Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006079.1 Hibiscus syriacus cultivar Beakdansim tig00014401_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 98917
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5828 original size:15 final size:15
Alignment explanation
Indices: 5783--5822 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
5773 AGAACAATAG
5783 TACAAAGGCAGTCCC
1 TACAAAGGCAGTCCC
5798 TACAAAGGCAGTCCC
1 TACAAAGGCAGTCCC
5813 TACAAAGGCA
1 TACAAAGGCA
5823 TACCCTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.30, G:0.20, T:0.12
Consensus pattern (15 bp):
TACAAAGGCAGTCCC
Found at i:19185 original size:24 final size:24
Alignment explanation
Indices: 19150--19204 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
19140 ATCTTGTGCG
19150 TGCCCATCGTCAGCTGGAATTACA
1 TGCCCATCGTCAGCTGGAATTACA
*
19174 TGGCCATCGTCAGCTGGAATTACA
1 TGCCCATCGTCAGCTGGAATTACA
19198 TGCCCAT
1 TGCCCAT
19205 TGTCGAAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (24 bp):
TGCCCATCGTCAGCTGGAATTACA
Found at i:22076 original size:54 final size:54
Alignment explanation
Indices: 22000--22165 Score: 191
Period size: 51 Copynumber: 3.1 Consensus size: 54
21990 ATTCCTTCAA
* * *
22000 GGAGTA-GAAACTCGAACAATCTTTTGCCTACGGGTTCGTTCCCTCTTTCTTTAG
1 GGAGTATGAAACTCAAAC-ATCTTTTGCATACGGGTTCGCTCCCTCTTTCTTTAG
* *
22054 GGAGTATGAAACTCAAACATC--TT-CTTACGGGTTCGCTCCCTTTTTCTTTAG
1 GGAGTATGAAACTCAAACATCTTTTGCATACGGGTTCGCTCCCTCTTTCTTTAG
* * *
22105 GGAGTAT-AGAACTCGAAA-ATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAG
1 GGAGTATGA-AACTC-AAACATCTTTTGCATACGGGTTCGCTCCCTCTTTCTTTAG
22159 GGAGTAT
1 GGAGTAT
22166 AGAACTTGAA
Statistics
Matches: 97, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
50 1 0.01
51 40 0.41
52 5 0.05
53 1 0.01
54 40 0.41
55 10 0.10
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.34
Consensus pattern (54 bp):
GGAGTATGAAACTCAAACATCTTTTGCATACGGGTTCGCTCCCTCTTTCTTTAG
Found at i:22100 original size:51 final size:52
Alignment explanation
Indices: 22028--22183 Score: 219
Period size: 54 Copynumber: 3.0 Consensus size: 52
22018 ATCTTTTGCC
*
22028 TACGGGTTCGTTCCCTCTTTCTTTAGGGAGTAT-GAAACTC-AAACATCTTCT-
1 TACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAG-AACTCGAAA-ATCTTCTA
*
22079 TACGGGTTCGCTCCCTTTTTCTTTAGGGAGTATAGAACTCGAAAATCTTCTGAA
1 TACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAAATCTTCT--A
* *
22133 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTTGAAAATCTTCT
1 TACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAAATCTTCT
22184 GCAATAGTGT
Statistics
Matches: 95, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
51 43 0.45
52 4 0.04
54 48 0.51
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (52 bp):
TACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTCGAAAATCTTCTA
Found at i:22246 original size:55 final size:55
Alignment explanation
Indices: 22142--22567 Score: 563
Period size: 55 Copynumber: 7.8 Consensus size: 55
22132 AAACGGGTTC
* * * * * **
22142 GCTCCCTCTTTCTTTAGGGAGTAT-AGAACTTGAA-AATCTTCTGCAATAGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATAGTGTCT
* * *
22196 TCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATAGTGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATAGTGTCT
* * *
22251 GCTCCCTATTCCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATCGTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATAGTGTCT
22306 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCA-TGTCAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT-AGTGTC-T
*
22362 -CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATAGTGTCT
* * * *
22416 GCTCCCTGTTCCTACGGAGAGTATAAGACTCGAACAATCTTCAACAATTGTGTCT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATAGTGTCT
* * * *
22471 GCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAGCAATCGTGTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATAGTGTCT
* * * *
22526 GTTCCTTATTTCTTCATAGAGTATAAGACTCGAACAATCTTC
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC
22568 TGAAAACGGG
Statistics
Matches: 330, Mismatches: 36, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
54 26 0.08
55 304 0.92
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (55 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATAGTGTCT
Found at i:22585 original size:110 final size:109
Alignment explanation
Indices: 22088--22627 Score: 551
Period size: 110 Copynumber: 4.9 Consensus size: 109
22078 TTACGGGTTC
* * * * * *
22088 GCTCCCTTTTTCTTTAGGGAGTAT-AGAACTCGAA-AATCTTCTGAA-AACGGGTTCGCTCCCTC
1 GCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTC--AACAACGTGTTCGCTCCCTA
* * * * * *
22150 TTTCTTTAGGGAGTAT-AGAACTTGAA-AATCTTCTGCAATAGTGTCT
63 TTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAGCAATCGTGTCT
* * *
22196 TCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATAGTGTAT-GCTCCCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA-CGTGT-TCGCTCCCTAT
* * *
22260 TCCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATCGTGTCC
64 TCCTTCAGAGAGTATAAGACTCGAACAATCTTCAGCAATCGTGTCT
* *
22306 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCATG-TCATCTCCCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA-CGTGTTC-GCTCCCTAT
*
22370 TCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCT
64 TCCTTCAGAGAGTATAAGACTCGAACAATCTTCAGCAATCGTGTCT
* * * *
