Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001343.1 Hibiscus syriacus cultivar Beakdansim tig00002621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 86218
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:126 original size:27 final size:26
Alignment explanation
Indices: 67--130 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
57 TCGAGGTTAC
* *
67 TTCAGTCATCTTGGAGTTCTAGGTAT
1 TTCAATCATTTTGGAGTTCTAGGTAT
93 TTCAATCATTTTGGAGTT-TAGGGGTAT
1 TTCAATCATTTTGGAGTTCTA--GGTAT
*
120 TTTAATCATTT
1 TTCAATCATTT
131 GAATATCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 16 0.48
27 15 0.45
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (26 bp):
TTCAATCATTTTGGAGTTCTAGGTAT
Found at i:3090 original size:19 final size:19
Alignment explanation
Indices: 3055--3092 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3045 TAAAATTATT
*
3055 TTTTATTATATTATATTTA
1 TTTTATTATATGATATTTA
3074 TTTTA-TATATGATTATTTA
1 TTTTATTATATGA-TATTTA
3093 AAGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATTATATGATATTTA
Found at i:4910 original size:27 final size:27
Alignment explanation
Indices: 4841--4910 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
4831 ATATGAATTT
* *
4841 AATAAATATTATAGAAATTGAAATATA
1 AATAAATATTACACAAATTGAAATATA
4868 AACT-AATATTACACAAATT-AAATAAATA
1 AA-TAAATATTACACAAATTGAAAT--ATA
4896 AATAAATATTA-ACAA
1 AATAAATATTACACAA
4911 TAATTAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 4 0.11
27 20 0.54
28 13 0.35
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (27 bp):
AATAAATATTACACAAATTGAAATATA
Found at i:7755 original size:16 final size:16
Alignment explanation
Indices: 7731--7774 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
7721 GTTACTACAC
*
7731 GACCGCAATATCCAGT
1 GACCACAATATCCAGT
*
7747 GACCACAATATTCAGT
1 GACCACAATATCCAGT
7763 GACCACAATATC
1 GACCACAATATC
7775 ATACATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (16 bp):
GACCACAATATCCAGT
Found at i:15118 original size:56 final size:58
Alignment explanation
Indices: 15022--15170 Score: 194
Period size: 56 Copynumber: 2.6 Consensus size: 58
15012 TTTGGATGAA
* * ** *
15022 TTTAGGGATAAAATTAGAATATTGAAAAGTTTGGGGACTAATATAGAA-AGGTCATAG
1 TTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATATAGAAGAGATCATAG
* * *
15079 TTT-GTGATGAAATTAGAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAGATCATAG
1 TTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATATAGAA-GAGATCATAG
*
15137 TTTAGGGATGAAATTAGAATATTCTAAAGTTTAA
1 TTTAGGGATGAAATTAGAATATTCAAAAGTTTAA
15171 AAATTAATTT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
56 37 0.47
57 3 0.04
58 11 0.14
59 27 0.35
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (58 bp):
TTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATATAGAAGAGATCATAG
Found at i:15154 original size:30 final size:28
Alignment explanation
Indices: 15073--15156 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 28
15063 TATAGAAAGG
* *
15073 TCATAGTTT-GTGATGAAATTAGAATGT
1 TCATAGTTTAGGGATGAAATTAGAATGA
* * *
15100 TCAAAAGTTTAAGGACT-AATTTAGAATGAGA
1 TC-ATAGTTTAGGGA-TGAAATTAGAAT--GA
15131 TCATAGTTTAGGGATGAAATTAGAAT
1 TCATAGTTTAGGGATGAAATTAGAAT
15157 ATTCTAAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
27 2 0.05
28 6 0.14
29 12 0.28
30 20 0.47
31 3 0.07
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (28 bp):
TCATAGTTTAGGGATGAAATTAGAATGA
Found at i:15179 original size:59 final size:58
Alignment explanation
Indices: 15026--15202 Score: 162
Period size: 59 Copynumber: 3.1 Consensus size: 58
15016 GATGAATTTA
* * **** *
15026 GGGATAAAATTAGAATATTGAAAAGTTTGGGGACTAATATAGAAA-G-G-TCATAGTTT
1 GGGATGAAATTAGAATATTCAAAAGTTTAAAAACTAATTTA-AAATGAGATCATAGTTT
* * ** *
15082 GTGATGAAATTAGAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAGATCATAGTTT
1 GGGATGAAATTAGAATATTCAAAAGTTTAAAAACTAATTTAAAATGAGATCATAGTTT
* * * *
15140 AGGGATGAAATTAGAATATTCTAAAGTTTAAAAATTAATTTAAAATGAAAGTTATAGTTT
1 -GGGATGAAATTAGAATATTCAAAAGTTTAAAAACTAATTTAAAATGAGA-TCATAGTTT
15200 GGG
1 GGG
15203 GACATATGAT
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
55 2 0.02
56 35 0.35
57 1 0.01
58 9 0.09
59 44 0.44
60 8 0.08
ACGTcount: A:0.42, C:0.03, G:0.21, T:0.33
Consensus pattern (58 bp):
GGGATGAAATTAGAATATTCAAAAGTTTAAAAACTAATTTAAAATGAGATCATAGTTT
Found at i:15373 original size:28 final size:30
Alignment explanation
Indices: 15311--15379 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
15301 TTGTGAATAT
15311 ATAATTTTAAATGAACAAACATGAATACAC
1 ATAATTTTAAATGAACAAACATGAATACAC
* ** *
15341 A-AA-TTTAAATGAACGAGGATGATTACA-
1 ATAATTTTAAATGAACAAACATGAATACAC
15368 ATAATTTTAAAT
1 ATAATTTTAAAT
15380 AAATGAACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 1 0.03
28 22 0.67
29 9 0.27
30 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (30 bp):
ATAATTTTAAATGAACAAACATGAATACAC
Found at i:15432 original size:2 final size:2
Alignment explanation
Indices: 15425--15460 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15415 AAACAAACAA
15425 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15461 TCAAGCTCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34265 original size:229 final size:226
