Multiple sequence alignment - TraesCS1D01G412800

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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 TraesCS1D01G412800 chr1D 100.000 2267 0 0 1 2267 473871240 473873506 0.000000e+00 4187.0
1 TraesCS1D01G412800 chr1D 91.628 430 29 5 862 1284 473992154 473992583 2.510000e-164 588.0
2 TraesCS1D01G412800 chr1D 91.429 315 24 2 1000 1312 473966060 473966373 1.610000e-116 429.0
3 TraesCS1D01G412800 chr1D 83.636 385 41 12 1560 1940 473880848 473881214 2.160000e-90 342.0
4 TraesCS1D01G412800 chr1D 90.498 221 21 0 248 468 401204615 401204835 2.200000e-75 292.0
5 TraesCS1D01G412800 chr1D 88.889 234 24 2 248 480 408713901 408713669 1.020000e-73 287.0
6 TraesCS1D01G412800 chr1D 85.646 209 25 3 2047 2254 455745626 455745830 4.900000e-52 215.0
7 TraesCS1D01G412800 chr1D 87.027 185 14 7 13 195 473991336 473991512 1.370000e-47 200.0
8 TraesCS1D01G412800 chr1D 90.210 143 11 2 1761 1902 473988099 473988239 1.380000e-42 183.0
9 TraesCS1D01G412800 chr1D 88.387 155 14 2 1760 1910 473993250 473993404 1.380000e-42 183.0
10 TraesCS1D01G412800 chr1D 96.875 32 1 0 835 866 473961024 473961055 1.000000e-03 54.7
11 TraesCS1D01G412800 chr1D 100.000 28 0 0 201 228 473960343 473960370 4.000000e-03 52.8
12 TraesCS1D01G412800 chr1B 95.426 809 21 5 476 1275 658922414 658923215 0.000000e+00 1275.0
13 TraesCS1D01G412800 chr1B 89.251 521 36 6 1750 2267 658923635 658924138 3.180000e-178 634.0
14 TraesCS1D01G412800 chr1B 93.662 426 21 5 862 1282 659321505 659321929 1.140000e-177 632.0
15 TraesCS1D01G412800 chr1B 94.444 288 13 1 1000 1284 659073604 659073891 7.430000e-120 440.0
16 TraesCS1D01G412800 chr1B 93.793 290 15 1 998 1284 659002721 659003010 1.240000e-117 433.0
17 TraesCS1D01G412800 chr1B 85.273 421 48 5 1560 1977 659006563 659006972 2.690000e-114 422.0
18 TraesCS1D01G412800 chr1B 84.798 421 50 7 1560 1977 658972976 658973385 5.830000e-111 411.0
19 TraesCS1D01G412800 chr1B 84.323 421 52 8 1560 1977 659271847 659272256 1.260000e-107 399.0
20 TraesCS1D01G412800 chr1B 96.983 232 6 1 1 232 658922181 658922411 2.730000e-104 388.0
21 TraesCS1D01G412800 chr1B 89.407 236 21 1 1516 1751 658923280 658923511 6.120000e-76 294.0
22 TraesCS1D01G412800 chr1B 90.541 222 19 2 248 468 505094255 505094475 2.200000e-75 292.0
23 TraesCS1D01G412800 chr1B 90.132 152 14 1 1760 1910 659322590 659322741 1.780000e-46 196.0
24 TraesCS1D01G412800 chr1B 88.816 152 14 3 1761 1910 659318036 659318186 1.380000e-42 183.0
25 TraesCS1D01G412800 chr1B 85.430 151 20 2 45 195 659072418 659072566 3.010000e-34 156.0
26 TraesCS1D01G412800 chr1B 100.000 29 0 0 838 866 658968969 658968997 1.000000e-03 54.7
27 TraesCS1D01G412800 chr1A 89.157 913 67 11 1376 2267 568122548 568123449 0.000000e+00 1109.0
28 TraesCS1D01G412800 chr1A 92.066 668 33 7 615 1265 568121728 568122392 0.000000e+00 922.0
29 TraesCS1D01G412800 chr1A 93.381 423 21 6 868 1284 568393399 568393820 8.900000e-174 619.0
30 TraesCS1D01G412800 chr1A 93.426 289 17 2 1000 1288 568328022 568328308 5.790000e-116 427.0
31 TraesCS1D01G412800 chr1A 91.031 223 17 3 248 469 113873922 113874142 4.730000e-77 298.0
32 TraesCS1D01G412800 chr1A 90.278 144 9 5 480 621 568118704 568118844 1.380000e-42 183.0
33 TraesCS1D01G412800 chr1A 84.000 150 16 3 1351 1495 568377613 568377759 1.090000e-28 137.0
34 TraesCS1D01G412800 chr1A 95.238 42 2 0 1460 1501 568266869 568266910 1.450000e-07 67.6
35 TraesCS1D01G412800 chr1A 97.143 35 1 0 198 232 568382452 568382486 2.430000e-05 60.2
36 TraesCS1D01G412800 chr1A 100.000 28 0 0 201 228 568265204 568265231 4.000000e-03 52.8
37 TraesCS1D01G412800 chr6D 91.441 222 19 0 248 469 94757401 94757180 2.830000e-79 305.0
38 TraesCS1D01G412800 chr3B 90.991 222 19 1 248 468 243240544 243240765 4.730000e-77 298.0
39 TraesCS1D01G412800 chr3B 86.473 207 23 2 2047 2252 172105742 172105540 2.930000e-54 222.0
40 TraesCS1D01G412800 chr3B 86.473 207 23 2 2047 2252 172225213 172225011 2.930000e-54 222.0
41 TraesCS1D01G412800 chr3A 89.362 235 21 4 248 480 465820529 465820761 2.200000e-75 292.0
42 TraesCS1D01G412800 chr6B 89.868 227 21 2 248 473 118047296 118047071 7.920000e-75 291.0
43 TraesCS1D01G412800 chr2A 89.520 229 23 1 248 475 575349240 575349012 2.850000e-74 289.0
44 TraesCS1D01G412800 chr2B 86.603 209 22 4 2049 2255 636216427 636216631 2.270000e-55 226.0
45 TraesCS1D01G412800 chr5B 85.782 211 23 5 2046 2254 579150041 579149836 1.360000e-52 217.0
46 TraesCS1D01G412800 chr4B 85.714 210 24 4 2047 2254 594696153 594695948 1.360000e-52 217.0
47 TraesCS1D01G412800 chr4A 85.446 213 25 4 2043 2254 718484052 718484259 1.360000e-52 217.0


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 TraesCS1D01G412800 chr1D 473871240 473873506 2266 False 4187.00 4187 100.000000 1 2267 1 chr1D.!!$F3 2266
1 TraesCS1D01G412800 chr1D 473988099 473993404 5305 False 288.50 588 89.313000 13 1910 4 chr1D.!!$F7 1897
