Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007789.1 Hibiscus syriacus cultivar Beakdansim tig00110075_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: 257081
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3413 original size:33 final size:34
Alignment explanation
Indices: 3356--3419 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 34
3346 ATACAATCTG
*
3356 TCCATCACCATTATCACGCCTATATCATCACTAT
1 TCCATCACCATTATCACGCATATATCATCACTAT
*
3390 TCCATCACCA-TATCACGCATATATTATCAC
1 TCCATCACCATTATCACGCATATATCATCAC
3420 CAACTTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.31, C:0.34, G:0.03, T:0.31
Consensus pattern (34 bp):
TCCATCACCATTATCACGCATATATCATCACTAT
Found at i:3826 original size:19 final size:20
Alignment explanation
Indices: 3802--3845 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3792 GTGCTACAAC
* *
3802 AAAAAAAAC-AACAGGAAAG
1 AAAAAAAACAAAAAGAAAAG
3821 AAAAAAAACAAAAAGAAAAG
1 AAAAAAAACAAAAAGAAAAG
3841 AAAAA
1 AAAAA
3846 GACTCCTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAAAAAGAAAAG
Found at i:3931 original size:24 final size:24
Alignment explanation
Indices: 3876--3924 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
3866 AGTGCAAAAG
* *
3876 AAAGAAAAGAAAAAGAAGAATCAA
1 AAAGCAAAGAAAAAGAAGAAGCAA
*
3900 AAAGCAAAGAAAAAG-TGAAGCAA
1 AAAGCAAAGAAAAAGAAGAAGCAA
3923 AA
1 AA
3925 TTGCAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.71, C:0.06, G:0.18, T:0.04
Consensus pattern (24 bp):
AAAGCAAAGAAAAAGAAGAAGCAA
Found at i:10274 original size:26 final size:26
Alignment explanation
Indices: 10245--10307 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
10235 GAGTGCAAAA
10245 AGAAAAGACA-AAAAGGAAAAAAA-TTC
1 AGAAAAGA-AGAAAA-GAAAAAAAGTTC
10271 AGAAAAGAAGAAAAGAAAAAAAGTTC
1 AGAAAAGAAGAAAAGAAAAAAAGTTC
10297 A-AAAAG-AGAAA
1 AGAAAAGAAGAAA
10308 GCAAGCCAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 5 0.14
25 14 0.40
26 16 0.46
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.06
Consensus pattern (26 bp):
AGAAAAGAAGAAAAGAAAAAAAGTTC
Found at i:19833 original size:73 final size:73
Alignment explanation
Indices: 19714--19864 Score: 248
Period size: 73 Copynumber: 2.1 Consensus size: 73
19704 ATGCAAGCTT
* *
19714 GAAGGTAGCTCAACGCACGTCCAAGGCTGCTGATGTAAGGCACTTGTACCTTGTCAATTGATTGT
1 GAAGGTAGCTCAACGCACGTCCAAGGCTACTGATGTAAGACACTTGTACCTTGTCAATTGATTGT
19779 GGATCTAG
66 GGATCTAG
* ** *
19787 GAAGGTAGCTCAACTCATTTCCGAGGCTACTGATGTAAGACACTTGTACCTTGTCAATTGATTGT
1 GAAGGTAGCTCAACGCACGTCCAAGGCTACTGATGTAAGACACTTGTACCTTGTCAATTGATTGT
19852 GGATCTAG
66 GGATCTAG
19860 GAAGG
1 GAAGG
19865 AAGCAAAACA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (73 bp):
GAAGGTAGCTCAACGCACGTCCAAGGCTACTGATGTAAGACACTTGTACCTTGTCAATTGATTGT
GGATCTAG
Found at i:22632 original size:16 final size:16
Alignment explanation
Indices: 22611--22642 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22601 TAGTTAGCTC
22611 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
22627 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
22643 TGGTGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:36758 original size:93 final size:93
Alignment explanation
Indices: 36599--36785 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 93
36589 CTACCACCCT
36599 TAACCATTCTATTTTGAGCCATTCACTTTGCAGGTTGTTTTGCTTCCTTCCTAGATCCACAATCA
1 TAACCATTCTATTTTGAGCCATTCACTTTGCAGGTTGTTTTGCTTCCTTCCTAGATCCACAATCA
*
36664 TTTGAAAAGGTACAAGTACCATACATCA
66 TTTAAAAAGGTACAAGTACCATACATCA
36692 TAACCATTCTATTTTGAGCCATTCACTTTGCAGGTTGTTTTGCTTCCTTCCTAGATCCACAATCA
1 TAACCATTCTATTTTGAGCCATTCACTTTGCAGGTTGTTTTGCTTCCTTCCTAGATCCACAATCA
*
36757 TTTAAAAAGGTACAAGTACCGTACATCA
66 TTTAAAAAGGTACAAGTACCATACATCA
36785 T
1 T
36786 CCAATGTGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.36
Consensus pattern (93 bp):
TAACCATTCTATTTTGAGCCATTCACTTTGCAGGTTGTTTTGCTTCCTTCCTAGATCCACAATCA
TTTAAAAAGGTACAAGTACCATACATCA
Found at i:40862 original size:20 final size:20
Alignment explanation
Indices: 40825--40863 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
40815 AGTGCTTCAA
*
40825 CTTTCTTTCTTTTTCTTTTC
1 CTTTCTTTCTTTTCCTTTTC
40845 CTTTCTTT-TTCTTCCTTTT
1 CTTTCTTTCTT-TTCCTTTT
40864 TGAGTGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTCTTTCTTTTCCTTTTC
Found at i:48149 original size:21 final size:22
Alignment explanation
Indices: 48125--48174 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
48115 AAAAGACAAA
48125 AAGAAA-AAAAA-TTCAGAAAAG
1 AAGAAAGAAAAAGTTCA-AAAAG
48146 AAGAAAAGAAAAAGTTCAAAAAG
1 AAG-AAAGAAAAAGTTCAAAAAG
48169 -AGAAAG
1 AAGAAAG
48175 CAAGCCAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 7 0.27
22 5 0.19
23 10 0.38
24 4 0.15
ACGTcount: A:0.70, C:0.04, G:0.18, T:0.08
Consensus pattern (22 bp):
AAGAAAGAAAAAGTTCAAAAAG
Found at i:48167 original size:23 final size:23
Alignment explanation
Indices: 48130--48173 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
48120 ACAAAAAGAA
48130 AAAAAATTCAGAAAAGAAGAAAAG
1 AAAAAATTCAGAAAAG-AGAAAAG
*
48154 AAAAAGTTCA-AAAAGAGAAA
1 AAAAAATTCAGAAAAGAGAAA
48174 GCAAGCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.70, C:0.05, G:0.16, T:0.09
Consensus pattern (23 bp):
AAAAAATTCAGAAAAGAGAAAAG
Found at i:48172 original size:22 final size:24
Alignment explanation
Indices: 48113--48173 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
48103 CAAAAAGAAA
48113 AGAAAAGACA-AAAAGAAAAAAAATTC
1 AGAAAAGA-AGAAAAG-AA-AAAATTC
*
48139 AGAAAAGAAGAAAAGAAAAAGTTC
1 AGAAAAGAAGAAAAGAAAAAATTC
48163 A-AAAAG-AGAAA
1 AGAAAAGAAGAAA
48174 GCAAGCCAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.15
23 5 0.15
24 7 0.21
25 3 0.09
26 13 0.39
