Multiple sequence alignment - TraesCS6D01G303600

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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 TraesCS6D01G303600 chr6D 100.000 2837 0 0 1 2837 412002968 412000132 0.000000e+00 5240.0
1 TraesCS6D01G303600 chr6B 90.921 2346 167 27 514 2830 620266359 620264031 0.000000e+00 3110.0
2 TraesCS6D01G303600 chr6A 88.085 1133 72 33 386 1479 557095620 557094512 0.000000e+00 1286.0
3 TraesCS6D01G303600 chr6A 89.926 675 54 8 2169 2834 557093861 557093192 0.000000e+00 857.0
4 TraesCS6D01G303600 chr6A 89.694 621 60 4 1482 2099 557094481 557093862 0.000000e+00 789.0
5 TraesCS6D01G303600 chr5B 84.058 69 11 0 261 329 136620359 136620291 1.820000e-07 67.6


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 TraesCS6D01G303600 chr6D 412000132 412002968 2836 True 5240.000000 5240 100.000 1 2837 1 chr6D.!!$R1 2836
1 TraesCS6D01G303600 chr6B 620264031 620266359 2328 True 3110.000000 3110 90.921 514 2830 1 chr6B.!!$R1 2316
2 TraesCS6D01G303600 chr6A 557093192 557095620 2428 True 977.333333 1286 89.235 386 2834 3 chr6A.!!$R1 2448

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
827 843 0.093705 GTCTGCAACTTCGCGATCAC 59.906 55.0 10.88 0.0 33.35 3.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2508 2600 0.668535 GAAACCGCTCCATTATGGGC 59.331 55.0 11.76 12.25 38.32 5.36 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
52 53 8.922931 ATACACAATCACATTAATATGCCTCA 57.077 30.769 0.00 0.00 35.03 3.86
53 54 7.031226 ACACAATCACATTAATATGCCTCAC 57.969 36.000 0.00 0.00 35.03 3.51
54 55 6.602803 ACACAATCACATTAATATGCCTCACA 59.397 34.615 0.00 0.00 35.03 3.58
55 56 7.122501 ACACAATCACATTAATATGCCTCACAA 59.877 33.333 0.00 0.00 35.03 3.33
56 57 7.975058 CACAATCACATTAATATGCCTCACAAA 59.025 33.333 0.00 0.00 35.03 2.83
57 58 8.530311 ACAATCACATTAATATGCCTCACAAAA 58.470 29.630 0.00 0.00 35.03 2.44
58 59 9.368674 CAATCACATTAATATGCCTCACAAAAA 57.631 29.630 0.00 0.00 35.03 1.94
92 93 6.699575 ATATGAACAAGTAAATCACAGGCC 57.300 37.500 0.00 0.00 0.00 5.19
93 94 3.826524 TGAACAAGTAAATCACAGGCCA 58.173 40.909 5.01 0.00 0.00 5.36
94 95 4.211125 TGAACAAGTAAATCACAGGCCAA 58.789 39.130 5.01 0.00 0.00 4.52
95 96 4.832266 TGAACAAGTAAATCACAGGCCAAT 59.168 37.500 5.01 0.00 0.00 3.16
96 97 6.007076 TGAACAAGTAAATCACAGGCCAATA 58.993 36.000 5.01 0.00 0.00 1.90
97 98 6.491745 TGAACAAGTAAATCACAGGCCAATAA 59.508 34.615 5.01 0.00 0.00 1.40
98 99 6.515272 ACAAGTAAATCACAGGCCAATAAG 57.485 37.500 5.01 0.00 0.00 1.73
99 100 6.010219 ACAAGTAAATCACAGGCCAATAAGT 58.990 36.000 5.01 0.00 0.00 2.24
100 101 6.493458 ACAAGTAAATCACAGGCCAATAAGTT 59.507 34.615 5.01 0.00 0.00 2.66
101 102 7.015195 ACAAGTAAATCACAGGCCAATAAGTTT 59.985 33.333 5.01 1.29 0.00 2.66
102 103 7.539034 AGTAAATCACAGGCCAATAAGTTTT 57.461 32.000 5.01 0.00 0.00 2.43
103 104 7.962441 AGTAAATCACAGGCCAATAAGTTTTT 58.038 30.769 5.01 0.00 0.00 1.94
104 105 9.084533 AGTAAATCACAGGCCAATAAGTTTTTA 57.915 29.630 5.01 0.00 0.00 1.52
105 106 9.135843 GTAAATCACAGGCCAATAAGTTTTTAC 57.864 33.333 5.01 5.30 0.00 2.01
106 107 5.715434 TCACAGGCCAATAAGTTTTTACC 57.285 39.130 5.01 0.00 0.00 2.85
107 108 5.141182 TCACAGGCCAATAAGTTTTTACCA 58.859 37.500 5.01 0.00 0.00 3.25
108 109 5.598830 TCACAGGCCAATAAGTTTTTACCAA 59.401 36.000 5.01 0.00 0.00 3.67
109 110 6.098409 TCACAGGCCAATAAGTTTTTACCAAA 59.902 34.615 5.01 0.00 0.00 3.28
110 111 6.934083 CACAGGCCAATAAGTTTTTACCAAAT 59.066 34.615 5.01 0.00 0.00 2.32
111 112 8.091449 CACAGGCCAATAAGTTTTTACCAAATA 58.909 33.333 5.01 0.00 0.00 1.40
112 113 8.652290 ACAGGCCAATAAGTTTTTACCAAATAA 58.348 29.630 5.01 0.00 0.00 1.40
113 114 9.150348 CAGGCCAATAAGTTTTTACCAAATAAG 57.850 33.333 5.01 0.00 0.00 1.73
114 115 7.822334 AGGCCAATAAGTTTTTACCAAATAAGC 59.178 33.333 5.01 0.00 0.00 3.09
115 116 7.604545 GGCCAATAAGTTTTTACCAAATAAGCA 59.395 33.333 0.00 0.00 0.00 3.91