2 TraesCS1D01G412800 chr1B 658922181 658924138 1957 False 647.75 1275 92.766750 1 2267 4 chr1B.!!$F3 2266
3 TraesCS1D01G412800 chr1B 659002721 659006972 4251 False 427.50 433 89.533000 998 1977 2 chr1B.!!$F5 979
4 TraesCS1D01G412800 chr1B 659318036 659322741 4705 False 337.00 632 90.870000 862 1910 3 chr1B.!!$F7 1048
5 TraesCS1D01G412800 chr1B 659072418 659073891 1473 False 298.00 440 89.937000 45 1284 2 chr1B.!!$F6 1239
6 TraesCS1D01G412800 chr1B 658968969 658973385 4416 False 232.85 411 92.399000 838 1977 2 chr1B.!!$F4 1139
7 TraesCS1D01G412800 chr1A 568118704 568123449 4745 False 738.00 1109 90.500333 480 2267 3 chr1A.!!$F6 1787

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
931 7614 0.53626 CCACCAGAGCTCTCTCAAGG 59.464 60.0 14.96 14.39 41.81 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2164 12457 0.515127 TTGTGTTATTCCACTGCGCG 59.485 50.0 0.0 0.0 36.3 6.86 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
84 3311 0.761187 ATGTGACCTGCCGCTCATAT 59.239 50.000 0.00 0.00 0.00 1.78
143 3370 4.670221 GCTCTAAATGCTTCACAGGTTTCG 60.670 45.833 0.00 0.00 0.00 3.46
232 3621 3.220507 TGTCAAATGCATGCAAGCTAC 57.779 42.857 26.68 19.85 34.99 3.58
234 3623 3.119743 TGTCAAATGCATGCAAGCTACTC 60.120 43.478 26.68 12.27 34.99 2.59
235 3624 2.424601 TCAAATGCATGCAAGCTACTCC 59.575 45.455 26.68 0.00 34.99 3.85
236 3625 1.396653 AATGCATGCAAGCTACTCCC 58.603 50.000 26.68 0.00 34.99 4.30
237 3626 0.549950 ATGCATGCAAGCTACTCCCT 59.450 50.000 26.68 0.00 34.99 4.20
238 3627 1.203237 TGCATGCAAGCTACTCCCTA 58.797 50.000 20.30 0.00 34.99 3.53
239 3628 1.134401 TGCATGCAAGCTACTCCCTAC 60.134 52.381 20.30 0.00 34.99 3.18
240 3629 1.858091 CATGCAAGCTACTCCCTACG 58.142 55.000 0.00 0.00 0.00 3.51
241 3630 1.137086 CATGCAAGCTACTCCCTACGT 59.863 52.381 0.00 0.00 0.00 3.57
243 3632 0.806492 GCAAGCTACTCCCTACGTGC 60.806 60.000 0.00 0.00 0.00 5.34
244 3633 0.818296 CAAGCTACTCCCTACGTGCT 59.182 55.000 0.00 0.00 0.00 4.40
245 3634 1.204941 CAAGCTACTCCCTACGTGCTT 59.795 52.381 0.00 0.00 40.74 3.91
246 3635 1.104630 AGCTACTCCCTACGTGCTTC 58.895 55.000 0.00 0.00 0.00 3.86
247 3636 0.815734 GCTACTCCCTACGTGCTTCA 59.184 55.000 0.00 0.00 0.00 3.02
248 3637 1.203994 GCTACTCCCTACGTGCTTCAA 59.796 52.381 0.00 0.00 0.00 2.69
249 3638 2.353406 GCTACTCCCTACGTGCTTCAAA 60.353 50.000 0.00 0.00 0.00 2.69
251 3640 1.692519 ACTCCCTACGTGCTTCAAAGT 59.307 47.619 0.00 0.00 0.00 2.66
252 3641 2.288886 ACTCCCTACGTGCTTCAAAGTC 60.289 50.000 0.00 0.00 0.00 3.01
253 3642 1.689813 TCCCTACGTGCTTCAAAGTCA 59.310 47.619 0.00 0.00 0.00 3.41
254 3643 2.103432 TCCCTACGTGCTTCAAAGTCAA 59.897 45.455 0.00 0.00 0.00 3.18
257 3646 3.560068 CCTACGTGCTTCAAAGTCAAACT 59.440 43.478 0.00 0.00 0.00 2.66
258 3647 4.035208 CCTACGTGCTTCAAAGTCAAACTT 59.965 41.667 0.00 0.00 40.80 2.66
261 3650 5.227152 ACGTGCTTCAAAGTCAAACTTTTT 58.773 33.333 2.42 0.00 45.38 1.94
305 3876 7.095695 ACAATAGTACACCAACATTTATGCC 57.904 36.000 0.00 0.00 0.00 4.40
306 3877 6.661377 ACAATAGTACACCAACATTTATGCCA 59.339 34.615 0.00 0.00 0.00 4.92
308 3879 3.761752 AGTACACCAACATTTATGCCACC 59.238 43.478 0.00 0.00 0.00 4.61
309 3880 2.603021 ACACCAACATTTATGCCACCA 58.397 42.857 0.00 0.00 0.00 4.17
310 3881 2.968574 ACACCAACATTTATGCCACCAA 59.031 40.909 0.00 0.00 0.00 3.67
311 3882 3.389329 ACACCAACATTTATGCCACCAAA 59.611 39.130 0.00 0.00 0.00 3.28
312 3883 4.041444 ACACCAACATTTATGCCACCAAAT 59.959 37.500 0.00 0.00 0.00 2.32
313 3884 5.002516 CACCAACATTTATGCCACCAAATT 58.997 37.500 0.00 0.00 0.00 1.82
314 3885 6.169094 CACCAACATTTATGCCACCAAATTA 58.831 36.000 0.00 0.00 0.00 1.40
315 3886 6.313411 CACCAACATTTATGCCACCAAATTAG 59.687 38.462 0.00 0.00 0.00 1.73
316 3887 6.013812 ACCAACATTTATGCCACCAAATTAGT 60.014 34.615 0.00 0.00 0.00 2.24
318 3889 7.706179 CCAACATTTATGCCACCAAATTAGTAG 59.294 37.037 0.00 0.00 0.00 2.57
319 3890 6.805713 ACATTTATGCCACCAAATTAGTAGC 58.194 36.000 0.00 0.00 0.00 3.58
321 3892 7.069826 ACATTTATGCCACCAAATTAGTAGCAT 59.930 33.333 15.30 15.30 43.48 3.79
324 3895 6.639632 ATGCCACCAAATTAGTAGCATTAG 57.360 37.500 8.12 0.00 39.11 1.73
326 3897 6.364701 TGCCACCAAATTAGTAGCATTAGAT 58.635 36.000 0.00 0.00 26.58 1.98
328 3899 7.013274 TGCCACCAAATTAGTAGCATTAGATTC 59.987 37.037 0.00 0.00 26.58 2.52
329 3900 7.013274 GCCACCAAATTAGTAGCATTAGATTCA 59.987 37.037 0.00 0.00 0.00 2.57
330 3901 8.345565 CCACCAAATTAGTAGCATTAGATTCAC 58.654 37.037 0.00 0.00 0.00 3.18
331 3902 8.064222 CACCAAATTAGTAGCATTAGATTCACG 58.936 37.037 0.00 0.00 0.00 4.35
332 3903 7.985184 ACCAAATTAGTAGCATTAGATTCACGA 59.015 33.333 0.00 0.00 0.00 4.35
333 3904 8.993121 CCAAATTAGTAGCATTAGATTCACGAT 58.007 33.333 0.00 0.00 0.00 3.73
370 3941 9.967451 TTTATCATACTCCTATTTGGTTTCACA 57.033 29.630 0.00 0.00 37.07 3.58
371 3942 9.967451 TTATCATACTCCTATTTGGTTTCACAA 57.033 29.630 0.00 0.00 37.07 3.33
372 3943 8.877864 ATCATACTCCTATTTGGTTTCACAAA 57.122 30.769 0.00 0.00 43.69 2.83
