Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009613.1 Hibiscus syriacus cultivar Beakdansim tig00116999_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: 156376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:408 original size:23 final size:23
Alignment explanation
Indices: 372--421 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
362 CTGAATGATT
*
372 CAGTGCTGACTGATTCAGCAAAA
1 CAGTGCTGAATGATTCAGCAAAA
*
395 CAGTGTTGAATGATTCAGCAAAA
1 CAGTGCTGAATGATTCAGCAAAA
418 CAGT
1 CAGT
422 TCATTCTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (23 bp):
CAGTGCTGAATGATTCAGCAAAA
Found at i:439 original size:27 final size:24
Alignment explanation
Indices: 372--439 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 24
362 CTGAATGATT
*
372 CAGTG-CTGACTGATTCAGCAAAA
1 CAGTGTCTGAATGATTCAGCAAAA
395 CAGTGT-TGAATGATTCAGCAAAA
1 CAGTGTCTGAATGATTCAGCAAAA
*
418 CAGTTCATTCTGAATGATTCAG
1 CAG-T--GTCTGAATGATTCAG
440 AGCCAGTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 24 0.63
24 1 0.03
26 1 0.03
27 12 0.32
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (24 bp):
CAGTGTCTGAATGATTCAGCAAAA
Found at i:4392 original size:17 final size:17
Alignment explanation
Indices: 4359--4392 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4349 TATTTGAATG
*
4359 GACTCGACTCGAGTTCT
1 GACTCGACTCGAATTCT
*
4376 GACTCGACTTGAATTCT
1 GACTCGACTCGAATTCT
4393 TAACTAGCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (17 bp):
GACTCGACTCGAATTCT
Found at i:7893 original size:18 final size:19
Alignment explanation
Indices: 7865--7900 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7855 AGTGTTTGGT
7865 TTACAAAAATAAAATTATC
1 TTACAAAAATAAAATTATC
*
7884 TTAC-AAAATAATATTAT
1 TTACAAAAATAAAATTAT
7901 TATAGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
TTACAAAAATAAAATTATC
Found at i:15862 original size:33 final size:33
Alignment explanation
Indices: 15820--15888 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
15810 GTGATCACAT
* * *
15820 TTTGTCCAACCCAGTCGTGAACATGACTTGTGG
1 TTTGTCCAACCCAGTCATGAACATGACCTATGG
*
15853 TTTGTCCAACCGAGTCATGAACATGACCTATGG
1 TTTGTCCAACCCAGTCATGAACATGACCTATGG
15886 TTT
1 TTT
15889 TTATGTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (33 bp):
TTTGTCCAACCCAGTCATGAACATGACCTATGG
Found at i:19681 original size:13 final size:13
Alignment explanation
Indices: 19663--19693 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
19653 AAATATCTTC
19663 AATGACCACAATT
1 AATGACCACAATT
19676 AATGACCACAATT
1 AATGACCACAATT
*
19689 GATGA
1 AATGA
19694 TAAGTAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (13 bp):
AATGACCACAATT
Found at i:28311 original size:2 final size:2
Alignment explanation
Indices: 28306--28334 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
28296 ATGTATGAAT
28306 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28335 TAGATAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37939 original size:15 final size:15
Alignment explanation
Indices: 37915--37956 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
37905 TATACTTCAA
37915 TAACAACGACTCC-G
1 TAACAACGACTCCAG
*
37929 TTAACAGCGACTCCAG
1 -TAACAACGACTCCAG
37945 TAACAACGACTC
1 TAACAACGACTC
37957 TAATAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.36, C:0.33, G:0.14, T:0.17
Consensus pattern (15 bp):
TAACAACGACTCCAG
Found at i:38702 original size:3 final size:3
Alignment explanation
Indices: 38690--38728 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
38680 TTTTATCATC
*
38690 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38729 GTTTGGACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:41185 original size:17 final size:17
Alignment explanation
Indices: 41163--41197 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
41153 GTTTATATGT
41163 AAAATATAAAGTTAATA
1 AAAATATAAAGTTAATA
* *
41180 AAAATATCAATTTAATA
1 AAAATATAAAGTTAATA
41197 A
1 A
41198 TTTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAATATAAAGTTAATA
Found at i:50893 original size:14 final size:14
Alignment explanation
Indices: 50871--50916 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
50861 CGTTCGTGAA
50871 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
50885 CGTTTGGTTATGTT
1 CGTTCGGTTATGTT
*
50899 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
50913 CGTT
1 CGTT
50917 TATGTTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.09, C:0.13, G:0.26, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:51675 original size:10 final size:10
Alignment explanation
Indices: 51660--51734 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
51650 GGGTCTCCAA
51660 CGTTTATGTT
1 CGTTTATGTT
51670 CGTTTATGTT
1 CGTTTATGTT
51680 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
51691 ATGTTCGTGTT
1 -CGTTTATGTT
51702 CGTTTATGTT
1 CGTTTATGTT
51712 CG----TGTT
1 CGTTTATGTT
51718 CGTTTATGTT
1 CGTTTATGTT
51728 CGTTTAT
1 CGTTTAT
51735 TTATTAAATC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:51691 original size:16 final size:16
Alignment explanation
Indices: 51666--51730 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
51656 CCAACGTTTA
51666 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
51682 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
51698 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
51714 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
51730 T
1 T
51731 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:51822 original size:16 final size:16
Alignment explanation
Indices: 51801--51831 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51791 AAAAAATTTT
51801 GTTCGTTTATGTTCGC
1 GTTCGTTTATGTTCGC
51817 GTTCGTTTATGTTCG
1 GTTCGTTTATGTTCG
51832 TTTATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.16, G:0.26, T:0.52
Consensus pattern (16 bp):
GTTCGTTTATGTTCGC
Found at i:52367 original size:19 final size:18
Alignment explanation
Indices: 52326--52366 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
52316 TAATAATGAG
52326 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
52344 TTATTAT-AATTATATTT
1 TTATTATAAAATATATTT
52361 TT-TTAT
1 TTATTAT
52367 TTGTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 11 0.50
18 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:52375 original size:14 final size:15
Alignment explanation
Indices: 52342--52383 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
52332 TAAAATATAT
* *
52342 TTTTATTATAATTATA
1 TTTT-TTATATTTGTA
52358 TTTTTT-TATTTGTA
1 TTTTTTATATTTGTA
52372 TTTTTTATATTT
1 TTTTTTATATTT
52384 TTACTATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 7 0.30
16 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTTTATATTTGTA
Found at i:56301 original size:15 final size:16
Alignment explanation
Indices: 56275--56308 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
56265 GGTAAAGTGA
*
56275 AAATTGAAAGGATTAC
1 AAATTGAAAGGAGTAC
56291 AAATT-AAAGGAGTAC
1 AAATTGAAAGGAGTAC
56306 AAA
1 AAA
56309 AAATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.21
Consensus pattern (16 bp):
AAATTGAAAGGAGTAC
Found at i:58691 original size:41 final size:40
Alignment explanation
