Multiple sequence alignment - TraesCS5A01G509800

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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 TraesCS5A01G509800 chr5A 100.000 3844 0 0 1 3844 673711694 673707851 0.000000e+00 7099
1 TraesCS5A01G509800 chr5A 86.364 330 28 10 27 340 134468452 134468780 1.020000e-90 344
2 TraesCS5A01G509800 chr5A 82.009 428 43 16 391 797 134468789 134469203 2.210000e-87 333
3 TraesCS5A01G509800 chr4D 93.873 3199 133 20 1 3175 494122286 494119127 0.000000e+00 4763
4 TraesCS5A01G509800 chr4D 93.016 630 34 4 3219 3844 494119052 494118429 0.000000e+00 911
5 TraesCS5A01G509800 chr4D 86.246 349 29 12 27 357 494123477 494123130 1.020000e-95 361
6 TraesCS5A01G509800 chr4B 93.766 2695 139 18 547 3224 633633018 633630336 0.000000e+00 4019
7 TraesCS5A01G509800 chr4B 94.118 629 28 4 3219 3844 633630299 633629677 0.000000e+00 948
8 TraesCS5A01G509800 chr4B 92.279 531 24 11 1 522 633633527 633633005 0.000000e+00 737
9 TraesCS5A01G509800 chr7A 86.667 330 27 10 27 340 616266860 616267188 2.200000e-92 350
10 TraesCS5A01G509800 chr7A 82.009 428 43 17 391 797 616267197 616267611 2.210000e-87 333
11 TraesCS5A01G509800 chr4A 86.667 330 27 10 27 340 480317052 480317380 2.200000e-92 350
12 TraesCS5A01G509800 chr4A 86.667 330 27 10 27 340 499693480 499693152 2.200000e-92 350
13 TraesCS5A01G509800 chr4A 85.057 348 34 11 27 357 404452172 404451826 4.760000e-89 339
14 TraesCS5A01G509800 chr4A 81.818 429 43 17 391 797 480317389 480317804 1.030000e-85 327
15 TraesCS5A01G509800 chr4A 81.395 430 44 16 391 797 287265286 287265702 6.200000e-83 318
16 TraesCS5A01G509800 chr2A 85.591 347 33 10 27 357 198778074 198778419 7.900000e-92 348
17 TraesCS5A01G509800 chr2A 82.201 427 42 23 391 797 198778411 198778823 1.710000e-88 337
18 TraesCS5A01G509800 chr2A 81.925 426 41 19 391 797 752845338 752845746 1.030000e-85 327
19 TraesCS5A01G509800 chr1A 83.243 370 38 10 440 797 467436089 467436446 6.200000e-83 318


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 TraesCS5A01G509800 chr5A 673707851 673711694 3843 True 7099.000000 7099 100.000000 1 3844 1 chr5A.!!$R1 3843
1 TraesCS5A01G509800 chr5A 134468452 134469203 751 False 338.500000 344 84.186500 27 797 2 chr5A.!!$F1 770
2 TraesCS5A01G509800 chr4D 494118429 494123477 5048 True 2011.666667 4763 91.045000 1 3844 3 chr4D.!!$R1 3843
