Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007260.1 Hibiscus syriacus cultivar Beakdansim tig00019245_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: 67103
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:4747 original size:22 final size:22
Alignment explanation
Indices: 4716--4763 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4706 ATATAGAGAG
*
4716 TATAATTATA-AAGACTAAAGTA
1 TATAAGTATATAAGA-TAAAGTA
*
4738 TATAAGTATATAATATAAAGTA
1 TATAAGTATATAAGATAAAGTA
4760 TATA
1 TATA
4764 TATAATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (22 bp):
TATAAGTATATAAGATAAAGTA
Found at i:4749 original size:2 final size:2
Alignment explanation
Indices: 4744--5895 Score: 120
Period size: 2 Copynumber: 579.0 Consensus size: 2
4734 AGTATATAAG
* * *
4744 TA TA TA -A TA TA AA GTA TA TA TA TA -A TA TA TT TA TA CTT TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
4786 T- TA TA TA TA TG TA TA TA T- TT TA TA T- TA -A TA -A 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
* *
4823 T- TT TA TA T- TA TA TA CT- TA TA TA TT TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
4862 CT- TA TA CTT TA TA T- TA TA TA TG TA TA TA TA CTT TA TA CTA -A
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * * *
4903 AA CTT TA TA TA TA TA TA TA TA CA CTA TA CTT TA TA TG TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA
* * * *
4946 TA CTT TA TA TA CT- TA TT TA CTT TA TA T- TA TA TA CT- TG TA TA
1 TA -TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA
* * * *
4987 CTT TA GTC TT TA TA -A T- TA TA CTT 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 TA TA
* * * * * *
5028 -A TA TA TA CTT TA CTT TA CA GTT TA TA TA TA TA TA TT TA CA TA
1 TA TA TA TA -TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * **
5070 CA TA CT- TA TA T- TT TA TA TG TA TA TA TA T- TT TA TA TA CC TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
5110 TA TA CTT TA TA T- TA TA TA CT- TA TA TA CTT TA GTC TT TA TA -A
1 TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA -TA TA TA TA TA
* * * *
5151 T- TA TA CTT TA TA TA CTT TA TA TT TA -A TA CT- TA TA TA CTT TA
1 TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA -TA TA
* * * * *
5192 TA T- TA TA TGC T- TA TA TA CTT TA GTT TT TA TA -A T- TA TA CTT
1 TA TA TA TA T-A TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA -TA
*
5232 TA TA TA TA TA TA -A TA TA CT- TA TA CTT TA TA T- TA T- 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
* * * * *
5272 TG TA TA TA TA T- TT TA TA CTA -A AA CTT TA TA TA TA TA CA TA CT-
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA
* * * *
5314 TA TA CTT TA TA TG TA TA TA TA CTT TA TA TA CT- TA TA TA CTT TA
1 TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA -TA TA
* * * * *
5357 GTC TT TA TA -A T- TA TA CTT TT TA TA TA TT TA -A TA TA CT- TA
1 -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
*
5396 TA CTT TA TA T- TA T- 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 TA TA TA TA TA TA TA
* * *
5437 TA TA TA TA TA TA TA TA -A TT TA GTT TA TA T- TA -A 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
* * * *
5478 -A TT TA TA CA TA GTA TA TA TA -A T- TG TA -A T- TA TA CA TA -A
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
5515 TA TA TA AA TA TA -A GT- TG TA TA TA TT TA AA TA TA -A TT TA TG
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
5555 TA TA AA CTA TA TA -A TT TG TA T- TA -A TA AA CTA TA TA GTT TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * *
5595 TA TA TA -A T- TCA -A TA GT- TCA TA TA TA AA CTC TA TA GTT TA TA
1 TA TA TA TA TA T-A TA TA -TA T-A TA TA TA TA -TA TA TA -TA TA TA
* * * * * *
5636 CA TGG TA TA TA TA GTT TA TA CA TA -A TA TA TA CA GTT TA TA TA
1 TA T-A TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* * * *
5678 TA GTA TA TA -A TA -A TA TA AA TA TA AA CTC TA TA -A TT 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
* * *
5719 TA TA TA T- TA TA TA TA TG TA -A TA TA TA TA CTT TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * *
5760 CTA TA TA GTT TA TA T- TA -A TA AA CTA TA TA GTT TA CA CA TA -A
1 -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * * *
5801 TA TA TA TA GTT TA TA GA TA GTA TA TGA TA TA TA AA TA TA AA T-
1 TA TA TA TA -TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA TA TA
* **
5843 TA TA TA GTT TA TA CG TA -A 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 TA TA TA TA TA TA TA
5885 TA TA TA T- TA TA
1 TA TA TA TA TA TA
5896 ATTGTTTCAC
Statistics
Matches: 801, Mismatches: 199, Indels: 300
0.62 0.15 0.23
Matches are distributed among these distances:
1 78 0.10
2 653 0.82
3 70 0.09
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4766 original size:13 final size:13
Alignment explanation
Indices: 4736--4768 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4726 AAGACTAAAG
4736 TATAT-AAGTATA
1 TATATAAAGTATA
4748 TAATATAAAGTATA
1 T-ATATAAAGTATA
4762 TATATAA
1 TATATAA
4769 TATATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 10 0.53
14 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (13 bp):
TATATAAAGTATA
Found at i:4793 original size:22 final size:22
Alignment explanation
Indices: 4758--5341 Score: 170
Period size: 24 Copynumber: 25.9 Consensus size: 22
4748 TAATATAAAG
4758 TATATATATAATATATTTATACTT
1 TATAT-TAT-ATATATTTATACTT
*
4782 TATATTATATATATGTATATATTT
1 TATATTATATATAT-T-TATACTT
* *
4806 TATATTA-ATA-ATATATATTT
1 TATATTATATATATTTATACTT
*
4826 TATATTATATACT-TATATA-TT
1 TATATTATATA-TATTTATACTT
*
4847 TATATATATAATATACTTATACTT
1 TATAT-TAT-ATATATTTATACTT
*
4871 TATATTATATATGTATATATACTT
1 TATATTATATA--TATTTATACTT
* *
4895 TATACTA-A-A-ACTTTATA-TA
1 TATATTATATATA-TTTATACTT
* *
4914 TATA-TATATACA-CTATACTT
1 TATATTATATATATTTATACTT
4934 TATATGTATATATACTTTATA-TACT
1 TATAT-TATATATA-TTTATACT--T
*
4959 TAT-TTACTTTATATTATATACTT
1 TATATTA-TATATATT-TATACTT
* *
4982 GTATACTTTAGTCTTTATAATTATACTT
1 -TATA--TTA---TATATATTTATACTT
* * *
5010 TATA-TATATATATATATAATA
1 TATATTATATATATTTATACTT
* * * *
5031 TATACT-T-TA-CTTTACAGTT
1 TATATTATATATATTTATACTT
*
5050 TATATATATATAT-TTACATACATACT
1 TATAT-TATATATATT-TATAC-T--T
* *
5076 TATATT-T-TATATGTATA-TA
1 TATATTATATATATTTATACTT
* ** *
5095 TATTTTATATACCTATATACTT
1 TATATTATATATATTTATACTT
*
5117 TATATTATATACT-TATATACTT
1 TATATTATATA-TATTTATACTT
*
5139 TAGTCTT-TATA-A-TTATACTT
1 TA-TATTATATATATTTATACTT
*
5159 TATA-TACTTTATATTTAATACTT
1 TATATTA-TATATATTT-ATACTT
5182 ATATACTTTATATTATATGCTTATATACTT
1 -TATA--TTATA-TATA---TT-TATACTT
* * *
5212 TA-GTT-TTTATAATTATACTT
1 TATATTATATATATTTATACTT
5232 TATATATATATAATATACTTATACTT
1 TATAT-TATAT-ATAT--TTATACTT
*
5258 TATATTATTATATATGTATA---
1 TATATTA-TATATATTTATACTT
* * *
5278 TATATT-T-TATACTAAAACTT
1 TATATTATATATATTTATACTT
* *
5298 TATATATATACATACTTATACTT
1 TATAT-TATATATATTTATACTT
5321 TATATGTATATATACTTTATA
1 TATAT-TATATATA-TTTATA
5342 TACTTATATA
Statistics
Matches: 424, Mismatches: 61, Indels: 150
0.67 0.10 0.24
Matches are distributed among these distances:
17 6 0.01
18 4 0.01
19 26 0.06
20 61 0.14
21 39 0.09
22 64 0.15
23 69 0.16
24 78 0.18
25 13 0.03
26 25 0.06
27 13 0.03
28 7 0.02
29 10 0.02
30 8 0.02
31 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (22 bp):
TATATTATATATATTTATACTT
Found at i:4802 original size:10 final size:9
Alignment explanation
Indices: 4744--4891 Score: 80
Period size: 9 Copynumber: 16.4 Consensus size: 9
4734 AGTATATAAG
*
4744 TATATAATA
1 TATATTATA
* *
4753 TAAAGTATA
1 TATATTATA
*
4762 TATATAATA
1 TATATTATA
4771 TAT-TTATA
1 TATATTATA
4779 CTTTATATTATA
1 ---TATATTATA
4791 TATATGTATA
1 TATAT-TATA
*
4801 TATTTTATA
1 TATATTATA
*
4810 T-TAATAATA
1 TAT-ATTATA
4819 TATATT-T-
1 TATATTATA
4826 TATATTATA
1 TATATTATA
*
4835 TA-CTTATA
1 TATATTATA
4843 TAT-TTATA
1 TATATTATA
4851 TATA-TA-A
1 TATATTATA
4858 TATACTTATA
1 TATA-TTATA
4868 CTTTATATTATA
1 ---TATATTATA
*
4880 TAT-GTATA
1 TATATTATA
4888 TATA
1 TATA
4892 CTTTATACTA
Statistics
Matches: 108, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
7 11 0.10
8 31 0.29
9 39 0.36
10 10 0.09
11 3 0.03
12 10 0.09
13 4 0.04
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.53
Consensus pattern (9 bp):
TATATTATA
Found at i:4891 original size:39 final size:39
Alignment explanation
Indices: 4833--5307 Score: 165
Period size: 40 Copynumber: 11.3 Consensus size: 39
4823 TTTTATATTA
4833 TATACTTATATATT-TATATATATAATATACT-TATACTT
1 TATA-TTATATATTATATATATATAATATACTATATACTT
*
4871 TATATTATATATGTATATATACT-T--TATACTA-AAACTT
1 TATATTATATAT-TATATATA-TATAATATACTATATACTT
* * *
4908 TATATATATATATATACACTATACTTTATATGTA-TATATACTTT
1 TATAT-TATATAT-TATA-TATA-TATA-ATATACTATATAC-TT
* ** *
4952 ATATACTTATTTACTTTATATTATATACTTGTATACTTTAGT-CTT
1 -TATA-TTATATA--TTATA-TATATA-TAATATACTATA-TACTT
*
4997 TATAATTATACT-TTATATATATATATATATAATATATACTT
1 TAT-ATTATA-TATTATATATATATA-ATATACTATATACTT
* * *
5038 TACT-TTACAGT-TTATATATATAT-ATTTACATACATAC-T
1 TA-TATTATA-TATTATATATATATAATATAC-TATATACTT
* * *
5076 TATATTTTATATGTATATATATTTTATATACCTATATACTT
1 TATATTATATAT-TATATATATATAATATA-CTATATACTT
5117 TATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATACTT
1 TATATTATATA-TTATATA---TA-----TATAA-TATAC--TATATACTT
* *
5168 TATATT-TAATACTTATATACTTTATATTATATGCTTATATACTT
1 TATATTAT-ATA-TTATATA---TATATAATATAC-TATATACTT
*
5212 TAGTTTTTATAATTATACTTTATATATATATAATATACT-TATACTT
1 TA-----TATTA-TATA--TTATATATATATAATATACTATATACTT
* ** *
5258 TATATTATTATATATGTATATATATTTTATACTA-AAACTT
1 TATATTA-TATAT-TATATATATATAATATACTATATACTT
5298 TATA-TATATA
1 TATATTATATA
5308 CATACTTATA
Statistics
Matches: 341, Mismatches: 42, Indels: 108
0.69 0.09 0.22
Matches are distributed among these distances:
37 26 0.08
38 30 0.09
39 32 0.09
40 56 0.16
41 45 0.13
42 9 0.03
43 6 0.02
44 23 0.07
45 21 0.06
46 26 0.08
47 3 0.01
48 10 0.03
49 7 0.02
50 8 0.02
51 39 0.11
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (39 bp):
TATATTATATATTATATATATATAATATACTATATACTT
Found at i:4947 original size:17 final size:16
Alignment explanation
Indices: 4927--5199 Score: 77
Period size: 17 Copynumber: 18.1 Consensus size: 16
4917 ATATATACAC
4927 TATACTTTATATGTATA
1 TATACTTTATAT-TATA
4944 TATACTTTATA-TACTTA
1 TATACTTTATATTA--TA
*
4961 TTTACTTTATA-T-TA
1 TATACTTTATATTATA
4975 TATACTTGTATACTT-TA
1 TATACTT-TATA-TTATA
*
4992 -GT-CTTTATA--AT-
1 TATACTTTATATTATA
5003 TATACTTTATA-TATA
1 TATACTTTATATTATA
*
5018 TATA---TATATAATA
1 TATACTTTATATTATA
*
5031 TATAC-TT-TACT-T-
1 TATACTTTATATTATA
* *
5043 TACAGTTTATA-TATA
1 TATACTTTATATTATA
* *
5058 TATA-TTTACATACATA
1 TATACTTTATAT-TATA
*
5074 CTTATATTTTATATGTATA
1 --TATACTTTATAT-TATA
*
5093 TATATTTTATA-TACCTA
1 TATACTTTATATTA--TA
5110 TATACTTTATA-T-TA
1 TATACTTTATATTATA
5124 TATACTTATATACTT-TA
1 TATACTT-TATA-TTATA
*
5141 -GT-CTTTATA--AT-
1 TATACTTTATATTATA
*
5152 TATACTTTATA-TACTT
1 TATACTTTATATTA-TA
*
5168 TATA-TTTAATACT-TA
1 TATACTTT-ATATTATA
5183 TATACTTTATATTATA
1 TATACTTTATATTATA
5199 T
1 T
5200 GCTTATATAC
Statistics
Matches: 199, Mismatches: 20, Indels: 75
0.68 0.07 0.26
Matches are distributed among these distances:
12 11 0.06
13 25 0.13
14 38 0.19
15 39 0.20
16 18 0.09
17 55 0.28
18 4 0.02
19 9 0.05
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (16 bp):
TATACTTTATATTATA
Found at i:4960 original size:95 final size:92
Alignment explanation
Indices: 4758--5025 Score: 260
Period size: 89 Copynumber: 2.8 Consensus size: 92
4748 TAATATAAAG
* * * * * *
4758 TATATATA-TAATATATTTATACTTTATATTATATATATGTATATATTTTATATTAATAA---TA
1 TATATATATTTATATACTTATACTTTATATTATATATGTATATATACTTTATACTAA-AACTTTA
* *
4819 TATAT-TTTATATTATATACTTATATATT
65 TATATATATATATAATATACTT-TATATT
*
4847 TATATATA-TAATATACTTATACTTTATATTATATATGTATATATACTTTATACTAAAACTTTAT
1 TATATATATTTATATACTTATACTTTATATTATATATGTATATATACTTTATACTAAAACTTTAT
*
4911 ATATATATATATACACTATACTTTATATG
66 ATATATATATATA-A-TATACTTTATATT
* * *
4940 TATATATACTTTATATACTTATTTACTTTATATTATATACTTGTATACTTTAGTCTTTATAATTA
1 TATATATA-TTTATATACTTA--TACTTTATATTATATA--TGTATA-TATA--CTTTATACTAA
*
5005 TACTTTATATATATATATATA
58 AACTTTATATATATATATATA
5026 TAATATATAC
Statistics
Matches: 151, Mismatches: 13, Indels: 17
0.83 0.07 0.09
Matches are distributed among these distances:
88 2 0.01
89 51 0.34
91 7 0.05
92 6 0.04
93 14 0.09
94 7 0.05
95 10 0.07
97 16 0.11
99 6 0.04
100 3 0.02
102 29 0.19
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (92 bp):
TATATATATTTATATACTTATACTTTATATTATATATGTATATATACTTTATACTAAAACTTTAT
ATATATATATATAATATACTTTATATT
Found at i:5123 original size:149 final size:145
Alignment explanation
Indices: 4758--5194 Score: 462
Period size: 149 Copynumber: 3.0 Consensus size: 145
4748 TAATATAAAG
**
4758 TATATATATAATATATTTATACTTTATATTATATATATGTATATAT-TTTATATTAATA-ATATA
1 TATATATAT-ATATATACATAC-TTATATT-T-TATATGTATATATATTT-TA-T-ATACATATA
* * * *
4821 TATTTTATATTATATACTTATATA-TTTA-TATATATAA-TATAC-TTATACTTTATATTATATA
59 TACTTTATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATA-TATATA-TATATA
*
4882 TGTATATATACTTTATACTAAAACTT
122 T-AATATATACTTTATA-TAAAACTT
* * * *
4908 TATATATATATATATAC--AC-TATACTTTATATGTATATATACTTTATATACTTATTTACTTTA
1 TATATATATATATATACATACTTATATTTTATATGTATATATATTTTATATACATATATACTTTA
*
4970 TATTATATACTTGTATACTTTAGTCTTTATAATTATACTTTATATATATATATATATAATATATA
66 TATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATATATATATATAATATATA
* * *
5035 CTTTACT-TTACAGTT
131 CTTTA-TATAAAACTT
*
5050 TATATATATATATTTACATACATACTTATATTTTATATGTATATATATTTTATATACCTATATAC
1 TATATATATATA--T--ATACATACTTATATTTTATATGTATATATATTTTATATACATATATAC
* *
5115 TTTATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATACTTTATATTTAATAC
62 TTTATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATA-TATATATAT-ATA-
*
5180 TTATATACTTTATAT
124 ATATATACTTTATAT
5195 TATATGCTTA
Statistics
Matches: 246, Mismatches: 23, Indels: 34
0.81 0.08 0.11
Matches are distributed among these distances:
141 3 0.01
142 43 0.17
143 31 0.13
144 19 0.08
145 15 0.06
146 9 0.04
147 2 0.01
148 2 0.01
149 90 0.37
150 16 0.07
151 4 0.02
152 12 0.05
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (145 bp):
TATATATATATATATACATACTTATATTTTATATGTATATATATTTTATATACATATATACTTTA
TATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATATATATATATAATATATA
CTTTATATAAAACTT
Found at i:5206 original size:51 final size:50
Alignment explanation
Indices: 4953--5262 Score: 158
Period size: 51 Copynumber: 6.2 Consensus size: 50
4943 ATATACTTTA
* * * *
4953 TATAC-TTATTTACTTTATATTATATACTTGTATACTTTAGTCTT-TATAAT
1 TATACTTTATATACTTTATATTA-ATACTTATATACTTTA-TATTATATACT
* * *
5003 TATACTTTATATA-TATATA-TATATA-ATATATACTTTACT-TTACAGT--T
1 TATACTTTATATACTTTATATTA-ATACTTATATACTTTA-TATTATA-TACT
* * *
5050 TATA-TATATATA-TTTACA-TACATACTTATAT--TTTATATGTATATATATTT
1 TATACTTTATATACTTTATATTA-ATACTTATATACTTTATA--T-TATATA-CT
* * *
5100 TATA-TACCTATATACTTTATATTATATACTTATATACTTTAGTCTT-TATAAT
1 TATACT--TTATATACTTTATATTA-ATACTTATATACTTTA-TATTATATACT
*
5152 TATACTTTATATACTTTATATTTAATACTTATATACTTTATATTATATGCTT
1 TATACTTTATATACTTTATA-TTAATACTTATATACTTTATATTATATAC-T
* *
5204 ATATACTTTAGT-T--TTTATAATT-ATACTT-TATA-TATATATAATATACT
1 -TATACTTTA-TATACTTTAT-ATTAATACTTATATACTTTATATTATATACT
5251 TATACTTTATAT
1 TATACTTTATAT
5263 TATTATATAT
Statistics
Matches: 210, Mismatches: 24, Indels: 56
0.72 0.08 0.19
Matches are distributed among these distances:
44 1 0.00
45 5 0.02
46 26 0.12
47 15 0.07
48 26 0.12
49 11 0.05
50 25 0.12
51 45 0.21
52 16 0.08
53 20 0.10
54 14 0.07
55 1 0.00
56 4 0.02
57 1 0.00
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (50 bp):
TATACTTTATATACTTTATATTAATACTTATATACTTTATATTATATACT
Found at i:5228 original size:149 final size:144
Alignment explanation
Indices: 4768--5243 Score: 426
Period size: 149 Copynumber: 3.3 Consensus size: 144
4758 TATATATATA
* *
4768 ATATATTTATACTTTAT-ATTATA---TATATGTATATAT-TTTATATTAATA-ATATATATTTT
1 ATATATTTAT-TTTTATAATTATACTTTATATGTATATATATTT-TA-T-ATACATATATACTTT
* * *
4827 ATATTATATACTTATATA-TTTA-TATATATAA-TATAC--T-TATACTTTATATTATATATGTA
62 ATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATACTTTATATT-TA-ATAT-
* *
4886 TATATACTTTATACTAAAACTT
124 TATATACTTTATA-TTAAGCTT
* * * * * * *
4908 -TATATATATATATATACACTATACTTTATATGTATATATACTTTATATACTTATTTACTTTATA
1 ATATATTTATTTTTATA-ATTATACTTTATATGTATATATATTTTATATACATATATACTTTATA
* * * *
4972 TTATATACTTGTATACTTTAGTCTTTATAATTATACTTTATATA-TATATATAT-ATAATATATA
65 TTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATACTTTATATTTAATATTATATA
*
5035 CTTTACT-TTACAGTTT
130 CTTTA-TATTA-AGCTT
* * * *
5051 ATATATATATATTTACATACATACTTATATTTTATATGTATATATATTTTATATACCTATATACT
1 ATATAT-T-TATTT---T-TATAATTATACTTTATATGTATATATATTTTATATACATATATACT
5116 TTATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATACTTTATATTTAATACT
60 TTATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATACTTTATATTTAATA-T
5181 TATATACTTTATATTATATGCTT
124 TATATACTTTATATTA-A-GCTT
*
5204 ATATACTTTAGTTTTTATAATTATACTTTATATATATATA
1 ATATA-TTTA-TTTTTATAATTATACTTTATATGTATATA
5244 ATATACTTAT
Statistics
Matches: 269, Mismatches: 38, Indels: 49
0.76 0.11 0.14
Matches are distributed among these distances:
138 4 0.01
139 8 0.03
140 5 0.02
141 3 0.01
142 28 0.10
143 33 0.12
144 17 0.06
145 5 0.02
146 5 0.02
147 7 0.03
148 4 0.01
149 105 0.39
150 11 0.04
151 4 0.01
152 17 0.06
153 12 0.04
154 1 0.00
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (144 bp):
ATATATTTATTTTTATAATTATACTTTATATGTATATATATTTTATATACATATATACTTTATAT
TATATACTTATATACTTTAGTCTTTATAATTATACTTTATATACTTTATATTTAATATTATATAC
TTTATATTAAGCTT
Found at i:5255 original size:149 final size:142
Alignment explanation
Indices: 4760--5429 Score: 398
Period size: 149 Copynumber: 4.6 Consensus size: 142
4750 ATATAAAGTA
* * * * * * *
4760 TATATA-TAATATATTTATACTTTAT-ATTATA-TATATGTATATATTTTATATTA-ATAATATA
1 TATATACTTATATATTTAT-TTTTATAATTATACTTTATATATATA-TATATACTATATACTATA
* * * *
4821 TATTTTATATTATATACTTATATATTTATATATATAA-TATAC-TTATA-CTTTATATTATATAT
64 TACTTTATATTATATACTTATATATTTATCTTTATAATTATACTTTATATATTTATATT-TATA-
* *
4883 GTATATATACTTTATAC
127 CT-TATATACTTTATAT
* * * * * * *
4900 TA-AAACTT-TATATATATATATATACACTATACTTTATATGTATATATACT-TTATATACTTAT
1 TATATACTTATATATTTATTTTTATA-ATTATACTTTATATATATATATA-TACTATATAC-TAT
* * * *
4962 TTACTTTATATTATATACTTGTATACTTTAGTCTTTATAATTATACTTTATATATATATATATAT
