Multiple sequence alignment - TraesCS5D01G126400

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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 TraesCS5D01G126400 chr5D 100.000 1281 0 0 1490 2770 193507368 193508648 0.000000e+00 2366.0
1 TraesCS5D01G126400 chr5D 100.000 1183 0 0 1 1183 193505879 193507061 0.000000e+00 2185.0
2 TraesCS5D01G126400 chr5B 96.130 1292 35 5 1490 2770 216392866 216394153 0.000000e+00 2095.0
3 TraesCS5D01G126400 chr5B 97.897 428 8 1 736 1162 216392392 216392819 0.000000e+00 739.0
4 TraesCS5D01G126400 chr5B 97.574 371 8 1 335 705 216392022 216392391 3.890000e-178 634.0
5 TraesCS5D01G126400 chr5B 93.158 190 12 1 1 189 216391822 216392011 7.560000e-71 278.0
6 TraesCS5D01G126400 chr5B 81.529 157 20 8 187 335 34896462 34896307 1.350000e-23 121.0
7 TraesCS5D01G126400 chr5A 97.095 654 17 2 1989 2642 248536087 248535436 0.000000e+00 1101.0
8 TraesCS5D01G126400 chr5A 97.005 601 14 2 584 1183 248537259 248536662 0.000000e+00 1007.0
9 TraesCS5D01G126400 chr5A 90.138 507 14 7 1490 1987 248536627 248536148 6.510000e-176 627.0
10 TraesCS5D01G126400 chr5A 93.684 190 11 1 1 189 248540503 248540314 1.620000e-72 283.0
11 TraesCS5D01G126400 chr5A 94.558 147 7 1 335 480 248540303 248540157 2.780000e-55 226.0
12 TraesCS5D01G126400 chr5A 95.385 130 2 3 2641 2770 248535329 248535204 1.300000e-48 204.0
13 TraesCS5D01G126400 chr5A 93.694 111 6 1 476 586 248537674 248537565 6.140000e-37 165.0
14 TraesCS5D01G126400 chr2B 86.184 152 12 7 191 334 28879121 28878971 3.690000e-34 156.0
15 TraesCS5D01G126400 chr6D 85.256 156 14 7 187 334 81115476 81115322 4.780000e-33 152.0
16 TraesCS5D01G126400 chr4D 84.277 159 17 6 187 338 100298255 100298098 6.180000e-32 148.0
17 TraesCS5D01G126400 chr4D 86.957 69 9 0 1507 1575 74606075 74606143 8.230000e-11 78.7
18 TraesCS5D01G126400 chr3D 83.553 152 15 8 187 329 612800773 612800923 1.730000e-27 134.0
19 TraesCS5D01G126400 chr3D 82.581 155 17 7 189 334 179234888 179235041 8.050000e-26 128.0
20 TraesCS5D01G126400 chr7A 82.209 163 18 8 187 340 579565990 579566150 2.240000e-26 130.0
21 TraesCS5D01G126400 chr7A 81.457 151 19 8 187 329 418107630 418107779 6.270000e-22 115.0
22 TraesCS5D01G126400 chr4A 82.781 151 17 8 187 329 562300811 562300960 2.900000e-25 126.0
23 TraesCS5D01G126400 chr4A 86.567 67 9 0 1509 1575 513089722 513089656 1.060000e-09 75.0
