Multiple sequence alignment - TraesCS5A01G073700

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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 TraesCS5A01G073700 chr5A 100.000 2898 0 0 1 2898 86165402 86168299 0.000000e+00 5352.0
1 TraesCS5A01G073700 chr5B 91.617 1348 74 20 357 1698 98024301 98025615 0.000000e+00 1827.0
2 TraesCS5A01G073700 chr5B 89.217 575 45 10 1830 2400 98025732 98026293 0.000000e+00 702.0
3 TraesCS5A01G073700 chr5B 95.690 116 2 2 1728 1843 98025606 98025718 1.770000e-42 183.0
4 TraesCS5A01G073700 chr5B 91.139 79 7 0 279 357 98024194 98024272 1.100000e-19 108.0
5 TraesCS5A01G073700 chr5D 93.137 1224 64 10 1436 2651 92455641 92456852 0.000000e+00 1777.0
6 TraesCS5A01G073700 chr5D 91.579 855 49 14 584 1437 92449603 92450435 0.000000e+00 1158.0
7 TraesCS5A01G073700 chr5D 90.503 358 27 5 1 357 92447154 92447505 1.570000e-127 466.0
8 TraesCS5A01G073700 chr5D 97.462 197 5 0 2702 2898 92456954 92457150 1.290000e-88 337.0
9 TraesCS5A01G073700 chr5D 86.331 139 16 3 2509 2644 555239815 555239953 6.470000e-32 148.0
10 TraesCS5A01G073700 chr1D 81.188 202 29 9 2270 2467 470923437 470923241 1.390000e-33 154.0
11 TraesCS5A01G073700 chr1D 93.421 76 4 1 2817 2892 212455235 212455161 8.490000e-21 111.0
12 TraesCS5A01G073700 chr1D 92.208 77 5 1 2728 2803 180377786 180377710 1.100000e-19 108.0
13 TraesCS5A01G073700 chr1D 92.208 77 5 1 2728 2803 254467884 254467960 1.100000e-19 108.0
14 TraesCS5A01G073700 chrUn 85.612 139 17 3 2509 2644 186175665 186175803 3.010000e-30 143.0
15 TraesCS5A01G073700 chrUn 93.506 77 4 1 2728 2803 298935489 298935413 2.360000e-21 113.0
16 TraesCS5A01G073700 chr7B 85.612 139 17 3 2509 2644 742972980 742973118 3.010000e-30 143.0
17 TraesCS5A01G073700 chr7B 86.170 94 13 0 2367 2460 182619142 182619235 5.110000e-18 102.0
18 TraesCS5A01G073700 chr6B 85.612 139 17 3 2509 2644 264872812 264872674 3.010000e-30 143.0
19 TraesCS5A01G073700 chr6B 93.506 77 4 1 2728 2803 267066674 267066750 2.360000e-21 113.0
20 TraesCS5A01G073700 chr6A 85.507 138 18 2 2509 2644 76715409 76715272 3.010000e-30 143.0
21 TraesCS5A01G073700 chr6A 80.645 155 26 4 126 278 228888788 228888636 1.820000e-22 117.0
22 TraesCS5A01G073700 chr3D 85.612 139 17 3 2509 2644 478082576 478082438 3.010000e-30 143.0
23 TraesCS5A01G073700 chr3D 80.745 161 27 3 120 278 462623592 462623750 3.920000e-24 122.0
24 TraesCS5A01G073700 chr3D 93.421 76 4 1 2817 2892 602869426 602869352 8.490000e-21 111.0
25 TraesCS5A01G073700 chr3D 92.208 77 5 1 2728 2803 545160729 545160653 1.100000e-19 108.0
