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 126 of 127
Found at i:25611817 original size:35 final size:37
Alignment explanation
Indices: 25611768--25611845 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 37
25611758 TTTTATTGAT
25611768 TTAATATAAAAATAAAATTTATTA-TTACATAATAAA
1 TTAATATAAAAATAAAATTTATTATTTACATAATAAA
* * *
25611804 TTAAT-TATAAATAAATTTTATTATTTATATAATAAA
1 TTAATATAAAAATAAAATTTATTATTTACATAATAAA
*
25611840 CTAATA
1 TTAATA
25611846 AATAAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 16 0.44
36 20 0.56
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (37 bp):
TTAATATAAAAATAAAATTTATTATTTACATAATAAA
Found at i:25611852 original size:33 final size:35
Alignment explanation
Indices: 25611777--25611872 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 35
25611767 TTTAATATAA
* * *
25611777 AAATAAAATTTATTA-TTACATAATAAATTAATTAT
1 AAATAAATTTTATTATTTATATAATAAACTAA-TAT
25611812 AAATAAATTTTATTATTTATATAATAAACT-A-AT
1 AAATAAATTTTATTATTTATATAATAAACTAATAT
*
25611845 AAATAAATTTTAATAATTTAT-TAATAAA
1 AAATAAATTTT-ATTATTTATATAATAAA
25611873 ATATTATTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
33 20 0.36
34 8 0.15
35 15 0.27
36 12 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (35 bp):
AAATAAATTTTATTATTTATATAATAAACTAATAT
Found at i:25611881 original size:52 final size:53
Alignment explanation
Indices: 25611822--25611931 Score: 136
Period size: 52 Copynumber: 2.1 Consensus size: 53
25611812 AAATAAATTT
25611822 TATTATTT-ATATAATAAACTAA-TAAATAAATTTTAATAATTTATTAATA-AAA
1 TATTATTTAATATAA-AAA-TAATTAAATAAATTTTAATAATTTATTAATATAAA
* * **
25611874 TATTATTTAATTTAAAAATAATTTAATATTTTTTAATAATTTATTAATATTAAA
1 TATTATTTAATATAAAAATAATTAAATAAATTTTAATAATTTATTAATA-TAAA
25611928 TATT
1 TATT
25611932 TTAAAAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
51 3 0.06
52 35 0.70
53 5 0.10
54 7 0.14
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (53 bp):
TATTATTTAATATAAAAATAATTAAATAAATTTTAATAATTTATTAATATAAA
Found at i:25611929 original size:18 final size:18
Alignment explanation
Indices: 25611856--25611934 Score: 51
Period size: 18 Copynumber: 4.5 Consensus size: 18
25611846 AATAAATTTT
25611856 AATAATTTATTAATA--A
1 AATAATTTATTAATATTA
25611872 AAT-A-TTATTTAAT-TTAAA
1 AATAATTTA-TTAATATT--A
* * * *
25611890 AATAATTTAATATTTTTT
1 AATAATTTATTAATATTA
25611908 AATAATTTATTAATATTA
1 AATAATTTATTAATATTA
*
25611926 AATATTTTA
1 AATAATTTA
25611935 AAAATTTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
14 3 0.06
15 6 0.13
16 3 0.06
18 26 0.55
19 4 0.09
20 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AATAATTTATTAATATTA
Found at i:25611933 original size:26 final size:26
Alignment explanation
Indices: 25611851--25611951 Score: 84
Period size: 27 Copynumber: 3.8 Consensus size: 26
25611841 TAATAAATAA
25611851 ATTTTAATAATTTATTAATA--AAAT
1 ATTTTAATAATTTATTAATATTAAAT
**
25611875 ATTATT--TAATTTAAAAATAATTTAATAT
1 ATT-TTAATAATTTATTAAT-A-TTAA-AT
*
25611903 TTTTTAATAATTTATTAATATTAAAT
1 ATTTTAATAATTTATTAATATTAAAT
*
25611929 ATTTTAAAAATTTTATTACATAT
1 ATTTTAATAA-TTTATTA-ATAT
25611952 AATTTTTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
23 10 0.17
24 4 0.07
25 2 0.03
26 10 0.17
27 15 0.25
28 9 0.15
29 10 0.17
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTTAATAATTTATTAATATTAAAT
Found at i:25614842 original size:24 final size:24
Alignment explanation
Indices: 25614796--25614842 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25614786 CATGCTGAGG
*
25614796 CTGCTCCTCTAGCTTGGTTGGAAA
1 CTGCTCCTCTAGCTTGGTAGGAAA
*
25614820 CTGCTCTTCTA-CTTCGGTAGGAA
1 CTGCTCCTCTAGCTT-GGTAGGAA
25614843 GATCCTTCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (24 bp):
CTGCTCCTCTAGCTTGGTAGGAAA
Found at i:25617966 original size:131 final size:132
Alignment explanation
Indices: 25617801--25618377 Score: 604
Period size: 131 Copynumber: 4.2 Consensus size: 132
25617791 TTTTCAAAAT
* *
25617801 AAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAGTTTCTAAAATAAAAAAATTTCAAAAACATT
1 AAAGTTGAAAGTATTAATTTT-TTTAAAAATAAAGTTTCTAAAAT-AAAAATTTTCAAAAACATT
* * *
25617866 TTG-GGGAGGAAGTTGAAAGTATCAATTTCTCT-GAAAATAAAAAAGTTT-AAAAAATATTTTTA
64 TTGAGGGAGAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAAAAAGTTTCAAAAAATATTTTTA
25617928 AGAA
129 AGAA
*
25617932 AAAGTTAAAAGTATTAATTTTTTTAAAAAATAAAGTTTCTAAAAT-AAAATTTTCCAAAAACATT
1 AAAGTTGAAAGTATTAATTTTTTT-AAAAATAAAGTTTCTAAAATAAAAATTTT-CAAAAACATT
* *
25617996 TTGCGAGGG-G-AAGTTGAAAGTATCAA-TTTTCTCAAAAATAAAAAAG-TTAAAAAAATATTTT
64 TT--GAGGGAGAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAAAAAGTTTCAAAAAATATTTT
*
25618057 TAGGAA
127 TAAGAA
*
25618063 AAAATTGAAAGTATTAATTTTTCTTAAAAATAAAGTTTCTAAAATAAAAATTTTCAAAAACATTT
1 AAAGTTGAAAGTATTAATTTTT-TTAAAAATAAAGTTTCTAAAATAAAAATTTTCAAAAACATTT
*
25618128 TGGATGGGAGAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTTTAAATAAAAATTTCA
65 T-GA-GGGAGAAAGTTGAAAGTATCAATTTTTC-T---AA-AAAA-----T-AA-AAAAGTTTCA
*
25618193 AAAAATATTTTTGAGAA
116 AAAAATATTTTTAAGAA
* * *
25618210 AAAGTTGAAAGTATTAATTTTCTTTAAAAATAAAATTTCTAAAATATAAAAATTTTTAAAAGATA
1 AAAGTTGAAAGTATTAATTTT-TTTAAAAATAAAGTTTCT-AAA-ATAAAAATTTTCAAAA-ACA
* * * * *
25618275 TTTTTAAGGA-AAAGTTGAAAGTACCAATTTTTCTCAAAAAT-AACAA-TTATCAAGAAAA-ATA
62 TTTTGAGGGAGAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAAAAAGTT-TCAA-AAAATAT-
*
25618336 GTTTAAGAA
124 TTTTAAGAA
*
25618345 AAAGTTGAAAGTATCAATTTTTCTT-AAAATAAA
1 AAAGTTGAAAGTATTAATTTTT-TTAAAAATAAA
25618378 AACTCCAAAT
Statistics
Matches: 386, Mismatches: 26, Indels: 65
0.81 0.05 0.14
Matches are distributed among these distances:
129 7 0.02
130 24 0.06
131 139 0.36
132 13 0.03
133 21 0.05
134 23 0.06
135 35 0.09
137 1 0.00
138 1 0.00
139 4 0.01
142 4 0.01
143 1 0.00
144 1 0.00
145 2 0.01
146 5 0.01
147 76 0.20
148 7 0.02
149 16 0.04
150 6 0.02
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (132 bp):
AAAGTTGAAAGTATTAATTTTTTTAAAAATAAAGTTTCTAAAATAAAAATTTTCAAAAACATTTT
GAGGGAGAAAGTTGAAAGTATCAATTTTTCTAAAAAATAAAAAAGTTTCAAAAAATATTTTTAAG
AA
Found at i:25618102 original size:75 final size:74
Alignment explanation
Indices: 25618023--25618322 Score: 308
Period size: 75 Copynumber: 4.0 Consensus size: 74
25618013 AAGTATCAAT
* * *
25618023 TTTCTCAAAAATAAAAAAGTTAAAAAAATATTTTTAGGAAAAAATTGAAAGTATTAATTTTTCTT
1 TTTCT-AAAAATAAAAAATTTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTT
*
25618088 AAAAATAAAG
65 AAAAATAAAA
* * * * *
25618098 TTTCT-AAAATAAAAATTTTCAAAAACAT-TTTGGATGGGAGAAAGTTGAAAGTATCAATTTTTC
1 TTTCTAAAAATAAAAAATTT-AAAAAAATATTT--TTAGGAAAAAGTTGAAAGTATCAATTTTTC
25618161 TTAAAAATAAAA
63 TTAAAAATAAAA
** * *
25618173 TTT-TTTAAAT-AAAAATTTCAAAAAATATTTTT-GAGAAAAAGTTGAAAGTATTAA-TTTTCTT
1 TTTCTAAAAATAAAAAATTTAAAAAAATATTTTTAG-GAAAAAGTTGAAAGTATCAATTTTTC-T
25618234 TAAAAATAAAA
64 TAAAAATAAAA
* * * *
25618245 TTTCTAAAATATAAAAATTTTTAAAAGATATTTTTAAGG-AAAAGTTGAAAGTACCAATTTTTCT
1 TTTCTAAAA-ATAAAAAATTTAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCT
*
25618309 CAAAAATAACAA
64 TAAAAATAA-AA
25618321 TT
1 TT
25618323 ATCAAGAAAA
Statistics
Matches: 187, Mismatches: 24, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
71 6 0.03
72 34 0.18
73 24 0.13
74 20 0.11
75 92 0.49
76 10 0.05
77 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (74 bp):
TTTCTAAAAATAAAAAATTTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTA
AAAATAAAA
Found at i:25618196 original size:147 final size:149
Alignment explanation
Indices: 25618031--25618322 Score: 400
Period size: 147 Copynumber: 2.0 Consensus size: 149
25618021 ATTTTCTCAA
25618031 AAATAAAAAAGTTAAAAAAATATTTTT-AGGAAAAAATTGAAAGTATTAATTTT-TCTTAAAAAT
1 AAATAAAAAAGTTAAAAAAATATTTTTGA-GAAAAAATTGAAAGTATTAATTTTCT-TTAAAAAT
* * *
25618094 AAAGTTTCT-AAA-ATAAAAATTTTCAAAA-ACATTTTGGATGGGAGAAAGTTGAAAGTATCAAT
64 AAAATTTCTAAAATATAAAAATTTTCAAAAGACATTTT-GA-AGGA-AAAGTTGAAAGTACCAAT
*
25618156 TTTTCTTAAAAATAA-AATTTTTT
126 TTTTCTCAAAAATAACAATTTTTT
* * *
25618179 AAAT-AAAAATTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTCTTTAAAAATAA
1 AAATAAAAAAGTTAAAAAAATATTTTTGAGAAAAAATTGAAAGTATTAATTTTCTTTAAAAATAA
* * *
25618243 AATTTCTAAAATATAAAAATTTTTAAAAGATATTTTTAAGGAAAAGTTGAAAGTACCAATTTTTC
66 AATTTCTAAAATATAAAAATTTTCAAAAGACATTTTGAAGGAAAAGTTGAAAGTACCAATTTTTC
25618308 TCAAAAATAACAATT
131 TCAAAAATAACAATT
25618323 ATCAAGAAAA
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
147 90 0.70
148 16 0.12
149 16 0.12
150 6 0.05
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (149 bp):
AAATAAAAAAGTTAAAAAAATATTTTTGAGAAAAAATTGAAAGTATTAATTTTCTTTAAAAATAA
AATTTCTAAAATATAAAAATTTTCAAAAGACATTTTGAAGGAAAAGTTGAAAGTACCAATTTTTC
TCAAAAATAACAATTTTTT
Found at i:25628895 original size:17 final size:16
Alignment explanation
Indices: 25628862--25628905 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
25628852 TACTATGCTT
* *
25628862 AAAAAAAATGAATGAA
1 AAAAAAAAAGAAGGAA
25628878 AAAAAATAAAGAAGGAA
1 AAAAAA-AAAGAAGGAA
25628895 AAATAAAAAAG
1 AAA-AAAAAAG
25628906 GAAGACTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 15 0.62
18 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (16 bp):
AAAAAAAAAGAAGGAA
Found at i:25628896 original size:14 final size:14
Alignment explanation
Indices: 25628879--25628908 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25628869 ATGAATGAAA
