Multiple sequence alignment - TraesCS6B01G138400

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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 TraesCS6B01G138400 chr6B 100.000 5092 0 0 1 5092 135858544 135863635 0.000000e+00 9404.0
1 TraesCS6B01G138400 chr6A 92.598 5134 236 78 16 5090 79267277 79272325 0.000000e+00 7243.0
2 TraesCS6B01G138400 chr6A 88.165 1428 102 35 3692 5090 79341052 79342441 0.000000e+00 1639.0
3 TraesCS6B01G138400 chr6A 93.023 43 2 1 3672 3713 79332422 79332464 1.530000e-05 62.1
4 TraesCS6B01G138400 chr6D 92.388 2102 89 34 202 2271 62114074 62116136 0.000000e+00 2929.0
5 TraesCS6B01G138400 chr6D 93.643 1809 66 10 3288 5090 62117242 62119007 0.000000e+00 2658.0
6 TraesCS6B01G138400 chr6D 96.548 985 32 2 2269 3253 62116259 62117241 0.000000e+00 1629.0
7 TraesCS6B01G138400 chr6D 84.882 807 46 33 4298 5092 62192514 62193256 0.000000e+00 745.0
8 TraesCS6B01G138400 chr6D 96.241 133 5 0 12 144 62113555 62113687 8.580000e-53 219.0
9 TraesCS6B01G138400 chr6D 87.006 177 12 5 4050 4217 62145509 62145683 6.730000e-44 189.0
10 TraesCS6B01G138400 chr6D 87.919 149 12 5 3826 3972 62138052 62138196 2.440000e-38 171.0
11 TraesCS6B01G138400 chr6D 97.561 41 1 0 3800 3840 115546343 115546303 2.540000e-08 71.3
12 TraesCS6B01G138400 chr6D 100.000 31 0 0 4436 4466 62192668 62192638 1.980000e-04 58.4


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 TraesCS6B01G138400 chr6B 135858544 135863635 5091 False 9404.00 9404 100.000 1 5092 1 chr6B.!!$F1 5091
1 TraesCS6B01G138400 chr6A 79267277 79272325 5048 False 7243.00 7243 92.598 16 5090 1 chr6A.!!$F1 5074
2 TraesCS6B01G138400 chr6A 79341052 79342441 1389 False 1639.00 1639 88.165 3692 5090 1 chr6A.!!$F3 1398
3 TraesCS6B01G138400 chr6D 62113555 62119007 5452 False 1858.75 2929 94.705 12 5090 4 chr6D.!!$F4 5078
4 TraesCS6B01G138400 chr6D 62192514 62193256 742 False 745.00 745 84.882 4298 5092 1 chr6D.!!$F3 794

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
562 924 0.043485 GGAGGGAGGAGGAAGAAGGT 59.957 60.0 0.0 0.0 0.0 3.50 F
565 927 0.252742 GGGAGGAGGAAGAAGGTGGA 60.253 60.0 0.0 0.0 0.0 4.02 F
1463 1845 0.036022 GGGCAGAGTGTCAAGAGCTT 59.964 55.0 0.0 0.0 0.0 3.74 F
2615 3129 2.040412 CCCAGGAGGCTTCAAAGTTACT 59.960 50.0 0.0 0.0 0.0 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1363 1745 2.387476 CTGCTCACTGCCACCACAGA 62.387 60.00 0.0 0.0 40.25 3.41 R
