Multiple sequence alignment - TraesCS3D01G157100

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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 TraesCS3D01G157100 chr3D 100.000 3749 0 0 1 3749 124864305 124868053 0.000000e+00 6924
1 TraesCS3D01G157100 chr3B 91.353 3666 179 75 1 3576 178926369 178929986 0.000000e+00 4887
2 TraesCS3D01G157100 chr3A 92.841 3185 138 44 1 3119 132580066 132583226 0.000000e+00 4536
3 TraesCS3D01G157100 chr3A 87.917 629 24 22 3164 3749 132583304 132583923 0.000000e+00 693
4 TraesCS3D01G157100 chr5D 81.013 158 19 6 1684 1834 488901006 488900853 8.510000e-22 115
5 TraesCS3D01G157100 chrUn 85.586 111 13 3 1711 1818 95589556 95589666 3.060000e-21 113
6 TraesCS3D01G157100 chr5A 80.255 157 20 6 1685 1834 609956143 609955991 1.420000e-19 108


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 TraesCS3D01G157100 chr3D 124864305 124868053 3748 False 6924.0 6924 100.000 1 3749 1 chr3D.!!$F1 3748
1 TraesCS3D01G157100 chr3B 178926369 178929986 3617 False 4887.0 4887 91.353 1 3576 1 chr3B.!!$F1 3575
2 TraesCS3D01G157100 chr3A 132580066 132583923 3857 False 2614.5 4536 90.379 1 3749 2 chr3A.!!$F1 3748

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
631 671 1.066757 GCTACTAGCCGTGGAACCTAC 59.933 57.143 0.0 0.0 34.48 3.18 F
1290 1345 0.548439 AGGGGTTTTAGGTAGGCCGT 60.548 55.000 0.0 0.0 40.50 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2082 2137 1.079057 GGACGGCTTCTTGGAGGAC 60.079 63.158 0.0 0.0 0.0 3.85 R
3231 3379 0.035458 CCCTCGCTCCTTTTGTCAGT 59.965 55.000 0.0 0.0 0.0 3.41 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
88 89 6.737720 TCTAGCTTCCACATCATATGAAGT 57.262 37.500 9.99 8.79 37.21 3.01
90 91 5.627182 AGCTTCCACATCATATGAAGTCT 57.373 39.130 9.99 1.66 37.21 3.24
99 100 3.717707 TCATATGAAGTCTGTTAGCGCC 58.282 45.455 2.29 0.00 0.00 6.53
111 112 2.955614 GTTAGCGCCTAACACTTCTCA 58.044 47.619 18.66 0.00 43.87 3.27
112 113 3.323243 GTTAGCGCCTAACACTTCTCAA 58.677 45.455 18.66 0.00 43.87 3.02
178 179 3.901087 TGGGCAACACATATCCCAG 57.099 52.632 0.00 0.00 43.40 4.45
184 185 3.081061 GCAACACATATCCCAGACACAA 58.919 45.455 0.00 0.00 0.00 3.33
234 235 4.870426 AGCACCTATTTCAACGTGTCATAG 59.130 41.667 0.00 0.00 0.00 2.23
263 264 2.500504 TGCTGCAAATGCCCATATTTCA 59.499 40.909 0.00 0.00 41.18 2.69
344 371 8.257306 AGCAAGAAAATCTCCAACAAAAACTAA 58.743 29.630 0.00 0.00 0.00 2.24
345 372 8.542953 GCAAGAAAATCTCCAACAAAAACTAAG 58.457 33.333 0.00 0.00 0.00 2.18
