Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008445.1 Hibiscus syriacus cultivar Beakdansim tig00111250_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: 899959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:192232 original size:71 final size:71
Alignment explanation
Indices: 192065--192242 Score: 196
Period size: 71 Copynumber: 2.5 Consensus size: 71
192055 CTATTCCCAG
* * ** * * * * *
192065 AAAAGGATTGATCCCTTGACCAAAAGGATTAATCCTAAACTTTCTATTGTGCATAGGATCAATGT
1 AAAAGGATAGATCCCTAGAGAAAAAAGATTGATCCCAAACTTTCTATCGTGCATAGGATCAATCT
192130 CTTTTC
66 CTTTTC
* * * * *
192136 AAAAGGATAGATCCCTTGGGAAAAAAGATTGATCCCAAACTTTCTGTCGTGCATATGATCGATCT
1 AAAAGGATAGATCCCTAGAGAAAAAAGATTGATCCCAAACTTTCTATCGTGCATAGGATCAATCT
192201 CTTTTC
66 CTTTTC
* *
192207 AAAAGGATCGATCCCTCAGAG-AAAAAGATCGATCCC
1 AAAAGGATAGATCCCT-AGAGAAAAAAGATTGATCCC
192243 TCGAAAGAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
71 88 0.98
72 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (71 bp):
AAAAGGATAGATCCCTAGAGAAAAAAGATTGATCCCAAACTTTCTATCGTGCATAGGATCAATCT
CTTTTC
Found at i:192236 original size:21 final size:19
Alignment explanation
Indices: 192207--192261 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 19
192197 ATCTCTTTTC
*
192207 AAAAGGATCGATCCCTCAGA
1 AAAAAGATCGATCCCTC-GA
192227 GAAAAAGATCGATCCCTCGA
1 -AAAAAGATCGATCCCTCGA
192247 AAGAAATGATCGATC
1 AA-AAA-GATCGATC
192262 ACTTTGTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 5 0.16
21 24 0.77
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (19 bp):
AAAAAGATCGATCCCTCGA
Found at i:193913 original size:24 final size:24
Alignment explanation
Indices: 193886--193935 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
193876 TTTGAATTTT
*
193886 TTAAATTCAATTAAA-ATTAATTAA
1 TTAAATTCAA-AAAATATTAATTAA
*
193910 TTAAATTTAAAAAATATTAATTAA
1 TTAAATTCAAAAAATATTAATTAA
193934 TT
1 TT
193936 TAAAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TTAAATTCAAAAAATATTAATTAA
Found at i:193916 original size:19 final size:20
Alignment explanation
Indices: 193889--193941 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
193879 GAATTTTTTA
* *
193889 AATTCAATTAAAATTA-ATT
1 AATTAAATTAAAATAATATT
193908 AATTAAATTTAAAA-AATATT
1 AATTAAA-TTAAAATAATATT
*
193928 AATTAATTTAAAAT
1 AATTAAATTAAAAT
193942 GAAAAACATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAAATTAAAATAATATT
Found at i:193919 original size:20 final size:20
Alignment explanation
Indices: 193896--193941 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
193886 TTAAATTCAA
*
193896 TTAAAATTA-ATTAATTAAAT
1 TTAAAATAATATTAATT-AAT
193916 TTAAAA-AATATTAATTAAT
1 TTAAAATAATATTAATTAAT
193935 TTAAAAT
1 TTAAAAT
193942 GAAAAACATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAAAATAATATTAATTAAT
Found at i:194720 original size:32 final size:32
Alignment explanation
Indices: 194675--194834 Score: 279
Period size: 32 Copynumber: 5.1 Consensus size: 32
194665 TCATTAGCAT
*
194675 TTTTAAGACTTTTGTGTTTATTTAGCATAAAA
1 TTTTAAGAGTTTTGTGTTTATTTAGCATAAAA
194707 TTTTAAGAGTTTTGTGTTTATTTAGCATAAAA
1 TTTTAAGAGTTTTGTGTTTATTTAGCATAAAA
*
194739 TTTTAAGAGTTTTGTGTTTATTTAGCATAAAT
1 TTTTAAGAGTTTTGTGTTTATTTAGCATAAAA
*
194771 TTTTAAGAGTTTTGTGTTTATTTAGCATAAAT
1 TTTTAAGAGTTTTGTGTTTATTTAGCATAAAA
194803 TTTTAAGAG--TTGTGTTTATTTAGCATAAAA
1 TTTTAAGAGTTTTGTGTTTATTTAGCATAAAA
194833 TT
1 TT
194835 CAATAAGACT
Statistics
Matches: 125, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
30 22 0.18
32 103 0.82
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (32 bp):
TTTTAAGAGTTTTGTGTTTATTTAGCATAAAA
Found at i:197886 original size:81 final size:82
Alignment explanation
Indices: 197790--197972 Score: 194
Period size: 82 Copynumber: 2.2 Consensus size: 82
197780 TACATATAGC
197790 GGCGTTTTTGA-ACAAACGCC-CCAAAATACTA-TAATTTAGTGGCGTATGTATAAAAACGCCGC
1 GGCGTTTTT-ATACAAACGCCACCAAAA-ACTAGTAATTTAGTGGCGTATGTATAAAAACGCCGC
197852 TAAAGA-ATCGTAATGTAGT
64 TAAAGACA-CGTAATGTAGT
* * * * * * *
197871 GGCGTTTTTATACAAACGCCACTATAAACTAGTATTTTAGTGGTGTTTTTATACAAACGCCGCTA
1 GGCGTTTTTATACAAACGCCACCAAAAACTAGTAATTTAGTGGCGTATGTATAAAAACGCCGCTA
* * * *
197936 TAGACACGTACTTTTGT
66 AAGACACGTAATGTAGT
*
197953 GGCGTTTTAATACCAAACGC
1 GGCGTTTTTATA-CAAACGC
197973 TGCTATAGAC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
80 1 0.01
81 22 0.26
82 54 0.64
83 8 0.09
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (82 bp):
GGCGTTTTTATACAAACGCCACCAAAAACTAGTAATTTAGTGGCGTATGTATAAAAACGCCGCTA
AAGACACGTAATGTAGT
Found at i:197934 original size:82 final size:83
Alignment explanation
Indices: 197828--198224 Score: 477
Period size: 82 Copynumber: 4.8 Consensus size: 83
197818 CTATAATTTA
* * * * * * * *
197828 GTGGCGTATGTATAAAAACGCCGCTAAAGAATCGTAATGTAGTGGCGTTTTTATA-CAAACGCCA
1 GTGGCGTTTTTATACAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTAATACCAAACGCCG
*
197892 CTATAAACTAGTA-TTTT
66 CTATAGACTAGTACTTTT
* *
197909 AGTGGTGTTTTTATACAAACGCCGCTATAGACA-CGTACTTTTGTGGCGTTTTAATACCAAACGC
1 -GTGGCGTTTTTATACAAACGCCGCTATAGA-ATCGTACTTTAGTGGCGTTTTAATACCAAACGC
* *
197973 TGCTATAGACTCGTACTTTT
64 CGCTATAGACTAGTACTTTT
* * *
197993 GTGGCATTTTTACACAAACGCCGCTATAGACA-CGTACTTTTGTGGCGTTTTAATACCAAACGCC
1 GTGGCGTTTTTATACAAACGCCGCTATAGA-ATCGTACTTTAGTGGCGTTTTAATACCAAACGCC
198057 GCTATAGAC-ACGTACTTTT
65 GCTATAGACTA-GTACTTTT
* * * *
198076 GTGGCGTTTTAATACCAAATGCCGCTATAGATTCGTACTTTAGTGGCGTTTT-ACA-CAAACGCC
1 GTGGCGTTTTTATA-CAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTAATACCAAACGCC
198139 GCTATAGAC-ACGTACTTTT
65 GCTATAGACTA-GTACTTTT
* *
198158 GTGGCGTTTTAATACCAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTAATACCAAACGCC
1 GTGGCGTTTTTATA-CAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTAATACCAAACGCC
198223 GC
65 GC
198225 AATTGTCATA
Statistics
Matches: 279, Mismatches: 28, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
82 121 0.43
83 111 0.40
84 47 0.17
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (83 bp):
GTGGCGTTTTTATACAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTAATACCAAACGCCG
CTATAGACTAGTACTTTT
Found at i:197978 original size:42 final size:42
Alignment explanation
Indices: 197843--198224 Score: 494
Period size: 42 Copynumber: 9.2 Consensus size: 42
197833 GTATGTATAA
* * * * *
197843 AAACGCCGCTAAAGA-ATCGTAATGTAGTGGCGTTTTTATA-C
1 AAACGCCGCTATAGACA-CGTACTTTTGTGGCGTTTTAATACC
* * * *
197884 AAACGCCACTATAAACTA-GTA-TTTTAGTGGTGTTTTTATA-C
1 AAACGCCGCTATAGAC-ACGTACTTTT-GTGGCGTTTTAATACC
197925 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
* * *
197967 AAACGCTGCTATAGACTCGTACTTTTGTGGCATTTT--TACAC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATAC-C
198008 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
198050 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
* ** * *
198092 AAATGCCGCTATAGATTCGTACTTTAGTGGCGTTTT-ACA-C
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
198132 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
* *
198174 AAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
198216 AAACGCCGC
1 AAACGCCGC
198225 AATTGTCATA
Statistics
Matches: 302, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
40 39 0.13
41 96 0.32
42 163 0.54
43 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
Found at i:198004 original size:124 final size:124
Alignment explanation
Indices: 197843--198224 Score: 563
Period size: 124 Copynumber: 3.1 Consensus size: 124
197833 GTATGTATAA
* * * * * * *
197843 AAACGCCGCTAAAGAATCGTAATGTAGTGGCGTTTTTATACAAACGCCACTATAAACTA-GTA-T
1 AAACGCCGCTATAGACTCGTACTTTAGTGGC-TTTTTACACAAACGCCGCTATAGAC-ACGTACT
* *
197906 TTTAGTGGTGTTTTTATA-CAAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
64 TTT-GTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
* *
197967 AAACGCTGCTATAGACTCGTACTTTTGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGC-TTTTTACACAAACGCCGCTATAGACACGTACTT
198032 TTGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
65 TTGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
* * *
198092 AAATGCCGCTATAGATTCGTACTTTAGTGGCGTTTTACACAAACGCCGCTATAGACACGTACTTT
1 AAACGCCGCTATAGACTCGTACTTTAGTGGCTTTTTACACAAACGCCGCTATAGACACGTACTTT
* *
198157 TGTGGCGTTTTAATACCAAACGCCGCTATAGACTCGTACTTTAGTGGCGTTTTAATACC
66 TGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
198216 AAACGCCGC
1 AAACGCCGC
198225 AATTGTCATA
Statistics
Matches: 235, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
123 1 0.00
124 160 0.68
125 74 0.31
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (124 bp):
AAACGCCGCTATAGACTCGTACTTTAGTGGCTTTTTACACAAACGCCGCTATAGACACGTACTTT
TGTGGCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
Found at i:202212 original size:43 final size:42
Alignment explanation
Indices: 202150--202373 Score: 243
Period size: 43 Copynumber: 5.2 Consensus size: 42
202140 AAGGTAATTA
* * *
202150 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGT-TCAAAAAACGCCGCTATAGATCTGACCTTTT
* *
202193 GCGGCGTTTGTATCAAAAAATGCCACTATAGATCTGACCTTTT
1 GCGGCGTTTGT-TCAAAAAACGCCGCTATAGATCTGACCTTTT
* * * * * *
202236 GCGGCGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTTCAAAAAACGCCGCTATAGATC-TGACCTTTT
* *
202279 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTTCAAAAAACGCCGCTATAGATCT-GACCTTTT
* * *
202322 GCGGCGTTTGTTCAAAAAACGCC-ATAATAGATATTGACCTATT
1 GCGGCGTTTGTTCAAAAAACGCCGCT-ATAGAT-CTGACCTTTT
202365 GCGGCGTTT
1 GCGGCGTTT
202374 TTTGTTCTCA
Statistics
Matches: 153, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 19 0.12
43 133 0.87
44 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
GCGGCGTTTGTTCAAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:205236 original size:2 final size:2
Alignment explanation
Indices: 205231--205262 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
205221 TAATATTTGA
205231 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
205263 CAAAGTATTA
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:205786 original size:18 final size:17
Alignment explanation
Indices: 205765--205807 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
205755 ATATATACAT
205765 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
205783 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
205800 ATAA-AATA
1 ATAATAATA
205808 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:206214 original size:37 final size:37
Alignment explanation
Indices: 206164--206268 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
206154 GTGCTTGTGG
* * * *
206164 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
206201 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
206238 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
206269 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:207107 original size:105 final size:105
Alignment explanation
Indices: 206810--207471 Score: 870
Period size: 105 Copynumber: 6.3 Consensus size: 105
206800 GCATTGTTCC
* * ** *
206810 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * ** * *
206874 ACCAGCCGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* * * * *
206916 GAGTCCAATATCCTTCGCTGTGAAGTTGAAACTGACTCT-A-AAT--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
206976 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
*
207016 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
207081 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* *
207121 GAGTCCAATATCCTTAGTTGTGAAGTTGAAATTAGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
207186 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* * *
207225 GAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGCTGACAA
1 G-AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAA
*
207290 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
* *
207331 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* ** * *
207396 CCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCAA
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT--A
* * * * *
207439 GTGTCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GAGTC-CAATATCCTTCGTTGTGAAGTTGAAAT
