Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 72 of 93
Found at i:10402139 original size:207 final size:207
Alignment explanation
Indices: 10401471--10402345 Score: 656
Period size: 207 Copynumber: 4.2 Consensus size: 207
10401461 CATAAAAAAA
* * * * * *
10401471 CTCCTTTAAACAGAGGCTCAACAAC--T-AAAAA-AAATAAAAGCTCCTCTAAACAGAGGCTTAA
1 CTCCTCTAAACAGAAGCTCAACAACTTTGAAAAATAAATAATA-CTCCTCTAAACATAAGCTCAA
* *
10401532 CAACTTTTGAAAAATAAATAA-GAC-TCTTCTAATCAGAGAC-TCAACAACTTTGAAAAATAAAT
65 CAAC-TTTGAAAAATAAATAATG-CTTC-TCTAATCAGAGGCTTC-ACAACTTTAAAAAAT-AA-
* * * ** * * *
10401594 AAGGGTTCCTCTAAACAAA-AACTCAATTACTTT-GAAAATAAAGGCTTCTCTAAACAGAGGCTT
124 AA--GCTCATCTAAACAAAGGA-TCAACAACTTTAAAAAATAAAGGCTCCTCTAAACAGAGGCTA
** *
10401657 AATGAC-TTTGAAAAATAAATAATG
186 AACAACTTTTGAAAAAT--A-AAGG
* * * * * *
10401681 CTCATCTAATCAGAGGCTCCACAACTTTTGAAAAATAAA-AAT--TCTTCTAAACA-GAGACTCA
1 CTCCTCTAAACAGAAGCTCAACAAC-TTTGAAAAATAAATAATACTCCTCTAAACATAAG-CTCA
* * * * * * ** * *
10401742 ATAGCTTTGAAAAATAAATAAAAGCTCCTCTAAACAGAGGC-TCAACGACTTCGAAAAGTAAATG
64 ACAACTTTGAAAAATAAAT-AATGCTTCTCTAATCAGAGGCTTC-ACAACTTTAAAAAATAAAAG
* * * * * ** * * * *
10401806 CTCTTTTAAACAGAGGTTTAATTATTTTGGAAAATAA-ATAATGCTCCTCTAAACATAGGCTTAA
127 CTCATCTAAACAAAGGATCAACAACTTT--AAAA-AATA-AAGGCTCCTCTAAACAGAGGCTAAA
** *
10401870 TGAC-TTTGAAAAATAAATAATG
188 CAACTTTTGAAAAAT--A-AAGG
* * * * * * *
10401892 CTCCTCTAATCAGAGGCTCCACAACTTTGAAAAATAAATAATGCTCTTTTAAACA-AAGTCTTAA
1 CTCCTCTAAACAGAAGCTCAACAACTTTGAAAAATAAATAATACTCCTCTAAACATAAG-CTCAA
** *
10401956 TGACTTTGAAAAATAAATAATGC-TCTTCTAATCAGAGGTTTCACAACTTTAAAAAATAAAAGCT
65 CAACTTTGAAAAATAAATAATGCTTC-TCTAATCAGAGGCTTCACAACTTTAAAAAATAAAAGCT
* * *
10402020 CATCTAAATAAAGGCTCAACAACTTTAAAAAATAAAGGCTCCTCTGAACAGAGGCTAAACAACTT
129 CATCTAAACAAAGGATCAACAACTTTAAAAAATAAAGGCTCCTCTAAACAGAGGCTAAACAACTT
10402085 TTGAAAAATAAAGG
194 TTGAAAAATAAAGG
** * * *
10402099 CTTTTCTAAACAGAAGCTCAACGACTTTGAAAAATAAATAATACTCCTCTAATCATAAGCTCCAC
1 CTCCTCTAAACAGAAGCTCAACAACTTTGAAAAATAAATAATACTCCTCTAAACATAAGCTCAAC
* * *
10402164 AACTTTGAAAAATAAATAATGCTTCTCTAATCAGAGGCTTCACAACTTTGAAGAATAAAAGCTCC
66 AACTTTGAAAAATAAATAATGCTTCTCTAATCAGAGGCTTCACAACTTTAAAAAATAAAAGCTCA
* * * * *
10402229 TCTAAACAGAGGATTAACAACTTTAAAAAATAAAGGCTCTTCTAAATAGAGGCTTAACAACTTTT
131 TCTAAACAAAGGATCAACAACTTTAAAAAATAAAGGCTCCTCTAAACAGAGGCTAAACAACTTTT
10402294 GAAAAATAAAGG
196 GAAAAATAAAGG
***
10402306 CTCCTCTAAACAG-AGACTCCGTAACTTTTGAAAAATAAAT
1 CTCCTCTAAACAGAAG-CTCAACAAC-TTTGAAAAATAAAT
10402346 CTCCTCAACA
Statistics
Matches: 545, Mismatches: 94, Indels: 54
0.79 0.14 0.08
Matches are distributed among these distances:
206 2 0.00
207 213 0.39
208 20 0.04
209 26 0.05
210 69 0.13
211 119 0.22
212 51 0.09
213 35 0.06
214 7 0.01
215 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (207 bp):
CTCCTCTAAACAGAAGCTCAACAACTTTGAAAAATAAATAATACTCCTCTAAACATAAGCTCAAC
AACTTTGAAAAATAAATAATGCTTCTCTAATCAGAGGCTTCACAACTTTAAAAAATAAAAGCTCA
TCTAAACAAAGGATCAACAACTTTAAAAAATAAAGGCTCCTCTAAACAGAGGCTAAACAACTTTT
GAAAAATAAAGG
Found at i:10402332 original size:41 final size:39
Alignment explanation
Indices: 10401998--10402344 Score: 170
Period size: 40 Copynumber: 8.5 Consensus size: 39
10401988 CAGAGGTTTC
* * * * * *
10401998 ACAAC-TTTAAAAAATAAAAGCTCATCTAAATAAAGGCT
1 ACAACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGACT
* * *
10402036 CAACAAC-TTTAAAAAATAAAGGCTCCTCTGAACAGAGGCT
1 --ACAACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGACT
**
10402076 AAACAACTTTTGAAAAATAAAGGCTTTTCTAAACAGA-AGCT
1 --ACAACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGA-CT
* ** * *
10402117 -CAACGACTTTGAAAAATAAATAATACTCCTCTAATCATA-AGCT
1 ACAAC--TTTTGAAAAAT--A-AAGGCTCCTCTAAACAGAGA-CT
* * * *
10402160 CCACAAC-TTTGAAAAATAAATAATGCTTCTCTAATCAGAGGCTT
1 --ACAACTTTTGAAAAAT--A-AAGGCTCCTCTAAACAGAGAC-T
* * *
10402204 CACAAC-TTTGAAGAATAAAAGCTCCTCTAAACAGAGGATT
1 -ACAACTTTTGAAAAATAAAGGCTCCTCTAAACAGA-GACT
* * * *
10402244 AACAAC-TTTAAAAAATAAAGGCTCTTCTAAATAGAGGCTT
1 -ACAACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGAC-T
10402284 AACAACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGACT
1 -ACAACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGACT
*
10402324 CCGTAACTTTTGAAAAATAAA
1 AC--AACTTTTGAAAAATAAA
10402345 TCTCCTCAAC
Statistics
Matches: 249, Mismatches: 41, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
38 4 0.02
39 2 0.01
40 102 0.41
41 74 0.30
42 1 0.00
43 61 0.24
44 1 0.00
46 4 0.02
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (39 bp):
ACAACTTTTGAAAAATAAAGGCTCCTCTAAACAGAGACT
Found at i:10402852 original size:22 final size:22
Alignment explanation
Indices: 10402807--10402907 Score: 150
Period size: 22 Copynumber: 4.6 Consensus size: 22
10402797 GGTTTCACAT
*
10402807 CTCAAAGATTTTCATTT-AAAA
1 CTCAAAGATTCTCATTTGAAAA
10402828 CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
* *
10402850 CTCAAATATTCTTATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
* *
10402872 CTCAAAGATTCACATTTGAAAC
1 CTCAAAGATTCTCATTTGAAAA
10402894 CTCAAAGATTCTCA
1 CTCAAAGATTCTCA
10402908 AAGATTCTCA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
21 16 0.23
22 55 0.77
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.34
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAAAA
Found at i:10402873 original size:44 final size:43
Alignment explanation
Indices: 10402807--10403059 Score: 262
Period size: 44 Copynumber: 6.1 Consensus size: 43
10402797 GGTTTCACAT
10402807 CTCAAAGATTTTCATTT-AAAACTCAAAGATTCTCATTTGAAAA
1 CTCAAAGA-TTTCATTTGAAAACTCAAAGATTCTCATTTGAAAA
* * * *
10402850 CTCAAATATTCTTATTTGAAAACTCAAAGATTCACATTTGAAAC
1 CTCAAAGATT-TCATTTGAAAACTCAAAGATTCTCATTTGAAAA
10402894 CTCAAAG-----A-TT-----CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTTCATTTGAAAACTCAAAGATTCTCATTTGAAAA
* * * *
10402926 ATTAAAGATTCTCGTTTGAAAACTTAAAGATTCTCATTTG-AAA
1 CTCAAAGATT-TCATTTGAAAACTCAAAGATTCTCATTTGAAAA
* * *
10402969 CTCAAATATTTCATTTGAAAACTCGAAGATTCTCATTTAAAAA
1 CTCAAAGATTTCATTTGAAAACTCAAAGATTCTCATTTGAAAA
* *
10403012 CTCAAAGATTCTCATTTGAAAACTCAAAGATTCTCTTTTAAAAA
1 CTCAAAGATT-TCATTTGAAAACTCAAAGATTCTCATTTGAAAA
10403056 CTCA
1 CTCA
10403060 TAATTTTATC
Statistics
Matches: 173, Mismatches: 21, Indels: 31
0.77 0.09 0.14
Matches are distributed among these distances:
32 25 0.14
37 2 0.01
38 1 0.01
39 2 0.01
42 27 0.16
43 34 0.20
44 82 0.47
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (43 bp):
CTCAAAGATTTCATTTGAAAACTCAAAGATTCTCATTTGAAAA
Found at i:10402913 original size:32 final size:32
Alignment explanation
Indices: 10402872--10402938 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
10402862 TATTTGAAAA
**
10402872 CTCAAAGATTCACATTTGAAACCTCAAAGATT
1 CTCAAAGATTCACATTTGAAAAATCAAAGATT
* *
10402904 CTCAAAGATTCTCATTTGAAAAATTAAAGATT
1 CTCAAAGATTCACATTTGAAAAATCAAAGATT
10402936 CTC
1 CTC
10402939 GTTTGAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (32 bp):
CTCAAAGATTCACATTTGAAAAATCAAAGATT
Found at i:10402932 original size:22 final size:22
Alignment explanation
Indices: 10402904--10403059 Score: 217
Period size: 22 Copynumber: 7.2 Consensus size: 22
10402894 CTCAAAGATT
10402904 CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
* * *
10402926 ATTAAAGATTCTCGTTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
*
10402948 CTTAAAGATTCTCATTTG-AAA
1 CTCAAAGATTCTCATTTGAAAA
*
10402969 CTCAAATATT-TCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
* *
10402990 CTCGAAGATTCTCATTTAAAAA
1 CTCAAAGATTCTCATTTGAAAA
10403012 CTCAAAGATTCTCATTTGAAAA
1 CTCAAAGATTCTCATTTGAAAA
* *
10403034 CTCAAAGATTCTCTTTTAAAAA
1 CTCAAAGATTCTCATTTGAAAA
10403056 CTCA
1 CTCA
10403060 TAATTTTATC
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
20 7 0.06
21 22 0.19
22 89 0.75
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAAAA
Found at i:10402933 original size:54 final size:54
Alignment explanation
Indices: 10402850--10402961 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
10402840 CATTTGAAAA
* * * *
10402850 CTCAAATATTCTTATTTGAAAACTCAAAGATTCACATTTGAAACCTCAAAGATT
1 CTCAAAGATTCTCATTTGAAAAATCAAAGATTCACATTTGAAAACTCAAAGATT
* * * *
10402904 CTCAAAGATTCTCATTTGAAAAATTAAAGATTCTCGTTTGAAAACTTAAAGATT
1 CTCAAAGATTCTCATTTGAAAAATCAAAGATTCACATTTGAAAACTCAAAGATT
10402958 CTCA
1 CTCA
10402962 TTTGAAACTC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (54 bp):
CTCAAAGATTCTCATTTGAAAAATCAAAGATTCACATTTGAAAACTCAAAGATT
Found at i:10402955 original size:76 final size:75
Alignment explanation
Indices: 10402828--10403046 Score: 244
Period size: 76 Copynumber: 3.0 Consensus size: 75
10402818 TCATTTAAAA
* * *
10402828 CTCAAAGATTCTCATTTGAAAACTCAAATATTCTTATTTGAAAACTCAAAGATTCACATTTGAAA
1 CTCAAAGATTCTCATTTGAAAAATCAAAGATTCTCATTTGAAAACTCAAAGATTCACATTTGAAA
10402893 CCTCAAAGATT
66 -CTCAAAGATT
* * * *
10402904 CTCAAAGATTCTCATTTGAAAAATTAAAGATTCTCGTTTGAAAACTTAAAGATTCTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAAAATCAAAGATTCTCATTTGAAAACTCAAAGATTCACATTTGAAA
10402969 CTC-AA-A--
66 CTCAAAGATT
* * * *
10402975 -T-----ATT-TCATTTGAAAACTCGAAGATTCTCATTTAAAAACTCAAAGATTCTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAAAATCAAAGATTCTCATTTGAAAACTCAAAGATTCACATTTG-AA
10403033 ACTCAAAGATT
65 ACTCAAAGATT
10403044 CTC
1 CTC
10403047 TTTTAAAAAC
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
64 45 0.37
65 9 0.07
66 2 0.02
67 1 0.01
70 2 0.02
73 1 0.01
74 2 0.02
75 3 0.02
76 58 0.47
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (75 bp):
CTCAAAGATTCTCATTTGAAAAATCAAAGATTCTCATTTGAAAACTCAAAGATTCACATTTGAAA