*
25628879 AAAAATAAAGAAGG
1 AAAAATAAAAAAGG
25628893 AAAAATAAAAAAGG
1 AAAAATAAAAAAGG
25628907 AA
1 AA
25628909 GACTCAAGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAAATAAAAAAGG
Found at i:25629649 original size:16 final size:16
Alignment explanation
Indices: 25629624--25629655 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25629614 GCATAGCATG
25629624 CATTGAATTTCACATA
1 CATTGAATTTCACATA
*
25629640 CATTGCATTTCACATA
1 CATTGAATTTCACATA
25629656 GCATATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (16 bp):
CATTGAATTTCACATA
Found at i:25629980 original size:44 final size:44
Alignment explanation
Indices: 25629920--25630135 Score: 199
Period size: 43 Copynumber: 5.0 Consensus size: 44
25629910 ATGAGCATTT
*
25629920 ATTTATTTTTTTAAAAGTCGTGGTTACCTCTATTTAGAGGAGCA
1 ATTTATTTTTTTAAAAGTCGTGGTTACCTCTGTTTAGAGGAGCA
* * * *
25629964 ATTTATTTTTTGAAAAGTCGTGATTGCCTCTGTTTAGAGTAGCA
1 ATTTATTTTTTTAAAAGTCGTGGTTACCTCTGTTTAGAGGAGCA
* * ** * * *
25630008 AATTATTTTTTTCAAAGTTATGG-TACCTCTGTTTAAATGAGTA
1 ATTTATTTTTTTAAAAGTCGTGGTTACCTCTGTTTAGAGGAGCA
* * * * *
25630051 ATTTATTTTTTTAAAAATTGT-GATGCCACTGTTTAGAGGAGCA
1 ATTTATTTTTTTAAAAGTCGTGGTTACCTCTGTTTAGAGGAGCA
* * *
25630094 ATTTAATTCTTTAAAAGT--T-GTTGAGCCTCTGATTAGAGGAGC
1 ATTTATTTTTTTAAAAGTCGTGGTT-A-CCTCTGTTTAGAGGAGC
25630136 TTTGTTTATT
Statistics
Matches: 137, Mismatches: 32, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 77 0.56
44 56 0.41
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.43
Consensus pattern (44 bp):
ATTTATTTTTTTAAAAGTCGTGGTTACCTCTGTTTAGAGGAGCA
Found at i:25630056 original size:87 final size:87
Alignment explanation
Indices: 25629922--25630112 Score: 231
Period size: 87 Copynumber: 2.2 Consensus size: 87
25629912 GAGCATTTAT
** * *
25629922 TTATTTTTTTAAAAGTCGTGGTTACCTCTATTTAGAGGAGCAATTTATTTTTTGAAAAGTCGTGA
1 TTATTTTTTTAAAAGTTATGGTTACCTCTATTTAAAGGAGCAATTTATTTTTTGAAAAATCGTGA
* *
25629987 TTGCCTCTGTTTAGAGTAGCAAA
66 -TGCCACTGTTTAGAGGAGCAAA
* * * * * *
25630010 TTATTTTTTTCAAAGTTATGG-TACCTCTGTTTAAATGAGTAATTTATTTTTTTAAAAATTGTGA
1 TTATTTTTTTAAAAGTTATGGTTACCTCTATTTAAAGGAGCAATTTATTTTTTGAAAAATCGTGA
*
25630074 TGCCACTGTTTAGAGGAGCAAT
66 TGCCACTGTTTAGAGGAGCAAA
* *
25630096 TTAATTCTTTAAAAGTT
1 TTATTTTTTTAAAAGTT
25630113 GTTGAGCCTC
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
86 33 0.38
87 36 0.41
88 18 0.21
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (87 bp):
TTATTTTTTTAAAAGTTATGGTTACCTCTATTTAAAGGAGCAATTTATTTTTTGAAAAATCGTGA
TGCCACTGTTTAGAGGAGCAAA
Found at i:25630162 original size:47 final size:46
Alignment explanation
Indices: 25630052--25630284 Score: 239
Period size: 43 Copynumber: 5.2 Consensus size: 46
25630042 AAATGAGTAA
* * * **
25630052 TTTATTTTTTT-AAAAATTG-TGATGCCACTGTTTAGAGGAGC--AA
1 TTTATTTTTTTCAAAAGTCGTTGA-GCCTCTGTTTAGAGGAGCTTTG
* * * *
25630095 TTTAATTCTTT-AAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTG
1 TTTATTTTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* *
25630140 TTTATTTTTTTTCAAAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTTG
1 TTTA-TTTTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * *
25630187 TTTATGTTTTTC-AAAGTCGTTAAGCCTCTGCTTAGAGGAGCTTTG
1 TTTATTTTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * *
25630232 TTTA--TTTTTCAAAAGTCATTGAGCTTCTGTTTATAGGAGCTTTG
1 TTTATTTTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
25630276 TTTATTTTT
1 TTTATTTTT
25630285 CAAGAATTGT
Statistics
Matches: 161, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
43 38 0.24
44 35 0.22
45 37 0.23
46 15 0.09
47 36 0.22
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.46
Consensus pattern (46 bp):
TTTATTTTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
Found at i:25630275 original size:89 final size:89
Alignment explanation
Indices: 25630107--25630284 Score: 259
Period size: 89 Copynumber: 2.0 Consensus size: 89
25630097 TAATTCTTTA
* * **
25630107 AAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTTTTCAAAAGTTGTTGAGCCTCTG
1 AAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTTTA--TTTTTTCAAAAGTCATTGAGCCTCTG
25630172 TTTAAAGGAGCTTTGTTTATGTTTTTC
64 TTTAAAGGAGCTTTGTTTAT-TTTTTC
* *
25630199 AAAGTCGTTAAGCCTCTGCTTAGAGGAGCTTTGTTTA-TTTTTCAAAAGTCATTGAGCTTCTGTT
1 AAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTTCAAAAGTCATTGAGCCTCTGTT
*
25630263 TATAGGAGCTTTGTTTATTTTT
66 TAAAGGAGCTTTGTTTATTTTT
25630285 CAAGAATTGT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
88 4 0.05
89 41 0.52
92 34 0.43
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (89 bp):
AAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTTTATTTTTTCAAAAGTCATTGAGCCTCTGTT
TAAAGGAGCTTTGTTTATTTTTTC
Found at i:25630287 original size:44 final size:45
Alignment explanation
Indices: 25630052--25630284 Score: 242
Period size: 44 Copynumber: 5.2 Consensus size: 45
25630042 AAATGAGTAA
* * * * **
25630052 TTTATTTTTTTAAAAATTG-TGATGCCACTGTTTAGAGGAGCAAT-
1 TTTATTTTTTCAAAAGTCGTTGA-GCCTCTGTTTAGAGGAGCTTTG
* * * *
25630096 TTAATTCTTT-AAAAGTTGTTGAGCCTCTGATTAGAGGAGCTTTG
1 TTTATTTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* *
25630140 TTTATTTTTTTTCAAAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTTG
1 TTTA--TTTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* *
25630187 TTTATGTTTTTC-AAAGTCGTTAAGCCTCTGCTTAGAGGAGCTTTG
1 TTTAT-TTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
* * *
25630232 TTTA-TTTTTCAAAAGTCATTGAGCTTCTGTTTATAGGAGCTTTG
1 TTTATTTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
25630276 TTTATTTTT
1 TTTATTTTT
25630285 CAAGAATTGT
Statistics
Matches: 161, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
43 30 0.19
44 46 0.29
45 38 0.24
46 11 0.07
47 36 0.22
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.46
Consensus pattern (45 bp):
TTTATTTTTTCAAAAGTCGTTGAGCCTCTGTTTAGAGGAGCTTTG
Found at i:25630329 original size:89 final size:88
Alignment explanation
Indices: 25630147--25630311 Score: 208
Period size: 89 Copynumber: 1.9 Consensus size: 88
25630137 TTGTTTATTT
** * *
25630147 TTTTTCAAAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTTGTTTATGTTTTTCAAAGTCGTTAAGC
1 TTTTTCAAAAGTCATTGAGCCTCTGTTTAAAGGAGCTTTGTTTA-GTTTTTCAAAATCGTGAAGC
* * *
25630212 CTCTGCTTAGAGGAGCTTTGTTTA
65 CTCTCCTTAAAGGAGCTTTGTGTA
* * *
25630236 TTTTTCAAAAGTCATTGAGCTTCTGTTTATAGGAGCTTTGTTTA-TTTTTCAAGAATTGTGAA-C
1 TTTTTCAAAAGTCATTGAGCCTCTGTTTAAAGGAGCTTTGTTTAGTTTTTCAA-AATCGTGAAGC
25630299 CTCTCCTTAAAGG
65 CTCTCCTTAAAGG
25630312 TGTTTCGAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 20 0.30
88 6 0.09
89 40 0.61
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (88 bp):
TTTTTCAAAAGTCATTGAGCCTCTGTTTAAAGGAGCTTTGTTTAGTTTTTCAAAATCGTGAAGCC
TCTCCTTAAAGGAGCTTTGTGTA
Found at i:25630811 original size:133 final size:133
Alignment explanation
Indices: 25630660--25630910 Score: 493
Period size: 133 Copynumber: 1.9 Consensus size: 133
25630650 ATAAATAAAT
25630660 AAATAAAATTTTCATAAAAACACATTTTGAGAAAAAGTTGGAAGTACGAATTTTACTCAAAAATA
1 AAATAAAATTTTCATAAAAACACATTTTGAGAAAAAGTTGGAAGTACGAATTTTACTCAAAAATA
25630725 AAAATTATCAAGAAAAATATTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTAAAGTAAAATTT
66 AAAATTATCAAGAAAAATATTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTAAAGTAAAATTT
25630790 TTA
131 TTA
*
25630793 AAATAAAATTTTCATAAAAACACATTTTGAGAAAAAGTTGGAAGTACGAATTTTACTCAAATATA
1 AAATAAAATTTTCATAAAAACACATTTTGAGAAAAAGTTGGAAGTACGAATTTTACTCAAAAATA
25630858 AAAATTATCAAGAAAAATATTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTT
66 AAAATTATCAAGAAAAATATTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTT
25630911 GTACAAAAGC
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 117 1.00
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (133 bp):
AAATAAAATTTTCATAAAAACACATTTTGAGAAAAAGTTGGAAGTACGAATTTTACTCAAAAATA
AAAATTATCAAGAAAAATATTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTAAAGTAAAATTT
TTA
Found at i:25632157 original size:2 final size:2
Alignment explanation
Indices: 25632144--25632180 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
25632134 AAGATAAAAT
*
25632144 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25632181 GGTCCCTGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:25635774 original size:2 final size:2
Alignment explanation
Indices: 25635767--25635791 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25635757 AAATAAATTC
25635767 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
25635792 GTTAAGCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25636874 original size:2 final size:2
Alignment explanation
Indices: 25636867--25636910 Score: 61
Period size: 2 Copynumber: 21.0 Consensus size: 2
25636857 CTAATAAAGC
*
25636867 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT CAT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT -AT AT AT AT AT
25636911 TGTCTCCTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
2 34 0.89
3 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25641117 original size:26 final size:26
Alignment explanation
Indices: 25641088--25641150 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
25641078 CCCACCACAT
*
25641088 GATTTAAATTATAAGTAAAATTACGA
1 GATTCAAATTATAAGTAAAATTACGA
