Multiple sequence alignment - TraesCS5D01G480800

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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 TraesCS5D01G480800 chr5D 100.000 3215 0 0 1 3215 518919577 518922791 0.000000e+00 5938.0
1 TraesCS5D01G480800 chr5A 95.373 2442 107 5 297 2735 645466901 645469339 0.000000e+00 3879.0
2 TraesCS5D01G480800 chr5A 91.807 415 20 6 2809 3215 645469533 645469941 1.670000e-157 566.0
3 TraesCS5D01G480800 chr5A 93.385 257 6 3 1 256 645466661 645466907 1.410000e-98 370.0
4 TraesCS5D01G480800 chr5A 96.000 75 2 1 2735 2809 645469370 645469443 1.570000e-23 121.0
5 TraesCS5D01G480800 chr5A 100.000 30 0 0 2762 2791 645469505 645469534 4.480000e-04 56.5
6 TraesCS5D01G480800 chr5B 95.984 2291 74 11 450 2735 652632219 652634496 0.000000e+00 3705.0
7 TraesCS5D01G480800 chr5B 95.297 489 11 5 2735 3215 652634527 652635011 0.000000e+00 765.0


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 TraesCS5D01G480800 chr5D 518919577 518922791 3214 False 5938.0 5938 100.0000 1 3215 1 chr5D.!!$F1 3214
1 TraesCS5D01G480800 chr5A 645466661 645469941 3280 False 998.5 3879 95.3130 1 3215 5 chr5A.!!$F1 3214
2 TraesCS5D01G480800 chr5B 652632219 652635011 2792 False 2235.0 3705 95.6405 450 3215 2 chr5B.!!$F1 2765

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
440 442 0.036875 GAGGACCCTGGGTTTCACTG 59.963 60.0 21.59 0.0 35.25 3.66 F
1287 1295 0.034670 AAGCAAGGATCAGGAGTGCC 60.035 55.0 0.00 0.0 35.80 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1831 1839 1.261480 AGACAGACTGTACAGCCCAG 58.739 55.000 22.9 13.57 36.01 4.45 R
2874 3005 1.476085 CCACCACACAAGTTTGAAGCA 59.524 47.619 0.0 0.00 0.00 3.91 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
183 185 3.683587 GAATGGTTTGCGCGCCTCC 62.684 63.158 30.77 26.03 0.00 4.30
193 195 2.811799 GCGCCTCCTCTTCCTCTC 59.188 66.667 0.00 0.00 0.00 3.20
199 201 2.093711 GCCTCCTCTTCCTCTCTTGTTC 60.094 54.545 0.00 0.00 0.00 3.18
206 208 1.178276 TCCTCTCTTGTTCGAGCCTC 58.822 55.000 0.00 0.00 0.00 4.70
253 255 1.601419 TTCGATTCGTTCCCCTCGCT 61.601 55.000 5.89 0.00 0.00 4.93
254 256 1.153628 CGATTCGTTCCCCTCGCTT 60.154 57.895 0.00 0.00 0.00 4.68
255 257 1.421410 CGATTCGTTCCCCTCGCTTG 61.421 60.000 0.00 0.00 0.00 4.01
256 258 0.391263 GATTCGTTCCCCTCGCTTGT 60.391 55.000 0.00 0.00 0.00 3.16
257 259 0.899720 ATTCGTTCCCCTCGCTTGTA 59.100 50.000 0.00 0.00 0.00 2.41
258 260 0.245539 TTCGTTCCCCTCGCTTGTAG 59.754 55.000 0.00 0.00 0.00 2.74
259 261 1.153628 CGTTCCCCTCGCTTGTAGG 60.154 63.158 0.00 0.00 0.00 3.18