63 ATACTTTATATTATATACTTATATA-TTTA-TCTTTATAATTATACTTTATATATTTATATTTAT
* *
5027 AATATATACTTTACTTTACAGT
126 ACT-TATA---TACTTTATA-T
** ** * * * **
5049 T-TATA-TATATATATTTACATACATACTTATATTTTATATGTATATATATTTTATATACCTATA
1 TATATACT-TATATATTTATTTTTATAATTATACTTTATATATATATATATACTATATA-CTATA
5112 TACTTTATATTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATACTTTATATTTAA
64 TACTTTATATTATATACTTATATA-TTTA-TCTTTATAATTATACTTTATATA-TTTATATTT-A
5177 TACTTATATACTTTATAT
125 TACTTATATACTTTATAT
*
5195 TATATGCTTATATACTTTAGTTTTTATAATTATACTTTATATATATATAATATACT-TATACT-T
1 TATATACTTATATA-TTTA-TTTTTATAATTATACTTTATATATATAT-ATATACTATATACTAT
* * * * * *
5258 -TA-TAT-TATTATATA-TGTATATA--TAT-TTTATACTAAAACTTTATATATATACATACTTA
63 ATACTTTATATTATATACT-TATATATTTATCTTTATAATTATACTTTATATAT-T-TATATTTA
*
5316 TACTTTATATGTA-TATATACTT
125 TAC-TTATA--TACTTTATA--T
* * * *
5338 TATATACTTATATACTTTAGTCTTTATAATTATACTTTTTATATATTTAATATACT-TATACTTT
1 TATATACTTATATA-TTTA-TTTTTATAATTATACTTTATATATATAT-ATATACTATATACTAT
*
5402 ATATTATTATATATATATA-TATATATAT
63 ATACT-TTATAT-TATATACT-TATATAT
5430 ATATATATAT
Statistics
Matches: 429, Mismatches: 58, Indels: 76
0.76 0.10 0.13
Matches are distributed among these distances:
138 5 0.01
139 33 0.08
140 25 0.06
141 20 0.05
142 27 0.06
143 64 0.15
144 23 0.05
145 15 0.03
146 14 0.03
147 25 0.06
148 20 0.05
149 124 0.29
150 30 0.07
151 4 0.01
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (142 bp):
TATATACTTATATATTTATTTTTATAATTATACTTTATATATATATATATACTATATACTATATA
CTTTATATTATATACTTATATATTTATCTTTATAATTATACTTTATATATTTATATTTATACTTA
TATACTTTATAT
Found at i:5430 original size:39 final size:39
Alignment explanation
Indices: 4758--5124 Score: 132
Period size: 41 Copynumber: 8.8 Consensus size: 39
4748 TAATATAAAG
* *
4758 TATATATATA-ATATATTTATACTTTATATTATATATATG
1 TATATATATATATATACTTATACTTTATATTAT-TATATA
* * *
4797 TATATATTTTATATTAATAATATATATTTTATATTATATACTTATA
1 TATATA-TATATA-T-ATACT-TATACTTTATATTAT-TA--TATA
* *
4843 TATTTATATATATAATATACTTATACTTTATATTA-TATATG
1 TATATATATATA---TATACTTATACTTTATATTATTATATA
* *
4884 TATATATACT-T-TATACTAAAACTTTATATATATATATATA
1 TATATATA-TATATATACTTATACTTTATAT-TAT-TATATA
* * * *
4924 CACTATACTTTATATGTA-TATATACTTTATA-TACTTATTTACTT
1 TA-TATA-TATATATATACT-TATACTTTATATTA-TTA--TA-TA
* *
4968 TATATTATATACTTGTATACTT-TAGTCTTTATAATTA-TACTTTA
1 TATA-TATATA--TATATACTTATA--CTTTAT-ATTATTA-TATA
*
5012 TATATATATATATATAATATATACTTTACT-TTACAGTT-TATA
1 TATATATATATATATACT-TATACTTTA-TATT--A-TTATATA
* * *
5054 TATATATATTTACATAC--ATAC-TTATATT-TTATATG
1 TATATATATATATATACTTATACTTTATATTATTATATA
*
5089 TATATATATTTTATATACCTATATACTTTATATTAT
1 TATATATA-TATATATA-CT-TATACTTTATATTAT
5125 ATACTTATAT
Statistics
Matches: 247, Mismatches: 35, Indels: 89
0.67 0.09 0.24
Matches are distributed among these distances:
34 2 0.01
35 11 0.04
36 7 0.03
37 18 0.07
38 7 0.03
39 10 0.04
40 15 0.06
41 39 0.16
42 27 0.11
43 33 0.13
44 29 0.12
45 24 0.10
46 21 0.09
47 2 0.01
48 2 0.01
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (39 bp):
TATATATATATATATACTTATACTTTATATTATTATATA
Found at i:5484 original size:143 final size:143
Alignment explanation
Indices: 5194--5465 Score: 399
Period size: 143 Copynumber: 1.9 Consensus size: 143
5184 ATACTTTATA
* *
5194 TTATATGCTTATATACTTTAGTTTTTATAATTATACTTTATATATATATAATATACTTATACTTT
1 TTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATACTTATACTTT
* * * *
5259 ATATTATTATATATGTATATATATTTTATACTAAAACTTTATATATATACATACTTATACTTTAT
66 ATATTATTATATATATATATATATTATATACTAAAACTATATATATATACATAATTATACTTTAT
*
5324 ATGTATATATACT
131 ATGTATATATAAT
* *
5337 TTATATACTTATATACTTTAGTCTTTATAATTATACTTTTTATATATTTAATATACTTATACTTT
1 TTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATACTTATACTTT
* * *
5402 ATATTATTATATATATATATATA-TATATA-TATATA-TATATATATATATATAATT-TAGTTTA
66 ATATTATTATATATATATATATATTATATACTA-AAACTATATATATATACATAATTATACTTTA
5463 TAT
130 TAT
5466 TAATAAACTA
Statistics
Matches: 117, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
140 9 0.08
141 18 0.15
142 7 0.06
143 83 0.71
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (143 bp):
TTATATACTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATACTTATACTTT
ATATTATTATATATATATATATATTATATACTAAAACTATATATATATACATAATTATACTTTAT
ATGTATATATAAT
Found at i:5655 original size:11 final size:11
Alignment explanation
Indices: 5641--5895 Score: 87
Period size: 11 Copynumber: 24.2 Consensus size: 11
5631 TTATACATGG
*
5641 TATATATAGTT
1 TATATATAGTA
*
5652 TATACATA--A
1 TATATATAGTA
* *
5661 TATATACAGTT
1 TATATATAGTA
5672 TATATATAGTA
1 TATATATAGTA
5683 TATAATAATA-TA
1 TAT-AT-ATAGTA
* * * *
5695 AATATAAACTC
1 TATATATAGTA
*
5706 TATAATTTA-TA
1 TAT-ATATAGTA
*
5717 TATATATATTA
1 TATATATAGTA
5728 TATATAT-GTA
1 TATATATAGTA
5738 -ATATATA-TA
1 TATATATAGTA
*
5747 CTTTATATA-TA
1 -TATATATAGTA
* *
5758 CACTATATAGTT
1 TA-TATATAGTA
*
5770 TATAT-TAATA
1 TATATATAGTA
* *
5780 AACTATATAGTT
1 TA-TATATAGTA
* *
5792 TACACATA--A
1 TATATATAGTA
*
5801 TATATATAGTT
1 TATATATAGTA
*
5812 TATAGATAGTA
1 TATATATAGTA
5823 TATGATATA-TA
1 TAT-ATATAGTA
*
5834 -A-ATATA-AA
1 TATATATAGTA
*
5842 T-TATATAGTT
1 TATATATAGTA
** *
5852 TATACGTAATA
1 TATATATAGTA
5863 TATATATA-TA
1 TATATATAGTA
5873 TATATATA-TA
1 TATATATAGTA
*
5883 TATATATATTA
1 TATATATAGTA
5894 TA
1 TA
5896 ATTGTTTCAC
Statistics
Matches: 177, Mismatches: 45, Indels: 44
0.67 0.17 0.17
Matches are distributed among these distances:
8 6 0.03
9 25 0.14
10 34 0.19
11 90 0.51
12 19 0.11
13 3 0.02
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (11 bp):
TATATATAGTA
Found at i:5667 original size:31 final size:30
Alignment explanation
Indices: 5632--5694 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
5622 CTCTATAGTT
*
5632 TATACA-TGGTATATATAGTTTATACATAATA
1 TATACAGT-GTATATATAGTATATA-ATAATA
*
5663 TATACAGTTTATATATAGTATATAATAATA
1 TATACAGTGTATATATAGTATATAATAATA
5693 TA
1 TA
5695 AATATAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 8 0.28
31 20 0.69
32 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (30 bp):
TATACAGTGTATATATAGTATATAATAATA
Found at i:5847 original size:60 final size:57
Alignment explanation
Indices: 5777--5890 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 57
5767 GTTTATATTA
*
5777 ATAAACTATATAGTTTACACATAATATATATAGTTTATAGATAGTATATGATATATAAAT
1 ATAAACTATATAGTTTACACATAATATATATA-TATATAGATA-TATAT-ATATATAAAT
* * * *
5837 ATAAATTATATAGTTTATACGTAATATATATATATATATATATATATATATATA
1 ATAAACTATATAGTTTACACATAATATATATATATATAGATATATATATATATA
5891 TTATAATTGT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 7 0.14
58 5 0.10
59 8 0.16
60 29 0.59
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (57 bp):
ATAAACTATATAGTTTACACATAATATATATATATATAGATATATATATATATAAAT
Found at i:8134 original size:55 final size:56
Alignment explanation
Indices: 8050--8160 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 56
8040 CAGAACCATA
* *
8050 CACCCTCTGCACAATAGTAAGGCCCTGAGCACAAAG-CCGAGGAACCTGCAGATAT
1 CACCCCCTGCACAACAGTAAGGCCCTGAGCACAAAGCCCGAGGAACCTGCAGATAT
*
8105 CACCCCCTGCACAACAGTAAGGCCCTGAGCACAAAGCCCGAGGAACCTGTAGATAT
1 CACCCCCTGCACAACAGTAAGGCCCTGAGCACAAAGCCCGAGGAACCTGCAGATAT
8161 AAACCCTCCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 34 0.65
56 18 0.35
ACGTcount: A:0.32, C:0.32, G:0.22, T:0.14
Consensus pattern (56 bp):
CACCCCCTGCACAACAGTAAGGCCCTGAGCACAAAGCCCGAGGAACCTGCAGATAT
Found at i:8241 original size:24 final size:24
Alignment explanation
Indices: 8214--8280 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
8204 AAACGAAGAT
* *
8214 ATCAGAAAACAAAACATAATTCAG
1 ATCAGAAAACAAAACAGAATCCAG
* * *
8238 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAAACAAAACAGAATCCAG
*
8262 ATCA-AAAATCAGAACAGAA
1 ATCAGAAAA-CAAAACAGAA
8281 ATCATATCGG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.55, C:0.18, G:0.10, T:0.16
Consensus pattern (24 bp):
ATCAGAAAACAAAACAGAATCCAG
Found at i:10722 original size:18 final size:17
Alignment explanation
Indices: 10699--10750 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 17
10689 AATTCAACGA
10699 TCAACGGATCGGGTCGGG
1 TCAACGG-TCGGGTCGGG
10717 TCAACGGGTCGGGTCGGG
1 TCAAC-GGTCGGGTCGGG
*
10735 TCAACGGTCTGGTCGG
1 TCAACGGTCGGGTCGG
10751 ACCGGGTCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 10 0.31
18 20 0.62
19 2 0.06
ACGTcount: A:0.13, C:0.23, G:0.44, T:0.19
Consensus pattern (17 bp):
TCAACGGTCGGGTCGGG
Found at i:12920 original size:28 final size:26
Alignment explanation
Indices: 12889--12947 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 26
12879 TAAATCTTAA
*
12889 TAAGATTTCTATCGATCAACAGCTACTT
1 TAAGA-TT-TATCGATCAACAACTACTT
12917 TAAGA--TATCGATCAACAACTACTT
1 TAAGATTTATCGATCAACAACTACTT
12941 TAAGATT
1 TAAGATT
12948 GTTATGCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 23 0.82
28 5 0.18
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (26 bp):
TAAGATTTATCGATCAACAACTACTT
Found at i:12930 original size:24 final size:24
Alignment explanation
Indices: 12898--12946 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
12888 ATAAGATTTC
*
12898 TATCGATCAACAGCTACTTTAAGA
1 TATCGATCAACAACTACTTTAAGA