24 TraesCS5D01G126400 chr4B 89.855 69 7 0 1507 1575 106970435 106970503 3.800000e-14 89.8


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 TraesCS5D01G126400 chr5D 193505879 193508648 2769 False 2275.500000 2366 100.000000 1 2770 2 chr5D.!!$F1 2769
1 TraesCS5D01G126400 chr5B 216391822 216394153 2331 False 936.500000 2095 96.189750 1 2770 4 chr5B.!!$F1 2769
2 TraesCS5D01G126400 chr5A 248535204 248540503 5299 True 516.142857 1101 94.508429 1 2770 7 chr5A.!!$R1 2769

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
327 329 0.036388 TCCCTGGTTTCAGATCGTGC 60.036 55.0 0.0 0.0 43.49 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1895 4702 1.209127 CGCGCAAACGAGGGAAAAT 59.791 52.632 8.75 0.0 43.93 1.82 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
155 157 3.695606 GGCCACCTCTGACGCTGA 61.696 66.667 0.00 0.00 0.00 4.26
189 191 5.287513 GCAGAAAAAGTAGACATCGAGAGAC 59.712 44.000 0.00 0.00 46.97 3.36
191 193 7.032580 CAGAAAAAGTAGACATCGAGAGACAT 58.967 38.462 0.00 0.00 46.97 3.06
192 194 7.543868 CAGAAAAAGTAGACATCGAGAGACATT 59.456 37.037 0.00 0.00 46.97 2.71
193 195 8.091449 AGAAAAAGTAGACATCGAGAGACATTT 58.909 33.333 0.00 0.00 46.97 2.32
194 196 8.608844 AAAAAGTAGACATCGAGAGACATTTT 57.391 30.769 0.00 0.00 46.97 1.82
195 197 8.608844 AAAAGTAGACATCGAGAGACATTTTT 57.391 30.769 0.00 0.00 46.97 1.94
196 198 7.820044 AAGTAGACATCGAGAGACATTTTTC 57.180 36.000 0.00 0.00 46.97 2.29
197 199 6.925211 AGTAGACATCGAGAGACATTTTTCA 58.075 36.000 0.00 0.00 46.97 2.69
198 200 6.809196 AGTAGACATCGAGAGACATTTTTCAC 59.191 38.462 0.00 0.00 46.97 3.18
199 201 5.541845 AGACATCGAGAGACATTTTTCACA 58.458 37.500 0.00 0.00 46.97 3.58
200 202 5.991606 AGACATCGAGAGACATTTTTCACAA 59.008 36.000 0.00 0.00 46.97 3.33
201 203 6.483307 AGACATCGAGAGACATTTTTCACAAA 59.517 34.615 0.00 0.00 46.97 2.83
202 204 7.012327 AGACATCGAGAGACATTTTTCACAAAA 59.988 33.333 0.00 0.00 46.97 2.44
203 205 7.651808 ACATCGAGAGACATTTTTCACAAAAT 58.348 30.769 0.00 0.00 46.97 1.82
204 206 8.783093 ACATCGAGAGACATTTTTCACAAAATA 58.217 29.630 0.00 0.00 46.97 1.40
205 207 9.778993 CATCGAGAGACATTTTTCACAAAATAT 57.221 29.630 0.00 0.00 46.97 1.28
213 215 9.168353 GACATTTTTCACAAAATATTTGGTTGC 57.832 29.630 5.42 0.00 40.09 4.17
214 216 7.854916 ACATTTTTCACAAAATATTTGGTTGCG 59.145 29.630 5.42 0.00 40.09 4.85
