Multiple sequence alignment - TraesCS5D01G433100

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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 TraesCS5D01G433100 chr5D 100.000 2882 0 0 1 2882 488902257 488899376 0.000000e+00 5323
1 TraesCS5D01G433100 chr5D 85.156 128 15 4 1285 1410 519435853 519435728 8.380000e-26 128
2 TraesCS5D01G433100 chr5B 92.093 1543 57 26 864 2356 602341624 602340097 0.000000e+00 2113
3 TraesCS5D01G433100 chr5B 92.144 891 43 19 1 867 602342536 602341649 0.000000e+00 1232
4 TraesCS5D01G433100 chr5B 92.623 488 25 5 2396 2882 602340094 602339617 0.000000e+00 691
5 TraesCS5D01G433100 chr5B 85.156 128 15 4 1285 1410 653809262 653809137 8.380000e-26 128
6 TraesCS5D01G433100 chr5A 90.049 1648 68 21 765 2356 609956658 609955051 0.000000e+00 2047
7 TraesCS5D01G433100 chr5A 91.039 491 21 7 2396 2882 609955048 609954577 2.420000e-180 641
8 TraesCS5D01G433100 chr5A 91.339 381 19 8 273 644 609957273 609956898 2.560000e-140 508
9 TraesCS5D01G433100 chr5A 88.557 201 19 4 47 246 609957568 609957371 1.030000e-59 241
10 TraesCS5D01G433100 chr5A 83.582 134 18 4 1279 1410 646010634 646010503 3.900000e-24 122
11 TraesCS5D01G433100 chr3D 86.765 136 12 6 1282 1414 330062836 330062704 2.310000e-31 147
12 TraesCS5D01G433100 chr2B 84.672 137 13 7 1281 1413 640765313 640765181 2.330000e-26 130
13 TraesCS5D01G433100 chr2A 84.672 137 13 7 1281 1413 680357725 680357593 2.330000e-26 130
14 TraesCS5D01G433100 chr4A 80.702 171 24 8 1242 1405 1076559 1076727 1.080000e-24 124


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 TraesCS5D01G433100 chr5D 488899376 488902257 2881 True 5323.000000 5323 100.000000 1 2882 1 chr5D.!!$R1 2881
1 TraesCS5D01G433100 chr5B 602339617 602342536 2919 True 1345.333333 2113 92.286667 1 2882 3 chr5B.!!$R2 2881
2 TraesCS5D01G433100 chr5A 609954577 609957568 2991 True 859.250000 2047 90.246000 47 2882 4 chr5A.!!$R2 2835

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
277 345 0.323816 TACATTGCGGGCATCCCAAA 60.324 50.000 2.47 0.00 45.83 3.28 F
316 389 0.638242 TCGAATTCGAATCACGCACG 59.362 50.000 27.36 16.39 46.30 5.34 F
1017 1251 1.070445 GATGGGGATGTCTCCTGCG 59.930 63.158 0.00 0.00 41.74 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1518 1761 0.175073 CTTCCCCGGTAGGACGAAAG 59.825 60.000 0.00 0.0 41.02 2.62 R
