Multiple sequence alignment - TraesCS4D01G142000

Loading Multiple Alignment...

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 TraesCS4D01G142000 chr4D 100.000 2898 0 0 1 2898 127154250 127157147 0.000000e+00 5352
1 TraesCS4D01G142000 chr4D 93.864 603 34 3 1 602 322666518 322665918 0.000000e+00 905
2 TraesCS4D01G142000 chr4B 98.318 1011 17 0 1125 2135 191220425 191221435 0.000000e+00 1773
3 TraesCS4D01G142000 chr4B 96.953 722 20 2 1 720 135779241 135779962 0.000000e+00 1210
4 TraesCS4D01G142000 chr4B 97.983 595 5 3 2304 2898 191221595 191222182 0.000000e+00 1026
5 TraesCS4D01G142000 chr4B 94.488 127 5 1 899 1023 191219954 191220080 8.190000e-46 195
6 TraesCS4D01G142000 chr4B 93.069 101 7 0 722 822 135780008 135780108 6.470000e-32 148
7 TraesCS4D01G142000 chr4B 94.186 86 2 1 821 903 191214602 191214687 8.430000e-26 128
8 TraesCS4D01G142000 chr4B 87.387 111 5 1 2198 2308 191221434 191221535 5.070000e-23 119
9 TraesCS4D01G142000 chr4A 94.326 1128 46 7 817 1932 441778321 441777200 0.000000e+00 1712
10 TraesCS4D01G142000 chr4A 95.382 628 23 2 2277 2898 441764891 441764264 0.000000e+00 994
11 TraesCS4D01G142000 chr4A 75.369 812 159 27 1095 1895 441944792 441944011 1.280000e-93 353
12 TraesCS4D01G142000 chr4A 96.571 175 6 0 1930 2104 441765086 441764912 1.020000e-74 291
13 TraesCS4D01G142000 chrUn 87.269 1296 103 31 822 2077 26996835 26998108 0.000000e+00 1423
14 TraesCS4D01G142000 chrUn 88.617 1186 99 20 822 1984 26921705 26920533 0.000000e+00 1410
15 TraesCS4D01G142000 chr6A 86.646 1318 126 31 822 2101 47104869 47106174 0.000000e+00 1413
16 TraesCS4D01G142000 chr6A 98.613 721 9 1 1 720 480579998 480579278 0.000000e+00 1275
17 TraesCS4D01G142000 chr6A 93.396 106 7 0 722 827 480579232 480579127 1.080000e-34 158
18 TraesCS4D01G142000 chr6B 87.338 1232 96 31 822 2019 82326340 82327545 0.000000e+00 1356
19 TraesCS4D01G142000 chr6B 90.284 844 64 12 1192 2019 82527192 82528033 0.000000e+00 1088
20 TraesCS4D01G142000 chr6B 86.408 618 56 14 918 1510 82399139 82399753 0.000000e+00 651
21 TraesCS4D01G142000 chr6B 89.266 354 35 2 1545 1895 82399768 82400121 9.530000e-120 440
22 TraesCS4D01G142000 chr6B 81.250 400 38 15 822 1194 82526623 82527012 3.650000e-74 289
23 TraesCS4D01G142000 chr3D 97.917 720 14 1 3 721 307828024 307828743 0.000000e+00 1245
24 TraesCS4D01G142000 chr3D 93.137 102 7 0 722 823 307828816 307828917 1.800000e-32 150
25 TraesCS4D01G142000 chr5B 97.083 720 17 3 4 722 315911971 315912687 0.000000e+00 1210
26 TraesCS4D01G142000 chr5B 75.772 842 159 27 1095 1920 504775454 504776266 1.630000e-102 383
27 TraesCS4D01G142000 chr5B 93.137 102 7 0 722 823 315912731 315912832 1.800000e-32 150
