Multiple sequence alignment - TraesCS3B01G185200

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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 TraesCS3B01G185200 chr3B 100.000 5170 0 0 1 5170 201034239 201029070 0.000000e+00 9548.0
1 TraesCS3B01G185200 chr3B 100.000 1960 0 0 5427 7386 201028813 201026854 0.000000e+00 3620.0
2 TraesCS3B01G185200 chr3B 91.803 122 7 1 4913 5034 201029206 201029088 4.580000e-37 167.0
3 TraesCS3B01G185200 chr3B 91.803 122 7 1 5034 5152 201029327 201029206 4.580000e-37 167.0
4 TraesCS3B01G185200 chr3D 95.349 5203 181 30 1 5170 137988066 137982892 0.000000e+00 8211.0
5 TraesCS3B01G185200 chr3D 96.718 975 26 6 5427 6397 137982654 137981682 0.000000e+00 1618.0
6 TraesCS3B01G185200 chr3D 96.818 440 11 2 6493 6931 137981481 137981044 0.000000e+00 732.0
7 TraesCS3B01G185200 chr3D 93.365 211 10 2 7176 7386 137980702 137980496 7.200000e-80 309.0
8 TraesCS3B01G185200 chr3D 91.803 122 7 1 5034 5152 137983149 137983028 4.580000e-37 167.0
9 TraesCS3B01G185200 chr3D 90.164 122 9 2 4913 5034 137983028 137982910 9.920000e-34 156.0
10 TraesCS3B01G185200 chr3A 95.231 4886 147 37 329 5170 155833813 155828970 0.000000e+00 7653.0
11 TraesCS3B01G185200 chr3A 96.819 943 25 3 5891 6829 155828043 155827102 0.000000e+00 1570.0
12 TraesCS3B01G185200 chr3A 96.954 591 13 4 5508 6097 155828629 155828043 0.000000e+00 987.0
13 TraesCS3B01G185200 chr3A 86.667 210 11 5 7177 7386 155826372 155826180 4.490000e-52 217.0
14 TraesCS3B01G185200 chr3A 91.803 122 7 1 5034 5152 155829227 155829106 4.580000e-37 167.0
15 TraesCS3B01G185200 chr3A 90.164 122 9 1 4913 5034 155829106 155828988 9.920000e-34 156.0
16 TraesCS3B01G185200 chr5B 95.808 167 6 1 5569 5734 554821195 554821029 1.220000e-67 268.0
17 TraesCS3B01G185200 chr5B 95.706 163 7 0 5571 5733 607838390 607838552 5.680000e-66 263.0
18 TraesCS3B01G185200 chr5B 84.884 86 11 2 350 434 450464816 450464732 1.320000e-12 86.1
19 TraesCS3B01G185200 chr4D 95.210 167 7 1 5568 5734 334164388 334164553 5.680000e-66 263.0
20 TraesCS3B01G185200 chr5D 95.706 163 6 1 5571 5733 12270501 12270340 2.040000e-65 261.0
21 TraesCS3B01G185200 chr5A 95.706 163 6 1 5571 5733 320214244 320214405 2.040000e-65 261.0
22 TraesCS3B01G185200 chr2A 94.578 166 9 0 5568 5733 578387552 578387717 2.640000e-64 257.0
23 TraesCS3B01G185200 chr2A 91.667 48 4 0 389 436 52272987 52272940 4.780000e-07 67.6
24 TraesCS3B01G185200 chr1B 94.611 167 7 1 5568 5734 586282128 586282292 2.640000e-64 257.0
25 TraesCS3B01G185200 chr1D 89.412 85 8 1 350 433 441009347 441009431 1.010000e-18 106.0
26 TraesCS3B01G185200 chr1D 87.671 73 5 3 365 436 420900316 420900247 1.710000e-11 82.4
27 TraesCS3B01G185200 chr7B 86.364 88 11 1 350 436 547279295 547279208 2.190000e-15 95.3
28 TraesCS3B01G185200 chr7B 91.489 47 4 0 388 434 743475257 743475211 1.720000e-06 65.8
29 TraesCS3B01G185200 chr7A 85.227 88 12 1 350 436 62039899 62039986 1.020000e-13 89.8
30 TraesCS3B01G185200 chr4A 84.444 90 12 2 350 438 614247499 614247411 3.670000e-13 87.9
31 TraesCS3B01G185200 chr6B 85.333 75 10 1 347 420 139465753 139465827 7.950000e-10 76.8


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 TraesCS3B01G185200 chr3B 201026854 201034239 7385 True 6584.00 9548 100.00000 1 7386 2 chr3B.!!$R1 7385
1 TraesCS3B01G185200 chr3D 137980496 137988066 7570 True 2717.50 8211 95.56250 1 7386 4 chr3D.!!$R1 7385
2 TraesCS3B01G185200 chr3A 155826180 155833813 7633 True 2606.75 7653 93.91775 329 7386 4 chr3A.!!$R1 7057

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
150 151 0.110486 AAGGACATGGCACTCGGTTT 59.890 50.000 0.00 0.00 0.00 3.27 F
555 600 0.391793 GCAGTGCCTACTTGTCTCCC 60.392 60.000 2.85 0.00 34.07 4.30 F
856 910 1.003928 ACCCGCGAAAACCCTAATTCT 59.996 47.619 8.23 0.00 0.00 2.40 F
2370 2434 0.250945 TACAATGGTTTGCAGCCGGA 60.251 50.000 5.05 0.00 36.22 5.14 F