CTCAAAGATT
Found at i:10404254 original size:23 final size:21
Alignment explanation
Indices: 10404236--10404329 Score: 77
Period size: 22 Copynumber: 4.2 Consensus size: 21
10404226 CATTCTTTCG
10404236 TTTTCTCTTTTTTTTTTCTTT
1 TTTTCTCTTTTTTTTTTCTTT
* *
10404257 TTTTTTCATTTTTTTCTTTCATT
1 TTTTCTC-TTTTTTT-TTTCTTT
10404280 TTTTCAT-TTTTTTTTATT-TTT
1 TTTTC-TCTTTTTTTT-TTCTTT
10404301 TTCTTC-CTTTTTCTTTTCTCATTT
1 TT-TTCTCTTTTT-TTTT-TC-TTT
10404325 TTTTC
1 TTTTC
10404330 ATCCATTAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
21 17 0.29
22 23 0.39
23 13 0.22
24 6 0.10
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTCTCTTTTTTTTTTCTTT
Found at i:10404255 original size:11 final size:11
Alignment explanation
Indices: 10404236--10404329 Score: 68
Period size: 11 Copynumber: 8.6 Consensus size: 11
10404226 CATTCTTTCG
*
10404236 TTTTCTCTTTT
1 TTTTTTCTTTT
10404247 TTTTTTC-TTT
1 TTTTTTCTTTT
*
10404257 TTTTTTC--AT
1 TTTTTTCTTTT
*
10404266 TTTTTTCTTTCA
1 TTTTTTCTTT-T
*
10404278 TTTTTTCATTT
1 TTTTTTCTTTT
*
10404289 TTTTTTATTTT
1 TTTTTTCTTTT
*
10404300 TTTCTTCCTTTT
1 TTT-TTTCTTTT
* **
10404312 TCTTTTCTCAT
1 TTTTTTCTTTT
10404323 TTTTTTC
1 TTTTTTC
10404330 ATCCATTAGT
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
9 8 0.12
10 10 0.16
11 29 0.45
12 17 0.27
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:10404281 original size:12 final size:12
Alignment explanation
Indices: 10404243--10404284 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
10404233 TCGTTTTCTC
*
10404243 TTTTTTTTTTC-
1 TTTTTTCTTTCA
10404254 TTTTTT-TTTCA
1 TTTTTTCTTTCA
10404265 TTTTTTTCTTTCA
1 -TTTTTTCTTTCA
10404278 TTTTTTC
1 TTTTTTC
10404285 ATTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.14
11 6 0.21
12 13 0.46
13 5 0.18
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCTTTCA
Found at i:10404282 original size:31 final size:28
Alignment explanation
Indices: 10404247--10404317 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 28
10404237 TTTCTCTTTT
10404247 TTTTTTCTTTTTTTTTCATTTTTTTCTTTC
1 TTTTTTCTTTTTTTTT-ATTTTTTTC-TTC
10404277 ATTTTTTCATTTTTTTTTATTTTTTTCTTC
1 -TTTTTTC-TTTTTTTTTATTTTTTTCTTC
*
10404307 CTTTTTCTTTT
1 TTTTTTCTTTT
10404318 CTCATTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
28 4 0.11
29 6 0.16
30 3 0.08
31 16 0.42
32 9 0.24
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.82
Consensus pattern (28 bp):
TTTTTTCTTTTTTTTTATTTTTTTCTTC
Found at i:10408420 original size:61 final size:63
Alignment explanation
Indices: 10408354--10408475 Score: 185
Period size: 61 Copynumber: 2.0 Consensus size: 63
10408344 AAATATTTTC
* * *
10408354 TTTTGAATTTATAAATTTTTCACCATTTAGGCCTATTTAGAAATT-T-TTTTTTATTTTTCCT
1 TTTTGAATTTATAAATTTTTAACCATTTAGGCCAATTTAGAAATTCTCTTTTTTAGTTTTCCT
* *
10408415 TTTTGAATTTCTAAATTTTTAACCATTTAGGTCAATTTAGAAATTCTCTTTTTTAGTTTTC
1 TTTTGAATTTATAAATTTTTAACCATTTAGGCCAATTTAGAAATTCTCTTTTTTAGTTTTC
10408476 TTCCCTTTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 41 0.76
62 1 0.02
63 12 0.22
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.56
Consensus pattern (63 bp):
TTTTGAATTTATAAATTTTTAACCATTTAGGCCAATTTAGAAATTCTCTTTTTTAGTTTTCCT
Found at i:10408956 original size:170 final size:169
Alignment explanation
Indices: 10408543--10408986 Score: 587
Period size: 170 Copynumber: 2.6 Consensus size: 169
10408533 AAGTTCCATT
*
10408543 TAAATT-TTTCCACCATTT-GGAAAAAATTTAGAGAAATTTCTTATCTAGAGATTTCTTACAAAA
1 TAAATTATTT-CACCATTTAGG-ACAAATTTAGAGAAATTTCTTATCTAGAGATTTCTTA-AAAA
* * * * *
10408606 TTTAGCATTTGAAATTTCTAAGAA-TCTATCATTGGATAATTGTCACATATTTTCAACCAAAATT
63 TTTACCATTTGAAATTTCTAAGAATTCCATCCTTGGATAATTGTAAAATATTTTCAACCAAAATT
*
10408670 TTATTTGAAAAATAATACAATTACTTTTATTAAAATTTCATC
128 TTATTTGAAAAAGAATACAATTACTTTTATTAAAATTTCATC
* * * *
10408712 TAAATTATTTCACCATTTGGGATAAATTTAGA-AAATTTTCTTATTTAAAGATTTCTTAAGAAAT
1 TAAATTATTTCACCATTTAGGACAAATTTAGAGAAA-TTTCTTATCTAGAGATTTCTTAA-AAAT
10408776 TTACCATTTGAAATTTCTAA-AATTTCCATCCTTGGATAATTGTAAAATATTTTCAACCAAAATT
64 TTACCATTTGAAATTTCTAAGAA-TTCCATCCTTGGATAATTGTAAAATATTTTCAACCAAAA--
* * * *
10408840 TTTTATTTGGAAAAGAATATAATTACTTTTATTGAAATTTTATC
126 TTTTATTTGAAAAAGAATACAATTACTTTTATTAAAATTTCATC
* *
10408884 TAAATTATTTCACCATTTATGACAAATTTAGAGAAATTT-TTACCTAGAGATTTCTTAAAAATTT
1 TAAATTATTTCACCATTTAGGACAAATTTAGAGAAATTTCTTATCTAGAGATTTCTTAAAAATTT
* *
10408948 ATCATTTGAAATTTCTAAGAA-TCTCATCCTTGGGTAATT
66 ACCATTTGAAATTTCTAAGAATTC-CATCCTTGGATAATT
10408987 AGTATTTTTT
Statistics
Matches: 243, Mismatches: 21, Indels: 21
0.85 0.07 0.07
Matches are distributed among these distances:
168 6 0.02
169 69 0.28
170 76 0.31
171 18 0.07
172 71 0.29
173 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.42
Consensus pattern (169 bp):
TAAATTATTTCACCATTTAGGACAAATTTAGAGAAATTTCTTATCTAGAGATTTCTTAAAAATTT
ACCATTTGAAATTTCTAAGAATTCCATCCTTGGATAATTGTAAAATATTTTCAACCAAAATTTTA
TTTGAAAAAGAATACAATTACTTTTATTAAAATTTCATC
Found at i:10409033 original size:14 final size:13
Alignment explanation
Indices: 10409012--10409045 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
10409002 ATTTTATTAA
10409012 TATTTTTATCTTT
1 TATTTTTATCTTT
*
10409025 TACTTTTTATTTTT
1 TA-TTTTTATCTTT
10409039 TATTTTT
1 TATTTTT
10409046 TTGTTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (13 bp):
TATTTTTATCTTT
Found at i:10410130 original size:9 final size:9
Alignment explanation
Indices: 10410115--10410147 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
10410105 TCAACTACTT
10410115 ATTTTTTT-
1 ATTTTTTTA
10410123 ATTTTTTTCA
1 ATTTTTTT-A
10410133 ATTTTTTTA
1 ATTTTTTTA
10410142 ATTTTT
1 ATTTTT
10410148 AATTTTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 7 0.30
10 8 0.35
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:10416111 original size:135 final size:135
Alignment explanation
Indices: 10415869--10416139 Score: 542
Period size: 135 Copynumber: 2.0 Consensus size: 135
10415859 ATTTTGCATT
10415869 TGTTTACGGATTTTTTCTGTTCTTAGTAATAATTTTTGGCCAAGCTAATGAAAGCCTAATGAAAA
1 TGTTTACGGATTTTTTCTGTTCTTAGTAATAATTTTTGGCCAAGCTAATGAAAGCCTAATGAAAA
10415934 TTTGAGCTTAAGCTAATTTTTTATTTAAAAAACTTGTTTTTCAGTTTTCTTATATTTTGATTGTC
66 TTTGAGCTTAAGCTAATTTTTTATTTAAAAAACTTGTTTTTCAGTTTTCTTATATTTTGATTGTC
10415999 ACATG
131 ACATG
10416004 TGTTTACGGATTTTTTCTGTTCTTAGTAATAATTTTTGGCCAAGCTAATGAAAGCCTAATGAAAA
1 TGTTTACGGATTTTTTCTGTTCTTAGTAATAATTTTTGGCCAAGCTAATGAAAGCCTAATGAAAA
10416069 TTTGAGCTTAAGCTAATTTTTTATTTAAAAAACTTGTTTTTCAGTTTTCTTATATTTTGATTGTC
66 TTTGAGCTTAAGCTAATTTTTTATTTAAAAAACTTGTTTTTCAGTTTTCTTATATTTTGATTGTC
10416134 ACATG
131 ACATG
10416139 T
1 T
10416140 CATCGTTAAT
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (135 bp):
TGTTTACGGATTTTTTCTGTTCTTAGTAATAATTTTTGGCCAAGCTAATGAAAGCCTAATGAAAA
TTTGAGCTTAAGCTAATTTTTTATTTAAAAAACTTGTTTTTCAGTTTTCTTATATTTTGATTGTC
ACATG
Found at i:10417772 original size:3 final size:3
Alignment explanation
Indices: 10417764--10417807 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
10417754 TCTTATGAAA
*
10417764 ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10417808 TTTTTATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:10417788 original size:17 final size:17
Alignment explanation
Indices: 10417766--10417800 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10417756 TTATGAAAAT
10417766 TATTATTATTATTATTA
1 TATTATTATTATTATTA
10417783 TATTATTATTATTATTA
1 TATTATTATTATTATTA
10417800 T
1 T
10417801 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:10417813 original size:8 final size:9
Alignment explanation
Indices: 10417765--10417814 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
10417755 CTTATGAAAA
*
10417765 TTATTATTA
1 TTATTATTT
10417774 TTATTATTAT
1 TTATTATT-T
*
10417784 ATTATTATTA
1 -TTATTATTT
10417794 TTATTATTT
1 TTATTATTT
10417803 TTATT-TTT
1 TTATTATTT
10417811 TTAT
1 TTAT
10417815 AATTCTCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 7 0.19
9 21 0.58
11 8 0.22
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTATTATTT
Found at i:10417814 original size:17 final size:20
Alignment explanation
Indices: 10417764--10417801 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10417754 TCTTATGAAA
10417764 ATTATTATTATTATTATTAT
1 ATTATTATTATTATTATTAT
10417784 ATTATTATTATTATTATT
1 ATTATTATTATTATTATT
10417802 TTTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTATTATTATTATTATTAT
Found at i:10417984 original size:16 final size:17
Alignment explanation
Indices: 10417950--10417996 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
10417940 TTTAAGCATT
* **
10417950 TTTTAGTTATTATCCTA
1 TTTTATTTATTATTTTA
10417967 TTTTATTT-TTATTTTA
1 TTTTATTTATTATTTTA
10417983 TTTTATTTATTATT
1 TTTTATTTATTATT
10417997 ATAAATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTTATTTATTATTTTA
Found at i:10418007 original size:13 final size:13
Alignment explanation
Indices: 10417989--10418014 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10417979 TTTATTTTAT
10417989 TTATTATTATAAA
1 TTATTATTATAAA
10418002 TTATTATTATAAA
1 TTATTATTATAAA
10418015 ATAACAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATTATTATAAA
Found at i:10418872 original size:49 final size:46
Alignment explanation
Indices: 10418817--10418936 Score: 134
Period size: 49 Copynumber: 2.5 Consensus size: 46
10418807 GATAGAATTA
*
10418817 TGGGTGTAGAAGATTTGGAGTTTCTGGTTATAGGAAAGCTTAGGG-TTTC
1 TGGGTGT-GAAGATTTGGAGTTTCTGG-CAT--GAAAGCTTAGGGTTTTC
* *
10418866 TGGGTGTGAGAGTTTTGGAGTTTCTGGCATGAAAGCTTAGGGTTTTT
1 TGGGTGTGA-AGATTTGGAGTTTCTGGCATGAAAGCTTAGGGTTTTC
