Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005925.1 Hibiscus syriacus cultivar Beakdansim tig00013909_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: 82423
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1625 original size:24 final size:26
Alignment explanation
Indices: 1579--1627 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 26
1569 AATGAATTAT
1579 TGGAATTTGAATTACTGGAAAATGAC
1 TGGAATTTGAATTACTGGAAAATGAC
1605 TGGAATTTG-ATT-CTGGAAAATGA
1 TGGAATTTGAATTACTGGAAAATGA
1628 ATTACATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.48
25 3 0.13
26 9 0.39
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (26 bp):
TGGAATTTGAATTACTGGAAAATGAC
Found at i:1853 original size:21 final size:21
Alignment explanation
Indices: 1823--1995 Score: 127
Period size: 21 Copynumber: 8.6 Consensus size: 21
1813 GATTTACATA
* *
1823 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
1844 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
1865 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
1886 TT--CGTTGCGATA---CAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1902 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
1925 TT--TGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1944 TTCGCGTTGCGATTTATTACAA-
1 TTCGCGTTGCGA--TAGTCCAAG
1966 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
1985 TT--CGTTGCGAT
1 TTCGCGTTGCGAT
1996 TTATTTCAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 26
0.75 0.10 0.16
Matches are distributed among these distances:
16 5 0.04
18 14 0.11
19 29 0.23
20 10 0.08
21 53 0.43
22 2 0.02
23 11 0.09
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:1913 original size:79 final size:79
Alignment explanation
Indices: 1823--2022 Score: 205
Period size: 79 Copynumber: 2.5 Consensus size: 79
1813 GATTTACATA
* * *
1823 TTCGCATTGCGA-TAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTT-TC-CAA
1 TTCGCATTGCGATTAGTCCAAATT--CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATCAC-A
1885 ATTCGTTGCGATACAAG
63 ATTCGTTGCGATACAAG
* * * *
1902 TTCGCGTTGCGATTTATTCCAAATTTGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAT
1 TTCGCATTGCGA-TTAGTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATCACAAT
1967 TCGTTGCGATAGTCCAAG
65 TCGTTGCGATA---CAAG
* *
1985 TTCG--TTGCGATTTATTTCAAATTCGTTGCGATAG-CCAA
1 TTCGCATTGCGA-TTAGTCCAAATTCGTTGCGATAGTCCAA
2023 AATCGCAACG
Statistics
Matches: 105, Mismatches: 9, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
79 41 0.39
80 19 0.18
81 37 0.35
83 8 0.08
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (79 bp):
TTCGCATTGCGATTAGTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATCACAATT
CGTTGCGATACAAG
Found at i:1933 original size:39 final size:40
Alignment explanation
Indices: 1848--2022 Score: 209
Period size: 39 Copynumber: 4.3 Consensus size: 40
1838 TCGAAGTTCG
*
1848 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
1 CGTTGCGATA--CCAAGTTCGCGTTGCGATTTATTCCAAATT
1888 CGTTGCGATA-CAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATACCAAGTTCGCGTTGCGATTTATTCCAAATT
* *
1927 TGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTAC-AATT
1 CGTTGCGATA--CCAAGTTCGCGTTGCGATTTATTCCAAATT
*
1968 CGTTGCGATAGTCCAAGTT--CGTTGCGATTTATTTCAAATT
1 CGTTGCGATA--CCAAGTTCGCGTTGCGATTTATTCCAAATT
2008 CGTTGCGATAGCCAA
1 CGTTGCGATA-CCAA
2023 AATCGCAACG
Statistics
Matches: 123, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
37 15 0.12
38 2 0.02
39 37 0.30
40 24 0.20
41 22 0.18
42 23 0.19
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (40 bp):
CGTTGCGATACCAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:2011 original size:21 final size:21
Alignment explanation
Indices: 1906--2016 Score: 106
Period size: 21 Copynumber: 5.4 Consensus size: 21
1896 TACAAGTTCG
1906 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* * *
1927 TGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
*
1946 CGCGTTGCGATTTATTAC-AATT
1 --CGTTGCGATTTATTCCAAATT
* *
1968 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
*
1987 CGTTGCGATTTATTTCAAATT
1 CGTTGCGATTTATTCCAAATT
2008 CGTTGCGAT
1 CGTTGCGAT
2017 AGCCAAAATC
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
18 4 0.06
19 20 0.29
20 8 0.11
21 31 0.44
22 3 0.04
23 4 0.06
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:2879 original size:19 final size:20
Alignment explanation
Indices: 2831--2944 Score: 108
Period size: 19 Copynumber: 5.7 Consensus size: 20
2821 TCGTTGCGAT
2831 TTGGACTATCGCAACGCAAC
1 TTGGACTATCGCAACGCAAC
* * *
2851 TTCGATTATCGCAAC-TAAC
1 TTGGACTATCGCAACGCAAC
*
2870 TTGGACTATCGCAACGCGAAT
1 TTGGACTATCGCAACGC-AAC
*
2891 TTGGAATAAATCGCAACGCGAA-
1 TTGGACT--ATCGCAACGC-AAC
**
2913 TTCTACTATCGCAACG-AAC
1 TTGGACTATCGCAACGCAAC
2932 TTGGACTATCGCA
1 TTGGACTATCGCA
2945 TTGCGATAGT
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
18 2 0.03
19 27 0.36
20 22 0.29
21 8 0.11
22 4 0.05
23 13 0.17
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
TTGGACTATCGCAACGCAAC
Found at i:3332 original size:29 final size:29
Alignment explanation
Indices: 3285--3381 Score: 67