Indices: 58582--58693 Score: 197
Period size: 40 Copynumber: 2.8 Consensus size: 40
58572 CCTATACTTA
*
58582 CTTCTTTATTTGTCTTTCCGATCAACCAAACATACGATAT
1 CTTCTTTATTTGTTTTTCCGATCAACCAAACATACGATAT
*
58622 CTTCTTTATTTGTTTTTCCGATCAACCAAACGTACGATAT
1 CTTCTTTATTTGTTTTTCCGATCAACCAAACATACGATAT
58662 CTTCTTTATTTGTTTTTTCCGATCAACCAAAC
1 CTTCTTTATTTG-TTTTTCCGATCAACCAAAC
58694 TGTCAATGTC
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 50 0.72
41 19 0.28
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.43
Consensus pattern (40 bp):
CTTCTTTATTTGTTTTTCCGATCAACCAAACATACGATAT
Found at i:59239 original size:45 final size:44
Alignment explanation
Indices: 59190--59280 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 44
59180 AAAATATTGA
59190 ATATAATATAATCAATAGATTTTATTTTATTAACATAA-TAATTTT
1 ATATAATATAATCAATAGATTTTATTTTATTAA-A-AATTAATTTT
59235 ATATAATATAATCAATAGATTTTATTTTATTAAAAATTAATTTT
1 ATATAATATAATCAATAGATTTTATTTTATTAAAAATTAATTTT
59279 AT
1 AT
59281 TTTATTACCC
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
43 2 0.04
44 10 0.22
45 33 0.73
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (44 bp):
ATATAATATAATCAATAGATTTTATTTTATTAAAAATTAATTTT
Found at i:59279 original size:21 final size:21
Alignment explanation
Indices: 59203--59287 Score: 84
Period size: 22 Copynumber: 3.9 Consensus size: 21
59193 TAATATAATC
59203 AATAGATTTTATTTTATTAACA
1 AATA-ATTTTATTTTATTAACA
* *
59225 TAATAATTTTATATAATATAATC-
1 -AATAATTTTATTTTAT-TAA-CA
59248 AATAGATTTTATTTTATTAA-A
1 AATA-ATTTTATTTTATTAACA
59269 AATTAATTTTATTTTATTA
1 AA-TAATTTTATTTTATTA
59288 CCCTATCTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
21 16 0.30
22 19 0.36
23 17 0.32
24 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
AATAATTTTATTTTATTAACA
Found at i:61179 original size:21 final size:20
Alignment explanation
Indices: 61093--61250 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
61083 AAATGACCAA
**
61093 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
61112 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
61132 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
61152 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
61173 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* * **
61194 CAAATTCGTATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
61214 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
61235 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
61251 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 41 0.40
21 45 0.44
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:61279 original size:20 final size:20
Alignment explanation
Indices: 61217--61410 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
61207 CGATTTTCCA
* ** *
61217 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
61237 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
61257 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
61277 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
61297 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
61317 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
61337 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
61357 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
61377 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
61398 AAATCGCAACGCG
1 AAATCGCAACGCG
61411 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:61301 original size:60 final size:60
Alignment explanation
Indices: 61217--61410 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
61207 CGATTTTCCA
* ** * *
61217 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
61277 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
61337 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
61398 AAATCGCAACGCG
1 AAATCGCAACGCG
61411 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:61825 original size:33 final size:33
Alignment explanation
Indices: 61786--61856 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
61776 TTCACTTAGA
*
61786 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
61819 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
61852 TTTCA
1 TTTCA
61857 AGTTAGTATT
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:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:61980 original size:20 final size:20
Alignment explanation
Indices: 61936--62045 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
61926 TGCAGAAGAG
*
61936 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
61957 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
61977 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
61998 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
62012 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
62031 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
62046 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:61993 original size:41 final size:38
Alignment explanation
Indices: 61929--62045 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
61919 TTCAATTTGC
* *
61929 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
61967 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
62008 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
62041 AGAAT
1 AGAAT
62046 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:62015 original size:14 final size:14
Alignment explanation
Indices: 61996--62052 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
61986 GAGAAATGAA
61996 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
62010 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
62029 AATCGCAACGAGAG
1 AATCGCAACGAGAG
62043 AATCGCAACG
1 AATCGCAACG
62053 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:62028 original size:33 final size:33
Alignment explanation
Indices: 61988--62057 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
61978 CGCAACGAGA
61988 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
62021 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
62054 GAAA
1 GAAA
62058 CCAAAAGATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:62582 original size:24 final size:24
Alignment explanation
Indices: 62548--62594 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
62538 CTGAAACATC
62548 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
62572 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
62595 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:63305 original size:20 final size:20
Alignment explanation
Indices: 63277--63486 Score: 208
Period size: 20 Copynumber: 10.5 Consensus size: 20
63267 AAATTTCAGT
* * *
63277 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
63297 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
63317 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
63337 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
63357 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
63377 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
63397 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
63417 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
63437 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
**
63457 GTTGCGATTTTA-ATATTCGC
