Multiple sequence alignment - TraesCS5D01G390800

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 TraesCS5D01G390800 chr5D 100.000 3903 0 0 1 3903 459207386 459211288 0.000000e+00 7208.0
1 TraesCS5D01G390800 chr5D 93.478 46 2 1 3629 3673 216061440 216061395 2.520000e-07 67.6
2 TraesCS5D01G390800 chr5A 90.314 3500 198 63 9 3438 578446373 578449801 0.000000e+00 4455.0
3 TraesCS5D01G390800 chr5A 92.708 96 7 0 3669 3764 578449870 578449965 5.260000e-29 139.0
4 TraesCS5D01G390800 chr5B 92.098 3189 148 50 1 3116 563331969 563335126 0.000000e+00 4397.0
5 TraesCS5D01G390800 chr5B 87.076 766 30 26 3181 3903 563335578 563336317 0.000000e+00 802.0
6 TraesCS5D01G390800 chr5B 92.405 79 6 0 1186 1264 563349256 563349334 3.190000e-21 113.0
7 TraesCS5D01G390800 chr3D 92.424 66 5 0 2749 2814 296430408 296430473 1.150000e-15 95.3
8 TraesCS5D01G390800 chr3D 92.424 66 5 0 2749 2814 511068347 511068412 1.150000e-15 95.3
9 TraesCS5D01G390800 chr3D 92.424 66 5 0 2749 2814 571451319 571451254 1.150000e-15 95.3
10 TraesCS5D01G390800 chr3D 90.909 66 6 0 2749 2814 568577579 568577514 5.370000e-14 89.8
11 TraesCS5D01G390800 chr1D 92.424 66 5 0 2749 2814 321329538 321329603 1.150000e-15 95.3
12 TraesCS5D01G390800 chr7B 93.878 49 1 2 3628 3674 28690665 28690617 5.410000e-09 73.1
13 TraesCS5D01G390800 chr3B 95.556 45 2 0 3633 3677 361739872 361739916 5.410000e-09 73.1
14 TraesCS5D01G390800 chr4B 93.617 47 2 1 3628 3673 661648347 661648301 7.000000e-08 69.4
15 TraesCS5D01G390800 chr6A 93.478 46 2 1 3629 3673 18652486 18652531 2.520000e-07 67.6
16 TraesCS5D01G390800 chr6A 93.478 46 2 1 3629 3673 270744132 270744087 2.520000e-07 67.6
17 TraesCS5D01G390800 chr6A 93.333 45 3 0 3628 3672 615757429 615757385 2.520000e-07 67.6
18 TraesCS5D01G390800 chr4A 91.489 47 3 1 3628 3673 7576552 7576598 3.260000e-06 63.9


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 TraesCS5D01G390800 chr5D 459207386 459211288 3902 False 7208.0 7208 100.000 1 3903 1 chr5D.!!$F1 3902
1 TraesCS5D01G390800 chr5A 578446373 578449965 3592 False 2297.0 4455 91.511 9 3764 2 chr5A.!!$F1 3755
2 TraesCS5D01G390800 chr5B 563331969 563336317 4348 False 2599.5 4397 89.587 1 3903 2 chr5B.!!$F2 3902

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
526 559 0.392595 GGGTCGGTAGGCCTTTTCTG 60.393 60.0 12.58 7.7 43.12 3.02 F
1227 1281 0.998145 AGAAGCCCATGCCTCTCTTT 59.002 50.0 0.00 0.0 32.77 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1692 1773 0.179108 GGAACGAACGGGAGGATGAG 60.179 60.0 0.0 0.0 0.00 2.9 R
