Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009218.1 Hibiscus syriacus cultivar Beakdansim tig00112807_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: 103523
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:314 original size:30 final size:31
Alignment explanation
Indices: 268--342 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
258 TTAAAAAACA
*
268 TAAGATATGGTCACTTTTG-TTTTATTTAAT
1 TAAGATGTGGTCACTTTTGTTTTTATTTAAT
* *
298 TAAGGTGTGGTTACTTTTGTTTTTATTTAAT
1 TAAGATGTGGTCACTTTTGTTTTTATTTAAT
329 TAAGATGTGGTCAC
1 TAAGATGTGGTCAC
343 CCCTAGTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 16 0.41
31 23 0.59
ACGTcount: A:0.24, C:0.07, G:0.19, T:0.51
Consensus pattern (31 bp):
TAAGATGTGGTCACTTTTGTTTTTATTTAAT
Found at i:881 original size:31 final size:31
Alignment explanation
Indices: 815--882 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
805 TGGTGATCAC
* * *
815 ATCTTAAATAAATAAAAACAAAAGTGACTAT
1 ATCTTAAATAAATAAAAACAAAAGTAACCAA
* *
846 ATCTTAATTAAATAAAAACAAAGGTAACCAA
1 ATCTTAAATAAATAAAAACAAAAGTAACCAA
877 ATCTTA
1 ATCTTA
883 TATATATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (31 bp):
ATCTTAAATAAATAAAAACAAAAGTAACCAA
Found at i:10256 original size:20 final size:20
Alignment explanation
Indices: 10162--10525 Score: 413
Period size: 20 Copynumber: 18.4 Consensus size: 20
10152 GATTTTCCAT
* ** *
10162 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
10182 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
10202 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
10222 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
10242 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
10262 AA--GCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
10280 TATCG---CGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
10297 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
10317 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
10337 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
10357 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
10377 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
10397 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
10417 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
10437 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
10457 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
10477 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
10497 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
10517 AATCACAAC
1 AATCGCAAC
10526 ACTGAAATTT
Statistics
Matches: 295, Mismatches: 36, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.05
18 14 0.05
19 3 0.01
20 260 0.88
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:13741 original size:19 final size:19
Alignment explanation
Indices: 13719--14006 Score: 320
Period size: 19 Copynumber: 16.4 Consensus size: 19
13709 ACGGAAATAC
*
13719 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
13738 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
13752 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
13772 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
13786 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
13805 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
13824 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
13838 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
13857 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
13871 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
13890 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
13909 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
13928 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
13947 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
13961 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
13980 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
13999 AATCGCAA
1 AATCGCAA
14007 CGAGATAATC
Statistics
Matches: 230, Mismatches: 13, Indels: 52
0.78 0.04 0.18
Matches are distributed among these distances:
14 45 0.20
15 4 0.02
16 16 0.07
17 15 0.07
18 5 0.02
19 132 0.57
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:13771 original size:34 final size:33
Alignment explanation
Indices: 13719--13808 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 33
13709 ACGGAAATAC
*
13719 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACGA-GAA
* *
13752 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCCCAACGAGAA
13786 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
13809 GCAATGCGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
33 22 0.42
34 29 0.56
35 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCCCAACGAGAA
Found at i:13806 original size:33 final size:33
Alignment explanation
Indices: 13719--13987 Score: 180
Period size: 33 Copynumber: 7.8 Consensus size: 33
13709 ACGGAAATAC
* *
13719 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
13752 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
13786 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
* * *
13824 AATCGCAA--CG--A-GAGAATCGCAATGCG-A
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
* ** *
13851 AAT-GAAAAT-CGAACCGACATAATCGCAATGCGAAATTAA
1 AATCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAA
*
13890 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
13928 AATCGCAATGCGAAATGAAAATCGCAACGA-AA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
13960 GAATCGCAATGCGAAATGAAAATCGCAA
1 -AATCGCAATGCGAAATGAAAATCGCAA
13988 TGCGAAATGA
Statistics
Matches: 195, Mismatches: 18, Indels: 46
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.01
27 6 0.03
28 3 0.02
31 3 0.02
32 2 0.01
33 71 0.36
34 31 0.16
35 4 0.02
36 4 0.02
37 1 0.01
38 54 0.28
39 8 0.04
40 7 0.04
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:13834 original size:52 final size:55
Alignment explanation
Indices: 13747--14028 Score: 291
Period size: 52 Copynumber: 5.4 Consensus size: 55
13737 AAATCCCAAC
*
13747 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
*
13800 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
* * * *
13852 ATGAAAATCG-AA-CCGACAT---AATCGCAATGCGAAATTAAAATCGCAATACGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
13904 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
13959 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
14009 A-GATAATCGCAATGCGAAAT
