Multiple sequence alignment - TraesCS7B01G434800

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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 TraesCS7B01G434800 chr7B 100.000 4320 0 0 1 4320 701905868 701901549 0.000000e+00 7978
1 TraesCS7B01G434800 chr7B 89.882 2293 167 38 2040 4320 701992500 701990261 0.000000e+00 2889
2 TraesCS7B01G434800 chr7B 89.547 2296 169 48 2040 4320 701936303 701934064 0.000000e+00 2844
3 TraesCS7B01G434800 chr7B 91.112 2059 127 21 1 2042 701938638 701936619 0.000000e+00 2737
4 TraesCS7B01G434800 chr7B 91.011 2058 130 19 1 2042 701994834 701992816 0.000000e+00 2724
5 TraesCS7B01G434800 chr7B 90.975 2061 128 18 1 2042 702063372 702061351 0.000000e+00 2723
6 TraesCS7B01G434800 chr7B 83.785 2288 273 42 2070 4320 701923681 701921455 0.000000e+00 2080
7 TraesCS7B01G434800 chr7B 89.851 1616 131 21 2711 4320 702153090 702151502 0.000000e+00 2045
8 TraesCS7B01G434800 chr7B 89.728 1616 132 20 2711 4320 702059910 702058323 0.000000e+00 2034
9 TraesCS7B01G434800 chr7B 84.160 2178 260 37 2070 4221 702048121 702046003 0.000000e+00 2032
10 TraesCS7B01G434800 chr7B 83.963 2170 263 37 2070 4213 702141107 702138997 0.000000e+00 2001
11 TraesCS7B01G434800 chr7B 94.516 1313 45 7 1 1307 702156643 702155352 0.000000e+00 2001
12 TraesCS7B01G434800 chr7B 85.066 1741 187 24 322 2051 701925538 701923860 0.000000e+00 1707
13 TraesCS7B01G434800 chr7B 85.066 1741 187 24 322 2051 702142965 702141287 0.000000e+00 1707
14 TraesCS7B01G434800 chr7B 88.920 1083 111 7 963 2040 702049390 702048312 0.000000e+00 1327
15 TraesCS7B01G434800 chr7D 95.240 2290 83 13 2037 4320 612516324 612514055 0.000000e+00 3602
16 TraesCS7B01G434800 chr7D 92.531 1620 68 14 434 2042 612518055 612516478 0.000000e+00 2272
17 TraesCS7B01G434800 chr7D 87.194 1593 160 24 2070 3642 612494426 612492858 0.000000e+00 1772
18 TraesCS7B01G434800 chr7D 87.139 1594 161 25 2070 3642 612506619 612505049 0.000000e+00 1768
19 TraesCS7B01G434800 chr7D 88.913 920 65 16 292 1210 612519660 612518777 0.000000e+00 1099
20 TraesCS7B01G434800 chr7D 90.698 301 24 4 1 300 612519985 612519688 8.700000e-107 398
21 TraesCS7B01G434800 chr7A 92.779 2285 139 13 2037 4320 702998800 702996541 0.000000e+00 3282
22 TraesCS7B01G434800 chr7A 91.984 1759 88 22 292 2042 703000562 702998849 0.000000e+00 2418
23 TraesCS7B01G434800 chr7A 89.701 301 27 4 1 300 703034329 703034032 8.770000e-102 381
24 TraesCS7B01G434800 chr7A 89.701 301 26 5 1 300 703000922 703000626 3.150000e-101 379
