Multiple sequence alignment - TraesCS3D01G178900

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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 TraesCS3D01G178900 chr3D 100.000 3222 0 0 1 3222 160703607 160700386 0.000000e+00 5951.0
1 TraesCS3D01G178900 chr3A 96.562 2705 41 7 1 2692 187252786 187250121 0.000000e+00 4433.0
2 TraesCS3D01G178900 chr3A 94.737 418 16 3 2807 3219 187250123 187249707 0.000000e+00 645.0
3 TraesCS3D01G178900 chr3A 88.462 52 4 2 2905 2956 621211476 621211427 9.650000e-06 62.1
4 TraesCS3D01G178900 chr3B 89.431 2867 164 63 1 2779 237337311 237334496 0.000000e+00 3487.0
5 TraesCS3D01G178900 chr3B 92.343 431 18 5 2804 3220 237334456 237334027 1.650000e-167 599.0
6 TraesCS3D01G178900 chr3B 90.000 50 3 2 2905 2954 52738458 52738411 2.680000e-06 63.9
7 TraesCS3D01G178900 chr2B 97.436 39 1 0 2917 2955 655839615 655839653 2.070000e-07 67.6
8 TraesCS3D01G178900 chrUn 97.368 38 1 0 2920 2957 31931899 31931862 7.460000e-07 65.8
9 TraesCS3D01G178900 chr6D 97.297 37 1 0 2920 2956 203859041 203859005 2.680000e-06 63.9
10 TraesCS3D01G178900 chr6D 86.538 52 5 2 2905 2956 63328228 63328277 4.490000e-04 56.5
11 TraesCS3D01G178900 chr4A 88.000 50 4 2 2905 2954 733987567 733987520 1.250000e-04 58.4


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 TraesCS3D01G178900 chr3D 160700386 160703607 3221 True 5951 5951 100.0000 1 3222 1 chr3D.!!$R1 3221
1 TraesCS3D01G178900 chr3A 187249707 187252786 3079 True 2539 4433 95.6495 1 3219 2 chr3A.!!$R2 3218
2 TraesCS3D01G178900 chr3B 237334027 237337311 3284 True 2043 3487 90.8870 1 3220 2 chr3B.!!$R2 3219

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
460 488 1.093159 TCGGAACTCTCGCTCCTTAC 58.907 55.000 0.0 0.0 0.00 2.34 F
585 644 1.496001 TCTGATGTGCATATGGCCCTT 59.504 47.619 0.0 0.0 43.89 3.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1973 2076 4.943705 TGCCCTTGTTAATGAAGATGTCTC 59.056 41.667 0.0 0.0 0.00 3.36 R
2500 2603 3.964411 AGTAACATAAACCTTCCAGGGC 58.036 45.455 0.0 0.0 40.58 5.19 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
173 180 4.697756 CCGAACCCTTCAGCGCCA 62.698 66.667 2.29 0.00 0.00 5.69
174 181 3.423154 CGAACCCTTCAGCGCCAC 61.423 66.667 2.29 0.00 0.00 5.01
