Multiple sequence alignment - TraesCS2A01G388000

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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 TraesCS2A01G388000 chr2A 100.000 6235 0 0 1 6235 634598247 634604481 0.000000e+00 11514.0
1 TraesCS2A01G388000 chr2A 95.172 1015 40 7 2743 3751 634600153 634601164 0.000000e+00 1594.0
2 TraesCS2A01G388000 chr2A 95.172 1015 40 7 1907 2918 634600989 634601997 0.000000e+00 1594.0
3 TraesCS2A01G388000 chr2A 85.743 996 100 29 2986 3955 634098640 634099619 0.000000e+00 1014.0
4 TraesCS2A01G388000 chr2A 85.550 955 115 16 5062 6006 634104736 634105677 0.000000e+00 977.0
5 TraesCS2A01G388000 chr2A 84.935 843 94 22 2151 2979 634098640 634099463 0.000000e+00 822.0
6 TraesCS2A01G388000 chr2A 83.810 525 54 15 824 1318 634091433 634091956 2.630000e-128 470.0
7 TraesCS2A01G388000 chr2A 86.376 367 42 8 430 792 634091003 634091365 1.630000e-105 394.0
8 TraesCS2A01G388000 chr2A 86.647 337 36 8 4231 4563 634601432 634601763 1.280000e-96 364.0
9 TraesCS2A01G388000 chr2A 86.647 337 36 8 3186 3517 634602477 634602809 1.280000e-96 364.0
10 TraesCS2A01G388000 chr2A 86.136 339 35 10 4231 4563 634600597 634600929 7.690000e-94 355.0
11 TraesCS2A01G388000 chr2A 86.136 339 35 10 2351 2683 634602477 634602809 7.690000e-94 355.0
12 TraesCS2A01G388000 chr2A 80.249 481 64 14 1329 1806 634092234 634092686 3.600000e-87 333.0
13 TraesCS2A01G388000 chr2A 86.047 301 34 5 1847 2144 634098248 634098543 3.630000e-82 316.0
14 TraesCS2A01G388000 chr2A 81.361 338 44 14 4231 4563 634098839 634099162 2.230000e-64 257.0
15 TraesCS2A01G388000 chr2A 82.812 192 25 6 3577 3763 634600153 634600341 1.390000e-36 165.0
16 TraesCS2A01G388000 chr2A 82.812 192 25 6 1907 2095 634601823 634602009 1.390000e-36 165.0
17 TraesCS2A01G388000 chr2B 90.955 2399 111 29 432 2797 575115001 575117326 0.000000e+00 3131.0
18 TraesCS2A01G388000 chr2B 91.527 1369 75 13 4898 6235 575133624 575134982 0.000000e+00 1847.0
19 TraesCS2A01G388000 chr2B 92.111 900 47 12 2743 3631 575116440 575117326 0.000000e+00 1247.0
20 TraesCS2A01G388000 chr2B 91.019 913 50 10 427 1318 574708512 574709413 0.000000e+00 1203.0
21 TraesCS2A01G388000 chr2B 85.702 1161 141 17 4899 6044 574712152 574713302 0.000000e+00 1201.0
22 TraesCS2A01G388000 chr2B 85.290 673 70 19 2986 3654 574663995 574664642 0.000000e+00 667.0
23 TraesCS2A01G388000 chr2B 84.718 674 73 17 2151 2820 574663995 574664642 0.000000e+00 647.0
24 TraesCS2A01G388000 chr2B 78.936 940 131 28 926 1837 574661022 574661922 1.510000e-160 577.0
25 TraesCS2A01G388000 chr2B 95.775 213 9 0 1 213 574708200 574708412 1.660000e-90 344.0
26 TraesCS2A01G388000 chr2B 94.949 198 9 1 4715 4912 575117382 575117578 6.070000e-80 309.0
27 TraesCS2A01G388000 chr2B 91.748 206 17 0 4617 4822 574711945 574712150 2.840000e-73 287.0
28 TraesCS2A01G388000 chr2B 89.535 172 15 3 622 792 574660667 574660836 1.360000e-51 215.0
29 TraesCS2A01G388000 chr2B 87.356 174 21 1 4391 4563 574711754 574711927 1.370000e-46 198.0
30 TraesCS2A01G388000 chr2B 89.706 136 14 0 301 436 136443283 136443148 2.310000e-39 174.0
31 TraesCS2A01G388000 chr2B 92.135 89 7 0 213 301 574708441 574708529 6.560000e-25 126.0
32 TraesCS2A01G388000 chr2B 91.549 71 6 0 4267 4337 574711664 574711734 1.430000e-16 99.0
33 TraesCS2A01G388000 chr2D 95.211 1566 53 4 4583 6129 490645193 490646755 0.000000e+00 2457.0
34 TraesCS2A01G388000 chr2D 90.814 1437 66 23 430 1840 490618252 490619648 0.000000e+00 1862.0
35 TraesCS2A01G388000 chr2D 94.243 1216 53 11 2743 3955 490619786 490620987 0.000000e+00 1842.0
36 TraesCS2A01G388000 chr2D 95.459 1079 33 10 1841 2918 490619719 490620782 0.000000e+00 1707.0
37 TraesCS2A01G388000 chr2D 87.917 1200 130 12 4617 5805 490569531 490570726 0.000000e+00 1399.0
38 TraesCS2A01G388000 chr2D 87.665 1062 119 9 4617 5669 490643071 490644129 0.000000e+00 1225.0
39 TraesCS2A01G388000 chr2D 86.061 990 104 23 2986 3955 490567981 490568956 0.000000e+00 1033.0
