Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 85 of 325
Found at i:24360650 original size:3 final size:3
Alignment explanation
Indices: 24360642--24360681 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
24360632 GTATTTTTAC
24360642 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24360682 TATATTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24361003 original size:2 final size:2
Alignment explanation
Indices: 24360996--24361039 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
24360986 CAATATTTAT
* *
24360996 TA TA TA TA TA TA TG TA TA TA TA TA TA TG TA TA TA T- 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
24361037 TA T
1 TA T
24361040 TTTAACATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24361015 original size:14 final size:14
Alignment explanation
Indices: 24360996--24361037 Score: 75
Period size: 14 Copynumber: 2.9 Consensus size: 14
24360986 CAATATTTAT
24360996 TATATATATATATG
1 TATATATATATATG
24361010 TATATATATATATG
1 TATATATATATATG
24361024 TATATATTATATAT
1 TATATA-TATATAT
24361038 ATTTTAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (14 bp):
TATATATATATATG
Found at i:24373685 original size:74 final size:74
Alignment explanation
Indices: 24373053--24374100 Score: 1011
Period size: 72 Copynumber: 13.9 Consensus size: 74
24373043 TTCTATTTTC
* * * ** *
24373053 AAAATTCAACTTATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAACTTT-TATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA-TTTCAATTT
* *
24373117 CTATTTTC--
65 TTGTTTTCAA
* * *
24373125 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
24373190 TGTTTTC--
66 TGTTTTCAA
* * * *
24373197 AAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT-
24373262 TAT-TTTTCAAAAAAA
65 T-TGTTTTC-----AA
** * *
24373277 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
24373342 TGTTTTC--
66 TGTTTTCAA
* * * * * *
24373349 AAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
24373414 TGTTTTC--
66 TGTTTTCAA
** *
24373421 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACATGCTGAGG-AATTTTCAA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTAA-TTTCAA
* *
24373484 TTTCTATCTTTCAAAA
62 TTTTTGT-TTTC--AA
* ** * * *
24373500 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGT-ATTGGCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATT-TCAATTT
*
24373564 TTGTTTCTTAA
65 TTGTTT-TCAA
*
24373575 TTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 ---A------AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA
*
24373640 TTTCAATTTCTGTTTTCAA
56 TTTCAATTTTTGTTTTCAA
* *
24373659 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
24373724 TGTCTTTCAA
66 TGT-TTTCAA
** * * *
24373734 AAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGT-ATTGGCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATT-TCAATTT
*
24373796 TTGTTTCTTAA
65 TTGTTT-TCAA
*
24373807 TTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 ---A------AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA
* *
24373872 TTTCAATTTCTGTTTTAAA
56 TTTCAATTTTTGTTTTCAA
* * *
24373891 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
24373956 TGTCTTTCAA
66 TGT-TTTCAA
* ** *
24373966 AAAAATCAACTC--ATTACGAGAGGTGAGTTGAGCCTCAAGACGCGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
24374029 TGTTTTTC--
66 TG-TTTTCAA
** * * * *
24374037 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
24374101 CTGCTTTCCA
Statistics
Matches: 831, Mismatches: 90, Indels: 109
0.81 0.09 0.11
Matches are distributed among these distances:
71 17 0.02
72 223 0.27
73 149 0.18
74 139 0.17
75 49 0.06
76 5 0.01
77 19 0.02
78 2 0.00
79 42 0.05
80 59 0.07
81 2 0.00
82 4 0.00
83 7 0.01
84 10 0.01
85 98 0.12
86 6 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
TGTTTTCAA
Found at i:24373711 original size:159 final size:150
Alignment explanation
Indices: 24373053--24374108 Score: 1005
Period size: 152 Copynumber: 7.0 Consensus size: 150
24373043 TTCTATTTTC
* * * ** *
24373053 AAAATTCAACTTATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAACTTT-TATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA-TTTCAATTT
* * * * *
24373117 CT-ATTTT--CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
65 TTGTTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
24373179 ATTTCAATTTCTGT-TTTC--
130 ATTTCAATTTCTGTCTTTCAA
* * * * *
24373197 AAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
* ** *
24373262 TATTTTTCAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
66 TGTTTTT-----AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGA
24373327 GGTAATTTCAATTTCTGT-TTTC--
126 GGTAATTTCAATTTCTGTCTTTCAA
* * * * * *
24373349 AAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
* ** *
24373414 TG-TTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACATGCTGAGG
66 TGTTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGG
*
24373475 -AATTTTCAATTTCTATCTTTCAAAA
128 TAA-TTTCAATTTCTGTCTTTC--AA
* ** * * *
24373500 AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGT-ATTGGCAATTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATT-TCAATTT
*
24373564 TTGTTTCTTAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
65 TTGTTT-TTAA---A------AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
24373629 CGTTGAGGTAATTTCAATTTCTGT-TTTCAA
120 CGCTGAGGTAATTTCAATTTCTGTCTTTCAA
* *
24373659 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
* * ** * *
24373724 TGTCTTTCAAAAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGT-A
66 TGTTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA
* * *
24373786 TTGGCAATTTTTGT-TTCTTAA
131 TT-TCAATTTCTGTCTT-TCAA
*
24373807 TTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 ---A------AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA
* * *
24373872 TTTCAATTTCTG-TTTTAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACAT
56 TTTCAATTTTTGTTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
* *
24373936 GCTGAGGTATTTTCAATTTTTGTCTTTCAA
121 GCTGAGGTAATTTCAATTTCTGTCTTTCAA
* ** *
24373966 AAAAATCAACTC--ATTACGAGAGGTGAGTTGAGCCTCAAGACGCGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
* ** * * * *
24374029 TGTTTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAGGTAT
66 TGTTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA
24374092 TTTCAATTTCTG-CTTTC
131 TTTCAATTTCTGTCTTTC
24374109 CAATTTCTGC
Statistics
Matches: 766, Mismatches: 94, Indels: 103
0.80 0.10 0.11
Matches are distributed among these distances:
143 4 0.01
144 92 0.12
145 11 0.01
146 84 0.11
147 96 0.13
148 7 0.01
149 18 0.02
150 6 0.01
151 57 0.07
152 129 0.17
153 2 0.00
155 1 0.00
156 1 0.00
157 21 0.03
158 61 0.08
159 106 0.14
160 6 0.01
161 4 0.01
162 21 0.03
163 2 0.00
164 35 0.05
165 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (150 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT
TGTTTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA
TTTCAATTTCTGTCTTTCAA
Found at i:24373781 original size:73 final size:73
Alignment explanation
Indices: 24373585--24374108 Score: 570
Period size: 73 Copynumber: 7.0 Consensus size: 73
24373575 TTTATGTTTC
* * *
24373585 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCA-ATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
24373650 TGTTTTCAA
65 TGTTTTCAA
* *
24373659 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCA-ATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
24373724 TGTCTTTCAA
65 TGT-TTTCAA
** * * ** *
24373734 AAAAATCAACTC-ATTGCGAGAGGTGAGTTGAGCCTCGAGGCACGCTGAGGTATTGGCAATTTTT
1 AAAAATCAACTCAATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
*
24373798 GTTTCTTAA
66 GTTT-TCAA
* *
24373807 TTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 ---A------AAAA-TCAACTCA-ATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAT
*
24373872 TTTCAATTTCTGTTTTAAA
55 TTTCAATTTCTGTTTTCAA
* * *
24373891 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCA-ATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
24373956 TGTCTTTCAA
65 TGT-TTTCAA
* ** * * *
24373966 AAAAATCAACTC-ATTACGAGAGGTGAGTTGAGCCTCAAGACGCGCTGAGGTAATTTCAATTTTT
1 AAAAATCAACTCAATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
24374030 GTTTTTC--
66 G-TTTTCAA
** * * *
24374037 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCA-ATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
24374102 TGCTTTC
65 TGTTTTC
24374109 CAATTTCTGC
Statistics
Matches: 390, Mismatches: 42, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
71 12 0.03
72 6 0.02
73 148 0.38
74 122 0.31
75 39 0.10
76 1 0.00
81 1 0.00
82 4 0.01
83 7 0.02
84 3 0.01
85 47 0.12
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCAATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCT
GTTTTCAA
Found at i:24373842 original size:232 final size:230
Alignment explanation
Indices: 24373121--24374033 Score: 1320
Period size: 232 Copynumber: 4.0 Consensus size: 230
24373111 TTATTTCTAT
24373121 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
* *
24373186 TTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
66 TTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
*
24373251 TTTTCAATTTCTATTTTTCAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-
131 TTTTCAATTTCTATCTTTC----AAAAAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTCG
*
24373315 AGGACACGCTGAGG---T--AA------TTTC--AATTTCTG
190 AGG-CACGCTGAGGTATTGCAATTTTTGTTTCTTAATTTATG
* * *
24373344 TTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACCTCAAGACACGTTGAGGTATTTTCA
1 -TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
* **
24373409 ATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGTTCACATGCTGA
65 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACATGCTGA
*
24373473 GGAATTTTCAATTTCTATCTTTCAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
127 GGTATTTTCAATTTCTATCTTTC-AAAAAAAATCAACTCAT--TGCGAGAGGTGAGTTGAGCCTC
24373538 GAGGCACGCTGAGGTATTGGCAATTTTTGTTTCTTAATTTATG
189 GAGGCACGCTGAGGTATT-GCAATTTTTGTTTCTTAATTTATG
24373581 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
24373646 TTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
66 TTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
* *
24373711 TATTTTCAATTTTTGTCTTTC-AAAAAAATCAACTCATTGCGAGAGGTGAGTTGAGCCTCGAGGC
129 TATTTTCAATTTCTATCTTTCAAAAAAAATCAACTCATTGCGAGAGGTGAGTTGAGCCTCGAGGC