346 373 9.586435 CAAGAAAATCTCCAACAAAAACTAAGT 57.414 29.630 0.00 0.00 0.00 2.24
354 381 7.934665 TCTCCAACAAAAACTAAGTAGTATGCA 59.065 33.333 0.00 0.00 34.99 3.96
381 408 6.118852 ACATCAGCCTCTTTCTAAGAATTCC 58.881 40.000 0.65 0.00 37.02 3.01
399 426 6.611236 AGAATTCCCCTTTCTTTTCAGAAACA 59.389 34.615 0.65 0.00 42.99 2.83
520 560 1.299850 CAAGTCCGCTGACACGTGA 60.300 57.895 25.01 0.00 44.33 4.35
524 564 4.363990 CCGCTGACACGTGAGGCT 62.364 66.667 25.01 0.00 0.00 4.58
587 627 1.536907 TTTACTCCCCTGACCGGCA 60.537 57.895 0.00 0.00 0.00 5.69
631 671 1.066757 GCTACTAGCCGTGGAACCTAC 59.933 57.143 0.00 0.00 34.48 3.18
767 807 4.931002 TCACCTTCTAAAAATTACCGACGG 59.069 41.667 13.61 13.61 0.00 4.79
806 846 2.876091 TCGATTCAGATTCGCGTTTCT 58.124 42.857 5.77 6.89 36.56 2.52
890 937 3.330720 ACGAAAGGCAGGAGGGGG 61.331 66.667 0.00 0.00 0.00 5.40
1003 1050 2.293318 TGTTCCGAGCCAGGAGCAT 61.293 57.895 9.91 0.00 44.73 3.79
1102 1156 1.307866 TTCATCACCCTCCCCCTCC 60.308 63.158 0.00 0.00 0.00 4.30
1116 1170 2.679996 CTCCCCGCCCCCAAAAAG 60.680 66.667 0.00 0.00 0.00 2.27
1157 1211 1.002274 GCCTCCTCTCCTCCTTCCA 59.998 63.158 0.00 0.00 0.00 3.53
1191 1245 0.673437 CCTTTGCTTTTCGCCTTCCA 59.327 50.000 0.00 0.00 38.05 3.53
1198 1252 1.423794 TTTTCGCCTTCCACTCCCCT 61.424 55.000 0.00 0.00 0.00 4.79
1259 1314 1.595093 CCGCCTGCCTTGGGTTTTAG 61.595 60.000 0.00 0.00 0.00 1.85
1290 1345 0.548439 AGGGGTTTTAGGTAGGCCGT 60.548 55.000 0.00 0.00 40.50 5.68
2007 2062 2.362503 TCGTGCGAGGAGTCCCAT 60.363 61.111 5.25 0.00 33.88 4.00
2037 2092 2.758327 TCCCCGACATCCGTCCTG 60.758 66.667 0.00 0.00 39.11 3.86
2100 2155 1.079057 GTCCTCCAAGAAGCCGTCC 60.079 63.158 0.00 0.00 0.00 4.79
2313 2368 2.918802 TCGGCCTACAACCCGTGT 60.919 61.111 0.00 0.00 44.63 4.49
2319 2374 3.945304 CTACAACCCGTGTCCGCCC 62.945 68.421 0.00 0.00 41.98 6.13
2358 2413 3.169198 GCGGACGCCTTCTTTGAG 58.831 61.111 5.20 0.00 34.56 3.02
2364 2419 2.427506 GACGCCTTCTTTGAGGACATT 58.572 47.619 0.00 0.00 39.25 2.71
2404 2459 1.534235 CCCCTCCCCGTCATCTAGG 60.534 68.421 0.00 0.00 0.00 3.02
2424 2484 4.329392 AGGGAACAACTATAAAACACCGG 58.671 43.478 0.00 0.00 0.00 5.28
2432 2492 5.362105 ACTATAAAACACCGGATTAGGCA 57.638 39.130 9.46 0.00 33.69 4.75
2443 2503 3.764237 GGATTAGGCACCTAATTCGGA 57.236 47.619 20.25 0.00 45.88 4.55
2544 2621 4.783621 TAGCTGCCTGCCGCCAAG 62.784 66.667 0.00 0.00 44.23 3.61
2571 2648 2.185608 GCAGAGGGAAGCCTCGAC 59.814 66.667 0.00 0.00 41.31 4.20
2579 2656 2.032071 AAGCCTCGACGGGGTTTG 59.968 61.111 15.72 0.00 43.51 2.93