2499 3013 3.321396 TGCCTTGCATCTGTTCAAATCAA 59.679 39.13 0.0 0.0 31.71 2.57 R
3102 3618 2.028112 TCAGGTCCTCGGATCACAAAAG 60.028 50.00 0.0 0.0 0.00 2.27 R
4468 5022 0.459237 CGTGGTCACTGGATCTCTGC 60.459 60.00 0.0 0.0 0.00 4.26 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
36 37 4.101077 CCCTCCCTCCCTCAGGCT 62.101 72.222 0.00 0.00 41.80 4.58
45 46 1.920325 CCCTCAGGCTTGTCCCTCA 60.920 63.158 0.00 0.00 31.24 3.86
184 186 1.071314 TTTTCTCTGGGCTTGGGGGA 61.071 55.000 0.00 0.00 0.00 4.81
186 188 3.415087 CTCTGGGCTTGGGGGAGG 61.415 72.222 0.00 0.00 0.00 4.30
303 634 1.414550 CCGTGATTGGGTTTGGGTTTT 59.585 47.619 0.00 0.00 0.00 2.43
311 642 4.910458 TGGGTTTGGGTTTTCTTTCAAA 57.090 36.364 0.00 0.00 0.00 2.69
409 740 1.140804 GCAGAGCTTCTCTCCGGTC 59.859 63.158 0.00 0.00 42.90 4.79
415 746 1.066587 CTTCTCTCCGGTCGATGGC 59.933 63.158 0.00 0.00 0.00 4.40
417 748 4.271816 CTCTCCGGTCGATGGCGG 62.272 72.222 0.00 0.00 38.28 6.13
482 825 2.031012 CGTGGTTGCTCTCTGGCA 59.969 61.111 0.00 0.00 40.74 4.92
483 826 1.376424 CGTGGTTGCTCTCTGGCAT 60.376 57.895 0.00 0.00 42.09 4.40
522 884 0.465278 GGAGGGAGGAATTCTGCTGC 60.465 60.000 5.23 0.04 33.98 5.25
561 923 0.692756 GGGAGGGAGGAGGAAGAAGG 60.693 65.000 0.00 0.00 0.00 3.46
562 924 0.043485 GGAGGGAGGAGGAAGAAGGT 59.957 60.000 0.00 0.00 0.00 3.50
563 925 1.199615 GAGGGAGGAGGAAGAAGGTG 58.800 60.000 0.00 0.00 0.00 4.00
564 926 0.252927 AGGGAGGAGGAAGAAGGTGG 60.253 60.000 0.00 0.00 0.00 4.61
565 927 0.252742 GGGAGGAGGAAGAAGGTGGA 60.253 60.000 0.00 0.00 0.00 4.02
632 1004 3.976793 TTTTTGTCTCTCTTGCTGCTG 57.023 42.857 0.00 0.00 0.00 4.41
633 1005 1.233019 TTTGTCTCTCTTGCTGCTGC 58.767 50.000 8.89 8.89 40.20 5.25
634 1006 0.395686 TTGTCTCTCTTGCTGCTGCT 59.604 50.000 17.00 0.00 40.48 4.24
677 1049 5.823209 TCATGATGTTCTTGCCATAACTG 57.177 39.130 0.00 0.00 0.00 3.16
702 1077 4.447290 TGACGATTCCACTTGTGAAGAAA 58.553 39.130 1.89 0.00 0.00 2.52
703 1078 4.878971 TGACGATTCCACTTGTGAAGAAAA 59.121 37.500 1.89 0.00 0.00 2.29
726 1101 5.013547 AGTACTCTGCATACTCTCTGTTGT 58.986 41.667 0.00 0.00 0.00 3.32
727 1102 4.881019 ACTCTGCATACTCTCTGTTGTT 57.119 40.909 0.00 0.00 0.00 2.83
728 1103 4.564041 ACTCTGCATACTCTCTGTTGTTG 58.436 43.478 0.00 0.00 0.00 3.33
754 1129 1.207593 GCACACGGCATTCACTCAC 59.792 57.895 0.00 0.00 43.97 3.51
