Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004030.1 Hibiscus syriacus cultivar Beakdansim tig00008803_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: 100539
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3713 original size:2 final size:2
Alignment explanation
Indices: 3708--3991 Score: 173
Period size: 2 Copynumber: 143.0 Consensus size: 2
3698 TTGAAACAAT
*
3708 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
3750 TA TA TC TA TA TA T- TA TA TA TA AA T- TA TA GT- TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
3790 GTA TA TA TA TA TA TA AA CTA TA TA GTT TA TA TT TA CA T- TA T-
1 -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
3831 TA TA TA CTA TA TA TA AA T- TA TA TA TA T- TA TT TA TA AA CTA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
3873 TA GTT TA T- TA -A TA TA AA T- TA TG TA TA TA AA T- TA TA TA -A
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
3911 TA TT TA TA AA GTA TA TA TA TA TA TA TA TA AA CTA 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
* *
3956 TA TA GTT TA TA TT TA TA T- TA T- TA TA TA CTA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
3992 AACTATACAC
Statistics
Matches: 214, Mismatches: 42, Indels: 52
0.69 0.14 0.17
Matches are distributed among these distances:
1 14 0.07
2 186 0.87
3 14 0.07
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3856 original size:13 final size:13
Alignment explanation
Indices: 3838--3950 Score: 70
Period size: 13 Copynumber: 8.5 Consensus size: 13
3828 TATTATATAC
3838 TATATATAAATTA
1 TATATATAAATTA
* *
3851 TATATATTATTTA
1 TATATATAAATTA
* *
3864 TAAACTATATAGTT-
1 TATA-TATA-AATTA
3878 TATTAATATAAATTA
1 TA-T-ATATAAATTA
*
3893 TGTATATAAATTA
1 TATATATAAATTA
*
3906 TATA-AT-ATTTA
1 TATATATAAATTA
* *
3917 TAAAGTATATATATA
1 TATA-TATAAAT-TA
*
3932 TATATATAAACTA
1 TATATATAAATTA
3945 TATATA
1 TATATA
3951 AACTATATAG
Statistics
Matches: 75, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
11 7 0.09
12 2 0.03
13 37 0.49
14 15 0.20
15 13 0.17
16 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.47
Consensus pattern (13 bp):
TATATATAAATTA
Found at i:3964 original size:146 final size:150
Alignment explanation
Indices: 3747--4022 Score: 409
Period size: 146 Copynumber: 1.9 Consensus size: 150
3737 ATATATATAC
* * * *
3747 ATATATATCTATATATTATATATAAATTATAGTTATATATAAAGTATATATATATATAAACTATA
1 ATATAAATCTATATAATATATATAAAGTATAG-TATATATAAAGTATAAATATATATAAACTATA
* * *
3812 TAGTTTATATTTACATTATTATATACTATATATAAA-T-TATATATATTATTTATAAACTATATA
65 TAGTTTATATTTACATTATTATATACTATATATAAACTATACACATATTATGTATAAACTATATA
3875 GTTTATTAATATAAATTATGT
130 GTTTATTAATATAAATTATGT
* *
3896 ATATAAAT-TATATAATATTTATAAAGTATA-TATATATATA-TATAAACTATATATAAACTATA
1 ATATAAATCTATATAATATATATAAAGTATAGTATATATAAAGTATAAA-TATATATAAACTATA
*
3958 TAGTTTATATTTATATTATTATATACTATATATAAACTATACACATATTATGTATAAACTATATA
65 TAGTTTATATTTACATTATTATATACTATATATAAACTATACACATATTATGTATAAACTATATA
4023 CTATGTATAA
Statistics
Matches: 114, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
145 5 0.04
146 59 0.52
147 1 0.01
148 42 0.37
149 7 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (150 bp):
ATATAAATCTATATAATATATATAAAGTATAGTATATATAAAGTATAAATATATATAAACTATAT
AGTTTATATTTACATTATTATATACTATATATAAACTATACACATATTATGTATAAACTATATAG
TTTATTAATATAAATTATGT
Found at i:4029 original size:18 final size:18
Alignment explanation
Indices: 3977--4038 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
3967 TTTATATTAT
*
3977 TATATACTATATATAAAC
1 TATATACTATGTATAAAC
*
3995 TATACACATATTATGTATAAAC
1 TAT----ATACTATGTATAAAC
*
4017 TATATACTATGTATAAGC
1 TATATACTATGTATAAAC
4035 TATA
1 TATA
4039 GAGTTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 20 0.56
22 16 0.44
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (18 bp):
TATATACTATGTATAAAC
Found at i:4106 original size:11 final size:11
Alignment explanation
Indices: 4083--4151 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 11
4073 CTATATAGTT
4083 ATTA-ATATAA
1 ATTATATATAA
*
4093 ATTATATATGA
1 ATTATATATAA
*
4104 ATTATATTTAA
1 ATTATATATAA
* *
4115 A-TATATACAT
1 ATTATATATAA
* *
4125 CTTATATATAT
1 ATTATATATAA
*
4136 ATTATGTAT-A
1 ATTATATATAA
4146 ATTATA
1 ATTATA
4152 AATTATATAC
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
10 15 0.33
11 30 0.67
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (11 bp):
ATTATATATAA
Found at i:4187 original size:18 final size:18
Alignment explanation
Indices: 4127--4249 Score: 56
Period size: 17 Copynumber: 6.5 Consensus size: 18
4117 ATATACATCT
* *
4127 TATATATATATTATGTA-
1 TATATATAAATTATATAC
4144 TA-ATTATAAATTATATAC
1 TATA-TATAAATTATATAC
* *
4162 TATGTATAAATTATATAGTT
1 TATATATAAATTATATA--C
* *
4182 TATATAGTTTAAATATAAAGTAG
1 TATATA---TAAAT-TATA-TAC
*
4205 TATATACATAAACTATATA-
1 TATAT--ATAAATTATATAC
*
4224 TATATATAAAGTATATAC
1 TATATATAAATTATATAC
4242 -ATATATAA
1 TATATATAA
4250 TCATATAAGT
Statistics
Matches: 83, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
16 1 0.01
17 32 0.39
18 15 0.18
19 5 0.06
20 7 0.08
21 3 0.04
22 4 0.05
23 10 0.12
24 3 0.04
25 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (18 bp):
TATATATAAATTATATAC
Found at i:4362 original size:40 final size:40
Alignment explanation
Indices: 4252--4480 Score: 157
Period size: 41 Copynumber: 5.5 Consensus size: 40
4242 ATATATAATC
*
4252 ATATAAGTATAGCATATAAAGTATATATATATAAAG-TATAAGT
1 ATATAAGTATA-AATATAAAGTATA-AT-TATAAAGATA-AAGT
* *
4295 ATGTGTATGTATATATATATAAAGTATAATTATAAAGACTAAAGT
1 A--TATAAGTATA-A-ATATAAAGTATAATTATAAAGA-TAAAGT
* * * * *
4340 ATATAAGCA-CAATATAAAGTATATAACTATATAATATAAAAT
1 ATATAAGTATAAATATAAAG--TATAATTATA-AAGATAAAGT
* * *
4382 ACATAAGTATTAAATATAAAGTATATATAAT-AATATAAAGT
1 ATATAAGTA-TAAATATAAAGTATA-ATTATAAAGATAAAGT
4423 ATATAAGTATTAAATA-AAAGTATAATTATAAAGA-ATAAG-
1 ATATAAGTA-TAAATATAAAGTATAATTATAAAGATA-AAGT
4462 -TATAAGTATATAATATAAA
1 ATATAAGTATA-AATATAAA
4481 ATATTTAAGT
Statistics
Matches: 151, Mismatches: 20, Indels: 34
0.74 0.10 0.17
Matches are distributed among these distances:
37 2 0.01
38 12 0.08
39 8 0.05
40 22 0.15
41 25 0.17
42 25 0.17
43 12 0.08
44 16 0.11
45 15 0.10
46 14 0.09
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (40 bp):
ATATAAGTATAAATATAAAGTATAATTATAAAGATAAAGT
Found at i:4372 original size:8 final size:7
Alignment explanation
Indices: 4350--4514 Score: 52
Period size: 7 Copynumber: 23.9 Consensus size: 7
4340 ATATAAGCAC
4350 AATATA-
1 AATATAT
4356 AAGTATAT
1 AA-TATAT
4364 AACTATAT
1 AA-TATAT
*
4372 AATATAA
1 AATATAT
*
4379 AATACAT
1 AATATAT
4386 AAGTAT-T
1 AA-TATAT
4393 AA-ATAT
1 AATATAT
4399 AA-AGTAT
1 AATA-TAT
4406 -ATATAAT
1 AATAT-AT
4413 AATATA-
1 AATATAT
4419 AAGTATAT
1 AA-TATAT
4427 AAGTAT-T
1 AA-TATAT
4434 AA-ATA-
1 AATATAT
4439 AA-AGTAT
1 AATA-TAT
4446 AAT-TAT
1 AATATAT
*
4452 AA-AGAAT
1 AATA-TAT
4459 AAGTATA-
1 AA-TATAT
*
4466 AGTATAT
1 AATATAT
*
4473 AATATAA
1 AATATAT
*
4480 AATATTT
1 AATATAT
4487 AAGTATAT
1 AA-TATAT
* *
4495 AAAAAAT
1 AATATAT
4502 -ATATAT
1 AATATAT
4508 ACATATA
1 A-ATATA
4515 AAGTTATATA
Statistics
Matches: 120, Mismatches: 17, Indels: 42
0.67 0.09 0.23
Matches are distributed among these distances:
5 7 0.06
6 25 0.21
7 54 0.45
8 33 0.28
9 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (7 bp):
AATATAT
Found at i:4603 original size:22 final size:23
Alignment explanation
Indices: 4570--4613 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
4560 TATTATACTA
4570 TATAAAATATATATA-CATTATG
1 TATAAAATATATATACCATTATG
*
4592 TATAAACA-ATATGTACCATTAT
1 TATAAA-ATATATATACCATTAT
4614 AAACTATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.39
Consensus pattern (23 bp):
TATAAAATATATATACCATTATG
Found at i:4699 original size:20 final size:22
Alignment explanation
Indices: 4656--4702 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
4646 CTATATATAA
*
4656 ATATAGTTTATTAATATAATTT
1 ATATAGTTTATTAATATAAATT
*
4678 ATATAGTTTA-T-ATGTAAATT
1 ATATAGTTTATTAATATAAATT
4698 ATATA
1 ATATA
4703 TGAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
21 1 0.04
22 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (22 bp):
ATATAGTTTATTAATATAAATT
Found at i:4793 original size:17 final size:16
Alignment explanation
Indices: 4771--4806 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
4761 ATTTTATTAA
4771 TATAAACTATATATAAC
1 TATAAACTATATAT-AC
*
4788 TATAAATTATATATAC
1 TATAAACTATATATAC
4804 TAT
1 TAT
4807 GTATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAACTATATATAC
Found at i:4850 original size:64 final size:62
Alignment explanation
Indices: 4733--4855 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 62
4723 CACATATATT
* *
4733 TATATATTATGTATAATTATAATTATATATTTTATTAATATAAACTATATATAACTATAAATTA
1 TATATACTATGTATAATTATAATTATATAGTTTA-TAATATAAAC-ATATATAACTATAAATTA
*
4797 TATATACTATGTATAAATTATATAGTTTATATAGTTTA-AATATAAA-ATATATAAGTATA
1 TATATACTATGTAT-AATTATA-A--TTATATAGTTTATAATATAAACATATATAACTATA
4856 TATAAACTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
64 25 0.48
65 7 0.13
66 9 0.17
68 11 0.21
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.46
Consensus pattern (62 bp):
TATATACTATGTATAATTATAATTATATAGTTTATAATATAAACATATATAACTATAAATTA
Found at i:4879 original size:9 final size:9
Alignment explanation
Indices: 4836--4902 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
4826 TATAGTTTAA
*
4836 ATATAAAAT
1 ATATAATAT
4845 ATATAAGTAT
1 ATATAA-TAT
4855 ATATAA-A-
1 ATATAATAT
*
4862 CTATAATAT