3 TraesCS5A01G509800 chr4B 633629677 633633527 3850 True 1901.333333 4019 93.387667 1 3844 3 chr4B.!!$R1 3843
4 TraesCS5A01G509800 chr7A 616266860 616267611 751 False 341.500000 350 84.338000 27 797 2 chr7A.!!$F1 770
5 TraesCS5A01G509800 chr4A 480317052 480317804 752 False 338.500000 350 84.242500 27 797 2 chr4A.!!$F2 770
6 TraesCS5A01G509800 chr2A 198778074 198778823 749 False 342.500000 348 83.896000 27 797 2 chr2A.!!$F2 770

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
437 1649 1.355381 TCTGGGCAGTTGGTTCATCAT 59.645 47.619 0.0 0.0 0.0 2.45 F
1664 2943 0.036952 ACGGCATGTCTGAGGTCAAG 60.037 55.000 0.0 0.0 0.0 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1831 3110 0.107066 TAGACATAGTCGGTGGCGGA 60.107 55.0 0.0 0.0 37.67 5.54 R
3572 4925 0.038166 GGAATTGGAGGACAGGCACA 59.962 55.0 0.0 0.0 0.00 4.57 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
54 1249 5.121811 TGCAGAGGATAAGAAATTGCTCTC 58.878 41.667 0.00 0.00 38.43 3.20
342 1553 6.987557 TGGTACTTGTGGGGGAATTTATAAT 58.012 36.000 0.00 0.00 0.00 1.28
344 1555 7.091720 TGGTACTTGTGGGGGAATTTATAATCT 60.092 37.037 0.00 0.00 0.00 2.40
367 1579 4.650734 TGTGCTATGGTTCAGTCATTTCA 58.349 39.130 0.00 0.00 0.00 2.69
376 1588 5.365025 TGGTTCAGTCATTTCAATTGGGAAA 59.635 36.000 5.42 0.00 40.72 3.13
428 1640 5.840243 TCATAATGATTTCTGGGCAGTTG 57.160 39.130 0.00 0.00 0.00 3.16
431 1643 2.380064 TGATTTCTGGGCAGTTGGTT 57.620 45.000 0.00 0.00 0.00 3.67
432 1644 2.238521 TGATTTCTGGGCAGTTGGTTC 58.761 47.619 0.00 0.00 0.00 3.62
433 1645 2.238521 GATTTCTGGGCAGTTGGTTCA 58.761 47.619 0.00 0.00 0.00 3.18
435 1647 1.909700 TTCTGGGCAGTTGGTTCATC 58.090 50.000 0.00 0.00 0.00 2.92
437 1649 1.355381 TCTGGGCAGTTGGTTCATCAT 59.645 47.619 0.00 0.00 0.00 2.45
438 1650 2.575735 TCTGGGCAGTTGGTTCATCATA 59.424 45.455 0.00 0.00 0.00 2.15
604 1870 9.638239 TCATATTGTTTTAAGGCTTTGATTGAC 57.362 29.630 4.45 0.00 0.00 3.18
610 1876 8.134895 TGTTTTAAGGCTTTGATTGACTAGTTG 58.865 33.333 4.45 0.00 0.00 3.16
686 1953 8.524870 TTTAGATTCTCGGTACAGTTGTTTAC 57.475 34.615 0.00 0.00 0.00 2.01
870 2149 2.754946 AGGCATGATTTTGGCAGTTG 57.245 45.000 0.00 0.00 44.16 3.16
909 2188 4.460382 TCAGATCAGATTTGGGTTTTCTGC 59.540 41.667 1.18 0.00 37.41 4.26
925 2204 2.016318 TCTGCCATCTTTAACATGCCG 58.984 47.619 0.00 0.00 0.00 5.69
934 2213 3.190327 TCTTTAACATGCCGGTGATGTTG 59.810 43.478 29.59 19.49 42.63 3.33