40 TraesCS2A01G388000 chr2D 95.230 587 21 2 3982 4568 490644626 490645205 0.000000e+00 922.0
41 TraesCS2A01G388000 chr2D 85.459 839 93 20 2151 2979 490567981 490568800 0.000000e+00 846.0
42 TraesCS2A01G388000 chr2D 95.662 461 17 2 3468 3927 490644168 490644626 0.000000e+00 737.0
43 TraesCS2A01G388000 chr2D 85.524 525 43 13 824 1318 490564809 490565330 9.270000e-143 518.0
44 TraesCS2A01G388000 chr2D 94.056 286 13 3 2633 2918 490644168 490644449 1.240000e-116 431.0
45 TraesCS2A01G388000 chr2D 85.924 341 40 8 4231 4567 490620218 490620554 2.140000e-94 357.0
46 TraesCS2A01G388000 chr2D 84.367 371 46 11 430 792 490564375 490564741 2.760000e-93 353.0
47 TraesCS2A01G388000 chr2D 84.444 360 40 7 3173 3530 490130705 490130360 2.150000e-89 340.0
48 TraesCS2A01G388000 chr2D 80.162 494 58 14 1329 1815 490565608 490566068 3.600000e-87 333.0
49 TraesCS2A01G388000 chr2D 87.043 301 31 5 1847 2144 490567589 490567884 3.600000e-87 333.0
50 TraesCS2A01G388000 chr2D 83.747 363 38 13 2338 2696 490130705 490130360 2.170000e-84 324.0
51 TraesCS2A01G388000 chr2D 86.306 314 20 15 2986 3293 490569040 490569336 2.800000e-83 320.0
52 TraesCS2A01G388000 chr2D 81.658 398 58 13 5017 5405 490129425 490129034 3.630000e-82 316.0
53 TraesCS2A01G388000 chr2D 85.350 314 23 15 2151 2458 490569040 490569336 2.820000e-78 303.0
54 TraesCS2A01G388000 chr2D 80.896 335 48 11 4231 4563 490568180 490568500 3.730000e-62 250.0
55 TraesCS2A01G388000 chr2D 83.422 187 24 5 1912 2096 490620614 490620795 3.870000e-37 167.0
56 TraesCS2A01G388000 chr2D 82.353 187 26 5 1912 2096 490644281 490644462 8.370000e-34 156.0
57 TraesCS2A01G388000 chr2D 91.304 115 5 5 4459 4568 490642948 490643062 1.080000e-32 152.0
58 TraesCS2A01G388000 chr2D 91.818 110 3 3 4459 4563 490569405 490569513 1.400000e-31 148.0
59 TraesCS2A01G388000 chr2D 95.349 43 2 0 6186 6228 490647021 490647063 1.120000e-07 69.4
60 TraesCS2A01G388000 chr3A 93.893 131 8 0 301 431 102846077 102845947 1.370000e-46 198.0
61 TraesCS2A01G388000 chr5D 93.893 131 6 2 301 430 483564766 483564895 4.930000e-46 196.0
62 TraesCS2A01G388000 chr7D 92.969 128 9 0 301 428 589207928 589207801 2.970000e-43 187.0
63 TraesCS2A01G388000 chr1A 92.481 133 7 3 301 433 116699673 116699544 2.970000e-43 187.0
64 TraesCS2A01G388000 chr1A 91.791 134 8 3 301 434 135964574 135964444 3.840000e-42 183.0
65 TraesCS2A01G388000 chr5A 92.308 130 10 0 301 430 688666606 688666477 1.070000e-42 185.0
66 TraesCS2A01G388000 chr7B 91.538 130 11 0 301 430 615026281 615026410 4.970000e-41 180.0
67 TraesCS2A01G388000 chr7B 93.333 60 4 0 61 120 417058202 417058143 8.610000e-14 89.8
68 TraesCS2A01G388000 chr7B 96.078 51 2 0 61 111 640934372 640934422 4.010000e-12 84.2
69 TraesCS2A01G388000 chr1B 91.538 130 11 0 301 430 635435600 635435729 4.970000e-41 180.0
70 TraesCS2A01G388000 chr1B 98.039 51 1 0 61 111 4545816 4545866 8.610000e-14 89.8
71 TraesCS2A01G388000 chrUn 81.768 181 25 5 3177 3349 259673171 259672991 1.810000e-30 145.0


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 TraesCS2A01G388000 chr2A 634598247 634604481 6234 False 11514.000000 11514 100.000000 1 6235 1 chr2A.!!$F2 6234
1 TraesCS2A01G388000 chr2A 634104736 634105677 941 False 977.000000 977 85.550000 5062 6006 1 chr2A.!!$F1 944
2 TraesCS2A01G388000 chr2A 634600153 634602809 2656 False 619.500000 1594 87.691750 1907 4563 8 chr2A.!!$F5 2656
3 TraesCS2A01G388000 chr2A 634098248 634099619 1371 False 602.250000 1014 84.521500 1847 4563 4 chr2A.!!$F4 2716
4 TraesCS2A01G388000 chr2A 634091003 634092686 1683 False 399.000000 470 83.478333 430 1806 3 chr2A.!!$F3 1376
5 TraesCS2A01G388000 chr2B 575133624 575134982 1358 False 1847.000000 1847 91.527000 4898 6235 1 chr2B.!!$F1 1337
6 TraesCS2A01G388000 chr2B 575115001 575117578 2577 False 1562.333333 3131 92.671667 432 4912 3 chr2B.!!$F4 4480
7 TraesCS2A01G388000 chr2B 574660667 574664642 3975 False 526.500000 667 84.619750 622 3654 4 chr2B.!!$F2 3032