24373775 ACGCTGAGGTATTGGCAATTTTTGTTTCTTAATTTATG
194 ACGCTGAGGTATT-GCAATTTTTGTTTCTTAATTTATG
24373813 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
* *
24373878 TTTCTGTTTTAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
66 TTTCTGTTTT--CAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
* * * * *
24373943 TATTTTCAATTTTTGTCTTTC-AAAAAAATCAACTCATTACGAGAGGTGAGTTGAGCCTCAAGAC
129 TATTTTCAATTTCTATCTTTCAAAAAAAATCAACTCATTGCGAGAGGTGAGTTGAGCCTCGAGGC
* *
24374007 GCGCTGAGGTAATTTCAATTTTTGTTT
194 ACGCTGAGGT-ATTGCAATTTTTGTTT
24374034 TTCAAAAATC
Statistics
Matches: 636, Mismatches: 27, Indels: 44
0.90 0.04 0.06
Matches are distributed among these distances:
221 2 0.00
223 50 0.08
224 109 0.17
226 31 0.05
229 2 0.00
232 273 0.43
233 3 0.00
234 16 0.03
235 4 0.01
236 101 0.16
237 7 0.01
238 36 0.06
239 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (230 bp):
TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
TTTTCAATTTCTATCTTTCAAAAAAAATCAACTCATTGCGAGAGGTGAGTTGAGCCTCGAGGCAC
GCTGAGGTATTGCAATTTTTGTTTCTTAATTTATG
Found at i:24374114 original size:14 final size:15
Alignment explanation
Indices: 24374095--24374123 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24374085 GAGGTATTTT
24374095 CAATTTCTG-CTTTC
1 CAATTTCTGCCTTTC
24374109 CAATTTCTGCCTTTC
1 CAATTTCTGCCTTTC
24374124 AAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.31, G:0.07, T:0.48
Consensus pattern (15 bp):
CAATTTCTGCCTTTC
Found at i:24375533 original size:20 final size:20
Alignment explanation
Indices: 24375508--24375553 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
24375498 GTCCTCCTCC
24375508 CTCTCCCTTCTCTCTTCCTT
1 CTCTCCCTTCTCTCTTCCTT
* * *
24375528 CTCTCCCTTTTTTTTTCCTT
1 CTCTCCCTTCTCTCTTCCTT
24375548 CTCTCC
1 CTCTCC
24375554 TCACCAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (20 bp):
CTCTCCCTTCTCTCTTCCTT
Found at i:24376403 original size:19 final size:19
Alignment explanation
Indices: 24376379--24376415 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24376369 TTCTATATTA
*
24376379 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
24376398 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
24376416 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:24376476 original size:3 final size:3
Alignment explanation
Indices: 24376150--24376459 Score: 189
Period size: 3 Copynumber: 101.7 Consensus size: 3
24376140 TGAATTTCTA
* * * *
24376150 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * *
24376198 TAT TAT T-T ATAC TA- TACT TAA TAT CAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
24376243 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
24376291 TA- TATT TAC TAT TAT TATT TAT AAA TAT TAGT GTA- TAT T-T TAT T-T
1 TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT TAT TAT
* *
24376336 TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA- TAT
1 TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT TAT
* * * *
24376377 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* *
24376425 TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TA
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA
24376460 CATTTACTGT
Statistics
Matches: 241, Mismatches: 34, Indels: 64
0.71 0.10 0.19
Matches are distributed among these distances:
2 24 0.10
3 186 0.77
4 27 0.11
5 4 0.02
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:24376654 original size:3 final size:3
Alignment explanation
Indices: 24376648--24376686 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
24376638 CTATTATTGC
* *
24376648 TAT TAT TGT TAT TAT TAT TAT TAT TAT ATAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA
24376687 ATAGGTACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:24376988 original size:2 final size:2
Alignment explanation
Indices: 24376981--24377036 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
24376971 CAATATTTAT
* *
24376981 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24377023 TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA T
24377037 TTTAACATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24378379 original size:37 final size:37
Alignment explanation
Indices: 24378325--24378397 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
24378315 AAATAGAATC
*
24378325 TTGAACCATCAACCTTGTTGAATTGCTCGCTAAGATA
1 TTGAACCATCAACCTTGTTGAATCGCTCGCTAAGATA
* *
24378362 TTGAACTATCAATCTTGTTGAATCGCTCGCTAAGAT
1 TTGAACCATCAACCTTGTTGAATCGCTCGCTAAGAT
24378398 CTTGCCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (37 bp):
TTGAACCATCAACCTTGTTGAATCGCTCGCTAAGATA
Found at i:24380164 original size:2 final size:2
Alignment explanation
Indices: 24380157--24380189 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
24380147 AGGATAATGT
24380157 TA TA TA 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 TA TA TA T
24380190 GGCAACATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24383719 original size:19 final size:18
Alignment explanation
Indices: 24383692--24383732 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
24383682 AATTAAAAAA
24383692 TAAAAA-TTTAATTAGTTT
1 TAAAAATTTTAATTA-TTT
24383710 TAAAATATTTTAATTATTT
1 TAAAA-ATTTTAATTATTT
24383729 TAAA
1 TAAA
24383733 TTAAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TAAAAATTTTAATTATTT
Found at i:24384047 original size:2 final size:2
Alignment explanation
Indices: 24384040--24384074 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24384030 CTATACTAGG
24384040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24384075 GTCCACATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24390932 original size:230 final size:231
Alignment explanation
Indices: 24390507--24390948 Score: 543
Period size: 230 Copynumber: 1.9 Consensus size: 231
24390497 AATAATATAG
* * * *
24390507 ATATACAACTGATGGAAGTAATAAGGTGTATATAGTAAGATTAAAATGTGTAAAAATTTAAAATA
1 ATATACAACTGATGGAAGTAATAAGGTGCATATAGTAAAATTAAAATGTGCAAAAATTAAAAATA
** ** * *
24390572 AAGTTTTTAGTTCAATGGTATTATAAAAGTTTTATCAATGTAATCAATGTAGGTTCAAATCCCAT
66 AAGTTTTTAACTCAATGGTAAAATAAAAGTTTTATCAATGCAATCAATGTAGGTTCAAATCCCAC
* * *
24390637 TATATGCATATTTTTATTGGTTTTTCTTAAAGTGAAGAGACTAAGATACCCTTAAACAGTATTAC
131 CATATGCATATTTTTATTGGTTTTTCTTAAAGTGAAGAGACTAAGATACCCTCAAACAATATTAC
24390702 TTATTTGAATTATGAAAAAAAGGAAAGTATAGATAA
196 TTATTTGAATTATGAAAAAAAGGAAAGTATAGATAA
* * *
24390738 ATATACAAGTGATGGAGGTAATAAATGTGCATA-A-TAAAATTAAAATGTGCAAAAATATAAAAA
1 ATATACAACTGATGGAAGTAAT-AAGGTGCATATAGTAAAATTAAAATGTGCAAAAAT-TAAAAA
* * * *** * *
24390801 TAAAG-TTTTAACTCAATGGTAAAATAAATGTTTTATTATTGCAATTGGTGTGGGTTTAAATCCC
64 TAAAGTTTTTAACTCAATGGTAAAATAAAAGTTTTATCAATGCAATCAATGTAGGTTCAAATCCC
* * * * *
24390865 ACCATATGCATTTTTTTTTTTGTTTTTCTTAAAGTGATA-AGACTAA-ACTATCCTCAAATAATA
129 ACCATATGCATATTTTTATTGGTTTTTCTTAAAGTGA-AGAGACTAAGA-TACCCTCAAACAATA
*
24390928 TTACTTATTTTAATTATGAAA
192 TTACTTATTTGAATTATGAAA
24390949 GGGCATTCTT
Statistics
Matches: 177, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
229 1 0.01
230 136 0.77
231 32 0.18
232 8 0.05
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (231 bp):
ATATACAACTGATGGAAGTAATAAGGTGCATATAGTAAAATTAAAATGTGCAAAAATTAAAAATA
AAGTTTTTAACTCAATGGTAAAATAAAAGTTTTATCAATGCAATCAATGTAGGTTCAAATCCCAC
CATATGCATATTTTTATTGGTTTTTCTTAAAGTGAAGAGACTAAGATACCCTCAAACAATATTAC
TTATTTGAATTATGAAAAAAAGGAAAGTATAGATAA
Found at i:24399246 original size:22 final size:23
Alignment explanation
Indices: 24399216--24399264 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
24399206 AAAAGCTATC
24399216 TACAAAATCAAATC-ACTAAGAT
1 TACAAAATCAAATCTACTAAGAT
* * *
24399238 TACAGAATCATATCTTCTAAGAT
1 TACAAAATCAAATCTACTAAGAT
24399261 TACA
1 TACA
24399265 TATCTTCGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (23 bp):
TACAAAATCAAATCTACTAAGAT
Found at i:24399266 original size:17 final size:17
Alignment explanation
Indices: 24399246--24399280 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24399236 ATTACAGAAT
*
24399246 CATATCTTCTAAGATTA
1 CATATCTTCGAAGATTA
24399263 CATATCTTCGAAGATTA
1 CATATCTTCGAAGATTA
24399280 C
1 C
24399281 GCTCTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (17 bp):
CATATCTTCGAAGATTA
Found at i:24402969 original size:48 final size:47
Alignment explanation
Indices: 24402913--24403123 Score: 176
Period size: 48 Copynumber: 4.4 Consensus size: 47
24402903 TTATGAGAGC
*
24402913 CAGTGTAAGACCGTGTCTAGGACATGGCATAAGCCTCGAGATGTGAGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATAAGCCTCGA-ATGTGAGT
* * *
24402961 CAGTGTAAGACCATGTCTAGGACATGGCATCAGCAC-GGATATGTGAGAA
1 CAGTGTAAGACCATGTCTAGGACATGGCATAAGC-CTCGA-ATGTGAG-T
* * * ** *
24403010 CTAGTGTAAGACCATGTTTGGGACATGGCGTTGGCCTCGATTGTGATAGT
1 C-AGTGTAAGACCATGTCTAGGACATGGCATAAGCCTCGAATGTG--AGT
* * * * * *
24403060 CAGTGTAAGACCATGTTTGGGACATGGCAT-CGACTTG-ATGTATGGGT
1 CAGTGTAAGACCATGTCTAGGACATGGCATAAGCCTCGAATG--TGAGT
24403107 CAGTGTAAGACCATGTC
1 CAGTGTAAGACCATGTC
24403124 CGGGGAATGG
Statistics
Matches: 135, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
47 20 0.15
48 45 0.33
49 37 0.27
50 31 0.23
51 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATAAGCCTCGAATGTGAGT
Found at i:24403037 original size:50 final size:49
Alignment explanation
Indices: 24402914--24403090 Score: 180
Period size: 48 Copynumber: 3.6 Consensus size: 49
24402904 TATGAGAGCC
* * * *
24402914 AGTGTAAGACCGTGTCTAGGACATGGCATAAGCCTCGAGATGTGAGTC-
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGATATGTGAGACT
*
24402962 AGTGTAAGACCATGTCTAGGACATGGCATCAGCAC-GGATATGTGAGAACT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGC-CTCGATATGTGAG-ACT
* * * ** * *
24403012 AGTGTAAGACCATGTTTGGGACATGGCGTTGGCCTCGAT-TGTGATAGT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGATATGTGAGACT
* *
24403060 CAGTGTAAGACCATGTTTGGGACATGGCATC
1 -AGTGTAAGACCATGTCTAGGACATGGCATC
24403091 GACTTGATGT
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
48 42 0.39
49 36 0.33
50 31 0.28
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGATATGTGAGACT
Found at i:24406403 original size:15 final size:16
Alignment explanation
Indices: 24406373--24406412 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
24406363 GTATCGTATT
24406373 TTGGATTTC-TCTATC
1 TTGGATTTCTTCTATC
24406388 TTGGATTTCTTC-ATC
1 TTGGATTTCTTCTATC
*
24406403 -TGGGTTTCTT
1 TTGGATTTCTT
24406413 TGTCATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 12 0.52
