Multiple sequence alignment - TraesCS5B01G074500

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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 TraesCS5B01G074500 chr5B 100.000 3259 0 0 1 3259 88357407 88360665 0.000000e+00 6019
1 TraesCS5B01G074500 chr5B 72.951 366 67 20 1640 1990 88745401 88745749 7.440000e-17 99
2 TraesCS5B01G074500 chr5A 95.556 2970 98 10 1 2957 74947198 74950146 0.000000e+00 4723
3 TraesCS5B01G074500 chr5D 95.046 2967 94 15 1 2957 78803259 78806182 0.000000e+00 4615
4 TraesCS5B01G074500 chr6A 92.842 964 65 3 360 1321 173604972 173605933 0.000000e+00 1395
5 TraesCS5B01G074500 chr4B 72.205 644 126 45 1640 2253 78604461 78603841 7.290000e-32 148
6 TraesCS5B01G074500 chr4D 72.093 645 125 43 1640 2253 53751910 53751290 3.390000e-30 143
7 TraesCS5B01G074500 chr4A 71.704 622 124 44 1640 2241 543375294 543375883 3.410000e-25 126


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 TraesCS5B01G074500 chr5B 88357407 88360665 3258 False 6019 6019 100.000 1 3259 1 chr5B.!!$F1 3258
1 TraesCS5B01G074500 chr5A 74947198 74950146 2948 False 4723 4723 95.556 1 2957 1 chr5A.!!$F1 2956
2 TraesCS5B01G074500 chr5D 78803259 78806182 2923 False 4615 4615 95.046 1 2957 1 chr5D.!!$F1 2956
3 TraesCS5B01G074500 chr6A 173604972 173605933 961 False 1395 1395 92.842 360 1321 1 chr6A.!!$F1 961

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
651 660 1.523938 GGAGACAGGCCGCATAACC 60.524 63.158 0.0 0.0 0.00 2.85 F
2055 2068 1.304509 GCTTGAAGAGGCAGTCCAGC 61.305 60.000 0.0 0.0 33.74 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2212 2227 0.655733 CATCCCGTTGTACGCAATCC 59.344 55.0 0.0 0.0 40.91 3.01 R
2980 3003 0.028110 GCGTCCCAATCGAAATGCTC 59.972 55.0 0.0 0.0 0.00 4.26 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
100 101 4.009675 TCAGTACATTTTGCTGGTCCATC 58.990 43.478 0.00 0.00 38.44 3.51
132 134 3.490439 TCTCTGGTTTGATGCTGTTGA 57.510 42.857 0.00 0.00 0.00 3.18
246 250 4.290985 TCAGGATACCAACCTCCAAAATCA 59.709 41.667 0.00 0.00 35.35 2.57
254 258 4.220382 CCAACCTCCAAAATCATGCAAGTA 59.780 41.667 0.00 0.00 0.00 2.24
312 319 5.221126 GGGTGTGAGAATTATTTGCAGATCC 60.221 44.000 0.00 0.00 0.00 3.36
353 360 5.843421 AGAGGTGTGCTTTCATATATCCTCT 59.157 40.000 7.63 7.63 42.64 3.69
450 459 7.921786 TGTTTATTCCATCTCTAACCAACAG 57.078 36.000 0.00 0.00 0.00 3.16
651 660 1.523938 GGAGACAGGCCGCATAACC 60.524 63.158 0.00 0.00 0.00 2.85
812 821 3.004734 CACCCATTGACTGTCCTTTGTTC 59.995 47.826 5.17 0.00 0.00 3.18
998 1007 4.290985 TCCCAAGTCCCAAATTCACATCTA 59.709 41.667 0.00 0.00 0.00 1.98
1112 1121 2.276740 CACCTTCCCCTCCCATGC 59.723 66.667 0.00 0.00 0.00 4.06
1172 1181 4.420206 TCCCATCCATCCTACTATGACAG 58.580 47.826 0.00 0.00 0.00 3.51
