Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006651.1 Hibiscus syriacus cultivar Beakdansim tig00016410_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: 122554
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:577 original size:28 final size:26
Alignment explanation
Indices: 537--594 Score: 98
Period size: 28 Copynumber: 2.2 Consensus size: 26
527 AATTTAGTTA
537 ATTAGTTTGTTAGTTTAAGTTATATTAT
1 ATTAGTTTGTTAGTTTAAGTT-TA-TAT
565 ATTAGTTTGTTAGTTTAAGTTTATAT
1 ATTAGTTTGTTAGTTTAAGTTTATAT
591 ATTA
1 ATTA
595 TTATATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 7 0.23
27 2 0.07
28 21 0.70
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (26 bp):
ATTAGTTTGTTAGTTTAAGTTTATAT
Found at i:1137 original size:20 final size:21
Alignment explanation
Indices: 1093--1137 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1083 AATCATTATT
* *
1093 ATTAGTAACAATTACTAAATG
1 ATTAGTAACAAATACTAAATC
*
1114 ATTAGTATCAAATA-TAAATC
1 ATTAGTAACAAATACTAAATC
1134 ATTA
1 ATTA
1138 AATATTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (21 bp):
ATTAGTAACAAATACTAAATC
Found at i:4141 original size:60 final size:59
Alignment explanation
Indices: 4073--4594 Score: 630
Period size: 60 Copynumber: 9.1 Consensus size: 59
4063 TTTATAAGAT
* *
4073 TTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
* *
4132 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
4192 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAG---T-A
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
4248 --A-T-A--ATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
*
4301 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
*
4360 TTTAGTAATGATTAATAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
* * * * * * *
4420 TTAGTAAT-AAT-GAAATTATTATTAATTTTTAATGATTTGATAATAATGA-TT--TAGTAATGA
1 TTAGTAATGATTAGTAATAATGA--AATTATTATTAATTT--T--TAATGATTTGATAGTAATGA
* *
4480 -T--TAAT-A--A-TAAT-A--AAATTATTATTAATATTTAATGATTTGATATTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
4529 TTTAGTAATGATTAGTAATAATG-AATTATTATTAA-TTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
4587 TTAGTAAT
1 TTAGTAAT
4595 AATGAAATTA
Statistics
Matches: 407, Mismatches: 23, Indels: 67
0.82 0.05 0.13
Matches are distributed among these distances:
46 6 0.01
47 2 0.00
48 1 0.00
49 52 0.13
50 11 0.03
51 2 0.00
52 3 0.01
53 6 0.01
54 2 0.00
55 4 0.01
56 3 0.01
57 25 0.06
58 24 0.06
59 82 0.20
60 175 0.43
61 1 0.00
62 2 0.00
63 6 0.01
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (59 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
Found at i:4147 original size:21 final size:21
Alignment explanation
Indices: 4070--4210 Score: 68
Period size: 21 Copynumber: 7.0 Consensus size: 21
4060 TGTTTTATAA
4070 GATTTAGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAAT
* * *
4091 GA--T-GAAATTATTATTAAT
1 GATTTAGTAATGATTAGTAAT
* *
4109 -ATTTAATGATTTGA-TAGTAAT
1 GATTTAGT-A-ATGATTAGTAAT
4130 GATTTAGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAAT
* * * *
4151 -A-AT-GAAATTATTATTAAT
1 GATTTAGTAATGATTAGTAAT
* * *
4169 -ATTTAATGATTTGA-TATTAAT
1 GATTTAGT-A-ATGATTAGTAAT
4190 GATTTAGTAATGATTAGTAAT
1 GATTTAGTAATGATTAGTAAT
4211 AATGAAATTA
Statistics
Matches: 85, Mismatches: 22, Indels: 26
0.64 0.17 0.20
Matches are distributed among these distances:
17 1 0.01
18 25 0.29
19 4 0.05
20 7 0.08
21 32 0.38
22 16 0.19
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
GATTTAGTAATGATTAGTAAT
Found at i:4247 original size:39 final size:44
Alignment explanation
Indices: 4185--4724 Score: 152
Period size: 49 Copynumber: 10.3 Consensus size: 44
4175 TGATTTGATA
4185 TTAATGATTTAGTA-ATGATTAGTAATAATGAAATTATTATTAATTT
1 TTAATGATTTA-TAGA--ATTAGTAATAATGAAATTATTATTAATTT
4231 TTAATGATTTGATAGTAATAATTAGTAATAATGAAATTATTATTAATTT
1 TTAATGATTT-ATAG----AATTAGTAATAATGAAATTATTATTAATTT
*
4280 TTAATGATTTGATAGTAATGATTAGTAATGATTAGTAATAATGAAATTATTATTAATAT
1 TT-A--A--TGAT--T--T-A-TAG--A--ATTAGTAATAATGAAATTATTATTAATTT
4339 TTAATGATTTGATAGTAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATTT
1 TTAATGATTT-ATAG--A--A--T--T-A-G-----TAATAATGAAATTATTATTAATTT
4399 TTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATTT
1 TTAATGATTT-ATAG--A--ATTAGTAATAATGAAATTATTATTAATTT
* * *
4448 TTAATGATTTGATAATAATGATTTAGTAATGATTAATAATAATAAAATTATTATTAATAT
1 TTAATGA-TT--T-AT-A-GA---A-T------TAGTAATAATGAAATTATTATTAATTT
* * * * *
4508 TTAATGATTTGATATTAATGATTTAGTAATGATTAGTAATAATGAATTATTATTAATT
1 TTAATGATTT-ATA-GAATTA-GTAATAATG---A--AAT--T--ATTATTA--ATTT
4566 TTAATGATTTGATAGTAATGATTAGTAATAATGAAATTATTATTAATTT
1 TTAATGATTT-ATAG--A--ATTAGTAATAATGAAATTATTATTAATTT
4615 TTAATGATTTGATAGTAATGATTAGTAATAATG-AATTATTA-TAATTT
1 TTAATGATTT-ATAG--A--ATTAGTAATAATGAAATTATTATTAATTT
*
4662 TTAATGATTTGATAGTAATGATTAGTAATATTGAAATTATTATTAA-TT
1 TTAATGATTT-ATAG--A--ATTAGTAATAATGAAATTATTATTAATTT
4710 TTAATGATTTGATAG
1 TTAATGATTT-ATAG
4725 TAATAATTAG
Statistics
Matches: 411, Mismatches: 23, Indels: 118
0.74 0.04 0.21
Matches are distributed among these distances:
46 13 0.03
47 45 0.11
48 33 0.08
49 110 0.27
50 7 0.02
51 9 0.02
52 10 0.02
53 6 0.01
54 13 0.03
55 5 0.01
56 13 0.03
57 5 0.01
58 21 0.05
59 36 0.09
60 82 0.20
61 3 0.01
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (44 bp):
TTAATGATTTATAGAATTAGTAATAATGAAATTATTATTAATTT
Found at i:4248 original size:109 final size:108
Alignment explanation
Indices: 4134--4857 Score: 849
Period size: 109 Copynumber: 6.6 Consensus size: 108
4124 AGTAATGATT
*
4134 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-TTAGTA
4199 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
65 ATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* *
4243 TAGTAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGATTAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
*
4308 TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
66 TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* * * * * * * *
4351 TAGTAATGATTTAGTAATGAT-TAATAATAATGAAATTATTATTAAT-TTTTAAT-G-ATTTGA-
1 TAGTAATGA-TTAGTAATAATGAAATTATTAT-TAA-TA-T-TTAATGATTTGATAGTA-ATGAT
4411 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAATAATGA
60 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTT-A--A--TGAT--T--TGA
* * *
4469 TTTAGTAATGATTAATAATAATAAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAG
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA-TTAG
4534 TAATGATTAGTAATAATG-AATTATTATTAA-TTTTAATGATTTGA
63 TAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
4578 TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTT--T-A-ATGAT--T--TGA-TAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
4633 TGATTAGTAATAATG-AATTATTA-TAATTTTTAATGATTTGA
66 TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* *
4674 TAGTAATGATTAGTAATATTGAAATTATTATTAAT-TTTAATGATTTGATAGTAATAATTAGTAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
*
4738 TGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
66 TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
* *
4781 TATTAATGATTTAGTAATGATTAATAATAAGGAAATTATTATTAATTTTTAATGATTTGATAGTA
1 TAGTAATGA--T--T-A-G--TAATAAT---GAAATTATTATTAATATTTAATGATTTGATAGTA
4846 ATGATTAGTAAT
55 ATGATTAGTAAT
4858 AATAATTTAT
Statistics
Matches: 533, Mismatches: 35, Indels: 84
0.82 0.05 0.13
Matches are distributed among these distances:
95 3 0.01
96 80 0.15
98 4 0.01
99 1 0.00
100 5 0.01
102 5 0.01
103 1 0.00
104 3 0.01
105 21 0.04
106 11 0.02
107 58 0.11
108 64 0.12
109 110 0.21
110 6 0.01
111 8 0.02
112 7 0.01
113 5 0.01
114 4 0.01
115 7 0.01
116 6 0.01
117 7 0.01
118 27 0.05
119 53 0.10
120 37 0.07
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (108 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGATTAGTAA
TGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:4255 original size:49 final size:49
Alignment explanation
Indices: 4194--4900 Score: 664
Period size: 60 Copynumber: 13.3 Consensus size: 49
4184 ATTAATGATT
4194 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
4243 TAGTAATAATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTT-A--A--TGAT--T--TGA
*
4301 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
4351 TAGTAATGATTTAGTAATGATTAATAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGA--T--T-A-G-----TAATAATGAAATTATTATTAATTTTTAATGATTTGA
4411 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAATAATGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTT-A--A--TGAT--T--TGA
* * *
4469 TTTAGTAATGATTAATAATAATAAAATTATTATTAATATTTAATGATTTGATATTAATGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAAT-TTT--T-AAT-G--ATT--TGA
