Multiple sequence alignment - TraesCS4B01G273600

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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 TraesCS4B01G273600 chr4B 100.000 5051 0 0 1 5051 551699164 551694114 0.000000e+00 9328
1 TraesCS4B01G273600 chr4B 99.020 2652 25 1 1560 4210 551751185 551748534 0.000000e+00 4752
2 TraesCS4B01G273600 chr4B 97.008 1571 37 7 1 1562 551762394 551760825 0.000000e+00 2632
3 TraesCS4B01G273600 chr4B 84.442 887 96 17 1311 2180 551789891 551789030 0.000000e+00 835
4 TraesCS4B01G273600 chr4B 84.593 675 83 12 3407 4076 551788079 551787421 0.000000e+00 651
5 TraesCS4B01G273600 chr4B 84.296 675 85 12 3407 4076 551733476 551732818 1.530000e-179 640
6 TraesCS4B01G273600 chr4B 95.640 367 14 1 4685 5051 551748323 551747959 5.630000e-164 588
7 TraesCS4B01G273600 chr4B 84.219 602 61 13 1588 2180 551735003 551734427 5.710000e-154 555
8 TraesCS4B01G273600 chr4B 96.708 243 3 2 4208 4446 138301114 138301355 2.830000e-107 399
9 TraesCS4B01G273600 chr4B 97.653 213 4 1 4445 4656 551748535 551748323 1.030000e-96 364
10 TraesCS4B01G273600 chr4B 91.339 254 16 4 4208 4456 46588179 46587927 4.840000e-90 342
11 TraesCS4B01G273600 chr4B 75.140 716 119 35 3407 4083 551744652 551743957 1.070000e-71 281
12 TraesCS4B01G273600 chr4D 96.167 1774 44 8 896 2650 442799016 442797248 0.000000e+00 2878
13 TraesCS4B01G273600 chr4D 89.831 885 79 6 1 883 405710256 405709381 0.000000e+00 1125
14 TraesCS4B01G273600 chr4D 96.580 614 16 2 2642 3254 442761816 442761207 0.000000e+00 1013
15 TraesCS4B01G273600 chr4D 87.753 792 70 10 3409 4198 442761135 442760369 0.000000e+00 900
16 TraesCS4B01G273600 chr4D 84.434 893 95 13 1311 2176 442891568 442890693 0.000000e+00 839
17 TraesCS4B01G273600 chr4D 86.290 496 61 4 3407 3900 442888258 442887768 2.680000e-147 532
18 TraesCS4B01G273600 chr4D 91.964 224 17 1 4679 4901 442759999 442759776 3.800000e-81 313
19 TraesCS4B01G273600 chr4D 83.453 278 28 13 944 1210 442891769 442891499 5.050000e-60 243
20 TraesCS4B01G273600 chr4D 74.848 493 92 16 3623 4093 442752079 442751597 1.430000e-45 195
21 TraesCS4B01G273600 chr4D 95.690 116 4 1 3286 3401 261758015 261757901 8.640000e-43 185
22 TraesCS4B01G273600 chr4D 77.429 319 59 7 2803 3115 442748900 442748589 1.450000e-40 178
23 TraesCS4B01G273600 chr4D 84.916 179 18 6 3897 4073 442881574 442881745 6.720000e-39 172
24 TraesCS4B01G273600 chr4D 90.909 55 5 0 4921 4975 442759781 442759727 1.950000e-09 75
25 TraesCS4B01G273600 chr2D 87.600 879 92 14 1 873 194749016 194748149 0.000000e+00 1003
26 TraesCS4B01G273600 chr6A 87.174 881 104 4 5 883 74394361 74393488 0.000000e+00 992
27 TraesCS4B01G273600 chr6A 90.698 258 16 6 4207 4458 76432274 76432019 2.250000e-88 337
28 TraesCS4B01G273600 chr6A 94.309 123 4 3 3278 3399 408886196 408886076 8.640000e-43 185
29 TraesCS4B01G273600 chr3D 91.269 733 55 5 1 731 606503443 606502718 0.000000e+00 990
30 TraesCS4B01G273600 chr3D 92.683 123 7 2 3283 3405 43587334 43587214 5.200000e-40 176
31 TraesCS4B01G273600 chr7B 85.118 887 114 15 1 880 219496998 219497873 0.000000e+00 891
32 TraesCS4B01G273600 chr5D 84.650 899 112 18 1 888 391869268 391868385 0.000000e+00 872
33 TraesCS4B01G273600 chr5A 84.642 879 114 17 10 883 550500354 550499492 0.000000e+00 856
34 TraesCS4B01G273600 chr5A 84.396 878 118 13 2 872 591954067 591953202 0.000000e+00 845
35 TraesCS4B01G273600 chr4A 84.361 876 95 15 1311 2171 24808656 24809504 0.000000e+00 821
36 TraesCS4B01G273600 chr4A 86.567 670 73 9 3407 4073 24810467 24811122 0.000000e+00 723
37 TraesCS4B01G273600 chr4A 91.860 258 12 6 4209 4459 80973128 80972873 8.050000e-93 351
38 TraesCS4B01G273600 chr4A 91.373 255 16 4 4203 4452 75429799 75430052 1.350000e-90 344
39 TraesCS4B01G273600 chrUn 100.000 401 0 0 2527 2927 478612676 478613076 0.000000e+00 741
40 TraesCS4B01G273600 chrUn 100.000 393 0 0 2133 2525 479579448 479579840 0.000000e+00 726
41 TraesCS4B01G273600 chr2A 93.496 246 11 3 4209 4450 454913725 454913969 1.340000e-95 361
42 TraesCS4B01G273600 chr7A 92.683 246 12 4 4209 4449 560392843 560393087 2.890000e-92 350