22416 GCTCCCTGTTCCTACGGAGAGTATAAGACTCGAACAATCTTCAACAA-TTGTGTCTGCTCCCTAT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAACGTGT-TC-GCTCCCTAT
* *
22480 TCCTTCAGAGAGTATGAGACTCGAACAATCTTCAGCAATCGTGTAT
64 TCCTTCAGAGAGTATAAGACTCGAACAATCTTCAGCAATCGTGTCT
* * * * * *
22526 GTTCCTTATTTCTTCATAGAGTATAAGACTCGAACAATCTTCTGAA-AACGGGTTCGCTCCCTTT
1 GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC--AACAACGTGTTCGCTCCCTAT
* * * * *
22590 TTCTTCAGGGAGTAT-GGAACTCGAACAACCTTCCGCAA
64 TCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAGCAA
22628 ACGGGTTCGC
Statistics
Matches: 369, Mismatches: 48, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
107 2 0.01
108 31 0.08
109 38 0.10
110 290 0.79
111 4 0.01
112 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (109 bp):
GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAACGTGTTCGCTCCCTATTC
CTTCAGAGAGTATAAGACTCGAACAATCTTCAGCAATCGTGTCT
Found at i:22593 original size:55 final size:54
Alignment explanation
Indices: 21972--22678 Score: 442
Period size: 55 Copynumber: 13.0 Consensus size: 54
21962 AAATCCTCGG
* * * *
21972 AAAACATGTTCACTCCCTATTCCTTCA-AGGAGTAGAA-ACTCGAACAATCTTTT
1 AAAACGTGTTCGCTCCCTATTCCTTCAGA-GAGTATAAGACTCGAACAATCTTCT
*** * * * * * * *
22025 GCCTACGGGTTCGTTCCCTCTTTCTTTAGGGAGTATGAA-ACTCAAAC-ATCTTCT
1 -AAAACGTGTTCGCTCCCTATTCCTTCAGAGAGTAT-AAGACTCGAACAATCTTCT
* * * * * *
22079 --TACGGGTTCGCTCCCTTTTTCTTTAGGGAGTAT-AGAACTCGAA-AATCTTCT
1 AAAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCT
* * * * * *
22130 GAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAT-AGAACTTGAA-AATCTTCT
1 -AAAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCT
* *
22184 GCAATA-GTG-TCTTCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC-
1 --AAAACGTGTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCT
* *
22238 AATAATAGTGTAT-GCTCCCTATTCCTTCAGAGAGTATAAGACTCAAACAATCTTC-
1 AA-AA-CGTGT-TCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCT
*
22293 AACAATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC-
1 AA-AA-CGTGTTCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCT
* *
22348 AACAATCATG-TCATCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC-
1 AA-AA-CGTGTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCT
* * *
22403 AACAATCGTG-TCTGCTCCCTGTTCCTACGGAGAGTATAAGACTCGAACAATCTTC-
1 AA-AA-CGTGTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCT
* *
22458 AACAA-TTGTGTCTGCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTC-
1 AA-AACGTGT-TC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCT
* * * * *
22513 AGCAATCGTGTAT-GTTCCTTATTTCTTCATAGAGTATAAGACTCGAACAATCTTCT
1 A--AAACGTGT-TCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCT
* * * * * * *
22569 GAAAACGGGTTCGCTCCCTTTTTCTTCAGGGAGTAT-GGAACTCGAACAACCTTCCG
1 -AAAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTT-CT
* * * * *
22625 CAAACGGGTTCGCTCCTTCT-TTCTTTAAG-GAGTAT-GGAACTCGAACAATCTTCT
1 AAAACGTGTTCGCTCC--CTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCT
22679 TCTTATGGGT
Statistics
Matches: 548, Mismatches: 74, Indels: 62
0.80 0.11 0.09
Matches are distributed among these distances:
49 1 0.00
51 44 0.08
52 2 0.00
53 5 0.01
54 107 0.20
55 372 0.68
56 8 0.01
57 9 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (54 bp):
AAAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCT
Found at i:22642 original size:110 final size:108
Alignment explanation
Indices: 21973--22733 Score: 504
Period size: 110 Copynumber: 7.0 Consensus size: 108
21963 AATCCTCGGA
* * * * ***
21973 AAACATGTTCACTCCCTATTCCTTCA-AGGAGTAGAA-ACTCGAACAATCTTTTGCCTACGGGTT
1 AAACGTGTTCGCTCCCTATTCCTTCAGA-GAGTATAAGACTCGAACAATCTTCT-AAAACGGGTT
* * * *
22036 CGTTCCCTCTTTCTTTAGGGAGTATGAAACTCAAAC-ATCTT---C
64 CGCTCCCTATTTCTTCAGGGAGTATG-AACTCGAACAATCTTCAGC
** * * * * *
22078 TTACGGGTTCGCTCCCTTTTTCTTTAGGGAGTAT-AGAACTCGAA-AATCTTCTGAAAACGGGTT
1 AAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCT-AAAACGGGTT
* * * *
22141 CGCTCCCTCTTTCTTTAGGGAGTATAGAACTTGAA-AATCTTCTGC
64 CGCTCCCTATTTCTTCAGGGAGTAT-GAACTCGAACAATCTTCAGC
* * *
22186 AATA-GTG-TCTTCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC-AATAATAGTG
1 AA-ACGTGTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTAA-AA-CGGG
* * * * *
22248 TAT-GCTCCCTATTCCTTCAGAGAGTATAAGACTCAAACAATCTTCAAC
62 T-TCGCTCCCTATTTCTTCAGGGAGTATGA-ACTCGAACAATCTTCAGC
* * **
22296 AATCGTGTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC-AACAATCATG-T
1 AAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTAA-AA-CGGGTT
* * * * *
22359 CATCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
64 C-GCTCCCTATTTCTTCAGGGAGTATGA-ACTCGAACAATCTTCAGC
* * * * **
22406 AATCGTG-TCTGCTCCCTGTTCCTACGGAGAGTATAAGACTCGAACAATCTTC-AACAA-TTGTG
1 AAACGTGTTC-GCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTAA-AACGGGT-
* *
22468 TCTGCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAGC
63 TC-GCTCCCTATTTCTTCAGGGAGTATGA-ACTCGAACAATCTTCAGC
* * * * *
22516 AATCGTGTAT-GTTCCTTATTTCTTCATAGAGTATAAGACTCGAACAATCTTCTGAAAACGGGTT
1 AAACGTGT-TCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCT-AAAACGGGTT
* * *
22580 CGCTCCCTTTTTCTTCAGGGAGTATGGAACTCGAACAACCTTCCGC
64 CGCTCCCTATTTCTTCAGGGAGTAT-GAACTCGAACAATCTTCAGC
* * * * *** *
22626 AAACGGGTTCGCTCCTTCT-TTCTTTAAG-GAGTAT-GGAACTCGAACAATCTTCTTCTTATGGG
1 AAACGTGTTCGCTCC--CTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-TAAAACGGG