28 TraesCS4D01G142000 chr2B 93.108 827 44 6 1 825 588890675 588891490 0.000000e+00 1199
29 TraesCS4D01G142000 chr2B 96.469 623 21 1 101 722 384334993 384335615 0.000000e+00 1027
30 TraesCS4D01G142000 chr3B 96.374 717 22 4 4 719 395042952 395042239 0.000000e+00 1177
31 TraesCS4D01G142000 chr3B 88.201 339 19 9 507 825 394966177 394965840 4.530000e-103 385
32 TraesCS4D01G142000 chr3B 93.269 104 7 0 722 825 395042205 395042102 1.390000e-33 154
33 TraesCS4D01G142000 chr1D 91.460 726 49 11 1 717 463083543 463084264 0.000000e+00 985
34 TraesCS4D01G142000 chr1B 91.808 354 20 4 479 823 447184375 447184022 4.340000e-133 484
35 TraesCS4D01G142000 chr1B 90.385 104 10 0 722 825 667310868 667310971 1.400000e-28 137
36 TraesCS4D01G142000 chr5A 76.923 845 143 31 1096 1920 531019325 531020137 1.600000e-117 433
37 TraesCS4D01G142000 chr5D 92.157 102 8 0 722 823 26276205 26276306 8.370000e-31 145
38 TraesCS4D01G142000 chr2D 92.233 103 7 1 722 823 79334453 79334351 8.370000e-31 145
39 TraesCS4D01G142000 chr2A 96.250 80 2 1 640 718 501841610 501841689 2.340000e-26 130


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 TraesCS4D01G142000 chr4D 127154250 127157147 2897 False 5352.00 5352 100.0000 1 2898 1 chr4D.!!$F1 2897
1 TraesCS4D01G142000 chr4D 322665918 322666518 600 True 905.00 905 93.8640 1 602 1 chr4D.!!$R1 601
2 TraesCS4D01G142000 chr4B 191219954 191222182 2228 False 778.25 1773 94.5440 899 2898 4 chr4B.!!$F3 1999
3 TraesCS4D01G142000 chr4B 135779241 135780108 867 False 679.00 1210 95.0110 1 822 2 chr4B.!!$F2 821
4 TraesCS4D01G142000 chr4A 441777200 441778321 1121 True 1712.00 1712 94.3260 817 1932 1 chr4A.!!$R1 1115
5 TraesCS4D01G142000 chr4A 441764264 441765086 822 True 642.50 994 95.9765 1930 2898 2 chr4A.!!$R3 968
6 TraesCS4D01G142000 chr4A 441944011 441944792 781 True 353.00 353 75.3690 1095 1895 1 chr4A.!!$R2 800
7 TraesCS4D01G142000 chrUn 26996835 26998108 1273 False 1423.00 1423 87.2690 822 2077 1 chrUn.!!$F1 1255
8 TraesCS4D01G142000 chrUn 26920533 26921705 1172 True 1410.00 1410 88.6170 822 1984 1 chrUn.!!$R1 1162
9 TraesCS4D01G142000 chr6A 47104869 47106174 1305 False 1413.00 1413 86.6460 822 2101 1 chr6A.!!$F1 1279
10 TraesCS4D01G142000 chr6A 480579127 480579998 871 True 716.50 1275 96.0045 1 827 2 chr6A.!!$R1 826
11 TraesCS4D01G142000 chr6B 82326340 82327545 1205 False 1356.00 1356 87.3380 822 2019 1 chr6B.!!$F1 1197
12 TraesCS4D01G142000 chr6B 82526623 82528033 1410 False 688.50 1088 85.7670 822 2019 2 chr6B.!!$F3 1197
13 TraesCS4D01G142000 chr6B 82399139 82400121 982 False 545.50 651 87.8370 918 1895 2 chr6B.!!$F2 977