1 ATGAAAATCGCAATGCGAAAT
14029 TATAAACGCA
Statistics
Matches: 209, Mismatches: 8, Indels: 25
0.86 0.03 0.10
Matches are distributed among these distances:
47 8 0.04
49 2 0.01
50 7 0.03
51 3 0.01
52 134 0.64
53 18 0.09
54 6 0.03
55 5 0.02
57 26 0.12
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:14017 original size:33 final size:36
Alignment explanation
Indices: 13747--14028 Score: 262
Period size: 33 Copynumber: 8.1 Consensus size: 36
13737 AAATCCCAAC
13747 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CG--
1 ATGAAAATCGCAA-GC-G-AATGAAAATCGCAATGCGAA
*
13782 A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
13819 ATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
*
13852 ATGAAAATCG-AACCGACAT---AATCGCAATGCGAA
1 ATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
* *
13885 ATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
13923 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
13959 A-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
13994 ATGAAAATCGCAA-CG-A-GATAATCGCAATGCGAA
1 ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
14027 AT
1 AT
14029 TATAAACGCA
Statistics
Matches: 219, Mismatches: 8, Indels: 42
0.81 0.03 0.16
Matches are distributed among these distances:
32 2 0.01
33 112 0.51
34 17 0.08
35 14 0.06
36 11 0.05
37 1 0.00
38 62 0.28
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (36 bp):
ATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:14044 original size:71 final size:71
Alignment explanation
Indices: 13805--14044 Score: 259
Period size: 71 Copynumber: 3.4 Consensus size: 71
13795 GCGAAATGAA
* *
13805 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCG-AA
1 AATCGCAATGCGAAATTAAAA-CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
*
13864 CCGACAT
65 CCGAGAT
*
13871 AATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATTAAAA-CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
* *
13936 TGCGAAATGAA
65 -CCG--A-GAT
* *
13947 AATCGCAA--CGAAA--GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-
1 AATCGCAATGCGAAATTAAAACGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAC
14007 CGAGAT
66 CGAGAT
*
14013 AATCGCAATGCGAAATTATAAACGCATTGCGA
1 AATCGCAATGCGAAATTA-AAACGCAATGCGA
14045 TTTTCATTTC
Statistics
Matches: 147, Mismatches: 12, Indels: 25
0.80 0.07 0.14
Matches are distributed among these distances:
66 36 0.24
67 1 0.01
68 7 0.05
69 2 0.01
70 1 0.01
71 79 0.54
72 4 0.03
73 2 0.01
74 5 0.03
75 1 0.01
76 9 0.06
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (71 bp):
AATCGCAATGCGAAATTAAAACGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAC
CGAGAT
Found at i:14144 original size:19 final size:19
Alignment explanation
Indices: 14035--14136 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
14025 AAATTATAAA
14035 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
14054 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
14074 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
14090 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
14107 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
14126 CGCATTGCGAT
1 CGCATTGCGAT
14137 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:14262 original size:14 final size:14
Alignment explanation
Indices: 14243--14279 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
14233 CATCAATTAC
14243 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
14257 ACAAATCATCTTTT
1 ACAAATCAACTTTT
14271 ACAAATCAA
1 ACAAATCAA
14280 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:14291 original size:12 final size:12
Alignment explanation
Indices: 14274--14346 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
14264 ATCTTTTACA
14274 AATCAATTAAAC
1 AATCAATTAAAC
*
14286 AATCAA--AAATTG
1 AATCAATTAAA--C
**
14298 AATCAACTTTTAC
1 AATCAA-TTAAAC
14311 AAATCAATTAAAC
1 A-ATCAATTAAAC
*
14324 AATCAA-AAAAC
1 AATCAATTAAAC
14335 AATCAATTAAAC
1 AATCAATTAAAC
14347 TATTGAATCA
Statistics
Matches: 46, Mismatches: 8, Indels: 14
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.07
11 10 0.22
12 21 0.46
13 6 0.13
14 5 0.11
15 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.25
Consensus pattern (12 bp):
AATCAATTAAAC
Found at i:14308 original size:38 final size:38
Alignment explanation
Indices: 14260--14332 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
14250 AACTTTTACA
*
14260 AATCATCTTTTACAAATCAATTAAACAATCAAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
14298 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAA
14333 ACAATCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (38 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAATTG
Found at i:16218 original size:14 final size:14
Alignment explanation
Indices: 16199--16255 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
16189 GCGAAATGAA
*
16199 AATCGCAACGACAG
1 AATCGCAACGAAAG
16213 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
16230 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
16246 AATCGCAACG
1 AATCGCAACG
16256 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:16226 original size:33 final size:33
Alignment explanation
Indices: 16180--16272 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
16170 GCGAAACCAA
*
16180 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
16213 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
16246 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
16273 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:16237 original size:19 final size:19
Alignment explanation
Indices: 16143--16277 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
16133 TAGTTTACTT
* *
16143 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
16163 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
16182 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
16201 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
16215 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
16234 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
16248 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
16267 TCGCAATGCGA
1 TCGCAACGCGA
16278 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:16295 original size:19 final size:19
Alignment explanation
Indices: 16273--16401 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
16263 AAAATCGCAA
16273 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
