Multiple sequence alignment - TraesCS7D01G276700

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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 TraesCS7D01G276700 chr7D 100.000 2746 0 0 1 2746 265006033 265003288 0.000000e+00 5072.0
1 TraesCS7D01G276700 chr7B 93.175 1392 51 11 688 2062 245212360 245210996 0.000000e+00 2004.0
2 TraesCS7D01G276700 chr7B 94.309 492 16 5 185 665 245214328 245213838 0.000000e+00 743.0
3 TraesCS7D01G276700 chr7B 93.249 474 21 3 2268 2741 245210793 245210331 0.000000e+00 688.0
4 TraesCS7D01G276700 chr7B 92.079 202 8 3 1 201 245216688 245216494 7.490000e-71 278.0
5 TraesCS7D01G276700 chr7B 88.889 153 14 3 2118 2268 245210989 245210838 4.670000e-43 185.0
6 TraesCS7D01G276700 chr7B 77.114 201 35 7 1822 2014 38412816 38412619 3.740000e-19 106.0
7 TraesCS7D01G276700 chr7A 92.189 1101 42 15 804 1898 289161401 289160339 0.000000e+00 1517.0
8 TraesCS7D01G276700 chr7A 92.017 476 24 6 2268 2741 289159318 289158855 0.000000e+00 656.0
9 TraesCS7D01G276700 chr7A 84.444 270 22 10 535 784 289161942 289161673 5.870000e-62 248.0
10 TraesCS7D01G276700 chr7A 86.207 174 13 5 1904 2077 289159661 289159499 7.810000e-41 178.0
11 TraesCS7D01G276700 chr5D 89.431 123 12 1 1209 1331 445055995 445055874 1.320000e-33 154.0
12 TraesCS7D01G276700 chr5D 91.509 106 9 0 1209 1314 445062755 445062650 2.200000e-31 147.0
13 TraesCS7D01G276700 chr5D 78.862 123 18 6 1927 2048 551764218 551764103 2.930000e-10 76.8
14 TraesCS7D01G276700 chr5B 91.509 106 9 0 1209 1314 542295575 542295470 2.200000e-31 147.0
15 TraesCS7D01G276700 chr5B 87.805 123 14 1 1209 1331 542320025 542319904 2.850000e-30 143.0
16 TraesCS7D01G276700 chr5A 90.385 104 10 0 1211 1314 562100869 562100766 1.330000e-28 137.0
17 TraesCS7D01G276700 chr6B 78.469 209 32 10 1821 2020 716583884 716584088 1.030000e-24 124.0
18 TraesCS7D01G276700 chr3B 86.726 113 13 2 1200 1312 794396438 794396328 1.030000e-24 124.0
19 TraesCS7D01G276700 chr3B 74.872 195 41 2 1826 2013 762994048 762994241 6.300000e-12 82.4
20 TraesCS7D01G276700 chr1B 78.109 201 36 4 1821 2014 39989667 39989468 1.340000e-23 121.0
21 TraesCS7D01G276700 chr3D 85.841 113 14 2 1200 1312 592761225 592761335 4.800000e-23 119.0
22 TraesCS7D01G276700 chr6A 78.191 188 28 10 1840 2017 197038061 197037877 1.040000e-19 108.0
23 TraesCS7D01G276700 chr6D 89.189 74 7 1 2196 2268 254240329 254240402 1.050000e-14 91.6
24 TraesCS7D01G276700 chr6D 91.803 61 4 1 1956 2016 50690062 50690003 1.750000e-12 84.2


