Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 65 of 199
Found at i:18417906 original size:217 final size:214
Alignment explanation
Indices: 18417401--18417916 Score: 602
Period size: 217 Copynumber: 2.4 Consensus size: 214
18417391 GATCGCATCT
*
18417401 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCAAATCTTATCTC-TCTGAAGTT
* * *
18417465 ACAG-AGAGGCAGGTTAAAGTCGATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAAC
63 ACAGTGGA-GCAGGTTAAAGCCAATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAAC
*
18417529 CTTGGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTG
127 CTTGGATCTTATCTCTCTGAAGTTACAGAGAACAGATCGCATCTAGTCTTATCTCCCTAAAGTTG
18417594 CAGTGGAGCAGACTAAGTAAGCA
192 CAGTGGAGCAGACTAAGTAAGCA
* * * *
18417617 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AA-A-AGCAAATCTTATCTCTCTGAAG
* **
18417680 TTGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
61 TTACAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAA
* * *
18417745 TCTTGGATCTTATCTTTCTGAAGTTACAGAGAACAGATCGCAT-TAAGTCTTATC-CACCTGAAG
126 CCTTGGATCTTATCTCTCTGAAGTTACAGAGAACAGATCGCATCT-AGTCTTATCTC-CCTAAAG
* *
18417808 TTGTAGT-GAGGCAGACTGAAG-ATGGCA
189 TTGCAGTGGA-GCAGACT-AAGTA-AGCA
* * * * *
18417835 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAG-GTTAAAGCCGATAATCCTATCTCTCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAG-C-A-AATCTTATCTCTCTGAAGTT
18417899 ACAGTGGAGC-GGATTAAA
63 ACAGTGGAGCAGG-TTAAA
18417917 ACCTTGGATC
Statistics
Matches: 255, Mismatches: 28, Indels: 33
0.81 0.09 0.10
Matches are distributed among these distances:
214 1 0.00
215 5 0.02
216 37 0.15
217 176 0.69
218 33 0.13
219 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (214 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCAAATCTTATCTCTCTGAAGTTACA
GTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAACCTTG
GATCTTATCTCTCTGAAGTTACAGAGAACAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGT
GGAGCAGACTAAGTAAGCA
Found at i:18417980 original size:40 final size:40
Alignment explanation
Indices: 18417925--18418079 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 40
18417915 AAACCTTGGA
** *
18417925 TCTTATCTATCTGAAGTTGCAGAGAGCAGATCGCATCTAG
1 TCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATCTAG
* *
18417965 TCTTATCTCCCTGAAGTTGCA-ATGGAGCGGATTAGAACCACAAATCTTGG
1 TCTTATCTCCCTGAAGTTGCAGA--GAGC-----AG-ATCAC--ATC-TAG
*
18418015 ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCTAG
1 -TCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATCTAG
*
18418056 TCTTATCTCCTTGAAGTTGCAGAG
1 TCTTATCTCCCTGAAGTTGCAGAG
18418080 GATTAGATTG
Statistics
Matches: 92, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
39 1 0.01
40 41 0.45
41 6 0.07
42 3 0.03
44 4 0.04
45 2 0.02
46 2 0.02
47 3 0.03
49 3 0.03
50 6 0.07
51 20 0.22
52 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (40 bp):
TCTTATCTCCCTGAAGTTGCAGAGAGCAGATCACATCTAG
Found at i:18417993 original size:84 final size:87
Alignment explanation
Indices: 18417884--18418076 Score: 266
Period size: 91 Copynumber: 2.2 Consensus size: 87
18417874 CCGATAATCC
* * * *
18417884 TATCTCTCTAAAGTTACAGTGGAGCGGATTA-AA-AC-CTTGGATCTTATCTATCTGAAGTTGCA
1 TATCTCCCTGAAGTTGCAATGGAGCGGATTAGAACACACTTGGATCTTATCTATCTGAAGTTGCA
*
18417946 GAGAGCAGATCGCATCTAGTCT
66 GAGAGCAGATCACATCTAGTCT
*
18417968 TATCTCCCTGAAGTTGCAATGGAGCGGATTAGAACCACAAATCTTGGATCTTATCTCTCTGAAGT
1 TATCTCCCTGAAGTTGCAATGGAGCGGATTAGAA-CAC--A-CTTGGATCTTATCTATCTGAAGT
18418033 TGCAGAGAGCAGATCACATCTAGTCT
62 TGCAGAGAGCAGATCACATCTAGTCT
*
18418059 TATCTCCTTGAAGTTGCA
1 TATCTCCCTGAAGTTGCA
18418077 GAGGATTAGA
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
84 27 0.28
85 2 0.02
87 2 0.02
91 64 0.67
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (87 bp):
TATCTCCCTGAAGTTGCAATGGAGCGGATTAGAACACACTTGGATCTTATCTATCTGAAGTTGCA
GAGAGCAGATCACATCTAGTCT
Found at i:18420008 original size:13 final size:12
Alignment explanation
Indices: 18419984--18420022 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
18419974 TCATGGATTA
18419984 TTGTTT-TTTAT
1 TTGTTTATTTAT
18419995 TTCGTTTATTTAT
1 TT-GTTTATTTAT
18420008 TTGTTTATATTAT
1 TTGTTTAT-TTAT
18420021 TT
1 TT
18420023 TTATGCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (12 bp):
TTGTTTATTTAT
Found at i:18420050 original size:15 final size:15
Alignment explanation
Indices: 18420030--18420062 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
18420020 TTTTTATGCC
18420030 ATTGATGTATTTATT
1 ATTGATGTATTTATT
18420045 ATTGATGTATTTATT
1 ATTGATGTATTTATT
18420060 ATT
1 ATT
18420063 TTAGCATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:18430694 original size:7 final size:7
Alignment explanation
Indices: 18430682--18430706 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18430672 AATCTTTCTT
18430682 ATTTAAA
1 ATTTAAA
18430689 ATTTAAA
1 ATTTAAA
18430696 ATTTAAA
1 ATTTAAA
18430703 ATTT
1 ATTT
18430707 GTTAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTAAA
Found at i:18433758 original size:23 final size:24
Alignment explanation
Indices: 18433732--18433776 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
18433722 CATTTAACTA
18433732 ATTTTTAAAAA-AATTAAAAATTT
1 ATTTTTAAAAATAATTAAAAATTT
*
18433755 ATTTTTAAAAATCATTAAAAAT
1 ATTTTTAAAAATAATTAAAAAT
18433777 CATAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTTTAAAAATAATTAAAAATTT
Found at i:18434129 original size:15 final size:15
Alignment explanation
Indices: 18434109--18434216 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
18434099 TTTATGGAAA
18434109 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
18434124 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
18434138 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
18434154 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
18434168 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
18434184 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
18434198 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
18434214 ATC
1 ATC
18434217 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:18434137 original size:30 final size:30
Alignment explanation
Indices: 18434102--18434216 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
18434092 ATCAATATTT
*
18434102 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
18434132 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
18434162 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
18434192 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
18434217 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:18434740 original size:12 final size:12
Alignment explanation
Indices: 18434723--18434748 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18434713 GAATACGATC
18434723 GTTCACGGCACT
1 GTTCACGGCACT
18434735 GTTCACGGCACT
1 GTTCACGGCACT
18434747 GT
1 GT
18434749 AGTTGGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (12 bp):
GTTCACGGCACT
Found at i:18438824 original size:15 final size:15
Alignment explanation
Indices: 18438804--18438911 Score: 87
Period size: 15 Copynumber: 7.2 Consensus size: 15
18438794 TTTATGGAAA
18438804 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
18438819 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
18438833 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
18438849 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
18438863 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
18438879 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
18438893 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
18438909 ATC
1 ATC
18438912 GAGATATTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
14 13 0.19
15 43 0.62
16 13 0.19
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:18438833 original size:30 final size:30
Alignment explanation
Indices: 18438797--18438911 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
18438787 ATCCATATTT
*
18438797 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
18438827 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
18438857 TTGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
18438887 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
18438912 GAGATATTGG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 83 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:18452207 original size:60 final size:60
Alignment explanation
Indices: 18452114--18452234 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
18452104 ACGAGCAAGT
18452114 AAAAATGGTTTTGTGTTGGTCTTTCAGGGTTACAACTATTTGGTTGTATCCCGAATATCG
1 AAAAATGGTTTTGTGTTGGTCTTTCAGGGTTACAACTATTTGGTTGTATCCCGAATATCG
18452174 AAAAATGGTTTTGTGTTGGTCTTTCAGGGTTACAACTATTTGGTTGTATCCCGAATATCG
1 AAAAATGGTTTTGTGTTGGTCTTTCAGGGTTACAACTATTTGGTTGTATCCCGAATATCG
18452234 A
1 A
18452235 TCTAAAAAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.40
Consensus pattern (60 bp):
AAAAATGGTTTTGTGTTGGTCTTTCAGGGTTACAACTATTTGGTTGTATCCCGAATATCG
Found at i:18461260 original size:13 final size:12
Alignment explanation
Indices: 18461238--18461271 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
18461228 TCATGAGAAA
18461238 TTTCTTTATCCT
1 TTTCTTTATCCT
18461250 TTTCTTTTATCCT
1 TTTC-TTTATCCT
*
18461263 TTTATTTAT
1 TTTCTTTAT
18461272 AGTTCGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTTATCCT
Found at i:18469991 original size:96 final size:94
Alignment explanation
Indices: 18469825--18470019 Score: 354
Period size: 96 Copynumber: 2.1 Consensus size: 94
18469815 GCCACCCTTC
18469825 TCTCTCTCTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
1 TCTCTCTCTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
*
