Multiple sequence alignment - TraesCS7D01G126500

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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 TraesCS7D01G126500 chr7D 100.000 2375 0 0 1 2375 79226633 79229007 0.000000e+00 4386
1 TraesCS7D01G126500 chr7D 93.795 2353 91 10 1 2302 51238841 51236493 0.000000e+00 3485
2 TraesCS7D01G126500 chr7D 97.403 77 2 0 2299 2375 504541778 504541854 5.330000e-27 132
3 TraesCS7D01G126500 chr6D 95.435 2322 79 16 1 2306 446364371 446362061 0.000000e+00 3675
4 TraesCS7D01G126500 chr6D 93.771 2344 86 12 4 2302 297171452 297169124 0.000000e+00 3465
5 TraesCS7D01G126500 chr6D 93.534 696 31 2 709 1401 46519952 46519268 0.000000e+00 1024
6 TraesCS7D01G126500 chr6D 98.649 74 1 0 2302 2375 210716867 210716794 5.330000e-27 132
7 TraesCS7D01G126500 chr6D 98.649 74 1 0 2302 2375 271289987 271290060 5.330000e-27 132
8 TraesCS7D01G126500 chr2D 95.022 2310 78 15 1 2306 239256910 239259186 0.000000e+00 3594
9 TraesCS7D01G126500 chr2D 95.490 887 38 2 1 885 645236620 645235734 0.000000e+00 1415
10 TraesCS7D01G126500 chr2D 94.407 751 33 4 1555 2302 645235073 645234329 0.000000e+00 1146
11 TraesCS7D01G126500 chr2D 100.000 74 0 0 2302 2375 528645485 528645558 1.140000e-28 137
12 TraesCS7D01G126500 chr5D 94.133 2352 74 18 1 2302 384512075 384509738 0.000000e+00 3520
13 TraesCS7D01G126500 chr5D 93.284 1757 61 6 1 1723 363992388 363990655 0.000000e+00 2538
14 TraesCS7D01G126500 chr5D 95.750 1553 61 3 1 1550 29767644 29766094 0.000000e+00 2497
15 TraesCS7D01G126500 chr5D 96.659 838 25 3 1 836 401780346 401781182 0.000000e+00 1389
16 TraesCS7D01G126500 chr5D 93.659 820 29 13 1497 2299 401784130 401784943 0.000000e+00 1205
17 TraesCS7D01G126500 chr5D 93.819 728 44 1 1575 2302 140951587 140950861 0.000000e+00 1094
18 TraesCS7D01G126500 chr5D 98.765 81 1 0 1497 1577 29766129 29766049 6.840000e-31 145
19 TraesCS7D01G126500 chr1D 93.237 2351 82 23 1 2302 336730165 336727843 0.000000e+00 3389
20 TraesCS7D01G126500 chr1D 91.975 1433 73 15 904 2302 463792740 463791316 0.000000e+00 1971
21 TraesCS7D01G126500 chr1D 98.649 74 1 0 2302 2375 139985203 139985276 5.330000e-27 132
22 TraesCS7D01G126500 chr1D 98.649 74 1 0 2302 2375 201465850 201465777 5.330000e-27 132
23 TraesCS7D01G126500 chr1D 98.649 74 1 0 2302 2375 209706857 209706784 5.330000e-27 132