215 217 4.981389 TTCACAAAATATTTGGTTGCGC 57.019 36.364 5.42 0.00 0.00 6.09
216 218 3.982475 TCACAAAATATTTGGTTGCGCA 58.018 36.364 5.66 5.66 0.00 6.09
217 219 3.738282 TCACAAAATATTTGGTTGCGCAC 59.262 39.130 11.12 5.37 0.00 5.34
218 220 3.492383 CACAAAATATTTGGTTGCGCACA 59.508 39.130 11.12 2.03 0.00 4.57
219 221 3.492756 ACAAAATATTTGGTTGCGCACAC 59.507 39.130 11.12 11.99 0.00 3.82
220 222 3.377346 AAATATTTGGTTGCGCACACA 57.623 38.095 11.12 9.79 0.00 3.72
221 223 2.346099 ATATTTGGTTGCGCACACAC 57.654 45.000 11.12 5.71 0.00 3.82
222 224 1.025041 TATTTGGTTGCGCACACACA 58.975 45.000 11.12 5.59 0.00 3.72
223 225 0.388659 ATTTGGTTGCGCACACACAT 59.611 45.000 11.12 8.03 0.00 3.21
224 226 0.174389 TTTGGTTGCGCACACACATT 59.826 45.000 11.12 0.00 0.00 2.71
225 227 0.174389 TTGGTTGCGCACACACATTT 59.826 45.000 11.12 0.00 0.00 2.32
226 228 1.025041 TGGTTGCGCACACACATTTA 58.975 45.000 11.12 0.00 0.00 1.40
227 229 1.611006 TGGTTGCGCACACACATTTAT 59.389 42.857 11.12 0.00 0.00 1.40
228 230 2.814336 TGGTTGCGCACACACATTTATA 59.186 40.909 11.12 0.00 0.00 0.98
229 231 3.253432 TGGTTGCGCACACACATTTATAA 59.747 39.130 11.12 0.00 0.00 0.98
230 232 4.230657 GGTTGCGCACACACATTTATAAA 58.769 39.130 11.12 0.00 0.00 1.40
231 233 4.089351 GGTTGCGCACACACATTTATAAAC 59.911 41.667 11.12 0.00 0.00 2.01
232 234 4.489679 TGCGCACACACATTTATAAACA 57.510 36.364 5.66 0.00 0.00 2.83
233 235 5.053140 TGCGCACACACATTTATAAACAT 57.947 34.783 5.66 0.00 0.00 2.71
234 236 4.855937 TGCGCACACACATTTATAAACATG 59.144 37.500 5.66 4.68 0.00 3.21
235 237 4.856487 GCGCACACACATTTATAAACATGT 59.144 37.500 0.30 5.31 33.72 3.21
236 238 6.024664 GCGCACACACATTTATAAACATGTA 58.975 36.000 0.30 0.00 32.16 2.29
237 239 6.690957 GCGCACACACATTTATAAACATGTAT 59.309 34.615 0.30 3.19 32.16 2.29
238 240 7.305361 GCGCACACACATTTATAAACATGTATG 60.305 37.037 13.77 13.77 34.55 2.39
239 241 7.305361 CGCACACACATTTATAAACATGTATGC 60.305 37.037 24.12 24.12 36.73 3.14
240 242 7.487509 GCACACACATTTATAAACATGTATGCA 59.512 33.333 26.68 0.00 38.43 3.96
241 243 9.518906 CACACACATTTATAAACATGTATGCAT 57.481 29.630 3.79 3.79 32.05 3.96
283 285 8.359060 AGATTTTAAAACGTGCTTAAAATGCA 57.641 26.923 28.54 12.99 43.75 3.96
284 286 8.987890 AGATTTTAAAACGTGCTTAAAATGCAT 58.012 25.926 28.54 18.58 43.75 3.96
285 287 9.592720 GATTTTAAAACGTGCTTAAAATGCATT 57.407 25.926 28.54 5.99 43.75 3.56
