Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 101 of 127
Found at i:18981039 original size:30 final size:30
Alignment explanation
Indices: 18980978--18981047 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
18980968 AACTAGAACT
*
18980978 GAACCGCTGAACCCGATCTGAATCAGACCC
1 GAACCGCTGAACCCGAGCTGAATCAGACCC
*
18981008 GAACCGTTGAACCCGAGCT-AGATC-GACCCC
1 GAACCGCTGAACCCGAGCTGA-ATCAGA-CCC
*
18981038 GAACTGCTGA
1 GAACCGCTGA
18981048 GCTCAACTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 3 0.09
30 31 0.91
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (30 bp):
GAACCGCTGAACCCGAGCTGAATCAGACCC
Found at i:18987549 original size:35 final size:35
Alignment explanation
Indices: 18987510--18987628 Score: 118
Period size: 35 Copynumber: 3.5 Consensus size: 35
18987500 GTATTTTTTT
*
18987510 GAAAAGATATTTGCATTTCATGTGCATCATTTTAA
1 GAAAAGACATTTGCATTTCATGTGCATCATTTTAA
* * * *
18987545 GAAAAGACATTTGTATTTCATGTGTAACATTTTAG
1 GAAAAGACATTTGCATTTCATGTGCATCATTTTAA
* * * *
18987580 GAAAATATATTTGTATTTGCA--T-CCTCATTTTAA
1 GAAAAGACATTTGCATTT-CATGTGCATCATTTTAA
*
18987613 GAGAAGACATTTGCAT
1 GAAAAGACATTTGCAT
18987629 CATAATGGTG
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
33 19 0.28
34 1 0.01
35 46 0.68
36 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (35 bp):
GAAAAGACATTTGCATTTCATGTGCATCATTTTAA
Found at i:18988071 original size:42 final size:43
Alignment explanation
Indices: 18988010--18988136 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 43
18988000 TAAAAAAGCC
* * *
18988010 ATTTGCATTTTCTCGGTGGTGATATCTGAGTATTAAGA-TTTGA
1 ATTTGCATCTTCTCAGTGGTGATATCCGAGTATTAA-ATTTTGA
18988053 A-TTGCATCTTCTCAGTGGTGATATCCGAGT-TTAAATTTTGA
1 ATTTGCATCTTCTCAGTGGTGATATCCGAGTATTAAATTTTGA
18988094 ATTTGCATTTGCATTCTTTCAGTGGTGATATCCGAGTATTAAA
1 ATTTGCA--T-C-TTC--TCAGTGGTGATATCCGAGTATTAAA
18988137 GCTTCATTTG
Statistics
Matches: 72, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
40 1 0.01
41 10 0.14
42 31 0.43
43 1 0.01
44 1 0.01
45 1 0.01
46 3 0.04
48 19 0.26
49 5 0.07
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (43 bp):
ATTTGCATCTTCTCAGTGGTGATATCCGAGTATTAAATTTTGA
Found at i:18988146 original size:48 final size:47
Alignment explanation
Indices: 18988009--18988151 Score: 149
Period size: 48 Copynumber: 3.1 Consensus size: 47
18987999 TTAAAAAAGC
* *
18988009 CATTTGCATT-TTCTCGGTGGTGATATCTGAGTATT-AAG--ATTTG
1 CATTTGCATTCTTCTCAGTGGTGATATCCGAGTATTAAAGTTATTTG
* *
18988052 -AATTGCA-TCTTCTCAGTGGTGATATCCGAGT-TTAAATTTTGAATTTG
1 CATTTGCATTCTTCTCAGTGGTGATATCCGAGTATTAAA-GTT--ATTTG
18988099 CATTTGCATTCTT-TCAGTGGTGATATCCGAGTATTAAAGCTTCATTTG
1 CATTTGCATTCTTCTCAGTGGTGATATCCGAGTATTAAAG-TT-ATTTG
18988147 CATTT
1 CATTT
18988152 TCTTTGGTGG
Statistics
Matches: 82, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
41 3 0.04
42 28 0.34
47 5 0.06
48 35 0.43
49 11 0.13
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (47 bp):
CATTTGCATTCTTCTCAGTGGTGATATCCGAGTATTAAAGTTATTTG
Found at i:18988200 original size:32 final size:32
Alignment explanation
Indices: 18988140--18988234 Score: 109
Period size: 32 Copynumber: 2.9 Consensus size: 32
18988130 TATTAAAGCT
**
18988140 TCATTTGCATTTTCTTTGGTGGCAATATCCAAAA
1 TCATTTGCA-TTT-TTTGGTGGTGATATCCAAAA
*
18988174 TCATTTGCATTTTTTGGTGGTGATATCAAAAA
1 TCATTTGCATTTTTTGGTGGTGATATCCAAAA
* **
18988206 TCATTTACATCTTTTCAGTGGTGATATCC
1 TCATTTGCAT-TTTTTGGTGGTGATATCC
18988235 GAGTGCTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
32 26 0.49
33 18 0.34
34 9 0.17
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (32 bp):
TCATTTGCATTTTTTGGTGGTGATATCCAAAA
Found at i:18988348 original size:43 final size:41
Alignment explanation
Indices: 18988286--18988434 Score: 156
Period size: 41 Copynumber: 3.6 Consensus size: 41
18988276 CCGAAGTCAA
* * * ** **
18988286 TTGCATCTTCTCAATGGTGATATCTAAGTGTTAAAGCTTCAT
1 TTGCATTTTTTCAGTGGTGATATCCGAGTGTTAAA-AATCAT
*
18988328 TTGCATTTTTTTCAGTGGTGAGATCCGAGTGTTAAAAATCAT
1 TTGCA-TTTTTTCAGTGGTGATATCCGAGTGTTAAAAATCAT
* * * *
18988370 TTACATCTTCTCGGTGGTGATATCCGAGTGTTAAAAATCAT
1 TTGCATTTTTTCAGTGGTGATATCCGAGTGTTAAAAATCAT
*
18988411 TTGCA-TTTTTCAATGGTGATATCC
1 TTGCATTTTTTCAGTGGTGATATCC
18988435 AAAATCATTT
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 15 0.17
41 36 0.41
42 13 0.15
43 24 0.27
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (41 bp):
TTGCATTTTTTCAGTGGTGATATCCGAGTGTTAAAAATCAT
Found at i:18988354 original size:76 final size:75
Alignment explanation
Indices: 18988174--18988466 Score: 232
Period size: 76 Copynumber: 3.8 Consensus size: 75
18988164 ATATCCAAAA
* ** * * * *
18988174 TCATTTGCA-TTTTTTGGTGGTGATATCAAAAATCATTTACATCTTTTCAGTGGTGATATCCGAG
1 TCATTTGCATTTTTTTAGTGGTGATATCCGAAATCAATTACATCTTCTCAATGGTGATATCCAAG
18988238 TGCTAAAGCT
66 TGCTAAAGCT
* * * * *
18988248 TCATTTTCATTTTTTTAGATGGCGATATCCGAAGTCAATTGCATCTTCTCAATGGTGATATCTAA
1 TCATTTGCATTTTTTTAG-TGGTGATATCCGAAATCAATTACATCTTCTCAATGGTGATATCCAA
*
18988313 GTGTTAAAGCT
65 GTGCTAAAGCT
* * **
18988324 TCATTTGCATTTTTTTCAGTGGTGAGATCCGAGTGTTAAAAATCATTTACATCTTCTCGGTGGTG
1 TCATTTGCATTTTTTT-AGTGGTGATATCC----G----AAATCAATTACATCTTCTCAATGGTG
* * **
18988389 ATATCCGAGTGTTAAA-AA
57 ATATCCAAGTGCTAAAGCT
* * * * * *
18988407 TCATTTGCA-TTTTTCAATGGTGATATCCAAAATCATTTACATCTTCTCGATGATGATATC
1 TCATTTGCATTTTTTTAGTGGTGATATCCGAAATCAATTACATCTTCTCAATGGTGATATC
18988467 TGAGTGTTCA
Statistics
Matches: 177, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
73 29 0.16
74 8 0.05
75 7 0.04
76 70 0.40
77 2 0.01
80 1 0.01
81 11 0.06
82 5 0.03
83 9 0.05
84 35 0.20
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (75 bp):
TCATTTGCATTTTTTTAGTGGTGATATCCGAAATCAATTACATCTTCTCAATGGTGATATCCAAG
TGCTAAAGCT
Found at i:18988395 original size:41 final size:41
Alignment explanation
Indices: 18988289--18988485 Score: 153
Period size: 41 Copynumber: 5.0 Consensus size: 41
18988279 AAGTCAATTG
* ** ** *
18988289 CATCTTCTCAATGGTGATATCTAAGTGTTAAAGCTTCATTTG
1 CATCTTCTCGATGGTGATATCCGAGTGTTAAA-AATCATTTA
* * *
18988331 CATTTTTTTC-AGTGGTGAGATCCGAGTGTTAAAAATCATTTA
1 CA-TCTTCTCGA-TGGTGATATCCGAGTGTTAAAAATCATTTA
* *
18988373 CATCTTCTCGGTGGTGATATCCGAGTGTTAAAAATCATTTG
1 CATCTTCTCGATGGTGATATCCGAGTGTTAAAAATCATTTA
* *
18988414 CAT-TTTTCAATGGTGATATCC--------AAAATCATTTA
1 CATCTTCTCGATGGTGATATCCGAGTGTTAAAAATCATTTA
* * *
18988446 CATCTTCTCGATGATGATATCTGAGTGTTCAAAATCATTT
1 CATCTTCTCGATGGTGATATCCGAGTGTTAAAAATCATTT
18988486 GCATTTTTGG
Statistics
Matches: 122, Mismatches: 21, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
32 13 0.11
33 14 0.11
40 15 0.12
41 46 0.38
42 11 0.09
43 23 0.19
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (41 bp):
CATCTTCTCGATGGTGATATCCGAGTGTTAAAAATCATTTA
Found at i:18988545 original size:42 final size:42
Alignment explanation
Indices: 18988484--18988576 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 42
18988474 TCAAAATCAT
* * *
18988484 TTGCA-TTT-TTGGTAGTGATATCTAAGTGTCAAGGTTTGAA
1 TTGCATTTTCTTGGTAGTGATATCCAAGTGTCAAAGCTTGAA
* * *
18988524 TTGCATTTTCTTGGTGGTGATATCCGAGTGTTAAAGCTTGAA
1 TTGCATTTTCTTGGTAGTGATATCCAAGTGTCAAAGCTTGAA
18988566 TTGCATTTTCT
1 TTGCATTTTCT
18988577 CGATGGTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 5 0.11
41 3 0.07
42 37 0.82
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.44
Consensus pattern (42 bp):
TTGCATTTTCTTGGTAGTGATATCCAAGTGTCAAAGCTTGAA
Found at i:18988644 original size:66 final size:66
Alignment explanation
Indices: 18988538--18988679 Score: 223
Period size: 66 Copynumber: 2.2 Consensus size: 66
18988528 ATTTTCTTGG
* * * *
18988538 TGGTGATATCCGAGTGTTAAAGCTTGAATTGCATTTTCTCGATGGTTATATTTGTGTTT-CTTTC
1 TGGTGATATCCGAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTT-
18988602 GA
65 GA
18988604 TGGTGATATCCGAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTTG
1 TGGTGATATCCGAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTTG
*
18988669 G
66 A
18988670 TGGTGATATC
1 TGGTGATATC
18988680 TAAAGTCATT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 66 0.94
67 4 0.06
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.43
Consensus pattern (66 bp):
TGGTGATATCCGAGTATTAAAGCTTGAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTTG
A
Found at i:18989032 original size:49 final size:49
Alignment explanation
Indices: 18988914--18989428 Score: 417
Period size: 49 Copynumber: 10.4 Consensus size: 49
18988904 GATGGTTTAA
* * * * *
18988914 TTTAAACTTATTGAGCCTCTACTGAGATGAGCCTTTTTCAAGATGAAAATT
1 TTTAAAGTTGTTGAGCCTCTACTGAAAGGAG-CTTTTTCAAGAT-AGAATT
* * *
18988965 TTTAAAGTTGTGGAGCCTCTGCTGAAAAGAGCTTCTTTCAAGATAGAA-T
1 TTTAAAGTTGTTGAGCCTCTACTGAAAGGAGCTT-TTTCAAGATAGAATT
* * *
18989014 TTTAAAGTTATTGAGCCTCTACTGAGATGAGCCTTTTTCAAGATGAGAATT
1 TTTAAAGTTGTTGAGCCTCTACTGAAAGGAG-CTTTTTCAAGAT-AGAATT
* * * *
18989065 TTTAAAGTTGTGGAGCCTCTGCT-AAGAGGAGTTTTTTTCAAAATAGAA-T
1 TTTAAAGTTGTTGAGCCTCTACTGAA-AGGAG-CTTTTTCAAGATAGAATT
* * *
18989114 TTTAAAGTTGTTTAGCCTCTATTGAAAGGAACTTTTTCTAAGAT-GAGA-T
1 TTTAAAGTTGTTGAGCCTCTACTGAAAGGAGCTTTTTC-AAGATAGA-ATT
* * * *
18989163 TTTAAAGTTGTTGAGCCTCTGCTTAGA-GAACTTTTTCAAGATGAGAATT
1 TTTAAAGTTGTTGAGCCTCTACTGAAAGGAGCTTTTTCAAGAT-AGAATT
* * * *
18989212 TTTAAAGTTGTGGAGCCTCTGCT-AAGAGGAGTTTTTTTCAAAATAGAA-T
1 TTTAAAGTTGTTGAGCCTCTACTGAA-AGGAG-CTTTTTCAAGATAGAATT
* * *
18989261 TTTAAAGTTGTTTAGCCTCTATTGAAAGGAACTTTTTCTAAGAT-GAGA-T
1 TTTAAAGTTGTTGAGCCTCTACTGAAAGGAGCTTTTTC-AAGATAGA-ATT
* * *
18989310 TTTAAAGTTGTTGAGCCTCTACTTAGA-GAGCTTTTTCAAGATAAAATT
1 TTTAAAGTTGTTGAGCCTCTACTGAAAGGAGCTTTTTCAAGATAGAATT
* * * * * *
18989358 TTTAAAGCTGTTTAGCCTTTGCTGAGAGGAGCCTCTTTC-AGATTTTA-AATT
1 TTTAAAGTTGTTGAGCCTCTACTGAAAGGAG-CTTTTTCAAGA---TAGAATT
*
18989409 TTTAAAAGTTATTGAGCCTC
1 TTT-AAAGTTGTTGAGCCTC
18989429 AAGTAAGATG
Statistics
Matches: 379, Mismatches: 60, Indels: 49
0.78 0.12 0.10
Matches are distributed among these distances:
47 11 0.03
48 61 0.16
49 173 0.46
50 34 0.09
51 86 0.23
52 14 0.04
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (49 bp):
TTTAAAGTTGTTGAGCCTCTACTGAAAGGAGCTTTTTCAAGATAGAATT
Found at i:18989087 original size:100 final size:99
Alignment explanation
Indices: 18988914--18989446 Score: 489
Period size: 100 Copynumber: 5.4 Consensus size: 99
18988904 GATGGTTTAA
* * *
18988914 TTTAAACTTATTGAGCCTCTACTGAGATGAGCCTTTTTCAAGATGAAAATTTTTAAAGTTGTGGA
1 TTTAAAGTTATTGAGCCTCTACTGAGATGAGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
*
18988979 GCCTCTGCTGAAAAGAGCTTCTTTCAAGATAGAAT
66 GCCTCTGCTGAAAGGAGCTT-TTTCAAGATAGAAT
*
18989014 TTTAAAGTTATTGAGCCTCTACTGAGATGAGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTGGA
1 TTTAAAGTTATTGAGCCTCTACTGAGATGAGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
* *
18989079 GCCTCTGCT-AAGAGGAGTTTTTTTCAAAATAGAAT
66 GCCTCTGCTGAA-AGGAG-CTTTTTCAAGATAGAAT
* * * * * *
18989114 TTTAAAGTTGTTTAGCCTCTATTGAAAGGA-ACTTTTTCTAAGATGAG-A-TTTTAAAGTTGTTG
1 TTTAAAGTTATTGAGCCTCTACTGAGATGAGCCTTTTTC-AAGATGAGAATTTTTAAAGTTGTTG
* * *
18989176 AGCCTCTGCTTAGA-GAACTTTTTCAAGATGAGAATT
65 AGCCTCTGCTGAAAGGAGCTTTTTCAAGAT-AGAA-T
* * * * * ** * *
18989212 TTTAAAGTTGTGGAGCCTCTGCTAAGAGGAGTTTTTTTCAAAAT-AGAA-TTTTAAAGTTGTTTA
1 TTTAAAGTTATTGAGCCTCTACTGAGATGAGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
** *
18989275 GCCTCTATTGAAAGGAACTTTTTCTAAGAT-GAGAT
66 GCCTCTGCTGAAAGGAGCTTTTTC-AAGATAGA-AT
* * * * *
18989310 TTTAAAGTTGTTGAGCCTCTACTTAGA-GAG-CTTTTTCAAGAT-AAAATTTTTAAAGCTGTTTA
1 TTTAAAGTTATTGAGCCTCTACTGAGATGAGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
* * *
18989372 GCCTTTGCTGAGAGGAGCCTCTTTC-AGATTTTA-AATT
66 GCCTCTGCTGAAAGGAG-CTTTTTCAAGA---TAGAA-T
* * * *
18989409 TTTAAAAGTTATTGAGCCTCAAGTAAGATGAGCATTTT
1 TTT-AAAGTTATTGAGCCTCTACTGAGATGAGCCTTTT
18989447 AGATTTGATG
Statistics
Matches: 364, Mismatches: 48, Indels: 40
0.81 0.11 0.09
Matches are distributed among these distances:
96 26 0.07
97 37 0.10
98 111 0.30
99 34 0.09
100 147 0.40
101 5 0.01
102 4 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (99 bp):
TTTAAAGTTATTGAGCCTCTACTGAGATGAGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGA
GCCTCTGCTGAAAGGAGCTTTTTCAAGATAGAAT
Found at i:18989410 original size:147 final size:147
Alignment explanation
Indices: 18988964--18989388 Score: 640
Period size: 147 Copynumber: 2.9 Consensus size: 147
18988954 AGATGAAAAT
* ** * * *
18988964 TTTTAAAGTTGTGGAGCCTCTGCTGAAAAGAGCTTCTTTC-AAGAT-AGAATTTTAAAGTTATTG
1 TTTTAAAGTTGTTGAGCCTCTATTGAAAGGAACTT-TTTCTAAGATGAG-ATTTTAAAGTTGTTG
*
18989027 AGCCTCTACTGAGATGAGCCTTTTTCAAGATGAGAATTTTTAAAGTTGTGGAGCCTCTGCTAAGA
64 AGCCTCTACTTAGA-GAG-CTTTTTCAAGATGAGAATTTTTAAAGTTGTGGAGCCTCTGCTAAGA
18989092 GGAGTTTTTTTCAAAATAGAA
127 GGAGTTTTTTTCAAAATAGAA
*
18989113 TTTTAAAGTTGTTTAGCCTCTATTGAAAGGAACTTTTTCTAAGATGAGATTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTGAGCCTCTATTGAAAGGAACTTTTTCTAAGATGAGATTTTAAAGTTGTTGAG
* *
18989178 CCTCTGCTTAGAGAACTTTTTCAAGATGAGAATTTTTAAAGTTGTGGAGCCTCTGCTAAGAGGAG
66 CCTCTACTTAGAGAGCTTTTTCAAGATGAGAATTTTTAAAGTTGTGGAGCCTCTGCTAAGAGGAG
18989243 TTTTTTTCAAAATAGAA
131 TTTTTTTCAAAATAGAA
*
18989260 TTTTAAAGTTGTTTAGCCTCTATTGAAAGGAACTTTTTCTAAGATGAGATTTTAAAGTTGTTGAG
1 TTTTAAAGTTGTTGAGCCTCTATTGAAAGGAACTTTTTCTAAGATGAGATTTTAAAGTTGTTGAG
* * ** * *
18989325 CCTCTACTTAGAGAGCTTTTTCAAGAT-AAAATTTTTAAAGCTGTTTAGCCTTTGCTGAGAGGAG
66 CCTCTACTTAGAGAGCTTTTTCAAGATGAGAATTTTTAAAGTTGTGGAGCCTCTGCTAAGAGGAG
18989389 CCTCTTTCAG
Statistics
Matches: 256, Mismatches: 18, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
146 31 0.12
147 157 0.61
148 6 0.02
149 60 0.23
150 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.38
Consensus pattern (147 bp):
TTTTAAAGTTGTTGAGCCTCTATTGAAAGGAACTTTTTCTAAGATGAGATTTTAAAGTTGTTGAG
CCTCTACTTAGAGAGCTTTTTCAAGATGAGAATTTTTAAAGTTGTGGAGCCTCTGCTAAGAGGAG
TTTTTTTCAAAATAGAA
Found at i:18989706 original size:21 final size:23
Alignment explanation
Indices: 18989662--18989712 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
18989652 ATTTCTATTA
*
18989662 AATAATATATATTAAAAGATAAT
1 AATAATATATATTAAAAGACAAT
* *
18989685 AGTAATATA-ATT-AAATACAAT
1 AATAATATATATTAAAAGACAAT
18989706 AATAATA
1 AATAATA
18989713 CAAAAAATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 13 0.54
22 3 0.12
23 8 0.33
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (23 bp):
AATAATATATATTAAAAGACAAT
Found at i:18989825 original size:40 final size:41
Alignment explanation
Indices: 18989770--18989855 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 41
18989760 GCACCACTAC
* * ** *
18989770 CACCCTCTGTTCACCCCTGCATACACTGTCA-CCCCTTGTT
1 CACCCTATGTTCACCCCTACATACACTACCACCCCCATGTT
*
18989810 CACCCTATGTTCACCCCTATATACACTACCACCCCCATGTT
1 CACCCTATGTTCACCCCTACATACACTACCACCCCCATGTT
18989851 CACCC
1 CACCC
18989856 CTGCATACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 26 0.67
41 13 0.33
ACGTcount: A:0.20, C:0.47, G:0.07, T:0.27
Consensus pattern (41 bp):
CACCCTATGTTCACCCCTACATACACTACCACCCCCATGTT
Found at i:18989829 original size:12 final size:12
Alignment explanation
Indices: 18989798--18989829 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18989788 GCATACACTG
18989798 TCACCCCT-TGT
1 TCACCCCTATGT
18989809 TCA-CCCTATGT
1 TCACCCCTATGT
18989820 TCACCCCTAT
1 TCACCCCTAT
18989830 ATACACTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.21
11 9 0.47
12 6 0.32
ACGTcount: A:0.16, C:0.44, G:0.06, T:0.34
Consensus pattern (12 bp):
TCACCCCTATGT
Found at i:18990722 original size:17 final size:17
Alignment explanation
Indices: 18990699--18990745 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
18990689 TTCAGGTAAA
18990699 AAATTTTATTTTTTTTT
1 AAATTTTATTTTTTTTT
*
18990716 GAATTTT-TTATTTTTTT
1 AAATTTTATT-TTTTTTT
*
18990733 AAATATTATTTTT
1 AAATTTTATTTTT
18990746 GTTACTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
AAATTTTATTTTTTTTT
Found at i:18990744 original size:21 final size:21
Alignment explanation
Indices: 18990720--18990763 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
18990710 TTTTTTGAAT
**
18990720 TTTTTATTTTTTTAAATATTA
1 TTTTTATTACTTTAAATATTA
* *
18990741 TTTTTGTTACTTTAAATTTTA
1 TTTTTATTACTTTAAATATTA
18990762 TT
1 TT
18990764 ATTAATATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTATTACTTTAAATATTA
Found at i:18992835 original size:18 final size:19
Alignment explanation
Indices: 18992802--18992837 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18992792 TTTCTTAAAC
*
18992802 ATAAAACTAGAAAAATAAT
1 ATAAAAATAGAAAAATAAT
18992821 ATAAAAATA-AAAAATAA
1 ATAAAAATAGAAAAATAA
18992838 AATGAGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (19 bp):
ATAAAAATAGAAAAATAAT
Found at i:18992851 original size:34 final size:34
Alignment explanation
Indices: 18992812--18992876 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
18992802 ATAAAACTAG
*
18992812 AAAAATAATATAAAAAT-AAAAAATAAAATGAGTT
1 AAAAATAAAAT-AAAATCAAAAAATAAAATGAGTT
18992846 AAAAATAAAATAAAATCAAAAAATAAAATGA
1 AAAAATAAAATAAAATCAAAAAATAAAATGA
18992877 AAATGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 24 0.83
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.20
Consensus pattern (34 bp):
AAAAATAAAATAAAATCAAAAAATAAAATGAGTT
Found at i:18992885 original size:18 final size:18
Alignment explanation
Indices: 18992812--18992885 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 18
18992802 ATAAAACTAG
* *
18992812 AAAAATAATATAAAAATA
1 AAAAATAAAATGAAAATA
* *
18992830 AAAAATAAAATG--AGTT
1 AAAAATAAAATGAAAATA
18992846 AAAAATAAAAT-AAAATCA
1 AAAAATAAAATGAAAAT-A
18992864 AAAAATAAAATGAAAATGA
1 AAAAATAAAATGAAAAT-A
18992883 AAA
1 AAA
18992886 TGAAAAACAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
16 13 0.29
17 2 0.04
18 21 0.47
19 9 0.20
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.19
Consensus pattern (18 bp):
AAAAATAAAATGAAAATA
Found at i:18993735 original size:12 final size:12
Alignment explanation
Indices: 18993715--18993775 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
18993705 TATACAGATT
* *
18993715 GAAACAAAAAAG
1 GAAAGAAAAAAA
18993727 GAAAGAAAAAAA
1 GAAAGAAAAAAA
18993739 GAAAGGAAAGGAAAA
1 GAAA-GAAA--AAAA
18993754 GAAAAGAAAAAAA
1 G-AAAGAAAAAAA
*
18993767 -AAACAAAAA
1 GAAAGAAAAA
18993776 TATAAATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
11 8 0.19
12 14 0.33
13 8 0.19
15 9 0.21
16 3 0.07
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (12 bp):
GAAAGAAAAAAA
Found at i:18993745 original size:17 final size:17
Alignment explanation
Indices: 18993723--18993769 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
18993713 TTGAAACAAA
18993723 AAAGGAAAGAAAAAAAG
1 AAAGGAAAGAAAAAAAG
*
18993740 AAAGGAAAG--GAAAAG
1 AAAGGAAAGAAAAAAAG
*
18993755 AAAAGAAA-AAAAAAA
1 AAAGGAAAGAAAAAAA
18993770 CAAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 12 0.48
16 4 0.16
17 9 0.36
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAGGAAAGAAAAAAAG
Found at i:18993782 original size:6 final size:6
Alignment explanation
Indices: 18993773--18993801 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18993763 AAAAAAACAA
18993773 AAATAT AAATAT AAATAT AAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATA
18993802 ATATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:18993810 original size:3 final size:3
Alignment explanation
Indices: 18993798--18993861 Score: 71
Period size: 3 Copynumber: 22.3 Consensus size: 3
18993788 TATAAATATA
*
18993798 AAT AAT -AT AAT AAT AAT AAC AAT -AT AAT AAT AAT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
18993843 AAT AGT GAT ATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
18993862 GTATACCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:18993814 original size:11 final size:11
Alignment explanation