2581 2658 4.324991 GCCTCGACGGGGTTTGGT 62.325 66.667 16.76 0.00 0.00 3.67
2583 2660 1.228033 CCTCGACGGGGTTTGGTTT 60.228 57.895 5.30 0.00 0.00 3.27
2587 2664 1.624813 TCGACGGGGTTTGGTTTAGAT 59.375 47.619 0.00 0.00 0.00 1.98
2588 2665 1.735571 CGACGGGGTTTGGTTTAGATG 59.264 52.381 0.00 0.00 0.00 2.90
2589 2666 2.613474 CGACGGGGTTTGGTTTAGATGA 60.613 50.000 0.00 0.00 0.00 2.92
2590 2667 3.007635 GACGGGGTTTGGTTTAGATGAG 58.992 50.000 0.00 0.00 0.00 2.90
2597 2675 6.180472 GGGTTTGGTTTAGATGAGAGAATGA 58.820 40.000 0.00 0.00 0.00 2.57
2603 2681 6.183361 TGGTTTAGATGAGAGAATGAGATGGG 60.183 42.308 0.00 0.00 0.00 4.00
2610 2688 7.732140 AGATGAGAGAATGAGATGGGTGTTATA 59.268 37.037 0.00 0.00 0.00 0.98
2615 2693 6.831976 AGAATGAGATGGGTGTTATAAGTCC 58.168 40.000 0.00 0.00 0.00 3.85
2743 2825 8.071967 TGTGAATGATCGAATGAATAATGAAGC 58.928 33.333 0.00 0.00 0.00 3.86
2788 2872 8.764524 AAAAGACAGAAGAGTGTATGTATCAC 57.235 34.615 0.00 0.00 36.22 3.06
2807 2892 8.188799 TGTATCACTAGTACTACTACGTACGTT 58.811 37.037 27.92 12.33 43.42 3.99
2826 2922 1.950130 CGTTGGACCGTAACGTGCA 60.950 57.895 8.55 0.00 44.15 4.57
2996 3099 2.124151 CAGCAGCATACCACCCCC 60.124 66.667 0.00 0.00 0.00 5.40
2997 3100 2.613696 AGCAGCATACCACCCCCA 60.614 61.111 0.00 0.00 0.00 4.96
3035 3138 2.875711 CGGAAATTTGCTGGCGCG 60.876 61.111 0.00 0.00 39.65 6.86
3103 3206 7.378181 TCTGGAAAATTAAGTTGGATTTGCTC 58.622 34.615 0.00 0.28 0.00 4.26
3128 3272 3.615849 GTACGAGATTATTCGGACCGT 57.384 47.619 14.79 0.00 46.28 4.83
3138 3282 4.308458 CGGACCGTGTCTTGGGCA 62.308 66.667 5.48 0.00 35.62 5.36
3139 3283 2.351276 GGACCGTGTCTTGGGCAT 59.649 61.111 4.41 0.00 35.62 4.40
3140 3284 1.600107 GGACCGTGTCTTGGGCATA 59.400 57.895 4.41 0.00 35.62 3.14
3141 3285 0.462047 GGACCGTGTCTTGGGCATAG 60.462 60.000 4.41 0.00 35.62 2.23
3144 3288 1.066143 ACCGTGTCTTGGGCATAGAAG 60.066 52.381 0.00 0.00 0.00 2.85
3145 3289 1.207089 CCGTGTCTTGGGCATAGAAGA 59.793 52.381 0.00 0.00 0.00 2.87
3147 3291 3.334691 CGTGTCTTGGGCATAGAAGAAA 58.665 45.455 0.00 0.00 30.08 2.52
3149 3293 4.215399 CGTGTCTTGGGCATAGAAGAAAAA 59.785 41.667 0.00 0.00 30.08 1.94
3150 3294 5.461526 GTGTCTTGGGCATAGAAGAAAAAC 58.538 41.667 0.00 0.00 30.08 2.43
3151 3295 4.215399 TGTCTTGGGCATAGAAGAAAAACG 59.785 41.667 0.00 0.00 30.08 3.60
3155 3299 3.504520 TGGGCATAGAAGAAAAACGGAAC 59.495 43.478 0.00 0.00 0.00 3.62
3201 3345 4.821589 GGGCTCGGCGGTCAAGAG 62.822 72.222 7.21 0.00 35.28 2.85
