Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007869.1 Hibiscus syriacus cultivar Beakdansim tig00110243_pilon, whole genome shotgun sequence
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: 590314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:12987 original size:135 final size:129
Alignment explanation
Indices: 12701--13008 Score: 352
Period size: 135 Copynumber: 2.3 Consensus size: 129
12691 CAACATCAGC
* ** * * * *
12701 TGACCAGATCTCCTCATCACGTAGGAGCAACGTCAACATTAGATAACCAGCCGTCCTCATTACGT
1 TGACCAGATATCCTCATCACGTAGGAGC-GTGTCACCCTTAGATAACAAGCCGTCCTCATCACGT
* *
12766 AGGAACTATGTTATCACTATAAAATGGCCAAGAACTCTTCATCACGTAGGAGCAGTGTCATCCCT
65 AGGAACGATGTTATCACTATAAAATGGCCAAGAACTCTTCATCACGCAGGAGCAGTGTCATCCCT
* *
12831 TGACTAGATATCCTCATCACGTAGGAGTCGTGTCACCCTTAGATAACAAGCCGTCCTCATCGCGT
1 TGACCAGATATCCTCATCACGTAGGAG-CGTGTCACCCTTAGATAACAAGCCGTCCTCATCACGT
* *
12896 AGGAACCGA-GTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATCACGCATGAGTC-GTGT
65 AGGAA-CGATGTTATCA--C-T-ATAAA-ATGGCCAAGAACTCTTCATCACGCAGGAG-CAGTGT
12959 CAT-CCT
123 CATCCCT
* * *
12965 TCGACCAGATTTCCTCATCACGTATGAACCGTGTCACCCTTAGA
1 T-GACCAGATATCCTCATCACGTA-GGAGCGTGTCACCCTTAGA
13009 CGACCCGAAC
Statistics
Matches: 151, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
130 66 0.44
131 3 0.02
132 1 0.01
133 1 0.01
134 8 0.05
135 69 0.46
136 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (129 bp):
TGACCAGATATCCTCATCACGTAGGAGCGTGTCACCCTTAGATAACAAGCCGTCCTCATCACGTA
GGAACGATGTTATCACTATAAAATGGCCAAGAACTCTTCATCACGCAGGAGCAGTGTCATCCCT
Found at i:13026 original size:43 final size:40
Alignment explanation
Indices: 12931--13034 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 40
12921 AAGATGGCCA
* ** *
12931 AGAACTCTTCATCACGCATGAGTCGTGTCATCCTTCGACC
1 AGAACTCTTCATCACGTATGAACCGTGTCACCCTTCGACC
** *
12971 AGATTTCCTCATCACGTATGAACCGTGTCACCCTTAGACGACC
1 AGAACTCTTCATCACGTATGAACCGTGTCACCCTT---CGACC
*
13014 CGAACTCTTCATCACGTATGA
1 AGAACTCTTCATCACGTATGA
13035 GCAGTGTCGT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
40 28 0.56
43 22 0.44
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (40 bp):
AGAACTCTTCATCACGTATGAACCGTGTCACCCTTCGACC
Found at i:13232 original size:13 final size:13
Alignment explanation
Indices: 13206--13250 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
13196 TTTATTTTTT
*
13206 TTAATTATTTTTA
1 TTAATTATTATTA
13219 TT-ATTAATTATTA
1 TTAATT-ATTATTA
*
13232 TTAACTATTATTA
1 TTAATTATTATTA
13245 TTAATT
1 TTAATT
13251 TTACATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 3 0.11
13 22 0.81
14 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
TTAATTATTATTA
Found at i:20115 original size:44 final size:43
Alignment explanation
Indices: 20051--20716 Score: 416
Period size: 43 Copynumber: 15.5 Consensus size: 43
20041 AAAAATGATT
** * * *
20051 AAATTAGGATCTTAAATTATAAAAGTAAAAATGTTAGGTTGGAAA
1 AAATTAGGGGCTTCAATTATAAAAGTAAAAA-GTGAGATT-GAAA
*
20096 AAA-TAGGGG-TCTCAATTATAAAGGTAAAAAGTGAGATT-AAA
1 AAATTAGGGGCT-TCAATTATAAAAGTAAAAAGTGAGATTGAAA
* * *
20137 AAATGAGAGGCTTCAATTATAAAAGTAGAAAGTGAGATTGAAA
1 AAATTAGGGGCTTCAATTATAAAAGTAAAAAGTGAGATTGAAA
* *
20180 AAATTAGGGACTTCAATTATAAAGGTAAAAAGTGAGATTGAAAA
1 AAATTAGGGGCTTCAATTATAAAAGTAAAAAGTGAGATTG-AAA
* * * * * *
20224 AAATTAAGAGCCTCAATTATAAATGTAAAAAGTTAGCTT--AA
1 AAATTAGGGGCTTCAATTATAAAAGTAAAAAGTGAGATTGAAA
** * * * * *
20265 AAATTAAAGGCTTCAAATATAAAGGTAAAAGGCGGGATTGAAAAA
1 AAATTAGGGGCTTCAATTATAAAAGTAAAAAGTGAGATTG--AAA
* * * * * * *
20310 AAAATA-AGGCCTCGATTATAAAAGTAAAAA-AGAAATATAAAA
1 AAATTAGGGGCTTCAATTATAAAAGTAAAAAGTGAGAT-TGAAA
* * *
20352 AAATTATGGGCTTTAATTATAAAGGT-AAAAGTGAGATTGAAAA
1 AAATTAGGGGCTTCAATTATAAAAGTAAAAAGTGAGATTG-AAA
* *
20395 AAATTAGGGG--TCTAAGTTATAAAGGTAAAAAGT-AGGATTTAAA
1 AAATTAGGGGCTTC-AA-TTATAAAAGTAAAAAGTGA-GATTGAAA
* * * * * * *
20438 AAATTAGGAGCCTCAGTTATAAATGTAAAAAGTAATATTAAAA
1 AAATTAGGGGCTTCAATTATAAAAGTAAAAAGTGAGATTGAAA
* *
20481 AAATTAGGGGCTTCAATTAT-AAAGCCATAAAGTGAGATTGAAA
1 AAATTAGGGGCTTCAATTATAAAAG-TAAAAAGTGAGATTGAAA
* * * * *
20524 AAATTAGAGGCCTCCATTAT-AAAGATAAAAAGTAAGCTT-AAA
1 AAATTAGGGGCTTCAATTATAAAAG-TAAAAAGTGAGATTGAAA
* *** * * *
20566 GAAAATAATAGCTTCAATAATAAAACTAGAAAGTGAGATTGAAA
1 -AAATTAGGGGCTTCAATTATAAAAGTAAAAAGTGAGATTGAAA
* * * * * *
20610 ATATTGGGGGAC-TCATTTGTAAATGT-AAAAGTGAGA-TAAAA
1 AAATTAGGGG-CTTCAATTATAAAAGTAAAAAGTGAGATTGAAA
* * * * * *
20651 AAATTAGGGGCCTAAATCATAAAAGGTAAAAACTGGGATT-ACA
1 AAATTAGGGGCTTCAATTATAAAA-GTAAAAAGTGAGATTGAAA
*
20694 AAATTA-GAGCTCTCAATTATAAA
1 AAATTAGGGGCT-TCAATTATAAA
20717 GAAGAAAAAT
Statistics
Matches: 477, Mismatches: 114, Indels: 62
0.73 0.17 0.09
Matches are distributed among these distances:
40 1 0.00
41 57 0.12
42 64 0.13
43 247 0.52
44 96 0.20
45 12 0.03
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.26
Consensus pattern (43 bp):
AAATTAGGGGCTTCAATTATAAAAGTAAAAAGTGAGATTGAAA
Found at i:20187 original size:129 final size:128
Alignment explanation
Indices: 20051--20395 Score: 317
Period size: 128 Copynumber: 2.7 Consensus size: 128
20041 AAAAATGATT
* * * * * *
20051 AAATTA-GGATCTTAAATTATAAAAGTAAAAATGTTAGGTTGGAAAAAA-TAGGGGTCTCAATTA
1 AAATTAGGGA-CTTAAATTATAAAAGTAAAAA-GTGAGATTGAAAAAAATTAAGAGCCTCAATTA
* * *
20114 TAAAGGTAAAAAGTGAGATTAAAAAATGAGAGGCTTCAATTATAAAAGTAGAAA-GTGAGATTGA
64 TAAAGGTAAAAAGTGAGATT-AAAAATGAAAGGCTTCAAATATAAAAGTA-AAAGGCGAGATTGA
20178 AA
127 AA
* *
20180 AAATTAGGGACTTCAATTATAAAGGTAAAAAGTGAGATTGAAAAAAATTAAGAGCCTCAATTATA
1 AAATTAGGGACTTAAATTATAAAAGTAAAAAGTGAGATTGAAAAAAATTAAGAGCCTCAATTATA
* * * * * *
20245 AATGTAAAAAGTTAGCTTAAAAATTAAAGGCTTCAAATATAAAGGTAAAAGGCGGGATTGAAAAA
66 AAGGTAAAAAGTGAGATTAAAAATGAAAGGCTTCAAATATAAAAGTAAAAGGCGAGATTG--AAA
* * * ** * * * * * *
20310 AAAATAAGG-CCTCGATTATAAAAGTAAAAA-AGAAATAT-AAAAAAATTATGGGCTTTAATTAT
1 AAATTAGGGACTTAAATTATAAAAGTAAAAAGTGAGAT-TGAAAAAAATTAAGAGCCTCAATTAT
20372 AAAGGT-AAAAGTGAGATTGAAAAA
65 AAAGGTAAAAAGTGAGATT-AAAAA
20396 AATTAGGGGT
Statistics
Matches: 178, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
127 13 0.07
128 79 0.44
129 73 0.41
130 13 0.07
ACGTcount: A:0.51, C:0.05, G:0.19, T:0.25
Consensus pattern (128 bp):
AAATTAGGGACTTAAATTATAAAAGTAAAAAGTGAGATTGAAAAAAATTAAGAGCCTCAATTATA
AAGGTAAAAAGTGAGATTAAAAATGAAAGGCTTCAAATATAAAAGTAAAAGGCGAGATTGAAA
Found at i:20379 original size:87 final size:84
Alignment explanation
Indices: 20093--20467 Score: 282
Period size: 85 Copynumber: 4.4 Consensus size: 84
20083 GTTAGGTTGG
* * *
20093 AAAAAA-TAGGGGTCTCAATTATAAAGGTAAAAAGTGAGATT----AAAAAATGAGAGGCTTCAA
1 AAAAAATTAGGGCT-TCAATTATAAAGGT-AAAAGTGAGATTGAAAAAAAAATAAGA-GCCTCAA
* **
20153 TTATAAAAGTAGAAAGTGAGATT
63 TTATAAAAGTAAAAAGAAAGA-T
*
20176 GAAAAAATTAGGGACTTCAATTATAAAGGTAAAAAGTGAGATTG-AAAAAAATTAAGAGCCTCAA
1 -AAAAAATTAGGG-CTTCAATTATAAAGGT-AAAAGTGAGATTGAAAAAAAAATAAGAGCCTCAA
* ** *
20240 TTATAAATGTAAAAAGTTAGCT
63 TTATAAAAGTAAAAAGAAAGAT
* * * * * *
20262 TAAAAATTAAAGGCTTCAAATATAAAGGTAAAAGGCGGGATTGAAAAAAAAATAAG-GCCTCGAT
1 AAAAAATT-AGGGCTTCAATTATAAAGGTAAAA-GTGAGATTGAAAAAAAAATAAGAGCCTCAAT
*
20326 TATAAAAGTAAAAAAGAAATAT
64 TATAAAAGT-AAAAAGAAAGAT
* * * * *
20348 AAAAAAATTATGGGCTTTAATTATAAAGGTAAAAGTGAGATTG-AAAAAAATTAGGGGTCT-AAG
1 -AAAAAATTA-GGGCTTCAATTATAAAGGTAAAAGTGAGATTGAAAAAAAAATAAGAGCCTCAA-
* * *
20411 TTATAAAGGTAAAAAGTAGGATTT
63 TTATAAAAGTAAAAAGAAAGA--T
* * *
20435 AAAAAATTAGGAGCCTCAGTTATAAATGTAAAA
1 AAAAAATTAGG-GCTTCAATTATAAAGGTAAAA
20468 AGTAATATTA
Statistics
Matches: 237, Mismatches: 38, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
84 10 0.04
85 97 0.41
86 70 0.30
87 51 0.22
88 9 0.04
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (84 bp):
AAAAAATTAGGGCTTCAATTATAAAGGTAAAAGTGAGATTGAAAAAAAAATAAGAGCCTCAATTA
TAAAAGTAAAAAGAAAGAT
Found at i:21978 original size:20 final size:18
Alignment explanation
Indices: 21932--21978 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
21922 GGTAAAATTT
21932 GTATCGATACTAAGGCCA
1 GTATCGATACTAAGGCCA
* *
21950 ATATTGATACCTTAAGGCCA
1 GTATCGATA-C-TAAGGCCA
21970 GTATCGATA
1 GTATCGATA
21979 TTGGCATGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 7 0.30
19 1 0.04
20 15 0.65
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (18 bp):
GTATCGATACTAAGGCCA
Found at i:22291 original size:22 final size:22
Alignment explanation
Indices: 22266--22359 Score: 127
Period size: 22 Copynumber: 4.3 Consensus size: 22
22256 AGTGTTATAA
22266 CACTTTTGTATCAGTGCTGAGG
1 CACTTTTGTATCAGTGCTGAGG
*
22288 CACTTTTGTATCAGTGATGAGG
1 CACTTTTGTATCAGTGCTGAGG
*
22310 CACTTTTGTATTAGTGCTGAGG
1 CACTTTTGTATCAGTGCTGAGG
* * *
22332 TACTTTAGTA-CTAGTGCAGAGG
1 CACTTTTGTATC-AGTGCTGAGG
22354 CACTTT
1 CACTTT
22360 CATAATTTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
22 63 1.00
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (22 bp):
CACTTTTGTATCAGTGCTGAGG
Found at i:30684 original size:25 final size:25
Alignment explanation
Indices: 30650--30705 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
30640 GGAAATGGAT
30650 TCAAAATGTATTTTTAATTAGGGTA
1 TCAAAATGTATTTTTAATTAGGGTA
30675 TCAAAATGTATTTTTAATTAGGGTA
1 TCAAAATGTATTTTTAATTAGGGTA
*
30700 TTAAAA
1 TCAAAA
30706 AAGGGAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.14, T:0.43
Consensus pattern (25 bp):
TCAAAATGTATTTTTAATTAGGGTA
Found at i:32347 original size:90 final size:89
Alignment explanation
Indices: 32190--32366 Score: 309
Period size: 90 Copynumber: 2.0 Consensus size: 89
32180 CCTAACACAC
32190 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
* *
32255 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
**
32279 CCTTTTATATTCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
32344 ATTTAATTAATTGAAATTAAATA
65 ATTTAATTAATTGAAATTAAATA
32367 TTCGGGATTA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 33 0.40
90 50 0.60
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:43713 original size:22 final size:22
Alignment explanation
Indices: 43687--43769 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 22
43677 TTAGTGCAGA
43687 GGGAATCGATACCCCCTTGAAG
1 GGGAATCGATACCCCCTTGAAG
*
43709 GGGAA-CTGATTCCCCCTTTGAAG
1 GGGAATC-GATACCCCC-TTGAAG
* * * *
43732 GGGAACCAATTCCCCC-TGTAG
1 GGGAATCGATACCCCCTTGAAG
*
43753 AGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
43770 GGGGTTCTGG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 17 0.34
22 13 0.26
23 19 0.38
24 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.20
Consensus pattern (22 bp):
GGGAATCGATACCCCCTTGAAG