ACGTcount: A:0.72, C:0.05, G:0.16, T:0.07
Consensus pattern (24 bp):
AGAAAAGAAGAAAAGAAAAAATTC
Found at i:64151 original size:37 final size:35
Alignment explanation
Indices: 64105--64178 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
64095 ATGATCACAT
*
64105 CATAATCCATCTTCCATTATAACGCCTATATAATCAC
1 CATAATCCATC-ACCA-TATAACGCCTATATAATCAC
* * * *
64142 CATAGTCCATCACCATATCACGTCTATATCATCAC
1 CATAATCCATCACCATATAACGCCTATATAATCAC
64177 CA
1 CA
64179 AATTCTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 19 0.59
36 3 0.09
37 10 0.31
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (35 bp):
CATAATCCATCACCATATAACGCCTATATAATCAC
Found at i:65074 original size:35 final size:37
Alignment explanation
Indices: 65028--65107 Score: 119
Period size: 35 Copynumber: 2.2 Consensus size: 37
65018 TTTGAGAATT
*
65028 TGGTGATGATATAGGCGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
65063 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
*
65100 TAGTGATG
1 TGGTGATG
65108 GAAATAGTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
35 21 0.52
36 4 0.10
37 15 0.38
ACGTcount: A:0.29, C:0.04, G:0.36, T:0.31
Consensus pattern (37 bp):
TGGTGATGATATAGGCGTGATAATGGAAGATGGACTA
Found at i:74175 original size:16 final size:16
Alignment explanation
Indices: 74154--74192 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
74144 AATATATGGT
74154 AATGAAACAAGAAAAA
1 AATGAAACAAGAAAAA
* * *
74170 AATGAAAGAATAAAGA
1 AATGAAACAAGAAAAA
74186 AATGAAA
1 AATGAAA
74193 TAGTAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (16 bp):
AATGAAACAAGAAAAA
Found at i:74440 original size:23 final size:20
Alignment explanation
Indices: 74397--74443 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
74387 TGTAGGAGTC
*
74397 TTTTTCTTTTCTTTTTGTTT
1 TTTTTCTTTTCTTGTTGTTT
74417 TTTTTCTTCTTTCTTGTTGCTTT
1 TTTTTC-T-TTTCTTGTTG-TTT
74440 TTTT
1 TTTT
74444 GTTGTAGCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 1 0.04
22 9 0.39
23 7 0.30
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTCTTGTTGTTT
Found at i:74867 original size:35 final size:37
Alignment explanation
Indices: 74821--74900 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 37
74811 TTTGAGAATT
* *
74821 TGGTGATGATATAGATGTGAT-ATGG-TGATGGACTA
1 TGGTGATGATATAGACGTGATAATGGAAGATGGACTA
* *
74856 TGGTGATGATATAGGCGTGATAATGGAAGATGGATTA
1 TGGTGATGATATAGACGTGATAATGGAAGATGGACTA
74893 TGGTGATG
1 TGGTGATG
74901 GAAATAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 19 0.49
36 4 0.10
37 16 0.41
ACGTcount: A:0.29, C:0.03, G:0.36, T:0.33
Consensus pattern (37 bp):
TGGTGATGATATAGACGTGATAATGGAAGATGGACTA
Found at i:81474 original size:243 final size:244
Alignment explanation
Indices: 81040--81506 Score: 783
Period size: 243 Copynumber: 1.9 Consensus size: 244
81030 CCATATAATC
* ** *
81040 ATCCTTCATCATCAACAAGGCACTCGTCCATTTACCACCATTGGAGGCCGAATCCATTATCACTT
1 ATCCTTCATCATCAACAAGGCACTCGTCCATTCACCAAAATTGGAGGCCGAATCCATCATCACTT
* *
81105 AAAGGATCATTCTACAATACTTCCGCAACCCTTCTTTGATAACTATTCTATCCATTTTAATTCTT
66 AAAGGATCATTCTACAACACTTCCGCAACCCTTCTTTGATAACTATTCTATCCATTTCAATTCTT
81170 TCCATTTCCTTTCTTAATTACTCATTTACTTAACCAATCATTCTTCTTTGTACAGATTACTTTTC
131 TCCATTTCCTTTCTTAATTACTCATTTACTTAACCAATCATTCTTCTTTGTACAGATTACTTTTC
81235 AATTCAAGGAGTAGCATTTGGTGTCTCTCATTTCTTCATCTTTGAAATT
196 AATTCAAGGAGTAGCATTTGGTGTCTCTCATTTCTTCATCTTTGAAATT
* * * *
81284 ATCCTTCATCCTTAACAAGGCATTCGTCCA-TCACCAAAATTGGAGGCTGAATCCATCATCACTT
1 ATCCTTCATCATCAACAAGGCACTCGTCCATTCACCAAAATTGGAGGCCGAATCCATCATCACTT
* *
81348 GAAGGATCATTCTACAACACTTCTGCAACCCTTCTTTGATAACTATTCTATCCATTTCAATTCTT
66 AAAGGATCATTCTACAACACTTCCGCAACCCTTCTTTGATAACTATTCTATCCATTTCAATTCTT
* * *
81413 TCCATTTCCTTTCTTAATTACTCATTTACTTAAGCAATCATTCTTCTTTGTGCATATTACTTTTC
131 TCCATTTCCTTTCTTAATTACTCATTTACTTAACCAATCATTCTTCTTTGTACAGATTACTTTTC
*
81478 AATTCAAGGTGTAGCATTTGGTGTCTCTC
196 AATTCAAGGAGTAGCATTTGGTGTCTCTC
81507 CTAGATCGGG
Statistics
Matches: 207, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
243 180 0.87
244 27 0.13
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (244 bp):
ATCCTTCATCATCAACAAGGCACTCGTCCATTCACCAAAATTGGAGGCCGAATCCATCATCACTT
AAAGGATCATTCTACAACACTTCCGCAACCCTTCTTTGATAACTATTCTATCCATTTCAATTCTT
TCCATTTCCTTTCTTAATTACTCATTTACTTAACCAATCATTCTTCTTTGTACAGATTACTTTTC
AATTCAAGGAGTAGCATTTGGTGTCTCTCATTTCTTCATCTTTGAAATT
Found at i:100483 original size:20 final size:22
Alignment explanation
Indices: 100447--100489 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
100437 TCTTTTCTTT
100447 TTTTTTTTTTGAATTTTC-GGA
1 TTTTTTTTTTGAATTTTCAGGA
*
100468 TTTTTTTTTT-ACTTTTCAGGA
1 TTTTTTTTTTGAATTTTCAGGA
100489 T
1 T
100490 GAATTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.14, C:0.07, G:0.12, T:0.67
Consensus pattern (22 bp):
TTTTTTTTTTGAATTTTCAGGA
Found at i:103631 original size:11 final size:10
Alignment explanation
Indices: 103607--103655 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 10
103597 GGAGTGCAAA
103607 AAGAAAGAAA-
1 AAGAAA-AAAG
103617 AAGACAAAAAG
1 AAGA-AAAAAG
103628 AAGAAGAAAAG
1 AAGAA-AAAAG
103639 AAGAAAAAA-
1 AAGAAAAAAG
103648 AAGAAAAA
1 AAGAAAAA
103656 GAATTCAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.22
10 12 0.33
11 16 0.44
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:108994 original size:19 final size:20
Alignment explanation
Indices: 108953--109003 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
108943 GAAACCCCTT
*
108953 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTTAA
108973 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
108992 TGAAGATACATG
1 TGAAAATACATG
109004 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:109904 original size:30 final size:31