175 182 3.056328 GAACCCTTCAGCGCCACC 61.056 66.667 2.29 0.00 0.00 4.61
446 474 4.261801 GTGATTCCTTTCTTCCATCGGAA 58.738 43.478 0.00 0.00 39.66 4.30
459 487 1.676529 CATCGGAACTCTCGCTCCTTA 59.323 52.381 0.00 0.00 0.00 2.69
460 488 1.093159 TCGGAACTCTCGCTCCTTAC 58.907 55.000 0.00 0.00 0.00 2.34
501 530 8.715998 GCATGACCTTGTTAATACATCTATCAG 58.284 37.037 0.00 0.00 33.44 2.90
585 644 1.496001 TCTGATGTGCATATGGCCCTT 59.504 47.619 0.00 0.00 43.89 3.95
714 797 4.267536 TCACTGGCGTGAACTATAGTAGT 58.732 43.478 5.65 1.02 46.61 2.73
826 923 3.926616 ACACTCTGTAGCATGGTTACAC 58.073 45.455 1.12 0.00 0.00 2.90
919 1016 4.694509 GGCATGATGGAATGACTATGAGAC 59.305 45.833 0.00 0.00 32.38 3.36
1113 1210 4.823989 CACAATGAAGGTGGAGTTCTTCTT 59.176 41.667 0.00 0.00 39.85 2.52
1200 1297 5.130477 ACACTACATCGAGGTTATTGGGATT 59.870 40.000 8.51 0.00 0.00 3.01
1345 1443 6.647334 TTGTTGGTTAATTCATCTTGCTGA 57.353 33.333 0.00 0.00 0.00 4.26
1575 1674 8.603983 TTGTTATTCTTTGTTTACGTCAACAC 57.396 30.769 14.58 2.31 36.36 3.32
1592 1691 9.378551 ACGTCAACACATATTAATACATGTCTT 57.621 29.630 0.00 0.66 33.12 3.01
1973 2076 4.095483 AGCATTTCTTATGACAGCTTTCCG 59.905 41.667 0.00 0.00 0.00 4.30
2034 2137 5.880341 AGTTATTTTATTCTGCACTTCCGC 58.120 37.500 0.00 0.00 0.00 5.54
2500 2603 8.690203 TTATGTTACTATCACATGGATTTGGG 57.310 34.615 0.00 0.00 35.57 4.12
2575 2678 5.198207 TGCACCTTGATGATTTCTGATGAT 58.802 37.500 0.00 0.00 0.00 2.45
2692 2934 2.191128 ACTGAATGTCTGAAGCCACC 57.809 50.000 0.00 0.00 0.00 4.61
2693 2935 1.701847 ACTGAATGTCTGAAGCCACCT 59.298 47.619 0.00 0.00 0.00 4.00
2694 2936 2.082231 CTGAATGTCTGAAGCCACCTG 58.918 52.381 0.00 0.00 0.00 4.00
2695 2937 1.699083 TGAATGTCTGAAGCCACCTGA 59.301 47.619 0.00 0.00 0.00 3.86
2696 2938 2.306805 TGAATGTCTGAAGCCACCTGAT 59.693 45.455 0.00 0.00 0.00 2.90
2697 2939 3.245016 TGAATGTCTGAAGCCACCTGATT 60.245 43.478 0.00 0.00 0.00 2.57
2698 2940 2.957402 TGTCTGAAGCCACCTGATTT 57.043 45.000 0.00 0.00 0.00 2.17
2699 2941 2.507484 TGTCTGAAGCCACCTGATTTG 58.493 47.619 0.00 0.00 0.00 2.32
2700 2942 2.158623 TGTCTGAAGCCACCTGATTTGT 60.159 45.455 0.00 0.00 0.00 2.83
2701 2943 2.227388 GTCTGAAGCCACCTGATTTGTG 59.773 50.000 0.00 0.00 0.00 3.33
2702 2944 0.961019 TGAAGCCACCTGATTTGTGC 59.039 50.000 0.00 0.00 32.30 4.57
