Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008148.1 Hibiscus syriacus cultivar Beakdansim tig00110713_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: 172518
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:10563 original size:2 final size:2
Alignment explanation
Indices: 10517--10544 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10507 CTCATCGCCA
10517 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
10545 GAGCTGCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11981 original size:42 final size:44
Alignment explanation
Indices: 11934--12029 Score: 178
Period size: 42 Copynumber: 2.2 Consensus size: 44
11924 GTAGTAGGAT
11934 AAGCTATTTGAAAGAGAGAAAGAAGCTATTTG-AA-AGAGAAAG
1 AAGCTATTTGAAAGAGAGAAAGAAGCTATTTGAAAGAGAGAAAG
11976 AAGCTATTTGAAAGAGAGAAAGAAGCTATTTGAAAGAGAGAAAG
1 AAGCTATTTGAAAGAGAGAAAGAAGCTATTTGAAAGAGAGAAAG
12020 AAGCTATTTG
1 AAGCTATTTG
12030 TGCGAGAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 32 0.62
43 2 0.04
44 18 0.35
ACGTcount: A:0.48, C:0.05, G:0.26, T:0.21
Consensus pattern (44 bp):
AAGCTATTTGAAAGAGAGAAAGAAGCTATTTGAAAGAGAGAAAG
Found at i:12037 original size:22 final size:22
Alignment explanation
Indices: 11934--12029 Score: 178
Period size: 22 Copynumber: 4.5 Consensus size: 22
11924 GTAGTAGGAT
11934 AAGCTATTTGAAAGAGAGAAAG
1 AAGCTATTTGAAAGAGAGAAAG
11956 AAGCTATTTG-AA-AGAGAAAG
1 AAGCTATTTGAAAGAGAGAAAG
11976 AAGCTATTTGAAAGAGAGAAAG
1 AAGCTATTTGAAAGAGAGAAAG
11998 AAGCTATTTGAAAGAGAGAAAG
1 AAGCTATTTGAAAGAGAGAAAG
12020 AAGCTATTTG
1 AAGCTATTTG
12030 TGCGAGAGCG
Statistics
Matches: 72, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
20 18 0.25
21 4 0.06
22 50 0.69
ACGTcount: A:0.48, C:0.05, G:0.26, T:0.21
Consensus pattern (22 bp):
AAGCTATTTGAAAGAGAGAAAG
Found at i:12639 original size:154 final size:152
Alignment explanation
Indices: 12361--12646 Score: 383
Period size: 154 Copynumber: 1.9 Consensus size: 152
12351 TTGATCTGCT
* * * * ***
12361 GAACTGCATAATACTCTTTTGGTTCAATGACTGTTGTTTAGAAGAAAAAGATGGCTGTCTTCATT
1 GAACTACATAATACTCTTTTGGTTCAATGACTGTTGCTTAAAAGAAAAAGATGCCCACCTTCATT
* ** *
12426 AATTTTTCGATTGTTGAATTTCACATTTGAATTCAGAAGAATGTTTCTTCTACAGTTAAAACATC
66 AATTCTTCGATTGCAGAATTTCACATTTGAATTCAGAAGAATGTTTCTCCTACAGTTAAAACATC
12491 ACTAACGAGTATCGACTTATGG
131 ACTAACGAGTATCGACTTATGG
* * *
12513 GAACTACATAATACTCTTTTTGGTTCAATGCCTGATTGCTTAAAAGACAGAGATGCCCACCTTCA
1 GAACTACATAATACTC-TTTTGGTTCAATGACTG-TTGCTTAAAAGAAAAAGATGCCCACCTTCA
* * * * *
12578 TTCATTCTTCGATTGCAGAATTTCACATTTGAGTTCGGACGAATGTTTCTCCTACAGTTAAAATA
64 TTAATTCTTCGATTGCAGAATTTCACATTTGAATTCAGAAGAATGTTTCTCCTACAGTTAAAACA
12643 TCAC
129 TCAC
12647 CGAGTATTTA
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
152 15 0.13
153 16 0.14
154 82 0.73
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (152 bp):
GAACTACATAATACTCTTTTGGTTCAATGACTGTTGCTTAAAAGAAAAAGATGCCCACCTTCATT
AATTCTTCGATTGCAGAATTTCACATTTGAATTCAGAAGAATGTTTCTCCTACAGTTAAAACATC
ACTAACGAGTATCGACTTATGG
Found at i:17350 original size:21 final size:20
Alignment explanation
Indices: 17274--17370 Score: 63
Period size: 21 Copynumber: 4.7 Consensus size: 20
17264 CCAGTTTCCA
17274 AAATCGCAACGCGATTCTTGAC
1 AAATCGCAACGCGATT-TT-AC
* **
17296 -AATCGCAATGCGATAGTAC
1 AAATCGCAACGCGATTTTAC
* **
17315 AAATTCGTATTGCGATTTTAC
1 AAA-TCGCAACGCGATTTTAC
* *
17336 AGAATCGCAACGCGAATATGA-
1 A-AATCGCAACGCG-ATTTTAC
17357 AAATCGCAACGCGA
1 AAATCGCAACGCGA
17371 ACACATAAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
19 3 0.05
20 15 0.25
21 35 0.59
22 6 0.10
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (20 bp):
AAATCGCAACGCGATTTTAC
Found at i:17363 original size:20 final size:20
Alignment explanation
Indices: 17338--17407 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
17328 GATTTTACAG
* *
17338 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
17358 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
17378 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
17398 AATCGCAACG
1 AATCGCAACG
17408 TGTATCCGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.93
21 2 0.05
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.14
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:17412 original size:20 final size:20
Alignment explanation
Indices: 17376--17566 Score: 215
Period size: 20 Copynumber: 9.6 Consensus size: 20
17366 CGCGAACACA
*
17376 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGTGTATCCG
17396 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGTGTATCCG
17416 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGTGTATCCG
* *
17436 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGTGTATCCG
* *
17456 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGTGTATCCG
* *
17476 TAAATCGCAACGAT-AATCAG
1 TAAATCGCAACG-TGTATCCG
* * *
17496 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGTGTATCCG
*
17516 TAAATCGCAACGAT-AATCCG
1 TAAATCGCAACG-TGTATCCG
* * *
17536 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGTGTATCCG
*
17556 TAAATCACAAC
1 TAAATCGCAAC
17567 ACTGAAATTT
Statistics
Matches: 151, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
20 151 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (20 bp):
TAAATCGCAACGTGTATCCG
Found at i:18297 original size:24 final size:24
Alignment explanation
Indices: 18258--18304 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18248 AAATTTGGTC
18258 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
18282 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
18305 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:18496 original size:12 final size:12
Alignment explanation
Indices: 18479--18503 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18469 ATATAATCCT
18479 GAAGAAGAAAAA
1 GAAGAAGAAAAA
18491 GAAGAAGAAAAA
1 GAAGAAGAAAAA
18503 G
1 G
18504 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:20835 original size:33 final size:33
Alignment explanation
Indices: 20784--21034 Score: 159
Period size: 33 Copynumber: 7.2 Consensus size: 33
20774 CGGAAATTAC
* * *
20784 AATCGCAACGATAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
*
20817 AATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGC-GAAATGAA
*** *
20851 AATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCG-C
1 AATCGCAA--C--AA-GAAAATCGCAATGCGA-AAT-GAA
* *
20890 AATGCGGAA-ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACAAGAAAATCGCAATGCGAAATGAA
* *
20923 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
* * *
20956 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AA-GAAAATCGCAATGCGA-AAT-GAA
** *
20995 AATGCGGTA-ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACAAGAAAATCGCAATGCGAAATGAA
21028 AATCGCA
1 AATCGCA
21035 TTGCGATTCT
Statistics
Matches: 166, Mismatches: 32, Indels: 41
0.69 0.13 0.17
Matches are distributed among these distances:
32 8 0.05
33 62 0.37
34 42 0.25
35 3 0.02
36 1 0.01
37 1 0.01
38 17 0.10
39 23 0.14
40 9 0.05
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAACAAGAAAATCGCAATGCGAAATGAA
Found at i:20861 original size:53 final size:53
Alignment explanation
Indices: 20798--21034 Score: 422
Period size: 53 Copynumber: 4.5 Consensus size: 53
20788 GCAACGATAG
* *
20798 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
20851 AATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
*
20904 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
* *
20956 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGTAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
21009 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
21035 TTGCGATTCT
Statistics
Matches: 179, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
52 52 0.29
53 127 0.71
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
Found at i:20867 original size:19 final size:19
Alignment explanation
Indices: 20798--21040 Score: 265
Period size: 19 Copynumber: 13.7 Consensus size: 19
20788 GCAACGATAG
20798 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
20817 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
20831 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
20851 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
20870 AATCGCAA--C--AA-GAG
1 AATCGCAATGCGAAATGAA
20884 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
20904 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
20923 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
20937 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
20956 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
20975 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
20989 AATCGCAATGCGGTAATGAA
1 AATCGCAATGC-GAAATGAA
21009 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
21028 AATCGCATTGCGA
1 AATCGCAATGCGA
21041 TTCTCTCGTT
Statistics
Matches: 191, Mismatches: 10, Indels: 46
0.77 0.04 0.19
Matches are distributed among these distances:
14 40 0.21
15 6 0.03
16 5 0.03
17 7 0.04
18 1 0.01
19 92 0.48
20 40 0.21
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:20941 original size:86 final size:84