973 2252 8.529424 AATCAAGATCAGATTTTCCAGCATTA 57.471 30.769 7.40 0.00 31.99 1.90
992 2271 9.696917 CAGCATTAACTAGATTTTTGGTTCTTT 57.303 29.630 0.00 0.00 0.00 2.52
1101 2380 0.677731 ACCATCATCAACACCTGCCG 60.678 55.000 0.00 0.00 0.00 5.69
1214 2493 2.338015 GCCACAGGTCACCATGCTG 61.338 63.158 0.00 0.00 0.00 4.41
1215 2494 2.338015 CCACAGGTCACCATGCTGC 61.338 63.158 0.00 0.00 0.00 5.25
1328 2607 1.375551 ACAAGAACCCACAACGTGAC 58.624 50.000 0.00 0.00 35.23 3.67
1377 2656 3.717294 GGCACCGGGGATGTCACT 61.717 66.667 8.67 0.00 0.00 3.41
1380 2659 1.219124 CACCGGGGATGTCACTCTG 59.781 63.158 6.32 0.00 0.00 3.35
1440 2719 0.179234 TGGTGAACGCCAAGACAAGA 59.821 50.000 4.53 0.00 35.25 3.02
1446 2725 2.281484 GCCAAGACAAGACCGCCA 60.281 61.111 0.00 0.00 0.00 5.69
1452 2731 0.759346 AGACAAGACCGCCAAAGAGT 59.241 50.000 0.00 0.00 0.00 3.24
1492 2771 1.549950 GGGCCAAGATGAGGAAAACCA 60.550 52.381 4.39 0.00 0.00 3.67
1664 2943 0.036952 ACGGCATGTCTGAGGTCAAG 60.037 55.000 0.00 0.00 0.00 3.02
1812 3091 0.538057 CAAGCCCTGTCAAGAAGCCA 60.538 55.000 0.00 0.00 0.00 4.75
1845 3127 3.537874 GCCTCCGCCACCGACTAT 61.538 66.667 0.00 0.00 36.29 2.12
1863 3145 5.163550 CGACTATGTCTACCTGTTCCATTCA 60.164 44.000 0.00 0.00 0.00 2.57
1869 3151 3.830178 TCTACCTGTTCCATTCAGACGAA 59.170 43.478 0.00 0.00 35.20 3.85
1939 3221 0.670546 CGTCGGCAAGATGAAGGTGT 60.671 55.000 0.00 0.00 38.11 4.16
1972 3254 2.997315 TGGGCTCAGACGGGTCAG 60.997 66.667 1.17 0.00 0.00 3.51
1974 3256 4.459089 GGCTCAGACGGGTCAGGC 62.459 72.222 1.17 0.00 0.00 4.85
2148 3430 1.079073 ATGGGGAAGGTTTGGCAGG 59.921 57.895 0.00 0.00 0.00 4.85
2204 3486 2.292802 GAAATGCTCGACGCCGAACC 62.293 60.000 0.00 0.00 45.04 3.62
2295 3577 2.105128 GCGATCGTGGTGAGGGAG 59.895 66.667 17.81 0.00 0.00 4.30
2645 3932 7.939039 TCAGACAGGATTTTATGTTTCAGAAGT 59.061 33.333 0.00 0.00 0.00 3.01
2646 3933 8.019669 CAGACAGGATTTTATGTTTCAGAAGTG 58.980 37.037 0.00 0.00 0.00 3.16
2849 4140 1.474879 CACCCAAAACTGTGAACCGTT 59.525 47.619 0.00 0.00 0.00 4.44
2897 4188 7.931275 ACCTTCTTGTAAGATTGTTGACTTTC 58.069 34.615 0.00 0.00 34.49 2.62
2900 4191 7.730364 TCTTGTAAGATTGTTGACTTTCTCC 57.270 36.000 0.00 0.00 0.00 3.71
2917 4208 1.275856 CTCCTGAGAGATATGGCAGGC 59.724 57.143 0.00 0.00 45.82 4.85
2920 4211 2.550423 CCTGAGAGATATGGCAGGCAAG 60.550 54.545 0.00 0.00 41.17 4.01
2923 4214 0.950116 GAGATATGGCAGGCAAGTGC 59.050 55.000 0.00 0.00 43.19 4.40
