Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006648.1 Hibiscus syriacus cultivar Beakdansim tig00016395_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: 145979
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4845 original size:5 final size:5
Alignment explanation
Indices: 4835--4886 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
4825 AACGGTCAAC
* *
4835 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTC- GGTCG GGTCG AGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
4886 G
1 G
4887 ATCAACCGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 4 0.10
5 32 0.80
7 4 0.10
ACGTcount: A:0.06, C:0.21, G:0.54, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:4850 original size:17 final size:17
Alignment explanation
Indices: 4828--4865 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
4818 AACGGTCAAC
4828 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
4845 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
4862 GGTC
1 GGTC
4866 GGGTCGGTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:4855 original size:7 final size:7
Alignment explanation
Indices: 4801--4838 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
4791 GGTCAAAGGA
*
4801 GGTCAAT
1 GGTCAAC
*
4808 GGTC-AT
1 GGTCAAC
4814 GGTCAAC
1 GGTCAAC
4821 GGTCAAC
1 GGTCAAC
4828 GGTCAAC
1 GGTCAAC
4835 GGTC
1 GGTC
4839 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.21
Consensus pattern (7 bp):
GGTCAAC
Found at i:7289 original size:20 final size:21
Alignment explanation
Indices: 7239--7295 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
7229 AGAGTTATCC
7239 AAGGGATCGATCCTTTGGTCA
1 AAGGGATCGATCCTTTGGTCA
* *
7260 AAGGGATCGATCCTTTTG-CG
1 AAGGGATCGATCCTTTGGTCA
*
7280 AAGGGGTCGATCCTTT
1 AAGGGATCGATCCTTT
7296 AAGCCAGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (21 bp):
AAGGGATCGATCCTTTGGTCA
Found at i:9875 original size:21 final size:21
Alignment explanation
Indices: 9849--9907 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
9839 TTTAAGGCAC
9849 AAGGGATCGATCCTTTTACCA
1 AAGGGATCGATCCTTTTACCA
9870 AAGGGATCGATCCTTTTACCA
1 AAGGGATCGATCCTTTTACCA
* *
9891 AATGGATCGATCATTTT
1 AAGGGATCGATCCTTTT
9908 TCAAATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (21 bp):
AAGGGATCGATCCTTTTACCA
Found at i:10068 original size:21 final size:21
Alignment explanation
Indices: 10022--10079 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
10012 ACTCTTGTCC
*
10022 AAGGGATCGATCCTTT-TTCA
1 AAGGGATCGATCCTTTGGTCA
* *
10042 AGGGGATTGATCCTTTGGTCA
1 AAGGGATCGATCCTTTGGTCA
10063 AAGGGATCGATCCTTTG
1 AAGGGATCGATCCTTTG
10080 AGCCAGATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (21 bp):
AAGGGATCGATCCTTTGGTCA
Found at i:11175 original size:16 final size:16
Alignment explanation
Indices: 11156--11245 Score: 87
Period size: 16 Copynumber: 5.7 Consensus size: 16
11146 TAGTTGAATC
*
11156 GAAAGCAACTCGAACT
1 GAAATCAACTCGAACT
11172 GAAATCAACTCGAA-T
1 GAAATCAACTCGAACT
* *
11187 CGAAATCAACCCAAACT
1 -GAAATCAACTCGAACT
*
11204 GAAATCAA-TCCGAACC
1 GAAATCAACT-CGAACT
*
11220 GAAA-CAACCCGAACT
1 GAAATCAACTCGAACT
*
11235 GAAAACAACTC
1 GAAATCAACTC
11246 AAAGCAAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
15 13 0.22
16 46 0.77
17 1 0.02
ACGTcount: A:0.47, C:0.29, G:0.12, T:0.12
Consensus pattern (16 bp):
GAAATCAACTCGAACT
Found at i:11187 original size:32 final size:32
Alignment explanation
Indices: 11151--11259 Score: 123
Period size: 32 Copynumber: 3.4 Consensus size: 32
11141 AATTTTAGTT
*
11151 GAATCGAAAGCAACTCGAACTGAAATCAACTC
1 GAATCGAAAGCAACCCGAACTGAAATCAACTC
* *
11183 GAATCGAAATCAACCCAAACTGAAATCAA-TCC
1 GAATCGAAAGCAACCCGAACTGAAATCAACT-C
* *
11215 GAACCGAAA-CAACCCGAACTGAAAACAACTC
1 GAATCGAAAGCAACCCGAACTGAAATCAACTC
* * *
11246 AAAGCAAAAGCAAC
1 GAATCGAAAGCAAC
11260 ATGAATTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 25 0.38
32 40 0.62
ACGTcount: A:0.49, C:0.28, G:0.13, T:0.11
Consensus pattern (32 bp):
GAATCGAAAGCAACCCGAACTGAAATCAACTC
Found at i:11749 original size:26 final size:25
Alignment explanation
Indices: 11720--11775 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
11710 AAAATTTTTG
*
11720 TTTTAAAAAAATTTATAAATAAATTA
1 TTTTAAAAAAATATATAAAT-AATTA
* * *
11746 TTTTTATAAAATATATAAATATTTA
1 TTTTAAAAAAATATATAAATAATTA
11771 TTTTA
1 TTTTA
11776 GTTTATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTTAAAAAAATATATAAATAATTA
Found at i:13116 original size:77 final size:77
Alignment explanation
Indices: 12989--13163 Score: 350
Period size: 77 Copynumber: 2.3 Consensus size: 77
12979 AATAACTTTG
12989 AATAGATCTCAGTCATTTAACTATATCAGTATTATTTAACTAAAATTATTATTAATCTGAGATTA
1 AATAGATCTCAGTCATTTAACTATATCAGTATTATTTAACTAAAATTATTATTAATCTGAGATTA
13054 CTTAAGAAGTCT
66 CTTAAGAAGTCT
13066 AATAGATCTCAGTCATTTAACTATATCAGTATTATTTAACTAAAATTATTATTAATCTGAGATTA
1 AATAGATCTCAGTCATTTAACTATATCAGTATTATTTAACTAAAATTATTATTAATCTGAGATTA
13131 CTTAAGAAGTCT
66 CTTAAGAAGTCT
13143 AATAGATCTCAGTCATTTAAC
1 AATAGATCTCAGTCATTTAAC
13164 GAAAATTATT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 98 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (77 bp):
AATAGATCTCAGTCATTTAACTATATCAGTATTATTTAACTAAAATTATTATTAATCTGAGATTA
CTTAAGAAGTCT
Found at i:22681 original size:15 final size:15
Alignment explanation
Indices: 22661--22698 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
22651 TTGTTGGACT
22661 AAGAAG-AAGCAAGTA
1 AAGAAGCAA-CAAGTA
*
22676 AAGAAGCAACAAGTG
1 AAGAAGCAACAAGTA
22691 AAGAAGCA
1 AAGAAGCA
22699 GCCTCAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.58, C:0.11, G:0.26, T:0.05
Consensus pattern (15 bp):
AAGAAGCAACAAGTA
Found at i:29367 original size:76 final size:75
Alignment explanation
Indices: 29242--29383 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 75
29232 TATCCGAGAT
* * * * *
29242 TTATACAACTGAGATGAAGAATGAGGCAAGAAATTGATGTGGAAACTGCAGTGTTGAAGCACAAG
1 TTATACAACTGAGATGAAGAAAGAGGCAAGAAATTGATGCGGAAACTGCAATATTCAAGCACAAG
29307 AATCGACGAC
66 AATCGACGAC
*
29317 TTATACAACTGAGATGGATGATAAG-GGCAAGAAATTGATGCGGAAACTGCAATATTCAAGCACA
1 TTATACAACTGAGAT-GAAGA-AAGAGGCAAGAAATTGATGCGGAAACTGCAATATTCAAGCACA
29381 AGA
64 AGA
29384 TGTGTTTTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 15 0.25
76 42 0.71
77 2 0.03
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.20
Consensus pattern (75 bp):
TTATACAACTGAGATGAAGAAAGAGGCAAGAAATTGATGCGGAAACTGCAATATTCAAGCACAAG
AATCGACGAC