25641114 GATTCAAATTATAAGTAAAATTACGA
1 GATTCAAATTATAAGTAAAATTACGA
* *
25641140 GCTTGAAATTA
1 GATTCAAATTA
25641151 ATTTAACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (26 bp):
GATTCAAATTATAAGTAAAATTACGA
Found at i:25644840 original size:124 final size:124
Alignment explanation
Indices: 25644620--25644969 Score: 691
Period size: 124 Copynumber: 2.8 Consensus size: 124
25644610 CACCAGCATC
25644620 ATGTATCTCAGACTGTATCATACCTATAATTTAAAGTAAAAGGGCAAGTCTCTTTTCTTATAAAT
1 ATGTATCTCAGACTGTATCATACCTATAATTTAAAGTAAAAGGGCAAGTCTCTTTTCTTATAAAT
25644685 TAGTACAAATTGTACAATTCAATGATGCAGCCCACAGTTCAATGATGTACAATTCAATG
66 TAGTACAAATTGTACAATTCAATGATGCAGCCCACAGTTCAATGATGTACAATTCAATG
25644744 ATGTATCTCAGACTGTATCATACCTATAATTTAAAGTAAAAGGGCAAGTCTCTTTTCTTATAAAT
1 ATGTATCTCAGACTGTATCATACCTATAATTTAAAGTAAAAGGGCAAGTCTCTTTTCTTATAAAT
*
25644809 TAGTACAAATTGTACAATTCAATGATGCAGCCCACAATTCAATGATGTACAATTCAATG
66 TAGTACAAATTGTACAATTCAATGATGCAGCCCACAGTTCAATGATGTACAATTCAATG
25644868 ATGTATCTCAGACTGTATCATACCTATAATTTAAAGTAAAAGGGCAAGTCTCTTTTCTTATAAAT
1 ATGTATCTCAGACTGTATCATACCTATAATTTAAAGTAAAAGGGCAAGTCTCTTTTCTTATAAAT
25644933 TAGTACAAATTGTACAATTCAATGATGCAGCCCACAG
66 TAGTACAAATTGTACAATTCAATGATGCAGCCCACAG
25644970 AATAGAAATA
Statistics
Matches: 224, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 224 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (124 bp):
ATGTATCTCAGACTGTATCATACCTATAATTTAAAGTAAAAGGGCAAGTCTCTTTTCTTATAAAT
TAGTACAAATTGTACAATTCAATGATGCAGCCCACAGTTCAATGATGTACAATTCAATG
Found at i:25644860 original size:15 final size:15
Alignment explanation
Indices: 25644842--25644872 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25644832 GATGCAGCCC
25644842 ACAATTCAATGATGT
1 ACAATTCAATGATGT
25644857 ACAATTCAATGATGT
1 ACAATTCAATGATGT
25644872 A
1 A
25644873 TCTCAGACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (15 bp):
ACAATTCAATGATGT
Found at i:25652142 original size:2 final size:2
Alignment explanation
Indices: 25652135--25652166 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25652125 CAATTCTTTC
25652135 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25652167 AATGCTGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25652822 original size:2 final size:2
Alignment explanation
Indices: 25652815--25652843 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25652805 CATGTATACG
25652815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25652844 GGCAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25657081 original size:2 final size:2
Alignment explanation
Indices: 25657074--25657111 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
25657064 CCATTTAAGG
25657074 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25657112 ATTCTAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:25657911 original size:6 final size:6
Alignment explanation
Indices: 25657902--25657928 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
25657892 TCATCTGTCC
25657902 TCTCTT TCTCTT TCTCTT TCTCTT TCT
1 TCTCTT TCTCTT TCTCTT TCTCTT TCT
25657929 ACATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTCTT
Found at i:25658355 original size:2 final size:2
Alignment explanation
Indices: 25658336--25658400 Score: 69
Period size: 2 Copynumber: 33.0 Consensus size: 2
25658326 TATTTATACC
* *
25658336 AT AT A- AT AT AT GT CT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
25658377 AT AC AC AC AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
25658401 TCCATTTTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:25658846 original size:6 final size:6
Alignment explanation
Indices: 25658835--25658860 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25658825 TCGCTCTTCG
25658835 CCTTTC CCTTTC CCTTTC CCTTTC CC
1 CCTTTC CCTTTC CCTTTC CCTTTC CC
25658861 CATCCCCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (6 bp):
CCTTTC
Found at i:25664014 original size:6 final size:6
Alignment explanation
Indices: 25663981--25664013 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
25663971 TATTTAAAGA
25663981 AAAATC AAAATC AAAATC AAAATC AAAAT- AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
25664014 AGGAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:25664110 original size:60 final size:58
Alignment explanation
Indices: 25664044--25664228 Score: 212
Period size: 58 Copynumber: 3.1 Consensus size: 58
25664034 TCTTGTACAG
* *
25664044 GAAAAATTGATACTTTCAACTTTTCCTAAAAAAAAGCTTTTTTTGAAATTTTTTTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCTAAAAAAAA--TTTTTTTGAAATTTTATTTTTAA
* * * *
25664104 GAAAAATTGATACTTTTAACTTTTTCT--TAAAAATATTTTTGAAAATTTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCTAAAAAAAATTTTTTTG-AAATTTT-ATTTTTAA
* **
25664162 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATTATTTTTTTGAAATTTTATTTTTAGA
1 GAAAAATTGATACTTTCAACTTTTTCT-AAAAAAAATTTTTTTGAAATTTTATTTTTA-A
25664222 GGAAAAA
1 -GAAAAA
25664229 GAAAATAAAA
Statistics
Matches: 104, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
56 7 0.07
57 7 0.07
58 36 0.35
59 6 0.06
60 33 0.32
61 15 0.14
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.46
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTTCTAAAAAAAATTTTTTTGAAATTTTATTTTTAA
Found at i:25664267 original size:5 final size:5
Alignment explanation
Indices: 25664225--25664317 Score: 68
Period size: 5 Copynumber: 18.8 Consensus size: 5
25664215 TTTTAGAGGA
* * * *
25664225 AAAAG AAAAT AAAAC AAAAT AAAAGT GAAA- AGAA- AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT
* * *
25664274 -AAAT AAAAG AAAGT AAAA- AAAAT AAATAT TAAAT AAATAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAA-AT AAAA
25664318 AGAATATTAA
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
4 13 0.19
5 43 0.62
6 13 0.19
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:25664277 original size:14 final size:14
Alignment explanation
Indices: 25664260--25664317 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
25664250 TGAAAAGAAA
25664260 AAATAAAATAAAAT
1 AAATAAAATAAAAT
* *
25664274 AAATAAAAGAAAGT
1 AAATAAAATAAAAT
*
25664288 AAAAAAAATAAATATT
1 AAATAAAATAAA-A-T
25664304 AAATAAATATAAAA
1 AAATAAA-ATAAAA
25664318 AGAATATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 22 0.63
16 8 0.23
17 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:25664307 original size:11 final size:11
Alignment explanation
Indices: 25664293--25664332 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
25664283 AAAGTAAAAA
25664293 AAATAAATATT
1 AAATAAATATT
25664304 AAATAAATA-T
1 AAATAAATATT
*
25664314 AAAAAGAATATT
1 AAATA-AATATT
25664326 AAATAAA
1 AAATAAA
25664333 CCTAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 5 0.20
11 15 0.60
12 5 0.20
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
AAATAAATATT
Found at i:25664318 original size:26 final size:23
Alignment explanation
Indices: 25664225--25664301 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 23
25664215 TTTTAGAGGA
25664225 AAAAGAAAATAAAACAAAATAAAAGT
1 AAAAGAAAATAAAA-AAAAT-AAA-T
25664251 GAAAAGAAAAAATAAAATAAAATAAAT
1 -AAAAG--AAAATAAAA-AAAATAAAT
*
25664278 AAAAGAAAGTAAAAAAAATAAAT
1 AAAAGAAAATAAAAAAAATAAAT
25664301 A
1 A
25664302 TTAAATAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
23 10 0.22
24 8 0.17
26 5 0.11
27 6 0.13
28 3 0.07
29 14 0.30
ACGTcount: A:0.78, C:0.01, G:0.08, T:0.13
Consensus pattern (23 bp):
AAAAGAAAATAAAAAAAATAAAT
Found at i:25664862 original size:19 final size:19
Alignment explanation
Indices: 25664840--25664876 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25664830 TAACCGGAAT
25664840 TTTCATCGAAAAATTTAAC
1 TTTCATCGAAAAATTTAAC
*
25664859 TTTCGTCGAAAAATTTAA
1 TTTCATCGAAAAATTTAA
25664877 TCGAAATCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.38
Consensus pattern (19 bp):
TTTCATCGAAAAATTTAAC
Found at i:25665261 original size:20 final size:19
Alignment explanation
Indices: 25665236--25665317 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 19
25665226 GATAAATCAA
*
25665236 AAAAATATTATAAGATAAAT
1 AAAAATATAAT-AGATAAAT
25665256 AAAAATATAATA-AT-AAT
1 AAAAATATAATAGATAAAT
25665273 AACAGATATATAATTAGATAAAT
1 AA-A-A-ATATAA-TAGATAAAT
* *
25665296 AAAAATACAA-AAATAAAT
1 AAAAATATAATAGATAAAT
25665314 AAAA
1 AAAA
25665318 TAAATATGAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
17 5 0.09
18 14 0.26
19 2 0.04
20 21 0.40
21 3 0.06
22 3 0.06
23 5 0.09
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAAATATAATAGATAAAT
Found at i:25665341 original size:68 final size:68
Alignment explanation
Indices: 25665214--25665342 Score: 156
Period size: 68 Copynumber: 1.9 Consensus size: 68
25665204 AAAAAAATAG
* * *
25665214 ATAATTAGAAAAGATAAATCAAAAAAATATTATAAGATAAATAAAAATATAATAATAATAACAGA
1 ATAATTAGAAAAGAAAAATCAAAAAAATATAATAAAATAAATAAAAATATAATAATAATAACAGA
25665279 TAT
66 TAT
* * *
25665282 ATAATTAGATAAATAAAAAT-ACAAAAATA-AATAAAATAAATATGAAAATAT-ATATTAATAA
1 ATAATTAGA-AAAGAAAAATCAAAAAAATATAATAAAATAAATA--AAAATATAATAATAATAA
25665343 ATAGTAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
67 11 0.21
68 26 0.50
69 15 0.29
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (68 bp):
ATAATTAGAAAAGAAAAATCAAAAAAATATAATAAAATAAATAAAAATATAATAATAATAACAGA
TAT
Found at i:25665417 original size:25 final size:25
Alignment explanation