* * * *
22688 TTCGTTCCCTCTTTCTTTAGGGAGTATAGAACTCGAACAATATTCA
62 TTCGCTCCCTATTTCTTCAGGGAGTAT-GAACTCGAACAATCTTCA
22734 TTTGCCTCAC
Statistics
Matches: 534, Mismatches: 87, Indels: 65
0.78 0.13 0.09
Matches are distributed among these distances:
104 1 0.00
105 73 0.14
106 8 0.01
107 4 0.01
108 35 0.07
109 41 0.08
110 353 0.66
111 13 0.02
112 6 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (108 bp):
AAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCTAAAACGGGTTCG
CTCCCTATTTCTTCAGGGAGTATGAACTCGAACAATCTTCAGC
Found at i:22660 original size:165 final size:165
Alignment explanation
Indices: 22081--22677 Score: 580
Period size: 165 Copynumber: 3.6 Consensus size: 165
22071 CATCTTCTTA
* * *
22081 CGGGTTCGCTCCCTTTTTCTTTAGGGAGTAT-AGAACTCGAA-AATCTTCTGA-AAACGGGTTCG
1 CGGGTTCGCTCCCTTTTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTC-AACAAACGGGTTCG
* * * * * * * *
22143 CTCCCTCTTTCTTTAGGGAGTAT-AGAACTTGAA-AATCTTCTGCAATAGTGTCTTCTCCCTATT
64 CTCCCTATTCCTTAAGAGAGTATGAGAACTCGAACAATCTTCAGCAATCGTGTATT-TCCCTATT
*
22206 CCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAAT
128 CCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
* * * * * * * *
22244 AGTGTAT-GCTCCCTATTCCTTCAGAGAGTATAAGACTCAAACAATCTTCAACAATCGTGTCCGC
1 CGGGT-TCGCTCCCTTTTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGGGTTCGC
* * * * *
22308 TCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCATGTCATCTCCCTATTC
65 TCCCTATTCCTTAAGAGAGTATGAGAACTCGAACAATCTTCAGCAATCGTGT-ATTTCCCTATTC
22372 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
129 CTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
* * * ** *
22409 CGTG-TCTGCTCCCTGTTCCTAC-GGAGAGTATAAGACTCGAACAATCTTCAACAATTGTG-TCT
1 CGGGTTC-GCTCCCTTTTCCTTCAGG-GAGTATAAGACTCGAACAATCTTCAACAAACGGGTTC-
* *
22471 GCTCCCTATTCCTTCAGAGAGTATGAG-ACTCGAACAATCTTCAGCAATCGTGTATGTTCCTTAT
63 GCTCCCTATTCCTTAAGAGAGTATGAGAACTCGAACAATCTTCAGCAATCGTGTAT-TTCCCTAT
* *
22535 TTCTTCATAGAGTATAAGACTCGAACAATCTTCTGAA-AA-
127 TCCTTCAGAGAGTATAAGACTCGAACAATCTTC--AACAAT
* * * **
22574 CGGGTTCGCTCCCTTTTTCTTCAGGGAGTAT-GGAACTCGAACAACCTTCCGCAAACGGGTTCGC
1 CGGGTTCGCTCCCTTTTCCTTCAGGGAGTATAAG-ACTCGAACAATCTTCAACAAACGGGTTCGC
*
22638 TCCTTCT-TTCTTTAAG-GAGTATG-GAACTCGAACAATCTTC
65 TCC--CTATTCCTTAAGAGAGTATGAGAACTCGAACAATCTTC
22678 TTCTTATGGG
Statistics
Matches: 363, Mismatches: 50, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
163 31 0.09
164 49 0.13
165 263 0.72
166 16 0.04
167 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (165 bp):
CGGGTTCGCTCCCTTTTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGGGTTCGCT
CCCTATTCCTTAAGAGAGTATGAGAACTCGAACAATCTTCAGCAATCGTGTATTTCCCTATTCCT
TCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
Found at i:22689 original size:55 final size:55
Alignment explanation
Indices: 22553--22728 Score: 219
Period size: 55 Copynumber: 3.2 Consensus size: 55
22543 AGAGTATAAG
* * *
22553 ACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTT-TTTCTTCAGGGAGTATGGA
1 ACTCGAACAATCTTCCGCAAACGGGTTCGCT-CCTTCTTTCTTTAGGGAGTATGGA
* *
22608 ACTCGAACAACCTTCCGCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGA
1 ACTCGAACAATCTTCCGCAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGA
** ** * * * *
22663 ACTCGAACAATCTTCTTCTTATGGGTTCGTTCCCTCTTTCTTTAGGGAGTATAGA
1 ACTCGAACAATCTTCCGCAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGA
22718 ACTCGAACAAT
1 ACTCGAACAAT
22729 ATTCATTTGC
Statistics
Matches: 105, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
54 4 0.04
55 101 0.96
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (55 bp):
ACTCGAACAATCTTCCGCAAACGGGTTCGCTCCTTCTTTCTTTAGGGAGTATGGA
Found at i:22715 original size:165 final size:162
Alignment explanation
Indices: 21979--22733 Score: 546
Period size: 165 Copynumber: 4.6 Consensus size: 162
21969 CGGAAAACAT
* * * *
21979 GTTCACTCCCTATTCCTTCAAGGAGTA-GAAACTCGAACAATCTTTTGCCTACGGGTTCGTTCCC
1 GTTCGCTCCCTATTCCTT-AAGGAGTATG-AACTCGAACAATCTTCTG-CAATGGGTTCGTTCCC
* * * * ** * *
22043 TCTTTCTTTAGGGAGTATGAA-ACTCAAAC-ATCTTC--TTA-CGGGTTCGCTCCCTTTTTCTTT
63 TATTTCTTCAGAGAGTAT-AAGACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTTTTCCTTC
*
22103 AGGGAGTAT-AGAACTCGAA-AATCTTCTGA-AAACGG
127 AGGGAGTATAAG-ACTCGAACAATCTTC-AACAAACGG
* * * * * *
22138 GTTCGCTCCCTCTTTCTTTAGGGAGTATAGAACTTGAA-AATCTTCTGCAAT-AGTGTCTTCTCC
1 GTTCGCTCCCT-ATTCCTTAAGGAGTAT-GAACTCGAACAATCTTCTGCAATGGGT-TCGT-TCC
* * * * *
22201 CTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAATAATAGTGTAT-GCTCCCTATTCCTT
62 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGT-TCGCTCCCTTTTCCTT
* * * *
22265 CAGAGAGTATAAGACTCAAACAATCTTCAACAATCGT
126 CAGGGAGTATAAGACTCGAACAATCTTCAACAAACGG
* * * ** ** *
22302 GTCCGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT-CATGTCATCTCC
1 GTTCGCTCCCTATTCCTTAAG-GAGTATGA-ACTCGAACAATCTTCTGCAATGGGT-TCGT-TCC
* * * *
22366 CTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTG-TCTGCTCCCTGTTCCTA
62 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTTC-GCTCCCTTTTCCTT
** *
22430 C-GGAGAGTATAAGACTCGAACAATCTTCAACAATTGT
126 CAGG-GAGTATAAGACTCGAACAATCTTCAACAAACGG
* * *
22467 G-TCTGCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAGCAATCGTGTAT-GTTC
1 GTTC-GCTCCCTATTCCTTAAG-GAGTATGA-ACTCGAACAATCTTCTGCAAT-GGGT-TCGTTC
* * *
