Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009594.1 Hibiscus syriacus cultivar Beakdansim tig00116973_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: 563256
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 3
Found at i:435760 original size:26 final size:26
Alignment explanation
Indices: 435711--435786 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
435701 GCTATTTAAT
*
435711 ATATATAAAATTTTGAAAACATATATATA
1 ATATAT-AACTTTTG-AAA-ATATATATA
*
435740 ATATATAGCTTTTGAAAATATATATA
1 ATATATAACTTTTGAAAATATATATA
*
435766 ATATATAATTTTTGAAAATAT
1 ATATATAACTTTTGAAAATAT
435787 TTTGAAAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 28 0.65
27 3 0.07
28 6 0.14
29 6 0.14
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (26 bp):
ATATATAACTTTTGAAAATATATATA
Found at i:435789 original size:11 final size:11
Alignment explanation
Indices: 435775--435866 Score: 53
Period size: 11 Copynumber: 8.1 Consensus size: 11
435765 AATATATAAT
435775 TTTTGAAAATA
1 TTTTGAAAATA
*
435786 TTTTGAAAGTA
1 TTTTGAAAATA
* *
435797 -TAT-ATATATA
1 TTTTGA-AAATA
435807 TTTTGAAAATA
1 TTTTGAAAATA
* *
435818 TTTTTAATATA
1 TTTTGAAAATA
* *
435829 TATATAAAATATA
1 T-TTTGAAA-ATA
*
435842 GTTTTTAAAAATA
1 --TTTTGAAAATA
435855 TTTTGAAAATA
1 TTTTGAAAATA
435866 T
1 T
435867 ATATAATATA
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
9 1 0.02
10 5 0.08
11 37 0.61
12 5 0.08
13 6 0.10
14 6 0.10
15 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:435790 original size:37 final size:37
Alignment explanation
Indices: 435749--435914 Score: 200
Period size: 37 Copynumber: 4.6 Consensus size: 37
435739 AATATATAGC
435749 TTTTGAAAATATATATAATATATAATTTTTGAAAATA
1 TTTTGAAAATATATATAATATATAATTTTTGAAAATA
*
435786 TTTTG-AAA-GTATAT-ATATAT-A-TTTTGAAAATA
1 TTTTGAAAATATATATAATATATAATTTTTGAAAATA
* * * * *
435818 TTTTTAATATATATATAAAATATAGTTTTTAAAAATA
1 TTTTGAAAATATATATAATATATAATTTTTGAAAATA
* * *
435855 TTTTGAAAATATATATAATATATAGTTTGTGAAAACA
1 TTTTGAAAATATATATAATATATAATTTTTGAAAATA
435892 TTTTTGAAAATATATAT-ATATAT
1 -TTTTGAAAATATATATAATATAT
435915 TATATTTATA
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
32 15 0.14
33 3 0.03
34 11 0.10
35 10 0.09
36 3 0.03
37 52 0.47
38 16 0.15
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAATTTTTGAAAATA
Found at i:435827 original size:28 final size:28
Alignment explanation
Indices: 435703--435834 Score: 112
Period size: 28 Copynumber: 4.6 Consensus size: 28
435693 CTCGGGGTGC
* *
435703 TATTTAATATATATAAAATTTTGAAAACA
1 TATTTAATATATAT-ATATTTTGAAAATA
*
435732 TATAT-ATA-ATATATAGCTTTTGAAAATA
1 TATTTAATATATATATA--TTTTGAAAATA
*
435760 TATATAATATATA-AT-TTTTGAAAATA
1 TATTTAATATATATATATTTTGAAAATA
435786 T-TTTGAAAGTATATATATATATTTTGAAAATA
1 TATTT---A--ATATATATATATTTTGAAAATA
*
435818 TTTTTAATATATATATA
1 TATTTAATATATATATA
435835 AAATATAGTT
Statistics
Matches: 87, Mismatches: 4, Indels: 25
0.75 0.03 0.22
Matches are distributed among these distances:
25 2 0.02
26 14 0.16
27 4 0.05
28 30 0.34
29 9 0.10
30 11 0.13
31 2 0.02
32 12 0.14
33 3 0.03
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
TATTTAATATATATATATTTTGAAAATA
Found at i:435847 original size:69 final size:75
Alignment explanation
Indices: 435749--435909 Score: 226
Period size: 69 Copynumber: 2.2 Consensus size: 75
435739 AATATATAGC
* * *
435749 TTTTGAAAATATATATAATATATAATTTTTGAAAATATTTTG-AAA-GTATAT-ATATATA-TTT
1 TTTTGAAAATATATATAAAATATAATTTTTAAAAATATTTTGAAAATATATATAATATATAGTTT
*
435810 -TGAAAATAT
66 GTGAAAACAT
* *
435819 TTTT-AATATATATATAAAATATAGTTTTTAAAAATATTTTGAAAATATATATAATATATAGTTT
1 TTTTGAAAATATATATAAAATATAATTTTTAAAAATATTTTGAAAATATATATAATATATAGTTT
435883 GTGAAAACAT
66 GTGAAAACAT
435893 TTTTGAAAATATATATA
1 TTTTGAAAATATATATA
435910 TATATTATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
69 33 0.42
70 7 0.09
71 5 0.06
72 7 0.09
73 3 0.04
74 12 0.15
75 11 0.14
ACGTcount: A:0.47, C:0.01, G:0.07, T:0.46
Consensus pattern (75 bp):
TTTTGAAAATATATATAAAATATAATTTTTAAAAATATTTTGAAAATATATATAATATATAGTTT
GTGAAAACAT
Found at i:435930 original size:7 final size:7
Alignment explanation
Indices: 435901--435951 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
435891 ATTTTTGAAA
435901 ATATATAT
1 ATATAT-T
435909 ATATATT
1 ATATATT
435916 ATAT-TT
1 ATATATT
435922 ATATATT
1 ATATATT
*
435929 ATATATA
1 ATATATT
*
435936 ATTTATT
1 ATATATT
*
435943 ATTTATT
1 ATATATT
435950 AT
1 AT
435952 TTTCATTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
6 6 0.15
7 27 0.69
8 6 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATATATT
Found at i:435933 original size:24 final size:24
Alignment explanation
Indices: 435902--435952 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 24
435892 TTTTTGAAAA
435902 TATATATATATATTA-TATTTATATAT
1 TATATATA-AT-TTATTATTTAT-TAT
435928 TATATATAATTTATTATTTATTAT
1 TATATATAATTTATTATTTATTAT
435952 T
1 T
435953 TTCATTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.29
25 9 0.38
26 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATATAATTTATTATTTATTAT
Found at i:435941 original size:11 final size:13
Alignment explanation
Indices: 435902--435935 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
435892 TTTTTGAAAA
435902 TATATATATATAT
1 TATATATATATAT
*
435915 TATATTTATATAT
1 TATATATATATAT
435928 TATATATA
1 TATATATA
435936 ATTTATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATATATATAT
Found at i:435948 original size:18 final size:20
Alignment explanation
Indices: 435901--435945 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
435891 ATTTTTGAAA
435901 ATATATATATATATTATATTT
1 ATATAT-TATATATTATATTT
435922 ATATATTATATA-TA-ATTT
1 ATATATTATATATTATATTT
435940 AT-TATT
1 ATATATT
435946 TATTATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 6 0.25
19 2 0.08
20 6 0.25
21 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATATTATATATTATATTT
Found at i:437197 original size:16 final size:17
Alignment explanation
Indices: 437166--437198 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
437156 GTCTTTTCAT
437166 TATTTAATTCATGTTTA
1 TATTTAATTCATGTTTA
437183 TATTTAATT-ATGTTTA
1 TATTTAATTCATGTTTA
437199 AAGAGTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (17 bp):
TATTTAATTCATGTTTA
Found at i:437256 original size:13 final size:12
Alignment explanation
Indices: 437234--437272 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
437224 TGATTCTACA
437234 TTTTTTATTTAT
1 TTTTTTATTTAT
437246 TTTTATTATTTAT
1 TTTT-TTATTTAT
*
437259 TTTGTT-TTTAT
1 TTTTTTATTTAT
437270 TTT
1 TTT
437273 AATTTAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 8 0.32
12 6 0.24
13 11 0.44
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:437320 original size:18 final size:18
Alignment explanation
Indices: 437292--437326 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
437282 GATTTTTTCT
437292 ATCTTCATTTG-TATTTG
1 ATCTTCATTTGATATTTG
437309 ATCTTGCATTTGATATTT
1 ATCTT-CATTTGATATTT
437327 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
ATCTTCATTTGATATTTG
Found at i:438003 original size:75 final size:75
Alignment explanation
Indices: 437920--438101 Score: 224
Period size: 75 Copynumber: 2.4 Consensus size: 75
437910 TAACCGGTTA
* * * * *
437920 AAAATAAAATAGGTGTTATCTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTGCTAATAA
1 AAAATAAAATAGGTGTTATCTATTATGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAA
437985 TGTAAACAGT
66 TGTAAACAGT
* * * *
437995 AAAATAAAATAGGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAA
1 AAAATAAAATAGGTGTTATCTATTATGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAA
* **
438060 TGTATATGGT
66 TGTAAACAGT
438070 AAAATAAAATA--TGCTCTATCTATTATGTTAAA
1 AAAATAAAATAGGTG-T-TATCTATTATGTTAAA
438102 TAGGCGCCAC
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
73 1 0.01
75 88 0.99
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (75 bp):
AAAATAAAATAGGTGTTATCTATTATGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAA
TGTAAACAGT
Found at i:438115 original size:23 final size:23
Alignment explanation
Indices: 438089--438147 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
438079 TATGCTCTAT
*
438089 CTATTATGTTAAATAGGCGCCAC
1 CTATTATGTTAAATAAGCGCCAC
* *
438112 CTATTACT-TTGAATAAGCGCTAC
1 CTATTA-TGTTAAATAAGCGCCAC
*
438135 TTATTATGTTAAA
1 CTATTATGTTAAA
438148 CTACCTACTG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (23 bp):
CTATTATGTTAAATAAGCGCCAC
Found at i:438221 original size:121 final size:121
Alignment explanation
Indices: 438002--438222 Score: 282
Period size: 121 Copynumber: 1.8 Consensus size: 121
437992 AGTAAAATAA
* * *
438002 AATAGGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTATAT
1 AATAAGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAAC
* * *
438067 GGTAAAATAAAATATGCTCTATCTATTATGTTAAATAGGCGCCACCTATTACTTTG
66 GGTAAAATAAAATATGCTATACCTATTACGTTAAATAGGCGCCACCTATTACTTTG
* * * * ** * **
438123 AATAAGCGCTACTTATTATGTTAAACTACCTACTGGTTTGTTTGAAGGTTACTAATAATGTAAAC
1 AATAAGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAAC
*
438188 GGTAAAATAAAATA-GGTGATACCTATTACGTTAAA
66 GGTAAAATAAAATATGCT-ATACCTATTACGTTAAA
438223 ATACATACTG
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
120 2 0.02
121 81 0.98
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (121 bp):
AATAAGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAAC
GGTAAAATAAAATATGCTATACCTATTACGTTAAATAGGCGCCACCTATTACTTTG
Found at i:438259 original size:75 final size:75
Alignment explanation
Indices: 438136--438297 Score: 261
Period size: 75 Copynumber: 2.2 Consensus size: 75
438126 AAGCGCTACT
* * *
438136 TATTATGTTAAACTACCTACTGGTTTGTTTGAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
1 TATTATGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
*
438201 AGGTGATACC
66 AGGCGATACC
*
438211 TATTACGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
1 TATTATGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
* *
438276 AGGCGCTACT
66 AGGCGATACC
438286 TATTATGTTAAA
1 TATTATGTTAAA
438298 TAGGCGCTAC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (75 bp):
TATTATGTTAAAATACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACGGTAAAATAAAAT
AGGCGATACC
Found at i:438274 original size:196 final size:196
Alignment explanation
Indices: 437939--438343 Score: 591
Period size: 196 Copynumber: 2.1 Consensus size: 196
437929 TAGGTGTTAT
*
437939 CTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTGCTAATAATGTAAACAGTAAAATAAAA
1 CTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTACTAATAATGTAAACAGTAAAATAAAA
* * *
438004 TAGGCGCTACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTATATGG
66 TAGGCGATACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAACGG
* * *
438069 TAAAATAAAATATGCTCTA-TCTATTATGTTAAATAGGCGCCACCTATTACT-TTGAATAAGCGC
131 TAAAATAAAATAGGCGCTACT-TATTATGTTAAATAGGCGCCACCTATTA-TGTTAAATAAGCGC
438132 TAC
194 TAC
* * * * *
438135 TTATTATGTTAAACTACCTACTGGTTTGTTTGAAGGTTACTAATAATGTAAACGGTAAAATAAAA
1 CTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTACTAATAATGTAAACAGTAAAATAAAA
* ** **
438200 TAGGTGATACCTATTACGTTAAAAT-ACATACTGGTTTGTTTAAAGGTTACTAATAATGTAAACG
66 TAGGCGATACCTATTACGTTAAAATAAC-TACCAGTTTGTTTAAAAATTACTAATAATGTAAACG
* *
438264 GTAAAATAAAATAGGCGCTACTTATTATGTTAAATAGGCGCTACCTATTATGTTAAATAGGCGCT
130 GTAAAATAAAATAGGCGCTACTTATTATGTTAAATAGGCGCCACCTATTATGTTAAATAAGCGCT
438329 AC
195 AC
438331 CTATTATGTTAAA
1 CTATTATGTTAAA
438344 TAAACGCTAC
Statistics
Matches: 186, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
195 3 0.02
196 182 0.98
197 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (196 bp):
CTATTATGTTAAAATACCTACCGGTTTGTTTGAAGATTACTAATAATGTAAACAGTAAAATAAAA
TAGGCGATACCTATTACGTTAAAATAACTACCAGTTTGTTTAAAAATTACTAATAATGTAAACGG
TAAAATAAAATAGGCGCTACTTATTATGTTAAATAGGCGCCACCTATTATGTTAAATAAGCGCTA
C
Found at i:438301 original size:23 final size:23
Alignment explanation
Indices: 438272--438366 Score: 154
Period size: 23 Copynumber: 4.1 Consensus size: 23
438262 CGGTAAAATA
*
438272 AAATAGGCGCTACTTATTATGTT
1 AAATAGGCGCTACCTATTATGTT
438295 AAATAGGCGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTATGTT
438318 AAATAGGCGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTATGTT
** *
438341 AAATAAACGCTACCTATTACGTT
1 AAATAGGCGCTACCTATTATGTT
438364 AAA
1 AAA
438367 CCAGCTATTG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 68 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTATGTT
Found at i:438521 original size:103 final size:103
Alignment explanation
Indices: 438395--438585 Score: 328
Period size: 103 Copynumber: 1.9 Consensus size: 103
438385 AAAGGTTAAT
**
438395 AATAATGTAAATGGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAAAATTCGAAAGT
1 AATAATGTAAACAGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAAAATTCGAAAGT
*
438460 ATGGATACTTACTCTAAAAGTATGGATATTGTTTCGAC
66 ATGAATACTTACTCTAAAAGTATGGATATTGTTTCGAC
*
438498 AATAATGTAAACAGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAGAATTCGAAAGT
1 AATAATGTAAACAGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAAAATTCGAAAGT
* *
438563 ATGAATACTTAGTCTAAACGTAT
66 ATGAATACTTACTCTAAAAGTAT
438586 AAATACTCTA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 82 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (103 bp):
AATAATGTAAACAGTAAAATATATACAACTTAACCGTTTGAAATATTTTTTTAAAATTCGAAAGT
ATGAATACTTACTCTAAAAGTATGGATATTGTTTCGAC
Found at i:438634 original size:17 final size:17
Alignment explanation
Indices: 438601--438636 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
438591 CTCTAAAGGT
*
438601 TAATAATAATATCTCCA
1 TAATAATAATATATCCA
*
438618 TAATAATAATGTATCCA
1 TAATAATAATATATCCA
438635 TA
1 TA
438637 CTTACTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36
Consensus pattern (17 bp):
TAATAATAATATATCCA
Found at i:439019 original size:108 final size:108
Alignment explanation
Indices: 438907--439111 Score: 320
Period size: 108 Copynumber: 1.9 Consensus size: 108
438897 GCCCCATCTA
* *
438907 CTTAAACTTTGGTAATATTTTAGGCGCTACCTAATATGTTGATAATATTAATAACAAAATAAATA
1 CTTAAACTTTGATAATATTTTAGACGCTACCTAATATGTTGATAATATTAATAACAAAATAAATA
* *
438972 ATTAATACATTTTGTTATCGTCAGATTTCTAATGTCACATCAG
66 ATTAACACATTTTGTTACCGTCAGATTTCTAATGTCACATCAG
* * * *
439015 CTTAAGCTTTGATAATATTTTAGACGCTACCTAATATGTTGATAATATTGATAACAAATTAAGTA
1 CTTAAACTTTGATAATATTTTAGACGCTACCTAATATGTTGATAATATTAATAACAAAATAAATA
* *
439080 ATTAACATATTTTGTTACCGTCTGATTTCTAA
66 ATTAACACATTTTGTTACCGTCAGATTTCTAA
439112 GGTTCCATTA
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
108 87 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (108 bp):
CTTAAACTTTGATAATATTTTAGACGCTACCTAATATGTTGATAATATTAATAACAAAATAAATA
ATTAACACATTTTGTTACCGTCAGATTTCTAATGTCACATCAG
Found at i:439263 original size:226 final size:226
Alignment explanation
Indices: 438980--439430 Score: 595
Period size: 226 Copynumber: 2.0 Consensus size: 226
438970 TAATTAATAC
* * * * *
438980 ATTTTGTTATCGTCAGATTTCTAATGTCACATCAGCTTAAGCTTTGATAATATTTTAGACGCTAC
1 ATTTTGTTATCGTCAGATTTCTAAGGTCACATCAACTTAAACTTTGATAACATTTTAGACACTAC
*
439045 CTAATATGTTGATAATATTGATAACAAATTAAGTAATTAACATATTTTGTTACCGTCTG-ATTTC
66 CTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTACCGT-TGAATTTC
* * * *
439109 TAAGGTTCCATTAACTTTAAAAATG-CGCTACGTATTACATTAAATAAGCACTAATTGTTATGTT
130 TAAGGCTCCATCAACTTTAAAAA-GACGCTACGTATTACATTAAATAAGCACTAACTATTATGTT
* * * *
439173 ATTTTGGTTGATAATGTTTCCAATAATTAACCT
194 ATTATAGTTAATAATGTTTACAATAATTAACCT
* * *
439206 ATTTTGTTATCGT-TGTATTTCTAAGGCTC-CATCAACTTAAACTTTGGTAACATTTTAGTCACT
1 ATTTTGTTATCGTCAG-ATTTCTAAGG-TCACATCAACTTAAACTTTGATAACATTTTAGACACT
* *
439269 ACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTTGAATTT
64 ACCTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTACCGTTGAATTT
* * * * * * *
439334 CTAAGGCTCCATCAGCTTTAAAAAGATGCTACTTATTACGTTACATAAGCGCTACCTATTATGTT
129 CTAAGGCTCCATCAACTTTAAAAAGACGCTACGTATTACATTAAATAAGCACTAACTATTATGTT
*
439399 ATTATAGTTAATAATGTTTATAATAATTAACC
194 ATTATAGTTAATAATGTTTACAATAATTAACC
439431 GGTTATGTTA
Statistics
Matches: 194, Mismatches: 27, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
225 4 0.02
226 188 0.97
227 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (226 bp):
ATTTTGTTATCGTCAGATTTCTAAGGTCACATCAACTTAAACTTTGATAACATTTTAGACACTAC
CTAATATGTTGATAATATTGATAACAAATCAAGTAATTAACATATTTTGTTACCGTTGAATTTCT
AAGGCTCCATCAACTTTAAAAAGACGCTACGTATTACATTAAATAAGCACTAACTATTATGTTAT
TATAGTTAATAATGTTTACAATAATTAACCT
Found at i:440274 original size:21 final size:21
Alignment explanation
Indices: 440258--440332 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
440248 AAAAATATTG
* *
440258 ATGTTTTAAGTAGAAATAATG
1 ATGTTTTAGGTAGAAATAATA
440279 ATGTTTTAGGTAGAAATAATA
1 ATGTTTTAGGTAGAAATAATA
*
440300 ATATTTTAGGTAGAAATAATA
1 ATGTTTTAGGTAGAAATAATA
440321 ATGTTTTAGGTA
1 ATGTTTTAGGTA
440333 ATTTTTTATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.40
Consensus pattern (21 bp):
ATGTTTTAGGTAGAAATAATA
Found at i:441505 original size:31 final size:31
Alignment explanation
Indices: 441467--441529 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
441457 TTATTTACGA
441467 GGGTAAACTATATAAATAATCACTAATGTTT
1 GGGTAAACTATATAAATAATCACTAATGTTT
441498 GGGTAAACTATATAAATAATCACTAATGTTT
1 GGGTAAACTATATAAATAATCACTAATGTTT
441529 G
1 G