Alignment explanation
Indices: 33860--34308 Score: 783
Period size: 229 Copynumber: 2.0 Consensus size: 226
33850 GTAAATTATC
* *
33860 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA-CTTTAGT
**
33925 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
65 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
33990 TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
130 TGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
34055 AAACATAAATTACATAACTTTCAAAAAAGTATA
195 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
34088 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTAAATTA-TTTG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATT--ATTACTTTA
*
34152 GTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
63 GTTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
34217 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
128 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
34282 TGAAACATAAATTACATAACTTTAAAA
193 TGAAACATAAATTACATAACTTTAAAA
34309 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
228 40 0.19
229 167 0.79
231 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTACTTTAGTT
AATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTT
GTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
AACATAAATTACATAACTTTAAAAAAGTATA
Found at i:34564 original size:20 final size:19
Alignment explanation
Indices: 34541--34587 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
34531 CGATATAACA
*
34541 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
34561 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
34581 GGTAAAA
1 GGTAAAA
34588 TGATACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:36865 original size:21 final size:21
Alignment explanation
Indices: 36818--36882 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
36808 AAGACAATCA
* *
36818 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
36840 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
36860 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
36881 AG
1 AG
36883 GCATAAGGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:36957 original size:32 final size:32
Alignment explanation
Indices: 36916--36976 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
36906 AAATAGATGG
*
36916 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
* *
36948 AGTGGTGAAAGAAGTTGGGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
36977 GTGATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.23
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:38793 original size:19 final size:19
Alignment explanation
Indices: 38769--38817 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
38759 AATGTCGAGT
38769 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
38788 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
38807 TATTTTTGTAT
1 TAATTTTGTAT
38818 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:39597 original size:199 final size:199
Alignment explanation
Indices: 38989--40596 Score: 2962
Period size: 199 Copynumber: 8.2 Consensus size: 199
38979 GTCAATATTT
*
38989 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCTAGAATGAATTAAA
1 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
39054 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
66 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
39119 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
131 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
39184 AATA
196 AATA
39188 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AA
1 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
39252 AACAAGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
66 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
39315 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
131 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
39380 AATA
196 AATA
39384 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
1 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
39449 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
66 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
39514 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAATCGGTACAATTATACCGGTTTTATGAGAG
131 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
39579 AATA
196 AATA
39583 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
1 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
39648 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
66 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
39713 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
131 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
39778 AATA
196 AATA
39782 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
1 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
39847 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
66 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
39912 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
131 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
39977 AATA
196 AATA
39981 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
1 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
40046 AACAAGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