3202 3346 4.070552 GGCTCGGCGGTCAAGAGT 62.071 66.667 7.21 0.00 34.69 3.24
3203 3347 2.811317 GCTCGGCGGTCAAGAGTG 60.811 66.667 7.21 0.00 34.69 3.51
3206 3350 2.154798 CTCGGCGGTCAAGAGTGGAA 62.155 60.000 7.21 0.00 0.00 3.53
3208 3352 0.673644 CGGCGGTCAAGAGTGGAATT 60.674 55.000 0.00 0.00 0.00 2.17
3224 3372 1.369091 AATTGGACGACGGCATGAGC 61.369 55.000 1.63 0.00 41.10 4.26
3225 3373 4.794439 TGGACGACGGCATGAGCG 62.794 66.667 1.63 0.72 43.41 5.03
3243 3391 0.319555 CGGAGCGACTGACAAAAGGA 60.320 55.000 0.00 0.00 0.00 3.36
3244 3392 1.433534 GGAGCGACTGACAAAAGGAG 58.566 55.000 0.00 0.00 0.00 3.69
3245 3393 0.793250 GAGCGACTGACAAAAGGAGC 59.207 55.000 0.00 0.00 0.00 4.70
3246 3394 0.946221 AGCGACTGACAAAAGGAGCG 60.946 55.000 0.00 0.00 0.00 5.03
3247 3395 0.944311 GCGACTGACAAAAGGAGCGA 60.944 55.000 0.00 0.00 0.00 4.93
3251 3399 0.321671 CTGACAAAAGGAGCGAGGGA 59.678 55.000 0.00 0.00 0.00 4.20
3252 3400 0.984230 TGACAAAAGGAGCGAGGGAT 59.016 50.000 0.00 0.00 0.00 3.85
3254 3402 2.569853 TGACAAAAGGAGCGAGGGATTA 59.430 45.455 0.00 0.00 0.00 1.75
3321 3478 3.589654 TTCTCGTGGGAAGCGCAGG 62.590 63.158 11.47 0.00 34.36 4.85
3411 3586 3.694566 GGTGTCGCAAATCCCTCTTTTAT 59.305 43.478 0.00 0.00 0.00 1.40
3578 3764 1.152922 ACACGGCCGGAAAAAGGAA 60.153 52.632 31.76 0.00 0.00 3.36
3681 3867 4.521146 CATGCTTCCTCCTTTGTGTCTAT 58.479 43.478 0.00 0.00 0.00 1.98
3693 3879 5.183904 CCTTTGTGTCTATTCTTTTGGAGGG 59.816 44.000 0.00 0.00 0.00 4.30
3694 3880 5.576563 TTGTGTCTATTCTTTTGGAGGGA 57.423 39.130 0.00 0.00 0.00 4.20
3695 3881 5.165961 TGTGTCTATTCTTTTGGAGGGAG 57.834 43.478 0.00 0.00 0.00 4.30
3716 3902 1.359459 GCGAGGTCTTTAGTTGGGCG 61.359 60.000 0.00 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
99 100 8.777865 TTAGATGGACATTTGAGAAGTGTTAG 57.222 34.615 0.00 0.00 0.00 2.34
234 235 1.081242 CATTTGCAGCACGTGGGAC 60.081 57.895 18.88 0.00 0.00 4.46
263 264 5.452078 TCCTCATTTCAATTGCGAACTTT 57.548 34.783 0.00 0.00 0.00 2.66
344 371 3.645212 AGGCTGATGTCATGCATACTACT 59.355 43.478 0.00 0.00 38.06 2.57
345 372 3.993081 GAGGCTGATGTCATGCATACTAC 59.007 47.826 0.00 0.00 38.06 2.73
346 373 3.899980 AGAGGCTGATGTCATGCATACTA 59.100 43.478 0.00 0.00 38.06 1.82
347 374 2.704596 AGAGGCTGATGTCATGCATACT 59.295 45.455 0.00 1.17 38.06 2.12
348 375 3.123157 AGAGGCTGATGTCATGCATAC 57.877 47.619 0.00 0.00 38.06 2.39
349 376 3.851458 AAGAGGCTGATGTCATGCATA 57.149 42.857 0.00 0.00 38.06 3.14
350 377 2.730934 AAGAGGCTGATGTCATGCAT 57.269 45.000 0.00 0.00 41.24 3.96