2703 2945 1.251251 GAAGCCACCTGATTTGTGCT 58.749 50.000 0.00 0.00 32.30 4.40
2704 2946 1.200948 GAAGCCACCTGATTTGTGCTC 59.799 52.381 0.00 0.00 32.30 4.26
2705 2947 0.403271 AGCCACCTGATTTGTGCTCT 59.597 50.000 0.00 0.00 32.30 4.09
2706 2948 0.524862 GCCACCTGATTTGTGCTCTG 59.475 55.000 0.00 0.00 32.30 3.35
2707 2949 1.901591 CCACCTGATTTGTGCTCTGT 58.098 50.000 0.00 0.00 32.30 3.41
2708 2950 1.538512 CCACCTGATTTGTGCTCTGTG 59.461 52.381 0.00 0.00 32.30 3.66
2709 2951 2.224606 CACCTGATTTGTGCTCTGTGT 58.775 47.619 0.00 0.00 0.00 3.72
2710 2952 3.402110 CACCTGATTTGTGCTCTGTGTA 58.598 45.455 0.00 0.00 0.00 2.90
2711 2953 3.434641 CACCTGATTTGTGCTCTGTGTAG 59.565 47.826 0.00 0.00 0.00 2.74
2712 2954 2.417933 CCTGATTTGTGCTCTGTGTAGC 59.582 50.000 0.00 0.00 43.08 3.58
2730 2972 2.175878 GCAGAGAGCCTTCTGTTTGA 57.824 50.000 14.45 0.00 45.07 2.69
2731 2973 2.498167 GCAGAGAGCCTTCTGTTTGAA 58.502 47.619 14.45 0.00 45.07 2.69
2732 2974 2.880890 GCAGAGAGCCTTCTGTTTGAAA 59.119 45.455 14.45 0.00 45.07 2.69
2733 2975 3.058363 GCAGAGAGCCTTCTGTTTGAAAG 60.058 47.826 14.45 0.00 45.07 2.62
2734 2976 4.133078 CAGAGAGCCTTCTGTTTGAAAGT 58.867 43.478 6.85 0.00 39.76 2.66
2735 2977 4.578105 CAGAGAGCCTTCTGTTTGAAAGTT 59.422 41.667 6.85 0.00 39.76 2.66
2736 2978 5.067023 CAGAGAGCCTTCTGTTTGAAAGTTT 59.933 40.000 6.85 0.00 39.76 2.66
2737 2979 5.654209 AGAGAGCCTTCTGTTTGAAAGTTTT 59.346 36.000 0.00 0.00 33.79 2.43
2738 2980 6.828785 AGAGAGCCTTCTGTTTGAAAGTTTTA 59.171 34.615 0.00 0.00 33.79 1.52
2739 2981 7.503902 AGAGAGCCTTCTGTTTGAAAGTTTTAT 59.496 33.333 0.00 0.00 33.79 1.40
2740 2982 7.428826 AGAGCCTTCTGTTTGAAAGTTTTATG 58.571 34.615 0.00 0.00 33.79 1.90
2741 2983 6.515832 AGCCTTCTGTTTGAAAGTTTTATGG 58.484 36.000 0.00 0.00 33.79 2.74
2742 2984 6.098266 AGCCTTCTGTTTGAAAGTTTTATGGT 59.902 34.615 0.00 0.00 33.79 3.55
2743 2985 6.761242 GCCTTCTGTTTGAAAGTTTTATGGTT 59.239 34.615 0.00 0.00 33.79 3.67
2744 2986 7.279981 GCCTTCTGTTTGAAAGTTTTATGGTTT 59.720 33.333 0.00 0.00 33.79 3.27
2745 2987 9.810545 CCTTCTGTTTGAAAGTTTTATGGTTTA 57.189 29.630 0.00 0.00 33.79 2.01
2754 2996 9.793259 TGAAAGTTTTATGGTTTAGATCTCTGT 57.207 29.630 0.00 0.00 0.00 3.41
2764 3006 9.660180 ATGGTTTAGATCTCTGTTTAGAACTTC 57.340 33.333 0.00 0.00 31.74 3.01