* *
10418913 TGGGCGTGGAAGAGTTGGAGTTTC
1 TGGGTGT-GAAGATTTGGAGTTTC
10418937 AATGTGTCCA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
46 12 0.19
47 21 0.34
48 6 0.10
49 23 0.37
ACGTcount: A:0.19, C:0.07, G:0.38, T:0.37
Consensus pattern (46 bp):
TGGGTGTGAAGATTTGGAGTTTCTGGCATGAAAGCTTAGGGTTTTC
Found at i:10419121 original size:46 final size:46
Alignment explanation
Indices: 10419071--10419172 Score: 186
Period size: 46 Copynumber: 2.2 Consensus size: 46
10419061 TGGCTAGTAT
10419071 GGTGGCTGCAAGAGGGTTGGAGGTATGAGTAGGGTAGGCTGTAGGG
1 GGTGGCTGCAAGAGGGTTGGAGGTATGAGTAGGGTAGGCTGTAGGG
*
10419117 GGTGGCTGTAAGAGGGTTGGAGGTATGAGTAGGGTAGGCTGTAGGG
1 GGTGGCTGCAAGAGGGTTGGAGGTATGAGTAGGGTAGGCTGTAGGG
*
10419163 GGTGGTTGCA
1 GGTGGCTGCA
10419173 GGAGTGGCTG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 53 1.00
ACGTcount: A:0.19, C:0.06, G:0.52, T:0.24
Consensus pattern (46 bp):
GGTGGCTGCAAGAGGGTTGGAGGTATGAGTAGGGTAGGCTGTAGGG
Found at i:10420495 original size:23 final size:22
Alignment explanation
Indices: 10420469--10420520 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
10420459 AACAATATGT
10420469 AAAAGAGAAAATACA-AAAAAAAC
1 AAAAGAGAAAA-A-ATAAAAAAAC
**
10420492 AAAAGCTAAAAAATAAAAAAAC
1 AAAAGAGAAAAAATAAAAAAAC
10420514 AAAAGAG
1 AAAAGAG
10420521 CTGGTGCACG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.58
23 9 0.38
ACGTcount: A:0.77, C:0.08, G:0.10, T:0.06
Consensus pattern (22 bp):
AAAAGAGAAAAAATAAAAAAAC
Found at i:10421466 original size:10 final size:10
Alignment explanation
Indices: 10421451--10421480 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10421441 TCAGGTGCAA
10421451 TTTTTTAAAT
1 TTTTTTAAAT
*
10421461 TTTTTTTAAT
1 TTTTTTAAAT
10421471 TTTTTTAAAT
1 TTTTTTAAAT
10421481 ATTATTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:10421488 original size:21 final size:20
Alignment explanation
Indices: 10421451--10421513 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
10421441 TCAGGTGCAA
*
10421451 TTTTTTAAATTTTTTTTAAT
1 TTTTTTAAATTTATTTTAAT
**
10421471 TTTTTTAAATATTATTTTTGT
1 TTTTTTAAAT-TTATTTTAAT
*
10421492 TATTTTAAATTTTATTATTAAT
1 TTTTTTAAA-TTTATT-TTAAT
10421514 ATTTATGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 10 0.29
21 20 0.59
22 4 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTTTTAAATTTATTTTAAT
Found at i:10427651 original size:21 final size:22
Alignment explanation
Indices: 10427627--10427667 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10427617 AAGAAAAGTT
* *
10427627 AAGAAATCTAAATT-GTGAAGA
1 AAGAAAGCAAAATTGGTGAAGA
10427648 AAGAAAGCAAAATTGGTGAA
1 AAGAAAGCAAAATTGGTGAA
10427668 AAATGAGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.05, G:0.22, T:0.20
Consensus pattern (22 bp):
AAGAAAGCAAAATTGGTGAAGA
Found at i:10427928 original size:35 final size:35
Alignment explanation
Indices: 10427888--10427977 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 35
10427878 GTATTTTTAG
*
10427888 AAAAGACATTTGCATTTCATGTA-CATCTTTTTAAA
1 AAAAGACATTTGCATTTCATG-AGCATCATTTTAAA
* * *
10427923 AAAAGATATTTGCATCTCATGAGCATCATTTTAAG
1 AAAAGACATTTGCATTTCATGAGCATCATTTTAAA
*
10427958 AAAATACATTTGCATTTCAT
1 AAAAGACATTTGCATTTCAT
10427978 TTGCAGACAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 1 0.02
35 46 0.98
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (35 bp):
AAAAGACATTTGCATTTCATGAGCATCATTTTAAA
Found at i:10428409 original size:42 final size:42
Alignment explanation
Indices: 10428363--10428471 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
10428353 CATTTGTATT
* *
10428363 TTCTCAGTGGTGATATCCGAGTGTTAAAGTTTGAATTGCATC
1 TTCTCAGTGGTGATATCCAAGTGTCAAAGTTTGAATTGCATC
* * * *
10428405 TTCTC-GATGGTAATATCCAAGTGTCGAGGTTTGAATTGCATT
1 TTCTCAG-TGGTGATATCCAAGTGTCAAAGTTTGAATTGCATC
* * *
10428447 TTCTCAATTGTGATATTCAAGTGTC
1 TTCTCAGTGGTGATATCCAAGTGTC
10428472 CTTCGGTGGC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 1 0.02
42 54 0.98
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (42 bp):
TTCTCAGTGGTGATATCCAAGTGTCAAAGTTTGAATTGCATC
Found at i:10428613 original size:43 final size:42
Alignment explanation
Indices: 10428543--10428695 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 42
10428533 AAATCATTTA
* * *
10428543 CATTTTTTCGATGGTGATATCCTAGTGTTAAAGTTTGAACTG
1 CATTTTCTCGATGGTGATATCCGAGTGTTAAAGTTTGAATTG
* ** * *
10428585 CATTTTCTCGATGGTCGATATTCGAGTGTCGAGGTTTGAATTA
1 CATTTTCTCGATGGT-GATATCCGAGTGTTAAAGTTTGAATTG
* ** ** *** *
10428628 CATTTTTTTTATGGTGATATCCGAGCATTAAACAATCAATTG
1 CATTTTCTCGATGGTGATATCCGAGTGTTAAAGTTTGAATTG
*
10428670 CATTTTCTCGATGGTGATATTCGAGT
1 CATTTTCTCGATGGTGATATCCGAGT
10428696 TTCCTTCGGT
Statistics
Matches: 83, Mismatches: 27, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
42 51 0.61
43 32 0.39
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (42 bp):
CATTTTCTCGATGGTGATATCCGAGTGTTAAAGTTTGAATTG
Found at i:10428642 original size:85 final size:84
Alignment explanation
Indices: 10428540--10428695 Score: 213
Period size: 85 Copynumber: 1.8 Consensus size: 84
10428530 AAAAAATCAT
* ** *** *
10428540 TTACATTTTTTCGATGGTGATATCCTAGTGTTAAAGTTTGAACTGCATTTTCTCGATGGTCGATA
1 TTACATTTTTTCGATGGTGATATCCGAGCATTAAACAATCAACTGCATTTTCTCGATGGT-GATA
10428605 TTCGAGTGTCGAGGTTTGAA
65 TTCGAGTGTCGAGGTTTGAA
** *
10428625 TTACATTTTTTTTATGGTGATATCCGAGCATTAAACAATCAATTGCATTTTCTCGATGGTGATAT
1 TTACATTTTTTCGATGGTGATATCCGAGCATTAAACAATCAACTGCATTTTCTCGATGGTGATAT
10428690 TCGAGT
66 TCGAGT
10428696 TTCCTTCGGT
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 11 0.18
85 50 0.82
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (84 bp):
TTACATTTTTTCGATGGTGATATCCGAGCATTAAACAATCAACTGCATTTTCTCGATGGTGATAT
TCGAGTGTCGAGGTTTGAA
Found at i:10428810 original size:99 final size:99
Alignment explanation
Indices: 10428663--10429184 Score: 575
Period size: 99 Copynumber: 5.3 Consensus size: 99
10428653 CATTAAACAA
10428663 TCAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGC
1 TCAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGC
* *
10428728 ATATTCTCGGTGGTGGTATCCAAATGTTAAAGCT
66 ATATTCTCGGTGGTGATATCCAAGTGTTAAAGCT
* * *
10428762 TCAATTGCATTTTCTCAATGGTGATATTCGAGTTTCCTTCGTTGGTGATATCCGAAATCATTTGC
1 TCAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGC
* * * *
10428827 ATAGTCTTGGTGATGATATCCAAGTGTTAAAGGT
66 ATATTCTCGGTGGTGATATCCAAGTGTTAAAGCT
* * * * * *
10428861 TTATTTGCATTTTTTCGATAGTGATATTCGAGTTTCTTTCGGTGGTGATATCCGAAGTTATTTGC
1 TCAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGC
* * **
10428926 ATATTCTCGGTGGTAAAATCTGAGTGTTAAAGCT
66 ATATTCTCGGTGGTGATATCCAAGTGTTAAAGCT
* * * * * * **
10428960 TTAATTACATTTTCTCGATGGTGATATTTGAGTTTTCTTCGATGGTGATATCCAAAGTCATTTAT
1 TCAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGC
* * *
10429025 ATATTCTCAGTGGTGACATCCGAGTGTTAAAG-T
66 ATATTCTCGGTGGTGATATCCAAGTGTTAAAGCT
* * * * **
10429058 CTGATTTGCA-TATCATTCGATGGTGATATTCGAGTTTCCTTCGGTGGCGATAT-ATATAGTCA-
1 -TCAATTGCATTTTC--TCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGA-AGTCAT
* * * * *
10429120 TCGCATATTTTCGGTGGTGATATTCAAGTGTTAAGGTT
62 TTGCATATTCTCGGTGGTGATATCCAAGTGTTAAAGCT
* * * *
10429158 TGATTTACATTTTCTCAATGGTGATAT
1 TCAATTGCATTTTCTCGATGGTGATAT
10429185 CCAAATGTTA
Statistics
Matches: 353, Mismatches: 64, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
98 16 0.05
99 295 0.84
100 42 0.12
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (99 bp):
TCAATTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGC
ATATTCTCGGTGGTGATATCCAAGTGTTAAAGCT
Found at i:10429506 original size:103 final size:104
Alignment explanation
Indices: 10429342--10429748 Score: 270
Period size: 99 Copynumber: 4.0 Consensus size: 104
10429332 CTACCTAAGA
* * * * * *
10429342 TAGCTTTTTTAAGATGAGAATTTTAAAGTTGTTGAACCTCTGTTGAGAGGAGCCTTTTTCAAGAT
1 TAGCTTTTTCAAAATGAGAATTTTAAAGTTATTGAACATCTGCTGAGAGGAGCCTTTTTCAAAAT
10429407 -AGGA-TTT-TAAAGTTATTGAGCCTCTGCTAAGAGGAGC
66 GA-GATTTTCTAAAGTTATTGAGCCTCTGCTAAGAGGAGC
* *
10429444 TAGCTTTTTCAAAATGAGAATTTTTAAAGTTATTGAGCATCTGCTGATAGGAGCCTTTTTCAAAA
1 TAGCTTTTTCAAAATGAGAA-TTTTAAAGTTATTGAACATCTGCTGAGAGGAGCCTTTTTCAAAA
* ** * *
10429509 TGAGATTTTCTAAAGTTGTTGAGCCTCTATTGAGAGAAGC
65 TGAGATTTTCTAAAGTTATTGAGCCTCTGCTAAGAGGAGC
* * * * * * * * * *
10429549 ---CTTTTTTAAGATAAG-ATTTTAAAGTTGTT-AAGCCTATGTTGAGATGA-ACTTTTTCAAGA
1 TAGCTTTTTCAAAATGAGAATTTTAAAGTTATTGAA-CATCTGCTGAGAGGAGCCTTTTTCAAAA
* * * * *
10429608 TGAGAATTTT-TAAAATTGTTAAGCCTTTGCTGAGAGGAGC
65 TGAG-ATTTTCTAAAGTTATTGAGCCTCTGCTAAGAGGAGC
** * * ** * * * *
10429648 T---TTTTTCATGAT-AGAATTTTAAAATTATT-AAGCCTCTATTTAGATGAGTCTTTTTCAAGA
1 TAGCTTTTTCAAAATGAGAATTTTAAAGTTATTGAA-CATCTGCTGAGAGGAGCCTTTTTCAAAA
* * * *
10429708 TGAGAATTTT-TAAAGCTGTTGAACCTTTGCTAAGAGGAGC
65 TGAG-ATTTTCTAAAGTTATTGAGCCTCTGCTAAGAGGAGC
10429748 T
1 T
10429749 TTTTTCAGAT
Statistics
Matches: 252, Mismatches: 44, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
98 2 0.01
99 75 0.30
100 74 0.29
101 1 0.00
102 30 0.12
103 41 0.16
104 4 0.02
105 25 0.10
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (104 bp):
TAGCTTTTTCAAAATGAGAATTTTAAAGTTATTGAACATCTGCTGAGAGGAGCCTTTTTCAAAAT
GAGATTTTCTAAAGTTATTGAGCCTCTGCTAAGAGGAGC
Found at i:10429523 original size:51 final size:50
Alignment explanation
Indices: 10429345--10429755 Score: 337
Period size: 51 Copynumber: 8.2 Consensus size: 50
10429335 CCTAAGATAG
* * * * *
10429345 CTTTTTTAAGATGAGAATTTTAAAGTTGTTGAACCTCTGTTGAGAGGAGC
1 CTTTTTCAAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGC
*
10429395 CTTTTTCAAGAT-AGGA-TTTTAAAGTTATTGAGCCTCTGCTAAGAGGAGC
