Multiple sequence alignment - TraesCS5A01G117900

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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 TraesCS5A01G117900 chr5A 100.000 2387 0 0 1 2387 241454231 241456617 0.000000e+00 4409.0
1 TraesCS5A01G117900 chr5A 86.685 1457 167 19 889 2334 584545380 584546820 0.000000e+00 1591.0
2 TraesCS5A01G117900 chr5D 90.680 1588 131 10 751 2334 168218842 168220416 0.000000e+00 2097.0
3 TraesCS5A01G117900 chr5D 86.339 1464 177 17 884 2334 253540581 253542034 0.000000e+00 1574.0
4 TraesCS5A01G117900 chr5D 87.018 285 29 3 596 873 429504640 429504357 4.950000e-82 315.0
5 TraesCS5A01G117900 chr5D 86.713 286 26 7 596 873 324087302 324087583 8.290000e-80 307.0
6 TraesCS5A01G117900 chr5D 100.000 56 0 0 2332 2387 448115941 448115886 1.170000e-18 104.0
7 TraesCS5A01G117900 chr5D 98.276 58 1 0 2330 2387 426863799 426863856 4.200000e-18 102.0
8 TraesCS5A01G117900 chr5D 95.161 62 2 1 2326 2387 300552529 300552589 1.950000e-16 97.1
9 TraesCS5A01G117900 chr1D 86.426 1466 187 11 876 2334 58565535 58564075 0.000000e+00 1594.0
10 TraesCS5A01G117900 chr1D 89.036 757 69 8 1 750 48557524 48556775 0.000000e+00 926.0
11 TraesCS5A01G117900 chr1D 100.000 56 0 0 2332 2387 353183883 353183828 1.170000e-18 104.0
12 TraesCS5A01G117900 chr1D 100.000 55 0 0 2333 2387 20514088 20514142 4.200000e-18 102.0
13 TraesCS5A01G117900 chr1D 100.000 55 0 0 2333 2387 244174725 244174671 4.200000e-18 102.0
14 TraesCS5A01G117900 chr1D 100.000 54 0 0 2334 2387 330029018 330029071 1.510000e-17 100.0
15 TraesCS5A01G117900 chr1D 100.000 54 0 0 2334 2387 393949298 393949351 1.510000e-17 100.0
16 TraesCS5A01G117900 chr1D 96.610 59 1 1 2329 2387 16470559 16470502 1.950000e-16 97.1
17 TraesCS5A01G117900 chr2D 86.914 1429 164 15 915 2334 177454565 177453151 0.000000e+00 1581.0
18 TraesCS5A01G117900 chr2D 94.716 757 30 6 1 750 37957828 37957075 0.000000e+00 1168.0
19 TraesCS5A01G117900 chr2B 87.074 1408 164 17 904 2300 439421523 439420123 0.000000e+00 1576.0
20 TraesCS5A01G117900 chr2B 90.777 759 55 10 1 750 797630679 797629927 0.000000e+00 1000.0
21 TraesCS5A01G117900 chr3B 85.948 1466 193 12 876 2334 254763266 254761807 0.000000e+00 1554.0
22 TraesCS5A01G117900 chr3B 100.000 58 0 0 2330 2387 340612853 340612910 9.020000e-20 108.0
23 TraesCS5A01G117900 chr7B 85.958 1467 186 17 876 2334 75184666 75186120 0.000000e+00 1550.0
24 TraesCS5A01G117900 chr7B 98.361 61 1 0 2327 2387 374356916 374356856 9.020000e-20 108.0
25 TraesCS5A01G117900 chr7B 98.361 61 1 0 2327 2387 725328690 725328750 9.020000e-20 108.0
26 TraesCS5A01G117900 chr7B 93.243 74 1 2 2314 2387 27762619 27762688 3.250000e-19 106.0
27 TraesCS5A01G117900 chr7B 100.000 57 0 0 2331 2387 660140565 660140509 3.250000e-19 106.0