2388 2452 0.315568 GACCTGTGCTCGAGTCTTGT 59.684 55.000 15.13 5.42 0.00 3.16 F
3765 3837 0.529378 CACTCTGCAGGCCATTTTCC 59.471 55.000 15.13 0.00 0.00 3.13 F
5482 5555 2.492088 TGATCTACAAGTGACGGACCAG 59.508 50.000 0.00 0.00 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1321 1385 0.454600 CACATGCTGCATTCCCAGAC 59.545 55.000 13.38 0.00 34.77 3.51 R
2370 2434 0.032678 CACAAGACTCGAGCACAGGT 59.967 55.000 13.61 6.65 0.00 4.00 R
2748 2812 0.380733 CGACGCTGTAGATGGTAGCA 59.619 55.000 0.00 0.00 37.29 3.49 R
3594 3666 0.706433 AGCCACCCAGTCCATGAATT 59.294 50.000 0.00 0.00 0.00 2.17 R
4165 4238 3.591196 ACAAGCAAGCAAAACTCAACA 57.409 38.095 0.00 0.00 0.00 3.33 R
5492 5565 2.602878 GCAGCATGTCAAGGTTGAATG 58.397 47.619 0.00 3.04 39.21 2.67 R
7072 7861 0.108851 TCGAGCAGCGCTGTAATTCA 60.109 50.000 35.80 14.54 39.88 2.57 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 2.439104 ATCCTTCAGCTCCGCCTCC 61.439 63.158 0.00 0.00 0.00 4.30
88 89 2.583593 CGTCAAGAGCGCTAGCCC 60.584 66.667 11.50 0.00 46.67 5.19
89 90 2.583593 GTCAAGAGCGCTAGCCCG 60.584 66.667 11.50 0.00 46.67 6.13
92 93 2.756283 AAGAGCGCTAGCCCGAGT 60.756 61.111 11.50 0.00 46.67 4.18
99 100 1.805945 GCTAGCCCGAGTCACAACG 60.806 63.158 2.29 0.00 0.00 4.10
128 129 1.873270 CGACGACCACCATGAGGACA 61.873 60.000 10.65 0.00 38.69 4.02
141 142 1.065199 TGAGGACATCAAGGACATGGC 60.065 52.381 0.00 0.00 34.02 4.40
145 146 2.012673 GACATCAAGGACATGGCACTC 58.987 52.381 0.00 0.00 0.00 3.51
150 151 0.110486 AAGGACATGGCACTCGGTTT 59.890 50.000 0.00 0.00 0.00 3.27
151 152 0.606401 AGGACATGGCACTCGGTTTG 60.606 55.000 0.00 0.00 0.00 2.93
162 163 2.484264 CACTCGGTTTGGGAATGAGAAC 59.516 50.000 0.00 0.00 0.00 3.01
164 165 3.146066 CTCGGTTTGGGAATGAGAACAA 58.854 45.455 0.00 0.00 0.00 2.83
168 169 3.304458 GGTTTGGGAATGAGAACAACGAC 60.304 47.826 0.00 0.00 0.00 4.34
172 173 1.993370 GGAATGAGAACAACGACGGAG 59.007 52.381 0.00 0.00 0.00 4.63
178 179 2.981140 GAGAACAACGACGGAGAAAGAG 59.019 50.000 0.00 0.00 0.00 2.85
207 209 0.402121 AGGGGAGAAAAGGTGCTCAC 59.598 55.000 0.00 0.00 33.80 3.51
237 239 1.670674 GGGTCGTGAATGTAGCGAACA 60.671 52.381 3.71 0.00 43.29 3.18
244 246 1.128692 GAATGTAGCGAACACCTGCAC 59.871 52.381 0.00 0.00 42.09 4.57
252 254 2.607771 GCGAACACCTGCACAAAATGAT 60.608 45.455 0.00 0.00 0.00 2.45
273 275 1.350071 TGGCGACCACCCTTACTTTA 58.650 50.000 0.00 0.00 0.00 1.85
275 277 2.289819 TGGCGACCACCCTTACTTTAAG 60.290 50.000 0.00 0.00 35.56 1.85
280 282 4.081309 CGACCACCCTTACTTTAAGATCCA 60.081 45.833 0.00 0.00 38.02 3.41
281 283 5.396436 CGACCACCCTTACTTTAAGATCCAT 60.396 44.000 0.00 0.00 38.02 3.41
294 296 2.298158 GATCCATGCTGACCGTCCGT 62.298 60.000 0.00 0.00 0.00 4.69
307 309 2.602267 TCCGTCGGCCAAGGAGAA 60.602 61.111 6.34 0.00 0.00 2.87
332 354 7.601856 AGTTCGGAGATTGCAAAATAATTTCA 58.398 30.769 1.71 0.00 35.04 2.69
369 391 9.457436 TTTTATTACTCCCTCTGTCCAAATTAC 57.543 33.333 0.00 0.00 0.00 1.89
370 392 6.893020 ATTACTCCCTCTGTCCAAATTACT 57.107 37.500 0.00 0.00 0.00 2.24
372 394 4.911390 ACTCCCTCTGTCCAAATTACTTG 58.089 43.478 0.00 0.00 34.52 3.16
373 395 4.351111 ACTCCCTCTGTCCAAATTACTTGT 59.649 41.667 0.00 0.00 32.65 3.16
374 396 4.906618 TCCCTCTGTCCAAATTACTTGTC 58.093 43.478 0.00 0.00 32.65 3.18
375 397 3.684788 CCCTCTGTCCAAATTACTTGTCG 59.315 47.826 0.00 0.00 32.65 4.35
393 416 7.186804 ACTTGTCGCGGAAATAGATAAAAATG 58.813 34.615 6.13 0.00 0.00 2.32
529 574 1.477558 CCCATCTTCATTTCCTCCCCG 60.478 57.143 0.00 0.00 0.00 5.73
540 585 2.750350 CTCCCCGAACCAAGCAGT 59.250 61.111 0.00 0.00 0.00 4.40
553 598 2.072298 CAAGCAGTGCCTACTTGTCTC 58.928 52.381 12.58 0.00 36.80 3.36
554 599 0.610687 AGCAGTGCCTACTTGTCTCC 59.389 55.000 12.58 0.00 34.07 3.71
555 600 0.391793 GCAGTGCCTACTTGTCTCCC 60.392 60.000 2.85 0.00 34.07 4.30
556 601 1.270907 CAGTGCCTACTTGTCTCCCT 58.729 55.000 0.00 0.00 34.07 4.20
