Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000646.1 Hibiscus syriacus cultivar Beakdansim tig00001251_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: 107637
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:323 original size:20 final size:20
Alignment explanation
Indices: 212--379 Score: 195
Period size: 19 Copynumber: 8.6 Consensus size: 20
202 TTGCGATGTT
*
212 CGCGTTGCGATTTACGTAT-
1 CGCGTTGCGATTTACGGATA
*
231 CGCATTGCGATTTA-GGATA
1 CGCGTTGCGATTTACGGATA
*
250 CGCATTGCGATTTAC-G-TA
1 CGCGTTGCGATTTACGGATA
**
268 TTCGTTGCGA-TTACGGATA
1 CGCGTTGCGATTTACGGATA
*
287 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
307 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
328 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
348 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
369 CTCGTTGCGAT
1 CGCGTTGCGAT
380 AGTCAGAATC
Statistics
Matches: 128, Mismatches: 12, Indels: 17
0.82 0.08 0.11
Matches are distributed among these distances:
17 4 0.03
18 13 0.10
19 38 0.30
20 38 0.30
21 35 0.27
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:329 original size:41 final size:39
Alignment explanation
Indices: 212--440 Score: 234
Period size: 40 Copynumber: 5.8 Consensus size: 39
202 TTGCGATGTT
*
212 CGCGTTGCGATTTACGTATCGCATTGCGATTTA-GGATA
1 CGCGTTGCGATTTACGTATCGCGTTGCGATTTACGGATA
* *
250 CGCATTGCGATTTACGTAT-TCGTTGCGA-TTACGGATA
1 CGCGTTGCGATTTACGTATCGCGTTGCGATTTACGGATA
*
287 CGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATA
1 CGCGTTGCGA-TTTACGTATCG-CGTTGCGATTTACGGATA
*
328 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATA
1 CGCGTTGCGATTTACGTAT-CGCGTTGCGA-TTTACGGATA
* * * ** *
369 CTCGTTGCGATAGT-CAGAATCGCGTTGCGATTTATATG-TT
1 CGCGTTGCGAT-TTAC-GTATCGCGTTGCGATTTA-CGGATA
* *
409 CGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 CGCGTTGCGATTTACGTA-TCGCGTTGCGATT
441 CTGGAAAATC
Statistics
Matches: 162, Mismatches: 17, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
36 3 0.02
37 21 0.13
38 27 0.17
39 2 0.01
40 53 0.33
41 52 0.32
42 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (39 bp):
CGCGTTGCGATTTACGTATCGCGTTGCGATTTACGGATA
Found at i:393 original size:61 final size:60
Alignment explanation
Indices: 211--402 Score: 216
Period size: 61 Copynumber: 3.2 Consensus size: 60
201 ATTGCGATGT
* * * * *
211 TCGCGTTGCGATTTACGTAT-CGCATTGCGA-TTTA-GGATACGCATTGCGATTTACGTA
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTTACGAA
* * ** *
268 T-TCGTTGCGA-TTACGGATACGCGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGA
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTTACGAA
*
326 TACGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGAA
1 T-CGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGAT-TTAC-GAA
388 TCGCGTTGCGATTTA
1 TCGCGTTGCGATTTA
403 TATGTTCGCG
Statistics
Matches: 112, Mismatches: 15, Indels: 12
0.81 0.11 0.09
Matches are distributed among these distances:
55 7 0.06
56 17 0.15
57 5 0.04
58 18 0.16
60 8 0.07
61 53 0.47
62 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATTTACGAA
Found at i:411 original size:20 final size:20
Alignment explanation
Indices: 388--440 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
378 ATAGTCAGAA
*
388 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
408 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
428 TCGCGTTGCGATT
1 TCGCGTTGCGATT
441 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:517 original size:19 final size:18
Alignment explanation
Indices: 495--547 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 18
485 TCGTAATCGC
495 ATTGCGATTCTGGAATCTG
1 ATTGCGATTCTGGAA-CTG
514 ATTGCGATTCTGGGAACTG
1 ATTGCGATTCT-GGAACTG
533 ATTTGCGATTCTGGA
1 A-TTGCGATTCTGGA
548 GATCGCGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (18 bp):
ATTGCGATTCTGGAACTG
Found at i:538 original size:20 final size:20
Alignment explanation
Indices: 495--546 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
485 TCGTAATCGC
495 ATTGCGATTCT-GGAATCTG
1 ATTGCGATTCTGGGAATCTG
514 ATTGCGATTCTGGGAA-CTG
1 ATTGCGATTCTGGGAATCTG
533 ATTTGCGATTCTGG
1 A-TTGCGATTCTGG
547 AGATCGCGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.37
Consensus pattern (20 bp):
ATTGCGATTCTGGGAATCTG
Found at i:558 original size:20 final size:21
Alignment explanation
Indices: 493--562 Score: 78
Period size: 20 Copynumber: 3.5 Consensus size: 21
483 CTTCGTAATC
493 GCATTGCGATTCTGGA-ATCT
1 GCATTGCGATTCTGGAGATCT
*
513 G-ATTGCGATTCTGG-GAACT
1 GCATTGCGATTCTGGAGATCT
532 G-ATTTGCGATTCTGGAGATC-
1 GCA-TTGCGATTCTGGAGATCT
*
552 GCGTTGCGATT
1 GCATTGCGATT
563 TTTATTTCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
19 18 0.42
20 22 0.51
21 3 0.07
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (21 bp):
GCATTGCGATTCTGGAGATCT
Found at i:7841 original size:16 final size:16
Alignment explanation
Indices: 7820--7850 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7810 GATTATAGAT
*
7820 ATTTTGATCTTTGTTC
1 ATTTTGATCATTGTTC
7836 ATTTTGATCATTGTT
1 ATTTTGATCATTGTT
7851 TGAGTATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.13, T:0.61
Consensus pattern (16 bp):
ATTTTGATCATTGTTC
Found at i:16045 original size:14 final size:14
Alignment explanation
Indices: 16028--16057 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16018 TTATTACATT
