Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008283.1 Hibiscus syriacus cultivar Beakdansim tig00110945_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: 2862730
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:12118 original size:77 final size:76
Alignment explanation
Indices: 11987--12146 Score: 187
Period size: 77 Copynumber: 2.1 Consensus size: 76
11977 TTAGATTCAA
* * * * * * * *
11987 CTATTTTATTATTAAAATGTTAAGATTTCATATTGCAACTGCTTTCTTAATGAACTATGATATTC
1 CTATTTTATTATAAAAATATTAACATTACAAATTGCAACTGATTTCTTAATGAACTATGACATTA
* *
12052 TTGGGTGCAAC
66 TTGAGTGAAAC
*
12063 CTATTTTATTAATAAAAATATTAACATTACAAATTGCAACCT-ATTTCTTAGTGAACTATGACAT
1 CTATTTTATT-ATAAAAATATTAACATTACAAATTGCAA-CTGATTTCTTAATGAACTATGACAT
12127 TATTGAGTGAAAC
64 TATTGAGTGAAAC
12140 CATATTT
1 C-TATTT
12147 CTTATATATT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
76 10 0.14
77 53 0.76
78 7 0.10
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (76 bp):
CTATTTTATTATAAAAATATTAACATTACAAATTGCAACTGATTTCTTAATGAACTATGACATTA
TTGAGTGAAAC
Found at i:12477 original size:19 final size:19
Alignment explanation
Indices: 12453--12491 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12443 AAACCTCCCA
12453 ATAAGATCTATAAATAGAT
1 ATAAGATCTATAAATAGAT
12472 ATAAGATCTATAAATAGAT
1 ATAAGATCTATAAATAGAT
12491 A
1 A
12492 CAGTTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.10, T:0.31
Consensus pattern (19 bp):
ATAAGATCTATAAATAGAT
Found at i:20616 original size:32 final size:32
Alignment explanation
Indices: 20575--20681 Score: 166
Period size: 32 Copynumber: 3.4 Consensus size: 32
20565 AGTGAGATTG
*
20575 GTCGCCATGCAGTTGGGGCGAAGCAGGTATTT
1 GTCGCCATGCAGTCGGGGCGAAGCAGGTATTT
20607 GTCGCCATGCAGTCGGGGCGAAGCAGGTATTT
1 GTCGCCATGCAGTCGGGGCGAAGCAGGTATTT
* *
20639 GTCGCCATGCAGTCGGGGCGAAG-AAGTA--G
1 GTCGCCATGCAGTCGGGGCGAAGCAGGTATTT
20668 GTCGCCATGCAGTC
1 GTCGCCATGCAGTC
20682 TGTTGAAGGT
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
29 14 0.19
31 4 0.06
32 54 0.75
ACGTcount: A:0.20, C:0.22, G:0.37, T:0.21
Consensus pattern (32 bp):
GTCGCCATGCAGTCGGGGCGAAGCAGGTATTT
Found at i:21048 original size:21 final size:20
Alignment explanation
Indices: 20962--21119 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
20952 AAATGACCAA
**
20962 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
20981 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
21001 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
21021 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
21042 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
21063 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
21083 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
21104 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
21120 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 42 0.40
21 46 0.44
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:21148 original size:20 final size:20
Alignment explanation
Indices: 21087--21315 Score: 221
Period size: 20 Copynumber: 11.4 Consensus size: 20
21077 GATTTTCAAG
* ** *
21087 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
21107 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
21127 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
21147 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
21167 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
21187 AATCGCAATGCGTATTCGTA
1 AATCGCAACGCGTATCCGTA
*
21207 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
21227 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
21247 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
21267 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
21287 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
21307 AATCACAAC
1 AATCGCAAC
21316 ACTGAAATTT
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 169 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:22045 original size:24 final size:24
Alignment explanation
Indices: 22006--22052 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21996 AAATTTGGTC
22006 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
22030 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
22053 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:22244 original size:12 final size:12
Alignment explanation
Indices: 22227--22251 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22217 ATATAATCCT
22227 GAAGAAGAAAAA
1 GAAGAAGAAAAA
22239 GAAGAAGAAAAA
1 GAAGAAGAAAAA
22251 G
1 G
22252 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:24614 original size:19 final size:19
Alignment explanation
Indices: 24545--24817 Score: 269
Period size: 19 Copynumber: 15.7 Consensus size: 19
24535 GCAACGAGAG
24545 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
24564 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
24578 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
24598 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
24617 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
24631 AATCGCAATGCGGAAATG-A
1 AATCGCAATGC-GAAATGAA
24650 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
24669 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
24683 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
24702 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
24720 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
24734 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
24753 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
24771 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
24785 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
24805 AATCGCATTGCGA
1 AATCGCAATGCGA
24818 TTCTCTCGTT
Statistics
Matches: 212, Mismatches: 11, Indels: 62
0.74 0.04 0.22
Matches are distributed among these distances:
13 2 0.01
14 50 0.24
15 2 0.01
16 11 0.05
17 7 0.03
18 26 0.12
19 85 0.40
20 29 0.14
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:24724 original size:51 final size:53
Alignment explanation
Indices: 24545--24817 Score: 468
Period size: 51 Copynumber: 5.2 Consensus size: 53
24535 GCAACGAGAG
* *
24545 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
24598 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATG-A
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
24650 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
24702 AATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
24753 AATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
*
24805 AATCGCATTGCGA
1 AATCGCAATGCGA
24818 TTCTCTCGTT
Statistics
Matches: 214, Mismatches: 3, Indels: 7
0.96 0.01 0.03
Matches are distributed among these distances:
51 83 0.39
52 83 0.39
53 47 0.22
54 1 0.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:24920 original size:52 final size:53
Alignment explanation
Indices: 24807--24923 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
24797 GAAATGAAAA
24807 TCGCATTGCGATTCTCTCGTTGCGATTTTCATATCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATATCCGCATTGCGATTTTCATT
*
24860 TCGCATTGCGATTCTCTCGTTGCGATTTTCAT-TTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATATCCGCATTGCGATTTTCATT
24912 TCGCATTGCGAT
1 TCGCATTGCGAT
24924 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 31 0.49
53 32 0.51
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATATCCGCATTGCGATTTTCATT
Found at i:24931 original size:19 final size:19
Alignment explanation
Indices: 24826--24923 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
24816 GATTCTCTCG
*
24826 TTGCGATTTTCATATCCGCA
1 TTGCGATTTTCAT-TTCGCA
24846 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
24865 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
24879 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
24898 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
24917 TTGCGAT
1 TTGCGAT
24924 AGTCATTTTT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 37 0.53
20 13 0.19
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:25048 original size:14 final size:14
Alignment explanation
Indices: 25029--25067 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
25019 CATCAATTAC
25029 ACAAATCAATTTTT
1 ACAAATCAATTTTT
25043 ACAAATC-ATCTTTT
1 ACAAATCAAT-TTTT
25057 ACAAATCAATT
1 ACAAATCAATT
25068 AAACAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (14 bp):
ACAAATCAATTTTT
Found at i:26542 original size:42 final size:42
Alignment explanation
Indices: 26466--26590 Score: 101
Period size: 44 Copynumber: 2.9 Consensus size: 42
26456 GTGAATCGGG
* ** *
26466 CTCTTGAATGGTGGGA-GGGACCTCTTC-AATAATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGAATGACAGGGGC
*
26508 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACA--GGGGC
* * * * * *
26552 CTCTTTAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACAGG
26591 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.03
42 27 0.40
43 4 0.06
44 34 0.51
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACAGGGGC
Found at i:27010 original size:20 final size:19
Alignment explanation
Indices: 26985--27094 Score: 71
Period size: 19 Copynumber: 6.3 Consensus size: 19
26975 TAGTTTACTT
*
26985 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAA-TGAAAA
*
27005 TCGCAACGCGAAATGAAAA
1 TCGCAACACGAAATGAAAA
*
27024 TCGC-A-ACGACA-G--AA
1 TCGCAACACGAAATGAAAA
**
27038 TCGCAATGCGAAATGAAAA
1 TCGCAACACGAAATGAAAA
*
27057 TCGC-A-ACG--A-GAGAA
1 TCGCAACACGAAATGAAAA
*
27071 TCGCAA-GCGAAATGAAAA
1 TCGCAACACGAAATGAAAA
27089 TCGCAA
1 TCGCAA
27095 TGCGATTTTG
Statistics
Matches: 71, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
14 14 0.20
15 5 0.07
16 5 0.07
17 8 0.11
18 12 0.17
19 15 0.21
20 12 0.17
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
TCGCAACACGAAATGAAAA
Found at i:27041 original size:14 final size:14
Alignment explanation
Indices: 27022--27082 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 14
27012 GCGAAATGAA
*
27022 AATCGCAACGACAG
1 AATCGCAACGAAAG
27036 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
27053 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
27069 AATCGCAAGCGAAA
1 AATCGCAA-CGAAA
27083 TGAAAATCGC
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
14 16 0.42
15 4 0.11
16 5 0.13
17 5 0.13
19 8 0.21
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:27086 original size:32 final size:33
Alignment explanation
Indices: 27003--27094 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
26993 CGAAACTTAA
27003 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
