Multiple sequence alignment - TraesCS4D01G084600

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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 TraesCS4D01G084600 chr4D 100.000 3253 0 0 1 3253 58268261 58271513 0.000000e+00 6008.0
1 TraesCS4D01G084600 chr4D 98.630 73 1 0 2300 2372 58270527 58270599 2.630000e-26 130.0
2 TraesCS4D01G084600 chr4D 98.630 73 1 0 2267 2339 58270560 58270632 2.630000e-26 130.0
3 TraesCS4D01G084600 chr4D 97.500 40 1 0 2333 2372 58270527 58270566 5.820000e-08 69.4
4 TraesCS4D01G084600 chr4D 97.500 40 1 0 2267 2306 58270593 58270632 5.820000e-08 69.4
5 TraesCS4D01G084600 chr4B 93.022 2336 99 29 1 2306 87681651 87683952 0.000000e+00 3352.0
6 TraesCS4D01G084600 chr4B 93.355 918 44 9 2335 3251 87683915 87684816 0.000000e+00 1341.0
7 TraesCS4D01G084600 chr4B 93.750 48 3 0 414 461 94263685 94263732 4.500000e-09 73.1
8 TraesCS4D01G084600 chr4A 90.797 2347 159 39 1 2306 537545828 537543498 0.000000e+00 3085.0
9 TraesCS4D01G084600 chr4A 93.622 784 41 8 1 778 537546792 537546012 0.000000e+00 1162.0
10 TraesCS4D01G084600 chr4A 97.289 664 18 0 2335 2998 537543535 537542872 0.000000e+00 1127.0
11 TraesCS4D01G084600 chr4A 92.233 206 13 2 3050 3253 537541863 537541659 4.110000e-74 289.0
12 TraesCS4D01G084600 chr4A 95.714 70 3 0 2976 3045 537542547 537542478 2.650000e-21 113.0
13 TraesCS4D01G084600 chr4A 100.000 38 0 0 2302 2339 537543535 537543498 1.620000e-08 71.3
14 TraesCS4D01G084600 chr2B 93.750 48 3 0 414 461 195176822 195176775 4.500000e-09 73.1
15 TraesCS4D01G084600 chr1B 93.750 48 3 0 414 461 466329274 466329321 4.500000e-09 73.1
16 TraesCS4D01G084600 chr5D 86.538 52 3 1 414 461 509675160 509675109 2.000000e-03 54.7
17 TraesCS4D01G084600 chr5B 86.538 52 3 1 414 461 640564111 640564060 2.000000e-03 54.7


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 TraesCS4D01G084600 chr4D 58268261 58271513 3252 False 1281.36 6008 98.4520 1 3253 5 chr4D.!!$F1 3252
1 TraesCS4D01G084600 chr4B 87681651 87684816 3165 False 2346.50 3352 93.1885 1 3251 2 chr4B.!!$F2 3250
2 TraesCS4D01G084600 chr4A 537541659 537546792 5133 True 974.55 3085 94.9425 1 3253 6 chr4A.!!$R1 3252

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
115 119 1.136565 CAACATAGGGTTTGCGGCG 59.863 57.895 0.51 0.51 37.72 6.46 F
1821 2818 0.392461 GGATAGCCAGTTCGGTGCAA 60.392 55.000 0.00 0.00 36.97 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1950 2947 0.582005 AGCACAAAGAACGCTTCGAC 59.418 50.0 0.0 0.0 31.82 4.20 R