1 ATATAATAT
4871 ATA-ATATAT
1 ATATA-ATAT
4880 ATATAATA-
1 ATATAATAT
4888 ATAATAATA-
1 AT-ATAATAT
4897 ATATAA
1 ATATAA
4903 AGTATAATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
7 5 0.10
8 9 0.18
9 26 0.53
10 9 0.18
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (9 bp):
ATATAATAT
Found at i:4957 original size:8 final size:8
Alignment explanation
Indices: 4944--5185 Score: 92
Period size: 8 Copynumber: 33.1 Consensus size: 8
4934 ATAAAGACTA
4944 AAGTATAT
1 AAGTATAT
4952 AAGTATAT
1 AAGTATAT
4960 AA-TATA-
1 AAGTATAT
4966 AA-TATAT
1 AAGTATAT
*
4973 AAGTATAA
1 AAGTATAT
4981 AAGTATAT
1 AAGTATAT
**
4989 AAACATAT
1 AAGTATAT
4997 AA--AGTAT
1 AAGTA-TAT
5004 AAGT-T-T
1 AAGTATAT
**
5010 GTGTATAT
1 AAGTATAT
5018 -A-TATAT
1 AAGTATAT
*
5024 AACCTATA-
1 AA-GTATAT
*
5032 AAGTACAT
1 AAGTATAT
*
5040 AAATATAT
1 AAGTATAT
*
5048 ATAG-ATTT
1 A-AGTATAT
*
5056 TAGTATA-
1 AAGTATAT
5063 AAGTATAT
1 AAGTATAT
5071 ACA-TATAT
1 A-AGTATAT
5079 AA-TA-AT
1 AAGTATAT
* *
5085 AA--AAAG
1 AAGTATAT
5091 AAGTATAT
1 AAGTATAT
5099 -A-TATAT
1 AAGTATAT
5105 -A-TATAT
1 AAGTATAT
5111 AA--AGTAT
1 AAGTA-TAT
5118 AA-T-TAT
1 AAGTATAT
*
5124 AAATACTA-
1 AAGTA-TAT
5132 AAGTATAT
1 AAGTATAT
*
5140 AAGCATAT
1 AAGTATAT
*
5148 AAATATA-
1 AAGTATAT
5155 AAGTATAT
1 AAGTATAT
5163 AAGTATAT
1 AAGTATAT
5171 AA-TATA-
1 AAGTATAT
5177 AAGTATAT
1 AAGTATAT
5185 A
1 A
5186 TATACATACA
Statistics
Matches: 182, Mismatches: 24, Indels: 56
0.69 0.09 0.21
Matches are distributed among these distances:
5 1 0.01
6 41 0.23
7 52 0.29
8 80 0.44
9 8 0.04
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (8 bp):
AAGTATAT
Found at i:5160 original size:43 final size:44
Alignment explanation
Indices: 5101--5185 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 44
5091 AAGTATATAT
* *
5101 ATATATATATAAAG-TATAATTATA-AATACTAAAGTATATAAGC
1 ATATAAATATAAAGATATAAGTATATAATA-TAAAGTATATAAGC
5144 ATATAAATATAAAGTATATAAGTATATAATATAAAGTATATA
1 ATATAAATATAAAG-ATATAAGTATATAATATAAAGTATATA
5186 TATACATACA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 13 0.35
45 20 0.54
46 4 0.11
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.35
Consensus pattern (44 bp):
ATATAAATATAAAGATATAAGTATATAATATAAAGTATATAAGC
Found at i:5167 original size:31 final size:30
Alignment explanation
Indices: 5115--5172 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
5105 ATATATAAAG
*
5115 TATAATTATAAATACTAAAGTATATAAGCA
1 TATAAATATAAATACTAAAGTATATAAGCA
5145 TATAAATATAAAGTA-TATAAGTATATAA
1 TATAAATATAAA-TACTA-AAGTATATAA
5173 TATAAAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.34
Consensus pattern (30 bp):
TATAAATATAAATACTAAAGTATATAAGCA
Found at i:5231 original size:16 final size:16
Alignment explanation
Indices: 5210--5240 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5200 TATATATACT
5210 TTATATTAATACTTAC
1 TTATATTAATACTTAC
5226 TTATATTAATACTTA
1 TTATATTAATACTTA
5241 TATACTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATATTAATACTTAC
Found at i:5275 original size:2 final size:2
Alignment explanation
Indices: 5268--5407 Score: 62
Period size: 2 Copynumber: 69.0 Consensus size: 2
5258 AATTATACTT
* * *
5268 TA TA TA TA -A GTA TA TA -A TA TA AA GTA TA TA -A TA TA TA AA GTT
1 TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA
* * *
5310 TA GTA TA AA GTA TA TA TA CTT TA TA GTT TA TA TA TA CT- TA TA T-
1 TA -TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA TA -TA TA TA TA
* *
5353 TT TA TA TA TA TA CT- TA TA T- TT TA TA GT- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
5394 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
5408 CACTTTATAC
Statistics
Matches: 106, Mismatches: 14, Indels: 36
0.68 0.09 0.23
Matches are distributed among these distances:
1 8 0.08
2 88 0.83
3 10 0.09
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5332 original size:21 final size:21
Alignment explanation
Indices: 5261--5332 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
5251 TCTTTATAAT
5261 TATACTTTA-TATATAAGTATA
1 TATACTTTAGTATA-AAGTATA
** * *
5282 TAATA-TAAAGTATATAATATA
1 T-ATACTTTAGTATAAAGTATA
* *
5303 TAAAGTTTAGTATAAAGTATA
1 TATACTTTAGTATAAAGTATA
5324 TATACTTTA
1 TATACTTTA
5333 TAGTTTATAT
Statistics
Matches: 37, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
20 2 0.05
21 28 0.76
22 7 0.19
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (21 bp):
TATACTTTAGTATAAAGTATA
Found at i:5337 original size:28 final size:27
Alignment explanation
Indices: 5284--5343 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
5274 TAAGTATATA
5284 ATATAAAGTATATAATATATAAAGTTT
1 ATATAAAGTATATAATATATAAAGTTT
* *
5311 AGTATAAAGTATAT-ATACTTTATAGTTT
1 A-TATAAAGTATATAATA-TATAAAGTTT
5339 ATATA
1 ATATA
5344 TACTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
ATATAAAGTATATAATATATAAAGTTT
Found at i:5356 original size:17 final size:17
Alignment explanation
Indices: 5320--5377 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 17
5310 TAGTATAAAG
*
5320 TATATATACTTTATAGTT
1 TATATATAC-TTATATTT
5338 TATATATACTTATATTTT
1 TATATATACTTATA-TTT
5356 ATATATATACTTATATTT
1 -TATATATACTTATATTT
5374 TATA
1 TATA
5378 GTTATATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 9 0.24
18 14 0.38
19 14 0.38
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (17 bp):
TATATATACTTATATTT
Found at i:5468 original size:8 final size:8
Alignment explanation
Indices: 5322--5558 Score: 66
Period size: 8 Copynumber: 29.5 Consensus size: 8
5312 GTATAAAGTA
5322 TATATACTT
1 TATATA-TT
5331 TATAGT-TT
1 TATA-TATT
*
5339 ATATATACT
1 -TATATATT
5348 TATAT-TT
1 TATATATT
*
5355 TATATATA
1 TATATATT
5363 TACTTATATT
1 TA--TATATT
*
5373 T-TATAGT
1 TATATATT
*
5380 TATATATA
1 TATATATT
*
5388 TATATATA
1 TATATATT
*
5396 TATATATA
1 TATATATT
*
5404 TATACACTT
1 TATATA-TT
*
5413 TATA-CTT
1 TATATATT
* *
5420 TAAAGTATA
1 TATA-TATT
*
5429 TAGAT-TT
1 TATATATT
*
5436 TATATACT
1 TATATATT
*
5444 T-TATAGT
1 TATATATT
*
5451 T-TACATT
1 TATATATT
5458 TATATA-T
1 TATATATT
*
5465 T-TATACT
1 TATATATT
*
5472 TATACTTTT
1 TATA-TATT
*
5481 TATATATG
1 TATATATT
5489 TA-A-ATT
1 TATATATT
**
5495 TGA-ATAAG
1 T-ATATATT
5503 TATATATT
1 TATATATT
5511 TATATACTT
1 TATATA-TT
*
5520 ATATATATA
1 -TATATATT
5529 TACTTATATT
1 TA--TATATT
* *
5539 AATATATA
1 TATATATT
*
5547 TATATACT
1 TATATATT
5555 TATA
1 TATA
5559 ATGTATTAAT
Statistics
Matches: 169, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
6 7 0.04
7 41 0.24
8 75 0.44
9 27 0.16
10 19 0.11
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.52
Consensus pattern (8 bp):
TATATATT
Found at i:5469 original size:21 final size:23
Alignment explanation
Indices: 5434--5487 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
5424 GTATATAGAT
*
5434 TTTATATACTTTATAGTT-TAC-A
1 TTTATATA-TTTATACTTATACTA
*
5456 TTTATATATTTATACTTATACTT
1 TTTATATATTTATACTTATACTA
5479 TTTATATAT
1 TTTATATAT
5488 GTAAATTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 8 0.29
22 11 0.39
23 9 0.32
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTATATATTTATACTTATACTA
Found at i:5558 original size:14 final size:14
Alignment explanation
Indices: 5505--5552 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
5495 TGAATAAGTA
*
5505 TATATTTATATACT
1 TATATATATATACT
5519 TATATATATATACT
1 TATATATATATACT
5533 TATAT-TA-ATA--
1 TATATATATATACT
5543 TATATATATA
1 TATATATATA
5553 CTTATAATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
10 5 0.16
11 2 0.06
12 4 0.13
13 2 0.06
14 18 0.58
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
TATATATATATACT
Found at i:5637 original size:12 final size:13
Alignment explanation
Indices: 5614--5662 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
5604 ACAAGCATCA
*
5614 ATATTATCATATAA
1 ATATTAT-ATATAT
5628 ATTATTATATATAT
1 A-TATTATATATAT
5642 ATATATATATATAT
1 ATAT-TATATATAT
5656 ATATTAT
1 ATATTAT
5663 TGTTTTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.19
14 20 0.62
15 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
ATATTATATATAT
Found at i:5640 original size:2 final size:2
Alignment explanation
Indices: 5633--5659 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5623 TATAAATTAT
5633 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 T
5660 TATTGTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5991 original size:24 final size:24
Alignment explanation
Indices: 5964--6009 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
5954 TTAGTTCATT
5964 TTTTAT-ATTAATATCAATTTCACA
1 TTTTATAATTAAT-TCAATTTCACA
5988 TTTTATAATTAATTCAATTTCA
1 TTTTATAATTAATTCAATTTCA
6010 TCCCTCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTATAATTAATTCAATTTCACA
Found at i:6128 original size:2 final size:2
Alignment explanation
Indices: 6109--6144 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6099 TAAGTATAAG
* *
6109 TA TA TA TG TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6145 AAGTATAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6129 original size:14 final size:14
Alignment explanation
Indices: 6097--6143 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
6087 CATATATAAC
* *
6097 TATAAGTATAAGTA
1 TATATGTATATGTA
6111 TATATGTATATGTA
1 TATATGTATATGTA
* *
6125 TATATATATATATA
1 TATATGTATATGTA
6139 TATAT
1 TATAT
6144 AAAGTATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.47
Consensus pattern (14 bp):
TATATGTATATGTA
Found at i:6784 original size:23 final size:23
Alignment explanation
Indices: 6749--6805 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
