Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000360.1 Hibiscus syriacus cultivar Beakdansim tig00000656_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: 195488
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:942 original size:16 final size:15
Alignment explanation
Indices: 921--954 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
911 TATTTTCCAT
921 AGTTTATGTATTTTTA
1 AGTTTATGTA-TTTTA
*
937 AGTTTATTTATTTTA
1 AGTTTATGTATTTTA
952 AGT
1 AGT
955 ATAGGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (15 bp):
AGTTTATGTATTTTA
Found at i:5117 original size:21 final size:21
Alignment explanation
Indices: 5093--5133 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
5083 TGAACATAAA
5093 AGACATAAAAGATACGAAAAC
1 AGACATAAAAGATACGAAAAC
5114 AGACATAAAAGATACGAAAA
1 AGACATAAAAGATACGAAAA
5134 GACGAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.63, C:0.12, G:0.15, T:0.10
Consensus pattern (21 bp):
AGACATAAAAGATACGAAAAC
Found at i:9075 original size:35 final size:33
Alignment explanation
Indices: 9036--9109 Score: 96
Period size: 32 Copynumber: 2.2 Consensus size: 33
9026 AGAACAGAAT
* *
9036 GAAGCATTGCACTTTCGATTCAAGTAGATCGGGAG
1 GAAGCATT--ACTTTCGATTCAAGTACAACGGGAG
9071 GAAGCA-TACTTTCGATTCAAGTACAACGGGAG
1 GAAGCATTACTTTCGATTCAAGTACAACGGGAG
*
9103 AAAGCAT
1 GAAGCAT
9110 CACACTTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 28 0.80
34 1 0.03
35 6 0.17
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (33 bp):
GAAGCATTACTTTCGATTCAAGTACAACGGGAG
Found at i:9087 original size:32 final size:32
Alignment explanation
Indices: 9046--9109 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
9036 GAAGCATTGC
* * *
9046 ACTTTCGATTCAAGTAGATCGGGAGGAAGCAT
1 ACTTTCGATTCAAGTACAACGGGAGAAAGCAT
9078 ACTTTCGATTCAAGTACAACGGGAGAAAGCAT
1 ACTTTCGATTCAAGTACAACGGGAGAAAGCAT
9110 CACACTTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (32 bp):
ACTTTCGATTCAAGTACAACGGGAGAAAGCAT
Found at i:9207 original size:42 final size:42
Alignment explanation
Indices: 9089--9190 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
9079 CTTTCGATTC
* * * * * *
9089 AAGTACAACGGGAGAAAGCATCACACTTTTGATTTTCATCTA
1 AAGTAGAACGGAAGGAAGCATAACACTTTCGATTCTCATCTA
* *
9131 AAGTAGAACGGAAGGAGGCATAACACTTTCGATTCTCTTCTA
1 AAGTAGAACGGAAGGAAGCATAACACTTTCGATTCTCATCTA
9173 AAGTAGAACGGAAGGAAG
1 AAGTAGAACGGAAGGAAG
9191 TATCGTACTT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (42 bp):
AAGTAGAACGGAAGGAAGCATAACACTTTCGATTCTCATCTA
Found at i:14105 original size:8 final size:8
Alignment explanation
Indices: 14092--14132 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
14082 TTCATTTTCA
14092 GAGAATTT
1 GAGAATTT
14100 GAGAATTT
1 GAGAATTT
*
14108 -AGAGTTT
1 GAGAATTT
*
14115 GGGAATTT
1 GAGAATTT
14123 GAGAATTT
1 GAGAATTT
14131 GA
1 GA
14133 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:14441 original size:128 final size:128
Alignment explanation
Indices: 14213--14563 Score: 621
Period size: 128 Copynumber: 2.7 Consensus size: 128
14203 ACTATTCACA
* * * *
14213 TGAAGGCGCGTTCTCAGGGGCACGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGTCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
14278 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
14341 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
14406 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*** *
14469 TGAAGGTTTGTTCCTGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
14534 TTATGTCACTCATGTCCCTCGGGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
14564 GATGGATTGT
Statistics
Matches: 213, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 213 1.00
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.34
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:15005 original size:34 final size:34
Alignment explanation
Indices: 14967--15067 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
14957 AAATTTAATG
*
14967 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
15001 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
15035 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
15068 AACATTTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:15631 original size:40 final size:40
Alignment explanation
Indices: 15587--15691 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
15577 TGGTATAAAA
*
15587 CCCTACGGGCTAGGCATATAACCTGGCAGG-CTAGGAATGT
1 CCCTACGGGCTAGGAATATAACCTGGC-GGTCTAGGAATGT
* *
15627 CCCTACGGGCTCGGAATGTAACCTGGCGGTCTAGGAATGT
1 CCCTACGGGCTAGGAATATAACCTGGCGGTCTAGGAATGT
* * *
15667 AACCCTGCGGGCTCGGAATGTAACC
1 --CCCTACGGGCTAGGAATATAACC
15692 CTGCGGAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.03
40 34 0.59
42 22 0.38
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (40 bp):
CCCTACGGGCTAGGAATATAACCTGGCGGTCTAGGAATGT
Found at i:15665 original size:21 final size:20
Alignment explanation
Indices: 15592--15697 Score: 97
Period size: 21 Copynumber: 5.2 Consensus size: 20
15582 TAAAACCCTA
* *
15592 CGGGCTAGGCATATAACCTGG
1 CGGGCTAGGAATGTAACCT-G
* * *
15613 CAGGCTAGGAATGT-CCCTA
1 CGGGCTAGGAATGTAACCTG
*
15632 CGGGCTCGGAATGTAACCTGG
1 CGGGCTAGGAATGTAACCT-G
*
15653 CGGTCTAGGAATGTAACCCTG
1 CGGGCTAGGAATGTAA-CCTG
*
15674 CGGGCTCGGAATGTAACCCTG
1 CGGGCTAGGAATGTAA-CCTG
15695 CGG
1 CGG
15698 AAATGGCATA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
19 12 0.17
20 6 0.09
21 48 0.70
22 3 0.04
ACGTcount: A:0.22, C:0.25, G:0.33, T:0.20
Consensus pattern (20 bp):
CGGGCTAGGAATGTAACCTG
Found at i:17295 original size:17 final size:17
Alignment explanation
Indices: 17258--17311 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
17248 ATATTATAAA
* *
17258 AAATT-AAAATTAATAT
1 AAATTAAAAATAAATTT
* * *
17274 AAATTCATAATAACTTT
1 AAATTAAAAATAAATTT
17291 AAATTAAAAATAAATTT
1 AAATTAAAAATAAATTT
17308 AAAT
1 AAAT
17312 ACTAACATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTAAAAATAAATTT
Found at i:17508 original size:18 final size:17
Alignment explanation
Indices: 17454--17508 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 17
17444 TTAATAATTC
*
17454 TAAATAAATAATAATTATA
1 TAAA-AAAT-ATATTTATA
*
17473 TAAATAATAT-TTTA-A
1 TAAAAAATATATTTATA
17488 TAAAAAATGATATTTATA
1 TAAAAAAT-ATATTTATA
17506 TAA
1 TAA
17509 TTATATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
15 8 0.27
16 5 0.17
17 6 0.20
18 7 0.23
19 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TAAAAAATATATTTATA
Found at i:32219 original size:6 final size:6
Alignment explanation
Indices: 32208--32232 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32198 ACTCCACGAC