116 117 8.994170 GCCAATAAGTTTTTACCAAATAAGCAA 58.006 29.630 0.00 0.00 0.00 3.91
168 169 2.774815 TGGGTAAACCATGGACGGA 58.225 52.632 21.47 0.00 46.80 4.69
169 170 1.291109 TGGGTAAACCATGGACGGAT 58.709 50.000 21.47 1.69 46.80 4.18
170 171 1.636519 TGGGTAAACCATGGACGGATT 59.363 47.619 21.47 7.65 46.80 3.01
171 172 2.041891 TGGGTAAACCATGGACGGATTT 59.958 45.455 21.47 10.65 46.80 2.17
172 173 3.093814 GGGTAAACCATGGACGGATTTT 58.906 45.455 21.47 9.88 39.85 1.82
173 174 3.119280 GGGTAAACCATGGACGGATTTTG 60.119 47.826 21.47 0.00 39.85 2.44
174 175 3.759618 GGTAAACCATGGACGGATTTTGA 59.240 43.478 21.47 0.00 35.64 2.69
175 176 4.401202 GGTAAACCATGGACGGATTTTGAT 59.599 41.667 21.47 0.00 35.64 2.57
176 177 5.591067 GGTAAACCATGGACGGATTTTGATA 59.409 40.000 21.47 0.00 35.64 2.15
177 178 6.095720 GGTAAACCATGGACGGATTTTGATAA 59.904 38.462 21.47 0.00 35.64 1.75
178 179 6.597832 AAACCATGGACGGATTTTGATAAA 57.402 33.333 21.47 0.00 0.00 1.40
179 180 5.576447 ACCATGGACGGATTTTGATAAAC 57.424 39.130 21.47 0.00 0.00 2.01
180 181 5.013547 ACCATGGACGGATTTTGATAAACA 58.986 37.500 21.47 0.00 0.00 2.83
181 182 5.656416 ACCATGGACGGATTTTGATAAACAT 59.344 36.000 21.47 0.00 0.00 2.71
182 183 6.154363 ACCATGGACGGATTTTGATAAACATT 59.846 34.615 21.47 0.00 0.00 2.71
183 184 7.041107 CCATGGACGGATTTTGATAAACATTT 58.959 34.615 5.56 0.00 0.00 2.32
184 185 8.194104 CCATGGACGGATTTTGATAAACATTTA 58.806 33.333 5.56 0.00 0.00 1.40
185 186 9.748708 CATGGACGGATTTTGATAAACATTTAT 57.251 29.630 0.00 0.00 36.14 1.40
186 187 9.965824 ATGGACGGATTTTGATAAACATTTATC 57.034 29.630 14.77 14.77 45.77 1.75
187 188 9.184523 TGGACGGATTTTGATAAACATTTATCT 57.815 29.630 19.92 5.20 45.76 1.98
294 295 8.821686 AATATGGACAAATAAATCACAGACCA 57.178 30.769 0.00 0.00 0.00 4.02
295 296 8.821686 ATATGGACAAATAAATCACAGACCAA 57.178 30.769 0.00 0.00 0.00 3.67
296 297 6.325919 TGGACAAATAAATCACAGACCAAC 57.674 37.500 0.00 0.00 0.00 3.77
297 298 5.049060 TGGACAAATAAATCACAGACCAACG 60.049 40.000 0.00 0.00 0.00 4.10
298 299 5.048991 GGACAAATAAATCACAGACCAACGT 60.049 40.000 0.00 0.00 0.00 3.99
299 300 6.148150 GGACAAATAAATCACAGACCAACGTA 59.852 38.462 0.00 0.00 0.00 3.57
300 301 6.894828 ACAAATAAATCACAGACCAACGTAC 58.105 36.000 0.00 0.00 0.00 3.67
301 302 6.708949 ACAAATAAATCACAGACCAACGTACT 59.291 34.615 0.00 0.00 0.00 2.73
302 303 7.874016 ACAAATAAATCACAGACCAACGTACTA 59.126 33.333 0.00 0.00 0.00 1.82
303 304 8.380644 CAAATAAATCACAGACCAACGTACTAG 58.619 37.037 0.00 0.00 0.00 2.57
304 305 5.717078 AAATCACAGACCAACGTACTAGA 57.283 39.130 0.00 0.00 0.00 2.43
305 306 5.717078 AATCACAGACCAACGTACTAGAA 57.283 39.130 0.00 0.00 0.00 2.10
306 307 5.916661 ATCACAGACCAACGTACTAGAAT 57.083 39.130 0.00 0.00 0.00 2.40
307 308 7.400599 AATCACAGACCAACGTACTAGAATA 57.599 36.000 0.00 0.00 0.00 1.75
308 309 7.584122 ATCACAGACCAACGTACTAGAATAT 57.416 36.000 0.00 0.00 0.00 1.28
309 310 7.400599 TCACAGACCAACGTACTAGAATATT 57.599 36.000 0.00 0.00 0.00 1.28
310 311 7.833786 TCACAGACCAACGTACTAGAATATTT 58.166 34.615 0.00 0.00 0.00 1.40
311 312 8.959548 TCACAGACCAACGTACTAGAATATTTA 58.040 33.333 0.00 0.00 0.00 1.40
312 313 9.745880 CACAGACCAACGTACTAGAATATTTAT 57.254 33.333 0.00 0.00 0.00 1.40
318 319 9.512435 CCAACGTACTAGAATATTTATATCCCG 57.488 37.037 0.00 0.00 0.00 5.14
322 323 9.875675 CGTACTAGAATATTTATATCCCGTAGC 57.124 37.037 0.00 0.00 0.00 3.58
323 324 9.875675 GTACTAGAATATTTATATCCCGTAGCG 57.124 37.037 0.00 0.00 0.00 4.26
324 325 8.743085 ACTAGAATATTTATATCCCGTAGCGA 57.257 34.615 0.00 0.00 0.00 4.93
325 326 9.352191 ACTAGAATATTTATATCCCGTAGCGAT 57.648 33.333 0.00 0.00 0.00 4.58
326 327 9.613957 CTAGAATATTTATATCCCGTAGCGATG 57.386 37.037 0.00 0.00 0.00 3.84
327 328 6.924060 AGAATATTTATATCCCGTAGCGATGC 59.076 38.462 0.00 0.00 0.00 3.91
328 329 3.945981 TTTATATCCCGTAGCGATGCA 57.054 42.857 0.00 0.00 0.00 3.96
329 330 4.465632 TTTATATCCCGTAGCGATGCAT 57.534 40.909 0.00 0.00 0.00 3.96