286 288 9.943163 ATTTTAAAACGTGCTTAAAATGCATTT 57.057 22.222 25.62 18.99 42.85 2.32
287 289 9.774742 TTTTAAAACGTGCTTAAAATGCATTTT 57.225 22.222 33.26 33.26 42.69 1.82
288 290 9.774742 TTTAAAACGTGCTTAAAATGCATTTTT 57.225 22.222 35.18 21.87 42.69 1.94
308 310 5.606348 TTTTAAAAAGTGGGTGCAGATGT 57.394 34.783 0.00 0.00 0.00 3.06
309 311 4.846779 TTAAAAAGTGGGTGCAGATGTC 57.153 40.909 0.00 0.00 0.00 3.06
310 312 1.620822 AAAAGTGGGTGCAGATGTCC 58.379 50.000 0.00 0.00 0.00 4.02
311 313 0.251341 AAAGTGGGTGCAGATGTCCC 60.251 55.000 2.32 2.32 41.41 4.46
312 314 1.136329 AAGTGGGTGCAGATGTCCCT 61.136 55.000 10.46 0.00 41.58 4.20
313 315 1.377725 GTGGGTGCAGATGTCCCTG 60.378 63.158 10.46 0.00 41.58 4.45
314 316 2.273449 GGGTGCAGATGTCCCTGG 59.727 66.667 2.06 0.00 38.29 4.45
315 317 2.606587 GGGTGCAGATGTCCCTGGT 61.607 63.158 2.06 0.00 38.29 4.00
316 318 1.380302 GGTGCAGATGTCCCTGGTT 59.620 57.895 0.00 0.00 34.82 3.67
317 319 0.251341 GGTGCAGATGTCCCTGGTTT 60.251 55.000 0.00 0.00 34.82 3.27
318 320 1.168714 GTGCAGATGTCCCTGGTTTC 58.831 55.000 0.00 0.00 34.82 2.78
319 321 0.770499 TGCAGATGTCCCTGGTTTCA 59.230 50.000 0.00 0.00 34.82 2.69
320 322 1.271543 TGCAGATGTCCCTGGTTTCAG 60.272 52.381 0.00 0.00 40.59 3.02
321 323 1.003580 GCAGATGTCCCTGGTTTCAGA 59.996 52.381 0.00 0.00 43.49 3.27
322 324 2.356535 GCAGATGTCCCTGGTTTCAGAT 60.357 50.000 0.00 0.00 43.49 2.90
323 325 3.539604 CAGATGTCCCTGGTTTCAGATC 58.460 50.000 0.00 0.00 43.49 2.75
324 326 2.169352 AGATGTCCCTGGTTTCAGATCG 59.831 50.000 0.00 0.00 43.49 3.69
325 327 1.348064 TGTCCCTGGTTTCAGATCGT 58.652 50.000 0.00 0.00 43.49 3.73
326 328 1.001974 TGTCCCTGGTTTCAGATCGTG 59.998 52.381 0.00 0.00 43.49 4.35
327 329 0.036388 TCCCTGGTTTCAGATCGTGC 60.036 55.000 0.00 0.00 43.49 5.34
328 330 1.026718 CCCTGGTTTCAGATCGTGCC 61.027 60.000 0.00 0.00 43.49 5.01
329 331 0.321564 CCTGGTTTCAGATCGTGCCA 60.322 55.000 0.00 0.00 43.49 4.92
330 332 1.522668 CTGGTTTCAGATCGTGCCAA 58.477 50.000 0.00 0.00 43.49 4.52
331 333 1.197721 CTGGTTTCAGATCGTGCCAAC 59.802 52.381 0.00 0.00 43.49 3.77
332 334 1.202758 TGGTTTCAGATCGTGCCAACT 60.203 47.619 0.00 0.00 0.00 3.16
333 335 1.464997 GGTTTCAGATCGTGCCAACTC 59.535 52.381 0.00 0.00 0.00 3.01
363 366 4.081087 TCAAGCACTATTTACCTCTGTCCC 60.081 45.833 0.00 0.00 0.00 4.46
397 400 0.474184 AGCAGTAAAGCCACACCACT 59.526 50.000 0.00 0.00 34.23 4.00