2940 3945 0.537188 ACTGTGATAGCAACCCTCCG 59.463 55.0 0.0 0.0 0.00 4.63 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
66 70 5.817816 AGTAATTCTTAATGCTCTTCCACCG 59.182 40.000 0.00 0.00 0.00 4.94
115 119 1.136565 CAACATAGGGTTTGCGGCG 59.863 57.895 0.51 0.51 37.72 6.46
122 126 3.660111 GGTTTGCGGCGCTTCACT 61.660 61.111 33.26 0.00 0.00 3.41
142 146 4.094887 CACTGCCATCATTTACACCACTAC 59.905 45.833 0.00 0.00 0.00 2.73
208 212 2.441750 ACTTAGGGTTTGTGGCTCTTCA 59.558 45.455 0.00 0.00 0.00 3.02
279 283 6.932960 ACACTCTTAGTAACCACCATAACAAC 59.067 38.462 0.00 0.00 0.00 3.32
292 296 4.214758 ACCATAACAACGTAAAGCTTGTCC 59.785 41.667 0.00 0.00 30.11 4.02
326 330 9.898152 TTCCCTAAGAAATTTGTCAATGTTTTT 57.102 25.926 0.00 0.00 0.00 1.94
481 491 6.596309 ACAGAATTTCCTCATCCCTTTTTC 57.404 37.500 0.00 0.00 0.00 2.29
518 528 5.449725 GCATTCAAAGGCTAGTTTCAGGATC 60.450 44.000 0.00 0.00 32.08 3.36
559 572 1.416049 CACCATCGTTTGTCGCGAG 59.584 57.895 10.24 0.00 41.83 5.03
655 668 2.241941 ACCCATGTAGATGCCACATCAA 59.758 45.455 10.02 0.00 34.39 2.57
657 670 2.288729 CCATGTAGATGCCACATCAACG 59.711 50.000 10.02 0.00 34.39 4.10
716 729 9.587772 TCTAGATTCACACTAAGAGTAAAATGC 57.412 33.333 0.00 0.00 0.00 3.56
734 747 5.902613 AATGCTTCATGCTTTAGTGCTAA 57.097 34.783 0.00 0.00 43.37 3.09
981 1959 6.208599 TCAAACCCCACTCATAAAATTGTCTC 59.791 38.462 0.00 0.00 0.00 3.36
1056 2040 2.491022 CCATCTCCGTCTCCGTCCC 61.491 68.421 0.00 0.00 0.00 4.46
1196 2181 2.029606 CCGTAAACTAATCCCGTTTCGC 59.970 50.000 0.00 0.00 36.18 4.70
1334 2320 2.368875 GAGTGTTGGTTTGGAGGAGAGA 59.631 50.000 0.00 0.00 0.00 3.10
1480 2467 1.017701 GGTTGGTCCATCGGTTCGTC 61.018 60.000 0.00 0.00 35.97 4.20
1570 2566 5.680594 TGCTTTGGATGGCATAGAAAAAT 57.319 34.783 0.00 0.00 33.23 1.82
1694 2690 3.371285 CAGATGATGTGCAGTTCAGTCAG 59.629 47.826 4.94 0.00 0.00 3.51
1735 2732 8.746052 TCAGATCTGTTAAAAACCTTCAGAAA 57.254 30.769 21.92 0.00 38.38 2.52
1773 2770 3.921104 TCATCTCAGTTCCTGGATAGCT 58.079 45.455 0.00 0.00 31.51 3.32
1788 2785 1.188863 TAGCTGCTGATCTGCACTCA 58.811 50.000 21.87 7.93 41.48 3.41
1794 2791 1.198637 GCTGATCTGCACTCACCAAAC 59.801 52.381 18.67 0.00 0.00 2.93
1821 2818 0.392461 GGATAGCCAGTTCGGTGCAA 60.392 55.000 0.00 0.00 36.97 4.08
1838 2835 2.912956 TGCAATGGAAAGAGGAGGTAGT 59.087 45.455 0.00 0.00 0.00 2.73
1890 2887 3.445096 ACCAAATACTGCAAAGAGGCATC 59.555 43.478 0.00 0.00 43.97 3.91