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 TraesCS7D01G276700 chr7D 265003288 265006033 2745 True 5072.00 5072 100.00000 1 2746 1 chr7D.!!$R1 2745
1 TraesCS7D01G276700 chr7B 245210331 245216688 6357 True 779.60 2004 92.34020 1 2741 5 chr7B.!!$R2 2740
2 TraesCS7D01G276700 chr7A 289158855 289161942 3087 True 649.75 1517 88.71425 535 2741 4 chr7A.!!$R1 2206

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
970 4873 0.039256 GCCTCTGATCTAGCTGCTCG 60.039 60.0 4.91 0.0 0.0 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1819 5747 0.039256 GGAGCAACGCAAAAGCATCA 60.039 50.0 0.0 0.0 0.0 3.07 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
41 42 2.182842 GCCAGCTCACCAATAGCCG 61.183 63.158 0.00 0.00 41.02 5.52
54 55 3.480470 CAATAGCCGATTGAAGGATGGT 58.520 45.455 3.35 0.00 46.94 3.55
133 134 4.335647 ACTCAGCTGGGTTGGGCG 62.336 66.667 15.25 0.00 0.00 6.13
140 141 0.891904 GCTGGGTTGGGCGAGTTTTA 60.892 55.000 0.00 0.00 0.00 1.52
141 142 1.834188 CTGGGTTGGGCGAGTTTTAT 58.166 50.000 0.00 0.00 0.00 1.40
142 143 1.743394 CTGGGTTGGGCGAGTTTTATC 59.257 52.381 0.00 0.00 0.00 1.75
145 146 2.823747 GGGTTGGGCGAGTTTTATCTTT 59.176 45.455 0.00 0.00 0.00 2.52
146 147 3.257375 GGGTTGGGCGAGTTTTATCTTTT 59.743 43.478 0.00 0.00 0.00 2.27
147 148 4.262292 GGGTTGGGCGAGTTTTATCTTTTT 60.262 41.667 0.00 0.00 0.00 1.94
174 175 2.375173 ACCGAAACCCGTAGAACATC 57.625 50.000 0.00 0.00 36.31 3.06
229 2415 6.439599 AGTCTAATATGTACAAGCAGCTACG 58.560 40.000 0.00 0.00 0.00 3.51
256 2449 4.495690 AGAAAAAGGAGGAGGTCTATGC 57.504 45.455 0.00 0.00 0.00 3.14
312 2505 9.793259 TCCAGTAAAATTAACTCAAGAACTGAT 57.207 29.630 0.00 0.00 35.05 2.90
324 2517 3.278668 AGAACTGATCAATCCAGCTGG 57.721 47.619 27.87 27.87 35.14 4.85
377 2570 4.617959 TGTGTTGGAGAAGAAGTAAGTCG 58.382 43.478 0.00 0.00 0.00 4.18
433 2627 2.421424 GTGGCTGCGATCTGAAGATTTT 59.579 45.455 0.00 0.00 34.37 1.82
434 2628 3.084039 TGGCTGCGATCTGAAGATTTTT 58.916 40.909 0.00 0.00 34.37 1.94
437 2631 3.127548 GCTGCGATCTGAAGATTTTTCCA 59.872 43.478 0.00 0.00 34.37 3.53
481 2676 5.588845 TCCAACAACCCATGATTAGGATTT 58.411 37.500 0.00 0.00 0.00 2.17
493 2688 5.375773 TGATTAGGATTTCATCGCAATGGA 58.624 37.500 0.00 0.00 33.42 3.41
504 2699 4.343814 TCATCGCAATGGATGTAGGTAGAA 59.656 41.667 10.12 0.00 43.39 2.10
532 2727 7.716612 TGAGCTAAAAGAATGATCTCGTCATA 58.283 34.615 0.00 0.00 46.80 2.15
559 2754 1.579932 GCGAGTTGACGAGAGACCA 59.420 57.895 0.00 0.00 35.09 4.02
679 4307 1.289160 CTCCAAGGGTTCATCAGGGA 58.711 55.000 0.00 0.00 0.00 4.20
682 4310 0.257039 CAAGGGTTCATCAGGGAGGG 59.743 60.000 0.00 0.00 0.00 4.30