373 3944 8.106247 TCATACTCCTATTTGGTTTCACAAAC 57.894 34.615 0.00 0.00 42.51 2.93
374 3945 7.721842 TCATACTCCTATTTGGTTTCACAAACA 59.278 33.333 1.78 0.00 42.51 2.83
375 3946 6.976934 ACTCCTATTTGGTTTCACAAACAT 57.023 33.333 1.78 0.00 42.51 2.71
376 3947 6.981722 ACTCCTATTTGGTTTCACAAACATC 58.018 36.000 1.78 0.00 42.51 3.06
377 3948 6.549364 ACTCCTATTTGGTTTCACAAACATCA 59.451 34.615 1.78 0.00 42.51 3.07
378 3949 7.069331 ACTCCTATTTGGTTTCACAAACATCAA 59.931 33.333 1.78 0.00 42.51 2.57
379 3950 7.961351 TCCTATTTGGTTTCACAAACATCAAT 58.039 30.769 1.78 0.12 42.51 2.57
380 3951 9.083422 TCCTATTTGGTTTCACAAACATCAATA 57.917 29.630 1.78 1.09 42.51 1.90
381 3952 9.874205 CCTATTTGGTTTCACAAACATCAATAT 57.126 29.630 1.78 0.00 42.51 1.28
390 3961 9.755804 TTTCACAAACATCAATATACTTTTGCA 57.244 25.926 0.00 0.00 0.00 4.08
391 3962 8.741101 TCACAAACATCAATATACTTTTGCAC 57.259 30.769 0.00 0.00 0.00 4.57
392 3963 8.355913 TCACAAACATCAATATACTTTTGCACA 58.644 29.630 0.00 0.00 0.00 4.57
393 3964 8.976471 CACAAACATCAATATACTTTTGCACAA 58.024 29.630 0.00 0.00 0.00 3.33
394 3965 9.539825 ACAAACATCAATATACTTTTGCACAAA 57.460 25.926 0.00 0.00 0.00 2.83
395 3966 9.796062 CAAACATCAATATACTTTTGCACAAAC 57.204 29.630 0.00 0.00 0.00 2.93
396 3967 9.762933 AAACATCAATATACTTTTGCACAAACT 57.237 25.926 0.00 0.00 0.00 2.66
397 3968 8.970691 ACATCAATATACTTTTGCACAAACTC 57.029 30.769 0.00 0.00 0.00 3.01
398 3969 7.750458 ACATCAATATACTTTTGCACAAACTCG 59.250 33.333 0.00 0.00 0.00 4.18
399 3970 6.607689 TCAATATACTTTTGCACAAACTCGG 58.392 36.000 0.00 0.00 0.00 4.63
400 3971 6.205853 TCAATATACTTTTGCACAAACTCGGT 59.794 34.615 0.00 0.00 0.00 4.69
401 3972 2.844122 ACTTTTGCACAAACTCGGTC 57.156 45.000 0.00 0.00 0.00 4.79
402 3973 2.088423 ACTTTTGCACAAACTCGGTCA 58.912 42.857 0.00 0.00 0.00 4.02
403 3974 2.490115 ACTTTTGCACAAACTCGGTCAA 59.510 40.909 0.00 0.00 0.00 3.18
404 3975 3.057174 ACTTTTGCACAAACTCGGTCAAA 60.057 39.130 0.00 0.00 0.00 2.69
405 3976 2.553079 TTGCACAAACTCGGTCAAAC 57.447 45.000 0.00 0.00 0.00 2.93
406 3977 1.745232 TGCACAAACTCGGTCAAACT 58.255 45.000 0.00 0.00 0.00 2.66
407 3978 2.088423 TGCACAAACTCGGTCAAACTT 58.912 42.857 0.00 0.00 0.00 2.66
408 3979 2.490115 TGCACAAACTCGGTCAAACTTT 59.510 40.909 0.00 0.00 0.00 2.66
409 3980 2.851824 GCACAAACTCGGTCAAACTTTG 59.148 45.455 0.00 0.00 0.00 2.77
410 3981 3.434637 CACAAACTCGGTCAAACTTTGG 58.565 45.455 1.62 0.00 0.00 3.28
411 3982 2.425668 ACAAACTCGGTCAAACTTTGGG 59.574 45.455 1.62 0.00 0.00 4.12
412 3983 2.685897 CAAACTCGGTCAAACTTTGGGA 59.314 45.455 1.62 0.00 0.00 4.37
413 3984 2.951229 ACTCGGTCAAACTTTGGGAT 57.049 45.000 1.62 0.00 0.00 3.85
414 3985 4.360951 AACTCGGTCAAACTTTGGGATA 57.639 40.909 1.62 0.00 0.00 2.59
415 3986 4.360951 ACTCGGTCAAACTTTGGGATAA 57.639 40.909 1.62 0.00 0.00 1.75
416 3987 4.918588 ACTCGGTCAAACTTTGGGATAAT 58.081 39.130 1.62 0.00 0.00 1.28
417 3988 5.321927 ACTCGGTCAAACTTTGGGATAATT 58.678 37.500 1.62 0.00 0.00 1.40
418 3989 5.773176 ACTCGGTCAAACTTTGGGATAATTT 59.227 36.000 1.62 0.00 0.00 1.82
419 3990 6.019779 TCGGTCAAACTTTGGGATAATTTG 57.980 37.500 1.62 0.00 0.00 2.32
420 3991 5.770663 TCGGTCAAACTTTGGGATAATTTGA 59.229 36.000 1.62 0.00 37.03 2.69
423 3994 6.163476 GTCAAACTTTGGGATAATTTGACCC 58.837 40.000 14.32 0.00 46.95 4.46
424 3995 6.014584 GTCAAACTTTGGGATAATTTGACCCT 60.015 38.462 14.32 0.00 46.95 4.34
425 3996 6.210584 TCAAACTTTGGGATAATTTGACCCTC 59.789 38.462 13.01 0.00 43.59 4.30
426 3997 4.610333 ACTTTGGGATAATTTGACCCTCC 58.390 43.478 13.01 0.00 43.59 4.30
427 3998 4.045334 ACTTTGGGATAATTTGACCCTCCA 59.955 41.667 13.01 0.00 43.59 3.86
428 3999 4.683766 TTGGGATAATTTGACCCTCCAA 57.316 40.909 13.01 0.00 43.59 3.53
429 4000 3.976015 TGGGATAATTTGACCCTCCAAC 58.024 45.455 13.01 0.00 43.59 3.77
430 4001 3.335183 TGGGATAATTTGACCCTCCAACA 59.665 43.478 13.01 0.00 43.59 3.33
431 4002 4.202727 TGGGATAATTTGACCCTCCAACAA 60.203 41.667 13.01 0.00 43.59 2.83
432 4003 4.775253 GGGATAATTTGACCCTCCAACAAA 59.225 41.667 0.00 0.00 40.39 2.83
433 4004 5.105351 GGGATAATTTGACCCTCCAACAAAG 60.105 44.000 0.00 0.00 40.39 2.77
434 4005 5.480422 GGATAATTTGACCCTCCAACAAAGT 59.520 40.000 0.00 0.00 37.04 2.66
435 4006 6.014584 GGATAATTTGACCCTCCAACAAAGTT 60.015 38.462 0.00 0.00 37.04 2.66
436 4007 4.670896 ATTTGACCCTCCAACAAAGTTG 57.329 40.909 3.00 3.00 37.04 3.16
437 4008 2.065899 TGACCCTCCAACAAAGTTGG 57.934 50.000 20.09 20.09 40.87 3.77
438 4009 1.566703 TGACCCTCCAACAAAGTTGGA 59.433 47.619 25.17 25.17 45.61 3.53
439 4010 2.024846 TGACCCTCCAACAAAGTTGGAA 60.025 45.455 26.25 12.88 46.85 3.53
440 4011 2.623416 GACCCTCCAACAAAGTTGGAAG 59.377 50.000 26.25 21.51 46.85 3.46
441 4012 2.024369 ACCCTCCAACAAAGTTGGAAGT 60.024 45.455 26.25 22.95 46.85 3.01
442 4013 3.203487 ACCCTCCAACAAAGTTGGAAGTA 59.797 43.478 26.25 9.67 46.85 2.24
443 4014 3.568430 CCCTCCAACAAAGTTGGAAGTAC 59.432 47.826 26.25 0.00 46.85 2.73
444 4015 4.204012 CCTCCAACAAAGTTGGAAGTACA 58.796 43.478 26.25 8.75 46.85 2.90