27036 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
27069 AATCGCAA-GCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
27095 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 18 0.32
33 39 0.68
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:27130 original size:14 final size:14
Alignment explanation
Indices: 27111--27169 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
27101 TTTGGTTTCG
27111 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
27125 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
27142 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
27158 CGTTGCGATTTT
1 CGTTGCGATTTT
27170 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:27137 original size:33 final size:33
Alignment explanation
Indices: 27095--27218 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
27085 AAAATCGCAA
*
27095 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
27128 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
27161 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
27194 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
27219 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:27149 original size:19 final size:18
Alignment explanation
Indices: 27095--27186 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
27085 AAAATCGCAA
27095 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
27114 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
27128 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
27147 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
27161 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
27180 TGCGATT
1 TGCGATT
27187 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:27196 original size:14 final size:14
Alignment explanation
Indices: 27144--27200 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
27134 TTTGGTTTCG
*
27144 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
27158 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
27177 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
27191 CGTTGCGATT
1 CGTTGCGATT
27201 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:27629 original size:92 final size:93
Alignment explanation
Indices: 27316--27630 Score: 605
Period size: 93 Copynumber: 3.4 Consensus size: 93
27306 TCAGGGTATT
27316 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
27381 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
27409 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
27474 TACTATTTCACATTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
27502 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
27566 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
27594 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
27631 AAGCAATCTA
Statistics
Matches: 219, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
92 65 0.30
93 154 0.70
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:29347 original size:20 final size:20
Alignment explanation
Indices: 29316--29412 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
29306 TTTTGGTTGA
29316 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
29336 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
29356 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
29375 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
29390 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
29410 AAT
1 AAT
29413 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:29368 original size:21 final size:21
Alignment explanation
Indices: 29314--29378 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
29304 TCTTTTGGTT
29314 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
29335 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
29355 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
29376 GAA
1 GAA
29379 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:29382 original size:14 final size:14
Alignment explanation
Indices: 29363--29419 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
29353 GAGAAATGAA
29363 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
29377 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
29396 AATCGCAACGAGAG
1 AATCGCAACGAGAG
29410 AATCGCAACG
1 AATCGCAACG
29420 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:29395 original size:33 final size:33
Alignment explanation
Indices: 29314--29436 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
29304 TCTTTTGGTT
*
29314 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
29355 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
29388 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
29421 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
29437 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:29472 original size:14 final size:14
Alignment explanation
Indices: 29453--29505 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
29443 TTTGGTTTCG
29453 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
29467 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
29486 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
29500 CGTTGC
1 CGTTGC
29506 AATTTTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
16 3 0.09
17 3 0.09
19 10 0.31
ACGTcount: A:0.08, C:0.26, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:29485 original size:33 final size:33
Alignment explanation
Indices: 29437--29525 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
29427 AAAATCGCAA
**
29437 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
29470 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
* *
29503 TGCAATTTTCATTTTCTCGTTGC
1 TGCGATTTTCA-TTTCGCGTTGC
29526 AGATAGTCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 41 0.80
34 10 0.20
ACGTcount: A:0.09, C:0.22, G:0.21, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:29568 original size:21 final size:20
Alignment explanation
Indices: 29464--29569 Score: 100
Period size: 21 Copynumber: 5.5 Consensus size: 20
29454 GTTGCGATTC
29464 TCTCGTTGCGATTTTCA-TT
1 TCTCGTTGCGATTTTCATTT
*
29483 TCGCGTTGCGA--TTC----
1 TCTCGTTGCGATTTTCATTT
*
29497 TCTCGTTGCAATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
**
29517 TCTCGTTGCAGATAGTCATTT
1 TCTCGTTGC-GATTTTCATTT
*
29538 TCACGTTGCGATTTTCATTT
1 TCTCGTTGCGATTTTCATTT
29558 ATCTCGTTGCGA
1 -TCTCGTTGCGA
29570 CTCTTCTGCA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
14 9 0.13
16 3 0.04
17 3 0.04
19 10 0.14
20 18 0.26
21 26 0.38
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (20 bp):
TCTCGTTGCGATTTTCATTT
Found at i:29691 original size:32 final size:32
Alignment explanation
Indices: 29652--29720 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
29642 ACTAACTTGA
29652 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
* *
29684 AAATCGCAACGAGAGAATCGTAACGCGAAATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
29716 AAATC
1 AAATC
29721 TAAGTGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGAGAGAATAGCAACGCGAAATG
Found at i:29694 original size:18 final size:18
Alignment explanation
Indices: 29671--29720 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
29661 CGAGAGAATA
29671 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
29689 GCAA--CGAGA-G-AATC
1 GCAACGCGAAATGAAATC
*
29703 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
29721 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:30126 original size:20 final size:20
Alignment explanation
Indices: 30097--30289 Score: 230
Period size: 20 Copynumber: 9.6 Consensus size: 20
30087 CTTTAAAAAT
30097 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
30117 CGCGTAGCGATTTTAC--ATA
1 CGCGTTGCGA-TTTACGGATA
*
30136 TTGTCGTTGCGATTTACGGATA
1 -CG-CGTTGCGATTTACGGATA
*
30158 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
30178 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
30198 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
30218 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
30238 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
30258 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
30278 CGCGTTGCGATT
1 CGCGTTGCGATT
30290 CTGGAAAATC
Statistics
Matches: 150, Mismatches: 16, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
19 3 0.02
20 130 0.87
21 14 0.09
22 3 0.02
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:30545 original size:30 final size:28
Alignment explanation
Indices: 30509--30578 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
30499 ATTTTAACCC
30509 ATTATATTAAAGTTATGTGG-TTGTAAGAGT
1 ATTATATTAAAG-T-TG-GGATTGTAAGAGT
30539 ATTATATTAAAG-TGGGATTGTAAGAGT
1 ATTATATTAAAGTTGGGATTGTAAGAGT
30566 ATTATATTAAAGT
1 ATTATATTAAAGT
30579 ATATAAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 2 0.05
27 24 0.63
30 12 0.32
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.41
Consensus pattern (28 bp):
ATTATATTAAAGTTGGGATTGTAAGAGT
Found at i:30853 original size:13 final size:14
Alignment explanation
Indices: 30835--30866 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30825 TATTTATAAA
30835 AAAATAATATT-TT
1 AAAATAATATTATT
30848 AAAAT-ATATTATT
1 AAAATAATATTATT
30861 AAAATA
1 AAAATA
30867 CAATATACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATAATATTATT
Found at i:31590 original size:56 final size:56
Alignment explanation
Indices: 31521--31634 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
31511 CAATTTCTTC
* * *
31521 TTGTAAAATCAAATATGTAACCATCATCATGGTAGATATCACCATCCTCTACCTCT
1 TTGTAAAAACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCT
*
31577 TTGTAAAAACAAATATGTAACCACCATTATGGTAGATATCACCATCCTCTACCCCT
1 TTGTAAAAACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCT
31633 TT
1 TT
31635 CATTGCCCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (56 bp):
TTGTAAAAACAAATATGTAACCACCATCATGGTAGATATCACCATCCTCTACCCCT
Found at i:32381 original size:30 final size:27
Alignment explanation
Indices: 32318--32387 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 27
32308 ATATTTATAT
*
32318 ACTTTAATATAATACTCTTACAATCCC
1 ACTTTAATATAATACTCTTACAACCCC
32345 ACTTTAATATAATACTCTTACAACCACAC
1 ACTTTAATATAATACTCTTACAACC-C-C
32374 AACTTTAATATAAT
1 -ACTTTAATATAAT
32388 GGGTTAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 24 0.62
28 1 0.03
29 1 0.03
30 13 0.33
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (27 bp):
ACTTTAATATAATACTCTTACAACCCC
Found at i:32654 original size:32 final size:31
Alignment explanation
Indices: 32589--32667 Score: 108
Period size: 32 Copynumber: 2.6 Consensus size: 31
