Multiple sequence alignment - TraesCS2A01G561100

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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 TraesCS2A01G561100 chr2A 100.000 3838 0 0 1 3838 762983122 762986959 0.000000e+00 7088.0
1 TraesCS2A01G561100 chr2A 79.850 2263 387 43 993 3214 762801441 762803675 0.000000e+00 1589.0
2 TraesCS2A01G561100 chr2A 80.231 1988 338 33 991 2952 762883991 762885949 0.000000e+00 1443.0
3 TraesCS2A01G561100 chr2A 76.099 523 91 17 3318 3835 763021034 763021527 3.830000e-60 243.0
4 TraesCS2A01G561100 chr2A 86.364 88 12 0 3311 3398 761775180 761775093 3.160000e-16 97.1
5 TraesCS2A01G561100 chr2B 95.431 3064 97 17 794 3838 794565718 794562679 0.000000e+00 4843.0
6 TraesCS2A01G561100 chr2B 93.331 2939 145 16 917 3838 794484147 794487051 0.000000e+00 4294.0
7 TraesCS2A01G561100 chr2B 79.790 2291 393 43 966 3215 794630584 794628323 0.000000e+00 1602.0
8 TraesCS2A01G561100 chr2B 78.009 2260 432 37 997 3214 794672233 794669997 0.000000e+00 1360.0
9 TraesCS2A01G561100 chr2B 96.110 694 14 6 10 694 794566525 794565836 0.000000e+00 1120.0
10 TraesCS2A01G561100 chr2B 85.498 331 13 11 375 691 794483647 794483956 2.880000e-81 313.0
11 TraesCS2A01G561100 chr2B 83.667 300 21 13 11 302 794483349 794483628 1.370000e-64 257.0
12 TraesCS2A01G561100 chr2B 83.575 207 29 3 3308 3510 794594727 794594932 5.060000e-44 189.0
13 TraesCS2A01G561100 chr2B 81.116 233 40 3 3309 3539 794378807 794379037 2.350000e-42 183.0
14 TraesCS2A01G561100 chr2B 88.636 88 10 0 3311 3398 796168437 796168524 1.460000e-19 108.0
15 TraesCS2A01G561100 chr2B 100.000 32 0 0 692 723 794484014 794484045 4.140000e-05 60.2
16 TraesCS2A01G561100 chr2B 100.000 31 0 0 693 723 794565777 794565747 1.490000e-04 58.4
17 TraesCS2A01G561100 chr2B 100.000 28 0 0 748 775 794565741 794565714 7.000000e-03 52.8
18 TraesCS2A01G561100 chr6B 80.384 2289 390 31 966 3212 130301782 130304053 0.000000e+00 1685.0
19 TraesCS2A01G561100 chr6B 73.802 2149 441 74 1138 3215 23286708 23288805 0.000000e+00 737.0
20 TraesCS2A01G561100 chr6B 86.147 231 32 0 3309 3539 130304072 130304302 2.290000e-62 250.0
21 TraesCS2A01G561100 chr6D 80.157 2293 395 33 966 3215 58043029 58045304 0.000000e+00 1659.0
22 TraesCS2A01G561100 chr6D 85.714 231 33 0 3309 3539 58045320 58045550 1.070000e-60 244.0
23 TraesCS2A01G561100 chr2D 83.863 1574 222 22 1666 3212 637340695 637339127 0.000000e+00 1471.0
24 TraesCS2A01G561100 chr2D 78.615 2282 408 52 982 3214 636795500 636793250 0.000000e+00 1437.0
25 TraesCS2A01G561100 chr2D 79.245 2067 377 35 998 3027 637021511 637019460 0.000000e+00 1393.0
26 TraesCS2A01G561100 chr2D 81.735 219 40 0 3319 3537 636773672 636773454 2.350000e-42 183.0
27 TraesCS2A01G561100 chr1B 78.675 2265 406 53 991 3215 626091104 626093331 0.000000e+00 1435.0
28 TraesCS2A01G561100 chr7B 72.797 919 203 27 993 1887 746157368 746156473 6.320000e-68 268.0
29 TraesCS2A01G561100 chr6A 72.607 606 134 21 1138 1727 13965837 13966426 1.830000e-38 171.0
30 TraesCS2A01G561100 chrUn 73.638 459 96 13 1280 1727 475807783 475808227 1.850000e-33 154.0


