Multiple sequence alignment - TraesCS2A01G101200

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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 TraesCS2A01G101200 chr2A 100.000 3085 0 0 1 3085 54138933 54142017 0.000000e+00 5698
1 TraesCS2A01G101200 chr2A 90.351 342 32 1 2421 2761 54141180 54141521 6.070000e-122 448
2 TraesCS2A01G101200 chr2A 90.351 342 32 1 2248 2589 54141353 54141693 6.070000e-122 448
3 TraesCS2A01G101200 chr2A 89.614 337 29 5 4 335 739469864 739469529 1.020000e-114 424
4 TraesCS2A01G101200 chr2A 91.124 169 14 1 2594 2761 54141180 54141348 8.610000e-56 228
5 TraesCS2A01G101200 chr2A 91.124 169 14 1 2248 2416 54141526 54141693 8.610000e-56 228
6 TraesCS2A01G101200 chr2A 88.000 125 12 2 2095 2218 54113213 54113335 8.920000e-31 145
7 TraesCS2A01G101200 chr2D 92.342 2037 98 27 342 2338 52958825 52960843 0.000000e+00 2844
8 TraesCS2A01G101200 chr2D 94.357 762 41 2 2325 3085 52960865 52961625 0.000000e+00 1168
9 TraesCS2A01G101200 chr2D 80.448 1161 147 36 945 2058 52851966 52853093 0.000000e+00 813
10 TraesCS2A01G101200 chr2D 79.613 1241 158 40 864 2059 52646829 52648019 0.000000e+00 802
11 TraesCS2A01G101200 chr2D 79.372 1115 146 38 997 2059 53649010 53650092 0.000000e+00 708
12 TraesCS2A01G101200 chr2D 92.669 341 24 1 2249 2589 52960962 52961301 9.940000e-135 490
13 TraesCS2A01G101200 chr2D 92.453 265 19 1 2498 2761 52960865 52961129 8.080000e-101 377
14 TraesCS2A01G101200 chr2D 92.262 168 12 1 2249 2416 52961135 52961301 1.430000e-58 237
15 TraesCS2A01G101200 chr2D 87.023 131 12 3 2095 2224 52853395 52853521 3.210000e-30 143
16 TraesCS2A01G101200 chr2B 90.905 2100 112 20 400 2476 83210579 83212622 0.000000e+00 2747
17 TraesCS2A01G101200 chr2B 81.617 1039 117 31 1001 2017 82361285 82362271 0.000000e+00 793
18 TraesCS2A01G101200 chr2B 90.485 557 40 7 2521 3073 83212954 83213501 0.000000e+00 723
19 TraesCS2A01G101200 chr2B 81.642 877 122 20 953 1807 82851630 82852489 0.000000e+00 691
20 TraesCS2A01G101200 chr2B 79.717 991 126 32 1103 2059 82714082 82715031 0.000000e+00 647
21 TraesCS2A01G101200 chr2B 82.391 619 98 10 1016 1632 83369466 83368857 2.110000e-146 529
22 TraesCS2A01G101200 chr2B 82.810 605 77 19 981 1565 83955423 83954826 1.640000e-142 516
23 TraesCS2A01G101200 chr2B 81.643 621 99 13 1016 1632 83324971 83324362 4.590000e-138 501
24 TraesCS2A01G101200 chr2B 76.956 946 168 24 945 1888 83416302 83415405 7.680000e-136 494
25 TraesCS2A01G101200 chr2B 89.244 344 30 7 1 340 557240567 557240907 1.020000e-114 424
26 TraesCS2A01G101200 chr2B 90.476 168 16 0 2249 2416 83213020 83213187 4.000000e-54 222
27 TraesCS2A01G101200 chr2B 89.349 169 16 2 2594 2761 83212395 83212562 8.670000e-51 211
28 TraesCS2A01G101200 chr2B 80.894 246 45 2 1660 1905 83413348 83413105 3.140000e-45 193
29 TraesCS2A01G101200 chr2B 89.423 104 6 2 2123 2225 82715349 82715448 3.230000e-25 126
30 TraesCS2A01G101200 chr3B 90.909 341 26 5 1 339 820864034 820864371 1.300000e-123 453
31 TraesCS2A01G101200 chr4B 91.743 327 24 3 16 340 5936396 5936071 4.690000e-123 451
32 TraesCS2A01G101200 chr7A 90.828 338 25 5 4 340 637153679 637153347 6.070000e-122 448
33 TraesCS2A01G101200 chr1D 90.149 335 29 4 1 334 2688152 2688483 1.700000e-117 433
34 TraesCS2A01G101200 chr4A 89.086 339 34 3 4 340 535240088 535239751 4.760000e-113 418
35 TraesCS2A01G101200 chr4A 88.953 344 31 7 1 340 616719819 616720159 4.760000e-113 418
36 TraesCS2A01G101200 chr7B 88.791 339 34 4 4 340 547260601 547260265 2.210000e-111 412


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 TraesCS2A01G101200 chr2A 54138933 54142017 3084 False 1410.00 5698 92.59000 1 3085 5 chr2A.!!$F2 3084
1 TraesCS2A01G101200 chr2D 52958825 52961625 2800 False 1023.20 2844 92.81660 342 3085 5 chr2D.!!$F4 2743