8 TraesCS2A01G388000 chr2B 574708200 574713302 5102 False 494.000000 1203 90.754857 1 6044 7 chr2B.!!$F3 6043
9 TraesCS2A01G388000 chr2D 490618252 490620987 2735 False 1187.000000 1862 89.972400 430 4567 5 chr2D.!!$F2 4137
10 TraesCS2A01G388000 chr2D 490642948 490647063 4115 False 768.675000 2457 92.103750 1912 6228 8 chr2D.!!$F3 4316
11 TraesCS2A01G388000 chr2D 490564375 490570726 6351 False 530.545455 1399 85.536636 430 5805 11 chr2D.!!$F1 5375
12 TraesCS2A01G388000 chr2D 490129034 490130705 1671 True 326.666667 340 83.283000 2338 5405 3 chr2D.!!$R1 3067

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
346 376 0.179142 GCCCGAACTCGTTCTACCTC 60.179 60.000 8.04 0.0 37.44 3.85 F
1340 1753 0.321653 CTGGTTCCACGGAAGAAGGG 60.322 60.000 0.00 0.0 34.49 3.95 F
1407 1838 1.075536 GGCTTTGGGAAGAAGGAGGAA 59.924 52.381 0.00 0.0 34.71 3.36 F
1685 2126 1.081892 CCGCATCTGGAAACACTCAG 58.918 55.000 0.00 0.0 35.60 3.35 F
1692 2133 1.159713 TGGAAACACTCAGCACTGCG 61.160 55.000 0.00 0.0 33.40 5.18 F
4741 7845 1.275416 TGGTCTAGGGAGGGAGGACTA 60.275 57.143 0.00 0.0 0.00 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1934 4256 1.286501 TTCCTGATGAATACACGCGC 58.713 50.000 5.73 0.0 0.00 6.86 R
4589 7693 8.113462 ACATTAGGAAAGGGTTGTAATATGTGT 58.887 33.333 0.00 0.0 0.00 3.72 R
4590 7694 8.519799 ACATTAGGAAAGGGTTGTAATATGTG 57.480 34.615 0.00 0.0 0.00 3.21 R
4924 8033 3.689347 AGATGCAAAGCACCATGAAGTA 58.311 40.909 0.00 0.0 43.04 2.24 R
5140 8286 0.307760 CTGGAAGCGCGACAAAAAGT 59.692 50.000 12.10 0.0 0.00 2.66 R
6169 9352 0.837940 AAACTAGGATCTTCGGGGGC 59.162 55.000 0.00 0.0 0.00 5.80 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 47 3.027412 TCAGTCTAATCAGTGAGAGGGC 58.973 50.000 0.00 0.00 0.00 5.19
93 94 1.066430 GCGAAGGGTGAGTCCATACAA 60.066 52.381 0.00 0.00 38.11 2.41
119 120 5.337330 CCAATCTCCTTACCGTCTGTTTAGT 60.337 44.000 0.00 0.00 0.00 2.24
168 169 4.202243 TGAAAAGGTTTTGAAGCATCAGGG 60.202 41.667 0.00 0.00 36.78 4.45
176 177 3.188880 TGAAGCATCAGGGGGATTTTT 57.811 42.857 0.00 0.00 32.57 1.94
253 283 2.513753 TGGCAACGGATGATTTTCAGT 58.486 42.857 0.00 0.00 42.51 3.41
254 284 3.680490 TGGCAACGGATGATTTTCAGTA 58.320 40.909 0.00 0.00 42.51 2.74
304 334 1.480789 TAGATTAGCACACCTGGCGA 58.519 50.000 0.00 0.00 36.08 5.54
305 335 0.613260 AGATTAGCACACCTGGCGAA 59.387 50.000 0.00 0.00 36.08 4.70
306 336 1.210478 AGATTAGCACACCTGGCGAAT 59.790 47.619 0.00 0.00 38.92 3.34
307 337 1.331756 GATTAGCACACCTGGCGAATG 59.668 52.381 0.00 0.00 36.84 2.67
308 338 1.305219 TTAGCACACCTGGCGAATGC 61.305 55.000 0.00 0.00 41.71 3.56
309 339 2.462125 TAGCACACCTGGCGAATGCA 62.462 55.000 12.67 0.00 45.35 3.96
310 340 2.872557 CACACCTGGCGAATGCAG 59.127 61.111 0.00 0.00 45.35 4.41
311 341 1.968017 CACACCTGGCGAATGCAGT 60.968 57.895 0.00 0.00 45.35 4.40
314 344 3.136123 CCTGGCGAATGCAGTGGG 61.136 66.667 0.00 0.00 45.35 4.61
315 345 2.360350 CTGGCGAATGCAGTGGGT 60.360 61.111 0.00 0.00 45.35 4.51
316 346 1.973281 CTGGCGAATGCAGTGGGTT 60.973 57.895 0.00 0.00 45.35 4.11
317 347 1.526575 CTGGCGAATGCAGTGGGTTT 61.527 55.000 0.00 0.00 45.35 3.27
318 348 1.212751 GGCGAATGCAGTGGGTTTC 59.787 57.895 0.00 0.00 45.35 2.78
319 349 1.244019 GGCGAATGCAGTGGGTTTCT 61.244 55.000 0.00 0.00 45.35 2.52
320 350 0.598065 GCGAATGCAGTGGGTTTCTT 59.402 50.000 0.00 0.00 42.15 2.52
321 351 1.666888 GCGAATGCAGTGGGTTTCTTG 60.667 52.381 0.00 0.00 42.15 3.02
322 352 1.068333 CGAATGCAGTGGGTTTCTTGG 60.068 52.381 0.00 0.00 0.00 3.61
323 353 0.681175 AATGCAGTGGGTTTCTTGGC 59.319 50.000 0.00 0.00 0.00 4.52
325 355 2.919494 GCAGTGGGTTTCTTGGCCG 61.919 63.158 0.00 0.00 0.00 6.13
326 356 1.528309 CAGTGGGTTTCTTGGCCGT 60.528 57.895 0.00 0.00 0.00 5.68
341 371 2.049433 CGTGCCCGAACTCGTTCT 60.049 61.111 8.04 0.00 37.44 3.01
342 372 1.210931 CGTGCCCGAACTCGTTCTA 59.789 57.895 8.04 0.00 37.44 2.10
344 374 0.735287 GTGCCCGAACTCGTTCTACC 60.735 60.000 8.04 0.00 37.44 3.18
345 375 0.896940 TGCCCGAACTCGTTCTACCT 60.897 55.000 8.04 0.00 37.44 3.08
346 376 0.179142 GCCCGAACTCGTTCTACCTC 60.179 60.000 8.04 0.00 37.44 3.85
