Multiple sequence alignment - TraesCS1B01G318800

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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 TraesCS1B01G318800 chr1B 100.000 4560 0 0 876 5435 543182637 543178078 0.000000e+00 8421
1 TraesCS1B01G318800 chr1B 100.000 446 0 0 1 446 543183512 543183067 0.000000e+00 824
2 TraesCS1B01G318800 chr1B 90.152 132 13 0 2 133 254232952 254233083 7.240000e-39 172
3 TraesCS1B01G318800 chr1B 83.626 171 24 3 2163 2333 94323267 94323433 2.030000e-34 158
4 TraesCS1B01G318800 chr1D 94.846 3376 120 23 1904 5262 403730888 403727550 0.000000e+00 5221
5 TraesCS1B01G318800 chr1D 96.418 977 33 2 876 1851 403732114 403731139 0.000000e+00 1609
6 TraesCS1B01G318800 chr1D 86.123 454 34 15 1 446 403732586 403732154 3.840000e-126 462
7 TraesCS1B01G318800 chr1D 84.615 169 21 1 2161 2329 443741834 443741671 4.360000e-36 163
8 TraesCS1B01G318800 chr1A 88.957 2916 212 54 2401 5263 499449163 499446305 0.000000e+00 3500
9 TraesCS1B01G318800 chr1A 96.891 579 18 0 876 1454 499450578 499450000 0.000000e+00 970
10 TraesCS1B01G318800 chr1A 91.446 491 32 6 1667 2157 499449409 499448929 0.000000e+00 665
11 TraesCS1B01G318800 chr1A 87.013 462 33 9 1 446 499451068 499450618 3.780000e-136 496
12 TraesCS1B01G318800 chr1A 95.500 200 9 0 1456 1655 499449653 499449454 2.440000e-83 320
13 TraesCS1B01G318800 chr1A 84.409 186 25 4 2161 2346 285535969 285535788 4.330000e-41 180
14 TraesCS1B01G318800 chr7D 89.003 391 32 4 1 391 556058096 556057717 1.770000e-129 473
15 TraesCS1B01G318800 chr4D 87.887 388 36 6 1 388 107282009 107282385 3.860000e-121 446
16 TraesCS1B01G318800 chr3B 87.371 388 37 5 1 388 583329110 583329485 8.360000e-118 435
17 TraesCS1B01G318800 chr3B 72.390 862 191 33 3215 4053 579452070 579452907 4.230000e-56 230
18 TraesCS1B01G318800 chr6D 87.989 358 32 4 34 391 187568693 187568347 3.920000e-111 412
19 TraesCS1B01G318800 chr2D 89.053 338 25 7 2 339 204618133 204618458 5.070000e-110 409
20 TraesCS1B01G318800 chr2D 90.226 133 13 0 1 133 549229452 549229320 2.010000e-39 174
21 TraesCS1B01G318800 chr3A 72.216 889 205 29 3187 4053 583244178 583245046 9.100000e-58 235
22 TraesCS1B01G318800 chr3A 84.431 167 22 3 2161 2326 727227331 727227494 1.570000e-35 161
23 TraesCS1B01G318800 chr6A 89.881 168 17 0 221 388 524932879 524933046 3.300000e-52 217
24 TraesCS1B01G318800 chr6A 90.551 127 11 1 7 133 246323020 246322895 3.370000e-37 167
25 TraesCS1B01G318800 chr5A 91.304 138 12 0 221 358 75008380 75008243 7.190000e-44 189
26 TraesCS1B01G318800 chr5A 86.471 170 16 5 2161 2329 382336473 382336310 4.330000e-41 180
27 TraesCS1B01G318800 chr5A 84.118 170 21 4 2161 2329 600480357 600480193 5.630000e-35 159
28 TraesCS1B01G318800 chr5A 87.970 133 16 0 1 133 504179939 504179807 2.030000e-34 158
29 TraesCS1B01G318800 chr5A 90.000 120 12 0 272 391 504179807 504179688 7.290000e-34 156
30 TraesCS1B01G318800 chr7A 85.714 168 15 7 2161 2326 539543663 539543823 9.360000e-38 169
31 TraesCS1B01G318800 chr4A 84.524 168 25 1 2162 2329 69833253 69833087 1.210000e-36 165


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 TraesCS1B01G318800 chr1B 543178078 543183512 5434 True 4622.500000 8421 100.000000 1 5435 2 chr1B.!!$R1 5434
1 TraesCS1B01G318800 chr1D 403727550 403732586 5036 True 2430.666667 5221 92.462333 1 5262 3 chr1D.!!$R2 5261
2 TraesCS1B01G318800 chr1A 499446305 499451068 4763 True 1190.200000 3500 91.961400 1 5263 5 chr1A.!!$R2 5262
3 TraesCS1B01G318800 chr3B 579452070 579452907 837 False 230.000000 230 72.390000 3215 4053 1 chr3B.!!$F1 838
4 TraesCS1B01G318800 chr3A 583244178 583245046 868 False 235.000000 235 72.216000 3187 4053 1 chr3A.!!$F1 866

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
327 350 0.670546 TTTGCTCGCTAGGAGTGTGC 60.671 55.000 7.04 7.04 45.03 4.57 F
1089 1117 0.969149 ATGATGATAGCGCGAGGGAA 59.031 50.000 12.10 0.00 0.00 3.97 F
1504 1877 1.935873 CGTGCATCTGATTCGGATGTT 59.064 47.619 27.98 0.00 45.86 2.71 F
1992 2596 5.642491 GCCGGAATTTCACCTAGTATTATCC 59.358 44.000 5.05 0.00 0.00 2.59 F
3461 4071 2.105006 TGATGACCAAGAAGCTCTGC 57.895 50.000 0.00 0.00 0.00 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1218 1246 0.394938 TCTTGCCGCACCTTAACAGA 59.605 50.000 0.00 0.0 0.00 3.41 R
2248 2852 0.800012 TTTACGCGGAGATTTGTGCC 59.200 50.000 12.47 0.0 0.00 5.01 R
3461 4071 0.179006 GGAAGCTGGGGAGCATAAGG 60.179 60.000 0.00 0.0 37.25 2.69 R
3469 4079 1.004745 GAAACATCTGGAAGCTGGGGA 59.995 52.381 0.00 0.0 33.54 4.81 R
5335 5990 0.108804 AGATGGTAGTTGCGTCCACG 60.109 55.000 0.00 0.0 43.27 4.94 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
30 31 2.947652 TCGGGAAGACGTAGAAATCGAT 59.052 45.455 0.00 0.00 34.94 3.59
31 32 4.129380 TCGGGAAGACGTAGAAATCGATA 58.871 43.478 0.00 0.00 34.94 2.92
69 85 6.739112 TGAATCTGATCGTAGTTAGGTCATG 58.261 40.000 0.00 0.00 0.00 3.07