1743 1986 1.737008 GTCGAACTCCACCGCCTTC 60.737 63.158 0.00 0.0 0.00 3.46 R
2369 2670 0.179059 ATGATGTGCACGCCCGATTA 60.179 50.000 13.13 0.0 0.00 1.75 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
76 77 8.298030 ACAATTTTCTTCTGCGAAAAATAAGG 57.702 30.769 3.24 0.59 43.63 2.69
77 78 7.384932 ACAATTTTCTTCTGCGAAAAATAAGGG 59.615 33.333 3.24 0.00 43.63 3.95
88 89 5.676331 GCGAAAAATAAGGGGCTTAGACAAG 60.676 44.000 0.00 0.00 34.66 3.16
93 94 3.329929 AAGGGGCTTAGACAAGTAACG 57.670 47.619 0.00 0.00 34.00 3.18
236 239 3.605634 ACTATGCCAAGCACACGATTTA 58.394 40.909 0.00 0.00 43.04 1.40
237 240 2.919666 ATGCCAAGCACACGATTTAC 57.080 45.000 0.00 0.00 43.04 2.01
238 241 0.878416 TGCCAAGCACACGATTTACC 59.122 50.000 0.00 0.00 31.71 2.85
277 345 0.323816 TACATTGCGGGCATCCCAAA 60.324 50.000 2.47 0.00 45.83 3.28
278 346 1.142314 CATTGCGGGCATCCCAAAG 59.858 57.895 2.47 0.00 45.83 2.77
316 389 0.638242 TCGAATTCGAATCACGCACG 59.362 50.000 27.36 16.39 46.30 5.34
499 580 2.557317 GAGAGGACGAGAGGAGTACTG 58.443 57.143 0.00 0.00 31.89 2.74
556 640 2.308690 ACCATCTCCTTCCGCTAGTAC 58.691 52.381 0.00 0.00 0.00 2.73
745 831 2.202676 CGGAGCTTCGTCTCTGGC 60.203 66.667 6.14 0.00 36.16 4.85
795 1000 2.735857 GCGCCTTTGCTTGCTTGG 60.736 61.111 0.00 0.00 34.43 3.61
802 1007 1.109920 TTTGCTTGCTTGGCCCGTTA 61.110 50.000 0.00 0.00 0.00 3.18
895 1129 3.623060 TCGCTGATTCTGGCAAGTATTTC 59.377 43.478 0.00 0.00 0.00 2.17
928 1162 1.892209 TGGAGAAGCTTTTTCGTCCC 58.108 50.000 0.00 0.00 0.00 4.46
998 1232 1.680522 ATCTCAGTAGCGCTGGTGGG 61.681 60.000 22.90 17.22 45.08 4.61
1017 1251 1.070445 GATGGGGATGTCTCCTGCG 59.930 63.158 0.00 0.00 41.74 5.18
1434 1677 3.411517 CGCCTCAAGGGGTCCCAT 61.412 66.667 10.98 0.00 42.54 4.00
1638 1881 2.995450 CTCGTTCAACCCGTTCGCG 61.995 63.158 0.00 0.00 40.93 5.87
1640 1883 2.873604 CGTTCAACCCGTTCGCGTT 61.874 57.895 5.77 0.00 39.32 4.84
1642 1885 3.170810 TTCAACCCGTTCGCGTTGC 62.171 57.895 15.02 0.00 39.32 4.17
1782 2025 4.415150 CAGCAGCCGTGGTGGGAT 62.415 66.667 5.46 0.00 46.56 3.85
2240 2518 5.287035 CCCGTTACTGTAATGACGAGTAAAC 59.713 44.000 18.84 0.00 37.69 2.01
2241 2519 6.088824 CCGTTACTGTAATGACGAGTAAACT 58.911 40.000 18.84 0.00 37.69 2.66
2242 2520 6.033196 CCGTTACTGTAATGACGAGTAAACTG 59.967 42.308 18.84 0.00 37.69 3.16