260 262 1.601419 CGTTCCCCTCGCTTGTAGGA 61.601 60.000 0.00 0.00 36.08 2.94
261 263 0.175989 GTTCCCCTCGCTTGTAGGAG 59.824 60.000 0.00 0.00 36.08 3.69
262 264 1.614241 TTCCCCTCGCTTGTAGGAGC 61.614 60.000 0.00 0.00 36.08 4.70
263 265 2.359169 CCCCTCGCTTGTAGGAGCA 61.359 63.158 0.00 0.00 42.83 4.26
264 266 1.153549 CCCTCGCTTGTAGGAGCAC 60.154 63.158 0.00 0.00 42.83 4.40
265 267 1.608717 CCCTCGCTTGTAGGAGCACT 61.609 60.000 0.00 0.00 42.83 4.40
266 268 0.247736 CCTCGCTTGTAGGAGCACTT 59.752 55.000 0.00 0.00 42.83 3.16
267 269 1.354040 CTCGCTTGTAGGAGCACTTG 58.646 55.000 0.00 0.00 42.83 3.16
268 270 0.679505 TCGCTTGTAGGAGCACTTGT 59.320 50.000 0.00 0.00 42.83 3.16
269 271 0.792640 CGCTTGTAGGAGCACTTGTG 59.207 55.000 0.00 0.00 42.83 3.33
270 272 1.873903 CGCTTGTAGGAGCACTTGTGT 60.874 52.381 2.61 0.00 42.83 3.72
271 273 1.532868 GCTTGTAGGAGCACTTGTGTG 59.467 52.381 2.61 0.00 46.37 3.82
272 274 2.838736 CTTGTAGGAGCACTTGTGTGT 58.161 47.619 2.61 0.00 45.44 3.72
273 275 2.526304 TGTAGGAGCACTTGTGTGTC 57.474 50.000 2.61 0.58 45.44 3.67
274 276 1.070134 TGTAGGAGCACTTGTGTGTCC 59.930 52.381 13.11 13.11 45.44 4.02
275 277 0.685097 TAGGAGCACTTGTGTGTCCC 59.315 55.000 15.76 7.36 45.44 4.46
276 278 1.600916 GGAGCACTTGTGTGTCCCC 60.601 63.158 11.03 0.00 45.44 4.81
277 279 1.600916 GAGCACTTGTGTGTCCCCC 60.601 63.158 2.61 0.00 45.44 5.40
278 280 2.978010 GCACTTGTGTGTCCCCCG 60.978 66.667 2.61 0.00 45.44 5.73
279 281 2.978010 CACTTGTGTGTCCCCCGC 60.978 66.667 0.00 0.00 39.24 6.13
280 282 4.619227 ACTTGTGTGTCCCCCGCG 62.619 66.667 0.00 0.00 0.00 6.46
281 283 4.308458 CTTGTGTGTCCCCCGCGA 62.308 66.667 8.23 0.00 0.00 5.87
282 284 3.605749 CTTGTGTGTCCCCCGCGAT 62.606 63.158 8.23 0.00 0.00 4.58
283 285 3.599285 TTGTGTGTCCCCCGCGATC 62.599 63.158 8.23 0.00 0.00 3.69
292 294 3.983494 CCCGCGATCGCAGATCCT 61.983 66.667 36.45 0.00 45.12 3.24
293 295 2.732468 CCGCGATCGCAGATCCTG 60.732 66.667 36.45 19.64 45.12 3.86
294 296 2.732468 CGCGATCGCAGATCCTGG 60.732 66.667 36.45 16.13 45.12 4.45
295 297 2.356793 GCGATCGCAGATCCTGGG 60.357 66.667 33.89 4.86 45.12 4.45
296 298 3.133014 CGATCGCAGATCCTGGGT 58.867 61.111 0.26 0.00 45.12 4.51
297 299 1.006805 CGATCGCAGATCCTGGGTC 60.007 63.158 0.26 0.00 45.12 4.46
298 300 1.006805 GATCGCAGATCCTGGGTCG 60.007 63.158 0.32 0.00 45.12 4.79
304 306 3.195698 GATCCTGGGTCGTTGCGC 61.196 66.667 0.00 0.00 0.00 6.09
333 335 1.926561 TGTTTCTGATGCGGATCTCG 58.073 50.000 18.23 9.17 42.76 4.04
334 336 1.476488 TGTTTCTGATGCGGATCTCGA 59.524 47.619 18.23 11.30 42.43 4.04
336 338 1.393603 TTCTGATGCGGATCTCGAGT 58.606 50.000 18.23 0.00 42.43 4.18
