Multiple sequence alignment - TraesCS3B01G219400

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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 TraesCS3B01G219400 chr3B 100.000 3171 0 0 1 3171 263786893 263790063 0.000000e+00 5856
1 TraesCS3B01G219400 chr3D 90.895 3240 132 39 43 3171 185067052 185070239 0.000000e+00 4198
2 TraesCS3B01G219400 chr3A 89.911 2914 136 38 350 3171 243869938 243872785 0.000000e+00 3607
3 TraesCS3B01G219400 chr3A 92.416 356 24 3 1 353 243867861 243868216 3.650000e-139 505
4 TraesCS3B01G219400 chr7D 79.275 193 32 6 28 217 449079275 449079088 9.230000e-26 128


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 TraesCS3B01G219400 chr3B 263786893 263790063 3170 False 5856 5856 100.0000 1 3171 1 chr3B.!!$F1 3170
1 TraesCS3B01G219400 chr3D 185067052 185070239 3187 False 4198 4198 90.8950 43 3171 1 chr3D.!!$F1 3128
2 TraesCS3B01G219400 chr3A 243867861 243872785 4924 False 2056 3607 91.1635 1 3171 2 chr3A.!!$F1 3170

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
358 2087 0.327924 TACCTCGGGGTAAGTCGTCA 59.672 55.0 13.1 0.0 45.32 4.35 F
1132 2910 0.463654 CGGTAAGCTGCCCTTATGCA 60.464 55.0 0.0 0.0 38.25 3.96 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2104 3905 1.153469 CTTCCTCAGCCGCCTCTTC 60.153 63.158 0.0 0.0 0.0 2.87 R
2734 4579 0.029700 GGGGTGTACGTTGTTGTTGC 59.970 55.000 0.0 0.0 0.0 4.17 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
19 20 0.899019 TCGATCCAACGGAACATCCA 59.101 50.000 0.00 0.00 35.91 3.41
81 83 2.687935 GTGGCCTTCTGTTCTGTTTTGA 59.312 45.455 3.32 0.00 0.00 2.69
201 203 2.540101 GCGTCCATGATTTTACTCTCGG 59.460 50.000 0.00 0.00 0.00 4.63
202 204 3.737047 GCGTCCATGATTTTACTCTCGGA 60.737 47.826 0.00 0.00 0.00 4.55
203 205 3.797256 CGTCCATGATTTTACTCTCGGAC 59.203 47.826 0.00 0.00 35.53 4.79
204 206 4.440250 CGTCCATGATTTTACTCTCGGACT 60.440 45.833 0.00 0.00 36.15 3.85
205 207 5.044558 GTCCATGATTTTACTCTCGGACTC 58.955 45.833 0.00 0.00 35.77 3.36
211 215 4.602340 TTTTACTCTCGGACTCAAGCTT 57.398 40.909 0.00 0.00 0.00 3.74
264 268 5.949354 GCTCTACTAGTGGATCCATCTACAT 59.051 44.000 19.62 11.63 40.31 2.29
289 293 7.268212 AGAATGTGAATCCTATGCCATCTAT 57.732 36.000 0.00 0.00 0.00 1.98
298 302 6.968263 TCCTATGCCATCTATATGAGCTAC 57.032 41.667 0.00 0.00 34.84 3.58
326 330 9.678941 AGCTGCTAAACTAAATTTACAAGAAAC 57.321 29.630 0.00 0.00 0.00 2.78