43 TraesCS4B01G273600 chr7A 90.875 263 16 6 4197 4454 694023123 694023382 3.740000e-91 346
44 TraesCS4B01G273600 chr6B 92.095 253 13 5 4209 4455 567881543 567881794 2.890000e-92 350
45 TraesCS4B01G273600 chr6B 98.182 110 1 1 3289 3398 591265488 591265596 1.860000e-44 191
46 TraesCS4B01G273600 chr6D 95.726 117 3 2 3291 3406 401298519 401298634 2.400000e-43 187
47 TraesCS4B01G273600 chr1B 94.262 122 6 1 3282 3403 15616820 15616940 8.640000e-43 185
48 TraesCS4B01G273600 chr2B 92.800 125 7 2 3275 3398 25366108 25365985 4.020000e-41 180
49 TraesCS4B01G273600 chr5B 90.909 132 11 1 3291 3422 558558696 558558566 5.200000e-40 176


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 TraesCS4B01G273600 chr4B 551694114 551699164 5050 True 9328.00 9328 100.000000 1 5051 1 chr4B.!!$R2 5050
1 TraesCS4B01G273600 chr4B 551760825 551762394 1569 True 2632.00 2632 97.008000 1 1562 1 chr4B.!!$R3 1561
2 TraesCS4B01G273600 chr4B 551743957 551751185 7228 True 1496.25 4752 91.863250 1560 5051 4 chr4B.!!$R5 3491
3 TraesCS4B01G273600 chr4B 551787421 551789891 2470 True 743.00 835 84.517500 1311 4076 2 chr4B.!!$R6 2765
4 TraesCS4B01G273600 chr4B 551732818 551735003 2185 True 597.50 640 84.257500 1588 4076 2 chr4B.!!$R4 2488
5 TraesCS4B01G273600 chr4D 442797248 442799016 1768 True 2878.00 2878 96.167000 896 2650 1 chr4D.!!$R3 1754
6 TraesCS4B01G273600 chr4D 405709381 405710256 875 True 1125.00 1125 89.831000 1 883 1 chr4D.!!$R2 882
7 TraesCS4B01G273600 chr4D 442759727 442761816 2089 True 575.25 1013 91.801500 2642 4975 4 chr4D.!!$R5 2333
8 TraesCS4B01G273600 chr4D 442887768 442891769 4001 True 538.00 839 84.725667 944 3900 3 chr4D.!!$R6 2956
9 TraesCS4B01G273600 chr2D 194748149 194749016 867 True 1003.00 1003 87.600000 1 873 1 chr2D.!!$R1 872
10 TraesCS4B01G273600 chr6A 74393488 74394361 873 True 992.00 992 87.174000 5 883 1 chr6A.!!$R1 878
11 TraesCS4B01G273600 chr3D 606502718 606503443 725 True 990.00 990 91.269000 1 731 1 chr3D.!!$R2 730
12 TraesCS4B01G273600 chr7B 219496998 219497873 875 False 891.00 891 85.118000 1 880 1 chr7B.!!$F1 879
13 TraesCS4B01G273600 chr5D 391868385 391869268 883 True 872.00 872 84.650000 1 888 1 chr5D.!!$R1 887
14 TraesCS4B01G273600 chr5A 550499492 550500354 862 True 856.00 856 84.642000 10 883 1 chr5A.!!$R1 873
15 TraesCS4B01G273600 chr5A 591953202 591954067 865 True 845.00 845 84.396000 2 872 1 chr5A.!!$R2 870
16 TraesCS4B01G273600 chr4A 24808656 24811122 2466 False 772.00 821 85.464000 1311 4073 2 chr4A.!!$F2 2762

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
231 238 1.342819 GCCATGTGTTTTGCAGGGTAA 59.657 47.619 0.00 0.0 39.69 2.85 F
763 779 1.801332 CGTAGACGTGTGAGAGGGG 59.199 63.158 0.00 0.0 34.11 4.79 F
1444 1650 2.603021 GTCTGGGAGAGGATATCAGCA 58.397 52.381 4.83 0.0 0.00 4.41 F
3065 4825 2.420687 GCTTTCCCAAGATCACTCCGAT 60.421 50.000 0.00 0.0 36.91 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1834 2068 3.131223 CGATGTAGTGTCACCTTCCTCAT 59.869 47.826 0.00 0.00 0.00 2.90 R
2525 4272 4.561213 TGTTCAGAACGACATGCTATAACG 59.439 41.667 8.80 0.00 0.00 3.18 R
3065 4825 3.413327 TCGTAGCCATTGTAAGCCAAAA 58.587 40.909 0.00 0.00 36.44 2.44 R
5025 6985 0.036306 GGTACAACCTGAGGGTGTGG 59.964 60.000 31.43 0.82 46.67 4.17 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
49 50 3.058708 ACATGTCAGTTTTCACTCATGCG 60.059 43.478 0.00 0.00 38.19 4.73
144 145 3.023119 TGCCATGTATTTTGCAGGGTAG 58.977 45.455 0.00 0.00 39.69 3.18
205 212 3.596214 TCTCTCTTTTACCCGAACATGC 58.404 45.455 0.00 0.00 0.00 4.06
231 238 1.342819 GCCATGTGTTTTGCAGGGTAA 59.657 47.619 0.00 0.00 39.69 2.85
286 297 2.035321 GGCAATTCTCTCTCTACCCGAG 59.965 54.545 0.00 0.00 41.30 4.63
681 696 3.635191 TGACTGTCATGCGGGGCA 61.635 61.111 6.36 0.00 44.86 5.36
711 726 2.760385 AGGTAGGAGGCCTGACGC 60.760 66.667 12.00 0.00 34.61 5.19
763 779 1.801332 CGTAGACGTGTGAGAGGGG 59.199 63.158 0.00 0.00 34.11 4.79
1444 1650 2.603021 GTCTGGGAGAGGATATCAGCA 58.397 52.381 4.83 0.00 0.00 4.41
3065 4825 2.420687 GCTTTCCCAAGATCACTCCGAT 60.421 50.000 0.00 0.00 36.91 4.18
3416 5200 7.184022 AGGGAGTATTTATTAGTGGTTCCTTGT 59.816 37.037 0.00 0.00 0.00 3.16