445 4016 4.036380 CCTCCAACAAAGTTGGAAGTACAC 59.964 45.833 26.25 0.00 46.85 2.90
446 4017 4.850680 TCCAACAAAGTTGGAAGTACACT 58.149 39.130 24.83 0.00 44.90 3.55
447 4018 4.879545 TCCAACAAAGTTGGAAGTACACTC 59.120 41.667 24.83 0.00 44.90 3.51
448 4019 4.881850 CCAACAAAGTTGGAAGTACACTCT 59.118 41.667 21.24 0.00 42.06 3.24
449 4020 5.357032 CCAACAAAGTTGGAAGTACACTCTT 59.643 40.000 21.24 0.00 42.06 2.85
450 4021 6.127730 CCAACAAAGTTGGAAGTACACTCTTT 60.128 38.462 21.24 0.00 42.06 2.52
451 4022 6.436843 ACAAAGTTGGAAGTACACTCTTTG 57.563 37.500 14.27 14.27 42.09 2.77
452 4023 6.177610 ACAAAGTTGGAAGTACACTCTTTGA 58.822 36.000 19.32 0.00 40.69 2.69
453 4024 6.657541 ACAAAGTTGGAAGTACACTCTTTGAA 59.342 34.615 19.32 4.44 40.69 2.69
454 4025 7.175990 ACAAAGTTGGAAGTACACTCTTTGAAA 59.824 33.333 19.32 0.00 40.69 2.69
455 4026 7.696992 AAGTTGGAAGTACACTCTTTGAAAA 57.303 32.000 0.00 0.00 0.00 2.29
456 4027 7.321745 AGTTGGAAGTACACTCTTTGAAAAG 57.678 36.000 0.00 0.00 37.36 2.27
457 4028 5.751243 TGGAAGTACACTCTTTGAAAAGC 57.249 39.130 0.00 0.00 35.99 3.51
458 4029 4.272504 TGGAAGTACACTCTTTGAAAAGCG 59.727 41.667 0.00 0.00 35.99 4.68
459 4030 4.319549 GGAAGTACACTCTTTGAAAAGCGG 60.320 45.833 0.00 0.00 35.99 5.52
460 4031 4.067972 AGTACACTCTTTGAAAAGCGGA 57.932 40.909 0.00 0.00 35.99 5.54
461 4032 4.642429 AGTACACTCTTTGAAAAGCGGAT 58.358 39.130 0.00 0.00 35.99 4.18
462 4033 3.904136 ACACTCTTTGAAAAGCGGATG 57.096 42.857 0.00 0.00 35.99 3.51
463 4034 2.554032 ACACTCTTTGAAAAGCGGATGG 59.446 45.455 0.00 0.00 35.99 3.51
464 4035 2.813754 CACTCTTTGAAAAGCGGATGGA 59.186 45.455 0.00 0.00 35.99 3.41
465 4036 3.077359 ACTCTTTGAAAAGCGGATGGAG 58.923 45.455 0.00 0.00 35.99 3.86
466 4037 3.077359 CTCTTTGAAAAGCGGATGGAGT 58.923 45.455 0.00 0.00 35.99 3.85
467 4038 4.253685 CTCTTTGAAAAGCGGATGGAGTA 58.746 43.478 0.00 0.00 35.99 2.59
468 4039 4.253685 TCTTTGAAAAGCGGATGGAGTAG 58.746 43.478 0.00 0.00 35.99 2.57
469 4040 2.024176 TGAAAAGCGGATGGAGTAGC 57.976 50.000 0.00 0.00 0.00 3.58
470 4041 1.555075 TGAAAAGCGGATGGAGTAGCT 59.445 47.619 0.00 0.00 42.35 3.32
471 4042 2.764010 TGAAAAGCGGATGGAGTAGCTA 59.236 45.455 0.00 0.00 39.25 3.32
472 4043 2.892784 AAAGCGGATGGAGTAGCTAC 57.107 50.000 16.43 16.43 39.25 3.58
473 4044 1.776662 AAGCGGATGGAGTAGCTACA 58.223 50.000 25.28 5.81 39.25 2.74
474 4045 1.323412 AGCGGATGGAGTAGCTACAG 58.677 55.000 25.28 8.55 38.29 2.74
491 4062 8.958506 GTAGCTACAGTAGTATAATATGCACCT 58.041 37.037 19.15 0.00 0.00 4.00
501 4088 6.984474 AGTATAATATGCACCTACACACACAC 59.016 38.462 0.00 0.00 0.00 3.82
656 7173 4.563184 ACGAATGCGAGAGTTGATTTCTAC 59.437 41.667 0.00 0.00 41.64 2.59
818 7340 2.054453 GTTGGGAATGCCTGCCCTC 61.054 63.158 6.60 0.00 44.96 4.30
866 7503 2.593026 CTCAGCCACCTTTTAACCCAA 58.407 47.619 0.00 0.00 0.00 4.12
931 7614 0.536260 CCACCAGAGCTCTCTCAAGG 59.464 60.000 14.96 14.39 41.81 3.61
1101 7820 3.834799 GCGCTGGCCTACTACGGT 61.835 66.667 3.32 0.00 0.00 4.83
1288 8015 8.525290 CTGAAAGGTATAATCCTCAACCAAAT 57.475 34.615 0.00 0.00 36.74 2.32
1289 8016 8.893563 TGAAAGGTATAATCCTCAACCAAATT 57.106 30.769 0.00 0.00 36.74 1.82
1290 8017 8.748412 TGAAAGGTATAATCCTCAACCAAATTG 58.252 33.333 0.00 0.00 36.74 2.32
1291 8018 6.715347 AGGTATAATCCTCAACCAAATTGC 57.285 37.500 0.00 0.00 38.29 3.56
1292 8019 5.598417 AGGTATAATCCTCAACCAAATTGCC 59.402 40.000 0.00 0.00 38.29 4.52
1293 8020 5.362430 GGTATAATCCTCAACCAAATTGCCA 59.638 40.000 0.00 0.00 38.29 4.92
1294 8021 3.683365 AATCCTCAACCAAATTGCCAC 57.317 42.857 0.00 0.00 38.29 5.01
1301 8028 2.529780 ACCAAATTGCCACACACATG 57.470 45.000 0.00 0.00 0.00 3.21
1310 8037 0.034767 CCACACACATGGGATGCTCT 60.035 55.000 0.00 0.00 35.95 4.09
1311 8038 1.092348 CACACACATGGGATGCTCTG 58.908 55.000 0.00 0.00 0.00 3.35
1312 8039 0.679002 ACACACATGGGATGCTCTGC 60.679 55.000 0.00 0.00 0.00 4.26
1313 8040 0.393944 CACACATGGGATGCTCTGCT 60.394 55.000 0.00 0.00 0.00 4.24
1314 8041 1.134310 CACACATGGGATGCTCTGCTA 60.134 52.381 0.00 0.00 0.00 3.49
1315 8042 1.140452 ACACATGGGATGCTCTGCTAG 59.860 52.381 0.00 0.00 0.00 3.42
1316 8043 1.140452 CACATGGGATGCTCTGCTAGT 59.860 52.381 0.00 0.00 0.00 2.57
1317 8044 1.415659 ACATGGGATGCTCTGCTAGTC 59.584 52.381 0.00 0.00 0.00 2.59
1340 8079 6.017934 GTCTGCTTCTAACATGTTTTCAGTCA 60.018 38.462 17.78 10.59 0.00 3.41
1341 8080 6.203530 TCTGCTTCTAACATGTTTTCAGTCAG 59.796 38.462 17.78 17.52 0.00 3.51
1342 8081 5.822519 TGCTTCTAACATGTTTTCAGTCAGT 59.177 36.000 17.78 0.00 0.00 3.41
1343 8082 6.318648 TGCTTCTAACATGTTTTCAGTCAGTT 59.681 34.615 17.78 0.00 0.00 3.16
1344 8083 7.497579 TGCTTCTAACATGTTTTCAGTCAGTTA 59.502 33.333 17.78 0.00 0.00 2.24
1345 8084 8.012241 GCTTCTAACATGTTTTCAGTCAGTTAG 58.988 37.037 17.78 3.35 36.87 2.34
1346 8085 9.261180 CTTCTAACATGTTTTCAGTCAGTTAGA 57.739 33.333 17.78 5.82 39.31 2.10
1347 8086 8.818141 TCTAACATGTTTTCAGTCAGTTAGAG 57.182 34.615 17.78 2.69 38.01 2.43
1352 8235 3.402628 TTTCAGTCAGTTAGAGGCCAC 57.597 47.619 5.01 0.00 0.00 5.01
1371 8254 1.965930 GCATGACGACTGGCACCAA 60.966 57.895 0.00 0.00 0.00 3.67