Alignment explanation
Indices: 20784--20963 Score: 224
Period size: 86 Copynumber: 2.1 Consensus size: 84
20774 CGGAAATTAC
* *
20784 AATCGCAACGATAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATG
1 AATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAA-GCGG-AATG
20849 AAAATCGCAATGCGAAATGAA
64 AAAATCGCAATGCGAAATGAA
*
20870 AATCGCAACAAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACAAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C--AA-GAAAATCGCAAGCGG
*
20933 -A-GAGAATCGCAATGCGAAATGAA
60 AATGAAAATCGCAATGCGAAATGAA
20956 AATCGCAA
1 AATCGCAA
20964 TGCGAAATGA
Statistics
Matches: 84, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
86 52 0.62
87 16 0.19
89 2 0.02
90 1 0.01
91 2 0.02
92 11 0.13
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (84 bp):
AATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAAGCGGAATGAA
AATCGCAATGCGAAATGAA
Found at i:20989 original size:105 final size:106
Alignment explanation
Indices: 20798--21034 Score: 422
Period size: 105 Copynumber: 2.2 Consensus size: 106
20788 GCAACGATAG
*
20798 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
20863 AAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
66 AAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
* *
20904 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
* *
20968 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGTAATGAA
66 AAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
21009 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
21035 TTGCGATTCT
Statistics
Matches: 126, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
105 85 0.67
106 41 0.33
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (106 bp):
AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAAAATCGCAACAAGAGAATCGCAATGCGGAAATGAA
Found at i:21074 original size:53 final size:52
Alignment explanation
Indices: 21011--21126 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
21001 GTAATGAAAA
*
21011 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
21063 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
21116 TCGCATTGCGA
1 TCGCATTGCGA
21127 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:21089 original size:19 final size:19
Alignment explanation
Indices: 21049--21136 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
21039 GATTCTCTCG
21049 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
21069 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
21088 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
21102 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
21121 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
21137 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 26 0.43
20 15 0.25
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:21246 original size:14 final size:14
Alignment explanation
Indices: 21227--21263 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
21217 CATCAATTAC
21227 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
21241 ACAAATCATCTTTT
1 ACAAATCAACTTTT
21255 ACAAATCAA
1 ACAAATCAA
21264 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:22548 original size:33 final size:33
Alignment explanation
Indices: 22444--22551 Score: 173
Period size: 33 Copynumber: 3.2 Consensus size: 33
22434 CGGAAATTAC
22444 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
22477 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGA-GAGAATCGCAATGC-GAAATGAA
22511 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
22544 AATCGCAA
1 AATCGCAA
22552 TGCGAAATGA
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
32 1 0.01
33 37 0.54
34 29 0.43
35 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:22549 original size:19 final size:19
Alignment explanation
Indices: 22458--22603 Score: 151
Period size: 19 Copynumber: 8.4 Consensus size: 19
22448 GCAACGAGAG
22458 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
22477 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
22491 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
22511 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
22525 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
22544 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
22563 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
22577 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
22596 AATCGCAA
1 AATCGCAA
22604 CGAGAGAATC
Statistics
Matches: 105, Mismatches: 6, Indels: 32
0.73 0.04 0.22
Matches are distributed among these distances:
14 32 0.30
15 2 0.02
16 5 0.05
17 4 0.04
18 3 0.03
19 46 0.44
20 13 0.12
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:22571 original size:52 final size:53
Alignment explanation
Indices: 22486--22603 Score: 229
Period size: 52 Copynumber: 2.2 Consensus size: 53
22476 AAATCCCAAC
22486 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
22539 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
22591 ATGAAAATCGCAA
1 ATGAAAATCGCAA
22604 CGAGAGAATC
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 49 0.75
53 16 0.25
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.14
Consensus pattern (53 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:22581 original size:33 final size:33
Alignment explanation
Indices: 22544--22625 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
22534 GCGAAATGAA
22544 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
22577 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
22610 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
22626 TATAAACGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:22582 original size:14 final size:14
Alignment explanation
Indices: 22563--22617 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
22553 GCGAAATGAA
22563 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
22577 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
22596 AATCGCAACGAGAG
1 AATCGCAACGAGAG
22610 AATCGCAA
1 AATCGCAA
22618 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:22641 original size:85 final size:86
Alignment explanation
Indices: 22458--22625 Score: 295
Period size: 86 Copynumber: 2.0 Consensus size: 86
22448 GCAACGAGAG
22458 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAG
1 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAG
22523 AGAATCGCAATGCGAAATGAA
66 AGAATCGCAATGCGAAATGAA
* *
22544 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAAAATCGCAACGA
1 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGA
22607 GAGAATCGCAATGCGAAAT
65 GAGAATCGCAATGCGAAAT
22626 TATAAACGCA
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
85 38 0.48
86 40 0.51
87 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (86 bp):
AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAG
AGAATCGCAATGCGAAATGAA
Found at i:22744 original size:52 final size:53
Alignment explanation
Indices: 22632--22747 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 53
22622 AAATTATAAA
*
22632 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
1 CGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
22685 CGCATTGCGATTATCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
22737 CGCATTGCGAT
1 CGCATTGCGAT
22748 AGTCATTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (53 bp):
CGCATTGCGATTATCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT
Found at i:22755 original size:19 final size:19
Alignment explanation
Indices: 22650--22747 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
22640 GATTCTCTCG
22650 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
22670 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
22689 TTGCGA--TT-ATCTCG--
1 TTGCGATTTTCATTTCGCA
22703 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
22722 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
22741 TTGCGAT
1 TTGCGAT
22748 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:22873 original size:14 final size:13
Alignment explanation
Indices: 22845--22902 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
22835 TTATGTTCGC
*
22845 ATCAATTACACAA
1 ATCAATTATACAA
22858 ATCAACTTATACAA
1 ATCAA-TTATACAA
* *
22872 ATCATCTTTTACAA
1 ATCA-ATTATACAA
*
22886 ATCAATTAAAC-A
1 ATCAATTATACAA
22898 ATCAA
1 ATCAA
22903 AAAATAAGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
12 6 0.16
13 9 0.24
14 22 0.59
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (13 bp):
ATCAATTATACAA
Found at i:24881 original size:14 final size:14
Alignment explanation
Indices: 24862--24918 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
24852 GCGAAATGAA
*
24862 AATCGCAACGACAG
1 AATCGCAACGAAAG
24876 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
24893 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
24909 AATCGCAACG
1 AATCGCAACG
24919 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:24889 original size:33 final size:33
Alignment explanation
Indices: 24843--24934 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
24833 GCGAAACCAA