22530 CTTATTTCTTCATAGAGTATAAGACTCGAACAATCTTCTGAA-AA-CGGGTTCGCTCCCTTTTTC
61 CCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC--AACAATCGGGTTCGCTCCCTTTTCC
* * **
22593 TTCAGGGAGTAT-GGAACTCGAACAACCTTCCGCAAACGG
124 TTCAGGGAGTATAAG-ACTCGAACAATCTTCAACAAACGG
* * *
22632 GTTCGCTCCTTCT-TTCTTTAAGGAGTATGGAACTCGAACAATCTTCTTCTTATGGGTTCGTTCC
1 GTTCGCTCC--CTATTCCTTAAGGAGTAT-GAACTCGAACAATCTTCTGC-AATGGGTTCGTTCC
* * * *
22696 CTCTTTCTTTAGGGAGTAT-AGAACTCGAACAATATTCA
62 CTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCA
22734 TTTGCCTCAC
Statistics
Matches: 483, Mismatches: 78, Indels: 66
0.77 0.12 0.11
Matches are distributed among these distances:
157 2 0.00
158 7 0.01
159 50 0.10
160 18 0.04
161 1 0.00
162 2 0.00
163 39 0.08
164 42 0.09
165 296 0.61
166 20 0.04
167 6 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (162 bp):
GTTCGCTCCCTATTCCTTAAGGAGTATGAACTCGAACAATCTTCTGCAATGGGTTCGTTCCCTAT
TTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTTCGCTCCCTTTTCCTTCAGGG
AGTATAAGACTCGAACAATCTTCAACAAACGG
Found at i:23149 original size:37 final size:37
Alignment explanation
Indices: 23108--23286 Score: 202
Period size: 37 Copynumber: 4.8 Consensus size: 37
23098 TTGCTCCAAC
* * *
23108 ACTCTTCTGAGAAGGCTTAA-ACTGGATTTGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAGA-TAGATTTGCTTCACT
* * * *
23145 ACTCTTCAGTGAAGGCTTAAGA-CGGTTTAG-TTCATT
1 ACTCTTCGGTGAAGGCTTAAGATAGATTT-GCTTCACT
* *
23181 ACTCTTCGGTGAAGGCTTATGATAGATTAGCTTCACT
1 ACTCTTCGGTGAAGGCTTAAGATAGATTTGCTTCACT
* *
23218 ACTATTCGGTGAAGGCTTAAGATAGATTTTCTTCACT
1 ACTCTTCGGTGAAGGCTTAAGATAGATTTGCTTCACT
*
23255 ACTCTTCGGTGAAGGCTTAAGATTGACTTTGC
1 ACTCTTCGGTGAAGGCTTAAGATAGA-TTTGC
23287 CCCAATCTCC
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
36 30 0.25
37 84 0.71
38 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (37 bp):
ACTCTTCGGTGAAGGCTTAAGATAGATTTGCTTCACT
Found at i:23214 original size:73 final size:74
Alignment explanation
Indices: 23132--23273 Score: 205
Period size: 73 Copynumber: 1.9 Consensus size: 74
23122 GCTTAAACTG
* * * * * *
23132 GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGA-CGGTTTAGTTCATTACTCTTCGGTGAAGG
1 GATTAGCTTCACTACTATTCAGTGAAGGCTTAAGATAGATTTACTTCACTACTCTTCGGTGAAGG
23196 CTTATGATA
66 CTTATGATA
* *
23205 GATTAGCTTCACTACTATTCGGTGAAGGCTTAAGATAGATTTTCTTCACTACTCTTCGGTGAAGG
1 GATTAGCTTCACTACTATTCAGTGAAGGCTTAAGATAGATTTACTTCACTACTCTTCGGTGAAGG
23270 CTTA
66 CTTA
23274 AGATTGACTT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
73 32 0.53
74 28 0.47
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (74 bp):
GATTAGCTTCACTACTATTCAGTGAAGGCTTAAGATAGATTTACTTCACTACTCTTCGGTGAAGG
CTTATGATA
Found at i:28533 original size:6 final size:6
Alignment explanation
Indices: 28518--28567 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
28508 AAATAAATAC
* *
28518 ATGC-A ATGCAA ATGCAA ATGCTAA ATGTAG ATGCTAA ATGCAA ATGCAA
1 ATGCAA ATGCAA ATGCAA ATGC-AA ATGCAA ATGC-AA ATGCAA ATGCAA
28567 A
1 A
28568 AGGTGTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
5 4 0.11
6 24 0.63
7 10 0.26
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (6 bp):
ATGCAA
Found at i:28564 original size:13 final size:13
Alignment explanation
Indices: 28518--28564 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
28508 AAATAAATAC
28518 ATGC-AATGC-AA
1 ATGCAAATGCTAA
28529 ATGCAAATGCTAA
1 ATGCAAATGCTAA
* *
28542 ATGTAGATGCTAA
1 ATGCAAATGCTAA
28555 ATGCAAATGC
1 ATGCAAATGC
28565 AAAAGGTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 4 0.13
12 5 0.17
13 21 0.70
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (13 bp):
ATGCAAATGCTAA
Found at i:30944 original size:2 final size:2
Alignment explanation
Indices: 30937--30988 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
30927 ATAACCTATT
30937 TA TA TA TA TA 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 TA TA TA TA TA
30979 TA TA TA TA TA
1 TA TA TA TA TA
30989 CATGTAATAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31672 original size:14 final size:14
Alignment explanation
Indices: 31653--31682 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31643 AATAATAGAA
*
31653 AACAAAAATAACAT
1 AACAAAAAAAACAT
31667 AACAAAAAAAACAT
1 AACAAAAAAAACAT
31681 AA
1 AA
31683 GAAATTGATG
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:0.13, G:0.00, T:0.10
Consensus pattern (14 bp):
AACAAAAAAAACAT
Found at i:36219 original size:28 final size:28
Alignment explanation
Indices: 36164--36220 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
36154 AGGGTTCTAC
*
36164 GTGGTCATTCGGGACATATGTGTTCTAT
1 GTGGTCATTCGGGACATATGTGTCCTAT
*
36192 GTGGTCCTTCGGGACATA-GTGGTCCTAT
1 GTGGTCATTCGGGACATATGT-GTCCTAT
36220 G
1 G
36221 GGACAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.16, C:0.18, G:0.32, T:0.35
Consensus pattern (28 bp):
GTGGTCATTCGGGACATATGTGTCCTAT
Found at i:39519 original size:55 final size:55
Alignment explanation
Indices: 39435--39576 Score: 232
Period size: 55 Copynumber: 2.6 Consensus size: 55
39425 ATTGTATGAA
*
39435 TGTGTATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATTGAATGTCATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGTCATT
* *
39490 TGTGTATTGGTACACTGAGGAGTGTATCGATATACTCAAAACATCGAATGTCATT
1 TGTGTATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGTCATT
* *
39545 TGTGTATCGGTGCACTG-CGAGTGTATCGATAC
1 TGTGTATCGGTACACTGAGGAGTGTATCGATAC