14 TraesCS4D01G142000 chr3D 307828024 307828917 893 False 697.50 1245 95.5270 3 823 2 chr3D.!!$F1 820
15 TraesCS4D01G142000 chr5B 315911971 315912832 861 False 680.00 1210 95.1100 4 823 2 chr5B.!!$F2 819
16 TraesCS4D01G142000 chr5B 504775454 504776266 812 False 383.00 383 75.7720 1095 1920 1 chr5B.!!$F1 825
17 TraesCS4D01G142000 chr2B 588890675 588891490 815 False 1199.00 1199 93.1080 1 825 1 chr2B.!!$F2 824
18 TraesCS4D01G142000 chr2B 384334993 384335615 622 False 1027.00 1027 96.4690 101 722 1 chr2B.!!$F1 621
19 TraesCS4D01G142000 chr3B 395042102 395042952 850 True 665.50 1177 94.8215 4 825 2 chr3B.!!$R2 821
20 TraesCS4D01G142000 chr1D 463083543 463084264 721 False 985.00 985 91.4600 1 717 1 chr1D.!!$F1 716
21 TraesCS4D01G142000 chr5A 531019325 531020137 812 False 433.00 433 76.9230 1096 1920 1 chr5A.!!$F1 824

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
845 926 1.219393 GGGTGCTCCAGTCAGCTAC 59.781 63.158 7.2 0.0 40.39 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2186 2786 0.326264 ACTTAGAGCTGCAGTTGGGG 59.674 55.0 16.64 4.54 0.0 4.96 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
285 287 5.184479 ACCTTGGAGAACATCATGAAATGTG 59.816 40.000 0.00 0.00 46.80 3.21
437 439 3.877559 TCGTCAGATTGAGGATGCAAAT 58.122 40.909 0.00 0.00 36.49 2.32
690 699 2.073101 GGTTGGGGTTGGGGCAAAA 61.073 57.895 0.00 0.00 0.00 2.44
737 818 1.480789 AACGCCCCTGTTTTTCAACT 58.519 45.000 0.00 0.00 33.58 3.16
749 830 7.817478 CCCTGTTTTTCAACTCTTAAAAGTGTT 59.183 33.333 4.72 4.72 41.77 3.32
766 847 8.518430 AAAAGTGTTAAAAATGGCCAATTCTT 57.482 26.923 10.96 3.06 0.00 2.52
769 850 9.791801 AAGTGTTAAAAATGGCCAATTCTTAAT 57.208 25.926 10.96 0.00 0.00 1.40
804 885 9.734984 CTAGTTTTAGATTTAAGGGTTTGAGGA 57.265 33.333 0.00 0.00 0.00 3.71
807 888 8.857098 GTTTTAGATTTAAGGGTTTGAGGACTT 58.143 33.333 0.00 0.00 0.00 3.01
827 908 6.981559 GGACTTTACTAGACATGCTCTAAAGG 59.018 42.308 18.65 10.87 34.38 3.11
845 926 1.219393 GGGTGCTCCAGTCAGCTAC 59.781 63.158 7.20 0.00 40.39 3.58
880 963 1.734477 CGGAGCTCAGTTCCACGTG 60.734 63.158 17.19 9.08 32.31 4.49
915 1003 3.117888 TCTGTATCTGCCTCCAAAATCCC 60.118 47.826 0.00 0.00 0.00 3.85
962 1064 1.247567 ACCCTTCATCCAAACAAGCG 58.752 50.000 0.00 0.00 0.00 4.68
965 1067 2.351738 CCCTTCATCCAAACAAGCGAAC 60.352 50.000 0.00 0.00 0.00 3.95
1078 1211 1.342672 GGCCTTATTCCTGACCCCGA 61.343 60.000 0.00 0.00 0.00 5.14
1251 1800 2.835431 CTCGACCTCTCCGGCCAT 60.835 66.667 2.24 0.00 35.61 4.40
1982 2572 4.650734 TGATCCTGATGTACTGTTGCAAA 58.349 39.130 0.00 0.00 0.00 3.68
2135 2735 4.170468 TCCTCCATCTCAAAATAAGGCC 57.830 45.455 0.00 0.00 0.00 5.19
2136 2736 3.117512 TCCTCCATCTCAAAATAAGGCCC 60.118 47.826 0.00 0.00 0.00 5.80