1180 1189 6.040955 TCCATCCTACTATGACAGTGATGTTC 59.959 42.308 0.00 0.00 36.56 3.18
1191 1200 3.433274 ACAGTGATGTTCATACAAGTGCG 59.567 43.478 0.00 0.00 37.91 5.34
1292 1301 1.376942 GCATCAGCTCCTGCACTGT 60.377 57.895 11.28 0.00 42.74 3.55
1380 1389 2.722094 TCCCATGATTTGTTCGGGAAG 58.278 47.619 0.00 0.00 43.02 3.46
1437 1446 4.223923 AGTGCTACTAACAAGAGGAAGCAT 59.776 41.667 0.00 0.00 39.93 3.79
1456 1465 3.440173 GCATTCGGTGGAAGAAGAAATCA 59.560 43.478 0.00 0.00 35.19 2.57
1523 1532 5.353394 TCACCGGCTATGTCTTTTAGAAT 57.647 39.130 0.00 0.00 0.00 2.40
1525 1534 5.105106 TCACCGGCTATGTCTTTTAGAATGA 60.105 40.000 0.00 0.00 0.00 2.57
1526 1535 5.760253 CACCGGCTATGTCTTTTAGAATGAT 59.240 40.000 0.00 0.00 0.00 2.45
1606 1615 2.598394 GCAAGGAAGGCTGCACCA 60.598 61.111 0.50 0.00 43.14 4.17
1796 1805 6.620303 GCCAATAATCATCTCTTTCGCATCTC 60.620 42.308 0.00 0.00 0.00 2.75
1865 1878 2.191128 GCTTGAGCAGAAAAGGAGGA 57.809 50.000 0.00 0.00 41.59 3.71
1998 2011 8.537728 AAGATCCAATGGCTAAATCAACAATA 57.462 30.769 0.00 0.00 0.00 1.90
2001 2014 9.199982 GATCCAATGGCTAAATCAACAATATTG 57.800 33.333 14.01 14.01 0.00 1.90
2055 2068 1.304509 GCTTGAAGAGGCAGTCCAGC 61.305 60.000 0.00 0.00 33.74 4.85
2075 2088 3.057033 AGCATGTCAAATTCCTGCAACTC 60.057 43.478 0.00 0.00 35.32 3.01
2165 2178 3.026630 TGCGACTGACGAATTTCTCTT 57.973 42.857 3.29 0.00 45.77 2.85
2212 2227 0.315059 GAAATGTGGATGTACGCGCG 60.315 55.000 30.96 30.96 0.00 6.86
2331 2353 3.179830 CGAGTTCTCCACTAACCATTCG 58.820 50.000 0.00 0.00 35.01 3.34
2364 2386 4.580995 TGTTACCATGTGTCGTTTTGGAAT 59.419 37.500 0.00 0.00 33.36 3.01
2551 2573 7.761249 AGCAAATATAGTTCTTTTGTTGGCATC 59.239 33.333 0.00 0.00 33.83 3.91
2609 2631 2.735823 CAAAGTTGCAGCCTTGAAGAC 58.264 47.619 6.04 0.00 0.00 3.01
2692 2714 6.500589 TTCATAATTTTTGGGGGACACAAA 57.499 33.333 0.00 0.00 36.15 2.83
2693 2715 6.694445 TCATAATTTTTGGGGGACACAAAT 57.306 33.333 0.00 0.00 40.26 2.32
2700 2722 1.584495 GGGGACACAAATGTTCGGC 59.416 57.895 0.00 0.00 39.95 5.54
2777 2800 6.903534 TCTCTACCCTTTCCACTATGAAGAAT 59.096 38.462 0.00 0.00 0.00 2.40
2778 2801 6.889198 TCTACCCTTTCCACTATGAAGAATG 58.111 40.000 0.00 0.00 0.00 2.67
2779 2802 5.779241 ACCCTTTCCACTATGAAGAATGA 57.221 39.130 0.00 0.00 0.00 2.57
2780 2803 5.749462 ACCCTTTCCACTATGAAGAATGAG 58.251 41.667 0.00 0.00 0.00 2.90
2781 2804 4.578105 CCCTTTCCACTATGAAGAATGAGC 59.422 45.833 0.00 0.00 0.00 4.26
2782 2805 5.435291 CCTTTCCACTATGAAGAATGAGCT 58.565 41.667 0.00 0.00 0.00 4.09
2783 2806 5.884792 CCTTTCCACTATGAAGAATGAGCTT 59.115 40.000 0.00 0.00 0.00 3.74
2784 2807 6.038050 CCTTTCCACTATGAAGAATGAGCTTC 59.962 42.308 0.00 0.00 43.53 3.86
2856 2879 7.837202 ATTTGCATTGACATTTCCAACATAG 57.163 32.000 0.00 0.00 0.00 2.23