16292 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
16306 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
16325 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
16339 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
16358 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
16377 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
16397 TGCGA
1 TGCGA
16402 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:16315 original size:33 final size:33
Alignment explanation
Indices: 16273--16364 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
16263 AAAATCGCAA
16273 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
16306 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
16339 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
16365 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:16734 original size:92 final size:93
Alignment explanation
Indices: 16445--16823 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
16435 TTGAATGGAT
16445 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
16509 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
16537 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
16602 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
16630 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
16694 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
16722 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
16787 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
16815 AAATTTACT
1 AAATTTACT
16824 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
92 126 0.44
93 159 0.56
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:16757 original size:185 final size:185
Alignment explanation
Indices: 16445--16823 Score: 742
Period size: 185 Copynumber: 2.0 Consensus size: 185
16435 TTGAATGGAT
16445 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
16510 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
16575 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
16630 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
16694 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
16759 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
16815 AAATTTACT
1 AAATTTACT
16824 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
185 189 0.98
186 4 0.02
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:18541 original size:14 final size:14
Alignment explanation
Indices: 18522--18611 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
18512 TTGAAATGAA
18522 AATCGCAACGAGAG
1 AATCGCAACGAGAG
18536 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
18553 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
* *
18569 AATCGCAGCGCGAAATGAA
1 AATCGCA--ACG--A-GAG
18588 AATCGCAACGAGAG
1 AATCGCAACGAGAG
18602 AATCGCAACG
1 AATCGCAACG
18612 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 27 0.44
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 17 0.27
ACGTcount: A:0.41, C:0.23, G:0.27, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:18559 original size:33 final size:33
Alignment explanation
Indices: 18514--18628 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
18504 GTCTTTGGTT
18514 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* * *
18547 GAGATGACAATCGCAACGAGAGAATCGCAGCGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
18580 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
18613 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
18629 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:18560 original size:19 final size:18
Alignment explanation
Indices: 18521--18633 Score: 79
Period size: 19 Copynumber: 6.8 Consensus size: 18
18511 GTTGAAATGA
18521 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
18536 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
18553 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
* *
18569 -AATCGCAGCGCGAAATG
1 AAATCGCAACGCGAGATG
18586 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
18602 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
18619 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
18634 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 6, Indels: 26
0.71 0.06 0.24
Matches are distributed among these distances:
14 23 0.30
16 15 0.19
17 12 0.16
19 27 0.35
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:18664 original size:14 final size:14
Alignment explanation
Indices: 18645--18699 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
18635 TTTGGTTTCG
18645 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
18659 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
18678 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
18692 CGTTGCGA
1 CGTTGCGA
18700 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:18862 original size:33 final size:33
Alignment explanation
Indices: 18820--18890 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
18810 AATACTAACT
*
18820 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
18853 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
18886 TGAAA
1 TGAAA
18891 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:19295 original size:20 final size:20
Alignment explanation
Indices: 19270--19463 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
19260 CTTTAAATAT
19270 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
19290 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
19312 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
19331 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
19351 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
19371 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
19391 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
19411 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
19431 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
19451 CGCGTTGCGATTT
1 CGCGTTGCGATTT
19464 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:19457 original size:60 final size:60
Alignment explanation
Indices: 19270--19463 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
19260 CTTTAAATAT
**
19270 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
19331 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
19391 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
19451 CGCGTTGCGATTT
1 CGCGTTGCGATTT
19464 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:19480 original size:21 final size:20