2030 3027 4.820744 CCTCCATTGCCCCCACCG 62.821 72.222 0.00 0.00 0.00 4.94
2264 3269 2.517998 TTACAGGGTATTGGTTGGCC 57.482 50.000 0.00 0.00 0.00 5.36
2265 3270 1.373536 TACAGGGTATTGGTTGGCCA 58.626 50.000 0.00 0.00 44.38 5.36
2274 3279 2.744062 TGGTTGGCCAAGATTGTGG 58.256 52.632 21.21 0.00 42.83 4.17
2275 3280 0.105760 TGGTTGGCCAAGATTGTGGT 60.106 50.000 21.21 0.00 42.83 4.16
2276 3281 0.318120 GGTTGGCCAAGATTGTGGTG 59.682 55.000 21.21 0.00 41.12 4.17
2277 3282 0.319813 GTTGGCCAAGATTGTGGTGC 60.320 55.000 21.21 0.00 41.12 5.01
2278 3283 0.758310 TTGGCCAAGATTGTGGTGCA 60.758 50.000 16.05 0.00 41.12 4.57
2279 3284 0.542467 TGGCCAAGATTGTGGTGCAT 60.542 50.000 0.61 0.00 41.12 3.96
2280 3285 0.609662 GGCCAAGATTGTGGTGCATT 59.390 50.000 0.00 0.00 41.12 3.56
2281 3286 1.673626 GGCCAAGATTGTGGTGCATTG 60.674 52.381 0.00 0.00 41.12 2.82
2282 3287 1.717194 CCAAGATTGTGGTGCATTGC 58.283 50.000 0.46 0.46 33.63 3.56
2283 3288 1.274167 CCAAGATTGTGGTGCATTGCT 59.726 47.619 10.49 0.00 33.63 3.91
2284 3289 2.289195 CCAAGATTGTGGTGCATTGCTT 60.289 45.455 10.49 0.00 33.63 3.91
2285 3290 2.734606 CAAGATTGTGGTGCATTGCTTG 59.265 45.455 10.49 0.00 0.00 4.01
2286 3291 2.241160 AGATTGTGGTGCATTGCTTGA 58.759 42.857 10.49 0.00 0.00 3.02
2287 3292 2.629137 AGATTGTGGTGCATTGCTTGAA 59.371 40.909 10.49 0.00 0.00 2.69
2288 3293 2.222007 TTGTGGTGCATTGCTTGAAC 57.778 45.000 10.49 0.00 32.41 3.18
2289 3294 1.109609 TGTGGTGCATTGCTTGAACA 58.890 45.000 10.49 6.57 35.29 3.18
2290 3295 1.479730 TGTGGTGCATTGCTTGAACAA 59.520 42.857 10.49 0.00 35.29 2.83
2291 3296 2.129607 GTGGTGCATTGCTTGAACAAG 58.870 47.619 10.49 9.82 35.29 3.16
2292 3297 2.030371 TGGTGCATTGCTTGAACAAGA 58.970 42.857 17.19 0.00 40.79 3.02
2293 3298 2.629137 TGGTGCATTGCTTGAACAAGAT 59.371 40.909 17.19 1.56 40.79 2.40
2294 3299 3.069872 TGGTGCATTGCTTGAACAAGATT 59.930 39.130 17.19 0.00 40.79 2.40
2295 3300 3.430895 GGTGCATTGCTTGAACAAGATTG 59.569 43.478 17.19 11.36 40.79 2.67
2296 3301 4.053295 GTGCATTGCTTGAACAAGATTGT 58.947 39.130 17.19 0.00 44.72 2.71
2297 3302 4.052608 TGCATTGCTTGAACAAGATTGTG 58.947 39.130 17.19 10.51 41.31 3.33
2298 3303 3.120786 GCATTGCTTGAACAAGATTGTGC 60.121 43.478 17.19 15.13 41.31 4.57
2299 3304 3.797451 TTGCTTGAACAAGATTGTGCA 57.203 38.095 17.19 2.09 44.79 4.57
2300 3305 3.358707 TGCTTGAACAAGATTGTGCAG 57.641 42.857 17.19 3.42 46.79 4.41
2301 3306 2.950975 TGCTTGAACAAGATTGTGCAGA 59.049 40.909 17.19 0.00 46.79 4.26