Period size: 31 Copynumber: 3.3 Consensus size: 29
3275 AAATAATTTA
* *
3285 TTTATT-ATTAAATAT--TATTTTATAAT
1 TTTATTAATAAAATATAATATTATATAAT
*
3311 TTTATTAATAAAATATAATATTGGTAT-AT
1 TTTATTAATAAAATATAATATT-ATATAAT
* *
3340 TTTAGTGAAATAAAATATATAAATTATATAATT
1 TTTA-T-TAATAAAATATA-ATATTATATAA-T
3373 ATTTATTAA
1 -TTTATTAA
3382 AGTAATAGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
26 6 0.11
27 8 0.15
29 10 0.18
30 4 0.07
31 14 0.25
32 7 0.13
33 2 0.04
34 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (29 bp):
TTTATTAATAAAATATAATATTATATAAT
Found at i:3476 original size:28 final size:29
Alignment explanation
Indices: 3443--3540 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 29
3433 ACTAAAATAT
3443 TTAAATATATAAATAATATTATT-CATTA
1 TTAAATATATAAATAATATTATTACATTA
* *
3471 TTAAATATATAAA-AAAATTATTATATTA
1 TTAAATATATAAATAATATTATTACATTA
* *
3499 TTAAA-ATAAAATATAATATCTTATATATATTA
1 TTAAATATATAA-ATAATA--TTAT-TACATTA
3531 TTATAATATA
1 TTA-AATATA
3541 ATTGATATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
27 13 0.22
28 23 0.40
29 3 0.05
31 4 0.07
32 10 0.17
33 2 0.03
34 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TTAAATATATAAATAATATTATTACATTA
Found at i:3528 original size:32 final size:30
Alignment explanation
Indices: 3488--3564 Score: 88
Period size: 32 Copynumber: 2.6 Consensus size: 30
3478 TATAAAAAAA
3488 TTAT-TATATTATTAAAATAAAATATAATAT
1 TTATATATATTATTAAAATAAAAT-TAATAT
* * *
3518 CTTATATATATTATTATAATATAATTGATAT
1 -TTATATATATTATTAAAATAAAATTAATAT
3549 TTATATA-A-TATTAAAA
1 TTATATATATTATTAAAA
3565 ATATATATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.17
29 1 0.02
30 7 0.17
31 9 0.22
32 17 0.41
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
TTATATATATTATTAAAATAAAATTAATAT
Found at i:3568 original size:20 final size:20
Alignment explanation
Indices: 3545--3596 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
3535 AATATAATTG
3545 ATATTTATATAATATTAAAA
1 ATATTTATATAATATTAAAA
* *
3565 ATA--TATATATTATTATAA
1 ATATTTATATAATATTAAAA
*
3583 ATATTAATA-AATAT
1 ATATTTATATAATAT
3597 ATTTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 16 0.62
19 4 0.15
20 6 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTATATAATATTAAAA
Found at i:3596 original size:22 final size:21
Alignment explanation
Indices: 3575--3623 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
3565 ATATATATAT
3575 TATTATAAATA-TTAATAAATA
1 TATT-TAAATATTTAATAAATA
3596 TATTTAAATATTTTAATAAATAA
1 TATTTAAATA-TTTAATAAAT-A
3619 TATTT
1 TATTT
3624 TGATGAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.24
21 4 0.16
22 9 0.36
23 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TATTTAAATATTTAATAAATA
Found at i:3846 original size:42 final size:42
Alignment explanation
Indices: 3789--3907 Score: 202
Period size: 42 Copynumber: 2.8 Consensus size: 42
3779 ATGAATTACA
* *
3789 TTCCGGAAAATGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGAGAAAACATT
*
3831 TTCTGGAAAACGAATTACGTGAAACAAACACGAGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGAGAAAACATT
*
3873 TTCCGGAAAACGAATTACATGAAACAAACACGAGA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGAGA
3908 TTTCGGGGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGAGAAAACATT
Found at i:4229 original size:77 final size:79
Alignment explanation
Indices: 4112--4263 Score: 218
Period size: 78 Copynumber: 1.9 Consensus size: 79
4102 ATAGAAAAAA
* * * *
4112 AAACATTTGAGGTAGCGCCCAATATTAACATTTTCGGTAG-AAAAAATAATATTTTAGGTAGCGT
1 AAACATTTGAGGTAGCGCCCAACATTAACATTTCCAGTAGAAAAAAATAATATTTTAGGTAGCAT
4176 TTTACCGAAATGTT
66 TTTACCGAAATGTT
* * *
4190 AAACATTTTAGGTAGCGTCC-ACATTAACATTTCCAGTAGAAAAAAATAATGTTTTAGGTAGCAT
1 AAACATTTGAGGTAGCGCCCAACATTAACATTTCCAGTAGAAAAAAATAATATTTTAGGTAGCAT
*
4254 TTTATCGAAA
66 TTTACCGAAA
4264 ATATTAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
77 16 0.25
78 49 0.75
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (79 bp):
AAACATTTGAGGTAGCGCCCAACATTAACATTTCCAGTAGAAAAAAATAATATTTTAGGTAGCAT
TTTACCGAAATGTT
Found at i:4914 original size:23 final size:24
Alignment explanation
Indices: 4888--4935 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4878 TTAAATTTAC
*
4888 ATATAGACATAA-AATTATTTAAA
1 ATATAAACATAACAATTATTTAAA
* *
4911 ATATAAACTTAACAATTTTTTAAA
1 ATATAAACATAACAATTATTTAAA
4935 A
1 A
4936 ATTAATCTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATAAACATAACAATTATTTAAA
Found at i:9350 original size:24 final size:24
Alignment explanation
Indices: 9303--9350 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9293 TAAGTTATAC
* *
9303 AAGACCAACAATATGATTTGGTGA
1 AAGACCAACAATACGATTTAGTGA
9327 AAGACCAACAA-ACGATCTTAGTGA
1 AAGACCAACAATACGAT-TTAGTGA
9351 CTAAAGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.21
Consensus pattern (24 bp):
AAGACCAACAATACGATTTAGTGA
Found at i:10638 original size:12 final size:12
Alignment explanation
Indices: 10623--10649 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10613 AAGGCTGGTG
10623 AGAGAGAGAAGA
1 AGAGAGAGAAGA
10635 AGAGAGAGAAGA
1 AGAGAGAGAAGA
10647 AGA
1 AGA
10650 TTAAACAAAT
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:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAAGA
Found at i:20888 original size:11 final size:11
Alignment explanation
Indices: 20852--20880 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
20842 TTCGAGATTG
20852 ATTTGATTAAA
1 ATTTGATTAAA
20863 ATTTGATTAAA
1 ATTTGATTAAA
20874 ATTTGAT
1 ATTTGAT
20881 AAATATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (11 bp):
ATTTGATTAAA
Found at i:23895 original size:81 final size:80
Alignment explanation
Indices: 23758--23960 Score: 336
Period size: 81 Copynumber: 2.5 Consensus size: 80
23748 TTTAGAGTTA
* *
23758 AATTTTAATAAAGAATTACATTAATGTTTTTCAAACCCTACGCGTAAACTATATATTAATATTAA
1 AATTTTAATAAAGAAATACATTAATGTTTTTCCAACCCTACGCGTAAACTATATATTAATATTAA
23823 GATAAAAGATATTAT
66 GATAAAAGATATTAT
23838 AATTTTTAATAAAGAAATACATTAATGTTTTTCCAACCCTACGCGTAAACTATATATTAATATTA
1 AA-TTTTAATAAAGAAATACATTAATGTTTTTCCAACCCTACGCGTAAACTATATATTAATATTA
23903 AGATAAAAGATATTAT
65 AGATAAAAGATATTAT
* * *
23919 AATTTTAATAAAGAAATTA-ATTAATATTTTCCCAACTCTACG
1 AATTTTAATAAAGAAA-TACATTAATGTTTTTCCAACCCTACG
23961 AGGATATTAA
Statistics
Matches: 116, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
80 36 0.31
81 80 0.69
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (80 bp):
AATTTTAATAAAGAAATACATTAATGTTTTTCCAACCCTACGCGTAAACTATATATTAATATTAA
GATAAAAGATATTAT
Found at i:31226 original size:2 final size:2
Alignment explanation
Indices: 31219--31252 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
31209 TTTAACCATA
31219 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
31253 TATTCTTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31718 original size:155 final size:156
Alignment explanation
Indices: 31537--31909 Score: 495
Period size: 158 Copynumber: 2.4 Consensus size: 156
31527 TGTGATATAC
* * *
31537 GAGCATGTGGTTCAGATTTGGTAAAAAAATGAATTAAAATAAATGATGAATTGAAGAAATAA-CA
1 GAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAAATAAATGACGAATTGAAGAAATAAGCA
* *
31601 AGATTATGAAAAAAAATAAATGACTAAATTG-AA-AAACAA-TTGTTATCAAAAAGAAGAATTGA
66 A-ATTATG--AAAAAATAAAGGACTAAATTGAAATAAAAAATTTGTTATCAAAAAGAAGAATTGA
31663 AAGTACACATGTATTCTACCATGATTTAG
128 AAGTACACATGTATTCTACCATGATTTAG
* * *
31692 GAGCATGTGGCTT-AAATTTGGTAAAAAATTGACTTAAAATAAATGACGAATCGAAGAAATAAGG
1 GAGCATGTGG-TTCAAATTTGGTAAAAAAATGACTTAAAATAAATGACGAATTGAAGAAATAAGC
* * *
31756 AAATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGACGAATTGA
65 AAATTATGAAAAAATAAAGGACTAAATTG--AAATAAAAAATTTGTTATCAAAAAGAAGAATTGA
*
31821 AAGTACACATGTATTCTACTATGATTTAG
128 AAGTACACATGTATTCTACCATGATTTAG
* * * *
31850 GAGCATGTAGTTCAAATTTGGTAAAAAAAATAGACTTAAAATGAATGAGGAAATGAAGAA
1 GAGCATGTGGTTCAAATTTGGT-AAAAAAAT-GACTTAAAATAAATGACGAATTGAAGAA
31910 CTAATGAAAT
Statistics
Matches: 190, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
153 18 0.09
155 60 0.32
156 6 0.03
157 7 0.04
158 68 0.36
159 7 0.04
160 24 0.13
ACGTcount: A:0.49, C:0.07, G:0.17, T:0.27
Consensus pattern (156 bp):
GAGCATGTGGTTCAAATTTGGTAAAAAAATGACTTAAAATAAATGACGAATTGAAGAAATAAGCA
AATTATGAAAAAATAAAGGACTAAATTGAAATAAAAAATTTGTTATCAAAAAGAAGAATTGAAAG
TACACATGTATTCTACCATGATTTAG
Found at i:31856 original size:158 final size:152
Alignment explanation
Indices: 31519--31921 Score: 477
Period size: 155 Copynumber: 2.6 Consensus size: 152
31509 GTTACATAGA
* * * * * * * *
31519 TATTCTATTGTGATATACGAGCATGTGGTTCAGATTTGGTAAAAAAATGAATTAAAATAAATGAT
1 TATTCTACTATGATTTAGGAGCATGTGGTTCAAATTTGGTAAAAAATTGACTTAAAATAAATGAC
* * *
31584 GAATTGAAGAAATAACAAGATTATGAAAAAAAATAAATGACTAAATTGAAAAACAATTGTTATCA
66 GAA-TGAAGAAATAAGAA-ATTATG-AAAAAAATAAAGGACTAAATTGAAAAAAAATTGTTATCA
31649 AAAAGAAGAATTGAAAGTACACATG
128 AAAAGAAGAATTGAAAGTACACATG
*
31674 TATTCTACCATGATTTAGGAGCATGTGGCTT-AAATTTGGTAAAAAATTGACTTAAAATAAATGA
1 TATTCTACTATGATTTAGGAGCATGTGG-TTCAAATTTGGTAAAAAATTGACTTAAAATAAATGA
* *
31738 CGAATCGAAGAAATAAGGAAATTATG-AAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGT
65 CGAAT-GAAGAAATAA-GAAATTATGAAAAAAATAAAGGACTAAATTG---AA-AAAAAA-TTGT
*
31802 TATCAAAAAGACGAATTGAAAGTACACATG
123 TATCAAAAAGAAGAATTGAAAGTACACATG
* * *
31832 TATTCTACTATGATTTAGGAGCATGTAGTTCAAATTTGGTAAAAAAAATAGACTTAAAATGAATG
1 TATTCTACTATGATTTAGGAGCATGTGGTTCAAATTTGGT--AAAAAATTGACTTAAAATAAATG
* *
31897 AGGAAATGAAGAACTAATGAAATTA
64 ACG-AATGAAGAAATAA-GAAATTA
31922 GTGACTAAAT
Statistics
Matches: 214, Mismatches: 22, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
153 18 0.08
154 1 0.00
155 72 0.34
156 6 0.03
157 7 0.03
158 68 0.32
160 39 0.18
161 3 0.01
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.28
Consensus pattern (152 bp):
TATTCTACTATGATTTAGGAGCATGTGGTTCAAATTTGGTAAAAAATTGACTTAAAATAAATGAC
GAATGAAGAAATAAGAAATTATGAAAAAAATAAAGGACTAAATTGAAAAAAAATTGTTATCAAAA
AGAAGAATTGAAAGTACACATG
Found at i:33541 original size:21 final size:22
Alignment explanation
Indices: 33499--33543 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
33489 TAAAGATTTT
33499 AAATTTGTATATTATTTATTAA
1 AAATTTGTATATTATTTATTAA
* *
33521 AAATTTGTTTA-TATTTTTTAA
1 AAATTTGTATATTATTTATTAA
33542 AA
1 AA
33544 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
AAATTTGTATATTATTTATTAA
Found at i:33564 original size:14 final size:15
