Multiple sequence alignment - TraesCS5B01G498400

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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 TraesCS5B01G498400 chr5B 100.000 3835 0 0 1 3835 665027497 665023663 0.000000e+00 7083.0
1 TraesCS5B01G498400 chr5B 89.284 1717 157 20 1061 2772 665173211 665171517 0.000000e+00 2126.0
2 TraesCS5B01G498400 chr5B 88.741 1723 170 17 1061 2772 665539740 665541449 0.000000e+00 2085.0
3 TraesCS5B01G498400 chr5A 89.948 3263 173 77 1 3166 656223678 656220474 0.000000e+00 4065.0
4 TraesCS5B01G498400 chr5A 89.988 1728 148 13 1061 2772 656671078 656672796 0.000000e+00 2209.0
5 TraesCS5B01G498400 chr5A 89.983 1717 154 11 1061 2772 656494222 656495925 0.000000e+00 2202.0
6 TraesCS5B01G498400 chr5A 92.670 191 12 1 3625 3813 656218936 656218746 1.360000e-69 274.0
7 TraesCS5B01G498400 chr5D 95.261 2258 71 14 775 3008 528296709 528294464 0.000000e+00 3544.0
8 TraesCS5B01G498400 chr5D 90.035 1716 153 16 1061 2772 528587207 528588908 0.000000e+00 2206.0
9 TraesCS5B01G498400 chr5D 89.159 1725 161 18 1061 2772 528415237 528416948 0.000000e+00 2126.0
10 TraesCS5B01G498400 chr5D 90.251 359 32 3 3186 3542 528294034 528293677 2.090000e-127 466.0
11 TraesCS5B01G498400 chr5D 90.775 271 20 4 3569 3835 528293391 528293122 1.310000e-94 357.0
12 TraesCS5B01G498400 chr5D 89.837 246 15 8 1 239 528300326 528300084 1.340000e-79 307.0
13 TraesCS5B01G498400 chr5D 93.023 129 7 1 601 727 528296835 528296707 1.820000e-43 187.0
14 TraesCS5B01G498400 chr2B 91.371 197 16 1 2054 2250 118043648 118043453 6.320000e-68 268.0
15 TraesCS5B01G498400 chr3B 88.235 68 8 0 2421 2488 537434395 537434328 8.830000e-12 82.4
16 TraesCS5B01G498400 chr3A 81.373 102 17 2 1385 1485 32426561 32426661 8.830000e-12 82.4
17 TraesCS5B01G498400 chr3D 87.500 48 6 0 3186 3233 501075839 501075792 5.350000e-04 56.5


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 TraesCS5B01G498400 chr5B 665023663 665027497 3834 True 7083.0 7083 100.0000 1 3835 1 chr5B.!!$R1 3834
1 TraesCS5B01G498400 chr5B 665171517 665173211 1694 True 2126.0 2126 89.2840 1061 2772 1 chr5B.!!$R2 1711
2 TraesCS5B01G498400 chr5B 665539740 665541449 1709 False 2085.0 2085 88.7410 1061 2772 1 chr5B.!!$F1 1711
3 TraesCS5B01G498400 chr5A 656671078 656672796 1718 False 2209.0 2209 89.9880 1061 2772 1 chr5A.!!$F2 1711