28 TraesCS5A01G117900 chr7B 95.312 64 1 1 2324 2387 419493705 419493766 1.510000e-17 100.0
29 TraesCS5A01G117900 chr7A 85.967 1468 177 24 876 2334 292816698 292818145 0.000000e+00 1543.0
30 TraesCS5A01G117900 chr7A 98.305 590 9 1 1 590 686360143 686360731 0.000000e+00 1033.0
31 TraesCS5A01G117900 chr6D 93.421 760 40 3 1 750 169254221 169253462 0.000000e+00 1118.0
32 TraesCS5A01G117900 chr6D 98.361 61 1 0 2327 2387 202933188 202933248 9.020000e-20 108.0
33 TraesCS5A01G117900 chr6D 100.000 57 0 0 2331 2387 10055650 10055594 3.250000e-19 106.0
34 TraesCS5A01G117900 chr6D 100.000 55 0 0 2333 2387 117057654 117057600 4.200000e-18 102.0
35 TraesCS5A01G117900 chr6A 92.980 755 40 6 1 750 78966444 78965698 0.000000e+00 1088.0
36 TraesCS5A01G117900 chr6A 97.976 593 12 0 1 593 301848839 301849431 0.000000e+00 1029.0
37 TraesCS5A01G117900 chr6A 97.639 593 14 0 1 593 70442623 70443215 0.000000e+00 1018.0
38 TraesCS5A01G117900 chr6A 98.333 60 1 0 2328 2387 592956263 592956322 3.250000e-19 106.0
39 TraesCS5A01G117900 chr6A 98.305 59 1 0 2329 2387 576841877 576841935 1.170000e-18 104.0
40 TraesCS5A01G117900 chr1A 90.000 760 63 8 1 748 95267731 95266973 0.000000e+00 970.0
41 TraesCS5A01G117900 chr1A 88.235 289 21 7 596 873 590689411 590689125 1.370000e-87 333.0
42 TraesCS5A01G117900 chr6B 96.923 65 2 0 2323 2387 711526930 711526994 2.510000e-20 110.0
43 TraesCS5A01G117900 chr6B 98.333 60 1 0 2328 2387 651361440 651361499 3.250000e-19 106.0
44 TraesCS5A01G117900 chr6B 100.000 56 0 0 2332 2387 7995104 7995049 1.170000e-18 104.0
45 TraesCS5A01G117900 chr6B 98.305 59 1 0 2329 2387 257120785 257120843 1.170000e-18 104.0
46 TraesCS5A01G117900 chr6B 98.305 59 1 0 2329 2387 685492524 685492582 1.170000e-18 104.0
47 TraesCS5A01G117900 chr3D 98.276 58 1 0 2330 2387 473411262 473411319 4.200000e-18 102.0
48 TraesCS5A01G117900 chr4D 100.000 54 0 0 2334 2387 63853688 63853635 1.510000e-17 100.0
49 TraesCS5A01G117900 chr4D 100.000 54 0 0 2334 2387 200712372 200712425 1.510000e-17 100.0
50 TraesCS5A01G117900 chr4D 100.000 54 0 0 2334 2387 200994799 200994852 1.510000e-17 100.0
51 TraesCS5A01G117900 chr4D 100.000 54 0 0 2334 2387 499917201 499917254 1.510000e-17 100.0
52 TraesCS5A01G117900 chr4D 98.182 55 1 0 2333 2387 446548778 446548832 1.950000e-16 97.1
53 TraesCS5A01G117900 chr4D 98.148 54 1 0 2334 2387 1512005 1512058 7.020000e-16 95.3
54 TraesCS5A01G117900 chr4D 98.148 54 1 0 2334 2387 17105456 17105509 7.020000e-16 95.3
55 TraesCS5A01G117900 chr4D 98.148 54 1 0 2334 2387 73856430 73856483 7.020000e-16 95.3
56 TraesCS5A01G117900 chr4D 95.082 61 2 1 2328 2387 152207501 152207441 7.020000e-16 95.3
57 TraesCS5A01G117900 chr4D 98.148 54 1 0 2334 2387 436722097 436722044 7.020000e-16 95.3
58 TraesCS5A01G117900 chr3A 94.118 68 1 2 2321 2387 290689864 290689929 1.510000e-17 100.0