1 GTTGCGA-TTTACGGATTCGC
63477 GTTGCGATTT
1 GTTGCGATTT
63487 TGGAAAATTG
Statistics
Matches: 165, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.02
20 157 0.95
21 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:63487 original size:20 final size:20
Alignment explanation
Indices: 63434--63550 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 20
63424 TTTACGGATA
* *
63434 CGCGTTGCGA-TTTATGTGTT
1 CGCGTTGCGATTTTA-ATATT
63454 CGCGTTGCGATTTTAATATT
1 CGCGTTGCGATTTTAATATT
*
63474 CGCGTTGCGATTTTGGAAAATT
1 CGCGTTGCGATTTT--AATATT
** *
63496 -GCAATGCGAATTTGTACTA-T
1 CGCGTTGCG-ATTT-TAATATT
* * *
63516 CGCATTGCGATTTTCAAGAAT
1 CGCGTTGCGATTTT-AATATT
63537 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
63551 GGAAACTGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.01
20 34 0.44
21 33 0.42
22 9 0.12
23 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (20 bp):
CGCGTTGCGATTTTAATATT
Found at i:63546 original size:42 final size:43
Alignment explanation
Indices: 63453--63551 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 43
63443 ATTTATGTGT
* *
63453 TCGCGTTGCG-ATTT-TAATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
* ** *
63494 TTGCAATGCGAATTTGTACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAA-AA
*
63536 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
63552 GAAACTGATT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
41 9 0.20
42 32 0.71
43 4 0.09
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTAATATTCGCATTGCGATTTTGCAAAA
Found at i:64578 original size:29 final size:29
Alignment explanation
Indices: 64536--64599 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
64526 GTGACCAAAG
64536 ATGCACGCCCAACGACCAAAGAGGTCGCC
1 ATGCACGCCCAACGACCAAAGAGGTCGCC
*
64565 ATGCACGCCCAACGACCAAGGAGGTCGCC
1 ATGCACGCCCAACGACCAAAGAGGTCGCC
64594 ATGCAC
1 ATGCAC
64600 TCGGGGAGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.30, C:0.38, G:0.25, T:0.08
Consensus pattern (29 bp):
ATGCACGCCCAACGACCAAAGAGGTCGCC
Found at i:64656 original size:19 final size:20
Alignment explanation
Indices: 64640--64783 Score: 121
Period size: 26 Copynumber: 6.7 Consensus size: 20
64630 GTGTGCATGG
64640 GGGGGAGATCGGTGCATGCACGCA
1 GGGGGAGATCGGTGCAT----GCA
64664 TGGGGGGAGATCGGTGCATGCACGCA
1 -GG-GGGAGATCGGTGCAT----GCA
64690 TGGGGGGAGATCGGTGCATGCA
1 -GGG-GGAGATCGGTGCATGCA
* *
64712 TGGGGAGATC-GTGCATGCT
1 GGGGGAGATCGGTGCATGCA
*
64731 CGGGGAGATCGGTGCATGCA
1 GGGGGAGATCGGTGCATGCA
*
64751 TGGGGAGATC-GTGCATGCA
1 GGGGGAGATCGGTGCATGCA
*
64770 TGGGGAGATCGGTG
1 GGGGGAGATCGGTG
64784 ACCAAAGTGT
Statistics
Matches: 110, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
19 36 0.33
20 27 0.25
21 2 0.02
22 3 0.03
25 3 0.03
26 39 0.35
ACGTcount: A:0.19, C:0.17, G:0.47, T:0.18
Consensus pattern (20 bp):
GGGGGAGATCGGTGCATGCA
Found at i:64675 original size:26 final size:26
Alignment explanation
Indices: 64634--64711 Score: 147
Period size: 26 Copynumber: 3.0 Consensus size: 26
64624 TGCATGGTGT
64634 GCATGGGGGGGAGATCGGTGCATGCAC
1 GCAT-GGGGGGAGATCGGTGCATGCAC
64661 GCATGGGGGGAGATCGGTGCATGCAC
1 GCATGGGGGGAGATCGGTGCATGCAC
64687 GCATGGGGGGAGATCGGTGCATGCA
1 GCATGGGGGGAGATCGGTGCATGCA
64712 TGGGGAGATC
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 47 0.92
27 4 0.08
ACGTcount: A:0.19, C:0.18, G:0.47, T:0.15
Consensus pattern (26 bp):
GCATGGGGGGAGATCGGTGCATGCAC
Found at i:64718 original size:20 final size:20
Alignment explanation
Indices: 64693--64783 Score: 152
Period size: 19 Copynumber: 4.7 Consensus size: 20
64683 GCACGCATGG
64693 GGGGAGATCGGTGCATGCAT
1 GGGGAGATCGGTGCATGCAT
64713 GGGGAGATC-GTGCATGC-T
1 GGGGAGATCGGTGCATGCAT
64731 CGGGGAGATCGGTGCATGCAT
1 -GGGGAGATCGGTGCATGCAT
64752 GGGGAGATC-GTGCATGCAT
1 GGGGAGATCGGTGCATGCAT
64771 GGGGAGATCGGTG
1 GGGGAGATCGGTG
64784 ACCAAAGTGT
Statistics
Matches: 67, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.01
19 36 0.54
20 29 0.43
21 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.46, T:0.20
Consensus pattern (20 bp):
GGGGAGATCGGTGCATGCAT
Found at i:64739 original size:39 final size:39
Alignment explanation
Indices: 64693--64783 Score: 166
Period size: 39 Copynumber: 2.3 Consensus size: 39
64683 GCACGCATGG
64693 GGGGAGATCGGTGCATGCATGGGGAGATCGTGCATGC-T
1 GGGGAGATCGGTGCATGCATGGGGAGATCGTGCATGCAT
64731 CGGGGAGATCGGTGCATGCATGGGGAGATCGTGCATGCAT
1 -GGGGAGATCGGTGCATGCATGGGGAGATCGTGCATGCAT
64771 GGGGAGATCGGTG
1 GGGGAGATCGGTG
64784 ACCAAAGTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 50 0.98
40 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.46, T:0.20
Consensus pattern (39 bp):
GGGGAGATCGGTGCATGCATGGGGAGATCGTGCATGCAT
Found at i:64987 original size:65 final size:65
Alignment explanation
Indices: 64874--64999 Score: 216
Period size: 65 Copynumber: 1.9 Consensus size: 65
64864 TGCACCACGC
* * *
64874 CCAAACTTTAACCCTATCCCTCATGCATGCGTTGCATCCATAGTTGGGAGATTCCTGCATCGCGA
1 CCAAACTTTAACCCTATCACTCATGCATACGTTGCATCCATAGCTGGGAGATTCCTGCATCGCGA
*
64939 CCAAGCTTTAACCCTATCACTCATGCATACGTTGCATCCATAGCTGGGAGATTCCTGCATC
1 CCAAACTTTAACCCTATCACTCATGCATACGTTGCATCCATAGCTGGGAGATTCCTGCATC
65000 CGTAGCTGCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (65 bp):
CCAAACTTTAACCCTATCACTCATGCATACGTTGCATCCATAGCTGGGAGATTCCTGCATCGCGA
Found at i:65425 original size:21 final size:21
Alignment explanation
Indices: 65400--65443 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
65390 AATCTAGTTA
65400 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
65421 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
65442 AT
1 AT
65444 ATATTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:67292 original size:12 final size:12
Alignment explanation
Indices: 67275--67318 Score: 88
Period size: 12 Copynumber: 3.7 Consensus size: 12
67265 GCATCAAATG
67275 CCATGTTGATGT
1 CCATGTTGATGT
67287 CCATGTTGATGT
1 CCATGTTGATGT
67299 CCATGTTGATGT
1 CCATGTTGATGT
67311 CCATGTTG
1 CCATGTTG
67319 CAGAGTCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.41
Consensus pattern (12 bp):
CCATGTTGATGT
Found at i:69279 original size:13 final size:14
Alignment explanation
Indices: 69250--69282 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
69240 TATTAATATT
*
69250 TAATGATTTGATAA
1 TAATGATTAGATAA
69264 TAATGATTAG-TAA
1 TAATGATTAGATAA
69277 TAATGA
1 TAATGA
69283 AATTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (14 bp):
TAATGATTAGATAA
Found at i:69350 original size:17 final size:18
Alignment explanation
Indices: 69324--69358 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
69314 AATGATTAGT
69324 AATTATTAATAATAATGA
1 AATTATTAATAATAATGA
69342 AATTA-TAATAATAATGA
1 AATTATTAATAATAATGA
69359 TTTACTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AATTATTAATAATAATGA
Found at i:69575 original size:12 final size:12
Alignment explanation
Indices: 69554--69591 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
69544 AATAATCATT
69554 ATAATG-ATTTA
1 ATAATGAATTTA
69565 ATAATGAATTTA
1 ATAATGAATTTA
69577 ATAATGAATTTA
1 ATAATGAATTTA
69589 ATA
1 ATA
69592 TTTAATGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 6 0.23
12 20 0.77
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