330 331 2.299993 ATATCCCGTAGCGATGCATG 57.700 50.000 2.46 0.00 0.00 4.06
331 332 0.246360 TATCCCGTAGCGATGCATGG 59.754 55.000 2.46 3.37 0.00 3.66
332 333 2.454832 ATCCCGTAGCGATGCATGGG 62.455 60.000 2.46 7.67 37.29 4.00
333 334 2.108976 CCGTAGCGATGCATGGGT 59.891 61.111 17.59 17.59 0.00 4.51
334 335 1.365999 CCGTAGCGATGCATGGGTA 59.634 57.895 15.52 15.52 0.00 3.69
335 336 0.249699 CCGTAGCGATGCATGGGTAA 60.250 55.000 20.16 4.47 0.00 2.85
336 337 1.608025 CCGTAGCGATGCATGGGTAAT 60.608 52.381 20.16 0.00 0.00 1.89
337 338 2.143122 CGTAGCGATGCATGGGTAATT 58.857 47.619 20.16 0.00 0.00 1.40
338 339 2.096268 CGTAGCGATGCATGGGTAATTG 60.096 50.000 20.16 10.78 0.00 2.32
339 340 1.321474 AGCGATGCATGGGTAATTGG 58.679 50.000 11.98 0.00 0.00 3.16
340 341 1.032014 GCGATGCATGGGTAATTGGT 58.968 50.000 2.46 0.00 0.00 3.67
341 342 1.408702 GCGATGCATGGGTAATTGGTT 59.591 47.619 2.46 0.00 0.00 3.67
342 343 2.621055 GCGATGCATGGGTAATTGGTTA 59.379 45.455 2.46 0.00 0.00 2.85
343 344 3.550030 GCGATGCATGGGTAATTGGTTAC 60.550 47.826 2.46 0.00 39.57 2.50
344 345 3.882888 CGATGCATGGGTAATTGGTTACT 59.117 43.478 2.46 0.00 40.06 2.24
345 346 5.060506 CGATGCATGGGTAATTGGTTACTA 58.939 41.667 2.46 0.00 40.06 1.82
346 347 5.529430 CGATGCATGGGTAATTGGTTACTAA 59.471 40.000 2.46 0.00 40.06 2.24
347 348 6.512741 CGATGCATGGGTAATTGGTTACTAAC 60.513 42.308 2.46 0.00 40.06 2.34
348 349 5.822204 TGCATGGGTAATTGGTTACTAACT 58.178 37.500 0.00 0.00 40.06 2.24
349 350 6.959904 TGCATGGGTAATTGGTTACTAACTA 58.040 36.000 0.00 0.00 40.06 2.24
350 351 7.051623 TGCATGGGTAATTGGTTACTAACTAG 58.948 38.462 0.00 0.00 40.06 2.57
351 352 7.052248 GCATGGGTAATTGGTTACTAACTAGT 58.948 38.462 0.00 0.00 40.06 2.57
352 353 7.226128 GCATGGGTAATTGGTTACTAACTAGTC 59.774 40.741 0.00 0.00 40.06 2.59
353 354 8.483758 CATGGGTAATTGGTTACTAACTAGTCT 58.516 37.037 0.00 0.00 40.06 3.24
354 355 9.719433 ATGGGTAATTGGTTACTAACTAGTCTA 57.281 33.333 0.00 0.00 40.06 2.59
355 356 9.719433 TGGGTAATTGGTTACTAACTAGTCTAT 57.281 33.333 0.00 0.00 40.06 1.98
407 408 7.692908 AATAACAAAACCAAAGAACACGATG 57.307 32.000 0.00 0.00 0.00 3.84
439 440 2.287769 CACCCCCAGTTTTTGCAAAAG 58.712 47.619 22.78 12.71 0.00 2.27
443 444 2.419851 CCCCAGTTTTTGCAAAAGAGCA 60.420 45.455 22.78 7.29 43.99 4.26
465 466 1.828979 TAGATTTCCAAACCACGCCC 58.171 50.000 0.00 0.00 0.00 6.13
467 468 2.207788 GATTTCCAAACCACGCCCCG 62.208 60.000 0.00 0.00 0.00 5.73
472 473 1.299544 CAAACCACGCCCCGAAAAC 60.300 57.895 0.00 0.00 0.00 2.43
478 479 1.152922 ACGCCCCGAAAACTTCCAA 60.153 52.632 0.00 0.00 0.00 3.53
487 494 3.380320 CCGAAAACTTCCAAAACCTCTGT 59.620 43.478 0.00 0.00 0.00 3.41
492 499 6.694877 AAACTTCCAAAACCTCTGTTAGTC 57.305 37.500 0.00 0.00 33.30 2.59
497 504 3.497262 CCAAAACCTCTGTTAGTCGAACC 59.503 47.826 0.00 0.00 37.22 3.62
511 518 1.295746 GAACCGGGGAACTCTCACC 59.704 63.158 6.32 0.00 42.44 4.02
516 526 3.404773 GGGAACTCTCACCCCCTG 58.595 66.667 0.00 0.00 40.19 4.45
534 544 3.253677 CCCTGTACGCCACATTTAAAACA 59.746 43.478 0.00 0.00 36.29 2.83
632 645 1.661341 CTTCCCGAGCTTTCCAGATG 58.339 55.000 0.00 0.00 0.00 2.90
827 843 0.093705 GTCTGCAACTTCGCGATCAC 59.906 55.000 10.88 0.00 33.35 3.06
933 956 4.859629 GCACCAAGCATTACTACTACAC 57.140 45.455 0.00 0.00 44.79 2.90
937 960 5.024118 ACCAAGCATTACTACTACACCTCT 58.976 41.667 0.00 0.00 0.00 3.69
943 966 6.381420 AGCATTACTACTACACCTCTCAACAT 59.619 38.462 0.00 0.00 0.00 2.71
946 969 5.906113 ACTACTACACCTCTCAACATCTG 57.094 43.478 0.00 0.00 0.00 2.90
954 977 3.008330 CCTCTCAACATCTGCTCTTTGG 58.992 50.000 0.00 0.00 0.00 3.28
971 994 0.250295 TGGTTCCACAGCTTCCTTCG 60.250 55.000 0.00 0.00 0.00 3.79
1212 1252 4.636249 ACACTGAATCCTCTGTTCTGTTC 58.364 43.478 0.00 0.00 36.16 3.18
1216 1256 5.163258 ACTGAATCCTCTGTTCTGTTCTGTT 60.163 40.000 0.00 0.00 35.18 3.16
1217 1257 5.059161 TGAATCCTCTGTTCTGTTCTGTTG 58.941 41.667 0.00 0.00 0.00 3.33