32208 CTTTCT CTTTCT CTTTCT CTTTCT C
1 CTTTCT CTTTCT CTTTCT CTTTCT C
32233 CTCCACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (6 bp):
CTTTCT
Found at i:35418 original size:26 final size:25
Alignment explanation
Indices: 35379--35439 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
35369 GAGACCCGAC
* *
35379 CCGACTCGACCAAAATAAGGTTTTA
1 CCGACCCGACCAAAACAAGGTTTTA
*
35404 TCCGACCCGATCAAAACAAGGTTTTA
1 -CCGACCCGACCAAAACAAGGTTTTA
35430 CCGACCCGAC
1 CCGACCCGAC
35440 TCGACCCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 9 0.29
26 22 0.71
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
CCGACCCGACCAAAACAAGGTTTTA
Found at i:35645 original size:22 final size:23
Alignment explanation
Indices: 35604--35646 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35594 TTATATATAT
*
35604 TTTCGGGTCGGGTTCGGATTTAG
1 TTTCGGGTAGGGTTCGGATTTAG
35627 TTTCGGGTAGGG-TCGGATTT
1 TTTCGGGTAGGGTTCGGATTT
35647 TTTCACCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.09, C:0.12, G:0.40, T:0.40
Consensus pattern (23 bp):
TTTCGGGTAGGGTTCGGATTTAG
Found at i:39987 original size:27 final size:27
Alignment explanation
Indices: 39930--40003 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
39920 CCGTGCTTAT
* **
39930 TCAAGCATTGCCACGGCATGATCAATG
1 TCAAGCATTGCCACGGCATGAGCAACA
* * *
39957 TCAAGTATTGCCACGGCATGGGCACCA
1 TCAAGCATTGCCACGGCATGAGCAACA
* *
39984 TCAAACATTGCCACGACATG
1 TCAAGCATTGCCACGGCATG
40004 TCACTAGCCA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (27 bp):
TCAAGCATTGCCACGGCATGAGCAACA
Found at i:40840 original size:16 final size:16
Alignment explanation
Indices: 40819--40852 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
40809 TTACTATTCA
*
40819 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
40835 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
40851 CG
1 CG
40853 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:53729 original size:17 final size:17
Alignment explanation
Indices: 53708--53763 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
53698 GAAAGTCAAC
53708 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
53725 TGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
53742 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
53759 GGTCA
1 GGTCA
53764 GACCGGTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.12, C:0.23, G:0.45, T:0.20
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:53783 original size:19 final size:19
Alignment explanation
Indices: 53761--53857 Score: 108
Period size: 19 Copynumber: 5.1 Consensus size: 19
53751 TCGGGTCGGG
*
53761 TCAGACCGGTCAACCCGGT
1 TCAGACCGGTCAAACCGGT
*
53780 TCAGACCGGTTAAACCGGT
1 TCAGACCGGTCAAACCGGT
53799 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
53818 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
* *
53837 TCAAACCGATCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
53857 T
1 T
53858 AAACCGGTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.05
19 54 0.82
20 9 0.14
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:53803 original size:38 final size:39
Alignment explanation
Indices: 53761--53866 Score: 130
Period size: 38 Copynumber: 2.8 Consensus size: 39
53751 TCGGGTCGGG
*
53761 TCAGACCGGTCAACCCGGTTC-AGACCGGTT-AAACCGGT
1 TCAGACCGGTCAAACCGGTTCGA-ACCGGTTGAAACCGGT
53799 TCAGACCGGTCAAACCGGTTCGAACCGGTTGAAACCGG-
1 TCAGACCGGTCAAACCGGTTCGAACCGGTTGAAACCGGT
* * *
53837 TCAAACCGATCAGAACCGGTT-AAACCGGTT
1 TCAGACCGGTCA-AACCGGTTCGAACCGGTT
53867 TCCAGCAGCC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 45 0.74
39 16 0.26
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.18
Consensus pattern (39 bp):
TCAGACCGGTCAAACCGGTTCGAACCGGTTGAAACCGGT
Found at i:53852 original size:29 final size:28
Alignment explanation
Indices: 53792--53865 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
53782 AGACCGGTTA
* *
53792 AACCGGTTCAGACCGGTCAAACCGGTTCG
1 AACCGGTT-AAACCGGTCAAACCGGATCG
53821 AACCGGTTGAAACCGGTCAAACC-GATCAG
1 AACCGGTT-AAACCGGTCAAACCGGATC-G
53850 AACCGGTTAAACCGGT
1 AACCGGTTAAACCGGT
53866 TTCCAGCAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 11 0.27
29 30 0.73
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (28 bp):
AACCGGTTAAACCGGTCAAACCGGATCG
Found at i:61069 original size:5 final size:5
Alignment explanation
Indices: 61059--61116 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
61049 AACGGTCAAC
* *
61059 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
61108 GGTCG GGTC
1 GGTCG GGTC
61117 AGACCAGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:61080 original size:22 final size:22
Alignment explanation
Indices: 61052--61116 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
61042 AACGGTCAAC
61052 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
61074 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
61096 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
61117 AGACCAGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:61139 original size:19 final size:19
Alignment explanation
Indices: 61115--61231 Score: 96
Period size: 19 Copynumber: 6.1 Consensus size: 19
61105 TCGGGTCGGG
* *
61115 TCAGACCAGTCAACCCGGT
1 TCAGACCGGTCAAACCGGT
*
61134 TCAGACCGGTTAAACCGGT
1 TCAGACCGGTCAAACCGGT
61153 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
* *
61172 TC-GAACTGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
61191 TCA-ATCCGGTCAGAACCGGT
1 TCAGA-CCGGTCA-AACCGGT
* * *
61211 TGAAAACCGGTTAAACCGGT
1 T-CAGACCGGTCAAACCGGT
61231 T
1 T
61232 TCCAGCAGCC
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
18 4 0.05
19 51 0.64
20 17 0.21
21 7 0.09
22 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:61144 original size:10 final size:10
Alignment explanation
Indices: 61124--61231 Score: 91
Period size: 9 Copynumber: 11.1 Consensus size: 10
61114 GTCAGACCAG
*
61124 TCAACCCGGT
1 TCAAACCGGT
*
61134 TCAGACCGGT
1 TCAAACCGGT
61144 T-AAACCGGT
1 TCAAACCGGT
*
61153 TCAGACCGG-
1 TCAAACCGGT
61162 TCAAACCGGT
1 TCAAACCGGT
* *
61172 TCGAACTGGT
1 TCAAACCGGT
*
61182 TGAAACCGG-
1 TCAAACCGGT
*
61191 TCAATCCGG-
1 TCAAACCGGT
61200 TCAGAACCGGT
1 TCA-AACCGGT
*
61211 TGAAAACCGGT
1 T-CAAACCGGT
61222 T-AAACCGGT
1 TCAAACCGGT
61231 T
1 T
61232 TCCAGCAGCC
Statistics
Matches: 79, Mismatches: 14, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
9 35 0.44
10 34 0.43
11 9 0.11
12 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.20
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:61182 original size:29 final size:30
Alignment explanation
Indices: 61146--61231 Score: 68