59 TraesCS5A01G117900 chr3A 87.640 89 5 5 2302 2387 433763527 433763612 5.430000e-17 99.0


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 TraesCS5A01G117900 chr5A 241454231 241456617 2386 False 4409 4409 100.000 1 2387 1 chr5A.!!$F1 2386
1 TraesCS5A01G117900 chr5A 584545380 584546820 1440 False 1591 1591 86.685 889 2334 1 chr5A.!!$F2 1445
2 TraesCS5A01G117900 chr5D 168218842 168220416 1574 False 2097 2097 90.680 751 2334 1 chr5D.!!$F1 1583
3 TraesCS5A01G117900 chr5D 253540581 253542034 1453 False 1574 1574 86.339 884 2334 1 chr5D.!!$F2 1450
4 TraesCS5A01G117900 chr1D 58564075 58565535 1460 True 1594 1594 86.426 876 2334 1 chr1D.!!$R3 1458
5 TraesCS5A01G117900 chr1D 48556775 48557524 749 True 926 926 89.036 1 750 1 chr1D.!!$R2 749
6 TraesCS5A01G117900 chr2D 177453151 177454565 1414 True 1581 1581 86.914 915 2334 1 chr2D.!!$R2 1419
7 TraesCS5A01G117900 chr2D 37957075 37957828 753 True 1168 1168 94.716 1 750 1 chr2D.!!$R1 749
8 TraesCS5A01G117900 chr2B 439420123 439421523 1400 True 1576 1576 87.074 904 2300 1 chr2B.!!$R1 1396
9 TraesCS5A01G117900 chr2B 797629927 797630679 752 True 1000 1000 90.777 1 750 1 chr2B.!!$R2 749
10 TraesCS5A01G117900 chr3B 254761807 254763266 1459 True 1554 1554 85.948 876 2334 1 chr3B.!!$R1 1458
11 TraesCS5A01G117900 chr7B 75184666 75186120 1454 False 1550 1550 85.958 876 2334 1 chr7B.!!$F2 1458
12 TraesCS5A01G117900 chr7A 292816698 292818145 1447 False 1543 1543 85.967 876 2334 1 chr7A.!!$F1 1458
13 TraesCS5A01G117900 chr7A 686360143 686360731 588 False 1033 1033 98.305 1 590 1 chr7A.!!$F2 589
14 TraesCS5A01G117900 chr6D 169253462 169254221 759 True 1118 1118 93.421 1 750 1 chr6D.!!$R3 749
15 TraesCS5A01G117900 chr6A 78965698 78966444 746 True 1088 1088 92.980 1 750 1 chr6A.!!$R1 749
16 TraesCS5A01G117900 chr6A 301848839 301849431 592 False 1029 1029 97.976 1 593 1 chr6A.!!$F2 592
17 TraesCS5A01G117900 chr6A 70442623 70443215 592 False 1018 1018 97.639 1 593 1 chr6A.!!$F1 592
18 TraesCS5A01G117900 chr1A 95266973 95267731 758 True 970 970 90.000 1 748 1 chr1A.!!$R1 747

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
760 778 0.183971 TTTCCTTCACTTCGGCCCAA 59.816 50.0 0.0 0.0 0.0 4.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1839 1875 0.03601 CCATCCTTGTCTTGCCGACT 60.036 55.0 5.07 0.0 43.25 4.18 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
356 358 4.759782 ACAATCGGAGTGACAAATCCTAG 58.240 43.478 12.93 0.00 33.12 3.02
397 399 4.369182 CAACAAGTACCTTCGAAGACACT 58.631 43.478 26.61 22.57 34.32 3.55
403 405 3.027974 ACCTTCGAAGACACTTGTAGC 57.972 47.619 26.61 0.00 34.32 3.58
753 771 5.930135 TCTAGGGCATATTTCCTTCACTTC 58.070 41.667 0.00 0.00 34.75 3.01
760 778 0.183971 TTTCCTTCACTTCGGCCCAA 59.816 50.000 0.00 0.00 0.00 4.12