Alignment explanation
Indices: 19456--19532 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
19446 ATATTCGCGT
19456 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
19477 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
19497 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
19519 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
19533 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:19543 original size:20 final size:20
Alignment explanation
Indices: 19518--19569 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
19508 AAGAATCGCG
*
19518 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
19538 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
19558 TTGCGATTCTGG
1 TTGCGATTCTGG
19570 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:20640 original size:13 final size:12
Alignment explanation
Indices: 20614--20646 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20604 TTTTTCTTTT
20614 TTTCTTCT-TCA
1 TTTCTTCTCTCA
20625 TTTCCTTCTCTCA
1 TTT-CTTCTCTCA
20638 TTTCTTCTC
1 TTTCTTCTC
20647 CAAGTACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 11 0.55
13 6 0.30
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTCTTCTCTCA
Found at i:24005 original size:14 final size:14
Alignment explanation
Indices: 23986--24016 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
23976 GGTTACGTTT
23986 ATCAGGTCCCCTTC
1 ATCAGGTCCCCTTC
24000 ATCAGGTCCCCTTC
1 ATCAGGTCCCCTTC
24014 ATC
1 ATC
24017 GTCTCGAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.42, G:0.13, T:0.29
Consensus pattern (14 bp):
ATCAGGTCCCCTTC
Found at i:27801 original size:18 final size:19
Alignment explanation
Indices: 27733--27803 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 19
27723 ATTTAAATTT
*
27733 ATTTAT-ATTATATATATA
1 ATTTATAATTAAATATATA
27751 ATTAATATAATTAACA-A-ATCA
1 ATT--TATAATTAA-ATATAT-A
27772 ATTT-TAATTTAAATATATA
1 ATTTATAA-TTAAATATATA
27791 ATTTAT-ATTAAAT
1 ATTTATAATTAAAT
27804 TATTGGAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 18
0.69 0.02 0.29
Matches are distributed among these distances:
18 13 0.30
19 12 0.28
20 8 0.19
21 9 0.21
22 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTATAATTAAATATATA
Found at i:35540 original size:21 final size:22
Alignment explanation
Indices: 35512--35552 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
35502 AGTTTGATTG
35512 AAAAAAATA-AAA-ATTATTTT
1 AAAAAAATATAAATATTATTTT
35532 AAAATAAATATAAATATTATT
1 AAAA-AAATATAAATATTATT
35553 CATATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 3 0.17
23 6 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAAAAATATAAATATTATTTT
Found at i:38578 original size:126 final size:126
Alignment explanation
Indices: 38423--38698 Score: 289
Period size: 126 Copynumber: 2.2 Consensus size: 126
38413 ATTATTAAAC
* * * *
38423 AAAATT-AGGAGCATCAATTATAAAGGTAAA-AGGTAAGTTTGAAAAA-TAGGGGCCTCAATATC
1 AAAATTAAGG-GCCTCAATTATAAAGGTAAAGA-GTAAGATTAAAAAATTAGGGGCCTCAAT-TA
* * * *
38485 AAAA-GTAAAAAG-CGAGGTTTAAAAAATTAAGTGTCTAAATTATATAA-TTAAAAAATGGGATT
63 AAAAGGTAAAAAGTC-AGATTAAAAAAATTAAGAGT-TAAATTATA-AAGTTAAAAAATGAGATT
38547 GAA
125 -AA
* * *
38550 AACAA-T-AGGGCCTCAATTATAGAGGTAAAGAGTGAGATTAAAAAATTAGGGGCCTCGATTAAA
1 AA-AATTAAGGGCCTCAATTATAAAGGTAAAGAGTAAGATTAAAAAATTAGGGGCCTCAATTAAA
* * *
38613 AAGGTAGAAAGTCAGATTAAAAAAATTAAGAGTTAAATTATAAAGTTACAAAGTGAGATTAA
65 AAGGTAAAAAGTCAGATTAAAAAAATTAAGAGTTAAATTATAAAGTTAAAAAATGAGATTAA
*
38675 AAAATTAAGGGTCTCAATTATAAA
1 AAAATTAAGGGCCTCAATTATAAA
38699 AAGTAGGATT
Statistics
Matches: 125, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
124 2 0.02
125 7 0.06
126 70 0.56
127 43 0.34
128 3 0.02
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (126 bp):
AAAATTAAGGGCCTCAATTATAAAGGTAAAGAGTAAGATTAAAAAATTAGGGGCCTCAATTAAAA
AGGTAAAAAGTCAGATTAAAAAAATTAAGAGTTAAATTATAAAGTTAAAAAATGAGATTAA
Found at i:38603 original size:42 final size:42
Alignment explanation
Indices: 38423--38698 Score: 165
Period size: 42 Copynumber: 6.6 Consensus size: 42
38413 ATTATTAAAC
* * * *
38423 AAAATT-AGGAGCATCAATTATAAAGGTA-AAAGGTAAGTTTGA
1 AAAATTAAGG-GCCTCAATTATAAAGGTACAAA-GTGAGATTAA
* * * * *
38465 AAAA-TAGGGGCCTCAA-TATCAAAAGTAAAAAGCGAGGTTTAA
1 AAAATTAAGGGCCTCAATTAT-AAAGGTACAAAGTGA-GATTAA
* * * * * * *
38507 AAAATTAAGTGTCTAAATTATATAA-TTAAAAAATGGGATTGAA
1 AAAATTAAGGGCCTCAATTATA-AAGGTACAAAGTGAGATT-AA
*
38550 AACAA-T-AGGGCCTCAATTATAGAGGTA-AAGAGTGAGATTAA
1 AA-AATTAAGGGCCTCAATTATAAAGGTACAA-AGTGAGATTAA
* * * * *
38591 AAAATTAGGGGCCTCGATTAAAAAGGTAGAAAGTCAGATTAAA
1 AAAATTAAGGGCCTCAATTATAAAGGTACAAAGTGAGATT-AA
* * * *
38634 AAAATTAAGAG-TTAAATTATAAAGTTACAAAGTGAGATTAA
1 AAAATTAAGGGCCTCAATTATAAAGGTACAAAGTGAGATTAA
*
38675 AAAATTAAGGGTCTCAATTATAAA
1 AAAATTAAGGGCCTCAATTATAAA
38699 AAGTAGGATT
Statistics
Matches: 179, Mismatches: 39, Indels: 32
0.72 0.16 0.13
Matches are distributed among these distances:
40 5 0.03
41 35 0.20
42 98 0.55
43 34 0.19
44 7 0.04
ACGTcount: A:0.49, C:0.07, G:0.19, T:0.25
Consensus pattern (42 bp):
AAAATTAAGGGCCTCAATTATAAAGGTACAAAGTGAGATTAA
Found at i:38780 original size:23 final size:22
Alignment explanation
Indices: 38725--38788 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
38715 ATTAGAAGTT
*
38725 TCAATTATAAAAA-TAAAAATA
1 TCAATTATAAAAATTAAAAAGA
* *
38746 -AAATTGAGAAAAATTAAAAAGA
1 TCAATT-ATAAAAATTAAAAAGA
38768 CTCAATTATAAAAATTAAAAA
1 -TCAATTATAAAAATTAAAAA
38789 ATATATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
20 4 0.12
21 6 0.18
22 7 0.21
23 13 0.38
24 4 0.12
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (22 bp):
TCAATTATAAAAATTAAAAAGA
Found at i:50337 original size:25 final size:28
Alignment explanation
Indices: 50290--50340 Score: 81
Period size: 25 Copynumber: 1.9 Consensus size: 28
50280 TGCATTTAAA
50290 TTAAATAATATTTCATTAATTAATTTAT
1 TTAAATAATATTTCATTAATTAATTTAT
50318 TTAAA-AATATTT-A-TAATTAATTT
1 TTAAATAATATTTCATTAATTAATTT
50341 GAAATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 1 0.04
27 7 0.30
28 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (28 bp):
TTAAATAATATTTCATTAATTAATTTAT
Found at i:50417 original size:50 final size:49
Alignment explanation
Indices: 50352--50460 Score: 114
Period size: 50 Copynumber: 2.2 Consensus size: 49
50342 AAATAATATA
* * *
50352 TAAATAATAAATTTT-ATTAA-ATATAAAAGTTATTTTATAATAACTTGAAAT
1 TAAATAA-AGATTTTAATTAATA-ATAAAA-TTAATTTA-AATAACTTAAAAT