2302 3307 3.570975 TGCTTGAACAAGATTGTGCAGAT 59.429 39.130 17.19 0.00 46.79 2.90
2303 3308 4.038282 TGCTTGAACAAGATTGTGCAGATT 59.962 37.500 17.19 0.00 46.79 2.40
2304 3309 4.986659 GCTTGAACAAGATTGTGCAGATTT 59.013 37.500 17.19 0.00 46.79 2.17
2305 3310 5.464389 GCTTGAACAAGATTGTGCAGATTTT 59.536 36.000 17.19 0.00 46.79 1.82
2306 3311 6.563381 GCTTGAACAAGATTGTGCAGATTTTG 60.563 38.462 17.19 10.15 46.79 2.44
2307 3312 5.291178 TGAACAAGATTGTGCAGATTTTGG 58.709 37.500 14.16 0.00 41.70 3.28
2308 3313 4.942761 ACAAGATTGTGCAGATTTTGGT 57.057 36.364 14.16 0.00 40.49 3.67
2309 3314 4.624015 ACAAGATTGTGCAGATTTTGGTG 58.376 39.130 14.16 0.31 40.49 4.17
2310 3315 3.308438 AGATTGTGCAGATTTTGGTGC 57.692 42.857 0.00 0.00 40.29 5.01
2315 3320 1.798283 TGCAGATTTTGGTGCATTGC 58.202 45.000 0.46 0.46 44.70 3.56
2316 3321 1.345089 TGCAGATTTTGGTGCATTGCT 59.655 42.857 10.49 0.00 44.70 3.91
2317 3322 2.224329 TGCAGATTTTGGTGCATTGCTT 60.224 40.909 10.49 0.00 44.70 3.91
2318 3323 2.158841 GCAGATTTTGGTGCATTGCTTG 59.841 45.455 10.49 0.00 39.62 4.01
2319 3324 3.655486 CAGATTTTGGTGCATTGCTTGA 58.345 40.909 10.49 0.00 0.00 3.02
2320 3325 4.059511 CAGATTTTGGTGCATTGCTTGAA 58.940 39.130 10.49 0.00 0.00 2.69
2321 3326 4.060205 AGATTTTGGTGCATTGCTTGAAC 58.940 39.130 10.49 0.00 32.41 3.18
2322 3327 2.975732 TTTGGTGCATTGCTTGAACA 57.024 40.000 10.49 0.00 35.29 3.18
2323 3328 2.975732 TTGGTGCATTGCTTGAACAA 57.024 40.000 10.49 1.95 35.29 2.83
2324 3329 2.512485 TGGTGCATTGCTTGAACAAG 57.488 45.000 10.49 9.82 35.29 3.16
2325 3330 2.030371 TGGTGCATTGCTTGAACAAGA 58.970 42.857 17.19 0.00 40.79 3.02
2326 3331 2.629137 TGGTGCATTGCTTGAACAAGAT 59.371 40.909 17.19 1.56 40.79 2.40
2327 3332 3.069872 TGGTGCATTGCTTGAACAAGATT 59.930 39.130 17.19 0.00 40.79 2.40
2328 3333 3.430895 GGTGCATTGCTTGAACAAGATTG 59.569 43.478 17.19 11.36 40.79 2.67
2329 3334 4.053295 GTGCATTGCTTGAACAAGATTGT 58.947 39.130 17.19 0.00 44.72 2.71
2330 3335 4.052608 TGCATTGCTTGAACAAGATTGTG 58.947 39.130 17.19 10.51 41.31 3.33
2331 3336 3.120786 GCATTGCTTGAACAAGATTGTGC 60.121 43.478 17.19 15.13 41.31 4.57
2332 3337 3.797451 TTGCTTGAACAAGATTGTGCA 57.203 38.095 17.19 2.09 44.79 4.57
2333 3338 3.358707 TGCTTGAACAAGATTGTGCAG 57.641 42.857 17.19 3.42 46.79 4.41
2498 3503 6.109156 TCTCTTATGTTGACCAGCAAAGTA 57.891 37.500 0.00 0.00 38.44 2.24
2512 3517 6.546034 ACCAGCAAAGTACACATAGTTCTTTT 59.454 34.615 0.00 0.00 42.83 2.27