338 340 1.751351 TCTGATGCGGATCTCGAGTTT 59.249 47.619 18.23 0.88 42.43 2.66
339 341 1.857217 CTGATGCGGATCTCGAGTTTG 59.143 52.381 18.23 2.52 42.43 2.93
344 346 1.135199 GCGGATCTCGAGTTTGTGGTA 60.135 52.381 13.13 0.00 42.43 3.25
349 351 3.917329 TCTCGAGTTTGTGGTAGAGTG 57.083 47.619 13.13 0.00 0.00 3.51
351 353 1.000506 TCGAGTTTGTGGTAGAGTGGC 59.999 52.381 0.00 0.00 0.00 5.01
355 357 2.741486 TTTGTGGTAGAGTGGCGGGC 62.741 60.000 0.00 0.00 0.00 6.13
363 365 1.056700 AGAGTGGCGGGCTGGATTAT 61.057 55.000 2.38 0.00 0.00 1.28
364 366 0.886490 GAGTGGCGGGCTGGATTATG 60.886 60.000 2.38 0.00 0.00 1.90
366 368 2.282462 GGCGGGCTGGATTATGGG 60.282 66.667 0.00 0.00 0.00 4.00
419 421 2.768527 TCTGAAATCGAATCTGAGGGCT 59.231 45.455 0.00 0.00 0.00 5.19
439 441 1.134438 GGAGGACCCTGGGTTTCACT 61.134 60.000 21.59 15.54 35.25 3.41
440 442 0.036875 GAGGACCCTGGGTTTCACTG 59.963 60.000 21.59 0.00 35.25 3.66
521 523 2.490217 CATGCCTGCTCTGCTTGC 59.510 61.111 0.00 0.00 0.00 4.01
647 649 8.198778 CCTTTCCTTGTTAGTAGATCTCTTACC 58.801 40.741 0.00 0.00 0.00 2.85
650 652 8.896722 TCCTTGTTAGTAGATCTCTTACCTTT 57.103 34.615 0.00 0.00 0.00 3.11
667 669 3.197549 ACCTTTTGTGTTGGTGCAAATCT 59.802 39.130 0.00 0.00 34.99 2.40
691 693 4.051922 GTGGATATGCTCGTGTAGAAAGG 58.948 47.826 0.00 0.00 0.00 3.11
819 821 4.156556 TGCAAATTAAGTGGAGATGCTCAC 59.843 41.667 0.00 0.00 33.66 3.51
948 953 2.187946 GCCGTGGATCAGGACTGG 59.812 66.667 5.44 1.82 0.00 4.00
949 954 2.903357 CCGTGGATCAGGACTGGG 59.097 66.667 0.00 0.00 0.00 4.45
957 965 2.896685 GGATCAGGACTGGGAGATACTG 59.103 54.545 0.00 0.00 0.00 2.74
963 971 3.031736 GGACTGGGAGATACTGCAGTAA 58.968 50.000 29.26 13.77 33.76 2.24
972 980 4.880164 AGATACTGCAGTAAGGGTAAGGA 58.120 43.478 29.26 5.85 33.76 3.36
1014 1022 4.103153 AGTCACAAGATGGAAGAAGGTCAA 59.897 41.667 0.00 0.00 0.00 3.18
1083 1091 3.068881 CCGGAGAAGAAGTGCCCA 58.931 61.111 0.00 0.00 0.00 5.36
1098 1106 2.821366 CCAGACTGTGATGGCGGC 60.821 66.667 0.00 0.00 0.00 6.53
1200 1208 1.831286 GCTGCTTGGGATGATGGGG 60.831 63.158 0.00 0.00 0.00 4.96
1287 1295 0.034670 AAGCAAGGATCAGGAGTGCC 60.035 55.000 0.00 0.00 35.80 5.01
1428 1436 1.831736 CTCCGTGATGACTTAAGGGGT 59.168 52.381 7.53 0.00 0.00 4.95
1548 1556 1.933765 AGGGCTAGAAGAGAGAGGGAA 59.066 52.381 0.00 0.00 0.00 3.97
1597 1605 6.042666 GGGAGAAAGGACAGAGAGCTTAATAT 59.957 42.308 0.00 0.00 0.00 1.28
1602 1610 9.988815 GAAAGGACAGAGAGCTTAATATTGATA 57.011 33.333 0.00 0.00 0.00 2.15
1698 1706 1.140252 AGTACTGGCGTTTCACTTGGT 59.860 47.619 0.00 0.00 0.00 3.67
1831 1839 4.273148 ACTGTGAACATCCAGGAAGTAC 57.727 45.455 0.00 0.00 32.90 2.73
