Multiple sequence alignment - TraesCS4D01G096100

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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 TraesCS4D01G096100 chr4D 100.000 5610 0 0 1 5610 72238962 72233353 0.000000e+00 10360
1 TraesCS4D01G096100 chr4D 89.785 186 13 3 403 583 100317827 100317643 3.380000e-57 233
2 TraesCS4D01G096100 chr4A 93.226 5610 206 56 1 5500 527501051 527495506 0.000000e+00 8094
3 TraesCS4D01G096100 chr4A 83.908 261 27 8 373 620 621430253 621429995 9.400000e-58 235
4 TraesCS4D01G096100 chr4B 90.355 5008 315 82 616 5544 105354199 105349281 0.000000e+00 6418
5 TraesCS4D01G096100 chr4B 83.534 249 29 6 1 248 673101357 673101594 7.320000e-54 222
6 TraesCS4D01G096100 chr1B 90.426 188 13 4 403 585 642774411 642774598 5.620000e-60 243
7 TraesCS4D01G096100 chr3A 85.714 238 19 9 403 626 13523198 13523434 2.610000e-58 237
8 TraesCS4D01G096100 chr1D 89.894 188 13 3 403 585 401204803 401204617 2.610000e-58 237
9 TraesCS4D01G096100 chr1D 89.362 188 14 3 403 585 475865200 475865014 1.220000e-56 231
10 TraesCS4D01G096100 chr1D 92.857 70 5 0 5541 5610 39948940 39948871 9.940000e-18 102
11 TraesCS4D01G096100 chr5D 89.418 189 14 3 403 585 70678013 70677825 3.380000e-57 233
12 TraesCS4D01G096100 chr5D 89.362 188 14 3 403 585 480467313 480467499 1.220000e-56 231
13 TraesCS4D01G096100 chr2D 89.730 185 13 5 406 585 643797644 643797461 1.220000e-56 231
14 TraesCS4D01G096100 chr2D 96.875 64 2 0 5547 5610 637956382 637956445 2.140000e-19 108
15 TraesCS4D01G096100 chrUn 81.961 255 34 9 1 254 99099976 99099733 7.370000e-49 206
16 TraesCS4D01G096100 chr6B 95.385 65 3 0 5546 5610 35233161 35233225 2.760000e-18 104
17 TraesCS4D01G096100 chr5A 95.385 65 3 0 5546 5610 132597466 132597530 2.760000e-18 104
18 TraesCS4D01G096100 chr5A 95.312 64 3 0 5547 5610 436260734 436260671 9.940000e-18 102
19 TraesCS4D01G096100 chr3D 94.118 68 4 0 5543 5610 472443014 472442947 2.760000e-18 104
20 TraesCS4D01G096100 chr3D 94.030 67 4 0 5544 5610 250054187 250054121 9.940000e-18 102
21 TraesCS4D01G096100 chr6D 92.857 70 5 0 5541 5610 454824307 454824376 9.940000e-18 102
22 TraesCS4D01G096100 chr5B 95.312 64 3 0 5547 5610 38605929 38605866 9.940000e-18 102


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 TraesCS4D01G096100 chr4D 72233353 72238962 5609 True 10360 10360 100.000 1 5610 1 chr4D.!!$R1 5609
1 TraesCS4D01G096100 chr4A 527495506 527501051 5545 True 8094 8094 93.226 1 5500 1 chr4A.!!$R1 5499
2 TraesCS4D01G096100 chr4B 105349281 105354199 4918 True 6418 6418 90.355 616 5544 1 chr4B.!!$R1 4928

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
896 933 1.139058 ACGCTCCTCTCTCTCTCTCTC 59.861 57.143 0.00 0.00 0.00 3.20 F
1512 1583 0.179032 TGCTTCCCAAAACGCTCTCA 60.179 50.000 0.00 0.00 0.00 3.27 F
2044 2141 0.450583 CATGTGGTGCTGCACATCTC 59.549 55.000 31.35 16.12 39.72 2.75 F
2826 2925 1.005215 CCCTCCAGAAGCAATTCAGGT 59.995 52.381 0.20 0.00 0.00 4.00 F
4247 4353 0.439985 CGCAGTGGTGAGATTTCGTG 59.560 55.000 0.00 0.00 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2089 2186 0.617413 AGGAGTGGAGAATGTGCCAG 59.383 55.000 0.00 0.00 34.22 4.85 R
3051 3150 0.606401 CTCGTGCCACCTTGTCCAAT 60.606 55.000 0.00 0.00 0.00 3.16 R
3799 3898 1.923909 GGAGCCAAGTACCTGGGGT 60.924 63.158 12.50 6.08 38.10 4.95 R
4357 4466 1.358877 TGAGAATGTCATTGTCGCCG 58.641 50.000 15.71 0.00 35.49 6.46 R
5501 5671 0.037790 GTCTGTCGCCAAGCTTCTCT 60.038 55.000 0.00 0.00 0.00 3.10 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
29 30 3.899726 AGGCCTTCGTAGAGTCAGATTA 58.100 45.455 0.00 0.00 38.43 1.75
41 42 8.283992 CGTAGAGTCAGATTAGACAATTACGAT 58.716 37.037 14.17 0.00 41.43 3.73
82 83 3.714487 TAGCGCCAAAGCCATCCCC 62.714 63.158 2.29 0.00 38.01 4.81