26 TraesCS5A01G073700 chr3B 85.612 139 17 3 2509 2644 5096263 5096401 3.010000e-30 143.0
27 TraesCS5A01G073700 chr3B 85.612 139 17 3 2509 2644 92245564 92245702 3.010000e-30 143.0
28 TraesCS5A01G073700 chr3B 80.380 158 25 6 125 278 444145365 444145520 6.560000e-22 115.0
29 TraesCS5A01G073700 chr3B 93.506 77 4 1 2728 2803 201480885 201480961 2.360000e-21 113.0
30 TraesCS5A01G073700 chr3B 79.878 164 25 7 121 278 319889681 319889842 2.360000e-21 113.0
31 TraesCS5A01G073700 chr2D 81.366 161 26 3 120 278 362655176 362655018 8.430000e-26 128.0
32 TraesCS5A01G073700 chr4B 80.745 161 27 3 120 278 281108480 281108322 3.920000e-24 122.0
33 TraesCS5A01G073700 chr4B 75.338 296 46 20 1 278 330230777 330230491 1.820000e-22 117.0
34 TraesCS5A01G073700 chr2B 93.590 78 4 1 2817 2894 238892733 238892657 6.560000e-22 115.0
35 TraesCS5A01G073700 chr2B 75.503 298 40 21 1 278 592577859 592578143 6.560000e-22 115.0
36 TraesCS5A01G073700 chr7A 93.506 77 4 1 2728 2803 537841834 537841910 2.360000e-21 113.0
37 TraesCS5A01G073700 chr7D 91.463 82 6 1 2811 2892 382076977 382077057 8.490000e-21 111.0
38 TraesCS5A01G073700 chr7D 91.463 82 6 1 2811 2892 382080127 382080207 8.490000e-21 111.0
39 TraesCS5A01G073700 chr7D 93.421 76 4 1 2817 2892 626720860 626720786 8.490000e-21 111.0
40 TraesCS5A01G073700 chr7D 80.469 128 14 8 1 125 191067205 191067324 1.430000e-13 87.9
41 TraesCS5A01G073700 chr4D 91.463 82 6 1 2811 2892 123391856 123391936 8.490000e-21 111.0
42 TraesCS5A01G073700 chr4D 91.463 82 6 1 2811 2892 134953344 134953424 8.490000e-21 111.0
43 TraesCS5A01G073700 chr4D 92.208 77 5 1 2728 2803 19909153 19909229 1.100000e-19 108.0
44 TraesCS5A01G073700 chr4D 78.125 128 16 7 1 125 224752719 224752601 1.440000e-08 71.3
45 TraesCS5A01G073700 chr4D 76.667 150 18 10 25 161 213684511 213684656 1.860000e-07 67.6
46 TraesCS5A01G073700 chr4D 76.282 156 20 10 25 167 221219795 221219644 1.860000e-07 67.6


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 TraesCS5A01G073700 chr5A 86165402 86168299 2897 False 5352 5352 100.00000 1 2898 1 chr5A.!!$F1 2897
1 TraesCS5A01G073700 chr5B 98024194 98026293 2099 False 705 1827 91.91575 279 2400 4 chr5B.!!$F1 2121
2 TraesCS5A01G073700 chr5D 92455641 92457150 1509 False 1057 1777 95.29950 1436 2898 2 chr5D.!!$F3 1462
3 TraesCS5A01G073700 chr5D 92447154 92450435 3281 False 812 1158 91.04100 1 1437 2 chr5D.!!$F2 1436

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
487 520 0.032952 CCCGCCGCTACTATGCTTAA 59.967 55.0 0.0 0.0 0.0 1.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2401 4315 0.317854 CGAGCGCGTCTCCATCATTA 60.318 55.0 19.89 0.0 38.62 1.9 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