Period size: 29 Copynumber: 2.9 Consensus size: 30
61136 AGACCGGTTA
* * * **
61146 AACCGGTTCAGACCGGTCAAACC-GGTTCG
1 AACCGGTTAAAACCGGTCAAACCGGTTCAG
* * *
61175 AACTGGTTGAAACCGGTCAATCCGG-TCAG
1 AACCGGTTAAAACCGGTCAAACCGGTTCAG
*
61204 AACCGGTTGAAAACCGGTTAAACCGGTT
1 AACCGGTT-AAAACCGGTCAAACCGGTT
61232 TCCAGCAGCC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
29 28 0.64
30 15 0.34
31 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.20
Consensus pattern (30 bp):
AACCGGTTAAAACCGGTCAAACCGGTTCAG
Found at i:63253 original size:24 final size:24
Alignment explanation
Indices: 63202--63253 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
63192 TAAGATTTTA
* * *
63202 AAATCTTTATAAATTATGATGATC
1 AAATCTTTAAAAATTAAGAAGATC
63226 AAATCTTTAAAAATTAAAGAAGAT-
1 AAATCTTTAAAAATT-AAGAAGATC
63250 AAAT
1 AAAT
63254 TAATTTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (24 bp):
AAATCTTTAAAAATTAAGAAGATC
Found at i:66934 original size:27 final size:27
Alignment explanation
Indices: 66880--66934 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
66870 GTGAGTTTTA
*
66880 AAAAAAATTAAATTAATAAAATATTAC
1 AAAAAAATTAAATTAATAAAATAATAC
* *
66907 AAAATAATTAAA-TAATTAAATGAATAC
1 AAAAAAATTAAATTAATAAAAT-AATAC
66934 A
1 A
66935 TCGATGACGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAAAATTAAATTAATAAAATAATAC
Found at i:69890 original size:14 final size:15
Alignment explanation
Indices: 69856--69893 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
69846 ACATTTACGT
* *
69856 TTTAATTATTATAAT
1 TTTATTTATTATAAG
69871 TTTATTTATT-TAAG
1 TTTATTTATTATAAG
69885 TTTATTTAT
1 TTTATTTAT
69894 ACGCACATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTATTTATTATAAG
Found at i:70104 original size:43 final size:43
Alignment explanation
Indices: 70019--70144 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
70009 TTTTTTAGAT
* *
70019 TATATATA-TATTGTT--TTTTTATTATCAGTTTATTAAT-TA
1 TATATATATTATTTTTACTTTTTATTATTAGTTTATTAATATA
70058 TATATAT-TTACTATTTTA-TTTTTATTATTTA-TTTATTAATATA
1 TATATATATTA-T-TTTTACTTTTTATTA-TTAGTTTATTAATATA
* *
70101 TATATATATTATTTTTACTTTTTATTATTATTTTATTTATATA
1 TATATATATTATTTTTACTTTTTATTATTAGTTTATTAATATA
70144 T
1 T
70145 TTTTTCTTCT
Statistics
Matches: 75, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
39 9 0.12
40 1 0.01
41 3 0.04
42 26 0.35
43 33 0.44
44 3 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (43 bp):
TATATATATTATTTTTACTTTTTATTATTAGTTTATTAATATA
Found at i:70178 original size:9 final size:9
Alignment explanation
Indices: 70119--70178 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
70109 TTATTTTTAC
70119 TTTTTATTAT
1 TTTTTATT-T
70129 TATTTTA-TT
1 T-TTTTATTT
* *
70138 TATATATTT
1 TTTTTATTT
*
70147 TTTCTTCTTT
1 TTT-TTATTT
70157 TTCTTTATTT
1 TT-TTTATTT
70167 TTTTTATTT
1 TTTTTATTT
70176 TTT
1 TTT
70179 ACATTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 3 0.08
9 16 0.40
10 15 0.38
11 6 0.15
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTT
Found at i:70178 original size:21 final size:22
Alignment explanation
Indices: 70144--70188 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
70134 TATTTATATA
* * *
70144 TTTTTTCTTCTTTTTCTTTATT
1 TTTTTTATTCTTTTACATTATT
70166 TTTTTTATT-TTTTACATTATT
1 TTTTTTATTCTTTTACATTATT
70187 TT
1 TT
70189 ACTTACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTTATTCTTTTACATTATT
Found at i:70223 original size:19 final size:18
Alignment explanation
Indices: 70182--70225 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
70172 ATTTTTTACA
*
70182 TTAT-TTTACTTACTATT
1 TTATCTTTACTTACTATC
*
70199 TTATCTTTACTTTCTTATC
1 TTATCTTTACTTAC-TATC
70218 TTATCTTT
1 TTATCTTT
70226 TATTTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATCTTTACTTACTATC
Found at i:74363 original size:32 final size:32
Alignment explanation
Indices: 74248--74354 Score: 151
Period size: 32 Copynumber: 3.3 Consensus size: 32
74238 GGAACAATAA
* *
74248 GGGCATCTTTGAAGATTCAACATCAAATATTG
1 GGGCATTTTTGTAGATTCAACATCAAATATTG
* * *
74280 GGGCATTTTTTTAGATTTAACATCAAATGTTG
1 GGGCATTTTTGTAGATTCAACATCAAATATTG
*
74312 GGGCATTTTTTTAGATTCAACATCAAATATTG
1 GGGCATTTTTGTAGATTCAACATCAAATATTG
*
74344 GGGCATCTTTG
1 GGGCATTTTTG
74355 GGAATTCAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (32 bp):
GGGCATTTTTGTAGATTCAACATCAAATATTG
Found at i:75055 original size:59 final size:60
Alignment explanation
Indices: 74983--75103 Score: 235
Period size: 59 Copynumber: 2.0 Consensus size: 60
74973 GAAGGGACAG
74983 ATGGTTGTCAACAAACAATTTCCTAATTTCGGAGCCAATTTCAA-TTCACAGCGAAGGAT
1 ATGGTTGTCAACAAACAATTTCCTAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGAT
75042 ATGGTTGTCAACAAACAATTTCCTAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGAT
1 ATGGTTGTCAACAAACAATTTCCTAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGAT
75102 AT
1 AT
75104 TGGACTCGAG
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
59 44 0.72
60 17 0.28
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (60 bp):
ATGGTTGTCAACAAACAATTTCCTAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGAT
Found at i:75577 original size:87 final size:87
Alignment explanation
Indices: 75474--75632 Score: 266
Period size: 87 Copynumber: 1.8 Consensus size: 87
75464 GACAGTTTCT
*
75474 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGA-TTGAGATAGTTTC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTC-ACTTGAGATAGTTTC
75538 CCTTGAAACGAAATTTTGTCTCC
65 CCTTGAAACGAAATTTTGTCTCC
* * *
75561 CTTGAAACATAAACATTGAAAATATTTCCCTTGAAATAAATTTTATCTCACTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCACTTGAGATAGTTTCC
75626 CTTGAAA
66 CTTGAAA
75633 TTTTTTTGTC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 1 0.01
87 66 0.99
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (87 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCACTTGAGATAGTTTCC
CTTGAAACGAAATTTTGTCTCC
Found at i:75676 original size:100 final size:102
Alignment explanation
Indices: 75561--75798 Score: 345
Period size: 100 Copynumber: 2.4 Consensus size: 102
75551 TTTTGTCTCC
* * *
75561 CTTGAAACATAAACATTGAAAATATTTCCCTTGAAATAAATTTTATCTCACTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCACTTGAGATAGTTTCC
***
75626 CTTG-AA-ATTTTTTTGTCTCCCTTGAGACAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* * * *
75661 CTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCACTTGAGATAGTTTCC
*
75726 CTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCT
66 CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
* *
75763 CTTGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAA
75799 CACAAAATAT