3220 3731 0.392193 ACTGCATAGCACAGGACAGC 60.392 55.0 0.0 0.0 39.55 4.4 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
39 40 6.094061 AGGAATACGAGAGAAGAAAAACGAG 58.906 40.000 0.00 0.00 0.00 4.18
181 193 3.137459 CTGCTCGTCGCCTCTCCT 61.137 66.667 0.00 0.00 38.05 3.69
182 194 3.119709 CTGCTCGTCGCCTCTCCTC 62.120 68.421 0.00 0.00 38.05 3.71
183 195 2.826738 GCTCGTCGCCTCTCCTCT 60.827 66.667 0.00 0.00 0.00 3.69
186 198 1.436195 CTCGTCGCCTCTCCTCTCTG 61.436 65.000 0.00 0.00 0.00 3.35
187 199 2.804856 GTCGCCTCTCCTCTCTGC 59.195 66.667 0.00 0.00 0.00 4.26
189 201 3.535962 CGCCTCTCCTCTCTGCCC 61.536 72.222 0.00 0.00 0.00 5.36
212 224 2.185350 CTGTACCAGCCGAGGCAG 59.815 66.667 17.18 8.29 44.88 4.85
213 225 2.283604 TGTACCAGCCGAGGCAGA 60.284 61.111 17.18 0.00 44.88 4.26
214 226 2.290122 CTGTACCAGCCGAGGCAGAG 62.290 65.000 17.18 6.69 44.88 3.35
232 244 3.322466 CCACCCCTCCGCTTCAGT 61.322 66.667 0.00 0.00 0.00 3.41
295 314 1.743252 CCCTGCTTCTCCGTTCTGC 60.743 63.158 0.00 0.00 0.00 4.26
301 320 0.605589 CTTCTCCGTTCTGCTCCTGT 59.394 55.000 0.00 0.00 0.00 4.00
326 345 2.027751 GCTGCCGGTAGGATCGTC 59.972 66.667 21.82 0.00 41.02 4.20
524 557 1.449070 CGGGTCGGTAGGCCTTTTC 60.449 63.158 12.58 1.59 43.12 2.29
526 559 0.392595 GGGTCGGTAGGCCTTTTCTG 60.393 60.000 12.58 7.70 43.12 3.02
528 561 1.271217 GGTCGGTAGGCCTTTTCTGTT 60.271 52.381 12.58 0.00 39.58 3.16
529 562 2.074576 GTCGGTAGGCCTTTTCTGTTC 58.925 52.381 12.58 2.57 0.00 3.18
539 579 3.570125 GCCTTTTCTGTTCTTGTAGGCTT 59.430 43.478 0.00 0.00 42.55 4.35
547 587 3.263261 GTTCTTGTAGGCTTAGGTGCTC 58.737 50.000 0.00 0.00 0.00 4.26
562 602 2.922234 CTCCCCTCCCTGGATTGC 59.078 66.667 0.00 0.00 38.35 3.56
694 737 4.767255 CGGCGGCTGCTTCTTCCT 62.767 66.667 18.85 0.00 42.25 3.36
695 738 3.130160 GGCGGCTGCTTCTTCCTG 61.130 66.667 18.85 0.00 42.25 3.86
705 748 1.965754 CTTCTTCCTGGGCCTCGGAG 61.966 65.000 4.53 0.00 0.00 4.63
731 774 1.303888 CATGGAGGTGGCAGTGCTT 60.304 57.895 16.11 0.00 0.00 3.91
802 846 3.541632 TGTCTCTCCTGCGTTTTTCTTT 58.458 40.909 0.00 0.00 0.00 2.52
808 852 5.603596 TCTCCTGCGTTTTTCTTTACTGTA 58.396 37.500 0.00 0.00 0.00 2.74
831 875 1.227263 GCATATCCTCGTGCCGTGT 60.227 57.895 0.00 0.00 35.35 4.49
859 903 7.867909 GCCTGTTTTAGATATTTATTTCCCTGC 59.132 37.037 0.00 0.00 0.00 4.85
891 935 2.026262 ACCCGAGTCCAATTATTGCAGT 60.026 45.455 0.00 0.00 0.00 4.40
967 1012 3.243068 GGAAGTTCTTGATTTGTGCGTGT 60.243 43.478 2.25 0.00 0.00 4.49