347 377 1.461559 CCCGAACTCGTTCTACCTCT 58.538 55.000 8.04 0.00 37.44 3.69
350 380 3.500014 CCGAACTCGTTCTACCTCTTTC 58.500 50.000 8.04 0.00 37.44 2.62
351 381 3.500014 CGAACTCGTTCTACCTCTTTCC 58.500 50.000 8.04 0.00 37.44 3.13
352 382 3.672781 CGAACTCGTTCTACCTCTTTCCC 60.673 52.174 8.04 0.00 37.44 3.97
354 384 3.090790 ACTCGTTCTACCTCTTTCCCTC 58.909 50.000 0.00 0.00 0.00 4.30
356 386 3.354467 TCGTTCTACCTCTTTCCCTCTC 58.646 50.000 0.00 0.00 0.00 3.20
357 387 2.427812 CGTTCTACCTCTTTCCCTCTCC 59.572 54.545 0.00 0.00 0.00 3.71
358 388 3.715287 GTTCTACCTCTTTCCCTCTCCT 58.285 50.000 0.00 0.00 0.00 3.69
359 389 3.673543 TCTACCTCTTTCCCTCTCCTC 57.326 52.381 0.00 0.00 0.00 3.71
360 390 2.245287 TCTACCTCTTTCCCTCTCCTCC 59.755 54.545 0.00 0.00 0.00 4.30
361 391 1.097722 ACCTCTTTCCCTCTCCTCCT 58.902 55.000 0.00 0.00 0.00 3.69
362 392 1.273552 ACCTCTTTCCCTCTCCTCCTG 60.274 57.143 0.00 0.00 0.00 3.86
363 393 1.007721 CCTCTTTCCCTCTCCTCCTGA 59.992 57.143 0.00 0.00 0.00 3.86
365 395 1.433199 TCTTTCCCTCTCCTCCTGACA 59.567 52.381 0.00 0.00 0.00 3.58
366 396 2.045047 TCTTTCCCTCTCCTCCTGACAT 59.955 50.000 0.00 0.00 0.00 3.06
367 397 1.871418 TTCCCTCTCCTCCTGACATG 58.129 55.000 0.00 0.00 0.00 3.21
368 398 0.712979 TCCCTCTCCTCCTGACATGT 59.287 55.000 0.00 0.00 0.00 3.21
369 399 1.079490 TCCCTCTCCTCCTGACATGTT 59.921 52.381 0.00 0.00 0.00 2.71
370 400 1.912043 CCCTCTCCTCCTGACATGTTT 59.088 52.381 0.00 0.00 0.00 2.83
371 401 2.093235 CCCTCTCCTCCTGACATGTTTC 60.093 54.545 0.00 0.00 0.00 2.78
374 404 2.568956 TCTCCTCCTGACATGTTTCTGG 59.431 50.000 0.00 1.75 36.24 3.86
375 405 2.568956 CTCCTCCTGACATGTTTCTGGA 59.431 50.000 0.00 6.40 40.34 3.86
376 406 2.978978 TCCTCCTGACATGTTTCTGGAA 59.021 45.455 12.38 0.00 41.58 3.53
377 407 3.077359 CCTCCTGACATGTTTCTGGAAC 58.923 50.000 12.38 0.00 41.58 3.62
378 408 3.244700 CCTCCTGACATGTTTCTGGAACT 60.245 47.826 12.38 0.00 41.58 3.01
380 410 4.792068 TCCTGACATGTTTCTGGAACTTT 58.208 39.130 0.00 0.00 39.84 2.66
381 411 4.580167 TCCTGACATGTTTCTGGAACTTTG 59.420 41.667 0.00 1.18 39.84 2.77
382 412 4.339247 CCTGACATGTTTCTGGAACTTTGT 59.661 41.667 0.00 7.43 39.08 2.83
383 413 5.530915 CCTGACATGTTTCTGGAACTTTGTA 59.469 40.000 0.00 0.00 39.08 2.41
385 415 7.255590 CCTGACATGTTTCTGGAACTTTGTATT 60.256 37.037 0.00 0.00 39.08 1.89
387 417 8.474025 TGACATGTTTCTGGAACTTTGTATTTT 58.526 29.630 0.00 0.00 39.08 1.82
389 419 7.647715 ACATGTTTCTGGAACTTTGTATTTTCG 59.352 33.333 0.00 0.00 39.08 3.46
390 420 7.090953 TGTTTCTGGAACTTTGTATTTTCGT 57.909 32.000 0.00 0.00 39.08 3.85
391 421 7.540299 TGTTTCTGGAACTTTGTATTTTCGTT 58.460 30.769 0.00 0.00 39.08 3.85
392 422 7.698970 TGTTTCTGGAACTTTGTATTTTCGTTC 59.301 33.333 0.00 0.00 39.08 3.95
394 424 7.504924 TCTGGAACTTTGTATTTTCGTTCAT 57.495 32.000 0.00 0.00 36.57 2.57
395 425 7.936584 TCTGGAACTTTGTATTTTCGTTCATT 58.063 30.769 0.00 0.00 36.57 2.57
396 426 8.410141 TCTGGAACTTTGTATTTTCGTTCATTT 58.590 29.630 0.00 0.00 36.57 2.32
397 427 8.346476 TGGAACTTTGTATTTTCGTTCATTTG 57.654 30.769 0.00 0.00 36.57 2.32
398 428 7.043059 TGGAACTTTGTATTTTCGTTCATTTGC 60.043 33.333 0.00 0.00 36.57 3.68
400 430 7.763172 ACTTTGTATTTTCGTTCATTTGCAA 57.237 28.000 0.00 0.00 0.00 4.08
402 432 8.274939 ACTTTGTATTTTCGTTCATTTGCAATG 58.725 29.630 0.00 1.04 0.00 2.82
403 433 6.702972 TGTATTTTCGTTCATTTGCAATGG 57.297 33.333 0.00 0.00 0.00 3.16
405 435 6.925718 TGTATTTTCGTTCATTTGCAATGGAA 59.074 30.769 0.00 4.50 0.00 3.53
406 436 6.857777 ATTTTCGTTCATTTGCAATGGAAA 57.142 29.167 13.05 1.73 0.00 3.13
407 437 5.903764 TTTCGTTCATTTGCAATGGAAAG 57.096 34.783 13.05 14.37 0.00 2.62
408 438 3.911868 TCGTTCATTTGCAATGGAAAGG 58.088 40.909 18.95 5.54 0.00 3.11
409 439 2.995258 CGTTCATTTGCAATGGAAAGGG 59.005 45.455 11.58 4.05 0.00 3.95
411 441 2.618794 TCATTTGCAATGGAAAGGGGT 58.381 42.857 11.58 0.00 0.00 4.95
412 442 3.784178 TCATTTGCAATGGAAAGGGGTA 58.216 40.909 11.58 0.00 0.00 3.69
413 443 4.360889 TCATTTGCAATGGAAAGGGGTAT 58.639 39.130 11.58 0.00 0.00 2.73