358 2087 0.327924 TACCTCGGGGTAAGTCGTCA 59.672 55.000 13.10 0.00 45.32 4.35
397 2126 2.432628 GGAAGGAGTGGCACGACG 60.433 66.667 12.71 0.00 0.00 5.12
417 2146 1.129437 GAGATGGCGAGAAACAGTTGC 59.871 52.381 0.00 0.00 0.00 4.17
423 2152 2.966309 GAGAAACAGTTGCGGGGCG 61.966 63.158 0.00 0.00 0.00 6.13
506 2245 3.075148 GGCTAAAGAAAGTGTGTCTCCC 58.925 50.000 0.00 0.00 0.00 4.30
507 2246 3.496160 GGCTAAAGAAAGTGTGTCTCCCA 60.496 47.826 0.00 0.00 0.00 4.37
696 2451 3.951775 TTGGTCATATTTGTGCAACCC 57.048 42.857 0.00 0.00 34.36 4.11
794 2557 8.927721 TGTAAAATGAAATCAAATGCTGTGATG 58.072 29.630 0.00 0.00 35.87 3.07
850 2613 5.180492 TGGCTTTATGTTTTCTTACGTGAGG 59.820 40.000 7.57 0.00 0.00 3.86
851 2614 5.410439 GGCTTTATGTTTTCTTACGTGAGGA 59.590 40.000 7.57 0.00 0.00 3.71
852 2615 6.402226 GGCTTTATGTTTTCTTACGTGAGGAG 60.402 42.308 7.57 0.00 0.00 3.69
853 2616 6.476243 TTTATGTTTTCTTACGTGAGGAGC 57.524 37.500 7.57 0.17 0.00 4.70
854 2617 3.462483 TGTTTTCTTACGTGAGGAGCA 57.538 42.857 7.57 2.73 0.00 4.26
1100 2878 0.678366 TCCGCCGCCAACAATAATGT 60.678 50.000 0.00 0.00 43.14 2.71
1102 2880 0.588730 CGCCGCCAACAATAATGTCG 60.589 55.000 0.00 0.00 39.40 4.35
1125 2903 1.902556 TTACCTCGGTAAGCTGCCC 59.097 57.895 4.47 0.00 35.88 5.36
1132 2910 0.463654 CGGTAAGCTGCCCTTATGCA 60.464 55.000 0.00 0.00 38.25 3.96
1139 2917 1.547223 GCTGCCCTTATGCATCATCCT 60.547 52.381 0.19 0.00 41.16 3.24
1147 2925 0.679505 ATGCATCATCCTGCCATTGC 59.320 50.000 0.00 0.00 41.58 3.56
1164 2942 2.090524 GCCCCGTACGTTCGTTGAG 61.091 63.158 15.21 0.00 0.00 3.02
1180 2958 3.369052 CGTTGAGGTTCCATGGCTAAGTA 60.369 47.826 6.96 0.00 0.00 2.24
1181 2959 4.192317 GTTGAGGTTCCATGGCTAAGTAG 58.808 47.826 6.96 0.00 0.00 2.57
1182 2960 3.450904 TGAGGTTCCATGGCTAAGTAGT 58.549 45.455 6.96 0.00 0.00 2.73
1183 2961 4.616553 TGAGGTTCCATGGCTAAGTAGTA 58.383 43.478 6.96 0.00 0.00 1.82
1184 2962 4.404715 TGAGGTTCCATGGCTAAGTAGTAC 59.595 45.833 6.96 0.00 0.00 2.73
1185 2963 4.621769 AGGTTCCATGGCTAAGTAGTACT 58.378 43.478 6.96 0.00 0.00 2.73
1186 2964 4.406003 AGGTTCCATGGCTAAGTAGTACTG 59.594 45.833 6.96 0.00 0.00 2.74
1187 2965 4.161754 GGTTCCATGGCTAAGTAGTACTGT 59.838 45.833 6.96 0.00 0.00 3.55
1188 2966 5.361857 GGTTCCATGGCTAAGTAGTACTGTA 59.638 44.000 6.96 0.00 0.00 2.74
1189 2967 6.041751 GGTTCCATGGCTAAGTAGTACTGTAT 59.958 42.308 6.96 0.00 0.00 2.29