Found at i:31836 original size:41 final size:42
Alignment explanation
Indices: 31778--31990 Score: 183
Period size: 42 Copynumber: 5.2 Consensus size: 42
31768 TACATATAGC
* * * *
31778 GGCGTTT-TTCAACAAACGTCGCATAAAAT-CGTACTTTGGT
1 GGCGTTTATTCGACAAACGCCGCATAAAATAAGTACTTTAGT
* *
31818 GGCGTTTATTTGACAAACGCCGC-TAAAGATAAGTACTTTGGT
1 GGCGTTTATTCGACAAACGCCGCATAAA-ATAAGTACTTTAGT
* *
31860 AGCGTTTATTCGACAAACGCCAC-TAAAGATAAGTACTTTAGT
1 GGCGTTTATTCGACAAACGCCGCATAAA-ATAAGTACTTTAGT
* * * *
31902 GGCGTTTGTAT--ACAAACGCCGCCATAGAAT-CGTTCTTTAGT
1 GGCGTTTAT-TCGACAAACGCCG-CATAAAATAAGTACTTTAGT
* * *
31943 GGC-TTTATTCAACAAACGTCGCCA-AAGATAAGTACTTTAGT
1 GGCGTTTATTCGACAAACGCCG-CATAAAATAAGTACTTTAGT
31984 GGCGTTT
1 GGCGTTT
31991 GTAAACAAAC
Statistics
Matches: 143, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
39 1 0.01
40 18 0.13
41 59 0.41
42 61 0.43
43 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (42 bp):
GGCGTTTATTCGACAAACGCCGCATAAAATAAGTACTTTAGT
Found at i:31856 original size:42 final size:42
Alignment explanation
Indices: 31808--31990 Score: 203
Period size: 42 Copynumber: 4.4 Consensus size: 42
31798 GCATAAAATC
* * *
31808 GTACTTTGGTGGCGTTTATTTGACAAACGCCGCTAAAGATAA
1 GTACTTTAGTGGCGTTTATTCGACAAACGCCGCCAAAGATAA
* * * *
31850 GTACTTTGGTAGCGTTTATTCGACAAACGCCACTAAAGATAA
1 GTACTTTAGTGGCGTTTATTCGACAAACGCCGCCAAAGATAA
* * *
31892 GTACTTTAGTGGCGTTTGTAT--ACAAACGCCGCCATAGA-ATC
1 GTACTTTAGTGGCGTTTAT-TCGACAAACGCCGCCAAAGATA-A
* * *
31933 GTTCTTTAGTGGC-TTTATTCAACAAACGTCGCCAAAGATAA
1 GTACTTTAGTGGCGTTTATTCGACAAACGCCGCCAAAGATAA
31974 GTACTTTAGTGGCGTTT
1 GTACTTTAGTGGCGTTT
31991 GTAAACAAAC
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 53 0.45
42 59 0.50
43 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (42 bp):
GTACTTTAGTGGCGTTTATTCGACAAACGCCGCCAAAGATAA
Found at i:31970 original size:82 final size:83
Alignment explanation
Indices: 31785--32042 Score: 274
Period size: 82 Copynumber: 3.1 Consensus size: 83
31775 AGCGGCGTTT
* * * * * * *
31785 TTCAACAAACGTCG-CATAAAAT-CGTACTTTGGTGGCGTTTATTTGACAAACGCCGCTAAAG-A
1 TTCAACAAACGTCGCCA-AAGATAAGTACTTTAGTGGCGTTTGTAT-ACAAACGCCGCCATAGAA
* * * * *
31847 TAAGTACTTTGGTAGCGTTTA
64 T-CGTTCTTTAGTGGCATTTA
* * * *
31868 TTCGACAAACGCCACTAAAGATAAGTACTTTAGTGGCGTTTGTATACAAACGCCGCCATAGAATC
1 TTCAACAAACGTCGCCAAAGATAAGTACTTTAGTGGCGTTTGTATACAAACGCCGCCATAGAATC
31933 GTTCTTTAGTGGC-TTTA
66 GTTCTTTAGTGGCATTTA
* **
31950 TTCAACAAACGTCGCCAAAGATAAGTACTTTAGTGGCGTTTGTAAACAAACGCCATCATAGAATC
1 TTCAACAAACGTCGCCAAAGATAAGTACTTTAGTGGCGTTTGTATACAAACGCCGCCATAGAATC
32015 GTTCTTTAGTGGCATTT-
66 GTTCTTTAGTGGCATTTA
*
32032 TTAAACAAACG
1 TTCAACAAACG
32043 CCGCAATAGG
Statistics
Matches: 148, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
82 85 0.57
83 42 0.28
84 21 0.14
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (83 bp):
TTCAACAAACGTCGCCAAAGATAAGTACTTTAGTGGCGTTTGTATACAAACGCCGCCATAGAATC
GTTCTTTAGTGGCATTTA
Found at i:31998 original size:41 final size:42
Alignment explanation
Indices: 31778--32046 Score: 198
Period size: 41 Copynumber: 6.5 Consensus size: 42
31768 TACATATAGC
* * * *
31778 GGCGTTT-TTCAACAAACGTCG-CATAAAAT-CGTACTTTGGT
1 GGCGTTTATTCAACAAACGCCGCCA-AAGATAAGTACTTTAGT
** * *
31818 GGCGTTTATTTGACAAACGCCGCTAAAGATAAGTACTTTGGT
1 GGCGTTTATTCAACAAACGCCGCCAAAGATAAGTACTTTAGT
* * * *
31860 AGCGTTTATTCGACAAACGCCACTAAAGATAAGTACTTTAGT
1 GGCGTTTATTCAACAAACGCCGCCAAAGATAAGTACTTTAGT
* * * *
31902 GGCGTTT-GT-ATACAAACGCCGCCATAGA-ATCGTTCTTTAGT
1 GGCGTTTATTCA-ACAAACGCCGCCAAAGATA-AGTACTTTAGT
*
31943 GGC-TTTATTCAACAAACGTCGCCAAAGATAAGTACTTTAGT
1 GGCGTTTATTCAACAAACGCCGCCAAAGATAAGTACTTTAGT
* * ** * * *
31984 GGCGTTT-GTAAACAAACGCCATCATAGA-ATCGTTCTTTAGT
1 GGCGTTTATTCAACAAACGCCGCCAAAGATA-AGTACTTTAGT
* *
32025 GGCATTT-TTAAACAAACGCCGC
1 GGCGTTTATTCAACAAACGCCGC
32047 AATAGGGTAC
Statistics
Matches: 184, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
40 12 0.07
41 112 0.61
42 60 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (42 bp):
GGCGTTTATTCAACAAACGCCGCCAAAGATAAGTACTTTAGT
Found at i:32613 original size:2 final size:2
Alignment explanation
Indices: 32606--32632 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32596 GTTATTAATT
32606 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 T
32633 TAAATGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34196 original size:27 final size:25
Alignment explanation
Indices: 34146--34197 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
34136 GTTTATGATG
*
34146 TATTATATGTATGACATGATTAATT
1 TATTATATGTATGACATGAGTAATT
*
34171 TATTATATGATTATTACATGAGTAATT
1 TATTATATG--TATGACATGAGTAATT
34198 ATTTGCATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
27 14 0.61
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (25 bp):
TATTATATGTATGACATGAGTAATT
Found at i:38794 original size:27 final size:25
Alignment explanation
Indices: 38744--38795 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
38734 GTTTATGATG
*
38744 TATTATATGTATGACATGATTAATT
1 TATTATATGTATGACATGAGTAATT
*
38769 TATTATATGATTATTACATGAGTAATT
1 TATTATATG--TATGACATGAGTAATT
38796 ATTTGCATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
27 14 0.61
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (25 bp):
TATTATATGTATGACATGAGTAATT
Found at i:40454 original size:31 final size:31
Alignment explanation
Indices: 40416--40538 Score: 194
Period size: 31 Copynumber: 4.0 Consensus size: 31
40406 CCCGAAGGAC
* * *
40416 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
40447 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
40478 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
40509 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
40539 CCCTCGACCC
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:41372 original size:21 final size:21
Alignment explanation
Indices: 41342--41386 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
41332 ATTCTGTCGT
* *
41342 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
41363 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
41384 TTG
1 TTG
41387 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:43920 original size:19 final size:20
Alignment explanation
Indices: 43883--43932 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
43873 GCATATGTTC
*
43883 ACATATCATCTATCACATAA
1 ACATATCATATATCACATAA
*
43903 ACATAT-ATATATCTCATAA
1 ACATATCATATATCACATAA
43922 ATCATCATCAT
1 A-CAT-ATCAT
43933 GTATTCACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 12 0.48
