Multiple sequence alignment - TraesCS3D01G231700

Loading Multiple Alignment...

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 TraesCS3D01G231700 chr3D 100.000 3612 0 0 1 3612 317550047 317553658 0.000000e+00 6671
1 TraesCS3D01G231700 chr3B 96.070 2112 50 16 837 2934 401413836 401411744 0.000000e+00 3410
2 TraesCS3D01G231700 chr3B 87.743 824 69 20 6 801 766033399 766032580 0.000000e+00 933
3 TraesCS3D01G231700 chr3B 97.872 423 8 1 3190 3612 401411043 401410622 0.000000e+00 730
4 TraesCS3D01G231700 chr3B 97.537 203 5 0 2993 3195 401411355 401411153 7.420000e-92 348
5 TraesCS3D01G231700 chr3B 100.000 71 0 0 2925 2995 401411473 401411403 8.140000e-27 132
6 TraesCS3D01G231700 chr3A 95.135 2179 68 13 836 2995 447277567 447275408 0.000000e+00 3402
7 TraesCS3D01G231700 chr3A 95.045 2099 55 12 914 2995 408949499 408947433 0.000000e+00 3254
8 TraesCS3D01G231700 chr3A 97.468 395 10 0 2993 3387 408947391 408946997 0.000000e+00 675
9 TraesCS3D01G231700 chr3A 97.236 398 8 1 2993 3387 447275360 447274963 0.000000e+00 671
10 TraesCS3D01G231700 chr3A 97.333 225 3 3 3384 3608 408946906 408946685 2.630000e-101 379
11 TraesCS3D01G231700 chr3A 97.674 129 1 2 3384 3511 447274872 447274745 1.690000e-53 220
12 TraesCS3D01G231700 chr3A 92.208 77 6 0 836 912 408949888 408949812 3.810000e-20 110
13 TraesCS3D01G231700 chr4D 88.714 824 64 17 1 801 428530710 428529893 0.000000e+00 979
14 TraesCS3D01G231700 chr4D 76.868 843 173 17 1558 2389 1198323 1199154 1.180000e-124 457
15 TraesCS3D01G231700 chr4D 85.748 428 53 5 1005 1428 1197805 1198228 2.560000e-121 446
16 TraesCS3D01G231700 chr2D 88.767 819 67 15 1 801 634823720 634824531 0.000000e+00 979
17 TraesCS3D01G231700 chr2D 87.792 770 76 8 43 801 573116132 573116894 0.000000e+00 885
18 TraesCS3D01G231700 chr7D 88.171 820 73 12 1 801 36176612 36177426 0.000000e+00 955
19 TraesCS3D01G231700 chr1D 87.745 816 77 16 1 801 37518551 37517744 0.000000e+00 931
20 TraesCS3D01G231700 chr6D 87.500 824 75 13 1 801 367563685 367564503 0.000000e+00 926
21 TraesCS3D01G231700 chr7B 87.440 828 67 23 1 800 634904565 634903747 0.000000e+00 918
22 TraesCS3D01G231700 chr6A 87.089 821 76 22 1 801 584389045 584389855 0.000000e+00 902
23 TraesCS3D01G231700 chr4B 76.422 844 177 17 1564 2396 825411 824579 1.540000e-118 436


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 TraesCS3D01G231700 chr3D 317550047 317553658 3611 False 6671.0 6671 100.000000 1 3612 1 chr3D.!!$F1 3611