Indices: 25665366--25665429 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 25
25665356 ATAAATAAAT
**
25665366 AATAAATACATAGGATATAAAAGAA
1 AATAAATACATAAAATATAAAAGAA
* * *
25665391 AATATATACATAAAATATAGAATAA
1 AATAAATACATAAAATATAAAAGAA
25665416 AA-AAATA-A-AAAATA
1 AATAAATACATAAAATA
25665430 ACAAAAATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 6 0.18
23 1 0.03
24 4 0.12
25 22 0.67
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (25 bp):
AATAAATACATAAAATATAAAAGAA
Found at i:25665422 original size:15 final size:16
Alignment explanation
Indices: 25665411--25665441 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25665401 TAAAATATAG
25665411 AATAA-AAAAATAAAA
1 AATAACAAAAATAAAA
25665426 AATAACAAAAATAAAA
1 AATAACAAAAATAAAA
25665442 TTGGACTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
AATAACAAAAATAAAA
Found at i:25665716 original size:42 final size:41
Alignment explanation
Indices: 25665666--25666044 Score: 533
Period size: 42 Copynumber: 9.0 Consensus size: 41
25665656 TAATCGAAGT
* * *
25665666 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGC
* *
25665708 TCATCTAAACAGAGGCACCACCACTTTTGAAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGAC-TTTG-AAAAGTAAATTGC
* *
25665751 TCCTCTAAACAGAGGCACCATGACTTTTGGAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGC
* *
25665793 TCCTCTAAACAAAGGCACCATGACTTTGAAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGC
25665835 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
* * * *
25665876 GCTTCTAAACAAAGGCACCACGACTTTTGAAAAGTAAATTGT
1 TCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGC
*
25665918 TCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGC
*
25665960 TCCTCTAAACAGAGACACCACGACTTTGAAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGC
* *
25666002 TCCTCTAAACAGAGGCACCATGACTTTGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
25666043 TC
1 TC
25666045 TTTGATAATC
Statistics
Matches: 306, Mismatches: 27, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
41 56 0.18
42 207 0.68
43 43 0.14
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGC
Found at i:25665925 original size:125 final size:126
Alignment explanation
Indices: 25665664--25666041 Score: 573
Period size: 125 Copynumber: 3.0 Consensus size: 126
25665654 TTTAATCGAA
* * * *
25665664 GTTCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCATCTAAACAGAGGCACCAC
1 GTTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* *
25665729 CACTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGGAAAGTAAATT
66 GAC-TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
* * *
25665791 GCTCCTCTAAACAAAGGCACCATGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GTTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
* * * *
25665856 GACTTTG-AAAAGTAAATTGCGCTTCTAAACAAAGGCACCACGACTTTTGAAAAGTAAATT
66 GACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
* *
25665916 GTTCCTCTAAACAGAGGCACCACGACTTTTG-GAAAGTAAATTGCTCCTCTAAACAGAGACACCA
1 GTTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCA
*
25665980 CGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGAC-TTTGAAAAATAAATT
65 CGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
25666041 G
1 G
25666042 CTCTTTGATA
Statistics
Matches: 226, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
125 125 0.55
126 41 0.18
127 60 0.27
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (126 bp):
GTTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
Found at i:25665945 original size:167 final size:168
Alignment explanation
Indices: 25665666--25666042 Score: 621
Period size: 167 Copynumber: 2.2 Consensus size: 168
25665656 TAATCGAAGT
* * * *
25665666 TCCTCTAAACAGAGGCTCAACGACTTTGAAAAAATAAATTGCTCATCTAAACAGAGGCACCACCA
1 TCCTCTAAACAGAGGCACCACGACTTTG-AAAAATAAATTGCGCATCTAAACAAAGGCACCACCA
*
25665731 CTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGGAAAGTAAATTGCTCC
65 CTTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCC
* *
25665796 TCTAAACAAAGGCACCATGACTTTGAAAAAGTAAATTGC
130 TCTAAACAAAGACACCACGACTTTGAAAAAGTAAATTGC
* * *
25665835 TCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCGCTTCTAAACAAAGGCACCACGAC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCGCATCTAAACAAAGGCACCACCAC
*
25665900 TTTTG-AAAAGTAAATTGTTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCT
66 TTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCT
*
25665964 CTAAACAGAGACACCACGACTTTGAAAAAGTAAATTGC
131 CTAAACAAAGACACCACGACTTTGAAAAAGTAAATTGC
*
25666002 TCCTCTAAACAGAGGCACCATGACTTTGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGC
25666043 TCTTTGATAA
Statistics
Matches: 194, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
167 131 0.68
168 37 0.19
169 26 0.13
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (168 bp):
TCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCGCATCTAAACAAAGGCACCACCAC
TTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATTGCTCCT
CTAAACAAAGACACCACGACTTTGAAAAAGTAAATTGC
Found at i:25667323 original size:27 final size:25
Alignment explanation
Indices: 25667293--25667356 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 25
25667283 TTGAATCTCC
*
25667293 TTTTTTCATTTTCTTATTTTTTTTCTT
1 TTTTTTCATTTTCTT-TTTTTCTT-TT
**
25667320 TTTTTTCATCATCTTTTTTTCTTTT
1 TTTTTTCATTTTCTTTTTTTCTTTT
25667345 TTTTTTCATTTT
1 TTTTTTCATTTT
25667357 TTCATCCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 12 0.38
26 7 0.22
27 13 0.41
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTTCATTTTCTTTTTTTCTTTT
Found at i:25667353 original size:22 final size:22
Alignment explanation
Indices: 25667308--25667358 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
25667298 TCATTTTCTT
25667308 ATTTTTTTTCTTTTTTTTCATC
1 ATTTTTTTTCTTTTTTTTCATC
*
25667330 ATCTTTTTTTCTTTTTTTT-TTC
1 AT-TTTTTTTCTTTTTTTTCATC
25667352 ATTTTTT
1 ATTTTTT
25667359 CATCCATTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 6 0.22
23 16 0.59
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (22 bp):
ATTTTTTTTCTTTTTTTTCATC
Found at i:25672794 original size:4 final size:4
Alignment explanation
Indices: 25672785--25672813 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
25672775 CTACCTATCC
25672785 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
25672814 TGGATTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:25674679 original size:2 final size:2
Alignment explanation
Indices: 25674672--25674704 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
25674662 ATGAATTGCC
25674672 TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
25674705 CATGCATGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:25675167 original size:2 final size:2
Alignment explanation
Indices: 25675160--25675205 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
25675150 TTTGGACTAC
* * *
25675160 AT AT AT AT AT AT AT AC AT AC AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25675202 AT AT
1 AT AT
25675206 CTAGCATCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:25686198 original size:26 final size:26
Alignment explanation
Indices: 25686136--25686198 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
25686126 AGGTTTAAAT
* *
25686136 TAATTTCAAGCTCGTAATTTTACTTA
1 TAATTTAAATCTCGTAATTTTACTTA
*
25686162 TAATTTGAATCTCGTAATTTTACTTA
1 TAATTTAAATCTCGTAATTTTACTTA
25686188 TAATTTAAATC
1 TAATTTAAATC
25686199 ATGTGGTGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (26 bp):
TAATTTAAATCTCGTAATTTTACTTA
Found at i:25690278 original size:3 final size:3
Alignment explanation
Indices: 25690270--25690305 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
25690260 AAAGAGAAAG
*
25690270 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
25690306 AAATGAGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:25696115 original size:2 final size:2
Alignment explanation
Indices: 25696108--25696132 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25696098 TTCTTTTCTT
25696108 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
25696133 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25696324 original size:131 final size:134
Alignment explanation
Indices: 25696159--25696448 Score: 459
Period size: 131 Copynumber: 2.2 Consensus size: 134
25696149 GCTTTTGTAC
*
25696159 AAGAAAAATTAATAC-TTTTAACTTTTCTTTAAAATATTTTTCTTGATAATTTTTATTTTTGAGT
1 AAGAAAAATTGATACTTTTTAACTTTTCTTTAAAATATTTTTCTTGATAATTTTTATTTTTGAGT
25696223 AAAATTCGTACTTCCAACTTTTTT-TCAAAATGTGTTCTTATGAAAA-TTTATTTTAAAAA-TTT
66 AAAATTCGTACTTCCAACTTTTTTCT-AAAATGTGTTCTTATGAAAATTTTATTTTAAAAATTTT
25696285 ACTTT
130 ACTTT
25696290 AAGAAAAATTGATTACTTTTTAA-TTTTC-TTAAAATATTTTTCTTGATAATTTTTATTTTTGAG
1 AAGAAAAATTGA-TACTTTTTAACTTTTCTTTAAAATATTTTTCTTGATAATTTTTATTTTTGAG
* *
25696353 TAAAATTTGTACTTCCAACTTTTTTCTAAAATGTGTTTTTATGAAAATTTTATTTTAAAAATTTT
65 TAAAATTCGTACTTCCAACTTTTTTCTAAAATGTGTTCTTATGAAAATTTTATTTTAAAAATTTT
25696418 ACTTT
130 ACTTT
* * *
25696423 AAGGAAAACTGATAC-TTTCAACTTTT
1 AAGAAAAATTGATACTTTTTAACTTTT
25696449 TCTCAAAAAT
Statistics
Matches: 147, Mismatches: 6, Indels: 11
0.90 0.04 0.07
Matches are distributed among these distances:
131 94 0.64
132 29 0.20
133 24 0.16
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (134 bp):
AAGAAAAATTGATACTTTTTAACTTTTCTTTAAAATATTTTTCTTGATAATTTTTATTTTTGAGT
