Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007950.1 Hibiscus syriacus cultivar Beakdansim tig00110372_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: 1941792
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 10
Found at i:1783230 original size:13 final size:13
Alignment explanation
Indices: 1783214--1783244 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1783204 AATTATTTTC
1783214 TCAAATCAGTTAA
1 TCAAATCAGTTAA
*
1783227 TCAAATCAGTTGA
1 TCAAATCAGTTAA
1783240 TCAAA
1 TCAAA
1783245 CCAGCTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (13 bp):
TCAAATCAGTTAA
Found at i:1803423 original size:19 final size:19
Alignment explanation
Indices: 1803369--1803417 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1803359 TGCAAATTGG
*
1803369 GTATTGATACCCAAGCTCA
1 GTATCGATACCCAAGCTCA
*
1803388 ATATCGATACCCAAGCTCA
1 GTATCGATACCCAAGCTCA
1803407 GTATCGATACC
1 GTATCGATACC
1803418 ACAGCTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (19 bp):
GTATCGATACCCAAGCTCA
Found at i:1804118 original size:2 final size:2
Alignment explanation
Indices: 1804111--1804150 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1804101 GTCCTTTGGA
1804111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1804151 GATCCTTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1804189 original size:21 final size:21
Alignment explanation
Indices: 1804163--1804205 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1804153 TCCTTAAGGA
* *
1804163 GTGGTCCTTTGGGACATTTAT
1 GTGGTCCTTAGGGACATATAT
1804184 GTGGTCCTTAGGGACATATAT
1 GTGGTCCTTAGGGACATATAT
1804205 G
1 G
1804206 AGTGGTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (21 bp):
GTGGTCCTTAGGGACATATAT
Found at i:1811295 original size:21 final size:21
Alignment explanation
Indices: 1811269--1811311 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1811259 TCCTTAAGGA
*
1811269 GTGGTCCTTAGGGACATTTAT
1 GTGGTCCTTAGGGACATATAT
*
1811290 GTGGTCCTTAGGGGCATATAT
1 GTGGTCCTTAGGGACATATAT
1811311 G
1 G
1811312 AGTGGTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.35
Consensus pattern (21 bp):
GTGGTCCTTAGGGACATATAT
Found at i:1818350 original size:22 final size:22
Alignment explanation
Indices: 1818277--1818352 Score: 80
Period size: 22 Copynumber: 3.3 Consensus size: 22
1818267 CTCGAGATCG
1818277 ACTCGGTCAAGGCTCGATAAAT
1 ACTCGGTCAAGGCTCGATAAAT
****
1818299 ACTCGGATCGAATGGACTCGATCTCG
1 ACTCGG-TC-AA-GG-CTCGATAAAT
1818325 ACTCGGTCAAGGCTCGATAAAT
1 ACTCGGTCAAGGCTCGATAAAT
1818347 ACTCGG
1 ACTCGG
1818353 ATCGAATGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
22 18 0.43
23 4 0.10
24 4 0.10
25 4 0.10
26 12 0.29
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (22 bp):
ACTCGGTCAAGGCTCGATAAAT
Found at i:1818377 original size:48 final size:48
Alignment explanation
Indices: 1818274--1818377 Score: 192
Period size: 48 Copynumber: 2.2 Consensus size: 48
1818264 CTACTCGAGA
1818274 TCGACTCGGTCAAGGCTCGATAAATACTCGGATCGAATGGACTCGATC
1 TCGACTCGGTCAAGGCTCGATAAATACTCGGATCGAATGGACTCGATC
1818322 TCGACTCGGTCAAGGCTCGATAAATACTCGGATCGAATGGACTCGA-C
1 TCGACTCGGTCAAGGCTCGATAAATACTCGGATCGAATGGACTCGATC
1818369 TCGAACTCG
1 TCG-ACTCG
1818378 ATCTCGACTC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 4 0.07
48 51 0.93
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (48 bp):
TCGACTCGGTCAAGGCTCGATAAATACTCGGATCGAATGGACTCGATC
Found at i:1818389 original size:48 final size:48
Alignment explanation
Indices: 1818274--1818389 Score: 162
Period size: 48 Copynumber: 2.4 Consensus size: 48
1818264 CTACTCGAGA
* *
1818274 TCGACTCGGTCAAGGCTCGATAAATACTCGGATCGAATGGACTCGATC
1 TCGACTCGATCAAGACTCGATAAATACTCGGATCGAATGGACTCGATC
* *
1818322 TCGACTCGGTCAAGGCTCGATAAATACTCGGATCGAATGGACTCGA-C
1 TCGACTCGATCAAGACTCGATAAATACTCGGATCGAATGGACTCGATC
**
1818369 TCGAACTCGATCTCGACTCGA
1 TCG-ACTCGATCAAGACTCGA
1818390 ATTCTTAACG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
47 4 0.06
48 59 0.94
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (48 bp):
TCGACTCGATCAAGACTCGATAAATACTCGGATCGAATGGACTCGATC
Found at i:1829121 original size:12 final size:12
Alignment explanation
Indices: 1829106--1829137 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
1829096 CAGCTCCAAG
1829106 TCCAGCACCAGT
1 TCCAGCACCAGT
1829118 TCCAGCACCAGT
1 TCCAGCACCAGT
1829130 TCCAGCAC
1 TCCAGCAC
1829138 AACTGACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.44, G:0.16, T:0.16
Consensus pattern (12 bp):
TCCAGCACCAGT
Found at i:1830579 original size:24 final size:24
Alignment explanation
Indices: 1830535--1830584 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1830525 ATAAAGAACC
*
1830535 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
1830559 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
1830583 AA
1 AA
1830585 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:1833865 original size:26 final size:26