4529 TTTAGTAATGATTAGTAATAATG-AATTATTATTAA-TTTTAATGATTTGA
1 --TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
4578 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
4627 TAGTAATGATTAGTAATAATG-AATTATTA-TAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
4674 TAGTAATGATTAGTAATATTGAAATTATTATTAA-TTTTAATGATTTGATAGTAATAA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGA-TT--T-G-----A
*
4731 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
1 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
4781 TATTAATGATTTAGTAATGATTAATAATAAGGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGA--T--T-A-G--TAATAAT---GAAATTATTATTAATTTTTAATGATTTGA
4841 TAGTAATGATTAGTAATAAT--AA-T-TTATT-A--TTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
*
4883 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
4901 GATTTGATAG
Statistics
Matches: 575, Mismatches: 18, Indels: 136
0.79 0.02 0.19
Matches are distributed among these distances:
42 21 0.04
43 8 0.01
44 1 0.00
45 5 0.01
46 1 0.00
47 61 0.11
48 37 0.06
49 124 0.22
50 6 0.01
51 6 0.01
52 11 0.02
53 3 0.01
54 18 0.03
55 6 0.01
56 6 0.01
57 11 0.02
58 44 0.08
59 58 0.10
60 141 0.25
61 3 0.01
62 2 0.00
63 2 0.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:4305 original size:10 final size:10
Alignment explanation
Indices: 4292--4318 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4282 AATGATTTGA
4292 TAGTAATGAT
1 TAGTAATGAT
4302 TAGTAATGAT
1 TAGTAATGAT
4312 TAGTAAT
1 TAGTAAT
4319 AATGAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
TAGTAATGAT
Found at i:4644 original size:96 final size:97
Alignment explanation
Indices: 4531--4900 Score: 443
Period size: 96 Copynumber: 3.7 Consensus size: 97
4521 ATTAATGATT
4531 TAGTAATGATTAGTAATAATGAATTATTATTAATTTTAATGATTTGATAGTAATGA-TTAGTAAT
1 TAGTAATGATTAGTAATAATGAATTATTATTAATTTTAATGATTTGATAGTAATGATTTAGTAAT
4595 AATGAAATTATTATTAATTTTTAATGATTTGA
66 AATGAAATTATTATTAATTTTTAATGATTTGA
4627 TAGTAATGATTAGTAATAATGAATTATTA-TAATTTTTAATGATTTGATAGTAATGA-TTAGTAA
1 TAGTAATGATTAGTAATAATGAATTATTATTAA-TTTTAATGATTTGATAGTAATGATTTAGTAA
*
4690 TATTGAAATTATTATTAA-TTTTAATGATTTGATAGTAATAA
65 TAATGAAATTATTATTAATTTTTAATGA-TT--T-G-----A
*
4731 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATATTAATGATTTAGT
1 -TAGTAATGATTAGTAATAATG-AATTATTATTAAT-TTTAATGATTTGATAGTAATGA-TT--T
4796 AATGATTAATAATAAGGAAATTATTATTAATTTTTAATGATTTGA
60 -A-G--TAATAAT---GAAATTATTATTAATTTTTAATGATTTGA
*
4841 TAGTAATGATTAGTAATAAT-AA-T-TTATT-A-TTTAATGATTTGATATTAATGATTTAGTAAT
1 TAGTAATGATTAGTAATAATGAATTATTATTAATTTTAATGATTTGATAGTAATGATTTAGTAAT
4901 GATTTGATAG
Statistics
Matches: 245, Mismatches: 3, Indels: 53
0.81 0.01 0.18
Matches are distributed among these distances:
95 16 0.07
96 78 0.32
97 1 0.00
98 2 0.01
99 2 0.01
101 2 0.01
102 22 0.09
104 2 0.01
105 26 0.11
106 10 0.04
107 26 0.11
109 21 0.09
110 1 0.00
111 1 0.00
112 1 0.00
113 1 0.00
115 7 0.03
116 1 0.00
118 16 0.07
119 9 0.04
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (97 bp):
TAGTAATGATTAGTAATAATGAATTATTATTAATTTTAATGATTTGATAGTAATGATTTAGTAAT
AATGAAATTATTATTAATTTTTAATGATTTGA
Found at i:4737 original size:10 final size:10
Alignment explanation
Indices: 4722--4751 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4712 AATGATTTGA
4722 TAGTAATAAT
1 TAGTAATAAT
*
4732 TAGTAATGAT
1 TAGTAATAAT
4742 TAGTAATAAT
1 TAGTAATAAT
4752 GAAATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (10 bp):
TAGTAATAAT
Found at i:4849 original size:14 final size:14
Alignment explanation
Indices: 4830--4919 Score: 82
Period size: 14 Copynumber: 6.6 Consensus size: 14
4820 TATTAATTTT
4830 TAATGATTTGATAG
1 TAATGATTTGATAG
* *
4844 TAATGATTAG-TAA
1 TAATGATTTGATAG
* *
4857 TAATAATTT-ATTATT
1 TAATGATTTGA-TA-G
*
4872 TAATGATTTGATAT
1 TAATGATTTGATAG
4886 TAATGA-TT--TAG
1 TAATGATTTGATAG
4897 TAATGATTTGATAG
1 TAATGATTTGATAG
4911 TAATGATTT
1 TAATGATTT
4920 ACGACTTGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
11 8 0.13
12 2 0.03
13 11 0.18
14 30 0.48
15 10 0.16
16 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:4904 original size:25 final size:25
Alignment explanation
Indices: 4872--4920 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
4862 ATTTATTATT
*
4872 TAATGATTTGATATTAATGATTTAG
1 TAATGATTTGATAGTAATGATTTAG
4897 TAATGATTTGATAGTAATGATTTA
1 TAATGATTTGATAGTAATGATTTA
4921 CGACTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
TAATGATTTGATAGTAATGATTTAG
Found at i:7496 original size:22 final size:21
Alignment explanation
Indices: 7458--7498 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7448 TTTATGTATA
*
7458 ATATAACTTAAACTAACAATC
1 ATATAACCTAAACTAACAATC
*
7479 ATATAACCCTAAATTAACAA
1 ATATAA-CCTAAACTAACAA
7499 ACTAATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.20, G:0.00, T:0.27
Consensus pattern (21 bp):
ATATAACCTAAACTAACAATC
Found at i:7635 original size:13 final size:13
Alignment explanation
Indices: 7596--7642 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
7586 CTCACAAGAG
7596 CCTTATCTCCCTTT
1 CCTT-TCTCCCTTT
* *
7610 CTTCTTCTTCCTTT
1 CCT-TTCTCCCTTT
7624 CCTTTCTCCCTTT
1 CCTTTCTCCCTTT
7637 -CTTTCT
1 CCTTTCT
7643 TTCTCGGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 9 0.32
14 12 0.43
15 1 0.04
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (13 bp):
CCTTTCTCCCTTT
Found at i:7687 original size:26 final size:26
Alignment explanation
Indices: 7641--7698 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
7631 CCCTTTCTTT
*
7641 CTTTC-TCGGCTGCAATTTCTTCTCC
1 CTTTCTTCGGCTGCAATCTCTTCTCC
*
7666 CTTTCTTCTGCTGCAATCTCTTCTCC
1 CTTTCTTCGGCTGCAATCTCTTCTCC
7692 CTTTCTT
1 CTTTCTT
7699 TCTTTTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.17
26 25 0.83
ACGTcount: A:0.07, C:0.36, G:0.09, T:0.48
Consensus pattern (26 bp):
CTTTCTTCGGCTGCAATCTCTTCTCC
Found at i:8031 original size:29 final size:29
Alignment explanation
Indices: 7948--8036 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
7938 CGTGAAGCTT
* * *
7948 GGTCGCCGGGATTGCTTGGCGACC-TGCAA
1 GGTCGCTGGGAGTGCTTGGCGACCTTG-TA
*
7977 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCTTGGCGACCTTGTA
*
8006 GGTCGCTGGGAGTGCTTGGCAACCTTGTA
1 GGTCGCTGGGAGTGCTTGGCGACCTTGTA
8035 GG
1 GG
8037 GGTGTTGGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 51 0.96
30 2 0.04
ACGTcount: A:0.13, C:0.22, G:0.40, T:0.24
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCTTGGCGACCTTGTA
Found at i:8180 original size:29 final size:29
Alignment explanation
Indices: 8137--8220 Score: 114
Period size: 29 Copynumber: 2.9 Consensus size: 29
8127 CTTTTGATAG
* * * *
8137 AATGTCGCATGGCCTTCGTGGCGACCAAC
1 AATGGCGCATAGCCTACATGGCGACCAAC
8166 AATGGCGCATAGCCTACATGGCGACCAAC
1 AATGGCGCATAGCCTACATGGCGACCAAC
* *
8195 AATGGCGCACAGCCTGCATGGCGACC
1 AATGGCGCATAGCCTACATGGCGACC
8221 TAAATAGGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.25, C:0.32, G:0.27, T:0.15
Consensus pattern (29 bp):
AATGGCGCATAGCCTACATGGCGACCAAC
Found at i:16760 original size:22 final size:22
Alignment explanation
Indices: 16709--16761 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
16699 CTTTGGTTGA
*
16709 TCTGTATCGTCCTCCTTCGAGG
1 TCTGTATTGTCCTCCTTCGAGG
16731 TCTGTATTGTCCTCCTTCGAGG
1 TCTGTATTGTCCTCCTTCGAGG
*
16753 TTTGTATTG
1 TCTGTATTG
16762 ACTAAGTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (22 bp):
TCTGTATTGTCCTCCTTCGAGG
Found at i:17837 original size:2 final size:2
Alignment explanation
Indices: 17832--17879 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
17822 ATATCAAGTC
17832 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
17874 AT AT AT
1 AT AT AT
17880 GCAGGAAGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18714 original size:26 final size:26
Alignment explanation
Indices: 18684--18735 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
18674 CTTTCCTGTT
18684 TGGCCCATCTCTCGCTGAATTTTCTG
1 TGGCCCATCTCTCGCTGAATTTTCTG
* *
18710 TGGCCCATTTCTCGCTGAGTTTTCTG
1 TGGCCCATCTCTCGCTGAATTTTCTG
18736 AGGCTTGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.10, C:0.29, G:0.21, T:0.40
Consensus pattern (26 bp):
TGGCCCATCTCTCGCTGAATTTTCTG
Found at i:22114 original size:24 final size:24
Alignment explanation
Indices: 22069--22114 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
22059 TGATTTATGT
*
22069 TGATGACTTGTTGATCACTGGCAA
1 TGATGACTTGTTGATCAATGGCAA
*
22093 TGATGA-TTGTTTGATTAATGGC
1 TGATGACTTG-TTGATCAATGGC
22115 TTGAAGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (24 bp):