137 138 6.304683 GGCGTCATTGTAGTTAAACACAAATC 59.695 38.462 7.09 2.17 38.11 2.17
138 139 6.031003 GCGTCATTGTAGTTAAACACAAATCG 59.969 38.462 7.09 11.23 38.11 3.34
244 245 1.608055 CATCCACAGACAAGGCAACA 58.392 50.000 0.00 0.00 41.41 3.33
257 267 2.070262 GGCAACATGAACAAAGCCTC 57.930 50.000 0.00 0.00 39.02 4.70
307 317 2.897326 GGACATTGCCCAATTATACCCC 59.103 50.000 0.00 0.00 0.00 4.95
386 399 4.478843 TCGCGTGTATTCATAGTACTCC 57.521 45.455 5.77 0.00 0.00 3.85
422 446 3.699538 AGAACTTTGTTGGAGGGTCAAAC 59.300 43.478 0.00 0.00 0.00 2.93
432 456 6.940298 TGTTGGAGGGTCAAACTATCTTAAAG 59.060 38.462 0.00 0.00 0.00 1.85
448 472 6.114221 TCTTAAAGTTTGACCGAGTTTGTG 57.886 37.500 0.00 0.00 0.00 3.33
449 473 2.844122 AAGTTTGACCGAGTTTGTGC 57.156 45.000 0.00 0.00 0.00 4.57
450 474 1.745232 AGTTTGACCGAGTTTGTGCA 58.255 45.000 0.00 0.00 0.00 4.57
474 498 9.693157 GCAAAAATATATCAATGCTTGTGAAAC 57.307 29.630 8.52 0.00 37.35 2.78
485 509 8.584157 TCAATGCTTGTGAAACCAAATAAGTAT 58.416 29.630 0.00 0.00 34.36 2.12
486 510 9.853555 CAATGCTTGTGAAACCAAATAAGTATA 57.146 29.630 0.00 0.00 34.36 1.47
543 570 4.909696 TTTGATGACGTGAATGTTGGTT 57.090 36.364 0.00 0.00 0.00 3.67
563 590 9.706846 GTTGGTTTATTATTGTGTAATACGGTC 57.293 33.333 0.00 0.00 0.00 4.79
606 633 7.279313 TGACTGTTGGAAGTACACTCTTTTAAC 59.721 37.037 0.00 0.00 0.00 2.01
612 639 5.350640 GGAAGTACACTCTTTTAACGATGGG 59.649 44.000 0.00 0.00 0.00 4.00
623 651 2.176247 AACGATGGGGGAGTAGACAT 57.824 50.000 0.00 0.00 0.00 3.06
709 742 8.888579 AAATACCTCAGTTCGGAAATATAGTG 57.111 34.615 0.00 0.00 0.00 2.74
715 748 6.103997 TCAGTTCGGAAATATAGTGACCAAC 58.896 40.000 0.00 0.00 0.00 3.77
782 815 2.806382 CGAAGGCCCAGCAAACAAAAAT 60.806 45.455 0.00 0.00 0.00 1.82
785 818 5.623368 CGAAGGCCCAGCAAACAAAAATATA 60.623 40.000 0.00 0.00 0.00 0.86
895 932 1.204146 ACGCTCCTCTCTCTCTCTCT 58.796 55.000 0.00 0.00 0.00 3.10
896 933 1.139058 ACGCTCCTCTCTCTCTCTCTC 59.861 57.143 0.00 0.00 0.00 3.20
897 934 1.414181 CGCTCCTCTCTCTCTCTCTCT 59.586 57.143 0.00 0.00 0.00 3.10
898 935 2.546795 CGCTCCTCTCTCTCTCTCTCTC 60.547 59.091 0.00 0.00 0.00 3.20
899 936 2.703007 GCTCCTCTCTCTCTCTCTCTCT 59.297 54.545 0.00 0.00 0.00 3.10
900 937 3.244044 GCTCCTCTCTCTCTCTCTCTCTC 60.244 56.522 0.00 0.00 0.00 3.20
901 938 4.222336 CTCCTCTCTCTCTCTCTCTCTCT 58.778 52.174 0.00 0.00 0.00 3.10
902 939 4.219115 TCCTCTCTCTCTCTCTCTCTCTC 58.781 52.174 0.00 0.00 0.00 3.20
903 940 4.078922 TCCTCTCTCTCTCTCTCTCTCTCT 60.079 50.000 0.00 0.00 0.00 3.10
904 941 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.00 0.00 3.20
905 942 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
906 943 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
907 944 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
915 952 1.780309 TCTCTCTCTCTCTCCCCATCC 59.220 57.143 0.00 0.00 0.00 3.51
1242 1300 4.779733 GCGTCCCTCCCCTCTCCA 62.780 72.222 0.00 0.00 0.00 3.86
1317 1375 1.137513 CAAGTTCGAGTTCCGTGGTC 58.862 55.000 0.00 0.00 39.75 4.02
1382 1449 3.665745 TTTCCTGCCTTTTCATTCAGC 57.334 42.857 0.00 0.00 0.00 4.26
1388 1455 0.457337 CCTTTTCATTCAGCAGGCGC 60.457 55.000 0.00 0.00 38.99 6.53
1512 1583 0.179032 TGCTTCCCAAAACGCTCTCA 60.179 50.000 0.00 0.00 0.00 3.27
1588 1664 1.031571 TCAATGGCTGCGGTTCATCC 61.032 55.000 0.00 0.00 0.00 3.51
1655 1731 3.631686 TCATTAATTTGCTGGTCCATCCG 59.368 43.478 0.00 0.00 39.52 4.18
1756 1836 5.874261 CCTTGTGTTTTCATTCAGTTTTGGT 59.126 36.000 0.00 0.00 0.00 3.67
1790 1871 2.825532 TGGCAGCTCTTAATTTTCACCC 59.174 45.455 0.00 0.00 0.00 4.61
1800 1881 5.608860 TCTTAATTTTCACCCCCAACCATTT 59.391 36.000 0.00 0.00 0.00 2.32
1849 1946 2.258109 GAGGGACCAGGACTTTGTAGT 58.742 52.381 0.00 0.00 37.31 2.73
2038 2135 2.270257 GGCTTCATGTGGTGCTGCA 61.270 57.895 0.00 0.00 0.00 4.41