24 TraesCS7D01G126500 chr1D 98.649 74 1 0 2302 2375 273697437 273697510 5.330000e-27 132
25 TraesCS7D01G126500 chr3A 92.597 2337 132 18 1 2306 702240713 702243039 0.000000e+00 3319
26 TraesCS7D01G126500 chr3A 96.054 887 33 2 1 885 615136676 615135790 0.000000e+00 1443
27 TraesCS7D01G126500 chr5A 92.191 2113 108 32 217 2302 178860401 178858319 0.000000e+00 2935
28 TraesCS7D01G126500 chr5A 90.031 652 37 13 901 1550 235675994 235676619 0.000000e+00 819
29 TraesCS7D01G126500 chr4A 95.824 886 36 1 1 885 129030567 129031452 0.000000e+00 1430
30 TraesCS7D01G126500 chr4D 92.463 743 30 3 860 1577 125802880 125802139 0.000000e+00 1038
31 TraesCS7D01G126500 chr4D 90.184 163 12 2 1390 1550 125903980 125903820 2.390000e-50 209
32 TraesCS7D01G126500 chr4D 97.500 80 2 0 1498 1577 125903854 125903775 1.140000e-28 137
33 TraesCS7D01G126500 chr3D 98.649 74 1 0 2302 2375 311931520 311931447 5.330000e-27 132


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 TraesCS7D01G126500 chr7D 79226633 79229007 2374 False 4386.0 4386 100.0000 1 2375 1 chr7D.!!$F1 2374
1 TraesCS7D01G126500 chr7D 51236493 51238841 2348 True 3485.0 3485 93.7950 1 2302 1 chr7D.!!$R1 2301
2 TraesCS7D01G126500 chr6D 446362061 446364371 2310 True 3675.0 3675 95.4350 1 2306 1 chr6D.!!$R4 2305
3 TraesCS7D01G126500 chr6D 297169124 297171452 2328 True 3465.0 3465 93.7710 4 2302 1 chr6D.!!$R3 2298
4 TraesCS7D01G126500 chr6D 46519268 46519952 684 True 1024.0 1024 93.5340 709 1401 1 chr6D.!!$R1 692
5 TraesCS7D01G126500 chr2D 239256910 239259186 2276 False 3594.0 3594 95.0220 1 2306 1 chr2D.!!$F1 2305
6 TraesCS7D01G126500 chr2D 645234329 645236620 2291 True 1280.5 1415 94.9485 1 2302 2 chr2D.!!$R1 2301
7 TraesCS7D01G126500 chr5D 384509738 384512075 2337 True 3520.0 3520 94.1330 1 2302 1 chr5D.!!$R3 2301
8 TraesCS7D01G126500 chr5D 363990655 363992388 1733 True 2538.0 2538 93.2840 1 1723 1 chr5D.!!$R2 1722
9 TraesCS7D01G126500 chr5D 29766049 29767644 1595 True 1321.0 2497 97.2575 1 1577 2 chr5D.!!$R4 1576
10 TraesCS7D01G126500 chr5D 401780346 401784943 4597 False 1297.0 1389 95.1590 1 2299 2 chr5D.!!$F1 2298
11 TraesCS7D01G126500 chr5D 140950861 140951587 726 True 1094.0 1094 93.8190 1575 2302 1 chr5D.!!$R1 727
12 TraesCS7D01G126500 chr1D 336727843 336730165 2322 True 3389.0 3389 93.2370 1 2302 1 chr1D.!!$R3 2301