66 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
40109 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATGAGAG
131 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
40174 AATA
196 AATA
40178 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
1 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
*
40243 AACAAGGTGCACCCATAAAGTGTCGATCC------AAAAA---TC-AT--C--GA--A-C---CC
66 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
40288 AAA-AGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
131 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
40352 AATA
196 AATA
40356 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
1 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
40421 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
66 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
40486 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
131 CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
40551 AATA
196 AATA
40555 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
1 TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
40597 CTAATTTAAA
Statistics
Matches: 1371, Mismatches: 14, Indels: 48
0.96 0.01 0.03
Matches are distributed among these distances:
178 158 0.12
179 4 0.00
182 1 0.00
183 1 0.00
184 5 0.00
185 1 0.00
187 3 0.00
188 2 0.00
189 2 0.00
190 3 0.00
192 1 0.00
193 5 0.00
194 1 0.00
195 1 0.00
196 164 0.12
197 227 0.17
198 35 0.03
199 757 0.55
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAA
AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATA
Found at i:40380 original size:178 final size:178
Alignment explanation
Indices: 40081--40596 Score: 816
Period size: 178 Copynumber: 2.8 Consensus size: 178
40071 ATCCATATAA
*
40081 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCAAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAAC
*
40146 CGATACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
40211 GTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCAT
131 GTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCAT
40259 AAAGTGTCGATCCAAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCAAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAAC
40324 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
40389 GTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCAT
131 GTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCAT
40437 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
1 AAAGTGTCGATCC--------AAA------A----A---TCATCGAACCCAAAAGTATAATGTAA
*
40502 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAAT
45 TAAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAAT
40567 GTGTCGACACTAATATAGTTTGTGTCGATA
110 GTGTCGACACTAATATAGTTTGTGTCGATA
40597 CTAATTTAAA
Statistics
Matches: 314, Mismatches: 3, Indels: 21
0.93 0.01 0.06
Matches are distributed among these distances:
178 189 0.60
186 3 0.01
192 1 0.00
196 1 0.00
199 120 0.38
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (178 bp):
AAAGTGTCGATCCAAAAATCATCGAACCCAAAAGTATAATGTAATAAGTAATTTTTCAATCTAAC
CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
GTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACCCAT
Found at i:42070 original size:18 final size:18
Alignment explanation
Indices: 42049--42116 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
42039 AGCGGTCGCA
42049 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
42067 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
42088 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
42109 GAAGATGA
1 GAAGATGA
42117 TGATGAAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:42073 original size:6 final size:6
Alignment explanation
Indices: 42049--42128 Score: 70
Period size: 6 Copynumber: 13.3 Consensus size: 6
42039 AGCGGTCGCA
* * * * * *
42049 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** *
42097 GAAGCT GGCGAT GAAGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
42129 TGATCCAAAC
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:42084 original size:3 final size:3
Alignment explanation
Indices: 42064--42132 Score: 57
Period size: 3 Copynumber: 23.0 Consensus size: 3
42054 TGAAGCTGAC
* * * * * ** *
42064 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
42112 GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT
42133 CCAAACAAGT
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:42125 original size:12 final size:12
Alignment explanation
Indices: 42049--42132 Score: 78
Period size: 12 Copynumber: 7.0 Consensus size: 12
42039 AGCGGTCGCA
* *
42049 GAAGATGAAGCT
1 GAAGATGATGAT
* *
42061 GACGATGAAGAT
1 GAAGATGATGAT
*
42073 GACGATGATGAT
1 GAAGATGATGAT
* *
42085 GATGATGACGAT
1 GAAGATGATGAT
* **
42097 GAAGCTGGCGAT
1 GAAGATGATGAT
42109 GAAGATGATGAT
1 GAAGATGATGAT
42121 GAAGATGATGAT
1 GAAGATGATGAT
42133 CCAAACAAGT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 61 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (12 bp):
GAAGATGATGAT
Found at i:42127 original size:18 final size:18
Alignment explanation
Indices: 42049--42128 Score: 79
Period size: 18 Copynumber: 4.4 Consensus size: 18
42039 AGCGGTCGCA
* *