Alignment explanation
Indices: 33532--33561 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33522 AATTTGTTTA
33532 TATTTTTTAAAATTT
1 TATTTTTTAAAATTT
33547 TATTTTTTAAAATTT
1 TATTTTTTAAAATTT
33562 ATTCATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTTAAAATTT
Found at i:37759 original size:12 final size:12
Alignment explanation
Indices: 37742--37766 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37732 CAATCTGTAT
37742 ATTTTCCATTTG
1 ATTTTCCATTTG
37754 ATTTTCCATTTG
1 ATTTTCCATTTG
37766 A
1 A
37767 CACGATAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTTTCCATTTG
Found at i:38007 original size:3 final size:3
Alignment explanation
Indices: 37999--38023 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
37989 ATTAAACTCC
37999 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
38024 TAGACGAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:39730 original size:21 final size:21
Alignment explanation
Indices: 39704--39745 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
39694 CCAAAATGGG
*
39704 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
39725 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
39746 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:39910 original size:34 final size:35
Alignment explanation
Indices: 39858--39942 Score: 138
Period size: 34 Copynumber: 2.5 Consensus size: 35
39848 AAACCATGCA
*
39858 GGGGGAATATGTAT-CCGGGGAATCGATA-CCCCTG
1 GGGGGAATCTGT-TCCCGGGGAATCGATACCCCCTG
39892 GGGGGAATCTGTTCCCGGGGAATCGATACCCCCTG
1 GGGGGAATCTGTTCCCGGGGAATCGATACCCCCTG
39927 GGGGGAATCTGTTCCC
1 GGGGGAATCTGTTCCC
39943 CCTGGACAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 1 0.02
34 25 0.52
35 22 0.46
ACGTcount: A:0.19, C:0.25, G:0.35, T:0.21
Consensus pattern (35 bp):
GGGGGAATCTGTTCCCGGGGAATCGATACCCCCTG
Found at i:39943 original size:20 final size:20
Alignment explanation
Indices: 39886--39947 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
39876 GGAATCGATA
39886 CCCCTGGGGGGAATCTGTT-
1 CCCCTGGGGGGAATCTGTTC
*
39905 -CCC---GGGGAATC-GATAC
1 CCCCTGGGGGGAATCTG-TTC
39921 CCCCTGGGGGGAATCTGTTC
1 CCCCTGGGGGGAATCTGTTC
39941 CCCCTGG
1 CCCCTGG
39948 ACAATATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
14 1 0.03
15 9 0.26
17 3 0.09
18 3 0.09
20 17 0.50
21 1 0.03
ACGTcount: A:0.13, C:0.32, G:0.34, T:0.21
Consensus pattern (20 bp):
CCCCTGGGGGGAATCTGTTC
Found at i:41898 original size:19 final size:19
Alignment explanation
Indices: 41874--41935 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
41864 GACTTTCTCA
*
41874 GTTCAAACAGTGATTTACT
1 GTTCAAACAGTAATTTACT
*
41893 GTTCAAATAGTAATTTACT
1 GTTCAAACAGTAATTTACT
* *
41912 GTTCAAATAGTAAATTACT
1 GTTCAAACAGTAATTTACT
*
41931 ATTCA
1 GTTCA
41936 TAAAAACATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (19 bp):
GTTCAAACAGTAATTTACT
Found at i:42047 original size:30 final size:31
Alignment explanation
Indices: 42000--42090 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
41990 AAATTTTGAA
42000 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
42029 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
42060 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
42091 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 38 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:43692 original size:21 final size:21
Alignment explanation
Indices: 43666--43706 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
43656 CAGAATGGGG
*
43666 GGAATCGGTACCCCTTCATAT
1 GGAATCGATACCCCTTCATAT
43687 GGAATCGATACCCCTTCATA
1 GGAATCGATACCCCTTCATA
43707 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (21 bp):
GGAATCGATACCCCTTCATAT
Found at i:43840 original size:15 final size:15
Alignment explanation
Indices: 43820--43875 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
43810 AACCATGTAG
43820 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
43835 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
*
43851 TGGGGGAATCTGTTCCC
1 --GGGGAATCTGTACCC
43868 GGGGAATC
1 GGGGAATC
43876 GATACCCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 3 0.09
17 3 0.09
18 9 0.26
19 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.36, T:0.20
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:43858 original size:18 final size:19
Alignment explanation
Indices: 43819--43944 Score: 85
Period size: 20 Copynumber: 6.9 Consensus size: 19
43809 AAACCATGTA
43819 GGGGGAATCTG-TA-CCC-
1 GGGGGAATCTGATACCCCT
43835 -GGGGAATC-GATACCCCT
1 GGGGGAATCTGATACCCCT
*
43852 GGGGGAATCTG-T-TCCC-
1 GGGGGAATCTGATACCCCT
43868 -GGGGAATC-GATACCCCCT
1 GGGGGAATCTGATA-CCCCT
* *
43886 GGGGGGAATCTGTTCCCCCT
1 -GGGGGAATCTGATACCCCT
* *
43906 GGGGGGAATCTGTTCCCCCT
1 -GGGGGAATCTGATACCCCT
43926 GGGGGGGAATCTG-TACCCC
1 --GGGGGAATCTGATACCCC
43945 CTGGACAATC
Statistics
Matches: 92, Mismatches: 5, Indels: 22
0.77 0.04 0.18
Matches are distributed among these distances:
14 2 0.02
15 19 0.21
16 3 0.03
17 6 0.07
18 9 0.10
19 1 0.01
20 38 0.41
21 14 0.15
ACGTcount: A:0.16, C:0.29, G:0.35, T:0.21
Consensus pattern (19 bp):
GGGGGAATCTGATACCCCT
Found at i:43858 original size:33 final size:35