1372 8255 1.308069 GCATGACGACTGGCACCAAT 61.308 55.000 0.00 0.00 0.00 3.16
1378 8261 3.196901 TGACGACTGGCACCAATAACTAT 59.803 43.478 0.00 0.00 0.00 2.12
1379 8262 3.531538 ACGACTGGCACCAATAACTATG 58.468 45.455 0.00 0.00 0.00 2.23
1380 8263 3.196901 ACGACTGGCACCAATAACTATGA 59.803 43.478 0.00 0.00 0.00 2.15
1381 8264 4.141711 ACGACTGGCACCAATAACTATGAT 60.142 41.667 0.00 0.00 0.00 2.45
1425 8316 1.684869 CCTGGCCCAATTTATCGGTGT 60.685 52.381 0.00 0.00 0.00 4.16
1427 8318 2.096248 TGGCCCAATTTATCGGTGTTC 58.904 47.619 0.00 0.00 0.00 3.18
1428 8319 2.096248 GGCCCAATTTATCGGTGTTCA 58.904 47.619 0.00 0.00 0.00 3.18
1429 8320 2.494073 GGCCCAATTTATCGGTGTTCAA 59.506 45.455 0.00 0.00 0.00 2.69
1503 11573 2.639347 TGGATCTTGCAGTCTTTCTCCA 59.361 45.455 0.00 0.00 0.00 3.86
1504 11574 3.269178 GGATCTTGCAGTCTTTCTCCAG 58.731 50.000 0.00 0.00 0.00 3.86
1509 11606 3.045601 TGCAGTCTTTCTCCAGCTTAC 57.954 47.619 0.00 0.00 0.00 2.34
1511 11609 3.181455 TGCAGTCTTTCTCCAGCTTACAA 60.181 43.478 0.00 0.00 0.00 2.41
1512 11610 3.434984 GCAGTCTTTCTCCAGCTTACAAG 59.565 47.826 0.00 0.00 0.00 3.16
1514 11612 2.744741 GTCTTTCTCCAGCTTACAAGGC 59.255 50.000 0.00 0.00 0.00 4.35
1520 11618 3.821033 TCTCCAGCTTACAAGGCTTTTTC 59.179 43.478 0.00 0.00 38.03 2.29
1526 11624 6.317857 CAGCTTACAAGGCTTTTTCATAGAC 58.682 40.000 0.00 0.00 38.03 2.59
1548 11646 3.694043 TTGTGCAGCTCCACACTATTA 57.306 42.857 10.78 0.00 44.72 0.98
1551 11649 4.588899 TGTGCAGCTCCACACTATTAATT 58.411 39.130 6.32 0.00 40.55 1.40
1552 11650 5.009631 TGTGCAGCTCCACACTATTAATTT 58.990 37.500 6.32 0.00 40.55 1.82
1553 11651 5.106197 TGTGCAGCTCCACACTATTAATTTG 60.106 40.000 6.32 0.00 40.55 2.32
1558 11658 5.476599 AGCTCCACACTATTAATTTGCACAA 59.523 36.000 0.00 0.00 0.00 3.33
1572 11677 2.106566 TGCACAAACATTCACCCAACT 58.893 42.857 0.00 0.00 0.00 3.16
1611 11716 8.090831 AGAACAAAGCAAAAGAAAGAAAGAACT 58.909 29.630 0.00 0.00 0.00 3.01
1615 11720 9.520204 CAAAGCAAAAGAAAGAAAGAACTATCA 57.480 29.630 0.00 0.00 0.00 2.15
1634 11739 8.306313 ACTATCATCCACACTATTTGAGTACA 57.694 34.615 0.00 0.00 35.64 2.90
1668 11773 9.429359 CTGTACAAACTTCAGAGTTCAGATAAT 57.571 33.333 0.00 0.00 45.18 1.28
1704 11811 6.240894 AGTGCTTTCTCATGTTTTCAGGATA 58.759 36.000 0.00 0.00 39.89 2.59
1719 11826 6.801539 TTCAGGATAAAGCAGTGTAAACTG 57.198 37.500 8.84 8.84 40.51 3.16
1977 12270 7.255277 GGATTTGCAATCCATCTCCTAACTTAC 60.255 40.741 17.78 0.00 38.09 2.34
1979 12272 4.473196 TGCAATCCATCTCCTAACTTACCA 59.527 41.667 0.00 0.00 0.00 3.25
2054 12347 1.559682 GAGGCTCAATACTGTTGGGGA 59.440 52.381 10.25 0.00 0.00 4.81
2072 12365 3.056607 GGGGATGAACAACAAAGATGTGG 60.057 47.826 0.00 0.00 40.46 4.17
2121 12414 1.892209 CACACTACACAACCCCCTTC 58.108 55.000 0.00 0.00 0.00 3.46
2162 12455 6.260050 TGAGGACAGTTTCAATCAACAAGTAC 59.740 38.462 0.00 0.00 0.00 2.73
2163 12456 5.236478 AGGACAGTTTCAATCAACAAGTACG 59.764 40.000 0.00 0.00 0.00 3.67
2164 12457 4.844267 ACAGTTTCAATCAACAAGTACGC 58.156 39.130 0.00 0.00 0.00 4.42
2165 12458 3.900116 CAGTTTCAATCAACAAGTACGCG 59.100 43.478 3.53 3.53 0.00 6.01
2166 12459 2.587612 TTCAATCAACAAGTACGCGC 57.412 45.000 5.73 0.00 0.00 6.86
2184 12477 1.464023 CGCGCAGTGGAATAACACAAG 60.464 52.381 8.75 0.00 43.72 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
84 3311 0.322975 GCCTCTCCTCACAGCTCAAA 59.677 55.000 0.00 0.00 0.00 2.69
143 3370 1.308783 GCTGGCCTTGCTCCAAGTAC 61.309 60.000 3.32 0.00 39.58 2.73
232 3621 2.288825 TGACTTTGAAGCACGTAGGGAG 60.289 50.000 0.00 0.00 0.00 4.30
234 3623 2.163818 TGACTTTGAAGCACGTAGGG 57.836 50.000 0.00 0.00 0.00 3.53
235 3624 3.560068 AGTTTGACTTTGAAGCACGTAGG 59.440 43.478 0.00 0.00 0.00 3.18
236 3625 4.795970 AGTTTGACTTTGAAGCACGTAG 57.204 40.909 0.00 0.00 0.00 3.51
237 3626 5.554822 AAAGTTTGACTTTGAAGCACGTA 57.445 34.783 5.34 0.00 45.83 3.57
238 3627 4.434713 AAAGTTTGACTTTGAAGCACGT 57.565 36.364 5.34 0.00 45.83 4.49
239 3628 5.761818 AAAAAGTTTGACTTTGAAGCACG 57.238 34.783 6.81 0.00 46.78 5.34
279 3850 8.846211 GGCATAAATGTTGGTGTACTATTGTAT 58.154 33.333 0.00 0.00 0.00 2.29
280 3851 7.829706 TGGCATAAATGTTGGTGTACTATTGTA 59.170 33.333 0.00 0.00 0.00 2.41
282 3853 6.972328 GTGGCATAAATGTTGGTGTACTATTG 59.028 38.462 0.00 0.00 0.00 1.90
285 3856 4.944930 GGTGGCATAAATGTTGGTGTACTA 59.055 41.667 0.00 0.00 0.00 1.82
292 3863 6.405538 ACTAATTTGGTGGCATAAATGTTGG 58.594 36.000 11.72 5.08 0.00 3.77
293 3864 7.222611 GCTACTAATTTGGTGGCATAAATGTTG 59.777 37.037 14.82 9.11 40.17 3.33
294 3865 7.093552 TGCTACTAATTTGGTGGCATAAATGTT 60.094 33.333 17.74 3.55 44.01 2.71
295 3866 6.379703 TGCTACTAATTTGGTGGCATAAATGT 59.620 34.615 17.74 9.46 44.01 2.71
303 3874 6.884280 ATCTAATGCTACTAATTTGGTGGC 57.116 37.500 13.20 13.20 40.70 5.01
304 3875 8.345565 GTGAATCTAATGCTACTAATTTGGTGG 58.654 37.037 0.00 0.00 0.00 4.61
305 3876 8.064222 CGTGAATCTAATGCTACTAATTTGGTG 58.936 37.037 0.00 0.00 0.00 4.17
306 3877 7.985184 TCGTGAATCTAATGCTACTAATTTGGT 59.015 33.333 0.00 0.00 0.00 3.67