TGATGACTTGTTGATCAATGGCAA
Found at i:31302 original size:5 final size:5
Alignment explanation
Indices: 31292--31356 Score: 69
Period size: 5 Copynumber: 12.8 Consensus size: 5
31282 AACGGTCAAC
* * *
31292 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCA GGTCG GGT-T GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
*
31343 GGTCG GGTTG GGTC
1 GGTCG GGTCG GGTC
31357 AGACCGGTCA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
4 3 0.06
5 42 0.86
7 4 0.08
ACGTcount: A:0.05, C:0.18, G:0.54, T:0.23
Consensus pattern (5 bp):
GGTCG
Found at i:31310 original size:22 final size:22
Alignment explanation
Indices: 31285--31332 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
31275 GGAAGTCAAC
*
31285 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCA
31307 GGTCAACGGTCGGGTCGGGTCA
1 GGTCAACGGTCGGGTCGGGTCA
31329 GGTC
1 GGTC
31333 GGGTTGGTCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.10, C:0.23, G:0.48, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCA
Found at i:31346 original size:14 final size:14
Alignment explanation
Indices: 31314--31358 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
31304 TCGGGTCAAC
*
31314 GGTCGGGTCGGGTCA
1 GGTCGGGT-TGGTCA
*
31329 GGTCGGGTTGGTCG
1 GGTCGGGTTGGTCA
31343 GGTCGGGTTGGGTCA
1 GGTCGGGTT-GGTCA
31358 G
1 G
31359 ACCGGTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.04, C:0.16, G:0.56, T:0.24
Consensus pattern (14 bp):
GGTCGGGTTGGTCA
Found at i:31371 original size:9 final size:9
Alignment explanation
Indices: 31353--31411 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
31343 GGTCGGGTTG
*
31353 GGTCAGACC
1 GGTCAAACC
31362 GGTCAAACC
1 GGTCAAACC
*
31371 GGTTCAGACC
1 GG-TCAAACC
*
31381 GGTCAAAAC
1 GGTCAAACC
*
31390 GGTTCGAACC
1 GG-TCAAACC
31400 GGTCAAACC
1 GGTCAAACC
31409 GGT
1 GGT
31412 TTCCAGCAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 26 0.63
10 15 0.37
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:31377 original size:19 final size:19
Alignment explanation
Indices: 31355--31412 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
31345 TCGGGTTGGG
31355 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
31374 TCAGACCGGTCAAAACGGT
1 TCAGACCGGTCAAACCGGT
31393 TC-GAACCGGTCAAACCGGT
1 TCAG-ACCGGTCAAACCGGT
31412 T
1 T
31413 TCCAGCAGCG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 1 0.03
19 35 0.97
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:39042 original size:21 final size:20
Alignment explanation
Indices: 38956--39113 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
38946 AAATGACCAA
**
38956 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
38975 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
38995 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
39015 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
39036 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
39057 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
39077 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
39098 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
39114 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:39104 original size:20 final size:20
Alignment explanation
Indices: 39080--39273 Score: 210
Period size: 20 Copynumber: 9.7 Consensus size: 20
39070 CGATTTTCCA
** *
39080 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
39100 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
39120 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
39140 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
39160 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
39180 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
39200 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
39220 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
39240 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
39260 AAATCGCAACGCGA
1 AAATCGCAACGCGA
39274 TATTTAAAGC
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 148 0.99
21 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:39693 original size:33 final size:33
Alignment explanation
Indices: 39654--39724 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
39644 TTCACTTAGA
* *
39654 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
39687 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
39720 TTTCA
1 TTTCA
39725 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:39861 original size:41 final size:38
Alignment explanation
Indices: 39797--39913 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
39787 TTCAATTTGC
* *
39797 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
39835 AGAATGACTGTCGCAACGAGAGAAATGACAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
39876 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
39909 AGAAT
1 AGAAT
39914 CGCAACGCGA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
33 22 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.45, C:0.18, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:39877 original size:21 final size:21
Alignment explanation
Indices: 39804--39879 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
39794 TGCAGAAGAG
* *
39804 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGACAA
**
39825 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGACAA
39845 TCGCAACGAGAGAAATGACAA
1 TCGCAACGAGAGAAATGACAA
39866 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
39880 TCGCAACGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGACAA
Found at i:39883 original size:14 final size:14
Alignment explanation
Indices: 39864--39920 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
39854 GAGAAATGAC
39864 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
39878 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
39897 AATCGCAACGAGAG
1 AATCGCAACGAGAG
39911 AATCGCAACG
1 AATCGCAACG
39921 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:39901 original size:33 final size:33
Alignment explanation
Indices: 39856--39936 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
39846 CGCAACGAGA
*
39856 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
39889 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
39922 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
39937 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:41941 original size:93 final size:93
Alignment explanation
Indices: 41683--42152 Score: 894
Period size: 92 Copynumber: 5.1 Consensus size: 93
41673 TAGATTGCTT
*
41683 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
41748 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
41776 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
41840 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
41868 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
41933 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
41961 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42025 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42052 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42117 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42144 AGTAAATTT
1 AGTAAATTT
42153 ATCCATTCAA
Statistics
Matches: 372, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
91 73 0.20
92 151 0.41
93 148 0.40
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:42024 original size:185 final size:185
Alignment explanation
Indices: 41683--42152 Score: 892
Period size: 185 Copynumber: 2.6 Consensus size: 185
41673 TAGATTGCTT
*
41683 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
41748 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
41812 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTG-TTTGTCTTTTGGTTGAA
41868 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
41933 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
41998 GTGTATTCTATAACACTGTG-AATAGTATTTGTCTTTGTTTGTCTTTTGGTTGAA
131 GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTGTCTTTTGGTTGAA
42052 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42117 TTTGTCTTTG-TTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
42153 ATCCATTCAA
Statistics
Matches: 282, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
183 26 0.09
184 92 0.33
185 115 0.41
186 49 0.17
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTATAACACTGTGAAATAGTATTTGTCTTTGTTTGTCTTTTGGTTGAA
Found at i:42236 original size:19 final size:19
Alignment explanation
Indices: 42196--42324 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
42186 TAGTTTACTT
* *
42196 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