108 127 1.867363 TGGGGGAGAAAGTAGCTCTC 58.133 55.000 0.00 0.00 38.92 3.20
203 222 1.937359 CGTCGTGTGCAGATTCAAAC 58.063 50.000 0.00 0.00 0.00 2.93
204 223 1.526887 CGTCGTGTGCAGATTCAAACT 59.473 47.619 0.00 0.00 0.00 2.66
215 234 7.041712 TGTGCAGATTCAAACTCGTGTTATAAA 60.042 33.333 2.88 0.00 34.96 1.40
218 237 7.478667 GCAGATTCAAACTCGTGTTATAAACAG 59.521 37.037 2.88 0.00 43.10 3.16
219 238 8.495949 CAGATTCAAACTCGTGTTATAAACAGT 58.504 33.333 2.88 0.00 43.10 3.55
241 260 8.330302 ACAGTTAAACACACGTTTATTGAGTAC 58.670 33.333 12.90 0.00 44.86 2.73
252 272 7.806487 CACGTTTATTGAGTACTGACTTCTGTA 59.194 37.037 0.00 0.00 35.45 2.74
260 280 7.952671 TGAGTACTGACTTCTGTAAAATCACT 58.047 34.615 0.00 0.00 35.45 3.41
327 350 0.670546 TTTGCTCGCTAGGAGTGTGC 60.671 55.000 7.04 7.04 45.03 4.57
340 363 1.968540 GTGTGCTCCTGGGAGTTGC 60.969 63.158 16.79 5.60 43.70 4.17
943 970 7.549488 GCTTCTACTGTTATACATTTCTGTGGT 59.451 37.037 0.00 0.00 36.79 4.16
1089 1117 0.969149 ATGATGATAGCGCGAGGGAA 59.031 50.000 12.10 0.00 0.00 3.97
1218 1246 2.426023 GTGCAGAAGGACACCGGT 59.574 61.111 0.00 0.00 35.94 5.28
1272 1300 2.116125 GCAAACCACCTGAGGCCT 59.884 61.111 3.86 3.86 0.00 5.19
1399 1427 9.248291 GTTCAGTTTCAAGCTCATATTTTTCAA 57.752 29.630 0.00 0.00 0.00 2.69
1419 1447 9.761504 TTTTCAAGTTCAGCATTCATCAAATTA 57.238 25.926 0.00 0.00 0.00 1.40
1426 1454 9.362539 GTTCAGCATTCATCAAATTATGTTCTT 57.637 29.630 0.00 0.00 0.00 2.52
1436 1464 9.674824 CATCAAATTATGTTCTTATGCTTCTCC 57.325 33.333 0.00 0.00 0.00 3.71
1441 1469 4.574674 TGTTCTTATGCTTCTCCCATGT 57.425 40.909 0.00 0.00 0.00 3.21
1504 1877 1.935873 CGTGCATCTGATTCGGATGTT 59.064 47.619 27.98 0.00 45.86 2.71
1573 1946 7.991460 TGATATGCTTCTTTGATCTTCTCATGT 59.009 33.333 0.00 0.00 32.72 3.21
1992 2596 5.642491 GCCGGAATTTCACCTAGTATTATCC 59.358 44.000 5.05 0.00 0.00 2.59
2176 2780 6.252599 ACCAATTCATCTAGATGTGCCTTA 57.747 37.500 27.80 8.78 39.72 2.69
2201 2805 7.334090 AGTTATTGCACATCTAAGTGACTCAT 58.666 34.615 0.00 0.00 42.05 2.90
2437 3041 8.627403 CATCTACTTGGATTTGTGCTGATTAAT 58.373 33.333 0.00 0.00 0.00 1.40
2484 3088 7.981225 ACATTTTGCCTAGTATTATTTGCCTTG 59.019 33.333 0.00 0.00 0.00 3.61
2573 3177 7.553402 TCTTTGCTAGTTTTGTGGTACTGTTTA 59.447 33.333 0.00 0.00 0.00 2.01
2594 3198 9.296400 TGTTTAACAACAAAGCTGTTAGATTTC 57.704 29.630 0.00 0.00 44.15 2.17
2595 3199 8.752254 GTTTAACAACAAAGCTGTTAGATTTCC 58.248 33.333 0.00 0.00 44.15 3.13
2614 3218 8.598041 AGATTTCCTCATTTAGTGACTGTTACT 58.402 33.333 10.23 10.23 32.22 2.24
2765 3370 7.288810 TCAGCATTTTTAACTCTGACCATTT 57.711 32.000 0.00 0.00 0.00 2.32
3075 3683 6.757010 GCTAGAGATTGATCGAAGTTTTACCA 59.243 38.462 0.00 0.00 0.00 3.25
3461 4071 2.105006 TGATGACCAAGAAGCTCTGC 57.895 50.000 0.00 0.00 0.00 4.26
3469 4079 2.641305 CAAGAAGCTCTGCCTTATGCT 58.359 47.619 0.00 0.00 42.00 3.79
3632 4242 7.334921 CCATTAATGGTACGTTTTCCTCAGTTA 59.665 37.037 24.12 0.00 43.05 2.24
3738 4356 1.883084 GCAGGTACCTTCGATGGCG 60.883 63.158 13.15 0.00 39.35 5.69
3773 4391 5.003804 TCAAATGGCAACTTCTCTACTTCC 58.996 41.667 0.00 0.00 37.61 3.46
3866 4484 1.555075 TCCACATACTCAAGGACCTGC 59.445 52.381 0.00 0.00 0.00 4.85
4109 4727 3.077359 AGAGCTTCATTTCTTGGAACGG 58.923 45.455 0.00 0.00 0.00 4.44
4127 4745 1.153229 GGATCCCAACCTGTACGCC 60.153 63.158 0.00 0.00 0.00 5.68
4280 4899 6.001460 TCACCGAGATTTCACTGGTTTAATT 58.999 36.000 0.00 0.00 0.00 1.40
4329 4948 3.624861 GCCCTGTGTTTGTATCAGATGAG 59.375 47.826 0.00 0.00 0.00 2.90
4339 4958 5.101648 TGTATCAGATGAGCCAACAATCA 57.898 39.130 0.00 0.00 0.00 2.57
4380 4999 2.499289 TCTCTTGCCTCATCCTGAAGAC 59.501 50.000 0.00 0.00 0.00 3.01
4496 5115 1.709147 CCGCCTGTGAGCTATGCAAC 61.709 60.000 0.00 0.00 0.00 4.17
4535 5154 2.563179 ACTGACACGCTATTCTTCCTGT 59.437 45.455 0.00 0.00 0.00 4.00
4536 5155 3.182967 CTGACACGCTATTCTTCCTGTC 58.817 50.000 0.00 0.00 0.00 3.51
4632 5251 5.287226 TGTAGAAGAGTCGGTTGTTCTTTC 58.713 41.667 5.17 2.05 33.33 2.62
4633 5252 4.402056 AGAAGAGTCGGTTGTTCTTTCA 57.598 40.909 0.00 0.00 31.67 2.69
4634 5253 4.962155 AGAAGAGTCGGTTGTTCTTTCAT 58.038 39.130 0.00 0.00 31.67 2.57
4635 5254 4.991687 AGAAGAGTCGGTTGTTCTTTCATC 59.008 41.667 0.00 0.00 31.67 2.92
4636 5255 4.608948 AGAGTCGGTTGTTCTTTCATCT 57.391 40.909 0.00 0.00 0.00 2.90
4637 5256 4.962155 AGAGTCGGTTGTTCTTTCATCTT 58.038 39.130 0.00 0.00 0.00 2.40
4638 5257 5.368989 AGAGTCGGTTGTTCTTTCATCTTT 58.631 37.500 0.00 0.00 0.00 2.52
4658 5277 8.543774 CATCTTTGTTCCATTATCTCGAGTAAC 58.456 37.037 13.13 7.37 0.00 2.50
4659 5278 7.039882 TCTTTGTTCCATTATCTCGAGTAACC 58.960 38.462 13.13 0.00 0.00 2.85
4663 5304 3.050619 CCATTATCTCGAGTAACCGCAC 58.949 50.000 13.13 0.00 0.00 5.34
4757 5398 1.669440 CCAAGCTGCCACATTGCTT 59.331 52.632 0.00 0.00 46.38 3.91
4774 5415 0.682209 CTTCCCACCTGGCATCCTTG 60.682 60.000 0.00 0.00 0.00 3.61
4802 5443 2.726351 GGGAGGAAGGAGAGCACCG 61.726 68.421 0.00 0.00 34.73 4.94