16028 TTCATTCTTTATTC
1 TTCATTCTTTATTC
16042 TTCATTCTTTATTC
1 TTCATTCTTTATTC
16056 TT
1 TT
16058 TACATTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (14 bp):
TTCATTCTTTATTC
Found at i:20657 original size:16 final size:16
Alignment explanation
Indices: 20636--20692 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
20626 TGACATTTCC
20636 AGAAGAGTTCATAATG
1 AGAAGAGTTCATAATG
* *
20652 AGAAGAACTCGTCATAAAGG
1 AGAAG-AGT--TCAT-AATG
20672 AGAA-AGTTCATAATG
1 AGAAGAGTTCATAATG
20687 AGAAGA
1 AGAAGA
20693 ACTTGTTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 7 0.22
16 10 0.31
17 2 0.06
18 2 0.06
19 4 0.12
20 7 0.22
ACGTcount: A:0.47, C:0.09, G:0.25, T:0.19
Consensus pattern (16 bp):
AGAAGAGTTCATAATG
Found at i:21003 original size:22 final size:22
Alignment explanation
Indices: 20977--21045 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
20967 AGTTCATAAT
20977 GAGAAGAACTCATCCAACAAGA
1 GAGAAGAACTCATCCAACAAGA
* * *
20999 GAGAAGAAGT--T-C-ATAA-T
1 GAGAAGAACTCATCCAACAAGA
21016 GAGAAGAACTCATCCAACAAGA
1 GAGAAGAACTCATCCAACAAGA
21038 GAGAAGAA
1 GAGAAGAA
21046 GTTCATAATG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 9 0.25
18 3 0.08
19 2 0.06
20 2 0.06
21 3 0.08
22 17 0.47
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.12
Consensus pattern (22 bp):
GAGAAGAACTCATCCAACAAGA
Found at i:21012 original size:39 final size:39
Alignment explanation
Indices: 20963--21064 Score: 197
Period size: 39 Copynumber: 2.6 Consensus size: 39
20953 CATTTTCAGT
20963 GAAG-AGTTCATAATGAGAAGAACTCATCCAACAAGAGA
1 GAAGAAGTTCATAATGAGAAGAACTCATCCAACAAGAGA
21001 GAAGAAGTTCATAATGAGAAGAACTCATCCAACAAGAGA
1 GAAGAAGTTCATAATGAGAAGAACTCATCCAACAAGAGA
21040 GAAGAAGTTCATAATGAGAAGAACT
1 GAAGAAGTTCATAATGAGAAGAACT
21065 TGTTCAATCC
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 4 0.06
39 59 0.94
ACGTcount: A:0.48, C:0.14, G:0.22, T:0.17
Consensus pattern (39 bp):
GAAGAAGTTCATAATGAGAAGAACTCATCCAACAAGAGA
Found at i:21021 original size:17 final size:17
Alignment explanation
Indices: 20999--21062 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
20989 TCCAACAAGA
20999 GAGAAGAAGTTCATAAT
1 GAGAAGAAGTTCATAAT
* * *
21016 GAGAAGAACTCATCCAACAAGA
1 GAGAAGAAGT--T-C-ATAA-T
21038 GAGAAGAAGTTCATAAT
1 GAGAAGAAGTTCATAAT
21055 GAGAAGAA
1 GAGAAGAA
21063 CTTGTTCAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 17 0.47
18 3 0.08
19 2 0.06
20 2 0.06
21 3 0.08
22 9 0.25
ACGTcount: A:0.50, C:0.11, G:0.23, T:0.16
Consensus pattern (17 bp):
GAGAAGAAGTTCATAAT
Found at i:21039 original size:20 final size:20
Alignment explanation
Indices: 20977--21039 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 20
20967 AGTTCATAAT
20977 GAGAAGAACTCATCCAACAAGA
1 GAGAAGAACTCATCCAAC-A-A
* *
20999 GAGAAGAAGT--T-CATA-AT
1 GAGAAGAACTCATCCA-ACAA
21016 GAGAAGAACTCATCCAACAA
1 GAGAAGAACTCATCCAACAA
21036 GAGA
1 GAGA
21040 GAAGAAGTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
17 9 0.28
18 1 0.03
19 4 0.12
20 9 0.28
22 9 0.28
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (20 bp):
GAGAAGAACTCATCCAACAA
Found at i:23182 original size:23 final size:23
Alignment explanation
Indices: 23156--23234 Score: 133
Period size: 23 Copynumber: 3.4 Consensus size: 23
23146 AAGATGATGT
23156 CACAAAGAC-GAAGAAAAACGTGC
1 CACAAAGACAG-AGAAAAACGTGC
*
23179 CACAACGACAGAGAAAAACGTGC
1 CACAAAGACAGAGAAAAACGTGC
23202 CACAAAGACAGAGAAAAACGTGC
1 CACAAAGACAGAGAAAAACGTGC
23225 CACAAAGACA
1 CACAAAGACA
23235 AAATTATTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
23 52 0.98
24 1 0.02
ACGTcount: A:0.52, C:0.24, G:0.20, T:0.04
Consensus pattern (23 bp):
CACAAAGACAGAGAAAAACGTGC
Found at i:28976 original size:14 final size:14
Alignment explanation
Indices: 28954--28991 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
28944 GGTTCGAATT
*
28954 CATCTATAATCAAA
1 CATCCATAATCAAA
28968 CATCCATAATCAAA
1 CATCCATAATCAAA
*
28982 CATGCATAAT
1 CATCCATAAT
28992 AGACAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (14 bp):
CATCCATAATCAAA
Found at i:38239 original size:32 final size:33
Alignment explanation
Indices: 38201--38302 Score: 145
Period size: 33 Copynumber: 3.1 Consensus size: 33
38191 CTTTGATTTC
38201 CCCCTCA-TTTCTATGGTTAATTATACTTTGCT
1 CCCCTCAGTTTCTATGGTTAATTATACTTTGCT
38233 CCCCTCAGTTTCTATGGTTAATTATACTTTGC-
1 CCCCTCAGTTTCTATGGTTAATTATACTTTGCT
* * *
38265 CCCCTTCATTTTCTATGATTAATTATATTTTGCCT
1 CCCC-TCAGTTTCTATGGTTAATTATACTTTG-CT
38300 CCC
1 CCC
38303 TTAAGTTAGA
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
32 11 0.17
33 48 0.76
34 1 0.02
35 3 0.05
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.46
Consensus pattern (33 bp):
CCCCTCAGTTTCTATGGTTAATTATACTTTGCT
Found at i:45627 original size:30 final size:30
Alignment explanation
Indices: 45591--45662 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
45581 CCCGAAGGAC
* *
45591 CTATCCAGAGGTCACAAGGAACCTCGGTAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
45621 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
* *
45651 CTGTCCATAGGT
1 CTATCCAGAGGT
45663 TCCGAAGAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:45687 original size:31 final size:31
Alignment explanation
Indices: 45649--45773 Score: 146
Period size: 31 Copynumber: 4.0 Consensus size: 31