18469890 GACTTATTCAAGCATAACTCTTGTACTATAT
66 AACTTATTCAAGCATAACTCTTGTACT-T-T
*
18469921 TCTCTCTTTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
1 TCTCTCTCTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
18469986 AACTTATTCAAGCATAACTCTTGTACTTT
66 AACTTATTCAAGCATAACTCTTGTACTTT
18470015 TCTCT
1 TCTCT
18470020 ATAAGTAGAG
Statistics
Matches: 97, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
94 6 0.06
95 1 0.01
96 90 0.93
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (94 bp):
TCTCTCTCTCTCTTATAGTTTAAGTAGGAGTTGTATTTTCTATTAAATTATTATTATTTAATCAG
AACTTATTCAAGCATAACTCTTGTACTTT
Found at i:18480849 original size:18 final size:19
Alignment explanation
Indices: 18480826--18480867 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
18480816 ATTAATTTCG
18480826 ATCAATCAAAATTAAATT-
1 ATCAATCAAAATTAAATTA
18480844 ATCAATCAAAATTAAATTA
1 ATCAATCAAAATTAAATTA
18480863 ATCAA
1 ATCAA
18480868 ATTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (19 bp):
ATCAATCAAAATTAAATTA
Found at i:18481329 original size:14 final size:16
Alignment explanation
Indices: 18481309--18481350 Score: 61
Period size: 14 Copynumber: 2.7 Consensus size: 16
18481299 ACTATTCCAA
18481309 AAATAAATTTATT-TT
1 AAATAAATTTATTATT
18481324 -AATAAATTTATTATT
1 AAATAAATTTATTATT
18481339 AAATTAAATTTA
1 AAA-TAAATTTA
18481351 ATTCTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 12 0.50
15 2 0.08
16 2 0.08
17 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATAAATTTATTATT
Found at i:18481414 original size:56 final size:52
Alignment explanation
Indices: 18481337--18481442 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 52
18481327 AAATTTATTA
* * *
18481337 TTAAATTAAATTTAATTCTTATCTTATAAATAAATATTCTATTAATTTAATATAT
1 TTAAATTAAATCTAATACTTAT-TT-T-AATAAATATTATATTAATTTAATATAT
*
18481392 TTAATATTAAATCTAATACTTATTTTGATAAATATTATATTAATTTAATAT
1 TTAA-ATTAAATCTAATACTTATTTTAATAAATATTATATTAATTTAATAT
18481443 TAAAGTGATT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 23 0.50
54 1 0.02
55 6 0.13
56 16 0.35
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (52 bp):
TTAAATTAAATCTAATACTTATTTTAATAAATATTATATTAATTTAATATAT
Found at i:18492599 original size:15 final size:15
Alignment explanation
Indices: 18492576--18492614 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
18492566 AATGATTTTG
*
18492576 ATTATATGTGTATAA
1 ATTAAATGTGTATAA
18492591 ATTAAATGTGTATAA
1 ATTAAATGTGTATAA
18492606 ATTAAATGT
1 ATTAAATGT
18492615 ATTGCCAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
ATTAAATGTGTATAA
Found at i:18497077 original size:34 final size:34
Alignment explanation
Indices: 18497004--18497085 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
18496994 GTAGGATTTG
*
18497004 TTCTGATATGATATATGTTTCTAGAAATATTACA
1 TTCTGATATGATATATGTTTCTAGAAATATGACA
* * * * *
18497038 ATCTGATTTGATATATGTTTCTGGTAATGTGACA
1 TTCTGATATGATATATGTTTCTAGAAATATGACA
18497072 TTCTGATATGATAT
1 TTCTGATATGATAT
18497086 TTGTATATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (34 bp):
TTCTGATATGATATATGTTTCTAGAAATATGACA
Found at i:18499744 original size:24 final size:24
Alignment explanation
Indices: 18499687--18499802 Score: 112
Period size: 24 Copynumber: 4.8 Consensus size: 24
18499677 TCATATAATG
* *
18499687 GGAAGCTCATGTA-AGCCATATAATG
1 GGAAGCTCATG-AGAGCCATA-ATTA
*
18499712 GGAAGCTCATAAGAGCCATAATTA
1 GGAAGCTCATGAGAGCCATAATTA
* **
18499736 GGAAGCTCATGCGAGCCA-ATATCG
1 GGAAGCTCATGAGAGCCATA-ATTA
18499760 GGAAGCTCCA-GAGAGCCATTAATTA
1 GGAAGCT-CATGAGAGCCA-TAATTA
18499785 GGAAGCTCATGAGAGCCA
1 GGAAGCTCATGAGAGCCA
18499803 ACTATCGGGA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
23 1 0.01
24 37 0.49
25 36 0.48
26 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCCATAATTA
Found at i:18499753 original size:49 final size:49
Alignment explanation
Indices: 18499641--18499802 Score: 152
Period size: 49 Copynumber: 3.3 Consensus size: 49
18499631 ATACAGGTAT
* * ** * * *
18499641 GCTCATGCGAG-CATGTAATTGGGAAGCTCTTTCGAGTCATATAATGGGAA
1 GCTCATGCGAGCCATATAA-TGGGAAGCTCATAAGAGCCATA-ATTAGGAA
**
18499691 GCTCATGTAAGCCATATAATGGGAAGCTCATAAGAGCCATAATTAGGAA
1 GCTCATGCGAGCCATATAATGGGAAGCTCATAAGAGCCATAATTAGGAA
*
18499740 GCTCATGCGAGCCA-AT-ATCGGGAAGCTCCA-GAGAGCCATTAATTAGGAA
1 GCTCATGCGAGCCATATAAT-GGGAAGCT-CATAAGAGCCA-TAATTAGGAA
*
18499789 GCTCATGAGAGCCA
1 GCTCATGCGAGCCA
18499803 ACTATCGGGA
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
47 2 0.02
48 17 0.18
49 43 0.45
50 27 0.28
51 6 0.06
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (49 bp):
GCTCATGCGAGCCATATAATGGGAAGCTCATAAGAGCCATAATTAGGAA
Found at i:18499803 original size:49 final size:48
Alignment explanation
Indices: 18499687--18499813 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 48
18499677 TCATATAATG
18499687 GGAAGCTCATGTA-AGCCATATAAT-GGGAAGCTCATAAGAGCCATAATTA
1 GGAAGCTCATG-AGAGCCA-AT-ATCGGGAAGCTCATAAGAGCCATAATTA
* *
18499736 GGAAGCTCATGCGAGCCAATATCGGGAAGCTCCA-GAGAGCCATTAATTA
1 GGAAGCTCATGAGAGCCAATATCGGGAAGCT-CATAAGAGCCA-TAATTA
18499785 GGAAGCTCATGAGAGCCAACTATCGGGAA
1 GGAAGCTCATGAGAGCCAA-TATCGGGAA
18499814 ACTCGTGAGA
Statistics
Matches: 70, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
47 2 0.03
48 17 0.24
49 42 0.60
50 9 0.13
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (48 bp):
GGAAGCTCATGAGAGCCAATATCGGGAAGCTCATAAGAGCCATAATTA
Found at i:18499813 original size:25 final size:25
Alignment explanation
Indices: 18499681--18499851 Score: 124
Period size: 25 Copynumber: 7.0 Consensus size: 25
18499671 TTCGAGTCAT
18499681 ATAAT-GGGAAGCTCATGTA-AGCCA
1 ATAATCGGGAAGCTCATG-AGAGCCA
*
18499705 TATAAT-GGGAAGCTCATAAGAGCC-
1 -ATAATCGGGAAGCTCATGAGAGCCA
** *
18499729 ATAATTAGGAAGCTCATGCGAGCCA
1 ATAATCGGGAAGCTCATGAGAGCCA
18499754 AT-ATCGGGAAGCTCCA-GAGAGCCA
1 ATAATCGGGAAGCT-CATGAGAGCCA
* **
18499778 TTAATTAGGAAGCTCATGAGAGCCA
1 ATAATCGGGAAGCTCATGAGAGCCA
* * *
18499803 ACT-ATCGGGAAACTCGTGAGAGCTAA
1 A-TAATCGGGAAGCTCATGAGAGC-CA
** *
18499829 ATAA-CTAGAAGCTCAAGAGAGCC
1 ATAATCGGGAAGCTCATGAGAGCC
18499852 GCATGTCAGG
Statistics
Matches: 115, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
23 5 0.04
24 35 0.30
25 71 0.62
26 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (25 bp):
ATAATCGGGAAGCTCATGAGAGCCA
Found at i:18499840 original size:50 final size:49
Alignment explanation
Indices: 18499729--18499851 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 49
18499719 CATAAGAGCC
* * * *
18499729 ATAATTAGGAAGCTCATGCGAGCCAATATCGGGAAGCTCCAGAGAGCCA
1 ATAACTAGGAAGCTCATGAGAGCCAATATCGGGAAACTCCAGAGAGCAA
* * **
18499778 TTAATTAGGAAGCTCATGAGAGCCAACTATCGGGAAACTCGTGAGAGCTAA
1 ATAACTAGGAAGCTCATGAGAGCCAA-TATCGGGAAACTCCAGAGAGC-AA
*
18499829 ATAACTA-GAAGCTCAAGAGAGCC
1 ATAACTAGGAAGCTCATGAGAGCC
18499852 GCATGTCAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
49 24 0.38
50 33 0.52
51 6 0.10
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (49 bp):
ATAACTAGGAAGCTCATGAGAGCCAATATCGGGAAACTCCAGAGAGCAA
Found at i:18505007 original size:15 final size:15
Alignment explanation
Indices: 18504987--18505023 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
18504977 AGCATTACTT
18504987 TCAGCTTCATCGGAA
1 TCAGCTTCATCGGAA
18505002 TCAGCTTCATCGGAA
1 TCAGCTTCATCGGAA
18505017 TCAGCTT
1 TCAGCTT
18505024 GGTTAGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (15 bp):
TCAGCTTCATCGGAA
Found at i:18505627 original size:83 final size:86
Alignment explanation
Indices: 18505522--18505689 Score: 216
Period size: 83 Copynumber: 2.0 Consensus size: 86
18505512 GGTTACACAG
* * * * * *
18505522 CCAAGCCACACGCCCGTGTGCTAGGCCATGTGAATAA-TTTGAGCATTCTG-TTTTGC-AATTTA
1 CCAAACCACACGCCCATGTGCTAGGCCATGTGAACAATTTTAAGCATACTGATTATGCAAATTTA
*
18505584 TAAGATGCAGGGGACACACGT
66 TAAGATACAGGGGACACACGT
* *
18505605 CCAAACCACACGCCCATGTGCTAGGCCGTGTGAACAATTTTAAGTATACTGACTTATGCAAATTT
1 CCAAACCACACGCCCATGTGCTAGGCCATGTGAACAATTTTAAGCATACTGA-TTATGCAAATTT
*
18505670 TTAAGATACAGGGGACACAC
65 ATAAGATACAGGGGACACAC
18505690 AGCCGTGTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
83 33 0.46
84 10 0.14
86 5 0.07
87 23 0.32
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (86 bp):
CCAAACCACACGCCCATGTGCTAGGCCATGTGAACAATTTTAAGCATACTGATTATGCAAATTTA
TAAGATACAGGGGACACACGT
Found at i:18506667 original size:49 final size:50
Alignment explanation
Indices: 18506572--18506711 Score: 153
Period size: 49 Copynumber: 2.8 Consensus size: 50
18506562 CATATAACGA
* **
18506572 GAAGCTCATGTGAGCCATGTAAGGGGAAGCTCATA-AGAGCC-GTAATCAG
1 GAAGCTCATGTGAGCCA-ATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
* *
18506621 GAAGCTTATGTGAGCCAATATCGGGAAGCTC-TAGAGAGCCATTAATCAG
1 GAAGCTCATGTGAGCCAATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
* * * *
18506670 GCAGCTCATGAGAGCTAATTATCGGGAAGCTCGT-GAGAGCCA
1 GAAGCTCATGTGAGCCAA-TATCGGGAAGCTCATAGAGAGCCA
18506712 AATAACGGGA
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
47 2 0.03
48 17 0.22
49 37 0.47
50 21 0.27
51 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.20
Consensus pattern (50 bp):
GAAGCTCATGTGAGCCAATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
Found at i:18506682 original size:25 final size:24
Alignment explanation
Indices: 18506572--18506711 Score: 102
Period size: 25 Copynumber: 5.7 Consensus size: 24
18506562 CATATAACGA
* ***
18506572 GAAGCTCATGTGAGCCATGTAAGGG
1 GAAGCTCATGAGAGCCAT-TATCAG
* * *
18506597 GAAGCTCATAAGAGCCGTAATCAG
1 GAAGCTCATGAGAGCCATTATCAG
* * * *
18506621 GAAGCTTATGTGAGCCAATATCGG
1 GAAGCTCATGAGAGCCATTATCAG
18506645 GAAGCTC-TAGAGAGCCATTAATCAG
1 GAAGCTCAT-GAGAGCCATT-ATCAG
* * *
18506670 GCAGCTCATGAGAGCTAATTATCGG
1 GAAGCTCATGAGAGC-CATTATCAG
