Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004883.1 Hibiscus syriacus cultivar Beakdansim tig00011001_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: 194317
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:5050 original size:14 final size:13
Alignment explanation
Indices: 5027--5076 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
5017 TGAAAATATA
5027 AATGCAAATGCAT
1 AATGCAAATGCAT
5040 AATGCATAATGCAGT
1 AATGCA-AATGCA-T
* * *
5055 GATGAAAATTCAT
1 AATGCAAATGCAT
5068 AATGCAAAT
1 AATGCAAAT
5077 ATTCAAATGC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 14 0.47
14 11 0.37
15 5 0.17
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (13 bp):
AATGCAAATGCAT
Found at i:6553 original size:2 final size:2
Alignment explanation
Indices: 6546--6607 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
6536 TAATCCAAAG
6546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6588 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
6608 GGGTAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7701 original size:16 final size:16
Alignment explanation
Indices: 7680--7712 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7670 CTCGTCACTA
7680 TTATATTAGTGACAAT
1 TTATATTAGTGACAAT
7696 TTATATTAGTGACAAT
1 TTATATTAGTGACAAT
7712 T
1 T
7713 ATTCTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (16 bp):
TTATATTAGTGACAAT
Found at i:7851 original size:103 final size:102
Alignment explanation
Indices: 7738--7980 Score: 243
Period size: 103 Copynumber: 2.3 Consensus size: 102
7728 ACAATTGTTC
*** * * ** *
7738 TTTTTTTGACCTTTTATTCGACACAATTATCAATATAAATTGTGATGAATTTTTTTGACACTAAA
1 TTTTTTTGACCAAATATTCGACACAATTATCAATAGAAATCGTGAAAAATTTATTTGACACTAAA
*
7803 AATATATTTTGTGACAATCAATATTGTCACACTAATA
66 AATATATTTTGTGACAACCAATATTGTCACACTAATA
* * * * *
7840 TTTTTATTGACCAAATGTTTGATACTATTATTAATAGAAATCGTGAAAAATTTATTTGACACTAA
1 TTTTT-TTGACCAAATATTCGACACAATTATCAATAGAAATCGTGAAAAATTTATTTGACACTAA
* * * * *
7905 AAGTATATTTTGTGACCACCAATGTTGTCACAATAAGTG
65 AAATATATTTTGTGACAACCAATATTGTCACACTAA-TA
* * * *
7944 TTTTTTAGTGACCAAATGTTTGACACTATTAACAATA
1 TTTTTT--TGACCAAATATTCGACACAATTATCAATA
7981 ACTTTTTAAC
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
102 5 0.04
103 78 0.68
104 6 0.05
105 26 0.23
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (102 bp):
TTTTTTTGACCAAATATTCGACACAATTATCAATAGAAATCGTGAAAAATTTATTTGACACTAAA
AATATATTTTGTGACAACCAATATTGTCACACTAATA
Found at i:9029 original size:3 final size:3
Alignment explanation
Indices: 9021--9053 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
9011 TTATCCGGGA
9021 TAT TAT TAT TAT TA- TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9054 ATAATAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9040 original size:11 final size:11
Alignment explanation
Indices: 9024--9053 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9014 TCCGGGATAT
9024 TATTATTATTA
1 TATTATTATTA
*
9035 TATTATTATTT
1 TATTATTATTA
9046 TATTATTA
1 TATTATTA
9054 ATAATAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTATTATTA
Found at i:11640 original size:19 final size:19
Alignment explanation
Indices: 11616--11655 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11606 AAGTCGTAAC
11616 CGTTTTGAAACTAAATAAT
1 CGTTTTGAAACTAAATAAT
11635 CGTTTTGAAACTAAATAAT
1 CGTTTTGAAACTAAATAAT
11654 CG
1 CG
11656 GTTTCGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
CGTTTTGAAACTAAATAAT
Found at i:20413 original size:10 final size:9
Alignment explanation
Indices: 20399--20439 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
20389 AAAAATATAT
*
20399 GAAAAAAAG
1 GAAAAAAAA
20408 GAAAAAAAA
1 GAAAAAAAA
20417 GAACAAAAAA
1 GAA-AAAAAA
20427 GAAAGAAAAA
1 GAAA-AAAAA
20437 GAA
1 GAA
20440 GGGTTCAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 12 0.41
10 17 0.59
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:20424 original size:20 final size:20
Alignment explanation
Indices: 20401--20439 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
20391 AAATATATGA
20401 AAAAAAGGAAA-AAAAAGAAC
1 AAAAAA-GAAAGAAAAAGAAC
20421 AAAAAAGAAAGAAAAAGAA
1 AAAAAAGAAAGAAAAAGAA
20440 GGGTTCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAGAAAAAGAAC
Found at i:21781 original size:54 final size:54
Alignment explanation
Indices: 21706--22210 Score: 525
Period size: 54 Copynumber: 9.6 Consensus size: 54
21696 GGAGATGTCT
*
21706 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
* * * *
21760 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTT---GAAGATGTCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
*
21811 GAGTTCTATACTCCCTGAAGAAAGA-GGAGCGAACCCGTTTGAAGAAGATATCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
* * * *
21864 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-T-C
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
*
21915 GAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
* * * ** * *
21969 GAGTTCCATACTCCTTAAAAAAAGAATGAGCGAACCCGTGTGAAGATG-T-T-C
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
* * * * *
22020 GAGTTCCATACCCCCTAGAGAAAGAGGGAGCGAACCCG--TG-TGAAGATATTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
* * * ** * **
22071 GAGTTATATACTTCCTGAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
* * * ** * *
22125 GAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCTGTTTGTTGAAGATTGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TATCC
* * *
22180 GAG-TCTCATACTCTCTGAAGAAATAGGGAGC
1 GAGTTCT-ATACTCCCTAAAGAAAGAGGGAGC
22211 AGACACGATT
Statistics
Matches: 381, Mismatches: 55, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 16 0.04
51 141 0.37
52 3 0.01
53 35 0.09
54 153 0.40
55 27 0.07
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (54 bp):
GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCC
Found at i:21832 original size:51 final size:51
Alignment explanation
Indices: 21698--22210 Score: 485
Period size: 51 Copynumber: 9.8 Consensus size: 51
21688 AAGCAGAAGG
*
21698 AGATGTCTGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGA
1 AGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT---GA
* * * * *
21752 AGATATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA
1 AGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGA
21803 AGATGTCCGAGTTCTATACTCCCTGAAGAAAGA-GGAGCGAACCCGTTTGAAGA
1 AGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTT---GA
* * * * *
21856 AGATATCCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA
1 AGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGA
*
21907 AGATGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGA
1 AGATGTCCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTT---GA
* * * * * ** *
21961 AGATATCCGAGTTCCATACTCCTTAAAAAAAGAATGAGCGAACCCGTGTGA
1 AGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGA
* * * *
22012 AGATGTTCGAGTTCCATACCCCCT-AGAGAAAGAGGGAGCGAACCCGTGTGA
1 AGATGTCCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGA
* * * * **
22063 AGATATTCGAGTTATATACTTCCTGAAGAAAGAGGGAGCGAACCCGTAAGAAGA
1 AGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGT---TTGA
* ** * *
22117 AGATTTTTGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCTGTTTGTTGA
1 AGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG--T-TTGA
* * *
22171 AGATTGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC
1 AGA-TGTCCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGC
22211 AGACACGATT
Statistics
Matches: 389, Mismatches: 52, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
50 17 0.04
51 159 0.41
52 1 0.00
53 31 0.08
54 152 0.39
55 28 0.07
56 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (51 bp):
AGATGTCCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGA
Found at i:22016 original size:105 final size:105
Alignment explanation
Indices: 21698--22166 Score: 657
Period size: 105 Copynumber: 4.5 Consensus size: 105
21688 AAGCAGAAGG