1902 1910 2.622942 GGAGATGCCTTGTCAACACAAA 59.377 45.455 0.00 0.00 42.13 2.83
2200 2208 3.750371 TCTGATGAAAATGGTCCACGTT 58.250 40.909 0.00 0.00 0.00 3.99
2205 2213 2.882137 TGAAAATGGTCCACGTTCTTCC 59.118 45.455 14.53 0.00 0.00 3.46
2380 2388 2.658373 GAGTCCCGAAAGAAGACTCC 57.342 55.000 7.94 0.00 46.57 3.85
2477 2486 5.416947 TCTTCGCTTCTTATGAAACCTACC 58.583 41.667 0.00 0.00 0.00 3.18
2489 2498 2.467566 AACCTACCTGGCTTGTAACG 57.532 50.000 0.00 0.00 40.22 3.18
2509 2518 3.677284 TTTAATGCCCGCCGCCGTA 62.677 57.895 0.00 0.00 36.24 4.02
2530 2539 4.661993 ATTTACAGTATGCGTGTGTGTG 57.338 40.909 6.11 0.00 42.53 3.82
2531 2540 2.804697 TACAGTATGCGTGTGTGTGT 57.195 45.000 6.11 0.00 42.53 3.72
2553 2562 9.472361 TGTGTGTGAAATAAAAGTACTCTAGTC 57.528 33.333 0.00 0.00 0.00 2.59
2567 2576 6.761714 AGTACTCTAGTCTGTTGTTTTTGTGG 59.238 38.462 0.00 0.00 0.00 4.17
2615 2624 0.178961 ACCAAAGGAAACCTGCTCCC 60.179 55.000 0.00 0.00 32.13 4.30
2723 2732 4.708909 GGAAGAGGCTTTTTCCAATGAGAT 59.291 41.667 20.51 0.00 41.97 2.75
2986 3124 4.799564 TTGCTGTTGTTCCTTTGAAGTT 57.200 36.364 0.00 0.00 0.00 2.66
2987 3125 4.108699 TGCTGTTGTTCCTTTGAAGTTG 57.891 40.909 0.00 0.00 0.00 3.16
3030 3168 4.260170 ACTCAGATTGATCCAAGAGTTGC 58.740 43.478 0.00 0.00 33.19 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 60 1.163408 AATTGGTTGGGTAGGGGTGT 58.837 50.000 0.00 0.00 0.00 4.16
62 63 0.901827 GCAAATTGGTTGGGTAGGGG 59.098 55.000 0.00 0.00 37.73 4.79
107 109 2.546494 CCATGATTCTTCCGCCGGC 61.546 63.158 19.07 19.07 0.00 6.13
183 185 2.416701 GGCTCGAACAAGAGAGGAAGAG 60.417 54.545 0.00 0.00 40.57 2.85
193 195 0.539051 ATCCAGGAGGCTCGAACAAG 59.461 55.000 8.69 0.00 33.74 3.16
199 201 0.103937 GAACTGATCCAGGAGGCTCG 59.896 60.000 8.69 0.00 35.51 5.03
206 208 1.409427 GGAGTACCGAACTGATCCAGG 59.591 57.143 0.00 0.00 39.07 4.45
263 265 4.619227 CGCGGGGGACACACAAGT 62.619 66.667 0.00 0.00 0.00 3.16
264 266 3.605749 ATCGCGGGGGACACACAAG 62.606 63.158 6.13 0.00 0.00 3.16
265 267 3.599285 GATCGCGGGGGACACACAA 62.599 63.158 6.13 0.00 0.00 3.33
266 268 4.077184 GATCGCGGGGGACACACA 62.077 66.667 6.13 0.00 0.00 3.72
275 277 3.983494 AGGATCTGCGATCGCGGG 61.983 66.667 40.09 30.56 46.72 6.13
277 279 2.732468 CCAGGATCTGCGATCGCG 60.732 66.667 32.64 26.12 45.51 5.87
278 280 2.356793 CCCAGGATCTGCGATCGC 60.357 66.667 32.48 32.48 42.35 4.58
279 281 1.006805 GACCCAGGATCTGCGATCG 60.007 63.158 11.69 11.69 0.00 3.69
280 282 1.006805 CGACCCAGGATCTGCGATC 60.007 63.158 9.24 9.24 0.00 3.69
281 283 1.330655 AACGACCCAGGATCTGCGAT 61.331 55.000 0.00 0.00 0.00 4.58