4 TraesCS5B01G498400 chr5A 656494222 656495925 1703 False 2202.0 2202 89.9830 1061 2772 1 chr5A.!!$F1 1711
5 TraesCS5B01G498400 chr5A 656218746 656223678 4932 True 2169.5 4065 91.3090 1 3813 2 chr5A.!!$R1 3812
6 TraesCS5B01G498400 chr5D 528587207 528588908 1701 False 2206.0 2206 90.0350 1061 2772 1 chr5D.!!$F2 1711
7 TraesCS5B01G498400 chr5D 528415237 528416948 1711 False 2126.0 2126 89.1590 1061 2772 1 chr5D.!!$F1 1711
8 TraesCS5B01G498400 chr5D 528293122 528300326 7204 True 972.2 3544 91.8294 1 3835 5 chr5D.!!$R1 3834

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
436 494 0.395724 TCGCCAGGTGCATAGAGAGA 60.396 55.0 0.00 0.0 41.33 3.10 F
1161 4138 0.248012 TCATCCGTAAGCGCCTCAAA 59.752 50.0 2.29 0.0 36.67 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2084 5088 0.606401 CCATCGACACCACCAGCTTT 60.606 55.0 0.00 0.0 0.0 3.51 R
3142 6215 0.460109 TGGCTCGATCCACATTCACG 60.460 55.0 3.28 0.0 0.0 4.35 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
38 39 9.557338 GATCAGAGTGAATGTATATACGTTACC 57.443 37.037 18.22 12.29 35.69 2.85
66 69 2.686558 TCCGGAATACATACGTACGC 57.313 50.000 16.72 0.00 0.00 4.42
67 70 2.221169 TCCGGAATACATACGTACGCT 58.779 47.619 16.72 5.36 0.00 5.07
68 71 2.224079 TCCGGAATACATACGTACGCTC 59.776 50.000 16.72 0.78 0.00 5.03
74 77 1.307097 ACATACGTACGCTCCTCCTC 58.693 55.000 16.72 0.00 0.00 3.71
116 123 1.784856 CAACACTGACGGACGTTACTG 59.215 52.381 0.00 0.00 0.00 2.74
193 215 1.602605 TCAGCTGTCTCGGACGGAA 60.603 57.895 14.67 0.00 41.05 4.30
222 244 3.110178 GTACACACACCGCCTCGC 61.110 66.667 0.00 0.00 0.00 5.03
234 256 0.938168 CGCCTCGCCTCGTAAATACC 60.938 60.000 0.00 0.00 0.00 2.73
235 257 0.599466 GCCTCGCCTCGTAAATACCC 60.599 60.000 0.00 0.00 0.00 3.69
270 292 1.079503 CACCTTCTAGAAAGCGCACC 58.920 55.000 11.47 0.00 0.00 5.01
285 307 3.917985 AGCGCACCGTCAAAATTAATTTC 59.082 39.130 11.47 1.46 0.00 2.17
319 341 4.816385 TGCCGTCAGATTTATCCAGATTTC 59.184 41.667 0.00 0.00 0.00 2.17
421 473 4.556233 TGCTAGTGTATCAATGTATCGCC 58.444 43.478 0.00 0.00 0.00 5.54
436 494 0.395724 TCGCCAGGTGCATAGAGAGA 60.396 55.000 0.00 0.00 41.33 3.10
470 2572 2.832643 ATGAGATGGGTTTGCCATCA 57.167 45.000 4.10 0.00 44.43 3.07
571 2673 2.558378 GGCCGGACCATTTACTTACTC 58.442 52.381 5.05 0.00 38.86 2.59