4038 5826 1.887198 TCCGAGAAGACCAAGACTGAC 59.113 52.381 0.00 0.00 0.00 3.51
4088 5882 6.378280 AGAATGGGATTATGAAACTGAACCAC 59.622 38.462 0.00 0.00 0.00 4.16
4141 5935 4.947645 AGTTGTTTGTGCAGCAATGTTAT 58.052 34.783 0.00 0.00 36.89 1.89
4150 5944 6.554419 TGTGCAGCAATGTTATTGATCTAAC 58.446 36.000 0.00 0.00 33.17 2.34
4186 5980 3.162666 CATCATTTATGCAGGCTGGGAT 58.837 45.455 17.64 6.42 0.00 3.85
4220 6014 8.709272 AGTAGTTAACATATACTCCCTCCTTC 57.291 38.462 8.61 0.00 0.00 3.46
4221 6015 6.997942 AGTTAACATATACTCCCTCCTTCC 57.002 41.667 8.61 0.00 0.00 3.46
4222 6016 6.449956 AGTTAACATATACTCCCTCCTTCCA 58.550 40.000 8.61 0.00 0.00 3.53
4223 6017 7.082972 AGTTAACATATACTCCCTCCTTCCAT 58.917 38.462 8.61 0.00 0.00 3.41
4225 6019 5.361630 ACATATACTCCCTCCTTCCATCT 57.638 43.478 0.00 0.00 0.00 2.90
4226 6020 6.485388 ACATATACTCCCTCCTTCCATCTA 57.515 41.667 0.00 0.00 0.00 1.98
4227 6021 7.062584 ACATATACTCCCTCCTTCCATCTAT 57.937 40.000 0.00 0.00 0.00 1.98
4228 6022 8.188501 ACATATACTCCCTCCTTCCATCTATA 57.811 38.462 0.00 0.00 0.00 1.31
4229 6023 8.806630 ACATATACTCCCTCCTTCCATCTATAT 58.193 37.037 0.00 0.00 0.00 0.86
4232 6026 6.098716 ACTCCCTCCTTCCATCTATATAGG 57.901 45.833 9.89 0.00 0.00 2.57
4233 6027 5.042979 ACTCCCTCCTTCCATCTATATAGGG 60.043 48.000 9.89 4.49 43.23 3.53
4234 6028 3.970640 CCCTCCTTCCATCTATATAGGGC 59.029 52.174 9.89 0.00 36.30 5.19
4235 6029 3.970640 CCTCCTTCCATCTATATAGGGCC 59.029 52.174 9.89 0.00 0.00 5.80
4236 6030 4.327332 CCTCCTTCCATCTATATAGGGCCT 60.327 50.000 12.58 12.58 0.00 5.19
4237 6031 5.103043 CCTCCTTCCATCTATATAGGGCCTA 60.103 48.000 17.16 17.16 0.00 3.93
4238 6032 6.432190 TCCTTCCATCTATATAGGGCCTAA 57.568 41.667 18.91 7.61 0.00 2.69
4239 6033 7.009960 TCCTTCCATCTATATAGGGCCTAAT 57.990 40.000 18.91 14.19 0.00 1.73
4240 6034 6.846505 TCCTTCCATCTATATAGGGCCTAATG 59.153 42.308 18.91 15.42 0.00 1.90
4241 6035 6.465035 CCTTCCATCTATATAGGGCCTAATGC 60.465 46.154 18.91 0.00 40.16 3.56
4242 6036 4.588951 TCCATCTATATAGGGCCTAATGCG 59.411 45.833 18.91 10.04 42.61 4.73
4243 6037 4.345257 CCATCTATATAGGGCCTAATGCGT 59.655 45.833 18.91 2.76 42.61 5.24
4244 6038 5.163301 CCATCTATATAGGGCCTAATGCGTT 60.163 44.000 18.91 1.94 42.61 4.84
4245 6039 6.349300 CATCTATATAGGGCCTAATGCGTTT 58.651 40.000 18.91 1.12 42.61 3.60
4246 6040 6.368779 TCTATATAGGGCCTAATGCGTTTT 57.631 37.500 18.91 0.30 42.61 2.43
4247 6041 6.775708 TCTATATAGGGCCTAATGCGTTTTT 58.224 36.000 18.91 0.00 42.61 1.94
4248 6042 5.959618 ATATAGGGCCTAATGCGTTTTTC 57.040 39.130 18.91 0.00 42.61 2.29
4249 6043 0.808755 AGGGCCTAATGCGTTTTTCG 59.191 50.000 2.82 0.00 42.61 3.46
4250 6044 0.806241 GGGCCTAATGCGTTTTTCGA 59.194 50.000 0.84 0.00 42.61 3.71
4251 6045 1.202143 GGGCCTAATGCGTTTTTCGAG 60.202 52.381 0.84 0.00 42.61 4.04
4252 6046 1.202143 GGCCTAATGCGTTTTTCGAGG 60.202 52.381 0.00 0.00 42.61 4.63
4253 6047 1.794076 GCCTAATGCGTTTTTCGAGGC 60.794 52.381 12.47 12.47 44.30 4.70
4254 6048 1.737793 CCTAATGCGTTTTTCGAGGCT 59.262 47.619 0.00 0.00 42.86 4.58
4255 6049 2.933906 CCTAATGCGTTTTTCGAGGCTA 59.066 45.455 0.00 0.00 42.86 3.93
4256 6050 3.372822 CCTAATGCGTTTTTCGAGGCTAA 59.627 43.478 0.00 0.00 42.86 3.09
4257 6051 4.035208 CCTAATGCGTTTTTCGAGGCTAAT 59.965 41.667 0.00 0.00 42.86 1.73
4258 6052 4.434713 AATGCGTTTTTCGAGGCTAATT 57.565 36.364 0.00 0.00 42.86 1.40
4259 6053 3.907894 TGCGTTTTTCGAGGCTAATTT 57.092 38.095 0.00 0.00 42.86 1.82
4260 6054 4.231718 TGCGTTTTTCGAGGCTAATTTT 57.768 36.364 0.00 0.00 42.86 1.82
4261 6055 3.978217 TGCGTTTTTCGAGGCTAATTTTG 59.022 39.130 0.00 0.00 42.86 2.44
4262 6056 4.223659 GCGTTTTTCGAGGCTAATTTTGA 58.776 39.130 0.00 0.00 42.86 2.69
4263 6057 4.088071 GCGTTTTTCGAGGCTAATTTTGAC 59.912 41.667 0.00 0.00 42.86 3.18
4264 6058 4.615541 CGTTTTTCGAGGCTAATTTTGACC 59.384 41.667 0.00 0.00 42.86 4.02
4265 6059 5.525199 GTTTTTCGAGGCTAATTTTGACCA 58.475 37.500 0.00 0.00 0.00 4.02
4266 6060 5.776173 TTTTCGAGGCTAATTTTGACCAA 57.224 34.783 0.00 0.00 0.00 3.67
4267 6061 5.776173 TTTCGAGGCTAATTTTGACCAAA 57.224 34.783 0.00 0.00 0.00 3.28
4268 6062 5.975693 TTCGAGGCTAATTTTGACCAAAT 57.024 34.783 0.00 0.00 36.57 2.32