738 792 3.590824 CCAGGAATGCCGTGGTTC 58.409 61.111 1.00 0.00 43.86 3.62
856 910 1.003928 ACCCGCGAAAACCCTAATTCT 59.996 47.619 8.23 0.00 0.00 2.40
987 1048 2.436646 CGGCTCAACCTGCGGAAT 60.437 61.111 0.00 0.00 35.61 3.01
1069 1130 1.478631 CCTTTCTGGGCTCCATTTCC 58.521 55.000 0.00 0.00 30.82 3.13
1123 1186 1.012841 GAGGCTGTTGCTCTACATGC 58.987 55.000 0.00 0.00 39.59 4.06
1321 1385 3.921021 CACTCTAGGTTACGCTGTTCTTG 59.079 47.826 0.00 0.00 0.00 3.02
1326 1390 1.798813 GGTTACGCTGTTCTTGTCTGG 59.201 52.381 0.00 0.00 0.00 3.86
1347 1411 1.265095 GAATGCAGCATGTGGATACCG 59.735 52.381 9.18 0.00 35.87 4.02
1397 1461 3.676093 TGTTGTGGTGTGTTAGTCAACA 58.324 40.909 0.00 0.00 42.39 3.33
1481 1545 2.905075 TCATATGTGGCTCTGTTTCGG 58.095 47.619 1.90 0.00 0.00 4.30
1498 1562 5.875910 TGTTTCGGACCACGTTATCAATATT 59.124 36.000 0.00 0.00 44.69 1.28
1571 1635 1.267806 CCATCCTTGTGTGTGCTGAAC 59.732 52.381 0.00 0.00 0.00 3.18
1873 1937 1.452717 GAATTTTGTATCCGCGCACG 58.547 50.000 8.75 0.00 39.67 5.34
1885 1949 1.722507 GCGCACGTCAGAAGTTTGC 60.723 57.895 0.30 0.00 0.00 3.68
1995 2059 5.514500 TTGGCTAGGGTGTTTCTCTAAAT 57.486 39.130 0.00 0.00 0.00 1.40
2100 2164 1.881973 GATTGTGTGCAGCTTTGGAGA 59.118 47.619 0.00 0.00 0.00 3.71
2211 2275 5.598005 TCAAAAACACCTCCTGATTGATTGT 59.402 36.000 0.00 0.00 0.00 2.71
2221 2285 3.127548 CCTGATTGATTGTGGGTTTCTCG 59.872 47.826 0.00 0.00 0.00 4.04
2337 2401 9.750882 CATAATCACAATATATTCGCTTGTCTG 57.249 33.333 0.00 0.00 30.99 3.51
2370 2434 0.250945 TACAATGGTTTGCAGCCGGA 60.251 50.000 5.05 0.00 36.22 5.14
2388 2452 0.315568 GACCTGTGCTCGAGTCTTGT 59.684 55.000 15.13 5.42 0.00 3.16
2459 2523 8.130671 TGTCTTTTAGTACCATACTGCTTAGT 57.869 34.615 0.00 0.00 39.81 2.24
2510 2574 0.994995 CGTGGTCGCTGATTCAGAAG 59.005 55.000 17.87 10.09 32.44 2.85
2557 2621 2.395690 CCAGTCGCGCGATTGAAC 59.604 61.111 44.02 29.11 34.36 3.18
2651 2715 2.863809 TCTTTTCTCTCAGTTTGGGGC 58.136 47.619 0.00 0.00 0.00 5.80
2714 2778 2.042259 CGCCAGCAGATTCAAGGCA 61.042 57.895 0.00 0.00 45.47 4.75
2742 2806 3.627237 GGGGAATGCCTTGATTGACCTTA 60.627 47.826 0.00 0.00 0.00 2.69
2748 2812 3.181423 TGCCTTGATTGACCTTACCCTTT 60.181 43.478 0.00 0.00 0.00 3.11
2766 2837 2.579207 TTGCTACCATCTACAGCGTC 57.421 50.000 0.00 0.00 38.15 5.19
2882 2954 1.132262 CGGATCGTGGATTTGTTTGGG 59.868 52.381 0.00 0.00 0.00 4.12
3150 3222 8.441312 TTTATCAGTTAAACGTGGAAAGAAGT 57.559 30.769 0.00 0.00 0.00 3.01
3442 3514 7.845617 TGATATGTTTGTTTGCTTACGTTTC 57.154 32.000 0.00 0.00 0.00 2.78
3519 3591 6.064717 GGGAATAGACAATATGCTTGGTCTT 58.935 40.000 0.00 0.00 40.76 3.01
3594 3666 5.774690 AGGCAACATTGATAAGAAAAGTGGA 59.225 36.000 0.00 0.00 41.41 4.02
3719 3791 3.280295 TCTCTCTTGGACTCGACCATAC 58.720 50.000 0.00 0.00 39.82 2.39
3765 3837 0.529378 CACTCTGCAGGCCATTTTCC 59.471 55.000 15.13 0.00 0.00 3.13
4124 4196 9.167311 ACCTTTACATCTAACTTTGATGATGAC 57.833 33.333 16.98 0.00 42.68 3.06
4165 4238 9.672086 GTTTTTGCCTGTTTTAGTTTTCTTTTT 57.328 25.926 0.00 0.00 0.00 1.94
4276 4349 6.403866 AAACATGTTTTGCAGATTGTCCTA 57.596 33.333 18.13 0.00 0.00 2.94
4420 4493 9.905713 AATAACATTCATTCCAGTAAGAGCTAA 57.094 29.630 0.00 0.00 0.00 3.09
4422 4495 7.798596 ACATTCATTCCAGTAAGAGCTAATG 57.201 36.000 0.00 0.00 0.00 1.90
4423 4496 7.568349 ACATTCATTCCAGTAAGAGCTAATGA 58.432 34.615 0.00 2.84 32.96 2.57
4424 4497 7.714377 ACATTCATTCCAGTAAGAGCTAATGAG 59.286 37.037 4.87 0.00 35.46 2.90
4450 4523 3.776340 ACACCACGCAAAACTTTTAAGG 58.224 40.909 0.00 0.00 0.00 2.69
4746 4819 4.248859 CACACCTGGAAGTATCACTGAAG 58.751 47.826 0.00 0.00 0.00 3.02
5082 5155 6.363626 CAGCTACTTAATAAGTCATAGCGGTG 59.636 42.308 16.26 9.56 42.58 4.94
5482 5555 2.492088 TGATCTACAAGTGACGGACCAG 59.508 50.000 0.00 0.00 0.00 4.00
5492 5565 1.479323 TGACGGACCAGTAGCATTACC 59.521 52.381 0.00 0.00 0.00 2.85
5524 5600 0.306840 CATGCTGCGCCAGTAATCTG 59.693 55.000 4.18 0.00 41.01 2.90