16 2 0.09
ACGTcount: A:0.10, C:0.17, G:0.17, T:0.55
Consensus pattern (16 bp):
TTGGATTTCTTCTATC
Found at i:24431062 original size:25 final size:24
Alignment explanation
Indices: 24431017--24431071 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
24431007 AAACATTAAA
*
24431017 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATACTAAGATAAT-AC
*
24431042 TTTAATATTAA-ACTAATATAATAC
1 TTTAAT-TTAATACTAAGATAATAC
24431066 TATTAA
1 T-TTAA
24431072 GATAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTAATTTAATACTAAGATAATAC
Found at i:24431643 original size:13 final size:13
Alignment explanation
Indices: 24431625--24431649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24431615 TTTTTCAAGA
24431625 AAATTCTTTAATC
1 AAATTCTTTAATC
24431638 AAATTCTTTAAT
1 AAATTCTTTAAT
24431650 TGAACAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:24432754 original size:15 final size:15
Alignment explanation
Indices: 24432730--24432759 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24432720 TATGCATGCA
*
24432730 AAATATAAAAGACAT
1 AAATACAAAAGACAT
24432745 AAATACAAAAGACAT
1 AAATACAAAAGACAT
24432760 GATAGTGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:24434784 original size:40 final size:40
Alignment explanation
Indices: 24434747--24434932 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
24434737 GCTACTCGTT
24434747 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATT-TAGTAACTCGCA
*
24434787 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* * * *
24434827 CAAATGCCTTC-AGATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * * * * *
24434867 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
*
24434908 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
24434933 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.02
40 116 0.89
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:24434926 original size:80 final size:80
Alignment explanation
Indices: 24434747--24434930 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 80
24434737 GCTACTCGTT
* *
24434747 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
24434812 ATTTAGTAACTCGCA
66 ATATAGTAACTAGCA
* * * *
24434827 CAAATGCCTTC-AGATCTTAGTCCGAATT-TAGTAACTCGCACGAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAGCCCG-ATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCC
*
24434889 CGGATATAGTCACTTAGCA
63 CGGATATAGTAAC-TAGCA
24434908 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
24434931 GACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
79 5 0.06
80 71 0.81
81 12 0.14
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATATAGTAACTAGCA
Found at i:24441916 original size:39 final size:40
Alignment explanation
Indices: 24441807--24441991 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
24441797 GCTACTCGTT
* *
24441807 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
*
24441847 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
*
24441887 CAAATGCCTTC-GATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * * *
24441926 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
24441967 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
24441992 CATCATTCGA
Statistics
Matches: 130, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.25
40 83 0.64
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:24447311 original size:101 final size:101
Alignment explanation
Indices: 24447087--24447312 Score: 276
Period size: 101 Copynumber: 2.2 Consensus size: 101
24447077 AATTGAAGGA
* * * * *
24447087 TAAGACCATGGTTGGACCATGCCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGAATTTTAA
1 TAAGACCATGGTAGGACCATGGCAGTATTTATATGTAAGACCATAGCTAGGCTATGGAATTCTAA
* * *
24447152 TGAAAAGACCATAGCCGGGTTATGGCACCTTGAATG
66 TGAAAAGACCATAACCGAGTTATGGCACCTCGAATG
* * *
24447188 TGAGACCATGG-ATGGACTATGGCAGTATTTATATGTAAGACCATAGCTAGGCTATGGCATTCTA
1 TAAGACCATGGTA-GGACCATGGCAGTATTTATATGTAAGACCATAGCTAGGCTATGGAATTCTA
* * **
24447252 ATGATAAGACGATAATTGAGTTATGGCA-CTACGAATG
65 ATGAAAAGACCATAACCGAGTTATGGCACCT-CGAATG
*
24447289 TAAGACCATGGTAGGGCCATGGCA
1 TAAGACCATGGTAGGACCATGGCA
24447313 ATGAATGTGT
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
100 2 0.02
101 101 0.97
102 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTAGGACCATGGCAGTATTTATATGTAAGACCATAGCTAGGCTATGGAATTCTAA
TGAAAAGACCATAACCGAGTTATGGCACCTCGAATG
Found at i:24449526 original size:42 final size:42
Alignment explanation
Indices: 24449474--24449625 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 42
24449464 ATGAAAAAAT
* * *
24449474 CGCCGCTAAAGAACATGACCTTTAACGGTACTTTCCCAAAAA
1 CGCCACTAAAGAACATGACCTTTAACGGCACTTTCCCACAAA
* * * * *
24449516 TGCAACTAAAGACCATGACCTTTAGCGGCACTGTTCTCACAAA
1 CGCCACTAAAGAACATGACCTTTAACGGCACT-TTCCCACAAA
* * * * * *
24449559 CGCCGCTATAGAACA-GACCTTTAGCGACGCTTTTGCCACAAA
1 CGCCACTAAAGAACATGACCTTTAACGGCAC-TTTCCCACAAA
24449601 CGCCACTAAAGAACATGACCTTTAA
1 CGCCACTAAAGAACATGACCTTTAA
24449626 AAAAATTATT
Statistics
Matches: 87, Mismatches: 20, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
42 60 0.69
43 27 0.31
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.22
Consensus pattern (42 bp):
CGCCACTAAAGAACATGACCTTTAACGGCACTTTCCCACAAA
Found at i:24455058 original size:7 final size:7
Alignment explanation
Indices: 24455048--24455078 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
24455038 ACTAAAAATT
24455048 AAACCCC
1 AAACCCC
*
24455055 AAACACC
1 AAACCCC
24455062 AAACCCC
1 AAACCCC
24455069 AAACCCC
1 AAACCCC
24455076 AAA
1 AAA
24455079 TCATAGACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (7 bp):
AAACCCC
Found at i:24455807 original size:39 final size:40
Alignment explanation
Indices: 24455776--24455851 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
24455766 CTAATGGTTG
*
24455776 ACCTATAACGGCGTTTTT-TAAAAGCGCCGCTAATGCTCT
1 ACCTATAACGGCGTTTTTCAAAAAGCGCCGCTAATGCTCT
* * * *
24455815 ATCTATAGCGGTGTTTTTCAAAAAGTGCCGCTAATGC
1 ACCTATAACGGCGTTTTTCAAAAAGCGCCGCTAATGC
24455852 CACTAAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 15 0.48
40 16 0.52
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (40 bp):
ACCTATAACGGCGTTTTTCAAAAAGCGCCGCTAATGCTCT
Found at i:24455951 original size:40 final size:40
Alignment explanation
Indices: 24455891--24456018 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
24455881 GCGTTTTTCA
* * **
24455891 GCCGCTAATGGTCGACCTATAGCGGTGTCTTTT-AAAAAGC
1 GCCGCTAATGCTCGATCTATAGCGGCAT-TTTTCAAAAAGC
* *
24455931 GCCGCTAATGCTTGATCTATAGCGACATTTTTCAAAAAGC
1 GCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGC
* *
24455971 GCCGCTAATGCTCAATCTATAGTGGCATTTTTCAAAAAGC
1 GCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGC
24456011 GCCGCTAA
1 GCCGCTAA
24456019 CCTCTATTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
GCCGCTAATGCTCGATCTATAGCGGCATTTTTCAAAAAGC
Found at i:24458700 original size:42 final size:42
Alignment explanation
Indices: 24458584--24458780 Score: 295
Period size: 42 Copynumber: 4.6 Consensus size: 42
24458574 AAACAACGCC
* *
24458584 GCGCTTTTCCTACAAACGCCGCCAAAGGTCAGGACCTTTAGCG
1 GCGCTTTTCCCACAAACGCCGCCAAA-GTCAAGACCTTTAGCG
*
24458627 GCGCTTTTTCCACAAACGCCGCCAAAGGTCAAGACCTTTAGCG
1 GCGCTTTTCCCACAAACGCCGCCAAA-GTCAAGACCTTTAGCG
24458670 GCGCTTTTCCCACAAACGCCGCCAAAGTCAAGACCTTTAGCG
1 GCGCTTTTCCCACAAACGCCGCCAAAGTCAAGACCTTTAGCG
** *
24458712 ATGCTTTTCCCACAAACGCCGCCAAAGTCAGGACCTTTAGCG
1 GCGCTTTTCCCACAAACGCCGCCAAAGTCAAGACCTTTAGCG
* * *
24458754 GCGCTTTTCCAAAAAACGCCGCTAAAG
1 GCGCTTTTCCCACAAACGCCGCCAAAG
24458781 GTCATAAAAA
Statistics
Matches: 142, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
42 77 0.54
43 65 0.46
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.20
Consensus pattern (42 bp):
GCGCTTTTCCCACAAACGCCGCCAAAGTCAAGACCTTTAGCG
Found at i:24463986 original size:23 final size:22
Alignment explanation
Indices: 24463967--24464029 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
24463957 TAAAAAATGC
24463967 TAATACAATTACATATAAAATTT
1 TAATACAATTACATATAAAA-TT
*
24463990 TAATA-AATATAAAT-TAAAAATT
1 TAATACAAT-TACATAT-AAAATT
24464012 TAAATACAATTACATATA
1 T-AATACAATTACATATA
24464030 TAGGATATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 7 0.21
23 22 0.67
24 4 0.12
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATACAATTACATATAAAATT
Found at i:24464540 original size:21 final size:21
Alignment explanation
Indices: 24464486--24464558 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
24464476 ATTATTTTTC
24464486 TAAACTCTAAACCCTTAACCCT
1 TAAACTCT-AACCCTTAACCCT
* * *
24464508 TAACCCCAAACCCTT-ACACCT
1 TAAACTCTAACCCTTAAC-CCT
*
24464529 TAAACTCTAA-CCTTAACCCC
1 TAAACTCTAACCCTTAACCCT
*
24464549 TAAACCCTAA
1 TAAACTCTAA
24464559 ATTATAATCC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
20 17 0.41
21 19 0.46
22 5 0.12
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACTCTAACCCTTAACCCT
Found at i:24464558 original size:7 final size:7
Alignment explanation
Indices: 24464485--24464559 Score: 53
Period size: 7 Copynumber: 10.7 Consensus size: 7
24464475 TATTATTTTT
*
24464485 CTAAACT
1 CTAAACC
24464492 CTAAACC
1 CTAAACC
*
24464499 CTTAACC
1 CTAAACC
*
24464506 CTTAACC
1 CTAAACC
*
24464513 CCAAACC
1 CTAAACC
*
24464520 CTTACACC
1 C-TAAACC
* *
24464528 TTAAACT
1 CTAAACC
24464535 CT-AACC
1 CTAAACC
* *
24464541 TTAACCC
1 CTAAACC
24464548 CTAAACC
1 CTAAACC
24464555 CTAAA
1 CTAAA
24464560 TTATAATCCC
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.84
8 4 0.08
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:24464655 original size:45 final size:46
Alignment explanation
Indices: 24464603--24464695 Score: 143
Period size: 45 Copynumber: 2.0 Consensus size: 46
24464593 CTTCAAATAC
**
24464603 TAGTTAACTCCTAAACCTTAAACCCT-AACCATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
* *
24464648 TAGTTAACTCAAAAATCTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
24464694 TA
1 TA
24464696 AACCATAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 23 0.53
46 20 0.47
ACGTcount: A:0.43, C:0.25, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:24464924 original size:41 final size:40
Alignment explanation
Indices: 24464867--24465075 Score: 224
Period size: 41 Copynumber: 5.1 Consensus size: 40
24464857 GTTATATGAC
*
24464867 TTTTAGCGGCGTTTTGCCAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GT
