Multiple sequence alignment - TraesCS5A01G386200

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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 TraesCS5A01G386200 chr5A 100.000 2389 0 0 1 2389 584029796 584032184 0.000000e+00 4412
1 TraesCS5A01G386200 chr5A 85.224 1543 225 3 491 2031 122126432 122127973 0.000000e+00 1583
2 TraesCS5A01G386200 chr5A 86.464 362 46 2 2030 2389 595941253 595940893 6.190000e-106 394
3 TraesCS5A01G386200 chr7A 97.623 1220 27 2 1171 2389 255887277 255886059 0.000000e+00 2091
4 TraesCS5A01G386200 chr7A 83.004 1418 227 12 620 2032 223791337 223792745 0.000000e+00 1271
5 TraesCS5A01G386200 chr4A 93.642 1274 78 3 761 2032 12649935 12651207 0.000000e+00 1901
6 TraesCS5A01G386200 chr4A 86.796 1545 199 5 491 2031 486299672 486298129 0.000000e+00 1718
7 TraesCS5A01G386200 chr4A 88.462 338 39 0 2052 2389 43907854 43907517 2.210000e-110 409
8 TraesCS5A01G386200 chr4B 86.602 1545 203 4 491 2032 591235080 591233537 0.000000e+00 1703
9 TraesCS5A01G386200 chr6D 86.278 1545 201 9 491 2031 128082485 128084022 0.000000e+00 1668
10 TraesCS5A01G386200 chr2D 86.075 1544 211 4 491 2031 531631223 531629681 0.000000e+00 1657
11 TraesCS5A01G386200 chr2D 85.294 476 65 3 3 473 52406133 52405658 9.930000e-134 486
12 TraesCS5A01G386200 chr2D 84.490 490 67 7 1 484 293172084 293171598 2.150000e-130 475
13 TraesCS5A01G386200 chr2D 84.792 480 64 7 1 473 100106508 100106985 7.730000e-130 473
14 TraesCS5A01G386200 chr2D 84.049 489 72 4 1 484 63887638 63888125 1.290000e-127 466
15 TraesCS5A01G386200 chr2D 86.226 363 46 4 2030 2389 450028027 450028388 8.010000e-105 390
16 TraesCS5A01G386200 chr6B 85.755 1390 193 4 491 1876 546087759 546086371 0.000000e+00 1465
17 TraesCS5A01G386200 chr5D 87.715 1164 136 7 491 1652 511890261 511889103 0.000000e+00 1351
18 TraesCS5A01G386200 chr5D 85.510 490 64 5 1 484 230062965 230063453 2.740000e-139 505
19 TraesCS5A01G386200 chr5D 87.870 338 41 0 2052 2389 33993127 33992790 4.780000e-107 398
20 TraesCS5A01G386200 chr4D 85.504 476 63 5 1 473 128103394 128103866 2.130000e-135 492
21 TraesCS5A01G386200 chr4D 83.702 497 73 5 1 492 368327811 368328304 1.670000e-126 462
22 TraesCS5A01G386200 chr3D 84.458 489 70 4 1 484 522781461 522780974 5.970000e-131 477
23 TraesCS5A01G386200 chr3D 83.333 504 76 5 1 499 502420626 502420126 2.160000e-125 459
24 TraesCS5A01G386200 chr3D 86.740 362 46 2 2030 2389 460044757 460045118 3.700000e-108 401