1 CTTTTTCAAGATGA-GATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGC
* * *
10429444 TAGCTTTTTCAAAATGAGAATTTTTAAAGTTATTGAGCATCTGCTGATAGGAGC
1 ---CTTTTTCAAGATGAG-ATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGC
* * ** *
10429498 CTTTTTCAAAATGAGATTTTCTAAAGTTGTTGAGCCTCTATTGAGAGAAGC
1 CTTTTTCAAGATGAGATTTT-TAAAGTTATTGAGCCTCTGCTGAGAGGAGC
* * * * * * * *
10429549 CTTTTTTAAGATAAGA-TTTTAAAGTTGTTAAGCCTATGTTGAGATGA-A
1 CTTTTTCAAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGC
* * * *
10429597 CTTTTTCAAGATGAGAATTTTTAAAATTGTTAAGCCTTTGCTGAGAGGAGC
1 CTTTTTCAAGATGAG-ATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGC
* * * * * ** * * *
10429648 TTTTTTCATGAT-AGAATTTTAAAATTATTAAGCCTCTATTTAGATGAGT
1 CTTTTTCAAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGC
* * * * *
10429697 CTTTTTCAAGATGAGAATTTTTAAAGCTGTTGAACCTTTGCTAAGAGGAGC
1 CTTTTTCAAGATGAG-ATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGC
*
10429748 TTTTTTCA
1 CTTTTTCA
10429756 GATTTTAAAT
Statistics
Matches: 292, Mismatches: 56, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
48 13 0.04
49 91 0.31
50 52 0.18
51 92 0.32
52 12 0.04
53 2 0.01
54 30 0.10
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (50 bp):
CTTTTTCAAGATGAGATTTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGC
Found at i:10429627 original size:50 final size:50
Alignment explanation
Indices: 10429345--10429752 Score: 328
Period size: 49 Copynumber: 8.1 Consensus size: 50
10429335 CCTAAGATAG
* *
10429345 CTTTTTTAAGATGAGAATTTTAAAGTTGTTGAA-CCTCTGTTGAGAGGAGC
1 CTTTTTCAAGATGAGAATTTTAAAGTTGTT-AAGCCTCTGTTGAGAGGAGA
* * * * *
10429395 CTTTTTCAAGAT-AGGATTTTAAAGTTATTGAGCCTCTGCTAAGAGGAGCTA
1 CTTTTTCAAGATGAGAATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAG--A
* * * * * * *
10429446 GCTTTTTCAAAATGAGAATTTTTAAAGTTATTGAGCATCTGCTGATAGGAGC
1 -CTTTTTCAAGATGAGAA-TTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGA
* * * * * *
10429498 CTTTTTCAAAATGAGATTTTCTAAAGTTGTTGAGCCTCTATTGAGAGAAGC
1 CTTTTTCAAGATGAGAATTT-TAAAGTTGTTAAGCCTCTGTTGAGAGGAGA
* * * *
10429549 CTTTTTTAAGATAAG-ATTTTAAAGTTGTTAAGCCTATGTTGAGATGA-A
1 CTTTTTCAAGATGAGAATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGA
* * *
10429597 CTTTTTCAAGATGAGAATTTTTAAAATTGTTAAGCCTTTGCTGAGAGGAG-
1 CTTTTTCAAGATGAGAA-TTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGA
* * * * * * *
10429647 CTTTTTTCATGAT-AGAATTTTAAAATTATTAAGCCTCTATTTAGATGAGT
1 C-TTTTTCAAGATGAGAATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGA
* * * *
10429697 CTTTTTCAAGATGAGAATTTTTAAAGCTGTTGAA-CCTTTGCTAAGAGGAG-
1 CTTTTTCAAGATGAGAA-TTTTAAAGTTGTT-AAGCCTCTGTTGAGAGGAGA
10429747 CTTTTT
1 CTTTTT
10429753 TCAGATTTTA
Statistics
Matches: 291, Mismatches: 52, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
48 14 0.05
49 89 0.31
50 60 0.21
51 83 0.29
52 13 0.04
53 3 0.01
54 29 0.10
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (50 bp):
CTTTTTCAAGATGAGAATTTTAAAGTTGTTAAGCCTCTGTTGAGAGGAGA
Found at i:10429738 original size:100 final size:101
Alignment explanation
Indices: 10429321--10429755 Score: 415
Period size: 100 Copynumber: 4.3 Consensus size: 101
10429311 TTAATTATTT
* * *
10429321 TTGTTGAACCTCTACCTAAGA-TAGCTTTTTT-AAGATGAGAATTTTAAAGTTGTTGAA-CCTCT
1 TTGTTGAACCTCT-GCTAAGAGGAGCTTTTTTCAAGATGAGAATTTTAAAGTTATT-AAGCCTCT
*
10429383 GTTGAGAGGAGCCTTTTTCAAGAT-AGGA-TTTTAAAG
64 GTTGAGAGGAGCCTTTTTCAAGATGAGAATTTTTAAAG
* * * * *
10429419 TTATTGAGCCTCTGCTAAGAGGAGCTAGCTTTTTCAAAATGAGAATTTTTAAAGTTATTGAGCAT
1 TTGTTGAACCTCTGCTAAGAGGAGCT---TTTTTCAAGATGAGAA-TTTTAAAGTTATTAAGCCT
* * *
10429484 CTGCTGATAGGAGCCTTTTTCAAAATGAG-ATTTTCTAAAG
62 CTGTTGAGAGGAGCCTTTTTCAAGATGAGAATTTT-TAAAG
* ** * * * * *
10429524 TTGTTGAGCCTCTATTGAGAGAAGCCTTTTTT-AAGATAAG-ATTTTAAAGTTGTTAAGCCTATG
1 TTGTTGAACCTCTGCTAAGAGGAG-CTTTTTTCAAGATGAGAATTTTAAAGTTATTAAGCCTCTG
* * *
10429587 TTGAGATGA-ACTTTTTCAAGATGAGAATTTTTAAAA
65 TTGAGAGGAGCCTTTTTCAAGATGAGAATTTTTAAAG
* * * * *
10429623 TTGTT-AAGCCTTTGCTGAGAGGAGCTTTTTTCATGAT-AGAATTTTAAAATTATTAAGCCTCTA
1 TTGTTGAA-CCTCTGCTAAGAGGAGCTTTTTTCAAGATGAGAATTTTAAAGTTATTAAGCCTCTG
* * *
10429686 TTTAGATGAGTCTTTTTCAAGATGAGAATTTTTAAAG
65 TTGAGAGGAGCCTTTTTCAAGATGAGAATTTTTAAAG
* *
10429723 CTGTTGAACCTTTGCTAAGAGGAGCTTTTTTCA
1 TTGTTGAACCTCTGCTAAGAGGAGCTTTTTTCA
10429756 GATTTTAAAT
Statistics
Matches: 277, Mismatches: 43, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
97 6 0.02
98 25 0.09
99 66 0.24
100 82 0.30
101 8 0.03
102 16 0.06
103 43 0.16
104 5 0.02
105 24 0.09
106 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (101 bp):
TTGTTGAACCTCTGCTAAGAGGAGCTTTTTTCAAGATGAGAATTTTAAAGTTATTAAGCCTCTGT
TGAGAGGAGCCTTTTTCAAGATGAGAATTTTTAAAG
Found at i:10431156 original size:21 final size:21
Alignment explanation
Indices: 10431132--10431185 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
10431122 TTTTTGAATT
*
10431132 TTTTTATTTTTTTAAATATTA
1 TTTTTATTATTTTAAATATTA
* *
10431153 TTTTTGTTATTTTAAATTTTA
1 TTTTTATTATTTTAAATATTA
* *
10431174 TTATTAATATTT
1 TTTTTATTATTT
10431186 ATGCTTGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTTATTATTTTAAATATTA
Found at i:10432938 original size:3 final size:3
Alignment explanation
Indices: 10432930--10432989 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
10432920 TATGTGATGG
10432930 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10432978 TAT TAT TAT TAT
1 TAT TAT TAT TAT
10432990 AAGAGTCTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10434921 original size:25 final size:25
Alignment explanation
Indices: 10434860--10434921 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
10434850 AAATTAACAT
* *
10434860 AAATATAACAAAAACTTATAATATT
1 AAATAAAACAAAAACTTATAATATC
* * *
10434885 AAATGAATCAAAAATTTA-AATATC
1 AAATAAAACAAAAACTTATAATATC
10434909 AAATAAACACAAA
1 AAATAAA-ACAAA
10434922 CACATAACAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.26
Consensus pattern (25 bp):
AAATAAAACAAAAACTTATAATATC
Found at i:10437399 original size:7 final size:7
Alignment explanation
Indices: 10437387--10437421 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
10437377 ATTTTTATTA
10437387 AAATTTT
1 AAATTTT
10437394 AAATTTT
1 AAATTTT
10437401 AAATTTT
1 AAATTTT
10437408 AAATTTT
1 AAATTTT
10437415 AAATTTT
1 AAATTTT
10437422 TATTTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AAATTTT
Found at i:10437498 original size:14 final size:15
Alignment explanation
Indices: 10437472--10437503 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
10437462 TTAGTTATAA
10437472 TTTTTCTCGTCTCCT
1 TTTTTCTCGTCTCCT
10437487 TTTTTCTC-TCTCCT
1 TTTTTCTCGTCTCCT
10437501 TTT
1 TTT
10437504 GCGTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTTCTCGTCTCCT
Found at i:10439735 original size:2 final size:2
Alignment explanation
Indices: 10439728--10439753 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10439718 TGGCATCTTT
10439728 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
10439754 AGAAACTTTT
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:10440349 original size:31 final size:31
Alignment explanation
Indices: 10440293--10440361 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
10440283 GGTTAATGTA
* *
10440293 ATATATAATTTAAAATTTTAAAATGTAAATT
1 ATATATTATTTAAAAGTTTAAAATGTAAATT
* *
10440324 ATATATTATTTGAAAGTTTATAATGTAAATT
1 ATATATTATTTAAAAGTTTAAAATGTAAATT
10440355 ATATATT
1 ATATATT
10440362 TTGTATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (31 bp):
ATATATTATTTAAAAGTTTAAAATGTAAATT
Found at i:10440371 original size:28 final size:29
Alignment explanation
Indices: 10440286--10440391 Score: 92
Period size: 31 Copynumber: 3.7 Consensus size: 29
10440276 AAGTTTTGGT
* *
10440286 TAATGT-AA-TATATAATTTAAAATTTTA
1 TAATGTAAATTATATATTTTGAAATTTTA
* *
10440313 AAATGTAAATTATATATTATTTGAAAGTTTA
1 TAATGTAAATTATATA-T-TTTGAAATTTTA
*
10440344 TAATGTAAATTATATATTTTG-TATTTTA
1 TAATGTAAATTATATATTTTGAAATTTTA
** * *
10440372 TTTTTTAATTTATATATTTT
1 TAATGTAAATTATATATTTT
10440392 CTCATAATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
27 5 0.08
28 23 0.36
29 10 0.16
30 1 0.02
31 25 0.39
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (29 bp):
TAATGTAAATTATATATTTTGAAATTTTA
Found at i:10441232 original size:14 final size:16
Alignment explanation
Indices: 10441213--10441244 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10441203 TTTATTTTTA
10441213 ATTTA-TTAAAT-ATT
1 ATTTATTTAAATGATT
10441227 ATTTATTTAAATGATT
1 ATTTATTTAAATGATT
10441243 AT
1 AT
10441245 ATAAACTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 6 0.38
16 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTTATTTAAATGATT
Found at i:10443222 original size:7 final size:7
Alignment explanation
Indices: 10443210--10443271 Score: 65
Period size: 7 Copynumber: 8.9 Consensus size: 7
10443200 AAGAGGTAAA
10443210 AAAAAAC
1 AAAAAAC
10443217 AAAAAAC
1 AAAAAAC
10443224 AAAAAAC
1 AAAAAAC
10443231 AAAAAAC
1 AAAAAAC
10443238 AAAACAA-
1 AAAA-AAC
*
10443245 AACAAATC
1 AA-AAAAC
*
10443253 -AAAAAT
1 AAAAAAC
*
10443259 AAAAAGC
1 AAAAAAC
10443266 AAAAAA
1 AAAAAA
10443272 ATTCACAGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 3 0.07
7 38 0.84
8 4 0.09
ACGTcount: A:0.82, C:0.13, G:0.02, T:0.03
Consensus pattern (7 bp):
AAAAAAC
Found at i:10443744 original size:15 final size:16
Alignment explanation
Indices: 10443697--10443746 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
10443687 AATACTAAAC
*
10443697 AAAAC-AAAATAAACAA
1 AAAACTAAAACAAA-AA