2765 3007 8.095169 TGGTTTAGATCTCTGTTTAGAACTTCC 58.905 37.037 0.00 0.00 31.74 3.46
2766 3008 8.095169 GGTTTAGATCTCTGTTTAGAACTTCCA 58.905 37.037 0.00 0.00 31.74 3.53
2767 3009 8.927721 GTTTAGATCTCTGTTTAGAACTTCCAC 58.072 37.037 0.00 0.00 31.74 4.02
2768 3010 6.043854 AGATCTCTGTTTAGAACTTCCACC 57.956 41.667 0.00 0.00 31.21 4.61
2769 3011 4.618920 TCTCTGTTTAGAACTTCCACCC 57.381 45.455 0.00 0.00 31.21 4.61
2770 3012 3.971305 TCTCTGTTTAGAACTTCCACCCA 59.029 43.478 0.00 0.00 31.21 4.51
2771 3013 4.410883 TCTCTGTTTAGAACTTCCACCCAA 59.589 41.667 0.00 0.00 31.21 4.12
2772 3014 4.714632 TCTGTTTAGAACTTCCACCCAAG 58.285 43.478 0.00 0.00 0.00 3.61
2773 3015 4.165372 TCTGTTTAGAACTTCCACCCAAGT 59.835 41.667 0.00 0.00 38.30 3.16
2774 3016 4.204012 TGTTTAGAACTTCCACCCAAGTG 58.796 43.478 0.00 0.00 44.12 3.16
2775 3017 9.735432 CTCTGTTTAGAACTTCCACCCAAGTGA 62.735 44.444 0.00 0.00 38.19 3.41
2851 3094 0.249447 AAGCGAGCTTTTTGGTTGGC 60.249 50.000 4.26 0.00 31.29 4.52
2878 3121 8.522830 GTTGGATTATCAGTTGAAATTTCCTCA 58.477 33.333 15.48 0.00 0.00 3.86
2881 3124 9.927668 GGATTATCAGTTGAAATTTCCTCAAAA 57.072 29.630 15.48 0.00 34.68 2.44
2983 3238 3.644966 TCCTTTCCCTGCAATTCGTAT 57.355 42.857 0.00 0.00 0.00 3.06
3201 3457 5.988561 TGTAAAACTGAAAAATGATGCCACC 59.011 36.000 0.00 0.00 0.00 4.61
3211 3467 1.692749 GATGCCACCCTCCTACCCA 60.693 63.158 0.00 0.00 0.00 4.51
3220 3476 4.464951 CCACCCTCCTACCCAAATAAAAAC 59.535 45.833 0.00 0.00 0.00 2.43
3221 3477 4.157105 CACCCTCCTACCCAAATAAAAACG 59.843 45.833 0.00 0.00 0.00 3.60
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
158 165 3.056328 GGTGGCGCTGAAGGGTTC 61.056 66.667 7.64 0.00 0.00 3.62
161 168 4.697756 TTCGGTGGCGCTGAAGGG 62.698 66.667 17.94 0.00 37.54 3.95
162 169 3.423154 GTTCGGTGGCGCTGAAGG 61.423 66.667 21.91 0.00 42.63 3.46
163 170 3.423154 GGTTCGGTGGCGCTGAAG 61.423 66.667 21.91 0.08 42.63 3.02
446 474 3.981051 TCCAGTAAGGAGCGAGAGT 57.019 52.632 0.00 0.00 43.07 3.24
459 487 3.256631 GTCATGCCAGAAACAAATCCAGT 59.743 43.478 0.00 0.00 0.00 4.00
460 488 3.367703 GGTCATGCCAGAAACAAATCCAG 60.368 47.826 1.78 0.00 37.17 3.86
501 530 9.469807 AGAAGTAACTCAATCATATCGATCAAC 57.530 33.333 0.00 0.00 31.11 3.18
585 644 1.606668 GCATTTCAGTGGTTTCCGACA 59.393 47.619 0.00 0.00 0.00 4.35