414 444 5.523588 TCATTTGCAATGGAAAGGGGTATA 58.476 37.500 11.58 0.00 0.00 1.47
415 445 5.598005 TCATTTGCAATGGAAAGGGGTATAG 59.402 40.000 11.58 0.00 0.00 1.31
416 446 2.944129 TGCAATGGAAAGGGGTATAGC 58.056 47.619 0.00 0.00 0.00 2.97
417 447 2.239400 GCAATGGAAAGGGGTATAGCC 58.761 52.381 12.79 12.79 0.00 3.93
428 458 2.314323 GGTATAGCCCGGTTCGAAAA 57.686 50.000 0.00 0.00 0.00 2.29
451 481 2.472695 TTAGCGCACCTGTGATTTCT 57.527 45.000 11.47 0.00 0.00 2.52
578 635 1.398390 GCAGACCTACAATTTCCAGCG 59.602 52.381 0.00 0.00 0.00 5.18
755 817 2.726241 GCGTTCCAGAAAAATCAACTGC 59.274 45.455 0.00 0.00 0.00 4.40
877 994 4.530857 CCATCCCGACCGTCCAGC 62.531 72.222 0.00 0.00 0.00 4.85
1263 1409 2.616960 CGCCTGTACTTGAGTTGCATA 58.383 47.619 0.00 0.00 0.00 3.14
1340 1753 0.321653 CTGGTTCCACGGAAGAAGGG 60.322 60.000 0.00 0.00 34.49 3.95
1407 1838 1.075536 GGCTTTGGGAAGAAGGAGGAA 59.924 52.381 0.00 0.00 34.71 3.36
1474 1905 4.891727 CTCCCGTGGGCGATTCCG 62.892 72.222 0.00 0.00 41.33 4.30
1504 1935 2.465855 CGCAAAAGGTAAAACCGCTTT 58.534 42.857 0.00 0.00 44.90 3.51
1563 1996 1.536766 TGCAGAGCAAGCACATGTTAC 59.463 47.619 0.00 0.00 37.02 2.50
1595 2034 3.186119 GCGAACAGATTCAGAAGGAGAG 58.814 50.000 0.00 0.00 34.14 3.20
1685 2126 1.081892 CCGCATCTGGAAACACTCAG 58.918 55.000 0.00 0.00 35.60 3.35
1692 2133 1.159713 TGGAAACACTCAGCACTGCG 61.160 55.000 0.00 0.00 33.40 5.18
1815 2259 4.941263 GTGGGTAGACATGCAACATAAGAA 59.059 41.667 0.00 0.00 0.00 2.52
1934 4256 6.822170 GGAACTAAAAGTACTTAGGACCATGG 59.178 42.308 11.19 11.19 33.85 3.66
1935 4257 5.742063 ACTAAAAGTACTTAGGACCATGGC 58.258 41.667 13.04 4.47 33.85 4.40
4572 7676 8.812972 TCCTCTTATACATAATACACATCACCC 58.187 37.037 0.00 0.00 0.00 4.61
4573 7677 7.759886 CCTCTTATACATAATACACATCACCCG 59.240 40.741 0.00 0.00 0.00 5.28
4577 7681 4.265893 ACATAATACACATCACCCGCAAA 58.734 39.130 0.00 0.00 0.00 3.68
4578 7682 4.702612 ACATAATACACATCACCCGCAAAA 59.297 37.500 0.00 0.00 0.00 2.44
4579 7683 5.184096 ACATAATACACATCACCCGCAAAAA 59.816 36.000 0.00 0.00 0.00 1.94
4741 7845 1.275416 TGGTCTAGGGAGGGAGGACTA 60.275 57.143 0.00 0.00 0.00 2.59
4822 7926 4.020039 TGCTGATTTGGATGGAGCAAAATT 60.020 37.500 0.00 0.00 36.74 1.82
4872 7981 2.159653 ACGCTCGCTTTCATCACATTTC 60.160 45.455 0.00 0.00 0.00 2.17
5235 8384 5.180117 CCGCCTGAAAATGATCATAAGTAGG 59.820 44.000 9.04 14.87 0.00 3.18
5318 8467 8.485976 TCCTTTTAACTTGTTGTTTGGAATTG 57.514 30.769 0.00 0.00 39.89 2.32
5332 8481 8.100508 TGTTTGGAATTGTTCGAATACATACA 57.899 30.769 0.00 0.95 0.00 2.29
5431 8581 5.569355 TCTGAGTAATTGGAAAGATTGCCA 58.431 37.500 0.00 0.00 0.00 4.92
5461 8611 7.424803 TCAATTAGAAGAACATGGTTGTGTTG 58.575 34.615 0.00 0.00 42.08 3.33
5471 8621 2.953020 TGGTTGTGTTGCAGTTGTTTC 58.047 42.857 0.00 0.00 0.00 2.78
5600 8769 7.501559 CCTGATAAATCATTCTCTGTCCATTGT 59.498 37.037 0.00 0.00 36.02 2.71
5606 8775 5.875224 TCATTCTCTGTCCATTGTAAACCA 58.125 37.500 0.00 0.00 0.00 3.67
5739 8908 3.748048 ACAGATTGACCACGATTTGTCAG 59.252 43.478 0.00 0.00 42.05 3.51
5869 9040 3.039011 GTGAGAAACCAGGCTATAGGGA 58.961 50.000 1.04 0.00 0.00 4.20
5899 9070 3.510388 TTGCTAGGTTCTCTGTCATCG 57.490 47.619 0.00 0.00 0.00 3.84
6011 9182 5.807721 GCACATGGGCAAGGGTATCTTATAT 60.808 44.000 16.99 0.00 33.68 0.86
6065 9247 0.685097 ATGGTGTCCACGCAGTTAGT 59.315 50.000 0.00 0.00 41.61 2.24
6083 9265 5.010314 AGTTAGTGTCGATGTTGGTGTTCTA 59.990 40.000 0.00 0.00 0.00 2.10
6110 9292 4.886579 AGCTCCAAATGTCAACAAATTCC 58.113 39.130 0.00 0.00 0.00 3.01
6133 9316 1.612442 GTGGGTAGGGGTGCTGAGA 60.612 63.158 0.00 0.00 0.00 3.27
6145 9328 0.033920 TGCTGAGACATGCGACAACT 59.966 50.000 0.00 0.00 0.00 3.16
6146 9329 1.272212 TGCTGAGACATGCGACAACTA 59.728 47.619 0.00 0.00 0.00 2.24
6157 9340 5.294306 ACATGCGACAACTATTATCCACTTG 59.706 40.000 0.00 0.00 0.00 3.16
6158 9341 3.621268 TGCGACAACTATTATCCACTTGC 59.379 43.478 0.00 0.00 0.00 4.01
6159 9342 3.002348 GCGACAACTATTATCCACTTGCC 59.998 47.826 0.00 0.00 0.00 4.52
6160 9343 3.560068 CGACAACTATTATCCACTTGCCC 59.440 47.826 0.00 0.00 0.00 5.36