Alignment explanation
Indices: 43819--43943 Score: 139
Period size: 33 Copynumber: 3.5 Consensus size: 35
43809 AAACCATGTA
43819 GGGGGAATCTGTACCCGGGGAATCGATA-CCCCT-
1 GGGGGAATCTGTACCCGGGGAATCGATACCCCCTG
*
43852 GGGGGAATCTGTTCCCGGGGAATCGATACCCCCTG
1 GGGGGAATCTGTACCCGGGGAATCGATACCCCCTG
* *
43887 GGGGGAATCTGTTCCCCCTGGGGGGAATCTG-TTCCCCCTGG
1 GGGGGAATCTG-T-ACCC---GGGGAATC-GATACCCCCT-G
43928 GGGGGAATCTGTACCC
1 GGGGGAATCTGTACCC
43944 CCTGGACAAT
Statistics
Matches: 79, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
33 27 0.34
34 5 0.06
35 11 0.14
36 1 0.01
37 3 0.04
39 3 0.04
40 16 0.20
41 13 0.16
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.21
Consensus pattern (35 bp):
GGGGGAATCTGTACCCGGGGAATCGATACCCCCTG
Found at i:43893 original size:20 final size:20
Alignment explanation
Indices: 43868--43948 Score: 119
Period size: 20 Copynumber: 4.0 Consensus size: 20
43858 ATCTGTTCCC
43868 GGGGAATC-GATACCCCCTGG
1 GGGGAATCTG-TACCCCCTGG
*
43888 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTGG
*
43908 GGGGAATCTGTTCCCCCTGGG
1 GGGGAATCTGTACCCCCT-GG
43929 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
43949 ACAATCTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
20 37 0.65
21 20 0.35
ACGTcount: A:0.14, C:0.30, G:0.36, T:0.21
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:43898 original size:35 final size:33
Alignment explanation
Indices: 43819--43902 Score: 141
Period size: 33 Copynumber: 2.5 Consensus size: 33
43809 AAACCATGTA
*
43819 GGGGGAATCTGTACCCGGGGAATCGATACCCCT
1 GGGGGAATCTGTTCCCGGGGAATCGATACCCCT
43852 GGGGGAATCTGTTCCCGGGGAATCGATACCCCCT
1 GGGGGAATCTGTTCCCGGGGAATCGATA-CCCCT
43886 GGGGGGAATCTGTTCCC
1 -GGGGGAATCTGTTCCC
43903 CCTGGGGGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 27 0.56
34 5 0.10
35 16 0.33
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (33 bp):
GGGGGAATCTGTTCCCGGGGAATCGATACCCCT
Found at i:43910 original size:21 final size:20
Alignment explanation
Indices: 43880--43948 Score: 120
Period size: 20 Copynumber: 3.4 Consensus size: 20
43870 GGAATCGATA
43880 CCCCCTGGGGGGAATCTGTT
1 CCCCCTGGGGGGAATCTGTT
43900 CCCCCTGGGGGGAATCTGTT
1 CCCCCTGGGGGGAATCTGTT
*
43920 CCCCCTGGGGGGGAATCTGTA
1 CCCCCT-GGGGGGAATCTGTT
43941 CCCCCTGG
1 CCCCCTGG
43949 ACAATCTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 28 0.60
21 19 0.40
ACGTcount: A:0.10, C:0.33, G:0.35, T:0.22
Consensus pattern (20 bp):
CCCCCTGGGGGGAATCTGTT
Found at i:45305 original size:31 final size:31
Alignment explanation
Indices: 45255--45319 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
45245 ATATATTAAC
45255 AAAAAATCCAACAATATTAACAAAATAAATGT
1 AAAAAATCCAACAATATTAACAAAATAAA-GT
*
45287 AAAAAATCCAATAA-ATTAACAAAATAAAGT
1 AAAAAATCCAACAATATTAACAAAATAAAGT
45317 AAA
1 AAA
45320 TATTAAATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.16
31 14 0.44
32 13 0.41
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (31 bp):
AAAAAATCCAACAATATTAACAAAATAAAGT
Found at i:50341 original size:15 final size:15
Alignment explanation
Indices: 50321--50402 Score: 103
Period size: 15 Copynumber: 5.5 Consensus size: 15
50311 TTTTAGAAAA
*
50321 TGAATTATTGGAATT
1 TGAATTACTGGAATT
50336 TGAATTACTGGAATT
1 TGAATTACTGGAATT
* **
50351 TGAATTACTGAAAAA
1 TGAATTACTGGAATT
50366 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
50381 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
50395 TGAATTAC
1 TGAATTAC
50403 ATTTCTGTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
14 12 0.21
15 45 0.79
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:50355 original size:30 final size:30
Alignment explanation
Indices: 50336--50402 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
50326 TATTGGAATT
50336 TGAATTACTGGAATTTGAATTACTGAAAAA
1 TGAATTACTGGAATTTGAATTACTGAAAAA
*
50366 TGAATTACTGGAATTTGAATT-CTGGAAAA
1 TGAATTACTGGAATTTGAATTACTGAAAAA
50395 TGAATTAC
1 TGAATTAC
50403 ATTTCTGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 15 0.42
30 21 0.58
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.34
Consensus pattern (30 bp):
TGAATTACTGGAATTTGAATTACTGAAAAA
Found at i:50379 original size:45 final size:44
Alignment explanation
Indices: 50317--50402 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 44
50307 GGTTTTTTAG
* **
50317 AAAATGAATTATTGGAATTTGAATTACTGGAATTTGAATTACTGA
1 AAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTGA
50362 AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
50403 ATTTCTGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 14 0.37
45 24 0.63
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (44 bp):
AAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTGA
Found at i:50408 original size:20 final size:20
Alignment explanation
Indices: 50385--50454 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
50375 GGAATTTGAA
50385 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
50405 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
50425 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
50445 TTCTGGAAAA
1 TTCTGGAAAA
50455 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:50677 original size:30 final size:29