968 1013 4.351192 GAAGTTCTTGATTTGTGCGTGTT 58.649 39.130 0.00 0.00 0.00 3.32
1227 1281 0.998145 AGAAGCCCATGCCTCTCTTT 59.002 50.000 0.00 0.00 32.77 2.52
1692 1773 0.464452 ATGGCTCTAACTGTACGGGC 59.536 55.000 6.65 0.00 0.00 6.13
1845 1926 2.583520 CAGCAGAGGAGGAGGTGC 59.416 66.667 0.00 0.00 36.10 5.01
1930 2011 8.306761 AGAAAAGGTTGGAATTCATTGTGATAC 58.693 33.333 7.93 0.00 0.00 2.24
1934 2015 8.137745 AGGTTGGAATTCATTGTGATACATTT 57.862 30.769 7.93 0.00 0.00 2.32
1935 2016 8.036575 AGGTTGGAATTCATTGTGATACATTTG 58.963 33.333 7.93 0.00 0.00 2.32
1936 2017 7.278424 GGTTGGAATTCATTGTGATACATTTGG 59.722 37.037 7.93 0.00 0.00 3.28
2139 2221 2.526888 TCCCCGCATCCTAGGTATAG 57.473 55.000 9.08 0.00 0.00 1.31
2155 2237 9.778741 CCTAGGTATAGCAAAATACTTGAATCA 57.221 33.333 0.00 0.00 33.62 2.57
2256 2338 7.331687 GCTGGCTTTGTCATTTTGTTATGTTAT 59.668 33.333 0.00 0.00 0.00 1.89
2275 2361 1.588674 TGAAGCAAGTACCGTTGGTG 58.411 50.000 0.00 0.00 38.16 4.17
2283 2369 4.913345 GCAAGTACCGTTGGTGTAATTTTC 59.087 41.667 0.00 0.00 36.19 2.29
2284 2370 5.454520 CAAGTACCGTTGGTGTAATTTTCC 58.545 41.667 0.00 0.00 36.19 3.13
2305 2391 6.665992 TCCTTTGTTCAGAGTTAGAGCTTA 57.334 37.500 0.00 0.00 0.00 3.09
2309 2395 8.470805 CCTTTGTTCAGAGTTAGAGCTTATCTA 58.529 37.037 0.00 0.00 39.64 1.98
2313 2399 8.346300 TGTTCAGAGTTAGAGCTTATCTATTCG 58.654 37.037 0.00 0.00 40.27 3.34
2401 2488 5.913137 TCATCCACATGATTTTGGGTAAC 57.087 39.130 0.00 0.00 33.80 2.50
2445 2533 7.123547 TGAATTAATGGGGTGACAATTCTAACC 59.876 37.037 0.00 0.00 36.82 2.85
2630 2729 7.162082 AGAAACCTGTTCTAATTCTGGTAGTG 58.838 38.462 0.00 0.00 35.43 2.74
2731 2830 6.245408 TCAAACAGGCCACTTAAGAATGTAT 58.755 36.000 10.09 0.00 0.00 2.29
2919 3024 0.404040 TGACCTTTCGGGCTTCCATT 59.596 50.000 0.00 0.00 39.94 3.16
2965 3074 4.081917 AGCCTCCGTTTTCTAGAGAAAGAG 60.082 45.833 9.97 11.99 43.90 2.85
2967 3076 5.567025 GCCTCCGTTTTCTAGAGAAAGAGAA 60.567 44.000 18.73 0.00 43.90 2.87
3133 3257 5.637810 GTCGATTTAGTGGTGTTTCTCATCA 59.362 40.000 0.00 0.00 34.45 3.07
3211 3722 2.632996 TGTGTCTGTTGGTCCTTAGGAG 59.367 50.000 0.00 0.00 29.39 3.69
3225 3736 4.683432 GGAGTGTCCTGTGCTGTC 57.317 61.111 0.00 0.00 32.53 3.51
3226 3737 1.004440 GGAGTGTCCTGTGCTGTCC 60.004 63.158 0.00 0.00 32.53 4.02
3227 3738 1.476007 GGAGTGTCCTGTGCTGTCCT 61.476 60.000 0.00 0.00 32.53 3.85
3228 3739 0.320247 GAGTGTCCTGTGCTGTCCTG 60.320 60.000 0.00 0.00 0.00 3.86
3229 3740 1.050988 AGTGTCCTGTGCTGTCCTGT 61.051 55.000 0.00 0.00 0.00 4.00