4820 5461 0.752658 CGAGTAGGATGCCACATGGA 59.247 55.000 0.87 0.00 37.39 3.41
4821 5462 1.345741 CGAGTAGGATGCCACATGGAT 59.654 52.381 0.87 0.00 37.39 3.41
4823 5464 2.369860 GAGTAGGATGCCACATGGATGA 59.630 50.000 0.87 0.00 37.39 2.92
4824 5465 2.105477 AGTAGGATGCCACATGGATGAC 59.895 50.000 0.87 0.00 37.39 3.06
4849 5490 4.591072 AGTGGTAGCTTTGACTCTTTCTCT 59.409 41.667 0.00 0.00 0.00 3.10
4864 5505 0.407528 TCTCTGTCTCCTCCAGCAGT 59.592 55.000 0.00 0.00 31.66 4.40
4883 5528 3.567308 TGCCAGTGAGCAAGAGGT 58.433 55.556 4.08 0.00 40.56 3.85
4900 5545 1.287041 GGTGTCGCTTTGGACCGTAC 61.287 60.000 0.00 0.00 36.07 3.67
5131 5784 4.465512 CGCGGTGCCAGCATGTTC 62.466 66.667 0.00 0.00 34.19 3.18
5193 5846 5.094260 CGAAATCGAAGACCAGTGGGTTTA 61.094 45.833 15.21 0.07 45.28 2.01
5239 5893 1.987855 TCGCTTGGAAGATCCGGGT 60.988 57.895 0.00 0.00 40.17 5.28
5263 5918 4.815533 TCACATGGAAGGAAGAGAAGAG 57.184 45.455 0.00 0.00 0.00 2.85
5264 5919 4.420206 TCACATGGAAGGAAGAGAAGAGA 58.580 43.478 0.00 0.00 0.00 3.10
5265 5920 4.840680 TCACATGGAAGGAAGAGAAGAGAA 59.159 41.667 0.00 0.00 0.00 2.87
5266 5921 5.046735 TCACATGGAAGGAAGAGAAGAGAAG 60.047 44.000 0.00 0.00 0.00 2.85
5267 5922 5.046735 CACATGGAAGGAAGAGAAGAGAAGA 60.047 44.000 0.00 0.00 0.00 2.87
5268 5923 5.725822 ACATGGAAGGAAGAGAAGAGAAGAT 59.274 40.000 0.00 0.00 0.00 2.40
5269 5924 5.930837 TGGAAGGAAGAGAAGAGAAGATC 57.069 43.478 0.00 0.00 0.00 2.75
5270 5925 5.336945 TGGAAGGAAGAGAAGAGAAGATCA 58.663 41.667 0.00 0.00 0.00 2.92
5271 5926 5.421693 TGGAAGGAAGAGAAGAGAAGATCAG 59.578 44.000 0.00 0.00 0.00 2.90
5272 5927 5.422012 GGAAGGAAGAGAAGAGAAGATCAGT 59.578 44.000 0.00 0.00 0.00 3.41
5273 5928 5.920193 AGGAAGAGAAGAGAAGATCAGTG 57.080 43.478 0.00 0.00 0.00 3.66
5274 5929 5.332743 AGGAAGAGAAGAGAAGATCAGTGT 58.667 41.667 0.00 0.00 0.00 3.55
5275 5930 6.489603 AGGAAGAGAAGAGAAGATCAGTGTA 58.510 40.000 0.00 0.00 0.00 2.90
5276 5931 6.603201 AGGAAGAGAAGAGAAGATCAGTGTAG 59.397 42.308 0.00 0.00 0.00 2.74
5277 5932 6.183360 GGAAGAGAAGAGAAGATCAGTGTAGG 60.183 46.154 0.00 0.00 0.00 3.18
5278 5933 6.073447 AGAGAAGAGAAGATCAGTGTAGGA 57.927 41.667 0.00 0.00 0.00 2.94
5279 5934 6.672593 AGAGAAGAGAAGATCAGTGTAGGAT 58.327 40.000 0.00 0.00 0.00 3.24
5280 5935 7.811282 AGAGAAGAGAAGATCAGTGTAGGATA 58.189 38.462 0.00 0.00 0.00 2.59
5281 5936 7.719633 AGAGAAGAGAAGATCAGTGTAGGATAC 59.280 40.741 0.00 0.00 43.42 2.24
5296 5951 3.770666 AGGATACAAGATTCGTGTCACG 58.229 45.455 19.38 19.38 41.13 4.35
5297 5952 3.192844 AGGATACAAGATTCGTGTCACGT 59.807 43.478 23.82 6.73 40.72 4.49
5298 5953 3.924686 GGATACAAGATTCGTGTCACGTT 59.075 43.478 23.82 13.41 43.14 3.99
5299 5954 4.031426 GGATACAAGATTCGTGTCACGTTC 59.969 45.833 23.82 20.18 43.14 3.95
5300 5955 2.132762 ACAAGATTCGTGTCACGTTCC 58.867 47.619 23.82 13.72 43.14 3.62
5301 5956 1.124297 CAAGATTCGTGTCACGTTCCG 59.876 52.381 23.82 12.45 43.14 4.30
5302 5957 0.388134 AGATTCGTGTCACGTTCCGG 60.388 55.000 23.82 0.00 43.14 5.14
5303 5958 1.349259 GATTCGTGTCACGTTCCGGG 61.349 60.000 23.82 0.00 43.14 5.73
5304 5959 4.651008 TCGTGTCACGTTCCGGGC 62.651 66.667 23.82 0.00 43.14 6.13
5305 5960 4.953868 CGTGTCACGTTCCGGGCA 62.954 66.667 17.30 0.00 36.74 5.36
5306 5961 2.589442 GTGTCACGTTCCGGGCAA 60.589 61.111 0.00 0.00 0.00 4.52
5307 5962 2.181521 GTGTCACGTTCCGGGCAAA 61.182 57.895 0.00 0.00 0.00 3.68
5308 5963 2.181521 TGTCACGTTCCGGGCAAAC 61.182 57.895 0.00 0.00 0.00 2.93
5322 5977 3.020102 CAAACGTGCTATTGCTGGC 57.980 52.632 0.00 0.00 40.48 4.85
5323 5978 0.523072 CAAACGTGCTATTGCTGGCT 59.477 50.000 0.00 0.00 40.48 4.75
5324 5979 1.068333 CAAACGTGCTATTGCTGGCTT 60.068 47.619 0.00 0.00 40.48 4.35
5325 5980 0.523072 AACGTGCTATTGCTGGCTTG 59.477 50.000 0.00 0.00 40.48 4.01
5326 5981 0.606401 ACGTGCTATTGCTGGCTTGT 60.606 50.000 0.00 0.00 40.48 3.16
5327 5982 0.523072 CGTGCTATTGCTGGCTTGTT 59.477 50.000 0.00 0.00 40.48 2.83
5328 5983 1.730121 CGTGCTATTGCTGGCTTGTTG 60.730 52.381 0.00 0.00 40.48 3.33
5329 5984 0.244450 TGCTATTGCTGGCTTGTTGC 59.756 50.000 0.00 0.00 40.48 4.17
5330 5985 0.799534 GCTATTGCTGGCTTGTTGCG 60.800 55.000 0.00 0.00 38.26 4.85
5331 5986 0.179156 CTATTGCTGGCTTGTTGCGG 60.179 55.000 0.00 0.00 44.05 5.69
5332 5987 0.607762 TATTGCTGGCTTGTTGCGGA 60.608 50.000 0.00 0.00 44.05 5.54
5333 5988 1.462731 ATTGCTGGCTTGTTGCGGAA 61.463 50.000 0.00 0.00 44.05 4.30
5334 5989 1.462731 TTGCTGGCTTGTTGCGGAAT 61.463 50.000 0.00 0.00 44.05 3.01
5335 5990 1.153958 GCTGGCTTGTTGCGGAATC 60.154 57.895 0.00 0.00 44.05 2.52
5336 5991 1.135315 CTGGCTTGTTGCGGAATCG 59.865 57.895 0.00 0.00 44.05 3.34
5337 5992 1.577328 CTGGCTTGTTGCGGAATCGT 61.577 55.000 0.00 0.00 44.05 3.73
5338 5993 1.154225 GGCTTGTTGCGGAATCGTG 60.154 57.895 0.00 0.00 44.05 4.35
5339 5994 1.154225 GCTTGTTGCGGAATCGTGG 60.154 57.895 0.00 0.00 38.89 4.94
