Multiple sequence alignment - TraesCS6D01G145900

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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 TraesCS6D01G145900 chr6D 100.000 2650 0 0 1 2650 116362597 116359948 0.000000e+00 4894.0
1 TraesCS6D01G145900 chr6D 100.000 271 0 0 3047 3317 116359551 116359281 4.940000e-138 501.0
2 TraesCS6D01G145900 chr6D 80.531 113 14 5 2405 2512 69292836 69292945 2.740000e-11 80.5
3 TraesCS6D01G145900 chr6A 93.958 2400 92 22 1 2362 144719141 144716757 0.000000e+00 3579.0
4 TraesCS6D01G145900 chr6B 91.957 1840 104 19 706 2522 206443832 206442014 0.000000e+00 2538.0
5 TraesCS6D01G145900 chr6B 95.910 709 27 2 1 707 206444566 206443858 0.000000e+00 1147.0
6 TraesCS6D01G145900 chr6B 87.226 274 22 3 3047 3316 206441741 206441477 1.930000e-77 300.0
7 TraesCS6D01G145900 chr2B 83.471 121 11 6 2400 2514 65372079 65372196 1.630000e-18 104.0
8 TraesCS6D01G145900 chr2B 82.524 103 11 4 2405 2500 281930301 281930199 2.120000e-12 84.2
9 TraesCS6D01G145900 chr2B 80.357 112 16 5 2405 2513 361634710 361634602 2.740000e-11 80.5
10 TraesCS6D01G145900 chr1D 82.609 115 13 5 2400 2513 459524323 459524215 9.800000e-16 95.3
11 TraesCS6D01G145900 chr1D 82.609 115 13 5 2400 2513 459623740 459623848 9.800000e-16 95.3
12 TraesCS6D01G145900 chr4D 82.524 103 11 5 2405 2500 47502699 47502801 2.120000e-12 84.2
13 TraesCS6D01G145900 chr4D 80.172 116 13 7 2405 2513 226385059 226384947 9.870000e-11 78.7


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 TraesCS6D01G145900 chr6D 116359281 116362597 3316 True 2697.500000 4894 100.000000 1 3317 2 chr6D.!!$R1 3316
1 TraesCS6D01G145900 chr6A 144716757 144719141 2384 True 3579.000000 3579 93.958000 1 2362 1 chr6A.!!$R1 2361
2 TraesCS6D01G145900 chr6B 206441477 206444566 3089 True 1328.333333 2538 91.697667 1 3316 3 chr6B.!!$R1 3315

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
895 936 1.188219 TGAAGCAAGGAGGCTCGAGT 61.188 55.0 15.13 0.0 45.07 4.18 F
1039 1080 0.460459 GGTAGCGTCTTCCTTGCTCC 60.460 60.0 0.00 0.0 40.06 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2205 2270 0.167470 CTTGCAGCAATGGTCACTCG 59.833 55.0 8.67 0.0 0.0 4.18 R
2516 2588 0.669625 GGGGACACACGCTAGTTGAC 60.670 60.0 0.96 0.0 0.0 3.18 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
222 223 2.747446 CCGTGCCCATATATGCCTAAAC 59.253 50.000 7.24 0.73 0.00 2.01
545 548 4.754618 TGTGTTTGTAGCTGTACTTGATGG 59.245 41.667 0.00 0.00 0.00 3.51