3233 3744 0.831711 TCCTGTGCTGTCCTGTGCTA 60.832 55.000 0.00 0.00 0.00 3.49
3237 3748 0.674581 GTGCTGTCCTGTGCTATGCA 60.675 55.000 0.00 0.00 35.60 3.96
3249 3760 3.940852 TGTGCTATGCAGTGTAAGATTGG 59.059 43.478 0.00 0.00 40.08 3.16
3307 3818 0.251787 GTGCAAGGGGGTTGGAGAAT 60.252 55.000 0.00 0.00 37.13 2.40
3308 3819 0.251742 TGCAAGGGGGTTGGAGAATG 60.252 55.000 0.00 0.00 36.56 2.67
3309 3820 1.607801 GCAAGGGGGTTGGAGAATGC 61.608 60.000 0.00 0.00 36.56 3.56
3310 3821 0.251742 CAAGGGGGTTGGAGAATGCA 60.252 55.000 0.00 0.00 31.82 3.96
3311 3822 0.040204 AAGGGGGTTGGAGAATGCAG 59.960 55.000 0.00 0.00 38.09 4.41
3312 3823 1.380380 GGGGGTTGGAGAATGCAGG 60.380 63.158 0.00 0.00 38.09 4.85
3313 3824 1.384191 GGGGTTGGAGAATGCAGGT 59.616 57.895 0.00 0.00 38.09 4.00
3314 3825 0.623723 GGGGTTGGAGAATGCAGGTA 59.376 55.000 0.00 0.00 38.09 3.08
3315 3826 1.408822 GGGGTTGGAGAATGCAGGTAG 60.409 57.143 0.00 0.00 38.09 3.18
3316 3827 1.383523 GGTTGGAGAATGCAGGTAGC 58.616 55.000 0.00 0.00 38.09 3.58
3317 3828 1.065126 GGTTGGAGAATGCAGGTAGCT 60.065 52.381 0.00 0.00 45.94 3.32
3350 3872 4.251268 GTTAAAGTTGCGACACCTAGGAT 58.749 43.478 17.98 2.27 0.00 3.24
3352 3874 1.853963 AGTTGCGACACCTAGGATCT 58.146 50.000 17.98 0.00 0.00 2.75
3353 3875 1.751924 AGTTGCGACACCTAGGATCTC 59.248 52.381 17.98 8.24 0.00 2.75
3354 3876 1.476891 GTTGCGACACCTAGGATCTCA 59.523 52.381 17.98 10.86 0.00 3.27
3355 3877 1.103803 TGCGACACCTAGGATCTCAC 58.896 55.000 17.98 5.74 0.00 3.51
3377 3899 2.622064 ATGTACCCCTCATCTTTCGC 57.378 50.000 0.00 0.00 0.00 4.70
3428 3950 1.327303 TGACATGGGTTCCTGTTTGC 58.673 50.000 0.00 0.00 0.00 3.68
3478 4044 4.159557 AGCATTTGATGTGTACCCCTTTT 58.840 39.130 0.00 0.00 0.00 2.27
3495 4061 4.874966 CCCTTTTGTTGTTTTCTTGCATGA 59.125 37.500 0.00 0.00 0.00 3.07
3551 4124 6.120220 AGGAAACTTGGTATATTTTCTCCGG 58.880 40.000 0.00 0.00 37.44 5.14
3588 4161 7.278646 ACATACATTCAATGCACTACTACACAG 59.721 37.037 0.00 0.00 0.00 3.66
3590 4163 4.617253 TTCAATGCACTACTACACAGGT 57.383 40.909 0.00 0.00 0.00 4.00
3642 4227 1.755179 TCGGGTACTCCTCCGTAAAG 58.245 55.000 7.95 0.00 45.79 1.85
3766 4351 7.975616 TCAAACTTCAACTTCTTTTTCCTCATG 59.024 33.333 0.00 0.00 0.00 3.07
3771 4356 2.227388 ACTTCTTTTTCCTCATGCAGCG 59.773 45.455 0.00 0.00 0.00 5.18
3774 4359 0.881118 TTTTTCCTCATGCAGCGGAC 59.119 50.000 0.00 0.00 28.80 4.79
3776 4361 3.664025 TTCCTCATGCAGCGGACGG 62.664 63.158 0.00 0.00 28.80 4.79
3803 4388 3.387225 GACCTAACCGCCTGCCTCC 62.387 68.421 0.00 0.00 0.00 4.30