Alignment explanation
Indices: 1833848--1833896 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
1833838 AGAAGATGAG
1833848 TAAAA-GAAAGAGAAAAAGTAAAAGT
1 TAAAATGAAAGAGAAAAAGTAAAAGT
*
1833873 TAAAATGAAAGAGAAAAATTAAAA
1 TAAAATGAAAGAGAAAAAGTAAAA
1833897 AAGAAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (26 bp):
TAAAATGAAAGAGAAAAAGTAAAAGT
Found at i:1833908 original size:26 final size:25
Alignment explanation
Indices: 1833849--1833923 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
1833839 GAAGATGAGT
* ***
1833849 AAAAGAAAGAGAAAAAGTAAAAGTT
1 AAAAGAAAGAGAAAAATTAAAAAAG
1833874 AAAATGAAAGAGAAAAATTAAAAAAG
1 AAAA-GAAAGAGAAAAATTAAAAAAG
1833900 AAAGAGAAA-AGAAAAAGTTAAAAA
1 AAA-AGAAAGAGAAAAA-TTAAAAA
1833924 TTTAAGAGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
25 11 0.26
26 31 0.72
27 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (25 bp):
AAAAGAAAGAGAAAAATTAAAAAAG
Found at i:1842334 original size:20 final size:20
Alignment explanation
Indices: 1842309--1842353 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1842299 GGTTATGTTA
*
1842309 GCTTCTGGTGGCTAAGTTTT
1 GCTTCTGGTGGATAAGTTTT
1842329 GCTTCTGGTGGATAAGTTTT
1 GCTTCTGGTGGATAAGTTTT
1842349 GCTTC
1 GCTTC
1842354 GGCAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.11, C:0.16, G:0.29, T:0.44
Consensus pattern (20 bp):
GCTTCTGGTGGATAAGTTTT
Found at i:1849653 original size:17 final size:17
Alignment explanation
Indices: 1849631--1849663 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1849621 AGATTCTCAT
1849631 AGTTTCTCATTTAATGA
1 AGTTTCTCATTTAATGA
*
1849648 AGTTTCTCGTTTAATG
1 AGTTTCTCATTTAATG
1849664 TTTTCACTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.48
Consensus pattern (17 bp):
AGTTTCTCATTTAATGA
Found at i:1849722 original size:35 final size:36
Alignment explanation
Indices: 1849676--1849755 Score: 135
Period size: 36 Copynumber: 2.2 Consensus size: 36
1849666 TTCACTCAAG
1849676 ATTTTATCTCACTTGAAATTA-TTTCCTTAAAACAT
1 ATTTTATCTCACTTGAAATTATTTTCCTTAAAACAT
* *
1849711 ATTTTATCTCACTTGAGATTATTTTTCTTAAAACAT
1 ATTTTATCTCACTTGAAATTATTTTCCTTAAAACAT
1849747 ATTTTATCT
1 ATTTTATCT
1849756 TACATGAGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 20 0.48
36 22 0.52
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (36 bp):
ATTTTATCTCACTTGAAATTATTTTCCTTAAAACAT
Found at i:1849748 original size:36 final size:35
Alignment explanation
Indices: 1849676--1849778 Score: 145
Period size: 35 Copynumber: 2.9 Consensus size: 35
1849666 TTCACTCAAG
* *
1849676 ATTTTATCTCACTTGAAATTATTTCCTTAAAACAT
1 ATTTTATCTCACTTGAGATTATTTTCTTAAAACAT
1849711 ATTTTATCTCACTTGAGATTATTTTTCTTAAAACAT
1 ATTTTATCTCACTTGAGATTA-TTTTCTTAAAACAT
* *
1849747 ATTTTATCTTACATGAGA-TAGTTTTCTTAAAA
1 ATTTTATCTCACTTGAGATTA-TTTTCTTAAAA
1849779 ACAAAATTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
35 33 0.53
36 29 0.47
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.48
Consensus pattern (35 bp):
ATTTTATCTCACTTGAGATTATTTTCTTAAAACAT
Found at i:1851728 original size:14 final size:15
Alignment explanation
Indices: 1851711--1851740 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1851701 TCTATTTACA
1851711 TTTATGT-CTTTAAT
1 TTTATGTACTTTAAT
1851725 TTTATGTACTTTAAT
1 TTTATGTACTTTAAT
1851740 T
1 T
1851741 CATGTCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (15 bp):
TTTATGTACTTTAAT
Found at i:1852586 original size:24 final size:22
Alignment explanation
Indices: 1852555--1852628 Score: 66
Period size: 24 Copynumber: 3.4 Consensus size: 22
1852545 ATTTATTTAT
*
1852555 TATTTTTAAAATTATTAAAATAA
1 TATTTTTAAAATAATT-AAATAA
* *
1852578 TATCTTTTATAATAATT--ATTA
1 TAT-TTTTAAAATAATTAAATAA
1852599 TATTTTT--AATAATTAAATAA
1 TATTTTTAAAATAATTAAATAA
1852619 TATATTTTAA
1 TAT-TTTTAA
1852629 CATTATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
18 7 0.17
20 10 0.24
21 10 0.24
23 3 0.07
24 11 0.27
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTTTTAAAATAATTAAATAA
Found at i:1852610 original size:21 final size:21
Alignment explanation
Indices: 1852572--1852626 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
1852562 AAAATTATTA
*
1852572 AAATAATAT-CTTTTATAA-T
1 AAATAATATATTTTTATAATT
* *
1852591 AATTATTATATTTTTAATAATT
1 AAATAATATATTTTT-ATAATT
1852613 AAATAATATATTTT
1 AAATAATATATTTT
1852627 AACATTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 7 0.25
20 4 0.14
21 4 0.14
22 13 0.46
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATAATATATTTTTATAATT
Found at i:1852627 original size:21 final size:20
Alignment explanation
Indices: 1852572--1852628 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
1852562 AAAATTATTA
*
1852572 AAATAATATCTTTT-ATAAT
1 AAATAATATATTTTAATAAT
* *
1852591 AATTATTATATTTTTAATAATT
1 AAATAATATA-TTTTAATAA-T
1852613 AAATAATATATTTTAA
1 AAATAATATATTTTAA
1852629 CATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 7 0.23