45639 GATCCTCGGC
* *
45649 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
45680 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
*
45711 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* *
45742 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
45774 TACCCTCAAC
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
30 3 0.04
31 50 0.63
32 23 0.29
33 3 0.04
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:46057 original size:25 final size:25
Alignment explanation
Indices: 46019--46066 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
46009 TTATGAATCT
*
46019 CATATCATATCACATATTCACATAAA
1 CATATAATATCACATATT-ACATAAA
46045 CATATAAT-TCACATATTACATA
1 CATATAATATCACATATTACATA
46067 TACCTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 9 0.43
26 7 0.33
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (25 bp):
CATATAATATCACATATTACATAAA
Found at i:49149 original size:5 final size:5
Alignment explanation
Indices: 49139--49191 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
49129 AACGGTCAAC
* *
49139 GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG
1 GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG
49188 GGTC
1 GGTC
49192 AGACCGGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 32 0.80
7 8 0.20
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:49154 original size:17 final size:17
Alignment explanation
Indices: 49132--49192 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
49122 AACAGTCAAC
49132 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
49149 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAA----C-GGTCGGGTCG
49171 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
49188 GGTCA
1 GGTCA
49193 GACCGGTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 21 0.54
18 1 0.03
21 1 0.03
22 16 0.41
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:49167 original size:22 final size:22
Alignment explanation
Indices: 49139--49191 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
49129 AACGGTCAAC
49139 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
49161 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
49183 GGTCGGGTC
1 GGTCGGGTC
49192 AGACCGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCGGGTCAACGGTCG
Found at i:49216 original size:19 final size:19
Alignment explanation
Indices: 49194--49248 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
49184 GTCGGGTCAG
*
49194 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
*
49213 ACCGGTTGAAACCGG-TCAA
1 ACCGG-TCAAACCGGTTCAA
49232 ACCGGTCAGAACCGGTT
1 ACCGGTCA-AACCGGTT
49249 TCCGGCAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.07
19 19 0.63
20 9 0.30
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:56410 original size:24 final size:24
Alignment explanation
Indices: 56383--56443 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
56373 GAAAGTCAAC
56383 GGTCAACGGTCAACGGTCGGGTCG
1 GGTCAACGGTCAACGGTCGGGTCG
*
56407 GGTCAACGGTC--GGGTCGGGTCG
1 GGTCAACGGTCAACGGTCGGGTCG
56429 GGTCAGACCGGTCAA
1 GGTCA-A-CGGTCAA
56444 ACCGGTTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 15 0.47
23 1 0.03
24 16 0.50
ACGTcount: A:0.16, C:0.25, G:0.43, T:0.16
Consensus pattern (24 bp):
GGTCAACGGTCAACGGTCGGGTCG
Found at i:56412 original size:17 final size:17
Alignment explanation
Indices: 56390--56427 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
56380 AACGGTCAAC
56390 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
56407 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
56424 GGTC
1 GGTC
56428 GGGTCAGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:56453 original size:19 final size:18
Alignment explanation
Indices: 56429--56477 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 18
56419 GGTCGGGTCG
56429 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
56447 GGTTCAGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
56466 GGTCAGAACCGG
1 GGTCAG-ACCGG
56478 ATGAAAACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.27, C:0.31, G:0.31, T:0.12
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:56499 original size:9 final size:9
Alignment explanation
Indices: 56429--56498 Score: 68
Period size: 9 Copynumber: 7.3 Consensus size: 9
56419 GGTCGGGTCG
*
56429 GGTCAGACC
1 GGTCAAACC
56438 GGTCAAACC
1 GGTCAAACC
*
56447 GGTTCAGACC
1 GG-TCAAACC
56457 GGTCAAACC
1 GGTCAAACC
56466 GGTCAGAACC
1 GGTCA-AACC
*
56476 GGATGAAAACC
1 GG-T-CAAACC
*
56487 GGTTAAACC
1 GGTCAAACC
56496 GGT
1 GGT
56499 TTCCAGTAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
9 29 0.56
10 15 0.29
11 7 0.13
12 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.29, T:0.14
Consensus pattern (9 bp):
GGTCAAACC
Found at i:60301 original size:17 final size:18
Alignment explanation
Indices: 60279--60314 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
60269 CTATATTTTG
*
60279 TATCAG-ATTAAAATTAA
1 TATCAGAATCAAAATTAA
60296 TATCAGAATCAAAATTAA
1 TATCAGAATCAAAATTAA
60314 T
1 T
60315 TATATCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (18 bp):
TATCAGAATCAAAATTAA
Found at i:61626 original size:2 final size:2
Alignment explanation
Indices: 61619--61669 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
61609 TTAAACACGG
61619 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