2515 3520 9.599322 CAGCAAAGTACACATAGTTCTTTTAAG 57.401 33.333 0.00 0.00 42.83 1.85
2658 3663 6.699895 TGCTTAGAACGTTATATTATGCGG 57.300 37.500 0.00 0.00 0.00 5.69
2721 3726 5.590663 TGCAAGTGGTTTATTGTTAGTGACA 59.409 36.000 0.00 0.00 36.19 3.58
2783 3788 2.627699 TCCCAAAGAATTGTGTTGCCTC 59.372 45.455 0.00 0.00 34.60 4.70
2818 3823 7.544622 TGTCACTGTAATACTATCAGGTTGTC 58.455 38.462 0.00 0.00 34.02 3.18
2830 3835 2.622942 TCAGGTTGTCTCAAATGGCAAC 59.377 45.455 3.71 3.71 40.08 4.17
2940 3945 3.146066 TGACTGACCATTACAAGCAACC 58.854 45.455 0.00 0.00 0.00 3.77
2984 4336 9.473640 GTAAGCAATATAAGTAGGGTTCACTAC 57.526 37.037 4.26 4.26 42.83 2.73
3000 4352 7.148239 GGGTTCACTACAAGAAATAGAACATGG 60.148 40.741 0.00 0.00 36.52 3.66
3182 5146 2.026915 ACATGGTCAGCAGCTGAATGTA 60.027 45.455 29.62 17.20 42.46 2.29
3198 5162 6.073003 GCTGAATGTATCCTGGCAATAAGTAC 60.073 42.308 0.00 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 48 5.741011 ACGGTGGAAGAGCATTAAGAATTA 58.259 37.500 0.00 0.00 0.00 1.40
115 119 3.428045 GGTGTAAATGATGGCAGTGAAGC 60.428 47.826 0.00 0.00 0.00 3.86
122 126 4.568072 AGTAGTGGTGTAAATGATGGCA 57.432 40.909 0.00 0.00 0.00 4.92
142 146 4.699735 TGTATGTATTTGTGCTGACCCAAG 59.300 41.667 0.00 0.00 0.00 3.61
208 212 5.761234 TCAGACATTGTTTAAGTTTAGCGGT 59.239 36.000 0.00 0.00 0.00 5.68
270 274 4.454504 AGGACAAGCTTTACGTTGTTATGG 59.545 41.667 0.00 0.00 37.02 2.74
279 283 5.333875 GGAACTTTACAGGACAAGCTTTACG 60.334 44.000 0.00 0.00 0.00 3.18
292 296 8.846211 TGACAAATTTCTTAGGGAACTTTACAG 58.154 33.333 0.00 0.00 43.67 2.74
326 330 6.739331 AGGGTATTTTGACAATTTTGGTGA 57.261 33.333 0.00 0.00 0.00 4.02
398 403 8.453238 TTTGTTACTAACCAGAGTTGCATTTA 57.547 30.769 0.00 0.00 36.68 1.40
481 491 6.647895 AGCCTTTGAATGCAGTTAGAAATTTG 59.352 34.615 0.00 0.00 0.00 2.32
518 528 8.997323 GGTGGAAGATCTAGAATCATTATGTTG 58.003 37.037 0.00 0.00 0.00 3.33
533 543 3.600388 GACAAACGATGGTGGAAGATCT 58.400 45.455 0.00 0.00 0.00 2.75
655 668 1.229082 TTGGTGGAGGTAGGCTCGT 60.229 57.895 0.00 0.00 0.00 4.18
657 670 0.690762 TTGTTGGTGGAGGTAGGCTC 59.309 55.000 0.00 0.00 0.00 4.70
716 729 8.454106 AGTATTTGTTAGCACTAAAGCATGAAG 58.546 33.333 0.00 0.00 36.85 3.02
778 1754 4.634004 TGTTACTGTTGTCTTGGTGACTTG 59.366 41.667 0.00 0.00 45.54 3.16
886 1863 2.164393 AAGGACCAACTTGAGGGGG 58.836 57.895 0.00 0.00 0.00 5.40
981 1959 2.131067 GGAGGAAGCGAGAGAGGGG 61.131 68.421 0.00 0.00 0.00 4.79
