Multiple sequence alignment - TraesCS5D01G319300

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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 TraesCS5D01G319300 chr5D 100.000 3379 0 0 1 3379 412250048 412246670 0.000000e+00 6240.0
1 TraesCS5D01G319300 chr5B 88.642 3240 125 66 276 3377 495829760 495826626 0.000000e+00 3720.0
2 TraesCS5D01G319300 chr5B 83.923 311 21 8 1 284 495832451 495832143 1.550000e-68 270.0
3 TraesCS5D01G319300 chr5A 87.133 1671 110 59 450 2055 524012968 524011338 0.000000e+00 1797.0
4 TraesCS5D01G319300 chr5A 84.432 1381 95 62 2058 3377 524011371 524010050 0.000000e+00 1249.0
5 TraesCS5D01G319300 chr3B 97.959 49 0 1 1094 1141 659275883 659275835 2.160000e-12 84.2
6 TraesCS5D01G319300 chr3B 95.918 49 1 1 1094 1141 659297955 659297907 1.010000e-10 78.7
7 TraesCS5D01G319300 chr3B 95.918 49 1 1 1094 1141 659305263 659305215 1.010000e-10 78.7
8 TraesCS5D01G319300 chr3A 97.959 49 0 1 1094 1141 638467701 638467653 2.160000e-12 84.2
9 TraesCS5D01G319300 chr3A 97.959 49 0 1 1094 1141 638711299 638711251 2.160000e-12 84.2
10 TraesCS5D01G319300 chr3A 97.872 47 0 1 1096 1141 638446821 638446775 2.790000e-11 80.5
11 TraesCS5D01G319300 chr7D 86.154 65 3 3 1972 2033 25818474 25818413 7.830000e-07 65.8
12 TraesCS5D01G319300 chr4A 86.154 65 3 3 1972 2033 710243803 710243742 7.830000e-07 65.8


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 TraesCS5D01G319300 chr5D 412246670 412250048 3378 True 6240 6240 100.0000 1 3379 1 chr5D.!!$R1 3378
1 TraesCS5D01G319300 chr5B 495826626 495832451 5825 True 1995 3720 86.2825 1 3377 2 chr5B.!!$R1 3376
2 TraesCS5D01G319300 chr5A 524010050 524012968 2918 True 1523 1797 85.7825 450 3377 2 chr5A.!!$R1 2927

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
36 37 0.037447 AGTGCAAGGGAGGAGAAAGC 59.963 55.0 0.00 0.0 0.00 3.51 F
190 196 0.247460 GCCAAGCCACCTTCCATTTC 59.753 55.0 0.00 0.0 0.00 2.17 F
1663 4175 0.392863 TCGTCTCGTCGATGGGGTTA 60.393 55.0 4.29 0.0 34.85 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1863 4375 1.082117 ACTTAATTCGGCCGAGCGTG 61.082 55.0 29.20 19.6 0.00 5.34 R
1935 4454 1.148759 GAGCCGAAGCGGATTCAGTC 61.149 60.0 10.44 0.0 45.97 3.51 R
3330 5965 0.179004 AACCATTTGTCCTCGTGGCA 60.179 50.0 0.00 0.0 35.11 4.92 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