61661 TA TA TA TA T
1 TA TA TA TA T
61670 GATTCCAGGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:66097 original size:73 final size:71
Alignment explanation
Indices: 65969--66103 Score: 173
Period size: 73 Copynumber: 1.9 Consensus size: 71
65959 GTAATTATTC
* * * *
65969 CTAATAACAAGCATTAAAAAATGAATTTAAGAGTAGCTCCACAATAACAAGTATTGAAAAAAAAT
1 CTAATAACAAACATTAAAAAATAAATTTAAGAGTAACTCCACAATAACAAATATTGAAAAAAAAT
66034 GAGTCT
66 GAGTCT
* * *
66040 CTAATAACAAATATTAAAAAAGTAAAATTTAAGAGTACACT-CATAATAATAAATATTGAAAAAA
1 CTAATAACAAACATTAAAAAA-T-AAATTTAAGAGTA-ACTCCACAATAACAAATATTGAAAAAA
66104 TCGACCTATA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
71 19 0.35
72 1 0.02
73 32 0.59
74 2 0.04
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (71 bp):
CTAATAACAAACATTAAAAAATAAATTTAAGAGTAACTCCACAATAACAAATATTGAAAAAAAAT
GAGTCT
Found at i:66146 original size:31 final size:29
Alignment explanation
Indices: 66078--66153 Score: 73
Period size: 31 Copynumber: 2.6 Consensus size: 29
66068 TTAAGAGTAC
* * *
66078 ACTCATAATAATAAATATTGAAAAAATCG
1 ACTCATAATAAAAAATATGGAAAAAATAG
*
66107 AC-CTATAATAAAAAAGTACTGGAAAAATTAG
1 ACTC-ATAATAAAAAA-TA-TGGAAAAAATAG
*
66138 ACTCATAATAATAAAT
1 ACTCATAATAAAAAAT
66154 TAATATTAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 1 0.03
29 12 0.32
30 3 0.08
31 21 0.55
32 1 0.03
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (29 bp):
ACTCATAATAAAAAATATGGAAAAAATAG
Found at i:66261 original size:30 final size:30
Alignment explanation
Indices: 66179--66275 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
66169 AATTAAATTT
* *
66179 AAAAAGTATACCCCTAATAACAAATATTGA
1 AAAAATTAGACCCCTAATAACAAATATTGA
* * * * * * *
66209 AAATATTAGGCTCGTGACAACAAGTATTGA
1 AAAAATTAGACCCCTAATAACAAATATTGA
*
66239 AAAAATTAGACCCCTAATAACAAATGTTAGA
1 AAAAATTAGACCCCTAATAACAAATATT-GA
66270 AAAAAT
1 AAAAAT
66276 ATTGAAAAAA
Statistics
Matches: 49, Mismatches: 17, Indels: 1
0.73 0.25 0.01
Matches are distributed among these distances:
30 41 0.84
31 8 0.16
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (30 bp):
AAAAATTAGACCCCTAATAACAAATATTGA
Found at i:66408 original size:32 final size:31
Alignment explanation
Indices: 66345--66431 Score: 86
Period size: 32 Copynumber: 2.8 Consensus size: 31
66335 GGTCCCTAAA
* * *
66345 AATAATTATTAGAAAAAATTGAGCCCATAAT
1 AATAAATATTAGAAAAAATTGAACACATAAT
**
66376 AATAAATATTAGAGAAAAATTGAACATTTAAT
1 AATAAATATTAGA-AAAAATTGAACACATAAT
* *
66408 AACAAGTATTA-AAAATAATTGAAC
1 AATAAATATTAGAAAA-AATTGAAC
66432 TCTGTAATTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 3 0.06
31 21 0.45
32 23 0.49
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (31 bp):
AATAAATATTAGAAAAAATTGAACACATAAT
Found at i:69623 original size:15 final size:16
Alignment explanation
Indices: 69588--69624 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
69578 AAGCGATAAG
69588 AAAAATATATTTAATT
1 AAAAATATATTTAATT
69604 AAAAATAT-TTATAATT
1 AAAAATATATT-TAATT
69620 AAAAA
1 AAAAA
69625 AGAAACAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATATATTTAATT
Found at i:72246 original size:38 final size:38
Alignment explanation
Indices: 72203--72477 Score: 180
Period size: 38 Copynumber: 7.2 Consensus size: 38
72193 GAGGAGAAAA
* *
72203 TTTCAAAACCCGTTTTTTAAAACTGTATATATATATGT
1 TTTCAAAACTCGTTTTTTAAAACTATATATATATATGT
**
72241 TTTCAAAA-TAATATGTTTTCAAAAAACTATAT-TATATATGT
1 TTTCAAAACTCGT-T-TTTT---AAAACTATATATATATATGT
* ** *
72282 TTTCAAAAATTATTTTTTAAAAAACTATATA-CTATATGTT
1 TTTCAAAACTCGTTTTTT--AAAACTATATATATATATG-T
* * **
72322 TTTTAAAA-TATGTTTTCAAAAACTATAT-TATATATGT
1 TTTCAAAACT-CGTTTTTTAAAACTATATATATATATGT
*
72359 TTTCAAAAAC-CCTTTTTTAAAAACTATATACTATAT-T-T
1 TTTC-AAAACTCGTTTTTT-AAAACTATATA-TATATATGT
**
72397 TTT-AAAAGCAT-GTTTTCAAAAACTATAT-TATATATGT
1 TTTCAAAA-C-TCGTTTTTTAAAACTATATATATATATGT
* *
72434 TTTCAAAAATCG-TTTTTAAAACTATATAT-TATACGT
1 TTTCAAAACTCGTTTTTTAAAACTATATATATATATGT
72470 TTTCAAAA
1 TTTCAAAA
72478 ACTGTATATA
Statistics
Matches: 191, Mismatches: 23, Indels: 48
0.73 0.09 0.18
Matches are distributed among these distances:
35 5 0.03
36 33 0.17
37 26 0.14
38 51 0.27
39 24 0.13
40 22 0.12
41 18 0.09
42 12 0.06
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (38 bp):
TTTCAAAACTCGTTTTTTAAAACTATATATATATATGT
Found at i:72272 original size:18 final size:17
Alignment explanation
Indices: 72233--72272 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
72223 AACTGTATAT
*
72233 ATATATGTTTTCAAAAT
1 ATATATGTTTTCAAAAA
72250 A-ATATGTTTTCAAAAA
1 ATATATGTTTTCAAAAA
72266 ACTATAT
1 A-TATAT
72273 TATATATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 15 0.75
17 1 0.05
18 4 0.20
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (17 bp):
ATATATGTTTTCAAAAA
Found at i:72421 original size:75 final size:74
Alignment explanation
Indices: 72253--72472 Score: 318
Period size: 75 Copynumber: 2.9 Consensus size: 74
72243 TCAAAATAAT
*
72253 ATGTTTTCAAAAAACTATATTATATATGTTTTCAAAAATTATTTTTTAAAAAACTATATACTATA
1 ATGTTTTC-AAAAACTATATTATATATGTTTTCAAAAA-TCTTTTTT-AAAAACTATATACTATA
*
72318 TGTTTTTTAAAAT
63 -GTTTTTTAAAAC
*
72331 ATGTTTTCAAAAACTATATTATATATGTTTTCAAAAACCCTTTTTTAAAAACTATATACTATA-T
1 ATGTTTTCAAAAACTATATTATATATGTTTTCAAAAA-TCTTTTTTAAAAACTATATACTATAGT
72395 TTTTTAAAAGC
65 TTTTTAAAA-C