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
100 62 0.51
101 2 0.02
102 58 0.48
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (102 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCACTTGAGATAGTTTCC
CTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCT
Found at i:75746 original size:37 final size:37
Alignment explanation
Indices: 75699--75771 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
75689 CTTTGAAATT
*
75699 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
*
75736 AATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACA
75772 TAAACCTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAA
Found at i:75890 original size:37 final size:37
Alignment explanation
Indices: 75835--75937 Score: 163
Period size: 36 Copynumber: 2.8 Consensus size: 37
75825 TAAACGAGTT
75835 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
* * * *
75872 TTGAGACGGTTTCGCTTGAAAC-AAATTTTGTCTCTT
1 TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
75908 TTGAGACAGTTTCCCTTGAAACAAAATCTT
1 TTGAGACAGTTTCCCTTGAAACAAAATCTT
75938 TGAATATCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 32 0.55
37 26 0.45
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (37 bp):
TTGAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTC
Found at i:75960 original size:102 final size:102
Alignment explanation
Indices: 75849--76034 Score: 259
Period size: 102 Copynumber: 1.8 Consensus size: 102
75839 GACAGTTTCC
* * * *
75849 CTTGAAACAAAATCTT-GTCTCTCTTGAGACGGTTTCGCTTGAAAC-AAATTTTGTCTCTTTTGA
1 CTTGAAAC-AAAT-TTCGTCTCCCTTGAGACAGTTTCGCTTAAAACTAAATTTTGTCTCTCTTGA
75912 GACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTTT
64 GACAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTTT
** *
75951 CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACTAAGTTTTGTCTCTCTTGAGA
1 CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCGCTTAAAACTAAATTTTGTCTCTCTTGAGA
**
76016 CAGTTTCTTTTGAAACAAA
66 CAGTTTCCCTTGAAACAAA
76035 TTTTGTCCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
100 2 0.03
101 28 0.38
102 43 0.59
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (102 bp):
CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCGCTTAAAACTAAATTTTGTCTCTCTTGAGA
CAGTTTCCCTTGAAACAAAATCTTTGAATATCTTTTT
Found at i:76047 original size:36 final size:36
Alignment explanation
Indices: 75952--76068 Score: 164
Period size: 36 Copynumber: 3.2 Consensus size: 36
75942 TATCTTTTTC
*
75952 TTGAAACAAATTTCGTCTCC-CTTGAGACAGTTTCTT
1 TTGAAACAAATTTTGTC-CCTCTTGAGACAGTTTCTT
* * *
75988 TTAAAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TTGAAAC-AAATTTTGTCCCTCTTGAGACAGTTTCTT
*
76025 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTC
1 TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
76061 TTGAAACA
1 TTGAAACA
76069 CAAAAAAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
36 41 0.58
37 30 0.42
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTGAAACAAATTTTGTCCCTCTTGAGACAGTTTCTT
Found at i:76096 original size:35 final size:37
Alignment explanation
Indices: 76054--76141 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
76044 TCTTGAGACA
*
76054 GTTTCTCTTGAAACACA-A-AAAAAATCC-TCGAAATT
1 GTTTCTCTTGAAACACACACAAAAAA-CCTTCGAAAAT
* *
76089 GTTTCTCTTGAAACACACACACAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACACACAAAAAACCTTCGAAAAT
*
76126 GTTTCTCTTTAAACAC
1 GTTTCTCTTGAAACAC
76142 CAAACCCTCG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
35 17 0.37
36 3 0.07
37 26 0.57
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.31
Consensus pattern (37 bp):
GTTTCTCTTGAAACACACACAAAAAACCTTCGAAAAT
Found at i:76430 original size:61 final size:64
Alignment explanation
Indices: 76331--76456 Score: 222
Period size: 62 Copynumber: 2.0 Consensus size: 64
76321 ATTCCATTCA
76331 GCTCGATGGCACCTCAATCACACTATTGTCCTACTGCAATCAAGG-TTTTCAAGCCGAGAAGAAG
1 GCTCGATGGCACCTCAAT-ACACTATTGTCCTACTGCAATCAAGGTTTTTCAAGCCGAGAAGAAG
76395 GCTCGATGGCACCTCAAT-CAC-ATTGTCCTACTGCAATCAAGGTTTTTCAAGCCGAGAAGAAG
1 GCTCGATGGCACCTCAATACACTATTGTCCTACTGCAATCAAGGTTTTTCAAGCCGAGAAGAAG
76457 TCTGGGTTAG
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
61 21 0.34
62 22 0.36
64 18 0.30
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (64 bp):
GCTCGATGGCACCTCAATACACTATTGTCCTACTGCAATCAAGGTTTTTCAAGCCGAGAAGAAG
Found at i:77284 original size:22 final size:20
Alignment explanation
Indices: 77259--77313 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
77249 CTTTTTTGTC
77259 ATGTAATATTTTTTTACATTTT
1 ATGTAATATTTTTTTAC--TTT
*
77281 ATGT-ATTTTCTTTTTACTTT
1 ATGTAATATT-TTTTTACTTT
77301 A-GTATATATTTTT
1 ATGTA-ATATTTTT
77314 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
19 2 0.07
20 7 0.25
21 8 0.29
22 11 0.39
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (20 bp):
ATGTAATATTTTTTTACTTT
Found at i:77408 original size:13 final size:12
Alignment explanation
Indices: 77350--77408 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
77340 TATATATATA
*
77350 TATTATATTATT
1 TATTATTTTATT
*
77362 T-TTACTTTTTTT
1 TATTA-TTTTATT
77374 TATTATTTTATT
1 TATTATTTTATT
*
77386 TATTTGTTTTATT
1 TA-TTATTTTATT
77399 TATATATTTT
1 TAT-TATTTT
77409 TTCTTTTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 3 0.08
12 16 0.42
13 19 0.50
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (12 bp):
TATTATTTTATT
Found at i:77423 original size:17 final size:17
Alignment explanation
Indices: 77368--77444 Score: 70
Period size: 17 Copynumber: 4.4 Consensus size: 17
77358 TATTTTTACT
77368 TTTTTTTATTATTTTATTTA
1 TTTTTTTATT-TTTTA--TA
*
77388 TTTGTTTTA-TTTATATA
1 TTT-TTTTATTTTTTATA
77405 TTTTTTCT-TTTTCTT-TA
1 TTTTTT-TATTTT-TTATA
77422 TTTTTTTATTTTTTATA
1 TTTTTTTATTTTTTATA
77439 TTTTTT
1 TTTTTT
77445 ACTTACTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
16 6 0.12
17 29 0.59
18 1 0.02
19 4 0.08
20 4 0.08
21 5 0.10
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.81
Consensus pattern (17 bp):
TTTTTTTATTTTTTATA
Found at i:77439 original size:34 final size:34
Alignment explanation
Indices: 77379--77444 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
77369 TTTTTTATTA
77379 TTTTATTTATTTGTTTTATTTATATATTTTTTCT
1 TTTTATTTATTTGTTTTATTTATATATTTTTTCT
* *
77413 TTTTCTTTATTT-TTTTATTTTTTATATTTTTT
1 TTTTATTTATTTGTTTTA-TTTATATATTTTTT
77445 ACTTACTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 24 0.83
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (34 bp):
TTTTATTTATTTGTTTTATTTATATATTTTTTCT
Found at i:77445 original size:9 final size:8
Alignment explanation
Indices: 77370--77444 Score: 71