12922 TATCGATCAACAACTACTTTAAGA
1 TATCGATCAACAACTACTTTAAGA
12946 T
1 T
12947 TGTTATGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (24 bp):
TATCGATCAACAACTACTTTAAGA
Found at i:17243 original size:3 final size:3
Alignment explanation
Indices: 17235--17298 Score: 110
Period size: 3 Copynumber: 21.0 Consensus size: 3
17225 TGTACGAGTT
*
17235 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17283 TTA TTA TTA TTTA TTA
1 TTA TTA TTA -TTA TTA
17299 GGCTTATGGG
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:20030 original size:19 final size:19
Alignment explanation
Indices: 19989--20030 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
19979 ATGACCAACA
* *
19989 AATTCGCAACGCGATCTCG
1 AATTCGCAACGCGAACTCC
*
20008 AATTCGCAACGTGAACTCC
1 AATTCGCAACGCGAACTCC
20027 AATT
1 AATT
20031 TTGTAACACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (19 bp):
AATTCGCAACGCGAACTCC
Found at i:20146 original size:41 final size:42
Alignment explanation
Indices: 20042--20146 Score: 101
Period size: 41 Copynumber: 2.5 Consensus size: 42
20032 TGTAACACAG
20042 TTTCCAAATTCGCAACGCGAATTTCCCAGATTCGCAACTCAGT
1 TTTCCAAATTCGCAACGCGAATTT-CCAGATTCGCAACTCAGT
* ** ** *
20085 TTT-GAAATTCGCAAATCGAATTT-C-TTTTCTGCAACATGA-T
1 TTTCCAAATTCGCAACGCGAATTTCCAGATTC-GCAAC-TCAGT
20125 TTTCCAAATTCGCAACGCGAAT
1 TTTCCAAATTCGCAACGCGAAT
20147 ATGTAAATCG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
39 3 0.06
40 10 0.20
41 17 0.34
42 17 0.34
43 3 0.06
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (42 bp):
TTTCCAAATTCGCAACGCGAATTTCCAGATTCGCAACTCAGT
Found at i:20200 original size:20 final size:20
Alignment explanation
Indices: 20134--20192 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
20124 TTTTCCAAAT
20134 TCGCAACGCGAATATGTAAA
1 TCGCAACGCGAATATGTAAA
* *
20154 TCGCAACACGAATCTGTAAA
1 TCGCAACGCGAATATGTAAA
*
20174 TCGCAACGCGAATTTGTAA
1 TCGCAACGCGAATATGTAA
20193 TTTGCAACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:20218 original size:40 final size:41
Alignment explanation
Indices: 20129--20219 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 41
20119 CATGATTTTC
**
20129 CAAATTCGCAACGCGAATATGTAAATCGCAACACGAATCTGT
1 CAAATTCGCAACGCGAATATGTAAATCGCAACAC-AATAAGT
* * *
20171 -AAA-TCGCAACGCGAATTTGTAATTTGCAACAC-ATAAGT
1 CAAATTCGCAACGCGAATATGTAAATCGCAACACAATAAGT
20209 CAAATTCGCAA
1 CAAATTCGCAA
20220 AGCGCGTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
38 4 0.10
39 3 0.07
40 32 0.76
41 3 0.07
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (41 bp):
CAAATTCGCAACGCGAATATGTAAATCGCAACACAATAAGT
Found at i:20392 original size:22 final size:22
Alignment explanation
Indices: 20367--20413 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
20357 TCACTCTCTA
** *
20367 CGGCGACATTTGTCCCCATCTC
1 CGGCGACATCCGTCCCCATATC
20389 CGGCGACATCCGTCCCCATATC
1 CGGCGACATCCGTCCCCATATC
20411 CGG
1 CGG
20414 TGACCCCCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.43, G:0.21, T:0.21
Consensus pattern (22 bp):
CGGCGACATCCGTCCCCATATC
Found at i:20823 original size:20 final size:20
Alignment explanation
Indices: 20786--20824 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20776 TTATTTTCGC
* * *
20786 GTTGCGAATTTCATTTTCAT
1 GTTGCAAATTTAAGTTTCAT
20806 GTTGCAAATTTAAGTTTCA
1 GTTGCAAATTTAAGTTTCA
20825 AAAACTACTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (20 bp):
GTTGCAAATTTAAGTTTCAT
Found at i:22897 original size:21 final size:21
Alignment explanation
Indices: 22871--22925 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
22861 ATTCACCTGT
*
22871 CATCGTTCAAGAGTCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
22892 CATCGTTCAAGAGGCCCGTCC
1 CATCGTTCAAGAGGCCCCTCC
*
22913 CACCGTTCAAGAG
1 CATCGTTCAAGAG
22926 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.38, G:0.20, T:0.20
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:24300 original size:13 final size:13
Alignment explanation
Indices: 24277--24308 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
24267 TTTAGATGTA
24277 TTGTCTTAATTGAT
1 TTGT-TTAATTGAT
24291 TTGTTTAATTGAT
1 TTGTTTAATTGAT
24304 TTGTT
1 TTGTT
24309 GTAAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.19, C:0.03, G:0.16, T:0.62
Consensus pattern (13 bp):
TTGTTTAATTGAT
Found at i:24513 original size:20 final size:20
Alignment explanation
Indices: 24493--24556 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
24483 GTGTTGCGAT
* *
24493 TTTCACATTGCGAATTTGAT
1 TTTCACGTTGCGAATTTGAC
*
24513 TTTCGCGTTGC-AACTTTGAC
1 TTTCACGTTGCGAA-TTTGAC
* *
24533 TTTCATGTTTCGAATTTGAC
1 TTTCACGTTGCGAATTTGAC
24553 TTTC
1 TTTC
24557 GCAATAATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (20 bp):
TTTCACGTTGCGAATTTGAC
Found at i:27886 original size:14 final size:15
Alignment explanation
Indices: 27850--27887 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27840 GAAATCATTG
27850 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
27865 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
27880 AAAAATTA
1 AAAAATTA
27888 GAGATGGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:28054 original size:20 final size:20
Alignment explanation
Indices: 28029--28095 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
28019 ACATTTGTGC
28029 TGCGAAATTAAAATTCGTGT
1 TGCGAAATTAAAATTCGTGT
*
28049 TGCG-AATTCGAAAA-TCGAGT
1 TGCGAAATT--AAAATTCGTGT
**
28069 TGCGAAAACAAAATTCGTGT
1 TGCGAAATTAAAATTCGTGT
28089 TGCGAAA
1 TGCGAAA
28096 AGGAAACTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 8 0.21
20 25 0.64
21 6 0.15
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (20 bp):
TGCGAAATTAAAATTCGTGT
Found at i:28084 original size:40 final size:40
Alignment explanation
Indices: 28029--28186 Score: 133
Period size: 40 Copynumber: 3.9 Consensus size: 40
28019 ACATTTGTGC
*
28029 TGCGAAATTAAAATTCGTGTTGCGAATTCGAAAATCGAGT
1 TGCGAAAATAAAATTCGTGTTGCGAATTCGAAAATCGAGT
* *** * * *
28069 TGCGAAAACAAAATTCGTGTTGCGAAAAGGAAACTTGTGT
1 TGCGAAAATAAAATTCGTGTTGCGAATTCGAAAATCGAGT
* *
28109 TGCGAAAA-AGAAATTTGCT-TTGCGAATTC-AGAAATCAAGT
1 TGCGAAAATA-AAATTCG-TGTTGCGAATTCGA-AAATCGAGT
** * *
28149 TGCGAATTTGAAATTCCGTGTTGCGAATTTGAAAATCG
1 TGCGAAAATAAAATT-CGTGTTGCGAATTCGAAAATCG
28187 CGATACGAAT
Statistics
Matches: 89, Mismatches: 22, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
39 2 0.02
40 70 0.79
41 16 0.18
42 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (40 bp):
TGCGAAAATAAAATTCGTGTTGCGAATTCGAAAATCGAGT
Found at i:28096 original size:20 final size:20
Alignment explanation
Indices: 28038--28116 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 20
28028 CTGCGAAATT
**
28038 AAAATTCGTGTTGCGAATTC
1 AAAATTCGTGTTGCGAAAAC
*
28058 GAAAA-TCGAGTTGCGAAAAC
1 -AAAATTCGTGTTGCGAAAAC
*
28078 AAAATTCGTGTTGCGAAAAGG
1 AAAATTCGTGTTGCGAAAA-C
*
28099 AAACTT-GTGTTGCGAAAA
1 AAAATTCGTGTTGCGAAAA
28117 AGAAATTTGC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 4 0.08
20 37 0.74
21 9 0.18
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (20 bp):
AAAATTCGTGTTGCGAAAAC
Found at i:28121 original size:20 final size:19
Alignment explanation
Indices: 28067--28123 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
28057 CGAAAATCGA
28067 GTTGCGAAAACA-AAATTCGT
1 GTTGCGAAAA-AGAAATT-GT
*
28087 GTTGCGAAAAGGAAACTTGT
1 GTTGCGAAAAAGAAA-TTGT
28107 GTTGCGAAAAAGAAATT
1 GTTGCGAAAAAGAAATT
28124 TGCTTTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.25
Consensus pattern (19 bp):
GTTGCGAAAAAGAAATTGT
Found at i:28131 original size:20 final size:20
Alignment explanation
Indices: 28067--28134 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
28057 CGAAAATCGA
28067 GTTGCGAAAACA-AAA-TTCGT
1 GTTGCGAAAA-AGAAACTT-GT
*
28087 GTTGCGAAAAGGAAACTTGT
1 GTTGCGAAAAAGAAACTTGT
*
28107 GTTGCGAAAAAGAAATTTGCT
1 GTTGCGAAAAAGAAACTTG-T
28128 -TTGCGAA
1 GTTGCGAA
28135 TTCAGAAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 39 0.93
21 3 0.07
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (20 bp):
GTTGCGAAAAAGAAACTTGT
Found at i:28173 original size:21 final size:21
Alignment explanation
Indices: 28147--28236 Score: 112
Period size: 21 Copynumber: 4.3 Consensus size: 21
28137 CAGAAATCAA
* *
28147 GTTGCGAATTT-GAAATTCCGT
1 GTTGCGAATTTGGAAAAT-CGC
28168 GTTGCGAATTT-GAAAATCGC
1 GTTGCGAATTTGGAAAATCGC
* *
28188 GATACGAATTTGGAAAATCGC
1 GTTGCGAATTTGGAAAATCGC
*
28209 GTTGCGAATTTGGAAAATCGT
1 GTTGCGAATTTGGAAAATCGC
28230 GTTGCGA
1 GTTGCGA
28237 TCGCAGAAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 11 0.18
21 50 0.82
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (21 bp):
GTTGCGAATTTGGAAAATCGC
Found at i:28185 original size:41 final size:42
Alignment explanation
Indices: 28140--28236 Score: 108
Period size: 41 Copynumber: 2.3 Consensus size: 42
28130 GCGAATTCAG
* * *
28140 AAATCAAGTTGCGAATTT-GAAATTCCGTGTTGCGAATTT-GA
1 AAATCGAGTTGCGAATTTGGAAAAT-CGCGTTGCGAATTTGGA
* * *
28181 AAATCGCGATACGAATTTGGAAAATCGCGTTGCGAATTTGGA
1 AAATCGAGTTGCGAATTTGGAAAATCGCGTTGCGAATTTGGA
*
28223 AAATCGTGTTGCGA
1 AAATCGAGTTGCGA
28237 TCGCAGAAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
41 27 0.60
42 18 0.40
