Multiple sequence alignment - TraesCS2A01G257000

Loading Multiple Alignment...

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 TraesCS2A01G257000 chr2A 100.000 3278 0 0 1 3278 394023803 394020526 0 6054
1 TraesCS2A01G257000 chr2A 84.664 1278 190 6 1004 2278 536623656 536624930 0 1269
2 TraesCS2A01G257000 chr2B 96.263 2542 64 10 1 2529 393462191 393464714 0 4139
3 TraesCS2A01G257000 chr2B 84.886 1277 189 4 1004 2278 472898500 472899774 0 1286
4 TraesCS2A01G257000 chr2B 93.594 640 16 5 2641 3278 393464749 393465365 0 931
5 TraesCS2A01G257000 chr2D 96.298 2512 51 9 1 2510 324592240 324594711 0 4085
6 TraesCS2A01G257000 chr2D 94.053 639 14 8 2641 3278 324594763 324595378 0 948


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 TraesCS2A01G257000 chr2A 394020526 394023803 3277 True 6054.0 6054 100.0000 1 3278 1 chr2A.!!$R1 3277
1 TraesCS2A01G257000 chr2A 536623656 536624930 1274 False 1269.0 1269 84.6640 1004 2278 1 chr2A.!!$F1 1274
2 TraesCS2A01G257000 chr2B 393462191 393465365 3174 False 2535.0 4139 94.9285 1 3278 2 chr2B.!!$F2 3277
3 TraesCS2A01G257000 chr2B 472898500 472899774 1274 False 1286.0 1286 84.8860 1004 2278 1 chr2B.!!$F1 1274
4 TraesCS2A01G257000 chr2D 324592240 324595378 3138 False 2516.5 4085 95.1755 1 3278 2 chr2D.!!$F1 3277

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
24 25 1.077858 GGCTCCTGAGGGCTCAAAG 60.078 63.158 10.95 0.0 39.39 2.77 F
1203 1217 1.633774 AAGAGAACAGAGCCGAGGAA 58.366 50.000 0.00 0.0 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1395 1409 0.251634 GGGCTGCTAGTCTTGCTTCT 59.748 55.0 7.78 0.0 0.0 2.85 R
2694 2714 0.108138 CGCCACTAACCCCTTCTCTG 60.108 60.0 0.00 0.0 0.0 3.35 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
24 25 1.077858 GGCTCCTGAGGGCTCAAAG 60.078 63.158 10.95 0.00 39.39 2.77
65 66 4.938226 GGGATTCTCAGTTCTAGGTTGTTG 59.062 45.833 0.00 0.00 0.00 3.33
95 96 6.112734 TCATATGGATTTGTTCGTTAGCTGT 58.887 36.000 2.13 0.00 0.00 4.40
123 124 4.638421 CCAACTCTATTCGCAAAATACCCA 59.362 41.667 0.00 0.00 0.00 4.51
212 215 5.003804 AGAAATCTGTCAAACGCCATTAGT 58.996 37.500 0.00 0.00 0.00 2.24
821 835 5.351233 CAACTAGTTGCGTACCAATTGAA 57.649 39.130 22.03 0.00 35.55 2.69
837 851 7.053498 ACCAATTGAACCATTAAAGCTGTTTT 58.947 30.769 7.12 0.00 0.00 2.43
838 852 7.555914 ACCAATTGAACCATTAAAGCTGTTTTT 59.444 29.630 7.12 0.00 0.00 1.94
891 905 3.607490 ATTTATGCCCTCCAGATGCTT 57.393 42.857 0.00 0.00 0.00 3.91
942 956 8.276252 TGGTTATTATTTACACTGCCTTCTTC 57.724 34.615 0.00 0.00 0.00 2.87
