Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007792.1 Hibiscus syriacus cultivar Beakdansim tig00110078_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: 169149
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Found at i:11174 original size:9 final size:8
Alignment explanation
Indices: 11125--11177 Score: 63
Period size: 8 Copynumber: 6.5 Consensus size: 8
11115 AAAATGAGTG
11125 AAAATGAA
1 AAAATGAA
*
11133 AAAATAAA
1 AAAATGAA
*
11141 AAAATTAAA
1 AAAA-TGAA
11150 AAAAT-AA
1 AAAATGAA
11157 AAAATGAA
1 AAAATGAA
11165 AAAATGGAA
1 AAAAT-GAA
11174 AAAA
1 AAAA
11178 AAGAAGAAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
7 7 0.17
8 19 0.46
9 15 0.37
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (8 bp):
AAAATGAA
Found at i:12286 original size:55 final size:55
Alignment explanation
Indices: 12104--12343 Score: 317
Period size: 55 Copynumber: 4.4 Consensus size: 55
12094 AGATTTCCCA
* *
12104 ACAATTATTAAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * * *
12159 GCAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGATATAGGG-GCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* * * *
12211 ACAATCGTTGAAGATCGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
12266 GCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
* *
12321 ACGATTGTTGAAGA-TATTCGAGT
1 ACAATTGTTGAAGATTGTTCGAGT
12344 TCTATTCTCC
Statistics
Matches: 161, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
52 19 0.12
53 26 0.16
54 35 0.22
55 81 0.50
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (55 bp):
ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
Found at i:12368 original size:54 final size:54
Alignment explanation
Indices: 12121--12575 Score: 326
Period size: 54 Copynumber: 8.4 Consensus size: 54
12111 TTAAAGATTG
* * * * *
12121 TTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGCAGACGCAATTGATGAAGAT-
1 TTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCAGACACGATTGTTGAAGATA
* * * * * * *
12174 TGT-G-GGTCTTATACTCTCTGAAGATATAGGG-GCAGACACAATCGTTGAAGATCG
1 T-TCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCAGACACGATTGTTGAAGAT-A
* * * * *
12228 TTCGAG-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTTGAAGATTG
1 TTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCAGACACGATTGTTGAAGA-TA
* *
12283 TTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATA
1 TTCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCAGACACGATTGTTGAAGATA
* * * * **
12337 TTCGAGTTCTATTCTCCCT-AGAGAAAGAGGGAGCAAACCCGTTTGAAGAAGATA
1 TTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCAGACACGATTGTTGAAGATA
* * * **
12391 TTCGAGTTCTATTCTCCCTGAAGAAAGAGGGAGC-GAACCCGTTTGAAGAAGATA
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCAG-ACACGATTGTTGAAGATA
* **
12445 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGC-GA-ACCAGTTAGCAGAAGAT-
1 TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCAGACACGA-TT-GTTGAAGATA
* * * * **
12498 TCTTGAGTTCTATACTCCCTGAA-ACAATAGGGAGCGGACCCG-TTAGCAGAAGATTA
1 T-TCGAGTTCTATACTCCCTGAAGA-AAGAGGGAGCAGACACGATT-GTTGAAGA-TA
12554 TTCGAGTTCTATACTCCCTGAA
1 TTCGAGTTCTATACTCCCTGAA
12576 ACAATAGGGA
Statistics
Matches: 350, Mismatches: 30, Indels: 42
0.83 0.07 0.10
Matches are distributed among these distances:
52 20 0.06
53 31 0.09
54 202 0.58
55 94 0.27
56 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (54 bp):
TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCAGACACGATTGTTGAAGATA
Found at i:12578 original size:55 final size:54
Alignment explanation
Indices: 12275--12649 Score: 368
Period size: 54 Copynumber: 6.9 Consensus size: 54
12265 CGCGATTGTT
* * * **
12275 GAAGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATT-GTT
1 GAAGATTATTCGAGTTCT-ATACTCCCTGAA-AAATAGGGAGCGA-ACCCG-TTAGCA
* * * * * *
12330 GAAGA-TATTCGAGTTCTATTCTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAA
1 GAAGATTATTCGAGTTCTATACTCCCT-GAAAAATAGGGAGCGAACCCGTTAGCA
* * * *
12384 GAAGA-TATTCGAGTTCTATTCTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAA
1 GAAGATTATTCGAGTTCTATACTCCCTGAA-AAATAGGGAGCGAACCCGTTAGCA
* *
12438 GAAGA-TATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCAGTTAGCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAA-AAATAGGGAGCGAACCCGTTAGCA
* *
12492 GAAGATTCTT-GAGTTCTATACTCCCTGAAACAATAGGGAGCGGACCCGTTAGCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAA-AATAGGGAGCGAACCCGTTAGCA
***
12546 GAAGATTATTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCCGTCCCCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAA-AATAGGGAGCGAACCCGTTAGCA
* * ** *
12601 GAAGATTCTTCAAGTTCTATGTTCCCTGAAACGATAGGGAGCGAACCCG
1 GAAGATTATTCGAGTTCTATACTCCCTGAAA-AATAGGGAGCGAACCCG
12650 ATTTTGAAGA
Statistics
Matches: 284, Mismatches: 28, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
53 5 0.02
54 181 0.64
55 98 0.35
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (54 bp):
GAAGATTATTCGAGTTCTATACTCCCTGAAAAATAGGGAGCGAACCCGTTAGCA
Found at i:12937 original size:8 final size:8
Alignment explanation
Indices: 12921--12954 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
12911 TACGGATAAG
12921 TAATTAAA
1 TAATTAAA
*
12929 TAGTTAAA
1 TAATTAAA
12937 TAATTAAA
1 TAATTAAA
12945 TAATTAAA
1 TAATTAAA
12953 TA
1 TA
12955 TATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:19259 original size:31 final size:31
Alignment explanation
Indices: 19199--19270 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
19189 CGAGTATTAT
* * *
19199 AAAAACCTATTATGGGATGAATGGGTACTGC
1 AAAAGCCTATTATAGGATGAATGAGTACTGC
* *
19230 AAAAGCCTATTATAGGATGATTGATTACTGC
1 AAAAGCCTATTATAGGATGAATGAGTACTGC
* *
19261 AGAGGCCTAT
1 AAAAGCCTAT
19271 ATGGAACAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAAGCCTATTATAGGATGAATGAGTACTGC
Found at i:21370 original size:32 final size:31
Alignment explanation
Indices: 21311--21389 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
21301 ATAACGTCAC
* * * *
21311 AATGATTATTTTGTAATAGTTCGATAAATTTT
1 AATGATTATTTTATAATAATTCAATAAA-TCT
* *
21343 AATGATTATTGTATAATAATTTAATAAATCT
1 AATGATTATTTTATAATAATTCAATAAATCT
*
21374 AATAATTATTTTATAA
1 AATGATTATTTTATAA
21390 ACTTTTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 16 0.41
32 23 0.59
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.48
Consensus pattern (31 bp):
AATGATTATTTTATAATAATTCAATAAATCT
Found at i:46150 original size:49 final size:50
Alignment explanation
Indices: 46075--46175 Score: 195
Period size: 49 Copynumber: 2.0 Consensus size: 50
46065 TTAGTTCTTA
46075 AAATATTATGTATATTTTTAATGGAACAATAAAATAAGGTAATATACTTT
1 AAATATTATGTATATTTTTAATGGAACAATAAAATAAGGTAATATACTTT
46125 AAATATTATGTAT-TTTTTAATGGAACAATAAAATAAGGTAATATACTTT
1 AAATATTATGTATATTTTTAATGGAACAATAAAATAAGGTAATATACTTT
46174 AA
1 AA
46176 TTGGAAAAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 38 0.75
50 13 0.25
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.40
Consensus pattern (50 bp):
AAATATTATGTATATTTTTAATGGAACAATAAAATAAGGTAATATACTTT
Found at i:56174 original size:49 final size:50
Alignment explanation
Indices: 56099--56199 Score: 195
Period size: 49 Copynumber: 2.0 Consensus size: 50
56089 TTAGTTCTTA