10443713 AAAATCTCAAAACAAAAA
1 AAAA-CT-AAAACAAAAA
10443731 AAAACTAAAA-AAAAA
1 AAAACTAAAACAAAAA
10443746 A
1 A
10443747 CCGAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.20
16 8 0.27
17 3 0.10
18 6 0.20
19 7 0.23
ACGTcount: A:0.80, C:0.12, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAACTAAAACAAAAA
Found at i:10448607 original size:21 final size:21
Alignment explanation
Indices: 10448581--10448621 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10448571 AGAAATCACA
10448581 AAGCCATCAGCCATATATGAG
1 AAGCCATCAGCCATATATGAG
*
10448602 AAGCCATCGGCCATATATGA
1 AAGCCATCAGCCATATATGA
10448622 AAAGAGAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (21 bp):
AAGCCATCAGCCATATATGAG
Found at i:10453540 original size:50 final size:50
Alignment explanation
Indices: 10453406--10453559 Score: 184
Period size: 56 Copynumber: 3.0 Consensus size: 50
10453396 GTTTTGAGAA
* * * *
10453406 AAGATGAGA-TTTTAAAGTTGTTGAGACTCTGTTGAGAGGAGCCTTTTCC
1 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTC
* *
10453455 AAGATGAAATTTTAAAATTGTTAAGCGTTGAGCCTCTGCTGAGAGGAGCTTTTTTC
1 AAGATGAGATTTTTAAA--GTT----GTTGAGCCTCTGCTGAGAGGAGCTTTTTTC
*
10453511 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTT
1 AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTT
10453560 AGATTTTAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
49 8 0.09
50 34 0.38
52 3 0.03
54 3 0.03
56 41 0.46
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (50 bp):
AAGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTC
Found at i:10453573 original size:50 final size:50
Alignment explanation
Indices: 10453415--10453610 Score: 157
Period size: 50 Copynumber: 3.8 Consensus size: 50
10453405 AAAGATGAGA
* * **
10453415 TTTTAAAGTTGTTGAGACTCTGTTGAGAGGAGCCTTTTCCAAGATGAAA-T
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTTAAGATGAAATT
* *
10453465 TTTAAAATTGTTAAGCGTTGAGCCTCTGCTGAGAGGAGCTTTTTTCAAGATGAGA-T
1 TTTTAAA--GTT----GTTGAGCCTCTGCTGAGAGGAGCTTTTTT-AAGATGAAATT
* *
10453521 TTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTT-AGATTTTAAATTT
1 TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTAAGA--TGAAA-TT
* * *
10453573 TTTTAAAGTTGTCGAGCCTCAAG-TGAGAGGAGCATTTT
1 TTTTAAAGTTGTTGAGCCTC-TGCTGAGAGGAGCTTTTT
10453611 CGAAAAAAAA
Statistics
Matches: 120, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
48 3 0.03
50 37 0.31
52 36 0.30
53 1 0.01
54 3 0.03
55 5 0.04
56 35 0.29
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (50 bp):
TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTAAGATGAAATT
Found at i:10455209 original size:18 final size:18
Alignment explanation
Indices: 10455170--10455212 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10455160 TTTTTTTAAA
**
10455170 TAATAAATAAAAATTGGT
1 TAATAAATAAAAATAAGT
10455188 TAATAAATTAAAAATAAG-
1 TAATAAA-TAAAAATAAGT
10455206 TAATAAA
1 TAATAAA
10455213 AATGAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
TAATAAATAAAAATAAGT
Found at i:10456337 original size:16 final size:16
Alignment explanation
Indices: 10456313--10456343 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10456303 TTTCAATCAT
*
10456313 TTCATATTTAAATTAA
1 TTCAAATTTAAATTAA
10456329 TTCAAATTTAAATTA
1 TTCAAATTTAAATTA
10456344 TTAATTTTCT
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:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (16 bp):
TTCAAATTTAAATTAA
Found at i:10457282 original size:13 final size:13
Alignment explanation
Indices: 10457266--10457294 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10457256 ACTTATAAGT
10457266 TTTATTTATTTTA
1 TTTATTTATTTTA
10457279 TTTATTTATTTTA
1 TTTATTTATTTTA
10457292 TTT
1 TTT
10457295 TCATTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:10457415 original size:8 final size:8
Alignment explanation
Indices: 10457402--10457438 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
10457392 GATGGGCATG
10457402 ACAAAAGA
1 ACAAAAGA
*
10457410 ACAAAATA
1 ACAAAAGA
10457418 ACAAAAGA
1 ACAAAAGA
10457426 ACAAAAGA
1 ACAAAAGA
10457434 ACAAA
1 ACAAA
10457439 TCTCTTTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.76, C:0.14, G:0.08, T:0.03
Consensus pattern (8 bp):
ACAAAAGA
Found at i:10464562 original size:20 final size:21
Alignment explanation
Indices: 10464529--10464567 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
10464519 TAGGCTGTAG
*
10464529 AAAATATATGAAAT-TTTAAA
1 AAAATATATCAAATCTTTAAA
*
10464549 AAAATATTTCAAATCTTTA
1 AAAATATATCAAATCTTTA
10464568 GCAGCCTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAATATATCAAATCTTTAAA
Found at i:10476080 original size:29 final size:28
Alignment explanation
Indices: 10476044--10476102 Score: 109
Period size: 29 Copynumber: 2.1 Consensus size: 28
10476034 TCTGTAATTA
10476044 TTTATTTTAAGTTATCAGATACGATACAT
1 TTTATTTTAAGTTATCAGATACGATA-AT
10476073 TTTATTTTAAGTTATCAGATACGATAAT
1 TTTATTTTAAGTTATCAGATACGATAAT
10476101 TT
1 TT
10476103 ATGTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.47
Consensus pattern (28 bp):
TTTATTTTAAGTTATCAGATACGATAAT
Found at i:10476248 original size:21 final size:22
Alignment explanation
Indices: 10476219--10476261 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
10476209 TGATTTTAAA
10476219 TTAAGTAAA-AA-GATATAAAAT
1 TTAAGTAAATAATGATA-AAAAT
*
10476240 TTAATTAAATAATGATAAAAAT
1 TTAAGTAAATAATGATAAAAAT
10476262 AGTGTACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
TTAAGTAAATAATGATAAAAAT
Found at i:10476698 original size:15 final size:15
Alignment explanation
Indices: 10476680--10476713 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10476670 TCCCATCTGT
10476680 TTTCATCCATTTAAC
1 TTTCATCCATTTAAC
* *
10476695 TTTCATCTATTTAGC
1 TTTCATCCATTTAAC
10476710 TTTC
1 TTTC
10476714 TTCCTTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTCATCCATTTAAC
Found at i:10477912 original size:51 final size:51
Alignment explanation
Indices: 10477836--10477945 Score: 175
Period size: 51 Copynumber: 2.2 Consensus size: 51
10477826 TATTCTTTAG
* * *
10477836 CTTCAGCTCACTGTTTTTTGCTAATTTTAAGTCCTTAACATTAACATCATT
1 CTTCAGCTCAATGTCTTTTACTAATTTTAAGTCCTTAACATTAACATCATT
* *
10477887 CTTCAGCTCAATGTCTTTTATTAATTTTAAGTCCTTAATATTAACATCATT
1 CTTCAGCTCAATGTCTTTTACTAATTTTAAGTCCTTAACATTAACATCATT
10477938 CTTCAGCT
1 CTTCAGCT
10477946 TCAGCTCTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (51 bp):
CTTCAGCTCAATGTCTTTTACTAATTTTAAGTCCTTAACATTAACATCATT
Found at i:10483299 original size:17 final size:15
Alignment explanation
Indices: 10483279--10483325 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
10483269 TTTTAACATA
10483279 TTGTTAGTTATTATATT
1 TTGTT-GTTA-TATATT
10483296 TTGTTGTTATATATT
1 TTGTTGTTATATATT
*
10483311 AT-TTGTTA-ATATT
1 TTGTTGTTATATATT
10483324 TT
1 TT
10483326 ATTATTTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 7 0.25
16 4 0.14
17 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
TTGTTGTTATATATT
Found at i:10483978 original size:21 final size:21
Alignment explanation
Indices: 10483958--10484035 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
10483948 TTTTTTGAGT
**
10483958 TGAAAGCTGTTGTGATTGAGT
1 TGAAAGCTGTTGTGATTGAAC
* *
10483979 TGGAAGCTGTTGTGTTTGAAC
1 TGAAAGCTGTTGTGATTGAAC
* *
10484000 TGGAAGCTGTTGTGTTTGAAC
1 TGAAAGCTGTTGTGATTGAAC
*
10484021 TGAAAGTTGTTGTGA
1 TGAAAGCTGTTGTGA
10484036 GGTCTTATAG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.22, C:0.06, G:0.33, T:0.38
Consensus pattern (21 bp):
TGAAAGCTGTTGTGATTGAAC
Found at i:10484804 original size:14 final size:15
Alignment explanation
Indices: 10484785--10484813 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10484775 ACAACAGATA
10484785 TTAAAATT-TTAAAT
1 TTAAAATTATTAAAT
10484799 TTAAAATTATTAAAT
1 TTAAAATTATTAAAT
10484814 ATCATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAAATTATTAAAT
Found at i:10486238 original size:78 final size:78
Alignment explanation
Indices: 10486109--10486265 Score: 287
Period size: 78 Copynumber: 2.0 Consensus size: 78
10486099 TAGGGTTTGC
*
10486109 CATAGAACCTCCTGACTGTCGTGCGTTAGTGTTGCCATTTTGAAGATGGCAAGGGTAAGATGGTA
1 CATAGAACCTCCCGACTGTCGTGCGTTAGTGTTGCCATTTTGAAGATGGCAAGGGTAAGATGGTA
10486174 AGAAATTGTTCGG
66 AGAAATTGTTCGG
*
10486187 CATAGAACCTCCCGACTGTCGTGCGTTAGTGTTGCCATTTTGAAGATGGCAAGGGTGAGATGGTA
1 CATAGAACCTCCCGACTGTCGTGCGTTAGTGTTGCCATTTTGAAGATGGCAAGGGTAAGATGGTA
*
10486252 GGAAATTGTTCGG
66 AGAAATTGTTCGG
10486265 C
1 C
10486266 TCTAACGTGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.29
Consensus pattern (78 bp):
CATAGAACCTCCCGACTGTCGTGCGTTAGTGTTGCCATTTTGAAGATGGCAAGGGTAAGATGGTA
AGAAATTGTTCGG
Found at i:10491655 original size:34 final size:34
Alignment explanation
Indices: 10491599--10491664 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
10491589 TGAATTTTCA
*
10491599 AAAACTTATTTAATTTACCAAAAATTCATTTCTG
1 AAAACTTATTAAATTTACCAAAAATTCATTTCTG
*
10491633 AAAACTT-TTAAATTCTATCAAAAATTCATTTC
1 AAAACTTATTAAATT-TACCAAAAATTCATTTC
10491665 ATGGAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.41
Consensus pattern (34 bp):
AAAACTTATTAAATTTACCAAAAATTCATTTCTG
Found at i:10491712 original size:34 final size:35
Alignment explanation
Indices: 10491650--10491769 Score: 120
Period size: 34 Copynumber: 3.5 Consensus size: 35
10491640 TTAAATTCTA
* * * *
10491650 TCAAAAATTCATTTCATGGAAAGTATTGCAATTCTC
1 TCAAAAATGCATTT-TTGGAAAGCATTGCAATTATC
10491686 T-AAAAATGCATTTTTGGAAAGCATTGCAATTAT-
1 TCAAAAATGCATTTTTGGAAAGCATTGCAATTATC
* * **
10491719 TCGAAAATGCAATTTCAGAAAGCATTGCAATTATC
1 TCAAAAATGCATTTTTGGAAAGCATTGCAATTATC