2935 4226 1.142748 CAAGTGCCCTAGAGCTCGG 59.857 63.158 8.37 4.81 0.00 4.63
3004 4298 3.111484 TGTAGGAATCACAGCCCATGTA 58.889 45.455 0.00 0.00 41.41 2.29
3042 4336 7.746475 GCCGATATAAAGTGCACAGATTTATTC 59.254 37.037 21.04 16.26 32.75 1.75
3070 4364 9.683069 CAGCTTTTTATTTAACTGACAGATTGT 57.317 29.630 10.08 0.00 0.00 2.71
3091 4385 2.097629 TCTAACTTGATCGACGAGGCAG 59.902 50.000 3.01 1.10 34.46 4.85
3108 4402 1.826720 GCAGAGAATTCAATGGGCCAA 59.173 47.619 11.89 0.00 0.00 4.52
3138 4432 4.383602 CGGCCGCAGTTTTCACCG 62.384 66.667 14.67 0.00 0.00 4.94
3144 4438 1.154225 GCAGTTTTCACCGCGATGG 60.154 57.895 8.23 0.00 46.41 3.51
3172 4478 0.397941 TTAGCCACTCAAGCTGCTGT 59.602 50.000 1.35 0.00 41.71 4.40
3173 4479 0.397941 TAGCCACTCAAGCTGCTGTT 59.602 50.000 1.35 0.00 41.71 3.16
3174 4480 1.170919 AGCCACTCAAGCTGCTGTTG 61.171 55.000 1.35 0.00 39.69 3.33
3175 4481 1.168407 GCCACTCAAGCTGCTGTTGA 61.168 55.000 1.35 3.08 32.93 3.18
3176 4482 1.531423 CCACTCAAGCTGCTGTTGAT 58.469 50.000 1.35 0.00 33.49 2.57
3177 4483 1.884579 CCACTCAAGCTGCTGTTGATT 59.115 47.619 1.35 0.00 33.49 2.57
3178 4484 2.295349 CCACTCAAGCTGCTGTTGATTT 59.705 45.455 1.35 0.00 33.49 2.17
3179 4485 3.503363 CCACTCAAGCTGCTGTTGATTTA 59.497 43.478 1.35 0.00 33.49 1.40
3180 4486 4.157289 CCACTCAAGCTGCTGTTGATTTAT 59.843 41.667 1.35 0.00 33.49 1.40
3181 4487 5.330295 CACTCAAGCTGCTGTTGATTTATC 58.670 41.667 1.35 0.00 33.49 1.75
3182 4488 5.005740 ACTCAAGCTGCTGTTGATTTATCA 58.994 37.500 1.35 0.00 33.49 2.15
3183 4489 5.123502 ACTCAAGCTGCTGTTGATTTATCAG 59.876 40.000 1.35 0.00 38.19 2.90
3195 4501 8.389779 TGTTGATTTATCAGCTACTCAAAACA 57.610 30.769 7.85 0.00 38.61 2.83
3224 4573 7.936496 TTATGAAGTATTCCTGATGCACAAA 57.064 32.000 0.00 0.00 46.93 2.83
3239 4588 2.899976 CACAAAAGTTTCACCCCCAAC 58.100 47.619 0.00 0.00 0.00 3.77
3322 4671 6.503524 ACTCATCACATGTACCAAAAACAAC 58.496 36.000 0.00 0.00 0.00 3.32
3525 4878 4.916183 AGATCAAAGGGTTCTTCAGGAAG 58.084 43.478 2.60 2.60 39.71 3.46
3546 4899 1.899437 GCGTGATGAACCCCTCCAGA 61.899 60.000 0.00 0.00 0.00 3.86
3559 4912 4.293368 ACCCCTCCAGATCTGAAAATTCTT 59.707 41.667 24.62 0.00 0.00 2.52
3562 4915 4.201891 CCTCCAGATCTGAAAATTCTTGCG 60.202 45.833 24.62 2.66 0.00 4.85
3586 4939 0.321564 CGATTTGTGCCTGTCCTCCA 60.322 55.000 0.00 0.00 0.00 3.86
3587 4940 1.881925 CGATTTGTGCCTGTCCTCCAA 60.882 52.381 0.00 0.00 0.00 3.53
3588 4941 2.450476 GATTTGTGCCTGTCCTCCAAT 58.550 47.619 0.00 0.00 0.00 3.16
