Multiple sequence alignment - TraesCS6D01G218600

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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 TraesCS6D01G218600 chr6D 100.000 3970 0 0 1 3970 308881519 308877550 0.000000e+00 7332
1 TraesCS6D01G218600 chr6B 94.080 2635 106 29 1 2600 476112498 476109879 0.000000e+00 3956
2 TraesCS6D01G218600 chr6B 86.364 704 32 26 2935 3595 476108995 476108313 0.000000e+00 710
3 TraesCS6D01G218600 chr6B 91.642 335 26 2 2601 2934 476109772 476109439 2.790000e-126 462
4 TraesCS6D01G218600 chr6B 92.562 242 11 2 3581 3816 476107500 476107260 1.370000e-89 340
5 TraesCS6D01G218600 chr6A 92.593 1863 73 26 557 2362 445580369 445582223 0.000000e+00 2615
6 TraesCS6D01G218600 chr6A 88.623 1002 52 18 2420 3393 445582224 445583191 0.000000e+00 1162
7 TraesCS6D01G218600 chr6A 93.891 442 21 3 78 514 445579931 445580371 0.000000e+00 662
8 TraesCS6D01G218600 chr6A 98.611 216 2 1 3393 3607 445584845 445585060 8.050000e-102 381
9 TraesCS6D01G218600 chr6A 92.641 231 11 1 3592 3816 445585889 445586119 1.060000e-85 327
10 TraesCS6D01G218600 chr6A 93.662 142 9 0 3813 3954 445464277 445464136 3.110000e-51 213
11 TraesCS6D01G218600 chr6A 92.958 142 9 1 3813 3954 445461709 445461569 5.200000e-49 206
12 TraesCS6D01G218600 chr7B 86.452 155 18 3 3817 3969 624789173 624789326 2.450000e-37 167
13 TraesCS6D01G218600 chr4A 86.667 150 18 2 3817 3964 725322049 725322198 8.830000e-37 165
14 TraesCS6D01G218600 chr7D 85.714 154 19 3 3817 3968 630512671 630512823 4.110000e-35 159
15 TraesCS6D01G218600 chr7D 92.157 102 7 1 3715 3816 630512431 630512531 4.140000e-30 143
16 TraesCS6D01G218600 chr3D 85.714 154 19 3 3817 3968 137489588 137489436 4.110000e-35 159
17 TraesCS6D01G218600 chr3D 84.967 153 22 1 3817 3968 522759552 522759400 1.910000e-33 154
18 TraesCS6D01G218600 chr3D 92.857 98 7 0 3719 3816 357731862 357731765 4.140000e-30 143
19 TraesCS6D01G218600 chr5B 85.065 154 22 1 3817 3969 239172732 239172579 5.310000e-34 156
20 TraesCS6D01G218600 chr2B 85.443 158 12 7 3817 3969 713920740 713920891 1.910000e-33 154
21 TraesCS6D01G218600 chr7A 92.929 99 7 0 3718 3816 475768839 475768937 1.150000e-30 145
22 TraesCS6D01G218600 chr3A 92.929 99 7 0 3718 3816 716062241 716062143 1.150000e-30 145
23 TraesCS6D01G218600 chr2D 92.857 98 7 0 3719 3816 496511064 496511161 4.140000e-30 143
24 TraesCS6D01G218600 chr2A 92.857 98 7 0 3719 3816 770918219 770918316 4.140000e-30 143
25 TraesCS6D01G218600 chr5D 90.000 110 8 3 3709 3816 542407436 542407544 5.350000e-29 139