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (42 bp):
AAATCGAGTTGCGAATTTGGAAAATCGCGTTGCGAATTTGGA
Found at i:30022 original size:2 final size:2
Alignment explanation
Indices: 30015--30053 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
30005 AGATTTGAAC
30015 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
30054 TATTATAAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:30060 original size:16 final size:17
Alignment explanation
Indices: 30019--30070 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 17
30009 TTGAACTATA
30019 TATATATATATAT-ATAT
1 TATATATA-ATATGATAT
30036 ATATATATAATATGATAT
1 -TATATATAATATGATAT
30054 TAT-TATAA-AGTGATAT
1 TATATATAATA-TGATAT
30070 T
1 T
30071 TGTTCAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.03
16 12 0.38
17 7 0.22
18 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
TATATATAATATGATAT
Found at i:30202 original size:2 final size:2
Alignment explanation
Indices: 30195--30221 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30185 TTCAACTATT
30195 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
30222 TTGTGATGTT
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:31886 original size:20 final size:21
Alignment explanation
Indices: 31861--31912 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
31851 TTTTCCCAAT
*
31861 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
31881 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
31902 TCGCAATGCGA
1 TCGCAATGCGA
31913 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:31926 original size:20 final size:20
Alignment explanation
Indices: 31901--31990 Score: 83
Period size: 20 Copynumber: 4.5 Consensus size: 20
31891 AATTGGGAAA
*
31901 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
31921 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
31942 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
31962 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
31982 TTCGCAACG
1 ATCGCAACG
31991 GGATTTACAT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 41 0.71
21 13 0.22
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:32571 original size:19 final size:19
Alignment explanation
Indices: 32511--32591 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
32501 TTCGAGAATG
32511 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
** *
32531 ACTATCGCAA--CGAGAT-
1 AAAATCGCAACGCGAAATA
32547 --AATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
32564 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
32583 AAAATCGCA
1 AAAATCGCA
32592 TTGCAATTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 7 0.14
16 5 0.10
17 4 0.08
18 1 0.02
19 24 0.49
20 8 0.16
ACGTcount: A:0.47, C:0.25, G:0.17, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:32609 original size:19 final size:19
Alignment explanation
Indices: 32587--32791 Score: 160
Period size: 20 Copynumber: 11.1 Consensus size: 19
32577 GAAACCAAAA
* *
32587 TCGCATTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
32606 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
32625 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
32644 TCGCGGTTGTGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
32664 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
** **
32680 T-G-GTCACGATAGTCATT
1 TCGCGTTGCGATTTTCATT
32697 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
32711 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
32730 TCCGCGTTGCGATAGTCATT
1 T-CGCGTTGCGATTTTCATT
*
32750 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
32770 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
32790 TC
1 TC
32792 AACCAAAAGA
Statistics
Matches: 153, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
14 19 0.12
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 57 0.37
20 68 0.44
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:32666 original size:39 final size:38
Alignment explanation
Indices: 32587--32791 Score: 160
Period size: 33 Copynumber: 5.6 Consensus size: 38
32577 GAAACCAAAA
* *
32587 TCGCATTGCAATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
32625 TCGCGTTGCGATTTTTATTTCGCGGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* ** **
32664 TCGCGTTGCGATTGTC---T-G-GTCACGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* **
32697 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
** *
32730 TCCGCGTTGCGATAGTCATTTCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATTT-CGCGTTGCGATTTTCATT
*
32770 ATCTCGTTGCGATTTTCATTTC
1 -TCGCGTTGCGATTTTCATTTC
32792 AACCAAAAGA
Statistics
Matches: 134, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
31 3 0.02
33 35 0.26
34 10 0.07
35 1 0.01
36 3 0.02
38 20 0.15
39 30 0.22
40 31 0.23
41 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.43
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:34854 original size:42 final size:42
Alignment explanation
Indices: 34794--34886 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
34784 GCCCGACTCG
* *
34794 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCC
* * *
34836 CCTATCATTCCTCGAGAGTCCCCTCCCATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCC
* *
34878 ACTGTCATC
1 CCTATCATC
34887 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.25
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCATCGTTCAAGAGGCC
Found at i:34874 original size:21 final size:21
Alignment explanation
Indices: 34805--34916 Score: 57
Period size: 21 Copynumber: 5.3 Consensus size: 21
34795 CTATCATCCC
* *
34805 TCAAGAGTCCACTCCTATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * ** *
34826 TGAAGAGGCCCCTATCATTC-C
1 TCAAGAGTCCCCTCCCA-TCGT
*
34847 TCGAGAGTCCCCTCCCATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * **
34868 TCAAGAGGCCACTGTCATCGT
1 TCAAGAGTCCCCTCCCATCGT
* * *
34889 TGAAGAGGT-CCCTCCCACCAT
1 TCAAGA-GTCCCCTCCCATCGT
34910 TCAAGAG
1 TCAAGAG
34917 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 26, Indels: 7
0.65 0.27 0.07
Matches are distributed among these distances:
20 3 0.05
21 56 0.90
22 3 0.05
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCATCGT
Found at i:36293 original size:14 final size:14
Alignment explanation
Indices: 36274--36309 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
36264 ATTGTTTAAT
36274 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
36288 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
36302 TGATTTGT
1 TGATTTGT
36310 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:36492 original size:19 final size:19
Alignment explanation
Indices: 36435--36493 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
36425 GAAATTAGTG
*
36435 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATATCGCA
* *
36454 TTGTGA--TTC-TCTCG--
1 TTGCGATTTTCATATCGCA
36468 TTGCGATTTTCATATCGCA
1 TTGCGATTTTCATATCGCA
36487 TTGCGAT
1 TTGCGAT
36494 AGTAATTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
16 7 0.23
17 7 0.23
19 12 0.39
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATATCGCA
Found at i:38803 original size:12 final size:12
Alignment explanation
Indices: 38786--38810 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38776 TCTTTAGGGA
38786 CTTTTTCTTCTT
1 CTTTTTCTTCTT
38798 CTTTTTCTTCTT
1 CTTTTTCTTCTT
38810 C
1 C
38811 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:39947 original size:20 final size:20
Alignment explanation
Indices: 39922--39979 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
39912 ATTCATTTGA
39922 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
39942 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
39962 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
39980 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:40039 original size:19 final size:19
Alignment explanation
Indices: 39998--40084 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
39988 GAAATGAAAA
39998 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
40014 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
40031 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
40050 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
40069 TCGCATTACGATTTTC
1 TCGCATTGCGATTTTC
40085 TCGTTGCGAT
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
14 11 0.17
16 3 0.05
17 3 0.05
19 48 0.74
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:40068 original size:38 final size:33
Alignment explanation
Indices: 39998--40113 Score: 151
Period size: 33 Copynumber: 3.4 Consensus size: 33
39988 GAAATGAAAA
39998 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
40031 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATT
* ***
40069 TCGCATTACGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
40102 TCGCATTGCGAT
1 TCGCATTGCGAT
40114 AGTCTGTTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
33 38 0.52
35 3 0.04
36 3 0.04
38 29 0.40
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:40237 original size:14 final size:14
Alignment explanation
Indices: 40201--40237 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
40191 CATCAATTAA
*
40201 ACAAATCAACATTT
1 ACAAATCATCATTT
*
40215 ACAAATCATCTTTT