1218 1258 4.696479 ATCCTCTGTTCTGTTCTGTTGT 57.304 40.909 0.00 0.00 0.00 3.32
1219 1259 3.797039 TCCTCTGTTCTGTTCTGTTGTG 58.203 45.455 0.00 0.00 0.00 3.33
1220 1260 3.197766 TCCTCTGTTCTGTTCTGTTGTGT 59.802 43.478 0.00 0.00 0.00 3.72
1224 1264 2.863740 TGTTCTGTTCTGTTGTGTAGCG 59.136 45.455 0.00 0.00 0.00 4.26
1245 1285 4.662145 CGCACTCAACTCTTTTCTGTTTT 58.338 39.130 0.00 0.00 0.00 2.43
1248 1288 5.401550 CACTCAACTCTTTTCTGTTTTGCA 58.598 37.500 0.00 0.00 0.00 4.08
1267 1307 2.653890 CAAAGATTGCAACTGACACCG 58.346 47.619 0.00 0.00 0.00 4.94
1306 1346 2.016096 GCAACTGAAGCTCTGATCCCC 61.016 57.143 0.00 0.00 0.00 4.81
1425 1473 3.813443 AGGTAATAGCCTGCATCAACTG 58.187 45.455 0.00 0.00 37.50 3.16
1538 1616 4.785914 TGGTTGGATCAGGTGGAAATACTA 59.214 41.667 0.00 0.00 0.00 1.82
1683 1761 8.882415 AAACTTTTGTCGAGTAAACTATGAGA 57.118 30.769 0.00 0.00 0.00 3.27
1818 1896 4.250305 ACAGTGGTGCGTGGACCC 62.250 66.667 8.14 0.00 34.79 4.46
1844 1922 3.063180 GGATCACTTGCTTGAAGATGTCG 59.937 47.826 0.00 0.00 35.42 4.35
1850 1928 3.592898 TGCTTGAAGATGTCGCTTCTA 57.407 42.857 0.00 0.00 43.60 2.10
1860 1938 2.826428 TGTCGCTTCTAGAATGATGGC 58.174 47.619 5.44 4.64 0.00 4.40
1887 1965 1.779061 CGTGTTCATTGGTCCGTCG 59.221 57.895 0.00 0.00 0.00 5.12
1893 1971 2.162754 CATTGGTCCGTCGGCGTAC 61.163 63.158 9.28 1.29 36.15 3.67
1938 2017 9.860898 AAGACAATAGTGATATTTTGCCTTTTC 57.139 29.630 0.00 0.00 0.00 2.29
1942 2021 5.975693 AGTGATATTTTGCCTTTTCGGAA 57.024 34.783 0.00 0.00 33.16 4.30
1943 2022 5.709966 AGTGATATTTTGCCTTTTCGGAAC 58.290 37.500 0.00 0.00 33.16 3.62
1945 2024 4.770010 TGATATTTTGCCTTTTCGGAACCT 59.230 37.500 0.00 0.00 33.16 3.50
1947 2026 3.897141 TTTTGCCTTTTCGGAACCTTT 57.103 38.095 0.00 0.00 33.16 3.11
1966 2045 4.641989 CCTTTGCTATCCTTGTAGTGCAAT 59.358 41.667 0.00 0.00 39.60 3.56
1967 2046 5.220931 CCTTTGCTATCCTTGTAGTGCAATC 60.221 44.000 0.00 0.00 39.60 2.67
1978 2057 4.058124 TGTAGTGCAATCTCAGTGTGTTC 58.942 43.478 0.00 0.00 0.00 3.18
1993 2072 5.184864 CAGTGTGTTCTCCTCTGTTATCTCT 59.815 44.000 0.00 0.00 0.00 3.10
1995 2074 5.866633 GTGTGTTCTCCTCTGTTATCTCTTG 59.133 44.000 0.00 0.00 0.00 3.02
2099 2180 2.109799 CATGACTAGGCAGGCCCG 59.890 66.667 3.72 0.98 39.21 6.13
2102 2183 4.537433 GACTAGGCAGGCCCGCTG 62.537 72.222 11.56 4.35 39.21 5.18
2112 2193 0.251341 AGGCCCGCTGAAGTTGAATT 60.251 50.000 0.00 0.00 0.00 2.17
2120 2201 4.386230 CGCTGAAGTTGAATTGTTACTCG 58.614 43.478 0.00 0.00 0.00 4.18
2162 2243 9.635404 TCTAAAAGTGGAAGGTTTCTTTTATGA 57.365 29.630 8.63 6.77 39.73 2.15
2165 2246 6.650427 AGTGGAAGGTTTCTTTTATGAACC 57.350 37.500 0.00 0.00 32.52 3.62
2188 2269 6.277918 CAAATTCTTTTGGTTGCTTCTCAC 57.722 37.500 0.00 0.00 38.85 3.51
2200 2281 1.151668 CTTCTCACTGAAACCCAGCG 58.848 55.000 0.00 0.00 46.81 5.18
2217 2298 2.142220 CGGAAGCTGGGGCCTTATA 58.858 57.895 0.84 0.00 39.73 0.98
2218 2299 0.250338 CGGAAGCTGGGGCCTTATAC 60.250 60.000 0.84 0.00 39.73 1.47
2219 2300 0.843984 GGAAGCTGGGGCCTTATACA 59.156 55.000 0.84 0.00 39.73 2.29
2350 2436 9.574516 ACATAAGACATAAAAGAAACAGAAGGT 57.425 29.630 0.00 0.00 0.00 3.50
2395 2481 8.707938 ATAGCTTTATTTTCAAATGGCAGAAC 57.292 30.769 0.00 0.00 0.00 3.01
2500 2592 7.405292 ACCCTTAAGATGAATGACATTTCTGA 58.595 34.615 3.36 0.00 39.56 3.27
2508 2600 6.564709 TGAATGACATTTCTGAAACTCCAG 57.435 37.500 4.73 0.00 35.55 3.86
2522 2615 1.451504 TCCAGCCCATAATGGAGCG 59.548 57.895 0.00 0.00 40.96 5.03
2571 2664 0.036164 TACCAGTGCCATCTTTGCGT 59.964 50.000 0.00 0.00 0.00 5.24
2598 2691 6.827762 GGACTGATTCTTCAAGATCCATTCTT 59.172 38.462 0.00 0.00 45.83 2.52
2655 2748 3.758554 CCTTGTCATACAACCCAAGAAGG 59.241 47.826 0.00 0.00 37.14 3.46
2658 2751 1.707989 TCATACAACCCAAGAAGGCCA 59.292 47.619 5.01 0.00 35.39 5.36
2664 2757 1.604593 CCCAAGAAGGCCACCTGTG 60.605 63.158 5.01 3.00 32.13 3.66
2749 2842 1.770658 CATATGCTCCCTTCCCACTGA 59.229 52.381 0.00 0.00 0.00 3.41