42049 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
42067 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
42085 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
**
42103 GGCGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
42121 GAAGATGA
1 GAAGATGA
42129 TGATCCAAAC
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.20
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:43909 original size:184 final size:184
Alignment explanation
Indices: 43600--43943 Score: 589
Period size: 184 Copynumber: 1.9 Consensus size: 184
43590 CTTTCAACAT
* *
43600 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
* *
43665 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
*
43730 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
** * * *
43784 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
43849 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAA
66 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
43914 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACCATTTAAAAAAGTGTCG
43944 GTAATTTGAA
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 149 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (184 bp):
ATTATAATAAAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
AATGTGTCGATACCATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:46442 original size:25 final size:25
Alignment explanation
Indices: 46408--46472 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
46398 TTATCATTAA
46408 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
46433 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
46458 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
46473 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:46790 original size:23 final size:23
Alignment explanation
Indices: 46759--46822 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
46749 ATAGGTAAAC
*
46759 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
46782 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
46805 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
46823 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:46829 original size:23 final size:23
Alignment explanation
Indices: 46759--46831 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
46749 ATAGGTAAAC
* **
46759 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
46782 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
46805 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
46828 ATAT
1 ATAT
46832 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:47588 original size:42 final size:42
Alignment explanation
Indices: 47525--47682 Score: 282
Period size: 42 Copynumber: 3.8 Consensus size: 42
47515 TTCCCCGAAA
47525 TCCCGTGTTTGTTTC-CTGTAATTCGTTTTCCGGAAAATGTTT
1 TCCCGTGTTTGTTTCAC-GTAATTCGTTTTCCGGAAAATGTTT
*
47567 TCCCGTGTTTGTTTCACGTAATTCGTTTTTCGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
*
47609 TCCCGTGTTTGTTTCACGTAATTCGTTTTCGGGAAAATGTTT
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
47651 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCG
1 TCCCGTGTTTGTTTCACGTAATTCGTTTTCCG
47683 AAACGTAATT
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
42 110 0.99
43 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.20, T:0.47
Consensus pattern (42 bp):
TCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
Found at i:47898 original size:22 final size:22
Alignment explanation
Indices: 47870--47972 Score: 68
Period size: 24 Copynumber: 4.4 Consensus size: 22
47860 TAATTATTAA
*
47870 AATATTTTAA-AATATATTTATT
1 AATATTTTAATAATATA-ATATT
47892 AATATTTATAATAATATAATATT
1 AATATTT-TAATAATATAATATT
* *
47915 -ATATTTTTAATATTATATAAAATC
1 AATA-TTTTAATA--ATATAATATT
47939 AATTATATTATAATAATATAAGATATT
1 AA-TAT-TT-TAATAATAT-A-ATATT
47966 -ATATTTT
1 AATATTTT
47973 TATTTTAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 21
0.71 0.05 0.23
Matches are distributed among these distances:
22 15 0.23
23 11 0.17
24 16 0.25
25 9 0.14
26 6 0.09
27 8 0.12
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (22 bp):
AATATTTTAATAATATAATATT
Found at i:48027 original size:20 final size:20
Alignment explanation
Indices: 48004--48071 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
47994 TTTTTTTATA
*
48004 TATTTAATAATGAATAATAT
1 TATTTAATAATAAATAATAT
*
48024 TATTTATATATTTAAAT-A-A-
1 TATTTA-ATA-ATAAATAATAT
48043 TATTTAATAATAAATAA-AT
1 TATTTAATAATAAATAATAT
48062 TATTTTAATA
1 TA-TTTAATA
48072 TTTTAAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 5 0.12
18 5 0.12
19 8 0.20
20 14 0.35
21 4 0.10
22 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (20 bp):
TATTTAATAATAAATAATAT
Found at i:48043 original size:22 final size:22
Alignment explanation
Indices: 48016--48126 Score: 65
Period size: 25 Copynumber: 5.0 Consensus size: 22
48006 TTTAATAATG
48016 AATAATATTATTTATATATTTA
1 AATAATATTATTTATATATTTA
*
48038 AAT-A-A-TATTTA-ATA-ATA
1 AATAATATTATTTATATATTTA
48055 AATAA-ATTATTT-TAATATTTTAA
1 AATAATATTATTTAT-ATA-TTT-A
* * * *
48078 AATAATAATATTAAGTTTTATGATA
1 AATAATATTATTTA--TATAT-TTA
48103 AATAATATTATTTATTATATTTA
1 AATAATATTATTTA-TATATTTA
48126 A
1 A
48127 TATTTGTAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 23