583 2685 8.554011 ACCATTTACTTACTCCCTAATTTGCTA 58.446 33.333 0.00 0.00 0.00 3.49
594 2697 6.278363 TCCCTAATTTGCTACGATTACACTC 58.722 40.000 0.00 0.00 0.00 3.51
642 3588 2.153645 TCTGCAAATAGGCACACACAG 58.846 47.619 0.00 0.00 39.25 3.66
643 3589 1.200716 CTGCAAATAGGCACACACAGG 59.799 52.381 0.00 0.00 39.25 4.00
737 3690 3.804193 GCAAGCCCTCCTTTCGCG 61.804 66.667 0.00 0.00 0.00 5.87
773 3726 1.789751 CGCACACAGGCACATACAG 59.210 57.895 0.00 0.00 0.00 2.74
1154 4131 2.221749 CCATGTTCATCATCCGTAAGCG 59.778 50.000 0.00 0.00 34.09 4.68
1159 4136 0.249447 CATCATCCGTAAGCGCCTCA 60.249 55.000 2.29 0.00 36.67 3.86
1160 4137 0.464036 ATCATCCGTAAGCGCCTCAA 59.536 50.000 2.29 0.00 36.67 3.02
1161 4138 0.248012 TCATCCGTAAGCGCCTCAAA 59.752 50.000 2.29 0.00 36.67 2.69
1166 4158 0.716108 CGTAAGCGCCTCAAACTCTG 59.284 55.000 2.29 0.00 0.00 3.35
1167 4159 0.444260 GTAAGCGCCTCAAACTCTGC 59.556 55.000 2.29 0.00 0.00 4.26
1184 4178 0.753479 TGCCTCAGATCTCTCCGTCC 60.753 60.000 0.00 0.00 0.00 4.79
1204 4200 2.164624 CCCTGTTCGTTTTGTTGGTTGA 59.835 45.455 0.00 0.00 0.00 3.18
1206 4202 3.796178 CCTGTTCGTTTTGTTGGTTGATG 59.204 43.478 0.00 0.00 0.00 3.07
1210 4214 2.032302 TCGTTTTGTTGGTTGATGTCGG 59.968 45.455 0.00 0.00 0.00 4.79
1226 4230 0.311790 TCGGCGTGTAAACGTTCTCT 59.688 50.000 6.85 0.00 35.26 3.10
1228 4232 1.136721 CGGCGTGTAAACGTTCTCTTG 60.137 52.381 7.39 0.00 35.26 3.02
1233 4237 3.552699 CGTGTAAACGTTCTCTTGGTTGA 59.447 43.478 0.00 0.00 0.00 3.18
1234 4238 4.033129 CGTGTAAACGTTCTCTTGGTTGAA 59.967 41.667 0.00 0.00 0.00 2.69
1236 4240 6.134061 GTGTAAACGTTCTCTTGGTTGAATC 58.866 40.000 0.00 0.00 0.00 2.52
1240 4244 4.703897 ACGTTCTCTTGGTTGAATCTTGA 58.296 39.130 0.00 0.00 0.00 3.02
1245 4249 3.754965 TCTTGGTTGAATCTTGAGGTGG 58.245 45.455 0.00 0.00 0.00 4.61
1246 4250 2.584835 TGGTTGAATCTTGAGGTGGG 57.415 50.000 0.00 0.00 0.00 4.61
1643 4647 1.893335 TGACCAGTTCGACGACGGA 60.893 57.895 7.55 0.00 40.21 4.69
1878 4882 3.109547 CGCTCACGCCGTTGCTAA 61.110 61.111 9.71 0.00 34.43 3.09
2022 5026 3.254024 AAGGCGGCAATCGTGGAGT 62.254 57.895 13.08 0.00 41.72 3.85
2084 5088 2.203640 ACGCAGGTGGAGGAGACA 60.204 61.111 0.00 0.00 0.00 3.41
2531 5535 2.363276 TACGACCAGGTGCCGGAT 60.363 61.111 5.05 0.00 0.00 4.18
3005 6034 3.056107 GGTGTAGCATGTTGTGGAGTCTA 60.056 47.826 0.00 0.00 0.00 2.59