2137 2737 3.117360 CCTCCATCTCAAAATAAGGCCCT 60.117 47.826 0.00 0.00 0.00 5.19
2138 2738 3.887716 CTCCATCTCAAAATAAGGCCCTG 59.112 47.826 0.00 0.00 0.00 4.45
2139 2739 3.269381 TCCATCTCAAAATAAGGCCCTGT 59.731 43.478 0.00 0.00 0.00 4.00
2140 2740 4.026052 CCATCTCAAAATAAGGCCCTGTT 58.974 43.478 0.00 0.00 0.00 3.16
2141 2741 4.467438 CCATCTCAAAATAAGGCCCTGTTT 59.533 41.667 0.00 0.00 0.00 2.83
2142 2742 5.413499 CATCTCAAAATAAGGCCCTGTTTG 58.587 41.667 0.00 5.78 0.00 2.93
2143 2743 3.831911 TCTCAAAATAAGGCCCTGTTTGG 59.168 43.478 15.07 5.52 31.57 3.28
2144 2744 3.831911 CTCAAAATAAGGCCCTGTTTGGA 59.168 43.478 15.07 9.02 38.35 3.53
2145 2745 3.831911 TCAAAATAAGGCCCTGTTTGGAG 59.168 43.478 15.07 3.05 38.35 3.86
2146 2746 2.532250 AATAAGGCCCTGTTTGGAGG 57.468 50.000 0.00 0.00 38.35 4.30
2163 2763 5.116084 TGGAGGGACCATCTCAAAATAAG 57.884 43.478 6.05 0.00 44.64 1.73
2164 2764 4.079787 TGGAGGGACCATCTCAAAATAAGG 60.080 45.833 6.05 0.00 44.64 2.69
2165 2765 3.885901 GAGGGACCATCTCAAAATAAGGC 59.114 47.826 0.00 0.00 0.00 4.35
2166 2766 2.959030 GGGACCATCTCAAAATAAGGCC 59.041 50.000 0.00 0.00 0.00 5.19
2167 2767 2.959030 GGACCATCTCAAAATAAGGCCC 59.041 50.000 0.00 0.00 0.00 5.80
2168 2768 3.373110 GGACCATCTCAAAATAAGGCCCT 60.373 47.826 0.00 0.00 0.00 5.19
2169 2769 3.633986 GACCATCTCAAAATAAGGCCCTG 59.366 47.826 0.00 0.00 0.00 4.45
2170 2770 3.011708 ACCATCTCAAAATAAGGCCCTGT 59.988 43.478 0.00 0.00 0.00 4.00
2171 2771 4.026052 CCATCTCAAAATAAGGCCCTGTT 58.974 43.478 0.00 0.00 0.00 3.16
2172 2772 4.467438 CCATCTCAAAATAAGGCCCTGTTT 59.533 41.667 0.00 0.00 0.00 2.83
2173 2773 5.413499 CATCTCAAAATAAGGCCCTGTTTG 58.587 41.667 0.00 5.78 0.00 2.93
2174 2774 3.831911 TCTCAAAATAAGGCCCTGTTTGG 59.168 43.478 15.07 5.52 31.57 3.28
2175 2775 3.831911 CTCAAAATAAGGCCCTGTTTGGA 59.168 43.478 15.07 9.02 38.35 3.53
2176 2776 4.424842 TCAAAATAAGGCCCTGTTTGGAT 58.575 39.130 15.07 0.00 38.35 3.41
2177 2777 4.466015 TCAAAATAAGGCCCTGTTTGGATC 59.534 41.667 15.07 0.00 38.35 3.36
2178 2778 2.755952 ATAAGGCCCTGTTTGGATCC 57.244 50.000 4.20 4.20 38.35 3.36
2179 2779 0.629058 TAAGGCCCTGTTTGGATCCC 59.371 55.000 9.90 0.00 38.35 3.85
2180 2780 1.149133 AAGGCCCTGTTTGGATCCCT 61.149 55.000 9.90 0.00 38.35 4.20
2181 2781 1.076705 GGCCCTGTTTGGATCCCTC 60.077 63.158 9.90 0.00 38.35 4.30
2182 2782 1.076705 GCCCTGTTTGGATCCCTCC 60.077 63.158 9.90 0.00 42.45 4.30
2183 2783 1.224592 CCCTGTTTGGATCCCTCCG 59.775 63.158 9.90 0.00 45.37 4.63
2184 2784 1.452108 CCTGTTTGGATCCCTCCGC 60.452 63.158 9.90 0.00 45.37 5.54
2185 2785 1.604378 CTGTTTGGATCCCTCCGCT 59.396 57.895 9.90 0.00 45.37 5.52
2186 2786 0.462759 CTGTTTGGATCCCTCCGCTC 60.463 60.000 9.90 0.00 45.37 5.03