2 TraesCS2A01G101200 chr2D 52646829 52648019 1190 False 802.00 802 79.61300 864 2059 1 chr2D.!!$F1 1195
3 TraesCS2A01G101200 chr2D 53649010 53650092 1082 False 708.00 708 79.37200 997 2059 1 chr2D.!!$F2 1062
4 TraesCS2A01G101200 chr2D 52851966 52853521 1555 False 478.00 813 83.73550 945 2224 2 chr2D.!!$F3 1279
5 TraesCS2A01G101200 chr2B 83210579 83213501 2922 False 975.75 2747 90.30375 400 3073 4 chr2B.!!$F5 2673
6 TraesCS2A01G101200 chr2B 82361285 82362271 986 False 793.00 793 81.61700 1001 2017 1 chr2B.!!$F1 1016
7 TraesCS2A01G101200 chr2B 82851630 82852489 859 False 691.00 691 81.64200 953 1807 1 chr2B.!!$F2 854
8 TraesCS2A01G101200 chr2B 83368857 83369466 609 True 529.00 529 82.39100 1016 1632 1 chr2B.!!$R2 616
9 TraesCS2A01G101200 chr2B 83954826 83955423 597 True 516.00 516 82.81000 981 1565 1 chr2B.!!$R3 584
10 TraesCS2A01G101200 chr2B 83324362 83324971 609 True 501.00 501 81.64300 1016 1632 1 chr2B.!!$R1 616
11 TraesCS2A01G101200 chr2B 82714082 82715448 1366 False 386.50 647 84.57000 1103 2225 2 chr2B.!!$F4 1122
12 TraesCS2A01G101200 chr2B 83413105 83416302 3197 True 343.50 494 78.92500 945 1905 2 chr2B.!!$R4 960

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
330 331 0.106769 TGGGTGCAAGTGCTCTGAAA 60.107 50.0 4.69 0.0 42.66 2.69 F
1897 4308 0.040958 GACTTGCTCAACAACGCTGG 60.041 55.0 0.00 0.0 33.68 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1998 4445 0.321919 TGCTCCATGTCCAGCTCAAC 60.322 55.000 9.29 0.0 36.53 3.18 R
2936 5985 1.288752 GCATGTTTGAACCACCGGG 59.711 57.895 6.32 0.0 41.29 5.73 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
22 23 5.906113 TTGAAACCTTTGCAGAACAGTAA 57.094 34.783 0.00 0.00 0.00 2.24
23 24 5.906113 TGAAACCTTTGCAGAACAGTAAA 57.094 34.783 0.00 0.00 0.00 2.01
24 25 5.890334 TGAAACCTTTGCAGAACAGTAAAG 58.110 37.500 0.00 0.00 39.81 1.85
25 26 3.990318 ACCTTTGCAGAACAGTAAAGC 57.010 42.857 0.00 0.00 39.10 3.51
26 27 3.555966 ACCTTTGCAGAACAGTAAAGCT 58.444 40.909 0.00 0.00 39.10 3.74
27 28 3.954258 ACCTTTGCAGAACAGTAAAGCTT 59.046 39.130 0.00 0.00 39.10 3.74
28 29 4.402474 ACCTTTGCAGAACAGTAAAGCTTT 59.598 37.500 17.30 17.30 39.10 3.51
29 30 4.978580 CCTTTGCAGAACAGTAAAGCTTTC 59.021 41.667 16.57 7.71 39.10 2.62
30 31 5.221126 CCTTTGCAGAACAGTAAAGCTTTCT 60.221 40.000 16.57 9.95 39.10 2.52
31 32 6.017109 CCTTTGCAGAACAGTAAAGCTTTCTA 60.017 38.462 16.57 0.00 39.10 2.10
32 33 6.545504 TTGCAGAACAGTAAAGCTTTCTAG 57.454 37.500 16.57 8.93 0.00 2.43
136 137 9.715121 ACTTCTTTTACTATTTATGTTGGACGA 57.285 29.630 0.00 0.00 0.00 4.20
145 146 9.840427 ACTATTTATGTTGGACGAAAAATTCTG 57.160 29.630 0.00 0.00 0.00 3.02
148 149 9.757227 ATTTATGTTGGACGAAAAATTCTGAAA 57.243 25.926 0.00 0.00 0.00 2.69
149 150 8.795786 TTATGTTGGACGAAAAATTCTGAAAG 57.204 30.769 0.00 0.00 0.00 2.62
150 151 6.202516 TGTTGGACGAAAAATTCTGAAAGT 57.797 33.333 0.00 0.00 33.76 2.66
151 152 6.626302 TGTTGGACGAAAAATTCTGAAAGTT 58.374 32.000 0.00 0.00 33.76 2.66
152 153 7.093992 TGTTGGACGAAAAATTCTGAAAGTTT 58.906 30.769 0.00 0.00 34.35 2.66
153 154 7.600752 TGTTGGACGAAAAATTCTGAAAGTTTT 59.399 29.630 12.34 12.34 43.24 2.43
154 155 9.078753 GTTGGACGAAAAATTCTGAAAGTTTTA 57.921 29.630 12.42 0.00 41.32 1.52
155 156 9.810545 TTGGACGAAAAATTCTGAAAGTTTTAT 57.189 25.926 12.42 6.78 41.32 1.40
156 157 9.458374 TGGACGAAAAATTCTGAAAGTTTTATC 57.542 29.630 12.42 12.40 41.32 1.75
157 158 9.678941 GGACGAAAAATTCTGAAAGTTTTATCT 57.321 29.630 12.42 2.66 41.32 1.98
184 185 9.382244 CACATTCTAGTTAGTAAGTTTTGTTGC 57.618 33.333 0.00 0.00 0.00 4.17
185 186 8.280497 ACATTCTAGTTAGTAAGTTTTGTTGCG 58.720 33.333 0.00 0.00 0.00 4.85
186 187 6.219302 TCTAGTTAGTAAGTTTTGTTGCGC 57.781 37.500 0.00 0.00 0.00 6.09
187 188 5.987347 TCTAGTTAGTAAGTTTTGTTGCGCT 59.013 36.000 9.73 0.00 0.00 5.92
188 189 4.844267 AGTTAGTAAGTTTTGTTGCGCTG 58.156 39.130 9.73 0.00 0.00 5.18