Alignment explanation
Indices: 50620--50723 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 29
50610 CTTTACTAAA
*
50620 ATATTATTGAAATATAT-AAATAATATTAT
1 ATATTATT-AAATATATAAAAAAATATTAT
50649 -TCATTATTAAATATATAAAAAAATTATTAT
1 AT-ATTATTAAATATATAAAAAAA-TATTAT
50679 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAA-A-AATAT-TAT
50708 ATATTATTATAATATA
1 ATATTATTA-AATATA
50724 ATTGATTATT
Statistics
Matches: 65, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
28 13 0.20
29 28 0.43
30 20 0.31
31 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATTATTAAATATATAAAAAAATATTAT
Found at i:50762 original size:22 final size:23
Alignment explanation
Indices: 50737--50780 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
50727 GATTATTTTA
50737 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
50759 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
50781 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:50780 original size:59 final size:58
Alignment explanation
Indices: 50620--50782 Score: 146
Period size: 54 Copynumber: 2.9 Consensus size: 58
50610 CTTTACTAAA
* * * *
50620 ATATTATTGAAATATATAA-ATAATATTAT-TCATTATTAAATATATAAAAAAATTATTAT
1 ATATTATTAAAATA-AAAATATAATATTATATTATTA-TAAATAT-TAATAAAATTATTAT
**
50679 ATATTATTAAAATAAAAATATAATATCTTATATTATTAT-AATA-TAAT-TGATTATT-T
1 ATATTATTAAAATAAAAATATAATA--TTATATTATTATAAATATTAATAAAATTATTAT
*
50735 -TA-TA-TAATATTAAAAATATAATATTATATTATTATAAATATTAATAAA
1 ATATTATTAA-AATAAAAATATAATATTATATTATTATAAATATTAATAAA
50783 TATATTTTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
52 12 0.14
53 7 0.08
54 20 0.23
55 2 0.02
56 1 0.01
57 6 0.07
58 6 0.07
59 19 0.22
60 4 0.05
61 5 0.06
62 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (58 bp):
ATATTATTAAAATAAAAATATAATATTATATTATTATAAATATTAATAAAATTATTAT
Found at i:50785 original size:22 final size:22
Alignment explanation
Indices: 50741--50797 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
50731 ATTTTATATA
* *
50741 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
50762 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
50784 ATATTTTAAATATT
1 ATATTATAAATATT
50798 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:50796 original size:52 final size:51
Alignment explanation
Indices: 50677--50797 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 51
50667 AAAAATTATT
**
50677 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
50728 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
50782 ATATATTTTAAATATT
1 ATATATTTTAAATATT
50798 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:51045 original size:42 final size:42
Alignment explanation
Indices: 50986--51105 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
50976 ATGAATTACA
*
50986 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
51028 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
51070 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
51106 TTCGGGGAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:51425 original size:29 final size:31
Alignment explanation
Indices: 51352--51426 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 31
51342 ACTACACGTT
* *
51352 TACTCACTGAAC-TTTACTCTCTCTTCTATA
1 TACTCACTGAACTTTTAATCTCTCTTCAATA
* * *
51382 TCACTCATTGTACTTTTAAT-T-TTTTCAATA
1 T-ACTCACTGAACTTTTAATCTCTCTTCAATA
51412 TACTCACTGAACTTT
1 TACTCACTGAACTTT
51427 ATAGAATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
29 12 0.33
30 9 0.25
31 10 0.28
32 5 0.14
ACGTcount: A:0.25, C:0.24, G:0.04, T:0.47
Consensus pattern (31 bp):
TACTCACTGAACTTTTAATCTCTCTTCAATA
Found at i:54503 original size:24 final size:22
Alignment explanation
Indices: 54448--54492 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
54438 GAGTCGAGGG
54448 ATATACAGTGGTCCTTCGGGAC
1 ATATACAGTGGTCCTTCGGGAC
*
54470 ATATACAGTGGTCTTTCGGGAC
1 ATATACAGTGGTCCTTCGGGAC
54492 A
1 A
54493 AATATTCAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (22 bp):
ATATACAGTGGTCCTTCGGGAC
Found at i:57814 original size:2 final size:2
Alignment explanation
Indices: 57807--57840 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
57797 TAAAACTACA
57807 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
57841 TTAATAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61205 original size:7 final size:7
Alignment explanation
Indices: 61193--61239 Score: 94
Period size: 7 Copynumber: 6.7 Consensus size: 7
61183 AAAAAATAAC
61193 AATTTTA
1 AATTTTA
61200 AATTTTA
1 AATTTTA
61207 AATTTTA
1 AATTTTA
61214 AATTTTA
1 AATTTTA
61221 AATTTTA
1 AATTTTA
61228 AATTTTA
1 AATTTTA
61235 AATTT
1 AATTT
61240 CCAAGTTGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATTTTA
Found at i:63470 original size:20 final size:20
Alignment explanation
Indices: 63445--63484 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
63435 GTCTTGTCTC
63445 TTCATCATCTTCTCTAGAAA
1 TTCATCATCTTCTCTAGAAA
63465 TTCATCATCTTCTCTAGAAA
1 TTCATCATCTTCTCTAGAAA
63485 AACAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (20 bp):
TTCATCATCTTCTCTAGAAA
Found at i:63846 original size:15 final size:15