5340 5995 1.573829 GCTTGTTGCGGAATCGTGGA 61.574 55.000 0.00 0.00 38.89 4.02
5341 5996 0.165944 CTTGTTGCGGAATCGTGGAC 59.834 55.000 0.00 0.00 38.89 4.02
5342 5997 1.561717 TTGTTGCGGAATCGTGGACG 61.562 55.000 0.00 0.00 38.89 4.79
5346 6001 2.776072 CGGAATCGTGGACGCAAC 59.224 61.111 0.00 0.00 39.60 4.17
5347 6002 1.736645 CGGAATCGTGGACGCAACT 60.737 57.895 0.00 0.00 39.60 3.16
5348 6003 0.457166 CGGAATCGTGGACGCAACTA 60.457 55.000 0.00 0.00 39.60 2.24
5349 6004 0.997196 GGAATCGTGGACGCAACTAC 59.003 55.000 0.00 0.00 39.60 2.73
5350 6005 0.997196 GAATCGTGGACGCAACTACC 59.003 55.000 0.00 0.00 39.60 3.18
5351 6006 0.319083 AATCGTGGACGCAACTACCA 59.681 50.000 0.00 0.00 39.60 3.25
5352 6007 0.535335 ATCGTGGACGCAACTACCAT 59.465 50.000 0.00 0.00 39.60 3.55
5353 6008 0.108992 TCGTGGACGCAACTACCATC 60.109 55.000 0.00 0.00 39.60 3.51
5354 6009 0.108804 CGTGGACGCAACTACCATCT 60.109 55.000 0.00 0.00 36.09 2.90
5355 6010 1.641577 GTGGACGCAACTACCATCTC 58.358 55.000 0.00 0.00 36.09 2.75
5356 6011 0.535335 TGGACGCAACTACCATCTCC 59.465 55.000 0.00 0.00 0.00 3.71
5357 6012 0.824759 GGACGCAACTACCATCTCCT 59.175 55.000 0.00 0.00 0.00 3.69
5358 6013 1.202428 GGACGCAACTACCATCTCCTC 60.202 57.143 0.00 0.00 0.00 3.71
5359 6014 1.751924 GACGCAACTACCATCTCCTCT 59.248 52.381 0.00 0.00 0.00 3.69
5360 6015 1.478510 ACGCAACTACCATCTCCTCTG 59.521 52.381 0.00 0.00 0.00 3.35
5361 6016 1.202463 CGCAACTACCATCTCCTCTGG 60.202 57.143 0.00 0.00 39.80 3.86
5362 6017 2.111384 GCAACTACCATCTCCTCTGGA 58.889 52.381 0.00 0.00 37.22 3.86
5363 6018 2.501723 GCAACTACCATCTCCTCTGGAA 59.498 50.000 0.00 0.00 37.22 3.53
5364 6019 3.055094 GCAACTACCATCTCCTCTGGAAA 60.055 47.826 0.00 0.00 37.22 3.13
5365 6020 4.565652 GCAACTACCATCTCCTCTGGAAAA 60.566 45.833 0.00 0.00 37.22 2.29
5366 6021 5.560724 CAACTACCATCTCCTCTGGAAAAA 58.439 41.667 0.00 0.00 37.22 1.94
5367 6022 6.183347 CAACTACCATCTCCTCTGGAAAAAT 58.817 40.000 0.00 0.00 37.22 1.82
5368 6023 7.338710 CAACTACCATCTCCTCTGGAAAAATA 58.661 38.462 0.00 0.00 37.22 1.40
5369 6024 6.890293 ACTACCATCTCCTCTGGAAAAATAC 58.110 40.000 0.00 0.00 37.22 1.89
5370 6025 6.674419 ACTACCATCTCCTCTGGAAAAATACT 59.326 38.462 0.00 0.00 37.22 2.12
5371 6026 7.844779 ACTACCATCTCCTCTGGAAAAATACTA 59.155 37.037 0.00 0.00 37.22 1.82
5372 6027 7.698163 ACCATCTCCTCTGGAAAAATACTAT 57.302 36.000 0.00 0.00 37.22 2.12
5373 6028 7.512992 ACCATCTCCTCTGGAAAAATACTATG 58.487 38.462 0.00 0.00 37.22 2.23
5374 6029 7.127955 ACCATCTCCTCTGGAAAAATACTATGT 59.872 37.037 0.00 0.00 37.22 2.29
5375 6030 7.659390 CCATCTCCTCTGGAAAAATACTATGTC 59.341 40.741 0.00 0.00 35.70 3.06
5376 6031 7.979786 TCTCCTCTGGAAAAATACTATGTCT 57.020 36.000 0.00 0.00 0.00 3.41
5377 6032 8.012957 TCTCCTCTGGAAAAATACTATGTCTC 57.987 38.462 0.00 0.00 0.00 3.36
5378 6033 7.070074 TCTCCTCTGGAAAAATACTATGTCTCC 59.930 40.741 0.00 0.00 0.00 3.71
5379 6034 6.903534 TCCTCTGGAAAAATACTATGTCTCCT 59.096 38.462 0.00 0.00 0.00 3.69
5380 6035 7.070074 TCCTCTGGAAAAATACTATGTCTCCTC 59.930 40.741 0.00 0.00 0.00 3.71
5381 6036 7.070571 CCTCTGGAAAAATACTATGTCTCCTCT 59.929 40.741 0.00 0.00 0.00 3.69
5382 6037 7.786030 TCTGGAAAAATACTATGTCTCCTCTG 58.214 38.462 0.00 0.00 0.00 3.35
5383 6038 6.889198 TGGAAAAATACTATGTCTCCTCTGG 58.111 40.000 0.00 0.00 0.00 3.86
5384 6039 6.672218 TGGAAAAATACTATGTCTCCTCTGGA 59.328 38.462 0.00 0.00 0.00 3.86
5385 6040 7.348274 TGGAAAAATACTATGTCTCCTCTGGAT 59.652 37.037 0.00 0.00 0.00 3.41
5386 6041 8.214364 GGAAAAATACTATGTCTCCTCTGGATT 58.786 37.037 0.00 0.00 0.00 3.01
5387 6042 8.970859 AAAAATACTATGTCTCCTCTGGATTG 57.029 34.615 0.00 0.00 0.00 2.67
5388 6043 6.678568 AATACTATGTCTCCTCTGGATTGG 57.321 41.667 0.00 0.00 0.00 3.16
5389 6044 4.000928 ACTATGTCTCCTCTGGATTGGT 57.999 45.455 0.00 0.00 0.00 3.67
5390 6045 4.366267 ACTATGTCTCCTCTGGATTGGTT 58.634 43.478 0.00 0.00 0.00 3.67
5391 6046 4.785376 ACTATGTCTCCTCTGGATTGGTTT 59.215 41.667 0.00 0.00 0.00 3.27
5392 6047 4.664688 ATGTCTCCTCTGGATTGGTTTT 57.335 40.909 0.00 0.00 0.00 2.43
5393 6048 3.754965 TGTCTCCTCTGGATTGGTTTTG 58.245 45.455 0.00 0.00 0.00 2.44
5394 6049 2.489722 GTCTCCTCTGGATTGGTTTTGC 59.510 50.000 0.00 0.00 0.00 3.68
5395 6050 1.470098 CTCCTCTGGATTGGTTTTGCG 59.530 52.381 0.00 0.00 0.00 4.85
5396 6051 1.202879 TCCTCTGGATTGGTTTTGCGT 60.203 47.619 0.00 0.00 0.00 5.24
5397 6052 1.613437 CCTCTGGATTGGTTTTGCGTT 59.387 47.619 0.00 0.00 0.00 4.84
5398 6053 2.035832 CCTCTGGATTGGTTTTGCGTTT 59.964 45.455 0.00 0.00 0.00 3.60
5399 6054 3.308530 CTCTGGATTGGTTTTGCGTTTC 58.691 45.455 0.00 0.00 0.00 2.78
5400 6055 2.050691 CTGGATTGGTTTTGCGTTTCG 58.949 47.619 0.00 0.00 0.00 3.46
5401 6056 1.405821 TGGATTGGTTTTGCGTTTCGT 59.594 42.857 0.00 0.00 0.00 3.85
5402 6057 1.784283 GGATTGGTTTTGCGTTTCGTG 59.216 47.619 0.00 0.00 0.00 4.35
5403 6058 1.784283 GATTGGTTTTGCGTTTCGTGG 59.216 47.619 0.00 0.00 0.00 4.94
5404 6059 0.809385 TTGGTTTTGCGTTTCGTGGA 59.191 45.000 0.00 0.00 0.00 4.02
