Multiple sequence alignment - TraesCS3A01G284600

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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 TraesCS3A01G284600 chr3A 100.000 2590 0 0 1 2590 513538505 513541094 0.000000e+00 4783.0
1 TraesCS3A01G284600 chr3A 92.903 155 10 1 2437 2590 577236850 577236696 9.330000e-55 224.0
2 TraesCS3A01G284600 chr3A 92.857 154 9 2 2438 2590 302229265 302229113 3.350000e-54 222.0
3 TraesCS3A01G284600 chr3A 92.857 154 9 2 2438 2590 302230726 302230574 3.350000e-54 222.0
4 TraesCS3A01G284600 chr3A 92.208 154 11 1 2438 2590 124383589 124383742 1.560000e-52 217.0
5 TraesCS3A01G284600 chr3D 90.909 1100 59 19 672 1764 393561845 393562910 0.000000e+00 1439.0
6 TraesCS3A01G284600 chr3D 91.337 531 29 4 1907 2435 393562945 393563460 0.000000e+00 710.0
7 TraesCS3A01G284600 chr3D 89.434 530 23 10 140 649 393561343 393561859 2.810000e-179 638.0
8 TraesCS3A01G284600 chr3D 94.656 131 4 3 8 137 393560966 393561094 1.570000e-47 200.0
9 TraesCS3A01G284600 chr3B 94.492 581 31 1 1777 2356 513532093 513532673 0.000000e+00 894.0
10 TraesCS3A01G284600 chr3B 87.630 671 33 17 1 649 513530082 513530724 0.000000e+00 734.0
11 TraesCS3A01G284600 chr3B 91.329 519 29 5 1262 1765 513531592 513532109 0.000000e+00 695.0
12 TraesCS3A01G284600 chr3B 96.727 275 8 1 984 1257 513531035 513531309 8.450000e-125 457.0
13 TraesCS3A01G284600 chr3B 90.769 325 9 9 672 996 513530710 513531013 5.160000e-112 414.0
14 TraesCS3A01G284600 chr5D 92.857 154 10 1 2438 2590 221003986 221003833 3.350000e-54 222.0
15 TraesCS3A01G284600 chr1D 92.857 154 10 1 2438 2590 556802 556649 3.350000e-54 222.0
16 TraesCS3A01G284600 chr7A 92.208 154 11 1 2438 2590 370677429 370677582 1.560000e-52 217.0
17 TraesCS3A01G284600 chr5A 92.208 154 10 2 2438 2590 560569650 560569802 1.560000e-52 217.0
18 TraesCS3A01G284600 chr5A 91.613 155 12 1 2437 2590 624157134 624157288 2.020000e-51 213.0
19 TraesCS3A01G284600 chr4A 88.750 80 9 0 2359 2438 83407556 83407635 5.900000e-17 99.0
20 TraesCS3A01G284600 chr4B 85.000 80 12 0 2359 2438 467789930 467789851 5.940000e-12 82.4


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 TraesCS3A01G284600 chr3A 513538505 513541094 2589 False 4783.00 4783 100.0000 1 2590 1 chr3A.!!$F2 2589