6161 9344 3.883489 GACAACTATTATCCACTTGCCCC 59.117 47.826 0.00 0.00 0.00 5.80
6162 9345 3.527665 ACAACTATTATCCACTTGCCCCT 59.472 43.478 0.00 0.00 0.00 4.79
6195 9587 3.702045 CCGAAGATCCTAGTTTGTCCTCT 59.298 47.826 0.00 0.00 0.00 3.69
6228 9620 4.569943 AGTTGCGATCTTGAAAAGCTCTA 58.430 39.130 0.00 0.00 45.70 2.43
6231 9623 2.869192 GCGATCTTGAAAAGCTCTAGGG 59.131 50.000 0.00 0.00 45.70 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
93 94 1.482593 CAGACGGTAAGGAGATTGGCT 59.517 52.381 0.00 0.00 0.00 4.75
119 120 7.788026 ACGGATATGGTAATCAAGTTGTCTTA 58.212 34.615 2.11 0.18 32.07 2.10
286 316 0.613260 TTCGCCAGGTGTGCTAATCT 59.387 50.000 0.00 0.00 0.00 2.40
290 320 1.745115 GCATTCGCCAGGTGTGCTA 60.745 57.895 8.10 0.00 33.25 3.49
291 321 3.058160 GCATTCGCCAGGTGTGCT 61.058 61.111 8.10 0.00 33.25 4.40
292 322 3.332493 CTGCATTCGCCAGGTGTGC 62.332 63.158 8.38 8.38 37.32 4.57
293 323 1.968017 ACTGCATTCGCCAGGTGTG 60.968 57.895 0.00 0.00 37.32 3.82
294 324 1.968017 CACTGCATTCGCCAGGTGT 60.968 57.895 0.00 0.00 37.32 4.16
295 325 2.693762 CCACTGCATTCGCCAGGTG 61.694 63.158 0.00 0.00 37.32 4.00
297 327 3.136123 CCCACTGCATTCGCCAGG 61.136 66.667 0.00 0.00 37.32 4.45
298 328 1.526575 AAACCCACTGCATTCGCCAG 61.527 55.000 0.00 0.00 37.32 4.85
300 330 1.212751 GAAACCCACTGCATTCGCC 59.787 57.895 0.00 0.00 37.32 5.54
304 334 0.681175 GCCAAGAAACCCACTGCATT 59.319 50.000 0.00 0.00 0.00 3.56
305 335 1.187567 GGCCAAGAAACCCACTGCAT 61.188 55.000 0.00 0.00 0.00 3.96
306 336 1.832167 GGCCAAGAAACCCACTGCA 60.832 57.895 0.00 0.00 0.00 4.41
307 337 2.919494 CGGCCAAGAAACCCACTGC 61.919 63.158 2.24 0.00 0.00 4.40
308 338 1.528309 ACGGCCAAGAAACCCACTG 60.528 57.895 2.24 0.00 0.00 3.66
309 339 1.528309 CACGGCCAAGAAACCCACT 60.528 57.895 2.24 0.00 0.00 4.00
310 340 3.039134 CACGGCCAAGAAACCCAC 58.961 61.111 2.24 0.00 0.00 4.61
311 341 2.909965 GCACGGCCAAGAAACCCA 60.910 61.111 2.24 0.00 0.00 4.51
323 353 2.203972 TAGAACGAGTTCGGGCACGG 62.204 60.000 9.32 0.00 43.97 4.94
325 355 0.735287 GGTAGAACGAGTTCGGGCAC 60.735 60.000 9.94 7.22 43.97 5.01
326 356 0.896940 AGGTAGAACGAGTTCGGGCA 60.897 55.000 9.94 0.00 43.97 5.36
329 359 3.500014 GAAAGAGGTAGAACGAGTTCGG 58.500 50.000 9.94 0.00 43.97 4.30
331 361 3.510753 AGGGAAAGAGGTAGAACGAGTTC 59.489 47.826 7.83 7.83 39.78 3.01
332 362 3.508426 AGGGAAAGAGGTAGAACGAGTT 58.492 45.455 0.00 0.00 0.00 3.01
333 363 3.090790 GAGGGAAAGAGGTAGAACGAGT 58.909 50.000 0.00 0.00 0.00 4.18
335 365 3.354467 GAGAGGGAAAGAGGTAGAACGA 58.646 50.000 0.00 0.00 0.00 3.85
337 367 3.702548 GAGGAGAGGGAAAGAGGTAGAAC 59.297 52.174 0.00 0.00 0.00 3.01
341 371 2.023888 CAGGAGGAGAGGGAAAGAGGTA 60.024 54.545 0.00 0.00 0.00 3.08
342 372 1.097722 AGGAGGAGAGGGAAAGAGGT 58.902 55.000 0.00 0.00 0.00 3.85
344 374 2.107366 GTCAGGAGGAGAGGGAAAGAG 58.893 57.143 0.00 0.00 0.00 2.85
345 375 1.433199 TGTCAGGAGGAGAGGGAAAGA 59.567 52.381 0.00 0.00 0.00 2.52
346 376 1.944177 TGTCAGGAGGAGAGGGAAAG 58.056 55.000 0.00 0.00 0.00 2.62
347 377 2.191400 CATGTCAGGAGGAGAGGGAAA 58.809 52.381 0.00 0.00 0.00 3.13
350 380 1.577736 AACATGTCAGGAGGAGAGGG 58.422 55.000 0.00 0.00 0.00 4.30
351 381 2.836981 AGAAACATGTCAGGAGGAGAGG 59.163 50.000 0.00 0.00 0.00 3.69
352 382 3.369261 CCAGAAACATGTCAGGAGGAGAG 60.369 52.174 0.00 0.00 0.00 3.20
354 384 2.568956 TCCAGAAACATGTCAGGAGGAG 59.431 50.000 0.00 0.00 30.33 3.69
356 386 3.077359 GTTCCAGAAACATGTCAGGAGG 58.923 50.000 0.00 0.00 34.94 4.30
357 387 4.013267 AGTTCCAGAAACATGTCAGGAG 57.987 45.455 0.00 0.00 40.56 3.69
358 388 4.437682 AAGTTCCAGAAACATGTCAGGA 57.562 40.909 0.00 1.42 40.56 3.86
359 389 4.339247 ACAAAGTTCCAGAAACATGTCAGG 59.661 41.667 0.00 0.00 40.56 3.86
360 390 5.505173 ACAAAGTTCCAGAAACATGTCAG 57.495 39.130 0.00 0.00 40.56 3.51
361 391 7.581213 AATACAAAGTTCCAGAAACATGTCA 57.419 32.000 0.00 0.00 39.46 3.58
362 392 8.871686 AAAATACAAAGTTCCAGAAACATGTC 57.128 30.769 0.00 0.00 39.46 3.06
363 393 7.647715 CGAAAATACAAAGTTCCAGAAACATGT 59.352 33.333 0.00 0.00 40.82 3.21
