTTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTCCATTTTTTATTAC
Found at i:19427762 original size:25 final size:26
Alignment explanation
Indices: 19427702--19427766 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 26
19427692 TGGCTCCACC
* *
19427702 AAAATAAAATAATATTTTAATTTTTAA
1 AAAAT-AAATAATATTTAAAATTTTAA
** *
19427729 ATTAGAAATAA-ATTTAAAATTTTAA
1 AAAATAAATAATATTTAAAATTTTAA
19427754 AAAATAAATAATA
1 AAAATAAATAATA
19427767 AACAAAAAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
25 20 0.69
26 7 0.24
27 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAATAAATAATATTTAAAATTTTAA
Found at i:19427849 original size:18 final size:18
Alignment explanation
Indices: 19427823--19427858 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19427813 CAATCAAAAA
19427823 TAAAATATACATTTAAAT
1 TAAAATATACATTTAAAT
* *
19427841 TAAACTATATATTTAAAT
1 TAAAATATACATTTAAAT
19427859 ATTAAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATATACATTTAAAT
Found at i:19427985 original size:101 final size:101
Alignment explanation
Indices: 19427801--19427986 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
19427791 GATGGCGTCA
* * *
19427801 TTTAAAATGACTCAATCAAAAATAAAATATACATTTAAATTAAACTATATATTTAAATATTAAAT
1 TTTAAAATGACTCAACCAAAAATAAAATATAAATATAAATTAAACTATATATTTAAATATTAAAT
*
19427866 AATAAATAATAATAAAAAATTAATTGGGTGATACCT
66 AATAAATAATAAAAAAAAATTAATTGGGTGATACCT
* * * *
19427902 TTTAAAATGATTCCACCAAAAATAAAATATAAATATAAATTAAATTATATATTTAAATATTATAT
1 TTTAAAATGACTCAACCAAAAATAAAATATAAATATAAATTAAACTATATATTTAAATATTAAAT
*
19427967 AATAAATAAAAAACAAAAAA
66 AATAAATAATAAA-AAAAAA
19427987 AAATCAATTG
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 69 0.92
102 6 0.08
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.33
Consensus pattern (101 bp):
TTTAAAATGACTCAACCAAAAATAAAATATAAATATAAATTAAACTATATATTTAAATATTAAAT
AATAAATAATAAAAAAAAATTAATTGGGTGATACCT
Found at i:19434936 original size:21 final size:22
Alignment explanation
Indices: 19434910--19434951 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
19434900 AATCAAAAAG
19434910 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
19434931 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
19434952 ACATGTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:19437272 original size:18 final size:18
Alignment explanation
Indices: 19437249--19437288 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
19437239 GGTTTTGTTG
19437249 TCTTGGTTTTACCTTTTT
1 TCTTGGTTTTACCTTTTT
*
19437267 TCTTGGTTTTTCCTTTTT
1 TCTTGGTTTTACCTTTTT
19437285 TCTT
1 TCTT
19437289 ACATTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.03, C:0.17, G:0.10, T:0.70
Consensus pattern (18 bp):
TCTTGGTTTTACCTTTTT
Done.