686 4336 3.797353 TTCATCAGGGAGGGGCGC 61.797 66.667 0.00 0.00 0.00 6.53
706 4356 4.596585 GTGGTGTGGGGGTGGGTG 62.597 72.222 0.00 0.00 0.00 4.61
708 4358 4.596585 GGTGTGGGGGTGGGTGTG 62.597 72.222 0.00 0.00 0.00 3.82
709 4359 4.596585 GTGTGGGGGTGGGTGTGG 62.597 72.222 0.00 0.00 0.00 4.17
745 4395 0.316841 TTGCCATCGCCTTTGGTTTC 59.683 50.000 0.00 0.00 36.57 2.78
767 4417 5.350633 TCCACAAGCATGCTAAATTAATGC 58.649 37.500 23.00 2.35 45.62 3.56
796 4695 7.490079 GTCCTTGTATTTTTGGTTCGAAACTTT 59.510 33.333 15.41 0.00 0.00 2.66
970 4873 0.039256 GCCTCTGATCTAGCTGCTCG 60.039 60.000 4.91 0.00 0.00 5.03
987 4890 2.571212 CTCGCTCACATCTCCTACTCT 58.429 52.381 0.00 0.00 0.00 3.24
1395 5298 2.363680 CTCCGACTTGATCAGCTGGTAT 59.636 50.000 15.13 0.00 0.00 2.73
1426 5329 1.407656 CGGGGATAGTGGCCAAGCTA 61.408 60.000 7.24 6.22 0.00 3.32
1435 5338 2.125106 GCCAAGCTACAGGGTCGG 60.125 66.667 0.00 0.00 0.00 4.79
1436 5339 2.125106 CCAAGCTACAGGGTCGGC 60.125 66.667 0.00 0.00 0.00 5.54
1437 5340 2.125106 CAAGCTACAGGGTCGGCC 60.125 66.667 0.00 0.00 0.00 6.13
1438 5341 3.771160 AAGCTACAGGGTCGGCCG 61.771 66.667 22.12 22.12 34.97 6.13
1666 5592 4.291540 ACGTACGTCAGTTGTTTCTGTA 57.708 40.909 16.72 0.00 36.85 2.74
1667 5593 4.037690 ACGTACGTCAGTTGTTTCTGTAC 58.962 43.478 16.72 0.00 36.85 2.90
1668 5594 3.116861 CGTACGTCAGTTGTTTCTGTACG 59.883 47.826 7.22 7.48 40.72 3.67
1669 5595 3.155093 ACGTCAGTTGTTTCTGTACGT 57.845 42.857 13.67 13.67 41.78 3.57
1673 5599 2.863740 TCAGTTGTTTCTGTACGTGCAG 59.136 45.455 25.62 25.62 36.85 4.41
1677 5603 2.746269 TGTTTCTGTACGTGCAGGTAC 58.254 47.619 32.59 32.59 42.42 3.34
1781 5707 5.352569 CCCCCTACGTACGTACATATAGAAG 59.647 48.000 23.60 12.42 0.00 2.85
1782 5708 5.163814 CCCCTACGTACGTACATATAGAAGC 60.164 48.000 23.60 0.00 0.00 3.86
1783 5709 5.163814 CCCTACGTACGTACATATAGAAGCC 60.164 48.000 23.60 0.00 0.00 4.35
1784 5710 5.409520 CCTACGTACGTACATATAGAAGCCA 59.590 44.000 23.60 0.77 0.00 4.75
1819 5747 5.277857 AGTAACCAAATCAGCTAGCGTAT 57.722 39.130 9.55 3.94 0.00 3.06
1842 5770 0.249447 GCTTTTGCGTTGCTCCCTTT 60.249 50.000 0.00 0.00 34.86 3.11
1844 5772 2.127251 CTTTTGCGTTGCTCCCTTTTC 58.873 47.619 0.00 0.00 0.00 2.29
1855 5783 2.436417 CTCCCTTTTCGAAGGCATTGA 58.564 47.619 0.00 0.00 38.63 2.57
1868 5796 2.957006 AGGCATTGATCAGATTTGCTCC 59.043 45.455 16.48 6.25 33.86 4.70
1872 5800 2.315925 TGATCAGATTTGCTCCGACC 57.684 50.000 0.00 0.00 0.00 4.79
1952 6552 7.962918 GCTTGAGCGTCATTTTCTTTATAAAGA 59.037 33.333 21.46 21.46 42.91 2.52
2005 6605 2.154462 GTGTCAAGAGATGGTTGGTGG 58.846 52.381 0.00 0.00 0.00 4.61
