Multiple sequence alignment - TraesCS3B01G059500

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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 TraesCS3B01G059500 chr3B 100.000 3435 0 0 1 3435 31069198 31065764 0.000000e+00 6344.0
1 TraesCS3B01G059500 chr3B 90.213 1645 110 30 958 2590 31058421 31060026 0.000000e+00 2098.0
2 TraesCS3B01G059500 chr3B 78.558 541 72 20 292 822 31057809 31058315 1.990000e-82 316.0
3 TraesCS3B01G059500 chr3A 89.133 2825 203 48 1 2801 26873353 26870609 0.000000e+00 3421.0
4 TraesCS3B01G059500 chr3A 91.333 2146 143 19 963 3094 26828636 26830752 0.000000e+00 2892.0
5 TraesCS3B01G059500 chr3A 90.330 455 37 5 2872 3324 26870609 26870160 1.060000e-164 590.0
6 TraesCS3B01G059500 chr3A 87.283 346 34 5 3091 3435 26831378 26831714 1.500000e-103 387.0
7 TraesCS3B01G059500 chr3A 95.833 48 2 0 2195 2242 95891687 95891734 1.020000e-10 78.7
8 TraesCS3B01G059500 chr3D 90.723 1757 98 25 958 2703 19302379 19300677 0.000000e+00 2281.0
9 TraesCS3B01G059500 chr3D 84.888 2144 209 64 306 2413 19286613 19288677 0.000000e+00 2058.0
10 TraesCS3B01G059500 chr3D 90.881 965 64 13 1 959 19303357 19302411 0.000000e+00 1273.0
11 TraesCS3B01G059500 chr3D 89.750 839 61 15 1 835 19308818 19308001 0.000000e+00 1050.0
12 TraesCS3B01G059500 chr3D 87.121 396 37 7 3032 3426 19300224 19299842 1.460000e-118 436.0
13 TraesCS3B01G059500 chr2A 88.797 482 48 5 1272 1749 28200529 28200050 1.370000e-163 586.0
14 TraesCS3B01G059500 chr2A 87.560 209 25 1 1541 1749 690320635 690320428 1.230000e-59 241.0
15 TraesCS3B01G059500 chr2D 94.375 160 9 0 1420 1579 613336810 613336651 2.650000e-61 246.0
16 TraesCS3B01G059500 chr1A 91.250 160 14 0 1420 1579 497924740 497924581 5.770000e-53 219.0
17 TraesCS3B01G059500 chr7B 92.105 152 9 1 1420 1571 635886512 635886660 9.660000e-51 211.0
18 TraesCS3B01G059500 chr5A 96.970 33 1 0 21 53 41166271 41166239 4.790000e-04 56.5


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 TraesCS3B01G059500 chr3B 31065764 31069198 3434 True 6344.0 6344 100.0000 1 3435 1 chr3B.!!$R1 3434
1 TraesCS3B01G059500 chr3B 31057809 31060026 2217 False 1207.0 2098 84.3855 292 2590 2 chr3B.!!$F1 2298
2 TraesCS3B01G059500 chr3A 26870160 26873353 3193 True 2005.5 3421 89.7315 1 3324 2 chr3A.!!$R1 3323
3 TraesCS3B01G059500 chr3A 26828636 26831714 3078 False 1639.5 2892 89.3080 963 3435 2 chr3A.!!$F2 2472
4 TraesCS3B01G059500 chr3D 19286613 19288677 2064 False 2058.0 2058 84.8880 306 2413 1 chr3D.!!$F1 2107