2044 2141 0.450583 CATGTGGTGCTGCACATCTC 59.549 55.000 31.35 16.12 39.72 2.75
2059 2156 2.064723 ATCTCATCCTCGGTGTCGCG 62.065 60.000 0.00 0.00 36.13 5.87
2089 2186 2.235402 TCGGTCCTTTGGGTACTGAATC 59.765 50.000 0.00 0.00 30.67 2.52
2114 2212 3.480470 CACATTCTCCACTCCTTGTTGT 58.520 45.455 0.00 0.00 0.00 3.32
2131 2229 7.713073 TCCTTGTTGTTAAATTGGTCCAAATTC 59.287 33.333 8.75 0.00 0.00 2.17
2356 2454 9.146984 CAATATCACTTGCATTTGTTCATTTCT 57.853 29.630 0.00 0.00 0.00 2.52
2370 2468 4.687901 TCATTTCTCTGTCTGTGGTTGA 57.312 40.909 0.00 0.00 0.00 3.18
2826 2925 1.005215 CCCTCCAGAAGCAATTCAGGT 59.995 52.381 0.20 0.00 0.00 4.00
2907 3006 7.826252 TCACTCAAAGAGAAATTCTTATCCCTG 59.174 37.037 0.00 0.00 45.41 4.45
2949 3048 4.750021 TGAGCTTGCAGATATCACTTCT 57.250 40.909 5.32 0.00 0.00 2.85
3011 3110 4.946160 TTCCCATTTCCCTAGACATGTT 57.054 40.909 0.00 0.00 29.64 2.71
3030 3129 6.889722 ACATGTTATGTTTAGCCATTAGGTGT 59.110 34.615 0.00 0.00 41.63 4.16
3051 3150 6.459024 GGTGTTTGTTTGTGCAGAGTGTATAA 60.459 38.462 0.00 0.00 0.00 0.98
3325 3424 2.945668 GCTTGTGTCACCTGTTTTCTCT 59.054 45.455 0.00 0.00 0.00 3.10
3547 3646 4.898861 AGGATTTTGAGCCAAAGGTAAACA 59.101 37.500 1.52 0.00 34.72 2.83
3734 3833 2.274437 AGTTAGCTGATCATGTGCACG 58.726 47.619 13.13 0.00 0.00 5.34
4247 4353 0.439985 CGCAGTGGTGAGATTTCGTG 59.560 55.000 0.00 0.00 0.00 4.35
4260 4366 5.006941 TGAGATTTCGTGTGTGATGCATATG 59.993 40.000 0.00 0.00 0.00 1.78
4264 4370 4.599047 TCGTGTGTGATGCATATGGATA 57.401 40.909 9.98 0.00 0.00 2.59
4266 4372 4.039124 TCGTGTGTGATGCATATGGATAGT 59.961 41.667 9.98 0.00 0.00 2.12
4283 4389 5.009911 TGGATAGTGCCATTTATCATGTTGC 59.990 40.000 0.00 0.00 31.66 4.17
4284 4390 3.425577 AGTGCCATTTATCATGTTGCG 57.574 42.857 0.00 0.00 0.00 4.85
4285 4391 2.754552 AGTGCCATTTATCATGTTGCGT 59.245 40.909 0.00 0.00 0.00 5.24
4286 4392 3.944650 AGTGCCATTTATCATGTTGCGTA 59.055 39.130 0.00 0.00 0.00 4.42
4287 4393 4.397730 AGTGCCATTTATCATGTTGCGTAA 59.602 37.500 0.00 0.00 0.00 3.18
4288 4394 5.067674 AGTGCCATTTATCATGTTGCGTAAT 59.932 36.000 0.00 0.00 0.00 1.89
4289 4395 5.173673 GTGCCATTTATCATGTTGCGTAATG 59.826 40.000 0.00 0.00 0.00 1.90
4290 4396 4.148696 GCCATTTATCATGTTGCGTAATGC 59.851 41.667 0.00 0.00 46.70 3.56
4308 4414 5.464965 AATGCGTATTTCCTTTGTACTCG 57.535 39.130 0.00 0.00 0.00 4.18
4357 4466 5.239525 ACATCAGGTTTTGAAGCTACTTGAC 59.760 40.000 0.95 0.00 39.77 3.18
4396 4505 3.776969 TCAAGTGGGCTAGATCTCATGTT 59.223 43.478 0.00 0.00 0.00 2.71
4405 4514 5.406780 GGCTAGATCTCATGTTGGTTTATCG 59.593 44.000 0.00 0.00 0.00 2.92
4749 4869 1.683917 CCTCCTCAGGGTCTATGTTCG 59.316 57.143 0.00 0.00 35.89 3.95
4763 4883 7.332182 GGGTCTATGTTCGGATCATTATTTCTC 59.668 40.741 6.85 0.00 0.00 2.87
4799 4925 4.030913 CCCCCTAGAGTTGTTATGAGTGA 58.969 47.826 0.00 0.00 0.00 3.41
4800 4926 4.100189 CCCCCTAGAGTTGTTATGAGTGAG 59.900 50.000 0.00 0.00 0.00 3.51
4801 4927 4.442192 CCCCTAGAGTTGTTATGAGTGAGC 60.442 50.000 0.00 0.00 0.00 4.26
4802 4928 4.442192 CCCTAGAGTTGTTATGAGTGAGCC 60.442 50.000 0.00 0.00 0.00 4.70
4803 4929 4.404073 CCTAGAGTTGTTATGAGTGAGCCT 59.596 45.833 0.00 0.00 0.00 4.58
4804 4930 4.199432 AGAGTTGTTATGAGTGAGCCTG 57.801 45.455 0.00 0.00 0.00 4.85
4858 4984 3.922171 AAAGTAGAGCAGGGAGAATGG 57.078 47.619 0.00 0.00 0.00 3.16
4862 4988 1.963985 AGAGCAGGGAGAATGGAACT 58.036 50.000 0.00 0.00 0.00 3.01
4869 4995 1.340114 GGGAGAATGGAACTGTGGGTC 60.340 57.143 0.00 0.00 0.00 4.46
4903 5029 4.706476 ACCACACCCAAATCATTAGTGATG 59.294 41.667 0.92 0.00 44.20 3.07
4914 5040 0.988832 TTAGTGATGGTTCCGCCCTT 59.011 50.000 0.00 0.00 36.04 3.95
5052 5184 5.620206 CCTTGTGCTATTACCCATCACATA 58.380 41.667 0.00 0.00 37.48 2.29
5064 5196 3.259902 CCATCACATATGCTCCAGATCG 58.740 50.000 1.58 0.00 0.00 3.69