Alignment explanation
Indices: 109865--109924 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
109855 ACATGCTGCC
** *
109865 ATGATATCTAAATGATATGTAAATATAATAA
1 ATGATATCTAAAACATATGTAAACATAATAA
109896 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGTAAACATAATA
109925 TAAAGCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (31 bp):
ATGATATCTAAAACATATGTAAACATAATAA
Found at i:113806 original size:27 final size:27
Alignment explanation
Indices: 113766--113830 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
113756 CTTGGCTTGC
113766 TTTC-TCTTTT-TGAATTTCTTT-TTAT
1 TTTCTTCTTTTCTGAATTT-TTTCTTAT
*
113791 TTTCTTCTTTTCTGAATTTTTTCTTCT
1 TTTCTTCTTTTCTGAATTTTTTCTTAT
113818 TTT-TGTCTTTTCT
1 TTTCT-TCTTTTCT
113831 TTTCTTTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 4 0.11
26 10 0.29
27 21 0.60
ACGTcount: A:0.08, C:0.15, G:0.05, T:0.72
Consensus pattern (27 bp):
TTTCTTCTTTTCTGAATTTTTTCTTAT
Found at i:113828 original size:18 final size:18
Alignment explanation
Indices: 113790--113840 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
113780 TTTCTTTTTA
113790 TTTTCTTCTTTTCTGAATT
1 TTTTCTTCTTTT-TGAATT
**
113809 TTTTCTTCTTTTTGTCTT
1 TTTTCTTCTTTTTGAATT
113827 TTCTT-TTCTTTTTG
1 TT-TTCTTCTTTTTG
113841 CACTCCAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.04, C:0.16, G:0.06, T:0.75
Consensus pattern (18 bp):
TTTTCTTCTTTTTGAATT
Found at i:124141 original size:22 final size:24
Alignment explanation
Indices: 124114--124166 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
124104 AAAATTAACA
124114 AAGAAATTG-AAGCACTC-AAAAG
1 AAGAAATTGCAAGCACTCAAAAAG
124136 AAGAAAATTGCAAGCACTCAAAAAG
1 AAG-AAATTGCAAGCACTCAAAAAG
124161 AAGAAA
1 AAGAAA
124167 AAGAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 3 0.11
23 6 0.21
24 11 0.39
25 8 0.29
ACGTcount: A:0.58, C:0.13, G:0.17, T:0.11
Consensus pattern (24 bp):
AAGAAATTGCAAGCACTCAAAAAG
Found at i:124145 original size:23 final size:25
Alignment explanation
Indices: 124117--124167 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
124107 ATTAACAAAG
124117 AAATTG-AAGCACTC-AAAAGAAGA
1 AAATTGCAAGCACTCAAAAAGAAGA
124140 AAATTGCAAGCACTCAAAAAGAAGA
1 AAATTGCAAGCACTCAAAAAGAAGA
124165 AAA
1 AAA
124168 AGAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 6 0.23
24 8 0.31
25 12 0.46
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.12
Consensus pattern (25 bp):
AAATTGCAAGCACTCAAAAAGAAGA
Found at i:124175 original size:14 final size:14
Alignment explanation
Indices: 124156--124188 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
124146 CAAGCACTCA
124156 AAAAGAAGAA-AAAG
1 AAAAGAA-AAGAAAG
124170 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
124184 AAAAG
1 AAAAG
124189 TTGAAGCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:124478 original size:17 final size:17
Alignment explanation
Indices: 124458--124516 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
124448 TTTAGGGAAG
124458 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
124475 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
124491 TAATTCATTCATGCATT
1 TAGTTCATTTATGCATC
124508 TAGTTCATT
1 TAGTTCATT
124517 GAATAATGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:125743 original size:17 final size:17
Alignment explanation
Indices: 125718--125757 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
125708 GTATGTTGTT
*
125718 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
125735 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
125752 CATTTA
1 CATTTA
125758 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:125836 original size:18 final size:18
Alignment explanation
Indices: 125813--125860 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
125803 ATTCATGCAT
125813 TTAGTTCATTAAATAAAG
1 TTAGTTCATTAAATAAAG
* *
125831 TTAGTTCATTGAATAATG
1 TTAGTTCATTAAATAAAG
*
125849 TTATTTCATTAA
1 TTAGTTCATTAA
125861 TCAAACTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (18 bp):
TTAGTTCATTAAATAAAG
Found at i:128673 original size:17 final size:17
Alignment explanation
Indices: 128648--128687 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
128638 GTATGTTGTT
*
128648 CATTGAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
128665 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
128682 CATTTA
1 CATTTA
128688 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:128766 original size:18 final size:18
Alignment explanation
Indices: 128743--128790 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
128733 ATTCATGCAT
128743 TTAGTTCATTAAATAAAG
1 TTAGTTCATTAAATAAAG
* *
128761 TTAGTTCATTGAATAATG
1 TTAGTTCATTAAATAAAG
*
128779 TTATTTCATTAA
1 TTAGTTCATTAA
128791 TCAAACTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (18 bp):
TTAGTTCATTAAATAAAG
Found at i:135473 original size:8 final size:8
Alignment explanation
Indices: 135460--135489 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
135450 CCCGGGTTAG
135460 TAAAAAAA
1 TAAAAAAA
135468 TAAAAAAA
1 TAAAAAAA
135476 TAAAAAAA
1 TAAAAAAA
135484 -AAAAAA
1 TAAAAAA
135490 TTTAAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
TAAAAAAA
Found at i:137465 original size:17 final size:18
Alignment explanation
Indices: 137439--137476 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
137429 ATGTTGTTCA
137439 TTAAAGCATGCATTGCAT
1 TTAAAGCATGCATTGCAT
* *
137457 TTAAA-CATGTATTTCAT
1 TTAAAGCATGCATTGCAT
137474 TTA
1 TTA
137477 GGGAAGTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (18 bp):
TTAAAGCATGCATTGCAT
Found at i:137503 original size:17 final size:17
Alignment explanation
Indices: 137483--137541 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