1 TraesCS3A01G284600 chr3A 302229113 302230726 1613 True 222.00 222 92.8570 2438 2590 2 chr3A.!!$R2 152
2 TraesCS3A01G284600 chr3D 393560966 393563460 2494 False 746.75 1439 91.5840 8 2435 4 chr3D.!!$F1 2427
3 TraesCS3A01G284600 chr3B 513530082 513532673 2591 False 638.80 894 92.1894 1 2356 5 chr3B.!!$F1 2355

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
770 1034 0.039708 GTAATCCCCGACGTCCGATC 60.04 60.0 10.58 0.0 41.76 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2329 2928 0.397535 ACATGGTTCATGGATGGGGC 60.398 55.0 11.85 0.0 45.16 5.8 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
94 95 2.097825 GGCCGGAGACTCTTGTACTAA 58.902 52.381 5.05 0.00 0.00 2.24
214 462 2.746359 GCTCAGTGGTGGCAGACT 59.254 61.111 0.00 0.00 0.00 3.24
225 473 3.343972 GCAGACTTGCCAGCGAAA 58.656 55.556 0.00 0.00 44.74 3.46
283 535 5.350365 AGTTTGCATCATAGCATTGCTTTTG 59.650 36.000 17.71 14.61 45.19 2.44
297 549 6.908284 GCATTGCTTTTGTGGCATAATAATTG 59.092 34.615 0.16 0.00 39.54 2.32
388 641 4.295119 ATATCGTGGGGCGGCGAC 62.295 66.667 12.98 8.16 40.03 5.19
423 676 2.430694 TCGATCCAACGATCAGGACAAT 59.569 45.455 1.04 0.00 44.55 2.71
424 677 2.541346 CGATCCAACGATCAGGACAATG 59.459 50.000 1.04 0.00 44.55 2.82
425 678 2.401583 TCCAACGATCAGGACAATGG 57.598 50.000 0.00 0.00 0.00 3.16
426 679 1.065491 TCCAACGATCAGGACAATGGG 60.065 52.381 0.00 0.00 0.00 4.00
427 680 1.065491 CCAACGATCAGGACAATGGGA 60.065 52.381 0.00 0.00 0.00 4.37
428 681 2.009774 CAACGATCAGGACAATGGGAC 58.990 52.381 0.00 0.00 0.00 4.46
545 809 1.376609 GGATTTGCACGGCCAGGTAG 61.377 60.000 2.24 0.00 0.00 3.18
570 834 5.063204 CCAAGTGATGAAGTAAACACCAGA 58.937 41.667 0.00 0.00 34.33 3.86
571 835 5.707298 CCAAGTGATGAAGTAAACACCAGAT 59.293 40.000 0.00 0.00 34.33 2.90
572 836 6.207417 CCAAGTGATGAAGTAAACACCAGATT 59.793 38.462 0.00 0.00 34.33 2.40
635 899 8.325421 TCAGTATTATCCATCTTCTCGAGTAC 57.675 38.462 13.13 2.97 0.00 2.73
636 900 7.937394 TCAGTATTATCCATCTTCTCGAGTACA 59.063 37.037 13.13 0.00 0.00 2.90
637 901 8.568794 CAGTATTATCCATCTTCTCGAGTACAA 58.431 37.037 13.13 0.00 0.00 2.41
638 902 9.132923 AGTATTATCCATCTTCTCGAGTACAAA 57.867 33.333 13.13 0.00 0.00 2.83
639 903 9.745880 GTATTATCCATCTTCTCGAGTACAAAA 57.254 33.333 13.13 0.00 0.00 2.44
640 904 8.879342 ATTATCCATCTTCTCGAGTACAAAAG 57.121 34.615 13.13 8.35 0.00 2.27