* *
72406 ATGTTTTCAAAAACTATATTATATATGTTTTCAAAAATCGTTTTT-AAAACTATATATTATACGT
1 ATGTTTTCAAAAACTATATTATATATGTTTTCAAAAATCTTTTTTAAAAACTATATACTATA-GT
72470 TTT
65 TTT
72473 CAAAAACTGT
Statistics
Matches: 132, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
73 15 0.11
74 16 0.12
75 41 0.31
76 17 0.13
77 35 0.27
78 8 0.06
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (74 bp):
ATGTTTTCAAAAACTATATTATATATGTTTTCAAAAATCTTTTTTAAAAACTATATACTATAGTT
TTTTAAAAC
Found at i:73899 original size:2 final size:2
Alignment explanation
Indices: 73892--73962 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
73882 TCAACAAATC
73892 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
73934 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73963 CACGAGAACG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:76772 original size:58 final size:57
Alignment explanation
Indices: 76664--76776 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
76654 AGATTAGTTT
* ** *
76664 TTAAATTTTGAATATTTCAATTTCATCTTTAAATTATAATTTTCAGTCTAAATTATC
1 TTAAATTTTAAATATTTCAATTTCATCCCTAAATTATAATCTTCAGTCTAAATTATC
* * *
76721 TTAAACTTTTAAATATTTTAATTTCATCCCTAAATTATGACTCTT-ATTCTAAATTA
1 TTAAA-TTTTAAATATTTCAATTTCATCCCTAAATTAT-AATCTTCAGTCTAAATTA
76777 CTCAACATCT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 5 0.11
58 38 0.81
59 4 0.09
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (57 bp):
TTAAATTTTAAATATTTCAATTTCATCCCTAAATTATAATCTTCAGTCTAAATTATC
Found at i:81384 original size:21 final size:21
Alignment explanation
Indices: 81351--81540 Score: 158
Period size: 21 Copynumber: 9.3 Consensus size: 21
81341 CAATGCGATT
81351 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* ** *
81372 TTACGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
*
81391 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
*
81412 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
** *
81433 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
* * *
81452 TTGCGATAGTCAAAGTTTGCA
1 TTGCGATAGTCCAAGTTCGCG
** *
81473 TTGCGATAGTTGAAGTTCGCA
1 TTGCGATAGTCCAAGTTCGCG
** *
81494 TTGCGATTTTCCAAATT--CG
1 TTGCGATAGTCCAAGTTCGCG
* *
81513 TTGCGATAGTCGAAGTTCGCA
1 TTGCGATAGTCCAAGTTCGCG
81534 TTGCGAT
1 TTGCGAT
81541 TTTTCAAAAT
Statistics
Matches: 131, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
19 43 0.33
21 88 0.67
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:81407 original size:40 final size:41
Alignment explanation
Indices: 81351--81548 Score: 181
Period size: 40 Copynumber: 4.9 Consensus size: 41
81341 CAATGCGATT
* *
81351 TTGCGATAGTCCAAGTTCGCGTTACGATTTTCCAAATT-CG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTGCG
** * *
81391 TTGCGATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT-GCG
** * * ** *
81433 TTGCGATTTTCCAAATT--CGTTGCGATAGT-CAAAGTTTGCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAA--TTGCG
* *
81473 TTGCGATAGTTGAAGTTCGCATTGCGATTTTCCAAATT-CG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTGCG
* *
81513 TTGCGATAGTCGAAGTTCGCATTGCGATTTTTCAAA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAA
81549 ATCGCAACGA
Statistics
Matches: 127, Mismatches: 24, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
39 2 0.02
40 93 0.73
41 4 0.03
42 24 0.19
43 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTGCG
Found at i:81421 original size:61 final size:61
Alignment explanation
Indices: 81351--81540 Score: 317
Period size: 61 Copynumber: 3.1 Consensus size: 61
81341 CAATGCGATT
* * *
81351 TTGCGATAGTCCAAGTTCGCGTTACGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCA
* *
81412 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCAAAGTTTGCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCA
* *
81473 TTGCGATAGTTGAAGTTCGCATTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCA
81534 TTGCGAT
1 TTGCGAT
81541 TTTTCAAAAT
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 120 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (61 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCA
Found at i:82016 original size:22 final size:21
Alignment explanation
Indices: 81991--82047 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 21
81981 ACTTTCACAA
*
81991 CAACACGTTTTTCAAACTCTCG
1 CAACAC-TTTTTCAAACTATCG
*
82013 CAACACATTTT--AACTATCG
1 CAACACTTTTTCAAACTATCG
82032 CAACACATTTTTCAAA
1 CAACAC-TTTTTCAAA
82048 ATCGCGTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 4 0.14
22 8 0.28
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (21 bp):
CAACACTTTTTCAAACTATCG
Found at i:82032 original size:19 final size:19
Alignment explanation
Indices: 82005--82042 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
81995 ACGTTTTTCA
*
82005 AACTCTCGCAACACATTTT
1 AACTATCGCAACACATTTT
82024 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
82043 TCAAAATCGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (19 bp):
AACTATCGCAACACATTTT
Found at i:83891 original size:23 final size:23
Alignment explanation
Indices: 83857--83901 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
83847 TTTTAATCTT
*
83857 AAAATAATTTCAAAACGATTTTAC
1 AAAATAATTTC-AAACCATTTTAC
83881 AAAAT-ATTTCAAACCATTTTA
1 AAAATAATTTCAAACCATTTTA
83902 AAGCCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 5 0.25
24 5 0.25