19 20 0.686224 CCAGCAAGGCCCAATTTTGA 59.314 50.000 0.00 0.00 0.00 2.69
86 87 0.930310 CATAGGGCGTCATGAACACG 59.070 55.000 0.00 0.00 40.35 4.49
197 198 0.585357 CGCTGCAACCATAGCTCATC 59.415 55.000 0.00 0.00 37.78 2.92
200 201 0.829990 TGCAACCATAGCTCATCCGA 59.170 50.000 0.00 0.00 0.00 4.55
202 203 1.871080 CAACCATAGCTCATCCGACC 58.129 55.000 0.00 0.00 0.00 4.79
207 208 1.000283 CATAGCTCATCCGACCTGTCC 60.000 57.143 0.00 0.00 0.00 4.02
212 213 0.684479 TCATCCGACCTGTCCTGAGG 60.684 60.000 0.00 0.00 39.28 3.86
214 215 0.263172 ATCCGACCTGTCCTGAGGAT 59.737 55.000 3.65 0.00 36.51 3.24
220 221 2.364970 GACCTGTCCTGAGGATGAGATG 59.635 54.545 3.65 0.00 36.51 2.90
243 244 0.894184 GGCTCCTATCGGGATCGTCA 60.894 60.000 0.00 0.00 44.15 4.35
248 249 1.269621 CCTATCGGGATCGTCAACACC 60.270 57.143 0.00 0.00 37.23 4.16
253 254 1.601419 GGGATCGTCAACACCTCGGA 61.601 60.000 0.00 0.00 0.00 4.55
337 340 9.175060 CAAACTTTTGGAATTTTGAACGTTTTT 57.825 25.926 0.46 0.00 37.51 1.94
341 344 4.253685 TGGAATTTTGAACGTTTTTGGCA 58.746 34.783 0.46 0.00 0.00 4.92
342 345 4.695455 TGGAATTTTGAACGTTTTTGGCAA 59.305 33.333 0.46 0.00 0.00 4.52
347 350 3.414549 TGAACGTTTTTGGCAAGAGTC 57.585 42.857 0.46 0.00 0.00 3.36
361 393 1.212229 GAGTCGTCGAAGGACCACC 59.788 63.158 12.75 1.97 40.17 4.61
378 410 3.244630 ACCACCGGTTACTGATAAAGCAA 60.245 43.478 2.97 0.00 27.29 3.91
383 415 3.376859 CGGTTACTGATAAAGCAATGGCA 59.623 43.478 0.00 0.00 44.61 4.92
390 422 0.525761 TAAAGCAATGGCAGGCGTTC 59.474 50.000 15.86 0.00 44.61 3.95
474 507 0.872388 GTCCTAAATATTGCCCGCCG 59.128 55.000 0.00 0.00 0.00 6.46
487 520 0.032952 CCCGCCGCTACTATGCTTAA 59.967 55.000 0.00 0.00 0.00 1.85
504 537 4.320870 GCTTAAAGCACTGTTGGGTACTA 58.679 43.478 0.00 0.00 41.89 1.82
539 572 5.048013 GCCAGTGCTACTTTTCCAAAATAGT 60.048 40.000 0.00 0.00 32.39 2.12
582 615 1.278985 TCGCCACTCATTTGAGGTCAT 59.721 47.619 11.99 0.00 46.13 3.06
626 2500 4.943705 GTGCATGTCTCCCTGATTAGAAAA 59.056 41.667 0.00 0.00 0.00 2.29
785 2659 5.541953 ATTAACCCTAACCCTATCGTGTC 57.458 43.478 0.00 0.00 0.00 3.67
786 2660 2.537633 ACCCTAACCCTATCGTGTCA 57.462 50.000 0.00 0.00 0.00 3.58
787 2661 2.823959 ACCCTAACCCTATCGTGTCAA 58.176 47.619 0.00 0.00 0.00 3.18
792 2666 2.109425 ACCCTATCGTGTCAAAAGGC 57.891 50.000 0.00 0.00 0.00 4.35
807 2681 3.124921 GGCGGACAATGTGGGACG 61.125 66.667 0.00 0.00 0.00 4.79
813 2687 2.672651 CAATGTGGGACGGCTGCA 60.673 61.111 0.50 0.00 0.00 4.41
871 2745 2.045926 GGAGGACAATGCGGCACT 60.046 61.111 4.03 0.00 0.00 4.40