4269 6063 5.309323 TCGAGGCTAATTTTGACCAAATG 57.691 39.130 0.00 0.00 35.09 2.32
4270 6064 4.764823 TCGAGGCTAATTTTGACCAAATGT 59.235 37.500 0.00 0.00 35.09 2.71
4271 6065 5.242838 TCGAGGCTAATTTTGACCAAATGTT 59.757 36.000 0.00 0.00 35.09 2.71
4272 6066 6.431543 TCGAGGCTAATTTTGACCAAATGTTA 59.568 34.615 0.00 0.07 35.09 2.41
4273 6067 6.747280 CGAGGCTAATTTTGACCAAATGTTAG 59.253 38.462 15.90 15.90 35.09 2.34
4274 6068 7.361713 CGAGGCTAATTTTGACCAAATGTTAGA 60.362 37.037 20.28 0.86 35.09 2.10
4275 6069 7.830739 AGGCTAATTTTGACCAAATGTTAGAG 58.169 34.615 20.28 8.22 35.09 2.43
4276 6070 6.531594 GGCTAATTTTGACCAAATGTTAGAGC 59.468 38.462 20.28 13.76 35.09 4.09
4277 6071 7.090173 GCTAATTTTGACCAAATGTTAGAGCA 58.910 34.615 20.28 0.00 35.09 4.26
4278 6072 7.598493 GCTAATTTTGACCAAATGTTAGAGCAA 59.402 33.333 20.28 0.00 35.09 3.91
4279 6073 9.643693 CTAATTTTGACCAAATGTTAGAGCAAT 57.356 29.630 15.51 0.00 35.09 3.56
4281 6075 9.995003 AATTTTGACCAAATGTTAGAGCAATAA 57.005 25.926 0.00 0.00 35.09 1.40
4294 6088 9.723601 TGTTAGAGCAATAATATATGACATGCA 57.276 29.630 10.78 0.00 34.89 3.96
4297 6091 8.859236 AGAGCAATAATATATGACATGCAACT 57.141 30.769 10.78 7.52 34.89 3.16
4298 6092 9.293404 AGAGCAATAATATATGACATGCAACTT 57.707 29.630 10.78 0.00 34.89 2.66
4299 6093 9.338291 GAGCAATAATATATGACATGCAACTTG 57.662 33.333 10.78 0.00 34.89 3.16
4300 6094 7.811236 AGCAATAATATATGACATGCAACTTGC 59.189 33.333 6.82 6.82 45.29 4.01
4318 6112 2.697431 GCACAAAGCATACCGTCAAA 57.303 45.000 0.00 0.00 44.79 2.69
4319 6113 3.216147 GCACAAAGCATACCGTCAAAT 57.784 42.857 0.00 0.00 44.79 2.32
4320 6114 3.574614 GCACAAAGCATACCGTCAAATT 58.425 40.909 0.00 0.00 44.79 1.82
4321 6115 3.608073 GCACAAAGCATACCGTCAAATTC 59.392 43.478 0.00 0.00 44.79 2.17
4322 6116 4.793071 CACAAAGCATACCGTCAAATTCA 58.207 39.130 0.00 0.00 0.00 2.57
4323 6117 5.401550 CACAAAGCATACCGTCAAATTCAT 58.598 37.500 0.00 0.00 0.00 2.57
4324 6118 6.550843 CACAAAGCATACCGTCAAATTCATA 58.449 36.000 0.00 0.00 0.00 2.15
4325 6119 7.195646 CACAAAGCATACCGTCAAATTCATAT 58.804 34.615 0.00 0.00 0.00 1.78
4326 6120 7.166307 CACAAAGCATACCGTCAAATTCATATG 59.834 37.037 0.00 0.00 0.00 1.78
4327 6121 5.362556 AGCATACCGTCAAATTCATATGC 57.637 39.130 0.00 6.02 43.29 3.14
4328 6122 4.083855 AGCATACCGTCAAATTCATATGCG 60.084 41.667 0.00 0.00 46.04 4.73
4329 6123 4.084066 GCATACCGTCAAATTCATATGCGA 60.084 41.667 0.00 0.00 36.59 5.10
4330 6124 5.559991 GCATACCGTCAAATTCATATGCGAA 60.560 40.000 0.00 0.00 36.59 4.70
4331 6125 4.955925 ACCGTCAAATTCATATGCGAAA 57.044 36.364 0.00 0.00 0.00 3.46
4332 6126 4.908736 ACCGTCAAATTCATATGCGAAAG 58.091 39.130 0.00 0.00 0.00 2.62
4333 6127 4.201910 ACCGTCAAATTCATATGCGAAAGG 60.202 41.667 0.00 0.00 0.00 3.11
4334 6128 4.035091 CCGTCAAATTCATATGCGAAAGGA 59.965 41.667 0.00 0.00 0.00 3.36
4335 6129 5.200454 CGTCAAATTCATATGCGAAAGGAG 58.800 41.667 0.00 0.00 32.19 3.69
4336 6130 4.972440 GTCAAATTCATATGCGAAAGGAGC 59.028 41.667 0.00 0.00 32.19 4.70
4337 6131 4.883585 TCAAATTCATATGCGAAAGGAGCT 59.116 37.500 0.00 0.00 35.28 4.09
4338 6132 5.357878 TCAAATTCATATGCGAAAGGAGCTT 59.642 36.000 0.00 0.00 35.28 3.74
4339 6133 5.841957 AATTCATATGCGAAAGGAGCTTT 57.158 34.783 0.00 0.00 36.29 3.51
4340 6134 4.882671 TTCATATGCGAAAGGAGCTTTC 57.117 40.909 0.00 0.00 44.29 2.62
4356 6150 9.466497 AAGGAGCTTTCAGTGATATAATTTTCA 57.534 29.630 0.00 0.00 0.00 2.69
4357 6151 8.897752 AGGAGCTTTCAGTGATATAATTTTCAC 58.102 33.333 0.00 7.44 42.03 3.18
4358 6152 8.677300 GGAGCTTTCAGTGATATAATTTTCACA 58.323 33.333 14.51 0.00 43.72 3.58
4377 6171 8.962884 TTTCACATTATGCATAGTCATGTACT 57.037 30.769 17.88 0.00 42.62 2.73
4403 6197 5.551760 AATCTTGTCAATAGTCAAAGGCG 57.448 39.130 0.00 0.00 0.00 5.52
4404 6198 4.002906 TCTTGTCAATAGTCAAAGGCGT 57.997 40.909 0.00 0.00 0.00 5.68
4405 6199 4.385825 TCTTGTCAATAGTCAAAGGCGTT 58.614 39.130 0.00 0.00 0.00 4.84
4406 6200 4.451096 TCTTGTCAATAGTCAAAGGCGTTC 59.549 41.667 0.00 0.00 0.00 3.95
4407 6201 4.002906 TGTCAATAGTCAAAGGCGTTCT 57.997 40.909 0.00 0.00 0.00 3.01
4408 6202 4.385825 TGTCAATAGTCAAAGGCGTTCTT 58.614 39.130 0.00 0.00 37.28 2.52
4409 6203 4.213270 TGTCAATAGTCAAAGGCGTTCTTG 59.787 41.667 0.00 0.00 35.55 3.02