* *
50403 TATATAAAGATTTTAAATTAATAATAAAATTAATTTAAATAATTTAAAAT
1 TAAATAAAGATTTT-AATTAATAATAAAATTAATTTAAATAACTTAAAAT
50453 TAAATAAA
1 TAAATAAA
50461 TATTAAATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
50 24 0.49
51 13 0.27
52 11 0.22
53 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (49 bp):
TAAATAAAGATTTTAATTAATAATAAAATTAATTTAAATAACTTAAAAT
Found at i:50445 original size:18 final size:17
Alignment explanation
Indices: 50415--50476 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 17
50405 TATAAAGATT
*
50415 TTAAATTAATAATAAAA
1 TTAAATAAATAATAAAA
*
50432 TTAATTTAAATAATTTAAAA
1 TTAA-ATAAATAA--TAAAA
*
50452 TTAAATAAATATTAAATA
1 TTAAATAAATAATAAA-A
50470 TTAAATA
1 TTAAATA
50477 TTAAAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
17 8 0.22
18 14 0.38
19 6 0.16
20 9 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAATAAATAATAAAA
Found at i:50453 original size:32 final size:32
Alignment explanation
Indices: 50407--50483 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 32
50397 TGAAATTATA
* *
50407 TAAAGATTTTAAATTAATAATAAA-ATT-AAT-T
1 TAAATATTTAAAATT-A-AATAAATATTAAATAT
50438 TAAATAATTTAAAATTAAATAAATATTAAATAT
1 TAAAT-ATTTAAAATTAAATAAATATTAAATAT
50471 TAAATA-TTAAAAT
1 TAAATATTTAAAAT
50484 AATTAAACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 6 0.15
31 15 0.38
32 13 0.32
33 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (32 bp):
TAAATATTTAAAATTAAATAAATATTAAATAT
Found at i:50457 original size:25 final size:23
Alignment explanation
Indices: 50419--50487 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 23
50409 AAGATTTTAA
*
50419 ATTAATAATAAAATTAATTTAAAT
1 ATTAA-AATTAAATTAATTTAAAT
*
50443 AATTTAAAATTAAATAAATATTAAAT
1 -A-TTAAAATTAAATTAAT-TTAAAT
*
50469 ATTAAATATTAAAATAATT
1 ATTAAA-ATTAAATTAATT
50488 AAACATAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 6 0.16
25 21 0.57
26 10 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTAAAATTAAATTAATTTAAAT
Found at i:50467 original size:7 final size:7
Alignment explanation
Indices: 50457--50481 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50447 TAAAATTAAA
50457 TAAATAT
1 TAAATAT
50464 TAAATAT
1 TAAATAT
50471 TAAATAT
1 TAAATAT
50478 TAAA
1 TAAA
50482 ATAATTAAAC
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATAT
Found at i:50473 original size:50 final size:52
Alignment explanation
Indices: 50366--50487 Score: 119
Period size: 50 Copynumber: 2.4 Consensus size: 52
50356 TAATAAATTT
* * * *
50366 TATTAA-ATATAAAAGTTATTTTATAATAACTTGAAATTATATAAAGATTTTAA
1 TATTAATA-ATAAAA-TTAATTTATAATAACTTAAAATTAAATAAAGATTTAAA
* *
50419 -ATTAATAATAAAATTAATTTA-AATAATTTAAAATTAAATAAATA-TTAAA
1 TATTAATAATAAAATTAATTTATAATAACTTAAAATTAAATAAAGATTTAAA
*
50468 TATTAAATATTAAAA-TAATT
1 TATT-AATAATAAAATTAATT
50488 AAACATAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
49 4 0.07
50 27 0.46
51 16 0.27
52 11 0.19
53 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (52 bp):
TATTAATAATAAAATTAATTTATAATAACTTAAAATTAAATAAAGATTTAAA
Found at i:58816 original size:37 final size:37
Alignment explanation
Indices: 58763--58867 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
58753 CCTTTTCGTC
58763 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
58800 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
58837 CTACTATGATTTAAACTCTTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
58868 CCATAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:63683 original size:16 final size:16
Alignment explanation
Indices: 63657--63706 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
63647 AGATCCAATC
63657 AAGAA-CAAAAAAGAA
1 AAGAAGCAAAAAAGAA
63672 AAGAAGCAAAAAAGCAA
1 AAGAAGCAAAAAAG-AA
*
63689 AA-AAGCAAAGAA-AA
1 AAGAAGCAAAAAAGAA
63703 AAGA
1 AAGA
63707 GAAACAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 4 0.13
15 6 0.19
16 17 0.55
17 4 0.13
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (16 bp):
AAGAAGCAAAAAAGAA
Found at i:63688 original size:8 final size:8
Alignment explanation
Indices: 63662--63697 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
63652 CAATCAAGAA
63662 CAAAAAAG
1 CAAAAAAG
63670 -AAAAGAAG
1 CAAAA-AAG
63678 CAAAAAAG
1 CAAAAAAG
63686 CAAAAAAG
1 CAAAAAAG
63694 CAAA
1 CAAA
63698 GAAAAAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 4 0.15
8 18 0.69
9 4 0.15
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.00
Consensus pattern (8 bp):
CAAAAAAG
Found at i:64538 original size:22 final size:22
Alignment explanation
Indices: 64510--64564 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
64500 GCTACCCCAT
64510 CAAACCTTTGAGCATCAAATAC
1 CAAACCTTTGAGCATCAAATAC
**
64532 CAAACCTTTGAGCATCAAATGT
1 CAAACCTTTGAGCATCAAATAC
64554 CAAACCTTTGA
1 CAAACCTTTGA
64565 CCAAACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATAC
Found at i:65568 original size:106 final size:106
Alignment explanation
Indices: 65415--67171 Score: 2861
Period size: 106 Copynumber: 16.6 Consensus size: 106
65405 TGTCCACCCG
* * * * * *
65415 CAACAAACAATTTCCCAATTTCAGAGACAATTTCAACTTCACAGCGAAAGATATTCGACTCAAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
65480 TAACGCAAGTTCAACTTCACGACGAAGGGACAGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* *
65521 CAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65586 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* *
65627 CAACAAACAACTTCCCAAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
65692 CAACACAAGTTCAACTTCACAACGAAGCGACCGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * *
65733 CAACAAACAACTTCTCAATTTCAGAGCCAATTTCAATTTCACAACGAAGGATATTGCACTCCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
65798 CAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * * * * *
65839 CAACAAACAATTTCCTAATTTCAGAGACAATTTCAACTTCACAGCGAAAGATATTGGACTCAAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
65904 CAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
*
65945 CAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66010 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
*
66051 CAACAAACAACTTCCCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
66116 CAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
*
66157 CAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
66222 CAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
*
66263 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
