Multiple sequence alignment - TraesCS4A01G042900

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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 TraesCS4A01G042900 chr4A 100.000 2793 0 0 1 2793 36100005 36102797 0.000000e+00 5158.0
1 TraesCS4A01G042900 chr4D 90.421 2683 139 52 1 2607 434465807 434468447 0.000000e+00 3422.0
2 TraesCS4A01G042900 chr4B 88.836 1684 98 41 447 2087 534326570 534328206 0.000000e+00 1986.0
3 TraesCS4A01G042900 chr4B 89.640 444 27 9 1 439 534326088 534326517 5.260000e-152 547.0
4 TraesCS4A01G042900 chr4B 90.727 399 23 6 2150 2539 534328321 534328714 1.150000e-143 520.0
5 TraesCS4A01G042900 chr4B 84.456 193 22 5 2601 2793 534328974 534329158 1.710000e-42 183.0
6 TraesCS4A01G042900 chr7A 87.640 89 7 4 2434 2520 80757213 80757127 1.770000e-17 100.0
7 TraesCS4A01G042900 chr7A 84.146 82 12 1 2434 2514 692055739 692055658 8.290000e-11 78.7
8 TraesCS4A01G042900 chr5D 86.364 88 10 2 2434 2520 547927431 547927517 8.240000e-16 95.3
9 TraesCS4A01G042900 chr3A 83.721 86 12 2 2436 2520 718940754 718940670 2.310000e-11 80.5
10 TraesCS4A01G042900 chr7D 76.712 146 28 6 2642 2785 415438848 415438989 2.980000e-10 76.8
11 TraesCS4A01G042900 chr6D 92.500 40 3 0 2481 2520 106891236 106891275 1.080000e-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 TraesCS4A01G042900 chr4A 36100005 36102797 2792 False 5158 5158 100.00000 1 2793 1 chr4A.!!$F1 2792
1 TraesCS4A01G042900 chr4D 434465807 434468447 2640 False 3422 3422 90.42100 1 2607 1 chr4D.!!$F1 2606
2 TraesCS4A01G042900 chr4B 534326088 534329158 3070 False 809 1986 88.41475 1 2793 4 chr4B.!!$F1 2792

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
255 257 0.955919 CTTGAGAAAGTGACGGCCCC 60.956 60.000 0.00 0.0 0.0 5.80 F
410 421 1.063912 CGCACGTACCGACCATAACTA 59.936 52.381 1.95 0.0 0.0 2.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1160 1258 0.515717 GTCGTTGATGTTGTACGCGC 60.516 55.0 5.73 0.0 35.40 6.86 R
2320 2522 0.458543 ATCTCGCATCCGTGTGTGTC 60.459 55.0 0.00 0.0 37.16 3.67 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
125 126 1.668151 GCTCCACTTTTCTCGGCGT 60.668 57.895 6.85 0.00 0.00 5.68
126 127 1.901650 GCTCCACTTTTCTCGGCGTG 61.902 60.000 6.85 4.24 0.00 5.34
184 185 1.061566 GCTACCGGTTACGAAATGTGC 59.938 52.381 15.04 0.00 44.60 4.57