6739 ATCAAGTACA
* *
6749 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
6772 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
6795 ATAATAAAATA
1 ATAATATAATA
6806 TGCATTTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:6849 original size:87 final size:87
Alignment explanation
Indices: 6632--6882 Score: 420
Period size: 85 Copynumber: 2.9 Consensus size: 87
6622 CGGTTATGTT
*
6632 ATAT-CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGTGCTTATATAATGTAA
1 ATATGCATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAA
6696 TAGGTAGCGC--ATATAATAAA
66 TAGGTAGCGCTTATATAATAAA
* *
6716 ATAGGCATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAA
1 ATATGCATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAA
6781 TAGGTAGCGCTTATATAATAAA
66 TAGGTAGCGCTTATATAATAAA
* * *
6803 ATATGCATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAACCCTTATAT-ATGTAA
1 ATATGCATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAA
6867 TAGGTAGCGCTTATAT
66 TAGGTAGCGCTTATAT
6883 TGACATATTT
Statistics
Matches: 156, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
84 3 0.02
85 68 0.44
86 21 0.13
87 64 0.41
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (87 bp):
ATATGCATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAA
TAGGTAGCGCTTATATAATAAA
Found at i:7496 original size:200 final size:195
Alignment explanation
Indices: 6899--7796 Score: 1019
Period size: 200 Copynumber: 4.5 Consensus size: 195
6889 ATTTATAAGT
* * * * **
6899 AAACCGGTATATTTATACCGATAACATTGCAAA-TTACCTATTACATTATAATTATCAATTTCGA
1 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
6963 TGTTTTTTGGATCGATACAATTTT--AAATGTATCGACACTTTATGTGTGCACCTCGTTGGGAAT
66 TG-TTTTTGGATCGATAC--TTTTAAAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCAT
* *
7026 TCATTCT-GA-AAACAAGTATCGACATAAACTTAAAGAGTATCGATACATTAT-TTAGACCTATT
128 TCATTCTGGACAAA-AAGTATCGACACAAA-TTAAA-AGTGTCGATACATTATGTT-GACCTA-T
7088 TTTTCATA
188 TTTTCATA
* * * * *
7096 AAAACGGTATATTTCTATCGGGTACATTGTAAATTTACCTATCACATTGTAATTATCGG-TTCGA
1 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
7160 TGTTTTTGGGATCGATAGTTTTAATAAATGTATCGACACTTTATGCGTTCACC-CATTTGGCATT
66 TGTTTTT-GGATCGATACTTTTAA-AAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATT
* * * *
7224 CATTATGGACAAAATGTATCGACACAAATTTAATAAGTGTCGATACTTTATGATGACCTATTTTC
129 CATTCTGGACAAAAAGTATCGACACAAA-TTAA-AAGTGTCGATACATTATGTTGACCTATTTT-
7289 TCATA
191 TCATA
* * *
7294 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTATATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
7359 TGTTTTTGGATCGATACTTTTTAAAACATGTATCGACACGTTATGCGTACAACC-CTTTTGGCAT
66 TGTTTTTGGATCGATAC-TTTTAAAA-ATGTATCGACACTTTATGCGTGC-ACCTCGTTTGGCAT
* * * *
7423 TCATTTTGGACAAAAAGTATCAACACAAATATAAAACGTGTCGATACGTTATGTTCACCTATTTT
128 TCATTCTGGACAAAAAGTATCGACACAAAT-TAAAA-GTGTCGATACATTATGTTGACCTATTTT
*
7488 AACATA
191 -TCATA
**
7494 AAACTAGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
7559 T-TTTATTGGGATCGATGCTTTTAATAATTGTATTGACACTTTATGCGTGCACCTCGTTTGAGCA
66 TGTTT-TT-GGATCGATACTTTTAA-AAATGTATCGACACTTTATGCGTGCACCTCGTTTG-GCA
* * *
7623 TTCATTCTGGACAATAAGTATCGACACAAATTACACGAGTGTCGATACATTATGTTGACCT-GTT
127 TTCATTCTGGACAAAAAGTATCGACACAAATTA-A-AAGTGTCGATACATTATGTTGACCTATTT
7687 TTC-TA
190 TTCATA
*** * *
7692 ATTAACCAACATATTTATATCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTC
1 A--AACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* *
7757 GATGTTTTTGGGTCGATACTTTCAGAAAATGTATCGACAC
64 GATGTTTTTGGATCGATACTTTTA-AAAATGTATCGACAC
7797 ATATTTAGGT
Statistics
Matches: 601, Mismatches: 73, Indels: 52
0.83 0.10 0.07
Matches are distributed among these distances:
195 4 0.01
196 5 0.01
197 59 0.10
198 156 0.26
199 78 0.13
200 231 0.38
201 67 0.11
202 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (195 bp):
AAACCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGATCGATACTTTTAAAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCA
TTCTGGACAAAAAGTATCGACACAAATTAAAAGTGTCGATACATTATGTTGACCTATTTTTCATA
Found at i:11474 original size:200 final size:200
Alignment explanation
Indices: 11001--11767 Score: 942
Period size: 201 Copynumber: 3.8 Consensus size: 200
10991 TGTTATTTAT
* * *
11001 AAGTATCGACACAAATCTAAAACGTGTCGATACATTATGTTA-ACCTATTTTCTCATAAAACCGG
1 AAGTATCGACACAAATCTAAAAAGTGTCGATACATTATG-TAGACATATTCTCTCATAAAACCGG
* *
11065 TACATTTATACCGGTTACATTGTAAA-TTACCTATTATATTATAATTATCGGTTTCGATGTTTTT
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTT
* * * * * *
11129 TGGATCGATACTTTTTAAAATATGCATCGACACTTAATGCGTGCAACCCTTTTG-GCATTTATTT
130 GGGATCGATACTTTTTAAAA-ATGTATCGACACTTTATGCATGC-ACCCTTTTGAGCATTCATTA
11193 TGGACAAAA
193 TGGAC-AAA
* * * ** * * ** *
11202 AAATATCGACATAAATCTAAAATGTGTCGATACATTATGTTCACCTATTTTAACATAAAACCAGT
1 AAGTATCGACACAAATCTAAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGT
11267 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
* * * * * *
11332 GGATCGATACTCTTTATAAATGTATCGATACTTTATGCATTCACCCTTTTGAGCATTCATTCTGT
131 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATGCACCCTTTTGAGCATTCATTATGG
11397 ACAAA
196 ACAAA
* * *
11402 AAGTATCGACACAACAT-TAAAAAGTGTCGACATATTATGTAGACATATTCTCAT-ATAAAACTG
1 AAGTATCGACACAA-ATCTAAAAAGTGTCGATACATTATGTAGACATATTCTC-TCATAAAACCG
* ** * * *
11465 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATAGGTCTCGATGTTTT
64 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * *
11530 TGGGATCGATACGTTTTAAAAATGTTTCGACACTTTATG-AGTGCACCCTTTATGAGAATTCATT
129 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCA-TGCACCCTTT-TGAGCATTCATT
11594 ATGGACAAA
192 ATGGACAAA
* * * * *
11603 CAGTATCGACACAAAT-TCCAGAAGTGTCGATAAATTATGTAGACATATTCTCTCATAAAACTGG
1 AAGTATCGACACAAATCT-AAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGG
* * *
11667 T-T-GTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTTAT-GGATTTCGATGTTTC
65 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGG-TTTCGATGTTTT
*
11729 TGGGATCGATACTTTTTAAAAATGTATGGACACTTTATG
129 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
11768 GGAAACTTTA
Statistics
Matches: 492, Mismatches: 64, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
198 2 0.00
199 86 0.17
200 166 0.34
201 184 0.37
202 54 0.11
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (200 bp):
AAGTATCGACACAAATCTAAAAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
GGATCGATACTTTTTAAAAATGTATCGACACTTTATGCATGCACCCTTTTGAGCATTCATTATGG
ACAAA
Found at i:12079 original size:11 final size:11
Alignment explanation
Indices: 12063--12114 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
12053 TATACATAAC
12063 AATGTTCAAAT
1 AATGTTCAAAT
12074 AATGTTCAAAT
1 AATGTTCAAAT
* *
12085 AATTTATACATAAA
1 AATGT-T-CA-AAT
12099 AATGTTCAAAT
1 AATGTTCAAAT
12110 AATGT
1 AATGT
12115 ACCCACAACG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 22 0.65
12 3 0.09
13 3 0.09
14 6 0.18
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (11 bp):
AATGTTCAAAT
Found at i:13116 original size:6 final size:6
Alignment explanation
Indices: 13093--13145 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
13083 ACTTGTTTGG
* * * * *
13093 ATCATC ATAATT ATCATC ATCATC ATCATC TTCATC GTCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
*
13141 TTCAT
1 ATCAT
13146 TGACCTCTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.42
Consensus pattern (6 bp):
ATCATC
Found at i:13127 original size:18 final size:18
Alignment explanation
Indices: 13093--13145 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
13083 ACTTGTTTGG
*
13093 ATCATCATAAT-TATCATC
1 ATCATCATCATCT-TCATC
13111 ATCATCATCATCTTCATC
1 ATCATCATCATCTTCATC
* *
13129 GTCATCTTCATCTTCAT
1 ATCATCATCATCTTCAT
13146 TGACCTCTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 30 0.97
19 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.02, T:0.42
Consensus pattern (18 bp):
ATCATCATCATCTTCATC
Found at i:15283 original size:200 final size:198
Alignment explanation
Indices: 14611--16195 Score: 1415
Period size: 200 Copynumber: 7.8 Consensus size: 198
14601 ATTTAAAATG
* * *
14611 GTATCAACACAAATTTA-ACAATTGTCGATAC-TTTATG-ATGACCTATTTTCTCATAAAACCGG
1 GTATCGACACAAA-TTACACAAGTGTCGATACATTT-TGTA-GACCTATTCTCTCATAAAACCGG
** * * * * * *
14673 TATATTTATACCGGTTATATTGGAAATTTACCAATTACATTATAATTATCGGTTTCGAT-GTTCT
63 TATAAGTATACCGGTTACATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTC-
* * * * *
14737 TGGGATCGACACTTTTTAAAAACGTATCGATACTTTATGCATGTAACCC--TTTGGCATTCCTTC
126 TGGGATCGACACTTTTTATAAATGTATCGACAC-TTATGCGTG-CACCCTTTTTGGCATTCCTTC
*
14800 TGGACAAAAA
189 TGGACCAAAA
* * * *
14810 GTATCGACACCAATTCCACAAGTGTCGATACATGTTGTAGACATATTCTCTCATAAAACCGGTAT
1 GTATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTAT
* * * * * * * *
14875 AATTATACCGCTTACATTGTAAATTTACCTATTACATTATATTTATGGGTTTCAATGTTTCTGGT
66 AAGTATACCGGTTACATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTCTGGG
* * * * *
14940 ATCGACACTTTTTATAAATATATCGACACTTTATGCGTTCA-TCATTTTGGCATTCATTCTGGA-
130 ATCGACACTTTTTATAAATGTATCGACAC-TTATGCGTGCACCCTTTTTGGCATTCCTTCTGGAC
15003 CAAAA
194 CAAAA
* * * * * *
15008 CGTATCGACACAAAATAAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATA
1 -GTATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTA
** * * *
15073 TATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTTTAG
65 TAAGTATACCGGTTACATTA-AAAATTACCTATTACATTATAATTATGGGTTTCGATATTTCTGG
* *
15138 GATCGACACTTTGTATAAATGTGTCGACACTTAGTG-GTGCACCCTTTTTCGGCATTCCTTCTGG
