Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008056.1 Hibiscus syriacus cultivar Beakdansim tig00110551_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: 2370532
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 13
Found at i:2294439 original size:113 final size:112
Alignment explanation
Indices: 2294315--2294530 Score: 369
Period size: 113 Copynumber: 1.9 Consensus size: 112
2294305 AGAGTCATGC
*
2294315 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
** *
2294380 TATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTAAAGA
66 TATGAACACT-TCTGGAAAAGTTGATCCATCAAGTGATGAATTAAAGA
*
2294428 AAAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGCTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
2294493 TATGAACACTTCTGGAAATGTTGATCCATCAAGTGATG
66 TATGAACACTTCTGGAAAAGTTGATCCATCAAGTGATG
2294531 GATTTTGAAT
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
112 26 0.27
113 71 0.73
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (112 bp):
AAAAGGTTGAACAAGCTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACACTTCTGGAAAAGTTGATCCATCAAGTGATGAATTAAAGA
Found at i:2295910 original size:18 final size:18
Alignment explanation
Indices: 2295883--2295917 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2295873 TATATGAAAC
*
2295883 AAATTGAATTTCAAAAAT
1 AAATTAAATTTCAAAAAT
2295901 AAATTAAATTTCAAAAA
1 AAATTAAATTTCAAAAA
2295918 GATAAACTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATTAAATTTCAAAAAT
Found at i:2303493 original size:15 final size:15
Alignment explanation
Indices: 2303470--2303501 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2303460 TGCAATGAAT
2303470 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
2303485 AATGCATGTATGCAA
1 AATGAATGTATGCAA
2303500 AA
1 AA
2303502 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:2306863 original size:30 final size:28
Alignment explanation
Indices: 2306799--2306881 Score: 73
Period size: 30 Copynumber: 3.0 Consensus size: 28
2306789 TTGAAAAATA
2306799 AAAAATTAATAAAATAATATAAATATTAT
1 AAAAA-TAATAAAATAATATAAATATTAT
* * * *
2306828 GAAAATAATAAATATATATATAATTTTTTT
1 AAAAATAATAAA-ATA-ATATAAATATTAT
*
2306858 AAAAATAA-AAAA-AATA-AAAAATTA
1 AAAAATAATAAAATAATATAAATATTA
2306882 AATATATGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
25 4 0.09
26 3 0.07
27 1 0.02
28 8 0.19
29 10 0.23
30 17 0.40
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAAATAATAAAATAATATAAATATTAT
Found at i:2307057 original size:18 final size:18
Alignment explanation
Indices: 2307034--2307078 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2307024 ATAAAACGAA
2307034 TAAATAAATAATTTTGAT
1 TAAATAAATAATTTTGAT
*
2307052 TAAATAAATGATTTTGAT
1 TAAATAAATAATTTTGAT
*
2307070 TAAAAAAAT
1 TAAATAAAT
2307079 TTTTTTGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (18 bp):
TAAATAAATAATTTTGAT
Found at i:2308012 original size:108 final size:107
Alignment explanation
Indices: 2307819--2308321 Score: 386
Period size: 108 Copynumber: 4.5 Consensus size: 107
2307809 CACCTTTTTA
**** *
2307819 AAGCTGATGTGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTGATTTGTTATCAAT
1 AAGCTGATG-GGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTGAAACATTATCAAC
* * * *
2307884 ATTATCAATATATTAGGTAGCGCCTAAAATGTTACCAAAGTTT
65 ATAATCAACATATCAAGTAGCGCCTAAAATGTTACCAAAGTTT
*
2307927 AAGCTGATGGAGCCTTAGAAATCCT-AGGATAACAAAATAGGTTAATTA-TTGGAAACATTATCA
1 AAGCTGATGG-GCCTTAGAAAT-CTGACGATAACAAAATAGGTTAATTACTT-GAAACATTATCA
* * * * **
2307990 ACCATAAT-AACATATCAAGTAGCACTTATTTAATGTAATATGTAGCACTTGTTT
63 A-CATAATCAACATATCAAGTAGCGC----CTAA---AATGT-TACCA-AAGTTT
* * ****
2308044 AAAGCTAATTGGGCCTTAAAAATCTGACGATAACAAAATAGGTTAATTACTTGATTTGTTATCAA
1 -AAGCTGA-TGGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTGAAACATTATCAA
** * * *
2308109 TGTTATCAACATATTATGTAGCGCCTAAAATGTTACCAAAGTTT
64 CATAATCAACATATCAAGTAGCGCCTAAAATGTTACCAAAGTTT
*
2308153 AAGCTGATGGAGCCTTAGAAATCTGATGATAACAAAATAGGTTAATTAC-TGAAAACATTATCAA
1 AAGCTGATGG-GCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTG-AAACATTATCAA
* * * ** *
2308217 CCATAAT-AACATAACAAGTAGCGCTTATTTAATGTAATAGGTAACGCTTGTTT
64 -CATAATCAACATATCAAGTAGCGCCTA--AAATGT--TA-CCAA----AGTTT
*
2308270 AAAGCTGATGAGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTT
1 -AAGCTGATG-GGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTT
2308322 AATTTTTTCA
Statistics
Matches: 308, Mismatches: 54, Indels: 55
0.74 0.13 0.13
Matches are distributed among these distances:
107 8 0.03
108 130 0.42
109 13 0.04
110 9 0.03
111 4 0.01
112 5 0.02
113 2 0.01
114 3 0.01
115 4 0.01
116 4 0.01
117 13 0.04
118 106 0.34
119 7 0.02
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (107 bp):
AAGCTGATGGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTGAAACATTATCAACA
TAATCAACATATCAAGTAGCGCCTAAAATGTTACCAAAGTTT
Found at i:2308136 original size:226 final size:226
Alignment explanation
Indices: 2307742--2308348 Score: 963
Period size: 226 Copynumber: 2.7 Consensus size: 226
2307732 ACATAACCGA
* * * *
2307742 TTAATTACTGGAAACATTATTAACCATAATAACATAACAGGTAGCGCTTATGTAACGTAATAGGT
1 TTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAGGT
*
2307807 AGCACCTT-TTTAAAGCTGATGTGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTG
66 AGCA-CTTGTTTAAAGCTGATGAGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTG
2307871 ATTTGTTATCAATATTATCAATATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGATG
130 ATTTGTTATCAATATTATCAATATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGATG
2307936 GAGCCTTAGAAATCCT-AGGATAACAAAATAGG
195 GAGCCTTAGAAAT-CTGAGGATAACAAAATAGG
* * * *