5069 5201 3.492383 CACATATGCTCCAGATCGTGAAC 59.508 47.826 1.58 0.00 0.00 3.18
5113 5248 3.967326 ACACCCAGATACTGCTAGCATAA 59.033 43.478 19.72 9.83 0.00 1.90
5151 5298 1.224075 CTCCACGATGATGCATCCAC 58.776 55.000 23.67 15.62 37.57 4.02
5164 5311 3.877559 TGCATCCACTAGACAATGAAGG 58.122 45.455 0.00 0.00 0.00 3.46
5329 5483 7.772757 GGAGTAAAGCTGTCCTACTAGTAGTAA 59.227 40.741 24.84 12.42 29.00 2.24
5336 5490 9.378504 AGCTGTCCTACTAGTAGTAAGATACTA 57.621 37.037 24.84 6.48 40.14 1.82
5337 5491 9.995003 GCTGTCCTACTAGTAGTAAGATACTAA 57.005 37.037 24.84 4.08 42.45 2.24
5357 5511 3.855689 AAAATCCTTTGGTGATCGCAG 57.144 42.857 8.82 0.00 0.00 5.18
5358 5512 1.755179 AATCCTTTGGTGATCGCAGG 58.245 50.000 8.82 6.69 0.00 4.85
5359 5513 0.749454 ATCCTTTGGTGATCGCAGGC 60.749 55.000 8.82 0.00 0.00 4.85
5360 5514 1.675310 CCTTTGGTGATCGCAGGCA 60.675 57.895 8.82 0.00 0.00 4.75
5444 5611 1.069978 CATGAACCAACCAACCAACCC 59.930 52.381 0.00 0.00 0.00 4.11
5445 5612 1.038130 TGAACCAACCAACCAACCCG 61.038 55.000 0.00 0.00 0.00 5.28
5446 5613 1.740332 GAACCAACCAACCAACCCGG 61.740 60.000 0.00 0.00 42.50 5.73
5447 5614 2.196229 CCAACCAACCAACCCGGA 59.804 61.111 0.73 0.00 38.63 5.14
5500 5670 2.358957 CGACAATGGCAGGATTCTTGA 58.641 47.619 0.00 0.00 0.00 3.02
5501 5671 2.749076 CGACAATGGCAGGATTCTTGAA 59.251 45.455 0.00 0.00 0.00 2.69
5505 5675 4.263639 ACAATGGCAGGATTCTTGAAGAGA 60.264 41.667 0.00 0.00 0.00 3.10
5521 5693 0.319900 GAGAAGCTTGGCGACAGACA 60.320 55.000 2.10 0.00 44.54 3.41
5530 5702 0.645868 GGCGACAGACAGCGAATAAC 59.354 55.000 0.00 0.00 0.00 1.89
5537 5709 0.108520 GACAGCGAATAACGGGGACA 60.109 55.000 0.00 0.00 42.83 4.02
5541 5713 0.671163 GCGAATAACGGGGACACACA 60.671 55.000 0.00 0.00 42.83 3.72
5544 5716 2.094597 CGAATAACGGGGACACACACTA 60.095 50.000 0.00 0.00 38.46 2.74
5545 5717 3.518590 GAATAACGGGGACACACACTAG 58.481 50.000 0.00 0.00 0.00 2.57
5546 5718 1.999648 TAACGGGGACACACACTAGT 58.000 50.000 0.00 0.00 0.00 2.57
5547 5719 1.999648 AACGGGGACACACACTAGTA 58.000 50.000 0.00 0.00 0.00 1.82
5548 5720 1.251251 ACGGGGACACACACTAGTAC 58.749 55.000 0.00 0.00 0.00 2.73
5549 5721 1.202976 ACGGGGACACACACTAGTACT 60.203 52.381 0.00 0.00 0.00 2.73
5550 5722 1.471684 CGGGGACACACACTAGTACTC 59.528 57.143 0.00 0.00 0.00 2.59
5551 5723 1.823610 GGGGACACACACTAGTACTCC 59.176 57.143 0.00 0.00 0.00 3.85
5552 5724 1.823610 GGGACACACACTAGTACTCCC 59.176 57.143 0.00 0.00 33.09 4.30
5553 5725 2.557005 GGGACACACACTAGTACTCCCT 60.557 54.545 0.00 0.00 35.89 4.20
5554 5726 2.754002 GGACACACACTAGTACTCCCTC 59.246 54.545 0.00 0.00 0.00 4.30
5555 5727 3.418995 GACACACACTAGTACTCCCTCA 58.581 50.000 0.00 0.00 0.00 3.86
5556 5728 3.422796 ACACACACTAGTACTCCCTCAG 58.577 50.000 0.00 0.00 0.00 3.35
5557 5729 3.181431 ACACACACTAGTACTCCCTCAGT 60.181 47.826 0.00 0.00 39.41 3.41
5558 5730 3.827302 CACACACTAGTACTCCCTCAGTT 59.173 47.826 0.00 0.00 36.43 3.16
5559 5731 4.080687 ACACACTAGTACTCCCTCAGTTC 58.919 47.826 0.00 0.00 36.43 3.01
5560 5732 3.444388 CACACTAGTACTCCCTCAGTTCC 59.556 52.174 0.00 0.00 36.43 3.62
5561 5733 3.334280 ACACTAGTACTCCCTCAGTTCCT 59.666 47.826 0.00 0.00 36.43 3.36
5562 5734 4.539293 ACACTAGTACTCCCTCAGTTCCTA 59.461 45.833 0.00 0.00 36.43 2.94
5563 5735 5.127491 CACTAGTACTCCCTCAGTTCCTAG 58.873 50.000 0.00 0.00 39.34 3.02
5564 5736 5.038279 ACTAGTACTCCCTCAGTTCCTAGA 58.962 45.833 0.00 0.00 37.51 2.43
5565 5737 5.673113 ACTAGTACTCCCTCAGTTCCTAGAT 59.327 44.000 0.00 0.00 37.51 1.98
5566 5738 6.850765 ACTAGTACTCCCTCAGTTCCTAGATA 59.149 42.308 0.00 0.00 37.51 1.98
5567 5739 6.790177 AGTACTCCCTCAGTTCCTAGATAT 57.210 41.667 0.00 0.00 36.43 1.63
5568 5740 7.891825 AGTACTCCCTCAGTTCCTAGATATA 57.108 40.000 0.00 0.00 36.43 0.86
5569 5741 8.290463 AGTACTCCCTCAGTTCCTAGATATAA 57.710 38.462 0.00 0.00 36.43 0.98