Period size: 9 Copynumber: 8.8 Consensus size: 8
77360 TTTTTACTTT
77370 TTTTTATTA
1 TTTTT-TTA
77379 TTTTATTTA
1 TTTT-TTTA
77388 TTTGTTTTA
1 TTT-TTTTA
* *
77397 TTTATATA
1 TTTTTTTA
77405 TTTTTTCT-
1 TTTTTT-TA
77413 TTTTCTTTA
1 TTTT-TTTA
77422 TTTTTTTA
1 TTTTTTTA
77430 TTTTTTATA
1 TTTTTT-TA
77439 TTTTTT
1 TTTTTT
77445 ACTTACTATT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
8 22 0.39
9 32 0.57
10 2 0.04
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.80
Consensus pattern (8 bp):
TTTTTTTA
Found at i:87272 original size:32 final size:32
Alignment explanation
Indices: 87236--87296 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
87226 AATGAACTTC
87236 TTCTCTCTGAAATC-TCTC-ATATTCTCTTCTAT
1 TTCTCTC-GAAATCTTCTCTAT-TTCTCTTCTAT
*
87268 TTCTCTCGAATTCTTCTCTATTTCTCTTC
1 TTCTCTCGAAATCTTCTCTATTTCTCTTC
87297 AATCTATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 5 0.19
32 19 0.73
33 2 0.08
ACGTcount: A:0.15, C:0.30, G:0.03, T:0.52
Consensus pattern (32 bp):
TTCTCTCGAAATCTTCTCTATTTCTCTTCTAT
Found at i:94241 original size:14 final size:15
Alignment explanation
Indices: 94207--94248 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
94197 TGATAAAAAA
* *
94207 TATTTAAAATATTAT
1 TATTTAATATTTTAT
94222 TATTT-ATATTTTAT
1 TATTTAATATTTTAT
*
94236 TTTTTAATATTTT
1 TATTTAATATTTT
94249 TTAATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTAATATTTTAT
Found at i:94260 original size:9 final size:10
Alignment explanation
Indices: 94233--94259 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
94223 ATTTATATTT
94233 TATTTTTTAA
1 TATTTTTTAA
94243 TATTTTTTAA
1 TATTTTTTAA
94253 TATTTTT
1 TATTTTT
94260 AGTAAAGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:95633 original size:2 final size:2
Alignment explanation
Indices: 95591--95617 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95581 ACACACTCAC
95591 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 A
95618 CACACACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:98253 original size:6 final size:6
Alignment explanation
Indices: 98244--98277 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
98234 CTTCTTGGTT
* *
98244 TTCCCG TTCCCG TTCCCG TTCTCG TTCTCG TTCC
1 TTCCCG TTCCCG TTCCCG TTCCCG TTCCCG TTCC
98278 AGGCACCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.44, G:0.15, T:0.41
Consensus pattern (6 bp):
TTCCCG
Found at i:99680 original size:21 final size:21
Alignment explanation
Indices: 99642--99681 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99632 ACGTTAAAAG
**
99642 ATTAACATATTAGGTAACGAA
1 ATTAACATATTAAATAACGAA
*
99663 ATTAACATTTTAAATAACG
1 ATTAACATATTAAATAACG
99682 CTCTACCGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (21 bp):
ATTAACATATTAAATAACGAA
Found at i:102599 original size:16 final size:16
Alignment explanation
Indices: 102580--102671 Score: 66
Period size: 19 Copynumber: 5.6 Consensus size: 16
102570 TTTTATAAAA
*
102580 TATATATTTTAATTAC
1 TATATATTTTAATTAT
*
102596 TATAT-TTAT-A-TAT
1 TATATATTTTAATTAT
102609 TATTATATTTTAATTAT
1 TA-TATATTTTAATTAT
*
102626 T-TATTATATTTAATAAT
1 TATA-TAT-TTTAATTAT
102643 TAATATTATTATTAATTAT
1 T-ATA-TATT-TTAATTAT
102662 TATTATATTT
1 TA-TATATTT
102672 ATTTATTAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
13 4 0.07
14 4 0.07
15 8 0.13
16 9 0.15
17 14 0.23
18 6 0.10
19 16 0.26
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATATTTTAATTAT
Found at i:102634 original size:48 final size:47
Alignment explanation
Indices: 102582--102679 Score: 112
Period size: 48 Copynumber: 2.0 Consensus size: 47
102572 TTATAAAATA
*
102582 TATATTT-TAATTACTATATTTATATATT-ATTA-TATTTTAATTATTTAT
1 TATATTTATAATTA--ATA-TTAT-TATTAATTATTATTATAATTATTTAT
*
102630 TATATTTAATAATTAATATTATTATTAATTATTATTATATTTATTTAT
1 TATATTT-ATAATTAATATTATTATTAATTATTATTATAATTATTTAT
102678 TA
1 TA
102680 GTTTAATTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
46 4 0.09
47 8 0.18
48 26 0.59
50 6 0.14
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (47 bp):
TATATTTATAATTAATATTATTATTAATTATTATTATAATTATTTAT
Found at i:102662 original size:32 final size:32
Alignment explanation
Indices: 102578--102664 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
102568 TTTTTTATAA
*
102578 AATATATATT-TTAATTACTATATTTATATATT
1 AATAT-TATTATTAATTATTATATTTATATATT
*
102610 ATTATATT-TTAATTATTTATTATATTTA-ATAATT
1 A--ATATTATT-ATTAATTATTATATTTATAT-ATT
102644 AATATTATTATTAATTATTAT
1 AATATTATTATTAATTATTAT
102665 TATATTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
32 19 0.41
33 5 0.11
34 22 0.48
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
AATATTATTATTAATTATTATATTTATATATT
Found at i:102677 original size:16 final size:16
Alignment explanation
Indices: 102591--102679 Score: 72
Period size: 16 Copynumber: 5.2 Consensus size: 16
102581 ATATATTTTA
* *
102591 ATTACTATATTTATAT
1 ATTATTATATTTATTT
*
102607 ATTATTATATTTTAATT
1 ATTATTATA-TTTATTT
102624 ATTTATTATATTTAATAATT
1 A-TTATTATATTT-AT--TT
* *
102644 AATATTAT-TATTAATT
1 ATTATTATAT-TTATTT
102660 ATTATTATATTTATTT
1 ATTATTATATTTATTT
102676 ATTA
1 ATTA
102680 GTTTAATTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
16 26 0.45
17 10 0.17
18 11 0.19
19 8 0.14
20 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTATATTTATTT
Found at i:111373 original size:111 final size:111
Alignment explanation
Indices: 111234--111566 Score: 612
Period size: 111 Copynumber: 3.0 Consensus size: 111
111224 ATTACAAAAA
*
111234 TTAATTATTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTATTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
111299 AATTAAAACGTTAAAATGTTACCGTATCATCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
111345 TTAATTATTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTATTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
111410 AATTAAAACGTTAAAATTTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
111456 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
111521 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
111567 ATGATTTCCA
Statistics
Matches: 215, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 215 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTATTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:111888 original size:50 final size:51
Alignment explanation
Indices: 111834--111958 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 51
111824 CAGATACCCA
* *
111834 TGTATAGCGCGGATCAGGGGGCGCACTATACCCACGTGGCGCCAGATC-AC
1 TGTATAACGCGGATCAGGGGGCGCACTATACCCACGTGGCGCCAAATCAAC
* ** * * *
111884 TGTATATCGCGGGGCAGGAGGTGCGCTATACCCACGTGGCGCCAAATCAAC
