Multiple sequence alignment - TraesCS3B01G054500

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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 TraesCS3B01G054500 chr3B 100.000 3889 0 0 1 3889 28318042 28314154 0.000000e+00 7182.0
1 TraesCS3B01G054500 chr3B 93.814 1261 62 7 2254 3507 13506747 13505496 0.000000e+00 1882.0
2 TraesCS3B01G054500 chr3B 83.167 2002 233 50 1564 3480 792861977 792863959 0.000000e+00 1735.0
3 TraesCS3B01G054500 chr3B 94.690 565 26 1 1701 2261 13508687 13508123 0.000000e+00 874.0
4 TraesCS3B01G054500 chr3B 93.622 392 23 2 3499 3889 13504551 13504161 5.600000e-163 584.0
5 TraesCS3B01G054500 chr3B 79.328 595 93 20 926 1497 792861388 792861975 1.310000e-104 390.0
6 TraesCS3B01G054500 chr3A 92.423 3207 162 29 77 3220 11759374 11762562 0.000000e+00 4501.0
7 TraesCS3B01G054500 chr3A 83.771 1978 234 36 1556 3463 722279593 722281553 0.000000e+00 1794.0
8 TraesCS3B01G054500 chr3A 91.416 699 55 4 3193 3889 11762565 11763260 0.000000e+00 953.0
9 TraesCS3B01G054500 chr3A 82.205 517 80 6 985 1498 722279089 722279596 5.970000e-118 435.0
10 TraesCS3B01G054500 chr3A 83.708 356 42 7 3113 3453 325905137 325904783 4.850000e-84 322.0
11 TraesCS3B01G054500 chr3D 87.556 3110 319 36 796 3889 5232169 5235226 0.000000e+00 3537.0
12 TraesCS3B01G054500 chr3D 89.707 2351 199 27 1557 3889 9418017 9415692 0.000000e+00 2961.0
13 TraesCS3B01G054500 chr3D 84.089 1942 239 40 1573 3463 591822392 591820470 0.000000e+00 1810.0
14 TraesCS3B01G054500 chr3D 90.879 614 50 4 886 1498 9418767 9418159 0.000000e+00 819.0
15 TraesCS3B01G054500 chr3D 82.163 527 79 11 975 1497 591822926 591822411 4.610000e-119 438.0
16 TraesCS3B01G054500 chr3D 85.961 406 27 9 60 448 9419196 9418804 1.300000e-109 407.0
17 TraesCS3B01G054500 chr3D 100.000 35 0 0 8 42 9419226 9419192 9.020000e-07 65.8
18 TraesCS3B01G054500 chrUn 89.295 1999 181 17 1576 3560 36512177 36514156 0.000000e+00 2475.0
19 TraesCS3B01G054500 chrUn 88.966 725 71 7 796 1516 36511441 36512160 0.000000e+00 887.0
20 TraesCS3B01G054500 chrUn 88.800 250 25 3 487 733 36511190 36511439 1.760000e-78 303.0
21 TraesCS3B01G054500 chr7B 79.457 258 53 0 1016 1273 532483874 532483617 2.390000e-42 183.0
22 TraesCS3B01G054500 chr7A 78.462 260 52 3 1016 1273 572184710 572184453 2.400000e-37 167.0
