Multiple sequence alignment - TraesCS5B01G249700

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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 TraesCS5B01G249700 chr5B 100.000 4774 0 0 1 4774 432178921 432174148 0.000000e+00 8817.0
1 TraesCS5B01G249700 chr5B 78.723 423 65 11 4366 4766 25989625 25989206 4.740000e-65 259.0
2 TraesCS5B01G249700 chr5B 96.907 97 3 0 4130 4226 432174696 432174792 3.820000e-36 163.0
3 TraesCS5B01G249700 chr5B 97.849 93 2 0 4128 4220 26770507 26770415 1.370000e-35 161.0
4 TraesCS5B01G249700 chr5D 92.048 4175 217 54 6 4138 365702199 365698098 0.000000e+00 5764.0
5 TraesCS5B01G249700 chr5D 93.651 63 1 3 3812 3872 127266565 127266504 1.830000e-14 91.6
6 TraesCS5B01G249700 chr5A 94.253 3219 118 32 941 4127 467384553 467381370 0.000000e+00 4857.0
7 TraesCS5B01G249700 chr5A 89.407 708 51 13 219 908 467385259 467384558 0.000000e+00 870.0
8 TraesCS5B01G249700 chr5A 96.364 55 1 1 3818 3872 143026366 143026313 6.580000e-14 89.8
9 TraesCS5B01G249700 chr3A 82.876 1822 178 48 1603 3376 91473148 91471413 0.000000e+00 1513.0
10 TraesCS5B01G249700 chr3A 87.030 771 91 8 1807 2573 135988601 135989366 0.000000e+00 861.0
11 TraesCS5B01G249700 chr3A 86.753 770 94 7 1807 2573 363464115 363463351 0.000000e+00 850.0
12 TraesCS5B01G249700 chr3A 85.169 236 24 8 1296 1529 91473374 91473148 1.030000e-56 231.0
13 TraesCS5B01G249700 chr3A 100.000 88 0 0 4135 4222 221948989 221948902 3.820000e-36 163.0
14 TraesCS5B01G249700 chr3B 84.564 1354 130 25 1603 2929 123618468 123619769 0.000000e+00 1269.0
15 TraesCS5B01G249700 chr3B 83.880 1067 143 21 1551 2608 542633135 542632089 0.000000e+00 990.0
16 TraesCS5B01G249700 chr3B 94.118 102 5 1 4135 4235 117602004 117601903 2.300000e-33 154.0
17 TraesCS5B01G249700 chr2A 83.635 1216 162 23 1399 2608 748875885 748874701 0.000000e+00 1109.0
18 TraesCS5B01G249700 chr7B 82.838 1212 169 26 1398 2600 720580043 720581224 0.000000e+00 1050.0
19 TraesCS5B01G249700 chr7B 84.066 182 25 3 4595 4774 79370477 79370298 6.350000e-39 172.0
20 TraesCS5B01G249700 chrUn 84.670 985 117 15 1626 2600 296699180 296700140 0.000000e+00 952.0
21 TraesCS5B01G249700 chr7D 84.670 985 117 15 1626 2600 623465312 623464352 0.000000e+00 952.0
22 TraesCS5B01G249700 chr7D 93.230 517 18 3 4275 4774 97306949 97307465 0.000000e+00 745.0
23 TraesCS5B01G249700 chr7D 79.284 531 73 20 4275 4774 554226858 554227382 2.130000e-88 337.0
24 TraesCS5B01G249700 chr1B 94.197 517 13 1 4275 4774 657421698 657422214 0.000000e+00 773.0
25 TraesCS5B01G249700 chr1B 98.919 185 2 0 4590 4774 32401004 32400820 9.900000e-87 331.0
26 TraesCS5B01G249700 chr1B 96.842 95 3 0 4128 4222 447815456 447815362 4.950000e-35 159.0
27 TraesCS5B01G249700 chr2D 93.037 517 19 3 4275 4774 357276962 357277478 0.000000e+00 739.0
28 TraesCS5B01G249700 chr2D 82.586 580 81 13 1398 1973 645268559 645269122 1.190000e-135 494.0
29 TraesCS5B01G249700 chr2D 83.117 231 31 8 4546 4772 61778744 61778518 2.250000e-48 204.0
30 TraesCS5B01G249700 chr2D 94.059 101 6 0 4134 4234 51248117 51248217 2.300000e-33 154.0
31 TraesCS5B01G249700 chr3D 85.023 661 66 19 2291 2950 77397175 77397803 4.030000e-180 641.0
32 TraesCS5B01G249700 chr3D 85.345 232 22 9 1296 1525 77387750 77387971 3.720000e-56 230.0
33 TraesCS5B01G249700 chr4D 91.436 362 14 2 4275 4619 343087119 343087480 9.290000e-132 481.0
34 TraesCS5B01G249700 chr4D 82.915 398 43 14 4362 4739 339046462 339046854 7.660000e-88 335.0
35 TraesCS5B01G249700 chr4D 94.410 161 9 0 4614 4774 343087635 343087795 1.030000e-61 248.0
36 TraesCS5B01G249700 chr7A 78.343 531 74 26 4277 4774 639841356 639840834 6.000000e-79 305.0
37 TraesCS5B01G249700 chr7A 92.523 107 5 3 4132 4237 84495399 84495295 2.980000e-32 150.0
38 TraesCS5B01G249700 chr1D 81.818 231 34 8 4546 4772 100320629 100320855 2.270000e-43 187.0
39 TraesCS5B01G249700 chr1A 96.842 95 2 1 4127 4221 542440305 542440398 1.780000e-34 158.0