4410 6204 4.213482 GTCAATAGTCAAAGGCGTTCTTGT 59.787 41.667 0.00 0.00 35.55 3.16
4411 6205 5.407387 GTCAATAGTCAAAGGCGTTCTTGTA 59.593 40.000 0.00 0.00 35.55 2.41
4412 6206 5.992829 TCAATAGTCAAAGGCGTTCTTGTAA 59.007 36.000 0.00 0.00 35.55 2.41
4413 6207 6.483974 TCAATAGTCAAAGGCGTTCTTGTAAA 59.516 34.615 0.00 0.00 35.55 2.01
4414 6208 6.870971 ATAGTCAAAGGCGTTCTTGTAAAA 57.129 33.333 0.00 0.00 35.55 1.52
4415 6209 4.916870 AGTCAAAGGCGTTCTTGTAAAAC 58.083 39.130 0.00 0.00 35.55 2.43
4416 6210 4.396790 AGTCAAAGGCGTTCTTGTAAAACA 59.603 37.500 0.00 0.00 35.55 2.83
4417 6211 4.497966 GTCAAAGGCGTTCTTGTAAAACAC 59.502 41.667 0.00 0.00 35.55 3.32
4418 6212 4.156190 TCAAAGGCGTTCTTGTAAAACACA 59.844 37.500 0.00 0.00 35.55 3.72
4419 6213 4.911514 AAGGCGTTCTTGTAAAACACAT 57.088 36.364 0.00 0.00 36.90 3.21
4420 6214 4.911514 AGGCGTTCTTGTAAAACACATT 57.088 36.364 0.00 0.00 36.90 2.71
4421 6215 6.380095 AAGGCGTTCTTGTAAAACACATTA 57.620 33.333 0.00 0.00 36.90 1.90
4422 6216 5.997385 AGGCGTTCTTGTAAAACACATTAG 58.003 37.500 0.00 0.00 36.90 1.73
4423 6217 5.048991 AGGCGTTCTTGTAAAACACATTAGG 60.049 40.000 0.00 0.00 36.90 2.69
4424 6218 4.615541 GCGTTCTTGTAAAACACATTAGGC 59.384 41.667 0.00 0.00 36.90 3.93
4425 6219 5.151389 CGTTCTTGTAAAACACATTAGGCC 58.849 41.667 0.00 0.00 36.90 5.19
4426 6220 5.048991 CGTTCTTGTAAAACACATTAGGCCT 60.049 40.000 11.78 11.78 36.90 5.19
4427 6221 6.514376 CGTTCTTGTAAAACACATTAGGCCTT 60.514 38.462 12.58 0.00 36.90 4.35
4428 6222 7.308109 CGTTCTTGTAAAACACATTAGGCCTTA 60.308 37.037 12.58 0.11 36.90 2.69
4429 6223 7.681939 TCTTGTAAAACACATTAGGCCTTAG 57.318 36.000 12.58 3.50 36.90 2.18
4430 6224 7.455058 TCTTGTAAAACACATTAGGCCTTAGA 58.545 34.615 12.58 0.00 36.90 2.10
4431 6225 8.107095 TCTTGTAAAACACATTAGGCCTTAGAT 58.893 33.333 12.58 0.00 36.90 1.98
4432 6226 7.624360 TGTAAAACACATTAGGCCTTAGATG 57.376 36.000 12.58 15.76 30.04 2.90
4433 6227 6.601613 TGTAAAACACATTAGGCCTTAGATGG 59.398 38.462 12.58 9.85 30.04 3.51
4434 6228 5.450818 AAACACATTAGGCCTTAGATGGA 57.549 39.130 12.58 0.00 0.00 3.41
4435 6229 5.450818 AACACATTAGGCCTTAGATGGAA 57.549 39.130 12.58 0.00 0.00 3.53
4436 6230 5.041191 ACACATTAGGCCTTAGATGGAAG 57.959 43.478 12.58 10.18 0.00 3.46
4474 6268 8.467598 TGTATTATTATTGCGGGTAGAGATCTC 58.532 37.037 15.29 15.29 0.00 2.75
4579 6374 6.605594 TGGCCACTATTTATTTTCTTACCCAG 59.394 38.462 0.00 0.00 0.00 4.45
4666 6626 2.346766 ACATGGAGTGTGCTGTCAAA 57.653 45.000 0.00 0.00 40.28 2.69
4667 6627 2.653726 ACATGGAGTGTGCTGTCAAAA 58.346 42.857 0.00 0.00 40.28 2.44
4668 6628 3.023119 ACATGGAGTGTGCTGTCAAAAA 58.977 40.909 0.00 0.00 40.28 1.94
4919 6879 2.325583 TTCTGCGCCGGAAAATCTAT 57.674 45.000 5.05 0.00 0.00 1.98
4977 6937 6.002704 AGAGAATCATTGTCAAACTTGCTCT 58.997 36.000 0.00 0.00 37.82 4.09
4978 6938 7.164122 AGAGAATCATTGTCAAACTTGCTCTA 58.836 34.615 0.00 0.00 37.82 2.43
5011 6971 2.034124 ACAATCAAGGCTGCACAACTT 58.966 42.857 0.50 0.00 0.00 2.66
5013 6973 3.004734 ACAATCAAGGCTGCACAACTTAC 59.995 43.478 0.50 0.00 0.00 2.34
5018 6978 0.110192 GGCTGCACAACTTACGCTTC 60.110 55.000 0.50 0.00 0.00 3.86
5022 6982 1.495951 CACAACTTACGCTTCGCCC 59.504 57.895 0.00 0.00 0.00 6.13
5023 6983 2.025418 ACAACTTACGCTTCGCCCG 61.025 57.895 0.00 0.00 0.00 6.13
5024 6984 2.025418 CAACTTACGCTTCGCCCGT 61.025 57.895 0.00 0.00 42.26 5.28
5025 6985 1.735559 AACTTACGCTTCGCCCGTC 60.736 57.895 0.00 0.00 39.88 4.79
5026 6986 2.884207 CTTACGCTTCGCCCGTCC 60.884 66.667 0.00 0.00 39.88 4.79
5027 6987 3.636313 CTTACGCTTCGCCCGTCCA 62.636 63.158 0.00 0.00 39.88 4.02
5028 6988 3.919973 TTACGCTTCGCCCGTCCAC 62.920 63.158 0.00 0.00 39.88 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
205 212 1.219646 GCAAAACACATGGCAACTGG 58.780 50.000 0.00 0.00 37.61 4.00
231 238 2.783135 CACACTAGGGCAGTTGTCATT 58.217 47.619 0.00 0.00 34.26 2.57
286 297 7.596248 ACAAAGAGACATGACAAAATAACATGC 59.404 33.333 0.00 0.00 43.21 4.06
490 503 4.479619 CCATTTTTAGACAACTGCAGCTC 58.520 43.478 15.27 6.06 0.00 4.09
525 538 5.552870 AACTGTAGTTGACATCTCAGGTT 57.447 39.130 13.12 5.62 37.45 3.50
681 696 1.410850 CCTACCTCATGGTCCCGCAT 61.411 60.000 0.00 0.00 44.78 4.73