441530 AATATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (31 bp):
GGGTAAACTATATAAATAATCACTAATGTTT
Found at i:442114 original size:20 final size:20
Alignment explanation
Indices: 442086--442139 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
442076 AATCAACCAT
*
442086 ATATGTATCATATTTTGTCC
1 ATATATATCATATTTTGTCC
442106 ATATATATCATATTTTGTCC
1 ATATATATCATATTTTGTCC
442126 ATATATATCATATT
1 ATATATATCATATT
442140 AGACATTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.50
Consensus pattern (20 bp):
ATATATATCATATTTTGTCC
Found at i:442169 original size:32 final size:30
Alignment explanation
Indices: 442126--442197 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 30
442116 TATTTTGTCC
*
442126 ATATATATCATATTAGACATTTAATCAAACAT
1 ATATATATCATATTAAACATTT-ATCAAAC-T
* *
442158 ATATGTATCATATTAAATATTTATCAAACT
1 ATATATATCATATTAAACATTTATCAAACT
*
442188 ATAAATATCA
1 ATATATATCA
442198 AATAATTACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 9 0.26
31 7 0.20
32 19 0.54
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (30 bp):
ATATATATCATATTAAACATTTATCAAACT
Found at i:444641 original size:38 final size:40
Alignment explanation
Indices: 444525--444642 Score: 154
Period size: 38 Copynumber: 3.0 Consensus size: 40
444515 TCTTTGTCTT
* * *
444525 TGGGTGTTAGTGTGAGTTTTTGTTGTGGTTTGGGGCA--TA
1 TGGGTGTTTGTGTGAG-TTTTGTTATGGTTTGGGGTATGTA
*
444564 TGGGTGTTTGTGTGAGTTTTGTTGTGGTTTGGGGTATGTA
1 TGGGTGTTTGTGTGAGTTTTGTTATGGTTTGGGGTATGTA
*
444604 TGGGTGTTTGTG-GTGTTTTGTTAT-GTTTGGGGTATGTA
1 TGGGTGTTTGTGTGAGTTTTGTTATGGTTTGGGGTATGTA
444642 T
1 T
444643 TGTTTGTTGC
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
38 34 0.47
39 25 0.34
40 14 0.19
ACGTcount: A:0.08, C:0.01, G:0.41, T:0.50
Consensus pattern (40 bp):
TGGGTGTTTGTGTGAGTTTTGTTATGGTTTGGGGTATGTA
Found at i:452752 original size:26 final size:26
Alignment explanation
Indices: 452723--452773 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
452713 ACACACATAT
452723 ATCATATCATACA-AT-TCATATTACAC
1 ATCATAT-ATACATATAT-ATATTACAC
452749 ATCATATATACATATATATATTACA
1 ATCATATATACATATATATATTACA
452774 TACGTTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.22
26 17 0.74
27 1 0.04
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (26 bp):
ATCATATATACATATATATATTACAC
Found at i:453207 original size:29 final size:29
Alignment explanation
Indices: 453151--453207 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
453141 TTATCATACA
* *
453151 TTCACATATACACATAGTCTCATAGTTCT
1 TTCACATATACACATAGACACATAGTTCT
* *
453180 TTCACATATACATATAGACACATGGTTC
1 TTCACATATACACATAGACACATAGTTC
453208 ACTTACGCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (29 bp):
TTCACATATACACATAGACACATAGTTCT
Found at i:453928 original size:43 final size:42
Alignment explanation
Indices: 453766--453926 Score: 187
Period size: 43 Copynumber: 3.8 Consensus size: 42
453756 AACAAAAAAT
* *
453766 GCCGCAATAGGTATTGATATTTAGCGGCATTTGTGTGACAAAC
1 GCCGCAATAGGTATTGATATTTAGCGGCGTTTGTCT-ACAAAC
* ** *
453809 GCCGCAATAGGTGTTGATATTTAGTAGCGTTTGTCATAAAAAC
1 GCCGCAATAGGTATTGATATTTAGCGGCGTTTGTC-TACAAAC
* * * *
453852 GCCGCAATAGGTATTGATGTTTTGTGGCGTTTTTCTCACAAAC
1 GCCGCAATAGGTATTGATATTTAGCGGCGTTTGTCT-ACAAAC
* *
453895 GCCGCAATAGGTATTGATGTTTTGCGGCGTTT
1 GCCGCAATAGGTATTGATATTTAGCGGCGTTT
453927 TTGCTAAAAA
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.01
43 101 0.98
44 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (42 bp):
GCCGCAATAGGTATTGATATTTAGCGGCGTTTGTCTACAAAC
Found at i:453936 original size:86 final size:86
Alignment explanation
Indices: 453760--453926 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 86
453750 TTTTTTAACA
* * * *
453760 AAAAATGCCGCAATAGGTATTGATATTTAGCGGCATTTGTGTGACAAACGCCGCAATAGGTGTTG
1 AAAAACGCCGCAATAGGTATTGATATTTAGCGGCATTTGTCTCACAAACGCCGCAATAGGTATTG
*
453825 ATATTTAGTAGCGTTTGTCAT
66 ATATTTAGCAGCGTTTGTCAT
* * * * *
453846 AAAAACGCCGCAATAGGTATTGATGTTTTGTGGCGTTTTTCTCACAAACGCCGCAATAGGTATTG
1 AAAAACGCCGCAATAGGTATTGATATTTAGCGGCATTTGTCTCACAAACGCCGCAATAGGTATTG
* * *
453911 ATGTTTTGCGGCGTTT
66 ATATTTAGCAGCGTTT
453927 TTGCTAAAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (86 bp):
AAAAACGCCGCAATAGGTATTGATATTTAGCGGCATTTGTCTCACAAACGCCGCAATAGGTATTG
ATATTTAGCAGCGTTTGTCAT
Found at i:454372 original size:23 final size:21
Alignment explanation
Indices: 454342--454408 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
454332 GCTGATATGT
454342 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
*
454363 TGCTTCTCTCTGTGCTGCCGT
1 TGCTTCTCTCTGTGCTGCCGC
* * * *
454384 TGCTTCTTTCTCTGCTTCTGC
1 TGCTTCTCTCTGTGCTGCCGC
454405 TGCT
1 TGCT
454409 GATCTGCCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.00, C:0.34, G:0.21, T:0.45
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTGCCGC
Found at i:456656 original size:232 final size:232
Alignment explanation
Indices: 456250--456713 Score: 919
Period size: 232 Copynumber: 2.0 Consensus size: 232
456240 TCCATTGGAT
456250 TGTGACAATAAAATACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCATCAAACGTTGA
1 TGTGACAATAAAATACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCATCAAACGTTGA
456315 CCCGTGTGAATTAATCGAGAGAAATTCACCATTATAAACCCGAATTTATCTCTTTTTATACATCT
66 CCCGTGTGAATTAATCGAGAGAAATTCACCATTATAAACCCGAATTTATCTCTTTTTATACATCT
*
456380 GTTTACATCAACCCAGTCACATTGAAACAACACAACCTTTCATTTTCCATAATAATCTAACTCAA
131 GTTTACATCAACCCAGTCACATTGAAACAACACAACCTTTCATTTTCCATAACAATCTAACTCAA
456445 TATTGTCCGTAAGATTTCCATAATAATCGACCTCTCC
196 TATTGTCCGTAAGATTTCCATAATAATCGACCTCTCC
456482 TGTGACAATAAAATACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCATCAAACGTTGA
1 TGTGACAATAAAATACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCATCAAACGTTGA
456547 CCCGTGTGAATTAATCGAGAGAAATTCACCATTATAAACCCGAATTTATCTCTTTTTATACATCT
66 CCCGTGTGAATTAATCGAGAGAAATTCACCATTATAAACCCGAATTTATCTCTTTTTATACATCT
456612 GTTTACATCAACCCAGTCACATTGAAACAACACAACCTTTCATTTTCCATAACAATCTAACTCAA
131 GTTTACATCAACCCAGTCACATTGAAACAACACAACCTTTCATTTTCCATAACAATCTAACTCAA
456677 TATTGTCCGTAAGATTTCCATAATAATCGACCTCTCC
196 TATTGTCCGTAAGATTTCCATAATAATCGACCTCTCC
456714 CTTCTGCGGA
Statistics
Matches: 231, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
232 231 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (232 bp):
TGTGACAATAAAATACTTGTTTCACTTGAGAAGAAAATACATATGGTTCATCCATCAAACGTTGA
CCCGTGTGAATTAATCGAGAGAAATTCACCATTATAAACCCGAATTTATCTCTTTTTATACATCT
GTTTACATCAACCCAGTCACATTGAAACAACACAACCTTTCATTTTCCATAACAATCTAACTCAA
TATTGTCCGTAAGATTTCCATAATAATCGACCTCTCC
Found at i:463465 original size:16 final size:17
Alignment explanation
Indices: 463438--463482 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
463428 AAACAAAATG
*
463438 AAAAGAAGAAAAA-TAA
1 AAAAGAAAAAAAATTAA
*
463454 AAAATAAAAAAAATTAA
1 AAAAGAAAAAAAATTAA
*
463471 ACAAGAAAAAAA
1 AAAAGAAAAAAA
463483 GGTTGATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAAGAAAAAAAATTAA
Found at i:464278 original size:42 final size:41
Alignment explanation
Indices: 464232--464325 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
464222 TTTGTAATCC
464232 AAACGCCGC-AATCGTTATACTCTATCGCGGCGTTTTCA-TAAT
1 AAACGCCGCTAAT-G-TATACTCTATCGCGGCGTTTTCACT-AT
* * * *
464274 AAACGCCACTAATGTCTACTCTATTGCGGCGTTTTTACTAT
1 AAACGCCGCTAATGTATACTCTATCGCGGCGTTTTCACTAT
464315 AAACGCCGCTA
1 AAACGCCGCTA
464326 TTGCTTAACC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 32 0.71
42 10 0.22
43 3 0.07
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (41 bp):
AAACGCCGCTAATGTATACTCTATCGCGGCGTTTTCACTAT
Found at i:464750 original size:191 final size:190
Alignment explanation
Indices: 464427--464799 Score: 496
Period size: 191 Copynumber: 2.0 Consensus size: 190
464417 AAACATATGT
* * * *
464427 GGCGTTTCTTGCCAAAACGCCACTAATGTACGAATAATTTGTGATGTTTGTTACTAAAACGCCGC
1 GGCGTTTCTTGCCAAAACACCACTAATGTACAAATAATTTGCGATGTTTGTTACCAAAACGCCGC
* * * * *
464492 TATATGTGAACCATATAGCGGCATTTTTGTCAAAACGCCGCTAAAGTACTAATTTGTTGCGGCGT
66 TATATATGAACCATATAGCGGCAGTTTTGACAAAACGCCGCTAAAGTACTAATCTATTGCGGCGT
464557 TTATTAAAAAACGCCCCTATATGTCTAAAGATAATGACGCTTAAATAAAAAAAAATCTGC
131 TTATTAAAAAACGCCCCTATATGTCTAAAGATAATGACGCTTAAATAAAAAAAAATCTGC
* * ** * *
464617 GGCGTTTTTTGTCAAAACACCACTAATGATTTAAATAATTTGCGGTGTTTGTTACCAAAATGCCG
1 GGCGTTTCTTGCCAAAACACCACTAATG-TACAAATAATTTGCGATGTTTGTTACCAAAACGCCG
* * * * ** *
464682 CTATATATGAACCCTCTTGCGGC-GTTTTGACAAAAATGCCGCTGTAGTACTAATCTATTGTGGC
65 CTATATATGAACCATATAGCGGCAGTTTTGAC-AAAACGCCGCTAAAGTACTAATCTATTGCGGC
* * *
464746 GTTTATTAAAAAACGCCGCTATATGTCTAAAGTTAATGACGTTTAAATAAAAAA
129 GTTTATTAAAAAACGCCCCTATATGTCTAAAGATAATGACGCTTAAATAAAAAA
464800 CATTTGTGGT
Statistics