137473 TTTAGGGAAG
137483 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
137500 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
137516 TAATTCATTCATGCATT
1 TAGTTCATTTATGCATC
137533 TAGTTCATT
1 TAGTTCATT
137542 GAATAATGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:140345 original size:17 final size:17
Alignment explanation
Indices: 140320--140359 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
140310 GTATGTTGTT
*
140320 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
140337 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
140354 CATTTA
1 CATTTA
140360 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:140438 original size:18 final size:18
Alignment explanation
Indices: 140415--140460 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
140405 ATTCATGCAT
140415 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
* *
140433 TTAGTTAATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
140451 TTAATTCATT
1 TTAGTTCATT
140461 AATCAAACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:143255 original size:17 final size:17
Alignment explanation
Indices: 143230--143269 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
143220 GTATGTTGTT
*
143230 CATTGAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
143247 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
143264 CATTTA
1 CATTTA
143270 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:146081 original size:17 final size:17
Alignment explanation
Indices: 146056--146095 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
146046 GTATGTTGTT
*
146056 CATTGAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
146073 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
146090 CATTTA
1 CATTTA
146096 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:146174 original size:18 final size:18
Alignment explanation
Indices: 146151--146196 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
146141 AATCATGCAT
146151 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
146169 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
146187 TTATTTCATT
1 TTAGTTCATT
146197 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:146962 original size:8 final size:9
Alignment explanation
Indices: 146942--146971 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
146932 CCGGGTTAGT
*
146942 AAAAAAATA
1 AAAAAAAGA
146951 AAAAAAAGA
1 AAAAAAAGA
146960 AAAAAAAGA
1 AAAAAAAGA
146969 AAA
1 AAA
146972 TTTAAAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:148935 original size:17 final size:17
Alignment explanation
Indices: 148910--148949 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
148900 GTATGTTGTT
*
148910 CATTGAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
148927 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
148944 CATTTA
1 CATTTA
148950 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:149028 original size:18 final size:18
Alignment explanation
Indices: 149005--149050 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
148995 AATCATGCAT
149005 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
149023 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
149041 TTATTTCATT
1 TTAGTTCATT
149051 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:151792 original size:17 final size:17
Alignment explanation
Indices: 151767--151806 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
151757 GTATGTTGTT
*
151767 CATTGAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
151784 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
151801 CATTTA
1 CATTTA
151807 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:151885 original size:18 final size:18
Alignment explanation
Indices: 151862--151907 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
151852 AATCATGCAT
151862 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
151880 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
151898 TTATTTCATT
1 TTAGTTCATT
151908 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:154645 original size:17 final size:17
Alignment explanation
Indices: 154620--154659 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
154610 GTATGTTGTT
*
154620 CATTGAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
154637 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
154654 CATTTA
1 CATTTA
154660 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:157475 original size:17 final size:17
Alignment explanation
Indices: 157450--157489 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
157440 GTATGTTGTT
*
157450 CATTGAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
157467 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
157484 CATTTA
1 CATTTA
157490 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:157568 original size:18 final size:18
Alignment explanation
Indices: 157545--157590 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
157535 AATCATGCAT
157545 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
157563 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
157581 TTATTTCATT
1 TTAGTTCATT
157591 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:160323 original size:17 final size:17
Alignment explanation
Indices: 160298--160337 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
160288 GTATGATGTT
*
160298 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
160315 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
160332 CATTTA
1 CATTTA
160338 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:160364 original size:17 final size:17
Alignment explanation
Indices: 160344--160402 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