499 2989 1.628340 TCACTACCCCCAACATCACTG 59.372 52.381 0.00 0.00 0.00 3.66
954 3752 8.437360 TCCACAAATACATCATTCAGACATAC 57.563 34.615 0.00 0.00 0.00 2.39
980 3778 0.731417 AGTCGTCCATAGGTTCGTCG 59.269 55.000 0.00 0.00 0.00 5.12
1168 3966 3.127533 CCGAGCAAGCCGGGAAAG 61.128 66.667 2.18 0.00 43.05 2.62
1817 4624 4.494350 AGATGCGTGCATAAATCAATCC 57.506 40.909 7.42 0.00 36.70 3.01
1895 4702 8.367911 TCAATCTTCTAGTTTCTCACTTGCTTA 58.632 33.333 0.00 0.00 36.88 3.09
1987 4854 8.795842 AAATTATCATGGTTTGCATGTTCATT 57.204 26.923 0.00 0.00 0.00 2.57
2011 4878 7.872163 TGATTGGAAAACATTTCAGATTTCG 57.128 32.000 5.32 0.00 32.86 3.46
2073 4940 6.266103 TCACTCTTTCTTCTTTGGCATTCATT 59.734 34.615 0.00 0.00 0.00 2.57
2170 5037 4.330074 CGAGTCACCTATCACAATGGTTTC 59.670 45.833 0.00 0.00 30.72 2.78
2186 5053 2.744202 GGTTTCGCATCTGTGACTTGAT 59.256 45.455 0.00 0.00 33.83 2.57
2249 5116 6.425735 TGAAAATGGCATCAAGAGATTCCTA 58.574 36.000 0.00 0.00 38.26 2.94
2398 5265 2.332654 CCAGCCCCACTTGCGTAAC 61.333 63.158 0.00 0.00 0.00 2.50
2430 5297 6.346096 ACTAGTGCTTAAGCGGATGATAAAA 58.654 36.000 21.97 0.00 45.83 1.52
2670 5641 4.993029 AGGTAGTTAGTCATGACAGAGC 57.007 45.455 27.02 15.93 0.00 4.09
2722 5693 9.520204 CCATAATCAAATCACAAATAACCTGAC 57.480 33.333 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
87 89 2.175499 ACTGCCACATATGCCACCTATT 59.825 45.455 1.58 0.00 0.00 1.73
155 157 3.825143 ACTTTTTCTGCAATGCCTTGT 57.175 38.095 1.53 0.00 34.69 3.16
189 191 7.149160 GCGCAACCAAATATTTTGTGAAAAATG 60.149 33.333 13.54 5.89 33.45 2.32
191 193 6.183360 TGCGCAACCAAATATTTTGTGAAAAA 60.183 30.769 8.16 0.00 33.45 1.94
192 194 5.294306 TGCGCAACCAAATATTTTGTGAAAA 59.706 32.000 8.16 0.00 33.45 2.29
193 195 4.811024 TGCGCAACCAAATATTTTGTGAAA 59.189 33.333 8.16 1.74 33.45 2.69
194 196 4.210120 GTGCGCAACCAAATATTTTGTGAA 59.790 37.500 14.00 3.13 33.45 3.18
195 197 3.738282 GTGCGCAACCAAATATTTTGTGA 59.262 39.130 14.00 0.54 33.45 3.58
196 198 3.492383 TGTGCGCAACCAAATATTTTGTG 59.508 39.130 14.00 6.61 34.52 3.33
197 199 3.492756 GTGTGCGCAACCAAATATTTTGT 59.507 39.130 14.00 0.00 0.00 2.83
198 200 3.492383 TGTGTGCGCAACCAAATATTTTG 59.508 39.130 14.00 0.00 0.00 2.44
199 201 3.492756 GTGTGTGCGCAACCAAATATTTT 59.507 39.130 14.00 0.00 0.00 1.82
200 202 3.056304 GTGTGTGCGCAACCAAATATTT 58.944 40.909 14.00 0.00 0.00 1.40