Found at i:45371 original size:18 final size:17
Alignment explanation
Indices: 45343--45390 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 17
45333 ATGAACCAGA
45343 ACAGCACGAGGAACAAGC
1 ACAGCA-GAGGAACAAGC
45361 ACGAGCAGAGGAACAAGC
1 AC-AGCAGAGGAACAAGC
45379 ACAGCCAGAGGA
1 ACAG-CAGAGGA
45391 TCAAATGCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.07
18 22 0.79
19 4 0.14
ACGTcount: A:0.44, C:0.25, G:0.31, T:0.00
Consensus pattern (17 bp):
ACAGCAGAGGAACAAGC
Found at i:50935 original size:2 final size:2
Alignment explanation
Indices: 50928--50959 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50918 TTTTCTTATT
50928 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50960 GAAAGCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51235 original size:29 final size:30
Alignment explanation
Indices: 51170--51256 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 30
51160 AAAGGTAAAT
**
51170 ACAGAAAATTAAAAGGCTGG-AAATTAAAGG
1 ACAGAAAA-TAAAATACTGGAAAATTAAAGG
*
51200 ACTG-AAATAAAATACTGGAAAATTAAA-G
1 ACAGAAAATAAAATACTGGAAAATTAAAGG
*
51228 AGCAGAAAAATAAAATACT-GAAATTTAAA
1 A-CAG-AAAATAAAATACTGGAAAATTAAA
51257 ATGCTGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
28 11 0.23
29 13 0.27
30 12 0.25
31 12 0.25
ACGTcount: A:0.57, C:0.07, G:0.16, T:0.20
Consensus pattern (30 bp):
ACAGAAAATAAAATACTGGAAAATTAAAGG
Found at i:51250 original size:15 final size:15
Alignment explanation
Indices: 51204--51271 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
51194 TAAAGGACTG
*
51204 AAATAAAATACTGGA
1 AAATAAAATACTGAA
* * *
51219 AAATTAAAGAGCAGAA
1 AAATAAAATA-CTGAA
51235 AAATAAAATACTGAA
1 AAATAAAATACTGAA
** *
51250 ATTTAAAATGCTGAA
1 AAATAAAATACTGAA
51265 AAATAAA
1 AAATAAA
51272 TAAAAAAAAT
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
15 29 0.73
16 11 0.28
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (15 bp):
AAATAAAATACTGAA
Found at i:51266 original size:30 final size:31
Alignment explanation
Indices: 51204--51271 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
51194 TAAAGGACTG
51204 AAATAAAATACTGGAAAATTAAAGAGCAGAA
1 AAATAAAATACTGGAAAATTAAAGAGCAGAA
* *
51235 AAATAAAATACT-GAAATTTAAA-ATGCTGAA
1 AAATAAAATACTGGAAAATTAAAGA-GCAGAA
51265 AAATAAA
1 AAATAAA
51272 TAAAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 1 0.03
30 21 0.62
31 12 0.35
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (31 bp):
AAATAAAATACTGGAAAATTAAAGAGCAGAA
Found at i:53040 original size:210 final size:209
Alignment explanation
Indices: 52764--53318 Score: 707
Period size: 210 Copynumber: 2.6 Consensus size: 209
52754 CTGTTTGAAG
* * * *
52764 ATGATGTTGTTCCTTCGTGTTGAGGAAATCAGGTCAATCAGAAGATAATTTGGATG-CAAAATGG
1 ATGATGTTGTTCCTTCGTTTTGAGGAAATCAGGTCGATCAGAAGATAACTTGGA-GACAACATGG
* * * *
52828 TTCCTTCGCGTTGAGGAAGTCTGATTATATGAGGATGACGTTGCTCCTTCGTGTTGAGGAGATCG
65 TTCCTTCGCGTTGAAGAAGTCTGATTGTCTGAGGATGACATTGCTCCTTCGTGTTGAGGAGATCG
* * * * * **
52893 GATCAATCTGGAGATAATTTGATGTTGAAGATGACACTGTTCATCTGTGTTGAAGAGATCTGGTC
130 G-TCAACCTGGACACAATTTGATGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTC
*
52958 GTTTTCAGGTAAAAAA
194 ATTTTCAGGTAAAAAA
* * *
52974 ATGATGTTGTTCCTTCGTTTTGAGGAAATCAAGTCGATTAGAAGATTACTTGGAGACAACATGGT
1 ATGATGTTGTTCCTTCGTTTTGAGGAAATCAGGTCGATCAGAAGATAACTTGGAGACAACATGGT
* * * * * *
53039 TCATTTGCGTTGAAGAAGTCTGATTGTCTGAGGATAACACTGCTCATTCGCGTTGAGGAGATCAG
66 TCCTTCGCGTTGAAGAAGTCTGATTGTCTGAGGATGACATTGCTCCTTCGTGTTGAGGAGATC-G
* *
53104 GTCGACCTGGACACAATTTGATGTTGAAGACGACATTGCTCATCCATGTTGAAGAGATCTGGTCA
130 GTCAACCTGGACACAATTTGATGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTCA
*
53169 TTTTCAGGTAAAAAG
195 TTTTCAGGTAAAAAA
* * * * * * *
53184 ATGACGCTGCTCCTTCATTTTGAGGAAATTAGGTCGATCAGAAGATGACTTGGAGACAACATTGT
1 ATGATGTTGTTCCTTCGTTTTGAGGAAATCAGGTCGATCAGAAGATAACTTGGAGACAACATGGT
* * * * *
53249 TCCTTCGCATTGAAGAAGTCTGATTGTCTGAGGATGACATTTCTCCTTCATGTTAAGGAGGTCGG
66 TCCTTCGCGTTGAAGAAGTCTGATTGTCTGAGGATGACATTGCTCCTTCGTGTTGAGGAGATC-G
53314 GTCAA
130 GTCAA
53319 AACTAACTTT
Statistics
Matches: 293, Mismatches: 50, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
209 1 0.00
210 290 0.99
211 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (209 bp):
ATGATGTTGTTCCTTCGTTTTGAGGAAATCAGGTCGATCAGAAGATAACTTGGAGACAACATGGT
TCCTTCGCGTTGAAGAAGTCTGATTGTCTGAGGATGACATTGCTCCTTCGTGTTGAGGAGATCGG
TCAACCTGGACACAATTTGATGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGTCAT
TTTCAGGTAAAAAA
Found at i:65159 original size:27 final size:28
Alignment explanation
Indices: 65107--65161 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
65097 AAATTTCGAT
*
65107 GAGCTTAATGAGCAACGAGACGAGCAAC
1 GAGCTTAACGAGCAACGAGACGAGCAAC
*
65135 GAGCTTAACGAGC-ACGAGTCGAGCAAC
1 GAGCTTAACGAGCAACGAGACGAGCAAC
65162 AAGTTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.36, C:0.24, G:0.29, T:0.11
Consensus pattern (28 bp):
GAGCTTAACGAGCAACGAGACGAGCAAC
Found at i:66756 original size:59 final size:59
Alignment explanation
Indices: 66656--66772 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 59
66646 GACAATTGTA
* * *
66656 TAACTTTTAATAGTCAAGAGACTCAACAAAGCAACAACATATAGTCGAGGGATCATTTTG
1 TAACTTTTAATAGTC-AGAGACTCAACAAAACAACAACATATAGTAGAGGGACCATTTTG
* *
66716 TAACTTTTAATAGTC-GATGACTCAATAAAACAACACCATATAGTAGAGGGACCATTT
1 TAACTTTTAATAGTCAGA-GACTCAACAAAACAACAACATATAGTAGAGGGACCATTT
66773 GTTTTATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
58 2 0.04
59 34 0.67
60 15 0.29
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (59 bp):
TAACTTTTAATAGTCAGAGACTCAACAAAACAACAACATATAGTAGAGGGACCATTTTG
Found at i:67902 original size:15 final size:15
Alignment explanation
Indices: 67861--67906 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
67851 TTATTGAAAA
*
67861 TTTTAAATTATTATAT
1 TTTTAAATT-TTATTT
67877 TTTTAGAATTTTATTT
1 TTTTA-AATTTTATTT
*
67893 TTTTATATTTTATT
1 TTTTAAATTTTATT
67907 GATAGTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 8 0.30
16 15 0.56
17 4 0.15
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTAAATTTTATTT
Found at i:72435 original size:37 final size:37
Alignment explanation
Indices: 72364--72436 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 37
72354 TGGAAAATAC
* *
72364 TTATATATTTTCTTTAAAAAATTTAAATTCATAAAAT
1 TTATATATTTTCTTTAAAAAATTGAAAATCATAAAAT
* *
72401 TTATATAATTTTTTTTACAAAATTGAAAAT-ATAAAA
1 TTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAAA
72437 AGGTTTAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 12 0.39
38 19 0.61
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
TTATATATTTTCTTTAAAAAATTGAAAATCATAAAAT
Found at i:73393 original size:16 final size:16
Alignment explanation
Indices: 73374--73407 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
73364 CAATATACGA
73374 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
73390 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
73406 AT
1 AT
73408 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:73481 original size:16 final size:18
Alignment explanation
Indices: 73449--73482 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
73439 TATTAATGTA
73449 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
73467 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
73483 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:74157 original size:130 final size:130
Alignment explanation
Indices: 73953--74200 Score: 388
Period size: 130 Copynumber: 1.9 Consensus size: 130
73943 AATTTTCTTC
* * * *
73953 TAATTAGGTGGTGACATGTGTCATCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAAAACATGTCAGAT
** * * *
74018 CCTGGTTAAATGATTAATTTATTAAATTTTTTTTAATTTAGGACCAAATTGATAACATATATAAA
66 CCTAATTAAATGATTAATTTATGAAATTCTATTTAATTTAGGACCAAATTGATAACATATATAAA
* * *
74083 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAAAACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAAAACATGTCAGAT
74148 CCTAATTAAATGATTAATTTATGAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATGAAATTCTATTTAATTTAGGACCAAATTGAT
74201 TATATAAATA
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 106 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAAAACATGTCAGAT
CCTAATTAAATGATTAATTTATGAAATTCTATTTAATTTAGGACCAAATTGATAACATATATAAA
Found at i:74644 original size:35 final size:35
Alignment explanation
Indices: 74594--74669 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
74584 AATTGAATTT
* *
74594 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
74629 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
74664 AATTGA
1 AATTGA
74670 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:79461 original size:27 final size:26
Alignment explanation
Indices: 79413--79463 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
79403 ATCATTATTT
* *
79413 TAAATTTTAATTTAATATATTATACA
1 TAAACTTTAATTTAATAAATTATACA
*
79439 TAAACTTTAATTTTATACAATTATA
1 TAAACTTTAATTTAATA-AATTATA
79464 TATATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (26 bp):
TAAACTTTAATTTAATAAATTATACA
Found at i:79908 original size:36 final size:37
Alignment explanation
Indices: 79856--79936 Score: 112
Period size: 39 Copynumber: 2.2 Consensus size: 37
79846 TTTGTTGAAT
79856 TTATATTATATAAAAA-A-TTTAGTTAATTAGTTTAAG
1 TTATATTATATAAAAATAGTTTA-TTAATTAGTTTAAG
*
79892 TTATATTATAATAAAAAATAGTTTATTAGTTAGTTTAAG
1 TTATATTAT-AT-AAAAATAGTTTATTAATTAGTTTAAG
79931 TTATAT
1 TTATAT
79937 AAAAGAATAG
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
36 9 0.22
37 2 0.05
38 5 0.12
39 20 0.50
40 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (37 bp):
TTATATTATATAAAAATAGTTTATTAATTAGTTTAAG
Found at i:79938 original size:36 final size:36
Alignment explanation
Indices: 79855--79963 Score: 93
Period size: 39 Copynumber: 3.0 Consensus size: 36
79845 CTTTGTTGAA
*
79855 TTTATATTATATAAAAA-A-TTTAGTTAATTAGTTTAAG
1 TTTATA-TATA-AAAAATAGTTTA-TTAGTTAGTTTAAG
79892 TTATATTATAATAAAAAATAGTTTATTAGTTAGTTTAAG
1 TT-TA-TAT-ATAAAAAATAGTTTATTAGTTAGTTTAAG
* **
79931 -TTATATA-AAAGAATAGCGTATTAGTT-GTTTAAG
1 TTTATATATAAAAAATAGTTTATTAGTTAGTTTAAG
79964 GGGAAAATTC
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
33 7 0.11
34 16 0.25
35 1 0.02
36 3 0.05
37 4 0.06
38 9 0.14
39 19 0.30
40 4 0.06
ACGTcount: A:0.42, C:0.01, G:0.12, T:0.45
Consensus pattern (36 bp):
TTTATATATAAAAAATAGTTTATTAGTTAGTTTAAG
Found at i:79961 original size:33 final size:34
Alignment explanation
Indices: 79897--79963 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
79887 TTAAGTTATA