13 TraesCS7D01G126500 chr1D 463791316 463792740 1424 True 1971.0 1971 91.9750 904 2302 1 chr1D.!!$R4 1398
14 TraesCS7D01G126500 chr3A 702240713 702243039 2326 False 3319.0 3319 92.5970 1 2306 1 chr3A.!!$F1 2305
15 TraesCS7D01G126500 chr3A 615135790 615136676 886 True 1443.0 1443 96.0540 1 885 1 chr3A.!!$R1 884
16 TraesCS7D01G126500 chr5A 178858319 178860401 2082 True 2935.0 2935 92.1910 217 2302 1 chr5A.!!$R1 2085
17 TraesCS7D01G126500 chr5A 235675994 235676619 625 False 819.0 819 90.0310 901 1550 1 chr5A.!!$F1 649
18 TraesCS7D01G126500 chr4A 129030567 129031452 885 False 1430.0 1430 95.8240 1 885 1 chr4A.!!$F1 884
19 TraesCS7D01G126500 chr4D 125802139 125802880 741 True 1038.0 1038 92.4630 860 1577 1 chr4D.!!$R1 717

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
483 485 1.518774 CATGCTTTGTCCATGCCCC 59.481 57.895 0.0 0.0 34.34 5.8 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1514 3868 0.108585 TCACAAGTGCTCCCAGGTTC 59.891 55.0 0.0 0.0 0.0 3.62 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
21 22 3.165875 AGTCTCCGTTTCCAGATCTGAA 58.834 45.455 24.62 13.05 0.00 3.02
37 38 2.242965 TCTGAAGGATGGTGAATGGCAT 59.757 45.455 0.00 0.00 0.00 4.40
222 224 4.437682 ACAATCAGAGAACTGGTTCCAA 57.562 40.909 9.51 0.00 44.48 3.53
483 485 1.518774 CATGCTTTGTCCATGCCCC 59.481 57.895 0.00 0.00 34.34 5.80
551 553 5.992829 TGCTTTGATGATTTGATGCTGTTTT 59.007 32.000 0.00 0.00 0.00 2.43
644 646 4.393062 TCAGAACTTGCTGTAGCTATTTGC 59.607 41.667 5.38 2.68 42.66 3.68
831 834 8.191446 GCTGTCAAGTTACTAGTCATCATCTTA 58.809 37.037 0.00 0.00 0.00 2.10
1005 3264 4.020751 TCCATATGCTAGCTTGAGATGGAC 60.021 45.833 20.28 0.00 37.14 4.02
1216 3475 3.118445 GCTGGAGAGGTCTAAGCTTCAAT 60.118 47.826 0.00 0.00 34.61 2.57
1377 3636 5.755409 TTGGAGCTAAGGTAGTTTGATGA 57.245 39.130 0.00 0.00 0.00 2.92
1462 3721 4.331168 AGTTATGTCGTAGTAGGTCGTGAC 59.669 45.833 0.00 0.00 0.00 3.67
1473 3732 2.650163 GTCGTGACCATACGCAGTC 58.350 57.895 0.00 0.00 43.93 3.51
1514 3868 2.816087 CAAGTGAACCTGGGATCTTGTG 59.184 50.000 0.00 0.00 0.00 3.33
1515 3869 2.338809 AGTGAACCTGGGATCTTGTGA 58.661 47.619 0.00 0.00 0.00 3.58
1516 3870 2.711009 AGTGAACCTGGGATCTTGTGAA 59.289 45.455 0.00 0.00 0.00 3.18
1517 3871 2.814336 GTGAACCTGGGATCTTGTGAAC 59.186 50.000 0.00 0.00 0.00 3.18