5557 5633 8.856103 TCAACGTGATATTGATGGAGTATCTTA 58.144 33.333 0.00 0.00 36.71 2.10
5756 5832 5.184096 ACGTGATAGCATGGTTAGAGGATAG 59.816 44.000 1.12 0.00 35.29 2.08
5979 6261 7.043854 GGCAAATCATCATTGATCAGTTTTACG 60.044 37.037 0.00 0.00 41.83 3.18
6020 6302 8.261522 ACTGATACCAAGATACCTTTTTCTCTC 58.738 37.037 0.00 0.00 0.00 3.20
6061 6343 7.334090 ACTTCAATGCTCTCATGTAGTATGTT 58.666 34.615 0.00 0.00 32.23 2.71
6442 6728 2.887152 GGAGTTTGTCATGCTCTGGTTT 59.113 45.455 0.00 0.00 0.00 3.27
6450 6736 4.883585 TGTCATGCTCTGGTTTTATCCATC 59.116 41.667 0.00 0.00 36.84 3.51
6603 7048 6.342338 ACTAGTCCTTTTGTGTATCTCGTT 57.658 37.500 0.00 0.00 0.00 3.85
6617 7062 7.039882 GTGTATCTCGTTGAAAGGGAAGATAA 58.960 38.462 0.00 0.00 0.00 1.75
6750 7195 0.178891 TGGAAGAAGGCAGGAGGAGT 60.179 55.000 0.00 0.00 0.00 3.85
6917 7650 3.260740 CATTGTTTTGGCTGTTGTGTGT 58.739 40.909 0.00 0.00 0.00 3.72
6918 7651 2.360553 TGTTTTGGCTGTTGTGTGTG 57.639 45.000 0.00 0.00 0.00 3.82
6919 7652 1.889170 TGTTTTGGCTGTTGTGTGTGA 59.111 42.857 0.00 0.00 0.00 3.58
6920 7653 2.297315 TGTTTTGGCTGTTGTGTGTGAA 59.703 40.909 0.00 0.00 0.00 3.18
6924 7657 3.162202 TGGCTGTTGTGTGTGAAAATG 57.838 42.857 0.00 0.00 0.00 2.32
6925 7658 2.757314 TGGCTGTTGTGTGTGAAAATGA 59.243 40.909 0.00 0.00 0.00 2.57
6926 7659 3.194329 TGGCTGTTGTGTGTGAAAATGAA 59.806 39.130 0.00 0.00 0.00 2.57
6928 7661 4.445385 GGCTGTTGTGTGTGAAAATGAATC 59.555 41.667 0.00 0.00 0.00 2.52
6931 7664 5.830912 TGTTGTGTGTGAAAATGAATCTCC 58.169 37.500 0.00 0.00 0.00 3.71
6933 7666 5.694231 TGTGTGTGAAAATGAATCTCCTG 57.306 39.130 0.00 0.00 0.00 3.86
6934 7667 5.375773 TGTGTGTGAAAATGAATCTCCTGA 58.624 37.500 0.00 0.00 0.00 3.86
6935 7668 5.239306 TGTGTGTGAAAATGAATCTCCTGAC 59.761 40.000 0.00 0.00 0.00 3.51
6936 7669 4.761739 TGTGTGAAAATGAATCTCCTGACC 59.238 41.667 0.00 0.00 0.00 4.02
6937 7670 5.006386 GTGTGAAAATGAATCTCCTGACCT 58.994 41.667 0.00 0.00 0.00 3.85
6940 7673 6.213397 TGTGAAAATGAATCTCCTGACCTAGA 59.787 38.462 0.00 0.00 0.00 2.43
6941 7674 7.106239 GTGAAAATGAATCTCCTGACCTAGAA 58.894 38.462 0.00 0.00 0.00 2.10
6942 7675 7.065204 GTGAAAATGAATCTCCTGACCTAGAAC 59.935 40.741 0.00 0.00 0.00 3.01
6943 7676 6.882768 AAATGAATCTCCTGACCTAGAACT 57.117 37.500 0.00 0.00 0.00 3.01
6944 7677 6.882768 AATGAATCTCCTGACCTAGAACTT 57.117 37.500 0.00 0.00 0.00 2.66
6945 7678 5.923733 TGAATCTCCTGACCTAGAACTTC 57.076 43.478 0.00 0.00 0.00 3.01
6948 7681 3.702792 TCTCCTGACCTAGAACTTCCTG 58.297 50.000 0.00 0.00 0.00 3.86
6952 7685 4.283722 TCCTGACCTAGAACTTCCTGAAAC 59.716 45.833 0.00 0.00 0.00 2.78
6953 7686 4.563786 CCTGACCTAGAACTTCCTGAAACC 60.564 50.000 0.00 0.00 0.00 3.27
6961 7739 2.375146 ACTTCCTGAAACCGTTTTGCT 58.625 42.857 0.00 0.00 0.00 3.91
6981 7759 3.851105 GCTGCTATTAGATTTGGCAAGCG 60.851 47.826 0.00 0.00 32.43 4.68
7019 7808 1.084289 GTGGAGTACATTTGCCGTCC 58.916 55.000 0.00 0.00 0.00 4.79
7022 7811 2.290641 TGGAGTACATTTGCCGTCCATT 60.291 45.455 0.00 0.00 0.00 3.16
7044 7833 2.340577 CGGAGCTACGTACAAAACTTCG 59.659 50.000 11.15 0.00 0.00 3.79
7049 7838 6.074994 GGAGCTACGTACAAAACTTCGATATG 60.075 42.308 0.00 0.00 0.00 1.78
7061 7850 8.408601 CAAAACTTCGATATGGGAATTGATTCT 58.591 33.333 3.94 0.00 37.00 2.40
7068 7857 1.006281 TGGGAATTGATTCTGCAGGCT 59.994 47.619 15.13 0.55 37.00 4.58
7069 7858 1.407979 GGGAATTGATTCTGCAGGCTG 59.592 52.381 15.13 10.94 37.00 4.85
7070 7859 1.407979 GGAATTGATTCTGCAGGCTGG 59.592 52.381 17.64 0.00 37.00 4.85
7071 7860 2.372264 GAATTGATTCTGCAGGCTGGA 58.628 47.619 17.64 13.38 34.05 3.86
7072 7861 2.750141 ATTGATTCTGCAGGCTGGAT 57.250 45.000 17.64 0.00 0.00 3.41
7073 7862 1.758936 TTGATTCTGCAGGCTGGATG 58.241 50.000 17.64 7.82 0.00 3.51
7074 7863 0.913924 TGATTCTGCAGGCTGGATGA 59.086 50.000 17.64 10.10 0.00 2.92
7075 7864 1.282738 TGATTCTGCAGGCTGGATGAA 59.717 47.619 17.64 17.77 0.00 2.57