1190 2968 7.418712 GGTTCCATGGCTAAGTAGTACTGTATT 60.419 40.741 6.96 0.00 0.00 1.89
1191 2969 8.636213 GTTCCATGGCTAAGTAGTACTGTATTA 58.364 37.037 6.96 1.23 0.00 0.98
1192 2970 8.405418 TCCATGGCTAAGTAGTACTGTATTAG 57.595 38.462 6.96 11.49 0.00 1.73
1193 2971 8.003044 TCCATGGCTAAGTAGTACTGTATTAGT 58.997 37.037 6.96 1.23 43.56 2.24
1321 3099 0.463833 ATGGCTCGTCCGGGAATTTC 60.464 55.000 0.00 0.00 37.80 2.17
1322 3100 1.078708 GGCTCGTCCGGGAATTTCA 60.079 57.895 0.00 0.00 0.00 2.69
1323 3101 0.675522 GGCTCGTCCGGGAATTTCAA 60.676 55.000 0.00 0.00 0.00 2.69
1324 3102 1.379527 GCTCGTCCGGGAATTTCAAT 58.620 50.000 0.00 0.00 0.00 2.57
1325 3103 1.743394 GCTCGTCCGGGAATTTCAATT 59.257 47.619 0.00 0.00 0.00 2.32
1326 3104 2.163613 GCTCGTCCGGGAATTTCAATTT 59.836 45.455 0.00 0.00 0.00 1.82
1327 3105 3.730963 GCTCGTCCGGGAATTTCAATTTC 60.731 47.826 0.00 0.00 0.00 2.17
1376 3154 9.097257 GTTTCTTGGAAGAATGTTCATTTTTCA 57.903 29.630 21.55 11.35 43.92 2.69
1393 3171 7.609918 TCATTTTTCACTGCTAGCCTACATTTA 59.390 33.333 13.29 0.00 0.00 1.40
1394 3172 6.737254 TTTTCACTGCTAGCCTACATTTAC 57.263 37.500 13.29 0.00 0.00 2.01
1395 3173 5.677319 TTCACTGCTAGCCTACATTTACT 57.323 39.130 13.29 0.00 0.00 2.24
1405 3183 6.712179 AGCCTACATTTACTACTACCTCAC 57.288 41.667 0.00 0.00 0.00 3.51
1469 3269 2.092211 CGCTACGGACACTTGATGAAAC 59.908 50.000 0.00 0.00 0.00 2.78
1471 3271 2.930826 ACGGACACTTGATGAAACCT 57.069 45.000 0.00 0.00 0.00 3.50
1520 3320 1.605712 GCAGGTTGCTACAGACGAGTT 60.606 52.381 0.00 0.00 40.96 3.01
1641 3441 1.688197 TGTGACACACATGAGCTCAGA 59.312 47.619 22.96 0.00 39.62 3.27
1707 3507 8.268850 TCTTTTCTGTAGCAATTCCATCTAAC 57.731 34.615 0.00 0.00 0.00 2.34
1769 3569 4.681483 ACATATGCTACGAATCATGTGACG 59.319 41.667 1.58 0.00 35.99 4.35
1891 3692 3.626924 AAGACCGGCGCCTCAGTT 61.627 61.111 26.68 10.06 0.00 3.16
1999 3800 2.564721 GCCAAAACCAGCGGCTTCT 61.565 57.895 0.00 0.00 42.78 2.85
2084 3885 1.002868 GCCAAGAAGCTGAGGCAGA 60.003 57.895 12.49 0.00 46.26 4.26
2185 3986 0.324614 TCTGACCGGCACATGATGTT 59.675 50.000 0.00 0.00 0.00 2.71
2186 3987 1.552792 TCTGACCGGCACATGATGTTA 59.447 47.619 0.00 0.00 0.00 2.41
2187 3988 2.027653 TCTGACCGGCACATGATGTTAA 60.028 45.455 0.00 0.00 0.00 2.01
2190 3991 1.466950 ACCGGCACATGATGTTAAACG 59.533 47.619 0.00 0.00 0.00 3.60