23 TraesCS3B01G054500 chr1A 76.364 165 15 13 473 634 539752333 539752190 2.510000e-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 TraesCS3B01G054500 chr3B 28314154 28318042 3888 True 7182.000000 7182 100.000000 1 3889 1 chr3B.!!$R1 3888
1 TraesCS3B01G054500 chr3B 13504161 13508687 4526 True 1113.333333 1882 94.042000 1701 3889 3 chr3B.!!$R2 2188
2 TraesCS3B01G054500 chr3B 792861388 792863959 2571 False 1062.500000 1735 81.247500 926 3480 2 chr3B.!!$F1 2554
3 TraesCS3B01G054500 chr3A 11759374 11763260 3886 False 2727.000000 4501 91.919500 77 3889 2 chr3A.!!$F1 3812
4 TraesCS3B01G054500 chr3A 722279089 722281553 2464 False 1114.500000 1794 82.988000 985 3463 2 chr3A.!!$F2 2478
5 TraesCS3B01G054500 chr3D 5232169 5235226 3057 False 3537.000000 3537 87.556000 796 3889 1 chr3D.!!$F1 3093
6 TraesCS3B01G054500 chr3D 591820470 591822926 2456 True 1124.000000 1810 83.126000 975 3463 2 chr3D.!!$R2 2488
7 TraesCS3B01G054500 chr3D 9415692 9419226 3534 True 1063.200000 2961 91.636750 8 3889 4 chr3D.!!$R1 3881
8 TraesCS3B01G054500 chrUn 36511190 36514156 2966 False 1221.666667 2475 89.020333 487 3560 3 chrUn.!!$F1 3073

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
48 49 0.329261 TGATCCTTGGTTGAGCTGGG 59.671 55.000 0.00 0.00 0.00 4.45 F
291 322 0.895530 CCTCCTAGTCAACGCTCCAA 59.104 55.000 0.00 0.00 0.00 3.53 F
929 1032 1.000274 GAAAGGCATGCTCCGTGTTTT 60.000 47.619 18.92 7.11 0.00 2.43 F
1535 1696 1.002624 TTAAACCCAGGCCTCTGCG 60.003 57.895 0.00 0.00 39.61 5.18 F
1718 1930 1.160870 TGGAGGACATGGACCTGGT 59.839 57.895 16.50 0.00 37.93 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1756 1968 0.802494 CTTACTTTGACGGCGCCAAT 59.198 50.000 28.98 14.60 0.00 3.16 R
2061 2322 2.096819 TCCAAAACGACACTTTCTGCAC 59.903 45.455 0.00 0.00 0.00 4.57 R
2477 4135 0.536006 GCTGGCTCTGTCTTGTTGGT 60.536 55.000 0.00 0.00 0.00 3.67 R
2877 4544 0.602905 ATGGTAGCTTATTCGGCGCC 60.603 55.000 19.07 19.07 34.52 6.53 R
3540 6250 0.744874 TTCCTATGCCGAGTTCCGAG 59.255 55.000 0.00 0.00 41.76 4.63 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
42 43 3.907474 TCTAACCTGTGATCCTTGGTTGA 59.093 43.478 17.93 12.44 42.09 3.18
43 44 2.867109 ACCTGTGATCCTTGGTTGAG 57.133 50.000 0.00 0.00 0.00 3.02
44 45 1.271597 ACCTGTGATCCTTGGTTGAGC 60.272 52.381 0.00 0.00 0.00 4.26
45 46 1.004044 CCTGTGATCCTTGGTTGAGCT 59.996 52.381 0.00 0.00 0.00 4.09
46 47 2.082231 CTGTGATCCTTGGTTGAGCTG 58.918 52.381 0.00 0.00 0.00 4.24
47 48 1.271543 TGTGATCCTTGGTTGAGCTGG 60.272 52.381 0.00 0.00 0.00 4.85