2307968 TTAATTATTGGAAACATTATCAACCATAATAACATATCAAGTAGCACTTATTTAATGTAATATGT
1 TTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAGGT
* *
2308033 AGCACTTGTTTAAAGCTAATTG-GGCCTTAAAAATCTGACGATAACAAAATAGGTTAATTACTTG
66 AGCACTTGTTTAAAGCTGA-TGAGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTG
* * *
2308097 ATTTGTTATCAATGTTATCAACATATTATGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGATG
130 ATTTGTTATCAATATTATCAATATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGATG
*
2308162 GAGCCTTAGAAATCTGATGATAACAAAATAGG
195 GAGCCTTAGAAATCTGAGGATAACAAAATAGG
*
2308194 TTAATTACTGAAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAGGT
1 TTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAGGT
* * * *
2308259 AACGCTTGTTTAAAGCTGATGAGGCCTTAGAAATCCGACGATAACAAAATAGGTTAATTACTTAA
66 AGCACTTGTTTAAAGCTGATGAGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTGA
*
2308324 TTT-TT-TCAACATTATCAATATATTA
131 TTTGTTATCAATATTATCAATATATTA
2308349 CCATGTACAT
Statistics
Matches: 349, Mismatches: 28, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
224 17 0.05
225 9 0.03
226 321 0.92
227 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (226 bp):
TTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAGGT
AGCACTTGTTTAAAGCTGATGAGGCCTTAGAAATCTGACGATAACAAAATAGGTTAATTACTTGA
TTTGTTATCAATATTATCAATATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGATGG
AGCCTTAGAAATCTGAGGATAACAAAATAGG
Found at i:2308555 original size:7 final size:7
Alignment explanation
Indices: 2308546--2308829 Score: 252
Period size: 7 Copynumber: 40.1 Consensus size: 7
2308536 GTATATAGTG
*
2308546 TATATAG
1 TATATAT
*
2308553 TATATAA
1 TATATAT
*
2308560 TATATAG
1 TATATAT
2308567 TATAT-T
1 TATATAT
2308573 ATATATAT
1 -TATATAT
2308581 TATATAT
1 TATATAT
*
2308588 TGTATAT
1 TATATAT
2308595 TATATAT
1 TATATAT
2308602 TATAGTAGT
1 TATA-TA-T
*
2308611 TTTATAT
1 TATATAT
2308618 ATATATAT
1 -TATATAT
2308626 TATATCA-
1 TATAT-AT
2308633 TATA-A-
1 TATATAT
2308638 TATATAT
1 TATATAT
*
2308645 GATATAT
1 TATATAT
2308652 GATATATAT
1 --TATATAT
2308661 TATATCTAT
1 TATA--TAT
2308670 TATATAT
1 TATATAT
2308677 TATATAT
1 TATATAT
2308684 TATATAT
1 TATATAT
2308691 TATATAT
1 TATATAT
2308698 TATATAT
1 TATATAT
2308705 TATATAT
1 TATATAT
2308712 TATATAT
1 TATATAT
2308719 TA-ATA-
1 TATATAT
2308724 T-TATAT
1 TATATAT
2308730 TATAGTAT
1 TATA-TAT
*
2308738 TCT-TA-
1 TATATAT
2308743 TAGTATAT
1 TA-TATAT
*
2308751 AATATAT
1 TATATAT
2308758 TAGT-TA-
1 TA-TATAT
2308764 TATATAT
1 TATATAT
2308771 TAATATAT
1 T-ATATAT
*
2308779 ACATATAT
1 -TATATAT
2308787 TATATAT
1 TATATAT
2308794 TAT-TAT
1 TATATAT
2308800 TAT-TATT
1 TATATA-T
2308807 TATTATAT
1 TA-TATAT
2308815 TATATAT
1 TATATAT
2308822 TATATAT
1 TATATAT
2308829 T
1 T
2308830 TATTTGTTTA
Statistics
Matches: 235, Mismatches: 15, Indels: 54
0.77 0.05 0.18
Matches are distributed among these distances:
5 11 0.05
6 20 0.09
7 150 0.64
8 35 0.15
9 19 0.08
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (7 bp):
TATATAT
Found at i:2308675 original size:110 final size:116
Alignment explanation
Indices: 2308554--2308829 Score: 317
Period size: 110 Copynumber: 2.4 Consensus size: 116
2308544 TGTATATAGT
* * *
2308554 ATATAATATATAGTATATTATATATATTATATATTGTATATTATATATTATAGTAGT-T-TTATA
1 ATATATTATATATTATATTATATATATTATATATTATATATTATATATTATA-TAGTATATTATA
*
2308617 -TATA-TA-TATTATA-TCATATAATATA-TATGATATATGATA-T-ATAT-TAT
65 TTATAGTATTATTATAGT-ATATAATATATTA-GATATAT-ATATTAATATATAC
* *
2308664 ATCTATTATATATTATA-TATTATATATTATATATTATATATTATATATTATATATTAATATTAT
1 ATATATTATATATTATATTA-TATATATTATATATTATATATTATATATTATATAGT-ATATTAT
* *
2308728 ATTATAGTATTCTTATAGTATATAATATATTAGTTATATATATTAATATATAC
64 ATTATAGTATTATTATAGTATATAATATATTAGATATATATATTAATATATAC
2308781 ATATATTATATATTATTATTAT-TAT-TTATTATATTATATATTATATATT
1 ATATATTATATATTA-TATTATATATATTA-TATATTATATATTATATATT
2308830 TATTTGTTTA
Statistics
Matches: 142, Mismatches: 9, Indels: 23
0.82 0.05 0.13
Matches are distributed among these distances:
109 5 0.04
110 45 0.32
111 1 0.01
112 5 0.04
113 4 0.03
114 5 0.04
115 23 0.16
116 10 0.07
117 39 0.27
118 3 0.02
119 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (116 bp):
ATATATTATATATTATATTATATATATTATATATTATATATTATATATTATATAGTATATTATAT
TATAGTATTATTATAGTATATAATATATTAGATATATATATTAATATATAC
Found at i:2308844 original size:23 final size:22
Alignment explanation
Indices: 2308667--2308851 Score: 74
Period size: 21 Copynumber: 8.5 Consensus size: 22
2308657 ATATTATATC
*
2308667 TATTA-TATATTA-TATATTATA
1 TATTATTAT-TTATTATATTAGA
*
2308688 TATTA-TATATTA-TATATTATA
1 TATTATTAT-TTATTATATTAGA
2308709 TATTATATATTAATATTATATT--A
1 TATTAT-TATT--TATTATATTAGA
* * *
2308732 TAGTATTCTTATAGTATA-TA-A
1 TATTATTATT-TATTATATTAGA
*
2308753 TA-TATTAGTTATATATATTA-A
1 TATTATTATTTAT-TATATTAGA
* *
2308774 TATATACATATATTA-TATATTA-T
1 TAT-TA-TTAT-TTATTATATTAGA
*
2308797 TATTATTATTTATTATATTATA
1 TATTATTATTTATTATATTAGA
*
2308819 TATTATATATTTATT-TGTTTAGA
1 TATTAT-TATTTATTAT-ATTAGA
2308842 TATT-TTATTT
1 TATTATTATTT
2308852 CATTTTTATT
Statistics
Matches: 135, Mismatches: 13, Indels: 32
0.75 0.07 0.18
Matches are distributed among these distances:
19 2 0.01
20 13 0.10
21 56 0.41
22 14 0.10
23 37 0.27
24 4 0.03
25 9 0.07
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (22 bp):
TATTATTATTTATTATATTAGA
Found at i:2309642 original size:24 final size:24
Alignment explanation
Indices: 2309614--2309684 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
2309604 GAAGGCGACA
2309614 GCCAAAGCGACGGTCTGGGTGGCG
1 GCCAAAGCGACGGTCTGGGTGGCG
*
2309638 GCCAAAGCGACGGTCTGGGCGGCG
1 GCCAAAGCGACGGTCTGGGTGGCG
*
2309662 GCCAAAGCGACAGTCTGGGTGGC