809 828 3.762288 GGATCAGCCCATACGTCTATGTA 59.238 47.826 0.00 0.00 0.00 2.29
1834 2068 3.131223 CGATGTAGTGTCACCTTCCTCAT 59.869 47.826 0.00 0.00 0.00 2.90
2525 4272 4.561213 TGTTCAGAACGACATGCTATAACG 59.439 41.667 8.80 0.00 0.00 3.18
3065 4825 3.413327 TCGTAGCCATTGTAAGCCAAAA 58.587 40.909 0.00 0.00 36.44 2.44
3871 5658 8.533857 GCATAATGCAGAGGTGAACTCACAAG 62.534 46.154 11.76 0.13 45.00 3.16
4038 5826 9.855361 CTTCAGAATCTTAATTATACTGTTGCG 57.145 33.333 0.00 0.00 0.00 4.85
4088 5882 1.669115 CACAGTGCAAGACGAGGGG 60.669 63.158 0.00 0.00 0.00 4.79
4170 5964 2.824689 TTGATCCCAGCCTGCATAAA 57.175 45.000 0.00 0.00 0.00 1.40
4208 6002 6.162420 CCCTATATAGATGGAAGGAGGGAGTA 59.838 46.154 11.53 0.00 44.48 2.59
4209 6003 5.042979 CCCTATATAGATGGAAGGAGGGAGT 60.043 48.000 11.53 0.00 44.48 3.85
4210 6004 5.463154 CCCTATATAGATGGAAGGAGGGAG 58.537 50.000 11.53 0.00 44.48 4.30
4212 6006 3.970640 GCCCTATATAGATGGAAGGAGGG 59.029 52.174 11.53 3.52 44.52 4.30
4213 6007 3.970640 GGCCCTATATAGATGGAAGGAGG 59.029 52.174 11.53 1.87 0.00 4.30
4214 6008 4.889780 AGGCCCTATATAGATGGAAGGAG 58.110 47.826 11.53 0.00 0.00 3.69
4216 6010 6.465035 GCATTAGGCCCTATATAGATGGAAGG 60.465 46.154 11.53 3.94 36.11 3.46
4217 6011 6.529220 GCATTAGGCCCTATATAGATGGAAG 58.471 44.000 11.53 0.00 36.11 3.46
4218 6012 5.070446 CGCATTAGGCCCTATATAGATGGAA 59.930 44.000 11.53 0.00 40.31 3.53
4220 6014 4.345257 ACGCATTAGGCCCTATATAGATGG 59.655 45.833 11.53 6.04 40.31 3.51
4221 6015 5.537300 ACGCATTAGGCCCTATATAGATG 57.463 43.478 11.53 6.87 40.31 2.90
4222 6016 6.561519 AAACGCATTAGGCCCTATATAGAT 57.438 37.500 11.53 0.00 40.31 1.98
4223 6017 6.368779 AAAACGCATTAGGCCCTATATAGA 57.631 37.500 11.53 0.00 40.31 1.98
4225 6019 5.640357 CGAAAAACGCATTAGGCCCTATATA 59.360 40.000 0.00 0.00 40.31 0.86
4226 6020 4.454504 CGAAAAACGCATTAGGCCCTATAT 59.545 41.667 0.00 0.00 40.31 0.86
4227 6021 3.810941 CGAAAAACGCATTAGGCCCTATA 59.189 43.478 0.00 0.00 40.31 1.31
4228 6022 2.616842 CGAAAAACGCATTAGGCCCTAT 59.383 45.455 0.00 0.00 40.31 2.57
4229 6023 2.011222 CGAAAAACGCATTAGGCCCTA 58.989 47.619 0.00 0.00 40.31 3.53
4230 6024 0.808755 CGAAAAACGCATTAGGCCCT 59.191 50.000 0.00 0.00 40.31 5.19
4231 6025 0.806241 TCGAAAAACGCATTAGGCCC 59.194 50.000 0.00 0.00 42.26 5.80
4232 6026 1.202143 CCTCGAAAAACGCATTAGGCC 60.202 52.381 0.00 0.00 42.26 5.19
4233 6027 1.794076 GCCTCGAAAAACGCATTAGGC 60.794 52.381 0.00 0.00 45.73 3.93
4234 6028 1.737793 AGCCTCGAAAAACGCATTAGG 59.262 47.619 0.00 0.00 42.26 2.69
4235 6029 4.593597 TTAGCCTCGAAAAACGCATTAG 57.406 40.909 0.00 0.00 42.26 1.73
4236 6030 5.554822 AATTAGCCTCGAAAAACGCATTA 57.445 34.783 0.00 0.00 42.26 1.90
4237 6031 4.434713 AATTAGCCTCGAAAAACGCATT 57.565 36.364 0.00 0.00 42.26 3.56
4238 6032 4.434713 AAATTAGCCTCGAAAAACGCAT 57.565 36.364 0.00 0.00 42.26 4.73
4239 6033 3.907894 AAATTAGCCTCGAAAAACGCA 57.092 38.095 0.00 0.00 42.26 5.24
4240 6034 4.088071 GTCAAAATTAGCCTCGAAAAACGC 59.912 41.667 0.00 0.00 42.26 4.84
4241 6035 4.615541 GGTCAAAATTAGCCTCGAAAAACG 59.384 41.667 0.00 0.00 44.09 3.60
4242 6036 5.525199 TGGTCAAAATTAGCCTCGAAAAAC 58.475 37.500 0.00 0.00 0.00 2.43
4243 6037 5.776173 TGGTCAAAATTAGCCTCGAAAAA 57.224 34.783 0.00 0.00 0.00 1.94
4244 6038 5.776173 TTGGTCAAAATTAGCCTCGAAAA 57.224 34.783 0.00 0.00 0.00 2.29
4245 6039 5.776173 TTTGGTCAAAATTAGCCTCGAAA 57.224 34.783 0.00 0.00 0.00 3.46
4246 6040 5.242838 ACATTTGGTCAAAATTAGCCTCGAA 59.757 36.000 0.00 0.00 36.28 3.71
4247 6041 4.764823 ACATTTGGTCAAAATTAGCCTCGA 59.235 37.500 0.00 0.00 36.28 4.04
4248 6042 5.059404 ACATTTGGTCAAAATTAGCCTCG 57.941 39.130 0.00 0.00 36.28 4.63
4249 6043 7.826690 TCTAACATTTGGTCAAAATTAGCCTC 58.173 34.615 17.20 0.00 36.28 4.70
4250 6044 7.577616 GCTCTAACATTTGGTCAAAATTAGCCT 60.578 37.037 17.20 0.00 36.28 4.58
4251 6045 6.531594 GCTCTAACATTTGGTCAAAATTAGCC 59.468 38.462 17.20 11.37 36.28 3.93
4252 6046 7.090173 TGCTCTAACATTTGGTCAAAATTAGC 58.910 34.615 17.20 13.28 36.28 3.09
4253 6047 9.643693 ATTGCTCTAACATTTGGTCAAAATTAG 57.356 29.630 16.52 16.52 36.28 1.73
4255 6049 9.995003 TTATTGCTCTAACATTTGGTCAAAATT 57.005 25.926 0.00 1.87 36.28 1.82
4268 6062 9.723601 TGCATGTCATATATTATTGCTCTAACA 57.276 29.630 0.00 0.00 0.00 2.41