2925 2948 9.890629 GTATTATTAAGAGGGATGTGATATGCA 57.109 33.333 0.00 0.00 0.00 3.96
2927 2950 6.692849 ATTAAGAGGGATGTGATATGCAGA 57.307 37.500 0.00 0.00 0.00 4.26
2951 2974 4.398358 ACAAATCATGCACTCTCCATTCTG 59.602 41.667 0.00 0.00 0.00 3.02
2957 2980 3.603532 TGCACTCTCCATTCTGACATTC 58.396 45.455 0.00 0.00 0.00 2.67
2958 2981 3.008266 TGCACTCTCCATTCTGACATTCA 59.992 43.478 0.00 0.00 0.00 2.57
2959 2982 3.622163 GCACTCTCCATTCTGACATTCAG 59.378 47.826 0.00 0.00 45.59 3.02
2960 2983 4.190001 CACTCTCCATTCTGACATTCAGG 58.810 47.826 3.40 0.00 44.39 3.86
2961 2984 3.204526 CTCTCCATTCTGACATTCAGGC 58.795 50.000 3.40 0.00 44.39 4.85
2962 2985 2.092753 TCTCCATTCTGACATTCAGGCC 60.093 50.000 0.00 0.00 44.39 5.19
2963 2986 1.019673 CCATTCTGACATTCAGGCCG 58.980 55.000 0.00 0.00 44.39 6.13
2964 2987 1.019673 CATTCTGACATTCAGGCCGG 58.980 55.000 0.00 0.00 44.39 6.13
2965 2988 0.749454 ATTCTGACATTCAGGCCGGC 60.749 55.000 21.18 21.18 44.39 6.13
2966 2989 2.046023 CTGACATTCAGGCCGGCA 60.046 61.111 30.85 7.96 40.71 5.69
2967 2990 2.359850 TGACATTCAGGCCGGCAC 60.360 61.111 30.85 17.99 0.00 5.01
2968 2991 2.359850 GACATTCAGGCCGGCACA 60.360 61.111 30.85 8.13 0.00 4.57
2969 2992 2.672996 ACATTCAGGCCGGCACAC 60.673 61.111 30.85 11.48 0.00 3.82
2970 2993 2.672651 CATTCAGGCCGGCACACA 60.673 61.111 30.85 9.69 0.00 3.72
2971 2994 2.672996 ATTCAGGCCGGCACACAC 60.673 61.111 30.85 10.59 0.00 3.82
2972 2995 3.490031 ATTCAGGCCGGCACACACA 62.490 57.895 30.85 6.76 0.00 3.72
2973 2996 2.974692 ATTCAGGCCGGCACACACAA 62.975 55.000 30.85 11.72 0.00 3.33
2974 2997 3.663176 CAGGCCGGCACACACAAG 61.663 66.667 30.85 3.97 0.00 3.16
2975 2998 4.954970 AGGCCGGCACACACAAGG 62.955 66.667 30.85 0.00 0.00 3.61
2976 2999 4.947147 GGCCGGCACACACAAGGA 62.947 66.667 30.85 0.00 0.00 3.36
2977 3000 2.672996 GCCGGCACACACAAGGAT 60.673 61.111 24.80 0.00 0.00 3.24
2978 3001 2.981560 GCCGGCACACACAAGGATG 61.982 63.158 24.80 0.00 0.00 3.51
2979 3002 2.562912 CGGCACACACAAGGATGC 59.437 61.111 0.00 0.00 37.35 3.91
2980 3003 2.562912 GGCACACACAAGGATGCG 59.437 61.111 0.00 0.00 39.02 4.73
2981 3004 1.965930 GGCACACACAAGGATGCGA 60.966 57.895 0.00 0.00 39.02 5.10
2982 3005 1.499056 GCACACACAAGGATGCGAG 59.501 57.895 0.00 0.00 0.00 5.03
2983 3006 1.499056 CACACACAAGGATGCGAGC 59.501 57.895 0.00 0.00 0.00 5.03
2984 3007 1.071299 ACACACAAGGATGCGAGCA 59.929 52.632 0.00 0.00 0.00 4.26
2985 3008 0.321919 ACACACAAGGATGCGAGCAT 60.322 50.000 10.66 10.66 39.69 3.79
2986 3009 0.806868 CACACAAGGATGCGAGCATT 59.193 50.000 12.16 0.00 36.70 3.56
2987 3010 1.200716 CACACAAGGATGCGAGCATTT 59.799 47.619 12.16 0.68 36.70 2.32
2988 3011 1.470098 ACACAAGGATGCGAGCATTTC 59.530 47.619 12.16 7.92 36.70 2.17
2999 3022 0.028110 GAGCATTTCGATTGGGACGC 59.972 55.000 0.00 0.00 0.00 5.19