201 203 2.035193 TGTGTGTGCGCAACCAAATATT 59.965 40.909 14.00 0.00 31.40 1.28
202 204 1.611006 TGTGTGTGCGCAACCAAATAT 59.389 42.857 14.00 0.00 31.40 1.28
203 205 1.025041 TGTGTGTGCGCAACCAAATA 58.975 45.000 14.00 0.00 31.40 1.40
204 206 0.388659 ATGTGTGTGCGCAACCAAAT 59.611 45.000 14.00 9.72 38.73 2.32
205 207 0.174389 AATGTGTGTGCGCAACCAAA 59.826 45.000 14.00 7.37 38.73 3.28
206 208 0.174389 AAATGTGTGTGCGCAACCAA 59.826 45.000 14.00 4.41 38.73 3.67
207 209 1.025041 TAAATGTGTGTGCGCAACCA 58.975 45.000 14.00 9.26 38.73 3.67
208 210 2.346099 ATAAATGTGTGTGCGCAACC 57.654 45.000 14.00 6.06 38.73 3.77
209 211 4.677378 TGTTTATAAATGTGTGTGCGCAAC 59.323 37.500 14.00 13.70 38.73 4.17
210 212 4.860072 TGTTTATAAATGTGTGTGCGCAA 58.140 34.783 14.00 0.00 38.73 4.85
211 213 4.489679 TGTTTATAAATGTGTGTGCGCA 57.510 36.364 5.66 5.66 39.66 6.09
212 214 4.856487 ACATGTTTATAAATGTGTGTGCGC 59.144 37.500 14.12 0.00 35.71 6.09
213 215 7.305361 GCATACATGTTTATAAATGTGTGTGCG 60.305 37.037 29.28 15.81 43.70 5.34
214 216 7.487509 TGCATACATGTTTATAAATGTGTGTGC 59.512 33.333 32.19 32.19 43.70 4.57
215 217 8.908172 TGCATACATGTTTATAAATGTGTGTG 57.092 30.769 23.26 23.26 43.70 3.82
257 259 9.464714 TGCATTTTAAGCACGTTTTAAAATCTA 57.535 25.926 23.97 17.47 43.50 1.98
258 260 8.359060 TGCATTTTAAGCACGTTTTAAAATCT 57.641 26.923 23.97 12.39 43.50 2.40
259 261 9.592720 AATGCATTTTAAGCACGTTTTAAAATC 57.407 25.926 23.97 20.19 43.50 2.17
260 262 9.943163 AAATGCATTTTAAGCACGTTTTAAAAT 57.057 22.222 18.99 22.46 44.95 1.82
261 263 9.774742 AAAATGCATTTTAAGCACGTTTTAAAA 57.225 22.222 31.00 20.81 45.95 1.52
262 264 9.774742 AAAAATGCATTTTAAGCACGTTTTAAA 57.225 22.222 31.87 9.53 45.95 1.52
285 287 5.983540 ACATCTGCACCCACTTTTTAAAAA 58.016 33.333 12.62 12.62 0.00 1.94
286 288 5.452636 GGACATCTGCACCCACTTTTTAAAA 60.453 40.000 0.00 0.00 0.00 1.52
287 289 4.038642 GGACATCTGCACCCACTTTTTAAA 59.961 41.667 0.00 0.00 0.00 1.52
288 290 3.572255 GGACATCTGCACCCACTTTTTAA 59.428 43.478 0.00 0.00 0.00 1.52
289 291 3.153919 GGACATCTGCACCCACTTTTTA 58.846 45.455 0.00 0.00 0.00 1.52
290 292 1.963515 GGACATCTGCACCCACTTTTT 59.036 47.619 0.00 0.00 0.00 1.94
291 293 1.620822 GGACATCTGCACCCACTTTT 58.379 50.000 0.00 0.00 0.00 2.27
292 294 0.251341 GGGACATCTGCACCCACTTT 60.251 55.000 4.47 0.00 42.81 2.66
293 295 1.136329 AGGGACATCTGCACCCACTT 61.136 55.000 11.64 0.00 45.43 3.16