1056 2040 3.117171 GACGCTGCTGCTGTGGAG 61.117 66.667 21.37 2.53 36.97 3.86
1157 2141 3.632080 TGGCGCGGGAGAAAGGAA 61.632 61.111 8.83 0.00 0.00 3.36
1210 2195 2.203209 GATTGGATTCCGCCGCCT 60.203 61.111 0.00 0.00 0.00 5.52
1283 2269 6.183360 CCAAGAAAGATACCAAGATCACGAAC 60.183 42.308 0.00 0.00 0.00 3.95
1334 2320 4.682714 TCTGCCCCAAGAGCCCCT 62.683 66.667 0.00 0.00 0.00 4.79
1426 2413 1.068333 GCAACAGCGTGGACAATCAAT 60.068 47.619 0.00 0.00 0.00 2.57
1694 2690 4.943705 AGATCTGAAGTCTCTGTGAGTCTC 59.056 45.833 0.00 0.00 28.82 3.36
1735 2732 5.012458 TGAGATGAATGAGAACTCTTGTGGT 59.988 40.000 3.51 0.00 0.00 4.16
1788 2785 5.103940 ACTGGCTATCCATCTATTGTTTGGT 60.104 40.000 0.00 0.00 42.51 3.67
1794 2791 4.248859 CCGAACTGGCTATCCATCTATTG 58.751 47.826 0.00 0.00 42.51 1.90
1821 2818 3.310193 GCCTACTACCTCCTCTTTCCAT 58.690 50.000 0.00 0.00 0.00 3.41
1838 2835 2.283809 GGGCTCCTCCTCTGCCTA 59.716 66.667 0.00 0.00 45.45 3.93
1950 2947 0.582005 AGCACAAAGAACGCTTCGAC 59.418 50.000 0.00 0.00 31.82 4.20
2036 3033 4.395583 GGCACGAACAGCAGCAGC 62.396 66.667 0.00 0.00 42.56 5.25
2264 3269 2.734606 CAAGCAATGCACCACAATCTTG 59.265 45.455 8.35 0.00 31.37 3.02
2265 3270 2.629137 TCAAGCAATGCACCACAATCTT 59.371 40.909 8.35 0.00 0.00 2.40
2266 3271 2.241160 TCAAGCAATGCACCACAATCT 58.759 42.857 8.35 0.00 0.00 2.40
2267 3272 2.728690 TCAAGCAATGCACCACAATC 57.271 45.000 8.35 0.00 0.00 2.67
2268 3273 2.102757 TGTTCAAGCAATGCACCACAAT 59.897 40.909 8.35 0.00 0.00 2.71
2269 3274 1.479730 TGTTCAAGCAATGCACCACAA 59.520 42.857 8.35 0.00 0.00 3.33
2270 3275 1.109609 TGTTCAAGCAATGCACCACA 58.890 45.000 8.35 1.61 0.00 4.17
2271 3276 2.129607 CTTGTTCAAGCAATGCACCAC 58.870 47.619 8.35 0.00 0.00 4.16
2272 3277 2.030371 TCTTGTTCAAGCAATGCACCA 58.970 42.857 8.35 0.00 0.00 4.17
2273 3278 2.798976 TCTTGTTCAAGCAATGCACC 57.201 45.000 8.35 0.00 0.00 5.01
2274 3279 4.053295 ACAATCTTGTTCAAGCAATGCAC 58.947 39.130 8.35 0.00 38.47 4.57
2275 3280 4.052608 CACAATCTTGTTCAAGCAATGCA 58.947 39.130 8.35 0.00 39.91 3.96
2276 3281 3.120786 GCACAATCTTGTTCAAGCAATGC 60.121 43.478 0.00 0.00 39.91 3.56
2277 3282 4.052608 TGCACAATCTTGTTCAAGCAATG 58.947 39.130 7.58 8.43 39.91 2.82
2278 3283 4.038282 TCTGCACAATCTTGTTCAAGCAAT 59.962 37.500 7.58 0.00 39.91 3.56
2279 3284 3.380954 TCTGCACAATCTTGTTCAAGCAA 59.619 39.130 7.58 0.00 39.91 3.91
2280 3285 2.950975 TCTGCACAATCTTGTTCAAGCA 59.049 40.909 7.58 5.89 39.91 3.91
2281 3286 3.631145 TCTGCACAATCTTGTTCAAGC 57.369 42.857 7.58 0.00 39.91 4.01