1 ACAAATCATCATTT
40229 ACAAATCAT
1 ACAAATCAT
40238 TAAACAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCATCATTT
Found at i:42136 original size:19 final size:19
Alignment explanation
Indices: 42091--42209 Score: 89
Period size: 19 Copynumber: 6.8 Consensus size: 19
42081 CACGAAACTT
*
42091 AAAATCGCAACGCGGAAATG
1 AAAATCGCAATGC-GAAATG
***
42111 GCTATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
42130 AAAATCGCAA--CG--A-C
1 AAAATCGCAATGCGAAATG
42144 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
*
42163 -AAATCGCAA--CG--A-C
1 AAAATCGCAATGCGAAATG
*
42176 AAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
42195 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
42210 TTTGTGTTTC
Statistics
Matches: 76, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
14 20 0.26
15 1 0.01
16 6 0.08
17 2 0.03
18 11 0.14
19 27 0.36
20 9 0.12
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.13
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:42149 original size:14 final size:14
Alignment explanation
Indices: 42130--42187 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
42120 ATGCGAAATG
42130 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
42144 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
42160 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
42176 AAAATCGCAACG
1 AAAATCGCAACG
42188 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:42172 original size:32 final size:33
Alignment explanation
Indices: 42114--42204 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
42104 GGAAATGGCT
42114 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
42147 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
42179 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
42205 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:42240 original size:14 final size:14
Alignment explanation
Indices: 42221--42278 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
42211 TTGTGTTTCG
42221 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
42235 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
42251 CGCGTTGTGATTTTGT
1 --CGTTGCGATTTTGT
42267 CGTTGCGATTTT
1 CGTTGCGATTTT
42279 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.61
16 4 0.11
18 10 0.28
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:42255 original size:32 final size:33
Alignment explanation
Indices: 42216--42294 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
42206 GCGATTTGTG
42216 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
42248 TTTCGCGTTGTGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
42281 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
42295 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 26 0.60
33 17 0.40
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:42293 original size:19 final size:20
Alignment explanation
Indices: 42269--42317 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
42259 GATTTTGTCG
42269 TTGCGATTTTCATTT-CGCA
1 TTGCGATTTTCATTTCCGCA
*** *
42288 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTTCCGCA
42308 TTGCGATTTT
1 TTGCGATTTT
42318 AAGTTTCGTG
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (20 bp):
TTGCGATTTTCATTTCCGCA
Found at i:42840 original size:18 final size:18
Alignment explanation
Indices: 42814--42858 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
42804 GTCGATCAGA
*
42814 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
42832 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
42850 TGATGGCTC
1 TGATGGCTC
42859 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:44198 original size:20 final size:20
Alignment explanation
Indices: 44173--44210 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44163 AATAGTTTCT
44173 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
44193 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
44211 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:44500 original size:22 final size:22
Alignment explanation
Indices: 44473--44516 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
44463 GATGGAGATA
44473 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
44495 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
44517 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:44790 original size:20 final size:20
Alignment explanation
Indices: 44684--44797 Score: 77
Period size: 20 Copynumber: 5.6 Consensus size: 20
44674 CGCTTTGAAA
*
44684 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
44705 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
44725 ATTGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
44745 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
44766 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
44786 ATCGCATTGCGA
1 ATCGCATTGCGA
44798 CTTTCCCAAT
Statistics
Matches: 73, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 47 0.64
21 24 0.33
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:44817 original size:41 final size:41
Alignment explanation
Indices: 44787--44879 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
44777 ATAGTCAGTA
* *
44787 TCGCATTGCGACTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGACTTTCCCAATTCGCGTTGCGATTCACGTAT
* * * * *
44828 TCGCATTGCGATTTTCCCAATTCGAGTTGTGATTTACTTAT
1 TCGCATTGCGACTTTCCCAATTCGCGTTGCGATTCACGTAT
44869 TCGCATTGCGA
1 TCGCATTGCGA
44880 ATTGAGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGACTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:44831 original size:20 final size:20
Alignment explanation
Indices: 44787--44879 Score: 80
Period size: 20 Copynumber: 4.5 Consensus size: 20
44777 ATAGTCAGTA
* **
44787 TCGCATTGCGACTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
44808 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
44828 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
44849 TCG-AGTTGTGATTTACTTAT
1 TCGCA-TTGCGATTTACTTAT
44869 TCGCATTGCGA
1 TCGCATTGCGA
44880 ATTGAGAAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:44950 original size:21 final size:21
Alignment explanation
Indices: 44910--44950 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44900 ACTGTAGACC
**
44910 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
44931 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
44951 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:45348 original size:13 final size:13
Alignment explanation
Indices: 45330--45358 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
45320 ATTTTTTTTA
45330 AATTATTAAAATT
1 AATTATTAAAATT
45343 AATTATTAAAATT
1 AATTATTAAAATT
45356 AAT
1 AAT
45359 AAATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTATTAAAATT
Found at i:57712 original size:24 final size:24
Alignment explanation
Indices: 57685--57730 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
57675 GTGACATGAT
* *
57685 TTTTCTCTGCTCTTGTGGCACGCA
1 TTTTCTCTACTATTGTGGCACGCA
57709 TTTTCTCTACTATTGTGGCACG
1 TTTTCTCTACTATTGTGGCACG
57731 ATCCTCATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTTCTCTACTATTGTGGCACGCA
Found at i:58074 original size:33 final size:36
Alignment explanation
Indices: 58031--58130 Score: 154
Period size: 33 Copynumber: 2.8 Consensus size: 36
58021 TTTCGTCCTA
58031 CTAGGATTCAAACTCCTAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAATAGGATAGACATTTT
58065 -TAGGATTCAAACTCCTAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAATAGGATAGACATTTT
58099 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCT-AAAATAGGATAGA
58131 GTTCTACTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
32 1 0.02
33 28 0.47
34 3 0.05
36 16 0.27
37 11 0.18
38 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAATAGGATAGACATTTT
Found at i:58154 original size:37 final size:36
Alignment explanation
Indices: 58028--58164 Score: 165
Period size: 37 Copynumber: 3.8 Consensus size: 36
58018 CCTTTTCGTC
58028 CTACTAGGATTCAAACTCCTAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAATAGGATAGAATT
58064 -T--TAGGATTCAAACTCCTAAAATAGGATA-ACATT
1 CTACTAGGATTCAAACTCCTAAAATAGGATAGA-ATT
* * *
58097 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCT-AAAATAGGATAGAATT
* * *
58134 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAA-ATAGGAT
58165 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.01
33 30 0.34
34 1 0.01
35 1 0.01
36 19 0.22
37 35 0.40
38 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (36 bp):
CTACTAGGATTCAAACTCCTAAAATAGGATAGAATT
Found at i:58558 original size:18 final size:17
Alignment explanation
Indices: 58519--58561 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
58509 ATTATATGGA
58519 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
58535 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
58553 TATTATTAT
1 TATTATTAT
58562 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:62220 original size:16 final size:16
Alignment explanation
Indices: 62194--62277 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 16
62184 AGATCCAATC
62194 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
62209 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