189 190 2.119671 AGTAAGTTTTGTTGCGCTGC 57.880 45.000 9.73 1.25 0.00 5.25
190 191 1.403679 AGTAAGTTTTGTTGCGCTGCA 59.596 42.857 9.73 4.43 36.47 4.41
191 192 2.159310 AGTAAGTTTTGTTGCGCTGCAA 60.159 40.909 9.73 11.09 46.80 4.08
199 200 3.729356 TTGCGCTGCAAAGTTTGAA 57.271 42.105 19.82 8.06 45.96 2.69
200 201 1.558741 TTGCGCTGCAAAGTTTGAAG 58.441 45.000 19.82 18.91 45.96 3.02
201 202 0.455410 TGCGCTGCAAAGTTTGAAGT 59.545 45.000 22.18 0.00 38.65 3.01
202 203 1.135141 TGCGCTGCAAAGTTTGAAGTT 60.135 42.857 22.18 0.00 38.65 2.66
203 204 1.518515 GCGCTGCAAAGTTTGAAGTTC 59.481 47.619 22.18 11.99 38.65 3.01
204 205 2.796304 CGCTGCAAAGTTTGAAGTTCA 58.204 42.857 22.18 0.08 38.65 3.18
205 206 3.178267 CGCTGCAAAGTTTGAAGTTCAA 58.822 40.909 22.18 14.35 38.65 2.69
206 207 3.611986 CGCTGCAAAGTTTGAAGTTCAAA 59.388 39.130 23.91 23.91 43.37 2.69
207 208 4.091220 CGCTGCAAAGTTTGAAGTTCAAAA 59.909 37.500 28.05 13.61 46.53 2.44
208 209 5.315982 GCTGCAAAGTTTGAAGTTCAAAAC 58.684 37.500 28.05 21.49 46.53 2.43
209 210 5.107143 GCTGCAAAGTTTGAAGTTCAAAACA 60.107 36.000 28.05 19.65 46.53 2.83
210 211 6.402442 GCTGCAAAGTTTGAAGTTCAAAACAT 60.402 34.615 28.05 16.45 46.53 2.71
211 212 6.829703 TGCAAAGTTTGAAGTTCAAAACATG 58.170 32.000 28.05 24.50 46.53 3.21
212 213 6.426328 TGCAAAGTTTGAAGTTCAAAACATGT 59.574 30.769 28.05 12.75 46.53 3.21
213 214 7.041508 TGCAAAGTTTGAAGTTCAAAACATGTT 60.042 29.630 28.05 16.14 46.53 2.71
214 215 7.478355 GCAAAGTTTGAAGTTCAAAACATGTTC 59.522 33.333 28.05 15.97 46.53 3.18
215 216 8.711457 CAAAGTTTGAAGTTCAAAACATGTTCT 58.289 29.630 28.05 17.66 46.53 3.01
216 217 9.921637 AAAGTTTGAAGTTCAAAACATGTTCTA 57.078 25.926 28.05 4.15 46.53 2.10
268 269 7.751047 TCATATACGAAGTTAGTTGTCTTGC 57.249 36.000 0.00 0.00 37.78 4.01
269 270 7.317390 TCATATACGAAGTTAGTTGTCTTGCA 58.683 34.615 0.00 0.00 37.78 4.08
270 271 7.979537 TCATATACGAAGTTAGTTGTCTTGCAT 59.020 33.333 0.00 0.00 37.78 3.96
271 272 9.244799 CATATACGAAGTTAGTTGTCTTGCATA 57.755 33.333 0.00 0.00 37.78 3.14
272 273 7.757097 ATACGAAGTTAGTTGTCTTGCATAG 57.243 36.000 0.00 0.00 37.78 2.23
273 274 5.779922 ACGAAGTTAGTTGTCTTGCATAGA 58.220 37.500 0.00 0.00 37.78 1.98
274 275 6.398918 ACGAAGTTAGTTGTCTTGCATAGAT 58.601 36.000 0.00 0.00 37.78 1.98
275 276 6.874134 ACGAAGTTAGTTGTCTTGCATAGATT 59.126 34.615 0.00 0.00 37.78 2.40
276 277 7.387948 ACGAAGTTAGTTGTCTTGCATAGATTT 59.612 33.333 0.00 0.00 37.78 2.17
277 278 8.230486 CGAAGTTAGTTGTCTTGCATAGATTTT 58.770 33.333 0.00 0.00 34.79 1.82
283 284 8.728088 AGTTGTCTTGCATAGATTTTAAAACG 57.272 30.769 1.97 0.00 34.79 3.60
284 285 8.564574 AGTTGTCTTGCATAGATTTTAAAACGA 58.435 29.630 1.97 0.00 34.79 3.85
285 286 9.341899 GTTGTCTTGCATAGATTTTAAAACGAT 57.658 29.630 1.97 0.00 34.79 3.73
297 298 9.667107 AGATTTTAAAACGATATTGGAGAGTCA 57.333 29.630 1.97 0.00 0.00 3.41
298 299 9.922305 GATTTTAAAACGATATTGGAGAGTCAG 57.078 33.333 1.97 0.00 0.00 3.51
299 300 7.843490 TTTAAAACGATATTGGAGAGTCAGG 57.157 36.000 0.00 0.00 0.00 3.86
300 301 5.677319 AAAACGATATTGGAGAGTCAGGA 57.323 39.130 0.00 0.00 0.00 3.86
301 302 5.878406 AAACGATATTGGAGAGTCAGGAT 57.122 39.130 0.00 0.00 0.00 3.24
302 303 6.978674 AAACGATATTGGAGAGTCAGGATA 57.021 37.500 0.00 0.00 0.00 2.59
303 304 6.582677 AACGATATTGGAGAGTCAGGATAG 57.417 41.667 0.00 0.00 0.00 2.08
304 305 4.461081 ACGATATTGGAGAGTCAGGATAGC 59.539 45.833 0.00 0.00 0.00 2.97
305 306 4.460731 CGATATTGGAGAGTCAGGATAGCA 59.539 45.833 0.00 0.00 0.00 3.49
306 307 5.392919 CGATATTGGAGAGTCAGGATAGCAG 60.393 48.000 0.00 0.00 0.00 4.24
307 308 2.079170 TGGAGAGTCAGGATAGCAGG 57.921 55.000 0.00 0.00 0.00 4.85
308 309 1.337118 GGAGAGTCAGGATAGCAGGG 58.663 60.000 0.00 0.00 0.00 4.45
309 310 0.678950 GAGAGTCAGGATAGCAGGGC 59.321 60.000 0.00 0.00 0.00 5.19
310 311 0.762461 AGAGTCAGGATAGCAGGGCC 60.762 60.000 0.00 0.00 0.00 5.80