344 3915 9.967451 TGTGAAACCAAATAGGAGTATGATAAA 57.033 29.630 0.00 0.00 41.22 1.40
345 3916 9.967451 TTGTGAAACCAAATAGGAGTATGATAA 57.033 29.630 0.00 0.00 41.22 1.75
348 3919 7.721842 TGTTTGTGAAACCAAATAGGAGTATGA 59.278 33.333 0.00 0.00 40.67 2.15
351 3922 7.721842 TGATGTTTGTGAAACCAAATAGGAGTA 59.278 33.333 0.00 0.00 40.67 2.59
352 3923 6.549364 TGATGTTTGTGAAACCAAATAGGAGT 59.451 34.615 0.00 0.00 40.67 3.85
355 3926 9.874205 ATATTGATGTTTGTGAAACCAAATAGG 57.126 29.630 0.00 0.00 40.67 2.57
364 3935 9.755804 TGCAAAAGTATATTGATGTTTGTGAAA 57.244 25.926 0.00 0.00 0.00 2.69
365 3936 9.190858 GTGCAAAAGTATATTGATGTTTGTGAA 57.809 29.630 0.00 0.00 0.00 3.18
366 3937 8.355913 TGTGCAAAAGTATATTGATGTTTGTGA 58.644 29.630 0.00 0.00 0.00 3.58
367 3938 8.518151 TGTGCAAAAGTATATTGATGTTTGTG 57.482 30.769 0.00 0.00 0.00 3.33
368 3939 9.539825 TTTGTGCAAAAGTATATTGATGTTTGT 57.460 25.926 0.00 0.00 0.00 2.83
369 3940 9.796062 GTTTGTGCAAAAGTATATTGATGTTTG 57.204 29.630 0.00 0.00 31.33 2.93
370 3941 9.762933 AGTTTGTGCAAAAGTATATTGATGTTT 57.237 25.926 0.00 0.00 31.33 2.83
371 3942 9.410556 GAGTTTGTGCAAAAGTATATTGATGTT 57.589 29.630 0.00 0.00 31.33 2.71
372 3943 7.750458 CGAGTTTGTGCAAAAGTATATTGATGT 59.250 33.333 0.00 0.00 31.33 3.06
373 3944 7.218773 CCGAGTTTGTGCAAAAGTATATTGATG 59.781 37.037 0.00 0.00 31.33 3.07
374 3945 7.094377 ACCGAGTTTGTGCAAAAGTATATTGAT 60.094 33.333 0.00 0.00 31.33 2.57
375 3946 6.205853 ACCGAGTTTGTGCAAAAGTATATTGA 59.794 34.615 0.00 0.00 31.33 2.57
376 3947 6.378582 ACCGAGTTTGTGCAAAAGTATATTG 58.621 36.000 0.00 0.00 31.33 1.90
377 3948 6.205853 TGACCGAGTTTGTGCAAAAGTATATT 59.794 34.615 0.00 0.00 31.33 1.28
378 3949 5.703592 TGACCGAGTTTGTGCAAAAGTATAT 59.296 36.000 0.00 0.00 31.33 0.86
379 3950 5.057819 TGACCGAGTTTGTGCAAAAGTATA 58.942 37.500 0.00 0.00 31.33 1.47
380 3951 3.880490 TGACCGAGTTTGTGCAAAAGTAT 59.120 39.130 0.00 0.00 31.33 2.12
381 3952 3.271729 TGACCGAGTTTGTGCAAAAGTA 58.728 40.909 0.00 0.00 31.33 2.24
382 3953 2.088423 TGACCGAGTTTGTGCAAAAGT 58.912 42.857 0.00 0.00 31.33 2.66
383 3954 2.842208 TGACCGAGTTTGTGCAAAAG 57.158 45.000 0.00 0.00 31.33 2.27
384 3955 3.057174 AGTTTGACCGAGTTTGTGCAAAA 60.057 39.130 0.00 0.00 31.33 2.44
385 3956 2.490115 AGTTTGACCGAGTTTGTGCAAA 59.510 40.909 0.00 0.00 0.00 3.68
386 3957 2.088423 AGTTTGACCGAGTTTGTGCAA 58.912 42.857 0.00 0.00 0.00 4.08
387 3958 1.745232 AGTTTGACCGAGTTTGTGCA 58.255 45.000 0.00 0.00 0.00 4.57
388 3959 2.844122 AAGTTTGACCGAGTTTGTGC 57.156 45.000 0.00 0.00 0.00 4.57
389 3960 3.434637 CCAAAGTTTGACCGAGTTTGTG 58.565 45.455 17.33 0.00 36.27 3.33
390 3961 2.425668 CCCAAAGTTTGACCGAGTTTGT 59.574 45.455 17.33 0.00 36.27 2.83
391 3962 2.685897 TCCCAAAGTTTGACCGAGTTTG 59.314 45.455 17.33 0.00 37.24 2.93
392 3963 3.007473 TCCCAAAGTTTGACCGAGTTT 57.993 42.857 17.33 0.00 0.00 2.66
393 3964 2.721425 TCCCAAAGTTTGACCGAGTT 57.279 45.000 17.33 0.00 0.00 3.01
394 3965 2.951229 ATCCCAAAGTTTGACCGAGT 57.049 45.000 17.33 0.00 0.00 4.18
395 3966 5.897377 AATTATCCCAAAGTTTGACCGAG 57.103 39.130 17.33 0.00 0.00 4.63
396 3967 5.770663 TCAAATTATCCCAAAGTTTGACCGA 59.229 36.000 17.33 9.38 34.82 4.69
397 3968 5.861787 GTCAAATTATCCCAAAGTTTGACCG 59.138 40.000 17.33 4.31 46.32 4.79
400 3971 6.081356 AGGGTCAAATTATCCCAAAGTTTGA 58.919 36.000 17.33 0.00 43.31 2.69
401 3972 6.358974 AGGGTCAAATTATCCCAAAGTTTG 57.641 37.500 8.73 8.73 43.31 2.93
402 3973 5.483937 GGAGGGTCAAATTATCCCAAAGTTT 59.516 40.000 12.85 0.00 43.31 2.66
403 3974 5.023452 GGAGGGTCAAATTATCCCAAAGTT 58.977 41.667 12.85 0.00 43.31 2.66
404 3975 4.045334 TGGAGGGTCAAATTATCCCAAAGT 59.955 41.667 12.85 0.00 43.31 2.66
405 3976 4.609301 TGGAGGGTCAAATTATCCCAAAG 58.391 43.478 12.85 0.00 43.31 2.77
406 3977 4.683766 TGGAGGGTCAAATTATCCCAAA 57.316 40.909 12.85 0.00 43.31 3.28
407 3978 4.202727 TGTTGGAGGGTCAAATTATCCCAA 60.203 41.667 12.85 0.00 43.31 4.12
408 3979 3.335183 TGTTGGAGGGTCAAATTATCCCA 59.665 43.478 12.85 0.00 43.31 4.37
409 3980 3.976015 TGTTGGAGGGTCAAATTATCCC 58.024 45.455 4.85 4.85 41.36 3.85
410 3981 5.480422 ACTTTGTTGGAGGGTCAAATTATCC 59.520 40.000 0.00 0.00 32.04 2.59
411 3982 6.590234 ACTTTGTTGGAGGGTCAAATTATC 57.410 37.500 0.00 0.00 32.04 1.75
412 3983 6.239572 CCAACTTTGTTGGAGGGTCAAATTAT 60.240 38.462 21.06 0.00 42.06 1.28
413 3984 5.069781 CCAACTTTGTTGGAGGGTCAAATTA 59.930 40.000 21.06 0.00 42.06 1.40
414 3985 4.141733 CCAACTTTGTTGGAGGGTCAAATT 60.142 41.667 21.06 0.00 42.06 1.82
415 3986 3.387699 CCAACTTTGTTGGAGGGTCAAAT 59.612 43.478 21.06 0.00 42.06 2.32
416 3987 2.763448 CCAACTTTGTTGGAGGGTCAAA 59.237 45.455 21.06 0.00 42.06 2.69
417 3988 2.024846 TCCAACTTTGTTGGAGGGTCAA 60.025 45.455 23.38 4.76 43.17 3.18
418 3989 1.566703 TCCAACTTTGTTGGAGGGTCA 59.433 47.619 23.38 5.39 43.17 4.02
419 3990 2.358322 TCCAACTTTGTTGGAGGGTC 57.642 50.000 23.38 0.00 43.17 4.46
424 3995 4.850680 AGTGTACTTCCAACTTTGTTGGA 58.149 39.130 23.38 23.38 46.08 3.53