* * *
62226 AAAAAAAAACAAAGAAA
1 AAGAACAAA-AAAGCAA
62243 AAGAGA-AACAAGAA-CAA
1 AAGA-ACAA-AA-AAGCAA
62260 AAGAA-AAAAAGAGCAA
1 AAGAACAAAAA-AGCAA
62276 AA
1 AA
62278 ATCAAAAAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
14 1 0.02
15 8 0.14
16 19 0.34
17 24 0.43
18 4 0.07
ACGTcount: A:0.77, C:0.08, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:62243 original size:23 final size:23
Alignment explanation
Indices: 62217--62267 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
62207 AAAAGAAGCA
62217 AAAAAGCAAAAAAAAAAAC-AAAG
1 AAAAAG-AAAAAAAAAAACAAAAG
* * *
62240 AAAAAGAGAAACAAGAACAAAAG
1 AAAAAGAAAAAAAAAAACAAAAG
62263 AAAAA
1 AAAAA
62268 AAGAGCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.80, C:0.08, G:0.12, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAAAAAAACAAAAG
Found at i:62952 original size:22 final size:22
Alignment explanation
Indices: 62927--62975 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
62917 CCATCAATCT
* **
62927 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATACCAAACC
62949 TTTGAGCATCAAATACCAAACC
1 TTTGAGCATCAAATACCAAACC
62971 TTTGA
1 TTTGA
62976 CCAAACACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATACCAAACC
Found at i:63888 original size:36 final size:35
Alignment explanation
Indices: 63848--64177 Score: 207
Period size: 36 Copynumber: 9.5 Consensus size: 35
63838 ACTCATGATT
* * *
63848 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
1 GTTTCTCTTAAAACAA-ATTTGTCTCTCTTGAGACA
* * * **
63884 GTTT-TCACTAGAAGAGTTTTGTCTCTCTTGAGACA
1 GTTTCTC-TTAAAACAAATTTGTCTCTCTTGAGACA
* *
63919 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
* *
63955 GTTTCTCTTGAAACAAA-TT-TCTATCTTGAGACA
1 GTTTCTCTTAAAACAAATTTGTCTCTCTTGAGACA
* * *
63988 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAACAAA-TTTGTCTCTCTTGAGACA
* * * *
64024 GTTTCCCTTGAAACAAA------TAT-TTGA-ATA
1 GTTTCTCTTAAAACAAATTTGTCTCTCTTGAGACA
* * *
64051 TGTTT-TCTTTGAAACAAATTCCGTCTCCCTTGAGACA
1 -GTTTCTC-TTAAAACAAATT-TGTCTCTCTTGAGACA
* ** *
64088 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTAAAAC-AA-ATTTGTCTCTCTTGAGACA
* * *
64125 GTTTCTCTTGAAACAATTTTCGTCTATCTTGAGACA
1 GTTTCTCTTAAAACAAATTT-GTCTCTCTTGAGACA
* *
64161 GTTTCCCTTGAAACAAA
1 GTTTCTCTTAAAACAAA
64178 ACCTTTGAAT
Statistics
Matches: 237, Mismatches: 36, Indels: 42
0.75 0.11 0.13
Matches are distributed among these distances:
27 3 0.01
28 18 0.08
29 2 0.01
33 28 0.12
34 2 0.01
35 33 0.14
36 118 0.50
37 31 0.13
38 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (35 bp):
GTTTCTCTTAAAACAAATTTGTCTCTCTTGAGACA
Found at i:63943 original size:71 final size:70
Alignment explanation
Indices: 63858--64177 Score: 225
Period size: 69 Copynumber: 4.6 Consensus size: 70
63848 GTTTTTCTTA
* * *** *
63858 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAGAAGA-GTTTTGTCTCTCTTGAGACAGT
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAA-ACAAATT-TCTATCTTGAGACAGT
63921 TTCCCTTG
63 TTCCCTTG
* *
63929 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCTATCTTGAGACAGTTTC
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCTATCTTGAGACAGTTTC
63993 CCTTG
66 CCTTG
* * * *
63998 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA----TAT-TTGA-ATATGTTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCTATCTTGAGACA-GTTT
* *
64056 TCTTTG
65 CCCTTG
** * ** * * * *
64062 AAACAAATTCCGTCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAAC-AA--ATT-TCTATCTTGAGACAG
*
64126 TTTCTCTTG
62 TTTCCCTTG
* * *
64135 AAAC-AATTTTCGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTT-GTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
64178 ACCTTTGAAT
Statistics
Matches: 201, Mismatches: 34, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
63 2 0.01
64 45 0.22
65 5 0.02
69 65 0.32
70 12 0.06
71 23 0.11
72 8 0.04
73 39 0.19
74 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (70 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCTATCTTGAGACAGTTTC
CCTTG
Found at i:63963 original size:15 final size:15
Alignment explanation
Indices: 63943--63998 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
63933 AAATTTTGTC
63943 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
* *
63958 TCTCTTGAAACAAATT
1 TCTCTTGAGAC-AGTT
63974 TCTATCTTGAGACAGTT
1 TC--TCTTGAGACAGTT
*
63991 TCCCTTGA
1 TCTCTTGA
63999 AATAAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
15 15 0.45
16 5 0.15
17 5 0.15
18 8 0.24
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.39
Consensus pattern (15 bp):
TCTCTTGAGACAGTT
Found at i:63999 original size:69 final size:69
Alignment explanation
Indices: 63909--64177 Score: 300
Period size: 69 Copynumber: 3.9 Consensus size: 69
63899 GTTTTGTCTC
*
63909 TCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATT
1 TCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
63974 TCTA
66 TCTA
*
63978 TCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA--
1 TCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
64041 --TA
66 TCTA
* * * ** * ** *
64043 T-TTGA-ATATGTTTTCTTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TCTTGAGACA-GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AA-
* *
64106 TTTTGTCTC
63 -ATT-TCTA
* *
64115 TCTTGAGACAGTTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA
1 TCTTGAGACAGTTTCCCTTGAAACAAATTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
64178 ACCTTTGAAT
Statistics
Matches: 162, Mismatches: 26, Indels: 23
0.77 0.12 0.11
Matches are distributed among these distances:
63 2 0.01
64 45 0.28
65 5 0.03
69 61 0.38
72 8 0.05
73 39 0.24
74 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (69 bp):
TCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
TCTA
Found at i:64168 original size:137 final size:133
Alignment explanation
Indices: 63926--64237 Score: 364
Period size: 137 Copynumber: 2.3 Consensus size: 133
63916 ACAGTTTCCC
** *
63926 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCTATCTTGAGACAGTT
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCTATCTTGAGACAGTT
*
63991 TCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATATTTGAATATGTTT
66 TCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATATTTGAATATGTTT
64056 TCT
131 TCT
* * * *
64059 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AA--ATT-TCTATCTTGAGAC
* *
64124 AGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAA-ACCTTTGAA
62 AGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAATA--TTTGAA
* * * *
64187 TTTATTTCCC
124 TATGTTTTCT
* ** *
64197 CT-AAA-AAATT-TTTCTCCCTTGAGACAGTTACTCTTGAAACA
1 TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACA
64238 CAAAATCTTC
Statistics
Matches: 152, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
133 38 0.25
134 3 0.02
135 25 0.16
136 14 0.09
137 59 0.39
138 13 0.09
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (133 bp):
TTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCTATCTTGAGACAGTT
TCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATATTTGAATATGTTT
TCT
Found at i:64257 original size:64 final size:67
Alignment explanation
Indices: 64152--64304 Score: 183
Period size: 67 Copynumber: 2.4 Consensus size: 67
64142 TTTCGTCTAT
* **
64152 CTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCCT-AAA-A-AATTTT-TC
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGT-
64211 TCC
65 TCC
* * *
64214 CTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTT
1 CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
64279 CC
66 CC
* *
64281 CTTGAGACCGTTTCTCATGAAACA
1 CTTGAGACAGTTTCTCTTGAAACA
64305 ACAGATATCT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
62 17 0.22
63 2 0.03
64 22 0.29
65 3 0.04
66 1 0.01
67 30 0.39
68 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (67 bp):
CTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCCTAAAACATAATTTTGTT
CC
Found at i:65214 original size:209 final size:210
Alignment explanation
Indices: 64937--65897 Score: 1579
Period size: 209 Copynumber: 4.6 Consensus size: 210
64927 GCACTCGAGG
* * ** *
64937 CAACACAAGTTCAACTTCACAACG-AGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
*
65001 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACG
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
* * * *
65066 AAGGGACCGCTGCCTGTCATCAATAACTTCTCAATTTCAGAACCAATTTCAACTTCACAATGAAG
130 AAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
65131 GATATTGGACTTCAGA
195 GATATTGGACTTCAGA
65147 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC-TGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
65211 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
*
65276 AGGGACCGCTG-CTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAGG
131 AGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
65340 ATATTGGACTTCAGA
196 ATATTGGACTTCAGA
65355 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
65420 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
*
65485 AGGGACCG-TGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
131 AGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
65549 ATA-TGGACTTCAGA
196 ATATTGGACTTCAGA
* *