25 TraesCS7B01G434800 chrUn 92.414 1740 87 14 313 2042 335211277 335209573 0.000000e+00 2440
26 TraesCS7B01G434800 chrUn 96.356 1180 28 4 873 2042 355096425 355095251 0.000000e+00 1927
27 TraesCS7B01G434800 chrUn 89.701 301 27 4 1 300 326307543 326307840 8.770000e-102 381


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 TraesCS7B01G434800 chr7B 701901549 701905868 4319 True 7978.000000 7978 100.0000 1 4320 1 chr7B.!!$R1 4319
1 TraesCS7B01G434800 chr7B 701990261 701994834 4573 True 2806.500000 2889 90.4465 1 4320 2 chr7B.!!$R4 4319
2 TraesCS7B01G434800 chr7B 701934064 701938638 4574 True 2790.500000 2844 90.3295 1 4320 2 chr7B.!!$R3 4319
3 TraesCS7B01G434800 chr7B 702058323 702063372 5049 True 2378.500000 2723 90.3515 1 4320 2 chr7B.!!$R6 4319
4 TraesCS7B01G434800 chr7B 702151502 702156643 5141 True 2023.000000 2045 92.1835 1 4320 2 chr7B.!!$R8 4319
5 TraesCS7B01G434800 chr7B 701921455 701925538 4083 True 1893.500000 2080 84.4255 322 4320 2 chr7B.!!$R2 3998
6 TraesCS7B01G434800 chr7B 702138997 702142965 3968 True 1854.000000 2001 84.5145 322 4213 2 chr7B.!!$R7 3891
7 TraesCS7B01G434800 chr7B 702046003 702049390 3387 True 1679.500000 2032 86.5400 963 4221 2 chr7B.!!$R5 3258
8 TraesCS7B01G434800 chr7D 612514055 612519985 5930 True 1842.750000 3602 91.8455 1 4320 4 chr7D.!!$R3 4319
9 TraesCS7B01G434800 chr7D 612492858 612494426 1568 True 1772.000000 1772 87.1940 2070 3642 1 chr7D.!!$R1 1572
10 TraesCS7B01G434800 chr7D 612505049 612506619 1570 True 1768.000000 1768 87.1390 2070 3642 1 chr7D.!!$R2 1572
11 TraesCS7B01G434800 chr7A 702996541 703000922 4381 True 2026.333333 3282 91.4880 1 4320 3 chr7A.!!$R2 4319
12 TraesCS7B01G434800 chrUn 335209573 335211277 1704 True 2440.000000 2440 92.4140 313 2042 1 chrUn.!!$R1 1729
13 TraesCS7B01G434800 chrUn 355095251 355096425 1174 True 1927.000000 1927 96.3560 873 2042 1 chrUn.!!$R2 1169

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
327 408 0.107703 CGCCTCCATGCCAAACTCTA 60.108 55.000 0.0 0.0 0.00 2.43 F
823 928 2.030371 TGCACCAGAGAATGTTTTGCA 58.970 42.857 0.0 0.0 35.84 4.08 F
1564 3188 0.039180 TCTCTTCTACTGCCCCGACA 59.961 55.000 0.0 0.0 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1137 2703 0.179062 GGAGGTTGCTGATGCGATCT 60.179 55.000 0.0 0.0 46.19 2.75 R
1967 3591 1.004560 TGGAGCGAAGGAAGCTGTG 60.005 57.895 0.0 0.0 46.13 3.66 R
3501 6035 3.023119 ACAGGTTGAGTGCATTGAAACA 58.977 40.909 0.0 0.0 0.00 2.83 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