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 TraesCS6D01G218600 chr6D 308877550 308881519 3969 True 7332.0 7332 100.0000 1 3970 1 chr6D.!!$R1 3969
1 TraesCS6D01G218600 chr6B 476107260 476112498 5238 True 1367.0 3956 91.1620 1 3816 4 chr6B.!!$R1 3815
2 TraesCS6D01G218600 chr6A 445579931 445586119 6188 False 1029.4 2615 93.2718 78 3816 5 chr6A.!!$F1 3738
3 TraesCS6D01G218600 chr6A 445461569 445464277 2708 True 209.5 213 93.3100 3813 3954 2 chr6A.!!$R1 141

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
654 666 0.385390 ACCGCCAAAGCTTTGAGTTG 59.615 50.0 35.25 21.41 40.55 3.16 F
1649 1709 0.329261 TCTACTGCTGGCCTTGCATT 59.671 50.0 20.88 18.07 39.86 3.56 F
2389 2452 0.380733 TCATACGCGCCTCAGTACTG 59.619 55.0 17.17 17.17 0.00 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2422 2485 0.037605 GACTCCGTCGGTTTCCATGT 60.038 55.000 11.88 0.50 0.00 3.21 R
2647 2816 1.469308 GGTGGCGGAGATAGTATCGAG 59.531 57.143 4.48 2.06 0.00 4.04 R
3376 4044 2.098117 CCTAAATGGAAGCAGCTTTCGG 59.902 50.000 9.62 0.00 38.35 4.30 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
42 44 1.864711 TGTGACGTTGCAGCTTTACTC 59.135 47.619 0.00 0.00 0.00 2.59
56 58 3.064134 GCTTTACTCTTCTTGATTCGGCC 59.936 47.826 0.00 0.00 0.00 6.13
110 112 2.172505 TGGTTTCTCTGTTCTTGGCTCA 59.827 45.455 0.00 0.00 0.00 4.26
130 132 0.545548 GGGGTCTCTGGGTTCAGTCT 60.546 60.000 0.00 0.00 41.59 3.24
135 137 0.827368 CTCTGGGTTCAGTCTAGGCC 59.173 60.000 0.00 0.00 41.59 5.19
351 358 3.817647 GGTGCCATTAGCCATTAAGAGAG 59.182 47.826 0.00 0.00 42.71 3.20
366 373 6.761099 TTAAGAGAGTCCATGACTACTGTC 57.239 41.667 10.19 10.19 43.53 3.51
504 511 6.260271 GTCTACTAAGTCAAAAGTTGTTGGCT 59.740 38.462 0.80 0.80 45.26 4.75
647 659 4.682778 TGAGTATATACCGCCAAAGCTT 57.317 40.909 9.32 0.00 36.60 3.74
649 661 4.814234 TGAGTATATACCGCCAAAGCTTTG 59.186 41.667 28.69 28.69 36.60 2.77
650 662 5.031066 AGTATATACCGCCAAAGCTTTGA 57.969 39.130 35.25 18.64 40.55 2.69
651 663 5.057149 AGTATATACCGCCAAAGCTTTGAG 58.943 41.667 35.25 27.04 40.55 3.02
652 664 2.200373 ATACCGCCAAAGCTTTGAGT 57.800 45.000 35.25 28.53 40.55 3.41
653 665 1.975660 TACCGCCAAAGCTTTGAGTT 58.024 45.000 35.25 21.04 40.55 3.01
654 666 0.385390 ACCGCCAAAGCTTTGAGTTG 59.615 50.000 35.25 21.41 40.55 3.16
656 668 1.480205 CGCCAAAGCTTTGAGTTGTG 58.520 50.000 35.25 22.26 40.55 3.33
657 669 1.211743 GCCAAAGCTTTGAGTTGTGC 58.788 50.000 35.25 25.23 40.55 4.57
658 670 1.471327 GCCAAAGCTTTGAGTTGTGCA 60.471 47.619 35.25 0.00 40.55 4.57
659 671 2.891112 CCAAAGCTTTGAGTTGTGCAA 58.109 42.857 35.25 0.00 40.55 4.08
660 672 2.861935 CCAAAGCTTTGAGTTGTGCAAG 59.138 45.455 35.25 14.17 40.55 4.01