*
24843 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
24876 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
24909 AATCGCAACGCGAAATG-AAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
24935 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 9 0.16
33 47 0.84
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:24900 original size:19 final size:19
Alignment explanation
Indices: 24822--24939 Score: 114
Period size: 19 Copynumber: 6.8 Consensus size: 19
24812 CACGAAACTT
**
24822 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
24841 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
24860 AAAATCGCAA--CGACA-G
1 AAAATCGCAACGCGAAATG
*
24876 --AATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
24893 AAAATCGCAA--CGAAA-G
1 AAAATCGCAACGCGAAATG
24909 --AATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
24926 -AAATCGCAATGCGA
1 AAAATCGCAACGCGA
24940 TTTTGGTTTC
Statistics
Matches: 85, Mismatches: 5, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
14 16 0.19
16 11 0.13
17 11 0.13
18 12 0.14
19 35 0.41
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:24957 original size:19 final size:19
Alignment explanation
Indices: 24935--25033 Score: 127
Period size: 19 Copynumber: 5.5 Consensus size: 19
24925 GAAATCGCAA
24935 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
24954 TGCGA-TCT--TAT--CGT
1 TGCGATTTTGGTTTCGCGT
24968 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
**
24987 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
25006 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
25025 TGCGATTTT
1 TGCGATTTT
25034 AAGTTTCGTG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
14 8 0.12
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 51 0.76
ACGTcount: A:0.08, C:0.17, G:0.27, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:25016 original size:38 final size:33
Alignment explanation
Indices: 24935--25034 Score: 146
Period size: 38 Copynumber: 2.9 Consensus size: 33
24925 GAAATCGCAA
*
24935 TGCGATTTTGGTTTCGCGTTGCGATCTTATCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTATCGT
24968 TGCGATTTTGGTTTCGCGTTGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTT-A--T--CGT
25006 TGCGATTTTGGTTTCGCGTTGCGATTTTA
1 TGCGATTTTGGTTTCGCGTTGCGATTTTA
25035 AGTTTCGTGT
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
33 27 0.44
34 1 0.02
36 1 0.02
37 1 0.02
38 31 0.51
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTATCGT
Found at i:25413 original size:185 final size:185
Alignment explanation
Indices: 25097--25563 Score: 893
Period size: 185 Copynumber: 2.5 Consensus size: 185
25087 ATGGATTGCA
25097 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
25161 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTA
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTA
25226 TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
25281 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
25346 TAGCAGAA-TGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACT
25410 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
130 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
*
25466 TTACTTTCAACCAAAAGACAAAACAAAGACAAAGACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
25531 TAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
25564 AAGCAATCTA
Statistics
Matches: 278, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
184 42 0.15
185 213 0.77
186 23 0.08
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAATACTA
TTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:25513 original size:93 final size:93
Alignment explanation
Indices: 25097--25563 Score: 895
Period size: 92 Copynumber: 5.1 Consensus size: 93
25087 ATGGATTGCA
25097 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
25161 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
25189 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
25253 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
25281 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
25346 TAGCAGAA-TGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
25373 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
25438 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
25466 TTACTTTCAACCAAAAGACAAAACAAAGACAAAGACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
25531 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
25559 TTACT
1 TTACT
25564 AAGCAATCTA
Statistics
Matches: 370, Mismatches: 2, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
92 188 0.51
93 182 0.49
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:27269 original size:20 final size:20
Alignment explanation
Indices: 27238--27320 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
27228 TTTTGGTTGA
27238 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
27258 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
27278 AAATGAAAATCGCAACGCGA-
1 -AATGAAAATCGCAACGAGAG
27298 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
27318 AAT
1 AAT
27321 CGCAACGCGA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 18 0.34
20 20 0.38
21 15 0.28
ACGTcount: A:0.47, C:0.17, G:0.24, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:27313 original size:40 final size:41
Alignment explanation
Indices: 27236--27319 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
27226 TCTTTTGGTT
***
27236 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGAGA
*
27277 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGAGA
27317 GAA
1 GAA
27320 TCGCAACGCG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 19 0.49
41 20 0.51
ACGTcount: A:0.48, C:0.17, G:0.25, T:0.11
Consensus pattern (41 bp):
GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGAGA
Found at i:27379 original size:14 final size:14
Alignment explanation
Indices: 27360--27416 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
27350 TTTGGTTTCG
27360 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
27374 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
27393 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
27407 CGTTGCGATT
1 CGTTGCGATT
27417 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:27392 original size:33 final size:33
Alignment explanation
Indices: 27344--27423 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
27334 GAAATCGCAA
**
27344 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
27377 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
27410 TGCGATTTTCATTT
1 TGCGATTTTCATTT
27424 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:27429 original size:21 final size:21
Alignment explanation
Indices: 27404--27477 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
27394 GTTGCGATTC
27404 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
27425 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
27446 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
27467 TCTCGTTGCGA
1 TCTCGTTGCGA
27478 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:27599 original size:33 final size:33
Alignment explanation
Indices: 27557--27627 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
27547 AATACTAACT
27557 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
27590 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
27623 TGAAA
1 TGAAA
27628 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:28031 original size:20 final size:20
Alignment explanation
Indices: 28006--28157 Score: 207
Period size: 20 Copynumber: 7.6 Consensus size: 20
27996 CTTTAAAAAT
28006 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
28026 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
28046 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
28066 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
28086 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
28106 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
28126 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
28146 CGCGTTGCGATT
1 CGCGTTGCGATT
28158 CTTGAAAATC
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
20 117 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:28707 original size:20 final size:22
Alignment explanation
Indices: 28666--28707 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
28656 ACAAAATTTT
28666 ATAAAATATAATTATATAAAAA
1 ATAAAATATAATTATATAAAAA
28688 ATAAAATA-AACTTA-ATAAAA
1 ATAAAATATAA-TTATATAAAA
28708 CTAAAAGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
ATAAAATATAATTATATAAAAA
Found at i:30358 original size:14 final size:16
Alignment explanation
Indices: 30325--30360 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
30315 CCTTAAACCC
30325 TAAACCCTACAATTTA
1 TAAACCCTACAATTTA
30341 -AAACCC-A-AATTTA
1 TAAACCCTACAATTTA
30354 TAAACCC
1 TAAACCC
30361 GACATAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.32
14 7 0.37
15 6 0.32
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (16 bp):
TAAACCCTACAATTTA
Found at i:39087 original size:39 final size:40