129 GATCGACACTTTTTATAAATGTATCGACACTTA-TGCGTGCACCCTTTTT-GGCATTCCTTCTGG
15202 ACCAAAA
192 ACCAAAA
* *
15209 GTATCGACACAAATTACACAAGTGTTGATACATTTTGTACACCTATTCTCTCATAAAACCGGTAT
1 GTATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTAT
* * ** * *
15274 AAGTATACCGATTACATTGAAAAATTACCTATTACATAATAATTATGATTTTTGATGTTTCTGGG
66 AAGTATACCGGTTACATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTCTGGG
* ** * * ** *
15339 ATCGACACTTTGTATAAATGTATCGACACTTTGTATAAATGTATCGACACTTAGTGATGCA-CCC
130 ATCGACACTTTTTATAAATGTATCGACAC--T-TAT--GCGT-GC-ACCCTTTTTG--GCATTCC
* * ***
15403 TTTTTGG-GCATTCC
186 -TTCTGGACCA-AAA
* * * * * * ** * *
15417 TTTTGGACGA-AAAGTATCGACACAAAT-TACACAAGTGTCCATACATATTGTACACATATTCTC
1 GTATCGAC-ACAAA-T-T--ACACAAGTGT---C--G-ATACAT-TTTGTAG-AC-C-TATTCTC
* *
15480 TCATAAAACCGGTATAAGTATACCGGTTAAATTGAAAAATTACCTATTACATTATAATTATGGTT
51 TCATAAAACCGGTATAAGTATACCGGTTACATT-AAAAATTACCTATTACATTATAATTATGGGT
* * * * *
15545 TTCAATATTTTTGGGATCGACACTTCTTATAAATGTATTGACACTTAGTG-GTGCAGCCTTTTTG
115 TTCGATATTTCTGGGATCGACACTTTTTATAAATGTATCGACACTTA-TGCGTGCACCCTTTTTG
* *
15609 GCCATTCATTCTAGACCAAAA
179 G-CATTCCTTCTGGACCAAAA
*
15630 GTATCGACACAAATTACACAAGTGTCGATACATATTGT-GCACCTATTCTCTCATAAAACCGGTA
1 GTATCGACACAAATTACACAAGTGTCGATACATTTTGTAG-ACCTATTCTCTCATAAAACCGGTA
*
15694 TATGTATACCGGTTACATTAAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTCTGG
65 TAAGTATACCGGTTACATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTCTGG
* * *
15759 GATCGATACTTGTTTATAAATGTATCGACACTTTTTGCGTGCACCCTTTTAGGCATTCCTTCTGG
129 GATCGACACTT-TTTATAAATGTATCGACAC-TTATGCGTGCACCCTTTTTGGCATTCCTTCTGG
*
15824 A-GAAACA
192 ACCAAA-A
* * * * *
15831 ATATCGACACAAATTCCAGAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGT-T
1 GTATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTAT
* * * *
15895 TAGTTATACCAGTTACATTGAAAAATTATCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
66 AAG-TATACCGGTTACATT-AAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTCTGG
** ** * * * * *
15960 GATCGACACTTTCAATAAATGTATCGACGTGTTATGCGTTCATCATTTTGGGCATTCATTCTGGA
129 GATCGACACTTTTTATAAATGTATCGAC-ACTTATGCGTGCACCCTTTTTGGCATTCCTTCTGGA
*
16025 CAAAAA
193 CCAAAA
* * * * * ***
16031 GTATCGACACATAATGA-AAAAATGTCGATACATTATGTAGACCTATTCTCACATAAAACTAATA
1 GTATCGACACA-AATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTA
** * * * *
16095 TATTTATACAGGTTATATTATAAAATTACCTATTACATTATAATTATGGGTTTCAATATTTTTGG
65 TAAGTATACCGGTTACATTA-AAAATTACCTATTACATTATAATTATGGGTTTCGATATTTCTGG
* *
16160 GATCGACACTTTTTATAAACGTATCGACACATATGC
129 GATCGACACTTTTTATAAATGTATCGACACTTATGC
16196 TTACCTATGT
Statistics
Matches: 1131, Mismatches: 198, Indels: 114
0.78 0.14 0.08
Matches are distributed among these distances:
197 1 0.00
198 14 0.01
199 298 0.26
200 422 0.37
201 167 0.15
202 21 0.02
203 4 0.00
204 4 0.00
205 3 0.00
206 2 0.00
207 11 0.01
208 16 0.01
209 9 0.01
210 2 0.00
211 2 0.00
212 10 0.01
213 14 0.01
214 9 0.01
215 1 0.00
216 3 0.00
217 4 0.00
218 4 0.00
219 4 0.00
220 1 0.00
221 105 0.09
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (198 bp):
GTATCGACACAAATTACACAAGTGTCGATACATTTTGTAGACCTATTCTCTCATAAAACCGGTAT
AAGTATACCGGTTACATTAAAAATTACCTATTACATTATAATTATGGGTTTCGATATTTCTGGGA
TCGACACTTTTTATAAATGTATCGACACTTATGCGTGCACCCTTTTTGGCATTCCTTCTGGACCA
AAA
Found at i:15363 original size:21 final size:21
Alignment explanation
Indices: 15339--15390 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
15329 TGTTTCTGGG
15339 ATCGACACTTTGTATAAATGT
1 ATCGACACTTTGTATAAATGT
15360 ATCGACACTTTGTATAAATGT
1 ATCGACACTTTGTATAAATGT
15381 ATCGACACTT
1 ATCGACACTT
15391 AGTGATGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (21 bp):
ATCGACACTTTGTATAAATGT
Found at i:15522 original size:221 final size:221
Alignment explanation
Indices: 15139--15590 Score: 726
Period size: 221 Copynumber: 2.0 Consensus size: 221
15129 TATTTTTAGG
* *
15139 ATCGACACTTTGTATAAATGTGTCGACACTTAGTGGTGCACCCTTTTTCGGCATTCCTTCTGGAC
1 ATCGACACTTTGTATAAATGTATCGACACTTAGTGATGCACCCTTTTTCGGCATTCCTTCTGGAC
** * *
15204 CAAAAGTATCGACACAAATTACACAAGTGTTGATACATTTTGTACACCTATTCTCTCATAAAACC
66 CAAAAGTATCGACACAAATTACACAAGTGTCCATACATATTGTACACATATTCTCTCATAAAACC
* ** *
15269 GGTATAAGTATACCGATTACATTGAAAAATTACCTATTACATAATAATTATGATTTTTGATGTTT
131 GGTATAAGTATACCGATTAAATTGAAAAATTACCTATTACATAATAATTATGATTTTCAATATTT
15334 CTGGGATCGACACTT-TGTATAAATGT
196 CTGGGATCGACACTTCT-TATAAATGT
* *
15360 ATCGACACTTTGTATAAATGTATCGACACTTAGTGATGCACCCTTTTTGGGCATTCCTTTTGGAC
1 ATCGACACTTTGTATAAATGTATCGACACTTAGTGATGCACCCTTTTTCGGCATTCCTTCTGGAC
*
15425 GAAAAGTATCGACACAAATTACACAAGTGTCCATACATATTGTACACATATTCTCTCATAAAACC
66 CAAAAGTATCGACACAAATTACACAAGTGTCCATACATATTGTACACATATTCTCTCATAAAACC
* * *
15490 GGTATAAGTATACCGGTTAAATTGAAAAATTACCTATTACATTATAATTATGGTTTTCAATATTT
131 GGTATAAGTATACCGATTAAATTGAAAAATTACCTATTACATAATAATTATGATTTTCAATATTT
*
15555 TTGGGATCGACACTTCTTATAAATGT
196 CTGGGATCGACACTTCTTATAAATGT
*
15581 ATTGACACTT
1 ATCGACACTT
15591 AGTGGTGCAG
Statistics
Matches: 212, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
221 211 1.00
222 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (221 bp):
ATCGACACTTTGTATAAATGTATCGACACTTAGTGATGCACCCTTTTTCGGCATTCCTTCTGGAC
CAAAAGTATCGACACAAATTACACAAGTGTCCATACATATTGTACACATATTCTCTCATAAAACC
GGTATAAGTATACCGATTAAATTGAAAAATTACCTATTACATAATAATTATGATTTTCAATATTT
CTGGGATCGACACTTCTTATAAATGT
Found at i:16122 original size:401 final size:400
Alignment explanation
Indices: 14654--16189 Score: 1331
Period size: 401 Copynumber: 3.8 Consensus size: 400
14644 TATGATGACC
* ** * * * * *
14654 TATTTTCTCATAAAACCGGTATATTTATACCGGTTATATTGGAAATTTACCAATTACATTATAAT
1 TATTCTCTCATAAAACCGGTATAAGTATACCAGTTAAATTGAAAAATTACCTATTACATTATAAT
* * * * * * * *
14719 TATCGGTTTCGAT-GTTCTTGGGATCGACACTTTTTAA-AAACGTATCGATACTTTA-TGCATGT
66 TATGGGTTTCAATATTTC-TGGGATCGACAC-TTCTAATAAATGTATCGACAC-TTAGTG-GTGC
* * * * * ** * * *
14781 AACC-CTTTGG-CATTCCTTCTGGACAAAAAGTATCGACACCAATTCCACAAGTGTCGATACATG
127 AGCCATTTTGGCCATTCATTCTAGACAAAAAGTATCGACACAAATGACAAAAATGTCGATACATA
* * ** * * ** *
14844 TTGTAG-ACATATTCTCTCATAAAACCGGTATAAT-TATACCGCTTACATTGTAAATTTACCTAT
192 TTGT-GCACCTATTCTCACATAAAACCAATAT-ATGTATACAGGTTACATTAAAAAATTACCTAT
* * * *
14907 TACATTATATTTATGGGTTTCAATGTTTCTGGTATCGACACTTTTTATAAATATATCGACACTTT
255 TACATTATAATTATGGGTTTCAATATTTCTGGGATCGACACTTTTTATAAATGTATCGACAC-TT
* * * * * * * * *
14972 A-TGCGTTCA-TCATTTT-GGCATTCATTCTGGAC-AAAACGTATCGACACAAAATAAAAAAGTG
319 AGTG-ATGCACCCTTTTTAGGCATTCCTTCTGGACGAAAA-ATATCGACACAAATTACACAAGTG
* * *
15033 TCGATACAT-TATGTAGACC
382 TCCATACATAT-TGTACACA
* * ** * *
15052 TATTCTCACATAAAACCGATATATTTATACCGGTTATATT-ACAAAATTACCTATTACATTATAA
1 TATTCTCTCATAAAACCGGTATAAGTATACCAGTTAAATTGA-AAAATTACCTATTACATTATAA
* * * * * *
15116 TTATGGGTTTCGATATTTTTAGGATCGACACTT-TGTATAAATGTGTCGACACTTAGTGGTGCAC
65 TTATGGGTTTCAATATTTCTGGGATCGACACTTCT-AATAAATGTATCGACACTTAGTGGTGCAG
* * * * * * * * *
15180 CCTTTTTCGG-CATTCCTTCTGGACCAAAAGTATCGACACAAATTACACAAGTGTTGATACATTT
129 CCATTTT-GGCCATTCATTCTAGACAAAAAGTATCGACACAAATGACAAAAATGTCGATACATAT
* * ** * * * *
15244 TGTACACCTATTCTCTCATAAAACCGGTATAAGTATACCGATTACATTGAAAAATTACCTATTAC
193 TGTGCACCTATTCTCACATAAAACCAATATATGTATACAGGTTACATTAAAAAATTACCTATTAC
* * * * * *
15309 ATAATAATTATGATTTTTGATGTTTCTGGGATCGACACTTTGTATAAATGTATCGACACTTTGTA
258 ATTATAATTATG------G--GTTTC----A---ATA--TT-TCT---GGGATCGACACTTTTTA
* * *
15374 TAAATGTATCGACACTTAGTGATGCACCCTTTTTGGGCATTCCTTTTGGACGAAAAGTATCGACA
302 TAAATGTATCGACACTTAGTGATGCACCCTTTTTAGGCATTCCTTCTGGACGAAAAATATCGACA
15439 CAAATTACACAAGTGTCCATACATATTGTACACA
367 CAAATTACACAAGTGTCCATACATATTGTACACA
*
15473 TATTCTCTCATAAAACCGGTATAAGTATACCGGTTAAATTGAAAAATTACCTATTACATTATAAT
1 TATTCTCTCATAAAACCGGTATAAGTATACCAGTTAAATTGAAAAATTACCTATTACATTATAAT
* * * *
15538 TATGGTTTTCAATATTTTTGGGATCGACACTTCTTATAAATGTATTGACACTTAGTGGTGCAGCC
66 TATGGGTTTCAATATTTCTGGGATCGACACTTCTAATAAATGTATCGACACTTAGTGGTGCAGCC
* * * * *
15603 TTTTTGGCCATTCATTCTAGACCAAAAGTATCGACACAAATTACACAAGTGTCGATACATATTGT
131 ATTTTGGCCATTCATTCTAGACAAAAAGTATCGACACAAATGACAAAAATGTCGATACATATTGT
* ** *
15668 GCACCTATTCTCTCATAAAACCGGTATATGTATACCGGTTACATTAAAAAATTACCTATTACATT
196 GCACCTATTCTCACATAAAACCAATATATGTATACAGGTTACATTAAAAAATTACCTATTACATT
* * ** *
15733 ATAATTATGGGTTTCGATATTTCTGGGATCGATACTTGTTTATAAATGTATCGACACTTTTTGCG
261 ATAATTATGGGTTTCAATATTTCTGGGATCGACACTT-TTTATAAATGTATCGACACTTAGTG-A
* * *
15798 TGCACCC-TTTTAGGCATTCCTTCTGGA-GAAACAATATCGACACAAATTCCAGAAGTGTCGATA
324 TGCACCCTTTTTAGGCATTCCTTCTGGACGAAA-AATATCGACACAAATTACACAAGTGTCCATA
*
15861 CAT-TATGTAGACA
388 CATAT-TGTACACA
* * *
15874 TATTCTCTCATAAAACCGGT-TTAGTTATACCAGTTACATTGAAAAATTATCTATTACATTATAA
1 TATTCTCTCATAAAACCGGTATAAG-TATACCAGTTAAATTGAAAAATTACCTATTACATTATAA
* * ** *
15938 TTATGGGTTTCGATGTTTCTGGGATCGACACTT-TCAATAAATGTATCGACGTGTTA-TGCGTTC
65 TTATGGGTTTCAATATTTCTGGGATCGACACTTCT-AATAAATGTATCGAC-ACTTAGTG-GTGC
* * *
16001 A-TCATTTTGGGCATTCATTCTGGACAAAAAGTATCGACACATAATGA-AAAAATGTCGATACAT
127 AGCCATTTTGGCCATTCATTCTAGACAAAAAGTATCGACACA-AATGACAAAAATGTCGATACAT
* * * *
16064 -TATGTAG-ACCTATTCTCACATAAAACTAATATATTTATACAGGTTATATTATAAAATTACCTA
191 AT-TGT-GCACCTATTCTCACATAAAACCAATATATGTATACAGGTTACATTAAAAAATTACCTA
* *
16127 TTACATTATAATTATGGGTTTCAATATTTTTGGGATCGACACTTTTTATAAACGTATCGACAC
254 TTACATTATAATTATGGGTTTCAATATTTCTGGGATCGACACTTTTTATAAATGTATCGACAC
16190 ATATGCTTAC
Statistics
Matches: 970, Mismatches: 119, Indels: 96
0.82 0.10 0.08
Matches are distributed among these distances:
396 1 0.00
397 11 0.01
398 98 0.10