3008 6037 1.905215 AGCATGTTGTGGAGTCTAGCT 59.095 47.619 0.00 0.00 0.00 3.32
3009 6038 2.304180 AGCATGTTGTGGAGTCTAGCTT 59.696 45.455 0.00 0.00 0.00 3.74
3011 6040 3.618507 GCATGTTGTGGAGTCTAGCTTCT 60.619 47.826 0.00 0.00 0.00 2.85
3013 6042 4.785511 TGTTGTGGAGTCTAGCTTCTAC 57.214 45.455 0.00 0.00 0.00 2.59
3014 6043 4.408276 TGTTGTGGAGTCTAGCTTCTACT 58.592 43.478 0.00 0.00 0.00 2.57
3015 6044 4.218635 TGTTGTGGAGTCTAGCTTCTACTG 59.781 45.833 0.00 0.00 0.00 2.74
3065 6111 6.892658 TCTTTTCTTTTTGGGATTCGATCA 57.107 33.333 0.00 0.00 0.00 2.92
3066 6112 6.677913 TCTTTTCTTTTTGGGATTCGATCAC 58.322 36.000 0.00 0.00 0.00 3.06
3067 6113 6.490040 TCTTTTCTTTTTGGGATTCGATCACT 59.510 34.615 0.00 0.00 32.63 3.41
3068 6114 5.627499 TTCTTTTTGGGATTCGATCACTG 57.373 39.130 0.00 0.00 32.63 3.66
3075 6121 3.899980 TGGGATTCGATCACTGATCATCT 59.100 43.478 17.43 2.65 38.84 2.90
3076 6122 4.244066 GGGATTCGATCACTGATCATCTG 58.756 47.826 17.43 3.23 38.84 2.90
3077 6123 4.262377 GGGATTCGATCACTGATCATCTGT 60.262 45.833 17.43 0.00 38.84 3.41
3078 6124 5.047731 GGGATTCGATCACTGATCATCTGTA 60.048 44.000 17.43 0.00 38.84 2.74
3079 6125 6.092092 GGATTCGATCACTGATCATCTGTAG 58.908 44.000 17.43 1.66 38.84 2.74
3080 6126 5.444663 TTCGATCACTGATCATCTGTAGG 57.555 43.478 17.43 1.03 38.84 3.18
3081 6127 4.464947 TCGATCACTGATCATCTGTAGGT 58.535 43.478 17.43 0.00 38.84 3.08
3082 6128 4.889995 TCGATCACTGATCATCTGTAGGTT 59.110 41.667 17.43 0.00 38.84 3.50
3083 6129 5.009110 TCGATCACTGATCATCTGTAGGTTC 59.991 44.000 17.43 0.00 38.84 3.62
3084 6130 5.009510 CGATCACTGATCATCTGTAGGTTCT 59.990 44.000 17.43 0.00 38.84 3.01
3085 6131 5.843673 TCACTGATCATCTGTAGGTTCTC 57.156 43.478 0.00 0.00 0.00 2.87
3090 6136 5.272402 TGATCATCTGTAGGTTCTCTCCAA 58.728 41.667 0.00 0.00 0.00 3.53
3114 6187 4.084118 GCGTAGAATGATTCTCATGGCTTC 60.084 45.833 11.53 0.00 41.14 3.86
3142 6215 0.817654 GCACAAGAGCATAAACCCCC 59.182 55.000 0.00 0.00 0.00 5.40
3155 6228 0.034477 AACCCCCGTGAATGTGGATC 60.034 55.000 0.00 0.00 0.00 3.36
3166 6239 3.134623 TGAATGTGGATCGAGCCATACTT 59.865 43.478 27.42 18.58 40.68 2.24
3167 6240 3.845781 ATGTGGATCGAGCCATACTTT 57.154 42.857 27.42 5.33 40.68 2.66
3168 6241 2.905075 TGTGGATCGAGCCATACTTTG 58.095 47.619 27.42 0.00 40.68 2.77
3169 6242 2.499693 TGTGGATCGAGCCATACTTTGA 59.500 45.455 27.42 0.00 40.68 2.69