641 905 5.073311 TCCATCTTCTCGAGTACAAAAGG 57.927 43.478 13.13 7.44 0.00 3.11
642 906 3.619038 CCATCTTCTCGAGTACAAAAGGC 59.381 47.826 13.13 0.00 0.00 4.35
643 907 4.499183 CATCTTCTCGAGTACAAAAGGCT 58.501 43.478 13.13 0.00 0.00 4.58
644 908 4.175787 TCTTCTCGAGTACAAAAGGCTC 57.824 45.455 13.13 0.00 0.00 4.70
645 909 3.827302 TCTTCTCGAGTACAAAAGGCTCT 59.173 43.478 13.13 0.00 0.00 4.09
646 910 5.008331 TCTTCTCGAGTACAAAAGGCTCTA 58.992 41.667 13.13 0.00 0.00 2.43
647 911 5.652891 TCTTCTCGAGTACAAAAGGCTCTAT 59.347 40.000 13.13 0.00 0.00 1.98
648 912 5.916661 TCTCGAGTACAAAAGGCTCTATT 57.083 39.130 13.13 0.00 0.00 1.73
649 913 6.282199 TCTCGAGTACAAAAGGCTCTATTT 57.718 37.500 13.13 0.00 0.00 1.40
650 914 6.698380 TCTCGAGTACAAAAGGCTCTATTTT 58.302 36.000 13.13 0.00 0.00 1.82
651 915 7.159372 TCTCGAGTACAAAAGGCTCTATTTTT 58.841 34.615 13.13 0.00 0.00 1.94
755 1019 6.293571 CCACATGCATGAATGATGTACGTAAT 60.294 38.462 32.75 1.36 34.14 1.89
760 1024 3.985008 TGAATGATGTACGTAATCCCCG 58.015 45.455 0.00 0.00 0.00 5.73
767 1031 2.025156 CGTAATCCCCGACGTCCG 59.975 66.667 10.58 3.03 34.39 4.79
768 1032 2.472059 CGTAATCCCCGACGTCCGA 61.472 63.158 10.58 3.44 41.76 4.55
769 1033 1.789078 CGTAATCCCCGACGTCCGAT 61.789 60.000 10.58 5.82 41.76 4.18
770 1034 0.039708 GTAATCCCCGACGTCCGATC 60.040 60.000 10.58 0.00 41.76 3.69
771 1035 0.466007 TAATCCCCGACGTCCGATCA 60.466 55.000 10.58 0.00 41.76 2.92
772 1036 1.735376 AATCCCCGACGTCCGATCAG 61.735 60.000 10.58 0.00 41.76 2.90
773 1037 2.905935 ATCCCCGACGTCCGATCAGT 62.906 60.000 10.58 0.00 41.76 3.41
774 1038 2.408022 CCCGACGTCCGATCAGTC 59.592 66.667 10.58 0.00 41.76 3.51
775 1039 2.408022 CCGACGTCCGATCAGTCC 59.592 66.667 10.58 0.00 41.76 3.85
776 1040 2.408022 CGACGTCCGATCAGTCCC 59.592 66.667 10.58 0.00 41.76 4.46
777 1041 2.408022 GACGTCCGATCAGTCCCG 59.592 66.667 3.51 0.00 0.00 5.14
778 1042 2.360852 ACGTCCGATCAGTCCCGT 60.361 61.111 0.00 0.00 0.00 5.28
779 1043 1.930908 GACGTCCGATCAGTCCCGTT 61.931 60.000 3.51 0.00 0.00 4.44
780 1044 1.214589 CGTCCGATCAGTCCCGTTT 59.785 57.895 0.00 0.00 0.00 3.60
781 1045 0.801067 CGTCCGATCAGTCCCGTTTC 60.801 60.000 0.00 0.00 0.00 2.78
782 1046 0.459759 GTCCGATCAGTCCCGTTTCC 60.460 60.000 0.00 0.00 0.00 3.13
783 1047 1.153429 CCGATCAGTCCCGTTTCCC 60.153 63.158 0.00 0.00 0.00 3.97