66328 CAATGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * * * * * *
66369 CAACAAATAATTTCTCAATTTCGGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTTCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
66434 CAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * *
66475 CAACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGACTCCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66540 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
*
66581 CAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
66646 CAATGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
*
66687 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
66752 CAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * * * *
66793 CAACAAACAATTTCTCAATTTCGGAGCCAATTTCAACTTCACAGCGAAAGATATTGGACTCCAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
66858 CAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* *
66899 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66964 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * * *
67005 CAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCGAGA
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
67070 CAACACAAGTTCAACTTCACAACAAAGGGA-CGACTGGTTGT
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGT
* * * *
67111 CAACAAACAATTTCCCGATTCCAGAGCCAATTTCAACTTCACGAC-AGAGGATATTGGACTC
1 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGA-AGGATATTGGACTC
67172 GGAACAATGC
Statistics
Matches: 1542, Mismatches: 107, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
105 3 0.00
106 1539 1.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (106 bp):
CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
Found at i:67956 original size:37 final size:37
Alignment explanation
Indices: 67903--68007 Score: 165
Period size: 37 Copynumber: 2.8 Consensus size: 37
67893 CATTTTCGTC
67903 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
67940 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
67977 CTACTATGATTTAAACTCCTAAAAATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
68008 CCACAAGCAC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:68584 original size:12 final size:12
Alignment explanation
Indices: 68565--68602 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
68555 CATTTTATTA
68565 TTACTATTATAT
1 TTACTATTATAT
* *
68577 TTATTATTATTT
1 TTACTATTATAT
68589 TTACTATTATAT
1 TTACTATTATAT
68601 TT
1 TT
68603 TCCTTTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (12 bp):
TTACTATTATAT
Found at i:68663 original size:25 final size:28
Alignment explanation
Indices: 68618--68670 Score: 85
Period size: 25 Copynumber: 2.0 Consensus size: 28
68608 TTATTCTACT
68618 TATTTATATTATATATGTATATTTTTTA
1 TATTTATATTATATATGTATATTTTTTA
68646 TATTT-TATTATA-AT-TATATTTTTTA
1 TATTTATATTATATATGTATATTTTTTA
68671 CTTTCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 11 0.44
26 2 0.08
27 7 0.28
28 5 0.20
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (28 bp):
TATTTATATTATATATGTATATTTTTTA
Found at i:69103 original size:2 final size:2
Alignment explanation
Indices: 69096--69160 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
69086 GTATTGTTAC
69096 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
69138 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
69161 GTAATTATAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:72527 original size:155 final size:156
Alignment explanation
Indices: 72202--72574 Score: 491
Period size: 155 Copynumber: 2.4 Consensus size: 156
72192 ATATATGAGG
* * * *
72202 ATGTGGGTCAAATTTGGTAAAAAAATGACTTAAAATAAATCACAAATTGAAGGAATAAGGACATT
1 ATGTGGCTCAAATTTGGTAAAAAAATGACTTAAAATAAATGACGAATTGAAGAAATAAGGACATT
* *
72267 ATGAAAATTGAAGGACTAAATTGAAAAATAAAAAAAATGTTATCAAAAAGAGGAATTGAAAATAC
66 ATGAAAATTAAAGGACTAAATTGAAAAAT-AAAAAAATGTTATCAAAAAGAGAAATTGAAAATAC
*
72332 ACATGTATTCTACTATGGTTTAGGATC
130 ACATGTATTCTACTATGGTTTAGGAGC
* * *
72359 ATGTGGCTCAAATTGGGTAAAAACA-GACTTAAAATAAATGACGAATTGAAGAAATAAGGAGATT
1 ATGTGGCTCAAATTTGGTAAAAAAATGACTTAAAATAAATGACGAATTGAAGAAATAAGGACATT
*
72423 ATGAAAAGTTAAAGGACTAAATTGAAAAAT-AAAAATTGTTATCAAAAAGAGAAATT-AAAAGTA
66 ATGAAAA-TTAAAGGACTAAATTGAAAAATAAAAAAATGTTATCAAAAAGAGAAATTGAAAA-TA
* *
72486 CACATGTATTGTATTATGGTTTAGGAGC
129 CACATGTATTCTACTATGGTTTAGGAGC
* * * * * * *
72514 ATTTGGTTTAAATTTGATAAAAAAAAATGGACTTAAAATGAAGGAAGAATTGAAGAAATAA
1 ATGTGGCTCAAATTTGGT--AAAAAAAT-GACTTAAAATAAATGACGAATTGAAGAAATAA
72575 TGAAATTAGT
Statistics
Matches: 188, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
154 4 0.02
155 64 0.34
156 42 0.22
157 49 0.26
159 29 0.15
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.27
Consensus pattern (156 bp):
ATGTGGCTCAAATTTGGTAAAAAAATGACTTAAAATAAATGACGAATTGAAGAAATAAGGACATT
ATGAAAATTAAAGGACTAAATTGAAAAATAAAAAAATGTTATCAAAAAGAGAAATTGAAAATACA
CATGTATTCTACTATGGTTTAGGAGC
Found at i:72836 original size:31 final size:31
Alignment explanation
Indices: 72791--72863 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
72781 TATATATATA
* *
72791 ATATTAATAAATTTAATTTAAATAAAAAAAT
1 ATATTTATATATTTAATTTAAATAAAAAAAT
* * *
72822 ATATTTATATATTTAATTTAAATATATATAT
1 ATATTTATATATTTAATTTAAATAAAAAAAT
*
72853 ATATATATATA
1 ATATTTATATA
72864 CTCGGCCCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATATTTATATATTTAATTTAAATAAAAAAAT
Found at i:72896 original size:12 final size:12
Alignment explanation
Indices: 72881--72917 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
72871 CGATTCTCGG
72881 CCCAATACCCGA
1 CCCAATACCCGA
*
72893 CCCAATACCCCGG
1 CCCAATA-CCCGA
72906 CCCAATACCCGA
1 CCCAATACCCGA
72918 TTAAATAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.30, C:0.51, G:0.11, T:0.08
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:72909 original size:13 final size:13
Alignment explanation
Indices: 72878--72915 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
72868 GCCCGATTCT
72878 CGGCCCAATA-CC
1 CGGCCCAATACCC
*
72890 CGACCCAATACCC
1 CGGCCCAATACCC
72903 CGGCCCAATACCC
1 CGGCCCAATACCC
72916 GATTAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.26, C:0.53, G:0.13, T:0.08
Consensus pattern (13 bp):
CGGCCCAATACCC
Found at i:73245 original size:14 final size:14
Alignment explanation
Indices: 73226--73255 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
73216 TGACTATAAT
*
73226 AACTCAAATAATTC
1 AACTCAAATAACTC
73240 AACTCAAATAACTC