311 312 0.762461 GAGTCAGGATAGCAGGGCCT 60.762 60.000 0.00 0.00 0.00 5.19
313 314 2.834688 CAGGATAGCAGGGCCTGG 59.165 66.667 33.43 16.27 44.24 4.45
314 315 2.449322 AGGATAGCAGGGCCTGGG 60.449 66.667 33.43 11.33 31.21 4.45
315 316 2.774351 GGATAGCAGGGCCTGGGT 60.774 66.667 33.43 21.39 31.21 4.51
316 317 2.512896 GATAGCAGGGCCTGGGTG 59.487 66.667 33.43 11.08 31.21 4.61
317 318 3.781605 GATAGCAGGGCCTGGGTGC 62.782 68.421 33.43 20.80 37.48 5.01
321 322 4.290622 CAGGGCCTGGGTGCAAGT 62.291 66.667 26.34 0.00 0.00 3.16
322 323 4.290622 AGGGCCTGGGTGCAAGTG 62.291 66.667 4.50 0.00 0.00 3.16
324 325 4.982701 GGCCTGGGTGCAAGTGCT 62.983 66.667 4.69 0.00 42.66 4.40
325 326 3.368571 GCCTGGGTGCAAGTGCTC 61.369 66.667 4.69 0.52 42.66 4.26
326 327 2.433446 CCTGGGTGCAAGTGCTCT 59.567 61.111 4.69 0.00 42.66 4.09
327 328 1.970114 CCTGGGTGCAAGTGCTCTG 60.970 63.158 4.69 0.00 42.66 3.35
328 329 1.071987 CTGGGTGCAAGTGCTCTGA 59.928 57.895 4.69 0.00 42.66 3.27
329 330 0.535780 CTGGGTGCAAGTGCTCTGAA 60.536 55.000 4.69 0.00 42.66 3.02
330 331 0.106769 TGGGTGCAAGTGCTCTGAAA 60.107 50.000 4.69 0.00 42.66 2.69
331 332 1.032014 GGGTGCAAGTGCTCTGAAAA 58.968 50.000 4.69 0.00 42.66 2.29
332 333 1.615392 GGGTGCAAGTGCTCTGAAAAT 59.385 47.619 4.69 0.00 42.66 1.82
333 334 2.352127 GGGTGCAAGTGCTCTGAAAATC 60.352 50.000 4.69 0.00 42.66 2.17
334 335 2.555757 GGTGCAAGTGCTCTGAAAATCT 59.444 45.455 4.69 0.00 42.66 2.40
335 336 3.562505 GTGCAAGTGCTCTGAAAATCTG 58.437 45.455 4.69 0.00 42.66 2.90
336 337 2.030540 TGCAAGTGCTCTGAAAATCTGC 60.031 45.455 4.69 0.00 42.66 4.26
337 338 2.847901 CAAGTGCTCTGAAAATCTGCG 58.152 47.619 0.00 0.00 0.00 5.18
338 339 2.175878 AGTGCTCTGAAAATCTGCGT 57.824 45.000 0.00 0.00 0.00 5.24
339 340 2.072298 AGTGCTCTGAAAATCTGCGTC 58.928 47.619 0.00 0.00 0.00 5.19
340 341 2.072298 GTGCTCTGAAAATCTGCGTCT 58.928 47.619 0.00 0.00 0.00 4.18
353 354 7.578310 AAATCTGCGTCTGGTAGTAATACTA 57.422 36.000 0.00 0.00 0.00 1.82
394 395 8.896320 TTAGTAGCACTGAAATACTTGTTTGA 57.104 30.769 0.00 0.00 32.25 2.69
395 396 7.426929 AGTAGCACTGAAATACTTGTTTGAG 57.573 36.000 0.00 0.00 0.00 3.02
396 397 7.217200 AGTAGCACTGAAATACTTGTTTGAGA 58.783 34.615 0.00 0.00 0.00 3.27
433 434 4.395854 TGCACCATTAGCAGATTAACACTG 59.604 41.667 7.01 7.01 37.02 3.66
447 448 0.874390 ACACTGCGTTATTGCACAGG 59.126 50.000 4.94 0.00 40.62 4.00
455 456 3.541632 CGTTATTGCACAGGGGTTATCT 58.458 45.455 0.00 0.00 0.00 1.98
465 466 5.832060 GCACAGGGGTTATCTAGAAGTAGTA 59.168 44.000 0.00 0.00 0.00 1.82
466 467 6.238981 GCACAGGGGTTATCTAGAAGTAGTAC 60.239 46.154 0.00 0.00 0.00 2.73
467 468 7.061688 CACAGGGGTTATCTAGAAGTAGTACT 58.938 42.308 0.00 0.00 0.00 2.73
494 495 7.821652 TCATTAGCAACCAACGATTAAAATCA 58.178 30.769 3.76 0.00 35.11 2.57
536 537 2.031120 GCAGCCCTACATTAATTGGCA 58.969 47.619 14.24 0.00 44.60 4.92
588 589 3.481009 CGATTTCGGCGCTATCTCT 57.519 52.632 7.64 0.00 35.37 3.10
635 636 2.253051 GGGCGGTTTTCGAACGGAA 61.253 57.895 0.00 0.00 42.43 4.30
672 673 4.101942 GCGTCAATTTGATCCGCAATTTA 58.898 39.130 22.17 0.00 40.27 1.40
674 675 5.231991 GCGTCAATTTGATCCGCAATTTAAT 59.768 36.000 22.17 0.00 40.27 1.40
730 731 8.664669 TGACAATAGTTATCCAGGATGCTATA 57.335 34.615 20.20 7.84 31.97 1.31
915 952 5.648960 TCTTCTAAACCCAAAAACGTTCAGT 59.351 36.000 0.00 0.00 0.00 3.41
968 1023 3.192844 TGGTTTTTCCACAACGTAGCAAA 59.807 39.130 0.00 0.00 41.93 3.68
1592 1682 8.622948 AGAATCTATTTTGTTTTTCCGTCTCT 57.377 30.769 0.00 0.00 0.00 3.10
1725 1845 1.670811 CGTGTTGCTTTCTCAACCTGT 59.329 47.619 4.46 0.00 44.15 4.00
1778 1903 0.383949 GCCGGCTGTTCAACAAAGAA 59.616 50.000 22.15 0.00 0.00 2.52
1788 1913 1.372872 AACAAAGAATTGGCCGCGC 60.373 52.632 0.00 0.00 41.01 6.86
1897 4308 0.040958 GACTTGCTCAACAACGCTGG 60.041 55.000 0.00 0.00 33.68 4.85
1936 4383 1.363807 CGCCGATGCTCATGGACTA 59.636 57.895 0.00 0.00 34.43 2.59