32579 ACCTTCAACA
*
32589 GACTGCATGGCGACC--TACTTCTTCGCCCC
1 GACTGCATGGCGACCAATACTGCTTCGCCCC
*
32618 GACTGCATGGCGACCAATACCTGCTTTGCCCC
1 GACTGCATGGCGACCAATA-CTGCTTCGCCCC
*
32650 GACTGCATGACGACCAAT
1 GACTGCATGGCGACCAAT
32668 CTCACCCCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.34
31 2 0.05
32 27 0.61
ACGTcount: A:0.20, C:0.37, G:0.22, T:0.22
Consensus pattern (31 bp):
GACTGCATGGCGACCAATACTGCTTCGCCCC
Found at i:33520 original size:30 final size:30
Alignment explanation
Indices: 33478--33539 Score: 74
Period size: 32 Copynumber: 2.1 Consensus size: 30
33468 TTAAATTTAA
*
33478 AAAAAAAGTTTGA-AAAT-ATTGAGATTTT
1 AAAAAAAGTTTGATAAATAATTGAGAATTT
*
33506 AAAAAAAGCTTTTGATTAATAATTGAGAATTT
1 AAAAAAAG--TTTGATAAATAATTGAGAATTT
33538 AA
1 AA
33540 TAAGAGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 8 0.29
30 5 0.18
31 3 0.11
32 12 0.43
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (30 bp):
AAAAAAAGTTTGATAAATAATTGAGAATTT
Found at i:35145 original size:21 final size:21
Alignment explanation
Indices: 35121--35181 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
35111 AATTTTGAAA
35121 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
35142 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
35156 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
35177 AAATG
1 AAATG
35182 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:35227 original size:36 final size:36
Alignment explanation
Indices: 35114--35232 Score: 170
Period size: 35 Copynumber: 3.3 Consensus size: 36
35104 GGTAACCAAT
35114 TTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
1 TTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
35151 TTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTTC
1 TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
* * *
35186 TTTGAAAAATAGTTTTTCAAAGTTTAGTAGATGTTT-
1 TTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTTC
*
35222 GTTGAAAAATG
1 TTTGAAAAATG
35233 ATAATGGGAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
35 36 0.47
36 14 0.18
37 26 0.34
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (36 bp):
TTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
Found at i:35662 original size:16 final size:17
Alignment explanation
Indices: 35641--35672 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
35631 TTACTATTCA
35641 CGTGAATAGT-AAATTT
1 CGTGAATAGTGAAATTT
35657 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
35673 CGGTCGGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:39759 original size:21 final size:20
Alignment explanation
Indices: 39739--39798 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
39729 TTGAAAAAAT
39739 TGTTTTCAAAGTTTGGTAAA
1 TGTTTTCAAAGTTTGGTAAA
*
39759 TG-TTTC----TTT-GAAAA
1 TGTTTTCAAAGTTTGGTAAA
39773 TGGTTTTCAAAGTTTGGTAAA
1 T-GTTTTCAAAGTTTGGTAAA
39794 TGTTT
1 TGTTT
39799 CTTTGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 9 0.29
21 5 0.16
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.48
Consensus pattern (20 bp):
TGTTTTCAAAGTTTGGTAAA
Found at i:39826 original size:37 final size:37
Alignment explanation
Indices: 39727--39845 Score: 165
Period size: 35 Copynumber: 3.3 Consensus size: 37
39717 TGGTAACCAA
*
39727 CTTTGAAAAA-ATTGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGT-TTTTCAAAGTTTGGTAAATGTTT
*
39764 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
39799 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
*
39836 -GTTGAAAAAT
1 CTTTGAAAAAT
39846 GATAATGGGA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
35 28 0.38
36 18 0.24
37 28 0.38
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (37 bp):
CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:40972 original size:22 final size:22
Alignment explanation
Indices: 40944--40992 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
40934 AGTCAGACCG
* *
40944 CAACCTCGCTCCGATTGTAACC
1 CAACCTCGCTCCGATCGCAACC
40966 CAACCTCGCTCCGATCGCAACC
1 CAACCTCGCTCCGATCGCAACC
40988 CAACC
1 CAACC
40993 GATCACTCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.47, G:0.12, T:0.16
Consensus pattern (22 bp):
CAACCTCGCTCCGATCGCAACC
Found at i:51282 original size:9 final size:9
Alignment explanation
Indices: 51268--51292 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
51258 TTTTAAGAAA
51268 ATATATTAT
1 ATATATTAT
51277 ATATATTAT
1 ATATATTAT
51286 ATATATT
1 ATATATT
51293 TATTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATATTAT
Found at i:51314 original size:23 final size:23
Alignment explanation
Indices: 51288--51331 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
51278 TATATTATAT
**
51288 ATATTTATTTTTTTATAAATAAG
1 ATATTTATTTACTTATAAATAAG
51311 ATATTTATTTACTTATAAATA
1 ATATTTATTTACTTATAAATA
51332 TCATAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATTTATTTACTTATAAATAAG
Found at i:53134 original size:3 final size:3
Alignment explanation
Indices: 53128--53172 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
53118 GTATTTTTTT
*
53128 TAA TAA TAA TAA TAA TAG T-A TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
53173 TTTAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:53626 original size:115 final size:115
Alignment explanation
Indices: 53424--53703 Score: 386
Period size: 115 Copynumber: 2.4 Consensus size: 115
53414 TTAAATCTCA
* *
53424 TTTGAAAACATCATGTACTGTAGGTCTTAAGGATGGCCCTGAGGTC-TATCATCTTGCACTGTAG
1 TTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
* * * *
53488 GTCTTACAGACGACCCTGGGGCTTTAAAATATCAAAAAGCTCCCAAAGGC-T
66 GTCTTACAGACAACCCTGAGGC-TT-AAATATAAAAAAACTCCCAAAGGCGT
* *
53539 TTTGAAAACATCCTGCACTGTAGGTTTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTA-
1 TTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
* * *
53603 GTCTTACAGATAACCCTGAGGCTTAAATATAAAAAAACTTCCGAAGGCGT
66 GTCTTACAGACAACCCTGAGGCTTAAATATAAAAAAACTCCCAAAGGCGT
* * *
53653 TTAGAAAACATCATGCACTGTAGGTCTTATGAATGGCACTGTAGGTCTTAT
1 TTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTG-AGGTCTTAT
53704 GGATGGCCCC
Statistics
Matches: 146, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
113 20 0.14
114 39 0.27
115 70 0.48
116 17 0.12
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (115 bp):
TTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
GTCTTACAGACAACCCTGAGGCTTAAATATAAAAAAACTCCCAAAGGCGT
Found at i:53693 original size:21 final size:21
Alignment explanation
Indices: 53667--53744 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
53657 AAAACATCAT
53667 GCACTGTAGGTCTTATGAATG
1 GCACTGTAGGTCTTATGAATG
*
53688 GCACTGTAGGTCTTATGGATG
1 GCACTGTAGGTCTTATGAATG
* * * * *
53709 GCCCCG-AGGTCTTATCATCTT
1 GCACTGTAGGTCTTATGA-ATG
53730 GCACTGTAGGTCTTA
1 GCACTGTAGGTCTTA
53745 CAGTGACCCT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 9 0.20
21 29 0.63
22 8 0.17
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (21 bp):
GCACTGTAGGTCTTATGAATG
Found at i:53861 original size:74 final size:73
Alignment explanation
Indices: 53731--53894 Score: 240
Period size: 74 Copynumber: 2.2 Consensus size: 73
53721 TATCATCTTG
* *
53731 CACTGTAGGTCTTACAGTGACCCTGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTAGAAA
1 CACTGTAGGTCTTACAGTGACACGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTAGAAA
*
53796 ACATCCTA
66 ACATCATA
** *
53804 CACTGTAGGTCTTATGGATGACACGGAGGCTTTGAAATATCAAAAAGCT-CCGAAGGCTTTTTGA
1 CACTGTAGGTCTTACAG-TGACACGGAGGCTTT-AAATATCAAAAAGCTCCCGAAGGCTTTTAGA
*
53868 AAACATCATG
64 AAACATCATA
53878 CACTGTAGGTCTTACAG
1 CACTGTAGGTCTTACAG
53895 ATGTGGGAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
73 15 0.19
74 50 0.62
75 15 0.19
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (73 bp):
CACTGTAGGTCTTACAGTGACACGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTAGAAA
ACATCATA
Found at i:55943 original size:75 final size:72
Alignment explanation
Indices: 55836--55996 Score: 178
Period size: 75 Copynumber: 2.2 Consensus size: 72
55826 ATGGTTTCGT
* * * *
55836 ATGCCCCAACATATGCTGATACAAGTTCAAAATACATCAACATTTCTGATTCTTATTGAAAGGGG
1 ATGCCCCAACAT-TGCTAATACAAGTTCAAAATACATCAACATTCCTGATTATGATTGAAAGGGG
*
55901 CTTTCAGC
65 CTTTCAAC
* *** * *
55909 ATGCCCCAGCATTGGCTAATACAAATGTTCAAAATGTGTCAATATTCCTGATTATGATTGAAATG
1 ATGCCCCAACATT-GCTAATAC-AA-GTTCAAAATACATCAACATTCCTGATTATGATTGAAAGG
55974 GGCTTTCAAC
63 GGCTTTCAAC
*
55984 ATGCCCCATCATT
1 ATGCCCCAACATT
55997 TGCTTCTTGT
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
72 1 0.01
73 18 0.25
74 2 0.03
75 52 0.71
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (72 bp):
ATGCCCCAACATTGCTAATACAAGTTCAAAATACATCAACATTCCTGATTATGATTGAAAGGGGC
TTTCAAC
Found at i:59142 original size:7 final size:7
Alignment explanation
Indices: 59132--59233 Score: 163
Period size: 7 Copynumber: 14.7 Consensus size: 7
59122 TTCATTTTTT
59132 TTTTTCC
1 TTTTTCC
59139 -TTTTCC
1 TTTTTCC
*
59145 TTTTT-T
1 TTTTTCC
59151 TTTTTCC
1 TTTTTCC
59158 TTTTTCC
1 TTTTTCC
59165 TTTTTCC
1 TTTTTCC
59172 TTTTTTCC
1 -TTTTTCC
59180 TTTTTCC
1 TTTTTCC
59187 TTTTTCC
1 TTTTTCC
59194 TTTTTCC
1 TTTTTCC
59201 TTTTTCC
1 TTTTTCC
59208 TTTTTCC
1 TTTTTCC
59215 TTTTTCC
1 TTTTTCC
*
59222 TTTTCCC
1 TTTTTCC
59229 TTTTT
1 TTTTT
59234 TTATTTATGA
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
6 11 0.12
7 70 0.80
8 7 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCC
Found at i:64852 original size:2 final size:2
Alignment explanation
Indices: 64834--64869 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
64824 TTTTAAGAAA
*
64834 AT AT A- AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
64870 AATAAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:65037 original size:140 final size:145
Alignment explanation
Indices: 64831--65109 Score: 419
Period size: 140 Copynumber: 2.0 Consensus size: 145
64821 TAATTTTAAG
* *
64831 AAAATATAATATAAATATATATATATATATATATATATAAATAAGATATTTATTTACTTAGAAAT
1 AAAATATAATATAAATATAAATATATATATATATATAAAAATAAGATATTTATTTACTTAGAAAT
* ***
64896 ATCAGAAAATGACTTTTAGGTGCTTTAAGACAGTTCATTTCTTAATATTAAAAAATAAATAAATA
66 ATCAGAAAATGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATA
64961 -TAAAATATTTCTGT
131 TTAAAATATTTCTGT
* *
64975 AAAA-ATAAT-TAAA-ATAAATATATATA-ATTTATAAAAAT-AGAATATTTATTTATTTA-AGA
1 AAAATATAATATAAATATAAATATATATATATATATAAAAATAAG-ATATTTATTTACTTAGA-A
65034 ATATCAGAAAATGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAA
64 ATATCAGAAAATGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAA
65099 TATTAAAATAT
129 TATTAAAATAT
65110 GATTATTTTT
Statistics