56099 AAATATTATGTATATTTTTAATGGAACAATAAAATAAGGTAATATACTTT
1 AAATATTATGTATATTTTTAATGGAACAATAAAATAAGGTAATATACTTT
56149 AAATATTATGTAT-TTTTTAATGGAACAATAAAATAAGGTAATATACTTT
1 AAATATTATGTATATTTTTAATGGAACAATAAAATAAGGTAATATACTTT
56198 AA
1 AA
56200 TTGGAAAAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 38 0.75
50 13 0.25
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.40
Consensus pattern (50 bp):
AAATATTATGTATATTTTTAATGGAACAATAAAATAAGGTAATATACTTT
Found at i:57020 original size:21 final size:21
Alignment explanation
Indices: 56996--57066 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
56986 ATGCAATACT
*
56996 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTAGAATAA
* * *
57017 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTAGAATAA
57038 ATCGCAACGAATTTAGAATAA
1 ATCGCAACGAATTTAGAATAA
*
57059 ATTGCAAC
1 ATCGCAAC
57067 TCGAACTTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 9 0.23
21 21 0.54
23 9 0.23
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (21 bp):
ATCGCAACGAATTTAGAATAA
Found at i:57057 original size:42 final size:42
Alignment explanation
Indices: 56993--57086 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 42
56983 CAAATGCAAT
*
56993 ACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCG-
1 ACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTT-GA
* *
57035 ACTATCGCAACGAATTTAGAATAAATTGCAACTCGAACTTGA
1 ACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTGA
57077 ACTATCGCAA
1 ACTATCGCAA
57087 TTCGAATATG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.23
Consensus pattern (42 bp):
ACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTGA
Found at i:57233 original size:21 final size:20
Alignment explanation
Indices: 57171--57242 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
57161 ACTTCGACTA
*
57171 TCGCATTGCGATTTCCAAGT
1 TCGCATTGCGATGTCCAAGT
*
57191 TCGCATTGTGATGTCCAAGT
1 TCGCATTGCGATGTCCAAGT
*
57211 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGAT-GTCCAAGT
*
57232 TCGCGTTGCGA
1 TCGCATTGCGA
57243 ATCTGGAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.32
Consensus pattern (20 bp):
TCGCATTGCGATGTCCAAGT
Found at i:69012 original size:20 final size:20
Alignment explanation
Indices: 68987--69100 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
68977 CATTGGGAAA
68987 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
69007 ATCGCAATGTGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
69027 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
**
69048 ATCGCAATGAAATACTGACT
1 ATCGCAATGCGATACTGACT
* * * *
69068 TTCACAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* *
69088 TTCGCAACGCGAT
1 ATCGCAATGCGAT
69101 TTACATAGCG
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
19 2 0.03
20 58 0.77
21 13 0.17
22 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:69093 original size:61 final size:61
Alignment explanation
Indices: 68984--69100 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
68974 GCGCATTGGG
** * * * * *
68984 AAAATCGCAATGCGATACTGACTATCGCAATGTGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAATGAAATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
69045 AAAATCGCAATGAAATACTGACTTTCACAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAATGAAATACTGACTATCACAACGCGATACTGACTATCGCAACGCGAT
69101 TTACATAGCG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (61 bp):
AAAATCGCAATGAAATACTGACTATCACAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:69670 original size:19 final size:19
Alignment explanation
Indices: 69646--69690 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
69636 GCAACGAGAG
*
69646 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
69665 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
69684 AATCGCA
1 AATCGCA
69691 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:69708 original size:19 final size:19
Alignment explanation
Indices: 69686--69812 Score: 67
Period size: 20 Copynumber: 7.1 Consensus size: 19
69676 GAAACCAAAA
69686 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
69705 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
* **
69721 TCG--TCGCGATAGTCATT
1 TCGCATTGCGATTTTCATT
* *
69738 TCGCGTTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
**
69754 TCG--TTGCGATAGTCATT
1 TCGCATTGCGATTTTCATT
*
69771 TCCGCATTGCGATTCTCATT
1 T-CGCATTGCGATTTTCATT
* *
69791 ATCTCGTTGCGATTTTCATT
1 -TCGCATTGCGATTTTCATT
69811 TC
1 TC
69813 AACCAAAAGA
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
14 11 0.13
16 12 0.15
17 11 0.13
18 2 0.02
19 18 0.22
20 27 0.33
21 1 0.01
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:69737 original size:33 final size:33
Alignment explanation
Indices: 69700--69787 Score: 149
Period size: 33 Copynumber: 2.6 Consensus size: 33
69690 ATTGCGATTT
69700 TCATTTCGCATTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCATTGCGATTCTCTCGTCGCGATAG
* *
69733 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCATTGCGATTCTCTCGTCGCGATAG
69766 TCATTTCCGCATTGCGATTCTC
1 TCATTT-CGCATTGCGATTCTC
69788 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 37 0.73
34 14 0.27
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (33 bp):
TCATTTCGCATTGCGATTCTCTCGTCGCGATAG
Found at i:72023 original size:42 final size:42
Alignment explanation
Indices: 71902--72077 Score: 192
Period size: 42 Copynumber: 4.2 Consensus size: 42
71892 CCCGACTCGC
* * *
71902 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCCA
* * * * * *
71944 CTATCATTCCTCGAGATTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCCA
* * *
71986 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCCA
* * * *
72028 CTATCATTCCTCGAGAGTCCCCTCCCA-CAGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCACTCCCATC-GTTCAAGAGGCCA
72070 CTGTCATC
1 CTGTCATC
72078 GTTGAAGAGG
Statistics
Matches: 106, Mismatches: 27, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
41 1 0.01
42 105 0.99
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.24
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCCA
Found at i:72086 original size:84 final size:84
Alignment explanation
Indices: 71902--72077 Score: 334
Period size: 84 Copynumber: 2.1 Consensus size: 84
71892 CCCGACTCGC
*
71902 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGATTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
71967 CCCACCGTTCAAGAGGCCA
66 CCCACAGTTCAAGAGGCCA
71986 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
72051 CCCACAGTTCAAGAGGCCA
66 CCCACAGTTCAAGAGGCCA
72070 CTGTCATC
1 CTGTCATC
72078 GTTGAAGAGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACAGTTCAAGAGGCCA
Found at i:72093 original size:42 final size:42
Alignment explanation
Indices: 71902--72107 Score: 138
Period size: 42 Copynumber: 4.9 Consensus size: 42
71892 CCCGACTCGC
* * * * * *
71902 CTGTCATCCCTCAAGAGTCCACTCCTATC-GTTGAAGAGGCCC
1 CTGTCATCCTTGAAGAGTCC-CTCCCACCAGTTCAAGAGGCCA
* * *
71944 CTATCATTCCTCG-AGATTCCCCTCCCACC-GTTCAAGAGGCCA
1 CTGTCA-TCCTTGAAGAGT-CCCTCCCACCAGTTCAAGAGGCCA
* * * * * *
71986 CTGTCATCCCTCAAGAGTCCACTCCTATC-GTTGAAGAGGCCC
1 CTGTCATCCTTGAAGAGTCC-CTCCCACCAGTTCAAGAGGCCA
* *
72028 CTATCATTCCTCG-AGAGTCCCCTCCCA-CAGTTCAAGAGGCCA