2310 2610 2.587956 CTTGGTCGTCGTCGTTATGAA 58.412 47.619 1.33 0.00 38.33 2.57
2319 2619 5.858049 TCGTCGTCGTTATGAATTGTTTACT 59.142 36.000 1.33 0.00 38.33 2.24
2320 2620 7.007367 GTCGTCGTCGTTATGAATTGTTTACTA 59.993 37.037 1.33 0.00 38.33 1.82
2321 2621 7.007367 TCGTCGTCGTTATGAATTGTTTACTAC 59.993 37.037 1.33 0.00 38.33 2.73
2331 2631 0.599558 TGTTTACTACGCGAGCTGGT 59.400 50.000 15.93 0.12 0.00 4.00
2356 2657 1.531149 AGTGGTGAAGATTTTGCGTCG 59.469 47.619 0.00 0.00 0.00 5.12
2358 2659 1.262950 TGGTGAAGATTTTGCGTCGTG 59.737 47.619 0.00 0.00 0.00 4.35
2359 2660 1.529438 GGTGAAGATTTTGCGTCGTGA 59.471 47.619 0.00 0.00 0.00 4.35
2360 2661 2.159627 GGTGAAGATTTTGCGTCGTGAT 59.840 45.455 0.00 0.00 0.00 3.06
2361 2662 3.364964 GGTGAAGATTTTGCGTCGTGATT 60.365 43.478 0.00 0.00 0.00 2.57
2362 2663 3.599514 GTGAAGATTTTGCGTCGTGATTG 59.400 43.478 0.00 0.00 0.00 2.67
2363 2664 3.249799 TGAAGATTTTGCGTCGTGATTGT 59.750 39.130 0.00 0.00 0.00 2.71
2364 2665 3.187478 AGATTTTGCGTCGTGATTGTG 57.813 42.857 0.00 0.00 0.00 3.33
2365 2666 1.643810 GATTTTGCGTCGTGATTGTGC 59.356 47.619 0.00 0.00 0.00 4.57
2366 2667 0.378610 TTTTGCGTCGTGATTGTGCA 59.621 45.000 0.00 0.00 0.00 4.57
2367 2668 0.590682 TTTGCGTCGTGATTGTGCAT 59.409 45.000 0.00 0.00 35.20 3.96
2368 2669 0.110283 TTGCGTCGTGATTGTGCATG 60.110 50.000 0.00 0.00 35.20 4.06
2369 2670 1.227342 TGCGTCGTGATTGTGCATGT 61.227 50.000 0.00 0.00 0.00 3.21
2370 2671 0.718904 GCGTCGTGATTGTGCATGTA 59.281 50.000 0.00 0.00 0.00 2.29
2371 2672 1.127766 GCGTCGTGATTGTGCATGTAA 59.872 47.619 0.00 0.00 0.00 2.41
2372 2673 2.223021 GCGTCGTGATTGTGCATGTAAT 60.223 45.455 0.00 0.00 0.00 1.89
2373 2674 3.597324 CGTCGTGATTGTGCATGTAATC 58.403 45.455 11.94 11.94 34.64 1.75
2374 2675 3.597324 GTCGTGATTGTGCATGTAATCG 58.403 45.455 13.23 6.07 36.36 3.34
2375 2676 2.607180 TCGTGATTGTGCATGTAATCGG 59.393 45.455 13.23 9.53 36.36 4.18
2376 2677 2.286359 CGTGATTGTGCATGTAATCGGG 60.286 50.000 13.23 6.80 36.36 5.14
2377 2678 1.675483 TGATTGTGCATGTAATCGGGC 59.325 47.619 13.23 0.00 36.36 6.13
2378 2679 0.662619 ATTGTGCATGTAATCGGGCG 59.337 50.000 0.00 0.00 0.00 6.13
2379 2680 0.675208 TTGTGCATGTAATCGGGCGT 60.675 50.000 0.00 0.00 0.00 5.68
2380 2681 1.351707 GTGCATGTAATCGGGCGTG 59.648 57.895 0.00 0.00 0.00 5.34
2381 2682 2.327940 GCATGTAATCGGGCGTGC 59.672 61.111 0.00 0.00 39.89 5.34