*
18506695 GAAGCTCGTGAGAGCCA
1 GAAGCTCATGAGAGCCA
18506712 AATAACGGGA
Statistics
Matches: 87, Mismatches: 24, Indels: 9
0.73 0.20 0.08
Matches are distributed among these distances:
23 1 0.01
24 34 0.39
25 48 0.55
26 4 0.05
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.20
Consensus pattern (24 bp):
GAAGCTCATGAGAGCCATTATCAG
Found at i:18506699 original size:50 final size:50
Alignment explanation
Indices: 18506572--18506759 Score: 145
Period size: 50 Copynumber: 3.8 Consensus size: 50
18506562 CATATAACGA
* * **
18506572 GAAGCTCATGTGAGCCATGTAAGGGGAAGCTCATA-AGAGCC-GTAATCAG
1 GAAGCTCATGAGAGCCA-ATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
* * *
18506621 GAAGCTTATGTGAGCCAATATCGGGAAGCTC-TAGAGAGCCATTAATCAG
1 GAAGCTCATGAGAGCCAATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
* * * * *
18506670 GCAGCTCATGAGAGCTAATTATCGGGAAGCTCGT-GAGAGCCAAATAA-CGG
1 GAAGCTCATGAGAGCCAA-TATCGGGAAGCTCATAGAGAGCC-AGTAATCAG
* * * * *
18506720 GAAGCTCAAGAAAACCATATATCGAGATGCTCATA-AGAGC
1 GAAGCTCATGAGAGCCA-ATATCGGGAAGCTCATAGAGAGC
18506760 TAAATAACGA
Statistics
Matches: 113, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
47 2 0.02
48 17 0.15
49 37 0.33
50 51 0.45
51 6 0.05
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (50 bp):
GAAGCTCATGAGAGCCAATATCGGGAAGCTCATAGAGAGCCAGTAATCAG
Found at i:18506720 original size:25 final size:23
Alignment explanation
Indices: 18506560--18506726 Score: 84
Period size: 25 Copynumber: 6.8 Consensus size: 23
18506550 GCTATTTTGT
* *
18506560 GCCATATAACGAGAAGCTCATGTGA
1 GCCA-ATAACGGGAAGCTC-TGAGA
* * *
18506585 GCCATGTAAGGGGAAGCTCATAAGA
1 GCCA-ATAACGGGAAGCTC-TGAGA
* * * *
18506610 GCC-GTAATCAGGAAGCTTATGTGA
1 GCCAATAA-CGGGAAGC-TCTGAGA
*
18506634 GCCAATATCGGGAAGCTCTAGAGA
1 GCCAATAACGGGAAGCTCT-GAGA
* * *
18506658 GCCATTAATCAGGCAGCTCATGAGA
1 GCCAATAA-CGGGAAGCTC-TGAGA
* *
18506683 GCTAATTATCGGGAAGCTCGTGAGA
1 GCCAA-TAACGGGAAGCTC-TGAGA
18506708 GCCAAATAACGGGAAGCTC
1 GCC-AATAACGGGAAGCTC
18506727 AAGAAAACCA
Statistics
Matches: 107, Mismatches: 27, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
23 6 0.06
24 28 0.26
25 68 0.64
26 5 0.05
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.19
Consensus pattern (23 bp):
GCCAATAACGGGAAGCTCTGAGA
Found at i:18509312 original size:30 final size:30
Alignment explanation
Indices: 18509278--18509340 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
18509268 TTATAGAATT
18509278 TGTGTTTTATTATTTTAAATTCATTATGTA
1 TGTGTTTTATTATTTTAAATTCATTATGTA
18509308 TGTGTTTTATTATTTTAAATTCATTATGTA
1 TGTGTTTTATTATTTTAAATTCATTATGTA
18509338 TGT
1 TGT
18509341 TCTTTTAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TGTGTTTTATTATTTTAAATTCATTATGTA
Found at i:18509370 original size:24 final size:23
Alignment explanation
Indices: 18509308--18509425 Score: 96
Period size: 24 Copynumber: 5.0 Consensus size: 23
18509298 TCATTATGTA
* *
18509308 TGTGTTTTATTATTTTAAATTCAT
1 TGTGTATTGTTATTTTAAATT-AT
* *
18509332 TATGTA-TGTTCTTTTAAATCTAT
1 TGTGTATTGTTATTTTAAAT-TAT
*
18509355 TGTGTATTGTTGTTTTAAAATTAT
1 TGTGTATTGTTATTTT-AAATTAT
* *
18509379 TGTGTATTATTATTTTAAAGTTAC
1 TGTGTATTGTTATTTTAAA-TTAT
* *
18509403 TATGTATTATTA-TTTAAAGTTAT
1 TGTGTATTGTTATTTTAAA-TTAT
18509426 CTCATATTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
23 31 0.39
24 44 0.56
25 4 0.05
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (23 bp):
TGTGTATTGTTATTTTAAATTAT
Found at i:18509436 original size:24 final size:24
Alignment explanation
Indices: 18509383--18509437 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
18509373 AATTATTGTG
*
18509383 TATTATTATTTTAAAGTTACTATG
1 TATTATTATTTTAAAGTTACTATA
18509407 TATTATTA-TTTAAAGTTATCTCATA
1 TATTATTATTTTAAAGTTA-CT-ATA
18509432 T-TTATT
1 TATTATT
18509438 TTATTGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 10 0.36
24 15 0.54
25 3 0.11
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTATTTTAAAGTTACTATA
Found at i:18514167 original size:16 final size:15
Alignment explanation
Indices: 18514137--18514166 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18514127 AATAATATTT
18514137 TGATAAAAAATAAAA
1 TGATAAAAAATAAAA
*
18514152 TGATTAAAAATAAAA
1 TGATAAAAAATAAAA
18514167 AGAATAAATA
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:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
TGATAAAAAATAAAA
Found at i:18514485 original size:60 final size:60
Alignment explanation
Indices: 18514356--18514481 Score: 173
Period size: 60 Copynumber: 2.1 Consensus size: 60
18514346 TTGACTTTGA
* * * * * * *
18514356 AATTTTTATAATTTGAACTACATTGACAAATTTTGTAAATGTTGAGGGCTAAATTTATTG
1 AATTTTTAGAATTTAAACTAAAATGACAAATCTTGTAAATATTGAGGGATAAATTTATTG
*
18514416 AATTTTTAGAATTTAAACTAAAATGACAAATCTTGTAAATATTGA-GGATAAATTTGTTG
1 AATTTTTAGAATTTAAACTAAAATGACAAATCTTGTAAATATTGAGGGATAAATTTATTG
18514475 AATTTTT
1 AATTTTT
18514482 TAGATAGAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 19 0.33
60 39 0.67
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (60 bp):
AATTTTTAGAATTTAAACTAAAATGACAAATCTTGTAAATATTGAGGGATAAATTTATTG
Found at i:18516043 original size:12 final size:12
Alignment explanation
Indices: 18516026--18516083 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
18516016 GGGTAGGATT
18516026 TGATTATGTATC
1 TGATTATGTATC
* *
18516038 TGATTATGCATT
1 TGATTATGTATC
*
18516050 TGATTCTGTATC
1 TGATTATGTATC
* *
18516062 TGAATATGCATC
1 TGATTATGTATC
*
18516074 TGATTCTGTA
1 TGATTATGTA
18516084 ACTAAACTGC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.47
Consensus pattern (12 bp):
TGATTATGTATC
Found at i:18516059 original size:24 final size:24
Alignment explanation
Indices: 18516023--18516083 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
18516013 GGGGGGTAGG
* *
18516023 ATTTGATTATGTATCTGATTATGC
1 ATTTGATTCTGTATCTGAATATGC
18516047 ATTTGATTCTGTATCTGAATATGC
1 ATTTGATTCTGTATCTGAATATGC
*
18516071 ATCTGATTCTGTA
1 ATTTGATTCTGTA
18516084 ACTAAACTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.48
Consensus pattern (24 bp):
ATTTGATTCTGTATCTGAATATGC
Found at i:18517818 original size:60 final size:59
Alignment explanation
Indices: 18517754--18517889 Score: 166
Period size: 59 Copynumber: 2.3 Consensus size: 59
18517744 TTAGCCAACT
* *
18517754 GGTGACCAAAAAAGACAAAAT-CGAATAGTTGGGTGATTATTTAGTAATTTTTCATATTTG
1 GGTGACCAAAAAAGA-AAAATACGAATAGTTGGGT-ACTATTTAGTAATTTTTCATAGTTG
* ** * *
18517814 GGTGATCAAAAAAGAAATTTACTAATAGTTGGGTACTATTTTGTAATTTTTCATAGTTG
1 GGTGACCAAAAAAGAAAAATACGAATAGTTGGGTACTATTTAGTAATTTTTCATAGTTG
* *
18517873 AGTAACCAAAAAAGAAA
1 GGTGACCAAAAAAGAAA
18517890 CCATAATTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 39 0.60
60 26 0.40
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (59 bp):
GGTGACCAAAAAAGAAAAATACGAATAGTTGGGTACTATTTAGTAATTTTTCATAGTTG
Found at i:18522315 original size:23 final size:23
Alignment explanation
Indices: 18522281--18522325 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18522271 GTTTAAACTA
**
18522281 AAAATCAACAAATTTAACAATCG
1 AAAATCAACAAATAGAACAATCG
18522304 AAAAT-AATCAAATAGAACAATC
1 AAAATCAA-CAAATAGAACAATC
18522326 AGGAGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.60, C:0.16, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAATCAACAAATAGAACAATCG
Found at i:18523934 original size:7 final size:7
Alignment explanation
Indices: 18523922--18523949 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18523912 GTCCATGAAT
18523922 GGATCTA
1 GGATCTA
18523929 GGATCTA
1 GGATCTA
18523936 GGATCTA
1 GGATCTA
18523943 GGATCTA
1 GGATCTA
18523950 TTCTACTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (7 bp):
GGATCTA
Found at i:18527611 original size:35 final size:35
Alignment explanation
Indices: 18527553--18527646 Score: 84
Period size: 35 Copynumber: 2.7 Consensus size: 35
18527543 ATAAATTTAG
* **
18527553 TATAAATACAATTTAATTTATATTGT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTGTGA-TATTTGAT
* * *
18527589 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTGTGATATTTGAT
*
18527624 TATGAATATAATTTAAAAATATT
1 TATAAATATAATTTAAAAATATT
18527647 TAAATTTTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
35 33 0.70
36 14 0.30
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTGTGATATTTGAT
Found at i:18529227 original size:6 final size:6
Alignment explanation
Indices: 18529216--18529249 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
18529206 AAGTTTCCAA
*
18529216 AAATGG AAATGG AAAT-G AAATGA AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
18529250 ATCCATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:18529242 original size:17 final size:17
Alignment explanation
Indices: 18529216--18529250 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18529206 AAGTTTCCAA
*
18529216 AAATGGAAATGGAAATG
1 AAATGAAAATGGAAATG
18529233 AAATGAAAATGGAAATG
1 AAATGAAAATGGAAATG
18529250 A
1 A
18529251 TCCATTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (17 bp):
AAATGAAAATGGAAATG
Found at i:18529469 original size:25 final size:26
Alignment explanation
Indices: 18529398--18529469 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
18529388 TATTTTCTTG
* *
18529398 AAATTTTACCAAGGGTAAAATCGTCA
1 AAATTTTACTAGGGGTAAAATCGTCA
*
18529424 AAATTTTACTAGGGGTAAAATTGTCA
1 AAATTTTACTAGGGGTAAAATCGTCA
* *
18529450 AAATTTT-GTTGGGGTAAAAT
1 AAATTTTACTAGGGGTAAAAT
18529470 AGGGATAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 11 0.27
26 30 0.73
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.33
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCGTCA
Found at i:18530706 original size:25 final size:27
Alignment explanation