48 49 0.329261 TGATCCTTGGTTGAGCTGGG 59.671 55.000 0.00 0.00 0.00 4.45
49 50 1.000396 ATCCTTGGTTGAGCTGGGC 60.000 57.895 0.00 0.00 0.00 5.36
50 51 1.792757 ATCCTTGGTTGAGCTGGGCA 61.793 55.000 0.00 0.00 0.00 5.36
51 52 1.531365 CCTTGGTTGAGCTGGGCAA 60.531 57.895 0.00 0.00 0.00 4.52
52 53 0.901580 CCTTGGTTGAGCTGGGCAAT 60.902 55.000 0.00 0.00 0.00 3.56
53 54 1.616725 CCTTGGTTGAGCTGGGCAATA 60.617 52.381 0.00 0.00 0.00 1.90
54 55 2.381911 CTTGGTTGAGCTGGGCAATAT 58.618 47.619 0.00 0.00 0.00 1.28
55 56 2.057137 TGGTTGAGCTGGGCAATATC 57.943 50.000 0.00 0.00 0.00 1.63
56 57 1.284491 TGGTTGAGCTGGGCAATATCA 59.716 47.619 0.00 0.00 0.00 2.15
57 58 2.091720 TGGTTGAGCTGGGCAATATCAT 60.092 45.455 0.00 0.00 0.00 2.45
58 59 3.138098 TGGTTGAGCTGGGCAATATCATA 59.862 43.478 0.00 0.00 0.00 2.15
59 60 3.755378 GGTTGAGCTGGGCAATATCATAG 59.245 47.826 0.00 0.00 0.00 2.23
60 61 3.708403 TGAGCTGGGCAATATCATAGG 57.292 47.619 0.00 0.00 0.00 2.57
61 62 2.981784 TGAGCTGGGCAATATCATAGGT 59.018 45.455 0.00 0.00 0.00 3.08
62 63 4.167319 TGAGCTGGGCAATATCATAGGTA 58.833 43.478 0.00 0.00 0.00 3.08
63 64 4.223700 TGAGCTGGGCAATATCATAGGTAG 59.776 45.833 0.00 0.00 0.00 3.18
147 158 2.032550 GCACACAATCAATCTGGGATCG 59.967 50.000 0.00 0.00 0.00 3.69
148 159 2.615447 CACACAATCAATCTGGGATCGG 59.385 50.000 0.00 0.00 0.00 4.18
263 294 2.116238 GGTTAGGTGGCTGGATCTACA 58.884 52.381 0.00 0.00 0.00 2.74
288 319 1.142097 GGCCTCCTAGTCAACGCTC 59.858 63.158 0.00 0.00 0.00 5.03
291 322 0.895530 CCTCCTAGTCAACGCTCCAA 59.104 55.000 0.00 0.00 0.00 3.53
292 323 1.482593 CCTCCTAGTCAACGCTCCAAT 59.517 52.381 0.00 0.00 0.00 3.16
302 334 5.705441 AGTCAACGCTCCAATTATCTTTTCA 59.295 36.000 0.00 0.00 0.00 2.69
368 406 2.799207 CGGTGCCACATTCCAATATTGC 60.799 50.000 10.11 0.00 0.00 3.56
394 462 3.589495 AGTGCTACCTCCGTTCTAAAC 57.411 47.619 0.00 0.00 0.00 2.01
496 566 7.114670 CGTCTAGAGCATCAAATTAGTCTCATG 59.885 40.741 0.00 0.00 37.82 3.07
548 618 7.117667 TGTGATGCACATTTACTGTTGTACTAG 59.882 37.037 0.00 0.00 39.62 2.57
551 621 8.792830 ATGCACATTTACTGTTGTACTAGATT 57.207 30.769 0.00 0.00 35.29 2.40
600 671 9.229784 GGTAAAAGTTAAGCAAGTTTGACTTAC 57.770 33.333 7.12 3.96 38.07 2.34
601 672 9.777575 GTAAAAGTTAAGCAAGTTTGACTTACA 57.222 29.630 7.12 0.00 36.03 2.41
612 683 7.591426 GCAAGTTTGACTTACAACAAATCTAGG 59.409 37.037 0.00 0.00 36.03 3.02
618 689 7.963532 TGACTTACAACAAATCTAGGACTTCT 58.036 34.615 0.00 0.00 0.00 2.85