5570 5742 8.387813 AGTACTCCCTCAGTTCCTAGATATAAG 58.612 40.741 0.00 0.00 36.43 1.73
5571 5743 7.169287 ACTCCCTCAGTTCCTAGATATAAGT 57.831 40.000 0.00 0.00 26.56 2.24
5572 5744 7.235804 ACTCCCTCAGTTCCTAGATATAAGTC 58.764 42.308 0.00 0.00 26.56 3.01
5573 5745 7.074494 ACTCCCTCAGTTCCTAGATATAAGTCT 59.926 40.741 0.00 0.00 26.56 3.24
5574 5746 7.827787 TCCCTCAGTTCCTAGATATAAGTCTT 58.172 38.462 0.00 0.00 0.00 3.01
5575 5747 8.290277 TCCCTCAGTTCCTAGATATAAGTCTTT 58.710 37.037 0.00 0.00 0.00 2.52
5576 5748 8.929487 CCCTCAGTTCCTAGATATAAGTCTTTT 58.071 37.037 0.00 0.00 0.00 2.27
5594 5766 8.477419 AGTCTTTTTAGACATTTCAAATGGGA 57.523 30.769 14.70 0.00 41.02 4.37
5595 5767 9.093458 AGTCTTTTTAGACATTTCAAATGGGAT 57.907 29.630 14.70 2.61 41.02 3.85
5596 5768 9.143631 GTCTTTTTAGACATTTCAAATGGGATG 57.856 33.333 14.70 0.00 38.59 3.51
5597 5769 7.818930 TCTTTTTAGACATTTCAAATGGGATGC 59.181 33.333 14.70 0.00 0.00 3.91
5598 5770 6.602410 TTTAGACATTTCAAATGGGATGCA 57.398 33.333 14.70 0.00 0.00 3.96
5599 5771 6.602410 TTAGACATTTCAAATGGGATGCAA 57.398 33.333 14.70 0.00 0.00 4.08
5600 5772 4.824289 AGACATTTCAAATGGGATGCAAC 58.176 39.130 14.70 0.00 0.00 4.17
5601 5773 4.283978 AGACATTTCAAATGGGATGCAACA 59.716 37.500 14.70 0.00 0.00 3.33
5602 5774 5.046159 AGACATTTCAAATGGGATGCAACAT 60.046 36.000 14.70 0.00 0.00 2.71
5603 5775 6.154877 AGACATTTCAAATGGGATGCAACATA 59.845 34.615 14.70 0.00 0.00 2.29
5604 5776 6.108015 ACATTTCAAATGGGATGCAACATAC 58.892 36.000 14.70 0.00 0.00 2.39
5605 5777 4.368874 TTCAAATGGGATGCAACATACG 57.631 40.909 0.00 0.00 0.00 3.06
5606 5778 2.687425 TCAAATGGGATGCAACATACGG 59.313 45.455 0.00 0.00 0.00 4.02
5607 5779 2.687425 CAAATGGGATGCAACATACGGA 59.313 45.455 0.00 0.00 0.00 4.69
5608 5780 2.957402 ATGGGATGCAACATACGGAT 57.043 45.000 0.00 0.00 0.00 4.18
5609 5781 1.965935 TGGGATGCAACATACGGATG 58.034 50.000 5.94 5.94 39.16 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 3.886505 CTGACTCTACGAAGGCCTTATCT 59.113 47.826 20.54 6.11 0.00 1.98
11 12 6.438259 TTGTCTAATCTGACTCTACGAAGG 57.562 41.667 0.00 0.00 37.79 3.46
14 15 7.493645 TCGTAATTGTCTAATCTGACTCTACGA 59.506 37.037 15.19 15.19 40.88 3.43
18 19 8.226819 TCATCGTAATTGTCTAATCTGACTCT 57.773 34.615 0.00 0.00 37.79 3.24
29 30 5.358442 ACACTCTAGCTCATCGTAATTGTCT 59.642 40.000 0.00 0.00 0.00 3.41
41 42 2.808919 AGCCTACAACACTCTAGCTCA 58.191 47.619 0.00 0.00 0.00 4.26
137 138 4.300457 TTTTTGCAGCTTGTCGCG 57.700 50.000 0.00 0.00 45.59 5.87
159 160 1.739667 CAGCGATACGATGGGTCCA 59.260 57.895 1.47 0.00 39.68 4.02
210 211 5.010922 TCTGTGGATGGTTCCTTTTTGATTG 59.989 40.000 0.00 0.00 43.07 2.67
211 212 5.011023 GTCTGTGGATGGTTCCTTTTTGATT 59.989 40.000 0.00 0.00 43.07 2.57
234 235 2.483538 GGCTTTGTTCATGTTGCCTTGT 60.484 45.455 0.00 0.00 37.58 3.16
268 278 9.369904 GCAATGTCCATGAAAAATATGTTAACT 57.630 29.630 7.22 0.00 0.00 2.24
280 290 5.954153 ATAATTGGGCAATGTCCATGAAA 57.046 34.783 7.67 0.00 37.08 2.69
346 357 5.107645 ACGCGAAATTGAAATTTTAGTTGGC 60.108 36.000 15.93 9.63 38.64 4.52
367 380 4.321082 GGAGGGAGTACTATGAATACACGC 60.321 50.000 0.00 0.00 0.00 5.34
386 399 2.841442 AGTTCTTTCAAGGACGGAGG 57.159 50.000 0.00 0.00 39.59 4.30
422 446 8.009974 CACAAACTCGGTCAAACTTTAAGATAG 58.990 37.037 0.00 0.00 0.00 2.08
432 456 2.553079 TTGCACAAACTCGGTCAAAC 57.447 45.000 0.00 0.00 0.00 2.93
438 462 8.533965 CATTGATATATTTTTGCACAAACTCGG 58.466 33.333 0.00 0.00 0.00 4.63
529 556 7.653647 ACACAATAATAAACCAACATTCACGT 58.346 30.769 0.00 0.00 0.00 4.49
530 557 9.613957 TTACACAATAATAAACCAACATTCACG 57.386 29.630 0.00 0.00 0.00 4.35
543 570 9.149225 ACGTTTGACCGTATTACACAATAATAA 57.851 29.630 0.00 0.00 39.73 1.40
577 604 5.930135 AGAGTGTACTTCCAACAGTCAAAT 58.070 37.500 12.22 0.00 45.67 2.32