ATAATGAATTTA
Found at i:69636 original size:26 final size:26
Alignment explanation
Indices: 69528--69848 Score: 228
Period size: 26 Copynumber: 12.8 Consensus size: 26
69518 TCAATTAACC
* *
69528 ATAAAAATGTTTTGATAATAATCA-T
1 ATAATAATGATTTGATAATAATCATT
* *
69553 -T-ATAATGATTTAATAATGA--ATT
1 ATAATAATGATTTGATAATAATCATT
* * *
69575 -TAATAATGAATTTAATATTTAATGATT
1 ATAATAATG-ATTTGATA-ATAATCATT
* *
69602 -TAGTAATGATATGATAATAATCATT
1 ATAATAATGATTTGATAATAATCATT
69627 ATAATAATGATTTGATAATAATCATT
1 ATAATAATGATTTGATAATAATCATT
*
69653 ATAATAATGATTT-AGTAATAATCATA
1 ATAATAATGATTTGA-TAATAATCATT
* *
69679 ATAATAATGATTTAATAATGAT--TT
1 ATAATAATGATTTGATAATAATCATT
* * * * * *
69703 A-AATATTTA-ATGAT-TTGATGATT
1 ATAATAATGATTTGATAATAATCATT
* *
69726 -TAGTAATGATTTTATAATAATCATT
1 ATAATAATGATTTGATAATAATCATT
*
69751 ATAATAATGATTTAATAATAATCATT
1 ATAATAATGATTTGATAATAATCATT
* *
69777 ATAATAATTA-TT-ATAATAATGATTT
1 ATAATAATGATTTGATAATAATCA-TT
* *
69802 AATAATAATGATTTGATAGTAATGATT
1 -ATAATAATGATTTGATAATAATCATT
* *
69829 -TAGTAATGATTAG-TAATAAT
1 ATAATAATGATTTGATAATAAT
69849 AAAATTATTA
Statistics
Matches: 239, Mismatches: 38, Indels: 39
0.76 0.12 0.12
Matches are distributed among these distances:
21 5 0.02
22 5 0.02
23 33 0.14
24 29 0.12
25 31 0.13
26 112 0.47
27 15 0.06
28 9 0.04
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (26 bp):
ATAATAATGATTTGATAATAATCATT
Found at i:69755 original size:98 final size:97
Alignment explanation
Indices: 69533--69818 Score: 316
Period size: 98 Copynumber: 2.9 Consensus size: 97
69523 TAACCATAAA
* *
69533 AATGTTTTGATAATAATCA-T-T-ATAATGATTTAATAATGAAT-TTAATAATGAAT--TTAATA
1 AATGATTTGATAATAATCATTATAATAATGATTTAATAAT-AATCATAATAAT-AATGATT-ATA
* * * * * *
69592 TTTAATGATTTAGTAATGATATGATAATAATCATTATAAT
63 -ATAATGATTTAATAAT-A-ATGAT-TTGATGATT-TAGT
*
69632 AATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATAATAATAATGATT-TAATA
1 AATGATTTGATAATAATCATTATAATAATGATTTAATAATAATCATAATAATAATGATTATAATA
*
69696 ATGATTTAAATATTTAATGATTTGATGATTTAGT
66 ATGATTT-AATA-ATAATGATTTGATGATTTAGT
* * *
69730 AATGATTTTATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATTATTATAATA
1 AATGATTTGATAATAATCATTATAATAATGATTTAATAATAATCATAATAATAATGATTATAATA
69795 ATGATTTAATAATAATGATTTGAT
66 ATGATTTAATAATAATGATTTGAT
69819 AGTAATGATT
Statistics
Matches: 163, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
97 12 0.07
98 62 0.38
99 36 0.22
100 15 0.09
101 13 0.08
102 23 0.14
103 2 0.01
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.44
Consensus pattern (97 bp):
AATGATTTGATAATAATCATTATAATAATGATTTAATAATAATCATAATAATAATGATTATAATA
ATGATTTAATAATAATGATTTGATGATTTAGT
Found at i:69769 original size:124 final size:123
Alignment explanation
Indices: 69542--69835 Score: 391
Period size: 124 Copynumber: 2.3 Consensus size: 123
69532 AAATGTTTTG
69542 ATAATAATCAT--T-ATAATGATTTAATAATGAATTTAATAATGAATTTAATATTTAATGATTTA
1 ATAATAATCATAATAATAATGATTTAATAATG-ATTT-ATAAT-AATTTAATATTTAATGATTTA
*
69604 GTAATGATATGATAATAATCATTATAATAATGATTTGATAATAATCATTATAATAATGATTT
63 GTAATGATATGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGA-TT
*
69666 AGTAATAATCATAATAATAATGATTTAATAATGATTTA-AAT-ATTTAATGATTTGATGATTTAG
1 A-TAATAATCATAATAATAATGATTTAATAATGATTTATAATAATTTAAT-ATTTAATGATTTAG
* * *
69729 TAATGATTTTATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATTATT
64 TAATGATATGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATT
*
69789 ATAATAATGATTTAATAATAATGATTTGATAGTAATGATTTAGTAAT
1 ATAATAATCA--TAATAATAATGATTT-A-A-TAATGATTTA-TAAT
69836 GATTAGTAAT
Statistics
Matches: 152, Mismatches: 6, Indels: 19
0.86 0.03 0.11
Matches are distributed among these distances:
122 8 0.05
123 10 0.07
124 83 0.55
125 14 0.09
126 2 0.01
127 15 0.10
128 17 0.11
129 3 0.02
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.44
Consensus pattern (123 bp):
ATAATAATCATAATAATAATGATTTAATAATGATTTATAATAATTTAATATTTAATGATTTAGTA
ATGATATGATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATT
Found at i:69875 original size:60 final size:60
Alignment explanation
Indices: 69807--70185 Score: 579
Period size: 60 Copynumber: 6.5 Consensus size: 60
69797 GATTTAATAA
*
69807 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* * * *
69867 TAATGATTTAATATTAATGATTTAGTAATAATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
69927 TAATGATTTGATAGTAATGA-TTAG---T-A--A-TAATAAT----TTATTATTAATATT
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
69975 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
70035 TAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
* *
70095 TAATGATTTGATAGTAATGA-TTAGTAATTATTAGTAATAAT-AATTTATTATTAATATT
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
*
70153 TAATGATTTGATATTAATGATTTAGTAATGATT
1 TAATGATTTGATAGTAATGATTTAGTAATGATT
70186 TGATAGTAAT
Statistics
Matches: 292, Mismatches: 14, Indels: 27
0.88 0.04 0.08
Matches are distributed among these distances:
48 33 0.11
49 4 0.01
52 8 0.03
53 2 0.01
55 2 0.01
56 8 0.03
58 35 0.12
59 35 0.12
60 165 0.57
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (60 bp):
TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATT
Found at i:69898 original size:14 final size:14
Alignment explanation
Indices: 69554--69898 Score: 169
Period size: 14 Copynumber: 25.4 Consensus size: 14
69544 AATAATCATT
69554 ATAATGATTTAATA
1 ATAATGATTTAATA
*
69568 ATGA--ATTTAATA
1 ATAATGATTTAATA
*
69580 ATGA--ATTTAATA
1 ATAATGATTTAATA
*
69592 TTTAATGA-TT--TA
1 -ATAATGATTTAATA
* * *
69604 GTAATGATATGATA
1 ATAATGATTTAATA
*
69618 ATAATCA-TT-ATA
1 ATAATGATTTAATA
*
69630 ATAATGATTTGATA
1 ATAATGATTTAATA
*
69644 ATAATCA-TT-ATA
1 ATAATGATTTAATA
*
69656 ATAATGATTTAGTA
1 ATAATGATTTAATA
*
69670 ATAATCA--TAATA
1 ATAATGATTTAATA
69682 ATAATGA-TT--TA
1 ATAATGATTTAATA
69693 ATAATGATTTAAATA
1 ATAATGATTT-AATA
*
69708 TTTAATGATTTGATGATTTA
1 -ATAATGATTT-A--A--TA
* *
69728 GTAATGATTTTATA
1 ATAATGATTTAATA
*
69742 ATAATCA-TT-ATA
1 ATAATGATTTAATA
69754 ATAATGATTTAATA
1 ATAATGATTTAATA
*
69768 ATAATCA-TT-ATA
1 ATAATGATTTAATA
*
69780 ATAATTA-TT-ATA
1 ATAATGATTTAATA
69792 ATAATGATTTAATA
1 ATAATGATTTAATA
*
69806 ATAATGATTTGATA
1 ATAATGATTTAATA
* *
69820 GTAATGATTTAGTA
1 ATAATGATTTAATA
* * *
69834 ATGATTA-GTAATA
1 ATAATGATTTAATA
*
69847 ATAAAATTATTATTAATA
1 AT--AATGA-T-TTAATA
*
69865 TTTAATGATTTAATA
1 -ATAATGATTTAATA
* *
69880 TTAATGATTTAGTA
1 ATAATGATTTAATA
69894 ATAAT
1 ATAAT
69899 TAGTAATAAT
Statistics
Matches: 261, Mismatches: 40, Indels: 60
0.72 0.11 0.17
Matches are distributed among these distances:
11 15 0.06
12 82 0.31
13 24 0.09
14 93 0.36
15 13 0.05
16 12 0.05
17 4 0.02
18 6 0.02
19 10 0.04
20 2 0.01
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (14 bp):
ATAATGATTTAATA
Found at i:69993 original size:108 final size:109
Alignment explanation
Indices: 69829--70181 Score: 487
Period size: 108 Copynumber: 3.2 Consensus size: 109
69819 AGTAATGATT
* *
69829 TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTAATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
69894 ATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
66 ATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