661 673 2.861935 CAAAGCTTTGAGTTGTGCAAGG 59.138 45.455 31.24 1.66 40.55 3.61
662 674 2.057137 AGCTTTGAGTTGTGCAAGGA 57.943 45.000 0.00 0.00 0.00 3.36
690 723 2.481952 GCGCAACTCAGTCTCTGAAAAT 59.518 45.455 0.30 0.00 40.18 1.82
743 785 9.731819 CAATAATCATTATGATAGGCTTGCATC 57.268 33.333 8.23 0.00 35.76 3.91
753 795 0.839946 GGCTTGCATCCTCCTTCCTA 59.160 55.000 0.00 0.00 0.00 2.94
957 999 9.513727 GTGAAAAGGCTTATGTAGTAGTAGTAC 57.486 37.037 0.00 8.04 0.00 2.73
988 1030 9.277783 AGTATAAATAATGACACAAGAGGCATC 57.722 33.333 0.00 0.00 0.00 3.91
1092 1139 2.170817 GACCCTCTTAGGTTTGGCTAGG 59.829 54.545 0.00 0.00 41.42 3.02
1118 1165 6.635755 TGATTACGACACAACAATATCCTGA 58.364 36.000 0.00 0.00 0.00 3.86
1218 1265 3.403057 CACCTTGTCACGACGGCG 61.403 66.667 10.39 10.39 44.79 6.46
1304 1356 1.404315 CCTCTCGTTAGTTGTCCTGCC 60.404 57.143 0.00 0.00 0.00 4.85
1540 1597 2.581354 CAAGAGAGTGAGCGGGGG 59.419 66.667 0.00 0.00 0.00 5.40
1649 1709 0.329261 TCTACTGCTGGCCTTGCATT 59.671 50.000 20.88 18.07 39.86 3.56
1850 1910 2.201436 GAGCCGTCGAGCAACAGAGA 62.201 60.000 8.15 0.00 34.23 3.10
1930 1990 4.365505 TTCATCCCGTCACGCGCA 62.366 61.111 5.73 0.00 39.71 6.09
1956 2016 2.809174 CCGCGCAGTTCGACATCA 60.809 61.111 8.75 0.00 41.67 3.07
2244 2304 3.494626 ACATTCGTGCAACTTCTGTACAG 59.505 43.478 17.17 17.17 40.43 2.74
2254 2314 4.358494 ACTTCTGTACAGATAGCGTGTC 57.642 45.455 25.68 0.00 37.29 3.67
2273 2335 5.390251 CGTGTCGTGTACATAGTACAACTCT 60.390 44.000 11.19 0.00 41.10 3.24
2319 2381 6.038271 CACTATTAACCAAATGTCCAGCCTAC 59.962 42.308 0.00 0.00 0.00 3.18
2324 2386 0.995024 AAATGTCCAGCCTACCTGCT 59.005 50.000 0.00 0.00 44.00 4.24
2377 2440 3.179830 CAACTCCTGTAGTGTCATACGC 58.820 50.000 0.00 0.00 38.88 4.42
2389 2452 0.380733 TCATACGCGCCTCAGTACTG 59.619 55.000 17.17 17.17 0.00 2.74
2406 2469 0.900647 CTGACAGGAACCGAGGGAGT 60.901 60.000 0.00 0.00 0.00 3.85
2408 2471 0.898789 GACAGGAACCGAGGGAGTCA 60.899 60.000 0.00 0.00 0.00 3.41
2410 2473 0.905357 CAGGAACCGAGGGAGTCATT 59.095 55.000 0.00 0.00 0.00 2.57
2413 2476 2.084546 GGAACCGAGGGAGTCATTTTG 58.915 52.381 0.00 0.00 0.00 2.44
2417 2480 2.884639 ACCGAGGGAGTCATTTTGTTTG 59.115 45.455 0.00 0.00 0.00 2.93
2419 2482 4.069304 CCGAGGGAGTCATTTTGTTTGTA 58.931 43.478 0.00 0.00 0.00 2.41
2420 2483 4.154195 CCGAGGGAGTCATTTTGTTTGTAG 59.846 45.833 0.00 0.00 0.00 2.74
2422 2485 5.929992 CGAGGGAGTCATTTTGTTTGTAGTA 59.070 40.000 0.00 0.00 0.00 1.82
2423 2486 6.128634 CGAGGGAGTCATTTTGTTTGTAGTAC 60.129 42.308 0.00 0.00 0.00 2.73
2424 2487 6.597562 AGGGAGTCATTTTGTTTGTAGTACA 58.402 36.000 0.00 0.00 0.00 2.90
2478 2541 5.475719 ACACAAAGGATGCATTGATGAAAG 58.524 37.500 9.26 0.00 0.00 2.62