354 381 5.946942 TCTTAGAAAGAGGCTGATGTCAT 57.053 39.130 0.00 0.00 32.71 3.06
399 426 6.354477 CCTGGGGTAAATTGGGTAGTATCTTT 60.354 42.308 0.00 0.00 0.00 2.52
524 564 3.647649 CTCGACTGGCGTGGATGCA 62.648 63.158 1.46 0.00 41.80 3.96
550 590 6.500336 AGTAAAGGGTATCCTACTCTGTCAA 58.500 40.000 0.00 0.00 44.07 3.18
767 807 3.909574 TCGATTTTTCACGCGGATTTTTC 59.090 39.130 12.47 0.00 0.00 2.29
776 816 4.431389 CGAATCTGAATCGATTTTTCACGC 59.569 41.667 12.81 0.00 42.76 5.34
849 896 2.858476 TTTCCTGCTCCAGCCCCA 60.858 61.111 0.00 0.00 41.18 4.96
858 905 0.468226 TTCGTGTCACCTTTCCTGCT 59.532 50.000 0.00 0.00 0.00 4.24
890 937 5.419155 CCCCTGTTTTCTTCCTTTTCTATCC 59.581 44.000 0.00 0.00 0.00 2.59
891 938 5.419155 CCCCCTGTTTTCTTCCTTTTCTATC 59.581 44.000 0.00 0.00 0.00 2.08
1003 1050 2.539338 GCGGCGTCCTGTTGTTTGA 61.539 57.895 9.37 0.00 0.00 2.69
1102 1156 1.977009 GAGACTTTTTGGGGGCGGG 60.977 63.158 0.00 0.00 0.00 6.13
1116 1170 1.267121 TAGGGAGGTGCTGTTGAGAC 58.733 55.000 0.00 0.00 0.00 3.36
1191 1245 2.947785 ACGGAGGAGGAGGGGAGT 60.948 66.667 0.00 0.00 0.00 3.85
1259 1314 0.710588 AAACCCCTCAAGAATCCCCC 59.289 55.000 0.00 0.00 0.00 5.40
1312 1367 3.181454 ACACTCACCCTAAAACTCCACTG 60.181 47.826 0.00 0.00 0.00 3.66
1450 1505 3.414700 CTGCTCGACGCCACCAAC 61.415 66.667 4.73 0.00 38.05 3.77
1740 1795 1.944676 GATCTCCGCGGCGTACTTG 60.945 63.158 23.51 5.39 0.00 3.16
2037 2092 2.185608 GACTGAGGGAAGGAGCGC 59.814 66.667 0.00 0.00 0.00 5.92
2082 2137 1.079057 GGACGGCTTCTTGGAGGAC 60.079 63.158 0.00 0.00 0.00 3.85
2100 2155 2.811317 GCGGTGCTGGAAGACGAG 60.811 66.667 0.00 0.00 34.07 4.18
2231 2286 1.901085 GACAGGAAGTCCATCGGCT 59.099 57.895 0.00 0.00 41.56 5.52
2348 2403 3.933332 GTCGGTAATGTCCTCAAAGAAGG 59.067 47.826 0.00 0.00 37.81 3.46
2349 2404 4.822026 AGTCGGTAATGTCCTCAAAGAAG 58.178 43.478 0.00 0.00 0.00 2.85
2355 2410 4.202274 TGAAACAAGTCGGTAATGTCCTCA 60.202 41.667 0.00 0.00 0.00 3.86
2358 2413 5.427036 TTTGAAACAAGTCGGTAATGTCC 57.573 39.130 0.00 0.00 0.00 4.02
2364 2419 4.628333 GGATCGATTTGAAACAAGTCGGTA 59.372 41.667 21.82 9.96 33.46 4.02
2404 2459 6.505044 AATCCGGTGTTTTATAGTTGTTCC 57.495 37.500 0.00 0.00 0.00 3.62
2413 2469 3.053917 AGGTGCCTAATCCGGTGTTTTAT 60.054 43.478 0.00 0.00 0.00 1.40
2424 2484 4.067972 TGTCCGAATTAGGTGCCTAATC 57.932 45.455 20.13 13.71 45.37 1.75
2432 2492 6.201997 GCAAACAAAATTTGTCCGAATTAGGT 59.798 34.615 12.11 0.00 44.59 3.08
2480 2551 6.116126 ACTCTCTCTTCTCTCTCTAGAAAGC 58.884 44.000 0.00 0.00 35.14 3.51