Matches: 124, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
139 3 0.02
140 88 0.71
141 20 0.16
142 4 0.03
143 5 0.04
144 4 0.03
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (145 bp):
AAAATATAATATAAATATAAATATATATATATATATAAAAATAAGATATTTATTTACTTAGAAAT
ATCAGAAAATGACTTCTAGGTGCTTTAAGACAACCCATTTCTTAATATTAAAAAATAAATAAATA
TTAAAATATTTCTGT
Found at i:65311 original size:11 final size:11
Alignment explanation
Indices: 65295--65359 Score: 62
Period size: 12 Copynumber: 5.6 Consensus size: 11
65285 ATATGACTAC
65295 AATAATAATAA
1 AATAATAATAA
65306 AATAATAATGAA
1 AATAATAAT-AA
*
65318 AGTAATAATTTAA
1 AATAATAA--TAA
65331 AAT-AT-ATCAA
1 AATAATAAT-AA
65341 AAGTAATAATAA
1 AA-TAATAATAA
65353 AATAATA
1 AATAATA
65360 TTGCAAATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
9 1 0.02
10 4 0.09
11 16 0.36
12 17 0.38
13 6 0.13
14 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (11 bp):
AATAATAATAA
Found at i:66682 original size:3 final size:3
Alignment explanation
Indices: 66676--66708 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
66666 TGTATTTTTT
66676 TAA TAA TAA TAA TAA TAA TATA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA
66709 TGAAAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:68243 original size:25 final size:25
Alignment explanation
Indices: 68215--68264 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
68205 ATTTTGATGA
*
68215 ATCATT-ATGCCAACTAATGCACTTT
1 ATCATTGATGCCAA-TAATACACTTT
*
68240 ATCATTGCTGCCAATAATACACTTT
1 ATCATTGATGCCAATAATACACTTT
68265 CGGTGCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (25 bp):
ATCATTGATGCCAATAATACACTTT
Found at i:71926 original size:15 final size:15
Alignment explanation
Indices: 71908--71951 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
71898 TCTAATATAT
71908 GCTATGTGAATAAAA
1 GCTATGTGAATAAAA
71923 GCTATGTGAAATGAAAA
1 GCTATGTG-AAT-AAAA
*
71940 -CTATGAGAATAA
1 GCTATGTGAATAA
71952 GCTCTATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 9 0.35
17 4 0.15
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (15 bp):
GCTATGTGAATAAAA
Found at i:78059 original size:15 final size:14
Alignment explanation
Indices: 78049--78102 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
78039 CTAATATATG
78049 CTATGTGAATAAAT
1 CTATGTGAATAAAT
*
78063 TTATGTGAATGAAAT
1 CTATGTGAAT-AAAT
* *
78078 ACTATGAGAATAAGCT
1 -CTATGTGAATAA-AT
78094 CTATGTGAA
1 CTATGTGAA
78103 AATGTGATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 9 0.28
15 14 0.44
16 9 0.28
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (14 bp):
CTATGTGAATAAAT
Found at i:83862 original size:16 final size:16
Alignment explanation
Indices: 83841--83871 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
83831 TAATATTGAA
83841 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
83857 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
83872 AAAAATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:84487 original size:7 final size:7
Alignment explanation
Indices: 84477--84501 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
84467 GTACCCGAAT
84477 AGTGAAC
1 AGTGAAC
84484 AGTGAAC
1 AGTGAAC
84491 AGTGAAC
1 AGTGAAC
84498 AGTG
1 AGTG
84502 GGGGAATCGA
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:0.40, C:0.12, G:0.32, T:0.16
Consensus pattern (7 bp):
AGTGAAC
Found at i:89137 original size:6 final size:6
Alignment explanation
Indices: 89121--89226 Score: 51
Period size: 6 Copynumber: 17.3 Consensus size: 6
89111 TCTCTCATTT
* * * *
89121 TTTTCTC TTTTTC -TTTTC TTTCTC GTTTTCATT TTTTTC TTCTTC GTTTTC
1 TTTT-TC TTTTTC TTTTTC TTTTTC -TTTT--TC TTTTTC TTTTTC TTTTTC
* *
89172 ATTTTC TTTTTC TATATTT- TTTTTC TTCTAT- TTTTTC -TTTT- TTTTTC
1 TTTTTC TTTTTC T-T-TTTC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC
*
89219 TTCTTC TT
1 TTTTTC TT
89227 ATAATATATA
Statistics
Matches: 76, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
5 18 0.24
6 39 0.51
7 11 0.14
8 7 0.09
9 1 0.01
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:89142 original size:17 final size:15
Alignment explanation
Indices: 89118--89217 Score: 69
Period size: 17 Copynumber: 6.3 Consensus size: 15
89108 TCATCTCTCA
89118 TTTTTTTCTCTTTTTC
1 TTTTTTT-TCTTTTTC
*
89134 TTTTCTTTCTCGTTTTC
1 TTTT-TTT-TCTTTTTC
* *
89151 ATTTTTTTCTTCTTC
1 TTTTTTTTCTTTTTC
89166 GTTTTCATTTTCTTTTTC
1 -TTTT--TTTTCTTTTTC
*
89184 TATATTTTTT-TTCTTC
1 T-T-TTTTTTCTTTTTC
*
89200 TATTTTTTCTTTTT-
1 TTTTTTTTCTTTTTC
89214 TTTT
1 TTTT
89218 CTTCTTCTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
14 9 0.13
15 10 0.15
16 16 0.24
17 19 0.28
18 11 0.16
19 2 0.03
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:89163 original size:20 final size:22
Alignment explanation
Indices: 89134--89184 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
89124 TCTCTTTTTC
89134 TTTTCTTTC-TCGTTTTCATTT
1 TTTTCTTTCTTCGTTTTCATTT
89155 TTTTC-TTCTTCGTTTTCATTT
1 TTTTCTTTCTTCGTTTTCATTT
*
89176 TCTT-TTTCT
1 TTTTCTTTCT
89185 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTCTTTCTTCGTTTTCATTT
Found at i:89200 original size:22 final size:21
Alignment explanation
Indices: 89175--89223 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
89165 CGTTTTCATT
89175 TTCTTTTTCTATATTTTTTTTC
1 TTCTTTTTCTAT-TTTTTTTTC
* *
89197 TTCTATTTTTTCTTTTTTTTTC
1 TTCT-TTTTCTATTTTTTTTTC
89219 TTCTT
1 TTCTT
89224 CTTATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.71
23 6 0.25
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (21 bp):
TTCTTTTTCTATTTTTTTTTC
Found at i:89205 original size:12 final size:11
Alignment explanation
Indices: 89118--89223 Score: 60
Period size: 12 Copynumber: 9.2 Consensus size: 11
89108 TCATCTCTCA
89118 TTTTTTTC-TC
1 TTTTTTTCTTC
89128 TTTTTCTT-TTC
1 TTTTT-TTCTTC
*
89139 TTTCTCGTT-TTC
1 TTT-T-TTTCTTC
89151 ATTTTTTTCTTC
1 -TTTTTTTCTTC
*
89163 TTCGTTTTCATT-
1 TT-TTTTTC-TTC
*
89175 TTCTTTTTCTATAT
1 TT-TTTTTCT-T-C
89189 TTTTTTTCTTC
1 TTTTTTTCTTC
89200 TATTTTTTCTT-
1 T-TTTTTTCTTC
89211 TTTTTTTCTTC
1 TTTTTTTCTTC
89222 TT
1 TT
89224 CTTATAATAT
Statistics
Matches: 78, Mismatches: 5, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
10 14 0.18
11 16 0.21
12 34 0.44
13 12 0.15
14 2 0.03
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:89206 original size:25 final size:25
Alignment explanation
Indices: 89178--89225 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
89168 TTTCATTTTC
89178 TTTTTCTATATTTTTT-TTCTTCTAT
1 TTTTTCT-TATTTTTTCTTCTTCTAT
*
89203 TTTTTCTTTTTTTTTCTTCTTCT
1 TTTTTCTTATTTTTTCTTCTTCT
89226 TATAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTTCTTATTTTTTCTTCTTCTAT
Found at i:90337 original size:6 final size:6
Alignment explanation
Indices: 90324--90360 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
90314 ACCCTTGTAT
* *
90324 CATGAC CGTGAC CGTGAC CATGAC CATGAC CATGAC C
1 CATGAC CATGAC CATGAC CATGAC CATGAC CATGAC C
90361 TATGGGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.27, C:0.35, G:0.22, T:0.16
Consensus pattern (6 bp):
CATGAC
Found at i:91341 original size:7 final size:7
Alignment explanation
Indices: 91331--91355 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
91321 GTACCCGAAT
91331 AGTGAAC
1 AGTGAAC
91338 AGTGAAC
1 AGTGAAC
91345 AGTGAAC
1 AGTGAAC
91352 AGTG
1 AGTG
91356 GGGGAATCGA
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:0.40, C:0.12, G:0.32, T:0.16
Consensus pattern (7 bp):
AGTGAAC
Found at i:91953 original size:48 final size:50
Alignment explanation
Indices: 91828--91959 Score: 141
Period size: 48 Copynumber: 2.7 Consensus size: 50
91818 ATATAAATTT
* *
91828 CTTACC-TTTTATCCCATAAGCTCATAAGCTTA---TTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTTTACCAAAATA
* * *
91874 CTTACCATTTAAAATTCCATAAGCTCGTAAGCTTATTTTTTTTCCCAATATA
1 CTTACCATTT--AATTCCATAAGCTCATAAGCTTATTTTTTTTACCAAAATA
* *
91926 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
91960 GCATGGTTAC
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
46 6 0.08
47 3 0.04
48 23 0.32
49 20 0.28
51 2 0.03
52 18 0.25
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (50 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTTTACCAAAATA
Found at i:94438 original size:23 final size:22
Alignment explanation
Indices: 94412--94454 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
94402 TATAAAAAAT
*
94412 TATTTTTTATTAAATATTTTTTG
1 TATTTTGTATTAAAT-TTTTTTG
*
94435 TATTTTGTATTTAATTTTTT
1 TATTTTGTATTAAATTTTTT
94455 AAATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (22 bp):
TATTTTGTATTAAATTTTTTTG
Found at i:95521 original size:27 final size:27
Alignment explanation
Indices: 95483--95549 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
95473 AGCAAGGCTC
95483 ACTGAATATTTATAATAAATTAACAAG
1 ACTGAATATTTATAATAAATTAACAAG
95510 ACTGAATATTTATAATAAATTAACAAG
1 ACTGAATATTTATAATAAATTAACAAG
95537 ACTGAATATTTAT
1 ACTGAATATTTAT
95550 GGACATGGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (27 bp):
ACTGAATATTTATAATAAATTAACAAG
Found at i:95675 original size:17 final size:17
Alignment explanation
Indices: 95618--95680 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
95608 GTTTATGAGG
* *
95618 GAATTGAAATCTGTGAA
1 GAATTGGAATCTGTCAA
* * *
95635 GGAATTAGAACCTGTCAG
1 -GAATTGGAATCTGTCAA
95653 GAATTGGAATCTGTCAA
1 GAATTGGAATCTGTCAA
95670 GAATTGGAATC
1 GAATTGGAATC
95681 CAATTTCATA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
17 25 0.68
18 12 0.32
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (17 bp):
GAATTGGAATCTGTCAA
Found at i:101463 original size:24 final size:23
Alignment explanation
Indices: 101376--101461 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
101366 ACATATTATA
*
101376 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* * * *
101399 TGGTACTTCAGTTCATTTCTACG
1 TGGCACTTCGGTGCAATTCTACG
*
101422 TGGTC-CTCCGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-C-AATTCTACG
101446 TGGCACTTCGGTGCAA
1 TGGCACTTCGGTGCAA
101462 ATGTATACGA
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
23 29 0.62
24 17 0.36
25 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:104428 original size:25 final size:24
Alignment explanation
Indices: 104400--104446 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
104390 AGTTTATTTG
104400 ATATAATATTAATAA-TTTATAAAAA
1 ATATAATA-TAA-AAGTTTATAAAAA
*
104425 ATATATTATAAAAGTTTATAAA
1 ATATAATATAAAAGTTTATAAA
104447 TATTTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 11 0.55
25 7 0.35
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATAATATAAAAGTTTATAAAAA
Found at i:113041 original size:30 final size:31
Alignment explanation
Indices: 113007--113064 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
112997 AACATAGTAT
* *
113007 ATGATCA-TTTTATTTTTTTTTAATTAATAA
1 ATGATCACTTTCATTTTTATTTAATTAATAA
*
113037 ATGATCACTTTCATTTTTATTTAGTTAA
1 ATGATCACTTTCATTTTTATTTAATTAA
113065 GGTGTTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.31, C:0.07, G:0.05, T:0.57
Consensus pattern (31 bp):
ATGATCACTTTCATTTTTATTTAATTAATAA
Found at i:131309 original size:198 final size:199
Alignment explanation
Indices: 130955--131456 Score: 722
Period size: 198 Copynumber: 2.5 Consensus size: 199
130945 TTATTTTCTC
* * * *
130955 AATTTACAATATAAGAGGTAAAAATATACCGATTTAATGAAAAATGTGTAAACATAAAGTTTCGA
1 AATTTACAATGTAAGAGGTAAAAATATACCAATTTAATGAAAAATATGTAAACATAAAGTTTAGA
* * * *
131020 TACTTTTTGTATATGTATCGATACTTTTGGTCTAATATGCTTCCCAAATGAGATGCACGCAGAAA
66 TACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATGCACACAGAAA
* * ** *
131085 GTATTGATACACGTATCGAAAGTATCGATTCTTATAACTTC-AAAACAATTACTTTAAAGTAATA
131 GTATCGACACACGTATAAAAAGTATCGATTCTTACAACTTCGAAAACAATTACTTTAAAGTAATA
131149 GGTA
196 GGTA
* * *
131153 AATTTATAATGTAAGCGGTAAAAATATACCAATTTAGTGACAAAATATGTAAACATAAAGTTTAG
1 AATTTACAATGTAAGAGGTAAAAATATACCAATTTAATGA-AAAATATGTAAACATAAAGTTTAG
* *
131218 ATAC-TTTTGTATATCTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATGCATACAGAA
65 ATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATGCACACAGAA
* *
131282 AGTATCGACACACGTATAAAAAGTATCGATTCTTACAACTTCGAAACCGATTACTTTAAAGTAAT
130 AGTATCGACACACGTATAAAAAGTATCGATTCTTACAACTTCGAAAACAATTACTTTAAAGTAAT
131347 AGGTA
195 AGGTA
* * * * *
131352 AATTTACAATGTAAGTGGTAAAAATATATCAGTTTAATGAAAAAATACGTAAACATAAATTTTCA
1 AATTTACAATGTAAGAGGTAAAAATATACCAATTTAATG-AAAAATATGTAAACATAAAGTTT-A
*
131417 -ATACTTTTTGTATATGTATCGATACTTTCGGTCCAGTATG
64 GATACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATG
131457 AAAACACCGA
Statistics
Matches: 270, Mismatches: 29, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
198 126 0.47
199 109 0.40
200 35 0.13
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (199 bp):
AATTTACAATGTAAGAGGTAAAAATATACCAATTTAATGAAAAATATGTAAACATAAAGTTTAGA
TACTTTTTGTATATGTATCGATACTTTTGGTCCAGTATGCTTCCCAAACGAGATGCACACAGAAA
GTATCGACACACGTATAAAAAGTATCGATTCTTACAACTTCGAAAACAATTACTTTAAAGTAATA
GGTA
Found at i:132649 original size:20 final size:20
Alignment explanation
Indices: 132621--132660 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
132611 TATCGATACC
*
132621 GAGGTAGGTATCAATACTAT
1 GAGGAAGGTATCAATACTAT
*
132641 GAGGAAGGTATCGATACTAT
1 GAGGAAGGTATCAATACTAT
132661 TGATTACTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (20 bp):
GAGGAAGGTATCAATACTAT
Found at i:132706 original size:19 final size:22
Alignment explanation
Indices: 132682--132729 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
132672 TGTAGAAATG
*
132682 GTATCGATATCGTA-T-TAG-A
1 GTATCGATACCGTAGTATAGAA
*
132701 GTATCGGTACCGTAGTATAGAA
1 GTATCGATACCGTAGTATAGAA
132723 GTATCGA
1 GTATCGA
132730 CACTAAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.52
20 1 0.04
21 3 0.13
22 7 0.30
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (22 bp):
GTATCGATACCGTAGTATAGAA
Found at i:133238 original size:55 final size:55
Alignment explanation
Indices: 133175--133500 Score: 537
Period size: 55 Copynumber: 5.9 Consensus size: 55
133165 TGGCACTATT
133175 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
* *
133230 TGTAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTG
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
* * *
133285 TACAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTTTGTG
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
* *
133340 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTTTGTG
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
*
133395 TGCAAAACTAAGAAATTCATAATAAG-TTATGAATTTTCGTATGGGCACTTTGTG
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
* * * *
133449 TGTAAATCTAAGAAATTAATAATAAGTTTATAAATTTCCGTATGGGCACTTT
1 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
133501 ATTAAACGAT
Statistics
Matches: 256, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
54 50 0.20
55 206 0.80
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37
Consensus pattern (55 bp):
TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTG
Found at i:138765 original size:94 final size:94
Alignment explanation
Indices: 138594--138765 Score: 211
Period size: 94 Copynumber: 1.8 Consensus size: 94
138584 TGAGGAATGA
* * * * ** *
138594 ATCGATACCATTGATTATAGAATGCAGAAATAGTATCGATATTGTATTGAGTATCGGTACCATAG
1 ATCGATACCATGGATTACAGAATGCAGAAATAGTATCGATACTGAAGGGAGTATCGGTACCATAA
138659 TATAAAAGTATCGGTACTAAGAGATAGAT
66 TATAAAAGTATCGGTACTAAGAGATAGAT
* * * *
138688 ATCGATACCATGGA-TCCAGAATGTAGAAATAGTATCGATACTGAAAGGGAGTATCGGTATCTTA
1 ATCGATACCATGGATTACAGAATGCAGAAATAGTATCGATACTG-AAGGGAGTATCGGTACCATA
* *
138752 ATATAGAATTATCG
65 ATATAAAAGTATCG
138766 ATACCATGGT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
93 25 0.39
94 39 0.61
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (94 bp):
ATCGATACCATGGATTACAGAATGCAGAAATAGTATCGATACTGAAGGGAGTATCGGTACCATAA
TATAAAAGTATCGGTACTAAGAGATAGAT
Found at i:139180 original size:55 final size:55
Alignment explanation
Indices: 139109--139482 Score: 590
Period size: 55 Copynumber: 6.8 Consensus size: 55
139099 TATCGAATGA
* * * *
139109 CACTATGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCTGTATGGA
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
139164 CTCTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* *
139219 AACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
** **
139274 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAG-TTACAAATTTCTATATGGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* *
139328 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAGTTTCCATATGGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* *
139383 CACTTTGTATGCAAAACTAAGAAATTCATAATAAGTATATGAATTTCCGTAT-GG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
139437 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
139483 TCATATTGGT
Statistics
Matches: 293, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
54 94 0.32
55 199 0.68
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (55 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
Found at i:139390 original size:164 final size:163
Alignment explanation
Indices: 139109--139473 Score: 595
Period size: 164 Copynumber: 2.2 Consensus size: 163
139099 TATCGAATGA
* ** * *
139109 CACTATGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCTGTATGGACTCTTTGTGT
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAG-TTACAAATTTCTATATGGACACTTTGTGT
* *
139174 GCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTTTGTGTGCAAAACTAA
65 GCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGAACTTTGTATGCAAAACTAA
* *
139239 GAAATTCATAATAAGTTTATGAATTTTCGTATGGG
130 GAAATTCATAATAAGTATATGAATTTCCGTAT-GG
* *
139274 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTACAAATTTCTATATGGGCACTTTGTGTG
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTACAAATTTCTATATGGACACTTTGTGTG
* *
139339 CAAAACTAAGAAATTCATAATAAGTTTATGAGTTTCCATATGGGCACTTTGTATGCAAAACTAAG
66 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGAACTTTGTATGCAAAACTAAG
139404 AAATTCATAATAAGTATATGAATTTCCGTATGG
131 AAATTCATAATAAGTATATGAATTTCCGTATGG
139437 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTT
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTT
139474 TATGAATTTT
Statistics
Matches: 186, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
163 38 0.20
164 115 0.62
165 33 0.18
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (163 bp):
CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTACAAATTTCTATATGGACACTTTGTGTG
CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCATATGGGAACTTTGTATGCAAAACTAAG
AAATTCATAATAAGTATATGAATTTCCGTATGG
Found at i:139505 original size:109 final size:109
Alignment explanation
Indices: 139109--139488 Score: 584
Period size: 109 Copynumber: 3.5 Consensus size: 109
139099 TATCGAATGA
* * * *
139109 CACTATGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAA-TTTCTGTATGGACTCTTTGTG
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTC-ATATGGGCACTTTGTG
139173 TGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
65 TGCAAAACTAAGAAATTCATAATAAG-TTATGAATTTCCGTATGGG
* * *
139219 AACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGT
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTTTGTGT
** **
139284 GCAAAACTAAGAAATTCATAATAAGTTACAAATTTCTATATGGG
66 GCAAAACTAAGAAATTCATAATAAGTTATGAATTTCCGTATGGG
* * * *
139328 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAGTTTCCATATGGGCACTTTGTAT
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTTTGTGT
139393 GCAAAACTAAGAAATTCATAATAAGTATATGAATTTCCGTAT-GG
66 GCAAAACTAAGAAATTCATAATAAGT-TATGAATTTCCGTATGGG
139437 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATAT
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATAT
139489 TGGTAGTGGG
Statistics
Matches: 247, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
109 152 0.62
110 91 0.37
111 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (109 bp):
CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTTTGTGT
GCAAAACTAAGAAATTCATAATAAGTTATGAATTTCCGTATGGG
Found at i:140142 original size:18 final size:18
Alignment explanation
Indices: 140119--140160 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
140109 GGCGCAGTTA
140119 TTCTCAACCAAAACCTTC
1 TTCTCAACCAAAACCTTC
* *
140137 TTCTCAACCAAGATCTTC
1 TTCTCAACCAAAACCTTC
140155 TTCTCA
1 TTCTCA
140161 TGTAAGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.36, G:0.02, T:0.33
Consensus pattern (18 bp):
TTCTCAACCAAAACCTTC
Found at i:142356 original size:15 final size:15
Alignment explanation
Indices: 142336--142365 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
142326 AGACTATTAG
142336 AACATTGTTATGTAT
1 AACATTGTTATGTAT
*
142351 AACATTGTTTTGTAT
1 AACATTGTTATGTAT
142366 GTATGTTTGA
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:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (15 bp):
AACATTGTTATGTAT
Found at i:142692 original size:6 final size:6
Alignment explanation
Indices: 142681--142780 Score: 94
Period size: 6 Copynumber: 16.7 Consensus size: 6
142671 TTTATGCAAT
* * * * *
142681 TTTCAA TTTCAA TTTGAGA -TTGAA TTTCAA TTTCAA TTTTAA TTTGAG