920 2794 2.270275 TTTGCTGTTTGGTGTTCACG 57.730 45.000 0.00 0.00 0.00 4.35
968 2847 1.339055 GCGGCAGCATCCCTATTATCA 60.339 52.381 3.18 0.00 44.35 2.15
978 2857 2.234661 TCCCTATTATCATCAGCTGGCG 59.765 50.000 15.13 5.35 0.00 5.69
1010 2889 1.079503 GCAACAACCGCCAAAACAAA 58.920 45.000 0.00 0.00 0.00 2.83
1046 2925 7.401484 TTGTGTGTGTGTGTATATATATGCG 57.599 36.000 5.44 0.00 0.00 4.73
1047 2926 5.923684 TGTGTGTGTGTGTATATATATGCGG 59.076 40.000 5.44 0.00 0.00 5.69
1062 2941 4.469883 CGGAGCATATGCAAGGCT 57.530 55.556 28.62 8.34 45.16 4.58
1102 2981 8.133627 CCATTCTAAATCCAAATCTCACATCAC 58.866 37.037 0.00 0.00 0.00 3.06
1122 3001 2.223735 ACTAGTTATCACCATGACGGCG 60.224 50.000 4.80 4.80 39.03 6.46
1127 3006 2.852495 ATCACCATGACGGCGACCAC 62.852 60.000 16.62 2.37 39.03 4.16
1133 3012 0.740868 ATGACGGCGACCACATTCTG 60.741 55.000 16.62 0.00 0.00 3.02
1134 3013 2.740714 GACGGCGACCACATTCTGC 61.741 63.158 16.62 0.00 0.00 4.26
1140 3019 1.813513 CGACCACATTCTGCCTTCTT 58.186 50.000 0.00 0.00 0.00 2.52
1464 3343 1.228276 GGGCTATAAGGGCAGCACC 60.228 63.158 0.00 0.00 39.63 5.01
1657 3536 2.984471 GACGTTTGATCGTGTGAAGCTA 59.016 45.455 0.00 0.00 44.21 3.32
1699 3578 4.614673 CAACGAGGTTGTGCTTGC 57.385 55.556 0.00 0.00 38.56 4.01
1701 3580 3.181169 AACGAGGTTGTGCTTGCGC 62.181 57.895 0.00 0.00 0.00 6.09
1704 3583 1.081840 GAGGTTGTGCTTGCGCTTC 60.082 57.895 9.73 0.00 36.97 3.86
1706 3585 1.103398 AGGTTGTGCTTGCGCTTCTT 61.103 50.000 9.73 0.00 36.97 2.52
1707 3586 0.249031 GGTTGTGCTTGCGCTTCTTT 60.249 50.000 9.73 0.00 36.97 2.52
1708 3587 1.123655 GTTGTGCTTGCGCTTCTTTC 58.876 50.000 9.73 0.00 36.97 2.62
1709 3588 1.024271 TTGTGCTTGCGCTTCTTTCT 58.976 45.000 9.73 0.00 36.97 2.52
1710 3589 1.024271 TGTGCTTGCGCTTCTTTCTT 58.976 45.000 9.73 0.00 36.97 2.52
1711 3590 1.405105 TGTGCTTGCGCTTCTTTCTTT 59.595 42.857 9.73 0.00 36.97 2.52
1712 3591 2.159254 TGTGCTTGCGCTTCTTTCTTTT 60.159 40.909 9.73 0.00 36.97 2.27
1713 3592 2.469147 GTGCTTGCGCTTCTTTCTTTTC 59.531 45.455 9.73 0.00 36.97 2.29
1714 3593 2.054363 GCTTGCGCTTCTTTCTTTTCC 58.946 47.619 9.73 0.00 0.00 3.13
1718 3597 4.385358 TGCGCTTCTTTCTTTTCCTTTT 57.615 36.364 9.73 0.00 0.00 2.27
1750 3630 1.601759 TGCTTGTGCTTGAGAGGGC 60.602 57.895 0.00 0.00 40.48 5.19
1912 3819 5.334414 GCTTTCGATATTGGCACCATCTTAG 60.334 44.000 0.00 0.00 0.00 2.18
2035 3942 9.590451 AAATGTACTTATGAAGGCAAATTCATG 57.410 29.630 16.80 7.43 46.70 3.07
2105 4012 4.258543 GGAAAACACTTATCATCACCCGA 58.741 43.478 0.00 0.00 0.00 5.14
2147 4054 0.251297 CCACCTTCCCTGCATGACAA 60.251 55.000 0.00 0.00 0.00 3.18
2174 4081 3.636231 CGTCCAAGTGAGGGCCCA 61.636 66.667 27.56 0.00 0.00 5.36