21698 AGATG-TCTGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCGA
1 AGATGTTC-GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCGA
*
21762 GTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA
65 GTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTGTGA
*
21803 AGATGTCCGAGTTCTATACTCCCTGAAGAAAGA-GGAGCGAACCCGTTTGAAGAAGATATCCGAG
1 AGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCGAG
*
21867 TTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGA
66 TTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTGTGA
21907 AGATGTTCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCGA
1 AGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCGA
* *
21971 GTTCCATACTCCTTAAAAAAAGAATGAGCGAACCCGTGTGA
65 GTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTGTGA
* * * *
22012 AGATGTTCGAGTTCCATACCCCCT-AGAGAAAGAGGGAGCGAACCCG--TG-TGAAGATATTCGA
1 AGATGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCGA
** * * *
22073 GTTATATACTTCC-TGAAGAAAGAGGGAGCGAACCCGTAAGAAGA
65 GTTCCATAC-TCCTTAAAGAAAGAAGGAGCGAACCCGT--G-TGA
* * * *
22117 AGATTTTTGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAACCTGTTTG
1 AGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTG
22167 TTGAAGATTG
Statistics
Matches: 332, Mismatches: 22, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
102 38 0.11
103 6 0.02
104 102 0.31
105 182 0.55
106 2 0.01
107 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (105 bp):
AGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATATCCGAG
TTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTGTGA
Found at i:22296 original size:111 final size:111
Alignment explanation
Indices: 22167--22375 Score: 321
Period size: 111 Copynumber: 1.9 Consensus size: 111
22157 AACCTGTTTG
* *
22167 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTAAATATTG
1 TTGAAGATTGTTCAAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTAAAGATTG
22232 TT-CGAGTCTCATACTCTCTGAAAGAATAGGGAGCAGACACGATTGT
66 TTCCG-GTCTCATACTCTCTGAAAGAATAGGGAGCAGACACGATTGT
* * * * * *
22278 TTGAAGATTGTTCAAGTCTTATACTCTCTGAAGGAATAGGGAGCATATACGTTTATTGAAGATTG
1 TTGAAGATTGTTCAAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTAAAGATTG
*
22343 TTCCGGTCTCATACTCTCTGAAGGAATAGGGAG
66 TTCCGGTCTCATACTCTCTGAAAGAATAGGGAG
22376 TGAACATGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
111 86 0.98
112 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (111 bp):
TTGAAGATTGTTCAAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTAAAGATTG
TTCCGGTCTCATACTCTCTGAAAGAATAGGGAGCAGACACGATTGT
Found at i:22570 original size:3 final size:3
Alignment explanation
Indices: 22562--22594 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
22552 TTGTCCGGGA
22562 TAT TAT TAT TAT TA- TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22595 ATAATAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22581 original size:11 final size:11
Alignment explanation
Indices: 22565--22594 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22555 TCCGGGATAT
22565 TATTATTATTA
1 TATTATTATTA
*
22576 TATTATTATTT
1 TATTATTATTA
22587 TATTATTA
1 TATTATTA
22595 ATAATAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TATTATTATTA
Found at i:30564 original size:32 final size:32
Alignment explanation
Indices: 30528--30599 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 32
30518 CCGTGTCCCG
30528 ACCCGGATGTTT-CGGGTACCCG-ATAATCGAGT
1 ACCCGGAT-TTTGCGGGTACCCGTAT-ATCGAGT
* *
30560 ACCCGGATTTTGCGGGTACCCGTATGTCGGGT
1 ACCCGGATTTTGCGGGTACCCGTATATCGAGT
30592 ACCCGGAT
1 ACCCGGAT
30600 ACCTAGATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 3 0.08
32 31 0.86
33 2 0.06
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (32 bp):
ACCCGGATTTTGCGGGTACCCGTATATCGAGT
Found at i:30580 original size:17 final size:16
Alignment explanation
Indices: 30528--30599 Score: 67
Period size: 15 Copynumber: 4.5 Consensus size: 16
30518 CCGTGTCCCG
30528 ACCCGGATGTTTCGGGT
1 ACCCGGAT-TTTCGGGT
** *
30545 ACCC-GATAATCGAGT
1 ACCCGGATTTTCGGGT
30560 ACCCGGATTTTGCGGGT
1 ACCCGGATTTT-CGGGT
* *
30577 ACCCGTA-TGTCGGGT
1 ACCCGGATTTTCGGGT
30592 ACCCGGAT
1 ACCCGGAT
30600 ACCTAGATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
15 20 0.47
16 9 0.21
17 14 0.33
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (16 bp):
ACCCGGATTTTCGGGT
Found at i:30684 original size:26 final size:26
Alignment explanation
Indices: 30648--30725 Score: 129
Period size: 26 Copynumber: 3.0 Consensus size: 26
30638 ACAAATCTGA
* *
30648 GTTAGGTTGTTTAGGAGTAGCAATTT
1 GTTAGCTTGTTTAGCAGTAGCAATTT
*
30674 GTTAGCTTGTTTAGCAATAGCAATTT
1 GTTAGCTTGTTTAGCAGTAGCAATTT
30700 GTTAGCTTGTTTAGCAGTAGCAATTT
1 GTTAGCTTGTTTAGCAGTAGCAATTT
30726 ATAAAAAGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.42
Consensus pattern (26 bp):
GTTAGCTTGTTTAGCAGTAGCAATTT
Found at i:32958 original size:48 final size:48
Alignment explanation
Indices: 32876--33086 Score: 284
Period size: 48 Copynumber: 4.5 Consensus size: 48
32866 AATGTCATAT
* *
32876 GTGCTAATCATCATCAATAGGAGCA-CA--ATCACACAGACGTCAGAC
1 GTGCTAATCATCATCAATAGTAGCACCACCGTCACACAGACGTCAGAC
* * ** *
32921 GTGCTAATCATCATCAATAGTAGAACCACCGTCACACATATATCAAAC
1 GTGCTAATCATCATCAATAGTAGCACCACCGTCACACAGACGTCAGAC
* * *
32969 GTGTTAATCATCATCAATAGTAGCACCACCGTCACATAGACGTCAGAT
1 GTGCTAATCATCATCAATAGTAGCACCACCGTCACACAGACGTCAGAC
* *
33017 GTGCTAATCATCATCAATAGTAGCACCACCGTCAAATAGACGTCAGAC
1 GTGCTAATCATCATCAATAGTAGCACCACCGTCACACAGACGTCAGAC
*
33065 GTGTTAATCATCATCAATAGTA
1 GTGCTAATCATCATCAATAGTA
33087 TTCATAAATA
Statistics
Matches: 144, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
45 23 0.16
46 2 0.01
48 119 0.83
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.23
Consensus pattern (48 bp):
GTGCTAATCATCATCAATAGTAGCACCACCGTCACACAGACGTCAGAC
Found at i:33899 original size:22 final size:22
Alignment explanation
Indices: 33873--33935 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
33863 CACAGTTCGT
33873 ATAAAATGCACCGAAGTG-CCAC
1 ATAAAATGCACCGAAG-GACCAC
**
33895 ATAAAATGTTCCGAAGGACCAC
1 ATAAAATGCACCGAAGGACCAC
*
33917 ATAGATAT-C-CCGAAGGACC
1 ATA-AAATGCACCGAAGGACC
33936 GCGTAGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 11 0.31
22 21 0.60
23 3 0.09
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATAAAATGCACCGAAGGACCAC
Found at i:33956 original size:24 final size:24
Alignment explanation
Indices: 33924--33990 Score: 100
Period size: 23 Copynumber: 2.8 Consensus size: 24
33914 CACATAGATA
33924 TCCCGAAGGACCGCGTAGAAATTG
1 TCCCGAAGGACCGCGTAGAAATTG
* *
33948 TCCCAAAGGACCACGTAG-AATTG
1 TCCCGAAGGACCGCGTAGAAATTG
*
33971 TCCTGAAGGACCGCGTAGAA
1 TCCCGAAGGACCGCGTAGAA
33991 CCCTCGACTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 20 0.54
24 17 0.46
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.16
Consensus pattern (24 bp):
TCCCGAAGGACCGCGTAGAAATTG
Found at i:33973 original size:23 final size:23
Alignment explanation
Indices: 33905--33990 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 23
33895 ATAAAATGTT
* *
33905 CCGAAGGACCACATAG-A-TATC
1 CCGAAGGACCACGTAGAATTGTC
*
33926 CCGAAGGACCGCGTAGAAATTGTC
1 CCGAAGGACCACGTAG-AATTGTC
*
33950 CCAAAGGACCACGTAGAATTGTC
1 CCGAAGGACCACGTAGAATTGTC
* *
33973 CTGAAGGACCGCGTAGAA
1 CCGAAGGACCACGTAGAA
33991 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 14 0.26
23 23 0.43
24 17 0.31
ACGTcount: A:0.34, C:0.26, G:0.26, T:0.15
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAATTGTC
Found at i:34120 original size:14 final size:14
Alignment explanation
Indices: 34101--34129 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34091 AGTAATCAAG
34101 TAGGTTATGTCACA
1 TAGGTTATGTCACA
34115 TAGGTTATGTCACA
1 TAGGTTATGTCACA
34129 T
1 T
34130 TTCTTATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (14 bp):
TAGGTTATGTCACA
Found at i:34201 original size:44 final size:44
Alignment explanation
Indices: 34106--34209 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