1 GCCAAAGCGACGGTCTGGGTGGC
2309685 AGTTTGGCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.18, C:0.27, G:0.44, T:0.11
Consensus pattern (24 bp):
GCCAAAGCGACGGTCTGGGTGGCG
Found at i:2311174 original size:16 final size:18
Alignment explanation
Indices: 2311147--2311183 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
2311137 TTAACTTATT
2311147 TTTTCATTTTTGTTTT-A
1 TTTTCATTTTTGTTTTCA
2311164 TTTTC-TTTTTGTTTTCA
1 TTTTCATTTTTGTTTTCA
2311181 TTT
1 TTT
2311184 GCATCATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.78
Consensus pattern (18 bp):
TTTTCATTTTTGTTTTCA
Found at i:2312799 original size:20 final size:20
Alignment explanation
Indices: 2312774--2312822 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
2312764 AAATACCAGC
2312774 TTGAAAGATCTTCTAAGTAT
1 TTGAAAGATCTTCTAAGTAT
2312794 TTGAAAGATCTTCTAAGTAT
1 TTGAAAGATCTTCTAAGTAT
*
2312814 TGGAAAGAT
1 TTGAAAGAT
2312823 GAAGACGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGAAAGATCTTCTAAGTAT
Found at i:2322238 original size:21 final size:21
Alignment explanation
Indices: 2322214--2322271 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2322204 GCCATTTGCA
*
2322214 CCGAATTG-CCACATATTTGTC
1 CCGAA-TGACCACATAATTGTC
*
2322235 CCGAAGGACCACATAATTGTC
1 CCGAATGACCACATAATTGTC
*
2322256 CTGAATGACCACATAA
1 CCGAATGACCACATAA
2322272 AATCCTCGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.24
Consensus pattern (21 bp):
CCGAATGACCACATAATTGTC
Found at i:2323813 original size:2 final size:2
Alignment explanation
Indices: 2323806--2323838 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2323796 ATAGATGTAG
2323806 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
2323839 GATTATAGCT
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:2324288 original size:6 final size:7
Alignment explanation
Indices: 2324272--2324356 Score: 61
Period size: 7 Copynumber: 12.3 Consensus size: 7
2324262 GATATCATAT
2324272 TATATAG
1 TATATAG
2324279 TATA-AG
1 TATATAG
2324285 TATATAG
1 TATATAG
*
2324292 TGTATAG
1 TATATAG
*
2324299 TGTATAG
1 TATATAG
*
2324306 TGTATAG
1 TATATAG
*
2324313 TGTATAG
1 TATATAG
*
2324320 TGTATA-
1 TATATAG
*
2324326 TATTATAT
1 TA-TATAG
2324334 TATATA-
1 TATATAG
2324340 TATTATA-
1 TA-TATAG
2324347 TATTATAG
1 TA-TATAG
2324355 TA
1 TA
2324357 GTTTTATATA
Statistics
Matches: 71, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
6 9 0.13
7 58 0.82
8 4 0.06
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (7 bp):
TATATAG
Found at i:2324297 original size:7 final size:7
Alignment explanation
Indices: 2324274--2324325 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
2324264 TATCATATTA
*
2324274 TATAGTA
1 TATAGTG
*
2324281 TA-AGTA
1 TATAGTG
2324287 TATAGTG
1 TATAGTG
2324294 TATAGTG
1 TATAGTG
2324301 TATAGTG
1 TATAGTG
2324308 TATAGTG
1 TATAGTG
2324315 TATAGTG
1 TATAGTG
2324322 TATA
1 TATA
2324326 TATTATATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
6 6 0.14
7 37 0.86
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (7 bp):
TATAGTG
Found at i:2324332 original size:21 final size:21
Alignment explanation
Indices: 2324287--2324355 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
2324277 AGTATAAGTA
*
2324287 TATAGTGTATAGTGTATAGT-G
1 TATAGTGTATAGTGTATA-TAT
2324308 TATAGTGTATAGTGTATATAT
1 TATAGTGTATAGTGTATATAT
* * *
2324329 TATATTATATA-TATTATATAT
1 TATAGTGTATAGT-GTATATAT
2324350 TATAGT
1 TATAGT
2324356 AGTTTTATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 39 0.95
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (21 bp):
TATAGTGTATAGTGTATATAT
Found at i:2324339 original size:2 final size:2
Alignment explanation
Indices: 2324322--2324405 Score: 69
Period size: 2 Copynumber: 45.5 Consensus size: 2
2324312 GTGTATAGTG
*
2324322 TA TA TA T- TA TA T- TA TA TA TA T- TA TA TA T- TA TA GTA GT- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA TA
*
2324361 TA TA TA T- TA TA TA TA -A TA TA T- TT TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2324399 TA TA TA T
1 TA TA TA T
2324406 TAATATTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
1 9 0.13
2 57 0.81
3 4 0.06
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2324341 original size:16 final size:16
Alignment explanation
Indices: 2324322--2324480 Score: 86
Period size: 16 Copynumber: 9.9 Consensus size: 16
2324312 GTGTATAGTG
2324322 TATATATTATATTATA
1 TATATATTATATTATA
2324338 TATAT-TATATATTATA
1 TATATAT-TATATTATA
2324354 GTAGT-T-TTATA-TATTA
1 -TA-TATATTATATTA-TA
* *
2324370 TATATAATATATTTTA
1 TATATATTATATTATA
2324386 -ATATA-TATA-TATA
1 TATATATTATATTATA
2324399 TATATATTAATATTAT-
1 TATATATT-ATATTATA
* * *
2324415 TTTATAGTATAATTAAA
1 TATATATTAT-ATTATA
2324432 GTATA-ATTATATTAGTTA
1 -TATATATTATATTA--TA
2324450 TATATATTAGTA-TATA
1 TATATATTA-TATTATA
* * *
2324466 CATATGTTATGTTAT
1 TATATATTATATTAT
2324481 GTTATGTTAT
Statistics
Matches: 112, Mismatches: 12, Indels: 38
0.69 0.07 0.23
Matches are distributed among these distances:
13 3 0.03
14 10 0.09
15 15 0.13
16 55 0.49
17 16 0.14
18 11 0.10
19 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (16 bp):
TATATATTATATTATA
Found at i:2324365 original size:18 final size:16
Alignment explanation
Indices: 2324329--2324464 Score: 111
Period size: 16 Copynumber: 8.3 Consensus size: 16
2324319 GTGTATATAT
2324329 TATATTATATATATTA
1 TATATTATATATATTA
*
2324345 TATATTATAGTAGTTTTA
1 TATATTATA-TA-TATTA
*
2324363 TATATTATATATAATA
1 TATATTATATATATTA
*
2324379 TATTTTA-ATATA-TA
1 TATATTATATATATTA
2324393 TATA-TATATATATTA
1 TATATTATATATATTA
* *
2324408 -ATATTATTTTATAGTA
1 TATATTA-TATATATTA
*
2324424 TA-ATTAAAGTATAATTA