7076 7865 2.092049 TGATTCTGCAGGCTGGATGAAT 60.092 45.455 23.16 23.16 0.00 2.57
7077 7866 2.519771 TTCTGCAGGCTGGATGAATT 57.480 45.000 17.64 0.00 0.00 2.17
7078 7867 3.650281 TTCTGCAGGCTGGATGAATTA 57.350 42.857 17.64 0.00 0.00 1.40
7079 7868 2.923121 TCTGCAGGCTGGATGAATTAC 58.077 47.619 17.64 0.00 0.00 1.89
7080 7869 2.239402 TCTGCAGGCTGGATGAATTACA 59.761 45.455 17.64 0.99 0.00 2.41
7081 7870 2.617308 CTGCAGGCTGGATGAATTACAG 59.383 50.000 17.64 7.56 35.40 2.74
7093 7882 0.721718 AATTACAGCGCTGCTCGAAC 59.278 50.000 36.28 0.00 41.67 3.95
7118 7907 1.736126 TGACCTAGCTAGACAACGTCG 59.264 52.381 22.70 5.13 37.67 5.12
7140 7929 4.695455 CGAGCCTGAAACAAAATCTAGGAA 59.305 41.667 0.00 0.00 0.00 3.36
7142 7931 5.012893 AGCCTGAAACAAAATCTAGGAAGG 58.987 41.667 0.00 0.00 0.00 3.46
7144 7933 5.243954 GCCTGAAACAAAATCTAGGAAGGTT 59.756 40.000 0.00 0.00 0.00 3.50
7145 7934 6.681777 CCTGAAACAAAATCTAGGAAGGTTG 58.318 40.000 0.00 0.00 0.00 3.77
7146 7935 6.490040 CCTGAAACAAAATCTAGGAAGGTTGA 59.510 38.462 0.00 0.00 0.00 3.18
7147 7936 7.014230 CCTGAAACAAAATCTAGGAAGGTTGAA 59.986 37.037 0.00 0.00 0.00 2.69
7148 7937 7.712797 TGAAACAAAATCTAGGAAGGTTGAAC 58.287 34.615 0.00 0.00 0.00 3.18
7149 7938 7.340743 TGAAACAAAATCTAGGAAGGTTGAACA 59.659 33.333 0.00 0.00 0.00 3.18
7150 7939 7.654022 AACAAAATCTAGGAAGGTTGAACAA 57.346 32.000 0.00 0.00 0.00 2.83
7174 7963 1.022735 CATCCTTCTCCAGCACATGC 58.977 55.000 0.00 0.00 42.49 4.06
7266 8143 5.049060 CAGCTCTTGAGCTAGTACATACGAT 60.049 44.000 22.62 0.00 44.30 3.73
7285 8162 0.178992 TGGCCAGGTGAGAACTTTGG 60.179 55.000 0.00 0.00 0.00 3.28
7298 8175 5.163248 TGAGAACTTTGGTGACAGGTTATCA 60.163 40.000 0.00 0.00 44.99 2.15
7302 8179 4.102524 ACTTTGGTGACAGGTTATCAGACA 59.897 41.667 0.00 0.00 44.54 3.41
7303 8180 3.678056 TGGTGACAGGTTATCAGACAC 57.322 47.619 0.00 0.00 35.01 3.67
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
76 77 3.213402 GACTCGGGCTAGCGCTCT 61.213 66.667 26.90 10.76 33.24 4.09
83 84 1.592400 CCTCGTTGTGACTCGGGCTA 61.592 60.000 0.00 0.00 0.00 3.93
85 86 2.432628 CCTCGTTGTGACTCGGGC 60.433 66.667 0.00 0.00 0.00 6.13
88 89 0.452950 CGACTCCTCGTTGTGACTCG 60.453 60.000 0.00 0.00 35.00 4.18
89 90 3.386379 CGACTCCTCGTTGTGACTC 57.614 57.895 0.00 0.00 35.00 3.36
128 129 0.107508 CCGAGTGCCATGTCCTTGAT 60.108 55.000 0.00 0.00 0.00 2.57
135 136 1.603455 CCCAAACCGAGTGCCATGT 60.603 57.895 0.00 0.00 0.00 3.21
141 142 2.472695 TCTCATTCCCAAACCGAGTG 57.527 50.000 0.00 0.00 0.00 3.51
145 146 2.350388 CGTTGTTCTCATTCCCAAACCG 60.350 50.000 0.00 0.00 0.00 4.44
150 151 1.606994 CCGTCGTTGTTCTCATTCCCA 60.607 52.381 0.00 0.00 0.00 4.37
151 152 1.076332 CCGTCGTTGTTCTCATTCCC 58.924 55.000 0.00 0.00 0.00 3.97
162 163 2.991434 TCTCTCTTTCTCCGTCGTTG 57.009 50.000 0.00 0.00 0.00 4.10
164 165 1.813786 CCTTCTCTCTTTCTCCGTCGT 59.186 52.381 0.00 0.00 0.00 4.34
168 169 1.853963 TCCCCTTCTCTCTTTCTCCG 58.146 55.000 0.00 0.00 0.00 4.63
172 173 1.562008 CCCCTTCCCCTTCTCTCTTTC 59.438 57.143 0.00 0.00 0.00 2.62
178 179 1.670059 TTTCTCCCCTTCCCCTTCTC 58.330 55.000 0.00 0.00 0.00 2.87
214 216 0.806102 CGCTACATTCACGACCCAGG 60.806 60.000 0.00 0.00 0.00 4.45
215 217 0.172578 TCGCTACATTCACGACCCAG 59.827 55.000 0.00 0.00 0.00 4.45
237 239 1.001181 GCCACATCATTTTGTGCAGGT 59.999 47.619 0.00 0.00 44.53 4.00
268 270 3.055094 ACGGTCAGCATGGATCTTAAAGT 60.055 43.478 0.00 0.00 36.16 2.66
273 275 0.179000 GGACGGTCAGCATGGATCTT 59.821 55.000 10.76 0.00 36.16 2.40
275 277 1.592669 CGGACGGTCAGCATGGATC 60.593 63.158 10.76 0.00 36.16 3.36
294 296 1.292223 CGAACTTCTCCTTGGCCGA 59.708 57.895 0.00 0.00 0.00 5.54
297 299 0.608640 TCTCCGAACTTCTCCTTGGC 59.391 55.000 0.00 0.00 0.00 4.52
298 300 3.265791 CAATCTCCGAACTTCTCCTTGG 58.734 50.000 0.00 0.00 0.00 3.61
299 301 2.675348 GCAATCTCCGAACTTCTCCTTG 59.325 50.000 0.00 0.00 0.00 3.61
301 303 1.902508 TGCAATCTCCGAACTTCTCCT 59.097 47.619 0.00 0.00 0.00 3.69