1203 1217 1.633774 AAGAGAACAGAGCCGAGGAA 58.366 50.000 0.00 0.00 0.00 3.36
1275 1289 2.053627 GCAAAGACCGCAAAGATTGTG 58.946 47.619 0.00 0.00 40.74 3.33
1327 1341 3.199508 ACCTGGAACATCTGATCTTCAGG 59.800 47.826 16.93 16.93 44.39 3.86
1383 1397 2.288825 TGCAGAGAAACGTACCTTCCTG 60.289 50.000 0.00 0.88 0.00 3.86
1395 1409 1.591703 CTTCCTGAGGCAGCGTGTA 59.408 57.895 0.00 0.00 0.00 2.90
1665 1679 2.683152 GCAGAGTGGAATCCTTCATGCT 60.683 50.000 0.00 0.00 0.00 3.79
1890 1904 1.676916 GCTGTTGCAGATGCCTACTCA 60.677 52.381 1.72 0.00 41.18 3.41
2199 2213 2.363795 ACGGAGGCGATCTTCCCA 60.364 61.111 0.00 0.00 0.00 4.37
2274 2288 0.743097 GGTCAGCAAAGATCATGGCC 59.257 55.000 0.00 0.00 0.00 5.36
2293 2307 3.416156 GCCTGAGGAGATGTTTTGTTCT 58.584 45.455 0.65 0.00 0.00 3.01
2294 2308 3.823304 GCCTGAGGAGATGTTTTGTTCTT 59.177 43.478 0.65 0.00 0.00 2.52
2295 2309 5.003804 GCCTGAGGAGATGTTTTGTTCTTA 58.996 41.667 0.65 0.00 0.00 2.10
2296 2310 5.106515 GCCTGAGGAGATGTTTTGTTCTTAC 60.107 44.000 0.65 0.00 0.00 2.34
2297 2311 5.412904 CCTGAGGAGATGTTTTGTTCTTACC 59.587 44.000 0.00 0.00 0.00 2.85
2298 2312 5.313712 TGAGGAGATGTTTTGTTCTTACCC 58.686 41.667 0.00 0.00 0.00 3.69
2299 2313 4.324267 AGGAGATGTTTTGTTCTTACCCG 58.676 43.478 0.00 0.00 0.00 5.28
2300 2314 3.439129 GGAGATGTTTTGTTCTTACCCGG 59.561 47.826 0.00 0.00 0.00 5.73
2301 2315 2.817844 AGATGTTTTGTTCTTACCCGGC 59.182 45.455 0.00 0.00 0.00 6.13
2302 2316 0.945813 TGTTTTGTTCTTACCCGGCG 59.054 50.000 0.00 0.00 0.00 6.46
2303 2317 0.946528 GTTTTGTTCTTACCCGGCGT 59.053 50.000 6.01 0.00 0.00 5.68
2304 2318 1.069703 GTTTTGTTCTTACCCGGCGTC 60.070 52.381 6.01 0.00 0.00 5.19
2305 2319 0.393820 TTTGTTCTTACCCGGCGTCT 59.606 50.000 6.01 0.00 0.00 4.18
2337 2351 4.082845 TCTTACACTTGAGCTCTGCTAGT 58.917 43.478 16.19 10.00 39.88 2.57
2343 2357 1.090728 TGAGCTCTGCTAGTGTCTCG 58.909 55.000 16.19 0.00 39.88 4.04
2373 2387 1.597797 ATCCCTGCGTGTTGCCATTG 61.598 55.000 0.00 0.00 45.60 2.82
2424 2438 8.917655 GTTAGCTCTATAAAATTTCTAGCCTCG 58.082 37.037 0.00 0.00 0.00 4.63
2435 2449 1.819288 TCTAGCCTCGTGGACAAGAAG 59.181 52.381 7.92 0.00 34.57 2.85
2437 2451 1.270907 AGCCTCGTGGACAAGAAGAT 58.729 50.000 7.92 0.00 34.57 2.40
2440 2454 2.738964 GCCTCGTGGACAAGAAGATACC 60.739 54.545 7.92 0.00 34.57 2.73
2511 2525 1.438651 TCCGTTCTAGTGCAATGTGC 58.561 50.000 0.00 0.00 45.29 4.57
2529 2548 5.527511 TGTGCAATGTTCTGTTGTTTTTG 57.472 34.783 0.00 0.00 0.00 2.44
2530 2549 4.391216 TGTGCAATGTTCTGTTGTTTTTGG 59.609 37.500 0.00 0.00 0.00 3.28