40 TraesCS5B01G249700 chr6A 93.333 105 4 3 4136 4238 478526388 478526491 8.280000e-33 152.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5B01G249700 chr5B 432174148 432178921 4773 True 8817.0 8817 100.0000 1 4774 1 chr5B.!!$R3 4773
1 TraesCS5B01G249700 chr5D 365698098 365702199 4101 True 5764.0 5764 92.0480 6 4138 1 chr5D.!!$R2 4132
2 TraesCS5B01G249700 chr5A 467381370 467385259 3889 True 2863.5 4857 91.8300 219 4127 2 chr5A.!!$R2 3908
3 TraesCS5B01G249700 chr3A 91471413 91473374 1961 True 872.0 1513 84.0225 1296 3376 2 chr3A.!!$R3 2080
4 TraesCS5B01G249700 chr3A 135988601 135989366 765 False 861.0 861 87.0300 1807 2573 1 chr3A.!!$F1 766
5 TraesCS5B01G249700 chr3A 363463351 363464115 764 True 850.0 850 86.7530 1807 2573 1 chr3A.!!$R2 766
6 TraesCS5B01G249700 chr3B 123618468 123619769 1301 False 1269.0 1269 84.5640 1603 2929 1 chr3B.!!$F1 1326
7 TraesCS5B01G249700 chr3B 542632089 542633135 1046 True 990.0 990 83.8800 1551 2608 1 chr3B.!!$R2 1057
8 TraesCS5B01G249700 chr2A 748874701 748875885 1184 True 1109.0 1109 83.6350 1399 2608 1 chr2A.!!$R1 1209
9 TraesCS5B01G249700 chr7B 720580043 720581224 1181 False 1050.0 1050 82.8380 1398 2600 1 chr7B.!!$F1 1202
10 TraesCS5B01G249700 chrUn 296699180 296700140 960 False 952.0 952 84.6700 1626 2600 1 chrUn.!!$F1 974
11 TraesCS5B01G249700 chr7D 623464352 623465312 960 True 952.0 952 84.6700 1626 2600 1 chr7D.!!$R1 974
12 TraesCS5B01G249700 chr7D 97306949 97307465 516 False 745.0 745 93.2300 4275 4774 1 chr7D.!!$F1 499
13 TraesCS5B01G249700 chr7D 554226858 554227382 524 False 337.0 337 79.2840 4275 4774 1 chr7D.!!$F2 499
14 TraesCS5B01G249700 chr1B 657421698 657422214 516 False 773.0 773 94.1970 4275 4774 1 chr1B.!!$F1 499
15 TraesCS5B01G249700 chr2D 357276962 357277478 516 False 739.0 739 93.0370 4275 4774 1 chr2D.!!$F2 499
16 TraesCS5B01G249700 chr2D 645268559 645269122 563 False 494.0 494 82.5860 1398 1973 1 chr2D.!!$F3 575
17 TraesCS5B01G249700 chr3D 77397175 77397803 628 False 641.0 641 85.0230 2291 2950 1 chr3D.!!$F2 659
18 TraesCS5B01G249700 chr4D 343087119 343087795 676 False 364.5 481 92.9230 4275 4774 2 chr4D.!!$F2 499
19 TraesCS5B01G249700 chr7A 639840834 639841356 522 True 305.0 305 78.3430 4277 4774 1 chr7A.!!$R2 497

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
116 122 0.034337 GTGTAAGTTGGACGCCAGGA 59.966 55.000 0.00 0.00 33.81 3.86 F
644 658 0.381089 GTCCATAGACCTCGTCCGTG 59.619 60.000 0.00 0.00 37.00 4.94 F
1330 1379 0.405585 CTTTTGCTCCCCTTCTCCCA 59.594 55.000 0.00 0.00 0.00 4.37 F
1332 1381 1.065410 TTTGCTCCCCTTCTCCCACA 61.065 55.000 0.00 0.00 0.00 4.17 F
1624 1677 1.557269 CCCTGTTGCAGCCTCTACCT 61.557 60.000 0.00 0.00 0.00 3.08 F
2094 2184 2.223852 GGTCCGGATACTGAAAGAGCTC 60.224 54.545 7.81 5.27 37.43 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1569 1622 0.034337 TAAACCGCACAGGAGACACC 59.966 55.000 0.00 0.0 45.00 4.16 R
2094 2184 0.250727 TCTTTTTCAGCCGTGGAGGG 60.251 55.000 0.00 0.0 41.48 4.30 R
2950 3109 1.140312 AACCTGAGTCCTGAAGGCAA 58.860 50.000 0.00 0.0 34.18 4.52 R
3450 3636 6.548622 CAGAAACAAGATTATGACATCCCCAT 59.451 38.462 0.00 0.0 0.00 4.00 R
3517 3706 1.909302 CCAAGTATCTGTGGACAGGGT 59.091 52.381 6.94 0.0 43.91 4.34 R
3811 4000 0.039472 TAATCCAAGCCAAGCCAGCA 59.961 50.000 0.00 0.0 0.00 4.41 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
46 52 1.003839 TTTGGGCCTCACGTAGCAG 60.004 57.895 4.53 0.00 0.00 4.24
54 60 0.240145 CTCACGTAGCAGGTCAACGA 59.760 55.000 1.99 0.00 39.80 3.85
55 61 0.669619 TCACGTAGCAGGTCAACGAA 59.330 50.000 1.99 0.00 39.80 3.85
56 62 0.782384 CACGTAGCAGGTCAACGAAC 59.218 55.000 1.99 0.00 39.80 3.95
59 65 1.870580 CGTAGCAGGTCAACGAACCAA 60.871 52.381 8.63 0.00 42.12 3.67
63 69 0.812412 CAGGTCAACGAACCAACGGT 60.812 55.000 8.63 0.00 42.12 4.83
71 77 2.813901 AACCAACGGTTCGGACGA 59.186 55.556 13.78 0.00 43.05 4.20
72 78 1.300388 AACCAACGGTTCGGACGAG 60.300 57.895 13.78 0.00 43.05 4.18
73 79 2.019897 AACCAACGGTTCGGACGAGT 62.020 55.000 13.78 0.00 43.05 4.18
74 80 2.019951 CCAACGGTTCGGACGAGTG 61.020 63.158 0.00 0.00 34.93 3.51
77 83 3.677648 CGGTTCGGACGAGTGGGT 61.678 66.667 0.00 0.00 0.00 4.51