425 3996 4.881850 AGAGTGTACTTCCAACTTTGTTGG 59.118 41.667 19.97 19.97 40.87 3.77
426 3997 6.436843 AAGAGTGTACTTCCAACTTTGTTG 57.563 37.500 3.69 3.69 0.00 3.33
427 3998 6.657541 TCAAAGAGTGTACTTCCAACTTTGTT 59.342 34.615 16.23 0.00 39.38 2.83
428 3999 6.177610 TCAAAGAGTGTACTTCCAACTTTGT 58.822 36.000 16.23 0.00 39.38 2.83
429 4000 6.677781 TCAAAGAGTGTACTTCCAACTTTG 57.322 37.500 0.00 0.00 39.53 2.77
430 4001 7.696992 TTTCAAAGAGTGTACTTCCAACTTT 57.303 32.000 0.00 0.00 0.00 2.66
431 4002 7.628580 GCTTTTCAAAGAGTGTACTTCCAACTT 60.629 37.037 3.35 0.00 38.28 2.66
432 4003 6.183360 GCTTTTCAAAGAGTGTACTTCCAACT 60.183 38.462 3.35 0.00 38.28 3.16
433 4004 5.971792 GCTTTTCAAAGAGTGTACTTCCAAC 59.028 40.000 3.35 0.00 38.28 3.77
434 4005 5.220777 CGCTTTTCAAAGAGTGTACTTCCAA 60.221 40.000 3.35 0.00 38.28 3.53
435 4006 4.272504 CGCTTTTCAAAGAGTGTACTTCCA 59.727 41.667 3.35 0.00 38.28 3.53
436 4007 4.319549 CCGCTTTTCAAAGAGTGTACTTCC 60.320 45.833 3.35 0.00 38.28 3.46
437 4008 4.510340 TCCGCTTTTCAAAGAGTGTACTTC 59.490 41.667 3.35 0.00 38.28 3.01
438 4009 4.448210 TCCGCTTTTCAAAGAGTGTACTT 58.552 39.130 3.35 0.00 38.28 2.24
439 4010 4.067972 TCCGCTTTTCAAAGAGTGTACT 57.932 40.909 3.35 0.00 38.28 2.73
440 4011 4.378459 CCATCCGCTTTTCAAAGAGTGTAC 60.378 45.833 3.35 0.00 38.28 2.90
441 4012 3.751175 CCATCCGCTTTTCAAAGAGTGTA 59.249 43.478 3.35 0.00 38.28 2.90
442 4013 2.554032 CCATCCGCTTTTCAAAGAGTGT 59.446 45.455 3.35 0.00 38.28 3.55
443 4014 2.813754 TCCATCCGCTTTTCAAAGAGTG 59.186 45.455 3.35 0.00 38.28 3.51
444 4015 3.077359 CTCCATCCGCTTTTCAAAGAGT 58.923 45.455 3.35 0.00 38.28 3.24
445 4016 3.077359 ACTCCATCCGCTTTTCAAAGAG 58.923 45.455 3.35 0.00 38.28 2.85
446 4017 3.140325 ACTCCATCCGCTTTTCAAAGA 57.860 42.857 3.35 0.00 38.28 2.52
447 4018 3.181506 GCTACTCCATCCGCTTTTCAAAG 60.182 47.826 0.00 0.00 39.03 2.77
448 4019 2.747446 GCTACTCCATCCGCTTTTCAAA 59.253 45.455 0.00 0.00 0.00 2.69
449 4020 2.027192 AGCTACTCCATCCGCTTTTCAA 60.027 45.455 0.00 0.00 0.00 2.69
450 4021 1.555075 AGCTACTCCATCCGCTTTTCA 59.445 47.619 0.00 0.00 0.00 2.69
451 4022 2.317530 AGCTACTCCATCCGCTTTTC 57.682 50.000 0.00 0.00 0.00 2.29
452 4023 2.500098 TGTAGCTACTCCATCCGCTTTT 59.500 45.455 23.84 0.00 34.14 2.27
453 4024 2.101582 CTGTAGCTACTCCATCCGCTTT 59.898 50.000 23.84 0.00 34.14 3.51
454 4025 1.683917 CTGTAGCTACTCCATCCGCTT 59.316 52.381 23.84 0.00 34.14 4.68
455 4026 1.323412 CTGTAGCTACTCCATCCGCT 58.677 55.000 23.84 0.00 36.56 5.52
456 4027 1.033574 ACTGTAGCTACTCCATCCGC 58.966 55.000 23.84 0.00 0.00 5.54
457 4028 3.478509 ACTACTGTAGCTACTCCATCCG 58.521 50.000 23.84 8.92 0.00 4.18
458 4029 8.810990 ATTATACTACTGTAGCTACTCCATCC 57.189 38.462 23.84 0.00 31.51 3.51
461 4032 9.175312 GCATATTATACTACTGTAGCTACTCCA 57.825 37.037 23.84 8.31 31.51 3.86
462 4033 9.175312 TGCATATTATACTACTGTAGCTACTCC 57.825 37.037 23.84 0.00 31.51 3.85
463 4034 9.991388 GTGCATATTATACTACTGTAGCTACTC 57.009 37.037 23.84 0.00 31.51 2.59
464 4035 8.958506 GGTGCATATTATACTACTGTAGCTACT 58.041 37.037 23.84 8.10 31.51 2.57
465 4036 8.958506 AGGTGCATATTATACTACTGTAGCTAC 58.041 37.037 17.30 17.30 30.35 3.58
467 4038 8.958506 GTAGGTGCATATTATACTACTGTAGCT 58.041 37.037 14.55 5.38 35.15 3.32
468 4039 8.737175 TGTAGGTGCATATTATACTACTGTAGC 58.263 37.037 14.55 0.00 33.73 3.58
470 4041 9.577222 TGTGTAGGTGCATATTATACTACTGTA 57.423 33.333 0.00 0.00 33.73 2.74
471 4042 8.358148 GTGTGTAGGTGCATATTATACTACTGT 58.642 37.037 0.00 0.00 33.73 3.55
472 4043 8.357402 TGTGTGTAGGTGCATATTATACTACTG 58.643 37.037 0.00 0.00 33.73 2.74
473 4044 8.358148 GTGTGTGTAGGTGCATATTATACTACT 58.642 37.037 0.00 0.00 33.73 2.57
474 4045 8.139350 TGTGTGTGTAGGTGCATATTATACTAC 58.861 37.037 0.00 0.00 33.32 2.73
491 4062 6.978659 TGAAACAAACTTTTTGTGTGTGTGTA 59.021 30.769 5.09 0.00 45.78 2.90
715 7232 6.056428 AGAAAACAACGTCTGGAATTGTAC 57.944 37.500 0.00 0.00 35.54 2.90
721 7238 3.558418 GCTGTAGAAAACAACGTCTGGAA 59.442 43.478 0.00 0.00 37.74 3.53
818 7340 6.656902 AGGACAGCATATATATTGTGGGATG 58.343 40.000 5.04 0.44 0.00 3.51
866 7503 2.041755 GGGCTGCTATTTATAGGCCCTT 59.958 50.000 20.27 0.00 46.15 3.95
931 7614 4.210955 GTGCTAGCTTCTTGTATCTGATGC 59.789 45.833 17.23 0.00 34.77 3.91
1277 7999 1.411977 TGTGTGGCAATTTGGTTGAGG 59.588 47.619 0.00 0.00 40.37 3.86
1285 8012 1.714541 TCCCATGTGTGTGGCAATTT 58.285 45.000 0.00 0.00 37.96 1.82
1286 8013 1.551430 CATCCCATGTGTGTGGCAATT 59.449 47.619 0.00 0.00 37.96 2.32
1288 8015 1.534336 GCATCCCATGTGTGTGGCAA 61.534 55.000 0.00 0.00 37.96 4.52
1289 8016 1.978080 GCATCCCATGTGTGTGGCA 60.978 57.895 0.00 0.00 37.96 4.92
1290 8017 1.660560 GAGCATCCCATGTGTGTGGC 61.661 60.000 0.00 0.00 37.96 5.01
1291 8018 0.034767 AGAGCATCCCATGTGTGTGG 60.035 55.000 0.00 0.00 39.05 4.17
1292 8019 1.092348 CAGAGCATCCCATGTGTGTG 58.908 55.000 0.00 0.00 33.66 3.82
1293 8020 0.679002 GCAGAGCATCCCATGTGTGT 60.679 55.000 0.00 0.00 33.66 3.72
1294 8021 0.393944 AGCAGAGCATCCCATGTGTG 60.394 55.000 0.00 0.00 33.66 3.82