3000 3023 0.392998 AGCATTTCGATTGGGACGCT 60.393 50.000 0.00 0.00 0.00 5.07
3001 3024 0.028110 GCATTTCGATTGGGACGCTC 59.972 55.000 0.00 0.00 0.00 5.03
3002 3025 0.657840 CATTTCGATTGGGACGCTCC 59.342 55.000 0.00 0.00 35.23 4.70
3003 3026 0.810031 ATTTCGATTGGGACGCTCCG 60.810 55.000 0.00 0.00 37.43 4.63
3004 3027 2.845752 TTTCGATTGGGACGCTCCGG 62.846 60.000 0.00 0.00 37.43 5.14
3005 3028 4.143333 CGATTGGGACGCTCCGGT 62.143 66.667 0.00 0.00 37.43 5.28
3006 3029 2.267961 GATTGGGACGCTCCGGTT 59.732 61.111 0.00 0.00 37.43 4.44
3007 3030 1.376812 GATTGGGACGCTCCGGTTT 60.377 57.895 0.00 0.00 37.43 3.27
3008 3031 0.958876 GATTGGGACGCTCCGGTTTT 60.959 55.000 0.00 0.00 37.43 2.43
3009 3032 0.958876 ATTGGGACGCTCCGGTTTTC 60.959 55.000 0.00 0.00 37.43 2.29
3010 3033 2.745100 GGGACGCTCCGGTTTTCC 60.745 66.667 0.00 3.37 37.43 3.13
3011 3034 2.346365 GGACGCTCCGGTTTTCCT 59.654 61.111 0.00 0.00 37.95 3.36
3012 3035 2.033194 GGACGCTCCGGTTTTCCTG 61.033 63.158 0.00 0.00 37.95 3.86
3013 3036 2.032071 ACGCTCCGGTTTTCCTGG 59.968 61.111 0.00 0.00 37.95 4.45
3014 3037 3.431725 CGCTCCGGTTTTCCTGGC 61.432 66.667 0.00 0.00 37.95 4.85
3015 3038 2.034221 GCTCCGGTTTTCCTGGCT 59.966 61.111 0.00 0.00 37.95 4.75
3016 3039 1.603739 GCTCCGGTTTTCCTGGCTT 60.604 57.895 0.00 0.00 37.95 4.35
3017 3040 1.866853 GCTCCGGTTTTCCTGGCTTG 61.867 60.000 0.00 0.00 37.95 4.01
3018 3041 1.866853 CTCCGGTTTTCCTGGCTTGC 61.867 60.000 0.00 0.00 37.95 4.01
3019 3042 1.903404 CCGGTTTTCCTGGCTTGCT 60.903 57.895 0.00 0.00 37.95 3.91
3020 3043 1.286880 CGGTTTTCCTGGCTTGCTG 59.713 57.895 0.00 0.00 37.95 4.41
3021 3044 1.667722 GGTTTTCCTGGCTTGCTGG 59.332 57.895 0.00 0.00 36.94 4.85
3022 3045 1.667722 GTTTTCCTGGCTTGCTGGG 59.332 57.895 0.00 0.00 0.00 4.45
3023 3046 2.209315 TTTTCCTGGCTTGCTGGGC 61.209 57.895 0.00 0.00 0.00 5.36
3024 3047 2.943369 TTTTCCTGGCTTGCTGGGCA 62.943 55.000 5.75 5.75 39.84 5.36
3025 3048 2.735151 TTTCCTGGCTTGCTGGGCAT 62.735 55.000 6.26 0.00 38.76 4.40
3026 3049 3.458163 CCTGGCTTGCTGGGCATG 61.458 66.667 6.26 0.00 38.76 4.06
3027 3050 3.458163 CTGGCTTGCTGGGCATGG 61.458 66.667 6.26 0.00 38.76 3.66
3028 3051 4.304413 TGGCTTGCTGGGCATGGT 62.304 61.111 0.00 0.00 38.76 3.55
3029 3052 2.999063 GGCTTGCTGGGCATGGTT 60.999 61.111 0.00 0.00 38.76 3.67
3030 3053 2.263540 GCTTGCTGGGCATGGTTG 59.736 61.111 0.00 0.00 38.76 3.77
3031 3054 2.277591 GCTTGCTGGGCATGGTTGA 61.278 57.895 0.00 0.00 38.76 3.18
3032 3055 1.588082 CTTGCTGGGCATGGTTGAC 59.412 57.895 0.00 0.00 38.76 3.18
3045 3068 3.417069 TGGTTGACCAGTCCACTATTG 57.583 47.619 0.00 0.00 42.01 1.90
3046 3069 2.976185 TGGTTGACCAGTCCACTATTGA 59.024 45.455 0.00 0.00 42.01 2.57