* *
24464908 TTTTAGCGGCGTTTTGCCAAAAGCGCTGCTAATGCTCTAAT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GT
* *
24464949 TTTTAGCAGCGTTTTGCCAAAAGCGCCGCTAATTCTCTGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
* * **
24464989 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTGTTGCTCTGT
1 TTTTAGCGGCG--TTTTGCCAAAAGCGCCGCTAATGCTCTGT
* ** * *
24465030 TTTTAGTGGCGTTTTTGATAAAA-CGCCGCTATTGCTATGT
1 TTTTAGCGGCG-TTTTGCCAAAAGCGCCGCTAATGCTCTGT
24465070 GTTTTA
1 -TTTTA
24465076 CAATTTTTGC
Statistics
Matches: 146, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
40 36 0.25
41 101 0.69
42 9 0.06
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
Found at i:24465423 original size:28 final size:28
Alignment explanation
Indices: 24465391--24465464 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 28
24465381 TTAACAATTG
24465391 ATTATTTAAAATATTTAAAAATTA-AAAA
1 ATTATTTAAAA-ATTTAAAAATTATAAAA
24465419 ATTATTTTAAAACATTT-AAAATTATAAAA
1 ATTA-TTTAAAA-ATTTAAAAATTATAAAA
* *
24465448 AATATTTTAAAATTTAA
1 ATTATTTAAAAATTTAA
24465465 TTAATTGCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.10
28 18 0.45
29 18 0.45
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATTATTTAAAAATTTAAAAATTATAAAA
Found at i:24465427 original size:20 final size:20
Alignment explanation
Indices: 24465404--24465443 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24465394 ATTTAAAATA
24465404 TTTAAAA-ATTAAAAAATTAT
1 TTTAAAACATT-AAAAATTAT
*
24465424 TTTAAAACATTTAAAATTAT
1 TTTAAAACATTAAAAATTAT
24465444 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAAACATTAAAAATTAT
Found at i:24465470 original size:29 final size:30
Alignment explanation
Indices: 24465391--24465459 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
24465381 TTAACAATTG
* *
24465391 ATTA-TTTAAAATATTTAAAAAT-TAAAAA
1 ATTATTTTAAAACATTTAAAATTATAAAAA
24465419 ATTATTTTAAAACATTTAAAATTATAAAAA
1 ATTATTTTAAAACATTTAAAATTATAAAAA
24465449 A-TATTTTAAAA
1 ATTATTTTAAAA
24465460 TTTAATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 4 0.11
29 26 0.70
30 7 0.19
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
ATTATTTTAAAACATTTAAAATTATAAAAA
Found at i:24470006 original size:90 final size:89
Alignment explanation
Indices: 24469912--24470078 Score: 192
Period size: 90 Copynumber: 1.9 Consensus size: 89
24469902 TCTTAGAATG
* * * *
24469912 TTTGTATTTTTTTGTAT-TTGTTAATTTAATTTAGTCCGTATTATATGTAGTTTGAATTTAAAAT
1 TTTGTAGTTTCTTGTATGTT-TAAATTTAATCTAGTCCGTATTAT-TGTAGTTTGAATTTAAAAT
*
24469976 TTTCGTTTATTAATTTTACCCATCTA
64 TTTCGTGTATTAATTTTACCCATCTA
* * * * * * *
24470002 TTTGTAGTTTCTTGTGTGTTTAAATTTAATCTAGTGCGTGTTATTTTTGTTTGAATTTTATATTT
1 TTTGTAGTTTCTTGTATGTTTAAATTTAATCTAGTCCGTATTATTGTAGTTTGAATTTAAAATTT
*
24470067 TTGTGTATTAAT
66 TCGTGTATTAAT
24470079 ATTCTAGAAT
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
89 27 0.43
90 34 0.54
91 2 0.03
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (89 bp):
TTTGTAGTTTCTTGTATGTTTAAATTTAATCTAGTCCGTATTATTGTAGTTTGAATTTAAAATTT
TCGTGTATTAATTTTACCCATCTA
Found at i:24472732 original size:6 final size:6
Alignment explanation
Indices: 24472714--24472772 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
24472704 TTTTTTTTTT
*
24472714 ATTT-C ATTT-C ATTTCC ATTTCC ATTTCC ATTT-C A-TTCC ATTTCT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC
24472758 ATTTCC ATTT-C ATTT
1 ATTTCC ATTTCC ATTT
24472773 AAATTAGTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
4 2 0.04
5 18 0.37
6 29 0.59
ACGTcount: A:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:24472739 original size:22 final size:23
Alignment explanation
Indices: 24472714--24472772 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 23
24472704 TTTTTTTTTT
24472714 ATTT-CATTTCATTTCCATTTCC
1 ATTTCCATTTCATTTCCATTTCC
*
24472736 ATTTCCATTTCA-TTCCATTTCT
1 ATTTCCATTTCATTTCCATTTCC
24472758 ATTTCCATTTCATTT
1 ATTTCCATTTCATTT
24472773 AAATTAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.19, C:0.25, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTCCATTTCATTTCCATTTCC
Found at i:24472749 original size:28 final size:27
Alignment explanation
Indices: 24472715--24472772 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
24472705 TTTTTTTTTA
*
24472715 TTTCATTTCATTTCCATTTCCATTTCCA
1 TTTCATTCCATTTCCATTTCCATTT-CA
*
24472743 TTTCATTCCATTTCTATTTCCATTTCA
1 TTTCATTCCATTTCCATTTCCATTTCA
24472770 TTT
1 TTT
24472773 AAATTAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTCATTCCATTTCCATTTCCATTTCA
Found at i:24472804 original size:21 final size:21
Alignment explanation
Indices: 24472765--24472805 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24472755 TCTATTTCCA
*
24472765 TTTCATTTAAATTAGTTTTTT
1 TTTCATTTAAATTACTTTTTT
*
24472786 TTTCATTTAAATTTCTTTTT
1 TTTCATTTAAATTACTTTTT
24472806 CTCATTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTCATTTAAATTACTTTTTT
Found at i:24473126 original size:60 final size:58
Alignment explanation
Indices: 24473014--24473127 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 58
24473004 ATTCAATTTT
*
24473014 TTTTCATATTAATCACAAGTAGTCTCATTTCAATTTATTTTTTTTCACTCATTTCATATA
1 TTTTCATATTAATCACAAGTAGTCTCATTACAATTTATTTTTTTT--CTCATTTCATATA
* * *
24473074 TTTTCATATTAATTAGAAGTAGTCTCAATTACATTTTATTTAATTTTT-TCATTT
1 TTTTCATATTAATCACAAGTAGTCTC-ATTACAATTTATTT--TTTTTCTCATTT
24473128 TTTATTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
60 30 0.64
61 12 0.26
63 5 0.11
ACGTcount: A:0.29, C:0.13, G:0.04, T:0.54
Consensus pattern (58 bp):
TTTTCATATTAATCACAAGTAGTCTCATTACAATTTATTTTTTTTCTCATTTCATATA
Found at i:24473377 original size:6 final size:6
Alignment explanation
Indices: 24473368--24473413 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
24473358 TTTTTTTTTT
24473368 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT- CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
24473414 AAATTATCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:24473481 original size:26 final size:25
Alignment explanation
Indices: 24473404--24473482 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
24473394 TTTCCATTTC
*
24473404 CATTTCATTTAAATTATCTTTTTTT
1 CATTTCATTTAAATAATCTTTTTTT
* *
24473429 --TTT-ATTTAAATTTAAT-TTCTTCT
1 CATTTCATTTAAA--TAATCTTTTTTT
24473452 CATTTCATTTAAATAATCTTTTTTT
1 CATTTCATTTAAATAATCTTTTTTT
24473477 CCATTT
1 -CATTT
24473483 TAATTTACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 13
0.70 0.08 0.22
Matches are distributed among these distances:
22 7 0.17
23 8 0.19
24 7 0.17
25 8 0.19
26 12 0.29
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (25 bp):
CATTTCATTTAAATAATCTTTTTTT
Found at i:24474178 original size:44 final size:44
Alignment explanation
Indices: 24473897--24474181 Score: 408
Period size: 44 Copynumber: 6.5 Consensus size: 44
24473887 AAATTAATAT
* * *
24473897 ATTTAATGTGTTTCAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
* *
24473941 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
** * * *
24473985 ATTTAACATGTTTTAAATTAAATTTGCATGTATATTCTATTAGA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
* * *
24474029 ATTTAATGTGTTTTAAATTAAATATGCATGTCTATTCTAATATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
* * *
24474073 ATTTAATGTGTTTCAAAATAAATATGCATGTATATTATATTATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
*
24474117 ATTTAATGTGTTTTAAATTAAATATGCATGAATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
*
24474161 ATTTAACGTGTTTTAAATTAA
1 ATTTAATGTGTTTTAAATTAA
24474182 GAATAAGAAA
Statistics
Matches: 217, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 217 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAATTAAATATGCATGTATATTGTATTATA
Found at i:24478528 original size:26 final size:26
Alignment explanation
Indices: 24478494--24478543 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
24478484 ACAAAAATAA
* *
24478494 AAAGCAGAAGCTAAACAGACCACCAC
1 AAAGAAGAAACTAAACAGACCACCAC
24478520 AAAGAAGAAACTAAACAGACCACC
1 AAAGAAGAAACTAAACAGACCACC
24478544 CAACAGCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.54, C:0.28, G:0.14, T:0.04
Consensus pattern (26 bp):
AAAGAAGAAACTAAACAGACCACCAC
Found at i:24482628 original size:13 final size:13
Alignment explanation
Indices: 24482610--24482661 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
24482600 ATATATTATA
24482610 TTATAATAATTAG
1 TTATAATAATTAG
*
24482623 TTATAATAATGTTTTG
1 TTATAATAA---TTAG
24482639 TT-TGAATAATTAG
1 TTAT-AATAATTAG
24482652 TTATAATAAT
1 TTATAATAAT
24482662 GTTTAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 20 0.62
14 1 0.03
15 1 0.03
16 10 0.31
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (13 bp):
TTATAATAATTAG
Found at i:24485224 original size:46 final size:45
Alignment explanation
Indices: 24485174--24485296 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 45
24485164 GACAAGTGCT
24485174 AGTGTAAAACATGTCTAGGACATGCATCGGCCT-CGAGACGTAAGCC
1 AGTGTAAAACATGTCTAGGACATGCATCGGCCTACGAGACGT-A-CC
* * * *
24485220 AGTGTAAGACATGTCTAGGACATGCATCAG-CTACGAGATGTATC
1 AGTGTAAAACATGTCTAGGACATGCATCGGCCTACGAGACGTACC
* *
24485264 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAA-AACATGTCTAGGACAT-GCATCGGC
24485297 ACAGATATAC
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
44 8 0.12
45 16 0.25
46 41 0.63
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (45 bp):
AGTGTAAAACATGTCTAGGACATGCATCGGCCTACGAGACGTACC
Found at i:24486863 original size:17 final size:17
Alignment explanation
Indices: 24486833--24486865 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24486823 ATATTGTTAA
24486833 AAGAATATGAAAATGAG
1 AAGAATATGAAAATGAG
24486850 AAGAA-ATGAGAAATGA
1 AAGAATATGA-AAATGA
24486866 AATGAAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (17 bp):
AAGAATATGAAAATGAG
Found at i:24489736 original size:6 final size:6
Alignment explanation
Indices: 24489725--24489764 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
24489715 ATTATGTTTC
24489725 ATTTTT ATTTTT ATTTTT ATTCATTT A-TTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATT--TTT ATTTTT ATTTTT ATT
24489765 AATCTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 4 0.13
6 22 0.71
7 1 0.03
8 4 0.13
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:24490838 original size:26 final size:26
Alignment explanation
Indices: 24490802--24490853 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24490792 AAAAAGAAGA