Matches: 156, Mismatches: 25, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
190 31 0.20
191 125 0.80
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (190 bp):
GGCGTTTCTTGCCAAAACACCACTAATGTACAAATAATTTGCGATGTTTGTTACCAAAACGCCGC
TATATATGAACCATATAGCGGCAGTTTTGACAAAACGCCGCTAAAGTACTAATCTATTGCGGCGT
TTATTAAAAAACGCCCCTATATGTCTAAAGATAATGACGCTTAAATAAAAAAAAATCTGC
Found at i:467842 original size:20 final size:20
Alignment explanation
Indices: 467817--467869 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
467807 TAATGAAGGT
467817 ATGTATCGATGCACTACACA
1 ATGTATCGATGCACTACACA
*
467837 ATGTATCAATGCACTACACA
1 ATGTATCGATGCACTACACA
467857 ATGTATCGATGCA
1 ATGTATCGATGCA
467870 TCCCTTAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (20 bp):
ATGTATCGATGCACTACACA
Found at i:468014 original size:63 final size:63
Alignment explanation
Indices: 467881--468016 Score: 143
Period size: 63 Copynumber: 2.2 Consensus size: 63
467871 CCCTTAACGT
* * *
467881 GTGCATCGATGCACTACCTATGCATCGGTACACAAATACCATTCGATGTTTGTATTTTAGGGG
1 GTGCATCGATGCACTACCTATGCATCGATACACAAATACCATTCGATGTTTGTATTTTAGAGA
* * * ** *
467944 GTACATCGATGCACT-CCTTATGCATCGATGCACTAATTGCATTCGATGTTCATTTA-TTT-GAG
1 GTGCATCGATGCACTACC-TATGCATCGATACACAAATACCATTCGATGTT--TGTATTTTAGAG
468006 A
63 A
468007 GTGCATCGAT
1 GTGCATCGAT
468017 ACACATTCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
62 2 0.03
63 52 0.87
64 3 0.05
65 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTACCTATGCATCGATACACAAATACCATTCGATGTTTGTATTTTAGAGA
Found at i:470625 original size:2 final size:2
Alignment explanation
Indices: 470618--470647 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
470608 ATTACACATC
470618 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
470648 TACATATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:471394 original size:17 final size:17
Alignment explanation
Indices: 471372--471412 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
471362 ATGTCGCTTA
*
471372 ACTTATTTTGTTCTTTC
1 ACTTATTTTGCTCTTTC
471389 ACTTATTTTGCTCTTTC
1 ACTTATTTTGCTCTTTC
471406 ACTTATT
1 ACTTATT
471413 CATATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.15, C:0.20, G:0.05, T:0.61
Consensus pattern (17 bp):
ACTTATTTTGCTCTTTC
Found at i:472521 original size:63 final size:63
Alignment explanation
Indices: 472391--472522 Score: 140
Period size: 63 Copynumber: 2.1 Consensus size: 63
472381 CCCTTAACGT
* * * * * *
472391 GTGCATCGATGCACTATTTATGTATTGGTACACAAATCCCATTCGATGTTTGTATTTTAGTGG
1 GTGCATCGATGCACTATTTATGCATCGATACACAAATCCCATTCGATGTTTATATTTTAGAGA
* * * ** *
472454 GTGCATCGATGCACTCTTTATGCATCGATGCACTAATTGCATTCGATGTTTAT-TTATTTGAGA
1 GTGCATCGATGCACTATTTATGCATCGATACACAAATCCCATTCGATGTTTATATT-TTAGAGA
472517 GTGCAT
1 GTGCAT
472523 TGGTACACAT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
62 2 0.04
63 54 0.96
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (63 bp):
GTGCATCGATGCACTATTTATGCATCGATACACAAATCCCATTCGATGTTTATATTTTAGAGA
Found at i:473605 original size:24 final size:23
Alignment explanation
Indices: 473565--473616 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 23
473555 GCTACTTTTG
473565 GGTGCCCCTTTTTTAATTCATTC
1 GGTGCCCCTTTTTTAATTCATTC
*
473588 GGTGACCCTTTTTTTAATTCATTC
1 GGTG-CCCCTTTTTTAATTCATTC
473612 GGTGC
1 GGTGC
473617 ATTAACTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (23 bp):
GGTGCCCCTTTTTTAATTCATTC
Found at i:473774 original size:17 final size:17
Alignment explanation
Indices: 473752--473785 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
473742 ACAAGCCACA
473752 GGATGATCGACACCAAG
1 GGATGATCGACACCAAG
473769 GGATGATCGACACCAAG
1 GGATGATCGACACCAAG
473786 TAAATTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.29, T:0.12
Consensus pattern (17 bp):
GGATGATCGACACCAAG
Found at i:475833 original size:21 final size:21
Alignment explanation
Indices: 475793--475834 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
475783 TTCACTTGTG
**
475793 TATTCTTTCTAACATTGCTCT
1 TATTCTTTCTAACAAGGCTCT
475814 TATTCTTTCTAACAAGGCTCT
1 TATTCTTTCTAACAAGGCTCT
475835 AGAATCAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.24, G:0.07, T:0.48
Consensus pattern (21 bp):
TATTCTTTCTAACAAGGCTCT
Found at i:476134 original size:80 final size:80
Alignment explanation
Indices: 476001--476161 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 80
475991 GTCAAAATGA
*
476001 ACCAATTCTAGAACACTTTTGCCTCTAGAATTTGACGTGTTGAATTTCAACCAGTGCTACTTACT
1 ACCAATTCTAGAACACTTTTGCCTCTAGAATTTGACGTGTTAAATTTCAACCAGTGCTACTTACT
476066 TGTTATACAATGCTC
66 TGTTATACAATGCTC
476081 ACCAATTCTAGAACACTTTTGCCTCTAGAATTTGACGTGTTAAATTTCAACCAGTGCTACTTACT
1 ACCAATTCTAGAACACTTTTGCCTCTAGAATTTGACGTGTTAAATTTCAACCAGTGCTACTTACT
476146 TGTTATACAATGCTC
66 TGTTATACAATGCTC
476161 A
1 A
476162 TATAAAGTAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (80 bp):
ACCAATTCTAGAACACTTTTGCCTCTAGAATTTGACGTGTTAAATTTCAACCAGTGCTACTTACT
TGTTATACAATGCTC
Found at i:478494 original size:16 final size:16
Alignment explanation
Indices: 478475--478509 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
478465 TTATCAATAG
478475 AAAATATAAAAAAATT
1 AAAATATAAAAAAATT
* *
478491 AAAATATATAATAATT
1 AAAATATAAAAAAATT
478507 AAA
1 AAA
478510 TTTTTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATATAAAAAAATT
Found at i:480022 original size:189 final size:184
Alignment explanation
Indices: 479702--480072 Score: 638
Period size: 189 Copynumber: 2.0 Consensus size: 184
479692 CCAAAAATTC
479702 AATAAGCACAAGTCTAAAATATTATATTTAAACATATAAAAAATGTATATAATAAATTTGAGATT
1 AATAAGCACAAGTCTAAAATATTATATTTAAACATATAAAAAATGTATATAATAAATTTGAGATT
479767 TGAGAATATAATAAAAAAAATTTGTTGATATTGAGATGTCAAAAATAAATTTTAAACTTAATAGG
66 TGAGAATATAATAAAAAAAATTTGTTGATATTGAGATGTCAAAAATAAATTTTAAACTTAATAGG
479832 TTTATATATATACACAAAAATTAAAAATAA-TTTAAATACTAAAATCTACATATTTTAAA
131 --T-TATATATACAC-AAAATT-AAAATAATTTTAAATACT-AAATCTACATATTTTAAA
* *
479891 AATAAGCGCATGTCTAAAATATTATATTTAAACATATAAAAAATGTATATAAATAAATTTGAGAT
1 AATAAGCACAAGTCTAAAATATTATATTTAAACATATAAAAAATGTATAT-AATAAATTTGAGAT
*
479956 TTGAGAATATAATAATAAAAATTTGTTGATATTGAGATGTCAAAAATAAA-TTTAAACTTAATAG
65 TTGAGAATATAATAAAAAAAATTTGTTGATATTGAGATGTCAAAAATAAATTTTAAACTTAATAG
480020 GTTATATATACACAAAATTAAAATAATTTTAAATACTAAATCTACATATTTTA
130 GTTATATATACACAAAATTAAAATAATTTTAAATACTAAATCTACATATTTTA
480073 GAGGTAAGTT
Statistics
Matches: 177, Mismatches: 3, Indels: 9
0.94 0.02 0.05
Matches are distributed among these distances:
184 23 0.13
185 16 0.09
186 11 0.06
187 1 0.01
189 63 0.36
190 63 0.36
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (184 bp):
AATAAGCACAAGTCTAAAATATTATATTTAAACATATAAAAAATGTATATAATAAATTTGAGATT
TGAGAATATAATAAAAAAAATTTGTTGATATTGAGATGTCAAAAATAAATTTTAAACTTAATAGG
TTATATATACACAAAATTAAAATAATTTTAAATACTAAATCTACATATTTTAAA
Found at i:480554 original size:109 final size:109
Alignment explanation
Indices: 480363--480581 Score: 438
Period size: 109 Copynumber: 2.0 Consensus size: 109
480353 CAAAATTTTG
480363 AAGCAAATTACAGTTTGTGAACTTTAGGCTAAGGTGGGGTTCTCGTTCCAGTGGGCGGAGTATGA
1 AAGCAAATTACAGTTTGTGAACTTTAGGCTAAGGTGGGGTTCTCGTTCCAGTGGGCGGAGTATGA
480428 CCGTCCGATCCTTTTGAAGGATCATTGGACGATTGTATCAATCC
66 CCGTCCGATCCTTTTGAAGGATCATTGGACGATTGTATCAATCC
480472 AAGCAAATTACAGTTTGTGAACTTTAGGCTAAGGTGGGGTTCTCGTTCCAGTGGGCGGAGTATGA
1 AAGCAAATTACAGTTTGTGAACTTTAGGCTAAGGTGGGGTTCTCGTTCCAGTGGGCGGAGTATGA
480537 CCGTCCGATCCTTTTGAAGGATCATTGGACGATTGTATCAATCC
66 CCGTCCGATCCTTTTGAAGGATCATTGGACGATTGTATCAATCC
480581 A
1 A
480582 TCATCAGTTT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 110 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (109 bp):
AAGCAAATTACAGTTTGTGAACTTTAGGCTAAGGTGGGGTTCTCGTTCCAGTGGGCGGAGTATGA
CCGTCCGATCCTTTTGAAGGATCATTGGACGATTGTATCAATCC
Found at i:488494 original size:29 final size:29
Alignment explanation
Indices: 488452--488526 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
488442 AACCCAACCA
***
488452 TAGGTCGCCATGCACTCCCAGCGACCTCT
1 TAGGTCGCCATGCACTCCCAGCGACCAAG
*
488481 TAGGTCGCCATGCA-TGCCCGGCGACCAAG
1 TAGGTCGCCATGCACT-CCCAGCGACCAAG
*
488510 GAGGTCGCCATGCACTC
1 TAGGTCGCCATGCACTC
488527 GGGGCGACCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 1 0.03
29 37 0.95
30 1 0.03
ACGTcount: A:0.19, C:0.37, G:0.27, T:0.17
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCAGCGACCAAG
Found at i:488532 original size:29 final size:29
Alignment explanation
Indices: 488482--488540 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
488472 GCGACCTCTT
488482 AGGTCGCCATGCATGCCCGGCGACCAAGG
1 AGGTCGCCATGCATGCCCGGCGACCAAGG
**
488511 AGGTCGCCATGCACT-CGGGGCGACCAAGG
1 AGGTCGCCATGCA-TGCCCGGCGACCAAGG
488540 A
1 A