78 84 2.260743 GGTTCGGACGAGTGGGTC 59.739 66.667 0.00 0.00 36.18 4.46
79 85 2.567497 GGTTCGGACGAGTGGGTCA 61.567 63.158 0.00 0.00 38.70 4.02
80 86 1.080705 GTTCGGACGAGTGGGTCAG 60.081 63.158 0.00 0.00 38.70 3.51
81 87 2.273179 TTCGGACGAGTGGGTCAGG 61.273 63.158 0.00 0.00 38.70 3.86
82 88 3.760035 CGGACGAGTGGGTCAGGG 61.760 72.222 0.00 0.00 38.70 4.45
83 89 2.283676 GGACGAGTGGGTCAGGGA 60.284 66.667 0.00 0.00 38.70 4.20
84 90 2.647158 GGACGAGTGGGTCAGGGAC 61.647 68.421 0.00 0.00 38.70 4.46
104 110 3.438183 ACCTATTGTCTCCCGTGTAAGT 58.562 45.455 0.00 0.00 0.00 2.24
116 122 0.034337 GTGTAAGTTGGACGCCAGGA 59.966 55.000 0.00 0.00 33.81 3.86
117 123 0.759959 TGTAAGTTGGACGCCAGGAA 59.240 50.000 0.00 0.00 33.81 3.36
163 169 6.586082 GCAGAGTTGAAACTTTTCTGAAAACA 59.414 34.615 11.33 5.76 39.88 2.83
166 172 8.576442 AGAGTTGAAACTTTTCTGAAAACAAGA 58.424 29.630 11.33 0.00 39.88 3.02
530 544 3.636231 CCCACCTCAGGCAACGGA 61.636 66.667 0.00 0.00 46.39 4.69
538 552 2.270352 TCAGGCAACGGAGTCAAAAT 57.730 45.000 0.00 0.00 45.00 1.82
551 565 5.290386 GGAGTCAAAATAGACCGTCCATAG 58.710 45.833 0.00 0.00 39.34 2.23
581 595 3.148279 GACCGATCCCCGCTCACT 61.148 66.667 0.00 0.00 36.84 3.41
590 604 1.984570 CCCGCTCACTTCCCTCTGA 60.985 63.158 0.00 0.00 0.00 3.27
594 608 1.555967 GCTCACTTCCCTCTGACTCT 58.444 55.000 0.00 0.00 0.00 3.24
622 636 1.003355 CACGGTGAGCTTGTCCCAT 60.003 57.895 0.74 0.00 0.00 4.00
644 658 0.381089 GTCCATAGACCTCGTCCGTG 59.619 60.000 0.00 0.00 37.00 4.94
658 672 2.258591 CGTGTAGACCTGCTGCGT 59.741 61.111 0.00 0.00 31.00 5.24
816 839 3.777925 CGCGCTCACAGGTTTCGG 61.778 66.667 5.56 0.00 0.00 4.30
841 864 2.652590 GAGGCGAGGACTAGTAGGAAA 58.347 52.381 0.00 0.00 0.00 3.13
847 870 4.483311 CGAGGACTAGTAGGAAACACAAC 58.517 47.826 0.00 0.00 0.00 3.32
854 877 4.724279 AGTAGGAAACACAACCCAAGAT 57.276 40.909 0.00 0.00 0.00 2.40
870 893 3.574396 CCAAGATATAAGCGAGTGGGAGA 59.426 47.826 0.00 0.00 0.00 3.71
1101 1144 2.179517 CTCTGGACCTGCGTCGTC 59.820 66.667 0.00 0.00 40.17 4.20
1330 1379 0.405585 CTTTTGCTCCCCTTCTCCCA 59.594 55.000 0.00 0.00 0.00 4.37
1332 1381 1.065410 TTTGCTCCCCTTCTCCCACA 61.065 55.000 0.00 0.00 0.00 4.17
1365 1414 4.013267 AGGAATTAGGAATCATCTGCGG 57.987 45.455 0.00 0.00 0.00 5.69
1569 1622 2.294233 CCATGGCTCGATTAACCATTGG 59.706 50.000 0.00 0.00 42.31 3.16
1624 1677 1.557269 CCCTGTTGCAGCCTCTACCT 61.557 60.000 0.00 0.00 0.00 3.08
1974 2059 5.294552 ACTGCAGTTCTTAACAACTCAGTTC 59.705 40.000 15.25 0.00 39.31 3.01
2094 2184 2.223852 GGTCCGGATACTGAAAGAGCTC 60.224 54.545 7.81 5.27 37.43 4.09
2148 2246 4.845580 CTTCGCTCCATGCCGCCT 62.846 66.667 0.00 0.00 38.78 5.52
2190 2288 9.686683 ATATCCTATTACCATAATCAGGTTTGC 57.313 33.333 0.00 0.00 40.54 3.68
2233 2331 5.639082 TGTGATGTATCCGAATCATATGCAC 59.361 40.000 0.00 0.00 35.38 4.57
2575 2713 4.883585 TCACAAGAATGAGGTATTGCATCC 59.116 41.667 0.00 0.00 0.00 3.51
2584 2722 4.660168 GAGGTATTGCATCCTCATCCAAT 58.340 43.478 20.76 0.00 46.59 3.16
2600 2738 7.544566 CCTCATCCAATTTTTCTCAAGATGTTG 59.455 37.037 0.00 0.00 33.16 3.33
2873 3011 6.260050 GGTTAGTTCAACATCTTCAACACAGA 59.740 38.462 0.00 0.00 39.04 3.41
2890 3036 4.334759 ACACAGAACTGCATGCTTATCATC 59.665 41.667 20.33 8.57 31.79 2.92
2950 3109 6.380274 TGATCAGGTAAGAAAGGAGACGTTAT 59.620 38.462 0.00 0.00 29.98 1.89
3243 3428 7.809546 AGAAAGAAAGGAAAGAAACACCTAG 57.190 36.000 0.00 0.00 33.34 3.02
3321 3506 3.243359 AGCAGGATTTTCTCAAACCCA 57.757 42.857 0.00 0.00 0.00 4.51
3384 3570 5.697178 TCAAATGCCTGAAACATGAACAATG 59.303 36.000 0.00 0.00 42.48 2.82
3450 3636 8.885494 AAATTAATGTTTGCAAGCTGAAACTA 57.115 26.923 14.67 0.00 33.92 2.24
3452 3638 7.872163 TTAATGTTTGCAAGCTGAAACTATG 57.128 32.000 14.67 0.00 33.92 2.23
3462 3648 3.461085 AGCTGAAACTATGGGGATGTCAT 59.539 43.478 0.00 0.00 0.00 3.06
3474 3660 6.078456 TGGGGATGTCATAATCTTGTTTCT 57.922 37.500 0.00 0.00 0.00 2.52
3517 3706 8.877779 CCATTTTCATTCAACTGTTGTTTTGTA 58.122 29.630 19.12 7.59 33.52 2.41
3560 3749 4.381411 GGTTCAAGAAGACAGTGCTACTT 58.619 43.478 0.00 0.00 0.00 2.24