659 662 9.449719 TTCTTATTAAGAAGTCCTGTTCCATTC 57.550 33.333 13.62 0.00 42.31 2.67
665 668 5.552178 AGAAGTCCTGTTCCATTCTGTAAC 58.448 41.667 0.00 0.00 0.00 2.50
668 671 6.875972 AGTCCTGTTCCATTCTGTAACTAT 57.124 37.500 0.00 0.00 0.00 2.12
709 739 8.545420 CATTTTTGACATCAAACTTTGAGGAAG 58.455 33.333 20.19 8.30 43.68 3.46
735 767 7.064609 GTGATAAACGACTCATCCTTTGAATCA 59.935 37.037 0.00 0.00 29.83 2.57
736 768 7.606073 TGATAAACGACTCATCCTTTGAATCAA 59.394 33.333 0.00 0.00 29.83 2.57
763 795 6.183360 GGCTTACTCTACAAATGTTGGATTCC 60.183 42.308 0.00 0.00 34.12 3.01
895 936 1.188219 TGAAGCAAGGAGGCTCGAGT 61.188 55.000 15.13 0.00 45.07 4.18
998 1039 2.031768 GCCGGAGAGCCATGGATC 59.968 66.667 22.68 22.68 0.00 3.36
1034 1075 0.896226 GAGGTGGTAGCGTCTTCCTT 59.104 55.000 4.67 0.00 0.00 3.36
1039 1080 0.460459 GGTAGCGTCTTCCTTGCTCC 60.460 60.000 0.00 0.00 40.06 4.70
1080 1124 2.093658 AGGCACTGGTGGTTATAAGTCG 60.094 50.000 2.84 0.00 37.18 4.18
1088 1132 3.196254 GGTGGTTATAAGTCGACCCAAGA 59.804 47.826 13.01 0.00 32.39 3.02
1415 1459 2.047179 GGTGAAGGTCGGTGCTCC 60.047 66.667 0.00 0.00 0.00 4.70
1464 1508 4.675029 CGAAGCGTCAACGGGGGT 62.675 66.667 4.54 0.00 40.23 4.95
1466 1510 1.739196 GAAGCGTCAACGGGGGTAC 60.739 63.158 4.54 0.00 40.23 3.34
1473 1521 1.276989 GTCAACGGGGGTACAATCTCA 59.723 52.381 0.00 0.00 0.00 3.27
1494 1542 1.530720 TGCGTGTAGAATGTGCAACTG 59.469 47.619 0.00 0.00 38.04 3.16
1500 1548 4.690748 GTGTAGAATGTGCAACTGCTCTAA 59.309 41.667 2.95 0.00 42.66 2.10
1512 1560 5.117584 CAACTGCTCTAATCTGATGCTCTT 58.882 41.667 0.00 0.00 0.00 2.85
1539 1588 4.432712 CCTTTTTCTCTTGGTTGTTGGTG 58.567 43.478 0.00 0.00 0.00 4.17
1565 1619 1.154073 GGCAGGACACGAGTACGAC 60.154 63.158 0.00 0.00 42.66 4.34
1730 1784 2.202440 CGCTACAGGGACGTCGTG 60.202 66.667 9.92 11.99 37.29 4.35
1817 1882 3.445096 GGAAGCCATACATTGCTCAGTTT 59.555 43.478 0.00 0.00 36.66 2.66
1818 1883 4.439289 GGAAGCCATACATTGCTCAGTTTC 60.439 45.833 0.00 0.00 36.66 2.78
1826 1891 3.003689 ACATTGCTCAGTTTCGTTTCTGG 59.996 43.478 0.00 0.00 33.13 3.86
1900 1965 4.728110 TCGAGAAGCCCGACCGGA 62.728 66.667 9.46 0.00 37.50 5.14
2121 2186 4.083862 GAGTGGCTCACCCGGGAC 62.084 72.222 32.02 14.39 34.49 4.46
2178 2243 3.321111 GGGCGGAGTAGTGATTATTCTGA 59.679 47.826 0.00 0.00 0.00 3.27
2179 2244 4.202223 GGGCGGAGTAGTGATTATTCTGAA 60.202 45.833 0.00 0.00 0.00 3.02
2212 2277 0.249398 ATAGTTGGGGCACGAGTGAC 59.751 55.000 7.50 3.58 38.06 3.67