2020 4467 0.879400 GAGCTGGACATGGAGCATCG 60.879 60.000 14.01 0.00 37.70 3.84
2032 4479 2.203070 GCATCGGACCCGCAAGAT 60.203 61.111 3.13 0.00 43.02 2.40
2271 5000 2.505819 TGGAGCTGAACTATTCCCCTTC 59.494 50.000 0.00 0.00 0.00 3.46
2338 5099 4.403734 GTTGATTCAGGGGTCTTGGTTAA 58.596 43.478 0.00 0.00 0.00 2.01
2350 5111 6.353255 GGGGTCTTGGTTAAATGATAGTACCA 60.353 42.308 0.00 0.00 37.12 3.25
2420 5181 4.159879 ACCAAGAAAACGATACCGAGAGAT 59.840 41.667 0.00 0.00 39.50 2.75
2428 5189 2.421775 CGATACCGAGAGATGATGGAGG 59.578 54.545 0.00 0.00 38.22 4.30
2437 5198 5.335583 CGAGAGATGATGGAGGTGAACTATC 60.336 48.000 0.00 0.00 0.00 2.08
2455 5216 5.264395 ACTATCCCCCTTTTGAATGTTCTG 58.736 41.667 0.00 0.00 0.00 3.02
2507 5268 2.061848 TGGTTGATTCAGGGGTCTTGA 58.938 47.619 0.00 0.00 0.00 3.02
2519 5567 2.945668 GGGGTCTTGATTACATGACAGC 59.054 50.000 0.00 0.00 46.27 4.40
2556 5604 2.176045 GTTTGTTTCCCAATCCCCGAT 58.824 47.619 0.00 0.00 31.81 4.18
2575 5623 3.672867 CGATGGCAAATGTGTTTACCAAC 59.327 43.478 0.00 0.00 42.52 3.77
2593 5641 4.715297 ACCAACCAAACTATACCGAGAGAT 59.285 41.667 0.00 0.00 0.00 2.75
2722 5771 6.951198 TCCTGTTATGTGTTTGTATCCCAATT 59.049 34.615 0.00 0.00 31.81 2.32
2731 5780 0.754472 GTATCCCAATTCCCGACGGA 59.246 55.000 17.49 0.00 35.88 4.69
2810 5859 1.078497 CACGGAGCCAAGGTGCATA 60.078 57.895 0.00 0.00 0.00 3.14
2818 5867 2.092914 AGCCAAGGTGCATAGTAGTTCC 60.093 50.000 0.00 0.00 0.00 3.62
2855 5904 4.315803 AGAGGTCACAAGTACAATTTCCG 58.684 43.478 0.00 0.00 0.00 4.30
2892 5941 8.250332 TGCAATGGTTTCAAAATTATAGGAGTC 58.750 33.333 0.00 0.00 0.00 3.36
2936 5985 7.878036 TGTTAAATGGTTCTAAAAGTAGTGGC 58.122 34.615 0.00 0.00 0.00 5.01
2951 6001 2.519780 GGCCCGGTGGTTCAAACA 60.520 61.111 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.906113 TTACTGTTCTGCAAAGGTTTCAA 57.094 34.783 0.00 0.00 0.00 2.69
1 2 5.678616 GCTTTACTGTTCTGCAAAGGTTTCA 60.679 40.000 0.00 0.00 0.00 2.69
2 3 4.740205 GCTTTACTGTTCTGCAAAGGTTTC 59.260 41.667 0.00 0.00 0.00 2.78
3 4 4.402474 AGCTTTACTGTTCTGCAAAGGTTT 59.598 37.500 0.00 0.00 35.76 3.27
4 5 3.954258 AGCTTTACTGTTCTGCAAAGGTT 59.046 39.130 0.00 0.00 35.76 3.50
5 6 3.555966 AGCTTTACTGTTCTGCAAAGGT 58.444 40.909 0.00 0.28 34.75 3.50
6 7 4.574599 AAGCTTTACTGTTCTGCAAAGG 57.425 40.909 0.00 0.00 0.00 3.11
7 8 5.825507 AGAAAGCTTTACTGTTCTGCAAAG 58.174 37.500 12.68 0.00 29.88 2.77
8 9 5.835113 AGAAAGCTTTACTGTTCTGCAAA 57.165 34.783 12.68 0.00 29.88 3.68
9 10 5.049405 GCTAGAAAGCTTTACTGTTCTGCAA 60.049 40.000 12.68 0.00 45.85 4.08
10 11 4.452455 GCTAGAAAGCTTTACTGTTCTGCA 59.548 41.667 12.68 0.00 45.85 4.41
11 12 4.963877 GCTAGAAAGCTTTACTGTTCTGC 58.036 43.478 12.68 6.91 45.85 4.26
110 111 9.715121 TCGTCCAACATAAATAGTAAAAGAAGT 57.285 29.630 0.00 0.00 0.00 3.01
119 120 9.840427 CAGAATTTTTCGTCCAACATAAATAGT 57.160 29.630 0.00 0.00 34.02 2.12
122 123 9.757227 TTTCAGAATTTTTCGTCCAACATAAAT 57.243 25.926 0.00 0.00 34.02 1.40
123 124 9.243637 CTTTCAGAATTTTTCGTCCAACATAAA 57.756 29.630 0.00 0.00 34.02 1.40
124 125 8.410141 ACTTTCAGAATTTTTCGTCCAACATAA 58.590 29.630 0.00 0.00 34.02 1.90
125 126 7.936584 ACTTTCAGAATTTTTCGTCCAACATA 58.063 30.769 0.00 0.00 34.02 2.29
126 127 6.805713 ACTTTCAGAATTTTTCGTCCAACAT 58.194 32.000 0.00 0.00 34.02 2.71
127 128 6.202516 ACTTTCAGAATTTTTCGTCCAACA 57.797 33.333 0.00 0.00 34.02 3.33
128 129 7.520119 AAACTTTCAGAATTTTTCGTCCAAC 57.480 32.000 0.00 0.00 34.02 3.77
129 130 9.810545 ATAAAACTTTCAGAATTTTTCGTCCAA 57.189 25.926 6.36 0.00 32.20 3.53
130 131 9.458374 GATAAAACTTTCAGAATTTTTCGTCCA 57.542 29.630 6.36 0.00 32.20 4.02
131 132 9.678941 AGATAAAACTTTCAGAATTTTTCGTCC 57.321 29.630 6.36 0.00 32.20 4.79
158 159 9.382244 GCAACAAAACTTACTAACTAGAATGTG 57.618 33.333 0.00 0.00 0.00 3.21
159 160 8.280497 CGCAACAAAACTTACTAACTAGAATGT 58.720 33.333 0.00 0.00 0.00 2.71