769 1144 7.659186 CATTCACTCACTCATCTGATGATAGA 58.341 38.462 19.84 17.80 38.85 1.98
771 1146 8.930846 TTCACTCACTCATCTGATGATAGATA 57.069 34.615 19.84 9.18 38.85 1.98
772 1147 8.334263 TCACTCACTCATCTGATGATAGATAC 57.666 38.462 19.84 0.00 38.85 2.24
773 1148 8.162746 TCACTCACTCATCTGATGATAGATACT 58.837 37.037 19.84 5.21 38.85 2.12
774 1149 9.447157 CACTCACTCATCTGATGATAGATACTA 57.553 37.037 19.84 0.00 38.85 1.82
806 1181 1.737363 GCGTACTTCTCTCTTGCCCTG 60.737 57.143 0.00 0.00 0.00 4.45
924 1299 1.694150 CTCCTCACCTCTTGTGTTCCA 59.306 52.381 0.00 0.00 45.61 3.53
943 1319 1.788308 CATTTTGTTGCTTCAGTGGCG 59.212 47.619 0.00 0.00 0.00 5.69
997 1373 1.657556 CCGGAGATCTTCGGCTCTC 59.342 63.158 29.12 0.00 39.78 3.20
1101 1477 2.046892 AAGAACGCGATGCAGGCT 60.047 55.556 15.93 0.00 0.00 4.58
1113 1489 2.048444 TGCAGGCTGATCCAAGATTC 57.952 50.000 20.86 0.00 37.29 2.52
1118 1494 1.502163 GCTGATCCAAGATTCGCCGG 61.502 60.000 0.00 0.00 0.00 6.13
1167 1549 1.377725 CCATTCTTCTGGCGGCAGT 60.378 57.895 34.57 15.67 0.00 4.40
1226 1608 0.904865 TCCAAGAGCTCCATGTCCGT 60.905 55.000 10.93 0.00 0.00 4.69
1296 1678 0.310854 CGCCTGTCAAAAACCCTGAC 59.689 55.000 0.00 0.00 42.94 3.51
1311 1693 1.581934 CTGACAGGAACACGAGCAAA 58.418 50.000 0.00 0.00 0.00 3.68
1315 1697 1.404035 ACAGGAACACGAGCAAAAACC 59.596 47.619 0.00 0.00 0.00 3.27
1317 1699 1.029681 GGAACACGAGCAAAAACCCT 58.970 50.000 0.00 0.00 0.00 4.34
1321 1703 1.308998 CACGAGCAAAAACCCTGAGT 58.691 50.000 0.00 0.00 0.00 3.41
1335 1717 3.146847 CCCTGAGTTGGGTAAAGTTGAC 58.853 50.000 0.00 0.00 42.25 3.18
1344 1726 2.546789 GGGTAAAGTTGACAACACGAGG 59.453 50.000 20.08 0.00 0.00 4.63
1463 1845 0.036022 GGGCAGAGTGTCAAGAGCTT 59.964 55.000 0.00 0.00 0.00 3.74
1614 1996 4.696479 AGATTACCATAGGAAGCACAGG 57.304 45.455 0.00 0.00 0.00 4.00
1987 2372 9.469807 TTTTGTGAAATTCATGCGTTAAGTAAT 57.530 25.926 0.00 0.00 0.00 1.89
2121 2510 6.158598 TGTTGATTCAAATTTCCTTGCTAGC 58.841 36.000 8.10 8.10 0.00 3.42
2126 2515 5.835113 TCAAATTTCCTTGCTAGCCATAC 57.165 39.130 13.29 0.00 0.00 2.39
2165 2554 7.630987 GTCACAATTTTCGTAACTGTGATATCG 59.369 37.037 16.74 0.00 45.76 2.92
2272 2661 8.637986 TGGGAATTAATGGATAACAATTGTAGC 58.362 33.333 12.39 4.19 0.00 3.58
2400 2914 9.958180 TCAATGGTATAGTGATTCAGAAAAGAA 57.042 29.630 0.00 0.00 0.00 2.52
2468 2982 7.831193 AGTTATGGAAGCAGTTACATTTCTGAT 59.169 33.333 0.00 0.00 38.31 2.90