3181 7326 6.223120 AGCCATACTTTGAAAAATGTTCACC 58.777 36.000 0.00 0.00 0.00 4.02
3183 7328 6.212955 CCATACTTTGAAAAATGTTCACCGT 58.787 36.000 0.00 0.00 0.00 4.83
3184 7329 6.362283 CCATACTTTGAAAAATGTTCACCGTC 59.638 38.462 0.00 0.00 0.00 4.79
3226 7371 9.528847 CATCATATATTACGAAAATGTTCACCG 57.471 33.333 0.00 0.00 32.89 4.94
3288 7433 9.487790 AATTCACCAGGTATTACAAAAATGTTG 57.512 29.630 0.00 0.00 0.00 3.33
3361 7507 9.169468 GCATATTAAAGAAATGTTCACCGTATG 57.831 33.333 0.00 0.00 0.00 2.39
3521 7668 9.155053 GTTCAGTGTATACTTTGAAAAAGTTCG 57.845 33.333 18.08 0.00 33.79 3.95
3601 8008 2.015736 AATGGCTCACTACAGCGAAG 57.984 50.000 0.00 0.00 40.68 3.79
3627 8034 4.201990 GCTGCTACAGTACGTTACCACTAT 60.202 45.833 0.00 0.00 33.43 2.12
3819 8228 0.108138 CTCAAGGACATCCGGGACAC 60.108 60.000 0.00 0.00 42.08 3.67
3820 8229 0.834261 TCAAGGACATCCGGGACACA 60.834 55.000 0.00 0.00 42.08 3.72
3823 8232 0.324943 AGGACATCCGGGACACAAAG 59.675 55.000 0.00 0.00 42.08 2.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 5.176223 ACGTATGTATTCCGGAAAAATAGCG 59.824 40.000 23.08 21.95 0.00 4.26
66 69 1.001503 ACAGCAGGAGGAGGAGGAG 59.998 63.158 0.00 0.00 0.00 3.69
67 70 1.000993 GACAGCAGGAGGAGGAGGA 59.999 63.158 0.00 0.00 0.00 3.71
68 71 1.305633 TGACAGCAGGAGGAGGAGG 60.306 63.158 0.00 0.00 0.00 4.30
74 77 0.607217 TTGCATGTGACAGCAGGAGG 60.607 55.000 9.07 0.00 42.39 4.30
156 163 1.003355 CCCTGCATCAGTCGTTGGT 60.003 57.895 0.00 0.00 0.00 3.67
193 215 0.030369 GTGTGTACGCTAGCGGCTAT 59.970 55.000 37.66 21.24 44.69 2.97
222 244 2.102588 CTGGGACTGGGTATTTACGAGG 59.897 54.545 0.00 0.00 0.00 4.63
234 256 0.957395 GTGTGATGCACTGGGACTGG 60.957 60.000 0.00 0.00 44.41 4.00
235 257 0.957395 GGTGTGATGCACTGGGACTG 60.957 60.000 0.00 0.00 46.86 3.51
259 281 0.951558 ATTTTGACGGTGCGCTTTCT 59.048 45.000 9.73 0.00 0.00 2.52
285 307 6.377327 AAATCTGACGGCATTAATGTTAGG 57.623 37.500 16.61 6.50 0.00 2.69
319 341 2.675844 TGAAATCCCACGCTGATAAACG 59.324 45.455 0.00 0.00 0.00 3.60
404 456 3.494626 CACCTGGCGATACATTGATACAC 59.505 47.826 0.00 0.00 0.00 2.90
405 457 3.727726 CACCTGGCGATACATTGATACA 58.272 45.455 0.00 0.00 0.00 2.29
421 473 2.877168 GCCAAATCTCTCTATGCACCTG 59.123 50.000 0.00 0.00 0.00 4.00
436 494 4.283467 CCATCTCATTCATCATGGCCAAAT 59.717 41.667 10.96 3.31 33.07 2.32