1 TTTCAA TTTCAA TTTCA-A TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
* * * * *
142729 TTTGAA TTTCAA TTTCAA TTTTAA TTTGAG TTTAAA TTTCAA TTTCAA
1 TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
142777 TTTC
1 TTTC
142781 GGCTCCACTA
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
5 1 0.01
6 77 0.97
7 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (6 bp):
TTTCAA
Found at i:142716 original size:30 final size:30
Alignment explanation
Indices: 142681--142780 Score: 164
Period size: 30 Copynumber: 3.3 Consensus size: 30
142671 TTTATGCAAT
*
142681 TTTCAATTTCAATTTGAGATTGAATTTCAA
1 TTTCAATTTCAATTTGAGTTTGAATTTCAA
*
142711 TTTCAATTTTAATTTGAGTTTGAATTTCAA
1 TTTCAATTTCAATTTGAGTTTGAATTTCAA
* *
142741 TTTCAATTTTAATTTGAGTTTAAATTTCAA
1 TTTCAATTTCAATTTGAGTTTGAATTTCAA
142771 TTTCAATTTC
1 TTTCAATTTC
142781 GGCTCCACTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (30 bp):
TTTCAATTTCAATTTGAGTTTGAATTTCAA
Found at i:143112 original size:29 final size:29
Alignment explanation
Indices: 143074--143132 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
143064 TCATGAAGAT
143074 ATGATAATCGTAAACCGAAACCGTAGAAG
1 ATGATAATCGTAAACCGAAACCGTAGAAG
143103 ATGATAATCGTAAACCGAAACCGTAGAAG
1 ATGATAATCGTAAACCGAAACCGTAGAAG
143132 A
1 A
143133 GAAACATACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (29 bp):
ATGATAATCGTAAACCGAAACCGTAGAAG
Found at i:144307 original size:20 final size:21
Alignment explanation
Indices: 144263--144308 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
144253 GTAAACATAG
* *
144263 AGTATCTATACTTATTATTCT
1 AGTATCTATACTTATAATTCC
144284 AGTATCTATACTT-TAATTCC
1 AGTATCTATACTTATAATTCC
144304 AGTAT
1 AGTAT
144309 GTATCTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (21 bp):
AGTATCTATACTTATAATTCC
Found at i:144699 original size:19 final size:19
Alignment explanation
Indices: 144659--144698 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
144649 ACAGGTAACG
**
144659 AATTTGACAAAACGGTTAA
1 AATTTGACAAAACAATTAA
144678 AATTTGACAAAATCAATTAA
1 AATTTGACAAAA-CAATTAA
144698 A
1 A
144699 TATAATAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AATTTGACAAAACAATTAA
Found at i:145795 original size:35 final size:35
Alignment explanation
Indices: 145756--145829 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
145746 AGAGCGGTAG
*
145756 CTTCTTCTCTACATGAAGACCGAACCTAGAATCAA
1 CTTCTGCTCTACATGAAGACCGAACCTAGAATCAA
* *
145791 CTTCTGCTTTATATGAAGACCGAACCTAGAATCAA
1 CTTCTGCTCTACATGAAGACCGAACCTAGAATCAA
145826 CTTC
1 CTTC
145830 ACCATTATGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (35 bp):
CTTCTGCTCTACATGAAGACCGAACCTAGAATCAA
Found at i:147438 original size:226 final size:226
Alignment explanation
Indices: 147054--147929 Score: 1322
Period size: 226 Copynumber: 3.9 Consensus size: 226
147044 TAACAAATCA
** * *
147054 AGTAATTAACTGGTTATGTTATTGTTAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
1 AGTAATTAACCAGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
*
147119 TTTAAGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
66 TTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
* * * * * *
147184 CGTTGGATTTTGAAGGCCCCATCAGCTTTAAAAAGACACTACCTATTACGTTACATAAGCGTTAC
131 CGTCGAATTTTTAAGGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTAC
147249 CTAATATGTTATTATGCTTGATAATGTTTCC
196 CTAATATGTTATTATGCTTGATAATGTTTCC
* * ** *
147280 AGTAATTAACCGGTTATGTTATCCTCAGATTTCTAAGGCTCTGTCAGCTTAAACTTTAGTAACAT
1 AGTAATTAACCAGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
* * * * *
147345 TTTAGGCATTACCTAATATGTTGATAATACTAATAACAAATTAAGCAATTAACTTGTTTTGTTAT
66 TTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
* * ** * * **
147410 CATCGGATTTTTAAGGCTTCAACAGCTTTAAAAATGCGCTACCTATTACGTTACATAAATGCTAC
131 CGTCGAATTTTTAAGGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTAC
*
147475 CTAATATGTTATTATGCTTGATAATGTTTAC
196 CTAATATGTTATTATGCTTGATAATGTTTCC
**
147506 AGTAATTAATAAGTTATGTTATCGTC-GAATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACA
1 AGTAATTAACCAGTTATGTTATCGTCAG-ATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACA
* *
147570 TTTTAGGTGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAACTAACCTATTTTGTTA
65 TTTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTA
* * * * *
147635 TCTTCAAATTTCTAAGGCCCCGTCAGCTTAAAAAAGGCGCTACCTATTACGTTACATAAGCGCTA
130 TCGTCGAATTTTTAAGGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTA
*
147700 CCTAATATGTTATTATGCTTGATAATATTTCC
195 CCTAATATGTTATTATGCTTGATAATGTTTCC
* * *
147732 AGTAATTAATCAGTTATGTTATCTTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
1 AGTAATTAACCAGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
147797 TTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
66 TTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
* * *
147862 CGTCGAATTTATAAGGTCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATGAGCGCTAC
131 CGTCGAATTTTTAAGGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTAC
147927 CTA
196 CTA
147930 TTACGTTACA
Statistics
Matches: 583, Mismatches: 65, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
225 1 0.00
226 581 1.00
227 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (226 bp):
AGTAATTAACCAGTTATGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACAT
TTTAGGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTAT
CGTCGAATTTTTAAGGCCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTAC
CTAATATGTTATTATGCTTGATAATGTTTCC
Found at i:147661 original size:108 final size:108
Alignment explanation
Indices: 147522--147889 Score: 373
Period size: 108 Copynumber: 3.3 Consensus size: 108
147512 TAATAAGTTA
* *
147522 TGTTATCGTCGAATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGTGTTACCTAA
1 TGTTATCGTCGAATTTCTAAGGCCCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
*
147587 TATGTTGATAATACTGATAACAAATTAAGTAACTAACCTATTT
66 TATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTT
* * * **** * *
147630 TGTTATCTTCAAATTTCTAAGGCCCCGTCAGCTTAAAAAAGGCGCTACCTATTACGTTACATAAG
1 TGTTATCGTCGAATTTCTAAGGCCCCATCAGCTTAAACTTTG-G-TAAC-A-T---TT---TAGG
* * * * * * * *
147695 CGCTACCTAATATGTT-ATTATGCTTGATAA-TATTTCCAGTAATTAATC-AGTTA
56 CGTTACCTAATATGTTGATAATAC-TGATAACAAATT-AAGTAATTAACCTA-TTT
* * *
147748 TGTTATCTTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
1 TGTTATCGTCGAATTTCTAAGGCCCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
147813 TATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTT
66 TATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTT
* *
147856 TGTTATCGTCGAATTTATAAGGTCCCATCAGCTT
1 TGTTATCGTCGAATTTCTAAGGCCCCATCAGCTT
147890 TAAAAAGGCG
Statistics
Matches: 201, Mismatches: 43, Indels: 32
0.73 0.16 0.12
Matches are distributed among these distances:
108 99 0.49
109 10 0.05
110 3 0.01
111 3 0.01
112 1 0.00
114 1 0.00
115 3 0.01
116 3 0.01
117 10 0.05
118 68 0.34
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (108 bp):
TGTTATCGTCGAATTTCTAAGGCCCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
TATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTT
Found at i:147983 original size:23 final size:23
Alignment explanation
Indices: 147897--147975 Score: 133
Period size: 23 Copynumber: 3.4 Consensus size: 23
147887 CTTTAAAAAG
147897 GCGCTACCTATTACGTTACATGA
1 GCGCTACCTATTACGTTACATGA
147920 GCGCTACCTATTACGTTACATGA
1 GCGCTACCTATTACGTTACATGA
147943 GCGCTACCTATTACGTTACA-GAA
1 GCGCTACCTATTACGTTACATG-A
*
147966 GTGCTACCTA
1 GCGCTACCTA
147976 ATATGTTATT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
22 1 0.02
23 53 0.98
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (23 bp):
GCGCTACCTATTACGTTACATGA
Found at i:148158 original size:272 final size:272
Alignment explanation
Indices: 147671--148201 Score: 904
Period size: 272 Copynumber: 2.0 Consensus size: 272
147661 CTTAAAAAAG
*
147671 GCGCTACCTATTACGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATATTTCCAGTA
1 GCGCTACCTATTACGTTACAGAAGCGCTACCTAATATGTTATTATGCTTGATAATATTTCCAGTA
*
147736 ATTAATCAGTTATGTTATCTTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTA
66 ATTAATCAGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTA
*
147801 GGCGTTACCTAATATGTTGATAATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCGTC
131 GGCGTTACCTAATATGTTGATAATACTGATAAAAAATTAAGTAATTAACCTATTTTGTTATCGTC
* *
147866 GAATTTATAAGGTCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATGAGCGCTACCTAT
196 GAATTTAGAAGGTCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTACCTAT
147931 TACGTTACATGA
261 TACGTTACATGA
* * *
147943 GCGCTACCTATTACGTTACAGAAGTGCTACCTAATATGTTATTATGCTTGATAATGTTTCTAGTA
1 GCGCTACCTATTACGTTACAGAAGCGCTACCTAATATGTTATTATGCTTGATAATATTTCCAGTA
* *
148008 ATTTATCGGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTA
66 ATTAATCAGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTA
148073 GGCGTTACCTAATATGTTGATAATACTGATAAAAAATTAAGTAATTAACCTATTTTGTTATCGTC
131 GGCGTTACCTAATATGTTGATAATACTGATAAAAAATTAAGTAATTAACCTATTTTGTTATCGTC
* * * *
148138 -AGATTTCGAAGG-CTCCATCAGCTTTAAAAAGGTGCTACTTATTACTTTACATAAGCGCTACCT
196 GA-ATTTAGAAGGTC-CCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTACCT
148201 A
259 A
148202 ATATGTTATT
Statistics
Matches: 243, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
271 2 0.01
272 241 0.99
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (272 bp):
GCGCTACCTATTACGTTACAGAAGCGCTACCTAATATGTTATTATGCTTGATAATATTTCCAGTA
ATTAATCAGTTATGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTA
GGCGTTACCTAATATGTTGATAATACTGATAAAAAATTAAGTAATTAACCTATTTTGTTATCGTC
GAATTTAGAAGGTCCCATCAGCTTTAAAAAGGCGCTACCTATTACGTTACATAAGCGCTACCTAT
TACGTTACATGA
Found at i:148159 original size:108 final size:108
Alignment explanation
Indices: 148020--148386 Score: 364
Period size: 108 Copynumber: 3.3 Consensus size: 108
148010 TTATCGGTTA
*
148020 TGTTATCGTCGGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
1 TGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
148085 TATGTTGATAATACTGATAAAAAATTAAGTAATTAACCTATTT
66 TATGTTGATAATACTGATAAAAAATTAAGTAATTAACCTATTT
* *** * * *
148128 TGTTATCGTCAGATTTCGAAGGCTCCATCAGCTTTAAAAAGGTGCTACTTATTACTTTACATAAG
1 TGTTATCGTCAGATTTCTAAGGCTCCATCAGC-TT-AAACTTTGGTA---A-CA-TTT---TAGG
* * * *** ** *
148193 CGCTACCTAATATGTT-ATTATGCTTGAT-AATGTTTCCAA-TAATTAACCGGTTA
56 CGTTACCTAATATGTTGATAATAC-TGATAAAAAATT--AAGTAATTAACCTATTT
* *
148246 TGTTATCGTCGGATTTCTAAGGCTCAATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
1 TGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
* * * *
148311 TATGTTGATAATATTGATAACAAATTTAGTAATTAACTTATTT