399 119 0.12
400 38 0.04
401 318 0.33
402 19 0.02
403 2 0.00
404 2 0.00
405 1 0.00
406 2 0.00
407 5 0.01
411 1 0.00
413 5 0.01
414 1 0.00
415 1 0.00
416 2 0.00
417 2 0.00
419 6 0.01
420 38 0.04
421 291 0.30
422 7 0.01
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (400 bp):
TATTCTCTCATAAAACCGGTATAAGTATACCAGTTAAATTGAAAAATTACCTATTACATTATAAT
TATGGGTTTCAATATTTCTGGGATCGACACTTCTAATAAATGTATCGACACTTAGTGGTGCAGCC
ATTTTGGCCATTCATTCTAGACAAAAAGTATCGACACAAATGACAAAAATGTCGATACATATTGT
GCACCTATTCTCACATAAAACCAATATATGTATACAGGTTACATTAAAAAATTACCTATTACATT
ATAATTATGGGTTTCAATATTTCTGGGATCGACACTTTTTATAAATGTATCGACACTTAGTGATG
CACCCTTTTTAGGCATTCCTTCTGGACGAAAAATATCGACACAAATTACACAAGTGTCCATACAT
ATTGTACACA
Found at i:16561 original size:19 final size:19
Alignment explanation
Indices: 16537--16585 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
16527 TTACATCCAC
16537 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
16556 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
*
16575 ATGCAAAATTA
1 ATACAAAATTA
16586 ACTCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:18041 original size:18 final size:18
Alignment explanation
Indices: 18018--18073 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
18008 TCCTCCTCAT
*
18018 TTCCTCCATCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
18036 TTCCTCCCTCTTTTCTTC
1 TTCCTCCCTCTTTTCTTC
18054 TTCCTCCCTCTTTT-TTC
1 TTCCTCCCTCTTTTCTTC
18071 TTC
1 TTC
18074 ATATTTTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 6 0.16
18 31 0.84
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (18 bp):
TTCCTCCCTCTTTTCTTC
Found at i:18260 original size:21 final size:21
Alignment explanation
Indices: 18235--18275 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18225 CATCAATTTT
* *
18235 TTCACCCCTCACCATCTTAAG
1 TTCACCCCTCAACACCTTAAG
18256 TTCACCCCTCAACACCTTAA
1 TTCACCCCTCAACACCTTAA
18276 CTTATTTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.44, G:0.02, T:0.27
Consensus pattern (21 bp):
TTCACCCCTCAACACCTTAAG
Found at i:18298 original size:33 final size:33
Alignment explanation
Indices: 18256--18388 Score: 239
Period size: 33 Copynumber: 4.0 Consensus size: 33
18246 CCATCTTAAG
* *
18256 TTCACCCCTCAACACCTTAACTTATTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
18289 TTCACCCCTCAACACCTTAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
18322 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
18355 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
18388 T
1 T
18389 CCATCTATTT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 98 1.00
ACGTcount: A:0.25, C:0.46, G:0.00, T:0.29
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:18567 original size:15 final size:15
Alignment explanation
Indices: 18547--18579 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18537 ACTCTGTTTT
18547 CCCTCACCATCATCC
1 CCCTCACCATCATCC
*
18562 CCCTCACCGTCATCC
1 CCCTCACCATCATCC
18577 CCC
1 CCC
18580 AATACAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.64, G:0.03, T:0.18
Consensus pattern (15 bp):
CCCTCACCATCATCC
Found at i:18884 original size:22 final size:23
Alignment explanation
Indices: 18858--18913 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
18848 AACATGCATC
18858 TATAATAAAAT-TTATAATTTTA
1 TATAATAAAATATTATAATTTTA
* *
18880 TATAATAACTATATTATCATTTTA
1 TATAATAA-AATATTATAATTTTA
*
18904 TATAAAAAAA
1 TATAATAAAA
18914 ACGTTCTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATAAAATATTATAATTTTA
Found at i:21181 original size:182 final size:182
Alignment explanation
Indices: 20874--21546 Score: 952
Period size: 182 Copynumber: 3.7 Consensus size: 182
20864 TACGCGTACT
* ** *** *
20874 TATTAAAGTATCGACACTTTCAATATATCCGGTAGTGCTTTACCGGTTTTGTCAGTTAGAGATCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
* * * *
20939 GTTTTATCATATTTTTACCTTTTATATCGTTATGGATCGATACATCTTTATAAAGAATCGATATT
66 GTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGAATCGACACT
*
21004 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTGACAATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * *
21056 TATTAAAGTATCGACACTTTTAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCA
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
*
21121 GTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGAATCGACACT
* * *
21186 TTATAAGCGCTAAAACTGCTTCTCCTGTAAATTCACAATGTGTTGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * * * * *
21238 TATTAAAGTATCGACAATTTCAATATATTCAGTATCTCTTTACCGGTTTTGTCTTTTCCTCACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
* * * * *
21303 ATTTTATCATATTTTTACCTATTATATCATTGTGGATCGATACATATTTATAAAGAATCGACACT
66 GTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGAATCGACACT
* *
21368 TTATAGGTGCTAAAACTG-TTCTCCTTTAAATTCACTATGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
* * *
21419 TATTAAAGTAGCGACACTTGCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
* * * * * ** *
21484 GTTTTGTCATATTTTTTCCTGTTATATTGATGTGGATAAATACATTTTTATAAAGTATCGACA
66 GTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGAATCGACA
21547 TAAACCGACA
Statistics
Matches: 432, Mismatches: 59, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
181 138 0.32
182 294 0.68
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCG
GTTTTATCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGAATCGACACT
TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTA
Found at i:21546 original size:363 final size:364
Alignment explanation
Indices: 20874--21546 Score: 1017
Period size: 363 Copynumber: 1.9 Consensus size: 364
20864 TACGCGTACT
* * * * *
20874 TATTAAAGTATCGACACTTTCAATATATCCGGTAGTGCTTTACCGGTTTTGTCAGTTAGAGATCG
1 TATTAAAGTATCGACAATTTCAATATATCCAGTAGTGCTTTACCGGTTTTGTCAGTTACACACCG
* * * * * *
20939 GTTTTATCATATTTTTACCTTTTATATCGTTATGGATCGATACATCTTTATAAAGAATCGATATT
66 ATTTTATCATATTTTTACCTATTATATCATTATGGATCGATACATATTTATAAAGAATCGACACT
* *
21004 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTGACAATGTGTCGATACTTATATTAAAGTATCG
131 TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTAGCG
** *
21069 ACACTTTTAATATATCTGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCAGTTTTGTCATATT
196 ACACTTGCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCAGTTTTGTCATATT
* **
21134 TTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGAATCGACACTTTATAAGCGCTAA
261 TTTACCTGTTATATCGATATGGATAAATACATTTTTATAAAGAATCGACACTTTATAAGCGCTAA
21199 AACTGCTTCTCCTGTAAATTCACAATGTGTTGATACTTA
326 AACTGCTTCTCCTGTAAATTCACAATGTGTTGATACTTA
* * ** * *
21238 TATTAAAGTATCGACAATTTCAATATATTCAGTA-TCTCTTTACCGGTTTTGTCTTTTCCTCACC
1 TATTAAAGTATCGACAATTTCAATATATCCAGTAGT-GCTTTACCGGTTTTGTCAGTTACACACC
*
21302 GATTTTATCATATTTTTACCTATTATATCATTGTGGATCGATACATATTTATAAAGAATCGACAC
65 GATTTTATCATATTTTTACCTATTATATCATTATGGATCGATACATATTTATAAAGAATCGACAC
* *
21367 TTTATAGGTGCTAAAACTG-TTCTCCTTTAAATTCACTATGTGTCGATACTTATATTAAAGTAGC
130 TTTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTAGC
* *
21431 GACACTTGCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCGTGACCGGTTTTGTCATAT
195 GACACTTGCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCAGTTTTGTCATAT
* * * *
21496 TTTTTCCTGTTATATTGATGTGGATAAATACATTTTTATAAAGTATCGACA
260 TTTTACCTGTTATATCGATATGGATAAATACATTTTTATAAAGAATCGACA
21547 TAAACCGACA
Statistics
Matches: 274, Mismatches: 34, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
363 147 0.54
364 127 0.46
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (364 bp):
TATTAAAGTATCGACAATTTCAATATATCCAGTAGTGCTTTACCGGTTTTGTCAGTTACACACCG
ATTTTATCATATTTTTACCTATTATATCATTATGGATCGATACATATTTATAAAGAATCGACACT
TTATAGGCGCTAAAACTGCTTCTCCTTTAAATTCACAATGTGTCGATACTTATATTAAAGTAGCG
ACACTTGCAATATATCCGGTAGCGCTTTACCGGTTTTGTCTTTTCCTGACCAGTTTTGTCATATT
TTTACCTGTTATATCGATATGGATAAATACATTTTTATAAAGAATCGACACTTTATAAGCGCTAA
AACTGCTTCTCCTGTAAATTCACAATGTGTTGATACTTA
Found at i:24820 original size:33 final size:32
Alignment explanation
Indices: 24778--24880 Score: 109
Period size: 33 Copynumber: 3.1 Consensus size: 32
24768 GTGGTAAGAA
* * *
24778 ATTTATTTTTATGTTAGTATTT-TTTAAATAGTT
1 ATTT-TTTTTATATTAATATTTATATAAATA-TT
24811 ATTATTTTTTATATTAATATTTATATAAATATT
1 ATT-TTTTTTATATTAATATTTATATAAATATT
* * *
24844 ATTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTT-TTATATTAATATTTATATAAATATT
24877 ATTT
1 ATTT
24881 ATTTAGAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
32 4 0.07
33 49 0.80
34 8 0.13
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (32 bp):
ATTTTTTTTATATTAATATTTATATAAATATT
Found at i:24842 original size:18 final size:18
Alignment explanation
Indices: 24821--24877 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
24811 ATTATTTTTT
24821 ATATTAATATTTATATAA
1 ATATTAATATTTATATAA
* *
24839 ATATTATTTTTTAT-TAA
1 ATATTAATATTTATATAA
24856 A-A-TAATATTTATATAA
1 ATATTAATATTTATATAA
*
24872 TTATTA
1 ATATTA
24878 TTTATTTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 8 0.26
16 4 0.13
17 5 0.16
18 14 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTAATATTTATATAA
Found at i:24846 original size:15 final size:15
Alignment explanation
Indices: 24828--24882 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
24818 TTTATATTAA
24828 TATTTATATAAATAT
1 TATTTATATAAATAT
* *
24843 TATTTTTTATTAAAATAA
1 TA-TTTATA-T-AAATAT
*
24861 TATTTATATAATTAT
1 TATTTATATAAATAT
24876 TATTTAT
1 TATTTAT
24883 TTAGAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 13 0.41
16 6 0.19
17 6 0.19
18 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTATATAAATAT
Found at i:25047 original size:17 final size:17
Alignment explanation
Indices: 25025--25078 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
25015 AATGTTAATA
25025 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
25042 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
25059 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
25076 TTT
1 TTT
25079 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:26637 original size:21 final size:21
Alignment explanation
Indices: 26607--26654 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
26597 GCAGGGGTAC
* *
26607 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
26628 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
26649 ATGCCA
1 ATGCCA
26655 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:26684 original size:21 final size:21
Alignment explanation
Indices: 26658--26730 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
26648 TATGCCATCT
*
26658 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
26679 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
26700 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
26721 CCGCAGGGTT
1 CCGCAGGGTT
26731 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.18, C:0.34, G:0.27, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:27311 original size:33 final size:34
Alignment explanation
Indices: 27252--27348 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 34
27242 TAAATGTTTT
*
27252 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * * *
27286 AAAATAAAAATAATATTTTTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
27319 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
27349 CATTAAATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 27 0.51
34 26 0.49
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:27355 original size:34 final size:33
Alignment explanation
Indices: 27250--27355 Score: 124
Period size: 34 Copynumber: 3.2 Consensus size: 33
27240 GATAAATGTT
*
27250 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* * *
27284 TAAAAATAAAAATAATATTTTTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
27316 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
27351 TTAAA
1 TTAAA
27356 TTTCAACTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.05
33 24 0.40
34 32 0.53
35 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.39
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:28024 original size:128 final size:128
Alignment explanation
Indices: 27739--28623 Score: 1729
Period size: 128 Copynumber: 6.9 Consensus size: 128
27729 AGTTATTCAA
27739 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
*
27804 GAAGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
27866 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
27931 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
27994 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
*
28059 GACGAAATAATGGAAGACGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
28122 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
28187 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
28250 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
28315 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
28378 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
28443 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
28506 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
28571 GACGAAATAATGGAAGGCGCG-CCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
28624 CCGATTATAG
Statistics
Matches: 752, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
127 116 0.15
128 636 0.85
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (128 bp):
ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:28704 original size:8 final size:8
Alignment explanation
Indices: 28691--28731 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
28681 TCACAATCTT
28691 TCAAATTC
1 TCAAATTC
28699 TCAAATTC
1 TCAAATTC
* *
28707 CCAAACTC
1 TCAAATTC
28715 T-AAATTC
1 TCAAATTC
28722 TCAAATTC
1 TCAAATTC
28730 TC
1 TC
28732 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:33378 original size:24 final size:26
Alignment explanation
Indices: 33322--33380 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 26
33312 TCTAAACAAT
33322 AAAATAAAAT-GATTGGAATAAATGA
1 AAAATAAAATAGATTGGAATAAATGA
33347 AAAA-AAAATAGA-TGGAAT-AA-GA
1 AAAATAAAATAGATTGGAATAAATGA
33369 AAACATAAAATA
1 AAA-ATAAAATA
33381 AACAAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.16
23 3 0.10
24 17 0.55
25 6 0.19
ACGTcount: A:0.66, C:0.02, G:0.14, T:0.19
Consensus pattern (26 bp):
AAAATAAAATAGATTGGAATAAATGA
Found at i:38737 original size:9 final size:9
Alignment explanation
Indices: 38723--38756 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
38713 AATTCAAGGA
38723 AAAATAAAT
1 AAAATAAAT
38732 AAAATAAAT
1 AAAATAAAT
*
38741 -AAATAAAA
1 AAAATAAAT
38749 AAAATAAA
1 AAAATAAA
38757 ACGAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:38742 original size:13 final size:13
Alignment explanation
Indices: 38722--38756 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
38712 TAATTCAAGG
38722 AAAAATAAATAAA
1 AAAAATAAATAAA
*
38735 ATAAATAAATAAA
1 AAAAATAAATAAA
38748 AAAAATAAA
1 AAAAATAAA
38757 ACGAATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAATAAATAAA
Found at i:40321 original size:34 final size:34
Alignment explanation
Indices: 40249--40368 Score: 170
Period size: 34 Copynumber: 3.5 Consensus size: 34
40239 CGAGGGTCTG
* * *
40249 TGTGTTTCAAAATAAAC-ATTTTTAAAGGTTTTTTT
1 TGTGTTTCAAGAGAAACGA-TTTCAAAGG-TTTTTT
40284 TGTGTTTCAAGAGAAACGATTTCAAAGGTTTTTT
1 TGTGTTTCAAGAGAAACGATTTCAAAGGTTTTTT
* *
40318 TGTGTTTCAAGAGAAATGATTTCAAAGATTTTTT
1 TGTGTTTCAAGAGAAACGATTTCAAAGGTTTTTT
40352 TGTGTTTCAAGAGAAAC
1 TGTGTTTCAAGAGAAAC
40369 TATCTCAAGA
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
34 54 0.69
35 23 0.29
36 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.43
Consensus pattern (34 bp):
TGTGTTTCAAGAGAAACGATTTCAAAGGTTTTTT
Found at i:40406 original size:37 final size:36
Alignment explanation
Indices: 40354--40989 Score: 284
Period size: 36 Copynumber: 18.9 Consensus size: 36
40344 GATTTTTTTG
*
40354 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAACTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
*
40391 TTTTTCAAG-GAAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAG-AAACTATCTCAAGAGAGACAAAATT
*
40427 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
* * * *
40464 AGCTCCAAAAGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
*
40500 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TATCTCAAGAGAGACAAAATT
* *
40529 TGTTTCAAGGGAAACTGTCT---------C--AATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * *
40554 TGTTTCAAGGGAAACTGTCTCAAGAGAGGCAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * *
40590 CGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACGT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
* * * * *
40627 AGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
*
40663 TGTTTCAAG-GAAAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAAGAG-AAAC-TATCTCAAGAGAGACAAAATT
* *
40692 TGTTTCAAGGGAAACTGTCT---------C--AATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* * *
40717 TGTTTCAAGGGAAACTGTCTCAAGATAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* *
40753 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAATA
1 TGTTTCAAGAGAAACTATCTC-A-AGAG----AGACAAAATT
* *
40795 TGTTTCAAGAGAAACTGTATCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TT
* * * *
40832 AGTTCGCAA-AGAAACTGTCTCAA-AGGAGACGAAATT
1 TGTT-TCAAGAGAAACTATCTCAAGA-GAGACAAAATT
*
40868 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TATCTCAAGAGAGACAAAATT
*
40897 TGTTTCAAGGGAAACTA--T---------CAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
* *
40922 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
*
40958 TGTTTCAAGAGAAACTCTCTCAAGAGAGACAA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAA
40990 CTTAGTTTTG
Statistics
Matches: 482, Mismatches: 52, Indels: 131
0.72 0.08 0.20
Matches are distributed among these distances:
25 65 0.13
27 2 0.00
28 6 0.01
29 47 0.10
30 4 0.01
33 6 0.01
34 5 0.01
35 6 0.01
36 175 0.36
37 126 0.26
38 6 0.01
40 4 0.01
41 1 0.00
42 29 0.06
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATT
Found at i:40436 original size:73 final size:73
Alignment explanation
Indices: 40354--40512 Score: 232
Period size: 73 Copynumber: 2.2 Consensus size: 73
40344 GATTTTTTTG
*** * *
40354 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAACTTTTTTTC-AAGGAAAACTATCTCAAGAGA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAACTTAGCTCCAAAAG-AAACTATCTCAAGAGA
40418 GACAAAATT
65 GACAAAATT
* *
40427 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGCTCCAAAAGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAACTTAGCTCCAAAAGAAACTATCTCAAGAGAG
40492 ACAAAATT
66 ACAAAATT
40500 TGTTTCAAG-GAAA
1 TGTTTCAAGAGAAA
40513 ACATATTCAA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
72 4 0.05
73 71 0.91
74 3 0.04
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAACTTAGCTCCAAAAGAAACTATCTCAAGAGAG
ACAAAATT
Found at i:40551 original size:29 final size:27
Alignment explanation
Indices: 40493--40576 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 27
40483 TCAAGAGAGA
* *
40493 CAAAATTTGTTTCAAGGAAAACATAT-T
1 CAAAATTTGTTTCAAGGGAAAC-TGTCT
40520 CAAAGATTTTGTTTCAAGGGAAACTGTCT