1518 3872 2.224769 TGAACCTGGGATCTTGTGAACC 60.225 50.000 0.00 0.00 34.76 3.62
1519 3873 1.747444 ACCTGGGATCTTGTGAACCT 58.253 50.000 0.00 0.00 35.70 3.50
1520 3874 1.352352 ACCTGGGATCTTGTGAACCTG 59.648 52.381 0.00 0.00 35.70 4.00
1521 3875 1.340405 CCTGGGATCTTGTGAACCTGG 60.340 57.143 0.00 0.00 36.69 4.45
1522 3876 0.698238 TGGGATCTTGTGAACCTGGG 59.302 55.000 0.00 0.00 35.70 4.45
1523 3877 0.991920 GGGATCTTGTGAACCTGGGA 59.008 55.000 0.00 0.00 35.70 4.37
1524 3878 1.065126 GGGATCTTGTGAACCTGGGAG 60.065 57.143 0.00 0.00 35.70 4.30
1525 3879 1.680249 GGATCTTGTGAACCTGGGAGC 60.680 57.143 0.00 0.00 33.00 4.70
1526 3880 1.003580 GATCTTGTGAACCTGGGAGCA 59.996 52.381 0.00 0.00 0.00 4.26
1527 3881 0.108585 TCTTGTGAACCTGGGAGCAC 59.891 55.000 0.00 3.83 0.00 4.40
1528 3882 0.109342 CTTGTGAACCTGGGAGCACT 59.891 55.000 14.11 0.00 32.69 4.40
1529 3883 0.550914 TTGTGAACCTGGGAGCACTT 59.449 50.000 14.11 0.00 32.69 3.16
1530 3884 0.179020 TGTGAACCTGGGAGCACTTG 60.179 55.000 14.11 0.00 32.69 3.16
1531 3885 0.179018 GTGAACCTGGGAGCACTTGT 60.179 55.000 0.00 0.00 0.00 3.16
1551 3939 1.239347 GAACCTGGGAGCACTTGTTC 58.761 55.000 0.00 0.00 0.00 3.18
1692 4167 5.343307 AATTGAGTTGGACTGCAAAAAGT 57.657 34.783 0.00 0.00 0.00 2.66
1887 4371 2.899256 CAGAAAAAGGCTCCATTCCCAA 59.101 45.455 0.00 0.00 0.00 4.12
2160 4654 6.441093 AGTCATAAACGTCTACGACCATTA 57.559 37.500 9.86 3.92 43.02 1.90
2175 4669 3.335579 ACCATTACAGAAGAAAGGTCGC 58.664 45.455 0.00 0.00 0.00 5.19
2183 4677 4.020128 ACAGAAGAAAGGTCGCTAATTCCT 60.020 41.667 0.00 0.00 0.00 3.36
2217 4711 4.301628 CCAGCTTTTGACCATCTGTTTTC 58.698 43.478 0.00 0.00 0.00 2.29
2240 4734 4.617298 CGGTCACAAAAAGGTCACAAAAGT 60.617 41.667 0.00 0.00 0.00 2.66
2248 4742 9.414295 ACAAAAAGGTCACAAAAGTAAAACTAC 57.586 29.630 0.00 0.00 0.00 2.73
2306 4800 8.150945 AGTTGACATATTTCTTGTAGTGAGTGT 58.849 33.333 0.00 0.00 0.00 3.55
2307 4801 7.889589 TGACATATTTCTTGTAGTGAGTGTG 57.110 36.000 0.00 0.00 0.00 3.82
2308 4802 7.441836 TGACATATTTCTTGTAGTGAGTGTGT 58.558 34.615 0.00 0.00 0.00 3.72
2309 4803 7.598869 TGACATATTTCTTGTAGTGAGTGTGTC 59.401 37.037 0.00 0.00 0.00 3.67
2310 4804 6.874134 ACATATTTCTTGTAGTGAGTGTGTCC 59.126 38.462 0.00 0.00 0.00 4.02
2311 4805 4.746535 TTTCTTGTAGTGAGTGTGTCCA 57.253 40.909 0.00 0.00 0.00 4.02
2312 4806 3.728076 TCTTGTAGTGAGTGTGTCCAC 57.272 47.619 0.00 0.00 42.17 4.02