2531 2550 3.373439 TGCAATGTTCTGTTGTTTTTGGC 59.627 39.130 0.00 0.00 0.00 4.52
2532 2551 3.242706 GCAATGTTCTGTTGTTTTTGGCC 60.243 43.478 0.00 0.00 0.00 5.36
2534 2553 3.518634 TGTTCTGTTGTTTTTGGCCTC 57.481 42.857 3.32 0.00 0.00 4.70
2536 2555 3.130340 TGTTCTGTTGTTTTTGGCCTCTC 59.870 43.478 3.32 0.00 0.00 3.20
2538 2557 3.631250 TCTGTTGTTTTTGGCCTCTCTT 58.369 40.909 3.32 0.00 0.00 2.85
2540 2559 4.466015 TCTGTTGTTTTTGGCCTCTCTTTT 59.534 37.500 3.32 0.00 0.00 2.27
2576 2595 6.615264 CTGATGTCAGATCTTTAACCATGG 57.385 41.667 11.19 11.19 46.59 3.66
2577 2596 4.883585 TGATGTCAGATCTTTAACCATGGC 59.116 41.667 13.04 0.00 0.00 4.40
2578 2597 4.299586 TGTCAGATCTTTAACCATGGCA 57.700 40.909 13.04 0.00 0.00 4.92
2579 2598 4.661222 TGTCAGATCTTTAACCATGGCAA 58.339 39.130 13.04 3.06 0.00 4.52
2580 2599 5.076182 TGTCAGATCTTTAACCATGGCAAA 58.924 37.500 13.04 11.61 0.00 3.68
2581 2600 5.716228 TGTCAGATCTTTAACCATGGCAAAT 59.284 36.000 13.04 0.00 0.00 2.32
2582 2601 6.127647 TGTCAGATCTTTAACCATGGCAAATC 60.128 38.462 13.04 8.09 0.00 2.17
2583 2602 6.096001 GTCAGATCTTTAACCATGGCAAATCT 59.904 38.462 13.04 10.14 0.00 2.40
2584 2603 6.095860 TCAGATCTTTAACCATGGCAAATCTG 59.904 38.462 22.67 22.67 33.88 2.90
2585 2604 5.361857 AGATCTTTAACCATGGCAAATCTGG 59.638 40.000 13.04 3.32 36.09 3.86
2616 2635 3.772060 GGAGCATCGCAGATTCTTTTT 57.228 42.857 0.00 0.00 45.12 1.94
2688 2708 4.768968 AGATTAGCTTGCTTGTTTGGTGAT 59.231 37.500 0.00 0.00 0.00 3.06
2689 2709 2.806608 AGCTTGCTTGTTTGGTGATG 57.193 45.000 0.00 0.00 0.00 3.07
2690 2710 1.142474 GCTTGCTTGTTTGGTGATGC 58.858 50.000 0.00 0.00 0.00 3.91
2691 2711 1.269936 GCTTGCTTGTTTGGTGATGCT 60.270 47.619 0.00 0.00 0.00 3.79
2692 2712 2.030007 GCTTGCTTGTTTGGTGATGCTA 60.030 45.455 0.00 0.00 0.00 3.49
2693 2713 3.829948 CTTGCTTGTTTGGTGATGCTAG 58.170 45.455 0.00 0.00 0.00 3.42
2694 2714 1.541147 TGCTTGTTTGGTGATGCTAGC 59.459 47.619 8.10 8.10 0.00 3.42
2695 2715 1.541147 GCTTGTTTGGTGATGCTAGCA 59.459 47.619 21.85 21.85 31.86 3.49
2696 2716 2.415090 GCTTGTTTGGTGATGCTAGCAG 60.415 50.000 23.89 5.71 31.86 4.24
2697 2717 2.857186 TGTTTGGTGATGCTAGCAGA 57.143 45.000 23.89 9.40 0.00 4.26
2698 2718 2.703416 TGTTTGGTGATGCTAGCAGAG 58.297 47.619 23.89 0.00 0.00 3.35
2729 2749 1.442526 GGCGATTGAGGTGGCAGATG 61.443 60.000 0.00 0.00 0.00 2.90
2746 2768 4.803426 GAGTGGAGGCGCAGGTCG 62.803 72.222 10.83 0.00 42.12 4.79
2900 2922 1.630878 ACAGACCAACCATTCCTCCTC 59.369 52.381 0.00 0.00 0.00 3.71
2963 2985 0.833287 CATCCGTCATTCCTGGGTCT 59.167 55.000 0.00 0.00 0.00 3.85