255 257 0.955919 CTTGAGAAAGTGACGGCCCC 60.956 60.000 0.00 0.00 0.00 5.80
263 265 1.926108 AGTGACGGCCCCTCTATATC 58.074 55.000 0.00 0.00 0.00 1.63
286 288 3.760035 AGTGTGCCTACCTCGCCG 61.760 66.667 0.00 0.00 0.00 6.46
301 303 4.473520 CCGGTGCCAGGCTACAGG 62.474 72.222 14.15 14.82 0.00 4.00
302 304 3.706373 CGGTGCCAGGCTACAGGT 61.706 66.667 14.15 0.00 0.00 4.00
303 305 2.355986 CGGTGCCAGGCTACAGGTA 61.356 63.158 14.15 0.00 0.00 3.08
324 327 3.166657 AGTACGTACTTGCGTCGAATTC 58.833 45.455 22.45 0.00 44.55 2.17
352 363 2.450992 TGGTCATCTCCACTGTGCA 58.549 52.632 1.29 0.00 31.96 4.57
400 411 2.372148 AAAAAGAAACGCACGTACCG 57.628 45.000 0.00 6.28 0.00 4.02
410 421 1.063912 CGCACGTACCGACCATAACTA 59.936 52.381 1.95 0.00 0.00 2.24
424 438 5.516996 ACCATAACTACACACGATCGTATG 58.483 41.667 24.12 24.12 0.00 2.39
430 444 1.135199 ACACACGATCGTATGACCACC 60.135 52.381 31.49 0.00 0.00 4.61
444 458 2.739704 CCACCGTACAGTGCGCATG 61.740 63.158 15.91 15.54 36.38 4.06
445 459 3.118454 ACCGTACAGTGCGCATGC 61.118 61.111 15.91 7.91 43.20 4.06
705 783 4.424711 TCCCGCTTGGCCACATCC 62.425 66.667 3.88 0.00 0.00 3.51
842 920 2.354773 GTGACCGGCCGATCGATC 60.355 66.667 30.73 15.68 0.00 3.69
849 927 2.276116 GGCCGATCGATCTAGGGCA 61.276 63.158 31.14 0.00 46.93 5.36
864 950 4.820744 GCACCCGGCATCCACCAT 62.821 66.667 0.00 0.00 43.97 3.55
1194 1292 2.444624 CGACAACGCCGACATCCTG 61.445 63.158 0.00 0.00 0.00 3.86
1197 1295 2.100631 CAACGCCGACATCCTGTCC 61.101 63.158 0.00 0.00 44.20 4.02
1404 1502 2.726351 GCTCTACCGCCTCTGCCTT 61.726 63.158 0.00 0.00 0.00 4.35
1736 1862 6.073602 GGTCTTTGTCCAATTTGCTCATTTTC 60.074 38.462 0.00 0.00 0.00 2.29
1855 1988 8.840321 ACGAATGATTCTTTCTTTCTTTCTCAA 58.160 29.630 3.43 0.00 36.71 3.02
1856 1989 9.837525 CGAATGATTCTTTCTTTCTTTCTCAAT 57.162 29.630 3.43 0.00 36.71 2.57
1858 1991 9.924650 AATGATTCTTTCTTTCTTTCTCAATGG 57.075 29.630 0.00 0.00 0.00 3.16
1859 1992 8.696043 TGATTCTTTCTTTCTTTCTCAATGGA 57.304 30.769 0.00 0.00 0.00 3.41
1860 1993 9.305555 TGATTCTTTCTTTCTTTCTCAATGGAT 57.694 29.630 0.00 0.00 0.00 3.41
2031 2164 2.741985 CTCGCGCATGTGACCCAA 60.742 61.111 11.26 0.00 0.00 4.12
2032 2165 3.027170 CTCGCGCATGTGACCCAAC 62.027 63.158 11.26 0.00 0.00 3.77
2043 2176 0.625316 TGACCCAACCCATCCATCTG 59.375 55.000 0.00 0.00 0.00 2.90