**
79897 TTATAATAAAAAATAGTTTATTAGTTAGTTTAAG
1 TTATAATAAAAAATAGCGTATTAGTTAGTTTAAG
79931 TTAT-ATAAAAGAATAGCGTATTAGTT-GTTTAAG
1 TTATAATAAAA-AATAGCGTATTAGTTAGTTTAAG
79964 GGGAAAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 13 0.43
34 17 0.57
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.42
Consensus pattern (34 bp):
TTATAATAAAAAATAGCGTATTAGTTAGTTTAAG
Found at i:80068 original size:28 final size:28
Alignment explanation
Indices: 80010--80069 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
80000 TAGTTTGTTA
* *
80010 GTTTAGGGTTTATAGTTTATGATTCAGG
1 GTTTAGGGTTTATAGTTTAGGATTCAAG
* *
80038 GTTTAGTGTTTAGTA-TTTAGGATTTAAG
1 GTTTAGGGTTTA-TAGTTTAGGATTCAAG
80066 GTTT
1 GTTT
80070 TAGGTTTCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.50
Consensus pattern (28 bp):
GTTTAGGGTTTATAGTTTAGGATTCAAG
Found at i:80113 original size:14 final size:14
Alignment explanation
Indices: 80094--80273 Score: 78
Period size: 14 Copynumber: 12.5 Consensus size: 14
80084 TGTTGCATAT
80094 ACTATAAACCCTAA
1 ACTATAAACCCTAA
*
80108 ACTATAAATCCTAA
1 ACTATAAACCCTAA
*
80122 A-TCTAAACCCTAA
1 ACTATAAACCCTAA
* * *
80135 CCT-TAAATCATAA
1 ACTATAAACCCTAA
80148 ACTATAAACCTTAGTCCTTAA
1 ACTATAAA-C-----CC-TAA
**
80169 ACCCTAAACCCTAA
1 ACTATAAACCCTAA
** **
80183 ACCCTAAACCAAAA
1 ACTATAAACCCTAA
80197 ACTATAAACCCTAA
1 ACTATAAACCCTAA
* *
80211 ACAATAAACCTTAA
1 ACTATAAACCCTAA
* ** *
80225 AC-ACTAGACGTTAG
1 ACTA-TAAACCCTAA
* * *
80239 ATTCTAAACTCTAA
1 ACTATAAACCCTAA
*
80253 ACTCTAAACCCTAA
1 ACTATAAACCCTAA
80267 ACTATAA
1 ACTATAA
80274 TTTAGTTTGT
Statistics
Matches: 124, Mismatches: 31, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
13 21 0.17
14 90 0.73
15 2 0.02
20 2 0.02
21 9 0.07
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (14 bp):
ACTATAAACCCTAA
Found at i:80122 original size:21 final size:20
Alignment explanation
Indices: 80098--80226 Score: 64
Period size: 21 Copynumber: 6.2 Consensus size: 20
80088 GCATATACTA
80098 TAAACCCTAAACTATAAATCC
1 TAAACCCTAAACTATAAA-CC
* **
80119 TAAA-TCTAAACCCT-AACC
1 TAAACCCTAAACTATAAACC
* *
80137 TTAAATCATAAACTATAAACC
1 -TAAACCCTAAACTATAAACC
** * **
80158 TTAGTCCTTAAACCCTAAACCC
1 -TAAACCCTAAACTATAAA-CC
* * *
80180 TAAACCCTAAACCAAAAACTA
1 TAAACCCTAAACTATAAAC-C
*
80201 TAAACCCTAAACAATAAACC
1 TAAACCCTAAACTATAAACC
80221 TTAAAC
1 -TAAAC
80227 ACTAGACGTT
Statistics
Matches: 80, Mismatches: 22, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
18 2 0.03
19 6 0.08
20 14 0.17
21 56 0.70
22 2 0.03
ACGTcount: A:0.48, C:0.29, G:0.01, T:0.22
Consensus pattern (20 bp):
TAAACCCTAAACTATAAACC
Found at i:80129 original size:20 final size:20
Alignment explanation
Indices: 80104--80160 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
80094 ACTATAAACC
80104 CTAAACTATAAATCC-TAAAT
1 CTAAACTATAAA-CCTTAAAT
**
80124 CTAAACCCT-AACCTTAAAT
1 CTAAACTATAAACCTTAAAT
80143 CATAAACTATAAACCTTA
1 C-TAAACTATAAACCTTA
80161 GTCCTTAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 2 0.07
19 8 0.27
20 13 0.43
21 7 0.23
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (20 bp):
CTAAACTATAAACCTTAAAT
Found at i:80176 original size:7 final size:7
Alignment explanation
Indices: 80166--80268 Score: 62
Period size: 7 Copynumber: 14.7 Consensus size: 7
80156 CCTTAGTCCT
80166 TAAACCC
1 TAAACCC
80173 TAAACCC
1 TAAACCC
80180 TAAACCC
1 TAAACCC
*
80187 TAAACCA
1 TAAACCC
* **
80194 AAAACTA
1 TAAACCC
80201 TAAACCC
1 TAAACCC
**
80208 TAAACAA
1 TAAACCC
*
80215 TAAACCT
1 TAAACCC
*
80222 TAAACAC
1 TAAACCC
* **
80229 TAGACGT
1 TAAACCC
* **
80236 TAGATTC
1 TAAACCC
*
80243 TAAACTC
1 TAAACCC
*
80250 TAAACTC
1 TAAACCC
80257 TAAACCC
1 TAAACCC
80264 TAAAC
1 TAAAC
80269 TATAATTTAG
Statistics
Matches: 75, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 75 1.00
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:80298 original size:7 final size:7
Alignment explanation
Indices: 80286--80409 Score: 88
Period size: 7 Copynumber: 17.9 Consensus size: 7
80276 TAGTTTGTTA
80286 GTTTAGG
1 GTTTAGG
80293 GTTTAGG
1 GTTTAGG
*
80300 GTTTATG
1 GTTTAGG
*
80307 ATTTAGG
1 GTTTAGG
*
80314 ATTTAGG
1 GTTTAGG
**
80321 GTTTATT
1 GTTTAGG
80328 GTTTAGG
1 GTTTAGG
**
80335 GTTTATA
1 GTTTAGG
80342 GTTTAGG
1 GTTTAGG
***
80349 GTTTTTA
1 GTTTAGG
* *
80356 GTATAGA
1 GTTTAGG
* **
80363 ATTTATA
1 GTTTAGG
*
80370 GTTTATG
1 GTTTAGG
*
80377 GTTTAAG
1 GTTTAGG
80384 G-TTAGG
1 GTTTAGG
80390 GTTTAGG
1 GTTTAGG
80397 GTTTAGG
1 GTTTAGG
80404 GTTTAG
1 GTTTAG
80410 AGAACACGAG
Statistics
Matches: 91, Mismatches: 25, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
6 5 0.05
7 86 0.95
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:80357 original size:14 final size:14
Alignment explanation
Indices: 80284--80408 Score: 101
Period size: 14 Copynumber: 9.0 Consensus size: 14
80274 TTTAGTTTGT
80284 TAGTTTAGGGTTTA
1 TAGTTTAGGGTTTA
** * *
80298 GGGTTTATGATTTA
1 TAGTTTAGGGTTTA
*
80312 -GGATTTAGGGTTTA
1 TAG-TTTAGGGTTTA
*
80326 TTGTTTAGGGTTTA
1 TAGTTTAGGGTTTA
*
80340 TAGTTTAGGGTTTT
1 TAGTTTAGGGTTTA
* **
80354 TAGTATAGAATTTA
1 TAGTTTAGGGTTTA
*
80368 TAGTTTATGGTTTA
1 TAGTTTAGGGTTTA
*
80382 -AGGTTAGGGTTTA
1 TAGTTTAGGGTTTA
**
80395 GGGTTTAGGGTTTA
1 TAGTTTAGGGTTTA
80409 GAGAACACGA
Statistics
Matches: 87, Mismatches: 21, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
13 13 0.15
14 73 0.84
15 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TAGTTTAGGGTTTA
Found at i:80749 original size:22 final size:22
Alignment explanation
Indices: 80724--80766 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
80714 CCTAAACCCC
*
80724 AAACCCCAAACTAATAAACTAT
1 AAACCCCAAACTAACAAACTAT
*
80746 AAACCCTAAACTAACAAACTA
1 AAACCCCAAACTAACAAACTA
80767 ACAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (22 bp):
AAACCCCAAACTAACAAACTAT
Found at i:80799 original size:39 final size:37
Alignment explanation
Indices: 80752--80866 Score: 101
Period size: 39 Copynumber: 2.9 Consensus size: 37
80742 CTATAAACCC
*
80752 TAAACTAACAAACTAACAAACTAATTCTTTTATATAACT
1 TAAACTAA-AAACTAATAAACTAATT-TTTTATATAACT
*
80791 TAAACT---AACTAATAAACTATTTTTTATTATAATATAACT
1 TAAACTAAAAACTAATAAACTA--ATTT-TT-T-ATATAACT
*
80830 TAAACTAATAAACTAATTAACTAAATTTTTTATATAA
1 TAAACTAA-AAACTAATAAACT-AATTTTTTATATAA
80867 TATAAATCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
35 12 0.19
36 1 0.02
37 4 0.06
38 1 0.02
39 26 0.42
40 1 0.02
41 2 0.03
42 3 0.05
43 11 0.18
44 1 0.02
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (37 bp):
TAAACTAAAAACTAATAAACTAATTTTTTATATAACT
Found at i:80808 original size:35 final size:36
Alignment explanation
Indices: 80761--80847 Score: 103
Period size: 35 Copynumber: 2.5 Consensus size: 36
80751 CTAAACTAAC
*
80761 AAACTAACAAACTAATTCTTTTA-TATAACT-TAAAC-T
1 AAACTAATAAACTAATT-TTTTATTATAA-TAT-AACTT
80797 -AACTAATAAACT-ATTTTTTATTATAATATAACTT
1 AAACTAATAAACTAATTTTTTATTATAATATAACTT
80831 AAACTAATAAACTAATT
1 AAACTAATAAACTAATT
80848 AACTAAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
33 9 0.20
34 10 0.22
35 23 0.51
36 3 0.07
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (36 bp):
AAACTAATAAACTAATTTTTTATTATAATATAACTT
Found at i:81409 original size:29 final size:29
Alignment explanation
Indices: 81370--81430 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
81360 TGTCGACCTT
81370 TGCTTGATCGTTTTGATTACATGGCGACC
1 TGCTTGATCGTTTTGATTACATGGCGACC
* *
81399 TGCTTGGTCGTTTTGATTTCATGGCGACC
1 TGCTTGATCGTTTTGATTACATGGCGACC
81428 TGC
1 TGC
81431 AAGATTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.13, C:0.21, G:0.26, T:0.39
Consensus pattern (29 bp):
TGCTTGATCGTTTTGATTACATGGCGACC
Found at i:82575 original size:37 final size:37
Alignment explanation
Indices: 82533--82608 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
82523 TAAAAGAAAA
82533 AAGGATTAAGAAGAAAACTTTCATTTAATAACATCAT
1 AAGGATTAAGAAGAAAACTTTCATTTAATAACATCAT
*
82570 AAGGATTAAGAATAAAACTTTCATTTAATAACATCAT
1 AAGGATTAAGAAGAAAACTTTCATTTAATAACATCAT
82607 AA
1 AA
82609 AAACTTGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (37 bp):
AAGGATTAAGAAGAAAACTTTCATTTAATAACATCAT
Found at i:85481 original size:89 final size:89
Alignment explanation
Indices: 85330--85505 Score: 307
Period size: 89 Copynumber: 2.0 Consensus size: 89
85320 CTTAACACAC
* * *
85330 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTCAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATATATTATTTCAAATTAATTAAATCTATA
*
85395 TTTAATTAATTGAAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
*
85419 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATATATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATATATTATTTCAAATTAATTAAATCTATA
85484 TTTAATTAATTGAAATTAAATA
66 TTTAATTAATTGAAATTAAATA
85506 TTCAGGATTA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATATATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:89940 original size:46 final size:46
Alignment explanation
Indices: 89869--90025 Score: 197
Period size: 46 Copynumber: 3.4 Consensus size: 46
89859 TTAATATATT
* * *
89869 GTTATGTATTTTCATTTGTGGCATCCTTTCATGCCAATTATGCACC
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
* * * *
89915 GTTATGCATTTTTATTTATGACATCCTTTCATACCGATAATGCACC
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
** * * * *
89961 GTCGTGCATTTTCATTTATGGCATCATTTCATGCCTATAATACATC
1 GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
90007 GTTATGCATTTTCATTTAT
1 GTTATGCATTTTCATTTAT
90026 TCCTTCATTT
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 93 1.00
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (46 bp):
GTTATGCATTTTCATTTATGGCATCCTTTCATGCCAATAATGCACC
Found at i:94035 original size:507 final size:506
Alignment explanation
Indices: 93084--94096 Score: 1956
Period size: 507 Copynumber: 2.0 Consensus size: 506
93074 TTTTTAATCC
93084 AATTATGTTGTTTTCCATGAAAACTATACGTATTAATACTTTCAAACATTATTTTAGTTTTCAAA
1 AATTATGTTGTTTTCCATGAAAACTATACGTATTAATACTTTCAAACATTATTTTAGTTTTCAAA
*
93149 ACTTTGCCCATTAGGATTGTTTTAGAGAATCTTGAAATATTGCGGACTCAATTGAGTTTTGGGAT
66 ACTTTGCCCATTAGGATTGTTTTAGAAAATCTTGAAATATTGCGGACTCAATTGAGTTTTGGGAT
93214 TGATTATATTGCATACATGTGTTTAAATTTGCAGGTACTCTTTGATTCTGATTTTCTTCTGTCAT
131 TGATTATATTGCATACATGTGTTTAAATTTGCAGGTACTCTTTGATTCTGATTTTCTTCTGTCAT
93279 GTCTCACAAACGTTCTAGGCCACCCTCTAGTCGATCAAACCAACCACCAAACTCACCTCCAAATC
196 GTCTCACAAACGTTCTAGGCCACCCTCTAGTCGATCAAACCAACCACCAAACTCACCTCCAAATC
93344 CTCCTCCTATCCAACAATTTCCTAATCATAATCCCGATGATCCAAATATGAAGATTCTTAATTCG
261 CTCCTCCTATCCAACAATTTCCTAATCATAATCCCGATGATCCAAATATGAAGATTCTTAATTCG