Alignment explanation
Indices: 63826--63856 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63816 ATGGGCGATC
*
63826 GCACAGGGCATCAAT
1 GCACAGAGCATCAAT
63841 GCACAGAGCATCAAT
1 GCACAGAGCATCAAT
63856 G
1 G
63857 TTTAAGGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (15 bp):
GCACAGAGCATCAAT
Found at i:70278 original size:19 final size:19
Alignment explanation
Indices: 70256--70294 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
70246 ATTTTTTATG
70256 TATTTT-TTTATTGAAAATT
1 TATTTTATTTATT-AAAATT
*
70275 TATTTTATTTCTTAAAATT
1 TATTTTATTTATTAAAATT
70294 T
1 T
70295 TATAAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
TATTTTATTTATTAAAATT
Found at i:74343 original size:13 final size:13
Alignment explanation
Indices: 74325--74353 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
74315 CCACCGTACT
74325 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
74338 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
74351 CCG
1 CCG
74354 TAACGGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.62, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:75150 original size:3 final size:3
Alignment explanation
Indices: 75144--75200 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
75134 AATAATTATT
* * *
75144 TAA TAA TAA T-A TAC TAA TAA TAA TATT TAA TAA TAA TAA TAA -ATT
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A
75189 TAA TAA TAA TAA
1 TAA TAA TAA TAA
75201 ATTTAAATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:75152 original size:14 final size:13
Alignment explanation
Indices: 75133--75181 Score: 71
Period size: 14 Copynumber: 3.6 Consensus size: 13
75123 TTTGGGCTTG
75133 TAATAATTATTTAA
1 TAATAA-TATTTAA
*
75147 TAATAATATACTAA
1 TAATAATAT-TTAA
75161 TAATAATATTTAA
1 TAATAATATTTAA
75174 TAATAATA
1 TAATAATA
75182 ATAAATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
13 14 0.44
14 18 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:75191 original size:18 final size:19
Alignment explanation
Indices: 75158--75200 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
75148 AATAATATAC
75158 TAATAATAATATTTAATAA
1 TAATAATAATATTTAATAA
75177 TAATAATAA-ATTTAATAA
1 TAATAATAATATTTAATAA
75195 TAATAA
1 TAATAA
75201 ATTTAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAATAATAATATTTAATAA
Found at i:75205 original size:33 final size:33
Alignment explanation
Indices: 75144--75206 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
75134 AATAATTATT
*
75144 TAATAATAATATACTAATAATAATATTTAATAA
1 TAATAATAATATAATAATAATAATATTTAATAA
*
75177 TAATAATAAATTTAATAATAATAA-ATTTAA
1 TAATAAT-AATATAATAATAATAATATTTAA
75207 ATGAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (33 bp):
TAATAATAATATAATAATAATAATATTTAATAA
Found at i:75454 original size:76 final size:76
Alignment explanation
Indices: 75323--76229 Score: 1585
Period size: 76 Copynumber: 12.0 Consensus size: 76
75313 GATGGAAATG
* * *
75323 TTTGAAAACATCATGCACTGATGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
75388 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
75399 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
75464 CCCGAAGACTT
66 CCCGAAGGCTT
75475 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
75539 CCCGAAGGCTT
66 CCCGAAGGCTT
*
75550 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACTCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
75614 CCCTAAGGCTT
66 CCCGAAGGCTT
*
75625 TTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
75690 -CCGAAGGCTTT
66 CCCGAAGGC-TT
* *
75701 TTTGGAAACATTATGCACTGAAGGACTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
75766 CCCGAAGGCTT
66 CCCGAAGGCTT
*
75777 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAATCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
75842 CCCGAAGGCTT
66 CCCGAAGGCTT
*
75853 TTTGGAAACATCATGCACTGAAGGAC-TACAGATGA-CCGAAGGCTTTGAAAACATCAAAAAACT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
75916 CCCGAAGGCTT
66 CCCGAAGGCTT
*
75927 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
75992 CCCGAAGGCTT
66 CCCGAAGGCTT
*
76003 TTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
76068 CCCGAAGGCTT
66 CCCGAAGGCTT
76079 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
76144 CCCGAAGGCTT
66 CCCGAAGGCTT
*** *
76155 TTTGGAAACATCATGCACTGAAGGACTTACAGATG-TGGGAAGGATTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
76218 CCCGAAGGCTT
66 CCCGAAGGCTT
76229 T
1 T
76230 AAAAACATCA
Statistics
Matches: 796, Mismatches: 30, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
74 83 0.10
75 186 0.23
76 519 0.65
77 8 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:75723 original size:226 final size:228
Alignment explanation
Indices: 75323--76229 Score: 1585
Period size: 226 Copynumber: 4.0 Consensus size: 228
75313 GATGGAAATG
* * *
75323 TTTGAAAACATCATGCACTGATGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
75388 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
* * *
75453 ATCAAAAAGCACCCGAAGACTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCAAAG
75518 GCTTTGAAAACATC-AAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