5 TraesCS3B01G059500 chr3D 19299842 19303357 3515 True 1330.0 2281 89.5750 1 3426 3 chr3D.!!$R2 3425
6 TraesCS3B01G059500 chr3D 19308001 19308818 817 True 1050.0 1050 89.7500 1 835 1 chr3D.!!$R1 834

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
187 189 0.036765 CCTGTTGCAATGCATTGGCT 60.037 50.0 34.23 1.8 38.76 4.75 F
1306 1383 0.692419 ACTCCTTCGAGCCCATCCAT 60.692 55.0 0.00 0.0 40.03 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1604 1687 0.902984 TAGTCCATGTGGCAGACGGT 60.903 55.0 0.0 0.0 35.65 4.83 R
3234 4192 0.028902 GCAACCTTCGTGCGTTTTCT 59.971 50.0 0.0 0.0 31.20 2.52 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
100 102 9.421806 TCACATGCAGAAATTTATTTGGTAAAG 57.578 29.630 0.00 0.00 35.83 1.85
187 189 0.036765 CCTGTTGCAATGCATTGGCT 60.037 50.000 34.23 1.80 38.76 4.75
236 238 9.606631 TTTTGAAAACATAGCCATTGTTTAAGT 57.393 25.926 9.00 0.00 44.32 2.24
249 251 2.303175 GTTTAAGTGCCCTGTGGTGAA 58.697 47.619 0.00 0.00 0.00 3.18
268 270 3.011369 TGAAGGAGGCTGAGTAGAGGTTA 59.989 47.826 0.00 0.00 0.00 2.85
282 284 0.818296 AGGTTAGTGCGAGCTGTAGG 59.182 55.000 0.00 0.00 0.00 3.18
389 395 7.539712 AATTACATTCAGATCCTACAACACG 57.460 36.000 0.00 0.00 0.00 4.49
413 419 2.287668 GCGACGACTATAAGCACTGGAT 60.288 50.000 0.00 0.00 0.00 3.41
449 455 9.736023 GAACACAAACTCAAAGTTCATCTAATT 57.264 29.630 0.00 0.00 37.47 1.40
476 482 1.187567 AGCCCAAAGTTGACATGGCC 61.188 55.000 0.00 0.00 39.72 5.36
547 553 6.843333 TGGGATGAAGACTGAAGAGATTAGAT 59.157 38.462 0.00 0.00 0.00 1.98
548 554 7.346698 TGGGATGAAGACTGAAGAGATTAGATT 59.653 37.037 0.00 0.00 0.00 2.40
549 555 7.656948 GGGATGAAGACTGAAGAGATTAGATTG 59.343 40.741 0.00 0.00 0.00 2.67
551 557 9.814899 GATGAAGACTGAAGAGATTAGATTGAA 57.185 33.333 0.00 0.00 0.00 2.69
553 559 9.650539 TGAAGACTGAAGAGATTAGATTGAAAG 57.349 33.333 0.00 0.00 0.00 2.62
554 560 9.868277 GAAGACTGAAGAGATTAGATTGAAAGA 57.132 33.333 0.00 0.00 0.00 2.52
555 561 9.651913 AAGACTGAAGAGATTAGATTGAAAGAC 57.348 33.333 0.00 0.00 0.00 3.01
556 562 9.034800 AGACTGAAGAGATTAGATTGAAAGACT 57.965 33.333 0.00 0.00 0.00 3.24
557 563 9.086336 GACTGAAGAGATTAGATTGAAAGACTG 57.914 37.037 0.00 0.00 0.00 3.51
558 564 7.548780 ACTGAAGAGATTAGATTGAAAGACTGC 59.451 37.037 0.00 0.00 0.00 4.40
602 608 1.458445 CTGCTGGATATGCGTCAATCG 59.542 52.381 0.00 0.00 43.12 3.34
890 920 1.526225 GCCCCCGATTGCCTTCTAC 60.526 63.158 0.00 0.00 0.00 2.59
897 927 4.451900 CCCGATTGCCTTCTACAAATACT 58.548 43.478 0.00 0.00 0.00 2.12