2049 2182 0.842635 AACCCATCCATCTGCTCCTC 59.157 55.000 0.00 0.00 0.00 3.71
2050 2183 1.059006 ACCCATCCATCTGCTCCTCC 61.059 60.000 0.00 0.00 0.00 4.30
2107 2240 4.477975 CTCTCGCGACCGGGTGAC 62.478 72.222 3.71 0.00 36.05 3.67
2279 2481 5.760743 GGATGTTTCTTTGGATAGCTCCTAC 59.239 44.000 0.00 0.00 42.59 3.18
2280 2482 6.408662 GGATGTTTCTTTGGATAGCTCCTACT 60.409 42.308 0.00 0.00 42.59 2.57
2281 2483 5.734720 TGTTTCTTTGGATAGCTCCTACTG 58.265 41.667 0.00 0.00 42.59 2.74
2292 2494 6.040391 GGATAGCTCCTACTGCTGGATATTAG 59.960 46.154 0.00 0.00 41.32 1.73
2299 2501 2.639839 ACTGCTGGATATTAGGCCGAAT 59.360 45.455 15.84 15.84 0.00 3.34
2315 2517 2.542824 CCGAATGAAACAACGGCAAAGT 60.543 45.455 0.00 0.00 38.98 2.66
2320 2522 6.248420 CGAATGAAACAACGGCAAAGTATAAG 59.752 38.462 0.00 0.00 0.00 1.73
2331 2533 3.991773 GCAAAGTATAAGACACACACGGA 59.008 43.478 0.00 0.00 0.00 4.69
2358 2560 6.348704 GCGAGATCCTTTCTACTATGACTACC 60.349 46.154 0.00 0.00 33.74 3.18
2387 2589 0.613777 AGGGCCTCCTTTAGTTCACG 59.386 55.000 0.00 0.00 41.56 4.35
2395 2597 5.238583 CCTCCTTTAGTTCACGTGATTCTT 58.761 41.667 20.80 7.88 0.00 2.52
2426 2628 4.024556 GCATGAAATGGATAGGACTTGTCG 60.025 45.833 0.00 0.00 46.86 4.35
2429 2631 2.604046 ATGGATAGGACTTGTCGCAC 57.396 50.000 0.00 0.00 0.00 5.34
2430 2632 0.172578 TGGATAGGACTTGTCGCACG 59.827 55.000 0.00 0.00 0.00 5.34
2431 2633 0.454600 GGATAGGACTTGTCGCACGA 59.545 55.000 0.00 0.00 0.00 4.35
2434 2636 2.060326 TAGGACTTGTCGCACGAAAG 57.940 50.000 0.00 4.17 0.00 2.62
2531 2734 4.677182 TCATATGATACTAGGGCTCTGCA 58.323 43.478 0.00 0.00 0.00 4.41
2539 2742 2.170187 ACTAGGGCTCTGCAATCTTCTG 59.830 50.000 0.00 0.00 0.00 3.02
2547 2750 1.022982 TGCAATCTTCTGCTGCCTCG 61.023 55.000 0.00 0.00 43.07 4.63
2558 2761 3.234630 CTGCCTCGACGTTTCCCCA 62.235 63.158 0.00 0.00 0.00 4.96
2559 2762 2.434359 GCCTCGACGTTTCCCCAG 60.434 66.667 0.00 0.00 0.00 4.45
2560 2763 2.939261 GCCTCGACGTTTCCCCAGA 61.939 63.158 0.00 0.00 0.00 3.86
2561 2764 1.080025 CCTCGACGTTTCCCCAGAC 60.080 63.158 0.00 0.00 0.00 3.51
2562 2765 1.533469 CCTCGACGTTTCCCCAGACT 61.533 60.000 0.00 0.00 0.00 3.24
2565 2768 1.145803 CGACGTTTCCCCAGACTTTC 58.854 55.000 0.00 0.00 0.00 2.62
2573 2778 2.592993 CCCAGACTTTCCCGAGCCA 61.593 63.158 0.00 0.00 0.00 4.75