* *
10491754 -CATAAATGTATTTTTG
1 TCAAAAATGCATTTTTG
10491770 AAAATAATTT
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
33 1 0.01
34 55 0.81
35 11 0.16
36 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (35 bp):
TCAAAAATGCATTTTTGGAAAGCATTGCAATTATC
Found at i:10491749 original size:18 final size:17
Alignment explanation
Indices: 10491702--10491750 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
10491692 TGCATTTTTG
10491702 GAAAGCATTGCAATTATTC
1 GAAAGCATTGCAA-T-TTC
10491721 GAAA--A-TGCAATTTC
1 GAAAGCATTGCAATTTC
10491735 AGAAAGCATTGCAATT
1 -GAAAGCATTGCAATT
10491751 ATCCATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 3 0.12
15 5 0.19
16 5 0.19
17 2 0.08
18 7 0.27
19 4 0.15
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (17 bp):
GAAAGCATTGCAATTTC
Found at i:10494566 original size:25 final size:22
Alignment explanation
Indices: 10494522--10494571 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 22
10494512 GCTCAATTAC
*
10494522 TTAAATAATATAAGTAATCTCTT
1 TTAAATAATATAAATAATCT-TT
*
10494545 TTAAATTACATATAAATGATCTTT
1 TTAAA-TA-ATATAAATAATCTTT
10494569 TTA
1 TTA
10494572 CTCAATGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 7 0.30
25 11 0.48
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
TTAAATAATATAAATAATCTTT
Found at i:10501432 original size:107 final size:107
Alignment explanation
Indices: 10501302--10501584 Score: 349
Period size: 107 Copynumber: 2.6 Consensus size: 107
10501292 AATGGGTAGA
* ** * * *
10501302 AACTACACGGTTGGCTTTTTTTTTTTTTAGATTAAAGAATAGAATAAGTATTAAAGAAAGAAAGC
1 AACTACATGGTTGGCTTAGTTTTTTTTTAGATTGAAGAATAGAAGAAGT-TTAAAGAAAGAAGGC
*
10501367 CATATAAGGAAAAAAACAAAGCTTTGTAT--AAAAAATTATGGG
65 CATATAAGGAAAAAAACAAAGCTTTGTATAAAAAAAAGTA-GGG
* * * * *
10501409 AACTACATGGTTAGCTTGGTTTTTTTTTAAATTGACGAATAAAAGAAGTGTTAAAGAAAGAAGGC
1 AACTACATGGTTGGCTTAGTTTTTTTTTAGATTGAAGAATAGAAGAAGT-TTAAAGAAAGAAGGC
*
10501474 CATATAAGGAAGAAAACAAAGCTTTGTATAAAAAAAAGGTAGGG
65 CATATAAGGAAAAAAACAAAGCTTTGTATAAAAAAAA-GTAGGG
* * *
10501518 -ACTACATGTTTGGCTTAG-TTTTTTTGAGATTGAAGAATAGAAGAAGTTTAAAAAAATGAAGGC
1 AACTACATGGTTGGCTTAGTTTTTTTTTAGATTGAAGAATAGAAGAAGTTTAAAGAAA-GAAGGC
10501581 CATA
65 CATA
10501585 CCATTTGCAT
Statistics
Matches: 151, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
106 8 0.05
107 117 0.77
108 15 0.10
109 9 0.06
110 2 0.01
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (107 bp):
AACTACATGGTTGGCTTAGTTTTTTTTTAGATTGAAGAATAGAAGAAGTTTAAAGAAAGAAGGCC
ATATAAGGAAAAAAACAAAGCTTTGTATAAAAAAAAGTAGGG
Found at i:10507033 original size:6 final size:6
Alignment explanation
Indices: 10507024--10507055 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
10507014 TGTTTTTTGG
10507024 TTTTAT TTTTAT TTTTAT TTTTAT TTTT-T TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
10507056 GTTTCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (6 bp):
TTTTAT
Found at i:10511004 original size:23 final size:24
Alignment explanation
Indices: 10510978--10511023 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10510968 ATTTTATTAA
*
10510978 TCAATTAAA-TTAAATTTTAAAAT
1 TCAAATAAATTTAAATTTTAAAAT
*
10511001 TCAAATAAATTTGAATTTTAAAA
1 TCAAATAAATTTAAATTTTAAAA
10511024 CTTAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
TCAAATAAATTTAAATTTTAAAAT
Found at i:10515116 original size:13 final size:14
Alignment explanation
Indices: 10515098--10515126 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10515088 CAAAATATAT
10515098 TAAAT-ATTTTTTA
1 TAAATAATTTTTTA
10515111 TAAATAATTTTTTA
1 TAAATAATTTTTTA
10515125 TA
1 TA
10515127 TATTTTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAAATAATTTTTTA
Found at i:10516807 original size:21 final size:21
Alignment explanation
Indices: 10516782--10516833 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 21
10516772 TCCAAAATTA
10516782 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
10516803 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
10516824 ATAAATATAT
1 ATAAA-ATAT
10516834 AAATAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.87
22 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:10518518 original size:41 final size:39
Alignment explanation
Indices: 10518438--10518520 Score: 105
Period size: 41 Copynumber: 2.1 Consensus size: 39
10518428 TAAATATGTT
10518438 TAATTTTAATTAATTAATTTATTTATTAATTATAAGAAA
1 TAATTTTAATTAATTAATTTATTTATTAATTATAAGAAA
* * *
10518477 TAATTTTGAATTATTTATTTATATTTATTTATTA-AATGAAA
1 TAATTTT-AATTAATTAATT-TATTTATTAATTATAA-GAAA
10518518 TAA
1 TAA
10518521 ATATAAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 7 0.18
40 12 0.32
41 19 0.50
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (39 bp):
TAATTTTAATTAATTAATTTATTTATTAATTATAAGAAA
Found at i:10518685 original size:4 final size:4
Alignment explanation
Indices: 10518662--10518752 Score: 50
Period size: 4 Copynumber: 23.0 Consensus size: 4
10518652 TTTAATCTAT
*
10518662 TTTA -TTA TTTA TGTTCA TTTA -TT- TTTA ATTA TTTAA TTATA TTT-
1 TTTA TTTA TTTA T-TT-A TTTA TTTA TTTA TTTA TTT-A TT-TA TTTA
* ** *
10518706 TTTA TTTAA TTTA TTTA -TTA TTTA TATA CATA TTTA TATA TTT- TTTA
1 TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
10518753 ATATATTATT
Statistics
Matches: 68, Mismatches: 8, Indels: 22
0.69 0.08 0.22
Matches are distributed among these distances:
3 16 0.24
4 35 0.51
5 14 0.21
6 3 0.04
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:10518724 original size:20 final size:20
Alignment explanation
Indices: 10518644--10518730 Score: 74
Period size: 20 Copynumber: 4.3 Consensus size: 20
10518634 TATCCTAACA
*
10518644 TTTTTA-TT-TTTAATCTAT
1 TTTTTATTTATTTAATTTAT
*
10518662 TTTATTATTTATGTTCATTTA-
1 TTT-TTATTTAT-TTAATTTAT
*
10518683 TTTTTAATTATTTAATTATAT
1 TTTTTATTTATTTAATT-TAT
10518704 TTTTTATTTAATTT-ATTTAT
1 TTTTTATTT-ATTTAATTTAT
*
10518724 TATTTAT
1 TTTTTAT
10518731 ATACATATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
18 3 0.05
19 8 0.14
20 20 0.36
21 15 0.27
22 10 0.18
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTTTATTTATTTAATTTAT
Found at i:10518758 original size:20 final size:20
Alignment explanation
Indices: 10518683--10518759 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 20
10518673 TGTTCATTTA
10518683 TTTTTAAT-TATTTAATTATAT
1 TTTTTAATATATTT-A-TATAT
* *
10518704 TTTTT-ATTTAATTTATTTAT
1 TTTTTAATAT-ATTTATATAT
*
10518724 TATTTATATACATATTTATATAT
1 T-TTT-TA-ATATATTTATATAT
10518747 TTTTTAATATATT
1 TTTTTAATATATT
10518760 ATTTACTATC
Statistics
Matches: 45, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
20 13 0.29
21 12 0.27
22 8 0.18
23 10 0.22
24 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAATATATTTATATAT
Found at i:10518762 original size:23 final size:22
Alignment explanation
Indices: 10518689--10518764 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
10518679 TTTATTTTTA
10518689 ATTATTTAATTATATTTTTTAT-T
1 ATTATTT-A-TATATTTTTTATAT
* * *
10518712 -TAATTTATTTATTATTTATAT
1 ATTATTTATATATTTTTTATAT
*
10518733 ACATATTTATATATTTTTTAATAT
1 A-TTATTTATATATTTTTT-ATAT
10518757 ATTATTTA
1 ATTATTTA
10518765 CTATCAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 10 0.24
21 2 0.05
22 5 0.12
23 19 0.46
24 5 0.12
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATTTATATATTTTTTATAT
Found at i:10519389 original size:30 final size:30
Alignment explanation
Indices: 10519322--10519390 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
10519312 TTATATTTTT
10519322 AAAAAA-TTTATGTAAGACATTAAAAATTC
1 AAAAAATTTTATGTAAGACATTAAAAATTC
** * *
10519351 AAGCAATTTTATGTAAGA-TTTGAAAATTC
1 AAAAAATTTTATGTAAGACATTAAAAATTC
10519380 AAAAAAATTTT
1 -AAAAAATTTT
10519391 CATCTTAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 13 0.41
30 19 0.59
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.35
Consensus pattern (30 bp):
AAAAAATTTTATGTAAGACATTAAAAATTC
Found at i:10520899 original size:11 final size:11
Alignment explanation
Indices: 10520883--10520953 Score: 51
Period size: 11 Copynumber: 6.7 Consensus size: 11
10520873 GCTGTCAATG
10520883 ATATTTTAATA
1 ATATTTTAATA
*
10520894 ATATTTTAGTA
1 ATATTTTAATA
10520905 ATA--TT-AT-
1 ATATTTTAATA
*
10520912 ATATTGATAATA
1 ATATT-TTAATA
* *
10520924 TTATTCTAATA
1 ATATTTTAATA
* *
10520935 ATATTCTAGTA
1 ATATTTTAATA
10520946 ATATTTTA
1 ATATTTTA
10520954 GATTAATTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
7 3 0.06
8 1 0.02
9 2 0.04
10 1 0.02
11 36 0.77
12 4 0.09
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (11 bp):
ATATTTTAATA
Found at i:10520947 original size:14 final size:14
Alignment explanation
Indices: 10520889--10520948 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
10520879 AATGATATTT
*
10520889 TAATAATATTTTAG
1 TAATAATATTATAG
* *
10520903 TAATATTA-TATAT
1 TAATAATATTATAG
* **
10520916 TGATAATATTATTC
1 TAATAATATTATAG
*
10520930 TAATAATATTCTAG
1 TAATAATATTATAG
10520944 TAATA
1 TAATA
10520949 TTTTAGATTA
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
13 9 0.26
14 25 0.74
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (14 bp):
TAATAATATTATAG
Found at i:10525297 original size:33 final size:33
Alignment explanation
Indices: 10525255--10525325 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
10525245 TTTTAGATTG
* *
10525255 ATTTAATATTGATTTAAAAAATATTAGATATTA
1 ATTTGATATTGATTTAAAAAATATTAAATATTA
* * *
10525288 ATTTGATATTGATTTAGAGAATATTAAATATTG
1 ATTTGATATTGATTTAAAAAATATTAAATATTA
10525321 ATTTG
1 ATTTG
10525326 GTGATTAGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.46