898 928 5.454187 CCCCGATTGCCTTCTACAAATACTA 60.454 44.000 0.00 0.00 0.00 1.82
899 929 5.465724 CCCGATTGCCTTCTACAAATACTAC 59.534 44.000 0.00 0.00 0.00 2.73
926 956 3.041211 TCCAGATACATCTTCCCCACAG 58.959 50.000 0.00 0.00 34.22 3.66
935 965 4.264532 ACATCTTCCCCACAGAAATCCAAT 60.265 41.667 0.00 0.00 0.00 3.16
1013 1082 1.133199 CCTAGCCATGTCTCCCTCTCT 60.133 57.143 0.00 0.00 0.00 3.10
1035 1104 3.554342 CTGCCCTCCCGGATCCTG 61.554 72.222 10.75 2.58 0.00 3.86
1109 1180 1.192534 CTTCGTCGGTGAGTTTCTTGC 59.807 52.381 0.00 0.00 0.00 4.01
1138 1210 2.170166 TCATCCATGTTGGGAAAGTGC 58.830 47.619 0.00 0.00 41.12 4.40
1165 1237 3.815809 TCGTTGGAACTTGGAAGAATGT 58.184 40.909 0.00 0.00 0.00 2.71
1306 1383 0.692419 ACTCCTTCGAGCCCATCCAT 60.692 55.000 0.00 0.00 40.03 3.41
1318 1395 1.452651 CATCCATGGCGTGCTCCTT 60.453 57.895 6.96 0.00 0.00 3.36
1474 1554 0.847373 ACTCCATCGAGCTCCTCCTA 59.153 55.000 8.47 0.00 40.03 2.94
1643 1726 2.340809 CCAACTACGACGGGCACA 59.659 61.111 0.00 0.00 0.00 4.57
1703 1786 4.415332 GGTTCGCCGAGTCGCTGA 62.415 66.667 7.12 3.78 0.00 4.26
1828 1911 1.582968 GTTCTACGACCCTGACGCA 59.417 57.895 0.00 0.00 0.00 5.24
1843 1926 2.437002 GCATACAACCCCGGCGAA 60.437 61.111 9.30 0.00 0.00 4.70
2041 2124 2.867472 CCGGCGACATTGAACCAC 59.133 61.111 9.30 0.00 0.00 4.16
2118 2201 2.683362 TGTACATGTTCGGCAACAACAA 59.317 40.909 2.30 0.00 45.78 2.83
2120 2203 1.474478 ACATGTTCGGCAACAACAACA 59.526 42.857 0.00 0.00 45.78 3.33
2439 2539 2.737180 CCTGCACGAGTGACCTGT 59.263 61.111 7.50 0.00 0.00 4.00
2440 2540 1.665916 CCTGCACGAGTGACCTGTG 60.666 63.158 7.50 0.94 36.70 3.66
2443 2543 3.406361 CACGAGTGACCTGTGCGC 61.406 66.667 0.00 0.00 0.00 6.09
2530 2638 6.405397 GGCATCCTGAATTAATTAAACCGTGT 60.405 38.462 1.21 0.00 0.00 4.49
2531 2639 6.472163 GCATCCTGAATTAATTAAACCGTGTG 59.528 38.462 1.21 0.00 0.00 3.82
2552 2663 0.798159 TGTTGATGCATGTCACTCGC 59.202 50.000 2.46 0.00 0.00 5.03
2581 2692 7.280205 AGTGTTACTAGTTGACTTTGTTTCTGG 59.720 37.037 0.00 0.00 0.00 3.86
2611 2723 2.599216 GCATCTAGCCGCTGACTTC 58.401 57.895 2.16 0.00 37.23 3.01
2658 2770 7.542534 AGAGAGTAAGTAGTGTAGATCGTTG 57.457 40.000 0.00 0.00 0.00 4.10
2671 2783 3.270877 AGATCGTTGGTAATTGAGGTGC 58.729 45.455 0.00 0.00 0.00 5.01
2692 2804 3.474600 CCATTCTGATCCAGTGGTCATC 58.525 50.000 9.54 6.48 32.61 2.92
2751 2863 6.740002 CACAGTTTCTTCATCGAATTAGCTTG 59.260 38.462 0.00 0.00 0.00 4.01
2756 2868 6.834959 TCTTCATCGAATTAGCTTGATGAC 57.165 37.500 12.07 0.00 44.89 3.06
2762 2874 5.037385 TCGAATTAGCTTGATGACGAAGAG 58.963 41.667 0.00 0.00 0.00 2.85