307 309 7.542130 GTGAAATTATTTTGCAATCTCCGAACT 59.458 33.333 0.00 0.00 0.00 3.01
363 385 6.920569 ATCTATTTCCGCGACAAGTAATTT 57.079 33.333 8.23 0.00 0.00 1.82
366 388 7.830940 TTTTATCTATTTCCGCGACAAGTAA 57.169 32.000 8.23 0.00 0.00 2.24
368 390 6.730960 TTTTTATCTATTTCCGCGACAAGT 57.269 33.333 8.23 0.00 0.00 3.16
369 391 7.406553 TCATTTTTATCTATTTCCGCGACAAG 58.593 34.615 8.23 0.00 0.00 3.16
370 392 7.310072 TCATTTTTATCTATTTCCGCGACAA 57.690 32.000 8.23 0.00 0.00 3.18
441 464 9.642343 AGTGGAGGAAAAATATAAAGATAACCC 57.358 33.333 0.00 0.00 0.00 4.11
460 499 8.428063 ACATCTATCTATGAAAAGAAGTGGAGG 58.572 37.037 0.00 0.00 0.00 4.30
492 536 1.032114 GGGGAGATTTTGGCCGAGTG 61.032 60.000 0.00 0.00 0.00 3.51
540 585 0.970937 CGGAGGGAGACAAGTAGGCA 60.971 60.000 0.00 0.00 0.00 4.75
553 598 2.731374 GGAGAGATTCGCGGAGGG 59.269 66.667 6.13 0.00 44.04 4.30
554 599 1.801309 GAGGGAGAGATTCGCGGAGG 61.801 65.000 6.13 0.00 43.15 4.30
555 600 1.657556 GAGGGAGAGATTCGCGGAG 59.342 63.158 6.13 0.00 43.15 4.63
556 601 1.828660 GGAGGGAGAGATTCGCGGA 60.829 63.158 6.13 0.00 43.15 5.54
856 910 2.612212 GCGCGGAAAGATAATTGAGGAA 59.388 45.455 8.83 0.00 0.00 3.36
916 970 1.376037 GGGAACAAGCGGGACTCAG 60.376 63.158 0.00 0.00 0.00 3.35
1069 1130 0.834261 AACCCAAAATGAACCGGGGG 60.834 55.000 6.32 6.49 43.52 5.40
1123 1186 1.898574 GCAGGTCCACCAACACCAG 60.899 63.158 0.00 0.00 38.89 4.00
1321 1385 0.454600 CACATGCTGCATTCCCAGAC 59.545 55.000 13.38 0.00 34.77 3.51
1326 1390 1.610522 GGTATCCACATGCTGCATTCC 59.389 52.381 13.38 3.72 0.00 3.01
1397 1461 8.657712 ACTACCAAGGACTTAGACAACTTAATT 58.342 33.333 0.00 0.00 0.00 1.40
1481 1545 8.736751 AACAACAAAATATTGATAACGTGGTC 57.263 30.769 0.00 0.00 38.94 4.02
1873 1937 8.454106 ACATATAAGTTCATGCAAACTTCTGAC 58.546 33.333 17.59 0.00 44.18 3.51
1995 2059 3.894427 TCCTTAAGCACAATTTTGAGGCA 59.106 39.130 0.00 0.00 35.55 4.75
2100 2164 6.737254 ATCCGAGACGATTTGTAAAAATGT 57.263 33.333 0.00 0.00 0.00 2.71
2211 2275 1.161843 GGCGATTTTCGAGAAACCCA 58.838 50.000 0.32 0.00 43.74 4.51
2221 2285 1.017387 AGCGATTGGAGGCGATTTTC 58.983 50.000 0.00 0.00 0.00 2.29
2332 2396 1.128200 AAGCACACTACCACCAGACA 58.872 50.000 0.00 0.00 0.00 3.41
2337 2401 2.747446 CCATTGTAAGCACACTACCACC 59.253 50.000 0.00 0.00 33.30 4.61
2370 2434 0.032678 CACAAGACTCGAGCACAGGT 59.967 55.000 13.61 6.65 0.00 4.00
2388 2452 1.840630 CTGCAACATTCCGACGCACA 61.841 55.000 0.00 0.00 0.00 4.57
2459 2523 6.093495 CCTTTTATACGGCAATCTCTTGTTCA 59.907 38.462 0.00 0.00 34.69 3.18
2510 2574 3.798202 CCCATTAACCAGTAGCTCTGAC 58.202 50.000 12.91 0.00 46.27 3.51
2557 2621 2.612212 GCATATATACCGGGCGGAAATG 59.388 50.000 6.32 3.46 38.96 2.32
2651 2715 4.058817 ACTGCTAAACTTCTCAACCGAAG 58.941 43.478 0.00 0.00 44.59 3.79
2714 2778 5.070847 GTCAATCAAGGCATTCCCCAATAAT 59.929 40.000 0.00 0.00 0.00 1.28
2742 2806 2.092914 GCTGTAGATGGTAGCAAAGGGT 60.093 50.000 0.00 0.00 37.40 4.34
2748 2812 0.380733 CGACGCTGTAGATGGTAGCA 59.619 55.000 0.00 0.00 37.29 3.49
2766 2837 1.205657 ACAACGCGGCTGATATTACG 58.794 50.000 12.47 0.00 0.00 3.18
2993 3065 8.718656 AGGTTCTCAGGTTTAGCATCTAAATAT 58.281 33.333 2.81 0.00 0.00 1.28
3150 3222 7.880713 TGATGTACCATTACTTGAAGCTACAAA 59.119 33.333 0.00 0.00 0.00 2.83
3442 3514 9.981114 AATTTACAGAAACAAAAAGATACCAGG 57.019 29.630 0.00 0.00 0.00 4.45
3519 3591 3.825585 TGCCATCATAAGTCTTGCAAACA 59.174 39.130 0.00 0.00 0.00 2.83
3594 3666 0.706433 AGCCACCCAGTCCATGAATT 59.294 50.000 0.00 0.00 0.00 2.17
3765 3837 4.272018 GGATCATCAATCACAACTTCTCCG 59.728 45.833 0.00 0.00 35.96 4.63
4123 4195 5.270853 GCAAAAACTCAAACACTGTATCGT 58.729 37.500 0.00 0.00 0.00 3.73
4124 4196 4.675114 GGCAAAAACTCAAACACTGTATCG 59.325 41.667 0.00 0.00 0.00 2.92
4165 4238 3.591196 ACAAGCAAGCAAAACTCAACA 57.409 38.095 0.00 0.00 0.00 3.33
4420 4493 2.979814 TTGCGTGGTGTATAGCTCAT 57.020 45.000 0.00 0.00 0.00 2.90