2187 2787 1.153147 GTTTGGATCCCTCCGCTCC 60.153 63.158 9.90 0.00 45.37 4.70
2188 2788 2.375345 TTTGGATCCCTCCGCTCCC 61.375 63.158 9.90 0.00 45.37 4.30
2189 2789 4.880426 TGGATCCCTCCGCTCCCC 62.880 72.222 9.90 0.00 45.37 4.81
2190 2790 4.880426 GGATCCCTCCGCTCCCCA 62.880 72.222 0.00 0.00 0.00 4.96
2191 2791 2.768344 GATCCCTCCGCTCCCCAA 60.768 66.667 0.00 0.00 0.00 4.12
2192 2792 3.090532 ATCCCTCCGCTCCCCAAC 61.091 66.667 0.00 0.00 0.00 3.77
2193 2793 3.642741 ATCCCTCCGCTCCCCAACT 62.643 63.158 0.00 0.00 0.00 3.16
2194 2794 4.101448 CCCTCCGCTCCCCAACTG 62.101 72.222 0.00 0.00 0.00 3.16
2195 2795 4.785453 CCTCCGCTCCCCAACTGC 62.785 72.222 0.00 0.00 0.00 4.40
2196 2796 4.020617 CTCCGCTCCCCAACTGCA 62.021 66.667 0.00 0.00 0.00 4.41
2197 2797 3.965539 CTCCGCTCCCCAACTGCAG 62.966 68.421 13.48 13.48 0.00 4.41
2201 2801 3.076092 CTCCCCAACTGCAGCTCT 58.924 61.111 15.27 0.00 0.00 4.09
2217 2817 6.902341 TGCAGCTCTAAGTGTCTTAATTTTG 58.098 36.000 0.00 0.00 0.00 2.44
2219 2819 7.659799 TGCAGCTCTAAGTGTCTTAATTTTGTA 59.340 33.333 0.00 0.00 0.00 2.41
2253 2853 8.154856 AGTATCTCAACTTTGTGCTACCTTTAA 58.845 33.333 2.87 0.00 28.82 1.52
2260 2860 9.522804 CAACTTTGTGCTACCTTTAATACAAAA 57.477 29.630 0.00 0.00 37.51 2.44
2379 3048 0.588252 GCACAAACGCTCACTCATGT 59.412 50.000 0.00 0.00 0.00 3.21
2726 3396 4.540824 GGATTTTGATGATTTAGGCGAGC 58.459 43.478 0.00 0.00 0.00 5.03
2803 3473 3.190874 CAGAGCCGTTCTCATAAGGTTC 58.809 50.000 4.99 0.00 44.35 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
285 287 5.643348 TGATCATGTTGTGTAGAATCACACC 59.357 40.000 11.41 0.00 46.73 4.16
437 439 1.043116 CCCGGAGCTGACCATGAGTA 61.043 60.000 0.73 0.00 0.00 2.59
690 699 3.436035 GGTTGGGTTTGAGGGTTCTAGTT 60.436 47.826 0.00 0.00 0.00 2.24
737 818 9.620259 AATTGGCCATTTTTAACACTTTTAAGA 57.380 25.926 6.09 0.00 0.00 2.10
804 885 6.127026 CCCCTTTAGAGCATGTCTAGTAAAGT 60.127 42.308 18.08 0.00 39.05 2.66
807 888 5.128827 CACCCCTTTAGAGCATGTCTAGTAA 59.871 44.000 0.00 0.00 39.05 2.24
827 908 1.219393 GTAGCTGACTGGAGCACCC 59.781 63.158 0.00 0.00 41.83 4.61
857 940 1.323271 TGGAACTGAGCTCCGCTAGG 61.323 60.000 12.15 0.00 39.88 3.02
858 941 0.179124 GTGGAACTGAGCTCCGCTAG 60.179 60.000 12.15 4.08 39.88 3.42
859 942 1.890894 GTGGAACTGAGCTCCGCTA 59.109 57.895 12.15 0.00 39.88 4.26
860 943 2.659610 GTGGAACTGAGCTCCGCT 59.340 61.111 12.15 0.00 43.88 5.52
861 944 2.811317 CGTGGAACTGAGCTCCGC 60.811 66.667 12.15 5.39 39.64 5.54
862 945 1.734477 CACGTGGAACTGAGCTCCG 60.734 63.158 12.15 7.55 35.55 4.63
863 946 0.667792 GACACGTGGAACTGAGCTCC 60.668 60.000 21.57 0.00 31.75 4.70
880 963 5.391523 GGCAGATACAGAGAGACATATCGAC 60.392 48.000 0.00 0.00 0.00 4.20