2763 2875 4.208047 CGAATTAGCTTGATGACGAAGAGG 59.792 45.833 0.00 0.00 0.00 3.69
2764 2876 3.526931 TTAGCTTGATGACGAAGAGGG 57.473 47.619 0.00 0.00 0.00 4.30
2790 2902 6.442513 AATATGAAGCTACTTTTCCACTGC 57.557 37.500 0.00 0.00 0.00 4.40
2819 2931 1.802636 CGATGATGTTGGTGCACCC 59.197 57.895 32.62 18.79 34.29 4.61
2820 2932 1.802636 GATGATGTTGGTGCACCCG 59.197 57.895 32.62 0.00 35.15 5.28
2838 2950 2.785258 CGGCTCGGCTTGCTTTAC 59.215 61.111 0.00 0.00 0.00 2.01
2849 2961 4.610680 CGGCTTGCTTTACTGTTTGTAGTC 60.611 45.833 0.00 0.00 32.08 2.59
2853 2965 5.398176 TGCTTTACTGTTTGTAGTCGTTG 57.602 39.130 0.00 0.00 32.08 4.10
2857 2969 6.842780 GCTTTACTGTTTGTAGTCGTTGTTAC 59.157 38.462 0.00 0.00 32.08 2.50
2861 2973 9.284363 TTACTGTTTGTAGTCGTTGTTACGTGC 62.284 40.741 0.00 0.00 39.37 5.34
2919 3031 6.554334 TGTTCTTTATGCTACCTTGACAAC 57.446 37.500 0.00 0.00 0.00 3.32
2920 3032 6.296026 TGTTCTTTATGCTACCTTGACAACT 58.704 36.000 0.00 0.00 0.00 3.16
2935 3092 9.314321 ACCTTGACAACTAATAAATAGATCGTG 57.686 33.333 0.00 0.00 35.47 4.35
3021 3186 2.680841 CAAGTTCCGTTCTGAAACCACA 59.319 45.455 0.00 0.00 31.27 4.17
3086 3417 3.945434 GCCGCATCTGCATGACGG 61.945 66.667 14.75 14.75 45.23 4.79
3113 4071 8.660373 CAGGAAAAGAGTAGTATAGCAAAGTTG 58.340 37.037 0.00 0.00 0.00 3.16
3182 4140 2.158842 CCTAGGAGCTTCATTCAGGGTG 60.159 54.545 1.05 0.00 0.00 4.61
3203 4161 2.549349 GGTTGCCAACTAACTTCGGAGA 60.549 50.000 7.62 0.00 0.00 3.71
3217 4175 2.791655 TCGGAGAAGAACTGCTAGTGA 58.208 47.619 0.00 0.00 34.75 3.41
3234 4192 2.927856 ACACCCTGATGTGCCGGA 60.928 61.111 5.05 0.00 39.93 5.14
3240 4198 0.804989 CCTGATGTGCCGGAGAAAAC 59.195 55.000 5.05 0.00 0.00 2.43
3248 4206 1.491563 CCGGAGAAAACGCACGAAG 59.508 57.895 0.00 0.00 0.00 3.79
3250 4208 1.219522 CGGAGAAAACGCACGAAGGT 61.220 55.000 0.00 0.00 0.00 3.50
3251 4209 0.942252 GGAGAAAACGCACGAAGGTT 59.058 50.000 0.00 0.00 0.00 3.50
3252 4210 1.333791 GGAGAAAACGCACGAAGGTTG 60.334 52.381 0.00 0.00 0.00 3.77
3253 4211 0.028902 AGAAAACGCACGAAGGTTGC 59.971 50.000 0.00 0.00 0.00 4.17
3255 4213 0.248458 AAAACGCACGAAGGTTGCAG 60.248 50.000 0.00 0.00 0.00 4.41
3257 4215 3.349006 CGCACGAAGGTTGCAGCT 61.349 61.111 0.00 0.00 0.00 4.24
3258 4216 2.558313 GCACGAAGGTTGCAGCTC 59.442 61.111 0.00 0.00 0.00 4.09
3259 4217 1.963338 GCACGAAGGTTGCAGCTCT 60.963 57.895 0.00 0.00 0.00 4.09
3271 4229 1.094073 GCAGCTCTACATGGTGGCAG 61.094 60.000 0.00 0.00 33.98 4.85
3324 4282 3.503363 CACTTGGCTAGCAGGCGC 61.503 66.667 18.24 0.00 44.78 6.53