2198 3999 2.851263 TGATGTTAAACGGCTGGTCT 57.149 45.000 0.00 0.00 0.00 3.85
2199 4000 3.134574 TGATGTTAAACGGCTGGTCTT 57.865 42.857 0.00 0.00 0.00 3.01
2207 4021 2.180432 ACGGCTGGTCTTTAAACCTC 57.820 50.000 0.00 0.00 40.20 3.85
2237 4051 3.063997 CGTTCCTCTAATGCATTGGTGTC 59.936 47.826 22.27 10.76 0.00 3.67
2286 4100 9.093970 TGTTCTGAAACACATAATCGGTTATAG 57.906 33.333 0.00 0.00 40.45 1.31
2291 4105 6.844696 AACACATAATCGGTTATAGTGCAG 57.155 37.500 21.01 5.63 35.30 4.41
2296 4110 8.273557 CACATAATCGGTTATAGTGCAGTTAAC 58.726 37.037 14.03 8.45 30.34 2.01
2298 4112 9.687210 CATAATCGGTTATAGTGCAGTTAACTA 57.313 33.333 8.04 5.40 34.73 2.24
2343 4157 1.634757 TTTGCGTGTCCATAGCAGCG 61.635 55.000 0.00 0.00 42.19 5.18
2356 4170 0.679002 AGCAGCGGATTGATGTGCTT 60.679 50.000 0.00 0.00 41.72 3.91
2360 4174 3.673052 GCAGCGGATTGATGTGCTTTTAA 60.673 43.478 0.00 0.00 36.02 1.52
2362 4176 3.119495 AGCGGATTGATGTGCTTTTAACC 60.119 43.478 0.00 0.00 32.89 2.85
2363 4177 3.366883 GCGGATTGATGTGCTTTTAACCA 60.367 43.478 0.00 0.00 0.00 3.67
2364 4178 4.804108 CGGATTGATGTGCTTTTAACCAA 58.196 39.130 0.00 0.00 0.00 3.67
2365 4179 5.410067 CGGATTGATGTGCTTTTAACCAAT 58.590 37.500 0.00 0.00 0.00 3.16
2366 4180 5.868801 CGGATTGATGTGCTTTTAACCAATT 59.131 36.000 0.00 0.00 0.00 2.32
2401 4215 2.555199 ACAACTGTCTGTCTGAAGCAC 58.445 47.619 0.00 0.00 0.00 4.40
2511 4347 3.665745 ATGCAGTGGCTTAAAACTTGG 57.334 42.857 0.00 0.00 41.91 3.61
2607 4443 1.865865 TTCAGACGAGTTTCCACTGC 58.134 50.000 0.00 0.00 31.22 4.40
2732 4577 5.125417 TCAAGGAAGGAACAACAAGAACAAG 59.875 40.000 0.00 0.00 0.00 3.16
2734 4579 4.884164 AGGAAGGAACAACAAGAACAAGAG 59.116 41.667 0.00 0.00 0.00 2.85
2744 4589 4.485163 ACAAGAACAAGAGCAACAACAAC 58.515 39.130 0.00 0.00 0.00 3.32
2749 4594 3.004171 ACAAGAGCAACAACAACGTACA 58.996 40.909 0.00 0.00 0.00 2.90
2783 4628 9.915629 AAACTCTTTACAGTCATCTACTACTTG 57.084 33.333 0.00 0.00 35.76 3.16
2851 4696 8.084684 TCTATAACATTCATCGTCTGGATCTTG 58.915 37.037 0.00 0.00 31.28 3.02
2983 4835 1.218230 GCAGGCGGAATAGCGAGAAG 61.218 60.000 0.00 0.00 38.18 2.85
3056 4909 6.260936 CACTTGACACTCTTAAACCTCACATT 59.739 38.462 0.00 0.00 0.00 2.71
3058 4911 5.305585 TGACACTCTTAAACCTCACATTCC 58.694 41.667 0.00 0.00 0.00 3.01
3059 4912 5.071788 TGACACTCTTAAACCTCACATTCCT 59.928 40.000 0.00 0.00 0.00 3.36
3060 4913 5.552178 ACACTCTTAAACCTCACATTCCTC 58.448 41.667 0.00 0.00 0.00 3.71