34096 TCAAGTAGGT
* * *
34106 TATG-TCACATAGGTTATGTCACATTTCTTATATCCTATATTCA
1 TATGTTCACATAGATCATGTCACATATCTTATATCCTATATTCA
* * * *
34149 TGTATTCACATAGATCATGTCACATATCTTATATCTTGT-TCTCA
1 TATGTTCACATAGATCATGTCACATATCTTATATCCTATAT-TCA
34193 TATGTTCACATAGATCA
1 TATGTTCACATAGATCA
34210 CATAGCACAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
43 3 0.06
44 47 0.94
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (44 bp):
TATGTTCACATAGATCATGTCACATATCTTATATCCTATATTCA
Found at i:34220 original size:16 final size:17
Alignment explanation
Indices: 34199--34230 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34189 CTCATATGTT
34199 CACATAG-ATCACATAG
1 CACATAGAATCACATAG
34215 CACATAGAATCACATA
1 CACATAGAATCACATA
34231 TAACTCCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.47, C:0.25, G:0.09, T:0.19
Consensus pattern (17 bp):
CACATAGAATCACATAG
Found at i:41527 original size:13 final size:13
Alignment explanation
Indices: 41509--41534 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41499 CGTACTCCGC
41509 CGCCGGCCACCGT
1 CGCCGGCCACCGT
41522 CGCCGGCCACCGT
1 CGCCGGCCACCGT
41535 TTACGGTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.54, G:0.31, T:0.08
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:42236 original size:3 final size:3
Alignment explanation
Indices: 42230--42274 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
42220 ATTTTTTATT
* *
42230 TAA TAA TAA TAA TAA TAC TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
42275 AACAAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:42537 original size:76 final size:76
Alignment explanation
Indices: 42406--43220 Score: 1510
Period size: 76 Copynumber: 10.8 Consensus size: 76
42396 GATGGAAATG
* * * *
42406 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGGCCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42471 CCCGAAGGCTT
66 CCCGAAGGCTT
*
42482 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42546 CCCGAAGGCTT
66 CCCGAAGGCTT
42557 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42622 -CCGAAGGCTT
66 CCCGAAGGCTT
*
42632 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42697 CCCGAAGGCTT
66 CCCGAAGGCTT
42708 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42773 CCCGAAGGCTT
66 CCCGAAGGCTT
42784 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42849 -CCGAAGGCTT
66 CCCGAAGGCTT
*
42859 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACTCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42924 CCCGAAGGCTT
66 CCCGAAGGCTT
42935 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
43000 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
43011 TTTGGAAACATCATACACTGAAGGACTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
43076 CCCGAAGGCTT
66 CCCGAAGGCTT
43087 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
43152 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
43163 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGCAGGTTTTGAAAACATCA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
43221 TGCACTGAAG
Statistics
Matches: 722, Mismatches: 14, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
75 222 0.31
76 500 0.69
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:42698 original size:151 final size:152
Alignment explanation
Indices: 42406--43220 Score: 1510
Period size: 151 Copynumber: 5.4 Consensus size: 152
42396 GATGGAAATG
* * * *
42406 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGGCCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
42471 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
42536 ATC-AAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
42557 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
42622 -CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
42686 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
42708 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42773 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
42838 ATCAAAAAGCT-CCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
*
42859 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACTCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42924 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
42989 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
* *
43011 TTTGGAAACATCATACACTGAAGGACTTACAGATGACCCAAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
43076 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
43141 ATCAAAAAGCTCCCGAAGGCTT
131 ATCAAAAAGCTCCCGAAGGCTT
* *
43163 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGCAGGTTTTGAAAACATCA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
43221 TGCACTGAAG
Statistics
Matches: 648, Mismatches: 13, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
150 67 0.10
151 294 0.45
152 287 0.44
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (152 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTT
Found at i:42892 original size:227 final size:227
Alignment explanation
Indices: 42406--43220 Score: 1515
Period size: 227 Copynumber: 3.6 Consensus size: 227
42396 GATGGAAATG
* * * *
42406 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGGCCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
*
42471 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
42536 ATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
42600 GCTTTGAAAACATCAAAAAGCTCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCGAAGGCTT
*
42632 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42697 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
42762 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
42827 GCTTTGAAAACATCAAAAAGCTCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCTCCGAAGGCTT
*
42859 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACTCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
42924 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
* *
42989 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATACACTGAAGGACTTACAGATGACCCAAAG
131 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
43054 GCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
196 GCTTTGAAAACATCAAAAAGCT-CCGAAGGCTT
43087 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
* *
43152 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGCAGGTTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
43217 ATCA
131 ATCA
43221 TGCACTGAAG
Statistics
Matches: 576, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
226 129 0.22
227 306 0.53
228 141 0.24
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (227 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAG
GCTTTGAAAACATCAAAAAGCTCCGAAGGCTT
Found at i:43226 original size:45 final size:45
Alignment explanation
Indices: 43152--43265 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
43142 TCAAAAAGCT
*
43152 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
* *
43199 CCCGCAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
*
43244 CCCGAAGGCTTTGAAAACATCA
1 CCCGAAGGTTTTGAAAACATCA
43266 AAAAGTTCCC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 55 0.89
47 7 0.11
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:43313 original size:88 final size:88
Alignment explanation
Indices: 43214--43549 Score: 561
Period size: 88 Copynumber: 4.0 Consensus size: 88
43204 AGGTTTTGAA
43214 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGTTCCCGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGTTCCCGAA
43279 GGCTTTTTGGAAACATCATTTTT
66 GGCTTTTTGGAAACATCATTTTT
*
43302 AACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGTTCCCGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGTTCCCGAA
*
43367 GGCTTTTTGGAAATATCATTTTT
66 GGCTTTTTGGAAACATCATTTTT
*
43390 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGTTCCCGAA
43455 GGCTTTTTGG-------A-----
66 GGCTTTTTGGAAACATCATTTTT