596 623 2.910977 ACTCCCCCATCGTTAAAAGAGT 59.089 45.455 0.00 0.00 0.00 3.24
606 633 1.704641 TGATGTCTACTCCCCCATCG 58.295 55.000 0.00 0.00 37.18 3.84
612 639 4.141711 TGCCAGTTTATGATGTCTACTCCC 60.142 45.833 0.00 0.00 0.00 4.30
623 651 8.224025 TCCTTATAAATCCATGCCAGTTTATGA 58.776 33.333 10.50 4.96 31.39 2.15
709 742 4.568760 GCTTAGAGACATGCTTAGTTGGTC 59.431 45.833 0.00 0.00 0.00 4.02
715 748 2.131183 GGCGCTTAGAGACATGCTTAG 58.869 52.381 7.64 0.00 0.00 2.18
782 815 4.409718 TGCGGCTTTGTATTGGAGTATA 57.590 40.909 0.00 0.00 0.00 1.47
785 818 2.128771 ATGCGGCTTTGTATTGGAGT 57.871 45.000 0.00 0.00 0.00 3.85
826 860 3.857764 GGAGGACGACGATCCCAT 58.142 61.111 0.00 0.00 39.91 4.00
873 907 0.100503 GAGAGAGAGAGGAGCGTTGC 59.899 60.000 0.00 0.00 0.00 4.17
895 932 1.780309 GGATGGGGAGAGAGAGAGAGA 59.220 57.143 0.00 0.00 0.00 3.10
896 933 1.203050 GGGATGGGGAGAGAGAGAGAG 60.203 61.905 0.00 0.00 0.00 3.20
897 934 0.856982 GGGATGGGGAGAGAGAGAGA 59.143 60.000 0.00 0.00 0.00 3.10
898 935 0.859760 AGGGATGGGGAGAGAGAGAG 59.140 60.000 0.00 0.00 0.00 3.20
899 936 0.856982 GAGGGATGGGGAGAGAGAGA 59.143 60.000 0.00 0.00 0.00 3.10
900 937 0.539438 CGAGGGATGGGGAGAGAGAG 60.539 65.000 0.00 0.00 0.00 3.20
901 938 1.539165 CGAGGGATGGGGAGAGAGA 59.461 63.158 0.00 0.00 0.00 3.10
902 939 2.206536 GCGAGGGATGGGGAGAGAG 61.207 68.421 0.00 0.00 0.00 3.20
903 940 2.123251 GCGAGGGATGGGGAGAGA 60.123 66.667 0.00 0.00 0.00 3.10
904 941 2.123077 AGCGAGGGATGGGGAGAG 60.123 66.667 0.00 0.00 0.00 3.20
905 942 2.444706 CAGCGAGGGATGGGGAGA 60.445 66.667 0.00 0.00 0.00 3.71
906 943 2.765807 ACAGCGAGGGATGGGGAG 60.766 66.667 0.00 0.00 32.67 4.30
907 944 2.764128 GACAGCGAGGGATGGGGA 60.764 66.667 0.00 0.00 32.67 4.81
1094 1150 4.896829 TCCTCCCGCTAGCTCCGG 62.897 72.222 13.93 16.50 45.17 5.14
1095 1151 3.597728 GTCCTCCCGCTAGCTCCG 61.598 72.222 13.93 0.00 0.00 4.63
1096 1152 3.597728 CGTCCTCCCGCTAGCTCC 61.598 72.222 13.93 0.00 0.00 4.70
1097 1153 3.597728 CCGTCCTCCCGCTAGCTC 61.598 72.222 13.93 0.00 0.00 4.09
1098 1154 4.444081 ACCGTCCTCCCGCTAGCT 62.444 66.667 13.93 0.00 0.00 3.32
1099 1155 4.208686 CACCGTCCTCCCGCTAGC 62.209 72.222 4.06 4.06 0.00 3.42
1100 1156 3.528370 CCACCGTCCTCCCGCTAG 61.528 72.222 0.00 0.00 0.00 3.42
1158 1214 3.620300 CTTGACGAGCGCCCACGTA 62.620 63.158 20.85 9.04 42.74 3.57
1452 1519 0.947180 GGTTGCAGAAGCCGTCGTAA 60.947 55.000 0.00 0.00 41.13 3.18
1484 1555 2.406002 TTTGGGAAGCACGGAGGGAC 62.406 60.000 0.00 0.00 0.00 4.46
1492 1563 0.238553 GAGAGCGTTTTGGGAAGCAC 59.761 55.000 0.00 0.00 0.00 4.40
1588 1664 0.385390 ACGGAAAAGGCAAGTGCTTG 59.615 50.000 7.51 7.51 43.14 4.01
1732 1811 5.874261 ACCAAAACTGAATGAAAACACAAGG 59.126 36.000 0.00 0.00 0.00 3.61
1756 1836 1.417145 AGCTGCCAAAATTTCAAGCCA 59.583 42.857 0.00 0.00 0.00 4.75
1790 1871 6.148645 GTGGCAGTAAAAATTAAATGGTTGGG 59.851 38.462 0.00 0.00 0.00 4.12
1800 1881 5.300539 TGACAAGCAGTGGCAGTAAAAATTA 59.699 36.000 0.00 0.00 41.83 1.40
1849 1946 1.200519 CCGGTGGTAGGATCAAAGGA 58.799 55.000 0.00 0.00 0.00 3.36
1904 2001 7.308830 CGATGAGAATTTTGAGGAGGAAAAACT 60.309 37.037 0.00 0.00 0.00 2.66
2038 2135 0.741326 CGACACCGAGGATGAGATGT 59.259 55.000 0.00 0.00 38.22 3.06
2044 2141 1.874019 CTTCGCGACACCGAGGATG 60.874 63.158 9.15 0.00 38.60 3.51
2059 2156 3.010420 CCCAAAGGACCGAGAATTCTTC 58.990 50.000 9.87 3.18 33.47 2.87
2074 2171 2.749621 GTGCCAGATTCAGTACCCAAAG 59.250 50.000 0.00 0.00 0.00 2.77
2089 2186 0.617413 AGGAGTGGAGAATGTGCCAG 59.383 55.000 0.00 0.00 34.22 4.85
2131 2229 6.106673 AGGACACTAATATGAGGAACAAACG 58.893 40.000 0.00 0.00 0.00 3.60
2331 2429 9.362539 GAGAAATGAACAAATGCAAGTGATATT 57.637 29.630 6.97 2.51 0.00 1.28
2370 2468 7.761704 CAGTTACAGAGTTAAGCATACTCATGT 59.238 37.037 13.21 14.35 43.52 3.21