773 791 1.271163 CGGCCCAAGTTGTTCCTTCTA 60.271 52.381 0.00 0.00 0.00 2.10
810 828 3.063180 TCCAAAATGTTTTGCTGCGTTTG 59.937 39.130 11.70 0.00 44.62 2.93
836 854 3.119779 TCCGTTTGGTATTGATTTTCCGC 60.120 43.478 0.00 0.00 36.30 5.54
886 904 2.510411 CACTCAGGTGGTGTGGCA 59.490 61.111 0.00 0.00 39.59 4.92
965 988 2.268920 GAGGGCCATTCACGCTGA 59.731 61.111 6.18 0.00 0.00 4.26
995 1019 2.036571 CAAGCTGGCATGCACGAGA 61.037 57.895 21.36 0.00 34.99 4.04
1049 1073 2.579201 CTTCCCGCTCGACCATGT 59.421 61.111 0.00 0.00 0.00 3.21
1164 1189 1.301716 AAAGCCGAAGCGCAAGAGA 60.302 52.632 11.47 0.00 46.67 3.10
1199 1224 3.766151 CATGCATGACATTTGAGGACAC 58.234 45.455 22.59 0.00 36.64 3.67
1286 1311 3.319689 TCGACCTTTTGGATTTTTGTCCC 59.680 43.478 0.00 0.00 44.07 4.46
1359 1384 1.002134 CGGCTGGGTGTCCATTTCT 60.002 57.895 0.00 0.00 43.11 2.52
1384 1409 3.627577 GCGATGGAAGGTGATACAACAAT 59.372 43.478 0.00 0.00 0.00 2.71
1453 1478 3.517140 GCGGCATCGGCATGGAAA 61.517 61.111 0.00 0.00 43.71 3.13
1554 1588 3.000925 GCTTGCATGCTATTCATTTGCAC 59.999 43.478 20.33 0.00 39.58 4.57
1566 1600 2.295629 TCATTTGCACGCATTCCAAGAA 59.704 40.909 0.00 0.00 0.00 2.52
1708 1743 1.073923 GAAAGCCTTGGAGGAGGTTGA 59.926 52.381 0.00 0.00 37.67 3.18
1792 1828 3.242268 CGTCGATCGTCTTGCTCAT 57.758 52.632 15.94 0.00 34.52 2.90
1839 1875 1.719378 AGGACTCAAGGGAGGAGAAGA 59.281 52.381 0.00 0.00 45.81 2.87
1860 1896 1.198094 TCGGCAAGACAAGGATGGGA 61.198 55.000 0.00 0.00 0.00 4.37
1908 1944 0.692419 GAGGGGGCTTGAGATGGAGA 60.692 60.000 0.00 0.00 0.00 3.71
1970 2006 3.212685 GCAAGCCAAGATGCTAGAGATT 58.787 45.455 0.00 0.00 41.80 2.40
2017 2056 2.263945 GAAAGAAGTGGCTCTCGCTAC 58.736 52.381 0.00 0.00 46.77 3.58
2026 2065 1.274728 GGCTCTCGCTACCATGATGAT 59.725 52.381 0.00 0.00 36.09 2.45
2051 2091 2.239654 GGTGGAGATCATGAAGGTGGAA 59.760 50.000 0.00 0.00 0.00 3.53
2116 2157 0.524862 CAGGCCAACATGCTCAAGTC 59.475 55.000 5.01 0.00 0.00 3.01
2118 2159 0.895100 GGCCAACATGCTCAAGTCCA 60.895 55.000 0.00 0.00 0.00 4.02
2141 2185 4.597404 TGATGAGTGATCTATGGCAGAC 57.403 45.455 0.00 0.00 35.62 3.51
2289 2347 1.190643 ACTGTGTGGTGGTTTTTGGG 58.809 50.000 0.00 0.00 0.00 4.12
2300 2358 0.980423 GTTTTTGGGGGCTGGCATTA 59.020 50.000 2.88 0.00 0.00 1.90
2334 2392 1.585267 GCATGGTGCCGACATGAACA 61.585 55.000 14.27 0.00 46.60 3.18
2335 2393 0.168788 CATGGTGCCGACATGAACAC 59.831 55.000 0.00 1.63 46.60 3.32
2336 2394 0.036732 ATGGTGCCGACATGAACACT 59.963 50.000 0.00 0.00 33.53 3.55
2337 2395 0.682292 TGGTGCCGACATGAACACTA 59.318 50.000 0.00 0.00 33.53 2.74
2338 2396 1.076332 GGTGCCGACATGAACACTAC 58.924 55.000 0.00 0.00 33.53 2.73
2339 2397 1.606994 GGTGCCGACATGAACACTACA 60.607 52.381 0.00 0.00 33.53 2.74
2340 2398 2.139917 GTGCCGACATGAACACTACAA 58.860 47.619 0.00 0.00 0.00 2.41
2341 2399 2.157668 GTGCCGACATGAACACTACAAG 59.842 50.000 0.00 0.00 0.00 3.16