2764 2857 4.097892 TCCCACTGAAGAAAAAGAAAGCAC 59.902 41.667 0.00 0.00 0.00 4.40
2766 2859 5.452356 CCCACTGAAGAAAAAGAAAGCACAT 60.452 40.000 0.00 0.00 0.00 3.21
2784 2877 7.678947 AGCACATATATCCTCATTAAGCAAC 57.321 36.000 0.00 0.00 0.00 4.17
2831 2924 8.209584 TGAATTTGAATTTGTTGGAAGGATTGA 58.790 29.630 0.00 0.00 0.00 2.57
2836 2929 9.656040 TTGAATTTGTTGGAAGGATTGATAATG 57.344 29.630 0.00 0.00 0.00 1.90
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 8.786898 GTGAGGCATATTAATGTGATTGTGTAT 58.213 33.333 15.64 0.00 35.38 2.29
28 29 7.772757 TGTGAGGCATATTAATGTGATTGTGTA 59.227 33.333 15.64 0.00 35.38 2.90
29 30 6.602803 TGTGAGGCATATTAATGTGATTGTGT 59.397 34.615 15.64 0.00 35.38 3.72
30 31 7.030075 TGTGAGGCATATTAATGTGATTGTG 57.970 36.000 15.64 0.00 35.38 3.33
31 32 7.643569 TTGTGAGGCATATTAATGTGATTGT 57.356 32.000 15.64 0.00 35.38 2.71
32 33 8.929827 TTTTGTGAGGCATATTAATGTGATTG 57.070 30.769 15.64 0.00 35.38 2.67
66 67 8.682710 GGCCTGTGATTTACTTGTTCATATTAA 58.317 33.333 0.00 0.00 0.00 1.40
67 68 7.831690 TGGCCTGTGATTTACTTGTTCATATTA 59.168 33.333 3.32 0.00 0.00 0.98
68 69 6.663093 TGGCCTGTGATTTACTTGTTCATATT 59.337 34.615 3.32 0.00 0.00 1.28
69 70 6.186957 TGGCCTGTGATTTACTTGTTCATAT 58.813 36.000 3.32 0.00 0.00 1.78
70 71 5.565509 TGGCCTGTGATTTACTTGTTCATA 58.434 37.500 3.32 0.00 0.00 2.15
71 72 4.406456 TGGCCTGTGATTTACTTGTTCAT 58.594 39.130 3.32 0.00 0.00 2.57
72 73 3.826524 TGGCCTGTGATTTACTTGTTCA 58.173 40.909 3.32 0.00 0.00 3.18
73 74 4.846779 TTGGCCTGTGATTTACTTGTTC 57.153 40.909 3.32 0.00 0.00 3.18
74 75 6.493458 ACTTATTGGCCTGTGATTTACTTGTT 59.507 34.615 3.32 0.00 0.00 2.83
75 76 6.010219 ACTTATTGGCCTGTGATTTACTTGT 58.990 36.000 3.32 0.00 0.00 3.16
76 77 6.515272 ACTTATTGGCCTGTGATTTACTTG 57.485 37.500 3.32 0.00 0.00 3.16
77 78 7.539034 AAACTTATTGGCCTGTGATTTACTT 57.461 32.000 3.32 0.00 0.00 2.24
78 79 7.539034 AAAACTTATTGGCCTGTGATTTACT 57.461 32.000 3.32 0.00 0.00 2.24
79 80 9.135843 GTAAAAACTTATTGGCCTGTGATTTAC 57.864 33.333 3.32 10.35 0.00 2.01
80 81 8.308207 GGTAAAAACTTATTGGCCTGTGATTTA 58.692 33.333 3.32 3.31 0.00 1.40
81 82 7.158697 GGTAAAAACTTATTGGCCTGTGATTT 58.841 34.615 3.32 0.00 0.00 2.17
82 83 6.268847 TGGTAAAAACTTATTGGCCTGTGATT 59.731 34.615 3.32 0.00 0.00 2.57
83 84 5.777732 TGGTAAAAACTTATTGGCCTGTGAT 59.222 36.000 3.32 0.00 0.00 3.06
84 85 5.141182 TGGTAAAAACTTATTGGCCTGTGA 58.859 37.500 3.32 0.00 0.00 3.58
85 86 5.461032 TGGTAAAAACTTATTGGCCTGTG 57.539 39.130 3.32 0.00 0.00 3.66
86 87 6.487299 TTTGGTAAAAACTTATTGGCCTGT 57.513 33.333 3.32 0.00 0.00 4.00
87 88 9.150348 CTTATTTGGTAAAAACTTATTGGCCTG 57.850 33.333 3.32 0.00 0.00 4.85
88 89 7.822334 GCTTATTTGGTAAAAACTTATTGGCCT 59.178 33.333 3.32 0.00 0.00 5.19
89 90 7.604545 TGCTTATTTGGTAAAAACTTATTGGCC 59.395 33.333 0.00 0.00 0.00 5.36
90 91 8.541133 TGCTTATTTGGTAAAAACTTATTGGC 57.459 30.769 0.00 0.00 0.00 4.52
151 152 2.430248 AATCCGTCCATGGTTTACCC 57.570 50.000 12.58 0.00 34.29 3.69
152 153 3.759618 TCAAAATCCGTCCATGGTTTACC 59.240 43.478 12.58 0.00 0.00 2.85
153 154 5.576447 ATCAAAATCCGTCCATGGTTTAC 57.424 39.130 12.58 1.31 0.00 2.01
154 155 7.176865 TGTTTATCAAAATCCGTCCATGGTTTA 59.823 33.333 12.58 0.00 0.00 2.01
155 156 6.015010 TGTTTATCAAAATCCGTCCATGGTTT 60.015 34.615 12.58 1.13 0.00 3.27
156 157 5.478679 TGTTTATCAAAATCCGTCCATGGTT 59.521 36.000 12.58 0.00 0.00 3.67
157 158 5.013547 TGTTTATCAAAATCCGTCCATGGT 58.986 37.500 12.58 0.00 0.00 3.55
158 159 5.574891 TGTTTATCAAAATCCGTCCATGG 57.425 39.130 4.97 4.97 0.00 3.66
159 160 9.748708 ATAAATGTTTATCAAAATCCGTCCATG 57.251 29.630 0.00 0.00 0.00 3.66
160 161 9.965824 GATAAATGTTTATCAAAATCCGTCCAT 57.034 29.630 16.66 0.00 45.21 3.41
268 269 9.913310 TGGTCTGTGATTTATTTGTCCATATTA 57.087 29.630 0.00 0.00 0.00 0.98
269 270 8.821686 TGGTCTGTGATTTATTTGTCCATATT 57.178 30.769 0.00 0.00 0.00 1.28