39577 CCCCTGTTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 13 0.16
55 67 0.84
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (55 bp):
TGTGTATCGGTACACTGAGGAGTGTATCGATACACTCAAAACATCGAATGTCATT
Found at i:40629 original size:18 final size:18
Alignment explanation
Indices: 40579--40630 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
40569 TATGTTATAT
*
40579 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGAGACATA
*
40597 GTGGTCCTTCAAGACATA
1 GTGGTCCTTCGAGACATA
*
40615 GTGGTCCTACGAGACA
1 GTGGTCCTTCGAGACA
40631 AATTCTACGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (18 bp):
GTGGTCCTTCGAGACATA
Found at i:41183 original size:15 final size:15
Alignment explanation
Indices: 41163--41277 Score: 57
Period size: 15 Copynumber: 8.1 Consensus size: 15
41153 GAATTCTAAA
41163 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
41178 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
** *
41193 TCA--TCGAT-AATA-
1 T-ATTTAAATAAAAAT
41205 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
**
41220 TATTTCTATAAAAAT
1 TATTTAAATAAAAAT
** *
41235 TCA--TCGAT-AATA-
1 T-ATTTAAATAAAAAT
41247 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
**
41262 TATTTCTATAAAAAT
1 TATTTAAATAAAAAT
41277 T
1 T
41278 CATCGATAAT
Statistics
Matches: 74, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
11 2 0.03
12 2 0.03
13 12 0.16
14 13 0.18
15 43 0.58
16 2 0.03
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:41213 original size:42 final size:42
Alignment explanation
Indices: 41162--41292 Score: 253
Period size: 42 Copynumber: 3.1 Consensus size: 42
41152 TGAATTCTAA
*
41162 ATATTTAAATAAAAATTATTTATATAAAAATTCATCGATAAT
1 ATATTTAAATAAAAATTATTTCTATAAAAATTCATCGATAAT
41204 ATATTTAAATAAAAATTATTTCTATAAAAATTCATCGATAAT
1 ATATTTAAATAAAAATTATTTCTATAAAAATTCATCGATAAT
41246 ATATTTAAATAAAAATTATTTCTATAAAAATTCATCGATAAT
1 ATATTTAAATAAAAATTATTTCTATAAAAATTCATCGATAAT
41288 ATATT
1 ATATT
41293 ACTTTATTAT
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.41
Consensus pattern (42 bp):
ATATTTAAATAAAAATTATTTCTATAAAAATTCATCGATAAT
Found at i:55927 original size:16 final size:16
Alignment explanation
Indices: 55906--55945 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
55896 ACGAATTCTG
55906 ATATTCATTGGATTGT
1 ATATTCATTGGATTGT
55922 ATATTCATTGGATTGT
1 ATATTCATTGGATTGT
55938 ATATTCAT
1 ATATTCAT
55946 GTAGATATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (16 bp):
ATATTCATTGGATTGT
Found at i:57020 original size:21 final size:20
Alignment explanation
Indices: 56982--57020 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
56972 TGTTAAGTAG
*
56982 TTATAGTTTCAATTATTCAT
1 TTATAGTTTCAATAATTCAT
*
57002 TTATATGTTTCACTAATTC
1 TTATA-GTTTCAATAATTC
57021 TATGACTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (20 bp):
TTATAGTTTCAATAATTCAT
Found at i:58169 original size:3 final size:3
Alignment explanation
Indices: 58161--58233 Score: 119
Period size: 3 Copynumber: 24.3 Consensus size: 3
58151 ATATTAATTA
* *
58161 ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
58209 ATT ATT ATT ATC ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
58234 AATATATTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:58241 original size:12 final size:14
Alignment explanation
Indices: 58166--58242 Score: 81
Period size: 15 Copynumber: 5.6 Consensus size: 14
58156 AATTAATTAT
58166 TATTATTATTATAA
1 TATTATTATTATAA
*
58180 TTATTATTATTATTA
1 -TATTATTATTATAA
58195 TAATTATTATTAT--
1 T-ATTATTATTATAA
*
58208 TATTATTATTATCAT
1 TATTATTATTAT-AA
58223 TATTATTATTA-AA
1 TATTATTATTATAA
58236 TA-TATTA
1 TATTATTA
58243 AATACATATA
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
12 16 0.29
13 4 0.07
14 1 0.02
15 35 0.62
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATTATTATAA
Found at i:60446 original size:15 final size:13
Alignment explanation
Indices: 60426--60463 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
60416 TTTATATGTT
60426 TTATTTTATTTACAA
1 TTATTTTATTT-C-A
60441 TTATTTTATTTCA
1 TTATTTTATTTCA
60454 TTA-TTTATTT
1 TTATTTTATTT
60464 TGCTGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 1 0.04
15 11 0.48
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTTTATTTCA
Found at i:71079 original size:9 final size:9
Alignment explanation
Indices: 71065--71130 Score: 78
Period size: 9 Copynumber: 6.9 Consensus size: 9
71055 ATTATGCTTG
71065 AAGAAAAGAA
1 AAGAAAA-AA
*
71075 AGAAAAAAAA
1 A-AGAAAAAA
71085 AGAGAAAAAA
1 A-AGAAAAAA
71095 AAGAAAAAAA
1 AAG-AAAAAA
71105 AAGAAAAAA
1 AAGAAAAAA
*
71114 AAGAGAAAA
1 AAGAAAAAA
71123 AAGAAAAA
1 AAGAAAAA
71131 GAAAAAGGAG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
9 23 0.46
10 22 0.44
11 5 0.10
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:71092 original size:21 final size:20
Alignment explanation
Indices: 71068--71134 Score: 93
Period size: 21 Copynumber: 3.4 Consensus size: 20
71058 ATGCTTGAAG
71068 AAAAGAAAGAAAAAAAAAGA
1 AAAAGAAAGAAAAAAAAAGA
*
71088 GAAAAAAAAGAAAAAAAAAGA
1 -AAAAGAAAGAAAAAAAAAGA
*
71109 AAAA-AAAG-AGAAAAAAGA
1 AAAAGAAAGAAAAAAAAAGA
71127 AAAAGAAA
1 AAAAGAAA
71135 AAGGAGGGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.30
19 7 0.16
20 4 0.09
21 19 0.44
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAGAAAGAAAAAAAAAGA
Found at i:71101 original size:19 final size:19
Alignment explanation