784 1048 1.153429 CGATCAGTCCCGTTTCCCC 60.153 63.158 0.00 0.00 0.00 4.81
785 1049 1.895020 CGATCAGTCCCGTTTCCCCA 61.895 60.000 0.00 0.00 0.00 4.96
786 1050 0.107654 GATCAGTCCCGTTTCCCCAG 60.108 60.000 0.00 0.00 0.00 4.45
787 1051 2.198304 ATCAGTCCCGTTTCCCCAGC 62.198 60.000 0.00 0.00 0.00 4.85
788 1052 2.852075 AGTCCCGTTTCCCCAGCA 60.852 61.111 0.00 0.00 0.00 4.41
795 1059 0.461870 CGTTTCCCCAGCATGATCGA 60.462 55.000 0.00 0.00 39.69 3.59
807 1071 0.390492 ATGATCGATCGAGCCTTGCA 59.610 50.000 28.63 11.68 0.00 4.08
808 1072 0.390492 TGATCGATCGAGCCTTGCAT 59.610 50.000 28.63 7.12 0.00 3.96
809 1073 1.613437 TGATCGATCGAGCCTTGCATA 59.387 47.619 28.63 7.06 0.00 3.14
928 1194 0.591170 CACGCCGGCCTATAAAATGG 59.409 55.000 23.46 4.79 0.00 3.16
961 1227 4.103627 TCATACTTGCCAGGATCATCACAT 59.896 41.667 0.00 0.00 0.00 3.21
998 1300 5.276461 TGATCATTGTAGCAAGGTACGAT 57.724 39.130 6.38 6.38 0.00 3.73
1073 1375 3.871395 GGGCAGCCTCCCTAGCAG 61.871 72.222 12.43 0.00 43.13 4.24
1184 1486 1.153823 CCGGCTACGTCAAGTCCAG 60.154 63.158 0.00 0.00 38.78 3.86
1257 1560 2.749076 CACACGGATCAAACCATCATGT 59.251 45.455 0.00 0.00 0.00 3.21
1258 1561 3.009723 ACACGGATCAAACCATCATGTC 58.990 45.455 0.00 0.00 0.00 3.06
1260 1563 3.064408 CACGGATCAAACCATCATGTCTG 59.936 47.826 0.00 0.00 0.00 3.51
1273 1854 1.869767 CATGTCTGCTAATTCGCCTCC 59.130 52.381 0.00 0.00 0.00 4.30
1293 1875 0.522626 TGTTTGTCATGCAGATGCCG 59.477 50.000 1.72 0.00 41.18 5.69
1617 2199 2.727123 TCAAGTTTGGGCTTCACAGA 57.273 45.000 0.00 0.00 0.00 3.41
1666 2256 7.378995 CGGAGTACTACTGATGTTTTATACAGC 59.621 40.741 2.99 0.00 43.45 4.40
1703 2299 4.825085 TCACCCTTGTATCTTCCAAAACAC 59.175 41.667 0.00 0.00 0.00 3.32
1719 2315 5.459762 CCAAAACACAAACTAGCATGACAAG 59.540 40.000 0.00 0.00 0.00 3.16
1874 2470 9.754382 ATGCGAGCAATTATTTTTCAGAAATAT 57.246 25.926 0.57 0.21 0.00 1.28
1951 2550 3.259902 GAAAGAAAACGGTCCGAGCTAT 58.740 45.455 20.51 0.00 0.00 2.97
1997 2596 8.962884 AAGTTGCTTTTGGAAAATATTTGTCT 57.037 26.923 0.39 0.00 0.00 3.41
2023 2622 4.321008 GCATGCCCATGTGAGATCTAATTG 60.321 45.833 6.36 0.00 40.80 2.32
2024 2623 3.216800 TGCCCATGTGAGATCTAATTGC 58.783 45.455 0.00 0.00 0.00 3.56
2059 2658 4.493545 CGCGAGAAACACAACTGTAAAAGT 60.494 41.667 0.00 0.00 42.60 2.66
2075 2674 4.961438 AAAAGTGGATGTTGATTTGGCT 57.039 36.364 0.00 0.00 0.00 4.75