0.67 0.10 0.23
Matches are distributed among these distances:
17 5 0.07
18 5 0.07
19 11 0.16
20 4 0.06
21 1 0.01
22 4 0.06
23 9 0.13
24 10 0.15
25 14 0.21
26 3 0.04
27 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATAATATTATTTATATATTTA
Found at i:48045 original size:11 final size:10
Alignment explanation
Indices: 47976--48054 Score: 58
Period size: 10 Copynumber: 8.0 Consensus size: 10
47966 ATATTTTTAT
47976 TTTAATAATA
1 TTTAATAATA
*
47986 TATAATAAT-
1 TTTAATAATA
**
47995 TTTTTTATATA
1 TTTAATA-ATA
48006 TTTAATAATGA
1 TTTAATAAT-A
* *
48017 -ATAATATTA
1 TTTAATAATA
48026 TTT-AT-ATA
1 TTTAATAATA
48034 TTTAAATAATA
1 TTT-AATAATA
48045 TTTAATAATA
1 TTTAATAATA
48055 AATAAATTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
8 5 0.10
9 7 0.13
10 28 0.54
11 12 0.23
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (10 bp):
TTTAATAATA
Found at i:48049 original size:39 final size:40
Alignment explanation
Indices: 48003--48084 Score: 116
Period size: 39 Copynumber: 2.1 Consensus size: 40
47993 ATTTTTTTAT
*
48003 ATATTTAATAATGAATAATATTA-TTT-ATATATTT-AAATA
1 ATATTTAATAATAAATAA-ATTATTTTAATAT-TTTAAAATA
48042 ATATTTAATAATAAATAAATTATTTTAATATTTTAAAATA
1 ATATTTAATAATAAATAAATTATTTTAATATTTTAAAATA
48082 ATA
1 ATA
48085 ATATTAAGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
38 4 0.10
39 23 0.59
40 12 0.31
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (40 bp):
ATATTTAATAATAAATAAATTATTTTAATATTTTAAAATA
Found at i:48052 original size:32 final size:31
Alignment explanation
Indices: 47881--48054 Score: 102
Period size: 29 Copynumber: 5.8 Consensus size: 31
47871 ATATTTTAAA
* *
47881 ATATATTTATTAATATTTATAATAATATAATATT
1 ATATATTTAATAATA-TT-TAATAATATTAT-TT
* * *
47915 ATAT-TTT--TAATA-TTATATAAAATCAATT
1 ATATATTTAATAATATTTA-ATAATATTATTT
* * *
47943 ATAT-TATAATAATA-TAAGATATTA-TATTT
1 ATATATTTAATAATATTTA-ATAATATTATTT
* * *
47972 TTAT-TTTAATAATATATAATAAT-TTTTTT
1 ATATATTTAATAATATTTAATAATATTATTT
*
48001 ATATATTTAAT-A-A-TGAATAATATTATTT
1 ATATATTTAATAATATTTAATAATATTATTT
48029 ATATATTTAAATAATATTTAATAATA
1 ATATATTT-AATAATATTTAATAATA
48055 AATAAATTAT
Statistics
Matches: 108, Mismatches: 21, Indels: 24
0.71 0.14 0.16
Matches are distributed among these distances:
27 6 0.06
28 24 0.22
29 38 0.35
30 19 0.18
31 6 0.06
32 8 0.07
33 3 0.03
34 4 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.52
Consensus pattern (31 bp):
ATATATTTAATAATATTTAATAATATTATTT
Found at i:48257 original size:20 final size:20
Alignment explanation
Indices: 48220--48258 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48210 TTTCCAGATG
**
48220 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATCAAATTCA
*
48240 TTTTCCAGAATTCAAATTC
1 TTTTCCAGAAATCAAATTC
48259 CAGTAATTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATCAAATTCA
Found at i:48268 original size:15 final size:15
Alignment explanation
Indices: 48232--48291 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 15
48222 TTCCAGAAAT
**
48232 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
48247 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
48261 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
48276 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
48291 G
1 G
48292 AAAACCAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 12 0.32
15 26 0.68
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:48269 original size:29 final size:30
Alignment explanation
Indices: 48232--48291 Score: 113
Period size: 29 Copynumber: 2.0 Consensus size: 30
48222 TTCCAGAAAT
48232 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
48261 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
48291 G
1 G
48292 AAAACCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.38
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:50283 original size:17 final size:17
Alignment explanation
Indices: 50261--50298 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
50251 CTTTCGGGTT
50261 TACCAAAGGGTCTGAGC
1 TACCAAAGGGTCTGAGC
50278 TACCAAAGGGTCTGAGC
1 TACCAAAGGGTCTGAGC
50295 TACC
1 TACC
50299 GAAACTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (17 bp):
TACCAAAGGGTCTGAGC
Found at i:53514 original size:16 final size:17
Alignment explanation
Indices: 53493--53544 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
53483 TTTTTAATTT
53493 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
53509 AATTACTCCT-ACTTT--
1 AATTACT-CTAACTTTCA
*
53524 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
53541 AATT
1 AATT
53545 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 11 0.38
16 7 0.24
17 8 0.28
18 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:58153 original size:26 final size:27
Alignment explanation
Indices: 58101--58153 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
58091 TAAAGTTTAA
* *
58101 AAATATAAAATTATTGAATTTTATTTT
1 AAATATAAAATTATTAAATTATATTTT
58128 AAATAT-AAATTATTAAACTTAT-TTTT
1 AAATATAAAATTATTAAA-TTATATTTT
58154 CTTTATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (27 bp):
AAATATAAAATTATTAAATTATATTTT
Found at i:58210 original size:25 final size:24
Alignment explanation
Indices: 58155--58210 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