207472 CGCGGATGTT
Statistics
Matches: 500, Mismatches: 44, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
100 79 0.16
101 1 0.00
102 8 0.02
104 7 0.01
105 299 0.60
106 79 0.16
108 4 0.01
109 23 0.05
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
Found at i:207687 original size:36 final size:36
Alignment explanation
Indices: 207640--207715 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
207630 TGTTTGGAGA
* * *
207640 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
207676 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
207712 GAAA
1 GAAA
207716 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:207836 original size:106 final size:104
Alignment explanation
Indices: 207615--207934 Score: 479
Period size: 106 Copynumber: 3.1 Consensus size: 104
207605 TTCGTTAAAT
* ** *
207615 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
207677 AAACTATCTCAAGCGAG-ATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAG-GAGAAAAAAATTCATTTCAAGGGAAA
207716 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
207781 AAACTATCTCAAGAGAGAAAAAAAAATCATTTCAAAGGAAA
66 AAACTATCTCAAG-GAG-AAAAAAATTCATTTCAAGGGAAA
* *
207822 TGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAATGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
207887 AAACTATCTC-AGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGGAGA-AAAAAATTCATTTCAAGGGAAA
207926 TGTTTTCAA
1 TGTTTTCAA
207935 GAGAAACTGT
Statistics
Matches: 200, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
101 46 0.23
103 4 0.02
104 56 0.28
105 2 0.01
106 92 0.46
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGGAGAAAAAAATTCATTTCAAGGGAAA
Found at i:207910 original size:39 final size:39
Alignment explanation
Indices: 207837--207911 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
207827 TCAATGTTTA
* *
207837 TGTTTCAAGAGAAACTATCTCAATGGAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTCAAGGGAGAAAAAATTTTC
* *
207876 TGTTTCGAGGGAAACTATCTC-AGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGG-GAGAAAAAATT
207912 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAAGGGAGAAAAAATTTTC
Found at i:208091 original size:36 final size:36
Alignment explanation
Indices: 208051--208164 Score: 113
Period size: 36 Copynumber: 3.2 Consensus size: 36
208041 CTTTCGAGTG
* *
208051 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * * **
208087 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
*
208123 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
208159 AAAACA
1 AAAACA
208165 AATTTGAGTG
Statistics
Matches: 58, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
36 57 0.98
37 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:208143 original size:72 final size:74
Alignment explanation
Indices: 208005--208180 Score: 207
Period size: 72 Copynumber: 2.4 Consensus size: 74
207995 TAAAATCTTC
* ** * *
208005 TTAAAAAAAACAGCCTTGAGTGAAATGAAAGGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAA-GCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
*
208070 CAAA-TCTTGTT
64 CAAAGT-ATGTT
* *
208081 TTAAGAAAAACAATCTTGAGTGAAATAAA-TCTTCTTTCGAG-AAAAACAGTCTCAAGTGAGACA
1 TTAAGAAAAACAATCTTGAGTGAAATAAAGCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
208144 AAGTATGTT
66 AAGTATGTT
*
208153 TTAAGAAAAACAAAT-TTGAGTGAGATAA
1 TTAAGAAAAAC-AATCTTGAGTGAAATAA
208181 TCATCTGCAT
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
72 48 0.54
73 15 0.17
75 3 0.03
76 23 0.26
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (74 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAAGCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
AAGTATGTT
Found at i:209624 original size:183 final size:183
Alignment explanation
Indices: 209316--209852 Score: 986
Period size: 183 Copynumber: 2.9 Consensus size: 183
209306 ATCAGGTTTA
*
209316 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* ** *
209381 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATATATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
209445 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
209499 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
209564 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
209629 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
209682 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGAAAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* *
209747 GCCAACTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAATCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
209812 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
209853 CGGATTTAAT
Statistics
Matches: 345, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
183 344 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:214637 original size:28 final size:28
Alignment explanation
Indices: 214606--214667 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
214596 AAGTATTTTT
* *
214606 TAAAAAATAAT-AATATAAT-AATAATGAA
1 TAAAAAA-AATGAAAATAATAAAAAAT-AA
214634 TAAAAAAAATGAAAATAATAAAAAATAA
1 TAAAAAAAATGAAAATAATAAAAAATAA
214662 TAAAAA
1 TAAAAA
214668 TATATAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.10
28 22 0.73
29 5 0.17
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (28 bp):
TAAAAAAAATGAAAATAATAAAAAATAA
Found at i:214653 original size:18 final size:19
Alignment explanation
Indices: 214607--214675 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
214597 AGTATTTTTT
*
214607 AAAA-AATAATAATATAATA
1 AAAATAATAA-AAAATAATA
* *
214626 ATAATGAATAAAAAA-AATG
1 AAAAT-AATAAAAAATAATA
214645 AAAATAATAAAAAATAATA
1 AAAATAATAAAAAATAATA
214664 AAAATATATAAA
1 AAAATA-ATAAA
214676 GTTATAAGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
18 9 0.22
19 19 0.46
20 8 0.20
21 5 0.12
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATAATAAAAAATAATA
Found at i:214940 original size:18 final size:17
Alignment explanation
Indices: 214917--214959 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
214907 ATATATACAT
214917 ATAATAATAATAACACGA
1 ATAATAATAATAA-ACGA
* *
214935 ATAATAAAAATAAATGA
1 ATAATAATAATAAACGA
214952 ATAA-AATA
1 ATAATAATA
214960 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (17 bp):
ATAATAATAATAAACGA
Found at i:215366 original size:37 final size:37
Alignment explanation
Indices: 215316--215420 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
215306 GTGCTTGTGG
* * * *
215316 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * * *
215353 ATCCTATTTTTAGGAGTTTGAGTCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
215390 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
215421 GACGAAAATG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:223877 original size:21 final size:21
Alignment explanation
Indices: 223835--223877 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
223825 TTTCTGGGCT
*
223835 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
223856 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
223877 A
1 A
223878 ACGAATATGA
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:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:224753 original size:103 final size:103
Alignment explanation
Indices: 224425--224742 Score: 600
Period size: 103 Copynumber: 3.1 Consensus size: 103
224415 GTAGAGGGTC
224425 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
224490 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* *
224528 TATGTGGTTATTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
224593 TTGATCCTTGGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
224631 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
224696 TTGATCCTTGACATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
224734 TATGTGGTC
1 TATGTGGTC
224743 CTTATGGACA
Statistics
Matches: 208, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 208 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (103 bp):
TATGTGGTCATTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:230881 original size:21 final size:21
Alignment explanation
Indices: 230839--230881 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
230829 TTTCTGGGCT
*
230839 AGGGGAATCGATATCCATTCA
1 AGGGGAATCGATATCCACTCA
*
230860 AGGGGAATCGATATCCCCTCA
1 AGGGGAATCGATATCCACTCA
230881 A
1 A
230882 ACGAATATGA
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:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (21 bp):
AGGGGAATCGATATCCACTCA
Found at i:254979 original size:26 final size:26
Alignment explanation
Indices: 254949--255022 Score: 130
Period size: 26 Copynumber: 2.8 Consensus size: 26
254939 TGCATGGCTT
* *
254949 GTGCATTGATGCATCAAATGCACTGA
1 GTGCATCGATGCATAAAATGCACTGA
254975 GTGCATCGATGCATAAAATGCACTGA
1 GTGCATCGATGCATAAAATGCACTGA
255001 GTGCATCGATGCATAAAATGCA
1 GTGCATCGATGCATAAAATGCA
255023 TTCGATGTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (26 bp):
GTGCATCGATGCATAAAATGCACTGA
Found at i:263574 original size:18 final size:17
Alignment explanation
Indices: 263520--263568 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
263510 TTGGACCCTT
* *
263520 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
263538 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
263556 AGTGCATTCGATG
1 AGTGCA-TCGATG
263569 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:263629 original size:19 final size:19
Alignment explanation
Indices: 263588--263636 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
263578 AGCCAGAGTG
* *
263588 CATCGATGCATGGCTTGTG
1 CATCGATGCATGGCTTATA
263607 CATCGATGCATGG-TATATA
1 CATCGATGCATGGCT-TATA
263626 CATCGATGCAT
1 CATCGATGCAT
263637 AAAATGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (19 bp):
CATCGATGCATGGCTTATA
Found at i:265641 original size:21 final size:21
Alignment explanation
Indices: 265617--265671 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
265607 CAAGGTGTTT
*
265617 TATTACAAAGCCAAGCTGCTC
1 TATTACAAAGCCAAGATGCTC
265638 TATTACAAAGCCAAGATGCTC
1 TATTACAAAGCCAAGATGCTC
265659 TATTACAAAGCCA
1 TATTACAAAGCCA
265672 TAACTCATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (21 bp):
TATTACAAAGCCAAGATGCTC
Found at i:278072 original size:10 final size:10
Alignment explanation
Indices: 278057--278084 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
278047 ATCTCACAAT
278057 AAATTTAAAA
1 AAATTTAAAA
278067 AAATTTAAAA
1 AAATTTAAAA
278077 AAATTTAA
1 AAATTTAA
278085 CATTCTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:281557 original size:28 final size:29
Alignment explanation
Indices: 281438--281595 Score: 113
Period size: 29 Copynumber: 5.5 Consensus size: 29
281428 ACGGGAATAA
* * * *
281438 AATCTCATGCAG-AATCAAGATGAGGACTT
1 AATCCCATGCAGAAAT-AAGACGGGGATTT
* * * **
281467 AATCCCATACAAAAATAGGACGATGATTT
1 AATCCCATGCAGAAATAAGACGGGGATTT
* **
281496 AATCCCATGTAGAAATTGGACGGGGATTT
1 AATCCCATGCAGAAATAAGACGGGGATTT
* * *
281525 AATCCCATGGAGAAA-AAGATGGGGGTTT
1 AATCCCATGCAGAAATAAGACGGGGATTT
* * * *
281553 AATCCCATGCAGAAACAAAACAGAGATTT
1 AATCCCATGCAGAAATAAGACGGGGATTT
*
281582 AATTCCATGCAGAA
1 AATCCCATGCAGAA
281596 GCAGAAATAT
Statistics
Matches: 102, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
28 23 0.23
29 76 0.75
30 3 0.03
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (29 bp):
AATCCCATGCAGAAATAAGACGGGGATTT
Found at i:285335 original size:44 final size:45
Alignment explanation
Indices: 285285--285394 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
285275 TGTTGGAATT
* * * *
285285 CCAACTTATT-TCTACCACTATTTTGGAGCTATTACCAACATTGC
1 CCAACTTATTCCCTAACACTATGTTGGAGCTATTACCAACATTAC
* * *
285329 CCAACTTATTCCCTAAGACTATGTTGGAGCTATTAGCAGCATTAC
1 CCAACTTATTCCCTAACACTATGTTGGAGCTATTACCAACATTAC
*
285374 CCAACTTATTCCCTAAGACTA
1 CCAACTTATTCCCTAACACTA
285395 ATTTTTTTAG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
44 10 0.17
45 48 0.83
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (45 bp):
CCAACTTATTCCCTAACACTATGTTGGAGCTATTACCAACATTAC
Found at i:285356 original size:45 final size:45
Alignment explanation
Indices: 285301--285394 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