4421 4494 2.739913 GTTTTGCGTGGTGTATAGCTCA 59.260 45.455 0.00 0.00 0.00 4.26
4422 4495 3.000727 AGTTTTGCGTGGTGTATAGCTC 58.999 45.455 0.00 0.00 0.00 4.09
4423 4496 3.053831 AGTTTTGCGTGGTGTATAGCT 57.946 42.857 0.00 0.00 0.00 3.32
4424 4497 3.824414 AAGTTTTGCGTGGTGTATAGC 57.176 42.857 0.00 0.00 0.00 2.97
4425 4498 6.799925 CCTTAAAAGTTTTGCGTGGTGTATAG 59.200 38.462 11.18 0.00 0.00 1.31
4426 4499 6.485984 TCCTTAAAAGTTTTGCGTGGTGTATA 59.514 34.615 11.18 0.00 0.00 1.47
4427 4500 5.299782 TCCTTAAAAGTTTTGCGTGGTGTAT 59.700 36.000 11.18 0.00 0.00 2.29
4433 4506 4.382754 GCAGATCCTTAAAAGTTTTGCGTG 59.617 41.667 11.18 0.90 0.00 5.34
4450 4523 3.442977 AGAAGGCAAATTGACTGCAGATC 59.557 43.478 23.35 14.55 31.94 2.75
4486 4559 2.738743 ACAATGTGCCTTTCATAGGGG 58.261 47.619 0.00 0.00 44.91 4.79
4746 4819 5.527582 TCTTCAGTTTAACTTGCTCTTCCAC 59.472 40.000 0.00 0.00 0.00 4.02
4866 4939 6.161855 TGGTGATTGAGTGATATAGTCCAC 57.838 41.667 0.00 0.00 0.00 4.02
4903 4976 9.340695 CAGAGAGAATAGATCGATATTGTGAAC 57.659 37.037 0.00 0.00 0.00 3.18
5482 5555 5.414454 TGTCAAGGTTGAATGGTAATGCTAC 59.586 40.000 0.00 0.00 39.21 3.58
5492 5565 2.602878 GCAGCATGTCAAGGTTGAATG 58.397 47.619 0.00 3.04 39.21 2.67
5524 5600 5.799936 CCATCAATATCACGTTGAAACCAAC 59.200 40.000 0.00 0.00 38.89 3.77
5557 5633 5.310857 ACAGAGGGAGTAATTTGGAAGTCTT 59.689 40.000 0.00 0.00 0.00 3.01
5618 5694 6.040247 CACTCATTTTGCTCCGTATGTAGTA 58.960 40.000 0.00 0.00 0.00 1.82
5756 5832 3.648545 ACCAAAGCCTATCAGACTATCCC 59.351 47.826 0.00 0.00 0.00 3.85
5979 6261 5.597182 TGGTATCAGTAGACATGGGAAGTAC 59.403 44.000 0.00 0.00 0.00 2.73
6029 6311 6.421485 ACATGAGAGCATTGAAGTATTTCCT 58.579 36.000 0.00 0.00 30.68 3.36
6045 6327 5.233902 GCTCTTGCAACATACTACATGAGAG 59.766 44.000 0.00 0.00 36.79 3.20
6061 6343 7.105588 TGTATAAATCTCTTGAAGCTCTTGCA 58.894 34.615 0.00 0.00 42.74 4.08
6281 6565 2.203806 GGTGACCTCCAGGAGTAGC 58.796 63.158 15.86 7.30 38.94 3.58
6442 6728 3.055021 TGCAGTTGGTTACGGATGGATAA 60.055 43.478 0.00 0.00 0.00 1.75
6450 6736 2.058057 GCAAAATGCAGTTGGTTACGG 58.942 47.619 0.00 0.00 44.26 4.02
6603 7048 7.623677 TCTTCTATCACCTTATCTTCCCTTTCA 59.376 37.037 0.00 0.00 0.00 2.69
6617 7062 2.627217 GGTGGGGACTCTTCTATCACCT 60.627 54.545 0.00 0.00 39.36 4.00
6709 7154 2.810852 GCAGGAAGGTTCAGAAGTGAAG 59.189 50.000 0.00 0.00 43.55 3.02
6912 7643 5.335191 GGTCAGGAGATTCATTTTCACACAC 60.335 44.000 0.00 0.00 0.00 3.82
6917 7650 6.874278 TCTAGGTCAGGAGATTCATTTTCA 57.126 37.500 0.00 0.00 0.00 2.69
6918 7651 7.334858 AGTTCTAGGTCAGGAGATTCATTTTC 58.665 38.462 0.00 0.00 0.00 2.29
6919 7652 7.264294 AGTTCTAGGTCAGGAGATTCATTTT 57.736 36.000 0.00 0.00 0.00 1.82
6920 7653 6.882768 AGTTCTAGGTCAGGAGATTCATTT 57.117 37.500 0.00 0.00 0.00 2.32
6924 7657 4.959839 AGGAAGTTCTAGGTCAGGAGATTC 59.040 45.833 2.25 0.00 0.00 2.52
6925 7658 4.714308 CAGGAAGTTCTAGGTCAGGAGATT 59.286 45.833 2.25 0.00 0.00 2.40
6926 7659 4.017037 TCAGGAAGTTCTAGGTCAGGAGAT 60.017 45.833 2.25 0.00 0.00 2.75
6928 7661 3.702792 TCAGGAAGTTCTAGGTCAGGAG 58.297 50.000 2.25 0.00 0.00 3.69
6931 7664 4.570930 GGTTTCAGGAAGTTCTAGGTCAG 58.429 47.826 2.25 0.00 0.00 3.51
6933 7666 3.006644 ACGGTTTCAGGAAGTTCTAGGTC 59.993 47.826 2.25 0.00 0.00 3.85
6934 7667 2.970640 ACGGTTTCAGGAAGTTCTAGGT 59.029 45.455 2.25 0.00 0.00 3.08
6935 7668 3.679824 ACGGTTTCAGGAAGTTCTAGG 57.320 47.619 2.25 0.00 0.00 3.02
6936 7669 5.748592 CAAAACGGTTTCAGGAAGTTCTAG 58.251 41.667 6.57 0.00 0.00 2.43
6937 7670 4.035909 GCAAAACGGTTTCAGGAAGTTCTA 59.964 41.667 6.57 0.00 0.00 2.10
6940 7673 2.758423 AGCAAAACGGTTTCAGGAAGTT 59.242 40.909 6.57 0.00 0.00 2.66
6941 7674 2.099098 CAGCAAAACGGTTTCAGGAAGT 59.901 45.455 6.57 0.00 0.00 3.01
6942 7675 2.731217 CAGCAAAACGGTTTCAGGAAG 58.269 47.619 6.57 0.00 0.00 3.46
6943 7676 1.202359 GCAGCAAAACGGTTTCAGGAA 60.202 47.619 6.57 0.00 0.00 3.36