160334 TTTAGGGAAG
160344 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
160361 TAGTT-ATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
160377 TAATTCATTCATGCATT
1 TAGTTCATTTATGCATC
160394 TAGTTCATT
1 TAGTTCATT
160403 GAATAAAGTT
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:160416 original size:18 final size:18
Alignment explanation
Indices: 160393--160438 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
160383 ATTCATGCAT
160393 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
160411 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
160429 TTATTTCATT
1 TTAGTTCATT
160439 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:164364 original size:17 final size:17
Alignment explanation
Indices: 164339--164378 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
164329 GTATGTTGTT
*
164339 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
164356 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
164373 CATTTA
1 CATTTA
164379 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:164457 original size:18 final size:18
Alignment explanation
Indices: 164434--164477 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
164424 ATTCATGCAT
*
164434 TTAGTTCATTTAATAAAG
1 TTAGTTCATTGAATAAAG
*
164452 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
164470 TTATTTCA
1 TTAGTTCA
164478 ATAATCAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:164708 original size:17 final size:17
Alignment explanation
Indices: 164683--164722 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
164673 GTATGTTGTT
*
164683 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
164700 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
164717 CATTTA
1 CATTTA
164723 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:164801 original size:18 final size:18
Alignment explanation
Indices: 164778--164821 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
164768 ATTCATGCAT
*
164778 TTAGTTCATTTAATAAAG
1 TTAGTTCATTGAATAAAG
*
164796 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
164814 TTATTTCA
1 TTAGTTCA
164822 ATAATCAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:164954 original size:344 final size:344
Alignment explanation
Indices: 164320--165034 Score: 1412
Period size: 344 Copynumber: 2.1 Consensus size: 344
164310 CATTCATTGT
164320 ATTTAATAAGTATGTTGTTCATTAAAGCATGCATTGCATTTAAGCATGTATTTCATTTAGGGAAG
1 ATTTAATAAGTATGTTGTTCATTAAAGCATGCATTGCATTTAAGCATGTATTTCATTTAGGGAAG
164385 TAGTTCATTTATGCATCTCGTTATTTAATAAACTAATTCATTCATGCATTTAGTTCATTTAATAA
66 TAGTTCATTTATGCATCTCGTTATTTAATAAACTAATTCATTCATGCATTTAGTTCATTTAATAA
164450 AGTTAGTTCATTGAATAATGTTATTTCAATAATCAAACTAACTCTTAACTATCCCATGCATATTT
131 AGTTAGTTCATTGAATAATGTTATTTCAATAATCAAACTAACTCTTAACTATCCCATGCATATTT
164515 ACATGTTATGATTGAATAAATTTTATCTTTATGTTTAGGGATGTTTTTGGGTCCAACAATCAATT
196 ACATGTTATGATTGAATAAATTTTATCTTTATGTTTAGGGATGTTTTTGGGTCCAACAATCAATT
164580 GGACATTATTCCTCTATCTCTTAACTTTCCAATGCCTTTTGAATGACCTCAATCCAATGCCTTTT
261 GGACATTATTCCTCTATCTCTTAACTTTCCAATGCCTTTTGAATGACCTCAATCCAATGCCTTTT
164645 ATGCATGGAAATGAAGTAC
326 ATGCATGGAAATGAAGTAC
164664 ATTTAATAAGTATGTTGTTCATTAAAGCATGCATTGCATTTAAGCATGTATTTCATTTAGGGAAG
1 ATTTAATAAGTATGTTGTTCATTAAAGCATGCATTGCATTTAAGCATGTATTTCATTTAGGGAAG
164729 TAGTTCATTTATGCATCTCGTTATTTAATAAACTAATTCATTCATGCATTTAGTTCATTTAATAA
66 TAGTTCATTTATGCATCTCGTTATTTAATAAACTAATTCATTCATGCATTTAGTTCATTTAATAA
164794 AGTTAGTTCATTGAATAATGTTATTTCAATAATCAAACTAACTCTTAACTATCCCATGCATATTT
131 AGTTAGTTCATTGAATAATGTTATTTCAATAATCAAACTAACTCTTAACTATCCCATGCATATTT
164859 ACATGTTATGATTGAATAAATTTTATCTTTATGTTTAGGGATGTTTTTGGGTCCAACAATCAATT
196 ACATGTTATGATTGAATAAATTTTATCTTTATGTTTAGGGATGTTTTTGGGTCCAACAATCAATT
*
164924 GGACATTATTCCTCTATCTCTTAGCTTTCCAATGCCTTTTGAATGACCTCAATCCAATGCCTTTT
261 GGACATTATTCCTCTATCTCTTAACTTTCCAATGCCTTTTGAATGACCTCAATCCAATGCCTTTT
164989 ATGCATGGAAATGAAGTAC
326 ATGCATGGAAATGAAGTAC
*
165008 ATTTAATAAGTTTGTTGTTCATTAAAG
1 ATTTAATAAGTATGTTGTTCATTAAAG
165035 ATGGTTTCTT
Statistics
Matches: 369, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
344 369 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (344 bp):
ATTTAATAAGTATGTTGTTCATTAAAGCATGCATTGCATTTAAGCATGTATTTCATTTAGGGAAG
TAGTTCATTTATGCATCTCGTTATTTAATAAACTAATTCATTCATGCATTTAGTTCATTTAATAA
AGTTAGTTCATTGAATAATGTTATTTCAATAATCAAACTAACTCTTAACTATCCCATGCATATTT
ACATGTTATGATTGAATAAATTTTATCTTTATGTTTAGGGATGTTTTTGGGTCCAACAATCAATT
GGACATTATTCCTCTATCTCTTAACTTTCCAATGCCTTTTGAATGACCTCAATCCAATGCCTTTT
ATGCATGGAAATGAAGTAC
Found at i:166257 original size:22 final size:22
Alignment explanation
Indices: 166232--166273 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
166222 CAATTCATTT
166232 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
166254 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
166274 CCAGCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:172874 original size:11 final size:11
Alignment explanation
Indices: 172860--172890 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
172850 TCTTTTCTTT
*
172860 ATCTTGTTTTA
1 ATCTTATTTTA
172871 ATCTTATTTTA
1 ATCTTATTTTA
172882 ATCTTATTT
1 ATCTTATTT
172891 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.65
Consensus pattern (11 bp):
ATCTTATTTTA
Found at i:175045 original size:17 final size:17
Alignment explanation
Indices: 175020--175059 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
175010 GTATGTTGTT
*
175020 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
175037 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
175054 CATTTA
1 CATTTA
175060 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:175138 original size:18 final size:18