826 923 4.811557 GCTAAAGCTGTGGTACTGATAAGG 59.188 45.833 0.00 0.00 38.21 2.69
919 1016 6.907212 GCATGGAGAATAAGTAAATTGACACG 59.093 38.462 0.00 0.00 0.00 4.49
1074 1171 2.498644 TGTGTTGGACTTGAACCACA 57.501 45.000 0.00 0.00 37.13 4.17
1336 1434 5.075493 AGTCAAACCTCATTTCAGCAAGAT 58.925 37.500 0.00 0.00 0.00 2.40
1345 1443 9.447157 TGAAAAATTGAAAGTCAAACCTCATTT 57.553 25.926 0.00 0.00 40.12 2.32
1403 1501 7.092748 AGGTACAGCTCCTCTTATGTCTATA 57.907 40.000 0.00 0.00 0.00 1.31
1592 1691 9.248291 GCTCTCAAACAAAATTAGATTTGAACA 57.752 29.630 6.76 2.98 41.73 3.18
1673 1772 5.001232 TGTTCCAGAGAATAAAGGGAAACG 58.999 41.667 0.00 0.00 39.18 3.60
1973 2076 4.943705 TGCCCTTGTTAATGAAGATGTCTC 59.056 41.667 0.00 0.00 0.00 3.36
2034 2137 8.391106 GCTAAGTAGAATTATTTCTGTGTGTGG 58.609 37.037 9.62 0.00 42.25 4.17
2500 2603 3.964411 AGTAACATAAACCTTCCAGGGC 58.036 45.455 0.00 0.00 40.58 5.19
2575 2678 5.105310 GCAAGTAGTCTGGACTATGAAGGAA 60.105 44.000 12.72 0.00 44.73 3.36
2692 2934 3.736530 GCTACACAGAGCACAAATCAG 57.263 47.619 0.00 0.00 42.36 2.90
2704 2946 4.931571 ACAGAAGGCTCTCTGCTACACAG 61.932 52.174 19.75 0.00 45.72 3.66
2705 2947 1.547820 CAGAAGGCTCTCTGCTACACA 59.452 52.381 11.80 0.00 42.39 3.72
2706 2948 1.548269 ACAGAAGGCTCTCTGCTACAC 59.452 52.381 19.75 0.00 45.72 2.90
2707 2949 1.930251 ACAGAAGGCTCTCTGCTACA 58.070 50.000 19.75 0.00 45.72 2.74
2708 2950 2.999355 CAAACAGAAGGCTCTCTGCTAC 59.001 50.000 19.75 0.00 45.72 3.58
2709 2951 2.899900 TCAAACAGAAGGCTCTCTGCTA 59.100 45.455 19.75 6.66 45.72 3.49
2710 2952 1.696336 TCAAACAGAAGGCTCTCTGCT 59.304 47.619 19.75 10.19 45.72 4.24
2711 2953 2.175878 TCAAACAGAAGGCTCTCTGC 57.824 50.000 19.75 0.00 45.72 4.26
2712 2954 4.133078 ACTTTCAAACAGAAGGCTCTCTG 58.867 43.478 18.80 18.80 46.94 3.35
2713 2955 4.429854 ACTTTCAAACAGAAGGCTCTCT 57.570 40.909 0.00 0.00 36.84 3.10
2714 2956 5.506686 AAACTTTCAAACAGAAGGCTCTC 57.493 39.130 0.00 0.00 36.84 3.20
2715 2957 5.921962 AAAACTTTCAAACAGAAGGCTCT 57.078 34.783 0.00 0.00 36.84 4.09
2716 2958 6.642540 CCATAAAACTTTCAAACAGAAGGCTC 59.357 38.462 0.00 0.00 36.84 4.70
2717 2959 6.098266 ACCATAAAACTTTCAAACAGAAGGCT 59.902 34.615 0.00 0.00 36.84 4.58
2718 2960 6.280643 ACCATAAAACTTTCAAACAGAAGGC 58.719 36.000 0.00 0.00 36.84 4.35