4271 6065 9.948964 AGTTGCATGTCATATATTATTGCTCTA 57.051 29.630 0.00 0.00 0.00 2.43
4272 6066 8.859236 AGTTGCATGTCATATATTATTGCTCT 57.141 30.769 0.00 0.00 0.00 4.09
4273 6067 9.338291 CAAGTTGCATGTCATATATTATTGCTC 57.662 33.333 0.00 0.00 0.00 4.26
4274 6068 7.811236 GCAAGTTGCATGTCATATATTATTGCT 59.189 33.333 22.90 0.00 44.26 3.91
4275 6069 7.946043 GCAAGTTGCATGTCATATATTATTGC 58.054 34.615 22.90 0.00 44.26 3.56
4299 6093 2.697431 TTTGACGGTATGCTTTGTGC 57.303 45.000 0.00 0.00 43.25 4.57
4300 6094 4.793071 TGAATTTGACGGTATGCTTTGTG 58.207 39.130 0.00 0.00 0.00 3.33
4301 6095 5.643379 ATGAATTTGACGGTATGCTTTGT 57.357 34.783 0.00 0.00 0.00 2.83
4302 6096 6.142798 GCATATGAATTTGACGGTATGCTTTG 59.857 38.462 6.97 0.00 40.53 2.77
4303 6097 6.208644 GCATATGAATTTGACGGTATGCTTT 58.791 36.000 6.97 0.00 40.53 3.51
4304 6098 5.560760 CGCATATGAATTTGACGGTATGCTT 60.561 40.000 6.97 0.00 41.16 3.91
4305 6099 4.083855 CGCATATGAATTTGACGGTATGCT 60.084 41.667 6.97 0.00 41.16 3.79
4306 6100 4.084066 TCGCATATGAATTTGACGGTATGC 60.084 41.667 6.97 0.00 40.38 3.14
4307 6101 5.590104 TCGCATATGAATTTGACGGTATG 57.410 39.130 6.97 0.00 0.00 2.39
4308 6102 6.293407 CCTTTCGCATATGAATTTGACGGTAT 60.293 38.462 6.97 0.00 0.00 2.73
4309 6103 5.007234 CCTTTCGCATATGAATTTGACGGTA 59.993 40.000 6.97 0.00 0.00 4.02
4310 6104 4.201910 CCTTTCGCATATGAATTTGACGGT 60.202 41.667 6.97 0.00 0.00 4.83
4311 6105 4.035091 TCCTTTCGCATATGAATTTGACGG 59.965 41.667 6.97 0.00 0.00 4.79
4312 6106 5.155509 TCCTTTCGCATATGAATTTGACG 57.844 39.130 6.97 0.00 0.00 4.35
4313 6107 4.972440 GCTCCTTTCGCATATGAATTTGAC 59.028 41.667 6.97 0.00 0.00 3.18
4314 6108 4.883585 AGCTCCTTTCGCATATGAATTTGA 59.116 37.500 6.97 0.00 0.00 2.69
4315 6109 5.179045 AGCTCCTTTCGCATATGAATTTG 57.821 39.130 6.97 0.00 0.00 2.32
4316 6110 5.841957 AAGCTCCTTTCGCATATGAATTT 57.158 34.783 6.97 0.00 0.00 1.82
4317 6111 5.825507 GAAAGCTCCTTTCGCATATGAATT 58.174 37.500 6.97 0.00 40.02 2.17
4318 6112 5.429957 GAAAGCTCCTTTCGCATATGAAT 57.570 39.130 6.97 0.00 40.02 2.57
4319 6113 4.882671 GAAAGCTCCTTTCGCATATGAA 57.117 40.909 6.97 0.00 40.02 2.57
4330 6124 9.466497 TGAAAATTATATCACTGAAAGCTCCTT 57.534 29.630 0.00 0.00 37.60 3.36
4331 6125 8.897752 GTGAAAATTATATCACTGAAAGCTCCT 58.102 33.333 10.21 0.00 42.07 3.69
4332 6126 8.677300 TGTGAAAATTATATCACTGAAAGCTCC 58.323 33.333 15.68 0.00 44.86 4.70
4351 6145 9.394767 AGTACATGACTATGCATAATGTGAAAA 57.605 29.630 23.68 8.60 36.27 2.29
4352 6146 8.962884 AGTACATGACTATGCATAATGTGAAA 57.037 30.769 23.68 8.87 36.27 2.69
4377 6171 8.826710 CGCCTTTGACTATTGACAAGATTAATA 58.173 33.333 0.00 0.00 0.00 0.98
4378 6172 7.336931 ACGCCTTTGACTATTGACAAGATTAAT 59.663 33.333 0.00 0.00 0.00 1.40
4379 6173 6.653320 ACGCCTTTGACTATTGACAAGATTAA 59.347 34.615 0.00 0.00 0.00 1.40
4380 6174 6.170506 ACGCCTTTGACTATTGACAAGATTA 58.829 36.000 0.00 0.00 0.00 1.75
4381 6175 5.003804 ACGCCTTTGACTATTGACAAGATT 58.996 37.500 0.00 0.00 0.00 2.40
4382 6176 4.579869 ACGCCTTTGACTATTGACAAGAT 58.420 39.130 0.00 0.00 0.00 2.40
4383 6177 4.002906 ACGCCTTTGACTATTGACAAGA 57.997 40.909 0.00 0.00 0.00 3.02
4384 6178 4.452455 AGAACGCCTTTGACTATTGACAAG 59.548 41.667 0.00 0.00 0.00 3.16
4385 6179 4.385825 AGAACGCCTTTGACTATTGACAA 58.614 39.130 0.00 0.00 0.00 3.18
4386 6180 4.002906 AGAACGCCTTTGACTATTGACA 57.997 40.909 0.00 0.00 0.00 3.58
4387 6181 4.213482 ACAAGAACGCCTTTGACTATTGAC 59.787 41.667 1.07 0.00 31.42 3.18
4388 6182 4.385825 ACAAGAACGCCTTTGACTATTGA 58.614 39.130 1.07 0.00 31.42 2.57
4389 6183 4.749245 ACAAGAACGCCTTTGACTATTG 57.251 40.909 1.07 0.00 31.42 1.90
4390 6184 6.870971 TTTACAAGAACGCCTTTGACTATT 57.129 33.333 1.07 0.00 31.42 1.73
4391 6185 6.261381 TGTTTTACAAGAACGCCTTTGACTAT 59.739 34.615 1.07 0.00 31.42 2.12
4392 6186 5.585445 TGTTTTACAAGAACGCCTTTGACTA 59.415 36.000 1.07 0.00 31.42 2.59
4393 6187 4.396790 TGTTTTACAAGAACGCCTTTGACT 59.603 37.500 1.07 0.00 31.42 3.41
4394 6188 4.497966 GTGTTTTACAAGAACGCCTTTGAC 59.502 41.667 1.07 0.00 32.76 3.18
4395 6189 4.156190 TGTGTTTTACAAGAACGCCTTTGA 59.844 37.500 1.07 0.00 36.85 2.69
4396 6190 4.416620 TGTGTTTTACAAGAACGCCTTTG 58.583 39.130 0.00 0.00 36.85 2.77