1 CTGTCA-TCCTTGAAGAGT-CCCTCCCACCAGTTCAAGAGGCCA
*
72070 CTGTCATCGTTGAAGAGGTCCCTCCCACCA-TTCAAGAG
1 CTGTCATCCTTGAAGA-GTCCCTCCCACCAGTTCAAGAG
72108 CCCGATTCAC
Statistics
Matches: 126, Mismatches: 28, Indels: 20
0.72 0.16 0.11
Matches are distributed among these distances:
41 10 0.08
42 102 0.81
43 14 0.11
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
CTGTCATCCTTGAAGAGTCCCTCCCACCAGTTCAAGAGGCCA
Found at i:72107 original size:84 final size:84
Alignment explanation
Indices: 71902--72107 Score: 279
Period size: 84 Copynumber: 2.5 Consensus size: 84
71892 CCCGACTCGC
* * * * *
71902 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGATTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
71967 CCCACCGTTCAAGAGGCCA
66 CCCACAGTTCAAGAGGCCA
* * * *
71986 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
72051 CCCACAGTTCAAGAGGCCA
66 CCCACAGTTCAAGAGGCCA
** *
72070 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
72108 CCCGATTCAC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 108 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACAGTTCAAGAGGCCA
Found at i:73483 original size:14 final size:14
Alignment explanation
Indices: 73464--73499 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
73454 TTTGTTTAAT
73464 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
73478 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
73492 TGATTTGT
1 TGATTTGT
73500 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:73630 original size:19 final size:19
Alignment explanation
Indices: 73606--73672 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
73596 AAAAAGTACT
*
73606 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
73625 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
73639 ATCGCAACACGAAATGAAA
1 ATCGCAACGCGAAATGAAA
73658 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
73673 TAAATTCGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:73723 original size:33 final size:32
Alignment explanation
Indices: 73681--73807 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
73671 ATTAAATTCG
*
73681 CGTTGCGATTTTCATTTCGTATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
*
73714 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AT
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
73747 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
73780 CGTTGCGATTTTCATTTCGTATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
73808 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:73771 original size:66 final size:66
Alignment explanation
Indices: 73681--73806 Score: 225
Period size: 66 Copynumber: 1.9 Consensus size: 66
73671 ATTAAATTCG
*
73681 CGTTGCGATTTTCATTTCGTATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTA
73746 T
66 T
* *
73747 CGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGTATTGCGA
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
73807 TAGTAATTTC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.44
Consensus pattern (66 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTA
T
Found at i:76110 original size:3 final size:3
Alignment explanation
Indices: 76102--76158 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
76092 CGGGGACTTT
* * * *
76102 TTC TTC TTC TTT TTC TTC TTC TTT TTC TTC TTC TTT TTC TTC TTC TTT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
76150 TTC TTC TTC
1 TTC TTC TTC
76159 AGGATTATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:76115 original size:12 final size:12
Alignment explanation
Indices: 76098--76158 Score: 122
Period size: 12 Copynumber: 5.1 Consensus size: 12
76088 TCTTCGGGGA
76098 CTTTTTCTTCTT
1 CTTTTTCTTCTT
76110 CTTTTTCTTCTT
1 CTTTTTCTTCTT
76122 CTTTTTCTTCTT
1 CTTTTTCTTCTT
76134 CTTTTTCTTCTT
1 CTTTTTCTTCTT
76146 CTTTTTCTTCTT
1 CTTTTTCTTCTT
76158 C
1 C
76159 AGGATTATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 49 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:76367 original size:24 final size:24
Alignment explanation
Indices: 76333--76386 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
76323 CTGCAACATC
*
76333 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
76357 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
76381 ATCAAA
1 ATCAAA
76387 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:77445 original size:20 final size:20
Alignment explanation
Indices: 77392--77435 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
77382 CAATGGGGAA
*
77392 ATCGCAACGTGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
77412 ATCGCAACGCGAAACTGGCT
1 ATCGCAACGCGAAAATGGCT
77432 ATCG
1 ATCG
77436 GAATTCGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:77547 original size:19 final size:19
Alignment explanation
Indices: 77506--77573 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
77496 GAAATGAAAA
77506 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
77522 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
77539 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
77558 TCGCATTACGATTTTC
1 TCGCATTGCGATTTTC
77574 TCGTTGCGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
19 29 0.63
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:77728 original size:14 final size:14
Alignment explanation
Indices: 77709--77745 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
77699 ACATCAATTA
77709 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
77723 ACAAATCATCTTTT
1 ACAAATCAACATTT
77737 ACAAATCAA
1 ACAAATCAA
77746 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:79669 original size:19 final size:20
Alignment explanation
Indices: 79614--79680 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
79604 GAAACTTAAA
**
79614 ATCGCAACGCAAAAATGACT
1 ATCGCAACGCGGAAATGACT
*
79634 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
* *
79654 ATCGCAATGC-GAAATGA-A
1 ATCGCAACGCGGAAATGACT
79672 ATCGCAACG
1 ATCGCAACG
79681 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.20
19 6 0.15
20 26 0.65
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:79689 original size:14 final size:14
Alignment explanation
Indices: 79670--79759 Score: 65
Period size: 14 Copynumber: 5.8 Consensus size: 14
79660 ATGCGAAATG
79670 AAATCGCAACGACA
1 AAATCGCAACGACA
79684 AAATCGCAATGCGA-A
1 AAATCGCAA--CGACA
*
79699 ATGACTATCGCAATGACA
1 A--A--ATCGCAACGACA
*
79717 AAATCGCAATGCGAAA
1 AAATCGCAA--CGACA
79733 TGAAATCGCAACGACA
1 --AAATCGCAACGACA
79749 AAATCGCAACG
1 AAATCGCAACG
79760 CGAAACACAA
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
14 27 0.44
15 2 0.03
16 11 0.18
17 3 0.05
18 11 0.18
19 7 0.11
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.13
Consensus pattern (14 bp):
AAATCGCAACGACA
Found at i:79717 original size:33 final size:32
Alignment explanation
Indices: 79654--79764 Score: 186
Period size: 32 Copynumber: 3.4 Consensus size: 32
79644 GGAAATGGCT
79654 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
* *
79686 ATCGCAATGCGAAATGACTATCGCAATGACAAA
1 ATCGCAATGCGAAATGA-AATCGCAACGACAAA
79719 ATCGCAATGCGAAATGAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAA
*
79751 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