Indices: 71079--71137 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
71069 AAAGAAAGAA
71079 AAAAAAAGAGAAAAAAAAG
1 AAAAAAAGAGAAAAAAAAG
*
71098 AAAAAAAAAGAAAAAAAAG
1 AAAAAAAGAGAAAAAAAAG
*
71117 AGAAAAAAGAAAAAGAAAAAG
1 A-AAAAAAGAGAAA-AAAAAG
71138 GAGGGTCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
19 19 0.54
20 10 0.29
21 6 0.17
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAGAAAAAAAAG
Found at i:71101 original size:30 final size:31
Alignment explanation
Indices: 71065--71137 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 31
71055 ATTATGCTTG
*
71065 AAGAAAAGAAAGA-AAAAAAAAGAGAAAAAA
1 AAGAAAAGAAAAAGAAAAAAAAGAGAAAAAA
71095 AAGAAAA-AAAAAGAAAAAAAAGAGAAAAAA
1 AAGAAAAGAAAAAGAAAAAAAAGAGAAAAAA
*
71125 GA-AAAAGAAAAAG
1 AAGAAAAGAAAAAG
71138 GAGGGTCAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 8 0.21
30 31 0.79
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (31 bp):
AAGAAAAGAAAAAGAAAAAAAAGAGAAAAAA
Found at i:71135 original size:21 final size:19
Alignment explanation
Indices: 71065--71137 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 19
71055 ATTATGCTTG
*
71065 AAGAAAAGAAAGAA-AAAAA
1 AAGAAAA-AAAAAAGAAAAA
*
71084 AAGAGAAAAAAAAGAAAAA
1 AAGAAAAAAAAAAGAAAAA
71103 AA-AAGAAAAAAAAGAGAAAA
1 AAGAA-AAAAAAAAGA-AAAA
71123 AAGAAAAAGAAAAAG
1 AAGAAAAA-AAAAAG
71138 GAGGGTCAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 6 0.13
19 23 0.50
20 9 0.20
21 8 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAAAAAGAAAAA
Found at i:72256 original size:83 final size:83
Alignment explanation
Indices: 72109--72330 Score: 390
Period size: 83 Copynumber: 2.7 Consensus size: 83
72099 GAACAAATGT
*
72109 AATGTGCTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAGAACCAA
1 AATGTGC-TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAA
*
72174 TCATTGAATTTGGAAGATG
65 TCATTGAATTTAGAAGATG
* *
72193 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCATAACCAAT
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
72258 CATTGAATTTAGAAGATG
66 CATTGAATTTAGAAGATG
*
72276 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
72331 TAGGAACTAC
Statistics
Matches: 132, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 126 0.95
84 6 0.05
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (83 bp):
AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
CATTGAATTTAGAAGATG
Found at i:73192 original size:114 final size:114
Alignment explanation
Indices: 73063--74406 Score: 2268
Period size: 114 Copynumber: 11.8 Consensus size: 114
73053 AATCTATCAT
73063 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
73128 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
73177 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
73242 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATC-AT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
73290 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
73355 AGTTTATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
* * *
73404 TTGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
73469 AGTTCATAATGAGAAGAATTTATTCAACCTTTTACCTGAATTCATC-AT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
73517 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
73582 AGTTTATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
* * * * *
73631 TTGATGGATTAGCTTTTCCAGAGAAGGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
73696 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATC-AT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
* *
73744 TTGATTGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCGGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
73809 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
*
73858 TTGATGGATCATCATTTCCAGAGAAAGCTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
73923 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATC-AT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
73971 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
74036 AGTTTATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
* * * *
74085 TTGATGGATTAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
74150 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
* *
74199 TTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * ** * * *
74264 AGTTCATAATGATAAGAACTTATTCAATTTTTTGCTTGAATTCATC-AT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
* * *
74312 TTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAG
1 TTGATGGATCATCATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAG
* *
74376 AAGAAGTTCATAATAAGAAGAACTTGTTCAA
62 AAGAAGTTCATAATGAGAAGAATTTGTTCAA
74407 TAACTCTATT
Statistics
Matches: 1162, Mismatches: 60, Indels: 14
0.94 0.05 0.01
Matches are distributed among these distances:
112 1 0.00
113 470 0.40
114 645 0.56
115 1 0.00
116 45 0.04
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (114 bp):
TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAA
Found at i:73453 original size:227 final size:227
Alignment explanation
Indices: 73058--74406 Score: 2333
Period size: 227 Copynumber: 5.9 Consensus size: 227
73048 ATTCAAATCT
73058 ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
73123 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATCA
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATCA
*
73188 TCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