58145 CTTATTTTTC
58155 TTTATTTAAAAATATAGAAATATT
1 TTTATTTAAAAATATAGAAATATT
*** * *
58179 GAAATTTAAATATCATATAAATATT
1 TTTATTTAAAAAT-ATAGAAATATT
58204 TTTATTT
1 TTTATTT
58211 CTTTGTTTTT
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTATTTAAAAATATAGAAATATT
Found at i:61602 original size:22 final size:22
Alignment explanation
Indices: 61577--61620 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
61567 CATCTTTGCA
*
61577 TTTGCATGAGCATATTTACATC
1 TTTGCATGAGCATATATACATC
* *
61599 TTTGCATTAGCATCTATACATC
1 TTTGCATGAGCATATATACATC
61621 GTACATTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (22 bp):
TTTGCATGAGCATATATACATC
Found at i:62515 original size:2 final size:2
Alignment explanation
Indices: 62508--62541 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
62498 TATACTCATA
62508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62542 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63547 original size:16 final size:16
Alignment explanation
Indices: 63526--63556 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
63516 TCCCACCGAG
63526 AAAACATACATACATC
1 AAAACATACATACATC
63542 AAAACATACATACAT
1 AAAACATACATACAT
63557 GACACATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAACATACATACATC
Found at i:63980 original size:37 final size:37
Alignment explanation
Indices: 63910--64097 Score: 139
Period size: 37 Copynumber: 5.3 Consensus size: 37
63900 CATCTCGCTA
* * * *
63910 GAGATATTGTTTTCTTAAAAGTAAATTTTGTCTCACTT
1 GAGACATTTTTTTCTTAAAA-CAAATTTCGTCTCACTT
63948 GAGACATTTTTTTCTTAAAACAAATTTCGTCTCACTT
1 GAGACATTTTTTTCTTAAAACAAATTTCGTCTCACTT
* * *
63985 TAGACATTTTTCTT-TGGAACACAAA--T--T-TCA---
1 GAGACATTTTT-TTCT-TAAAACAAATTTCGTCTCACTT
* * *
64015 -A-A-GTTGTTTTTCTTAAAAACAAATTTTGTCTCATTT
1 GAGACATT-TTTTTCTT-AAAACAAATTTCGTCTCACTT
* *
64051 GATACATTTTTCTCTTAAAACAAATTTCGTCTCACTT
1 GAGACATTTTTTTCTTAAAACAAATTTCGTCTCACTT
64088 GAGACATTTT
1 GAGACATTTT
64098 CCTTCGGAAC
Statistics
Matches: 119, Mismatches: 15, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
27 4 0.03
28 12 0.10
29 1 0.01
30 1 0.01
32 1 0.01
33 6 0.05
34 1 0.01
36 1 0.01
37 55 0.46
38 35 0.29
39 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (37 bp):
GAGACATTTTTTTCTTAAAACAAATTTCGTCTCACTT
Found at i:64112 original size:38 final size:37
Alignment explanation
Indices: 64030--64116 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
64020 GTTTTTCTTA
* * * * **
64030 AAAACAAATTTTGTCTCATTTGATACATTTTTCTCTT
1 AAAACAAATTTCGTCTCACTTGAGACATTTTCCTCGG
64067 AAAACAAATTTCGTCTCACTTGAGACATTTTCCTTCGG
1 AAAACAAATTTCGTCTCACTTGAGACATTTTCC-TCGG
*
64105 AACACAAATTTC
1 AAAACAAATTTC
64117 AAAGTTATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 29 0.69
38 13 0.31
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (37 bp):
AAAACAAATTTCGTCTCACTTGAGACATTTTCCTCGG
Found at i:64200 original size:37 final size:36
Alignment explanation
Indices: 64122--64200 Score: 95
Period size: 37 Copynumber: 2.2 Consensus size: 36
64112 ATTTCAAAGT
**
64122 TATTTTTCTTAAAAACAAATTTTGTCTCACTTGAAA
1 TATTTTTCTTAAAAACAAATTTCATCTCACTTGAAA
* * * *
64158 CATTTTTCTCTCAAAACGAATTTCATCTCACTTGAGA
1 TATTTTTCT-TAAAAACAAATTTCATCTCACTTGAAA
64195 TATTTT
1 TATTTT
64201 CTTTCGGAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
36 8 0.23
37 27 0.77
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (36 bp):
TATTTTTCTTAAAAACAAATTTCATCTCACTTGAAA
Found at i:64266 original size:103 final size:103
Alignment explanation
Indices: 63919--64268 Score: 497
Period size: 103 Copynumber: 3.4 Consensus size: 103
63909 AGAGATATTG
** *
63919 TTTTCTTAAAAGTAAATTTTGTCTCACTTGAGACATTTTTTTCTTAAAACAAATTTCGTCTCACT
1 TTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAATTTCGTCTCACT
*
63984 TTAGACATTTTTCTTT-GGAACACAAATTTCAAAGTTGT
66 TGAGACA-TTTTCTTTCGGAACACAAATTTCAAAGTTGT
* *
64022 TTTTCTTAAAAACAAATTTTGTCTCATTTGATACATTTTTCTCTTAAAACAAATTTCGTCTCACT
1 TTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAATTTCGTCTCACT
* *
64087 TGAGACATTTTCCTTCGGAACACAAATTTCAAAGTTAT
66 TGAGACATTTTCTTTCGGAACACAAATTTCAAAGTTGT
* * * *
64125 TTTTCTTAAAAACAAATTTTGTCTCACTTGAAACATTTTTCTCTCAAAACGAATTTCATCTCACT
1 TTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAATTTCGTCTCACT
*
64190 TGAGATATTTTCTTTCGGAACACAAATTTCAAAGTTGT
66 TGAGACATTTTCTTTCGGAACACAAATTTCAAAGTTGT
* * * * * * *
64228 TTTACTT-GAACCAATTTTTGTCTCGCTTGAGGCAATTTTCT
1 TTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTCT
64269 AAAAAAAATC
Statistics
Matches: 222, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
102 34 0.15
103 188 0.85
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (103 bp):
TTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTCTCTTAAAACAAATTTCGTCTCACT
TGAGACATTTTCTTTCGGAACACAAATTTCAAAGTTGT
Found at i:64458 original size:65 final size:66
Alignment explanation
Indices: 64354--64523 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 66
64344 AGTTTTCCAA
* * *
64354 AAACAAATTTTGTCTCTCTTGAGACAATTTCTCTCGAAACA-AAATATTTGA-ATATGTTTCCCT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAATATTTGACAT-CGTTTCCCT
64417 TG
65 TG
* * * * *