93409 TTCTTCAATGAACCAGGTCGTAGACAAAATCTCCTCTTTAGGTATTCTTAATATTTTGAATCCTA
326 TTCTTCAATGAACCAGGTCGTAGACAAAATCTCCTCTTTAGGTATTCTTAATATTTTGAATCCTA
* *
93474 CAAAATTTGGGAAGAAAGAATCCCATATCTCAAAGCTATGTTAGACACAAATTATCGATATCTTC
391 CAAAATTCGGGAAGAAAGAATCCCATATCTCAAAGCTATGTTAGACACAAATTATAGATATCTTC
93539 CTA-CCTACAAGAGTGGAAATTTGATAAAATCTTCAAACTTGAACCAATAG
456 CTACCCTACAAGAGTGGAAATTTGATAAAATCTTCAAACTTGAACCAATAG
*
93589 AATTATGTTGTTTTTCATGAAAACTATACGTATTAATACTTTCAAACATTATTTTAGTTTTCAAA
1 AATTATGTTGTTTTCCATGAAAACTATACGTATTAATACTTTCAAACATTATTTTAGTTTTCAAA
93654 ACTTTGCCCATTAGGATTGTTTTAGAAAATCTTGAAATATTGCGGACTCAATTGAGTTTTGGGAT
66 ACTTTGCCCATTAGGATTGTTTTAGAAAATCTTGAAATATTGCGGACTCAATTGAGTTTTGGGAT
93719 TGATTATATTGCATACATGTGTTTAAATTTGCAGGTTACTCTTTTGATTCTGATTTTCTTCTGTC
131 TGATTATATTGCATACATGTGTTTAAATTTGCAGG-TACTC-TTTGATTCTGATTTTCTTCTGTC
93784 ATGTCTCACAAACGTTCTAGGCCACCCTCTAGTCGATCAAACCAACCACCAAACTCACCTCCAAA
194 ATGTCTCACAAACGTTCTAGGCCACCCTCTAGTCGATCAAACCAACCACCAAACTCACCTCCAAA
*
93849 TCCTCCTCCTATCCAACAATTTCCTAATCATAATCCCGATGATCCAAATATGACGATTCTTAATT
259 TCCTCCTCCTATCCAACAATTTCCTAATCATAATCCCGATGATCCAAATATGAAGATTCTTAATT
93914 CGTTCTTCAATGAACCAGGTCGTAGACAAAATCTCCTCTTTAGGTATTCTTAATATTTTGAATCC
324 CGTTCTTCAATGAACCAGGTCGTAGACAAAATCTCCTCTTTAGGTATTCTTAATATTTTGAATCC
93979 TACAAAATTCGGGAAGAAAGAATCCCATATCTCAAAGCTATGTTAGACACAAATTATAGATATCT
389 TACAAAATTCGGGAAGAAAGAATCCCATATCTCAAAGCTATGTTAGACACAAATTATAGATATCT
94044 TCCTACCCTACAAGAGTGGAAATTTGATAAAATCTTCAAACTTGAACCAATAG
454 TCCTACCCTACAAGAGTGGAAATTTGATAAAATCTTCAAACTTGAACCAATAG
94097 TTTATCATCA
Statistics
Matches: 500, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
505 163 0.33
506 5 0.01
507 285 0.57
508 47 0.09
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (506 bp):
AATTATGTTGTTTTCCATGAAAACTATACGTATTAATACTTTCAAACATTATTTTAGTTTTCAAA
ACTTTGCCCATTAGGATTGTTTTAGAAAATCTTGAAATATTGCGGACTCAATTGAGTTTTGGGAT
TGATTATATTGCATACATGTGTTTAAATTTGCAGGTACTCTTTGATTCTGATTTTCTTCTGTCAT
GTCTCACAAACGTTCTAGGCCACCCTCTAGTCGATCAAACCAACCACCAAACTCACCTCCAAATC
CTCCTCCTATCCAACAATTTCCTAATCATAATCCCGATGATCCAAATATGAAGATTCTTAATTCG
TTCTTCAATGAACCAGGTCGTAGACAAAATCTCCTCTTTAGGTATTCTTAATATTTTGAATCCTA
CAAAATTCGGGAAGAAAGAATCCCATATCTCAAAGCTATGTTAGACACAAATTATAGATATCTTC
CTACCCTACAAGAGTGGAAATTTGATAAAATCTTCAAACTTGAACCAATAG
Found at i:96055 original size:10 final size:10
Alignment explanation
Indices: 96023--96057 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
96013 GAAGCCATTG
96023 ATCAACAACA
1 ATCAACAACA
*
96033 ATAAACAACA
1 ATCAACAACA
*
96043 ATCAACAAGA
1 ATCAACAACA
96053 ATCAA
1 ATCAA
96058 GAGAGAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.63, C:0.23, G:0.03, T:0.11
Consensus pattern (10 bp):
ATCAACAACA
Found at i:103717 original size:21 final size:21
Alignment explanation
Indices: 103693--103735 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
103683 GGGCAGATTG
103693 CCCAGAGGGAACCGATTCCCC
1 CCCAGAGGGAACCGATTCCCC
* *
103714 CCCAGAGGGTACTGATTCCCC
1 CCCAGAGGGAACCGATTCCCC
103735 C
1 C
103736 TGAATGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.42, G:0.23, T:0.14
Consensus pattern (21 bp):
CCCAGAGGGAACCGATTCCCC
Found at i:107129 original size:46 final size:46
Alignment explanation
Indices: 107069--107274 Score: 290
Period size: 46 Copynumber: 4.5 Consensus size: 46
107059 TCGTTAATAT
* * * *
107069 ACTGTTATGTATTTTCATTTGTGACATCCTTTCATGTTGATTATGC
1 ACTGTTATGCATTTTCATTTATGACATCATTTCATGTTGATAATGC
* *
107115 ACAGTTATGCATTTTCATTTATGGCATCATTTCATGTTGATAATGC
1 ACTGTTATGCATTTTCATTTATGACATCATTTCATGTTGATAATGC
107161 ACTGTTATGCATTTTCATTTAT-AGCATCATTTCAT-TTCGATAATGC
1 ACTGTTATGCATTTTCATTTATGA-CATCATTTCATGTT-GATAATGC
* * * *
107207 ACCGTTATGCATTTTCATTTATGACATCCTTTCATGTCGATAATGT
1 ACTGTTATGCATTTTCATTTATGACATCATTTCATGTTGATAATGC
107253 ACTGTTATGCATTTTCATTTAT
1 ACTGTTATGCATTTTCATTTAT
107275 TCCTTCATTT
Statistics
Matches: 143, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
45 2 0.01
46 139 0.97
47 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.47
Consensus pattern (46 bp):
ACTGTTATGCATTTTCATTTATGACATCATTTCATGTTGATAATGC
Found at i:109974 original size:8 final size:8
Alignment explanation
Indices: 109961--109987 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
109951 GATAAAAGTA
109961 AATAGTTT
1 AATAGTTT
109969 AATAGTTT
1 AATAGTTT
109977 AATAGTTT
1 AATAGTTT
109985 AAT
1 AAT
109988 GACTTATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (8 bp):
AATAGTTT
Found at i:110722 original size:65 final size:65
Alignment explanation
Indices: 110626--110770 Score: 147
Period size: 65 Copynumber: 2.3 Consensus size: 65
110616 CATCTTCAAT
** *
110626 GTGCATCGATGCA-CT-CTTAAATAAATGAACATCGAAT-GCAATCAGTGCATCGATGCAT-AAG
1 GTGCATCGATGCACCTGCTTAAATAAACAAACATCGAATAGCAATCA-TGCACCGATGCATGAA-
110687 GA
64 GA
* * * * * *
110689 GTGCATCGATGCACCTGCTTAAA-AATACAAACATTGAATAGGATTTATGTACCGATGCATGAAT
1 GTGCATCGATGCACCTGCTTAAATAA-ACAAACATCGAATAGCAATCATGCACCGATGCATGAAG
110753 A
65 A
110754 GTGCATCGATGCACCTG
1 GTGCATCGATGCACCTG
110771 TCAAGGGATG
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
63 13 0.19
64 4 0.06
65 45 0.66
66 6 0.09
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (65 bp):
GTGCATCGATGCACCTGCTTAAATAAACAAACATCGAATAGCAATCATGCACCGATGCATGAAGA
Found at i:114509 original size:21 final size:22
Alignment explanation
Indices: 114483--114523 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
114473 ATTCTGGGTT
114483 ATGTGCATCGATGCA-TCTTCA
1 ATGTGCATCGATGCACTCTTCA
114504 ATGTGCATCGATGCACTCTT
1 ATGTGCATCGATGCACTCTT
114524 AAATAAATGA
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:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (22 bp):
ATGTGCATCGATGCACTCTTCA
Found at i:125642 original size:151 final size:151
Alignment explanation
Indices: 125347--125858 Score: 574
Period size: 153 Copynumber: 3.3 Consensus size: 151
125337 CATGATTTCA
* *
125347 TTATTTCTTCAATTCCTTC-TTCATTTTAAGTCTAT-ATTTTTACCAAATTTGAACCACATGCTC
1 TTATTTCTTCAATT-CTTCATTTATTTTAAGT-T-TCATTTTTACCAAATTTGAGCCACATGCTC
* * * *
125410 CT-AACAAAAGTAGAATACATGTTTATTTTCAATTCCT-TTTTT-ATAACAAATTCTTATTTTCC
63 CTAAACCATAGTAGAATACATGTGTAATTTCAATTCCTCTTTTTGATAAC-AA-T-TT-TTTT-C
125472 AATTTAGTTCTTCAATTTTTCATAATCTCC
123 AATTTAG-TCTTCAATTTTTCATAATCTCC
* * * *
125502 TTATTTCTTCAATTCTTTATTTATTTTAAGTTT-TTTTTTATCAAATTTGAGTCACATGCTCCTA
1 TTATTTCTTCAATTCTTCATTTATTTTAAGTTTCATTTTTACCAAATTTGAGCCACATGCTCCTA
* *
125566 AACCATAGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAACAATTTTTTTCAATTTAGT
66 AACCATAGTAGAATACATGTGTAATTTCAATTCCTCTTTTTGATAACAATTTTTTTCAATTTAGT
125631 CATTCAATTTTTCATAATCTCC
131 C-TTCAATTTTTCATAATCTCC
* * * * *
125653 TTATATCTTCAATTCGTCAGTTATTTTAAGTTTCTTCTTTTACCAATTTTGAGCCACATGCTCCT
1 TTATTTCTTCAATTCTTCATTTATTTTAAGTTTCAT-TTTTACCAAATTTGAGCCACATGCTCCT
* * **
125718 AAACCTTAGTATAATACATGTGTAATTTCAATTCCTCTTTTTGATAATTTTTTTATTTTTTT-AA
65 AAACCATAGTAGAATACATGTGTAATTTCAATTCCTCTTTTTGATAA-----CAATTTTTTTCAA
125782 -TTAGTCCTTCAATTTTTCATAATCTCC
125 TTTAGT-CTTCAATTTTTCATAATCTCC
* * *
125809 TTATTCCTTCAAATT-TATCATTTAGTTTAAGTTTGATTTTTACCAAATTT
1 TTATTTCTTC-AATTCT-TCATTTATTTTAAGTTTCATTTTTACCAAATTT
125859 ATACCTTCGA
Statistics
Matches: 310, Mismatches: 32, Indels: 29
0.84 0.09 0.08
Matches are distributed among these distances:
150 2 0.01
151 57 0.18
152 6 0.02
153 97 0.31
154 35 0.11
155 32 0.10
156 50 0.16
157 23 0.07
158 8 0.03
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.49
Consensus pattern (151 bp):
TTATTTCTTCAATTCTTCATTTATTTTAAGTTTCATTTTTACCAAATTTGAGCCACATGCTCCTA
AACCATAGTAGAATACATGTGTAATTTCAATTCCTCTTTTTGATAACAATTTTTTTCAATTTAGT
CTTCAATTTTTCATAATCTCC
Found at i:126184 original size:2 final size:2
Alignment explanation
Indices: 126171--126227 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
126161 GTATGAAAGA
*
126171 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
126213 AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT
126228 GGTTAGATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:143659 original size:20 final size:23
Alignment explanation
Indices: 143624--143664 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
143614 TATCTTTCTT
143624 CACTTGTTCAATCTTT-TTTTAA
1 CACTTGTTCAATCTTTATTTTAA
143646 CACTT-TTC-ATCTTTATTTT
1 CACTTGTTCAATCTTTATTTT
143665 GAAGATCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.59
Consensus pattern (23 bp):
CACTTGTTCAATCTTTATTTTAA
Found at i:154314 original size:25 final size:25
Alignment explanation
Indices: 154286--154360 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 25
154276 CTATAATAGC
*
154286 ATATGATATATTTTGTATTTTCATT
1 ATATGATTTATTTTGTATTTTCATT
*
154311 ATATGATTTA-TTT-TA-TATCATT
1 ATATGATTTATTTTGTATTTTCATT
* *
154333 GATATGTTTTATTTTGTATTTTTATT
1 -ATATGATTTATTTTGTATTTTCATT
154359 AT
1 AT
154361 GTCTCACTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
22 6 0.15
23 11 0.27
24 6 0.15
25 13 0.32
26 5 0.12
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.63
Consensus pattern (25 bp):
ATATGATTTATTTTGTATTTTCATT
Found at i:154361 original size:23 final size:23
Alignment explanation
Indices: 154294--154362 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 23
154284 GCATATGATA
*
154294 TATTTTGTATTTTCATTATATGATT
1 TATTTTGTATTTTCA-T-TATGTTT
* * *
154319 TATTTTATATCATTGA-TATGTTT
1 TATTTTGTAT-TTTCATTATGTTT
*
154342 TATTTTGTATTTTTATTATGT
1 TATTTTGTATTTTCATTATGT
154363 CTCACTAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
22 3 0.09
23 20 0.57
25 9 0.26
26 3 0.09
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.65
Consensus pattern (23 bp):
TATTTTGTATTTTCATTATGTTT
Found at i:160029 original size:19 final size:19
Alignment explanation
Indices: 159981--160045 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
159971 AAAACTATAT
* *
159981 TATATATACTTT-CAAAAC
1 TATATATATTTTAAAAAAC
*
159999 TATATGTATTTTAAAAAAC
1 TATATATATTTTAAAAAAC
* * *
160018 TATATATGTTTTCAAAATC
1 TATATATATTTTAAAAAAC
160037 -ATATATATT
1 TATATATATT
160046 CTTTTCAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 18 0.47
19 20 0.53
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (19 bp):
TATATATATTTTAAAAAAC
Found at i:160065 original size:22 final size:23
Alignment explanation
Indices: 160016--160077 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
160006 ATTTTAAAAA
* * *
160016 ACTATATATGTTTTCAAAATCAT
1 ACTATATATCTTTTCAAAAACAC
160039 A-TATAT-TCTTTTCAAAAACAC