2313 4807 2.034179 TCTTGTAGTGAGTGTGTCCACG 59.966 50.000 0.00 0.00 46.56 4.94
2314 4808 1.395635 TGTAGTGAGTGTGTCCACGT 58.604 50.000 0.00 0.00 46.56 4.49
2315 4809 2.574450 TGTAGTGAGTGTGTCCACGTA 58.426 47.619 0.00 0.00 46.56 3.57
2316 4810 2.291465 TGTAGTGAGTGTGTCCACGTAC 59.709 50.000 0.00 0.00 46.56 3.67
2317 4811 0.672342 AGTGAGTGTGTCCACGTACC 59.328 55.000 0.00 0.00 46.56 3.34
2318 4812 0.319297 GTGAGTGTGTCCACGTACCC 60.319 60.000 0.00 0.00 46.56 3.69
2319 4813 0.468585 TGAGTGTGTCCACGTACCCT 60.469 55.000 0.00 0.00 46.56 4.34
2320 4814 0.243095 GAGTGTGTCCACGTACCCTC 59.757 60.000 0.00 0.00 46.56 4.30
2321 4815 1.080974 GTGTGTCCACGTACCCTCG 60.081 63.158 0.00 0.00 0.00 4.63
2322 4816 1.529010 TGTGTCCACGTACCCTCGT 60.529 57.895 0.00 0.00 45.10 4.18
2323 4817 0.250684 TGTGTCCACGTACCCTCGTA 60.251 55.000 0.00 0.00 42.27 3.43
2324 4818 0.449388 GTGTCCACGTACCCTCGTAG 59.551 60.000 0.00 0.00 42.27 3.51
2325 4819 0.324614 TGTCCACGTACCCTCGTAGA 59.675 55.000 0.00 0.00 42.27 2.59
2326 4820 0.729690 GTCCACGTACCCTCGTAGAC 59.270 60.000 0.00 2.79 42.50 2.59
2327 4821 0.392998 TCCACGTACCCTCGTAGACC 60.393 60.000 0.00 0.00 42.27 3.85
2328 4822 1.709147 CCACGTACCCTCGTAGACCG 61.709 65.000 0.00 0.00 42.27 4.79
2329 4823 0.740868 CACGTACCCTCGTAGACCGA 60.741 60.000 0.00 0.00 45.00 4.69
2330 4824 0.036388 ACGTACCCTCGTAGACCGAA 60.036 55.000 0.00 0.00 46.75 4.30
2331 4825 1.086696 CGTACCCTCGTAGACCGAAA 58.913 55.000 0.00 0.00 46.75 3.46
2332 4826 1.063174 CGTACCCTCGTAGACCGAAAG 59.937 57.143 0.00 0.00 46.75 2.62
2333 4827 1.098050 TACCCTCGTAGACCGAAAGC 58.902 55.000 0.00 0.00 46.75 3.51
2334 4828 1.226603 CCCTCGTAGACCGAAAGCG 60.227 63.158 0.00 0.00 46.75 4.68
2354 4848 2.761326 GGAAACGTTATGTTAACGCGG 58.239 47.619 12.47 0.00 46.58 6.46
2355 4849 2.157474 GGAAACGTTATGTTAACGCGGT 59.843 45.455 12.47 6.42 46.58 5.68
2356 4850 3.363871 GGAAACGTTATGTTAACGCGGTT 60.364 43.478 12.47 12.39 46.58 4.44
2357 4851 2.859870 ACGTTATGTTAACGCGGTTG 57.140 45.000 12.47 0.00 46.58 3.77
2358 4852 2.402305 ACGTTATGTTAACGCGGTTGA 58.598 42.857 12.47 0.00 46.58 3.18
2359 4853 2.995258 ACGTTATGTTAACGCGGTTGAT 59.005 40.909 12.47 0.00 46.58 2.57
2360 4854 3.181528 ACGTTATGTTAACGCGGTTGATG 60.182 43.478 12.47 0.00 46.58 3.07
2361 4855 3.181528 CGTTATGTTAACGCGGTTGATGT 60.182 43.478 12.47 0.00 36.82 3.06
