Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 93 of 105
Found at i:16496018 original size:21 final size:21
Alignment explanation
Indices: 16495975--16496018 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
16495965 AAACTGAAGA
*
16495975 ATATGAGGTCAGTAACAGTGG
1 ATATGAGGTCAGTAACAGAGG
*
16495996 ATATGAGGTCAGTAACGGAGG
1 ATATGAGGTCAGTAACAGAGG
16496017 AT
1 AT
16496019 CCTACCTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.34, T:0.23
Consensus pattern (21 bp):
ATATGAGGTCAGTAACAGAGG
Found at i:16500073 original size:16 final size:16
Alignment explanation
Indices: 16500052--16500085 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16500042 TATTTTACTA
16500052 TTAAAA-ATTAAAATAT
1 TTAAAATATT-AAATAT
16500068 TTAAAATATTAAATAT
1 TTAAAATATTAAATAT
16500084 TT
1 TT
16500086 TAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATTAAATAT
Found at i:16501297 original size:30 final size:30
Alignment explanation
Indices: 16501263--16501348 Score: 88
Period size: 30 Copynumber: 2.8 Consensus size: 30
16501253 TGTTAAGGGT
*
16501263 TTATTTAAGTAAAAATTAAAAGTTAAAT-AC
1 TTATTT-AGTAAAAATTAAAAATTAAATGAC
*
16501293 TTATTT-GTATATAAATTAAAAATT-AATGGC
1 TTATTTAGTA-A-AAATTAAAAATTAAATGAC
*
16501323 TTAGTTAGATAAAAATTAAAAATTAA
1 TTATTTAG-TAAAAATTAAAAATTAA
16501349 GAATTTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
28 3 0.06
29 4 0.09
30 35 0.74
31 3 0.06
32 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.38
Consensus pattern (30 bp):
TTATTTAGTAAAAATTAAAAATTAAATGAC
Found at i:16503489 original size:3 final size:3
Alignment explanation
Indices: 16503481--16503528 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
16503471 ATTTTAAAAC
*
16503481 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16503529 GTATAAGCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:16504478 original size:5 final size:5
Alignment explanation
Indices: 16504468--16504497 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
16504458 TTTTAAGTTG
16504468 TTATA TTATA TTATA TT-TA TTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA T
16504498 ATAAGCTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:16504490 original size:14 final size:14
Alignment explanation
Indices: 16504471--16504497 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16504461 TAAGTTGTTA
16504471 TATTATATTATATT
1 TATTATATTATATT
16504485 TATTATATTATAT
1 TATTATATTATAT
16504498 ATAAGCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTATATTATATT
Found at i:16506045 original size:23 final size:25
Alignment explanation
Indices: 16505994--16506045 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
16505984 CCTTATCAAG
16505994 TTTTCTTTCTTTTGTTTACACTAT-
1 TTTTCTTTCTTTTGTTTACACTATC
* * *
16506018 TTTTTTTTTTTTTGTTTA-ATTATC
1 TTTTCTTTCTTTTGTTTACACTATC
16506042 TTTT
1 TTTT
16506046 AATGGGGGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTCTTTCTTTTGTTTACACTATC
Found at i:16507487 original size:67 final size:68
Alignment explanation
Indices: 16507355--16507494 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 68
16507345 TCATGTCTTG
*
16507355 AAGAAAGGAAACAAACCACATGTTGTTGATATCATTGGGTTTTGATTTCTCATCTCTAGAGTTAA
1 AAGAAAGGAAACAAACCACATGTTGTTG--A--ATTGGGTTTTGATTTCTCATCTCTAGAATTAA
*
16507420 TTTAAGT
62 TTGAAGT
* * *
16507427 AAGAAAGGCAACAAATCACATGTTGTTG-ATTGGGTTTTGATTTCTTATCTCTAGAATTAATTGA
1 AAGAAAGGAAACAAACCACATGTTGTTGAATTGGGTTTTGATTTCTCATCTCTAGAATTAATTGA
16507491 AGT
66 AGT
16507494 A
1 A
16507495 GGATATCATT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
67 37 0.59
72 26 0.41
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (68 bp):
AAGAAAGGAAACAAACCACATGTTGTTGAATTGGGTTTTGATTTCTCATCTCTAGAATTAATTGA
AGT
Found at i:16508668 original size:15 final size:15
Alignment explanation
Indices: 16508650--16508680 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16508640 GGTGACGAAA
*
16508650 ATGATGATGATAATG
1 ATGATGATGAGAATG
16508665 ATGATGATGAGAATG
1 ATGATGATGAGAATG
16508680 A
1 A
16508681 GGGGGCGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
ATGATGATGAGAATG
Found at i:16511939 original size:2 final size:2
Alignment explanation
Indices: 16511927--16511987 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
16511917 AACAAGGCAA
*
16511927 TC TC GC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16511969 TC TC -C TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
16511988 AAAGCTATAG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.00, C:0.51, G:0.02, T:0.48
Consensus pattern (2 bp):
TC
Found at i:16515698 original size:17 final size:17
Alignment explanation
Indices: 16515671--16515703 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
16515661 CTTAATTTTA
16515671 ATAATTAAAATTTAAATC
1 ATAATTAAAA-TTAAATC
16515689 ATAA-TAAAATTAAAT
1 ATAATTAAAATTAAAT
16515704 AAAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAATTAAAATTAAATC
Found at i:16516088 original size:31 final size:31
Alignment explanation
Indices: 16516050--16516120 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
16516040 CAATTATATA
16516050 TTTTTATTCAATT-AAGTCTTTAAATATGTAT
1 TTTTTATTCAATTAAAGTCTTT-AATATGTAT
* *
16516081 TTTTTATTCAATTAAATTCTTTAATATTTAT
1 TTTTTATTCAATTAAAGTCTTTAATATGTAT
*
16516112 TTTTAATTC
1 TTTTTATTC
16516121 CACACAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 29 0.81
32 7 0.19
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTTTATTCAATTAAAGTCTTTAATATGTAT
Found at i:16516758 original size:17 final size:17
Alignment explanation
Indices: 16516738--16516770 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16516728 TAAGGAGTAT
16516738 AAAATTATAAGTATAAA
1 AAAATTATAAGTATAAA
*
16516755 AAAATTATAATTATAA
1 AAAATTATAAGTATAA
16516771 TCAAGTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATTATAAGTATAAA
Found at i:16516820 original size:17 final size:17
Alignment explanation
Indices: 16516798--16516859 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
16516788 TATTAAAAAT
*
16516798 AATTAAATCAATTGATA
1 AATTAAATCAATTAATA
* *
16516815 AATTAAAACATAATTAAAAA
1 AATTAAATC--AATT-AATA
16516835 TAATTAAATCAATTAATA
1 -AATTAAATCAATTAATA
16516853 AATTAAA
1 AATTAAA
16516860 ACATAATTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 15 0.42
18 3 0.08
19 8 0.22
20 2 0.06
21 8 0.22
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (17 bp):
AATTAAATCAATTAATA
Found at i:16516831 original size:38 final size:38
Alignment explanation
Indices: 16516784--16516868 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
16516774 AGTATTATAT
*
16516784 CATATATTAAAAATAATTAAATCAATTGATAAATTAAAA
1 CATA-ATTAAAAATAATTAAATCAATTAATAAATTAAAA
16516823 CATAATTAAAAATAATTAAATCAATTAATAAATTAAAA
1 CATAATTAAAAATAATTAAATCAATTAATAAATTAAAA
16516861 CATAATTA
1 CATAATTA
16516869 GATAAATCCA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 41 0.91
39 4 0.09
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (38 bp):
CATAATTAAAAATAATTAAATCAATTAATAAATTAAAA
Found at i:16516867 original size:19 final size:19
Alignment explanation
Indices: 16516807--16516875 Score: 72
Period size: 19 Copynumber: 3.6 Consensus size: 19
16516797 TAATTAAATC
*
16516807 AATTGATAAATTAAAACAT
1 AATTAATAAATTAAAACAT
16516826 AATTAA-AAA-TAATTAA-AT
1 AATTAATAAATTAA--AACAT
16516844 CAATTAATAAATTAAAACAT
1 -AATTAATAAATTAAAACAT
16516864 AATTAGATAAAT
1 AATTA-ATAAAT
16516876 CCAATATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
17 3 0.07
18 5 0.12
19 20 0.48
20 11 0.26
21 3 0.07
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (19 bp):
AATTAATAAATTAAAACAT
Found at i:16517605 original size:31 final size:31
Alignment explanation
Indices: 16517570--16517630 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
16517560 GTGTGTGAAT
* * *
16517570 TTGATTGTTTAATTAA-ATTATAATTTATTAA
1 TTGATTATTTAA-TAATATAATAATTAATTAA
16517601 TTGATTATTTAATAATATAATAATTAATTA
1 TTGATTATTTAATAATATAATAATTAATTA
16517631 TATAAATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (31 bp):
TTGATTATTTAATAATATAATAATTAATTAA
Found at i:16517648 original size:21 final size:19
Alignment explanation
Indices: 16517618--16517661 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
16517608 TTTAATAATA
16517618 TAATAATTAATTATATAAATG
1 TAATAATTAA-T-TATAAATG
*
16517639 TAATATTTAATTATAAATG
1 TAATAATTAATTATAAATG
16517658 TAAT
1 TAAT
16517662 TTTCAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.55
20 1 0.05
21 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
TAATAATTAATTATAAATG
Found at i:16517673 original size:19 final size:19
Alignment explanation
Indices: 16517632--16517674 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16517622 AATTAATTAT
**
16517632 ATAAATGTAATATTTAATT
1 ATAAATGTAATATTTAAAA
16517651 ATAAATGTAAT-TTTCAAAA
1 ATAAATGTAATATTT-AAAA
16517670 ATAAA
1 ATAAA
16517675 ATAATACATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (19 bp):
ATAAATGTAATATTTAAAA
Found at i:16519241 original size:22 final size:22
Alignment explanation
Indices: 16519209--16519250 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16519199 TTTGATTATT
16519209 TCAAAACAAAAATAA-TAAAAGA
1 TCAAAACAAAAA-AATTAAAAGA
*
16519231 TCAAAAGAAAAAAATTAAAA
1 TCAAAACAAAAAAATTAAAA
16519251 AGATTGGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (22 bp):
TCAAAACAAAAAAATTAAAAGA
Found at i:16525399 original size:30 final size:30
Alignment explanation
Indices: 16525343--16525399 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