2719 2961 8.716646 AAACCATAAAACTTTCAAACAGAAGG 57.283 30.769 0.00 0.00 39.11 3.46
2728 2970 9.793259 ACAGAGATCTAAACCATAAAACTTTCA 57.207 29.630 0.00 0.00 0.00 2.69
2738 2980 9.660180 GAAGTTCTAAACAGAGATCTAAACCAT 57.340 33.333 0.00 0.00 0.00 3.55
2739 2981 8.095169 GGAAGTTCTAAACAGAGATCTAAACCA 58.905 37.037 2.25 0.00 0.00 3.67
2740 2982 8.095169 TGGAAGTTCTAAACAGAGATCTAAACC 58.905 37.037 2.25 0.00 0.00 3.27
2741 2983 8.927721 GTGGAAGTTCTAAACAGAGATCTAAAC 58.072 37.037 2.25 0.00 0.00 2.01
2742 2984 8.095169 GGTGGAAGTTCTAAACAGAGATCTAAA 58.905 37.037 2.25 0.00 0.00 1.85
2743 2985 7.310485 GGGTGGAAGTTCTAAACAGAGATCTAA 60.310 40.741 2.25 0.00 0.00 2.10
2744 2986 6.154706 GGGTGGAAGTTCTAAACAGAGATCTA 59.845 42.308 2.25 0.00 0.00 1.98
2745 2987 5.046231 GGGTGGAAGTTCTAAACAGAGATCT 60.046 44.000 0.00 0.00 0.00 2.75
2746 2988 5.179533 GGGTGGAAGTTCTAAACAGAGATC 58.820 45.833 2.25 0.00 0.00 2.75
2747 2989 4.597507 TGGGTGGAAGTTCTAAACAGAGAT 59.402 41.667 2.25 0.00 0.00 2.75
2748 2990 3.971305 TGGGTGGAAGTTCTAAACAGAGA 59.029 43.478 2.25 0.00 0.00 3.10
2749 2991 4.351874 TGGGTGGAAGTTCTAAACAGAG 57.648 45.455 2.25 0.00 0.00 3.35
2750 2992 4.165372 ACTTGGGTGGAAGTTCTAAACAGA 59.835 41.667 2.25 0.00 31.92 3.41
2751 2993 4.275936 CACTTGGGTGGAAGTTCTAAACAG 59.724 45.833 2.25 0.00 39.59 3.16
2752 2994 4.080243 TCACTTGGGTGGAAGTTCTAAACA 60.080 41.667 2.25 0.00 43.17 2.83
2753 2995 4.457466 TCACTTGGGTGGAAGTTCTAAAC 58.543 43.478 2.25 0.00 43.17 2.01
2754 2996 4.781775 TCACTTGGGTGGAAGTTCTAAA 57.218 40.909 2.25 0.00 43.17 1.85
2755 2997 4.993705 ATCACTTGGGTGGAAGTTCTAA 57.006 40.909 2.25 0.00 43.17 2.10
2756 2998 4.349636 TCAATCACTTGGGTGGAAGTTCTA 59.650 41.667 2.25 0.00 43.17 2.10
2757 2999 3.138283 TCAATCACTTGGGTGGAAGTTCT 59.862 43.478 2.25 0.00 43.17 3.01
2758 3000 3.486383 TCAATCACTTGGGTGGAAGTTC 58.514 45.455 0.00 0.00 43.17 3.01
2759 3001 3.593442 TCAATCACTTGGGTGGAAGTT 57.407 42.857 0.00 0.00 43.17 2.66
2760 3002 3.117512 AGTTCAATCACTTGGGTGGAAGT 60.118 43.478 0.00 0.00 43.17 3.01
2761 3003 3.490348 AGTTCAATCACTTGGGTGGAAG 58.510 45.455 0.00 0.00 43.17 3.46
2762 3004 3.593442 AGTTCAATCACTTGGGTGGAA 57.407 42.857 0.00 0.00 43.17 3.53
2763 3005 3.593442 AAGTTCAATCACTTGGGTGGA 57.407 42.857 0.00 0.00 43.17 4.02