2342 2400 2.036604 TGCCGACATGAACACTACAAGA 59.963 45.455 0.00 0.00 0.00 3.02
2343 2401 3.064207 GCCGACATGAACACTACAAGAA 58.936 45.455 0.00 0.00 0.00 2.52
2344 2402 3.496884 GCCGACATGAACACTACAAGAAA 59.503 43.478 0.00 0.00 0.00 2.52
2345 2403 4.154195 GCCGACATGAACACTACAAGAAAT 59.846 41.667 0.00 0.00 0.00 2.17
2346 2404 5.350365 GCCGACATGAACACTACAAGAAATA 59.650 40.000 0.00 0.00 0.00 1.40
2347 2405 6.037172 GCCGACATGAACACTACAAGAAATAT 59.963 38.462 0.00 0.00 0.00 1.28
2348 2406 7.401860 CCGACATGAACACTACAAGAAATATG 58.598 38.462 0.00 0.00 0.00 1.78
2349 2407 7.064609 CCGACATGAACACTACAAGAAATATGT 59.935 37.037 0.00 0.00 34.81 2.29
2350 2408 8.110612 CGACATGAACACTACAAGAAATATGTC 58.889 37.037 0.00 0.00 38.05 3.06
2351 2409 8.846943 ACATGAACACTACAAGAAATATGTCA 57.153 30.769 0.00 0.00 32.27 3.58
2352 2410 9.283768 ACATGAACACTACAAGAAATATGTCAA 57.716 29.630 0.00 0.00 32.27 3.18
2353 2411 9.546909 CATGAACACTACAAGAAATATGTCAAC 57.453 33.333 0.00 0.00 32.27 3.18
2354 2412 8.902540 TGAACACTACAAGAAATATGTCAACT 57.097 30.769 0.00 0.00 32.27 3.16
2355 2413 9.337396 TGAACACTACAAGAAATATGTCAACTT 57.663 29.630 0.00 0.00 32.27 2.66
2356 2414 9.599322 GAACACTACAAGAAATATGTCAACTTG 57.401 33.333 0.00 0.00 42.11 3.16
2358 2416 8.559536 ACACTACAAGAAATATGTCAACTTGTG 58.440 33.333 17.23 11.83 46.45 3.33
2359 2417 8.773645 CACTACAAGAAATATGTCAACTTGTGA 58.226 33.333 17.23 4.99 46.45 3.58
2372 2430 5.063204 TCAACTTGTGACCTTGACTATTGG 58.937 41.667 0.00 0.00 0.00 3.16
2373 2431 4.706842 ACTTGTGACCTTGACTATTGGT 57.293 40.909 0.00 0.00 36.70 3.67
2386 2444 4.894784 GACTATTGGTCACTGAAAGGTCA 58.105 43.478 0.00 0.00 43.94 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
356 358 1.004595 GGGTTGGCGTATTTCGAGAC 58.995 55.000 0.00 0.00 42.86 3.36
397 399 4.573201 GGTGATTATAAAGGTGCGCTACAA 59.427 41.667 9.73 0.00 0.00 2.41
403 405 3.541632 ACTGGGTGATTATAAAGGTGCG 58.458 45.455 0.00 0.00 0.00 5.34
653 666 8.902540 ATTCATGCTAGAATTGTATTAACCGA 57.097 30.769 0.00 0.00 34.70 4.69
753 771 0.537371 AGAAGGAACAACTTGGGCCG 60.537 55.000 0.00 0.00 0.00 6.13
785 803 2.801679 CGCAGCAAAACATTTTGGACAT 59.198 40.909 16.66 0.00 45.73 3.06
786 804 2.200067 CGCAGCAAAACATTTTGGACA 58.800 42.857 16.66 0.00 45.73 4.02
787 805 2.200899 ACGCAGCAAAACATTTTGGAC 58.799 42.857 16.66 3.61 45.73 4.02
788 806 2.593346 ACGCAGCAAAACATTTTGGA 57.407 40.000 16.66 0.00 45.73 3.53
791 809 3.063316 GTCCAAACGCAGCAAAACATTTT 59.937 39.130 0.00 0.00 0.00 1.82
792 810 2.607180 GTCCAAACGCAGCAAAACATTT 59.393 40.909 0.00 0.00 0.00 2.32
793 811 2.159114 AGTCCAAACGCAGCAAAACATT 60.159 40.909 0.00 0.00 0.00 2.71
794 812 1.408702 AGTCCAAACGCAGCAAAACAT 59.591 42.857 0.00 0.00 0.00 2.71
795 813 0.814457 AGTCCAAACGCAGCAAAACA 59.186 45.000 0.00 0.00 0.00 2.83
796 814 1.477105 GAGTCCAAACGCAGCAAAAC 58.523 50.000 0.00 0.00 0.00 2.43