3061 4914 4.938226 CACTCTTAAACCTCACATTCCTCC 59.062 45.833 0.00 0.00 0.00 4.30
3062 4915 4.019231 ACTCTTAAACCTCACATTCCTCCC 60.019 45.833 0.00 0.00 0.00 4.30
3063 4916 4.175962 TCTTAAACCTCACATTCCTCCCT 58.824 43.478 0.00 0.00 0.00 4.20
3064 4917 4.601857 TCTTAAACCTCACATTCCTCCCTT 59.398 41.667 0.00 0.00 0.00 3.95
3065 4918 2.887151 AACCTCACATTCCTCCCTTG 57.113 50.000 0.00 0.00 0.00 3.61
3066 4919 1.747444 ACCTCACATTCCTCCCTTGT 58.253 50.000 0.00 0.00 0.00 3.16
3067 4920 2.915869 ACCTCACATTCCTCCCTTGTA 58.084 47.619 0.00 0.00 0.00 2.41
3068 4921 2.572104 ACCTCACATTCCTCCCTTGTAC 59.428 50.000 0.00 0.00 0.00 2.90
3069 4922 2.840651 CCTCACATTCCTCCCTTGTACT 59.159 50.000 0.00 0.00 0.00 2.73
3070 4923 3.264450 CCTCACATTCCTCCCTTGTACTT 59.736 47.826 0.00 0.00 0.00 2.24
3071 4924 4.263506 CCTCACATTCCTCCCTTGTACTTT 60.264 45.833 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 2.556622 GTTGTTCCATGGATGTTCCGTT 59.443 45.455 17.06 0.00 40.17 4.44
19 20 2.158667 ACTTTCTGTCGGGTTGTTCCAT 60.159 45.455 0.00 0.00 38.11 3.41
47 49 1.078848 GGCCACGAGAAGCTCATGT 60.079 57.895 0.00 0.00 0.00 3.21
81 83 1.196808 GTTGGTCGTGCGACATTTCAT 59.803 47.619 23.33 0.00 46.20 2.57
201 203 5.356190 TCATCATTGGATTCAAGCTTGAGTC 59.644 40.000 32.77 32.77 41.53 3.36
202 204 5.258841 TCATCATTGGATTCAAGCTTGAGT 58.741 37.500 27.02 25.01 38.61 3.41
203 205 5.830000 TCATCATTGGATTCAAGCTTGAG 57.170 39.130 27.02 14.99 38.61 3.02
204 206 6.785337 ATTCATCATTGGATTCAAGCTTGA 57.215 33.333 25.16 25.16 36.19 3.02
205 207 6.816640 ACAATTCATCATTGGATTCAAGCTTG 59.183 34.615 20.81 20.81 46.06 4.01
211 215 6.854091 TTGGACAATTCATCATTGGATTCA 57.146 33.333 0.00 0.00 46.06 2.57
264 268 6.692849 AGATGGCATAGGATTCACATTCTA 57.307 37.500 0.00 0.00 0.00 2.10
298 302 7.739295 TCTTGTAAATTTAGTTTAGCAGCTCG 58.261 34.615 0.00 0.00 33.11 5.03
326 330 0.921347 CGAGGTAGATTTCGCCAACG 59.079 55.000 0.00 0.00 42.01 4.10
358 2087 1.673033 CCGCTCGATCTCAAGGTGTTT 60.673 52.381 0.00 0.00 0.00 2.83
397 2126 1.129437 GCAACTGTTTCTCGCCATCTC 59.871 52.381 0.00 0.00 0.00 2.75
417 2146 1.525995 ATACTTCATTGCCGCCCCG 60.526 57.895 0.00 0.00 0.00 5.73
423 2152 2.952310 GGACTTCCCATACTTCATTGCC 59.048 50.000 0.00 0.00 34.14 4.52
427 2156 3.736094 TCCTGGACTTCCCATACTTCAT 58.264 45.455 0.00 0.00 45.57 2.57