5405 6060 1.025812 TGGTTTTGCGTTTCGTGGAT 58.974 45.000 0.00 0.00 0.00 3.41
5406 6061 1.268794 TGGTTTTGCGTTTCGTGGATG 60.269 47.619 0.00 0.00 0.00 3.51
5407 6062 0.775861 GTTTTGCGTTTCGTGGATGC 59.224 50.000 0.00 0.00 0.00 3.91
5408 6063 0.665835 TTTTGCGTTTCGTGGATGCT 59.334 45.000 0.00 0.00 0.00 3.79
5409 6064 1.514003 TTTGCGTTTCGTGGATGCTA 58.486 45.000 0.00 0.00 0.00 3.49
5410 6065 1.075542 TTGCGTTTCGTGGATGCTAG 58.924 50.000 0.00 0.00 0.00 3.42
5411 6066 1.348594 GCGTTTCGTGGATGCTAGC 59.651 57.895 8.10 8.10 0.00 3.42
5412 6067 1.358725 GCGTTTCGTGGATGCTAGCA 61.359 55.000 21.85 21.85 0.00 3.49
5413 6068 0.647410 CGTTTCGTGGATGCTAGCAG 59.353 55.000 23.89 9.10 0.00 4.24
5414 6069 1.735700 CGTTTCGTGGATGCTAGCAGA 60.736 52.381 23.89 11.49 0.00 4.26
5415 6070 2.346803 GTTTCGTGGATGCTAGCAGAA 58.653 47.619 23.89 16.82 0.00 3.02
5416 6071 2.299993 TTCGTGGATGCTAGCAGAAG 57.700 50.000 23.89 11.51 0.00 2.85
5417 6072 1.474330 TCGTGGATGCTAGCAGAAGA 58.526 50.000 23.89 13.56 0.00 2.87
5418 6073 1.824852 TCGTGGATGCTAGCAGAAGAA 59.175 47.619 23.89 3.97 0.00 2.52
5419 6074 1.929836 CGTGGATGCTAGCAGAAGAAC 59.070 52.381 23.89 14.58 0.00 3.01
5420 6075 1.929836 GTGGATGCTAGCAGAAGAACG 59.070 52.381 23.89 0.00 0.00 3.95
5421 6076 0.933796 GGATGCTAGCAGAAGAACGC 59.066 55.000 23.89 4.60 0.00 4.84
5422 6077 0.574454 GATGCTAGCAGAAGAACGCG 59.426 55.000 23.89 3.53 0.00 6.01
5423 6078 1.424493 ATGCTAGCAGAAGAACGCGC 61.424 55.000 23.89 0.00 0.00 6.86
5424 6079 1.807573 GCTAGCAGAAGAACGCGCT 60.808 57.895 10.63 0.00 36.44 5.92
5425 6080 1.355066 GCTAGCAGAAGAACGCGCTT 61.355 55.000 10.63 1.30 34.81 4.68
5426 6081 0.368227 CTAGCAGAAGAACGCGCTTG 59.632 55.000 5.73 0.00 34.81 4.01
5427 6082 0.319555 TAGCAGAAGAACGCGCTTGT 60.320 50.000 5.73 0.00 34.81 3.16
5428 6083 1.160329 AGCAGAAGAACGCGCTTGTT 61.160 50.000 5.73 2.42 34.02 2.83
5429 6084 0.317020 GCAGAAGAACGCGCTTGTTT 60.317 50.000 5.73 0.00 30.75 2.83
5430 6085 1.663494 CAGAAGAACGCGCTTGTTTC 58.337 50.000 5.73 1.36 30.75 2.78
5431 6086 1.261619 CAGAAGAACGCGCTTGTTTCT 59.738 47.619 5.73 4.25 30.75 2.52
5432 6087 1.940613 AGAAGAACGCGCTTGTTTCTT 59.059 42.857 18.16 18.16 30.75 2.52
5433 6088 2.036933 GAAGAACGCGCTTGTTTCTTG 58.963 47.619 21.73 0.57 30.75 3.02
5434 6089 1.014352 AGAACGCGCTTGTTTCTTGT 58.986 45.000 5.73 0.00 30.75 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.336554 TCTACGTCTTCCCGAAAACG 57.663 50.000 1.91 1.91 40.77 3.60
30 31 0.981183 ATTCAACCACGCCACCTCTA 59.019 50.000 0.00 0.00 0.00 2.43
31 32 0.321653 GATTCAACCACGCCACCTCT 60.322 55.000 0.00 0.00 0.00 3.69
37 47 0.652592 CGATCAGATTCAACCACGCC 59.347 55.000 0.00 0.00 0.00 5.68
69 85 1.862602 AATCGAGCACGGCAAAACCC 61.863 55.000 3.11 0.00 40.21 4.11
159 178 1.342496 CATAGCTGGAGCATCGGAAGA 59.658 52.381 0.00 0.00 45.16 2.87
171 190 1.068083 ACGACGCATCCATAGCTGG 59.932 57.895 0.00 0.00 44.64 4.85
241 260 7.451429 CATCGAAGTGATTTTACAGAAGTCAG 58.549 38.462 0.00 0.00 34.13 3.51
276 296 0.746563 TTACAGCAAGCATACCGGCC 60.747 55.000 0.00 0.00 0.00 6.13
327 350 1.202806 TCAAACTGCAACTCCCAGGAG 60.203 52.381 12.29 12.29 46.91 3.69
340 363 2.359900 GGGCATCTACCTGTCAAACTG 58.640 52.381 0.00 0.00 0.00 3.16
378 401 1.136363 CATAACAGTTGACCACACGCG 60.136 52.381 3.53 3.53 0.00 6.01
380 403 3.059188 GGTTCATAACAGTTGACCACACG 60.059 47.826 0.00 0.00 0.00 4.49
388 411 5.163663 ACACAACACAGGTTCATAACAGTTG 60.164 40.000 0.00 0.00 37.41 3.16
890 917 3.540314 AGACATGAATGAGACAGAGCC 57.460 47.619 0.00 0.00 0.00 4.70
943 970 4.819630 AGACTGCAAACTTTAAACGGATGA 59.180 37.500 0.00 0.00 0.00 2.92
1089 1117 1.107114 CAGCTCTCCTACGTGGTGAT 58.893 55.000 0.00 0.00 37.65 3.06
1218 1246 0.394938 TCTTGCCGCACCTTAACAGA 59.605 50.000 0.00 0.00 0.00 3.41
1272 1300 3.137544 TGAAAGTGCCCTTCTTTAGGTCA 59.862 43.478 0.00 0.00 43.07 4.02
1399 1427 8.746530 AGAACATAATTTGATGAATGCTGAACT 58.253 29.630 0.00 0.00 0.00 3.01
1419 1447 4.885907 CACATGGGAGAAGCATAAGAACAT 59.114 41.667 0.00 0.00 0.00 2.71
1426 1454 3.370846 CCAACTCACATGGGAGAAGCATA 60.371 47.826 31.53 0.00 38.30 3.14
1539 1912 5.767269 TCAAAGAAGCATATCACGCAAAAA 58.233 33.333 0.00 0.00 0.00 1.94
1697 2103 7.974501 AGTTACGATGTCTGAAACTAATACCTG 59.025 37.037 0.00 0.00 0.00 4.00
1860 2266 1.716503 AGCAAGGGGTTAGTGGGAATT 59.283 47.619 0.00 0.00 0.00 2.17
1891 2297 3.572222 GGACGGGGTTGTGGGGAA 61.572 66.667 0.00 0.00 0.00 3.97
1892 2298 4.902258 TGGACGGGGTTGTGGGGA 62.902 66.667 0.00 0.00 0.00 4.81
2010 2614 7.630242 AGTGGTCAACTGGTCATATAAAATG 57.370 36.000 0.00 0.00 37.88 2.32
2043 2647 6.623549 CGCAAGGAACATAATTCAAGTCACAT 60.624 38.462 0.00 0.00 0.00 3.21
2171 2775 6.538742 TCACTTAGATGTGCAATAACTAAGGC 59.461 38.462 22.21 0.00 42.10 4.35
2176 2780 6.701340 TGAGTCACTTAGATGTGCAATAACT 58.299 36.000 0.00 0.00 37.81 2.24
2238 2842 3.694566 GGAGATTTGTGCCGGTATTTTCT 59.305 43.478 1.90 0.00 0.00 2.52
