Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002744.1 Hibiscus syriacus cultivar Beakdansim tig00005654_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: 69943
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.35
Found at i:383 original size:7 final size:6
Alignment explanation
Indices: 364--405 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
354 ATGATTATTT
364 ATTTTA ATTTTA ATTTTTA ATTTTA ACTTTT- ATTTT- ATTTTA
1 ATTTTA ATTTTA A-TTTTA ATTTTA A-TTTTA ATTTTA ATTTTA
406 TGTTATTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 9 0.27
6 14 0.42
7 10 0.30
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTA
Found at i:383 original size:13 final size:13
Alignment explanation
Indices: 365--404 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
355 TGATTATTTA
365 TTTTAATTTTAAT
1 TTTTAATTTTAAT
*
378 TTTTAATTTTAAC
1 TTTTAATTTTAAT
391 TTTT-ATTTT-AT
1 TTTTAATTTTAAT
402 TTT
1 TTT
405 ATGTTATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.16
12 5 0.20
13 16 0.64
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:2497 original size:2 final size:2
Alignment explanation
Indices: 2490--2522 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2480 GTGAGTGCTT
2490 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
2523 GATACAAGGA
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:9114 original size:44 final size:45
Alignment explanation
Indices: 9048--9180 Score: 214
Period size: 44 Copynumber: 3.0 Consensus size: 45
9038 TTGGAGGAAG
*
9048 TTTCTGAAGGCTCCTCTGCTGTGTGCAAGGGTGAGACCTTACC-A
1 TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCGA
* *
9092 TTTCTGAAGGCTCATCTACTGTGTGCAAGGGTGAGACCTTACCGT
1 TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCGA
* *
9137 TTTCTGAAGGCTCATATGCTATGTGCAAGGGTGAGACCTTACCG
1 TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCG
9181 CTTTTCGCAG
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 41 0.50
45 41 0.50
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (45 bp):
TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCGA
Found at i:9162 original size:45 final size:45
Alignment explanation
Indices: 9048--9194 Score: 217
Period size: 45 Copynumber: 3.3 Consensus size: 45
9038 TTGGAGGAAG
* *
9048 TTTCTGAAGGCTCCTCTGCTGTGTGCAAGGGTGAGACCTTACC-A
1 TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCGT
*
9092 TTTCTGAAGGCTCATCTACTGTGTGCAAGGGTGAGACCTTACCGT
1 TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCGT
* *
9137 TTTCTGAAGGCTCATATGCTATGTGCAAGGGTGAGACCTTACCGCT
1 TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCG-T
*
9183 TTTC-GCAGGCTC
1 TTTCTGAAGGCTC
9195 CTCGGTTTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
44 41 0.44
45 48 0.51
46 5 0.05
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.31
Consensus pattern (45 bp):
TTTCTGAAGGCTCATCTGCTGTGTGCAAGGGTGAGACCTTACCGT
Found at i:9717 original size:69 final size:69
Alignment explanation
Indices: 9635--9767 Score: 196
Period size: 69 Copynumber: 1.9 Consensus size: 69
9625 ATATGATGAT
*
9635 TGATACTTTTAAATATTAAAAAAGTTGAAGATAAA-ATCAAAAGTTAAAATAGCAATATTTATGT
1 TGATACTTTTAAATATTAAAAAAGTTGAAGA-AAAGATCAAAAGTTAAAATAACAATATTTATGT
9699 GATAA
65 GATAA
* * * * *
9704 TGATACTTTTAAATATTGAAACAGTTGATGAAAAGATCAAAATTTAAAATAACATTATTTATGT
1 TGATACTTTTAAATATTAAAAAAGTTGAAGAAAAGATCAAAAGTTAAAATAACAATATTTATGT
9768 AATGAAAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
68 3 0.05
69 54 0.95
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.35
Consensus pattern (69 bp):
TGATACTTTTAAATATTAAAAAAGTTGAAGAAAAGATCAAAAGTTAAAATAACAATATTTATGTG
ATAA
Found at i:9875 original size:14 final size:14
Alignment explanation
Indices: 9856--9882 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9846 ATCGATACTT
9856 TGCTTTGATATTTA
1 TGCTTTGATATTTA
9870 TGCTTTGATATTT
1 TGCTTTGATATTT
9883 GTAGAAAAGT
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:0.19, C:0.07, G:0.15, T:0.59
Consensus pattern (14 bp):
TGCTTTGATATTTA
Found at i:10055 original size:15 final size:15
Alignment explanation
Indices: 10037--10066 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10027 AATATTTTGT
*
10037 GACCTTCTCTTTTTC
1 GACCTTCTCATTTTC
10052 GACCTTCTCATTTTC
1 GACCTTCTCATTTTC
10067 TATGTTTTTA
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:0.10, C:0.33, G:0.07, T:0.50
Consensus pattern (15 bp):
GACCTTCTCATTTTC
Found at i:11070 original size:25 final size:24
Alignment explanation
Indices: 11018--11070 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
11008 TTATGCTATA
* * *
11018 TTAGGAGGATGAATTTATAAACTT
1 TTAGGAGGATGAACTTATAAAATG
11042 TTAGGAGGAGTGAACTTATAAAATG
1 TTAGGAGGA-TGAACTTATAAAATG
11067 TTAG
1 TTAG
11071 ATGCCAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.34
Consensus pattern (24 bp):
TTAGGAGGATGAACTTATAAAATG
Found at i:17333 original size:17 final size:16
Alignment explanation
Indices: 17308--17339 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
17298 GAAAAGAAAA
17308 TAAATTTTAAAACATG
1 TAAATTTTAAAACATG
17324 TAAATATTTAAAACAT
1 TAAAT-TTTAAAACAT
17340 AAAGAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (16 bp):
TAAATTTTAAAACATG
Found at i:18430 original size:18 final size:19
Alignment explanation
Indices: 18416--18480 Score: 82
Period size: 18 Copynumber: 3.6 Consensus size: 19
18406 AAGACCTTAC
18416 TTGAGAAGAAT-ACCTTGG
1 TTGAGAAGAATGACCTTGG
18434 TTGAGAAG-ATGACCTTGG
1 TTGAGAAGAATGACCTTGG
***
18452 TTGAGAAGAA-GGTTTTGG
1 TTGAGAAGAATGACCTTGG
18470 TTGAGAAGAAT
1 TTGAGAAGAAT
18481 TGCGTCTCAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
17 2 0.05
18 38 0.93
19 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.32, T:0.29
Consensus pattern (19 bp):
TTGAGAAGAATGACCTTGG
Found at i:19373 original size:20 final size:20
