Multiple sequence alignment - TraesCS3B01G279300

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS3B01G279300 chr3B 100.000 3338 0 0 1 3338 449017840 449014503 0.000000e+00 6165
1 TraesCS3B01G279300 chr3B 85.277 849 95 15 1349 2183 448778756 448779588 0.000000e+00 848
2 TraesCS3B01G279300 chr3B 88.730 630 49 9 126 734 449100622 449101250 0.000000e+00 750
3 TraesCS3B01G279300 chr3A 94.089 1218 60 7 1259 2470 468299438 468298227 0.000000e+00 1840
4 TraesCS3B01G279300 chr3A 85.629 835 87 16 1369 2183 468006759 468007580 0.000000e+00 846
5 TraesCS3B01G279300 chr3D 92.801 1139 36 9 1362 2470 350673613 350672491 0.000000e+00 1607
6 TraesCS3B01G279300 chr3D 84.959 984 133 12 292 1263 446418504 446417524 0.000000e+00 983
7 TraesCS3B01G279300 chr3D 85.153 815 97 14 1384 2186 349862710 349863512 0.000000e+00 813
8 TraesCS3B01G279300 chr2B 94.779 881 46 0 2458 3338 800928380 800929260 0.000000e+00 1373
9 TraesCS3B01G279300 chr2B 84.732 989 133 17 283 1261 209021317 209022297 0.000000e+00 974
10 TraesCS3B01G279300 chr2B 81.974 993 161 18 283 1263 483302068 483303054 0.000000e+00 826
11 TraesCS3B01G279300 chr1B 94.647 878 38 4 2470 3338 534170842 534169965 0.000000e+00 1352
12 TraesCS3B01G279300 chr7B 94.508 874 42 3 2471 3338 677807875 677808748 0.000000e+00 1343
13 TraesCS3B01G279300 chr7B 94.050 874 50 1 2467 3338 7525597 7524724 0.000000e+00 1325
14 TraesCS3B01G279300 chr7B 93.478 874 47 7 2467 3338 658478698 658479563 0.000000e+00 1290
15 TraesCS3B01G279300 chr7B 83.585 993 137 20 287 1263 162920845 162919863 0.000000e+00 907
16 TraesCS3B01G279300 chr7B 95.312 64 3 0 2191 2254 716715878 716715941 5.890000e-18 102
17 TraesCS3B01G279300 chrUn 94.495 872 44 4 2471 3338 182334861 182333990 0.000000e+00 1341
18 TraesCS3B01G279300 chrUn 93.871 881 47 5 2465 3338 60485312 60484432 0.000000e+00 1321
19 TraesCS3B01G279300 chrUn 93.593 874 47 4 2470 3338 67140424 67139555 0.000000e+00 1295
20 TraesCS3B01G279300 chr6B 93.433 868 56 1 2471 3338 642074106 642074972 0.000000e+00 1286
21 TraesCS3B01G279300 chr5B 86.506 956 116 10 292 1240 487731435 487730486 0.000000e+00 1038
22 TraesCS3B01G279300 chr5D 84.725 982 136 10 283 1254 64257089 64256112 0.000000e+00 970
23 TraesCS3B01G279300 chr1D 85.426 940 122 14 328 1256 319374883 319375818 0.000000e+00 963
24 TraesCS3B01G279300 chr1D 84.125 989 142 15 283 1261 373077843 373076860 0.000000e+00 942
25 TraesCS3B01G279300 chr2D 84.057 991 146 9 283 1263 362500223 362499235 0.000000e+00 944


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS3B01G279300 chr3B 449014503 449017840 3337 True 6165 6165 100.000 1 3338 1 chr3B.!!$R1 3337
1 TraesCS3B01G279300 chr3B 448778756 448779588 832 False 848 848 85.277 1349 2183 1 chr3B.!!$F1 834
2 TraesCS3B01G279300 chr3B 449100622 449101250 628 False 750 750 88.730 126 734 1 chr3B.!!$F2 608
3 TraesCS3B01G279300 chr3A 468298227 468299438 1211 True 1840 1840 94.089 1259 2470 1 chr3A.!!$R1 1211
4 TraesCS3B01G279300 chr3A 468006759 468007580 821 False 846 846 85.629 1369 2183 1 chr3A.!!$F1 814
5 TraesCS3B01G279300 chr3D 350672491 350673613 1122 True 1607 1607 92.801 1362 2470 1 chr3D.!!$R1 1108
6 TraesCS3B01G279300 chr3D 446417524 446418504 980 True 983 983 84.959 292 1263 1 chr3D.!!$R2 971
7 TraesCS3B01G279300 chr3D 349862710 349863512 802 False 813 813 85.153 1384 2186 1 chr3D.!!$F1 802
8 TraesCS3B01G279300 chr2B 800928380 800929260 880 False 1373 1373 94.779 2458 3338 1 chr2B.!!$F3 880
9 TraesCS3B01G279300 chr2B 209021317 209022297 980 False 974 974 84.732 283 1261 1 chr2B.!!$F1 978
10 TraesCS3B01G279300 chr2B 483302068 483303054 986 False 826 826 81.974 283 1263 1 chr2B.!!$F2 980
11 TraesCS3B01G279300 chr1B 534169965 534170842 877 True 1352 1352 94.647 2470 3338 1 chr1B.!!$R1 868
12 TraesCS3B01G279300 chr7B 677807875 677808748 873 False 1343 1343 94.508 2471 3338 1 chr7B.!!$F2 867