3047 3070 3.244422 TGGTTGACCAGTCCACTATTGAC 60.244 47.826 0.00 0.00 42.01 3.18
3048 3071 3.008049 GGTTGACCAGTCCACTATTGACT 59.992 47.826 2.47 0.00 43.70 3.41
3049 3072 4.505039 GGTTGACCAGTCCACTATTGACTT 60.505 45.833 2.47 0.00 41.02 3.01
3050 3073 4.974645 TGACCAGTCCACTATTGACTTT 57.025 40.909 0.00 0.00 41.02 2.66
3051 3074 5.304686 TGACCAGTCCACTATTGACTTTT 57.695 39.130 0.00 0.00 41.02 2.27
3052 3075 5.305585 TGACCAGTCCACTATTGACTTTTC 58.694 41.667 0.00 0.00 41.02 2.29
3053 3076 5.163248 TGACCAGTCCACTATTGACTTTTCA 60.163 40.000 0.00 0.00 41.02 2.69
3054 3077 5.690865 ACCAGTCCACTATTGACTTTTCAA 58.309 37.500 0.00 0.00 45.93 2.69
3055 3078 5.765182 ACCAGTCCACTATTGACTTTTCAAG 59.235 40.000 0.00 0.00 45.07 3.02
3056 3079 5.765182 CCAGTCCACTATTGACTTTTCAAGT 59.235 40.000 0.00 0.00 45.07 3.16
3057 3080 6.263168 CCAGTCCACTATTGACTTTTCAAGTT 59.737 38.462 0.00 0.00 45.07 2.66
3058 3081 7.201821 CCAGTCCACTATTGACTTTTCAAGTTT 60.202 37.037 0.00 0.00 45.07 2.66
3059 3082 8.190784 CAGTCCACTATTGACTTTTCAAGTTTT 58.809 33.333 0.00 0.00 45.07 2.43
3060 3083 8.749354 AGTCCACTATTGACTTTTCAAGTTTTT 58.251 29.630 0.00 0.00 45.07 1.94
3257 3280 8.707938 AAAAAGTTCACAGGATTCAGAAAAAG 57.292 30.769 0.00 0.00 0.00 2.27
3258 3281 7.410120 AAAGTTCACAGGATTCAGAAAAAGT 57.590 32.000 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 101 4.216902 TCAAACCAGAGAAATGCAGTGATG 59.783 41.667 0.00 0.00 0.00 3.07
246 250 6.040247 CAGCATTGATGTTCAATACTTGCAT 58.960 36.000 13.12 0.00 44.60 3.96
312 319 5.541868 ACACCTCTATGGATATCAAGGTCTG 59.458 44.000 4.83 1.98 34.97 3.51
450 459 7.594758 TCTTTCTTGCAAAAATATGTGTACTGC 59.405 33.333 0.00 0.00 0.00 4.40
651 660 4.307432 ACAGTGACTTGTCCAAGATTACG 58.693 43.478 13.69 8.00 40.79 3.18
812 821 8.242053 AGAATAAAGAAAATGTGAGCATGAGTG 58.758 33.333 0.00 0.00 35.15 3.51
1112 1121 4.479993 CCTGCTGGGCTTCCTCGG 62.480 72.222 0.71 0.00 0.00 4.63
1172 1181 3.186409 ACACGCACTTGTATGAACATCAC 59.814 43.478 0.00 0.00 34.97 3.06
1180 1189 3.313690 TGTCACTACACGCACTTGTATG 58.686 45.455 0.00 0.00 31.51 2.39
1191 1200 3.338249 ACCATCATTGCTGTCACTACAC 58.662 45.455 0.00 0.00 0.00 2.90
1292 1301 2.775384 ACCAAGTTCAAGTCCTGTGGTA 59.225 45.455 0.00 0.00 36.15 3.25
1303 1312 0.843309 TGCTCCTGGACCAAGTTCAA 59.157 50.000 0.00 0.00 0.00 2.69
1380 1389 4.742201 TCGCAGCTTGACTCGCCC 62.742 66.667 0.00 0.00 0.00 6.13
1437 1446 4.458989 CCATTGATTTCTTCTTCCACCGAA 59.541 41.667 0.00 0.00 0.00 4.30
1456 1465 1.279271 ACTTACTCTCGCTTGGCCATT 59.721 47.619 6.09 0.00 0.00 3.16
1523 1532 7.442062 CCACACTAACAGCATGAACATATATCA 59.558 37.037 0.00 0.00 39.69 2.15
1525 1534 7.508687 TCCACACTAACAGCATGAACATATAT 58.491 34.615 0.00 0.00 39.69 0.86
1526 1535 6.883744 TCCACACTAACAGCATGAACATATA 58.116 36.000 0.00 0.00 39.69 0.86