3587 3776 4.330074 CGGAAACTTATAGTTGAGCTGGTG 59.670 45.833 0.00 0.00 38.66 4.17
3808 3997 4.851639 ATACACATTCTTTCCAGAGCCT 57.148 40.909 0.00 0.00 0.00 4.58
3809 3998 3.515602 ACACATTCTTTCCAGAGCCTT 57.484 42.857 0.00 0.00 0.00 4.35
3810 3999 3.152341 ACACATTCTTTCCAGAGCCTTG 58.848 45.455 0.00 0.00 0.00 3.61
3811 4000 3.152341 CACATTCTTTCCAGAGCCTTGT 58.848 45.455 0.00 0.00 0.00 3.16
3812 4001 3.057736 CACATTCTTTCCAGAGCCTTGTG 60.058 47.826 0.00 0.00 0.00 3.33
3813 4002 1.609208 TTCTTTCCAGAGCCTTGTGC 58.391 50.000 0.00 0.00 41.71 4.57
3863 4052 7.013220 TGAGTAGGCATAATTGGAGATCTAGT 58.987 38.462 0.00 0.00 0.00 2.57
3915 4107 4.644685 TGGGAGATAAATAGTGCCTTTTGC 59.355 41.667 0.00 0.00 41.77 3.68
3960 4152 4.056452 GCATGATTTTGCCAGTTTTTCG 57.944 40.909 0.00 0.00 36.60 3.46
4070 4267 4.320714 GGGGTTTTCGGTTTCTGTATTGAC 60.321 45.833 0.00 0.00 0.00 3.18
4110 4313 8.102047 TGATGCATATATACATTGTGATGGTGA 58.898 33.333 0.00 0.00 37.60 4.02
4140 4343 6.729391 GAAGTTCTTCTTCCATTGTACTCC 57.271 41.667 5.43 0.00 44.75 3.85
4141 4344 5.167303 AGTTCTTCTTCCATTGTACTCCC 57.833 43.478 0.00 0.00 0.00 4.30
4142 4345 4.846940 AGTTCTTCTTCCATTGTACTCCCT 59.153 41.667 0.00 0.00 0.00 4.20
4143 4346 5.046231 AGTTCTTCTTCCATTGTACTCCCTC 60.046 44.000 0.00 0.00 0.00 4.30
4144 4347 4.689062 TCTTCTTCCATTGTACTCCCTCT 58.311 43.478 0.00 0.00 0.00 3.69
4145 4348 4.467795 TCTTCTTCCATTGTACTCCCTCTG 59.532 45.833 0.00 0.00 0.00 3.35
4146 4349 3.791320 TCTTCCATTGTACTCCCTCTGT 58.209 45.455 0.00 0.00 0.00 3.41
4147 4350 4.942944 TCTTCCATTGTACTCCCTCTGTA 58.057 43.478 0.00 0.00 0.00 2.74
4148 4351 5.338632 TCTTCCATTGTACTCCCTCTGTAA 58.661 41.667 0.00 0.00 0.00 2.41
4149 4352 5.783360 TCTTCCATTGTACTCCCTCTGTAAA 59.217 40.000 0.00 0.00 0.00 2.01
4150 4353 5.416271 TCCATTGTACTCCCTCTGTAAAC 57.584 43.478 0.00 0.00 0.00 2.01
4151 4354 5.091552 TCCATTGTACTCCCTCTGTAAACT 58.908 41.667 0.00 0.00 0.00 2.66
4152 4355 6.258354 TCCATTGTACTCCCTCTGTAAACTA 58.742 40.000 0.00 0.00 0.00 2.24
4153 4356 6.727231 TCCATTGTACTCCCTCTGTAAACTAA 59.273 38.462 0.00 0.00 0.00 2.24
4154 4357 7.402071 TCCATTGTACTCCCTCTGTAAACTAAT 59.598 37.037 0.00 0.00 0.00 1.73
4155 4358 8.701895 CCATTGTACTCCCTCTGTAAACTAATA 58.298 37.037 0.00 0.00 0.00 0.98
4162 4365 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
4163 4366 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
4164 4367 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
4165 4368 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
4166 4369 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
4181 4384 9.953697 ATAAGAGCGTTTAGATCACTAAAGTAG 57.046 33.333 0.00 0.00 45.42 2.57
4182 4385 7.393841 AGAGCGTTTAGATCACTAAAGTAGT 57.606 36.000 0.00 0.00 45.42 2.73
4196 4399 7.393841 ACTAAAGTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 37.69 4.09
4197 4400 7.828712 ACTAAAGTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 37.69 2.85
4198 4401 8.954350 ACTAAAGTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 37.69 2.10
4199 4402 9.953697 CTAAAGTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 0.00 1.73
4214 4417 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
4215 4418 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
4216 4419 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
4217 4420 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
4218 4421 8.862085 GCTCTTATATTAGTTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
4225 4428 5.422214 AGTTTACAGAGGGAGTACAATGG 57.578 43.478 0.00 0.00 0.00 3.16
4226 4429 4.844655 AGTTTACAGAGGGAGTACAATGGT 59.155 41.667 0.00 0.00 0.00 3.55
4227 4430 5.309806 AGTTTACAGAGGGAGTACAATGGTT 59.690 40.000 0.00 0.00 0.00 3.67
4228 4431 5.836024 TTACAGAGGGAGTACAATGGTTT 57.164 39.130 0.00 0.00 0.00 3.27
4229 4432 4.021102 ACAGAGGGAGTACAATGGTTTG 57.979 45.455 0.00 0.00 38.86 2.93
4230 4433 3.244911 ACAGAGGGAGTACAATGGTTTGG 60.245 47.826 0.00 0.00 37.15 3.28
4231 4434 3.009033 CAGAGGGAGTACAATGGTTTGGA 59.991 47.826 0.00 0.00 37.15 3.53