20 4 0.13
21 10 0.33
22 9 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AAATAATATATTTTAATAAT
Found at i:1852672 original size:24 final size:23
Alignment explanation
Indices: 1852597--1852672 Score: 59
Period size: 24 Copynumber: 3.3 Consensus size: 23
1852587 TAATAATTAT
*
1852597 TATATTTTTAATAA-TTAAATA-A
1 TATATATTTAA-AATTTAAATATA
* *
1852619 TATAT-TTTAACATTATAAAAATA
1 TATATATTTAAAATT-TAAATATA
* *
1852642 AAAATATTTAAAATCTTAAATATA
1 TATATATTTAAAAT-TTAAATATA
1852666 TATATAT
1 TATATAT
1852673 ATAACTTGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 6 0.15
22 10 0.24
23 4 0.10
24 19 0.46
25 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
TATATATTTAAAATTTAAATATA
Found at i:1858269 original size:21 final size:21
Alignment explanation
Indices: 1858244--1858286 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1858234 CAAATAACTG
*
1858244 AAAACGTG-TCATAAAGACAGA
1 AAAACGTGCT-ATAAAGAAAGA
1858265 AAAACGTGCTATAAAGAAAGA
1 AAAACGTGCTATAAAGAAAGA
1858286 A
1 A
1858287 GAATATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.56, C:0.12, G:0.19, T:0.14
Consensus pattern (21 bp):
AAAACGTGCTATAAAGAAAGA
Found at i:1858994 original size:23 final size:23
Alignment explanation
Indices: 1858968--1859018 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1858958 TAAGCTACCA
* *
1858968 AAAGGTAAAGAGAAATGTGCCAT
1 AAAGATAAAGAGAAACGTGCCAT
* * *
1858991 AAAGATATAGATAAACGTGTCAT
1 AAAGATAAAGAGAAACGTGCCAT
1859014 AAAGA
1 AAAGA
1859019 CAGAGAACAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.20
Consensus pattern (23 bp):
AAAGATAAAGAGAAACGTGCCAT
Found at i:1862929 original size:200 final size:201
Alignment explanation
Indices: 1862572--1863054 Score: 531
Period size: 201 Copynumber: 2.4 Consensus size: 201
1862562 AATCGCAAGT
* * * *
1862572 GTTT-ATAGGCA-AGTTCCAGGGGTACTTTT-GGGTAGTTAATCT-AAAACATTTTGTAATTTAC
1 GTTTGATAGGCATA-TTCGAGGGATA-TTTTCGGGTAGTTAATCTGAAAA-TTTTTGTAATTTAT
* * * *
1862633 AATG-TTAGAGG-GTAGTATTGGAATCTATCTTTCAGTTGAAGCCAATATCGACACATACGAGAT
63 AA-GATTAGAGGCGTAGTATTGGAATCTATCTTTCAATTGAAGCCAATACCGACACATACAAGAC
* * * *
1862696 ATTGTAAGTGGGTTAAAAATCGCGTTGAAAATGGTTCCAAAGCTT-GTTTTGCGCATGAAGAA-A
127 ACTGTAAGTGGGTTAAAAATCACATTCAAAATGGTTCCAAAGCTTGGTTTTGCGCATGAAGAAGA
1862759 CAACTAAAATA
192 -AACTAAAATA
**
1862770 GTTTGATAGGCATATTCGAGGGATATTTTCGGGTAGTTAATCTGAATTTTTTTGTAATTTATAAG
1 GTTTGATAGGCATATTCGAGGGATATTTTCGGGTAGTTAATCTGAAAATTTTTGTAATTTATAAG
* * * **
1862835 ATTAGAGGCATAGTATTGTAATTTATCTTTCAATTG-AGTGTAATACC-AGCACATACAAGACAC
66 ATTAGAGGCGTAGTATTGGAATCTATCTTTCAATTGAAG-CCAATACCGA-CACATACAAGACAC
* * *
1862898 TGTAAGTGAGG-TAAAAATTACATTCAAAATGGTTCCAAAGCTTGGTTTTGTGCATGGAGAAGAA
129 TGTAAGTG-GGTTAAAAATCACATTCAAAATGGTTCCAAAGCTTGGTTTTGCGCATGAAGAAGAA
*
1862962 GCTAAAATA
193 ACTAAAATA
* * ** * *
1862971 GCTTGATAGACATATTCG-GGGACTATTTTCATGAAGTTAATCTGAAAATTTTTGTGATTTATAA
1 GTTTGATAGGCATATTCGAGGGA-TATTTTCGGGTAGTTAATCTGAAAATTTTTGTAATTTATAA
*
1863035 GATTAAAGGCGTAGTATTGG
65 GATTAGAGGCGTAGTATTGG
1863055 TACTTACGTT
Statistics
Matches: 239, Mismatches: 34, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
198 9 0.04
199 53 0.22
200 82 0.34
201 94 0.39
202 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (201 bp):
GTTTGATAGGCATATTCGAGGGATATTTTCGGGTAGTTAATCTGAAAATTTTTGTAATTTATAAG
ATTAGAGGCGTAGTATTGGAATCTATCTTTCAATTGAAGCCAATACCGACACATACAAGACACTG
TAAGTGGGTTAAAAATCACATTCAAAATGGTTCCAAAGCTTGGTTTTGCGCATGAAGAAGAAACT
AAAATA
Found at i:1863116 original size:201 final size:200
Alignment explanation
Indices: 1862723--1863133 Score: 483
Period size: 201 Copynumber: 2.0 Consensus size: 200
1862713 AATCGCGTTG
* *
1862723 AAAATGGTTCCAAAGCTTGTTTTGCGCATGAAGAAACAACTAAAATAGTTTGATAGGCATATTCG
1 AAAATGGTTCCAAAGCTTGTTTTGCGCATGAAGAAACAACTAAAATAGCTTGATAGACATATTCG
* * ** *
1862788 AGGGATATTTTCGGGTAGTTAATCTGAATTTTTTTGTAATTTATAAGATTAGAGGCATAGTATTG
66 AGGGATATTTTCAGGAAGTTAATCTGAAAATTTTTGTAATTTATAAGATTAAAGGCATAGTATTG
* * * *
1862853 TAATTTATCTTTCAATTGAGTGTAATACCAGCACATACAAGACACTGTAAGTGAGGTAAAAATTA
131 TAACTTATCTTTCAATTGAGTGTAATACCAGCACATACAAGACACTATAAGTCAGATAAAAATTA
1862918 CATTC
196 CATTC
* * *
1862923 AAAATGGTTCCAAAGCTTGGTTTTGTGCATGGAGAAGA-AGCTAAAATAGCTTGATAGACATATT
1 AAAATGGTTCCAAAGCTT-GTTTTGCGCATGAAGAA-ACAACTAAAATAGCTTGATAGACATATT
* * *
1862987 CG-GGGACTATTTTCATGAAGTTAATCTGAAAATTTTTGTGATTTATAAGATTAAAGGCGTAGTA
64 CGAGGGA-TATTTTCAGGAAGTTAATCTGAAAATTTTTGTAATTTATAAGATTAAAGGCATAGTA
* *** * *
1863051 TTGGT-ACTTA-CGTTTCAATTGAG-GCTAGTATTGGCACATACGAGACATTATAAG-CAGTATA
128 TT-GTAACTTATC-TTTCAATTGAGTG-TAATACCAGCACATACAAGACACTATAAGTCAG-ATA
* * *
1863112 AAAATTGCGTTG
189 AAAATTACATTC
1863124 AAAATGGTTC
1 AAAATGGTTC
1863134 GGAACAAAAA
Statistics
Matches: 178, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
200 26 0.15
201 149 0.84
202 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (200 bp):