75550 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACTCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
* *
75614 CCCTAAGGCTTTTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
75679 ATCAAAAAGCT-CCGAAGGCTTTTTTGGAAACATTATGCACTGAAGGACTTACAGATGACCCAAA
131 ATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCAAA
75743 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
195 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
75777 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAATCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
75842 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC-TACAGATGA-CCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
75905 ATCAAAAAACTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCAAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCAAAG
75970 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
*
76003 TTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
76068 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
****
76133 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG-TGGGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCAAAG
*
76197 GATTTGAAAACATC-AAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
76229 T
1 T
76230 AAAAACATCA
Statistics
Matches: 649, Mismatches: 25, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
225 7 0.01
226 359 0.55
227 169 0.26
228 114 0.18
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (228 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCAAAG
GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
Found at i:75885 original size:302 final size:303
Alignment explanation
Indices: 75323--76229 Score: 1594
Period size: 302 Copynumber: 3.0 Consensus size: 303
75313 GATGGAAATG
* *
75323 TTTGAAAACATCATGCACT-GATGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTGGA-GGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
*
75387 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAA
65 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
* *
75452 CATCAAAAAGCACCCGAAGACTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
130 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
75517 GGCTTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
195 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
*
75581 GATGACTCGAAGGCTTTGAAAACATCAAAAGCTCCCTAAGGCTT
260 GATGACTCGAAGGCTTTGAAAACATCAAAAGCTCCCGAAGGCTT
75625 TTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
* *
75690 -CCGAAGGCTTTTTTGGAAACATTATGCACTGAAGGACTTACAGATGACCCAAAGGCTTTGAAAA
66 CCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
75754 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
130 CATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAA
*
75819 GGCTTTGAAAACATCAAAAATCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC-TACA
195 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
*
75883 GATGAC-CGAAGGCTTTGAAAACATCAAAAAACTCCCGAAGGCTT
260 GATGACTCGAAGGCTTTGAAAACATC-AAAAGCTCCCGAAGGCTT
* *
75927 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
75992 CCCGAAGGCTTTTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
76057 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
76122 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
196 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
* *
76187 ATG--TGGGAAGGATTTGAAAACATCAAAAGCTCCCGAAGGCTT
261 ATGACT-CGAAGGCTTTGAAAACATCAAAAGCTCCCGAAGGCTT
76229 T
1 T
76230 AAAAACATCA
Statistics
Matches: 578, Mismatches: 19, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
301 27 0.05
302 473 0.82
303 78 0.13
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (303 bp):
TTTGGAAACATCATGCACTGGAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAG
ATGACTCGAAGGCTTTGAAAACATCAAAAGCTCCCGAAGGCTT
Found at i:76225 original size:28 final size:29
Alignment explanation
Indices: 76193--76254 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
76183 ACAGATGTGG
*
76193 GAAGGATTTGAAAACATC-AAAAGCTCCC
1 GAAGGATTTAAAAACATCAAAAAGCTCCC
*
76221 GAAGGCTTTAAAAACATCAAAAAGCTCCC
1 GAAGGATTTAAAAACATCAAAAAGCTCCC
76250 GAAGG
1 GAAGG
76255 CTTTTTGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (29 bp):
GAAGGATTTAAAAACATCAAAAAGCTCCC
Found at i:76253 original size:29 final size:28
Alignment explanation
Indices: 76193--76258 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 28
76183 ACAGATGTGG
* *
76193 GAAGGATTTGAAAACATCAAAAGCTCCC
1 GAAGGCTTTAAAAACATCAAAAGCTCCC
76221 GAAGGCTTTAAAAACATCAAAAAGCTCCC
1 GAAGGCTTTAAAAACATC-AAAAGCTCCC
76250 GAAGGCTTT
1 GAAGGCTTT
76259 TTGGAAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 16 0.46
29 19 0.54
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (28 bp):
GAAGGCTTTAAAAACATCAAAAGCTCCC
Found at i:76989 original size:22 final size:22
Alignment explanation
Indices: 76964--77018 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
76954 CATAAAGCTT
76964 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
76986 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
77008 TCATCTTTGAA
1 TCATCTTTGAA
77019 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Done.