31 32 0.539051 CAGGTAGTGCAAGGGAGGAG 59.461 60.000 0.00 0.00 0.00 3.69
32 33 0.413832 AGGTAGTGCAAGGGAGGAGA 59.586 55.000 0.00 0.00 0.00 3.71
35 36 2.355209 GGTAGTGCAAGGGAGGAGAAAG 60.355 54.545 0.00 0.00 0.00 2.62
36 37 0.037447 AGTGCAAGGGAGGAGAAAGC 59.963 55.000 0.00 0.00 0.00 3.51
38 39 1.296715 GCAAGGGAGGAGAAAGCGA 59.703 57.895 0.00 0.00 0.00 4.93
39 40 0.742635 GCAAGGGAGGAGAAAGCGAG 60.743 60.000 0.00 0.00 0.00 5.03
40 41 0.898320 CAAGGGAGGAGAAAGCGAGA 59.102 55.000 0.00 0.00 0.00 4.04
41 42 1.134848 CAAGGGAGGAGAAAGCGAGAG 60.135 57.143 0.00 0.00 0.00 3.20
137 143 4.043200 GCCACGGTTGCTTGGAGC 62.043 66.667 0.00 0.00 42.82 4.70
188 194 4.118584 GCCAAGCCACCTTCCATT 57.881 55.556 0.00 0.00 0.00 3.16
189 195 2.365410 GCCAAGCCACCTTCCATTT 58.635 52.632 0.00 0.00 0.00 2.32
190 196 0.247460 GCCAAGCCACCTTCCATTTC 59.753 55.000 0.00 0.00 0.00 2.17
191 197 0.897621 CCAAGCCACCTTCCATTTCC 59.102 55.000 0.00 0.00 0.00 3.13
192 198 0.527565 CAAGCCACCTTCCATTTCCG 59.472 55.000 0.00 0.00 0.00 4.30
236 263 2.279186 CACTGCACGACACGGACA 60.279 61.111 0.00 0.00 0.00 4.02
239 266 1.730902 CTGCACGACACGGACAGAG 60.731 63.158 9.02 0.00 36.50 3.35
241 268 2.801162 CACGACACGGACAGAGCG 60.801 66.667 0.00 0.00 0.00 5.03
263 290 5.329493 CGAAAAACGGACAGAAAAGAAACT 58.671 37.500 0.00 0.00 38.46 2.66
313 2731 2.668212 TCCGCTGGCCACTTTTCG 60.668 61.111 0.00 0.07 0.00 3.46
314 2732 4.404654 CCGCTGGCCACTTTTCGC 62.405 66.667 0.00 0.68 0.00 4.70
321 2739 1.282875 GCCACTTTTCGCTGGTCAC 59.717 57.895 0.00 0.00 0.00 3.67
329 2747 2.725203 TTCGCTGGTCACGGGAAAGG 62.725 60.000 0.00 0.00 31.53 3.11
347 2765 3.142838 GCATGCAGAATGGCGGGT 61.143 61.111 14.21 0.00 36.71 5.28
351 2769 4.424711 GCAGAATGGCGGGTGGGA 62.425 66.667 0.00 0.00 35.86 4.37
384 2802 1.227734 CGGGCCCGATTTATTCCGT 60.228 57.895 41.82 0.00 42.83 4.69
387 2805 0.531311 GGCCCGATTTATTCCGTCGT 60.531 55.000 0.00 0.00 33.77 4.34
392 2810 2.223641 CCGATTTATTCCGTCGTCCTCA 60.224 50.000 0.00 0.00 33.77 3.86
393 2811 2.787680 CGATTTATTCCGTCGTCCTCAC 59.212 50.000 0.00 0.00 0.00 3.51
395 2813 1.167851 TTATTCCGTCGTCCTCACGT 58.832 50.000 0.00 0.00 46.76 4.49
396 2814 2.022764 TATTCCGTCGTCCTCACGTA 57.977 50.000 0.00 0.00 46.76 3.57
493 2911 2.873133 TGTTTTACTTGCCCCGTTTG 57.127 45.000 0.00 0.00 0.00 2.93
