Multiple sequence alignment - TraesCS4D01G333500

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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 TraesCS4D01G333500 chr4D 100.000 3476 0 0 1 3476 490974882 490978357 0.000000e+00 6420.0
1 TraesCS4D01G333500 chr4D 97.361 2956 33 6 564 3476 490331359 490328406 0.000000e+00 4985.0
2 TraesCS4D01G333500 chr4D 92.683 287 20 1 150 435 490331711 490331425 2.500000e-111 412.0
3 TraesCS4D01G333500 chr4D 88.827 179 19 1 2 179 496271980 496272158 5.840000e-53 219.0
4 TraesCS4D01G333500 chr4D 88.953 172 17 2 442 611 447293658 447293829 9.770000e-51 211.0
5 TraesCS4D01G333500 chr4D 95.122 41 2 0 2722 2762 490329243 490329203 8.050000e-07 65.8
6 TraesCS4D01G333500 chr4D 95.122 41 2 0 2722 2762 490977559 490977599 8.050000e-07 65.8
7 TraesCS4D01G333500 chr4D 95.122 41 2 0 2678 2718 490977603 490977643 8.050000e-07 65.8
8 TraesCS4D01G333500 chr5A 94.043 2048 88 23 596 2634 671753997 671751975 0.000000e+00 3075.0
9 TraesCS4D01G333500 chr5A 93.902 2050 89 23 596 2634 671624851 671622827 0.000000e+00 3061.0
10 TraesCS4D01G333500 chr5A 93.845 2047 86 23 596 2634 671821986 671819972 0.000000e+00 3046.0
11 TraesCS4D01G333500 chr5A 86.396 713 89 6 1583 2291 641725397 641726105 0.000000e+00 773.0
12 TraesCS4D01G333500 chr4B 93.969 1857 81 16 631 2480 629963561 629961729 0.000000e+00 2780.0
13 TraesCS4D01G333500 chr5D 86.676 713 87 6 1583 2291 513926335 513927043 0.000000e+00 784.0
14 TraesCS4D01G333500 chr5B 86.536 713 88 7 1583 2291 644874555 644875263 0.000000e+00 778.0
15 TraesCS4D01G333500 chr5B 94.064 219 12 1 180 397 619136417 619136635 7.190000e-87 331.0
16 TraesCS4D01G333500 chr5B 93.607 219 13 1 180 397 619189588 619189806 3.350000e-85 326.0
17 TraesCS4D01G333500 chr5B 92.237 219 16 1 180 397 619069640 619069858 3.370000e-80 309.0
18 TraesCS4D01G333500 chr5B 90.909 220 18 2 180 397 619105570 619105789 9.430000e-76 294.0
19 TraesCS4D01G333500 chr7D 89.498 219 22 1 180 397 49521966 49522184 3.420000e-70 276.0
20 TraesCS4D01G333500 chr7D 88.584 219 24 1 180 397 49472931 49473149 7.400000e-67 265.0
21 TraesCS4D01G333500 chr7D 93.296 179 11 1 2 179 107680103 107679925 2.660000e-66 263.0
22 TraesCS4D01G333500 chr7D 91.250 160 11 3 437 594 620117895 620118053 7.560000e-52 215.0
23 TraesCS4D01G333500 chr6D 89.041 219 23 1 180 397 402894732 402894950 1.590000e-68 270.0
24 TraesCS4D01G333500 chr6D 89.444 180 18 1 1 179 129191263 129191442 3.490000e-55 226.0
25 TraesCS4D01G333500 chr6D 88.827 179 19 1 2 179 332675020 332675198 5.840000e-53 219.0
26 TraesCS4D01G333500 chr6D 87.778 180 21 1 1 179 57016300 57016479 3.520000e-50 209.0
27 TraesCS4D01G333500 chr2A 86.758 219 26 3 180 397 707112486 707112702 1.250000e-59 241.0
28 TraesCS4D01G333500 chr2A 90.000 120 10 2 434 552 615779702 615779820 1.670000e-33 154.0
29 TraesCS4D01G333500 chr3D 90.503 179 16 1 2 179 433111294 433111472 5.800000e-58 235.0
30 TraesCS4D01G333500 chr2B 93.960 149 8 1 447 594 548773755 548773607 1.260000e-54 224.0
31 TraesCS4D01G333500 chr2B 90.741 162 13 2 440 600 401276586 401276426 7.560000e-52 215.0
32 TraesCS4D01G333500 chr2B 87.363 182 22 1 2 182 169498731 169498912 1.260000e-49 207.0
33 TraesCS4D01G333500 chr2D 93.333 150 9 1 447 595 22787405 22787256 1.620000e-53 220.0
34 TraesCS4D01G333500 chr2D 86.145 166 19 4 431 594 595277153 595277316 3.570000e-40 176.0
35 TraesCS4D01G333500 chr6B 90.741 162 13 2 434 594 715627263 715627103 7.560000e-52 215.0
36 TraesCS4D01G333500 chr6B 91.139 158 13 1 437 593 561645366 561645209 2.720000e-51 213.0
37 TraesCS4D01G333500 chr6B 90.625 160 13 2 441 599 145338661 145338503 9.770000e-51 211.0
38 TraesCS4D01G333500 chr6B 86.702 188 22 3 2 187 3292698 3292884 4.550000e-49 206.0