2076 2675 6.491745 TGTAAAAGTGGATGTTGATTTGGCTA 59.508 34.615 0.00 0.00 0.00 3.93
2127 2726 3.955771 TTGTTACTGACTTTTGACCGC 57.044 42.857 0.00 0.00 0.00 5.68
2129 2728 1.193874 GTTACTGACTTTTGACCGCGG 59.806 52.381 26.86 26.86 0.00 6.46
2142 2741 0.599204 ACCGCGGAACACAACAGTAG 60.599 55.000 35.90 0.00 0.00 2.57
2143 2742 0.599204 CCGCGGAACACAACAGTAGT 60.599 55.000 24.07 0.00 0.00 2.73
2314 2913 5.920273 CCATAATCAAACCATAACGCCATTC 59.080 40.000 0.00 0.00 0.00 2.67
2320 2919 3.066291 ACCATAACGCCATTCTGTTCA 57.934 42.857 0.00 0.00 0.00 3.18
2325 2924 0.534203 ACGCCATTCTGTTCAACGGT 60.534 50.000 0.00 0.00 0.00 4.83
2329 2928 1.069022 CCATTCTGTTCAACGGTGCAG 60.069 52.381 0.00 0.00 0.00 4.41
2343 2942 1.380246 TGCAGCCCCATCCATGAAC 60.380 57.895 0.00 0.00 0.00 3.18
2404 3003 2.107552 CAACACCTTCCTTGGGGAGTTA 59.892 50.000 0.00 0.00 43.29 2.24
2435 3034 3.185391 GGCTATTGCGAGAAGTTAGCATC 59.815 47.826 5.99 0.00 40.83 3.91
2436 3035 3.121194 GCTATTGCGAGAAGTTAGCATCG 60.121 47.826 0.00 0.00 40.83 3.84
2452 3051 2.706273 CATCGACTAGAAGAACGTCCG 58.294 52.381 0.00 0.00 0.00 4.79
2466 3065 1.009903 CGTCCGTGCGTTACAATGGA 61.010 55.000 0.00 0.00 33.75 3.41
2467 3066 0.441145 GTCCGTGCGTTACAATGGAC 59.559 55.000 9.67 9.67 44.36 4.02
2469 3068 0.951525 CCGTGCGTTACAATGGACCA 60.952 55.000 0.00 0.00 33.29 4.02
2470 3069 0.165079 CGTGCGTTACAATGGACCAC 59.835 55.000 0.00 0.00 33.29 4.16
2471 3070 1.519408 GTGCGTTACAATGGACCACT 58.481 50.000 0.00 0.00 30.98 4.00
2476 3076 4.762765 TGCGTTACAATGGACCACTTTAAT 59.237 37.500 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
94 95 1.404583 GGCTATGTACCCGTTCAACGT 60.405 52.381 9.52 0.00 40.58 3.99
184 432 1.355563 CTGAGCCGATGCAGCAATG 59.644 57.895 1.53 0.00 41.13 2.82
214 462 4.233789 GTCATTTGTTATTTCGCTGGCAA 58.766 39.130 0.00 0.00 0.00 4.52
225 473 2.162208 CGCTGCCACTGTCATTTGTTAT 59.838 45.455 0.00 0.00 0.00 1.89
297 549 4.935808 ACTTGTTCTCGTGGAAATGGATAC 59.064 41.667 0.00 0.00 35.51 2.24
388 641 3.667360 TGGATCGATGGCTTCATACATG 58.333 45.455 0.54 0.00 0.00 3.21
423 676 2.278245 AGGGATGTCTTCATTGTCCCA 58.722 47.619 11.03 0.00 37.80 4.37
424 677 3.372440 AAGGGATGTCTTCATTGTCCC 57.628 47.619 0.45 0.45 36.46 4.46
425 678 3.119352 GCAAAGGGATGTCTTCATTGTCC 60.119 47.826 0.00 0.00 34.06 4.02