2239 2843 3.486875 CGGAGATTTGTGCCGGTATTTTC 60.487 47.826 1.90 0.00 41.29 2.29
2240 2844 2.422127 CGGAGATTTGTGCCGGTATTTT 59.578 45.455 1.90 0.00 41.29 1.82
2242 2846 1.663695 CGGAGATTTGTGCCGGTATT 58.336 50.000 1.90 0.00 41.29 1.89
2244 2848 1.448893 GCGGAGATTTGTGCCGGTA 60.449 57.895 1.90 0.00 44.92 4.02
2245 2849 2.746277 GCGGAGATTTGTGCCGGT 60.746 61.111 1.90 0.00 44.92 5.28
2246 2850 3.864686 CGCGGAGATTTGTGCCGG 61.865 66.667 0.00 0.00 44.92 6.13
2248 2852 0.800012 TTTACGCGGAGATTTGTGCC 59.200 50.000 12.47 0.00 0.00 5.01
2249 2853 2.505866 CTTTTACGCGGAGATTTGTGC 58.494 47.619 12.47 0.00 0.00 4.57
2331 2935 6.531240 AGCAGGAAATAAACATTATTTGTGCG 59.469 34.615 20.39 8.62 38.99 5.34
2359 2963 4.610945 CACAAAAGGTTCTAAGCAAGTGG 58.389 43.478 0.00 0.00 0.00 4.00
2464 3068 7.177568 TGAAAACAAGGCAAATAATACTAGGCA 59.822 33.333 0.00 0.00 0.00 4.75
2484 3088 8.006741 AGTAATCGTGCAAAATGAATGAAAAC 57.993 30.769 0.00 0.00 0.00 2.43
2573 3177 6.321181 TGAGGAAATCTAACAGCTTTGTTGTT 59.679 34.615 1.78 5.27 39.95 2.83
2594 3198 6.929049 TGTTGAGTAACAGTCACTAAATGAGG 59.071 38.462 0.00 0.00 41.66 3.86
2595 3199 7.946655 TGTTGAGTAACAGTCACTAAATGAG 57.053 36.000 0.00 0.00 41.66 2.90
2654 3258 9.135189 CCAAGGAAATTTGATAGGATGTATCAA 57.865 33.333 0.00 3.80 40.82 2.57
3461 4071 0.179006 GGAAGCTGGGGAGCATAAGG 60.179 60.000 0.00 0.00 37.25 2.69
3469 4079 1.004745 GAAACATCTGGAAGCTGGGGA 59.995 52.381 0.00 0.00 33.54 4.81
3583 4193 2.665519 CGCGTTCAACCAAGGAAATGAG 60.666 50.000 0.00 0.00 0.00 2.90
3738 4356 2.282807 GCCATTTGAAAAGGCATGGCC 61.283 52.381 18.24 6.86 46.85 5.36
4109 4727 1.153229 GGCGTACAGGTTGGGATCC 60.153 63.158 1.92 1.92 0.00 3.36
4127 4745 0.040958 GCGAACAGCTGTTGACAAGG 60.041 55.000 35.67 17.30 44.04 3.61
4280 4899 5.163723 GCTGCTGCAAGTGAAATCAGTATTA 60.164 40.000 11.11 0.00 39.41 0.98
4329 4948 2.088423 TCGTATTGGGTGATTGTTGGC 58.912 47.619 0.00 0.00 0.00 4.52
4339 4958 6.246163 AGAGAAATCCTTTTTCGTATTGGGT 58.754 36.000 0.00 0.00 33.86 4.51
4380 4999 4.379243 AACGCGTCTGCCCTGGAG 62.379 66.667 14.44 0.00 38.08 3.86
4479 5098 0.731417 CAGTTGCATAGCTCACAGGC 59.269 55.000 0.00 0.00 0.00 4.85
4496 5115 3.316029 TCAGTCAAATGCAAGTCCAACAG 59.684 43.478 0.00 0.00 0.00 3.16
4535 5154 2.063979 CACGGATACCTGCCTGGGA 61.064 63.158 0.00 0.00 41.11 4.37
4536 5155 2.032860 CTCACGGATACCTGCCTGGG 62.033 65.000 0.00 0.00 41.11 4.45
4663 5304 3.857854 GCCACAGTGAGCGCATCG 61.858 66.667 11.47 0.00 0.00 3.84
4676 5317 0.388520 GCATTTTGAAGGACGGCCAC 60.389 55.000 11.69 3.20 36.29 5.01
4757 5398 1.852157 ACAAGGATGCCAGGTGGGA 60.852 57.895 0.00 0.00 40.01 4.37
4774 5415 0.689412 CCTTCCTCCCTCTCCTCCAC 60.689 65.000 0.00 0.00 0.00 4.02
4802 5443 2.369860 TCATCCATGTGGCATCCTACTC 59.630 50.000 0.00 0.00 34.44 2.59
4820 5461 4.040952 AGAGTCAAAGCTACCACTTGTCAT 59.959 41.667 0.00 0.00 0.00 3.06
4821 5462 3.388024 AGAGTCAAAGCTACCACTTGTCA 59.612 43.478 0.00 0.00 0.00 3.58
4823 5464 4.423625 AAGAGTCAAAGCTACCACTTGT 57.576 40.909 0.00 0.00 0.00 3.16
4824 5465 5.059833 AGAAAGAGTCAAAGCTACCACTTG 58.940 41.667 0.00 0.00 0.00 3.16
4849 5490 0.826715 GCATACTGCTGGAGGAGACA 59.173 55.000 1.72 0.00 40.96 3.41
4864 5505 1.065926 CACCTCTTGCTCACTGGCATA 60.066 52.381 0.00 0.00 42.09 3.14
4868 5509 0.668706 CGACACCTCTTGCTCACTGG 60.669 60.000 0.00 0.00 0.00 4.00
4879 5524 3.967715 GGTCCAAAGCGACACCTC 58.032 61.111 0.00 0.00 34.24 3.85
4900 5545 6.349115 CCAACTCATTCAAACAAGAGGATCAG 60.349 42.308 0.00 0.00 37.82 2.90
4970 5622 0.999228 CACTCGCAGTCAGTCGACAC 60.999 60.000 19.50 8.21 45.23 3.67
5007 5659 5.774690 AGGTGGCAAAGTTTTCATGATAAGA 59.225 36.000 0.00 0.00 0.00 2.10
5016 5669 1.001706 GACGGAGGTGGCAAAGTTTTC 60.002 52.381 0.00 0.00 0.00 2.29
5044 5697 2.400399 CACACCAGTGTTACAGGTACG 58.600 52.381 0.00 0.00 42.83 3.67
5115 5768 3.058160 AGAACATGCTGGCACCGC 61.058 61.111 0.00 0.00 0.00 5.68
5162 5815 3.053455 GGTCTTCGATTTCGCAGATAGG 58.947 50.000 5.66 0.00 42.83 2.57
5163 5816 3.706698 TGGTCTTCGATTTCGCAGATAG 58.293 45.455 5.66 0.00 42.83 2.08
5193 5846 3.246226 GCATTCGCGATATCAAACAGACT 59.754 43.478 10.88 0.00 0.00 3.24
5239 5893 4.347876 TCTTCTCTTCCTTCCATGTGAACA 59.652 41.667 0.00 0.00 0.00 3.18
5263 5918 7.593273 CGAATCTTGTATCCTACACTGATCTTC 59.407 40.741 0.00 0.00 38.63 2.87
5264 5919 7.068839 ACGAATCTTGTATCCTACACTGATCTT 59.931 37.037 0.00 0.00 38.63 2.40
5265 5920 6.547880 ACGAATCTTGTATCCTACACTGATCT 59.452 38.462 0.00 0.00 38.63 2.75
5266 5921 6.638873 CACGAATCTTGTATCCTACACTGATC 59.361 42.308 0.00 0.00 38.63 2.92
5267 5922 6.096987 ACACGAATCTTGTATCCTACACTGAT 59.903 38.462 0.00 0.00 38.63 2.90
5268 5923 5.417894 ACACGAATCTTGTATCCTACACTGA 59.582 40.000 0.00 0.00 38.63 3.41
5269 5924 5.651530 ACACGAATCTTGTATCCTACACTG 58.348 41.667 0.00 0.00 38.63 3.66
5270 5925 5.417894 TGACACGAATCTTGTATCCTACACT 59.582 40.000 0.00 0.00 38.63 3.55