Consensus pattern (33 bp):
ATTTGATATTGATTTAAAAAATATTAAATATTA
Found at i:10525970 original size:52 final size:52
Alignment explanation
Indices: 10525877--10525988 Score: 145
Period size: 52 Copynumber: 2.2 Consensus size: 52
10525867 TAGACAAGAA
* * * *
10525877 GACTTACAAAAGAAGAATTTTAAGAGAAAGAAGATTTTTAATAGGTAAGTTT
1 GACTTACAAAAGAAGAATTCTAAAAGAAAGAAGATTCTTAATAAGTAAGTTT
* * *
10525929 GACTTGCAAGAGAAGAATTCTAAAAGGAAAG-GGATTCTTAATAAGTAAGTTT
1 GACTTACAAAAGAAGAATTCTAAAA-GAAAGAAGATTCTTAATAAGTAAGTTT
10525981 GACTTACA
1 GACTTACA
10525989 GGAAAAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 46 0.90
53 5 0.10
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.29
Consensus pattern (52 bp):
GACTTACAAAAGAAGAATTCTAAAAGAAAGAAGATTCTTAATAAGTAAGTTT
Found at i:10526031 original size:25 final size:25
Alignment explanation
Indices: 10525997--10526045 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10525987 CAGGAAAAGG
**
10525997 ATTCTTAATGGGTAAGTTTGTATGT
1 ATTCTTAATGGACAAGTTTGTATGT
10526022 ATTCTTAATGGACAAGTTTGTATG
1 ATTCTTAATGGACAAGTTTGTATG
10526046 GTTATAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (25 bp):
ATTCTTAATGGACAAGTTTGTATGT
Found at i:10526607 original size:25 final size:25
Alignment explanation
Indices: 10526573--10526627 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
10526563 AAGTGGTATC
* *
10526573 AGAGCTGAAGGTTCGAA-ATGTGAGA
1 AGAGCTGAAGATTC-AATATGTGAAA
*
10526598 AGAGTTGAAGATTCAATATGTGAAA
1 AGAGCTGAAGATTCAATATGTGAAA
10526623 AGAGC
1 AGAGC
10526628 CGATGGTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.40, C:0.07, G:0.31, T:0.22
Consensus pattern (25 bp):
AGAGCTGAAGATTCAATATGTGAAA
Found at i:10527067 original size:52 final size:52
Alignment explanation
Indices: 10526979--10527135 Score: 206
Period size: 52 Copynumber: 3.0 Consensus size: 52
10526969 TGGACAAGAA
* * * *
10526979 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGCAAGTTT
*
10527031 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGCAAGTTT
* * * * * * *
10527083 GACTTACAGGAGAAGAATTTTAAGAGGAGAGGGATTCTTAATGGGCAAATTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGCAAGTTT
10527135 G
1 G
10527136 TATGTATTCT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 92 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAAGGATTCTTAATAGGCAAGTTT
Found at i:10527150 original size:25 final size:25
Alignment explanation
Indices: 10527116--10527164 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10527106 GAGGAGAGGG
*
10527116 ATTCTTAATGGGCAAATTTGTATGT
1 ATTCTTAATGGACAAATTTGTATGT
*
10527141 ATTCTTAATGGACAAGTTTGTATG
1 ATTCTTAATGGACAAATTTGTATG
10527165 ATTATAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (25 bp):
ATTCTTAATGGACAAATTTGTATGT
Found at i:10529370 original size:28 final size:28
Alignment explanation
Indices: 10529328--10529381 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
10529318 TTGTCAACGA
*
10529328 AAGTTCTAAAGATGCCATAATAATTTTC
1 AAGTTCTAAAAATGCCATAATAATTTTC
10529356 AAGTTCTAAAAATGCCATAATAATTT
1 AAGTTCTAAAAATGCCATAATAATTT
10529382 CGGCTGCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (28 bp):
AAGTTCTAAAAATGCCATAATAATTTTC
Found at i:10531591 original size:17 final size:16
Alignment explanation
Indices: 10531536--10531629 Score: 64
Period size: 16 Copynumber: 5.5 Consensus size: 16
10531526 ATTAAATTTG
*
10531536 TTAATATTTATAATATAT
1 TTAA-ATTTATAATA-AA
* **
10531554 TTAGA-TTATAATTTA
1 TTAAATTTATAATAAA
*
10531569 TTAAATTTTTAATAAA
1 TTAAATTTATAATAAA
*
10531585 TTTAAATTGATAATAAA
1 -TTAAATTTATAATAAA
10531602 TTAAATTTGAGTTAATATAA
1 TTAAATTT-A--TAATA-AA
10531622 TTAAATTT
1 TTAAATTT
10531630 GAGAAAACAA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
15 4 0.07
16 21 0.36
17 16 0.27
18 3 0.05
19 5 0.08
20 10 0.17
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (16 bp):
TTAAATTTATAATAAA
Found at i:10531605 original size:33 final size:32
Alignment explanation
Indices: 10531536--10531609 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 32
10531526 ATTAAATTTG
* * **
10531536 TTAATATTTATAATATATTTAGATTATAATTTA
1 TTAA-ATTTATAATAAATTTAAATTATAATAAA
*
10531569 TTAAATTTTTAATAAATTTAAATTGATAATAAA
1 TTAAATTTATAATAAATTTAAATT-ATAATAAA
10531602 TTAAATTT
1 TTAAATTT
10531610 GAGTTAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 17 0.49
33 18 0.51
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
TTAAATTTATAATAAATTTAAATTATAATAAA
Found at i:10531607 original size:16 final size:16
Alignment explanation
Indices: 10531568--10531628 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 16
10531558 ATTATAATTT
**
10531568 ATTAAATTTTTAATAA
1 ATTAAATTGATAATAA
10531584 ATTTAAATTGATAATAA
1 A-TTAAATTGATAATAA
10531601 ATTAAATTTGAGTTAATATA
1 ATTAAA-TTGA--TAATA-A
10531621 ATTAAATT
1 ATTAAATT
10531629 TGAGAAAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.16
17 18 0.47
19 7 0.18
20 7 0.18
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAATTGATAATAA
Found at i:10531625 original size:20 final size:19
Alignment explanation
Indices: 10531577--10531632 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
10531567 TATTAAATTT
10531577 TTAATAAATTTAAA-TTGA-
1 TTAATAAA-TTAAATTTGAG
10531595 -TAATAAATTAAATTTGAG
1 TTAATAAATTAAATTTGAG
10531613 TTAATATAATTAAATTTGAG
1 TTAATA-AATTAAATTTGAG
10531633 AAAACAATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.15
17 11 0.32
19 5 0.15
20 13 0.38
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (19 bp):
TTAATAAATTAAATTTGAG
Found at i:10532279 original size:26 final size:25
Alignment explanation
Indices: 10532250--10532336 Score: 74
Period size: 26 Copynumber: 3.4 Consensus size: 25
10532240 TTTTTATCTT
10532250 ATATATTTATATATATTTTTAATAAA
1 ATATATTTATATATA-TTTTAATAAA
* *
10532276 ATATATTTATTTTAATTAATTTTAA-ATA
1 ATATATTTA-TAT-A-T-ATTTTAATAAA
10532304 ATA-ATTTATAT-TA-TTTAATAAAA
1 ATATATTTATATATATTTTAAT-AAA
10532327 ATATATTTAT
1 ATATATTTAT
10532337 TAAATATATA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
21 5 0.10
22 1 0.02
23 6 0.12
24 6 0.12
26 11 0.22
27 7 0.14
28 6 0.12
29 7 0.14
30 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATATTTATATATATTTTAATAAA
Found at i:10532329 original size:23 final size:24
Alignment explanation
Indices: 10532250--10532336 Score: 79
Period size: 27 Copynumber: 3.4 Consensus size: 24
10532240 TTTTTATCTT
10532250 ATATATTTATATATATTTTTAAT-AAA
1 ATATATTTATAT-TA--TTTAATAAAA
* *
10532276 ATATATTTATTTTAATTAATTTTAAATA
1 ATATATTTATATTATTTAA---TAAA-A
10532304 ATA-ATTTATATTATTTAATAAAA
1 ATATATTTATATTATTTAATAAAA
10532327 ATATATTTAT
1 ATATATTTAT
10532337 TAAATATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
23 8 0.16
24 10 0.20
25 2 0.04
26 12 0.24
27 15 0.29
28 4 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATATTTATATTATTTAATAAAA
Found at i:10532666 original size:59 final size:59
Alignment explanation
Indices: 10532603--10532718 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
10532593 TACTCGATGT
*
10532603 AATAAAATAATTTTAATAAATTTAATAATTTAAATATTTATATCATATTTATTTTATGA
1 AATAAAATAATTTTAATAAATTTAAAAATTTAAATATTTATATCATATTTATTTTATGA
* *
10532662 AATAAAATAATTTTAATAAATTTAAAAATTTAAATATTTATGTCGTATTTATTTTAT
1 AATAAAATAATTTTAATAAATTTAAAAATTTAAATATTTATATCATATTTATTTTAT
10532719 ATTAAATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (59 bp):
AATAAAATAATTTTAATAAATTTAAAAATTTAAATATTTATATCATATTTATTTTATGA
Found at i:10532855 original size:20 final size:22
Alignment explanation
Indices: 10532830--10532869 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
10532820 ATTTTAAATA
10532830 ATATTATTTT-TA-TATATTTT
1 ATATTATTTTATATTATATTTT
10532850 ATATTATTTTATATTATATT
1 ATATTATTTTATATTATATT
10532870 ACTGTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
ATATTATTTTATATTATATTTT
Found at i:10538494 original size:2 final size:2
Alignment explanation
Indices: 10538487--10538521 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10538477 AGAAGCTGAG
10538487 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
10538522 GTGAGGCGCA
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:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10540990 original size:22 final size:22
Alignment explanation
Indices: 10540958--10541003 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10540948 TTGGAGCTGA
*
10540958 ATTTGCTTTTATTTTTATTGTTT
1 ATTTGCTTTTATTTTCATT-TTT
10540981 ATTTG-TTTTATTTTCATTTTT
1 ATTTGCTTTTATTTTCATTTTT
10541002 AT
1 AT
10541004 ATACTTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 12 0.55
23 5 0.23
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (22 bp):
ATTTGCTTTTATTTTCATTTTT
Found at i:10552079 original size:35 final size:35
Alignment explanation
Indices: 10552038--10552104 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
10552028 ACGATATTTA
10552038 TGTAGGATTCTATCATT-CTTTATGAATTTTATGTT
1 TGTAGGATTCTATCATTAC-TTATGAATTTTATGTT
10552073 TGTAGGATTCTATCATTACTTATGAATTTTAT
1 TGTAGGATTCTATCATTACTTATGAATTTTAT
10552105 ACATGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.52
Consensus pattern (35 bp):
TGTAGGATTCTATCATTACTTATGAATTTTATGTT
Found at i:10553832 original size:15 final size:16
Alignment explanation
Indices: 10553806--10553835 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10553796 AAATTAATTG
10553806 TAAATGTTTTATATTA
1 TAAATGTTTTATATTA
10553822 TAAAT-TTTTATATT
1 TAAATGTTTTATATT
10553836 TTTAAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TAAATGTTTTATATTA