3007 3029 3.780173 GCGAAGGAGAGCAGCCCT 61.780 66.667 0.00 0.00 0.00 5.19
3008 3030 2.427245 GCGAAGGAGAGCAGCCCTA 61.427 63.158 0.00 0.00 31.36 3.53
3009 3031 1.739049 CGAAGGAGAGCAGCCCTAG 59.261 63.158 0.00 0.00 31.36 3.02
3010 3032 1.445518 GAAGGAGAGCAGCCCTAGC 59.554 63.158 0.00 0.00 40.32 3.42
3011 3033 2.038814 GAAGGAGAGCAGCCCTAGCC 62.039 65.000 0.00 0.00 41.25 3.93
3012 3034 3.555324 GGAGAGCAGCCCTAGCCC 61.555 72.222 0.00 0.00 41.25 5.19
3013 3035 2.445654 GAGAGCAGCCCTAGCCCT 60.446 66.667 0.00 0.00 41.25 5.19
3014 3036 1.152440 GAGAGCAGCCCTAGCCCTA 60.152 63.158 0.00 0.00 41.25 3.53
3015 3037 1.152355 AGAGCAGCCCTAGCCCTAG 60.152 63.158 0.00 0.00 41.25 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 1.477014 CCCCCTTTAAGAATCGCTCCC 60.477 57.143 0.00 0.00 0.00 4.30
65 66 6.064846 ACGAACAAATCCATATGAAGATGC 57.935 37.500 3.65 0.00 0.00 3.91
95 96 0.815095 TGCGAATAGAGTTGGCTCGA 59.185 50.000 0.00 0.00 46.03 4.04
123 124 2.571653 TCTCAATTCGGTGAGGTTCCAT 59.428 45.455 10.48 0.00 44.40 3.41
212 215 5.067283 GCCAACAGGTGAGAAAAAGAAGTTA 59.933 40.000 0.00 0.00 0.00 2.24
333 346 8.026607 GCATACTGATTAGAGTTGAGAGATACC 58.973 40.741 0.00 0.00 0.00 2.73
397 410 0.893447 GTACCGACACCTTGGTAGCT 59.107 55.000 0.00 0.00 41.23 3.32
688 702 3.330267 TCTTTGGCAACCAACAAAACAC 58.670 40.909 0.00 0.00 43.82 3.32
761 775 1.882623 CTGAGGCCCAAAGTCAAGAAC 59.117 52.381 0.00 0.00 0.00 3.01
821 835 8.972458 AACCAAATAAAAACAGCTTTAATGGT 57.028 26.923 9.35 9.35 41.75 3.55
837 851 4.381079 GCTCGGCCAACATAAACCAAATAA 60.381 41.667 2.24 0.00 0.00 1.40
838 852 3.129638 GCTCGGCCAACATAAACCAAATA 59.870 43.478 2.24 0.00 0.00 1.40
942 956 9.716507 ATTATTCAAAAATAAATCAGGTCGACG 57.283 29.630 9.92 0.00 39.98 5.12
1203 1217 3.307762 GCTGGGTCAACAGATTCCTAAGT 60.308 47.826 0.00 0.00 40.97 2.24
1327 1341 2.418471 CCATCTCCTTGCAGAGTGAGAC 60.418 54.545 8.21 0.00 35.73 3.36
1383 1397 0.670546 TTGCTTCTACACGCTGCCTC 60.671 55.000 0.00 0.00 0.00 4.70
1395 1409 0.251634 GGGCTGCTAGTCTTGCTTCT 59.748 55.000 7.78 0.00 0.00 2.85
1665 1679 4.620803 GCGGTCTTGTAATCCTTCTCTTCA 60.621 45.833 0.00 0.00 0.00 3.02
1878 1892 4.404073 AGAGATCGTTTTGAGTAGGCATCT 59.596 41.667 0.00 0.00 0.00 2.90
1890 1904 8.336080 GTTTCAAAGTACTTGAGAGATCGTTTT 58.664 33.333 9.34 0.00 44.84 2.43
2043 2057 0.454196 TCTCTGCTACGTGCGCAATA 59.546 50.000 14.00 7.12 46.63 1.90
2160 2174 3.380320 TCTTGGCGTCTTCGAAGATGATA 59.620 43.478 39.02 27.04 43.22 2.15
2274 2288 5.412904 GGGTAAGAACAAAACATCTCCTCAG 59.587 44.000 0.00 0.00 0.00 3.35