2531 2594 3.491208 GGCGGAGACAGACCTACTA 57.509 57.895 0.00 0.00 31.66 1.82
2580 2643 6.128090 GGCCTAGTAACATTGGACTTTGTAAC 60.128 42.308 0.00 0.00 0.00 2.50
2626 2795 7.744087 AATAACTGTACTGCATCACTCAAAA 57.256 32.000 0.00 0.00 0.00 2.44
2667 2836 1.469308 CTCGATACTATCTCCGCCACC 59.531 57.143 0.00 0.00 0.00 4.61
2713 2910 6.763135 ACGCTCATGTACTTGAACAATCATAT 59.237 34.615 12.09 0.00 34.96 1.78
2729 2926 6.377996 ACAATCATATGCAGAAAGCCTTACAA 59.622 34.615 0.00 0.00 44.83 2.41
2730 2927 7.093814 ACAATCATATGCAGAAAGCCTTACAAA 60.094 33.333 0.00 0.00 44.83 2.83
2778 2976 4.940046 AGACTACGACTAAGACATCCGAAA 59.060 41.667 0.00 0.00 0.00 3.46
2787 2985 0.300789 GACATCCGAAATCGTTCCGC 59.699 55.000 1.79 0.00 37.74 5.54
2788 2986 0.108329 ACATCCGAAATCGTTCCGCT 60.108 50.000 1.79 0.00 37.74 5.52
2792 2990 1.289109 CCGAAATCGTTCCGCTGTGT 61.289 55.000 1.79 0.00 37.74 3.72
3010 3651 9.713740 TGAATTTGAAAAATGTTAACACAATGC 57.286 25.926 11.22 1.72 36.16 3.56
3140 3782 5.221165 GGGAAAATCTGTGAAAACCGAGAAA 60.221 40.000 0.00 0.00 0.00 2.52
3141 3783 6.270064 GGAAAATCTGTGAAAACCGAGAAAA 58.730 36.000 0.00 0.00 0.00 2.29
3142 3784 6.754675 GGAAAATCTGTGAAAACCGAGAAAAA 59.245 34.615 0.00 0.00 0.00 1.94
3143 3785 7.438160 GGAAAATCTGTGAAAACCGAGAAAAAT 59.562 33.333 0.00 0.00 0.00 1.82
3144 3786 9.458374 GAAAATCTGTGAAAACCGAGAAAAATA 57.542 29.630 0.00 0.00 0.00 1.40
3145 3787 9.810545 AAAATCTGTGAAAACCGAGAAAAATAA 57.189 25.926 0.00 0.00 0.00 1.40
3146 3788 9.810545 AAATCTGTGAAAACCGAGAAAAATAAA 57.189 25.926 0.00 0.00 0.00 1.40
3147 3789 9.463443 AATCTGTGAAAACCGAGAAAAATAAAG 57.537 29.630 0.00 0.00 0.00 1.85
3148 3790 8.215926 TCTGTGAAAACCGAGAAAAATAAAGA 57.784 30.769 0.00 0.00 0.00 2.52
3149 3791 8.679100 TCTGTGAAAACCGAGAAAAATAAAGAA 58.321 29.630 0.00 0.00 0.00 2.52
3376 4044 3.414700 CTCACGTTGCGCCTCACC 61.415 66.667 4.18 0.00 0.00 4.02
3607 5930 4.233789 GCTTCCATCTCACTATAAGCGAG 58.766 47.826 0.00 0.00 31.14 5.03
3686 7058 6.434340 ACTTTTTCTTAGAAGCAATAGGGTGG 59.566 38.462 0.00 0.00 0.00 4.61
3693 7065 8.502738 TCTTAGAAGCAATAGGGTGGAAATAAT 58.497 33.333 0.00 0.00 0.00 1.28
3753 7125 6.827586 AAACAAACCTTGAACTTGTAGACA 57.172 33.333 0.00 0.00 33.05 3.41
3797 7169 3.631250 TCCCAATCCCTAAAATCAGCAC 58.369 45.455 0.00 0.00 0.00 4.40
3827 7199 7.496346 ACTCTCTAATCCCACAAATGTCTAA 57.504 36.000 0.00 0.00 0.00 2.10
3955 7327 9.679661 ATTTTCCAAACTTTTTGAATACAAGGT 57.320 25.926 0.09 0.00 37.32 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 22 0.941542 TAAAGCTGCAACGTCACACC 59.058 50.000 1.02 0.00 0.00 4.16
42 44 1.065126 AGAAGGGGCCGAATCAAGAAG 60.065 52.381 0.00 0.00 0.00 2.85