294 296 1.539869 AGGGACATCTGCACCCACT 60.540 57.895 11.64 0.00 45.43 4.00
295 297 1.377725 CAGGGACATCTGCACCCAC 60.378 63.158 11.64 0.00 45.43 4.61
296 298 2.605607 CCAGGGACATCTGCACCCA 61.606 63.158 11.64 0.00 45.43 4.51
297 299 2.142292 AACCAGGGACATCTGCACCC 62.142 60.000 0.95 0.95 43.55 4.61
298 300 0.251341 AAACCAGGGACATCTGCACC 60.251 55.000 0.00 0.00 33.64 5.01
299 301 1.168714 GAAACCAGGGACATCTGCAC 58.831 55.000 0.00 0.00 33.64 4.57
300 302 0.770499 TGAAACCAGGGACATCTGCA 59.230 50.000 0.00 0.00 33.64 4.41
301 303 1.003580 TCTGAAACCAGGGACATCTGC 59.996 52.381 0.00 0.00 33.64 4.26
302 304 3.539604 GATCTGAAACCAGGGACATCTG 58.460 50.000 0.00 0.00 32.62 2.90
303 305 2.169352 CGATCTGAAACCAGGGACATCT 59.831 50.000 0.00 0.00 32.62 2.90
304 306 2.093447 ACGATCTGAAACCAGGGACATC 60.093 50.000 0.00 0.00 32.62 3.06
305 307 1.909302 ACGATCTGAAACCAGGGACAT 59.091 47.619 0.00 0.00 32.62 3.06
306 308 1.001974 CACGATCTGAAACCAGGGACA 59.998 52.381 0.00 0.00 32.62 4.02
307 309 1.726853 CACGATCTGAAACCAGGGAC 58.273 55.000 0.00 0.00 32.62 4.46
308 310 0.036388 GCACGATCTGAAACCAGGGA 60.036 55.000 0.00 0.00 32.62 4.20
309 311 1.026718 GGCACGATCTGAAACCAGGG 61.027 60.000 0.00 0.00 32.62 4.45
310 312 0.321564 TGGCACGATCTGAAACCAGG 60.322 55.000 0.00 0.00 32.62 4.45
311 313 1.197721 GTTGGCACGATCTGAAACCAG 59.802 52.381 0.00 0.00 0.00 4.00
312 314 1.202758 AGTTGGCACGATCTGAAACCA 60.203 47.619 0.00 0.00 0.00 3.67
313 315 1.464997 GAGTTGGCACGATCTGAAACC 59.535 52.381 0.00 0.00 0.00 3.27
314 316 2.158449 CAGAGTTGGCACGATCTGAAAC 59.842 50.000 14.51 0.00 41.35 2.78
315 317 2.416747 CAGAGTTGGCACGATCTGAAA 58.583 47.619 14.51 0.00 41.35 2.69
316 318 1.338105 CCAGAGTTGGCACGATCTGAA 60.338 52.381 19.15 0.00 41.35 3.02
317 319 0.247460 CCAGAGTTGGCACGATCTGA 59.753 55.000 19.15 0.00 41.35 3.27
318 320 0.247460 TCCAGAGTTGGCACGATCTG 59.753 55.000 13.27 13.27 44.63 2.90
319 321 1.198713 ATCCAGAGTTGGCACGATCT 58.801 50.000 0.00 0.00 44.63 2.75
320 322 2.029838 AATCCAGAGTTGGCACGATC 57.970 50.000 0.00 0.00 44.63 3.69
321 323 2.290260 TGAAATCCAGAGTTGGCACGAT 60.290 45.455 0.00 0.00 44.63 3.73
322 324 1.071542 TGAAATCCAGAGTTGGCACGA 59.928 47.619 0.00 0.00 44.63 4.35
323 325 1.522668 TGAAATCCAGAGTTGGCACG 58.477 50.000 0.00 0.00 44.63 5.34
324 326 2.352127 GCTTGAAATCCAGAGTTGGCAC 60.352 50.000 0.00 0.00 44.63 5.01