488541 TTCATGCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.22, C:0.32, G:0.36, T:0.10
Consensus pattern (29 bp):
AGGTCGCCATGCATGCCCGGCGACCAAGG
Found at i:488788 original size:29 final size:29
Alignment explanation
Indices: 488755--488839 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
488745 AGCAGGGGAT
* * **
488755 GTCGCCGCGAGTGCATGGCGACCTCCTTG
1 GTCGCCGGGAGTGCATGGCGACCTACGAG
* *
488784 GTCGCCGGGCGTGCATGGCGACCTAGGAG
1 GTCGCCGGGAGTGCATGGCGACCTACGAG
*
488813 GTCGCTGGGAGTGCATGGCGACCTACG
1 GTCGCCGGGAGTGCATGGCGACCTACG
488840 GCCACTGTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.13, C:0.29, G:0.40, T:0.18
Consensus pattern (29 bp):
GTCGCCGGGAGTGCATGGCGACCTACGAG
Found at i:489138 original size:24 final size:25
Alignment explanation
Indices: 489092--489139 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
489082 TTTAAGGAGT
**
489092 TTGGAGTTTTTTTGGTATTTAAAAAA
1 TTGGAGTTTTTTT-GTAAATAAAAAA
489118 TTGGAGTTTTTTT-TAAATAAAA
1 TTGGAGTTTTTTTGTAAATAAAA
489140 TATTTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
26 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (25 bp):
TTGGAGTTTTTTTGTAAATAAAAAA
Found at i:489428 original size:20 final size:21
Alignment explanation
Indices: 489403--489445 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
489393 TAAGATAAAC
489403 AATATCAAACATAATCTT-AA
1 AATATCAAACATAATCTTGAA
489423 AATATCAAACATAATCTTGAA
1 AATATCAAACATAATCTTGAA
489444 AA
1 AA
489446 GGTCCAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (21 bp):
AATATCAAACATAATCTTGAA
Found at i:490952 original size:30 final size:31
Alignment explanation
Indices: 490905--490964 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
490895 AAAAAAAATA
490905 AGAATGAGTGAAAGCTTAGAAAAGC-TAGAG
1 AGAATGAGTGAAAGCTTAGAAAAGCATAGAG
* *
490935 AGAATCGAG-GAATGCTTAGCAAAGCATAGA
1 AGAAT-GAGTGAAAGCTTAGAAAAGCATAGA
490965 ATAGTGAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.45, C:0.10, G:0.28, T:0.17
Consensus pattern (31 bp):
AGAATGAGTGAAAGCTTAGAAAAGCATAGAG
Found at i:495340 original size:15 final size:15
Alignment explanation
Indices: 495322--495357 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
495312 TCCAATGCAT
*
495322 GCCCTTTTCCAGTAG
1 GCCCTTTTCCAGCAG
495337 GCCCTTTTCCAGCAG
1 GCCCTTTTCCAGCAG
495352 GCCCTT
1 GCCCTT
495358 CACCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.39, G:0.19, T:0.31
Consensus pattern (15 bp):
GCCCTTTTCCAGCAG
Found at i:497132 original size:5 final size:5
Alignment explanation
Indices: 497122--497148 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
497112 TGTCCCCGAT
497122 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
497149 GCTTTGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:512000 original size:51 final size:50
Alignment explanation
Indices: 511914--512039 Score: 164
Period size: 51 Copynumber: 2.5 Consensus size: 50
511904 TTAGCAGTAA
* * *
511914 AGCGCG-CCCCTGTACTGCGCTATACGATGATTTGGCGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGTTGGCGCCACGT-GGGTAT
* * *
511964 AGTGTGCCCCCTGCACCGCGCTATACGGTGAGTTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGTTGGCGCCACGTGGGTAT
* *
512014 AGCGCGGCCCCTGCAGCGCGCTATAC
1 AGCGCGCCCCCTGCACCGCGCTATAC
512040 CTGTATATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 32 0.49
51 33 0.51
ACGTcount: A:0.15, C:0.32, G:0.33, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGCTATACGATGAGTTGGCGCCACGTGGGTAT
Found at i:512174 original size:20 final size:20
Alignment explanation
Indices: 512149--512199 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
512139 TTTTATCACA
512149 CCAAATTCTCTAAATTTCTC
1 CCAAATTCTCTAAATTTCTC
512169 CCAAATTCTCTAAATTTCTC
1 CCAAATTCTCTAAATTTCTC
* *
512189 TCAAATACTCT
1 CCAAATTCTCT
512200 CTTTTTAAGA
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:0.31, C:0.29, G:0.00, T:0.39
Consensus pattern (20 bp):
CCAAATTCTCTAAATTTCTC
Found at i:512249 original size:13 final size:14
Alignment explanation
Indices: 512221--512249 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
512211 ATATTTTATA
512221 ATATTTTTACTATT
1 ATATTTTTACTATT
512235 ATATTTTTACT-TT
1 ATATTTTTACTATT
512248 AT
1 AT
512250 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:512460 original size:110 final size:111
Alignment explanation
Indices: 512332--512544 Score: 365
Period size: 110 Copynumber: 1.9 Consensus size: 111
512322 ATATATATCT
* *
512332 ACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATATTTAGT
1 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
* * *
512397 T-ATTTATTTAATGCATGATTATTATATTAATAATTAAATATCTCG
66 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
*
512442 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAATAATTAGT
1 ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
512507 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
512545 TTTTTGTAAT
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 63 0.66
111 33 0.34
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (111 bp):
ACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAATAATTAGT
TGATTCATTTAATGCATGATTATTAGATTAAGAATTAAATATCTCG
Found at i:514381 original size:16 final size:16
Alignment explanation
Indices: 514362--514414 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
514352 CCATAACCCC
514362 TATCACACATATATCA
1 TATCACACATATATCA
** * *
514378 TATCATGCACACATCA
1 TATCACACATATATCA
514394 TATCACACATCATATACA
1 TATCACACAT-ATAT-CA
514412 TAT
1 TAT
514415 ATCACATACA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (16 bp):
TATCACACATATATCA
Found at i:514768 original size:23 final size:23
Alignment explanation
Indices: 514742--514799 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
514732 CACCACAGCT
*
514742 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
514765 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
514788 CGTAGAATTGCA
1 CGTAGAATTGCA
514800 TCGTAATGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:514809 original size:23 final size:22
Alignment explanation
Indices: 514742--514810 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
514732 CACCACAGCT
*
514742 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAA-TGCCA
* *
514765 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACC-GAATGCCA
*
514788 CGTAGAATTGCATCGTAATGCCA
1 CGTAGAATTGCACCG-AATGCCA
514811 TATAATAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 1 0.03
23 35 0.92
24 2 0.05
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.22
Consensus pattern (22 bp):
CGTAGAATTGCACCGAATGCCA
Found at i:514997 original size:103 final size:103
Alignment explanation
Indices: 514826--515043 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
514816 TAATGTCCAT
* *
514826 AAGGACCACATATCACTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCACTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
514891 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
514929 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCACTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
514994 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
515032 AAGGACCACATA
1 AAGGACCACATA
515044 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCACTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:515835 original size:21 final size:22
Alignment explanation
Indices: 515797--515837 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
515787 TTCACATAGT
515797 CTTATATTTCATTATCATATTA
1 CTTATATTTCATTATCATATTA
*
515819 CTTATATTT-ATTCTCATAT
1 CTTATATTTCATTATCATAT
515838 GACTCTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (22 bp):
CTTATATTTCATTATCATATTA
Found at i:517329 original size:18 final size:18
Alignment explanation
Indices: 517301--517341 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
517291 CCCAGCAGCC
*
517301 ACCGTAGCCATATATGAT
1 ACCGCAGCCATATATGAT
*
517319 GCCGCAGCCATATATGAT
1 ACCGCAGCCATATATGAT
517337 ACCGC
1 ACCGC
517342 CATCGCCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (18 bp):
ACCGCAGCCATATATGAT
Found at i:518002 original size:38 final size:38
Alignment explanation
Indices: 517924--518002 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
517914 CGTTTTTTTA
**
517924 TTACCATTTAATATCAGTTATTATAATTTGGTTATCAT
1 TTACCATTTAATATCAGTTATTATAATTTGGTTAAAAT
* *
517962 TTACCATTTAATACTTA-TTGTTATTAATTT-GTTAAAAT
1 TTACCATTTAATA-TCAGTTATTA-TAATTTGGTTAAAAT
518000 TTA
1 TTA
518003 ATGATTGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
38 27 0.77
39 8 0.23
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (38 bp):
TTACCATTTAATATCAGTTATTATAATTTGGTTAAAAT
Found at i:521415 original size:50 final size:51