426 679 3.507233 TGCAAAGGGATGTCTTCATTGTC 59.493 43.478 0.00 0.00 34.06 3.18
427 680 3.499338 TGCAAAGGGATGTCTTCATTGT 58.501 40.909 0.00 0.00 34.06 2.71
428 681 4.430007 CATGCAAAGGGATGTCTTCATTG 58.570 43.478 0.00 0.00 37.99 2.82
429 682 3.118884 GCATGCAAAGGGATGTCTTCATT 60.119 43.478 14.21 0.00 44.00 2.57
430 683 2.429610 GCATGCAAAGGGATGTCTTCAT 59.570 45.455 14.21 0.00 44.00 2.57
431 684 1.820519 GCATGCAAAGGGATGTCTTCA 59.179 47.619 14.21 0.00 44.00 3.02
478 731 1.703438 GCTGGAAGATGCACAGAGCG 61.703 60.000 5.51 0.00 41.90 5.03
518 771 3.053291 GTGCAAATCCGTGGGCGA 61.053 61.111 0.00 0.00 41.33 5.54
524 777 3.055719 CTGGCCGTGCAAATCCGT 61.056 61.111 0.00 0.00 0.00 4.69
525 778 3.814268 CCTGGCCGTGCAAATCCG 61.814 66.667 0.00 0.00 0.00 4.18
526 779 1.376609 CTACCTGGCCGTGCAAATCC 61.377 60.000 0.00 0.00 0.00 3.01
527 780 1.993369 GCTACCTGGCCGTGCAAATC 61.993 60.000 0.00 0.00 0.00 2.17
545 809 3.057526 GGTGTTTACTTCATCACTTGGGC 60.058 47.826 0.00 0.00 0.00 5.36
654 918 6.038714 GCCTTTTGTTCTCTCTCTCTCAAAAA 59.961 38.462 0.00 0.00 35.44 1.94
655 919 5.529060 GCCTTTTGTTCTCTCTCTCTCAAAA 59.471 40.000 0.00 0.00 34.90 2.44
656 920 5.059833 GCCTTTTGTTCTCTCTCTCTCAAA 58.940 41.667 0.00 0.00 0.00 2.69
657 921 4.346418 AGCCTTTTGTTCTCTCTCTCTCAA 59.654 41.667 0.00 0.00 0.00 3.02
658 922 3.900601 AGCCTTTTGTTCTCTCTCTCTCA 59.099 43.478 0.00 0.00 0.00 3.27
659 923 4.220602 AGAGCCTTTTGTTCTCTCTCTCTC 59.779 45.833 0.00 0.00 32.11 3.20
660 924 4.159557 AGAGCCTTTTGTTCTCTCTCTCT 58.840 43.478 0.00 0.00 32.11 3.10
661 925 4.535526 AGAGCCTTTTGTTCTCTCTCTC 57.464 45.455 0.00 0.00 32.11 3.20
662 926 6.619329 AATAGAGCCTTTTGTTCTCTCTCT 57.381 37.500 0.00 0.00 38.14 3.10
663 927 7.777095 TCTAATAGAGCCTTTTGTTCTCTCTC 58.223 38.462 0.00 0.00 38.14 3.20
664 928 7.726033 TCTAATAGAGCCTTTTGTTCTCTCT 57.274 36.000 0.00 0.00 38.14 3.10
665 929 9.691362 CTATCTAATAGAGCCTTTTGTTCTCTC 57.309 37.037 0.00 0.00 38.14 3.20
666 930 9.427821 TCTATCTAATAGAGCCTTTTGTTCTCT 57.572 33.333 0.00 0.00 36.98 3.10
667 931 9.471084 GTCTATCTAATAGAGCCTTTTGTTCTC 57.529 37.037 0.00 0.00 42.20 2.87
668 932 8.138712 CGTCTATCTAATAGAGCCTTTTGTTCT 58.861 37.037 0.00 0.00 42.20 3.01
669 933 7.382759 CCGTCTATCTAATAGAGCCTTTTGTTC 59.617 40.741 0.00 0.00 42.20 3.18
670 934 7.210873 CCGTCTATCTAATAGAGCCTTTTGTT 58.789 38.462 0.00 0.00 42.20 2.83