915 1003 4.205587 AGCTCGAACGGGGTATATATAGG 58.794 47.826 0.00 0.00 0.00 2.57
962 1064 3.320673 ACTGGCTAGTAGCTTGTGTTC 57.679 47.619 21.20 3.91 41.99 3.18
965 1067 4.177026 CAAGTACTGGCTAGTAGCTTGTG 58.823 47.826 26.22 14.66 41.99 3.33
1055 1185 1.887707 GTCAGGAATAAGGCCGCGG 60.888 63.158 24.05 24.05 0.00 6.46
1098 1231 2.430367 GTCACCTGGCCGGTCTTT 59.570 61.111 15.22 0.00 44.93 2.52
1251 1800 2.045242 CCGACGGAGGAGAGGTCA 60.045 66.667 8.64 0.00 0.00 4.02
1305 1863 1.758514 GCCGATGGAGAGGGAGACA 60.759 63.158 0.00 0.00 0.00 3.41
1982 2572 2.213499 CAAGCCTCACTTTGTTCTCGT 58.787 47.619 0.00 0.00 36.04 4.18
2142 2742 4.464947 CCTTATTTTGAGATGGTCCCTCC 58.535 47.826 0.00 0.00 0.00 4.30
2143 2743 3.885901 GCCTTATTTTGAGATGGTCCCTC 59.114 47.826 0.00 0.00 0.00 4.30
2144 2744 3.373110 GGCCTTATTTTGAGATGGTCCCT 60.373 47.826 0.00 0.00 0.00 4.20
2145 2745 2.959030 GGCCTTATTTTGAGATGGTCCC 59.041 50.000 0.00 0.00 0.00 4.46
2146 2746 2.959030 GGGCCTTATTTTGAGATGGTCC 59.041 50.000 0.84 0.00 31.91 4.46
2147 2747 3.633986 CAGGGCCTTATTTTGAGATGGTC 59.366 47.826 1.32 0.00 0.00 4.02
2148 2748 3.011708 ACAGGGCCTTATTTTGAGATGGT 59.988 43.478 1.32 0.00 0.00 3.55
2149 2749 3.635591 ACAGGGCCTTATTTTGAGATGG 58.364 45.455 1.32 0.00 0.00 3.51
2150 2750 5.413499 CAAACAGGGCCTTATTTTGAGATG 58.587 41.667 20.25 3.36 30.23 2.90
2151 2751 4.467438 CCAAACAGGGCCTTATTTTGAGAT 59.533 41.667 24.12 0.00 30.23 2.75
2152 2752 3.831911 CCAAACAGGGCCTTATTTTGAGA 59.168 43.478 24.12 0.00 30.23 3.27
2153 2753 3.831911 TCCAAACAGGGCCTTATTTTGAG 59.168 43.478 24.12 17.02 38.24 3.02
2154 2754 3.850752 TCCAAACAGGGCCTTATTTTGA 58.149 40.909 24.12 16.93 38.24 2.69
2155 2755 4.383010 GGATCCAAACAGGGCCTTATTTTG 60.383 45.833 18.83 18.83 38.24 2.44
2156 2756 3.774766 GGATCCAAACAGGGCCTTATTTT 59.225 43.478 1.32 0.29 38.24 1.82
2157 2757 3.374764 GGATCCAAACAGGGCCTTATTT 58.625 45.455 1.32 4.81 38.24 1.40
2158 2758 2.359249 GGGATCCAAACAGGGCCTTATT 60.359 50.000 15.23 0.00 38.24 1.40
2159 2759 1.217942 GGGATCCAAACAGGGCCTTAT 59.782 52.381 15.23 0.00 38.24 1.73
2160 2760 0.629058 GGGATCCAAACAGGGCCTTA 59.371 55.000 15.23 0.00 38.24 2.69
2161 2761 1.149133 AGGGATCCAAACAGGGCCTT 61.149 55.000 15.23 0.00 38.24 4.35
2162 2762 1.544917 AGGGATCCAAACAGGGCCT 60.545 57.895 15.23 0.00 38.24 5.19
2163 2763 1.076705 GAGGGATCCAAACAGGGCC 60.077 63.158 15.23 0.00 38.24 5.80
2164 2764 1.076705 GGAGGGATCCAAACAGGGC 60.077 63.158 15.23 0.00 38.24 5.19
2165 2765 1.224592 CGGAGGGATCCAAACAGGG 59.775 63.158 15.23 0.00 38.24 4.45
2166 2766 1.452108 GCGGAGGGATCCAAACAGG 60.452 63.158 15.23 0.00 39.47 4.00
2167 2767 0.462759 GAGCGGAGGGATCCAAACAG 60.463 60.000 15.23 6.01 0.00 3.16