69938 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
* *
70002 ATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGA
66 ATAATTAGTAATAATGAAATTATTATTAAT-TTT--T-A-ATG--ATT--TGA
*
70055 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-TTAG
1 --TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAG
* * *
70119 TAATTATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
64 TAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
70164 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
70182 GATTTGATAG
Statistics
Matches: 220, Mismatches: 11, Indels: 27
0.85 0.04 0.10
Matches are distributed among these distances:
107 8 0.04
108 78 0.35
109 26 0.12
111 4 0.02
112 1 0.00
113 4 0.02
114 1 0.00
115 4 0.02
117 5 0.02
118 13 0.06
119 40 0.18
120 36 0.16
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (109 bp):
TAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATGATTTGATAGTAATGATTTAGTA
ATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:69995 original size:168 final size:167
Alignment explanation
Indices: 69807--70389 Score: 648
Period size: 168 Copynumber: 3.4 Consensus size: 167
69797 GATTTAATAA
*
69807 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATAAAATTATTATTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
69872 ATTTAATATTAATGATTTAGTAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTG
66 ATTTAATATTAATGATTTAGTAATAATTAGTAATAATGAAATTATTATTAA-TTTTAATGATTTG
69937 ATAGTAATGATTAGTAATAATAATTTATTATTAATATT
130 ATAGTAATGATTAGTAATAATAATTTATTATTAATATT
69975 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
* *
70040 ATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTG
66 ATTTAATATTAATGATTTAGTAATAATTAGTAATAATGAAATTATTATTAAT-TTTAATGATTTG
70105 ATAGTAATGATTAGTAATTATTAGTAATAATAATTTATTATTAATATT
130 ATAGT-A--A-T-G-----ATTAGTAATAATAATTTATTATTAATATT
* * * * ** *
70153 TAATGATTTGATATTAATGATTTAGTAATGATTTGATAGTAATG-ATTTACGACTTGAACAATGA
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAG-TAATAATGAAATTATTA-TT-AA-TAT--
** * ** ** ** ** * * *
70217 ACAATGTTTTGTTCAATTAACCATATTTTTGTTACATAACTAGTAATG-AA--ATTA-TAA---T
60 TTAATGATTTAAT--ATTAATGAT-TTAGTAATA-ATTAGTAATAATGAAATTATTATTAATTTT
* *
70275 AATGA-TT--TAGTAATGATTAATAATAATGAAATTATTATTAATATT
121 AATGATTTGATAGTAATGATTAGTAATAAT-AATTTATTATTAATATT
70320 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
1 TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
70385 ATTTA
66 ATTTA
70390 GTAATGATTT
Statistics
Matches: 355, Mismatches: 37, Indels: 52
0.80 0.08 0.12
Matches are distributed among these distances:
162 7 0.02
164 2 0.01
165 2 0.01
166 20 0.06
167 55 0.15
168 130 0.37
169 1 0.00
171 2 0.01
172 2 0.01
173 2 0.01
175 1 0.00
176 4 0.01
178 69 0.19
179 15 0.04
180 2 0.01
181 2 0.01
183 12 0.03
184 4 0.01
185 7 0.02
186 6 0.02
187 10 0.03
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (167 bp):
TAATGATTTGATAGTAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATG
ATTTAATATTAATGATTTAGTAATAATTAGTAATAATGAAATTATTATTAATTTTAATGATTTGA
TAGTAATGATTAGTAATAATAATTTATTATTAATATT
Found at i:70169 original size:14 final size:14
Alignment explanation
Indices: 70153--70200 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
70143 TATTAATATT
*
70153 TAATGATTTGATAT
1 TAATGATTTGATAG
70167 TAATGA-TT--TAG
1 TAATGATTTGATAG
70178 TAATGATTTGATAG
1 TAATGATTTGATAG
70192 TAATGATTT
1 TAATGATTT
70201 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:70182 original size:25 final size:25
Alignment explanation
Indices: 70153--70201 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
70143 TATTAATATT
*
70153 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
70178 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
70202 CGACTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:70302 original size:24 final size:24
Alignment explanation
Indices: 70257--70303 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
70247 GTTACATAAC
70257 TAGTAATGAAATTATAATAATGATT
1 TAGTAATG-AATTATAATAATGATT
70282 TAGTAATG-ATTAATAATAATGA
1 TAGTAATGAATT-ATAATAATGA
70304 AATTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 10 0.48
25 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (24 bp):
TAGTAATGAATTATAATAATGATT
Found at i:70338 original size:60 final size:57
Alignment explanation
Indices: 70274--70399 Score: 216
Period size: 60 Copynumber: 2.2 Consensus size: 57
70264 GAAATTATAA
70274 TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGATAG
1 TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGA-TT--TAG
*
70334 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAG
1 TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTAG
70391 TAATGATTT
1 TAATGATTT
70400 GTTAAGGTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
57 12 0.18
59 2 0.03
60 51 0.78
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (57 bp):
TAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTAG
Found at i:72545 original size:8 final size:8
Alignment explanation
Indices: 72533--72563 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
72523 ATAATATATT
*
72533 AAACTAAT
1 AAACTAAC
72541 AAACTAAC
1 AAACTAAC
72549 AAACTAAC
1 AAACTAAC
72557 AAACTAA
1 AAACTAA
72564 ACTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (8 bp):
AAACTAAC
Found at i:72638 original size:22 final size:22
Alignment explanation
Indices: 72613--72661 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
72603 ACAACTAATA
*
72613 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACGTT
72635 AACTATTCTTTAATATAACGTT
1 AACTATTCTTTAATATAACGTT
72657 AACTA
1 AACTA
72662 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
AACTATTCTTTAATATAACGTT
Found at i:72639 original size:30 final size:30
Alignment explanation
Indices: 72605--72730 Score: 103
Period size: 30 Copynumber: 4.4 Consensus size: 30
72595 TCCCTTAAAC
72605 AACTAATAAACTATTCTTTAATATAAC--T
1 AACTAATAAACTATTCTTTAATATAACTTT
*
72633 ---T--T-AACTATTCTTTAATATAACGTT
1 AACTAATAAACTATTCTTTAATATAACTTT
* *
72657 AACTAATAAACTATTTTTTAATATAACTTA
1 AACTAATAAACTATTCTTTAATATAACTTT
72687 AACTAATAAA-TAATT-TTTAATTATAA-TTT
1 AACTAATAAACT-ATTCTTTAA-TATAACTTT
*
72716 ATTACTAAAAAACTA
1 A--ACTAATAAACTA
72731 ATTAACTAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
22 19 0.24
23 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
29 10 0.12
30 37 0.46
31 9 0.11
32 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAACTTT
Found at i:72689 original size:22 final size:22
Alignment explanation
Indices: 72611--72691 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
72601 AAACAACTAA
*
72611 TAAACTATTCTTTAATATAACT
1 TAAACTATTTTTTAATATAACT
* *
72633 TTAACTATTCTTTAATATAACGTTAACT
1 TAAACTATT-TTTTA-AT-A---TAACT
72661 AATAAACTATTTTTTAATATAACT
1 --TAAACTATTTTTTAATATAACT
72685 TAAACTA
1 TAAACTA
72692 ATAAATAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
22 15 0.33
23 3 0.07
24 7 0.15
25 1 0.02
27 1 0.02
28 7 0.15
29 4 0.09
30 8 0.17
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.44
Consensus pattern (22 bp):
TAAACTATTTTTTAATATAACT
Found at i:72958 original size:18 final size:18
Alignment explanation