39 40 7.539436 TCAAAAGTTAAGTGTTGCATGTACAA 58.461 30.769 8.18 0.00 0.00 2.41
40 41 8.029522 TCAAAAGTTAAGTGTTGCATGTACAAA 58.970 29.630 8.18 0.00 0.00 2.83
150 153 9.621629 CCAAAGTATGTGGTATTAATCCAACTA 57.378 33.333 7.84 2.39 39.26 2.24
160 163 8.439971 TGGTATTAATCCAACTAGATCTTGCAT 58.560 33.333 0.00 0.00 31.50 3.96
200 204 0.459899 CCGATCACATGAGGGAACGA 59.540 55.000 0.00 0.00 0.00 3.85
259 268 0.944311 CCACATAGCATCGCGGGTAC 60.944 60.000 6.13 0.00 0.00 3.34
271 280 4.397832 GGGTACCGCGCTTTGGGA 62.398 66.667 5.56 0.00 40.86 4.37
327 408 0.107703 CGCCTCCATGCCAAACTCTA 60.108 55.000 0.00 0.00 0.00 2.43
344 425 3.301274 CTCTAGATTCGGTTCCTCCCTT 58.699 50.000 0.00 0.00 0.00 3.95
385 466 6.947464 TTCCCACAACTTTTATGTTGGAAAA 58.053 32.000 9.09 0.00 44.78 2.29
467 549 2.806237 CGGTCTACGGAGGGAAGC 59.194 66.667 0.00 0.00 39.42 3.86
649 737 4.989168 CGTAGATATTTGGTAGGTTGCTCC 59.011 45.833 0.00 0.00 0.00 4.70
686 774 3.585990 GGGATCACCGCGCCAATG 61.586 66.667 0.00 0.00 36.97 2.82
687 775 4.256090 GGATCACCGCGCCAATGC 62.256 66.667 0.00 0.00 0.00 3.56
812 917 4.670992 CGATGAGAATGTTTTGCACCAGAG 60.671 45.833 0.00 0.00 0.00 3.35
814 919 4.206375 TGAGAATGTTTTGCACCAGAGAA 58.794 39.130 0.00 0.00 0.00 2.87
817 922 4.586001 AGAATGTTTTGCACCAGAGAATGT 59.414 37.500 0.00 0.00 0.00 2.71
818 923 4.942761 ATGTTTTGCACCAGAGAATGTT 57.057 36.364 0.00 0.00 0.00 2.71
819 924 4.734398 TGTTTTGCACCAGAGAATGTTT 57.266 36.364 0.00 0.00 0.00 2.83
820 925 5.083533 TGTTTTGCACCAGAGAATGTTTT 57.916 34.783 0.00 0.00 0.00 2.43
821 926 4.869297 TGTTTTGCACCAGAGAATGTTTTG 59.131 37.500 0.00 0.00 0.00 2.44
822 927 2.798976 TGCACCAGAGAATGTTTTGC 57.201 45.000 0.00 0.00 0.00 3.68
823 928 2.030371 TGCACCAGAGAATGTTTTGCA 58.970 42.857 0.00 0.00 35.84 4.08
824 929 2.223782 TGCACCAGAGAATGTTTTGCAC 60.224 45.455 0.00 0.00 34.24 4.57
825 930 2.863704 GCACCAGAGAATGTTTTGCACC 60.864 50.000 0.00 0.00 31.04 5.01
826 931 2.361757 CACCAGAGAATGTTTTGCACCA 59.638 45.455 0.00 0.00 0.00 4.17
827 932 2.624838 ACCAGAGAATGTTTTGCACCAG 59.375 45.455 0.00 0.00 0.00 4.00
828 933 2.886523 CCAGAGAATGTTTTGCACCAGA 59.113 45.455 0.00 0.00 0.00 3.86
829 934 3.318839 CCAGAGAATGTTTTGCACCAGAA 59.681 43.478 0.00 0.00 0.00 3.02
830 935 4.202141 CCAGAGAATGTTTTGCACCAGAAA 60.202 41.667 0.00 0.00 0.00 2.52
831 936 5.510179 CCAGAGAATGTTTTGCACCAGAAAT 60.510 40.000 0.00 0.00 0.00 2.17
832 937 5.987347 CAGAGAATGTTTTGCACCAGAAATT 59.013 36.000 0.00 0.00 0.00 1.82
833 938 5.987347 AGAGAATGTTTTGCACCAGAAATTG 59.013 36.000 0.00 0.00 0.00 2.32