3589 4942 2.380064 TTTGTGCCTGTCCTCCAATT 57.620 45.000 0.00 0.00 0.00 2.32
3590 4943 1.909700 TTGTGCCTGTCCTCCAATTC 58.090 50.000 0.00 0.00 0.00 2.17
3591 4944 0.038166 TGTGCCTGTCCTCCAATTCC 59.962 55.000 0.00 0.00 0.00 3.01
3600 4953 1.351017 TCCTCCAATTCCGCTTGTTCT 59.649 47.619 0.00 0.00 0.00 3.01
3602 4955 2.426522 CTCCAATTCCGCTTGTTCTGA 58.573 47.619 0.00 0.00 0.00 3.27
3618 4971 5.875224 TGTTCTGATAACCACCTTGATTCA 58.125 37.500 0.00 0.00 0.00 2.57
3624 4977 5.248248 TGATAACCACCTTGATTCAGTGAGA 59.752 40.000 7.43 0.00 33.21 3.27
3720 5073 3.496160 CGGTTTTCCCCTCTTTCTCAAGA 60.496 47.826 0.00 0.00 35.61 3.02
3752 5105 0.944311 AACGACGTAAGCTGGTGCAG 60.944 55.000 0.00 0.00 42.74 4.41
3756 5109 0.107831 ACGTAAGCTGGTGCAGGAAA 59.892 50.000 0.00 0.00 42.74 3.13
3759 5112 0.605319 TAAGCTGGTGCAGGAAACGG 60.605 55.000 0.00 0.00 42.74 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 1249 6.981762 AGAGATTGATGTACAAGCAAGAAG 57.018 37.500 16.41 0.00 45.87 2.85
342 1553 4.558226 ATGACTGAACCATAGCACAAGA 57.442 40.909 0.00 0.00 0.00 3.02
344 1555 5.069318 TGAAATGACTGAACCATAGCACAA 58.931 37.500 0.00 0.00 0.00 3.33
359 1571 6.870439 CCTCTCTTTTTCCCAATTGAAATGAC 59.130 38.462 7.12 0.00 34.41 3.06
367 1579 4.667573 GAGACCCTCTCTTTTTCCCAATT 58.332 43.478 0.00 0.00 40.30 2.32
428 1640 4.770795 ACCTGTAGTGCTTATGATGAACC 58.229 43.478 0.00 0.00 0.00 3.62
431 1643 5.069119 CCTGTACCTGTAGTGCTTATGATGA 59.931 44.000 0.00 0.00 31.32 2.92
432 1644 5.163405 ACCTGTACCTGTAGTGCTTATGATG 60.163 44.000 0.00 0.00 31.32 3.07
433 1645 4.962995 ACCTGTACCTGTAGTGCTTATGAT 59.037 41.667 0.00 0.00 31.32 2.45
435 1647 4.737855 ACCTGTACCTGTAGTGCTTATG 57.262 45.455 0.00 0.00 31.32 1.90
437 1649 4.836736 AGAAACCTGTACCTGTAGTGCTTA 59.163 41.667 0.00 0.00 31.32 3.09
438 1650 3.646637 AGAAACCTGTACCTGTAGTGCTT 59.353 43.478 0.00 0.00 31.32 3.91
630 1896 2.351418 CGCGTAGATCATGGAGCAAAAA 59.649 45.455 0.00 0.00 0.00 1.94
631 1897 1.933181 CGCGTAGATCATGGAGCAAAA 59.067 47.619 0.00 0.00 0.00 2.44
788 2067 2.031157 GTGCCGGATCCGAAAATATTGG 60.031 50.000 35.42 15.77 42.83 3.16
870 2149 7.099764 TCTGATCTGACAGACAGGAAATTAAC 58.900 38.462 23.31 0.00 45.76 2.01
909 2188 2.364632 TCACCGGCATGTTAAAGATGG 58.635 47.619 0.00 0.00 0.00 3.51
925 2204 1.080974 GCACAGCAGCAACATCACC 60.081 57.895 0.00 0.00 0.00 4.02
973 2252 5.300792 TCGCCAAAGAACCAAAAATCTAGTT 59.699 36.000 0.00 0.00 0.00 2.24