2293 2307 0.611618 TAACTGGAGACGCCGGGTAA 60.612 55.000 9.06 0.00 42.81 2.85
2294 2308 0.611618 TTAACTGGAGACGCCGGGTA 60.612 55.000 9.06 3.07 42.81 3.69
2298 2312 2.295253 AGATTTAACTGGAGACGCCG 57.705 50.000 0.00 0.00 40.66 6.46
2299 2313 4.329256 GTGTAAGATTTAACTGGAGACGCC 59.671 45.833 0.00 0.00 37.10 5.68
2300 2314 5.169295 AGTGTAAGATTTAACTGGAGACGC 58.831 41.667 0.00 0.00 0.00 5.19
2301 2315 6.866770 TCAAGTGTAAGATTTAACTGGAGACG 59.133 38.462 0.00 0.00 0.00 4.18
2302 2316 7.148557 GCTCAAGTGTAAGATTTAACTGGAGAC 60.149 40.741 9.69 0.00 41.41 3.36
2303 2317 6.874134 GCTCAAGTGTAAGATTTAACTGGAGA 59.126 38.462 9.69 0.00 41.41 3.71
2304 2318 6.876257 AGCTCAAGTGTAAGATTTAACTGGAG 59.124 38.462 2.33 2.33 41.68 3.86
2305 2319 6.769512 AGCTCAAGTGTAAGATTTAACTGGA 58.230 36.000 0.00 0.00 0.00 3.86
2343 2357 1.303309 CGCAGGGATTTCATGTCCTC 58.697 55.000 1.25 0.00 36.00 3.71
2373 2387 6.199719 CAGAAGACAATTTGCAAGGAAGAAAC 59.800 38.462 0.00 0.00 0.00 2.78
2414 2428 1.919240 TCTTGTCCACGAGGCTAGAA 58.081 50.000 0.28 0.00 33.74 2.10
2420 2434 2.479730 CGGTATCTTCTTGTCCACGAGG 60.480 54.545 0.00 0.00 0.00 4.63
2424 2438 3.660865 ACAACGGTATCTTCTTGTCCAC 58.339 45.455 0.00 0.00 0.00 4.02
2435 2449 2.063266 TCACGCAGAAACAACGGTATC 58.937 47.619 0.00 0.00 0.00 2.24
2437 2451 1.795872 CATCACGCAGAAACAACGGTA 59.204 47.619 0.00 0.00 0.00 4.02
2440 2454 0.865111 TCCATCACGCAGAAACAACG 59.135 50.000 0.00 0.00 0.00 4.10
2484 2498 2.811431 TGCACTAGAACGGAAATGGTTG 59.189 45.455 0.00 0.00 0.00 3.77
2511 2525 4.190772 AGGCCAAAAACAACAGAACATTG 58.809 39.130 5.01 0.00 0.00 2.82
2553 2572 5.008415 GCCATGGTTAAAGATCTGACATCAG 59.992 44.000 14.67 2.24 45.08 2.90
2554 2573 4.883585 GCCATGGTTAAAGATCTGACATCA 59.116 41.667 14.67 0.00 0.00 3.07
2555 2574 4.883585 TGCCATGGTTAAAGATCTGACATC 59.116 41.667 14.67 0.00 0.00 3.06
2556 2575 4.858850 TGCCATGGTTAAAGATCTGACAT 58.141 39.130 14.67 0.00 0.00 3.06
2557 2576 4.299586 TGCCATGGTTAAAGATCTGACA 57.700 40.909 14.67 0.00 0.00 3.58
2558 2577 5.643379 TTTGCCATGGTTAAAGATCTGAC 57.357 39.130 14.67 0.00 0.00 3.51
2559 2578 6.095860 CAGATTTGCCATGGTTAAAGATCTGA 59.904 38.462 24.63 6.54 34.31 3.27
2560 2579 6.270815 CAGATTTGCCATGGTTAAAGATCTG 58.729 40.000 20.44 20.44 0.00 2.90
2561 2580 5.361857 CCAGATTTGCCATGGTTAAAGATCT 59.638 40.000 14.67 12.31 0.00 2.75
2562 2581 5.594926 CCAGATTTGCCATGGTTAAAGATC 58.405 41.667 14.67 10.46 0.00 2.75
2563 2582 4.141869 GCCAGATTTGCCATGGTTAAAGAT 60.142 41.667 14.67 5.73 36.43 2.40