2362 4856 4.031539 CGTTATGTTAACGCGGTTGATGTA 59.968 41.667 12.47 0.00 36.82 2.29
2363 4857 5.486706 GTTATGTTAACGCGGTTGATGTAG 58.513 41.667 12.47 0.00 0.00 2.74
2364 4858 3.029320 TGTTAACGCGGTTGATGTAGT 57.971 42.857 12.47 0.00 0.00 2.73
2365 4859 2.988493 TGTTAACGCGGTTGATGTAGTC 59.012 45.455 12.47 0.00 0.00 2.59
2366 4860 1.898938 TAACGCGGTTGATGTAGTCG 58.101 50.000 12.47 0.00 0.00 4.18
2367 4861 0.241749 AACGCGGTTGATGTAGTCGA 59.758 50.000 12.47 0.00 0.00 4.20
2368 4862 0.241749 ACGCGGTTGATGTAGTCGAA 59.758 50.000 12.47 0.00 0.00 3.71
2369 4863 0.638746 CGCGGTTGATGTAGTCGAAC 59.361 55.000 0.00 0.00 0.00 3.95
2371 4865 1.973138 CGGTTGATGTAGTCGAACGT 58.027 50.000 0.00 0.00 44.71 3.99
2372 4866 1.909532 CGGTTGATGTAGTCGAACGTC 59.090 52.381 3.01 3.01 44.71 4.34
2373 4867 2.413765 CGGTTGATGTAGTCGAACGTCT 60.414 50.000 10.09 0.00 44.71 4.18
2374 4868 3.572584 GGTTGATGTAGTCGAACGTCTT 58.427 45.455 10.09 0.00 36.53 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.845992 TCACCATCCTTCAGATCTGGAAA 59.154 43.478 22.42 9.57 30.59 3.13
21 22 0.260816 AGCATGCCATTCACCATCCT 59.739 50.000 15.66 0.00 0.00 3.24
37 38 0.837691 ACCACATCTCCACCAGAGCA 60.838 55.000 0.00 0.00 42.90 4.26
222 224 2.260844 AATGTGTGCTGTGTAGTGCT 57.739 45.000 0.00 0.00 0.00 4.40
483 485 0.877071 AGCTGGCTGTGAATCAAACG 59.123 50.000 0.00 0.00 0.00 3.60
515 517 4.490743 TCATCAAAGCATCAAACAGCATG 58.509 39.130 0.00 0.00 46.00 4.06
551 553 4.040339 TGTGTTCTTGAGTGGCTCTGAATA 59.960 41.667 0.00 0.00 31.29 1.75
858 3117 6.437162 ACCAAACCAGCACACAAAATCTATAT 59.563 34.615 0.00 0.00 0.00 0.86
1005 3264 1.511887 CGGCGCGTCCTTCATTTTG 60.512 57.895 4.51 0.00 0.00 2.44
1216 3475 5.182570 CCAATTCTTCTTGCATCACTTCAGA 59.817 40.000 0.00 0.00 0.00 3.27
1377 3636 4.160252 AGGTTCAAAGACAAACTGCACAAT 59.840 37.500 0.00 0.00 0.00 2.71
1462 3721 1.372582 ATGCAACAGACTGCGTATGG 58.627 50.000 1.25 0.00 45.74 2.74
1464 3723 3.825308 CAAAATGCAACAGACTGCGTAT 58.175 40.909 1.25 0.00 45.74 3.06
1467 3726 0.780002 GCAAAATGCAACAGACTGCG 59.220 50.000 1.25 0.00 45.74 5.18
1514 3868 0.108585 TCACAAGTGCTCCCAGGTTC 59.891 55.000 0.00 0.00 0.00 3.62
1515 3869 0.550914 TTCACAAGTGCTCCCAGGTT 59.449 50.000 0.00 0.00 0.00 3.50
1516 3870 0.179018 GTTCACAAGTGCTCCCAGGT 60.179 55.000 0.00 0.00 0.00 4.00