428 2157 3.199442 TCCTGGACTTCCCATACTTCA 57.801 47.619 0.00 0.00 45.57 3.02
506 2245 6.817765 AGTATTGGTACCACAGACATTTTG 57.182 37.500 16.04 0.00 0.00 2.44
507 2246 7.214467 CAAGTATTGGTACCACAGACATTTT 57.786 36.000 16.04 1.10 43.94 1.82
681 2436 4.244862 GGTTTCTGGGTTGCACAAATATG 58.755 43.478 0.00 0.00 0.00 1.78
696 2451 6.924111 ACATGCTATTGTTTTAGGGTTTCTG 58.076 36.000 0.00 0.00 0.00 3.02
762 2525 8.316214 AGCATTTGATTTCATTTTACAGTGGAT 58.684 29.630 0.00 0.00 0.00 3.41
811 2574 7.651808 ACATAAAGCCACAGCATTTCATATAC 58.348 34.615 0.00 0.00 43.56 1.47
828 2591 6.476243 TCCTCACGTAAGAAAACATAAAGC 57.524 37.500 0.00 0.00 43.62 3.51
829 2592 6.147164 TGCTCCTCACGTAAGAAAACATAAAG 59.853 38.462 0.00 0.00 43.62 1.85
833 2596 3.997021 CTGCTCCTCACGTAAGAAAACAT 59.003 43.478 0.00 0.00 43.62 2.71
852 2615 0.394080 AAAGGGCTGAGATGCTCTGC 60.394 55.000 15.25 15.25 43.99 4.26
853 2616 2.015587 GAAAAGGGCTGAGATGCTCTG 58.984 52.381 0.00 0.00 43.99 3.35
944 2707 1.302832 GAACACCACCTCTGCTGGG 60.303 63.158 0.00 0.00 32.45 4.45
1084 2847 3.234368 CGACATTATTGTTGGCGGC 57.766 52.632 0.00 0.00 41.91 6.53
1091 2854 4.441079 CGAGGTAAGGGACGACATTATTGT 60.441 45.833 0.00 0.00 39.32 2.71
1100 2878 3.976704 TTACCGAGGTAAGGGACGA 57.023 52.632 10.43 0.00 35.88 4.20
1132 2910 1.152398 GGGGCAATGGCAGGATGAT 60.152 57.895 9.51 0.00 43.71 2.45
1139 2917 3.554696 AACGTACGGGGCAATGGCA 62.555 57.895 21.06 0.00 43.71 4.92
1147 2925 1.444895 CCTCAACGAACGTACGGGG 60.445 63.158 21.06 10.40 37.61 5.73
1164 2942 4.161754 ACAGTACTACTTAGCCATGGAACC 59.838 45.833 18.40 0.00 0.00 3.62
1182 2960 7.224765 TCCCCCAGTAAGTACTAATACAGTA 57.775 40.000 0.00 0.00 38.80 2.74
1183 2961 6.096164 TCCCCCAGTAAGTACTAATACAGT 57.904 41.667 0.00 0.00 41.62 3.55
1184 2962 6.210984 GGATCCCCCAGTAAGTACTAATACAG 59.789 46.154 0.00 0.00 34.13 2.74
1185 2963 6.080009 GGATCCCCCAGTAAGTACTAATACA 58.920 44.000 0.00 0.00 34.13 2.29
1186 2964 6.602410 GGATCCCCCAGTAAGTACTAATAC 57.398 45.833 0.00 0.00 34.13 1.89
1218 2996 2.979006 CGATTTCGTCATCGGACTTG 57.021 50.000 10.08 0.00 42.03 3.16
1321 3099 6.698329 TGCAGACAGATTGTTTGAAGAAATTG 59.302 34.615 4.16 0.00 34.75 2.32
1322 3100 6.698766 GTGCAGACAGATTGTTTGAAGAAATT 59.301 34.615 4.16 0.00 34.75 1.82
1323 3101 6.211515 GTGCAGACAGATTGTTTGAAGAAAT 58.788 36.000 4.16 0.00 34.75 2.17
1324 3102 5.450412 GGTGCAGACAGATTGTTTGAAGAAA 60.450 40.000 4.16 0.00 34.75 2.52