16525333 AACCAACTCT
* *
16525343 CTTTTCTTCTTTTTTTCTCTACTTTTTTGG
1 CTTTTCTTCTTTTCTACTCTACTTTTTTGG
*
16525373 CTTTTCTTCTTTCTCTACT-TAGTTTTT
1 CTTTTCTTCTTT-TCTACTCTACTTTTT
16525400 GACACCCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.05, C:0.21, G:0.05, T:0.68
Consensus pattern (30 bp):
CTTTTCTTCTTTTCTACTCTACTTTTTTGG
Found at i:16526680 original size:17 final size:18
Alignment explanation
Indices: 16526654--16526695 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
16526644 ATTATCTAAG
16526654 AAAT-TTTTAAA-TGAGA
1 AAATATTTTAAAGTGAGA
16526670 AAATATTTTAAAGTGAGA
1 AAATATTTTAAAGTGAGA
16526688 AAATATTT
1 AAATATTT
16526696 CTAATTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.17
17 7 0.29
18 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (18 bp):
AAATATTTTAAAGTGAGA
Found at i:16528558 original size:61 final size:60
Alignment explanation
Indices: 16528484--16528718 Score: 296
Period size: 61 Copynumber: 3.9 Consensus size: 60
16528474 CATTTGGAGG
* *
16528484 TTTTTATTTTAAGAAAAATTGATATTTTCAACTTTTCCTTAAAATATTTTTTATTCTGAAA
1 TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTT-TTCTGAAA
* *
16528545 TTTTAATTTTAAGAAAAATTGATACTTTCAATTTTTCCTTAAAA-A-TGTTTTTCTTGATAA
1 TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTC-TGA-AA
* * * * *
16528605 TTTTTATTTTTAAGAAAAATTGGTACTTCCAACTTTTCCTCAAAATATTTTTTTTTTTGAAA
1 -TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATA-TTTTTTTTCTGAAA
* *
16528667 TTTTAATTTCAAGAAAAATTGATACTTTCAACTTTT-CTTCAAAATACTTTTT
1 TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTT-AAAATATTTTTT
16528719 GAAAAATTTT
Statistics
Matches: 150, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
58 3 0.02
59 7 0.05
60 10 0.07
61 118 0.79
62 3 0.02
63 3 0.02
64 6 0.04
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.51
Consensus pattern (60 bp):
TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTCTGAAA
Found at i:16528718 original size:122 final size:124
Alignment explanation
Indices: 16528484--16528841 Score: 388
Period size: 122 Copynumber: 2.9 Consensus size: 124
16528474 CATTTGGAGG
* * *
16528484 TTTTTA-TTTTAAGAAAAATTGATATTTTCAACTTTTCCTTAAAATATTTTTTATTCTGAAATTT
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTTTTGAAATTT
* * * *
16528548 TAATTTTAAGAAAAATTGATACTTTCAATTTTTCCTTAAAAATGTTTTT-CTTGA-T-AA
66 TAATTTCAAGAAAAATTGATACTTTCAACTTTT-CTTCAAAATCTTTTTACTTGATTAAA
* * *
16528605 TTTTTATTTTTAAGAAAAATTGGTACTTCCAACTTTTCCTCAAAATATTTTTTTTTTTGAAATTT
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTTTTGAAATTT
* *
16528670 TAATTTCAAGAAAAATTGATACTTTCAACTTTTCTTCAAAATACTTTTTGAAAAATTTTATTTTA
66 TAATTTCAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAT-CTTTTT-----ACTTGA--TTA
16528735 GAA
123 -AA
* * * * *
16528738 ATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTTAAAA-A--TATATTTTTGAAAATT
1 TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTTTTG-AAATT
* * *
16528800 TTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAA
65 TTAATTTCAAGAAAAATTGATACTTTCAACTTTTCTTCAAAA
16528842 ACACCTTTTT
Statistics
Matches: 200, Mismatches: 23, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
121 14 0.07
122 88 0.44
128 3 0.01
130 8 0.04
131 45 0.22
132 1 0.00
133 41 0.20
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (124 bp):
TTTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTTTTGAAATTT
TAATTTCAAGAAAAATTGATACTTTCAACTTTTCTTCAAAATCTTTTTACTTGATTAAA
Found at i:16528799 original size:59 final size:58
Alignment explanation
Indices: 16528728--16528842 Score: 185
Period size: 59 Copynumber: 2.0 Consensus size: 58
16528718 TGAAAAATTT
* *
16528728 TATTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTTAAAAATA
1 TATTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA
* *
16528786 TATTTTTGAAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA
1 TATTTTAG-AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA
16528843 CACCTTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 7 0.13
59 45 0.87
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.45
Consensus pattern (58 bp):
TATTTTAGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA
Found at i:16528851 original size:59 final size:59
Alignment explanation
Indices: 16528736--16528856 Score: 179
Period size: 59 Copynumber: 2.1 Consensus size: 59
16528726 TTTATTTTAG
* * * *
16528736 AAATTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTTAAAAATATATTTTTGA
1 AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACACATTTTTGA
* * *
16528795 AAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAACACCTTTTTTA
1 AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACACATTTTTGA
16528854 AAA
1 AAA
16528857 AATTTTTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (59 bp):
AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACACATTTTTGA
Found at i:16529890 original size:12 final size:13
Alignment explanation
Indices: 16529850--16529890 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
16529840 AAAATCATAT
16529850 AAAATAAATAA-A
1 AAAATAAATAATA
* *
16529862 TAAATAAATAATG
1 AAAATAAATAATA
16529875 AAAATAAA-AATA
1 AAAATAAATAATA
16529887 AAAA
1 AAAA
16529891 ATGGGCCCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAATAAATAATA
Found at i:16530183 original size:41 final size:42
Alignment explanation
Indices: 16530110--16530296 Score: 161
Period size: 42 Copynumber: 4.5 Consensus size: 42
16530100 AGGCTCAACG
* *
16530110 ACTTTGAAAAACATAAAT-GCTCTTCTAAATAGAGGT-TCAACA
1 ACTTTGAAAAA-ATAAATAACTCCTCTAAATAGAGGTATCAA-A
* *
16530152 ACTTT-AGAAAATAAATTACTCCTCTAAATAGAGGTAAT-AAA
1 ACTTTGAAAAAATAAATAACTCCTCTAAATAGAGGT-ATCAAA
** * * *
16530193 ACTTTGAAAAAATAAATGGCTCATCTGAATAGAGGTAACAAA
1 ACTTTGAAAAAATAAATAACTCCTCTAAATAGAGGTATCAAA
* * * *
16530235 ACTTTGAAAAAATAAATGAAGCTCCTCTAAACAAAGG-CTCAACG
1 ACTTTGAAAAAATAAAT-AA-CTCCTCTAAATAGAGGTATCAA-A
16530279 ACTTTG-AAAAATAAATAA
1 ACTTTGAAAAAATAAATAA
16530297 AGCTCATTTA
Statistics
Matches: 119, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
40 6 0.05
41 27 0.23
42 54 0.45
43 14 0.12
44 18 0.15
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (42 bp):
ACTTTGAAAAAATAAATAACTCCTCTAAATAGAGGTATCAAA
Found at i:16530224 original size:42 final size:42
Alignment explanation
Indices: 16530110--16530252 Score: 168
Period size: 42 Copynumber: 3.4 Consensus size: 42
16530100 AGGCTCAACG
*
16530110 ACTTTGAAAAACATAAAT-GCTCTTCTAAATAGAGGT--TCAACA
1 ACTTTGAAAAA-ATAAATGGCTCATCTAAATAGAGGTAAT-AA-A
* ** *
16530152 ACTTT-AGAAAATAAATTACTCCTCTAAATAGAGGTAATAAA
1 ACTTTGAAAAAATAAATGGCTCATCTAAATAGAGGTAATAAA
* *
16530193 ACTTTGAAAAAATAAATGGCTCATCTGAATAGAGGTAACAAA
1 ACTTTGAAAAAATAAATGGCTCATCTAAATAGAGGTAATAAA
16530235 ACTTTGAAAAAATAAATG
1 ACTTTGAAAAAATAAATG
16530253 AAGCTCCTCT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
40 6 0.07
41 26 0.30
42 55 0.62
43 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.27
Consensus pattern (42 bp):
ACTTTGAAAAAATAAATGGCTCATCTAAATAGAGGTAATAAA
Found at i:16530225 original size:83 final size:86
Alignment explanation
Indices: 16530110--16530265 Score: 214
Period size: 83 Copynumber: 1.8 Consensus size: 86
16530100 AGGCTCAACG
* * * *
16530110 ACTTTGAAAAACATAAATGCTCTTCTAAATAGAGGT-TCAACAACTTT-AGAAAATAAAT-TA-C
1 ACTTTGAAAAACATAAATGCTCATCTAAATAGAGGTAACAA-AACTTTGAAAAAATAAATGAAGC
16530171 TCCTCTAAATAGAGGTAATAAA
65 TCCTCTAAATAGAGGTAATAAA
*
16530193 ACTTTGAAAAA-ATAAATGGCTCATCTGAATAGAGGTAACAAAACTTTGAAAAAATAAATGAAGC
1 ACTTTGAAAAACATAAAT-GCTCATCTAAATAGAGGTAACAAAACTTTGAAAAAATAAATGAAGC
16530257 TCCTCTAAA
65 TCCTCTAAA
16530266 CAAAGGCTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
82 6 0.10
83 33 0.52
84 13 0.21
85 1 0.02
86 10 0.16
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (86 bp):
ACTTTGAAAAACATAAATGCTCATCTAAATAGAGGTAACAAAACTTTGAAAAAATAAATGAAGCT
CCTCTAAATAGAGGTAATAAA
Found at i:16530300 original size:43 final size:44
Alignment explanation
Indices: 16530234--16530390 Score: 181
Period size: 44 Copynumber: 3.5 Consensus size: 44
16530224 GAGGTAACAA
* * *
16530234 AACTTTGAAAAAATAAATGAAGCTCCTCTAAACAAAGGCTCAAC
1 AACTTTGAAAAAATAAATAAAGCTCCTCTAATCAAAGGCTTAAC
* * * * *
16530278 GACTTTG-AAAAATAAATAAAGCTCATTTAATCAAAAGTTTAAC
1 AACTTTGAAAAAATAAATAAAGCTCCTCTAATCAAAGGCTTAAC
* * *
16530321 AACTTCGAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTTAAC
1 AACTTTGAAAAAATAAATAAAGCTCCTCTAATCAAAGGCTTAAC
*
16530365 AACTTTTGAAAAAAATAAACAAAGCT
1 AAC-TTTG-AAAAAATAAATAAAGCT
16530391 TCTTGACAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
43 34 0.37
44 39 0.42
45 3 0.03
46 17 0.18
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (44 bp):
AACTTTGAAAAAATAAATAAAGCTCCTCTAATCAAAGGCTTAAC
Found at i:16533542 original size:29 final size:31
Alignment explanation
Indices: 16533485--16533585 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 31
16533475 AATTTTTGTC
* *
16533485 CCAAAAAAAATA-AAATA-AAAACAATAATA
1 CCAAAAATAATACAAATACAAAACAAAAATA
** *
16533514 TTACAAAAT-AT-GAAATACAAAA-AAAAATA
1 CCA-AAAATAATACAAATACAAAACAAAAATA
16533543 CCAAAAATAATACAAATACAAAACAAAAATA
1 CCAAAAATAATACAAATACAAAACAAAAATA
* *
16533574 CAAAAAAAAATA
1 CCAAAAATAATA
16533586 GAACAGAAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.09
29 17 0.30
30 18 0.32
31 17 0.30
ACGTcount: A:0.73, C:0.11, G:0.01, T:0.15
Consensus pattern (31 bp):
CCAAAAATAATACAAATACAAAACAAAAATA
Found at i:16533543 original size:12 final size:12
Alignment explanation
Indices: 16533526--16533585 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 12