1 ACTATATATCTTTTCAAAAACAC
*
160060 ACTATATAT-ATTTCAAAA
1 ACTATATATCTTTTCAAAA
160078 GTATATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 13 0.39
22 18 0.55
23 2 0.06
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.40
Consensus pattern (23 bp):
ACTATATATCTTTTCAAAAACAC
Found at i:161319 original size:42 final size:42
Alignment explanation
Indices: 161226--161378 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
161216 ACTATTCAGG
* * *
161226 TGACTCCCCTTC-GGGGAAAGCCAAGTGAAATACTATTTGGA
1 TGACTCCCCTTCACGGGAAAGCCAAGTGAAATATTCTTTGGA
* * * **
161267 TGACTTCCCTTCACGGGAAAGCCATGTGATATATTCTTCAGA
1 TGACTCCCCTTCACGGGAAAGCCAAGTGAAATATTCTTTGGA
* * * * *
161309 TAACTCCCCTTCACGGGAAAGCCAGGTGAGATGTCCTTTGGA
1 TGACTCCCCTTCACGGGAAAGCCAAGTGAAATATTCTTTGGA
*
161351 TGACTCCCC-TCATGGGAAAGCCAAGTGA
1 TGACTCCCCTTCACGGGAAAGCCAAGTGA
161379 GACAATCTTC
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 28 0.30
42 64 0.70
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (42 bp):
TGACTCCCCTTCACGGGAAAGCCAAGTGAAATATTCTTTGGA
Found at i:161575 original size:2 final size:2
Alignment explanation
Indices: 161568--161593 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
161558 GGAAAAATTT
161568 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
161594 ATGATGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:164797 original size:24 final size:20
Alignment explanation
Indices: 164770--164827 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
164760 GCATGGGTAG
164770 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
164794 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
164814 TGTATCGATGCACT
1 TGCATCGATGCACT
164828 TCAAGGGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:165550 original size:23 final size:24
Alignment explanation
Indices: 165519--165567 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
165509 CGGGACATAC
* *
165519 AGTGATCCTTC-GGGATATTTCAT
1 AGTGATCCTTCAGGAAAATTTCAT
*
165542 AGTGGTCCTTCAGGAAAATTTCAT
1 AGTGATCCTTCAGGAAAATTTCAT
165566 AG
1 AG
165568 CCCTTAGTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (24 bp):
AGTGATCCTTCAGGAAAATTTCAT
Found at i:165701 original size:2 final size:2
Alignment explanation
Indices: 165694--165753 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
165684 AATGTATGTG
165694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
165736 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
165754 GTGTGTGTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:174358 original size:18 final size:18
Alignment explanation
Indices: 174331--174365 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
174321 CCCTTTGAAG
*
174331 GGGAACCGATTCCCCCTA
1 GGGAACCGATACCCCCTA
*
174349 GGGAATCGATACCCCCT
1 GGGAACCGATACCCCCT
174366 GGGGTTCTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.37, G:0.23, T:0.17
Consensus pattern (18 bp):
GGGAACCGATACCCCCTA
Found at i:184958 original size:20 final size:21
Alignment explanation
Indices: 184914--184990 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 21
184904 TTTTCAAAAT
* *
184914 TTATATATAT--ATATATATA
1 TTATATATATCAAAATATACA
184933 TATATATATATCAAAAT-TACA
1 T-TATATATATCAAAATATACA
* *
184954 TTATATATTTCGAAATATACA
1 TTATATATATCAAAATATACA
184975 -TAT-T-T-TCAAAATATAC
1 TTATATATATCAAAATATAC
184991 TAAATATAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
17 10 0.20
18 1 0.02
19 2 0.04
20 25 0.51
21 8 0.16
22 3 0.06
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (21 bp):
TTATATATATCAAAATATACA
Found at i:184961 original size:2 final size:2
Alignment explanation
Indices: 184915--184943 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
184905 TTTCAAAATT
184915 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
184944 CAAAATTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:184972 original size:38 final size:40
Alignment explanation
Indices: 184930--185014 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 40
184920 ATATATATAT
* *
184930 ATATATATATATATCAAAAT-TAC-ATTAT-ATATTTCGAA
1 ATATACATAT-TATCAAAATATACAAATATAATATTTCGAA
* *
184968 ATATACATATTTTCAAAATATACTAAATATAATTTTTCGAA
1 ATATACATATTATCAAAATATAC-AAATATAATATTTCGAA
185009 ATATAC
1 ATATAC
185015 CACATGTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
37 8 0.21
38 12 0.31
40 4 0.10
41 15 0.38
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.41
Consensus pattern (40 bp):
ATATACATATTATCAAAATATACAAATATAATATTTCGAA
Found at i:184986 original size:17 final size:18
Alignment explanation
Indices: 184956--184990 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
184946 AAATTACATT
*
184956 ATATATTTCGAAATATAC
1 ATATATTTCAAAATATAC
184974 ATAT-TTTCAAAATATAC
1 ATATATTTCAAAATATAC
184991 TAAATATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (18 bp):
ATATATTTCAAAATATAC
Found at i:184996 original size:26 final size:24
Alignment explanation
Indices: 184966--185067 Score: 72
Period size: 24 Copynumber: 4.4 Consensus size: 24
184956 ATATATTTCG
184966 AAATATACATATTTTCAAAATATACT
1 AAATATA-AT-TTTTCAAAATATACT
* *
184992 AAATATAATTTTTCGAAATATACC
1 AAATATAATTTTTCAAAATATACT
* * * *
185016 ACATGTTATATTTCAAAA-A-A-T
1 AAATATAATTTTTCAAAATATACT
*
185037 -CATATACA-TTTTCAAAATATACT
1 AAATATA-ATTTTTCAAAATATACT
185060 -AATATAAT
1 AAATATAAT
185068 ATTATATGAA
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
20 12 0.20
21 2 0.03
22 3 0.05
23 7 0.12
24 26 0.44
25 2 0.03
26 7 0.12
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATAATTTTTCAAAATATACT
Found at i:185010 original size:24 final size:26
Alignment explanation
Indices: 184966--185014 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
184956 ATATATTTCG
184966 AAATATACATATTTTCAAAATATACT
1 AAATATACATATTTTCAAAATATACT
*
184992 AAATATA-AT-TTTTCGAAATATAC
1 AAATATACATATTTTCAAAATATAC
185015 CACATGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 2 0.09
26 7 0.32
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (26 bp):
AAATATACATATTTTCAAAATATACT
Found at i:185765 original size:131 final size:128
Alignment explanation
Indices: 185516--185766 Score: 274
Period size: 131 Copynumber: 1.9 Consensus size: 128
185506 ATTCATATTT
* ** * * *
185516 CTTTTGAATATTACAAATTAAAATATAATATTTAATTTGAATATTAGTAGGATAATTACTCTTTG
1 CTTTTGAATATTACAAATTAAAATATAATATTTAATTTGAATAATAAAAGAAGAATTACTCTTTA
* * * *
185581 AATATGTCAAATTAAAAGCTATTTATTATCTATATAACTTTGCATATTGAAGATAATTATATA
66 AATATGTCAAATTAAAAGATATTTATTATATATATAAATTTGCATATTAAAGATAATTATATA
* * *
185644 CTTTTGAATATTTCAGATTAAAATAATACATATTTAAGTTTGAATAATAAAAGAAGACTATA-TC
1 CTTTTGAATATTACAAATTAAAAT-ATA-ATATTTAA-TTTGAATAATAAAAGAAGAAT-TACTC
* * * *
185708 TTTTAAATAT-TCTAATTAAAAGATA-TTATTATATGTTTAAATTTGGATATTAAAAGATA
62 -TTTAAATATGTCAAATTAAAAGATATTTATTATATATATAAATTTGCATATT-AAAGATA
185767 TCTAGTTTGA
Statistics
Matches: 100, Mismatches: 17, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
128 22 0.22
129 3 0.03
130 29 0.29
131 36 0.36
132 10 0.10
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (128 bp):
CTTTTGAATATTACAAATTAAAATATAATATTTAATTTGAATAATAAAAGAAGAATTACTCTTTA
AATATGTCAAATTAAAAGATATTTATTATATATATAAATTTGCATATTAAAGATAATTATATA
Found at i:192967 original size:3 final size:3
Alignment explanation
Indices: 192959--193021 Score: 65
Period size: 3 Copynumber: 20.0 Consensus size: 3
192949 TTTTACTTAA
* *
192959 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT -TAT ATTT ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT AT-T
193006 ATAT ATT ATT ATT ATT
1 AT-T ATT ATT ATT ATT
193022 TAATAAATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
2 1 0.02
3 41 0.79
4 9 0.17
5 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:192991 original size:24 final size:24
Alignment explanation
Indices: 192959--193033 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 24
192949 TTTTACTTAA
192959 ATTATTATTATTATTATAAATATT
1 ATTATTATTATTATTATAAATATT
* *
192983 ATTATTATTATTTATATTTATATATAT
1 ATTATTATTA-TTAT-TATAAATAT-T
*
193010 ATTATTATTATT-TAATAAATATT
1 ATTATTATTATTATTATAAATATT
193033 A
1 A
193034 CAAACCCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
23 2 0.05
24 16 0.37
25 5 0.12
26 9 0.21
27 11 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTATTATTATTATTATAAATATT
Found at i:194378 original size:11 final size:11
Alignment explanation
Indices: 194363--194417 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
194353 ATTTTAATCA
194363 TTATTATT-TT
1 TTATTATTATT
194373 ATTATTATTATT
1 -TTATTATTATT
*
194385 TT-TTATTGTT
1 TTATTATTATT
*
194395 TTAATTAGTATT
1 TT-ATTATTATT
*
194407 TCATTATTATT
1 TTATTATTATT
194418 ATTTTAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
10 9 0.25
11 18 0.50
12 9 0.25
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (11 bp):
TTATTATTATT
Found at i:194389 original size:36 final size:36
Alignment explanation
Indices: 194349--194422 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
194339 TTTTATTTCC
* * *
194349 TTTTATT-TTAATCATTATTATTTTATTATTATTATT
1 TTTTATTGTT-ATAATTAGTATTTCATTATTATTATT
*
194385 TTTTATTGTTTTAATTAGTATTTCATTATTATTATT
1 TTTTATTGTTATAATTAGTATTTCATTATTATTATT
194421 TT
1 TT
194423 AAAAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 31 0.94
37 2 0.06
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTTATTGTTATAATTAGTATTTCATTATTATTATT
Found at i:195205 original size:20 final size:21
Alignment explanation
Indices: 195182--195232 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
195172 AGAAATTAAA
195182 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
*
195202 AATTC-TTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
195223 -ATT-ATTTATT
1 AATTCATTTATT
195233 ATTTTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.23
20 13 0.50
21 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:200134 original size:10 final size:10
Alignment explanation
Indices: 200098--200136 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
200088 ATATTTGGAA
200098 AAAAAAGAAAG
1 AAAAAA-AAAG
200109 AAAAAAAAAG
1 AAAAAAAAAG
*
200119 GAAAAAAAAG
1 AAAAAAAAAG
200129 AAAAAAAA
1 AAAAAAAA
200137 TTGAATCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:202144 original size:114 final size:113
Alignment explanation
Indices: 201944--202281 Score: 577
Period size: 114 Copynumber: 3.0 Consensus size: 113
201934 GTGCCATGTT
201944 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
*
202009 GTTTAGTGAGAACCTTAAAACCAATCATTGGATTTGAAAGATGAATTTA