Alignment explanation
Indices: 19348--19392 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
19338 GTTTGAGAAG
19348 CATACTGGATTAAGAGTATC
1 CATACTGGATTAAGAGTATC
19368 CATACTGGATTAAGAGTATC
1 CATACTGGATTAAGAGTATC
19388 CATAC
1 CATAC
19393 CTATATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (20 bp):
CATACTGGATTAAGAGTATC
Found at i:19889 original size:197 final size:198
Alignment explanation
Indices: 18981--19986 Score: 1119
Period size: 198 Copynumber: 5.1 Consensus size: 198
18971 ATTTAGATCG
* * * * *
18981 AAAGTATCCATACCTATATAAAAGTATCGATACTTGGTATTTACGCTTATTATCAATATAACGGT
1 AAAGTATTCATACCTATATAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTATATCGAT
* *
19046 AGACTTTTACAGCTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAA
66 AGACTTTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAA
* * * *
19111 GTATTGATACTTTATATATGTGTATCGATACATTTTGCATACAAATTGTTTGAGAAACATACTGA
131 GTATCGATACTTTATATA-GTGTATCGATACATTTTGCATGCAAATTGTTTGAGAATCATACTGG
19176 AATA
195 AATA
* * * * *
19180 ATAA-TATTGACACCTATATAAAAGTATCGATACTTGGTATTTATGCCTATTATCAATATAT-TA
1 A-AAGTATTCATACCTATATAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTATATCGA
*
19243 GTAGACTTTTATCC-TTTACATTG------T---TA--A-TTT--AGT-A-A---TTCAAAATTC
65 -TAGACTTTTA-CCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTC
* *
19288 CAAGTATCGATACTTTATATATGTGTATCAATACATTTTGCATGCAAATTGTTTGAGAAGCATAC
128 CAAGTATCGATACTTTATATA-GTGTATCGATACATTTTGCATGCAAATTGTTTGAGAATCATAC
19353 TGGATTAAGAGTATCCATACTGGA
192 -----T--G-G-----A-A-T--A
* *
19377 TTAAGAGTATCCATACCTATATAAAAGTATTGATACTTGGTATTTACGCCTATTATCATTATA-C
1 --AA-AGTATTCATACCTATATAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTATATC
* * *
19441 CAGTAGACTTTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTTGAAATT
63 GA-TAGACTTTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATT
* * * *
19506 CTAAGTATCGATATTTTATACA-TGTATCGATATATTTTGCATGCAAATTGTTTGAGAATCATAC
127 CCAAGTATCGATACTTTATATAGTGTATCGATACATTTTGCATGCAAATTGTTTGAGAATCATAC
19570 TGGAATA
192 TGGAATA
* * *
19577 AAAGTATTCATACCAATATAAAGAGTATCGATACTTGGTATTTATGCCTATTATCATTATATATG
1 AAAGTATTCATACCTATATAAA-AGTATCGATACTTGGTATTTACGCCTATTATCATTATAT-CG
*
19642 -TAGACTTTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTTGAAATTCC
64 ATAGACTTTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCC
* * *
19706 AAGTATTGATACTTTATACA-TGTATCGATACATTTTGCGTGCAAATTGTTTGAGAATCATACTG
129 AAGTATCGATACTTTATATAGTGTATCGATACATTTTGCATGCAAATTGTTTGAGAATCATACTG
19770 GAATA
194 GAATA
* * ** *
19775 AAAGTATTCGTACCTATATAAGAGTATTAATACTTGGTATTTACGCTTATTATCATTATATCGAT
1 AAAGTATTCATACCTATATAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTATATCGAT
* *
19840 AGACTTTTACCGTTTACATTGTTAAGTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCGA
66 AGACTTTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAA
* * * ** * *
19905 GTACCGATACTTTATATATGTGTGTCAATACATTTTGTGTGCAAATTGTTTGAGGATCATATTGG
131 GTATCGATACTTTATATA-GTGTATCGATACATTTTGCATGCAAATTGTTTGAGAATCATACTGG
19970 AATA
195 AATA
*
19974 AAAGTATCCATAC
1 AAAGTATTCATAC
19987 TGGCATAAGA
Statistics
Matches: 692, Mismatches: 64, Indels: 102
0.81 0.07 0.12
Matches are distributed among these distances:
180 70 0.10
183 1 0.00
184 1 0.00
185 4 0.01
187 4 0.01
188 1 0.00
190 2 0.00
193 2 0.00
194 1 0.00
195 1 0.00
196 1 0.00
197 132 0.19
198 185 0.27
199 129 0.19
200 75 0.11
202 1 0.00
203 1 0.00
204 1 0.00
206 1 0.00
209 3 0.00
210 1 0.00
211 1 0.00
212 4 0.01
214 3 0.00
215 1 0.00
216 1 0.00
217 39 0.06
219 26 0.04
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (198 bp):
AAAGTATTCATACCTATATAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTATATCGAT
AGACTTTTACCGTTTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAA
GTATCGATACTTTATATAGTGTATCGATACATTTTGCATGCAAATTGTTTGAGAATCATACTGGA
ATA
Found at i:20562 original size:177 final size:177
Alignment explanation
Indices: 20266--21014 Score: 810
Period size: 177 Copynumber: 4.1 Consensus size: 177
20256 AAATTGAAAT
* * *
20266 CGGTTTTGTCAAATTTCAACCTGTTATATTGTCATGTATCGACACATGTGTCTAAGGTATCAATA
1 CGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGATA
* * *
20331 CTTTATAGGCACTATTATTACAATTCTTTTAAATTCCTAAAGTATTGATACTTTGATACATATAC
66 CTTTATAGGCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATAC
*
20396 TTATAAAAGTATCGATGCAAATTTCAACCATTCTGGTAGCTCTTTAC
131 TTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTTAC
**
20443 CGGTTTTGTCAAATTTAAATTTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGATA
1 CGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGATA
* * *
20508 TTTTATAGGCACTATTATTGCAATTCTTTTAAATTCTTAAAGTATCGATACTTTGGTACATATGC
66 CTTTATAGGCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATAC
*
20573 TTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTAC
131 TTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTTAC
* * * * * * *
20620 CGGTTTTGTCAAATTGAAA-CTGGT-T-TTGTCAAATTTAAACATGTTATAT-TGTC--ATGTAT
1 CGGTTTTGTCAAATTTAAACCTGTTATATTGTC--ATGT-ATC--GATACATGTGTCTAAGGTAT
* * * * * * * * *
20679 CTATACATGTGTCTAAAGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTA
61 CGATAC-T-T-TAT-AGGCA-C--TA--TTATTGCAATTCTT-TT-AAATTC----------CTA
* *
20744 AAGTATCGATACTTTGGTATATATACTTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAG
105 AAGTATCGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAG
20809 CTCTTTAC
170 CTCTTTAC
* *
20817 TGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTGTAAGGTATCGATA
1 CGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGATA
* * *
20882 CTTTATAGCCTCTATTATTGTAATTCTTTTAAATTCCTAAAGTA-CTGATACTTTGGTACATATA
66 CTTTATAGGCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATC-GATACTTTGGTACATATA
* * * * *
20946 CTTATAAACGTACCGATACAAATTTCAACAATTTTGGTAGCTCTTTAT