1301 8028 0.249826 GCAGACTAGCAGAGCATCCC 60.250 60.000 0.00 0.00 33.66 3.85
1310 8037 4.808414 ACATGTTAGAAGCAGACTAGCA 57.192 40.909 0.00 0.00 36.05 3.49
1311 8038 6.147821 TGAAAACATGTTAGAAGCAGACTAGC 59.852 38.462 12.39 0.00 0.00 3.42
1312 8039 7.386299 ACTGAAAACATGTTAGAAGCAGACTAG 59.614 37.037 22.03 0.00 0.00 2.57
1313 8040 7.217200 ACTGAAAACATGTTAGAAGCAGACTA 58.783 34.615 22.03 0.00 0.00 2.59
1314 8041 6.058183 ACTGAAAACATGTTAGAAGCAGACT 58.942 36.000 22.03 7.61 0.00 3.24
1315 8042 6.017934 TGACTGAAAACATGTTAGAAGCAGAC 60.018 38.462 22.03 18.31 0.00 3.51
1316 8043 6.054941 TGACTGAAAACATGTTAGAAGCAGA 58.945 36.000 22.03 7.61 0.00 4.26
1317 8044 6.017605 ACTGACTGAAAACATGTTAGAAGCAG 60.018 38.462 12.39 18.60 0.00 4.24
1340 8079 0.108138 GTCATGCGTGGCCTCTAACT 60.108 55.000 3.32 0.00 0.00 2.24
1341 8080 1.421410 CGTCATGCGTGGCCTCTAAC 61.421 60.000 3.32 0.00 35.54 2.34
1342 8081 1.153647 CGTCATGCGTGGCCTCTAA 60.154 57.895 3.32 0.00 35.54 2.10
1343 8082 2.049767 TCGTCATGCGTGGCCTCTA 61.050 57.895 3.32 0.00 42.13 2.43
1344 8083 3.381983 TCGTCATGCGTGGCCTCT 61.382 61.111 3.32 0.00 42.13 3.69
1345 8084 3.188786 GTCGTCATGCGTGGCCTC 61.189 66.667 3.32 0.00 42.13 4.70
1346 8085 3.695606 AGTCGTCATGCGTGGCCT 61.696 61.111 3.32 0.00 42.13 5.19
1347 8086 3.490759 CAGTCGTCATGCGTGGCC 61.491 66.667 4.63 0.00 42.13 5.36
1352 8235 3.490759 GGTGCCAGTCGTCATGCG 61.491 66.667 3.55 3.55 43.01 4.73
1378 8261 8.289618 GTGTCTACAATTAAGCAGTTTGAATCA 58.710 33.333 0.00 0.00 0.00 2.57
1379 8262 7.750903 GGTGTCTACAATTAAGCAGTTTGAATC 59.249 37.037 0.00 0.00 0.00 2.52
1380 8263 7.309194 GGGTGTCTACAATTAAGCAGTTTGAAT 60.309 37.037 0.00 0.00 0.00 2.57
1381 8264 6.016610 GGGTGTCTACAATTAAGCAGTTTGAA 60.017 38.462 0.00 0.00 0.00 2.69
1398 8289 1.080638 AAATTGGGCCAGGGTGTCTA 58.919 50.000 6.23 0.00 0.00 2.59
1401 8292 1.684869 CGATAAATTGGGCCAGGGTGT 60.685 52.381 6.23 0.00 0.00 4.16
1425 8316 9.230122 TGTCTGATTGTGCTAAGATTAATTGAA 57.770 29.630 0.00 0.00 0.00 2.69
1454 11201 4.959839 AGCTTTTGTTTTGGAAGTAGGGAA 59.040 37.500 0.00 0.00 0.00 3.97
1503 11573 6.241645 AGTCTATGAAAAAGCCTTGTAAGCT 58.758 36.000 0.00 0.00 44.19 3.74
1504 11574 6.502136 AGTCTATGAAAAAGCCTTGTAAGC 57.498 37.500 0.00 0.00 0.00 3.09
1509 11606 5.403466 GCACAAAGTCTATGAAAAAGCCTTG 59.597 40.000 0.00 0.00 0.00 3.61
1511 11609 4.584325 TGCACAAAGTCTATGAAAAAGCCT 59.416 37.500 0.00 0.00 0.00 4.58
1512 11610 4.870363 TGCACAAAGTCTATGAAAAAGCC 58.130 39.130 0.00 0.00 0.00 4.35
1514 11612 5.766222 AGCTGCACAAAGTCTATGAAAAAG 58.234 37.500 1.02 0.00 0.00 2.27
1520 11618 2.417933 GTGGAGCTGCACAAAGTCTATG 59.582 50.000 30.84 0.00 0.00 2.23
1526 11624 1.882912 TAGTGTGGAGCTGCACAAAG 58.117 50.000 38.03 0.00 38.02 2.77
1548 11646 4.148128 TGGGTGAATGTTTGTGCAAATT 57.852 36.364 0.46 0.00 32.36 1.82
1551 11649 2.499289 AGTTGGGTGAATGTTTGTGCAA 59.501 40.909 0.00 0.00 0.00 4.08
1552 11650 2.106566 AGTTGGGTGAATGTTTGTGCA 58.893 42.857 0.00 0.00 0.00 4.57
1553 11651 2.888834 AGTTGGGTGAATGTTTGTGC 57.111 45.000 0.00 0.00 0.00 4.57
1558 11658 2.299867 GGCATGAAGTTGGGTGAATGTT 59.700 45.455 0.00 0.00 0.00 2.71
1572 11677 5.252547 TGCTTTGTTCTATGTAGGCATGAA 58.747 37.500 0.00 0.00 36.58 2.57
1611 11716 8.704668 ACATGTACTCAAATAGTGTGGATGATA 58.295 33.333 0.00 0.00 39.39 2.15
1615 11720 9.905713 AAATACATGTACTCAAATAGTGTGGAT 57.094 29.630 7.96 0.00 39.39 3.41
1634 11739 9.561069 AACTCTGAAGTTTGTACAGAAATACAT 57.439 29.630 0.00 0.00 43.28 2.29
1654 11759 7.038048 TGCACTGTAAGATTATCTGAACTCTG 58.962 38.462 0.00 0.00 37.43 3.35
1668 11773 3.808728 AGAAAGCACTTGCACTGTAAGA 58.191 40.909 13.25 0.00 45.16 2.10
1719 11826 0.947244 CTTTGTCCACTGTCCACTGC 59.053 55.000 0.00 0.00 0.00 4.40
1732 11853 8.819643 AGAGATCTAGTTTGTACAACTTTGTC 57.180 34.615 8.07 3.21 42.35 3.18
1846 12135 7.773690 ACAACATAGAGACAAACTTAACCTTGT 59.226 33.333 0.00 0.00 38.46 3.16
1977 12270 1.676967 GCAAGAAGCCTCCCAGTGG 60.677 63.158 0.63 0.63 37.23 4.00
2027 12320 2.292521 ACAGTATTGAGCCTCTCCTGGA 60.293 50.000 0.00 0.00 0.00 3.86
2054 12347 3.384146 TGCACCACATCTTTGTTGTTCAT 59.616 39.130 0.00 0.00 32.34 2.57
2072 12365 1.753956 GTGTCGGTGAATTTGTGCAC 58.246 50.000 10.75 10.75 0.00 4.57
2112 12405 2.986050 TCACTACAAGAGAAGGGGGTT 58.014 47.619 0.00 0.00 0.00 4.11
2113 12406 2.638363 GTTCACTACAAGAGAAGGGGGT 59.362 50.000 0.00 0.00 0.00 4.95
2121 12414 5.601662 TGTCCTCAAAGTTCACTACAAGAG 58.398 41.667 0.00 0.00 0.00 2.85
2162 12455 2.021380 GTTATTCCACTGCGCGCG 59.979 61.111 28.44 28.44 0.00 6.86
2163 12456 1.226018 GTGTTATTCCACTGCGCGC 60.226 57.895 27.26 27.26 32.50 6.86
2164 12457 0.515127 TTGTGTTATTCCACTGCGCG 59.485 50.000 0.00 0.00 36.30 6.86
2165 12458 1.729149 GCTTGTGTTATTCCACTGCGC 60.729 52.381 0.00 0.00 36.30 6.09
2166 12459 1.535028 TGCTTGTGTTATTCCACTGCG 59.465 47.619 0.00 0.00 37.88 5.18
2184 12477 5.119931 TCCTTTTCACATGTGTATGTTGC 57.880 39.130 24.63 0.00 45.01 4.17


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

AutoCloner maintained by Alex Coulton.