25 TraesCS5A01G386200 chr2A 87.906 339 41 0 2051 2389 624758296 624757958 1.330000e-107 399
26 TraesCS5A01G386200 chr7D 86.188 362 48 2 2030 2389 500165925 500165564 8.010000e-105 390
27 TraesCS5A01G386200 chr3A 86.226 363 47 3 2030 2389 147754537 147754175 8.010000e-105 390


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 TraesCS5A01G386200 chr5A 584029796 584032184 2388 False 4412 4412 100.000 1 2389 1 chr5A.!!$F2 2388
1 TraesCS5A01G386200 chr5A 122126432 122127973 1541 False 1583 1583 85.224 491 2031 1 chr5A.!!$F1 1540
2 TraesCS5A01G386200 chr7A 255886059 255887277 1218 True 2091 2091 97.623 1171 2389 1 chr7A.!!$R1 1218
3 TraesCS5A01G386200 chr7A 223791337 223792745 1408 False 1271 1271 83.004 620 2032 1 chr7A.!!$F1 1412
4 TraesCS5A01G386200 chr4A 12649935 12651207 1272 False 1901 1901 93.642 761 2032 1 chr4A.!!$F1 1271
5 TraesCS5A01G386200 chr4A 486298129 486299672 1543 True 1718 1718 86.796 491 2031 1 chr4A.!!$R2 1540
6 TraesCS5A01G386200 chr4B 591233537 591235080 1543 True 1703 1703 86.602 491 2032 1 chr4B.!!$R1 1541
7 TraesCS5A01G386200 chr6D 128082485 128084022 1537 False 1668 1668 86.278 491 2031 1 chr6D.!!$F1 1540
8 TraesCS5A01G386200 chr2D 531629681 531631223 1542 True 1657 1657 86.075 491 2031 1 chr2D.!!$R3 1540
9 TraesCS5A01G386200 chr6B 546086371 546087759 1388 True 1465 1465 85.755 491 1876 1 chr6B.!!$R1 1385
10 TraesCS5A01G386200 chr5D 511889103 511890261 1158 True 1351 1351 87.715 491 1652 1 chr5D.!!$R2 1161
11 TraesCS5A01G386200 chr3D 502420126 502420626 500 True 459 459 83.333 1 499 1 chr3D.!!$R1 498

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
195 197 0.038343 GGCAACCGTGGAGTAACGTA 60.038 55.0 0.0 0.0 42.01 3.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2037 2053 0.669625 CTCGGACTTCGGTGGGAAAC 60.67 60.0 0.0 0.0 39.77 2.78 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 2.264480 CTCGACCCGTGCAATCCA 59.736 61.111 0.00 0.00 0.00 3.41
79 81 6.818142 GGGGAAAAATGTTGGTGATGATTTAG 59.182 38.462 0.00 0.00 0.00 1.85
84 86 6.610075 AATGTTGGTGATGATTTAGCCTTT 57.390 33.333 0.00 0.00 0.00 3.11
86 88 4.176271 GTTGGTGATGATTTAGCCTTTGC 58.824 43.478 0.00 0.00 37.95 3.68
91 93 2.849880 TGATTTAGCCTTTGCGATGC 57.150 45.000 0.00 0.00 44.33 3.91
99 101 1.021390 CCTTTGCGATGCCGAACTCT 61.021 55.000 0.00 0.00 38.22 3.24
102 104 1.298157 TTGCGATGCCGAACTCTTGG 61.298 55.000 0.00 0.00 38.22 3.61
104 106 1.298859 GCGATGCCGAACTCTTGGTT 61.299 55.000 0.00 0.00 41.40 3.67