Alignment explanation
Indices: 39033--39110 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 40
39023 ATTAGGTGAA
* * *
39033 ACAAGTAAAATTTAAAGGGTAAT-AAGAAATAATTACCAT
1 ACAAATAAAAATTAAAGGGTAATAAAAAAATAATTACCAT
*
39072 ACAAATAAAAATTAAAGGGTAATAAAAAAATAGTTACCA
1 ACAAATAAAAATTAAAGGGTAATAAAAAAATAATTACCA
39111 CTCTTTAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 21 0.62
40 13 0.38
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.23
Consensus pattern (40 bp):
ACAAATAAAAATTAAAGGGTAATAAAAAAATAATTACCAT
Found at i:43742 original size:12 final size:12
Alignment explanation
Indices: 43725--43772 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
43715 CATAAATCAA
*
43725 AACAGAATTCGG
1 AACAGAATTCAG
*
43737 AACAGAATCCAG
1 AACAGAATTCAG
* *
43749 ATCAGAAATCAG
1 AACAGAATTCAG
43761 AACAGAATTCAG
1 AACAGAATTCAG
43773 GTAATGTATC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.15
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:43807 original size:24 final size:22
Alignment explanation
Indices: 43754--43809 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
43744 TCCAGATCAG
*
43754 AAATCAGAACAGAATTCAGGTA
1 AAATCAGAACAGAATTCAAGTA
*
43776 ATGTATCAGAACAGAATTCAAGTCGA
1 A--AATCAGAACAGAATTCAAGT--A
43802 AAATCAGA
1 AAATCAGA
43810 TAAAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.04
24 24 0.89
26 2 0.07
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (22 bp):
AAATCAGAACAGAATTCAAGTA
Found at i:46206 original size:13 final size:13
Alignment explanation
Indices: 46188--46230 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
46178 GCCGGTCAAC
46188 GGTCAACGGGTCG
1 GGTCAACGGGTCG
** *
46201 GGTCAACATGCCG
1 GGTCAACGGGTCG
*
46214 GGTAAACGGGTCG
1 GGTCAACGGGTCG
46227 GGTC
1 GGTC
46231 GGGTAAACGG
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:46233 original size:18 final size:18
Alignment explanation
Indices: 46212--46252 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
46202 GTCAACATGC
*
46212 CGGGTAAACGGGTCGGGT
1 CGGGTAAACGGGTCAGGT
46230 CGGGTAAACGGGTCAGGT
1 CGGGTAAACGGGTCAGGT
46248 CGGGT
1 CGGGT
46253 TATGACCGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTAAACGGGTCAGGT
Found at i:52538 original size:60 final size:60
Alignment explanation
Indices: 52464--52582 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
52454 GTGTTTGATC
52464 CGATGGTGGTGATGAAAACTAGGAGTTTGAATGCATGACTTGTTCCTCAGCCATTGGATT
1 CGATGGTGGTGATGAAAACTAGGAGTTTGAATGCATGACTTGTTCCTCAGCCATTGGATT
*
52524 CGATGGTTGTGATGAAAACTAGGAGTTTGAATGCATGACTTGTTCCTCAGCCATTGGAT
1 CGATGGTGGTGATGAAAACTAGGAGTTTGAATGCATGACTTGTTCCTCAGCCATTGGAT
52583 GTGATGACTG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (60 bp):
CGATGGTGGTGATGAAAACTAGGAGTTTGAATGCATGACTTGTTCCTCAGCCATTGGATT
Found at i:60477 original size:18 final size:18
Alignment explanation
Indices: 60450--60486 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60440 TTAATTACAC
*
60450 AATATTATAATAAATTTT
1 AATATAATAATAAATTTT
*
60468 AATATAATAATATATTTT
1 AATATAATAATAAATTTT
60486 A
1 A
60487 GTACCTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATATAATAATAAATTTT
Found at i:70942 original size:60 final size:60
Alignment explanation
Indices: 70817--70942 Score: 130
Period size: 60 Copynumber: 2.1 Consensus size: 60
70807 AATAATCTCT
* * * * * *
70817 GACTATAGGTCGTTACTTGATTGAGTCCCTCAATTATTAAAAGTTACAAAATGGTCTCAC
1 GACTATAGGTCGTTACTTGATTGAGTCCCCCAACTACTAAAAATTACAAAATGATCACAC
* * * *
70877 AACTATAGGAT-GTTACTTTG-TTGAGTCCCCCTACTACTAAAAATTATAAAATGATCACCC
1 GACTATAGG-TCGTTAC-TTGATTGAGTCCCCCAACTACTAAAAATTACAAAATGATCACAC
70937 GACTAT
1 GACTAT
70943 TCATATGTTC
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
60 49 0.92
61 4 0.08
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (60 bp):
GACTATAGGTCGTTACTTGATTGAGTCCCCCAACTACTAAAAATTACAAAATGATCACAC
Found at i:71533 original size:31 final size:31
Alignment explanation
Indices: 71496--71559 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
71486 CACACAAAAG
71496 ATAAATATAATTTATTTGTACATATTATGTA
1 ATAAATATAATTTATTTGTACATATTATGTA
71527 ATAAATATAATTTATTTGTACATATTATGTA
1 ATAAATATAATTTATTTGTACATATTATGTA
71558 AT
1 AT
71560 TTATATCACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (31 bp):
ATAAATATAATTTATTTGTACATATTATGTA
Found at i:73867 original size:2 final size:2
Alignment explanation
Indices: 73860--73902 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
73850 TACTAGTATC
73860 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73902 A
1 A
73903 ATTATGTGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:75560 original size:144 final size:147
Alignment explanation
Indices: 75375--75639 Score: 405
Period size: 144 Copynumber: 1.8 Consensus size: 147
75365 ATTACTAAAT
*
75375 ATATAAACGGTAAAATAAAATAGGCGCTACCTATTACATTAAAATACATACCGATTTTTTAAAGT
1 ATATAAACGGT-AAATAAAATAGGCGCTACATATTACATTAAAATACATACCGA-TTTTTAAAGT
**
75440 TTCTAATAATATAAACGG-TAAAAAAAAT-AGACGCTACCT-TTACATTAAAATACCTACCGGTT
64 CACTAATAATATAAACGGTTAAAAAAAATAAG-CGCTACCTATTACATTAAAATACCTACCGGTT
75502 TTTATTGAAGGTGTTTAATA
128 TTTATTGAAGGTGTTTAATA
*
75522 ATATAAACGGT-AA-AAAATAGGCGCTACATATTACATTAAAATACATACCGATTTTTAAGGTCA
1 ATATAAACGGTAAATAAAATAGGCGCTACATATTACATTAAAATACATACCGATTTTTAAAGTCA
* * *
75585 CTAATAATGTAAACGGTTAAAAAAAATAAGTGCTACCTATTACATTAAACTACCT
66 CTAATAATATAAACGGTTAAAAAAAATAAGCGCTACCTATTACATTAAAATACCT
75640 CGATATGTTG
Statistics
Matches: 108, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
143 24 0.22
144 54 0.50
145 19 0.18
147 11 0.10
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (147 bp):
ATATAAACGGTAAATAAAATAGGCGCTACATATTACATTAAAATACATACCGATTTTTAAAGTCA
CTAATAATATAAACGGTTAAAAAAAATAAGCGCTACCTATTACATTAAAATACCTACCGGTTTTT
ATTGAAGGTGTTTAATA
Found at i:75571 original size:73 final size:73
Alignment explanation
Indices: 75295--75633 Score: 306
Period size: 72 Copynumber: 4.6 Consensus size: 73
75285 TAAAAACGAT
* * * * * *
75295 TAATAATATAAAC-CTAAAAAAATAGGCACTACCTATTATTATATTAAAATA-ACTATCGATTTG
1 TAATAATATAAACGGTAAAAAAATAGGCGCTACC---TATTACATTAAAATACA-TACCGGTTTT
*
75358 T-TTAAAGATTAC
62 TATTAAAG-TTTC
*
75370 TAA-ATATATAAACGGTAAAATAAAATAGGCGCTACCTATTACATTAAAATACATACC-GATTTT
1 TAATA-ATATAAACGGT-AAA-AAAATAGGCGCTACCTATTACATTAAAATACATACCGGTTTTT
75433 -TTAAAGTTTC
63 ATTAAAGTTTC
* *
75443 TAATAATATAAACGGTAAAAAAAATAGACGCTACCT-TTACATTAAAATACCTACCGGTTTTTAT
1 TAATAATATAAACGGT-AAAAAAATAGGCGCTACCTATTACATTAAAATACATACCGGTTTTTAT
*
75507 TGAAGGTGTT-
65 T-AAAGT-TTC
* *
75517 TAATAATATAAACGGT-AAAAAATAGGCGCTACATATTACATTAAAATACATACC-G-ATTT-TT
1 TAATAATATAAACGGTAAAAAAATAGGCGCTACCTATTACATTAAAATACATACCGGTTTTTATT
* **
75578 AAGGTCAC
66 AAAGTTTC
* * *
75586 TAATAATGTAAACGGTTAAAAAAAATAAGTGCTACCTATTACATTAAA
1 TAATAATATAAACGG-T-AAAAAAATAGGCGCTACCTATTACATTAAA
75634 CTACCTCGAT
Statistics
Matches: 227, Mismatches: 22, Indels: 33
0.80 0.08 0.12
Matches are distributed among these distances:
69 19 0.08
70 3 0.01
71 21 0.09
72 63 0.28
73 41 0.18
74 31 0.14
75 30 0.13
76 2 0.01
77 3 0.01
78 14 0.06
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (73 bp):
TAATAATATAAACGGTAAAAAAATAGGCGCTACCTATTACATTAAAATACATACCGGTTTTTATT
AAAGTTTC
Found at i:75920 original size:111 final size:110
Alignment explanation
Indices: 75719--75957 Score: 338
Period size: 111 Copynumber: 2.2 Consensus size: 110
75709 CAGTGTCTAT
* * *
75719 AAAGTATCGATACTTTATAAAAATGTATCGATGCATAACAATATAACATGTAAAATATGATAAAA
1 AAAGTATCGATACTTT-TAAAAATATATCGATACATAACAATATAACATGTAAAATATGACAAAA
* * * *
75784 CTAGTTTCATTATGACAAACACGGTAAAGAACTACCGGGTATGTTG
65 CCAGTTTCATTATGAAAAACACGGTAAAGAACTACCGGATATATTG
75830 AAAGTATCGATACTTTT-AAAATATATCGATACATAAACAATATAACATGTAATAATATGACAAA
1 AAAGTATCGATACTTTTAAAAATATATCGATACAT-AACAATATAACATGTAA-AATATGACAAA
* *
75894 ACCAGTTTCATTATGATAAAAC-CGGTAAAGAGCTACCTGATATATTG
64 ACCAGTTTCATTATGA-AAAACACGGTAAAGAACTACCGGATATATTG
*
75941 AAAGTATCGATATTTTT
1 AAAGTATCGATACTTTT
75958 TGTATATGTA
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
109 15 0.13
110 18 0.16
111 78 0.68
112 4 0.03
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (110 bp):
AAAGTATCGATACTTTTAAAAATATATCGATACATAACAATATAACATGTAAAATATGACAAAAC
CAGTTTCATTATGAAAAACACGGTAAAGAACTACCGGATATATTG
Found at i:95676 original size:29 final size:29
Alignment explanation
Indices: 95586--95677 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
95576 ATAGAATTAG
* *
95586 AATATGCAAAAAGTTTAAGGACTAATTTAG
1 AATATTCAAAAA-TTTAAGGACTAATTTAA
** * * * *
95616 AATGATTC-CTAATTTGATGA-TAAAATTGA
1 AAT-ATTCAAAAATTTAAGGACT-AATTTAA
95645 AATATTCAAAAATTTAAGGACTAATTTAA
1 AATATTCAAAAATTTAAGGACTAATTTAA
95674 AATA
1 AATA
95678 AAGATTATAG
Statistics
Matches: 44, Mismatches: 14, Indels: 9
0.66 0.21 0.13
Matches are distributed among these distances:
28 5 0.11
29 30 0.68
30 6 0.14
31 3 0.07
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.34
Consensus pattern (29 bp):
AATATTCAAAAATTTAAGGACTAATTTAA
Found at i:96516 original size:129 final size:129
Alignment explanation
Indices: 96280--96537 Score: 482