39 TraesCS4D01G333500 chr3B 88.268 179 20 1 2 179 816703862 816703684 2.720000e-51 213.0
40 TraesCS4D01G333500 chr1B 89.820 167 12 5 431 594 1847322 1847486 3.520000e-50 209.0


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 TraesCS4D01G333500 chr4D 490974882 490978357 3475 False 2183.866667 6420 96.748000 1 3476 3 chr4D.!!$F3 3475
1 TraesCS4D01G333500 chr4D 490328406 490331711 3305 True 1820.933333 4985 95.055333 150 3476 3 chr4D.!!$R1 3326
2 TraesCS4D01G333500 chr5A 671751975 671753997 2022 True 3075.000000 3075 94.043000 596 2634 1 chr5A.!!$R2 2038
3 TraesCS4D01G333500 chr5A 671622827 671624851 2024 True 3061.000000 3061 93.902000 596 2634 1 chr5A.!!$R1 2038
4 TraesCS4D01G333500 chr5A 671819972 671821986 2014 True 3046.000000 3046 93.845000 596 2634 1 chr5A.!!$R3 2038
5 TraesCS4D01G333500 chr5A 641725397 641726105 708 False 773.000000 773 86.396000 1583 2291 1 chr5A.!!$F1 708
6 TraesCS4D01G333500 chr4B 629961729 629963561 1832 True 2780.000000 2780 93.969000 631 2480 1 chr4B.!!$R1 1849
7 TraesCS4D01G333500 chr5D 513926335 513927043 708 False 784.000000 784 86.676000 1583 2291 1 chr5D.!!$F1 708
8 TraesCS4D01G333500 chr5B 644874555 644875263 708 False 778.000000 778 86.536000 1583 2291 1 chr5B.!!$F5 708

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
79 80 0.033642 GTAGCCTATTCAGCCGGACC 59.966 60.0 5.05 0.0 0.0 4.46 F
514 516 0.034896 AGAAACTCCGCGAACACCAT 59.965 50.0 8.23 0.0 0.0 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1579 1601 2.731571 GGCCGAGGTCACCTGCATA 61.732 63.158 0.0 0.0 31.76 3.14 R
2639 2667 8.773033 AATACTAAGGGATGCAAAATTGATCT 57.227 30.769 0.0 0.0 0.00 2.75 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
26 27 1.862827 CAAAGACCTTTGCTGCTTTGC 59.137 47.619 9.25 0.00 42.66 3.68
27 28 0.390492 AAGACCTTTGCTGCTTTGCC 59.610 50.000 0.00 0.00 0.00 4.52
28 29 0.756442 AGACCTTTGCTGCTTTGCCA 60.756 50.000 0.00 0.00 0.00 4.92
29 30 0.319405 GACCTTTGCTGCTTTGCCAT 59.681 50.000 0.00 0.00 0.00 4.40
30 31 0.319405 ACCTTTGCTGCTTTGCCATC 59.681 50.000 0.00 0.00 0.00 3.51
31 32 0.390735 CCTTTGCTGCTTTGCCATCC 60.391 55.000 0.00 0.00 0.00 3.51
32 33 0.734942 CTTTGCTGCTTTGCCATCCG 60.735 55.000 0.00 0.00 0.00 4.18
33 34 2.768503 TTTGCTGCTTTGCCATCCGC 62.769 55.000 0.00 0.00 38.31 5.54
34 35 4.503314 GCTGCTTTGCCATCCGCC 62.503 66.667 0.00 0.00 36.24 6.13
35 36 3.063704 CTGCTTTGCCATCCGCCA 61.064 61.111 0.00 0.00 36.24 5.69
36 37 3.060020 CTGCTTTGCCATCCGCCAG 62.060 63.158 0.00 0.00 36.24 4.85
37 38 4.503314 GCTTTGCCATCCGCCAGC 62.503 66.667 0.00 0.00 36.07 4.85
38 39 4.183686 CTTTGCCATCCGCCAGCG 62.184 66.667 4.75 4.75 36.24 5.18
65 66 1.911057 AAGAGGCCTTTGTTGTAGCC 58.089 50.000 6.77 0.00 46.13 3.93
71 72 3.352648 GGCCTTTGTTGTAGCCTATTCA 58.647 45.455 0.00 0.00 42.34 2.57
72 73 3.378427 GGCCTTTGTTGTAGCCTATTCAG 59.622 47.826 0.00 0.00 42.34 3.02
73 74 3.181496 GCCTTTGTTGTAGCCTATTCAGC 60.181 47.826 0.00 0.00 0.00 4.26
74 75 3.378427 CCTTTGTTGTAGCCTATTCAGCC 59.622 47.826 0.00 0.00 0.00 4.85
75 76 2.309528 TGTTGTAGCCTATTCAGCCG 57.690 50.000 0.00 0.00 0.00 5.52
76 77 1.134521 TGTTGTAGCCTATTCAGCCGG 60.135 52.381 0.00 0.00 0.00 6.13
77 78 1.138266 GTTGTAGCCTATTCAGCCGGA 59.862 52.381 5.05 0.00 0.00 5.14
78 79 0.750850 TGTAGCCTATTCAGCCGGAC 59.249 55.000 5.05 0.00 0.00 4.79
79 80 0.033642 GTAGCCTATTCAGCCGGACC 59.966 60.000 5.05 0.00 0.00 4.46
80 81 0.105658 TAGCCTATTCAGCCGGACCT 60.106 55.000 5.05 0.00 0.00 3.85
81 82 0.983378 AGCCTATTCAGCCGGACCTT 60.983 55.000 5.05 0.00 0.00 3.50
82 83 0.107165 GCCTATTCAGCCGGACCTTT 60.107 55.000 5.05 0.00 0.00 3.11
83 84 1.682087 GCCTATTCAGCCGGACCTTTT 60.682 52.381 5.05 0.00 0.00 2.27
84 85 2.017049 CCTATTCAGCCGGACCTTTTG 58.983 52.381 5.05 0.00 0.00 2.44