Indices: 18993798--18993846 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
18993788 TATAAATATA
18993798 AATAATATAAT
1 AATAATATAAT
*
18993809 AAT-A-ATAAC
1 AATAATATAAT
18993818 AAT-ATAATAAT
1 AATAAT-ATAAT
18993829 AATAATATAAT
1 AATAATATAAT
18993840 AATAATA
1 AATAATA
18993847 GTGATATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 8 0.24
10 1 0.03
11 22 0.67
12 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAATATAAT
Found at i:18993821 original size:17 final size:15
Alignment explanation
Indices: 18993783--18993846 Score: 71
Period size: 14 Copynumber: 4.2 Consensus size: 15
18993773 AAATATAAAT
18993783 ATAAATATAA-ATATA
1 ATAAATATAATA-ATA
18993798 A-ATAATATAATAATA
1 ATA-AATATAATAATA
18993813 ATAACAATATAATAATA
1 AT-A-AATATAATAATA
18993830 AT-AATATAATAATA
1 ATAAATATAATAATA
18993844 ATA
1 ATA
18993847 GTGATATTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
14 15 0.35
15 12 0.28
16 1 0.02
17 15 0.35
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAATATAATAATA
Found at i:18993859 original size:15 final size:14
Alignment explanation
Indices: 18993798--18993866 Score: 77
Period size: 14 Copynumber: 4.9 Consensus size: 14
18993788 TATAAATATA
18993798 AATAATA-TAATAAT
1 AATAATAGT-ATAAT
* *
18993812 AATAACAATATAAT
1 AATAATAGTATAAT
*
18993826 AATAATAATATAAT
1 AATAATAGTATAAT
*
18993840 AATAATAGTGATATT
1 AATAATAGT-ATAAT
18993855 AATAATAGTATA
1 AATAATAGTATA
18993867 CCATAATACT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
14 35 0.71
15 14 0.29
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (14 bp):
AATAATAGTATAAT
Found at i:18994648 original size:115 final size:115
Alignment explanation
Indices: 18994156--18994665 Score: 348
Period size: 115 Copynumber: 4.4 Consensus size: 115
18994146 TGACTAGGAT
** * * * * *
18994156 GAAACCATAAATCATAAAAAATGATCTGGATCGAGCCAAGATCAGGTGACCGAGATGAAACTATA
1 GAAACCACGAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTGACCGAGATGAAACCATA
* * *
18994221 AGTCAAAATAAAGTGACCAACA-CTGAGTCAAGGTAAAAAATAACC-GAGAC
66 AGTCAAAATAAAGTGACCAAGATC-AAGTCAAGGTCAAAAATAACCAGA-AC
* * * * * **
18994271 GAAACCACAAATCATAAGAAATAATCTAAACTGAGCCAAGATCAGGTGA-TTAGGATGAAACCAT
1 GAAACCACGAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTGACCGA-GATGAAACCAT
* * ** ** * * * * * *
18994335 AAGTCAAACTGAAGCAAATAAGACCAAGTTAAGGTCGAAAATGATCATG-AT
65 AAGTCAAAATAAAGTGACCAAGATCAAGTCAAGGTCAAAAATAACCA-GAAC
* ** * *** * * *
18994386 GAAATCACGAATCGCAAGAAATGATCTAAACCAAGCCAAGATC-AGATGATCGAGATGAAACGAC
1 GAAACCACGAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAG-TGACCGAGATGAAACCAT
* * * * * *
18994450 GAGTTAAAAAATGAAGTGATCAAAATCAAGT-AGAGGTCAAAAAATAAATTACCAGGAC
65 AAG-T-CAAAATAAAGTGACCAAGATCAAGTCA-AGGTC-AAAAAT--A--ACCAGAAC
* * * * **
18994508 GAAACCATGAATCATAAGAATTGATCTAGATTAAGCCAAGATCAAGTGACCGGGACAAAACCATA
1 GAAACCACGAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTGACCGAGATGAAACCATA
* * *
18994573 AGTCAAAATAAAGTGACCAAGATCGAGTCAAGGTCGAAAATAACCAGAAT
66 AGTCAAAATAAAGTGACCAAGATCAAGTCAAGGTCAAAAATAACCAGAAC
* * *
18994623 GAAACAACGAATCATAAAAAATGATCTAGATTGAGCCCAGATC
1 GAAACCACGAATCATAAGAAATGATCTAGATTGAGCCAAGATC
18994666 GAAAAAGTGA
Statistics
Matches: 300, Mismatches: 78, Indels: 34
0.73 0.19 0.08
Matches are distributed among these distances:
114 2 0.01
115 177 0.59
116 4 0.01
117 24 0.08
118 5 0.02
119 5 0.02
120 25 0.08
121 3 0.01
122 53 0.18
123 2 0.01
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (115 bp):
GAAACCACGAATCATAAGAAATGATCTAGATTGAGCCAAGATCAAGTGACCGAGATGAAACCATA
AGTCAAAATAAAGTGACCAAGATCAAGTCAAGGTCAAAAATAACCAGAAC
Found at i:19005161 original size:43 final size:43
Alignment explanation
Indices: 19005101--19005199 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
19005091 ATATTTATAC
* * * *
19005101 AATAAATAATTAATTAAGCATGTATAAGCTAGGAAAAGAACAA
1 AATAAATAATTAATTAAGCAGGTATAAACAAGGAAAAGAAAAA
*
19005144 AATAAATGAA-TAATTAAGCAGGTATAAACAATGAAAAGAAAAA
1 AATAAAT-AATTAATTAAGCAGGTATAAACAAGGAAAAGAAAAA
19005187 AATAAATAATTAA
1 AATAAATAATTAA
19005200 GCAAGTATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 2 0.04
43 45 0.92
44 2 0.04
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.22
Consensus pattern (43 bp):
AATAAATAATTAATTAAGCAGGTATAAACAAGGAAAAGAAAAA
Found at i:19005983 original size:19 final size:20
Alignment explanation
Indices: 19005940--19005981 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
19005930 TTTTGAAAAC
19005940 TTTATTTGAAAAGATTTTTT
1 TTTATTTGAAAAGATTTTTT
19005960 TTTATTTGAAAAGATTTTTT
1 TTTATTTGAAAAGATTTTTT
19005980 TT
1 TT
19005982 ATAGAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (20 bp):
TTTATTTGAAAAGATTTTTT
Found at i:19007020 original size:3 final size:3
Alignment explanation
Indices: 19007012--19007105 Score: 122
Period size: 3 Copynumber: 32.3 Consensus size: 3
19007002 TATAAATATA
*
19007012 AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT -AT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
19007058 AAC AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AGT GAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19007105 A
1 A
19007106 GTATACCATA
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
2 6 0.08
3 72 0.92
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:19007137 original size:12 final size:12
Alignment explanation
Indices: 19007041--19007143 Score: 56
Period size: 12 Copynumber: 8.6 Consensus size: 12
19007031 ATAATGATAA
19007041 TATAATATA-AT
1 TATAATATATAT
* * *
19007052 AATAATA-ACAA
1 TATAATATATAT
19007063 TATAATA-ATA-
1 TATAATATATAT
19007073 -ATAATA-ATAAT
1 TATAATATAT-AT
*
19007084 AATAATAGTGATAT
1 TATAATA-T-ATAT
*
19007098 TAATAATAGTATAC
1 T-ATAATA-TATAT
*
19007112 CATAATACTATAT
1 TATAATA-TATAT
19007125 TATAATATATAT
1 TATAATATATAT
19007137 TATAATA
1 TATAATA
19007144 ACAAAATACA
Statistics
Matches: 74, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
9 8 0.11
10 2 0.03
11 15 0.20
12 18 0.24
13 16 0.22
14 5 0.07
15 10 0.14
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (12 bp):
TATAATATATAT
Found at i:19008553 original size:96 final size:96
Alignment explanation
Indices: 19008365--19008555 Score: 269
Period size: 96 Copynumber: 2.0 Consensus size: 96
19008355 GTGTAATCCT
19008365 TTAATTTTGATGATATGATCTTCTTTATATTTAAATTTAATTTACTAAAACTTATTTATGACAAA
1 TTAATTTTGATGATATGATCTTCTTTATATTTAAATTTAATTTACTAAAACTTATTTATGACAAA
* ****
19008430 AAAAAATTTTTTTGTTAAATTAGTATTATTA
66 AAAAAATTATGAAATTAAATTAGTATTATTA
* *
19008461 TTAATTTTGATGATATGGTCTTCTTTATATTTAAATTTAATTTTA-TAAAATTTATTTATGAC-A
1 TTAATTTTGATGATATGATCTTCTTTATATTTAAATTTAA-TTTACTAAAACTTATTTATGACAA
* *
19008524 AAAAAAATTATGAAATTAGTATTATTATTATT
65 AAAAAAATTATGAAATTA-AATTAGTATTATT
19008556 TTCGTATCTT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
95 14 0.17
96 66 0.79
97 4 0.05
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (96 bp):
TTAATTTTGATGATATGATCTTCTTTATATTTAAATTTAATTTACTAAAACTTATTTATGACAAA
AAAAAATTATGAAATTAAATTAGTATTATTA
Found at i:19009082 original size:20 final size:21
Alignment explanation
Indices: 19009053--19009096 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
19009043 TTTTTTAGCA
*
19009053 TTTATTTTTATTGAAAAA-AAT
1 TTTATTTTTAGT-AAAAATAAT
19009074 TTTA-TTTTAGTAAAAATAAT
1 TTTATTTTTAGTAAAAATAAT
19009094 TTT
1 TTT
19009097 TAGATTATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 12 0.57
21 4 0.19
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTATTTTTAGTAAAAATAAT
Found at i:19011403 original size:2 final size:2
Alignment explanation
Indices: 19011396--19011427 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19011386 CATTATTTTA
19011396 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
19011428 CAGTAGGAGA
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):
AT
Found at i:19014435 original size:1 final size:1
Alignment explanation
Indices: 19014431--19014461 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
19014421 GTAAAAACTT
19014431 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19014462 CTCATTAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19021345 original size:31 final size:31
Alignment explanation
Indices: 19021292--19021353 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
19021282 AAAAAAATTT
* * *
19021292 ATTTATTAATGAGATAATATTA-TCTGATTCA
1 ATTTATTAATAAAATAACATTATTC-GATTCA
19021323 ATTTATTAATAAAATAACATTATTCGATTCA
1 ATTTATTAATAAAATAACATTATTCGATTCA
19021354 TTAATAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (31 bp):
ATTTATTAATAAAATAACATTATTCGATTCA
Found at i:19021920 original size:15 final size:15
Alignment explanation
Indices: 19021880--19021921 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
19021870 AGTCTCAATC
* *
19021880 CCATTTTCTTATTCT
1 CCATCTTCTTCTTCT
19021895 CCATCTTCTTCTTCT
1 CCATCTTCTTCTTCT
19021910 CCA-CTTCCTTCT
1 CCATCTT-CTTCT
19021922 CAATATTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 3 0.12
15 21 0.88
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.52
Consensus pattern (15 bp):
CCATCTTCTTCTTCT
Found at i:19022417 original size:1 final size:1
Alignment explanation
Indices: 19022376--19022402 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
19022366 CTTTATTCTC
19022376 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
19022403 GGGGAACTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19024341 original size:18 final size:18
Alignment explanation
Indices: 19024306--19024355 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
19024296 AATGTATTCA
** *
19024306 AATCAAATCCTTATATTT
1 AATCAAATTATTAAATTT
19024324 CAAT-AAATTATTAAATTT
1 -AATCAAATTATTAAATTT
19024342 AATCAAATTATTAA
1 AATCAAATTATTAA
19024356 TGTTAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 3 0.11
18 21 0.78
19 3 0.11
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (18 bp):