5271 5926 5.515626 GTGACACGAATCTTGTATCCTACAC 59.484 44.000 0.00 0.00 38.63 2.90
5272 5927 5.647589 GTGACACGAATCTTGTATCCTACA 58.352 41.667 0.00 0.00 36.79 2.74
5273 5928 4.733887 CGTGACACGAATCTTGTATCCTAC 59.266 45.833 23.39 0.00 46.05 3.18
5274 5929 4.397103 ACGTGACACGAATCTTGTATCCTA 59.603 41.667 33.12 0.00 46.05 2.94
5275 5930 3.192844 ACGTGACACGAATCTTGTATCCT 59.807 43.478 33.12 4.00 46.05 3.24
5276 5931 3.508762 ACGTGACACGAATCTTGTATCC 58.491 45.455 33.12 0.00 46.05 2.59
5277 5932 4.031426 GGAACGTGACACGAATCTTGTATC 59.969 45.833 33.12 14.99 46.05 2.24
5278 5933 3.924686 GGAACGTGACACGAATCTTGTAT 59.075 43.478 33.12 5.54 46.05 2.29
5279 5934 3.311106 GGAACGTGACACGAATCTTGTA 58.689 45.455 33.12 0.00 46.05 2.41
5280 5935 2.132762 GGAACGTGACACGAATCTTGT 58.867 47.619 33.12 7.10 46.05 3.16
5281 5936 2.856091 GGAACGTGACACGAATCTTG 57.144 50.000 33.12 3.89 46.05 3.02
5304 5959 0.523072 AGCCAGCAATAGCACGTTTG 59.477 50.000 0.00 0.00 45.49 2.93
5305 5960 1.068333 CAAGCCAGCAATAGCACGTTT 60.068 47.619 0.00 0.00 45.49 3.60
5306 5961 0.523072 CAAGCCAGCAATAGCACGTT 59.477 50.000 0.00 0.00 45.49 3.99
5307 5962 0.606401 ACAAGCCAGCAATAGCACGT 60.606 50.000 0.00 0.00 45.49 4.49
5308 5963 0.523072 AACAAGCCAGCAATAGCACG 59.477 50.000 0.00 0.00 45.49 5.34
5309 5964 1.986698 CAACAAGCCAGCAATAGCAC 58.013 50.000 0.00 0.00 45.49 4.40
5310 5965 0.244450 GCAACAAGCCAGCAATAGCA 59.756 50.000 0.00 0.00 39.64 3.49
5311 5966 0.799534 CGCAACAAGCCAGCAATAGC 60.800 55.000 0.00 0.00 41.38 2.97
5312 5967 0.179156 CCGCAACAAGCCAGCAATAG 60.179 55.000 0.00 0.00 41.38 1.73
5313 5968 0.607762 TCCGCAACAAGCCAGCAATA 60.608 50.000 0.00 0.00 41.38 1.90
5314 5969 1.462731 TTCCGCAACAAGCCAGCAAT 61.463 50.000 0.00 0.00 41.38 3.56
5315 5970 1.462731 ATTCCGCAACAAGCCAGCAA 61.463 50.000 0.00 0.00 41.38 3.91
5316 5971 1.865788 GATTCCGCAACAAGCCAGCA 61.866 55.000 0.00 0.00 41.38 4.41
5317 5972 1.153958 GATTCCGCAACAAGCCAGC 60.154 57.895 0.00 0.00 41.38 4.85
5318 5973 1.135315 CGATTCCGCAACAAGCCAG 59.865 57.895 0.00 0.00 41.38 4.85
5319 5974 1.599518 ACGATTCCGCAACAAGCCA 60.600 52.632 0.00 0.00 41.38 4.75
5320 5975 1.154225 CACGATTCCGCAACAAGCC 60.154 57.895 0.00 0.00 41.38 4.35
5321 5976 1.154225 CCACGATTCCGCAACAAGC 60.154 57.895 0.00 0.00 39.95 4.01
5322 5977 0.165944 GTCCACGATTCCGCAACAAG 59.834 55.000 0.00 0.00 39.95 3.16
5323 5978 1.561717 CGTCCACGATTCCGCAACAA 61.562 55.000 0.00 0.00 43.02 2.83
5324 5979 2.024868 CGTCCACGATTCCGCAACA 61.025 57.895 0.00 0.00 43.02 3.33
5325 5980 2.776072 CGTCCACGATTCCGCAAC 59.224 61.111 0.00 0.00 43.02 4.17
5326 5981 3.115892 GCGTCCACGATTCCGCAA 61.116 61.111 2.58 0.00 45.12 4.85
5328 5983 3.115892 TTGCGTCCACGATTCCGC 61.116 61.111 2.58 0.00 45.92 5.54
5329 5984 0.457166 TAGTTGCGTCCACGATTCCG 60.457 55.000 2.58 0.00 43.02 4.30
5330 5985 0.997196 GTAGTTGCGTCCACGATTCC 59.003 55.000 2.58 0.00 43.02 3.01
5331 5986 0.997196 GGTAGTTGCGTCCACGATTC 59.003 55.000 2.58 0.00 43.02 2.52
5332 5987 0.319083 TGGTAGTTGCGTCCACGATT 59.681 50.000 2.58 0.00 43.02 3.34
5333 5988 0.535335 ATGGTAGTTGCGTCCACGAT 59.465 50.000 2.58 0.00 43.02 3.73
5334 5989 0.108992 GATGGTAGTTGCGTCCACGA 60.109 55.000 2.58 0.00 43.02 4.35
5335 5990 0.108804 AGATGGTAGTTGCGTCCACG 60.109 55.000 0.00 0.00 43.27 4.94
5336 5991 1.641577 GAGATGGTAGTTGCGTCCAC 58.358 55.000 0.00 0.00 33.91 4.02
5337 5992 0.535335 GGAGATGGTAGTTGCGTCCA 59.465 55.000 0.00 0.00 35.64 4.02
5338 5993 0.824759 AGGAGATGGTAGTTGCGTCC 59.175 55.000 0.00 0.00 0.00 4.79
5339 5994 1.751924 AGAGGAGATGGTAGTTGCGTC 59.248 52.381 0.00 0.00 0.00 5.19
5340 5995 1.478510 CAGAGGAGATGGTAGTTGCGT 59.521 52.381 0.00 0.00 0.00 5.24
5341 5996 1.202463 CCAGAGGAGATGGTAGTTGCG 60.202 57.143 0.00 0.00 32.85 4.85
5342 5997 2.111384 TCCAGAGGAGATGGTAGTTGC 58.889 52.381 0.00 0.00 39.01 4.17
5343 5998 4.826274 TTTCCAGAGGAGATGGTAGTTG 57.174 45.455 0.00 0.00 39.01 3.16
5344 5999 5.843019 TTTTTCCAGAGGAGATGGTAGTT 57.157 39.130 0.00 0.00 39.01 2.24
5345 6000 6.674419 AGTATTTTTCCAGAGGAGATGGTAGT 59.326 38.462 0.00 0.00 39.01 2.73
5346 6001 7.130681 AGTATTTTTCCAGAGGAGATGGTAG 57.869 40.000 0.00 0.00 39.01 3.18
5347 6002 8.651389 CATAGTATTTTTCCAGAGGAGATGGTA 58.349 37.037 0.00 0.00 39.01 3.25
5348 6003 7.127955 ACATAGTATTTTTCCAGAGGAGATGGT 59.872 37.037 0.00 0.00 39.01 3.55
5349 6004 7.512992 ACATAGTATTTTTCCAGAGGAGATGG 58.487 38.462 0.00 0.00 39.33 3.51
5350 6005 8.428063 AGACATAGTATTTTTCCAGAGGAGATG 58.572 37.037 0.00 0.00 31.21 2.90
5351 6006 8.560124 AGACATAGTATTTTTCCAGAGGAGAT 57.440 34.615 0.00 0.00 31.21 2.75
5352 6007 7.070074 GGAGACATAGTATTTTTCCAGAGGAGA 59.930 40.741 1.83 0.00 31.21 3.71
5353 6008 7.070571 AGGAGACATAGTATTTTTCCAGAGGAG 59.929 40.741 8.22 0.00 31.21 3.69
5354 6009 6.903534 AGGAGACATAGTATTTTTCCAGAGGA 59.096 38.462 8.22 0.00 0.00 3.71
5355 6010 7.070571 AGAGGAGACATAGTATTTTTCCAGAGG 59.929 40.741 8.22 0.00 0.00 3.69