13 TraesCS3B01G279300 chr7B 7524724 7525597 873 True 1325 1325 94.050 2467 3338 1 chr7B.!!$R1 871
14 TraesCS3B01G279300 chr7B 658478698 658479563 865 False 1290 1290 93.478 2467 3338 1 chr7B.!!$F1 871
15 TraesCS3B01G279300 chr7B 162919863 162920845 982 True 907 907 83.585 287 1263 1 chr7B.!!$R2 976
16 TraesCS3B01G279300 chrUn 182333990 182334861 871 True 1341 1341 94.495 2471 3338 1 chrUn.!!$R3 867
17 TraesCS3B01G279300 chrUn 60484432 60485312 880 True 1321 1321 93.871 2465 3338 1 chrUn.!!$R1 873
18 TraesCS3B01G279300 chrUn 67139555 67140424 869 True 1295 1295 93.593 2470 3338 1 chrUn.!!$R2 868
19 TraesCS3B01G279300 chr6B 642074106 642074972 866 False 1286 1286 93.433 2471 3338 1 chr6B.!!$F1 867
20 TraesCS3B01G279300 chr5B 487730486 487731435 949 True 1038 1038 86.506 292 1240 1 chr5B.!!$R1 948
21 TraesCS3B01G279300 chr5D 64256112 64257089 977 True 970 970 84.725 283 1254 1 chr5D.!!$R1 971
22 TraesCS3B01G279300 chr1D 319374883 319375818 935 False 963 963 85.426 328 1256 1 chr1D.!!$F1 928
23 TraesCS3B01G279300 chr1D 373076860 373077843 983 True 942 942 84.125 283 1261 1 chr1D.!!$R1 978
24 TraesCS3B01G279300 chr2D 362499235 362500223 988 True 944 944 84.057 283 1263 1 chr2D.!!$R1 980

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
19 20 0.099436 GCTCAATGTTCGGCATGTCC 59.901 55.0 0.0 0.0 37.96 4.02 F
1053 1081 0.036388 GATTCAGTGGGCACGAAGGA 60.036 55.0 0.0 0.0 36.20 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1104 1133 0.035598 TTCGGCGGGATGTTCTTTGA 59.964 50.0 7.21 0.00 0.00 2.69 R
2661 2745 0.037232 GGCTACTCTTTGCCGTGAGT 60.037 55.0 7.54 7.54 44.56 3.41 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 3.611433 GCTCAATGTTCGGCATGTC 57.389 52.632 0.00 0.00 37.96 3.06
19 20 0.099436 GCTCAATGTTCGGCATGTCC 59.901 55.000 0.00 0.00 37.96 4.02
20 21 0.734889 CTCAATGTTCGGCATGTCCC 59.265 55.000 0.00 0.00 37.96 4.46
21 22 0.327924 TCAATGTTCGGCATGTCCCT 59.672 50.000 0.00 0.00 37.96 4.20
22 23 1.176527 CAATGTTCGGCATGTCCCTT 58.823 50.000 0.00 0.00 37.96 3.95
23 24 1.133025 CAATGTTCGGCATGTCCCTTC 59.867 52.381 0.00 0.00 37.96 3.46
24 25 0.327924 ATGTTCGGCATGTCCCTTCA 59.672 50.000 0.00 0.00 36.26 3.02
25 26 0.605319 TGTTCGGCATGTCCCTTCAC 60.605 55.000 0.00 0.00 0.00 3.18
26 27 1.375396 TTCGGCATGTCCCTTCACG 60.375 57.895 0.00 0.00 0.00 4.35
27 28 1.822114 TTCGGCATGTCCCTTCACGA 61.822 55.000 0.00 0.00 0.00 4.35
28 29 1.811266 CGGCATGTCCCTTCACGAG 60.811 63.158 0.00 0.00 0.00 4.18
29 30 2.109126 GGCATGTCCCTTCACGAGC 61.109 63.158 0.00 0.00 0.00 5.03
30 31 1.078848 GCATGTCCCTTCACGAGCT 60.079 57.895 0.00 0.00 0.00 4.09
31 32 1.364626 GCATGTCCCTTCACGAGCTG 61.365 60.000 0.00 0.00 0.00 4.24
32 33 0.247460 CATGTCCCTTCACGAGCTGA 59.753 55.000 0.00 0.00 0.00 4.26
33 34 0.534412 ATGTCCCTTCACGAGCTGAG 59.466 55.000 0.00 0.00 0.00 3.35
34 35 0.539669 TGTCCCTTCACGAGCTGAGA 60.540 55.000 0.00 0.00 0.00 3.27
35 36 0.603569 GTCCCTTCACGAGCTGAGAA 59.396 55.000 0.00 0.00 0.00 2.87
36 37 0.603569 TCCCTTCACGAGCTGAGAAC 59.396 55.000 0.00 0.00 0.00 3.01
37 38 0.605589 CCCTTCACGAGCTGAGAACT 59.394 55.000 0.00 0.00 0.00 3.01
38 39 1.001406 CCCTTCACGAGCTGAGAACTT 59.999 52.381 0.00 0.00 0.00 2.66
39 40 2.548920 CCCTTCACGAGCTGAGAACTTT 60.549 50.000 0.00 0.00 0.00 2.66
40 41 2.734079 CCTTCACGAGCTGAGAACTTTC 59.266 50.000 0.00 0.00 0.00 2.62
41 42 2.440539 TCACGAGCTGAGAACTTTCC 57.559 50.000 0.00 0.00 0.00 3.13
42 43 1.686587 TCACGAGCTGAGAACTTTCCA 59.313 47.619 0.00 0.00 0.00 3.53
43 44 2.102420 TCACGAGCTGAGAACTTTCCAA 59.898 45.455 0.00 0.00 0.00 3.53
44 45 2.872245 CACGAGCTGAGAACTTTCCAAA 59.128 45.455 0.00 0.00 0.00 3.28
45 46 3.059325 CACGAGCTGAGAACTTTCCAAAG 60.059 47.826 0.00 0.00 41.73 2.77
46 47 2.096019 CGAGCTGAGAACTTTCCAAAGC 60.096 50.000 0.00 0.00 39.63 3.51
47 48 3.145286 GAGCTGAGAACTTTCCAAAGCT 58.855 45.455 0.00 9.31 39.17 3.74