636 3058 2.198304 CTTGTACCCTCCCCACCTGC 62.198 65.000 0.00 0.00 0.00 4.85
637 3059 3.782443 GTACCCTCCCCACCTGCG 61.782 72.222 0.00 0.00 0.00 5.18
714 3136 1.950748 TACCTCTCTGCCTCCTCCCC 61.951 65.000 0.00 0.00 0.00 4.81
715 3137 2.695597 CTCTCTGCCTCCTCCCCT 59.304 66.667 0.00 0.00 0.00 4.79
717 3139 2.235602 CTCTCTGCCTCCTCCCCTCA 62.236 65.000 0.00 0.00 0.00 3.86
722 3152 1.385206 GCCTCCTCCCCTCATCCTT 60.385 63.158 0.00 0.00 0.00 3.36
816 3255 1.356624 CGATCCAGCAAATTCGCCC 59.643 57.895 0.00 0.00 0.00 6.13
867 3321 1.537135 CGAGGAGAGATTTTCGGAGCC 60.537 57.143 0.00 0.00 0.00 4.70
898 3352 0.889306 CTTCCGTCTCCTTCCTCGTT 59.111 55.000 0.00 0.00 0.00 3.85
901 3355 0.452585 CCGTCTCCTTCCTCGTTCTC 59.547 60.000 0.00 0.00 0.00 2.87
949 3403 2.439156 GCAGGCTGCTAGGGTTGG 60.439 66.667 31.37 0.00 40.96 3.77
950 3404 2.439156 CAGGCTGCTAGGGTTGGC 60.439 66.667 0.00 0.00 0.00 4.52
962 3416 1.313091 GGGTTGGCCGGTTGATTCTC 61.313 60.000 1.90 0.00 34.97 2.87
966 3420 2.464459 GGCCGGTTGATTCTCTGCG 61.464 63.158 1.90 0.00 0.00 5.18
967 3421 3.093278 CCGGTTGATTCTCTGCGC 58.907 61.111 0.00 0.00 0.00 6.09
1261 3729 1.151777 ATCCTTCGGTAATGCACGCG 61.152 55.000 3.53 3.53 0.00 6.01
1268 3736 1.201976 CGGTAATGCACGCGAATCAAA 60.202 47.619 15.93 0.00 0.00 2.69
1269 3737 2.538737 CGGTAATGCACGCGAATCAAAT 60.539 45.455 15.93 3.78 0.00 2.32
1270 3738 3.035942 GGTAATGCACGCGAATCAAATC 58.964 45.455 15.93 0.00 0.00 2.17
1272 3740 2.917701 ATGCACGCGAATCAAATCAA 57.082 40.000 15.93 0.00 0.00 2.57
1346 3839 1.065410 TGAGGGTGAATGGTGGTGGT 61.065 55.000 0.00 0.00 0.00 4.16
1663 4175 0.392863 TCGTCTCGTCGATGGGGTTA 60.393 55.000 4.29 0.00 34.85 2.85
1684 4196 2.093447 AGGTGGGTGTCTGATCGAATTC 60.093 50.000 0.00 0.00 0.00 2.17
1692 4204 1.134818 TCTGATCGAATTCGGGTGGTG 60.135 52.381 26.47 12.60 40.29 4.17
1693 4205 0.742990 TGATCGAATTCGGGTGGTGC 60.743 55.000 26.47 9.54 40.29 5.01
1694 4206 0.462047 GATCGAATTCGGGTGGTGCT 60.462 55.000 26.47 2.97 40.29 4.40
1695 4207 0.744414 ATCGAATTCGGGTGGTGCTG 60.744 55.000 26.47 0.00 40.29 4.41
1696 4208 2.877691 GAATTCGGGTGGTGCTGC 59.122 61.111 0.00 0.00 0.00 5.25
1697 4209 1.675641 GAATTCGGGTGGTGCTGCT 60.676 57.895 0.00 0.00 0.00 4.24
1863 4375 2.482374 GATTGCAGGTCAGCACGC 59.518 61.111 0.00 0.00 45.61 5.34
1891 4403 0.393267 CCGAATTAAGTTCCCCGCCA 60.393 55.000 0.00 0.00 33.04 5.69