2615 3129 2.040412 CCCAGGAGGCTTCAAAGTTACT 59.960 50.000 0.00 0.00 0.00 2.24
2794 3308 3.271055 TCAAGGTATTTCCCCGCTTAC 57.729 47.619 0.00 0.00 36.75 2.34
2812 3326 4.557301 GCTTACGAATGAATTTCCAAACGG 59.443 41.667 0.00 0.00 0.00 4.44
2831 3345 2.294979 GGAACGGTGAAAAAGTGACCT 58.705 47.619 0.00 0.00 0.00 3.85
3088 3604 6.039717 AGTTCAGTTTGCAACATGTGACTATT 59.960 34.615 0.00 0.00 0.00 1.73
3254 3770 4.583489 TCCTCGTAGATGATTGTACTTCCC 59.417 45.833 0.00 0.00 33.89 3.97
3347 3868 9.645059 CTCTTAGTACTGATTTGATTCTGACAA 57.355 33.333 5.39 0.00 0.00 3.18
3723 4245 5.990120 AAGAATCTTTTCCTTGGTGATGG 57.010 39.130 0.00 0.00 31.84 3.51
3725 4247 5.644188 AGAATCTTTTCCTTGGTGATGGAA 58.356 37.500 0.00 0.00 40.21 3.53
3726 4248 5.478332 AGAATCTTTTCCTTGGTGATGGAAC 59.522 40.000 0.00 0.00 41.47 3.62
3727 4249 6.920448 AGAATCTTTTCCTTGGTGATGGAACA 60.920 38.462 0.00 0.00 41.47 3.18
4135 4672 1.785881 GTGATTTTGTCACGCGATCG 58.214 50.000 15.93 11.69 46.99 3.69
4490 5044 2.509336 GATCCAGTGACCACGGCG 60.509 66.667 4.80 4.80 36.20 6.46
4543 5097 1.216977 CGCCGGGTACTGTTCATGA 59.783 57.895 2.18 0.00 0.00 3.07
4556 5112 2.365941 TGTTCATGAACTGTCGTGGGTA 59.634 45.455 32.57 11.19 40.63 3.69
4576 5132 0.039256 CCGTTACCGTTCCTGTCGAA 60.039 55.000 0.00 0.00 0.00 3.71
4594 5150 5.347635 TGTCGAATCTGTCCGTTGATTTTAG 59.652 40.000 0.00 0.00 33.60 1.85
4667 5236 4.833478 AGGTCTAAAGACATGAGCACAT 57.167 40.909 11.98 0.00 46.47 3.21
4682 5251 2.009042 GCACATGAGACTGGCAGGTAC 61.009 57.143 20.34 9.78 0.00 3.34
4779 5349 6.690194 AGCATCTTGGTATCATCTTTTCAC 57.310 37.500 0.00 0.00 0.00 3.18
4788 5358 6.153851 TGGTATCATCTTTTCACGGACTTCTA 59.846 38.462 0.00 0.00 0.00 2.10
4834 5404 7.420800 CAACCATTTATTTGGACTCTGATAGC 58.579 38.462 0.00 0.00 39.25 2.97
4943 5513 4.607293 TTCAGTTGCAGATAGTGTGACT 57.393 40.909 0.00 0.00 0.00 3.41
4964 5534 2.358003 ACTGCTGCGCTTCTGACC 60.358 61.111 9.73 0.00 0.00 4.02
4971 5541 1.880340 GCGCTTCTGACCTGGATCG 60.880 63.158 0.00 0.00 0.00 3.69
4997 5567 2.592861 GCATCGCCATGTCCCTCC 60.593 66.667 0.00 0.00 31.86 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.367107 GGGAGGGAGGGGGAGAAC 60.367 72.222 0.00 0.00 0.00 3.01
1 2 2.543637 AGGGAGGGAGGGGGAGAA 60.544 66.667 0.00 0.00 0.00 2.87
2 3 3.036959 GAGGGAGGGAGGGGGAGA 61.037 72.222 0.00 0.00 0.00 3.71
3 4 4.179599 GGAGGGAGGGAGGGGGAG 62.180 77.778 0.00 0.00 0.00 4.30