66 GTTTGGT-AGAACCTTAAAACCAATCATTGGATTTGAAAGATGAATTTA
*
202058 CTCATAGTAGAAATAAAGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * *
202123 ATTTGGTATGAACCTCAAAACCAATCATTGGATTTGAAAGATGAATTTG
66 GTTTGGTA-GAACCTTAAAACCAATCATTGGATTTGAAAGATGAATTTA
202172 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * *
202237 GTTTGGTAAGCACCTTAAAACCAATCATTGGATTAGGAAGATGAA
66 GTTTGGT-AGAACCTTAAAACCAATCATTGGATTTGAAAGATGAA
202282 CTGCATGATC
Statistics
Matches: 211, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
113 1 0.00
114 209 0.99
115 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (113 bp):
CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
GTTTGGTAGAACCTTAAAACCAATCATTGGATTTGAAAGATGAATTTA
Found at i:204703 original size:21 final size:21
Alignment explanation
Indices: 204652--204727 Score: 107
Period size: 22 Copynumber: 3.5 Consensus size: 21
204642 ATCTACACTC
*
204652 TTCAAAGATGATAGATTCTTTC
1 TTCAAAGATGATAGATT-TTTT
204674 TTCAAAGATGATAGATTTTTT
1 TTCAAAGATGATAGATTTTTT
* *
204695 TTAAAAGATGACAGATTTTCTT
1 TTCAAAGATGATAGATTTT-TT
204717 TTCAAAGATGA
1 TTCAAAGATGA
204728 AAGCTTTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.41
22 29 0.59
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (21 bp):
TTCAAAGATGATAGATTTTTT
Found at i:205660 original size:75 final size:76
Alignment explanation
Indices: 205397--205991 Score: 1040
Period size: 76 Copynumber: 7.9 Consensus size: 76
205387 CTATTTCCCA
205397 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
205462 AAACCTTCGGGT
65 AAACCTTAGGGT
* *
205474 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
205539 AACCTTAGGGT
66 AACCTTAGGGT
205550 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
205614 AACCTTAGGGT
66 AACCTTAGGGT
*
205625 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
205690 AGCCTTAGGGT
66 AACCTTAGGGT
205701 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTC-GGAGCTTTTTGATGTTTT--A
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
205762 AACCTTAGGGT
66 AACCTTAGGGT
205773 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
205837 AACCTTAGGGT
66 AACCTTAGGGT
*
205848 CATCTGTAAGTCCTTCAGTGCTTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
205913 AACCTTTGGGT
66 AACCTTAGGGT
* * *
205924 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTTGGGAGCTTTTTGATGTTTCCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
205989 AAA
65 AAA
205992 AGCCTTCGGG
Statistics
Matches: 497, Mismatches: 15, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
72 43 0.09
73 10 0.02
74 36 0.07
75 156 0.31
76 158 0.32
77 94 0.19
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGT
Found at i:205832 original size:223 final size:226
Alignment explanation
Indices: 205397--205985 Score: 1067
Period size: 223 Copynumber: 2.6 Consensus size: 226
205387 CTATTTCCCA
205397 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
205462 AAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTT
65 AAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTT
205527 TGATGTTTTCAAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTT-AAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
205592 CGGGAGCTTTTTGATGTTTTAAAACCTTAGGGT
194 CGGGAGCTTTTTGATGTTTTAAAACCTTAGGGT
*
205625 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
205690 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCC-TTCGGAGCTTTTT
66 AACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
205753 GATGTTTT-AAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
131 GATGTTTTAAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
205817 GGAGCTTTTTGATGTTTTAAAACCTTAGGGT
196 GGAGCTTTTTGATGTTTTAAAACCTTAGGGT
*
205848 CATCTGTAAGTCCTTCAGTGCTTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
205913 AACCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTTGGGAGCTTTT
66 AACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTTGGGAGCTTTT
205978 TGATGTTT
130 TGATGTTT
205986 CCAAAAAGCC
Statistics
Matches: 347, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
223 190 0.55
225 27 0.08
226 26 0.07
227 42 0.12
228 62 0.18
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (226 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTT
GATGTTTTAAAACCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
GGAGCTTTTTGATGTTTTAAAACCTTAGGGT
Found at i:205995 original size:31 final size:31
Alignment explanation
Indices: 205946--206030 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
205936 CTTCAGTGCA
*
205946 TGATGTTTCCAAAAAAGCCTTTGGGAGCTTTT
1 TGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
205978 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
206009 TGATGTTTTC-AAAA-CCTTCGGG
1 TGATGTTTCCAAAAAGCCTTCGGG
206031 TCATCTGTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
29 8 0.16
30 4 0.08
31 29 0.57
32 10 0.20
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:206006 original size:108 final size:107
Alignment explanation
Indices: 205869--206106 Score: 417
Period size: 108 Copynumber: 2.2 Consensus size: 107
205859 CCTTCAGTGC
*
205869 TTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTTGGGTCATCTGTAAG
1 TTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAG
*
205934 CCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTTGGGAGCTTT
66 CCCTTCAGTGCATGATGTTT-CAAAAAAGCCTTCGGGAGCTTT
205977 TTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAG
1 TTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAG
*
206042 CCCTTCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTT
66 CCCTTCAGTGCATGATGTTTCAAAAAAGCCTTCGGGAGCTTT
*
206084 TTGATGTTTTC-AAAA-CCTTCGGG
1 TTGATGTTTCCAAAAAGCCTTCGGG
206107 TCATCTGTAA
Statistics
Matches: 126, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
105 8 0.06
106 4 0.03
107 30 0.24
108 84 0.67
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (107 bp):
TTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAG
CCCTTCAGTGCATGATGTTTCAAAAAAGCCTTCGGGAGCTTT
Found at i:206104 original size:76 final size:76
Alignment explanation
Indices: 205978--206321 Score: 570
Period size: 76 Copynumber: 4.6 Consensus size: 76
205968 GGGAGCTTTT
205978 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
206043 CCTTCAGTGCA
66 CCTTCAGTGCA
*
206054 TGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
206119 CCTTCAGTGCA
66 CCTTCAGTGCA
* * * *
206130 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGATCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
206195 CCTTCAGTGC-
66 CCTTCAGTGCA
* *
206205 --ATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTACAAAGCCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
*
206267 CCTGCAGTGCA
66 CCTTCAGTGCA
* *
206278 TGATGTTTCCAAAAAGCCTTTGGGATCTTTTTGATGTTTTCAAA
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
206322 CTCTCAGGGT
Statistics
Matches: 250, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
72 48 0.19
73 19 0.08
75 18 0.07
76 165 0.66
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
CCTTCAGTGCA
Found at i:206110 original size:184 final size:182
Alignment explanation
Indices: 205795--206173 Score: 677
Period size: 184 Copynumber: 2.1 Consensus size: 182
205785 CTTCAGTGCA
*
205795 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAAACCTTAGGGTCATCTGTAAGTC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAAACCTTAGGGTCATCTGTAAGCC
* *
205860 CTTCAGTGCTTGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTTGGGTC
66 CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTC
*
205925 ATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTTGGGAGCTTTT
131 ATCTGTAAGCCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTT
*
205978 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-AAAACCTTAGGGTCATCTGTAAGC
*
206043 CCTTCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
65 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
206108 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
130 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
206161 TGATGTTTTCAAA
1 TGATGTTTCCAAA
206174 GCCTTCAGAT
Statistics
Matches: 188, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
183 72 0.38
184 116 0.62
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (182 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTAAAACCTTAGGGTCATCTGTAAGCC
CTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTC
ATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:206309 original size:148 final size:150
Alignment explanation
Indices: 205978--206321 Score: 566
Period size: 148 Copynumber: 2.3 Consensus size: 150
205968 GGGAGCTTTT
* *
205978 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCAGATCATCTGTAAGC
* *
206043 CCTTCAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
66 CCTTCAGTGCA--ATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAAAACCTTCGGGT
*
206108 CATCTGTAAGCCCTTCAGTGCA
129 CATCTGTAAGCCCTGCAGTGCA
* *
206130 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCAGATCATCTGTAAGT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCAGATCATCTGTAAGC
*
206195 CCTTCAGTGC-ATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTACAAAGCCTTCGGGTCA
66 CCTTCAGTGCAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAAAACCTTCGGGTCA
206258 TCTGTAAGCCCTGCAGTGCA
131 TCTGTAAGCCCTGCAGTGCA
* *
206278 TGATGTTTCCAAAAAGCCTTTGGGATCTTTTTGATGTTTTCAAA
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
206322 CTCTCAGGGT
Statistics
Matches: 182, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
148 93 0.51
149 18 0.10
152 71 0.39
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (150 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCAGATCATCTGTAAGC
CCTTCAGTGCAATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAAAACCTTCGGGTCA
TCTGTAAGCCCTGCAGTGCA
Found at i:206500 original size:3 final size:3
Alignment explanation
Indices: 206492--206533 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
206482 TTTTACTTAA
* *
206492 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
206534 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:206572 original size:2 final size:2
Alignment explanation
Indices: 206534--206558 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
206524 TATTATTATT
206534 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 T
206559 TTTTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:207953 original size:17 final size:17
Alignment explanation
Indices: 207893--207954 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