673 746 4.646040 TGGAGGACTCGTTTCCGAATATAA 59.354 41.667 0.00 0.00 43.69 0.98
737 810 6.818644 TGGTTAGTTTCATCATCAAGACTAGC 59.181 38.462 0.00 0.00 0.00 3.42
741 814 2.388735 TCATCATCAAGACTAGCCCGT 58.611 47.619 0.00 0.00 0.00 5.28
743 816 2.961526 TCATCAAGACTAGCCCGTTC 57.038 50.000 0.00 0.00 0.00 3.95
747 820 2.799017 TCAAGACTAGCCCGTTCTACA 58.201 47.619 0.00 0.00 0.00 2.74
751 824 3.362706 AGACTAGCCCGTTCTACAATGA 58.637 45.455 0.00 0.00 0.00 2.57
758 831 6.827586 AGCCCGTTCTACAATGAAAATTAA 57.172 33.333 0.00 0.00 0.00 1.40
759 832 6.617879 AGCCCGTTCTACAATGAAAATTAAC 58.382 36.000 0.00 0.00 0.00 2.01
809 884 6.878923 TGTAAATTCAGATGGTGTAGGAGTTG 59.121 38.462 0.00 0.00 0.00 3.16
929 1032 1.000274 GAAAGGCATGCTCCGTGTTTT 60.000 47.619 18.92 7.11 0.00 2.43
930 1033 1.039856 AAGGCATGCTCCGTGTTTTT 58.960 45.000 18.92 0.00 0.00 1.94
948 1051 1.175983 TTTGCCGCGGAGTTTTGGAT 61.176 50.000 33.48 0.00 0.00 3.41
954 1057 2.806244 CCGCGGAGTTTTGGATAATAGG 59.194 50.000 24.07 0.00 0.00 2.57
968 1071 5.133660 TGGATAATAGGTTACCCAACAGCAT 59.866 40.000 0.00 0.00 30.13 3.79
1131 1234 1.406887 GCGCTCAAGGAAGGGTTGATA 60.407 52.381 0.00 0.00 33.49 2.15
1207 1310 2.103373 CCGAGTCTGATTTCCTCCTGA 58.897 52.381 0.00 0.00 0.00 3.86
1248 1351 3.327404 AACCCCGACATCGCCCTT 61.327 61.111 0.00 0.00 38.18 3.95
1396 1518 5.192927 TGAGTGTTTGTTGACAAGATTCCT 58.807 37.500 0.00 0.00 37.15 3.36
1445 1567 3.073650 AGTTTGAACAAGAGGCTGGATCT 59.926 43.478 0.00 0.00 0.00 2.75
1535 1696 1.002624 TTAAACCCAGGCCTCTGCG 60.003 57.895 0.00 0.00 39.61 5.18
1542 1703 2.437359 AGGCCTCTGCGTCATTGC 60.437 61.111 0.00 0.00 38.85 3.56
1561 1722 2.026641 GCCATGCACACAACCATATCT 58.973 47.619 0.00 0.00 0.00 1.98
1606 1818 5.217393 CAAATGAACATGTTGAGTGAGTGG 58.783 41.667 17.58 0.00 0.00 4.00
1697 1909 1.595357 GGTGGAAGGAACGGACGAT 59.405 57.895 0.00 0.00 0.00 3.73
1718 1930 1.160870 TGGAGGACATGGACCTGGT 59.839 57.895 16.50 0.00 37.93 4.00
1731 1943 3.276091 CTGGTTGTTCGCACGGCA 61.276 61.111 0.00 0.00 0.00 5.69
1756 1968 3.857052 CTGGGCTTGAAGTTCGTGTATA 58.143 45.455 0.00 0.00 0.00 1.47
2052 2311 6.014327 ACACCATCTTGTTGCCTGAAATTTAT 60.014 34.615 0.00 0.00 0.00 1.40
2060 2321 9.696917 CTTGTTGCCTGAAATTTATTTTACTCT 57.303 29.630 0.00 0.00 0.00 3.24
2061 2322 9.474920 TTGTTGCCTGAAATTTATTTTACTCTG 57.525 29.630 0.00 0.00 0.00 3.35
2128 2389 6.310149 ACTTCTTCTTTGTTGGGAAGATCAT 58.690 36.000 0.00 0.00 44.60 2.45
2167 2428 5.718649 TTCATCTACTATTGCTTTGCGAC 57.281 39.130 0.00 0.00 0.00 5.19