2579 2784 0.110486 ACTTTCCCGAGCCAATGTGT 59.890 50.000 0.00 0.00 0.00 3.72
2580 2785 0.804989 CTTTCCCGAGCCAATGTGTC 59.195 55.000 0.00 0.00 0.00 3.67
2581 2786 0.953471 TTTCCCGAGCCAATGTGTCG 60.953 55.000 0.00 0.00 0.00 4.35
2599 2804 2.109774 TCGGGCGATTAGGGTTTTAGA 58.890 47.619 0.00 0.00 0.00 2.10
2607 3008 5.007724 GCGATTAGGGTTTTAGAGTGGATTG 59.992 44.000 0.00 0.00 0.00 2.67
2614 3015 2.871096 TTAGAGTGGATTGGCCGTTT 57.129 45.000 0.00 0.00 40.66 3.60
2615 3016 2.871096 TAGAGTGGATTGGCCGTTTT 57.129 45.000 0.00 0.00 40.66 2.43
2619 3020 1.202879 AGTGGATTGGCCGTTTTGAGA 60.203 47.619 0.00 0.00 40.66 3.27
2623 3024 2.231235 GGATTGGCCGTTTTGAGAATGT 59.769 45.455 0.00 0.00 0.00 2.71
2628 3029 2.307049 GCCGTTTTGAGAATGTCAACG 58.693 47.619 0.00 0.00 45.23 4.10
2629 3030 2.286772 GCCGTTTTGAGAATGTCAACGT 60.287 45.455 4.38 0.00 45.23 3.99
2631 3032 3.541711 CGTTTTGAGAATGTCAACGTCC 58.458 45.455 0.00 0.00 45.23 4.79
2632 3033 3.541711 GTTTTGAGAATGTCAACGTCCG 58.458 45.455 0.00 0.00 45.23 4.79
2634 3035 0.669318 TGAGAATGTCAACGTCCGCC 60.669 55.000 0.00 0.00 29.64 6.13
2656 3057 1.925972 GGGGGCAAGGAGAAGGAGT 60.926 63.158 0.00 0.00 0.00 3.85
2675 3076 2.672996 CCTTGTTGCCGAGGGTGG 60.673 66.667 0.00 0.00 38.46 4.61
2727 3128 0.335019 TTGTGGATCTCGGAGGAGGA 59.665 55.000 4.96 0.00 40.85 3.71
2728 3129 0.106469 TGTGGATCTCGGAGGAGGAG 60.106 60.000 4.96 0.00 40.85 3.69
2729 3130 0.825840 GTGGATCTCGGAGGAGGAGG 60.826 65.000 4.96 0.00 40.85 4.30
2754 3155 2.715046 GCCACTGGTTCTTGATGATGA 58.285 47.619 0.00 0.00 0.00 2.92
2774 3175 3.246130 TGAAGAAGATGGGGAGAAGGAGA 60.246 47.826 0.00 0.00 0.00 3.71
2775 3176 3.498614 AGAAGATGGGGAGAAGGAGAA 57.501 47.619 0.00 0.00 0.00 2.87
2776 3177 3.383223 AGAAGATGGGGAGAAGGAGAAG 58.617 50.000 0.00 0.00 0.00 2.85
2777 3178 2.959421 AGATGGGGAGAAGGAGAAGT 57.041 50.000 0.00 0.00 0.00 3.01
2778 3179 3.213160 AGATGGGGAGAAGGAGAAGTT 57.787 47.619 0.00 0.00 0.00 2.66
2785 3186 3.452627 GGGAGAAGGAGAAGTTGATGCTA 59.547 47.826 0.00 0.00 0.00 3.49
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 5.036737 ACGCTCACATCAAAGTTTCTTTTG 58.963 37.500 0.00 0.00 38.97 2.44
167 168 1.533731 CAAGCACATTTCGTAACCGGT 59.466 47.619 0.00 0.00 33.95 5.28
255 257 7.231722 AGGTAGGCACACTGTTTAGATATAGAG 59.768 40.741 0.00 0.00 0.00 2.43
263 265 2.607187 CGAGGTAGGCACACTGTTTAG 58.393 52.381 0.00 0.00 0.00 1.85