1 TraesCS3D01G231700 chr3B 401410622 401413836 3214 True 1155.0 3410 97.869750 837 3612 4 chr3B.!!$R2 2775
2 TraesCS3D01G231700 chr3B 766032580 766033399 819 True 933.0 933 87.743000 6 801 1 chr3B.!!$R1 795
3 TraesCS3D01G231700 chr3A 447274745 447277567 2822 True 1431.0 3402 96.681667 836 3511 3 chr3A.!!$R2 2675
4 TraesCS3D01G231700 chr3A 408946685 408949888 3203 True 1104.5 3254 95.513500 836 3608 4 chr3A.!!$R1 2772
5 TraesCS3D01G231700 chr4D 428529893 428530710 817 True 979.0 979 88.714000 1 801 1 chr4D.!!$R1 800
6 TraesCS3D01G231700 chr4D 1197805 1199154 1349 False 451.5 457 81.308000 1005 2389 2 chr4D.!!$F1 1384
7 TraesCS3D01G231700 chr2D 634823720 634824531 811 False 979.0 979 88.767000 1 801 1 chr2D.!!$F2 800
8 TraesCS3D01G231700 chr2D 573116132 573116894 762 False 885.0 885 87.792000 43 801 1 chr2D.!!$F1 758
9 TraesCS3D01G231700 chr7D 36176612 36177426 814 False 955.0 955 88.171000 1 801 1 chr7D.!!$F1 800
10 TraesCS3D01G231700 chr1D 37517744 37518551 807 True 931.0 931 87.745000 1 801 1 chr1D.!!$R1 800
11 TraesCS3D01G231700 chr6D 367563685 367564503 818 False 926.0 926 87.500000 1 801 1 chr6D.!!$F1 800
12 TraesCS3D01G231700 chr7B 634903747 634904565 818 True 918.0 918 87.440000 1 800 1 chr7B.!!$R1 799
13 TraesCS3D01G231700 chr6A 584389045 584389855 810 False 902.0 902 87.089000 1 801 1 chr6A.!!$F1 800
14 TraesCS3D01G231700 chr4B 824579 825411 832 True 436.0 436 76.422000 1564 2396 1 chr4B.!!$R1 832

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
701 746 0.039798 CTCGGACCGTCAGAAAACGA 60.040 55.0 14.79 0.0 45.37 3.85 F
943 1303 0.179045 CATTCCTAGTGGGGAAGCGG 60.179 60.0 0.00 0.0 46.81 5.52 F
1469 1850 0.251832 ACCTCATCTCGTGGTCCACT 60.252 55.0 19.82 0.0 36.80 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1594 1983 1.300963 GTGGCTGAAGCAGATCCCA 59.699 57.895 4.43 0.00 44.36 4.37 R
2188 2580 2.258591 CTCCAGTCCGACACCGTG 59.741 66.667 0.40 0.00 0.00 4.94 R
3402 4346 0.978151 TGGTTTACTCTGCCGGCTAA 59.022 50.000 29.70 15.03 0.00 3.09 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
23 24 1.074889 TGCCTTCCAGTTAAGGTTCCC 59.925 52.381 4.67 0.00 46.61 3.97
45 46 5.163513 CCTCAAATGCCACACACTTAATTC 58.836 41.667 0.00 0.00 0.00 2.17
75 80 2.674380 GCTGCAGGTGGGTTCAGG 60.674 66.667 17.12 0.00 0.00 3.86
111 116 1.003233 AGAAAAGAGGCTCCACGGC 60.003 57.895 11.71 0.00 38.75 5.68
180 188 4.832248 GTCACCAACCAGACATAGATTGA 58.168 43.478 0.00 0.00 34.93 2.57