20 9 0.36
21 2 0.08
22 2 0.08
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (20 bp):
ACATATCATATATCACATAA
Found at i:44874 original size:31 final size:31
Alignment explanation
Indices: 44836--44958 Score: 194
Period size: 31 Copynumber: 4.0 Consensus size: 31
44826 CCCGAAGGAC
* * *
44836 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
44867 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
44898 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
44929 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
44959 CCCTCGACCC
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
31 85 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:45793 original size:21 final size:21
Alignment explanation
Indices: 45763--45807 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
45753 ATTCTGTCGT
* *
45763 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
45784 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
45805 TTG
1 TTG
45808 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:47764 original size:32 final size:34
Alignment explanation
Indices: 47728--47793 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
47718 CCTTTACAAC
47728 TCCCTAG-TTTT-CACGGGATAAACTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
* *
47760 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
47794 ACCCCTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 7 0.23
33 4 0.13
34 19 0.63
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACCTT
Found at i:48041 original size:10 final size:11
Alignment explanation
Indices: 48016--48045 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
48006 TATATAGCCG
48016 TTGGGGATGTT
1 TTGGGGATGTT
48027 TTGGGGATG-T
1 TTGGGGATGTT
48037 TTGGGGATG
1 TTGGGGATG
48046 ATTATTCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.10, C:0.00, G:0.50, T:0.40
Consensus pattern (11 bp):
TTGGGGATGTT
Found at i:48183 original size:16 final size:17
Alignment explanation
Indices: 48151--48215 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
48141 GTTGCATCCA
48151 GGGGTATGGATACCCTG
1 GGGGTATGGATACCCTG
48168 GGGGTATCGG-TA-CCT-
1 GGGGTAT-GGATACCCTG
48183 -GGGTATGGATACCCCTG
1 GGGGTATGGATA-CCCTG
48200 GGGGTATTGG-TACCCT
1 GGGGTA-TGGATACCCT
48216 TTTTGCATTC
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 2 0.05
14 8 0.20
16 6 0.15
17 13 0.32
18 9 0.22
19 3 0.07
ACGTcount: A:0.15, C:0.20, G:0.38, T:0.26
Consensus pattern (17 bp):
GGGGTATGGATACCCTG
Found at i:48190 original size:31 final size:32
Alignment explanation
Indices: 48152--48213 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
48142 TTGCATCCAG
48152 GGGTATGGATA-CCCTGGGGGTATCGGTACCT
1 GGGTATGGATACCCCTGGGGGTATCGGTACCT
*
48183 GGGTATGGATACCCCTGGGGGTATTGGTACC
1 GGGTATGGATACCCCTGGGGGTATCGGTACC
48214 CTTTTTGCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.16, C:0.19, G:0.39, T:0.26
Consensus pattern (32 bp):
GGGTATGGATACCCCTGGGGGTATCGGTACCT
Found at i:50565 original size:18 final size:18
Alignment explanation
Indices: 50542--50584 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
50532 CTTTAGATTA
*
50542 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTTTAT
*
50560 TTTATTTAATTCTTTTAT
1 TTTATTTAATTATTTTAT
50578 TTTATTT
1 TTTATTT
50585 TAAAATCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTAATTATTTTAT
Found at i:51499 original size:16 final size:17
Alignment explanation
Indices: 51466--51500 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
51456 ATTGTGAAAT
*
51466 AAAGTTTACGTGTAAAA
1 AAAGTTTACGTATAAAA
51483 AAAGTTTA-GTATAAAA
1 AAAGTTTACGTATAAAA
51499 AA
1 AA
51501 GTGTTCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.14, T:0.29
Consensus pattern (17 bp):
AAAGTTTACGTATAAAA
Found at i:56525 original size:19 final size:19
Alignment explanation
Indices: 56501--56543 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
56491 GGACATTCAT
56501 TGAGAGAACAAATAGGAAA
1 TGAGAGAACAAATAGGAAA
56520 TGAGAGAACAAATAGGAAA
1 TGAGAGAACAAATAGGAAA
56539 TGAGA
1 TGAGA
56544 TAGAGGGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.56, C:0.05, G:0.28, T:0.12
Consensus pattern (19 bp):
TGAGAGAACAAATAGGAAA
Found at i:62062 original size:101 final size:101
Alignment explanation
Indices: 61861--62101 Score: 321
Period size: 101 Copynumber: 2.4 Consensus size: 101
61851 TGAATGTTTG
* *
61861 ATTAAAAAAGATTTTATC--ATTT--TTTCAATTTAAATATTTTACCCACTATAAATTAAATATT
1 ATTAAAAAAGATATTATCGGATTTCATTTCAATTTAAATATTTTACCCACTACAAATTAAATATT
* * * *
61922 TTCCTTAAGTGAAGCTTATGTTTTTGAATATTCTAA
66 TTCCTTAAGTAAAGCTCATCTTTTTCAATATTCTAA
*
61958 ATTAAAAAAGATATTAT-GTGATTTCATTTCAATTTAAATATTTTATCCACTACAAATTAAATAT
1 ATTAAAAAAGATATTATCG-GATTTCATTTCAATTTAAATATTTTACCCACTACAAATTAAATAT
* * *
62022 TTTCTTTCAGTAAAGCTCATCTTTTTCAATATTCTGA
65 TTTCCTTAAGTAAAGCTCATCTTTTTCAATATTCTAA
* * *
62059 ATTAAAAAGGATATTATCGGATTTCCTTTTAATTTAAATATTT
1 ATTAAAAAAGATATTATCGGATTTCATTTCAATTTAAATATTT
62102 AATATGAAAT
Statistics
Matches: 125, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
97 16 0.13
99 4 0.03
101 104 0.83
102 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (101 bp):
ATTAAAAAAGATATTATCGGATTTCATTTCAATTTAAATATTTTACCCACTACAAATTAAATATT
TTCCTTAAGTAAAGCTCATCTTTTTCAATATTCTAA
Found at i:63266 original size:4 final size:4
Alignment explanation
Indices: 63257--63286 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
63247 ATTTACGGGG
*
63257 ATTT ATTT ATTT ATAT ATTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
63287 ACATGCATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:63278 original size:16 final size:16
Alignment explanation
Indices: 63257--63287 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
63247 ATTTACGGGG
63257 ATTTATTTATTTATAT
1 ATTTATTTATTTATAT
63273 ATTTATTTATTTATA
1 ATTTATTTATTTATA
63288 CATGCATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTATTTATTTATAT
Found at i:82386 original size:14 final size:15
Alignment explanation
Indices: 82369--82409 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
82359 ATTATTTATT
82369 TTTATTTAT-TAATA
1 TTTATTTATATAATA
*
82383 TTTA-TAATATAATA
1 TTTATTTATATAATA
82397 TTATATTTATATA
1 TT-TATTTATATA
82410 TTATATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 11 0.50
15 2 0.09
16 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTATTTATATAATA
Found at i:82400 original size:27 final size:27
Alignment explanation