2425 4083 6.826741 GGATAAAAGCCACAATAACTGGTCTA 59.173 38.462 0.00 0.00 0.00 2.59
2477 4135 6.173339 GTTGTCACTGAGAAATTGGGAGATA 58.827 40.000 0.00 0.00 0.00 1.98
2518 4176 5.901276 AGCCATGGAAGGATTAAATGATGTT 59.099 36.000 18.40 0.00 0.00 2.71
2688 4354 6.344702 CCGATTTGAACGTTTTCTAGTTTTGC 60.345 38.462 0.46 0.00 32.36 3.68
2771 4438 5.476599 TGGAACCTGCATAATTATATGTGGC 59.523 40.000 0.00 0.00 40.90 5.01
2829 4496 3.526931 TCTACCTCTTCATTCAAGGCG 57.473 47.619 0.00 0.00 33.21 5.52
2992 4683 8.515414 TCGATCTCAGAACATAACGATATCAAT 58.485 33.333 3.12 0.00 0.00 2.57
3163 4859 4.927267 TCAACACCTGGAGGAATAACAT 57.073 40.909 0.00 0.00 38.94 2.71
3190 4886 9.846248 AAGTTGTAAATGAAATAACATGCTCTC 57.154 29.630 0.00 0.00 0.00 3.20
3251 4977 5.463724 GCCAATGTACTTACTGATGTAGCTC 59.536 44.000 0.00 0.00 0.00 4.09
3269 4995 4.897140 AGCTCATTCAGAATAGAGGATGC 58.103 43.478 17.40 9.02 0.00 3.91
3270 4996 4.002316 GCTCATTCAGAATAGAGGATGCC 58.998 47.826 17.40 0.00 0.00 4.40
3398 5140 7.978414 TGCAGTAACAAAAATTCAGACAAATGA 59.022 29.630 0.00 0.00 0.00 2.57
3518 6228 2.299297 GCTTATATGTGCGGGGTAGACT 59.701 50.000 0.00 0.00 0.00 3.24
3666 6376 0.796312 CGACGTGACCCCTGAAATTG 59.204 55.000 0.00 0.00 0.00 2.32
3818 6530 1.148310 CTGACATGCGAAACTCGGTT 58.852 50.000 0.00 0.00 40.84 4.44
3834 6546 1.266842 CGGTTAATGTGCGACATCGTG 60.267 52.381 2.85 0.00 37.97 4.35
3837 6549 2.595124 TAATGTGCGACATCGTGGAT 57.405 45.000 2.85 0.00 37.97 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
42 43 4.019860 CACTACCTATGATATTGCCCAGCT 60.020 45.833 0.00 0.00 0.00 4.24
43 44 4.256920 CACTACCTATGATATTGCCCAGC 58.743 47.826 0.00 0.00 0.00 4.85
44 45 4.323792 CCCACTACCTATGATATTGCCCAG 60.324 50.000 0.00 0.00 0.00 4.45
45 46 3.587061 CCCACTACCTATGATATTGCCCA 59.413 47.826 0.00 0.00 0.00 5.36
46 47 3.054361 CCCCACTACCTATGATATTGCCC 60.054 52.174 0.00 0.00 0.00 5.36
47 48 3.844211 TCCCCACTACCTATGATATTGCC 59.156 47.826 0.00 0.00 0.00 4.52
48 49 5.189736 TCATCCCCACTACCTATGATATTGC 59.810 44.000 0.00 0.00 0.00 3.56
49 50 6.874278 TCATCCCCACTACCTATGATATTG 57.126 41.667 0.00 0.00 0.00 1.90
50 51 7.025620 ACTTCATCCCCACTACCTATGATATT 58.974 38.462 0.00 0.00 0.00 1.28
51 52 6.575411 ACTTCATCCCCACTACCTATGATAT 58.425 40.000 0.00 0.00 0.00 1.63
52 53 5.977533 ACTTCATCCCCACTACCTATGATA 58.022 41.667 0.00 0.00 0.00 2.15
53 54 4.832492 ACTTCATCCCCACTACCTATGAT 58.168 43.478 0.00 0.00 0.00 2.45