16533516 ACAAAATATG
16533526 AAATACAAAAAA
1 AAATACAAAAAA
16533538 AAATACCAAAAATAATA
1 AAATA-C--AAA-AA-A
16533555 CAAATACAAAACAA
1 -AAATACAAAA-AA
16533569 AAATACAAAAAA
1 AAATACAAAAAA
16533581 AAATA
1 AAATA
16533586 GAACAGAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
12 12 0.29
13 11 0.27
14 2 0.05
15 7 0.17
16 2 0.05
17 2 0.05
18 5 0.12
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (12 bp):
AAATACAAAAAA
Found at i:16533561 original size:18 final size:19
Alignment explanation
Indices: 16533530--16533577 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
16533520 AATATGAAAT
*
16533530 ACAAAAA-A-AAATACCAA
1 ACAAAAATACAAATACAAA
*
16533547 A-AATAATACAAATACAAA
1 ACAAAAATACAAATACAAA
16533565 ACAAAAATACAAA
1 ACAAAAATACAAA
16533578 AAAAAATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 4 0.16
17 2 0.08
18 9 0.36
19 10 0.40
ACGTcount: A:0.75, C:0.15, G:0.00, T:0.10
Consensus pattern (19 bp):
ACAAAAATACAAATACAAA
Found at i:16533574 original size:31 final size:30
Alignment explanation
Indices: 16533485--16533585 Score: 107
Period size: 29 Copynumber: 3.4 Consensus size: 30
16533475 AATTTTTGTC
*
16533485 CCAAAAAAAATAAAATA-AAAACAATAATA
1 CCAAAAAAAATAAAATACAAAACAAAAATA
** * * *
16533514 TTACAAAATATGAAATACAAAA-AAAAATA
1 CCAAAAAAAATAAAATACAAAACAAAAATA
*
16533543 CCAAAAATAATACAAATACAAAACAAAAATA
1 CCAAAAAAAATA-AAATACAAAACAAAAATA
*
16533574 CAAAAAAAAATA
1 CCAAAAAAAATA
16533586 GAACAGAAGA
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
29 24 0.44
30 14 0.25
31 17 0.31
ACGTcount: A:0.73, C:0.11, G:0.01, T:0.15
Consensus pattern (30 bp):
CCAAAAAAAATAAAATACAAAACAAAAATA
Found at i:16534652 original size:22 final size:23
Alignment explanation
Indices: 16534626--16534668 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
16534616 TTTTTTATGC
*
16534626 ATAAATGTTTAAAT-TTATTAGG
1 ATAAATATTTAAATGTTATTAGG
*
16534648 ATAAATATTTAATTGTTATTA
1 ATAAATATTTAAATGTTATTA
16534669 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATAAATATTTAAATGTTATTAGG
Found at i:16546280 original size:8 final size:8
Alignment explanation
Indices: 16546232--16546338 Score: 92
Period size: 9 Copynumber: 12.6 Consensus size: 8
16546222 ATATTTTACT
*
16546232 TAAAAATA
1 TAAAAAAA
16546240 TATAAAAAA
1 TA-AAAAAA
16546249 TAAAAAACA
1 TAAAAAA-A
16546258 -AAAAAATA
1 TAAAAAA-A
*
16546266 AACAAAAAA
1 TA-AAAAAA
*
16546275 TGAAAAAA
1 TAAAAAAA
*
16546283 TGAAAAAA
1 TAAAAAAA
16546291 TAAAATAAA
1 TAAAA-AAA
16546300 TAAAATAAA
1 TAAAA-AAA
16546309 TAAAATAAA
1 TAAAA-AAA
16546318 TAAAAAAA
1 TAAAAAAA
16546326 TGAAAAAAA
1 T-AAAAAAA
16546335 -AAAA
1 TAAAA
16546339 TGAGAAAGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
7 4 0.05
8 36 0.41
9 43 0.49
10 5 0.06
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:16546297 original size:5 final size:5
Alignment explanation
Indices: 16546287--16546322 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
16546277 AAAAAATGAA
16546287 AAAAT AAAAT -AAAT AAAAT -AAAT AAAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
16546323 AAATGAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 12 0.43
5 16 0.57
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:16546325 original size:51 final size:52
Alignment explanation
Indices: 16546233--16546333 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 52
16546223 TATTTTACTT
*
16546233 AAAAATATATAAAAAATAAAAAACAAAAAAATAAACAAAAAATGAAAAAATG
1 AAAAATATATAAAAAATAAAAAACAAAAAAATAAAAAAAAAATGAAAAAATG
* *
16546285 AAAAA-ATA-AAATAAATAAAATA-AATAAAATAAATAAAAAAATGAAAAAA
1 AAAAATATATAAA-AAATAAAAAACAAAAAAATAAA-AAAAAAATGAAAAAA
16546334 AAAAATGAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
50 13 0.30
51 26 0.59
52 5 0.11
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (52 bp):
AAAAATATATAAAAAATAAAAAACAAAAAAATAAAAAAAAAATGAAAAAATG
Found at i:16546341 original size:13 final size:12
Alignment explanation
Indices: 16546243--16546339 Score: 72
Period size: 13 Copynumber: 7.6 Consensus size: 12
16546233 AAAAATATAT
16546243 AAAAAATAAAAA
1 AAAAAATAAAAA
16546255 ACAAAAA-AATAAA
1 A-AAAAATAA-AAA
16546268 CAAAAAATGAAAAA
1 -AAAAAAT-AAAAA
* *
16546282 ATGAAAA-AATAA
1 A-AAAAATAAAAA
*
16546294 AATAAATAAAATA
1 AAAAAATAAAA-A
*
16546307 AATAAAATAAATA
1 AA-AAAATAAAAA
16546320 AAAAAATGAAAAA
1 AAAAAAT-AAAAA
16546333 AAAAAAT
1 AAAAAAT
16546340 GAGAAAGGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
11 3 0.04
12 16 0.24
13 31 0.46
14 15 0.22
15 2 0.03
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAATAAAAA
Found at i:16547452 original size:73 final size:73
Alignment explanation
Indices: 16547380--16548604 Score: 1435
Period size: 73 Copynumber: 16.8 Consensus size: 73
16547370 TATAATTTTT
* * *
16547380 TGACTTGCGGTTCAATCTCAGTCATATTTAATCTTTGACTCGTGGTTTAA-CCCGATCATTTCAT
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
* * *
16547444 TATTTTTT
66 TAATTCTC
* ** *
16547452 TGACTTGCGGTTCAATTTCAGTCATCTTTAATCTTTGACTCGTGGTTTAACCCCGATCATTTCAT
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
16547517 TATTTCTC
66 TAATTCTC
* * ** * *
16547525 TGACTTACGGTTCAATTCTAGTCATCTTTAATCTTTGACTCACGATTTAATCTCGATCATTTCAT
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
16547590 TAATTCTC
66 TAATTCTC
*
16547598 TAACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
16547663 TAATTCTC
66 TAATTCTC
* ** * * * *
16547671 TAACTTGTGGTTCAATCCCAGTCATCTTTAATCTTTAACTCGTGATTTAATCTCAATCA-TT--T
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
16547733 T-ATTCTC
66 TAATTCTC
* * *
16547740 TAACTTGCGGTTCAATCCCAGTCATCTTTAGTCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
*
16547805 TAATTCTT
66 TAATTCTC
* * *
16547813 TGACTTACGGTTCAATCCTAGTCATCTTTAATATTTGACTCGTGATTTAATCCCGATCATTTC--
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
16547876 --ATTCTC
66 TAATTCTC
* * * * *
16547882 TAACTTACGATTCAATCCCAGTCATCTTTAATCCTTGACTCATGGTTTAATCCCGGTCATTTCAT
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
16547947 TAATTCTC
66 TAATTCTC
* * ***
16547955 TAACTTACGGTTCAATCCCAGTCATCTTTAATCTTTAACTTACGGTTTAATCCCGATCATTTCAT
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
16548020 TAATT-TC
66 TAATTCTC
16548027 TTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
1 -TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCA
16548092 TTAATT-TC
65 TTAATTCTC
* * * * *
16548100 TTGACTTGCGGTTTAGTCTCAGTCATCTTTAATCTTTGACTCGTGATTTAATCCC-AGTCATTTC
1 -TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTTC
*
16548164 ATTATTTCTC
64 ATTAATTCTC
* * * * *
16548174 TGACTTGCGATTCAATCCCAGTCATTTTTAATCTTTGACTCGTGATTTAAT-CCTAGTCATTTCA
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA-TCATTTCA
16548238 TTAATTCTC
65 TTAATTCTC
* * * * ** *
16548247 TGACTTGTGATTCAATCCAAGTTCATTCCCAATCGTCTTTAATCTTTGACTCGCAGTTTAATCTC
1 TGAC------TT--A--C-GGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCC
*
16548312 GATCATTTCATTATTTCTC
55 GATCATTTCATTAATTCTC
* * * * *
16548331 TGACTTACGGTTCAATCCCAATCATCGTTAATCTTTGACTCATGATTTAATCCCGGTCATTTC--
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
16548394 --ATTCTC
66 TAATTCTC
*
16548400 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATTATTTCAT
1 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
16548465 TAATT-TC
66 TAATTCTC
* * * * *
16548472 TTGACTTACGGTTTAGTCCC-GATCTTCTTTAATTTTTGGCTCGTGGTTTAATCCCGATCATTTC
1 -TGACTTACGGTTCAATCCCAG-TCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTC
16548536 ATTAATTCTC
64 ATTAATTCTC
* * * * * * * *
16548546 TCGACTTGCGGTTCAGTCCCAATCATCGTTAATATTTGATTCATGGTTTAATCCTGATC
1 T-GACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATC
16548605 TTTTTATTCT
Statistics
Matches: 1002, Mismatches: 117, Indels: 66
0.85 0.10 0.06
Matches are distributed among these distances:
69 181 0.18
70 4 0.00
72 60 0.06
73 644 0.64
74 51 0.05
76 1 0.00
78 2 0.00
79 2 0.00
83 1 0.00
84 54 0.05
85 2 0.00
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (73 bp):
TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATCATTTCAT
TAATTCTC
Found at i:16547643 original size:146 final size:146
Alignment explanation
Indices: 16547380--16548604 Score: 1400
Period size: 142 Copynumber: 8.4 Consensus size: 146
16547370 TATAATTTTT
* * *
16547380 TGACTTGCGGTTCAAT-CTCAGTCATATTTAATCTTTGACTCGTGGTTTAA-CCCGATCATTTCA
1 TGACTTACGGTTCAATCCT-AGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATCATTTCA
* * * * ** *
16547443 TTATTTTTTTGACTTGCGGTTCAATTTCAGTCATCTTTAATCTTTGACTCGTGGTTTAACCCCGA
65 TTAATTCTCTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGA
*
16547508 TCATTTCATTATTTCTC
130 TCATTTCATTAATTCTC
* ** *
16547525 TGACTTACGGTTCAATTCTAGTCATCTTTAATCTTTGACTCACGATTTAATCTCGATCATTTCAT
1 TGACTTACGGTTCAATCCTAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATCATTTCAT
*
16547590 TAATTCTCTAACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
66 TAATTCTCTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
16547655 CATTTCATTAATTCTC
131 CATTTCATTAATTCTC
* ** * * * *
16547671 TAACTTGTGGTTCAATCCCAGTCATCTTTAATCTTTAACTCGTGATTTAATCTCAATCA-TT--T
1 TGACTTACGGTTCAATCCTAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATCATTTCAT
* * *
16547733 T-ATTCTCTAACTTGCGGTTCAATCCCAGTCATCTTTAGTCTTTGACTCGTGGTTTAATCCCGAT
66 TAATTCTCTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
*
16547797 CATTTCATTAATTCTT
131 CATTTCATTAATTCTC
*
16547813 TGACTTACGGTTCAATCCTAGTCATCTTTAATATTTGACTCGTGATTTAATCCCGATCATTTC--
1 TGACTTACGGTTCAATCCTAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATCATTTCAT
* * * * *
16547876 --ATTCTCTAACTTACGATTCAATCCCAGTCATCTTTAATCCTTGACTCATGGTTTAATCCCGGT
66 TAATTCTCTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
16547939 CATTTCATTAATTCTC
131 CATTTCATTAATTCTC
* * *
16547955 TAACTTACGGTTCAATCCCAGTCATCTTTAATCTTTAACTTACG-G-TTTAATCCCGATCATTTC
1 TGACTTACGGTTCAATCCTAGTCATCTTTAATCTTTGAC-T-CGTGATTTAATCCCGATCATTTC
16548018 ATTAATT-TCTTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCC
64 ATTAATTCTC-TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCC
16548082 GATCATTTCATTAATT-TC
128 GATCATTTCATTAATTCTC
* * *
16548100 TTGACTTGCGGTTTAGT-CTCAGTCATCTTTAATCTTTGACTCGTGATTTAATCCC-AGTCATTT
1 -TGACTTACGGTTCAATCCT-AGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGA-TCATTT
* * * * *
16548163 CATTATTTCTCTGACTTGCGATTCAATCCCAGTCATTTTTAATCTTTGACTCGTGATTTAAT-CC
63 CATTAATTCTCTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCC
*
16548227 TAGTCATTTCATTAATTCTC
128 GA-TCATTTCATTAATTCTC
** * * * *
16548247 TGACTTGTGATTCAATCCAAGTTCATTCCCAATCGTCTTTAATCTTTGACTCG-CAGTTTAATCT
1 TGACTTACGGTTCAATCC----T-AGT--C-A---TCTTTAATCTTTGACTCGTGA-TTTAATCC
* * * * *
16548311 CGATCATTTCATTATTTCTCTGACTTACGGTTCAATCCCAATCATCGTTAATCTTTGACTCATGA
54 CGATCATTTCATTAATTCTCTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGG
*
16548376 TTTAATCCCGGTCATTTC----ATTCTC
119 TTTAATCCCGATCATTTCATTAATTCTC
* * *
16548400 TGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGATTATTTCAT
1 TGACTTACGGTTCAATCCTAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATCATTTCAT
* * * * *
16548465 TAATT-TCTTGACTTACGGTTTAGTCCC-GATCTTCTTTAATTTTTGGCTCGTGGTTTAATCCCG
66 TAATTCTC-TGACTTACGGTTCAATCCCAG-TCATCTTTAATCTTTGACTCGTGGTTTAATCCCG
16548528 ATCATTTCATTAATTCTC
129 ATCATTTCATTAATTCTC
* * * * * * * * * *
16548546 TCGACTTGCGGTTCAGTCCCAATCATCGTTAATATTTGATTCATGGTTTAATCCTGATC
1 T-GACTTACGGTTCAATCCTAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATC
16548605 TTTTTATTCT
Statistics
Matches: 932, Mismatches: 107, Indels: 80
0.83 0.10 0.07
Matches are distributed among these distances:
141 2 0.00
142 344 0.37
143 6 0.01
144 4 0.00
145 56 0.06
146 339 0.36
147 53 0.06
148 2 0.00
151 4 0.00
153 22 0.02
154 1 0.00
156 1 0.00
157 95 0.10
158 3 0.00
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (146 bp):
TGACTTACGGTTCAATCCTAGTCATCTTTAATCTTTGACTCGTGATTTAATCCCGATCATTTCAT
TAATTCTCTGACTTACGGTTCAATCCCAGTCATCTTTAATCTTTGACTCGTGGTTTAATCCCGAT
CATTTCATTAATTCTC
Found at i:16548383 original size:35 final size:34
Alignment explanation
Indices: 16548339--16548453 Score: 106
Period size: 35 Copynumber: 3.3 Consensus size: 34
16548329 TCTGACTTAC
* *
16548339 GGTTCAATCCCAATCATCGTTAATCTTTGACTCAT
1 GGTTTAATCCCAGTCATC-TTAATCTTTGACTCAT
* * * * * *
16548374 GATTTAATCCCGGTCAT-TTCATTCTCTGACTTAC
1 GGTTTAATCCCAGTCATCTT-AATCTTTGACTCAT
* *
16548408 GGTTCAATCCCAGTCATCTTTAATCTTTGACTCGT
1 GGTTTAATCCCAGTCATC-TTAATCTTTGACTCAT
16548443 GGTTTAATCCC
1 GGTTTAATCCC
16548454 GATTATTTCA
Statistics
Matches: 60, Mismatches: 17, Indels: 6
0.72 0.20 0.07
Matches are distributed among these distances:
33 2 0.03
34 24 0.40
35 32 0.53
36 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.39
Consensus pattern (34 bp):
GGTTTAATCCCAGTCATCTTAATCTTTGACTCAT
Found at i:16548417 original size:34 final size:34
Alignment explanation
Indices: 16548326--16548427 Score: 107
Period size: 34 Copynumber: 3.0 Consensus size: 34
16548316 ATTTCATTAT
*
16548326 TTCTCTGACTTACGGTTCAATCCCAATCATCGTTA
1 TTCTCTGACTTACGGTTCAATCCCAGTCATC-TTA
* * * * * * *
16548361 ATCTTTGACTCATGATTTAATCCCGGTCAT-TTCA
1 TTCTCTGACTTACGGTTCAATCCCAGTCATCTT-A
16548395 TTCTCTGACTTACGGTTCAATCCCAGTCATCTT
1 TTCTCTGACTTACGGTTCAATCCCAGTCATCTT
16548428 TAATCTTTGA
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
33 2 0.04
34 24 0.48
35 24 0.48
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (34 bp):
TTCTCTGACTTACGGTTCAATCCCAGTCATCTTA
Found at i:16548527 original size:35 final size:35
Alignment explanation
Indices: 16548424--16548648 Score: 125
Period size: 35 Copynumber: 6.3 Consensus size: 35
16548414 ATCCCAGTCA
* *
16548424 TCTTTAATCTTTGACTCGTGGTTTAATCCCGATTATT
1 TCTTTAATTTTTGACTCGTGGTTTAATCCCGA-T-CT
* *** *
16548461 TCATTAATTTCTTGACTTACGGTTTAGTCCCGATCT
1 TCTTTAATTT-TTGACTCGTGGTTTAATCCCGATCT
*
16548497 TCTTTAATTTTTGGCTCGTGGTTTAATCCCGATCATT
1 TCTTTAATTTTTGACTCGTGGTTTAATCCCGATC--T
* * * * * * * *
16548534 TCATTAATTCTCTCGACTTGCGGTTCAGTCCCAATCA
1 TCTTTAATT-T-TTGACTCGTGGTTTAATCCCGATCT
* * * * *
16548571 TCGTTAATATTTGATTCATGGTTTAATCCTGATCT
1 TCTTTAATTTTTGACTCGTGGTTTAATCCCGATCT
* * *
16548606 T-TTT-ATTCTTCGATTCG-GGATTCAATCCCGATC-
1 TCTTTAATT-TTTGACTCGTGG-TTTAATCCCGATCT
16548639 TCTTTAATTT
1 TCTTTAATTT
16548649 AAAATCATAG
Statistics
Matches: 139, Mismatches: 40, Indels: 21
0.69 0.20 0.10
Matches are distributed among these distances:
33 5 0.04
34 24 0.17
35 38 0.27
36 11 0.08
37 25 0.18
38 19 0.14
39 17 0.12
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.46
Consensus pattern (35 bp):
TCTTTAATTTTTGACTCGTGGTTTAATCCCGATCT
Found at i:16549051 original size:13 final size:14
Alignment explanation
Indices: 16548992--16549057 Score: 50
Period size: 14 Copynumber: 4.8 Consensus size: 14
16548982 ATTTTTATCT
*
16548992 AAAAAA-AAAATA-
1 AAAAAATAATATAC
16549004 AAAACAATAATATTAC
1 AAAA-AATAATA-TAC
*
16549020 AAAATATGAA-ATAC
1 AAAAAAT-AATATAC
16549034 AAAAAA-AATATAC
1 AAAAAATAATATAC
*
16549047 CAAAAATAATA
1 AAAAAATAATA
16549058 CAAAATACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
12 6 0.14
13 11 0.26
14 15 0.35
15 5 0.12
16 6 0.14
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.18
Consensus pattern (14 bp):
AAAAAATAATATAC
Found at i:16549060 original size:39 final size:37
Alignment explanation
Indices: 16548994--16549100 Score: 108
Period size: 37 Copynumber: 2.8 Consensus size: 37
16548984 TTTTATCTAA
* * *
16548994 AAAAAAAATAAAAACAATAATATTACAAAATATGAAATAC
1 AAAAAAAAT-AAAACAAAAATAATACAAAATA-CAAA-AC
* *
16549034 AAAAAAAATATACCAAAAATAATACAAAATACAAAAC
1 AAAAAAAATAAAACAAAAATAATACAAAATACAAAAC
*
16549071 AAAAAAAATAAAA-AACAAAAAATACCAAAA
1 AAAAAAAATAAAACAA-AAATAATA-CAAAA
16549101 AAAAATAACA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
36 2 0.04
37 20 0.35
38 8 0.14
39 18 0.32
40 9 0.16
ACGTcount: A:0.75, C:0.10, G:0.01, T:0.14
Consensus pattern (37 bp):
AAAAAAAATAAAACAAAAATAATACAAAATACAAAAC
Found at i:16549073 original size:23 final size:21
Alignment explanation
Indices: 16549047--16549125 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 21
16549037 AAAAATATAC
*
16549047 CAAAAATAATACAAAATACAAAA
1 CAAAAAAAATA-AAAA-ACAAAA
16549070 CAAAAAAAATAAAAAACAAAA
1 CAAAAAAAATAAAAAACAAAA
16549091 -AATACCAAAAA-AAAATAACATAAGA
1 CAA-A--AAAAATAAAA-AACA-AA-A
16549116 CAAAAAAAAT
1 CAAAAAAAAT
16549126 TAAGGATGGC
Statistics
Matches: 47, Mismatches: 1, Indels: 15
0.75 0.02 0.24
Matches are distributed among these distances:
20 2 0.04
21 7 0.15
22 8 0.17
23 24 0.51
24 2 0.04
25 2 0.04
26 2 0.04
ACGTcount: A:0.77, C:0.11, G:0.01, T:0.10
Consensus pattern (21 bp):
CAAAAAAAATAAAAAACAAAA
Found at i:16549080 original size:16 final size:15
Alignment explanation
Indices: 16549034--16549105 Score: 65
Period size: 16 Copynumber: 4.5 Consensus size: 15
16549024 TATGAAATAC
*
16549034 AAAAAAAATATACCAA
1 AAAAAAAAAATA-CAA
16549050 AAATAATACAAAATACAA
1 AAA-AA-A-AAAATACAA
16549068 AACAAAAAAAATA-AA
1 AA-AAAAAAAATACAA
*
16549083 AAACAAAAAATACCAA
1 AAAAAAAAAATA-CAA
16549099 AAAAAAA
1 AAAAAAA
16549106 TAACATAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
14 9 0.19
15 4 0.09
16 17 0.36
17 3 0.06
18 8 0.17
19 6 0.13
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAATACAA
Found at i:16549094 original size:40 final size:40
Alignment explanation
Indices: 16548994--16549091 Score: 121
Period size: 39 Copynumber: 2.5 Consensus size: 40
16548984 TTTTATCTAA
* * *
16548994 AAAAAAAATAAAAACAATAATATTACAAAATATGAAATAC
1 AAAAAAAATAAAAACAAAAATAATACAAAATATCAAATAC
* *
16549034 AAAAAAAAT-ATACCAAAAATAATACAAAATA-CAAA-AC
1 AAAAAAAATAAAAACAAAAATAATACAAAATATCAAATAC
16549071 AAAAAAAATAAAAAACAAAAA
1 AAAAAAAAT-AAAAACAAAAA
16549092 ATACCAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
37 11 0.22
38 3 0.06
39 26 0.53
40 9 0.18
ACGTcount: A:0.76, C:0.09, G:0.01, T:0.14
Consensus pattern (40 bp):
AAAAAAAATAAAAACAAAAATAATACAAAATATCAAATAC
Found at i:16549978 original size:22 final size:23
Alignment explanation
Indices: 16549952--16549994 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
16549942 TTTTTTATGC
*
16549952 ATAAATGTTTAAAT-TTATTAGG
1 ATAAATATTTAAATATTATTAGG
*
16549974 ATAAATATTTAATTATTATTA
1 ATAAATATTTAAATATTATTA
16549995 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
ATAAATATTTAAATATTATTAGG
Found at i:16559909 original size:61 final size:60
Alignment explanation
Indices: 16559780--16560023 Score: 275
Period size: 61 Copynumber: 4.1 Consensus size: 60
16559770 GCTTTTATAC
* * *
16559780 AAGAAAAATTGATACTTTCAACTTTTCCTT-AAAATATTTTTTTTCTAAAATTGTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTT-GAAAATTTTAATTTT
* * * *
16559840 AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTCTTGATAATTTTTATTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTAATTTT
* * * * *
16559900 AAAAGAAAATTGGTACTTTCAACTTTTCCTCAAAATGTTTTTTTTTCTG-AAATTTTAATTTT
1 AAGA-AAAATTGATACTTTCAACTTTTCCTTAAAA-ATATTTTTTT-TGAAAATTTTAATTTT
* * *
16559962 AAGAAAAATTGATACTTTCAACTTTT-CTTCAAAATA--CTTTTTGAAAATTTTTATTTT