AATCAAATTATTAAATTT
Found at i:19024797 original size:9 final size:9
Alignment explanation
Indices: 19024785--19024833 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
19024775 AAAATGAGAA
19024785 TTTTAAAATT
1 TTTTAAAA-T
**
19024795 TTTTAGTAT
1 TTTTAAAAT
19024804 TTTTAAAAT
1 TTTTAAAAT
19024813 TTTTAAAATT
1 TTTTAAAA-T
19024823 TTTTAAAAT
1 TTTTAAAAT
19024832 TT
1 TT
19024834 AAAAAAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:19024816 original size:10 final size:10
Alignment explanation
Indices: 19024785--19024833 Score: 66
Period size: 10 Copynumber: 5.1 Consensus size: 10
19024775 AAAATGAGAA
19024785 TTTTAAAATT
1 TTTTAAAATT
**
19024795 TTTTAGTA-T
1 TTTTAAAATT
19024804 TTTTAAAA-T
1 TTTTAAAATT
19024813 TTTTAAAATT
1 TTTTAAAATT
19024823 TTTTAAAATT
1 TTTTAAAATT
19024833 T
1 T
19024834 AAAAAAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 16 0.47
10 18 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:19024825 original size:19 final size:19
Alignment explanation
Indices: 19024785--19024833 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
19024775 AAAATGAGAA
* *
19024785 TTTTAAAATTTTTTAGTAT
1 TTTTAAAATTTTTAAATAT
19024804 TTTTAAAATTTTTAAA-ATT
1 TTTTAAAATTTTTAAATA-T
19024823 TTTTAAAATTT
1 TTTTAAAATTT
19024834 AAAAAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTAAAATTTTTAAATAT
Found at i:19024929 original size:17 final size:18
Alignment explanation
Indices: 19024907--19024941 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19024897 TTTTTGAGAT
19024907 TTTTTGA-AAATTTAAAA
1 TTTTTGATAAATTTAAAA
19024924 TTTTTGATAAATTTAAAA
1 TTTTTGATAAATTTAAAA
19024942 AATTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
TTTTTGATAAATTTAAAA
Found at i:19024942 original size:19 final size:18
Alignment explanation
Indices: 19024907--19024951 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
19024897 TTTTTGAGAT
19024907 TTTTTGAAAATTT-AAAA
1 TTTTTGAAAATTTAAAAA
19024924 TTTTTGATAAATTTAAAAA
1 TTTTTGA-AAATTTAAAAA
*
19024943 ATTTT-AAAA
1 TTTTTGAAAA
19024952 AATTTTTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (18 bp):
TTTTTGAAAATTTAAAAA
Found at i:19024954 original size:19 final size:18
Alignment explanation
Indices: 19024913--19024956 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
19024903 AGATTTTTTG
* *
19024913 AAAATTTAAAATTTTTGA
1 AAAATTTAAAAATTTTAA
*
19024931 TAAATTTAAAAAATTTTAA
1 AAAATTT-AAAAATTTTAA
19024950 AAAATTT
1 AAAATTT
19024957 TTAGAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
AAAATTTAAAAATTTTAA
Found at i:19024968 original size:21 final size:21
Alignment explanation
Indices: 19024944--19024989 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19024934 ATTTAAAAAA
19024944 TTTTAAAAAAT-TTTTAGAATT
1 TTTTAAAAAATGTTTT-GAATT
* *
19024965 TTTTTATAAATGTTTTGAATT
1 TTTTAAAAAATGTTTTGAATT
19024986 TTTT
1 TTTT
19024990 GAAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTTAAAAAATGTTTTGAATT
Found at i:19024998 original size:29 final size:31
Alignment explanation
Indices: 19024965--19025031 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
19024955 TTTTAGAATT
** *
19024965 TTTTTATAAATGTTTTGAATTTT-TT-GAAA
1 TTTTTATAAAAATTTTGAATTTTGTTAAAAA
*
19024994 TTTTTAAAAAAATTTTGAATTTTGTTAAAAA
1 TTTTTATAAAAATTTTGAATTTTGTTAAAAA
19025025 TTTTTAT
1 TTTTTAT
19025032 TATTTTTGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 20 0.65
30 2 0.06
31 9 0.29
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (31 bp):
TTTTTATAAAAATTTTGAATTTTGTTAAAAA
Found at i:19025003 original size:50 final size:49
Alignment explanation
Indices: 19024944--19025048 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 49
19024934 ATTTAAAAAA
* * *
19024944 TTTTAAAAAATTTTTAGAATTTTTTTATAAATGTTTTGAAT-TTTTTGAAAT
1 TTTTAAAAAAATTTT-GAATTTTGTTAAAAAT-TTTT-AATATTTTTGAAAT
*
19024995 TTTTAAAAAAATTTTGAATTTTGTTAAAAATTTTTATTATTTTTGAGAAT
1 TTTTAAAAAAATTTTGAATTTTGTTAAAAATTTTTAATATTTTTGA-AAT
19025045 TTTT
1 TTTT
19025049 TAATTTTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
48 2 0.04
49 11 0.23
50 21 0.44
51 14 0.29
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (49 bp):
TTTTAAAAAAATTTTGAATTTTGTTAAAAATTTTTAATATTTTTGAAAT
Found at i:19025011 original size:20 final size:21
Alignment explanation
Indices: 19024986--19025024 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
19024976 GTTTTGAATT
19024986 TTTTGAAATTT-TTAAAAAAA
1 TTTTGAAATTTGTTAAAAAAA
*
19025006 TTTTGAATTTTGTTAAAAA
1 TTTTGAAATTTGTTAAAAA
19025025 TTTTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (21 bp):
TTTTGAAATTTGTTAAAAAAA
Found at i:19025029 original size:20 final size:20
Alignment explanation
Indices: 19024985--19025029 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
19024975 TGTTTTGAAT
19024985 TTTTTGAAATTTTTAAAAAA
1 TTTTTGAAATTTTTAAAAAA
* *
19025005 ATTTTG-AATTTTGTTAAAAA
1 TTTTTGAAATTTT-TAAAAAA
19025025 TTTTT
1 TTTTT
19025030 ATTATTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTTGAAATTTTTAAAAAA
Found at i:19025098 original size:20 final size:21
Alignment explanation
Indices: 19025068--19025116 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
19025058 AAAATTAAAA
*
19025068 AAATATTTTTTAGAGTTTGTAG
1 AAAT-TTTTTTAGAATTTGTAG
*
19025090 -AATTTTTTTAGAATTTTTAG
1 AAATTTTTTTAGAATTTGTAG
19025110 AAATTTT
1 AAATTTT
19025117 CTTTTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
AAATTTTTTTAGAATTTGTAG
Found at i:19026048 original size:28 final size:28
Alignment explanation
Indices: 19026016--19026072 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
19026006 TCCATGTCTC
*
19026016 TTCTTTTTTATTGATAATGAAATATAAT
1 TTCTTTTTCATTGATAATGAAATATAAT
*
19026044 TTCTTTTTCATTTATAATGAAATATAAT
1 TTCTTTTTCATTGATAATGAAATATAAT
19026072 T
1 T
19026073 ATAAGAGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (28 bp):
TTCTTTTTCATTGATAATGAAATATAAT
Found at i:19026681 original size:29 final size:30
Alignment explanation
Indices: 19026624--19026696 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
19026614 TTTTATATTT
* *
19026624 AAAATAAAAGTATACTTAAATATAAATAAA
1 AAAATAAAAATTTACTTAAATATAAATAAA
* *
19026654 AAAATAAAAATTTATTTAAATA-CAATAAA
1 AAAATAAAAATTTACTTAAATATAAATAAA
* *
19026683 AATATATAAATTTA
1 AAAATAAAAATTTA
19026697 ACTAATTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (30 bp):
AAAATAAAAATTTACTTAAATATAAATAAA
Found at i:19029073 original size:19 final size:19
Alignment explanation
Indices: 19029016--19029083 Score: 66
Period size: 18 Copynumber: 3.5 Consensus size: 19
19029006 GTCAGTATTA
*
19029016 AAAAAAATTTAAAAATAATTT
1 AAAAAAATTTGAAAAT--TTT
** *
19029037 TTAAAAATTTTAAAA-TTT
1 AAAAAAATTTGAAAATTTT
19029055 AAAAAAATTTGAAAGATTTT
1 AAAAAAATTTGAAA-ATTTT
19029075 AAAAAAATT
1 AAAAAAATT
19029084 ATAAAAATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 14 0.36
19 1 0.03
20 12 0.31
21 12 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
AAAAAAATTTGAAAATTTT
Found at i:19029080 original size:29 final size:29
Alignment explanation
Indices: 19029017--19029098 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
19029007 TCAGTATTAA
*
19029017 AAAAAATTTAAAAATAATTTTTAAAAATTTT
1 AAAAAATTTAAAAA-AA-TTTGAAAAATTTT
*
19029048 --AAAATTTAAAAAAATTTGAAAGATTTT
1 AAAAAATTTAAAAAAATTTGAAAAATTTT
* * *
19029075 AAAAAAATTATAAAAATTAGAAAA
1 AAAAAATTTAAAAAAATTTGAAAA
19029099 TTATGAAATC
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 11 0.26
28 2 0.05
29 30 0.70
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAAAATTTAAAAAAATTTGAAAAATTTT
Found at i:19029115 original size:17 final size:17
Alignment explanation
Indices: 19029077--19029125 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
19029067 AAGATTTTAA
19029077 AAAAATTAT-AAAAATT
1 AAAAATTATGAAAAATT
**
19029093 AGAAAATTATGAAATCTT
1 A-AAAATTATGAAAAATT
19029111 AAAAATT-TGAAAAAT
1 AAAAATTATGAAAAAT
19029126 CTCAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 7 0.26
17 14 0.52
18 6 0.22
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (17 bp):
AAAAATTATGAAAAATT
Found at i:19029144 original size:21 final size:21
Alignment explanation
Indices: 19029118--19029178 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
19029108 CTTAAAAATT
19029118 TGAAAAATCTCAAAATTTTAA
1 TGAAAAATCTCAAAATTTTAA
**
19029139 TGAAAAATC-CAAAAAAATTAA
1 TGAAAAATCTC-AAAATTTTAA
*
19029160 --AAAAATCTGAAAATTTTAA
1 TGAAAAATCTCAAAATTTTAA
19029179 AAAATAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
19 15 0.45
20 1 0.03
21 17 0.52
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (21 bp):
TGAAAAATCTCAAAATTTTAA
Found at i:19029190 original size:18 final size:19
Alignment explanation
Indices: 19029169--19029207 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
19029159 AAAAAATCTG
19029169 AAAATTT-TAAAAAATAAA
1 AAAATTTATAAAAAATAAA
*
19029187 AAAATTTAATAAAAATTAAA
1 AAAATTT-ATAAAAAATAAA
19029207 A
1 A
19029208 TTTCTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATTTATAAAAAATAAA
Found at i:19029200 original size:19 final size:18
Alignment explanation
Indices: 19029149--19029207 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
19029139 TGAAAAATCC
19029149 AAAAAAA-TTAAAAAAAT
1 AAAAAAATTTAAAAAAAT
*** *
19029166 CTGAAAATTTTAAAAAAT
1 AAAAAAATTTAAAAAAAT
19029184 AAAAAAATTTAATAAAAATT
1 AAAAAAATTTAA-AAAAA-T
19029204 AAAA
1 AAAA
19029208 TTTCTTAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 4 0.13
18 17 0.55
19 5 0.16
20 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAAAATTTAAAAAAAT
Found at i:19029279 original size:21 final size:22
Alignment explanation
Indices: 19029253--19029332 Score: 112
Period size: 22 Copynumber: 3.7 Consensus size: 22
19029243 ATTGCAAATA
19029253 AAAAAATT-TAAAAATTTTTTT
1 AAAAAATTCTAAAAATTTTTTT
* *
19029274 AAAAAATTCTAAAAAATTTTTA
1 AAAAAATTCTAAAAATTTTTTT
19029296 AAAAAATTCT-AAAATTTTTTT