130 CTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTTAC
* * *
20994 TGATTTTGTCAAATTGAAACC
1 CGGTTTTGTCAAATTTAAACC
21015 GGTTTTGTCA
Statistics
Matches: 475, Mismatches: 64, Indels: 66
0.79 0.11 0.11
Matches are distributed among these distances:
174 5 0.01
175 1 0.00
176 16 0.03
177 271 0.57
178 5 0.01
179 7 0.01
180 3 0.01
181 1 0.00
183 2 0.00
185 10 0.02
186 2 0.00
187 10 0.02
188 2 0.00
189 9 0.02
191 2 0.00
193 1 0.00
194 1 0.00
195 7 0.01
196 4 0.01
197 93 0.20
198 17 0.04
199 1 0.00
200 5 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (177 bp):
CGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGATA
CTTTATAGGCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATAC
TTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTTAC
Found at i:20646 original size:20 final size:20
Alignment explanation
Indices: 20621--20659 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20611 GCTCTTTACC
20621 GGTTTTGTCAAATTGAAACT
1 GGTTTTGTCAAATTGAAACT
*
20641 GGTTTTGTCAAATTTAAAC
1 GGTTTTGTCAAATTGAAAC
20660 ATGTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (20 bp):
GGTTTTGTCAAATTGAAACT
Found at i:20731 original size:374 final size:373
Alignment explanation
Indices: 20184--21211 Score: 1508
Period size: 374 Copynumber: 2.8 Consensus size: 373
20174 CATACTTTGC
* * * * ***
20184 ATACTATGGTATATATACTTATAAACGTATC-A-AC-ACTTTCAACAATTCCAGTAAAACTTTAC
1 ATACTTTGGTACATATACTTATAAACGTATCGATACAAATTTCAACAATTCCGGTAGCTCTTTAC
* *
20246 TGGTTTTGTCAAATTGAAA-TCGGTTTTGTCAAATTTCAACCTGTTATATTGTCATGTATCGACA
66 TGGTTTTGTCAAATTGAAACT-GGTTTTGTCAAATTTCAACATGTTATATTGTCATGTATC-ATA
* * *
20310 CATGTGTCTAAGGTATCAATACTTTATAGGCACTATTATTACAATTCTTTTAAATTCCTAAAGTA
129 CATGTGTCTAAGGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTA
* *
20375 TTGATACTTTGATACATATACTTATAAAAGTATCGATGCAAATTTCAACCATTCTGGTAGCTCTT
194 TCGATACTTTGATACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTT
**
20440 TACCGGTTTTGTCAAATTTAAATTTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCG
259 TACCGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCG
* * *
20505 ATATTTTATAGGCACTATTATTGCAATTCTTTTAAATTCTTAAAGTA-TCG
324 ATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTACT-G
* * *
20555 ATACTTTGGTACATATGCTTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTAC
1 ATACTTTGGTACATATACTTATAAACGTATCGATACAAATTTCAACAATTCCGGTAGCTCTTTAC
* *
20620 CGGTTTTGTCAAATTGAAACTGGTTTTGTCAAATTTAAACATGTTATATTGTCATGTATCTATAC
66 TGGTTTTGTCAAATTGAAACTGGTTTTGTCAAATTTCAACATGTTATATTGTCATGTATC-ATAC
*
20685 ATGTGTCTAAAGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTAT
130 ATGTGTCTAAGGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTAT
* * *
20750 CGATACTTTGGTATATATACTTATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTT
195 CGATACTTTGATACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTT
* *
20815 ACTGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTGTAAGGTATCGA
260 ACCGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGA
* *
20880 TACTTTATAGCCTCTATTATTGTAATTCTTTTAAATTCCTAAAGTACTG
325 TACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTACTG
* ** *
20929 ATACTTTGGTACATATACTTATAAACGTACCGATACAAATTTCAACAATTTTGGTAGCTCTTTAT
1 ATACTTTGGTACATATACTTATAAACGTATCGATACAAATTTCAACAATTCCGGTAGCTCTTTAC
* * * * *
20994 TGATTTTGTCAAATTGAAACCGGTTTTGTCAAATTTCAACTTGCTATATTATCATGTATCAGTAC
66 TGGTTTTGTCAAATTGAAACTGGTTTTGTCAAATTTCAACATGTTATATTGTCATGTATCA-TAC
* * * ** *
21059 ATGTTTGTAAGGTATCGATACTTTATAGTCACTATTATTGCAATTCTTTTAAATTCCTACCGTAC
130 ATGTGTCTAAGGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTAT
* * *
21124 CGATACTTTGATACATATACTTATAAACGTATCGATACAAATTTCAACAATTATGGTAGCTCTTT
195 CGATACTTTGATACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTT
* *
21189 ACCAGTTTTGTCAAATTGAAACC
260 ACCGGTTTTGTCAAATTTAAACC
21212 GGTTTTGTCA
Statistics
Matches: 588, Mismatches: 63, Indels: 9
0.89 0.10 0.01
Matches are distributed among these distances:
371 27 0.05
372 1 0.00
373 3 0.01
374 555 0.94
375 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (373 bp):
ATACTTTGGTACATATACTTATAAACGTATCGATACAAATTTCAACAATTCCGGTAGCTCTTTAC
TGGTTTTGTCAAATTGAAACTGGTTTTGTCAAATTTCAACATGTTATATTGTCATGTATCATACA
TGTGTCTAAGGTATCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATC
GATACTTTGATACATATACTTATAAAAGTATCGATACAAATTTCAACCATTCTGGTAGCTCTTTA
CCGGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGAT
ACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTACTG
Found at i:20779 original size:197 final size:197
Alignment explanation
Indices: 20444--20836 Score: 687
Period size: 197 Copynumber: 2.0 Consensus size: 197
20434 GCTCTTTACC
** * *
20444 GGTTTTGTCAAATTTAAATTTGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCGATAT
1 GGTTTTGTCAAATTTAAACATGTTATATTGTCATGTATCGATACATGTGTCTAAAGTATCGATAC
* * *
20509 TTTATAGGCACTATTATTGCAATTCTTTTAAATTCTTAAAGTATCGATACTTTGGTACATATGCT
66 TTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATACT
20574 TATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTACCGGTTTTGTCAAATTGAAA
131 TATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTACCGGTTTTGTCAAATTGAAA
20639 CT
196 CT
*
20641 GGTTTTGTCAAATTTAAACATGTTATATTGTCATGTATCTATACATGTGTCTAAAGTATCGATAC
1 GGTTTTGTCAAATTTAAACATGTTATATTGTCATGTATCGATACATGTGTCTAAAGTATCGATAC
*
20706 TTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTATATATACT
66 TTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATACT
* *
20771 TATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTACTGGTTTTGTCAAATTTAAA
131 TATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTACCGGTTTTGTCAAATTGAAA
20836 C
196 C
20837 CTGTTATATT
Statistics
Matches: 185, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