AAAATGGTTCCAAAGCTTGTTTTGCGCATGAAGAAACAACTAAAATAGCTTGATAGACATATTCG
AGGGATATTTTCAGGAAGTTAATCTGAAAATTTTTGTAATTTATAAGATTAAAGGCATAGTATTG
TAACTTATCTTTCAATTGAGTGTAATACCAGCACATACAAGACACTATAAGTCAGATAAAAATTA
CATTC
Found at i:1863951 original size:24 final size:24
Alignment explanation
Indices: 1863904--1863957 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
1863894 CATTTCCCAT
1863904 TTCTCTTCTCTTAATTTCTTCTTC
1 TTCTCTTCTCTTAATTTCTTCTTC
* *
1863928 TTCTTTTCTCTT-CTTTCTTCCTTC
1 TTCTCTTCTCTTAATTTCTT-CTTC
*
1863952 CTCTCT
1 TTCTCT
1863958 GAGTTCCTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (24 bp):
TTCTCTTCTCTTAATTTCTTCTTC
Found at i:1868250 original size:17 final size:18
Alignment explanation
Indices: 1868230--1868263 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1868220 TAAAACAAAA
1868230 TAAAAA-TAATCATAAAT
1 TAAAAATTAATCATAAAT
*
1868247 TAAAAATTTATCATAAA
1 TAAAAATTAATCATAAA
1868264 AATTTACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAATTAATCATAAAT
Found at i:1869208 original size:21 final size:22
Alignment explanation
Indices: 1869179--1869219 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1869169 CTCAAGCCCA
1869179 AACCAAACTA-ACCCCCAAATC
1 AACCAAACTAGACCCCCAAATC
* *
1869200 AACCCAACTAGAGCCCCAAA
1 AACCAAACTAGACCCCCAAA
1869220 CCTAAACCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.46, C:0.41, G:0.05, T:0.07
Consensus pattern (22 bp):
AACCAAACTAGACCCCCAAATC
Found at i:1870658 original size:21 final size:22
Alignment explanation
Indices: 1870633--1870674 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1870623 AATTTAGTCC
1870633 TTGTGTTTTTTAT-TTTTTATG
1 TTGTGTTTTTTATGTTTTTATG
*
1870654 TTGTGTTTTTTCTGTTTTTAT
1 TTGTGTTTTTTATGTTTTTAT
1870675 TATTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.07, C:0.02, G:0.14, T:0.76
Consensus pattern (22 bp):
TTGTGTTTTTTATGTTTTTATG
Found at i:1876208 original size:23 final size:23
Alignment explanation
Indices: 1876174--1876218 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1876164 TTTTAATGAG
1876174 TCTGTCTGTATGACACGTTTTCA
1 TCTGTCTGTATGACACGTTTTCA
* * *
1876197 TCTGTCTTTATGATACTTTTTC
1 TCTGTCTGTATGACACGTTTTC
1876219 TTTTTTTTTT
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:0.16, C:0.20, G:0.13, T:0.51
Consensus pattern (23 bp):
TCTGTCTGTATGACACGTTTTCA
Found at i:1881450 original size:18 final size:20
Alignment explanation
Indices: 1881407--1881446 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
1881397 ATATAATGAA
1881407 TCTCAGGGCTGGTTGATTGACT
1 TCTCAGGGCTGGTTGATT-A-T
1881429 TCTCAGGGCTGGTTGATT
1 TCTCAGGGCTGGTTGATT
1881447 TCTCGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.17, G:0.33, T:0.38
Consensus pattern (20 bp):
TCTCAGGGCTGGTTGATTAT
Found at i:1884181 original size:22 final size:22
Alignment explanation
Indices: 1884156--1884199 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1884146 CAGAGTGTCT
1884156 TGGATTTGGAGATCAGTGGTTA
1 TGGATTTGGAGATCAGTGGTTA
1884178 TGGATTTGGAGATCAGTGGTTA
1 TGGATTTGGAGATCAGTGGTTA
1884200 ATAACCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.36, T:0.36
Consensus pattern (22 bp):
TGGATTTGGAGATCAGTGGTTA
Found at i:1891479 original size:13 final size:13
Alignment explanation
Indices: 1891461--1891488 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1891451 ACATCTATAG
1891461 AAATAAATAATGA
1 AAATAAATAATGA
1891474 AAATAAATAATGA
1 AAATAAATAATGA
1891487 AA
1 AA
1891489 CAAGAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (13 bp):
AAATAAATAATGA
Found at i:1899389 original size:15 final size:15
Alignment explanation
Indices: 1899369--1899416 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 15
1899359 AATTTAAACT
*
1899369 AAAATAAATATATAA
1 AAAATAAAAATATAA
1899384 AAAATAAAAATATATA
1 AAAATAAAAATATA-A
1899400 ATTATAATAAAAATATA
1 A--A-AATAAAAATATA
1899417 TTTTATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 13 0.46
16 2 0.07
18 1 0.04
19 12 0.43
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATAAAAATATAA
Found at i:1899422 original size:18 final size:19
Alignment explanation
Indices: 1899374--1899427 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
1899364 AAACTAAAAT
*
1899374 AAATATATAA--AAAATAA
1 AAATATATAATTATAATAA
1899391 AAATATATAATTATAATAA
1 AAATATATAATTATAATAA
*
1899410 AAATATAT-TTTATAATAA
1 AAATATATAATTATAATAA
1899428 TCATTATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 10 0.30
18 9 0.27
19 14 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATATAATTATAATAA
Found at i:1910883 original size:11 final size:13
Alignment explanation
Indices: 1910851--1910880 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1910841 TGGCCAAAGA
1910851 TGAAAAGGTATGT
1 TGAAAAGGTATGT
1910864 TGAAAAGGTATG-
1 TGAAAAGGTATGT
1910876 TGAAA
1 TGAAA
1910881 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:1916226 original size:23 final size:22