1 TATATTATA-TAT-ATTA
2324441 TATTAGTTATATATATTA
1 TA-TA-TTATATATATTA
2324459 GTATAT
1 -TATAT
2324465 ACATATGTTA
Statistics
Matches: 96, Mismatches: 11, Indels: 25
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.02
14 13 0.14
15 9 0.09
16 32 0.33
17 11 0.11
18 19 0.20
19 6 0.06
20 4 0.04
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (16 bp):
TATATTATATATATTA
Found at i:2324370 original size:25 final size:23
Alignment explanation
Indices: 2324322--2324414 Score: 97
Period size: 25 Copynumber: 4.1 Consensus size: 23
2324312 GTGTATAGTG
*
2324322 TATATA-T-TATATTATATATAT
1 TATATATTATATATTTTATATAT
2324343 TATATATTATAGTAGTTTTATATAT
1 TATATATTATA-TA-TTTTATATAT
*
2324368 TATATATAATATATTTTA-ATA-
1 TATATATTATATATTTTATATAT
*
2324389 TATATATATATATATATTA-ATAT
1 TATATAT-TATATATTTTATATAT
2324412 TAT
1 TAT
2324415 TTTATAGTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
21 13 0.21
22 16 0.26
23 10 0.16
24 4 0.06
25 19 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TATATATTATATATTTTATATAT
Found at i:2324411 original size:6 final size:7
Alignment explanation
Indices: 2324322--2324414 Score: 82
Period size: 7 Copynumber: 12.4 Consensus size: 7
2324312 GTGTATAGTG
2324322 TATATAT
1 TATATAT
2324329 TATAT-T
1 TATATAT
2324335 ATATATAT
1 -TATATAT
2324343 TATATAT
1 TATATAT
2324350 TATAGTAGTTT
1 TATA-TA---T
2324361 TATATAT
1 TATATAT
2324368 TATATAT
1 TATATAT
*
2324375 AATATAT
1 TATATAT
*
2324382 TTTAATAT
1 TAT-ATAT
2324390 ATATATAT
1 -TATATAT
2324398 ATATATAT
1 -TATATAT
2324406 TA-ATAT
1 TATATAT
2324412 TAT
1 TAT
2324415 TTTATAGTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
6 7 0.10
7 38 0.52
8 19 0.26
9 2 0.03
10 2 0.03
11 5 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (7 bp):
TATATAT
Found at i:2324420 original size:22 final size:22
Alignment explanation
Indices: 2324322--2324413 Score: 55
Period size: 19 Copynumber: 4.7 Consensus size: 22
2324312 GTGTATAGTG
2324322 TATATAT-TATATT-ATATATA
1 TATATATATATATTAATATATA
* * *
2324342 T-TATATATTATAGTAGT-TTTA
1 TATATATA-TATATTAATATATA
2324363 TATAT-TATATA-TAATATAT-
1 TATATATATATATTAATATATA
*
2324382 TTTA-ATATATA-T-ATATATA
1 TATATATATATATTAATATATA
2324401 TATAT-TA-ATATTA
1 TATATATATATATTA
2324414 TTTTATAGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
18 9 0.16
19 24 0.44
20 7 0.13
21 11 0.20
22 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TATATATATATATTAATATATA
Found at i:2325434 original size:5 final size:5
Alignment explanation
Indices: 2324468--2325425 Score: 1779
Period size: 5 Copynumber: 194.6 Consensus size: 5
2324458 AGTATATACA
2324468 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324518 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324568 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATG- T-TGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324616 TATGT TATGT TATG- TATGT TATGT TATGT TATGT TATGT TA--T TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324663 TATGT TATTGT TATGT TATGT TATGT TATGT TAT-T TATGT TATGT TATGT
1 TATGT TA-TGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324713 TATG- T-TGT TATGT TATGT TATGT TATGT TATGT TATGT TATG- TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324760 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324810 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324860 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324910 TATG- TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATG- T-TGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2324957 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2325007 TATGTT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATG-T TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2325058 TATG- TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2325107 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2325157 TATGT TATGT TATGT TATGT TATG- T-TGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2325205 TATGT TATGT TATGT TATGT T-TG- TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2325253 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2325303 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2325353 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
1 TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT TATGT
2325403 TATGT TATGT TATGT TATGT TAT
1 TATGT TATGT TATGT TATGT TAT
2325426 ATATTATATA
Statistics
Matches: 934, Mismatches: 0, Indels: 38
0.96 0.00 0.04
Matches are distributed among these distances:
3 12 0.01
4 32 0.03
5 880 0.94
6 10 0.01
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TATGT
Found at i:2325934 original size:22 final size:22
Alignment explanation
Indices: 2325900--2325948 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2325890 CAAAGAGGGG
*
2325900 AACACAATGAAAACCATCGAAT
1 AACACAATAAAAACCATCGAAT
* * *
2325922 AACACAGTAAAAAGCATCGCAT
1 AACACAATAAAAACCATCGAAT
2325944 AACAC
1 AACAC
2325949 CAAAAAATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.24, G:0.10, T:0.12
Consensus pattern (22 bp):
AACACAATAAAAACCATCGAAT
Found at i:2327612 original size:200 final size:198
Alignment explanation
Indices: 2327012--2327780 Score: 870
Period size: 200 Copynumber: 3.9 Consensus size: 198
2327002 TTTACACCCC
* * * *
2327012 ATTATCATTATACCGGTAGACTTTTACCATTTTCATTGTAAATTAACCTATTACTTTAAAGTAAT
1 ATTATCATTATACCAGTA-AATTTTACCATTTACATTGTAAATTTACCTATTACTTTAAAGTAAT
** * *
2327077 AGGTTTCAAAATTATAAGTATCGATA-TTT-TATATGTGTATCGATACATTTTACGTGCAAATTG
65 AGGTTTCAAAATTCCAAGTATCGATACTTTGTACATGTGTATCGATACATTTTGCGTGCAAATTG
* * * *
2327140 TTTGAGAAACATACTGGAATAAAAGTATCGATACCTATATAGACAGTATCGATACTTGGTATTTA