Indices: 18530678--18530727 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
18530668 CTATTAAAAC
*
18530678 TCTTCTAAA-AAAACTC-AAGAGAAGT
1 TCTTCAAAAGAAAACTCAAAGAGAAGT
*
18530703 TCTTGAAAAGAAAACTCAAAGAGAA
1 TCTTCAAAAGAAAACTCAAAGAGAA
18530728 TTTATTATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 7 0.33
27 7 0.33
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (27 bp):
TCTTCAAAAGAAAACTCAAAGAGAAGT
Found at i:18535080 original size:14 final size:14
Alignment explanation
Indices: 18535061--18535087 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18535051 ATAAAAACCA
18535061 AAATTAAAAGTCAC
1 AAATTAAAAGTCAC
18535075 AAATTAAAAGTCA
1 AAATTAAAAGTCA
18535088 AAGCACAACC
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:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATTAAAAGTCAC
Found at i:18545528 original size:16 final size:16
Alignment explanation
Indices: 18545507--18545538 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18545497 CAATCTAAAA
18545507 TATCAAAACACCAATT
1 TATCAAAACACCAATT
*
18545523 TATCAAAACCCCAATT
1 TATCAAAACACCAATT
18545539 GAGATACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (16 bp):
TATCAAAACACCAATT
Found at i:18551110 original size:17 final size:15
Alignment explanation
Indices: 18551078--18551112 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
18551068 TTAAAAGTAA
18551078 AATAATATAACATAC
1 AATAATATAACATAC
18551093 AATAACTATAATCATAC
1 AATAA-TATAA-CATAC
18551110 AAT
1 AAT
18551113 TATTCAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 8 0.44
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATATAACATAC
Found at i:18552303 original size:20 final size:19
Alignment explanation
Indices: 18552280--18552327 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
18552270 TTTCTCCCTA
18552280 TTTCATTTCTATTCTGTTTC
1 TTTCATTTCT-TTCTGTTTC
*
18552300 TTTCTATTTCTTTTTGTTTC
1 TTTC-ATTTCTTTCTGTTTC
*
18552320 TTTTATTT
1 TTTCATTT
18552328 ATTATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 15 0.60
21 6 0.24
ACGTcount: A:0.08, C:0.15, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTCATTTCTTTCTGTTTC
Found at i:18555569 original size:27 final size:27
Alignment explanation
Indices: 18555539--18555841 Score: 391
Period size: 27 Copynumber: 11.3 Consensus size: 27
18555529 TATAACAATC
*
18555539 ATTTTACCCTAT-GGGGGTATTTTC-ATA
1 ATTTTACCCT-TCGAGGGTA-TTTCGATA
18555566 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
18555593 ATTTTACCCTTTGGGGGTATTTC-AGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
* *
18555620 ATTTTACCCTTCAAAGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
18555647 ATTTTACCTTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
18555674 ATTTTACCCTTC-AGAGTGTTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
18555700 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
18555727 ATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* * *
18555754 CTTTTACCCTTCGAGGGTATTCCAATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
18555781 ATTTTACCTTTCGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
18555808 ATTTTACCCTTCGAAGGTATTTC-AGTA
1 ATTTTACCCTTCGAGGGTATTTCGA-TA
18555835 ATTTTAC
1 ATTTTAC
18555842 GACCCAAGCC
Statistics
Matches: 240, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 30 0.12
27 209 0.87
28 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:18555759 original size:134 final size:133
Alignment explanation
Indices: 18555559--18555841 Score: 424
Period size: 134 Copynumber: 2.1 Consensus size: 133
18555549 ATGGGGGTAT
* *
18555559 TTTCATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGGGGGTATTTCAGTAATTT
1 TTTCATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTAATTT
* * *
18555624 TACCCTTCAAAGGTATTTCGATAATTTTACCTTTCGAGGGTATTTCGGTAATTTTACCCTTCAGA
66 TACCCTTCAAAGGTATTCCAATAATTTTACCTTTCGAGGGTATTTCGATAATTTTACCCTTCAGA
18555689 GTG
131 GTG
* *
18555692 TTTCGATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCGGTACTT
1 TTTC-ATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTAATT
* * *
18555757 TTACCCTTCGAGGGTATTCCAATAATTTTACCTTTCGGGGGTATTTCGATAATTTTACCCTTC-G
65 TTACCCTTCAAAGGTATTCCAATAATTTTACCTTTCGAGGGTATTTCGATAATTTTACCCTTCAG
*
18555821 AAGGTA
130 -A-GTG
18555827 TTTCAGTAATTTTAC
1 TTTCA-TAATTTTAC
18555842 GACCCAAGCC
Statistics
Matches: 135, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
133 5 0.04
134 115 0.85
135 15 0.11
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.42
Consensus pattern (133 bp):
TTTCATAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTCAGTAATTT
TACCCTTCAAAGGTATTCCAATAATTTTACCTTTCGAGGGTATTTCGATAATTTTACCCTTCAGA
GTG
Found at i:18557343 original size:21 final size:21
Alignment explanation
Indices: 18557317--18557368 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
18557307 GGTTTGAACC
*
18557317 CAGGACTTTTCCAACTCCTCT
1 CAGGACCTTTCCAACTCCTCT
18557338 CAGGACCTTTCCAACTCCTCT
1 CAGGACCTTTCCAACTCCTCT
*
18557359 TAGGACCTTT
1 CAGGACCTTT
18557369 AACCACGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.37, G:0.12, T:0.33
Consensus pattern (21 bp):
CAGGACCTTTCCAACTCCTCT
Found at i:18561829 original size:18 final size:19
Alignment explanation
Indices: 18561808--18561849 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
18561798 GCCAAATTTT
18561808 CTCTTCTCATC-TCTTCTC
1 CTCTTCTCATCATCTTCTC
**
18561826 CTC-TCTTTTCATCTTCTC
1 CTCTTCTCATCATCTTCTC
18561844 CTCTTC
1 CTCTTC
18561850 ATTCTAGTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 13 0.65
19 2 0.10
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.52
Consensus pattern (19 bp):
CTCTTCTCATCATCTTCTC
Found at i:18562614 original size:27 final size:27
Alignment explanation
Indices: 18562584--18562952 Score: 313
Period size: 27 Copynumber: 13.8 Consensus size: 27
18562574 ACAATGATCG
18562584 AAATACCCTTGAAGGGTAAAATGACCA
1 AAATACCCTTGAAGGGTAAAATGACCA
* *
18562611 AAATA-CCTGTAAAGGGTAAAATGACCG
1 AAATACCCT-TGAAGGGTAAAATGACCA
* * *
18562638 AAATACCC--AAATGGTAAAATGACCG
1 AAATACCCTTGAAGGGTAAAATGACCA
* * ***
18562663 AAATACCCTCGAAGGGTAAAATAATTG
1 AAATACCCTTGAAGGGTAAAATGACCA
** *
18562690 AAATACCCTCAAAAGGTAAAATGACCA
1 AAATACCCTTGAAGGGTAAAATGACCA
* * *
18562717 AAAT--TCTCGAAGGGTAAAATGACCG
1 AAATACCCTTGAAGGGTAAAATGACCA
** * * *
18562742 AAATACCCCCGAAGAGTAAAATAACTA
1 AAATACCCTTGAAGGGTAAAATGACCA
** * *
18562769 AAATACCCCCGAAAGGTAAAATGACCG
1 AAATACCCTTGAAGGGTAAAATGACCA
* *
18562796 AAATA-CCTTCAAAAGGTAAAATGACCA
1 AAATACCCTT-GAAGGGTAAAATGACCA
*
18562823 AAATACCCTTGAAGGGTAAAATGACTA
1 AAATACCCTTGAAGGGTAAAATGACCA
* ** *
18562850 AAATA-CCTACGAAGGGTAAAATGGTCG
1 AAATACCCT-TGAAGGGTAAAATGACCA
*
18562877 AAATACCCTTGAAGGGTAAAATTACCA
1 AAATACCCTTGAAGGGTAAAATGACCA
* * *
18562904 AAATACCCTTAAAAGGTAAAATGACTA
1 AAATACCCTTGAAGGGTAAAATGACCA
*
18562931 AAATACCC-TCATAGGGTAAAAT
1 AAATACCCTTGA-AGGGTAAAAT
18562953 AACTGTTATA
Statistics
Matches: 279, Mismatches: 52, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
25 45 0.16
26 10 0.04
27 215 0.77
28 9 0.03
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATACCCTTGAAGGGTAAAATGACCA
Found at i:18562844 original size:81 final size:80
Alignment explanation
Indices: 18562584--18562938 Score: 385
Period size: 81 Copynumber: 4.4 Consensus size: 80
18562574 ACAATGATCG
* *
18562584 AAATACCCTTGAAGGGTAAAATGACCAAAATA--CCTGTAAAGGGTAAAATGACCGAAATACC-C
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCCCG-AAA-GGTAAAATGACCGAAATACCTC
* *
18562646 AAATGGTAAAATGACCG
64 AAAGGGTAAAATGACCA
* * * * * * * * *
18562663 AAATACCCTCGAAGGGTAAAATAATTGAAATACCCTCAAAAGGTAAAATGACCAAAAT-TCTCGA
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCCCGAAAGGTAAAATGACCGAAATACCTCAA
*
18562727 AGGGTAAAATGACCG
66 AGGGTAAAATGACCA
** * *
18562742 AAATACCCCCGAAGAGTAAAATAACTAAAATACCCCCGAAAGGTAAAATGACCGAAATACCTTCA
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCCCGAAAGGTAAAATGACCGAAATACC-TCA
*
18562807 AAAGGTAAAATGACCA
65 AAGGGTAAAATGACCA
** * ** **
18562823 AAATACCCTTGAAGGGTAAAATGACTAAAATACCTACGAAGGGTAAAATGGTCGAAATACCCTTG
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCCCCGAAAGGTAAAATGACCGAAATA-CCTCA
*
18562888 AAGGGTAAAATTACCA
65 AAGGGTAAAATGACCA
* *
18562904 AAATACCCTTAAAAGGTAAAATGACTAAAATACCC
1 AAATACCCTTGAAGGGTAAAATGACTAAAATACCC
18562939 TCATAGGGTA
Statistics
Matches: 231, Mismatches: 39, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
78 1 0.00
79 110 0.48
80 4 0.02
81 114 0.49
82 2 0.01
ACGTcount: A:0.46, C:0.19, G:0.17, T:0.18
Consensus pattern (80 bp):
AAATACCCTTGAAGGGTAAAATGACTAAAATACCCCCGAAAGGTAAAATGACCGAAATACCTCAA
AGGGTAAAATGACCA
Found at i:18563168 original size:26 final size:26
Alignment explanation
Indices: 18563119--18563205 Score: 102
Period size: 26 Copynumber: 3.3 Consensus size: 26
18563109 TATACTGGTG
*
18563119 GCTTTGCCATATATACTGTTACTGGCA
1 GCTTTGCTATAT-TACTGTTACTGGCA
* *
18563146 GCTTTGTTGTATTACTGTTACTGGCA
1 GCTTTGCTATATTACTGTTACTGGCA
* * * *
18563172 GCTGTACTATATCACTATTACTGGCA
1 GCTTTGCTATATTACTGTTACTGGCA
18563198 GCTTTGCT
1 GCTTTGCT
18563206 GCGATATTGG
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 40 0.82
27 9 0.18
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (26 bp):
GCTTTGCTATATTACTGTTACTGGCA
Found at i:18563372 original size:33 final size:34
Alignment explanation
Indices: 18563311--18563379 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
18563301 ATCACTGCAT
* * * *
18563311 TGTATTGATTACTCTATTGGGCTAAGGCCCACAC
1 TGTACTGATTACTATATAGGGCTAAGGCCCAAAC
*
18563345 TGTACTGA-TACTATATAGGGCTCAGGCCCAAAC
1 TGTACTGATTACTATATAGGGCTAAGGCCCAAAC
18563378 TG
1 TG
18563380 ATTCTGCATG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 23 0.77