42216 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
42235 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
42254 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
42268 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
42287 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
42301 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
42320 TCGCA
1 TCGCA
42325 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:42275 original size:33 final size:32
Alignment explanation
Indices: 42232--42324 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
42222 CGCGAAACCA
**
42232 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
42264 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
42297 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
42325 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:42322 original size:52 final size:52
Alignment explanation
Indices: 42196--42324 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
42186 TAGTTTACTT
**
42196 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
42248 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
42301 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
42325 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:42342 original size:19 final size:19
Alignment explanation
Indices: 42320--42454 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
42310 GAAACCAAAA
*
42320 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
42339 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
42355 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
42372 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
42388 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
42405 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
42424 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
42444 TCGTGTTGCGA
1 TCGCGTTGCGA
42455 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:42361 original size:14 final size:14
Alignment explanation
Indices: 42342--42398 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
42332 TTTCATTTCG
42342 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
42356 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
42373 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
42389 CGTTGCGATT
1 CGTTGCGATT
42399 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:42367 original size:33 final size:33
Alignment explanation
Indices: 42325--42417 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
42315 CAAAATCGCA
*
42325 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
42358 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
42391 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
42418 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:44397 original size:14 final size:14
Alignment explanation
Indices: 44378--44413 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
44368 ATTGTTTAAT
44378 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
44392 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
44406 TGATTTGT
1 TGATTTGT
44414 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:44544 original size:19 final size:19
Alignment explanation
Indices: 44520--44619 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
44510 AAAATTGACT
44520 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
44539 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
44558 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
44572 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
44591 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
44611 ATCGCAATG
1 ATCGCAATG
44620 GGAGAATCGC
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.53
20 18 0.25
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:44649 original size:53 final size:53
Alignment explanation
Indices: 44520--44636 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
44510 AAAATTGACT
44520 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
44572 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
44625 ATCGCAATGCGA
1 ATCGCAATGCGA
44637 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:44654 original size:19 final size:19
Alignment explanation
Indices: 44626--44774 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
44616 AATGGGAGAA
* *
44626 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
44645 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
44661 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
44678 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
44697 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
44713 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
44730 TCGCATTGCGA--TTC---
1 TCGCATTGCGATTTTCATT
*
44744 TCTCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
44763 TCCGCATTGCGA
1 T-CGCATTGCGA
44775 AATGTAATGG
Statistics
Matches: 107, Mismatches: 7, Indels: 31
0.74 0.05 0.21
Matches are distributed among these distances:
14 22 0.21
16 17 0.16
17 17 0.16
19 42 0.39
20 9 0.08
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:44689 original size:52 final size:52
Alignment explanation
Indices: 44626--44742 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
44616 AATGGGAGAA
*
44626 TCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
* *
44678 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
44730 TCGCATTGCGATT
1 TCGCATTGCGATT
44743 CTCTCATTGC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
Found at i:44720 original size:33 final size:33
Alignment explanation
Indices: 44681--44774 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
44671 TTTCATTTCG
44681 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
*
44714 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
44747 CATTGCGATTTTCATTTCCGCATTGCGA
1 CATTGCGATTTTCATTT-CGCATTGCGA
44775 AATGTAATGG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 48 0.83
34 10 0.17
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:44857 original size:19 final size:19
Alignment explanation
Indices: 44833--44930 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
44823 AAAATTGACT
44833 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
44852 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
44871 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
44885 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
44904 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
44924 ATCGCAA
1 ATCGCAA
44931 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:44962 original size:53 final size:53
Alignment explanation
Indices: 44833--44949 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
44823 AAAATTGACT
44833 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
44885 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
44938 ATCGCAATGCGA
1 ATCGCAATGCGA
44950 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:47282 original size:12 final size:12
Alignment explanation
Indices: 47265--47289 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47255 TCTTCGGGGA
47265 CTTTTTCTTCTT
1 CTTTTTCTTCTT
47277 CTTTTTCTTCTT
1 CTTTTTCTTCTT
47289 C
1 C
47290 AGGATTATAT
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:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:47498 original size:24 final size:24
Alignment explanation
Indices: 47464--47510 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
47454 CTGAAACATC
47464 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
47488 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
47511 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:48440 original size:20 final size:20
Alignment explanation
Indices: 48190--48439 Score: 261
Period size: 20 Copynumber: 12.5 Consensus size: 20
48180 AAATTTCAGT
* * *
48190 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
48210 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
48230 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
48250 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
48270 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
48290 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
48310 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
48330 ATTGCGATTTACCCATAT-GC
1 GTTGCGATTTACGGAT-TCGC
*
48350 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
48370 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
48390 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
48410 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
48430 GTTGCGATTT