Indices: 82371--82456 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
82361 TATTTATTTT
82371 TATTTATTAATATT-TATAATATAATATTA
1 TATTTA-T-ATATTATATAA-ATAATATTA
82400 TATTTATATATTATATAAATAATCAATTA
1 TATTTATATATTATATAAATAAT--ATTA
* *
82429 TA-TTATA-ATAATAT-AA-GATATTA
1 TATTTATATATTATATAAATAATATTA
82452 TATTT
1 TATTT
82457 TATTTTAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
23 6 0.12
24 2 0.04
25 2 0.04
26 2 0.04
27 16 0.31
28 11 0.22
29 12 0.24
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
TATTTATATATTATATAAATAATATTA
Found at i:82404 original size:29 final size:29
Alignment explanation
Indices: 82371--82474 Score: 87
Period size: 28 Copynumber: 3.7 Consensus size: 29
82361 TATTTATTTT
82371 TATTTATTAATATT-TATAATATAAT-ATTA
1 TATTTA-TAATATTATATAA-ATAATAATTA
82400 TATTTAT-ATATTATATAAATAATCAATTA
1 TATTTATAATATTATATAAATAAT-AATTA
* *
82429 TA-TTATAATA--ATATAAGATATTATATTT
1 TATTTATAATATTATATAA-ATAATA-ATTA
*
82457 TATTT-TAATAATATATAA
1 TATTTATAATATTATATAA
82475 TAAAAAATTT
Statistics
Matches: 64, Mismatches: 2, Indels: 17
0.77 0.02 0.20
Matches are distributed among these distances:
27 17 0.27
28 24 0.38
29 17 0.27
30 6 0.09
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (29 bp):
TATTTATAATATTATATAAATAATAATTA
Found at i:82558 original size:23 final size:23
Alignment explanation
Indices: 82532--82576 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
82522 AATAATATTT
82532 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
82555 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
82577 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:85270 original size:33 final size:33
Alignment explanation
Indices: 85222--85287 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
85212 CAATGCAGAA
85222 GATTGCATCAAATATCAAGAACCCCACCAAGTT
1 GATTGCATCAAATATCAAGAACCCCACCAAGTT
* *
85255 GATTGTATCACATATCAAGAACCCCACCAAGTT
1 GATTGCATCAAATATCAAGAACCCCACCAAGTT
85288 TTCTAAGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (33 bp):
GATTGCATCAAATATCAAGAACCCCACCAAGTT
Found at i:86557 original size:3 final size:3
Alignment explanation
Indices: 86549--86603 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
86539 TCCCATTTTA
* * *
86549 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
86596 TAT TAT TA
1 TAT TAT TA
86604 CAAAACCTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:93526 original size:41 final size:42
Alignment explanation
Indices: 93471--93551 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
93461 CAGTAGGAAA
*
93471 AATATTGTGACA-TTTTGAA-AGCCCATTTCA-ACCAGAAATAG
1 AATATTGAGACATTTTTGAATA-CCCATTTCAGA-CAGAAATAG
*
93512 AATATTGAGGCATTTTTGAATACCCATTTCAGACAGAAAT
1 AATATTGAGACATTTTTGAATACCCATTTCAGACAGAAAT
93552 GATCCATGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 10 0.29
42 23 0.66
43 2 0.06
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (42 bp):
AATATTGAGACATTTTTGAATACCCATTTCAGACAGAAATAG
Found at i:94953 original size:37 final size:36
Alignment explanation
Indices: 94908--95098 Score: 154
Period size: 37 Copynumber: 5.2 Consensus size: 36
94898 AAAAAAAGAT
* *
94908 TTTATCTCACTTTAGACAGTTTTACTCGAAACAAAAA
1 TTTATCTCACTTGAGACAGTTTTACTCAAAAC-AAAA
* * *
94945 TTTATCTCACTCGAGATAGTTTTTCAT-AAAACAAAA
1 TTTATCTCACTTGAGACAGTTTTAC-TCAAAACAAAA
* * *
94981 TTTGTCTCGA-TTGAGACAATTGTTTCACTCGAAACAAAA
1 TTTATCTC-ACTTGAGAC-A--GTTTTACTCAAAACAAAA
* * * * *
95020 TTTTATCTCACTCGAGATAGTTTTTCTTAAAACAAAC
1 -TTTATCTCACTTGAGACAGTTTTACTCAAAACAAAA
* *
95057 TTTATCTCACTTGAGACAATTTTCCCTCAAAAC-AAA
1 TTTATCTCACTTGAGACAGTTTT-ACTCAAAACAAAA
95093 TTTATC
1 TTTATC
95099 ACAACTGAGG
Statistics
Matches: 120, Mismatches: 25, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
36 44 0.37
37 47 0.39
38 2 0.02
39 15 0.12
40 12 0.10
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (36 bp):
TTTATCTCACTTGAGACAGTTTTACTCAAAACAAAA
Found at i:95063 original size:36 final size:36
Alignment explanation
Indices: 94908--95098 Score: 163
Period size: 36 Copynumber: 5.2 Consensus size: 36
94898 AAAAAAAGAT
* * *
94908 TTTATCTCACTTTAGACAGTTTTACTCGAAACAAAAA
1 TTTATCTCACTTGAGACAGTTTTTCTCAAAAC-AAAA
* *
94945 TTTATCTCACTCGAGATAGTTTTTCAT-AAAACAAAA
1 TTTATCTCACTTGAGACAGTTTTTC-TCAAAACAAAA
* * *
94981 TTTGTCTCGA-TTGAGACAATTGTTTCACTCGAAACAAAA
1 TTTATCTC-ACTTGAGACAGTT-TTT--CTCAAAACAAAA
* * * *
95020 TTTTATCTCACTCGAGATAGTTTTTCTTAAAACAAAC
1 -TTTATCTCACTTGAGACAGTTTTTCTCAAAACAAAA
* *
95057 TTTATCTCACTTGAGACAATTTTCCCTCAAAAC-AAA
1 TTTATCTCACTTGAGACAGTTTT-TCTCAAAACAAAA
95093 TTTATC
1 TTTATC
95099 ACAACTGAGG
Statistics
Matches: 122, Mismatches: 23, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
36 47 0.39
37 45 0.37
38 2 0.02
39 13 0.11
40 15 0.12
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (36 bp):
TTTATCTCACTTGAGACAGTTTTTCTCAAAACAAAA
Found at i:95071 original size:76 final size:76
Alignment explanation
Indices: 94908--95077 Score: 249
Period size: 76 Copynumber: 2.3 Consensus size: 76
94898 AAAAAAAGAT
* *
94908 TTTATCTCACTTTAGAC-A--GTTTTACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTTC
1 TTTATCTCACTTGAGACAATTGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTTC
94970 ATAAAACAAAA
66 ATAAAACAAAA
* *
94981 TTTGTCTCGA-TTGAGACAATTGTTTCACTCGAAACAAAATTTTATCTCACTCGAGATAGTTTTT
1 TTTATCTC-ACTTGAGACAATTGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTT
* *
95045 CTTAAAACAAAC
65 CATAAAACAAAA
95057 TTTATCTCACTTGAGACAATT
1 TTTATCTCACTTGAGACAATT
95078 TTCCCTCAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
73 13 0.15
74 2 0.02
75 1 0.01
76 69 0.81
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (76 bp):
TTTATCTCACTTGAGACAATTGTTTCACTCGAAACAAAAATTTATCTCACTCGAGATAGTTTTTC
ATAAAACAAAA
Found at i:95509 original size:20 final size:20
Alignment explanation
Indices: 95446--95510 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
95436 TCCAGTAGAG
95446 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* ** **
95466 CG-TCCGAA-GAGGAAGAAAA
1 AGTTCATAATGA-GAAGAACT
95485 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
95505 TGTTCA
1 AGTTCA
95511 ATCTTTTGGT
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.35
20 16 0.52
21 2 0.06
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:95776 original size:264 final size:263
Alignment explanation
Indices: 95305--95779 Score: 736
Period size: 264 Copynumber: 1.8 Consensus size: 263
95295 TTTCCAGTGA
* *