85 86 2.618045 CCTATTCAGCCGGACCTTTTGT 60.618 50.000 5.05 0.00 0.00 2.83
86 87 1.534729 ATTCAGCCGGACCTTTTGTC 58.465 50.000 5.05 0.00 43.67 3.18
87 88 0.882927 TTCAGCCGGACCTTTTGTCG 60.883 55.000 5.05 0.00 45.46 4.35
88 89 1.597027 CAGCCGGACCTTTTGTCGT 60.597 57.895 5.05 0.00 45.46 4.34
89 90 1.301479 AGCCGGACCTTTTGTCGTC 60.301 57.895 5.05 0.00 45.46 4.20
90 91 1.301479 GCCGGACCTTTTGTCGTCT 60.301 57.895 5.05 0.00 45.46 4.18
91 92 1.566018 GCCGGACCTTTTGTCGTCTG 61.566 60.000 5.05 0.00 45.46 3.51
92 93 1.566018 CCGGACCTTTTGTCGTCTGC 61.566 60.000 0.00 0.00 45.46 4.26
93 94 0.600255 CGGACCTTTTGTCGTCTGCT 60.600 55.000 0.00 0.00 45.46 4.24
94 95 0.868406 GGACCTTTTGTCGTCTGCTG 59.132 55.000 0.00 0.00 45.46 4.41
95 96 0.868406 GACCTTTTGTCGTCTGCTGG 59.132 55.000 0.00 0.00 33.49 4.85
96 97 1.166531 ACCTTTTGTCGTCTGCTGGC 61.167 55.000 0.00 0.00 0.00 4.85
97 98 0.886490 CCTTTTGTCGTCTGCTGGCT 60.886 55.000 0.00 0.00 0.00 4.75
98 99 0.236711 CTTTTGTCGTCTGCTGGCTG 59.763 55.000 0.00 0.00 0.00 4.85
99 100 0.179059 TTTTGTCGTCTGCTGGCTGA 60.179 50.000 0.00 0.00 0.00 4.26
100 101 0.880278 TTTGTCGTCTGCTGGCTGAC 60.880 55.000 18.29 18.29 40.15 3.51
119 120 2.954611 GCAACGGTCTTTGCCTCC 59.045 61.111 1.36 0.00 45.22 4.30
120 121 2.966309 GCAACGGTCTTTGCCTCCG 61.966 63.158 0.00 0.00 45.22 4.63
121 122 2.668550 AACGGTCTTTGCCTCCGC 60.669 61.111 2.72 0.00 46.92 5.54
122 123 4.699522 ACGGTCTTTGCCTCCGCC 62.700 66.667 2.72 0.00 46.92 6.13
123 124 4.697756 CGGTCTTTGCCTCCGCCA 62.698 66.667 0.00 0.00 37.90 5.69
124 125 2.044946 GGTCTTTGCCTCCGCCAT 60.045 61.111 0.00 0.00 0.00 4.40
125 126 2.115291 GGTCTTTGCCTCCGCCATC 61.115 63.158 0.00 0.00 0.00 3.51
126 127 2.115291 GTCTTTGCCTCCGCCATCC 61.115 63.158 0.00 0.00 0.00 3.51
127 128 2.045045 CTTTGCCTCCGCCATCCA 60.045 61.111 0.00 0.00 0.00 3.41
128 129 1.454479 CTTTGCCTCCGCCATCCAT 60.454 57.895 0.00 0.00 0.00 3.41
129 130 1.731433 CTTTGCCTCCGCCATCCATG 61.731 60.000 0.00 0.00 0.00 3.66
130 131 4.881440 TGCCTCCGCCATCCATGC 62.881 66.667 0.00 0.00 0.00 4.06
132 133 3.882326 CCTCCGCCATCCATGCCT 61.882 66.667 0.00 0.00 0.00 4.75
133 134 2.194056 CTCCGCCATCCATGCCTT 59.806 61.111 0.00 0.00 0.00 4.35
134 135 1.454479 CTCCGCCATCCATGCCTTT 60.454 57.895 0.00 0.00 0.00 3.11
135 136 1.731433 CTCCGCCATCCATGCCTTTG 61.731 60.000 0.00 0.00 0.00 2.77
136 137 2.105528 CGCCATCCATGCCTTTGC 59.894 61.111 0.00 0.00 38.26 3.68
137 138 2.420568 CGCCATCCATGCCTTTGCT 61.421 57.895 0.00 0.00 38.71 3.91
138 139 1.143183 GCCATCCATGCCTTTGCTG 59.857 57.895 0.00 0.00 38.71 4.41
139 140 1.610554 GCCATCCATGCCTTTGCTGT 61.611 55.000 0.00 0.00 38.71 4.40
140 141 0.458669 CCATCCATGCCTTTGCTGTC 59.541 55.000 0.00 0.00 38.71 3.51
141 142 1.179152 CATCCATGCCTTTGCTGTCA 58.821 50.000 0.00 0.00 38.71 3.58
142 143 1.546923 CATCCATGCCTTTGCTGTCAA 59.453 47.619 0.00 0.00 38.71 3.18
143 144 0.961019 TCCATGCCTTTGCTGTCAAC 59.039 50.000 0.00 0.00 38.71 3.18
144 145 0.037975 CCATGCCTTTGCTGTCAACC 60.038 55.000 0.00 0.00 38.71 3.77
145 146 0.675083 CATGCCTTTGCTGTCAACCA 59.325 50.000 0.00 0.00 38.71 3.67
146 147 1.274167 CATGCCTTTGCTGTCAACCAT 59.726 47.619 0.00 0.00 38.71 3.55
147 148 0.675083 TGCCTTTGCTGTCAACCATG 59.325 50.000 0.00 0.00 38.71 3.66
148 149 0.668401 GCCTTTGCTGTCAACCATGC 60.668 55.000 0.00 0.00 30.75 4.06
153 154 0.890542 TGCTGTCAACCATGCCTGAC 60.891 55.000 15.09 15.09 41.93 3.51
192 193 0.535335 GTAGTGCATCTCCCAACGGA 59.465 55.000 0.00 0.00 36.45 4.69
218 219 0.250553 CAGTAACCAAACGCTCCCCA 60.251 55.000 0.00 0.00 0.00 4.96
220 221 1.302993 TAACCAAACGCTCCCCAGC 60.303 57.895 0.00 0.00 42.96 4.85
249 250 2.623889 GGAGTGAGTAGCGACCACATAT 59.376 50.000 16.49 1.75 32.33 1.78
251 252 3.288092 AGTGAGTAGCGACCACATATGA 58.712 45.455 10.38 0.00 32.33 2.15