207883 TATTTTAATC
207893 ATTATTTATTTTATTATT
1 ATTA-TTATTTTATTATT
* *
207911 ATTATTTTTTTATTGTT
1 ATTATTATTTTATTATT
*
207928 -TTAATTATTTCATTATT
1 ATT-ATTATTTTATTATT
207945 ATTATTATTT
1 ATTATTATTT
207955 ATATAATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.05
17 29 0.78
18 6 0.16
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
ATTATTATTTTATTATT
Found at i:208262 original size:16 final size:15
Alignment explanation
Indices: 208237--208271 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
208227 ATATTTTATT
208237 TATATTTTATATAAA
1 TATATTTTATATAAA
*
208252 TATATTTTTATATAAT
1 TATA-TTTTATATAAA
208268 TATA
1 TATA
208272 ACTTTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTTTATATAAA
Found at i:208270 original size:24 final size:24
Alignment explanation
Indices: 208225--208271 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
208215 TTTTAAATAA
* *
208225 AAATATTTTATTTATATTTTATAT
1 AAATATATTATTTATATATTATAT
208249 AAATATATT-TTTATATAATTATA
1 AAATATATTATTTATAT-ATTATA
208272 ACTTTGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AAATATATTATTTATATATTATAT
Found at i:209245 original size:6 final size:6
Alignment explanation
Indices: 209234--209273 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
209224 TACTACGATG
* *
209234 TTTGAA TTTGAA TTTGAA TTTAAA TTTGAA TTTGAG TTTG
1 TTTGAA TTTGAA TTTGAA TTTGAA TTTGAA TTTGAA TTTG
209274 GTTTTTCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (6 bp):
TTTGAA
Found at i:216002 original size:2 final size:2
Alignment explanation
Indices: 215995--216029 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
215985 ATTTAAAAAT
215995 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
216030 TGTGTCAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:216868 original size:17 final size:19
Alignment explanation
Indices: 216848--216891 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
216838 TAATAGTGAG
216848 TTATT-TAA-AATATATTT
1 TTATTATAATAATATATTT
*
216865 TTATTATAATTATATATTT
1 TTATTATAATAATATATTT
216884 TTATTATA
1 TTATTATA
216892 GTTTAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.21
18 3 0.12
19 16 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTATAATAATATATTT
Found at i:218374 original size:2 final size:2
Alignment explanation
Indices: 218367--218452 Score: 92
Period size: 2 Copynumber: 44.5 Consensus size: 2
218357 TTTGTCATTT
* *
218367 TA TA TA TA TG TG TA TA -A TA -A TA TA TA TA GTA TA TA GTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
*
218409 TA TA TA T- TA TA -A TA TA T- TA TA AA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
218448 TA TA T
1 TA TA T
218453 TGAAAACATA
Statistics
Matches: 73, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
1 5 0.07
2 64 0.88
3 4 0.05
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:218479 original size:10 final size:10
Alignment explanation
Indices: 218383--218496 Score: 87
Period size: 10 Copynumber: 11.1 Consensus size: 10
218373 TATGTGTATA
218383 ATAATATA-T
1 ATAATATATT
218392 ATAGTATATAGTAT
1 ATA--ATATA-T-T
218406 ATATATATATT
1 ATA-ATATATT
218417 ATAATATATT
1 ATAATATATT
218427 ATAA-ATA-T
1 ATAATATATT
218435 AT-ATATA-T
1 ATAATATATT
218443 ATATATATATT
1 ATA-ATATATT
* *
218454 GAAAACATATTT
1 -ATAATATA-TT
218466 ATAATATATT
1 ATAATATATT
218476 ATAATATATT
1 ATAATATATT
218486 ATTAAT-TATT
1 A-TAATATATT
218496 A
1 A
218497 ATTTTTATTT
Statistics
Matches: 89, Mismatches: 4, Indels: 23
0.77 0.03 0.20
Matches are distributed among these distances:
7 1 0.01
8 9 0.10
9 6 0.07
10 34 0.38
11 24 0.27
12 5 0.06
13 6 0.07
14 4 0.04
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (10 bp):
ATAATATATT
Found at i:219385 original size:36 final size:36
Alignment explanation
Indices: 219342--219412 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
219332 AAAATGCCAC
*
219342 CGGAAATCTCAAGGGCCATTCGAAAAGGTAAAACCG
1 CGGAAATCTCAAGGGACATTCGAAAAGGTAAAACCG
*
219378 CGGAAATCTCAAGGGATATTCGAAAAGGTAAAACC
1 CGGAAATCTCAAGGGACATTCGAAAAGGTAAAACC
219413 CGAAGGAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (36 bp):
CGGAAATCTCAAGGGACATTCGAAAAGGTAAAACCG
Found at i:220054 original size:18 final size:18
Alignment explanation
Indices: 220031--220072 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
220021 AACATGATAA
220031 TCGATTGGTACCGAAAGG
1 TCGATTGGTACCGAAAGG
*
220049 TCGATTGGTATCGAAAGG
1 TCGATTGGTACCGAAAGG
*
220067 GCGATT
1 TCGATT
220073 CAAGGGTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.26
Consensus pattern (18 bp):
TCGATTGGTACCGAAAGG
Found at i:227025 original size:19 final size:18
Alignment explanation
Indices: 227003--227039 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
226993 AAAAAATAAA
*
227003 ATTCTCTATTATAAATTTT
1 ATTCTCAATTA-AAATTTT
227022 ATTCTCAATTAAAATTTT
1 ATTCTCAATTAAAATTTT
227040 CAATCTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTCTCAATTAAAATTTT
Found at i:227757 original size:16 final size:16
Alignment explanation
Indices: 227738--227768 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
227728 TTCAGATTGC
*
227738 TTTCAGTTCGTGTTAA
1 TTTCAGTTCGAGTTAA
227754 TTTCAGTTCGAGTTA
1 TTTCAGTTCGAGTTA
227769 CTTTTGGATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (16 bp):
TTTCAGTTCGAGTTAA
Found at i:229629 original size:4 final size:4
Alignment explanation
Indices: 229622--229664 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
229612 AATTAATTAA
*
229622 TTAT TTAT TTAT TTAT TTAT TTTT CTTA- TT-T TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT TTAT TTAT
229665 ATGTTATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 4 0.12
4 28 0.82
5 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:229674 original size:23 final size:23
Alignment explanation
Indices: 229629--229676 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
229619 TAATTATTTA
* *
229629 TTTATTTATTTATTTTTCTTATT
1 TTTATTTATTTATTGTTCATATT
229652 TTTATTTATTTATATGTT-ATATT
1 TTTATTTATTTAT-TGTTCATATT
229675 TT
1 TT
229677 GTCGTTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTATTTATTTATTGTTCATATT
Found at i:229874 original size:7 final size:7
Alignment explanation
Indices: 229852--230020 Score: 53
Period size: 7 Copynumber: 22.7 Consensus size: 7
229842 TAGATACTCA
229852 TATTTTAT
1 TATTTT-T
229860 TATTTTT
1 TATTTTT
*
229867 TCTTTTT
1 TATTTTT
229874 TATTTTAT
1 TATTTT-T
229882 CTAATTTTT
1 -T-ATTTTT
*
229891 GTA-TTTG
1 -TATTTTT
*
229898 TA-TTTG
1 TATTTTT
229904 TA-TTTT
1 TATTTTT
*
229910 CATTTTT
1 TATTTTT
229917 TATTTTT
1 TATTTTT
*
229924 GT-TTGGTT
1 -TATT-TTT
*
229932 T-TTTAT
1 TATTTTT
*
229938 AATTTATT
1 TATTT-TT
229946 TATTTTATT
1 TA-TTT-TT
*
229955 TATTTCT
1 TATTTTT
*
229962 TGTTTATT
1 TATTT-TT
229970 TATTTATT
1 TATTT-TT
*
229978 T-TATTT
1 TATTTTT
229984 TATTTGTT
1 TATTT-TT
*
229992 TATTATCT
1 TATT-TTT
230000 TATTTATTT
1 TA-TT-TTT
230009 TATTTTT
1 TATTTTT
230016 TATTT
1 TATTT
230021 ATTTGTTTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 29
0.72 0.12 0.16
Matches are distributed among these distances:
6 16 0.13
7 50 0.40
8 36 0.29
9 19 0.15
10 5 0.04
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.75
Consensus pattern (7 bp):
TATTTTT
Found at i:229901 original size:24 final size:22
Alignment explanation
Indices: 229852--229907 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
229842 TAGATACTCA
* *
229852 TATTTTATTATTTTTTCTTTTT
1 TATTTTATTAATTTTTCTTTTG
*
229874 TATTTTATCTAATTTTTGTATTTG
1 TATTTTAT-TAATTTTTCT-TTTG
229898 TATTTGTATT
1 TATTT-TATT
229908 TTCATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 8 0.29
23 8 0.29
24 9 0.32
25 3 0.11
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (22 bp):
TATTTTATTAATTTTTCTTTTG
Found at i:229946 original size:4 final size:4
Alignment explanation
Indices: 229939--230024 Score: 79
Period size: 4 Copynumber: 21.0 Consensus size: 4
229929 GTTTTTTATA
* *
229939 ATTT ATTT ATTTT ATTT ATTT -CTT GTTT ATTT ATTT ATTTT ATTTT ATTT
1 ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT A-TTT ATTT
*
229989 GTTT A-TT ATCTT ATTT ATTTT ATTT -TTT ATTT ATTT
1 ATTT ATTT AT-TT ATTT A-TTT ATTT ATTT ATTT ATTT
230025 GTTTTATCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
3 8 0.11
4 41 0.59
5 21 0.30
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:229954 original size:5 final size:5
Alignment explanation
Indices: 229940--230024 Score: 58
Period size: 5 Copynumber: 17.4 Consensus size: 5
229930 TTTTTTATAA
229940 TTTA- TTTAT TTTA- TTTAT TTCT-T GTTTA- TTTA- TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TT-TAT -TTTAT TTTAT TTTAT TTTAT TTTAT
* *
229987 TTGT-T TATTAT CTTA- TTTAT TTTAT TTTTT ATTTAT TT
1 TT-TAT T-TTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TT
230025 GTTTTATCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
4 19 0.29
5 37 0.56
6 10 0.15
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:229954 original size:9 final size:9
Alignment explanation
Indices: 229940--230024 Score: 77
Period size: 9 Copynumber: 9.2 Consensus size: 9
229930 TTTTTTATAA
229940 TTTATTTAT
1 TTTATTTAT
229949 TTTATTTATT
1 TTTATTTA-T
*
229959 TCTTGTTTA-
1 T-TTATTTAT
229968 TTTATTTAT
1 TTTATTTAT
229977 TTTATTTTAT
1 TTTA-TTTAT
*
229987 TTGTTTATTAT
1 TT-TAT-TTAT
*
229998 CTTATTTAT
1 TTTATTTAT
230007 TTTA-TT-T
1 TTTATTTAT
230014 TTTATTTAT
1 TTTATTTAT
230023 TT
1 TT
230025 GTTTTATCTC
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
7 5 0.08
8 10 0.16
9 23 0.37
10 12 0.19
11 12 0.19
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTATTTAT
Found at i:230030 original size:25 final size:24
Alignment explanation
Indices: 229859--230031 Score: 113
Period size: 25 Copynumber: 7.0 Consensus size: 24
229849 TCATATTTTA
* *
229859 TTATTTTTTCTTT-TTTATTTTATC
1 TTATTTTTTATTTATTT-TTTTATT
* * * *
229883 TAATTTTTGTATTTGTATTTGTATT
1 TTATTTTT-TATTTATTTTTTTATT
229908 TTCATTTTTTATTT-TTGTTTGGTT-TT
1 TT-ATTTTTTATTTATT-TTT--TTATT
**
229934 TTATAATTTATTTATTTTATTTA-T
1 TTATTTTTTATTTATTTT-TTTATT
* *
229958 TTCTTGTTTATTTATTTATTTTATT
1 TTATTTTTTATTTATTT-TTTTATT
*
229983 TTATTTGTTTA-TTATCTTATTTATT
1 TTATTT-TTTATTTAT-TTTTTTATT
230008 TTATTTTTTATTTATTTGTTTTAT
1 TTATTTTTTATTTATTT-TTTTAT
230032 CTCTTTTTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
24 35 0.30
25 60 0.51
26 21 0.18
27 1 0.01
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (24 bp):
TTATTTTTTATTTATTTTTTTATT
Found at i:230039 original size:25 final size:24