1325 3103 4.036734 GGTGCAGACAGATTGTTTGAAGAA 59.963 41.667 4.16 0.00 34.75 2.52
1326 3104 3.565482 GGTGCAGACAGATTGTTTGAAGA 59.435 43.478 4.16 0.00 34.75 2.87
1327 3105 3.316029 TGGTGCAGACAGATTGTTTGAAG 59.684 43.478 4.16 0.00 34.75 3.02
1376 3154 6.264970 GGTAGTAGTAAATGTAGGCTAGCAGT 59.735 42.308 18.24 5.49 0.00 4.40
1469 3269 2.325082 GCCACGGTGTGCTTACAGG 61.325 63.158 7.45 0.00 31.34 4.00
1471 3271 1.596752 CTGCCACGGTGTGCTTACA 60.597 57.895 18.07 3.26 31.34 2.41
1628 3428 4.395231 ACATTGACATTCTGAGCTCATGTG 59.605 41.667 22.76 19.55 31.10 3.21
1641 3441 7.361201 GCTTACACTGATGTACACATTGACATT 60.361 37.037 16.73 3.91 41.12 2.71
1717 3517 7.029563 GTGCAGTAGCTAAATTTATTGTGCTT 58.970 34.615 13.09 0.00 42.74 3.91
1769 3569 7.081526 ACATTGAAATTCTGAGCTCATGTAC 57.918 36.000 18.63 7.72 0.00 2.90
1891 3692 2.877097 TGGCAAGAGAAACATGGCTA 57.123 45.000 0.00 0.00 42.00 3.93
1999 3800 1.660355 GAGCGGCATGTCCTCGATA 59.340 57.895 1.45 0.00 0.00 2.92
2104 3905 1.153469 CTTCCTCAGCCGCCTCTTC 60.153 63.158 0.00 0.00 0.00 2.87
2185 3986 4.067192 GAGGTTTAAAGACCAGCCGTTTA 58.933 43.478 0.00 0.00 42.35 2.01
2186 3987 2.882761 GAGGTTTAAAGACCAGCCGTTT 59.117 45.455 0.00 0.00 42.35 3.60
2187 3988 2.501261 GAGGTTTAAAGACCAGCCGTT 58.499 47.619 0.00 0.00 42.35 4.44
2190 3991 1.271217 ACGGAGGTTTAAAGACCAGCC 60.271 52.381 0.00 0.00 42.35 4.85
2237 4051 8.250538 ACAGAAAAATTGTACAAACCAAACAG 57.749 30.769 13.23 2.70 0.00 3.16
2302 4116 9.213799 GCAAAAAGGTTTCATTTCATTATGGTA 57.786 29.630 0.00 0.00 0.00 3.25
2303 4117 7.095271 CGCAAAAAGGTTTCATTTCATTATGGT 60.095 33.333 0.00 0.00 0.00 3.55
2305 4119 7.741216 CACGCAAAAAGGTTTCATTTCATTATG 59.259 33.333 0.00 0.00 0.00 1.90
2306 4120 7.440856 ACACGCAAAAAGGTTTCATTTCATTAT 59.559 29.630 0.00 0.00 0.00 1.28
2307 4121 6.758886 ACACGCAAAAAGGTTTCATTTCATTA 59.241 30.769 0.00 0.00 0.00 1.90
2308 4122 5.584251 ACACGCAAAAAGGTTTCATTTCATT 59.416 32.000 0.00 0.00 0.00 2.57
2309 4123 5.115480 ACACGCAAAAAGGTTTCATTTCAT 58.885 33.333 0.00 0.00 0.00 2.57
2310 4124 4.499183 ACACGCAAAAAGGTTTCATTTCA 58.501 34.783 0.00 0.00 0.00 2.69
2311 4125 4.026062 GGACACGCAAAAAGGTTTCATTTC 60.026 41.667 0.00 0.00 0.00 2.17
2312 4126 3.868661 GGACACGCAAAAAGGTTTCATTT 59.131 39.130 0.00 0.00 0.00 2.32
2343 4157 7.671495 AAATTGGTTAAAAGCACATCAATCC 57.329 32.000 0.00 0.00 35.94 3.01