2382 2683 2.468670 GCATGTAATCGGGCGTGCA 61.469 57.895 0.00 0.00 44.44 4.57
2383 2684 1.351707 CATGTAATCGGGCGTGCAC 59.648 57.895 6.82 6.82 0.00 4.57
2384 2685 1.078778 ATGTAATCGGGCGTGCACA 60.079 52.632 18.64 0.00 0.00 4.57
2385 2686 0.463654 ATGTAATCGGGCGTGCACAT 60.464 50.000 18.64 0.00 0.00 3.21
2386 2687 1.087202 TGTAATCGGGCGTGCACATC 61.087 55.000 18.64 7.63 0.00 3.06
2387 2688 1.087202 GTAATCGGGCGTGCACATCA 61.087 55.000 18.64 0.00 0.00 3.07
2388 2689 0.179059 TAATCGGGCGTGCACATCAT 60.179 50.000 18.64 0.00 0.00 2.45
2389 2690 1.439353 AATCGGGCGTGCACATCATC 61.439 55.000 18.64 0.58 0.00 2.92
2390 2691 2.315781 ATCGGGCGTGCACATCATCT 62.316 55.000 18.64 0.00 0.00 2.90
2391 2692 2.108514 CGGGCGTGCACATCATCTT 61.109 57.895 18.64 0.00 0.00 2.40
2392 2693 1.647545 CGGGCGTGCACATCATCTTT 61.648 55.000 18.64 0.00 0.00 2.52
2393 2694 1.378531 GGGCGTGCACATCATCTTTA 58.621 50.000 18.64 0.00 0.00 1.85
2394 2695 1.064060 GGGCGTGCACATCATCTTTAC 59.936 52.381 18.64 0.00 0.00 2.01
2415 2716 1.675310 CTGGCTCCAAATCCACGCA 60.675 57.895 0.00 0.00 0.00 5.24
2430 2731 3.357079 GCACAAGTGGGAGCGTGG 61.357 66.667 2.00 0.00 0.00 4.94
2504 2806 4.169696 TGTAGGGCCGCGGATTGG 62.170 66.667 33.48 0.95 0.00 3.16
2505 2807 4.929707 GTAGGGCCGCGGATTGGG 62.930 72.222 33.48 0.01 0.00 4.12
2508 2810 4.894896 GGGCCGCGGATTGGGATT 62.895 66.667 33.48 0.00 0.00 3.01
2509 2811 3.595758 GGCCGCGGATTGGGATTG 61.596 66.667 33.48 0.00 0.00 2.67
2520 2822 3.539604 GATTGGGATTGTGAGAGGTCAG 58.460 50.000 0.00 0.00 31.53 3.51
2524 2826 2.569404 GGGATTGTGAGAGGTCAGTTCT 59.431 50.000 0.00 0.00 31.53 3.01
2532 2834 2.805099 GAGAGGTCAGTTCTGCAAAGTG 59.195 50.000 9.05 9.05 0.00 3.16
2542 2844 2.099062 GCAAAGTGGCGCAGATCG 59.901 61.111 10.83 0.00 42.12 3.69
2547 2850 2.533266 AAGTGGCGCAGATCGAATAT 57.467 45.000 10.83 0.00 41.67 1.28
2550 2853 1.649171 GTGGCGCAGATCGAATATACG 59.351 52.381 10.83 0.00 41.67 3.06
2551 2854 1.268625 TGGCGCAGATCGAATATACGT 59.731 47.619 10.83 0.00 41.67 3.57
2552 2855 2.485038 TGGCGCAGATCGAATATACGTA 59.515 45.455 10.83 0.00 41.67 3.57
2553 2856 2.844804 GGCGCAGATCGAATATACGTAC 59.155 50.000 10.83 0.00 41.67 3.67
2694 2997 0.867746 TTGCTGCTTACGAGTGCTTG 59.132 50.000 0.00 0.00 0.00 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
54 55 6.398095 CCCCTTATTTTTCGCAGAAGAAAAT 58.602 36.000 5.84 1.85 45.80 1.82