Alignment explanation
Indices: 175115--175160 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
175105 ATTCATGCAT
175115 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
175133 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
*
175151 TTATTTCATT
1 TTAGTTCATT
175161 AATCAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:177051 original size:22 final size:22
Alignment explanation
Indices: 176999--177057 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
176989 GTTTGCTATT
* *
176999 AAAAAAAAAACAAAACCAAAAC
1 AAAAAAAAGACAAAAACAAAAC
*
177021 AAAAAAAAGGCAAAAACAAAA-
1 AAAAAAAAGACAAAAACAAAAC
*
177042 ATAAAAAAAGCCAAAA
1 A-AAAAAAAGACAAAA
177058 TTTCAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.80, C:0.14, G:0.05, T:0.02
Consensus pattern (22 bp):
AAAAAAAAGACAAAAACAAAAC
Found at i:181399 original size:10 final size:10
Alignment explanation
Indices: 181365--181391 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
181355 TTGCTATTTA
181365 AAAAAAAACC
1 AAAAAAAACC
181375 AAAAAAAACC
1 AAAAAAAACC
181385 AAAAAAA
1 AAAAAAA
181392 TGCAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACC
Found at i:184741 original size:12 final size:13
Alignment explanation
Indices: 184724--184772 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 13
184714 TTTGCAATTC
184724 CTTTATCTT-TTT
1 CTTTATCTTATTT
184736 CTTTATCTTA-TT
1 CTTTATCTTATTT
*
184748 -TTAATCTTATTT
1 CTTTATCTTATTT
*
184760 C-TTATCTTGTTT
1 CTTTATCTTATTT
184772 C
1 C
184773 CAGCACCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 8 0.26
12 23 0.74
ACGTcount: A:0.14, C:0.16, G:0.02, T:0.67
Consensus pattern (13 bp):
CTTTATCTTATTT
Found at i:185130 original size:21 final size:21
Alignment explanation
Indices: 185104--185143 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
185094 TTTTTCAAAA
185104 CAAAAAACAAAAAAAAAGAGG
1 CAAAAAACAAAAAAAAAGAGG
*
185125 CAAAAAAGAAAAAAAAAGA
1 CAAAAAACAAAAAAAAAGA
185144 AAAAAAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.00
Consensus pattern (21 bp):
CAAAAAACAAAAAAAAAGAGG
Found at i:185137 original size:28 final size:28
Alignment explanation
Indices: 185100--185157 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
185090 TATTTTTTTC
* *
185100 AAAACAAAAAACAAA-AAAAAAGAGGCAA
1 AAAACAAAAAA-AAAGAAAAAAAAGCCAA
*
185128 AAAAGAAAAAAAAAGAAAAAAAAGCCAA
1 AAAACAAAAAAAAAGAAAAAAAAGCCAA
185156 AA
1 AA
185158 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.81, C:0.09, G:0.10, T:0.00
Consensus pattern (28 bp):
AAAACAAAAAAAAAGAAAAAAAAGCCAA
Found at i:185150 original size:21 final size:21
Alignment explanation
Indices: 185100--185150 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
185090 TATTTTTTTC
185100 AAAACAAAAAACAAAAAAAAAG
1 AAAA-AAAAAACAAAAAAAAAG
*** *
185122 AGGCAAAAAAGAAAAAAAAAG
1 AAAAAAAAAACAAAAAAAAAG
185143 AAAAAAAA
1 AAAAAAAA
185151 GCCAAAATTT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAACAAAAAAAAAG
Found at i:185151 original size:9 final size:10
Alignment explanation
Indices: 185105--185150 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
185095 TTTTCAAAAC
*
185105 AAAAAACAAA
1 AAAAAAGAAA
**
185115 AAAAAAGAGGC
1 AAAAAAGA-AA
185126 AAAAAAGAAA
1 AAAAAAGAAA
185136 AAAAAAGAAA
1 AAAAAAGAAA
185146 AAAAA
1 AAAAA
185151 GCCAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:185745 original size:207 final size:208
Alignment explanation
Indices: 185376--185762 Score: 593
Period size: 207 Copynumber: 1.9 Consensus size: 208
185366 TCTATATTGT
*
185376 AACTTCATATATTGGAGATAATTCAAACAAAAAATCAGAAATTTTGGAGATCAAGAACAACTTCG
1 AACTTCATATATTGAAGATAATTCAAACAAAAAATCAGAAATTTTGGAGATCAAGAACAACTTCG
* *
185441 AAAAAAAGCGATCAAGAAAAACAGATTGTTTGAGGACTCACCGTTCAACAGAATCTACTGGATAC
66 AAAAAAAGCGATCAAGAAAAACAGATTGTTTGAGGACTCACCATTCAACAGAATCCACTGGATAC
*
185506 TACTAAAGGTATTTGGTTATGAAATTTTACAGGTGG-TTGCTTGACGCATCGGAAGTCATTCAAG
131 TACTAAAGGTATTTGGTTATGAAATGTTACAGGTGGCTT-CTTGACGCATCGGAAGTCATTCAAG
185570 AATTTTCAAATTTC
195 AATTTTCAAATTTC
* * *
185584 AACTTCATATATTGAAGATCATTTACACAAAAAATCAG-AATATTTGGAGATCAAGAACAACTTC
1 AACTTCATATATTGAAGATAATTCAAACAAAAAATCAGAAAT-TTTGGAGATCAAGAACAACTTC
* * * * *
185648 G-AACAAAGTGATCAAGAAAAATAGATTGTTTGAGGACTCACCATTCAATAGAGTCCACTGGATA
65 GAAAAAAAGCGATCAAGAAAAACAGATTGTTTGAGGACTCACCATTCAACAGAATCCACTGGATA
* *
185712 CTACTGAAA-GTATTTGGTTCTGAAATGTTACAGGTGGCTTCTTGATGCATC
130 CTACT-AAAGGTATTTGGTTATGAAATGTTACAGGTGGCTTCTTGACGCATC
185763 AAAACACATT
Statistics
Matches: 162, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
207 100 0.62
208 62 0.38
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (208 bp):
AACTTCATATATTGAAGATAATTCAAACAAAAAATCAGAAATTTTGGAGATCAAGAACAACTTCG
AAAAAAAGCGATCAAGAAAAACAGATTGTTTGAGGACTCACCATTCAACAGAATCCACTGGATAC
TACTAAAGGTATTTGGTTATGAAATGTTACAGGTGGCTTCTTGACGCATCGGAAGTCATTCAAGA
ATTTTCAAATTTC
Found at i:189077 original size:10 final size:10
Alignment explanation
Indices: 189072--189110 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
189062 ACAAAAAACA
189072 AAAAAAAAAG
1 AAAAAAAAAG
**
189082 AGGCAAAAAAG
1 A-AAAAAAAAG
189093 AAAAAAAAAG
1 AAAAAAAAAG
189103 AAAAAAAA
1 AAAAAAAA
189111 GCCAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:189100 original size:11 final size:11
Alignment explanation
Indices: 189059--189110 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
189049 TATTTTTTTC
*
189059 AAAACAAAAAAC
1 AAAA-AAAAAAG
189071 AAAAAAAAAAG
1 AAAAAAAAAAG
***
189082 AGGCAAAAAAG
1 AAAAAAAAAAG
189093 -AAAAAAAAAG
1 AAAAAAAAAAG
189103 AAAAAAAA
1 AAAAAAAA
189111 GCCAAAATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
10 7 0.22
11 21 0.66
12 4 0.12