Alignment explanation
Indices: 1916177--1916229 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
1916167 TGTATTCTTA
*
1916177 TAAAAAAAATGATGCTCTAAAT
1 TAAAAAAAATGAAGCTCTAAAT
1916199 TAAAAAAAATGAAGCTCTAAAT
1 TAAAAAAAATGAAGCTCTAAAT
1916221 TAAAAAAAA
1 TAAAAAAAA
1916230 GAAAAAGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (22 bp):
TAAAAAAAATGAAGCTCTAAAT
Found at i:1917842 original size:2 final size:2
Alignment explanation
Indices: 1917835--1917866 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1917825 GTGTCCCGTA
1917835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1917867 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1921419 original size:23 final size:23
Alignment explanation
Indices: 1921393--1921440 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1921383 ATAAAGTACA
*
1921393 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1921416 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1921439 AT
1 AT
1921441 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1921847 original size:21 final size:20
Alignment explanation
Indices: 1921817--1921871 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
1921807 GATAGACACT
*
1921817 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
1921838 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
1921861 TTACATTATAA
1 TTACATTATAA
1921872 GGGCTACCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 2 0.07
21 8 0.28
22 1 0.03
23 14 0.48
24 4 0.14
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:1921879 original size:21 final size:22
Alignment explanation
Indices: 1921832--1921892 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
1921822 ATATAACCAT
1921832 TACCTATTACATTATATAAACGA
1 TACCTATTACA-TATATAAACGA
** *
1921855 TACCTATTACAT-TATAAGGGC
1 TACCTATTACATATATAAACGA
1921876 TACCTATTACATCATAT
1 TACCTATTACAT-ATAT
1921893 GTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
22 1 0.03
23 14 0.42
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (22 bp):
TACCTATTACATATATAAACGA
Found at i:1922306 original size:22 final size:23
Alignment explanation
Indices: 1922258--1922319 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
1922248 ATATAACCAT
1922258 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1922281 TACCTA-TACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1922303 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1922320 GTTTACCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.56
23 15 0.44
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1922661 original size:20 final size:20
Alignment explanation
Indices: 1922636--1922674 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1922626 TCCACAGTGA
* *
1922636 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
1922656 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
1922675 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:1922702 original size:21 final size:20
Alignment explanation
Indices: 1922672--1922725 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
1922662 GATAGACACT
*
1922672 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
1922693 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
1922716 TTACATTATA
1 TTACATTATA
1922726 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:1922713 original size:23 final size:23
Alignment explanation
Indices: 1922687--1922749 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1922677 ATATAACCAT
1922687 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
1922710 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
1922733 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1922750 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1922846 original size:430 final size:431
Alignment explanation
Indices: 1921552--1922848 Score: 2545
Period size: 427 Copynumber: 3.0 Consensus size: 431
1921542 GGATCGATAC
1921552 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1921617 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
1921682 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
1921747 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
1921812 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACA-T-TATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
1921875 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
1921940 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
1921981 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1922046 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAAT-A-ATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
1922109 GTAACGTAAAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
1922173 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
1922238 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTA-TACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