3326 4284 2.747460 CTTGGCTAGCAGGCGCAA 60.747 61.111 18.24 9.94 44.78 4.85
3327 4285 2.282110 TTGGCTAGCAGGCGCAAA 60.282 55.556 18.24 0.00 44.78 3.68
3346 4304 7.132694 CGCAAAGCAAGATATATATCACCAA 57.867 36.000 21.95 0.00 35.17 3.67
3375 4333 2.206750 TGAGTGTTCAACAGTAACGCC 58.793 47.619 0.00 0.00 37.93 5.68
3397 4355 2.226912 AGATCTGAGCGATAACTACGGC 59.773 50.000 0.00 0.00 30.84 5.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 9.869757 GATTTTATTTGGTAAGCACTTATTGGT 57.130 29.630 0.00 0.00 37.63 3.67
215 217 5.931724 GGCACTTAAACAATGGCTATGTTTT 59.068 36.000 20.53 7.18 45.97 2.43
236 238 2.528818 CCTCCTTCACCACAGGGCA 61.529 63.158 0.00 0.00 37.90 5.36
249 251 2.583566 ACTAACCTCTACTCAGCCTCCT 59.416 50.000 0.00 0.00 0.00 3.69
268 270 2.888863 GCTCCTACAGCTCGCACT 59.111 61.111 0.00 0.00 45.83 4.40
299 303 6.919721 TGAATAGATTGAAACTTTTTCCGGG 58.080 36.000 0.00 0.00 0.00 5.73
389 395 3.289911 CAGTGCTTATAGTCGTCGCTAC 58.710 50.000 0.00 0.00 0.00 3.58
413 419 1.144276 TTTGTGTTCGGGTCGCTCA 59.856 52.632 0.00 0.00 0.00 4.26
449 455 4.724399 TGTCAACTTTGGGCTCTATTTGA 58.276 39.130 0.00 0.00 0.00 2.69
504 510 9.868277 TTCATCCCACAATCACATAAAAATTAC 57.132 29.630 0.00 0.00 0.00 1.89
506 512 8.814931 TCTTCATCCCACAATCACATAAAAATT 58.185 29.630 0.00 0.00 0.00 1.82
686 696 1.694150 CAGACACCAGAGGTCAAAGGA 59.306 52.381 0.00 0.00 37.74 3.36
890 920 7.215719 TGTATCTGGATCGAGGTAGTATTTG 57.784 40.000 4.78 0.00 0.00 2.32
897 927 5.010933 GGAAGATGTATCTGGATCGAGGTA 58.989 45.833 4.78 0.00 37.19 3.08
898 928 3.829601 GGAAGATGTATCTGGATCGAGGT 59.170 47.826 4.78 0.00 37.19 3.85
899 929 3.194542 GGGAAGATGTATCTGGATCGAGG 59.805 52.174 4.78 0.00 37.19 4.63
926 956 9.358872 GAGATCTTGTTGGTTTTATTGGATTTC 57.641 33.333 0.00 0.00 0.00 2.17
935 965 5.701224 AGGTTGGAGATCTTGTTGGTTTTA 58.299 37.500 0.00 0.00 0.00 1.52
974 1039 1.115467 GCTAGCTACCTCTTGCCTCA 58.885 55.000 7.70 0.00 0.00 3.86
1109 1180 3.630769 CCCAACATGGATGAAGTGATGAG 59.369 47.826 0.00 0.00 40.96 2.90
1138 1210 2.778299 TCCAAGTTCCAACGAATCCAG 58.222 47.619 0.00 0.00 0.00 3.86
1165 1237 3.747854 TGCAAATGTCAGCAATTGGAA 57.252 38.095 7.72 0.00 33.83 3.53
1285 1362 1.330655 GGATGGGCTCGAAGGAGTCA 61.331 60.000 0.00 0.00 46.95 3.41
1306 1383 4.617520 TCGCAAAGGAGCACGCCA 62.618 61.111 0.00 0.00 0.00 5.69
1318 1395 3.371097 GATGTCCTCGCCCTCGCAA 62.371 63.158 0.00 0.00 35.26 4.85
1438 1518 1.186267 AGTCCTTCTCGTGGTCCACC 61.186 60.000 16.60 0.00 0.00 4.61
1604 1687 0.902984 TAGTCCATGTGGCAGACGGT 60.903 55.000 0.00 0.00 35.65 4.83