ACGTcount: A:0.85, C:0.06, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:195938 original size:9 final size:8
Alignment explanation
Indices: 195923--195955 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
195913 CTCGGGTTAG
195923 TAAAAAAA
1 TAAAAAAA
195931 TAAAAAAA
1 TAAAAAAA
195939 TAAAAAAA
1 TAAAAAAA
195947 -AAAGAAAA
1 TAAA-AAAA
195955 T
1 T
195956 TTAAAGAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 3 0.13
8 20 0.87
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
TAAAAAAA
Found at i:200465 original size:20 final size:20
Alignment explanation
Indices: 200440--200490 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
200430 TGATTATGGT
200440 GATGTGAGCTATGTTTGAAG
1 GATGTGAGCTATGTTTGAAG
200460 GATGTGAGCTATGTTTGAAG
1 GATGTGAGCTATGTTTGAAG
* *
200480 GTTATGAGCTA
1 GATGTGAGCTA
200491 ATTATATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.06, G:0.33, T:0.35
Consensus pattern (20 bp):
GATGTGAGCTATGTTTGAAG
Found at i:205198 original size:17 final size:17
Alignment explanation
Indices: 205173--205212 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
205163 GTATGTTGTT
*
205173 CATTAAAGCATGCATTG
1 CATTTAAGCATGCATTG
* *
205190 CATTTAAGCATGTATTT
1 CATTTAAGCATGCATTG
205207 CATTTA
1 CATTTA
205213 GGGAAGTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATTTAAGCATGCATTG
Found at i:205291 original size:18 final size:18
Alignment explanation
Indices: 205268--205306 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
205258 ATTCATGCAT
205268 TTAGTTCATTGAATAAAG
1 TTAGTTCATTGAATAAAG
*
205286 TTAGTTCATTGAATAATG
1 TTAGTTCATTGAATAAAG
205304 TTA
1 TTA
205307 TTTTATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (18 bp):
TTAGTTCATTGAATAAAG
Found at i:212312 original size:11 final size:11
Alignment explanation
Indices: 212298--212353 Score: 51
Period size: 13 Copynumber: 4.7 Consensus size: 11
212288 TCTTTTTGAA
212298 TTCTTTTTCTT
1 TTCTTTTTCTT
212309 TTCTTTTCTTCTT
1 TTC-TTT-TTCTT
*
212322 TTCTTCTTCTTTT
1 TTCTT-TT-TCTT
212335 TGTCTTTTTC-T
1 T-TCTTTTTCTT
212346 TTCTTTTT
1 TTCTTTTT
212354 GCACTCCAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 7 0.18
11 5 0.13
12 7 0.18
13 15 0.39
14 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:212322 original size:19 final size:18
Alignment explanation
Indices: 212298--212353 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
212288 TCTTTTTGAA
212298 TTCTTTTTCTTTTCTTTT
1 TTCTTTTTCTTTTCTTTT
212316 CTTC-TTTTCTTCTTCTTTT
1 -TTCTTTTTCTT-TTCTTTT
212335 TGTCTTTTTC-TTTCTTTT
1 T-TCTTTTTCTTTTCTTTT
212353 T
1 T
212354 GCACTCCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 16 0.47
19 13 0.38
20 5 0.15
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (18 bp):
TTCTTTTTCTTTTCTTTT
Found at i:221877 original size:800 final size:798
Alignment explanation
Indices: 220339--221936 Score: 3169
Period size: 800 Copynumber: 2.0 Consensus size: 798
220329 AATGGTGATG
220339 GACAGATTGTATCTTATAAAAACTAAGAAGGAACCAATGCTATAAAAGAGCAAAGACCTGTTTCT
1 GACAGATTGTATCTTATAAAAACTAAGAAGGAACCAATGCTATAAAAGAGCAAAGACCTGTTTCT
220404 TATAAGTTTTATAAGGGATGGTATGAAAGGACTTTGACCCACTAGTTATTTAAACTAGGAACCAG
66 TATAAGTTTTATAAGGGATGGTATGAAAGGACTTTGACCCACTAGTTATTTAAACTAGGAACCAG
220469 AAGTATCAAGGTGAAGGAATGATGCCACAAGCTTTAGAAAGGCTTGTTTAATCGATATAGTTCTA
131 AAGTATCAAGGTGAAGGAATGATGCCACAAGCTTTAGAAAGGCTTGTTTAATCGATATAGTTCTA
220534 AAAAGAACTTGAAGAGAGATAATCTCACAAAAGGATTTTAATTATCAAAGGGTTCTTTTACAAAT
196 AAAAGAACTTGAAGAGAGATAATCTCACAAAAGGATTTTAATTATCAAAGGGTTCTTTTACAAAT
220599 GAAATATCCAAGCCTATTTATAGGCTAGCATAGGTTTGGCCGAATAATTAGTTGTCCATTCGACT
261 GAAATATCCAAGCCTATTTATAGGCTAGCATAGGTTTGGCCGAATAATTAGTTGTCCATTCGACT
220664 AAATACATGACTATTAAATCGAAATACATGATATTTTAATGAATGAAGATGTCCTTGGCCGAATG
326 AAATACATGACTATTAAATCGAAATACATGATATTTTAATGAATGAAGATGTCCTTGGCCGAATG
220729 GTCTCCTTGCTCTTCATCTTGGCGCCAATTTTGAATCAAAAGGATGTTTAGGCCGAATAGAGAGA
391 GTCTCCTTGCTCTTCATCTTGGCGCCAATTTTGAATCAAAAGGATGTTTAGGCCGAATAGAGAGA
220794 ACCCTCTTCATTTTGGCGCCCATTTCATCCACACGCATGGCACATGTGCGTGGGCTGGTCATGAG
456 ACCCTCTTCATTTTGGCGCCCATTTCATCCACACGCATGGCACATGTGCGTGGGCTGGTCATGAG
220859 GCACTCACATGGGTGGCTTGGGGTCTTATGGTGTGTCTCCTACTTGGCGTGAAGTTGAGCAGCAA
521 GCACTCACATGGGTGGCTTGGGGTCTTATGGTGTGTCTCCTACTTGGCGTGAAGTTGAGCAGCAA
*
220924 CTTAGGTGTGACTTTGCATCCAACTTGCTTCTAGATGACATGGCGTCAATGGGGCAGCAACTATT
586 CTTAGGTGTGACTTTGCATCCAACTTGCTACTAGATGACATGGCGTCAATGGGGCAGCAACTATT
220989 TATGAAAGGTTACATTTGTGGAAGGCAACCTTTCATCATTTGAGCTACTTCCCATGTGTTTGAGC
651 TATGAAAGGTTACATTTGTGGAAGGCAACCTTTCATCATTTGAGCTACTTCCCATGTGTTTGAGC
221054 TGAATATGAGCTGGCCATAGATGCAATACATGTAAATGAGTCTTAAGACAACTCCTTGTGAAAGG
716 TGAATATGAGCTGGCCATAGATGCAATACATGTAAATGAGTCTTAAGACAACTCCTTGTGAAAGG
221119 GCACTTCTCGGATTGGCA
781 GCACTTCTCGGATTGGCA
221137 GACAGATTGTATCTTATAAAAACTAAGAAGGAACCAATGCTATAAAAGAGCAAAGACCTGTTTCT
1 GACAGATTGTATCTTATAAAAACTAAGAAGGAACCAATGCTATAAAAGAGCAAAGACCTGTTTCT
221202 TATAAGTTTTATAAGGGATGGTATGAAAGGACTTTGACCCACTAGTTATTTAAACTAGGAACCAG
66 TATAAGTTTTATAAGGGATGGTATGAAAGGACTTTGACCCACTAGTTATTTAAACTAGGAACCAG
221267 AAGTATCAAGGTGAAGGAATGATGCCACAAGCTTTAGAAAGGCTTGTTTAATCGATATAGTTCTA
131 AAGTATCAAGGTGAAGGAATGATGCCACAAGCTTTAGAAAGGCTTGTTTAATCGATATAGTTCTA
221332 AAAAGAACTTGAAGAGAGAATAATCTCACAAAAAGGATTTTAATTATCAAAGGGTTCTTTTACAA
196 AAAAGAACTTGAAGAGAG-ATAATCTCAC-AAAAGGATTTTAATTATCAAAGGGTTCTTTTACAA
221397 ATGAAATATCCAAGCCTATTTATAGGCTAGCATAGGTTTGGCCGAATAATTAGTTGTCCATTCGA
259 ATGAAATATCCAAGCCTATTTATAGGCTAGCATAGGTTTGGCCGAATAATTAGTTGTCCATTCGA
221462 CTAAATACATGACTATTAAATCGAAATACATGATATTTTAATGAATGAAGATGTCCTTGGCCGAA
324 CTAAATACATGACTATTAAATCGAAATACATGATATTTTAATGAATGAAGATGTCCTTGGCCGAA
221527 TGGTCTCCTTGCTCTTCATCTTGGCGCCAATTTTGAATCAAAAGGATGTTTAGGCCGAATAGAGA