131 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
73253 AGAAGAATTTGTTCAACCTTTTACCTGAATTC
196 AGAAGAATTTGTTCAACCTTTTACCTGAATTC
73285 ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
73350 GAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTA
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATCA
*
73415 GCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
131 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
*
73480 AGAAGAATTTATTCAACCTTTTACCTGAATTC
196 AGAAGAATTTGTTCAACCTTTTACCTGAATTC
73512 ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
73577 GAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTA
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATCA
* * *
73642 GCTTTTCCAGAGAAGGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
131 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
73707 AGAAGAATTTGTTCAACCTTTTACCTGAATTC
196 AGAAGAATTTGTTCAACCTTTTACCTGAATTC
* *
73739 ATCATTTGATTGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCGGAAGAAGGAA
1 ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
73804 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATCA
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATCA
* *
73869 TCATTTCCAGAGAAAGCTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
131 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
73934 AGAAGAATTTGTTCAACCTTTTACCTGAATTC
196 AGAAGAATTTGTTCAACCTTTTACCTGAATTC
73966 ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
74031 GAAGAAGTTTATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTA
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATCA
* *
74096 GCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
131 GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
74161 AGAAGAATTTGTTCAACCTTTTACCTGAATTC
196 AGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * *
74193 ATCAAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATC-ATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * ** * * *
74258 AGAAGAAGTTCATAATGATAAGAACTTATTCAATTTTTTGCTTGAATTCATC-ATTTGATGGATC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATC
* * *
74322 AACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCA
130 AGCATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCA
* *
74386 TAATAAGAAGAACTTGTTCAA
191 TAATGAGAAGAATTTGTTCAA
74407 TAACTCTATT
Statistics
Matches: 1072, Mismatches: 45, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
226 1 0.00
227 922 0.86
228 102 0.10
229 1 0.00
230 46 0.04
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (227 bp):
ATCATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATCA
GCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
AGAAGAATTTGTTCAACCTTTTACCTGAATTC
Found at i:74443 original size:3 final size:3
Alignment explanation
Indices: 74430--74531 Score: 132
Period size: 3 Copynumber: 33.7 Consensus size: 3
74420 TTTTTACCCA
*
74430 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
74476 AAT AAT AAT AAT AAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
74524 TAT TAT TA
1 TAT TAT TA
74532 AATATATTAA
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
3 91 0.97
4 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:74979 original size:18 final size:18
Alignment explanation
Indices: 74956--74992 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
74946 CCTGAAAAAA
*
74956 AAAAAAAAAAGAAGACAG
1 AAAAAAAAAAGAACACAG
*
74974 AAAAAAAGAAGAACACAG
1 AAAAAAAAAAGAACACAG
74992 A
1 A
74993 GCCGGAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGAACACAG
Found at i:78342 original size:22 final size:22
Alignment explanation
Indices: 78274--78342 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
78264 ATCGAAAGGG
* *
78274 AGTATCGGTACCATAGTGTAGT
1 AGTATCGGTACCATAGTATAGA
* * *
78296 AGTATCGATACTA-AG-AGA-A
1 AGTATCGGTACCATAGTATAGA
78315 AGGTATCGGTACCATAGTATAGA
1 A-GTATCGGTACCATAGTATAGA
78338 AGTAT
1 AGTAT
78343 TAATACCATG
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 4 0.11
22 17 0.49
23 2 0.06
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (22 bp):
AGTATCGGTACCATAGTATAGA
Found at i:78762 original size:56 final size:56
Alignment explanation
Indices: 78689--78984 Score: 441
Period size: 56 Copynumber: 5.3 Consensus size: 56
78679 ATTACCAAAT
* *
78689 GGCACTGTGTGTACAAAAACTAAGAAATTCATAGTAAGTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
78745 GACACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * *
78801 GGCAATGTGTGTGCAAAAACCAAGAAATTCATAATAAGTTTATGAATTTTCGTATG
1 GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * *
78857 GGCACTGTGTGTGTAAAAACTAAGAAATTCTTAATAAGTTTATGAATTTTCGTATG
1 GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * * *
78913 GGTAATATGTGTGCAAAAACTAAGAAATTTATAATAAGTTTATGAATTTCCATATG
1 GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
**
78969 GG-ACTACGTGTGCAAA
1 GGCACTGTGTGTGCAAA
78985 CTATAGAGTT
Statistics
Matches: 219, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
55 12 0.05
56 207 0.95
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (56 bp):
GGCACTGTGTGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:79116 original size:45 final size:45
Alignment explanation
Indices: 79065--79276 Score: 318
Period size: 45 Copynumber: 4.7 Consensus size: 45
79055 AAAATAAAAG
79065 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