285291 TATTTCTACC
* *
285301 ACTATTTTGGAGCTATTACCAACATTGCCCAACTTATTCCCTAAG
1 ACTATGTTGGAGCTATTACCAACATTACCCAACTTATTCCCTAAG
* *
285346 ACTATGTTGGAGCTATTAGCAGCATTACCCAACTTATTCCCTAAG
1 ACTATGTTGGAGCTATTACCAACATTACCCAACTTATTCCCTAAG
285391 ACTA
1 ACTA
285395 ATTTTTTTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (45 bp):
ACTATGTTGGAGCTATTACCAACATTACCCAACTTATTCCCTAAG
Found at i:287431 original size:168 final size:170
Alignment explanation
Indices: 287151--287490 Score: 589
Period size: 168 Copynumber: 2.0 Consensus size: 170
287141 TTTATATTCA
*
287151 TTTATCTTTAAATACAAGATAAATTAACATGAAATTAACTAAAATTCATGAAAACTTGGTTGTTT
1 TTTATCTTTAAATACAAGA-AAATTAACATGAAATTAACTAAAA-TCATGAAAACTTGGTTATTT
*
287216 CTCGTTCATTTTGTTACCTTCATACCATAGTAAGAGGGGTTTTTCTTTTTCTTTTTTTAAGCC-A
64 CTCCTTCATTTTGTTACCTTCATACCATAGTAAGAGGGGTTTTTCTTTTTCTTTTTTTAAGCCAA
287280 CTTATTAGGTTTTTGGATTAAGACA-GAAATTGAAATTTGTT
129 CTTATTAGGTTTTTGGATTAAGACATGAAATTGAAATTTGTT
287321 TTTATCTTTAAATACAAG-AAATTAACATGAAATTAACTAAAA-CATGAAAACTTGGTTATGTTC
1 TTTATCTTTAAATACAAGAAAATTAACATGAAATTAACTAAAATCATGAAAACTTGGTTAT-TTC
*
287384 TCCTTCATTTTGTTACCTTCATACCATAGGTAAGAGGGTTTTTTCTTTTTCTTTTTTTAAGCCAA
65 TCCTTCATTTTGTTACCTTCATACCATA-GTAAGAGGGGTTTTTCTTTTTCTTTTTTTAAGCCAA
287449 CTTATTAGGTTTTTGGATTAAGACATGAAATTGAAATTTGTT
129 CTTATTAGGTTTTTGGATTAAGACATGAAATTGAAATTTGTT
287491 CTATTCGACT
Statistics
Matches: 163, Mismatches: 3, Indels: 8
0.94 0.02 0.05
Matches are distributed among these distances:
166 16 0.10
167 30 0.18
168 57 0.35
169 26 0.16
170 34 0.21
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (170 bp):
TTTATCTTTAAATACAAGAAAATTAACATGAAATTAACTAAAATCATGAAAACTTGGTTATTTCT
CCTTCATTTTGTTACCTTCATACCATAGTAAGAGGGGTTTTTCTTTTTCTTTTTTTAAGCCAACT
TATTAGGTTTTTGGATTAAGACATGAAATTGAAATTTGTT
Found at i:288816 original size:52 final size:52
Alignment explanation
Indices: 288757--288862 Score: 212
Period size: 52 Copynumber: 2.0 Consensus size: 52
288747 ACTCAGAAAA
288757 TAGGGCAGTTGATTATGCTCAAAACAACTTCTGTAAGTCAAATTTGAAAATT
1 TAGGGCAGTTGATTATGCTCAAAACAACTTCTGTAAGTCAAATTTGAAAATT
288809 TAGGGCAGTTGATTATGCTCAAAACAACTTCTGTAAGTCAAATTTGAAAATT
1 TAGGGCAGTTGATTATGCTCAAAACAACTTCTGTAAGTCAAATTTGAAAATT
288861 TA
1 TA
288863 CCATAAATTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (52 bp):
TAGGGCAGTTGATTATGCTCAAAACAACTTCTGTAAGTCAAATTTGAAAATT
Found at i:305144 original size:18 final size:18
Alignment explanation
Indices: 305121--305179 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
305111 ATAATTTATA
305121 AAAATAAAATATTTATTT
1 AAAATAAAATATTTATTT
* *
305139 AAAATAATATATATAATTTAT
1 AAAATAAAATAT-TTA-TT-T
305160 AAAAGTAAAATATTTATTT
1 AAAA-TAAAATATTTATTT
305179 A
1 A
305180 TTAAAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 11 0.33
19 4 0.12
20 4 0.12
21 7 0.21
22 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
AAAATAAAATATTTATTT
Found at i:305147 original size:21 final size:21
Alignment explanation
Indices: 305114--305188 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 21
305104 TATATATATA
305114 ATTTATAAAAATAAAATATTT
1 ATTTATAAAAATAAAATATTT
* *
305135 A-TT-T-AAAATAATATATATA
1 ATTTATAAAAATAAAATAT-TT
*
305154 ATTTATAAAAGTAAAATATTT
1 ATTTATAAAAATAAAATATTT
305175 ATTTATTAAAAATA
1 ATTTA-TAAAAATA
305189 TCAGAAAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
18 11 0.26
19 3 0.07
20 4 0.09
21 8 0.19
22 17 0.40
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (21 bp):
ATTTATAAAAATAAAATATTT
Found at i:305188 original size:44 final size:42
Alignment explanation
Indices: 305095--305179 Score: 138
Period size: 40 Copynumber: 2.0 Consensus size: 42
305085 TAATAAAACA
305095 TAAAATATATATATATATAATTTATAAAAATAAAATATTTATT
1 TAAAA-ATATATATATATAATTTATAAAAATAAAATATTTATT
*
305138 T-AAAATA-ATATATATAATTTATAAAAGTAAAATATTTATT
1 TAAAAATATATATATATAATTTATAAAAATAAAATATTTATT
305178 TA
1 TA
305180 TTAAAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
40 33 0.82
41 3 0.08
42 3 0.08
43 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (42 bp):
TAAAAATATATATATATAATTTATAAAAATAAAATATTTATT
Found at i:305402 original size:22 final size:22
Alignment explanation
Indices: 305376--305426 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
305366 AGAAATAGAA
* *
305376 TAAAATTGTATTAAATAATGAC
1 TAAAATAGCATTAAATAATGAC
* *
305398 TAAAATAGCATTTAATAATGGC
1 TAAAATAGCATTAAATAATGAC
305420 TAAAATA
1 TAAAATA
305427 AAAGGAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.33
Consensus pattern (22 bp):
TAAAATAGCATTAAATAATGAC
Found at i:307492 original size:21 final size:21
Alignment explanation
Indices: 307466--307515 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
307456 AAGGAACCAA
307466 GGAAAAGAGAATTACCTAACT
1 GGAAAAGAGAATTACCTAACT
307487 GGAAAAGAGAATTACCTAACT
1 GGAAAAGAGAATTACCTAACT
307508 GGAAAAGA
1 GGAAAAGA
307516 AGATGAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.22, T:0.16
Consensus pattern (21 bp):
GGAAAAGAGAATTACCTAACT
Found at i:309567 original size:27 final size:24
Alignment explanation
Indices: 309535--309585 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 24
309525 ATATTATCCA
309535 TATATCAAAGATATCTATATCGATAAT
1 TATATCAAA-ATATC-ATAT-GATAAT
309562 TATATCAAAATATCATATGATAAT
1 TATATCAAAATATCATATGATAAT
309586 GCATTGGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 6 0.25
25 4 0.17
26 5 0.21
27 9 0.38
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (24 bp):
TATATCAAAATATCATATGATAAT
Found at i:317593 original size:65 final size:65
Alignment explanation
Indices: 317518--317654 Score: 206
Period size: 65 Copynumber: 2.1 Consensus size: 65
317508 AAACTAATTA
* *
317518 CATTCGATGTTTCAAACA-AGCCAGGAGTGCATCGATGCATGG-TCTGTGCATTGGTACACAAAA
1 CATTCGATGTTTCAAA-ATAGCCAAGAGTGCATCGATGCATGGCT-TGTGCATCGGTACACAAAA
317581 TG
64 TG
**
317583 CATTCGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTTGTGCATCGGTACACAAAATG
1 CATTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGCTTGTGCATCGGTACACAAAATG
317648 CATTCGA
1 CATTCGA
317655 AATGGGTGTG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
64 1 0.02
65 64 0.97
66 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (65 bp):
CATTCGATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGCTTGTGCATCGGTACACAAAATG
Found at i:319896 original size:2 final size:2
Alignment explanation
Indices: 319885--319952 Score: 129
Period size: 2 Copynumber: 34.5 Consensus size: 2
319875 TTTTCGAAAT
319885 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
319926 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
319953 TATTTCGAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:320418 original size:23 final size:22
Alignment explanation
Indices: 320367--320457 Score: 73
Period size: 23 Copynumber: 4.2 Consensus size: 22
320357 CAATGGGTGT
* *
320367 ATCGATGCACAGT--AGAGTGC
1 ATCGATGCACATTCAAGAATGC
320387 ATCGATGCACATTCAAGGAATGC
1 ATCGATGCACATTCAA-GAATGC
* * * *
320410 ATCGGTGCATC-TTTATG-ATGT
1 ATCGATGCA-CATTCAAGAATGC
320431 ATCGATGCACATTCAAGAGATGC
1 ATCGATGCACATTCAAGA-ATGC
320454 ATCG
1 ATCG
320458 GTACACTATC
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
20 13 0.24
21 15 0.28
22 2 0.04
23 23 0.43
24 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (22 bp):
ATCGATGCACATTCAAGAATGC
Found at i:326161 original size:65 final size:65
Alignment explanation
Indices: 326084--326236 Score: 177
Period size: 65 Copynumber: 2.4 Consensus size: 65
326074 ACACTAGTGG
* * * *
326084 TGCATCGATACACTAATTACATTTGATGTTTTAAACA-AGCC-AGAAGTGCATCGATGCATGG-T
1 TGCATCGGTACACAAAATACATTTGATGTTTCAAA-ATAGCCAAG-AGTGCATCGATGCATGGCT
326146 CTA
64 -TA
* ** *
326149 TGCATCGGTACACAAAATGCATTTGATGTTTCAAAATATTCAAGAGTGCATCGATGCATGGCTTG
1 TGCATCGGTACACAAAATACATTTGATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGCTTA
*
326214 TGCATCGGTACACAAAATGCATT
1 TGCATCGGTACACAAAATACATT
326237 CGAAAGGGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
64 1 0.01
65 73 0.95
66 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (65 bp):
TGCATCGGTACACAAAATACATTTGATGTTTCAAAATAGCCAAGAGTGCATCGATGCATGGCTTA
Found at i:327235 original size:22 final size:22
Alignment explanation
Indices: 327207--327252 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
327197 TAAAAATATT
*
327207 AATGGGTACCGATACCCCTATG
1 AATGGGTACCAATACCCCTATG
*
327229 AATGGGTATCAATACCCCTATG
1 AATGGGTACCAATACCCCTATG
327251 AA
1 AA
327253 GGCTCAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (22 bp):
AATGGGTACCAATACCCCTATG
Found at i:328658 original size:21 final size:19
Alignment explanation
Indices: 328616--328663 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
328606 AATGGGTACG
*
328616 ATTGGTAT-CTTTTTAACA
1 ATTGGTATCCTTTGTAACA
328634 ATTGGTATCCATTTGTAATCA
1 ATTGGTATCC-TTTGTAA-CA
328655 ATTGGTATC
1 ATTGGTATC
328664 TTTTTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.31
19 1 0.04
20 6 0.23
21 11 0.42
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.46
Consensus pattern (19 bp):
ATTGGTATCCTTTGTAACA
Found at i:329192 original size:20 final size:20
Alignment explanation
Indices: 329157--329210 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
329147 CAGAAAAATA
*
329157 ATCCCCAAATGGCTCCAAAAC
1 ATCCCC-AACGGCTCCAAAAC
329178 ATCCCCAACGGCTCCAAAAC
1 ATCCCCAACGGCTCCAAAAC
329198 ATCCCCAACGGCT
1 ATCCCCAACGGCT
329211 ATATACGACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.33, C:0.43, G:0.11, T:0.13
Consensus pattern (20 bp):
ATCCCCAACGGCTCCAAAAC
Found at i:335259 original size:16 final size:16
Alignment explanation
Indices: 335238--335286 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
335228 TCTTGTATGA
335238 TACCTTTGACCACCAC
1 TACCTTTGACCACCAC
335254 TACCTTTGACCACCAC
1 TACCTTTGACCACCAC
335270 TACCTTTGACCACCAC
1 TACCTTTGACCACCAC
335286 T
1 T
335287 GTAAGCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.24, C:0.43, G:0.06, T:0.27
Consensus pattern (16 bp):
TACCTTTGACCACCAC
Found at i:335779 original size:468 final size:464
Alignment explanation
Indices: 334804--335713 Score: 1227
Period size: 468 Copynumber: 1.9 Consensus size: 464
334794 CATTTTATGA
* * * *
334804 TACCTTTGACTACCCCTGTAAGCATTTTCCCCAA-TAATAATACCAACAAAACCTTTATCCTTAC
1 TACCTTAGACCACCACTGT-AGCA-TGTCCCCAACT-ATAATACCAACAAAACCTTTATCCTTAC
* * * ** *
334868 TAATAAGACTCGTATGCACAACCATCACTGGCATTAAGGAGCCCCGCCATCATATTATTTCTATT
63 TAATAAGACTCGTATGCACAACCATCACTGGCATTAAGGAACCCCGCCAACATACTACCTCTAGT
* *
334933 TTTGATACTCGAATGTATGAAATGCCCAATTCTATAATAACCTAGGAAGGACAAATTGAGCATCT
128 TTTGATACTCGAATGTATGAAATACCCAATTCTATAATAACCTAGGAAGGACAAATTGAGCATAT
* * *
334998 TGGAAATGAAAGTATGGCACACGGAAGGCGGAGAGTCTTGCACAAGAGCATTCATTTCATATGAG
193 TGGAAATGAAAGCATGGCAAACGGAAGGCGGAGAGTATTGCACAAGAGCATTCATTTCATATGAG
* *
335063 CTTGACGTCTCCGTCTCAGTCCCTCGTATGGATAACTACAGGCGTGCACAACCTTCAATCAAGGT
258 CTTGACGTCTCCATCTCAGACCCTCGTATGGATAACTACAGGCGTGCACAACCTTCAATCAAGGT
* * *
335128 AATTTTAGTCCTTATATAAAGGCTGCCAATACCAGGAAGATCAACCTATTTGAGGAGATAATAAT
323 AATTTTAGTCCTTATATAAAGGCTGCCAACACAAGGAACATCAACCTATTTGAGGAGATAATAAT
* ** * * **
335193 TAGTGTCGATTTCACAATTATCACACAGGATTGGATCTTGTATGATACCTTTGACCACCACTACC
388 TAGTGTCGATTTCACAATTATCACACAAGATTGGATCTTCCATAATAACTAAGACCACCACTACC
** *
335258 TTTGACCACCAC
453 TAAGAACACCAC
* * *
335270 TACCTTTGACCACCACTGTAAGCATTTTCCCCAACTATAATACCAACAAAATCTTTATCCTTACT
1 TACCTTAGACCACCACTGT-AGCA-TGTCCCCAACTATAATACCAACAAAACCTTTATCCTTACT
* * *
335335 AATAAGACTCGTATGCACAACCATCAACCATTGGCATTGAGGAACCCCTCCAACATACTGCCTCT
64 AATAAGACTCGTATGCACAACCATC-A-C--TGGCATTAAGGAACCCCGCCAACATACTACCTCT
* *
335400 -GTTTTGATACTCGAATGTATGAAATACCCAATTCTATGATAACCTATGAAGGACAAATTGAGCA
125 AGTTTTGATACTCGAATGTATGAAATACCCAATTCTATAATAACCTAGGAAGGACAAATTGAGCA
* *
335464 TATTGGAAATG-AAGCATGGCAAACGGAAGGGGGAGAGTATTGCGCAAGAGCATTCATTTCATAT
190 TATTGGAAATGAAAGCATGGCAAACGGAAGGCGGAGAGTATTGCACAAGAGCATTCATTTCATAT
* * * *
335528 GAGCTTGACGTGTCCATCTCAGACCCTCGTATGGATAACTGC-GAGTGTGCACAACCTTCAATCG
255 GAGCTTGACGTCTCCATCTCAGACCCTCGTATGGATAACTACAG-GCGTGCACAACCTTCAATCA
* * * * *
335592 ATGTAATTTTAGTCCTTATATAAAGGGTGCCAACATAAGGAACATCAATCTATTTTAGG-GATAA