1 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTAATTTT
16560019 -AGAAA
1 AAGAAA
16560024 TTTTATTTTC
Statistics
Matches: 155, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
56 7 0.05
57 16 0.10
59 1 0.01
60 47 0.30
61 61 0.39
62 21 0.14
63 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (60 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTAATTTT
Found at i:16559966 original size:122 final size:118
Alignment explanation
Indices: 16559784--16560019 Score: 355
Period size: 122 Copynumber: 2.0 Consensus size: 118
16559774 TTATACAAGA
*
16559784 AAAATTGATACTTTCAACTTTTCCTTAAAATATTTTTTTTCTAAAATTGTAATTTCAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTCTAAAATTGTAATTTCAAGAAAAAT
* *
16559849 TGATACTTTCAACTTTTTCTTAAAAATATTTTTCTTGATAATTTTTATTTTAAAAG
66 TGATACTTTCAAC-TTTTCTTAAAAATA-CTTT-TTGAAAATTTTTATTTTAAAAG
* * * * *
16559905 AAAATTGGTACTTTCAACTTTTCCTCAAAATGTTTTTTTTTCTGAAATTTTAATTTTAAGAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAT-ATTTTTTTTCTAAAATTGTAATTTCAAGAAAAA
*
16559970 TTGATACTTTCAACTTTTCTTCAAAATACTTTTTGAAAATTTTTATTTTA
65 TTGATACTTTCAACTTTTCTTAAAAATACTTTTTGAAAATTTTTATTTTA
16560020 GAAATTTTAT
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
119 17 0.16
120 3 0.03
121 42 0.40
122 43 0.41
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.49
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTCTAAAATTGTAATTTCAAGAAAAAT
TGATACTTTCAACTTTTCTTAAAAATACTTTTTGAAAATTTTTATTTTAAAAG
Found at i:16560026 original size:72 final size:72
Alignment explanation
Indices: 16559948--16560090 Score: 211
Period size: 72 Copynumber: 2.0 Consensus size: 72
16559938 TTTTTTTTCT
*
16559948 GAAATTTTAATTTT-AAGAAAAATTGATACTTTCAACTTTT-CTTCAAAATACTTTTTGA-AAAT
1 GAAATTTT-ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATA-TTTTTGAGAAA-
16560010 TTTTATTTTA
63 TTTTATTTTA
* *
16560020 GAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAGAAATTT
1 GAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTGAGAAATTT
16560085 TATTTT
66 TATTTT
16560091 TAAGAAAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
71 5 0.08
72 48 0.74
73 12 0.18
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (72 bp):
GAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTGAGAAATTT
TATTTTA
Found at i:16560082 original size:58 final size:58
Alignment explanation
Indices: 16560015--16560205 Score: 231
Period size: 58 Copynumber: 3.2 Consensus size: 58
16560005 AAAATTTTTA
16560015 TTTTAGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATT
1 TTTTAGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATT
* * * * *
16560073 TTTTAGAAATTTTATTTTTAAGAAAAATTTATACTTTTAACTTTTCTTTAAAAATATTTT
1 TTTTAGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATA--TT
* * * * *
16560133 TTTTTGAAAATTTTGTTTTCAAAGAAAATTGATACTTTCAACTTTT-CATCAAAATGATT
1 TTTTAG-AAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAT-ATT
*
16560192 TTTTAAAAACTTTT
1 TTTTAGAAA-TTTT
16560206 TTATTTTTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
58 54 0.49
59 10 0.09
60 13 0.12
61 34 0.31
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (58 bp):
TTTTAGAAATTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATT
Found at i:16560282 original size:69 final size:68
Alignment explanation
Indices: 16560143--16560288 Score: 165
Period size: 69 Copynumber: 2.1 Consensus size: 68
16560133 TTTTTGAAAA
* ** *
16560143 TTTTGTTTTCAAAGAAAATTGATACTTTCAACTTTTCATCAAAATGATTTTTTAAAAACTTTTTT
1 TTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCATCAAAATGATTTTTTAAAAACAATTAT
16560208 ATT
66 ATT
* *
16560211 TTTATATTTTC-AAGAAAATTTGATATTTTCAACTTTTCCTCAAAAAT-ACTTTTTTTAAAAA-A
1 TTT-TATTTTCAAAGAAAA-TTGATACTTTCAACTTTTCATC-AAAATGA--TTTTTTAAAAACA
16560273 ATTAT-TT
61 ATTATATT
16560280 TTTTATTTT
1 TTTTATTTT
16560289 TTTGTTTGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
68 16 0.24
69 32 0.48
70 8 0.12
71 11 0.16
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (68 bp):
TTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTCATCAAAATGATTTTTTAAAAACAATTAT
ATT
Found at i:16560410 original size:25 final size:25
Alignment explanation
Indices: 16560382--16560429 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
16560372 TTACACCTAA
16560382 AAATTTTATAAAAATTT-ATCATTTG
1 AAATTTT-TAAAAATTTCATCATTTG
*
16560407 AAATTTTTATAAATTTCATCATT
1 AAATTTTTAAAAATTTCATCATT
16560430 GGATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (25 bp):
AAATTTTTAAAAATTTCATCATTTG
Found at i:16560437 original size:26 final size:25
Alignment explanation
Indices: 16560382--16560437 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
16560372 TTACACCTAA
*
16560382 AAATTTTATAAAAATTTATCATTTG
1 AAATTTTATAAAAATTTATCATTGG
*
16560407 AAATTTT-TATAAATTTCATCATTGG
1 AAATTTTATAAAAATTT-ATCATTGG
16560432 ATAATT
1 A-AATT
16560438 AATATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 8 0.30
25 15 0.56
26 4 0.15
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (25 bp):
AAATTTTATAAAAATTTATCATTGG
Found at i:16560536 original size:22 final size:22
Alignment explanation
Indices: 16560488--16560531 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16560478 TAATTTAATA
16560488 GAAAAGAAAAAAAATACTAAAG
1 GAAAAGAAAAAAAATACTAAAG
16560510 GAAAA-AAAAACAAATACATAAA
1 GAAAAGAAAAA-AAATAC-TAAA
16560532 TAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.75, C:0.07, G:0.09, T:0.09
Consensus pattern (22 bp):
GAAAAGAAAAAAAATACTAAAG
Found at i:16560848 original size:33 final size:30
Alignment explanation
Indices: 16560807--16560868 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
16560797 TAAAACCCGA
16560807 TCTTCTTTCAAATTTTCT-TTCTTTTTTCTCTC
1 TCTTCTTTC--ATTTTCTCTTC-TTTTTCTCTC
*
16560839 TCTTCCTTTCTTTTTCTCTTCTTTTTCTCT
1 TCTT-CTTTCATTTTCTCTTCTTTTTCTCT
16560869 AAAAAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 15 0.56
32 7 0.26
33 5 0.19
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (30 bp):
TCTTCTTTCATTTTCTCTTCTTTTTCTCTC
Found at i:16560854 original size:20 final size:20
Alignment explanation
Indices: 16560823--16560861 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16560813 TTCAAATTTT
16560823 CTTTCTTTTTTCTCTCTCTTC
1 CTTTCTTTTTTCTCT-TCTTC
16560844 CTTTC-TTTTTCTCTTCTT
1 CTTTCTTTTTTCTCTTCTT
16560862 TTTCTCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (20 bp):
CTTTCTTTTTTCTCTTCTTC
Found at i:16560867 original size:11 final size:11
Alignment explanation
Indices: 16560819--16560868 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
16560809 TTCTTTCAAA
16560819 TTTTCT-TTCT
1 TTTTCTCTTCT
16560829 TTTT-TCTCTCT
1 TTTTCTCT-TCT
* *
16560840 CTTCCT-TTCT
1 TTTTCTCTTCT
16560850 TTTTCTCTTCT
1 TTTTCTCTTCT
16560861 TTTTCTCT
1 TTTTCTCT
16560869 AAAAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
9 1 0.03
10 12 0.38
11 18 0.56
12 1 0.03
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTCTCTTCT
Found at i:16564140 original size:24 final size:22
Alignment explanation
Indices: 16564113--16564166 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
16564103 GCTAATGGAG
16564113 AATAAAGCAAAGAAAAAAGTAAAA
1 AATAAAG-AAAGAAAAAA-TAAAA
*
16564137 AATAAAAAGAATGAAAAAATAAAA
1 AAT--AAAGAAAGAAAAAATAAAA
16564161 AATAAA
1 AATAAA
16564167 AAGTGAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.11
24 11 0.41
25 9 0.33
26 4 0.15
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (22 bp):
AATAAAGAAAGAAAAAATAAAA
Found at i:16564160 original size:6 final size:7
Alignment explanation
Indices: 16564125--16564168 Score: 52
Period size: 7 Copynumber: 5.7 Consensus size: 7
16564115 TAAAGCAAAG
16564125 AAAAAAGT
1 AAAAAA-T
16564133 AAAAAAT
1 AAAAAAT
16564140 AAAAAGAAT
1 -AAAA-AAT
16564149 GAAAAAAT
1 -AAAAAAT
16564157 AAAAAAT
1 AAAAAAT
16564164 AAAAA
1 AAAAA
16564169 GTGAAAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
7 13 0.39
8 13 0.39
9 7 0.21
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:16564167 original size:24 final size:23
Alignment explanation
Indices: 16564124--16564176 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
16564114 ATAAAGCAAA
16564124 GAAAAAAGTAAAAAATAAAAAGAAT
1 GAAAAAAGTAAAAAATAAAAAG--T
16564149 GAAAAAA-TAAAAAATAAAAAGT
1 GAAAAAAGTAAAAAATAAAAAGT
16564171 GAAAAA
1 GAAAAA
16564177 GAGAGAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 7 0.25
24 14 0.50
25 7 0.25
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (23 bp):
GAAAAAAGTAAAAAATAAAAAGT
Found at i:16564871 original size:23 final size:23
Alignment explanation
Indices: 16564845--16564908 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
16564835 CAATTATGGG
**
16564845 TGCATTTA-GTACATCTCATGTAT
1 TGCATTTATG-ACATCTCATACAT
*
16564868 TGCATTCATGACATCTCATACAT
1 TGCATTTATGACATCTCATACAT
*
16564891 TGCATTTATAACAT-TCAT
1 TGCATTTATGACATCTCAT
16564909 TGTAAACAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 4 0.11
23 30 0.86
24 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (23 bp):
TGCATTTATGACATCTCATACAT
Found at i:16565447 original size:32 final size:32
Alignment explanation
Indices: 16565215--16565561 Score: 186
Period size: 32 Copynumber: 10.8 Consensus size: 32
16565205 TTTGGCTTAG
* *
16565215 TCCAATCATTTTTATTTT-GACCTTGGTTTAG
1 TCCAATCATTTTTATTTTCGACCTTGGTTCAA
* * ** * * * *
16565246 TCTAGTCATTTCCATCTTCAACCTTGGTTTAC
1 TCCAATCATTTTTATTTTCGACCTTGGTTCAA
* * * * **
16565278 TCCGATCATTTTCATCTTCGACTTTGACTCAA
1 TCCAATCATTTTTATTTTCGACCTTGGTTCAA
*