160 161 7.268447 GCGCAACAAAACTTACTAACTAGAATG 59.732 37.037 0.30 0.00 0.00 2.67
161 162 7.172703 AGCGCAACAAAACTTACTAACTAGAAT 59.827 33.333 11.47 0.00 0.00 2.40
162 163 6.480981 AGCGCAACAAAACTTACTAACTAGAA 59.519 34.615 11.47 0.00 0.00 2.10
163 164 5.987347 AGCGCAACAAAACTTACTAACTAGA 59.013 36.000 11.47 0.00 0.00 2.43
164 165 6.071463 CAGCGCAACAAAACTTACTAACTAG 58.929 40.000 11.47 0.00 0.00 2.57
165 166 5.559417 GCAGCGCAACAAAACTTACTAACTA 60.559 40.000 11.47 0.00 0.00 2.24
166 167 4.788521 GCAGCGCAACAAAACTTACTAACT 60.789 41.667 11.47 0.00 0.00 2.24
167 168 3.420904 GCAGCGCAACAAAACTTACTAAC 59.579 43.478 11.47 0.00 0.00 2.34
168 169 3.065510 TGCAGCGCAACAAAACTTACTAA 59.934 39.130 11.47 0.00 34.76 2.24
169 170 2.614520 TGCAGCGCAACAAAACTTACTA 59.385 40.909 11.47 0.00 34.76 1.82
170 171 1.403679 TGCAGCGCAACAAAACTTACT 59.596 42.857 11.47 0.00 34.76 2.24
171 172 1.833860 TGCAGCGCAACAAAACTTAC 58.166 45.000 11.47 0.00 34.76 2.34
172 173 2.568696 TTGCAGCGCAACAAAACTTA 57.431 40.000 11.47 0.00 43.99 2.24
173 174 3.432517 TTGCAGCGCAACAAAACTT 57.567 42.105 11.47 0.00 43.99 2.66
182 183 0.455410 ACTTCAAACTTTGCAGCGCA 59.545 45.000 11.47 0.00 36.47 6.09
183 184 1.518515 GAACTTCAAACTTTGCAGCGC 59.481 47.619 0.00 0.00 0.00 5.92
184 185 2.796304 TGAACTTCAAACTTTGCAGCG 58.204 42.857 1.52 0.00 0.00 5.18
185 186 5.107143 TGTTTTGAACTTCAAACTTTGCAGC 60.107 36.000 15.19 0.00 45.03 5.25
186 187 6.464895 TGTTTTGAACTTCAAACTTTGCAG 57.535 33.333 15.19 0.17 45.03 4.41
187 188 6.426328 ACATGTTTTGAACTTCAAACTTTGCA 59.574 30.769 15.19 10.23 45.03 4.08
188 189 6.830736 ACATGTTTTGAACTTCAAACTTTGC 58.169 32.000 15.19 5.97 45.03 3.68
189 190 8.711457 AGAACATGTTTTGAACTTCAAACTTTG 58.289 29.630 13.36 13.97 45.03 2.77
190 191 8.831715 AGAACATGTTTTGAACTTCAAACTTT 57.168 26.923 13.36 5.83 45.03 2.66
242 243 8.653338 GCAAGACAACTAACTTCGTATATGAAA 58.347 33.333 8.68 0.00 0.00 2.69
243 244 7.815549 TGCAAGACAACTAACTTCGTATATGAA 59.184 33.333 7.17 7.17 0.00 2.57
244 245 7.317390 TGCAAGACAACTAACTTCGTATATGA 58.683 34.615 0.00 0.00 0.00 2.15
245 246 7.520119 TGCAAGACAACTAACTTCGTATATG 57.480 36.000 0.00 0.00 0.00 1.78
246 247 9.464714 CTATGCAAGACAACTAACTTCGTATAT 57.535 33.333 0.00 0.00 0.00 0.86
247 248 8.680001 TCTATGCAAGACAACTAACTTCGTATA 58.320 33.333 0.00 0.00 0.00 1.47
248 249 7.544622 TCTATGCAAGACAACTAACTTCGTAT 58.455 34.615 0.00 0.00 0.00 3.06
249 250 6.916440 TCTATGCAAGACAACTAACTTCGTA 58.084 36.000 0.00 0.00 0.00 3.43
250 251 5.779922 TCTATGCAAGACAACTAACTTCGT 58.220 37.500 0.00 0.00 0.00 3.85
251 252 6.893958 ATCTATGCAAGACAACTAACTTCG 57.106 37.500 0.00 0.00 36.93 3.79
257 258 9.820229 CGTTTTAAAATCTATGCAAGACAACTA 57.180 29.630 3.52 0.00 36.93 2.24
258 259 8.564574 TCGTTTTAAAATCTATGCAAGACAACT 58.435 29.630 3.52 0.00 36.93 3.16
259 260 8.722342 TCGTTTTAAAATCTATGCAAGACAAC 57.278 30.769 3.52 0.00 36.93 3.32
271 272 9.667107 TGACTCTCCAATATCGTTTTAAAATCT 57.333 29.630 3.52 0.00 0.00 2.40
272 273 9.922305 CTGACTCTCCAATATCGTTTTAAAATC 57.078 33.333 3.52 0.00 0.00 2.17
273 274 8.893727 CCTGACTCTCCAATATCGTTTTAAAAT 58.106 33.333 3.52 0.00 0.00 1.82
274 275 8.098286 TCCTGACTCTCCAATATCGTTTTAAAA 58.902 33.333 0.00 0.00 0.00 1.52
275 276 7.617225 TCCTGACTCTCCAATATCGTTTTAAA 58.383 34.615 0.00 0.00 0.00 1.52
276 277 7.177832 TCCTGACTCTCCAATATCGTTTTAA 57.822 36.000 0.00 0.00 0.00 1.52
277 278 6.785337 TCCTGACTCTCCAATATCGTTTTA 57.215 37.500 0.00 0.00 0.00 1.52
278 279 5.677319 TCCTGACTCTCCAATATCGTTTT 57.323 39.130 0.00 0.00 0.00 2.43
279 280 5.878406 ATCCTGACTCTCCAATATCGTTT 57.122 39.130 0.00 0.00 0.00 3.60
280 281 5.047660 GCTATCCTGACTCTCCAATATCGTT 60.048 44.000 0.00 0.00 0.00 3.85
281 282 4.461081 GCTATCCTGACTCTCCAATATCGT 59.539 45.833 0.00 0.00 0.00 3.73
282 283 4.460731 TGCTATCCTGACTCTCCAATATCG 59.539 45.833 0.00 0.00 0.00 2.92