2254 2319 0.474184 CCAGGGGACACAAGAACTGT 59.526 55.000 0.00 0.00 39.56 3.55
2290 2355 7.209475 TGATACAGCATTCGTTGATGAGATTA 58.791 34.615 12.07 1.83 44.68 1.75
2338 2408 4.320953 GCGCAAGTAAAGCAACTTATTCAC 59.679 41.667 0.30 0.00 37.61 3.18
2349 2419 4.858692 GCAACTTATTCACAATTGATGCGT 59.141 37.500 13.59 2.22 0.00 5.24
2376 2446 0.810648 TGATCGGTGCAGAAATTGGC 59.189 50.000 0.00 0.00 0.00 4.52
2386 2456 1.885887 CAGAAATTGGCGGACCTTTCA 59.114 47.619 8.23 0.00 34.20 2.69
2402 2473 4.022329 ACCTTTCAATTTTAAGTCCCGCTG 60.022 41.667 0.00 0.00 0.00 5.18
2403 2474 3.569250 TTCAATTTTAAGTCCCGCTGC 57.431 42.857 0.00 0.00 0.00 5.25
2407 2478 0.672401 TTTTAAGTCCCGCTGCCTCG 60.672 55.000 0.00 0.00 0.00 4.63
2425 2496 1.679305 GGTCTCTCGGAGGTGCTCA 60.679 63.158 4.96 0.00 31.08 4.26
2428 2499 1.606668 GTCTCTCGGAGGTGCTCATAG 59.393 57.143 4.96 0.00 31.08 2.23
2431 2502 1.457643 TCGGAGGTGCTCATAGGGG 60.458 63.158 0.00 0.00 31.08 4.79
2457 2529 4.440525 GGATGTCGTCCGTTCATAAGGTTA 60.441 45.833 0.00 0.00 37.23 2.85
2492 2564 3.926821 TGTGTGAGCGTATGTGTCTTA 57.073 42.857 0.00 0.00 0.00 2.10
2494 2566 3.254903 TGTGTGAGCGTATGTGTCTTACT 59.745 43.478 0.00 0.00 0.00 2.24
2495 2567 3.608506 GTGTGAGCGTATGTGTCTTACTG 59.391 47.826 0.00 0.00 0.00 2.74
2501 2573 4.684703 AGCGTATGTGTCTTACTGTGTTTC 59.315 41.667 0.00 0.00 0.00 2.78
2503 2575 5.388475 GCGTATGTGTCTTACTGTGTTTCTG 60.388 44.000 0.00 0.00 0.00 3.02
2504 2576 5.918576 CGTATGTGTCTTACTGTGTTTCTGA 59.081 40.000 0.00 0.00 0.00 3.27
2527 2628 1.589803 AAAAAGGCGTCAACTAGCGT 58.410 45.000 0.00 0.00 0.00 5.07
2530 2631 0.944311 AAGGCGTCAACTAGCGTGTG 60.944 55.000 0.00 0.00 0.00 3.82
2541 2642 4.699522 GCGTGTGTCCCCCTCACC 62.700 72.222 0.00 0.00 34.75 4.02
2553 2654 3.775654 CTCACCTCGCCACCCCTC 61.776 72.222 0.00 0.00 0.00 4.30
2554 2655 4.631740 TCACCTCGCCACCCCTCA 62.632 66.667 0.00 0.00 0.00 3.86
2556 2657 3.083997 ACCTCGCCACCCCTCATC 61.084 66.667 0.00 0.00 0.00 2.92
2561 2662 3.493303 GCCACCCCTCATCTCCCC 61.493 72.222 0.00 0.00 0.00 4.81
2570 2671 3.790437 CATCTCCCCTGCGTGCCT 61.790 66.667 0.00 0.00 0.00 4.75
2590 2691 3.727258 CAGTTCCCCATCCCCGCA 61.727 66.667 0.00 0.00 0.00 5.69
2598 2699 2.972505 CATCCCCGCACATACCGC 60.973 66.667 0.00 0.00 0.00 5.68
2604 2705 4.508128 CGCACATACCGCCGTCCT 62.508 66.667 0.00 0.00 0.00 3.85
2606 2707 2.461110 GCACATACCGCCGTCCTTG 61.461 63.158 0.00 0.00 0.00 3.61
2611 2712 0.683504 ATACCGCCGTCCTTGTCTCT 60.684 55.000 0.00 0.00 0.00 3.10