6 7 4.179599 GAGGGAGGGAGGGAGGGG 62.180 77.778 0.00 0.00 0.00 4.79
7 8 4.179599 GGAGGGAGGGAGGGAGGG 62.180 77.778 0.00 0.00 0.00 4.30
8 9 4.179599 GGGAGGGAGGGAGGGAGG 62.180 77.778 0.00 0.00 0.00 4.30
9 10 3.039526 AGGGAGGGAGGGAGGGAG 61.040 72.222 0.00 0.00 0.00 4.30
10 11 3.036959 GAGGGAGGGAGGGAGGGA 61.037 72.222 0.00 0.00 0.00 4.20
36 37 0.920763 ATGGGATGGCTGAGGGACAA 60.921 55.000 0.00 0.00 36.04 3.18
45 46 1.622499 CCTTTGGGATGGGATGGCT 59.378 57.895 0.00 0.00 33.58 4.75
186 188 2.994643 CTTTCACCACCACCACCCCC 62.995 65.000 0.00 0.00 0.00 5.40
188 190 0.112412 ATCTTTCACCACCACCACCC 59.888 55.000 0.00 0.00 0.00 4.61
189 191 1.073923 AGATCTTTCACCACCACCACC 59.926 52.381 0.00 0.00 0.00 4.61
191 193 2.441375 TCAAGATCTTTCACCACCACCA 59.559 45.455 4.86 0.00 0.00 4.17
192 194 3.140325 TCAAGATCTTTCACCACCACC 57.860 47.619 4.86 0.00 0.00 4.61
194 196 4.081406 CCAATCAAGATCTTTCACCACCA 58.919 43.478 4.86 0.00 0.00 4.17
195 197 3.445096 CCCAATCAAGATCTTTCACCACC 59.555 47.826 4.86 0.00 0.00 4.61
311 642 9.546428 CGATGAGATGAGATCTAGTATATCACT 57.454 37.037 11.39 4.63 40.38 3.41
501 844 1.140652 CAGCAGAATTCCTCCCTCCTC 59.859 57.143 0.65 0.00 0.00 3.71
522 884 3.181466 CCCCAAGAAAACAACAGGAAAGG 60.181 47.826 0.00 0.00 0.00 3.11
561 923 4.499696 CCAAAGATCAAGTTGTGGTTCCAC 60.500 45.833 14.31 14.31 37.46 4.02
562 924 3.636300 CCAAAGATCAAGTTGTGGTTCCA 59.364 43.478 2.11 0.00 0.00 3.53
563 925 3.636764 ACCAAAGATCAAGTTGTGGTTCC 59.363 43.478 8.83 0.00 35.89 3.62
564 926 4.261614 GGACCAAAGATCAAGTTGTGGTTC 60.262 45.833 14.36 9.99 39.44 3.62
565 927 3.636764 GGACCAAAGATCAAGTTGTGGTT 59.363 43.478 14.36 1.84 39.44 3.67
632 1004 2.669781 TCATCATTCCATTTCCCCAGC 58.330 47.619 0.00 0.00 0.00 4.85
633 1005 5.364446 TGAATTCATCATTCCATTTCCCCAG 59.636 40.000 3.38 0.00 40.80 4.45
634 1006 5.278873 TGAATTCATCATTCCATTTCCCCA 58.721 37.500 3.38 0.00 40.80 4.96
677 1049 3.026630 TCACAAGTGGAATCGTCAGTC 57.973 47.619 0.00 0.00 0.00 3.51
702 1077 5.478679 ACAACAGAGAGTATGCAGAGTACTT 59.521 40.000 0.00 0.00 32.77 2.24
703 1078 5.013547 ACAACAGAGAGTATGCAGAGTACT 58.986 41.667 0.00 0.00 35.20 2.73
754 1129 9.612066 TGCTAGTAGTATCTATCATCAGATGAG 57.388 37.037 18.13 6.31 43.53 2.90
787 1162 1.819288 TCAGGGCAAGAGAGAAGTACG 59.181 52.381 0.00 0.00 0.00 3.67
792 1167 0.979665 CCACTCAGGGCAAGAGAGAA 59.020 55.000 11.70 0.00 36.91 2.87