Period size: 129 Copynumber: 2.0 Consensus size: 129
96270 CTTTTATTCT
96280 TTTAACCAAACATGGTAATCTTACATTCATGTTAAACCAACCAAACACAAAATACAACATTCTCA
1 TTTAACCAAACATGGTAATCTTACATTCATGTTAAACCAACCAAACACAAAATACAACATTCTCA
* *
96345 GTAATCCTATTCTCTGGTAATCTTACATTCCGTGAACTAAACGTCATGCATCTTAGAATTTAGA
66 GTAATCATATTCTCTGGTAATCTTACATTCCGTGAACTAAACGCCATGCATCTTAGAATTTAGA
96409 TTTAACCAAACATGGTAATCTTACATTCATGTTAAACCAACCAAACACAAAATACAACATTCTCA
1 TTTAACCAAACATGGTAATCTTACATTCATGTTAAACCAACCAAACACAAAATACAACATTCTCA
96474 GTAATCATATTCTCTGGTAATCTTACATTCCGTGAAGC-AAACGCCATGCATCTTAGAATTTAGA
66 GTAATCATATTCTCTGGTAATCTTACATTCCGTGAA-CTAAACGCCATGCATCTTAGAATTTAGA
96538 ATCTAACAAA
Statistics
Matches: 126, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
129 125 0.99
130 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (129 bp):
TTTAACCAAACATGGTAATCTTACATTCATGTTAAACCAACCAAACACAAAATACAACATTCTCA
GTAATCATATTCTCTGGTAATCTTACATTCCGTGAACTAAACGCCATGCATCTTAGAATTTAGA
Found at i:97773 original size:15 final size:14
Alignment explanation
Indices: 97724--97775 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
97714 AATAATATTA
97724 AAATCGGTTTTTTT
1 AAATCGGTTTTTTT
* *
97738 ATATTCAGTTTTTTT
1 A-AATCGGTTTTTTT
97753 AAAAATCGGTTTTTTT
1 --AAATCGGTTTTTTT
97769 CAAATCG
1 -AAATCG
97776 AAACCGGTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 1 0.03
15 17 0.57
16 11 0.37
17 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.52
Consensus pattern (14 bp):
AAATCGGTTTTTTT
Found at i:98053 original size:22 final size:23
Alignment explanation
Indices: 98028--98075 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
98018 CACCCAAGAC
*
98028 CCAAATACAGTCATCCCAG-AGT
1 CCAAATACAGTCAGCCCAGTAGT
* *
98050 CCAATTATAGTCAGCCCAGTAGT
1 CCAAATACAGTCAGCCCAGTAGT
98073 CCA
1 CCA
98076 GTTACGAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (23 bp):
CCAAATACAGTCAGCCCAGTAGT
Found at i:100705 original size:25 final size:25
Alignment explanation
Indices: 100671--100746 Score: 134
Period size: 25 Copynumber: 3.0 Consensus size: 25
100661 CCAAAAAAAG
100671 AAAGTACTAATAATAAATGCTCTGT
1 AAAGTACTAATAATAAATGCTCTGT
100696 AAAGTACTAATAATAAATGCTCTGT
1 AAAGTACTAATAATAAATGCTCTGT
* *
100721 AAAGTATTAATAATAAATACTCTGT
1 AAAGTACTAATAATAAATGCTCTGT
100746 A
1 A
100747 GCTGTCAATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (25 bp):
AAAGTACTAATAATAAATGCTCTGT
Found at i:100923 original size:24 final size:24
Alignment explanation
Indices: 100906--100957 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
100896 CGTTTATGTT
*
100906 TGTTTGTTTATGTGCGTTCATTTA
1 TGTTCGTTTATGTGCGTTCATTTA
100930 TGTTCGTTTATGTGCGTTCATTTA
1 TGTTCGTTTATGTGCGTTCATTTA
100954 TGTT
1 TGTT
100958 TAGTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.12, C:0.10, G:0.21, T:0.58
Consensus pattern (24 bp):
TGTTCGTTTATGTGCGTTCATTTA
Found at i:101214 original size:23 final size:23
Alignment explanation
Indices: 101156--101229 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
101146 TTTATGTTAA
* *
101156 TTTATTGGGTTCATTTATGTTCG
1 TTTATTGTGTTCATTTAAGTTCG
* * *
101179 TTTGTTTGTGTTCTTTTAAGTTTG
1 TTT-ATTGTGTTCATTTAAGTTCG
* * *
101203 TTTATTGTGTTCGTTTATGTTCA
1 TTTATTGTGTTCATTTAAGTTCG
101226 TTTA
1 TTTA
101230 AATATGTTCG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.12, C:0.07, G:0.19, T:0.62
Consensus pattern (23 bp):
TTTATTGTGTTCATTTAAGTTCG
Found at i:103361 original size:31 final size:25
Alignment explanation
Indices: 103277--103352 Score: 143
Period size: 25 Copynumber: 3.0 Consensus size: 25
103267 CCAAAAAAAG
*
103277 AAAGTACTAATAATAAATGCTCTGT
1 AAAGTACTAATAATAAATACTCTGT
103302 AAAGTACTAATAATAAATACTCTGT
1 AAAGTACTAATAATAAATACTCTGT
103327 AAAGTACTAATAATAAATACTCTGT
1 AAAGTACTAATAATAAATACTCTGT
103352 A
1 A
103353 GCTGTAAAGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (25 bp):
AAAGTACTAATAATAAATACTCTGT
Found at i:103651 original size:14 final size:14
Alignment explanation
Indices: 103632--103699 Score: 71
Period size: 14 Copynumber: 5.4 Consensus size: 14
103622 AATATATTTG
103632 TTTATGTGCGTTCA
1 TTTATGTGCGTTCA
103646 TTTA--T--GTTCA
1 TTTATGTGCGTTCA
*
103656 TTTATCTGCGTTCA
1 TTTATGTGCGTTCA
103670 TTTA--T--GTTCA
1 TTTATGTGCGTTCA
103680 TTTATGTGCGTTCA
1 TTTATGTGCGTTCA
103694 TTTATG
1 TTTATG
103700 GTTAGTTCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
10 18 0.39
12 4 0.09
14 24 0.52
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.54
Consensus pattern (14 bp):
TTTATGTGCGTTCA
Found at i:103656 original size:10 final size:10
Alignment explanation
Indices: 103641--103686 Score: 56
Period size: 10 Copynumber: 4.2 Consensus size: 10
103631 GTTTATGTGC
103641 GTTCATTTAT
1 GTTCATTTAT
103651 GTTCATTTATCT
1 GTTCATTTA--T
103663 GCGTTCATTTAT
1 --GTTCATTTAT
103675 GTTCATTTAT
1 GTTCATTTAT
103685 GT
1 GT
103687 GCGTTCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
10 21 0.66
12 2 0.06
14 9 0.28
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.57
Consensus pattern (10 bp):
GTTCATTTAT
Found at i:103660 original size:24 final size:24
Alignment explanation
Indices: 103632--103699 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
103622 AATATATTTG
103632 TTTATGTGCGTTCATTTATGTTCA
1 TTTATGTGCGTTCATTTATGTTCA
*
103656 TTTATCTGCGTTCATTTATGTTCA
1 TTTATGTGCGTTCATTTATGTTCA
103680 TTTATGTGCGTTCATTTATG
1 TTTATGTGCGTTCATTTATG
103700 GTTAGTTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.54
Consensus pattern (24 bp):
TTTATGTGCGTTCATTTATGTTCA
Found at i:103906 original size:24 final size:24
Alignment explanation
Indices: 103878--103938 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
103868 ATTTATGTTA
* * *
103878 GTTTATATTCGTTTACGTTCGTTC
1 GTTTATATTCATTTACATCCGTTC
*
103902 GTTTATGTTCATTTACATCCGTTC
1 GTTTATATTCATTTACATCCGTTC
* *
103926 ATTTATGTTCATT
1 GTTTATATTCATT
103939 CATTTGTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.16, C:0.16, G:0.13, T:0.54
Consensus pattern (24 bp):
GTTTATATTCATTTACATCCGTTC
Found at i:104042 original size:16 final size:16
Alignment explanation
Indices: 104021--104060 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
104011 AGAAATTTTT
104021 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
104037 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
104053 TGTTCGTT
1 TGTTCGTT
104061 CATTTGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.12, G:0.25, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:106037 original size:6 final size:6
Alignment explanation
Indices: 106026--106114 Score: 178
Period size: 6 Copynumber: 14.8 Consensus size: 6
106016 TAGGACATAT
106026 ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG
1 ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG
106074 ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGG
1 ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGGG
106115 ATCGGTTTTT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 83 1.00
ACGTcount: A:0.17, C:0.00, G:0.66, T:0.17
Consensus pattern (6 bp):
ATGGGG
Found at i:106673 original size:31 final size:31
Alignment explanation
Indices: 106603--106678 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
106593 TGGTTGTTAG
*
106603 TGACCGATTTGTTACAAAACGATAATATTAA
1 TGACCAATTTGTTACAAAACGATAATATTAA
* * * **
106634 TGATCAATTTGTTATAAATCGATAATATTTT
1 TGACCAATTTGTTACAAAACGATAATATTAA
*
106665 TGACCAATTAGTTA
1 TGACCAATTTGTTA
106679 GTTTTGTAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (31 bp):
TGACCAATTTGTTACAAAACGATAATATTAA
Found at i:107751 original size:60 final size:59
Alignment explanation
Indices: 107655--107781 Score: 141
Period size: 60 Copynumber: 2.1 Consensus size: 59
107645 CCAATTAATT
* *
107655 TTTTAATAATCGAAGGATTCAACAAAACGACATCCTATAATCAAG-GAATAGTTTTTACAAC
1 TTTTAATAATCG-AGGATTCAACAAAACAACATCCTATAATCAAGAGAATA-TTTATAC-AC
* * * * *
107716 TTTTAATAATCG-GGAATTCAATAAAATAATATCCTATACTCAAGAGATTATTTATACAC
1 TTTTAATAATCGAGG-ATTCAACAAAACAACATCCTATAATCAAGAGAATATTTATACAC
107775 TTTTAAT
1 TTTTAAT
107782 TTTGAACTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 11 0.19
60 30 0.53
61 16 0.28
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (59 bp):
TTTTAATAATCGAGGATTCAACAAAACAACATCCTATAATCAAGAGAATATTTATACAC
Found at i:112373 original size:20 final size:20
Alignment explanation
Indices: 112350--112392 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
112340 TAAATTTTCT
*
112350 TTTTATAGTTGAA-ATTTATA
1 TTTTATA-TAGAATATTTATA
*
112370 TTTTTTATAGAATATTTATA
1 TTTTATATAGAATATTTATA
112390 TTT
1 TTT
112393 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTATATAGAATATTTATA
Found at i:112674 original size:15 final size:15
Alignment explanation
Indices: 112654--112735 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
112644 TTCCATAAAA
*
112654 TGAATTACTAGAATT
1 TGAATTACTGGAATT
112669 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
112684 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
112699 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