24490802 AACAATGTGATACAGTGATTATAGGT
1 AACAATGTGATACAGTGATTATAGGT
24490828 AACAATGTGATACAGTGATTATAGGT
1 AACAATGTGATACAGTGATTATAGGT
24490854 CAGCCAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (26 bp):
AACAATGTGATACAGTGATTATAGGT
Found at i:24491606 original size:44 final size:44
Alignment explanation
Indices: 24491538--24491627 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
24491528 TTTGTTCTTA
*
24491538 GTAGTAATAAAATCCAAGAGATGTCTTCTTATTGCATGCTATGT
1 GTAGCAATAAAATCCAAGAGATGTCTTCTTATTGCATGCTATGT
*
24491582 GTAGCAATAAAATCCAAGAGATGTCTTCTTATTGCATGGTATGT
1 GTAGCAATAAAATCCAAGAGATGTCTTCTTATTGCATGCTATGT
24491626 GT
1 GT
24491628 GTAGATCAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (44 bp):
GTAGCAATAAAATCCAAGAGATGTCTTCTTATTGCATGCTATGT
Found at i:24491808 original size:5 final size:6
Alignment explanation
Indices: 24491790--24491820 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
24491780 CTATAACTAA
*
24491790 TTCTTT TTCTTT TTCTTT TTCTTT TTGTTT T
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT T
24491821 CCTACCTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (6 bp):
TTCTTT
Found at i:24495736 original size:30 final size:30
Alignment explanation
Indices: 24495679--24495739 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24495669 TTCCCGAGCC
*
24495679 TAGGGGCAAAAGTGTAAATATGTAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
24495709 TAGGGGCAAAATTTTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
24495739 T
1 T
24495740 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:24498739 original size:17 final size:17
Alignment explanation
Indices: 24498717--24498769 Score: 106
Period size: 17 Copynumber: 3.1 Consensus size: 17
24498707 TCTAAAACCC
24498717 TGTTCTGACGACAGATA
1 TGTTCTGACGACAGATA
24498734 TGTTCTGACGACAGATA
1 TGTTCTGACGACAGATA
24498751 TGTTCTGACGACAGATA
1 TGTTCTGACGACAGATA
24498768 TG
1 TG
24498770 GGTTAGGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (17 bp):
TGTTCTGACGACAGATA
Found at i:24501254 original size:23 final size:23
Alignment explanation
Indices: 24501227--24501279 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
24501217 ACAGTTTCAT
*
24501227 AATATA-CATATATCATCCATTTC
1 AATATATCATATACCAT-CATTTC
*
24501250 AATATATCATGTACCATCATTTC
1 AATATATCATATACCATCATTTC
*
24501273 CATATAT
1 AATATAT
24501280 TTCATGTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.40
Consensus pattern (23 bp):
AATATATCATATACCATCATTTC
Found at i:24505371 original size:6 final size:7
Alignment explanation
Indices: 24505349--24505383 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
24505339 AGTTTACGAA
24505349 TTTATTTT
1 TTTA-TTT
24505357 TTTATTT
1 TTTATTT
24505364 TTTATTT
1 TTTATTT
24505371 TTTATTT
1 TTTATTT
24505378 TTTATT
1 TTTATT
24505384 AGGAAAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTATTT
Found at i:24505463 original size:14 final size:14
Alignment explanation
Indices: 24505444--24505473 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24505434 TTATATCGAG
24505444 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
24505458 ACCAATCCAATTCA
1 ACCAATCCAAATCA
24505472 AC
1 AC
24505474 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:24505517 original size:23 final size:23
Alignment explanation
Indices: 24505473--24505517 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
24505463 TCCAATTCAA
* * *
24505473 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAAATAAAGTCATG
*
24505496 CATATTTATAAAATAACGTCAT
1 CATATTTATAAAATAAAGTCAT
24505518 CACATACCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTATAAAATAAAGTCATG
Found at i:24514233 original size:96 final size:103
Alignment explanation
Indices: 24514108--24514350 Score: 270
Period size: 96 Copynumber: 2.4 Consensus size: 103
24514098 AATTTTTAAA
* * ** *
24514108 TTTTAGGG-TTTTAAGGAAAAAAATTAAATAAATTAGGGTTTAGTGTTTGTTAATTAAATTAATT
1 TTTTAGGGTTTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATT
* *
24514172 ACT-AATTT-TAAAA-A-ATTA-GATTAT-G-GTTTAGTG
65 A-TAAATTTAAAAAATATATTAGGATTATAGAGTTTAGGG
* *
24514205 -TTTATGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTA
1 TTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
*
24514269 TAAATTTAGAAAAAATTATATTAGGATTTTAGAGTTTAGGG
66 TAAATTT--AAAAAA-TATATTAGGATTATAGAGTTTAGGG
* *
24514310 TTTTAGGGTATTTAAGAAAAAAATCAAATAAATTAGGGTTT
1 TTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTT
24514351 GAGGTTTAAG
Statistics
Matches: 121, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
95 1 0.01
96 53 0.44
97 8 0.07
99 4 0.03
101 1 0.01
102 4 0.03
103 5 0.04
104 1 0.01
105 7 0.06
106 37 0.31
ACGTcount: A:0.40, C:0.02, G:0.18, T:0.40
Consensus pattern (103 bp):
TTTTAGGGTTTTTAAGGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTAAGTAAATTAATTA
TAAATTTAAAAAATATATTAGGATTATAGAGTTTAGGG
Found at i:24514611 original size:126 final size:126
Alignment explanation
Indices: 24514401--24514939 Score: 792
Period size: 126 Copynumber: 4.3 Consensus size: 126
24514391 AAAAGCTTCT
* * *
24514401 ACGTGGATGCTCTTTTACTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* *
24514466 ATAGTGTCAAAAACGCTTCAAGTAGGATGCATTGTCAGCAAAAGTACTAAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * *
24514527 ACGTGGACGTTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTAAGAAAACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
24514592 ATAGTGTAAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTATTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
24514653 ACGTAGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * *
24514718 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * * **
24514779 ACGTGGATGCTCTTTTGCTACAATGGTCTCTGAAAAAATAATTTTGAGAAGATGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
* * * *
24514844 ATAGTGTCAAAAACGCTTCAAACATGATGCATTTTCAGTAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * *
24514905 ACGTGGACGCTTTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
24514940 TAACTTGGGC
Statistics
Matches: 371, Mismatches: 40, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
125 2 0.01
126 367 0.99
127 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:24518159 original size:116 final size:116
Alignment explanation
Indices: 24517951--24518564 Score: 1122
Period size: 116 Copynumber: 5.3 Consensus size: 116
24517941 TTTATATTTT
* * *
24517951 ATTA-ATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
24518015 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
24518066 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
24518131 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACATTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
24518182 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
24518247 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
24518298 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
24518363 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
24518414 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATCA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
24518479 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
24518530 ATTACATGAAATAATATAAAAATATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
24518565 TGTACACATA
Statistics
Matches: 483, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
115 3 0.01
116 480 0.99
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:24518975 original size:18 final size:18
Alignment explanation
Indices: 24518949--24518991 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
24518939 GACTAGAAAA
* *
24518949 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
24518967 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
24518985 AGGATAC
1 AGGATAC
24518992 GTACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:24519618 original size:7 final size:7
Alignment explanation
Indices: 24519608--24519634 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24519598 GTTAAATAAA
24519608 AAATACT
1 AAATACT
24519615 AAATACT
1 AAATACT
24519622 AAATACT
1 AAATACT
24519629 AAATAC
1 AAATAC
24519635 GAATCCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:24519619 original size:14 final size:14
Alignment explanation
Indices: 24519600--24519633 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24519590 AAATATTAGT
24519600 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
24519614 TAAATACTAAATAC
1 TAAATAAAAAATAC
24519628 TAAATA
1 TAAATA
24519634 CGAATCCACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:24520729 original size:15 final size:15
Alignment explanation
Indices: 24520709--24520739 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24520699 TTTTTATTTT
*
24520709 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
24520724 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
24520739 A
1 A
24520740 GTTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:24520815 original size:20 final size:20
Alignment explanation
Indices: 24520766--24520816 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
24520756 TAGCGAGAGT
24520766 TTTGAGAGAAATTTAAGAGAAA
1 TTTGAGAG--ATTTAAGAGAAA
*
24520788 TTTGAGAGATTTGAGAGAAA
1 TTTGAGAGATTTAAGAGAAA
24520808 TTTGAGAGA
1 TTTGAGAGA
24520817 ATATTGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 20 0.71
22 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.29
Consensus pattern (20 bp):
TTTGAGAGATTTAAGAGAAA
Found at i:24520823 original size:11 final size:11
Alignment explanation
Indices: 24520766--24520817 Score: 81
Period size: 11 Copynumber: 4.9 Consensus size: 11
24520756 TAGCGAGAGT
24520766 TTTGAGAGAAA
1 TTTGAGAGAAA
*
24520777 TTTAAGAGAAA
1 TTTGAGAGAAA
24520788 TTTGAGAG--A
1 TTTGAGAGAAA
24520797 TTTGAGAGAAA
1 TTTGAGAGAAA
24520808 TTTGAGAGAA
1 TTTGAGAGAA
24520818 TATTGAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
9 9 0.24
11 28 0.76
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:24520829 original size:31 final size:31
Alignment explanation
Indices: 24520766--24520829 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
24520756 TAGCGAGAGT
*
24520766 TTTGAGAGAAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
24520797 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
24520828 TT
1 TT
24520830 GAAGATTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 27 0.90