2564 2583 3.195396 GCCAGATTTGCCATGGTTAAAGA 59.805 43.478 14.67 0.00 36.43 2.52
2565 2584 3.524541 GCCAGATTTGCCATGGTTAAAG 58.475 45.455 14.67 5.18 36.43 1.85
2566 2585 3.608316 GCCAGATTTGCCATGGTTAAA 57.392 42.857 14.67 15.21 36.43 1.52
2590 2609 1.838112 ATCTGCGATGCTCCCAAAAA 58.162 45.000 0.00 0.00 0.00 1.94
2591 2610 1.745087 GAATCTGCGATGCTCCCAAAA 59.255 47.619 0.00 0.00 0.00 2.44
2592 2611 1.065199 AGAATCTGCGATGCTCCCAAA 60.065 47.619 0.00 0.00 0.00 3.28
2593 2612 0.543277 AGAATCTGCGATGCTCCCAA 59.457 50.000 0.00 0.00 0.00 4.12
2594 2613 0.543277 AAGAATCTGCGATGCTCCCA 59.457 50.000 0.36 0.00 0.00 4.37
2595 2614 1.673168 AAAGAATCTGCGATGCTCCC 58.327 50.000 0.36 0.00 0.00 4.30
2596 2615 3.772060 AAAAAGAATCTGCGATGCTCC 57.228 42.857 0.36 0.00 0.00 4.70
2688 2708 2.111384 CTAACCCCTTCTCTGCTAGCA 58.889 52.381 18.22 18.22 0.00 3.49
2689 2709 2.112190 ACTAACCCCTTCTCTGCTAGC 58.888 52.381 8.10 8.10 0.00 3.42
2690 2710 2.432510 CCACTAACCCCTTCTCTGCTAG 59.567 54.545 0.00 0.00 0.00 3.42
2691 2711 2.467880 CCACTAACCCCTTCTCTGCTA 58.532 52.381 0.00 0.00 0.00 3.49
2692 2712 1.280457 CCACTAACCCCTTCTCTGCT 58.720 55.000 0.00 0.00 0.00 4.24
2693 2713 0.393132 GCCACTAACCCCTTCTCTGC 60.393 60.000 0.00 0.00 0.00 4.26
2694 2714 0.108138 CGCCACTAACCCCTTCTCTG 60.108 60.000 0.00 0.00 0.00 3.35
2695 2715 0.252103 TCGCCACTAACCCCTTCTCT 60.252 55.000 0.00 0.00 0.00 3.10
2696 2716 0.831307 ATCGCCACTAACCCCTTCTC 59.169 55.000 0.00 0.00 0.00 2.87
2697 2717 1.065418 CAATCGCCACTAACCCCTTCT 60.065 52.381 0.00 0.00 0.00 2.85
2698 2718 1.065709 TCAATCGCCACTAACCCCTTC 60.066 52.381 0.00 0.00 0.00 3.46
2729 2749 4.803426 CGACCTGCGCCTCCACTC 62.803 72.222 4.18 0.00 0.00 3.51
2746 2768 5.073428 CCCCTAAATCTCCCTGCTAATTTC 58.927 45.833 0.00 0.00 0.00 2.17
3004 3026 1.839296 GTCAGGGCTAGGGCTAGGG 60.839 68.421 0.00 0.00 38.73 3.53
3005 3027 1.839296 GGTCAGGGCTAGGGCTAGG 60.839 68.421 0.00 0.00 38.73 3.02
3006 3028 1.839296 GGGTCAGGGCTAGGGCTAG 60.839 68.421 0.00 0.00 38.73 3.42
3007 3029 2.285868 GGGTCAGGGCTAGGGCTA 59.714 66.667 0.00 0.00 38.73 3.93
3008 3030 4.825679 GGGGTCAGGGCTAGGGCT 62.826 72.222 0.00 0.00 38.73 5.19
3010 3032 4.475444 TCGGGGTCAGGGCTAGGG 62.475 72.222 0.00 0.00 0.00 3.53
3011 3033 3.155167 GTCGGGGTCAGGGCTAGG 61.155 72.222 0.00 0.00 0.00 3.02
3012 3034 3.528370 CGTCGGGGTCAGGGCTAG 61.528 72.222 0.00 0.00 0.00 3.42
3151 3173 3.524606 GAGTAGTAGCCGCCCGCA 61.525 66.667 0.00 0.00 41.38 5.69
3160 3182 0.386113 GCAGGAAGGGCGAGTAGTAG 59.614 60.000 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.