252 253 3.891977 AGTGAGTAGCGACCACATATGAT 59.108 43.478 10.38 0.00 32.33 2.45
263 265 5.505173 ACCACATATGATTAAAGCAGTGC 57.495 39.130 10.38 7.13 0.00 4.40
285 287 4.405680 GCCCCTAAAGATAACCTGCAAAAT 59.594 41.667 0.00 0.00 0.00 1.82
302 304 6.990798 TGCAAAATGTGGATATTTGTCTTCA 58.009 32.000 0.00 0.00 36.63 3.02
304 306 7.546316 TGCAAAATGTGGATATTTGTCTTCATG 59.454 33.333 0.00 0.00 36.63 3.07
331 333 7.585579 AAAAACCAAATCATTCCTGCAATTT 57.414 28.000 0.00 0.00 0.00 1.82
359 361 9.838339 ATATAGCCCATAATAAAGCACATACTC 57.162 33.333 0.00 0.00 0.00 2.59
367 369 2.961526 AAGCACATACTCCTACACGG 57.038 50.000 0.00 0.00 0.00 4.94
378 380 3.050619 CTCCTACACGGATATGTTTCGC 58.949 50.000 0.00 0.00 42.12 4.70
400 402 2.225142 TGTCTCTGCCTCTACTCCTTGT 60.225 50.000 0.00 0.00 0.00 3.16
402 404 2.041755 TCTCTGCCTCTACTCCTTGTGA 59.958 50.000 0.00 0.00 0.00 3.58
416 418 4.984295 TCCTTGTGAGTTGGATGATTTGA 58.016 39.130 0.00 0.00 0.00 2.69
444 446 8.716619 CGAGAAACGTCCATGTAAAAATAAAA 57.283 30.769 0.00 0.00 37.22 1.52
445 447 9.337091 CGAGAAACGTCCATGTAAAAATAAAAT 57.663 29.630 0.00 0.00 37.22 1.82
465 467 9.942850 ATAAAATAAAAATGAGACCAACCCAAG 57.057 29.630 0.00 0.00 0.00 3.61
466 468 6.358974 AATAAAAATGAGACCAACCCAAGG 57.641 37.500 0.00 0.00 0.00 3.61
467 469 2.309136 AAATGAGACCAACCCAAGGG 57.691 50.000 2.91 2.91 42.03 3.95
468 470 0.251787 AATGAGACCAACCCAAGGGC 60.252 55.000 4.70 0.00 39.32 5.19
470 472 4.681624 AGACCAACCCAAGGGCTA 57.318 55.556 4.70 0.00 44.68 3.93
471 473 2.877150 AGACCAACCCAAGGGCTAA 58.123 52.632 4.70 0.00 44.68 3.09
473 475 0.611062 GACCAACCCAAGGGCTAACC 60.611 60.000 4.70 0.00 39.32 2.85
488 490 3.934457 CTAACCCTCGTTGGCATTTTT 57.066 42.857 0.00 0.00 33.17 1.94
510 512 4.667420 GGAGAAACTCCGCGAACA 57.333 55.556 8.23 0.00 41.08 3.18
511 513 2.151295 GGAGAAACTCCGCGAACAC 58.849 57.895 8.23 0.00 41.08 3.32
512 514 1.289800 GGAGAAACTCCGCGAACACC 61.290 60.000 8.23 0.00 41.08 4.16
513 515 0.599204 GAGAAACTCCGCGAACACCA 60.599 55.000 8.23 0.00 0.00 4.17
514 516 0.034896 AGAAACTCCGCGAACACCAT 59.965 50.000 8.23 0.00 0.00 3.55
515 517 0.165944 GAAACTCCGCGAACACCATG 59.834 55.000 8.23 0.00 0.00 3.66
516 518 1.852067 AAACTCCGCGAACACCATGC 61.852 55.000 8.23 0.00 0.00 4.06
520 522 4.147322 CGCGAACACCATGCGTCC 62.147 66.667 0.00 0.00 46.29 4.79
521 523 4.147322 GCGAACACCATGCGTCCG 62.147 66.667 0.00 0.00 0.00 4.79
522 524 2.431771 CGAACACCATGCGTCCGA 60.432 61.111 0.00 0.00 0.00 4.55
523 525 2.444624 CGAACACCATGCGTCCGAG 61.445 63.158 0.00 0.00 0.00 4.63
524 526 1.374252 GAACACCATGCGTCCGAGT 60.374 57.895 0.00 0.00 0.00 4.18
525 527 1.352156 GAACACCATGCGTCCGAGTC 61.352 60.000 0.00 0.00 0.00 3.36
526 528 2.094757 AACACCATGCGTCCGAGTCA 62.095 55.000 0.00 0.00 0.00 3.41
527 529 1.807165 CACCATGCGTCCGAGTCAG 60.807 63.158 0.00 0.00 0.00 3.51
528 530 2.202797 CCATGCGTCCGAGTCAGG 60.203 66.667 0.00 0.00 0.00 3.86
529 531 2.710902 CCATGCGTCCGAGTCAGGA 61.711 63.158 0.31 0.31 38.11 3.86
539 541 3.980136 GAGTCAGGACTCGAACTCG 57.020 57.895 13.18 0.00 46.93 4.18
540 542 1.440708 GAGTCAGGACTCGAACTCGA 58.559 55.000 13.18 1.32 46.93 4.04
548 550 2.962569 TCGAACTCGAGTGGGCTG 59.037 61.111 20.85 7.59 44.22 4.85
549 551 2.125912 CGAACTCGAGTGGGCTGG 60.126 66.667 20.85 0.09 43.02 4.85
550 552 2.435059 GAACTCGAGTGGGCTGGC 60.435 66.667 20.85 0.00 0.00 4.85
551 553 3.240134 GAACTCGAGTGGGCTGGCA 62.240 63.158 20.85 0.00 0.00 4.92
552 554 3.245668 AACTCGAGTGGGCTGGCAG 62.246 63.158 20.85 10.94 0.00 4.85
556 558 3.368571 GAGTGGGCTGGCAGCAAC 61.369 66.667 37.49 32.02 44.75 4.17
557 559 4.982701 AGTGGGCTGGCAGCAACC 62.983 66.667 37.49 29.89 44.75 3.77
558 560 4.982701 GTGGGCTGGCAGCAACCT 62.983 66.667 37.49 0.00 44.75 3.50