319 AGGTAATTTTAGTCCTTATATAAAGGCTGCCAACACAAGGAACATCAACCTATTTGAGGAGATAA
*
335656 TAATTAGTGTCGATTTCACAATTATCACACAAGTTTGGATCTTCCATAAATCAACTAA
384 TAATTAGTGTCGATTTCACAATTATCACACAAGATTGGATCTTCCAT-AAT-AACTAA
335714 AGAACTCCTA
Statistics
Matches: 393, Mismatches: 43, Indels: 13
0.88 0.10 0.03
Matches are distributed among these distances:
466 85 0.22
467 51 0.13
468 158 0.40
469 73 0.19
470 26 0.07
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (464 bp):
TACCTTAGACCACCACTGTAGCATGTCCCCAACTATAATACCAACAAAACCTTTATCCTTACTAA
TAAGACTCGTATGCACAACCATCACTGGCATTAAGGAACCCCGCCAACATACTACCTCTAGTTTT
GATACTCGAATGTATGAAATACCCAATTCTATAATAACCTAGGAAGGACAAATTGAGCATATTGG
AAATGAAAGCATGGCAAACGGAAGGCGGAGAGTATTGCACAAGAGCATTCATTTCATATGAGCTT
GACGTCTCCATCTCAGACCCTCGTATGGATAACTACAGGCGTGCACAACCTTCAATCAAGGTAAT
TTTAGTCCTTATATAAAGGCTGCCAACACAAGGAACATCAACCTATTTGAGGAGATAATAATTAG
TGTCGATTTCACAATTATCACACAAGATTGGATCTTCCATAATAACTAAGACCACCACTACCTAA
GAACACCAC
Found at i:340195 original size:16 final size:15
Alignment explanation
Indices: 340154--340196 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
340144 CCTCTATTTG
340154 TAATAATAATA-A-A
1 TAATAATAATATATA
340167 TAATAATTAATATATA
1 TAATAA-TAATATATA
340183 TAATAAT-ATATATA
1 TAATAATAATATATA
340197 CTAACATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.22
14 12 0.44
15 2 0.07
16 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAATAATATATA
Found at i:341239 original size:249 final size:245
Alignment explanation
Indices: 340736--341255 Score: 824
Period size: 249 Copynumber: 2.1 Consensus size: 245
340726 AAATTTACAA
* * *
340736 ATGACCCGAAGGCTTTACAAATGTGATAAATAATTTACTGAGTAAGAGACTATTATTTTCAAAAA
1 ATGACCCGAAGGATTTACAAATATGATAAATAATTTACTGAGTAAGAAACTATTATTTTCAAAAA
*
340801 TTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCGATCTCATTTTCATGCGAAAATC
66 TTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACGATCTCATTTTCATGCGAAAATC
*
340866 ATATGTAAACATCCTACCCAAAGGTTTGACGGATAGCCCTAAGGACTTATCATCTAGCTCAAAAG
131 ATATGTAAACATCCTACCCAAAGGTTTAACGGATAGCCCTAAGGACTTATCATCTAGCTCAAAAG
* * *
340931 ACTGACAGATGACCCGAATGATTTAAACATCATGCTAGAAAGACTTACAT
196 ACTGACAGATGACCCGAAGGATTTAAACATCATGCTAGAAAGACTAACAG
* * *
340981 ATTACCCGAAGGATTTACAAATTCATGATAAATAATTTACTGGGTAAGAAACTTCTTACTTTTCA
1 ATGACCCGAAGGATTTACAAA-T-ATGATAAATAATTTACTGAGTAAGAAAC-TATTA-TTTTCA
* *
341046 AAAATTTGATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCATGCGAA
62 AAAATTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACGATCTCATTTTCATGCGAA
* * * *
341111 AATCATATGTAAACATCCTACCCAAAGGTTTAACGGATGGCCGTAAGGACTTATCATCTGGCTCG
127 AATCATATGTAAACATCCTACCCAAAGGTTTAACGGATAGCCCTAAGGACTTATCATCTAGCTCA
* *
341176 AAAGACTGACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTAACAG
192 AAAGACTGACAGATGACCCGAAGGATTTAAACATCATGCTAGAAAGACTAACAG
*
341230 ATGACCCGAAGGATTTACAATTATGA
1 ATGACCCGAAGGATTTACAAATATGA
341256 CCTTGTTGCC
Statistics
Matches: 250, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
245 19 0.08
246 1 0.00
247 29 0.12
248 5 0.02
249 196 0.78
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (245 bp):
ATGACCCGAAGGATTTACAAATATGATAAATAATTTACTGAGTAAGAAACTATTATTTTCAAAAA
TTTAATTTTCTAGAACATTAAATGAGAAACTTTGAAAATCACGATCTCATTTTCATGCGAAAATC
ATATGTAAACATCCTACCCAAAGGTTTAACGGATAGCCCTAAGGACTTATCATCTAGCTCAAAAG
ACTGACAGATGACCCGAAGGATTTAAACATCATGCTAGAAAGACTAACAG
Found at i:341280 original size:28 final size:28
Alignment explanation
Indices: 341246--341302 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
341236 CGAAGGATTT
341246 ACAATTATGACCTTGTTGCCCCATTTTC
1 ACAATTATGACCTTGTTGCCCCATTTTC
341274 ACAATTATGACCTTGTTGCCCCATTTTC
1 ACAATTATGACCTTGTTGCCCCATTTTC
341302 A
1 A
341303 GAAGAACTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.39
Consensus pattern (28 bp):
ACAATTATGACCTTGTTGCCCCATTTTC
Found at i:342807 original size:40 final size:40
Alignment explanation
Indices: 342762--342842 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
342752 AGAATAGGCA
342762 TCAACTTGACTCAGTATTCTTTTCTTATTTGAGACTATCT
1 TCAACTTGACTCAGTATTCTTTTCTTATTTGAGACTATCT
342802 TCAACTTGACTCAGTATTCTTTTCTTATTTGAGACTATCT
1 TCAACTTGACTCAGTATTCTTTTCTTATTTGAGACTATCT
342842 T
1 T
342843 GTTAAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (40 bp):
TCAACTTGACTCAGTATTCTTTTCTTATTTGAGACTATCT
Found at i:343414 original size:14 final size:14
Alignment explanation
Indices: 343395--343448 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
343385 TTATTTAATG
343395 ATAATAATATATAT
1 ATAATAATATATAT
343409 ATAATAATATATTTTAT
1 ATAATAATATA---TAT
*
343426 TTAATAATA-ATA-
1 ATAATAATATATAT
343438 ATAATAATATA
1 ATAATAATATA
343449 ATGAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 8 0.24
13 3 0.09
14 11 0.32
16 1 0.03
17 11 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATAATATATAT
Found at i:343779 original size:76 final size:76
Alignment explanation
Indices: 343566--344287 Score: 1186
Period size: 76 Copynumber: 9.5 Consensus size: 76
343556 GATTGAAATA
343566 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
343630 TCGAAGGCTTT
66 CCGAAGGCTTT
343641 TTGGAAACATCATGCACTGAAGGACTTAC-GATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
343705 CCGAATGCTTT
66 CCGAAGGCTTT
*
343716 TTGGAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
343781 CCGAAGGCTTT
66 CCGAAGGCTTT
* *
343792 TCGGAAACATCATGCACTGAAGGACTTACAGATGACCC-AAGGCTTTGAAAACATCGAAAAGCT-
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
343855 CCGAATGCTTTTTTTT
66 CCGAAGGC-----TTT
** *
343871 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAAGCT
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAAGCT
343936 CCCGAAGGCTTT
65 CCCGAAGGCTTT
* * *
343948 TTGGAAACATCATGCACTGAAGGGC-TACAGATGACCCGAAGGTTTTG-AAATATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
344011 CCGAAGGCTTT
66 CCGAAGGCTTT
** *
344022 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
344087 CCGAAGGCTTT
66 CCGAAGGCTTT
344098 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
344163 CCGAAGGCTTT
66 CCGAAGGCTTT
344174 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
344239 CCGAAGGCTTTTTT
66 CCGAAGGC---TTT
344253 TTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGA
344288 GGGAAATAGT
Statistics
Matches: 608, Mismatches: 24, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
74 64 0.11
75 137 0.23
76 273 0.45
77 27 0.04
79 77 0.13
80 16 0.03
81 7 0.01
82 7 0.01
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (76 bp):
TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
CCGAAGGCTTT
Found at i:343839 original size:151 final size:152
Alignment explanation
Indices: 343566--344287 Score: 1186
Period size: 151 Copynumber: 4.7 Consensus size: 152
343556 GATTGAAATA
343566 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
343630 TCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTAC-GATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
*
343694 TCAAAAAGCTCCCGAATGCTTT
131 TCAAAAAGCTCCCGAAGGCTTT
*
343716 TTGGAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
*
343781 CCGAAGGCTTTTCGGAAACATCATGCACTGAAGGACTTACAGATGACCC-AAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
* *
343845 TCGAAAAGCT-CCGAATGCTTTTTTTT
131 TCAAAAAGCTCCCGAAGGC-----TTT
** *
343871 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAAGCT
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAAGCT
* * *
343936 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGC-TACAGATGACCCGAAGGTTTTG-AAAT
65 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
343999 ATCAAAAAGCTCCCGAAGGCTTT
130 ATCAAAAAGCTCCCGAAGGCTTT
** *
344022 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
344087 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
66 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
344152 TCAAAAAGCTCCCGAAGGCTTT
131 TCAAAAAGCTCCCGAAGGCTTT
344174 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
344239 CCGAAGGCTTTTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
66 CCGAAGGC---TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
344288 GGGAAATAGT
Statistics
Matches: 537, Mismatches: 20, Indels: 25
0.92 0.03 0.04
Matches are distributed among these distances:
150 94 0.18
151 163 0.30
152 104 0.19
155 118 0.22
156 58 0.11
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (152 bp):
TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTC
CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
TCAAAAAGCTCCCGAAGGCTTT
Found at i:344272 original size:382 final size:381
Alignment explanation
Indices: 343566--344287 Score: 1279
Period size: 382 Copynumber: 1.9 Consensus size: 381
343556 GATTGAAATA
*
343566 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCT
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCC
343631 CGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACGATGACCCGAAGGCTTTGAAAACATC
66 CGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACGATGACCCGAAGGCTTTGAAAACATC
*
343696 AAAAAGCTCCCGAATGCTTTTTGGAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCT
131 AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCT
343761 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTCGGAAACATCATGCACTGAAGGACTTACAGATG
196 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTCGGAAACATCATGCACTGAAGGACTTACAGATG
* *
343826 ACCCAAGGCTTTGAAAACATCGAAAAGCTCCGAATGCTTTTTTTTTTGGAAACATCATGCACTGA
261 ACCCAAGGCTTTGAAAACATCAAAAAGCTCCGAAGGC-TTTTTTTTTGGAAACATCATGCACTGA
343891 AGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAAGCTCCCGAAGGCTTT
325 AGGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAAGCTCCCGAAGGCTTT
* *
343948 TTGGAAACATCATGCACTGAAGGGC-TACAGATGACCCGAAGGTTTTG-AAATATCAAAAAGCTC
1 TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTC
** *
344011 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCTTAAGGTTTTGAAAACA
65 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTAC-GATGACCCGAAGGCTTTGAAAACA
*
344076 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG
129 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGG
*
344141 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
194 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTCGGAAACATCATGCACTGAAGGACTTACAGA
344206 TGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTTTTGGAAACATCATGCAC
259 TGACCC-AAGGCTTTGAAAACATCAAAAAGCT-CCGAAGGCTTTTTTTTTGGAAACATCATGCAC
344270 TGAAGGACTTACAGATGA
322 TGAAGGACTTACAGATGA
344288 GGGAAATAGT
Statistics
Matches: 325, Mismatches: 11, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
381 71 0.22
382 223 0.69
383 24 0.07
384 7 0.02
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (381 bp):
TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAAAAAGCTCC
CGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACGATGACCCGAAGGCTTTGAAAACATC
AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCT
TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTCGGAAACATCATGCACTGAAGGACTTACAGATG
ACCCAAGGCTTTGAAAACATCAAAAAGCTCCGAAGGCTTTTTTTTTGGAAACATCATGCACTGAA
GGACTTACAGATGACCTTAAGGTTTTGAAAACATCAAAAAAGCTCCCGAAGGCTTT
Found at i:347677 original size:84 final size:84
Alignment explanation
Indices: 347578--347882 Score: 515
Period size: 84 Copynumber: 3.6 Consensus size: 84
347568 ATTTTTACCA
*
347578 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCAAATTCATCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCATCTTCCAAAT
*
347643 TCAATGATTGGTTCTGTTC
66 TCAATGATTGGTTCTGTCC
* *
347662 GACCAGATCAGATAACTCAAAGAACATTTCCAAAAGATGCTATTGAGCACATT-ATTCTTCCAAA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCA-TCTTCCAAA
*
347726 TTCAATGATTAG-TCTTGTCC
65 TTCAATGATTGGTTC-TGTCC
347746 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCATCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCATCTTCCAAAT
*
347811 TCAATGATTGGTTCTATCC
66 TCAATGATTGGTTCTGTCC
*
347830 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATT
347883 ACATTTGTTC
Statistics
Matches: 207, Mismatches: 10, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
83 3 0.01