1 TGTATAACGCGGATCAGGGGGCGCACTATACCCACGTGGCGCCAAATCAAC
111935 -GTATAACGC-GATTCAGGGGCGCGC
1 TGTATAACGCGGA-TCAGGGG-GCGC
111959 TTTATTGTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
49 1 0.02
50 54 0.90
51 5 0.08
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (51 bp):
TGTATAACGCGGATCAGGGGGCGCACTATACCCACGTGGCGCCAAATCAAC
Found at i:113887 original size:31 final size:31
Alignment explanation
Indices: 113815--113887 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
113805 TCAAAGAACA
* *
113815 TAAGATATTATCACTTTCTTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTTAAT
*
113846 TAAAATATGATCACTTTCGTTTTTATTTAAT
1 TAAGATATGATCACTTTCGTTTTTATTTAAT
*
113877 TAAGACATGAT
1 TAAGATATGAT
113888 AGTTAGATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.51
Consensus pattern (31 bp):
TAAGATATGATCACTTTCGTTTTTATTTAAT
Found at i:113986 original size:31 final size:31
Alignment explanation
Indices: 113948--114007 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
113938 TTAATCATAC
** * *
113948 TTTTAAATGAATTTTAACATAAAATATTTAT
1 TTTTAAATGAAAATAAAAATAAAATATTTAT
113979 TTTTAAATGAAAATAAAAATAAAATATTT
1 TTTTAAATGAAAATAAAAATAAAATATTT
114008 TTAAATTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (31 bp):
TTTTAAATGAAAATAAAAATAAAATATTTAT
Found at i:114032 original size:27 final size:25
Alignment explanation
Indices: 113961--114083 Score: 88
Period size: 27 Copynumber: 4.8 Consensus size: 25
113951 TAAATGAATT
* * * *
113961 TTAACATAAAATATTTATTTTTAAA
1 TTAATATAAAAAATATATTTTTAAG
* * * *
113986 TGAAAATAAAAATAAAATATTTTTAAA
1 TTAATAT-AAAA-AATATATTTTTAAG
* *
114013 TTAAGTTTAATAAAATATATTTAATAAG
1 TTAA-TATAA-AAAATATATTT-TTAAG
114041 TTAATATAAAAAATAT-TTTTTAAG
1 TTAATATAAAAAATATATTTTTAAG
114065 TTAATATATAAAAA-ATATT
1 TTAATATA-AAAAATATATT
114084 ATGAATTTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 14
0.74 0.12 0.13
Matches are distributed among these distances:
24 14 0.18
25 15 0.19
26 11 0.14
27 28 0.36
28 10 0.13
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (25 bp):
TTAATATAAAAAATATATTTTTAAG
Found at i:114073 original size:26 final size:26
Alignment explanation
Indices: 113999--114083 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 26
113989 AAATAAAAAT
* *
113999 AAAATA-TTTTTAAATTAAGTTTAATAA
1 AAAATATTTTTTAAGTTAA-TAT-ATAA
* **
114026 AATATATTTAATAAGTT-A-ATATAA
1 AAAATATTTTTTAAGTTAATATATAA
114050 AAAATATTTTTTAAGTTAATATATAA
1 AAAATATTTTTTAAGTTAATATATAA
114076 AAAATATT
1 AAAATATT
114084 ATGAATTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
24 18 0.38
25 2 0.04
26 14 0.30
27 6 0.13
28 7 0.15
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
AAAATATTTTTTAAGTTAATATATAA
Found at i:115811 original size:2 final size:2
Alignment explanation
Indices: 115804--115858 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
115794 TAGTAGATCC
115804 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
115846 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
115859 GACCCAGTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117209 original size:22 final size:22
Alignment explanation
Indices: 117163--117218 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
117153 CTTAGAGTGT
* *
117163 TTTTATTTGTTTTTTTTTATGAA
1 TTTTATTT-TTGTTTTTTATAAA
*
117186 TTTTATTTTTGTTTTTTGTAAA
1 TTTTATTTTTGTTTTTTATAAA
117208 TTTTACTTTTT
1 TTTTA-TTTTT
117219 TATGTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (22 bp):
TTTTATTTTTGTTTTTTATAAA
Found at i:117578 original size:16 final size:16
Alignment explanation
Indices: 117550--117583 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
117540 AAATTTCTTT
117550 TTTATGTATCTATTTG
1 TTTATGTATCTATTTG
117566 TTTATCGTA-CTATTTG
1 TTTAT-GTATCTATTTG
117582 TT
1 TT
117584 GCGTTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.18, C:0.09, G:0.12, T:0.62
Consensus pattern (16 bp):
TTTATGTATCTATTTG
Found at i:118719 original size:20 final size:20
Alignment explanation
Indices: 118694--118740 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
118684 TTAAAAAATT
*
118694 AATATTTTATTAATTTATCG
1 AATATTTTATTAATTTATAG
* *
118714 AATA-TTAATTTATTTATAG
1 AATATTTTATTAATTTATAG
118733 AAT-TTTTA
1 AATATTTTA
118741 ATGTATACCA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
AATATTTTATTAATTTATAG
Found at i:120882 original size:84 final size:83
Alignment explanation
Indices: 120783--120938 Score: 260
Period size: 84 Copynumber: 1.9 Consensus size: 83
120773 AAAAAGGCTT
120783 TTGTGTTCTTGTAGTTTCTGATGGATGTTTCTTCTGTGATCAGAATTATAATGTCGAGAAATTCT
1 TTGTGTTCTTGTAGTTTCTGATGGATGTTTCTTCTGTGATCAGAATTATAATGTCGAG-AATTCT
120848 ATCTTAAACCAAGGAAGGC
65 ATCTTAAACCAAGGAAGGC
* * *
120867 TTGTGTTCTCT-TAGTTTCTGGTGGATGTTTCTTCTGTGATCGGAATTATAATGTTGAGAATTCT
1 TTGTGTTCT-TGTAGTTTCTGATGGATGTTTCTTCTGTGATCAGAATTATAATGTCGAGAATTCT
120931 ATCTTAAA
65 ATCTTAAA
120939 AAATTGATCA
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
83 14 0.21
84 53 0.78
85 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (83 bp):
TTGTGTTCTTGTAGTTTCTGATGGATGTTTCTTCTGTGATCAGAATTATAATGTCGAGAATTCTA
TCTTAAACCAAGGAAGGC
Found at i:122617 original size:22 final size:22
Alignment explanation
Indices: 122592--122635 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
122582 TTCTTTTAAC
122592 CCAATTAGTATTAGATTAATTG
1 CCAATTAGTATTAGATTAATTG
122614 CCAATTAGTATTAGATTAATTG
1 CCAATTAGTATTAGATTAATTG
122636 ATCAATTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
CCAATTAGTATTAGATTAATTG
Found at i:124262 original size:25 final size:24
Alignment explanation
Indices: 124232--124285 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
124222 GAGAGAAAAT
124232 AGAAAGGTAAAT-CAGAAGAAGAAGA
1 AGAAAGGTAAATACA-AAGAAGAA-A
* *
124257 AGAAAGGTGAATACAAAGGAGAAA
1 AGAAAGGTAAATACAAAGAAGAAA
124281 AGAAA
1 AGAAA
124286 AAAGAGAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 6 0.23
25 18 0.69
26 2 0.08
ACGTcount: A:0.61, C:0.04, G:0.28, T:0.07
Consensus pattern (24 bp):
AGAAAGGTAAATACAAAGAAGAAA
Found at i:129860 original size:19 final size:20
Alignment explanation
Indices: 129838--129877 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
129828 AGACAACTGC
129838 ATACA-ATATAGCTAATGAT
1 ATACATATATAGCTAATGAT
*
129857 ATACATTATATAGCTGATGAT
1 ATACA-TATATAGCTAATGAT
129878 GGGCTATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
21 13 0.72
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (20 bp):
ATACATATATAGCTAATGAT
Found at i:134395 original size:31 final size:31
Alignment explanation
Indices: 134360--134440 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