AAAATTCGTACTTCCAACTTTTTTCTAAAATGTGTTCTTATGAAAATTTTATTTTAAAAATTTTA
CTTT
Found at i:25696445 original size:73 final size:72
Alignment explanation
Indices: 25696362--25696577 Score: 224
Period size: 75 Copynumber: 2.9 Consensus size: 72
25696352 GTAAAATTTG
* * * * *
25696362 TACTTCCAACTTTTTTCTAAAATGTGTTTTTATGAAAATTTTATTTTAAAAATTTTACTTTAAGG
1 TACTTTCAACTTTTTTCTAAAATAT-TTTTTATGAAAATTTTATTTTAGAAATTTTATTTTAAGA
25696427 AAAACTGA
65 AAAACTGA
* * *
25696435 TACTTTCAACTTTTTCTCAAAAATATCTTTTA--AAATTTTTTATTTTTTAGAAATTTTATTTTT
1 TACTTTCAACTTTTT-TCTAAAATATTTTTTATGAAA-ATTTTA--TTTTAGAAATTTTA-TTTT
*
25696498 AAGAAAAATTGA
61 AAGAAAAACTGA
* * *
25696510 TACTTTCAACTTTTCCTCAAAAATA-TTTTT-TGAAAATTTTTATTTTAGAAATTTTATTTTAAA
1 TACTTTCAACTTTT-TTCTAAAATATTTTTTATGAAAA-TTTTATTTTAGAAATTTTATTTTAAG
25696573 AAAAA
64 AAAAA
25696578 AATTGATACT
Statistics
Matches: 121, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
71 3 0.02
72 16 0.13
73 33 0.27
74 25 0.21
75 44 0.36
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (72 bp):
TACTTTCAACTTTTTTCTAAAATATTTTTTATGAAAATTTTATTTTAGAAATTTTATTTTAAGAA
AAACTGA
Found at i:25696472 original size:131 final size:131
Alignment explanation
Indices: 25696171--25696481 Score: 393
Period size: 131 Copynumber: 2.4 Consensus size: 131
25696161 GAAAAATTAA
* * *
25696171 TACTTTT-AACTTTTCTTTAAAATATTTTTCTTGATAATTTTTATTTTTGAGTAAAATTCGTACT
1 TACTTTTCAA-TTTTC-TAAAAATATTCTTCTTGAAAATTTTTATTTTTGAGTAAAATTCGTACT
*
25696235 TCCAACTTTTTTTCAAAATGTGTTCTTATGAAAATTTATTTTAAAAATTTACTTTAAGAAAAATT
64 TCCAACTTTTTTTCAAAATGTGTTCTTATGAAAATTTATTTTAAAAATTTACTTTAAGAAAAACT
25696300 GAT
129 GAT
* * * * *
25696303 TACTTTTTAATTTTCTTAAAATATTTTTCTTGATAATTTTTATTTTTGAGTAAAATTTGTACTTC
1 TACTTTTCAATTTTCTAAAAATATTCTTCTTGAAAATTTTTATTTTTGAGTAAAATTCGTACTTC
* *
25696368 CAAC-TTTTTTCTAAAATGTGTTTTTATGAAAATTTTATTTTAAAAATTTTACTTTAAGGAAAAC
66 CAACTTTTTTTC-AAAATGTGTTCTTATGAAAA-TTTATTTTAAAAA-TTTACTTTAAGAAAAAC
25696432 TGA-
128 TGAT
25696435 TAC-TTTCAACTTTTTCTCAAAAATA-TCTT-TT-AAAATTTTTTATTTTT
1 TACTTTTCAA--TTTTCT-AAAAATATTCTTCTTGAAAA-TTTTTATTTTT
25696482 TAGAAATTTT
Statistics
Matches: 163, Mismatches: 8, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
130 7 0.04
131 80 0.49
132 41 0.25
133 29 0.18
134 6 0.04
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.52
Consensus pattern (131 bp):
TACTTTTCAATTTTCTAAAAATATTCTTCTTGAAAATTTTTATTTTTGAGTAAAATTCGTACTTC
CAACTTTTTTTCAAAATGTGTTCTTATGAAAATTTATTTTAAAAATTTACTTTAAGAAAAACTGA
T
Found at i:25696502 original size:16 final size:16
Alignment explanation
Indices: 25696472--25696503 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25696462 TTTTAAAATT
*
25696472 TTTTATTTTTTAGAAA
1 TTTTATTTTTAAGAAA
25696488 TTTTATTTTTAAGAAA
1 TTTTATTTTTAAGAAA
25696504 AATTGATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTATTTTTAAGAAA
Found at i:25696523 original size:75 final size:73
Alignment explanation
Indices: 25696394--25696589 Score: 263
Period size: 75 Copynumber: 2.7 Consensus size: 73
25696384 TGTGTTTTTA
* * * * *
25696394 TGAAAA-TTTTATTTTAAAAATTTTA-CTTTAAGGAAAACTGATACTTTCAACTTTTTCTCAAAA
1 TGAAAATTTTTATTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA
25696457 ATATCTTT
66 ATATCTTT
25696465 T-AAAATTTTTTATTTTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCA
1 TGAAAA-TTTTTA--TTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCA
*
25696529 AAAATATTTTT
63 AAAATATCTTT
* *
25696540 TGAAAATTTTTATTTTAGAAATTTTATTTTAAAAAAAAAATTGATACTTT
1 TGAAAATTTTTATTTTAGAAATTTTATTTT-TAAGAAAAATTGATACTTT
25696590 TAAAAATCAA
Statistics
Matches: 110, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
70 4 0.04
71 1 0.01
72 5 0.05
73 18 0.16
74 30 0.27
75 48 0.44
76 4 0.04
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (73 bp):
TGAAAATTTTTATTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA
ATATCTTT
Found at i:25696868 original size:133 final size:131
Alignment explanation
Indices: 25696488--25696884 Score: 514
Period size: 133 Copynumber: 3.0 Consensus size: 131
25696478 TTTTTAGAAA
* * * *
25696488 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTT-TCCTCAAAAATATTTTTTGAAAATTTTTA
1 TTTTATTTTCAAGAGAAATTGATACTTTCAACTTTCTCCTCCAAAAT-GTTTTTGAAAATTTTTA
* * *
25696552 TTTTAGAAATTTTATTTTAAAAAAAAAATTGATACTTTTAAAAATCAATTTTTT-TAAAAAAATA
65 TTTTAGAAATTTTATTTT-TAAGAAAAATTGATAC-TTT--CAA-C--TTTTTTCT--AAAAATA
25696616 TTTTTTAACCT
121 TTTTTTAACCT
*
25696627 TTTTATTTTCAAGTGAAATTGATACTTTCAACTTTCTCC-CCAAAATGTTTTTGAAAATTTTTAT
1 TTTTATTTTCAAGAGAAATTGATACTTTCAACTTTCTCCTCCAAAATGTTTTTGAAAATTTTTAT
25696691 TTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTTAAAC
66 TTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTT-AAC
*
25696756 TT
130 CT
* *
25696758 TTTTATTTTC-TGAGAAATTGATACTTTCAACTTTCTCCTTCCAAAATGTTTTTGAAATTTTTTA
1 TTTTATTTTCAAGAGAAATTGATACTTTCAACTTTCTCC-TCCAAAATGTTTTTGAAAATTTTT-
* * * *
25696822 ATTTTAGAAACTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCCTAAAATTTTTTTTT
64 ATTTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTT
25696885 TGAAATTTTT
Statistics
Matches: 236, Mismatches: 16, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
130 39 0.17
131 20 0.08
132 23 0.10
133 60 0.25
134 2 0.01
136 3 0.01
137 14 0.06
138 34 0.14
139 38 0.16
140 3 0.01
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (131 bp):
TTTTATTTTCAAGAGAAATTGATACTTTCAACTTTCTCCTCCAAAATGTTTTTGAAAATTTTTAT
TTTAGAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTTAACC
T
Found at i:25696933 original size:5 final size:5
Alignment explanation
Indices: 25696915--25696944 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
25696905 AATCATTAAA
25696915 AAAAT AAAATT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAA-T AAAAT AAAAT AAAAT AAAA
25696945 AATTTAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:25696945 original size:16 final size:16
Alignment explanation
Indices: 25696915--25696945 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25696905 AATCATTAAA
*
25696915 AAAATAAAATTAAAAT
1 AAAATAAAATAAAAAT
25696931 AAAATAAAATAAAAA
1 AAAATAAAATAAAAA
25696946 ATTTAAGGAA
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:25699872 original size:2 final size:2
Alignment explanation
Indices: 25699865--25699907 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
25699855 ATCATCCATT
* *
25699865 TA TA TA TA TA TA AA AA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25699907 T
1 T
25699908 CATGTTGCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:25702109 original size:2 final size:2
Alignment explanation
Indices: 25702098--25702130 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
25702088 CTTTACATCT
25702098 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25702131 AGTCAAAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:25702651 original size:11 final size:11
Alignment explanation
Indices: 25702635--25702661 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25702625 ACATAAAACT
25702635 AATTATTAAAA
1 AATTATTAAAA
25702646 AATTATTAAAA
1 AATTATTAAAA
25702657 AATTA
1 AATTA
25702662 AATTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTATTAAAA
Found at i:25703128 original size:2 final size:2
Alignment explanation
Indices: 25703116--25703144 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
25703106 GTATATTGTA
25703116 AT AT A- 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
25703145 TAGATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25703374 original size:33 final size:34
Alignment explanation
Indices: 25703328--25703393 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 34
25703318 TTTAAAAGAT
*
25703328 TTTGATAACTAACT-AATT-TTTTAAATAAAATTA
1 TTTGATAAATAACTAAATTATTTTAAA-AAAATTA
*
25703361 TTTGGTAAATAACTAAAATTATTTTAAAAAAAT
1 TTTGATAAATAACT-AAATTATTTTAAAAAAAT
25703394 CTATATTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 12 0.43
35 9 0.32
36 7 0.25
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (34 bp):
TTTGATAAATAACTAAATTATTTTAAAAAAATTA
Found at i:25704772 original size:18 final size:18
Alignment explanation
Indices: 25704749--25704786 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
25704739 GATGCCTTTT
25704749 GTCAACAATTTTG-TCATG
1 GTCAACAA-TTTGCTCATG
*
25704767 GTCAACTATTTGCTCATG
1 GTCAACAATTTGCTCATG
25704785 GT
1 GT
25704787 TAATTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (18 bp):
GTCAACAATTTGCTCATG
Found at i:25710115 original size:21 final size:21
Alignment explanation
Indices: 25710074--25710115 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
25710064 TGCCCATGCG
* *
25710074 GAATCATCATCATCCTTACCA
1 GAATCATCATCATCATCACCA
25710095 GAATCATCATCATCATCACCA
1 GAATCATCATCATCATCACCA
25710116 TCGAGAGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.05, T:0.26
Consensus pattern (21 bp):
GAATCATCATCATCATCACCA
Found at i:25710821 original size:22 final size:22
Alignment explanation
Indices: 25710793--25710836 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25710783 ATGGTTAACA
25710793 TTGCTATTATATAATCTAGTTG
1 TTGCTATTATATAATCTAGTTG
*
25710815 TTGCTATTGTATAATCTAGTTG
1 TTGCTATTATATAATCTAGTTG
25710837 CTCATTACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.50
Consensus pattern (22 bp):