79765 CACAAATCGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 43 0.59
33 30 0.41
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.14
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAA
Found at i:79774 original size:65 final size:65
Alignment explanation
Indices: 79654--79775 Score: 201
Period size: 65 Copynumber: 1.9 Consensus size: 65
79644 GGAAATGGCT
* * *
79654 ATCGCAATGCGAAATGAAATCGCAACGACAAAATCGCAATGCGAAATGACTATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAAATCGCAACGCGAAATCACAATCGCAATGACAAA
79719 ATCGCAATGCGAAATGAAATCGCAACGACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGAAATCGCAACGACAAAATCGCAACGCGAAATCAC-AATCGCA
79776 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
64 2 0.04
65 51 0.96
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.13
Consensus pattern (65 bp):
ATCGCAATGCGAAATGAAATCGCAACGACAAAATCGCAACGCGAAATCACAATCGCAATGACAAA
Found at i:79798 original size:19 final size:19
Alignment explanation
Indices: 79771--79852 Score: 95
Period size: 18 Copynumber: 4.6 Consensus size: 19
79761 GAAACACAAA
79771 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
**
79790 TCGTGTTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
79808 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
79824 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
79841 TCGCATTGCGAT
1 TCGCATTGCGAT
79853 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 4 0.08
17 4 0.08
18 19 0.37
19 16 0.31
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:79859 original size:19 final size:20
Alignment explanation
Indices: 79837--79880 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
79827 TTGCGATTTT
79837 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
79856 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
79876 CATTT
1 CATTT
79881 TCATGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:79888 original size:20 final size:20
Alignment explanation
Indices: 79846--79891 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
79836 TCATTTCGCA
*
79846 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
* * *
79866 TTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTCCACG
79886 TTGCGA
1 TTGCGA
79892 AAGTAAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:80356 original size:18 final size:18
Alignment explanation
Indices: 80330--80374 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
80320 GTCGATCAGA
*
80330 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
80348 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
80366 TGATGGCTC
1 TGATGGCTC
80375 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:81693 original size:20 final size:20
Alignment explanation
Indices: 81668--81721 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
81658 CATTCAAGTA
*
81668 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
81688 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
81708 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
81722 CTAAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:81989 original size:22 final size:22
Alignment explanation
Indices: 81962--82005 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
81952 GATGGAGATA
81962 GACGGATTTCATCGGAGATGGG
1 GACGGATTTCATCGGAGATGGG
81984 GACGGATTTCATCGGAGATGGG
1 GACGGATTTCATCGGAGATGGG
82006 TGAGAGAGTG
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:0.23, C:0.14, G:0.41, T:0.23
Consensus pattern (22 bp):
GACGGATTTCATCGGAGATGGG
Found at i:82236 original size:41 final size:41
Alignment explanation
Indices: 82173--82286 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
82163 CGCTTTGAAA
* *
82173 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
* * * *
82214 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
*
82255 ATCGCATTGCGA-TA-GTCAGTATCGCATTGCGA
1 ATCGCATTGCGATTATGT-ATTATCGCATTGCGA
82287 TTTTCCCAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.03
40 15 0.24
41 45 0.73
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
Found at i:82259 original size:20 final size:20
Alignment explanation
Indices: 82234--82287 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
82224 GATTTTGTAT
82234 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
82254 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
82274 TATCGCATTGCGAT
1 TATCGCATTGCGAT
82288 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:82272 original size:61 final size:62
Alignment explanation
Indices: 82173--82290 Score: 168
Period size: 61 Copynumber: 1.9 Consensus size: 62
82163 CGCTTTGAAA
* * * *
82173 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
*
82235 ATCGCATTGCGA-TA-GTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGATTATGT-AGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
82291 CCCAATTCGC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 2 0.04
61 36 0.72
62 12 0.24
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (62 bp):
ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:82306 original size:61 final size:61
Alignment explanation
Indices: 82173--82308 Score: 150
Period size: 61 Copynumber: 2.2 Consensus size: 61
82163 CGCTTTGAAA
* * * * ** *
82173 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA-TA-GTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
*
82235 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCATTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
*
82297 -TCGCGTTGCGAT
1 ATCGCATTGCGAT
82309 TTACTTATTC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
60 2 0.03
61 47 0.75
62 14 0.22
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:82428 original size:20 final size:20
Alignment explanation
Indices: 82405--82450 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
82395 CAACGCGAAT
*
82405 TTGCGATAATGGAGATCGCG
1 TTGCGATAATAGAGATCGCG
* *
82425 TTGCGA-ATTAGCGATCGCG
1 TTGCGATAATAGAGATCGCG
82444 TTGCGAT
1 TTGCGAT
82451 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCG
Found at i:83655 original size:16 final size:16
Alignment explanation
Indices: 83630--83663 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
83620 TCACATTTTC
83630 ATATAAAAAAGTATGA
1 ATATAAAAAAGTATGA
*
83646 ATATAGAAAAGTATGA
1 ATATAAAAAAGTATGA
83662 AT
1 AT
83664 GAAACCCTAA
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:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (16 bp):
ATATAAAAAAGTATGA
Found at i:85454 original size:21 final size:21
Alignment explanation
Indices: 85428--85469 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
85418 GTTACCCTTT
85428 CAACTTAAACCATTTTAAAGC
1 CAACTTAAACCATTTTAAAGC
* *
85449 CAACTTGAACCATTTTTAAGC
1 CAACTTAAACCATTTTAAAGC
85470 TGATTGAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (21 bp):
CAACTTAAACCATTTTAAAGC
Found at i:88012 original size:20 final size:20
Alignment explanation
Indices: 87989--88079 Score: 94
Period size: 20 Copynumber: 4.5 Consensus size: 20
87979 ACAGGTTCCA
*
87989 AAATCGCAACGCGAATAGGT
1 AAATCGCAACGCGAATATGT
* **
88009 AAATCGCAATGATAATATGT
1 AAATCGCAACGCGAATATGT
*
88029 AAATCG-ATATTGCGAATATGT
1 AAATCGCA-A-CGCGAATATGT
* *
88050 AAATCGCAACGCTAATTTGT
1 AAATCGCAACGCGAATATGT
88070 AAATCGCAAC
1 AAATCGCAAC