Alignment explanation
Indices: 229940--230042 Score: 86
Period size: 25 Copynumber: 4.2 Consensus size: 24
229930 TTTTTTATAA
* *
229940 TTTATTTATTTTATTTATT-TCTTG
1 TTTATTTATTTT-TTTATTCTATTT
*
229964 TTTATTTATTTATTTTATTTTATTT
1 TTTATTTATTT-TTTTATTCTATTT
* *
229989 GTTTA-TTATCTTATTTATTTTATTT
1 -TTTATTTAT-TTTTTTATTCTATTT
230014 TTTATTTATTTGTTTTATCTCT-TTT
1 TTTATTTATTT-TTTTAT-TCTATTT
230039 TTTA
1 TTTA
230043 CTTCATGTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
24 23 0.34
25 36 0.54
26 8 0.12
ACGTcount: A:0.17, C:0.04, G:0.03, T:0.76
Consensus pattern (24 bp):
TTTATTTATTTTTTTATTCTATTT
Found at i:233884 original size:21 final size:21
Alignment explanation
Indices: 233858--233898 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
233848 GCAAAAAAGA
* *
233858 TGGAAGAGAAGATTAAGATGT
1 TGGAAGACAAGATGAAGATGT
233879 TGGAAGACAAGATGAAGATG
1 TGGAAGACAAGATGAAGATG
233899 GTCAAAGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.02, G:0.34, T:0.20
Consensus pattern (21 bp):
TGGAAGACAAGATGAAGATGT
Found at i:240438 original size:17 final size:17
Alignment explanation
Indices: 240410--240453 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
240400 CCTAAGTCAT
240410 AAAAGAAAAAGAA-AAAA
1 AAAAG-AAAAGAACAAAA
240427 GAAAAGAAAAGAACAAAA
1 -AAAAGAAAAGAACAAAA
*
240445 AAGAGAAAA
1 AAAAGAAAA
240454 ACGTTTAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAACAAAA
Found at i:241591 original size:124 final size:124
Alignment explanation
Indices: 241420--241920 Score: 720
Period size: 124 Copynumber: 4.0 Consensus size: 124
241410 CAATACTTGT
* * * *
241420 ATTTCAACTTTACGACGAAGTATATCCAATTTAAGGCTCAAATTCACAACGAAAGGGCCATCCAC
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCAC
* *
241485 GATTTCAACTTCACGACGAAGGATATCGTGCCCACCATCAACATTCATCTTTAGATTGG
66 GATTTCAACTTCACGACGAAGGATATCATGCCCACCAGCAACATTCATCTTTAGATTGG
* * * *
241544 ATTTTAACTTCACGATGAAGGATATCCAATTCAAGGTTCAACTTCACAATG-AAGTGGCCATCCA
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAG-GGCCATCCA
* * *
241608 CGATTTTAACTTCACGATGAAGGATATCATGCCCACCAGCAGCATTCATCTTTAGATTGG
65 CGATTTCAACTTCACGACGAAGGATATCATGCCCACCAGCAACATTCATCTTTAGATTGG
* * *
241668 ATTTC-ACTTCACGACGAAGGATATCCAATTCAAGGCTCAACATCACAACGAATGGGCCATCCAT
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCAC
* *
241732 GATTTCAACTTCACGACGAAGGATATCATGCCTACCAGCAACATTCATCTTTAGTTTGG
66 GATTTCAACTTCACGACGAAGGATATCATGCCCACCAGCAACATTCATCTTTAGATTGG
* * *
241791 ATTTCAACTTCACGACGAATGATATCCAATTCAAGGCTCAACTTCACAATGAATGGGCCATCCAC
1 ATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCAC
* * * * * *
241856 GATTTCAACTTCACGATGAAGGATATCGTGCCCACAAG-AAGTATCCATCTCTAGATTGG
66 GATTTCAACTTCACGACGAAGGATATCATGCCCACCAGCAA-CATTCATCTTTAGATTGG
241915 ATTTCA
1 ATTTCA
241921 CATCTCTAGA
Statistics
Matches: 336, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
123 114 0.34
124 222 0.66
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (124 bp):
ATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAAGGGCCATCCAC
GATTTCAACTTCACGACGAAGGATATCATGCCCACCAGCAACATTCATCTTTAGATTGG
Found at i:241750 original size:66 final size:65
Alignment explanation
Indices: 241667--241882 Score: 184
Period size: 66 Copynumber: 3.4 Consensus size: 65
241657 CTTTAGATTG
241667 GATTTC-ACTTCACGACGAAGGATATCCAATTCAAGGCTCAACATCACAACGAATGGGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC-TCACAACGAATGGGCCATCCA
241731 T
65 T
* * *** ** **
241732 GATTTCAACTTCACGACGAAGGATAT-C-A-T----GC-CTAC-CAGCAAC-ATTCATCTTTAGT
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTCA-CAACGAATGGGCCAT-CC
*
241787 TT
64 AT
* *
241789 GGATTTCAACTTCACGACGAATGATATCCAATTCAAGGCTCAACTTCACAATGAATGGGCCATCC
1 -GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAAC-TCACAACGAATGGGCCATCC
*
241854 AC
64 AT
*
241856 GATTTCAACTTCACGATGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
241883 GTGCCCACAA
Statistics
Matches: 111, Mismatches: 25, Indels: 29
0.67 0.15 0.18
Matches are distributed among these distances:
56 6 0.05
57 5 0.05
58 28 0.25
59 3 0.03
60 1 0.01
61 1 0.01
63 1 0.01
64 1 0.01
65 9 0.08
66 47 0.42
67 3 0.03
68 6 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.26
Consensus pattern (65 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTCACAACGAATGGGCCATCCAT
Found at i:241868 original size:247 final size:247
Alignment explanation
Indices: 241420--241921 Score: 783
Period size: 247 Copynumber: 2.0 Consensus size: 247
241410 CAATACTTGT
* * *
241420 ATTTCAACTTTACGACGAAGTATATCCAATTTAAGGCTCAAATTCACAACGAAAGGGCCATCCAC
1 ATTTC-ACTTCACGACGAAGGATATCCAATTCAAGGCTCAAATTCACAACGAAAGGGCCATCCAC
* * *
241485 GATTTCAACTTCACGACGAAGGATATCGTGCCCACCATCAACATTCATCTTTAGATTGGATTTTA
65 GATTTCAACTTCACGACGAAGGATATCATGCCCACCAGCAACATTCATCTTTAGATTGGATTTCA
* * *
241550 ACTTCACGATGAAGGATATCCAATTCAAGGTTCAACTTCACAATGAAGTGGCCATCCACGATTTT
130 ACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAATGAAGTGGCCATCCACGATTTC
* * * *
241615 AACTTCACGATGAAGGATATCATGCCCACCAGCAGCATTCATCTTTAGATTGG
195 AACTTCACGATGAAGGATATCATGCCCACAAGAAGCATCCATCTCTAGATTGG
* *
241668 ATTTCACTTCACGACGAAGGATATCCAATTCAAGGCTCAACA-TCACAACGAATGGGCCATCCAT
1 ATTTCACTTCACGACGAAGGATATCCAATTCAAGGCTCAA-ATTCACAACGAAAGGGCCATCCAC
* *
241732 GATTTCAACTTCACGACGAAGGATATCATGCCTACCAGCAACATTCATCTTTAGTTTGGATTTCA
65 GATTTCAACTTCACGACGAAGGATATCATGCCCACCAGCAACATTCATCTTTAGATTGGATTTCA
*
241797 ACTTCACGACGAATGATATCCAATTCAAGGCTCAACTTCACAATGAA-TGGGCCATCCACGATTT
130 ACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAATGAAGT-GGCCATCCACGATTT
* *
241861 CAACTTCACGATGAAGGATATCGTGCCCACAAGAAGTATCCATCTCTAGATTGG
194 CAACTTCACGATGAAGGATATCATGCCCACAAGAAGCATCCATCTCTAGATTGG
241915 ATTTCAC
1 ATTTCAC
241922 ATCTCTAGAT
Statistics
Matches: 232, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
246 1 0.00
247 225 0.97
248 6 0.03
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (247 bp):
ATTTCACTTCACGACGAAGGATATCCAATTCAAGGCTCAAATTCACAACGAAAGGGCCATCCACG
ATTTCAACTTCACGACGAAGGATATCATGCCCACCAGCAACATTCATCTTTAGATTGGATTTCAA
CTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAATGAAGTGGCCATCCACGATTTCA
ACTTCACGATGAAGGATATCATGCCCACAAGAAGCATCCATCTCTAGATTGG
Found at i:241926 original size:20 final size:20
Alignment explanation
Indices: 241901--241940 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
241891 AAGAAGTATC
241901 CATCTCTAGATTGGATTTCA
1 CATCTCTAGATTGGATTTCA
241921 CATCTCTAGATTGGATTTCA
1 CATCTCTAGATTGGATTTCA
241941 ACTTCACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
CATCTCTAGATTGGATTTCA
Found at i:243936 original size:9 final size:8
Alignment explanation
Indices: 243918--244062 Score: 55
Period size: 8 Copynumber: 17.0 Consensus size: 8
243908 GGTACTAATA
243918 TTTTATTT
1 TTTTATTT
243926 TTTTCA--T
1 TTTT-ATTT
243933 TTTTATTT
1 TTTTATTT
*
243941 TATCTAATTT
1 T-T-TTATTT
*
243951 TTGTATTTGT
1 TTTTA-TT-T
243961 ATTTTCATTT
1 -TTTT-ATTT
243971 TTTTATAATT
1 TTTTAT--TT
243981 TATTTATTT
1 T-TTTATTT
*
243990 TACTTATTT
1 T-TTTATTT
* *
243999 ATTT-CTT
1 TTTTATTT
*
244006 ATTTATTT
1 TTTTATTT
*
244014 GTTTATTT
1 TTTTATTT
244022 ATTTTATTT
1 -TTTTATTT
* *
244031 GTTTATTA
1 TTTTATTT
*
244039 TCTTATTT
1 TTTTATTT
244047 ATTTTA-TT
1 -TTTTATTT
244055 TTTTATTT
1 TTTTATTT
244063 ATTTGTTTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
6 1 0.01
7 16 0.15
8 35 0.34
9 30 0.29
10 11 0.11
11 10 0.10
12 1 0.01
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (8 bp):
TTTTATTT
Found at i:243987 original size:4 final size:4
Alignment explanation
Indices: 243978--244066 Score: 85
Period size: 4 Copynumber: 22.0 Consensus size: 4
243968 TTTTTTTATA
* * *
243978 ATTT ATTT ATTTT ACTT ATTT ATTT -CTT ATTT ATTT GTTT ATTT ATTTT
1 ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT
*
244027 ATTT GTTT A-TT ATCTT ATTT ATTTT ATTT -TTT ATTT ATTT
1 ATTT ATTT ATTT AT-TT ATTT A-TTT ATTT ATTT ATTT ATTT
244067 GTTTTATCTC
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
3 8 0.11
4 46 0.66
5 16 0.23
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:244073 original size:37 final size:36
Alignment explanation
Indices: 243979--244070 Score: 125
Period size: 36 Copynumber: 2.6 Consensus size: 36
243969 TTTTTTATAA
* *
243979 TTTATTTATTTTACTTATTTATTTCTTATTTATTTG
1 TTTATTTATTTTATTTGTTTATTTCTTATTTATTTG
244015 TTTATTTATTTTATTTGTTTATTATCTTATTTATTT-
1 TTTATTTATTTTATTTGTTTATT-TCTTATTTATTTG
*
244051 TATTTTTTA-TTTATTTGTTT
1 T-TTATTTATTTTATTTGTTT
244071 TATCTCTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
36 33 0.65
37 18 0.35
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (36 bp):
TTTATTTATTTTATTTGTTTATTTCTTATTTATTTG
Found at i:245251 original size:37 final size:38
Alignment explanation
Indices: 245201--245272 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
245191 TTTTGTTCAG
*
245201 GTCGGGTC-GGGTTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGA
245238 GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGT
1 GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGT
245273 TGGGTGGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 8 0.24
38 25 0.76
ACGTcount: A:0.14, C:0.10, G:0.36, T:0.40
Consensus pattern (38 bp):
GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTCGA
Found at i:245263 original size:38 final size:37
Alignment explanation
Indices: 245201--245289 Score: 126
Period size: 38 Copynumber: 2.4 Consensus size: 37
245191 TTTTGTTCAG
245201 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
1 GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
* * *
245238 GTCGGGTCAGGTTTTTTTAAGTGTGATATTCGGGTTGG
1 GTCGGGTC-GGGTTTTTTAAGTGTGATATTCGGGTCGA
245276 GT-GGGTTCGGGTTT
1 GTCGGG-TCGGGTTT
245290 AGGGTGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
37 16 0.35
38 30 0.65
ACGTcount: A:0.11, C:0.09, G:0.39, T:0.40
Consensus pattern (37 bp):
GTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGA
Found at i:245930 original size:18 final size:18
Alignment explanation
Indices: 245862--245930 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
245852 TATGAAATTG
*
245862 GATTCCAATTCTTTCACA
1 GATTCCAATTCCTTCACA
*
245880 GATT-TAATTCCTTCACA
1 GATTCCAATTCCTTCACA
**
245897 GATTCCAATTTATTCACA
1 GATTCCAATTCCTTCACA
* *
245915 TATTCTAATTCCTTCA
1 GATTCCAATTCCTTCA
245931 ATGATTTCAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
17 15 0.37
18 26 0.63
ACGTcount: A:0.29, C:0.25, G:0.04, T:0.42
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Done.