559 561 4.666253 TGGGCTGGCAGCAACCTC 62.666 66.667 37.49 21.25 44.75 3.85
560 562 4.666253 GGGCTGGCAGCAACCTCA 62.666 66.667 37.49 0.00 44.75 3.86
561 563 3.060615 GGCTGGCAGCAACCTCAG 61.061 66.667 37.49 0.50 44.75 3.35
562 564 3.745803 GCTGGCAGCAACCTCAGC 61.746 66.667 33.33 4.00 44.34 4.26
563 565 2.033757 CTGGCAGCAACCTCAGCT 59.966 61.111 0.00 0.00 44.62 4.24
568 570 3.811702 AGCAACCTCAGCTGCCTA 58.188 55.556 9.47 0.00 41.61 3.93
569 571 1.601171 AGCAACCTCAGCTGCCTAG 59.399 57.895 9.47 0.70 41.61 3.02
583 585 2.202570 CTAGCCAACGGGTCGACG 60.203 66.667 9.92 1.01 40.31 5.12
599 601 1.048601 GACGCCCCATCCTCTGAATA 58.951 55.000 0.00 0.00 0.00 1.75
609 611 8.109634 GCCCCATCCTCTGAATATAATTTTAGA 58.890 37.037 0.00 0.00 0.00 2.10
873 880 8.599624 AACTGGATTCCACAATAAATCTCAAT 57.400 30.769 0.00 0.00 33.36 2.57
1435 1451 1.534729 CTTCTCCTTCAAAACCCCGG 58.465 55.000 0.00 0.00 0.00 5.73
2560 2586 2.680577 ACAAACGTGTATTCGTCCCTC 58.319 47.619 0.00 0.00 43.38 4.30
2639 2667 5.657745 TCAAGATGGTAAGGTATACGTGGAA 59.342 40.000 0.00 0.00 0.00 3.53
2654 2682 4.737054 ACGTGGAAGATCAATTTTGCATC 58.263 39.130 0.00 0.00 0.00 3.91
2655 2683 4.107622 CGTGGAAGATCAATTTTGCATCC 58.892 43.478 0.00 0.00 0.00 3.51
2763 2791 4.510340 CCTTGAGTAACCGTAATGTATGCC 59.490 45.833 0.00 0.00 0.00 4.40
2973 3001 1.309499 TAAACAGGGATTTGCCGGCG 61.309 55.000 23.90 7.09 37.63 6.46
3155 3197 6.842163 ACGTTGGAAAAATAGATCATGTGTC 58.158 36.000 0.00 0.00 0.00 3.67
3221 3263 2.107141 CTTGGATCGGCGGTCTCC 59.893 66.667 20.81 17.08 0.00 3.71
3247 3289 2.957402 TGTCCATTGCTTCTCAACCT 57.043 45.000 0.00 0.00 37.53 3.50
3267 3309 4.280929 ACCTAACCTGGATTTGAGCAAAAC 59.719 41.667 0.00 0.00 33.56 2.43
3323 3365 0.753111 GCGGATGGCTTCTTTCCCAT 60.753 55.000 0.07 0.00 44.25 4.00
3335 3377 2.505819 TCTTTCCCATAGTGGAAGAGGC 59.494 50.000 0.00 0.00 44.87 4.70
3354 3396 1.076923 GTGGAGCTCGGTCCCTCTA 60.077 63.158 7.83 0.00 35.49 2.43
3381 3423 2.227194 ACCTGTTCGTGGTTTTGGATC 58.773 47.619 0.00 0.00 33.34 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.202568 GGCAAAGCAGCAAAGGTCTTT 60.203 47.619 0.00 0.00 35.83 2.52
8 9 0.390492 GGCAAAGCAGCAAAGGTCTT 59.610 50.000 0.00 0.00 35.83 3.01
9 10 0.756442 TGGCAAAGCAGCAAAGGTCT 60.756 50.000 0.00 0.00 35.83 3.85
10 11 0.319405 ATGGCAAAGCAGCAAAGGTC 59.681 50.000 0.00 0.00 35.83 3.85
11 12 0.319405 GATGGCAAAGCAGCAAAGGT 59.681 50.000 0.00 0.00 35.83 3.50
12 13 0.390735 GGATGGCAAAGCAGCAAAGG 60.391 55.000 0.00 0.00 35.83 3.11
13 14 0.734942 CGGATGGCAAAGCAGCAAAG 60.735 55.000 0.00 0.00 35.83 2.77
14 15 1.289694 CGGATGGCAAAGCAGCAAA 59.710 52.632 0.00 0.00 35.83 3.68
15 16 2.964174 CGGATGGCAAAGCAGCAA 59.036 55.556 0.00 0.00 35.83 3.91
16 17 3.751246 GCGGATGGCAAAGCAGCA 61.751 61.111 0.00 0.00 42.87 4.41
17 18 4.503314 GGCGGATGGCAAAGCAGC 62.503 66.667 12.81 7.91 46.16 5.25
33 34 3.121030 CTCTTTGCCGTCCGCTGG 61.121 66.667 0.00 0.00 38.78 4.85
34 35 3.121030 CCTCTTTGCCGTCCGCTG 61.121 66.667 0.00 0.00 38.78 5.18
45 46 2.239400 GGCTACAACAAAGGCCTCTTT 58.761 47.619 5.23 0.00 43.41 2.52
46 47 1.911057 GGCTACAACAAAGGCCTCTT 58.089 50.000 5.23 0.00 41.20 2.85
47 48 3.652581 GGCTACAACAAAGGCCTCT 57.347 52.632 5.23 0.00 41.20 3.69
50 51 3.352648 TGAATAGGCTACAACAAAGGCC 58.647 45.455 0.00 0.00 44.38 5.19
51 52 3.181496 GCTGAATAGGCTACAACAAAGGC 60.181 47.826 0.00 0.00 39.70 4.35
52 53 3.378427 GGCTGAATAGGCTACAACAAAGG 59.622 47.826 0.00 0.00 45.44 3.11
53 54 3.063997 CGGCTGAATAGGCTACAACAAAG 59.936 47.826 0.00 0.00 46.62 2.77
54 55 3.006940 CGGCTGAATAGGCTACAACAAA 58.993 45.455 0.00 0.00 46.62 2.83
55 56 2.627945 CGGCTGAATAGGCTACAACAA 58.372 47.619 0.00 0.00 46.62 2.83
56 57 1.134521 CCGGCTGAATAGGCTACAACA 60.135 52.381 0.00 0.00 46.62 3.33
57 58 1.138266 TCCGGCTGAATAGGCTACAAC 59.862 52.381 0.00 0.00 46.62 3.32