4232 4435 3.852578 AGAGGGAGTACAATGGTTTGGAT 59.147 43.478 0.00 0.00 37.15 3.41
4233 4436 3.947834 GAGGGAGTACAATGGTTTGGATG 59.052 47.826 0.00 0.00 37.15 3.51
4234 4437 3.591527 AGGGAGTACAATGGTTTGGATGA 59.408 43.478 0.00 0.00 37.15 2.92
4235 4438 4.230502 AGGGAGTACAATGGTTTGGATGAT 59.769 41.667 0.00 0.00 37.15 2.45
4236 4439 4.956075 GGGAGTACAATGGTTTGGATGATT 59.044 41.667 0.00 0.00 37.15 2.57
4237 4440 5.422012 GGGAGTACAATGGTTTGGATGATTT 59.578 40.000 0.00 0.00 37.15 2.17
4238 4441 6.332630 GGAGTACAATGGTTTGGATGATTTG 58.667 40.000 0.00 0.00 37.15 2.32
4239 4442 6.284891 AGTACAATGGTTTGGATGATTTGG 57.715 37.500 0.00 0.00 37.15 3.28
4240 4443 3.941573 ACAATGGTTTGGATGATTTGGC 58.058 40.909 0.00 0.00 37.15 4.52
4241 4444 3.583966 ACAATGGTTTGGATGATTTGGCT 59.416 39.130 0.00 0.00 37.15 4.75
4242 4445 3.899052 ATGGTTTGGATGATTTGGCTG 57.101 42.857 0.00 0.00 0.00 4.85
4243 4446 2.886913 TGGTTTGGATGATTTGGCTGA 58.113 42.857 0.00 0.00 0.00 4.26
4244 4447 3.237746 TGGTTTGGATGATTTGGCTGAA 58.762 40.909 0.00 0.00 0.00 3.02
4245 4448 3.006752 TGGTTTGGATGATTTGGCTGAAC 59.993 43.478 0.00 0.00 0.00 3.18
4246 4449 3.259123 GGTTTGGATGATTTGGCTGAACT 59.741 43.478 0.00 0.00 0.00 3.01
4247 4450 4.240096 GTTTGGATGATTTGGCTGAACTG 58.760 43.478 0.00 0.00 0.00 3.16
4248 4451 3.438216 TGGATGATTTGGCTGAACTGA 57.562 42.857 0.00 0.00 0.00 3.41
4249 4452 3.084039 TGGATGATTTGGCTGAACTGAC 58.916 45.455 0.00 0.00 0.00 3.51
4250 4453 3.245016 TGGATGATTTGGCTGAACTGACT 60.245 43.478 0.00 0.00 0.00 3.41
4251 4454 3.128242 GGATGATTTGGCTGAACTGACTG 59.872 47.826 0.00 0.00 0.00 3.51
4252 4455 3.490439 TGATTTGGCTGAACTGACTGA 57.510 42.857 0.00 0.00 0.00 3.41
4253 4456 4.025040 TGATTTGGCTGAACTGACTGAT 57.975 40.909 0.00 0.00 0.00 2.90
4254 4457 3.754850 TGATTTGGCTGAACTGACTGATG 59.245 43.478 0.00 0.00 0.00 3.07
4255 4458 3.490439 TTTGGCTGAACTGACTGATGA 57.510 42.857 0.00 0.00 0.00 2.92
4256 4459 3.708403 TTGGCTGAACTGACTGATGAT 57.292 42.857 0.00 0.00 0.00 2.45
4257 4460 4.824479 TTGGCTGAACTGACTGATGATA 57.176 40.909 0.00 0.00 0.00 2.15
4258 4461 4.128925 TGGCTGAACTGACTGATGATAC 57.871 45.455 0.00 0.00 0.00 2.24
4259 4462 3.771479 TGGCTGAACTGACTGATGATACT 59.229 43.478 0.00 0.00 0.00 2.12
4260 4463 4.118410 GGCTGAACTGACTGATGATACTG 58.882 47.826 0.00 0.00 0.00 2.74
4261 4464 4.118410 GCTGAACTGACTGATGATACTGG 58.882 47.826 0.00 0.00 0.00 4.00
4262 4465 4.382470 GCTGAACTGACTGATGATACTGGT 60.382 45.833 0.00 0.00 0.00 4.00
4263 4466 5.077134 TGAACTGACTGATGATACTGGTG 57.923 43.478 0.00 0.00 0.00 4.17
4264 4467 4.081476 TGAACTGACTGATGATACTGGTGG 60.081 45.833 0.00 0.00 0.00 4.61
4265 4468 3.445008 ACTGACTGATGATACTGGTGGT 58.555 45.455 0.00 0.00 0.00 4.16
4266 4469 3.840666 ACTGACTGATGATACTGGTGGTT 59.159 43.478 0.00 0.00 0.00 3.67
4267 4470 5.023452 ACTGACTGATGATACTGGTGGTTA 58.977 41.667 0.00 0.00 0.00 2.85
4268 4471 5.127845 ACTGACTGATGATACTGGTGGTTAG 59.872 44.000 0.00 0.00 0.00 2.34
4269 4472 4.141937 TGACTGATGATACTGGTGGTTAGC 60.142 45.833 0.00 0.00 0.00 3.09
4270 4473 4.033709 ACTGATGATACTGGTGGTTAGCT 58.966 43.478 0.00 0.00 0.00 3.32
4271 4474 4.100189 ACTGATGATACTGGTGGTTAGCTC 59.900 45.833 0.00 0.00 0.00 4.09
4272 4475 4.290093 TGATGATACTGGTGGTTAGCTCT 58.710 43.478 0.00 0.00 0.00 4.09
4273 4476 4.100035 TGATGATACTGGTGGTTAGCTCTG 59.900 45.833 0.00 0.00 0.00 3.35
4744 5136 4.568359 CGAAAGTCATGATCCTGTTCGATT 59.432 41.667 17.15 4.32 38.85 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 0.782384 GTTCGTTGACCTGCTACGTG 59.218 55.000 0.00 0.00 44.28 4.49
38 39 0.319297 GGTTCGTTGACCTGCTACGT 60.319 55.000 0.00 0.00 44.28 3.57
39 40 0.319211 TGGTTCGTTGACCTGCTACG 60.319 55.000 6.86 0.00 45.08 3.51
40 41 1.529865 GTTGGTTCGTTGACCTGCTAC 59.470 52.381 6.86 0.00 40.47 3.58
46 52 2.396700 AACCGTTGGTTCGTTGACC 58.603 52.632 0.00 0.00 43.05 4.02
55 61 2.337532 CTCGTCCGAACCGTTGGT 59.662 61.111 0.00 0.00 37.65 3.67
56 62 2.019951 CACTCGTCCGAACCGTTGG 61.020 63.158 0.00 0.00 0.00 3.77
59 65 3.677648 CCCACTCGTCCGAACCGT 61.678 66.667 0.00 0.00 0.00 4.83
63 69 2.273179 CCTGACCCACTCGTCCGAA 61.273 63.158 0.00 0.00 31.35 4.30