1828 1911 2.587889 CCTTCGCCGGGGTTGTAT 59.412 61.111 19.13 0.00 0.00 2.29
1843 1926 1.693640 CCCCATGAGGAACTTGCCT 59.306 57.895 0.00 0.00 41.55 4.75
1954 2037 4.496670 GCCTTGTATGCGACGACT 57.503 55.556 0.00 0.00 0.00 4.18
2041 2124 1.061570 GCGCTGCTTCTCCATTTCG 59.938 57.895 0.00 0.00 0.00 3.46
2242 2325 3.840594 TACCCCGACGCATTCCGG 61.841 66.667 0.00 0.00 44.94 5.14
2248 2331 1.079681 GTTCATGTACCCCGACGCA 60.080 57.895 0.00 0.00 0.00 5.24
2417 2500 1.227556 GTCACTCGTGCAGGGTTGT 60.228 57.895 6.56 1.01 0.00 3.32
2439 2539 0.319040 GTTCACAGAGACAGAGCGCA 60.319 55.000 11.47 0.00 0.00 6.09
2440 2540 1.011451 GGTTCACAGAGACAGAGCGC 61.011 60.000 0.00 0.00 0.00 5.92
2441 2541 0.600557 AGGTTCACAGAGACAGAGCG 59.399 55.000 0.00 0.00 0.00 5.03
2443 2543 1.337635 GCCAGGTTCACAGAGACAGAG 60.338 57.143 0.00 0.00 0.00 3.35
2530 2638 2.674357 CGAGTGACATGCATCAACATCA 59.326 45.455 0.00 0.00 0.00 3.07
2531 2639 2.538333 GCGAGTGACATGCATCAACATC 60.538 50.000 0.00 0.00 0.00 3.06
2552 2663 6.823678 ACAAAGTCAACTAGTAACACTTCG 57.176 37.500 12.20 6.31 0.00 3.79
2560 2671 6.243216 ACCCAGAAACAAAGTCAACTAGTA 57.757 37.500 0.00 0.00 0.00 1.82
2561 2672 5.112129 ACCCAGAAACAAAGTCAACTAGT 57.888 39.130 0.00 0.00 0.00 2.57
2562 2673 4.515567 GGACCCAGAAACAAAGTCAACTAG 59.484 45.833 0.00 0.00 0.00 2.57
2581 2692 1.538419 GCTAGATGCCTTGTACGGACC 60.538 57.143 0.00 0.00 35.15 4.46
2602 2714 0.179153 TGAGCTCATCGAAGTCAGCG 60.179 55.000 13.74 0.00 36.95 5.18
2611 2723 2.346847 CGTCTTTCCTTTGAGCTCATCG 59.653 50.000 19.04 11.35 0.00 3.84
2658 2770 3.620488 TCAGAATGGCACCTCAATTACC 58.380 45.455 0.00 0.00 36.16 2.85
2671 2783 3.474600 GATGACCACTGGATCAGAATGG 58.525 50.000 0.71 2.90 36.16 3.16
2692 2804 2.965671 TAGGAGTACATACGAGGGGG 57.034 55.000 0.00 0.00 0.00 5.40
2751 2863 6.293135 GCTTCATATTTTCCCTCTTCGTCATC 60.293 42.308 0.00 0.00 0.00 2.92
2756 2868 6.284459 AGTAGCTTCATATTTTCCCTCTTCG 58.716 40.000 0.00 0.00 0.00 3.79
2764 2876 7.486232 GCAGTGGAAAAGTAGCTTCATATTTTC 59.514 37.037 0.00 0.00 38.52 2.29
2820 2932 3.124921 TAAAGCAAGCCGAGCCGC 61.125 61.111 0.00 0.00 0.00 6.53
2835 2947 6.020758 CACGTAACAACGACTACAAACAGTAA 60.021 38.462 4.76 0.00 36.85 2.24
2838 2950 4.743839 CACGTAACAACGACTACAAACAG 58.256 43.478 4.76 0.00 36.85 3.16
2849 2961 4.084745 ACATCTGTAAAGCACGTAACAACG 60.085 41.667 0.00 0.00 39.31 4.10
2853 2965 3.991773 TCCACATCTGTAAAGCACGTAAC 59.008 43.478 0.00 0.00 0.00 2.50
2857 2969 4.180817 TGTATCCACATCTGTAAAGCACG 58.819 43.478 0.00 0.00 0.00 5.34