TTGCTATTATATAATCTAGTTG
Found at i:25710838 original size:19 final size:20
Alignment explanation
Indices: 25710793--25710843 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
25710783 ATGGTTAACA
25710793 TTGCTATTATATAATCTAGTTG
1 TTGCTATTATATAATCTA--TG
*
25710815 TTGCTATTGTATAATCTA-G
1 TTGCTATTATATAATCTATG
25710834 TTGCTCATTA
1 TTGCT-ATTA
25710844 CCGTTTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 6 0.23
20 3 0.12
22 17 0.65
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (20 bp):
TTGCTATTATATAATCTATG
Found at i:25714018 original size:24 final size:24
Alignment explanation
Indices: 25713973--25714018 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
25713963 TTTCGTTCAG
*
25713973 TTGGATTTTAATTCGGTTAGATTT
1 TTGGATTTTAATTCGGTCAGATTT
*
25713997 TTGGATTTTAATTCTGTCAGAT
1 TTGGATTTTAATTCGGTCAGAT
25714019 GTTAAAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.52
Consensus pattern (24 bp):
TTGGATTTTAATTCGGTCAGATTT
Found at i:25715625 original size:16 final size:17
Alignment explanation
Indices: 25715599--25715648 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
25715589 TTCGCTTTTG
*
25715599 TTTTTTTTTATTATTTA
1 TTTTATTTTATTATTTA
* *
25715616 -TTTGTTTTATTGTTTA
1 TTTTATTTTATTATTTA
*
25715632 TTTTATTTTTTTATTTA
1 TTTTATTTTATTATTTA
25715649 AATATTTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTATTTTATTATTTA
Found at i:25715967 original size:21 final size:21
Alignment explanation
Indices: 25715941--25716006 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
25715931 AAAACATGTA
25715941 TATCATTATTAAT-TTTAATTT
1 TATCATTA-TAATATTTAATTT
* *
25715962 TATCATTATAATATTAAAATT
1 TATCATTATAATATTTAATTT
* *
25715983 TATTATTATAATAATTAATTT
1 TATCATTATAATATTTAATTT
25716004 TAT
1 TAT
25716007 TTTCATTGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.11
21 34 0.89
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
TATCATTATAATATTTAATTT
Found at i:25721736 original size:19 final size:21
Alignment explanation
Indices: 25721707--25721748 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
25721697 TTTAAAAATT
*
25721707 TATACAATTTAAATTAT-TAA
1 TATACAATTTAAAATATATAA
25721727 TATA-AATTTAAAATATATAA
1 TATACAATTTAAAATATATAA
25721747 TA
1 TA
25721749 AGACATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TATACAATTTAAAATATATAA
Found at i:25722214 original size:11 final size:11
Alignment explanation
Indices: 25722198--25722229 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
25722188 ATTGTTATTG
25722198 AAAAATTCTTA
1 AAAAATTCTTA
*
25722209 AAAAATTATTA
1 AAAAATTCTTA
25722220 AAAAATTCTT
1 AAAAATTCTT
25722230 TCCATACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATTCTTA
Found at i:25728349 original size:21 final size:22
Alignment explanation
Indices: 25728323--25728392 Score: 83
Period size: 21 Copynumber: 3.2 Consensus size: 22
25728313 CGAGCCGCTT
25728323 TTTTTTTAGTATTTTTT-TTTA
1 TTTTTTTAGTATTTTTTATTTA
*
25728344 TTTTTTTGGTATTTTTTATTTA
1 TTTTTTTAGTATTTTTTATTTA
*
25728366 TTTATTTT--TATGTGTTTATTTA
1 TTT-TTTTAGTAT-TTTTTATTTA
25728388 TTTTT
1 TTTTT
25728393 ACTATTTTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
21 21 0.48
22 19 0.43
23 4 0.09
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (22 bp):
TTTTTTTAGTATTTTTTATTTA
Found at i:25728387 original size:26 final size:25
Alignment explanation
Indices: 25728332--25728401 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 25
25728322 TTTTTTTTAG
*
25728332 TATTT-TTTTTTATTTTTTTGGTAT
1 TATTTATTTTTTATTTTTATGGTAT
*
25728356 TTTTTATTTATTTATTTTTATGTGT-T
1 TATTTATTT-TTTATTTTTATG-GTAT
25728382 TATTTATTTTTACTATTTTT
1 TATTTATTTTT--TATTTTT
25728402 GCAGGATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.11
25 5 0.13
26 20 0.53
27 9 0.24
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.77
Consensus pattern (25 bp):
TATTTATTTTTTATTTTTATGGTAT
Found at i:25728494 original size:26 final size:28
Alignment explanation
Indices: 25728457--25728510 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
25728447 AATAAATATT
25728457 AATTATCAAATGATAAA-ATTTATAAAA
1 AATTATCAAATGATAAATATTTATAAAA
*
25728484 AATT-TCAAATGATAAATTTTTATAAAA
1 AATTATCAAATGATAAATATTTATAAAA
25728511 TTCTTAGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (28 bp):
AATTATCAAATGATAAATATTTATAAAA
Found at i:25728628 original size:8 final size:8
Alignment explanation
Indices: 25728617--25728645 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25728607 AAAAAAAAAG
25728617 AAAAATAT
1 AAAAATAT
25728625 AAAAATAT
1 AAAAATAT
25728633 -AAAATAT
1 AAAAATAT
25728640 AAAAAT
1 AAAAAT
25728646 TTTGGAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAATAT
Found at i:25735306 original size:15 final size:15
Alignment explanation
Indices: 25735288--25735316 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25735278 ATTTAAATAA
25735288 TTTTTTATTATTAAC
1 TTTTTTATTATTAAC
25735303 TTTTTTATTATTAA
1 TTTTTTATTATTAA
25735317 ATTCTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTATTATTAAC
Found at i:25736294 original size:116 final size:120
Alignment explanation
Indices: 25736135--25736358 Score: 339
Period size: 124 Copynumber: 1.9 Consensus size: 120
25736125 TTTTTTGTAG
* * *
25736135 GGAAGATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTT-GAAATTTA-TTTC-TGAGG
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAAATTTATTTTCTTAAGA
25736196 AAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
66 AAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
25736251 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTGGAAATTTATTTTTCTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTTTGGAAATTTA-TTTTC--TT
* *
25736316 AAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
62 AAGAAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTT
25736359 TTGGAATTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
116 34 0.36
118 9 0.09
119 8 0.08
121 4 0.04
124 40 0.42
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (120 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGGAAATTTATTTTCTTAAGA
AAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:25736337 original size:67 final size:60
Alignment explanation
Indices: 25736135--25736364 Score: 317
Period size: 57 Copynumber: 3.8 Consensus size: 60
25736125 TTTTTTGTAG
* *
25736135 GGAAGATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTT-GAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAA
* *
25736194 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATA---TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAA
25736251 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTGGAAATTTATTTTTCTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTTTGGAAATTTA--TTTC---T
25736316 AA
59 AA
*
25736318 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAA
25736365 TTTTTTTTTA
Statistics
Matches: 153, Mismatches: 7, Indels: 17
0.86 0.04 0.10
Matches are distributed among these distances:
56 6 0.04
57 47 0.31
59 32 0.21
62 15 0.10
64 16 0.10
67 37 0.24
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTCTAA
Found at i:25736549 original size:18 final size:18
Alignment explanation
Indices: 25736526--25736561 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25736516 CGGCTCGGCT
25736526 CGGCTCAAGGAAGAGAAA
1 CGGCTCAAGGAAGAGAAA
25736544 CGGCTCAAGGAAGAGAAA
1 CGGCTCAAGGAAGAGAAA
25736562 TGGCCGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.33, T:0.06
Consensus pattern (18 bp):
CGGCTCAAGGAAGAGAAA
Found at i:25736633 original size:26 final size:26
Alignment explanation
Indices: 25736583--25736631 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
25736573 TGGAAATTTT
25736583 CCAAAAATTTCCAGAAAAATTTTTCG
1 CCAAAAATTTCCAGAAAAATTTTTCG
*
25736609 CCAAAAATTTCTA-AAAAATTTTT
1 CCAAAAATTTCCAGAAAAATTTTT
25736632 TCTCACTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (26 bp):
CCAAAAATTTCCAGAAAAATTTTTCG
Found at i:25737035 original size:14 final size:17
Alignment explanation
Indices: 25737003--25737039 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
25736993 TAGATAAGTA
25737003 AAAATACAAAAATGAAT
1 AAAATACAAAAATGAAT
25737020 AAAATA-AAAAA-G-AT
1 AAAATACAAAAATGAAT
25737034 AAAATA
1 AAAATA
25737040 TATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 5 0.25
17 6 0.30
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAATACAAAAATGAAT
Found at i:25737083 original size:16 final size:16
Alignment explanation
Indices: 25737064--25737174 Score: 66
Period size: 16 Copynumber: 6.6 Consensus size: 16
25737054 TATTAGTAAT
25737064 AATACATAAATAATAA
1 AATACATAAATAATAA
*
25737080 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
* *
25737098 CAAAAAATAAATAA-ATA
1 -AATACATAAATAATA-A
* * *
25737115 AATATATACAT-ATATT
1 AATACATAAATAATA-A
25737131 AATACATAATAATAATAA
1 AATACAT-A-AATAATAA
*
25737149 TAATA-ATAAATAATAC
1 -AATACATAAATAATAA
25737165 AATACATAAA
1 AATACATAAA
25737175 ATACAAAAGA
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
15 5 0.07
16 32 0.44
17 11 0.15
18 16 0.22
19 9 0.12
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:25737144 original size:3 final size:3
Alignment explanation
Indices: 25737130--25737163 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
25737120 ATACATATAT