1606 1615 1.082756 CGCGTTCTTTGCTCGCTTT 60.083 52.632 0.00 0.00 46.31 3.51
1624 1633 1.154395 GCTCGCTTCGGTTTGCTTC 60.154 57.895 0.00 0.00 0.00 3.86
1796 1805 8.653338 CATTCAGTTGCAAAAGATAATTCCTTG 58.347 33.333 0.00 0.00 0.00 3.61
1865 1878 2.303022 TCAGCCTCTCGTTGATCCTTTT 59.697 45.455 0.00 0.00 0.00 2.27
1998 2011 7.112122 TCTACCTGCAAGATCAATACAACAAT 58.888 34.615 0.00 0.00 34.07 2.71
2001 2014 8.715998 CATATCTACCTGCAAGATCAATACAAC 58.284 37.037 2.64 0.00 35.36 3.32
2055 2068 3.256383 TGGAGTTGCAGGAATTTGACATG 59.744 43.478 0.00 0.00 0.00 3.21
2075 2088 2.082231 CAACTGCTCACCTTGATCTGG 58.918 52.381 0.00 0.00 0.00 3.86
2165 2178 3.149196 GCTGAGGACCTGAAAATTGACA 58.851 45.455 0.00 0.00 0.00 3.58
2212 2227 0.655733 CATCCCGTTGTACGCAATCC 59.344 55.000 0.00 0.00 40.91 3.01
2551 2573 9.327628 AGACTAGATCATTGAACAAATCATCAG 57.672 33.333 0.00 0.00 38.03 2.90
2606 2628 1.807814 AGTGTCAGGGTTTGAGGTCT 58.192 50.000 0.00 0.00 36.21 3.85
2609 2631 4.714632 TCTTAAAGTGTCAGGGTTTGAGG 58.285 43.478 0.00 0.00 36.21 3.86
2692 2714 2.037251 AGTATATCGCAAGGCCGAACAT 59.963 45.455 0.00 0.00 41.01 2.71
2693 2715 1.411246 AGTATATCGCAAGGCCGAACA 59.589 47.619 0.00 0.00 41.01 3.18
2700 2722 6.915300 GTGATAGCTCATAGTATATCGCAAGG 59.085 42.308 0.00 0.00 35.94 3.61
2777 2800 7.975616 GCATGGTTATTTTCTTTATGAAGCTCA 59.024 33.333 0.00 0.00 35.89 4.26
2778 2801 7.975616 TGCATGGTTATTTTCTTTATGAAGCTC 59.024 33.333 0.00 0.00 35.89 4.09
2779 2802 7.839907 TGCATGGTTATTTTCTTTATGAAGCT 58.160 30.769 0.00 0.00 35.89 3.74
2780 2803 8.545420 CATGCATGGTTATTTTCTTTATGAAGC 58.455 33.333 19.40 0.00 35.89 3.86
2781 2804 9.590451 ACATGCATGGTTATTTTCTTTATGAAG 57.410 29.630 29.41 0.00 35.89 3.02
2784 2807 8.971321 GCTACATGCATGGTTATTTTCTTTATG 58.029 33.333 29.41 0.89 42.31 1.90
2785 2808 8.917088 AGCTACATGCATGGTTATTTTCTTTAT 58.083 29.630 29.41 6.76 45.94 1.40
2786 2809 8.190122 CAGCTACATGCATGGTTATTTTCTTTA 58.810 33.333 29.41 8.15 45.94 1.85
2787 2810 7.037438 CAGCTACATGCATGGTTATTTTCTTT 58.963 34.615 29.41 7.40 45.94 2.52
2788 2811 6.377996 TCAGCTACATGCATGGTTATTTTCTT 59.622 34.615 29.41 7.91 45.94 2.52
2789 2812 5.887598 TCAGCTACATGCATGGTTATTTTCT 59.112 36.000 29.41 8.64 45.94 2.52
2790 2813 5.973565 GTCAGCTACATGCATGGTTATTTTC 59.026 40.000 29.41 10.45 45.94 2.29
2791 2814 5.163519 GGTCAGCTACATGCATGGTTATTTT 60.164 40.000 29.41 10.09 45.94 1.82
2792 2815 4.339247 GGTCAGCTACATGCATGGTTATTT 59.661 41.667 29.41 10.82 45.94 1.40
2925 2948 4.025040 TGGAGAGTGCATGATTTGTTCT 57.975 40.909 0.00 0.00 0.00 3.01
2927 2950 5.014858 AGAATGGAGAGTGCATGATTTGTT 58.985 37.500 0.00 0.00 0.00 2.83
2951 2974 2.359850 TGTGCCGGCCTGAATGTC 60.360 61.111 26.77 4.61 0.00 3.06
2957 2980 3.663176 CTTGTGTGTGCCGGCCTG 61.663 66.667 26.77 0.00 0.00 4.85