834 939 5.673514 AGAATGTTTTGCACCAGAAATTGT 58.326 33.333 0.00 0.00 0.00 2.71
835 940 6.114767 AGAATGTTTTGCACCAGAAATTGTT 58.885 32.000 0.00 0.00 0.00 2.83
842 947 4.075682 TGCACCAGAAATTGTTATTCGGA 58.924 39.130 0.00 0.00 32.04 4.55
1269 2835 1.353103 GACGCATCTCCGCCAAATG 59.647 57.895 0.00 0.00 0.00 2.32
1479 3103 0.249322 CGTGGGGCGTAGAATTCGAT 60.249 55.000 0.00 0.00 35.54 3.59
1564 3188 0.039180 TCTCTTCTACTGCCCCGACA 59.961 55.000 0.00 0.00 0.00 4.35
1669 3293 1.343142 TCGTGCTCAGCCTCAAGTTTA 59.657 47.619 0.00 0.00 0.00 2.01
1967 3591 0.320247 CACACAGGAGAGACACAGGC 60.320 60.000 0.00 0.00 0.00 4.85
2084 4079 6.844696 TCAAGACAGAATTGTACAAGTGAC 57.155 37.500 14.13 10.72 37.76 3.67
2085 4080 6.345298 TCAAGACAGAATTGTACAAGTGACA 58.655 36.000 14.13 0.00 37.76 3.58
2086 4081 6.257849 TCAAGACAGAATTGTACAAGTGACAC 59.742 38.462 14.13 0.00 37.76 3.67
2105 4104 8.147058 AGTGACACATATATCCTGTGAATCTTC 58.853 37.037 19.75 10.27 45.44 2.87
2210 4211 2.452105 GAGCTACGTCTCCTAAAAGCG 58.548 52.381 0.00 0.00 35.17 4.68
2318 4346 1.599542 AGATCGCGGGTACGTAACTAC 59.400 52.381 11.05 1.95 43.45 2.73
2592 4626 0.545071 TGTCACAGGAGGCCTCATCA 60.545 55.000 33.29 18.07 0.00 3.07
2827 5340 8.500753 TGTGTTAGTATTGACATCCCAATTAC 57.499 34.615 0.00 0.00 37.81 1.89
2866 5379 7.581213 TGTATCCCAGTTATTGGCTAATTTG 57.419 36.000 0.00 0.00 46.32 2.32
2991 5513 3.761897 TGTGTGGGCTTGCTTACTTTAT 58.238 40.909 0.00 0.00 0.00 1.40
3164 5695 5.554437 TGTACTGTGGTATTTGTTCCTGA 57.446 39.130 0.00 0.00 0.00 3.86
3249 5781 2.949177 TTGCATGGGCCGATACTTAT 57.051 45.000 0.00 0.00 40.13 1.73
3250 5782 4.568072 ATTGCATGGGCCGATACTTATA 57.432 40.909 0.00 0.00 40.13 0.98
3325 5857 4.495690 TTATCCGTTGACATGATTCCCA 57.504 40.909 0.00 0.00 0.00 4.37
3421 5954 5.365619 AGTATCAAGACTTTGTTCGGTTGT 58.634 37.500 0.00 0.00 35.73 3.32
3451 5984 6.128200 ACAGTACTTATCATGTGCATGTTGTG 60.128 38.462 11.38 4.86 39.72 3.33
3456 5989 6.206438 ACTTATCATGTGCATGTTGTGTTACA 59.794 34.615 11.38 0.00 39.72 2.41
3460 5993 5.529060 TCATGTGCATGTTGTGTTACAAGTA 59.471 36.000 11.38 0.00 39.00 2.24
3498 6032 9.618890 TTTATAGGGAGATCAGTTGAATCTTTG 57.381 33.333 0.00 0.00 0.00 2.77
3501 6035 6.310149 AGGGAGATCAGTTGAATCTTTGTTT 58.690 36.000 0.00 0.00 0.00 2.83
3523 6057 3.446873 TGTTTCAATGCACTCAACCTGTT 59.553 39.130 0.00 0.00 0.00 3.16
3642 6176 7.549147 TTATCTACGCCTATATGGGTTTTCT 57.451 36.000 7.00 0.00 36.00 2.52
3643 6177 8.654485 TTATCTACGCCTATATGGGTTTTCTA 57.346 34.615 7.00 0.00 36.00 2.10
3644 6178 7.735326 ATCTACGCCTATATGGGTTTTCTAT 57.265 36.000 7.00 0.00 36.00 1.98