64419 AAACAAAGTTTATCTCCCTTGAGACAGTTTCTCTTGAAACACCAATCTTTGACATCGTTTCCCTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAATATTTGACATCGTTTCCCTT
64484 G
66 G
* * *
64485 AAACAAATTTTGTCTATCTGGAGACAGTTTCCCTTGAAA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
64524 GAAATGTATC
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
65 36 0.40
66 51 0.57
67 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (66 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACAAATATTTGACATCGTTTCCCTT
G
Found at i:64637 original size:37 final size:37
Alignment explanation
Indices: 64525--64662 Score: 127
Period size: 36 Copynumber: 3.7 Consensus size: 37
64515 CCCTTGAAAG
* *
64525 AAATGTATCTCACTTGAGATGGTTTTTCTTAAAACC-
1 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCA
* * * ** * *
64561 AACTTCATCTCGCTTGAGACAGTTTTCCCTTGAAA-CA
1 AAATTTATCTCACTTGAGATTGTTTT-TCTTAAAACCA
*
64598 AAATTTATCTCACTCGAGATTGTTTTTCTTAAAACCAA
1 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACC-A
*
64636 AAGATTTTATCTCGCTTGAGATTGTTT
1 AA-A-TTTATCTCACTTGAGATTGTTT
64663 CACTCGAAAC
Statistics
Matches: 78, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
36 27 0.35
37 27 0.35
38 3 0.04
39 1 0.01
40 20 0.26
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (37 bp):
AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACCA
Found at i:64657 original size:40 final size:37
Alignment explanation
Indices: 64530--64701 Score: 123
Period size: 39 Copynumber: 4.5 Consensus size: 37
64520 GAAAGAAATG
* * * *
64530 TATCTCACTTGAGATGGTTTTTCTTAAAAC-CAACTT
1 TATCTCGCTTGAGATAGTTTTTCTTAAAACAAAATTT
* * * *
64566 CATCTCGCTTGAGACAGTTTTCCCTTGAAACAAAA-TT
1 TATCTCGCTTGAGATAGTTTT-TCTTAAAACAAAATTT
* * *
64603 TATCTCACTCGAGATTGTTTTTCTTAAAACCAAAAGATTT
1 TATCTCGCTTGAGATAGTTTTTCTTAAAA-C-AAA-ATTT
* ** **
64643 TATCTCGCTTGAGATTGTTTCACTCGAAACATAAGATTT
1 TATCTCGCTTGAGATAGTTTTTCTTAAAACA-AA-ATTT
*
64682 TATTTCGCTTGAGATAGTTT
1 TATCTCGCTTGAGATAGTTT
64702 CGCTCGAAAC
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
36 23 0.21
37 26 0.24
38 6 0.06
39 27 0.25
40 25 0.23
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (37 bp):
TATCTCGCTTGAGATAGTTTTTCTTAAAACAAAATTT
Found at i:64690 original size:39 final size:39
Alignment explanation
Indices: 64567--64721 Score: 145
Period size: 39 Copynumber: 4.0 Consensus size: 39
64557 AACCAACTTC
* * *
64567 ATCTCGCTTGAGACAGTTTTCCCTTGAAAC-AAA-A-TTT
1 ATCTCGCTTGAGATAG-TTTCACTCGAAACAAAAGATTTT
* * * ** **
64604 ATCTCACTCGAGATTGTTTTTCTTAAAACCAAAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAA-CAAAAGATTTT
* *
64644 ATCTCGCTTGAGATTGTTTCACTCGAAACATAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTT
* *
64683 ATTTCGCTTGAGATAGTTTCGCTCGAAACAAAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTT
64722 TAGAAACTAA
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
36 9 0.09
37 13 0.14
38 3 0.03
39 46 0.48
40 25 0.26
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTT
Found at i:64817 original size:51 final size:51
Alignment explanation
Indices: 64723--64872 Score: 176
Period size: 51 Copynumber: 2.9 Consensus size: 51
64713 AAAGATTTTT
* * *
64723 AGAAACTAAGCCTGATTTTTAGGGATTTCTCAATGTTTTCAAATGAATTTGAA
1 AGAATCTAAGCCT-AATTTTAGGG-TTTCTTAATGTTTTCAAATGAATTTGAA
* *
64776 AGAATCTAAGCCTAATTTTAGGGGTTCTTAATGTTTTCAAATGAATTTTAA
1 AGAATCTAAGCCTAATTTTAGGGTTTCTTAATGTTTTCAAATGAATTTGAA
* * *
64827 AGAAAT-TAAGCCTAATTTTTATGGATTTCTTGATATTTTCAAATGA
1 AG-AATCTAAGCCTAA-TTTTA-GGGTTTCTTAATGTTTTCAAATGA
64873 GTTTTTAGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 36 0.42
52 17 0.20
53 32 0.38
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (51 bp):
AGAATCTAAGCCTAATTTTAGGGTTTCTTAATGTTTTCAAATGAATTTGAA
Found at i:64898 original size:52 final size:52
Alignment explanation
Indices: 64718--64934 Score: 152
Period size: 52 Copynumber: 4.1 Consensus size: 52
64708 AAACAAAAGA
* * * ** * *
64718 TTTTTAGAAACTAAGCCTGATTTTTAGGGATTTCTCAATGTTTTCAAATGAA
1 TTTTTAGAAAATAAGCATAATTTTTAGGGATTTCTTGATATTTTCAAATGAG
** ** * * * * *
64770 TTTGAAAGAATCTAAGCCTAA-TTTTAGGG-GTTCTTAATGTTTTCAAATGAA
1 TTT-TTAGAAAATAAGCATAATTTTTAGGGATTTCTTGATATTTTCAAATGAG
* * * *
64821 TTTTAAAGAAATTAAGCCTAATTTTTATGGATTTCTTGATATTTTCAAATGAG
1 TTTT-TAGAAAATAAGCATAATTTTTAGGGATTTCTTGATATTTTCAAATGAG
** *
64874 TTTTTAGAAAATAAGCATGCTTTTTAGGGGTTTCTTGATGATGATTTTC-AATGAG
1 TTTTTAGAAAATAAGCATAATTTTTAGGGATTTC-T--TGAT-ATTTTCAAATGAG
64929 TTTTTA
1 TTTTTA
64935 AAAGGAAACT
Statistics
Matches: 136, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
51 37 0.27
52 41 0.30
53 36 0.26
55 16 0.12
56 6 0.04
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.44
Consensus pattern (52 bp):
TTTTTAGAAAATAAGCATAATTTTTAGGGATTTCTTGATATTTTCAAATGAG
Found at i:65120 original size:41 final size:42
Alignment explanation
Indices: 65033--65125 Score: 98
Period size: 41 Copynumber: 2.2 Consensus size: 42
65023 CAGGCCATTA
** * * ** *
65033 ATAAGTCTTTCAAGCGTGATGCTTAAATCCTTCGGGTCATCT
1 ATAAGTCTTTCAAGCAAGATGCATAAATCATTCGGACCATCC
*
65075 ATAAGTCTTTCAAGCAAGATG-ATAAGTCATTCGGACCATCC
1 ATAAGTCTTTCAAGCAAGATGCATAAATCATTCGGACCATCC
*
65116 ATAAGACTTT
1 ATAAGTCTTT
65126 TGGGCAGGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 23 0.55
42 19 0.45
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (42 bp):