197 185 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (197 bp):
GGTTTTGTCAAATTTAAACATGTTATATTGTCATGTATCGATACATGTGTCTAAAGTATCGATAC
TTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTATCGATACTTTGGTACATATACT
TATAAAAGTATCGATACAAATTTCAACCATTCCGGTAGCTCTTTACCGGTTTTGTCAAATTGAAA
CT
Found at i:21153 original size:197 final size:197
Alignment explanation
Indices: 20818--21231 Score: 652
Period size: 197 Copynumber: 2.1 Consensus size: 197
20808 GCTCTTTACT
* * * *
20818 GGTTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCGATACATGTGTGTAAGGTATCGATAC
1 GGTTTTGTCAAATTTCAACTTGCTATATTATCATGTATCGATACATGTGTGTAAGGTATCGATAC
* * * *
20883 TTTATAGCCTCTATTATTGTAATTCTTTTAAATTCCTAAAGTACTGATACTTTGGTACATATACT
66 TTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTACCGATACTTTGATACATATACT
* **
20948 TATAAACGTACCGATACAAATTTCAACAATTTTGGTAGCTCTTTA-TTGATTTTGTCAAATTGAA
131 TATAAACGTACCGATACAAATTTCAACAATTATGGTAGCTCTTTACCAG-TTTTGTCAAATTGAA
21012 ACC
195 ACC
*
21015 GGTTTTGTCAAATTTCAACTTGCTATATTATCATGTATC-AGTACATGTTTGTAAGGTATCGATA
1 GGTTTTGTCAAATTTCAACTTGCTATATTATCATGTATCGA-TACATGTGTGTAAGGTATCGATA
* **
21079 CTTTATAGTCACTATTATTGCAATTCTTTTAAATTCCTACCGTACCGATACTTTGATACATATAC
65 CTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTACCGATACTTTGATACATATAC
*
21144 TTATAAACGTATCGATACAAATTTCAACAATTATGGTAGCTCTTTACCAGTTTTGTCAAATTGAA
130 TTATAAACGTACCGATACAAATTTCAACAATTATGGTAGCTCTTTACCAGTTTTGTCAAATTGAA
21209 ACC
195 ACC
21212 GGTTTTGTCAAATTTCAACT
1 GGTTTTGTCAAATTTCAACT
21232 GGTTTTGTCA
Statistics
Matches: 199, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
196 1 0.01
197 197 0.99
198 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (197 bp):
GGTTTTGTCAAATTTCAACTTGCTATATTATCATGTATCGATACATGTGTGTAAGGTATCGATAC
TTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAGTACCGATACTTTGATACATATACT
TATAAACGTACCGATACAAATTTCAACAATTATGGTAGCTCTTTACCAGTTTTGTCAAATTGAAA
CC
Found at i:21218 original size:20 final size:20
Alignment explanation
Indices: 21193--21306 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 20
21183 CTCTTTACCA
21193 GTTTTGTCAAATTGAAACCG
1 GTTTTGTCAAATTGAAACCG
** *
21213 GTTTTGTCAAATTTCAACTG
1 GTTTTGTCAAATTGAAACCG
* ** *
21233 GTTTTGTCAATTTCCAATCG
1 GTTTTGTCAAATTGAAACCG
* ** *
21253 GGTTTGTCAAATTCGTTACCT
1 GTTTTGTCAAATT-GAAACCG
**
21274 GTTTTGTCAAATTGAAATTG
1 GTTTTGTCAAATTGAAACCG
*
21294 GATTTGTCAAATT
1 GTTTTGTCAAATT
21307 TCAAATTATT
Statistics
Matches: 72, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
20 58 0.81
21 14 0.19
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (20 bp):
GTTTTGTCAAATTGAAACCG
Found at i:24712 original size:13 final size:13
Alignment explanation
Indices: 24694--24718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24684 CCGTACTCCG
24694 CCGCCGGCCACCA
1 CCGCCGGCCACCA
24707 CCGCCGGCCACC
1 CCGCCGGCCACC
24719 GTGAACGGTG
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:0.12, C:0.64, G:0.24, T:0.00
Consensus pattern (13 bp):
CCGCCGGCCACCA
Found at i:25502 original size:3 final size:3
Alignment explanation
Indices: 25496--25562 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
25486 AATAATTATT
* **
25496 TAA TAA TAA T-A TAA TATA TAA TAA TATT TAA TAA TAA TAA TAA TTT
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
25542 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
25563 ATAAATAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 48 0.87
4 5 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:25518 original size:15 final size:15
Alignment explanation
Indices: 25498--25574 Score: 69
Period size: 15 Copynumber: 5.5 Consensus size: 15
25488 TAATTATTTA
25498 ATAATAATATAATAT
1 ATAATAATATAATAT
*
25513 ATAATAATAT-TTA-
1 ATAATAATATAATAT
25526 ATAATAATAATAAT-T
1 ATAATAAT-ATAATAT
*
25541 TTAATAATAATAATA-
1 ATAATAAT-ATAATAT
25556 ATAATAA-ATAA-AT
1 ATAATAATATAATAT
25569 A-AATAA
1 ATAATAA
25575 AATGGGTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
12 6 0.11
13 13 0.25
14 4 0.08
15 30 0.57
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATAATATAATAT
Found at i:25577 original size:9 final size:10
Alignment explanation
Indices: 25496--25574 Score: 62
Period size: 9 Copynumber: 8.3 Consensus size: 10
25486 AATAATTATT
25496 TAATAATAATA
1 TAATAATAA-A
25507 TAAT-ATATAA
1 TAATAATA-AA
* *
25517 TAATATTTAA
1 TAATAATAAA
25527 TAATAAT-AA
1 TAATAATAAA
* *
25536 TAAT-TTTAA
1 TAATAATAAA
25545 TAATAAT-AA
1 TAATAATAAA
25554 TAATAATAAA
1 TAATAATAAA
25564 T-A-AATAAA
1 TAATAATAAA
25572 TAA
1 TAA
25575 AATGGGTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
8 8 0.14
9 23 0.40
10 20 0.35
11 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATAATAAA
Found at i:25936 original size:96 final size:96
Alignment explanation
Indices: 25828--26026 Score: 335
Period size: 96 Copynumber: 2.1 Consensus size: 96
25818 CATTATGAAC
*
25828 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATCCATCG
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATCCATCA
25893 AGTGATGAATTCGAGCAAAAAGTTGAACAAA
66 AGTGATGAATTCGAGCAAAAAGTTGAACAAA
* * *
25924 TTCTTCTTCTTTCTTCAGATTAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGTTGATCCATCA
1 TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATCCATCA
* * *
25989 AGTGATGGATTTGAGCAAAAGGTTGAACAAA
66 AGTGATGAATTCGAGCAAAAAGTTGAACAAA
26020 TTCTTCT
1 TTCTTCT
26027 CATTATGAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (96 bp):
TTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTGATCCATCA
AGTGATGAATTCGAGCAAAAAGTTGAACAAA
Found at i:26045 original size:116 final size:113
Alignment explanation
Indices: 25924--27255 Score: 1770
Period size: 116 Copynumber: 11.7 Consensus size: 113
25914 GTTGAACAAA
* * * ** *
25924 TTCTTCTTCTTTCTTCAGATTAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGTTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCATCA
* * * *
25989 AGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA-
66 AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
26036 -T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
26098 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
63 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* ** * *
26149 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCATCA
* * * *
26214 AATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
66 AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* ** *
26262 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGTTGATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
* * * *
26327 TCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA-
63 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
26377 -T-TTCTT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
26439 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
63 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* ** * *
26490 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCATCA
* * * *
26555 AATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
66 AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
26603 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
*
26668 TCAAATGATGAATTTAAACAAAAGGTTGAAAAAATTCTTCTCATTATGAAC
63 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* **
26719 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCATTGTTAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
*
26784 TCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTTCTCATTATGAAC
63 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* ** * *
26835 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATC-
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCATCA
* * * *
26899 AATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAAC
66 AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
26947 -TCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
27011 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
63 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* **
27062 TTCTTC--CCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCATTGTTAATCCA
1 TTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
*
27125 TCAAATGATGAATTTAAACAAAAGGTTAAACAAATTCTTCTCATTATGAAC
63 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* ** * * *
27176 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTAGAAAAGCTGATCCATCA
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCATCA
*
27241 AATGATGGATTTAAA
66 AATGATGAATTTAAA
27256 TCTTTGCTAA
Statistics
Matches: 1098, Mismatches: 98, Indels: 47
0.88 0.08 0.04
Matches are distributed among these distances:
109 10 0.01
110 5 0.00
111 20 0.02
112 220 0.20
113 295 0.27
114 152 0.14
115 54 0.05
116 342 0.31
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (113 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCATCA
AATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:26339 original size:341 final size:342
Alignment explanation
Indices: 25924--27252 Score: 2312
Period size: 341 Copynumber: 3.9 Consensus size: 342
25914 GTTGAACAAA
* * * ** *
25924 TTCTTCTTCTTTCTTCAGAT---TAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGTTGATCCA
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
* * * *
25986 TCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTT-CTTCTTCA
66 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCCTTCTTCA
26050 GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
131 GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
*
26115 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
196 ACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
26180 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAAGTTGAACAAA
261 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAAGTTGAACAAA
26245 TTCTTCTCATTATGAAC
326 TTCTTCTCATTATGAAC
* ** *
26262 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGTTGATCCA
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
* * * *
26327 TCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTT-CTTCTTCA
66 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCCTTCTTCA
26391 GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
131 GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
*
26456 ACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
196 ACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
26521 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAAGTTGAACAAA
261 ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAAGTTGAACAAA
26586 TTCTTCTCATTATGAAC
326 TTCTTCTCATTATGAAC
* *
26603 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
*
26668 TCAAATGATGAATTTAAACAAAAGGTTGAAAAAATTCTTCTCATTATGAACTTCTTCTTCCTTCT
66 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA--T-TTCTTCCTTCT
*
26733 TCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCATTGTTAATCCATCAAATGATGAATT
128 TCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATT
26798 TAAACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
193 TAAACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
26863 CTCATTATGAACTTTTTCTGGAAAAGCTGATCCATC-AATGATGGATTTGAGCAAAAAGTTGAAC
258 CTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAAGTTGAAC
26927 AAATTCTTCTCATTATGAAC
323 AAATTCTTCTCATTATGAAC
* *
26947 -TCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCA
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
*
27011 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCCCTTCTTC
66 TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTT-CCTTCTTC
*
27076 AGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCATTGTTAATCCATCAAATGATGAATTTA
130 AGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTA
27141 AACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
195 AACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*
27206 CATTATGAACTTTTTCTAGAAAAGCTGATCCATCAAATGATGGATTT
260 CATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTT
27253 AAATCTTTGC
Statistics
Matches: 964, Mismatches: 18, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
338 19 0.02
340 5 0.01
341 592 0.61
342 12 0.01
343 114 0.12
344 53 0.05
345 169 0.18
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (342 bp):
TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGAAAAGTTAATCCA
TCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCCTTCTTCA
GATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
ACAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAAGTTGAACAAA
TTCTTCTCATTATGAAC
Found at i:26722 original size:457 final size:451
Alignment explanation
Indices: 25795--27252 Score: 2019
Period size: 457 Copynumber: 3.2 Consensus size: 451
25785 TGTAATCATG
* ** *
25795 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAAAAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * * *
25860 TTATGAACTTTCTCTGGAAAAATTGATCCATCGAGTGATGAATTCGAGCAAAAAGTTGAACAAAT
66 TTATGAACTTTTTCTGGAAAAGTTGATCCATCAAATGATGAATTTGAGCAAAAGGTTGAACAAAT
*
25925 TC-T-TC---------TTC-T-TTCTTCAGATTAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
131 TCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
*
25977 GTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA-T-TTC
196 GTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTCTTC
26040 TT-CTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAAT
261 TTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAAT
26104 GATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
324 GATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* ** * * * * * * *
26169 ---GAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAG
389 GACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAA
* *
26229 CAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAAAAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* *
26294 TCATTATGAACTTTTTCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
63 TCATTATGAACTTTTTCTGGAAAAGTTGATCCATCAAATGATGAATTTGAGCAAAAGGTTGAACA
* **
26359 AATTCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCT
128 AATTCTTCTCATTATGAATTTCTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTTTTCT
* * * * * *
26424 GGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAA
190 GGAAAAGTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
* ** * * * *
26489 CTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCAT
255 C-TCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCAT
* * * *
26553 CAAATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
319 CAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTT
26618 CAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTT
384 CAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTT
26683 AAA
449 AAA
26686 CAAAAGGTTGAAAAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAAAAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* ** * ** * * * *
26751 TCATTATGAACTCTACCTGGCATTGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTAAACA
63 TCATTATGAACTTTTTCTGGAAAAGTTGATCCATCAAATGATGAATTTGAGCAAAAGGTTGAACA
26816 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTC
128 AATTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTC
* *
26881 TGGAAAAGCTGATCCATC-AATGATGGATTTGAGCAAAAAGTTGAACAAATTCTTCTCATTATGA
189 TGGAAAAGTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
26945 ACTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCC
254 ACTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCC
27010 ATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC--CCTTC
317 ATCAAATGATGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTC
*
27073 TTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCATTGTTAATCCATCAAATGATGAAT
382 TTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAAT
27138 TTAAA
447 TTAAA
27143 CAAAAGGTT-AAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAGGTTGAAA-AAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
27207 ATTATGAACTTTTTCTAGAAAAGCTGATCCATCAAATGATGGATTT
65 ATTATGAACTTTTTCTGGAAAAGTTGATCCATCAAATGATGAATTT
27253 AAATCTTTGC
Statistics
Matches: 901, Mismatches: 89, Indels: 48
0.87 0.09 0.05
Matches are distributed among these distances:
434 49 0.05
437 73 0.08
438 1 0.00
439 2 0.00
448 3 0.00
449 1 0.00
450 10 0.01
453 81 0.09
454 149 0.17
455 1 0.00
456 27 0.03
457 362 0.40
458 37 0.04
459 89 0.10
460 5 0.01
461 11 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (451 bp):
CAAAAGGTTGAAAAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTTTCTGGAAAAGTTGATCCATCAAATGATGAATTTGAGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAA
GTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTCTTC
TTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGA
TGAATTTAAACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA
CGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAA
Found at i:27681 original size:22 final size:22
Alignment explanation
Indices: 27656--27710 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
27646 GATAAAGCTT
*
27656 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
27678 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
27700 TCATCTTTGAA
1 TCATCTTTGAA
27711 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:30372 original size:92 final size:92
Alignment explanation
Indices: 30267--30506 Score: 399
Period size: 92 Copynumber: 2.6 Consensus size: 92
30257 ATTGGTTTTG
* *
30267 TGGTTCCTACCAAACCAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTC
1 TGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTC
*
30332 CTCTTCCAAATTCAATAACTGGTTCTA
66 ATCTTCCAAATTCAATAACTGGTTCTA
*
30359 TGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTC
1 TGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTC
* * * *
30424 ATCTTCCAAATTCAATGATTGGTTTTG
66 ATCTTCCAAATTCAATAACTGGTTCTA
*
30451 TGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCGAGAAGATGCTATT
1 TGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
30507 GGGTCTCCTT
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
92 138 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (92 bp):
TGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTC
ATCTTCCAAATTCAATAACTGGTTCTA
Found at i:32810 original size:22 final size:21
Alignment explanation
Indices: 32784--32841 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
32774 CTTGATTTAA
32784 TTTTTTTTCTTTTTCTTT-TT
1 TTTTTTTTCTTTTTCTTTCTT
*
32804 TGGTTTTTTTCTATTTCTTTCCTT
1 T--TTTTTTTCTTTTTCTTT-CTT
32828 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
32842 TCCTCTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
22 28 0.88
24 3 0.09
ACGTcount: A:0.02, C:0.12, G:0.03, T:0.83
Consensus pattern (21 bp):
TTTTTTTTCTTTTTCTTTCTT
Found at i:32840 original size:10 final size:10
Alignment explanation
Indices: 32784--32859 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
32774 CTTGATTTAA
32784 TTTTTTTTCT
1 TTTTTTTTCT
32794 TTTTCTTTT-T
1 TTTT-TTTTCT
32804 TGGTTTTTTTCT
1 T--TTTTTTTCT
* * *
32816 ATTTCTTTCC
1 TTTTTTTTCT
32826 TTTTTTTT-T
1 TTTTTTTTCT
* *
32835 TCTTTTTTCC
1 TTTTTTTTCT
*
32845 TCTTTTTTCT
1 TTTTTTTTCT
32855 TTTTT
1 TTTTT
32860 CCTTTCTTTG
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
9 7 0.14
10 32 0.63
11 8 0.16
12 4 0.08
ACGTcount: A:0.01, C:0.14, G:0.03, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:32841 original size:29 final size:29
Alignment explanation
Indices: 32807--32868 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
32797 TCTTTTTTGG
* *
32807 TTTTTTTCTATTTCTTTCCTTTTTT-TTTTC
1 TTTTTTCCTATTT-TTT-CTTTTTTCCTTTC
*
32837 TTTTTTCCTCTTTTTTCTTTTTTCCTTTC
1 TTTTTTCCTATTTTTTCTTTTTTCCTTTC
32866 TTT
1 TTT
32869 GCTGGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 10 0.36
30 11 0.39
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTTCCTATTTTTTCTTTTTTCCTTTC
Found at i:32851 original size:22 final size:21
Alignment explanation
Indices: 32784--32858 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 21
32774 CTTGATTTAA
*
32784 TTTTTTTTC-TTTTTCTTTTT
1 TTTTTTTTCTTTTTTCTCTTT
*
32804 TGGTTTTTTTCTATTTCTT-TCCTT
1 T--TTTTTTTCT-TTT-TTCTCTTT
32828 TTTTTTTTCTTTTTTCCTCTTT
1 TTTTTTTTCTTTTTT-CTCTTT
32850 TTTCTTTTT
1 TTT-TTTTT
32859 TCCTTTCTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
20 3 0.07
21 3 0.07
22 24 0.55
23 5 0.11
24 7 0.16
25 2 0.05
ACGTcount: A:0.01, C:0.15, G:0.03, T:0.81
Consensus pattern (21 bp):
TTTTTTTTCTTTTTTCTCTTT
Found at i:32865 original size:22 final size:20
Alignment explanation
Indices: 32807--32865 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
32797 TCTTTTTTGG
*
32807 TTTTTTTC-TATTTCTTTCC
1 TTTTTTTCTTTTTTCTTTCC
32826 TTTTTTT-TTTCTTT-TTTCC
1 TTTTTTTCTTT-TTTCTTTCC
32845 TCTTTTTTCTTTTTTCCTTTC
1 T-TTTTTTCTTTTTT-CTTTC
32866 TTTGCTGGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
19 14 0.42
20 12 0.36
21 3 0.09
22 4 0.12
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTCTTTTTTCTTTCC
Found at i:32866 original size:45 final size:45
Alignment explanation
Indices: 32783--32886 Score: 108
Period size: 47 Copynumber: 2.3 Consensus size: 45
32773 TCTTGATTTA
32783 ATTTTTTTTC-TTTTTCTTTTTTGGTTTTTTTCTATTTCTTTCCT-
1 ATTTTTTTTCTTTTTTCTTTTTT-GTTTTTTTCTATTTCTTTCCTG
* * *
32827 TTTTTTTTTCTTTTTTCCTCTTTTT-TCTTTTTTC-CTTTCTTTGCTGG
1 ATTTTTTTTCTTTTTT-CT-TTTTTGT-TTTTTTCTATTTCTTTCCT-G
32874 ATTTTTTTTCTTT
1 ATTTTTTTTCTTT
32887 CTTTGCTGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
44 9 0.18
45 15 0.30
46 9 0.18
47 17 0.34
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (45 bp):
ATTTTTTTTCTTTTTTCTTTTTTGTTTTTTTCTATTTCTTTCCTG
Found at i:32867 original size:19 final size:19
Alignment explanation
Indices: 32789--32868 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 19
32779 TTTAATTTTT
**
32789 TTTC-TTTTTCTTTTTTGG
1 TTTCTTTTTTCTTTTTTCC
* *
32807 TTT-TTTTCTATTTCTTTCC
1 TTTCTTTTTTCTTT-TTTCC
*
32826 TTTTTTTTTTCTTTTTTCC
1 TTTCTTTTTTCTTTTTTCC
32845 --TCTTTTTTCTTTTTTCC
1 TTTCTTTTTTCTTTTTTCC
32862 TTTCTTT
1 TTTCTTT
32869 GCTGGATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
17 16 0.32
18 10 0.20
19 16 0.32
20 8 0.16
ACGTcount: A:0.01, C:0.17, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTCTTTTTTCTTTTTTCC
Found at i:32879 original size:22 final size:22
Alignment explanation
Indices: 32854--32897 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
32844 CTCTTTTTTC
32854 TTTTTTCCTTTCTTTGCTGGAT
1 TTTTTTCCTTTCTTTGCTGGAT
*
32876 TTTTTTTCTTTCTTTGCTGGAT
1 TTTTTTCCTTTCTTTGCTGGAT
32898 GAGTATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.14, T:0.66
Consensus pattern (22 bp):
TTTTTTCCTTTCTTTGCTGGAT
Found at i:36151 original size:14 final size:14
Alignment explanation
Indices: 36112--36155 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
36102 CAAAGATGCC
*
36112 AAATGCAAATGTAA
1 AAATGTAAATGTAA
*
36126 ATAATGTGAATGTAA
1 A-AATGTAAATGTAA
36141 AAATGTAAATGTAA
1 AAATGTAAATGTAA
36155 A
1 A
36156 TTATTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.55, C:0.02, G:0.16, T:0.27
Consensus pattern (14 bp):
AAATGTAAATGTAA
Found at i:37869 original size:30 final size:32
Alignment explanation
Indices: 37816--37874 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
37806 TGCAAATAAA
*
37816 ATGAAATATTAATAAGAAAATATATAAATACT
1 ATGAAATATTAATAAGAAAATATAAAAATACT