66 TATGTTGATAATACTGATAAAAAATTAAGTAATTAACCTATTT
* *
148354 T-TTATCGTCAGATTTATAAGGCCCCATCAGCTT
1 TGTTATCGTCAGATTTCTAAGGCTCCATCAGCTT
148387 TATCACGTTA
Statistics
Matches: 200, Mismatches: 43, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
107 29 0.14
108 63 0.31
109 9 0.05
110 7 0.04
111 3 0.01
112 1 0.00
113 2 0.01
114 1 0.00
115 3 0.01
116 7 0.04
117 11 0.05
118 62 0.31
119 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (108 bp):
TGTTATCGTCAGATTTCTAAGGCTCCATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAA
TATGTTGATAATACTGATAAAAAATTAAGTAATTAACCTATTT
Found at i:148623 original size:11 final size:11
Alignment explanation
Indices: 148607--148631 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
148597 AACCAATCCG
148607 CCGTATTTTAA
1 CCGTATTTTAA
148618 CCGTATTTTAA
1 CCGTATTTTAA
148629 CCG
1 CCG
148632 CCTTACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (11 bp):
CCGTATTTTAA
Found at i:151140 original size:24 final size:24
Alignment explanation
Indices: 151106--151188 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
151096 TTAAAGTAAT
151106 AGTATT-A-TAATATATTTTAAAA
1 AGTATTAATTAATATATTTTAAAA
*
151128 AGTATTAATTAATATATTTTAAAT
1 AGTATTAATTAATATATTTTAAAA
* * *
151152 A-T-TTTATTAAAATATTAT-AAA
1 AGTATTAATTAATATATTTTAAAA
*
151173 ATTATTATATTAATAT
1 AGTATTA-ATTAATAT
151189 TAAATTCATA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 3 0.06
22 20 0.41
23 4 0.08
24 22 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AGTATTAATTAATATATTTTAAAA
Found at i:153762 original size:26 final size:25
Alignment explanation
Indices: 153716--153806 Score: 62
Period size: 26 Copynumber: 3.4 Consensus size: 25
153706 ATTAATAATT
*
153716 TATTATA-TATTATTAAAATAAAAATA
1 TATTATATTA-TATT-ATATAAAAATA
153742 TATTATATTATATTATTATAATATAACTGAA
1 TATTATATTATATTA-TATAA-A-AA-T--A
* *
153773 TATTTTATTATAATAT-TAAAAA-A
1 TATTATATTATATTATATAAAAATA
153796 TATTATATTAT
1 TATTATATTAT
153807 TATAAATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
23 11 0.20
25 1 0.02
26 15 0.28
27 5 0.09
28 3 0.06
29 4 0.07
30 1 0.02
31 14 0.26
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (25 bp):
TATTATATTATATTATATAAAAATA
Found at i:153807 original size:26 final size:26
Alignment explanation
Indices: 153746--153811 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 26
153736 AAAATATATT
**
153746 ATATTATATTATTATAATATAACTGA
1 ATATTATATTATTATAATATAACAAA
153772 ATA-T-T-TTATTATAATATTAA-AAA
1 ATATTATATTATTATAATA-TAACAAA
153795 ATATTATATTATTATAA
1 ATATTATATTATTATAA
153812 ATTTTTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 15 0.44
24 5 0.15
25 2 0.06
26 12 0.35
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
ATATTATATTATTATAATATAACAAA
Found at i:159342 original size:21 final size:21
Alignment explanation
Indices: 159317--159363 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
159307 ATCTATTAAG
159317 AGTCAAGAAGAAGTATTACAA
1 AGTCAAGAAGAAGTATTACAA
* * * *
159338 AGTCAAGGAGGATTGTTACAA
1 AGTCAAGAAGAAGTATTACAA
159359 AGTCA
1 AGTCA
159364 TAATTTGTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (21 bp):
AGTCAAGAAGAAGTATTACAA
Found at i:164800 original size:20 final size:20
Alignment explanation
Indices: 164777--164816 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
164767 TGTACACGTA
164777 GTACCGATATTGTTCATATG
1 GTACCGATATTGTTCATATG
164797 GTACCGATATTGTTCATATG
1 GTACCGATATTGTTCATATG
164817 ATACTGATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
GTACCGATATTGTTCATATG
Found at i:164825 original size:20 final size:20
Alignment explanation
Indices: 164778--164825 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
164768 GTACACGTAG
*
164778 TACCGATATTGTTCATATGG
1 TACCGATATTGTTCATATGA
164798 TACCGATATTGTTCATATGA
1 TACCGATATTGTTCATATGA
*
164818 TACTGATA
1 TACCGATA
164826 CCACATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (20 bp):
TACCGATATTGTTCATATGA
Found at i:175702 original size:18 final size:18
Alignment explanation
Indices: 175663--175712 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
175653 TATATTGTAC
175663 AATTTATTATAA--TAATT
1 AATTTATTA-AATTTAATT
* *
175680 GATTTATTCAATTTAATT
1 AATTTATTAAATTTAATT
175698 AATTTATTAAATTTA
1 AATTTATTAAATTTA
175713 CATCCTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 2 0.07
17 7 0.26
18 18 0.67
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTATTAAATTTAATT
Found at i:183896 original size:42 final size:41
Alignment explanation
Indices: 183840--183921 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
183830 ATTAAACTTC
*
183840 ACCCTAAACTGACCCCAATATTATAAAATTTAAATTAATTCG
1 ACCCTAAACTGACCCCAATATTAT-AAATTTAAATCAATTCG
**
183882 ACCC-AAAGCTGACCCGGATATTATAAATTTAAATCAATTC
1 ACCCTAAA-CTGACCCCAATATTATAAATTTAAATCAATTC
183922 TAACCTGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 18 0.50
42 18 0.50
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (41 bp):
ACCCTAAACTGACCCCAATATTATAAATTTAAATCAATTCG
Found at i:198458 original size:21 final size:22
Alignment explanation
Indices: 198403--198483 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 22
198393 CATGGCCTTG
198403 TGCATCGATGCACATTCAAGGC
1 TGCATCGATGCACATTCAAGGC
* * *
198425 TTGCATCGGTGCACCTTCATGG-
1 -TGCATCGATGCACATTCAAGGC
* * *
198447 TGTATCGATGCACATTTAAAGGGA
1 TGCATCGATGCACA-TTCAA-GGC
198471 TGCATCGATGCAC
1 TGCATCGATGCAC
198484 TGTTAAGTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 11 0.24
22 3 0.07
23 20 0.43
24 12 0.26
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGC
Found at i:206359 original size:3 final size:3
Alignment explanation
Indices: 206351--206392 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
206341 TGAAAAAATG
206351 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
206393 AACCCAGACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:206932 original size:137 final size:137
Alignment explanation
Indices: 206574--207391 Score: 856
Period size: 137 Copynumber: 6.0 Consensus size: 137
206564 GTAAATTTTA
* * * ** * ** * *
206574 AGATAACACGGTTCCTATATGATGAGGAAATCTGATTATCTAAGGGTGACGATGCTTCTACGTGA
1 AGATAACACGGTTCCTACACGATGAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACATGA
* *
206639 TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGATGTCAGGCCATCTTTAGGG
66 TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGGG
*
206704 ATAAATTG
131 AT-AATAG
* * * **
206712 AGATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACACAGCTCCTATTTGA
1 AGATAACACGGTTCCTACACGATGAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACATGA
* * * ** * * *
206777 TAATGATATCTGGTCGGTGGATGACACAATTCCTATGTGATGAGGATGTCCGGCCATTTTTAGGG
66 TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGGG
*
206842 ATAATGG
131 ATAATAG
* ** * * *
206849 AGATAACACAGTTCCTACGTGATGTGGAAGTCTGGCTATATAAGGATGATGCGGCTCCTACATGA
1 AGATAACACGGTTCCTACACGATGAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACATGA
* * * * * *
206914 TGAGGAGATCTAGTCGGTGGAAGATACGGTTCCTACGTGATGAGAACGTCTGACCATCTTTAGGG
66 TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGGG
206979 ATAATAG
131 ATAATAG
* * * * *
206986 AGATAACACGGTTCCTACACGATGACGAAGTCTGACTATCCAAGGATGACGCGTCTCATACATGA
1 AGATAACACGGTTCCTACACGATGAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACATGA
* * * *
207051 TGAGGAGATCTGGTCTGTGGATGACACAGTTCATACGTGATGAGGA---C-GTCCATCTTTAGGG
66 TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGGG
207112 ATAAATAG
131 AT-AATAG
* * **
207120 AGATAACAGGGTTCCTACACGACGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTA-AGTG
1 AGATAACACGGTTCCTACACGATGAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACA-TG
* * * * * *
207184 ATGAGGAGATCTGGTCGGTGGATGACATGGTTCTTACTTGATAAGGACT-TCTAGCCATGTTTAG
65 ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGA-TGTCTGGCCATCTTTAG
*
207248 GGATAATGG
129 GGATAATAG
* * * ** * * *** **
207257 ATACAATATTGTTCCTACATGATGAAGAAGTCTAATTATCTAAGGATGACGCAACTCCTACATGA
1 AGATAACACGGTTCCTACACGATGAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACATGA
* * * * * * *
207322 TGAGGAGATTTAGTCGGTGGATAACATGGTTCCTACGTGATGAGGAAGTCTAGCCATTTTTAGGG
66 TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGGG
207387 ATAAT
131 ATAAT
207392 TTATTTCAAG
Statistics
Matches: 564, Mismatches: 108, Indels: 17
0.82 0.16 0.02
Matches are distributed among these distances:
133 16 0.03
134 100 0.18
137 324 0.57
138 124 0.22
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (137 bp):
AGATAACACGGTTCCTACACGATGAGGAAGTCTGGCTATCTAAGGATGACGCGGCTCCTACATGA
TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGGG
ATAATAG
Found at i:207203 original size:271 final size:270
Alignment explanation
Indices: 206574--207391 Score: 870
Period size: 271 Copynumber: 3.0 Consensus size: 270
206564 GTAAATTTTA
* * ** * * *
206574 AGATAACACGGTTCCTATATGATGAGGAAATCTGATTATCTAAGGGTGACGAT-GCTTCTACGTG
1 AGATAACACGGTTCCTACATGATGAGGAAGTCTGGCTATCTAAGGATGAC-ATGGCTCCTAAGTG
* * *
206638 ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGATGTCAGGCCATCTTTAGG
65 ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCTGACCATCTTTAGG
* * * * *
206703 GATAAATTGAGATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACACAGCT
130 GAT-AATAGAGATAACACGGTTCCTACACGATGAAGAAGTCTGACTATCTAAGGATGACGC-GCT
** * * * * *
206768 CCTATTTGATAATGATATCTGGTCGGTGGATGACACAATTCCTATGTGATGAGGATGTCCGGCCA
193 CCTACATGATGAGGAGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGA--T-CGGCCA
* *
206833 TTTTTAGGGATAATGG
255 TCTTTAGGGATAATAG
* * * * ***
206849 AGATAACACAGTTCCTACGTGATGTGGAAGTCTGGCTATATAAGGATGATGCGGCTCCTACA-TG
1 AGATAACACGGTTCCTACATGATGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTA-AGTG
* * * * *
206913 ATGAGGAGATCTAGTCGGTGGAAGATACGGTTCCTACGTGATGAGAACGTCTGACCATCTTTAGG
65 ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCTGACCATCTTTAGG
* *
206978 GATAATAGAGATAACACGGTTCCTACACGATGACGAAGTCTGACTATCCAAGGATGACGCGTCTC
130 GATAATAGAGATAACACGGTTCCTACACGATGAAGAAGTCTGACTATCTAAGGATGACGCG-CTC
* * * *
207043 ATACATGATGAGGAGATCTGGTCTGTGGATGACACAGTTCATACGTGATGAGGA-CGTCCATCTT
194 CTACATGATGAGGAGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGATCGGCCATCTT
207107 TAGGGATAAATAG
259 TAGGGAT-AATAG
* * *
207120 AGATAACAGGGTTCCTACACGACGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTAAGTGA
1 AGATAACACGGTTCCTACATGATGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTAAGTGA
* * * * * *
207185 TGAGGAGATCTGGTCGGTGGATGACATGGTTCTTACTTGATAAGGACTTCT-AGCCATGTTTAGG