74 75 2.233186 GACGTTACTTGTCTAAGCCCCT 59.767 50.000 0.00 0.00 37.43 4.79
76 77 2.614779 GGACGTTACTTGTCTAAGCCC 58.385 52.381 0.00 0.00 37.43 5.19
77 78 2.257034 CGGACGTTACTTGTCTAAGCC 58.743 52.381 0.00 0.00 37.43 4.35
88 89 1.694639 CACTCACTTCCGGACGTTAC 58.305 55.000 11.51 0.00 0.00 2.50
93 94 0.667792 GACTGCACTCACTTCCGGAC 60.668 60.000 1.83 0.00 0.00 4.79
236 239 7.298374 TGTATCATCAGATTAGGTACTCTGGT 58.702 38.462 9.30 0.69 39.48 4.00
237 240 7.767250 TGTATCATCAGATTAGGTACTCTGG 57.233 40.000 9.30 0.00 39.48 3.86
238 241 9.636879 CAATGTATCATCAGATTAGGTACTCTG 57.363 37.037 3.96 3.96 40.20 3.35
277 345 4.761739 TCGAAGTGGATTTGAATTTGAGCT 59.238 37.500 0.00 0.00 0.00 4.09
278 346 5.046910 TCGAAGTGGATTTGAATTTGAGC 57.953 39.130 0.00 0.00 0.00 4.26
316 389 1.718757 GCTCATGCCCGGAATGTGAC 61.719 60.000 17.95 9.16 0.00 3.67
337 413 0.178873 ACCACTTTGCCCTCCTCCTA 60.179 55.000 0.00 0.00 0.00 2.94
556 640 6.095720 CAGAGGTTGGAGAAAGGTACTAGTAG 59.904 46.154 1.87 0.00 38.49 2.57
576 660 1.268283 GGAGGGGGTTGAGACAGAGG 61.268 65.000 0.00 0.00 0.00 3.69
745 831 2.028190 CAGCCCGATACCTCGCAG 59.972 66.667 0.00 0.00 43.66 5.18
757 843 4.529731 GCCAGGAATCCCCAGCCC 62.530 72.222 0.00 0.00 37.41 5.19
758 844 4.883354 CGCCAGGAATCCCCAGCC 62.883 72.222 0.00 0.00 37.41 4.85
795 1000 2.388232 CGCACTCCAAGTAACGGGC 61.388 63.158 0.00 0.00 0.00 6.13
802 1007 2.259818 CGAGCTCGCACTCCAAGT 59.740 61.111 25.07 0.00 32.79 3.16
864 1069 1.332997 CAGAATCAGCGAAGAATGGCC 59.667 52.381 0.00 0.00 0.00 5.36
867 1072 2.011947 TGCCAGAATCAGCGAAGAATG 58.988 47.619 0.00 0.00 0.00 2.67
895 1129 2.675658 TCTCCAAACTTTCCCCTTGG 57.324 50.000 0.00 0.00 40.88 3.61
928 1162 3.068873 TCTTCCAATTTGGGGAAAACACG 59.931 43.478 15.37 0.00 43.48 4.49
1428 1671 2.033448 TTGGTGACGGCATGGGAC 59.967 61.111 0.00 0.00 0.00 4.46
1434 1677 1.300620 CGAGAAGTTGGTGACGGCA 60.301 57.895 0.00 0.00 0.00 5.69
1518 1761 0.175073 CTTCCCCGGTAGGACGAAAG 59.825 60.000 0.00 0.00 41.02 2.62
1519 1762 1.891722 GCTTCCCCGGTAGGACGAAA 61.892 60.000 7.33 0.00 41.02 3.46
1521 1764 2.757099 GCTTCCCCGGTAGGACGA 60.757 66.667 7.33 0.00 41.02 4.20
1698 1941 2.580867 CAGAGCTCGCCGTACAGC 60.581 66.667 8.37 0.00 35.73 4.40
1743 1986 1.737008 GTCGAACTCCACCGCCTTC 60.737 63.158 0.00 0.00 0.00 3.46