25737130 TAA TACA TAA TAA TAA TAA TAA TAA TAAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TA
25737164 CAATACATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:25737158 original size:67 final size:72
Alignment explanation
Indices: 25737026--25737160 Score: 167
Period size: 67 Copynumber: 1.9 Consensus size: 72
25737016 GAATAAAATA
* * *
25737026 AAAAAGATAAAATATATATATATATACATATTAGTAATAATACATAAATAATAAAATACACATAA
1 AAAAAGATAAAATAAATAAATATATACATATTAGT-ATAATACATAAATAATAAAATACAAATAA
25737091 ATATTAAC
65 ATATTAAC
25737099 AAAAA-AT-AAATAAATAAATATATACATA-TA-T-TAATACAT-AATAATAATAATA-ATAATA
1 AAAAAGATAAAATAAATAAATATATACATATTAGTATAATACATAAATAATAA-AATACA-AATA
25737157 AATA
64 AATA
25737161 ATACAATACA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
66 9 0.16
67 19 0.33
69 1 0.02
70 2 0.04
71 19 0.33
72 2 0.04
73 5 0.09
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.30
Consensus pattern (72 bp):
AAAAAGATAAAATAAATAAATATATACATATTAGTATAATACATAAATAATAAAATACAAATAAA
TATTAAC
Found at i:25737177 original size:67 final size:71
Alignment explanation
Indices: 25737022--25737177 Score: 166
Period size: 67 Copynumber: 2.3 Consensus size: 71
25737012 AAATGAATAA
* * *
25737022 AATAA-AAAAGATAAAATATATATATATATACATATTAGTAATAATACATAAATAATAAAATACA
1 AATAACAAAAAATAAAATAAATAAATATATACATATTAGT-ATAATACATAAATAATAAAATACA
*
25737086 CATAAAT
65 AATAAAT
*
25737093 ATTAACAAAAAAT-AAATAAATAAATATATACATA-TA-T-TAATACAT-AATAATAATAATA-A
1 AATAACAAAAAATAAAATAAATAAATATATACATATTAGTATAATACATAAATAATAA-AATACA
25737152 TAATAAAT
65 -AATAAAT
* *
25737160 AAT-ACAATACATAAAATA
1 AATAACAAAAAATAAAATA
25737178 CAAAAGAAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
66 16 0.22
67 25 0.34
69 1 0.01
70 2 0.03
71 23 0.32
72 6 0.08
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.29
Consensus pattern (71 bp):
AATAACAAAAAATAAAATAAATAAATATATACATATTAGTATAATACATAAATAATAAAATACAA
ATAAAT
Found at i:25737369 original size:1 final size:1
Alignment explanation
Indices: 25737365--25737424 Score: 66
Period size: 1 Copynumber: 60.0 Consensus size: 1
25737355 CATTTTTTGG
* * * * * *
25737365 TTTTTTTTTTGTTTTTTTGTTTTTTGTTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
25737425 ACCAAAGCTC
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:25737370 original size:8 final size:8
Alignment explanation
Indices: 25737368--25737424 Score: 80
Period size: 8 Copynumber: 6.9 Consensus size: 8
25737358 TTTTTGGTTT
25737368 TTTTTTTG
1 TTTTTTTG
25737376 TTTTTTTG
1 TTTTTTTG
25737384 -TTTTTTG
1 TTTTTTTG
25737391 TTTTTTTG
1 TTTTTTTG
25737399 TTTTTTTTTTG
1 ---TTTTTTTG
25737410 TTTTTTTG
1 TTTTTTTG
25737418 TTTTTTT
1 TTTTTTT
25737425 ACCAAAGCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.16
8 30 0.67
11 8 0.18
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTTTTG
Found at i:25737381 original size:19 final size:19
Alignment explanation
Indices: 25737357--25737424 Score: 99
Period size: 19 Copynumber: 3.8 Consensus size: 19
25737347 CAACTCAACA
*
25737357 TTTTTTGGTTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTTG
25737376 TTTTTTTG----TTTTTTG
1 TTTTTTTGTTTTTTTTTTG
25737391 TTTTTTTGTTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTTG
25737410 TTTTTTTGTTTTTTT
1 TTTTTTTGTTTTTTT
25737425 ACCAAAGCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
15 15 0.34
19 29 0.66
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTTTTG
Found at i:25737402 original size:34 final size:34
Alignment explanation
Indices: 25737357--25737423 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
25737347 CAACTCAACA
25737357 TTTTTTGGTTTTTTTTTTGTTTTTTTGTTTTTTG
1 TTTTTTGGTTTTTTTTTTGTTTTTTTGTTTTTTG
*
25737391 TTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTT
1 TTTTTTGGTTTTTTTTTTGTTTTTTTGTTTTTT
25737424 TACCAAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (34 bp):
TTTTTTGGTTTTTTTTTTGTTTTTTTGTTTTTTG
Found at i:25737478 original size:42 final size:41
Alignment explanation
Indices: 25737431--25737923 Score: 666
Period size: 42 Copynumber: 12.0 Consensus size: 41
25737421 TTTTACCAAA
25737431 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAAC-TTTGAAAAGTAAATT
*
25737473 GCTCCTCTAAACAGAGGCA--ACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-AACTTTGAAAAGTAAATT
*
25737513 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTG-AAAAGTAAATT
*
25737555 GCTCCTCTAAACAGAGGCAACGA-AACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGC-ACCACAACTTTGAAAAGTAAATT
* * *
25737595 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
25737636 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-AACTTTGAAAAGTAAATT
* *
25737676 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTT-GAAAAGTAAATT
25737717 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-AACTTTGAAAAGTAAATT
* *
25737757 GCTCCTCTAAACAGAGGTACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAAC-TTTGAAAAGTAAATT
* * *
25737799 GCTCCTTTAAACAGAGGTACCACGACTTTGGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTT--GAAAAGTAAATT
*
25737842 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTT-GAAAAGTAAATT
25737884 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCAC-AACTTTG-AAAAGTAAAT
25737924 ACTCCTAGAC
Statistics
Matches: 410, Mismatches: 21, Indels: 41
0.87 0.04 0.09
Matches are distributed among these distances:
39 12 0.03
40 134 0.33
41 85 0.21
42 137 0.33
43 42 0.10
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
Found at i:25737670 original size:81 final size:81
Alignment explanation
Indices: 25737431--25737923 Score: 794
Period size: 81 Copynumber: 6.0 Consensus size: 81
25737421 TTTTACCAAA
*
25737431 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
*
25737496 ACTTGGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
25737513 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
25737578 AACTTTG-AAAGTAAATT
64 AACTTTGAAAAGTAAATT
* *
25737595 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
25737660 CTTTGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
*
25737676 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
25737740 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
* * *
25737757 GCTCCTCTAAACAGAGGTACCACGACTTTTGAAAAGTAAATTGCTCCTTTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
25737822 G-ACTTTGGGAAAAGTAAATT
63 GAACTTT--GAAAAGTAAATT
25737842 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
25737907 ACTTTGAAAAAGTAAAT
65 ACTTTG-AAAAGTAAAT
25737924 ACTCCTAGAC
Statistics
Matches: 386, Mismatches: 12, Indels: 25
0.91 0.03 0.06
Matches are distributed among these distances:
80 7 0.02
81 150 0.39
82 127 0.33
83 25 0.06
84 12 0.03
85 65 0.17
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAGTAAATT
Found at i:25743926 original size:21 final size:20
Alignment explanation
Indices: 25743889--25743932 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
25743879 TTCTATTTTG
*
25743889 ATATTTTTAATAAAATAATA
1 ATATTTTAAATAAAATAATA
*
25743909 ATATTATTAAATACAATAATA
1 ATATT-TTAAATAAAATAATA
25743930 ATA
1 ATA
25743933 CAAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATTTTAAATAAAATAATA
Found at i:25750117 original size:21 final size:21
Alignment explanation
Indices: 25750091--25750130 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25750081 TGAAAGCAAT
25750091 AAAAAAAAA-GAGAGAAAAACA
1 AAAAAAAAAGGA-AGAAAAACA
*
25750112 AAAAAATAAGGAAGAAAAA
1 AAAAAAAAAGGAAGAAAAA
25750131 ATGAAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAGGAAGAAAAACA
Found at i:25751774 original size:98 final size:99
Alignment explanation
Indices: 25751597--25751777 Score: 220
Period size: 98 Copynumber: 1.8 Consensus size: 99
25751587 CATCTCGATG
* * *
25751597 GTGATATCCGAGTGCTAAAGCTTGAATTGCATTTTCTCGATGATGGTATTCGAGTTTCCTTCAAT
1 GTGATATCCAAGTGCTAAAGCTTGAAATGCATTTTCTCGATGATGATATTCGAGTTTCCTTCAAT
* * **
25751662 GGTGATATTTGAAGTCATATGCATTTTCTTGGTA
66 GATAATATCCGAAGTCATATGCATTTTCTTGGTA
* * * ** * * *
25751696 GTGATATCCAAGTGTTAAAGCTTGAAATG-TTTTTTTTTATGGTGATATTCGAGTTTTCTTCAGT
1 GTGATATCCAAGTGCTAAAGCTTGAAATGCATTTTCTCGATGATGATATTCGAGTTTCCTTCAAT
25751760 GATAATATCCGAAGTCAT
66 GATAATATCCGAAGTCAT
25751778 CTGTAAAAAA
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
98 41 0.61
99 26 0.39
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (99 bp):
GTGATATCCAAGTGCTAAAGCTTGAAATGCATTTTCTCGATGATGATATTCGAGTTTCCTTCAAT
GATAATATCCGAAGTCATATGCATTTTCTTGGTA
Found at i:25752035 original size:19 final size:20
Alignment explanation
Indices: 25752008--25752045 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
25751998 ATATAATAAT
*
25752008 AATACAAAA-AATAAAAAAA
1 AATAAAAAAGAATAAAAAAA
*
25752027 AATAAAAAAGAGTAAAAAA
1 AATAAAAAAGAATAAAAAA
25752046 TAAAGGGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.11
Consensus pattern (20 bp):
AATAAAAAAGAATAAAAAAA
Found at i:25753241 original size:11 final size:11
Alignment explanation
Indices: 25753225--25753253 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25753215 AATAAATCTT
25753225 ATAAAATAATA
1 ATAAAATAATA
25753236 ATAAAATAATA
1 ATAAAATAATA
25753247 A-AAAATA
1 ATAAAATA
25753254 TAAAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
ATAAAATAATA
Found at i:25754313 original size:18 final size:19
Alignment explanation