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 TraesCS2A01G561100 chr2A 762983122 762986959 3837 False 7088.00 7088 100.00000 1 3838 1 chr2A.!!$F3 3837
1 TraesCS2A01G561100 chr2A 762801441 762803675 2234 False 1589.00 1589 79.85000 993 3214 1 chr2A.!!$F1 2221
2 TraesCS2A01G561100 chr2A 762883991 762885949 1958 False 1443.00 1443 80.23100 991 2952 1 chr2A.!!$F2 1961
3 TraesCS2A01G561100 chr2B 794628323 794630584 2261 True 1602.00 1602 79.79000 966 3215 1 chr2B.!!$R1 2249
4 TraesCS2A01G561100 chr2B 794562679 794566525 3846 True 1518.55 4843 97.88525 10 3838 4 chr2B.!!$R3 3828
5 TraesCS2A01G561100 chr2B 794669997 794672233 2236 True 1360.00 1360 78.00900 997 3214 1 chr2B.!!$R2 2217
6 TraesCS2A01G561100 chr2B 794483349 794487051 3702 False 1231.05 4294 90.62400 11 3838 4 chr2B.!!$F4 3827
7 TraesCS2A01G561100 chr6B 130301782 130304302 2520 False 967.50 1685 83.26550 966 3539 2 chr6B.!!$F2 2573
8 TraesCS2A01G561100 chr6B 23286708 23288805 2097 False 737.00 737 73.80200 1138 3215 1 chr6B.!!$F1 2077
9 TraesCS2A01G561100 chr6D 58043029 58045550 2521 False 951.50 1659 82.93550 966 3539 2 chr6D.!!$F1 2573
10 TraesCS2A01G561100 chr2D 637339127 637340695 1568 True 1471.00 1471 83.86300 1666 3212 1 chr2D.!!$R4 1546
11 TraesCS2A01G561100 chr2D 636793250 636795500 2250 True 1437.00 1437 78.61500 982 3214 1 chr2D.!!$R2 2232
12 TraesCS2A01G561100 chr2D 637019460 637021511 2051 True 1393.00 1393 79.24500 998 3027 1 chr2D.!!$R3 2029
13 TraesCS2A01G561100 chr1B 626091104 626093331 2227 False 1435.00 1435 78.67500 991 3215 1 chr1B.!!$F1 2224
14 TraesCS2A01G561100 chr7B 746156473 746157368 895 True 268.00 268 72.79700 993 1887 1 chr7B.!!$R1 894

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
645 671 1.064537 TGGATGTGGATGTGGATGTGG 60.065 52.381 0.0 0.0 0.0 4.17 F
1349 1444 0.106318 AATGCAGCCCAATCTCCTCC 60.106 55.000 0.0 0.0 0.0 4.30 F
1350 1445 0.992431 ATGCAGCCCAATCTCCTCCT 60.992 55.000 0.0 0.0 0.0 3.69 F
1351 1446 1.148048 GCAGCCCAATCTCCTCCTC 59.852 63.158 0.0 0.0 0.0 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1588 1713 0.793250 GCCAAACTCGTTGCTCTCTC 59.207 55.000 0.00 0.0 35.74 3.20 R
2325 2483 3.683365 TGCATGTAGCTCAACTGAAGA 57.317 42.857 0.00 0.0 45.94 2.87 R
2787 2964 5.013236 CGCATACGCAAAAGTTTAGTACAG 58.987 41.667 0.00 0.0 38.40 2.74 R
3575 3774 3.399305 TGGCTAGATCTGTCAGGGATAGA 59.601 47.826 5.18 0.0 34.54 1.98 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
226 236 2.971660 TCCGCGTCCTTGATTTATCA 57.028 45.000 4.92 0.00 34.44 2.15
257 267 2.973406 TCTCCTCTCCTCGCATACTCTA 59.027 50.000 0.00 0.00 0.00 2.43
259 269 3.745799 TCCTCTCCTCGCATACTCTAAG 58.254 50.000 0.00 0.00 0.00 2.18
291 304 1.317613 TTCCGCTTGCAAGACACAAT 58.682 45.000 30.39 0.00 0.00 2.71
333 346 5.483811 AGACTCTAGAGCCTTAAACAAAGC 58.516 41.667 19.97 0.00 33.49 3.51
383 396 8.860088 CCCTCCATAAAAGAAAGAAAGAAAGAA 58.140 33.333 0.00 0.00 0.00 2.52
644 670 2.423446 TGGATGTGGATGTGGATGTG 57.577 50.000 0.00 0.00 0.00 3.21
645 671 1.064537 TGGATGTGGATGTGGATGTGG 60.065 52.381 0.00 0.00 0.00 4.17
730 821 2.910688 CACCTGATGCCCGTATTAGT 57.089 50.000 0.00 0.00 0.00 2.24
732 823 4.330944 CACCTGATGCCCGTATTAGTAA 57.669 45.455 0.00 0.00 0.00 2.24