88080 ACATAAGTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.69
21 16 0.27
22 1 0.02
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:88096 original size:20 final size:21
Alignment explanation
Indices: 88073--88120 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
88063 AATTTGTAAA
88073 TCGCAACAC-ATAA-GTCAAAT
1 TCGCAACACGA-AATGTCAAAT
*
88093 TCGCAACACGAAATTTCAAAT
1 TCGCAACACGAAATGTCAAAT
88114 TCGCAAC
1 TCGCAAC
88121 GCGATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (21 bp):
TCGCAACACGAAATGTCAAAT
Found at i:88305 original size:20 final size:20
Alignment explanation
Indices: 88104--88306 Score: 167
Period size: 20 Copynumber: 9.8 Consensus size: 20
88094 CGCAACACGA
* * *
88104 AATTTCAAATTCGCAACGCG
1 AATTTCTAATTCGCGACGCT
* *
88124 ATTTTCTAATTCACGACGCT
1 AATTTCTAATTCGCGACGCT
*
88144 AATTTCGAATTCGCGACGCT
1 AATTTCTAATTCGCGACGCT
* *
88164 AATTCCTAATTCGCGATTCGCAACGC
1 AATTTCTAATTCGCGA--CG---C-T
* *
88190 AATTTTGTAATTCGC-AGCGCG
1 AA-TTTCTAATTCGCGA-CGCT
* *
88211 ATTTTCTAATTCGTGACGCT
1 AATTTCTAATTCGCGACGCT
*
88231 AATTTCGAATTCGCGACGCT
1 AATTTCTAATTCGCGACGCT
* *
88251 AATTTCGAATTCGAGACGCT
1 AATTTCTAATTCGCGACGCT
88271 AA-TTCTGAATTCGCGACGCT
1 AATTTCT-AATTCGCGACGCT
*
88291 AATTCCTAATTCGCGA
1 AATTTCTAATTCGCGA
88307 TTCACAACGC
Statistics
Matches: 147, Mismatches: 26, Indels: 20
0.76 0.13 0.10
Matches are distributed among these distances:
19 3 0.02
20 120 0.82
21 5 0.03
22 3 0.02
25 3 0.02
26 3 0.02
27 10 0.07
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (20 bp):
AATTTCTAATTCGCGACGCT
Found at i:88348 original size:20 final size:20
Alignment explanation
Indices: 88325--88368 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
88315 GCGATTTTGT
88325 AATTCGAAATTAGCGTCGCG
1 AATTCGAAATTAGCGTCGCG
88345 AATTCGAAATTAGCGTCGCG
1 AATTCGAAATTAGCGTCGCG
88365 AATT
1 AATT
88369 AGGAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (20 bp):
AATTCGAAATTAGCGTCGCG
Found at i:88349 original size:127 final size:126
Alignment explanation
Indices: 88104--88350 Score: 311
Period size: 127 Copynumber: 1.9 Consensus size: 126
88094 CGCAACACGA
* *
88104 AATTTCAAATTCGCAACGCGATTTTCTAATTCACGACGCTAATTTCGAATTCGCGACGCTAATTC
1 AATTTCAAATTCGCAACGCGAATTTCGAATTCACGACGCTAATTTCGAATTCGCGACGCTAATTC
* * * ** *
88169 CTAATTCGCGATTCGCAACGCAATTTTGTAATTCGCAGCGCGATTTTCTAATTCGTGACGCT
66 CTAATTCGCGATTCACAACGCAATTTTGTAATTCGAAGAGCGA-TCGCGAATTCGTGACGCT
* * *
88231 AATTTCGAATTCGCGACGCTAATTTCGAATTCGA-GACGCTAA-TTCTGAATTCGCGACGCTAAT
1 AATTTCAAATTCGCAACGCGAATTTCGAATTC-ACGACGCTAATTTC-GAATTCGCGACGCTAAT
* *
88294 TCCTAATTCGCGATTCACAACGCGATTTTGTAATTCGAAATTAGCG-TCGCGAATTCG
64 TCCTAATTCGCGATTCACAACGCAATTTTGTAATTCG-AA-GAGCGATCGCGAATTCG
88351 AAATTAGCGT
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
126 3 0.03
127 95 0.92
128 2 0.02
129 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (126 bp):
AATTTCAAATTCGCAACGCGAATTTCGAATTCACGACGCTAATTTCGAATTCGCGACGCTAATTC
CTAATTCGCGATTCACAACGCAATTTTGTAATTCGAAGAGCGATCGCGAATTCGTGACGCT
Found at i:88437 original size:20 final size:20
Alignment explanation
Indices: 88409--88446 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88399 GCGAACTCTA
*
88409 AATTTGCGAAGCTAATTCTG
1 AATTCGCGAAGCTAATTCTG
*
88429 AATTCGCGACGCTAATTC
1 AATTCGCGAAGCTAATTC
88447 CGAAGTCACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (20 bp):
AATTCGCGAAGCTAATTCTG
Found at i:88525 original size:20 final size:20
Alignment explanation
Indices: 88500--88591 Score: 103
Period size: 20 Copynumber: 4.6 Consensus size: 20
88490 GTTGCGAATT
88500 GCGAATTAGGAATTAGCATC
1 GCGAATTAGGAATTAGCATC
*
88520 GCGAATTAGGAATTAGCTTC
1 GCGAATTAGGAATTAGCATC
* * *
88540 GCGAATTCGGAATTAGCGTT
1 GCGAATTAGGAATTAGCATC
* * * *
88560 GCGAATTAGAAAATAGTATT
1 GCGAATTAGGAATTAGCATC
*
88580 GCGAATTTGGAA
1 GCGAATTAGGAA
88592 AATCGCGTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (20 bp):
GCGAATTAGGAATTAGCATC
Found at i:88584 original size:40 final size:41
Alignment explanation
Indices: 88497--88606 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 41
88487 CGTGTTGCGA
* * * *
88497 ATTGCGAATTAGGAATTAGCATCGCGAATTAGGAATTAGCT
1 ATTGCGAATTAGGAATTAGCGTTGCGAATTAGAAAATAGCT
* *
88538 -TCGCGAATTCGGAATTAGCGTTGCGAATTAGAAAATAG-T
1 ATTGCGAATTAGGAATTAGCGTTGCGAATTAGAAAATAGCT
* * *
88577 ATTGCGAATTTGGAAAATCGCGTTGCGAAT
1 ATTGCGAATTAGG-AATTAGCGTTGCGAAT
88607 CGCGAATTCG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.02
40 42 0.74
41 14 0.25
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (41 bp):
ATTGCGAATTAGGAATTAGCGTTGCGAATTAGAAAATAGCT
Found at i:88602 original size:21 final size:21
Alignment explanation
Indices: 88553--88606 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
88543 AATTCGGAAT
88553 TAGCGTTGCGAA-TTAGAAAA
1 TAGCGTTGCGAATTTAGAAAA
** *
88573 TAGTATTGCGAATTTGGAAAA
1 TAGCGTTGCGAATTTAGAAAA
*
88594 TCGCGTTGCGAAT
1 TAGCGTTGCGAAT
88607 CGCGAATTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (21 bp):
TAGCGTTGCGAATTTAGAAAA
Found at i:88678 original size:21 final size:21
Alignment explanation
Indices: 88654--88693 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88644 ATTTACCTAT
88654 TCGCGTTACGAATTTGGAAAA
1 TCGCGTTACGAATTTGGAAAA
* *
88675 TCGCGTTGCGATTTTGGAA
1 TCGCGTTACGAATTTGGAA
88694 CCTGTGTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
TCGCGTTACGAATTTGGAAAA
Found at i:88937 original size:20 final size:21
Alignment explanation
Indices: 88888--88929 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
88878 GTTACCCTTT
*
88888 CAACTTAAACCATTTTTAAGC
1 CAACTTGAACCATTTTTAAGC
88909 CAACTTGAACCATTTTTAAGC
1 CAACTTGAACCATTTTTAAGC
88930 TGATTGAAGA
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:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (21 bp):
CAACTTGAACCATTTTTAAGC
Found at i:90935 original size:20 final size:20
Alignment explanation
Indices: 90911--90963 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
90901 TTACCTTCTC
90911 ATTCTTCAATTTCTTATTTGT
1 ATTCTTCAATTTCTTATTT-T
*
90932 -TTCTTCAATCTCTTATTTT
1 ATTCTTCAATTTCTTATTTT
*
90951 ATTCTTCGATTTC
1 ATTCTTCAATTTC
90964 CTACAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.17, C:0.19, G:0.04, T:0.60
Consensus pattern (20 bp):
ATTCTTCAATTTCTTATTTT
Found at i:113296 original size:16 final size:15
Alignment explanation
Indices: 113275--113304 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
113265 CTTTCAGTGA
113275 AAAAAAAAGAGAAAAG
1 AAAAAAAAGA-AAAAG
113291 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
113305 TTGTGCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:116896 original size:29 final size:28
Alignment explanation
Indices: 116864--116936 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
116854 TTTAAAATAA
116864 TTACCAGAATAGCACCAAAACAGAATTAT
1 TTACCAGAATAGCACCAAAA-AGAATTAT
* * *
116893 TTACCAGAATATCACTAAAATGAATTAT
1 TTACCAGAATAGCACCAAAAAGAATTAT
*
116921 TTACTAGAATAGCACC
1 TTACCAGAATAGCACC
116937 GGTCAACGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 20 0.53
29 18 0.47
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (28 bp):
TTACCAGAATAGCACCAAAAAGAATTAT
Found at i:116955 original size:13 final size:13