Indices: 25754274--25754313 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
25754264 ATAGTTTTTT
*
25754274 TATTAAATAAAAATTTAAA
1 TATTAAATAAAAATTAAAA
*
25754293 TATTAAAT-AATATTAAAA
1 TATTAAATAAAAATTAAAA
25754311 TAT
1 TAT
25754314 ACATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTAAATAAAAATTAAAA
Found at i:25754882 original size:27 final size:26
Alignment explanation
Indices: 25754818--25754888 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
25754808 CCTATACATA
* *
25754818 AAAATAATTTTTTAAT-ATTTAATAAT
1 AAAAT-ATTATTTAATAACTTAATAAT
*
25754844 AAAATTATTATTTAATAACTTATTAACT
1 AAAA-TATTATTTAATAACTTAATAA-T
*
25754872 AAAATATTATTTGATAA
1 AAAATATTATTTAATAA
25754889 AATAAGTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 13 0.34
27 20 0.53
28 5 0.13
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (26 bp):
AAAATATTATTTAATAACTTAATAAT
Found at i:25754923 original size:19 final size:19
Alignment explanation
Indices: 25754896--25754934 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
25754886 TAAAATAAGT
*
25754896 TTTAATAATTTTTTAAATA
1 TTTAATAATTTTATAAATA
*
25754915 TTTATTAATTTTATAAATA
1 TTTAATAATTTTATAAATA
25754934 T
1 T
25754935 CAAATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTAATAATTTTATAAATA
Found at i:25756450 original size:21 final size:21
Alignment explanation
Indices: 25756426--25756473 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
25756416 TAGTATGAAG
25756426 TGATTCG-TTTAAAAATTACGA
1 TGATTCGATTTAAAAATTAC-A
* *
25756447 TGATTTGTATTTAATAATTACA
1 TGATTCG-ATTTAAAAATTACA
25756469 TGATT
1 TGATT
25756474 TTGTTTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 11 0.48
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (21 bp):
TGATTCGATTTAAAAATTACA
Found at i:25756482 original size:21 final size:23
Alignment explanation
Indices: 25756432--25756483 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
25756422 GAAGTGATTC
*
25756432 GTTTAAAAATTACGATGATTTGT
1 GTTTAATAATTACGATGATTTGT
*
25756455 ATTTAATAATTAC-ATGATTT-T
1 GTTTAATAATTACGATGATTTGT
25756476 GTTTAATA
1 GTTTAATA
25756484 GTAATATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 8 0.31
22 7 0.27
23 11 0.42
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (23 bp):
GTTTAATAATTACGATGATTTGT
Found at i:25756996 original size:44 final size:46
Alignment explanation
Indices: 25756912--25757025 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 46
25756902 TTATTTTTTC
* * * *
25756912 ATATAATATCAAATACAGTAATTTAAAATTACTAACGATTT-A-TA
1 ATATTATATCAAATATAATAATTTAAAATCACTAACGATTTGATTA
**
25756956 ATATTATATCAAATATAATAATTTAAAATCA-TAGGTGATTTGATTA
1 ATATTATATCAAATATAATAATTTAAAATCACTA-ACGATTTGATTA
*
25757002 ATAATTATATC-ATTATAATAATTT
1 AT-ATTATATCAAATATAATAATTT
25757026 TATAAATAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.03
44 32 0.54
45 1 0.02
46 16 0.27
47 8 0.14
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (46 bp):
ATATTATATCAAATATAATAATTTAAAATCACTAACGATTTGATTA
Found at i:25760010 original size:18 final size:15
Alignment explanation
Indices: 25759951--25760004 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
25759941 TAAATTTTAT
*
25759951 TAAAAATTTTAATAA
1 TAAAAAATTTAATAA
*
25759966 -ATAAGAATTTAATAA
1 TA-AAAAATTTAATAA
*
25759981 TAAAAAAGTTAATAA
1 TAAAAAATTTAATAA
25759996 TAAAAAATT
1 TAAAAAATT
25760005 ATTTAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 1 0.03
15 30 0.94
16 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
TAAAAAATTTAATAA
Found at i:25762103 original size:20 final size:20
Alignment explanation
Indices: 25762078--25762117 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25762068 CCACAAATCG
25762078 ACTTCTGTTCCATCAACTTT
1 ACTTCTGTTCCATCAACTTT
25762098 ACTTCTGTTCCATCAACTTT
1 ACTTCTGTTCCATCAACTTT
25762118 CCCTTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (20 bp):
ACTTCTGTTCCATCAACTTT
Found at i:25766674 original size:8 final size:8
Alignment explanation
Indices: 25766663--25766691 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25766653 TAATTCCAAA
25766663 ATTTTTAT
1 ATTTTTAT
25766671 A-TTTTAT
1 ATTTTTAT
25766678 ATTTTTAT
1 ATTTTTAT
25766686 ATTTTT
1 ATTTTT
25766692 TCTCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
ATTTTTAT
Found at i:25766851 original size:26 final size:26
Alignment explanation
Indices: 25766799--25766851 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
25766789 CACCTAAGAA
*
25766799 TTTTATAAAAATTTATCATTTGAAAT
1 TTTTATAAAAATTTATCATTGGAAAT
*
25766825 TTTTAT-AAATTTTATCATTGGATAAT
1 TTTTATAAAAATTTATCATTGGA-AAT
25766851 T
1 T
25766852 AATATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.53
Consensus pattern (26 bp):
TTTTATAAAAATTTATCATTGGAAAT
Found at i:25767020 original size:24 final size:24
Alignment explanation
Indices: 25766986--25767040 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
25766976 AAAAAAAAAC
* *
25766986 GGCTCGACTTAGCGACTGAAATT-T
1 GGCTCGACTTA-AGACAGAAATTAT
*
25767010 GGCTCGGCTTAAGACAGAAATTAT
1 GGCTCGACTTAAGACAGAAATTAT
25767034 GGCTCGA
1 GGCTCGA
25767041 AAATACGGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (24 bp):
GGCTCGACTTAAGACAGAAATTAT
Found at i:25767490 original size:19 final size:19
Alignment explanation
Indices: 25767448--25767493 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
25767438 AAACACTCGT
* *
25767448 CAAAAAATTCAACCAACAT
1 CAAAAAATTCAACCAAAAA
25767467 CAAAAAATTC-ACCAAAAA
1 CAAAAAATTCAACCAAAAA
*
25767485 CTAAAAATT
1 CAAAAAATT
25767494 TCCATAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.61, C:0.22, G:0.00, T:0.17
Consensus pattern (19 bp):
CAAAAAATTCAACCAAAAA
Found at i:25773201 original size:7 final size:7
Alignment explanation
Indices: 25773189--25773228 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
25773179 ACAGAGATGG
25773189 AAAAAGA
1 AAAAAGA
25773196 AAAAAGA
1 AAAAAGA
25773203 AAAAA-A
1 AAAAAGA
*
25773209 AAAAAGG
1 AAAAAGA
*
25773216 AAGAAGA
1 AAAAAGA
25773223 AAAAAG
1 AAAAAG
25773229 CGGGGAAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:25773214 original size:20 final size:20
Alignment explanation
Indices: 25773189--25773227 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25773179 ACAGAGATGG
25773189 AAAAAGAAAAAAGAAAAAAA
1 AAAAAGAAAAAAGAAAAAAA
* *
25773209 AAAAAGGAAGAAGAAAAAA
1 AAAAAGAAAAAAGAAAAAA
25773228 GCGGGGAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAGAAAAAAA
Found at i:25773228 original size:14 final size:14
Alignment explanation
Indices: 25773187--25773228 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
25773177 AAACAGAGAT
25773187 GGAAAAAGAAAAAA
1 GGAAAAAGAAAAAA
*
25773201 -GAAAAAAAAAAAA
1 GGAAAAAGAAAAAA
*
25773214 GGAAGAAGAAAAAA
1 GGAAAAAGAAAAAA
25773228 G
1 G
25773229 CGGGGAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
GGAAAAAGAAAAAA
Found at i:25781650 original size:22 final size:20
Alignment explanation
Indices: 25781594--25781645 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
25781584 TAACAATGAA
25781594 AATAAATTAATTATTATAAT
1 AATAAATTAATTATTATAAT
25781614 AATAAAATTTAATTATTATAAT
1 AAT-AAA-TTAATTATTATAAT
*
25781636 GATAAATTAA
1 AATAAATTAA
25781646 AATTAATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AATAAATTAATTATTATAAT
Found at i:25781986 original size:16 final size:15
Alignment explanation
Indices: 25781952--25782004 Score: 58
Period size: 16 Copynumber: 3.7 Consensus size: 15
25781942 GAAAATATTT
*
25781952 AAATAAA-AA-AATA
1 AAATAAACAATAAAA
25781965 AAATAAACAATAAAA
1 AAATAAACAATAAAA
*
25781980 CAAATAAATAATAAAA
1 -AAATAAACAATAAAA
25781996 AAA-AAACAA
1 AAATAAACAA
25782005 AAGCGAAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 7 0.21
14 7 0.21
15 6 0.18
16 14 0.41
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATAAACAATAAAA
Found at i:25783935 original size:21 final size:21
Alignment explanation
Indices: 25783911--25783952 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
25783901 CCGACACTCA
*
25783911 CTAATGACCATAGATGGACAG
1 CTAACGACCATAGATGGACAG
25783932 CTAACGACCATAGATGGACAG
1 CTAACGACCATAGATGGACAG
25783953 TCCCTGACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (21 bp):
CTAACGACCATAGATGGACAG
Found at i:25786795 original size:22 final size:22
Alignment explanation
Indices: 25786768--25786811 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25786758 CGGTAATGAG
25786768 CAACTAGATTATACAATAGCAA
1 CAACTAGATTATACAATAGCAA
*
25786790 CAACTAGATTATATAATAGCAA
1 CAACTAGATTATACAATAGCAA
25786812 TGTTAACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (22 bp):
CAACTAGATTATACAATAGCAA
Found at i:25788723 original size:23 final size:24
Alignment explanation
Indices: 25788697--25788792 Score: 67
Period size: 23 Copynumber: 4.1 Consensus size: 24
25788687 GTATCAAATA
*
25788697 ATTT-TTTATATTTATAAATTTAT
1 ATTTATTTATATTAATAAATTTAT
*
25788720 ATTTGATATATTATTAATAAATTT-T
1 ATTT-ATTTA-TATTAATAAATTTAT
* * *
25788745 -TTTATTTTTATTAATAAAATAAT
1 ATTTATTTATATTAATAAATTTAT
* *
25788768 A-TTATTTA-ATTTATTAAATATAT
1 ATTTATTTATA-TTAATAAATTTAT
25788791 AT
1 AT
25788793 AACTAGTTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
22 12 0.22
23 24 0.44
24 3 0.05
25 4 0.07
26 12 0.22
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (24 bp):
ATTTATTTATATTAATAAATTTAT
Done.