1 AAAAAATTCTAAAAATTTTTTT
19029317 -AAAAATTCTGAAAAAT
1 AAAAAATTCT-AAAAAT
19029333 AAAAAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
20 9 0.17
21 17 0.33
22 26 0.50
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (22 bp):
AAAAAATTCTAAAAATTTTTTT
Found at i:19029310 original size:43 final size:42
Alignment explanation
Indices: 19029251--19029332 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 42
19029241 AAATTGCAAA
19029251 TAAAAAAATTTAAAAATTTTTTTAAAAAATTCTAAAAAATTTT
1 TAAAAAAATTTAAAAATTTTTTT-AAAAATTCTAAAAAATTTT
*
19029294 TAAAAAAATTCT-AAAATTTTTTTAAAAATTCTGAAAAAT
1 TAAAAAAATT-TAAAAATTTTTTTAAAAATTCTAAAAAAT
19029333 AAAAAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
42 15 0.41
43 21 0.57
44 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (42 bp):
TAAAAAAATTTAAAAATTTTTTTAAAAATTCTAAAAAATTTT
Found at i:19029331 original size:22 final size:21
Alignment explanation
Indices: 19029254--19029332 Score: 99
Period size: 20 Copynumber: 3.7 Consensus size: 21
19029244 TTGCAAATAA
19029254 AAAAATT-TAAAAATTTTTTT
1 AAAAATTCTAAAAATTTTTTT
**
19029274 AAAAAATTCTAAAAAATTTTTAA
1 -AAAAATTCT-AAAAATTTTTTT
19029297 AAAAATTCT-AAAATTTTTTT
1 AAAAATTCTAAAAATTTTTTT
19029317 AAAAATTCTGAAAAAT
1 AAAAATTCT-AAAAAT
19029333 AAAAAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
20 18 0.36
21 7 0.14
22 15 0.30
23 10 0.20
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (21 bp):
AAAAATTCTAAAAATTTTTTT
Found at i:19029342 original size:43 final size:43
Alignment explanation
Indices: 19029252--19029343 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
19029242 AATTGCAAAT
****
19029252 AAAAAAATTTAAAAATTTTTTTAAAAAATTCTAAAAAATTTTT
1 AAAAAAATTTAAAAATTTTTTTAAAAAATTCTAAAAAATAAAA
*
19029295 AAAAAAATTCT-AAAATTTTTTT-AAAAATTCTGAAAAATAAAA
1 AAAAAAATT-TAAAAATTTTTTTAAAAAATTCTAAAAAATAAAA
19029337 AAAAAAA
1 AAAAAAA
19029344 CAAAATATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 22 0.51
43 20 0.47
44 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (43 bp):
AAAAAAATTTAAAAATTTTTTTAAAAAATTCTAAAAAATAAAA
Found at i:19029675 original size:24 final size:25
Alignment explanation
Indices: 19029631--19029677 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
19029621 AAATTTAAGT
*
19029631 TTTCATTTTTTTATTTTTTTAAATA
1 TTTCATTTTTTTAATTTTTTAAATA
19029656 TTTCA-TTTTTTAATTTTTTAAA
1 TTTCATTTTTTTAATTTTTTAAA
19029678 AAATATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTCATTTTTTTAATTTTTTAAATA
Found at i:19029904 original size:26 final size:27
Alignment explanation
Indices: 19029845--19029904 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
19029835 ATAAAAATAA
*
19029845 AAAAATTTAATAAAAATAAAAATTTCTT
1 AAAAA-TTAATAAAAACAAAAATTTCTT
*
19029873 -AGAATTAA-AAAAACACAAAATTT-TT
1 AAAAATTAATAAAAACA-AAAATTTCTT
19029898 AAAAATT
1 AAAAATT
19029905 GCAAATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
25 8 0.30
26 16 0.59
27 3 0.11
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (27 bp):
AAAAATTAATAAAAACAAAAATTTCTT
Found at i:19029937 original size:20 final size:21
Alignment explanation
Indices: 19029910--19029957 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
19029900 AAATTGCAAA
19029910 TAAAAAAATT-TAAAAATTTTT
1 TAAAAAAATTCT-AAAATTTTT
*
19029931 TAAAAAAATTCTTAAATTTTT
1 TAAAAAAATTCTAAAATTTTT
19029952 TAAAAA
1 TAAAAA
19029958 TTCTGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAAAATTCTAAAATTTTT
Found at i:19029968 original size:21 final size:21
Alignment explanation
Indices: 19029912--19029968 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
19029902 ATTGCAAATA
19029912 AAAAAATT-TAAAAATTTTTT
1 AAAAAATTCTAAAAATTTTTT
*
19029932 AAAAAAATTCT-TAAATTTTTT
1 -AAAAAATTCTAAAAATTTTTT
19029953 -AAAAATTCTGAAAAAT
1 AAAAAATTCT-AAAAAT
19029969 AAAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 9 0.29
21 21 0.68
22 1 0.03
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAAATTCTAAAAATTTTTT
Found at i:19030018 original size:636 final size:638
Alignment explanation
Indices: 19029274--19030474 Score: 2207
Period size: 636 Copynumber: 1.9 Consensus size: 638
19029264 AAATTTTTTT
19029274 AAAAAATTCTAAAAAATTTTTAAAAAAATTCTAAAATTTTTTTAAAAATTCTGAAAAATAAAAAA
1 AAAAAATTCTAAAAAATTTTTAAAAAAATTCTAAAATTTTTTTAAAAATTCTGAAAAATAAAAAA
19029339 AAAAACAAAATATAAATATTTAAAAAATATAAAAAAAAACTTAAAAAATTTAAATAATATATGAA
66 AAAAACAAAATATAAATATTTAAAAAATATAAAAAAAAACTTAAAAAATTTAAATAATATATGAA
19029404 AATTCAAATTGTAAGATTCAAAACATATGAAAATTTTTTATAATTTTCAAAACAAAAAAATTACA
131 AATTCAAATTGTAAGATTCAAAACATATGAAAATTTTTTATAATTTTC-AAA-AAAAAAATTACA
19029469 ATTTTTAGGATTTTTTTCAAAAAGTTTTAGA-TTTTTTATTTTCAA-TTTTTTAGTTTTCGTGAT
194 ATTTTTAGGATTTTTTTCAAAAAGTTTTAGATTTTTTTATTTTCAATTTTTTTAGTTTTCGTGAT
19029532 ATTTTTTAATTTTAAGAAAATTTATTTTTATTAAAAATTTCATTTTTTA-TTTTTTTTGGATTTT
259 ATTTTTTAATTTTAAGAAAATTTATTTTTATTAAAAATTTCATTTTTTATTTTTTTTTGGATTTT
*
19029596 TTATTAAAATTTTGAAATTTTAGAAAAATTTAAGTTTTCATTTTTTTATTTTTTTAAATATTTCA
324 TTATTAAAATTTTGAAATTTTAGAAAAATTTAAGTTTTCATTTTTTTATATTTTTAAATATTTCA
*
19029661 TTTTTTAATTTTTTAAAAAATATTTTAGATTTTTTAAAATTTTTATTTTTTTTGAATTTTTGTGA
389 TTTTTTAATTTTTTAAAAAATATTTTAGATTTTTTAAAATTTTTATTCTTTTTGAATTTTT-TGA
*
19029726 TTTTTTTAGAATTTAAAAATTTTATTTTAATACTAAATTGACAATTGATAACGTGGTACTAACTA
453 TTTTTTTAGAATTTAAAAATTTTATTTTAATACTAAATTGACAATTGATAACGTGATACTAACTA
*
19029791 GATTTTTTAATATTTGTCAATATCTTAGTGTTCATGCTACGTTAATAAAAATAAAAAAATTTAAT
518 GATTTTTTAATATTTGTCAATATCTTAGTGTTCATACTACGTTAATAAAAATAAAAAAATTTAAT
19029856 AAAAATAAAAATTTCTTAGAATTAAAAAAACACAAAATTTTTAAAAATTGCAAATA
583 AAAAATAAAAATTTCTTAGAATTAAAAAAACACAAAATTTTTAAAAATTGCAAATA
* *
19029912 AAAAAATT-TAAAAATTTTTTAAAAAAATTCTTAAA-TTTTTTAAAAATTCTGAAAAATAAAAAA
1 AAAAAATTCTAAAAAATTTTTAAAAAAATTCTAAAATTTTTTTAAAAATTCTGAAAAATAAAAAA
*
19029975 AAAAAC-AAATCTAAATATTTAAAAAATATAAAAAAAAAACTTAAAAAATTTAAATAATATATGA
66 AAAAACAAAATATAAATATTTAAAAAATAT-AAAAAAAAACTTAAAAAATTTAAATAATATATGA
19030039 AAATTCAAATTGTAAGATTCAAAACATATGAAAATTTTTTATAATTTTCAAAAAAAAAATTACAA
130 AAATTCAAATTGTAAGATTCAAAACATATGAAAATTTTTTATAATTTTCAAAAAAAAAATTACAA
*
19030104 TTTTTAGGATTTTTTTCAAAAAGTTTTAGATTTTTTTATTTTCAATTTTTTTAGTTTTTGTGATA
195 TTTTTAGGATTTTTTTCAAAAAGTTTTAGATTTTTTTATTTTCAATTTTTTTAGTTTTCGTGATA
*
19030169 TTTTTTAATTTTAAGAAAATTTATTTTTATTAAAATTTTCATTTTTTATTTTTTTTTGGATTTTT
260 TTTTTTAATTTTAAGAAAATTTATTTTTATTAAAAATTTCATTTTTTATTTTTTTTTGGATTTTT
*
19030234 TATTAAAATTTTGAAATTTTAGAAAAATTTAAGTTTTTATTTTTTTATATTTTTAAATATTTCAT
325 TATTAAAATTTTGAAATTTTAGAAAAATTTAAGTTTTCATTTTTTTATATTTTTAAATATTTCAT
*
19030299 TTTTTAATTTTTTAAAAAATATTTTAGATTTTTTAAAATTTTTATTCTTTTTGAATTTTTTTATT
390 TTTTTAATTTTTTAAAAAATATTTTAGATTTTTTAAAATTTTTATTCTTTTTGAATTTTTTGATT
*
19030364 TTTTTTGAATTTAAAAATTTTATTTTAATACTAAATTGACAATTGATAACGTGATACTAACTAGA
455 TTTTTAGAATTTAAAAATTTTATTTTAATACTAAATTGACAATTGATAACGTGATACTAACTAGA
*
19030429 TTTTTTAATATTTGTCAATATGTTAGTGTTCATACTACGTTAATAA
520 TTTTTTAATATTTGTCAATATCTTAGTGTTCATACTACGTTAATAA
19030475 GTTAATTGAC
Statistics
Matches: 546, Mismatches: 13, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
634 43 0.08
635 39 0.07
636 293 0.54
637 163 0.30
638 8 0.01
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (638 bp):
AAAAAATTCTAAAAAATTTTTAAAAAAATTCTAAAATTTTTTTAAAAATTCTGAAAAATAAAAAA
AAAAACAAAATATAAATATTTAAAAAATATAAAAAAAAACTTAAAAAATTTAAATAATATATGAA
AATTCAAATTGTAAGATTCAAAACATATGAAAATTTTTTATAATTTTCAAAAAAAAAATTACAAT
TTTTAGGATTTTTTTCAAAAAGTTTTAGATTTTTTTATTTTCAATTTTTTTAGTTTTCGTGATAT
TTTTTAATTTTAAGAAAATTTATTTTTATTAAAAATTTCATTTTTTATTTTTTTTTGGATTTTTT
ATTAAAATTTTGAAATTTTAGAAAAATTTAAGTTTTCATTTTTTTATATTTTTAAATATTTCATT
TTTTAATTTTTTAAAAAATATTTTAGATTTTTTAAAATTTTTATTCTTTTTGAATTTTTTGATTT
TTTTAGAATTTAAAAATTTTATTTTAATACTAAATTGACAATTGATAACGTGATACTAACTAGAT
TTTTTAATATTTGTCAATATCTTAGTGTTCATACTACGTTAATAAAAATAAAAAAATTTAATAAA
AATAAAAATTTCTTAGAATTAAAAAAACACAAAATTTTTAAAAATTGCAAATA
Found at i:19030214 original size:19 final size:20
Alignment explanation
Indices: 19030192--19030246 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
19030182 AGAAAATTTA
19030192 TTTTTATTAAAATTTT-CAT
1 TTTTTATTAAAATTTTGCAT
*** *
19030211 TTTTTATT-TTTTTTTGGAT
1 TTTTTATTAAAATTTTGCAT
19030230 TTTTTATTAAAATTTTG
1 TTTTTATTAAAATTTTG
19030247 AAATTTTAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTTTATTAAAATTTTGCAT
Found at i:19030349 original size:19 final size:18
Alignment explanation
Indices: 19030299--19030369 Score: 52
Period size: 19 Copynumber: 3.8 Consensus size: 18
19030289 AATATTTCAT
**
19030299 TTTTTAATTTTTTAAAAAA
1 TTTTT-ATTTTTTTTAAAA
**
19030318 TATTTTAGATTTTTTAAAA
1 T-TTTTATTTTTTTTAAAA
* **
19030337 TTTTTATTCTTTTTGAATT
1 TTTTTATT-TTTTTTAAAA
19030356 TTTTTATTTTTTTT
1 TTTTTATTTTTTTT
19030370 GAATTTAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
18 10 0.25
19 26 0.65
20 4 0.10
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTATTTTTTTTAAAA
Found at i:19030370 original size:19 final size:19
Alignment explanation
Indices: 19030337--19030375 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
19030327 TTTTTTAAAA
19030337 TTTTTATTCTTTTTGAATT
1 TTTTTATTCTTTTTGAATT
*
19030356 TTTTTATTTTTTTTGAATT
1 TTTTTATTCTTTTTGAATT
19030375 T
1 T
19030376 AAAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (19 bp):
TTTTTATTCTTTTTGAATT
Found at i:19031460 original size:19 final size:19
Alignment explanation
Indices: 19031436--19031476 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
19031426 AGGGTTTCAC
19031436 TGGCTCTGACAATGATATG
1 TGGCTCTGACAATGATATG
19031455 TGGCTCTGACAATGATATG
1 TGGCTCTGACAATGATATG
19031474 TGG
1 TGG
19031477 TGAATAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (19 bp):
TGGCTCTGACAATGATATG
Found at i:19033756 original size:21 final size:21
Alignment explanation
Indices: 19033712--19033755 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