Alignment explanation
Indices: 116937--116966 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
116927 GAATAGCACC
116937 GGTCAACGGGTCG
1 GGTCAACGGGTCG
116950 GGTCAACGGGTCG
1 GGTCAACGGGTCG
116963 GGTC
1 GGTC
116967 GTGACCGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:124249 original size:29 final size:29
Alignment explanation
Indices: 124217--124319 Score: 170
Period size: 29 Copynumber: 3.6 Consensus size: 29
124207 TTTAAAATAA
*
124217 TTACCAGAATAGCACCAAAACCAAATTAT
1 TTACCAGAATAGCACCAAAACCGAATTAT
*
124246 TTACCAGAGTAGCACCAAAACCGAATTAT
1 TTACCAGAATAGCACCAAAACCGAATTAT
*
124275 TTACCAGAATAGCACTAAAACCGAATTAT
1 TTACCAGAATAGCACCAAAACCGAATTAT
*
124304 TTACTAGAATAGCACC
1 TTACCAGAATAGCACC
124320 GGTCAACGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.44, C:0.23, G:0.11, T:0.22
Consensus pattern (29 bp):
TTACCAGAATAGCACCAAAACCGAATTAT
Found at i:124349 original size:18 final size:18
Alignment explanation
Indices: 124326--124368 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
124316 CACCGGTCAA
124326 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
124344 CGGGTCGGGTCAACGGTT
1 CGGGTCGGGTCAACGGGT
124362 CGGGTCG
1 CGGGTCG
124369 TGACCGGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:124367 original size:13 final size:13
Alignment explanation
Indices: 124320--124349 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
124310 GAATAGCACC
124320 GGTCAACGGGTCG
1 GGTCAACGGGTCG
124333 GGTCAACGGGTCG
1 GGTCAACGGGTCG
124346 GGTC
1 GGTC
124350 GGGTCAACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:133988 original size:17 final size:18
Alignment explanation
Indices: 133966--133999 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
133956 TTGAAAGGTC
*
133966 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
133983 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
134000 ACAGAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:147665 original size:227 final size:227
Alignment explanation
Indices: 147238--147684 Score: 772
Period size: 227 Copynumber: 2.0 Consensus size: 227
147228 GTAAATTATC
* * *
147238 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
* *
147303 TAATATTTTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
*
147368 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
147433 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
147466 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
147531 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA-AA-ATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
* *
147594 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
147659 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
147685 GCAGTTTTAA
Statistics
Matches: 208, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
226 4 0.02
227 86 0.41
228 38 0.18
229 80 0.38
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:147773 original size:20 final size:19
Alignment explanation
Indices: 147750--147796 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
147740 CGATATACCA
147750 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
147770 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
147790 GGTAAAA
1 GGTAAAA
147797 TTAAAAGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:150304 original size:33 final size:33
Alignment explanation
Indices: 150262--150327 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
150252 AAATAGATGG
*
150262 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
150295 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
150328 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:152167 original size:19 final size:19
Alignment explanation
Indices: 152123--152166 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
152113 AATGTCGAGT
152123 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
152142 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
152161 T-ATTTT
1 TAATTTT
152167 TTTATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:152600 original size:199 final size:199
Alignment explanation
Indices: 152249--154460 Score: 4080
Period size: 198 Copynumber: 11.1 Consensus size: 199
152239 TTAAGGGTCA
*
152249 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
152314 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
152379 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
152444 AATG
196 AATG
152448 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
152513 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
152578 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
152643 AATG
196 AATG
* *
152647 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
152711 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
152775 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
152840 TAATG
195 TAATG
152845 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
152910 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
152975 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
153040 AATG
196 AATG
153044 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
153108 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
153173 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
153238 AATG
196 AATG
* *
153242 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
153307 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
153372 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
153437 TAATG
195 TAATG
153442 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
153507 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
153572 TAATATGTAATTTTTTAATCTAA-CGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
153636 AATG
196 AATG
153640 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
153704 -ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
153768 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
153833 AATG
196 AATG
* * *
153837 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
153902 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
153967 TAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
154031 AATG
196 AATG
* * *
154035 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
*
154100 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
154165 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
154230 AATG
196 AATG
* *
154234 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
* *
154298 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* * *
154363 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
154428 AATG
196 AATG
*
154432 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
154461 CTAATTTAAA
Statistics
Matches: 1976, Mismatches: 28, Indels: 19
0.98 0.01 0.01
Matches are distributed among these distances:
196 87 0.04
197 108 0.05
198 866 0.44
199 720 0.36
200 195 0.10
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:152997 original size:397 final size:398
Alignment explanation
Indices: 152249--154460 Score: 4089
Period size: 397 Copynumber: 5.6 Consensus size: 398
152239 TTAAGGGTCA
* * *
152249 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
152314 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