2764 3006 4.670896 AAAAGTTCAATCACTTGGGTGG 57.329 40.909 0.00 0.00 43.17 4.61
2790 3032 1.546476 GTGTGTGTCACCCCACAAAAA 59.454 47.619 14.67 0.00 46.22 1.94
2791 3033 1.178276 GTGTGTGTCACCCCACAAAA 58.822 50.000 14.67 0.00 46.22 2.44
2792 3034 0.038310 TGTGTGTGTCACCCCACAAA 59.962 50.000 18.21 2.74 46.22 2.83
2793 3035 0.038310 TTGTGTGTGTCACCCCACAA 59.962 50.000 23.79 23.79 46.22 3.33
2794 3036 0.038310 TTTGTGTGTGTCACCCCACA 59.962 50.000 17.13 17.13 45.61 4.17
2795 3037 1.135228 GTTTTGTGTGTGTCACCCCAC 60.135 52.381 13.31 13.31 45.61 4.61
2796 3038 1.178276 GTTTTGTGTGTGTCACCCCA 58.822 50.000 0.00 0.00 45.61 4.96
2797 3039 1.470051 AGTTTTGTGTGTGTCACCCC 58.530 50.000 0.00 0.00 45.61 4.95
2798 3040 4.499019 CCATTAGTTTTGTGTGTGTCACCC 60.499 45.833 0.00 0.00 45.61 4.61
2799 3041 4.097286 ACCATTAGTTTTGTGTGTGTCACC 59.903 41.667 0.00 0.00 45.61 4.02
2800 3042 5.034152 CACCATTAGTTTTGTGTGTGTCAC 58.966 41.667 0.00 0.00 46.31 3.67
2801 3043 4.097135 CCACCATTAGTTTTGTGTGTGTCA 59.903 41.667 0.00 0.00 0.00 3.58
2802 3044 4.097286 ACCACCATTAGTTTTGTGTGTGTC 59.903 41.667 0.00 0.00 0.00 3.67
2803 3045 4.020543 ACCACCATTAGTTTTGTGTGTGT 58.979 39.130 0.00 0.00 0.00 3.72
2804 3046 4.097135 TCACCACCATTAGTTTTGTGTGTG 59.903 41.667 0.00 0.00 34.29 3.82
2805 3047 4.274147 TCACCACCATTAGTTTTGTGTGT 58.726 39.130 0.00 0.00 0.00 3.72
2806 3048 4.909696 TCACCACCATTAGTTTTGTGTG 57.090 40.909 0.00 0.00 0.00 3.82
2807 3049 6.097554 TGAATTCACCACCATTAGTTTTGTGT 59.902 34.615 3.38 0.00 0.00 3.72
2808 3050 6.511416 TGAATTCACCACCATTAGTTTTGTG 58.489 36.000 3.38 0.00 0.00 3.33
2817 3059 2.489329 CTCGCTTGAATTCACCACCATT 59.511 45.455 7.89 0.00 0.00 3.16
2851 3094 7.538575 AGGAAATTTCAACTGATAATCCAACG 58.461 34.615 19.49 0.00 0.00 4.10
2878 3121 4.335594 GGTCTTGTGCTACACTGAACTTTT 59.664 41.667 0.00 0.00 35.11 2.27
2881 3124 2.434336 TGGTCTTGTGCTACACTGAACT 59.566 45.455 0.00 0.00 35.11 3.01
2956 3203 5.067674 CGAATTGCAGGGAAAGGATTGATAA 59.932 40.000 0.00 0.00 0.00 1.75
2983 3238 4.046462 CGGTGAAAAGTACTCAAGAACGA 58.954 43.478 0.00 0.00 0.00 3.85
3163 3419 6.460781 TCAGTTTTACATCACGAGTGGTTAT 58.539 36.000 3.19 0.00 0.00 1.89


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

AutoCloner maintained by Alex Coulton.