1914 4426 2.063266 TCCGTTGACGAGCACATTAAC 58.937 47.619 4.91 0.00 43.02 2.01
1935 4454 2.433838 CCACAGGAGCTGAGCACG 60.434 66.667 7.39 0.00 35.18 5.34
2270 4789 2.503158 TCAATGCCGTCGACGTCG 60.503 61.111 33.49 31.30 41.45 5.12
2338 4857 1.140589 CGGCCAGCAACAACAACAA 59.859 52.632 2.24 0.00 0.00 2.83
2340 4859 1.145162 GGCCAGCAACAACAACAACG 61.145 55.000 0.00 0.00 0.00 4.10
2442 4973 0.736325 ATTCCTTTCTCGTGCGTCCG 60.736 55.000 0.00 0.00 0.00 4.79
2450 4981 2.880879 CGTGCGTCCGTCCATCAG 60.881 66.667 0.00 0.00 0.00 2.90
2455 4986 1.728069 CGTCCGTCCATCAGTCGAT 59.272 57.895 0.00 0.00 0.00 3.59
2457 4988 0.317103 GTCCGTCCATCAGTCGATCG 60.317 60.000 9.36 9.36 0.00 3.69
2490 5036 1.667177 CGATCCGATCCGACCAATCTG 60.667 57.143 2.69 0.00 0.00 2.90
2509 5055 1.244019 GGTGCCGATTGTTTGCTCCT 61.244 55.000 0.00 0.00 36.12 3.69
2510 5056 0.169009 GTGCCGATTGTTTGCTCCTC 59.831 55.000 0.00 0.00 0.00 3.71
2533 5079 7.198306 TCCGTCTGTTTATTCTTTCCTTTTC 57.802 36.000 0.00 0.00 0.00 2.29
2670 5230 1.449070 GTCCATTCCGTTCCGTCCC 60.449 63.158 0.00 0.00 0.00 4.46
2671 5231 2.510691 CCATTCCGTTCCGTCCCG 60.511 66.667 0.00 0.00 0.00 5.14
2672 5232 2.263540 CATTCCGTTCCGTCCCGT 59.736 61.111 0.00 0.00 0.00 5.28
2673 5233 1.808390 CATTCCGTTCCGTCCCGTC 60.808 63.158 0.00 0.00 0.00 4.79
2674 5234 3.010413 ATTCCGTTCCGTCCCGTCC 62.010 63.158 0.00 0.00 0.00 4.79
2678 5238 4.426112 GTTCCGTCCCGTCCCGTC 62.426 72.222 0.00 0.00 0.00 4.79
2711 5271 2.125673 CGCCGGTGGTGGTCTTAG 60.126 66.667 7.26 0.00 0.00 2.18
2764 5339 9.040259 AGCATGTATATGTGATTCATACTACCT 57.960 33.333 1.14 0.00 41.13 3.08
2848 5439 1.359848 CAAGTGGTGATCGTACTGCC 58.640 55.000 0.00 0.00 0.00 4.85
2856 5447 0.597637 GATCGTACTGCCGGGTGATG 60.598 60.000 2.18 0.00 0.00 3.07
2878 5469 0.960364 CGGGGTGTGAGATTTGGTGG 60.960 60.000 0.00 0.00 0.00 4.61
2879 5470 0.112412 GGGGTGTGAGATTTGGTGGT 59.888 55.000 0.00 0.00 0.00 4.16
2880 5471 1.247567 GGGTGTGAGATTTGGTGGTG 58.752 55.000 0.00 0.00 0.00 4.17
2888 5479 1.425066 AGATTTGGTGGTGCTCTGGAA 59.575 47.619 0.00 0.00 0.00 3.53
2898 5489 1.097232 TGCTCTGGAATCCAAATGCG 58.903 50.000 2.61 0.00 30.80 4.73
2927 5526 1.851304 TGATTGATTGGTTGGGGCTC 58.149 50.000 0.00 0.00 0.00 4.70
2930 5529 2.044946 GATTGGTTGGGGCTCGCT 60.045 61.111 0.00 0.00 0.00 4.93
2986 5589 0.679321 TATTGTTGGCCATGAGCGCA 60.679 50.000 6.09 0.00 45.17 6.09