152379 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
152444 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
196 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
152509 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
261 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
*
152574 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
326 AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
152639 AAATAATG
391 AAATAATG
152647 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
*
152711 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
152775 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
152840 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
195 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
152905 GCATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
260 GCATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
152970 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
325 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
153035 TAAATAATG
390 TAAATAATG
*
153044 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
153108 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
153173 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
*
153238 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTG
196 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
* *
153303 CACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
261 CATCAATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
153368 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
325 TAATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTC
153433 TAAATAATG
390 TAAATAATG
* *
153442 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
153507 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
153572 TAATATGTAATTTTTTAATCTAA-CGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
153636 AATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTG
196 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
153700 CATC-ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
261 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
*
153764 AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATAAGAGAATAAGTCT
326 AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
153829 AAATAATG
391 AAATAATG
*
153837 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
*
153902 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
153967 TAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
* *
154031 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATAAAAAACAAGGTG
196 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
* *
154096 CACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
261 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
* *
154161 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT
326 AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
154226 AAATAATG
391 AAATAATG
154234 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
* *
154298 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
154363 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
*
154428 AATGTGTCGACACTAATATATTTTGTGTCGATA
196 AATGTGTCGACACTAATATAGTTTGTGTCGATA
154461 CTAATTTAAA
Statistics
Matches: 1774, Mismatches: 31, Indels: 19
0.97 0.02 0.01
Matches are distributed among these distances:
394 11 0.01
395 320 0.18
396 158 0.09
397 898 0.51
398 272 0.15
399 115 0.06
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (398 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
AATGTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
AAATAATG
Found at i:155946 original size:18 final size:18
Alignment explanation
Indices: 155923--155990 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
155913 ATCGGTCGCA
155923 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
155941 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
155962 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
155983 GAAGATGA
1 GAAGATGA
155991 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:155947 original size:6 final size:6
Alignment explanation
Indices: 155923--156020 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
155913 ATCGGTCGCA
* * * * * *
155923 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
155971 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
156019 GA
1 GA
156021 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:155958 original size:3 final size:3
Alignment explanation
Indices: 155938--156024 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
155928 TGAAGCTGAC
* * * * * ** *
155938 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
155986 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
156025 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:155973 original size:42 final size:42
Alignment explanation
Indices: 155926--156016 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
155916 GGTCGCAGAA
*
155926 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
155968 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
156010 GATGAAG
1 GATGAAG
156017 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:156024 original size:18 final size:18
Alignment explanation
Indices: 155923--156020 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
155913 ATCGGTCGCA
* *
155923 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
155941 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
155959 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
155977 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
155995 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
156013 GAAGATGA
1 GAAGATGA
156021 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:157971 original size:182 final size:184
Alignment explanation
Indices: 157385--158054 Score: 1263
Period size: 184 Copynumber: 3.7 Consensus size: 184
157375 CTTTCAACAT
** *
157385 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
157450 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
157515 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
157569 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
157634 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
157699 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
157753 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
157818 GGTCTACAACCTATATCGACACTTTTT-A-ATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
157881 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
157935 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
*
158000 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
158055 CCATTTAAAA
Statistics
Matches: 476, Mismatches: 8, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
182 177 0.37
183 2 0.00
184 297 0.62
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:158665 original size:23 final size:23
Alignment explanation
Indices: 158634--158696 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
158624 ATAGGTAAAC
*
158634 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
158657 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
158680 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