181 189 5.245531 GTCACCAACCAGACATAGATTGAA 58.754 41.667 0.00 0.00 34.93 2.69
226 242 3.604312 AGAACCCTAACCCTAACCCTAGA 59.396 47.826 0.00 0.00 0.00 2.43
230 246 5.365269 ACCCTAACCCTAACCCTAGATTTT 58.635 41.667 0.00 0.00 0.00 1.82
252 268 8.446599 TTTTTAGCATACATAAACCTAGCTCC 57.553 34.615 0.00 0.00 32.49 4.70
261 277 6.010219 ACATAAACCTAGCTCCAACAACAAT 58.990 36.000 0.00 0.00 0.00 2.71
297 313 7.919091 GCCTAATAAATAACAGTAACCAAAGCC 59.081 37.037 0.00 0.00 0.00 4.35
340 356 4.554553 ACCCTAACCTAATCTAGCTCCA 57.445 45.455 0.00 0.00 0.00 3.86
370 390 1.066303 CTAACCCTAGCTCAGCAGACG 59.934 57.143 0.00 0.00 0.00 4.18
375 395 0.102120 CTAGCTCAGCAGACGGAAGG 59.898 60.000 0.00 0.00 0.00 3.46
446 466 0.673644 AGCTCGTTTCCCCGTCATTG 60.674 55.000 0.00 0.00 0.00 2.82
460 480 0.040058 TCATTGCAGGAAGGCATGGT 59.960 50.000 0.00 0.00 44.48 3.55
462 482 0.040058 ATTGCAGGAAGGCATGGTGA 59.960 50.000 0.00 0.00 44.48 4.02
534 561 3.282021 GAGAGTGAGAGTGAGAGCAGAT 58.718 50.000 0.00 0.00 0.00 2.90
576 614 0.679640 AGTGAGAGCGAGGGAGACAG 60.680 60.000 0.00 0.00 0.00 3.51
577 615 0.963355 GTGAGAGCGAGGGAGACAGT 60.963 60.000 0.00 0.00 0.00 3.55
701 746 0.039798 CTCGGACCGTCAGAAAACGA 60.040 55.000 14.79 0.00 45.37 3.85
710 755 6.121613 ACCGTCAGAAAACGATTTAAAACA 57.878 33.333 0.00 0.00 45.37 2.83
744 790 5.279456 GGCAATTTGGGTATTTGAGACAACT 60.279 40.000 0.00 0.00 0.00 3.16
749 795 3.070446 TGGGTATTTGAGACAACTGACGT 59.930 43.478 0.00 0.00 0.00 4.34
758 804 3.857052 AGACAACTGACGTGAAAAGTGA 58.143 40.909 0.00 0.00 0.00 3.41
772 818 6.811665 CGTGAAAAGTGATAGGTATCAGTCAA 59.188 38.462 7.62 0.00 43.58 3.18
819 868 9.690913 AAAACCCTGTAGTTTTATACTATTCCC 57.309 33.333 0.76 0.00 45.65 3.97
820 869 8.634188 AACCCTGTAGTTTTATACTATTCCCT 57.366 34.615 0.00 0.00 41.26 4.20
821 870 8.260099 ACCCTGTAGTTTTATACTATTCCCTC 57.740 38.462 0.00 0.00 41.26 4.30
822 871 7.015001 ACCCTGTAGTTTTATACTATTCCCTCG 59.985 40.741 0.00 0.00 41.26 4.63
823 872 6.867293 CCTGTAGTTTTATACTATTCCCTCGC 59.133 42.308 0.00 0.00 41.26 5.03
824 873 6.752168 TGTAGTTTTATACTATTCCCTCGCC 58.248 40.000 0.00 0.00 41.26 5.54
825 874 6.552350 TGTAGTTTTATACTATTCCCTCGCCT 59.448 38.462 0.00 0.00 41.26 5.52
826 875 7.725397 TGTAGTTTTATACTATTCCCTCGCCTA 59.275 37.037 0.00 0.00 41.26 3.93
827 876 7.607615 AGTTTTATACTATTCCCTCGCCTAA 57.392 36.000 0.00 0.00 34.56 2.69
828 877 7.668492 AGTTTTATACTATTCCCTCGCCTAAG 58.332 38.462 0.00 0.00 34.56 2.18