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:24547192 original size:20 final size:21
Alignment explanation
Indices: 24547169--24547210 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24547159 TTTTTTAGAT
*
24547169 AATTAAG-TTTATTTTCTTTA
1 AATTAAGAGTTATTTTCTTTA
*
24547189 AATTAAGAGTTATTTTTTTTA
1 AATTAAGAGTTATTTTCTTTA
24547210 A
1 A
24547211 TTCCATGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
AATTAAGAGTTATTTTCTTTA
Found at i:24547212 original size:20 final size:20
Alignment explanation
Indices: 24547168--24547212 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
24547158 TTTTTTTAGA
*
24547168 TAATTAAGTTTATTTTCTTT
1 TAATTAAGGTTATTTTCTTT
*
24547188 AAATTAAGAGTTATTTT-TTT
1 TAATTAAG-GTTATTTTCTTT
24547208 TAATT
1 TAATT
24547213 CCATGTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (20 bp):
TAATTAAGGTTATTTTCTTT
Found at i:24550206 original size:5 final size:5
Alignment explanation
Indices: 24550196--24550223 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
24550186 CTGTGTGTTC
24550196 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
24550224 CACAAATTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:24556092 original size:54 final size:54
Alignment explanation
Indices: 24556009--24556180 Score: 227
Period size: 54 Copynumber: 3.2 Consensus size: 54
24555999 ATTGGCTTTC
* ** * * *
24556009 TTACGATTACGACATTTTACTTACAGGATTTTACGAATCTCGCGATCTGCTAAT
1 TTACGATCACGACATTTTACTTATGGGATTTTACAAATCTCGCGGTCCGCTAAT
* **
24556063 TTACGATCACGACTTTTTACTTATGGGATTTTACAAATCTCGCGGTCCATTAAT
1 TTACGATCACGACATTTTACTTATGGGATTTTACAAATCTCGCGGTCCGCTAAT
* * *
24556117 TTACGATCACGACCTTTTACATATGGGATTTTACAAATCTCGCGGTCCGCTGAT
1 TTACGATCACGACATTTTACTTATGGGATTTTACAAATCTCGCGGTCCGCTAAT
*
24556171 TTATGATCAC
1 TTACGATCAC
24556181 TACTACTTTC
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 103 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (54 bp):
TTACGATCACGACATTTTACTTATGGGATTTTACAAATCTCGCGGTCCGCTAAT
Found at i:24556267 original size:42 final size:43
Alignment explanation
Indices: 24556161--24556389 Score: 128
Period size: 42 Copynumber: 5.5 Consensus size: 43
24556151 AAATCTCGCG
* * * *
24556161 GTCC-GCTGATTTATGATCACTACTACTTTCTGCTTTCTTATG
1 GTCCAGCTGATTTATGATCACGACTACCTTCGGCTTTCTTATA
* * *
24556203 GTCCAG-TGGTTTACGATTACGACTACCTTCGGCTTTCTTATA
1 GTCCAGCTGATTTATGATCACGACTACCTTCGGCTTTCTTATA
* * * * *** *
24556245 GT-CTGCTGATTTATGACCACGACCACTTTTAACTTTTTTATA
1 GTCCAGCTGATTTATGATCACGACTACCTTCGGCTTTCTTATA
* ** * * *
24556287 GTCCA-CTAATTTACAATCACGACCACTTTCGACTTTCTTATA
1 GTCCAGCTGATTTATGATCACGACTACCTTCGGCTTTCTTATA
* * * * * * * * *
24556329 -ACCCGTTAATTTACGATCACGGCTATCTTCGACTTTCTTATG
1 GTCCAGCTGATTTATGATCACGACTACCTTCGGCTTTCTTATA
* *
24556371 GTCTA-TTGATTTATGATCA
1 GTCCAGCTGATTTATGATCA
24556390 TGACCTTTTA
Statistics
Matches: 142, Mismatches: 40, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
41 4 0.03
42 135 0.95
43 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.41
Consensus pattern (43 bp):
GTCCAGCTGATTTATGATCACGACTACCTTCGGCTTTCTTATA
Found at i:24556624 original size:54 final size:54
Alignment explanation
Indices: 24556506--24556640 Score: 144
Period size: 54 Copynumber: 2.5 Consensus size: 54
24556496 CTTTCTTATG
* * * * * *
24556506 GTCTACTGATTAACGATCACAACCTTTTACTTACGGGATTTTATGGATCTCACA
1 GTCTACTGATTTATGATCACAACATTTTACTTACAGGATTTTACGAATCTCACA
* * * **
24556560 GTCCATTGATTTATGATCACGACATTTTACTTACAGGATTTTACGAATCTCGTA
1 GTCTACTGATTTATGATCACAACATTTTACTTACAGGATTTTACGAATCTCACA
* *
24556614 GTCTGCTGATTTATGGTCACAATCATT
1 GTCTACTGATTTATGATCACAA-CATT
24556641 GGCTTTCTTA
Statistics
Matches: 64, Mismatches: 16, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
54 60 0.94
55 4 0.06
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (54 bp):
GTCTACTGATTTATGATCACAACATTTTACTTACAGGATTTTACGAATCTCACA
Found at i:24556756 original size:54 final size:54
Alignment explanation
Indices: 24556657--24556833 Score: 210
Period size: 54 Copynumber: 3.3 Consensus size: 54
24556647 CTTACGATCT
* * ** * *
24556657 ATTGATTTACGATTATGACCTTTTACTTACGAGATTTTACGAATCTCACAGTCC
1 ATTGATTTACGATCATGACCTTTTACTTACGGGATTTTATAAATCTCGCGGTCC
* * * * *
24556711 ATTGATTTATGATCATGTCCTTTTACTTATGGGATTTTATAAATCTCGTGGTCT
1 ATTGATTTACGATCATGACCTTTTACTTACGGGATTTTATAAATCTCGCGGTCC
* * **
24556765 ATTGATTTACGATAACGACCTTTTACAGACGGGATTTTATAAATCTCGCGGTCC
1 ATTGATTTACGATCATGACCTTTTACTTACGGGATTTTATAAATCTCGCGGTCC
*
24556819 ACTGATTTACGATCA
1 ATTGATTTACGATCA
24556834 CGACTACCTT
Statistics
Matches: 101, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (54 bp):
ATTGATTTACGATCATGACCTTTTACTTACGGGATTTTATAAATCTCGCGGTCC
Found at i:24556912 original size:42 final size:42
Alignment explanation
Indices: 24556820--24557087 Score: 186
Period size: 42 Copynumber: 6.5 Consensus size: 42
24556810 TCGCGGTCCA
* *** * * **
24556820 CTGATTTACGATCACGACTACCTTTAACTTTTTTATGGTCCA
1 CTGATTTACGATCACGACCACCTTCGGCTTTCTTATAGTCTG
* * ** * *
24556862 CT-AGTTTACGATCATGATCACCTTCTTCTTTCTTATAATTTG
1 CTGA-TTTACGATCACGACCACCTTCGGCTTTCTTATAGTCTG
* * * *
24556904 CTGATTTACGA-CTACGACCACCTTTGACTTTCATAGAGTCTG
1 CTGATTTACGATC-ACGACCACCTTCGGCTTTCTTATAGTCTG
* * * * *
24556946 TTGATTTACGATCATGACCACTTTCGGCTTTCTTATGGTTTG
1 CTGATTTACGATCACGACCACCTTCGGCTTTCTTATAGTCTG
* * * *
24556988 TTAATTTACGATCACGACCACCTTCGGCTTTTTTATGGTCTG
1 CTGATTTACGATCACGACCACCTTCGGCTTTCTTATAGTCTG
* * *
24557030 CTGATTTACGATTACG---ACCTTCGACTTTCTTATGGTCTG
1 CTGATTTACGATCACGACCACCTTCGGCTTTCTTATAGTCTG
* * *
24557069 CTAATTTACAATCATGACC
1 CTGATTTACGATCACGACC
24557088 TTTTACATAT
Statistics
Matches: 175, Mismatches: 44, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
39 33 0.19
41 2 0.01
42 138 0.79
43 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (42 bp):
CTGATTTACGATCACGACCACCTTCGGCTTTCTTATAGTCTG
Found at i:24557029 original size:84 final size:84
Alignment explanation
Indices: 24556823--24557087 Score: 263
Period size: 84 Copynumber: 3.2 Consensus size: 84
24556813 CGGTCCACTG
* * ** *
24556823 ATTTACGATCACGACTACCTTTAACTTTTTTATGGTCCACT-AGTTTACGATCATGATCACCTTC
1 ATTTACGATCACGACCACCTTTGACTTTTTTATGGTCTGCTGA-TTTACGATCATGACCACCTTC
** ** *
24556887 TTCTTTCTTATAATTTGCTG
65 GACTTTCTTATGGTTTGCTA
** * *
24556907 ATTTACGA-CTACGACCACCTTTGACTTTCATA-GAGTCTGTTGATTTACGATCATGACCACTTT
1 ATTTACGATC-ACGACCACCTTTGACTTTTTTATG-GTCTGCTGATTTACGATCATGACCACCTT
* *
24556970 CGGCTTTCTTATGGTTTGTTA
64 CGACTTTCTTATGGTTTGCTA
* * *
24556991 ATTTACGATCACGACCACCTTCGGCTTTTTTATGGTCTGCTGATTTACGAT--T-ACGACCTTCG
1 ATTTACGATCACGACCACCTTTGACTTTTTTATGGTCTGCTGATTTACGATCATGACCACCTTCG
*
24557053 ACTTTCTTATGGTCTGCTA
66 ACTTTCTTATGGTTTGCTA
* *
24557072 ATTTACAATCATGACC
1 ATTTACGATCACGACC
24557088 TTTTACATAT
Statistics
Matches: 149, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
81 38 0.26
82 1 0.01
83 2 0.01
84 105 0.70
85 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (84 bp):
ATTTACGATCACGACCACCTTTGACTTTTTTATGGTCTGCTGATTTACGATCATGACCACCTTCG
ACTTTCTTATGGTTTGCTA
Found at i:24557090 original size:654 final size:654
Alignment explanation
Indices: 24556009--24557203 Score: 1509
Period size: 654 Copynumber: 1.8 Consensus size: 654
24555999 ATTGGCTTTC
* **
24556009 TTACGATTACGACATTTTACTTACAGGATTTTACGAATCTCGCGATCTGCTAATTTACGATCACG
1 TTACGATTACGACATTTTACTTACAGGATTTTACGAATCTCACGATCCACTAATTTACGATCACG
* * *
24556074 ACTTTTTACTTATGGGATTTTACAAATCTCGCGGTCCATTAATTTACGATCACGACCTTTTACAT
66 ACCTTTTACTTATGGGATTTTACAAATCTCGCGGTCCATTAATTTACGATAACGACCTTTTACAG
* * * * **
24556139 ATGGGATTTTACAAATCTCGCGGTCCGCTGATTTATGATCACTACTACTTTCTGCTTTCTTATGG
131 ACGGGATTTTACAAATCTCGCGGTCCACTGATTTACGATCACGACTACTTTCAACTTTCTTATGG
* * * * *
24556204 TCCAGTGGTTTACGATTACGACTACCTTCGGCTTTCTTATAGTCTGCTGATTTATGACCACGACC
196 TCCACTAGTTTACGATCACGACTACCTTCGGCTTTCTTATAATCTGCTGATTTACGACCACGACC
* ** *
24556269 ACTTTTAACTTTTTTATAGTCCACTAATTTACAATCACGACCACTTTCGACTTTCTTATAACCCG
261 ACCTTTAACTTTCATAGAGTCCACTAATTTACAATCACGACCACTTTCGACTTTCTTATAACCCG
* * * * * * **
24556334 TTAATTTACGATCACGGCTATCTTCGACTTTCTTATGGTCTATTGATTTATGATCATGACCTTTT
326 TTAATTTACGATCACGACCACCTTCGACTTTCTTATGGTCTACTGATTTACGATCACGACCTTCG
* * *
24556399 ATTTTCTTACAATATGCTGATTTACGATCACGACCTTTTACATACAAGACTTTAC-GAATCTCGC
391 ACTTTCTTACAATATGCTAATTTACAATCACGACCTTTTACATACAAGACTTTACAG-ATCTCGC
* ** * *
24556463 GGTCTACTGATTTACAATCACGACTACTTTCAACTTTCTTATGGTCTACTGATTAACGATCACAA
455 GGTCCACTGATTTACAATCAAAACTACTTTCAACTTTCTTATGGACCACTGATTAACGATCACAA
*
24556528 CCTTTTACTTACGGGATTTTATGGATCTCACAGTCCATTGATTTATGATCACGACATTTTACTTA
520 CCTTTTACTTACGGAATTTTATGGATCTCACAGTCCATTGATTTATGATCACGACATTTTACTTA
24556593 CAGGATTTTACGAATCTCGTAGTCTGCTGATTTATGGTCACAATCATTGGCTTTCTTACGATCTA
585 CAGGATTTTACGAATCTCGTAGTCTGCTGATTTATGGTCACAATCATTGGCTTTCTTACGATCTA
24556658 TTGAT
650 TTGAT
* * * * *
24556663 TTACGATTATGACCTTTTACTTAC-GAGATTTTACGAATCTCAC-AGTCCATTGATTTATGATCA
1 TTACGATTACGACATTTTACTTACAG-GATTTTACGAATCTCACGA-TCCACTAATTTACGATCA
* * * * * *
24556726 TGTCCTTTTACTTATGGGATTTTATAAATCTCGTGGTCTATTGATTTACGATAACGACCTTTTAC
64 CGACCTTTTACTTATGGGATTTTACAAATCTCGCGGTCCATTAATTTACGATAACGACCTTTTAC
* *
24556791 AGACGGGATTTTATAAATCTCGCGGTCCACTGATTTACGATCACGACTACCTTT-AACTTTTTTA
129 AGACGGGATTTTACAAATCTCGCGGTCCACTGATTTACGATCACGACTA-CTTTCAACTTTCTTA
* ** * *
24556855 TGGTCCACTAGTTTACGATCATGA-TCACCTTCTTCTTTCTTATAATTTGCTGATTTACGACTAC
193 TGGTCCACTAGTTTACGATCACGACT-ACCTTCGGCTTTCTTATAATCTGCTGATTTACGACCAC
* *** * * * * **
24556919 GACCACCTTTGACTTTCATAGAGTCTGTTGATTTACGATCATGACCACTTTCGGCTTTCTTATGG
257 GACCACCTTTAACTTTCATAGAGTCCACTAATTTACAATCACGACCACTTTCGACTTTCTTATAA
*** * * * *
24556984 TTTGTTAATTTACGATCACGACCACCTTCGGCTTTTTTATGGTCTGCTGATTTACGATTACGACC
322 CCCGTTAATTTACGATCACGACCACCTTCGACTTTCTTATGGTCTACTGATTTACGATCACGACC
*** * * * * *
24557049 TTCGACTTTCTTATGGTCTGCTAATTTACAATCATGACCTTTTACATATAGGATTTTACAGATCT
387 TTCGACTTTCTTACAATATGCTAATTTACAATCACGACCTTTTACATACAAGACTTTACAGATCT
*** * *
24557114 CGCGGTCCACTGATTTACAATCAAAACTACTTTTGGCTTTCTTATGGACCGCTGATTTACGATCA
452 CGCGGTCCACTGATTTACAATCAAAACTACTTTCAACTTTCTTATGGACCACTGATTAACGATCA
* * *
24557179 CGACTTTTTACTTATGGAATTTTAT
517 CAACCTTTTACTTACGGAATTTTAT
24557204 TAATCTGACA
Statistics
Matches: 447, Mismatches: 89, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
653 3 0.01
654 439 0.98
655 5 0.01
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (654 bp):