1 AACTCAAATAACTC
73254 AA
1 AA
73256 AATTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (14 bp):
AACTCAAATAACTC
Found at i:89829 original size:12 final size:12
Alignment explanation
Indices: 89814--89843 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
89804 AACATTTCCG
89814 TGAACAATACCA
1 TGAACAATACCA
*
89826 TGAACAGTACCA
1 TGAACAATACCA
89838 TGAACA
1 TGAACA
89844 TTGCTACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (12 bp):
TGAACAATACCA
Found at i:89940 original size:21 final size:21
Alignment explanation
Indices: 89914--89973 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
89904 ATTGTGTATT
*
89914 GATGCACTGCTACAGTACATC
1 GATGCACTACTACAGTACATC
*
89935 GATGCACTACTACAGTGCATC
1 GATGCACTACTACAGTACATC
*
89956 GATGTACTACTACAGTAC
1 GATGCACTACTACAGTAC
89974 TGCTACAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (21 bp):
GATGCACTACTACAGTACATC
Found at i:90588 original size:21 final size:21
Alignment explanation
Indices: 90539--90602 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
90529 ATATGAAATT
* *
90539 TTGTCCCGAAGGACATGTGAA
1 TTGTCCCGAAGGACCTATGAA
* *
90560 TATGTCCCGAAAGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAA
90582 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
90603 ACCCTCGACT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:96094 original size:14 final size:14
Alignment explanation
Indices: 96075--96107 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
96065 CAAAGTTTAT
96075 ACTTTAACCCTCAA
1 ACTTTAACCCTCAA
96089 ACTTTAACCCTCAA
1 ACTTTAACCCTCAA
96103 ACTTT
1 ACTTT
96108 CAAAACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTTTAACCCTCAA
Found at i:97358 original size:34 final size:34
Alignment explanation
Indices: 97320--97399 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
97310 AAAAGTAAGC
*
97320 TCAACTCAAACTCACTAGCTAAAAATTATCAAGT
1 TCAACTCAAACTCACGAGCTAAAAATTATCAAGT
97354 TCAACTCAAACTCACGAGCTAAAAATTATCAAGT
1 TCAACTCAAACTCACGAGCTAAAAATTATCAAGT
97388 TCAACTCAAACT
1 TCAACTCAAACT
97400 TGAAATATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (34 bp):
TCAACTCAAACTCACGAGCTAAAAATTATCAAGT
Found at i:97680 original size:20 final size:20
Alignment explanation
Indices: 97636--97874 Score: 167
Period size: 20 Copynumber: 11.9 Consensus size: 20
97626 AATGACCAAC
*
97636 AAAATCACAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
97655 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* **
97675 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
97695 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
97715 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * **
97737 AGAATCGCAATGCGAGGCA-
1 AAAATCGCAACGCGATTCAG
*
97756 AAGAATCGCAACGCGATTGAG
1 AA-AATCGCAACGCGATTCAG
97777 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
97797 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
97817 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
97837 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
97857 AGAATCGCAACGCGATTC
1 AAAATCGCAACGCGATTC
97875 CAAGAATCGC
Statistics
Matches: 181, Mismatches: 22, Indels: 34
0.76 0.09 0.14
Matches are distributed among these distances:
18 2 0.01
19 20 0.11
20 136 0.75
21 7 0.04
22 13 0.07
23 1 0.01
25 1 0.01
26 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:97875 original size:20 final size:20
Alignment explanation
Indices: 97717--97886 Score: 218
Period size: 20 Copynumber: 8.4 Consensus size: 20
97707 GTCAAAAGAA
97717 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGA--TTCCAAG
* ** *
97739 AATCGCAATGCGAGGCAAAG
1 AATCGCAACGCGATTCCAAG
* *
97759 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
97779 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
97799 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
97819 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
97839 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
97859 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
97879 AATCGCAA
1 AATCGCAA
97887 AACGGCAAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 113 0.88
21 2 0.02
22 12 0.09
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGATTCCAAG
Found at i:97993 original size:6 final size:6
Alignment explanation
Indices: 97982--98036 Score: 110
Period size: 6 Copynumber: 9.2 Consensus size: 6
97972 GACACGTATT
97982 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
98030 ACCACG A
1 ACCACG A
98037 GACGAGACGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:98799 original size:6 final size:6
Alignment explanation
Indices: 98788--98862 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
98778 TCTCGTCTCG
98788 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
98836 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
98863 AATACGTGTC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:98998 original size:20 final size:20
Alignment explanation
Indices: 98973--99040 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
98963 TTTTGCCGTT
98973 TTGCGATTCTTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
** *
98993 TTGCGATT-TTCTCAATCGCA
1 TTGCGATTCTT-GGAATCGCG
*
99013 TTGCGATTCCTGGAATCGCG
1 TTGCGATTCTTGGAATCGCG
99033 TTGCGATT
1 TTGCGATT
99041 TTCTTTTGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.05
20 36 0.92
21 1 0.03
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTTGGAATCGCG
Found at i:99057 original size:40 final size:40
Alignment explanation
Indices: 98956--99060 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
98946 CTGCTTTTGA
*
98956 GATTTTCTTTTG-CCGTTTTGCGATTCTTGGAATCGCGTTGC
1 GATTTTCTTTTGACCG--TTGCGATTCCTGGAATCGCGTTGC
** *
98997 GATTTTC--TCAATCGCATTGCGATTCCTGGAATCGCGTTGC
1 GATTTTCTTTTGA-C-CGTTGCGATTCCTGGAATCGCGTTGC
99037 GATTTTCTTTTGACCGTTGCGATT
1 GATTTTCTTTTGACCGTTGCGATT
99061 TTCTTTTCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
39 1 0.02
40 39 0.75
41 9 0.17
42 3 0.06
ACGTcount: A:0.13, C:0.21, G:0.23, T:0.43
Consensus pattern (40 bp):
GATTTTCTTTTGACCGTTGCGATTCCTGGAATCGCGTTGC
Found at i:99096 original size:20 final size:19
Alignment explanation
Indices: 98986--99102 Score: 85
Period size: 20 Copynumber: 5.9 Consensus size: 19
98976 CGATTCTTGG
98986 AATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATTTTCT
* *
99005 CAATCGCATTGCGA-TTCCT
1 -AATCGCGTTGCGATTTTCT
99024 GGAATCGCGTTGCGATTTTCT
1 --AATCGCGTTGCGATTTTCT
* *