84 201 0.97
85 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.27
Consensus pattern (84 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTGAGCACATTCATCTTCCAAAT
TCAATGATTGGTTCTGTCC
Found at i:356588 original size:11 final size:11
Alignment explanation
Indices: 356570--356607 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
356560 TTGTTTCTAG
356570 TTTCTTTTT-T
1 TTTCTTTTTCT
356580 TTTCTTTTTCT
1 TTTCTTTTTCT
*
356591 TTTTTTTTTCT
1 TTTCTTTTTCT
356602 GTTTCT
1 -TTTCT
356608 GTATCTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 11 0.46
12 4 0.17
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:356594 original size:17 final size:17
Alignment explanation
Indices: 356563--356607 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
356553 TTGTGGTTTG
356563 TTTCTAGTTTC-TTTTTT
1 TTTCT-GTTTCTTTTTTT
*
356580 TTTCTTTTTCTTTTTTT
1 TTTCTGTTTCTTTTTTT
356597 TTTCTGTTTCT
1 TTTCTGTTTCT
356608 GTATCTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.02, C:0.13, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTCTGTTTCTTTTTTT
Found at i:357085 original size:14 final size:14
Alignment explanation
Indices: 357066--357119 Score: 58
Period size: 14 Copynumber: 3.8 Consensus size: 14
357056 TTATTTAATG
357066 ATAATAATATATAT
1 ATAATAATATATAT
357080 ATAATAATATATTTTAT
1 ATAATAATATA---TAT
*
357097 TTAATAATA-ATA-
1 ATAATAATATATAT
357109 ATAATAATATA
1 ATAATAATATA
357120 ATGAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 8 0.24
13 3 0.09
14 11 0.32
16 1 0.03
17 11 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATAATATATAT
Found at i:357421 original size:81 final size:80
Alignment explanation
Indices: 357185--358167 Score: 1318
Period size: 81 Copynumber: 12.1 Consensus size: 80
357175 ATTCCTTTAG
* * * * *
357185 TCTTTAACTCAACGGTATTTAACTGTTCATTTAACTGGCATAATTAACACCTTTATGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* *
357250 ACATCTAGGCTATTAA
65 ACAACTAGGCCATTAA
* *
357266 TCTTTTACTCAACGGTATTTAAACCGTTCATCTAACTAGCATAATTGAGACTTTTCTGCCAAATG
1 TCTTTTACTCAACGGTATTT-AACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATG
* *
357331 CACAGCTAGGGCATTAA
64 CACAACTAGGCCATTAA
*
357348 TCTTTTACTCAACGGTATTTAACTGTTCATCTAACTGGCATAATTGACATCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* *
357413 AAAACTAGGCCATTAG
65 ACAACTAGGCCATTAA
* * * *
357429 CCTTTTACTCAACGGTATTTAATCGTTCATCTAACTTGCATAATTGACACATTTCTACCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATGC
* *
357494 ACAATTAGGTCATTAA
65 ACAACTAGGCCATTAA
357510 TCTTTTACTCAACGGTATTTAAACCGTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATG
1 TCTTTTACTCAACGGTATTT-AACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATG
* *
357575 CACAGCTAGGGCATTAA
64 CACAACTAGGCCATTAA
*
357592 TCTTTTACTCAATGGTATTTAACCGTTCATCTAACTGGCATAATTGACATCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* *
357657 AAAACTAGGCCATTAG
65 ACAACTAGGCCATTAA
* * * * * *
357673 CCTTTTACTCAACGGTATTTAATCGTTCATATAACTTGCATAATTGACACATTTCTACCAAATAC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATGC
*
357738 ACAATTAGGCCATTAA
65 ACAACTAGGCCATTAA
* *
357754 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTTCTAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACAC-TTTCTGCCAAATGC
* * *
357819 ACAGCTAGGTCATTAG
65 ACAACTAGGCCATTAA
* *
357835 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACATATTTCTTCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
*
357900 ACAGCTAGGCCATTAA
65 ACAACTAGGCCATTAA
* *
357916 TATTTTACTAAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
*
357981 ACAACTATGCCATTAA
65 ACAACTAGGCCATTAA
* * * * * *
357997 TATTTTAATCAACGATATTTAACCGTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
358062 ACAACTAGGCCATTAA
65 ACAACTAGGCCATTAA
* ** * * * *
358078 TCTTTCACTCAACGGTATTTAATAGTTCATTTAACTGGCATAATTGACACCATTATGTCAAATGC
1 TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTGCCAAATGC
* *
358143 ATAGCTAGGCCATTAA
65 ACAACTAGGCCATTAA
358159 TCTTTTACT
1 TCTTTTACT
358168 TTAGAATTAT
Statistics
Matches: 804, Mismatches: 90, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
80 2 0.00
81 657 0.82
82 145 0.18
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (80 bp):
TCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACTTTCTGCCAAATGCA
CAACTAGGCCATTAA
Found at i:358558 original size:6 final size:6
Alignment explanation
Indices: 358547--358586 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
358537 TACTAAGGTA
358547 CTTTGC CTTTGC CTTTGC CTTTGC CTTTGC CTTTGC CTTT
1 CTTTGC CTTTGC CTTTGC CTTTGC CTTTGC CTTTGC CTTT
358587 TGGTTTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.33, G:0.15, T:0.53
Consensus pattern (6 bp):
CTTTGC
Found at i:362494 original size:1 final size:1
Alignment explanation
Indices: 362488--362528 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
362478 TTTTGGTAGC
* * *
362488 AAAAAAAAAAAAAAAAAAAAAGAAAAAGAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
362529 GATACCCGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:362519 original size:20 final size:20
Alignment explanation
Indices: 362490--362530 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
362480 TTGGTAGCAA
362490 AAAAAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAAAG
* *
362510 AAAAAGAAAAAAAGAAAAAG
1 AAAAAAAAAAAAAAAAAAAG
362530 A
1 A
362531 TACCCGATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAAAAAG
Found at i:362529 original size:14 final size:14
Alignment explanation
Indices: 362488--362530 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
362478 TTTTGGTAGC
* *
362488 AAAAAAAAAAAAAA
1 AAAAAAAGAAAAAG
362502 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
362516 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
362530 A
1 A
362531 TACCCGATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:367205 original size:3 final size:3
Alignment explanation
Indices: 367191--367265 Score: 87
Period size: 3 Copynumber: 24.7 Consensus size: 3
367181 TGTAATATTA
* * * * *
367191 AAT AAT ATAT AAT AAT AAT AAT AAT AAT TAT TAT TAT TAT AAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
367237 AAT AAT AAT AAT TAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
367266 CATTAAAATG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:367528 original size:17 final size:17
Alignment explanation
Indices: 367506--367561 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
367496 TTGAATAAGC
367506 TCTTCTTATTATGAACT
1 TCTTCTTATTATGAACT
* *
367523 TCTTCTTCTCCTGATG-AGT
1 TCTTCTTAT--T-ATGAACT
*
367542 TCTTCTCATTATGAACT
1 TCTTCTTATTATGAACT
367559 TCT
1 TCT
367562 CTGGGAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
16 3 0.10
17 14 0.47
19 10 0.33
20 3 0.10
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (17 bp):
TCTTCTTATTATGAACT
Found at i:367726 original size:113 final size:112
Alignment explanation
Indices: 367489--368153 Score: 889
Period size: 113 Copynumber: 5.9 Consensus size: 112
367479 TAGAGTCATT
* ** * * *
367489 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC-T--T-CTTCTCCTGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* *
367550 TTATGAACTTCTCTGGGAAAA-CTGACCCATCAAGTGATGGATTTGAG
66 TTATGAACTTCTCT-GGAAAAGCTGATCCATCAAGTGATAGATTTGAG
* * *
367597 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * *
367662 TTATGAAC-TCGAACTGGAAAAGAT-AGTCCATCAAGTGATAGATTTGAA
66 TTATGAACTTC--TCTGGAAAAGCTGA-TCCATCAAGTGATAGATTTGAG
* * *
367710 CAAAAGGTTGAACAAATTCTTCTCGTTATGAACTTCTTCATCTTTCTTCAAGTAATGAGTTCTTT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTC-AG--ATGAGTTCTTC
*** *
367775 TCATTATGAAC-TCTACCTGGAAATTTTAATCCATCAAGTGATAGATTTGAG
63 TCATTATGAACTTCT--CTGGAAAAGCTGATCCATCAAGTGATAGATTTGAG
* *
367826 AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTAATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* * *
367891 TTATGAAC-TCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTC--TCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAG
*
367939 GAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
* *
368004 TTATGAACTTCTCTGGAAAAGCTGACCCATCAAGTGATGGATTTGAG
66 TTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAG
* *
368051 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
368116 TTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGAT
66 TTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGAT
368154 GAATTTAAAT
Statistics
Matches: 498, Mismatches: 42, Indels: 30
0.87 0.07 0.05
Matches are distributed among these distances:
108 31 0.06
109 1 0.00
111 3 0.01
112 165 0.33
113 194 0.39
114 4 0.01
115 2 0.00
116 97 0.19
117 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAG
Found at i:367847 original size:229 final size:225
Alignment explanation
Indices: 367489--368153 Score: 963
Period size: 229 Copynumber: 3.0 Consensus size: 225
367479 TAGAGTCATT
* ** * * *
367489 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC-T--T-CTTCTCCTGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
*
367550 TTATGAACTTCTCTGGGAAAA-CTGACCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAAT
66 TTATGAACTTCTCT-GGAAAAGCTAACCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAAT
*
367614 TCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
367679 AAAAGATAGTCCATCAAGTGATAGATTTGAA
195 AAAAGATAGTCCATCAAGTGATAGATTTGAA
* * *
367710 CAAAAGGTTGAACAAATTCTTCTCGTTATGAACTTCTTCATCTTTCTTCAAGTAATGAGTTCTTT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTC-AG--ATGAGTTCTTC
*** * *
367775 TCATTATGAAC-TCTACCTGGAAATTTTAATCCATCAAGTGATAGATTTGAG-AAAAAGGTTGAA
63 TCATTATGAACTTCT--CTGGAAAAGCTAACCCATCAAGTGATGGATTTGAGCAAAAA-GTTGAA
**
367838 CAAATTCTTCTCATTATGAACTTCTTAATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
125 CAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGA
* *
367903 ACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
190 ACTGGAAAAGATAGTCCATCAAGTGATAGATTTGAA
*
367939 GAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
*
368004 TTATGAACTTCTCTGGAAAAGCTGACCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATT
66 TTATGAACTTCTCTGGAAAAGCTAACCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATT
*
368069 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC--TCTGG
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCGAACTGG
*
368132 AAAAGCT-GATCCATCAAGTGAT
195 AAAAGATAG-TCCATCAAGTGAT
368154 GAATTTAAAT
Statistics
Matches: 395, Mismatches: 34, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
221 31 0.08
222 1 0.00
224 24 0.06
225 99 0.25
226 29 0.07
227 6 0.02
228 33 0.08
229 172 0.44
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (225 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCTCTGGAAAAGCTAACCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGA
AAAGATAGTCCATCAAGTGATAGATTTGAA
Found at i:369013 original size:115 final size:115
Alignment explanation
Indices: 368856--369260 Score: 661
Period size: 115 Copynumber: 3.6 Consensus size: 115
368846 TTTTAATTCC
* *
368856 AATGATTGGTTCTGTAG-TTCCTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
1 AATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
*
368920 GCTATTGAGTCTCCTTATTTCTACTATGAGGAAATTCATCTTTCAAATTT
66 GCTATTGAGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTCAAATTT
*
368970 AATGATTGGTTCTGTGGTTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
1 AATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
369035 GCTATTGAGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTCAAATTT
66 GCTATTGAGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTCAAATTT
* * *
369085 AATGATTGGTTCTGTGGTTTCATATCAAACCAGATCAGATAACTTAAAGAACACTTCCAAAAGAT
1 AATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
*
369150 GCTATTAAGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTCAAATTT
66 GCTATTGAGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTCAAATTT
369200 AATGA-------T-TGGTTT--TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
1 AATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
369255 GCTATT
66 GCTATT
369261 AGCACATTTA
Statistics