2209 4120 2.555547 GCGCTTCTGCAACAAGGGT 61.556 57.895 18.17 0.00 39.64 4.34
2223 4134 3.697166 ACAAGGGTTATGCTTCCGAAAT 58.303 40.909 0.00 0.00 0.00 2.17
2231 4142 5.350365 GGTTATGCTTCCGAAATATATGCGA 59.650 40.000 9.17 0.00 0.00 5.10
2233 4144 7.223971 GGTTATGCTTCCGAAATATATGCGATA 59.776 37.037 9.17 0.00 0.00 2.92
2256 4167 1.134521 GCAATGGTCTACGATGGGTCA 60.135 52.381 0.00 0.00 0.00 4.02
2273 4184 6.166984 TGGGTCAATGTTCTGCAATAAAAA 57.833 33.333 0.00 0.00 0.00 1.94
2307 4218 7.193595 CAGAAAATTTCTACAACAACGACCTT 58.806 34.615 8.03 0.00 38.11 3.50
2401 4315 4.717233 TCTGCAACAAGACATGTGTTTT 57.283 36.364 1.15 0.00 42.99 2.43
2406 4320 6.567959 TGCAACAAGACATGTGTTTTAATGA 58.432 32.000 1.15 0.00 42.99 2.57
2450 4364 2.895680 GGCAGATCTGACGGCTCA 59.104 61.111 27.04 0.00 0.00 4.26
2555 4469 3.250040 TCGAAGCAGCTTACAAAAAGACC 59.750 43.478 7.92 0.00 0.00 3.85
2567 4481 4.721132 ACAAAAAGACCCATAACTTCCGA 58.279 39.130 0.00 0.00 0.00 4.55
2582 4496 1.376037 CCGAAGAAGGGGTGCTCAC 60.376 63.158 0.00 0.00 0.00 3.51
2644 4558 7.254227 AGCGACTGTTTATTAAAAACACAGA 57.746 32.000 11.22 0.00 35.45 3.41
2645 4559 7.871853 AGCGACTGTTTATTAAAAACACAGAT 58.128 30.769 11.22 4.77 35.45 2.90
2646 4560 8.349983 AGCGACTGTTTATTAAAAACACAGATT 58.650 29.630 11.22 0.00 35.45 2.40
2647 4561 8.964150 GCGACTGTTTATTAAAAACACAGATTT 58.036 29.630 11.22 0.00 35.45 2.17
2867 4854 4.402155 TGGGCATTTTGTAGATGATGGTTC 59.598 41.667 0.00 0.00 0.00 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 9.657419 GCCCTATGCATGCTTTAATTAATTATT 57.343 29.630 20.33 0.00 40.77 1.40
49 50 7.975616 CGCCCTATGCATGCTTTAATTAATTAT 59.024 33.333 20.33 1.50 41.33 1.28
61 62 0.887836 CATGACGCCCTATGCATGCT 60.888 55.000 20.33 7.07 41.33 3.79
62 63 0.886043 TCATGACGCCCTATGCATGC 60.886 55.000 11.82 11.82 41.33 4.06
63 64 1.265095 GTTCATGACGCCCTATGCATG 59.735 52.381 10.16 0.00 41.33 4.06
64 65 1.134128 TGTTCATGACGCCCTATGCAT 60.134 47.619 3.79 3.79 41.33 3.96
65 66 0.251634 TGTTCATGACGCCCTATGCA 59.748 50.000 0.00 0.00 41.33 3.96
86 87 4.083271 GCTTATGTGGAATTAGGAATCCGC 60.083 45.833 0.00 0.00 44.66 5.54
88 89 5.474876 CCTGCTTATGTGGAATTAGGAATCC 59.525 44.000 0.00 0.00 36.21 3.01
164 165 2.022129 CAGCGACCAAGTCCACGAC 61.022 63.158 0.00 0.00 0.00 4.34
178 179 0.585357 GATGAGCTATGGTTGCAGCG 59.415 55.000 0.00 0.00 42.74 5.18
197 198 0.684479 TCATCCTCAGGACAGGTCGG 60.684 60.000 0.00 0.00 32.98 4.79
200 201 2.396608 CATCTCATCCTCAGGACAGGT 58.603 52.381 0.00 0.00 32.98 4.00
202 203 1.269673 CGCATCTCATCCTCAGGACAG 60.270 57.143 0.00 0.00 32.98 3.51