1 GTTGCGATTT
48440 TGGAAAATCG
Statistics
Matches: 198, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:48456 original size:21 final size:21
Alignment explanation
Indices: 48426--48508 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
48416 ATTTTCATAT
*
48426 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
48447 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
48468 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
48489 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
48509 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:48499 original size:42 final size:43
Alignment explanation
Indices: 48406--48504 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
48396 ATTTATGTGT
* *
48406 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
48447 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
48489 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
48505 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:52536 original size:16 final size:16
Alignment explanation
Indices: 52515--52574 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
52505 ACCCAACCTG
52515 TTTCAACCTGACATGT
1 TTTCAACCTGACATGT
*
52531 TTTCAACCTGACCTGT
1 TTTCAACCTGACATGT
* * *
52547 TTTTAACCTGACTTAT
1 TTTCAACCTGACATGT
*
52563 TTTTAACCTGAC
1 TTTCAACCTGAC
52575 CTGTAAATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (16 bp):
TTTCAACCTGACATGT
Found at i:52558 original size:32 final size:32
Alignment explanation
Indices: 52510--52578 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
52500 GTATTACCCA
*
52510 ACCTG-TTTCAACCTGACATGTTTTCAACCTG
1 ACCTGTTTTCAACCTGACATATTTTCAACCTG
* * *
52541 ACCTGTTTTTAACCTGACTTATTTTTAACCTG
1 ACCTGTTTTCAACCTGACATATTTTCAACCTG
52573 ACCTGT
1 ACCTGT
52579 AAATGATCCG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 5 0.15
32 28 0.85
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.41
Consensus pattern (32 bp):
ACCTGTTTTCAACCTGACATATTTTCAACCTG
Found at i:52798 original size:22 final size:22
Alignment explanation
Indices: 52768--52837 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
52758 AAATAGACCT
52768 ATTATATAAAATTATTTAATAAA
1 ATTA-ATAAAATTATTTAATAAA
* *
52791 ATTAATAAACTTATTTAAATGTAA
1 ATTAATAAAATTATTT-AAT-AAA
*
52815 ATTAAATAAAATATAATTAATAA
1 ATT-AATAAAAT-TATTTAATAA
52838 TGCAAAAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 11 0.29
23 7 0.18
24 6 0.16
25 10 0.26
26 4 0.11
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (22 bp):
ATTAATAAAATTATTTAATAAA
Found at i:52872 original size:14 final size:14
Alignment explanation
Indices: 52855--52896 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
52845 GAAAATTAAA
52855 ATAATTTAATTTAT
1 ATAATTTAATTTAT
52869 AT-A---AATTTAT
1 ATAATTTAATTTAT
52879 ATAATTTAATTTAT
1 ATAATTTAATTTAT
52893 ATAA
1 ATAA
52897 ATAAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATTTAATTTAT
Found at i:52874 original size:24 final size:24
Alignment explanation
Indices: 52847--52918 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
52837 ATGCAAAAGA
52847 AAATTAAAATAATTTAATTTATAT
1 AAATTAAAATAATTTAATTTATAT
* *
52871 AAATTTATATAATTTAATTTATAT
1 AAATTAAAATAATTTAATTTATAT
52895 AAA-TAAAA-AA--TAATATTATAT
1 AAATTAAAATAATTTAAT-TTATAT
52916 AAA
1 AAA
52919 ATAACTTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
20 4 0.09
21 9 0.21
22 2 0.05
23 3 0.07
24 25 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATTAAAATAATTTAATTTATAT
Found at i:57102 original size:61 final size:61
Alignment explanation
Indices: 57017--57161 Score: 188
Period size: 61 Copynumber: 2.4 Consensus size: 61
57007 TATCTCTAGT
*
57017 TTTAAA-TTTATTCAATTTAGTCCAAAATTAATGATT-TAATATATTAATTTAAGCGTC-TA
1 TTTAAATTTTATTCAATTTAATCCAAAATTAAT-ATTATAATATATTAATTTAAGCGTCATA
* * * * *
57076 TTTCATATTTTTTTCAATTTAATCCAAATTTAATATTATAATTTATTAATTTAAGCTTCATA
1 TTT-AAATTTTATTCAATTTAATCCAAAATTAATATTATAATATATTAATTTAAGCGTCATA
*
57138 TTTAAATTTTATTCAATTTGATCC
1 TTTAAATTTTATTCAATTTAATCC
57162 TTATATATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 3 0.04
60 5 0.07
61 60 0.82
62 5 0.07
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.50
Consensus pattern (61 bp):
TTTAAATTTTATTCAATTTAATCCAAAATTAATATTATAATATATTAATTTAAGCGTCATA
Found at i:57250 original size:33 final size:33
Alignment explanation
Indices: 57213--57326 Score: 145
Period size: 33 Copynumber: 3.7 Consensus size: 33
57203 ATTAATAAAT
57213 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
57246 TAATATATAGTTTGTATATAC-------C-ATA
1 TAATATATAGTTTATATATACTAATGAACTATA
* *
57271 TACTATATAGGTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
57304 TAATATATAGTTTATATATACTA
1 TAATATATAGTTTATATATACTA
57327 TATAGTTTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
25 21 0.31
26 1 0.01
32 1 0.01
33 44 0.66
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:57289 original size:18 final size:18
Alignment explanation
Indices: 57268--57408 Score: 118
Period size: 18 Copynumber: 8.2 Consensus size: 18
57258 TGTATATACC
*
57268 ATATACTATATAGGTTAT
1 ATATACTATATAGTTTAT
*
57286 ATATACTA-AT-G--AACT
1 ATATACTATATAGTTTA-T
*
57301 ATATAATATATAGTTTAT
1 ATATACTATATAGTTTAT
57319 ATATACTATATAGTTTAT
1 ATATACTATATAGTTTAT
*
57337 ATATACTA-AT-G--AACT
1 ATATACTATATAGTTTA-T
*
57352 ATATAATATATAGTTTAT
1 ATATACTATATAGTTTAT
* **
57370 ATATAATGCATAGTTTAT
1 ATATACTATATAGTTTAT
* *
57388 ATATACCATATAGTCTAT
1 ATATACTATATAGTTTAT
57406 ATA
1 ATA
57409 GTTTATATAT
Statistics
Matches: 99, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
14 2 0.02
15 16 0.16
16 6 0.06
17 6 0.06
18 67 0.68
19 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (18 bp):
ATATACTATATAGTTTAT
Found at i:57289 original size:58 final size:55
Alignment explanation
Indices: 57216--57376 Score: 249
Period size: 51 Copynumber: 2.9 Consensus size: 55
57206 AATAAATTAA
57216 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTGTATATACCATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTT-TATATA--ATATAC
*
57274 TATATAGGTTATATATACTAATGAACTATATAATATATAG--TT-TAT-ATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTTATATAATATAC
57325 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAAT
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTT-TATATAAT
57377 GCATAGTTTA
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
51 45 0.47
53 1 0.01
54 4 0.04
55 4 0.04
56 3 0.03
58 39 0.41
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (55 bp):
TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTTATATAATATAC
Found at i:57304 original size:51 final size:51
Alignment explanation
Indices: 57262--57393 Score: 174
Period size: 51 Copynumber: 2.6 Consensus size: 51
57252 ATAGTTTGTA
57262 TATACCATATACTATATAGGTTATATATACTAATGAACTATATAATATATAG
1 TATA-CATATACTATATAGGTTATATATACTAATGAACTATATAATATATAG
* * *
57314 TTTATATATACTATATAGTTTATATATACTAATGAACTATATAATATATAG
1 TATACATATACTATATAGGTTATATATACTAATGAACTATATAATATATAG
* * * ** *
57365 TTTATATATAATGCATAGTTTATATATAC
1 TATACATATACTATATAGGTTATATATAC
57394 CATATAGTCT
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
51 71 0.96
52 3 0.04
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (51 bp):
TATACATATACTATATAGGTTATATATACTAATGAACTATATAATATATAG
Found at i:57504 original size:2 final size:2
Alignment explanation
Indices: 57476--57629 Score: 51
Period size: 2 Copynumber: 71.0 Consensus size: 2
57466 ATATGTAAAT
* * *
57476 TA TA CTA TA TA GTA CA TA TA GTT TA TA TA TA -A AA TA TA TA GTA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * ** * *
57519 TA TA AA TA TA AA CTA TA GTA TA TA TA TA TA GG TCA TA TG TA AA
1 TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA T-A TA TA TA TA
* *
57562 CTA TA TA GTA TA TA AA TA TCA -A CTA TA GTA TA TA TA TA TA TA TG
1 -TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA TA TA TA TA TA TA
* *
57606 TA AA CTA TA TA GTT TA TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA
57630 GTTCATATGT
Statistics
Matches: 111, Mismatches: 25, Indels: 32
0.66 0.15 0.19
Matches are distributed among these distances:
1 2 0.02
2 89 0.80
3 20 0.18
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (2 bp):
TA
Found at i:57506 original size:20 final size:19
Alignment explanation
Indices: 57476--57548 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
57466 ATATGTAAAT
*
57476 TATACTATATAGTACATATAG
1 TATA-TATATA-TAAATATAG
* *
57497 TTTATATATAAAATATATAG
1 TATATATATATAA-ATATAG
*
57517 TATATAAATATAAACTATAG
1 TATATATATATAAA-TATAG
57537 TATATATATATA
1 TATATATATATA