4397 6191 4.705337 TGTGTTTTACAAGAACGCCTTT 57.295 36.364 0.00 0.00 36.85 3.11
4398 6192 4.911514 ATGTGTTTTACAAGAACGCCTT 57.088 36.364 0.00 0.00 43.77 4.35
4399 6193 4.911514 AATGTGTTTTACAAGAACGCCT 57.088 36.364 0.00 0.00 43.77 5.52
4400 6194 5.151389 CCTAATGTGTTTTACAAGAACGCC 58.849 41.667 0.00 0.00 43.77 5.68
4401 6195 4.615541 GCCTAATGTGTTTTACAAGAACGC 59.384 41.667 0.00 0.00 43.77 4.84
4402 6196 5.048991 AGGCCTAATGTGTTTTACAAGAACG 60.049 40.000 1.29 0.00 43.77 3.95
4403 6197 6.327279 AGGCCTAATGTGTTTTACAAGAAC 57.673 37.500 1.29 0.00 43.77 3.01
4404 6198 6.969993 AAGGCCTAATGTGTTTTACAAGAA 57.030 33.333 5.16 0.00 43.77 2.52
4405 6199 7.455058 TCTAAGGCCTAATGTGTTTTACAAGA 58.545 34.615 5.16 0.00 43.77 3.02
4406 6200 7.681939 TCTAAGGCCTAATGTGTTTTACAAG 57.318 36.000 5.16 0.00 43.77 3.16
4407 6201 7.122055 CCATCTAAGGCCTAATGTGTTTTACAA 59.878 37.037 5.16 0.00 43.77 2.41
4408 6202 6.601613 CCATCTAAGGCCTAATGTGTTTTACA 59.398 38.462 5.16 0.00 44.87 2.41
4409 6203 6.826741 TCCATCTAAGGCCTAATGTGTTTTAC 59.173 38.462 5.16 0.00 0.00 2.01
4410 6204 6.964464 TCCATCTAAGGCCTAATGTGTTTTA 58.036 36.000 5.16 0.00 0.00 1.52
4411 6205 5.826643 TCCATCTAAGGCCTAATGTGTTTT 58.173 37.500 5.16 0.00 0.00 2.43
4412 6206 5.450818 TCCATCTAAGGCCTAATGTGTTT 57.549 39.130 5.16 0.00 0.00 2.83
4413 6207 5.440610 CTTCCATCTAAGGCCTAATGTGTT 58.559 41.667 5.16 0.00 0.00 3.32
4414 6208 4.141390 CCTTCCATCTAAGGCCTAATGTGT 60.141 45.833 5.16 0.00 39.69 3.72
4415 6209 4.103153 TCCTTCCATCTAAGGCCTAATGTG 59.897 45.833 5.16 3.16 44.89 3.21
4416 6210 4.307259 TCCTTCCATCTAAGGCCTAATGT 58.693 43.478 5.16 0.00 44.89 2.71
4417 6211 4.263243 CCTCCTTCCATCTAAGGCCTAATG 60.263 50.000 5.16 10.72 44.89 1.90
4418 6212 3.913163 CCTCCTTCCATCTAAGGCCTAAT 59.087 47.826 5.16 0.00 44.89 1.73
4419 6213 3.318313 CCTCCTTCCATCTAAGGCCTAA 58.682 50.000 5.16 0.00 44.89 2.69
4420 6214 2.427889 CCCTCCTTCCATCTAAGGCCTA 60.428 54.545 5.16 0.00 44.89 3.93
4421 6215 1.697291 CCCTCCTTCCATCTAAGGCCT 60.697 57.143 0.00 0.00 44.89 5.19
4422 6216 0.767998 CCCTCCTTCCATCTAAGGCC 59.232 60.000 0.00 0.00 44.89 5.19
4423 6217 1.696884 CTCCCTCCTTCCATCTAAGGC 59.303 57.143 0.00 0.00 44.89 4.35
4424 6218 3.053359 ACTCCCTCCTTCCATCTAAGG 57.947 52.381 0.00 0.00 46.35 2.69
4425 6219 6.957020 ACATATACTCCCTCCTTCCATCTAAG 59.043 42.308 0.00 0.00 0.00 2.18
4426 6220 6.875469 ACATATACTCCCTCCTTCCATCTAA 58.125 40.000 0.00 0.00 0.00 2.10
4427 6221 6.485388 ACATATACTCCCTCCTTCCATCTA 57.515 41.667 0.00 0.00 0.00 1.98
4428 6222 5.361630 ACATATACTCCCTCCTTCCATCT 57.638 43.478 0.00 0.00 0.00 2.90
4429 6223 7.741554 AATACATATACTCCCTCCTTCCATC 57.258 40.000 0.00 0.00 0.00 3.51
4430 6224 9.805204 AATAATACATATACTCCCTCCTTCCAT 57.195 33.333 0.00 0.00 0.00 3.41
4436 6230 9.477484 CGCAATAATAATACATATACTCCCTCC 57.523 37.037 0.00 0.00 0.00 4.30
4437 6231 9.477484 CCGCAATAATAATACATATACTCCCTC 57.523 37.037 0.00 0.00 0.00 4.30
4438 6232 8.429641 CCCGCAATAATAATACATATACTCCCT 58.570 37.037 0.00 0.00 0.00 4.20
4439 6233 8.208903 ACCCGCAATAATAATACATATACTCCC 58.791 37.037 0.00 0.00 0.00 4.30
4474 6268 4.438744 GCATCAAAAGGGTATCAAAGACCG 60.439 45.833 0.00 0.00 37.90 4.79
4579 6374 5.758296 TGGTCAGCATAATATCGTCCTTTTC 59.242 40.000 0.00 0.00 0.00 2.29
4684 6644 2.760650 AGTCGCTTGATCACTCCATGTA 59.239 45.455 0.00 0.00 0.00 2.29
4727 6687 3.765026 TCGTTTGACAGCTTTTGGTTTC 58.235 40.909 0.00 0.00 0.00 2.78
4977 6937 7.068103 CAGCCTTGATTGTGGGTTTATGTTATA 59.932 37.037 0.00 0.00 30.91 0.98
4978 6938 5.957774 AGCCTTGATTGTGGGTTTATGTTAT 59.042 36.000 0.00 0.00 0.00 1.89
4987 6947 1.153524 TGCAGCCTTGATTGTGGGT 59.846 52.632 0.00 0.00 33.96 4.51
5022 6982 1.301716 CAACCTGAGGGTGTGGACG 60.302 63.158 8.77 0.00 46.67 4.79
5023 6983 1.053424 TACAACCTGAGGGTGTGGAC 58.947 55.000 31.43 0.00 46.67 4.02
5024 6984 1.053424 GTACAACCTGAGGGTGTGGA 58.947 55.000 31.43 10.53 46.67 4.02
5025 6985 0.036306 GGTACAACCTGAGGGTGTGG 59.964 60.000 31.43 0.82 46.67 4.17
5026 6986 3.625745 GGTACAACCTGAGGGTGTG 57.374 57.895 31.43 14.42 46.67 3.82


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

AutoCloner maintained by Alex Coulton.