829 878 5.656213 TTATACTATTCCCTCGCCTAAGC 57.344 43.478 0.00 0.00 0.00 3.09
830 879 1.049402 ACTATTCCCTCGCCTAAGCC 58.951 55.000 0.00 0.00 34.57 4.35
831 880 1.343069 CTATTCCCTCGCCTAAGCCT 58.657 55.000 0.00 0.00 34.57 4.58
832 881 2.158355 ACTATTCCCTCGCCTAAGCCTA 60.158 50.000 0.00 0.00 34.57 3.93
833 882 1.343069 ATTCCCTCGCCTAAGCCTAG 58.657 55.000 0.00 0.00 34.57 3.02
834 883 1.400530 TTCCCTCGCCTAAGCCTAGC 61.401 60.000 0.00 0.00 34.57 3.42
843 892 2.098280 GCCTAAGCCTAGCAAAAAGAGC 59.902 50.000 0.00 0.00 0.00 4.09
882 931 3.939939 TGAGCTCGTGCCAGCCAA 61.940 61.111 9.64 0.00 40.65 4.52
943 1303 0.179045 CATTCCTAGTGGGGAAGCGG 60.179 60.000 0.00 0.00 46.81 5.52
1278 1638 2.620112 CGTGGTCGACTGTACCGGT 61.620 63.158 13.98 13.98 40.08 5.28
1461 1842 7.466996 CGATTACTTACTTACACCTCATCTCGT 60.467 40.741 0.00 0.00 0.00 4.18
1462 1843 5.312120 ACTTACTTACACCTCATCTCGTG 57.688 43.478 0.00 0.00 36.04 4.35
1463 1844 4.158025 ACTTACTTACACCTCATCTCGTGG 59.842 45.833 0.00 0.00 34.18 4.94
1464 1845 2.526432 ACTTACACCTCATCTCGTGGT 58.474 47.619 0.00 0.00 42.34 4.16
1465 1846 2.492484 ACTTACACCTCATCTCGTGGTC 59.508 50.000 0.00 0.00 39.53 4.02
1466 1847 1.471119 TACACCTCATCTCGTGGTCC 58.529 55.000 0.00 0.00 39.53 4.46
1467 1848 0.541998 ACACCTCATCTCGTGGTCCA 60.542 55.000 0.00 0.00 39.53 4.02
1469 1850 0.251832 ACCTCATCTCGTGGTCCACT 60.252 55.000 19.82 0.00 36.80 4.00
1472 1853 1.448540 CATCTCGTGGTCCACTGCC 60.449 63.158 19.82 0.00 31.34 4.85
1474 1855 1.480212 ATCTCGTGGTCCACTGCCAA 61.480 55.000 19.82 1.61 37.81 4.52
1475 1856 1.961277 CTCGTGGTCCACTGCCAAC 60.961 63.158 19.82 0.00 37.81 3.77
1476 1857 3.345808 CGTGGTCCACTGCCAACG 61.346 66.667 19.82 0.79 37.81 4.10
1529 1914 4.496010 CGGACGAGTGACGAATCTAGATTT 60.496 45.833 18.88 4.38 45.77 2.17
1783 2172 2.853914 GCGTTCAGCTTCGTGACC 59.146 61.111 0.00 0.00 44.04 4.02
1873 2262 4.373116 TGCTCCACCTTCGACGCC 62.373 66.667 0.00 0.00 0.00 5.68
1972 2364 4.363990 AGCACGCGTCACCTCCTG 62.364 66.667 9.86 0.00 0.00 3.86
2513 2911 6.646240 GTGTGCAATGTTTTCATTTAGGTCAT 59.354 34.615 0.00 0.00 46.94 3.06
2604 3005 1.442769 ATTGTAAGCTGTCAGCCACG 58.557 50.000 21.32 0.00 43.77 4.94
2618 3019 5.471797 TGTCAGCCACGAGAATGAATAAAAA 59.528 36.000 0.00 0.00 0.00 1.94
2827 3228 0.590682 TTTGTGCGTCGCATTCACAT 59.409 45.000 24.65 0.00 41.91 3.21
2891 3293 4.687948 CACACTGGTCAGTTGAGTAAGATG 59.312 45.833 0.20 0.00 40.20 2.90
3358 4208 2.227149 CAGCAGTGCAGCTTGTCAATTA 59.773 45.455 19.20 0.00 43.70 1.40