57549 GGTCATATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.05
20 38 0.88
21 3 0.07
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.41
Consensus pattern (19 bp):
TATATATATATAAATATAG
Found at i:57623 original size:22 final size:22
Alignment explanation
Indices: 57553--57626 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
57543 TATATAGGTC
*
57553 ATATGTAAACTATATAGTATAT
1 ATATGTAAACTATATAGTTTAT
* * * *
57575 AAATATCAACTATAGTATATATATAT
1 ATATGTAAACTATA-TA-GT-T-TAT
57601 ATATGTAAACTATATAGTTTAT
1 ATATGTAAACTATATAGTTTAT
57623 ATAT
1 ATAT
57627 ATAGTTCATA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
22 18 0.46
23 3 0.08
24 2 0.05
25 2 0.05
26 14 0.36
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (22 bp):
ATATGTAAACTATATAGTTTAT
Found at i:57682 original size:20 final size:18
Alignment explanation
Indices: 57642--57722 Score: 83
Period size: 18 Copynumber: 4.4 Consensus size: 18
57632 TCATATGTAA
* *
57642 ATATTAACTAAAGTTTAT
1 ATATAAACTATAGTTTAT
57660 ATATAAACTATAG-TTAGT
1 ATATAAACTATAGTTTA-T
*
57678 ATATAAATTATATAGTTTAT
1 ATATAAA--CTATAGTTTAT
* *
57698 ATGTAAACTATAGTTCAT
1 ATATAAACTATAGTTTAT
57716 ATATAAA
1 ATATAAA
57723 TATCAACCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
17 3 0.06
18 34 0.65
20 12 0.23
21 3 0.06
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (18 bp):
ATATAAACTATAGTTTAT
Found at i:57835 original size:30 final size:32
Alignment explanation
Indices: 57780--57838 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
57770 ATAATTCATA
*
57780 TATATAGTAATACATTTATAAATTGTATAGTT
1 TATATAGTAATACATATATAAATTGTATAGTT
*
57812 TATATA-TAATTCATATAT-AATTGTATA
1 TATATAGTAATACATATATAAATTGTATA
57839 AACTATGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 9 0.36
31 10 0.40
32 6 0.24
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (32 bp):
TATATAGTAATACATATATAAATTGTATAGTT
Found at i:57910 original size:2 final size:2
Alignment explanation
Indices: 57903--58012 Score: 66
Period size: 2 Copynumber: 54.5 Consensus size: 2
57893 TTATACATGG
* * * *
57903 TA TA TA TA TT TA TA T- TT TA TA CA TA -A TA TA TA TA TA AA CTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * *
57944 TA TA GTT TA TA TA TA TA -A TA CA TA TA CTT TA TA TA TA AA CTA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
*
57986 TA TA GTT TA TA T- TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA T
58013 TAGTTGTTTT
Statistics
Matches: 82, Mismatches: 17, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
1 4 0.05
2 73 0.89
3 5 0.06
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:57915 original size:26 final size:26
Alignment explanation
Indices: 57886--57937 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
57876 AACTATAGTA
**
57886 TTATAGTTTATACATGGTATATATAT
1 TTATAGTTTATACATAATATATATAT
*
57912 TTATATTTTATACATAATATATATAT
1 TTATAGTTTATACATAATATATATAT
57938 AAACTATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (26 bp):
TTATAGTTTATACATAATATATATAT
Found at i:57954 original size:20 final size:20
Alignment explanation
Indices: 57931--57997 Score: 91
Period size: 20 Copynumber: 3.2 Consensus size: 20
57921 ATACATAATA
57931 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
*
57951 TATATATATAA-TACATATACTT
1 TATATATA-AACT--ATATAGTT
57973 TATATATAAACTATATAGTT
1 TATATATAAACTATATAGTT
57993 TATAT
1 TATAT
57998 TATATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 21 0.51
21 4 0.10
22 16 0.39
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (20 bp):
TATATATAAACTATATAGTT
Found at i:57978 original size:42 final size:44
Alignment explanation
Indices: 57931--58012 Score: 141
Period size: 42 Copynumber: 1.9 Consensus size: 44
57921 ATACATAATA
57931 TATATATAAACTATATAGTTTATA-TATATA-ATACATATACTT
1 TATATATAAACTATATAGTTTATATTATATATATACATATACTT
*
57973 TATATATAAACTATATAGTTTATATTATATATATATATAT
1 TATATATAAACTATATAGTTTATATTATATATATACATAT
58013 TAGTTGTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
42 24 0.65
43 6 0.16
44 7 0.19
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (44 bp):
TATATATAAACTATATAGTTTATATTATATATATACATATACTT
Found at i:58007 original size:20 final size:20
Alignment explanation
Indices: 57903--58009 Score: 80
Period size: 20 Copynumber: 5.4 Consensus size: 20
57893 TTATACATGG
57903 TATATATA-TTTATATT-T-
1 TATATATAGTTTATATTATA
* * *
57920 TATACATAATATATA-TATA
1 TATATATAGTTTATATTATA
*
57939 AACTATATAGTTTATATATATAA
1 TA-TATATAGTTTATAT-TAT-A
* *
57962 TACATATACTTTATA-TATA
1 TATATATAGTTTATATTATA
*
57981 AACTATATAGTTTATATTATA
1 TA-TATATAGTTTATATTATA
58002 TATATATA
1 TATATATA
58010 TATTAGTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
17 8 0.12
18 6 0.09
19 3 0.04
20 30 0.44
21 5 0.07
22 14 0.21
23 2 0.03
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.49
Consensus pattern (20 bp):
TATATATAGTTTATATTATA
Found at i:58305 original size:18 final size:19
Alignment explanation
Indices: 58270--58305 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58260 CTTATTTCTA
*
58270 TTTTTAAATTGGTCATAAC
1 TTTTTAAATGGGTCATAAC
58289 TTTTTAAATGGGT-ATAA
1 TTTTTAAATGGGTCATAA
58306 TTTAGTACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (19 bp):
TTTTTAAATGGGTCATAAC
Found at i:58402 original size:209 final size:211
Alignment explanation
Indices: 58052--58854 Score: 1134
Period size: 209 Copynumber: 3.8 Consensus size: 211
58042 TACTTATTTA
* * * *
58052 TATTTATATTTATT-AATTGGCCAATAACTTTTTAAATGAGTATAATTTAGTA-TAATTTTGTAT
1 TATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACT-TTTTTGTAT
* * * *
58115 TAATTGCAACTTCAAAATTTAAAATTATTTTGATTTGATCCAT-TTTGTGCTGTTTAATATATTT
64 TAATTTCAACTTCAAAATTTAAAATTATTTCGATTTGATCCCTATTTGTGTTGTTTAATATATTT
* * **
58179 AAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCTTCCAAATTTTATTTGCACCTGAAAT
129 AAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGAAAT
58244 TGACCCATACTTATTACT
194 TGACCCATACTTATTACT
* *
58262 TATTTCTATTTTTAAATTGG-TCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTATATTA
1 TATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTA
* * *
58326 ATTTTAACCTCAAAATTTAAAATTATTTCAATTTGATCCCT-TTTGTGTTGTTTAATATATTTAA
66 ATTTCAACTTCAAAATTTAAAATTATTTCGATTTGATCCCTATTTGTGTTGTTTAATATATTTAA
* * *
58390 ATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGTATTTGAAACTG
131 ATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGAAATTG
58455 ACCCATACTTATTACT
196 ACCCATACTTATTACT
58471 TATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTA
1 TATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTA
* * * * * *
58536 ATTTCAACATCACAATTTAAATTTATTTTGATTTGATCCCTCATCAAAGTGTGTTGTTTAATTTA
66 ATTTCAACTTCAAAATTTAAAATTATTTCGATTTGATCCCT-AT----TTGTGTTGTTTAATATA
*
58601 TTTAAA-TTTTATTTGTAATTTCATATTTGTTAAATTTAGTCCTCCAAATTTTATTTGCATATGA
126 TTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGA
*
58665 AATTGATCCATACTTATTACT
191 AATTGACCCATACTTATTACT
* *
58686 TAATTT-TATTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTATTTTTTTGTATT
1 T-ATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATT
* *
58750 AATTTCAACTTCACAATTTAAAATTATTTCGATTTGATCCCTCATCATTGTGTGTTGTTTAATTT
65 AATTTCAACTTCAAAATTTAAAATTATTTCGATTTGAT-CC-C-T-ATT-TGTGTTGTTTAATAT
* *
58815 ATTTAAATTTTTATTTATAATTTCATATTCGTTCAATTTA
125 ATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
58855 ATTATTAAAT
Statistics
Matches: 535, Mismatches: 43, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
209 191 0.36
210 94 0.18
212 1 0.00
215 188 0.35
216 56 0.10
217 1 0.00
218 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (211 bp):
TATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTA
ATTTCAACTTCAAAATTTAAAATTATTTCGATTTGATCCCTATTTGTGTTGTTTAATATATTTAA
ATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGAAATTG
ACCCATACTTATTACT
Found at i:58686 original size:215 final size:213
Alignment explanation
Indices: 58052--58854 Score: 1142
Period size: 215 Copynumber: 3.8 Consensus size: 213
58042 TACTTATTTA
* * * *
58052 TATTTATATTTATT-AATTGGCCAATAACTTTTTAAATGAGTATAATTTAGTA-TAATTTTGTAT
1 TATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACT-TTTTTGTAT
* * * *
58115 TAATTGCAACTTCAAAATTTAAAATTATTTTGATTTGAT--C-CATTTTGTGCTGTTTAATATAT
64 TAATTTCAACTTCAAAATTTAAAATTATTTCGATTTGATCCCTCATTGTGTGTTGTTTAATATAT
* * **
58177 TTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCTTCCAAATTTTATTTGCACCTGAA
129 TTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGAA
58242 ATTGACCCATACTTATTACT
194 ATTGACCCATACTTATTACT
* *
58262 TATTTCTATTTTTAAATTGG-TCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTATATTA
1 TATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTA
* * *
58326 ATTTTAACCTCAAAATTTAAAATTATTTCAATTTGATCCCT--TT-TGTGTTGTTTAATATATTT
66 ATTTCAACTTCAAAATTTAAAATTATTTCGATTTGATCCCTCATTGTGTGTTGTTTAATATATTT
* * *
58388 AAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGTATTTGAAAC
131 AAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGAAAT
58453 TGACCCATACTTATTACT
196 TGACCCATACTTATTACT
58471 TATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTA
1 TATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTA
* * * * * *
58536 ATTTCAACATCACAATTTAAATTTATTTTGATTTGATCCCTCATCAAAGTGTGTTGTTTAATTTA
66 ATTTCAACTTCAAAATTTAAAATTATTTCGATTTGATCCCTCAT---TGTGTGTTGTTTAATATA
*
58601 TTTAAA-TTTTATTTGTAATTTCATATTTGTTAAATTTAGTCCTCCAAATTTTATTTGCATATGA
128 TTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGA
*
58665 AATTGATCCATACTTATTACT
193 AATTGACCCATACTTATTACT
* *
58686 TAATTT-TATTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTATTTTTTTGTATT
1 T-ATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATT
* *
58750 AATTTCAACTTCACAATTTAAAATTATTTCGATTTGATCCCTCATCATTGTGTGTTGTTTAATTT
65 AATTTCAACTTCAAAATTTAAAATTATTTCGATTTGAT-CC-C-TCATTGTGTGTTGTTTAATAT
* *
58815 ATTTAAATTTTTATTTATAATTTCATATTCGTTCAATTTA
127 ATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
58855 ATTATTAAAT
Statistics
Matches: 534, Mismatches: 42, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
209 186 0.35
210 96 0.18
211 1 0.00
212 1 0.00
215 189 0.35
216 56 0.10
217 1 0.00
218 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (213 bp):
TATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTA
ATTTCAACTTCAAAATTTAAAATTATTTCGATTTGATCCCTCATTGTGTGTTGTTTAATATATTT
AAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGAAAT
TGACCCATACTTATTACT
Found at i:60782 original size:8 final size:8
Alignment explanation
Indices: 60746--60823 Score: 58
Period size: 8 Copynumber: 10.1 Consensus size: 8
60736 TTTAATTTTT
60746 TTAAAATA
1 TTAAAATA
*
60754 -AAAAATA
1 TTAAAATA
*
60761 TTCTAAAT-
1 TT-AAAATA
60769 TTAAAATA
1 TTAAAATA
60777 TTAAAATA
1 TTAAAATA
60785 TTAAAA-A
1 TTAAAATA
*
60792 -TACAA-A
1 TTAAAATA
*
60798 TTAAATTA
1 TTAAAATA
*
60806 TTAAAAAAA
1 TT-AAAATA
60815 TTAAAATA
1 TTAAAATA
60823 T
1 T
60824 ATATCATTAC
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
6 5 0.09
7 14 0.26
8 25 0.46
9 10 0.19
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
TTAAAATA
Found at i:60792 original size:24 final size:24
Alignment explanation
Indices: 60745--60823 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 24
60735 ATTTAATTTT
* **
60745 TTTAAAATA-AAAAATATTCTAAA
1 TTTAAAATATTAAAATATTAAAAA
60768 TTTAAAATATTAAAATATTAAAAA
1 TTTAAAATATTAAAATATTAAAAA
* *
60792 --TACAA-ATTAAATTATTAAAAAA
1 TTTAAAATATTAAAATATT-AAAAA
*
60814 ATTAAAATAT
1 TTTAAAATAT
60824 ATATCATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
21 10 0.22
22 9 0.20
23 9 0.20
24 15 0.33
25 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (24 bp):
TTTAAAATATTAAAATATTAAAAA
Found at i:61002 original size:35 final size:34
Alignment explanation
Indices: 60946--61018 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 34
60936 TTTTTTTAAT
*
60946 AAAATTTAATTAAAAAATATTATAAATTCATATA
1 AAAAATTAATTAAAAAATATTATAAATTCATATA
* *
60980 AAAAATTAATTAAATAATTATTATAAATTCATATC
1 AAAAATTAATTAAA-AAATATTATAAATTCATATA
61015 AAAA
1 AAAA
61019 TAAAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 13 0.37
35 22 0.63
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (34 bp):
AAAAATTAATTAAAAAATATTATAAATTCATATA
Found at i:61286 original size:21 final size:21
Alignment explanation
Indices: 61260--61303 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
61250 GCGATAAAAA
61260 TAATAATAT-ATATTTAATTTT
1 TAATAATATAAT-TTTAATTTT
*
61281 TAATAATTTAATTTTAATTTT
1 TAATAATATAATTTTAATTTT
61302 TA
1 TA
61304 GTATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATAATATAATTTTAATTTT
Found at i:61291 original size:15 final size:15
Alignment explanation
Indices: 61271--61320 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
61261 AATAATATAT
61271 ATTTAATTTTTAATA
1 ATTTAATTTTTAATA
61286 ATTTAA-TTTTAAT-
1 ATTTAATTTTTAATA
*
61299 TTTTAGTATTTTT-ATA
1 ATTTA--ATTTTTAATA
61315 ATTTAA
1 ATTTAA
61321 ATTTCAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 4 0.14
14 8 0.28
15 9 0.31
16 8 0.28
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATTTAATTTTTAATA
Found at i:62418 original size:23 final size:25
Alignment explanation
Indices: 62378--62436 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
62368 TAATGTATAT
*
62378 ATATT-TATAAAAGTTATAT-GA-A
1 ATATTATAAAAAAGTTATATCGATA
*
62400 ATAATTATAAAAAAG-TATATCTATA
1 AT-ATTATAAAAAAGTTATATCGATA
62425 ATATTATAAAAA
1 ATATTATAAAAA
62437 TATTTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 2 0.06
23 8 0.26
24 18 0.58
25 3 0.10
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (25 bp):
ATATTATAAAAAAGTTATATCGATA
Found at i:68927 original size:16 final size:18
Alignment explanation
Indices: 68895--68927 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
68885 ATAAAATGAA
68895 TAAATAAATGATTTTGAT
1 TAAATAAATGATTTTGAT
68913 TAAA-AAATG-TTTTGA
1 TAAATAAATGATTTTGA
68928 GAGTCGCCAT
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:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TAAATAAATGATTTTGAT
Found at i:69260 original size:23 final size:22
Alignment explanation
Indices: 69222--69289 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
69212 TTCCAAGAAA
69222 ATATATTAATTTTTATAAATAT
1 ATATATTAATTTTTATAAATAT
*
69244 ATATTTTATATTTTTATAAATA-
1 ATATATTA-ATTTTTATAAATAT
* *
69266 AGATATTTATTTACTTATAAATAT
1 ATATATTAATTT--TTATAAATAT
69290 CATAAAAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
21 4 0.11
22 12 0.32
23 22 0.58
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (22 bp):
ATATATTAATTTTTATAAATAT
Found at i:70169 original size:2 final size:2
Alignment explanation
Indices: 70162--70189 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
70152 TTGTTTGATT
70162 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70190 ATAATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70902 original size:123 final size:123
Alignment explanation
Indices: 70743--71448 Score: 841
Period size: 122 Copynumber: 5.9 Consensus size: 123
70733 CAACTTCATA
* * * *
70743 TGTGAT-GAATTAAG-ACAAGGTTGAACAAATTATTCTCATTATGAACTTCCTCTTCCTCTTCAG
1 TGTGATAGAATCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
* * *
70806 ATGAGTTCTTCTCATTATGAAC-TCTTTCTGGAAATGTTGATGTTGATCTATCTCTTTC
66 ATGAGTTCTTCTCATTATGAACTTC-CTCTGGAAATGTTGATGCTGATCTATCTCCTTC
** *
70864 TGTGATAGAATCATTCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
1 TGTGATAGAATCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
* * * *
70929 ATGAGTTCTTCTCATTATGAAC-ACTTCTGGAAATGTTGGTGCTGATTTATCTCCTTC
66 ATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTC
* * * * * *
70986 TGTGATAGCATCAACCAAAACGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTTCATCTTCAG
1 TGTGATAGAATCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
* * * *
71051 ATGAGTTCTTCTCATTATGAAC-ACTTCTGGAAATGTTGGTGCTGATCTATCTCCTTT
66 ATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTC
* * * * * * * *
71108 TGGGACAAAATCGAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTCCTTCTTCTTCAG
1 TGTGATAGAATCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
*
71173 ATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGAT-C----C-A--T-C--G
66 ATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTC
* * * * *
71220 AGTGATAGACTCGAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTCTTCAG
1 TGTGATAGAATCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
* * * * * *
71285 ATGAGTTCTTCTTATTATAAAATTCCTCTAGAGATGTTGGTGCTGATCTATCTCCTTC
66 ATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTC
* ** ** *
71343 TGTAATAGGGTCAAGCAAAAAATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTTAG
1 TGTGATAGAATCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
71408 ATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGAT
66 ATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGAT
71449 TCATCGAGTG
Statistics
Matches: 503, Mismatches: 68, Indels: 26
0.84 0.11 0.04
Matches are distributed among these distances:
112 90 0.18
113 1 0.00
114 1 0.00
115 1 0.00
117 2 0.00
118 2 0.00
120 1 0.00
121 7 0.01
122 225 0.45
123 173 0.34
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (123 bp):
TGTGATAGAATCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAG
ATGAGTTCTTCTCATTATGAACTTCCTCTGGAAATGTTGATGCTGATCTATCTCCTTC
Found at i:71258 original size:112 final size:112
Alignment explanation
Indices: 71118--71463 Score: 397
Period size: 112 Copynumber: 3.0 Consensus size: 112
71108 TGGGACAAAA
* * *
71118 TCGAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTCCTTCTTCTTCAGATGAGTTCTT
1 TCGAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
71183 CTCATTATGAACTTCCTCTGGAAATGTTGATCCATCGAGTGATAGAC
66 CTCATTATGAACTTCCTCTGGAAATGTTGATCCATCGAGTGATAGAC
* *
71230 TCGAGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATGAGTTCTT
1 TCGAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
* * * ** * ** * **
71295 CTTATTATAAAATTCCTCTAGAGATGTTGGTGCTGATCTATCTCCTTCTGTAATAGGG
66 CTCATTATGAACTTCCTCT-G-GA-AAT-GT--TGATCCA--T-C--GAGTGATAGAC
* * *
71353 TCAAGCAAAAA-ATTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCT
1 TCGAG-AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCT
*
71417 TCTCATTATGAACTTCCTCTGGAAATGTTGATTCATCGAGTGATAGA
65 TCTCATTATGAACTTCCTCTGGAAATGTTGATCCATCGAGTGATAGA
71464 AATTTTTGTT
Statistics
Matches: 190, Mismatches: 32, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
112 82 0.43
113 1 0.01
114 3 0.02
115 2 0.01
116 2 0.01
117 5 0.03
118 6 0.03
119 2 0.01
120 2 0.01
121 3 0.02
122 1 0.01
123 77 0.41
124 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (112 bp):
TCGAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
CTCATTATGAACTTCCTCTGGAAATGTTGATCCATCGAGTGATAGAC
Found at i:71546 original size:37 final size:36
Alignment explanation
Indices: 71487--71686 Score: 186
Period size: 36 Copynumber: 5.5 Consensus size: 36
71477 AGTGAAACTG
* ** *
71487 TCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAATTTTGTTTTAAGAAAAACAA
* * ** *
71523 TATCAAGTGAGATAAATTATTGTTTCAAGTGAAACTA
1 TCTCAAGTGAGATAAATT-TTGTTTTAAGAAAAACAA
* *
71560 TCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAATTTTGTTTTAAGAAAAACAA
** ** **
71596 TCTCAAGTGAGATAAATTGTTGTTTCGAGTGAAACTG
1 TCTCAAGTGAGATAAATT-TTGTTTTAAGAAAAACAA
* * *
71633 TCTCAAGCGAGA-CACTGTTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGATAAAT-TTTGTTTTAAGAAAAACAA
71669 TCTCAAGTGAGATAAATT
1 TCTCAAGTGAGATAAATT
71687 GTTATTTGAA
Statistics
Matches: 124, Mismatches: 36, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
36 69 0.56
37 55 0.44
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (36 bp):
TCTCAAGTGAGATAAATTTTGTTTTAAGAAAAACAA
Found at i:71687 original size:73 final size:73
Alignment explanation
Indices: 71463--71689 Score: 357
Period size: 73 Copynumber: 3.1 Consensus size: 73
71453 CGAGTGATAG
* * * * *
71463 AAATTTTTGTTTCTAGTGAAACTGTCTCAAGCGAGACGAATCTTGTTTTAAGAAAAACAATATCA
1 AAATTGTTGTTTCAAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCA
71528 AGTGAGAT
66 AGTGAGAT
* *
71536 AAATTATTGTTTCAAGTGAAACTATCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCA
1 AAATTGTTGTTTCAAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCA
71601 AGTGAGAT
66 AGTGAGAT
* *
71609 AAATTGTTGTTTCGAGTGAAACTGTCTCAAGCGAGAC-ACTGTTTGTTTTAAGAAAAACAATCTC
1 AAATTGTTGTTTCAAGTGAAACTGTCTCAAGCGAGACAAAT-TTTGTTTTAAGAAAAACAATCTC
71673 AAGTGAGAT
65 AAGTGAGAT
71682 AAATTGTT
1 AAATTGTT
71690 ATTTGAAAAC
Statistics
Matches: 143, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
72 2 0.01
73 141 0.99
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (73 bp):
AAATTGTTGTTTCAAGTGAAACTGTCTCAAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCA
AGTGAGAT
Found at i:72428 original size:22 final size:22
Alignment explanation
Indices: 72403--72501 Score: 180
Period size: 22 Copynumber: 4.5 Consensus size: 22
72393 TAAAGTTTTT
*
72403 ATCTTTGAAAAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
72425 ATCTTTGAAGAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
*
72447 ATCTTTGAAGAGAGAATCTATT
1 ATCTTTGAAGAGAGAATCTATC
72469 ATCTTTGAAGAGAGAATCTATC
1 ATCTTTGAAGAGAGAATCTATC
72491 ATCTTTGAAGA
1 ATCTTTGAAGA
72502 ACGTAGATGT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (22 bp):
ATCTTTGAAGAGAGAATCTATC
Found at i:72965 original size:54 final size:54
Alignment explanation
Indices: 72873--73021 Score: 190
Period size: 54 Copynumber: 2.8 Consensus size: 54
72863 ACTGGTTCGT
* * * * * *
72873 AACATATTCGTCCTTTCTTATGGTTTCTGTACAGATGTTTGTAAAGCATTTGAC
1 AACACATTCATCCTTTCCTGTGGTTTCTGCACAGATGTTTGTAAAACATTTGAC
* *
72927 AATACATTCATCCTTTCCTGTGGTTTCTGCACAGATGTTCGTAAAACATTTGAC
1 AACACATTCATCCTTTCCTGTGGTTTCTGCACAGATGTTTGTAAAACATTTGAC
* * * *
72981 AACATATTCATCATTTCCTGTGGCTTCTGCATAGATGTTTG
1 AACACATTCATCCTTTCCTGTGGTTTCTGCACAGATGTTTG
73022 CCAGTGAAGC
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.40
Consensus pattern (54 bp):
AACACATTCATCCTTTCCTGTGGTTTCTGCACAGATGTTTGTAAAACATTTGAC
Found at i:77777 original size:20 final size:22
Alignment explanation
Indices: 77732--77789 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
77722 GCATGCGTAG
77732 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
77756 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
77776 TGTATCGATGCACT
1 TGCATCGATGCACT
77790 TCAAGGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:78735 original size:8 final size:8
Alignment explanation
Indices: 78719--78765 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
78709 TGTGTGGCTT
*
78719 GCAAATTG
1 GCAAGTTG
78727 GCAAGTTG
1 GCAAGTTG
78735 GCAAGATTG
1 GCAAG-TTG
*
78744 ACAAG-TG
1 GCAAGTTG
78751 GCCAAGTTG
1 G-CAAGTTG
78760 GCAAGT
1 GCAAGT
78766 AGCCAACTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 2 0.06
8 21 0.64
9 10 0.30
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (8 bp):
GCAAGTTG
Found at i:78770 original size:16 final size:17
Alignment explanation
Indices: 78723--78771 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
78713 TGGCTTGCAA
* *
78723 ATTGGCAAGTTGGCAAG
1 ATTGGCAAGTAGCCAAG
* *
78740 ATTGACAAGTGGCCAAG
1 ATTGGCAAGTAGCCAAG
78757 -TTGGCAAGTAGCCAA
1 ATTGGCAAGTAGCCAA
78772 CTTGTGTACA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (17 bp):
ATTGGCAAGTAGCCAAG
Found at i:78860 original size:44 final size:44
Alignment explanation
Indices: 78758--78886 Score: 183
Period size: 43 Copynumber: 3.0 Consensus size: 44
78748 GTGGCCAAGT
* *
78758 TGGCAAGTAGCCAACTTGTGTACATGGGATAATT-ATCTTTGGT
1 TGGCAAGTAGCCAACTTGTGCACATGGGATAATTCATCTTTGGC
* *
78801 TAGCAAGTAGTCAACTTGTGCACATGGGATAATTCATCTTTGGC
1 TGGCAAGTAGCCAACTTGTGCACATGGGATAATTCATCTTTGGC
*
78845 TGGCAAGTGGCCAACTTGTGCACAT-GG-TAATTTCATCTTTGG
1 TGGCAAGTAGCCAACTTGTGCACATGGGATAA-TTCATCTTTGG
78887 TCCCTAAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
42 3 0.04
43 44 0.57
44 30 0.39
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
TGGCAAGTAGCCAACTTGTGCACATGGGATAATTCATCTTTGGC
Found at i:94082 original size:60 final size:60
Alignment explanation
Indices: 93970--94088 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 60
93960 CATTTGCAGT
* * * * *
93970 TGCAGACTAGGGAGGCAATATGGACAATGGAAGGTTAATTTCTGGTAGCTGTGTATACTC
1 TGCAGACTAGGGAGACAATATGGACAATAGAAAGTCAATTTCTGATAGCTGTGTATACTC
* * * *
94030 TGCAGACTAGGGAGACAATATGGACGATAGAAAGTCGATTTTTGATATCTGTGTATACT
1 TGCAGACTAGGGAGACAATATGGACAATAGAAAGTCAATTTCTGATAGCTGTGTATACT
94089 TGGAGGCAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (60 bp):
TGCAGACTAGGGAGACAATATGGACAATAGAAAGTCAATTTCTGATAGCTGTGTATACTC
Found at i:102842 original size:18 final size:18
Alignment explanation
Indices: 102819--102860 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
102809 CAGTAATCCT
102819 ATTCC-CTAGTAATCTTAC
1 ATTCCACTAGTAAT-TTAC
*
102837 ATTCCCACTGGTAATTTAC
1 ATT-CCACTAGTAATTTAC
102856 ATTCC
1 ATTCC
102861 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.26, C:0.29, G:0.07, T:0.38
Consensus pattern (18 bp):
ATTCCACTAGTAATTTAC
Found at i:105899 original size:18 final size:18
Alignment explanation
Indices: 105872--105910 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
105862 GACAGTTTCT
105872 CGGGGCTGTTATCCAAGG
1 CGGGGCTGTTATCCAAGG
*
105890 CGGGGTTGTTATCCAAGG
1 CGGGGCTGTTATCCAAGG
105908 CGG
1 CGG
105911 ATGAGCTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.41, T:0.23
Consensus pattern (18 bp):
CGGGGCTGTTATCCAAGG
Found at i:111080 original size:13 final size:13
Alignment explanation
Indices: 111062--111086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111052 GAAAAAAAAC
111062 TAAAAAATATATT
1 TAAAAAATATATT
111075 TAAAAAATATAT
1 TAAAAAATATAT
111087 ATATTGTTAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAAAAATATATT
Done.