48 49 2.883386 AGCTGAGAACTTTCCAAAGCTG 59.117 45.455 8.92 0.00 39.63 4.24
49 50 2.606551 GCTGAGAACTTTCCAAAGCTGC 60.607 50.000 0.00 0.00 39.63 5.25
50 51 2.620115 CTGAGAACTTTCCAAAGCTGCA 59.380 45.455 1.02 0.00 39.63 4.41
51 52 3.023119 TGAGAACTTTCCAAAGCTGCAA 58.977 40.909 1.02 0.00 39.63 4.08
52 53 3.446873 TGAGAACTTTCCAAAGCTGCAAA 59.553 39.130 1.02 0.00 39.63 3.68
53 54 4.081752 TGAGAACTTTCCAAAGCTGCAAAA 60.082 37.500 1.02 0.00 39.63 2.44
54 55 4.831107 AGAACTTTCCAAAGCTGCAAAAA 58.169 34.783 1.02 0.00 39.63 1.94
55 56 4.872124 AGAACTTTCCAAAGCTGCAAAAAG 59.128 37.500 1.02 6.56 39.63 2.27
56 57 3.534554 ACTTTCCAAAGCTGCAAAAAGG 58.465 40.909 1.02 0.00 39.63 3.11
57 58 3.197549 ACTTTCCAAAGCTGCAAAAAGGA 59.802 39.130 1.02 0.00 39.63 3.36
58 59 3.457610 TTCCAAAGCTGCAAAAAGGAG 57.542 42.857 1.02 0.00 38.96 3.69
59 60 2.665165 TCCAAAGCTGCAAAAAGGAGA 58.335 42.857 1.02 0.00 38.04 3.71
60 61 3.233507 TCCAAAGCTGCAAAAAGGAGAT 58.766 40.909 1.02 0.00 38.04 2.75
61 62 3.006110 TCCAAAGCTGCAAAAAGGAGATG 59.994 43.478 1.02 0.00 38.04 2.90
62 63 3.006110 CCAAAGCTGCAAAAAGGAGATGA 59.994 43.478 1.02 0.00 38.04 2.92
63 64 4.501915 CCAAAGCTGCAAAAAGGAGATGAA 60.502 41.667 1.02 0.00 38.04 2.57
64 65 5.235516 CAAAGCTGCAAAAAGGAGATGAAT 58.764 37.500 1.02 0.00 38.04 2.57
65 66 5.479124 AAGCTGCAAAAAGGAGATGAATT 57.521 34.783 1.02 0.00 38.04 2.17
66 67 5.479124 AGCTGCAAAAAGGAGATGAATTT 57.521 34.783 1.02 0.00 38.04 1.82
67 68 6.594788 AGCTGCAAAAAGGAGATGAATTTA 57.405 33.333 1.02 0.00 38.04 1.40
68 69 7.179076 AGCTGCAAAAAGGAGATGAATTTAT 57.821 32.000 1.02 0.00 38.04 1.40
69 70 7.618137 AGCTGCAAAAAGGAGATGAATTTATT 58.382 30.769 1.02 0.00 38.04 1.40
70 71 8.752187 AGCTGCAAAAAGGAGATGAATTTATTA 58.248 29.630 1.02 0.00 38.04 0.98
71 72 9.369904 GCTGCAAAAAGGAGATGAATTTATTAA 57.630 29.630 0.00 0.00 38.04 1.40
84 85 9.869844 GATGAATTTATTAAGAATGTCAGTCGG 57.130 33.333 0.00 0.00 0.00 4.79
85 86 9.613428 ATGAATTTATTAAGAATGTCAGTCGGA 57.387 29.630 0.00 0.00 0.00 4.55
86 87 9.613428 TGAATTTATTAAGAATGTCAGTCGGAT 57.387 29.630 0.00 0.00 0.00 4.18
87 88 9.869844 GAATTTATTAAGAATGTCAGTCGGATG 57.130 33.333 0.00 0.00 0.00 3.51
88 89 9.613428 AATTTATTAAGAATGTCAGTCGGATGA 57.387 29.630 0.00 0.00 0.00 2.92
89 90 9.784531 ATTTATTAAGAATGTCAGTCGGATGAT 57.215 29.630 0.00 0.00 0.00 2.45
90 91 8.593492 TTATTAAGAATGTCAGTCGGATGATG 57.407 34.615 0.00 0.00 0.00 3.07
91 92 4.743057 AAGAATGTCAGTCGGATGATGA 57.257 40.909 0.00 0.00 0.00 2.92
92 93 4.743057 AGAATGTCAGTCGGATGATGAA 57.257 40.909 0.00 0.00 0.00 2.57
93 94 5.089970 AGAATGTCAGTCGGATGATGAAA 57.910 39.130 0.00 0.00 0.00 2.69
94 95 5.491070 AGAATGTCAGTCGGATGATGAAAA 58.509 37.500 0.00 0.00 0.00 2.29
95 96 5.352569 AGAATGTCAGTCGGATGATGAAAAC 59.647 40.000 0.00 0.00 0.00 2.43
96 97 4.001618 TGTCAGTCGGATGATGAAAACA 57.998 40.909 0.00 0.00 0.00 2.83
97 98 4.384940 TGTCAGTCGGATGATGAAAACAA 58.615 39.130 0.00 0.00 0.00 2.83
98 99 5.003160 TGTCAGTCGGATGATGAAAACAAT 58.997 37.500 0.00 0.00 0.00 2.71
99 100 5.122239 TGTCAGTCGGATGATGAAAACAATC 59.878 40.000 0.00 0.00 0.00 2.67
100 101 5.352569 GTCAGTCGGATGATGAAAACAATCT 59.647 40.000 0.00 0.00 0.00 2.40
101 102 5.582269 TCAGTCGGATGATGAAAACAATCTC 59.418 40.000 0.00 0.00 0.00 2.75
102 103 5.583854 CAGTCGGATGATGAAAACAATCTCT 59.416 40.000 0.00 0.00 0.00 3.10
103 104 5.814705 AGTCGGATGATGAAAACAATCTCTC 59.185 40.000 0.00 0.00 0.00 3.20
104 105 5.582269 GTCGGATGATGAAAACAATCTCTCA 59.418 40.000 0.00 0.00 0.00 3.27
105 106 6.092670 GTCGGATGATGAAAACAATCTCTCAA 59.907 38.462 0.00 0.00 0.00 3.02
106 107 6.654582 TCGGATGATGAAAACAATCTCTCAAA 59.345 34.615 0.00 0.00 0.00 2.69
107 108 7.337689 TCGGATGATGAAAACAATCTCTCAAAT 59.662 33.333 0.00 0.00 0.00 2.32
108 109 8.615211 CGGATGATGAAAACAATCTCTCAAATA 58.385 33.333 0.00 0.00 0.00 1.40
112 113 8.246180 TGATGAAAACAATCTCTCAAATAAGGC 58.754 33.333 0.00 0.00 0.00 4.35
113 114 7.765695 TGAAAACAATCTCTCAAATAAGGCT 57.234 32.000 0.00 0.00 0.00 4.58