2571 2648 3.055385 TCTCTCATCTAAACCAAACCCCG 60.055 47.826 0.00 0.00 0.00 5.73
2579 2656 6.183361 ACCCATCTCATTCTCTCATCTAAACC 60.183 42.308 0.00 0.00 0.00 3.27
2581 2658 6.385176 ACACCCATCTCATTCTCTCATCTAAA 59.615 38.462 0.00 0.00 0.00 1.85
2583 2660 5.462240 ACACCCATCTCATTCTCTCATCTA 58.538 41.667 0.00 0.00 0.00 1.98
2587 2664 7.345653 ACTTATAACACCCATCTCATTCTCTCA 59.654 37.037 0.00 0.00 0.00 3.27
2588 2665 7.731054 ACTTATAACACCCATCTCATTCTCTC 58.269 38.462 0.00 0.00 0.00 3.20
2589 2666 7.202047 GGACTTATAACACCCATCTCATTCTCT 60.202 40.741 0.00 0.00 0.00 3.10
2590 2667 6.931840 GGACTTATAACACCCATCTCATTCTC 59.068 42.308 0.00 0.00 0.00 2.87
2615 2693 1.879380 TGACAAAACCAGCGATGAAGG 59.121 47.619 0.06 0.00 0.00 3.46
2726 2808 5.356426 TCTTCGGCTTCATTATTCATTCGA 58.644 37.500 0.00 0.00 0.00 3.71
2727 2809 5.333645 CCTCTTCGGCTTCATTATTCATTCG 60.334 44.000 0.00 0.00 0.00 3.34
2738 2820 2.248248 TCTTTCTCCTCTTCGGCTTCA 58.752 47.619 0.00 0.00 0.00 3.02
2743 2825 4.727507 TTCTGATCTTTCTCCTCTTCGG 57.272 45.455 0.00 0.00 0.00 4.30
2826 2922 1.577328 CGTCGTTTCATTGCCAGCCT 61.577 55.000 0.00 0.00 0.00 4.58
2943 3039 1.554160 CCTGCCCCACATTTAATTGCA 59.446 47.619 0.00 0.00 0.00 4.08
3044 3147 5.062809 GGCAAGCTAAATCTCGCAGTATATC 59.937 44.000 0.00 0.00 0.00 1.63
3119 3256 2.738480 CCCAAGACACGGTCCGAA 59.262 61.111 20.51 0.00 32.18 4.30
3121 3258 2.233605 TATGCCCAAGACACGGTCCG 62.234 60.000 10.48 10.48 32.18 4.79
3124 3261 0.981183 TTCTATGCCCAAGACACGGT 59.019 50.000 0.00 0.00 0.00 4.83
3128 3272 4.215399 CGTTTTTCTTCTATGCCCAAGACA 59.785 41.667 0.00 0.00 0.00 3.41
3138 3282 3.671716 AGCGGTTCCGTTTTTCTTCTAT 58.328 40.909 12.81 0.00 0.00 1.98
3139 3283 3.062042 GAGCGGTTCCGTTTTTCTTCTA 58.938 45.455 12.81 0.00 0.00 2.10
3140 3284 1.871676 GAGCGGTTCCGTTTTTCTTCT 59.128 47.619 12.81 0.00 0.00 2.85
3141 3285 1.398071 CGAGCGGTTCCGTTTTTCTTC 60.398 52.381 12.81 0.00 0.00 2.87
3144 3288 1.439858 GCGAGCGGTTCCGTTTTTC 60.440 57.895 12.81 5.42 0.00 2.29
3145 3289 1.890510 AGCGAGCGGTTCCGTTTTT 60.891 52.632 12.81 0.00 0.00 1.94
3147 3291 3.041940 CAGCGAGCGGTTCCGTTT 61.042 61.111 12.81 1.92 0.00 3.60
3150 3294 4.514577 ATCCAGCGAGCGGTTCCG 62.515 66.667 6.90 6.90 0.00 4.30
3151 3295 2.586357 GATCCAGCGAGCGGTTCC 60.586 66.667 0.00 0.00 0.00 3.62
3194 3338 2.737252 GTCGTCCAATTCCACTCTTGAC 59.263 50.000 0.00 0.00 0.00 3.18
3195 3339 2.609491 CGTCGTCCAATTCCACTCTTGA 60.609 50.000 0.00 0.00 0.00 3.02
3196 3340 1.726791 CGTCGTCCAATTCCACTCTTG 59.273 52.381 0.00 0.00 0.00 3.02