389 TGGTCTCCTTGCTCTTCATCTTGGCGCCAATTTTGAATCAAAAGGATGTTTAGGCCGAATAGAGA
221592 GAACCCTCTTCATTTTGGCGCCCATTTCATCCACACGCATGGCACATGTGCGTGGGCTGGTCATG
454 GAACCCTCTTCATTTTGGCGCCCATTTCATCCACACGCATGGCACATGTGCGTGGGCTGGTCATG
221657 AGGCACTCACATGGGTGGCTTGGGGTCTTATGGTGTGTCTCCTACTTGGCGTGAAGTTGAGCAGC
519 AGGCACTCACATGGGTGGCTTGGGGTCTTATGGTGTGTCTCCTACTTGGCGTGAAGTTGAGCAGC
221722 AACTTAGGTGTGACTTTGCATCCAACTTGCTACTAGATGACATGGCGTCAATGGGGCAGCAACTA
584 AACTTAGGTGTGACTTTGCATCCAACTTGCTACTAGATGACATGGCGTCAATGGGGCAGCAACTA
221787 TTTATGAAAGGTTACATTTGTGGAAGGCAACCTTTCATCATTTGAGCTACTTCCCATGTGTTTGA
649 TTTATGAAAGGTTACATTTGTGGAAGGCAACCTTTCATCATTTGAGCTACTTCCCATGTGTTTGA
221852 GCTGAATATGAGCTGGCCATAGATGCAATACATGTAAATGAGTCTTAAGACAACTCCTTGTGAAA
714 GCTGAATATGAGCTGGCCATAGATGCAATACATGTAAATGAGTCTTAAGACAACTCCTTGTGAAA
221917 GGGCACTTCTCGGATTGGCA
779 GGGCACTTCTCGGATTGGCA
221937 ACTCTTCGCG
Statistics
Matches: 797, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
798 213 0.27
799 10 0.01
800 574 0.72
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (798 bp):
GACAGATTGTATCTTATAAAAACTAAGAAGGAACCAATGCTATAAAAGAGCAAAGACCTGTTTCT
TATAAGTTTTATAAGGGATGGTATGAAAGGACTTTGACCCACTAGTTATTTAAACTAGGAACCAG
AAGTATCAAGGTGAAGGAATGATGCCACAAGCTTTAGAAAGGCTTGTTTAATCGATATAGTTCTA
AAAAGAACTTGAAGAGAGATAATCTCACAAAAGGATTTTAATTATCAAAGGGTTCTTTTACAAAT
GAAATATCCAAGCCTATTTATAGGCTAGCATAGGTTTGGCCGAATAATTAGTTGTCCATTCGACT
AAATACATGACTATTAAATCGAAATACATGATATTTTAATGAATGAAGATGTCCTTGGCCGAATG
GTCTCCTTGCTCTTCATCTTGGCGCCAATTTTGAATCAAAAGGATGTTTAGGCCGAATAGAGAGA
ACCCTCTTCATTTTGGCGCCCATTTCATCCACACGCATGGCACATGTGCGTGGGCTGGTCATGAG
GCACTCACATGGGTGGCTTGGGGTCTTATGGTGTGTCTCCTACTTGGCGTGAAGTTGAGCAGCAA
CTTAGGTGTGACTTTGCATCCAACTTGCTACTAGATGACATGGCGTCAATGGGGCAGCAACTATT
TATGAAAGGTTACATTTGTGGAAGGCAACCTTTCATCATTTGAGCTACTTCCCATGTGTTTGAGC
TGAATATGAGCTGGCCATAGATGCAATACATGTAAATGAGTCTTAAGACAACTCCTTGTGAAAGG
GCACTTCTCGGATTGGCA
Found at i:236142 original size:21 final size:21
Alignment explanation
Indices: 236116--236160 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
236106 TTTTTTTGAA
*
236116 TTTTTGGATTTTTGGCTTTTT
1 TTTTTGGATTTTTGCCTTTTT
**
236137 TTTTTGTTTTTTTGCCTTTTT
1 TTTTTGGATTTTTGCCTTTTT
236158 TTT
1 TTT
236161 GTTTTTTTTT
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:0.02, C:0.07, G:0.13, T:0.78
Consensus pattern (21 bp):
TTTTTGGATTTTTGCCTTTTT
Found at i:236146 original size:8 final size:8
Alignment explanation
Indices: 236135--236181 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
236125 TTTTGGCTTT
236135 TTTTTTTG
1 TTTTTTTG
236143 TTTTTTTG
1 TTTTTTTG
*
236151 CCTTTTTT-
1 -TTTTTTTG
*
236159 TTGTTTT-
1 TTTTTTTG
236166 TTTTTTTG
1 TTTTTTTG
236174 TTTTTTTG
1 TTTTTTTG
236182 AAAAAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 11 0.33
8 16 0.48
9 6 0.18
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:236146 original size:19 final size:19
Alignment explanation
Indices: 236124--236167 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
236114 AATTTTTGGA
*
236124 TTTTTGGCTTTTTTTTTTGT
1 TTTTTGGC-CTTTTTTTTGT
*
236144 TTTTTTGCCTTTTTTTTGT
1 TTTTTGGCCTTTTTTTTGT
236163 TTTTT
1 TTTTT
236168 TTTTTGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.82
Consensus pattern (19 bp):
TTTTTGGCCTTTTTTTTGT
Found at i:236167 original size:21 final size:21
Alignment explanation
Indices: 236124--236171 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
236114 AATTTTTGGA
*
236124 TTTTTGGCTTTTTTTTTTGTT
1 TTTTTGCCTTTTTTTTTTGTT
*
236145 TTTTTGCCTTTTTTTTGTTTTT
1 TTTTTGCCTTTTTTTT-TTGTT
236167 TTTTT
1 TTTTT
236172 TGTTTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.83
Consensus pattern (21 bp):
TTTTTGCCTTTTTTTTTTGTT
Found at i:241936 original size:14 final size:15
Alignment explanation
Indices: 241918--241954 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
241908 TCCAGCACCC
241918 AAAAGAAGAA-AAAG
1 AAAAGAAGAAGAAAG
*
241932 CAAAGAA-AAGAAAG
1 AAAAGAAGAAGAAAG
241946 AAAAGAAGA
1 AAAAGAAGA
241955 TGAAGCACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 2 0.11
14 16 0.84
15 1 0.05
ACGTcount: A:0.76, C:0.03, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAGAAAG
Found at i:244837 original size:24 final size:21
Alignment explanation
Indices: 244803--244848 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
244793 TCCACAAGAC
*
244803 ATGTCCTTTGACATTTCAAAAG
1 ATGTCCTTTGA-AATTCAAAAG
244825 ATGTACCTCTTGAAATTCAAAAG
1 ATGT-CCT-TTGAAATTCAAAAG
244848 A
1 A
244849 ATGTGCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAAG
Found at i:244861 original size:24 final size:23
Alignment explanation
Indices: 244817--244862 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
244807 CCTTTGACAT
**
244817 TTCAAAAGATGTACCTCTTGAAA
1 TTCAAAAGATGTACCAATTGAAA
*
244840 TTCAAAAGAATGTGCCAATTGAA
1 TTCAAAAG-ATGTACCAATTGAA
244863 GTGCCACAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (23 bp):
TTCAAAAGATGTACCAATTGAAA
Found at i:247130 original size:20 final size:22
Alignment explanation
Indices: 247095--247134 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
247085 CATGCTTAAT
247095 CATTCATTTGTTAGCTCATATG
1 CATTCATTTGTTAGCTCATATG
247117 CATTCA-TT-TTAGCTCATA
1 CATTCATTTGTTAGCTCATA
247135 GGTCTTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (22 bp):
CATTCATTTGTTAGCTCATATG
Found at i:253672 original size:19 final size:21
Alignment explanation
Indices: 253629--253680 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
253619 GAAACCCCTT
253629 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
253650 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
253669 TGAAGATACATG
1 TGAAAATACATG
253681 CTCTTGACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Done.