2006 6606 1.168714 GTCAAGAGATGGTTGGTGGC 58.831 55.000 0.00 0.00 0.00 5.01
2008 6608 1.002134 AAGAGATGGTTGGTGGCGG 60.002 57.895 0.00 0.00 0.00 6.13
2009 6609 1.488705 AAGAGATGGTTGGTGGCGGA 61.489 55.000 0.00 0.00 0.00 5.54
2010 6610 1.224592 GAGATGGTTGGTGGCGGAT 59.775 57.895 0.00 0.00 0.00 4.18
2011 6611 0.468226 GAGATGGTTGGTGGCGGATA 59.532 55.000 0.00 0.00 0.00 2.59
2012 6612 1.072331 GAGATGGTTGGTGGCGGATAT 59.928 52.381 0.00 0.00 0.00 1.63
2013 6613 1.202806 AGATGGTTGGTGGCGGATATG 60.203 52.381 0.00 0.00 0.00 1.78
2014 6614 0.178992 ATGGTTGGTGGCGGATATGG 60.179 55.000 0.00 0.00 0.00 2.74
2015 6615 1.226262 GGTTGGTGGCGGATATGGT 59.774 57.895 0.00 0.00 0.00 3.55
2016 6616 0.395173 GGTTGGTGGCGGATATGGTT 60.395 55.000 0.00 0.00 0.00 3.67
2017 6617 1.021968 GTTGGTGGCGGATATGGTTC 58.978 55.000 0.00 0.00 0.00 3.62
2018 6618 0.621082 TTGGTGGCGGATATGGTTCA 59.379 50.000 0.00 0.00 0.00 3.18
2019 6619 0.843309 TGGTGGCGGATATGGTTCAT 59.157 50.000 0.00 0.00 0.00 2.57
2020 6620 2.050918 TGGTGGCGGATATGGTTCATA 58.949 47.619 0.00 0.00 0.00 2.15
2024 6624 3.746492 GTGGCGGATATGGTTCATAGTTC 59.254 47.826 0.00 0.00 29.42 3.01
2038 6638 9.391006 TGGTTCATAGTTCATATTAGTTTGTCC 57.609 33.333 0.00 0.00 0.00 4.02
2064 6664 3.953712 TGTTGATCGCTTCAAGGTCTA 57.046 42.857 1.44 0.00 44.89 2.59
2066 6666 5.592104 TGTTGATCGCTTCAAGGTCTATA 57.408 39.130 1.44 0.00 44.89 1.31
2067 6667 6.161855 TGTTGATCGCTTCAAGGTCTATAT 57.838 37.500 1.44 0.00 44.89 0.86
2068 6668 7.284919 TGTTGATCGCTTCAAGGTCTATATA 57.715 36.000 1.44 0.00 44.89 0.86
2069 6669 7.896811 TGTTGATCGCTTCAAGGTCTATATAT 58.103 34.615 1.44 0.00 44.89 0.86
2070 6670 9.020731 TGTTGATCGCTTCAAGGTCTATATATA 57.979 33.333 1.44 0.00 44.89 0.86
2148 6748 1.133790 GCTTGGCATAGCTTTGGTCTG 59.866 52.381 6.29 0.00 38.15 3.51
2153 6753 3.714280 TGGCATAGCTTTGGTCTGGTATA 59.286 43.478 6.29 0.00 0.00 1.47
2182 6782 1.772182 TTTGCCGGTGTTTTTATGCG 58.228 45.000 1.90 0.00 0.00 4.73
2183 6783 0.669077 TTGCCGGTGTTTTTATGCGT 59.331 45.000 1.90 0.00 0.00 5.24
2184 6784 0.039978 TGCCGGTGTTTTTATGCGTG 60.040 50.000 1.90 0.00 0.00 5.34
2210 6810 3.719268 TGGAATTGGCTGTGTACATCT 57.281 42.857 0.00 0.00 0.00 2.90
2224 6824 6.986250 TGTGTACATCTTAGATATGCAGAGG 58.014 40.000 0.00 0.00 0.00 3.69
2233 6833 0.833287 ATATGCAGAGGCCGAGTGTT 59.167 50.000 0.00 0.00 40.13 3.32
2234 6834 0.108186 TATGCAGAGGCCGAGTGTTG 60.108 55.000 0.00 0.00 40.13 3.33
2238 6839 2.210013 AGAGGCCGAGTGTTGCTCA 61.210 57.895 0.00 0.00 44.33 4.26
2275 6958 7.278135 TCATCTTTATGCTTCATTCAGCTAGT 58.722 34.615 0.00 0.00 40.79 2.57