Matches: 280, Mismatches: 10, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
105 46 0.16
107 6 0.02
108 1 0.00
114 16 0.06
115 211 0.75
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (115 bp):
AATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
GCTATTGAGTCTCCTTATTTCTACTATGAGCAAATTCATCTTTCAAATTT
Found at i:369326 original size:83 final size:83
Alignment explanation
Indices: 369173--369433 Score: 452
Period size: 83 Copynumber: 3.1 Consensus size: 83
369163 CTTATTTCTA
* * *
369173 CTATGAGCAAATTCATCTTTCAAATTTAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTTATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
369238 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
369256 CTATTAGCACATTTATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTTATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
*
369321 GAACACTTCCAGAATATG
66 GAACACTTCCAGAAGATG
*
369339 CTATTG-GAACATTTATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAA
1 CTA-TGAGCACATTTATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAA
369403 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
369422 CTATGAGCACAT
1 CTATGAGCACAT
369434 GGCATTTGTT
Statistics
Matches: 167, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
82 2 0.01
83 164 0.98
84 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.30
Consensus pattern (83 bp):
CTATGAGCACATTTATCTTTCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:370599 original size:19 final size:19
Alignment explanation
Indices: 370577--370660 Score: 102
Period size: 19 Copynumber: 4.5 Consensus size: 19
370567 TGACCCCCCC
370577 TTTTTCTTCTTTTTTCTCT
1 TTTTTCTTCTTTTTTCTCT
*
370596 TTTTTTTTCTTTTTTCTCTT
1 TTTTTCTTCTTTTTTCTC-T
*
370616 TTTTTCTT-TTCTTTTTTCT
1 TTTTTCTTCTT-TTTTCTCT
*
370635 TTTCT-TTCTTTTTTCT-T
1 TTTTTCTTCTTTTTTCTCT
370652 TTTTTCTTC
1 TTTTTCTTC
370661 AAACAAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
17 5 0.09
18 10 0.18
19 26 0.47
20 14 0.25
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTTCTTTTTTCTCT
Found at i:370601 original size:12 final size:11
Alignment explanation
Indices: 370577--370656 Score: 83
Period size: 11 Copynumber: 7.2 Consensus size: 11
370567 TGACCCCCCC
*
370577 TTTTTC-TTCT
1 TTTTTCTTTTT
370587 TTTTTCTCTTTT
1 TTTTTCT-TTTT
370599 TTTTTCTTTTT
1 TTTTTCTTTTT
*
370610 TCTCTT-TTTTT
1 T-TTTTCTTTTT
*
370621 CTTTTCTTTTT
1 TTTTTCTTTTT
*
370632 TCTTTTCTTTCT
1 T-TTTTCTTTTT
370644 TTTTTCTTTTT
1 TTTTTCTTTTT
370655 TT
1 TT
370657 CTTCAAACAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
10 9 0.16
11 26 0.45
12 23 0.40
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:370607 original size:28 final size:28
Alignment explanation
Indices: 370576--370656 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 28
370566 TTGACCCCCC
370576 CTTTTTCTTCTTTTTTCTCTTTTTTTTT
1 CTTTTTCTTCTTTTTTCTCTTTTTTTTT
370604 CTTTTT-TCTCTTTTTT-TCTTTTCTTTTT
1 CTTTTTCT-TCTTTTTTCTCTTTT-TTTTT
370632 -TCTTTTCTTTCTTTTTTCT-TTTTTT
1 CT-TTTTC-TTCTTTTTTCTCTTTTTT
370657 CTTCAAACAA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
27 8 0.17
28 25 0.53
29 12 0.26
30 2 0.04
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (28 bp):
CTTTTTCTTCTTTTTTCTCTTTTTTTTT
Found at i:370608 original size:17 final size:16
Alignment explanation
Indices: 370588--370659 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 16
370578 TTTTCTTCTT
370588 TTTTCTCTTTTTTTTTC
1 TTTTCT-TTTTTTTTTC
370605 TTTT-TTCTCTTTTTTTC
1 TTTTCTT-T-TTTTTTTC
370622 TTTTCTTTTTTCTTTTC
1 TTTTCTTTTTT-TTTTC
*
370639 -TTTCTTTTTTCTTT-
1 TTTTCTTTTTTTTTTC
370653 TTTTCTT
1 TTTTCTT
370660 CAAACAAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
15 10 0.20
16 15 0.31
17 22 0.45
18 2 0.04
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCTTTTTTTTTTC
Found at i:370610 original size:29 final size:28
Alignment explanation
Indices: 370577--370656 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 28
370567 TGACCCCCCC
370577 TTTTTCTTCTTTTTTCTCTTTTTTTTTCT
1 TTTTTCTTCTTTTTTCTCTTTTTTTTT-T
370606 TTTTTC-TCTTTTTT-TCTTTTCTTTTTT
1 TTTTTCTTCTTTTTTCTCTTTT-TTTTTT
*
370633 CTTTTCTTTCTTTTTTCT-TTTTTT
1 TTTTTC-TTCTTTTTTCTCTTTTTT
370657 CTTCAAACAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
27 12 0.26
28 15 0.33
29 18 0.39
30 1 0.02
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (28 bp):
TTTTTCTTCTTTTTTCTCTTTTTTTTTT
Found at i:370654 original size:7 final size:7
Alignment explanation
Indices: 370578--370655 Score: 81
Period size: 7 Copynumber: 10.9 Consensus size: 7
370568 GACCCCCCCT
370578 TTTTCTTC
1 TTTT-TTC
370586 TTTTTTC
1 TTTTTTC
*
370593 -TCTTT-
1 TTTTTTC
370598 TTTTTTC
1 TTTTTTC
370605 TTTTTTC
1 TTTTTTC
370612 TCTTTTT-
1 T-TTTTTC
370619 TTCTTTTC
1 TT-TTTTC
370627 TTTTTTC
1 TTTTTTC
370634 TTTTCTTTC
1 -TTT-TTTC
370643 TTTTTTC
1 TTTTTTC
370650 TTTTTT
1 TTTTTT
370656 TCTTCAAACA
Statistics
Matches: 61, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
6 9 0.15
7 31 0.51
8 17 0.28
9 4 0.07
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:377982 original size:15 final size:15
Alignment explanation
Indices: 377959--377990 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
377949 TGAAATGAAT
377959 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
377974 AATGCATGTATGCAA
1 AATGAATGTATGCAA
377989 AA
1 AA
377991 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:381276 original size:24 final size:24
Alignment explanation
Indices: 381227--381290 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
381217 ATGAAATATT
*
381227 AATAATATATATAAATACTATAAA
1 AATAATATGTATAAATACTATAAA
*
381251 AATAATATGTATATATA-TATAAA
1 AATAATATGTATAAATACTATAAA
381274 AA-AATTATGTATGAAAT
1 AATAA-TATGTAT-AAAT
381291 TTTAATTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.06
23 15 0.43
24 18 0.51
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (24 bp):
AATAATATGTATAAATACTATAAA
Found at i:381967 original size:11 final size:11
Alignment explanation
Indices: 381925--381972 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
381915 TAAATATTAA
381925 AATA-ATTTATT
1 AATATATTTA-T
*
381936 AAAATA-TTAT
1 AATATATTTAT
381946 AA-ATA-TTAT
1 AATATATTTAT
381955 AATATATTTAT
1 AATATATTTAT
381966 AATATAT
1 AATATAT
381973 AACAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 9 0.27
10 6 0.18
11 17 0.52
12 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AATATATTTAT
Found at i:381986 original size:25 final size:26
Alignment explanation
Indices: 381958--382008 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
381948 ATATTATAAT
381958 ATATTTATAATATAT-AAC-AATAAAA
1 ATATTTA-AATATATAAACAAATAAAA
381983 ATATTTAAATATATAAACAAATAAAA
1 ATATTTAAATATATAAACAAATAAAA
382009 CAATAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 7 0.29
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
ATATTTAAATATATAAACAAATAAAA
Found at i:383404 original size:3 final size:3
Alignment explanation
Indices: 383386--383457 Score: 81
Period size: 3 Copynumber: 23.7 Consensus size: 3
383376 TGTAATATTA
* * * * *
383386 AAT AAT ATAT ATT AAT AAT AAT AAT AAT TAT TAT TAT AAT TAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
383432 AAT AAT AAT TAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
383458 CATTAAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:387387 original size:55 final size:55
Alignment explanation
Indices: 386515--387358 Score: 1267
Period size: 55 Copynumber: 15.3 Consensus size: 55
386505 ATGTATGGTG
* * * *
386515 ATTTCCGTATGGGCACTGTGTGTTCAAACCTTATAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
386570 ATTTCCGTATGGGCACTGTGTGTG-AAAACTTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAAC-TAAGAAATTCATAATAAGTTTATGA
* *
386625 ATTTCCGTATGGGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGC
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * *
386680 ATTTTCGTATGGGCATTGTGTGTGCAAAACTAAGAAATTCAAAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
*
386735 ATTTCTGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * * *
386790 ATTTCCGTATGGGCACTGAGTGTACAAAATTAAGAAATTCATAATTAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* *
386845 ATTTCCGTATGGGCACTATGTGTGCAAAACTAAGAAATTCATAATAATTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * * * *
386900 ATTTCTGTATGCGCACTATGTGTGCAAAACTAAGAATTTCATAATAAGTTTATGC
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * * *
386955 ATTTCCGTATGGGAAATATGTGTGCAGAACTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
** *
387010 ATTTCCGTATGGGCAGAGTGTGTGCAAAACTAAGAAATTCATAATATGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * *
387065 ATTTCCGTATGGGCATTGTGTATGAAAAACTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * * * *
387120 ATTTCCTTTTGGGCACTGTGTATACAAAACTAAGAAATTCATAATAAGTTTTTGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
*** *
387175 ATTTCCGTATGGGCACTGTGTGAAAAAAATTAAGAAATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
* * *
387230 ATTACCGTATGGGCACTGTATGTGCAAAACTAAGATATTCATAATAAGTTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
*
387285 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGCTTATGA
1 ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
*
387340 ATTTCCGTATTGGCACTGT
1 ATTTCCGTATGGGCACTGT
387359 ATGCGCAACC
Statistics
Matches: 713, Mismatches: 74, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
54 4 0.01
55 704 0.99
56 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (55 bp):
ATTTCCGTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGA
Found at i:387673 original size:47 final size:49
Alignment explanation
Indices: 387599--387736 Score: 172
Period size: 47 Copynumber: 2.9 Consensus size: 49
387589 ATGCATATAT
* *
387599 GTGCATTTTTGGCAGAAAAGTGCCATTAATGCAAGTTAGATG-CTAACT
1 GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACG
* * * * *
387647 GTG-TTTTTTGGCAGATAGGTGACATTATTGCAACTTAGATGTCTAACG
1 GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACG
* * *
387695 GTGCACTTTTGGCAGAAAGGTGCCATTAATACAGGTTAGATG
1 GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATG
387737 AGGAACAATG
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
47 32 0.44
48 11 0.15
49 30 0.41
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (49 bp):
GTGCATTTTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGTCTAACG
Found at i:392499 original size:17 final size:17
Alignment explanation
Indices: 392451--392505 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 17
392441 TGGTCATTTG
*
392451 GGACATAGTGGTTCTTC
1 GGACATAGTGGTCCTTC
392468 GGAACAATCAGTGGTCCTTC
1 GG-AC-AT-AGTGGTCCTTC
392488 GGACATAGTGGTCCTTC
1 GGACATAGTGGTCCTTC
392505 G
1 G
392506 TGATAAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
17 14 0.41
18 4 0.12
19 4 0.12
20 12 0.35
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (17 bp):
GGACATAGTGGTCCTTC
Found at i:395206 original size:55 final size:55
Alignment explanation
Indices: 395109--396313 Score: 864
Period size: 55 Copynumber: 22.2 Consensus size: 55
395099 GATGATTTTA
395109 GTATGGGCACTGTGTTGTGACAAAACTAAG-AATTCAT-ATAAGTTTATGAATTTCC
1 GTATGGGCACTGTG-TGTG-CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * *
395164 ATATGGGCAATATGTGTGTAAAACTAAGAAATTCATAGTAAGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
*
395219 -TATGGGCA-TG-GTGTGCAAAACTAAGAAATTCATAGTAAGTTTATGAATTT-C
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * *
395270 GTATTGGCACTGTATATGAAAAACTAAGAAATTCATAATATGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * *
395325 GTATGGGCACTGTGTGTGGAAGACTAAGAAATTCATAATAAGTTTATCAATTTCT
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * * *
395380 TTATTGGCGCTATATGTGCAAAACTAAGAAATTCATAATAAGATTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
*
395435 GTATGGGCACTGTGTGTGCAAAA--AA-AAATTCATAATAAGTTTATGAATTT-T
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * *
395486 ATATGGGCAC--TATGTGCAAAACTAAGAAACTCATAATAAGTTTATGAA-TT-C
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * **
395537 GTAGGGGCACTGTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTT
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * *
395592 GTATGGGTACTGCGTGTGCAAAACTAAGAAATTCATAATAAGTTTAAGAATTTTC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * ** * * * *
395647 GTATTGACAGTATGTGTGCAACCCCACA-TAATTCATAATAAG-TTGTGAATTACC
1 GTATGGGCACTGTGTGTGCAAAACTA-AGAAATTCATAATAAGTTTATGAATTTCC
*** * ** ** * *
395701 -TCATTAACTCTACGTGTGCAAAGTA-TAGAGTTTATAATGAATAGAAAGAGTTAATTG-ATATT
1 GT-ATGGGCACTGTGTGTGCAAA--ACTA-AG---A-AATTCATA-ATA-AGTTTA-TGAAT-TT
**
395763 AA
54 CC
** * * * * * **
395765 G-AT--TAATTAT-TAGAG-TAAA--AAG-AGTTCATAATAAGTTGTGAATGTATGGTGATTTTA
1 GTATGGGCACTGTGT-GTGCAAAACTAAGAAATTCATAATAAGTT-T--ATG-A-----ATTTCC
*
395822 GTATGGGCACTGTGTGTG-ACAAACTAAGAAATTCATAATAAGTTTATGAATTTCT
1 GTATGGGCACTGTGTGTGCA-AAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * *
395877 GTATGGGCAATGTGTGT-C----C--A-AAA--CTTAGTAAGTTTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * * * * *
395922 ATATTGGCACTGTATATGAAAAACTAAGAAAGTCATAATACGTTTATGAATTTTC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * *
395977 GTATGGGCACTGTGTGTGGAAGACTAAGAAATTCAGAATAAGTTTATCAATTTCT
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * * * *
396032 TTATTGGCACTATATATGCAAAACTAAGAAATTCATAATAAGATTATGAATTTCC
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * * ** * * *
396087 GTATTGGCAATATGTGTGCAAAAAAAAAAAAGAATTCATAATAAGTTTACGAATTT-T
1 GTATGGGCACTGTGTGTGC--AAAACTAAGA-AATTCATAATAAGTTTATGAATTTCC
* * *
396144 GTA-GGGCACTATGTTTGCAAAAACTAAGAAA-TCATAATAAGTTTATGAATTTTC
1 GTATGGGCACTGTGTGTGC-AAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* * *
396198 GTATGGGCACTAGTGTGTACAGAAA-TAAGAAATTCATAATTAGTTTATGAATTTCT
1 GTATGGGCACT-GTGTGTGCA-AAACTAAGAAATTCATAATAAGTTTATGAATTTCC
* *
396254 GTATGGGTAC--TGCGTGCAAAACTAAGAAATTCAT-ATAAGTTTATGAATTT-C
1 GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
*
396305 GTATTGGCA
1 GTATGGGCA
396314 AATGTGTGCA
Statistics
Matches: 908, Mismatches: 175, Indels: 138
0.74 0.14 0.11
Matches are distributed among these distances:
45 31 0.03
47 3 0.00
48 1 0.00
49 14 0.02
50 4 0.00
51 36 0.04
52 111 0.12
53 91 0.10
54 84 0.09
55 383 0.42
56 52 0.06
57 15 0.02
58 27 0.03
60 15 0.02
61 13 0.01
62 2 0.00
63 9 0.01
64 17 0.02
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (55 bp):
GTATGGGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCC
Found at i:395682 original size:267 final size:269
Alignment explanation
Indices: 395124--395697 Score: 725
Period size: 267 Copynumber: 2.1 Consensus size: 269
395114 GGCACTGTGT
* *
395124 TGTGACAAAACTAAG-AATTCAT-ATAAGTTTATGAATTTCCATATGGGCAATATGTGTGTAAAA
1 TGTG-CAAAACCAAGAAATTCATAATAAG-TTATGAATTTCCATATGGGCAATATGTGTGCAAAA
* * * *
395187 CTAAGAAATTCATAGTAAGTTTATGAATTTCCTATGGGCATGGTGTGCAAAACTAAGAAATTCAT
64 C-AAGAAATTCATAATAAGTTTATGAATTTCATATGGGCATGATGTGCAAAACTAAGAAACTCAT
* ** *
395252 AGTAAGTTTATGAATTTCGTATTGGCACTGTATATGAAAAACTAAGAAATTCATAATATGTTTAT
128 AATAAGTTTATGAATTTCGTAGGGGCACTGTATATGAAAAACTAAGAAATTCATAATAAGTTTAT
* * * * *
395317 GAATTTCCGTATGGGCACTGTGTGTGGAAGACTAAGAAATTCATAATAAGTTTATCAATTTCTTT
193 GAATTTCCGTATGGGCACTGCGTGTGCAAAACTAAGAAATTCATAATAAGTTTAACAATTTCTGT
*
395382 ATTGGCGCTATA
258 ATTGACGCTATA
* * * *
395394 TGTGCAAAACTAAGAAATTCATAATAAGATTATGAATTTCCGTATGGGCACTGTGTGTGCAAAA-
1 TGTGCAAAACCAAGAAATTCATAATAAG-TTATGAATTTCCATATGGGCAATATGTGTGCAAAAC
*
395458 AA-AAATTCATAATAAGTTTATGAATTTTATATGGGCACT-ATGTGCAAAACTAAGAAACTCATA
65 AAGAAATTCATAATAAGTTTATGAATTTCATATGGGCA-TGATGTGCAAAACTAAGAAACTCATA
* *
395521 ATAAGTTTATGAA-TTCGTAGGGGCACTGTGTGTGAAAAACTAAGAAATTCATAATAAGTTTATG
129 ATAAGTTTATGAATTTCGTAGGGGCACTGTATATGAAAAACTAAGAAATTCATAATAAGTTTATG
** * *
395585 AATTTTTGTATGGGTACTGCGTGTGCAAAACTAAGAAATTCATAATAAGTTTAAGAATTT-TCGT
194 AATTTCCGTATGGGCACTGCGTGTGCAAAACTAAGAAATTCATAATAAGTTTAACAATTTCT-GT
*
395649 ATTGACAG-TATG
258 ATTGAC-GCTATA
** * *
395661 TGTGCAACCCCACA-TAATTCATAATAAGTTGTGAATT
1 TGTGCAAAACCA-AGAAATTCATAATAAGTTATGAATT
395698 ACCTCATTAA
Statistics
Matches: 266, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
266 9 0.03
267 129 0.48
268 68 0.26
269 13 0.05
270 11 0.04
271 36 0.14
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (269 bp):
TGTGCAAAACCAAGAAATTCATAATAAGTTATGAATTTCCATATGGGCAATATGTGTGCAAAACA
AGAAATTCATAATAAGTTTATGAATTTCATATGGGCATGATGTGCAAAACTAAGAAACTCATAAT
AAGTTTATGAATTTCGTAGGGGCACTGTATATGAAAAACTAAGAAATTCATAATAAGTTTATGAA
TTTCCGTATGGGCACTGCGTGTGCAAAACTAAGAAATTCATAATAAGTTTAACAATTTCTGTATT
GACGCTATA
Found at i:395945 original size:45 final size:45
Alignment explanation
Indices: 395860--395946 Score: 102
Period size: 45 Copynumber: 1.9 Consensus size: 45
395850 AAATTCATAA
** * * *
395860 TAAGTTTATGAATTTCTGTATGGGCAATGTGTGTCCAAAACTTAG
1 TAAGTTTATGAATTTCCATATGGGCAATGTATATCAAAAACTTAG
* * *
395905 TAAGTTTATGAATTTCCATATTGGCACTGTATATGAAAAACT
1 TAAGTTTATGAATTTCCATATGGGCAATGTATATCAAAAACT
395947 AAGAAAGTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (45 bp):
TAAGTTTATGAATTTCCATATGGGCAATGTATATCAAAAACTTAG
Found at i:396237 original size:167 final size:168
Alignment explanation
Indices: 395954--396257 Score: 393
Period size: 167 Copynumber: 1.8 Consensus size: 168
395944 ACTAAGAAAG
* * * * *
395954 TCATAATACGTTTATGAATTTTCGTATGGGCACTGTGTGTGGAAGACTAAGAAATTCAGAATAAG
1 TCATAATAAGTTTACGAATTTTCGTATGGGCACTATGTGTGAAAAACTAAGAAATTCAGAATAAG
* * *
396019 TTTATCAATTTCTTTATTGGCACTATATATGCAAAACTAAGAAATTCATAATAAGATTATGAATT
66 TTTATCAATTTCTGTATGGGCACTATATATACAAAACTAAGAAATTCATAATAAGATTATGAATT
396084 TCCGTATTGGCAATATGTGTGCAAAAAAAAAAAAGAAT
131 TCCGTATTGGCAATATGTGTGCAAAAAAAAAAAAGAAT
* *
396122 TCATAATAAGTTTACGAATTTT-GTA-GGGCACTATGTTTGCAAAAACTAAGAAA-TCATAATAA
1 TCATAATAAGTTTACGAATTTTCGTATGGGCACTATGTGTG-AAAAACTAAGAAATTCAGAATAA
* * * * *
396184 GTTTATGAATTT-TCGTATGGGCACTAGTGTGTACAGAAA-TAAGAAATTCATAATTAGTTTATG
65 GTTTATCAATTTCT-GTATGGGCACTA-TATATACA-AAACTAAGAAATTCATAATAAGATTATG
*
396247 AATTTCTGTAT
127 AATTTCCGTAT
396258 GGGTACTGCG
Statistics
Matches: 116, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
165 1 0.01
166 41 0.35
167 51 0.44
168 23 0.20
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (168 bp):
TCATAATAAGTTTACGAATTTTCGTATGGGCACTATGTGTGAAAAACTAAGAAATTCAGAATAAG
TTTATCAATTTCTGTATGGGCACTATATATACAAAACTAAGAAATTCATAATAAGATTATGAATT
TCCGTATTGGCAATATGTGTGCAAAAAAAAAAAAGAAT
Found at i:396790 original size:46 final size:46
Alignment explanation
Indices: 396696--396790 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 46
396686 TTAGATGATG
* * * **
396696 AACAATGCATAGTTGGCATGAAACGATGCCATAAATGAAAATGTAT
1 AACAATGCATAATTGGCATGAAACGATGACACAAATGAAAATACAT
* * * *
396742 AACAGTGCATAATTGGCTTGAAAGGATGACACAAATGACAATACAT
1 AACAATGCATAATTGGCATGAAACGATGACACAAATGAAAATACAT
396788 AAC
1 AAC
396791 GGTGTATTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (46 bp):
AACAATGCATAATTGGCATGAAACGATGACACAAATGAAAATACAT
Found at i:398463 original size:46 final size:46
Alignment explanation
Indices: 398369--398463 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 46
398359 TTAGATGATG
* * * **
398369 AACAATGCATAGTTGGCATGAAACGATGCCATAAATGAAAATGTAT
1 AACAATGCATAATTGGCATGAAACGATGACACAAATGAAAATACAT
* * * *
398415 AACAGTGCATAATTGGCTTGAAAGGATGACACAAATGACAATACAT
1 AACAATGCATAATTGGCATGAAACGATGACACAAATGAAAATACAT
398461 AAC
1 AAC
398464 GGTGTATTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (46 bp):
AACAATGCATAATTGGCATGAAACGATGACACAAATGAAAATACAT
Found at i:399101 original size:13 final size:13
Alignment explanation
Indices: 399060--399101 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
399050 TGCGTCTTAA
399060 ATTTATGACGCGC
1 ATTTATGACGCGC
* *
399073 ATATATGACACGC
1 ATTTATGACGCGC
*
399086 ATTTATGACGCTC
1 ATTTATGACGCGC
399099 ATT
1 ATT
399102 GCACGTCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:401944 original size:45 final size:45
Alignment explanation
Indices: 401855--401944 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
401845 ATGATGAACA
* * * **
401855 ATGCATAGTTGGCATGAAACGATGCCATAAATGAAAATGTATAAC
1 ATGCATAATTGGCATGAAACGATGACACAAATGAAAATACATAAC
* * *
401900 ATGCATAATTGGCTTGAAAGGATGACACAAATGACAATACATAAC
1 ATGCATAATTGGCATGAAACGATGACACAAATGAAAATACATAAC
401945 GTGTATTAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.23
Consensus pattern (45 bp):
ATGCATAATTGGCATGAAACGATGACACAAATGAAAATACATAAC
Found at i:402555 original size:23 final size:23
Alignment explanation
Indices: 402525--402580 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
402515 TGTGTCTTAA
402525 ATTTATGACGCGCATATACACG-C
1 ATTTATGACGCGCAT-TACACGTC
* *
402548 ATTTATGACGCTCATTGCACGTC
1 ATTTATGACGCGCATTACACGTC
402571 ATTGTATGAC
1 ATT-TATGAC
402581 TTACATTGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 5 0.17
23 18 0.62
24 6 0.21
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (23 bp):
ATTTATGACGCGCATTACACGTC
Found at i:404038 original size:166 final size:164
Alignment explanation
Indices: 403766--404094 Score: 640
Period size: 166 Copynumber: 2.0 Consensus size: 164
403756 CTCACACAAT
403766 AAAACATGTCGTGGATTATGATGGGAGACTTCAACGACATTGCGTCCATAAGGAAGAGGATGATC
1 AAAACATGTCGTGGATTATGATGGGAGACTTCAACGACATTGCGTCCATAAGGAAGAGGATGATC
403831 TAATACATATTACATTGATCGCATAATTCAATTTAGAGAAAGGTGGAACAAATGAATGCAGGCTG
66 TAATACATATTACATTGATCGCATAATTCAATTTAGAGAAAGGTGGAACAAATGAATGCAGGCTG
403896 GATAGGCGCTAAATCCACTTGGATTAGACGTATA
131 GATAGGCGCTAAATCCACTTGGATTAGACGTATA
403930 AAAACATGTCGTGGATTATGATGGGAGACTTCAACGACATTGCGTCCATAGAGGAAAGAGGATGA
1 AAAACATGTCGTGGATTATGATGGGAGACTTCAACGACATTGCGTCCATA-AGG-AAGAGGATGA
403995 TCTAATACATATTACATTGATCGCATAATTCAATTTAGAGAAAGGTGGAACAAATGAATGCAGGC
64 TCTAATACATATTACATTGATCGCATAATTCAATTTAGAGAAAGGTGGAACAAATGAATGCAGGC
404060 TGGATAGGCGCTAAATCCACTTGGATTAGACGTAT
129 TGGATAGGCGCTAAATCCACTTGGATTAGACGTAT
404095 CTAGGGCAAC
Statistics
Matches: 163, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
164 50 0.31
165 3 0.02
166 110 0.67
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (164 bp):
AAAACATGTCGTGGATTATGATGGGAGACTTCAACGACATTGCGTCCATAAGGAAGAGGATGATC
TAATACATATTACATTGATCGCATAATTCAATTTAGAGAAAGGTGGAACAAATGAATGCAGGCTG
GATAGGCGCTAAATCCACTTGGATTAGACGTATA
Found at i:416113 original size:3 final size:3
Alignment explanation
Indices: 416105--416130 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
416095 GAATAGGGAT
416105 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
416131 CATACTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:417344 original size:17 final size:17
Alignment explanation
Indices: 417322--417365 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
417312 GGTGGAGTAT
*
417322 TAGTACATAGCATAAAC
1 TAGTACATAGCATAAAA
417339 TAGTACATAGCATAAAA
1 TAGTACATAGCATAAAA
417356 TAGTACATAG
1 TAGTACATAG
417366 TGCAAAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.25
Consensus pattern (17 bp):
TAGTACATAGCATAAAA
Found at i:418845 original size:14 final size:14
Alignment explanation
Indices: 418815--418854 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
418805 ACATGTTTCA
418815 TATTTTAA-TTTGG
1 TATTTTAATTTTGG
*
418828 TATTTTAATTTTGT
1 TATTTTAATTTTGG
418842 TATTTTATATTTT
1 TATTTTA-ATTTT
418855 AGTCACTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.33
14 11 0.46
15 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (14 bp):
TATTTTAATTTTGG
Found at i:424590 original size:78 final size:78
Alignment explanation
Indices: 424438--424728 Score: 343
Period size: 79 Copynumber: 3.7 Consensus size: 78
424428 TACAACTTAC
* * * * *
424438 AATGGTGGGCCATTATAAAGGCTCATTTAAGACAAAAATGATCTAACCGGGTATTTGGAACAATC
1 AATGGTGGGGCATTTTAAA-GCCCATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAATC
424503 ATATCAGCATGAAG
65 ATATCAGCATGAAG
*
424517 AATGTTGGGGCATTTTAAAGCCCATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAATCA
1 AATGGTGGGGCATTTTAAAGCCCATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAATCA
424582 TATCAGCATGAAG
66 TATCAGCATGAAG
**** * *
424595 AAT-GTTAAACAATTTTGAAGACCCATTTAAGACAAAAAGGATCCAACCGGGTATTTTGAACAAT
1 AATGGTGGGGC-ATTTTAAAG-CCCATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAAT
*
424659 CACATCAGCATGAAG
64 CATATCAGCATGAAG
* * * * * * *
424674 AAAGGTGGGGCATGCTGAAGGCCCATTTCAGACAAAAATGAT-TCAAACGGGTATT
1 AATGGTGGGGCAT-TTTAAAGCCCATTTAAGACAAAAAGGATCT-AACCGGGTATT
424729 CCGAACATTC
Statistics
Matches: 180, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
77 2 0.01
78 67 0.37
79 105 0.58
80 6 0.03
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (78 bp):
AATGGTGGGGCATTTTAAAGCCCATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAATCA
TATCAGCATGAAG
Found at i:424649 original size:79 final size:78
Alignment explanation
Indices: 424461--424675 Score: 333
Period size: 78 Copynumber: 2.7 Consensus size: 78
424451 TATAAAGGCT
* * **
424461 CATTTAAGACAAAAATGATCTAACCGGGTATTTGGAACAATCATATCAGCATGAAGAATGTTGGG
1 CATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAATCATATCAGCATGAAGAATGTTGAA
*
424526 GCATTTTAAAGCC
66 ACATTTTAAAGCC
424539 CATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAATCATATCAGCATGAAGAATGTT-AA
1 CATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAATCATATCAGCATGAAGAATGTTGAA
*
424603 ACAATTTTGAAGACC
66 AC-ATTTTAAAG-CC
* *
424618 CATTTAAGACAAAAAGGATCCAACCGGGTATTTTGAACAATCACATCAGCATGAAGAA
1 CATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAATCATATCAGCATGAAGAA
424676 AGGTGGGGCA
Statistics
Matches: 127, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
77 1 0.01
78 68 0.54
79 58 0.46
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (78 bp):
CATTTAAGACAAAAAGGATCTAACCGGGTATTTTGAACAATCATATCAGCATGAAGAATGTTGAA
ACATTTTAAAGCC
Found at i:426425 original size:90 final size:94
Alignment explanation
Indices: 426127--426557 Score: 508
Period size: 95 Copynumber: 4.6 Consensus size: 94
426117 TTTCACAGAA
** * * *
426127 AATAGTGGAAAAGATTTTTTAGCTAAGTATCAAA-CTTCACGGAAGAGT-GATGAAGCAGAAAGC
1 AATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAG-TGAAGCA-AAAGC
** * * * * *
426190 AAGAACCCAGATAAA-ATTCAGTTTTCACGGAAG
64 AA-ATTCAACATAAATA-TGA-TCTCCACGGAAG
* *
426223 AGTAGTGGAA-GGATTTTTCAGC-AAGTAAGAAATCTTCACGGAA-AGTAGTGAAGCAAAAGC-A
1 AATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGCAAAAGCAA
*
426284 ATTCAATCATAAATCTGATCTCCACGGAAG
66 ATTCAA-CATAAATATGATCTCCACGGAAG
*
426314 AATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTGGTGAAGC-AAAGCAA
1 AATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGCAAAAGCAA
* *
426378 ATTC-A-A-AAATATGATATCCATGGAAG
66 ATTCAACATAAATATGATCTCCACGGAAG
* *
426404 AATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACAGAAGAGTAGTGAAGCAAAAGAAA
1 AATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGCAAAAGCAA
426469 ATTCAATCATAAATATGATCTCCACGGAAG
66 ATTCAA-CATAAATATGATCTCCACGGAAG
* * *
426499 AATAGTGGAACGGATTTTTCAGCAAAGTATGATATCTACATGGAAGAGTAGTGAA-CAAA
1 AATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGCAAA
426558 TCCAAGTTTG
Statistics
Matches: 294, Mismatches: 28, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
90 72 0.24
91 33 0.11
92 21 0.07
93 31 0.11
94 38 0.13
95 90 0.31
96 9 0.03
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (94 bp):
AATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGCAAAAGCAA
ATTCAACATAAATATGATCTCCACGGAAG
Found at i:426490 original size:185 final size:180
Alignment explanation
Indices: 426218--426557 Score: 554
Period size: 185 Copynumber: 1.9 Consensus size: 180
426208 CAGTTTTCAC
* * *
426218 GGAAGAGTAGTGGAAGGATTTTTCAGCAAGTAAGAAATCTTCACGGAAAGTAGTGAAGCAAAAGC
1 GGAAGAATAGTGGAAGGATTTTTCAGCAAGTAAGAAATCTTCACAGAAAGTAGTGAAGCAAAAGA
*
426283 AATTCAATCATAAATCTGATCTCCACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAA
66 AATTCAATCATAAATATGATCTCCACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAA
* *
426348 TCTTCACGGAAGAGTGGTGAAGCAAAGCAAATTCAAAAATATGATATCCAT
131 TCTACACGGAAGAGTAGTGAA-CAAAGCAAATTCAAAAATATGATATCCAT
*
426399 GGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACAGAAGAGTAGTGAAGCAAA
1 GGAAGAATAGTGGAA-GGATTTTTCAGC-AAGTAAGAAATCTTCACAGAA-AGTAGTGAAGCAAA
426464 AGAAAATTCAATCATAAATATGATCTCCACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTAT
63 AG-AAATTCAATCATAAATATGATCTCCACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTAT
* *
426529 GATATCTACATGGAAGAGTAGTGAACAAA
127 GAAATCTACACGGAAGAGTAGTGAACAAA
426558 TCCAAGTTTG
Statistics
Matches: 146, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
181 14 0.10
182 12 0.08
183 19 0.13
184 20 0.14
185 81 0.55
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (180 bp):
GGAAGAATAGTGGAAGGATTTTTCAGCAAGTAAGAAATCTTCACAGAAAGTAGTGAAGCAAAAGA
AATTCAATCATAAATATGATCTCCACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAA
TCTACACGGAAGAGTAGTGAACAAAGCAAATTCAAAAATATGATATCCAT
Found at i:426547 original size:95 final size:94
Alignment explanation
Indices: 426215--426557 Score: 506
Period size: 90 Copynumber: 3.7 Consensus size: 94
426205 ATTCAGTTTT
* *
426215 CACGGAAGAGTAGTGGAA-GGATTTTTCAGC-AAGTAAGAAATCTTCACGGAA-AGTAGTGAAGC
1 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
* *
426277 AAAAGCAATTCAATCATAAATCTGATCTC
66 AAAAGAAATTCAATCATAAATATGATCTC
*
426306 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTGGTGAAGC
1 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
*
426371 -AAAGCAAATTC-A--A-AAATATGATATC
66 AAAAG-AAATTCAATCATAAATATGATCTC
* *
426396 CATGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACAGAAGAGTAGTGAAGC
1 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
426461 AAAAGAAAATTCAATCATAAATATGATCTC
66 AAAAG-AAATTCAATCATAAATATGATCTC
* * *
426491 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGATATCTACATGGAAGAGTAGTGAA-C
1 CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
426555 AAA
66 AAA
426558 TCCAAGTTTG
Statistics
Matches: 227, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
90 72 0.32
91 28 0.12
92 13 0.06
93 25 0.11
94 20 0.09
95 69 0.30
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (94 bp):
CACGGAAGAATAGTGGAACGGATTTTTCAGCAAAGTATGAAATCTTCACGGAAGAGTAGTGAAGC
AAAAGAAATTCAATCATAAATATGATCTC
Found at i:426717 original size:36 final size:36
Alignment explanation
Indices: 426670--426766 Score: 158
Period size: 36 Copynumber: 2.7 Consensus size: 36
426660 CAAAGTATGA
426670 AGCCTTCATGAAAGAGTAATGAAGTCATGCAAATTC
1 AGCCTTCATGAAAGAGTAATGAAGTCATGCAAATTC
*
426706 AGCCTTCATGAAAGAGTAATAAAGTCATGCAAATTC
1 AGCCTTCATGAAAGAGTAATGAAGTCATGCAAATTC
* * *
426742 AGCCTTCACGGAAGAGTAGTGAAGT
1 AGCCTTCATGAAAGAGTAATGAAGT
426767 AAATCATTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (36 bp):
AGCCTTCATGAAAGAGTAATGAAGTCATGCAAATTC
Found at i:432484 original size:53 final size:53
Alignment explanation
Indices: 432402--432512 Score: 186
Period size: 53 Copynumber: 2.1 Consensus size: 53
432392 ACTAAGGTAA
* *
432402 CGAAATGGTAATTCACAAACTCATCATGAATACCATGGGTTCACACATAGTGT
1 CGAAATGGTAATTCAAAAACTCATCATGAATACCATGGGTGCACACATAGTGT
* *
432455 CGAAATGGTAATTCAAAAACTCATTATGAATACCATGGGTGCACACATAGTTT
1 CGAAATGGTAATTCAAAAACTCATCATGAATACCATGGGTGCACACATAGTGT
432508 CGAAA
1 CGAAA
432513 GTACATATAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (53 bp):
CGAAATGGTAATTCAAAAACTCATCATGAATACCATGGGTGCACACATAGTGT
Found at i:437435 original size:53 final size:53
Alignment explanation
Indices: 437354--437463 Score: 175
Period size: 53 Copynumber: 2.1 Consensus size: 53
437344 CTAAGGTAAT
*
437354 GAAATGGTAATTCACAAACTCATAATGAATACCATGGGTTCACACATAGTGTC
1 GAAATGGTAATTCACAAACTCATAATGAATACCATGGGTGCACACATAGTGTC
* * * *
437407 GAAATGGTAATTCACAAAGTCATTATGAATACCATGGGTGCACACGTAGTTTC
1 GAAATGGTAATTCACAAACTCATAATGAATACCATGGGTGCACACATAGTGTC
437460 GAAA
1 GAAA
437464 GTACATATAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (53 bp):
GAAATGGTAATTCACAAACTCATAATGAATACCATGGGTGCACACATAGTGTC
Found at i:439390 original size:21 final size:21
Alignment explanation
Indices: 439366--439411 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
439356 ATCGAGTAAA
439366 AGATAAAGTACATTGA-TAAGT
1 AGATAAAGTAC-TTGAGTAAGT
* *
439387 AGATGAAGTACTTTAGTAAGT
1 AGATAAAGTACTTGAGTAAGT
439408 AGAT
1 AGAT
439412 GAGGTACCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.43, C:0.04, G:0.22, T:0.30
Consensus pattern (21 bp):
AGATAAAGTACTTGAGTAAGT
Found at i:439412 original size:21 final size:21
Alignment explanation
Indices: 439382--439428 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
439372 AGTACATTGA
*
439382 TAAGTAGATGAAGTACTTTAG
1 TAAGTAGATGAAGTACCTTAG
* *
439403 TAAGTAGATGAGGTACCTTCG
1 TAAGTAGATGAAGTACCTTAG
439424 TAAGT
1 TAAGT
439429 TTCTCTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.32
Consensus pattern (21 bp):
TAAGTAGATGAAGTACCTTAG
Found at i:447218 original size:37 final size:37
Alignment explanation
Indices: 447124--447228 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
447114 CATTTTCATC
*
447124 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
447161 TTGCTAGGATTCAAATTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
447198 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
447229 CCACAAGCAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:447630 original size:2 final size:2
Alignment explanation
Indices: 447623--447652 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
447613 TAACCCTTAT
447623 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
447653 TTTATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:447657 original size:7 final size:7
Alignment explanation
Indices: 447620--447679 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 7
447610 ATTTAACCCT
447620 TATTATA
1 TATTATA
447627 TA-TATA
1 TATTATA
447633 TA-TATA
1 TATTATA
447639 TA-TATA
1 TATTATA
447645 TATTATA
1 TATTATA
*
447652 TTTTATTA
1 TATTA-TA
*
447660 TATTTTA
1 TATTATA
*
447667 T-TTATT
1 TATTATA
447673 TATTATA
1 TATTATA
447680 ATTTGTTTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
6 22 0.50
7 17 0.39
8 5 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATTATA
Found at i:447658 original size:10 final size:10
Alignment explanation
Indices: 447645--447679 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
447635 TATATATATA
447645 TATTATATTT
1 TATTATATTT
447655 TATTATATTT
1 TATTATATTT
447665 TATT-TA-TT
1 TATTATATTT
447673 TATTATA
1 TATTATA
447680 ATTTGTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.25
9 4 0.17
10 14 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TATTATATTT
Found at i:447968 original size:18 final size:17
Alignment explanation
Indices: 447945--447982 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
447935 ATTATACATA
447945 TATTTTTATATATTTT-TT
1 TATTTTT-T-TATTTTATT
447963 TATTTTTTTATTTTATT
1 TATTTTTTTATTTTATT
447980 TAT
1 TAT
447983 ACTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 6 0.32
18 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTTATTTTATT
Found at i:447981 original size:9 final size:9
Alignment explanation
Indices: 447948--447997 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 9
447938 ATACATATAT
*
447948 TTTTATATA
1 TTTTATTTA
447957 TTTT-TTTA
1 TTTTATTTA
447965 TTTT-TTTA
1 TTTTATTTA
447973 TTTTATTTA
1 TTTTATTTA
**
447982 TACTATTTA
1 TTTTATTTA
447991 -TTTATTT
1 TTTTATTT
447998 TCATTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
8 20 0.57
9 15 0.43
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATTTA
Found at i:448004 original size:22 final size:22
Alignment explanation
Indices: 447895--447998 Score: 65
Period size: 22 Copynumber: 4.6 Consensus size: 22
447885 TTTATTTTTC
447895 ATTTATTTATTATTATTGT-TACT
1 ATTTATTTATT-TTATT-TATACT
447918 ATTTAGTATT-TTATTATATTATACAT
1 ATTTA-T-TTATT-TTAT-TTATAC-T
* **
447944 ATATT-TTTA-TATATTT-TTTT
1 AT-TTATTTATTTTATTTATACT
*
447964 ATTTTTTTATTTTATTTATACT
1 ATTTATTTATTTTATTTATACT
447986 ATTTATTTATTTT
1 ATTTATTTATTTT
447999 CATTATTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 21
0.70 0.08 0.23
Matches are distributed among these distances:
19 2 0.03
20 7 0.11
21 7 0.11
22 16 0.25
23 8 0.12
24 12 0.19
25 7 0.11
26 3 0.05
27 2 0.03
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (22 bp):
ATTTATTTATTTTATTTATACT
Done.