90 92 2.810852 CTGAGCCAAGAACAGAGAAACC 59.189 50.000 0.00 0.00 34.07 3.27
110 112 0.545548 GACTGAACCCAGAGACCCCT 60.546 60.000 0.00 0.00 43.02 4.79
135 137 4.494855 GCTATGAAAGAAACAAGCCTAGCG 60.495 45.833 0.00 0.00 0.00 4.26
366 373 7.922837 TGAACAGTGTGCAATATTATGATCTG 58.077 34.615 0.00 0.00 0.00 2.90
374 381 6.827251 AGAGATGATGAACAGTGTGCAATATT 59.173 34.615 8.35 0.00 0.00 1.28
524 531 5.437060 GAAGGTAATGGTTGATAGGCTTGA 58.563 41.667 0.00 0.00 0.00 3.02
647 659 4.796946 GCATCAATTCCTTGCACAACTCAA 60.797 41.667 0.00 0.00 36.40 3.02
649 661 3.248266 GCATCAATTCCTTGCACAACTC 58.752 45.455 0.00 0.00 36.40 3.01
650 662 2.352030 CGCATCAATTCCTTGCACAACT 60.352 45.455 0.00 0.00 36.15 3.16
651 663 1.987770 CGCATCAATTCCTTGCACAAC 59.012 47.619 0.00 0.00 36.15 3.32
652 664 1.669502 GCGCATCAATTCCTTGCACAA 60.670 47.619 0.30 0.00 36.15 3.33
653 665 0.109179 GCGCATCAATTCCTTGCACA 60.109 50.000 0.30 0.00 36.15 4.57
654 666 0.109179 TGCGCATCAATTCCTTGCAC 60.109 50.000 5.66 0.00 36.15 4.57
656 668 0.994263 GTTGCGCATCAATTCCTTGC 59.006 50.000 12.75 0.00 36.99 4.01
657 669 2.095110 TGAGTTGCGCATCAATTCCTTG 60.095 45.455 19.92 0.00 39.74 3.61
658 670 2.161855 TGAGTTGCGCATCAATTCCTT 58.838 42.857 19.92 0.00 39.74 3.36
659 671 1.741706 CTGAGTTGCGCATCAATTCCT 59.258 47.619 19.92 4.00 39.74 3.36
660 672 1.470098 ACTGAGTTGCGCATCAATTCC 59.530 47.619 19.92 4.94 39.74 3.01
661 673 2.417933 AGACTGAGTTGCGCATCAATTC 59.582 45.455 19.92 15.17 40.56 2.17
662 674 2.417933 GAGACTGAGTTGCGCATCAATT 59.582 45.455 19.92 7.71 36.99 2.32
721 763 6.770746 GGATGCAAGCCTATCATAATGATT 57.229 37.500 0.00 0.00 41.12 2.57
736 778 1.839994 TGGTAGGAAGGAGGATGCAAG 59.160 52.381 0.00 0.00 0.00 4.01
743 785 1.123928 AGCGAATGGTAGGAAGGAGG 58.876 55.000 0.00 0.00 0.00 4.30
988 1030 0.037303 ATGTGACTGACCTTGGCAGG 59.963 55.000 1.47 2.01 44.18 4.85
1092 1139 5.523916 AGGATATTGTTGTGTCGTAATCAGC 59.476 40.000 0.00 0.00 0.00 4.26
1118 1165 2.014010 TGCTTGGCCCAGAGAATTTT 57.986 45.000 8.31 0.00 0.00 1.82
1218 1265 0.953960 GTCCGGGTTCATGTGTGGAC 60.954 60.000 0.00 8.70 39.10 4.02
1220 1267 2.032634 CGTCCGGGTTCATGTGTGG 61.033 63.158 0.00 0.00 0.00 4.17
1304 1356 7.032580 GTGAGATTATCATCAATCCGACTAGG 58.967 42.308 0.00 0.00 40.92 3.02
1907 1967 0.388134 CGTGACGGGATGAACGAGTT 60.388 55.000 0.00 0.00 38.27 3.01
2244 2304 4.206698 ACTATGTACACGACACGCTATC 57.793 45.455 0.00 0.00 42.17 2.08
2254 2314 9.616634 TCTTTTAAGAGTTGTACTATGTACACG 57.383 33.333 9.70 0.00 0.00 4.49
2273 2335 6.554334 GTGCTAACACATGACCTCTTTTAA 57.446 37.500 0.00 0.00 46.61 1.52
2319 2381 1.003545 CGAACTTGTCACAACAGCAGG 60.004 52.381 0.00 0.00 36.57 4.85