66 72 2.283676 TCCCTGACCCACTCGTCC 60.284 66.667 0.00 0.00 31.35 4.79
68 74 2.603776 GGTCCCTGACCCACTCGT 60.604 66.667 1.68 0.00 46.19 4.18
83 89 3.438183 ACTTACACGGGAGACAATAGGT 58.562 45.455 0.00 0.00 0.00 3.08
84 90 4.181578 CAACTTACACGGGAGACAATAGG 58.818 47.826 0.00 0.00 0.00 2.57
85 91 4.081862 TCCAACTTACACGGGAGACAATAG 60.082 45.833 0.00 0.00 0.00 1.73
86 92 3.833650 TCCAACTTACACGGGAGACAATA 59.166 43.478 0.00 0.00 0.00 1.90
87 93 2.635915 TCCAACTTACACGGGAGACAAT 59.364 45.455 0.00 0.00 0.00 2.71
88 94 2.040939 TCCAACTTACACGGGAGACAA 58.959 47.619 0.00 0.00 0.00 3.18
104 110 0.893270 CCAACATTCCTGGCGTCCAA 60.893 55.000 0.35 0.00 30.80 3.53
136 142 3.632145 TCAGAAAAGTTTCAACTCTGCCC 59.368 43.478 9.31 0.00 38.57 5.36
137 143 4.900635 TCAGAAAAGTTTCAACTCTGCC 57.099 40.909 9.31 0.00 38.57 4.85
138 144 6.586082 TGTTTTCAGAAAAGTTTCAACTCTGC 59.414 34.615 8.67 0.00 38.57 4.26
143 149 9.139174 TGATCTTGTTTTCAGAAAAGTTTCAAC 57.861 29.630 8.67 0.00 39.61 3.18
204 210 9.154847 GCATATCAAAGCTAGGACAAAATTTTT 57.845 29.630 0.00 0.00 0.00 1.94
205 211 7.489113 CGCATATCAAAGCTAGGACAAAATTTT 59.511 33.333 0.00 0.00 0.00 1.82
310 323 5.899120 TTCTGAGGTTGTAGTACTAGCAG 57.101 43.478 14.76 8.92 0.00 4.24
311 324 5.336531 GCTTTCTGAGGTTGTAGTACTAGCA 60.337 44.000 14.76 2.13 0.00 3.49
351 364 1.296727 GCGTTGCCCAGGAATACTAC 58.703 55.000 0.00 0.00 0.00 2.73
519 533 2.270352 ATTTTGACTCCGTTGCCTGA 57.730 45.000 0.00 0.00 0.00 3.86
525 539 3.582780 GACGGTCTATTTTGACTCCGTT 58.417 45.455 8.37 0.00 35.90 4.44
527 541 2.094390 TGGACGGTCTATTTTGACTCCG 60.094 50.000 8.23 0.00 35.38 4.63
529 543 5.978322 GTCTATGGACGGTCTATTTTGACTC 59.022 44.000 12.38 0.00 33.87 3.36
530 544 5.903810 GTCTATGGACGGTCTATTTTGACT 58.096 41.667 12.38 0.00 33.87 3.41
551 565 2.298158 ATCGGTCCATGGAGCACGTC 62.298 60.000 36.10 15.79 42.17 4.34
555 569 3.230284 GGATCGGTCCATGGAGCA 58.770 61.111 36.10 25.44 44.42 4.26
581 595 0.683504 GCCCGTAGAGTCAGAGGGAA 60.684 60.000 17.66 0.00 44.70 3.97
612 626 5.907619 GTCTATGGACCGATGGGACAAGC 62.908 56.522 0.00 0.00 38.09 4.01
636 650 1.303074 AGCAGGTCTACACGGACGA 60.303 57.895 0.00 0.00 37.12 4.20
644 658 1.725164 GTACAAACGCAGCAGGTCTAC 59.275 52.381 0.00 0.00 0.00 2.59
658 672 2.751688 GGGGGCTGTCCGTACAAA 59.248 61.111 0.00 0.00 34.49 2.83
797 820 3.044305 GAAACCTGTGAGCGCGCT 61.044 61.111 37.28 37.28 0.00 5.92
816 839 2.516460 TAGTCCTCGCCTCCTCGC 60.516 66.667 0.00 0.00 0.00 5.03
841 864 4.081087 ACTCGCTTATATCTTGGGTTGTGT 60.081 41.667 0.00 0.00 0.00 3.72
847 870 2.632996 TCCCACTCGCTTATATCTTGGG 59.367 50.000 0.00 0.00 43.21 4.12
854 877 2.489255 CCCTCTCTCCCACTCGCTTATA 60.489 54.545 0.00 0.00 0.00 0.98
870 893 2.187946 CGCGATCAAAGCCCCTCT 59.812 61.111 0.00 0.00 0.00 3.69
1281 1330 1.217244 GACCGACATACGCTTGGGT 59.783 57.895 0.00 0.00 41.07 4.51
1330 1379 4.161754 CCTAATTCCTAACCGGAGAAGTGT 59.838 45.833 9.46 0.00 44.28 3.55
1332 1381 4.617593 TCCTAATTCCTAACCGGAGAAGT 58.382 43.478 9.46 7.45 44.28 3.01
1365 1414 1.524849 GAAGGGAAGCCGCCTGATC 60.525 63.158 0.00 0.00 0.00 2.92
1569 1622 0.034337 TAAACCGCACAGGAGACACC 59.966 55.000 0.00 0.00 45.00 4.16
1624 1677 6.432783 ACATAGAACCGAACAAATCAAATGGA 59.567 34.615 0.00 0.00 0.00 3.41
1946 2031 4.513442 AGTTGTTAAGAACTGCAGTGACA 58.487 39.130 22.49 16.48 34.79 3.58
2094 2184 0.250727 TCTTTTTCAGCCGTGGAGGG 60.251 55.000 0.00 0.00 41.48 4.30
2190 2288 3.070018 ACAAGAAACGGAGAGATGCAAG 58.930 45.455 0.00 0.00 0.00 4.01
2233 2331 9.265901 CAACTACTTAGAATCATTATCTGGGTG 57.734 37.037 0.00 0.00 0.00 4.61
2575 2713 8.086522 ACAACATCTTGAGAAAAATTGGATGAG 58.913 33.333 0.00 0.00 34.86 2.90
2584 2722 8.519799 AAAGGTCTACAACATCTTGAGAAAAA 57.480 30.769 0.00 0.00 0.00 1.94
2600 2738 9.612620 CAATTCATTTGTCAACTAAAGGTCTAC 57.387 33.333 0.00 0.00 0.00 2.59
2873 3011 6.770746 AAAAGAGATGATAAGCATGCAGTT 57.229 33.333 21.98 9.05 37.34 3.16
2950 3109 1.140312 AACCTGAGTCCTGAAGGCAA 58.860 50.000 0.00 0.00 34.18 4.52
3450 3636 6.548622 CAGAAACAAGATTATGACATCCCCAT 59.451 38.462 0.00 0.00 0.00 4.00