Found at i:10558351 original size:17 final size:18
Alignment explanation
Indices: 10558318--10558351 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10558308 ATTTAAATAG
*
10558318 CGGTCGCGGTCACGTTTT
1 CGGTCGCGGTAACGTTTT
10558336 CGGTCGC-GTAACGTTT
1 CGGTCGCGGTAACGTTT
10558352 GTCGTGTTTT
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:0.09, C:0.26, G:0.32, T:0.32
Consensus pattern (18 bp):
CGGTCGCGGTAACGTTTT
Found at i:10558870 original size:18 final size:18
Alignment explanation
Indices: 10558847--10558971 Score: 87
Period size: 18 Copynumber: 6.9 Consensus size: 18
10558837 CTTTGTTCTT
*
10558847 GATATATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* *
10558865 GATATATTTGA---GGAT
1 GATACATTTGAGGTGGAG
*
10558880 GATACATTTGTGGTGGAG
1 GATACATTTGAGGTGGAG
* * * *
10558898 GGTACATTTGTGGT-AACT
1 GATACATTTGAGGTGGA-G
*
10558916 GATACATTTGAGATGGAG
1 GATACATTTGAGGTGGAG
* *
10558934 GATATATTTGAGGAGGTAGAG
1 GATACATTT---GAGGTGGAG
10558955 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
10558972 TAATAACCAT
Statistics
Matches: 82, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
15 12 0.15
17 1 0.01
18 53 0.65
19 1 0.01
21 15 0.18
ACGTcount: A:0.29, C:0.04, G:0.34, T:0.33
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:10558933 original size:36 final size:33
Alignment explanation
Indices: 10558846--10558947 Score: 123
Period size: 33 Copynumber: 3.0 Consensus size: 33
10558836 CCTTTGTTCT
*
10558846 TGATATATTTGAGGTGGAGGATATATTTGAGGA
1 TGATACATTTGAGGTGGAGGATATATTTGAGGA
* * * *
10558879 TGATACATTTGTGGTGGAGGGTACATTTGTGGTAA
1 TGATACATTTGAGGTGGAGGATATATTTGAGG--A
*
10558914 CTGATACATTTGAGATGGAGGATATATTTGAGGA
1 -TGATACATTTGAGGTGGAGGATATATTTGAGGA
10558948 GGTAGAGGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
33 27 0.48
34 1 0.02
35 1 0.02
36 27 0.48
ACGTcount: A:0.28, C:0.04, G:0.32, T:0.35
Consensus pattern (33 bp):
TGATACATTTGAGGTGGAGGATATATTTGAGGA
Found at i:10559326 original size:6 final size:6
Alignment explanation
Indices: 10559315--10559351 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
10559305 TCAAAATTCG
* *
10559315 CACCAT CACCAT CACCAT CTCCAT CACCAT CATCAT C
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT C
10559352 TGGACTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.30, C:0.49, G:0.00, T:0.22
Consensus pattern (6 bp):
CACCAT
Found at i:10559338 original size:18 final size:18
Alignment explanation
Indices: 10559317--10559352 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10559307 AAAATTCGCA
10559317 CCATCACCATCACCATCT
1 CCATCACCATCACCATCT
*
10559335 CCATCACCATCATCATCT
1 CCATCACCATCACCATCT
10559353 GGACTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (18 bp):
CCATCACCATCACCATCT
Found at i:10562814 original size:26 final size:26
Alignment explanation
Indices: 10562765--10562813 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
10562755 TTTCAAAAAT
*
10562765 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
10562791 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
10562814 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:10563061 original size:19 final size:20
Alignment explanation
Indices: 10563037--10563074 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10563027 AACAACAAAA
*
10563037 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
10563056 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
10563075 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:10563397 original size:38 final size:40
Alignment explanation
Indices: 10563310--10563402 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 40
10563300 CCACCCCCAT
* *
10563310 CAATCCCTCTCCACCTTCCCCCCCAACATCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCCAACACCCCACCACACC
10563350 CAATCCCTCCCCACCTT-CCCCCCAACACCCCACCACACC
1 CAATCCCTCCCCACCTTCCCCCCCAACACCCCACCACACC
10563389 CAAT-CCTCCCCACC
1 CAATCCCTCCCCACC
10563403 CCATCCAATC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
38 10 0.20
39 25 0.49
40 16 0.31
ACGTcount: A:0.23, C:0.65, G:0.00, T:0.13
Consensus pattern (40 bp):
CAATCCCTCCCCACCTTCCCCCCCAACACCCCACCACACC
Found at i:10563399 original size:19 final size:19
Alignment explanation
Indices: 10563339--10563417 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
10563329 CCCCCAACAT
10563339 CCCACCACACCCAATCCCTC
1 CCCACCACACCCAAT-CCTC
* * *
10563359 CCCACCTTCCCCCCAA--CAC
1 CCCACC--ACACCCAATCCTC
10563378 CCCACCACACCCAATCCTC
1 CCCACCACACCCAATCCTC
* *
10563397 CCCACCCCATCCAATCTCTC
1 CCCACCACACCCAATC-CTC
10563417 C
1 C
10563418 ACGTGCCTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
17 6 0.13
19 24 0.52
20 10 0.22
22 6 0.13
ACGTcount: A:0.23, C:0.65, G:0.00, T:0.13
Consensus pattern (19 bp):
CCCACCACACCCAATCCTC
Found at i:10565038 original size:21 final size:21
Alignment explanation
Indices: 10564994--10565039 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
10564984 GTCGGATTGA
*
10564994 TAAAAATTTTATAATTTTATT
1 TAAAAATTTTATAATTTTAGT
10565015 TAAAAACTTTTATAATTTT-GT
1 TAAAAA-TTTTATAATTTTAGT
10565036 TAAA
1 TAAA
10565040 TTTTTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAAAATTTTATAATTTTAGT
Found at i:10565076 original size:35 final size:34
Alignment explanation
Indices: 10565008--10565077 Score: 81
Period size: 34 Copynumber: 2.0 Consensus size: 34
10564998 AATTTTATAA
*
10565008 TTTTATTTAAAAACTTTTATAATTTTGTTAAATT
1 TTTTATTTAAAAACTTTTATAATTTTGTAAAATT
*
10565042 TTTTATTCT-AAAA-TTTTCATCATTTTGTCAAAATT
1 TTTTATT-TAAAAACTTTT-ATAATTTTGT-AAAATT
10565077 T
1 T
10565078 AGAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 4 0.13
34 20 0.65
35 7 0.23
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (34 bp):
TTTTATTTAAAAACTTTTATAATTTTGTAAAATT
Found at i:10565553 original size:22 final size:22
Alignment explanation
Indices: 10565528--10565570 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10565518 TTCCCAAGTT
*
10565528 TAATTTTTGTT-TTATTATTTTG
1 TAATCTTTGTTATT-TTATTTTG
10565550 TAATCTTTGTTATTTTATTTT
1 TAATCTTTGTTATTTTATTTT
10565571 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (22 bp):
TAATCTTTGTTATTTTATTTTG
Found at i:10565973 original size:16 final size:17
Alignment explanation
Indices: 10565937--10565980 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
10565927 TGTAAATAAA
10565937 TTTTA-ATT-TAAATAT
1 TTTTATATTATAAATAT
*
10565952 TTTTATTTTATAAATA-
1 TTTTATATTATAAATAT
10565968 TTTTATATTATAA
1 TTTTATATTATAA
10565981 CAAGTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.20
16 14 0.56
17 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTATATTATAAATAT
Found at i:10566081 original size:16 final size:14
Alignment explanation
Indices: 10566036--10566074 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10566026 ACATGAATAA
10566036 AAATTAAAACAAAAT
1 AAATTAAAA-AAAAT
10566051 --ATTAAAAAAAAT
1 AAATTAAAAAAAAT
10566063 AAATTAAAAAAA
1 AAATTAAAAAAA
10566075 TCATAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.23
13 7 0.32
14 10 0.45
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATTAAAAAAAAT
Found at i:10566884 original size:23 final size:22
Alignment explanation
Indices: 10566839--10566889 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
10566829 ATTTATAGAG
*
10566839 TTTTCTGAGATTCAAATCTCAAA
1 TTTT-TGAGATTCAAATCCCAAA
* *
10566862 TATTTTGAGATTGAGATCCCAAA
1 T-TTTTGAGATTCAAATCCCAAA
10566885 TTTTT
1 TTTTT
10566890 AAAATTATGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 17 0.71
24 3 0.12
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (22 bp):
TTTTTGAGATTCAAATCCCAAA
Found at i:10572944 original size:16 final size:18
Alignment explanation
Indices: 10572915--10572949 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
10572905 CTCCAACATC
10572915 TAGACAAAATTATTTTTT
1 TAGACAAAATTATTTTTT
10572933 TAGA-AAAA-TATTTTTT
1 TAGACAAAATTATTTTTT
10572949 T
1 T
10572950 TTATTCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 4 0.24
18 4 0.24
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (18 bp):
TAGACAAAATTATTTTTT
Found at i:10574253 original size:15 final size:15
Alignment explanation
Indices: 10574212--10574258 Score: 67
Period size: 15 Copynumber: 3.0 Consensus size: 15
10574202 CTTATTTTTT
10574212 TTATTTTTAATAATTA
1 TTATTTTTAA-AATTA
10574228 TATATTTTTAAAATTA
1 T-TATTTTTAAAATTA
*
10574244 TTATTATTAAAATTA
1 TTATTTTTAAAATTA
10574259 ATAGTAGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 13 0.45
16 7 0.24
17 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTTTTAAAATTA
Found at i:10574512 original size:22 final size:22
Alignment explanation
Indices: 10574484--10574545 Score: 99
Period size: 22 Copynumber: 2.8 Consensus size: 22
10574474 ATTTATGCCC
10574484 GGAGGTCTT-AGAAATCATGTCT
1 GGAGGTCTTAAG-AATCATGTCT
10574506 GGAGGTCTTAAGAATCATGTCT
1 GGAGGTCTTAAGAATCATGTCT
10574528 GGAGGTCTTACAGAATCA
1 GGAGGTCTTA-AGAATCA
10574546 ATTGGGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
22 29 0.76
23 9 0.24
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (22 bp):
GGAGGTCTTAAGAATCATGTCT
Found at i:10574633 original size:22 final size:22
Alignment explanation
Indices: 10574605--10574647 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10574595 TCGCGAATCA
*
10574605 AAATTATGCTCGGAGGTCTTAG
1 AAATTATGCTCGAAGGTCTTAG
*
10574627 AAATTATGCTTGAAGGTCTTA
1 AAATTATGCTCGAAGGTCTTA
10574648 TAGAATCAAC
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:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (22 bp):
AAATTATGCTCGAAGGTCTTAG
Done.