ATAAGTCTTTCAAGCAAGATGCATAAATCATTCGGACCATCC
Found at i:65322 original size:59 final size:59
Alignment explanation
Indices: 65230--65382 Score: 200
Period size: 59 Copynumber: 2.6 Consensus size: 59
65220 TGTTTTCAAT
* * * * * *
65230 ATTTCCTTTGCTTGATTCACAAAACTTTGAATCA-ACAATGCCCCACTATAGGGGTTAAC
1 ATTTCCTTTGCTCGATTCACAACACTTAGAATCAGA-AACGCCCCACAAGAGGGGTTAAC
65289 ATTTCCTTTGCTCGATTCACAACACTTAGAATCAGAAACGCCCCACAAGAGGGGTTAAC
1 ATTTCCTTTGCTCGATTCACAACACTTAGAATCAGAAACGCCCCACAAGAGGGGTTAAC
* * * *
65348 ATTTCCATTGCTCGTTTTACAACACTTCGAATCAG
1 ATTTCCTTTGCTCGATTCACAACACTTAGAATCAG
65383 CTTAAGTCCT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
59 82 0.99
60 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (59 bp):
ATTTCCTTTGCTCGATTCACAACACTTAGAATCAGAAACGCCCCACAAGAGGGGTTAAC
Found at i:65483 original size:41 final size:42
Alignment explanation
Indices: 65385--65490 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
65375 CGAATCAGCT
* * * *
65385 TAAGTCCTTCGGGCCAT-TAGTAAGTCTTCCGAGCATGATGTG
1 TAAGTCCTTCGGGCCATCTA-TAACTCTTCCAAGCAAGATGTA
** *
65427 TAAGTCCTTTAGGCCATCTATAACTCTTTCAAGCAAGATG-A
1 TAAGTCCTTCGGGCCATCTATAACTCTTCCAAGCAAGATGTA
*
65468 TAAGTCCTTCGGGCCATCCATAA
1 TAAGTCCTTCGGGCCATCTATAA
65491 GACCTTCAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
41 20 0.38
42 31 0.58
43 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (42 bp):
TAAGTCCTTCGGGCCATCTATAACTCTTCCAAGCAAGATGTA
Found at i:65724 original size:100 final size:97
Alignment explanation
Indices: 65591--65803 Score: 290
Period size: 100 Copynumber: 2.2 Consensus size: 97
65581 TTACCAGTAC
* * *
65591 AGAA-TTCATAA-G-GAATAGCTTGTTCGACCTATCACTCGATTCATGGCATTTCAAATCAGTGA
1 AGAAGTTCATAATGAGAAGAGCTTGTTCGAACTATCACTCGATTCACGGCATTTCAAATCAGTGA
65653 CACCTCACTCGAGGGATCAACATTTCAAATGGAG
66 CACCTCACTCGAGGGATCAACATTTCAAAT-G-G
* *
65687 AAGAAGTTCATAATGAGAAGAGCTTGTTCGAACTATCACTCGATTCACGGTATTTCGAATCAGTG
1 -AGAAGTTCATAATGAGAAGAGCTTGTTCGAACTATCACTCGATTCACGGCATTTCAAATCAGTG
* * * *
65752 ACACCTCGCTTGAGGGATTAACATTTCCAATGG
65 ACACCTCACTCGAGGGATCAACATTTCAAATGG
65785 AG-AGTTCATAATGAGAAGA
1 AGAAGTTCATAATGAGAAGA
65804 ACTAACCCGA
Statistics
Matches: 104, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
96 17 0.16
97 6 0.06
98 8 0.08
99 2 0.02
100 71 0.68
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (97 bp):
AGAAGTTCATAATGAGAAGAGCTTGTTCGAACTATCACTCGATTCACGGCATTTCAAATCAGTGA
CACCTCACTCGAGGGATCAACATTTCAAATGG
Found at i:66305 original size:3 final size:3
Alignment explanation
Indices: 66297--66334 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
66287 TTAAATATAT
66297 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
66335 TACATCTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:67896 original size:55 final size:55
Alignment explanation
Indices: 67814--67922 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
67804 TCAGTCACTA
* * *
67814 TTTATTTCTGATTTGGCTATTGCTATTTTATTTTATACATTTTAGTCACTATTTT
1 TTTATTTCTGATTTGGCTACTGATATTTTATTCTATACATTTTAGTCACTATTTT
* * * *
67869 TTTATTTCTGATTTGGTTACTGATATTTTATTCTATGCATTTTATTCATTATTT
1 TTTATTTCTGATTTGGCTACTGATATTTTATTCTATACATTTTAGTCACTATTT
67923 CTTTCCTGAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.20, C:0.10, G:0.09, T:0.61
Consensus pattern (55 bp):
TTTATTTCTGATTTGGCTACTGATATTTTATTCTATACATTTTAGTCACTATTTT
Found at i:70826 original size:16 final size:16
Alignment explanation
Indices: 70787--70829 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
70777 AATACTATCC
*
70787 ATTATAAATTGAAAAA
1 ATTATAAGTTGAAAAA
70803 ATTATAAGTTGAAAAA
1 ATTATAAGTTGAAAAA
70819 ATTATAAGTTG
1 ATTATAAGTTG
70830 TTGCTAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (16 bp):
ATTATAAGTTGAAAAA
Found at i:78159 original size:19 final size:19
Alignment explanation
Indices: 78131--78184 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
78121 AGAAAATTTG
78131 GTATCGATACTCTAGGGTA
1 GTATCGATACTCTAGGGTA
* *
78150 GTATCAATAC-CGTGGGGTA
1 GTATCGATACTC-TAGGGTA
*
78169 GTATCGACACTCTAGG
1 GTATCGATACTCTAGG
78185 TAAGAGTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 1 0.04
19 26 0.93
20 1 0.04
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (19 bp):
GTATCGATACTCTAGGGTA
Found at i:81672 original size:21 final size:21
Alignment explanation
Indices: 81648--81691 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
81638 TATGTACTAC
81648 TTTTAACTATAAATATAGAGG
1 TTTTAACTATAAATATAGAGG
81669 TTTTAACTATAAATATAGAGG
1 TTTTAACTATAAATATAGAGG
81690 TT
1 TT
81692 GGTGAAGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
TTTTAACTATAAATATAGAGG
Found at i:85792 original size:53 final size:53
Alignment explanation
Indices: 85713--85823 Score: 204
Period size: 53 Copynumber: 2.1 Consensus size: 53
85703 ACAGCTCGAA
85713 AATATAATATATTAAGATTTATTTTTTAAAAAAAATAAATTATTAATAATATT
1 AATATAATATATTAAGATTTATTTTTTAAAAAAAATAAATTATTAATAATATT
* *
85766 AATATAATATATTAAGATTTATTTTTTTAAAAAAATTAATTATTAATAATATT
1 AATATAATATATTAAGATTTATTTTTTAAAAAAAATAAATTATTAATAATATT
85819 AATAT
1 AATAT
85824 TTATGTATTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (53 bp):
AATATAATATATTAAGATTTATTTTTTAAAAAAAATAAATTATTAATAATATT
Done.