3452 3638 6.122277 TCAGAAACAAGATTATGACATCCCC 58.878 40.000 0.00 0.00 0.00 4.81
3482 3669 4.018484 TGAATGAAAATGGGGCAAAAGG 57.982 40.909 0.00 0.00 0.00 3.11
3483 3670 5.049267 CAGTTGAATGAAAATGGGGCAAAAG 60.049 40.000 0.00 0.00 0.00 2.27
3484 3671 4.820716 CAGTTGAATGAAAATGGGGCAAAA 59.179 37.500 0.00 0.00 0.00 2.44
3517 3706 1.909302 CCAAGTATCTGTGGACAGGGT 59.091 52.381 6.94 0.00 43.91 4.34
3560 3749 4.222145 AGCTCAACTATAAGTTTCCGGTCA 59.778 41.667 0.00 0.00 36.03 4.02
3587 3776 2.550606 TGTGCCGTTTTTGTACTCATCC 59.449 45.455 0.00 0.00 0.00 3.51
3768 3957 7.008332 TGTGTATATATCCGGGGGTATCATAG 58.992 42.308 0.00 0.00 0.00 2.23
3808 3997 2.500714 CCAAGCCAAGCCAGCACAA 61.501 57.895 0.00 0.00 0.00 3.33
3809 3998 2.718487 ATCCAAGCCAAGCCAGCACA 62.718 55.000 0.00 0.00 0.00 4.57
3810 3999 1.538687 AATCCAAGCCAAGCCAGCAC 61.539 55.000 0.00 0.00 0.00 4.40
3811 4000 0.039472 TAATCCAAGCCAAGCCAGCA 59.961 50.000 0.00 0.00 0.00 4.41
3812 4001 0.457443 GTAATCCAAGCCAAGCCAGC 59.543 55.000 0.00 0.00 0.00 4.85
3813 4002 1.838112 TGTAATCCAAGCCAAGCCAG 58.162 50.000 0.00 0.00 0.00 4.85
3818 4007 5.774690 ACTCAAGAAATGTAATCCAAGCCAA 59.225 36.000 0.00 0.00 0.00 4.52
3915 4107 8.314021 TGCCAATCTGTGTATATTATCACCTAG 58.686 37.037 0.00 0.00 34.14 3.02
3960 4152 4.451557 CTTATTCCGACAACAACAACGAC 58.548 43.478 0.00 0.00 0.00 4.34
4070 4267 2.203800 GCATCACATCACATGCAAGG 57.796 50.000 0.00 0.00 44.18 3.61
4138 4341 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
4139 4342 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
4140 4343 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
4155 4358 9.953697 CTACTTTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 40.05 1.73
4156 4359 8.954350 ACTACTTTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 40.05 2.10
4157 4360 7.828712 ACTACTTTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 40.05 2.85
4158 4361 7.393841 ACTACTTTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 40.05 4.09
4172 4375 7.393841 AGAGCGTTTAGATCACTACTTTAGT 57.606 36.000 0.00 0.00 37.82 2.24
4173 4376 9.953697 ATAAGAGCGTTTAGATCACTACTTTAG 57.046 33.333 0.00 0.00 37.82 1.85
4188 4391 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
4189 4392 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
4190 4393 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
4191 4394 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
4192 4395 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
4199 4402 8.701895 CCATTGTACTCCCTCTGTAAACTAATA 58.298 37.037 0.00 0.00 0.00 0.98
4200 4403 7.182206 ACCATTGTACTCCCTCTGTAAACTAAT 59.818 37.037 0.00 0.00 0.00 1.73
4201 4404 6.499350 ACCATTGTACTCCCTCTGTAAACTAA 59.501 38.462 0.00 0.00 0.00 2.24
4202 4405 6.021030 ACCATTGTACTCCCTCTGTAAACTA 58.979 40.000 0.00 0.00 0.00 2.24
4203 4406 4.844655 ACCATTGTACTCCCTCTGTAAACT 59.155 41.667 0.00 0.00 0.00 2.66
4204 4407 5.161943 ACCATTGTACTCCCTCTGTAAAC 57.838 43.478 0.00 0.00 0.00 2.01
4205 4408 5.836024 AACCATTGTACTCCCTCTGTAAA 57.164 39.130 0.00 0.00 0.00 2.01
4206 4409 5.514136 CCAAACCATTGTACTCCCTCTGTAA 60.514 44.000 0.00 0.00 34.60 2.41
4207 4410 4.019681 CCAAACCATTGTACTCCCTCTGTA 60.020 45.833 0.00 0.00 34.60 2.74
4208 4411 3.244911 CCAAACCATTGTACTCCCTCTGT 60.245 47.826 0.00 0.00 34.60 3.41
4209 4412 3.009033 TCCAAACCATTGTACTCCCTCTG 59.991 47.826 0.00 0.00 34.60 3.35
4210 4413 3.256704 TCCAAACCATTGTACTCCCTCT 58.743 45.455 0.00 0.00 34.60 3.69
4211 4414 3.713826 TCCAAACCATTGTACTCCCTC 57.286 47.619 0.00 0.00 34.60 4.30
4212 4415 3.591527 TCATCCAAACCATTGTACTCCCT 59.408 43.478 0.00 0.00 34.60 4.20
4213 4416 3.963129 TCATCCAAACCATTGTACTCCC 58.037 45.455 0.00 0.00 34.60 4.30
4214 4417 6.332630 CAAATCATCCAAACCATTGTACTCC 58.667 40.000 0.00 0.00 34.60 3.85
4215 4418 6.332630 CCAAATCATCCAAACCATTGTACTC 58.667 40.000 0.00 0.00 34.60 2.59
4216 4419 5.337491 GCCAAATCATCCAAACCATTGTACT 60.337 40.000 0.00 0.00 34.60 2.73
4217 4420 4.869861 GCCAAATCATCCAAACCATTGTAC 59.130 41.667 0.00 0.00 34.60 2.90