992 2271 2.284798 GACGAGCTCCATCTTCGCCA 62.285 60.000 8.47 0.00 0.00 5.69
1101 2380 0.668535 GAACCTCAGGTGCAACAACC 59.331 55.000 3.64 0.00 39.98 3.77
1238 2517 4.980805 GCGTCGGGCACAAGTCCA 62.981 66.667 0.00 0.00 40.51 4.02
1328 2607 3.682372 TGATCAAGTCGTCGAGATCAG 57.318 47.619 17.15 0.00 41.21 2.90
1360 2639 3.682292 GAGTGACATCCCCGGTGCC 62.682 68.421 0.00 0.00 0.00 5.01
1492 2771 4.041567 TGTTATGGTGTGTGATCTTGACCT 59.958 41.667 0.00 0.00 0.00 3.85
1664 2943 1.188219 TGAGGACAGACCAGGCTGAC 61.188 60.000 17.94 9.77 42.04 3.51
1725 3004 4.018050 GGGAGCCCATCTTTCCATATACAT 60.018 45.833 0.00 0.00 35.81 2.29
1812 3091 3.737172 GCTTTGCCGTCGCCATGT 61.737 61.111 0.00 0.00 0.00 3.21
1831 3110 0.107066 TAGACATAGTCGGTGGCGGA 60.107 55.000 0.00 0.00 37.67 5.54
1837 3119 3.022406 GGAACAGGTAGACATAGTCGGT 58.978 50.000 0.00 0.00 37.67 4.69
1863 3145 2.037381 GTCCTTCTTCCCTTGTTCGTCT 59.963 50.000 0.00 0.00 0.00 4.18
1869 3151 2.118403 TCCAGTCCTTCTTCCCTTGT 57.882 50.000 0.00 0.00 0.00 3.16
1939 3221 1.675801 CCAGCACCAGAGAGCTTGA 59.324 57.895 0.00 0.00 37.90 3.02
1972 3254 0.394565 AACTCAGTCTCCACACAGCC 59.605 55.000 0.00 0.00 0.00 4.85
1974 3256 3.126831 GACAAACTCAGTCTCCACACAG 58.873 50.000 0.00 0.00 33.29 3.66
2354 3636 0.177604 CTCTGATTGAGCGGCTCCTT 59.822 55.000 26.00 13.92 35.84 3.36
2367 3649 4.202346 GCCTTCTTATTCCTGCTCTCTGAT 60.202 45.833 0.00 0.00 0.00 2.90
2645 3932 3.558931 ACGGAGATGAACAATATGCCA 57.441 42.857 0.00 0.00 0.00 4.92
2646 3933 4.576463 AGAAACGGAGATGAACAATATGCC 59.424 41.667 0.00 0.00 0.00 4.40
2727 4018 0.639392 AGGATGTAGAGGCCCTCAGT 59.361 55.000 14.46 0.00 32.06 3.41
2729 4020 0.937441 AGAGGATGTAGAGGCCCTCA 59.063 55.000 14.46 0.00 45.73 3.86
2801 4092 3.958860 GCCTGGCTGTGGACCACT 61.959 66.667 24.81 0.00 35.11 4.00
2849 4140 5.355910 GTCAGTTTCTTCAACCCAACTACAA 59.644 40.000 0.00 0.00 35.77 2.41
2897 4188 1.275856 GCCTGCCATATCTCTCAGGAG 59.724 57.143 10.95 0.00 46.80 3.69
2900 4191 2.104451 ACTTGCCTGCCATATCTCTCAG 59.896 50.000 0.00 0.00 0.00 3.35
2917 4208 1.142748 CCGAGCTCTAGGGCACTTG 59.857 63.158 18.89 0.13 34.17 3.16
3042 4336 9.683069 AATCTGTCAGTTAAATAAAAAGCTGTG 57.317 29.630 0.00 0.00 0.00 3.66
3070 4364 2.089201 TGCCTCGTCGATCAAGTTAGA 58.911 47.619 0.00 0.00 0.00 2.10
3077 4371 1.393603 ATTCTCTGCCTCGTCGATCA 58.606 50.000 0.00 0.00 0.00 2.92
3081 4375 1.996292 TTGAATTCTCTGCCTCGTCG 58.004 50.000 7.05 0.00 0.00 5.12