2987 5590 1.940883 ATTGTTGGCCATGAGCGCAG 61.941 55.000 6.09 0.00 45.17 5.18
2988 5591 3.818787 GTTGGCCATGAGCGCAGG 61.819 66.667 6.09 7.04 45.17 4.85
3027 5651 1.896660 GCGAGTTGGTTCCAGGCAA 60.897 57.895 0.00 0.00 0.00 4.52
3056 5680 1.337703 CCATTGACAGTGTGGTGGTTG 59.662 52.381 0.00 0.00 0.00 3.77
3109 5734 0.036952 CTACTCTGTGGGTGTGGCTG 60.037 60.000 0.00 0.00 0.00 4.85
3117 5742 0.251121 TGGGTGTGGCTGTATTGGTG 60.251 55.000 0.00 0.00 0.00 4.17
3225 5850 1.422402 TCCTGGGTGTTAACCTGAACC 59.578 52.381 2.48 3.71 46.70 3.62
3240 5865 2.548127 GAACCGGCCAGCTGCATTTC 62.548 60.000 8.66 2.29 43.89 2.17
3241 5866 3.063704 CCGGCCAGCTGCATTTCA 61.064 61.111 8.66 0.00 43.89 2.69
3243 5868 1.514087 CGGCCAGCTGCATTTCATT 59.486 52.632 8.66 0.00 43.89 2.57
3245 5870 0.461339 GGCCAGCTGCATTTCATTGG 60.461 55.000 8.66 0.00 43.89 3.16
3295 5929 2.294791 TGTTCCAAATTTGTACTGCCCG 59.705 45.455 16.73 0.00 0.00 6.13
3296 5930 1.540267 TCCAAATTTGTACTGCCCGG 58.460 50.000 16.73 0.00 0.00 5.73
3297 5931 1.202952 TCCAAATTTGTACTGCCCGGT 60.203 47.619 16.73 0.00 0.00 5.28
3302 5937 0.881159 TTTGTACTGCCCGGTTGTCG 60.881 55.000 0.00 0.00 38.88 4.35
3358 5997 3.704100 ACAAATGGTTTTGGCAGGC 57.296 47.368 3.76 0.00 45.34 4.85
3366 6005 0.517316 GTTTTGGCAGGCTGTACTCG 59.483 55.000 17.16 0.00 0.00 4.18
3369 6008 2.510238 GGCAGGCTGTACTCGCAG 60.510 66.667 17.16 0.00 39.37 5.18
3377 6016 1.006220 TGTACTCGCAGTGCACCTG 60.006 57.895 16.83 12.26 44.53 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 1.276622 TTCTCCTCCCTTGCACTACC 58.723 55.000 0.00 0.00 0.00 3.18
46 47 0.673985 GCACACCAACCTCCCTTTTC 59.326 55.000 0.00 0.00 0.00 2.29
98 99 4.038080 CGTCCCGGCCAAACTTGC 62.038 66.667 2.24 0.00 0.00 4.01
122 123 0.605319 TTAGGCTCCAAGCAACCGTG 60.605 55.000 0.00 0.00 44.75 4.94
125 131 1.315981 GCCTTAGGCTCCAAGCAACC 61.316 60.000 17.16 0.00 46.69 3.77
171 177 0.247460 GAAATGGAAGGTGGCTTGGC 59.753 55.000 0.00 0.00 0.00 4.52
182 188 1.981853 GGCTTGGCCGGAAATGGAA 60.982 57.895 5.05 0.00 39.62 3.53
183 189 2.362375 GGCTTGGCCGGAAATGGA 60.362 61.111 5.05 0.00 39.62 3.41
222 249 2.335011 CTCTGTCCGTGTCGTGCA 59.665 61.111 0.00 0.00 0.00 4.57
226 253 0.937699 TTTTCGCTCTGTCCGTGTCG 60.938 55.000 0.00 0.00 0.00 4.35
233 260 1.192534 CTGTCCGTTTTTCGCTCTGTC 59.807 52.381 0.00 0.00 38.35 3.51