2532 2631 2.688364 GTGAAACTTCCTTTGGCGAG 57.312 50.000 0.00 0.00 0.00 5.03
2826 2925 2.880268 CTCAATCACAACAGAAGTGCCA 59.120 45.455 0.00 0.00 36.93 4.92
2907 3006 7.488471 AGCTCATTGTAACTGTACGAAGAATAC 59.512 37.037 0.00 0.00 32.40 1.89
3011 3110 7.768807 AACAAACACCTAATGGCTAAACATA 57.231 32.000 0.00 0.00 36.63 2.29
3030 3129 7.013750 TCCAATTATACACTCTGCACAAACAAA 59.986 33.333 0.00 0.00 0.00 2.83
3051 3150 0.606401 CTCGTGCCACCTTGTCCAAT 60.606 55.000 0.00 0.00 0.00 3.16
3080 3179 5.344743 TGCCATTTGTCAAACAACCTTTA 57.655 34.783 0.00 0.00 37.90 1.85
3198 3297 4.314121 GAGAAGCCAGTGATGGATATGAC 58.686 47.826 0.00 0.00 0.00 3.06
3799 3898 1.923909 GGAGCCAAGTACCTGGGGT 60.924 63.158 12.50 6.08 38.10 4.95
3978 4077 2.497107 ACAAACAAGCAGCATGTGAC 57.503 45.000 3.54 0.00 39.31 3.67
4154 4260 3.249559 GTCATCCTCTCAATTTCATCGGC 59.750 47.826 0.00 0.00 0.00 5.54
4247 4353 3.438087 GGCACTATCCATATGCATCACAC 59.562 47.826 0.19 0.00 41.27 3.82
4260 4366 5.464168 GCAACATGATAAATGGCACTATCC 58.536 41.667 0.00 0.00 0.00 2.59
4264 4370 2.754552 ACGCAACATGATAAATGGCACT 59.245 40.909 0.00 0.00 0.00 4.40
4266 4372 4.972514 TTACGCAACATGATAAATGGCA 57.027 36.364 0.00 0.00 0.00 4.92
4284 4390 6.408428 CGAGTACAAAGGAAATACGCATTAC 58.592 40.000 0.00 0.00 0.00 1.89
4285 4391 5.005971 GCGAGTACAAAGGAAATACGCATTA 59.994 40.000 0.00 0.00 42.39 1.90
4286 4392 4.201783 GCGAGTACAAAGGAAATACGCATT 60.202 41.667 0.00 0.00 42.39 3.56
4287 4393 3.308866 GCGAGTACAAAGGAAATACGCAT 59.691 43.478 0.00 0.00 42.39 4.73
4288 4394 2.669434 GCGAGTACAAAGGAAATACGCA 59.331 45.455 0.00 0.00 42.39 5.24
4289 4395 2.669434 TGCGAGTACAAAGGAAATACGC 59.331 45.455 0.00 0.00 42.98 4.42
4290 4396 4.804139 AGATGCGAGTACAAAGGAAATACG 59.196 41.667 0.00 0.00 0.00 3.06
4308 4414 3.944015 ACAGATGGAAGCTTGTAAGATGC 59.056 43.478 2.10 0.00 0.00 3.91
4357 4466 1.358877 TGAGAATGTCATTGTCGCCG 58.641 50.000 15.71 0.00 35.49 6.46
4396 4505 2.009051 TCGCTCTCGTACGATAAACCA 58.991 47.619 19.87 0.00 36.96 3.67
4405 4514 1.654743 GTCGCCATCGCTCTCGTAC 60.655 63.158 0.00 0.00 36.96 3.67
4763 4883 6.178324 ACTCTAGGGGGAAGAAAAATAAACG 58.822 40.000 0.00 0.00 0.00 3.60
4799 4925 1.985159 TGGGTGAGAACATTACAGGCT 59.015 47.619 0.00 0.00 0.00 4.58
4800 4926 2.489938 TGGGTGAGAACATTACAGGC 57.510 50.000 0.00 0.00 0.00 4.85
4801 4927 3.758554 CCTTTGGGTGAGAACATTACAGG 59.241 47.826 0.00 0.00 0.00 4.00
4802 4928 4.651778 TCCTTTGGGTGAGAACATTACAG 58.348 43.478 0.00 0.00 0.00 2.74
4803 4929 4.715534 TCCTTTGGGTGAGAACATTACA 57.284 40.909 0.00 0.00 0.00 2.41
4804 4930 5.253330 TCATCCTTTGGGTGAGAACATTAC 58.747 41.667 0.00 0.00 0.00 1.89
4858 4984 1.652563 GGCAAACGACCCACAGTTC 59.347 57.895 0.00 0.00 0.00 3.01
4869 4995 2.411290 GTGTGGTGTGGGCAAACG 59.589 61.111 0.00 0.00 0.00 3.60
4914 5040 8.445275 TGATTTTACTCTTAACAAGTGAGCAA 57.555 30.769 0.00 0.00 0.00 3.91
5052 5184 2.625737 CTTGTTCACGATCTGGAGCAT 58.374 47.619 0.00 0.00 0.00 3.79
5064 5196 4.074970 ACATTGATCCTGACCTTGTTCAC 58.925 43.478 0.00 0.00 0.00 3.18
5069 5201 5.882000 TGTGAATACATTGATCCTGACCTTG 59.118 40.000 0.00 0.00 0.00 3.61
5113 5248 4.141181 TGGAGCACAAGCCTGGATTAATAT 60.141 41.667 0.00 0.00 43.56 1.28
5151 5298 2.237143 TCACTGGCCCTTCATTGTCTAG 59.763 50.000 0.00 0.00 0.00 2.43
5164 5311 5.675538 AGTTAGTTATCAGAATCACTGGCC 58.324 41.667 0.00 0.00 45.76 5.36
5294 5448 2.503356 ACAGCTTTACTCCTCCTCCATG 59.497 50.000 0.00 0.00 0.00 3.66
5329 5483 7.012421 GCGATCACCAAAGGATTTTTAGTATCT 59.988 37.037 0.00 0.00 35.03 1.98
5336 5490 3.056607 CCTGCGATCACCAAAGGATTTTT 60.057 43.478 0.00 0.00 35.03 1.94
5337 5491 2.493278 CCTGCGATCACCAAAGGATTTT 59.507 45.455 0.00 0.00 35.03 1.82
5343 5497 1.651240 CCTGCCTGCGATCACCAAAG 61.651 60.000 0.00 0.00 0.00 2.77
5357 5511 2.985847 GTCCCAACTGTGCCTGCC 60.986 66.667 0.00 0.00 0.00 4.85