112714 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
112728 TGAATTAC
1 TGAATTAC
112736 ATTTCTGTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
14 12 0.20
15 47 0.80
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:112714 original size:45 final size:44
Alignment explanation
Indices: 112650--112735 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 44
112640 GGTTTTCCAT
**
112650 AAAATGAATTACTAGAATTTGAATTACTGGAATTTGAATTACTGG
1 AAAATGAATTACTAGAATTTGAATT-CTGGAAAATGAATTACTGG
*
112695 AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 AAAATGAATTACTAGAATTTGAATTCTGGAAAATGAATTAC
112736 ATTTCTGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 14 0.37
45 24 0.63
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (44 bp):
AAAATGAATTACTAGAATTTGAATTCTGGAAAATGAATTACTGG
Found at i:112733 original size:29 final size:30
Alignment explanation
Indices: 112654--112735 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
112644 TTCCATAAAA
* **
112654 TGAATTACTAGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
112684 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
112714 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
112736 ATTTCTGTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:112741 original size:20 final size:20
Alignment explanation
Indices: 112718--112787 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
112708 GGAATTTGAA
112718 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
112738 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
112758 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
112778 TTCTAGAAAA
1 TTCTGGAAAA
112788 CATCTGGAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:112995 original size:28 final size:28
Alignment explanation
Indices: 112953--113118 Score: 109
Period size: 28 Copynumber: 5.9 Consensus size: 28
112943 CTTTACTAAA
112953 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAATAATATTAT
*
112982 -TCATTATTAAATATATAAAAAAATTTATTAT
1 AT-ATTATTAAATATAT-AAATAA--TATTAT
*
113013 ATATTATTAAA-ATAAAAATAATATCT-T
1 ATATTATTAAATATATAAATAATAT-TAT
* * * *
113040 ATATTATTATA-ATATAATTGATTATTTT
1 ATATTATTAAATATATAAAT-AATATTAT
*
113068 ATAATATTAAA-A-AT--ATAATATTAT
1 ATATTATTAAATATATAAATAATATTAT
113092 ATTATTA-TAAATATTAATAAAT-ATATT
1 A-TATTATTAAATA-T-ATAAATAATATT
113119 TTAAATATTT
Statistics
Matches: 109, Mismatches: 13, Indels: 30
0.72 0.09 0.20
Matches are distributed among these distances:
24 11 0.10
25 6 0.06
27 23 0.21
28 27 0.25
29 21 0.19
30 5 0.05
31 15 0.14
32 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATTATTAAATATATAAATAATATTAT
Found at i:113078 original size:55 final size:52
Alignment explanation
Indices: 112970--113127 Score: 135
Period size: 52 Copynumber: 2.9 Consensus size: 52
112960 TGAAATATAT
* * * *
112970 AAATAATATTATTCATTATTA-AATATATAAAAAAATTTATTATATATTATTAAAATAA
1 AAATAATATTA-T-ATTATTATAA-ATATTAATAAA-TTATTTTATAATATT--AA-AA
**
113028 AAATAATATCTTATATTATTAT-AATA-TAATTGATTATTTTATAATATTAAAA
1 AAATAATA--TTATATTATTATAAATATTAATAAATTATTTTATAATATTAAAA
*
113080 ATATAATATTATATTATTATAAATATTAATAAATATATTTTA-AATATT
1 AAATAATATTATATTATTATAAATATTAATAAAT-TATTTTATAATATT
113128 TTAATAATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
50 12 0.14
51 4 0.05
52 21 0.25
53 9 0.11
55 13 0.15
56 3 0.04
57 3 0.04
58 16 0.19
59 1 0.01
60 3 0.04
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (52 bp):
AAATAATATTATATTATTATAAATATTAATAAATTATTTTATAATATTAAAA
Found at i:113087 original size:34 final size:32
Alignment explanation
Indices: 113047--113116 Score: 88
Period size: 32 Copynumber: 2.1 Consensus size: 32
113037 CTTATATTAT
*
113047 TATAATATAATTGATTATTTTATAATATTAA-AAA
1 TATAATATAA-T-ATTATTATA-AATATTAATAAA
*
113081 TATAATATTATATTATTATAAATATTAATAAA
1 TATAATATAATATTATTATAAATATTAATAAA
113113 TATA
1 TATA
113117 TTTTAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 8 0.24
32 15 0.45
33 1 0.03
34 9 0.27
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (32 bp):
TATAATATAATATTATTATAAATATTAATAAA
Found at i:113097 original size:22 final size:24
Alignment explanation
Indices: 113066--113142 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 24
113056 ATTGATTATT
*
113066 TTATAATATTAAAAATA-TAAT-A
1 TTATATTATTAAAAATATTAATAA
*
113088 TTATATTATTATAAATATTAATAA
1 TTATATTATTAAAAATATTAATAA
* * *
113112 ATATATT-TTAAATATTTTAATAA
1 TTATATTATTAAAAATATTAATAA
113135 TTAATATT
1 TT-ATATT
113143 TTGATGAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
22 15 0.33
23 18 0.40
24 12 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTATATTATTAAAAATATTAATAA
Found at i:113097 original size:50 final size:52
Alignment explanation
Indices: 113011--113127 Score: 138
Period size: 50 Copynumber: 2.3 Consensus size: 52
113001 AAAATTTATT
* **
113011 ATATATTATTAAA-A-TAAAAATAATATCTTATATTATTAT-AATA-TAATTG
1 ATATATT-TTAAATATTAAAAATAATATATTATATTATTATAAATATTAATAA
113060 AT-TATTTTATAATATTAAAAAT-ATAATATTATATTATTATAAATATTAATAA
1 ATATATTTTA-AATATTAAAAATAAT-ATATTATATTATTATAAATATTAATAA
113112 ATATATTTTAAATATT
1 ATATATTTTAAATATT
113128 TTAATAATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
47 3 0.05
48 6 0.10
49 5 0.09
50 21 0.36
51 4 0.07
52 12 0.21
53 7 0.12
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (52 bp):
ATATATTTTAAATATTAAAAATAATATATTATATTATTATAAATATTAATAA
Found at i:113381 original size:42 final size:42
Alignment explanation
Indices: 113316--113435 Score: 186
Period size: 42 Copynumber: 2.9 Consensus size: 42
113306 ATGAATTACA
* *
113316 TTCCGGAAAACGAATTACGTGAAATAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* * *
113358 TTTCGGAAAACGAATTACATGAAACAAACACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
113400 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
113436 TTCGAGGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.18
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:114104 original size:16 final size:16
Alignment explanation
Indices: 114085--114156 Score: 55
Period size: 15 Copynumber: 4.8 Consensus size: 16
114075 TATTTTTTAA
114085 TTTTATTATATTATAC
1 TTTTATTATATTATAC
* * *
114101 TTTTATTTTTTTA-AT
1 TTTTATTATATTATAC
* *
114116 TTTTAATA-ATTCTAC
1 TTTTATTATATTATAC
*
114131 TTTTATAATA-TATA-
1 TTTTATTATATTATAC
114145 TTTT-TTATATTA
1 TTTTATTATATTA
114157 GTAGCACATT
Statistics
Matches: 41, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
13 4 0.10
14 8 0.20
15 17 0.41
16 12 0.29
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTATTATATTATAC
Found at i:114113 original size:30 final size:30
Alignment explanation
Indices: 114077--114136 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
114067 GTATTAATTA
*
114077 TTTTTTAA-TTTTATTATATTATACTTTTAT
1 TTTTTTAATTTTTAATA-ATTATACTTTTAT
*
114107 TTTTTTAATTTTTAATAATTCTACTTTTAT
1 TTTTTTAATTTTTAATAATTATACTTTTAT
114137 AATATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (30 bp):
TTTTTTAATTTTTAATAATTATACTTTTAT
Found at i:115556 original size:60 final size:59
Alignment explanation
Indices: 115492--115618 Score: 157
Period size: 59 Copynumber: 2.1 Consensus size: 59
115482 ATAGTCGGAT
* * * * *
115492 GACCATTTCGTAACTTTTCATAGTCGA-AGGACTCAACAAAATAACATCATATAGTCGAGG
1 GACCATTTCATAACTTTTAATAAT-GAGAGGACTCAA-AAAATAACATCATATAATCGAAG
* * *
115552 GACCATTTTATAATTTTTAATAATGAGAGGACTCAAAAAATAACATCATATAATTGAAG
1 GACCATTTCATAACTTTTAATAATGAGAGGACTCAAAAAATAACATCATATAATCGAAG
115611 GACCATTT
1 GACCATTT
115619 GTGTGCTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 30 0.52
60 28 0.48
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (59 bp):
GACCATTTCATAACTTTTAATAATGAGAGGACTCAAAAAATAACATCATATAATCGAAG
Found at i:117188 original size:37 final size:37
Alignment explanation
Indices: 117115--117188 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
117105 TTATATTTTA
*
117115 AATTTTGTAAAAAAAATTATATAAATATTATGAATTT
1 AATTTTGTAAAAAAAATTATATAAATATTATCAATTT
* * *
117152 AATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 AATTTTGTAAAAAAAATTATATAAATATTAT-CAATTT
117189 GTAATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
AATTTTGTAAAAAAAATTATATAAATATTATCAATTT
Found at i:117370 original size:20 final size:20
Alignment explanation
Indices: 117334--117371 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
117324 ATCATATTTC
**
117334 CTGGTAATCTTTTATTCTCA
1 CTGGTAATCTTACATTCTCA
117354 CTGGTAATCTTACATTCT
1 CTGGTAATCTTACATTCT
117372 GTGAACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (20 bp):
CTGGTAATCTTACATTCTCA
Found at i:117736 original size:2 final size:2
Alignment explanation
Indices: 117729--117756 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
117719 AAGACATGTT
117729 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
117757 ACATGATGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:118613 original size:2 final size:2
Alignment explanation
Indices: 118606--118637 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
118596 TGAGATTTTA