325 327 1.888512 GCTTGAAATCCAGAGTTGGCA 59.111 47.619 0.00 0.00 44.63 4.92
326 328 1.888512 TGCTTGAAATCCAGAGTTGGC 59.111 47.619 0.00 0.00 44.63 4.52
327 329 3.152341 AGTGCTTGAAATCCAGAGTTGG 58.848 45.455 0.00 0.00 46.49 3.77
328 330 6.506500 AATAGTGCTTGAAATCCAGAGTTG 57.493 37.500 0.00 0.00 0.00 3.16
329 331 7.121315 GGTAAATAGTGCTTGAAATCCAGAGTT 59.879 37.037 0.00 0.00 0.00 3.01
330 332 6.599638 GGTAAATAGTGCTTGAAATCCAGAGT 59.400 38.462 0.00 0.00 0.00 3.24
331 333 6.825721 AGGTAAATAGTGCTTGAAATCCAGAG 59.174 38.462 0.00 0.00 0.00 3.35
332 334 6.721318 AGGTAAATAGTGCTTGAAATCCAGA 58.279 36.000 0.00 0.00 0.00 3.86
333 335 6.825721 AGAGGTAAATAGTGCTTGAAATCCAG 59.174 38.462 0.00 0.00 0.00 3.86
363 366 1.377366 CTGCTGAAGGCCAGAGCATG 61.377 60.000 20.02 12.31 45.78 4.06
397 400 1.827789 GGACAGTGTTTGGCAGCCA 60.828 57.895 11.22 11.22 36.08 4.75
582 3379 9.162764 GACATAACTGAGCCTGAAAGTAATAAA 57.837 33.333 0.00 0.00 0.00 1.40
820 3617 0.403271 AGCTCAAGTGATGGTTGGCT 59.597 50.000 0.00 0.00 30.96 4.75
954 3752 2.370349 ACCTATGGACGACTCTCAGTG 58.630 52.381 0.00 0.00 0.00 3.66
980 3778 2.285083 TGGCTGTGTTTGTCTGTGTAC 58.715 47.619 0.00 0.00 0.00 2.90
1692 4490 3.719816 TGAGCATCATCATCAGGCC 57.280 52.632 0.00 0.00 42.56 5.19
1817 4624 9.764363 ACAATGCGATATTATATATACACCTGG 57.236 33.333 0.00 0.00 0.00 4.45
1881 4688 5.181245 CGAGGGAAAATAAGCAAGTGAGAAA 59.819 40.000 0.00 0.00 0.00 2.52
1895 4702 1.209127 CGCGCAAACGAGGGAAAAT 59.791 52.632 8.75 0.00 43.93 1.82
1987 4854 6.867816 CCGAAATCTGAAATGTTTTCCAATCA 59.132 34.615 0.00 0.00 0.00 2.57
2011 4878 7.997773 ATCTTCCAAACTAACTTAAGGTTCC 57.002 36.000 7.53 0.00 39.17 3.62
2170 5037 1.854743 CCGTATCAAGTCACAGATGCG 59.145 52.381 11.88 11.88 45.66 4.73
2186 5053 2.823924 TTGTCAGTTTAGCTGCCGTA 57.176 45.000 0.00 0.00 44.66 4.02
2316 5183 7.298854 AGTTTTATCTCGTTAAAGCTGCTTTC 58.701 34.615 29.06 15.90 33.19 2.62
2368 5235 1.346068 TGGGGCTGGTTTGTATTTTGC 59.654 47.619 0.00 0.00 0.00 3.68
2398 5265 5.238868 TCCGCTTAAGCACTAGTAGTATGAG 59.761 44.000 26.29 5.38 42.21 2.90
2430 5297 3.245229 TGTTGCTTATCTTCCATGGGTGT 60.245 43.478 13.02 0.00 0.00 4.16
2670 5641 1.726791 CTCTCGTTGGTGAATTCGGTG 59.273 52.381 0.04 0.00 0.00 4.94
2722 5693 2.749076 TGCTTAGCATTTGTGGCTAGTG 59.251 45.455 1.39 0.00 44.03 2.74


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

AutoCloner maintained by Alex Coulton.