3645 6179 6.931838 TCTACGCCTATATGGGTTTTCTATG 58.068 40.000 7.00 0.00 36.00 2.23
3646 6180 4.324267 ACGCCTATATGGGTTTTCTATGC 58.676 43.478 7.00 0.00 36.00 3.14
3697 6231 1.541889 CCACCATCCACAGATCCATCG 60.542 57.143 0.00 0.00 0.00 3.84
3772 6306 2.956333 CCATGTGTGATCTCATTGCCAT 59.044 45.455 0.02 0.00 0.00 4.40
3896 6431 5.221843 ACAATGAGCACAAACTTCCTAGGTA 60.222 40.000 9.08 0.00 0.00 3.08
3897 6432 4.537135 TGAGCACAAACTTCCTAGGTAG 57.463 45.455 13.54 13.54 0.00 3.18
3901 6436 4.593634 AGCACAAACTTCCTAGGTAGTTCT 59.406 41.667 28.02 19.53 35.26 3.01
3902 6437 5.778750 AGCACAAACTTCCTAGGTAGTTCTA 59.221 40.000 28.02 0.00 35.26 2.10
3903 6438 6.071278 AGCACAAACTTCCTAGGTAGTTCTAG 60.071 42.308 28.02 22.57 35.26 2.43
3912 6447 4.894705 CCTAGGTAGTTCTAGGTTCTTCCC 59.105 50.000 0.00 0.00 47.00 3.97
3913 6448 4.415224 AGGTAGTTCTAGGTTCTTCCCA 57.585 45.455 0.00 0.00 36.75 4.37
3914 6449 4.961585 AGGTAGTTCTAGGTTCTTCCCAT 58.038 43.478 0.00 0.00 36.75 4.00
3915 6450 5.351405 AGGTAGTTCTAGGTTCTTCCCATT 58.649 41.667 0.00 0.00 36.75 3.16
3916 6451 5.189934 AGGTAGTTCTAGGTTCTTCCCATTG 59.810 44.000 0.00 0.00 36.75 2.82
4011 6551 2.111613 TGAAAGGGGATTGTTGGTGGAT 59.888 45.455 0.00 0.00 0.00 3.41
4100 6642 3.379452 ACTGGAAGCATAGCTAGAACCT 58.621 45.455 0.00 0.00 38.25 3.50
4102 6644 3.107601 TGGAAGCATAGCTAGAACCTGT 58.892 45.455 0.00 0.00 38.25 4.00
4221 6766 2.357517 CAAGCCACGAAGCGGACT 60.358 61.111 0.00 0.00 38.01 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
160 163 5.421056 TCGGCCTGTCTCTTTTATTCTCTAA 59.579 40.000 0.00 0.00 0.00 2.10
200 204 3.307059 GGAACCTTACTGATGAGCACACT 60.307 47.826 0.00 0.00 0.00 3.55
259 268 2.485122 GAATGTCCCAAAGCGCGG 59.515 61.111 8.83 0.00 0.00 6.46
271 280 0.611200 TTGTCATCCCCGTCGAATGT 59.389 50.000 0.00 0.00 0.00 2.71
327 408 1.205055 GGAAGGGAGGAACCGAATCT 58.795 55.000 0.00 0.00 40.11 2.40
344 425 3.170717 GGGAAGTACCATATCATCCGGA 58.829 50.000 6.61 6.61 41.20 5.14
385 466 1.589196 GCGCGCGAGTAGATTCCTT 60.589 57.895 37.18 0.00 0.00 3.36
600 688 1.915078 ATGGAAACCTGGGAGAGCCG 61.915 60.000 0.00 0.00 33.83 5.52
649 737 3.784412 ATTGGCGCGAACGTTCCG 61.784 61.111 25.20 25.20 42.83 4.30
670 758 4.256090 GCATTGGCGCGGTGATCC 62.256 66.667 8.83 0.00 0.00 3.36
680 768 1.829533 ATGGTGATCCCGCATTGGC 60.830 57.895 0.00 0.00 35.87 4.52
681 769 2.035421 CATGGTGATCCCGCATTGG 58.965 57.895 0.00 0.00 35.15 3.16
682 770 1.361271 GCATGGTGATCCCGCATTG 59.639 57.895 0.00 0.00 35.15 2.82