283 284 5.105392 CCTGCTATCCTGACTCTCCAATATC 60.105 48.000 0.00 0.00 0.00 1.63
284 285 4.776837 CCTGCTATCCTGACTCTCCAATAT 59.223 45.833 0.00 0.00 0.00 1.28
285 286 4.155709 CCTGCTATCCTGACTCTCCAATA 58.844 47.826 0.00 0.00 0.00 1.90
286 287 2.971330 CCTGCTATCCTGACTCTCCAAT 59.029 50.000 0.00 0.00 0.00 3.16
287 288 2.392662 CCTGCTATCCTGACTCTCCAA 58.607 52.381 0.00 0.00 0.00 3.53
288 289 1.412217 CCCTGCTATCCTGACTCTCCA 60.412 57.143 0.00 0.00 0.00 3.86
289 290 1.337118 CCCTGCTATCCTGACTCTCC 58.663 60.000 0.00 0.00 0.00 3.71
290 291 0.678950 GCCCTGCTATCCTGACTCTC 59.321 60.000 0.00 0.00 0.00 3.20
291 292 0.762461 GGCCCTGCTATCCTGACTCT 60.762 60.000 0.00 0.00 0.00 3.24
292 293 0.762461 AGGCCCTGCTATCCTGACTC 60.762 60.000 0.00 0.00 0.00 3.36
293 294 1.316266 AGGCCCTGCTATCCTGACT 59.684 57.895 0.00 0.00 0.00 3.41
294 295 3.978164 AGGCCCTGCTATCCTGAC 58.022 61.111 0.00 0.00 0.00 3.51
296 297 2.827129 CCCAGGCCCTGCTATCCTG 61.827 68.421 4.81 0.00 45.24 3.86
297 298 2.449322 CCCAGGCCCTGCTATCCT 60.449 66.667 4.81 0.00 0.00 3.24
298 299 2.774351 ACCCAGGCCCTGCTATCC 60.774 66.667 4.81 0.00 0.00 2.59
299 300 2.512896 CACCCAGGCCCTGCTATC 59.487 66.667 4.81 0.00 0.00 2.08
300 301 3.813724 GCACCCAGGCCCTGCTAT 61.814 66.667 4.81 0.00 0.00 2.97
304 305 4.290622 ACTTGCACCCAGGCCCTG 62.291 66.667 2.91 2.91 0.00 4.45
305 306 4.290622 CACTTGCACCCAGGCCCT 62.291 66.667 0.00 0.00 0.00 5.19
307 308 4.982701 AGCACTTGCACCCAGGCC 62.983 66.667 3.62 0.00 45.16 5.19
308 309 3.368571 GAGCACTTGCACCCAGGC 61.369 66.667 3.62 0.00 45.16 4.85
309 310 1.970114 CAGAGCACTTGCACCCAGG 60.970 63.158 3.62 0.00 45.16 4.45
310 311 0.535780 TTCAGAGCACTTGCACCCAG 60.536 55.000 3.62 0.00 45.16 4.45
311 312 0.106769 TTTCAGAGCACTTGCACCCA 60.107 50.000 3.62 0.00 45.16 4.51
312 313 1.032014 TTTTCAGAGCACTTGCACCC 58.968 50.000 3.62 0.00 45.16 4.61
313 314 2.555757 AGATTTTCAGAGCACTTGCACC 59.444 45.455 3.62 0.00 45.16 5.01
314 315 3.562505 CAGATTTTCAGAGCACTTGCAC 58.437 45.455 3.62 0.00 45.16 4.57
315 316 2.030540 GCAGATTTTCAGAGCACTTGCA 60.031 45.455 3.62 0.00 45.16 4.08
316 317 2.593257 GCAGATTTTCAGAGCACTTGC 58.407 47.619 0.00 0.00 42.49 4.01
317 318 2.225019 ACGCAGATTTTCAGAGCACTTG 59.775 45.455 0.00 0.00 0.00 3.16
318 319 2.481952 GACGCAGATTTTCAGAGCACTT 59.518 45.455 0.00 0.00 0.00 3.16
319 320 2.072298 GACGCAGATTTTCAGAGCACT 58.928 47.619 0.00 0.00 0.00 4.40
320 321 2.072298 AGACGCAGATTTTCAGAGCAC 58.928 47.619 0.00 0.00 0.00 4.40
321 322 2.071540 CAGACGCAGATTTTCAGAGCA 58.928 47.619 0.00 0.00 0.00 4.26
322 323 1.396301 CCAGACGCAGATTTTCAGAGC 59.604 52.381 0.00 0.00 0.00 4.09
323 324 2.693069 ACCAGACGCAGATTTTCAGAG 58.307 47.619 0.00 0.00 0.00 3.35
324 325 2.839486 ACCAGACGCAGATTTTCAGA 57.161 45.000 0.00 0.00 0.00 3.27
325 326 3.589988 ACTACCAGACGCAGATTTTCAG 58.410 45.455 0.00 0.00 0.00 3.02
326 327 3.678056 ACTACCAGACGCAGATTTTCA 57.322 42.857 0.00 0.00 0.00 2.69
327 328 6.979238 AGTATTACTACCAGACGCAGATTTTC 59.021 38.462 0.00 0.00 0.00 2.29
328 329 6.875076 AGTATTACTACCAGACGCAGATTTT 58.125 36.000 0.00 0.00 0.00 1.82
329 330 6.466885 AGTATTACTACCAGACGCAGATTT 57.533 37.500 0.00 0.00 0.00 2.17
330 331 7.578310 TTAGTATTACTACCAGACGCAGATT 57.422 36.000 2.98 0.00 28.93 2.40
331 332 7.578310 TTTAGTATTACTACCAGACGCAGAT 57.422 36.000 2.98 0.00 28.93 2.90
332 333 7.395190 TTTTAGTATTACTACCAGACGCAGA 57.605 36.000 2.98 0.00 28.93 4.26
361 362 9.384764 AGTATTTCAGTGCTACTAATTCTTTCC 57.615 33.333 0.00 0.00 0.00 3.13
403 404 1.279496 TGCTAATGGTGCAGTCCTCT 58.721 50.000 0.00 0.00 35.31 3.69
433 434 1.455248 TAACCCCTGTGCAATAACGC 58.545 50.000 0.00 0.00 0.00 4.84
434 435 3.541632 AGATAACCCCTGTGCAATAACG 58.458 45.455 0.00 0.00 0.00 3.18
435 436 5.925509 TCTAGATAACCCCTGTGCAATAAC 58.074 41.667 0.00 0.00 0.00 1.89
441 442 4.650131 ACTACTTCTAGATAACCCCTGTGC 59.350 45.833 0.00 0.00 0.00 4.57