158697 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:158704 original size:23 final size:23
Alignment explanation
Indices: 158634--158706 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
158624 ATAGGTAAAC
* * **
158634 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
158657 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
158680 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
158703 ATAT
1 ATAT
158707 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:159080 original size:427 final size:428
Alignment explanation
Indices: 158284--159123 Score: 1623
Period size: 427 Copynumber: 2.0 Consensus size: 428
158274 TCACCGTTGC
158284 AGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
1 AGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
158349 TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
66 TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
158414 TTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATC
131 TTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATC
158479 AAATAATTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTT
196 AAATAATTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTT
158544 AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATG
261 AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATG
158609 GACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTA
326 GACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTA
158674 TCGTTTATATAATGTAATAGGTAATGGTTATATTGTAA
391 TCGTTTATATAATGTAATAGGTAATGGTTATATTGTAA
158712 AGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT-GAAAACATTAATTTAAGGTT
1 AGTGTCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
158776 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGT-ATTATAGGCGTCTAATGATTTATTTTTTAC
65 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
158840 GTTACGGTATATATTATTATTAAATTTAAAATTCTAAATAATATTTTATAAAATATAAAAACAAT
130 GTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAAT
*
158905 CAAATATTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGT
195 CAAATAATTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGT
158970 TAAAAAAATTGAAACATAAATTACATAAGTTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTA
260 T-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTA
159034 TGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGG
324 TGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGG
159099 TATCGTTTATATAATGTAATAGGTA
389 TATCGTTTATATAATGTAATAGGTA
159124 TCTATCTCGC
Statistics
Matches: 408, Mismatches: 2, Indels: 5
0.98 0.00 0.01
Matches are distributed among these distances:
427 280 0.69
428 96 0.24
429 32 0.08
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (428 bp):
AGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTA
TCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
TTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATC
AAATAATTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTT
AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATG
GACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTA
TCGTTTATATAATGTAATAGGTAATGGTTATATTGTAA
Found at i:159124 original size:23 final size:23
Alignment explanation
Indices: 159061--159125 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
159051 ATAGGTAAAC
* *
159061 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
159084 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
159107 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
159126 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:159350 original size:18 final size:18
Alignment explanation
Indices: 159329--159365 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
159319 GTAATTGGAG
159329 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
159347 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
159365 T
1 T
159366 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:159373 original size:24 final size:24
Alignment explanation
Indices: 159321--159367 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
159311 TTTCATATGT
* *
159321 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
159345 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
159368 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:160793 original size:18 final size:18
Alignment explanation
Indices: 160770--160808 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
160760 GTTGAACTAG
* *
160770 TAAGATGAAACATTTAAA
1 TAAGATAAAAAATTTAAA
*
160788 TAAGATAAAAAATTTGAA
1 TAAGATAAAAAATTTAAA
160806 TAA
1 TAA
160809 TGACACTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (18 bp):
TAAGATAAAAAATTTAAA
Found at i:161772 original size:2 final size:2
Alignment explanation
Indices: 161761--161795 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
161751 ATCATGGATA
161761 AT AT -T 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
161796 GGTGTTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:162030 original size:17 final size:17
Alignment explanation
Indices: 162003--162041 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
161993 AATTTACAAT
162003 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
162019 TAATTATAAATAATATC
1 TAATTATAAATAATATC
162036 TAATTA
1 TAATTA
162042 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:162077 original size:25 final size:25
Alignment explanation
Indices: 162043--162164 Score: 237
Period size: 25 Copynumber: 4.9 Consensus size: 25
162033 ATCTAATTAA
162043 TTTGATTCAAACATTTGCATTTAGT
1 TTTGATTCAAACATTTGCATTTAGT
162068 TTTGATTCAAACATTTGCATTT-GT
1 TTTGATTCAAACATTTGCATTTAGT
162092 TTTGATTCAAACATTTGCATTTAGT
1 TTTGATTCAAACATTTGCATTTAGT
162117 TTTGATTCAAACATTTGCATTTAGT
1 TTTGATTCAAACATTTGCATTTAGT
162142 TTTGATTCAAACATTTGCATTTA
1 TTTGATTCAAACATTTGCATTTA
162165 TCCACTACCC
Statistics
Matches: 96, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
24 24 0.25
25 72 0.75
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (25 bp):
TTTGATTCAAACATTTGCATTTAGT
Found at i:162109 original size:49 final size:50
Alignment explanation
Indices: 162043--162164 Score: 237
Period size: 49 Copynumber: 2.5 Consensus size: 50
162033 ATCTAATTAA
162043 TTTGATTCAAACATTTGCATTTAGTTTTGATTCAAACATTTGCATTT-GT
1 TTTGATTCAAACATTTGCATTTAGTTTTGATTCAAACATTTGCATTTAGT
162092 TTTGATTCAAACATTTGCATTTAGTTTTGATTCAAACATTTGCATTTAGT
1 TTTGATTCAAACATTTGCATTTAGTTTTGATTCAAACATTTGCATTTAGT
162142 TTTGATTCAAACATTTGCATTTA
1 TTTGATTCAAACATTTGCATTTA
162165 TCCACTACCC
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
49 47 0.65
50 25 0.35
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.48
Consensus pattern (50 bp):
TTTGATTCAAACATTTGCATTTAGTTTTGATTCAAACATTTGCATTTAGT
Found at i:167897 original size:34 final size:34
Alignment explanation
Indices: 167859--167929 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
167849 TATATAAGTA
167859 AAAATGGAATTTATTTGACATCATTTTATAAAAT
1 AAAATGGAATTTATTTGACATCATTTTATAAAAT
167893 AAAATGGAATTTATTTGACATCATTTTATAAAAT
1 AAAATGGAATTTATTTGACATCATTTTATAAAAT
167927 AAA
1 AAA
167930 CTTAGTGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.39
Consensus pattern (34 bp):
AAAATGGAATTTATTTGACATCATTTTATAAAAT
Done.