2282 3287 6.073980 CCAAAATCTGCACAATCTTGTTCAAG 60.074 38.462 6.24 6.24 39.91 3.02
2283 3288 5.754406 CCAAAATCTGCACAATCTTGTTCAA 59.246 36.000 0.00 0.00 39.91 2.69
2284 3289 5.163426 ACCAAAATCTGCACAATCTTGTTCA 60.163 36.000 0.00 0.00 39.91 3.18
2285 3290 5.176223 CACCAAAATCTGCACAATCTTGTTC 59.824 40.000 0.00 0.00 39.91 3.18
2286 3291 5.051816 CACCAAAATCTGCACAATCTTGTT 58.948 37.500 0.00 0.00 39.91 2.83
2287 3292 4.624015 CACCAAAATCTGCACAATCTTGT 58.376 39.130 0.00 0.00 43.36 3.16
2288 3293 3.430895 GCACCAAAATCTGCACAATCTTG 59.569 43.478 0.00 0.00 33.31 3.02
2289 3294 3.069872 TGCACCAAAATCTGCACAATCTT 59.930 39.130 0.00 0.00 38.49 2.40
2290 3295 2.629137 TGCACCAAAATCTGCACAATCT 59.371 40.909 0.00 0.00 38.49 2.40
2291 3296 3.029320 TGCACCAAAATCTGCACAATC 57.971 42.857 0.00 0.00 38.49 2.67
2292 3297 3.688694 ATGCACCAAAATCTGCACAAT 57.311 38.095 0.00 0.00 45.91 2.71
2293 3298 3.132160 CAATGCACCAAAATCTGCACAA 58.868 40.909 0.00 0.00 45.91 3.33
2294 3299 2.756829 CAATGCACCAAAATCTGCACA 58.243 42.857 0.00 0.00 45.91 4.57
2295 3300 1.461897 GCAATGCACCAAAATCTGCAC 59.538 47.619 0.00 0.00 45.91 4.57
2297 3302 2.088950 AGCAATGCACCAAAATCTGC 57.911 45.000 8.35 0.00 0.00 4.26
2298 3303 3.655486 TCAAGCAATGCACCAAAATCTG 58.345 40.909 8.35 0.00 0.00 2.90
2299 3304 4.060205 GTTCAAGCAATGCACCAAAATCT 58.940 39.130 8.35 0.00 0.00 2.40
2300 3305 3.808726 TGTTCAAGCAATGCACCAAAATC 59.191 39.130 8.35 0.00 0.00 2.17
2301 3306 3.806380 TGTTCAAGCAATGCACCAAAAT 58.194 36.364 8.35 0.00 0.00 1.82
2302 3307 3.257469 TGTTCAAGCAATGCACCAAAA 57.743 38.095 8.35 0.00 0.00 2.44
2303 3308 2.975732 TGTTCAAGCAATGCACCAAA 57.024 40.000 8.35 0.00 0.00 3.28
2304 3309 2.429971 TCTTGTTCAAGCAATGCACCAA 59.570 40.909 8.35 1.76 0.00 3.67
2305 3310 2.030371 TCTTGTTCAAGCAATGCACCA 58.970 42.857 8.35 0.00 0.00 4.17
2306 3311 2.798976 TCTTGTTCAAGCAATGCACC 57.201 45.000 8.35 0.00 0.00 5.01
2307 3312 4.053295 ACAATCTTGTTCAAGCAATGCAC 58.947 39.130 8.35 0.00 38.47 4.57
2308 3313 4.052608 CACAATCTTGTTCAAGCAATGCA 58.947 39.130 8.35 0.00 39.91 3.96
2309 3314 3.120786 GCACAATCTTGTTCAAGCAATGC 60.121 43.478 0.00 0.00 39.91 3.56
2310 3315 4.052608 TGCACAATCTTGTTCAAGCAATG 58.947 39.130 7.58 8.43 39.91 2.82
2311 3316 4.038282 TCTGCACAATCTTGTTCAAGCAAT 59.962 37.500 7.58 0.00 39.91 3.56
2312 3317 3.380954 TCTGCACAATCTTGTTCAAGCAA 59.619 39.130 7.58 0.00 39.91 3.91
2313 3318 2.950975 TCTGCACAATCTTGTTCAAGCA 59.049 40.909 7.58 5.89 39.91 3.91