1517 3871 0.890996 GGTTCACAAGTGCTCCCAGG 60.891 60.000 0.00 0.00 0.00 4.45
1518 3872 0.109342 AGGTTCACAAGTGCTCCCAG 59.891 55.000 0.00 0.00 0.00 4.45
1519 3873 0.179020 CAGGTTCACAAGTGCTCCCA 60.179 55.000 0.00 0.00 0.00 4.37
1520 3874 0.890996 CCAGGTTCACAAGTGCTCCC 60.891 60.000 0.00 0.00 0.00 4.30
1521 3875 0.890996 CCCAGGTTCACAAGTGCTCC 60.891 60.000 0.00 0.92 0.00 4.70
1522 3876 0.108585 TCCCAGGTTCACAAGTGCTC 59.891 55.000 0.00 0.00 0.00 4.26
1523 3877 0.109342 CTCCCAGGTTCACAAGTGCT 59.891 55.000 0.00 0.00 0.00 4.40
1524 3878 1.518903 GCTCCCAGGTTCACAAGTGC 61.519 60.000 0.00 0.00 0.00 4.40
1525 3879 0.179020 TGCTCCCAGGTTCACAAGTG 60.179 55.000 0.00 0.00 0.00 3.16
1526 3880 0.179018 GTGCTCCCAGGTTCACAAGT 60.179 55.000 6.32 0.00 0.00 3.16
1527 3881 0.109342 AGTGCTCCCAGGTTCACAAG 59.891 55.000 11.53 0.00 32.25 3.16
1528 3882 0.550914 AAGTGCTCCCAGGTTCACAA 59.449 50.000 11.53 0.00 32.25 3.33
1529 3883 0.179020 CAAGTGCTCCCAGGTTCACA 60.179 55.000 11.53 0.00 32.25 3.58
1530 3884 0.179018 ACAAGTGCTCCCAGGTTCAC 60.179 55.000 3.87 3.87 0.00 3.18
1531 3885 0.550914 AACAAGTGCTCCCAGGTTCA 59.449 50.000 0.00 0.00 0.00 3.18
1551 3939 4.261322 CCATCACAAGTTCACTGGTTCAAG 60.261 45.833 0.00 0.00 0.00 3.02
1692 4167 0.404040 ATTCTTGTTTGGGCCTCGGA 59.596 50.000 4.53 0.00 0.00 4.55
1865 4349 1.205655 GGGAATGGAGCCTTTTTCTGC 59.794 52.381 0.00 0.00 0.00 4.26
2160 4654 4.020128 AGGAATTAGCGACCTTTCTTCTGT 60.020 41.667 0.00 0.00 0.00 3.41
2175 4669 4.196193 TGGCCATCGTAAACAGGAATTAG 58.804 43.478 0.00 0.00 0.00 1.73
2183 4677 1.904287 AAAGCTGGCCATCGTAAACA 58.096 45.000 5.51 0.00 0.00 2.83
2217 4711 3.495670 TTTGTGACCTTTTTGTGACCG 57.504 42.857 0.00 0.00 0.00 4.79
2240 4734 5.221481 TGGTCACTGAATGGTCGTAGTTTTA 60.221 40.000 0.00 0.00 0.00 1.52
2248 4742 3.618594 CACTATTGGTCACTGAATGGTCG 59.381 47.826 0.00 0.00 0.00 4.79
2303 4797 1.080974 CGAGGGTACGTGGACACAC 60.081 63.158 0.00 0.00 44.23 3.82
2306 4800 0.324614 TCTACGAGGGTACGTGGACA 59.675 55.000 0.00 0.00 45.53 4.02
2307 4801 3.159298 TCTACGAGGGTACGTGGAC 57.841 57.895 0.00 0.00 45.53 4.02
2309 4803 2.101700 GGTCTACGAGGGTACGTGG 58.898 63.158 0.00 0.00 46.02 4.94
2322 4816 9.849293 TAACATAACGTTTCCGCTTTCGGTCTA 62.849 40.741 5.91 0.00 46.22 2.59
2324 4818 7.076090 TAACATAACGTTTCCGCTTTCGGTC 62.076 44.000 5.91 0.00 46.22 4.79
2325 4819 5.326893 TAACATAACGTTTCCGCTTTCGGT 61.327 41.667 5.91 0.00 46.22 4.69