1 CAAA-A-TTTGTTTCAAGGGAAACTGTCT
40549 C--AATTTGTTTCAAGGGAAACTGTCT
1 CAAAATTTGTTTCAAGGGAAACTGTCT
40574 CAA
1 CAA
40577 GAGAGGCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
25 23 0.46
26 1 0.02
27 5 0.10
28 3 0.06
29 18 0.36
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (27 bp):
CAAAATTTGTTTCAAGGGAAACTGTCT
Found at i:40580 original size:163 final size:163
Alignment explanation
Indices: 40393--40785 Score: 705
Period size: 163 Copynumber: 2.4 Consensus size: 163
40383 AAAAACTTTT
* *
40393 TTTCAAGGAAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
*
40458 AAACTTAGCTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAA
66 AAACGTAGCTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAA
40523 AGATTTTGTTTCAAGGGAAACTGTCTCAATTTG
131 AGATTTTGTTTCAAGGGAAACTGTCTCAATTTG
* *
40556 TTTCAAGGGAAACTGTCTCAAGAGAGGCAAAATTCGTTTCAAGAGAAACTGTCTCAAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
* * *
40621 AAACGTAGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATTTGTTTCAAGGAAAACATATTCAA
66 AAACGTAGCTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAA
40686 AGATTTTGTTTCAAGGGAAACTGTCTCAATTTG
131 AGATTTTGTTTCAAGGGAAACTGTCTCAATTTG
*
40719 TTTCAAGGGAAACTGTCTCAAGATAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
40784 AA
66 AA
40786 GACAAAATAT
Statistics
Matches: 219, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
163 219 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (163 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
AAACGTAGCTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAA
AGATTTTGTTTCAAGGGAAACTGTCTCAATTTG
Found at i:40714 original size:29 final size:27
Alignment explanation
Indices: 40658--40739 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 27
40648 AAGGGAGACG
* *
40658 AAATTTGTTTCAAGGAAAACATAT-TCA
1 AAATTTGTTTCAAGGGAAAC-TGTCTCA
40685 AAGATTTTGTTTCAAGGGAAACTGTCTC-
1 AA-A-TTTGTTTCAAGGGAAACTGTCTCA
40713 -AATTTGTTTCAAGGGAAACTGTCTCA
1 AAATTTGTTTCAAGGGAAACTGTCTCA
40739 A
1 A
40740 GATAGACAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
25 23 0.48
26 1 0.02
27 3 0.06
28 3 0.06
29 18 0.38
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (27 bp):
AAATTTGTTTCAAGGGAAACTGTCTCA
Found at i:40718 original size:25 final size:25
Alignment explanation
Indices: 40690--40739 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
40680 ATTCAAAGAT
40690 TTTGTTTCAAGGGAAACTGTCTCAA
1 TTTGTTTCAAGGGAAACTGTCTCAA
40715 TTTGTTTCAAGGGAAACTGTCTCAA
1 TTTGTTTCAAGGGAAACTGTCTCAA
40740 GATAGACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TTTGTTTCAAGGGAAACTGTCTCAA
Found at i:40802 original size:42 final size:42
Alignment explanation
Indices: 40743--40827 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
40733 GTCTCAAGAT
* *
40743 AGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
1 AGACAAAATATGTTTCAAGAGAAACTGTATCAAGAGAGACAA
40785 AGACAAAATATGTTTCAAGAGAAACTGTATCAAGAGAGACAA
1 AGACAAAATATGTTTCAAGAGAAACTGTATCAAGAGAGACAA
40827 A
1 A
40828 ACTTAGTTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (42 bp):
AGACAAAATATGTTTCAAGAGAAACTGTATCAAGAGAGACAA
Found at i:40827 original size:205 final size:203
Alignment explanation
Indices: 40550--40989 Score: 687
Period size: 205 Copynumber: 2.2 Consensus size: 203
40540 AAACTGTCTC
* *
40550 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAG----GCAAAATTCGTTTCAAGAGAAACTGTCTC
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAGCAAAATTCGTTTCAAGAGAAACTGTATC
*
40611 AAGAGAGACAAAACGTAGTTC-CAAAAGAAACTATCTCAAGGGAGACGAAATTTGTTTCAA-GGA
66 AAGAGAGACAAAACGTAGTTCGC-AAAGAAACTATCTCAAAGGAGACGAAATTTGTTT-AATGGA
* **
40674 AAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCTCAATTTGTTTCAAGGGAAACTGTCTCA
129 AAACATATTCAAAGATTTTGTTTCAAGGGAAACTATCAAAATTTGTTTCAAGGGAAACTGTCTCA
*
40739 AGATAGACAA
194 AGAGAGACAA
40749 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAGACAAAATAT-GTTTCAAGAGAAACTGT
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAG-CAAAAT-TCGTTTCAAGAGAAACTGT
* * *
40813 ATCAAGAGAGACAAAACTTAGTTCGCAAAGAAACTGTCTCAAAGGAGACGAAATTTGTTTAATGT
63 ATCAAGAGAGACAAAACGTAGTTCGCAAAGAAACTATCTCAAAGGAGACGAAATTTGTTTAATGG
40878 AAAACATATTCAAAGATTTTGTTTCAAGGGAAACTATCAAAATTTGTTTCAAGGGAAACTGTCTC
128 AAAACATATTCAAAGATTTTGTTTCAAGGGAAACTATCAAAATTTGTTTCAAGGGAAACTGTCTC
40943 AAGAGAGACAA
193 AAGAGAGACAA
*
40954 AATTTGTTTCAAGAGAAACTCTCTCAAGAGAGACAA
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
40990 CTTAGTTTTG
Statistics
Matches: 221, Mismatches: 11, Indels: 13
0.90 0.04 0.05
Matches are distributed among these distances:
199 31 0.14
204 5 0.02
205 183 0.83
206 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (203 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAGCAAAATTCGTTTCAAGAGAAACTGTATC
AAGAGAGACAAAACGTAGTTCGCAAAGAAACTATCTCAAAGGAGACGAAATTTGTTTAATGGAAA
ACATATTCAAAGATTTTGTTTCAAGGGAAACTATCAAAATTTGTTTCAAGGGAAACTGTCTCAAG
AGAGACAA
Found at i:45485 original size:10 final size:10
Alignment explanation
Indices: 45470--45499 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
45460 CTTAGAGTAT
45470 CAAATTGAAA
1 CAAATTGAAA
45480 CAAATTGAAA
1 CAAATTGAAA
45490 CAAATTGAAA
1 CAAATTGAAA
45500 TGAATGGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (10 bp):
CAAATTGAAA
Found at i:56399 original size:54 final size:54
Alignment explanation
Indices: 56320--56991 Score: 759
Period size: 54 Copynumber: 12.5 Consensus size: 54
56310 TATACGTTCT
* * * *
56320 TTGGGGTGCACACATAGTGCCGATACGATCATTCAT-AAGATCATTATGAATTTC
1 TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACAT-ATTATGAATTTC
* * * * * *
56374 TTGGATTACACACTTAATACTGATACGATCGTTCATAAACTTATTATGAATTTC
1 TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTTC
* ** *
56428 GT-GGTTGCACACTTAGTGTTGATACGGTCGTTCATAAACATATTATGAA-TTC
1 TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTTC
* * * *
56480 TATGGGTTGCACACTTAGTGCCGATACGGTCATTCATAAGCATATTATGAATTCC
1 T-TGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTTC
* *
56535 ATGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTT-
1 TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTTC
* * *
56588 TGTGGGTTGCACACTTAGTGTCGATAC-AGTCATTCATAAACATATTATGAATTCC
1 T-TGGGTTGCACACTTAGTGCCGATACGA-TCGTTCATAAACATATTATGAATTTC
* * *
56643 ATGGGTTGCACACTTAGTACCGATACGATCGTTCATAAACATATTATGAATTCC
1 TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTTC
* *
56697 GTGGGTTGCACACTTAGTGCCGATATGATCGTTCATAAACATATTATGAATTAT-
1 TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATT-TC
* * * *
56751 GTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACGTATTATGGATTAT-
1 TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATT-TC
* * * * *
56805 GTGGGTTGTACACTTAGTGCCGATACGATTGTTCATAAATATATTATGAATTCC
1 TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTTC
* * * * *
56859 GTGGATTGCACACTTAATGTCC-ATACGGTCGTTGATAAACATATTATGAATTAT-
1 TTGGGTTGCACACTTAGTG-CCGATACGATCGTTCATAAACATATTATGAATT-TC
* * ** * * *
56913 GTGGGTTGTACACTTAGTGTTGATATGGTCGTTCATAAACTTATTATGAATTTC
1 TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTTC
*
56967 GTGGGTTGCACACTTAGTGCCGATA
1 TTGGGTTGCACACTTAGTGCCGATA
56992 GTACACATAA
Statistics
Matches: 533, Mismatches: 71, Indels: 28
0.84 0.11 0.04
Matches are distributed among these distances:
52 3 0.01
53 42 0.08
54 480 0.90
55 8 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
TTGGGTTGCACACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTTC
Found at i:56581 original size:108 final size:108
Alignment explanation
Indices: 56321--56991 Score: 857
Period size: 108 Copynumber: 6.2 Consensus size: 108
56311 ATACGTTCTT
* * * * * * *
56321 TGGGGTGCACACATAGTGCCGATACGATCATTCAT-AAGATCATTATGAATTTCT-TGGATTACA
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACAT-ATTATGAA-TTCTGTGGGTTGCA
* * * * *
56384 CACTTAATACTGATACGATCGTTCATAAACTTATTATGAATTTCG
64 CACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCCG
** *
56429 T-GGTTGCACACTTAGTGTTGATACGGTCGTTCATAAACATATTATGAATTCTATGGGTTGCACA
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACA
* * * *
56493 CTTAGTGCCGATACGGTCATTCATAAGCATATTATGAATTCCA
66 CTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCCG
*
56536 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACA
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACA
* * *
56601 CTTAGTGTCGATAC-AGTCATTCATAAACATATTATGAATTCCA
66 CTTAGTGCCGATACGA-TCGTTCATAAACATATTATGAATTCCG
* * *
56644 TGGGTTGCACACTTAGTACCGATACGATCGTTCATAAACATATTATGAATTCCGTGGGTTGCACA
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACA
* **
56709 CTTAGTGCCGATATGATCGTTCATAAACATATTATGAATTATG
66 CTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCCG
* * * *
56752 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACGTATTATGGATTATGTGGGTTGTACA
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACA
* *
56817 CTTAGTGCCGATACGATTGTTCATAAATATATTATGAATTCCG
66 CTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCCG
* * * * *
56860 TGGATTGCACACTTAATGTCC-ATACGGTCGTTGATAAACATATTATGAATTATGTGGGTTGTAC
1 TGGGTTGCACACTTAGTG-CCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCAC
** * * * *
56924 ACTTAGTGTTGATATGGTCGTTCATAAACTTATTATGAATTTCG
65 ACTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCCG
56968 TGGGTTGCACACTTAGTGCCGATA
1 TGGGTTGCACACTTAGTGCCGATA
56992 GTACACATAA
Statistics
Matches: 494, Mismatches: 62, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
106 4 0.01
107 81 0.16
108 406 0.82