Indices: 72905--72959 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
72895 TTGTTTTACC
*
72905 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
72923 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
72935 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
72952 CTAATTTA
1 CTAATTTA
72960 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:77988 original size:35 final size:35
Alignment explanation
Indices: 77942--78015 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
77932 GTTGTGGTTC
77942 CCCATCAAAAACCACCCAAAACTACCCTACTACAT
1 CCCATCAAAAACCACCCAAAACTACCCTACTACAT
77977 CCCATCAAAAACCACCCAAAACTACCCTACTACAT
1 CCCATCAAAAACCACCCAAAACTACCCTACTACAT
78012 CCCA
1 CCCA
78016 CGTACATGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.42, C:0.45, G:0.00, T:0.14
Consensus pattern (35 bp):
CCCATCAAAAACCACCCAAAACTACCCTACTACAT
Found at i:84283 original size:30 final size:30
Alignment explanation
Indices: 84243--84303 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
84233 ACATGCAACA
84243 CAAACCATGGATGTCTACACTAAAAGAAAC
1 CAAACCATGGATGTCTACACTAAAAGAAAC
*
84273 CAAACTATGGATGTCTACACTAAAAGAAAC
1 CAAACCATGGATGTCTACACTAAAAGAAAC
84303 C
1 C
84304 TTCAATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (30 bp):
CAAACCATGGATGTCTACACTAAAAGAAAC
Found at i:88703 original size:27 final size:26
Alignment explanation
Indices: 88683--88744 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 26
88673 TTCTGATGAC
*
88683 CCAGAACTGGAAGCCAGTTCTTCACA
1 CCAGAACCGGAAGCCAGTTCTTCACA
88709 TCCAGAACCGGAAGCCAGTTCTTCACA
1 -CCAGAACCGGAAGCCAGTTCTTCACA
88736 TCCAGAACC
1 -CCAGAACC
88745 ATCAAAGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.18
Consensus pattern (26 bp):
CCAGAACCGGAAGCCAGTTCTTCACA
Found at i:89628 original size:12 final size:12
Alignment explanation
Indices: 89611--89637 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
89601 AAAATAGCAG
89611 GAACAGAAACCT
1 GAACAGAAACCT
89623 GAACAGAAACCT
1 GAACAGAAACCT
89635 GAA
1 GAA
89638 AAGTAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.22, G:0.19, T:0.07
Consensus pattern (12 bp):
GAACAGAAACCT
Found at i:99553 original size:17 final size:19
Alignment explanation
Indices: 99514--99556 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
99504 AGTAAAAAAT
99514 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
99534 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
99551 ATGATA
1 ATGATA
99557 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:101802 original size:21 final size:21
Alignment explanation
Indices: 101776--101840 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
101766 AAGACAATCA
*
101776 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
101797 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
101818 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
101839 AG
1 AG
101841 GCATAAGGGG
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:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:101921 original size:33 final size:33
Alignment explanation
Indices: 101874--101939 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
101864 AAATAGATGG
* *
101874 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGATGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
101907 AGTGATGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGATGAAAGAAGTAGAGGTGTTAAGGGGTGA
101940 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGATGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:103755 original size:19 final size:19
Alignment explanation
Indices: 103731--103779 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
103721 AATGTAGGGT
103731 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
103750 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
103769 TAATTTTGTAT
1 TAATTTTGTAT
103780 GTGAATATAA
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:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:104880 original size:201 final size:200
Alignment explanation
Indices: 104013--104953 Score: 1603
Period size: 200 Copynumber: 4.7 Consensus size: 200
104003 AATTTACAAT
* *
104013 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCAATATATAAAATGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
104078 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
104143 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTAGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
104208 AATGA
196 AATGA
104213 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* **
104278 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCAATTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
104343 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
104408 AATGA
196 AATGA
*
104413 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
104478 TGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCAGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
104543 ATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTATAGTTTGTGTTGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
104608 AATGA
196 AATGA
* * *
104613 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
104678 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTACACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * * *
104743 ATGAGAGAATATGTCTAAATAATGTGTTGACACTTTTTTTATTTTATGTCGATATTTTTGGTCCA
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACAC-TTTTGTAGTTTGTGTCGATATTTTTGGTCCA
104808 GAATGA
195 GAATGA
* *
104814 ATGGAAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
104879 CGAAACCCATAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
104944 ATGAGAGAAT
131 ATGAGAGAAT
104954 TGATATATAA
Statistics
Matches: 703, Mismatches: 37, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
200 533 0.76
201 170 0.24
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:106686 original size:183 final size:183
Alignment explanation
Indices: 106140--107454 Score: 2354
Period size: 183 Copynumber: 7.2 Consensus size: 183
106130 TAGATCAAGG
*
106140 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGCTACTTTATGTCCAGATTGGAAGAA
1 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
106205 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTA-AATGTA
66 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
106269 ATAGATAATTTTATAATATAACCGGTAT-AATATACCGGTTTTATGAGCGAAT
131 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
*
106321 AGGTCTACAACCTATATCGAAACTTTTTAATATTGTGTCGGTACTTTATGTCCAGA-TGGAAG-A
1 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
* *
106384 AAATGTATCGATACCTTGTCAAAAAGTGTCGACATTT--ACATCGGAACCCAGAATTATAATATA
66 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
106447 ATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGCGAAT
131 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
*
106500 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGATTGGAAGAA
1 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
*
106565 AAATGTATCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
66 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
* *
106630 ATAGATAATTTTGTAATATAACCAGTATAAATATACCTGTTTTATGAGCGAAT