282 284 1.982395 AACGACCCAGGATCTGCGA 60.982 57.895 0.00 0.00 0.00 5.10
283 285 1.811266 CAACGACCCAGGATCTGCG 60.811 63.158 0.00 0.00 0.00 5.18
284 286 2.109126 GCAACGACCCAGGATCTGC 61.109 63.158 0.00 0.00 0.00 4.26
285 287 1.811266 CGCAACGACCCAGGATCTG 60.811 63.158 0.00 0.00 0.00 2.90
286 288 2.579201 CGCAACGACCCAGGATCT 59.421 61.111 0.00 0.00 0.00 2.75
287 289 3.195698 GCGCAACGACCCAGGATC 61.196 66.667 0.30 0.00 0.00 3.36
298 300 2.125202 AACAACCCTAAGCGCGCAAC 62.125 55.000 35.10 3.43 0.00 4.17
304 306 2.159517 GCATCAGAAACAACCCTAAGCG 60.160 50.000 0.00 0.00 0.00 4.68
307 309 2.039216 TCCGCATCAGAAACAACCCTAA 59.961 45.455 0.00 0.00 0.00 2.69
333 335 1.429463 CGCCACTCTACCACAAACTC 58.571 55.000 0.00 0.00 0.00 3.01
334 336 0.034896 CCGCCACTCTACCACAAACT 59.965 55.000 0.00 0.00 0.00 2.66
336 338 1.373435 CCCGCCACTCTACCACAAA 59.627 57.895 0.00 0.00 0.00 2.83
338 340 3.702048 GCCCGCCACTCTACCACA 61.702 66.667 0.00 0.00 0.00 4.17
339 341 3.391382 AGCCCGCCACTCTACCAC 61.391 66.667 0.00 0.00 0.00 4.16
344 346 1.056700 ATAATCCAGCCCGCCACTCT 61.057 55.000 0.00 0.00 0.00 3.24
349 351 2.282462 CCCATAATCCAGCCCGCC 60.282 66.667 0.00 0.00 0.00 6.13
351 353 1.073199 GACCCCATAATCCAGCCCG 59.927 63.158 0.00 0.00 0.00 6.13
355 357 1.623811 CCTACCGACCCCATAATCCAG 59.376 57.143 0.00 0.00 0.00 3.86
419 421 1.073319 TGAAACCCAGGGTCCTCCA 60.073 57.895 13.17 4.83 33.12 3.86
439 441 1.075896 AAAAGGGTGGCCGGTTTCA 60.076 52.632 1.90 0.00 0.00 2.69
440 442 0.826256 AGAAAAGGGTGGCCGGTTTC 60.826 55.000 1.90 3.13 31.39 2.78
521 523 1.349026 CCATACCCCCAGCATCTAGTG 59.651 57.143 0.00 0.00 0.00 2.74
612 614 0.752658 ACAAGGAAAGGCAAACCAGC 59.247 50.000 0.00 0.00 39.06 4.85
647 649 5.459762 CACTAGATTTGCACCAACACAAAAG 59.540 40.000 0.00 0.00 39.09 2.27
650 652 3.317711 CCACTAGATTTGCACCAACACAA 59.682 43.478 0.00 0.00 0.00 3.33
667 669 5.009710 CCTTTCTACACGAGCATATCCACTA 59.990 44.000 0.00 0.00 0.00 2.74
691 693 3.375299 GCACACATGATACTTCCTGGAAC 59.625 47.826 4.68 0.00 0.00 3.62
819 821 1.339929 CCCTGAAACAAAGTTTCCCCG 59.660 52.381 17.14 7.92 0.00 5.73
948 953 4.039366 CCTTACCCTTACTGCAGTATCTCC 59.961 50.000 26.54 0.00 0.00 3.71
949 954 4.894114 TCCTTACCCTTACTGCAGTATCTC 59.106 45.833 26.54 0.00 0.00 2.75
957 965 4.820894 TCTTCTTCCTTACCCTTACTGC 57.179 45.455 0.00 0.00 0.00 4.40
963 971 4.936685 ATGCTTTCTTCTTCCTTACCCT 57.063 40.909 0.00 0.00 0.00 4.34
972 980 5.240403 GTGACTCTCCAAATGCTTTCTTCTT 59.760 40.000 0.00 0.00 0.00 2.52
1014 1022 0.036875 GGCACCAGTACCTGCTTTCT 59.963 55.000 7.50 0.00 33.63 2.52