124 126 1.155042 GGCTTGCCGAGATGATGATC 58.845 55.000 0.00 0.00 0.00 2.92
125 127 1.155042 GCTTGCCGAGATGATGATCC 58.845 55.000 0.00 0.00 0.00 3.36
128 130 1.260544 TGCCGAGATGATGATCCGAT 58.739 50.000 5.00 0.00 0.00 4.18
131 133 2.734809 GCCGAGATGATGATCCGATGAG 60.735 54.545 5.00 0.00 0.00 2.90
137 139 3.459232 TGATGATCCGATGAGGTTGAC 57.541 47.619 0.00 0.00 41.99 3.18
149 151 0.535102 AGGTTGACCTTGGCTCAACG 60.535 55.000 18.98 0.00 46.09 4.10
151 153 0.868406 GTTGACCTTGGCTCAACGAG 59.132 55.000 14.42 0.00 38.52 4.18
152 154 0.250295 TTGACCTTGGCTCAACGAGG 60.250 55.000 0.00 0.00 45.87 4.63
159 161 2.202623 GCTCAACGAGGCGACGAT 60.203 61.111 13.15 0.00 37.03 3.73
167 169 0.589229 CGAGGCGACGATGTGTCTAC 60.589 60.000 0.00 0.00 45.87 2.59
195 197 0.038343 GGCAACCGTGGAGTAACGTA 60.038 55.000 0.00 0.00 42.01 3.57
201 203 0.798776 CGTGGAGTAACGTAGTCGGT 59.201 55.000 0.00 0.00 45.00 4.69
224 226 2.024868 TTTGACACCGACGCGATGG 61.025 57.895 15.93 16.96 0.00 3.51
232 234 0.806102 CCGACGCGATGGTGAAGATT 60.806 55.000 15.93 0.00 0.00 2.40
234 236 1.517276 CGACGCGATGGTGAAGATTAC 59.483 52.381 15.93 0.00 0.00 1.89
235 237 1.859080 GACGCGATGGTGAAGATTACC 59.141 52.381 15.93 0.00 38.71 2.85
237 239 2.128035 CGCGATGGTGAAGATTACCTC 58.872 52.381 0.00 0.00 39.01 3.85
245 247 3.939592 GGTGAAGATTACCTCGGAAAAGG 59.060 47.826 0.00 0.00 42.55 3.11
247 249 3.263425 TGAAGATTACCTCGGAAAAGGCT 59.737 43.478 0.00 0.00 40.34 4.58
249 251 3.875125 AGATTACCTCGGAAAAGGCTTC 58.125 45.455 0.00 0.00 40.34 3.86
257 259 5.048013 ACCTCGGAAAAGGCTTCAAAATTAG 60.048 40.000 0.00 0.00 40.34 1.73
262 264 3.961480 AAGGCTTCAAAATTAGTGGGC 57.039 42.857 0.00 0.00 0.00 5.36
272 274 5.069648 TCAAAATTAGTGGGCATGTGTTTGA 59.930 36.000 0.00 0.00 31.87 2.69
295 297 6.951198 TGAGAACAAAACACAATACCCCATAT 59.049 34.615 0.00 0.00 0.00 1.78
360 362 4.559862 AAGATGAACTCGGGTCAGATTT 57.440 40.909 0.00 0.00 0.00 2.17
366 368 3.771577 ACTCGGGTCAGATTTGTTCTT 57.228 42.857 0.00 0.00 29.93 2.52
377 379 4.682860 CAGATTTGTTCTTGCGCAGAAAAT 59.317 37.500 19.25 16.43 43.52 1.82
384 386 6.106003 TGTTCTTGCGCAGAAAATAGATCTA 58.894 36.000 19.25 4.57 43.52 1.98
389 391 8.677300 TCTTGCGCAGAAAATAGATCTAAAAAT 58.323 29.630 11.31 0.00 0.00 1.82
390 392 8.841444 TTGCGCAGAAAATAGATCTAAAAATC 57.159 30.769 11.31 3.64 0.00 2.17
412 416 0.770499 TGCACTCATCAGGTTTCCCA 59.230 50.000 0.00 0.00 0.00 4.37
417 421 3.515502 CACTCATCAGGTTTCCCAGAGTA 59.484 47.826 0.00 0.00 32.89 2.59