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAATAATTTCAAACCATTTTAC
Found at i:85904 original size:23 final size:23
Alignment explanation
Indices: 85877--85926 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
85867 GTGAATGATA
85877 TGATAAGAAGATACGGGTTTATG
1 TGATAAGAAGATACGGGTTTATG
*
85900 TGATAAGAAGATATGGGTTTATG
1 TGATAAGAAGATACGGGTTTATG
85923 TGAT
1 TGAT
85927 GTATGAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (23 bp):
TGATAAGAAGATACGGGTTTATG
Found at i:86168 original size:22 final size:22
Alignment explanation
Indices: 86140--86222 Score: 139
Period size: 22 Copynumber: 3.8 Consensus size: 22
86130 GTCGAGGGTT
*
86140 TCATAGGTCCTTCAGGACATAC
1 TCATAGGTCCTTCGGGACATAC
86162 TCATAGGTCCTTCGGGACATAC
1 TCATAGGTCCTTCGGGACATAC
86184 TCATAGGTCCTTCGGGACATAC
1 TCATAGGTCCTTCGGGACATAC
* *
86206 TCACAGGTCATTCGGGA
1 TCATAGGTCCTTCGGGA
86223 TATATTTCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (22 bp):
TCATAGGTCCTTCGGGACATAC
Found at i:86519 original size:22 final size:22
Alignment explanation
Indices: 86494--86535 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
86484 GATTAAAAGA
86494 ATAA-ATATAATAGGATATGATT
1 ATAAGATATAA-AGGATATGATT
*
86516 ATAAGATATAAATGATATGA
1 ATAAGATATAAAGGATATGA
86536 ATATTGATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.33
Consensus pattern (22 bp):
ATAAGATATAAAGGATATGATT
Found at i:86543 original size:29 final size:29
Alignment explanation
Indices: 86482--86543 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
86472 GAATCATATG
*
86482 TTGATTAAAAGAATAAATATAATAGGATA
1 TTGATTAAAAGAATAAATATAATAGAATA
*
86511 -TGATTATAAGATATAAATGAT-AT-GAATA
1 TTGATTAAAAGA-ATAAAT-ATAATAGAATA
86539 TTGAT
1 TTGAT
86544 AGTGGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
28 14 0.50
29 12 0.43
30 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (29 bp):
TTGATTAAAAGAATAAATATAATAGAATA
Found at i:87551 original size:41 final size:41
Alignment explanation
Indices: 87494--87571 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
87484 GTTAGTGACT
* *
87494 TGATTGATAATAATTAAATGATTAGGTGGTCTAATTGGCAA
1 TGATTGATAATAATTAAATAACTAGGTGGTCTAATTGGCAA
87535 TGATTGATAATAATTAAATAACTAGGTGGTCTAATTG
1 TGATTGATAATAATTAAATAACTAGGTGGTCTAATTG
87572 ACAAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (41 bp):
TGATTGATAATAATTAAATAACTAGGTGGTCTAATTGGCAA
Found at i:90785 original size:25 final size:25
Alignment explanation
Indices: 90757--90807 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
90747 CCCTCCTGGG
90757 TAAGTTTAGTTCTTCTCATCCTCTT
1 TAAGTTTAGTTCTTCTCATCCTCTT
*
90782 TAAGTTTAGTTGTTCTCATCCTCTT
1 TAAGTTTAGTTCTTCTCATCCTCTT
90807 T
1 T
90808 CCTTGTTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.10, T:0.53
Consensus pattern (25 bp):
TAAGTTTAGTTCTTCTCATCCTCTT
Found at i:92637 original size:24 final size:22
Alignment explanation
Indices: 92594--92637 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
92584 AGTCAGCTTG
92594 TATGACACGTTTTTCTTTTTTT
1 TATGACACGTTTTTCTTTTTTT
* *
92616 TATGGCACGTGTTTTCTGTTTT
1 TATGACACGT-TTTTCTTTTTT
92638 GTGGCACGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.11, C:0.14, G:0.16, T:0.59
Consensus pattern (22 bp):
TATGACACGTTTTTCTTTTTTT
Found at i:92642 original size:21 final size:20
Alignment explanation
Indices: 92594--92651 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
92584 AGTCAGCTTG
* *
92594 TATGACACGTTTTTCTTTTTTT
1 TATGGCACGTTTTTC--TGTTT
92616 TATGGCACGTGTTTTCTGTTT
1 TATGGCACGT-TTTTCTGTTT
*
92637 TGTGGCACGTTTTTC
1 TATGGCACGTTTTTC
92652 GGACGTTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 5 0.16
21 13 0.41
22 9 0.28
23 5 0.16
ACGTcount: A:0.10, C:0.16, G:0.19, T:0.55
Consensus pattern (20 bp):
TATGGCACGTTTTTCTGTTT
Found at i:93023 original size:27 final size:27
Alignment explanation
Indices: 92985--93041 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
92975 AATTATATGC
*
92985 TTAATTTACGATTATGATTGTAAATTT
1 TTAATTTACGATTATGATTGTAAAATT
93012 TTAATTTACGATTATGATTGTAAAATT
1 TTAATTTACGATTATGATTGTAAAATT
93039 TTA
1 TTA
93042 TTGTAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (27 bp):
TTAATTTACGATTATGATTGTAAAATT
Found at i:95723 original size:23 final size:23
Alignment explanation
Indices: 95688--95760 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
95678 ATACTTTACA
*
95688 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
95711 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
95734 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
95757 ATAT
1 ATAT
95761 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:97511 original size:120 final size:120
Alignment explanation
Indices: 97298--97544 Score: 422
Period size: 120 Copynumber: 2.1 Consensus size: 120
97288 TTTTTCTTCC
*
97298 ATTCTGGACATAAAGTACAGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACAGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
97363 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* *
97418 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACAGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * * * *
97483 CATAAAACTGGTATATTTATACCGGTTATATTACAAAATTATCTATTATATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
97538 ATTCTGG
1 ATTCTGG