114 115 8.181904 TGAAAACAATCTCTCAAATAAGGCTT 57.818 30.769 4.58 4.58 0.00 4.35
115 116 8.641541 TGAAAACAATCTCTCAAATAAGGCTTT 58.358 29.630 4.45 0.00 0.00 3.51
116 117 8.822652 AAAACAATCTCTCAAATAAGGCTTTG 57.177 30.769 4.45 0.00 37.44 2.77
117 118 7.530426 AACAATCTCTCAAATAAGGCTTTGT 57.470 32.000 4.45 0.00 37.39 2.83
118 119 7.530426 ACAATCTCTCAAATAAGGCTTTGTT 57.470 32.000 4.45 0.00 37.39 2.83
119 120 7.955918 ACAATCTCTCAAATAAGGCTTTGTTT 58.044 30.769 4.45 4.76 37.39 2.83
120 121 8.084684 ACAATCTCTCAAATAAGGCTTTGTTTC 58.915 33.333 4.45 0.00 37.39 2.78
121 122 8.302438 CAATCTCTCAAATAAGGCTTTGTTTCT 58.698 33.333 4.45 0.00 37.39 2.52
122 123 9.520515 AATCTCTCAAATAAGGCTTTGTTTCTA 57.479 29.630 4.45 0.00 37.39 2.10
123 124 8.553459 TCTCTCAAATAAGGCTTTGTTTCTAG 57.447 34.615 4.45 7.49 37.39 2.43
124 125 8.375506 TCTCTCAAATAAGGCTTTGTTTCTAGA 58.624 33.333 4.45 10.79 37.39 2.43
134 135 4.259850 GCTTTGTTTCTAGACGCTAATCCG 60.260 45.833 0.00 0.00 0.00 4.18
135 136 3.431922 TGTTTCTAGACGCTAATCCGG 57.568 47.619 0.00 0.00 0.00 5.14
180 181 3.548415 GGAATACTACTCAACTCCGAGCG 60.548 52.174 0.00 0.00 36.42 5.03
181 182 0.731417 TACTACTCAACTCCGAGCGC 59.269 55.000 0.00 0.00 36.42 5.92
187 188 4.742201 AACTCCGAGCGCGCACAT 62.742 61.111 35.10 13.58 35.83 3.21
192 193 2.023771 CCGAGCGCGCACATGATAT 61.024 57.895 35.10 9.89 35.83 1.63
213 214 2.202676 GGAGAACTCGCCTCGCAG 60.203 66.667 0.00 0.00 32.72 5.18
232 233 1.676967 GCCAAAGACTGCAGGGGAG 60.677 63.158 19.93 3.58 0.00 4.30
263 264 1.866483 ATCACAGGCCCTGGCATTGA 61.866 55.000 16.70 9.98 44.11 2.57
277 278 1.017387 CATTGAAGGCTAGTTCGGGC 58.983 55.000 0.00 0.00 0.00 6.13
279 280 2.202892 GAAGGCTAGTTCGGGCGG 60.203 66.667 0.00 0.00 0.00 6.13
280 281 4.468689 AAGGCTAGTTCGGGCGGC 62.469 66.667 0.00 0.00 0.00 6.53
282 283 3.534056 GGCTAGTTCGGGCGGCTA 61.534 66.667 9.56 0.00 0.00 3.93
284 285 1.069258 GCTAGTTCGGGCGGCTATT 59.931 57.895 9.56 0.00 0.00 1.73
285 286 1.222115 GCTAGTTCGGGCGGCTATTG 61.222 60.000 9.56 0.00 0.00 1.90
286 287 0.387929 CTAGTTCGGGCGGCTATTGA 59.612 55.000 9.56 0.00 0.00 2.57
289 290 3.101796 TTCGGGCGGCTATTGAGGG 62.102 63.158 9.56 0.00 0.00 4.30
290 291 3.546543 CGGGCGGCTATTGAGGGA 61.547 66.667 9.56 0.00 0.00 4.20
433 449 6.092807 AGTCAAGATTTAGCGTGATCTTTTCC 59.907 38.462 8.23 2.16 39.83 3.13
458 475 3.478857 TTGTAACCGACCATGTGAACT 57.521 42.857 0.00 0.00 0.00 3.01
466 483 2.028476 CGACCATGTGAACTCTAACCCA 60.028 50.000 0.00 0.00 0.00 4.51
471 493 3.695830 TGTGAACTCTAACCCATGTCC 57.304 47.619 0.00 0.00 0.00 4.02
525 548 1.684983 GAGCAACATCCAATCCCCATG 59.315 52.381 0.00 0.00 0.00 3.66
611 634 5.350365 TCAAATACAATGAAGCAGGACGTAC 59.650 40.000 0.00 0.00 0.00 3.67
613 636 1.271379 ACAATGAAGCAGGACGTACGA 59.729 47.619 24.41 0.00 0.00 3.43
616 639 2.273370 TGAAGCAGGACGTACGATTC 57.727 50.000 24.41 9.98 0.00 2.52
771 795 0.532573 GAGAGTTCCACTGCGGATCA 59.467 55.000 0.00 0.00 45.80 2.92
808 832 3.886123 CCCAACTATTCGATGGAAACCT 58.114 45.455 3.51 0.00 37.76 3.50
865 889 1.225376 TTCACGTTCGGTGGCATCAC 61.225 55.000 0.00 0.00 46.96 3.06
954 981 0.179134 CGGAACTTAGAGTCCAGCGG 60.179 60.000 7.31 0.00 0.00 5.52
985 1013 0.250513 AAAGCCTTGCTCCCGTAGAG 59.749 55.000 0.00 0.00 46.29 2.43
1006 1034 2.501610 GCTACCCCTGCGGAAGAG 59.498 66.667 0.00 0.00 34.64 2.85
1008 1036 2.038975 TACCCCTGCGGAAGAGCT 59.961 61.111 0.00 0.00 38.13 4.09
1053 1081 0.036388 GATTCAGTGGGCACGAAGGA 60.036 55.000 0.00 0.00 36.20 3.36
1076 1105 2.587522 CTGACACTATCCGGGATCTGA 58.412 52.381 13.97 0.00 0.00 3.27
1100 1129 0.179045 AAAGCCGGATCCCATCGAAG 60.179 55.000 5.05 0.00 0.00 3.79
1104 1133 1.329256 CCGGATCCCATCGAAGTACT 58.671 55.000 6.06 0.00 0.00 2.73
1113 1142 4.282449 TCCCATCGAAGTACTCAAAGAACA 59.718 41.667 0.00 0.00 0.00 3.18
1124 1153 1.094785 CAAAGAACATCCCGCCGAAT 58.905 50.000 0.00 0.00 0.00 3.34