** * * *
79110 ATTAAAGGCATGAAAAAATGTCATAAATGAAATGTATAACGATGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
*
79155 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGAATAACGGTGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
* * * *
79200 ATTAAAGGTATGAAATGATGTCATAAATGAAATGCATAATGGTGC
1 ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
79245 ATTAAAGGCATGAAAGGATGACC-TAAATGAAA
1 ATTAAAGGCATGAAAGGATG-CCATAAATGAAA
79277 ATAATAAATA
Statistics
Matches: 148, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 147 0.99
46 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (45 bp):
ATTAAAGGCATGAAAGGATGCCATAAATGAAATGCATAACGGTGC
Found at i:82412 original size:20 final size:20
Alignment explanation
Indices: 82363--82425 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 20
82353 CAGTGTGTTT
* *
82363 AAAAATTTTGATACTTTCAC
1 AAAAATTTTGAAACTTTCTC
*
82383 -AAAGTTTTGAAACTTTCTC
1 AAAAATTTTGAAACTTTCTC
*
82402 AAAACTTTTGAAACTTTCTTC
1 AAAAATTTTGAAACTTTC-TC
82423 AAA
1 AAA
82426 GTTTCGAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 16 0.43
20 16 0.43
21 5 0.14
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (20 bp):
AAAAATTTTGAAACTTTCTC
Found at i:82434 original size:20 final size:19
Alignment explanation
Indices: 82368--82436 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 19
82358 TGTTTAAAAA
* *
82368 TTTTGATACTTTCACAAAG
1 TTTTGAAACTTTCTCAAAG
*
82387 TTTTGAAACTTTCTCAAAAC
1 TTTTGAAACTTTCTC-AAAG
82407 TTTTGAAACTTTCTTCAAAG
1 TTTTGAAACTTTC-TCAAAG
*
82427 TTTCGAAACT
1 TTTTGAAACT
82437 GCATGTGCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 13 0.30
20 28 0.65
21 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (19 bp):
TTTTGAAACTTTCTCAAAG
Found at i:82529 original size:20 final size:20
Alignment explanation
Indices: 82476--82521 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
82466 TTTAAAGCTT
82476 CCCAACGGCTATAACTCATC
1 CCCAACGGCTATAACTCATC
82496 CCCAACGGCTATAACTCATC
1 CCCAACGGCTATAACTCATC
82516 CCCAAC
1 CCCAAC
82522 AGTCATAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.43, G:0.09, T:0.17
Consensus pattern (20 bp):
CCCAACGGCTATAACTCATC
Found at i:85480 original size:41 final size:41
Alignment explanation
Indices: 85435--85517 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
85425 ACTTTCCAGT
85435 TAGGAATCGGGTTTAGAGCCAATGGACGATGTTGGTTACTA
1 TAGGAATCGGGTTTAGAGCCAATGGACGATGTTGGTTACTA
85476 TAGGAATCGGGTTTAGAGCCAATGGACGATGTTGGTTACTA
1 TAGGAATCGGGTTTAGAGCCAATGGACGATGTTGGTTACTA
85517 T
1 T
85518 TTTAAATCCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (41 bp):
TAGGAATCGGGTTTAGAGCCAATGGACGATGTTGGTTACTA
Found at i:87807 original size:31 final size:31
Alignment explanation
Indices: 87772--87877 Score: 203
Period size: 31 Copynumber: 3.4 Consensus size: 31
87762 CACACTGGTG
*
87772 ATCCATGAGCTTTTATCAATGTTCCATTTTC
1 ATCCATGACCTTTTATCAATGTTCCATTTTC
87803 ATCCATGACCTTTTATCAATGTTCCATTTTC
1 ATCCATGACCTTTTATCAATGTTCCATTTTC
87834 ATCCATGACCTTTTATCAATGTTCCATTTTC
1 ATCCATGACCTTTTATCAATGTTCCATTTTC
87865 ATCCATGACCTTT
1 ATCCATGACCTTT
87878 AGAAGTCACA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.44
Consensus pattern (31 bp):
ATCCATGACCTTTTATCAATGTTCCATTTTC
Found at i:89533 original size:13 final size:13
Alignment explanation
Indices: 89515--89558 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
89505 TATTAAAATT
89515 AAAAATATTATAA
1 AAAAATATTATAA
89528 AAAAATATGTATAA
1 AAAAATAT-TATAA
89542 TAAAAATATTA-AA
1 -AAAAATATTATAA
89555 AAAA
1 AAAA
89559 TTAATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.14
13 10 0.34
14 7 0.24
15 8 0.28
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
AAAAATATTATAA
Found at i:98713 original size:26 final size:26
Alignment explanation
Indices: 98671--98730 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
98661 TATCATATTG
* *
98671 TATATA-TAATATGTTAT-CATTATAT
1 TATATAGTAATATGTTATACA-TAAAA
*
98696 TATATAGTAATATTTTATACATAAAA
1 TATATAGTAATATGTTATACATAAAA
98722 TATATAGTA
1 TATATAGTA
98731 GTAGTTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 6 0.20
26 22 0.73
27 2 0.07
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (26 bp):
TATATAGTAATATGTTATACATAAAA
Found at i:98765 original size:18 final size:19
Alignment explanation
Indices: 98720--98768 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
98710 TTATACATAA
98720 AATATATAGTAGTAGTTTTTG
1 AATATATA-TAGTA-TTTTTG
* *
98741 AAAATATATAGT-TTTTTT
1 AATATATATAGTATTTTTG
98759 AATATATATA
1 AATATATATA
98769 TATATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 14 0.56
20 4 0.16
21 7 0.28
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
AATATATATAGTATTTTTG
Found at i:98817 original size:23 final size:21
Alignment explanation
Indices: 98782--98881 Score: 89
Period size: 21 Copynumber: 4.7 Consensus size: 21
98772 ATATATACAC
98782 TATAG-TTTTGAAAATAATATAA
1 TATAGTTTTTGAAAAT-ATAT-A
*
98804 TATAGTTTTTGAAAACAT-TA
1 TATAGTTTTTGAAAATATATA
*
98824 TATAATTTTTTGAAAATATAATA
1 TAT-AGTTTTTGAAAATAT-ATA
* **
98847 TATA-TTTTTTAATCTATATA
1 TATAGTTTTTGAAAATATATA
*
98867 TAAAGTTTTTGAAAA
1 TATAGTTTTTGAAAA
98882 CGAATTGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
20 10 0.16
21 31 0.49
22 8 0.13
23 14 0.22
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (21 bp):
TATAGTTTTTGAAAATATATA
Done.