755 1019 2.827190 CTGATCGGACGTCGGGGA 60.827 66.667 21.27 13.17 39.77 4.81
760 1024 1.930908 AACGGGACTGATCGGACGTC 61.931 60.000 18.52 7.13 31.79 4.34
766 1030 1.153429 GGGGAAACGGGACTGATCG 60.153 63.158 0.00 0.00 0.00 3.69
767 1031 0.107654 CTGGGGAAACGGGACTGATC 60.108 60.000 0.00 0.00 0.00 2.92
768 1032 1.991230 CTGGGGAAACGGGACTGAT 59.009 57.895 0.00 0.00 0.00 2.90
769 1033 2.890766 GCTGGGGAAACGGGACTGA 61.891 63.158 0.00 0.00 0.00 3.41
770 1034 2.359975 GCTGGGGAAACGGGACTG 60.360 66.667 0.00 0.00 0.00 3.51
771 1035 2.231380 ATGCTGGGGAAACGGGACT 61.231 57.895 0.00 0.00 0.00 3.85
772 1036 2.046285 CATGCTGGGGAAACGGGAC 61.046 63.158 0.00 0.00 0.00 4.46
773 1037 1.570857 ATCATGCTGGGGAAACGGGA 61.571 55.000 0.00 0.00 0.00 5.14
774 1038 1.076777 ATCATGCTGGGGAAACGGG 60.077 57.895 0.00 0.00 0.00 5.28
775 1039 1.439353 CGATCATGCTGGGGAAACGG 61.439 60.000 0.00 0.00 0.00 4.44
776 1040 0.461870 TCGATCATGCTGGGGAAACG 60.462 55.000 0.00 0.00 0.00 3.60
777 1041 1.876156 GATCGATCATGCTGGGGAAAC 59.124 52.381 20.52 0.00 0.00 2.78
778 1042 1.541015 CGATCGATCATGCTGGGGAAA 60.541 52.381 24.40 0.00 0.00 3.13
779 1043 0.033920 CGATCGATCATGCTGGGGAA 59.966 55.000 24.40 0.00 0.00 3.97
780 1044 0.827507 TCGATCGATCATGCTGGGGA 60.828 55.000 24.40 8.54 0.00 4.81
781 1045 0.389556 CTCGATCGATCATGCTGGGG 60.390 60.000 24.40 3.79 0.00 4.96
782 1046 1.013005 GCTCGATCGATCATGCTGGG 61.013 60.000 24.40 9.27 0.00 4.45
783 1047 1.013005 GGCTCGATCGATCATGCTGG 61.013 60.000 27.34 12.57 0.00 4.85
784 1048 0.038435 AGGCTCGATCGATCATGCTG 60.038 55.000 27.34 13.15 0.00 4.41
785 1049 0.678395 AAGGCTCGATCGATCATGCT 59.322 50.000 27.34 16.66 0.00 3.79
786 1050 0.788995 CAAGGCTCGATCGATCATGC 59.211 55.000 24.40 23.79 0.00 4.06
787 1051 0.788995 GCAAGGCTCGATCGATCATG 59.211 55.000 24.40 17.10 0.00 3.07
788 1052 0.390492 TGCAAGGCTCGATCGATCAT 59.610 50.000 24.40 9.63 0.00 2.45
795 1059 4.366586 CATCGATATATGCAAGGCTCGAT 58.633 43.478 16.85 16.85 39.98 3.59
915 1181 4.455070 AAGAGGGTCCATTTTATAGGCC 57.545 45.455 0.00 0.00 0.00 5.19
928 1194 3.686016 TGGCAAGTATGAAAAGAGGGTC 58.314 45.455 0.00 0.00 0.00 4.46
961 1227 2.171003 TGATCAAAGGAGAGCTCGTGA 58.829 47.619 8.37 8.60 0.00 4.35
998 1300 0.035534 TCTCGCCAGCAAAGCCATTA 60.036 50.000 0.00 0.00 0.00 1.90
1257 1560 1.195115 ACAGGAGGCGAATTAGCAGA 58.805 50.000 12.78 0.00 39.27 4.26