5358 5512 1.827789 TTGTCCCAACTGTGCCTGC 60.828 57.895 0.00 0.00 0.00 4.85
5359 5513 0.751277 TGTTGTCCCAACTGTGCCTG 60.751 55.000 8.41 0.00 0.00 4.85
5360 5514 0.185901 ATGTTGTCCCAACTGTGCCT 59.814 50.000 8.41 0.00 0.00 4.75
5444 5611 2.056223 AGTACCATCCACGGGTCCG 61.056 63.158 7.97 7.97 46.03 4.79
5445 5612 1.520666 CAGTACCATCCACGGGTCC 59.479 63.158 0.00 0.00 39.85 4.46
5446 5613 1.153429 GCAGTACCATCCACGGGTC 60.153 63.158 0.00 0.00 39.85 4.46
5447 5614 1.271840 ATGCAGTACCATCCACGGGT 61.272 55.000 0.00 0.00 42.48 5.28
5451 5618 2.484417 CCTCTCATGCAGTACCATCCAC 60.484 54.545 0.00 0.00 0.00 4.02
5500 5670 0.681733 TCTGTCGCCAAGCTTCTCTT 59.318 50.000 0.00 0.00 34.78 2.85
5501 5671 0.037790 GTCTGTCGCCAAGCTTCTCT 60.038 55.000 0.00 0.00 0.00 3.10
5505 5675 1.963338 GCTGTCTGTCGCCAAGCTT 60.963 57.895 0.00 0.00 0.00 3.74
5506 5676 2.358003 GCTGTCTGTCGCCAAGCT 60.358 61.111 0.00 0.00 0.00 3.74
5521 5693 0.390735 GTGTGTCCCCGTTATTCGCT 60.391 55.000 0.00 0.00 38.35 4.93
5530 5702 1.471684 GAGTACTAGTGTGTGTCCCCG 59.528 57.143 5.39 0.00 0.00 5.73
5537 5709 3.810721 ACTGAGGGAGTACTAGTGTGT 57.189 47.619 5.39 0.00 30.86 3.72
5541 5713 5.038279 TCTAGGAACTGAGGGAGTACTAGT 58.962 45.833 0.00 0.00 40.26 2.57
5544 5716 6.790177 ATATCTAGGAACTGAGGGAGTACT 57.210 41.667 0.00 0.00 41.52 2.73
5545 5717 8.165397 ACTTATATCTAGGAACTGAGGGAGTAC 58.835 40.741 0.00 0.00 41.52 2.73
5546 5718 8.290463 ACTTATATCTAGGAACTGAGGGAGTA 57.710 38.462 0.00 0.00 41.52 2.59
5547 5719 7.074494 AGACTTATATCTAGGAACTGAGGGAGT 59.926 40.741 0.00 0.00 41.52 3.85
5548 5720 7.466804 AGACTTATATCTAGGAACTGAGGGAG 58.533 42.308 0.00 0.00 41.52 4.30
5549 5721 7.409408 AGACTTATATCTAGGAACTGAGGGA 57.591 40.000 0.00 0.00 41.52 4.20
5550 5722 8.485578 AAAGACTTATATCTAGGAACTGAGGG 57.514 38.462 0.00 0.00 41.52 4.30
5568 5740 8.923270 TCCCATTTGAAATGTCTAAAAAGACTT 58.077 29.630 15.93 0.00 39.41 3.01
5569 5741 8.477419 TCCCATTTGAAATGTCTAAAAAGACT 57.523 30.769 15.93 0.00 39.41 3.24
5570 5742 9.143631 CATCCCATTTGAAATGTCTAAAAAGAC 57.856 33.333 15.93 0.00 39.15 3.01
5571 5743 7.818930 GCATCCCATTTGAAATGTCTAAAAAGA 59.181 33.333 15.93 1.73 0.00 2.52
5572 5744 7.603404 TGCATCCCATTTGAAATGTCTAAAAAG 59.397 33.333 15.93 0.00 0.00 2.27
5573 5745 7.448420 TGCATCCCATTTGAAATGTCTAAAAA 58.552 30.769 15.93 0.00 0.00 1.94
5574 5746 7.002250 TGCATCCCATTTGAAATGTCTAAAA 57.998 32.000 15.93 0.00 0.00 1.52
5575 5747 6.602410 TGCATCCCATTTGAAATGTCTAAA 57.398 33.333 15.93 0.00 0.00 1.85
5576 5748 6.014755 TGTTGCATCCCATTTGAAATGTCTAA 60.015 34.615 15.93 0.21 0.00 2.10
5577 5749 5.479724 TGTTGCATCCCATTTGAAATGTCTA 59.520 36.000 15.93 2.46 0.00 2.59
5578 5750 4.283978 TGTTGCATCCCATTTGAAATGTCT 59.716 37.500 15.93 0.00 0.00 3.41
5579 5751 4.567971 TGTTGCATCCCATTTGAAATGTC 58.432 39.130 15.93 1.95 0.00 3.06
5580 5752 4.620589 TGTTGCATCCCATTTGAAATGT 57.379 36.364 15.93 0.00 0.00 2.71
5581 5753 5.232626 CGTATGTTGCATCCCATTTGAAATG 59.767 40.000 10.84 10.84 0.00 2.32
5582 5754 5.350633 CGTATGTTGCATCCCATTTGAAAT 58.649 37.500 0.00 0.00 0.00 2.17
5583 5755 4.381398 CCGTATGTTGCATCCCATTTGAAA 60.381 41.667 0.00 0.00 0.00 2.69
5584 5756 3.130164 CCGTATGTTGCATCCCATTTGAA 59.870 43.478 0.00 0.00 0.00 2.69
5585 5757 2.687425 CCGTATGTTGCATCCCATTTGA 59.313 45.455 0.00 0.00 0.00 2.69
5586 5758 2.687425 TCCGTATGTTGCATCCCATTTG 59.313 45.455 0.00 0.00 0.00 2.32
5587 5759 3.011566 TCCGTATGTTGCATCCCATTT 57.988 42.857 0.00 0.00 0.00 2.32
5588 5760 2.727123 TCCGTATGTTGCATCCCATT 57.273 45.000 0.00 0.00 0.00 3.16
5589 5761 2.507484 CATCCGTATGTTGCATCCCAT 58.493 47.619 0.00 0.00 0.00 4.00
5590 5762 1.965935 CATCCGTATGTTGCATCCCA 58.034 50.000 0.00 0.00 0.00 4.37


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

AutoCloner maintained by Alex Coulton.