423 427 3.056107 TCAGGTTTCCCAGAGTATGAACG 60.056 47.826 0.00 0.00 0.00 3.95
450 456 3.243359 TCAAGCTGAAATTGAGGGGTT 57.757 42.857 0.00 0.00 32.96 4.11
453 459 2.962859 AGCTGAAATTGAGGGGTTGTT 58.037 42.857 0.00 0.00 0.00 2.83
459 465 6.321181 GCTGAAATTGAGGGGTTGTTGATATA 59.679 38.462 0.00 0.00 0.00 0.86
461 467 7.410174 TGAAATTGAGGGGTTGTTGATATAGT 58.590 34.615 0.00 0.00 0.00 2.12
467 473 7.514721 TGAGGGGTTGTTGATATAGTAATTCC 58.485 38.462 0.00 0.00 0.00 3.01
469 475 7.287810 AGGGGTTGTTGATATAGTAATTCCAC 58.712 38.462 0.00 0.00 0.00 4.02
473 479 7.499232 GGTTGTTGATATAGTAATTCCACAGCT 59.501 37.037 0.00 0.00 0.00 4.24
474 480 9.542462 GTTGTTGATATAGTAATTCCACAGCTA 57.458 33.333 0.00 0.00 0.00 3.32
484 490 2.093306 TCCACAGCTAATGAACGGTG 57.907 50.000 0.00 0.00 34.97 4.94
485 491 1.346395 TCCACAGCTAATGAACGGTGT 59.654 47.619 0.00 0.00 42.00 4.16
487 493 2.831685 ACAGCTAATGAACGGTGTGA 57.168 45.000 0.00 0.00 40.03 3.58
488 494 3.334583 ACAGCTAATGAACGGTGTGAT 57.665 42.857 0.00 0.00 40.03 3.06
489 495 3.674997 ACAGCTAATGAACGGTGTGATT 58.325 40.909 0.00 0.00 40.03 2.57
540 546 2.898729 ATCCTGAGTCCTTATGTGCG 57.101 50.000 0.00 0.00 0.00 5.34
542 548 1.204704 TCCTGAGTCCTTATGTGCGTG 59.795 52.381 0.00 0.00 0.00 5.34
543 549 1.066858 CCTGAGTCCTTATGTGCGTGT 60.067 52.381 0.00 0.00 0.00 4.49
576 582 4.217767 GCTAAATATTTTCCGGATGGGGAC 59.782 45.833 4.15 0.00 35.32 4.46
580 586 3.577805 ATTTTCCGGATGGGGACTTAG 57.422 47.619 4.15 0.00 35.32 2.18
585 591 1.134491 CCGGATGGGGACTTAGTGAAC 60.134 57.143 0.00 0.00 0.00 3.18
603 609 1.905637 ACGCAAAACTAAGGAAGGGG 58.094 50.000 0.00 0.00 0.00 4.79
642 648 5.066764 GCAAAGTATTATGGCGGGAGTAAAA 59.933 40.000 0.00 0.00 0.00 1.52
744 751 4.142026 TGTGTGAATAGGAGGGTCATTACG 60.142 45.833 0.00 0.00 0.00 3.18
747 754 2.097110 ATAGGAGGGTCATTACGCCA 57.903 50.000 0.00 0.00 39.30 5.69
876 883 2.742116 GCTCGCAATCCCCCTACCA 61.742 63.158 0.00 0.00 0.00 3.25
1031 1040 3.900601 ACCAATGTTAATCCTGTTTGGCA 59.099 39.130 0.00 0.00 37.68 4.92
1033 1042 4.871557 CCAATGTTAATCCTGTTTGGCATG 59.128 41.667 0.00 0.00 35.26 4.06
1109 1118 2.449518 TGGAACCCTCCTGTGCCA 60.450 61.111 0.00 0.00 41.92 4.92
1122 1131 3.304721 TGCCATGCCACACTTGCC 61.305 61.111 0.00 0.00 0.00 4.52
1286 1297 3.838271 GATCGTGCGGGAGAGGCA 61.838 66.667 0.00 0.00 38.25 4.75
1314 1325 4.042311 TGGAGTTCTTACTGTTAATGCCCA 59.958 41.667 0.00 0.00 33.84 5.36
1681 1693 4.119862 GCCGATGTATTAACAGCAGAAGA 58.880 43.478 0.00 0.00 42.24 2.87