* *
37848 ATGAAA-A-TAATAAGTATATATAAAAAT
1 ATGAAATATTAATAAGAAAATATAAAAAT
37875 TTTGAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 1 0.04
32 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (32 bp):
ATGAAATATTAATAAGAAAATATAAAAATACT
Found at i:37901 original size:15 final size:15
Alignment explanation
Indices: 37879--37918 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
37869 AAAAATTTTG
37879 AAAA-TAAATAATTA
1 AAAATTAAATAATTA
*
37893 AAAATTAAAAAATTA
1 AAAATTAAATAATTA
37908 AAAATTAAATA
1 AAAATTAAATA
37919 TATGAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATTAAATAATTA
Found at i:37910 original size:6 final size:7
Alignment explanation
Indices: 37879--37916 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
37869 AAAAATTTTG
37879 AAAA-TA
1 AAAATTA
37885 AATAATTA
1 AA-AATTA
37893 AAAATTAA
1 AAAATT-A
37901 AAAATTA
1 AAAATTA
37908 AAAATTA
1 AAAATTA
37915 AA
1 AA
37917 TATATGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 2 0.07
7 16 0.55
8 11 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:40076 original size:3 final size:3
Alignment explanation
Indices: 40070--40133 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
40060 AATAATTATT
* **
40070 TAA TAA TAA T-A TAA TATA TAA TAA TATT TAA TAA TAA TAA TAA TTT
1 TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA
40116 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
40134 ATAAATAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.87
4 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:40092 original size:15 final size:15
Alignment explanation
Indices: 40072--40149 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 15
40062 TAATTATTTA
40072 ATAATAATATAATAT
1 ATAATAATATAATAT
*
40087 ATAATAATAT-TTA-
1 ATAATAATATAATAT
40100 ATAATAATAATAAT-T
1 ATAATAAT-ATAATAT
*
40115 TTAATAATAATAATA-
1 ATAATAAT-ATAATAT
40130 ATAAATAA-ATAA-AT
1 AT-AATAATATAATAT
40144 A-AATAA
1 ATAATAA
40150 AATGGGTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
12 5 0.09
13 9 0.17
14 9 0.17
15 25 0.47
16 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATAATATAATAT
Found at i:40093 original size:18 final size:17
Alignment explanation
Indices: 40070--40137 Score: 86
Period size: 18 Copynumber: 4.0 Consensus size: 17
40060 AATAATTATT
40070 TAATAATAATATAATATA
1 TAATAATAATATAATA-A
*
40088 TAATAAT-ATTTAATAA
1 TAATAATAATATAATAA
*
40104 TAATAATAATTTTAATAA
1 TAATAATAA-TATAATAA
40122 TAATAATAATA-AATAA
1 TAATAATAATATAATAA
40138 ATAAATAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
16 13 0.28
17 9 0.20
18 24 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATAATAATATAATAA
Found at i:49992 original size:18 final size:17
Alignment explanation
Indices: 49959--49995 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
49949 TTCTTCATCA
*
49959 TCCCATATTTTTATTCT
1 TCCCATATTCTTATTCT
49976 TCCCATCATTCTTATTCT
1 TCCCAT-ATTCTTATTCT
49994 TC
1 TC
49996 TTAATTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.16, C:0.30, G:0.00, T:0.54
Consensus pattern (17 bp):
TCCCATATTCTTATTCT
Found at i:50875 original size:103 final size:103
Alignment explanation
Indices: 50756--50949 Score: 243
Period size: 103 Copynumber: 1.9 Consensus size: 103
50746 CCTTGATTTG
* *
50756 AAACATTGAAGCTAATTTTGGTAAT-GATACTCATAGGAGTATC-TA-TAACGAGGGTAGAGTAT
1 AAACATTGAAGCTAATTTTGGT-ATCGATAATCATAGGAGTATCATACTAACGAGGGT-GAGTAC
* * * *
50818 CGATACTTCCCATAGAAGTATCGATACCATAGTATTTTTCA
64 CAATAC-TCCAAAACAAGTATCGATACCATAGTATTTTTCA
* *
50859 AAACATTGAAAG-TAATTTTGGTATCGGTAATCATAGGAGTATCGATACTAAGGAGGGTGAGTAC
1 AAACATTG-AAGCTAATTTTGGTATCGATAATCATAGGAGTATC-ATACTAACGAGGGTGAGTAC
50923 CAATACTCCAAAACAAGTATCGATACC
64 CAATACTCCAAAACAAGTATCGATACC
50950 GAGTCTAATT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
102 2 0.03
103 34 0.44
104 21 0.27
105 12 0.15
106 9 0.12
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (103 bp):
AAACATTGAAGCTAATTTTGGTATCGATAATCATAGGAGTATCATACTAACGAGGGTGAGTACCA
ATACTCCAAAACAAGTATCGATACCATAGTATTTTTCA
Found at i:59667 original size:20 final size:21
Alignment explanation
Indices: 59621--59675 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
59611 TTTAGTATAG
* *
59621 GAGTATCGATACTCATTCATT
1 GAGTATCGATACTCATGCATA
*
59642 GAGTATCGATAC-CATGGATA
1 GAGTATCGATACTCATGCATA
59662 GAGTATCGATACTC
1 GAGTATCGATACTC
59676 CTAACACTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (21 bp):
GAGTATCGATACTCATGCATA
Found at i:59696 original size:30 final size:30
Alignment explanation
Indices: 59662--59733 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
59652 ACCATGGATA
*
59662 GAGTATCGATACTCCTAACACTCCCTATAG
1 GAGTATCGATACTCCTAACACTCCCCATAG
59692 GAGTATCGATACTCCTAACACTCCCCATAG
1 GAGTATCGATACTCCTAACACTCCCCATAG
59722 GAGTATCGATAC
1 GAGTATCGATAC
59734 CGAGGTGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (30 bp):
GAGTATCGATACTCCTAACACTCCCCATAG
Found at i:59808 original size:22 final size:23
Alignment explanation
Indices: 59779--59838 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 23
59769 TGTCGATATA
59779 CTGAGAGTATCGATATCCTAGCT
1 CTGAGAGTATCGATATCCTAGCT
*
59802 -TGAGAGTATCGCTATCCTAGCT
1 CTGAGAGTATCGATATCCTAGCT
*
59824 CT-AGAGTATCAATAT
1 CTGAGAGTATCGATAT
59839 TGGTCCAGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (23 bp):
CTGAGAGTATCGATATCCTAGCT
Found at i:69624 original size:28 final size:28
Alignment explanation
Indices: 69584--69642 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
69574 TTCACCTAAC
69584 TAAATTGATGTAAGC-ATGACATCAAAAT
1 TAAATTGATGTAAGCAATGACATC-AAAT
69612 TAAATTGATGTAAGCAATGACATCAAAT
1 TAAATTGATGTAAGCAATGACATCAAAT
69640 TAA
1 TAA
69643 TTAGGTGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (28 bp):
TAAATTGATGTAAGCAATGACATCAAAT
Done.