130 TTTGAGAATCATATTGGAATAAAAGTATCGATACCTATATAAAAAGTATCGATACTT-GTATTTA
**
2327205 CGTTT
194 CGCCT
* * * *
2327210 ATTATCAATATACTAGTAGAATTTTACGATTTAAATTGTAAATTTACCTATTACTTTAAAGTAAC
1 ATTATCATTATACCAGTA-AATTTTACCATTTACATTGTAAATTTACCTATTACTTTAAAGTAA-
* * * * * * * *
2327275 CAGTTTTGAAATTTTGC--GTATCGATACTTTATACGTGTGTATCGATATATTTTGCGTGCAAAT
64 TAGGTTTCAAA-ATTCCAAGTATCGATACTTTGTACATGTGTATCGATACATTTTGCGTGCAAAT
* * * * * *
2327338 T-ATTGAGAATCATATTGGACTAAAAGTATCAATACCTATATATAAAGTATCAATACTTGGTATA
128 TGTTTGAGAATCATATTGGAATAAAAGTATCGATACCTATATAAAAAGTATCGATACTT-GTATT
*
2327402 TACACCT
192 TACGCCT
* *
2327409 ATTATCATTATACCAGTAAACTTTTACTC-TTTACATTGTTAATTTACCTATTACTTTATAGTAA
1 ATTATCATTATACCAGTAAA-TTTTAC-CATTTACATTGTAAATTTACCTATTACTTTAAAGTAA
* * * * *
2327473 TAGGCTTCAAAATTCCAAGTATCGATACTTTGTACATGTTTATTGATACGTTTTGCGTGTAAATT
64 TAGGTTTCAAAATTCCAAGTATCGATACTTTGTACATGTGTATCGATACATTTTGCGTGCAAATT
* *
2327538 GTTTGAGAATCATATTGGAATAAAAGTATCGATATCTATATAAAAAGTATTGATACTT-TAAGTT
129 GTTTGAGAATCATATTGGAATAAAAGTATCGATACCTATATAAAAAGTATCGATACTTGT-A-TT
2327602 TACGCCT
192 TACGCCT
* * * * *
2327609 ATTATCATTAAACAAATATATTCTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAAT
1 ATTATCATTATACCAGTAAATT-TTACCATTTACATTGTAAATTTACCTATTACTTTAAAGTAAT
* * *
2327674 AGGTTTCGAAATTCCAAGTATCGATACTTTGTATATGTGTATCGATACTTTTTGCGTGCAAATTG
65 AGGTTTCAAAATTCCAAGTATCGATACTTTGTACATGTGTATCGATACATTTTGCGTGCAAATTG
* * * * * *
2327739 TTTGAG-ATGCTTACTAGAATTAAAGTATTGATACCAATATAA
130 TTTGAGAAT-CATATTGGAATAAAAGTATCGATACCTATATAA
2327781 CAAAATATAT
Statistics
Matches: 479, Mismatches: 78, Indels: 26
0.82 0.13 0.04
Matches are distributed among these distances:
197 3 0.01
198 75 0.16
199 169 0.35
200 232 0.48
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (198 bp):
ATTATCATTATACCAGTAAATTTTACCATTTACATTGTAAATTTACCTATTACTTTAAAGTAATA
GGTTTCAAAATTCCAAGTATCGATACTTTGTACATGTGTATCGATACATTTTGCGTGCAAATTGT
TTGAGAATCATATTGGAATAAAAGTATCGATACCTATATAAAAAGTATCGATACTTGTATTTACG
CCT
Found at i:2327843 original size:36 final size:36
Alignment explanation
Indices: 2327785--2327862 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
2327775 ATATAACAAA
*
2327785 ATATATGTGTATCAAAACTCCAAGTA-CTGATACTTT
1 ATATATGTGAATCAAAACTCCAAGTATC-GATACTTT
* *
2327821 ATATATGTGAATCGAAATTCCAAGTATCGATACTTT
1 ATATATGTGAATCAAAACTCCAAGTATCGATACTTT
2327857 ATATAT
1 ATATAT
2327863 CTCCTAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 37 0.97
37 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (36 bp):
ATATATGTGAATCAAAACTCCAAGTATCGATACTTT
Found at i:2329128 original size:187 final size:188
Alignment explanation
Indices: 2328752--2329180 Score: 519
Period size: 187 Copynumber: 2.3 Consensus size: 188
2328742 CTTTTTTCAT
* * * * *
2328752 TTCATTTCAATTCCTAAAGTATCGATACTATGGTACATATACTTGTAAAAGTATCAATACTTTCA
1 TTCATTTAAATTCCTAAAGTATCGATACTTTGGTACATATACTTATAAAAATATCAATACTGTCA
* * * *
2328817 ATAATTTCGGTAGTGCTTTATCAGTTTTGTCAAATTGAAACCGGTTTTGTCCAATTTCAACATGT
66 ATAATTTCGATAGTGCTTTATCAATTTTGTCAAATTGAAACCGATTTTGTCAAATTTCAACATGT
* * *
2328882 TATATTGTCATGTATCGATACATGTGTCTAAGGTGTCGATACTTTATAGGCGCTATTA
131 TATATTGTCATGTATCGATACATGTGTCTAAGGTATCAATACTTTATAGCCGCTATTA
* * * *
2328940 TTCATTT-AATTCCTACAGTATCGATACTTTGGTACACATAATTATAAAAATATCGATACTGTCA
1 TTCATTTAAATTCCTAAAGTATCGATACTTTGGTACATATACTTATAAAAATATCAATACTGTCA
*
2329004 ATAA-TTCTGATA-T-CTCTTCATCAATTTTGTCAAATTGAAACCGATTTTG-GAAATTTTCAAC
66 ATAATTTC-GATAGTGCT-TT-ATCAATTTTGTCAAATTGAAACCGATTTTGTCAAA-TTTCAAC
* * **
2329065 CTGTTATATTGTCATGTATCGATACATGTGTGTAAGGTATCAATACTATT-TAGCCTTTATTA
127 ATGTTATATTGTCATGTATCGATACATGTGTCTAAGGTATCAATACT-TTATAGCCGCTATTA
*
2329127 TTGCAATTCTTTTAAATTCGTAAAGTATCGATACTTTGGTACATATACTTATAA
1 TT-C-A----TTTAAATTCCTAAAGTATCGATACTTTGGTACATATACTTATAA
2329181 TCGTATCGAT
Statistics
Matches: 205, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
185 2 0.01
186 8 0.04
187 145 0.71
188 10 0.05
189 1 0.00
193 3 0.01
194 36 0.18
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (188 bp):
TTCATTTAAATTCCTAAAGTATCGATACTTTGGTACATATACTTATAAAAATATCAATACTGTCA
ATAATTTCGATAGTGCTTTATCAATTTTGTCAAATTGAAACCGATTTTGTCAAATTTCAACATGT
TATATTGTCATGTATCGATACATGTGTCTAAGGTATCAATACTTTATAGCCGCTATTA
Found at i:2329261 original size:20 final size:19
Alignment explanation
Indices: 2329223--2329275 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
2329213 GCTTTTTACA
*
2329223 AATTTTGTCAAATTTCAACC
1 AATTTTGTC-AATTCCAACC
*
2329243 AGTTTTGTCAATTACCAACC
1 AATTTTGTCAATT-CCAACC
*
2329263 AATTTTGTTAATT
1 AATTTTGTCAATT
2329276 TCGTCACCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (19 bp):
AATTTTGTCAATTCCAACC
Found at i:2329466 original size:34 final size:34
Alignment explanation
Indices: 2329427--2329494 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
2329417 TACTTTTATA
2329427 CATATACTTATAAATGTATCGATACATATCTACT
1 CATATACTTATAAATGTATCGATACATATCTACT
*
2329461 CATATACTTATAAATGTATCGATACATGTCTACT
1 CATATACTTATAAATGTATCGATACATATCTACT
2329495 TTTAACCGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (34 bp):
CATATACTTATAAATGTATCGATACATATCTACT
Found at i:2331663 original size:23 final size:22
Alignment explanation
Indices: 2331609--2331664 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
2331599 ATTAATTTAT
2331609 AAAATATTACATTATAAAATATTA
1 AAAATA-TA-ATTATAAAATATTA
** *
2331633 AACGTATAATTATAAATTAGTTA
1 AAAATATAATTATAAAATA-TTA
2331656 AAAATATAA
1 AAAATATAA
2331665 ATTTAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 10 0.38
23 12 0.46
24 4 0.15
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (22 bp):
AAAATATAATTATAAAATATTA