65563 CAAAGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
65628 GCCAATTTCAACTTCACAACG-AGGATA-TGGACTCCAGACAATGCAAGTTCAAC-TCACGACGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
* * *
65690 AGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGG
131 AGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
*
65755 ATATTGGACTCCAGA
196 ATATTGGACTTCAGA
65770 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** * * * *
65830 TTCAATTTCAACTTCATAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
65895 AGG
131 AGG
65898 ATATTGGACT
Statistics
Matches: 713, Mismatches: 30, Indels: 21
0.93 0.04 0.03
Matches are distributed among these distances:
202 24 0.03
203 7 0.01
204 24 0.03
205 30 0.04
206 84 0.12
207 62 0.09
208 199 0.28
209 245 0.34
210 29 0.04
211 9 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (210 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
AGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
ATATTGGACTTCAGA
Found at i:65243 original size:104 final size:105
Alignment explanation
Indices: 64937--65897 Score: 1563
Period size: 104 Copynumber: 9.3 Consensus size: 105
64927 GCACTCGAGG
* * ** *
64937 CAACACAAGTTCAACTTCACAACG-AGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
*
65001 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
* * * *
65042 CAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCATCAATAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
65107 ACCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
65147 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC-TGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
65211 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
65251 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC-TGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
65315 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
65355 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
65420 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
65460 CAACGCAAGTTCAACTTCACGACGAAGGGACCG-TGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
65524 GCCAATTTCAACTTCACAACGAAGGATA-TGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
* *
65563 CAAAGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
65628 GCCAATTTCAACTTCACAACG-AGGATA-TGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
* * *
65666 CAATGCAAGTTCAAC-TCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
65730 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
65770 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
** *
65830 TTCAATTTCAACTTCATAACGAAGGATATTGGAC-TCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTC-AGA
* *
65870 CAACACAAGTTCAACTTCACAACGAAGG
1 CAACGCAAGTTCAACTTCACGACGAAGG
65898 ATATTGGACT
Statistics
Matches: 816, Mismatches: 33, Indels: 19
0.94 0.04 0.02
Matches are distributed among these distances:
99 1 0.00
100 65 0.08
101 1 0.00
102 70 0.09
103 80 0.10
104 342 0.42
105 242 0.30
106 15 0.02
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
Found at i:65550 original size:313 final size:314
Alignment explanation
Indices: 64937--65897 Score: 1581
Period size: 313 Copynumber: 3.1 Consensus size: 314
64927 GCACTCGAGG
** *
64937 CAACACAAGTTCAACTTCACAACG-AGGGACAACTGGTTGTCAACAAACAACTTCTCAATTTCAG
1 CAACACAAGTTCAACTTCACAACGAAGGGACCGCT-GCTGTCAAC-AACAACTTCTCAATTTCAG
65001 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACG
64 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACG
* * * * *
65066 AAGGGACCGCTGCCTGTCATCAATAACTTCTCAATTTCAGAACCAATTTCAACTTCACAATGAAG
129 AAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
*
65131 GATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGC-TGTCAACAACA
194 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACA
*
65195 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
259 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
* *
65251 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTGTCAACAACAACTTCTCAATTTCAGAG
1 CAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTGTCAACAACAACTTCTCAATTTCAGAG
* * *
65316 CCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAA
66 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAA
65381 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
131 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
65446 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-TGCTTGTCAACAACAAC
196 TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAAC
65510 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA-TGGACTTCAGA
261 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
* *
65563 CAA-AGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAG
1 CAACA-CAAGTTCAACTTCACAACGAAGGGACCGCTGC-TGTCAACAACAACTTCTCAATTTCAG
65627 AGCCAATTTCAACTTCACAACG-AGGATA-TGGACTCCAGACAATGCAAGTTCAAC-TCACGACG
64 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACG
* *
65689 AAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAG
129 AAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
65754 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-A
194 GATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACA
** *
65818 A-TT-TC-A-TTCAGATTCAATTTCAACTTCATAACGAAGGATATTGGAC-TCGAGA
259 ACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTC-AGA
65870 CAACACAAGTTCAACTTCACAACGAAGG
1 CAACACAAGTTCAACTTCACAACGAAGG
65898 ATATTGGACT
Statistics
Matches: 613, Mismatches: 26, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
306 33 0.05
307 34 0.06
308 3 0.00
309 2 0.00
310 122 0.20
311 37 0.06
312 55 0.09
313 289 0.47
314 30 0.05
315 8 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (314 bp):
CAACACAAGTTCAACTTCACAACGAAGGGACCGCTGCTGTCAACAACAACTTCTCAATTTCAGAG
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAA
GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
TATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAAC
TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
Found at i:65897 original size:43 final size:43
Alignment explanation
Indices: 65836--65940 Score: 201
Period size: 43 Copynumber: 2.4 Consensus size: 43
65826 CAGATTCAAT
*
65836 TTCAACTTCATAACGAAGGATATTGGACTCGAGACAACACAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
65879 TTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
65922 TTCAACTTCACAACGAAGG
1 TTCAACTTCACAACGAAGG
65941 GACGATGGCA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
Found at i:66006 original size:143 final size:141
Alignment explanation
Indices: 65736--66007 Score: 345
Period size: 143 Copynumber: 1.9 Consensus size: 141
65726 CAGAGCCAAT
* *
65736 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGAC
* ** * *
65801 CGCTGCTTGTCAACAAAATTTCATTCAGATTCAATTTCAACTTCATAACGAAGGATATTGGACTC
66 CGATG--TGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTC
65866 GAGACAACACAAG
129 GAGACAACACAAG
*
65879 TTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGAC
* * *
65943 CGATG-G-CAACAAACAATTTCCCGGTTCCAGAGCCAATTTCAACTTCACGACGGAGAATA-TGG
66 CGATGTGTCAAC-AA-AATTT--C-ATT-CAGAGCCAATTTCAACTTCACAACGAAGAATATTGG
66005 ACT
125 ACT
66008 TGGAACAATG
Statistics
Matches: 112, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
138 4 0.04
139 3 0.03
140 5 0.04
142 5 0.04
143 69 0.62
144 26 0.23
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (141 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGAC
CGATGTGTCAACAAAATTTCATTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCGA
GACAACACAAG
Found at i:66593 original size:34 final size:36
Alignment explanation
Indices: 66549--66648 Score: 161
Period size: 34 Copynumber: 2.8 Consensus size: 36
66539 TTTCGTCCTA
66549 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
66584 -TAGGATTCAAACTCCTAAAAATAGGATAACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAACATTTT
66619 GCTAGGATTCAAACTCCTAAAAATAGGATA
1 -CTAGGATTCAAACTCCTAAAAATAGGATA
66649 TAGTTCTACT
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.02
34 29 0.48
35 3 0.05
37 28 0.46
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAACATTTT
Found at i:66634 original size:37 final size:35
Alignment explanation
Indices: 66549--66684 Score: 159
Period size: 37 Copynumber: 3.8 Consensus size: 35
66539 TTTCGTCCTA
66549 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
66584 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
* *
66619 GCTAGGATTCAAACTCCTAAAAATAGGATATAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
66656 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
66685 CCACAAGCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 53 0.60
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:67066 original size:16 final size:16
Alignment explanation
Indices: 67016--67069 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
67006 ATATAGTCCC
*
67016 TTATTATT-ATATGATA
1 TTATTATTCAT-TTATA
*
67032 TT-TTATTCATTTATT
1 TTATTATTCATTTATA
67047 TTATTATTCATGTT-TA
1 TTATTATTCAT-TTATA
67063 TTATTAT
1 TTATTAT
67070 GTGTATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 10 0.31
16 20 0.62
17 2 0.06
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (16 bp):
TTATTATTCATTTATA
Done.