Alignment explanation
Indices: 521352--521467 Score: 171
Period size: 51 Copynumber: 2.3 Consensus size: 51
521342 TATAGCGTGC
* ** *
521352 TGCAGGGGCCGCGCTATA-CCCACGTGGCGCCAGCTCACCGTATAGCGCAG
1 TGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCACCGTATAGCACAG
* *
521402 TGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCATCGTATAGCACGG
1 TGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCACCGTATAGCACAG
521453 TGCAGGGGGCGCGCT
1 TGCAGGGGGCGCGCT
521468 TTACTGCTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 17 0.29
51 42 0.71
ACGTcount: A:0.18, C:0.33, G:0.34, T:0.15
Consensus pattern (51 bp):
TGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCACCGTATAGCACAG
Found at i:522410 original size:27 final size:27
Alignment explanation
Indices: 522358--522411 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
522348 TAAAAATTTG
*
522358 ATAAATTTAAGAGTTAATTTTCTTTTA
1 ATAAATTTAAGAGTTAATTTTATTTTA
522385 ATAAATTTAA-A-TCTAATCTTTATTTTA
1 ATAAATTTAAGAGT-TAAT-TTTATTTTA
522412 TCTAAAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.04
26 5 0.21
27 18 0.75
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (27 bp):
ATAAATTTAAGAGTTAATTTTATTTTA
Found at i:524031 original size:44 final size:43
Alignment explanation
Indices: 523969--524265 Score: 192
Period size: 43 Copynumber: 6.8 Consensus size: 43
523959 TTTTTTTTTA
* ** *
523969 AAAAAAATT-ATAGTCCTCAATTATAAAAGTAAAAGGTGGGATT
1 AAAAAAATTAAAAG-CCTCAATTATAAAAGTAAAAAATGAGATT
524012 GAAAAAAATTAAAAGCCTCAATTATAAAAGTAAAAAATGAGATT
1 -AAAAAAATTAAAAGCCTCAATTATAAAAGTAAAAAATGAGATT
* ** * * * * *
524056 AAATAAATTATGAGCCTTAGTCATAAAGGTAAAAAGTTG-GATT
1 AAAAAAATTAAAAGCCTCAATTATAAAAGTAAAAA-ATGAGATT
* * * * * *
524099 AAAAAAATTATAGGCTTCAATTATAAATA-TAGATAGTGAGATT
1 AAAAAAATTAAAAGCCTCAATTATAAA-AGTAAAAAATGAGATT
* * **
524142 -GAAAAAGTAAGGGACCTCAATTATAAAAGTAAAAAAT-ATGATT
1 AAAAAAATTAAAAG-CCTCAATTATAAAAGTAAAAAATGA-GATT
* * * *
524185 AAAAAAA-TAGATGCCTCAATTGTAAAGGTAAAAAAAATGAGATT
1 AAAAAAATTAAAAGCCTCAATTATAAAAGT--AAAAAATGAGATT
* ** * *
524229 GACAAAAATTAAAAGTATTAATTATAAAAATAAAAAA
1 -AAAAAAATTAAAAGCCTCAATTATAAAAGTAAAAAA
524266 ACTAAAATCT
Statistics
Matches: 194, Mismatches: 46, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
42 27 0.14
43 84 0.43
44 59 0.30
45 10 0.05
46 14 0.07
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (43 bp):
AAAAAAATTAAAAGCCTCAATTATAAAAGTAAAAAATGAGATT
Found at i:524168 original size:86 final size:86
Alignment explanation
Indices: 523983--524228 Score: 221
Period size: 86 Copynumber: 2.8 Consensus size: 86
523973 AAATTATAGT
* *
523983 CCTCAATTATAAAAGTAAAAGGTGGGATTGAAAAAAATTAAAAGCCTCAATTATAAAAGTAAAAA
1 CCTCAATTATAAAAGTAAAAAGTTGGATT-AAAAAAATTAAAAGCCTCAATTATAAAAGTAAAAA
* *
524048 ATGAGATTAAATAAATTATGAG
65 ATGAGATTAAATAAAGTAAGAG
* * * * * * * * *
524070 CCTTAGTCATAAAGGTAAAAAGTTGGATTAAAAAAATTATAGGCTTCAATTATAAATA-TAGATA
1 CCTCAATTATAAAAGTAAAAAGTTGGATTAAAAAAATTAAAAGCCTCAATTATAAA-AGTAAAAA
* * *
524134 GTGAGATTGAA-AAAGTAAGGG
65 ATGAGATTAAATAAAGTAAGAG
* * * * *
524155 ACCTCAATTATAAAAGTAAAAAATAT-GATTAAAAAAA-TAGATGCCTCAATTGTAAAGGTAAAA
1 -CCTCAATTATAAAAGTAAAAAGT-TGGATTAAAAAAATTAAAAGCCTCAATTATAAAAGT--AA
524218 AAAATGAGATT
62 AAAATGAGATT
524229 GACAAAAATT
Statistics
Matches: 124, Mismatches: 29, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
85 23 0.19
86 66 0.53
87 35 0.28
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.26
Consensus pattern (86 bp):
CCTCAATTATAAAAGTAAAAAGTTGGATTAAAAAAATTAAAAGCCTCAATTATAAAAGTAAAAAA
TGAGATTAAATAAAGTAAGAG
Found at i:526866 original size:225 final size:225
Alignment explanation
Indices: 526472--526915 Score: 761
Period size: 225 Copynumber: 2.0 Consensus size: 225
526462 GTAAATTATC
*
526472 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA-CTTTAGT
*
526537 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
526602 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTG
526667 AAACATAAATTACATAACTTTCAAAAAAGTATA
194 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
526700 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTG-AAACATATTTATTATTA-TTTGGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTACTTTAGT
*
526763 TAATATTGTTAAATTTAAATTCTAAATAATA-TTTATAAAATATCAAAACAATCAAAT-ATAATT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAT-ATT
* *
526826 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAATAAATTG
129 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTG
526891 AAACATAAATTACATAACTTTAAAA
194 AAACATAAATTACATAACTTTAAAA
526916 GCAGTTTTAA
Statistics
Matches: 208, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
223 4 0.02
224 31 0.15
225 83 0.40
226 35 0.17
228 53 0.25
229 2 0.01
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (225 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTACTTTAGTT
AATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTGAA
ACATAAATTACATAACTTTAAAAAAGTATA
Found at i:527004 original size:20 final size:19
Alignment explanation
Indices: 526981--527026 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
526971 CGATATACCA
526981 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
527001 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
527021 GGTAAA
1 GGTAAA
527027 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:527195 original size:17 final size:18
Alignment explanation
Indices: 527148--527198 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 18
527138 CGATATAACA
527148 GGTAAAATATGATAAAACC
1 GGTAAAA-ATGATAAAACC
527167 GGTAACAAAATGATAAAACC
1 GGT-A-AAAATGATAAAACC
527187 GGT-AAAATGATA
1 GGTAAAAATGATA
527199 CCGGATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 9 0.30
19 3 0.10
20 15 0.50
21 3 0.10
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.20
Consensus pattern (18 bp):
GGTAAAAATGATAAAACC
Found at i:529465 original size:21 final size:21
Alignment explanation
Indices: 529418--529482 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
529408 AAGACAATCA
* *
529418 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
529440 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
529460 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
529481 AG
1 AG
529483 GAATAGGGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:529556 original size:33 final size:33
Alignment explanation
Indices: 529514--529579 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
529504 AAATAGATGG
*
529514 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
529547 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
529580 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:531715 original size:23 final size:23
Alignment explanation
Indices: 531652--531723 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
531642 ATAGGTAAAC
* * *
531652 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGCTT
*
531675 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGCTT
*
531698 ATATAATGTAATAGGTAT-GGTT
1 ATATAATGTAATAGGTATCGCTT
531720 ATAT
1 ATAT
531724 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 7 0.16
23 37 0.84
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGCTT
Found at i:532113 original size:22 final size:23
Alignment explanation
Indices: 532080--532142 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
532070 ATAGGTAAAC
*
532080 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
532103 ATAT-ATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
532125 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
532143 TTGTTATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:532149 original size:23 final size:22
Alignment explanation
Indices: 532080--532156 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 22
532070 ATAGGTAAAC
* *
532080 ATATGATGTAATAGGTAGCCCTT
1 ATAT-ATGTAATAGGTAGTCGTT
532103 ATATATGTAATAGGTA-TCGTTT
1 ATATATGTAATAGGTAGTCG-TT
*
532125 ATATAATGTAATAGGTAGTTGTT
1 ATAT-ATGTAATAGGTAGTCGTT
532148 ATAT-TGTAA
1 ATATATGTAA
532157 AGTGTCTATC
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 6 0.12
22 18 0.38
23 22 0.46
24 2 0.04
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.42
Consensus pattern (22 bp):
ATATATGTAATAGGTAGTCGTT
Found at i:532452 original size:24 final size:25
Alignment explanation
Indices: 532420--532469 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
532410 ACAACAAATC
*
532420 AATTAAACA-TGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
532444 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
532469 A
1 A
532470 TTTGGATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:532738 original size:18 final size:18
Alignment explanation