207 208 1.664017 CCGCGCATCTCATCCTCAG 60.664 63.158 8.75 0.00 0.00 3.35
212 213 2.147315 TAGGAGCCGCGCATCTCATC 62.147 60.000 22.21 9.96 0.00 2.92
214 215 2.147315 GATAGGAGCCGCGCATCTCA 62.147 60.000 22.21 7.93 0.00 3.27
248 249 2.770164 ATCCAACAAGACCTTCCGAG 57.230 50.000 0.00 0.00 0.00 4.63
292 294 2.037049 AATGGCGGGCATTGTGGA 59.963 55.556 26.49 0.00 0.00 4.02
337 340 1.176619 TCCTTCGACGACTCTTGCCA 61.177 55.000 0.00 0.00 0.00 4.92
341 344 0.597072 GTGGTCCTTCGACGACTCTT 59.403 55.000 0.00 0.00 42.61 2.85
342 345 1.242665 GGTGGTCCTTCGACGACTCT 61.243 60.000 0.00 0.00 44.60 3.24
347 350 1.865788 TAACCGGTGGTCCTTCGACG 61.866 60.000 8.52 0.00 40.17 5.12
361 393 3.376859 TGCCATTGCTTTATCAGTAACCG 59.623 43.478 0.00 0.00 38.71 4.44
378 410 1.152963 GGTATGGAACGCCTGCCAT 60.153 57.895 0.45 0.45 46.21 4.40
383 415 2.897972 GGTCGGTATGGAACGCCT 59.102 61.111 0.00 0.00 34.31 5.52
390 422 1.066918 GTAGTGGCGGTCGGTATGG 59.933 63.158 0.00 0.00 0.00 2.74
487 520 5.137551 ACAAAATAGTACCCAACAGTGCTT 58.862 37.500 0.00 0.00 34.33 3.91
504 537 2.263153 GCACTGGCGGGTACAAAAT 58.737 52.632 0.00 0.00 0.00 1.82
517 550 8.230486 CACTACTATTTTGGAAAAGTAGCACTG 58.770 37.037 7.98 0.00 33.45 3.66
539 572 4.825634 AGCGCTACATATTACTCACCACTA 59.174 41.667 8.99 0.00 0.00 2.74
596 2470 2.234661 CAGGGAGACATGCACTACTGAA 59.765 50.000 14.01 0.00 34.18 3.02
597 2471 1.827344 CAGGGAGACATGCACTACTGA 59.173 52.381 14.01 0.00 34.18 3.41
648 2522 8.118976 TCGAGTATTGGAATCGGTCTATTATT 57.881 34.615 0.00 0.00 37.08 1.40
709 2583 7.505585 TGACCTAAATTTGAAAGACATCACCTT 59.494 33.333 0.00 0.00 0.00 3.50
785 2659 0.038343 CCCACATTGTCCGCCTTTTG 60.038 55.000 0.00 0.00 0.00 2.44
786 2660 0.178975 TCCCACATTGTCCGCCTTTT 60.179 50.000 0.00 0.00 0.00 2.27
787 2661 0.893727 GTCCCACATTGTCCGCCTTT 60.894 55.000 0.00 0.00 0.00 3.11
792 2666 3.124921 GCCGTCCCACATTGTCCG 61.125 66.667 0.00 0.00 0.00 4.79
807 2681 0.471617 ACCATGATAGGTCTGCAGCC 59.528 55.000 9.47 13.87 37.28 4.85
813 2687 2.505819 GGACACCAACCATGATAGGTCT 59.494 50.000 0.00 0.00 42.25 3.85
871 2745 5.020795 TGAGTTGTAGCTGGTGGAGTAATA 58.979 41.667 0.00 0.00 0.00 0.98
968 2847 2.224305 GGTTTAGGTATCGCCAGCTGAT 60.224 50.000 17.39 3.09 40.61 2.90
978 2857 3.126343 CGGTTGTTGCTGGTTTAGGTATC 59.874 47.826 0.00 0.00 0.00 2.24
1010 2889 2.825532 ACACACACAAAAGAGGCAAGTT 59.174 40.909 0.00 0.00 0.00 2.66
1058 2937 4.785346 ATGGATTTGTCTATGTGAGCCT 57.215 40.909 0.00 0.00 0.00 4.58
1059 2938 5.128919 AGAATGGATTTGTCTATGTGAGCC 58.871 41.667 0.00 0.00 0.00 4.70
1060 2939 7.792374 TTAGAATGGATTTGTCTATGTGAGC 57.208 36.000 0.00 0.00 0.00 4.26