16565310 TCCAATCATTTTTATCTTT-GACATTGGTTCAA
1 TCCAATCATTTTTAT-TTTCGACCTTGGTTCAA
** * *
16565342 -CTCAATC-TTTTTCATTTTTAACCTTAGCTCAA
1 TC-CAATCATTTTT-ATTTTCGACCTTGGTTCAA
** * * *
16565374 TTTAGTCATTTTTCATTTTCGACTTTGGCTTAGAA
1 TCCAATCATTTTT-ATTTTCGACCTTGG-TT-CAA
* * *
16565409 T--GATCATTTTTATTTTCGACCTTAGCTCAA
1 TCCAATCATTTTTATTTTCGACCTTGGTTCAA
* * * * *
16565439 TCCCATCATGTTTATCTTCGACCTTGGTTTAG
1 TCCAATCATTTTTATTTTCGACCTTGGTTCAA
* *
16565471 TCTAATCATTTTTA-TTTGGAACCTTGGTTCAA
1 TCCAATCATTTTTATTTTCG-ACCTTGGTTCAA
* * * *
16565503 TCCAATCATTTTCATTTTCAACTTTGGTTCAG
1 TCCAATCATTTTTATTTTCGACCTTGGTTCAA
* * * *
16565535 TTCAATCATTTTCATTTTTGACATTGG
1 TCCAATCATTTTTATTTTCGACCTTGG
16565562 CTCAGTTCAT
Statistics
Matches: 237, Mismatches: 66, Indels: 25
0.72 0.20 0.08
Matches are distributed among these distances:
30 3 0.01
31 26 0.11
32 175 0.74
33 29 0.12
34 1 0.00
35 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.47
Consensus pattern (32 bp):
TCCAATCATTTTTATTTTCGACCTTGGTTCAA
Found at i:16565512 original size:129 final size:128
Alignment explanation
Indices: 16565281--16565529 Score: 288
Period size: 129 Copynumber: 1.9 Consensus size: 128
16565271 GGTTTACTCC
* * *
16565281 GATCATTTTCATCTTCGACTTTGACTCAATCCAATCATTTTTATCTTTGACATTGGTTCAACTCA
1 GATCATTTTCATCTTCGACTTAGACTCAATCCAATCATGTTTATCTTCGACATTGGTTCAACTCA
** ** * *
16565346 ATCTTTTTCATTTTTAACCTTAGCTCAATTTAGTCATTTTTCATTTTCGACTTTGGCTTAGAAT
66 ATCTTTTTCATTTGGAACCTTAGCTCAATCCAATCA-TTTTCATTTTCAACTTTGGCTTAGAAT
* * * * * *
16565410 GATCATTTTTATTTTCGACCTTAG-CTCAATCCCATCATGTTTATCTTCGACCTTGGTT-TAGTC
1 GATCATTTTCATCTTCGA-CTTAGACTCAATCCAATCATGTTTATCTTCGACATTGGTTCAACTC
* *
16565473 TAATCATTTTT-ATTTGGAACCTTGGTTCAATCCAATCATTTTCATTTTCAACTTTGG
65 -AATC-TTTTTCATTTGGAACCTTAGCTCAATCCAATCATTTTCATTTTCAACTTTGG
16565530 TTCAGTTCAA
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
128 21 0.21
129 70 0.70
130 9 0.09
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.47
Consensus pattern (128 bp):
GATCATTTTCATCTTCGACTTAGACTCAATCCAATCATGTTTATCTTCGACATTGGTTCAACTCA
ATCTTTTTCATTTGGAACCTTAGCTCAATCCAATCATTTTCATTTTCAACTTTGGCTTAGAAT
Found at i:16565594 original size:63 final size:62
Alignment explanation
Indices: 16565507--16565651 Score: 157
Period size: 63 Copynumber: 2.3 Consensus size: 62
16565497 GTTCAATCCA
** *
16565507 ATCATTTTCATTTTCAACTTTGGTTCAGT-TCAATCATTTTCATTTTTGACATTGGCTCAGTTC
1 ATCATTTTCATTTTCAACCATGGTTCAGTCT-AATCA-TTTCATTTTTGACATTAGCTCAGTTC
* * * * * * * *
16565570 ATCATTTTCATCTTCAACCATGGTTTAGTCTGATTATTTCATTTTTTACTTTAGTTCAGTTT
1 ATCATTTTCATTTTCAACCATGGTTCAGTCTAATCATTTCATTTTTGACATTAGCTCAGTTC
16565632 AGTCATTTTCATTTTCAACC
1 A-TCATTTTCATTTTCAACC
16565652 TTAGTTCAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
62 22 0.32
63 45 0.66
64 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (62 bp):
ATCATTTTCATTTTCAACCATGGTTCAGTCTAATCATTTCATTTTTGACATTAGCTCAGTTC
Found at i:16565656 original size:32 final size:32
Alignment explanation
Indices: 16565459--16565659 Score: 131
Period size: 32 Copynumber: 6.3 Consensus size: 32
16565449 TTTATCTTCG
* * * **
16565459 ACCTTGGTTTAG-TCTAATCATTTTTATTTGGA
1 ACCTTGGTTCAGTTC-AGTCATTTTCATTTTCA
* * *
16565491 ACCTTGGTTCAATCCAATCATTTTCATTTTCA
1 ACCTTGGTTCAGTTCAGTCATTTTCATTTTCA
* * **
16565523 ACTTTGGTTCAGTTCAATCATTTTCATTTTTG
1 ACCTTGGTTCAGTTCAGTCATTTTCATTTTCA
* * *
16565555 ACATTGGCTCAGTTCA-TCATTTTCATCTTCA
1 ACCTTGGTTCAGTTCAGTCATTTTCATTTTCA
* * * * **
16565586 ACCATGGTTTAG-TCTGATTA-TTTCATTTTTT
1 ACCTTGGTTCAGTTCAG-TCATTTTCATTTTCA
* * *
16565617 ACTTTAGTTCAGTTTAGTCATTTTCATTTTCA
1 ACCTTGGTTCAGTTCAGTCATTTTCATTTTCA
*
16565649 ACCTTAGTTCA
1 ACCTTGGTTCA
16565660 ATTTGATAAT
Statistics
Matches: 129, Mismatches: 35, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
30 2 0.02
31 38 0.29
32 88 0.68
33 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (32 bp):
ACCTTGGTTCAGTTCAGTCATTTTCATTTTCA
Found at i:16565822 original size:33 final size:33
Alignment explanation
Indices: 16565770--16565860 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
16565760 TATATCATTT
* * * *
16565770 TTTTTCGACTTCGGGTAAGACCAAGTCATTTTA
1 TTTTTCGACTTTGGCTAAGAACAAGTCATTCTA
* *
16565803 TTTTTCAACTTTGGCTAAGATCAAGTCATTCTA
1 TTTTTCGACTTTGGCTAAGAACAAGTCATTCTA
*
16565836 TTTCT-GACTTTGGCTAAGAACAAGT
1 TTTTTCGACTTTGGCTAAGAACAAGT
16565861 TATCTCATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
32 18 0.36
33 32 0.64
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (33 bp):
TTTTTCGACTTTGGCTAAGAACAAGTCATTCTA
Found at i:16565851 original size:32 final size:32
Alignment explanation
Indices: 16565772--16565877 Score: 99
Period size: 33 Copynumber: 3.3 Consensus size: 32
16565762 TATCATTTTT
* * * *
16565772 TTTC-GACTTCGGGTAAGACCAAGTCATTTTA
1 TTTCTGACTTTGGCTAAGAACAAGTCATTCTA
* * *
16565803 TTTTTCAACTTTGGCTAAGATCAAGTCATTCTA
1 TTTCT-GACTTTGGCTAAGAACAAGTCATTCTA
*
16565836 TTTCTGACTTTGGCTAAGAACAAGTTA-TCTCA
1 TTTCTGACTTTGGCTAAGAACAAGTCATTCT-A
16565868 TTTTCTGACT
1 -TTTCTGACT
16565878 ACTGCTAAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
31 6 0.10
32 20 0.33
33 35 0.57
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (32 bp):
TTTCTGACTTTGGCTAAGAACAAGTCATTCTA
Found at i:16566281 original size:22 final size:23
Alignment explanation
Indices: 16566256--16566300 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
16566246 TTTCTCTTTT
**
16566256 ATTATCTTTTCTTTATCT-ATTA
1 ATTATCTTTAATTTATCTGATTA
16566278 ATTATCTTTAATTTATCTGATTA
1 ATTATCTTTAATTTATCTGATTA
16566301 TTTCAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (23 bp):
ATTATCTTTAATTTATCTGATTA
Found at i:16569366 original size:24 final size:23
Alignment explanation
Indices: 16569339--16569383 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
16569329 TATTACTTTC
* *
16569339 GTATTATATTTATATATTGTCATT
1 GTATCATATTTA-AAATTGTCATT
16569363 GTATCATATTTAAAATTGTCA
1 GTATCATATTTAAAATTGTCA
16569384 AATCTATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (23 bp):
GTATCATATTTAAAATTGTCATT
Found at i:16569733 original size:37 final size:37
Alignment explanation
Indices: 16569682--16569755 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
16569672 ATACAAATCG
* *
16569682 AATGTAATAATATTATGTAAATG-TATTTTATATTTTA
1 AATGTAATAATATTATATAAA-GATATTTTACATTTTA
*
16569719 AATGTAATAGTATTATATAAAGATATTTTACATTTTA
1 AATGTAATAATATTATATAAAGATATTTTACATTTTA
16569756 TTTTAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (37 bp):
AATGTAATAATATTATATAAAGATATTTTACATTTTA
Found at i:16570824 original size:2 final size:2
Alignment explanation
Indices: 16570817--16570842 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16570807 TCCCACATTT
16570817 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
16570843 AGTTTTGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:16571406 original size:25 final size:25
Alignment explanation
Indices: 16571378--16571431 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
16571368 ATATCATAAA
16571378 AATTG-TAAATTTTAACATTTTATTT
1 AATTGTTAAATTTTAACA-TTTATTT
* **
16571403 AATTGTTATATTTTATTATTTATTT
1 AATTGTTAAATTTTAACATTTATTT
16571428 AATT
1 AATT
16571432 AAAAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (25 bp):
AATTGTTAAATTTTAACATTTATTT
Found at i:16575520 original size:25 final size:25
Alignment explanation
Indices: 16575475--16575522 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16575465 TAGTGGTCAA
*
16575475 AATAAATAAAAAGGTAAAAATATTG
1 AATAAATAAAAAGGAAAAAATATTG
*
16575500 AATATATAAAAA-GAAATAAATAT
1 AATAAATAAAAAGGAAA-AAATAT
16575523 AATTAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (25 bp):
AATAAATAAAAAGGAAAAAATATTG
Found at i:16579785 original size:2 final size:2
Alignment explanation
Indices: 16579778--16579802 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16579768 TACATATTAA
16579778 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
16579803 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:16581157 original size:23 final size:22
Alignment explanation
Indices: 16581115--16581179 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
16581105 AAATTAAAAA
*
16581115 TTGATTTGAAATTGTAATTTTGAC
1 TTGATTTG-AATT-AAATTTTGAC
* *
16581139 TTGA-TTGAAGTTAATATTTTTAT
1 TTGATTTGAA-TTAA-ATTTTGAC
16581162 TTGATTTGAATTAAATTT
1 TTGATTTGAATTAAATTT
16581180 GAATATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
22 7 0.20
23 19 0.54
24 9 0.26
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.54
Consensus pattern (22 bp):
TTGATTTGAATTAAATTTTGAC
Found at i:16581189 original size:13 final size:13
Alignment explanation
Indices: 16581171--16581209 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
16581161 TTTGATTTGA
16581171 ATTAAATTTGAAT
1 ATTAAATTTGAAT
16581184 ATTAAATTT-ATAT
1 ATTAAATTTGA-AT
*
16581197 ATTAGATTTGAAT
1 ATTAAATTTGAAT
16581210 TGAATTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (13 bp):
ATTAAATTTGAAT
Found at i:16581339 original size:22 final size:22
Alignment explanation
Indices: 16581314--16581355 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
16581304 AAAAAAATTT
*
16581314 TATATCAAAA-TTTAT-TTAAA
1 TATATAAAAATTTTATATTAAA
16581334 TATATAAAAATTTTATATTAAA
1 TATATAAAAATTTTATATTAAA
16581356 ACAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 5 0.26
22 5 0.26
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATAAAAATTTTATATTAAA
Found at i:16581375 original size:33 final size:33
Alignment explanation
Indices: 16581306--16581376 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