134350 TAATTATGCA
* * * *
134360 TTTAATATTTAAATTATCAATTTTGATCAGT
1 TTTAATACTTAAACTATCAATTTTAATCAAT
*
134391 TTTAATACTTAAACTATTAATTTTAATCAAT
1 TTTAATACTTAAACTATCAATTTTAATCAAT
134422 TTTAATACTTAAACTATCA
1 TTTAATACTTAAACTATCA
134441 TAATTAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (31 bp):
TTTAATACTTAAACTATCAATTTTAATCAAT
Found at i:137923 original size:51 final size:48
Alignment explanation
Indices: 137788--137969 Score: 199
Period size: 51 Copynumber: 3.7 Consensus size: 48
137778 ACATCGGTCG
* *
137788 GTGTAAGTATGTGTTAAGTGCTACAC-TTTTTTTTATTCACATACACC
1 GTGTAAGTATGTGTTAAGTGCTACACTTTTTTTTTATTCACTTACACA
* ** *
137835 GATGTAA-TATGTGTTAGGTTTTACACTTTTGTCTTTTATTCAGTTACACTA
1 G-TGTAAGTATGTGTTAAGTGCTACACTTTT-T-TTTTATTCACTTACAC-A
* *
137886 GTGTAAGTATGTGTTAAGTGCTACACTTGTTTATTTTATTCATTTACACCG
1 GTGTAAGTATGTGTTAAGTGCTACACTT-TTT-TTTTATTCACTTACA-CA
*
137937 GTGTAAGTATGTGTTAAGTGTTACA-TTTTTTTT
1 GTGTAAGTATGTGTTAAGTGCTACACTTTTTTTT
137970 GTAGTATGAA
Statistics
Matches: 114, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
47 17 0.15
48 11 0.10
49 4 0.04
50 21 0.18
51 58 0.51
52 3 0.03
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.47
Consensus pattern (48 bp):
GTGTAAGTATGTGTTAAGTGCTACACTTTTTTTTTATTCACTTACACA
Found at i:145964 original size:13 final size:13
Alignment explanation
Indices: 145946--145984 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
145936 AATAATATGT
145946 ATAATATAATTAA
1 ATAATATAATTAA
*
145959 ATAATATAAAGTAA
1 ATAATAT-AATTAA
*
145973 ATAATTTAATTA
1 ATAATATAATTA
145985 TATTTATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATAATATAATTAA
Found at i:159288 original size:19 final size:19
Alignment explanation
Indices: 159264--159303 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
159254 AGAAATCCCA
159264 ATACATAAGTAAGGGTCCT
1 ATACATAAGTAAGGGTCCT
159283 ATACATAAGTAAGGGTCCT
1 ATACATAAGTAAGGGTCCT
159302 AT
1 AT
159304 GAATACGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (19 bp):
ATACATAAGTAAGGGTCCT
Found at i:169101 original size:228 final size:229
Alignment explanation
Indices: 168735--169843 Score: 1401
Period size: 228 Copynumber: 4.9 Consensus size: 229
168725 TAGGTGGAGA
* * * * * * * * *
168735 GTGGATTCC-TTCTGGATGTTGTAGTCCG-CAAGAGTCCTGCCATCCTCCAGCTGCTTCCCTGCA
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAG-GTGCGGCCATCCTCGAGTTGTTTACCGGCA
* * * * * *
168798 AAGATCAGCCTCTGCTGGTCCGGAGGGATACCTTCCTTATCCTGGATCTTAGCCTTGACATTATC
65 AAGATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTATC
* * *
168863 AATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTCAGTGTCTTCACAAAAATCT
130 AATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTT
168928 GCATACCACCACGGAGACGAAGCACCAAGTGAAGG
195 GCATACCACCACGGAGACGAAGCACCAAGTGAAGG
*
168963 GTCGACT-CTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
* * *
169027 ATATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATTTTAGCCTTGACATTGTCA
66 AGATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTATCA
* *
169092 ATAGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAGATTTG
131 ATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTTG
*
169157 CATACCACCACGGAGACGGAGCACCAAGTGAAGG
196 CATACCACCACGGAGACGAAGCACCAAGTGAAGG
*
169191 GTGGATTCCTTT-TGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
* * * *
169255 ATATCAATCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATTTTAGCCTTGACATTGTCA
66 AGATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTATCA
* *
169320 ATAGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAGATTTG
131 ATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTTG
* *
169385 CATACCACCGCGGAGACGGAGCACCAAGTGAAGG
196 CATACCACCACGGAGACGAAGCACCAAGTGAAGG
*
169419 GTGGATTCCTTT-TGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
* * * * *
169483 AGATCAATCTCTGCTGGTCTGGGGGGAT-CCCTTCCTTGTCTTGAATCTTGGCCTTAACGTTATC
66 AGATCAACCTCTGCTGGTCTGGGGGGATACCC-TCCTTATCTTGAATCTTAGCCTTGACATTATC
* * * * * * * *
169547 AATGGTGTCGGAGCTTTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGGGTCTTAACAAAGATTT
130 AATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTT
* ** * * *
169612 GCATACCACCCCTCAAACGAAGGACCAAGTGGAGG
195 GCATACCACCACGGAGACGAAGCACCAAGTGAAGG
* * * * * * * *
169647 GTGGACTCC-TTCTGAATGTTGTAGTCTG-CAAGGGTACGGCCATCCTCCAGCTGTTTTCCAGCG
1 GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAA-GGTGCGGCCATCCTCGAGTTGTTTACCGGCA
* * * * * * * * *
169710 AAGAT-AAGCCTCTGTTGGTCTGGTGGGATTCCTTCCTTGTCCTGGATCTTGGCCTTGACGTTAT
65 AAGATCAA-CCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTAT
* * * * * * *
169774 CAATGGTGTCGGAGCTTTCCACCT-CAAGGGTGATGGTCTTGCCAGTAAGGGTCTTGACGAAGAT
129 CAATGGTGTCCGAGCTCTCAACCTCCAA-GGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGAT
169838 TTGCAT
193 TTGCAT
169844 CTATTTTCAA
Statistics
Matches: 800, Mismatches: 72, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
227 12 0.01
228 778 0.97
229 10 0.01
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.28
Consensus pattern (229 bp):
GTGGACTCCTTTCTGGATGTTGTAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAA
AGATCAACCTCTGCTGGTCTGGGGGGATACCCTCCTTATCTTGAATCTTAGCCTTGACATTATCA
ATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTAAGTGTCTTCACAAAGATTTG
CATACCACCACGGAGACGAAGCACCAAGTGAAGG
Found at i:170926 original size:17 final size:17
Alignment explanation
Indices: 170901--170941 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
170891 AGTCGTGACG
*
170901 TCACTAACGTGGTTACC
1 TCACCAACGTGGTTACC
170918 TCACCAACGTGGTTACC
1 TCACCAACGTGGTTACC
170935 TCACCAA
1 TCACCAA
170942 AATAACTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (17 bp):
TCACCAACGTGGTTACC
Found at i:173552 original size:64 final size:63
Alignment explanation
Indices: 173424--173560 Score: 159
Period size: 64 Copynumber: 2.2 Consensus size: 63
173414 TTCAGTGTGT
* * * *
173424 ATCGATGCACCTATTAAAATGGAAACATCGAATGCAATTGGTGCATCGATGCATAAGGAGTGC
1 ATCGATGCACCCATTAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCATAAGGACTGC
* ** * **
173487 ATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTGATTTGTGCATCGATGCA-CGGGTACTGC
1 ATCGATGCA-CCCATTAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCATAAGG-ACTGC
173551 ATCGATGCAC
1 ATCGATGCAC
173561 ATGCTAAAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 12 0.19
64 50 0.81
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (63 bp):
ATCGATGCACCCATTAAAATGAAAACATCGAAGGCAATTGGTGCATCGATGCATAAGGACTGC
Found at i:173594 original size:20 final size:20
Alignment explanation