19033702 TAATATGCAT
* *
19033712 AAATATTAAGAATAATAATTA
1 AAATAATAAAAATAATAATTA
19033733 AAATAATAAAAATAAT-ATTA
1 AAATAATAAAAATAATAATTA
19033753 AAA
1 AAA
19033756 AATTTCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATAATAAAAATAATAATTA
Found at i:19034666 original size:28 final size:28
Alignment explanation
Indices: 19034613--19034667 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
19034603 GGGATGGTTG
* **
19034613 ATCAAAGGGGTGGGGGTAGGGTATGGTA
1 ATCAAAAGGGTGGGGGTAGGACATGGTA
19034641 ATCAAAAGGGTGGGGGTAGGACATGGT
1 ATCAAAAGGGTGGGGGTAGGACATGGT
19034668 GGCAGTGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.05, G:0.47, T:0.20
Consensus pattern (28 bp):
ATCAAAAGGGTGGGGGTAGGACATGGTA
Found at i:19034736 original size:8 final size:8
Alignment explanation
Indices: 19034721--19034797 Score: 61
Period size: 8 Copynumber: 9.6 Consensus size: 8
19034711 TTCTGTTTTG
19034721 TTTGT-TT
1 TTTGTATT
19034728 TTT-TATT
1 TTTGTATT
19034735 TTTGGTA-T
1 TTT-GTATT
19034743 TTTGTATT
1 TTTGTATT
*
19034751 TTGGTATT
1 TTTGTATT
*
19034759 TTTTTATAT
1 TTTGTAT-T
*
19034768 TTTATATT
1 TTTGTATT
*
19034776 TTTTTATCT
1 TTTGTAT-T
*
19034785 TTTGTCTT
1 TTTGTATT
19034793 TTTGT
1 TTTGT
19034798 TTAATTTTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
6 1 0.02
7 11 0.19
8 30 0.53
9 15 0.26
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (8 bp):
TTTGTATT
Found at i:19034787 original size:25 final size:24
Alignment explanation
Indices: 19034725--19034788 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
19034715 GTTTTGTTTG
* *
19034725 TTTTTTTATTTTTGGTATTTTGTA
1 TTTTTTTATTTTTGATATTTTATA
** *
19034749 TTTTGGTATTTTTTTATATTTTATA
1 TTTTTTTA-TTTTTGATATTTTATA
19034774 TTTTTTTATCTTTTG
1 TTTTTTTAT-TTTTG
19034789 TCTTTTTGTT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
24 7 0.23
25 23 0.77
ACGTcount: A:0.14, C:0.02, G:0.09, T:0.75
Consensus pattern (24 bp):
TTTTTTTATTTTTGATATTTTATA
Found at i:19034795 original size:17 final size:17
Alignment explanation
Indices: 19034755--19034787 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19034745 TGTATTTTGG
19034755 TATTTTTTTATATTTTA
1 TATTTTTTTATATTTTA
*
19034772 TATTTTTTTATCTTTT
1 TATTTTTTTATATTTT
19034788 GTCTTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTTATATTTTA
Found at i:19034973 original size:9 final size:9
Alignment explanation
Indices: 19034959--19034984 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
19034949 CCAAATGGAT
19034959 TTTTTTTTC
1 TTTTTTTTC
19034968 TTTTTTTTC
1 TTTTTTTTC
19034977 TTTTTTTT
1 TTTTTTTT
19034985 GAACATAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:19035152 original size:48 final size:49
Alignment explanation
Indices: 19035041--19035897 Score: 697
Period size: 49 Copynumber: 17.6 Consensus size: 49
19035031 CCTCTCACTT
* * * * *
19035041 GAGGCTCAACAATTTTTGAAAATTTAAAATC-TGAAAAAGACTCCTCTCAGTA
1 GAGGCTCAACAA-CTTTAAAAATTT--CATCTTGAAAAAG-CTCTTCTCAGCA
19035093 GAGGCTCAACAACTTTAAAAATTTCATC-TGAAAAAGCTCTTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCTTCTCAGCA
* * * ** * *
19035141 AAGGCTTAACAATTTTTGAAATCTT-ATCTTGAAAAAGCTCCTCTCAACA
1 GAGGCTCAACAACTTTAAAAAT-TTCATCTTGAAAAAGCTCTTCTCAGCA
* * * * *
19035190 GAGGCTCAACAATTTTAAAAATCTCATCTTGAAAAGGGCTCATCTTAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAA-AGCTCTTCTCAGCA
* * * *
19035240 GAGGCTCAATAACTTT-AAAATCTCAT-TTGGAAAAGCTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCTTCTCAGCA
* * ** * *
19035287 GAGGCTTAACAATTTTTGAAATCTT-ATCTTGAAAAAGCTTTTCTCAACA
1 GAGGCTCAACAACTTTAAAAAT-TTCATCTTGAAAAAGCTCTTCTCAGCA
* *
19035336 GAGGCTCAATAACTTTAAAAA-TTC-TCTTGAAAAAGCT-TCTATCAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCT-TCTCAGCA
* * * * *
19035383 GAGGTTCAACAACTTT-AAAA-TCCATCTTGAAAAAGTTCCTCTCAGTA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCTTCTCAGCA
* * * *
19035430 GAGGCTCAACAATTTTAAAAATCTT-ATCTTGAAAAAGCTCCTATCAGTA
1 GAGGCTCAACAACTTTAAAAAT-TTCATCTTGAAAAAGCTCTTCTCAGCA
* ** *
19035479 GAGGCTCAACAACTTT-AAAATTT-ATCTTGAAAAAGTTAATCTTAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCTTCTCAGCA
* * *
19035526 GATGCTCAACAACTTT-AAAATTT-A-CTTCGAAAAAGTTTCTT-TCAACA
1 GAGGCTCAACAACTTTAAAAATTTCATCTT-GAAAAAG-CTCTTCTCAGCA
* ** * * ** ** *
19035573 AAAACTCAATAACTTTAAAAATTTTCATCTTGAAAAGGCTCACCTTTGTA
1 GAGGCTCAACAACTTTAAAAA-TTTCATCTTGAAAAAGCTCTTCTCAGCA
*
19035623 GAGGCTCAACAACTTTAAAAATTCTCATCTTGAAAAGGGCT-TCTCTCAGCA
1 GAGGCTCAACAACTTTAAAAATT-TCATCTTGAAAA-AGCTCT-TCTCAGCA
19035674 GAGGCTCAACAACTTT-AAAATTTCAT-TTGAAAAAAGCT-TATCTCAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTG-AAAAAGCTCT-TCTCAGCA
* * * *
19035722 AAGCCTCAACAACTTT-AAAATTTCATC-CGCAAAAAGCT-TCTCTTAGCA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTG-AAAAAGCTCT-TCTCAGCA
* * * * *
19035770 GAGGCTCGATAACTTTAAAAATCTCATC-TGAAAAAG-TTTCTCTCAGTA
1 GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCT-TCTCAGCA
* * * *
19035818 GAGGCTCGACAACTTTAAAAAAATTTCATCTTGGAAAAGCTCCTCTCAACA
1 GAGGCTCAACAACTTT--AAAAATTTCATCTTGAAAAAGCTCTTCTCAGCA
*
19035869 GAGGCTCAACAACTTTAAAAATCTCATCT
1 GAGGCTCAACAACTTTAAAAATTTCATCT
19035898 AAAAAAATGC
Statistics
Matches: 660, Mismatches: 113, Indels: 67
0.79 0.13 0.08
Matches are distributed among these distances:
46 10 0.02
47 158 0.24
48 156 0.24
49 178 0.27
50 80 0.12
51 65 0.10
52 13 0.02
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.30
Consensus pattern (49 bp):
GAGGCTCAACAACTTTAAAAATTTCATCTTGAAAAAGCTCTTCTCAGCA
Found at i:19035385 original size:96 final size:95
Alignment explanation
Indices: 19035072--19035897 Score: 611
Period size: 96 Copynumber: 8.5 Consensus size: 95
19035062 ATTTAAAATC
* *
19035072 TGAAAAAGACTCCTCTCAGTAGAGGCTCAACAACTTTAAAAAT-TTCATC-TGAAAAAGCTCT-T
1 TGAAAAAG-CTCCTCTCAGCAGAGGCTCAACAA-TTTTAAAATCTT-ATCTTGAAAAAGCT-TAT
* * * ** *
19035134 CTCAGCAAAGGCTTAACAATTTTTGAAATCTTATCT
62 CTCAGCAGAGGCTCAACAA-CTTT-AAAAATTCTCT
* * * *
19035170 TGAAAAAGCTCCTCTCAACAGAGGCTCAACAATTTTAAAAATCTCATCTTGAAAAGGGCTCATCT
1 TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTT-AAAATCTTATCTTGAAAA-AGCTTATCT
* *
19035235 TAGCAGAGGCTCAATAACTTT-AAAA-TCTCATT
64 CAGCAGAGGCTCAACAACTTTAAAAATTCTC--T
* * * *
19035267 TGGAAAAGCTCCTCTCAGCAGAGGCTTAACAATTTTTGAAATCTTATCTTGAAAAAGCTTTTCTC
1 TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-TTTTAAAATCTTATCTTGAAAAAGCTTATCTC
* *
19035332 AACAGAGGCTCAATAACTTTAAAAATTCTCT
65 AGCAGAGGCTCAACAACTTTAAAAATTCTCT
* * * * * *
19035363 TGAAAAAGCTTCTATCAGCAGAGGTTCAACAACTTTAAAATC-CATCTTGAAAAAG-TTCCTCTC
1 TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATCTTATCTTGAAAAAGCTT-ATCTC
* * *
19035426 AGTAGAGGCTCAACAATTTTAAAAATCTTATCT
65 AGCAGAGGCTCAACAACTTTAAAAA--TTCTCT
* * * *
19035459 TGAAAAAGCTCCTATCAGTAGAGGCTCAACAACTTTAAAAT-TTATCTTGAAAAAG-TTAATCTT
1 TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATCTTATCTTGAAAAAGCTT-ATCTC
*
19035522 AGCAGATGCTCAACAACTTT-AAAATT-TACT
65 AGCAGAGGCTCAACAACTTTAAAAATTCT-CT
* * * * * ** * * * * * *
19035552 TCGAAAAAGTTTCTTTCAACAAAAACTCAATAACTTTAAAAATTTTCATCTTGAAAAGGCTCACC
1 T-GAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-TTTTAAAATCTT-ATCTTGAAAAAGCTTATC
** *
19035617 TTTGTAGAGGCTCAACAACTTTAAAAATTCTCATCT
63 TCAGCAGAGGCTCAACAACTTTAAAAA-T-TC-TCT
* * *
19035653 TGAAAAGGGCTTCTCTCAGCAGAGGCTCAACAACTTTAAAAT-TTCAT-TTGAAAAAAGCTTATC
1 TGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATCTT-ATCTTG-AAAAAGCTTATC
* * *
19035716 TCAGCAAAGCCTCAACAACTTTAAAATTTCATC-
63 TCAGCAGAGGCTCAACAACTTTAAAAATTC-TCT
* * * * * * * * *
19035749 CGCAAAAAGCTTCTCTTAGCAGAGGCTCGATAACTTTAAAAATCTCATC-TGAAAAAGTTTCTCT
1 TG-AAAAAGCTCCTCTCAGCAGAGGCTCAACAA-TTTTAAAATCTTATCTTGAAAAAGCTTATCT
* *
19035813 CAGTAGAGGCTCGACAACTTTAAAAAAATTTCATCT
64 CAGCAGAGGCTCAACAACTTT--AAAAA-TTC-TCT
* * * *
19035849 TGGAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAAATCTCATCT
1 TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAA-TTTTAAAATCTTATCT
19035898 AAAAAAATGC
Statistics
Matches: 586, Mismatches: 106, Indels: 70
0.77 0.14 0.09
Matches are distributed among these distances:
92 1 0.00
93 7 0.01
94 59 0.10
95 22 0.04
96 188 0.32
97 132 0.23
98 40 0.07
99 101 0.17
100 14 0.02
101 21 0.04
102 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (95 bp):
TGAAAAAGCTCCTCTCAGCAGAGGCTCAACAATTTTAAAATCTTATCTTGAAAAAGCTTATCTCA
GCAGAGGCTCAACAACTTTAAAAATTCTCT
Found at i:19048186 original size:11 final size:11
Alignment explanation
Indices: 19048167--19048199 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
19048157 AATTTTCTTC
*
19048167 TTTTCTTATTT
1 TTTTATTATTT
19048178 TTTTATTA-TT
1 TTTTATTATTT
19048188 TTTTATTATTT
1 TTTTATTATTT
19048199 T
1 T
19048200 ATAAGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTATTATTT
Found at i:19048336 original size:12 final size:12
Alignment explanation
Indices: 19048321--19048364 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
19048311 AACATACATA
19048321 AATATTAAAAAT
1 AATATTAAAAAT
19048333 AATAATT-AAAAT
1 AAT-ATTAAAAAT
19048345 -A-A-TAAAAAT
1 AATATTAAAAAT
19048354 AATATTAAAAA
1 AATATTAAAAA
19048365 ATTCTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
8 1 0.04
9 6 0.22
10 1 0.04
11 2 0.07
12 14 0.52
13 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATATTAAAAAT
Found at i:19048345 original size:21 final size:21
Alignment explanation
Indices: 19048320--19048380 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
19048310 TAACATACAT
19048320 AAATATTAAAAATAATAATTA
1 AAATATTAAAAATAATAATTA
*
19048341 AAATAATAAAAATAAT-ATTA
1 AAATATTAAAAATAATAATTA
* *
19048361 AAAAATTCTAAAATAA-AATT
1 AAATATT-AAAAATAATAATT
19048381 TATTTACCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATATTAAAAATAATAATTA
Found at i:19049357 original size:7 final size:7
Alignment explanation
Indices: 19049335--19049387 Score: 52
Period size: 7 Copynumber: 7.1 Consensus size: 7