43466 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGTTCCCGAA
1 AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGTTCCCGAA
43531 GGCTTTTTGGAAACATCAT
66 GGCTTTTTGGAAACATCAT
43550 GCACTGGAGG
Statistics
Matches: 235, Mismatches: 5, Indels: 20
0.90 0.02 0.08
Matches are distributed among these distances:
76 74 0.31
81 1 0.00
83 1 0.00
88 159 0.68
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (88 bp):
AACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGTTCCCGAA
GGCTTTTTGGAAACATCATTTTT
Found at i:44274 original size:22 final size:22
Alignment explanation
Indices: 44249--44303 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
44239 CATAAAGTTT
*
44249 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
44271 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
44293 TCATCTTTGAA
1 TCATCTTTGAA
44304 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:44799 original size:54 final size:50
Alignment explanation
Indices: 44680--44814 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 50
44670 AAAACGTTTG
* * * *
44680 ACAATACATTCATCTTTTCCTGTGGTTTCTGTCGAGATGTAAAACACTTG
1 ACAACACATTCATCCTTTCCTGTGGCTTCTGTCGAGATGTAAAACACTTA
* * *
44730 ACAACACATTCATCCTTTCCTGTGGCTTCTGTTCAGATGTTCGTAAAATATTTA
1 ACAACACATTCATCCTTTCCTGTGGCTTCTG-TC-GA-GAT-GTAAAACACTTA
*
44784 ACAACACATTCATCCTTTCTTGTGGCTTCTG
1 ACAACACATTCATCCTTTCCTGTGGCTTCTG
44815 CCAAGATTTC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 28 0.38
51 2 0.03
52 2 0.03
53 2 0.03
54 39 0.53
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (50 bp):
ACAACACATTCATCCTTTCCTGTGGCTTCTGTCGAGATGTAAAACACTTA
Found at i:47211 original size:114 final size:114
Alignment explanation
Indices: 47011--47227 Score: 353
Period size: 114 Copynumber: 1.9 Consensus size: 114
47001 ATCATGCAGC
* * * * *
47011 TCATCTTTTAATTCCAATGATTGGTTATGTGGTTCCTACCGAACCAGATCAGATAACTCAAAGAA
1 TCATCTTTCAAATCCAATGATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
*
47076 TACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAAT
66 CACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAAT
*
47125 TCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
1 TCATCTTTCAAATCCAATGATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
* *
47190 CACTTCCAGAAGATGCTATTGGGTCTCTTTATTTCTAC
66 CACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTAC
47228 TACGAGAACA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (114 bp):
TCATCTTTCAAATCCAATGATTGGTTATGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCAAAT
Found at i:50773 original size:2 final size:2
Alignment explanation
Indices: 50766--50795 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50756 ACAACAAATG
50766 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
50796 TAAGGGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56521 original size:13 final size:13
Alignment explanation
Indices: 56503--56528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56493 CGTACTCCGC
56503 CGCCGGCCACCGT
1 CGCCGGCCACCGT
56516 CGCCGGCCACCGT
1 CGCCGGCCACCGT
56529 AAACGGTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.54, G:0.31, T:0.08
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:57240 original size:3 final size:3
Alignment explanation
Indices: 57234--57272 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
57224 ATTTTTTATT
57234 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
57273 AACAAAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:60174 original size:23 final size:23
Alignment explanation
Indices: 60107--60175 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
60097 ACATTTTATA
* *
60107 TGGCACTACGGTGCATTTCTACG
1 TGGCACTTCGGTGCATTTATACG
** * *
60130 CAGCACTTCGGTGCAATCATACG
1 TGGCACTTCGGTGCATTTATACG
*
60153 TGGCACTTTGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTATACG
60176 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTATACG
Found at i:60941 original size:38 final size:38
Alignment explanation
Indices: 60894--60987 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 38
60884 AAAATTTGTT
* * * * *
60894 GTCACAAATCACCAAGACTAGTGACAAAAACATTTATC
1 GTCAGAAATCACCAAGACTAATAAAAAAAACAATTATC
*
60932 GTCAGAAATCATCAACTAAGACTAATAAAAAAAACAATTATT
1 GTCAGAAATCA-C--C-AAGACTAATAAAAAAAACAATTATC
60974 GTCAGAAATCACCA
1 GTCAGAAATCACCA
60988 TCAAAGACTG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
38 11 0.24
39 2 0.04
41 2 0.04
42 31 0.67
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.21
Consensus pattern (38 bp):
GTCAGAAATCACCAAGACTAATAAAAAAAACAATTATC
Found at i:64009 original size:13 final size:13
Alignment explanation
Indices: 63991--64015 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63981 GAGCATAGAT
63991 GTATGAAGAAGAA
1 GTATGAAGAAGAA
64004 GTATGAAGAAGA
1 GTATGAAGAAGA
64016 TGAACAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (13 bp):
GTATGAAGAAGAA
Found at i:64243 original size:29 final size:31
Alignment explanation
Indices: 64187--64258 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 31
64177 TTCAACGTCC
*
64187 AAGTGACCAAAACTTAATAAAACGATAA-GT
1 AAGTGACCAAAACTTAAAAAAACGATAACGT
* **
64217 AA-TTACCAAAACTTAAAAAAATTATAACGT
1 AAGTGACCAAAACTTAAAAAAACGATAACGT
64247 AAGTGACCAAAA
1 AAGTGACCAAAA
64259 GTGTACAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 21 0.60
30 6 0.17
31 8 0.23
ACGTcount: A:0.56, C:0.14, G:0.10, T:0.21
Consensus pattern (31 bp):
AAGTGACCAAAACTTAAAAAAACGATAACGT
Found at i:64437 original size:31 final size:31
Alignment explanation
Indices: 64410--64469 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
64400 ACATCTTTAT
*
64410 TAAAACGAAATGAAAGTGACTAAATCTTAAC
1 TAAAACGAAACGAAAGTGACTAAATCTTAAC
*
64441 TAAAACGAAACGAAAATGA-TCAAATCTTA
1 TAAAACGAAACGAAAGTGACT-AAATCTTA
64470 TGTTTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.53, C:0.13, G:0.12, T:0.22
Consensus pattern (31 bp):
TAAAACGAAACGAAAGTGACTAAATCTTAAC
Found at i:70637 original size:33 final size:32
Alignment explanation
Indices: 70590--70701 Score: 161
Period size: 33 Copynumber: 3.4 Consensus size: 32
70580 TTTTAAACTT
70590 TATTTCAATTATCGAACTTGGAAGTTTTTAAG
1 TATTTCAATTATCGAACTTGGAAGTTTTTAAG
* *
70622 TATTTGAATTTATCGAACTTGGAAATTTTTAAG
1 TATTTCAA-TTATCGAACTTGGAAGTTTTTAAG
* * *
70655 TATTTGAATTTATCGATCTTGGAAGTATTTAAG
1 TATTTCAA-TTATCGAACTTGGAAGTTTTTAAG
70688 TATTTCAATTATCG
1 TATTTCAATTATCG
70702 TAAACTTTGT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
32 13 0.18
33 60 0.82
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (32 bp):
TATTTCAATTATCGAACTTGGAAGTTTTTAAG
Found at i:73845 original size:30 final size:30
Alignment explanation
Indices: 73779--73845 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 30
73769 ACGAAACGAG
*
73779 TTTAACGAGCATGAGTCGAGCAACAATTTT
1 TTTAACGAGCATGAGTCAAGCAACAATTTT
73809 TATTAACGAGCATGAGTCAAGCAA-AATTTT
1 T-TTAACGAGCATGAGTCAAGCAACAATTTT
73839 ATTTAAC
1 -TTTAAC
73846 TTAACGAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (30 bp):
TTTAACGAGCATGAGTCAAGCAACAATTTT
Found at i:80433 original size:25 final size:24
Alignment explanation
Indices: 80379--80440 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
80369 GTGGATTTTT
*
80379 ATAAAAAAATATTTGAAACTTTAA
1 ATAAAAAAATATTTGAAACTTCAA
80403 ATAAAAAAATTATTTGAAACTATCCAA
1 ATAAAAAAA-TATTTGAAACT-T-CAA
*
80430 A-AAAATAATAT
1 ATAAAAAAATAT
80441 AAATATTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 9 0.27
25 14 0.42
26 7 0.21
27 3 0.09
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (24 bp):
ATAAAAAAATATTTGAAACTTCAA
Found at i:80434 original size:24 final size:24
Alignment explanation
Indices: 80379--80425 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
80369 GTGGATTTTT
*
80379 ATAAAAAAATATTTGAAACTTTAA
1 ATAAAAAAATATTTGAAACTATAA
80403 ATAAAAAAATTATTTGAAACTAT
1 ATAAAAAAA-TATTTGAAACTAT
80426 CCAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (24 bp):