270 271 8.686334 GTTGGTCTGTGATTTATTTGTCCATAT 58.314 33.333 0.00 0.00 0.00 1.78
271 272 7.148323 CGTTGGTCTGTGATTTATTTGTCCATA 60.148 37.037 0.00 0.00 0.00 2.74
272 273 6.349280 CGTTGGTCTGTGATTTATTTGTCCAT 60.349 38.462 0.00 0.00 0.00 3.41
273 274 5.049060 CGTTGGTCTGTGATTTATTTGTCCA 60.049 40.000 0.00 0.00 0.00 4.02
274 275 5.048991 ACGTTGGTCTGTGATTTATTTGTCC 60.049 40.000 0.00 0.00 0.00 4.02
275 276 5.997385 ACGTTGGTCTGTGATTTATTTGTC 58.003 37.500 0.00 0.00 0.00 3.18
276 277 6.708949 AGTACGTTGGTCTGTGATTTATTTGT 59.291 34.615 0.00 0.00 0.00 2.83
277 278 7.129109 AGTACGTTGGTCTGTGATTTATTTG 57.871 36.000 0.00 0.00 0.00 2.32
278 279 8.308931 TCTAGTACGTTGGTCTGTGATTTATTT 58.691 33.333 0.00 0.00 0.00 1.40
279 280 7.833786 TCTAGTACGTTGGTCTGTGATTTATT 58.166 34.615 0.00 0.00 0.00 1.40
280 281 7.400599 TCTAGTACGTTGGTCTGTGATTTAT 57.599 36.000 0.00 0.00 0.00 1.40
281 282 6.822667 TCTAGTACGTTGGTCTGTGATTTA 57.177 37.500 0.00 0.00 0.00 1.40
282 283 5.717078 TCTAGTACGTTGGTCTGTGATTT 57.283 39.130 0.00 0.00 0.00 2.17
283 284 5.717078 TTCTAGTACGTTGGTCTGTGATT 57.283 39.130 0.00 0.00 0.00 2.57
284 285 5.916661 ATTCTAGTACGTTGGTCTGTGAT 57.083 39.130 0.00 0.00 0.00 3.06
285 286 7.400599 AATATTCTAGTACGTTGGTCTGTGA 57.599 36.000 0.00 0.00 0.00 3.58
286 287 9.745880 ATAAATATTCTAGTACGTTGGTCTGTG 57.254 33.333 0.00 0.00 0.00 3.66
292 293 9.512435 CGGGATATAAATATTCTAGTACGTTGG 57.488 37.037 0.00 0.00 0.00 3.77
296 297 9.875675 GCTACGGGATATAAATATTCTAGTACG 57.124 37.037 0.00 0.00 0.00 3.67
297 298 9.875675 CGCTACGGGATATAAATATTCTAGTAC 57.124 37.037 0.00 0.00 0.00 2.73
298 299 9.836864 TCGCTACGGGATATAAATATTCTAGTA 57.163 33.333 0.00 0.00 0.00 1.82
299 300 8.743085 TCGCTACGGGATATAAATATTCTAGT 57.257 34.615 0.00 0.00 0.00 2.57
300 301 9.613957 CATCGCTACGGGATATAAATATTCTAG 57.386 37.037 0.00 0.00 33.49 2.43
301 302 8.080417 GCATCGCTACGGGATATAAATATTCTA 58.920 37.037 0.00 0.00 33.49 2.10
302 303 6.924060 GCATCGCTACGGGATATAAATATTCT 59.076 38.462 0.00 0.00 33.49 2.40
303 304 6.700081 TGCATCGCTACGGGATATAAATATTC 59.300 38.462 0.00 0.00 33.49 1.75
304 305 6.578944 TGCATCGCTACGGGATATAAATATT 58.421 36.000 0.00 0.00 33.49 1.28
305 306 6.156748 TGCATCGCTACGGGATATAAATAT 57.843 37.500 0.00 0.00 33.49 1.28
306 307 5.585820 TGCATCGCTACGGGATATAAATA 57.414 39.130 0.00 0.00 33.49 1.40
307 308 4.465632 TGCATCGCTACGGGATATAAAT 57.534 40.909 0.00 0.00 33.49 1.40
308 309 3.945981 TGCATCGCTACGGGATATAAA 57.054 42.857 0.00 0.00 33.49 1.40
309 310 3.430236 CCATGCATCGCTACGGGATATAA 60.430 47.826 0.00 0.00 33.49 0.98
310 311 2.100749 CCATGCATCGCTACGGGATATA 59.899 50.000 0.00 0.00 33.49 0.86
311 312 1.134699 CCATGCATCGCTACGGGATAT 60.135 52.381 0.00 0.00 33.49 1.63
312 313 0.246360 CCATGCATCGCTACGGGATA 59.754 55.000 0.00 0.00 33.49 2.59
313 314 1.004560 CCATGCATCGCTACGGGAT 60.005 57.895 0.00 0.00 35.61 3.85
314 315 2.421314 CCATGCATCGCTACGGGA 59.579 61.111 0.00 0.00 0.00 5.14
315 316 2.094757 TACCCATGCATCGCTACGGG 62.095 60.000 14.44 14.44 37.74 5.28
316 317 0.249699 TTACCCATGCATCGCTACGG 60.250 55.000 0.00 0.00 0.00 4.02
317 318 1.795768 ATTACCCATGCATCGCTACG 58.204 50.000 0.00 0.00 0.00 3.51
318 319 2.226437 CCAATTACCCATGCATCGCTAC 59.774 50.000 0.00 0.00 0.00 3.58
319 320 2.158682 ACCAATTACCCATGCATCGCTA 60.159 45.455 0.00 0.00 0.00 4.26
320 321 1.321474 CCAATTACCCATGCATCGCT 58.679 50.000 0.00 0.00 0.00 4.93
321 322 1.032014 ACCAATTACCCATGCATCGC 58.968 50.000 0.00 0.00 0.00 4.58
322 323 3.882888 AGTAACCAATTACCCATGCATCG 59.117 43.478 0.00 0.00 41.54 3.84
323 324 6.546034 AGTTAGTAACCAATTACCCATGCATC 59.454 38.462 9.46 0.00 41.54 3.91
324 325 6.431722 AGTTAGTAACCAATTACCCATGCAT 58.568 36.000 9.46 0.00 41.54 3.96
325 326 5.822204 AGTTAGTAACCAATTACCCATGCA 58.178 37.500 9.46 0.00 41.54 3.96
326 327 7.052248 ACTAGTTAGTAACCAATTACCCATGC 58.948 38.462 9.46 0.00 41.54 4.06
327 328 8.483758 AGACTAGTTAGTAACCAATTACCCATG 58.516 37.037 9.46 0.00 41.54 3.66