95305 AGAGTTCATAATGAGAAGAACTCATCCGATGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAAAACTCATCCGATGAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
95370 CAATCTTAGCTCGATTCATAACATATGGAGTTGAATCAACGACATCTCAATCGAGGGATCAACAT
66 CAACCTTAGCTCGATTCATAACATATGGAGTTGAATCAACGACACCTCAATCAAGGGATCAACAT
* * *
95435 TTCCAGTAGAGAGTTCATAATGAGAAGAACTCGTCCGAAGAGGAAGAAAAAGTTCATAATGAGAA
131 TTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCGAAGAGGAAGAAAAAGTTCATAATGAGAA
* *
95500 GAACTTGTTCAATCTTTTGGTCGACTCTATCATAGAAGGAGATAGATCAACATCAATATTTTCAA
196 GAAATCGTTCAATCTTTTGGTCGACTCTATCATAGAAGGAGATAGATCAACATCAATATTTTCAA
95565 TGG
261 TGG
**
95568 AGAGTTCATAATGAGAAAAACTTGTCCGATGAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTT
1 AGAGTTCATAATGAGAAAAACTCATCCGATGAGGAAAAAGAAGTTCATAATGAGAAGAACTTG-T
* * * *
95633 TGAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACGACACCTCACTCAAGGGATCAACA
65 TCAACCTTAGCTCGATTCATAACATATGGAGTTGAATCAACGACACCTCAATCAAGGGATCAACA
* * * * *
95698 TTTTCAAT-GAAGAGTTCATAATGAGAAAAACTCATCTGAAGGGGAAGAATAAGTTCTTAATGAG
130 TTTCCAATAG-AGAGTTCATAATGAGAAAAACTCATCCGAAGAGGAAGAAAAAGTTCATAATGAG
95762 AAGAAATCGTTCAATCTT
194 AAGAAATCGTTCAATCTT
95780 AGCTTGATTC
Statistics
Matches: 189, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
263 60 0.32
264 129 0.68
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (263 bp):
AGAGTTCATAATGAGAAAAACTCATCCGATGAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTAGCTCGATTCATAACATATGGAGTTGAATCAACGACACCTCAATCAAGGGATCAACAT
TTCCAATAGAGAGTTCATAATGAGAAAAACTCATCCGAAGAGGAAGAAAAAGTTCATAATGAGAA
GAAATCGTTCAATCTTTTGGTCGACTCTATCATAGAAGGAGATAGATCAACATCAATATTTTCAA
TGG
Found at i:95835 original size:139 final size:140
Alignment explanation
Indices: 95551--95916 Score: 484
Period size: 140 Copynumber: 2.6 Consensus size: 140
95541 ATAGATCAAC
* * * * * *
95551 ATCAATATTTTCAATGGAGAGTTCATAATGAGAAAAACTTGTCCGATGAGGAAAAAGAAGTTCAT
1 ATCAACATTTTCAATGAAGAGTTCATAATGAGAAAAACTCGTCTGAAGAGGAAGAAGAAGTTCAT
* * * *
95616 AATGAGAAGAACTTGTTTGAACCTTAGCTTGATTCATCACATATGGAGTTGAATCAACGACACCT
66 AATGAGAAGAAATCGTTTCAACCTTAGCTTGATTCATCACATATGGAGTTAAATCAACGACACCT
**
95681 CACTCAAGGG
131 CACTCAAGAA
* * * *
95691 ATCAACATTTTCAATGAAGAGTTCATAATGAGAAAAACTCATCTGAAGGGGAAGAATAAGTTCTT
1 ATCAACATTTTCAATGAAGAGTTCATAATGAGAAAAACTCGTCTGAAGAGGAAGAAGAAGTTCAT
* *
95756 AATGAGAAGAAATCG-TTCAATCTTAGCTTGATTCATCGCATATGGAGTTAAATCAACGACACCT
66 AATGAGAAGAAATCGTTTCAACCTTAGCTTGATTCATCACATATGGAGTTAAATCAACGACACCT
**
95820 CACTTGAGAA
131 CACTCAAGAA
** * *
95830 ATCAACATTTTCAATGGAAGAGTTCATAAAAAGAAGAACTCGTTTGAAGAGGAAGAAGAAGTTCA
1 ATCAACATTTTCAAT-GAAGAGTTCATAATGAGAAAAACTCGTCTGAAGAGGAAGAAGAAGTTCA
*
95895 TAATGAGAAGAAAT-TTTTCAAC
65 TAATGAGAAGAAATCGTTTCAAC
95917 ATTTCGGTAT
Statistics
Matches: 194, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
139 66 0.34
140 128 0.66
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (140 bp):
ATCAACATTTTCAATGAAGAGTTCATAATGAGAAAAACTCGTCTGAAGAGGAAGAAGAAGTTCAT
AATGAGAAGAAATCGTTTCAACCTTAGCTTGATTCATCACATATGGAGTTAAATCAACGACACCT
CACTCAAGAA
Found at i:96060 original size:3 final size:3
Alignment explanation
Indices: 96046--96098 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
96036 TCCCATTTTA
*
96046 TAT TAC TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96093 TAT TAT
1 TAT TAT
96099 AAAACTCTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:98835 original size:29 final size:29
Alignment explanation
Indices: 98754--98842 Score: 135
Period size: 29 Copynumber: 3.1 Consensus size: 29
98744 AGTCCATTAT
* *
98754 TCTTTTACTCAATATTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
* *
98783 TATCTTACTC-ACAGTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
98811 TCTTTTACTCAACAGTGTTTAACCGTTCA
1 TCTTTTACTCAACAGTGTTTAACCGTTCA
98840 TCT
1 TCT
98843 AACTGGCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 24 0.45
29 29 0.55
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (29 bp):
TCTTTTACTCAACAGTGTTTAACCGTTCA
Found at i:98961 original size:81 final size:81
Alignment explanation
Indices: 98813--98967 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 81
98803 ACCGTTCATC
* * * * *
98813 TTTTACTCAACAGTGTTTAACCGTTCATCTAACTGGCATAATTAACACATTTCTGCCAATTGGAC
1 TTTTACTCAACAGTATTTAACCGTTCATCTAACTAGCATAATTAACACATTTCAGCCAAATGCAC
98878 AGTTAGGCCATTATTA
66 AGTTAGGCCATTATTA
* ** * * * * *
98894 TTTTACTCAACGGTATTTAACTTTTCATTTAGCTAGCATAATTGACACCTTTCAGTCAAATGCAC
1 TTTTACTCAACAGTATTTAACCGTTCATCTAACTAGCATAATTAACACATTTCAGCCAAATGCAC
98959 AGTTAGGCC
66 AGTTAGGCC
98968 GTTAAGCTTG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (81 bp):
TTTTACTCAACAGTATTTAACCGTTCATCTAACTAGCATAATTAACACATTTCAGCCAAATGCAC
AGTTAGGCCATTATTA
Found at i:99452 original size:94 final size:94
Alignment explanation
Indices: 99316--99493 Score: 302
Period size: 94 Copynumber: 1.9 Consensus size: 94
99306 TTAATTTCAT
* *
99316 TTATGGAATCATTTCATACCTTAATGCATCCATTCATACATTTCTAGTTATGGCATCCTTTCATT
1 TTATGGAATCATTTCATACCTTAATGCATCCACTCATACATTTCTAGTTATGGCATCCTTTCATG
99381 CCTTAATGCATCCTTTCATACAATTTTAG
66 CCTTAATGCATCCTTTCATACAATTTTAG
* * * *
99410 TTATGGCATCATTTCATACCTTAATGCATCCGCTCATGCATTTTTAGTTATGGCATCCTTTCATG
1 TTATGGAATCATTTCATACCTTAATGCATCCACTCATACATTTCTAGTTATGGCATCCTTTCATG
99475 CCTTAATGCATCCTTTCAT
66 CCTTAATGCATCCTTTCAT
99494 GCCTTAATGC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 78 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (94 bp):
TTATGGAATCATTTCATACCTTAATGCATCCACTCATACATTTCTAGTTATGGCATCCTTTCATG
CCTTAATGCATCCTTTCATACAATTTTAG
Found at i:99487 original size:20 final size:20
Alignment explanation
Indices: 99462--99515 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
99452 TTTAGTTATG
99462 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
99482 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
99502 GCATCATTTCATGC
1 GCATCCTTTCATGC
99516 ATATTTAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.30, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:99495 original size:47 final size:47
Alignment explanation
Indices: 99316--99493 Score: 257
Period size: 47 Copynumber: 3.8 Consensus size: 47
99306 TTAATTTCAT
* * *
99316 TTATGGAATCATTTCATACCTTAATGCATCCATTCATACATTTCTAG
1 TTATGGCATCATTTCATACCTTAATGCATCCTTTCATACATTTTTAG
* * *
99363 TTATGGCATCCTTTCATTCCTTAATGCATCCTTTCATACAATTTTAG
1 TTATGGCATCATTTCATACCTTAATGCATCCTTTCATACATTTTTAG
** *
99410 TTATGGCATCATTTCATACCTTAATGCATCCGCTCATGCATTTTTAG