2958 2981 4.954970 CCTTGTGTGTGCCGGCCT 62.955 66.667 26.77 0.00 0.00 5.19
2959 2982 4.947147 TCCTTGTGTGTGCCGGCC 62.947 66.667 26.77 16.24 0.00 6.13
2960 2983 2.672996 ATCCTTGTGTGTGCCGGC 60.673 61.111 22.73 22.73 0.00 6.13
2961 2984 2.981560 GCATCCTTGTGTGTGCCGG 61.982 63.158 0.00 0.00 0.00 6.13
2962 2985 2.562912 GCATCCTTGTGTGTGCCG 59.437 61.111 0.00 0.00 0.00 5.69
2963 2986 1.915614 CTCGCATCCTTGTGTGTGCC 61.916 60.000 0.00 0.00 34.86 5.01
2964 2987 1.499056 CTCGCATCCTTGTGTGTGC 59.501 57.895 0.00 0.00 34.86 4.57
2965 2988 1.229975 TGCTCGCATCCTTGTGTGTG 61.230 55.000 0.00 0.00 34.86 3.82
2966 2989 0.321919 ATGCTCGCATCCTTGTGTGT 60.322 50.000 0.00 0.00 34.86 3.72
2967 2990 0.806868 AATGCTCGCATCCTTGTGTG 59.193 50.000 4.68 0.00 35.31 3.82
2968 2991 1.470098 GAAATGCTCGCATCCTTGTGT 59.530 47.619 4.68 0.00 35.31 3.72
2969 2992 1.530441 CGAAATGCTCGCATCCTTGTG 60.530 52.381 4.68 0.00 41.49 3.33
2970 2993 0.729116 CGAAATGCTCGCATCCTTGT 59.271 50.000 4.68 0.00 41.49 3.16
2971 2994 3.521534 CGAAATGCTCGCATCCTTG 57.478 52.632 4.68 0.00 41.49 3.61
2980 3003 0.028110 GCGTCCCAATCGAAATGCTC 59.972 55.000 0.00 0.00 0.00 4.26
2981 3004 0.392998 AGCGTCCCAATCGAAATGCT 60.393 50.000 0.00 0.00 0.00 3.79
2982 3005 0.028110 GAGCGTCCCAATCGAAATGC 59.972 55.000 0.00 0.00 0.00 3.56
2983 3006 0.657840 GGAGCGTCCCAATCGAAATG 59.342 55.000 0.00 0.00 0.00 2.32
2984 3007 0.810031 CGGAGCGTCCCAATCGAAAT 60.810 55.000 0.00 0.00 31.13 2.17
2985 3008 1.447140 CGGAGCGTCCCAATCGAAA 60.447 57.895 0.00 0.00 31.13 3.46
2986 3009 2.183300 CGGAGCGTCCCAATCGAA 59.817 61.111 0.00 0.00 31.13 3.71
2987 3010 3.833645 CCGGAGCGTCCCAATCGA 61.834 66.667 0.00 0.00 31.13 3.59
2988 3011 3.659089 AACCGGAGCGTCCCAATCG 62.659 63.158 9.46 0.00 31.13 3.34
2989 3012 0.958876 AAAACCGGAGCGTCCCAATC 60.959 55.000 9.46 0.00 31.13 2.67
2990 3013 0.958876 GAAAACCGGAGCGTCCCAAT 60.959 55.000 9.46 0.00 31.13 3.16
2991 3014 1.598685 GAAAACCGGAGCGTCCCAA 60.599 57.895 9.46 0.00 31.13 4.12
2992 3015 2.031465 GAAAACCGGAGCGTCCCA 59.969 61.111 9.46 0.00 31.13 4.37
2993 3016 2.745100 GGAAAACCGGAGCGTCCC 60.745 66.667 9.46 0.00 31.13 4.46
2994 3017 2.033194 CAGGAAAACCGGAGCGTCC 61.033 63.158 9.46 9.37 0.00 4.79
2995 3018 2.033194 CCAGGAAAACCGGAGCGTC 61.033 63.158 9.46 0.00 0.00 5.19
2996 3019 2.032071 CCAGGAAAACCGGAGCGT 59.968 61.111 9.46 0.00 0.00 5.07
2997 3020 3.431725 GCCAGGAAAACCGGAGCG 61.432 66.667 9.46 0.00 0.00 5.03
2998 3021 1.603739 AAGCCAGGAAAACCGGAGC 60.604 57.895 9.46 0.00 0.00 4.70
2999 3022 1.866853 GCAAGCCAGGAAAACCGGAG 61.867 60.000 9.46 0.00 0.00 4.63
3000 3023 1.901464 GCAAGCCAGGAAAACCGGA 60.901 57.895 9.46 0.00 0.00 5.14
3001 3024 1.903404 AGCAAGCCAGGAAAACCGG 60.903 57.895 0.00 0.00 0.00 5.28