16581296 ATAAAATAAA
** * *
16581306 AAAAATTTTATATCAAAATTTATTTAAATATAT
1 AAAAATTTTATATCAAAAAATATATAAAAATAT
*
16581339 AAAAATTTTATATTAAAACAATATATAAAAAT-T
1 AAAAATTTTATATCAAAA-AATATATAAAAATAT
16581372 AAAAA
1 AAAAA
16581377 AATAAATCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 23 0.72
34 9 0.28
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (33 bp):
AAAAATTTTATATCAAAAAATATATAAAAATAT
Found at i:16581484 original size:28 final size:30
Alignment explanation
Indices: 16581427--16581493 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 30
16581417 TAAAATCATA
*
16581427 TAAAAAATTTATCAAAATTTAAATTATATT
1 TAAAAAATTTATCAAAATTTAAATAATATT
* *
16581457 TAAAAAATTTAT-AATA-TTACATAATATT
1 TAAAAAATTTATCAAAATTTAAATAATATT
16581485 TAAAAAATT
1 TAAAAAATT
16581494 AAATCAAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 19 0.56
29 3 0.09
30 12 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
TAAAAAATTTATCAAAATTTAAATAATATT
Found at i:16583898 original size:119 final size:119
Alignment explanation
Indices: 16583687--16583901 Score: 403
Period size: 119 Copynumber: 1.8 Consensus size: 119
16583677 AAAAGGTCTG
16583687 TACTTCACTTAAATGCCATGCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
1 TACTTCACTTAAATGCCATGCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
16583752 AAACTTGATTCTTTTACCTCACTATCTGTTCGCACTATTTGATTGAGGTTTTGT
66 AAACTTGATTCTTTTACCTCACTATCTGTTCGCACTATTTGATTGAGGTTTTGT
*
16583806 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
1 TACTTCACTTAAATGCCATGCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
* *
16583871 AAACTTGATTTTTTTACTTCACTATCTGTTC
66 AAACTTGATTCTTTTACCTCACTATCTGTTC
16583902 ATACTTCACT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 93 1.00
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.46
Consensus pattern (119 bp):
TACTTCACTTAAATGCCATGCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
AAACTTGATTCTTTTACCTCACTATCTGTTCGCACTATTTGATTGAGGTTTTGT
Found at i:16583972 original size:97 final size:97
Alignment explanation
Indices: 16583806--16583999 Score: 379
Period size: 97 Copynumber: 2.0 Consensus size: 97
16583796 GAGGTTTTGT
16583806 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
1 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
16583871 AAACTTGATTTTTTTACTTCACTATCTGTTCA
66 AAACTTGATTTTTTTACTTCACTATCTGTTCA
16583903 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
1 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
*
16583968 AAACTTGATTTTTTTACTTCACTATCTTTTCA
66 AAACTTGATTTTTTTACTTCACTATCTGTTCA
16584000 CACTATTTGA
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (97 bp):
TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
AAACTTGATTTTTTTACTTCACTATCTGTTCA
Found at i:16584061 original size:216 final size:216
Alignment explanation
Indices: 16583687--16584117 Score: 799
Period size: 216 Copynumber: 2.0 Consensus size: 216
16583677 AAAAGGTCTG
16583687 TACTTCACTTAAATGCCATGCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
1 TACTTCACTTAAATGCCATGCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
* *
16583752 AAACTTGATTCTTTTACCTCACTATCTGTTCGCACTATTTGATTGAGGTTTTGTTACTTCACTTA
66 AAACTTGATTCTTTTACCTCACTATCTGTTCACACTATTTGATTGAGGTGTTGTTACTTCACTTA
16583817 AATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGCAAACTTGATTT
131 AATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGCAAACTTGATTT
*
16583882 TTTTACTTCACTATCTGTTCA
196 TTTTACCTCACTATCTGTTCA
*
16583903 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
1 TACTTCACTTAAATGCCATGCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
* * *
16583968 AAACTTGATTTTTTTACTTCACTATCTTTTCACACTATTTGATTGAGGTGTTGTTACTTCACTTA
66 AAACTTGATTCTTTTACCTCACTATCTGTTCACACTATTTGATTGAGGTGTTGTTACTTCACTTA
16584033 AATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGCAAACTTGATTT
131 AATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGCAAACTTGATTT
16584098 TTTTACCTCACTATCTGTTC
196 TTTTACCTCACTATCTGTTC
16584118 GCACTATTTG
Statistics
Matches: 208, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 208 1.00
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (216 bp):
TACTTCACTTAAATGCCATGCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
AAACTTGATTCTTTTACCTCACTATCTGTTCACACTATTTGATTGAGGTGTTGTTACTTCACTTA
AATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGCAAACTTGATTT
TTTTACCTCACTATCTGTTCA
Found at i:16584123 original size:119 final size:119
Alignment explanation
Indices: 16583903--16584141 Score: 451
Period size: 119 Copynumber: 2.0 Consensus size: 119
16583893 TATCTGTTCA
16583903 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
1 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
* *
16583968 AAACTTGATTTTTTTACTTCACTATCTTTTCACACTATTTGATTGAGGTGTTGT
66 AAACTTGATTTTTTTACCTCACTATCTGTTCACACTATTTGATTGAGGTGTTGT
16584022 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
1 TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
*
16584087 AAACTTGATTTTTTTACCTCACTATCTGTTCGCACTATTTGATTGAGGTGTTGT
66 AAACTTGATTTTTTTACCTCACTATCTGTTCACACTATTTGATTGAGGTGTTGT
16584141 T
1 T
16584142 CCCCCTTCTG
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
119 117 1.00
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.46
Consensus pattern (119 bp):
TACTTCACTTAAATGCCATTCTAGTTGCATAATATGTGTTTTCCTTTTATGAGTTTTGATGGAGC
AAACTTGATTTTTTTACCTCACTATCTGTTCACACTATTTGATTGAGGTGTTGT
Found at i:16589538 original size:2 final size:2
Alignment explanation
Indices: 16589533--16589569 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
16589523 ACACACACAC
16589533 AT AT AT AT AT 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 AT AT AT AT AT A
16589570 GCAAATGAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16593161 original size:4 final size:4
Alignment explanation
Indices: 16593154--16593183 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
16593144 CATACATACA
16593154 TACG TACG TACG TACG TACG TACG TACG TA
1 TACG TACG TACG TACG TACG TACG TACG TA
16593184 TAATGTAACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (4 bp):
TACG
Found at i:16594115 original size:2 final size:2
Alignment explanation
Indices: 16594108--16594133 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16594098 TTGGTAGTTC
16594108 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
16594134 TTATCAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16599216 original size:22 final size:22
Alignment explanation
Indices: 16599191--16599244 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
16599181 CAACAAAAGT
*
16599191 ATTCAAAATCATG-GAAAATAAA
1 ATTCAAAAGCATGTGAAAA-AAA
16599213 ATTC-AAAGCATGTGAAAAAAA
1 ATTCAAAAGCATGTGAAAAAAA
*
16599234 ATTCAACAGCA
1 ATTCAAAAGCA
16599245 ATTTTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.56, C:0.13, G:0.11, T:0.20
Consensus pattern (22 bp):
ATTCAAAAGCATGTGAAAAAAA
Found at i:16599445 original size:15 final size:14
Alignment explanation
Indices: 16599409--16599435 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16599399 CGGATTTTTA
16599409 AATTTTAAAAAATT
1 AATTTTAAAAAATT
16599423 AATTTTAAAAAAT
1 AATTTTAAAAAAT
16599436 ATATTATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTTAAAAAATT
Found at i:16599529 original size:13 final size:13
Alignment explanation
Indices: 16599511--16599536 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16599501 CGAAAGGAAT
16599511 ATAAAATTATTTA
1 ATAAAATTATTTA
16599524 ATAAAATTATTTA
1 ATAAAATTATTTA
16599537 TTATATTTTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:16599852 original size:37 final size:38
Alignment explanation
Indices: 16599798--16599878 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 38
16599788 CTCGGAATAA
* *
16599798 ATTTAATATATAATAATATTAAATAAATATATTTTA-G
1 ATTTTATATATAATAATATTAAATAAAAATATTTTATG
* *
16599835 ATTTTATATGTAATAATATTAAGTAAAAATATTTTATG
1 ATTTTATATATAATAATATTAAATAAAAATATTTTATG
16599873 -TTTTAT
1 ATTTTAT
16599879 TTTAATTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 38 0.97
38 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (38 bp):
ATTTTATATATAATAATATTAAATAAAAATATTTTATG
Found at i:16602735 original size:2 final size:2
Alignment explanation
Indices: 16602725--16602762 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
16602715 CTCTTTATTT
16602725 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16602763 TACCACACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:16608946 original size:26 final size:24
Alignment explanation
Indices: 16608917--16608968 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
16608907 TAAACGAATT
16608917 TATTTACGAATATATATAAATAAA-CA
1 TATTTA-GAA-ATA-ATAAATAAATCA
*
16608943 TATTTATAAATAATAAATAAATCA
1 TATTTAGAAATAATAAATAAATCA
16608967 TA
1 TA
16608969 ATTAAACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 9 0.38
24 7 0.29
25 2 0.08
26 6 0.25
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
TATTTAGAAATAATAAATAAATCA
Found at i:16611572 original size:12 final size:12
Alignment explanation
Indices: 16611555--16611579 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16611545 GTAGGTAGGG
16611555 TTTTTTTTTTTC
1 TTTTTTTTTTTC
16611567 TTTTTTTTTTTC
1 TTTTTTTTTTTC
16611579 T
1 T
16611580 ATTAGTGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:16614664 original size:2 final size:2
Alignment explanation
Indices: 16614652--16614726 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