2893 3005 5.880332 TGTCAAGGTAGCATAAAGAACATCC 59.120 40.000 0.00 0.00 0.00 3.51
3013 3178 4.004196 ACTAGCCAGTAGTTGTGGTTTC 57.996 45.455 0.00 0.00 39.06 2.78
3086 3417 6.819146 ACTTTGCTATACTACTCTTTTCCTGC 59.181 38.462 0.00 0.00 0.00 4.85
3113 4071 1.503542 CGCTTCCCATGTGACAAGC 59.496 57.895 0.00 0.00 38.31 4.01
3114 4072 1.503542 GCGCTTCCCATGTGACAAG 59.496 57.895 0.00 0.00 0.00 3.16
3116 4074 2.359850 GGCGCTTCCCATGTGACA 60.360 61.111 7.64 0.00 0.00 3.58
3161 4119 2.122768 ACCCTGAATGAAGCTCCTAGG 58.877 52.381 0.82 0.82 0.00 3.02
3182 4140 1.804748 CTCCGAAGTTAGTTGGCAACC 59.195 52.381 25.81 11.56 0.00 3.77
3203 4161 2.037772 CAGGGTGTCACTAGCAGTTCTT 59.962 50.000 2.35 0.00 0.00 2.52
3217 4175 2.927856 TCCGGCACATCAGGGTGT 60.928 61.111 0.00 0.00 40.89 4.16
3234 4192 0.028902 GCAACCTTCGTGCGTTTTCT 59.971 50.000 0.00 0.00 31.20 2.52
3240 4198 3.300667 GAGCTGCAACCTTCGTGCG 62.301 63.158 1.02 0.00 45.27 5.34
3248 4206 1.089920 CACCATGTAGAGCTGCAACC 58.910 55.000 1.02 0.00 0.00 3.77
3250 4208 0.677731 GCCACCATGTAGAGCTGCAA 60.678 55.000 1.02 0.00 0.00 4.08
3251 4209 1.078214 GCCACCATGTAGAGCTGCA 60.078 57.895 1.02 0.00 0.00 4.41
3252 4210 1.078214 TGCCACCATGTAGAGCTGC 60.078 57.895 0.00 0.00 0.00 5.25
3253 4211 0.463295 CCTGCCACCATGTAGAGCTG 60.463 60.000 0.00 0.00 0.00 4.24
3255 4213 1.821332 GCCTGCCACCATGTAGAGC 60.821 63.158 0.00 0.00 0.00 4.09
3257 4215 0.107066 CATGCCTGCCACCATGTAGA 60.107 55.000 0.00 0.00 35.33 2.59
3258 4216 1.731433 GCATGCCTGCCACCATGTAG 61.731 60.000 6.36 0.00 42.88 2.74
3259 4217 1.753848 GCATGCCTGCCACCATGTA 60.754 57.895 6.36 0.00 42.88 2.29
3315 4273 0.677731 ATCTTGCTTTGCGCCTGCTA 60.678 50.000 4.18 2.53 43.34 3.49
3324 4282 9.764870 CGAATTGGTGATATATATCTTGCTTTG 57.235 33.333 20.74 9.85 33.88 2.77
3326 4284 7.066284 GGCGAATTGGTGATATATATCTTGCTT 59.934 37.037 20.74 9.84 33.88 3.91
3327 4285 6.540189 GGCGAATTGGTGATATATATCTTGCT 59.460 38.462 20.74 4.01 33.88 3.91
3336 4294 5.469760 CACTCAATGGCGAATTGGTGATATA 59.530 40.000 17.70 0.00 45.00 0.86
3342 4300 1.909700 ACACTCAATGGCGAATTGGT 58.090 45.000 9.99 5.43 45.00 3.67
3346 4304 2.884012 TGTTGAACACTCAATGGCGAAT 59.116 40.909 0.00 0.00 43.39 3.34
3375 4333 3.816091 CCGTAGTTATCGCTCAGATCTG 58.184 50.000 17.07 17.07 40.66 2.90
3397 4355 2.421877 CTACGCTACCCTGGGATGCG 62.422 65.000 35.52 35.52 46.06 4.73
3401 4359 2.443390 GCCTACGCTACCCTGGGA 60.443 66.667 22.23 1.88 0.00 4.37


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

AutoCloner maintained by Alex Coulton.