ATAAAAAAATATTTGAAACTATAA
Found at i:89533 original size:20 final size:21
Alignment explanation
Indices: 89505--89544 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
89495 TAAAAATAAT
*
89505 TAATATATTA-TTTTAAAAAA
1 TAATATATTACGTTTAAAAAA
*
89525 TAATGTATTACGTTTAAAAA
1 TAATATATTACGTTTAAAAA
89545 GTTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (21 bp):
TAATATATTACGTTTAAAAAA
Found at i:93796 original size:14 final size:15
Alignment explanation
Indices: 93777--93816 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
93767 TTTCTGTCTA
93777 TATGCAGAGATTT-T
1 TATGCAGAGATTTAT
*
93791 TATGCAGGGATTTAT
1 TATGCAGAGATTTAT
93806 T-TGCAGAGATT
1 TATGCAGAGATT
93817 ACTTCCCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (15 bp):
TATGCAGAGATTTAT
Found at i:93854 original size:13 final size:13
Alignment explanation
Indices: 93836--93860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93826 TATAAACACG
93836 CATATGAAGACTA
1 CATATGAAGACTA
93849 CATATGAAGACT
1 CATATGAAGACT
93861 GTTCAACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (13 bp):
CATATGAAGACTA
Found at i:93881 original size:4 final size:4
Alignment explanation
Indices: 93872--93902 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
93862 TTCAACTATG
93872 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
93903 ACATGCATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:94083 original size:11 final size:12
Alignment explanation
Indices: 94067--94095 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
94057 TTGTATTAGC
94067 TAAATAATATA-
1 TAAATAATATAT
94078 TAAATAATATAT
1 TAAATAATATAT
94090 TAAATA
1 TAAATA
94096 TTTAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAATAATATAT
Found at i:94545 original size:15 final size:14
Alignment explanation
Indices: 94499--94545 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
94489 ATACATTTAA
94499 ATTATTATAAAAAT-
1 ATTATTA-AAAAATG
*
94513 ATTTTTAAAAAATGG
1 ATTATTAAAAAAT-G
94528 ATTATTAAAAATATG
1 ATTATTAAAAA-ATG
94543 ATT
1 ATT
94546 TTTGTTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 14 0.50
16 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (14 bp):
ATTATTAAAAAATG
Found at i:97183 original size:28 final size:30
Alignment explanation
Indices: 97136--97216 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 30
97126 TTTTACTAAT
* * *
97136 ATTTTTTTAACATTTATTATTAAGGG-TCC
1 ATTTTTTTAATATTTGTTATTAAGGGCTCA
* *
97165 A-TTTTTTAATACTTGTTATTAGGGGCTCA
1 ATTTTTTTAATATTTGTTATTAAGGGCTCA
97194 ATTATTTTTAATATTTGTTATTA
1 ATT-TTTTTAATATTTGTTATTA
97217 GTAGTACTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
28 20 0.47
29 4 0.09
30 1 0.02
31 18 0.42
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.54
Consensus pattern (30 bp):
ATTTTTTTAATATTTGTTATTAAGGGCTCA
Found at i:97264 original size:19 final size:18
Alignment explanation
Indices: 97223--97265 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
97213 ATTAGTAGTA
97223 CTTTTTAAAATTTAGTTT
1 CTTTTTAAAATTTAGTTT
97241 CTTTTCTAAAATTTA-TTT
1 CTTTT-TAAAATTTAGTTT
*
97259 GTTTTTA
1 CTTTTTA
97266 TTACGAGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 12 0.52
19 9 0.39
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (18 bp):
CTTTTTAAAATTTAGTTT
Found at i:97294 original size:30 final size:28
Alignment explanation
Indices: 97260--97327 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 28
97250 AATTTATTTG
97260 TTTTTATTACG-AGTCTAATTGTTTTAATA
1 TTTTTATTA-GAAGT-TAATTGTTTTAATA
* *
97289 CTTTTTATTAGAAGTTCATTTTTTTAATA
1 -TTTTTATTAGAAGTTAATTGTTTTAATA
97318 TTTATTATTA
1 TTT-TTATTA
97328 TGAACATACT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 3 0.09
29 19 0.56
30 12 0.35
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTTTATTAGAAGTTAATTGTTTTAATA
Found at i:98630 original size:32 final size:33
Alignment explanation
Indices: 98584--98653 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
98574 ACAAAGTTTA
* * *
98584 CGAT-AATTGAAATAC-TAAATACTTTCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
98615 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
*
98648 TGATAA
1 CGATAA
98654 TTGAAACAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 4 0.12
32 10 0.30
33 19 0.58
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (33 bp):
CGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:101021 original size:37 final size:38
Alignment explanation
Indices: 100972--101044 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
100962 TTTTTAAACC
*
100972 CAAACCGA-TTTTT-TTCGGATAAAAAACCTGTTTTTTT
1 CAAACCGATTTTTTATTCGG-TAAAAAACCTGGTTTTTT
* *
101009 CAAACCGGTTTTTTATTCGGTAAAAAATCTGGTTTT
1 CAAACCGATTTTTTATTCGGTAAAAAACCTGGTTTT
101045 CCAATTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 7 0.23
38 19 0.61
39 5 0.16
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (38 bp):
CAAACCGATTTTTTATTCGGTAAAAAACCTGGTTTTTT
Found at i:103282 original size:3 final size:3
Alignment explanation
Indices: 103274--103306 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
103264 TTGTAAGAAT
103274 TAA TAA TAA T-A TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
103307 TTATTATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:103289 original size:8 final size:8
Alignment explanation
Indices: 103276--103318 Score: 59
Period size: 8 Copynumber: 5.2 Consensus size: 8
103266 GTAAGAATTA
103276 ATAATAAT
1 ATAATAAT
103284 ATAATAAT
1 ATAATAAT
103292 AATAATAAT
1 -ATAATAAT
*
103301 ATAATATT
1 ATAATAAT
*
103309 ATTATAAT
1 ATAATAAT
103317 AT
1 AT
103319 TTATAATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
8 23 0.74
9 8 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATAAT
Found at i:103290 original size:11 final size:11
Alignment explanation
Indices: 103274--103318 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
103264 TTGTAAGAAT
103274 TAATAATAATA
1 TAATAATAATA
103285 TAATAATAATAA
1 TAATAATAAT-A
103297 TAAT-ATAATA
1 TAATAATAATA
* *
103307 TTATTATAATA
1 TAATAATAATA
103318 T
1 T
103319 TTATAATGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 4 0.13
11 22 0.71
12 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATA
Found at i:103293 original size:14 final size:14
Alignment explanation
Indices: 103274--103317 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
103264 TTGTAAGAAT
103274 TAATAATAATATAA
1 TAATAATAATATAA
103288 TAATAATAATA-ATA
1 TAATAATAATATA-A
* *
103302 TAATATTATTATAA
1 TAATAATAATATAA
103316 TA
1 TA
103318 TTTATAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:103296 original size:17 final size:17
Alignment explanation
Indices: 103274--103306 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
103264 TTGTAAGAAT
103274 TAATAATAATATAATAA
1 TAATAATAATATAATAA
103291 TAATAATAATATAATA
1 TAATAATAATATAATA
103307 TTATTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATAATAATATAATAA
Found at i:103631 original size:43 final size:43
Alignment explanation
Indices: 103584--103737 Score: 141
Period size: 43 Copynumber: 3.5 Consensus size: 43
103574 GAATCTGTTT
* *
103584 CACTACTTTTCCCTGAAGATCAGATTCAAGGTTGATTTGCTTC
1 CACTACTCTTCCGTGAAGATCAGATTCAAGGTTGATTTGCTTC
* ** ** ** * *
103627 CACTACTCTTCCGTGGAGATTGGATTGACTTGGAAAGAATCTG-TTT
1 CACTACTCTTCCGTGAAGATCAGATT--CAAGG-TTG-ATTTGCTTC
*
103673 CACTACTCTTCCGTGCAGATCAGATT-AGAGGTTGATTTGCTTC
1 CACTACTCTTCCGTGAAGATCAGATTCA-AGGTTGATTTGCTTC
103716 CACTACTCTTCCGTGAAGATCA
1 CACTACTCTTCCGTGAAGATCA
103738 AATCTGCAAC
Statistics
Matches: 84, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
42 4 0.05
43 45 0.54
44 2 0.02
45 3 0.04
46 26 0.31
47 4 0.05
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (43 bp):
CACTACTCTTCCGTGAAGATCAGATTCAAGGTTGATTTGCTTC
Found at i:103693 original size:89 final size:89
Alignment explanation
Indices: 103533--103735 Score: 288
Period size: 89 Copynumber: 2.3 Consensus size: 89
103523 CTTGATTGCA