2324 2386 5.293560 TGTATGATCGAACTTGTCACAACA 58.706 37.500 0.00 0.00 0.00 3.33
2325 2387 5.839262 TGTATGATCGAACTTGTCACAAC 57.161 39.130 0.00 0.00 0.00 3.32
2326 2388 6.162777 TCATGTATGATCGAACTTGTCACAA 58.837 36.000 0.00 0.00 0.00 3.33
2377 2440 0.888619 TTCCTGTCAGTACTGAGGCG 59.111 55.000 25.81 15.69 40.75 5.52
2389 2452 0.898789 TGACTCCCTCGGTTCCTGTC 60.899 60.000 0.00 0.00 0.00 3.51
2406 2469 8.138712 GGTTTCCATGTACTACAAACAAAATGA 58.861 33.333 0.00 0.00 0.00 2.57
2408 2471 7.013464 TCGGTTTCCATGTACTACAAACAAAAT 59.987 33.333 0.00 0.00 0.00 1.82
2410 2473 5.821470 TCGGTTTCCATGTACTACAAACAAA 59.179 36.000 0.00 0.00 0.00 2.83
2413 2476 4.143263 CGTCGGTTTCCATGTACTACAAAC 60.143 45.833 0.00 0.00 0.00 2.93
2417 2480 2.164219 TCCGTCGGTTTCCATGTACTAC 59.836 50.000 11.88 0.00 0.00 2.73
2419 2482 1.203994 CTCCGTCGGTTTCCATGTACT 59.796 52.381 11.88 0.00 0.00 2.73
2420 2483 1.067354 ACTCCGTCGGTTTCCATGTAC 60.067 52.381 11.88 0.00 0.00 2.90
2422 2485 0.037605 GACTCCGTCGGTTTCCATGT 60.038 55.000 11.88 0.50 0.00 3.21
2423 2486 0.739813 GGACTCCGTCGGTTTCCATG 60.740 60.000 21.90 5.76 32.65 3.66
2424 2487 0.903454 AGGACTCCGTCGGTTTCCAT 60.903 55.000 25.99 14.17 32.65 3.41
2647 2816 1.469308 GGTGGCGGAGATAGTATCGAG 59.531 57.143 4.48 2.06 0.00 4.04
2667 2836 2.933260 TGAGTCGATCTCTTGAGAGTCG 59.067 50.000 18.41 18.41 43.13 4.18
2690 2885 6.854892 GCATATGATTGTTCAAGTACATGAGC 59.145 38.462 6.97 7.86 34.96 4.26
2713 2910 5.373222 TCTAACTTTGTAAGGCTTTCTGCA 58.627 37.500 4.45 0.00 45.15 4.41
2787 2985 4.790123 GCACTAAGCGAGGTATAGACACAG 60.790 50.000 0.00 0.00 0.00 3.66
2788 2986 3.066342 GCACTAAGCGAGGTATAGACACA 59.934 47.826 0.00 0.00 0.00 3.72
2857 3055 3.927142 CGAACTTAGCTGAAACCTACCTG 59.073 47.826 0.00 0.00 0.00 4.00
3041 3682 9.868277 TTTTCTTCATTTCTTTTTCTAACAGCA 57.132 25.926 0.00 0.00 0.00 4.41
3110 3752 6.981559 CGGTTTTCACAGATTTTCCCTTTTTA 59.018 34.615 0.00 0.00 0.00 1.52
3115 3757 3.821033 CTCGGTTTTCACAGATTTTCCCT 59.179 43.478 0.00 0.00 0.00 4.20
3118 3760 7.749539 TTTTTCTCGGTTTTCACAGATTTTC 57.250 32.000 0.00 0.00 0.00 2.29
3376 4044 2.098117 CCTAAATGGAAGCAGCTTTCGG 59.902 50.000 9.62 0.00 38.35 4.30
3583 5906 4.099419 TCGCTTATAGTGAGATGGAAGCAA 59.901 41.667 5.39 0.00 39.36 3.91
3607 5930 2.473235 GCCTAAATGACTTCGCGAGATC 59.527 50.000 9.59 11.81 41.60 2.75
3621 6993 2.378547 TCACTTTGGAGGTGGCCTAAAT 59.621 45.455 3.32 0.00 31.76 1.40
3753 7125 4.587262 AGTTCGGGGTTTGATTTAGCTTTT 59.413 37.500 0.00 0.00 0.00 2.27
3797 7169 4.286297 TGTGGGATTAGAGAGTTTGGTG 57.714 45.455 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.