3865 4450 2.270352 TTCACCAGAAACTTCGGCAT 57.730 45.000 0.00 0.00 0.00 4.40
3873 4458 2.351726 AGAAACTTCGGCATCATAACGC 59.648 45.455 0.00 0.00 0.00 4.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
212 224 4.475135 GAAGCGGAGGGGTGGCTC 62.475 72.222 0.00 0.00 35.64 4.70
214 226 4.785453 CTGAAGCGGAGGGGTGGC 62.785 72.222 0.00 0.00 0.00 5.01
217 229 3.322466 CCACTGAAGCGGAGGGGT 61.322 66.667 0.00 0.00 0.00 4.95
228 240 4.293648 CGTCGCCACCACCACTGA 62.294 66.667 0.00 0.00 0.00 3.41
295 314 1.163554 GGCAGCAAGAAGAACAGGAG 58.836 55.000 0.00 0.00 0.00 3.69
301 320 0.036388 CCTACCGGCAGCAAGAAGAA 60.036 55.000 0.00 0.00 0.00 2.52
326 345 3.564027 GAATCGCCGGGCACGAAG 61.564 66.667 20.71 2.54 43.71 3.79
411 443 3.663419 ACCCCGGGTGACAAGAAA 58.337 55.556 21.85 0.00 32.98 2.52
524 557 3.003480 GCACCTAAGCCTACAAGAACAG 58.997 50.000 0.00 0.00 0.00 3.16
526 559 3.263261 GAGCACCTAAGCCTACAAGAAC 58.737 50.000 0.00 0.00 34.23 3.01
528 561 1.831736 GGAGCACCTAAGCCTACAAGA 59.168 52.381 0.00 0.00 34.23 3.02
529 562 1.134371 GGGAGCACCTAAGCCTACAAG 60.134 57.143 0.00 0.00 35.85 3.16
539 579 2.368594 CAGGGAGGGGAGCACCTA 59.631 66.667 0.00 0.00 42.10 3.08
547 587 3.825623 GGGCAATCCAGGGAGGGG 61.826 72.222 0.00 0.00 38.24 4.79
562 602 3.131478 CAAAACTAGGCCGCCGGG 61.131 66.667 4.77 3.39 0.00 5.73
694 737 1.602237 GATTTCACTCCGAGGCCCA 59.398 57.895 0.00 0.00 0.00 5.36
695 738 1.153147 GGATTTCACTCCGAGGCCC 60.153 63.158 0.00 0.00 0.00 5.80
705 748 1.106285 GCCACCTCCATGGATTTCAC 58.894 55.000 16.63 1.46 43.02 3.18
731 774 2.765689 ATCATTCCGCCCCCATAAAA 57.234 45.000 0.00 0.00 0.00 1.52
802 846 5.588240 CACGAGGATATGCTTTGTACAGTA 58.412 41.667 0.00 0.00 0.00 2.74
808 852 1.668419 GGCACGAGGATATGCTTTGT 58.332 50.000 0.00 0.00 41.74 2.83
831 875 7.996644 AGGGAAATAAATATCTAAAACAGGCGA 59.003 33.333 0.00 0.00 0.00 5.54
859 903 3.024547 TGGACTCGGGTAGAAGATTCTG 58.975 50.000 5.34 0.00 38.19 3.02
891 935 3.295093 TCAAAAGGATTCAACACCTGCA 58.705 40.909 0.00 0.00 36.56 4.41
945 990 3.243068 ACACGCACAAATCAAGAACTTCC 60.243 43.478 0.00 0.00 0.00 3.46
967 1012 0.179004 CCCCTACCTGCACACACAAA 60.179 55.000 0.00 0.00 0.00 2.83
968 1013 1.454104 CCCCTACCTGCACACACAA 59.546 57.895 0.00 0.00 0.00 3.33
1227 1281 1.371183 CCGGAAGAGGTTGCTGTCA 59.629 57.895 0.00 0.00 0.00 3.58
1284 1338 3.414700 GACGTCTTGGGTGCAGCG 61.415 66.667 8.70 0.00 0.00 5.18
1287 1341 2.377628 GACTGGACGTCTTGGGTGCA 62.378 60.000 16.46 1.75 39.61 4.57