Found at i:2331678 original size:17 final size:17
Alignment explanation
Indices: 2331643--2331676 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2331633 AACGTATAAT
*
2331643 TATAAATTAGTTAAAAA
1 TATAAATTAATTAAAAA
2331660 TATAAATTTAATTAAAA
1 TATAAA-TTAATTAAAA
2331677 TACAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TATAAATTAATTAAAAA
Found at i:2331692 original size:17 final size:17
Alignment explanation
Indices: 2331672--2331708 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2331662 TAAATTTAAT
2331672 TAAAATACAATTTTTTA
1 TAAAATACAATTTTTTA
**
2331689 TAAAATATTATTTTTTA
1 TAAAATACAATTTTTTA
2331706 TAA
1 TAA
2331709 TCTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAAATACAATTTTTTA
Found at i:2332237 original size:23 final size:21
Alignment explanation
Indices: 2332181--2332237 Score: 51
Period size: 23 Copynumber: 2.5 Consensus size: 21
2332171 TTTTACAAAT
*
2332181 ATTATATTTTAATTAAATTAA
1 ATTATATTTTAACTAAATTAA
* *
2332202 ATTTAGATTTTTAACTAACTTATA
1 A-TTATA-TTTTAACTAAATTA-A
2332226 ATTATATGTTTA
1 ATTATAT-TTTA
2332238 GTACTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 1 0.04
22 5 0.18
23 20 0.71
24 2 0.07
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTATATTTTAACTAAATTAA
Found at i:2333394 original size:24 final size:24
Alignment explanation
Indices: 2333342--2333387 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2333332 GAGTCAACTC
*
2333342 GACCCGACCTGTTGACTTTGACTA
1 GACCCGACCCGTTGACTTTGACTA
* *
2333366 AACCCGACCCGTTGATTTTGAC
1 GACCCGACCCGTTGACTTTGAC
2333388 CTGACCCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (24 bp):
GACCCGACCCGTTGACTTTGACTA
Found at i:2334089 original size:27 final size:27
Alignment explanation
Indices: 2334029--2334081 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2334019 ACTTTGGTTA
*
2334029 GGTAAAATTATGAAAATACCCTTATGG
1 GGTAAAATTATAAAAATACCCTTATGG
2334056 GGTAAAATTA-AAAAATTACCCTTATG
1 GGTAAAATTATAAAAA-TACCCTTATG
2334082 TTGTAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (27 bp):
GGTAAAATTATAAAAATACCCTTATGG
Found at i:2335238 original size:37 final size:37
Alignment explanation
Indices: 2335158--2335261 Score: 158
Period size: 37 Copynumber: 2.9 Consensus size: 37
2335148 AAGTCTCTGC
*
2335158 AGGTTCAGACCGATCAAACTGGTAATTCC-T-TATAT
1 AGGTTCAGACCGATCGAACTGGTAATTCCTTATATAT
2335193 AGGTTCAGACCGATCGAACTGGTAATTCCTTATATAT
1 AGGTTCAGACCGATCGAACTGGTAATTCCTTATATAT
* * *
2335230 AGGTTCAGACCGATTGAGCTGATAATTCCTTA
1 AGGTTCAGACCGATCGAACTGGTAATTCCTTA
2335262 CGGATCTAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 28 0.44
36 1 0.02
37 34 0.54
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (37 bp):
AGGTTCAGACCGATCGAACTGGTAATTCCTTATATAT
Found at i:2355838 original size:10 final size:10
Alignment explanation
Indices: 2355800--2355844 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
2355790 TATTAAATGG
2355800 TAAATGATAA
1 TAAATGATAA
* *
2355810 TCAAATTACAA
1 T-AAATGATAA
*
2355821 TAACTGATAA
1 TAAATGATAA
2355831 TAAATGATAA
1 TAAATGATAA
2355841 TAAA
1 TAAA
2355845 CAAAATTAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
10 20 0.71
11 8 0.29
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (10 bp):
TAAATGATAA
Found at i:2358180 original size:21 final size:20
Alignment explanation
Indices: 2358156--2358213 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
2358146 TATGCAAAAA
2358156 AAATTAAATAAGTAAAATATT
1 AAATTAAATAA-TAAAATATT
*
2358177 AAATTAAAT-ACAAAATATT
1 AAATTAAATAATAAAATATT
2358196 AAA--AATATAATAAAATAT
1 AAATTAA-ATAATAAAATAT
2358214 ACCTTAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 19 0.58
20 1 0.03
21 9 0.27
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AAATTAAATAATAAAATATT
Found at i:2358624 original size:30 final size:29
Alignment explanation
Indices: 2358562--2358624 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
2358552 TACTGTTAAG
* *
2358562 GGTGTTAGATCGGGAAATATAGTTTGACC
1 GGTGTTAGATCGGGAAATATAGTATCACC
*
2358591 GGTGTTAGATCGGTAAATATACCG-ATCACC
1 GGTGTTAGATCGGGAAATATA--GTATCACC
2358621 GGTG
1 GGTG
2358625 ATTTTTCGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 20 0.69
30 8 0.28
31 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (29 bp):
GGTGTTAGATCGGGAAATATAGTATCACC
Found at i:2367431 original size:95 final size:95
Alignment explanation
Indices: 2367294--2367503 Score: 296
Period size: 95 Copynumber: 2.2 Consensus size: 95
2367284 TACCAGGGAT
*
2367294 GTAGTATCGATACCATGGTAAAGGTATCGAAACCAAGAAACATCGAATC-TAAAATTGTTATCGA
1 GTAGTATCGATACCATGGTAAAGGTATCGAAACCAAGAAACATCGAA-CATAAAATTGGTATCGA
** * *
2367358 TATTGGAATGGGGTATCGGTACCATAGTATG
65 TACCGGAAAGGGGTATCGGTACCATAGTATA
* * * * *
2367389 GTAGTATCGATATCATGGTAAGGGTATCGATACCAGGCAACATCGAACATAAAATTGGTATCGAT
1 GTAGTATCGATACCATGGTAAAGGTATCGAAACCAAGAAACATCGAACATAAAATTGGTATCGAT
2367454 ACCGGAAAGGGGTATCGGTACCATAGTATA
66 ACCGGAAAGGGGTATCGGTACCATAGTATA
* *
2367484 GAAGTATCGATACCAGGGTA
1 GTAGTATCGATACCATGGTA
2367504 GTATTATAGA
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 100 0.99
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (95 bp):
GTAGTATCGATACCATGGTAAAGGTATCGAAACCAAGAAACATCGAACATAAAATTGGTATCGAT
ACCGGAAAGGGGTATCGGTACCATAGTATA
Found at i:2368041 original size:57 final size:56
Alignment explanation
Indices: 2367845--2368122 Score: 373
Period size: 57 Copynumber: 4.9 Consensus size: 56
2367835 TGGCACTAAG
* * *
2367845 TGTGCAAAATGTTAAGAAATTCATATTAATTGTATGAATTTTTGTATTGGGCACTTC
1 TGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTA-TGGGCACTTC
* *
2367902 -GTGTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