3197 3341 1.337823 CCGTCGTCCAATTCCACTCTT 60.338 52.381 0.00 0.00 0.00 2.85
3198 3342 0.246635 CCGTCGTCCAATTCCACTCT 59.753 55.000 0.00 0.00 0.00 3.24
3200 3344 1.375523 GCCGTCGTCCAATTCCACT 60.376 57.895 0.00 0.00 0.00 4.00
3201 3345 1.024579 ATGCCGTCGTCCAATTCCAC 61.025 55.000 0.00 0.00 0.00 4.02
3202 3346 1.024046 CATGCCGTCGTCCAATTCCA 61.024 55.000 0.00 0.00 0.00 3.53
3203 3347 0.742990 TCATGCCGTCGTCCAATTCC 60.743 55.000 0.00 0.00 0.00 3.01
3206 3350 1.815421 GCTCATGCCGTCGTCCAAT 60.815 57.895 0.00 0.00 0.00 3.16
3208 3352 4.794439 CGCTCATGCCGTCGTCCA 62.794 66.667 0.00 0.00 35.36 4.02
3224 3372 0.319555 TCCTTTTGTCAGTCGCTCCG 60.320 55.000 0.00 0.00 0.00 4.63
3225 3373 1.433534 CTCCTTTTGTCAGTCGCTCC 58.566 55.000 0.00 0.00 0.00 4.70
3231 3379 0.035458 CCCTCGCTCCTTTTGTCAGT 59.965 55.000 0.00 0.00 0.00 3.41
3243 3391 3.713826 TGTTTTTCCTAATCCCTCGCT 57.286 42.857 0.00 0.00 0.00 4.93
3244 3392 4.457949 TCTTTGTTTTTCCTAATCCCTCGC 59.542 41.667 0.00 0.00 0.00 5.03
3245 3393 5.938125 TCTCTTTGTTTTTCCTAATCCCTCG 59.062 40.000 0.00 0.00 0.00 4.63
3246 3394 7.761038 TTCTCTTTGTTTTTCCTAATCCCTC 57.239 36.000 0.00 0.00 0.00 4.30
3247 3395 7.255977 GCTTTCTCTTTGTTTTTCCTAATCCCT 60.256 37.037 0.00 0.00 0.00 4.20
3251 3399 7.436933 CCAGCTTTCTCTTTGTTTTTCCTAAT 58.563 34.615 0.00 0.00 0.00 1.73
3252 3400 6.682861 GCCAGCTTTCTCTTTGTTTTTCCTAA 60.683 38.462 0.00 0.00 0.00 2.69
3254 3402 4.442052 GCCAGCTTTCTCTTTGTTTTTCCT 60.442 41.667 0.00 0.00 0.00 3.36
3411 3586 2.224670 ACATAGTCAAAAAGGCCCACGA 60.225 45.455 0.00 0.00 0.00 4.35
3556 3737 2.731587 CTTTTTCCGGCCGTGTGCTG 62.732 60.000 26.12 7.54 46.56 4.41
3570 3756 1.337118 TGCCCGCTTCATTCCTTTTT 58.663 45.000 0.00 0.00 0.00 1.94
3578 3764 0.464373 ATTCGACATGCCCGCTTCAT 60.464 50.000 0.00 0.00 0.00 2.57
3620 3806 0.772124 TCCTGCCCTTCTCCCTTGTT 60.772 55.000 0.00 0.00 0.00 2.83
3626 3812 1.418264 GTATCCTTCCTGCCCTTCTCC 59.582 57.143 0.00 0.00 0.00 3.71
3630 3816 2.492025 TCATGTATCCTTCCTGCCCTT 58.508 47.619 0.00 0.00 0.00 3.95
3681 3867 1.131303 TCGCCCTCCCTCCAAAAGAA 61.131 55.000 0.00 0.00 0.00 2.52
3693 3879 1.405661 CCAACTAAAGACCTCGCCCTC 60.406 57.143 0.00 0.00 0.00 4.30
3694 3880 0.613777 CCAACTAAAGACCTCGCCCT 59.386 55.000 0.00 0.00 0.00 5.19
3695 3881 0.392595 CCCAACTAAAGACCTCGCCC 60.393 60.000 0.00 0.00 0.00 6.13
3716 3902 1.654317 CTTGTCCATGCTCTCTGCTC 58.346 55.000 0.00 0.00 43.37 4.26


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

AutoCloner maintained by Alex Coulton.