286 288 1.265454 ACTACCTGTAGCCTGGCACC 61.265 60.000 22.65 11.05 36.66 5.01
292 294 3.922171 AGTACGTACTACCTGTAGCCT 57.078 47.619 26.36 0.00 36.66 4.58
293 295 3.488216 GCAAGTACGTACTACCTGTAGCC 60.488 52.174 27.59 7.00 36.66 3.93
350 361 3.188786 GTCCATCAGCGTCGGTGC 61.189 66.667 19.30 1.45 0.00 5.01
352 363 1.381928 ATACGTCCATCAGCGTCGGT 61.382 55.000 0.00 0.00 41.77 4.69
400 411 4.025015 ACGATCGTGTGTAGTTATGGTC 57.975 45.455 22.06 0.00 0.00 4.02
410 421 1.135199 GGTGGTCATACGATCGTGTGT 60.135 52.381 34.27 17.97 38.21 3.72
424 438 3.110178 GCGCACTGTACGGTGGTC 61.110 66.667 30.98 17.21 37.65 4.02
430 444 3.117812 TGGCATGCGCACTGTACG 61.118 61.111 14.90 0.00 41.24 3.67
555 632 2.328473 GTACGTACGTGTTTTCCCTCC 58.672 52.381 30.25 2.13 0.00 4.30
638 715 1.799121 GACGTCGAGCAACCGTACC 60.799 63.158 0.00 0.00 34.51 3.34
842 920 4.256180 GGATGCCGGGTGCCCTAG 62.256 72.222 2.18 0.00 40.16 3.02
849 927 4.127744 CCATGGTGGATGCCGGGT 62.128 66.667 2.18 0.00 40.96 5.28
853 939 3.149648 GTGGCCATGGTGGATGCC 61.150 66.667 9.72 7.56 40.96 4.40
856 942 2.043652 GCAGTGGCCATGGTGGAT 60.044 61.111 9.72 0.00 40.96 3.41
1156 1254 4.218478 GATGTTGTACGCGCCGCC 62.218 66.667 5.73 0.00 0.00 6.13
1157 1255 3.017656 TTGATGTTGTACGCGCCGC 62.018 57.895 5.73 0.00 0.00 6.53
1158 1256 1.225637 GTTGATGTTGTACGCGCCG 60.226 57.895 5.73 0.00 0.00 6.46
1159 1257 1.225637 CGTTGATGTTGTACGCGCC 60.226 57.895 5.73 0.00 0.00 6.53
1160 1258 0.515717 GTCGTTGATGTTGTACGCGC 60.516 55.000 5.73 0.00 35.40 6.86
1161 1259 0.779408 TGTCGTTGATGTTGTACGCG 59.221 50.000 3.53 3.53 35.40 6.01
1162 1260 2.556806 GTTGTCGTTGATGTTGTACGC 58.443 47.619 0.00 0.00 35.40 4.42
1194 1292 4.933064 CGCGCCAGGATCTCGGAC 62.933 72.222 0.00 0.00 0.00 4.79
1566 1664 2.676822 AAGAGCAGCGACGAGGGA 60.677 61.111 0.00 0.00 0.00 4.20
1569 1667 1.515952 CAGGAAGAGCAGCGACGAG 60.516 63.158 0.00 0.00 0.00 4.18
1689 1815 0.724549 TATGTCATTGTCAACCGCGC 59.275 50.000 0.00 0.00 0.00 6.86
1746 1872 6.043474 ACCCTTATTGGTCCGTGCTAATATAA 59.957 38.462 0.00 0.00 31.15 0.98
1810 1939 9.964303 TCATTCGTTTATTTCCATATTCAATGG 57.036 29.630 0.00 0.00 40.48 3.16
1855 1988 3.705579 CCTCACTCTCACTCTCAATCCAT 59.294 47.826 0.00 0.00 0.00 3.41
1856 1989 3.095332 CCTCACTCTCACTCTCAATCCA 58.905 50.000 0.00 0.00 0.00 3.41