683 771 1.829533 GGCATGGTGATCCCGCATT 60.830 57.895 0.00 0.00 34.19 3.56
684 772 2.203394 GGCATGGTGATCCCGCAT 60.203 61.111 0.00 0.00 34.19 4.73
685 773 2.570774 ATTGGCATGGTGATCCCGCA 62.571 55.000 0.00 0.00 34.19 5.69
686 774 1.829533 ATTGGCATGGTGATCCCGC 60.830 57.895 0.00 0.00 35.15 6.13
687 775 2.035421 CATTGGCATGGTGATCCCG 58.965 57.895 0.00 0.00 35.15 5.14
688 776 1.744014 GCATTGGCATGGTGATCCC 59.256 57.895 0.00 0.00 40.72 3.85
689 777 1.361271 CGCATTGGCATGGTGATCC 59.639 57.895 0.00 0.00 41.24 3.36
812 917 5.989551 ACAATTTCTGGTGCAAAACATTC 57.010 34.783 0.00 0.00 0.00 2.67
814 919 7.095691 CGAATAACAATTTCTGGTGCAAAACAT 60.096 33.333 0.00 0.00 0.00 2.71
817 922 5.694006 CCGAATAACAATTTCTGGTGCAAAA 59.306 36.000 0.00 0.00 0.00 2.44
818 923 5.010112 TCCGAATAACAATTTCTGGTGCAAA 59.990 36.000 0.00 0.00 0.00 3.68
819 924 4.520874 TCCGAATAACAATTTCTGGTGCAA 59.479 37.500 0.00 0.00 0.00 4.08
820 925 4.075682 TCCGAATAACAATTTCTGGTGCA 58.924 39.130 0.00 0.00 0.00 4.57
821 926 4.695217 TCCGAATAACAATTTCTGGTGC 57.305 40.909 0.00 0.00 0.00 5.01
822 927 9.801873 AATAATTCCGAATAACAATTTCTGGTG 57.198 29.630 0.00 0.00 0.00 4.17
826 931 9.816354 CCCAAATAATTCCGAATAACAATTTCT 57.184 29.630 0.00 0.00 0.00 2.52
827 932 9.810545 TCCCAAATAATTCCGAATAACAATTTC 57.189 29.630 0.00 0.00 0.00 2.17
831 936 9.593134 CATTTCCCAAATAATTCCGAATAACAA 57.407 29.630 0.00 0.00 0.00 2.83
832 937 7.708752 GCATTTCCCAAATAATTCCGAATAACA 59.291 33.333 0.00 0.00 0.00 2.41
833 938 7.926018 AGCATTTCCCAAATAATTCCGAATAAC 59.074 33.333 0.00 0.00 0.00 1.89
834 939 7.925483 CAGCATTTCCCAAATAATTCCGAATAA 59.075 33.333 0.00 0.00 0.00 1.40
835 940 7.432869 CAGCATTTCCCAAATAATTCCGAATA 58.567 34.615 0.00 0.00 0.00 1.75
842 947 5.721000 TCAGACCAGCATTTCCCAAATAATT 59.279 36.000 0.00 0.00 0.00 1.40
1132 2698 1.470098 GTTGCTGATGCGATCTGGTTT 59.530 47.619 0.00 0.00 43.34 3.27
1137 2703 0.179062 GGAGGTTGCTGATGCGATCT 60.179 55.000 0.00 0.00 46.19 2.75
1269 2835 2.027625 CGCGAGGTTGTGGAAGACC 61.028 63.158 0.00 0.00 36.15 3.85
1618 3242 1.689233 ATCGGGGGAGCAAGCTGTA 60.689 57.895 0.00 0.00 0.00 2.74
1967 3591 1.004560 TGGAGCGAAGGAAGCTGTG 60.005 57.895 0.00 0.00 46.13 3.66
2080 4075 8.147058 AGAAGATTCACAGGATATATGTGTCAC 58.853 37.037 16.24 0.00 46.49 3.67
2085 4080 9.775854 CTGAAAGAAGATTCACAGGATATATGT 57.224 33.333 0.00 0.00 35.55 2.29
2086 4081 9.993454 TCTGAAAGAAGATTCACAGGATATATG 57.007 33.333 0.00 0.00 42.31 1.78
2105 4104 5.124617 GGAAATAAACCAGGAGCTCTGAAAG 59.875 44.000 14.64 1.09 46.18 2.62
2210 4211 1.963515 AGTGCTCCAAAAACATGTCCC 59.036 47.619 0.00 0.00 0.00 4.46