109 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (108 bp):
TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTGCACA
CTTAGTGCCGATACGATCGTTCATAAACATATTATGAATTCCG
Found at i:56668 original size:162 final size:162
Alignment explanation
Indices: 56321--56991 Score: 900
Period size: 162 Copynumber: 4.1 Consensus size: 162
56311 ATACGTTCTT
* * * * * *
56321 TGGGGTGCACACATAGTGCCGATACGATCATTCAT-AAGATCATTATGAATTTCTTGGATTACAC
1 TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACAT-ATTATGAATTCCGTGGATTGCAC
* * * *
56385 ACTTAATACTGATACGATCGTTCATAAACTTATTATGAATT-TCGT-GGTTGCACACTTAGTGTT
65 ACTTAATGCCGATACGATCGTTCATAAACATATTATGAATTAT-GTGGGTTGCACACTTAGTGTC
*
56448 GATACGGTCGTTCATAAACATATTATGAATTCTA
129 GATACGGTCGTTCATAAACATATTATGAATTCCA
* * * *
56482 TGGGTTGCACACTTAGTGCCGATACGGTCATTCATAAGCATATTATGAATTCCATGGGTTGCACA
1 TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACATATTATGAATTCCGTGGATTGCACA
* * *
56547 CTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTTTGTGGGTTGCACACTTAGTGTCGA
66 CTTAATGCCGATACGATCGTTCATAAACATATTATGAATTATGTGGGTTGCACACTTAGTGTCGA
* *
56612 TACAGTCATTCATAAACATATTATGAATTCCA
131 TACGGTCGTTCATAAACATATTATGAATTCCA
* * *
56644 TGGGTTGCACACTTAGTACCGATACGATCGTTCATAAACATATTATGAATTCCGTGGGTTGCACA
1 TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACATATTATGAATTCCGTGGATTGCACA
* * *
56709 CTTAGTGCCGATATGATCGTTCATAAACATATTATGAATTATGTGGGTTGCACACTTAGTGCCGA
66 CTTAATGCCGATACGATCGTTCATAAACATATTATGAATTATGTGGGTTGCACACTTAGTGTCGA
* * ***
56774 TACGGTCGTTCATAAACGTATTATGGATTATG
131 TACGGTCGTTCATAAACATATTATGAATTCCA
* ** *
56806 TGGGTTGTACACTTAGTGCCGATACGATTGTTCATAAATATATTATGAATTCCGTGGATTGCACA
1 TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACATATTATGAATTCCGTGGATTGCACA
* * * *
56871 CTTAATGTCC-ATACGGTCGTTGATAAACATATTATGAATTATGTGGGTTGTACACTTAGTGTTG
66 CTTAATG-CCGATACGATCGTTCATAAACATATTATGAATTATGTGGGTTGCACACTTAGTGTCG
* * * *
56935 ATATGGTCGTTCATAAACTTATTATGAATTTCG
130 ATACGGTCGTTCATAAACATATTATGAATTCCA
56968 TGGGTTGCACACTTAGTGCCGATA
1 TGGGTTGCACACTTAGTGCCGATA
56992 GTACACATAA
Statistics
Matches: 454, Mismatches: 52, Indels: 7
0.88 0.10 0.01
Matches are distributed among these distances:
161 89 0.20
162 363 0.80
163 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (162 bp):
TGGGTTGCACACTTAGTGCCGATACGATCATTCATAAACATATTATGAATTCCGTGGATTGCACA
CTTAATGCCGATACGATCGTTCATAAACATATTATGAATTATGTGGGTTGCACACTTAGTGTCGA
TACGGTCGTTCATAAACATATTATGAATTCCA
Found at i:62868 original size:20 final size:20
Alignment explanation
Indices: 62843--62891 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
62833 TCGTAGGAGT
62843 ATCGATACTATTGCTAGAGC
1 ATCGATACTATTGCTAGAGC
*
62863 ATCGATACTCTTGCTAGAGC
1 ATCGATACTATTGCTAGAGC
62883 ATCGATACT
1 ATCGATACT
62892 TCCCACTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (20 bp):
ATCGATACTATTGCTAGAGC
Found at i:68124 original size:20 final size:20
Alignment explanation
Indices: 68099--68138 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
68089 TTAGGGTTTG
68099 AGTATCGATACTGGATGAAT
1 AGTATCGATACTGGATGAAT
*
68119 AGTATCGATATTGGATGAAT
1 AGTATCGATACTGGATGAAT
68139 TGAGACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTGGATGAAT
Found at i:69375 original size:32 final size:32
Alignment explanation
Indices: 69331--69414 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
69321 AGTATCAACT
* * ****
69331 TTGCATTAAGATAATGCATAACATAGTTGGTA
1 TTGCATTCAGATAATGCATAACAGAGACAATA
* *
69363 TTGCATTCAGATAATTCATACCAGAGACAATA
1 TTGCATTCAGATAATGCATAACAGAGACAATA
*
69395 TTGCATTCAAATAATGCATA
1 TTGCATTCAGATAATGCATA
69415 GTAGATTTAG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (32 bp):
TTGCATTCAGATAATGCATAACAGAGACAATA
Found at i:72201 original size:71 final size:70
Alignment explanation
Indices: 71993--72274 Score: 219
Period size: 71 Copynumber: 4.0 Consensus size: 70
71983 CGAGCCTTAA
* * * * * *
71993 TCATAGAGGATACCTCGTTAGTAGGTGAACCCTTAACCATAGAGAAAGTCAAACATAACCCTAAG
1 TCATAGAGGATACCTCATTAGTAGATGAACCC-TAATCATAGAGGAAGTCGAACACAACCCTAAG
*
72058 CCTTAG
65 CCTCAG
* * * * * * * * * * *
72064 TTATAGAGGACACCTCATTAGTAGA-CAAACCTCATACATAGAAGAAGTTGAACGCAATCTTGAG
1 TCATAGAGGATACCTCATTAGTAGATGAACCCTAAT-CATAGAGGAAGTCGAACACAACCCTAAG
*
72128 CCTCGG
65 CCTCAG
* * * *
72134 TCATGGAGGATACCTTATTAGTAGATGAACCCTAAATCATAGAGGAAGTTGAACACAACCCCAAG
1 TCATAGAGGATACCTCATTAGTAGATGAACCCT-AATCATAGAGGAAGTCGAACACAACCCTAAG
*
72199 CCTCAA
65 CCTCAG
* * ** * *
72205 TCATGGACGATA--TCATGTTAGTAGACAAACCCTCACTCATAGAGGAAGTCGAACACAACTCTA
1 TCATAGAGGATACCTCA--TTAGTAGATGAACCCT-AATCATAGAGGAAGTCGAACACAACCCTA
72268 AGCCTCA
63 AGCCTCA
72275 TTAATATAAG
Statistics
Matches: 163, Mismatches: 43, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
69 4 0.02
70 48 0.29
71 109 0.67
72 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (70 bp):
TCATAGAGGATACCTCATTAGTAGATGAACCCTAATCATAGAGGAAGTCGAACACAACCCTAAGC
CTCAG
Found at i:72575 original size:5 final size:5
Alignment explanation
Indices: 72565--72594 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
72555 TAAAATATCA
72565 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
72595 TCCAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:73906 original size:23 final size:22
Alignment explanation
Indices: 73863--73908 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
73853 AATCGTAAGC
*
73863 TACCAAAAGTCAAAGAAAAACG
1 TACCAAAAGACAAAGAAAAACG
* *
73885 TACCACAAAGACAGAGATAAACG
1 TACCA-AAAGACAAAGAAAAACG
73908 T
1 T
73909 GTCATAAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.54, C:0.20, G:0.15, T:0.11
Consensus pattern (22 bp):
TACCAAAAGACAAAGAAAAACG
Found at i:84508 original size:27 final size:27
Alignment explanation
Indices: 84466--84531 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
84456 AATATCCATC
* * *
84466 ATTCAACTATTAATATCCATCATATTA
1 ATTCAACTATTGATATCAATCACATTA
* *
84493 ATTCAAATATTGATATTAATCACATTA
1 ATTCAACTATTGATATCAATCACATTA
84520 ATTCAACTATTG
1 ATTCAACTATTG
84532 GCATTATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (27 bp):
ATTCAACTATTGATATCAATCACATTA
Found at i:84537 original size:27 final size:27
Alignment explanation
Indices: 84484--84545 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
84474 ATTAATATCC
* *
84484 ATCATATTAATTCAAATATTGATATTA
1 ATCACATTAATTCAAATATTGACATTA
* *
84511 ATCACATTAATTCAACTATTGGCATTA
1 ATCACATTAATTCAAATATTGACATTA
*
84538 TTCACATT
1 ATCACATT
84546 TCTTTTTCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.42
Consensus pattern (27 bp):
ATCACATTAATTCAAATATTGACATTA
Found at i:84747 original size:35 final size:35
Alignment explanation
Indices: 84707--84774 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
84697 AATTAAAATA
*
84707 AAGAAAATTAAACATTCATTGAAATACAAATAAGC
1 AAGAAAATTAAACATTCATTCAAATACAAATAAGC
* ** *
84742 AAGAAATTTAATTATTCATTCAAATAGAAATAA
1 AAGAAAATTAAACATTCATTCAAATACAAATAA
84775 AATTAGTAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (35 bp):
AAGAAAATTAAACATTCATTCAAATACAAATAAGC
Found at i:89607 original size:6 final size:6
Alignment explanation
Indices: 89596--89629 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
89586 ATTCTGTTAC
* *
89596 ATTTTT ATTTTT GTTTTT GTTTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
89630 CGATTAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:93399 original size:26 final size:26
Alignment explanation
Indices: 93351--93401 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
93341 TCTAACGTGA
* *
93351 CAGTTTCTAGAAGGTCCAGTCAGCGG
1 CAGTTTCTAGAAGATCCACTCAGCGG
*
93377 CAGTTTCTAGAAGATCTACTCAGCG
1 CAGTTTCTAGAAGATCCACTCAGCG
93402 CGCCTTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (26 bp):
CAGTTTCTAGAAGATCCACTCAGCGG
Found at i:95652 original size:45 final size:45
Alignment explanation
Indices: 95582--95685 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
95572 CTCTCATGTA
** *
95582 CAACCACCAACCTACCTGAGATATTAATGGATAATTAATAACCAC
1 CAACCACCAACCTACCCAAGATATTAAAGGATAATTAATAACCAC
* * * *
95627 CAACCACCAATCTACCCAAGTTATTAAAGGATAATTATTAACCAT
1 CAACCACCAACCTACCCAAGATATTAAAGGATAATTAATAACCAC
95672 CAACCACCAACCTA
1 CAACCACCAACCTA
95686 TTGATATTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.42, C:0.29, G:0.07, T:0.22
Consensus pattern (45 bp):
CAACCACCAACCTACCCAAGATATTAAAGGATAATTAATAACCAC
Found at i:95696 original size:45 final size:44
Alignment explanation
Indices: 95582--95710 Score: 143
Period size: 45 Copynumber: 2.9 Consensus size: 44
95572 CTCTCATGTA
*
95582 CAACCACCAACCTACCTGAGA-TATTAATGGATAATTAATAACCAC
1 CAACCACCAACCTA-CTGA-ATTATTAAAGGATAATTAATAACCAC
* ** * *
95627 CAACCACCAATCTACCCAAGTTATTAAAGGATAATTATTAACCAT
1 CAACCACCAACCTACTGAA-TTATTAAAGGATAATTAATAACCAC
* *
95672 CAACCACCAACCTATTGATATTATTAACGGATAATTAAT
1 CAACCACCAACCTACTGA-ATTATTAAAGGATAATTAAT
95711 GCTGCAATTA
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.01
44 2 0.03
45 65 0.94
46 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (44 bp):
CAACCACCAACCTACTGAATTATTAAAGGATAATTAATAACCAC
Found at i:97153 original size:43 final size:43
Alignment explanation
Indices: 97105--97190 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
97095 TCTTTGCAAT
97105 CAAGATGACATTTCAACTTACCATAAGAATCAAAATTTACCAA
1 CAAGATGACATTTCAACTTACCATAAGAATCAAAATTTACCAA
*
97148 CAAGATGACATTTCAACTTACCATAAGAATCAAATTTTACCAA
1 CAAGATGACATTTCAACTTACCATAAGAATCAAAATTTACCAA
97191 AATGATATCG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (43 bp):
CAAGATGACATTTCAACTTACCATAAGAATCAAAATTTACCAA
Done.