797 815 0.383949 GGAGTCCAAACGCAGCAAAA 59.616 50.000 3.60 0.00 0.00 2.44
798 816 1.781025 CGGAGTCCAAACGCAGCAAA 61.781 55.000 10.49 0.00 0.00 3.68
799 817 2.250939 CGGAGTCCAAACGCAGCAA 61.251 57.895 10.49 0.00 0.00 3.91
800 818 2.664851 CGGAGTCCAAACGCAGCA 60.665 61.111 10.49 0.00 0.00 4.41
810 828 5.392703 GGAAAATCAATACCAAACGGAGTCC 60.393 44.000 0.00 0.00 45.00 3.85
865 883 1.893808 CACACCACCTGAGTGCCAC 60.894 63.158 0.00 0.00 43.09 5.01
867 885 2.281761 CCACACCACCTGAGTGCC 60.282 66.667 0.00 0.00 43.09 5.01
872 890 4.269523 GGCTGCCACACCACCTGA 62.270 66.667 15.17 0.00 0.00 3.86
965 988 2.440627 TGCCAGCTTGATCATAGGTCAT 59.559 45.455 0.00 0.00 0.00 3.06
995 1019 2.490903 GCAACCTGATCTTGCATGAAGT 59.509 45.455 12.01 0.00 43.04 3.01
1049 1073 0.962356 GTCGTAGTCCTCCGGGAACA 60.962 60.000 0.00 0.00 44.15 3.18
1164 1189 2.690778 GCATGCCTTCGTCCGCTTT 61.691 57.895 6.36 0.00 0.00 3.51
1199 1224 1.000843 TCCAACACTCACACAGGATCG 59.999 52.381 0.00 0.00 0.00 3.69
1286 1311 0.109086 ACGCTCATGGAACTCACGAG 60.109 55.000 0.00 0.00 38.60 4.18
1359 1384 4.081365 TGTTGTATCACCTTCCATCGCTTA 60.081 41.667 0.00 0.00 0.00 3.09
1384 1409 2.493675 TGGCACAAAACTTGTTGCACTA 59.506 40.909 12.61 0.00 43.23 2.74
1463 1488 0.539438 AAACAAAGAGGGCCGCATGA 60.539 50.000 17.41 0.00 0.00 3.07
1566 1600 1.358787 TGGACCTTGAATGCCTCCAAT 59.641 47.619 0.00 0.00 0.00 3.16
1708 1743 2.123640 GTAGCTCCTCGCCCTCCT 60.124 66.667 0.00 0.00 40.39 3.69
1745 1781 1.270839 CGCTTGTCCTCCTTCTTGGAA 60.271 52.381 0.00 0.00 45.63 3.53
1804 1840 3.840078 TGAGTCCTTCTTGGTCATCATGA 59.160 43.478 0.00 0.00 37.07 3.07
1839 1875 0.036010 CCATCCTTGTCTTGCCGACT 60.036 55.000 5.07 0.00 43.25 4.18
1908 1944 1.608717 ATCCTCGCTTGCTTCTCCGT 61.609 55.000 0.00 0.00 0.00 4.69
2026 2065 1.216064 CTTCATGATCTCCACCCCCA 58.784 55.000 0.00 0.00 0.00 4.96
2051 2091 1.603802 CTTGGCGACACAATGTTGAGT 59.396 47.619 0.00 0.00 42.67 3.41
2116 2157 4.648651 TGCCATAGATCACTCATCATTGG 58.351 43.478 0.00 0.00 38.20 3.16
2118 2159 5.071384 TGTCTGCCATAGATCACTCATCATT 59.929 40.000 0.00 0.00 37.83 2.57
2300 2358 1.179174 CATGCCAGCAGCCAGCATAT 61.179 55.000 17.17 0.00 45.16 1.78
2334 2392 8.902540 TCACAAGTTGACATATTTCTTGTAGT 57.097 30.769 10.54 0.00 44.11 2.73
2349 2407 5.063204 CCAATAGTCAAGGTCACAAGTTGA 58.937 41.667 10.54 0.00 0.00 3.18
2350 2408 4.821805 ACCAATAGTCAAGGTCACAAGTTG 59.178 41.667 0.00 0.00 0.00 3.16
2351 2409 5.048846 ACCAATAGTCAAGGTCACAAGTT 57.951 39.130 0.00 0.00 0.00 2.66
2352 2410 4.706842 ACCAATAGTCAAGGTCACAAGT 57.293 40.909 0.00 0.00 0.00 3.16
2364 2422 4.894784 TGACCTTTCAGTGACCAATAGTC 58.105 43.478 0.00 0.00 46.51 2.59
2365 2423 4.974645 TGACCTTTCAGTGACCAATAGT 57.025 40.909 0.00 0.00 0.00 2.12


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

AutoCloner maintained by Alex Coulton.