1858 1991 3.130340 GTCCCTCACTCTCACTCTCAATC 59.870 52.174 0.00 0.00 0.00 2.67
1859 1992 3.096092 GTCCCTCACTCTCACTCTCAAT 58.904 50.000 0.00 0.00 0.00 2.57
1860 1993 2.520069 GTCCCTCACTCTCACTCTCAA 58.480 52.381 0.00 0.00 0.00 3.02
2031 2164 1.059006 GGAGGAGCAGATGGATGGGT 61.059 60.000 0.00 0.00 0.00 4.51
2032 2165 0.767446 AGGAGGAGCAGATGGATGGG 60.767 60.000 0.00 0.00 0.00 4.00
2043 2176 5.601583 AGTTAAGCTTAAGTAGGAGGAGC 57.398 43.478 22.32 6.43 0.00 4.70
2107 2240 1.070577 GCCGATTCATTCATCCGTTCG 60.071 52.381 0.00 0.00 0.00 3.95
2109 2242 0.937304 CGCCGATTCATTCATCCGTT 59.063 50.000 0.00 0.00 0.00 4.44
2111 2244 0.786581 CTCGCCGATTCATTCATCCG 59.213 55.000 0.00 0.00 0.00 4.18
2152 2328 2.408271 TCCGGTAGAGTAGAAGCGAA 57.592 50.000 0.00 0.00 38.82 4.70
2279 2481 2.839486 TTCGGCCTAATATCCAGCAG 57.161 50.000 0.00 0.00 0.00 4.24
2280 2482 2.637382 TCATTCGGCCTAATATCCAGCA 59.363 45.455 1.54 0.00 0.00 4.41
2281 2483 3.334583 TCATTCGGCCTAATATCCAGC 57.665 47.619 1.54 0.00 0.00 4.85
2292 2494 4.859784 CCGTTGTTTCATTCGGCC 57.140 55.556 0.00 0.00 36.68 6.13
2299 2501 5.527951 TGTCTTATACTTTGCCGTTGTTTCA 59.472 36.000 0.00 0.00 0.00 2.69
2315 2517 2.424246 TCGCATCCGTGTGTGTCTTATA 59.576 45.455 0.00 0.00 37.16 0.98
2320 2522 0.458543 ATCTCGCATCCGTGTGTGTC 60.459 55.000 0.00 0.00 37.16 3.67
2331 2533 5.772672 AGTCATAGTAGAAAGGATCTCGCAT 59.227 40.000 0.00 0.00 39.71 4.73
2358 2560 1.118356 AGGAGGCCCTAGCATTCGAG 61.118 60.000 0.00 0.00 42.15 4.04
2406 2608 3.055458 TGCGACAAGTCCTATCCATTTCA 60.055 43.478 0.00 0.00 0.00 2.69
2430 2632 6.564125 GCATAGTTGGCATGTACGATACTTTC 60.564 42.308 0.00 0.00 0.00 2.62
2431 2633 5.236478 GCATAGTTGGCATGTACGATACTTT 59.764 40.000 0.00 0.00 0.00 2.66
2434 2636 4.055360 TGCATAGTTGGCATGTACGATAC 58.945 43.478 0.00 0.00 36.11 2.24
2435 2637 4.202212 ACTGCATAGTTGGCATGTACGATA 60.202 41.667 0.00 0.00 41.06 2.92
2439 2642 4.701956 AAACTGCATAGTTGGCATGTAC 57.298 40.909 0.00 0.00 46.14 2.90
2520 2723 1.134280 GCAGAAGATTGCAGAGCCCTA 60.134 52.381 0.00 0.00 43.53 3.53
2522 2725 0.394080 AGCAGAAGATTGCAGAGCCC 60.394 55.000 0.52 0.00 46.47 5.19
2531 2734 0.459237 CGTCGAGGCAGCAGAAGATT 60.459 55.000 0.00 0.00 0.00 2.40
2539 2742 3.119096 GGGAAACGTCGAGGCAGC 61.119 66.667 4.75 0.00 0.00 5.25