3091 4385 3.788937 CACATTGGCCCATTGAATTCTC 58.211 45.455 12.39 0.00 0.00 2.87
3108 4402 1.802636 CGGCCGAAAATCAGCACAT 59.197 52.632 24.07 0.00 0.00 3.21
3138 4432 1.335324 GGCTAATGTGAATGCCATCGC 60.335 52.381 0.00 0.00 44.34 4.58
3144 4438 3.733077 GCTTGAGTGGCTAATGTGAATGC 60.733 47.826 0.00 0.00 0.00 3.56
3195 4501 9.807649 GTGCATCAGGAATACTTCATAATTTTT 57.192 29.630 0.00 0.00 0.00 1.94
3201 4507 7.611467 ACTTTTGTGCATCAGGAATACTTCATA 59.389 33.333 0.00 0.00 0.00 2.15
3205 4511 6.655078 AACTTTTGTGCATCAGGAATACTT 57.345 33.333 0.00 0.00 0.00 2.24
3207 4513 6.363357 GTGAAACTTTTGTGCATCAGGAATAC 59.637 38.462 0.00 0.00 0.00 1.89
3224 4573 2.907042 TGTTTTGTTGGGGGTGAAACTT 59.093 40.909 0.00 0.00 36.74 2.66
3239 4588 4.514441 TGCAGCCACCATAATTTTGTTTTG 59.486 37.500 0.00 0.00 0.00 2.44
3407 4757 7.888250 AGTTTTGATCCATATTTTCTCCTCC 57.112 36.000 0.00 0.00 0.00 4.30
3470 4823 2.741985 TGGTGAAGCGGTCGCATG 60.742 61.111 17.71 0.00 44.88 4.06
3546 4899 5.116180 TCGTATCCGCAAGAATTTTCAGAT 58.884 37.500 0.00 0.00 43.02 2.90
3559 4912 0.107897 AGGCACAAATCGTATCCGCA 60.108 50.000 0.00 0.00 0.00 5.69
3562 4915 1.940613 GGACAGGCACAAATCGTATCC 59.059 52.381 0.00 0.00 0.00 2.59
3572 4925 0.038166 GGAATTGGAGGACAGGCACA 59.962 55.000 0.00 0.00 0.00 4.57
3586 4939 4.156008 GTGGTTATCAGAACAAGCGGAATT 59.844 41.667 0.00 0.00 0.00 2.17
3587 4940 3.689649 GTGGTTATCAGAACAAGCGGAAT 59.310 43.478 0.00 0.00 0.00 3.01
3588 4941 3.071479 GTGGTTATCAGAACAAGCGGAA 58.929 45.455 0.00 0.00 0.00 4.30
3589 4942 2.614481 GGTGGTTATCAGAACAAGCGGA 60.614 50.000 0.00 0.00 0.00 5.54
3590 4943 1.737793 GGTGGTTATCAGAACAAGCGG 59.262 52.381 0.00 0.00 0.00 5.52
3591 4944 2.699954 AGGTGGTTATCAGAACAAGCG 58.300 47.619 0.00 0.00 0.00 4.68
3600 4953 5.248248 TCTCACTGAATCAAGGTGGTTATCA 59.752 40.000 3.33 0.00 0.00 2.15
3602 4955 5.738909 CTCTCACTGAATCAAGGTGGTTAT 58.261 41.667 3.33 0.00 0.00 1.89
3618 4971 2.701780 CGGCCTGTACGCTCTCACT 61.702 63.158 0.00 0.00 0.00 3.41
3624 4977 4.135153 CTGCTCGGCCTGTACGCT 62.135 66.667 0.00 0.00 0.00 5.07
3752 5105 0.321387 GAACTGGAGGGACCGTTTCC 60.321 60.000 2.23 2.23 45.00 3.13
3756 5109 2.584391 GCAGAACTGGAGGGACCGT 61.584 63.158 3.99 0.00 42.61 4.83
3759 5112 0.108585 TGTTGCAGAACTGGAGGGAC 59.891 55.000 3.99 0.00 32.79 4.46


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

AutoCloner maintained by Alex Coulton.