131 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
*
106683 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATATCCAGATTGGAAGAA
1 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
*
106748 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCAGAACCCAGAATTATAATGTA
66 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
106813 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
131 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
* * *
106866 AGATCTACAACCTATATCGATACTTTTTAATATTGTGTCGGCACTTTATGTCCAGATTGGAAGAA
1 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
*
106931 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACATATCGGAACCCAGAATTATAATGTA
66 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
106996 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGGGCGAAT
131 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
107049 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
1 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
* *
107114 AAATATGTCGATACTTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
66 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
107179 ATAGATAATTTTGTAATATAACCTGTATAAATATACCGGTTTTATGAGCGAAT
131 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
107232 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
1 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
* * * *
107297 AAATATGTCAATACATTGTCAAAAAGTGTCAACATTTACACATCGGAACCCAGAATTATAATGTA
66 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
107362 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
131 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
**
107415 ATATCTACAACCTATATCGACACTTTTTAATATTGTGTCG
1 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCG
107455 CTAATTTTAA
Statistics
Matches: 1089, Mismatches: 39, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
177 19 0.02
178 31 0.03
179 115 0.11
180 12 0.01
181 92 0.08
183 820 0.75
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (183 bp):
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAA
AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
Found at i:109943 original size:25 final size:25
Alignment explanation
Indices: 109915--109979 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
109905 TTATCATTAA
109915 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
109940 ATTTAGGTACGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
109965 ATTTAGGTATGTACA
1 ATTTAGGTATGTACA
109980 TCTTTTGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:110357 original size:23 final size:23
Alignment explanation
Indices: 110326--110398 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
110316 ATAGGTAAAA
*
110326 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
110349 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
**
110372 ATATAATGTAATAGGTAATGCTT
1 ATATAATGTAATAGGTAGCGCTT
110395 ATAT
1 ATAT
110399 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:110846 original size:23 final size:23
Alignment explanation
Indices: 110815--110887 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
110805 ATAGGTAAAA
* *
110815 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
110838 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
110861 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
110884 ATAT
1 ATAT
110888 TGTAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:111043 original size:491 final size:489
Alignment explanation
Indices: 109979--111780 Score: 3112
Period size: 486 Copynumber: 3.7 Consensus size: 489
109969 AGGTATGTAC
109979 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
110044 GTTACGTTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
* *
110109 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
110174 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
* * *
110239 AAAATTAAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGTAC
260 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGAC
110304 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
325 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
* * *
110369 TTTATATAATGTAATAGGTAATGCTTATATTGTAAAGTATCTATCATTTTTTATAAAAGTGTCCA
390 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAATATCTATC-CTTTTTATAAAAGTGTCCA
110434 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
454 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
* *
110470 ATCTTTTAAGCGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
110535 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
110600 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
110665 ATTTTTCGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
110730 AAATTGAAACATAAATTACATAACTTT-AAAAAAGTATTGATCCTTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACA
*
110794 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGT
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
110859 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATA
391 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATA
* *
110924 ATTTTTTCACTATGGAAAACATTAATTTAAGGTT
456 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
* *
110958 ATATTCTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
111023 GTTACGATATATATTATTATTAAATTAAAAACAATAAAC--ATATATTACATA-TTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
111085 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTGTTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
111150 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
111215 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACA
* *
111280 CTTTCAAAATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGT
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
* * *
111345 TTATATAATGTAATAGGTAGTGTTTTTATTGTAAAATATCTATCCTTTTTATAAAAGTGTTCATA
391 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATA
* *
111410 CTTATTTCACTGTGGAAAATATTAATTTAAGGTT
456 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
* * ** *
111444 ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTA-TTTTTAT
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
** *
111508 GTTATAATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
*
111573 TTTGGTTAATATTGTTAAATTTAAATTTAAATTTTAAATATTATTTTATAAAATATCAAAACAAT
131 TTTGGTTAATATTG------TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
*
111638 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTA
190 CAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA
* *
111703 TT-AAAAAATTGAAACATAAATTATATAACTTTAAAAAAAGTATCGATCTTTTTTATAACAAAAT
255 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAA-AAAGT
*
111767 ATAGACACTTTCAA
319 ATGGACACTTTCAA
111781 CATATTATAA
Statistics
Matches: 1249, Mismatches: 51, Indels: 19
0.95 0.04 0.01
Matches are distributed among these distances:
485 208 0.17
486 252 0.20
487 12 0.01
488 177 0.14
489 140 0.11
490 30 0.02
491 249 0.20
493 55 0.04
494 126 0.10
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (489 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
TTATATAATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATA
CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:111373 original size:25 final size:23
Alignment explanation
Indices: 111301--111369 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
111291 ATAGGTAAAA
* **
111301 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGTTT
111324 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
111347 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
111370 TTATTGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:116684 original size:19 final size:19
Alignment explanation
Indices: 116642--116686 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
116632 GTGTTTTCAT
*
116642 ATTTTAAAAGCTTTAAACC
1 ATTTTAAAAGCTTTAAAAC
*
116661 TTTTTAAATA-CTTTAAAAC
1 ATTTTAAA-AGCTTTAAAAC
116680 ATTTTAA
1 ATTTTAA
116687 TCAACTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTTTAAAAGCTTTAAAAC
Found at i:118775 original size:39 final size:38
Alignment explanation
Indices: 118698--118777 Score: 99
Period size: 40 Copynumber: 2.1 Consensus size: 38
118688 TGTGCGTTTA
* * *
118698 TTTAATAAATGAACGAACATGAACAAGATTTTTTGTTCG
1 TTTAATAAATGAACGAACATGAACAAGA-GTCTCGTTCG
118737 TTTAATTAAATGAACGAACATGAACATAG-GTCTCGTTCG
1 TTTAA-TAAATGAACGAACATGAACA-AGAGTCTCGTTCG
118776 TT
1 TT
118778 CATTTACGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 14 0.39
40 20 0.56
41 2 0.06
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (38 bp):
TTTAATAAATGAACGAACATGAACAAGAGTCTCGTTCG
Found at i:118811 original size:24 final size:24
Alignment explanation
Indices: 118784--118856 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
118774 CGTTCATTTA
118784 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * *
118808 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
118832 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
118856 C
1 C
118857 ATTTATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 42 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.15, G:0.25, T:0.49
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:118813 original size:14 final size:14
Alignment explanation
Indices: 118794--118849 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
118784 CGTTCGTGAA
118794 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
118808 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
118822 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
118832 CGTTCGATTATGTT
1 CGTTCGGTTATGTT
118846 CGTT
1 CGTT
118850 TATGTTCATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 27 0.71
ACGTcount: A:0.09, C:0.14, G:0.25, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:118869 original size:24 final size:24
Alignment explanation
Indices: 118795--118859 Score: 94
Period size: 24 Copynumber: 2.7 Consensus size: 24
118785 GTTCGTGAAC
* * *
118795 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCATTCGATTAT
*
118819 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCATTCGATTAT
118843 GTTCGTTTATGTTCATT
1 GTTCGTTTATGTTCATT
118860 TATTTATGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.11, C:0.12, G:0.23, T:0.54
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCGATTAT
Found at i:119605 original size:10 final size:10
Alignment explanation
Indices: 119590--119664 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
119580 GGGTCTCCAA
119590 CGTTTATGTT
1 CGTTTATGTT
119600 CGTTTATGTT
1 CGTTTATGTT
119610 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
119621 ATGTTCGTGTT
1 -CGTTTATGTT
119632 CGTTTATGTT
1 CGTTTATGTT
119642 CG----TGTT
1 CGTTTATGTT
119648 CGTTTATGTT
1 CGTTTATGTT
119658 CGTTTAT
1 CGTTTAT
119665 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:119621 original size:16 final size:16
Alignment explanation
Indices: 119596--119660 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
119586 CCAACGTTTA
119596 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
119612 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
119628 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
119644 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
119660 T
1 T
119661 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:119754 original size:16 final size:16
Alignment explanation
Indices: 119730--119762 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
119720 AAAAAAATTT
119730 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
119746 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
119762 T
1 T
119763 CTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:127520 original size:45 final size:45
Alignment explanation
Indices: 127443--127713 Score: 335
Period size: 45 Copynumber: 6.0 Consensus size: 45
127433 TCTTGAGCAG
* * * * * *
127443 CTCTATAACTGGGATCAATAGAAGCAGCTCTAGAGGTTGGATCCC
1 CTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCCA
* * * **
127488 CTCTATAATTGGGTTCGATGGATGCAGGTCTAGAGGTTGGATCTG
1 CTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCCA
* ** * * * *
127533 CTCTATAACTGGGTTCAATGGTCGCAGGCCTAGAGATTGGATTCG
1 CTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCCA
* *
127578 CTCTATAATTGGGTTCGATGGAAGCAGGTCGAGAGCTTGGATCCA
1 CTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCCA
*
127623 CTCTATAATTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCCA
1 CTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCCA
* *
127668 CTCTATAACTGGGTTCGATGGAAGTAGGTCGAGAGCTTGGATCCA
1 CTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCCA
127713 C
1 C
127714 AGAACTCGGC
Statistics
Matches: 197, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 197 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (45 bp):
CTCTATAACTGGGTTCGATGGAAGCAGGTCTAGAGCTTGGATCCA
Found at i:143350 original size:143 final size:143
Alignment explanation
Indices: 143013--143441 Score: 736
Period size: 143 Copynumber: 3.0 Consensus size: 143
143003 TAGGTGCATT
* * *
143013 TCGACATACTTTGTGTGTGATGGTTATCGATCAATTTTGTTTAAGGCATATGTTACATTTTCGTA
1 TCGACATACTTTGTGTATGATGGTTATCGATCAATTTTGTTTAATGCATATGTTTCATTTTCGTA
143078 TCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAG-TTGTGAATT
66 TCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATT
* *
143142 ATCATTTCAACAC
131 ACCATTTCGACAC
143155 TCGACATACTTTGTGTATGATGGTTATCGATCAATTTTGTTTAATGCATATGTTTCATTTTCGTA
1 TCGACATACTTTGTGTATGATGGTTATCGATCAATTTTGTTTAATGCATATGTTTCATTTTCGTA
* * *
143220 TCAGTACTATATGTAATTTCGACACTATGTGTGCATCCATGGAATTCATAACGAGTTTGTGAATT
66 TCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATT
143285 ACCATTTCGACAC
131 ACCATTTCGACAC
*
143298 TCGACATACTTTGTGTATGATGGTTATCGATCGATTTTGTTTAATGCATATGTTGT-ATTTTCGT
1 TCGACATACTTTGTGTATGATGGTTATCGATCAATTTTGTTTAATGCATATGTT-TCATTTTCGT
143362 ATCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAAT
65 ATCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAAT
* *
143427 TTCCATTTCGGCAC
130 TACCATTTCGACAC
143441 T
1 T
143442 TATGTGCAAC
Statistics
Matches: 271, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
142 114 0.42
143 156 0.58
144 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (143 bp):
TCGACATACTTTGTGTATGATGGTTATCGATCAATTTTGTTTAATGCATATGTTTCATTTTCGTA
TCAGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATT
ACCATTTCGACAC
Done.