58 59 1.138266 GTCCGGCTGAATAGGCTACAA 59.862 52.381 0.00 0.00 46.62 2.41
59 60 0.750850 GTCCGGCTGAATAGGCTACA 59.249 55.000 0.00 0.00 46.62 2.74
60 61 0.033642 GGTCCGGCTGAATAGGCTAC 59.966 60.000 0.00 0.00 46.62 3.58
61 62 0.105658 AGGTCCGGCTGAATAGGCTA 60.106 55.000 0.00 0.00 46.62 3.93
62 63 0.983378 AAGGTCCGGCTGAATAGGCT 60.983 55.000 0.00 0.00 46.62 4.58
63 64 0.107165 AAAGGTCCGGCTGAATAGGC 60.107 55.000 0.00 0.00 45.44 3.93
64 65 2.017049 CAAAAGGTCCGGCTGAATAGG 58.983 52.381 0.00 0.00 0.00 2.57
65 66 2.678336 GACAAAAGGTCCGGCTGAATAG 59.322 50.000 0.00 0.00 40.83 1.73
66 67 2.706890 GACAAAAGGTCCGGCTGAATA 58.293 47.619 0.00 0.00 40.83 1.75
67 68 1.534729 GACAAAAGGTCCGGCTGAAT 58.465 50.000 0.00 0.00 40.83 2.57
68 69 0.882927 CGACAAAAGGTCCGGCTGAA 60.883 55.000 0.00 0.00 43.95 3.02
69 70 1.301401 CGACAAAAGGTCCGGCTGA 60.301 57.895 0.00 0.00 43.95 4.26
70 71 1.566018 GACGACAAAAGGTCCGGCTG 61.566 60.000 0.00 0.00 43.95 4.85
71 72 1.301479 GACGACAAAAGGTCCGGCT 60.301 57.895 0.00 0.00 43.95 5.52
72 73 1.301479 AGACGACAAAAGGTCCGGC 60.301 57.895 0.00 0.00 43.95 6.13
73 74 1.566018 GCAGACGACAAAAGGTCCGG 61.566 60.000 0.00 0.00 43.95 5.14
74 75 0.600255 AGCAGACGACAAAAGGTCCG 60.600 55.000 0.00 0.00 43.95 4.79
75 76 0.868406 CAGCAGACGACAAAAGGTCC 59.132 55.000 0.00 0.00 43.95 4.46
76 77 0.868406 CCAGCAGACGACAAAAGGTC 59.132 55.000 0.00 0.00 43.36 3.85
77 78 1.166531 GCCAGCAGACGACAAAAGGT 61.167 55.000 0.00 0.00 0.00 3.50
78 79 0.886490 AGCCAGCAGACGACAAAAGG 60.886 55.000 0.00 0.00 0.00 3.11
79 80 0.236711 CAGCCAGCAGACGACAAAAG 59.763 55.000 0.00 0.00 0.00 2.27
80 81 0.179059 TCAGCCAGCAGACGACAAAA 60.179 50.000 0.00 0.00 0.00 2.44
81 82 0.880278 GTCAGCCAGCAGACGACAAA 60.880 55.000 0.00 0.00 0.00 2.83
82 83 1.300931 GTCAGCCAGCAGACGACAA 60.301 57.895 0.00 0.00 0.00 3.18
83 84 2.340078 GTCAGCCAGCAGACGACA 59.660 61.111 0.00 0.00 0.00 4.35
87 88 4.687215 TGCCGTCAGCCAGCAGAC 62.687 66.667 5.19 5.19 42.71 3.51
88 89 3.939939 TTGCCGTCAGCCAGCAGA 61.940 61.111 0.00 0.00 42.71 4.26
89 90 3.730761 GTTGCCGTCAGCCAGCAG 61.731 66.667 0.00 0.00 42.71 4.24
92 93 4.988598 ACCGTTGCCGTCAGCCAG 62.989 66.667 0.00 0.00 42.71 4.85
93 94 4.980805 GACCGTTGCCGTCAGCCA 62.981 66.667 0.00 0.00 42.71 4.75
94 95 4.681978 AGACCGTTGCCGTCAGCC 62.682 66.667 0.00 0.00 42.71 4.85
95 96 2.251642 AAAGACCGTTGCCGTCAGC 61.252 57.895 0.00 0.00 44.14 4.26
96 97 1.569493 CAAAGACCGTTGCCGTCAG 59.431 57.895 0.00 0.00 0.00 3.51
97 98 2.539338 GCAAAGACCGTTGCCGTCA 61.539 57.895 9.04 0.00 46.69 4.35
98 99 2.251371 GCAAAGACCGTTGCCGTC 59.749 61.111 9.04 0.00 46.69 4.79
103 104 2.966309 GCGGAGGCAAAGACCGTTG 61.966 63.158 0.00 0.00 46.95 4.10
104 105 2.668550 GCGGAGGCAAAGACCGTT 60.669 61.111 0.00 0.00 46.95 4.44
121 122 0.458669 GACAGCAAAGGCATGGATGG 59.541 55.000 0.00 0.00 44.61 3.51
122 123 1.179152 TGACAGCAAAGGCATGGATG 58.821 50.000 0.00 0.00 44.61 3.51
123 124 1.547372 GTTGACAGCAAAGGCATGGAT 59.453 47.619 0.00 0.00 44.61 3.41
124 125 0.961019 GTTGACAGCAAAGGCATGGA 59.039 50.000 0.00 0.00 44.61 3.41
125 126 0.037975 GGTTGACAGCAAAGGCATGG 60.038 55.000 0.00 0.00 44.61 3.66
126 127 0.675083 TGGTTGACAGCAAAGGCATG 59.325 50.000 0.00 0.00 44.61 4.06
127 128 1.274167 CATGGTTGACAGCAAAGGCAT 59.726 47.619 0.00 0.00 44.61 4.40
128 129 0.675083 CATGGTTGACAGCAAAGGCA 59.325 50.000 0.00 0.00 44.61 4.75
129 130 0.668401 GCATGGTTGACAGCAAAGGC 60.668 55.000 0.00 0.00 35.42 4.35
130 131 0.037975 GGCATGGTTGACAGCAAAGG 60.038 55.000 0.00 0.00 35.42 3.11
131 132 0.963962 AGGCATGGTTGACAGCAAAG 59.036 50.000 0.00 0.00 35.42 2.77
132 133 0.675083 CAGGCATGGTTGACAGCAAA 59.325 50.000 0.00 0.00 35.42 3.68
133 134 0.178995 TCAGGCATGGTTGACAGCAA 60.179 50.000 0.00 0.00 33.01 3.91