34 7 0.23
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (34 bp):
TGTACTGATTACTATATAGGGCTAAGGCCCAAAC
Found at i:18570771 original size:27 final size:27
Alignment explanation
Indices: 18570741--18570949 Score: 132
Period size: 27 Copynumber: 8.0 Consensus size: 27
18570731 AGAATGAATA
* *
18570741 AAATACCCTCGATGGATAAAATTATCG
1 AAATACCCTCGATGGGTAAAATTACCG
*
18570768 AAATA-CCT-AATGGGTAAAATTACCG
1 AAATACCCTCGATGGGTAAAATTACCG
** ***
18570793 AAATACCC-CTGATAAGTAAAATTATAA
1 AAATACCCTC-GATGGGTAAAATTACCG
* * *
18570820 AAATA---AC-AT-CGTAAAATTACTG
1 AAATACCCTCGATGGGTAAAATTACCG
* *
18570842 AAATACCCTTGATGGGTAAAATTATCG
1 AAATACCCTCGATGGGTAAAATTACCG
* * * *
18570869 AAATACCC-CTAAAGGGTAAAATAACCA
1 AAATACCCTC-GATGGGTAAAATTACCG
* *
18570896 AAATACCATCGATGGGTAAAATTACCA
1 AAATACCCTCGATGGGTAAAATTACCG
* *
18570923 AAATACCC-CTATAGGGTAAAATAACCG
1 AAATACCCTCGAT-GGGTAAAATTACCG
18570950 TTATACCCCT
Statistics
Matches: 138, Mismatches: 32, Indels: 24
0.71 0.16 0.12
Matches are distributed among these distances:
22 14 0.10
23 2 0.01
25 20 0.14
26 10 0.07
27 91 0.66
28 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (27 bp):
AAATACCCTCGATGGGTAAAATTACCG
Found at i:18570873 original size:49 final size:51
Alignment explanation
Indices: 18570741--18570919 Score: 155
Period size: 49 Copynumber: 3.5 Consensus size: 51
18570731 AGAATGAATA
* * * *
18570741 AAATACCCTCGATGGATAAAATTATCGAAATACCTAATGGGTAAAATTACCG
1 AAATACCCTTGATGGGTAAAATTATCGAAATAAC-AATGCGTAAAATTACCG
* ** ** *
18570793 AAATACCCCTGATAAGTAAAATTATAAAAATAAC-AT-CGTAAAATTACTG
1 AAATACCCTTGATGGGTAAAATTATCGAAATAACAATGCGTAAAATTACCG
* * * * *
18570842 AAATACCCTTGATGGGTAAAATTATCGAAATACCCCTAAAGGGTAAAATAACCA
1 AAATACCCTTGATGGGTAAAATTATCGAAATA--AC-AATGCGTAAAATTACCG
* *
18570896 AAATACCATCGATGGGTAAAATTA
1 AAATACCCTTGATGGGTAAAATTA
18570920 CCAAAATACC
Statistics
Matches: 99, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
49 38 0.38
50 2 0.02
51 1 0.01
52 26 0.26
53 1 0.01
54 31 0.31
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (51 bp):
AAATACCCTTGATGGGTAAAATTATCGAAATAACAATGCGTAAAATTACCG
Found at i:18570899 original size:76 final size:74
Alignment explanation
Indices: 18570757--18570906 Score: 180
Period size: 76 Copynumber: 2.0 Consensus size: 74
18570747 CCTCGATGGA
* *
18570757 TAAAATTATCGAAATACCTAATGGGTAAAATTACCGAAATACCCCTGATAAGTAAAATTATAAAA
1 TAAAATTATCGAAATACCTAATGGGTAAAATTACCGAAATACCCCTGATAAGTAAAATAACAAAA
18570822 ATAACATCG
66 ATAACATCG
* *
18570831 TAAAATTA-CTGAAATACCCTTGATGGGTAAAATTATCGAAATACCCCT-A-AAGGGTAAAATAA
1 TAAAATTATC-GAAATA-CC-TAATGGGTAAAATTACCGAAATACCCCTGATAA--GTAAAATAA
* *
18570893 CCAAAATACCATCG
61 CAAAAATAACATCG
18570907 ATGGGTAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
73 1 0.02
74 16 0.25
75 3 0.05
76 45 0.69
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.25
Consensus pattern (74 bp):
TAAAATTATCGAAATACCTAATGGGTAAAATTACCGAAATACCCCTGATAAGTAAAATAACAAAA
ATAACATCG
Found at i:18570910 original size:54 final size:53
Alignment explanation
Indices: 18570705--18570948 Score: 189
Period size: 54 Copynumber: 4.6 Consensus size: 53
18570695 AAAGGTTGTT
* * * * *
18570705 AAATGATCGAAATACTCCTATAGGGTAGAATGAA-TAAAATACCCTCGATGGATA
1 AAATTATCGAAATAC-CCTAAAGGGTAAAAT-AACCAAAATACCCTCGATGGGTA
* * * **
18570759 AAATTATCGAAATA-CCTAATGGGTAAAATTACCGAAATACCC-CTGATAAGTA
1 AAATTATCGAAATACCCTAAAGGGTAAAATAACCAAAATACCCTC-GATGGGTA
* ** * ** *
18570811 AAATTAT--AAA-A--ATAACATCGTAAAATTACTGAAATACCCTTGATGGGTA
1 AAATTATCGAAATACCCTAA-AGGGTAAAATAACCAAAATACCCTCGATGGGTA
*
18570860 AAATTATCGAAATACCCCTAAAGGGTAAAATAACCAAAATACCATCGATGGGTA
1 AAATTATCGAAATA-CCCTAAAGGGTAAAATAACCAAAATACCCTCGATGGGTA
* * *
18570914 AAATTACCAAAATACCCCTATAGGGTAAAATAACC
1 AAATTATCGAAATA-CCCTAAAGGGTAAAATAACC
18570949 GTTATACCCC
Statistics
Matches: 151, Mismatches: 29, Indels: 20
0.75 0.14 0.10
Matches are distributed among these distances:
48 3 0.02
49 33 0.22
50 3 0.02
51 5 0.03
52 33 0.22
54 71 0.47
55 3 0.02
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (53 bp):
AAATTATCGAAATACCCTAAAGGGTAAAATAACCAAAATACCCTCGATGGGTA
Found at i:18578700 original size:43 final size:43
Alignment explanation
Indices: 18578653--18578736 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
18578643 TTGTAGAAAG
*
18578653 GAAAGAAATCAATTGAAACAAAATCT-CAATCGAGAAACCTAAA
1 GAAAGAAATCAAGTGAAACAAAAT-TACAATCGAGAAACCTAAA
* * *
18578696 GAAAGAAATCTAGTGAAATAAAATTACAATTGAGAAACCTA
1 GAAAGAAATCAAGTGAAACAAAATTACAATCGAGAAACCTA
18578737 TTAGAAAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (43 bp):
GAAAGAAATCAAGTGAAACAAAATTACAATCGAGAAACCTAAA
Found at i:18595022 original size:30 final size:28
Alignment explanation
Indices: 18594972--18595044 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
18594962 AAAGCTCCTT
* * *
18594972 AAAA-TAAAAAAACATAAAAATATTTTTT
1 AAAATTAAAAAAA-ATGAAAATAATTTTA
*
18595000 AAATTTATAATAAAAATGAAAATAATTTTA
1 AAAATTA-AA-AAAAATGAAAATAATTTTA
18595030 AAAATTAAAAAAAAT
1 AAAATTAAAAAAAAT
18595045 CCAAGATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 9 0.24
29 4 0.11
30 20 0.54
31 4 0.11
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (28 bp):
AAAATTAAAAAAAATGAAAATAATTTTA
Found at i:18595528 original size:15 final size:15
Alignment explanation
Indices: 18595495--18595530 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
18595485 TATCTACATT
**
18595495 TAAAATAAAAATACG
1 TAAAATAAAAATAAA
18595510 TAAAATAAAAATAAA
1 TAAAATAAAAATAAA
18595525 TAAAAT
1 TAAAAT
18595531 CCACAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (15 bp):
TAAAATAAAAATAAA
Found at i:18595664 original size:7 final size:7
Alignment explanation
Indices: 18595652--18595677 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
18595642 AAGTTGCGAA
18595652 TGCCTAT
1 TGCCTAT
18595659 TGCCTAT
1 TGCCTAT
18595666 TGCCTAT
1 TGCCTAT
18595673 TGCCT
1 TGCCT
18595678 GTGCCGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.31, G:0.15, T:0.42
Consensus pattern (7 bp):
TGCCTAT
Found at i:18599864 original size:3 final size:3
Alignment explanation
Indices: 18599856--18599909 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
18599846 GAAAAAGTAA
* * * *
18599856 AAG AAG AAG AAG ATG -AG GAG AAG GAG AAG AAG AAG AAG AAG AAA AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
18599903 GAG AAG A
1 AAG AAG A
18599910 GGAAAAATAG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:18600266 original size:36 final size:37
Alignment explanation
Indices: 18600226--18600328 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 37
18600216 TTGAAAACCG
* * * *
18600226 GCTTATGTTTTGTA-ATATTGTTGCTGGTATATTGTT
1 GCTTATGTTTGGTATACATGGTTGCTAGTATATTGTT
18600262 GCTTATG-TTGGTATACATGGTTGCTAGTATATTGTT
1 GCTTATGTTTGGTATACATGGTTGCTAGTATATTGTT
* * *
18600298 GCTTATG-TTGTTATACATGGCTGCTGGTATA
1 GCTTATGTTTGGTATACATGGTTGCTAGTATA
18600329 AATGGCTAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 5 0.08
36 54 0.92
ACGTcount: A:0.18, C:0.09, G:0.24, T:0.49
Consensus pattern (37 bp):
GCTTATGTTTGGTATACATGGTTGCTAGTATATTGTT
Found at i:18603932 original size:27 final size:27
Alignment explanation
Indices: 18603901--18603953 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
18603891 CACCAATGAA
*
18603901 CTGGGGAATCAGCACTTAGCAACCCCT
1 CTGGGGAATCAGCACATAGCAACCCCT
18603928 CTGGGGAATCAGCACATAGCAACCCC
1 CTGGGGAATCAGCACATAGCAACCCC
18603954 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.23, T:0.15
Consensus pattern (27 bp):
CTGGGGAATCAGCACATAGCAACCCCT
Found at i:18603946 original size:103 final size:104
Alignment explanation
Indices: 18603767--18604032 Score: 412
Period size: 103 Copynumber: 2.6 Consensus size: 104
18603757 AACCGTTATT
* * *
18603767 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
** *
18603832 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
18603870 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCT-GGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCT-TGGGG
18603933 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
64 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
18603974 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
18604033 TATGTACAAC
Statistics
Matches: 150, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 66 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:18604393 original size:30 final size:29
Alignment explanation
Indices: 18604359--18604423 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
18604349 TAATCCACCA
18604359 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
18604389 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
18604419 CCCAA
1 CCCAA
18604424 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:18604397 original size:31 final size:30
Alignment explanation
Indices: 18604366--18604423 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
18604356 CCACCCAACT
18604366 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
18604396 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
18604424 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:18605466 original size:21 final size:21
Alignment explanation
Indices: 18605441--18605480 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18605431 AAAAAGGGAG
*
18605441 TCAATAAAACAAGAAAAATTC
1 TCAATAAAACAAAAAAAATTC
* *
18605462 TCAATTAAAGAAAAAAAAT
1 TCAATAAAACAAAAAAAAT
18605481 GAGTTATGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.10, G:0.05, T:0.20
Consensus pattern (21 bp):
TCAATAAAACAAAAAAAATTC
Found at i:18606342 original size:6 final size:6
Alignment explanation
Indices: 18606331--18606369 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