365 395 7.712797 ACGAAAATACAAAGTTCCAGAAACAT 58.287 30.769 0.00 0.00 40.56 2.71
366 396 7.090953 ACGAAAATACAAAGTTCCAGAAACA 57.909 32.000 0.00 0.00 40.56 2.83
367 397 7.698970 TGAACGAAAATACAAAGTTCCAGAAAC 59.301 33.333 0.00 0.00 40.08 2.78
368 398 7.763356 TGAACGAAAATACAAAGTTCCAGAAA 58.237 30.769 0.00 0.00 40.08 2.52
369 399 7.323049 TGAACGAAAATACAAAGTTCCAGAA 57.677 32.000 0.00 0.00 40.08 3.02
370 400 6.928979 TGAACGAAAATACAAAGTTCCAGA 57.071 33.333 0.00 0.00 40.08 3.86
371 401 8.479280 CAAATGAACGAAAATACAAAGTTCCAG 58.521 33.333 0.00 0.00 40.08 3.86
374 404 7.836512 TGCAAATGAACGAAAATACAAAGTTC 58.163 30.769 0.00 0.28 40.90 3.01
375 405 7.763172 TGCAAATGAACGAAAATACAAAGTT 57.237 28.000 0.00 0.00 0.00 2.66
376 406 7.763172 TTGCAAATGAACGAAAATACAAAGT 57.237 28.000 0.00 0.00 0.00 2.66
377 407 7.741216 CCATTGCAAATGAACGAAAATACAAAG 59.259 33.333 1.71 0.00 0.00 2.77
378 408 7.439356 TCCATTGCAAATGAACGAAAATACAAA 59.561 29.630 1.71 0.00 0.00 2.83
380 410 6.450545 TCCATTGCAAATGAACGAAAATACA 58.549 32.000 1.71 0.00 0.00 2.29
381 411 6.942886 TCCATTGCAAATGAACGAAAATAC 57.057 33.333 1.71 0.00 0.00 1.89
382 412 7.117523 CCTTTCCATTGCAAATGAACGAAAATA 59.882 33.333 1.71 0.00 0.00 1.40
383 413 6.073112 CCTTTCCATTGCAAATGAACGAAAAT 60.073 34.615 1.71 0.00 0.00 1.82
385 415 4.749099 CCTTTCCATTGCAAATGAACGAAA 59.251 37.500 1.71 7.24 0.00 3.46
387 417 3.305950 CCCTTTCCATTGCAAATGAACGA 60.306 43.478 1.71 0.00 0.00 3.85
389 419 3.244526 ACCCCTTTCCATTGCAAATGAAC 60.245 43.478 1.71 0.00 0.00 3.18
390 420 2.978278 ACCCCTTTCCATTGCAAATGAA 59.022 40.909 1.71 6.57 0.00 2.57
391 421 2.618794 ACCCCTTTCCATTGCAAATGA 58.381 42.857 1.71 0.00 0.00 2.57
392 422 4.758773 ATACCCCTTTCCATTGCAAATG 57.241 40.909 1.71 2.47 0.00 2.32
394 424 3.704061 GCTATACCCCTTTCCATTGCAAA 59.296 43.478 1.71 0.00 0.00 3.68
395 425 3.295973 GCTATACCCCTTTCCATTGCAA 58.704 45.455 0.00 0.00 0.00 4.08
396 426 2.424234 GGCTATACCCCTTTCCATTGCA 60.424 50.000 0.00 0.00 0.00 4.08
397 427 2.239400 GGCTATACCCCTTTCCATTGC 58.761 52.381 0.00 0.00 0.00 3.56
409 439 2.314323 TTTTCGAACCGGGCTATACC 57.686 50.000 6.32 0.00 37.93 2.73
411 441 3.891422 TCTTTTTCGAACCGGGCTATA 57.109 42.857 6.32 0.00 0.00 1.31
412 442 2.773993 TCTTTTTCGAACCGGGCTAT 57.226 45.000 6.32 0.00 0.00 2.97
413 443 2.773993 ATCTTTTTCGAACCGGGCTA 57.226 45.000 6.32 0.00 0.00 3.93
414 444 1.905637 AATCTTTTTCGAACCGGGCT 58.094 45.000 6.32 0.00 0.00 5.19
415 445 2.477357 GCTAATCTTTTTCGAACCGGGC 60.477 50.000 6.32 0.00 0.00 6.13
416 446 2.222953 CGCTAATCTTTTTCGAACCGGG 60.223 50.000 6.32 0.00 0.00 5.73
417 447 2.786700 GCGCTAATCTTTTTCGAACCGG 60.787 50.000 0.00 0.00 0.00 5.28
418 448 2.159761 TGCGCTAATCTTTTTCGAACCG 60.160 45.455 9.73 0.00 0.00 4.44
419 449 3.161306 GTGCGCTAATCTTTTTCGAACC 58.839 45.455 9.73 0.00 0.00 3.62
420 450 3.120304 AGGTGCGCTAATCTTTTTCGAAC 60.120 43.478 9.73 0.00 0.00 3.95
422 452 2.415168 CAGGTGCGCTAATCTTTTTCGA 59.585 45.455 9.73 0.00 0.00 3.71
423 453 2.159627 ACAGGTGCGCTAATCTTTTTCG 59.840 45.455 9.73 0.00 0.00 3.46
424 454 3.188460 TCACAGGTGCGCTAATCTTTTTC 59.812 43.478 9.73 0.00 0.00 2.29
425 455 3.146066 TCACAGGTGCGCTAATCTTTTT 58.854 40.909 9.73 0.00 0.00 1.94
426 456 2.778299 TCACAGGTGCGCTAATCTTTT 58.222 42.857 9.73 0.00 0.00 2.27
427 457 2.472695 TCACAGGTGCGCTAATCTTT 57.527 45.000 9.73 0.00 0.00 2.52
428 458 2.698855 ATCACAGGTGCGCTAATCTT 57.301 45.000 9.73 0.00 0.00 2.40
451 481 1.684869 GGTGCCAGCCCATTTTAGCTA 60.685 52.381 0.00 0.00 37.18 3.32
561 603 4.759516 TTTTCGCTGGAAATTGTAGGTC 57.240 40.909 0.00 0.00 41.54 3.85
562 604 5.469479 CATTTTTCGCTGGAAATTGTAGGT 58.531 37.500 0.00 0.00 41.54 3.08
563 605 4.864247 CCATTTTTCGCTGGAAATTGTAGG 59.136 41.667 0.00 0.00 41.54 3.18
564 606 4.864247 CCCATTTTTCGCTGGAAATTGTAG 59.136 41.667 0.00 0.00 41.54 2.74
566 608 3.663025 CCCATTTTTCGCTGGAAATTGT 58.337 40.909 0.00 0.00 41.54 2.71
578 635 0.968405 TCAGTGCCAGCCCATTTTTC 59.032 50.000 0.00 0.00 0.00 2.29
705 766 3.117776 TGGCAGTGCATCCAATAGAAGAT 60.118 43.478 18.61 0.00 0.00 2.40