470 2572 3.836949 CAGTTACAAGGCGAAAATGCAT 58.163 40.909 0.00 0.00 36.28 3.96
558 2660 7.881775 AGCAAATTAGGGAGTAAGTAAATGG 57.118 36.000 0.00 0.00 0.00 3.16
571 2673 6.018994 GTGAGTGTAATCGTAGCAAATTAGGG 60.019 42.308 0.00 0.00 0.00 3.53
583 2685 3.756963 TGACAGCTAGTGAGTGTAATCGT 59.243 43.478 0.00 0.00 0.00 3.73
594 2697 2.160822 ACTTGCACTGACAGCTAGTG 57.839 50.000 10.26 10.26 44.23 2.74
653 3601 5.316987 TGGAGGAGGATTGTTCTTTCTTTC 58.683 41.667 0.00 0.00 0.00 2.62
657 3605 3.013219 GCTGGAGGAGGATTGTTCTTTC 58.987 50.000 0.00 0.00 0.00 2.62
661 3609 0.462759 CGGCTGGAGGAGGATTGTTC 60.463 60.000 0.00 0.00 0.00 3.18
704 3652 3.279853 CTTGCTCCTCAAGTTCTTTGC 57.720 47.619 0.00 0.00 45.48 3.68
764 3717 0.727398 GACGAAAGGCCTGTATGTGC 59.273 55.000 5.69 0.00 0.00 4.57
1059 4036 2.408241 GGAGGAGTCGTCGACCCAG 61.408 68.421 25.25 0.00 32.18 4.45
1154 4131 0.322975 TCTGAGGCAGAGTTTGAGGC 59.677 55.000 0.00 0.00 35.39 4.70
1159 4136 2.765699 GGAGAGATCTGAGGCAGAGTTT 59.234 50.000 0.00 0.00 44.08 2.66
1160 4137 2.387757 GGAGAGATCTGAGGCAGAGTT 58.612 52.381 0.00 0.00 44.08 3.01
1161 4138 1.750332 CGGAGAGATCTGAGGCAGAGT 60.750 57.143 0.00 0.00 44.08 3.24
1166 4158 1.460273 GGGACGGAGAGATCTGAGGC 61.460 65.000 0.00 0.00 0.00 4.70
1167 4159 0.184933 AGGGACGGAGAGATCTGAGG 59.815 60.000 0.00 0.00 0.00 3.86
1184 4178 3.495670 TCAACCAACAAAACGAACAGG 57.504 42.857 0.00 0.00 0.00 4.00
1226 4230 2.176798 ACCCACCTCAAGATTCAACCAA 59.823 45.455 0.00 0.00 0.00 3.67
1228 4232 2.162681 CACCCACCTCAAGATTCAACC 58.837 52.381 0.00 0.00 0.00 3.77
1233 4237 0.773644 ACTGCACCCACCTCAAGATT 59.226 50.000 0.00 0.00 0.00 2.40
1234 4238 0.037303 CACTGCACCCACCTCAAGAT 59.963 55.000 0.00 0.00 0.00 2.40
1236 4240 0.037303 ATCACTGCACCCACCTCAAG 59.963 55.000 0.00 0.00 0.00 3.02
1240 4244 1.892819 CTCGATCACTGCACCCACCT 61.893 60.000 0.00 0.00 0.00 4.00
1245 4249 1.354040 CTGAACTCGATCACTGCACC 58.646 55.000 0.00 0.00 0.00 5.01
1246 4250 0.718343 GCTGAACTCGATCACTGCAC 59.282 55.000 0.00 0.00 0.00 4.57
1274 4278 2.240500 GGCGATGCCGAAGTAGCTG 61.241 63.158 0.00 0.00 39.62 4.24
1334 4338 3.133767 CTCGGCGGCGACCTTCATA 62.134 63.158 31.46 7.54 0.00 2.15
1613 4617 1.597027 CTGGTCACCGCCGAAACTT 60.597 57.895 0.00 0.00 0.00 2.66
1616 4620 1.595929 GAACTGGTCACCGCCGAAA 60.596 57.895 0.00 0.00 0.00 3.46
1929 4933 4.498520 CTCGTGCAGGTCGCCGAT 62.499 66.667 6.26 0.00 40.77 4.18