19049325 TTTTCTGTTC
19049335 TGTTTGTT
1 TGTTT-TT
*
19049343 TTTTTTT
1 TGTTTTT
19049350 TGTTTTTT
1 TG-TTTTT
19049358 TGTTTTT
1 TGTTTTT
* *
19049365 GGTATTT
1 TGTTTTT
19049372 TGTATTTT
1 TGT-TTTT
19049380 TGTTTTT
1 TGTTTTT
19049387 T
1 T
19049388 TTATATTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
7 20 0.54
8 17 0.46
ACGTcount: A:0.04, C:0.00, G:0.15, T:0.81
Consensus pattern (7 bp):
TGTTTTT
Found at i:19049357 original size:8 final size:8
Alignment explanation
Indices: 19049335--19049388 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
19049325 TTTTCTGTTC
*
19049335 TGTTTGTT
1 TGTTTTTT
19049343 T-TTTTTT
1 TGTTTTTT
19049350 TGTTTTTT
1 TGTTTTTT
19049358 TG--TTTT
1 TGTTTTTT
* *
19049364 TGGTATTT
1 TGTTTTTT
*
19049372 TGTATTTT
1 TGTTTTTT
19049380 TGTTTTTT
1 TGTTTTTT
19049388 T
1 T
19049389 TATATTTTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 6 0.16
7 6 0.16
8 25 0.68
ACGTcount: A:0.04, C:0.00, G:0.15, T:0.81
Consensus pattern (8 bp):
TGTTTTTT
Found at i:19049372 original size:24 final size:24
Alignment explanation
Indices: 19049353--19049445 Score: 77
Period size: 24 Copynumber: 3.9 Consensus size: 24
19049343 TTTTTTTTGT
*
19049353 TTTTTTG-TTTTTGGTATTTTGTA
1 TTTTTTGTTTTTTTGTATTTTGTA
*
19049376 -TTTTTGTTTTTTTTATATTTTGTA
1 TTTTTTG-TTTTTTTGTATTTTGTA
* * *
19049400 TTTTTTTGGTATTTTGTATTTT-CA
1 -TTTTTTGTTTTTTTGTATTTTGTA
19049424 TTTTTT-TTATATTTTGTATTTT
1 TTTTTTGTT-T-TTTTGTATTTT
19049446 TTTGTATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
22 7 0.12
23 6 0.11
24 26 0.46
25 11 0.20
26 6 0.11
ACGTcount: A:0.12, C:0.01, G:0.11, T:0.76
Consensus pattern (24 bp):
TTTTTTGTTTTTTTGTATTTTGTA
Found at i:19049406 original size:42 final size:42
Alignment explanation
Indices: 19049337--19049486 Score: 189
Period size: 42 Copynumber: 3.6 Consensus size: 42
19049327 TTCTGTTCTG
* * * *
19049337 TTTGTTTTTTTTTTGTTTT-TTTGTTTTTGGTATTTTGTATT
1 TTTGTTTTTTTTATATTTTGTATTTTTTTGGTATTTTGTATT
19049378 TTTGTTTTTTTTATATTTTGTATTTTTTTGGTATTTTGTATT
1 TTTGTTTTTTTTATATTTTGTATTTTTTTGGTATTTTGTATT
** *
19049420 TTCATTTTTTTTATATTTTGTATTTTTTT-GTATTTTATATT
1 TTTGTTTTTTTTATATTTTGTATTTTTTTGGTATTTTGTATT
*
19049461 TTTGTTTAATTTTTAT-TATTGTATTT
1 TTTGTTT--TTTTTATATTTTGTATTT
19049487 AATAATATTA
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
41 33 0.34
42 56 0.58
43 7 0.07
ACGTcount: A:0.13, C:0.01, G:0.10, T:0.77
Consensus pattern (42 bp):
TTTGTTTTTTTTATATTTTGTATTTTTTTGGTATTTTGTATT
Found at i:19049411 original size:11 final size:10
Alignment explanation
Indices: 19049393--19049455 Score: 58
Period size: 10 Copynumber: 6.1 Consensus size: 10
19049383 TTTTTTTATA
19049393 TTTTGTATTT
1 TTTTGTATTT
19049403 TTTTGGTATTT
1 TTTT-GTATTT
*
19049414 TGTATTTTCATTT
1 T-T-TTGT-ATTT
*
19049427 TTTT-TA-TA
1 TTTTGTATTT
19049435 TTTTGTATTT
1 TTTTGTATTT
19049445 TTTTGTATTT
1 TTTTGTATTT
19049455 T
1 T
19049456 ATATTTTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 5 0.11
9 3 0.07
10 17 0.39
11 9 0.20
12 3 0.07
13 7 0.16
ACGTcount: A:0.13, C:0.02, G:0.10, T:0.76
Consensus pattern (10 bp):
TTTTGTATTT
Found at i:19049431 original size:17 final size:17
Alignment explanation
Indices: 19049411--19049463 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 17
19049401 TTTTTTGGTA
19049411 TTTTGTATTTTCAT-TTT
1 TTTTGTATTTT-ATATTT
* *
19049428 TTTTATATTTTGTATTT
1 TTTTGTATTTTATATTT
19049445 TTTTGTATTTTATATTT
1 TTTTGTATTTTATATTT
19049462 TT
1 TT
19049464 GTTTAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 1 0.03
17 30 0.97
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTGTATTTTATATTT
Found at i:19049455 original size:24 final size:23
Alignment explanation
Indices: 19049367--19049479 Score: 87
Period size: 24 Copynumber: 5.0 Consensus size: 23
19049357 TTGTTTTTGG
*
19049367 TATTTTGTATTTTTGTTTTTTTTA
1 TATTTTGTA-TTTTATTTTTTTTA
**
19049391 TATTTTG-----TATTTTTTTGG
1 TATTTTGTATTTTATTTTTTTTA
19049409 TATTTTGTATTTTCATTTTTTTTA
1 TATTTTGTATTTT-ATTTTTTTTA
19049433 TATTTTGTATTTT-TTTGTATTTTA
1 TATTTTGTATTTTATTT-T-TTTTA
* * *
19049457 TATTTT-TGTTTAATTTTTATTA
1 TATTTTGTATTTTATTTTTTTTA
19049479 T
1 T
19049480 TGTATTTAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
18 15 0.21
22 8 0.11
23 7 0.10
24 42 0.58
ACGTcount: A:0.16, C:0.01, G:0.08, T:0.75
Consensus pattern (23 bp):
TATTTTGTATTTTATTTTTTTTA
Found at i:19049477 original size:17 final size:17
Alignment explanation
Indices: 19049423--19049477 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
19049413 TTGTATTTTC
*
19049423 ATTTTTTTTATATTTTGT
1 ATTTTTTTTA-ATTTTAT
19049441 ATTTTTTTGT-ATTTTAT
1 ATTTTTTT-TAATTTTAT
19049458 ATTTTTGTTTAATTTT-T
1 ATTTTT-TTTAATTTTAT
19049475 ATT
1 ATT
19049478 ATTGTATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 17 0.52
18 15 0.45
19 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (17 bp):
ATTTTTTTTAATTTTAT
Found at i:19050788 original size:122 final size:119
Alignment explanation
Indices: 19050662--19050887 Score: 321
Period size: 122 Copynumber: 1.9 Consensus size: 119
19050652 ATTTTCAACT
** * *
19050662 CTTTTAGAATATTTTAGAAATTTTTTTTGTGT-AGATATTTTTAACAAAATCACCGCTTGTGATT
1 CTTTTAGAATATTTTAGAAAAATTTTTTGTGTGA-ATATTTTTAACAAAATCACCACCTGTGATT
*
19050726 TCATTTTTTATTAATAATTTTTTTTTATGTTT-GAAAATTTTCTAACATATTTCTAATA
65 TCA-TTTTTATTAAT-A--TTTTTTTATGTTTAAAAAATTTTCTAACATATTTCTAATA
* *
19050784 CTTTTAGAATATTTTAGAAAAATTTTTTGTGTGAATATTTTTAATAAAATCACCACCTGTGGTTT
1 CTTTTAGAATATTTTAGAAAAATTTTTTGTGTGAATATTTTTAACAAAATCACCACCTGTGATTT
*
19050849 TATTTTTATTAATATTTTTTTATGTTTAAAAAATTTTCT
66 CATTTTTATTAATATTTTTTTATGTTTAAAAAATTTTCT
19050888 TGTGTAAATA
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
118 13 0.14
119 10 0.11
120 1 0.01
121 11 0.12
122 58 0.62
123 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (119 bp):
CTTTTAGAATATTTTAGAAAAATTTTTTGTGTGAATATTTTTAACAAAATCACCACCTGTGATTT
CATTTTTATTAATATTTTTTTATGTTTAAAAAATTTTCTAACATATTTCTAATA
Found at i:19050963 original size:14 final size:13
Alignment explanation
Indices: 19050946--19051027 Score: 65
Period size: 14 Copynumber: 5.8 Consensus size: 13
19050936 TTATCATATT
19050946 TTATTTATTTTTCA
1 TTATTTATTTTT-A
19050960 TTATTTATTTTTA
1 TTATTTATTTTTA
* *
19050973 TTCATTCATTATTA
1 TT-ATTTATTTTTA
* *
19050987 TAAATTTTATATTTA
1 T-TA-TTTATTTTTA
19051002 TTATTTAGTTTTTTA
1 TTATTTA--TTTTTA
19051017 TTATTATATTT
1 TTATT-TATTT
19051028 ATTTTAACAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
13 7 0.13
14 27 0.50
15 18 0.33
16 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (13 bp):
TTATTTATTTTTA
Found at i:19050982 original size:21 final size:20
Alignment explanation
Indices: 19050949--19051032 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 20
19050939 TCATATTTTA
*
19050949 TTTATTTTTCATTATTTATT
1 TTTATTATTCATTATTTATT
*
19050969 TTTATTCATTCATTATTATAAAT
1 TTTATT-ATTCATTATT-T-ATT
*
19050992 TTTA-TATTTATTATTTAGTTT
1 TTTATTATTCATTATTTA--TT
19051013 TTTATTATT-A-TATTTATT
1 TTTATTATTCATTATTTATT
19051031 TT
1 TT
19051033 AACAAATCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
18 4 0.07
19 1 0.02
20 13 0.24
21 24 0.44
22 6 0.11
23 6 0.11
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (20 bp):
TTTATTATTCATTATTTATT
Found at i:19050985 original size:17 final size:18
Alignment explanation
Indices: 19050945--19050978 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19050935 TTTATCATAT
*
19050945 TTTATTTATTTTTCATTA
1 TTTATTTATTATTCATTA
19050963 TTTATTT-TTATTCATT
1 TTTATTTATTATTCATT
19050979 CATTATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTATTATTCATTA
Found at i:19051064 original size:20 final size:20
Alignment explanation
Indices: 19051036--19051094 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
19051026 TTATTTTAAC
* **
19051036 AAATCCTAAATAATAAATTA
1 AAATACTAAATAATAAAACA
19051056 AAATACTAAA-AATAAAACA
1 AAATACTAAATAATAAAACA
19051075 AAA-A-TAAATAATAAAA-A
1 AAATACTAAATAATAAAACA
19051092 AAA
1 AAA
19051095 GAAAAATACC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.23
18 8 0.23
19 10 0.29
20 9 0.26
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (20 bp):
AAATACTAAATAATAAAACA
Found at i:19051152 original size:20 final size:21
Alignment explanation
Indices: 19051127--19051165 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
19051117 ATTAATGATA
19051127 AGTCAACATCG-GTCAACAAT
1 AGTCAACATCGAGTCAACAAT
19051147 AGTCAACATCGAGTCAACA
1 AGTCAACATCGAGTCAACA
19051166 GTGGTCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (21 bp):
AGTCAACATCGAGTCAACAAT
Found at i:19057203 original size:13 final size:14
Alignment explanation
Indices: 19057177--19057208 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
19057167 CTTTTACTTA
19057177 TTATTTTATTATTT
1 TTATTTTATTATTT
19057191 TTATTTT-TTATTT
1 TTATTTTATTATTT
19057204 TTATT
1 TTATT
19057209 ATTTGAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTATTATTT
Found at i:19058073 original size:3 final size:3
Alignment explanation
Indices: 19058065--19058102 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19058055 CACCATTTTA
19058065 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
19058103 AATTTTCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19058848 original size:22 final size:22
Alignment explanation
Indices: 19058808--19058849 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
19058798 CAATAAGAAA
*
19058808 AAATCCAAAAAAACAAAAAACC
1 AAATCCAAAAAAAAAAAAAACC
19058830 AAAT-CAAAAAAAAAGAAAAA
1 AAATCCAAAAAAAAA-AAAAA
19058850 TTTCACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.79, C:0.14, G:0.02, T:0.05
Consensus pattern (22 bp):
AAATCCAAAAAAAAAAAAAACC
Found at i:19069265 original size:20 final size:20
Alignment explanation
Indices: 19069236--19069274 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