1 TTATGGCATCATTTCATACCTTAATGCATCCTTTCATACATTTTTAG
* *
99457 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCAT
1 TTATGGCATCATTTCATACCTTAATGCATCCTTTCAT
99494 GCCTTAATGC
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 115 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (47 bp):
TTATGGCATCATTTCATACCTTAATGCATCCTTTCATACATTTTTAG
Found at i:99500 original size:67 final size:66
Alignment explanation
Indices: 99415--99561 Score: 222
Period size: 67 Copynumber: 2.2 Consensus size: 66
99405 TTTAGTTATG
* * *
99415 GCATCATTTCATACCTTAATGCATCCGCTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
1 GCATCATTTCATGCCTTAATGCATCAGCTCATGCATATTTAGTTATGGCAT-CTTTCATGCCTTA
99480 AT
65 AT
* ** *
99482 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATATTTAGTTATGGCATTTTTCATGCCTTAA
1 GCATCATTTCATGCCTTAATGCATCAGCTCATGCATATTTAGTTATGGCATCTTTCATGCCTTAA
99547 T
66 T
99548 GCATCATTTCATGC
1 GCATCATTTCATGC
99562 ATTTGTAGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 27 0.38
67 45 0.62
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.41
Consensus pattern (66 bp):
GCATCATTTCATGCCTTAATGCATCAGCTCATGCATATTTAGTTATGGCATCTTTCATGCCTTAA
T
Found at i:99582 original size:113 final size:114
Alignment explanation
Indices: 99368--99608 Score: 360
Period size: 113 Copynumber: 2.1 Consensus size: 114
99358 TCTAGTTATG
* *
99368 GCATCCTTTCATTCCTTAATGCATCCTTTCATACAATTTTAGTTATGGCATCATTTCATACCTTA
1 GCATCCTTTCATGCCTTAATGCATCATTTCATACAATTTTAGTTATGGCATCATTTCATACCTTA
* * *
99433 ATGCATCCGCTCATGCATTTTTAGTTATGGCATCCTTTCATGCCTTAAT
66 ATGCATCAGCTCATGCATTTGTAGTTATGGCATCCTTTAATGCCTTAAT
* * *
99482 GCATCCTTTCATGCCTTAATGCATCATTTCATGC-ATATTTAGTTATGGCAT-TTTTCATGCCTT
1 GCATCCTTTCATGCCTTAATGCATCATTTCATACAAT-TTTAGTTATGGCATCATTTCATACCTT
**
99545 AATGCATCATTTCATGCATTTGTAGTTATGGCATCCTTTAATGCCTTAAT
65 AATGCATCAGCTCATGCATTTGTAGTTATGGCATCCTTTAATGCCTTAAT
*
99595 GCATCCATTCATGC
1 GCATCCTTTCATGC
99609 ATTTTTAGTT
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
113 70 0.61
114 45 0.39
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (114 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCATACAATTTTAGTTATGGCATCATTTCATACCTTA
ATGCATCAGCTCATGCATTTGTAGTTATGGCATCCTTTAATGCCTTAAT
Found at i:99599 original size:160 final size:161
Alignment explanation
Indices: 99327--99622 Score: 438
Period size: 160 Copynumber: 1.8 Consensus size: 161
99317 TATGGAATCA
*
99327 TTTCATACCTTAATGCATCCATTCATACATTTCTAGTTATGGCATCCTTTCATTCCTTAATGCAT
1 TTTCATACCTTAATGCATCCATTCATACATTTCTAGTTATGGCATCCTTTCATGCCTTAATGCAT
* * *
99392 CCTTTCATACAATTTTAGTTATGGCATCATTTCATACCTTAATGCATCCGCTCATGCATTTTTAG
66 CATTTCATACAATTTTAGTTATGGCATCATTTAATACCTTAATGCATCCACTCATGCATTTTTAG
99457 TTATGGCATCCTTTCATGCCTTAATGCATCC
131 TTATGGCATCCTTTCATGCCTTAATGCATCC
* * *
99488 TTTCATGCCTTAATGCAT-CATTTCATGCATATT-TAGTTATGGCAT-TTTTCATGCCTTAATGC
1 TTTCATACCTTAATGCATCCA-TTCATACAT-TTCTAGTTATGGCATCCTTTCATGCCTTAATGC
* * * *
99550 ATCATTTCATGC-ATTTGTAGTTATGGCATCCTTTAATGCCTTAATGCATCCATTCATGCATTTT
64 ATCATTTCATACAATTT-TAGTTATGGCATCATTTAATACCTTAATGCATCCACTCATGCATTTT
99614 TAGTTATGG
128 TAGTTATGG
99623 ACTTGATTTA
Statistics
Matches: 121, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
159 4 0.03
160 78 0.64
161 37 0.31
162 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (161 bp):
TTTCATACCTTAATGCATCCATTCATACATTTCTAGTTATGGCATCCTTTCATGCCTTAATGCAT
CATTTCATACAATTTTAGTTATGGCATCATTTAATACCTTAATGCATCCACTCATGCATTTTTAG
TTATGGCATCCTTTCATGCCTTAATGCATCC
Found at i:99607 original size:47 final size:46
Alignment explanation
Indices: 99482--99622 Score: 214
Period size: 46 Copynumber: 3.0 Consensus size: 46
99472 ATGCCTTAAT
99482 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATATTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCAT-TTTAGTTATG
*
99529 GCAT-TTTTCATGCCTTAATGCATCATTTCATGCATTTGTAGTTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTT-TAGTTATG
*
99575 GCATCCTTTAATGCCTTAATGCATCCA-TTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGCCTTAATGCAT-CATTTCATGCA-TTTTAGTTATG
99622 G
1 G
99623 ACTTGATTTA
Statistics
Matches: 87, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
45 2 0.02
46 42 0.48
47 38 0.44
48 5 0.06
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAGTTATG
Found at i:109100 original size:28 final size:28
Alignment explanation
Indices: 109053--109144 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
109043 CATTATTCTT
*
109053 TTACTCAACAGTGTTTAACCGTTCATATC
1 TTACTC-ACAGTATTTAACCGTTCATATC
* *
109082 TTACTCATAGTATTTAACCGTTCCTATC
1 TTACTCACAGTATTTAACCGTTCATATC
* * *
109110 TTACTCACAGTGTTTAACCGTTCATCTT
1 TTACTCACAGTATTTAACCGTTCATATC
109138 TTACTCA
1 TTACTCA
109145 ACAATGTCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 49 0.89
29 6 0.11
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (28 bp):
TTACTCACAGTATTTAACCGTTCATATC
Found at i:109369 original size:82 final size:80
Alignment explanation
Indices: 109134--109375 Score: 306
Period size: 80 Copynumber: 3.0 Consensus size: 80
109124 TAACCGTTCA
* *
109134 TCTTTTACTCAACAATGTCTAA-CAGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTG
1 TCTTTTACTCAACACTGTTTAACCA-TTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTG
*
109198 CATATTAGGCCATTAT
65 CAAATTAGGCCATTAT
109214 TCTTTTACTCAACACTGTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGC
1 TCTTTTACTCAACACTGTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGC
109279 ACAATTAGGCCATTAT
66 A-AATTAGGCCATTAT
*** * * * * * * * * *
109295 TCTTTTACTCAATGTTATTTTAACCGTTTATTTAGCTGGCATAATTGACACCTTTCAGTCAAATA
1 TCTTTTACTCAACACT-GTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTG
109360 CAAAGTTAGGCCATTA
65 CAAA-TTAGGCCATTA
109376 AGCTTGTATT
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
80 61 0.43
81 30 0.21
82 52 0.36
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (80 bp):
TCTTTTACTCAACACTGTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGC
AAATTAGGCCATTAT
Found at i:109782 original size:47 final size:47
Alignment explanation
Indices: 109720--110183 Score: 587
Period size: 47 Copynumber: 10.1 Consensus size: 47
109710 TTAATTTCAT
* * * *
109720 TTATGGAATCCTTTCATACATTAATGCATCCTCTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAG
* * *
109767 TTATGGCATCATTTCATGCCTTAATGTATCATTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAG
* * *
109814 TTATGGCATCCTTTTATACCTTAATGCAT-CTGCTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCT-TTCATGCATTTTTAG