455 456 9.636789 TGGTTGCTAATGATAGTACTACTTCTA 57.363 33.333 4.31 0.00 0.00 2.10
465 466 8.500753 TTTAATCGTTGGTTGCTAATGATAGT 57.499 30.769 1.41 0.00 33.78 2.12
466 467 9.950680 ATTTTAATCGTTGGTTGCTAATGATAG 57.049 29.630 1.41 0.00 33.78 2.08
467 468 9.944663 GATTTTAATCGTTGGTTGCTAATGATA 57.055 29.630 1.41 0.00 33.78 2.15
494 495 4.995487 GCCGATAAATCCTTTATCTTCCGT 59.005 41.667 14.41 0.00 45.87 4.69
536 537 4.510340 CGCAATATTAGCCTAAAGGTTCGT 59.490 41.667 0.00 0.00 37.57 3.85
588 589 2.124529 TGCTGTTGTGAACCGCCA 60.125 55.556 0.00 0.00 40.38 5.69
593 594 3.243643 GCAATTTGAGTGCTGTTGTGAAC 59.756 43.478 0.00 0.00 39.00 3.18
710 711 8.428063 GCTCATTATAGCATCCTGGATAACTAT 58.572 37.037 23.96 23.96 42.30 2.12
915 952 4.389374 GGAGATGTGAAGAGGTGTTTTGA 58.611 43.478 0.00 0.00 0.00 2.69
968 1023 2.032620 CACGGATCTACCAGCTTACCT 58.967 52.381 0.00 0.00 38.90 3.08
1487 1569 0.949105 GCATCACCCACGACGTCTTT 60.949 55.000 14.70 0.00 0.00 2.52
1778 1903 4.197498 GCATTCTGCGCGGCCAAT 62.197 61.111 12.58 4.11 31.71 3.16
1788 1913 1.389609 GCCATCTGGGGTGCATTCTG 61.390 60.000 0.00 0.00 37.04 3.02
1825 1953 1.003573 GGGTCCTCCTCCTCCATGT 59.996 63.158 0.00 0.00 0.00 3.21
1936 4383 1.832608 TCTATGGCGCCTGACGGAT 60.833 57.895 29.70 14.18 43.93 4.18
1998 4445 0.321919 TGCTCCATGTCCAGCTCAAC 60.322 55.000 9.29 0.00 36.53 3.18
2020 4467 2.514824 GCTCCATCTTGCGGGTCC 60.515 66.667 0.00 0.00 0.00 4.46
2243 4972 5.703130 GGGAATAGTTCAGCTCCATCAATAC 59.297 44.000 0.00 0.00 0.00 1.89
2298 5027 9.140874 TGAATCAACCATGGCATGTATTATTAA 57.859 29.630 24.80 10.33 0.00 1.40
2303 5032 4.342951 CCTGAATCAACCATGGCATGTATT 59.657 41.667 24.80 17.38 0.00 1.89
2338 5099 7.015292 ACACGATTACAGGATGGTACTATCATT 59.985 37.037 19.51 5.73 43.62 2.57
2350 5111 4.457949 GGGAAACAAACACGATTACAGGAT 59.542 41.667 0.00 0.00 0.00 3.24
2420 5181 2.408565 GGGGATAGTTCACCTCCATCA 58.591 52.381 0.00 0.00 42.74 3.07
2428 5189 5.016831 ACATTCAAAAGGGGGATAGTTCAC 58.983 41.667 0.00 0.00 0.00 3.18
2437 5198 4.687901 AAACAGAACATTCAAAAGGGGG 57.312 40.909 0.00 0.00 0.00 5.40
2476 5237 4.342951 CCTGAATCAACCATGGCATGTATT 59.657 41.667 24.80 17.38 0.00 1.89
2507 5268 2.760634 TGACGGTGCTGTCATGTAAT 57.239 45.000 9.55 0.00 43.62 1.89
2519 5567 4.778904 ACAAACACGATTAAATGACGGTG 58.221 39.130 0.00 0.00 0.00 4.94
2526 5574 6.871492 GGATTGGGAAACAAACACGATTAAAT 59.129 34.615 0.00 0.00 43.46 1.40
2528 5576 5.279056 GGGATTGGGAAACAAACACGATTAA 60.279 40.000 0.00 0.00 43.46 1.40
2575 5623 5.243954 TCCATCATCTCTCGGTATAGTTTGG 59.756 44.000 0.00 0.00 0.00 3.28
2593 5641 2.439507 GGGGAATAGTTCAGCTCCATCA 59.560 50.000 0.00 0.00 0.00 3.07
2649 5697 5.072055 CCTGAATCAACCATGGCATGTATA 58.928 41.667 24.80 8.83 0.00 1.47
2691 5739 7.656137 GGATACAAACACATAACAGGACGATAT 59.344 37.037 0.00 0.00 0.00 1.63
2694 5742 5.172934 GGATACAAACACATAACAGGACGA 58.827 41.667 0.00 0.00 0.00 4.20
2722 5771 1.970092 AAACACATTTTCCGTCGGGA 58.030 45.000 12.29 0.00 41.83 5.14
2731 5780 9.471084 GTATAGTTTGCTTGGTAAACACATTTT 57.529 29.630 12.17 0.00 39.82 1.82
2776 5825 1.576421 GTGACTGGGCGCTTCAAAG 59.424 57.895 7.64 0.35 0.00 2.77
2810 5859 3.326880 ACAAGAAATGGGACGGAACTACT 59.673 43.478 0.00 0.00 0.00 2.57
2818 5867 3.056107 TGACCTCTACAAGAAATGGGACG 60.056 47.826 0.00 0.00 0.00 4.79
2855 5904 2.346099 ACCATTGCATAAACACGCAC 57.654 45.000 0.00 0.00 0.00 5.34
2889 5938 3.002038 ACGGGTAGAGAAATCGAGACT 57.998 47.619 0.00 0.00 0.00 3.24
2892 5941 3.846360 ACAAACGGGTAGAGAAATCGAG 58.154 45.455 0.00 0.00 0.00 4.04
2936 5985 1.288752 GCATGTTTGAACCACCGGG 59.711 57.895 6.32 0.00 41.29 5.73
2951 6001 1.831106 TGGAACTACCACAGATCGCAT 59.169 47.619 0.00 0.00 44.64 4.73
2972 6022 1.674359 ACATCCACGCAGAAAACACA 58.326 45.000 0.00 0.00 0.00 3.72


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

AutoCloner maintained by Alex Coulton.