2168 2768 1.602237 GAGCGGAGGGATCCAAACA 59.398 57.895 15.23 0.00 0.00 2.83
2169 2769 4.542075 GAGCGGAGGGATCCAAAC 57.458 61.111 15.23 3.78 0.00 2.93
2174 2774 2.768344 TTGGGGAGCGGAGGGATC 60.768 66.667 0.00 0.00 0.00 3.36
2175 2775 3.090532 GTTGGGGAGCGGAGGGAT 61.091 66.667 0.00 0.00 0.00 3.85
2176 2776 4.332543 AGTTGGGGAGCGGAGGGA 62.333 66.667 0.00 0.00 0.00 4.20
2177 2777 4.101448 CAGTTGGGGAGCGGAGGG 62.101 72.222 0.00 0.00 0.00 4.30
2178 2778 4.785453 GCAGTTGGGGAGCGGAGG 62.785 72.222 0.00 0.00 0.00 4.30
2179 2779 3.965539 CTGCAGTTGGGGAGCGGAG 62.966 68.421 5.25 0.00 36.79 4.63
2180 2780 4.020617 CTGCAGTTGGGGAGCGGA 62.021 66.667 5.25 0.00 36.79 5.54
2184 2784 0.615331 TTAGAGCTGCAGTTGGGGAG 59.385 55.000 16.64 0.00 0.00 4.30
2185 2785 0.615331 CTTAGAGCTGCAGTTGGGGA 59.385 55.000 16.64 0.00 0.00 4.81
2186 2786 0.326264 ACTTAGAGCTGCAGTTGGGG 59.674 55.000 16.64 4.54 0.00 4.96
2187 2787 1.271054 ACACTTAGAGCTGCAGTTGGG 60.271 52.381 16.64 0.46 0.00 4.12
2188 2788 2.072298 GACACTTAGAGCTGCAGTTGG 58.928 52.381 16.64 2.02 0.00 3.77
2189 2789 3.037431 AGACACTTAGAGCTGCAGTTG 57.963 47.619 16.64 0.00 0.00 3.16
2190 2790 3.760580 AAGACACTTAGAGCTGCAGTT 57.239 42.857 16.64 9.79 0.00 3.16
2191 2791 4.873746 TTAAGACACTTAGAGCTGCAGT 57.126 40.909 16.64 1.59 0.00 4.40
2192 2792 6.734104 AAATTAAGACACTTAGAGCTGCAG 57.266 37.500 10.11 10.11 0.00 4.41
2193 2793 6.486657 ACAAAATTAAGACACTTAGAGCTGCA 59.513 34.615 1.02 0.00 0.00 4.41
2194 2794 6.903419 ACAAAATTAAGACACTTAGAGCTGC 58.097 36.000 0.00 0.00 0.00 5.25
2195 2795 9.209175 AGTACAAAATTAAGACACTTAGAGCTG 57.791 33.333 0.00 0.00 0.00 4.24
2219 2819 9.726438 AGCACAAAGTTGAGATACTAAATTAGT 57.274 29.630 10.75 10.75 42.68 2.24
2230 2830 8.947115 GTATTAAAGGTAGCACAAAGTTGAGAT 58.053 33.333 0.00 0.00 0.00 2.75
2231 2831 7.934665 TGTATTAAAGGTAGCACAAAGTTGAGA 59.065 33.333 0.00 0.00 0.00 3.27
2232 2832 8.094798 TGTATTAAAGGTAGCACAAAGTTGAG 57.905 34.615 0.00 0.00 0.00 3.02
2233 2833 8.453238 TTGTATTAAAGGTAGCACAAAGTTGA 57.547 30.769 0.00 0.00 0.00 3.18
2234 2834 9.522804 TTTTGTATTAAAGGTAGCACAAAGTTG 57.477 29.630 6.23 0.00 37.24 3.16
2253 2853 5.431179 ACTCCCTCCGTACAATTTTGTAT 57.569 39.130 6.45 0.00 44.59 2.29
2260 2860 4.957954 TGTAACATACTCCCTCCGTACAAT 59.042 41.667 0.00 0.00 0.00 2.71
2379 3048 9.938280 AGCTAGTACTTGTTGACAAATTACATA 57.062 29.630 0.00 6.38 35.15 2.29
2647 3317 8.721133 TGGAGATGTTGGAGCTACTTATATTA 57.279 34.615 0.00 0.00 0.00 0.98
2726 3396 3.452264 TCATCAGGTGGTATCACTTCAGG 59.548 47.826 6.00 0.00 43.17 3.86
2803 3473 4.424626 TGAGCAGTCTTATAACAGAAGCG 58.575 43.478 0.00 0.00 33.43 4.68


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

AutoCloner maintained by Alex Coulton.