109861 TTATGGCATCCTTTCATGCC-T--T--A-------ATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAG
* * *
109896 TTAAGACATCCTTTAATGCCTTAATGCATCCTTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAG
* *
109943 TTATGGCATCCTTGCATGCCTTAATGCATCATTTCATGCATTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAG
* *
109990 TTATGGCATCCTTTAATGCCTTAATGCATCCTTTCATGCCTTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAG
* *
110037 TTATGGCATCCTTTCATGCCTTAATGCATCCATTCATGCTTTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAG
* *
110084 TTATGGCATCCTTTCATGCCTTAATGCAT-CTGATCATGCTTTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCT-TTCATGCATTTTTAG
* * * *
110131 TTATGACATCCTTTCATGCCTTATTGCATCCGTTCATGCATTTTTGG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAG
110178 TTATGG
1 TTATGG
110184 ATTTGATTTA
Statistics
Matches: 363, Mismatches: 39, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
35 29 0.08
36 1 0.00
38 1 0.00
40 1 0.00
42 1 0.00
44 1 0.00
46 3 0.01
47 325 0.90
48 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (47 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTTAG
Found at i:109783 original size:27 final size:27
Alignment explanation
Indices: 109753--109823 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 27
109743 ATGCATCCTC
109753 TCATGCATTTTTAGTTATGGCATCATT
1 TCATGCATTTTTAGTTATGGCATCATT
* *
109780 TCATGC---CTTA---AT-GTATCATT
1 TCATGCATTTTTAGTTATGGCATCATT
109800 TCATGCATTTTTAGTTATGGCATC
1 TCATGCATTTTTAGTTATGGCATC
109824 CTTTTATACC
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
20 13 0.39
21 2 0.06
23 3 0.09
24 3 0.09
26 2 0.06
27 10 0.30
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (27 bp):
TCATGCATTTTTAGTTATGGCATCATT
Found at i:109895 original size:35 final size:35
Alignment explanation
Indices: 109849--109924 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
109839 GCATCTGCTC
* * *
109849 ATGCATTTTTAGTTATGGCATCCTTTCATGCCTTA
1 ATGCATTTTTAGTTAAGACATCCTTTAATGCCTTA
109884 ATGCATTTTTAGTTAAGACATCCTTTAATGCCTTA
1 ATGCATTTTTAGTTAAGACATCCTTTAATGCCTTA
109919 ATGCAT
1 ATGCAT
109925 CCTTTCATGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.43
Consensus pattern (35 bp):
ATGCATTTTTAGTTAAGACATCCTTTAATGCCTTA
Found at i:109925 original size:20 final size:20
Alignment explanation
Indices: 109866--110113 Score: 112
Period size: 20 Copynumber: 11.2 Consensus size: 20
109856 TTTAGTTATG
109866 GCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
109886 GCAT--TTTTA-G--TTAA-
1 GCATCCTTTCATGCCTTAAT
*
109900 GACATCCTTTAATGCCTTAAT
1 G-CATCCTTTCATGCCTTAAT
*
109921 GCATCCTTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
*
109947 GGCATCCTTGCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
109968 GCATCATTTCATGCATTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
*
109994 GGCATCCTTTAATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
110015 GCATCCTTTCATGCCTTTTTAGTTAT
1 GCATCCTTTCATGCC---TTA---AT
110041 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
110062 GCATCCATTCATGCTTTTTTAGTTAT
1 GCATCCTTTCATGC---CTTA---AT
110088 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
110109 GCATC
1 GCATC
110114 TGATCATGCT
Statistics
Matches: 176, Mismatches: 17, Indels: 70
0.67 0.06 0.27
Matches are distributed among these distances:
14 1 0.01
15 7 0.04
17 5 0.03
18 5 0.03
20 64 0.36
21 9 0.05
23 12 0.07
24 12 0.07
26 8 0.05
27 53 0.30
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.43
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:109960 original size:27 final size:26
Alignment explanation
Indices: 109921--110149 Score: 139
Period size: 27 Copynumber: 9.5 Consensus size: 26
109911 ATGCCTTAAT
109921 GCATCCTTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGC-TTTTTAGTTATG
* *
109948 GCATCCTTGCATGC--CTTA---AT-
1 GCATCCTTTCATGCTTTTTAGTTATG
*
109968 GCATCATTTCATGCATTTTTAGTTATG
1 GCATCCTTTCATGC-TTTTTAGTTATG
* *
109995 GCATCCTTTAATGC--CTTA---AT-
1 GCATCCTTTCATGCTTTTTAGTTATG
110015 GCATCCTTTCATGCCTTTTTAGTTATG
1 GCATCCTTTCATG-CTTTTTAGTTATG
*
110042 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCTTTTTAGTTATG
*
110062 GCATCCATTCATGCTTTTTTAGTTATG
1 GCATCCTTTCATGC-TTTTTAGTTATG
*
110089 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCTTTTTAGTTATG
*
110109 GCAT-CTGATCATGCTTTTTTAGTTATG
1 GCATCCT-TTCATGC-TTTTTAGTTATG
*
110136 ACATCCTTTCATGC
1 GCATCCTTTCATGC
110150 CTTATTGCAT
Statistics
Matches: 153, Mismatches: 19, Indels: 60
0.66 0.08 0.26
Matches are distributed among these distances:
19 2 0.01
20 47 0.31
21 9 0.06
23 12 0.08
24 12 0.08
26 9 0.06
27 60 0.39
28 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.44
Consensus pattern (26 bp):
GCATCCTTTCATGCTTTTTAGTTATG
Found at i:112950 original size:72 final size:75
Alignment explanation
Indices: 112832--112990 Score: 234
Period size: 72 Copynumber: 2.2 Consensus size: 75
112822 GTTTTTCCCC
* *
112832 CAAATTTGTTAAAAAATTTCTACAAGTTTCATATAATTTTTAACTTCAAAAATTTAAAAATTTT-
1 CAAATTTATTAAAAAATTTCTAAAAGTTTCATATAATTTTTAACTTCAAAAATTTAAAAATTTTA
112896 A-ATTTTTTT
66 ATATTTTTTT
* * ** *
112905 CAAATTTATTAAAAAA-TTGTAAAAGTTTCATATTATTTTTAACTTCGGAATTTTAAAAATTTTA
1 CAAATTTATTAAAAAATTTCTAAAAGTTTCATATAATTTTTAACTTCAAAAATTTAAAAATTTTA
112969 ATATTTTTTT
66 ATATTTTTTT
112979 CAAATTTATTAA
1 CAAATTTATTAA
112991 TTACACTAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
72 41 0.53
73 16 0.21
74 20 0.26
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (75 bp):
CAAATTTATTAAAAAATTTCTAAAAGTTTCATATAATTTTTAACTTCAAAAATTTAAAAATTTTA
ATATTTTTTT
Found at i:120596 original size:20 final size:20
Alignment explanation
Indices: 120567--120635 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
120557 AATAATTGTC
*
120567 CTTAAGGCCGAACATTGAGA
1 CTTAATGCCGAACATTGAGA
120587 CTTAATGCCGAACATTGAGA
1 CTTAATGCCGAACATTGAGA
120607 CTTAATGCCGAACATTGAGA
1 CTTAATGCCGAACATTGAGA
120627 CTTAATGCC
1 CTTAATGCC
120636 ATTTATAAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (20 bp):
CTTAATGCCGAACATTGAGA
Found at i:121024 original size:26 final size:26
Alignment explanation
Indices: 120970--121027 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
120960 GTTAGCAAAA
**
120970 AATTATTTATTAAATTAATTGTAAAC
1 AATTATTTATTAAATTAATCATAAAC
*
120996 AATTATTT-TTGAAATTAATCATAATC
1 AATTATTTATT-AAATTAATCATAAAC
121022 AATTAT
1 AATTAT