66 TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCTGA-CCATCTTTAGG
* * * * ** * * * *
207249 GATAATGGATACAATATTGTTCCTACATGATGAAGAAGTCTAATTATCTAAGGATGACGCAACTC
130 GATAATAGAGATAACACGGTTCCTACACGATGAAGAAGTCTGACTATCTAAGGATGACGC-GCTC
* * * ** *
207314 CTACATGATGAGGAGATTTAGTCGGTGGATAACATGGTTCCTACGTGATGAGGAAGTCTAGCCAT
194 CTACATGATGAGGAGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGG-A-TC-GGCCAT
*
207379 TTTTAGGGATAAT
256 CTTTAGGGATAAT
207392 TTATTTCAAG
Statistics
Matches: 448, Mismatches: 84, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
270 17 0.04
271 206 0.46
272 1 0.00
273 1 0.00
274 102 0.23
275 121 0.27
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (270 bp):
AGATAACACGGTTCCTACATGATGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTAAGTGA
TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCTGACCATCTTTAGGG
ATAATAGAGATAACACGGTTCCTACACGATGAAGAAGTCTGACTATCTAAGGATGACGCGCTCCT
ACATGATGAGGAGATCTGGTCGGTGGATGACACAGTTCCTACGTGATGAGGATCGGCCATCTTTA
GGGATAATAG
Found at i:207338 original size:408 final size:410
Alignment explanation
Indices: 206574--207391 Score: 1024
Period size: 408 Copynumber: 2.0 Consensus size: 410
206564 GTAAATTTTA
* * * * * * *
206574 AGATAACACGGTTCCTATATGATGAGGAAATCTGATTATCTAAGGGTGACGATGCTTCTACGTGA
1 AGATAACACGGTTCCTACACGATGACGAAATCTGACTATCCAAGGATGACGATGCTTCTACATGA
* *
206639 TGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGATGTCAGGCCATCTTTAGGG
66 TGAGGAGATCTGGTCGGTGGATGACACAGTTCATACATGATGAGGA--TCAGGCCATCTTTAGGG
* * *
206704 ATAAATTGAGATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACACAGCTC
129 ATAAATAGAGATAACACGGTTCCTACACGACGAGGAAGTCTGGCTATCTAAGGATGACACAGCTC
** * * * *
206769 CTATTTGATAATGATATCTGGTCGGTGGATGACACAATTCCTATGTGATGAGGATGTCCGGCCAT
194 CTAAGTGATAAGGAGATCTGGTCGGTGGATGACACAATTCCTATGTGATAAGGATGTCCAGCCAT
* * * ** ** *
206834 TTTTAGGGATAATGGAGATAACACAGTTCCTACGTGATGTGGAAGTCTGGCTATATAAGGATGAT
259 GTTTAGGGATAATGGAGACAACACAGTTCCTACATGATGAAGAAGTCTAACTATATAAGGATGAC
** *
206899 GCGGCTCCTACATGATGAGGAGATCTAGTCGGTGGA-AGATACGGTTCCTACGTGATGA-GAACG
324 GCAACTCCTACATGATGAGGAGATCTAGTCGGTGGATA-ACACGGTTCCTACGTGATGAGGAA-G
206962 TCT-GACCATCTTTAGGGATAATAG
387 TCTAG-CCATCTTTAGGGATAATAG
* *
206986 AGATAACACGGTTCCTACACGATGACGAAGTCTGACTATCCAAGGATGACG-CG-TCTCATACAT
1 AGATAACACGGTTCCTACACGATGACGAAATCTGACTATCCAAGGATGACGATGCT-TC-TACAT
* * *
207049 GATGAGGAGATCTGGTCTGTGGATGACACAGTTCATACGTGATGAGGA-C-GTCCATCTTTAGGG
64 GATGAGGAGATCTGGTCGGTGGATGACACAGTTCATACATGATGAGGATCAGGCCATCTTTAGGG
* **
207112 ATAAATAGAGATAACAGGGTTCCTACACGACGAGGAAGTCTGGCTATCTAAGGATGACATGGCTC
129 ATAAATAGAGATAACACGGTTCCTACACGACGAGGAAGTCTGGCTATCTAAGGATGACACAGCTC
* *** * *
207177 CTAAGTGATGAGGAGATCTGGTCGGTGGATGACATGGTTCTTACT-TGATAAGGACT-TCTAGCC
194 CTAAGTGATAAGGAGATCTGGTCGGTGGATGACACAATTCCTA-TGTGATAAGGA-TGTCCAGCC
* * ** * *
207240 ATGTTTAGGGATAATGGATACAATATTGTTCCTACATGATGAAGAAGTCTAATTATCTAAGGATG
257 ATGTTTAGGGATAATGGAGACAACACAGTTCCTACATGATGAAGAAGTCTAACTATATAAGGATG
* *
207305 ACGCAACTCCTACATGATGAGGAGATTTAGTCGGTGGATAACATGGTTCCTACGTGATGAGGAAG
322 ACGCAACTCCTACATGATGAGGAGATCTAGTCGGTGGATAACACGGTTCCTACGTGATGAGGAAG
*
207370 TCTAGCCATTTTTAGGGATAAT
387 TCTAGCCATCTTTAGGGATAAT
207392 TTATTTCAAG
Statistics
Matches: 347, Mismatches: 52, Indels: 18
0.83 0.12 0.04
Matches are distributed among these distances:
408 243 0.70
409 8 0.02
410 1 0.00
411 3 0.01
412 92 0.27
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (410 bp):
AGATAACACGGTTCCTACACGATGACGAAATCTGACTATCCAAGGATGACGATGCTTCTACATGA
TGAGGAGATCTGGTCGGTGGATGACACAGTTCATACATGATGAGGATCAGGCCATCTTTAGGGAT
AAATAGAGATAACACGGTTCCTACACGACGAGGAAGTCTGGCTATCTAAGGATGACACAGCTCCT
AAGTGATAAGGAGATCTGGTCGGTGGATGACACAATTCCTATGTGATAAGGATGTCCAGCCATGT
TTAGGGATAATGGAGACAACACAGTTCCTACATGATGAAGAAGTCTAACTATATAAGGATGACGC
AACTCCTACATGATGAGGAGATCTAGTCGGTGGATAACACGGTTCCTACGTGATGAGGAAGTCTA
GCCATCTTTAGGGATAATAG
Found at i:207524 original size:66 final size:66
Alignment explanation
Indices: 207395--207525 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
207385 GGATAATTTA
* * * **
207395 TTTCAAGAGAAACTGTCTCAAGTGAGACAAAATTTATTTCGAAGGAAACAATCTTAATTGTTTAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCGAAGGAAACAATCTCAAAGGTTTAT
207460 G
66 G
*
207461 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTT-TAAGGGAAACAATCTCAAAGGTTTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCGAA-GGAAACAATCTCAAAGGTTTA
207525 T
65 T
207526 CAATTTTGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 2 0.03
66 56 0.97
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (66 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCGAAGGAAACAATCTCAAAGGTTTAT
G
Found at i:207937 original size:34 final size:37
Alignment explanation
Indices: 207853--207947 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 37
207843 AAAATGTATC
207853 GAGAGAAATTGTCTCAAG-TGAGACAAAATTTGCTTTTA
1 GAGA-AAATTGTCTCAAGCTGAGAC-AAATTTGCTTTTA
* *
207891 GAGAAAACTGTCTCAAGCTG-GAC-AATTT-TTTTTA
1 GAGAAAATTGTCTCAAGCTGAGACAAATTTGCTTTTA
*
207925 -AGAAAAATTGTCTCTAGCT-AGAC
1 GAG-AAAATTGTCTCAAGCTGAGAC
207948 GACACTTTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
33 2 0.04
34 22 0.44
35 5 0.10
37 15 0.30
38 6 0.12
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (37 bp):
GAGAAAATTGTCTCAAGCTGAGACAAATTTGCTTTTA
Found at i:209761 original size:14 final size:14
Alignment explanation
Indices: 209742--209769 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
209732 CTTGTTCATG
209742 ATGAAGAAGAAGAA
1 ATGAAGAAGAAGAA
209756 ATGAAGAAGAAGAA
1 ATGAAGAAGAAGAA
209770 GATAACTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
ATGAAGAAGAAGAA
Found at i:209764 original size:17 final size:17
Alignment explanation
Indices: 209739--209771 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
209729 TCTCTTGTTC
*
209739 ATGATGAAGAAGAAGAA
1 ATGAAGAAGAAGAAGAA
209756 ATGAAGAAGAAGAAGA
1 ATGAAGAAGAAGAAGA
209772 TAACTTCCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.30, T:0.09
Consensus pattern (17 bp):
ATGAAGAAGAAGAAGAA
Found at i:210337 original size:26 final size:26
Alignment explanation
Indices: 210301--210353 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
210291 ATACTTTTCC
210301 ATCACATAATTTTGTTAGCCATTGCT
1 ATCACATAATTTTGTTAGCCATTGCT
210327 ATCACATAATTTTGTTAGCCATTGCT
1 ATCACATAATTTTGTTAGCCATTGCT
210353 A
1 A
210354 ATTCTTTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (26 bp):
ATCACATAATTTTGTTAGCCATTGCT
Found at i:210571 original size:23 final size:21
Alignment explanation
Indices: 210520--210574 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
210510 ACCTTTTTCC
210520 CTTATCCTTTTACATTCCTTT
1 CTTATCCTTTTACATTCCTTT
* * *
210541 CATATCCTTTATACTTTTCTTT
1 CTTATCCTTT-TACATTCCTTT
210563 CTTTATCCTTTT
1 C-TTATCCTTTT
210575 TAATCTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 8 0.29
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (21 bp):
CTTATCCTTTTACATTCCTTT
Found at i:210711 original size:2 final size:2
Alignment explanation
Indices: 210704--210818 Score: 223
Period size: 2 Copynumber: 58.0 Consensus size: 2
210694 TCAAACTATC
210704 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
210746 CA CA CA CA CA CA CA CA CA C- CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
210787 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
210819 TATATAATAT
Statistics
Matches: 112, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 111 0.99
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:210823 original size:2 final size:2
Alignment explanation
Indices: 210818--210852 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
210808 ACACACACAC
210818 AT AT AT A- 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
210853 TCTTTCTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:213337 original size:32 final size:33
Alignment explanation
Indices: 213218--213342 Score: 102
Period size: 31 Copynumber: 4.0 Consensus size: 33
213208 AACCTCGGCA
* * *
213218 ACTATCCATAGGTCCCG-TAGAACCTAGGCAA-
1 ACTATCCATATGTCCCGATAGAACATAGGTAAT
* **
213249 ACTATCAATATGAT--CTTTAGAACATAGGT-AT
1 ACTATCCATATG-TCCCGATAGAACATAGGTAAT
*
213280 ACTATCCATATGTCCCGAAAG-ACATAGGTAAT
1 ACTATCCATATGTCCCGATAGAACATAGGTAAT
* **
213312 TCTATCCATATGTTTC-ATAGAACATAGGTAA
1 ACTATCCATATGTCCCGATAGAACATAGGTAA
213343 ACCCTCGACT
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
30 3 0.04
31 42 0.57
32 29 0.39
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (33 bp):
ACTATCCATATGTCCCGATAGAACATAGGTAAT
Found at i:214319 original size:137 final size:137
Alignment explanation
Indices: 214062--214655 Score: 725
Period size: 137 Copynumber: 4.4 Consensus size: 137
214052 GATGCTTCTG
* * *
214062 CGTGATGAGGAAATCTGGTTGGTGGATGACACGGTT-CTACGTGATGAGGACGTCTGGCCATCTT
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
* **
214126 TAGAGATAATTA-AGATAACACGATTCCTACGTGATGAGGAAGTCTGACTATCTAAGGATGACAC
66 TAGAGATAA-TAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACAC
*
214190 AGCTCCTA
130 GGCTCCTA
* ** **
214198 CGTGATGAGGAGATCTGGTCAGTGGATGACACAATTCCTACGTGATGAGGACGTCTGACCAAGTT
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
* * * * * * *
214263 TAGAGATAATGGAGATAACATGGTTCCTACATGATGTGGAAGT-TTAGCTATATAAGGATGACAT
66 TAGAGATAATAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGA-CTATCTAAGGATGACAC
*
214327 GGATCCTA
130 GGCTCCTA
* ** * * *
214335 CGTGATGAGGAGATCTAGTCGGAAGATGATACGATTCCTACGTGATGAGAACGTCTGACCATCTT
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
* * * * *
214400 TAGGGATAATAGAGATAACACGGTTCCTACACGATGACGAAGTCTGACTATCCAAGGAGGACGCG
66 TAGAGATAATAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACACG
*
214465 GCTCATA
131 GCTCCTA
* * * *
214472 CATGATGAGAAGATCTGGTCTGTGGATGACACAGTTCCTACGTGATGAGGACG--T--CCATCTT
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
* * * * *
214533 TAGGGATAAATAGAGATAACACGGTTCCTACGCGACGAGGAAGTCTGGCTATCTAAGGATGACAT
66 TAGAGAT-AATAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACAC
214598 GGCTCCTA
130 GGCTCCTA
* *
214606 AGTGATGAGGAGATCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGG
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGG
214656 GGAAACTGTC
Statistics
Matches: 387, Mismatches: 66, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
133 14 0.04
134 100 0.26
135 1 0.00
136 34 0.09
137 236 0.61
138 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (137 bp):
CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
TAGAGATAATAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACACG
GCTCCTA
Done.