1922302 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
1922367 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
1922408 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1 TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
1922473 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
66 ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
1922538 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
131 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
1922603 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAC-TTTATAAAAAGGATAG
196 AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
1922667 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
261 ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
1922732 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
326 CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
1922797 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
391 GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
1922838 TTTAACAGTGT
1 TTTAACAGTGT
1922849 ACTGCGAATT
Statistics
Matches: 862, Mismatches: 0, Indels: 11
0.99 0.00 0.01
Matches are distributed among these distances:
425 4 0.00
426 166 0.19
427 254 0.29
428 2 0.00
429 205 0.24
430 231 0.27
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATT
ATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAATAATAATATATACC
GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
AAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ACACTTTACAATATAACCATTACCTATTACATTATATAAACGATACCTATTACATTATATAAGGG
CTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
GATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTT
Found at i:1925948 original size:184 final size:184
Alignment explanation
Indices: 1925303--1925970 Score: 1263
Period size: 184 Copynumber: 3.7 Consensus size: 184
1925293 TTTTAAATGG
*
1925303 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1925368 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1925433 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
1925487 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1925552 TAAGACCGGTATATTTATACCGGTTATATTAC-AAATTATCTATTACATTA-AATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
1925615 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACA-TTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
1925668 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1925733 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
* *
1925798 GATGTGTAAAATGTCGACACTTTTTGAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
1925852 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
1925917 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT-TATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
1925971 ATGTTGAAAG
Statistics
Matches: 476, Mismatches: 5, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
181 108 0.23
182 73 0.15
183 79 0.17
184 216 0.45
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:1927344 original size:3 final size:3
Alignment explanation
Indices: 1927336--1927386 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
1927326 ACTTGTTTGG
* * * *
1927336 ATC ATC ATC TTC ATC ATC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1927384 ATC
1 ATC
1927387 GTCAGCTTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:1927353 original size:12 final size:12
Alignment explanation
Indices: 1927336--1927398 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
1927326 ACTTGTTTGG
1927336 ATCATCATCTTC
1 ATCATCATCTTC
*
1927348 ATCATCATCGTC
1 ATCATCATCTTC
*
1927360 ATCATCATCATC
1 ATCATCATCTTC
*
1927372 ATCGTCATCTTC
1 ATCATCATCTTC
* *
1927384 ATCGTCAGCTTC
1 ATCATCATCTTC
1927396 ATC
1 ATC
1927399 TTCTGCGACC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:1927397 original size:18 final size:18
Alignment explanation
Indices: 1927340--1927401 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
1927330 GTTTGGATCA
1927340 TCATCTTCATCATCATCG
1 TCATCTTCATCATCATCG
*
1927358 TCATCATCATCATCATCG
1 TCATCTTCATCATCATCG
* * *
1927376 TCATCTTCATCGTCAGCT
1 TCATCTTCATCATCATCG
1927394 TCATCTTC
1 TCATCTTC
1927402 TGCGACCGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:1927401 original size:6 final size:6
Alignment explanation
Indices: 1927340--1927401 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
1927330 GTTTGGATCA
* * * * * *
1927340 TCATCT TCATCA TCATCG TCATCA TCATCA TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
1927388 TCAGCT TCATCT TC
1 TCATCT TCATCT TC
1927402 TGCGACCGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:1930163 original size:198 final size:198
Alignment explanation
Indices: 1928857--1930664 Score: 3218
Period size: 198 Copynumber: 9.1 Consensus size: 198
1928847 TTTAAATTAG
*