2618 2719 0.453793 CGTCCTTGTCTCTCTCGCAT 59.546 55.000 0.00 0.00 0.00 4.73
2636 2737 3.553715 CGCATGCCTATGTGTATCTCACT 60.554 47.826 13.15 0.00 46.27 3.41
3069 3170 0.111061 TGCAACATCTCCAGCCACTT 59.889 50.000 0.00 0.00 0.00 3.16
3071 3172 0.524862 CAACATCTCCAGCCACTTGC 59.475 55.000 0.00 0.00 41.71 4.01
3080 3181 1.073199 AGCCACTTGCAGTACACCC 59.927 57.895 0.00 0.00 44.83 4.61
3099 3200 0.179073 CCCCTATTGCAGTGTCTCCG 60.179 60.000 0.00 0.00 0.00 4.63
3106 3207 2.617274 GCAGTGTCTCCGGCAAACC 61.617 63.158 0.00 0.00 0.00 3.27
3132 3233 2.833533 GCAACAAGCACGGTCAGCA 61.834 57.895 0.00 0.00 44.79 4.41
3137 3238 0.040958 CAAGCACGGTCAGCAAACTC 60.041 55.000 0.00 0.00 0.00 3.01
3138 3239 0.179045 AAGCACGGTCAGCAAACTCT 60.179 50.000 0.00 0.00 0.00 3.24
3139 3240 0.179045 AGCACGGTCAGCAAACTCTT 60.179 50.000 0.00 0.00 0.00 2.85
3140 3241 0.235926 GCACGGTCAGCAAACTCTTC 59.764 55.000 0.00 0.00 0.00 2.87
3141 3242 1.871080 CACGGTCAGCAAACTCTTCT 58.129 50.000 0.00 0.00 0.00 2.85
3142 3243 2.213499 CACGGTCAGCAAACTCTTCTT 58.787 47.619 0.00 0.00 0.00 2.52
3143 3244 2.032549 CACGGTCAGCAAACTCTTCTTG 60.033 50.000 0.00 0.00 0.00 3.02
3144 3245 1.532868 CGGTCAGCAAACTCTTCTTGG 59.467 52.381 0.00 0.00 0.00 3.61
3148 3249 2.880890 TCAGCAAACTCTTCTTGGCTTC 59.119 45.455 0.00 0.00 0.00 3.86
3177 3278 1.631388 TCTTTGATGACCGCCCCTTTA 59.369 47.619 0.00 0.00 0.00 1.85
3193 3294 1.597663 CTTTATCGCATCCCCGTCAAC 59.402 52.381 0.00 0.00 0.00 3.18
3207 3308 0.747852 GTCAACCGCCCTTTTTCCAA 59.252 50.000 0.00 0.00 0.00 3.53
3208 3309 1.343142 GTCAACCGCCCTTTTTCCAAT 59.657 47.619 0.00 0.00 0.00 3.16
3218 3319 4.081476 GCCCTTTTTCCAATAAGCATGACT 60.081 41.667 0.00 0.00 0.00 3.41
3239 3340 2.749441 GAGCCTCCCTTGCAGCAC 60.749 66.667 0.00 0.00 0.00 4.40
3241 3342 3.060615 GCCTCCCTTGCAGCACTG 61.061 66.667 0.00 0.00 0.00 3.66
3272 3373 2.200370 ACCTCTCGTGACCACCCA 59.800 61.111 0.00 0.00 0.00 4.51
3289 3394 2.274437 CCCAGTTGTGATCATGACTCG 58.726 52.381 0.00 0.00 0.00 4.18
3298 3403 2.159240 TGATCATGACTCGAAAGACCCG 60.159 50.000 0.00 0.00 35.39 5.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
159 160 4.201920 GCAGCAGTAAACTATTAACAGGCC 60.202 45.833 0.00 0.00 0.00 5.19
203 204 4.034285 AGGTTTAGGCATATATGGGCAC 57.966 45.455 14.51 0.00 0.00 5.01
222 223 3.844804 AGTTCCCTGGGAAGTAGTTTAGG 59.155 47.826 30.14 0.00 42.84 2.69
442 444 2.032549 GGATTGCGGTTGATGAAGATCG 60.033 50.000 0.00 0.00 0.00 3.69