1258 1561 2.029838 AACAGGAGGCGAATTAGCAG 57.970 50.000 12.78 0.00 39.27 4.24
1260 1563 2.084546 ACAAACAGGAGGCGAATTAGC 58.915 47.619 1.35 1.35 0.00 3.09
1273 1854 1.466866 CGGCATCTGCATGACAAACAG 60.467 52.381 0.00 2.43 38.04 3.16
1354 1936 3.447025 ATCTGGAAGTAGCCGCGCC 62.447 63.158 0.00 0.00 33.76 6.53
1617 2199 4.752879 CCGCGTGTGTCCCGGAAT 62.753 66.667 0.73 0.00 44.55 3.01
1692 2288 5.687285 GTCATGCTAGTTTGTGTTTTGGAAG 59.313 40.000 0.00 0.00 0.00 3.46
1703 2299 4.913924 GTGCTTTCTTGTCATGCTAGTTTG 59.086 41.667 0.00 0.00 0.00 2.93
1808 2404 8.785329 TTCTGTGTAGTTTATATGACATGCAA 57.215 30.769 0.00 0.00 0.00 4.08
1831 2427 5.160699 TCGCATATCATTCAAACTGCTTC 57.839 39.130 0.00 0.00 0.00 3.86
1874 2470 2.953284 TATCCAACGGTGAAAACCCA 57.047 45.000 0.00 0.00 0.00 4.51
1997 2596 2.440627 AGATCTCACATGGGCATGCTTA 59.559 45.455 18.92 7.29 42.39 3.09
2000 2599 2.556144 TAGATCTCACATGGGCATGC 57.444 50.000 9.90 9.90 42.39 4.06
2059 2658 4.661222 TGAACTAGCCAAATCAACATCCA 58.339 39.130 0.00 0.00 0.00 3.41
2075 2674 4.331968 AGCCAAACGGATGAAATGAACTA 58.668 39.130 0.00 0.00 0.00 2.24
2076 2675 3.157087 AGCCAAACGGATGAAATGAACT 58.843 40.909 0.00 0.00 0.00 3.01
2127 2726 5.917541 AAATGTACTACTGTTGTGTTCCG 57.082 39.130 5.14 0.00 0.00 4.30
2314 2913 2.639286 GGCTGCACCGTTGAACAG 59.361 61.111 0.50 0.00 0.00 3.16
2320 2919 4.740822 GGATGGGGCTGCACCGTT 62.741 66.667 18.29 6.49 40.62 4.44
2325 2924 1.380246 GTTCATGGATGGGGCTGCA 60.380 57.895 0.50 0.00 0.00 4.41
2329 2928 0.397535 ACATGGTTCATGGATGGGGC 60.398 55.000 11.85 0.00 45.16 5.80
2343 2942 3.815401 CCCCGCTTCTAAGAATAACATGG 59.185 47.826 0.00 0.00 0.00 3.66
2379 2978 2.171003 CCCCAAGGAAGGTGTTGATTC 58.829 52.381 0.00 0.00 33.47 2.52
2380 2979 1.786441 TCCCCAAGGAAGGTGTTGATT 59.214 47.619 0.00 0.00 40.08 2.57
2404 3003 1.137086 CTCGCAATAGCCCACACTACT 59.863 52.381 0.00 0.00 37.52 2.57
2435 3034 1.879646 CACGGACGTTCTTCTAGTCG 58.120 55.000 0.00 0.00 35.87 4.18
2436 3035 1.615502 GCACGGACGTTCTTCTAGTC 58.384 55.000 0.00 0.00 0.00 2.59
2452 3051 1.519408 AGTGGTCCATTGTAACGCAC 58.481 50.000 0.00 0.00 0.00 5.34
2459 3058 9.143155 ACTCTTAAAATTAAAGTGGTCCATTGT 57.857 29.630 0.00 0.00 0.00 2.71
2561 4621 6.161855 AGAGAGTGTGTGTGTGAGAATTTA 57.838 37.500 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.