1062 2941 9.342308 GGATTTAGAATGGATTTGTCTATGTGA 57.658 33.333 0.00 0.00 0.00 3.58
1063 2942 9.123902 TGGATTTAGAATGGATTTGTCTATGTG 57.876 33.333 0.00 0.00 0.00 3.21
1064 2943 9.699410 TTGGATTTAGAATGGATTTGTCTATGT 57.301 29.630 0.00 0.00 0.00 2.29
1122 3001 1.200948 GCAAGAAGGCAGAATGTGGTC 59.799 52.381 0.00 0.00 39.31 4.02
1127 3006 1.138247 GCGGCAAGAAGGCAGAATG 59.862 57.895 0.00 0.00 44.47 2.67
1133 3012 4.103103 GAACGGCGGCAAGAAGGC 62.103 66.667 13.24 0.00 39.93 4.35
1134 3013 2.358737 AGAACGGCGGCAAGAAGG 60.359 61.111 13.24 0.00 0.00 3.46
1191 3070 3.308878 GATGTGCGTTGTGCCGTCC 62.309 63.158 0.00 0.00 45.60 4.79
1200 3079 1.153628 GTAGAGGCGGATGTGCGTT 60.154 57.895 0.00 0.00 35.06 4.84
1395 3274 2.122547 AACACCCCGGAGTCCTGT 60.123 61.111 0.73 1.41 0.00 4.00
1440 3319 1.072678 GCCCTTATAGCCCCCGTTC 59.927 63.158 0.00 0.00 0.00 3.95
1657 3536 1.229428 CGAACAGCAGAACACACCAT 58.771 50.000 0.00 0.00 0.00 3.55
1750 3630 6.645700 AAATTTAAACACACAACAGCACAG 57.354 33.333 0.00 0.00 0.00 3.66
1983 3890 7.950124 TCCAGAATATTATTTTTGGAGGGGATC 59.050 37.037 14.69 0.00 31.50 3.36
2174 4081 1.396996 GCGCATTCAACGAAGGTATGT 59.603 47.619 0.30 0.00 0.00 2.29
2205 4116 5.648092 GCATATATTTCGGAAGCATAACCCT 59.352 40.000 0.00 0.00 0.00 4.34
2209 4120 7.979537 AGTATCGCATATATTTCGGAAGCATAA 59.020 33.333 4.80 0.00 0.00 1.90
2223 4134 5.405935 AGACCATTGCAGTATCGCATATA 57.594 39.130 0.00 0.00 42.62 0.86
2231 4142 3.244215 CCCATCGTAGACCATTGCAGTAT 60.244 47.826 0.00 0.00 42.51 2.12
2233 4144 1.134401 CCCATCGTAGACCATTGCAGT 60.134 52.381 0.00 0.00 42.51 4.40
2256 4167 9.143631 GCAAGAGTATTTTTATTGCAGAACATT 57.856 29.630 3.51 0.00 44.32 2.71
2294 4205 2.634600 TGCAACTAAGGTCGTTGTTGT 58.365 42.857 15.48 1.09 42.73 3.32
2376 4290 5.266733 ACACATGTCTTGTTGCAGAATTT 57.733 34.783 0.00 0.00 36.00 1.82
2401 4315 0.317854 CGAGCGCGTCTCCATCATTA 60.318 55.000 19.89 0.00 38.62 1.90
2450 4364 1.153429 GCAAGATTAGCCGGGTCGT 60.153 57.895 10.79 0.00 0.00 4.34
2477 4391 7.453752 TCGTTAAAGTCTATATCTATTGGGGCT 59.546 37.037 0.00 0.00 0.00 5.19
2567 4481 3.185455 AGATAAGTGAGCACCCCTTCTT 58.815 45.455 0.00 0.00 0.00 2.52
2663 4577 9.200817 ACCATGTTACCATTTAGCATAGATTTT 57.799 29.630 0.00 0.00 0.00 1.82
2664 4578 8.766994 ACCATGTTACCATTTAGCATAGATTT 57.233 30.769 0.00 0.00 0.00 2.17
2665 4579 9.284968 GTACCATGTTACCATTTAGCATAGATT 57.715 33.333 0.00 0.00 0.00 2.40
2806 4793 4.124238 TCTCTTAAAACTTGTGACCACGG 58.876 43.478 0.00 0.00 0.00 4.94
2867 4854 4.685169 AGAAGACATTGTTTGCGGTATG 57.315 40.909 0.00 0.00 0.00 2.39


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

AutoCloner maintained by Alex Coulton.