2240 2518 4.213270 ACCATCACGACAACAATTACACAG 59.787 41.667 0.00 0.00 0.00 3.66
2241 2519 4.024472 CACCATCACGACAACAATTACACA 60.024 41.667 0.00 0.00 0.00 3.72
2242 2520 4.024387 ACACCATCACGACAACAATTACAC 60.024 41.667 0.00 0.00 0.00 2.90
2310 2610 2.268298 CCAGCTCGCGTAGTAAACAAT 58.732 47.619 5.77 0.00 0.00 2.71
2319 2619 1.080772 CTTGACACCAGCTCGCGTA 60.081 57.895 5.77 0.00 0.00 4.42
2320 2620 2.356313 CTTGACACCAGCTCGCGT 60.356 61.111 5.77 0.00 0.00 6.01
2321 2621 2.356313 ACTTGACACCAGCTCGCG 60.356 61.111 0.00 0.00 0.00 5.87
2331 2631 3.243035 CGCAAAATCTTCACCACTTGACA 60.243 43.478 0.00 0.00 32.26 3.58
2356 2657 2.541588 GCCCGATTACATGCACAATCAC 60.542 50.000 14.47 3.76 31.86 3.06
2358 2659 1.334059 CGCCCGATTACATGCACAATC 60.334 52.381 0.00 0.00 0.00 2.67
2359 2660 0.662619 CGCCCGATTACATGCACAAT 59.337 50.000 0.00 0.00 0.00 2.71
2360 2661 0.675208 ACGCCCGATTACATGCACAA 60.675 50.000 0.00 0.00 0.00 3.33
2361 2662 1.078778 ACGCCCGATTACATGCACA 60.079 52.632 0.00 0.00 0.00 4.57
2362 2663 1.351707 CACGCCCGATTACATGCAC 59.648 57.895 0.00 0.00 0.00 4.57
2363 2664 2.468670 GCACGCCCGATTACATGCA 61.469 57.895 0.00 0.00 33.27 3.96
2364 2665 2.327940 GCACGCCCGATTACATGC 59.672 61.111 0.00 0.00 0.00 4.06
2365 2666 1.351707 GTGCACGCCCGATTACATG 59.648 57.895 0.00 0.00 0.00 3.21
2366 2667 0.463654 ATGTGCACGCCCGATTACAT 60.464 50.000 13.13 0.00 0.00 2.29
2367 2668 1.078778 ATGTGCACGCCCGATTACA 60.079 52.632 13.13 0.00 0.00 2.41
2368 2669 1.087202 TGATGTGCACGCCCGATTAC 61.087 55.000 13.13 0.00 0.00 1.89
2369 2670 0.179059 ATGATGTGCACGCCCGATTA 60.179 50.000 13.13 0.00 0.00 1.75
2370 2671 1.439353 GATGATGTGCACGCCCGATT 61.439 55.000 13.13 0.00 0.00 3.34
2371 2672 1.889105 GATGATGTGCACGCCCGAT 60.889 57.895 13.13 0.00 0.00 4.18
2372 2673 2.511373 GATGATGTGCACGCCCGA 60.511 61.111 13.13 0.00 0.00 5.14
2373 2674 1.647545 AAAGATGATGTGCACGCCCG 61.648 55.000 13.13 0.00 0.00 6.13
2374 2675 1.064060 GTAAAGATGATGTGCACGCCC 59.936 52.381 13.13 4.16 0.00 6.13
2375 2676 2.009774 AGTAAAGATGATGTGCACGCC 58.990 47.619 13.13 6.85 0.00 5.68
2376 2677 3.865745 AGTAGTAAAGATGATGTGCACGC 59.134 43.478 13.13 7.49 0.00 5.34
2377 2678 4.268644 CCAGTAGTAAAGATGATGTGCACG 59.731 45.833 13.13 0.00 0.00 5.34
2378 2679 4.034510 GCCAGTAGTAAAGATGATGTGCAC 59.965 45.833 10.75 10.75 0.00 4.57
2379 2680 4.080919 AGCCAGTAGTAAAGATGATGTGCA 60.081 41.667 0.00 0.00 0.00 4.57