1129 1158 0.036306 AACATCCCGCCGAATATCCC 59.964 55.000 0.00 0.00 0.00 3.85
1227 1256 3.306379 GCCTACGGCCTACAACCT 58.694 61.111 0.00 0.00 44.06 3.50
1240 1269 2.403252 ACAACCTGATCGGGCTTAAG 57.597 50.000 21.17 8.44 36.97 1.85
1268 1298 3.256704 ACAGAGAGACCCACCCATTTTA 58.743 45.455 0.00 0.00 0.00 1.52
1271 1301 3.519913 AGAGAGACCCACCCATTTTACTC 59.480 47.826 0.00 0.00 0.00 2.59
1280 1310 4.107622 CACCCATTTTACTCCGTACGTAG 58.892 47.826 15.21 10.76 0.00 3.51
1282 1312 4.947388 ACCCATTTTACTCCGTACGTAGTA 59.053 41.667 15.76 15.76 45.11 1.82
1335 1368 7.094075 TGTTTAGCCGAGAGAGTAACAGATAAA 60.094 37.037 0.00 0.00 0.00 1.40
1336 1369 5.251601 AGCCGAGAGAGTAACAGATAAAC 57.748 43.478 0.00 0.00 0.00 2.01
1344 1377 6.095160 AGAGAGTAACAGATAAACCGTCGAAT 59.905 38.462 0.00 0.00 0.00 3.34
1377 1410 9.555411 TTATATACTTATTGATCTACTGCCCCA 57.445 33.333 0.00 0.00 0.00 4.96
1379 1412 5.450818 ACTTATTGATCTACTGCCCCAAA 57.549 39.130 0.00 0.00 0.00 3.28
1476 1514 0.826715 TGCCATCTCTTCTCTTCCGG 59.173 55.000 0.00 0.00 0.00 5.14
2019 2066 2.665185 GTCTGCGCCGTGGAGTTT 60.665 61.111 4.18 0.00 37.31 2.66
2196 2249 2.584608 CCTCGGTGTCCCCATGTC 59.415 66.667 0.00 0.00 0.00 3.06
2421 2503 2.156917 TGCTTTCGAACCGTAGAGAGA 58.843 47.619 0.00 0.00 0.00 3.10
2454 2538 4.889409 ACCTTTTCTCTTTGTGATTGAGCA 59.111 37.500 0.00 0.00 0.00 4.26
2457 2541 5.679734 TTTCTCTTTGTGATTGAGCAGAC 57.320 39.130 0.00 0.00 0.00 3.51
2499 2583 0.246086 ATTTTCACGTACGCCGGGTA 59.754 50.000 16.72 0.39 41.99 3.69
2544 2628 1.276421 ACACAGATACTCGGCAAAGCT 59.724 47.619 0.00 0.00 0.00 3.74
2545 2629 2.289694 ACACAGATACTCGGCAAAGCTT 60.290 45.455 0.00 0.00 0.00 3.74
2567 2651 0.750249 TTTGCCGAGTGTCACTCTCA 59.250 50.000 26.46 20.93 42.92 3.27
2578 2662 1.131638 TCACTCTCAGCAAACCCACT 58.868 50.000 0.00 0.00 0.00 4.00
2602 2686 2.612212 CACGGCAAACTACACTCTTTGT 59.388 45.455 0.00 0.00 42.84 2.83
2732 2816 5.770417 CTCCGTCAGTTACTGTCTACTTTT 58.230 41.667 12.41 0.00 32.61 2.27
2733 2817 6.152932 TCCGTCAGTTACTGTCTACTTTTT 57.847 37.500 12.41 0.00 32.61 1.94
2804 2897 4.335315 GTGTTCTTTCCAAGTGACATGTGA 59.665 41.667 1.15 0.00 31.91 3.58
2856 2951 0.598680 ACGATATGCTTGCCGAGAGC 60.599 55.000 0.00 0.00 44.14 4.09
2888 2983 1.361204 TCCTTCATGGGAGCTGACAA 58.639 50.000 0.00 0.00 36.20 3.18
2896 2991 4.641541 TCATGGGAGCTGACAATTTACATG 59.358 41.667 0.00 0.00 35.70 3.21
2914 3009 1.219393 GGCTTTGCCGAGAGCTAGT 59.781 57.895 0.00 0.00 44.23 2.57
3002 3097 2.128035 CAGACGACCATATTTCCGAGC 58.872 52.381 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.099436 GGACATGCCGAACATTGAGC 59.901 55.000 0.00 0.00 36.64 4.26
1 2 0.734889 GGGACATGCCGAACATTGAG 59.265 55.000 0.00 0.00 36.64 3.02
4 5 1.271871 TGAAGGGACATGCCGAACATT 60.272 47.619 0.00 0.00 36.64 2.71
5 6 0.327924 TGAAGGGACATGCCGAACAT 59.672 50.000 0.00 0.00 40.66 2.71
6 7 0.605319 GTGAAGGGACATGCCGAACA 60.605 55.000 0.00 0.00 37.63 3.18
7 8 1.635663 CGTGAAGGGACATGCCGAAC 61.636 60.000 0.00 0.00 37.63 3.95
8 9 1.375396 CGTGAAGGGACATGCCGAA 60.375 57.895 0.00 0.00 37.63 4.30
9 10 2.225791 CTCGTGAAGGGACATGCCGA 62.226 60.000 0.00 0.00 37.63 5.54
10 11 1.811266 CTCGTGAAGGGACATGCCG 60.811 63.158 0.00 0.00 37.63 5.69
11 12 2.109126 GCTCGTGAAGGGACATGCC 61.109 63.158 0.00 0.00 0.00 4.40
12 13 1.078848 AGCTCGTGAAGGGACATGC 60.079 57.895 0.00 0.00 0.00 4.06
13 14 0.247460 TCAGCTCGTGAAGGGACATG 59.753 55.000 0.00 0.00 29.64 3.21
14 15 0.534412 CTCAGCTCGTGAAGGGACAT 59.466 55.000 0.00 0.00 33.60 3.06
15 16 0.539669 TCTCAGCTCGTGAAGGGACA 60.540 55.000 0.00 0.00 33.60 4.02
16 17 0.603569 TTCTCAGCTCGTGAAGGGAC 59.396 55.000 0.00 0.00 33.60 4.46
17 18 0.603569 GTTCTCAGCTCGTGAAGGGA 59.396 55.000 0.00 0.00 33.60 4.20
18 19 0.605589 AGTTCTCAGCTCGTGAAGGG 59.394 55.000 0.00 0.00 33.60 3.95
19 20 2.447244 AAGTTCTCAGCTCGTGAAGG 57.553 50.000 0.00 0.00 33.60 3.46
20 21 2.734079 GGAAAGTTCTCAGCTCGTGAAG 59.266 50.000 0.00 0.00 33.60 3.02