97545 GTTCCGATGT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACAGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:97680 original size:303 final size:303
Alignment explanation
Indices: 97133--98030 Score: 1609
Period size: 303 Copynumber: 3.0 Consensus size: 303
97123 TTAAAATTAG
*
97133 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAA-TCGGTATATT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACT-GGTATATT
**
97197 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTAAGTTCCGATGTGTAAATGTCG
65 TATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
97262 ACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATAT
130 ACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATAT
97327 TAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTAT
195 TAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTAT
97392 ATTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
260 ATTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
97436 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTT
*
97501 ATACCGGTTATATTACAAAATTATCTATTATATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
* *
97566 CACTTTTTGACAATGTATAGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATATT
*
97631 AAAAAGTGTCGACATAGGTTGTAGACCTATTCCCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
97696 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
* * *
97739 CGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTT
*
97804 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCCGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
* *
97869 CACTTTTTGACAAGGTATCGATACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATATT
* * * * *
97934 AAAAAGTATCGATATATGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
*
97999 TTACAAAATTATCTATTACATTATAATTCTGG
261 TTACAAAATTATCTAGTACATTATAATTCTGG
98031 GTTCCGATAT
Statistics
Matches: 571, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
303 570 1.00
304 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.34
Consensus pattern (303 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACAGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:97814 original size:120 final size:120
Alignment explanation
Indices: 97601--97844 Score: 407
Period size: 120 Copynumber: 2.0 Consensus size: 120
97591 TTTTTCTTCC
* * *
97601 ATTCTGGACATAAAGTACAGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCCCT
1 ATTCTGGACATAAAGTACAGACACAAAATTAAAAAGTATCGACATAGGTTGTAGACATATTCCCT
97666 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
* * *
97721 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACATATTCGCT
1 ATTCTGGACATAAAGTACAGACACAAAATTAAAAAGTATCGACATAGGTTGTAGACATATTCCCT
* * *
97786 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
97841 ATTC
1 ATTC
97845 CGGGTTCCGA
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACAGACACAAAATTAAAAAGTATCGACATAGGTTGTAGACATATTCCCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:98035 original size:183 final size:183
Alignment explanation
Indices: 97721--98123 Score: 743
Period size: 183 Copynumber: 2.2 Consensus size: 183
97711 GTACATTATA
*
97721 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTATCGATATAGGTTGTAGACATATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTATCGATATAGGTTGTAGACATATTCGCT
97786 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCCGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCCGGGTT
* *
97851 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGATACATTTTTCTTCC
131 CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
* *
97904 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTATCGATATATGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTATCGATATAGGTTGTAGACATATTCGCT
*
97969 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCCGGGTT
98034 CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
98087 ATTCTGGATATAAAGTACCGACACAATATTAAAAAGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGT
98124 GTGAAAACTT
Statistics
Matches: 213, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 213 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTATCGATATAGGTTGTAGACATATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCCGGGTT
CCGATATGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:99342 original size:3 final size:3
Alignment explanation
Indices: 99334--99381 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
99324 ACTTGTTTGG
* * * *
99334 ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC TTC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
99382 GTCAGCTTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:99382 original size:12 final size:12
Alignment explanation
Indices: 99335--99398 Score: 83
Period size: 12 Copynumber: 5.3 Consensus size: 12
99325 CTTGTTTGGA
* *
99335 TCATCATCATCA
1 TCATCTTCATCG
*
99347 TCATCATCATCG
1 TCATCTTCATCG
99359 TCATCTTCATCG
1 TCATCTTCATCG
99371 TCATCTTCATCG
1 TCATCTTCATCG
* *
99383 TCAGCTTCATCT
1 TCATCTTCATCG
99395 TCAT
1 TCAT
99399 TGACCGCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:99396 original size:6 final size:6
Alignment explanation
Indices: 99335--99398 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
99325 CTTGTTTGGA
* * * * * *
99335 TCATCA TCATCA TCATCA TCATCG TCATCT TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