2022 5026 3.625897 CCGCCCCTCGCCATCATA 61.626 66.667 0.00 0.00 36.73 2.15
2084 5088 0.606401 CCATCGACACCACCAGCTTT 60.606 55.000 0.00 0.00 0.00 3.51
2307 5311 4.148825 GCGCTCCGTCCCAGTCAT 62.149 66.667 0.00 0.00 0.00 3.06
2614 5618 4.357947 GCGAGCTCACGTGGTCCA 62.358 66.667 17.00 0.00 35.59 4.02
2712 5716 2.432628 CAGGTTGACGGCGGAGAC 60.433 66.667 13.24 6.03 0.00 3.36
2880 5890 3.246226 GCTAGAACGAACGATGATGCAAT 59.754 43.478 0.14 0.00 0.00 3.56
3005 6034 5.322754 TCAACAGGTACTACAGTAGAAGCT 58.677 41.667 14.94 0.00 36.02 3.74
3008 6037 7.614192 TGATGATCAACAGGTACTACAGTAGAA 59.386 37.037 14.94 0.00 36.02 2.10
3009 6038 7.116736 TGATGATCAACAGGTACTACAGTAGA 58.883 38.462 14.94 0.00 36.02 2.59
3011 6040 7.780271 AGATGATGATCAACAGGTACTACAGTA 59.220 37.037 11.58 0.00 36.02 2.74
3013 6042 7.048629 AGATGATGATCAACAGGTACTACAG 57.951 40.000 11.58 0.00 36.02 2.74
3014 6043 7.423844 AAGATGATGATCAACAGGTACTACA 57.576 36.000 11.58 0.00 36.02 2.74
3015 6044 8.723942 AAAAGATGATGATCAACAGGTACTAC 57.276 34.615 11.58 0.00 36.02 2.73
3043 6089 6.583806 CAGTGATCGAATCCCAAAAAGAAAAG 59.416 38.462 0.00 0.00 0.00 2.27
3045 6091 5.767665 TCAGTGATCGAATCCCAAAAAGAAA 59.232 36.000 0.00 0.00 0.00 2.52
3048 6094 5.355071 TGATCAGTGATCGAATCCCAAAAAG 59.645 40.000 24.52 0.00 41.51 2.27
3055 6101 4.880759 ACAGATGATCAGTGATCGAATCC 58.119 43.478 24.52 13.06 41.51 3.01
3057 6103 5.538053 ACCTACAGATGATCAGTGATCGAAT 59.462 40.000 24.52 15.34 41.51 3.34
3058 6104 4.889995 ACCTACAGATGATCAGTGATCGAA 59.110 41.667 24.52 11.43 41.51 3.71
3059 6105 4.464947 ACCTACAGATGATCAGTGATCGA 58.535 43.478 24.52 15.62 41.51 3.59
3061 6107 6.265196 AGAGAACCTACAGATGATCAGTGATC 59.735 42.308 23.75 23.75 39.31 2.92
3062 6108 6.135454 AGAGAACCTACAGATGATCAGTGAT 58.865 40.000 4.98 4.98 0.00 3.06
3065 6111 4.892934 GGAGAGAACCTACAGATGATCAGT 59.107 45.833 0.09 0.00 0.00 3.41
3066 6112 4.892345 TGGAGAGAACCTACAGATGATCAG 59.108 45.833 0.09 0.00 30.56 2.90
3067 6113 4.871822 TGGAGAGAACCTACAGATGATCA 58.128 43.478 0.00 0.00 30.56 2.92
3068 6114 5.738783 GCTTGGAGAGAACCTACAGATGATC 60.739 48.000 0.00 0.00 36.98 2.92
3075 6121 1.629043 ACGCTTGGAGAGAACCTACA 58.371 50.000 0.00 0.00 32.74 2.74
3076 6122 3.015327 TCTACGCTTGGAGAGAACCTAC 58.985 50.000 0.00 0.00 0.00 3.18
3077 6123 3.361281 TCTACGCTTGGAGAGAACCTA 57.639 47.619 0.00 0.00 0.00 3.08