5356 6011 7.925483 CAGAGGAGACATAGTATTTTTCCAGAG 59.075 40.741 8.22 0.00 0.00 3.35
5357 6012 7.147655 CCAGAGGAGACATAGTATTTTTCCAGA 60.148 40.741 8.22 0.00 0.00 3.86
5358 6013 6.989169 CCAGAGGAGACATAGTATTTTTCCAG 59.011 42.308 8.22 0.00 0.00 3.86
5359 6014 6.672218 TCCAGAGGAGACATAGTATTTTTCCA 59.328 38.462 8.22 0.00 0.00 3.53
5360 6015 7.125792 TCCAGAGGAGACATAGTATTTTTCC 57.874 40.000 0.00 0.00 0.00 3.13
5361 6016 9.050601 CAATCCAGAGGAGACATAGTATTTTTC 57.949 37.037 0.00 0.00 34.05 2.29
5362 6017 7.995488 CCAATCCAGAGGAGACATAGTATTTTT 59.005 37.037 0.00 0.00 34.05 1.94
5363 6018 7.127955 ACCAATCCAGAGGAGACATAGTATTTT 59.872 37.037 0.00 0.00 34.05 1.82
5364 6019 6.617371 ACCAATCCAGAGGAGACATAGTATTT 59.383 38.462 0.00 0.00 34.05 1.40
5365 6020 6.146760 ACCAATCCAGAGGAGACATAGTATT 58.853 40.000 0.00 0.00 34.05 1.89
5366 6021 5.721225 ACCAATCCAGAGGAGACATAGTAT 58.279 41.667 0.00 0.00 34.05 2.12
5367 6022 5.144159 ACCAATCCAGAGGAGACATAGTA 57.856 43.478 0.00 0.00 34.05 1.82
5368 6023 4.000928 ACCAATCCAGAGGAGACATAGT 57.999 45.455 0.00 0.00 34.05 2.12
5369 6024 5.365021 AAACCAATCCAGAGGAGACATAG 57.635 43.478 0.00 0.00 34.05 2.23
5370 6025 5.500234 CAAAACCAATCCAGAGGAGACATA 58.500 41.667 0.00 0.00 34.05 2.29
5371 6026 4.338879 CAAAACCAATCCAGAGGAGACAT 58.661 43.478 0.00 0.00 34.05 3.06
5372 6027 3.754965 CAAAACCAATCCAGAGGAGACA 58.245 45.455 0.00 0.00 34.05 3.41
5373 6028 2.489722 GCAAAACCAATCCAGAGGAGAC 59.510 50.000 0.00 0.00 34.05 3.36
5374 6029 2.795329 GCAAAACCAATCCAGAGGAGA 58.205 47.619 0.00 0.00 34.05 3.71
5375 6030 1.470098 CGCAAAACCAATCCAGAGGAG 59.530 52.381 0.00 0.00 34.05 3.69
5376 6031 1.202879 ACGCAAAACCAATCCAGAGGA 60.203 47.619 0.00 0.00 35.55 3.71
5377 6032 1.247567 ACGCAAAACCAATCCAGAGG 58.752 50.000 0.00 0.00 0.00 3.69
5378 6033 3.308530 GAAACGCAAAACCAATCCAGAG 58.691 45.455 0.00 0.00 0.00 3.35
5379 6034 2.287308 CGAAACGCAAAACCAATCCAGA 60.287 45.455 0.00 0.00 0.00 3.86
5380 6035 2.050691 CGAAACGCAAAACCAATCCAG 58.949 47.619 0.00 0.00 0.00 3.86
5381 6036 1.405821 ACGAAACGCAAAACCAATCCA 59.594 42.857 0.00 0.00 0.00 3.41
5382 6037 1.784283 CACGAAACGCAAAACCAATCC 59.216 47.619 0.00 0.00 0.00 3.01
5383 6038 1.784283 CCACGAAACGCAAAACCAATC 59.216 47.619 0.00 0.00 0.00 2.67
5384 6039 1.405821 TCCACGAAACGCAAAACCAAT 59.594 42.857 0.00 0.00 0.00 3.16
5385 6040 0.809385 TCCACGAAACGCAAAACCAA 59.191 45.000 0.00 0.00 0.00 3.67
5386 6041 1.025812 ATCCACGAAACGCAAAACCA 58.974 45.000 0.00 0.00 0.00 3.67
5387 6042 1.404477 CATCCACGAAACGCAAAACC 58.596 50.000 0.00 0.00 0.00 3.27
5388 6043 0.775861 GCATCCACGAAACGCAAAAC 59.224 50.000 0.00 0.00 0.00 2.43
5389 6044 0.665835 AGCATCCACGAAACGCAAAA 59.334 45.000 0.00 0.00 0.00 2.44
5390 6045 1.463056 CTAGCATCCACGAAACGCAAA 59.537 47.619 0.00 0.00 0.00 3.68
5391 6046 1.075542 CTAGCATCCACGAAACGCAA 58.924 50.000 0.00 0.00 0.00 4.85
5392 6047 1.358725 GCTAGCATCCACGAAACGCA 61.359 55.000 10.63 0.00 0.00 5.24
5393 6048 1.348594 GCTAGCATCCACGAAACGC 59.651 57.895 10.63 0.00 0.00 4.84
5394 6049 0.647410 CTGCTAGCATCCACGAAACG 59.353 55.000 19.72 0.00 0.00 3.60
5395 6050 2.010145 TCTGCTAGCATCCACGAAAC 57.990 50.000 19.72 0.00 0.00 2.78
5396 6051 2.233676 TCTTCTGCTAGCATCCACGAAA 59.766 45.455 19.72 6.23 0.00 3.46
5397 6052 1.824852 TCTTCTGCTAGCATCCACGAA 59.175 47.619 19.72 16.08 0.00 3.85
5398 6053 1.474330 TCTTCTGCTAGCATCCACGA 58.526 50.000 19.72 8.81 0.00 4.35
5399 6054 1.929836 GTTCTTCTGCTAGCATCCACG 59.070 52.381 19.72 6.19 0.00 4.94
5400 6055 1.929836 CGTTCTTCTGCTAGCATCCAC 59.070 52.381 19.72 9.85 0.00 4.02
5401 6056 1.740380 GCGTTCTTCTGCTAGCATCCA 60.740 52.381 19.72 2.13 0.00 3.41
5402 6057 0.933796 GCGTTCTTCTGCTAGCATCC 59.066 55.000 19.72 1.88 0.00 3.51
5403 6058 0.574454 CGCGTTCTTCTGCTAGCATC 59.426 55.000 19.72 4.25 0.00 3.91
5404 6059 1.424493 GCGCGTTCTTCTGCTAGCAT 61.424 55.000 19.72 0.00 0.00 3.79
5405 6060 2.094659 GCGCGTTCTTCTGCTAGCA 61.095 57.895 18.22 18.22 0.00 3.49
5406 6061 1.355066 AAGCGCGTTCTTCTGCTAGC 61.355 55.000 8.10 8.10 36.49 3.42
5407 6062 0.368227 CAAGCGCGTTCTTCTGCTAG 59.632 55.000 8.43 0.00 36.49 3.42
5408 6063 0.319555 ACAAGCGCGTTCTTCTGCTA 60.320 50.000 8.43 0.00 36.49 3.49
5409 6064 1.160329 AACAAGCGCGTTCTTCTGCT 61.160 50.000 8.43 0.00 39.89 4.24
5410 6065 0.317020 AAACAAGCGCGTTCTTCTGC 60.317 50.000 8.43 0.00 0.00 4.26
5411 6066 1.261619 AGAAACAAGCGCGTTCTTCTG 59.738 47.619 8.43 0.00 0.00 3.02
5412 6067 1.583054 AGAAACAAGCGCGTTCTTCT 58.417 45.000 8.43 8.44 0.00 2.85
5413 6068 2.036933 CAAGAAACAAGCGCGTTCTTC 58.963 47.619 20.85 14.22 0.00 2.87
5414 6069 1.400494 ACAAGAAACAAGCGCGTTCTT 59.600 42.857 19.09 19.09 0.00 2.52
5415 6070 1.014352 ACAAGAAACAAGCGCGTTCT 58.986 45.000 8.43 5.43 0.00 3.01
5416 6071 3.526825 ACAAGAAACAAGCGCGTTC 57.473 47.368 8.43 2.70 0.00 3.95


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

AutoCloner maintained by Alex Coulton.