TTACGATTACGACATTTTACTTACAGGATTTTACGAATCTCACGATCCACTAATTTACGATCACG
ACCTTTTACTTATGGGATTTTACAAATCTCGCGGTCCATTAATTTACGATAACGACCTTTTACAG
ACGGGATTTTACAAATCTCGCGGTCCACTGATTTACGATCACGACTACTTTCAACTTTCTTATGG
TCCACTAGTTTACGATCACGACTACCTTCGGCTTTCTTATAATCTGCTGATTTACGACCACGACC
ACCTTTAACTTTCATAGAGTCCACTAATTTACAATCACGACCACTTTCGACTTTCTTATAACCCG
TTAATTTACGATCACGACCACCTTCGACTTTCTTATGGTCTACTGATTTACGATCACGACCTTCG
ACTTTCTTACAATATGCTAATTTACAATCACGACCTTTTACATACAAGACTTTACAGATCTCGCG
GTCCACTGATTTACAATCAAAACTACTTTCAACTTTCTTATGGACCACTGATTAACGATCACAAC
CTTTTACTTACGGAATTTTATGGATCTCACAGTCCATTGATTTATGATCACGACATTTTACTTAC
AGGATTTTACGAATCTCGTAGTCTGCTGATTTATGGTCACAATCATTGGCTTTCTTACGATCTAT
TGAT
Found at i:24559016 original size:43 final size:43
Alignment explanation
Indices: 24558904--24559017 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
24558894 TCGATGGCAT
* * * * *
24558904 TGTCCTAGACAGGGTCTTACACGAAATCGATTAACGATGCCAA
1 TGTCCTAGACATGGTCTTACACGTAATCCAATAACAATGCCAA
* **
24558947 TGTCCCAGACATTATCTTACACGTAATCTCAAT-ACAATGCCAA
1 TGTCCTAGACATGGTCTTACACGTAATC-CAATAACAATGCCAA
*
24558990 TGTCCTAGACATGGTCTTACATGTAATC
1 TGTCCTAGACATGGTCTTACACGTAATC
24559018 ACATCTCGAT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
43 56 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
TGTCCTAGACATGGTCTTACACGTAATCCAATAACAATGCCAA
Found at i:24559924 original size:54 final size:54
Alignment explanation
Indices: 24559810--24559931 Score: 145
Period size: 54 Copynumber: 2.3 Consensus size: 54
24559800 TACTATTCAC
* * * * *
24559810 TAATTTACGATCACGACCTTTTACTTACGAGATTTTATGAATCTCGCAGTCTGT
1 TAATTTACGATCACGACCTTTTACATACGAGATTTTACGAATCTCACAGTCCGA
* * * **
24559864 TGATTTACGATCATGGCCTTTTACATACGAGATTTTACGAATCTCATGGTCCGA
1 TAATTTACGATCACGACCTTTTACATACGAGATTTTACGAATCTCACAGTCCGA
*
24559918 TAATTTATGATCAC
1 TAATTTACGATCAC
24559932 AATTAATTTT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (54 bp):
TAATTTACGATCACGACCTTTTACATACGAGATTTTACGAATCTCACAGTCCGA
Found at i:24560050 original size:42 final size:41
Alignment explanation
Indices: 24559909--24560079 Score: 132
Period size: 42 Copynumber: 4.1 Consensus size: 41
24559899 TACGAATCTC
** * *
24559909 ATGGTCCGA-TAATTTATGATCACAATTAATTTTGGCTTTCTT
1 ATGGTCC-ACTAATTTATGATCACAA-CCACTTTGACTTTCTT
** * * * *
24559951 ATGGTCCGTTAATTTATGTTCACGACCACCTTCGACTTTTTT
1 ATGGTCCACTAATTTATGATCACAACCA-CTTTGACTTTCTT
* * *
24559993 ATGGTCTACTGATTTATGACCACAACCACATTTGACTTTCTT
1 ATGGTCCACTAATTTATGATCACAACCAC-TTTGACTTTCTT
* * *
24560035 ATGGACCACTAATTTACGATCATAA-C-CTTTGACTTTCTT
1 ATGGTCCACTAATTTATGATCACAACCACTTTGACTTTCTT
*
24560074 ACGGTC
1 ATGGTC
24560080 TGTTGATTTA
Statistics
Matches: 100, Mismatches: 26, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
39 16 0.16
40 1 0.01
41 3 0.03
42 80 0.80
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGGTCCACTAATTTATGATCACAACCACTTTGACTTTCTT
Found at i:24560368 original size:78 final size:78
Alignment explanation
Indices: 24560236--24560386 Score: 230
Period size: 78 Copynumber: 1.9 Consensus size: 78
24560226 GGTTTGCTAG
* * *
24560236 TTTACGATCATAACCTTTTACTTACGGGATTTTACGAATCTCGCGGTCCACTGATTTATAGTCAT
1 TTTACGATCATAACCTTTTACTTACAGGATTTTACGAATCTCGCGGTCCACTGATTTACAATCAT
24560301 GACCTTTGAGTTT
66 GACCTTTGAGTTT
* * * **
24560314 TTTACGATCATGACCTTTTACTTACAGGATTTTATGAATCTCGGGGTCTGCTGATTTACAATCAT
1 TTTACGATCATAACCTTTTACTTACAGGATTTTACGAATCTCGCGGTCCACTGATTTACAATCAT
24560379 GACCTTTG
66 GACCTTTG
24560387 GCTTTCTTAC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (78 bp):
TTTACGATCATAACCTTTTACTTACAGGATTTTACGAATCTCGCGGTCCACTGATTTACAATCAT
GACCTTTGAGTTT
Found at i:24560479 original size:54 final size:54
Alignment explanation
Indices: 24560398--24560612 Score: 238
Period size: 54 Copynumber: 4.0 Consensus size: 54
24560388 CTTTCTTACG
* * * *
24560398 GTCCACTAATTTA-GATCATGATCTTTTACTTATGGGATTTTATGAATCTCGCA
1 GTCCGCTAATTTATGATCATGACCTTTTACTTACGGGATTTTACGAATCTCGCA
* * ** * * *
24560451 GTCCGTTAAATTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTCGCG
1 GTCCGCTAATTTATGATCATGACCTTTTACTTACGGGATTTTACGAATCTCGCA
* ** *
24560505 GTCCGCTAATTTATGATCATGACCTTTTATTTA-TTGATTTTACGAATCTCG-T
1 GTCCGCTAATTTATGATCATGACCTTTTACTTACGGGATTTTACGAATCTCGCA
* * * *
24560557 GTCCGCTGATTTATGATTATGACCTTTTACTTACAGGATTTTACAAATCTCGCA
1 GTCCGCTAATTTATGATCATGACCTTTTACTTACGGGATTTTACGAATCTCGCA
24560611 GT
1 GT
24560613 TTTCCGATTT
Statistics
Matches: 134, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
52 30 0.22
53 40 0.30
54 64 0.48
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.41
Consensus pattern (54 bp):
GTCCGCTAATTTATGATCATGACCTTTTACTTACGGGATTTTACGAATCTCGCA
Found at i:24560597 original size:106 final size:107
Alignment explanation
Indices: 24560396--24560609 Score: 263
Period size: 106 Copynumber: 2.0 Consensus size: 107
24560386 GGCTTTCTTA
* * *
24560396 CGGTCCACTAATTTAGATCATGATCTTTTACTTATGGGATTTTATGAATCTCGCAGTCCGTTAAA
1 CGGTCCACTAATTTAGATCATGACCTTTTACTTATGGGATTTTACGAATCTCGCAGTCCGCTAAA
**
24560461 TTATGATCACAACCTTTTACTTACGAGATTTTATGAATCTCG
66 TTATGATCACAACCTTTTACTTACGAGATTTTACAAATCTCG
* * * * *
24560503 CGGTCCGCTAATTTATGATCATGACCTTTTATTTAT-TGATTTTACGAATCTCG-TGTCCGCTGA
1 CGGTCCACTAATTTA-GATCATGACCTTTTACTTATGGGATTTTACGAATCTCGCAGTCCGCTAA
* * **
24560566 TTTATGATTATGACCTTTTACTTAC-AGGATTTTACAAATCTCG
65 ATTATGATCACAACCTTTTACTTACGA-GATTTTACAAATCTCG
24560609 C
1 C
24560610 AGTTTTCCGA
Statistics
Matches: 91, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
105 1 0.01
106 43 0.47
107 29 0.32
108 18 0.20
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (107 bp):
CGGTCCACTAATTTAGATCATGACCTTTTACTTATGGGATTTTACGAATCTCGCAGTCCGCTAAA
TTATGATCACAACCTTTTACTTACGAGATTTTACAAATCTCG
Found at i:24560689 original size:93 final size:93
Alignment explanation
Indices: 24560577--24560862 Score: 376
Period size: 93 Copynumber: 3.1 Consensus size: 93
24560567 TTATGATTAT
** * *
24560577 GACCTTTTACTTACAGGATTTTACAAATCTCGCAGTTTTCCGATTTACGATCACGACCTTTGGCT
1 GACCTTTTACTTATGGGATTTTACAAATCTCGCGGTTTTCTGATTTACGATCACGACCTTTGGCT
* ** *
24560642 TTCTTACGGTCCGTTGATTTACAATTAC
66 TTCTTATGGTCCACTGATTTACAATCAC
* *
24560670 GACCTTTTACTTATGGGATTTTACGAATCTTGCGGTTTGT-TGATTTACGATCACGACCTTTGGC
1 GACCTTTTACTTATGGGATTTTACAAATCTCGCGGTTT-TCTGATTTACGATCACGACCTTTGGC
* *
24560734 TTTCTTATGATCCATTGATTTACAATCAC
65 TTTCTTATGGTCCACTGATTTACAATCAC
* * ** * *
24560763 GACCTTTTACTTATGGGATTTTATAAATCTCGCGGGTCACTGATTTACGATCATGACATTTGGCT
1 GACCTTTTACTTATGGGATTTTACAAATCTCGCGGTTTTCTGATTTACGATCACGACCTTTGGCT
* *
24560828 TTATTATGGTTCACTGATTTACAATCAC
66 TTCTTATGGTCCACTGATTTACAATCAC
24560856 GACCTTT
1 GACCTTT
24560863 GGCTTTCTCA
Statistics
Matches: 169, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
93 168 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (93 bp):
GACCTTTTACTTATGGGATTTTACAAATCTCGCGGTTTTCTGATTTACGATCACGACCTTTGGCT
TTCTTATGGTCCACTGATTTACAATCAC
Found at i:24560842 original size:39 final size:39
Alignment explanation
Indices: 24560799--24560892 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 39
24560789 ATCTCGCGGG
* *
24560799 TCACTGATTTACGATCATGACATTTGGCTTTATTATGGT
1 TCACTGATTTACGATCACGACATTTGGCTTTATCATGGT
* * *
24560838 TCACTGATTTACAATCACGACCTTTGGCTTTCTCATGGT
1 TCACTGATTTACGATCACGACATTTGGCTTTATCATGGT
* *
24560877 CCGCTGATTTACGATC
1 TCACTGATTTACGATC
24560893 GCAACCTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.39
Consensus pattern (39 bp):
TCACTGATTTACGATCACGACATTTGGCTTTATCATGGT
Found at i:24569204 original size:29 final size:28
Alignment explanation
Indices: 24569158--24569227 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 28
24569148 TATAAAAATT
* *
24569158 ATAATTTTTAAAGTTTTTAAATAAAATTTTA
1 ATAATTTTTATA--TTTT-AATAAAACTTTA
* * *
24569189 ATATTTTTTATATTTTTATTAAACTTTA
1 ATAATTTTTATATTTTAATAAAACTTTA
24569217 ATAATTTTTAT
1 ATAATTTTTAT
24569228 TGATTTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 19 0.58
29 4 0.12
31 10 0.30
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (28 bp):
ATAATTTTTATATTTTAATAAAACTTTA
Found at i:24570166 original size:12 final size:12
Alignment explanation
Indices: 24570149--24570173 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24570139 GACCTAATTA
24570149 TGATTGTATTTG
1 TGATTGTATTTG
24570161 TGATTGTATTTG
1 TGATTGTATTTG
24570173 T
1 T
24570174 AACTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (12 bp):
TGATTGTATTTG
Found at i:24570546 original size:15 final size:15
Alignment explanation
Indices: 24570528--24570558 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24570518 AAGTAAGCTT
24570528 TTTTTGAGTTAATTG
1 TTTTTGAGTTAATTG
24570543 TTTTTGAGTTAATTG
1 TTTTTGAGTTAATTG
24570558 T
1 T
24570559 ATCAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (15 bp):
TTTTTGAGTTAATTG
Found at i:24571312 original size:26 final size:27
Alignment explanation
Indices: 24571248--24571313 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
24571238 AATAAAAATG
24571248 ATACTT-TTAA-AAT-TATTAATTAAA
1 ATACTTATTAACAATATATTAATTAAA
* *
24571272 ATA-TTATTATTCAATAT-TTAATTCAA
1 ATACTTATTA-ACAATATATTAATTAAA
24571298 ATACTTATTAACAATA
1 ATACTTATTAACAATA
24571314 AAATTTATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 2 0.06
24 6 0.18
26 19 0.56
27 7 0.21
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (27 bp):
ATACTTATTAACAATATATTAATTAAA
Found at i:24571599 original size:17 final size:18
Alignment explanation
Indices: 24571567--24571600 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24571557 GTGGGAGGGC
*
24571567 TTGGATAAAAATATAAAT
1 TTGGACAAAAATATAAAT
24571585 TTGGACAAAAA-ATAAA
1 TTGGACAAAAATATAAA
24571601 GCTCATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.26
Consensus pattern (18 bp):
TTGGACAAAAATATAAAT
Found at i:24571737 original size:21 final size:21
Alignment explanation
Indices: 24571691--24571750 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
24571681 AAAAAAGCTA
*
24571691 TTTTTTTATTATTTTCTTGCT
1 TTTTTTTATTGTTTTCTTGCT
24571712 TTTTTTTATTGTTTTAC-TG-T
1 TTTTTTTATTGTTTT-CTTGCT
24571732 TATTTTCTTATTGTTTTCT
1 T-TTTT-TTATTGTTTTCT
24571751 CACTATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 2 0.06
21 21 0.62
22 11 0.32
ACGTcount: A:0.10, C:0.08, G:0.07, T:0.75
Consensus pattern (21 bp):
TTTTTTTATTGTTTTCTTGCT
Found at i:24571737 original size:22 final size:22