806 1181 3.866651 AGAACACATATGAGCACCACTC 58.133 45.455 10.38 0.00 46.45 3.51
869 1244 7.641760 CAAGCTTGCAAATAAGGACAATTTTT 58.358 30.769 14.65 0.00 0.00 1.94
870 1245 7.193377 CAAGCTTGCAAATAAGGACAATTTT 57.807 32.000 14.65 0.00 0.00 1.82
871 1246 6.790285 CAAGCTTGCAAATAAGGACAATTT 57.210 33.333 14.65 0.00 0.00 1.82
924 1299 1.269726 CCGCCACTGAAGCAACAAAAT 60.270 47.619 0.00 0.00 0.00 1.82
997 1373 3.814268 CCCAAACGAGCCCATGCG 61.814 66.667 0.00 0.00 44.33 4.73
1083 1459 2.103042 AGCCTGCATCGCGTTCTTC 61.103 57.895 5.77 0.00 0.00 2.87
1101 1477 1.523711 GCCGGCGAATCTTGGATCA 60.524 57.895 12.58 0.00 0.00 2.92
1118 1494 3.876198 CCATGGTAGCCGCAACGC 61.876 66.667 2.57 0.00 0.00 4.84
1167 1549 1.130054 AGCTGGAAGAGAAGGTGCCA 61.130 55.000 0.00 0.00 34.07 4.92
1254 1636 4.682860 GCAAATCTGAACTCCATGTTGTTG 59.317 41.667 5.47 0.00 39.30 3.33
1296 1678 1.269051 GGGTTTTTGCTCGTGTTCCTG 60.269 52.381 0.00 0.00 0.00 3.86
1315 1697 3.815809 TGTCAACTTTACCCAACTCAGG 58.184 45.455 0.00 0.00 0.00 3.86
1317 1699 4.396790 GTGTTGTCAACTTTACCCAACTCA 59.603 41.667 16.45 0.00 37.04 3.41
1321 1703 3.607741 TCGTGTTGTCAACTTTACCCAA 58.392 40.909 16.45 0.00 0.00 4.12
1335 1717 2.069273 GATGTTCCAGTCCTCGTGTTG 58.931 52.381 0.00 0.00 0.00 3.33
1363 1745 2.387476 CTGCTCACTGCCACCACAGA 62.387 60.000 0.00 0.00 40.25 3.41
1603 1985 4.320844 ACAGACCCTGTGCTTCCT 57.679 55.556 0.00 0.00 43.63 3.36
1942 2327 6.646240 CACAAAACATAAGGCAAATACAAGCT 59.354 34.615 0.00 0.00 0.00 3.74
2121 2510 9.912634 AATTGTGACTAATTTTTGACAGTATGG 57.087 29.630 0.00 0.00 43.62 2.74
2126 2515 9.019764 ACGAAAATTGTGACTAATTTTTGACAG 57.980 29.630 23.98 14.44 45.61 3.51
2225 2614 6.547141 TCCCATCAACAGGAATCATCATAAAC 59.453 38.462 0.00 0.00 0.00 2.01
2271 2660 6.612306 CACAACTCCTTAAAATAAGGACAGC 58.388 40.000 13.52 0.00 41.27 4.40
2272 2661 6.349363 GGCACAACTCCTTAAAATAAGGACAG 60.349 42.308 13.52 8.70 41.27 3.51
2499 3013 3.321396 TGCCTTGCATCTGTTCAAATCAA 59.679 39.130 0.00 0.00 31.71 2.57
2528 3042 5.193728 AGGAGCCTGACCAAATAGGAAATTA 59.806 40.000 0.00 0.00 41.22 1.40
2615 3129 2.435372 ACCAAGGAGCTTTTGTGTGA 57.565 45.000 10.02 0.00 0.00 3.58
2812 3326 5.684550 ATAAGGTCACTTTTTCACCGTTC 57.315 39.130 0.00 0.00 38.14 3.95
3088 3604 5.042463 TCACAAAAGTAAGGACCATGTGA 57.958 39.130 0.00 0.00 39.05 3.58
3102 3618 2.028112 TCAGGTCCTCGGATCACAAAAG 60.028 50.000 0.00 0.00 0.00 2.27