3002 3025 1.286880 CAGCAAGCCAGGAAAACCG 59.713 57.895 0.00 0.00 0.00 4.44
3003 3026 1.667722 CCAGCAAGCCAGGAAAACC 59.332 57.895 0.00 0.00 0.00 3.27
3004 3027 1.667722 CCCAGCAAGCCAGGAAAAC 59.332 57.895 0.00 0.00 0.00 2.43
3005 3028 2.209315 GCCCAGCAAGCCAGGAAAA 61.209 57.895 0.00 0.00 0.00 2.29
3006 3029 2.601367 GCCCAGCAAGCCAGGAAA 60.601 61.111 0.00 0.00 0.00 3.13
3007 3030 3.228243 ATGCCCAGCAAGCCAGGAA 62.228 57.895 0.00 0.00 43.62 3.36
3008 3031 3.664888 ATGCCCAGCAAGCCAGGA 61.665 61.111 0.00 0.00 43.62 3.86
3009 3032 3.458163 CATGCCCAGCAAGCCAGG 61.458 66.667 0.00 0.00 43.62 4.45
3010 3033 3.458163 CCATGCCCAGCAAGCCAG 61.458 66.667 0.00 0.00 43.62 4.85
3011 3034 3.831727 AACCATGCCCAGCAAGCCA 62.832 57.895 0.00 0.00 43.62 4.75
3012 3035 2.999063 AACCATGCCCAGCAAGCC 60.999 61.111 0.00 0.00 43.62 4.35
3013 3036 2.263540 CAACCATGCCCAGCAAGC 59.736 61.111 0.00 0.00 43.62 4.01
3014 3037 1.588082 GTCAACCATGCCCAGCAAG 59.412 57.895 0.00 0.00 43.62 4.01
3015 3038 1.907807 GGTCAACCATGCCCAGCAA 60.908 57.895 0.00 0.00 43.62 3.91
3016 3039 2.283101 GGTCAACCATGCCCAGCA 60.283 61.111 0.00 0.00 44.86 4.41
3017 3040 2.283101 TGGTCAACCATGCCCAGC 60.283 61.111 0.00 0.00 42.01 4.85
3018 3041 4.007457 CTGGTCAACCATGCCCAG 57.993 61.111 1.58 0.00 45.44 4.45
3019 3042 1.074775 GACTGGTCAACCATGCCCA 59.925 57.895 1.58 0.00 46.46 5.36
3020 3043 1.678970 GGACTGGTCAACCATGCCC 60.679 63.158 1.58 1.09 46.46 5.36
3021 3044 1.074775 TGGACTGGTCAACCATGCC 59.925 57.895 1.58 7.77 46.46 4.40
3022 3045 0.250901 AGTGGACTGGTCAACCATGC 60.251 55.000 1.58 0.00 46.46 4.06
3023 3046 3.634397 ATAGTGGACTGGTCAACCATG 57.366 47.619 1.58 0.18 46.46 3.66
3024 3047 3.587061 TCAATAGTGGACTGGTCAACCAT 59.413 43.478 1.58 0.00 46.46 3.55
3025 3048 2.976185 TCAATAGTGGACTGGTCAACCA 59.024 45.455 1.20 1.20 45.30 3.67
3026 3049 3.008049 AGTCAATAGTGGACTGGTCAACC 59.992 47.826 4.79 0.00 43.65 3.77
3027 3050 4.273148 AGTCAATAGTGGACTGGTCAAC 57.727 45.455 0.27 0.27 43.65 3.18
3028 3051 4.974645 AAGTCAATAGTGGACTGGTCAA 57.025 40.909 3.10 0.00 44.50 3.18
3029 3052 4.974645 AAAGTCAATAGTGGACTGGTCA 57.025 40.909 3.10 0.00 44.50 4.02
3030 3053 5.305585 TGAAAAGTCAATAGTGGACTGGTC 58.694 41.667 0.00 0.00 44.50 4.02
3031 3054 5.304686 TGAAAAGTCAATAGTGGACTGGT 57.695 39.130 0.00 0.00 44.50 4.00
3032 3055 6.246420 CTTGAAAAGTCAATAGTGGACTGG 57.754 41.667 0.00 0.00 44.50 4.00
3232 3255 8.314021 ACTTTTTCTGAATCCTGTGAACTTTTT 58.686 29.630 0.00 0.00 0.00 1.94
3233 3256 7.840931 ACTTTTTCTGAATCCTGTGAACTTTT 58.159 30.769 0.00 0.00 0.00 2.27
3234 3257 7.410120 ACTTTTTCTGAATCCTGTGAACTTT 57.590 32.000 0.00 0.00 0.00 2.66


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

AutoCloner maintained by Alex Coulton.