236 263 2.234300 TTCTGTCCGTTTTTCGCTCT 57.766 45.000 0.00 0.00 38.35 4.09
239 266 3.328237 TCTTTTCTGTCCGTTTTTCGC 57.672 42.857 0.00 0.00 38.35 4.70
241 268 6.033513 CACAGTTTCTTTTCTGTCCGTTTTTC 59.966 38.462 0.00 0.00 42.05 2.29
313 2731 2.359975 CCCTTTCCCGTGACCAGC 60.360 66.667 0.00 0.00 0.00 4.85
314 2732 2.359975 GCCCTTTCCCGTGACCAG 60.360 66.667 0.00 0.00 0.00 4.00
321 2739 1.039233 ATTCTGCATGCCCTTTCCCG 61.039 55.000 16.68 0.00 0.00 5.14
329 2747 3.908081 CCCGCCATTCTGCATGCC 61.908 66.667 16.68 0.00 0.00 4.40
414 2832 2.597217 CCTTCCCGGCAAGCAACA 60.597 61.111 0.00 0.00 0.00 3.33
415 2833 3.373565 CCCTTCCCGGCAAGCAAC 61.374 66.667 0.00 0.00 0.00 4.17
416 2834 3.575247 TCCCTTCCCGGCAAGCAA 61.575 61.111 0.00 0.00 0.00 3.91
417 2835 4.344865 GTCCCTTCCCGGCAAGCA 62.345 66.667 0.00 0.00 0.00 3.91
462 2880 1.302591 TAAAACATCCGGCGGTGCA 60.303 52.632 27.32 7.13 0.00 4.57
493 2911 2.304761 TGTGGGTGGATTCTGGAGTAAC 59.695 50.000 0.00 0.00 0.00 2.50
559 2979 4.327357 CAGCGGAATATTTATACTGGAGCG 59.673 45.833 0.00 0.00 0.00 5.03
638 3060 2.111756 GAAAGAAAACACACAGCGCAG 58.888 47.619 11.47 3.33 0.00 5.18
639 3061 1.202245 GGAAAGAAAACACACAGCGCA 60.202 47.619 11.47 0.00 0.00 6.09
640 3062 1.477105 GGAAAGAAAACACACAGCGC 58.523 50.000 0.00 0.00 0.00 5.92
641 3063 1.269051 GGGGAAAGAAAACACACAGCG 60.269 52.381 0.00 0.00 0.00 5.18
642 3064 1.754226 TGGGGAAAGAAAACACACAGC 59.246 47.619 0.00 0.00 0.00 4.40
643 3065 2.100749 GGTGGGGAAAGAAAACACACAG 59.899 50.000 0.00 0.00 33.91 3.66
644 3066 2.104170 GGTGGGGAAAGAAAACACACA 58.896 47.619 0.00 0.00 33.91 3.72
645 3067 2.361119 GAGGTGGGGAAAGAAAACACAC 59.639 50.000 0.00 0.00 33.91 3.82
714 3136 3.939740 TGGGGAATGAAGAAGGATGAG 57.060 47.619 0.00 0.00 0.00 2.90
715 3137 4.886755 ATTGGGGAATGAAGAAGGATGA 57.113 40.909 0.00 0.00 0.00 2.92
717 3139 5.206587 CTCAATTGGGGAATGAAGAAGGAT 58.793 41.667 5.42 0.00 0.00 3.24
722 3152 3.263170 TCGACTCAATTGGGGAATGAAGA 59.737 43.478 10.75 0.00 0.00 2.87
772 3206 0.741915 GACCAGGAGACACGATCCTC 59.258 60.000 0.00 0.00 44.05 3.71
774 3208 1.134965 CAAGACCAGGAGACACGATCC 60.135 57.143 0.00 0.00 37.07 3.36
816 3255 1.211190 GCGGCAAGAGCAAGAAAGG 59.789 57.895 0.00 0.00 44.61 3.11
867 3321 0.098025 GACGGAAGCTCTGAGTCTCG 59.902 60.000 6.53 8.11 0.00 4.04
875 3329 0.040499 AGGAAGGAGACGGAAGCTCT 59.960 55.000 0.00 0.00 35.52 4.09