3201 3717 5.845985 TCAGTGAAAAGAGCGTGATTAAG 57.154 39.130 0.00 0.00 0.00 1.85
3254 3770 2.093306 TTGTGGATAACTGCAGGTCG 57.907 50.000 19.93 0.00 0.00 4.79
3295 3811 2.234908 GGCTGACAGCTCTTCTTAAGGA 59.765 50.000 25.92 0.00 41.99 3.36
3502 4023 3.382227 CCTGCATGTGCCTCATTATCAAA 59.618 43.478 2.07 0.00 41.18 2.69
3660 4182 5.634020 ACTTAAGAATATAATCGCCGCAGAC 59.366 40.000 10.09 0.00 0.00 3.51
3934 4457 2.796193 CCCGTCGATGATCCCAGCA 61.796 63.158 6.11 0.00 0.00 4.41
3983 4506 4.444838 TGGAACCGCGGGTGATCG 62.445 66.667 31.76 1.69 35.34 3.69
4244 4782 6.334202 GTCGATTTGATCCTAAGTCTGTTCT 58.666 40.000 0.00 0.00 0.00 3.01
4427 4968 4.424566 CAATGGCTGGCACCGTGC 62.425 66.667 15.50 15.50 44.08 5.34
4428 4969 4.424566 GCAATGGCTGGCACCGTG 62.425 66.667 5.88 6.54 36.96 4.94
4429 4970 4.972733 TGCAATGGCTGGCACCGT 62.973 61.111 5.88 0.00 41.91 4.83
4430 4971 3.636313 CTTGCAATGGCTGGCACCG 62.636 63.158 5.88 1.30 40.23 4.94
4468 5022 0.459237 CGTGGTCACTGGATCTCTGC 60.459 60.000 0.00 0.00 0.00 4.26
4479 5033 1.632046 CCATGTTACGCCGTGGTCAC 61.632 60.000 0.00 0.00 36.85 3.67
4490 5044 2.045340 AGTGCCCGGCCATGTTAC 60.045 61.111 7.03 0.00 0.00 2.50
4501 5055 3.364441 TGACAATGCGCAGTGCCC 61.364 61.111 35.07 26.47 45.60 5.36
4509 5063 2.695055 CGCTACGGTGACAATGCG 59.305 61.111 0.00 0.00 35.93 4.73
4532 5086 3.554129 CCCACGACAGTTCATGAACAGTA 60.554 47.826 33.92 0.17 40.40 2.74
4543 5097 1.000274 GTAACGGTACCCACGACAGTT 60.000 52.381 6.25 5.35 38.49 3.16
4576 5132 5.050490 CCGATCTAAAATCAACGGACAGAT 58.950 41.667 0.00 0.00 42.40 2.90
4667 5236 2.646175 GCCGTACCTGCCAGTCTCA 61.646 63.158 0.00 0.00 0.00 3.27
4682 5251 2.031012 TGCAGTCTTGACTGGCCG 59.969 61.111 25.99 7.08 38.14 6.13
4739 5308 9.669353 CCAAGATGCTTAATTATGTGTATGTTC 57.331 33.333 0.84 0.00 0.00 3.18
4812 5382 5.760253 ACGCTATCAGAGTCCAAATAAATGG 59.240 40.000 0.00 0.00 42.12 3.16
4834 5404 9.632969 GAAATGTACTTGCAGTATTATTGTACG 57.367 33.333 0.00 0.00 32.65 3.67
4857 5427 7.998964 AGAAAAATGGTAGACAGAGAAAGGAAA 59.001 33.333 0.00 0.00 0.00 3.13
4900 5470 6.759356 TGAAAATCCATACATACTGGTACGTG 59.241 38.462 0.00 0.00 35.19 4.49
4964 5534 2.030262 GCCTAGCTGCCGATCCAG 59.970 66.667 0.00 0.00 35.93 3.86
5002 5572 2.046507 GTGTCCTGGGCAGCAGAG 60.047 66.667 0.00 0.00 0.00 3.35


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

AutoCloner maintained by Alex Coulton.