1321 1378 0.390472 CTCGGAAACAGCTGGAGACC 60.390 60.000 19.93 14.04 0.00 3.85
1518 1599 1.134007 TGGATGAAATGGAGATGCGCT 60.134 47.619 9.73 0.00 0.00 5.92
1692 1773 0.179108 GGAACGAACGGGAGGATGAG 60.179 60.000 0.00 0.00 0.00 2.90
1930 2011 9.706691 ATAATAACGGTAGTCAGATACCAAATG 57.293 33.333 3.98 0.00 44.73 2.32
1934 2015 6.779049 ACCATAATAACGGTAGTCAGATACCA 59.221 38.462 3.98 0.00 44.73 3.25
1935 2016 7.224522 ACCATAATAACGGTAGTCAGATACC 57.775 40.000 0.00 0.00 41.63 2.73
1998 2080 7.673926 TCCTTATCCTTAGTTTCCTGCAATTTT 59.326 33.333 0.00 0.00 0.00 1.82
1999 2081 7.182060 TCCTTATCCTTAGTTTCCTGCAATTT 58.818 34.615 0.00 0.00 0.00 1.82
2004 2086 4.164413 ACCTCCTTATCCTTAGTTTCCTGC 59.836 45.833 0.00 0.00 0.00 4.85
2256 2338 1.134340 ACACCAACGGTACTTGCTTCA 60.134 47.619 0.00 0.00 32.11 3.02
2260 2342 4.492791 AAATTACACCAACGGTACTTGC 57.507 40.909 0.00 0.00 32.11 4.01
2267 2349 4.939271 ACAAAGGAAAATTACACCAACGG 58.061 39.130 0.00 0.00 0.00 4.44
2283 2369 7.327214 AGATAAGCTCTAACTCTGAACAAAGG 58.673 38.462 0.00 0.00 30.26 3.11
2413 2501 4.955450 TGTCACCCCATTAATTCAGGATTG 59.045 41.667 2.84 0.00 0.00 2.67
2415 2503 4.879295 TGTCACCCCATTAATTCAGGAT 57.121 40.909 2.84 0.00 0.00 3.24
2445 2533 6.943146 GGGGGATAAAATCTAGCCTTAGAAAG 59.057 42.308 0.00 0.00 39.29 2.62
2605 2704 7.162082 CACTACCAGAATTAGAACAGGTTTCT 58.838 38.462 0.00 0.00 0.00 2.52
2731 2830 2.798853 GCAACACAATGATGCACACACA 60.799 45.455 6.23 0.00 44.27 3.72
2791 2890 1.140589 CTCGACATGCTTCCTCGCT 59.859 57.895 0.00 0.00 0.00 4.93
2851 2950 0.889186 GGTTGTGGTTGTGATCGCCT 60.889 55.000 3.31 0.00 0.00 5.52
2913 3018 0.669318 GGTCTGCGACGACAATGGAA 60.669 55.000 0.00 0.00 35.63 3.53
2984 3093 8.569641 TGTACAGACTAGTCTCTTCTTCTTTTC 58.430 37.037 22.76 4.23 37.98 2.29
2985 3094 8.466617 TGTACAGACTAGTCTCTTCTTCTTTT 57.533 34.615 22.76 0.00 37.98 2.27
3086 3205 5.820947 ACAATCTACGCGATAAATCCCTTTT 59.179 36.000 15.93 0.00 0.00 2.27
3211 3722 0.882042 CACAGGACAGCACAGGACAC 60.882 60.000 0.00 0.00 0.00 3.67
3220 3731 0.392193 ACTGCATAGCACAGGACAGC 60.392 55.000 0.00 0.00 39.55 4.40
3221 3732 1.338484 ACACTGCATAGCACAGGACAG 60.338 52.381 0.00 0.00 39.55 3.51
3222 3733 0.686789 ACACTGCATAGCACAGGACA 59.313 50.000 0.00 0.00 39.55 4.02
3223 3734 2.672961 TACACTGCATAGCACAGGAC 57.327 50.000 0.00 0.00 39.55 3.85
3224 3735 2.831526 TCTTACACTGCATAGCACAGGA 59.168 45.455 0.00 0.00 39.55 3.86
3225 3736 3.251479 TCTTACACTGCATAGCACAGG 57.749 47.619 0.00 0.00 39.55 4.00
3226 3737 4.034858 CCAATCTTACACTGCATAGCACAG 59.965 45.833 0.00 0.00 41.08 3.66