2326 4820 3.123284 TAACATAACGTTTCCGCTTTCGG 59.877 43.478 5.91 0.00 46.86 4.30
2327 4821 2.867456 ACATAACGTTTCCGCTTTCG 57.133 45.000 5.91 0.00 37.70 3.46
2328 4822 4.546941 CGTTAACATAACGTTTCCGCTTTC 59.453 41.667 5.91 0.00 39.14 2.62
2329 4823 4.456914 CGTTAACATAACGTTTCCGCTTT 58.543 39.130 5.91 0.00 39.14 3.51
2330 4824 3.665060 GCGTTAACATAACGTTTCCGCTT 60.665 43.478 19.90 0.00 44.98 4.68
2331 4825 2.159801 GCGTTAACATAACGTTTCCGCT 60.160 45.455 19.90 0.00 44.98 5.52
2332 4826 2.160493 GCGTTAACATAACGTTTCCGC 58.840 47.619 19.90 6.62 43.48 5.54
2333 4827 2.411272 CGCGTTAACATAACGTTTCCG 58.589 47.619 19.90 12.80 44.69 4.30
2334 4828 2.157474 ACCGCGTTAACATAACGTTTCC 59.843 45.455 19.90 6.32 44.69 3.13
2335 4829 3.438373 ACCGCGTTAACATAACGTTTC 57.562 42.857 19.90 6.60 44.69 2.78
2336 4830 3.247173 TCAACCGCGTTAACATAACGTTT 59.753 39.130 19.90 10.71 44.69 3.60
2337 4831 2.799412 TCAACCGCGTTAACATAACGTT 59.201 40.909 19.90 5.88 44.69 3.99
2338 4832 2.402305 TCAACCGCGTTAACATAACGT 58.598 42.857 19.90 2.40 44.69 3.99
2339 4833 3.181528 ACATCAACCGCGTTAACATAACG 60.182 43.478 16.06 16.06 45.56 3.18
2340 4834 4.330740 ACATCAACCGCGTTAACATAAC 57.669 40.909 4.92 0.00 0.00 1.89
2341 4835 5.170021 ACTACATCAACCGCGTTAACATAA 58.830 37.500 4.92 0.00 0.00 1.90
2342 4836 4.746729 ACTACATCAACCGCGTTAACATA 58.253 39.130 4.92 0.00 0.00 2.29
2343 4837 3.592059 ACTACATCAACCGCGTTAACAT 58.408 40.909 4.92 0.00 0.00 2.71
2344 4838 2.988493 GACTACATCAACCGCGTTAACA 59.012 45.455 4.92 0.00 0.00 2.41
2345 4839 2.027214 CGACTACATCAACCGCGTTAAC 59.973 50.000 4.92 0.00 0.00 2.01
2346 4840 2.095314 TCGACTACATCAACCGCGTTAA 60.095 45.455 4.92 0.00 0.00 2.01
2347 4841 1.468127 TCGACTACATCAACCGCGTTA 59.532 47.619 4.92 0.00 0.00 3.18
2348 4842 0.241749 TCGACTACATCAACCGCGTT 59.758 50.000 4.92 0.00 0.00 4.84
2349 4843 0.241749 TTCGACTACATCAACCGCGT 59.758 50.000 4.92 0.00 0.00 6.01
2350 4844 0.638746 GTTCGACTACATCAACCGCG 59.361 55.000 0.00 0.00 0.00 6.46
2351 4845 0.638746 CGTTCGACTACATCAACCGC 59.361 55.000 0.00 0.00 0.00 5.68
2352 4846 1.909532 GACGTTCGACTACATCAACCG 59.090 52.381 0.00 0.00 0.00 4.44
2353 4847 3.213249 AGACGTTCGACTACATCAACC 57.787 47.619 0.00 0.00 0.00 3.77


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

AutoCloner maintained by Alex Coulton.