1 TGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTA-TGGGCACTTC
2367958 GTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTTC
1 -TGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTTC
* * *
2368015 ATGTGCAAAATGTTAAGAAATCCATACTAAGTGTATGAATTTTTGTATTGGCACTGTGC
1 -TGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACT-T-C
* * *
2368074 -GTGC-AAATCGTTAAGAGATTCATACTAAATGTATGAATTTCTATATGGG
1 TGTGCAAAAT-GTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGG
2368123 AAATGTGAGT
Statistics
Matches: 199, Mismatches: 17, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
56 55 0.28
57 99 0.50
58 44 0.22
59 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (56 bp):
TGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATGGGCACTTC
Found at i:2368655 original size:68 final size:68
Alignment explanation
Indices: 2368469--2368637 Score: 248
Period size: 68 Copynumber: 2.5 Consensus size: 68
2368459 TGTGCAACCA
* * * * *
2368469 ACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTGTAT
1 ACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCAA
2368534 TTG
66 TTG
* *
2368537 ACAGAAAGGTGTCATTTATGCCATTTAGATGAAAGACTAAGTGCCTTTGAGGCCTAACTGTGCAA
1 ACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCAA
2368602 TTG
66 TTG
* * *
2368605 GCATAAAGGTGTCAATTATGCCAGTTAGATGAA
1 ACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
2368638 CGGTTAAATA
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 90 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (68 bp):
ACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCAA
TTG
Found at i:2368768 original size:70 final size:72
Alignment explanation
Indices: 2368651--2369343 Score: 440
Period size: 81 Copynumber: 8.8 Consensus size: 72
2368641 TTAAATACCG
* * *
2368651 TTGAGTAAAAGAATAATGGCCTAATTGTGCAATTGGCATAAATGTGTCAATTATGCCAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
*
2368716 -G-ACCG
66 AGAACCA
* *
2368721 TTGAGTAAAAGAATAATGGTCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
2368786 GAACGGTTAAATACCA
66 --A--G----A-ACCA
* * * * *
2368802 TTGAGTAAAAGAATAATTGCCTAACTGTACAATTGGCATAAAGGTATCAATTATGCTAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
2368867 GAACGGTTAAATACCA
66 --A--G----A-ACCA
* * * **
2368883 TTGAGTAAAAGAATAATAGCCTAATTGTGCAATTGGTAGAAAGGTGTCAATTATGTTAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
* *
2368948 GAACGGTTAAATATCG
66 --A--G----A-ACCA
* * * * * *
2368964 TTGAGTAAAAGAATAACGGCTTAACTATGCAATTGGCAGAAATGTGTCAA-TATGCTAGTTATAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
2369028 GAACGGTTAAATTCCA
66 --A--G---AA--CCA
* * * * *
2369044 TTGAGTAAAAGAATAACGACCTAACTGTGCAATTGACAGAAATGTGTCAATTATGTCAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTT--A-
2369109 GAATAGTTAAATACCA
63 G-ATAG----A-ACCA
* * * * *
2369125 TTGAGTAAAAGAATAATAGCCTAACTGCGAAATTGGCAGAAAAGTGTCAATTATGCTAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
*
2369190 GAACGGTTAAATACCG
66 --A--G----A-ACCA
** *
2369206 TTGAGTAAAA-AATAACAGCCTAACTATGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
2369270 GAACGGTTAAATACCA
66 --A--G----A-ACCA
*
2369286 TTGAGTAAAAGAATAATGGCCTAACTATGCAATTGGCAGAAAGGTGTCAATTATGCCA
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCA
2369344 ATTACATGAA
Statistics
Matches: 537, Mismatches: 61, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
70 60 0.11
75 1 0.00
77 2 0.00
78 2 0.00
79 5 0.01
80 138 0.26
81 321 0.60
82 3 0.01
83 3 0.01
85 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (72 bp):
TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
AGAACCA
Found at i:2369099 original size:161 final size:162
Alignment explanation
Indices: 2368721--2369442 Score: 986
Period size: 161 Copynumber: 4.5 Consensus size: 162
2368711 TAGATGACCG
* ** *
2368721 TTGAGTAAAAGAATAATGGTCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGAT
1 TTGAGTAAAAGAATAACGACCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
* * * * *
2368786 GAACGGTTAAATACCATTGAGTAAAAGAATAATTGCCTAACTGTACAATTGGCATAAAGGTATCA
66 GAACGGTTAAATACCATTGAGTAAAAGAATAATGGCCTAACTATGCAATTGGCAGAAAGGTGTCA
2368851 ATTATGCTAGTTAGATGAACGGTTAAATACCA
131 ATTATGCTAGTTAGATGAACGGTTAAATACCA
* * * **
2368883 TTGAGTAAAAGAATAA-TAGCCTAATTGTGCAATTGGTAGAAAGGTGTCAATTATGTTAGTTAGA
1 TTGAGTAAAAGAATAACGA-CCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGA
* * * * *
2368947 TGAACGGTTAAATATCGTTGAGTAAAAGAATAACGGCTTAACTATGCAATTGGCAGAAATGTGTC
65 TGAACGGTTAAATACCATTGAGTAAAAGAATAATGGCCTAACTATGCAATTGGCAGAAAGGTGTC
* *
2369012 AA-TATGCTAGTTATATGAACGGTTAAATTCCA
130 AATTATGCTAGTTAGATGAACGGTTAAATACCA
* * *
2369044 TTGAGTAAAAGAATAACGACCTAACTGTGCAATTGACAGAAATGTGTCAATTATGTCAGTTAGAT
1 TTGAGTAAAAGAATAACGACCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
** * ** * *
2369109 GAATAGTTAAATACCATTGAGTAAAAGAATAATAGCCTAACTGCGAAATTGGCAGAAAAGTGTCA
66 GAACGGTTAAATACCATTGAGTAAAAGAATAATGGCCTAACTATGCAATTGGCAGAAAGGTGTCA
*
2369174 ATTATGCTAGTTAGATGAACGGTTAAATACCG
131 ATTATGCTAGTTAGATGAACGGTTAAATACCA
*
2369206 TTGAGTAAAA-AATAAC-AGCCTAACTATGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGA
1 TTGAGTAAAAGAATAACGA-CCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGA
2369269 TGAACGGTTAAATACCATTGAGTAAAAGAATAATGGCCTAACTATGCAATTGGCAGAAAGGTGTC
65 TGAACGGTTAAATACCATTGAGTAAAAGAATAATGGCCTAACTATGCAATTGGCAGAAAGGTGTC
* * * * **
2369334 AATTATGCCAATTACATGAACAGTTAAATACTT
130 AATTATGCTAGTTAGATGAACGGTTAAATACCA
* * * * *
2369367 TTGAGTAAAAGAATAACGGCCTAACTGTGCACA-TGACAGAAATGTGTCAGTTATACCAGTTAGA
1 TTGAGTAAAAGAATAACGACCTAACTGTGCA-ATTGGCAGAAAGGTGTCAATTATGCCAGTTAGA
2369431 TGAACGGTTAAA
65 TGAACGGTTAAA