2547 2750 1.520494 GGAAAGTCTGGGGAAACGTC 58.480 55.000 0.00 0.00 0.00 4.34
2558 2761 0.693049 ACATTGGCTCGGGAAAGTCT 59.307 50.000 0.00 0.00 0.00 3.24
2559 2762 0.804989 CACATTGGCTCGGGAAAGTC 59.195 55.000 0.00 0.00 0.00 3.01
2560 2763 0.110486 ACACATTGGCTCGGGAAAGT 59.890 50.000 0.00 0.00 0.00 2.66
2561 2764 0.804989 GACACATTGGCTCGGGAAAG 59.195 55.000 0.00 0.00 0.00 2.62
2562 2765 0.953471 CGACACATTGGCTCGGGAAA 60.953 55.000 0.00 0.00 0.00 3.13
2565 2768 2.819595 CCGACACATTGGCTCGGG 60.820 66.667 13.72 0.00 42.76 5.14
2573 2778 0.179056 CCCTAATCGCCCGACACATT 60.179 55.000 0.00 0.00 0.00 2.71
2579 2784 2.101917 CTCTAAAACCCTAATCGCCCGA 59.898 50.000 0.00 0.00 0.00 5.14
2580 2785 2.159000 ACTCTAAAACCCTAATCGCCCG 60.159 50.000 0.00 0.00 0.00 6.13
2581 2786 3.203716 CACTCTAAAACCCTAATCGCCC 58.796 50.000 0.00 0.00 0.00 6.13
2599 2804 1.202879 TCTCAAAACGGCCAATCCACT 60.203 47.619 2.24 0.00 34.01 4.00
2607 3008 2.661594 GTTGACATTCTCAAAACGGCC 58.338 47.619 0.00 0.00 40.73 6.13
2614 3015 1.144969 GCGGACGTTGACATTCTCAA 58.855 50.000 0.00 0.00 36.46 3.02
2615 3016 0.669318 GGCGGACGTTGACATTCTCA 60.669 55.000 0.00 0.00 0.00 3.27
2619 3020 1.228003 TTGGGCGGACGTTGACATT 60.228 52.632 0.00 0.00 0.00 2.71
2623 3024 4.323477 CCCTTGGGCGGACGTTGA 62.323 66.667 0.00 0.00 0.00 3.18
2634 3035 1.000396 CTTCTCCTTGCCCCCTTGG 60.000 63.158 0.00 0.00 37.09 3.61
2656 3057 2.852075 ACCCTCGGCAACAAGGGA 60.852 61.111 14.25 0.00 44.12 4.20
2673 3074 0.528466 CGCTAATCTTGCTCTCGCCA 60.528 55.000 0.00 0.00 34.43 5.69
2675 3076 0.249073 TCCGCTAATCTTGCTCTCGC 60.249 55.000 0.00 0.00 0.00 5.03
2677 3078 1.683917 TCCTCCGCTAATCTTGCTCTC 59.316 52.381 0.00 0.00 0.00 3.20
2682 3083 2.159043 TCAAGCTCCTCCGCTAATCTTG 60.159 50.000 0.00 0.00 39.86 3.02
2708 3109 0.335019 TCCTCCTCCGAGATCCACAA 59.665 55.000 0.00 0.00 38.52 3.33
2711 3112 1.539165 CCTCCTCCTCCGAGATCCA 59.461 63.158 0.00 0.00 38.52 3.41
2712 3113 1.906333 GCCTCCTCCTCCGAGATCC 60.906 68.421 0.00 0.00 38.52 3.36
2729 3130 2.594592 AAGAACCAGTGGCGTGGC 60.595 61.111 9.78 0.00 41.90 5.01
2754 3155 3.498614 TCTCCTTCTCCCCATCTTCTT 57.501 47.619 0.00 0.00 0.00 2.52
2774 3175 2.296920 TCCCCGCTAGCATCAACTT 58.703 52.632 16.45 0.00 0.00 2.66
2775 3176 4.050313 TCCCCGCTAGCATCAACT 57.950 55.556 16.45 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.