1757 1771 8.774586 GTCTTGTTGTTAACTCTGACAATATGT 58.225 33.333 7.22 0.00 37.98 2.29
1951 1966 0.768221 AGGACTGGTTTGAGGAGCCA 60.768 55.000 0.00 0.00 37.09 4.75
2053 2069 4.391869 GGTTTCCCACCGAAGTCC 57.608 61.111 0.00 0.00 35.12 3.85
2086 2102 1.229400 ACCCCTCGCCCTAAACTCA 60.229 57.895 0.00 0.00 0.00 3.41
2162 2178 1.790755 TCCTCCATTGAAACGTGACG 58.209 50.000 2.24 2.24 0.00 4.35
2190 2206 2.143122 ACATGGTTGTTGTAGACGCAG 58.857 47.619 0.00 0.00 29.55 5.18
2240 2256 3.444805 GCGACACTCGAGGAGGCT 61.445 66.667 18.41 0.00 43.74 4.58
2268 2284 1.388547 GGATACAATTTCGCTGCCCA 58.611 50.000 0.00 0.00 0.00 5.36
2289 2305 2.517402 AAAAAGCACGGTCGCCCA 60.517 55.556 0.00 0.00 0.00 5.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 3.554692 GATTGCACGGGTCGAGCG 61.555 66.667 8.77 6.72 45.48 5.03
36 37 1.449423 CATGGATTGCACGGGTCGA 60.449 57.895 0.00 0.00 0.00 4.20
39 40 2.044053 CCCATGGATTGCACGGGT 60.044 61.111 15.22 0.00 31.80 5.28
40 41 2.834505 CCCCATGGATTGCACGGG 60.835 66.667 15.22 1.77 36.59 5.28
46 47 4.263418 ACCAACATTTTTCCCCATGGATTG 60.263 41.667 15.22 0.90 41.40 2.67
52 53 4.166539 TCATCACCAACATTTTTCCCCAT 58.833 39.130 0.00 0.00 0.00 4.00
58 59 7.008021 AGGCTAAATCATCACCAACATTTTT 57.992 32.000 0.00 0.00 0.00 1.94
59 60 6.610075 AGGCTAAATCATCACCAACATTTT 57.390 33.333 0.00 0.00 0.00 1.82
60 61 6.610075 AAGGCTAAATCATCACCAACATTT 57.390 33.333 0.00 0.00 0.00 2.32
61 62 6.400568 CAAAGGCTAAATCATCACCAACATT 58.599 36.000 0.00 0.00 0.00 2.71
79 81 2.202479 GTTCGGCATCGCAAAGGC 60.202 61.111 0.00 0.00 36.13 4.35
84 86 1.741401 CCAAGAGTTCGGCATCGCA 60.741 57.895 0.00 0.00 36.13 5.10
86 88 0.443869 CAACCAAGAGTTCGGCATCG 59.556 55.000 0.00 0.00 36.18 3.84
91 93 0.593128 CAAGCCAACCAAGAGTTCGG 59.407 55.000 0.00 0.00 36.18 4.30
99 101 1.074775 ATCTCGGCAAGCCAACCAA 59.925 52.632 12.19 0.00 35.37 3.67
102 104 0.379669 CATCATCTCGGCAAGCCAAC 59.620 55.000 12.19 0.00 35.37 3.77
104 106 0.471191 ATCATCATCTCGGCAAGCCA 59.529 50.000 12.19 0.00 35.37 4.75
137 139 3.121030 CGCCTCGTTGAGCCAAGG 61.121 66.667 0.00 0.00 0.00 3.61
140 142 4.717629 CGTCGCCTCGTTGAGCCA 62.718 66.667 0.00 0.00 0.00 4.75
159 161 2.959372 CGACCTGCGGTAGACACA 59.041 61.111 0.09 0.00 35.25 3.72
177 179 1.336240 ACTACGTTACTCCACGGTTGC 60.336 52.381 0.00 0.00 44.82 4.17
179 181 1.197721 CGACTACGTTACTCCACGGTT 59.802 52.381 0.00 0.00 44.82 4.44
180 182 0.798776 CGACTACGTTACTCCACGGT 59.201 55.000 0.00 0.00 44.82 4.83