794 867 7.997803 ACGGAATAGTACTCCAATCTACTTAGT 59.002 37.037 0.00 0.00 32.77 2.24
795 868 8.393671 ACGGAATAGTACTCCAATCTACTTAG 57.606 38.462 0.00 0.00 32.77 2.18
796 869 7.994911 TGACGGAATAGTACTCCAATCTACTTA 59.005 37.037 0.00 0.00 32.77 2.24
877 994 2.352805 GCCAGAGGGGAGTGTTGG 59.647 66.667 0.00 0.00 40.01 3.77
1239 1385 2.607187 CAACTCAAGTACAGGCGGTAG 58.393 52.381 0.00 0.00 31.13 3.18
1263 1409 2.035469 TGGCCATTCACCATGCGT 59.965 55.556 0.00 0.00 30.29 5.24
1340 1753 3.978571 GAAGCCGCTTCCTCCCCAC 62.979 68.421 20.63 0.00 34.71 4.61
1407 1838 2.941583 GCCACCTTCCCCTTCCCT 60.942 66.667 0.00 0.00 0.00 4.20
1504 1935 1.712056 TCAGTTGAGAGGGGAAACGA 58.288 50.000 0.00 0.00 0.00 3.85
1550 1983 6.925610 ACAGGTATATGTAACATGTGCTTG 57.074 37.500 0.00 0.00 40.09 4.01
1563 1996 5.049828 TGAATCTGTTCGCACAGGTATATG 58.950 41.667 15.25 0.00 44.25 1.78
1595 2034 5.422145 CACCATTTTTCCATCCATTCTTCC 58.578 41.667 0.00 0.00 0.00 3.46
1685 2126 6.102075 AAGAAATTCTTACCCACGCAGTGC 62.102 45.833 6.43 4.58 46.19 4.40
1692 2133 9.140286 GAAAAAGCATAAGAAATTCTTACCCAC 57.860 33.333 16.69 7.57 41.27 4.61
1859 4181 7.173218 ACATCATTTACGCTCATTGGTATAAGG 59.827 37.037 0.00 0.00 0.00 2.69
1872 4194 4.700268 TTGCATCAACATCATTTACGCT 57.300 36.364 0.00 0.00 0.00 5.07
1934 4256 1.286501 TTCCTGATGAATACACGCGC 58.713 50.000 5.73 0.00 0.00 6.86
1935 4257 5.651172 TTAATTCCTGATGAATACACGCG 57.349 39.130 3.53 3.53 42.97 6.01
4588 7692 9.621629 CATTAGGAAAGGGTTGTAATATGTGTA 57.378 33.333 0.00 0.00 0.00 2.90
4589 7693 8.113462 ACATTAGGAAAGGGTTGTAATATGTGT 58.887 33.333 0.00 0.00 0.00 3.72
4590 7694 8.519799 ACATTAGGAAAGGGTTGTAATATGTG 57.480 34.615 0.00 0.00 0.00 3.21
4872 7981 5.346551 TCGTATGTTGGATCACTAAACAACG 59.653 40.000 18.07 18.07 44.47 4.10
4924 8033 3.689347 AGATGCAAAGCACCATGAAGTA 58.311 40.909 0.00 0.00 43.04 2.24
5140 8286 0.307760 CTGGAAGCGCGACAAAAAGT 59.692 50.000 12.10 0.00 0.00 2.66
5235 8384 7.256286 TCCAAAAAGAGACGTTACTCTATAGC 58.744 38.462 7.17 0.00 45.08 2.97
5318 8467 9.811655 CAACATATCCATTGTATGTATTCGAAC 57.188 33.333 0.00 0.00 40.80 3.95
5332 8481 4.771114 TCCGAGAACCAACATATCCATT 57.229 40.909 0.00 0.00 0.00 3.16
5431 8581 7.287696 ACAACCATGTTCTTCTAATTGAAAGGT 59.712 33.333 0.00 0.00 35.91 3.50
5461 8611 6.830114 ATAGTCGCTTATAGAAACAACTGC 57.170 37.500 0.00 0.00 0.00 4.40
5471 8621 5.855045 ACCTCCCAAAATAGTCGCTTATAG 58.145 41.667 0.00 0.00 0.00 1.31
5600 8769 6.215431 TGGAAAGAGAGGAATCATCTGGTTTA 59.785 38.462 0.80 0.00 0.00 2.01
5606 8775 3.136260 GCCTGGAAAGAGAGGAATCATCT 59.864 47.826 0.00 0.00 0.00 2.90
5821 8992 4.100344 TGCTTACCGATAAATGAGGCACTA 59.900 41.667 0.00 0.00 41.55 2.74
5834 9005 5.116882 GGTTTCTCACTTATGCTTACCGAT 58.883 41.667 0.00 0.00 0.00 4.18
5899 9070 1.670811 CGTGTTGCATGGTAGAATCCC 59.329 52.381 0.00 0.00 0.00 3.85
5953 9124 3.310141 CCTGGGAAGGATTGGAAGGAAAT 60.310 47.826 0.00 0.00 0.00 2.17
6011 9182 9.137459 TCAGGTTAATTCTTGACCAAATTTGTA 57.863 29.630 16.73 0.60 41.47 2.41
6059 9241 3.746045 ACACCAACATCGACACTAACT 57.254 42.857 0.00 0.00 0.00 2.24
6065 9247 3.319689 TCTGTAGAACACCAACATCGACA 59.680 43.478 0.00 0.00 0.00 4.35
6083 9265 3.554934 TGTTGACATTTGGAGCTTCTGT 58.445 40.909 0.00 0.00 0.00 3.41
6110 9292 4.096003 CACCCCTACCCACTGCGG 62.096 72.222 0.00 0.00 0.00 5.69
6133 9316 5.023533 AGTGGATAATAGTTGTCGCATGT 57.976 39.130 0.00 0.00 0.00 3.21
6145 9328 2.062636 GGGAGGGGCAAGTGGATAATA 58.937 52.381 0.00 0.00 0.00 0.98
6146 9329 0.853530 GGGAGGGGCAAGTGGATAAT 59.146 55.000 0.00 0.00 0.00 1.28
6167 9350 2.523412 TAGGATCTTCGGGGGCGG 60.523 66.667 0.00 0.00 0.00 6.13
6169 9352 0.837940 AAACTAGGATCTTCGGGGGC 59.162 55.000 0.00 0.00 0.00 5.80
6174 9357 4.993029 AGAGGACAAACTAGGATCTTCG 57.007 45.455 0.00 0.00 0.00 3.79
6176 9359 7.186268 AGAACTAGAGGACAAACTAGGATCTT 58.814 38.462 0.00 0.00 39.97 2.40
6179 9362 6.381707 GGAAGAACTAGAGGACAAACTAGGAT 59.618 42.308 0.00 0.00 39.97 3.24
6195 9587 5.417894 TCAAGATCGCAACTAGGAAGAACTA 59.582 40.000 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.