1928857 TATCGACACAAA--ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1928920 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1928985 CGACACTTTTTATATATGGATCGACACTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
1929050 AAA
196 AAA
1929053 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1929118 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
1929183 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTAATTCATTCTGGGAAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAA
1929248 AAAA
195 AAAA
1929252 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1929317 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1929382 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACC-TGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
1929446 AAA
196 AAA
*
1929449 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1929514 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1929579 CGACAC-TTTT-TATATGGATCGACACTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
1929642 AAA
196 AAA
1929645 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1929710 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
1929775 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAA
1929840 AAAAA
194 AAAAA
1929845 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1929910 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1929975 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
1930040 AAA
196 AAA
1930043 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1930108 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
1930173 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAAA
1930238 AAAA
195 AAAA
1930242 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1930307 ATTGTACCGGTTAGATTGAAAAA-TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *** *
1930371 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-GAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TAAAAATTCATTCTGGAAAA
1930435 AAAA
195 AAAA
1930439 TATCGACACAAACTATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
1930503 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1930568 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
1930633 AAA
196 AAA
*
1930636 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
1930665 TGACCCTTAA
Statistics
Matches: 1553, Mismatches: 48, Indels: 21
0.96 0.03 0.01
Matches are distributed among these distances:
195 28 0.02
196 241 0.16
197 313 0.20
198 452 0.29
199 363 0.23
200 156 0.10
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAA
AAA
Found at i:1930733 original size:593 final size:586
Alignment explanation
Indices: 1928946--1930713 Score: 2826
Period size: 593 Copynumber: 3.0 Consensus size: 586
1928936 TAAAAAATTA
1928946 CATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACA
1 CATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACA
1929011 CTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTG
66 CTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTG
*
1929076 TCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTAAAAAA
131 TCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAA
1929141 TTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTTATATATGGATC
196 TTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTTATATATGGATC
1929206 GACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATAT
261 GACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATAT
1929270 TAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTG
326 TAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTG
1929335 AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATG
391 AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATG
1929400 GATCGACACTTTATTGATGCACC-TGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACTA
456 GATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACTA
* * ** * * * *
1929464 TATTAGTGTCGAC--ACATT-ATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTT
521 TATTAGTGTCGACATACCTTAATTTATA-A-AAACTGT-ACAAAA-C---AT-ACTGTAAC--TT
* **
1929526 AGATTAAAAAATT
576 A-AAT-AATTATT
1929539 ACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTT-TATATGGATCGAC
1 -CATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGAC
1929602 ACTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGT
65 ACTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGT
1929667 GTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAA
130 GTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAA
1929732 ATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTTATATATGGAT
195 ATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTTATATATGGAT
1929797 CGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATA
260 CGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATA
1929862 TTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATT
325 TTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATT
1929927 GAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATAT
390 GAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATAT
1929992 GGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACT
455 GGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACT
* * * ** * * * *
1930057 ATATTAGTGTCGAC--ACATT-ATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGT
520 ATATTAGTGTCGACATACCTTAATTTATA--AAAACTGT-ACAAAA-C---AT-ACTGTAAC--T
* **
1930119 TAGATTGAAAAATT
575 TA-AAT-AATTATT
1930133 ACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGAC
1 -CATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGAC
* * * *** *
1930198 ACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATATTAG
65 ACTTTATTGATTCACCTTG-TAAAAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAG
1930263 TGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
129 TGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAA
1930328 AA-TACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC-TTTTTATATATGGA
194 AATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTTATATATGGA
1930391 TCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG-AAAAAATATCGACACAAACTAT
259 TCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTAT
1930455 ATTAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGAT
324 ATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGAT
*
1930519 TAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATA
389 TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATA
1930584 TGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAAC
454 TGGATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAAC
*
1930649 TATATTAGTATCGACATGACCCTTAATGTGTATAAGAAACATGTACAACAACATACTGCTAACTT
519 TATATTAGTGTCGACAT-A-CCTTAAT-T-TATAA-AAAC-TGTACAA-AACATACTG-TAACTT
1930714 TTCTCATCTC
Statistics
Matches: 1135, Mismatches: 22, Indels: 34
0.95 0.02 0.03
Matches are distributed among these distances:
592 230 0.20
593 388 0.34
594 245 0.22
595 63 0.06
596 82 0.07
597 111 0.10
598 2 0.00
599 7 0.01
600 7 0.01
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (586 bp):
CATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATGGATCGACA
CTTTATTGATTCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACTATATTAGTG
TCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTGAAAAA
TTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTTATATATGGATC
GACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATCGACACAAACTATAT
TAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACCGGTTAGATTG
AAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATATATG
GATCGACACTTTATTGATGCACCTTGTAAAAATTCATTCTGGAAAAAAAATATCGACACAAACTA
TATTAGTGTCGACATACCTTAATTTATAAAAACTGTACAAAACATACTGTAACTTAAATAATTAT
T
Found at i:1930772 original size:19 final size:19
Alignment explanation
Indices: 1930745--1930804 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
1930735 ATTCACATAA
*
1930745 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
1930764 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
1930783 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
1930802 AAA
1 AAA
1930805 TTAACTCGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:1932625 original size:33 final size:32
Alignment explanation
Indices: 1932588--1932652 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
1932578 CATCTTAATA
*
1932588 TCACCCCTTAACAC-CGAAACTTCTTTCACCACT
1 TCACCCCTCAACACTC--AACTTCTTTCACCACT
*
1932621 TCACCCCTCAACACTCTACTTCTTTCACCACT
1 TCACCCCTCAACACTCAACTTCTTTCACCACT
1932653 CCATCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.52
33 13 0.45
34 1 0.03
ACGTcount: A:0.25, C:0.45, G:0.02, T:0.29
Consensus pattern (32 bp):
TCACCCCTCAACACTCAACTTCTTTCACCACT
Found at i:1934788 original size:24 final size:24
Alignment explanation
Indices: 1934751--1934803 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1934741 CCGTTCTATC
1934751 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
1934775 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
1934799 TATTT
1 TATTT
1934804 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:1935155 original size:19 final size:19
Alignment explanation
Indices: 1935108--1935155 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1935098 TCGACACTTT
1935108 TAATTTTACCGGTTTTATCA
1 TAATTTTA-CGGTTTTATCA
*
1935128 T-TTTGTTACGGTTTTATCA
1 TAATT-TTACGGTTTTATCA
1935147 TAATTTTAC
1 TAATTTTAC
1935156 CTGGTATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.54
Consensus pattern (19 bp):
TAATTTTACGGTTTTATCA
Found at i:1937556 original size:21 final size:22
Alignment explanation
Indices: 1937521--1937563 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1937511 TGTCCAGGAC
1937521 AATGAGTATCAGTACT-CCTTT
1 AATGAGTATCAGTACTACCTTT
**
1937542 AATGAGTATTGGTACTACCTTT
1 AATGAGTATCAGTACTACCTTT
1937564 GTAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (22 bp):
AATGAGTATCAGTACTACCTTT
Done.