54 55 4.223953 GACTTCATCCCCACTACCTATGA 58.776 47.826 0.00 0.00 0.00 2.15
55 56 3.325135 GGACTTCATCCCCACTACCTATG 59.675 52.174 0.00 0.00 42.46 2.23
56 57 3.588569 GGACTTCATCCCCACTACCTAT 58.411 50.000 0.00 0.00 42.46 2.57
57 58 3.042059 GGACTTCATCCCCACTACCTA 57.958 52.381 0.00 0.00 42.46 3.08
58 59 1.880941 GGACTTCATCCCCACTACCT 58.119 55.000 0.00 0.00 42.46 3.08
147 158 6.590234 AAGAATTTGGGAACATGTTCTACC 57.410 37.500 31.81 26.03 41.03 3.18
263 294 2.088104 TGACTAGGAGGCCGATCAAT 57.912 50.000 0.00 0.00 0.00 2.57
302 334 4.470334 TTTTTGCTTTTCTGTGAGGCTT 57.530 36.364 0.00 0.00 0.00 4.35
342 380 0.466372 TGGAATGTGGCACCGTGAAA 60.466 50.000 16.26 0.00 0.00 2.69
346 384 2.426738 CAATATTGGAATGTGGCACCGT 59.573 45.455 16.26 1.96 0.00 4.83
368 406 1.030457 ACGGAGGTAGCACTATTCGG 58.970 55.000 0.00 0.00 0.00 4.30
463 531 9.249457 CTAATTTGATGCTCTAGACGTTAATGA 57.751 33.333 0.58 0.00 0.00 2.57
464 532 9.035607 ACTAATTTGATGCTCTAGACGTTAATG 57.964 33.333 0.00 0.00 0.00 1.90
471 541 7.925483 ACATGAGACTAATTTGATGCTCTAGAC 59.075 37.037 0.00 0.00 0.00 2.59
472 542 7.924947 CACATGAGACTAATTTGATGCTCTAGA 59.075 37.037 0.00 0.00 0.00 2.43
523 593 6.241207 AGTACAACAGTAAATGTGCATCAC 57.759 37.500 0.00 0.00 43.00 3.06
589 660 8.211629 AGTCCTAGATTTGTTGTAAGTCAAACT 58.788 33.333 0.00 0.00 37.81 2.66
612 683 9.541143 CCCTCTTCTTTCAAGATAATAGAAGTC 57.459 37.037 0.00 0.00 41.46 3.01
624 695 8.068892 ACATAGTACTACCCTCTTCTTTCAAG 57.931 38.462 4.31 0.00 0.00 3.02
673 746 5.125578 TCAAGAGTGTAGTGCTCGTGATTAT 59.874 40.000 6.80 0.00 43.04 1.28
737 810 6.915349 TGGTTAATTTTCATTGTAGAACGGG 58.085 36.000 0.00 0.00 0.00 5.28
794 869 5.105146 AGTCTCATTCAACTCCTACACCATC 60.105 44.000 0.00 0.00 0.00 3.51
809 884 6.106673 TCTCGGAATTAACCAAGTCTCATTC 58.893 40.000 0.00 0.00 0.00 2.67
929 1032 1.175983 ATCCAAAACTCCGCGGCAAA 61.176 50.000 23.51 1.50 0.00 3.68
930 1033 0.321741 TATCCAAAACTCCGCGGCAA 60.322 50.000 23.51 2.44 0.00 4.52
934 1037 3.463944 ACCTATTATCCAAAACTCCGCG 58.536 45.455 0.00 0.00 0.00 6.46
954 1057 4.629634 GGCAAAATTATGCTGTTGGGTAAC 59.370 41.667 0.00 0.00 45.68 2.50
1000 1103 8.090214 CACCAAGTCCTGATAAAAATGAAACAT 58.910 33.333 0.00 0.00 0.00 2.71
1207 1310 2.058595 CGAGGAATGGGACGGTCCT 61.059 63.158 25.39 7.14 45.34 3.85
1248 1351 3.399330 GAATTTCCAACGAGTCTGGACA 58.601 45.455 0.63 0.00 42.76 4.02
1396 1518 2.225267 TGGTAGTCCAGTGACATCTCCA 60.225 50.000 0.00 0.00 44.33 3.86