21 22 2.102420 TGGAAAGTTCTCAGCTCGTGAA 59.898 45.455 0.00 0.00 33.60 3.18
22 23 1.686587 TGGAAAGTTCTCAGCTCGTGA 59.313 47.619 0.00 0.00 0.00 4.35
23 24 2.154854 TGGAAAGTTCTCAGCTCGTG 57.845 50.000 0.00 0.00 0.00 4.35
24 25 2.910688 TTGGAAAGTTCTCAGCTCGT 57.089 45.000 0.00 0.00 0.00 4.18
25 26 2.096019 GCTTTGGAAAGTTCTCAGCTCG 60.096 50.000 1.27 0.00 38.28 5.03
26 27 3.058363 CAGCTTTGGAAAGTTCTCAGCTC 60.058 47.826 8.36 0.00 38.28 4.09
27 28 2.883386 CAGCTTTGGAAAGTTCTCAGCT 59.117 45.455 1.27 6.43 38.28 4.24
28 29 2.606551 GCAGCTTTGGAAAGTTCTCAGC 60.607 50.000 1.27 0.00 38.28 4.26
29 30 2.620115 TGCAGCTTTGGAAAGTTCTCAG 59.380 45.455 0.00 0.00 38.28 3.35
30 31 2.653726 TGCAGCTTTGGAAAGTTCTCA 58.346 42.857 0.00 0.00 38.28 3.27
31 32 3.715628 TTGCAGCTTTGGAAAGTTCTC 57.284 42.857 0.00 0.00 38.28 2.87
32 33 4.470334 TTTTGCAGCTTTGGAAAGTTCT 57.530 36.364 0.00 0.00 38.28 3.01
33 34 4.034394 CCTTTTTGCAGCTTTGGAAAGTTC 59.966 41.667 0.00 0.00 38.28 3.01
34 35 3.940852 CCTTTTTGCAGCTTTGGAAAGTT 59.059 39.130 0.00 0.00 38.28 2.66
35 36 3.197549 TCCTTTTTGCAGCTTTGGAAAGT 59.802 39.130 0.00 0.00 38.28 2.66
36 37 3.795877 TCCTTTTTGCAGCTTTGGAAAG 58.204 40.909 0.00 0.00 39.03 2.62
37 38 3.450457 TCTCCTTTTTGCAGCTTTGGAAA 59.550 39.130 0.00 0.00 0.00 3.13
38 39 3.030291 TCTCCTTTTTGCAGCTTTGGAA 58.970 40.909 0.00 0.00 0.00 3.53
39 40 2.665165 TCTCCTTTTTGCAGCTTTGGA 58.335 42.857 0.00 0.00 0.00 3.53
40 41 3.006110 TCATCTCCTTTTTGCAGCTTTGG 59.994 43.478 0.00 0.00 0.00 3.28
41 42 4.247267 TCATCTCCTTTTTGCAGCTTTG 57.753 40.909 0.00 0.00 0.00 2.77
42 43 4.942761 TTCATCTCCTTTTTGCAGCTTT 57.057 36.364 0.00 0.00 0.00 3.51
43 44 5.479124 AATTCATCTCCTTTTTGCAGCTT 57.521 34.783 0.00 0.00 0.00 3.74
44 45 5.479124 AAATTCATCTCCTTTTTGCAGCT 57.521 34.783 0.00 0.00 0.00 4.24
45 46 7.838771 AATAAATTCATCTCCTTTTTGCAGC 57.161 32.000 0.00 0.00 0.00 5.25
58 59 9.869844 CCGACTGACATTCTTAATAAATTCATC 57.130 33.333 0.00 0.00 0.00 2.92
59 60 9.613428 TCCGACTGACATTCTTAATAAATTCAT 57.387 29.630 0.00 0.00 0.00 2.57
60 61 9.613428 ATCCGACTGACATTCTTAATAAATTCA 57.387 29.630 0.00 0.00 0.00 2.57
61 62 9.869844 CATCCGACTGACATTCTTAATAAATTC 57.130 33.333 0.00 0.00 0.00 2.17
62 63 9.613428 TCATCCGACTGACATTCTTAATAAATT 57.387 29.630 0.00 0.00 0.00 1.82
63 64 9.784531 ATCATCCGACTGACATTCTTAATAAAT 57.215 29.630 0.00 0.00 0.00 1.40
64 65 9.045223 CATCATCCGACTGACATTCTTAATAAA 57.955 33.333 0.00 0.00 0.00 1.40
65 66 8.421002 TCATCATCCGACTGACATTCTTAATAA 58.579 33.333 0.00 0.00 0.00 1.40
66 67 7.951591 TCATCATCCGACTGACATTCTTAATA 58.048 34.615 0.00 0.00 0.00 0.98
67 68 6.820335 TCATCATCCGACTGACATTCTTAAT 58.180 36.000 0.00 0.00 0.00 1.40
68 69 6.220726 TCATCATCCGACTGACATTCTTAA 57.779 37.500 0.00 0.00 0.00 1.85
69 70 5.852282 TCATCATCCGACTGACATTCTTA 57.148 39.130 0.00 0.00 0.00 2.10
70 71 4.743057 TCATCATCCGACTGACATTCTT 57.257 40.909 0.00 0.00 0.00 2.52
71 72 4.743057 TTCATCATCCGACTGACATTCT 57.257 40.909 0.00 0.00 0.00 2.40
72 73 5.122239 TGTTTTCATCATCCGACTGACATTC 59.878 40.000 0.00 0.00 0.00 2.67
73 74 5.003160 TGTTTTCATCATCCGACTGACATT 58.997 37.500 0.00 0.00 0.00 2.71
74 75 4.578871 TGTTTTCATCATCCGACTGACAT 58.421 39.130 0.00 0.00 0.00 3.06
75 76 4.001618 TGTTTTCATCATCCGACTGACA 57.998 40.909 0.00 0.00 0.00 3.58
76 77 5.352569 AGATTGTTTTCATCATCCGACTGAC 59.647 40.000 0.00 0.00 0.00 3.51
77 78 5.491070 AGATTGTTTTCATCATCCGACTGA 58.509 37.500 0.00 0.00 0.00 3.41
78 79 5.583854 AGAGATTGTTTTCATCATCCGACTG 59.416 40.000 0.00 0.00 0.00 3.51
79 80 5.738909 AGAGATTGTTTTCATCATCCGACT 58.261 37.500 0.00 0.00 0.00 4.18
80 81 5.582269 TGAGAGATTGTTTTCATCATCCGAC 59.418 40.000 0.00 0.00 0.00 4.79
81 82 5.733676 TGAGAGATTGTTTTCATCATCCGA 58.266 37.500 0.00 0.00 0.00 4.55
82 83 6.426980 TTGAGAGATTGTTTTCATCATCCG 57.573 37.500 0.00 0.00 0.00 4.18
86 87 8.246180 GCCTTATTTGAGAGATTGTTTTCATCA 58.754 33.333 0.00 0.00 0.00 3.07
87 88 8.465201 AGCCTTATTTGAGAGATTGTTTTCATC 58.535 33.333 0.00 0.00 0.00 2.92