6944 7677 0.383949 GCAGCAAAACGGTTTCAGGA 59.616 50.000 6.57 0.00 0.00 3.86
6945 7678 0.385390 AGCAGCAAAACGGTTTCAGG 59.615 50.000 6.57 1.47 0.00 3.86
6948 7681 5.291293 TCTAATAGCAGCAAAACGGTTTC 57.709 39.130 6.57 0.00 0.00 2.78
6952 7685 5.036737 CCAAATCTAATAGCAGCAAAACGG 58.963 41.667 0.00 0.00 0.00 4.44
6953 7686 4.500477 GCCAAATCTAATAGCAGCAAAACG 59.500 41.667 0.00 0.00 0.00 3.60
6961 7739 3.540617 TCGCTTGCCAAATCTAATAGCA 58.459 40.909 0.00 0.00 0.00 3.49
6981 7759 7.777095 ACTCCACTCTTCTATGTTTACATCTC 58.223 38.462 0.00 0.00 37.76 2.75
7019 7808 3.924686 AGTTTTGTACGTAGCTCCGAATG 59.075 43.478 5.42 0.00 0.00 2.67
7022 7811 3.568538 GAAGTTTTGTACGTAGCTCCGA 58.431 45.455 5.42 0.00 0.00 4.55
7044 7833 4.082354 GCCTGCAGAATCAATTCCCATATC 60.082 45.833 17.39 0.00 37.51 1.63
7049 7838 1.407979 CAGCCTGCAGAATCAATTCCC 59.592 52.381 17.39 0.00 37.51 3.97
7061 7850 2.646930 CTGTAATTCATCCAGCCTGCA 58.353 47.619 0.00 0.00 0.00 4.41
7068 7857 1.016627 GCAGCGCTGTAATTCATCCA 58.983 50.000 35.80 0.00 0.00 3.41
7069 7858 1.262683 GAGCAGCGCTGTAATTCATCC 59.737 52.381 35.80 17.39 39.88 3.51
7070 7859 1.070975 CGAGCAGCGCTGTAATTCATC 60.071 52.381 35.80 18.10 39.88 2.92
7071 7860 0.933097 CGAGCAGCGCTGTAATTCAT 59.067 50.000 35.80 14.88 39.88 2.57
7072 7861 0.108851 TCGAGCAGCGCTGTAATTCA 60.109 50.000 35.80 14.54 39.88 2.57
7073 7862 0.999406 TTCGAGCAGCGCTGTAATTC 59.001 50.000 35.80 25.21 39.88 2.17
7074 7863 0.721718 GTTCGAGCAGCGCTGTAATT 59.278 50.000 35.80 20.28 39.88 1.40
7075 7864 0.389817 TGTTCGAGCAGCGCTGTAAT 60.390 50.000 35.80 23.20 39.88 1.89
7076 7865 0.598942 TTGTTCGAGCAGCGCTGTAA 60.599 50.000 35.80 22.21 39.88 2.41
7077 7866 0.389817 ATTGTTCGAGCAGCGCTGTA 60.390 50.000 35.80 17.95 39.88 2.74
7078 7867 1.630244 GATTGTTCGAGCAGCGCTGT 61.630 55.000 35.80 23.48 39.88 4.40
7079 7868 1.059994 GATTGTTCGAGCAGCGCTG 59.940 57.895 32.83 32.83 39.88 5.18
7080 7869 1.079543 AGATTGTTCGAGCAGCGCT 60.080 52.632 2.64 2.64 43.88 5.92
7081 7870 1.059994 CAGATTGTTCGAGCAGCGC 59.940 57.895 0.00 0.00 40.61 5.92
7093 7882 4.142359 ACGTTGTCTAGCTAGGTCAGATTG 60.142 45.833 20.58 12.06 0.00 2.67
7118 7907 5.124617 CCTTCCTAGATTTTGTTTCAGGCTC 59.875 44.000 0.00 0.00 0.00 4.70
7121 7910 6.490040 TCAACCTTCCTAGATTTTGTTTCAGG 59.510 38.462 0.00 0.00 0.00 3.86
7140 7929 3.814504 AGGATGTCCATTGTTCAACCT 57.185 42.857 1.30 0.00 38.89 3.50
7142 7931 4.156739 GGAGAAGGATGTCCATTGTTCAAC 59.843 45.833 1.30 0.00 38.85 3.18
7144 7933 3.330405 TGGAGAAGGATGTCCATTGTTCA 59.670 43.478 1.30 0.00 43.65 3.18
7145 7934 3.944015 CTGGAGAAGGATGTCCATTGTTC 59.056 47.826 1.30 0.00 46.96 3.18
7146 7935 3.875369 GCTGGAGAAGGATGTCCATTGTT 60.875 47.826 1.30 0.00 46.96 2.83
7147 7936 2.356535 GCTGGAGAAGGATGTCCATTGT 60.357 50.000 1.30 0.00 46.96 2.71
7148 7937 2.295885 GCTGGAGAAGGATGTCCATTG 58.704 52.381 1.30 0.00 46.96 2.82
7149 7938 1.918262 TGCTGGAGAAGGATGTCCATT 59.082 47.619 1.30 0.00 46.96 3.16
7150 7939 1.211457 GTGCTGGAGAAGGATGTCCAT 59.789 52.381 1.30 0.00 46.96 3.41
7174 7963 1.071471 AAGGAACTGGAGTGCACCG 59.929 57.895 14.63 2.20 40.86 4.94
7183 8060 1.630369 TGATCCACCTCAAGGAACTGG 59.370 52.381 2.30 0.35 40.86 4.00
7219 8096 1.129998 CTCATCTCACTTGGCTTTGCG 59.870 52.381 0.00 0.00 0.00 4.85
7256 8133 1.411246 TCACCTGGCCATCGTATGTAC 59.589 52.381 5.51 0.00 0.00 2.90
7266 8143 0.178992 CCAAAGTTCTCACCTGGCCA 60.179 55.000 4.71 4.71 0.00 5.36
7285 8162 3.006967 AGGTGTGTCTGATAACCTGTCAC 59.993 47.826 7.76 0.00 41.52 3.67
7298 8175 3.871594 CGACAAGAAGAAAAGGTGTGTCT 59.128 43.478 0.00 0.00 33.41 3.41
7302 8179 3.467803 CTCCGACAAGAAGAAAAGGTGT 58.532 45.455 0.00 0.00 0.00 4.16
7303 8180 2.808543 CCTCCGACAAGAAGAAAAGGTG 59.191 50.000 0.00 0.00 0.00 4.00
7335 8212 2.203209 GTCATAGCCGGCAAGGGG 60.203 66.667 31.54 13.22 41.48 4.79


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

AutoCloner maintained by Alex Coulton.