2314 3319 3.631145 TCTGCACAATCTTGTTCAAGC 57.369 42.857 7.58 0.00 39.91 4.01
2315 3320 6.073980 CCAAAATCTGCACAATCTTGTTCAAG 60.074 38.462 6.24 6.24 39.91 3.02
2316 3321 5.754406 CCAAAATCTGCACAATCTTGTTCAA 59.246 36.000 0.00 0.00 39.91 2.69
2317 3322 5.163426 ACCAAAATCTGCACAATCTTGTTCA 60.163 36.000 0.00 0.00 39.91 3.18
2318 3323 5.176223 CACCAAAATCTGCACAATCTTGTTC 59.824 40.000 0.00 0.00 39.91 3.18
2319 3324 5.051816 CACCAAAATCTGCACAATCTTGTT 58.948 37.500 0.00 0.00 39.91 2.83
2320 3325 4.624015 CACCAAAATCTGCACAATCTTGT 58.376 39.130 0.00 0.00 43.36 3.16
2321 3326 3.430895 GCACCAAAATCTGCACAATCTTG 59.569 43.478 0.00 0.00 33.31 3.02
2322 3327 3.069872 TGCACCAAAATCTGCACAATCTT 59.930 39.130 0.00 0.00 38.49 2.40
2323 3328 2.629137 TGCACCAAAATCTGCACAATCT 59.371 40.909 0.00 0.00 38.49 2.40
2324 3329 3.029320 TGCACCAAAATCTGCACAATC 57.971 42.857 0.00 0.00 38.49 2.67
2325 3330 3.688694 ATGCACCAAAATCTGCACAAT 57.311 38.095 0.00 0.00 45.91 2.71
2326 3331 3.132160 CAATGCACCAAAATCTGCACAA 58.868 40.909 0.00 0.00 45.91 3.33
2327 3332 2.756829 CAATGCACCAAAATCTGCACA 58.243 42.857 0.00 0.00 45.91 4.57
2328 3333 1.461897 GCAATGCACCAAAATCTGCAC 59.538 47.619 0.00 0.00 45.91 4.57
2330 3335 2.088950 AGCAATGCACCAAAATCTGC 57.911 45.000 8.35 0.00 0.00 4.26
2331 3336 3.655486 TCAAGCAATGCACCAAAATCTG 58.345 40.909 8.35 0.00 0.00 2.90
2332 3337 4.060205 GTTCAAGCAATGCACCAAAATCT 58.940 39.130 8.35 0.00 0.00 2.40
2333 3338 3.808726 TGTTCAAGCAATGCACCAAAATC 59.191 39.130 8.35 0.00 0.00 2.17
2721 3726 5.539955 ACTGAGGAACCTGCAATTATGTTTT 59.460 36.000 0.00 0.00 0.00 2.43
2809 3814 2.622942 GTTGCCATTTGAGACAACCTGA 59.377 45.455 0.00 0.00 37.11 3.86
2818 3823 2.068837 ACATTGCGTTGCCATTTGAG 57.931 45.000 0.00 0.00 0.00 3.02
2830 3835 2.287644 TCAGTCAACACTCAACATTGCG 59.712 45.455 0.00 0.00 0.00 4.85
2844 3849 6.298361 TCAACCTCTGAAATGAATCAGTCAA 58.702 36.000 4.41 0.00 45.65 3.18
2940 3945 0.537188 ACTGTGATAGCAACCCTCCG 59.463 55.000 0.00 0.00 0.00 4.63
3106 5070 9.246670 TCATCTCAACAAAATTTCATAGGTCAT 57.753 29.630 0.00 0.00 0.00 3.06
3107 5071 8.634335 TCATCTCAACAAAATTTCATAGGTCA 57.366 30.769 0.00 0.00 0.00 4.02
3161 5125 1.271762 ACATTCAGCTGCTGACCATGT 60.272 47.619 30.32 30.32 40.46 3.21
3182 5146 6.295916 GGTGCTATAGTACTTATTGCCAGGAT 60.296 42.308 18.79 0.00 39.01 3.24


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

AutoCloner maintained by Alex Coulton.