88 89 8.358582 AGCCTTATTTGAGAGATTGTTTTCAT 57.641 30.769 0.00 0.00 0.00 2.57
89 90 7.765695 AGCCTTATTTGAGAGATTGTTTTCA 57.234 32.000 0.00 0.00 0.00 2.69
90 91 8.919661 CAAAGCCTTATTTGAGAGATTGTTTTC 58.080 33.333 0.00 0.00 41.71 2.29
91 92 8.424133 ACAAAGCCTTATTTGAGAGATTGTTTT 58.576 29.630 6.22 0.00 41.71 2.43
92 93 7.955918 ACAAAGCCTTATTTGAGAGATTGTTT 58.044 30.769 6.22 0.00 41.71 2.83
93 94 7.530426 ACAAAGCCTTATTTGAGAGATTGTT 57.470 32.000 6.22 0.00 41.71 2.83
94 95 7.530426 AACAAAGCCTTATTTGAGAGATTGT 57.470 32.000 6.22 0.00 41.71 2.71
95 96 8.302438 AGAAACAAAGCCTTATTTGAGAGATTG 58.698 33.333 6.22 0.00 41.71 2.67
96 97 8.414629 AGAAACAAAGCCTTATTTGAGAGATT 57.585 30.769 6.22 0.00 41.71 2.40
97 98 9.171877 CTAGAAACAAAGCCTTATTTGAGAGAT 57.828 33.333 6.22 0.00 41.71 2.75
98 99 8.375506 TCTAGAAACAAAGCCTTATTTGAGAGA 58.624 33.333 6.22 0.00 41.71 3.10
99 100 8.447053 GTCTAGAAACAAAGCCTTATTTGAGAG 58.553 37.037 6.22 0.00 41.71 3.20
100 101 7.117812 CGTCTAGAAACAAAGCCTTATTTGAGA 59.882 37.037 6.22 0.00 41.71 3.27
101 102 7.237173 CGTCTAGAAACAAAGCCTTATTTGAG 58.763 38.462 6.22 0.00 41.71 3.02
102 103 6.348213 GCGTCTAGAAACAAAGCCTTATTTGA 60.348 38.462 6.22 0.00 41.71 2.69
103 104 5.795441 GCGTCTAGAAACAAAGCCTTATTTG 59.205 40.000 0.00 0.00 44.14 2.32
104 105 5.705905 AGCGTCTAGAAACAAAGCCTTATTT 59.294 36.000 0.00 0.00 0.00 1.40
105 106 5.246307 AGCGTCTAGAAACAAAGCCTTATT 58.754 37.500 0.00 0.00 0.00 1.40
106 107 4.833390 AGCGTCTAGAAACAAAGCCTTAT 58.167 39.130 0.00 0.00 0.00 1.73
107 108 4.267349 AGCGTCTAGAAACAAAGCCTTA 57.733 40.909 0.00 0.00 0.00 2.69
108 109 3.127425 AGCGTCTAGAAACAAAGCCTT 57.873 42.857 0.00 0.00 0.00 4.35
109 110 2.841442 AGCGTCTAGAAACAAAGCCT 57.159 45.000 0.00 0.00 0.00 4.58
110 111 4.034163 GGATTAGCGTCTAGAAACAAAGCC 59.966 45.833 0.00 0.00 0.00 4.35
111 112 4.259850 CGGATTAGCGTCTAGAAACAAAGC 60.260 45.833 0.00 0.00 0.00 3.51
112 113 4.267928 CCGGATTAGCGTCTAGAAACAAAG 59.732 45.833 0.00 0.00 0.00 2.77
113 114 4.082081 TCCGGATTAGCGTCTAGAAACAAA 60.082 41.667 0.00 0.00 0.00 2.83
114 115 3.444742 TCCGGATTAGCGTCTAGAAACAA 59.555 43.478 0.00 0.00 0.00 2.83
115 116 3.018856 TCCGGATTAGCGTCTAGAAACA 58.981 45.455 0.00 0.00 0.00 2.83
116 117 3.705043 TCCGGATTAGCGTCTAGAAAC 57.295 47.619 0.00 0.00 0.00 2.78
117 118 4.261909 GGAATCCGGATTAGCGTCTAGAAA 60.262 45.833 29.28 0.00 0.00 2.52
118 119 3.255149 GGAATCCGGATTAGCGTCTAGAA 59.745 47.826 29.28 0.00 0.00 2.10
119 120 2.818432 GGAATCCGGATTAGCGTCTAGA 59.182 50.000 29.28 0.00 0.00 2.43
120 121 2.414293 CGGAATCCGGATTAGCGTCTAG 60.414 54.545 29.28 11.21 44.15 2.43
121 122 1.538512 CGGAATCCGGATTAGCGTCTA 59.461 52.381 29.28 0.00 44.15 2.59
122 123 0.314302 CGGAATCCGGATTAGCGTCT 59.686 55.000 29.28 5.89 44.15 4.18
123 124 2.810486 CGGAATCCGGATTAGCGTC 58.190 57.895 29.28 16.49 44.15 5.19
134 135 3.869065 TGCCGAATATTATCCGGAATCC 58.131 45.455 9.01 0.00 45.58 3.01
135 136 4.332819 CCTTGCCGAATATTATCCGGAATC 59.667 45.833 9.01 0.00 45.58 2.52
141 142 6.415573 AGTATTCCCTTGCCGAATATTATCC 58.584 40.000 0.00 0.00 35.30 2.59
180 181 2.691927 TCTCCATCATATCATGTGCGC 58.308 47.619 0.00 0.00 0.00 6.09
181 182 4.313282 AGTTCTCCATCATATCATGTGCG 58.687 43.478 0.00 0.00 0.00 5.34
187 188 3.234353 AGGCGAGTTCTCCATCATATCA 58.766 45.455 0.00 0.00 0.00 2.15
188 189 3.671971 CGAGGCGAGTTCTCCATCATATC 60.672 52.174 0.00 0.00 0.00 1.63
189 190 2.230025 CGAGGCGAGTTCTCCATCATAT 59.770 50.000 0.00 0.00 0.00 1.78
192 193 1.809869 CGAGGCGAGTTCTCCATCA 59.190 57.895 0.00 0.00 0.00 3.07
213 214 2.677875 CCCCTGCAGTCTTTGGCC 60.678 66.667 13.81 0.00 0.00 5.36
240 241 3.402681 CCAGGGCCTGTGATCGGT 61.403 66.667 30.68 0.00 0.00 4.69
263 264 4.468689 GCCGCCCGAACTAGCCTT 62.469 66.667 0.00 0.00 0.00 4.35
277 278 2.827715 AGGACTCCCTCAATAGCCG 58.172 57.895 0.00 0.00 38.86 5.52
433 449 6.148811 AGTTCACATGGTCGGTTACAATAAAG 59.851 38.462 0.00 0.00 0.00 1.85