99383 TCAGCT TCATCT TCAT
1 TCATCT TCATCT TCAT
99399 TGACCGCTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:101221 original size:200 final size:200
Alignment explanation
Indices: 100897--102058 Score: 2022
Period size: 200 Copynumber: 5.8 Consensus size: 200
100887 AACATTAAAC
*
100897 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * * *
100962 AAAATTATCTAATACATTATACTTATGGGTTTAGATATTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
101027 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCAATCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
101092 ACAAA
196 ACAAA
*
101097 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
101162 AAAATTACCTATTACATTATACTTATAGGTTTCGATGTTTATGGGATCGATACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * *
101227 GATCGACAC--TATTGTTGTAACCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
*
101290 AAAAA
196 ACAAA
* *
101295 AGTGTCGAAACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACTGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
101360 AAAATTACCTATTACATTATACTTATAGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
101425 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACATAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
101490 ACAAA
196 ACAAA
101495 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * *
101560 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGATAATTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* *
101625 GATCAACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
101690 ACAAA
196 ACAAA
*
101695 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* * *
101760 AAAATTACTTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTCTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
101825 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
101890 ACAAA
196 ACAAA
* *
101895 AGTGTCGATACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
101960 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTCTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
102025 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
102059 ATTGTAAATT
Statistics
Matches: 921, Mismatches: 39, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
198 189 0.21
200 732 0.79
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:102316 original size:19 final size:19
Alignment explanation
Indices: 102292--102340 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
102282 TTATATTTAC
102292 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
102311 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
102330 ATACAAAATTA
1 ATACAAAATTA
102341 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:104160 original size:33 final size:33
Alignment explanation
Indices: 104123--104188 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
104113 CATCTTAATA
* *
104123 TCACCCCTTAACACC-CCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCCAA-TTCTTTCAACACT
*
104156 TCACCCCTCAACACCTCTAATTCTTTCAACACT
1 TCACCCCTCAACACCTCCAATTCTTTCAACACT
104189 CTATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.26, C:0.45, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCTCCAATTCTTTCAACACT
Found at i:104247 original size:21 final size:21
Alignment explanation
Indices: 104222--104286 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
104212 CCCCTTATGC
* *
104222 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
104243 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
104264 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
104285 CT
1 CT
104287 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:106817 original size:181 final size:180
Alignment explanation
Indices: 106471--106937 Score: 617
Period size: 181 Copynumber: 2.6 Consensus size: 180
106461 CGTACTTACG
* * * *
106471 AAAGTATCGACTCTTTCAATATATCCGGTATCGTTTTATCGG-TTTATCATTTTGGTACCGG-TT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
106534 TT-ATATTTTACCTGTTATATCGTTGTGGATCGATATATATTTTTAAAGTATCGACACTTATAGG
66 TTCATATTTTACCTGTTATATCGTTTTGGATCGATACAT-TTTTTAAAGTATCGACACTTATAGG
*
106598 CGCTAAAACTGCTTCTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
130 AGCTAAAACTGCTTCTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
106648 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* **
106713 TATCATATTTTTACCTGGTATATTATTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 T-TCATA-TTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACAC-TTAT
** *
106778 AGGATTTAAAACTGC-T-TCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
127 AGGAGCTAAAACTGCTTCTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * * **
106830 AAAGTACCGACACTTTAAATGTATCTGG-AGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
106894 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCG-TACATTTTT
66 T-TCATA-TTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
106938 AATTTGGATC
Statistics
Matches: 254, Mismatches: 28, Indels: 13
0.86 0.09 0.04
Matches are distributed among these distances:
177 39 0.15
178 17 0.07
179 3 0.01
180 10 0.04
181 102 0.40
182 67 0.26
183 16 0.06
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TTCATATTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACTTATAGGA
GCTAAAACTGCTTCTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Done.