2360 4174 9.569122 AGTTGTACAACATAGACTAAAATTGGT 57.431 29.630 33.93 9.86 43.47 3.67
2364 4178 9.998106 AGACAGTTGTACAACATAGACTAAAAT 57.002 29.630 33.93 11.39 43.47 1.82
2365 4179 9.256477 CAGACAGTTGTACAACATAGACTAAAA 57.744 33.333 33.93 0.00 43.47 1.52
2366 4180 8.418662 ACAGACAGTTGTACAACATAGACTAAA 58.581 33.333 33.93 0.00 43.47 1.85
2401 4215 7.707774 ATTTTACAGAAAACATCCCAAAACG 57.292 32.000 0.00 0.00 37.37 3.60
2442 4278 5.240891 ACTAGTCGGCATTCCAATATCATG 58.759 41.667 0.00 0.00 0.00 3.07
2446 4282 3.904339 AGGACTAGTCGGCATTCCAATAT 59.096 43.478 16.56 0.00 0.00 1.28
2511 4347 3.120304 CGAAAAAGGACCGATGTTCCTTC 60.120 47.826 4.14 0.00 42.47 3.46
2732 4577 1.003223 GGGTGTACGTTGTTGTTGCTC 60.003 52.381 0.00 0.00 0.00 4.26
2734 4579 0.029700 GGGGTGTACGTTGTTGTTGC 59.970 55.000 0.00 0.00 0.00 4.17
2744 4589 0.974383 AGAGTTTGAGGGGGTGTACG 59.026 55.000 0.00 0.00 0.00 3.67
2749 4594 3.053826 ACTGTAAAGAGTTTGAGGGGGT 58.946 45.455 0.00 0.00 0.00 4.95
2826 4671 7.330454 CCAAGATCCAGACGATGAATGTTATAG 59.670 40.741 0.00 0.00 0.00 1.31
2983 4835 0.248743 CATGACAATGCCGCATCCAC 60.249 55.000 6.27 1.87 0.00 4.02
3056 4909 2.113777 AGGGAGAAAGTACAAGGGAGGA 59.886 50.000 0.00 0.00 0.00 3.71
3058 4911 4.327680 CAAAGGGAGAAAGTACAAGGGAG 58.672 47.826 0.00 0.00 0.00 4.30
3059 4912 3.497942 GCAAAGGGAGAAAGTACAAGGGA 60.498 47.826 0.00 0.00 0.00 4.20
3060 4913 2.820197 GCAAAGGGAGAAAGTACAAGGG 59.180 50.000 0.00 0.00 0.00 3.95
3061 4914 3.753797 GAGCAAAGGGAGAAAGTACAAGG 59.246 47.826 0.00 0.00 0.00 3.61
3062 4915 3.753797 GGAGCAAAGGGAGAAAGTACAAG 59.246 47.826 0.00 0.00 0.00 3.16
3063 4916 3.497942 GGGAGCAAAGGGAGAAAGTACAA 60.498 47.826 0.00 0.00 0.00 2.41
3064 4917 2.039879 GGGAGCAAAGGGAGAAAGTACA 59.960 50.000 0.00 0.00 0.00 2.90
3065 4918 2.618302 GGGGAGCAAAGGGAGAAAGTAC 60.618 54.545 0.00 0.00 0.00 2.73
3066 4919 1.633945 GGGGAGCAAAGGGAGAAAGTA 59.366 52.381 0.00 0.00 0.00 2.24
3067 4920 0.405973 GGGGAGCAAAGGGAGAAAGT 59.594 55.000 0.00 0.00 0.00 2.66
3068 4921 0.405585 TGGGGAGCAAAGGGAGAAAG 59.594 55.000 0.00 0.00 0.00 2.62
3069 4922 0.112412 GTGGGGAGCAAAGGGAGAAA 59.888 55.000 0.00 0.00 0.00 2.52
3070 4923 1.767692 GTGGGGAGCAAAGGGAGAA 59.232 57.895 0.00 0.00 0.00 2.87
3071 4924 2.231380 GGTGGGGAGCAAAGGGAGA 61.231 63.158 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.