134 135 0.890542 GTCAGGCATGGTTGACAGCA 60.891 55.000 0.00 0.00 42.47 4.41
135 136 1.878775 GTCAGGCATGGTTGACAGC 59.121 57.895 0.00 0.00 42.47 4.40
136 137 1.300971 CCGTCAGGCATGGTTGACAG 61.301 60.000 0.00 0.00 42.94 3.51
137 138 1.302431 CCGTCAGGCATGGTTGACA 60.302 57.895 0.00 0.00 42.94 3.58
138 139 3.578456 CCGTCAGGCATGGTTGAC 58.422 61.111 0.00 0.00 40.16 3.18
164 165 3.494048 GGGAGATGCACTACAGGAATCAG 60.494 52.174 0.00 0.00 0.00 2.90
173 174 0.535335 TCCGTTGGGAGATGCACTAC 59.465 55.000 0.00 0.00 37.43 2.73
192 193 4.443034 GGAGCGTTTGGTTACTGGATCTAT 60.443 45.833 0.00 0.00 0.00 1.98
249 250 3.730215 TTAGGGGCACTGCTTTAATCA 57.270 42.857 0.00 0.00 0.00 2.57
251 252 4.316025 TCTTTAGGGGCACTGCTTTAAT 57.684 40.909 0.00 0.00 0.00 1.40
252 253 3.799432 TCTTTAGGGGCACTGCTTTAA 57.201 42.857 0.00 0.00 0.00 1.52
263 265 5.422012 ACATTTTGCAGGTTATCTTTAGGGG 59.578 40.000 0.00 0.00 0.00 4.79
302 304 7.222872 TGCAGGAATGATTTGGTTTTTAACAT 58.777 30.769 0.00 0.00 0.00 2.71
304 306 7.489574 TTGCAGGAATGATTTGGTTTTTAAC 57.510 32.000 0.00 0.00 0.00 2.01
331 333 9.613428 GTATGTGCTTTATTATGGGCTATATGA 57.387 33.333 0.00 0.00 0.00 2.15
359 361 2.794910 CAGCGAAACATATCCGTGTAGG 59.205 50.000 0.00 0.00 42.97 3.18
367 369 2.541762 GGCAGAGACAGCGAAACATATC 59.458 50.000 0.00 0.00 0.00 1.63
378 380 2.426738 CAAGGAGTAGAGGCAGAGACAG 59.573 54.545 0.00 0.00 0.00 3.51
400 402 5.304778 TCTCGTTTCAAATCATCCAACTCA 58.695 37.500 0.00 0.00 0.00 3.41
402 404 6.438763 GTTTCTCGTTTCAAATCATCCAACT 58.561 36.000 0.00 0.00 0.00 3.16
439 441 9.942850 CTTGGGTTGGTCTCATTTTTATTTTAT 57.057 29.630 0.00 0.00 0.00 1.40
440 442 8.371699 CCTTGGGTTGGTCTCATTTTTATTTTA 58.628 33.333 0.00 0.00 0.00 1.52
441 443 7.223584 CCTTGGGTTGGTCTCATTTTTATTTT 58.776 34.615 0.00 0.00 0.00 1.82
442 444 6.239858 CCCTTGGGTTGGTCTCATTTTTATTT 60.240 38.462 0.00 0.00 0.00 1.40
444 446 4.777366 CCCTTGGGTTGGTCTCATTTTTAT 59.223 41.667 0.00 0.00 0.00 1.40
445 447 4.156477 CCCTTGGGTTGGTCTCATTTTTA 58.844 43.478 0.00 0.00 0.00 1.52
447 449 2.608623 CCCTTGGGTTGGTCTCATTTT 58.391 47.619 0.00 0.00 0.00 1.82
449 451 0.251787 GCCCTTGGGTTGGTCTCATT 60.252 55.000 7.61 0.00 0.00 2.57
450 452 1.142688 AGCCCTTGGGTTGGTCTCAT 61.143 55.000 7.61 0.00 0.00 2.90
451 453 0.474854 TAGCCCTTGGGTTGGTCTCA 60.475 55.000 7.61 0.00 34.28 3.27
452 454 0.696501 TTAGCCCTTGGGTTGGTCTC 59.303 55.000 7.61 0.00 34.28 3.36
453 455 0.404426 GTTAGCCCTTGGGTTGGTCT 59.596 55.000 7.61 0.00 34.28 3.85
454 456 0.611062 GGTTAGCCCTTGGGTTGGTC 60.611 60.000 7.61 0.00 34.28 4.02
455 457 1.463375 GGTTAGCCCTTGGGTTGGT 59.537 57.895 7.61 0.00 34.28 3.67
456 458 4.434483 GGTTAGCCCTTGGGTTGG 57.566 61.111 7.61 0.00 34.28 3.77
466 468 0.679960 AATGCCAACGAGGGTTAGCC 60.680 55.000 0.00 0.00 39.61 3.93
467 469 1.173913 AAATGCCAACGAGGGTTAGC 58.826 50.000 0.00 0.00 40.57 3.09
468 470 3.934457 AAAAATGCCAACGAGGGTTAG 57.066 42.857 0.00 0.00 38.09 2.34
493 495 1.289800 GGTGTTCGCGGAGTTTCTCC 61.290 60.000 6.13 5.79 46.44 3.71
494 496 0.599204 TGGTGTTCGCGGAGTTTCTC 60.599 55.000 6.13 0.00 0.00 2.87
495 497 0.034896 ATGGTGTTCGCGGAGTTTCT 59.965 50.000 6.13 0.00 0.00 2.52
496 498 0.165944 CATGGTGTTCGCGGAGTTTC 59.834 55.000 6.13 0.00 0.00 2.78
497 499 1.852067 GCATGGTGTTCGCGGAGTTT 61.852 55.000 6.13 0.00 0.00 2.66
498 500 2.325082 GCATGGTGTTCGCGGAGTT 61.325 57.895 6.13 0.00 0.00 3.01
499 501 2.742372 GCATGGTGTTCGCGGAGT 60.742 61.111 6.13 0.00 0.00 3.85
500 502 3.853330 CGCATGGTGTTCGCGGAG 61.853 66.667 6.13 0.00 45.08 4.63
504 506 4.147322 CGGACGCATGGTGTTCGC 62.147 66.667 0.00 0.00 38.20 4.70
505 507 2.431771 TCGGACGCATGGTGTTCG 60.432 61.111 4.31 4.31 45.16 3.95
506 508 1.352156 GACTCGGACGCATGGTGTTC 61.352 60.000 0.00 0.00 0.00 3.18
507 509 1.374252 GACTCGGACGCATGGTGTT 60.374 57.895 0.00 0.00 0.00 3.32