898 3352 3.485463 ACAACCAAGAACAATCCGAGA 57.515 42.857 0.00 0.00 0.00 4.04
901 3355 2.393764 GCAACAACCAAGAACAATCCG 58.606 47.619 0.00 0.00 0.00 4.18
949 3403 3.093278 CGCAGAGAATCAACCGGC 58.907 61.111 0.00 0.00 37.82 6.13
950 3404 2.802667 CGCGCAGAGAATCAACCGG 61.803 63.158 8.75 0.00 37.82 5.28
967 3421 3.613952 TATATACGCCGCCCGCACG 62.614 63.158 0.00 0.00 41.76 5.34
979 3438 9.283420 CATCATCTTCTCATGACACGTATATAC 57.717 37.037 2.53 2.53 35.57 1.47
1268 3736 6.578023 TCAAAAACCGAGAAACCAAATTGAT 58.422 32.000 0.00 0.00 0.00 2.57
1269 3737 5.967088 TCAAAAACCGAGAAACCAAATTGA 58.033 33.333 0.00 0.00 0.00 2.57
1270 3738 6.843069 ATCAAAAACCGAGAAACCAAATTG 57.157 33.333 0.00 0.00 0.00 2.32
1272 3740 7.011016 GTCAAATCAAAAACCGAGAAACCAAAT 59.989 33.333 0.00 0.00 0.00 2.32
1346 3839 3.889134 CTTCAGCTCGCCTGCACCA 62.889 63.158 0.00 0.00 41.50 4.17
1613 4106 3.241067 TCCAGTGGTGATTAAGTACGC 57.759 47.619 9.54 0.00 0.00 4.42
1615 4108 5.186198 AGCAATCCAGTGGTGATTAAGTAC 58.814 41.667 9.54 0.00 31.42 2.73
1663 4175 1.573108 ATTCGATCAGACACCCACCT 58.427 50.000 0.00 0.00 0.00 4.00
1697 4209 4.687215 GCCGACACCTGCAGAGCA 62.687 66.667 17.39 0.00 36.92 4.26
1863 4375 1.082117 ACTTAATTCGGCCGAGCGTG 61.082 55.000 29.20 19.60 0.00 5.34
1891 4403 1.808411 ATGTGCTCGTCAACGGAATT 58.192 45.000 2.31 0.00 40.29 2.17
1914 4426 2.268280 CTCAGCTCCTGTGGGCAG 59.732 66.667 0.00 0.00 42.22 4.85
1935 4454 1.148759 GAGCCGAAGCGGATTCAGTC 61.149 60.000 10.44 0.00 45.97 3.51
2442 4973 0.665835 AGAGCGATCGACTGATGGAC 59.334 55.000 21.57 2.77 34.09 4.02
2450 4981 1.943693 GCAGAGCAGAGCGATCGAC 60.944 63.158 21.57 11.92 0.00 4.20
2455 4986 2.057654 GATCGAGCAGAGCAGAGCGA 62.058 60.000 0.00 0.00 34.89 4.93
2457 4988 1.300080 GGATCGAGCAGAGCAGAGC 60.300 63.158 1.84 0.00 36.90 4.09
2490 5036 1.212751 GGAGCAAACAATCGGCACC 59.787 57.895 0.00 0.00 0.00 5.01
2509 5055 6.206048 GGAAAAGGAAAGAATAAACAGACGGA 59.794 38.462 0.00 0.00 0.00 4.69
2510 5056 6.206829 AGGAAAAGGAAAGAATAAACAGACGG 59.793 38.462 0.00 0.00 0.00 4.79
2671 5231 0.953960 ATTTTCTGCACGGACGGGAC 60.954 55.000 0.00 0.00 0.00 4.46
2672 5232 0.609151 TATTTTCTGCACGGACGGGA 59.391 50.000 0.00 0.00 0.00 5.14
2673 5233 1.396996 CTTATTTTCTGCACGGACGGG 59.603 52.381 0.00 0.00 0.00 5.28
2674 5234 1.202031 GCTTATTTTCTGCACGGACGG 60.202 52.381 0.00 0.00 0.00 4.79