3458 4402 6.959639 ACAACCTGAAAATGTACAGTGATT 57.040 33.333 0.33 0.00 32.93 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 4.853196 CGAATTAAGTGTGTGGCATTTGAG 59.147 41.667 0.00 0.00 0.00 3.02
45 46 3.807538 GCAGCACCACATGAGGCG 61.808 66.667 9.34 0.32 0.00 5.52
111 116 2.283966 AGGAGACCCCTGACACCG 60.284 66.667 0.00 0.00 45.61 4.94
181 189 3.393941 TGCTGGATTGGGGAATTGTTTTT 59.606 39.130 0.00 0.00 0.00 1.94
186 194 2.459644 TCTTGCTGGATTGGGGAATTG 58.540 47.619 0.00 0.00 0.00 2.32
226 242 9.067986 GGAGCTAGGTTTATGTATGCTAAAAAT 57.932 33.333 0.00 0.00 0.00 1.82
230 246 6.740944 TGGAGCTAGGTTTATGTATGCTAA 57.259 37.500 0.00 0.00 0.00 3.09
252 268 3.511146 AGGCAGGGTTATGATTGTTGTTG 59.489 43.478 0.00 0.00 0.00 3.33
261 277 8.499406 ACTGTTATTTATTAGGCAGGGTTATGA 58.501 33.333 0.00 0.00 0.00 2.15
297 313 3.300388 TCATCTTGGTGAGCTAGGGTAG 58.700 50.000 0.00 0.00 0.00 3.18
340 356 3.712218 GAGCTAGGGTTAGGGTTCATCTT 59.288 47.826 0.00 0.00 0.00 2.40
370 390 3.082548 GCTCTTTGGGTAAGTTCCTTCC 58.917 50.000 0.00 0.00 35.28 3.46
375 395 4.082733 GGACATTGCTCTTTGGGTAAGTTC 60.083 45.833 0.00 0.00 35.28 3.01
446 466 2.401766 CGTCACCATGCCTTCCTGC 61.402 63.158 0.00 0.00 0.00 4.85
576 614 1.323534 CTGGTGCGCGTATTAAGTCAC 59.676 52.381 8.43 4.17 0.00 3.67
577 615 1.635844 CTGGTGCGCGTATTAAGTCA 58.364 50.000 8.43 0.00 0.00 3.41
657 702 2.046892 GTCAGGCCACGTCAGCAT 60.047 61.111 5.01 0.00 0.00 3.79
681 726 0.318445 CGTTTTCTGACGGTCCGAGT 60.318 55.000 20.51 0.00 39.27 4.18
683 728 0.599558 ATCGTTTTCTGACGGTCCGA 59.400 50.000 20.51 6.53 42.98 4.55
701 746 5.782893 TGCCAGTTGCTAGTGTTTTAAAT 57.217 34.783 2.31 0.00 42.00 1.40
710 755 1.895131 CCCAAATTGCCAGTTGCTAGT 59.105 47.619 0.00 0.00 42.00 2.57
732 777 5.354234 ACTTTTCACGTCAGTTGTCTCAAAT 59.646 36.000 0.00 0.00 0.00 2.32
744 790 6.071560 ACTGATACCTATCACTTTTCACGTCA 60.072 38.462 0.00 0.00 37.76 4.35
749 795 9.567776 TTTTTGACTGATACCTATCACTTTTCA 57.432 29.630 0.00 0.00 37.76 2.69
801 850 6.990798 AGGCGAGGGAATAGTATAAAACTAC 58.009 40.000 0.00 0.00 43.47 2.73
802 851 8.710749 TTAGGCGAGGGAATAGTATAAAACTA 57.289 34.615 0.00 0.00 44.76 2.24
803 852 7.607615 TTAGGCGAGGGAATAGTATAAAACT 57.392 36.000 0.00 0.00 42.62 2.66
804 853 6.368243 GCTTAGGCGAGGGAATAGTATAAAAC 59.632 42.308 0.00 0.00 0.00 2.43
805 854 6.461640 GCTTAGGCGAGGGAATAGTATAAAA 58.538 40.000 0.00 0.00 0.00 1.52
806 855 5.046807 GGCTTAGGCGAGGGAATAGTATAAA 60.047 44.000 0.00 0.00 39.81 1.40