1535 1696 1.421382 GTTGTGTGCATGGCAATGAC 58.579 50.000 4.87 1.02 41.47 3.06
1542 1703 7.692460 ATATAAGATATGGTTGTGTGCATGG 57.308 36.000 0.00 0.00 0.00 3.66
1590 1802 3.620488 ACAAACCACTCACTCAACATGT 58.380 40.909 0.00 0.00 0.00 3.21
1606 1818 6.313658 GGAAGATGCAAATATCCCAAACAAAC 59.686 38.462 0.00 0.00 0.00 2.93
1697 1909 1.160870 AGGTCCATGTCCTCCACCA 59.839 57.895 1.44 0.00 0.00 4.17
1718 1930 3.947841 GCAGTGCCGTGCGAACAA 61.948 61.111 2.85 0.00 32.74 2.83
1731 1943 0.886490 CGAACTTCAAGCCCAGCAGT 60.886 55.000 0.00 0.00 0.00 4.40
1756 1968 0.802494 CTTACTTTGACGGCGCCAAT 59.198 50.000 28.98 14.60 0.00 3.16
2052 2311 4.270084 CGACACTTTCTGCACAGAGTAAAA 59.730 41.667 0.00 0.00 38.88 1.52
2060 2321 2.159448 CCAAAACGACACTTTCTGCACA 60.159 45.455 0.00 0.00 0.00 4.57
2061 2322 2.096819 TCCAAAACGACACTTTCTGCAC 59.903 45.455 0.00 0.00 0.00 4.57
2128 2389 8.864087 AGTAGATGAATGTCACTATATGAGCAA 58.136 33.333 0.00 0.00 38.28 3.91
2449 4107 3.828451 CCAATTTCTCAGTGACAACCCAT 59.172 43.478 0.00 0.00 0.00 4.00
2477 4135 0.536006 GCTGGCTCTGTCTTGTTGGT 60.536 55.000 0.00 0.00 0.00 3.67
2518 4176 6.247727 GATAGCTCGACATCTATCACTTGA 57.752 41.667 14.76 0.00 40.34 3.02
2573 4231 4.280436 ACTTGTCCCATAATCGTGTTCA 57.720 40.909 0.00 0.00 0.00 3.18
2600 4258 7.640852 TGTATTAGCTTCGAGACAATAGACTC 58.359 38.462 0.00 0.00 33.96 3.36
2688 4354 5.481105 ACACACAAATCAGGCATTATTTGG 58.519 37.500 18.94 11.78 43.96 3.28
2771 4438 2.979006 CGTAAAGCACGTCATAGCAG 57.021 50.000 0.00 0.00 45.82 4.24
2803 4470 5.988561 CCTTGAATGAAGAGGTAGATGTAGC 59.011 44.000 0.00 0.00 32.82 3.58
2829 4496 1.067212 ACCGATGACGAGGAATGCTAC 59.933 52.381 0.00 0.00 42.66 3.58
2877 4544 0.602905 ATGGTAGCTTATTCGGCGCC 60.603 55.000 19.07 19.07 34.52 6.53
3251 4977 4.325119 CTGGGCATCCTCTATTCTGAATG 58.675 47.826 13.01 3.75 0.00 2.67
3398 5140 4.338012 TGTCTGAATTCACTGCATTCCAT 58.662 39.130 3.38 0.00 30.64 3.41
3518 6228 3.141398 CTCAGCAAAGCACTGACCTTTA 58.859 45.455 0.00 0.00 39.21 1.85
3540 6250 0.744874 TTCCTATGCCGAGTTCCGAG 59.255 55.000 0.00 0.00 41.76 4.63
3708 6420 5.251601 TGTTTACTGGGTTTGCACTAAAC 57.748 39.130 0.00 0.00 46.30 2.01
3709 6421 6.999272 TCTATGTTTACTGGGTTTGCACTAAA 59.001 34.615 0.00 0.00 0.00 1.85
3798 6510 0.670546 ACCGAGTTTCGCATGTCAGG 60.671 55.000 0.00 0.00 38.82 3.86
3818 6530 2.595124 ATCCACGATGTCGCACATTA 57.405 45.000 1.77 0.00 39.27 1.90


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

AutoCloner maintained by Alex Coulton.