2322 7005 8.579682 ACTTGCTTCAGTTGAAATTTTATCAC 57.420 30.769 0.00 0.00 33.07 3.06
2335 7018 8.600625 TGAAATTTTATCACACACGCTAGTATC 58.399 33.333 0.00 0.00 0.00 2.24
2426 7109 3.576861 TGGTGCTGCCATACTAGATACT 58.423 45.455 0.00 0.00 43.61 2.12
2427 7110 4.736473 TGGTGCTGCCATACTAGATACTA 58.264 43.478 0.00 0.00 43.61 1.82
2437 7120 7.715686 TGCCATACTAGATACTATATCTGTCCG 59.284 40.741 8.34 0.00 0.00 4.79
2459 7142 1.656587 ACACATAGGGCAAGTCCTGA 58.343 50.000 2.89 0.00 37.75 3.86
2514 7197 0.107508 ATTCGATCACAGCCACTGGG 60.108 55.000 0.00 0.00 36.00 4.45
2516 7199 1.448540 CGATCACAGCCACTGGGTC 60.449 63.158 0.00 0.00 36.13 4.46
2678 7363 4.670199 CCATGCTTGGCTGGATGA 57.330 55.556 5.58 0.00 37.88 2.92
2679 7364 2.415825 CCATGCTTGGCTGGATGAG 58.584 57.895 5.58 2.17 37.88 2.90
2680 7365 0.395311 CCATGCTTGGCTGGATGAGT 60.395 55.000 5.58 0.00 37.88 3.41
2741 7426 2.534757 GTCCGTATAGCAACGCTCTTTC 59.465 50.000 0.00 0.00 41.51 2.62
2742 7427 1.517276 CCGTATAGCAACGCTCTTTCG 59.483 52.381 0.00 0.00 41.51 3.46
2743 7428 2.447250 CGTATAGCAACGCTCTTTCGA 58.553 47.619 0.00 0.00 40.44 3.71
2744 7429 3.043586 CGTATAGCAACGCTCTTTCGAT 58.956 45.455 0.00 0.00 40.44 3.59
2745 7430 3.486108 CGTATAGCAACGCTCTTTCGATT 59.514 43.478 0.00 0.00 40.44 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 1.133025 CGTTGCCACCATCCTTCAATC 59.867 52.381 0.00 0.00 0.00 2.67
54 55 0.810426 TAAACACACGCTCGTTGCCA 60.810 50.000 0.00 0.00 38.78 4.92
145 146 7.736447 TCTACGGGTTTCGGTTAATTAAAAA 57.264 32.000 0.00 0.00 44.45 1.94
146 147 7.227512 TGTTCTACGGGTTTCGGTTAATTAAAA 59.772 33.333 0.00 0.00 44.45 1.52
147 148 6.708054 TGTTCTACGGGTTTCGGTTAATTAAA 59.292 34.615 0.00 0.00 44.45 1.52
148 149 6.226787 TGTTCTACGGGTTTCGGTTAATTAA 58.773 36.000 0.00 0.00 44.45 1.40
149 150 5.788450 TGTTCTACGGGTTTCGGTTAATTA 58.212 37.500 0.00 0.00 44.45 1.40
150 151 4.640364 TGTTCTACGGGTTTCGGTTAATT 58.360 39.130 0.00 0.00 44.45 1.40
151 152 4.270245 TGTTCTACGGGTTTCGGTTAAT 57.730 40.909 0.00 0.00 44.45 1.40
203 2387 7.435488 CGTAGCTGCTTGTACATATTAGACTTT 59.565 37.037 7.79 0.00 0.00 2.66
224 2410 4.995487 TCCTCCTTTTTCTTTTCTCGTAGC 59.005 41.667 0.00 0.00 0.00 3.58
229 2415 5.626142 AGACCTCCTCCTTTTTCTTTTCTC 58.374 41.667 0.00 0.00 0.00 2.87
256 2449 2.678336 GGTTTCGCTAGAACAGGGATTG 59.322 50.000 0.00 0.00 44.90 2.67
312 2505 3.415212 CTCAACTTTCCAGCTGGATTGA 58.585 45.455 33.07 33.07 44.98 2.57
324 2517 9.387123 CAAGAATAAGTTTACAGCTCAACTTTC 57.613 33.333 16.56 11.11 39.69 2.62
377 2570 6.429385 AGTCATGGAGAAGATTGTTGAAGAAC 59.571 38.462 0.00 0.00 0.00 3.01