443 445 3.209410 AGGATTGCGGTTGATGAAGATC 58.791 45.455 0.00 0.00 0.00 2.75
545 548 2.850647 CGTACGCTACTGCCTAGAAAAC 59.149 50.000 0.52 0.00 35.36 2.43
701 704 5.462530 TGAGTCGTTTATCACTTCCTCAA 57.537 39.130 0.00 0.00 0.00 3.02
709 739 6.721571 TTCAAAGGATGAGTCGTTTATCAC 57.278 37.500 0.00 0.00 39.64 3.06
720 750 5.593679 AAGCCATTGATTCAAAGGATGAG 57.406 39.130 21.68 4.14 39.77 2.90
735 767 6.245408 TCCAACATTTGTAGAGTAAGCCATT 58.755 36.000 0.00 0.00 0.00 3.16
736 768 5.815581 TCCAACATTTGTAGAGTAAGCCAT 58.184 37.500 0.00 0.00 0.00 4.40
784 816 0.753111 GAGGCGCAGGGAATCCAAAT 60.753 55.000 10.83 0.00 34.83 2.32
840 881 5.562298 TTACTAGGAGCCAAGTTTTCTGT 57.438 39.130 0.00 0.00 0.00 3.41
895 936 2.944094 GCAGGGATTTAAAAGGGAGCGA 60.944 50.000 0.00 0.00 0.00 4.93
998 1039 1.171308 CTCTGTGGAAGCAACCATGG 58.829 55.000 11.19 11.19 42.17 3.66
1039 1080 3.291383 TTCTGCGGGGCAAAACGG 61.291 61.111 0.00 0.00 38.41 4.44
1080 1124 2.289565 GATCGGATGGTTTCTTGGGTC 58.710 52.381 0.00 0.00 0.00 4.46
1088 1132 3.777522 AGAAGAAGAGGATCGGATGGTTT 59.222 43.478 0.00 0.00 42.67 3.27
1463 1507 5.520288 ACATTCTACACGCATGAGATTGTAC 59.480 40.000 2.50 0.00 33.99 2.90
1464 1508 5.519927 CACATTCTACACGCATGAGATTGTA 59.480 40.000 2.50 1.64 33.99 2.41
1466 1510 4.784394 GCACATTCTACACGCATGAGATTG 60.784 45.833 2.50 2.91 0.00 2.67
1473 1521 2.160219 CAGTTGCACATTCTACACGCAT 59.840 45.455 0.00 0.00 31.67 4.73
1494 1542 3.740321 CCGAAAGAGCATCAGATTAGAGC 59.260 47.826 0.00 0.00 37.82 4.09
1500 1548 0.835941 AGGCCGAAAGAGCATCAGAT 59.164 50.000 0.00 0.00 37.82 2.90
1512 1560 2.358322 ACCAAGAGAAAAAGGCCGAA 57.642 45.000 0.00 0.00 0.00 4.30
1565 1619 1.063006 CCGCTCAAATGTGGCATCG 59.937 57.895 0.00 0.00 0.00 3.84
1801 1866 5.791974 CAGAAACGAAACTGAGCAATGTATG 59.208 40.000 0.00 0.00 36.38 2.39
1817 1882 1.601903 GCACACATCAACCAGAAACGA 59.398 47.619 0.00 0.00 0.00 3.85
1818 1883 1.333308 TGCACACATCAACCAGAAACG 59.667 47.619 0.00 0.00 0.00 3.60
1826 1891 1.244019 GGACCCCTGCACACATCAAC 61.244 60.000 0.00 0.00 0.00 3.18
1900 1965 0.538516 AGCGCCATCTCGTAGATCCT 60.539 55.000 2.29 0.00 31.32 3.24
2205 2270 0.167470 CTTGCAGCAATGGTCACTCG 59.833 55.000 8.67 0.00 0.00 4.18
2212 2277 3.853831 TTCATACACTTGCAGCAATGG 57.146 42.857 8.67 6.46 0.00 3.16
2254 2319 6.015095 ACGAATGCTGTATCATATCCAAGAGA 60.015 38.462 0.00 0.00 0.00 3.10
2262 2327 7.381323 TCTCATCAACGAATGCTGTATCATAT 58.619 34.615 0.00 0.00 0.00 1.78
2263 2328 6.748132 TCTCATCAACGAATGCTGTATCATA 58.252 36.000 0.00 0.00 0.00 2.15