186 188 2.079925 ACCAGACCGACTACGTTACTC 58.920 52.381 0.00 0.00 37.88 2.59
189 191 2.884012 TCAAACCAGACCGACTACGTTA 59.116 45.455 0.00 0.00 37.88 3.18
195 197 3.680842 GTGTCAAACCAGACCGACT 57.319 52.632 0.00 0.00 37.73 4.18
216 218 1.480954 AGGTAATCTTCACCATCGCGT 59.519 47.619 5.77 0.00 38.62 6.01
224 226 3.374367 GCCTTTTCCGAGGTAATCTTCAC 59.626 47.826 0.00 0.00 39.11 3.18
232 234 3.495434 TTTGAAGCCTTTTCCGAGGTA 57.505 42.857 0.00 0.00 39.11 3.08
234 236 3.942130 ATTTTGAAGCCTTTTCCGAGG 57.058 42.857 0.00 0.00 39.93 4.63
235 237 5.858581 CACTAATTTTGAAGCCTTTTCCGAG 59.141 40.000 0.00 0.00 0.00 4.63
237 239 4.923281 CCACTAATTTTGAAGCCTTTTCCG 59.077 41.667 0.00 0.00 0.00 4.30
245 247 3.928375 CACATGCCCACTAATTTTGAAGC 59.072 43.478 0.00 0.00 0.00 3.86
247 249 5.543507 AACACATGCCCACTAATTTTGAA 57.456 34.783 0.00 0.00 0.00 2.69
249 251 5.295950 TCAAACACATGCCCACTAATTTTG 58.704 37.500 0.00 0.00 0.00 2.44
257 259 1.680735 TGTTCTCAAACACATGCCCAC 59.319 47.619 0.00 0.00 40.45 4.61
262 264 6.702972 TTGTGTTTTGTTCTCAAACACATG 57.297 33.333 24.44 0.00 44.90 3.21
272 274 8.887264 TTATATGGGGTATTGTGTTTTGTTCT 57.113 30.769 0.00 0.00 0.00 3.01
295 297 9.255304 CGGACATCCTTTTTGAAGAAATTTTTA 57.745 29.630 0.00 0.00 0.00 1.52
300 302 6.648879 TTCGGACATCCTTTTTGAAGAAAT 57.351 33.333 0.00 0.00 0.00 2.17
303 305 5.183140 GGATTTCGGACATCCTTTTTGAAGA 59.817 40.000 14.54 0.00 37.77 2.87
347 349 2.160417 GCAAGAACAAATCTGACCCGAG 59.840 50.000 0.00 0.00 38.79 4.63
353 355 2.493035 TCTGCGCAAGAACAAATCTGA 58.507 42.857 13.05 0.00 38.79 3.27
355 357 3.988379 TTTCTGCGCAAGAACAAATCT 57.012 38.095 13.05 0.00 44.77 2.40
360 362 4.937620 AGATCTATTTTCTGCGCAAGAACA 59.062 37.500 13.05 10.89 44.77 3.18
366 368 7.011016 TCGATTTTTAGATCTATTTTCTGCGCA 59.989 33.333 10.98 10.98 0.00 6.09
377 379 8.526218 GATGAGTGCATCGATTTTTAGATCTA 57.474 34.615 0.00 0.00 41.31 1.98
406 410 2.901192 TGACCGTTCATACTCTGGGAAA 59.099 45.455 0.00 0.00 0.00 3.13
412 416 4.440802 GCTTGATCTGACCGTTCATACTCT 60.441 45.833 0.00 0.00 0.00 3.24
417 421 2.234661 TCAGCTTGATCTGACCGTTCAT 59.765 45.455 0.00 0.00 38.11 2.57
423 427 4.096081 CCTCAATTTCAGCTTGATCTGACC 59.904 45.833 0.00 0.00 42.27 4.02
459 465 4.876107 CCGTTCATTAGCTGTGGAATTACT 59.124 41.667 0.00 0.00 0.00 2.24
461 467 4.634004 CACCGTTCATTAGCTGTGGAATTA 59.366 41.667 0.00 0.00 0.00 1.40
467 473 2.412870 TCACACCGTTCATTAGCTGTG 58.587 47.619 0.00 0.00 0.00 3.66
469 475 4.685169 AAATCACACCGTTCATTAGCTG 57.315 40.909 0.00 0.00 0.00 4.24