4218 4421 4.776837 AGCCAAATCATCCAAACCATTGTA 59.223 37.500 0.00 0.00 34.60 2.41
4219 4422 3.583966 AGCCAAATCATCCAAACCATTGT 59.416 39.130 0.00 0.00 34.60 2.71
4220 4423 3.936453 CAGCCAAATCATCCAAACCATTG 59.064 43.478 0.00 0.00 36.25 2.82
4221 4424 3.839490 TCAGCCAAATCATCCAAACCATT 59.161 39.130 0.00 0.00 0.00 3.16
4222 4425 3.443052 TCAGCCAAATCATCCAAACCAT 58.557 40.909 0.00 0.00 0.00 3.55
4223 4426 2.886913 TCAGCCAAATCATCCAAACCA 58.113 42.857 0.00 0.00 0.00 3.67
4224 4427 3.259123 AGTTCAGCCAAATCATCCAAACC 59.741 43.478 0.00 0.00 0.00 3.27
4225 4428 4.022068 TCAGTTCAGCCAAATCATCCAAAC 60.022 41.667 0.00 0.00 0.00 2.93
4226 4429 4.022068 GTCAGTTCAGCCAAATCATCCAAA 60.022 41.667 0.00 0.00 0.00 3.28
4227 4430 3.507233 GTCAGTTCAGCCAAATCATCCAA 59.493 43.478 0.00 0.00 0.00 3.53
4228 4431 3.084039 GTCAGTTCAGCCAAATCATCCA 58.916 45.455 0.00 0.00 0.00 3.41
4229 4432 3.128242 CAGTCAGTTCAGCCAAATCATCC 59.872 47.826 0.00 0.00 0.00 3.51
4230 4433 4.005650 TCAGTCAGTTCAGCCAAATCATC 58.994 43.478 0.00 0.00 0.00 2.92
4231 4434 4.025040 TCAGTCAGTTCAGCCAAATCAT 57.975 40.909 0.00 0.00 0.00 2.45
4232 4435 3.490439 TCAGTCAGTTCAGCCAAATCA 57.510 42.857 0.00 0.00 0.00 2.57
4233 4436 4.005650 TCATCAGTCAGTTCAGCCAAATC 58.994 43.478 0.00 0.00 0.00 2.17
4234 4437 4.025040 TCATCAGTCAGTTCAGCCAAAT 57.975 40.909 0.00 0.00 0.00 2.32
4235 4438 3.490439 TCATCAGTCAGTTCAGCCAAA 57.510 42.857 0.00 0.00 0.00 3.28
4236 4439 3.708403 ATCATCAGTCAGTTCAGCCAA 57.292 42.857 0.00 0.00 0.00 4.52
4237 4440 3.771479 AGTATCATCAGTCAGTTCAGCCA 59.229 43.478 0.00 0.00 0.00 4.75
4238 4441 4.118410 CAGTATCATCAGTCAGTTCAGCC 58.882 47.826 0.00 0.00 0.00 4.85
4239 4442 4.118410 CCAGTATCATCAGTCAGTTCAGC 58.882 47.826 0.00 0.00 0.00 4.26
4240 4443 5.107824 CACCAGTATCATCAGTCAGTTCAG 58.892 45.833 0.00 0.00 0.00 3.02
4241 4444 4.081476 CCACCAGTATCATCAGTCAGTTCA 60.081 45.833 0.00 0.00 0.00 3.18
4242 4445 4.081420 ACCACCAGTATCATCAGTCAGTTC 60.081 45.833 0.00 0.00 0.00 3.01
4243 4446 3.840666 ACCACCAGTATCATCAGTCAGTT 59.159 43.478 0.00 0.00 0.00 3.16
4244 4447 3.445008 ACCACCAGTATCATCAGTCAGT 58.555 45.455 0.00 0.00 0.00 3.41
4245 4448 4.478206 AACCACCAGTATCATCAGTCAG 57.522 45.455 0.00 0.00 0.00 3.51
4246 4449 4.141937 GCTAACCACCAGTATCATCAGTCA 60.142 45.833 0.00 0.00 0.00 3.41
4247 4450 4.100189 AGCTAACCACCAGTATCATCAGTC 59.900 45.833 0.00 0.00 0.00 3.51
4248 4451 4.033709 AGCTAACCACCAGTATCATCAGT 58.966 43.478 0.00 0.00 0.00 3.41
4249 4452 4.343526 AGAGCTAACCACCAGTATCATCAG 59.656 45.833 0.00 0.00 0.00 2.90
4250 4453 4.100035 CAGAGCTAACCACCAGTATCATCA 59.900 45.833 0.00 0.00 0.00 3.07
4251 4454 4.502259 CCAGAGCTAACCACCAGTATCATC 60.502 50.000 0.00 0.00 0.00 2.92
4252 4455 3.389329 CCAGAGCTAACCACCAGTATCAT 59.611 47.826 0.00 0.00 0.00 2.45
4253 4456 2.766263 CCAGAGCTAACCACCAGTATCA 59.234 50.000 0.00 0.00 0.00 2.15
4254 4457 2.103263 CCCAGAGCTAACCACCAGTATC 59.897 54.545 0.00 0.00 0.00 2.24
4255 4458 2.119495 CCCAGAGCTAACCACCAGTAT 58.881 52.381 0.00 0.00 0.00 2.12
4256 4459 1.568504 CCCAGAGCTAACCACCAGTA 58.431 55.000 0.00 0.00 0.00 2.74
4257 4460 1.201429 CCCCAGAGCTAACCACCAGT 61.201 60.000 0.00 0.00 0.00 4.00
4258 4461 1.604378 CCCCAGAGCTAACCACCAG 59.396 63.158 0.00 0.00 0.00 4.00
4259 4462 1.923395 CCCCCAGAGCTAACCACCA 60.923 63.158 0.00 0.00 0.00 4.17
4260 4463 1.923909 ACCCCCAGAGCTAACCACC 60.924 63.158 0.00 0.00 0.00 4.61
4261 4464 1.299976 CACCCCCAGAGCTAACCAC 59.700 63.158 0.00 0.00 0.00 4.16
4262 4465 1.923395 CCACCCCCAGAGCTAACCA 60.923 63.158 0.00 0.00 0.00 3.67
4263 4466 2.998949 CCACCCCCAGAGCTAACC 59.001 66.667 0.00 0.00 0.00 2.85
4264 4467 2.272471 GCCACCCCCAGAGCTAAC 59.728 66.667 0.00 0.00 0.00 2.34
4265 4468 2.204074 TGCCACCCCCAGAGCTAA 60.204 61.111 0.00 0.00 0.00 3.09
4266 4469 2.688666 CTGCCACCCCCAGAGCTA 60.689 66.667 0.00 0.00 32.03 3.32
4373 4583 2.561037 CCAAAACCGACCACAGCCC 61.561 63.158 0.00 0.00 0.00 5.19
4670 5060 0.105224 TGCAAAAACTCCTCGACGGA 59.895 50.000 0.00 3.97 40.30 4.69


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

AutoCloner maintained by Alex Coulton.