2380 2681 4.446371 AGCCAGTAGTAAAGATGATGTGC 58.554 43.478 0.00 0.00 0.00 4.57
2381 2682 5.053145 GGAGCCAGTAGTAAAGATGATGTG 58.947 45.833 0.00 0.00 0.00 3.21
2382 2683 4.716784 TGGAGCCAGTAGTAAAGATGATGT 59.283 41.667 0.00 0.00 0.00 3.06
2383 2684 5.282055 TGGAGCCAGTAGTAAAGATGATG 57.718 43.478 0.00 0.00 0.00 3.07
2384 2685 5.957771 TTGGAGCCAGTAGTAAAGATGAT 57.042 39.130 0.00 0.00 0.00 2.45
2385 2686 5.755409 TTTGGAGCCAGTAGTAAAGATGA 57.245 39.130 0.00 0.00 0.00 2.92
2386 2687 5.529060 GGATTTGGAGCCAGTAGTAAAGATG 59.471 44.000 0.00 0.00 0.00 2.90
2387 2688 5.191722 TGGATTTGGAGCCAGTAGTAAAGAT 59.808 40.000 0.00 0.00 36.14 2.40
2388 2689 4.534500 TGGATTTGGAGCCAGTAGTAAAGA 59.466 41.667 0.00 0.00 36.14 2.52
2389 2690 4.636206 GTGGATTTGGAGCCAGTAGTAAAG 59.364 45.833 0.00 0.00 43.16 1.85
2390 2691 4.585879 GTGGATTTGGAGCCAGTAGTAAA 58.414 43.478 0.00 0.00 43.16 2.01
2391 2692 3.369052 CGTGGATTTGGAGCCAGTAGTAA 60.369 47.826 0.00 0.00 43.16 2.24
2392 2693 2.167693 CGTGGATTTGGAGCCAGTAGTA 59.832 50.000 0.00 0.00 43.16 1.82
2393 2694 1.066143 CGTGGATTTGGAGCCAGTAGT 60.066 52.381 0.00 0.00 43.16 2.73
2394 2695 1.656652 CGTGGATTTGGAGCCAGTAG 58.343 55.000 0.00 0.00 43.16 2.57
2415 2716 4.643387 GGCCACGCTCCCACTTGT 62.643 66.667 0.00 0.00 0.00 3.16
2430 2731 1.071385 CTACTGGGATCCTGTCATGGC 59.929 57.143 12.58 0.00 36.99 4.40
2504 2806 3.594134 CAGAACTGACCTCTCACAATCC 58.406 50.000 0.00 0.00 0.00 3.01
2505 2807 2.999355 GCAGAACTGACCTCTCACAATC 59.001 50.000 5.97 0.00 0.00 2.67
2506 2808 2.369860 TGCAGAACTGACCTCTCACAAT 59.630 45.455 5.97 0.00 0.00 2.71
2507 2809 1.762370 TGCAGAACTGACCTCTCACAA 59.238 47.619 5.97 0.00 0.00 3.33
2508 2810 1.413118 TGCAGAACTGACCTCTCACA 58.587 50.000 5.97 0.00 0.00 3.58
2509 2811 2.533266 TTGCAGAACTGACCTCTCAC 57.467 50.000 5.97 0.00 0.00 3.51
2520 2822 2.721231 TGCGCCACTTTGCAGAAC 59.279 55.556 4.18 0.00 35.90 3.01
2524 2826 2.679934 CGATCTGCGCCACTTTGCA 61.680 57.895 4.18 0.00 39.13 4.08
2532 2834 1.978542 ACGTATATTCGATCTGCGCC 58.021 50.000 4.18 0.00 40.61 6.53
2542 2844 3.442100 GGCCGGCTATGTACGTATATTC 58.558 50.000 28.56 0.00 0.00 1.75
2547 2850 3.033184 CGGCCGGCTATGTACGTA 58.967 61.111 28.56 0.00 0.00 3.57


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

AutoCloner maintained by Alex Coulton.