2290 2355 3.550820 TGCTTACATCACAACAGTTGGT 58.449 40.909 17.76 8.02 34.12 3.67
2323 2393 6.089820 CGCATCAATTGTGAATAAGTTGCTTT 59.910 34.615 5.13 0.00 38.12 3.51
2338 2408 2.124122 CATGGCATCACGCATCAATTG 58.876 47.619 0.00 0.00 45.17 2.32
2349 2419 0.816421 CTGCACCGATCATGGCATCA 60.816 55.000 0.00 0.00 35.45 3.07
2376 2446 4.379082 CGGGACTTAAAATTGAAAGGTCCG 60.379 45.833 15.17 15.17 36.67 4.79
2386 2456 2.092323 GAGGCAGCGGGACTTAAAATT 58.908 47.619 0.00 0.00 31.94 1.82
2402 2473 3.213402 CCTCCGAGAGACCGAGGC 61.213 72.222 0.00 0.00 0.00 4.70
2403 2474 2.115911 CACCTCCGAGAGACCGAGG 61.116 68.421 0.00 0.79 38.88 4.63
2407 2478 1.040339 ATGAGCACCTCCGAGAGACC 61.040 60.000 0.00 0.00 0.00 3.85
2408 2479 1.606668 CTATGAGCACCTCCGAGAGAC 59.393 57.143 0.00 0.00 0.00 3.36
2412 2483 1.467678 CCCCTATGAGCACCTCCGAG 61.468 65.000 0.00 0.00 0.00 4.63
2419 2490 2.300437 GACATCCTACCCCTATGAGCAC 59.700 54.545 0.00 0.00 0.00 4.40
2425 2496 1.547223 CGGACGACATCCTACCCCTAT 60.547 57.143 0.00 0.00 46.69 2.57
2428 2499 1.325476 AACGGACGACATCCTACCCC 61.325 60.000 0.00 0.00 46.69 4.95
2431 2502 2.865343 ATGAACGGACGACATCCTAC 57.135 50.000 0.00 0.00 46.69 3.18
2457 2529 7.658261 ACGCTCACACATATATACATACACTT 58.342 34.615 0.00 0.00 0.00 3.16
2477 2549 3.834610 ACACAGTAAGACACATACGCTC 58.165 45.455 0.00 0.00 0.00 5.03
2512 2584 1.372997 CACACGCTAGTTGACGCCT 60.373 57.895 0.96 0.00 0.00 5.52
2514 2586 1.615107 GGACACACGCTAGTTGACGC 61.615 60.000 0.96 0.00 0.00 5.19
2515 2587 1.007336 GGGACACACGCTAGTTGACG 61.007 60.000 0.96 0.00 0.00 4.35
2516 2588 0.669625 GGGGACACACGCTAGTTGAC 60.670 60.000 0.96 0.00 0.00 3.18
2517 2589 1.669440 GGGGACACACGCTAGTTGA 59.331 57.895 0.96 0.00 0.00 3.18
2518 2590 1.375523 GGGGGACACACGCTAGTTG 60.376 63.158 0.00 0.00 0.00 3.16
2522 2623 2.118732 TGAGGGGGACACACGCTA 59.881 61.111 0.00 0.00 0.00 4.26
2527 2628 2.603473 CGAGGTGAGGGGGACACA 60.603 66.667 0.00 0.00 39.65 3.72
2541 2642 2.801631 GGAGATGAGGGGTGGCGAG 61.802 68.421 0.00 0.00 0.00 5.03
2546 2647 2.750657 GCAGGGGAGATGAGGGGTG 61.751 68.421 0.00 0.00 0.00 4.61
2550 2651 2.503061 CACGCAGGGGAGATGAGG 59.497 66.667 0.00 0.00 0.00 3.86
2551 2652 2.202987 GCACGCAGGGGAGATGAG 60.203 66.667 0.00 0.00 0.00 2.90
2552 2653 3.785859 GGCACGCAGGGGAGATGA 61.786 66.667 0.00 0.00 0.00 2.92
2553 2654 3.746949 GAGGCACGCAGGGGAGATG 62.747 68.421 0.00 0.00 0.00 2.90
2554 2655 3.474570 GAGGCACGCAGGGGAGAT 61.475 66.667 0.00 0.00 0.00 2.75