19069226 TGTGATCATT
*
19069236 ACTTGGACACTTTTGTTTCA
1 ACTTGAACACTTTTGTTTCA
19069256 ACTTGAACACTTTTGTTTC
1 ACTTGAACACTTTTGTTTC
19069275 CATGCACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (20 bp):
ACTTGAACACTTTTGTTTCA
Found at i:19069942 original size:48 final size:48
Alignment explanation
Indices: 19069849--19070075 Score: 199
Period size: 48 Copynumber: 4.7 Consensus size: 48
19069839 ATTTCGAGAA
* * ** * * *
19069849 AAGATGAATCTTTAAAGTTATTGAACCTCCACTTAGAGGAACTTTTCC
1 AAGATGAATTTTTAAAGTTATTGAGCCTCTGCTGAGAAGAGCTTTTCC
* * *
19069897 AAGATGAATTTTTAAATTTGTTGAGCCTCTGCTGAGATGAGCTTTTCC
1 AAGATGAATTTTTAAAGTTATTGAGCCTCTGCTGAGAAGAGCTTTTCC
* * * * * *
19069945 AAGATGAGA-TTTTACTA-TTATTAAGCCTTTGTTTAGAAGAGCTTTTCT
1 AAGATGA-ATTTTTA-AAGTTATTGAGCCTCTGCTGAGAAGAGCTTTTCC
* * * *
19069993 AAGATGAATCTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGCTTTTCTAA
1 AAGATGAATTTTTAAAGTTATTGAGCCTCTGCTGAGAAGAGCTTTTC--C
*
19070043 AATGATGAA-TTTTAAAGTTATTGAACCTCTGCT
1 AA-GATGAATTTTTAAAGTTATTGAGCCTCTGCT
19070076 TAGAGGAACC
Statistics
Matches: 142, Mismatches: 30, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
47 2 0.01
48 110 0.77
49 2 0.01
50 22 0.15
51 6 0.04
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (48 bp):
AAGATGAATTTTTAAAGTTATTGAGCCTCTGCTGAGAAGAGCTTTTCC
Found at i:19070397 original size:12 final size:12
Alignment explanation
Indices: 19070357--19070403 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
19070347 CTATTTTGTA
19070357 TTTTTTTTCTT-
1 TTTTTTTTCTTC
*
19070368 TTTTTCTTTGTTC
1 TTTTT-TTTCTTC
19070381 TTTTTTTTCTTC
1 TTTTTTTTCTTC
19070393 TTTTTTGTTCT
1 TTTTTT-TTCT
19070404 GGTTTAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 5 0.16
12 17 0.55
13 9 0.29
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (12 bp):
TTTTTTTTCTTC
Found at i:19070399 original size:22 final size:24
Alignment explanation
Indices: 19070357--19070403 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
19070347 CTATTTTGTA
*
19070357 TTTTTTTTCTTTTTTTCTTTGTTC
1 TTTTTTTTCTTTCTTTCTTTGTTC
19070381 TTTTTTTTC-TTCTTT-TTTGTTC
1 TTTTTTTTCTTTCTTTCTTTGTTC
19070403 T
1 T
19070404 GGTTTAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 5 0.23
24 9 0.41
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (24 bp):
TTTTTTTTCTTTCTTTCTTTGTTC
Found at i:19071440 original size:24 final size:23
Alignment explanation
Indices: 19071395--19071442 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
19071385 ATATTTTTTA
* *
19071395 ATTTTTTAATTTTTTTATATATT
1 ATTTTTTAATTTTTATACATATT
*
19071418 ATTTTTATAATTTTTATGCATATT
1 ATTTTT-TAATTTTTATACATATT
19071442 A
1 A
19071443 AAATATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTTTTTAATTTTTATACATATT
Found at i:19071561 original size:11 final size:11
Alignment explanation
Indices: 19071545--19071570 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19071535 TAAACGTTAG
19071545 AAATTAATAAA
1 AAATTAATAAA
19071556 AAATTAATAAA
1 AAATTAATAAA
19071567 AAAT
1 AAAT
19071571 GTCAAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATTAATAAA
Found at i:19072488 original size:39 final size:39
Alignment explanation
Indices: 19072434--19072512 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
19072424 AGCTGTTTCA
19072434 TAGACCATAAAATTATCTTTTTAATAAATTTTAATTCTT
1 TAGACCATAAAATTATCTTTTTAATAAATTTTAATTCTT
19072473 TAGACCATAAAATTATCTTTTTAATAAATTTTAATTCTT
1 TAGACCATAAAATTATCTTTTTAATAAATTTTAATTCTT
19072512 T
1 T
19072513 CTAAAATCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (39 bp):
TAGACCATAAAATTATCTTTTTAATAAATTTTAATTCTT
Found at i:19072499 original size:17 final size:17
Alignment explanation
Indices: 19072440--19072500 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 17
19072430 TTCATAGACC
19072440 ATAAAATTATCTTTTTA
1 ATAAAATTATCTTTTTA
* **
19072457 ATAAATTTTAATTCTTTAGA
1 ATAAA-ATT-A-TCTTTTTA
19072477 CCATAAAATTATCTTTTTA
1 --ATAAAATTATCTTTTTA
19072496 ATAAA
1 ATAAA
19072501 TTTTAATTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 10 0.30
18 2 0.06
19 7 0.21
20 7 0.21
21 2 0.06
22 5 0.15
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.48
Consensus pattern (17 bp):
ATAAAATTATCTTTTTA
Found at i:19072670 original size:15 final size:15
Alignment explanation
Indices: 19072650--19072683 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19072640 AGTGACTTTA
19072650 TTATTATT-TTATTAT
1 TTATTATTGTTATT-T
19072665 TTATTATTGTTATTT
1 TTATTATTGTTATTT
19072680 TTAT
1 TTAT
19072684 CTTTTTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTATTATTGTTATTT
Found at i:19074003 original size:6 final size:6
Alignment explanation
Indices: 19073994--19074097 Score: 52
Period size: 6 Copynumber: 16.5 Consensus size: 6
19073984 CAGGTTTTTC
*
19073994 TTTTAT TTTTAT TTTTAT TTTTAT TCTTCT-T ATTTTAT TTTCA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TT-TAT -TTTTAT TTTTAT TTTTAT
* * * * * *
19074043 TATATATAT TTTTCTT TTTTAC TATTAT TTTT-C CTTTAT TATTAT TTATTAT
1 T-T-T-TAT TTTT-AT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT-TTAT
19074095 TTT
1 TTT
19074098 AAATTGAGCA
Statistics
Matches: 73, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
5 7 0.10
6 39 0.53
7 19 0.26
8 4 0.05
9 4 0.05
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:19074021 original size:26 final size:26
Alignment explanation
Indices: 19073991--19074040 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
19073981 TCACAGGTTT
*
19073991 TTCTT-TTATTTTTATTTTTATTTTTA
1 TTCTTCTTA-TTTTATTTTCATTTTTA
19074017 TTCTTCTTATTTTATTTTCATTTT
1 TTCTTCTTATTTTATTTTCATTTT
19074041 ATTATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (26 bp):
TTCTTCTTATTTTATTTTCATTTTTA
Found at i:19074060 original size:20 final size:19
Alignment explanation
Indices: 19074000--19074084 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
19073990 TTTCTTTTAT
*
19074000 TTTTATT-T-TTATTTTTA
1 TTTTATTATATTATTTTTC
* *
19074017 TTCTTCTTATTTTA-TTTTC
1 TT-TTATTATATTATTTTTC
19074036 ATTTTATTATATATATTTTTC
1 -TTTTATTATAT-TATTTTTC
19074057 TTTT-TTACTATTATTTTTC
1 TTTTATTA-TATTATTTTTC
*
19074076 CTTTATTAT
1 TTTTATTAT
19074085 TATTTATTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
17 2 0.04
18 4 0.07
19 27 0.49
20 17 0.31
21 5 0.09
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTATATTATTTTTC
Found at i:19074133 original size:14 final size:14
Alignment explanation
Indices: 19074114--19074141 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19074104 AGCAAATACA
19074114 TTATTTTATTTATT
1 TTATTTTATTTATT
19074128 TTATTTTATTTATT
1 TTATTTTATTTATT
19074142 AAAGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTATTTTATTTATT
Found at i:19078013 original size:41 final size:41
Alignment explanation
Indices: 19077925--19078003 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
19077915 CTTACCTAAG
* *
19077925 AAATTTTGACAAAGTCACCACTTGTGATTTTTATTCTTGCA
1 AAATTTTGACAAAGTCACCACTCGTGATTTTTATTATTGCA
*
19077966 AAATTTTGATAAAGTCACCACTCGTGATTTTTATTATT
1 AAATTTTGACAAAGTCACCACTCGTGATTTTTATTATT
19078004 TTACCATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.43
Consensus pattern (41 bp):
AAATTTTGACAAAGTCACCACTCGTGATTTTTATTATTGCA
Found at i:19078903 original size:122 final size:121
Alignment explanation
Indices: 19078617--19078964 Score: 389
Period size: 122 Copynumber: 2.8 Consensus size: 121
19078607 TTATTCGAAG
* * * * *
19078617 TAAAAACAA-TCTCAAATATATCCAATACTTTTAAAATATTTTAAAAAATTTCTTTGTGTAAATA
1 TAAAAA-AATTCTAAAATATTTCTAACACTTTTAGAATATTTTAAAAAATTTCTTTGTGTAAATA
* * * *
19078681 TTTTTAACAAATTTACCACTTATGATTTCATTTTTTTATTAATAATGGTTTTTTTTTTATGTT
65 TTTTTAATAAA-TCACCACTTGTGATTT--TATTTTTATTAATAATGG---TTTTTTTATGTT
* * * *
19078744 TGAAAAACTTCTAAAATATTTCTAACACTTTTAGAATAGTTTAAAAAATTTCTTTGTGTGAATAT
1 TAAAAAAATTCTAAAATATTTCTAACACTTTTAGAATATTTTAAAAAATTTCTTTGTGTAAATAT
* *
19078809 TTTTAATAGAATCACTACTTGTAATTTTATTTTTATTAATAAT-G-TTTTTTATGTT
66 TTTTAATA-AATCACCACTTGTGATTTTATTTTTATTAATAATGGTTTTTTTATGTT
* **
19078864 TAAAAAGATATTCTAAAATATTTCTAACATTTTTAGAATATTTTAAAAAAAAAT-TTTGTGTAAA
1 TAAAAA-A-ATTCTAAAATATTTCTAACACTTTTAGAATATTTT-AAAAAATTTCTTTGTGTAAA
*
19078928 TACTTTTAATAAAATCACCACTTGTGATTTTATTTTT
63 TATTTTTAAT-AAATCACCACTTGTGATTTTATTTTT
19078965 TTATCATATT
Statistics
Matches: 190, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
120 16 0.08
121 1 0.01
122 73 0.38
123 8 0.04
124 1 0.01
125 15 0.08
126 1 0.01
127 73 0.38
128 2 0.01
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.48
Consensus pattern (121 bp):
TAAAAAAATTCTAAAATATTTCTAACACTTTTAGAATATTTTAAAAAATTTCTTTGTGTAAATAT
TTTTAATAAATCACCACTTGTGATTTTATTTTTATTAATAATGGTTTTTTTATGTT
Found at i:19080152 original size:3 final size:3
Alignment explanation
Indices: 19080144--19080173 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
19080134 GAAACAAACA
19080144 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19080174 TTTAGATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19081657 original size:11 final size:11
Alignment explanation
Indices: 19081617--19081663 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
19081607 CTCAATGCAA
19081617 TTTTCTTTTTT
1 TTTTCTTTTTT
* *
19081628 TTTGC-TTTTG
1 TTTTCTTTTTT
* *
19081638 TTGTGTTTTTT
1 TTTTCTTTTTT
19081649 TTTTCTTTTTT
1 TTTTCTTTTTT
19081660 TTTT
1 TTTT
19081664 AGTTGTTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
10 6 0.22
11 21 0.78
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:19081709 original size:6 final size:6
Alignment explanation
Indices: 19081698--19081740 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
19081688 TAAATTTACC
* * *
19081698 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAA TTTAAA TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T
19081741 CAAAATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTAT
Done.