2675 5235 1.526986 CGCTTATTTTCTGCACGGACG 60.527 52.381 0.00 0.00 0.00 4.79
2676 5236 1.790481 GCGCTTATTTTCTGCACGGAC 60.790 52.381 0.00 0.00 0.00 4.79
2677 5237 0.446222 GCGCTTATTTTCTGCACGGA 59.554 50.000 0.00 0.00 0.00 4.69
2678 5238 0.523335 GGCGCTTATTTTCTGCACGG 60.523 55.000 7.64 0.00 0.00 4.94
2679 5239 0.857311 CGGCGCTTATTTTCTGCACG 60.857 55.000 7.64 0.00 0.00 5.34
2848 5439 2.108976 CACCCCGATCATCACCCG 59.891 66.667 0.00 0.00 0.00 5.28
2856 5447 1.065418 ACCAAATCTCACACCCCGATC 60.065 52.381 0.00 0.00 0.00 3.69
2878 5469 1.202222 CGCATTTGGATTCCAGAGCAC 60.202 52.381 19.47 5.37 33.81 4.40
2879 5470 1.097232 CGCATTTGGATTCCAGAGCA 58.903 50.000 19.47 0.00 33.81 4.26
2880 5471 0.248784 GCGCATTTGGATTCCAGAGC 60.249 55.000 0.30 10.17 33.81 4.09
2888 5479 3.136620 ATCCATGGCGCATTTGGAT 57.863 47.368 24.20 24.20 43.74 3.41
2898 5489 4.411256 ACCAATCAATCAAATCCATGGC 57.589 40.909 6.96 0.00 0.00 4.40
2908 5499 1.851304 GAGCCCCAACCAATCAATCA 58.149 50.000 0.00 0.00 0.00 2.57
2927 5526 2.633657 GACACAACCACAGCAGCG 59.366 61.111 0.00 0.00 0.00 5.18
2930 5529 1.078778 ACACGACACAACCACAGCA 60.079 52.632 0.00 0.00 0.00 4.41
2937 5536 3.645975 CGCCCCACACGACACAAC 61.646 66.667 0.00 0.00 0.00 3.32
3027 5651 1.136329 ACTGTCAATGGACCCAGCCT 61.136 55.000 0.00 0.00 43.65 4.58
3085 5709 1.201647 CACACCCACAGAGTAGTACCG 59.798 57.143 0.00 0.00 0.00 4.02
3087 5711 1.067071 GCCACACCCACAGAGTAGTAC 60.067 57.143 0.00 0.00 0.00 2.73
3109 5734 2.279741 TCATGCGCTTCTCACCAATAC 58.720 47.619 9.73 0.00 0.00 1.89
3117 5742 1.590932 ACCATCATCATGCGCTTCTC 58.409 50.000 9.73 0.00 0.00 2.87
3225 5850 0.804544 CAATGAAATGCAGCTGGCCG 60.805 55.000 17.12 0.00 43.89 6.13
3240 5865 0.462047 GCTGTAGGTCGGACCCAATG 60.462 60.000 23.21 12.50 39.75 2.82
3241 5866 0.617820 AGCTGTAGGTCGGACCCAAT 60.618 55.000 23.21 8.07 39.75 3.16
3243 5868 1.982395 CAGCTGTAGGTCGGACCCA 60.982 63.158 23.21 13.92 39.75 4.51
3245 5870 2.184579 GCAGCTGTAGGTCGGACC 59.815 66.667 19.61 19.61 38.99 4.46
3302 5937 1.153168 TAATCAAGCGAGCTGGGCC 60.153 57.895 0.00 0.00 0.00 5.80
3330 5965 0.179004 AACCATTTGTCCTCGTGGCA 60.179 50.000 0.00 0.00 35.11 4.92
3358 5997 1.010935 CAGGTGCACTGCGAGTACAG 61.011 60.000 17.98 0.00 40.97 2.74


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

AutoCloner maintained by Alex Coulton.