807 856 4.465305 GGCTTAGGCGAGGGAATAGTATAA 59.535 45.833 0.00 0.00 39.81 0.98
808 857 4.021916 GGCTTAGGCGAGGGAATAGTATA 58.978 47.826 0.00 0.00 39.81 1.47
809 858 2.832733 GGCTTAGGCGAGGGAATAGTAT 59.167 50.000 0.00 0.00 39.81 2.12
810 859 2.158355 AGGCTTAGGCGAGGGAATAGTA 60.158 50.000 0.00 0.00 39.81 1.82
811 860 1.049402 GGCTTAGGCGAGGGAATAGT 58.951 55.000 0.00 0.00 39.81 2.12
812 861 1.343069 AGGCTTAGGCGAGGGAATAG 58.657 55.000 0.00 0.00 39.81 1.73
813 862 2.526432 CTAGGCTTAGGCGAGGGAATA 58.474 52.381 7.96 0.00 39.81 1.75
814 863 1.343069 CTAGGCTTAGGCGAGGGAAT 58.657 55.000 7.96 0.00 39.81 3.01
815 864 1.400530 GCTAGGCTTAGGCGAGGGAA 61.401 60.000 16.48 0.00 39.81 3.97
816 865 1.833049 GCTAGGCTTAGGCGAGGGA 60.833 63.158 16.48 0.00 39.81 4.20
817 866 1.686325 TTGCTAGGCTTAGGCGAGGG 61.686 60.000 16.48 2.71 39.81 4.30
818 867 0.178068 TTTGCTAGGCTTAGGCGAGG 59.822 55.000 16.48 4.97 39.81 4.63
819 868 2.024176 TTTTGCTAGGCTTAGGCGAG 57.976 50.000 11.25 11.25 39.81 5.03
820 869 2.027561 TCTTTTTGCTAGGCTTAGGCGA 60.028 45.455 4.88 0.00 39.81 5.54
821 870 2.352960 CTCTTTTTGCTAGGCTTAGGCG 59.647 50.000 4.88 0.00 39.81 5.52
822 871 2.098280 GCTCTTTTTGCTAGGCTTAGGC 59.902 50.000 4.88 0.00 37.82 3.93
823 872 2.685388 GGCTCTTTTTGCTAGGCTTAGG 59.315 50.000 4.88 0.00 33.32 2.69
824 873 3.347216 TGGCTCTTTTTGCTAGGCTTAG 58.653 45.455 0.00 0.00 36.79 2.18
825 874 3.433306 TGGCTCTTTTTGCTAGGCTTA 57.567 42.857 0.00 0.00 36.79 3.09
826 875 2.292828 TGGCTCTTTTTGCTAGGCTT 57.707 45.000 0.00 0.00 36.79 4.35
827 876 1.889170 GTTGGCTCTTTTTGCTAGGCT 59.111 47.619 0.00 0.00 36.79 4.58
828 877 1.067565 GGTTGGCTCTTTTTGCTAGGC 60.068 52.381 0.00 0.00 36.41 3.93
829 878 2.029918 GTGGTTGGCTCTTTTTGCTAGG 60.030 50.000 0.00 0.00 0.00 3.02
830 879 2.887152 AGTGGTTGGCTCTTTTTGCTAG 59.113 45.455 0.00 0.00 0.00 3.42
831 880 2.944129 AGTGGTTGGCTCTTTTTGCTA 58.056 42.857 0.00 0.00 0.00 3.49
832 881 1.780503 AGTGGTTGGCTCTTTTTGCT 58.219 45.000 0.00 0.00 0.00 3.91
833 882 2.602257 AAGTGGTTGGCTCTTTTTGC 57.398 45.000 0.00 0.00 0.00 3.68
834 883 4.122143 TGAAAGTGGTTGGCTCTTTTTG 57.878 40.909 0.00 0.00 32.59 2.44
843 892 3.447229 ACTTCTGGTTTGAAAGTGGTTGG 59.553 43.478 0.00 0.00 0.00 3.77
882 931 4.039357 CGTCGGTGTCTGCCTCGT 62.039 66.667 0.00 0.00 0.00 4.18
890 939 2.629763 GTTGTTGCCGTCGGTGTC 59.370 61.111 13.94 4.10 0.00 3.67
943 1303 2.305127 CGCTGGTTGCTTGCTTTGC 61.305 57.895 0.00 0.00 40.11 3.68