508 510 2.261671 GACTCGGACGCATGGTGT 59.738 61.111 0.00 0.00 0.00 4.16
509 511 1.807165 CTGACTCGGACGCATGGTG 60.807 63.158 0.00 0.00 0.00 4.17
510 512 2.573869 CTGACTCGGACGCATGGT 59.426 61.111 0.00 0.00 0.00 3.55
511 513 2.202797 CCTGACTCGGACGCATGG 60.203 66.667 0.00 0.00 0.00 3.66
512 514 1.517257 GTCCTGACTCGGACGCATG 60.517 63.158 0.00 0.00 43.56 4.06
513 515 2.885861 GTCCTGACTCGGACGCAT 59.114 61.111 0.00 0.00 43.56 4.73
522 524 3.627645 TCGAGTTCGAGTCCTGACT 57.372 52.632 0.00 0.00 44.22 3.41
532 534 2.125912 CCAGCCCACTCGAGTTCG 60.126 66.667 17.26 9.87 41.45 3.95
533 535 2.435059 GCCAGCCCACTCGAGTTC 60.435 66.667 17.26 8.22 0.00 3.01
534 536 3.241530 TGCCAGCCCACTCGAGTT 61.242 61.111 17.26 0.00 0.00 3.01
535 537 3.699894 CTGCCAGCCCACTCGAGT 61.700 66.667 13.58 13.58 0.00 4.18
539 541 3.368571 GTTGCTGCCAGCCCACTC 61.369 66.667 15.29 0.00 41.51 3.51
540 542 4.982701 GGTTGCTGCCAGCCCACT 62.983 66.667 15.29 0.00 41.51 4.00
541 543 4.982701 AGGTTGCTGCCAGCCCAC 62.983 66.667 15.29 10.81 42.79 4.61
542 544 4.666253 GAGGTTGCTGCCAGCCCA 62.666 66.667 15.29 0.00 42.79 5.36
543 545 4.666253 TGAGGTTGCTGCCAGCCC 62.666 66.667 15.29 9.16 42.79 5.19
544 546 3.060615 CTGAGGTTGCTGCCAGCC 61.061 66.667 15.29 0.00 41.51 4.85
545 547 3.745803 GCTGAGGTTGCTGCCAGC 61.746 66.667 10.45 10.45 44.00 4.85
546 548 2.033757 AGCTGAGGTTGCTGCCAG 59.966 61.111 0.00 0.00 39.56 4.85
551 553 1.601171 CTAGGCAGCTGAGGTTGCT 59.399 57.895 20.43 0.00 46.51 3.91
552 554 2.111582 GCTAGGCAGCTGAGGTTGC 61.112 63.158 20.43 10.49 46.58 4.17
553 555 4.215349 GCTAGGCAGCTGAGGTTG 57.785 61.111 20.43 3.83 44.93 3.77
562 564 2.125106 GACCCGTTGGCTAGGCAG 60.125 66.667 19.32 10.25 33.59 4.85
563 565 4.077184 CGACCCGTTGGCTAGGCA 62.077 66.667 16.16 16.16 33.59 4.75
564 566 3.766691 TCGACCCGTTGGCTAGGC 61.767 66.667 9.85 9.85 33.59 3.93
565 567 2.183555 GTCGACCCGTTGGCTAGG 59.816 66.667 3.51 0.00 33.59 3.02
566 568 2.202570 CGTCGACCCGTTGGCTAG 60.203 66.667 10.58 0.00 33.59 3.42
567 569 4.424566 GCGTCGACCCGTTGGCTA 62.425 66.667 10.58 0.00 33.59 3.93
583 585 8.109634 TCTAAAATTATATTCAGAGGATGGGGC 58.890 37.037 0.00 0.00 0.00 5.80
609 611 9.975218 ACCTTACAACCATGAATAATTACTCTT 57.025 29.630 0.00 0.00 0.00 2.85
873 880 4.670478 CGAGCGGCAAATATGTGTTGTTAA 60.670 41.667 1.45 0.00 0.00 2.01
1579 1601 2.731571 GGCCGAGGTCACCTGCATA 61.732 63.158 0.00 0.00 31.76 3.14
2639 2667 8.773033 AATACTAAGGGATGCAAAATTGATCT 57.227 30.769 0.00 0.00 0.00 2.75
2763 2791 3.797039 TCTTCCGGTGAAATAGATGCAG 58.203 45.455 0.00 0.00 0.00 4.41
2892 2920 1.679680 CGAAGCACTCCGGTCCTAATA 59.320 52.381 0.00 0.00 0.00 0.98
2899 2927 1.288127 GTACACGAAGCACTCCGGT 59.712 57.895 0.00 0.00 0.00 5.28
2973 3001 3.238197 AATCACCACCCAAGGGCCC 62.238 63.158 16.46 16.46 39.32 5.80
3108 3150 3.444805 GCTCAGGCTCGGTCGACT 61.445 66.667 16.46 0.00 35.22 4.18
3155 3197 1.547372 CCTCCCAAGAATTTGTGCAGG 59.453 52.381 0.00 0.00 32.21 4.85
3221 3263 2.086869 AGAAGCAATGGACAATGGTCG 58.913 47.619 0.00 0.00 45.28 4.79
3247 3289 4.138290 TCGTTTTGCTCAAATCCAGGTTA 58.862 39.130 0.00 0.00 0.00 2.85
3267 3309 2.814269 TCAAATCTGAATCTCCGCTCG 58.186 47.619 0.00 0.00 0.00 5.03
3323 3365 1.605058 GCTCCACGCCTCTTCCACTA 61.605 60.000 0.00 0.00 0.00 2.74
3335 3377 2.888464 TAGAGGGACCGAGCTCCACG 62.888 65.000 8.47 0.00 30.97 4.94
3354 3396 1.350310 ACCACGAACAGGTTCCCCTT 61.350 55.000 6.59 0.00 39.89 3.95
3369 3411 5.989168 CCCTTAGTTTTTGATCCAAAACCAC 59.011 40.000 24.13 11.71 42.02 4.16
3381 3423 4.634443 CCGGTCAGTATCCCTTAGTTTTTG 59.366 45.833 0.00 0.00 0.00 2.44
3436 3503 5.188555 AGACATGAAATCACCTTGAGAGCTA 59.811 40.000 0.00 0.00 0.00 3.32


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

AutoCloner maintained by Alex Coulton.