433 2627 7.938140 ACATTTAGATTCGGAGAAATTGGAA 57.062 32.000 0.00 0.00 45.90 3.53
434 2628 7.067008 GGAACATTTAGATTCGGAGAAATTGGA 59.933 37.037 0.00 0.00 45.90 3.53
437 2631 7.938140 TGGAACATTTAGATTCGGAGAAATT 57.062 32.000 0.00 0.00 45.90 1.82
481 2676 3.895041 TCTACCTACATCCATTGCGATGA 59.105 43.478 15.98 2.17 41.92 2.92
493 2688 8.135382 TCTTTTAGCTCAAGTTCTACCTACAT 57.865 34.615 0.00 0.00 0.00 2.29
504 2699 6.402222 ACGAGATCATTCTTTTAGCTCAAGT 58.598 36.000 0.00 0.00 30.30 3.16
532 2727 1.228154 GTCAACTCGCCCAACCCTT 60.228 57.895 0.00 0.00 0.00 3.95
559 2754 1.132262 CTTAAATCGCCATTGCACGGT 59.868 47.619 3.38 0.00 37.32 4.83
686 4336 4.284550 CCACCCCCACACCACCAG 62.285 72.222 0.00 0.00 0.00 4.00
705 4355 1.270839 CGGCTCTCTCTTTTTCCCACA 60.271 52.381 0.00 0.00 0.00 4.17
706 4356 1.270893 ACGGCTCTCTCTTTTTCCCAC 60.271 52.381 0.00 0.00 0.00 4.61
707 4357 1.056660 ACGGCTCTCTCTTTTTCCCA 58.943 50.000 0.00 0.00 0.00 4.37
708 4358 1.807142 CAACGGCTCTCTCTTTTTCCC 59.193 52.381 0.00 0.00 0.00 3.97
709 4359 1.197949 GCAACGGCTCTCTCTTTTTCC 59.802 52.381 0.00 0.00 36.96 3.13
710 4360 1.197949 GGCAACGGCTCTCTCTTTTTC 59.802 52.381 0.00 0.00 40.87 2.29
745 4395 5.646467 GCATTAATTTAGCATGCTTGTGG 57.354 39.130 28.02 8.80 40.23 4.17
767 4417 7.429636 TTCGAACCAAAAATACAAGGACTAG 57.570 36.000 0.00 0.00 0.00 2.57
770 4420 6.500910 AGTTTCGAACCAAAAATACAAGGAC 58.499 36.000 0.00 0.00 0.00 3.85
796 4695 6.016610 GGCGCTCCATAGAAATTAATTTACCA 60.017 38.462 13.34 2.74 0.00 3.25
970 4873 2.364002 GGGAAGAGTAGGAGATGTGAGC 59.636 54.545 0.00 0.00 0.00 4.26
987 4890 4.387211 GGTATATATAGAGGGGCGAGGGAA 60.387 50.000 0.00 0.00 0.00 3.97
1410 5313 1.202698 CCTGTAGCTTGGCCACTATCC 60.203 57.143 3.88 0.00 0.00 2.59
1669 5595 4.710695 CGTCGTGCCGTACCTGCA 62.711 66.667 0.80 0.80 36.12 4.41
1673 5599 1.059549 CAAATAACGTCGTGCCGTACC 59.940 52.381 0.00 0.00 40.85 3.34
1677 5603 1.070443 ACAACAAATAACGTCGTGCCG 60.070 47.619 0.00 0.00 0.00 5.69
1758 5684 5.163814 GCTTCTATATGTACGTACGTAGGGG 60.164 48.000 27.48 19.52 31.81 4.79
1759 5685 5.163814 GGCTTCTATATGTACGTACGTAGGG 60.164 48.000 27.48 21.39 31.81 3.53
1781 5707 5.804639 TGGTTACTATGATATGATGGTGGC 58.195 41.667 1.41 0.00 0.00 5.01
1782 5708 8.868522 ATTTGGTTACTATGATATGATGGTGG 57.131 34.615 1.41 0.00 0.00 4.61
1783 5709 9.506018 TGATTTGGTTACTATGATATGATGGTG 57.494 33.333 1.41 0.00 0.00 4.17
1784 5710 9.730705 CTGATTTGGTTACTATGATATGATGGT 57.269 33.333 0.00 0.00 0.00 3.55
1819 5747 0.039256 GGAGCAACGCAAAAGCATCA 60.039 50.000 0.00 0.00 0.00 3.07