118606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118638 CGGGTAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:130043 original size:16 final size:17
Alignment explanation
Indices: 130022--130054 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
130012 CAAATAGTTT
130022 TAAAATAT-ATTATTTA
1 TAAAATATAATTATTTA
130038 TAAAATATAATTATTTA
1 TAAAATATAATTATTTA
130055 AAATAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAAATATAATTATTTA
Found at i:132114 original size:19 final size:20
Alignment explanation
Indices: 132090--132133 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
132080 GGATCGAAAA
132090 TAAAAACAAATCTT-TAATT
1 TAAAAACAAATCTTATAATT
* *
132109 TAAAAAGAAATGTTACTAATT
1 TAAAAACAAATCTTA-TAATT
132130 TAAA
1 TAAA
132134 CTTATTACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.34
Consensus pattern (20 bp):
TAAAAACAAATCTTATAATT
Found at i:132738 original size:15 final size:16
Alignment explanation
Indices: 132720--132752 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
132710 AATTCTAATT
132720 ATTTAAAT-AAAAATC
1 ATTTAAATAAAAAATC
*
132735 ATTTACATAAAAAATC
1 ATTTAAATAAAAAATC
132751 AT
1 AT
132753 CGATAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTTAAATAAAAAATC
Found at i:137374 original size:31 final size:31
Alignment explanation
Indices: 137339--137405 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
137329 TTTAATATTT
137339 AAACTATTAATTTTGGTATGGTGTAATACTC
1 AAACTATTAATTTTGGTATGGTGTAATACTC
* *
137370 AAACTATTAATTTTGGTATGTTTTAATACTC
1 AAACTATTAATTTTGGTATGGTGTAATACTC
137401 AAACT
1 AAACT
137406 TTTATTTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (31 bp):
AAACTATTAATTTTGGTATGGTGTAATACTC
Found at i:138140 original size:2 final size:2
Alignment explanation
Indices: 138133--138199 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
138123 TTTTAATCTC
138133 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
138175 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 A
138200 CCTCAATCAA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:143090 original size:16 final size:16
Alignment explanation
Indices: 143040--143094 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
143030 ACTCAAATTA
143040 AAAGTAAT-CAGAACTG
1 AAAGTAATCCA-AACTG
*
143056 AAAGTAATCCAAACCG
1 AAAGTAATCCAAACTG
*
143072 AAAGTAGCTCC-AACTG
1 AAAGTA-ATCCAAACTG
143088 AAAGTAA
1 AAAGTAA
143095 ACTGAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 28 0.85
17 5 0.15
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.16
Consensus pattern (16 bp):
AAAGTAATCCAAACTG
Found at i:144355 original size:32 final size:32
Alignment explanation
Indices: 144312--144384 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
144302 GACCAATTCA
* * *
144312 ATGTTGGTTTGATCTGAAAATTGAT-TGATTTG
1 ATGTTGATTTGATCTAAAAAGT-ATATGATTTG
144344 ATGTTGATTTGATCTAAAAAGTATATGATTTG
1 ATGTTGATTTGATCTAAAAAGTATATGATTTG
*
144376 ATATTGATT
1 ATGTTGATT
144385 CGATGTGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 2 0.06
32 34 0.94
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.47
Consensus pattern (32 bp):
ATGTTGATTTGATCTAAAAAGTATATGATTTG
Found at i:148918 original size:24 final size:24
Alignment explanation
Indices: 148857--148920 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
148847 AAATTATACA
* *
148857 TTTGTAGCACA-TTTATCTATGTC
1 TTTGTGGCACATTTTTTCTATGTC
* * **
148880 TTTATGACATGTTTTTTCTATGTC
1 TTTGTGGCACATTTTTTCTATGTC
148904 TTTGTGGCACATTTTTT
1 TTTGTGGCACATTTTTT
148921 GTCTTCTTTT
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
23 6 0.20
24 24 0.80
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (24 bp):
TTTGTGGCACATTTTTTCTATGTC
Found at i:150385 original size:24 final size:23
Alignment explanation
Indices: 150354--150398 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
150344 TTTTTATGAT
*
150354 ACATTTTTCTATGCTCTTGTGGC
1 ACATTTTTCTATACTCTTGTGGC
*
150377 ACATATTTTCTCTACTCTTGTG
1 ACAT-TTTTCTATACTCTTGTG
150399 ATAGGATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.16, C:0.22, G:0.13, T:0.49
Consensus pattern (23 bp):
ACATTTTTCTATACTCTTGTGGC
Found at i:164291 original size:8 final size:8
Alignment explanation
Indices: 164272--164331 Score: 54
Period size: 8 Copynumber: 7.9 Consensus size: 8
164262 TTTGCTTGAA
164272 GAAAAAA-
1 GAAAAAAT
164279 G-AAAAAT
1 GAAAAAAT
164286 GAAAAAA-
1 GAAAAAAT
* *
164293 AAAAAAAA
1 GAAAAAAT
* *
164301 AAAAAAAA
1 GAAAAAAT
*
164309 AAAAAAAT
1 GAAAAAAT
164317 GAAAAAAT
1 GAAAAAAT
164325 GAAAAAA
1 GAAAAAA
164332 AAGGAAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
6 5 0.11
7 8 0.17
8 34 0.72
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (8 bp):
GAAAAAAT
Found at i:164309 original size:31 final size:32
Alignment explanation
Indices: 164273--164345 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
164263 TTGCTTGAAG
164273 AAAAAAGAAAAATGAAAAAA-AAAAAAAAAAA
1 AAAAAAGAAAAATGAAAAAAGAAAAAAAAAAA
* **
164304 AAAAAAAAAAAATGAAAAAATGAAAAAAAAGGA
1 AAAAAAGAAAAATGAAAAAA-GAAAAAAAAAAA
164337 AAAAAAGAA
1 AAAAAAGAA
164346 GGGTTCAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 19 0.53
33 17 0.47
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (32 bp):
AAAAAAGAAAAATGAAAAAAGAAAAAAAAAAA
Found at i:164333 original size:1 final size:1
Alignment explanation
Indices: 164273--164315 Score: 59
Period size: 1 Copynumber: 43.0 Consensus size: 1
164263 TTGCTTGAAG
* **
164273 AAAAAAGAAAAATGAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
164316 TGAAAAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.93, C:0.00, G:0.05, T:0.02
Consensus pattern (1 bp):
A
Found at i:164341 original size:8 final size:7
Alignment explanation
Indices: 164270--164331 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 7
164260 ATTTTGCTTG
164270 AAGAAAA
1 AAGAAAA
164277 AAGAAAA
1 AAGAAAA
*
164284 ATGAAAA
1 AAGAAAA
164291 AA-AAAA
1 AAGAAAA
164297 AA-AAAA
1 AAGAAAA
164303 AA-AAAA
1 AAGAAAA
164309 AA-AAAA
1 AAGAAAA
*
164315 ATGAAAA
1 AAGAAAA
164322 AATGAAAA
1 AA-GAAAA
164330 AA
1 AA
164332 AAGGAAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
6 23 0.47
7 19 0.39
8 7 0.14
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (7 bp):
AAGAAAA
Found at i:164343 original size:9 final size:8
Alignment explanation
Indices: 164273--164345 Score: 71
Period size: 7 Copynumber: 9.1 Consensus size: 8
164263 TTGCTTGAAG
164273 AAAAAAG-
1 AAAAAAGA
*
164280 AAAAATGA
1 AAAAAAGA
164288 AAAAAA-A
1 AAAAAAGA
164295 AAAAAA-A
1 AAAAAAGA
*
164302 AAAAAAAA
1 AAAAAAGA
164310 AAAAAATGA
1 AAAAAA-GA
*
164319 AAAAATGAA
1 AAAAAAG-A
164328 AAAAAAGGA
1 AAAAAA-GA
164337 AAAAAAGA
1 AAAAAAGA
164345 A
1 A
164346 GGGTTCAAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
7 20 0.36
8 16 0.29
9 19 0.34
10 1 0.02
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (8 bp):
AAAAAAGA
Found at i:165416 original size:51 final size:52
Alignment explanation
Indices: 165284--165529 Score: 207
Period size: 51 Copynumber: 4.9 Consensus size: 52
165274 GATTGTTCGA
* * *
165284 GTCTCATACTCT-TGAAGAAATAGGGAGCAGACGCAATTGATGAAGATTGTGG
1 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATCGT-G
* *
165336 GTCTTATACTCTCTGAAG-AATAGGG-GCAGACACAATCGTTGAAGATCGT-
1 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATCGTG
* * *
165385 TTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATCG-A
1 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATCGTG
* * ** *
165436 GT-TC-TA-TCTCTTAAGAAAGATA-GGAGC-GAC-C-GTTGAAG-AGAT-GTCTA
1 GTCTCATACTCTCTGAAG-AA-ATAGGGAGCAGACACAATTGTTGAAGATCG--TG
* *
165483 GT-TCATACTCCCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGAT
1 GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGAT
165530 ATTCGAGTTC
Statistics
Matches: 159, Mismatches: 19, Indels: 32
0.76 0.09 0.15
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 4 0.03
47 9 0.06
48 20 0.13
49 35 0.22
50 13 0.08
51 46 0.29
52 22 0.14
53 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (52 bp):
GTCTCATACTCTCTGAAGAAATAGGGAGCAGACACAATTGTTGAAGATCGTG
Found at i:165555 original size:54 final size:51
Alignment explanation
Indices: 165400--165758 Score: 233
Period size: 47 Copynumber: 7.3 Consensus size: 51
165390 ATACTCTCTG
165400 AAGAAATAGGGAGCAGACACGATTGTTGAAG--A-TCGAGTTCTAT-CT-CTT-
1 AAGAAATAGGGAGC-GACACG--TGTTGAAGATATTCGAGTTCTATACTCCTTA
* * * *
165448 AAGAAAGATA-GGAGCGAC-C--GTTGAAGAGATGTCTAGTTC-ATACTCCCTG
1 AAG-AA-ATAGGGAGCGACACGTGTTGAAGATAT-TCGAGTTCTATACTCCTTA
*
165497 AAGAAATAGGGAGCAGACACGATTGTTGAAGATATTCGAGTTCTATTCTCCTTA
1 AAGAAATAGGGAGC-GACACG--TGTTGAAGATATTCGAGTTCTATACTCCTTA
* * * *
165551 AAGAAAGAAGGAGCGAACCCGT-TTGAAGATGTTCGAGTTCTATACTCCTTA
1 AAGAAATAGGGAGCG-ACACGTGTTGAAGATATTCGAGTTCTATACTCCTTA
* * ** *
165602 AAGAAAGA-AG-GCGA-ACCCGTTGAAGATGTTCGAGTT-TATACTCCTTA
1 AAGAAATAGGGAGCGACACGTGTTGAAGATATTCGAGTTCTATACTCCTTA
* * * * *
165649 AAGAAAGAAGGAGCGAACCCGT-TTGAAGATGTTCGAGTTCTATACT-CTCTG
1 AAGAAATAGGGAGCG-ACACGTGTTGAAGATATTCGAGTTCTATACTCCT-TA
* * * *
165700 AAG-AATAGGGAGCAACAC--GTT-AAGATTTTC-AGTTCTATACTCCCTG