2369443 CACTGTTGTG
Statistics
Matches: 492, Mismatches: 61, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
160 1 0.00
161 282 0.57
162 208 0.42
163 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (162 bp):
TTGAGTAAAAGAATAACGACCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
GAACGGTTAAATACCATTGAGTAAAAGAATAATGGCCTAACTATGCAATTGGCAGAAAGGTGTCA
ATTATGCTAGTTAGATGAACGGTTAAATACCA
Found at i:2369120 original size:242 final size:241
Alignment explanation
Indices: 2368588--2369457 Score: 1156
Period size: 242 Copynumber: 3.6 Consensus size: 241
2368578 TGCCTTTGAG
* * *
2368588 GCCTAACTGTGCAATTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATT
* * *
2368653 GAGTAAAAGAATAATGGCCTAATTGTGCAATTGGCATAAATGTGTCAATTATGCCAGTTAGATG-
66 GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGA
* * *
2368717 AC---------CGTTGAGTAAAAGAATAATGG-TCTAACTGTGCAATTGGTAGAAAGGTGTCAAT
131 ACGGTTAAATACGTTGAGTAAAAGAATAACGGCT-TAACTATGCAATTGGCAGAAAGGTGTCAAT
2368772 TATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGAATAATT
195 TATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGAATAA-T
* * * * *
2368820 GCCTAACTGTACAATTGGCATAAAGGTATCAATTATGCTAGTTAGATGAACGGTTAAATACCATT
1 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATT
* * * **
2368885 GAGTAAAAGAATAATAGCCTAATTGTGCAATTGGTAGAAAGGTGTCAATTATGTTAGTTAGATGA
66 GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGA
*
2368950 ACGGTTAAATATCGTTGAGTAAAAGAATAACGGCTTAACTATGCAATTGGCAGAAATGTGTCAA-
131 ACGGTTAAATA-CGTTGAGTAAAAGAATAACGGCTTAACTATGCAATTGGCAGAAAGGTGTCAAT
* * * *
2369014 TATGCTAGTTATATGAACGGTTAAATTCCATTGAGTAAAAGAATAAC
195 TATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGAATAAT
* * * *
2369061 GACCTAACTGTGCAATTGACAGAAATGTGTCAATTATGTCAGTTAGATGAATAGTTAAATACCAT
1 G-CCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCAT
* * * *
2369126 TGAGTAAAAGAATAATAGCCTAACTGCGAAATTGGCAGAAAAGTGTCAATTATGCTAGTTAGATG
65 TGAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATG
* *
2369191 AACGGTTAAATACCGTTGAGTAAAA-AATAACAGCCTAACTATGCAATTGGCAGAAAGGTGTCAA
130 AACGGTTAAATA-CGTTGAGTAAAAGAATAACGGCTTAACTATGCAATTGGCAGAAAGGTGTCAA
2369255 TTATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGAATAAT
194 TTATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGAATAAT
* * * **
2369303 GGCCTAACTATGCAATTGGCAGAAAGGTGTCAATTATGCCAATTACATGAACAGTTAAATACTTT
1 -GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCAT
** * * *
2369368 TGAGTAAAAGAATAACGGCCTAACTGTGCACA-TGACAGAAATGTGTCAGTTATACCAGTTAGAT
65 TGAGTAAAAGAATAATAGCCTAACTGTGCA-ATTGGCAGAAATGTGTCAATTATGCCAGTTAGAT
* *
2369432 GAACGGTTAAACACTGTTGTGTAAAA
129 GAACGGTTAAATAC-GTTGAGTAAAA
2369458 CATGAAAGGT
Statistics
Matches: 560, Mismatches: 61, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
232 119 0.21
233 2 0.00
241 38 0.07
242 352 0.63
243 48 0.09
244 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (241 bp):
GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCATT
GAGTAAAAGAATAATAGCCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGA
ACGGTTAAATACGTTGAGTAAAAGAATAACGGCTTAACTATGCAATTGGCAGAAAGGTGTCAATT
ATGCCAGTTAGATGAACGGTTAAATACCATTGAGTAAAAGAATAAT
Found at i:2369457 original size:81 final size:81
Alignment explanation
Indices: 2368721--2369442 Score: 982
Period size: 81 Copynumber: 8.9 Consensus size: 81
2368711 TAGATGACCG
* *
2368721 TTGAGTAAAAGAATAATGGTCTAACTGTGCAATTGGTAGAAAGGTGTCAATTATGCCAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
2368786 GAACGGTTAAATACCA
66 GAACGGTTAAATACCA
* * * * *
2368802 TTGAGTAAAAGAATAATTGCCTAACTGTACAATTGGCATAAAGGTATCAATTATGCTAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
2368867 GAACGGTTAAATACCA
66 GAACGGTTAAATACCA
* * * **
2368883 TTGAGTAAAAGAATAATAGCCTAATTGTGCAATTGGTAGAAAGGTGTCAATTATGTTAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
* *
2368948 GAACGGTTAAATATCG
66 GAACGGTTAAATACCA
* * * * * *
2368964 TTGAGTAAAAGAATAACGGCTTAACTATGCAATTGGCAGAAATGTGTCAA-TATGCTAGTTATAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
*
2369028 GAACGGTTAAATTCCA
66 GAACGGTTAAATACCA
* * * * *
2369044 TTGAGTAAAAGAATAACGACCTAACTGTGCAATTGACAGAAATGTGTCAATTATGTCAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
**
2369109 GAATAGTTAAATACCA
66 GAACGGTTAAATACCA
* * * * *
2369125 TTGAGTAAAAGAATAATAGCCTAACTGCGAAATTGGCAGAAAAGTGTCAATTATGCTAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
*
2369190 GAACGGTTAAATACCG
66 GAACGGTTAAATACCA
** *
2369206 TTGAGTAAAA-AATAACAGCCTAACTATGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
2369270 GAACGGTTAAATACCA
66 GAACGGTTAAATACCA
* * *
2369286 TTGAGTAAAAGAATAATGGCCTAACTATGCAATTGGCAGAAAGGTGTCAATTATGCCAATTACAT
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
* **
2369351 GAACAGTTAAATACTT
66 GAACGGTTAAATACCA
* * * * *
2369367 TTGAGTAAAAGAATAACGGCCTAACTGTGCACA-TGACAGAAATGTGTCAGTTATACCAGTTAGA
1 TTGAGTAAAAGAATAATGGCCTAACTGTGCA-ATTGGCAGAAAGGTGTCAATTATGCCAGTTAGA
2369431 TGAACGGTTAAA
65 TGAACGGTTAAA
2369443 CACTGTTGTG
Statistics
Matches: 565, Mismatches: 73, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
80 144 0.25
81 420 0.74
82 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (81 bp):
TTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
GAACGGTTAAATACCA
Found at i:2369630 original size:2 final size:2
Alignment explanation
Indices: 2369623--2369678 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
2369613 TGAAAGGATG
2369623 AT AT AT 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 AT AT AT
2369665 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
2369679 TGTACAACAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.