Alignment explanation
Indices: 24571687--24571759 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
24571677 AAAAAAAAAA
*
24571687 GCTATTTTTTTATTATTTTCTT
1 GCTATTTTTTTATTGTTTTCTT
24571709 GCT-TTTTTTTATTGTTTTAC-T
1 GCTATTTTTTTATTGTTTT-CTT
* * *
24571730 GTTATTTTCTTATTGTTTTCTC
1 GCTATTTTTTTATTGTTTTCTT
*
24571752 ACTATTTT
1 GCTATTTT
24571760 ACTATCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
21 18 0.43
22 24 0.57
ACGTcount: A:0.12, C:0.11, G:0.07, T:0.70
Consensus pattern (22 bp):
GCTATTTTTTTATTGTTTTCTT
Found at i:24571791 original size:22 final size:22
Alignment explanation
Indices: 24571754--24571801 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
24571744 GTTTTCTCAC
24571754 TATTTTACTATCATTTTACTAT
1 TATTTTACTATCATTTTACTAT
*
24571776 TATTTTACTA-CTATTTTATTAT
1 TATTTTACTATC-ATTTTACTAT
24571798 TATT
1 TATT
24571802 ATTTGAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTACTATCATTTTACTAT
Found at i:24571801 original size:11 final size:11
Alignment explanation
Indices: 24571689--24571852 Score: 62
Period size: 11 Copynumber: 14.6 Consensus size: 11
24571679 AAAAAAAAGC
*
24571689 TATTTTTTTAT
1 TATTTTATTAT
* *
24571700 TATTTTCTTGCT
1 TATTTTATT-AT
24571712 T-TTTT-TTAT
1 TATTTTATTAT
* * *
24571721 TGTTTTACTGT
1 TATTTTATTAT
*
24571732 TATTTTCTTAT
1 TATTTTATTAT
* * * *
24571743 TGTTTTCTCAC
1 TATTTTATTAT
*
24571754 TATTTTACTAT
1 TATTTTATTAT
* *
24571765 CATTTTACTAT
1 TATTTTATTAT
* *
24571776 TATTTTACTAC
1 TATTTTATTAT
24571787 TATTTTATTAT
1 TATTTTATTAT
*
24571798 TATTATTTGAATAT
1 TA-T-TTT-ATTAT
* * * *
24571812 TATATAACTCT
1 TATTTTATTAT
24571823 TATTTTATTAT
1 TATTTTATTAT
* *
24571834 TAATTTTGTTAC
1 T-ATTTTATTAT
24571846 TATTTTA
1 TATTTTA
24571853 GAAATATTTG
Statistics
Matches: 112, Mismatches: 34, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
9 2 0.02
10 6 0.05
11 81 0.72
12 13 0.12
13 4 0.04
14 6 0.05
ACGTcount: A:0.23, C:0.09, G:0.04, T:0.65
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:24581150 original size:21 final size:21
Alignment explanation
Indices: 24581124--24581165 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
24581114 CAAATGGATG
24581124 AACCCTAACAATGGATTTTTC
1 AACCCTAACAATGGATTTTTC
*
24581145 AACCCTAACAATGGCTTTTTC
1 AACCCTAACAATGGATTTTTC
24581166 TTCTCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
AACCCTAACAATGGATTTTTC
Found at i:24583036 original size:21 final size:21
Alignment explanation
Indices: 24583012--24583056 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24583002 ACTTTCTTTT
*
24583012 TTTTTCGTGTTCT-TCAATCTC
1 TTTTTC-TGTTCTCTCAAGCTC
*
24583033 TTTTTCTTTTCTCTCAAGCTC
1 TTTTTCTGTTCTCTCAAGCTC
24583054 TTT
1 TTT
24583057 CTTTCTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.09, C:0.24, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTTCTGTTCTCTCAAGCTC
Found at i:24591960 original size:46 final size:46
Alignment explanation
Indices: 24591910--24592085 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
24591900 TGGTTGAGCA
24591910 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
24591956 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
24592001 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
24592049 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24592086 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:24592066 original size:93 final size:93
Alignment explanation
Indices: 24591907--24592078 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24591897 GGATGGTTGA
* *
24591907 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24591972 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
24592000 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24592065 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
24592079 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:24597296 original size:11 final size:11
Alignment explanation
Indices: 24597280--24597315 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
24597270 ACCTTAATAA
24597280 ATTTTTTTTTC
1 ATTTTTTTTTC
24597291 A-TTTTTTTTC
1 ATTTTTTTTTC
*
24597301 ATTTTTTTTTG
1 ATTTTTTTTTC
24597312 ATTT
1 ATTT
24597316 CTTGATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.81
Consensus pattern (11 bp):
ATTTTTTTTTC
Found at i:24597297 original size:10 final size:10
Alignment explanation
Indices: 24597282--24597309 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
24597272 CTTAATAAAT
24597282 TTTTTTTTCA
1 TTTTTTTTCA
24597292 TTTTTTTTCA
1 TTTTTTTTCA
24597302 TTTTTTTT
1 TTTTTTTT
24597310 TGATTTCTTG
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:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:24599808 original size:26 final size:24
Alignment explanation
Indices: 24599750--24599809 Score: 59
Period size: 26 Copynumber: 2.3 Consensus size: 24
24599740 ATAGAAACAC
24599750 AATAATAATAAAACTACAATTGAT
1 AATAATAATAAAACTACAATTGAT
*
24599774 ACACAAATAATAAAACTATACTAA-TGAT
1 A-A-TAATAATAAAAC--TAC-AATTGAT
24599802 AATAATAA
1 AATAATAA
24599810 ACCTAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
24 1 0.03
25 1 0.03
26 16 0.55
27 1 0.03
28 8 0.28
29 2 0.07
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (24 bp):
AATAATAATAAAACTACAATTGAT
Found at i:24599854 original size:36 final size:32
Alignment explanation
Indices: 24599781--24599842 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 32
24599771 GATACACAAA
*
24599781 TAATAAAACTATACTAATGATAATAATAAACC
1 TAATAAAACTATACTAATAATAATAATAAACC
24599813 TAATAAATACTACTACTAATAATAA-AATAA
1 TAATAAA-ACTA-TACTAATAATAATAATAA
24599843 TAACATTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 7 0.26
33 9 0.33
34 11 0.41
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (32 bp):
TAATAAAACTATACTAATAATAATAATAAACC
Found at i:24599855 original size:12 final size:12
Alignment explanation
Indices: 24599829--24599906 Score: 58
Period size: 12 Copynumber: 6.7 Consensus size: 12
24599819 ATACTACTAC
*
24599829 TAATAATAA-AA
1 TAATAACAATAA
*
24599840 TAATAACATTAA
1 TAATAACAATAA
*
24599852 TAATAAAAATAA
1 TAATAACAATAA
*
24599864 TAA-AACAAAAAA
1 TAATAAC-AATAA
24599876 TAA-AACAACTAA
1 TAATAACAA-TAA
24599888 T-ATGAA-AATAA
1 TAAT-AACAATAA
24599899 TAATAACA
1 TAATAACA
24599907 TAAACAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
11 18 0.34
12 33 0.62
13 2 0.04
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.23
Consensus pattern (12 bp):
TAATAACAATAA
Found at i:24601807 original size:43 final size:43
Alignment explanation
Indices: 24601759--24601924 Score: 176
Period size: 43 Copynumber: 3.9 Consensus size: 43
24601749 GTTACCGAGA
*
24601759 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
24601802 TGTGATTACGTGTAGGACCATGTTTGGGACATTGGCATCGTTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * * *
24601846 T-CGATTTCATGTAAGACCCTGTTTAGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
24601887 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
24601925 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 88 0.87
44 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:24608631 original size:46 final size:46
Alignment explanation
Indices: 24608578--24608753 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
24608568 TATTTGGGCA
24608578 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
24608624 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
24608671 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
24608717 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24608754 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:24608733 original size:93 final size:93
Alignment explanation
Indices: 24608574--24608745 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24608564 GGGATATTTG
* *
24608574 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
24608639 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
24608667 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
24608732 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
24608746 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:24611727 original size:15 final size:15
Alignment explanation
Indices: 24611707--24611775 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
24611697 GTATCTTGGG
24611707 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
24611722 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
24611737 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
24611752 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
24611767 TTTCTTTAT
1 TTTCTTTAT
24611776 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:24611776 original size:30 final size:30
Alignment explanation
Indices: 24611698--24611785 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
24611688 CATAGTATCG
* * * *
24611698 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
24611728 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
24611758 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
24611786 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:24614220 original size:46 final size:46
Alignment explanation
Indices: 24614167--24614342 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
24614157 TATTTGGGCA
24614167 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
24614213 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
24614260 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
24614306 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24614343 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:24614322 original size:93 final size:93
Alignment explanation
Indices: 24614163--24614334 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24614153 GGGATATTTG
* *
24614163 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
24614228 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
24614256 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
24614321 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
24614335 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:24615655 original size:14 final size:14
Alignment explanation
Indices: 24615636--24615662 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24615626 GGTCTTGGGT
24615636 ACGGGGTGTTACAG
1 ACGGGGTGTTACAG
24615650 ACGGGGTGTTACA
1 ACGGGGTGTTACA
24615663 ATACCCAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (14 bp):
ACGGGGTGTTACAG
Done.