328 329 8.619683 AGACTAGTTAGTAACCAATTACCCAT 57.380 34.615 9.46 0.00 41.54 4.00
329 330 9.719433 ATAGACTAGTTAGTAACCAATTACCCA 57.281 33.333 9.46 0.00 41.54 4.51
378 379 8.224437 CGTGTTCTTTGGTTTTGTTATTTTGTT 58.776 29.630 0.00 0.00 0.00 2.83
379 380 7.599245 TCGTGTTCTTTGGTTTTGTTATTTTGT 59.401 29.630 0.00 0.00 0.00 2.83
380 381 7.954447 TCGTGTTCTTTGGTTTTGTTATTTTG 58.046 30.769 0.00 0.00 0.00 2.44
381 382 8.599774 CATCGTGTTCTTTGGTTTTGTTATTTT 58.400 29.630 0.00 0.00 0.00 1.82
382 383 7.254286 GCATCGTGTTCTTTGGTTTTGTTATTT 60.254 33.333 0.00 0.00 0.00 1.40
383 384 6.200097 GCATCGTGTTCTTTGGTTTTGTTATT 59.800 34.615 0.00 0.00 0.00 1.40
384 385 5.689961 GCATCGTGTTCTTTGGTTTTGTTAT 59.310 36.000 0.00 0.00 0.00 1.89
391 392 0.958822 GGGCATCGTGTTCTTTGGTT 59.041 50.000 0.00 0.00 0.00 3.67
393 394 1.883021 GGGGCATCGTGTTCTTTGG 59.117 57.895 0.00 0.00 0.00 3.28
418 419 1.280457 TTTGCAAAAACTGGGGGTGT 58.720 45.000 10.02 0.00 0.00 4.16
420 421 2.170397 CTCTTTTGCAAAAACTGGGGGT 59.830 45.455 23.92 0.00 0.00 4.95
421 422 2.837498 CTCTTTTGCAAAAACTGGGGG 58.163 47.619 23.92 9.52 0.00 5.40
426 427 6.147864 TCTATGTGCTCTTTTGCAAAAACT 57.852 33.333 23.92 11.86 45.12 2.66
439 440 4.437390 CGTGGTTTGGAAATCTATGTGCTC 60.437 45.833 0.00 0.00 0.00 4.26
443 444 2.752903 GGCGTGGTTTGGAAATCTATGT 59.247 45.455 0.00 0.00 0.00 2.29
465 466 3.380320 ACAGAGGTTTTGGAAGTTTTCGG 59.620 43.478 0.00 0.00 0.00 4.30
467 468 7.096884 ACTAACAGAGGTTTTGGAAGTTTTC 57.903 36.000 0.00 0.00 38.45 2.29
472 473 4.628074 TCGACTAACAGAGGTTTTGGAAG 58.372 43.478 0.00 0.00 38.45 3.46
478 479 2.288640 CCGGTTCGACTAACAGAGGTTT 60.289 50.000 0.00 0.00 40.08 3.27
487 494 0.890683 GAGTTCCCCGGTTCGACTAA 59.109 55.000 0.00 0.00 0.00 2.24
492 499 1.080025 GTGAGAGTTCCCCGGTTCG 60.080 63.158 0.00 0.00 0.00 3.95
511 518 2.116827 TTAAATGTGGCGTACAGGGG 57.883 50.000 0.00 0.00 43.80 4.79
516 526 3.239254 GGCTGTTTTAAATGTGGCGTAC 58.761 45.455 0.00 0.00 0.00 3.67
534 544 3.695830 TTCCAACTGTAGATTTCGGCT 57.304 42.857 0.00 0.00 0.00 5.52
564 577 3.434940 AGTAAAACTCCGGCTGGAAAT 57.565 42.857 16.91 3.69 45.87 2.17
592 605 0.942884 GAACGGAACCGCTTCGTCTT 60.943 55.000 13.32 0.00 44.19 3.01
593 606 1.372623 GAACGGAACCGCTTCGTCT 60.373 57.895 13.32 0.00 44.19 4.18
598 611 1.302271 GAAGGGAACGGAACCGCTT 60.302 57.895 13.32 8.17 44.19 4.68
784 800 4.968259 AGGTTGGCTTTTGGTTTTATTCC 58.032 39.130 0.00 0.00 0.00 3.01
827 843 3.873952 GAGTACAGCAAAATAGCCTCTGG 59.126 47.826 0.00 0.00 34.23 3.86
892 908 4.080526 GTGCTATTTCTGGGTTAAGGAGGA 60.081 45.833 0.00 0.00 0.00 3.71
893 909 4.200092 GTGCTATTTCTGGGTTAAGGAGG 58.800 47.826 0.00 0.00 0.00 4.30
894 910 4.200092 GGTGCTATTTCTGGGTTAAGGAG 58.800 47.826 0.00 0.00 0.00 3.69
925 948 4.400884 AGCAGATGTTGAGAGGTGTAGTAG 59.599 45.833 0.00 0.00 0.00 2.57
929 952 3.435275 AGAGCAGATGTTGAGAGGTGTA 58.565 45.455 0.00 0.00 0.00 2.90
930 953 2.255406 AGAGCAGATGTTGAGAGGTGT 58.745 47.619 0.00 0.00 0.00 4.16
932 955 3.558746 CCAAAGAGCAGATGTTGAGAGGT 60.559 47.826 0.00 0.00 0.00 3.85
933 956 3.008330 CCAAAGAGCAGATGTTGAGAGG 58.992 50.000 0.00 0.00 0.00 3.69
937 960 3.149196 GGAACCAAAGAGCAGATGTTGA 58.851 45.455 0.00 0.00 0.00 3.18
943 966 1.815408 GCTGTGGAACCAAAGAGCAGA 60.815 52.381 14.50 0.00 33.20 4.26
946 969 1.268079 GAAGCTGTGGAACCAAAGAGC 59.732 52.381 14.50 12.37 33.20 4.09
954 977 1.149148 GTCGAAGGAAGCTGTGGAAC 58.851 55.000 0.00 0.00 37.35 3.62
971 994 2.036089 AGAGTTTCTGGACGAAGGTGTC 59.964 50.000 0.00 0.00 38.17 3.67
1064 1097 1.152419 TTCTCGACCACCCACCTCA 60.152 57.895 0.00 0.00 0.00 3.86
1218 1258 2.526304 AAAGAGTTGAGTGCGCTACA 57.474 45.000 9.73 3.05 0.00 2.74
1219 1259 3.060602 AGAAAAGAGTTGAGTGCGCTAC 58.939 45.455 9.73 5.32 0.00 3.58
1220 1260 3.059884 CAGAAAAGAGTTGAGTGCGCTA 58.940 45.455 9.73 0.00 0.00 4.26
1224 1264 4.266265 GCAAAACAGAAAAGAGTTGAGTGC 59.734 41.667 0.00 0.00 0.00 4.40