1842 5770 4.439153 GCAAATCTGATCAATGCCTTCGAA 60.439 41.667 0.00 0.00 0.00 3.71
1844 5772 3.066342 AGCAAATCTGATCAATGCCTTCG 59.934 43.478 15.00 0.00 37.73 3.79
1855 5783 4.346418 AGAATAGGTCGGAGCAAATCTGAT 59.654 41.667 10.15 0.00 45.16 2.90
1868 5796 6.595716 AGGTTTTCATCTTGAAGAATAGGTCG 59.404 38.462 0.00 0.00 37.70 4.79
1948 6548 4.399978 CGTTCTTCAACAACAACGTCTTT 58.600 39.130 0.00 0.00 37.45 2.52
2005 6605 7.849804 AATATGAACTATGAACCATATCCGC 57.150 36.000 0.00 0.00 32.76 5.54
2012 6612 9.391006 GGACAAACTAATATGAACTATGAACCA 57.609 33.333 0.00 0.00 0.00 3.67
2013 6613 9.391006 TGGACAAACTAATATGAACTATGAACC 57.609 33.333 0.00 0.00 0.00 3.62
2016 6616 9.476202 CGATGGACAAACTAATATGAACTATGA 57.524 33.333 0.00 0.00 0.00 2.15
2017 6617 9.476202 TCGATGGACAAACTAATATGAACTATG 57.524 33.333 0.00 0.00 0.00 2.23
2019 6619 9.476202 CATCGATGGACAAACTAATATGAACTA 57.524 33.333 17.96 0.00 0.00 2.24
2020 6620 7.987458 ACATCGATGGACAAACTAATATGAACT 59.013 33.333 28.09 0.00 0.00 3.01
2024 6624 8.141835 TCAACATCGATGGACAAACTAATATG 57.858 34.615 28.09 0.02 0.00 1.78
2182 6782 1.408702 ACAGCCAATTCCAACACACAC 59.591 47.619 0.00 0.00 0.00 3.82
2183 6783 1.408340 CACAGCCAATTCCAACACACA 59.592 47.619 0.00 0.00 0.00 3.72
2184 6784 1.408702 ACACAGCCAATTCCAACACAC 59.591 47.619 0.00 0.00 0.00 3.82
2210 6810 2.297315 CACTCGGCCTCTGCATATCTAA 59.703 50.000 0.00 0.00 40.13 2.10
2275 6958 2.488952 TGAACTGCGTAACTGCATCAA 58.511 42.857 0.00 0.00 45.26 2.57
2335 7018 0.179000 AAAGGAGGGAGTAGCATGCG 59.821 55.000 13.01 0.00 0.00 4.73
2379 7062 6.539826 TCGCTCATCTTACAAATCACATCAAT 59.460 34.615 0.00 0.00 0.00 2.57
2419 7102 7.455891 TGTGTTCCGGACAGATATAGTATCTA 58.544 38.462 1.83 0.00 39.39 1.98
2424 7107 5.477291 CCTATGTGTTCCGGACAGATATAGT 59.523 44.000 17.83 3.36 41.86 2.12
2425 7108 5.105716 CCCTATGTGTTCCGGACAGATATAG 60.106 48.000 17.83 16.08 41.86 1.31
2426 7109 4.770531 CCCTATGTGTTCCGGACAGATATA 59.229 45.833 17.83 10.21 41.86 0.86
2427 7110 3.578716 CCCTATGTGTTCCGGACAGATAT 59.421 47.826 17.83 9.76 41.86 1.63
2437 7120 1.282157 AGGACTTGCCCTATGTGTTCC 59.718 52.381 0.00 0.00 37.37 3.62
2459 7142 2.738643 CGTACATCGATCCCAGTTGCTT 60.739 50.000 0.00 0.00 42.86 3.91
2514 7197 5.232414 GTCCGATTTAAGCATGACAGTAGAC 59.768 44.000 0.00 0.00 0.00 2.59
2516 7199 5.109210 TGTCCGATTTAAGCATGACAGTAG 58.891 41.667 0.00 0.00 0.00 2.57
2587 7272 0.836606 TGAAGTGTCAGGGCACAGAA 59.163 50.000 6.81 0.00 41.52 3.02
2695 7380 3.012518 ACTTCATGCCCGATTTTGAGAG 58.987 45.455 0.00 0.00 0.00 3.20


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

AutoCloner maintained by Alex Coulton.