16614642 TAAAAGCACT
*
16614652 TC TC AC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16614694 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16614727 TATTTTGCAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.01, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:16618449 original size:13 final size:13
Alignment explanation
Indices: 16618431--16618458 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16618421 TGAAAGGCAA
16618431 ATTTCACTTTAAT
1 ATTTCACTTTAAT
16618444 ATTTCACTTTAAT
1 ATTTCACTTTAAT
16618457 AT
1 AT
16618459 ATAGATGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTCACTTTAAT
Found at i:16623177 original size:20 final size:21
Alignment explanation
Indices: 16623138--16623178 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16623128 TTTCTTACGA
* *
16623138 TAATTATTGTTACTAATAAAT
1 TAATTACTGTCACTAATAAAT
16623159 TAATTACTGTCAC-AATAAAT
1 TAATTACTGTCACTAATAAAT
16623179 GATAACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATTACTGTCACTAATAAAT
Found at i:16627089 original size:2 final size:2
Alignment explanation
Indices: 16627082--16627111 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16627072 GGTTATGTGC
16627082 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
16627112 TGACGGTACT
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:16628849 original size:23 final size:23
Alignment explanation
Indices: 16628809--16628854 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
16628799 ATGATATATA
*
16628809 TCGTATCAACATCATAATTCGAT
1 TCGTATCAACATCATAATCCGAT
*
16628832 TCGTATCAACTTTC-TAATCCGAT
1 TCGTATCAAC-ATCATAATCCGAT
16628855 ACACTTAGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (23 bp):
TCGTATCAACATCATAATCCGAT
Found at i:16638385 original size:19 final size:19
Alignment explanation
Indices: 16638355--16638391 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16638345 ATTTATATAA
16638355 TAAAAAATTAAATAATTTTT
1 TAAAAAATTAAA-AATTTTT
16638375 TAAAAAA-TAAAAATTTT
1 TAAAAAATTAAAAATTTT
16638392 CATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAAAATTAAAAATTTTT
Found at i:16645900 original size:24 final size:25
Alignment explanation
Indices: 16645856--16645902 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
16645846 TTGAATTTTA
*
16645856 GAAGAGAGTTTGAAGTCTTAAAGAT
1 GAAGAGAGTTTGAAATCTTAAAGAT
16645881 GAAG-GAGTTTGAAAAT-TTAAAG
1 GAAGAGAGTTTG-AAATCTTAAAG
16645903 CAGTACAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.43, C:0.02, G:0.28, T:0.28
Consensus pattern (25 bp):
GAAGAGAGTTTGAAATCTTAAAGAT
Found at i:16656318 original size:6 final size:6
Alignment explanation
Indices: 16656307--16656347 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
16656297 ATTCATATAT
*
16656307 AAATTA AAATTA AAATT- ATA-TA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA A
16656348 TAAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 1 0.03
5 4 0.13
6 26 0.84
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATTA
Found at i:16656332 original size:22 final size:22
Alignment explanation
Indices: 16656296--16656353 Score: 91
Period size: 22 Copynumber: 2.6 Consensus size: 22
16656286 AATTATATTC
16656296 AATTCATATATAAATTAAAATTAA
1 AATT-ATATA-AAATTAAAATTAA
16656320 AATTATATAAAATTAAAATTAA
1 AATTATATAAAATTAAAATTAA
16656342 AATTA-ATAAAAT
1 AATTATATAAAAT
16656354 ATATTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 7 0.21
22 18 0.53
23 5 0.15
24 4 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AATTATATAAAATTAAAATTAA
Found at i:16660014 original size:15 final size:15
Alignment explanation
Indices: 16659981--16660012 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
16659971 TTATAATTAA
16659981 TAAA-AAATTTATAT
1 TAAATAAATTTATAT
16659995 TAAATAAATTT-TAT
1 TAAATAAATTTATAT
16660009 TAAA
1 TAAA
16660013 ATTAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAATAAATTTATAT
Found at i:16660310 original size:22 final size:21
Alignment explanation
Indices: 16660285--16660336 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 21
16660275 AGATATAAAA
16660285 TTTTAATTTTAATATTTATAATTT
1 TTTTAATTTTAA-A-TTATAA-TT
16660309 TTTTAATTTTAAATTATAATT
1 TTTTAATTTTAAATTATAATT
16660330 TTTTAAT
1 TTTTAAT
16660337 AAATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.32
22 6 0.21
23 1 0.04
24 12 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTAATTTTAAATTATAATT
Found at i:16660317 original size:24 final size:22
Alignment explanation
Indices: 16660285--16660333 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 22
16660275 AGATATAAAA
16660285 TTTTAATTTTAATATTTATAATTT
1 TTTTAATTTTAA-A-TTATAATTT
16660309 TTTTAATTTTAAATTATAATTT
1 TTTTAATTTTAAATTATAATTT
16660331 TTT
1 TTT
16660334 AATAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 12 0.48
23 1 0.04
24 12 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTAATTTTAAATTATAATTT
Found at i:16660341 original size:18 final size:18
Alignment explanation
Indices: 16660291--16660350 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
16660281 AAAATTTTAA
*
16660291 TTTTAAT-ATTTATAATTT
1 TTTTAATAAATTATAA-TT
16660309 TTTTAATTTTAAATTATAATT
1 TTTTAA---TAAATTATAATT
*
16660330 TTTTAATAAATTATTATT
1 TTTTAATAAATTATAATT
16660348 TTT
1 TTT
16660351 GTTGTTGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
18 20 0.56
21 9 0.25
22 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAATAAATTATAATT
Found at i:16662049 original size:47 final size:46
Alignment explanation
Indices: 16661989--16662091 Score: 129
Period size: 47 Copynumber: 2.2 Consensus size: 46
16661979 ATCTTATTAA
*
16661989 GACTAAAGAAGATTGAA-AGAGTTTTTAT-AAGTATATATATTTGAATG
1 GACTAAAG-AGATT-AAGAGAATTTTTATGAA-TATATATATTTGAATG
* *
16662036 GACTAGAAGAGATTAAGATAATTTTTATGAATGTATATATTTGAATG
1 GACTA-AAGAGATTAAGAGAATTTTTATGAATATATATATTTGAATG
16662083 GACTAAAGA
1 GACTAAAGA
16662092 AAAATGAGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
46 6 0.12
47 39 0.78
48 5 0.10
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.35
Consensus pattern (46 bp):
GACTAAAGAGATTAAGAGAATTTTTATGAATATATATATTTGAATG
Found at i:16662786 original size:38 final size:38
Alignment explanation
Indices: 16662729--16662801 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
16662719 GACGAGAATA
*
16662729 GCTAAATATTGCTTAATAGAAAAGAAAACTTATAAATG
1 GCTAAATATTACTTAATAGAAAAGAAAACTTATAAATG
* * * *
16662767 GCTAAATATTATTTGATAGATAAGAAGACTTATAA
1 GCTAAATATTACTTAATAGAAAAGAAAACTTATAA
16662802 GGAAAAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.32
Consensus pattern (38 bp):
GCTAAATATTACTTAATAGAAAAGAAAACTTATAAATG
Found at i:16663430 original size:20 final size:20
Alignment explanation
Indices: 16663393--16663429 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
16663383 CTAATTTCAT
16663393 AATATAATACAAAATTTTAA
1 AATATAATACAAAATTTTAA
*
16663413 AATA-AATATAAAATTTT
1 AATATAATACAAAATTTT
16663430 TTATAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATAATACAAAATTTTAA
Found at i:16672395 original size:25 final size:24
Alignment explanation
Indices: 16672366--16672413 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16672356 ATTTTCTTTT
*
16672366 CTCTAAGAATTCTTACAAAAAAAAA
1 CTCTAAG-ATACTTACAAAAAAAAA
* *
16672391 CTCTATGATACTTACCAAAAAAA
1 CTCTAAGATACTTACAAAAAAAA
16672414 TAATGATCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (24 bp):
CTCTAAGATACTTACAAAAAAAAA
Found at i:16675690 original size:13 final size:12
Alignment explanation
Indices: 16675647--16675688 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
16675637 GAAAGTTTGA
16675647 AAATTTTTTAAT
1 AAATTTTTTAAT
*
16675659 AAATTTATTAAAT
1 AAATTT-TTTAAT
16675672 AAATATTTTTAAT
1 AAAT-TTTTTAAT
16675685 AAAT
1 AAAT
16675689 ATATTGATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 6 0.23
13 18 0.69
14 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AAATTTTTTAAT
Found at i:16675706 original size:26 final size:26
Alignment explanation
Indices: 16675650--16675707 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
16675640 AGTTTGAAAA
*
16675650 TTTTTTAATAAATTTATTAAATAAAT
1 TTTTTTAATAAATATATTAAATAAAT
* *
16675676 ATTTTTAATAAATATATT-GATAGAAT
1 TTTTTTAATAAATATATTAAATA-AAT
16675702 TTTTTT
1 TTTTTT
16675708 TATTTAATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (26 bp):
TTTTTTAATAAATATATTAAATAAAT
Found at i:16678753 original size:18 final size:18
Alignment explanation
Indices: 16678713--16678753 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
16678703 AATTTAATAA
*
16678713 AAAATATTTTAAAAAATT
1 AAAATATTTTAAAAAATC
*
16678731 TAAATATTTTAAAAAATC
1 AAAATATTTTAAAAAATC
16678749 AAAAT
1 AAAAT
16678754 TTAAACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATATTTTAAAAAATC
Found at i:16679259 original size:16 final size:15
Alignment explanation
Indices: 16679240--16679275 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
16679230 CATTTCATTT
*
16679240 TTATTAATTTTATATA
1 TTATTAACTTTATA-A
16679256 TTATTAACTTTATAA
1 TTATTAACTTTATAA
16679271 TTATT
1 TTATT
16679276 TTTAATTACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTAACTTTATAA
Found at i:16686560 original size:19 final size:19
Alignment explanation
Indices: 16686536--16686572 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16686526 TTTAATTTTA
16686536 AATTTTATAAATAAAATTT
1 AATTTTATAAATAAAATTT
* *
16686555 AATTTTTTAAATAGAATT
1 AATTTTATAAATAAAATT
16686573 CCATTCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
AATTTTATAAATAAAATTT
Done.