3078 6124 2.217510 TCTACGCTTGGAGAGAACCT 57.782 50.000 0.00 0.00 0.00 3.50
3079 6125 3.119101 TCATTCTACGCTTGGAGAGAACC 60.119 47.826 0.00 0.00 31.05 3.62
3080 6126 4.111375 TCATTCTACGCTTGGAGAGAAC 57.889 45.455 0.00 0.00 31.05 3.01
3081 6127 5.127845 AGAATCATTCTACGCTTGGAGAGAA 59.872 40.000 0.00 0.00 38.49 2.87
3082 6128 4.646945 AGAATCATTCTACGCTTGGAGAGA 59.353 41.667 0.00 0.00 38.49 3.10
3083 6129 4.942852 AGAATCATTCTACGCTTGGAGAG 58.057 43.478 0.00 0.00 38.49 3.20
3084 6130 4.402474 TGAGAATCATTCTACGCTTGGAGA 59.598 41.667 0.00 0.00 42.56 3.71
3085 6131 4.686972 TGAGAATCATTCTACGCTTGGAG 58.313 43.478 0.00 0.00 42.56 3.86
3114 6187 0.657312 TGCTCTTGTGCTCACGTTTG 59.343 50.000 0.00 0.00 0.00 2.93
3142 6215 0.460109 TGGCTCGATCCACATTCACG 60.460 55.000 3.28 0.00 0.00 4.35
3155 6228 6.088085 GTGAACATTTTTCAAAGTATGGCTCG 59.912 38.462 0.00 0.00 0.00 5.03
3166 6239 9.004717 TCATAATAGACGGTGAACATTTTTCAA 57.995 29.630 0.00 0.00 0.00 2.69
3167 6240 8.554835 TCATAATAGACGGTGAACATTTTTCA 57.445 30.769 0.00 0.00 0.00 2.69
3168 6241 9.834628 TTTCATAATAGACGGTGAACATTTTTC 57.165 29.630 0.00 0.00 30.96 2.29
3262 7407 9.487790 CAACATTTTTGTAATACCTGGTGAATT 57.512 29.630 10.23 4.80 0.00 2.17
3263 7408 8.865090 TCAACATTTTTGTAATACCTGGTGAAT 58.135 29.630 10.23 0.00 0.00 2.57
3343 7489 5.998981 TGGTAACATACGGTGAACATTTCTT 59.001 36.000 0.00 0.00 46.17 2.52
3494 7641 9.997482 GAACTTTTTCAAAGTATACACTGAACA 57.003 29.630 15.45 9.32 34.36 3.18
3495 7642 9.155053 CGAACTTTTTCAAAGTATACACTGAAC 57.845 33.333 15.45 6.23 34.36 3.18
3499 7646 6.261381 TGGCGAACTTTTTCAAAGTATACACT 59.739 34.615 5.50 0.00 36.19 3.55
3601 8008 1.918609 GTAACGTACTGTAGCAGCAGC 59.081 52.381 7.35 0.00 39.96 5.25
3602 8009 2.094906 TGGTAACGTACTGTAGCAGCAG 60.095 50.000 0.00 6.07 40.36 4.24
3603 8010 1.887854 TGGTAACGTACTGTAGCAGCA 59.112 47.619 0.00 0.00 42.51 4.41
3604 8011 2.094854 AGTGGTAACGTACTGTAGCAGC 60.095 50.000 0.00 0.00 42.51 5.25
3616 8023 8.295288 CCATTAAGAGGTACTATAGTGGTAACG 58.705 40.741 15.90 0.00 41.55 3.18
3617 8024 8.583296 CCCATTAAGAGGTACTATAGTGGTAAC 58.417 40.741 15.90 5.35 41.55 2.50
3627 8034 2.322658 CCGGCCCATTAAGAGGTACTA 58.677 52.381 0.00 0.00 41.55 1.82


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

AutoCloner maintained by Alex Coulton.