Indices: 173529--173605 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 20
173519 AGGTGATTTG
* * *
173529 TGCATCGATGCACGGGT-AC
1 TGCATCGATGCACTGTTGAA
*
173548 TGCATCGATGCACATGCTAAAGAA
1 TGCATCGATGCAC-TG-T--TGAA
173572 TGCATCGATGCACTGTTGAA
1 TGCATCGATGCACTGTTGAA
173592 TGCATCGATGCACT
1 TGCATCGATGCACT
173606 TCAAGAGAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 13 0.27
20 18 0.38
22 1 0.02
23 2 0.04
24 14 0.29
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (20 bp):
TGCATCGATGCACTGTTGAA
Found at i:174749 original size:30 final size:30
Alignment explanation
Indices: 174715--174817 Score: 179
Period size: 30 Copynumber: 3.4 Consensus size: 30
174705 GGTTCTTCGG
* *
174715 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
174745 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
174775 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
174805 GACCCCTGGATAG
1 GACCTCTGGATAG
174818 GTCATTCGGA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:176462 original size:7 final size:7
Alignment explanation
Indices: 176454--176514 Score: 113
Period size: 7 Copynumber: 8.7 Consensus size: 7
176444 GAGGAATAGG
*
176454 ATTTAGG
1 ATTTAGA
176461 ATTTAGA
1 ATTTAGA
176468 ATTTAGA
1 ATTTAGA
176475 ATTTAGA
1 ATTTAGA
176482 ATTTAGA
1 ATTTAGA
176489 ATTTAGA
1 ATTTAGA
176496 ATTTAGA
1 ATTTAGA
176503 ATTTAGA
1 ATTTAGA
176510 ATTTA
1 ATTTA
176515 TCAATTGATC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 53 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (7 bp):
ATTTAGA
Found at i:178589 original size:4 final size:4
Alignment explanation
Indices: 178580--180543 Score: 3453
Period size: 4 Copynumber: 493.5 Consensus size: 4
178570 ATTGTATATG
178580 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
178628 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
178676 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
178724 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
178772 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
178820 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
178868 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
178916 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
178964 CATA CGTA CATA CATA CATA CATA CATA CATA CGTA CATA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
179012 CATA CATA CATA CATA CATA CGTA CATA CATA CATA CGTA CATA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
179060 CATA CATA CATA CATA CATA CATA CATA CATA CGTA CATA CGTA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
179108 CATA CATA CATA CATA CATA CATA CATA CATA CATA CGTA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
179156 CATA CGTA CATA CGTA CATA CATA C--A CATA CATA CATA CATA C--A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179200 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179248 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
179296 CATA CATA CATA CATA CATA CATA CATA CATA TATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
179344 CGTA CGTA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179392 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179440 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179488 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179536 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179584 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
179632 CATA CATA CATA CATA CATA CATA CATA CATA CATA CGTA CGTA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
179680 CGTA CGTA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179728 CATA CATA CATA CATA CAT- -ATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179774 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179822 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179868 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
179916 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
179964 CATA CATA TATA TATA CATA CATA CATA CGTA CGTA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * * *
180012 CATA TATA CATA CATA CATA CATA CGTA CGTA CGTA CGTA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
180060 CATA CATA TATA CATA CATA CATA CATA CATA TATA CATA CGTA CGTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
180108 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
180156 CATA CATA CATA CATA CATA TATA CATA CGTA CGTA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
180204 CATA CATA TATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
180252 CATA TATA CATA CAT- -ATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
180298 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
180346 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
180394 CATA CATA CATA TATA CATA CATA CATA CATA CATA TATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
180442 AATA TATA CATA CATA CATA CATA CATA CATA CATA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
180490 CATA CATA CATA TATA CATA CATA CATA CATA CGTA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
180538 CATA CA
1 CATA CA
180544 CGCATATCAC
Statistics
Matches: 1885, Mismatches: 65, Indels: 20
0.96 0.03 0.01
Matches are distributed among these distances:
2 10 0.01
4 1875 0.99
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:186071 original size:2 final size:2
Alignment explanation
Indices: 186066--186100 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
186056 TGATATGTAC
186066 TA TA TA 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 TA TA TA T
186101 GTATGTATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:186820 original size:2 final size:2
Alignment explanation
Indices: 186813--186858 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
186803 AGCTCAGGCA
186813 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
186855 CT CT
1 CT CT
186859 ATATATATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:186863 original size:2 final size:2
Alignment explanation
Indices: 186858--186906 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
186848 TCTCTCTCTC
186858 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
186900 TA TA TA T
1 TA TA TA T
186907 TTTCTATTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:189885 original size:2 final size:2
Alignment explanation
Indices: 189878--189927 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
189868 CCCAACCCGA
189878 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
189920 AT AT AT AT
1 AT AT AT AT
189928 TACTTTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.