2570 2671 3.407967 GGGGATGGGGAACTGCGA 61.408 66.667 0.00 0.00 0.00 5.10
2580 2681 2.280797 CGGTATGTGCGGGGATGG 60.281 66.667 0.00 0.00 0.00 3.51
2590 2691 1.217244 GACAAGGACGGCGGTATGT 59.783 57.895 13.24 10.74 0.00 2.29
2598 2699 1.137825 GCGAGAGAGACAAGGACGG 59.862 63.158 0.00 0.00 0.00 4.79
2604 2705 1.474330 TAGGCATGCGAGAGAGACAA 58.526 50.000 12.44 0.00 0.00 3.18
2606 2707 1.339610 ACATAGGCATGCGAGAGAGAC 59.660 52.381 12.44 0.00 35.39 3.36
2611 2712 2.893489 AGATACACATAGGCATGCGAGA 59.107 45.455 12.44 0.00 35.39 4.04
3080 3181 0.179073 CGGAGACACTGCAATAGGGG 60.179 60.000 0.00 0.00 32.57 4.79
3083 3184 0.108186 TGCCGGAGACACTGCAATAG 60.108 55.000 5.05 0.00 0.00 1.73
3086 3187 1.153066 TTTGCCGGAGACACTGCAA 60.153 52.632 5.05 0.00 41.57 4.08
3124 3225 1.532868 CCAAGAAGAGTTTGCTGACCG 59.467 52.381 0.00 0.00 0.00 4.79
3128 3229 2.883386 AGAAGCCAAGAAGAGTTTGCTG 59.117 45.455 0.00 0.00 0.00 4.41
3129 3230 3.220674 AGAAGCCAAGAAGAGTTTGCT 57.779 42.857 0.00 0.00 0.00 3.91
3132 3233 3.290710 TGCAAGAAGCCAAGAAGAGTTT 58.709 40.909 0.00 0.00 44.83 2.66
3137 3238 3.255149 AGATGTTGCAAGAAGCCAAGAAG 59.745 43.478 0.00 0.00 44.83 2.85
3138 3239 3.225104 AGATGTTGCAAGAAGCCAAGAA 58.775 40.909 0.00 0.00 44.83 2.52
3139 3240 2.867624 AGATGTTGCAAGAAGCCAAGA 58.132 42.857 0.00 0.00 44.83 3.02
3140 3241 3.655276 AAGATGTTGCAAGAAGCCAAG 57.345 42.857 0.00 0.00 44.83 3.61
3141 3242 3.384146 TCAAAGATGTTGCAAGAAGCCAA 59.616 39.130 0.00 0.00 44.83 4.52
3142 3243 2.957680 TCAAAGATGTTGCAAGAAGCCA 59.042 40.909 0.00 0.00 44.83 4.75
3143 3244 3.648339 TCAAAGATGTTGCAAGAAGCC 57.352 42.857 0.00 0.00 44.83 4.35
3144 3245 4.620184 GTCATCAAAGATGTTGCAAGAAGC 59.380 41.667 0.00 0.00 45.96 3.86
3148 3249 3.495193 CGGTCATCAAAGATGTTGCAAG 58.505 45.455 0.00 0.00 0.00 4.01
3177 3278 2.189521 GGTTGACGGGGATGCGAT 59.810 61.111 0.00 0.00 0.00 4.58
3193 3294 1.548269 TGCTTATTGGAAAAAGGGCGG 59.452 47.619 0.00 0.00 0.00 6.13
3207 3308 1.967066 AGGCTCGCTAGTCATGCTTAT 59.033 47.619 0.00 0.00 0.00 1.73
3208 3309 1.338337 GAGGCTCGCTAGTCATGCTTA 59.662 52.381 0.00 0.00 0.00 3.09
3218 3319 2.683572 TGCAAGGGAGGCTCGCTA 60.684 61.111 31.11 15.58 38.84 4.26
3272 3373 4.926238 GTCTTTCGAGTCATGATCACAACT 59.074 41.667 10.75 10.75 0.00 3.16
3289 3394 0.942252 GTGGTCACAACGGGTCTTTC 59.058 55.000 0.00 0.00 0.00 2.62


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

AutoCloner maintained by Alex Coulton.