1083 1091 1.078848 GAAGCCGCCATCACAGTCT 60.079 57.895 0.00 0.00 0.00 3.24
1098 1106 0.905357 ACCCCATCTCTTCCACGAAG 59.095 55.000 0.00 0.00 40.65 3.79
1200 1208 2.278661 GATCGCCGAGACGAACCC 60.279 66.667 0.00 0.00 46.59 4.11
1287 1295 3.514706 CCTCATCATCAGTATCCCTCAGG 59.485 52.174 0.00 0.00 0.00 3.86
1428 1436 1.266160 CCCTGCCAATGCCATCCAAA 61.266 55.000 0.00 0.00 36.33 3.28
1548 1556 1.567357 GGTCTCTCTCCCTTGCTCTT 58.433 55.000 0.00 0.00 0.00 2.85
1597 1605 4.462483 GGCCTCATTGTTGGAGTTTATCAA 59.538 41.667 0.00 0.00 0.00 2.57
1602 1610 2.380064 TGGCCTCATTGTTGGAGTTT 57.620 45.000 3.32 0.00 0.00 2.66
1698 1706 2.038557 GCCAGGACCAAGAAAGTAGTCA 59.961 50.000 0.00 0.00 0.00 3.41
1831 1839 1.261480 AGACAGACTGTACAGCCCAG 58.739 55.000 22.90 13.57 36.01 4.45
1893 1901 5.523188 GCAATTGGAGTGAAATTTGTGTTGA 59.477 36.000 7.72 0.00 0.00 3.18
1902 1910 4.161001 GGAAGGATGCAATTGGAGTGAAAT 59.839 41.667 7.72 0.00 0.00 2.17
2200 2208 2.509166 TACCTTCAGCTCTCGGAAGA 57.491 50.000 11.96 0.00 44.02 2.87
2205 2213 4.626042 AGCATAATTACCTTCAGCTCTCG 58.374 43.478 0.00 0.00 0.00 4.04
2380 2388 2.587322 TAAAGACGCCGGCCTCATGG 62.587 60.000 23.46 8.22 0.00 3.66
2477 2486 3.498082 GCATTAAACCGTTACAAGCCAG 58.502 45.455 0.00 0.00 0.00 4.85
2489 2498 4.201679 GGCGGCGGGCATTAAACC 62.202 66.667 9.78 0.00 46.16 3.27
2504 2513 2.861935 ACACGCATACTGTAAATACGGC 59.138 45.455 0.00 0.00 36.01 5.68
2509 2518 4.062293 ACACACACACGCATACTGTAAAT 58.938 39.130 0.00 0.00 0.00 1.40
2530 2539 9.694137 ACAGACTAGAGTACTTTTATTTCACAC 57.306 33.333 0.00 0.00 0.00 3.82
2553 2562 1.746220 TCCCGTCCACAAAAACAACAG 59.254 47.619 0.00 0.00 0.00 3.16
2562 2571 3.564053 GGGTAATTATCCCGTCCACAA 57.436 47.619 3.04 0.00 35.27 3.33
2615 2624 3.270027 TCCAGACATAAACCATTCAGCG 58.730 45.455 0.00 0.00 0.00 5.18
2714 2723 3.754850 TGAGCAAAGTCACATCTCATTGG 59.245 43.478 0.00 0.00 0.00 3.16
2723 2732 3.490439 TGAATCCTGAGCAAAGTCACA 57.510 42.857 0.00 0.00 0.00 3.58
2872 3003 3.430651 CCACCACACAAGTTTGAAGCAAT 60.431 43.478 0.00 0.00 0.00 3.56
2873 3004 2.094286 CCACCACACAAGTTTGAAGCAA 60.094 45.455 0.00 0.00 0.00 3.91
2874 3005 1.476085 CCACCACACAAGTTTGAAGCA 59.524 47.619 0.00 0.00 0.00 3.91
2876 3007 1.476085 TGCCACCACACAAGTTTGAAG 59.524 47.619 0.00 0.00 0.00 3.02
2877 3008 1.550327 TGCCACCACACAAGTTTGAA 58.450 45.000 0.00 0.00 0.00 2.69
2987 3125 9.323484 CTGAGTCCAGAATTCAGTTGGAACAAC 62.323 44.444 14.63 4.04 43.44 3.32
3030 3168 4.596585 AACCACTTGCCACCCCCG 62.597 66.667 0.00 0.00 0.00 5.73


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

AutoCloner maintained by Alex Coulton.