** * * *
103533 TTGCTT-CACTACTCTTTTGTGAATACTT-GATT-ACATGGAAAGAATCTGTTTCACTACTTTTC
1 TTGCTTCCACTACTCTTCCGTGAAGA-TTGGATTGACTTGGAAAGAATCTGTTTCACTACTCTTC
103595 CCTGAAGATCAGATTCA-AGGTTGAT
65 CCTGAAGATCAGATT-AGAGGTTGAT
*
103620 TTGCTTCCACTACTCTTCCGTGGAGATTGGATTGACTTGGAAAGAATCTGTTTCACTACTCTTCC
1 TTGCTTCCACTACTCTTCCGTGAAGATTGGATTGACTTGGAAAGAATCTGTTTCACTACTCTTCC
* *
103685 GTGCAGATCAGATTAGAGGTTGAT
66 CTGAAGATCAGATTAGAGGTTGAT
103709 TTGCTTCCACTACTCTTCCGTGAAGAT
1 TTGCTTCCACTACTCTTCCGTGAAGAT
103736 CAAATCTGCA
Statistics
Matches: 103, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
87 8 0.08
88 20 0.19
89 75 0.73
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.37
Consensus pattern (89 bp):
TTGCTTCCACTACTCTTCCGTGAAGATTGGATTGACTTGGAAAGAATCTGTTTCACTACTCTTCC
CTGAAGATCAGATTAGAGGTTGAT
Found at i:111519 original size:45 final size:46
Alignment explanation
Indices: 111434--111521 Score: 142
Period size: 45 Copynumber: 1.9 Consensus size: 46
111424 AAAAAGCCTA
* * *
111434 AGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCACTG
1 AGTGCATCAATGCATGGTCATGTGCATCGATGCATAAAATGCACTG
111480 AGTGCATCAATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 AGTGCATCAATGCATGGTCATGTGCATCGATGCATAAAATGCA
111522 TTCGATGTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 22 0.56
46 17 0.44
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (46 bp):
AGTGCATCAATGCATGGTCATGTGCATCGATGCATAAAATGCACTG
Found at i:111569 original size:20 final size:20
Alignment explanation
Indices: 111541--111579 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
111531 CAAGAAATTA
111541 ATTGATGCATCGATGCATGG
1 ATTGATGCATCGATGCATGG
* *
111561 ATTGGTGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
111580 CCCTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (20 bp):
ATTGATGCATCGATGCATGG
Found at i:111944 original size:19 final size:20
Alignment explanation
Indices: 111906--111945 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
111896 AAATCAATCA
*
111906 CTCCCCCTTACTATAACATTT
1 CTCCCCCTTA-TAAAACATTT
111927 CTCCCCCTT-TAAAACATTT
1 CTCCCCCTTATAAAACATTT
111946 TACACTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (20 bp):
CTCCCCCTTATAAAACATTT
Found at i:114262 original size:44 final size:44
Alignment explanation
Indices: 114179--114280 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
114169 AAACCCGACA
* * *
114179 GATGCATCGATGCATGACCATATGCATCGATGCACATTC-AAGG
1 GATGCATCGATGCATCAACATATGAATCGATGCACATTCAAAGG
* *
114222 CG-TGCATCGGTGCATCAACATGATGAATTGATGCACATTCAAAGG
1 -GATGCATCGATGCATCAACAT-ATGAATCGATGCACATTCAAAGG
114267 GATGCATCGATGCA
1 GATGCATCGATGCA
114281 CTGTTAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
43 16 0.33
44 18 0.37
45 15 0.31
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.24
Consensus pattern (44 bp):
GATGCATCGATGCATCAACATATGAATCGATGCACATTCAAAGG
Found at i:118154 original size:22 final size:21
Alignment explanation
Indices: 118112--118151 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
118102 GAGTTTGTTT
*
118112 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
118133 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
118152 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:125543 original size:7 final size:7
Alignment explanation
Indices: 125527--125586 Score: 66
Period size: 7 Copynumber: 8.6 Consensus size: 7
125517 GTAAGTATAA
*
125527 TTTAGTG
1 TTTAGGG
125534 TTTAGGG
1 TTTAGGG
125541 TTTAGGG
1 TTTAGGG
*
125548 TTTAGAG
1 TTTAGGG
*
125555 TTTATGG
1 TTTAGGG
*
125562 TTTAGGA
1 TTTAGGG
*
125569 TTTAAGG
1 TTTAGGG
*
125576 TTTAGAG
1 TTTAGGG
125583 TTTA
1 TTTA
125587 TTGCAATGAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:125567 original size:28 final size:28
Alignment explanation
Indices: 125533--125587 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
125523 ATAATTTAGT
* *
125533 GTTTAGGGTTTAGGGTTTAGAGTTTATG
1 GTTTAGGATTTAAGGTTTAGAGTTTATG
125561 GTTTAGGATTTAAGGTTTAGAGTTTAT
1 GTTTAGGATTTAAGGTTTAGAGTTTAT
125588 TGCAATGACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (28 bp):
GTTTAGGATTTAAGGTTTAGAGTTTATG
Found at i:125646 original size:11 final size:11
Alignment explanation
Indices: 125630--125692 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
125620 GTATTATAGA
125630 ATTTTTAATAT
1 ATTTTTAATAT
125641 ATTTTTAA-A-
1 ATTTTTAATAT
125650 ATTTTATAAT-T
1 ATTTT-TAATAT
*** * *
125661 ATCAATAGTGT
1 ATTTTTAATAT
125672 ATTTTTAATAT
1 ATTTTTAATAT
125683 ATTTTTAATA
1 ATTTTTAATA
125693 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:130502 original size:15 final size:15
Alignment explanation
Indices: 130484--130518 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
130474 TTTACTAATA
130484 GATAATATACAAGAT
1 GATAATATACAAGAT
130499 GATAATATACAAGAT
1 GATAATATACAAGAT
130514 GATAA
1 GATAA
130519 ATTACTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (15 bp):
GATAATATACAAGAT
Found at i:130846 original size:36 final size:36
Alignment explanation
Indices: 130806--130914 Score: 97
Period size: 36 Copynumber: 3.2 Consensus size: 36
130796 GTAGCGAGAT
130806 GAGCAAAAGTTTAATGAGCTTAACGAGCAACAAGTC
1 GAGCAAAAGTTTAATGAGCTTAACGAGCAACAAGTC
130842 GAGCAAAAAAG-TT--T---CTTAACGAGC-ACAAGTC
1 GAGC--AAAAGTTTAATGAGCTTAACGAGCAACAAGTC
* * * * *
130873 AAGTAAAATTTTAACGAGCTTAACGAGCAACGAGTC
1 GAGCAAAAGTTTAATGAGCTTAACGAGCAACAAGTC
*
130909 TAGCAA
1 GAGCAA
130915 CAAATTTTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
29 4 0.07
30 2 0.04
31 9 0.16
32 10 0.18
35 11 0.19
36 14 0.25
37 2 0.04
38 5 0.09
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (36 bp):
GAGCAAAAGTTTAATGAGCTTAACGAGCAACAAGTC
Found at i:130897 original size:67 final size:67
Alignment explanation
Indices: 130809--130958 Score: 212
Period size: 67 Copynumber: 2.2 Consensus size: 67
130799 GCGAGATGAG
* *
130809 CAAAAGTTTAATGAGCTTAACGAGCAACAAGTCGAGCAAAAAAGTTTCTTAACGAGCACAAGTC-
1 CAAAATTTTAACGAGCTTAACGAGCAACAAGTCGAGCAAAAAAGTTTCTTAACGAGCACAAGTCG
130873 AA
66 AA
* * * * * *
130875 GTAAAATTTTAACGAGCTTAACGAGCAACGAGTCTAGCAACAAATTTTCTTAACGAGCACGAGTC
1 -CAAAATTTTAACGAGCTTAACGAGCAACAAGTCGAGCAAAAAAGTTTCTTAACGAGCACAAGTC
130940 GAA
65 GAA
130943 CAAAATTTTAACGAGC
1 CAAAATTTTAACGAGC
130959 AATGAGTCGA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
67 71 0.97
68 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (67 bp):
CAAAATTTTAACGAGCTTAACGAGCAACAAGTCGAGCAAAAAAGTTTCTTAACGAGCACAAGTCG
AA
Found at i:130956 original size:26 final size:29
Alignment explanation
Indices: 130891--130968 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 29
130881 TTTTAACGAG
*
130891 CTTAACGAGCAACGAGTCTAGCAACAAATTTT
1 CTTAACGAGCAACGAGTC--G-AACAAATATT
130923 CTTAACGAGC-ACGAGTCGAACAAA-ATT
1 CTTAACGAGCAACGAGTCGAACAAATATT
*
130950 -TTAACGAGCAATGAGTCGA
1 CTTAACGAGCAACGAGTCGA
130969 GTTGAGAAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
26 9 0.21
27 10 0.23
28 6 0.14
29 1 0.02
31 7 0.16
32 10 0.23
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (29 bp):
CTTAACGAGCAACGAGTCGAACAAATATT
Found at i:132437 original size:13 final size:13
Alignment explanation
Indices: 132419--132448 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
132409 AGAGCACATT
132419 ATCACTATACTAA
1 ATCACTATACTAA
132432 ATCACTATACTAA
1 ATCACTATACTAA
132445 ATCA
1 ATCA
132449 AAATCAAATA
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:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (13 bp):
ATCACTATACTAA
Found at i:133629 original size:21 final size:21
Alignment explanation
Indices: 133587--133629 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
133577 TATTAAGCCG
***
133587 AAATTGTAAATTTTAGTGATT
1 AAATTGTAAATTTTAAAAATT
*
133608 AAATTGTAATTTTTAAAAATT
1 AAATTGTAAATTTTAAAAATT
133629 A
1 A
133630 TAAAGGGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (21 bp):
AAATTGTAAATTTTAAAAATT
Found at i:135671 original size:24 final size:24