99045 -TTTGACCGTTGCGATTTTCT
1 AATCG--CGTTGCGATTTTCT
** * *
99065 TTTCAACATTGCGATTTTCT
1 AATC-GCGTTGCGATTTTCT
99085 AAATCGCGTTGCGATTTT
1 -AATCGCGTTGCGATTTT
99103 TGTTTCGGAT
Statistics
Matches: 76, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
18 2 0.03
19 4 0.05
20 62 0.82
21 8 0.11
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (19 bp):
AATCGCGTTGCGATTTTCT
Found at i:99415 original size:14 final size:13
Alignment explanation
Indices: 99383--99425 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
99373 TTAGCCCCAA
99383 ATTTAT-TTT-TT
1 ATTTATATTTATT
*
99394 AATTATATTTATAT
1 ATTTATATTTAT-T
99408 ATTTATATTTATT
1 ATTTATATTTATT
99421 ATTTA
1 ATTTA
99426 ATATGTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 3 0.11
13 7 0.26
14 12 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTATATTTATT
Found at i:100362 original size:23 final size:23
Alignment explanation
Indices: 100336--100382 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
100326 TTTTAATAAC
*
100336 ATAATAAAT-TTTTTATATATTTA
1 ATAATAAATATTATT-TATATTTA
*
100359 ATAATGAATATTATTTATATTTA
1 ATAATAAATATTATTTATATTTA
100382 A
1 A
100383 ATATATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATAATAAATATTATTTATATTTA
Found at i:100417 original size:23 final size:23
Alignment explanation
Indices: 100375--100435 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
100365 AATATTATTT
**
100375 ATATTTAAATATATTTTAATAAAG
1 ATATTTAAA-ATATACTAATAAAG
* *
100399 ATATTTAAAATATACTAATTAAT
1 ATATTTAAAATATACTAATAAAG
*
100422 ATTTTTAAAATATA
1 ATATTTAAAATATA
100436 ATATAACAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 23 0.72
24 9 0.28
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATATTTAAAATATACTAATAAAG
Found at i:100563 original size:19 final size:19
Alignment explanation
Indices: 100541--100601 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
100531 ATAAAAATAC
100541 TATTTAATAATAAATAAAT
1 TATTTAATAATAAATAAAT
* *
100560 TATTTTATAATAAA-AAAG
1 TATTTAATAATAAATAAAT
*
100578 T-TTT-ATGATAAATAATAT
1 TATTTAATAATAAATAA-AT
100596 TATTTA
1 TATTTA
100602 TTGTATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
16 7 0.21
17 5 0.15
18 6 0.18
19 16 0.47
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTTAATAATAAATAAAT
Found at i:100602 original size:19 final size:17
Alignment explanation
Indices: 100531--100602 Score: 56
Period size: 19 Copynumber: 3.9 Consensus size: 17
100521 TAATAAAATT
*
100531 ATAAAAATACTATTTAATA
1 ATAAAAA-ATTATTT-ATA
100550 ATAAATAAATTATTTTATA
1 ATAAA-AAATTA-TTTATA
* *
100569 ATAAAAAAGT-TTTATG
1 ATAAAAAATTATTTATA
100585 ATAAATAATATTATTTAT
1 ATAAA-AA-ATTATTTAT
100603 TGTATTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
16 10 0.23
17 2 0.05
18 6 0.14
19 21 0.48
20 5 0.11
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAAAAAATTATTTATA
Found at i:100817 original size:30 final size:29
Alignment explanation
Indices: 100765--100841 Score: 145
Period size: 30 Copynumber: 2.6 Consensus size: 29
100755 TTCCAAAAAT
100765 GTAATTCATTTTCCAGAATTCAAATTCCA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
100794 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAG-AATTCAAATTCCA
100824 GTAATTCATTTTCCAGAA
1 GTAATTCATTTTCCAGAA
100842 AATCAATTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 18 0.38
30 29 0.62
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:100837 original size:15 final size:15
Alignment explanation
Indices: 100765--100839 Score: 107
Period size: 15 Copynumber: 5.1 Consensus size: 15
100755 TTCCAAAAAT
100765 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
100780 G-AATTCAAATTCCA
1 GTAATTCATTTTCCA
100794 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
**
100809 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
100824 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
100839 G
1 G
100840 AAAATCAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
14 12 0.24
15 39 0.76
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:101929 original size:42 final size:42
Alignment explanation
Indices: 101864--102125 Score: 260
Period size: 43 Copynumber: 6.1 Consensus size: 42
101854 GATATTAATA
* ** *
101864 GCCGCAAAAAGTTATGATATATAGCGGCGTTTCTAGAAAAAAC
1 GCCGCAAAAAGTCA-GACCTATAGCGGCGTTTTTAGAAAAAAC
* * * * *
101907 ACCGCAAAAGGTCAGATCTATAGCGGCGTTTGTATCAAAAAAC
1 GCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTA-GAAAAAAC
* *
101950 GCCGCAAAATAG-CAGACTTATA-CTGGTGTTTTTAGAAAAAAC
1 GCCGCAAAA-AGTCAGACCTATAGC-GGCGTTTTTAGAAAAAAC
* * *
101992 GCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACACAAAC
1 GCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTAGA-AAAAAC
* * *
102035 GCTGCAAAAGGTCAGACCTATAACGGCGTTTTT-GAACACAAAC
1 GCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTAGAA-A-AAAC
* *
102078 GCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTGGATACAAAC
1 GCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTAGA-AAAAAC
102121 GCCGC
1 GCCGC
102126 TAATTACCTT
Statistics
Matches: 184, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.01
42 56 0.30
43 122 0.66
44 3 0.02
45 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (42 bp):
GCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTAGAAAAAAC
Found at i:102107 original size:86 final size:85
Alignment explanation
Indices: 101889--102125 Score: 286
Period size: 85 Copynumber: 2.8 Consensus size: 85
101879 GATATATAGC
* * * * *
101889 GGCGTTTCTAGAAAAAACACCGCAAAAGGTCAGATCTATAGCGGCG--TTTGTATCAAAAAACGC
1 GGCGTTTTTAGAAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGA-C-ACAAACGC
*
101952 CGCAAAATAGCAGACTTATACT
64 CGCAAAATAGCAGACCTATACT
* *
101974 GGTGTTTTTAGAAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACACAAACGCTG
1 GGCGTTTTTAGAAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACACAAACGCCG
*
102039 CAAAA-GGTCAGACCTATAAC-
66 CAAAATAG-CAGACCTAT-ACT
* *
102059 GGCGTTTTT-GAACACAAACGCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTGGATACAAACGC
1 GGCGTTTTTAGAA-A-AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACACAAACGC
102123 CGC
64 CGC
102126 TAATTACCTT
Statistics
Matches: 133, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
84 4 0.03
85 72 0.54
86 52 0.39
87 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (85 bp):
GGCGTTTTTAGAAAAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACACAAACGCCG
CAAAATAGCAGACCTATACT
Done.