458 475 5.221762 CCGGTTTATATGGACATGGGTTAGA 60.222 44.000 0.00 0.00 0.00 2.10
466 483 2.039879 GCCCTCCGGTTTATATGGACAT 59.960 50.000 0.00 0.00 0.00 3.06
471 493 4.969484 ACTAAAGCCCTCCGGTTTATATG 58.031 43.478 0.00 0.00 42.10 1.78
525 548 1.472904 GGCGAGCTAAACCCTAGGTTC 60.473 57.143 8.29 0.00 46.20 3.62
598 621 2.563471 AGAATCGTACGTCCTGCTTC 57.437 50.000 16.05 9.54 0.00 3.86
658 681 3.796694 TCAATGGGGAATAGGGGATGAAA 59.203 43.478 0.00 0.00 0.00 2.69
662 685 2.929043 GGATCAATGGGGAATAGGGGAT 59.071 50.000 0.00 0.00 0.00 3.85
771 795 1.227383 GGGCCATCGATCCTTTGGT 59.773 57.895 4.39 0.00 32.90 3.67
865 889 0.946221 GATGAGGTCGGCGCATAAGG 60.946 60.000 10.83 0.00 0.00 2.69
972 1000 2.707849 GCGGACTCTACGGGAGCAA 61.708 63.158 7.44 0.00 45.48 3.91
1053 1081 1.689273 GATCCCGGATAGTGTCAGCTT 59.311 52.381 0.73 0.00 0.00 3.74
1076 1105 1.143073 GATGGGATCCGGCTTTAAGGT 59.857 52.381 5.45 0.00 0.00 3.50
1100 1129 2.007608 GGCGGGATGTTCTTTGAGTAC 58.992 52.381 0.00 0.00 0.00 2.73
1104 1133 0.035598 TTCGGCGGGATGTTCTTTGA 59.964 50.000 7.21 0.00 0.00 2.69
1113 1142 2.656069 CCGGGATATTCGGCGGGAT 61.656 63.158 7.21 4.37 41.07 3.85
1124 1153 3.249189 GGCCATGCCTCCGGGATA 61.249 66.667 0.00 0.00 46.69 2.59
1227 1256 0.901827 TGTCAGCTTAAGCCCGATCA 59.098 50.000 23.71 16.32 43.38 2.92
1240 1269 0.681733 TGGGTCTCTCTGTTGTCAGC 59.318 55.000 0.00 0.00 41.10 4.26
1268 1298 7.786178 TTGTAATACATACTACGTACGGAGT 57.214 36.000 33.89 33.89 42.78 3.85
1296 1326 7.159372 TCTCGGCTAAACAGAAGTCTTTTTAT 58.841 34.615 1.25 0.00 30.54 1.40
1308 1338 4.156190 TCTGTTACTCTCTCGGCTAAACAG 59.844 45.833 6.07 6.07 42.18 3.16
1310 1340 4.698583 TCTGTTACTCTCTCGGCTAAAC 57.301 45.455 0.00 0.00 0.00 2.01
1316 1346 4.096081 ACGGTTTATCTGTTACTCTCTCGG 59.904 45.833 0.00 0.00 30.45 4.63
1317 1347 5.232610 ACGGTTTATCTGTTACTCTCTCG 57.767 43.478 0.00 0.00 30.45 4.04
1359 1392 4.207165 GCTTTGGGGCAGTAGATCAATAA 58.793 43.478 0.00 0.00 0.00 1.40
1360 1393 3.201930 TGCTTTGGGGCAGTAGATCAATA 59.798 43.478 0.00 0.00 37.29 1.90
1366 1399 1.133637 TGTTTGCTTTGGGGCAGTAGA 60.134 47.619 0.00 0.00 43.39 2.59
1377 1410 8.865590 ACTACGAATTTGTTATTGTTTGCTTT 57.134 26.923 3.03 0.00 0.00 3.51
1379 1412 7.742963 CGTACTACGAATTTGTTATTGTTTGCT 59.257 33.333 3.03 0.00 46.05 3.91
1476 1514 1.370900 CAACAAGGCTCGCACAAGC 60.371 57.895 0.00 0.00 41.73 4.01
1913 1957 4.415332 GCTCGAACGGCACCTCGA 62.415 66.667 1.67 1.67 41.54 4.04
2019 2066 1.610673 GAGCCTCACCTGGACCTCA 60.611 63.158 0.00 0.00 0.00 3.86
2189 2242 5.179929 GGAAAAGCAAAAATTCAGACATGGG 59.820 40.000 0.00 0.00 0.00 4.00
2196 2249 3.184986 CGCCAGGAAAAGCAAAAATTCAG 59.815 43.478 0.00 0.00 0.00 3.02
2421 2503 4.684484 AAGAGAAAAGGTAGTTCCACGT 57.316 40.909 0.00 0.00 39.02 4.49
2454 2538 3.578716 AGTAGTGTATGCACCACAAGTCT 59.421 43.478 14.16 8.48 46.35 3.24
2457 2541 3.002791 CCAGTAGTGTATGCACCACAAG 58.997 50.000 14.16 6.63 46.35 3.16
2544 2628 0.463654 AGTGACACTCGGCAAAGCAA 60.464 50.000 1.07 0.00 0.00 3.91
2545 2629 0.880278 GAGTGACACTCGGCAAAGCA 60.880 55.000 19.41 0.00 35.28 3.91
2567 2651 1.734388 GCCGTGAAAGTGGGTTTGCT 61.734 55.000 0.00 0.00 0.00 3.91
2578 2662 3.188159 AGAGTGTAGTTTGCCGTGAAA 57.812 42.857 0.00 0.00 0.00 2.69
2661 2745 0.037232 GGCTACTCTTTGCCGTGAGT 60.037 55.000 7.54 7.54 44.56 3.41
2791 2884 2.745821 CAGTGGGATCACATGTCACTTG 59.254 50.000 12.96 6.92 45.91 3.16
2804 2897 4.228210 ACTGATAAATGTGACCAGTGGGAT 59.772 41.667 15.21 0.00 36.80 3.85
2856 2951 1.884926 GAAGGATTGCCGAGAGCCG 60.885 63.158 0.00 0.00 42.71 5.52
2896 2991 0.808060 GACTAGCTCTCGGCAAAGCC 60.808 60.000 0.00 0.00 46.75 4.35
2914 3009 0.176680 GAAGGAGAGCATTGCCGAGA 59.823 55.000 4.70 0.00 0.00 4.04
3002 3097 0.798771 GCAGACTACCGAGAGCAACG 60.799 60.000 0.00 0.00 0.00 4.10
3066 3161 8.960591 GGGATCAGAAAAGAAATAGATTGACAA 58.039 33.333 0.00 0.00 0.00 3.18


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.