1 AAGAAATAGGGAGCGACACGTGTTGAAGATATTCGAGTTCTATACTCCTTA
*
165746 AAGAAAGAGGGAG
1 AAGAAATAGGGAG
165759 AACCCGTTTG
Statistics
Matches: 255, Mismatches: 28, Indels: 57
0.75 0.08 0.17
Matches are distributed among these distances:
43 7 0.03
45 1 0.00
46 18 0.07
47 50 0.20
48 36 0.14
49 22 0.09
50 33 0.13
51 46 0.18
52 1 0.00
53 8 0.03
54 33 0.13
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (51 bp):
AAGAAATAGGGAGCGACACGTGTTGAAGATATTCGAGTTCTATACTCCTTA
Found at i:165644 original size:47 final size:51
Alignment explanation
Indices: 165432--165818 Score: 334
Period size: 51 Copynumber: 7.8 Consensus size: 51
165422 TTGTTGAAGA
165432 TCGAGTTCTAT-CT-CTT-AAGAAAGATAGGAGCG-A-CCG-TTGAAGA-GAT
1 TCGAGTTCTATACTCCTTAAAGAAAGA-AGGAGCGAACCCGTTTGAAGATG-T
* * * * * * *
165478 GTCTAGTTC-ATACTCCCTGAAGAAATAGGGAGC-AGACACGATTGTTGAAGATAT
1 -TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGA-ACCCG--T-TTGAAGATGT
*
165532 TCGAGTTCTATTCTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGT
1 TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGT
165583 TCGAGTTCTATACTCCTTAAAGAAAGAA-G-GCGAACCCG-TTGAAGATGT
1 TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGT
165631 TCGAGTT-TATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGT
1 TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGT
* * *
165681 TCGAGTTCTATACT-CTCTGAAGAATAG--GGAGC-AACACG-TT-AAGATTT
1 TCGAGTTCTATACTCCT-TAAAGAA-AGAAGGAGCGAACCCGTTTGAAGATGT
* * * *
165728 TC-AGTTCTATACTCCCTGAAGAAAG-AGG-GAGAACCCGTTTGCAGAAGATTT
1 TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTT---GAAGATGT
* * * *
165779 TCAAGTTCTATACTCCCTGAAG-AAGAGGGAGCGAACCCGT
1 TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT
165819 AGGCAAAAGA
Statistics
Matches: 287, Mismatches: 23, Indels: 54
0.79 0.06 0.15
Matches are distributed among these distances:
45 3 0.01
46 27 0.09
47 40 0.14
48 27 0.09
49 31 0.11
50 27 0.09
51 60 0.21
52 24 0.08
53 16 0.06
54 31 0.11
55 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (51 bp):
TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGT
Found at i:165661 original size:98 final size:100
Alignment explanation
Indices: 165432--165810 Score: 364
Period size: 98 Copynumber: 3.8 Consensus size: 100
165422 TTGTTGAAGA
*
165432 TCGAGTTCTAT-CT-CTT-AAGAAAGATAGGAGCG-A-CCG-TTGAAGA-GATGTCTAGTTC-AT
1 TCGAGTTCTATACTCCTTAAAGAAAGA-AGGAGCGAACCCGTTTGAAGATG-T-TCGAGTTCTAT
*
165489 ACTCC-CTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATAT
63 ACTCCTCTAAAG-AATAGGGAGCA-ACAC----GTTGAAGATAT
*
165532 TCGAGTTCTATTCTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACT
1 TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACT
* * *
165597 CCT-TAAAGAA-A-GAAGGCGAACCCGTTGAAGATGT
66 CCTCTAAAGAATAGGGA-GC-AACACGTTGAAGATAT
165631 TCGAGTT-TATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACT
1 TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACT
* *
165695 -CTCTGAAGAATAGGGAGCAACACGTT-AAGATTT
66 CCTCTAAAGAATAGGGAGCAACACGTTGAAGATAT
* * * * *
165728 TC-AGTTCTATACTCCCTGAAGAAAG-AGG-GAGAACCCGTTTGCAGAAGATTTTCAAGTTCTAT
1 TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTT---GAAGATGTTCGAGTTCTAT
* *
165790 ACTCC-CTGAAGAAGAGGGAGC
63 ACTCCTCTAAAGAATAGGGAGC
165811 GAACCCGTAG
Statistics
Matches: 244, Mismatches: 16, Indels: 40
0.81 0.05 0.13
Matches are distributed among these distances:
95 11 0.05
96 7 0.03
97 26 0.11
98 104 0.43
99 21 0.09
100 13 0.05
101 2 0.01
102 12 0.05
103 15 0.06
104 13 0.05
105 19 0.08
106 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (100 bp):
TCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACT
CCTCTAAAGAATAGGGAGCAACACGTTGAAGATAT
Found at i:165846 original size:53 final size:53
Alignment explanation
Indices: 165721--165869 Score: 162
Period size: 53 Copynumber: 2.8 Consensus size: 53
165711 GCAACACGTT
* ** *
165721 AAGATTTTC-AGTTCTATACTCCCTGAAGAAAGAGGGA--GAACCCGTTTGCAG
1 AAGATTTACAAGTTCTATACTCCCTGAAG-AAGAGGGAGCGAACCCGTAGGCAA
*
165772 AAGATTTTCAAGTTCTATACTCCCTGAAGAAGAGGGAGCGAACCCGTAGGCAA
1 AAGATTTACAAGTTCTATACTCCCTGAAGAAGAGGGAGCGAACCCGTAGGCAA
* * * *
165825 AAGATTGTACGAGTT-TCTACTCCATGAAGGAATAGGGAGCGAACC
1 AAGATT-TACAAGTTCTATACTCCCTGAA-GAAGAGGGAGCGAACC
165870 TGTTGTCTGA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
51 17 0.20
52 19 0.22
53 28 0.33
54 21 0.25
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGATTTACAAGTTCTATACTCCCTGAAGAAGAGGGAGCGAACCCGTAGGCAA
Found at i:170323 original size:45 final size:45
Alignment explanation
Indices: 170218--170351 Score: 148
Period size: 45 Copynumber: 3.0 Consensus size: 45
170208 GAGCAGATTG
* * * * *
170218 AAAGAGGAGTCAACCTTTTAGTATTGTC-TTCCTGACTTTATCTTGT
1 AAAGAGAAGTCAATCTTTTAGTGTTGTCATTCTTGAC-TT-TCTCGT
* *
170264 AGA-AGAA-TCGATCTTTTAGTGTTGTCATTCTTGACTTTCTCGT
1 AAAGAGAAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGT
* *
170307 AAAGAGAAGTCAATCTTTCAGTGTTGTGATTCTTGACTTTCTCGT
1 AAAGAGAAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGT
170352 GTAGAAGAGT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
43 7 0.09
44 22 0.30
45 43 0.58
46 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (45 bp):
AAAGAGAAGTCAATCTTTTAGTGTTGTCATTCTTGACTTTCTCGT
Found at i:171211 original size:160 final size:161
Alignment explanation
Indices: 171036--171527 Score: 571
Period size: 160 Copynumber: 3.0 Consensus size: 161
171026 TCTTATCTCA
*
171036 CTGAATGAATAGTAGAGCAGACATGTCTTCCAAAATAGATATGTCTACCCGAAAGAGAGGCACAT
1 CTGAATGAATAGTAGAGCAGACATGTCTTCCAAAATAGATATGTCTACCCGAAAAAGAGGCACAT
*
171101 ATCAAGTCTAATTTCCCTGAATGAATAGTGGAGCATACATCTTTCAAAATAGATCTGTCTACCCG
66 ATCAAGTCTAATTTCCCTGAATGAATAGTGGAGCAAACATCTTTCAAAATAGATCTGTCTACCCG
* * *
171166 AAAAAGAGGTACAGATCAAGTCTGATTT-TC
131 AAAAAGAGGAACAAATCAAGTCTGATTTCCC
* *
171196 CTGAATGAATAGTAGAGCAGACACT-TCTTCCAAAATATATATGTCTACCCAAAAAAGAGGCACA
1 CTGAATGAATAGTAGAGCAGACA-TGTCTTCCAAAATAGATATGTCTACCCGAAAAAGAGGCACA
*
171260 TATCAAGTCTACTATTTCCCCTGAATGAATAGTGGAGTAAACACGTCTTTCAAAATAGATCTGTC
65 TATCAAGTCTA--ATTT-CCCTGAATGAATAGTGGAGCAAACA--TCTTTCAAAATAGATCTGTC
* *
171325 TACCTGAAAAAAGAGGCACAAATCAAGTCTGATTTCCC
125 TACCCG-AAAAAGAGGAACAAATCAAGTCTGATTTCCC
* * * * * * * * *
171363 CTGAATGAATAGTAGAGTATACACGTCTTCTAAAATTG--ATGACTACCTGAAAAAGAAGAACAT
1 CTGAATGAATAGTAGAGCAGACATGTCTTCCAAAATAGATATGTCTACCCGAAAAAGAGGCACAT
* * ** * * * * * * *
171426 ATCAAGTCTGATCTCCCTGAAAAAAGAGTGGAACAGATCATC-TTCTAAATTTGATCCGACTACC
66 ATCAAGTCTAATTTCCCTGAATGAATAGTGGAGCA-AACATCTTTC-AAAATAGATCTGTCTACC
* * *
171490 CGAAAAAGAGGAACATATCAAGTTTGATTTACC
129 CGAAAAAGAGGAACAAATCAAGTCTGATTTCCC
171523 CTGAA
1 CTGAA
171528 AGAAAAAGCG
Statistics
Matches: 284, Mismatches: 37, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
160 105 0.37
161 18 0.06
162 20 0.07
163 29 0.10
165 54 0.19
166 26 0.09
167 32 0.11
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (161 bp):
CTGAATGAATAGTAGAGCAGACATGTCTTCCAAAATAGATATGTCTACCCGAAAAAGAGGCACAT
ATCAAGTCTAATTTCCCTGAATGAATAGTGGAGCAAACATCTTTCAAAATAGATCTGTCTACCCG
AAAAAGAGGAACAAATCAAGTCTGATTTCCC
Found at i:171579 original size:83 final size:81
Alignment explanation
Indices: 171036--171588 Score: 492
Period size: 79 Copynumber: 6.8 Consensus size: 81
171026 TCTTATCTCA
* * * * *
171036 CTGAATGAATAGTAGAGCAGACATGTCTTCCAAAATAGATATGTCTACCCGAAAGAGAGGCACAT
1 CTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGAACAT
*
171101 ATCAAGTCTAATTTCC
66 ATCAAGTCTGATTTCC
* * * * * *
171117 CTGAATGAATAGTGGAGCATACA--TCTTTCAAAATAGATCTGTCTACCCGAAAAAGAGGTACAG
1 CTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGAACAT
*
171180 ATCAAGTCTGATTTTC
66 ATCAAGTCTGATTTCC
* * * *
171196 CTGAATGAATAGTAGAGCAGACACTTCTTCCAAAATAT-ATATGTCTACCCAAAAAAGAGGCACA
1 CTGAATGAATAGTGGAGCAGACACGTCTTCCAAAAT-TGATATGTCTACCCGAAAAAGAGGAACA
*
171260 TATCAAGTCTACTATTTCCC
65 TATCAAGTCT--GATTT-CC
* * * * * * *
171280 CTGAATGAATAGTGGAGTAAACACGTCTTTCAAAATAGATCTGTCTACCTGAAAAAAGAGGCACA
1 CTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATATGTCTACCCG-AAAAAGAGGAACA
*
171345 AATCAAGTCTGATTTCCC
65 TATCAAGTCTGATTT-CC
* * * * * * *
171363 CTGAATGAATAGTAGAGTATACACGTCTTCTAAAATTG--ATGACTACCTGAAAAAGAAGAACAT
1 CTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGAACAT
*
171426 ATCAAGTCTGATCTCC
66 ATCAAGTCTGATTTCC
** * * * * ** *
171442 CTGAAAAAAGAGTGGAACAGATCA--TCTTCTAAATTTGATCCGACTACCCGAAAAAGAGGAACA
1 CTGAATGAATAGTGGAGCAGA-CACGTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGAACA
*
171505 TATCAAGTTTGATTTACC
65 TATCAAGTCTGATTT-CC
* * * * * *
171523 CTGAAAGAAAAAGCGGAGC-GAACCCGTCTTCCAAAATTGATATGGCTACCCAAAAAAAAGAGGA
1 CTGAATG-AATAGTGGAGCAG-ACACGTCTTCCAAAATTGATATGTCTACCC--GAAAAAGAGGA
171587 AC
62 AC
171589 CTAAATTGAT
Statistics
Matches: 388, Mismatches: 66, Indels: 32
0.80 0.14 0.07
Matches are distributed among these distances:
78 12 0.03
79 86 0.22
80 59 0.15
81 82 0.21
82 9 0.02
83 64 0.16
84 42 0.11
85 34 0.09
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (81 bp):
CTGAATGAATAGTGGAGCAGACACGTCTTCCAAAATTGATATGTCTACCCGAAAAAGAGGAACAT
ATCAAGTCTGATTTCC
Done.