Alignment explanation
Indices: 135633--135685 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
135623 TTATTATGTT
*
135633 AGTGCAAACAGGCAC-TCTTGTATG
1 AGTGCAAACAGGCACTTC-TGTATC
* *
135657 AGTGCAAATATGCACTTCTGTATC
1 AGTGCAAACAGGCACTTCTGTATC
135681 AGTGC
1 AGTGC
135686 CTTCGTGCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AGTGCAAACAGGCACTTCTGTATC
Found at i:136724 original size:2 final size:2
Alignment explanation
Indices: 136719--136750 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
136709 CGTTAATAGT
*
136719 TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
136751 ACAACTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:136877 original size:2 final size:2
Alignment explanation
Indices: 136870--136896 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
136860 ATCAAAGTAA
136870 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
136897 AATAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:136929 original size:16 final size:16
Alignment explanation
Indices: 136893--136923 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
136883 TATATATATA
136893 TATAAATAAAATAAAG
1 TATAAATAAAATAAAG
*
136909 TATAAATGAAATAAA
1 TATAAATAAAATAAA
136924 TAATAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (16 bp):
TATAAATAAAATAAAG
Found at i:137455 original size:32 final size:32
Alignment explanation
Indices: 137419--137481 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
137409 AAACCTATTT
137419 TAGACTAGTATTTGAGTCCTAATCCAACTCTA
1 TAGACTAGTATTTGAGTCCTAATCCAACTCTA
137451 TAGACTAGTATTTGAGTCCTAATCCAACTCT
1 TAGACTAGTATTTGAGTCCTAATCCAACTCT
137482 TCTTTGTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (32 bp):
TAGACTAGTATTTGAGTCCTAATCCAACTCTA
Found at i:138064 original size:109 final size:109
Alignment explanation
Indices: 137934--138162 Score: 413
Period size: 109 Copynumber: 2.1 Consensus size: 109
137924 ATCCAATACA
*
137934 AGTTGAAATCGACTCTGAAATTGGGAAGTTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAG
1 AGTTGAAATCGACTCTGAAATTGGGAAGTTGTTTGTCGACAACCAACCGTCCCTTCGTTGTGAAG
*
137999 TTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCTTGG
66 TTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGG
* *
138043 AGTTGAAATCGGCTCTGAAATTGGGAAGTTGTTTGTCGACAACCAGCCGTCCCTTCGTTGTGAAG
1 AGTTGAAATCGACTCTGAAATTGGGAAGTTGTTTGTCGACAACCAACCGTCCCTTCGTTGTGAAG
138108 TTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGG
66 TTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGG
*
138152 GGTTGAAATCG
1 AGTTGAAATCG
138163 CAGATGACCC
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 115 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (109 bp):
AGTTGAAATCGACTCTGAAATTGGGAAGTTGTTTGTCGACAACCAACCGTCCCTTCGTTGTGAAG
TTGAACTTGTGTTGTCTCGGGTAGCACGATATCCTCCGTCGTGG
Found at i:139103 original size:20 final size:20
Alignment explanation
Indices: 139058--139103 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
139048 ACCCACCTTA
139058 TTTTTTGTTCTTTCTCTTTT
1 TTTTTTGTTCTTTCTCTTTT
* *
139078 TCTTTTGTTCTTT-TGTTCTT
1 TTTTTTGTTCTTTCTCTT-TT
139098 TTTTTT
1 TTTTTT
139104 AATTTTTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTTTGTTCTTTCTCTTTT
Found at i:144128 original size:7 final size:7
Alignment explanation
Indices: 144116--144140 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
144106 ATATTCATTT
144116 TTTTTCA
1 TTTTTCA
144123 TTTTTCA
1 TTTTTCA
144130 TTTTTCA
1 TTTTTCA
144137 TTTT
1 TTTT
144141 ATTTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:144154 original size:3 final size:3
Alignment explanation
Indices: 144146--144214 Score: 59
Period size: 3 Copynumber: 23.3 Consensus size: 3
144136 ATTTTATTTA
* * * * * *
144146 TAT TAT TAT TAT TAT AAA TAT TAT TAT TAT AAT TAT AAT TAT AAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
144194 AAT TAT TAT TAA TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
144215 TAATATTACA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (3 bp):
TAT
Found at i:144167 original size:15 final size:15
Alignment explanation
Indices: 144149--144214 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
144139 TTATTTATAT
144149 TATTATTATTATAAA
1 TATTATTATTATAAA
*
144164 TATTATTATTATAAT
1 TATTATTATTATAAA
* *
144179 TATAATTATAAT-AA
1 TATTATTATTATAAA
*
144193 TAATTATTATTA-ATA
1 T-ATTATTATTATAAA
144208 TATTATT
1 TATTATT
144215 TAATATTACA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 8 0.19
15 34 0.81
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATTATTATAAA
Found at i:144636 original size:21 final size:21
Alignment explanation
Indices: 144611--144666 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
144601 CAAGAAAGAC
144611 AGAGACAGAGACAGAGACAAA
1 AGAGACAGAGACAGAGACAAA
*
144632 AGAGACAGAGACAGAGAGAAA
1 AGAGACAGAGACAGAGACAAA
144653 AGAG--AGAGACAGAG
1 AGAGACAGAGACAGAG
144667 CCGGAGAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 10 0.29
21 24 0.71
ACGTcount: A:0.55, C:0.11, G:0.34, T:0.00
Consensus pattern (21 bp):
AGAGACAGAGACAGAGACAAA
Found at i:144666 original size:6 final size:6
Alignment explanation
Indices: 144607--144648 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
144597 CGAGCAAGAA
144607 AGACAG AGACAG AGACAG AGACA- A-A-AG AGACAG AGACAG AGA
1 AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGA
144649 GAAAAGAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 1 0.03
4 2 0.06
5 2 0.06
6 28 0.85
ACGTcount: A:0.55, C:0.14, G:0.31, T:0.00
Consensus pattern (6 bp):
AGACAG
Found at i:145650 original size:13 final size:13
Alignment explanation
Indices: 145634--145680 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
145624 ATATAATAAA
145634 TAAATATTTATTT
1 TAAATATTTATTT
*
145647 TAAATAAATTATTT
1 TAAAT-ATTTATTT
145661 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
145674 TCAATAT
1 TAAATAT
145681 CAAAGAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:157367 original size:16 final size:16
Alignment explanation
Indices: 157341--157385 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
157331 TTTGAATACA
*
157341 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
157358 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
157373 ATTCAATTTATTT
1 ATTCAATTTATTT
157386 TTGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:158273 original size:83 final size:83
Alignment explanation
Indices: 158134--158893 Score: 1376
Period size: 83 Copynumber: 9.2 Consensus size: 83
158124 GAATAAGTGC
*
158134 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAATCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
158199 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
158217 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
*
158282 CATTGAATTTAGAAGATG
66 CATTGAATTTGGAAGATG
*
158300 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
158365 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* *
158383 AATTTGCTAATAGCATCTTCTGGAAGTGCTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
158448 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* *
158466 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGACATAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
*
158531 CATTGAATTTGGATGATG
66 CATTGAATTTGGAAGATG
* * *
158549 AATTTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATATGGCTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
158614 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
158632 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
*
158697 CATTGAATTTGAAAGATG
66 CATTGAATTTGGAAGATG
* *
158715 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
158780 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
158798 AATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
158863 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
158881 AATTTGCTCATAG
1 AATTTGCTCATAG
158894 TAGAAATAAA
Statistics