18606321 CAAGACTAAG
*
18606331 AAAATA ACAATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
18606370 CAAATGGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:18609981 original size:19 final size:19
Alignment explanation
Indices: 18609957--18609993 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18609947 TTAAAGGTAC
18609957 GTTATAATTTTTAGACTTA
1 GTTATAATTTTTAGACTTA
18609976 GTTATAATTTTTAGACTT
1 GTTATAATTTTTAGACTT
18609994 TATGAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (19 bp):
GTTATAATTTTTAGACTTA
Found at i:18616003 original size:91 final size:91
Alignment explanation
Indices: 18615848--18616023 Score: 273
Period size: 91 Copynumber: 1.9 Consensus size: 91
18615838 CCGCAAAAAG
* * *
18615848 CCTAAGCCAAACGGCACCGTTTTCTGAGTTTTTGGGGGTCTTTAGCGGCGTTTCTATAAAGCGCC
1 CCTAAACCAAACGACACCGTTTTCTGAGTTTTTGGGGGTCTTTAGCGGAGTTTCTATAAAGCGCC
18615913 GCTAATGCTCAGGTCTTTAGTGGCGC
66 GCTAATGCTCAGGTCTTTAGTGGCGC
* * * *
18615939 CCTAAACCCAACGACACCGTTTTCTGAGTTTTT-GGGGTCTTTAGCGATATTTTCTGTAAAGCGC
1 CCTAAACCAAACGACACCGTTTTCTGAGTTTTTGGGGGTCTTTAGCG-GAGTTTCTATAAAGCGC
18616003 CGCTAATGCTCAGGTCTTTAG
65 CGCTAATGCTCAGGTCTTTAG
18616024 CAGCGTTTTT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
90 13 0.17
91 64 0.83
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (91 bp):
CCTAAACCAAACGACACCGTTTTCTGAGTTTTTGGGGGTCTTTAGCGGAGTTTCTATAAAGCGCC
GCTAATGCTCAGGTCTTTAGTGGCGC
Found at i:18616166 original size:113 final size:113
Alignment explanation
Indices: 18615939--18616390 Score: 699
Period size: 113 Copynumber: 4.0 Consensus size: 113
18615929 TTAGTGGCGC
***
18615939 CCTAAACCCAACGACACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGATATTTTCTGTAAAGCGCC
1 CCTAAACCCAACGACACCGTTTTCTGAGTTTTTGGGGTCTTTAGCG-GCGTTTCTGTAAAGCGCC
*
18616004 GCTAATGCTCAGGTCTTTAGCAGCGTTTTTTTAAAAGCGCCGCAAAAAG
65 GCTAATGCTCAGGTCTTTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAG
* * * * *
18616053 CCTAAACCCAACGGCACCGTTTTCTGAGTTTTTAGGGTCTTTAGCGGCGTTTCAGCAGAGCGCCG
1 CCTAAACCCAACGACACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCG
* * *
18616118 CTAATGCTTAGGTCTTTAGCGGCATTTTTTTAAAAGCGCCGTAAAAAG
66 CTAATGCTCAGGTCTTTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAG
*
18616166 CCTAAACCCAACGACGCCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCG
1 CCTAAACCCAACGACACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCG
*
18616231 CTAATGCTCAGGTCTTTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAT
66 CTAATGCTCAGGTCTTTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAG
* * *
18616279 CCTAAGCCCAACGACACCGTTTTCTGAGTTTTTGGGATCTTTAGCGGCGTTTCTGAATAAGCGCC
1 CCTAAACCCAACGACACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTCTGTA-AAGCGCC
* * *
18616344 GCTAATGCTCAGGCCTTTAGCGGCG-TTGTTTAAAAACGCCGCAAAAA
65 GCTAATGCTCAGGTCTTTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAA
18616391 CATTTTATCT
Statistics
Matches: 308, Mismatches: 29, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
113 233 0.76
114 75 0.24
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (113 bp):
CCTAAACCCAACGACACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGTTTCTGTAAAGCGCCG
CTAATGCTCAGGTCTTTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAG
Found at i:18616529 original size:26 final size:26
Alignment explanation
Indices: 18616481--18616531 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
18616471 AAAATGAATA
** * *
18616481 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
18616507 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
18616532 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:18616939 original size:20 final size:20
Alignment explanation
Indices: 18616914--18616951 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18616904 TAAATAATGT
18616914 TTAGGG-TTAGGGATTTAGGG
1 TTAGGGTTTA-GGATTTAGGG
18616934 TTAGGGTTTAGGATTTAG
1 TTAGGGTTTAGGATTTAG
18616952 ATTAATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (20 bp):
TTAGGGTTTAGGATTTAGGG
Found at i:18616943 original size:79 final size:77
Alignment explanation
Indices: 18616853--18617175 Score: 222
Period size: 88 Copynumber: 3.9 Consensus size: 77
18616843 TTCGGTGTTA
*
18616853 GGTTAGAGTTTAGGGTTTAGACTAATTAATATATTTTAAATTATATAATATTAAATAATGTTTA-
1 GGTTAGAGTTTAGGATTTAGACTAATTAATAT-TTTTAAATT-TAT-ATATTAAATAATGTTTAG
18616917 GGGTTAGGGATTTAG
63 GGGTTAGGGATTTAG
* * ** * *
18616932 GGTTAGGGTTTAGGATTTAGATTAATTTGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGG
1 GGTTAGAGTTTAGGATTTAGACTAATTAATATTTTTAAATTTATATATTAAATAATGTTTAGGGG
*
18616997 TTAGGGGTTAGTGATTCGGGG
66 TTA-GGG--A-T--TT---AG
* * * * *
18617018 TCGAGTTAGGGTTTA-GATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAG
1 --G-GTTAGAGTTTAGGATTTAGACTAATTAATATTTTTAAATTTATATATTAAATAATGTTTAG
*
18617082 GGGTT-GGGTTAGTGATTGGGG
63 GGGTTAGGG--A-T--TT--AG
* * * *
18617103 TCGAGTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTT-AATTTATATATTAAATAATGTTTAG
1 --G-GTTAGAGTTTAGGATTTAGACTAATTAATATTTTTAAATTTATATATTAAATAATGTTTAG
*
18617167 GGTTTAGGG
63 GGGTTAGGG
18617176 GTAGGGGCTT
Statistics
Matches: 219, Mismatches: 10, Indels: 23
0.87 0.04 0.09
Matches are distributed among these distances:
76 17 0.08
77 9 0.04
78 11 0.05
79 26 0.12
80 1 0.00
81 1 0.00
83 2 0.01
85 48 0.22
86 39 0.18
88 54 0.25
89 11 0.05
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.45
Consensus pattern (77 bp):
GGTTAGAGTTTAGGATTTAGACTAATTAATATTTTTAAATTTATATATTAAATAATGTTTAGGGG
TTAGGGATTTAG
Found at i:18616951 original size:14 final size:14
Alignment explanation
Indices: 18616913--18616945 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
18616903 TTAAATAATG
18616913 TTTAGGGTTAGGGA
1 TTTAGGGTTAGGGA
18616927 TTTAGGGTTAGGG-
1 TTTAGGGTTAGGGA
18616940 TTTAGG
1 TTTAGG
18616946 ATTTAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (14 bp):
TTTAGGGTTAGGGA
Found at i:18617052 original size:88 final size:88
Alignment explanation
Indices: 18616933--18617177 Score: 435
Period size: 85 Copynumber: 2.8 Consensus size: 88
18616923 GGGATTTAGG
*
18616933 GTTAGGGTTTAGGATTTAGATTAATTTGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
18616998 TAGGGGTTAGTGATTCGGGGTCGA
66 TAGGGGTTAGTGATT-GGGGTCGA
18617022 GTTAGGGTTTA-GATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
18617086 T--GGGTTAGTGATTGGGGTCGA
66 TAGGGGTTAGTGATTGGGGTCGA
*
18617107 GTTAGGGTTTAGGATTTAGATTAATTAGTG-TTTTTAATTTATATATTAAATAATGTTTAGGGTT
1 GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
18617171 TAGGGGT
66 TAGGGGT
18617178 AGGGGCTTAG
Statistics
Matches: 151, Mismatches: 2, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
85 53 0.35
86 30 0.20
87 4 0.03
88 53 0.35
89 11 0.07
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (88 bp):
GTTAGGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGT
TAGGGGTTAGTGATTGGGGTCGA
Found at i:18617204 original size:14 final size:14
Alignment explanation
Indices: 18617161--18617205 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
18617151 ATTAAATAAT
*
18617161 GTTTAGGGTTTAGG
1 GTTTGGGGTTTAGG
* * *
18617175 GGTAGGGGCTTAGG
1 GTTTGGGGTTTAGG
18617189 GTTTGGGGTTTAGG
1 GTTTGGGGTTTAGG
18617203 GTT
1 GTT
18617206 AAGAGTTAGT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.11, C:0.02, G:0.49, T:0.38
Consensus pattern (14 bp):
GTTTGGGGTTTAGG
Found at i:18620666 original size:31 final size:30
Alignment explanation
Indices: 18620630--18620779 Score: 176
Period size: 31 Copynumber: 4.8 Consensus size: 30
18620620 TGTATAAAAA
18620630 AATTAATATTATACATAAATTACATAACTT
1 AATTAATATTATACATAAATTACATAACTT
* *
18620660 GCATTAATATTATACATAAATTACATGACTTAATT
1 -AATTAATATTATACATAAATTACAT-A---ACTT
18620695 AATTAATATTATACATAAATTACATAACTT
1 AATTAATATTATACATAAATTACATAACTT
*** *
18620725 ACATTAATGCAATACATTAATTACATAA-TT
1 A-ATTAATATTATACATAAATTACATAACTT
*
18620755 AATTAATATTATACATAACTTACAT
1 AATTAATATTATACATAAATTACAT
18620780 TAATATTATA
Statistics
Matches: 101, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
29 19 0.19
30 7 0.07
31 46 0.46
32 1 0.01
33 1 0.01
34 24 0.24
35 3 0.03
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.39
Consensus pattern (30 bp):
AATTAATATTATACATAAATTACATAACTT
Found at i:18620712 original size:56 final size:56
Alignment explanation
Indices: 18620650--18620835 Score: 205
Period size: 56 Copynumber: 3.2 Consensus size: 56
18620640 ATACATAAAT
* *
18620650 TACATAACTTGCATTAATATTATACATAAATTACATGACTTAATTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
* * * * *
18620706 TACATAAATTACA-TAACTTACATTAATGCAATACATTA-ATTACATAATTAATTAATATTA
1 TACATAACTTACATTAA--T--ATT-ATAC-ATAAATTACATAACTTAATTAATTAATATTA
* * *
18620766 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTA
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
*
18620822 TAGATAACTTACAT
1 TACATAACTTACAT
18620836 AACTTACAAC
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
55 9 0.08
56 45 0.42
57 4 0.04
59 4 0.04
60 35 0.33
61 10 0.09
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.40
Consensus pattern (56 bp):
TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATATTA
Found at i:18620730 original size:65 final size:63
Alignment explanation
Indices: 18620630--18620843 Score: 227
Period size: 65 Copynumber: 3.5 Consensus size: 63
18620620 TGTATAAAAA
*
18620630 AATTAATATTATACATAAATTACATAACTTGCATTAATATTATACATAAATTACATGACTTAATT
1 AATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACAT-A-TTAATT
*** *
18620695 AATTAATATTATACATAAATTACATAACTTACATTAATGCAATACATTAATTAC--A-TAATT
1 AATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATATTAATT
* *
18620755 AATTAATATTATAC---------ATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTT
1 AATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACAT-A-TTAATT
* *
18620811 AATTAATATTATAGATAACTTACATAACTTACA
1 AATTAATATTATACATAAATTACATAACTTACA
18620844 ACTTACATAA
Statistics
Matches: 123, Mismatches: 12, Indels: 28
0.75 0.07 0.17
Matches are distributed among these distances:
51 26 0.21
54 1 0.01
56 17 0.14
60 19 0.15
62 1 0.01
65 59 0.48
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.40
Consensus pattern (63 bp):
AATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATATTAATT
Found at i:18620771 original size:20 final size:22
Alignment explanation
Indices: 18620746--18620801 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
18620736 ATACATTAAT
18620746 TACATAA-TTA-ATTAATATTA
1 TACATAACTTACATTAATATTA
18620766 TACATAACTTACATTAATATTA
1 TACATAACTTACATTAATATTA
* *
18620788 TACTTAAATTACAT
1 TACATAACTTACAT
18620802 AAGTTAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 22 0.69
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
TACATAACTTACATTAATATTA
Found at i:18620778 original size:51 final size:54
Alignment explanation
Indices: 18620715--18620835 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 54
18620705 ATACATAAAT
*
18620715 TACATAACTTACATTAATGCAATACATT-AATTACAT-A-A-TTAATTAATATTA
1 TACATAACTTACATTAATACAATAC-TTAAATTACATAATAGTTAATTAATATTA
**
18620766 TACATAACTTACATTAATATTATACTTAAATTACATAAGTTAGTTAATTAATATTA
1 TACATAACTTACATTAATACAATACTTAAATTACATAA--TAGTTAATTAATATTA
*
18620822 TAGATAACTTACAT
1 TACATAACTTACAT
18620836 AACTTACAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
50 2 0.03
51 30 0.50
52 1 0.02
55 1 0.02
56 26 0.43
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.40
Consensus pattern (54 bp):
TACATAACTTACATTAATACAATACTTAAATTACATAATAGTTAATTAATATTA
Found at i:18620839 original size:9 final size:9
Alignment explanation
Indices: 18620825--18620963 Score: 62
Period size: 9 Copynumber: 16.3 Consensus size: 9
18620815 AATATTATAG
18620825 ATAACTTAC
1 ATAACTTAC
18620834 ATAACTTAC
1 ATAACTTAC
18620843 --AACTTAC
1 ATAACTTAC
18620850 ATAACTTAC
1 ATAACTTAC
***
18620859 ATTTTTTTA-
1 A-TAACTTAC
*
18620868 ATTA-TT-C
1 ATAACTTAC
* *
18620875 GTAAATTAC
1 ATAACTTAC
18620884 ATAACTTAC
1 ATAACTTAC
* * *
18620893 TTAATTTTC
1 ATAACTTAC
*
18620902 ATAA--TAA
1 ATAACTTAC
18620909 ATAACTTAC
1 ATAACTTAC
* *
18620918 ATAAATAAC
1 ATAACTTAC
*
18620927 -T-TCTTAC
1 ATAACTTAC
*
18620934 ATAACTTAT
1 ATAACTTAC
* *
18620943 GTGACTTAC
1 ATAACTTAC
18620952 ATAACTTAC
1 ATAACTTAC
18620961 ATA
1 ATA
18620964 GCATAATTTT
Statistics
Matches: 93, Mismatches: 27, Indels: 20
0.66 0.19 0.14
Matches are distributed among these distances:
7 19 0.20
8 6 0.06
9 64 0.69
10 4 0.04
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.40
Consensus pattern (9 bp):
ATAACTTAC
Found at i:18620848 original size:16 final size:16
Alignment explanation
Indices: 18620827--18620859 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
18620817 TATTATAGAT
18620827 AACTTACATAACTTAC
1 AACTTACATAACTTAC
18620843 AACTTACATAACTTAC
1 AACTTACATAACTTAC
18620859 A
1 A
18620860 TTTTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:18620994 original size:25 final size:25
Alignment explanation
Indices: 18620965--18621020 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
18620955 ACTTACATAG
* *
18620965 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
18620990 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
18621015 CATAAT
1 CATAAT
18621021 ACATAACTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:18621020 original size:16 final size:16
Alignment explanation
Indices: 18621001--18621034 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18620991 ATAATTTGGG
18621001 TAATAAATAACTTACA
1 TAATAAATAACTTACA
*
18621017 TAATACATAACTTACA
1 TAATAAATAACTTACA
18621033 TA
1 TA
18621035 GCTTAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATAAATAACTTACA
Found at i:18626564 original size:66 final size:65
Alignment explanation
Indices: 18626456--18626627 Score: 204
Period size: 66 Copynumber: 2.6 Consensus size: 65
18626446 GAGCAAATTA
* * * * *
18626456 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAA-AAAAGATATGAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCCA
18626520 G
65 G
*
18626521 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
18626586 G
65 G
* * * *
18626587 CAGCAGCTTAGAGCAGATGC-GACAGCAAGAGAAGCAGAGGT
1 CA-CAACTTAAAGCAGATGCAG-CAGCGAGAGAAGCTGAGGT
18626628 GGCAGCGAGA
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
65 3 0.03
66 86 0.92
67 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCAG
Found at i:18626669 original size:21 final size:21
Alignment explanation
Indices: 18626617--18626709 Score: 109
Period size: 21 Copynumber: 4.4 Consensus size: 21
18626607 GACAGCAAGA
18626617 GAAGCAGAGG-TGGCAGCGAGAG
1 GAAGCAGAGGCT-GCAGCGAG-G
* *
18626639 AAAG-ACAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
**
18626659 GAAGCAGAGGCTAAAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
*
18626680 GAAGTAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGG
18626701 GAAGCAGAG
1 GAAGCAGAG
18626710 CAGCGTCAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
20 4 0.07
21 51 0.86
22 4 0.07
ACGTcount: A:0.34, C:0.15, G:0.45, T:0.05
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAGCGAGG
Found at i:18626892 original size:10 final size:9
Alignment explanation
Indices: 18626873--18626902 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
18626863 TAATACGAAT
18626873 TTTATTATA
1 TTTATTATA
18626882 TTTATTGATA
1 TTTATT-ATA
18626892 TTTATTATA
1 TTTATTATA
18626901 TT
1 TT
18626903 ACTTGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTATTATA
Found at i:18627111 original size:43 final size:42
Alignment explanation
Indices: 18627039--18627239 Score: 197
Period size: 43 Copynumber: 4.6 Consensus size: 42
18627029 AGGTGCTCGC
* * * *
18627039 CTTTAGTGGCGTTTTTGGTAAAAGTGCCGCTATAGATTAGGGT
1 CTTTAGCGGCGTTTTTGG-AGAAGCGCCGCTATAGATCAGGGT
18627082 CTTTAGCGGCGTTTTTGAGAGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTG-GAGAAGCGCCGCTATAGATCAGGGT
* * *
18627125 ATTTAGCGGCGTTTTTGCGGGAAAACGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTG-GAG-AAGCGCCGCTATAGATCAGGGT
* * * * * *
18627169 CTTTAGTGGCGTTTGTGGCCGAAGAGTCGCTATTGATCAGGGT
1 CTTTAGCGGCGTTTTTGG-AGAAGCGCCGCTATAGATCAGGGT
* *
18627212 CTATT-GCGGCGTTTGTGGGAAAAGCGCC
1 CT-TTAGCGGCGTTT-TTGGAGAAGCGCC
18627240 CCTAAAGACC
Statistics
Matches: 130, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
43 89 0.68
44 41 0.32
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (42 bp):
CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTATAGATCAGGGT
Found at i:18627200 original size:87 final size:87
Alignment explanation
Indices: 18627064--18627225 Score: 220
Period size: 87 Copynumber: 1.9 Consensus size: 87
18627054 TGGTAAAAGT
* * *
18627064 GCCGCTATAGATTAGGGTCTTTAGCGGCGTTTTTGAGAGAAGCGCCGCTATAGATCAGGGTAT-T
1 GCCGCTATAGATCAGGGTCTTTAGCGGCGTTTGTGAGAGAAGAGCCGCTATAGATCAGGGTATAT
18627128 TAGCGGCGTTTTTGCGGGAAAAC
66 T-GCGGCGTTTTTGCGGGAAAAC
* * * * *
18627151 GCCGCTATAGATCAGGGTCTTTAGTGGCGTTTGTG-GCCGAAGAGTCGCTATTGATCAGGGTCTA
1 GCCGCTATAGATCAGGGTCTTTAGCGGCGTTTGTGAG-AGAAGAGCCGCTATAGATCAGGGTATA
18627215 TTGCGGCGTTT
65 TTGCGGCGTTT
18627226 GTGGGAAAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
86 1 0.02
87 62 0.95
88 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (87 bp):
GCCGCTATAGATCAGGGTCTTTAGCGGCGTTTGTGAGAGAAGAGCCGCTATAGATCAGGGTATAT
TGCGGCGTTTTTGCGGGAAAAC
Found at i:18627418 original size:43 final size:43
Alignment explanation
Indices: 18627231--18627410 Score: 236
Period size: 43 Copynumber: 4.2 Consensus size: 43
18627221 CGTTTGTGGG
* * * *
18627231 AAAAGCGCCCCTAAAGACCTTGATCTATAGCGGCGCTTACAC-C
1 AAAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTT-CCCGC
* *
18627274 ACAAACGCCACTAAAGACCCTGATCTATAGCGGCTCTTCCCGC
1 AAAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTCCCGC
*
18627317 AAGAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTCCCGC
1 AAAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTCCCGC
* * * * *
18627360 AAAAATGCCGCTAAAGACCCTGATCTATAGCAGCGCTTCTCTC
1 AAAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTCCCGC
18627403 AAAAACGC
1 AAAAACGC
18627411 TGCTAAAGGT
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 2 0.02
43 118 0.98
ACGTcount: A:0.31, C:0.33, G:0.18, T:0.18
Consensus pattern (43 bp):
AAAAACGCCACTAAAGACCCTGATCTATAGCGGCGCTTCCCGC
Found at i:18627605 original size:22 final size:22
Alignment explanation
Indices: 18627577--18627620 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18627567 CTGCGGTGCT
* *
18627577 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
18627599 AAAAAGCACCGCTAAAAGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
18627621 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:18629247 original size:36 final size:39
Alignment explanation
Indices: 18629184--18629273 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 39
18629174 GTCTCCAATT
* *
18629184 TCACATTTCAATTC-AATGTCACTTTTT-CACTTTCAA-
1 TCACAATTCAATTCAAAAGTCACTTTTTCCACTTTCAAG
* *
18629220 TCACAATTCAATTCAAAAGTTAC-TTTTCCATTTTCAAG
1 TCACAATTCAATTCAAAAGTCACTTTTTCCACTTTCAAG
*
18629258 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
18629274 TTCCACACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 17 0.38
37 15 0.33
38 13 0.29
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (39 bp):
TCACAATTCAATTCAAAAGTCACTTTTTCCACTTTCAAG