1110 1470 0.809385 GGATGAAGTCGACCGAGACA 59.191 55.000 13.01 6.10 43.24 3.41
1278 1638 2.915659 ACGAACCAGACGCCCTCA 60.916 61.111 0.00 0.00 0.00 3.86
1461 1842 1.003839 GATCGTTGGCAGTGGACCA 60.004 57.895 0.00 0.00 34.65 4.02
1462 1843 1.745489 GGATCGTTGGCAGTGGACC 60.745 63.158 0.00 0.00 0.00 4.46
1463 1844 0.605319 TTGGATCGTTGGCAGTGGAC 60.605 55.000 0.00 0.00 0.00 4.02
1464 1845 0.327924 ATTGGATCGTTGGCAGTGGA 59.672 50.000 0.00 0.00 0.00 4.02
1465 1846 0.734889 GATTGGATCGTTGGCAGTGG 59.265 55.000 0.00 0.00 0.00 4.00
1466 1847 0.734889 GGATTGGATCGTTGGCAGTG 59.265 55.000 0.00 0.00 0.00 3.66
1467 1848 0.327924 TGGATTGGATCGTTGGCAGT 59.672 50.000 0.00 0.00 0.00 4.40
1469 1850 1.173043 GTTGGATTGGATCGTTGGCA 58.827 50.000 0.00 0.00 0.00 4.92
1472 1853 5.048782 TCTCTTTTGTTGGATTGGATCGTTG 60.049 40.000 0.00 0.00 0.00 4.10
1474 1855 4.651778 TCTCTTTTGTTGGATTGGATCGT 58.348 39.130 0.00 0.00 0.00 3.73
1475 1856 5.627499 TTCTCTTTTGTTGGATTGGATCG 57.373 39.130 0.00 0.00 0.00 3.69
1476 1857 6.748132 TGTTTCTCTTTTGTTGGATTGGATC 58.252 36.000 0.00 0.00 0.00 3.36
1529 1914 4.143333 GGCAGCGCCCGAGTTAGA 62.143 66.667 2.29 0.00 44.06 2.10
1594 1983 1.300963 GTGGCTGAAGCAGATCCCA 59.699 57.895 4.43 0.00 44.36 4.37
1873 2262 4.657824 AAGACCACGGCCGTCACG 62.658 66.667 31.80 21.04 32.41 4.35
2188 2580 2.258591 CTCCAGTCCGACACCGTG 59.741 66.667 0.40 0.00 0.00 4.94
2548 2946 9.300681 TGAAAAGAAATCAACAGAATATGACCT 57.699 29.630 0.00 0.00 0.00 3.85
2554 2952 9.695526 CCACAATGAAAAGAAATCAACAGAATA 57.304 29.630 0.00 0.00 0.00 1.75
2555 2953 8.423349 TCCACAATGAAAAGAAATCAACAGAAT 58.577 29.630 0.00 0.00 0.00 2.40
2556 2954 7.780064 TCCACAATGAAAAGAAATCAACAGAA 58.220 30.769 0.00 0.00 0.00 3.02
2557 2955 7.345422 TCCACAATGAAAAGAAATCAACAGA 57.655 32.000 0.00 0.00 0.00 3.41
2575 2976 4.642437 TGACAGCTTACAATTGTTCCACAA 59.358 37.500 17.78 3.41 42.95 3.33
2618 3019 2.917713 TTGCCCCACCATAAACTGAT 57.082 45.000 0.00 0.00 0.00 2.90
2891 3293 5.896073 TCCTCCCCTCAGAGAAATATTTC 57.104 43.478 18.70 18.70 35.82 2.17
3087 3819 7.373493 ACAGATTAGCCTTGAAAACTTTCATG 58.627 34.615 5.75 8.09 45.65 3.07
3242 4092 6.713450 CCAGAGTTAGGGCAGTAAAAAGTAAA 59.287 38.462 0.00 0.00 0.00 2.01
3358 4208 9.129532 CTTCTTATTCCAGCTTTAAATCAGGAT 57.870 33.333 4.27 0.00 0.00 3.24
3402 4346 0.978151 TGGTTTACTCTGCCGGCTAA 59.022 50.000 29.70 15.03 0.00 3.09


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

AutoCloner maintained by Alex Coulton.