Matches: 654, Mismatches: 23, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 654 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (83 bp):
AATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
CATTGAATTTGGAAGATG
Found at i:159873 original size:113 final size:113
Alignment explanation
Indices: 159675--160128 Score: 723
Period size: 113 Copynumber: 4.0 Consensus size: 113
159665 TAGCAAAGAT
*
159675 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
159740 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
159788 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
159853 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * *
159901 TCAGATCCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAA--C-TCATC
* *
159966 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTTC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
160017 TCAAATCTATCACTTGATGGAGCAGCTTTTCCAG--AGAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAG-AGTTCATAATGAGAAGAACTCATCTG
* * *
160080 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
160129 ATAATTCTAT
Statistics
Matches: 316, Mismatches: 21, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
112 51 0.16
113 163 0.52
114 2 0.01
115 19 0.06
116 81 0.26
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:160434 original size:3 final size:3
Alignment explanation
Indices: 160414--160488 Score: 75
Period size: 3 Copynumber: 25.7 Consensus size: 3
160404 TTTTCATTTT
* * *
160414 TTA TT- TTA TT- TATA TTA TTA TTA TTA TAA TAA TTA TTA TTA TAA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
160458 TTA TAA TTA TAA TTA TTA TTA TTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
160489 TAATATTACA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
2 5 0.08
3 54 0.90
4 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:160910 original size:21 final size:21
Alignment explanation
Indices: 160885--160940 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
160875 CAAGAAAGAC
*
160885 AGAGACAGAGATAGAGACAAA
1 AGAGACAGAGACAGAGACAAA
*
160906 AGAGACAGAGACAGAGAGAAA
1 AGAGACAGAGACAGAGACAAA
160927 AGAG--AGAGACAGAG
1 AGAGACAGAGACAGAG
160941 CCGGAGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.30
21 23 0.70
ACGTcount: A:0.55, C:0.09, G:0.34, T:0.02
Consensus pattern (21 bp):
AGAGACAGAGACAGAGACAAA
Found at i:160940 original size:6 final size:6
Alignment explanation
Indices: 160881--160922 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
160871 CGAGCAAGAA
*
160881 AGACAG AGACAG AGATAG AGACA- A-A-AG AGACAG AGACAG AGA
1 AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGACAG AGA
160923 GAAAAGAGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
3 1 0.03
4 2 0.06
5 2 0.06
6 26 0.84
ACGTcount: A:0.55, C:0.12, G:0.31, T:0.02
Consensus pattern (6 bp):
AGACAG
Found at i:161914 original size:13 final size:13
Alignment explanation
Indices: 161898--161944 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
161888 ATATAATAAA
161898 TAAATATTTATTT
1 TAAATATTTATTT
*
161911 TAAATAAATTATTT
1 TAAAT-ATTTATTT
161925 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
161938 TCAATAT
1 TAAATAT
161945 CAAAGAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:165437 original size:13 final size:13
Alignment explanation
Indices: 165419--165443 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
165409 GTGAACCAGT
165419 TGAGCCGACCGAC
1 TGAGCCGACCGAC
165432 TGAGCCGACCGA
1 TGAGCCGACCGA
165444 GCCGATCAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.36, G:0.32, T:0.08
Consensus pattern (13 bp):
TGAGCCGACCGAC
Found at i:165448 original size:22 final size:22
Alignment explanation
Indices: 165420--165461 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
165410 TGAACCAGTT
*
165420 GAGCCGACCGACTGAGCCGACC
1 GAGCCGACCAACTGAGCCGACC
*
165442 GAGCCGATCAACTGAGCCGA
1 GAGCCGACCAACTGAGCCGA
165462 TCGATCGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.36, G:0.31, T:0.07
Consensus pattern (22 bp):
GAGCCGACCAACTGAGCCGACC
Found at i:165494 original size:13 final size:13
Alignment explanation
Indices: 165472--165507 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
165462 TCGATCGAGA
165472 TGACCGAGCCGAT
1 TGACCGAGCCGAT
*
165485 TGACCTAGCCGAT
1 TGACCGAGCCGAT
*
165498 CGACCGAGCC
1 TGACCGAGCC
165508 AACCAAGCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (13 bp):
TGACCGAGCCGAT
Found at i:165495 original size:35 final size:35
Alignment explanation
Indices: 165419--165505 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
165409 GTGAACCAGT
* * **
165419 TGAGCCGACCGACTGAGCCGACCGAGCCGATCAAC
1 TGAGCCGATCGACCGAGATGACCGAGCCGATCAAC
* * *
165454 TGAGCCGATCGATCGAGATGACCGAGCCGATTGACC
1 TGAGCCGATCGACCGAGATGACCGAGCCGA-TCAAC
165490 T-AGCCGATCGACCGAG
1 TGAGCCGATCGACCGAG
165506 CCAACCAAGC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 39 0.91
36 4 0.09
ACGTcount: A:0.25, C:0.32, G:0.30, T:0.13
Consensus pattern (35 bp):
TGAGCCGATCGACCGAGATGACCGAGCCGATCAAC
Found at i:165555 original size:14 final size:14
Alignment explanation
Indices: 165533--165577 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
165523 GCCGATTGAG
* *
165533 CCGCTTGGACTGGA
1 CCGCCTGGACCGGA
165547 CCGCCTGGACCGGA
1 CCGCCTGGACCGGA
*
165561 CCACCTGGACCGGA
1 CCGCCTGGACCGGA
165575 CCG
1 CCG
165578 AACCACCTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.16, C:0.40, G:0.33, T:0.11
Consensus pattern (14 bp):
CCGCCTGGACCGGA
Found at i:165575 original size:19 final size:19
Alignment explanation
Indices: 165553--165596 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
165543 TGGACCGCCT
*
165553 GGACCGGACCACCTGGACC
1 GGACCGAACCACCTGGACC
165572 GGACCGAACCACCTGGACC
1 GGACCGAACCACCTGGACC
*
165591 GAACCG
1 GGACCG
165597 TTGACCGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.41, G:0.30, T:0.05
Consensus pattern (19 bp):
GGACCGAACCACCTGGACC
Found at i:166923 original size:18 final size:18
Alignment explanation
Indices: 166897--166931 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
166887 TCGAAAGGAC
*
166897 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
166915 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
166932 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:171371 original size:10 final size:10
Alignment explanation
Indices: 171356--171389 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
171346 AGTTAGTAAG
171356 ATAAAAATAA
1 ATAAAAATAA
*
171366 ATAAAAATAG
1 ATAAAAATAA
171376 ATAAAAA-AA
1 ATAAAAATAA
171385 ATAAA
1 ATAAA
171390 TGGAAAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:171765 original size:13 final size:13
Alignment explanation
Indices: 171747--171783 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
171737 CACTTAAAAT
171747 GGGTTTGGAGCTC
1 GGGTTTGGAGCTC
171760 GGGTTTGGAGCTC
1 GGGTTTGGAGCTC
*
171773 GGGTTTAGAGC
1 GGGTTTGGAGC
171784 CTTAGATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.11, C:0.14, G:0.46, T:0.30
Consensus pattern (13 bp):
GGGTTTGGAGCTC
Found at i:173362 original size:35 final size:35
Alignment explanation
Indices: 173323--173394 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
173313 CTAAAAAAAC
*
173323 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTCTAGACTAGTATTTGAGTCCTAATCCAACT
173358 CTATTCTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTCTAGACTAGTATTTGAGTCCTAATCCAACT
173393 CT
1 CT
173395 TCTTTGTTGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (35 bp):
CTATTCTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:188805 original size:24 final size:23
Alignment explanation
Indices: 188773--188821 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
188763 AGTTTATTTT
*
188773 AATATATAAAATTATCAATAAATA
1 AATACATAAAATTAT-AATAAATA
* *
188797 AATACATAATATTATAATATATA
1 AATACATAAAATTATAATAAATA
188820 AA
1 AA
188822 AAAATAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AATACATAAAATTATAATAAATA
Done.