2523 4557 7.331687 GCTGGTGCACATTTGAGTATTAATTTT 59.668 33.333 20.43 0.00 39.41 1.82
2668 4702 8.023021 TGGATGCTGAATAAATACTCACTAGT 57.977 34.615 0.00 0.00 39.91 2.57
2827 5340 4.699735 TGGGATACATGCACAACTAAACTG 59.300 41.667 0.00 0.00 39.74 3.16
2866 5379 9.546909 CACAAAATCGGATAAATATAGCATGTC 57.453 33.333 0.00 0.00 0.00 3.06
2924 5437 8.830915 ATCACCAACTCTAGTATATATCCAGG 57.169 38.462 0.00 0.00 0.00 4.45
2991 5513 5.988287 ACAGAAGAATGCAAAAGGGAAAAA 58.012 33.333 0.00 0.00 0.00 1.94
3249 5781 7.569111 AGGAGAAATATTGAAACCTAGCTCCTA 59.431 37.037 0.00 0.00 44.74 2.94
3250 5782 6.388394 AGGAGAAATATTGAAACCTAGCTCCT 59.612 38.462 0.00 0.00 42.56 3.69
3325 5857 4.949856 ACTTGAATCCGCAAATGTAAGGAT 59.050 37.500 0.00 0.00 44.64 3.24
3401 5934 5.339990 CAAACAACCGAACAAAGTCTTGAT 58.660 37.500 0.00 0.00 36.33 2.57
3421 5954 5.555966 TGCACATGATAAGTACTGTCCAAA 58.444 37.500 0.00 0.00 0.00 3.28
3460 5993 9.775539 TGATCTCCCTATAAAGAGCTACAATAT 57.224 33.333 0.00 0.00 0.00 1.28
3483 6017 9.603921 ATTGAAACAAACAAAGATTCAACTGAT 57.396 25.926 1.79 0.00 41.27 2.90
3498 6032 4.268405 CAGGTTGAGTGCATTGAAACAAAC 59.732 41.667 0.00 0.00 0.00 2.93
3501 6035 3.023119 ACAGGTTGAGTGCATTGAAACA 58.977 40.909 0.00 0.00 0.00 2.83
3642 6176 1.961394 CCAGAGGTTACGCTAGGCATA 59.039 52.381 0.00 0.00 0.00 3.14
3643 6177 0.753262 CCAGAGGTTACGCTAGGCAT 59.247 55.000 0.00 0.00 0.00 4.40
3644 6178 0.613853 ACCAGAGGTTACGCTAGGCA 60.614 55.000 0.00 0.00 27.29 4.75
3645 6179 1.396653 TACCAGAGGTTACGCTAGGC 58.603 55.000 0.00 0.00 37.09 3.93
3646 6180 4.667519 AAATACCAGAGGTTACGCTAGG 57.332 45.455 0.00 0.00 37.09 3.02
3697 6231 0.108186 TGAGATCACACATGGCGGTC 60.108 55.000 0.00 0.00 0.00 4.79
3772 6306 2.094182 GGTCGACCATAGCAACAAGAGA 60.094 50.000 29.75 0.00 35.64 3.10
3812 6346 1.066716 CATCGACGGAAGGGGTAACAA 60.067 52.381 0.00 0.00 39.74 2.83
3896 6431 5.843019 TTCAATGGGAAGAACCTAGAACT 57.157 39.130 0.00 0.00 38.98 3.01
3897 6432 6.894339 TTTTCAATGGGAAGAACCTAGAAC 57.106 37.500 0.00 0.00 36.72 3.01
4011 6551 4.284490 ACTGCTCTTTATCAAGTGTGAGGA 59.716 41.667 0.00 0.00 37.14 3.71
4047 6589 3.801114 TGCAATACTGACGCACTAGAT 57.199 42.857 0.00 0.00 0.00 1.98
4056 6598 2.159338 CCAGGTGCAATGCAATACTGAC 60.159 50.000 26.48 8.79 41.47 3.51
4100 6642 3.806949 AGCCCTAGAATTTTGGACACA 57.193 42.857 0.00 0.00 0.00 3.72
4102 6644 4.479158 ACAAAGCCCTAGAATTTTGGACA 58.521 39.130 13.59 0.00 35.42 4.02


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

AutoCloner maintained by Alex Coulton.