121028 ATGTTGTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (26 bp):
AATTATTTATTAAATTAATCATAAAC
Found at i:125397 original size:26 final size:27
Alignment explanation
Indices: 125368--125419 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
125358 GGTCTGACGT
125368 GGCAG-TTTCTAGAAGGTCCAGTCAGC
1 GGCAGTTTTCTAGAAGGTCCAGTCAGC
* *
125394 GGCAGTTTTCTAGAAGTTCTAGTCAG
1 GGCAGTTTTCTAGAAGGTCCAGTCAG
125420 TGCACCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (27 bp):
GGCAGTTTTCTAGAAGGTCCAGTCAGC
Found at i:126319 original size:12 final size:12
Alignment explanation
Indices: 126302--126328 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
126292 CAATTAGATC
126302 CAGAATCAAATT
1 CAGAATCAAATT
126314 CAGAATCAAATT
1 CAGAATCAAATT
126326 CAG
1 CAG
126329 GTGAATCCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (12 bp):
CAGAATCAAATT
Found at i:128330 original size:17 final size:17
Alignment explanation
Indices: 128308--128359 Score: 104
Period size: 17 Copynumber: 3.1 Consensus size: 17
128298 GTTAAATTTA
128308 ATGTGTATAAGAAAATG
1 ATGTGTATAAGAAAATG
128325 ATGTGTATAAGAAAATG
1 ATGTGTATAAGAAAATG
128342 ATGTGTATAAGAAAATG
1 ATGTGTATAAGAAAATG
128359 A
1 A
128360 AACACCCAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (17 bp):
ATGTGTATAAGAAAATG
Found at i:133802 original size:3 final size:3
Alignment explanation
Indices: 133781--133847 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
133771 ATGTAAACAA
*
133781 AAT AATT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
133827 -AC AAT GAT ATT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
133848 TTTTTATAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 1 0.02
3 50 0.93
4 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:134256 original size:134 final size:133
Alignment explanation
Indices: 134032--134376 Score: 352
Period size: 134 Copynumber: 2.6 Consensus size: 133
134022 AGTTATAGTC
* * * * * * *
134032 GTCTAAGGGTGATACTGCTCTTACGCGATGAGGAGATTAGGTCGGTGGATGACACAGTTCCTACG
1 GTCTAAGGGTGACACAGCACCTACGTGATGAGGAGGTTTGGTC-GTGGATGACACAGTTCCTACG
* * * * * * **
134097 CGATGAGGACGGTAGACCATCTTTAGGGA-GACTGATAACACATTTCCTACGCGATGAGGATGAC
65 TGATGAGGATGGCAGACCATCTTTAGGAATG-CTGATAACACAGTTCCTACGCGATAAGGACAAC
134161 TGGTT
129 TGGTT
* * *
134166 GTCTAGGGGTGACACGGCACCTACGTGATGAGGAGGTTTGGTCAGTGGATGACACAATTCCTACG
1 GTCTAAGGGTGACACAGCACCTACGTGATGAGGAGGTTTGGTC-GTGGATGACACAGTTCCTACG
* * * * **
134231 TGATGAGGATGGCATG-CCATTTTTAGGAATGGTGATAACACGGTTCCTATGTTATAAGGACAAC
65 TGATGAGGATGGCA-GACCATCTTTAGGAATGCTGATAACACAGTTCCTACGCGATAAGGACAAC
134295 TGGTT
129 TGGTT
* * * * * * *
134300 TTCTAAGGTTGACGCAGCTCCTACGTGATGAGGAGGTATGGTCGGGGAATGACACAGTTCCTACA
1 GTCTAAGGGTGACACAGCACCTACGTGATGAGGAGGTTTGGTCGTGG-ATGACACAGTTCCTACG
134365 TGATGAGGATGG
65 TGATGAGGATGG
134377 TTGGACATAT
Statistics
Matches: 174, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
133 3 0.02
134 169 0.97
135 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (133 bp):
GTCTAAGGGTGACACAGCACCTACGTGATGAGGAGGTTTGGTCGTGGATGACACAGTTCCTACGT
GATGAGGATGGCAGACCATCTTTAGGAATGCTGATAACACAGTTCCTACGCGATAAGGACAACTG
GTT
Found at i:134632 original size:70 final size:67
Alignment explanation
Indices: 134399--134660 Score: 291
Period size: 70 Copynumber: 3.9 Consensus size: 67
134389 AGGGATAATA
* ** * ** * *
134399 GTTTCAAGGGAAACCGTCTCAAGAGAGACATAA-TTTGTTTCAAGGGAAAGGATCTCAAAGTTGT
1 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAATCTCAAAATTTT
134463 AT
66 AT
* *
134465 GTTTCAAGAGAAATTGTCTAAAGAGAGACAAAAC-TTGTTTCAAGGGAAACAATCTAAAAAATTT
1 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAATCT-CAAAATTT
134529 TA-
65 TAT
* *
134531 GATTTCAAGTA-AAATTGTC-CAAAGAGAGACAAAACTTTGTTTCAAGAGTAACAATCTCAAATT
1 G-TTTCAAG-AGAAATTGTCTC-AAGAGAGACAAAACTTTGTTTCAAGGGAAACAATCTCAAA--
*
134594 TTTTTTAT
61 -ATTTTAT
* *
134602 GTTTCAAGAGAAAGTGTCTCAAGAGAGACAAAATTTTGTTTCAAGGGAAACAATCTCAA
1 GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAATCTCAA
134661 TGTTTAATCA
Statistics
Matches: 165, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
66 48 0.29
67 39 0.24
68 20 0.12
69 1 0.01
70 55 0.33
71 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (67 bp):
GTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAATCTCAAAATTTT
AT
Found at i:137325 original size:59 final size:59
Alignment explanation
Indices: 137195--137315 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
137185 GGAGGGTTGG
* *
137195 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGTGACTAACAGGGTTTGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAACAGGGTTCGATAGGACAC
* **
137254 TTAGAGCCATATTATCGAGTTTTCCTTTTCATTGCGACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAACAGGGTTCGATAGGACAC
137313 TTA
1 TTA
137316 TTCATATATT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTGCCTTTTCATTGCGACTAACAGGGTTCGATAGGACAC
Found at i:140374 original size:59 final size:59
Alignment explanation
Indices: 140302--140414 Score: 172
Period size: 59 Copynumber: 1.9 Consensus size: 59
140292 TTACTCAGAG
*
140302 CCATATTATCGAGTTTTCCTTTTCATTCCAACTAGGAGGGTTCGATAGAACACTTAGAA
1 CCATATTATCGAGTTTGCCTTTTCATTCCAACTAGGAGGGTTCGATAGAACACTTAGAA
*** * *
140361 CCATATTATCGAGTTTGCCTTTTCATTGTGACTAGGAGGGTTTGATAGGACACT
1 CCATATTATCGAGTTTGCCTTTTCATTCCAACTAGGAGGGTTCGATAGAACACT
140415 ATCCATCTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (59 bp):
CCATATTATCGAGTTTGCCTTTTCATTCCAACTAGGAGGGTTCGATAGAACACTTAGAA
Found at i:141702 original size:8 final size:8
Alignment explanation
Indices: 141681--141737 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
141671 TTTTCTTTAT
141681 TTTTTTTC
1 TTTTTTTC
141689 ATTTTTTTTC
1 --TTTTTTTC
141699 TTTTTTCTC
1 TTTTTT-TC
*
141708 TTTGTTTC
1 TTTTTTTC
141716 -TTTTTTC
1 TTTTTTTC
*
141723 TTTTCTTC
1 TTTTTTTC
141731 TTCTTTT
1 TT-TTTT
141738 ATTTGATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 6 0.15
8 16 0.40
9 10 0.25
10 8 0.20
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:141704 original size:17 final size:16
Alignment explanation
Indices: 141682--141737 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 16
141672 TTTCTTTATT
141682 TTTTTTCATTTTTTTTC
1 TTTTTTC-TTTTTTTTC
*
141699 TTTTTTCTCTTTGTTTC
1 TTTTTTCT-TTTTTTTC
141716 TTTTTTCTTTTCTTCTTC
1 TTTTTTCTTTT-TT-TTC
141734 TTTT
1 TTTT
141738 ATTTGATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 4 0.12
17 23 0.68
18 7 0.21
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTTTTTC
Done.