473 479 5.004448 TGGCTAAAATCACACCGTTCATTA 58.996 37.500 0.00 0.00 0.00 1.90
474 480 3.823873 TGGCTAAAATCACACCGTTCATT 59.176 39.130 0.00 0.00 0.00 2.57
510 516 8.591940 CATAAGGACTCAGGATTATCAATCAGA 58.408 37.037 0.00 0.00 39.71 3.27
542 548 9.152595 CCGGAAAATATTTAGCTCCTAAGATAC 57.847 37.037 13.17 0.00 0.00 2.24
543 549 9.096823 TCCGGAAAATATTTAGCTCCTAAGATA 57.903 33.333 0.00 0.00 0.00 1.98
576 582 5.917541 TCCTTAGTTTTGCGTTCACTAAG 57.082 39.130 13.88 13.88 45.15 2.18
580 586 3.304458 CCCTTCCTTAGTTTTGCGTTCAC 60.304 47.826 0.00 0.00 0.00 3.18
585 591 1.810755 GACCCCTTCCTTAGTTTTGCG 59.189 52.381 0.00 0.00 0.00 4.85
597 603 3.687125 CCAAGTAAAAGAGGACCCCTTC 58.313 50.000 0.00 0.00 31.76 3.46
603 609 6.819397 ATACTTTGCCAAGTAAAAGAGGAC 57.181 37.500 13.80 0.00 46.45 3.85
663 670 1.153989 TCCATTTCCAACCCGCCAA 59.846 52.632 0.00 0.00 0.00 4.52
744 751 3.984732 AGGTGCCCCCTTCTTGGC 61.985 66.667 0.00 0.00 42.73 4.52
876 883 9.903682 GCAATGAAGTCTAACATATTATGCATT 57.096 29.630 3.54 0.00 31.26 3.56
933 942 3.927142 CCTCCAAATAAGCCGATCGTATC 59.073 47.826 15.09 2.75 0.00 2.24
1122 1131 6.545666 TGGGTGATACTTTTATGTGCCTATTG 59.454 38.462 0.00 0.00 0.00 1.90
1286 1297 7.255486 GGCATTAACAGTAAGAACTCCAAAACT 60.255 37.037 0.00 0.00 31.97 2.66
1314 1325 7.451566 AGAACCCATTATTGCTAAGTCTTGTTT 59.548 33.333 0.00 0.00 0.00 2.83
1681 1693 1.547901 GGCCAAACCTTAGAGCCAACT 60.548 52.381 0.00 0.00 43.32 3.16
1757 1771 9.919416 TCCATTCTTCATTATTTCAATCACCTA 57.081 29.630 0.00 0.00 0.00 3.08
1951 1966 5.642063 CAGTAAACGTACAATGTCCCTCATT 59.358 40.000 0.00 0.00 46.32 2.57
2037 2053 0.669625 CTCGGACTTCGGTGGGAAAC 60.670 60.000 0.00 0.00 39.77 2.78
2043 2059 2.125912 CCAGCTCGGACTTCGGTG 60.126 66.667 0.00 0.00 39.77 4.94
2086 2102 3.008813 CGAATCTGGATGGGATTCTGGAT 59.991 47.826 12.51 0.00 43.82 3.41
2151 2167 5.910166 CCATGTAAAATTTCGTCACGTTTCA 59.090 36.000 0.00 0.00 0.00 2.69
2162 2178 7.149031 GCGTCTACAACAACCATGTAAAATTTC 60.149 37.037 0.00 0.00 39.40 2.17
2190 2206 3.758300 CATTAGTGGAATTGTGCGGAAC 58.242 45.455 0.00 0.00 0.00 3.62
2194 2210 2.917701 TGCATTAGTGGAATTGTGCG 57.082 45.000 0.00 0.00 35.46 5.34
2240 2256 2.088423 GAAATTGTATCCACCGCCACA 58.912 47.619 0.00 0.00 0.00 4.17
2248 2264 1.340502 TGGGCAGCGAAATTGTATCCA 60.341 47.619 0.00 0.00 0.00 3.41
2289 2305 1.608590 CTCAACGTCAACATTGCCCTT 59.391 47.619 0.00 0.00 0.00 3.95


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

AutoCloner maintained by Alex Coulton.