3227 3738 3.940852 CCAATCTTACACTGCATAGCACA 59.059 43.478 0.00 0.00 33.79 4.57
3228 3739 3.313526 CCCAATCTTACACTGCATAGCAC 59.686 47.826 0.00 0.00 33.79 4.40
3229 3740 3.544684 CCCAATCTTACACTGCATAGCA 58.455 45.455 0.00 0.00 36.92 3.49
3233 3744 2.372264 CAGCCCAATCTTACACTGCAT 58.628 47.619 0.00 0.00 0.00 3.96
3237 3748 1.352352 ACTGCAGCCCAATCTTACACT 59.648 47.619 15.27 0.00 0.00 3.55
3249 3760 1.512926 CCCGACATATAACTGCAGCC 58.487 55.000 15.27 0.00 0.00 4.85
3307 3818 2.348620 CACTGCCAGCTACCTGCA 59.651 61.111 0.00 0.00 45.94 4.41
3308 3819 3.130160 GCACTGCCAGCTACCTGC 61.130 66.667 0.00 0.00 43.29 4.85
3350 3872 4.104086 AGATGAGGGGTACATTTGTGAGA 58.896 43.478 0.00 0.00 0.00 3.27
3352 3874 4.927267 AAGATGAGGGGTACATTTGTGA 57.073 40.909 0.00 0.00 0.00 3.58
3353 3875 4.094887 CGAAAGATGAGGGGTACATTTGTG 59.905 45.833 0.00 0.00 0.00 3.33
3354 3876 4.261801 CGAAAGATGAGGGGTACATTTGT 58.738 43.478 0.00 0.00 0.00 2.83
3355 3877 3.065371 GCGAAAGATGAGGGGTACATTTG 59.935 47.826 0.00 0.00 0.00 2.32
3377 3899 2.033801 GCGATCCACCAATCCAATTGAG 59.966 50.000 7.12 0.00 42.83 3.02
3454 4014 3.356290 AGGGGTACACATCAAATGCTTC 58.644 45.455 0.00 0.00 0.00 3.86
3478 4044 4.930963 ACGATTCATGCAAGAAAACAACA 58.069 34.783 8.64 0.00 0.00 3.33
3495 4061 2.550830 ACCAAGAAGCACAGACGATT 57.449 45.000 0.00 0.00 0.00 3.34
3546 4119 7.279090 TGAATGTATGTATTTACACAACCGGAG 59.721 37.037 9.46 1.96 39.30 4.63
3551 4124 9.566530 TGCATTGAATGTATGTATTTACACAAC 57.433 29.630 7.05 0.00 39.30 3.32
3599 4183 9.760077 CGATAAATAGACGGCCCTTTATATTAT 57.240 33.333 0.00 0.00 0.00 1.28
3608 4192 0.974383 CCCGATAAATAGACGGCCCT 59.026 55.000 0.00 0.00 44.45 5.19
3610 4194 2.560105 AGTACCCGATAAATAGACGGCC 59.440 50.000 0.00 0.00 44.45 6.13
3652 4237 9.726438 ACTTGTTAAAGTAGTGATCTAAATGCT 57.274 29.630 0.00 0.00 45.01 3.79
3663 4248 9.450807 CCTTTGATGAAACTTGTTAAAGTAGTG 57.549 33.333 0.00 0.00 46.15 2.74
3676 4261 9.171877 GAAGATCTAATGACCTTTGATGAAACT 57.828 33.333 0.00 0.00 30.78 2.66
3774 4359 3.708544 TTAGGTCCGGGTTGGCCG 61.709 66.667 0.00 0.00 38.51 6.13
3776 4361 2.045634 GGTTAGGTCCGGGTTGGC 60.046 66.667 0.00 0.00 37.80 4.52
3784 4369 3.387225 GAGGCAGGCGGTTAGGTCC 62.387 68.421 0.00 0.00 0.00 4.46
3865 4450 3.119280 TGATTCTTCTCCACGCGTTATGA 60.119 43.478 10.22 5.79 0.00 2.15
3873 4458 3.425359 GCATGTTGTGATTCTTCTCCACG 60.425 47.826 0.00 0.00 33.78 4.94


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

AutoCloner maintained by Alex Coulton.