1230 1270 7.967178 CAATCTTTGCAAAACAGAAAAGAGTT 58.033 30.769 13.84 0.00 44.26 3.01
1248 1288 2.290641 GACGGTGTCAGTTGCAATCTTT 59.709 45.455 0.59 0.00 32.09 2.52
1267 1307 2.097791 TGCAGGTAAAACCACAAACGAC 59.902 45.455 0.00 0.00 41.95 4.34
1306 1346 0.907486 TCTCCATGAACTCCAGCAGG 59.093 55.000 0.00 0.00 0.00 4.85
1354 1394 2.203788 AGCACCTCCTTGTCGGGA 60.204 61.111 0.00 0.00 0.00 5.14
1357 1397 1.079543 CTCCAGCACCTCCTTGTCG 60.080 63.158 0.00 0.00 0.00 4.35
1487 1564 4.867608 GGAATCGATCTCTAATTAGCAGCC 59.132 45.833 7.67 0.00 0.00 4.85
1538 1616 4.342092 GCATCACCCCAGTATATTTTTGCT 59.658 41.667 0.00 0.00 0.00 3.91
1683 1761 7.372260 ACTCTGATTAGCCATGAACTAGATT 57.628 36.000 0.00 0.00 0.00 2.40
1731 1809 2.825836 GCCCTGCATCAAGGTCCG 60.826 66.667 0.00 0.00 35.34 4.79
1770 1848 3.818210 AGGTTGCATTGTTGACGACATAA 59.182 39.130 0.00 0.00 38.26 1.90
1776 1854 2.800096 GCAGGTTGCATTGTTGACG 58.200 52.632 0.00 0.00 44.26 4.35
1818 1896 5.105877 ACATCTTCAAGCAAGTGATCCATTG 60.106 40.000 3.27 3.27 33.27 2.82
1844 1922 4.615588 ACTAGGCCATCATTCTAGAAGC 57.384 45.455 11.53 8.11 35.66 3.86
1850 1928 2.292267 CGCAAACTAGGCCATCATTCT 58.708 47.619 5.01 0.00 0.00 2.40
1860 1938 2.552315 ACCAATGAACACGCAAACTAGG 59.448 45.455 0.00 0.00 0.00 3.02
1887 1965 2.748647 ACCATTTGCCCGTACGCC 60.749 61.111 10.49 3.33 0.00 5.68
1917 1996 7.639113 TCCGAAAAGGCAAAATATCACTATT 57.361 32.000 0.00 0.00 40.77 1.73
1938 2017 2.711542 ACAAGGATAGCAAAGGTTCCG 58.288 47.619 0.00 0.00 33.35 4.30
1942 2021 3.009033 TGCACTACAAGGATAGCAAAGGT 59.991 43.478 0.00 0.00 0.00 3.50
1943 2022 3.609853 TGCACTACAAGGATAGCAAAGG 58.390 45.455 0.00 0.00 0.00 3.11
1945 2024 5.500234 AGATTGCACTACAAGGATAGCAAA 58.500 37.500 0.00 0.00 43.97 3.68
1947 2026 4.162131 TGAGATTGCACTACAAGGATAGCA 59.838 41.667 0.00 0.00 42.87 3.49
1966 2045 2.950781 ACAGAGGAGAACACACTGAGA 58.049 47.619 0.00 0.00 33.53 3.27
1967 2046 3.742433 AACAGAGGAGAACACACTGAG 57.258 47.619 0.00 0.00 33.53 3.35
1978 2057 8.472007 AGTATAACCAAGAGATAACAGAGGAG 57.528 38.462 0.00 0.00 0.00 3.69
2099 2180 5.177696 ACTCGAGTAACAATTCAACTTCAGC 59.822 40.000 18.46 0.00 0.00 4.26
2101 2182 7.494625 AGAAACTCGAGTAACAATTCAACTTCA 59.505 33.333 20.39 0.00 0.00 3.02
2102 2183 7.794349 CAGAAACTCGAGTAACAATTCAACTTC 59.206 37.037 20.39 13.56 0.00 3.01
2112 2193 4.037565 TGCTCTTCAGAAACTCGAGTAACA 59.962 41.667 20.39 0.00 0.00 2.41
2120 2201 7.360776 CCACTTTTAGATGCTCTTCAGAAACTC 60.361 40.741 0.00 0.00 0.00 3.01
2145 2226 8.902540 AATTTGGTTCATAAAAGAAACCTTCC 57.097 30.769 5.23 0.00 34.29 3.46
2165 2246 6.019318 CAGTGAGAAGCAACCAAAAGAATTTG 60.019 38.462 0.00 0.00 44.50 2.32
2188 2269 1.302832 AGCTTCCGCTGGGTTTCAG 60.303 57.895 0.00 0.00 46.86 3.02
2200 2281 0.843984 TGTATAAGGCCCCAGCTTCC 59.156 55.000 0.00 0.00 39.73 3.46
2217 2298 4.155063 TGCTATACATCAACTGCCATGT 57.845 40.909 0.00 0.00 37.08 3.21
2382 2468 1.199789 GTGCATCGTTCTGCCATTTGA 59.800 47.619 0.00 0.00 41.58 2.69
2395 2481 9.586150 GTTGATATACAAGAATAAAGTGCATCG 57.414 33.333 0.00 0.00 39.30 3.84
2462 2553 8.721133 TCATCTTAAGGGTATATGCTCTTACA 57.279 34.615 12.21 3.68 31.75 2.41
2477 2568 9.565213 GTTTCAGAAATGTCATTCATCTTAAGG 57.435 33.333 1.85 0.00 35.48 2.69
2508 2600 0.668535 GAAACCGCTCCATTATGGGC 59.331 55.000 11.76 12.25 38.32 5.36
2522 2615 5.371526 TCTGATTGATATGCTCCAGAAACC 58.628 41.667 0.00 0.00 0.00 3.27
2571 2664 3.845992 TGGATCTTGAAGAATCAGTCCCA 59.154 43.478 8.78 2.08 36.78 4.37
2658 2751 1.141053 GTCCTCTTTGTCCACACAGGT 59.859 52.381 0.00 0.00 39.02 4.00
2664 2757 2.031944 GCGAAAAGTCCTCTTTGTCCAC 60.032 50.000 0.00 0.00 42.26 4.02
2709 2802 1.203994 GCAATGCTGAAAGACATGGCT 59.796 47.619 0.00 0.00 41.29 4.75
2749 2842 9.466497 TGAGGATATATGTGCTTTCTTTTTCTT 57.534 29.630 0.00 0.00 0.00 2.52
2806 2899 8.606040 TCAATCCTTCCAACAAATTCAAATTC 57.394 30.769 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.