Found at i:18629255 original size:37 final size:38
Alignment explanation
Indices: 18629184--18629273 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 38
18629174 GTCTCCAATT
* * *
18629184 TCACATTTCAATTC-AATGTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAAAAGTCACTTTTCCACTTTCAAG
* *
18629220 TCACAATTCAATTCAAAAGTTACTTTTCCATTTTCAAG
1 TCACAATTCAATTCAAAAGTCACTTTTCCACTTTCAAG
*
18629258 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
18629274 TTCCACACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
36 13 0.29
37 19 0.42
38 13 0.29
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.42
Consensus pattern (38 bp):
TCACAATTCAATTCAAAAGTCACTTTTCCACTTTCAAG
Found at i:18630068 original size:7 final size:7
Alignment explanation
Indices: 18630050--18630079 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
18630040 TTTATATATA
18630050 ATATAAT
1 ATATAAT
18630057 AATATAAT
1 -ATATAAT
18630065 ATATAAT
1 ATATAAT
18630072 ATATAAT
1 ATATAAT
18630079 A
1 A
18630080 AAACATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATATAAT
Found at i:18630087 original size:17 final size:20
Alignment explanation
Indices: 18630047--18630093 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
18630037 TACTTTATAT
*
18630047 ATAATATAATAATATAATAT
1 ATAATATAATAATATAATAC
18630067 ATAATAT-ATAATA-AA-AC
1 ATAATATAATAATATAATAC
18630084 ATAATA-AATA
1 ATAATATAATA
18630094 TCTTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.40
18 2 0.08
19 6 0.24
20 7 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATATAATAATATAATAC
Found at i:18630875 original size:40 final size:40
Alignment explanation
Indices: 18630797--18630875 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
18630787 TAAAAAATAC
* * *
18630797 TCACTACATGCATATTAAAAAATAGTCAACACACCAACAA
1 TCACTACATGCATATTAAAAAATACTCAACAAAACAACAA
18630837 TCACTACATGCATATTAAAAAGA-ACTC-ACTAAAACAACA
1 TCACTACATGCATATTAAAAA-ATACTCAAC-AAAACAACA
18630876 TGTGACCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 2 0.06
40 31 0.91
41 1 0.03
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.20
Consensus pattern (40 bp):
TCACTACATGCATATTAAAAAATACTCAACAAAACAACAA
Found at i:18633047 original size:18 final size:18
Alignment explanation
Indices: 18633024--18633058 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18633014 AAACCAAACC
* *
18633024 GAAATCCAAATCGAAATT
1 GAAATCAAAATCAAAATT
18633042 GAAATCAAAATCAAAAT
1 GAAATCAAAATCAAAAT
18633059 CAAAATCAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (18 bp):
GAAATCAAAATCAAAATT
Found at i:18633129 original size:18 final size:18
Alignment explanation
Indices: 18633076--18633130 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
18633066 AGTGAGTGTT
* *
18633076 TCAAAATTGAAATCAAAA
1 TCAAAATTAAAATCGAAA
*
18633094 TCAAAATTAGAATCGAAA
1 TCAAAATTAAAATCGAAA
* *
18633112 TCAAGATTAAAATTGAAA
1 TCAAAATTAAAATCGAAA
18633130 T
1 T
18633131 AACTCTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.25
Consensus pattern (18 bp):
TCAAAATTAAAATCGAAA
Found at i:18633954 original size:13 final size:12
Alignment explanation
Indices: 18633936--18633971 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
18633926 ATATAAAAAA
18633936 TTATTTCTTCTTT
1 TTATTTCTT-TTT
*
18633949 TTATTTCATTTT
1 TTATTTCTTTTT
18633961 TTATTTCTTTT
1 TTATTTCTTTT
18633972 CACTTTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATTTCTTTTT
Found at i:18636101 original size:17 final size:17
Alignment explanation
Indices: 18636079--18636116 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
18636069 TAAGACAAAA
*
18636079 AGACAACTTATATTAGT
1 AGACAACTTATAATAGT
18636096 AGACAACTTATAATAGT
1 AGACAACTTATAATAGT
18636113 AGAC
1 AGAC
18636117 GAACCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (17 bp):
AGACAACTTATAATAGT
Found at i:18636127 original size:17 final size:17
Alignment explanation
Indices: 18636079--18636127 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
18636069 TAAGACAAAA
* *
18636079 AGACAACTTATATTAGT
1 AGACAACCTATAATAGT
*
18636096 AGACAACTTATAATAGT
1 AGACAACCTATAATAGT
18636113 AGACGAACCTA-AATA
1 AGAC-AACCTATAATA
18636128 TGTCCTTAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 24 0.83
18 5 0.17
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
AGACAACCTATAATAGT
Found at i:18637117 original size:6 final size:6
Alignment explanation
Indices: 18637092--18637141 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
18637082 TGGTTTTCTC
* * * *
18637092 GAAAAT GGAAGT GAAAAT GGAAAT GGAAAT GAAAAT GAAAAT GAAAAT
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT
18637140 GA
1 GA
18637142 GAAACAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (6 bp):
GAAAAT
Found at i:18637117 original size:18 final size:18
Alignment explanation
Indices: 18637092--18637141 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
18637082 TGGTTTTCTC
*
18637092 GAAAATGGAAGTGAAAAT
1 GAAAATGGAAATGAAAAT
*
18637110 GGAAATGGAAATGAAAAT
1 GAAAATGGAAATGAAAAT
*
18637128 GAAAATGAAAATGA
1 GAAAATGGAAATGA
18637142 GAAACAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (18 bp):
GAAAATGGAAATGAAAAT
Found at i:18660758 original size:33 final size:33
Alignment explanation
Indices: 18660682--18660773 Score: 93
Period size: 33 Copynumber: 2.8 Consensus size: 33
18660672 AGAATAACAT
* * *
18660682 TATCAACTTTCATTTTGTGACATGAT-AACAAA
1 TATCAACTTTAATTTTTTGAAATGATAAACAAA
* *
18660714 T-TACAA-GTTAATTTTTTGAAATGATAAATAAA
1 TAT-CAACTTTAATTTTTTGAAATGATAAACAAA
18660746 TATCAACTTTAATTTTGTT-AAATGATAA
1 TATCAACTTTAATTTT-TTGAAATGATAA
18660774 TAATATTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
31 16 0.33
32 13 0.27
33 18 0.37
34 2 0.04
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (33 bp):
TATCAACTTTAATTTTTTGAAATGATAAACAAA
Found at i:18660779 original size:31 final size:31
Alignment explanation
Indices: 18660682--18660779 Score: 85
Period size: 31 Copynumber: 3.1 Consensus size: 31
18660672 AGAATAACAT
* * * *
18660682 TATCAACTTTCATTTTGTGACATGATAACAA
1 TATCAACTTTAATTTTGTTAAATGATAATAA
*
18660713 -ATTACAA-GTTAATTTT-TTGAAATGATAAATAAA
1 TA-T-CAACTTTAATTTTGTT-AAATGAT-AAT-AA
18660746 TATCAACTTTAATTTTGTTAAATGATAATAA
1 TATCAACTTTAATTTTGTTAAATGATAATAA
18660777 TAT
1 TAT
18660780 TTTTTTTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
30 2 0.04
31 19 0.36
32 11 0.21
33 18 0.34
34 3 0.06
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (31 bp):
TATCAACTTTAATTTTGTTAAATGATAATAA
Found at i:18673105 original size:30 final size:31
Alignment explanation
Indices: 18673047--18673111 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
18673037 ACGATGAAAA
18673047 TTATCTTATTAAAGCTTATACACCACATGAC
1 TTATCTTATTAAAGCTTATACACCACATGAC
* *
18673078 TTATCTTATTAAAGC-TATGCGCCACATGAC
1 TTATCTTATTAAAGCTTATACACCACATGAC
18673108 TTAT
1 TTAT
18673112 ACTTTATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 17 0.53
31 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (31 bp):
TTATCTTATTAAAGCTTATACACCACATGAC
Found at i:18675012 original size:14 final size:15
Alignment explanation
Indices: 18674975--18675012 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18674965 AAATGTTTTA
*
18674975 ATTTTCTGTAAAATG
1 ATTTTCTGGAAAATG
*
18674990 ATTTACTGGAAAAT-
1 ATTTTCTGGAAAATG
18675004 ATTTTCTGG
1 ATTTTCTGG
18675013 TGTTTGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (15 bp):
ATTTTCTGGAAAATG
Found at i:18677041 original size:4 final size:4
Alignment explanation
Indices: 18677032--18677064 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
18677022 TGACAGCAAA
18677032 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
18677065 TTAATTGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:18680836 original size:17 final size:17
Alignment explanation
Indices: 18680793--18680843 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
18680783 TTAAAATATA
18680793 TTAAATATAAAATATGATT
1 TTAAA-ATAAAAT-TGATT
** *
18680812 TTTTAATAAAATTTATT
1 TTAAAATAAAATTGATT
18680829 TTAAAATAAAATTGA
1 TTAAAATAAAATTGA
18680844 AATTGATACC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 16 0.62
18 7 0.27
19 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (17 bp):
TTAAAATAAAATTGATT
Found at i:18682180 original size:18 final size:18
Alignment explanation
Indices: 18682159--18682208 Score: 84
Period size: 17 Copynumber: 2.8 Consensus size: 18
18682149 TCGAAACCGG
18682159 TCGGTTAACCGAAAATTT
1 TCGGTTAACCGAAAATTT
18682177 TCGGTTAACCG-AAATTT
1 TCGGTTAACCGAAAATTT
*
18682194 TTGGTTAACCGAAAA
1 TCGGTTAACCGAAAA
18682209 AAATTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (18 bp):
TCGGTTAACCGAAAATTT
Found at i:18682426 original size:10 final size:9
Alignment explanation
Indices: 18682408--18682453 Score: 60
Period size: 8 Copynumber: 5.2 Consensus size: 9
18682398 TTCGGGTATT
18682408 TTCGG-TAA
1 TTCGGTTAA
18682416 TTCGGTTTAA
1 TTCGG-TTAA
18682426 TTCGGTT-A
1 TTCGGTTAA
18682434 TTCGGTTAA
1 TTCGGTTAA
*
18682443 TTCGGGTAA
1 TTCGGTTAA
18682452 TT
1 TT
18682454 TTAATCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
8 13 0.38
9 13 0.38
10 8 0.24
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.46
Consensus pattern (9 bp):
TTCGGTTAA
Found at i:18682429 original size:18 final size:17
Alignment explanation
Indices: 18682408--18682453 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
18682398 TTCGGGTATT
18682408 TTCGGTAATTCGGTTTAA
1 TTCGGTAATTCGG-TTAA
*
18682426 TTCGGTTATTCGGTTAA
1 TTCGGTAATTCGGTTAA
18682443 TTCGGGTAATT
1 TTC-GGTAATT
18682454 TTAATCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.46
Consensus pattern (17 bp):
TTCGGTAATTCGGTTAA
Done.