Indices: 532717--532753 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
532707 GTAATTGGAG
532717 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
532735 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
532753 T
1 T
532754 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:532761 original size:24 final size:24
Alignment explanation
Indices: 532709--532755 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
532699 TTTCATATGT
* *
532709 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
532733 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
532756 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:533054 original size:39 final size:39
Alignment explanation
Indices: 533011--533136 Score: 234
Period size: 39 Copynumber: 3.2 Consensus size: 39
533001 TCCGATGCTC
* *
533011 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
533050 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
533089 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
533128 ATCAAAATC
1 ATCAAAATC
533137 TACAACTTGA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
Found at i:533570 original size:23 final size:23
Alignment explanation
Indices: 533539--533602 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
533529 ATAGGTAAAA
*
533539 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
533562 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
533585 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
533603 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:533609 original size:23 final size:23
Alignment explanation
Indices: 533539--533611 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
533529 ATAGGTAAAA
* **
533539 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
533562 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
533585 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
533608 ATAT
1 ATAT
533612 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:537087 original size:28 final size:28
Alignment explanation
Indices: 537047--537102 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
537037 ACACATAGTT
537047 CCGGTTCTTGTGGAACTGCTGAAGAGGG
1 CCGGTTCTTGTGGAACTGCTGAAGAGGG
537075 CCGGTTCTTGTGGAACTGCTGAAGAGGG
1 CCGGTTCTTGTGGAACTGCTGAAGAGGG
537103 AGATGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.39, T:0.25
Consensus pattern (28 bp):
CCGGTTCTTGTGGAACTGCTGAAGAGGG
Found at i:542372 original size:6 final size:6
Alignment explanation
Indices: 542350--542418 Score: 77
Period size: 6 Copynumber: 11.7 Consensus size: 6
542340 AGAGAACGTG
* * * *
542350 GAGGTA GAGGAA G-GGGA GAGGGA GAGGGA GAGGGA GAGGAA GGGGGA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
* *
542397 GAGGGA GAGAGA GTGGGA GAGG
1 GAGGGA GAGGGA GAGGGA GAGG
542419 AGGAAGAGAG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
5 4 0.08
6 48 0.92
ACGTcount: A:0.33, C:0.00, G:0.64, T:0.03
Consensus pattern (6 bp):
GAGGGA
Found at i:542846 original size:2 final size:2
Alignment explanation
Indices: 542839--542864 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
542829 CAAATTAATC
542839 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
542865 TAATTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:548239 original size:31 final size:31
Alignment explanation
Indices: 548197--548255 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
548187 AATTTAAAAG
* * *
548197 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAAATTAAATAATTTT
548228 AGTTTTACAATACTGAAAATTAAATAAT
1 AGTTTTACAATACTGAAAATTAAATAAT
548256 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (31 bp):
AGTTTTACAATACTGAAAATTAAATAATTTT
Found at i:548306 original size:22 final size:22
Alignment explanation
Indices: 548280--548322 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
548270 TAATAAATTA
548280 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
548302 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
548323 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:548331 original size:22 final size:22
Alignment explanation
Indices: 548282--548330 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
548272 ATAAATTATT
**
548282 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
548304 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
548327 TAAA
1 TAAA
548331 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:548334 original size:54 final size:54
Alignment explanation
Indices: 548270--548578 Score: 335
Period size: 54 Copynumber: 5.6 Consensus size: 54
548260 ACAACTACAA
548270 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*** * * *
548324 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAATAC
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
548378 --AT--A-T-TTTAAAATAAATCAATTCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAA-TC---C--AT--A-T-TTTAAAATAAATCAATCCATAC
* **
548436 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
*
548494 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
548548 TAATAAATTATTTAAAATAAATCAATTCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
548579 CAACTACAAT
Statistics
Matches: 213, Mismatches: 23, Indels: 38
0.78 0.08 0.14
Matches are distributed among these distances:
48 15 0.07
49 3 0.01
50 1 0.00
52 3 0.01
54 90 0.42
55 9 0.04
56 1 0.00
57 8 0.04
58 59 0.28
59 2 0.01
60 3 0.01
62 1 0.00
63 3 0.01
64 15 0.07
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:548421 original size:32 final size:32
Alignment explanation
Indices: 548382--548770 Score: 208
Period size: 32 Copynumber: 12.7 Consensus size: 32
548372 CAATACATAT
548382 TTTAAAATAAATCAATTCATACAAATAAATTA
1 TTTAAAATAAATCAATTCATACAAATAAATTA
* *
548414 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACAAATAAATTA
* * *
548446 TTTAAAATAAATCAATCCATACAACTACA--A
1 TTTAAAATAAATCAATTCATACAAATAAATTA
* *
548476 --T--AATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACAAATAAATTA
548504 TTTAAAATAAATCAA-TC-T----AT--A-T-
1 TTTAAAATAAATCAATTCATACAAATAAATTA
* *
548526 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATTCATACAAATAAATTA
*
548558 TTTAAAATAAATCAATTCATACAACTACAA-TA
1 TTTAAAATAAATCAATTCATACAAATA-AATTA
* * * *
548590 -AT-AAATCAATCCATATT-TTA-AAATAAATCAA
1 TTTAAAATAAAT-CA-ATTCATACAAATAAAT-TA
* * * * * * *
548621 TCTATACTAATAAATTATTTAAAATAAATCAATCCATA
1 T-T-TA-AAATAAATCAATTCATACAAATAAAT---TA
*
548659 TTTTAAAATAAATCAA-TCTATACTAATAAATTA
1 -TTTAAAATAAATCAATTC-ATACAAATAAATTA
* *
548692 TTTAAAATAAATCAA-TCTATACAACTACA--A
1 TTTAAAATAAATCAATTC-ATACAAATAAATTA
*
548722 --T--AATAAATCAA-TCTATACTAATAAATTA
1 TTTAAAATAAATCAATTC-ATACAAATAAATTA
*
548750 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATTCATA
548771 TTTAAAATAA
Statistics
Matches: 275, Mismatches: 43, Indels: 78
0.69 0.11 0.20
Matches are distributed among these distances:
22 15 0.05
23 2 0.01
24 2 0.01
26 44 0.16
28 6 0.02
29 2 0.01
30 17 0.06
31 8 0.03
32 134 0.49
33 5 0.02
34 3 0.01
35 3 0.01
36 29 0.11
37 2 0.01
38 2 0.01
39 1 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATTCATACAAATAAATTA
Found at i:548426 original size:112 final size:112
Alignment explanation
Indices: 548302--548658 Score: 544
Period size: 112 Copynumber: 3.2 Consensus size: 112
548292 CAATCCATAT
548302 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
548367 TAAATCAATACATATTTTAAAATAAATCAATTCATACAAATAAATTA
66 TAAATCAATCCATATTTTAAAATAAATCAATTCATACAAATAAATTA
548414 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
* * * * * * *
548479 TAAATCAATCCATA--CT--AATAAATTATTTAAAATAAATCAATCTATA
66 TAAATCAATCCATATTTTAAAATAAATCAATTCATACAAAT-AA-AT-TA
*
548525 TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATA
*
548590 ATAAATCAATCCATATTTTAAAATAAATCAA-TCTATACTAATAAATTA
65 ATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACAAATAAATTA
548638 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
548659 TTTTAAAATA
Statistics
Matches: 219, Mismatches: 17, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
108 16 0.07
109 2 0.01
110 2 0.01
111 2 0.01
112 177 0.81
113 2 0.01
114 2 0.01
115 3 0.01
116 13 0.06
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (112 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATTCATACAAATAAATTA
Found at i:548509 original size:58 final size:57
Alignment explanation
Indices: 548419--548604 Score: 297
Period size: 58 Copynumber: 3.3 Consensus size: 57
548409 AATTATTTAA
548419 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CATACAACTACAAT
* * **
548477 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC-TA-TATTTTAA-
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATACAACTACAAT
548531 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAAT
1 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA-TCATACAACTACAAT
548589 AATAAATCAATCCATA
1 AATAAATCAATCCATA
548605 TTTTAAAATA
Statistics
Matches: 116, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
54 42 0.36
55 6 0.05
56 4 0.03
57 5 0.04
58 59 0.51
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (57 bp):
AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATACAACTACAAT
Found at i:548555 original size:22 final size:22
Alignment explanation
Indices: 548506--548554 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
548496 ATAAATTATT
* **
548506 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
548528 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
548551 TAAA
1 TAAA
548555 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:548671 original size:54 final size:54
Alignment explanation
Indices: 548589--548811 Score: 337
Period size: 54 Copynumber: 4.1 Consensus size: 54
548579 CAACTACAAT
548589 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
548643 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
* * **
548697 AATAAATCAATCTATACAACTACAATAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCTATACTAATAAATTATTTAA
*
548755 AATAAATCAATCCATA-TTTAAAATAAATCAATCCATACT-A-AAATTATTT-A
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
548805 AATAAAT
1 AATAAAT
548812 TATTTTAAAA
Statistics
Matches: 157, Mismatches: 8, Indels: 12
0.89 0.05 0.07
Matches are distributed among these distances:
50 8 0.05
51 9 0.06
52 1 0.01
53 17 0.11
54 71 0.45
55 1 0.01
57 4 0.03
58 46 0.29
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
Found at i:548689 original size:22 final size:22
Alignment explanation
Indices: 548640--548688 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
548630 ATAAATTATT
**
548640 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
548662 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
548685 TAAA
1 TAAA
548689 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:548727 original size:112 final size:108
Alignment explanation
Indices: 548611--548811 Score: 357
Period size: 112 Copynumber: 1.8 Consensus size: 108
548601 CATATTTTAA
548611 AATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
1 AATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTAAAATAAATCAAT
*
548676 CTATACTAATAAATTATTTAAAATAAATCAATCTATACAACTACAAT
65 CCATACT-A-AAATTATTT-AAATAAATCAATCTATACAACTACAAT
548723 AATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTAAAATAAATCAATC
1 AATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTAAAATAAATCAATC
548788 CATACTAAAATTATTTAAATAAAT
66 CATACTAAAATTATTTAAATAAAT
548812 TATTTTAAAA
Statistics
Matches: 88, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
108 8 0.09
109 9 0.10
110 1 0.01
111 22 0.25
112 48 0.55
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (108 bp):
AATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATATTTAAAATAAATCAATC
CATACTAAAATTATTTAAATAAATCAATCTATACAACTACAAT
Found at i:548774 original size:21 final size:21
Alignment explanation
Indices: 548748--548838 Score: 96
Period size: 21 Copynumber: 4.2 Consensus size: 21
548738 ACTAATAAAT
548748 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
548769 TATTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
* * * *
548790 TACTAAAATTATTTAAATAAAT-TA
1 TATTTAAA--A--TAAATCAATCCA
548814 T-TTTAAAATAAATCAATCCA
1 TATTTAAAATAAATCAATCCA
548834 TATTT
1 TATTT
548839 TATAATAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
19 8 0.14
20 2 0.04
21 31 0.55
23 5 0.09
24 2 0.04
25 8 0.14
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (21 bp):
TATTTAAAATAAATCAATCCA
Found at i:548824 original size:15 final size:15
Alignment explanation
Indices: 548795--548923 Score: 136
Period size: 15 Copynumber: 8.3 Consensus size: 15
548785 ATCCATACTA
548795 AAATTA-TTT-AAAT
1 AAATTATTTTAAAAT
548808 AAATTATTTTAAAAT
1 AAATTATTTTAAAAT
*
548823 AAATCAATCCATATTTTATAAT
1 --A--AAT---TATTTTAAAAT
*
548845 AATTTATTTTAAAAT
1 AAATTATTTTAAAAT
*
548860 AAATTATTTTATAAT
1 AAATTATTTTAAAAT
548875 AAATTATTTTAAAAT
1 AAATTATTTTAAAAT
**
548890 AAATTATTTTATGAT
1 AAATTATTTTAAAAT
548905 AAATTATTTTAAAAT
1 AAATTATTTTAAAAT
548920 AAAT
1 AAAT
548924 AACCTTATTA
Statistics
Matches: 97, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
13 6 0.06
14 3 0.03
15 71 0.73
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.10
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (15 bp):
AAATTATTTTAAAAT
Found at i:548864 original size:65 final size:67
Alignment explanation
Indices: 548740--548893 Score: 199
Period size: 65 Copynumber: 2.3 Consensus size: 67
548730 CAATCTATAC
* *
548740 TAATAAATTA-TTTAAAATAAATCAATCCATATTTAAAATAAATCAATCCATACTAAAATTA-TT
1 TAATAAATTATTTTAAAATAAATCAATCCATATTTAAAATAAATCAATCCAAAATAAAATTATTT
548803 TA
66 TA
* * * * **
548805 -AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAAT-AAATTATT
1 TAATAAATTATTTTAAAATAAATCAATCCATA-TTTAAAATAAATCAATCCAAAATAAAATTATT
548868 TTA
65 TTA
548871 TAATAAATTATTTTAAAATAAAT
1 TAATAAATTATTTTAAAATAAAT
548894 TATTTTATGA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
64 9 0.12
65 27 0.35
66 19 0.25
67 22 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.42
Consensus pattern (67 bp):
TAATAAATTATTTTAAAATAAATCAATCCATATTTAAAATAAATCAATCCAAAATAAAATTATTT
TA
Found at i:548870 original size:30 final size:30
Alignment explanation
Indices: 548834--548923 Score: 162
Period size: 30 Copynumber: 3.0 Consensus size: 30
548824 AATCAATCCA
*
548834 TATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
548864 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
*
548894 TATTTTATGATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
548924 AACCTTATTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:553948 original size:13 final size:14
Alignment explanation
Indices: 553926--553958 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
553916 ATACTCTACT
*
553926 CCTAACTTAA-AAC
1 CCTAAATTAATAAC
553939 CCTAAATTAATAAC
1 CCTAAATTAATAAC
553953 CCTAAA
1 CCTAAA
553959 CCCTAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (14 bp):
CCTAAATTAATAAC
Found at i:554165 original size:30 final size:30
Alignment explanation
Indices: 554145--554200 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 30
554135 TTTTTGTTTG
554145 AACTTATTAAATAT-TTTTATTTTTATCTT
1 AACTTATTAAATATATTTTATTTTTATCTT
* *
554174 AATTTATTAAATATATTTTGTTTTTAT
1 AACTTATTAAATATATTTTATTTTTAT
554201 TTTCAGCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (30 bp):
AACTTATTAAATATATTTTATTTTTATCTT
Found at i:554714 original size:128 final size:127
Alignment explanation
Indices: 554525--554775 Score: 353
Period size: 128 Copynumber: 2.0 Consensus size: 127
554515 TATATGGTCT
* * * *
554525 TTGTATAATCTTAAGGGCTAGTTTTTTTAAGTTAATGATTATAGAAAAATATCTTAATTATATGT
1 TTGTATAATCTTAAGGACTAG-TTTTCTAACTTAATGATTATAGAAAAATATCTTAATTATATAT
* * * *
554590 TTAGTTTACGATTATGATTGTAAATATTTATTATAATTATGATTATTTTTTTAATAAAATTACC
65 ATAATTTACGATTATGATTATAAATATTTATTATAATTATGATTA-ATTTTTAATAAAATTACC
*
554654 TTGTATAATCTTAAGTGACTAG-TTTCTATCTTAATGATTATA-AGAAAATATCTTAATTATATA
1 TTGTATAATCTTAAG-GACTAGTTTTCTAACTTAATGATTATAGA-AAAATATCTTAATTATATA
* *
554717 TATAATTTATGATTATGATTATAAATATTTATTATAATTCTGATTAATTTTTAATAAAA
64 TATAATTTACGATTATGATTATAAATATTTATTATAATTATGATTAATTTTTAATAAAA
554776 CTAACAATTT
Statistics
Matches: 109, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
127 13 0.12
128 76 0.70
129 15 0.14
130 5 0.05
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (127 bp):
TTGTATAATCTTAAGGACTAGTTTTCTAACTTAATGATTATAGAAAAATATCTTAATTATATATA
TAATTTACGATTATGATTATAAATATTTATTATAATTATGATTAATTTTTAATAAAATTACC
Found at i:558510 original size:70 final size:67
Alignment explanation
Indices: 558371--558538 Score: 173
Period size: 69 Copynumber: 2.5 Consensus size: 67
558361 TCATAAAAAC
* *
558371 CATAACAA-ATTTTTACGTTC-TTCTTACTATAGAATTGGTATGTTTTAATCCATACATTCAAAA
1 CATAACAAGATTTTTACTTTCTTTC-TATTATAGAATTGGTATGTTTTAATCCA-ACATTCAAAA
558434 AGAT
64 AGAT
* * *
558438 CATAACAAGATCTTTTACTTTCTTTCTATTATAGAATTGGGTATGTTTTTACTCGC-ACATTTAT
1 CATAACAAGAT-TTTTACTTTCTTTCTATTATAGAATT-GGTATG-TTTTAATC-CAACATTCAA
*
558502 ATAGAT
62 AAAGAT
* *
558508 CATAACATGATTTTT-CTTTACTTTCTTTTAT
1 CATAACAAGATTTTTACTTT-CTTTCTATTAT
558539 GATAGAATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
67 8 0.09
68 6 0.07
69 34 0.40
70 30 0.35
71 7 0.08
72 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (67 bp):
CATAACAAGATTTTTACTTTCTTTCTATTATAGAATTGGTATGTTTTAATCCAACATTCAAAAAG
AT
Done.