733 824 4.894784 CACCTGATGCCCGTATTAGTAAT 58.105 43.478 0.17 0.17 0.00 1.89
734 825 5.305585 CACCTGATGCCCGTATTAGTAATT 58.694 41.667 0.00 0.00 0.00 1.40
735 826 5.179368 CACCTGATGCCCGTATTAGTAATTG 59.821 44.000 0.00 0.00 0.00 2.32
736 827 4.154195 CCTGATGCCCGTATTAGTAATTGC 59.846 45.833 0.00 0.85 0.00 3.56
737 828 4.709250 TGATGCCCGTATTAGTAATTGCA 58.291 39.130 0.00 6.19 0.00 4.08
738 829 4.754618 TGATGCCCGTATTAGTAATTGCAG 59.245 41.667 0.00 0.00 0.00 4.41
739 830 4.409718 TGCCCGTATTAGTAATTGCAGA 57.590 40.909 0.00 0.00 0.00 4.26
740 831 4.377021 TGCCCGTATTAGTAATTGCAGAG 58.623 43.478 0.00 0.00 0.00 3.35
741 832 4.100344 TGCCCGTATTAGTAATTGCAGAGA 59.900 41.667 0.00 0.00 0.00 3.10
742 833 5.221641 TGCCCGTATTAGTAATTGCAGAGAT 60.222 40.000 0.00 0.00 0.00 2.75
743 834 6.014925 TGCCCGTATTAGTAATTGCAGAGATA 60.015 38.462 0.00 0.00 0.00 1.98
774 865 3.275999 TCCTCTAATTAACTTTGCGGCC 58.724 45.455 0.00 0.00 0.00 6.13
775 866 2.031683 CCTCTAATTAACTTTGCGGCCG 59.968 50.000 24.05 24.05 0.00 6.13
776 867 2.933906 CTCTAATTAACTTTGCGGCCGA 59.066 45.455 33.48 11.82 0.00 5.54
777 868 3.537580 TCTAATTAACTTTGCGGCCGAT 58.462 40.909 33.48 7.77 0.00 4.18
778 869 2.559998 AATTAACTTTGCGGCCGATG 57.440 45.000 33.48 17.11 0.00 3.84
779 870 1.459450 ATTAACTTTGCGGCCGATGT 58.541 45.000 33.48 17.82 0.00 3.06
780 871 2.096220 TTAACTTTGCGGCCGATGTA 57.904 45.000 33.48 8.74 0.00 2.29
781 872 2.319136 TAACTTTGCGGCCGATGTAT 57.681 45.000 33.48 12.28 0.00 2.29
782 873 2.319136 AACTTTGCGGCCGATGTATA 57.681 45.000 33.48 5.96 0.00 1.47
783 874 2.319136 ACTTTGCGGCCGATGTATAA 57.681 45.000 33.48 10.25 0.00 0.98
784 875 1.937899 ACTTTGCGGCCGATGTATAAC 59.062 47.619 33.48 9.04 0.00 1.89
785 876 2.210116 CTTTGCGGCCGATGTATAACT 58.790 47.619 33.48 0.00 0.00 2.24
786 877 3.181473 ACTTTGCGGCCGATGTATAACTA 60.181 43.478 33.48 1.62 0.00 2.24
787 878 3.455990 TTGCGGCCGATGTATAACTAA 57.544 42.857 33.48 4.12 0.00 2.24
788 879 3.671008 TGCGGCCGATGTATAACTAAT 57.329 42.857 33.48 0.00 0.00 1.73
789 880 3.997762 TGCGGCCGATGTATAACTAATT 58.002 40.909 33.48 0.00 0.00 1.40
790 881 3.991773 TGCGGCCGATGTATAACTAATTC 59.008 43.478 33.48 5.17 0.00 2.17
791 882 3.370061 GCGGCCGATGTATAACTAATTCC 59.630 47.826 33.48 0.00 0.00 3.01
792 883 4.562082 CGGCCGATGTATAACTAATTCCA 58.438 43.478 24.07 0.00 0.00 3.53
793 884 4.387862 CGGCCGATGTATAACTAATTCCAC 59.612 45.833 24.07 0.00 0.00 4.02
794 885 4.387862 GGCCGATGTATAACTAATTCCACG 59.612 45.833 0.00 0.00 0.00 4.94
795 886 4.387862 GCCGATGTATAACTAATTCCACGG 59.612 45.833 0.00 0.00 38.72 4.94
850 941 7.436080 ACAGTTTGCTCAATTAATGACTTGTTG 59.564 33.333 0.00 0.00 33.47 3.33
852 943 7.981225 AGTTTGCTCAATTAATGACTTGTTGTT 59.019 29.630 0.00 0.00 33.47 2.83
853 944 7.697352 TTGCTCAATTAATGACTTGTTGTTG 57.303 32.000 0.00 0.00 33.47 3.33
854 945 6.804677 TGCTCAATTAATGACTTGTTGTTGT 58.195 32.000 0.00 0.00 33.47 3.32
855 946 6.696583 TGCTCAATTAATGACTTGTTGTTGTG 59.303 34.615 0.00 0.00 33.47 3.33
856 947 6.697019 GCTCAATTAATGACTTGTTGTTGTGT 59.303 34.615 0.00 0.00 33.47 3.72
857 948 7.860373 GCTCAATTAATGACTTGTTGTTGTGTA 59.140 33.333 0.00 0.00 33.47 2.90
858 949 9.169468 CTCAATTAATGACTTGTTGTTGTGTAC 57.831 33.333 0.00 0.00 33.47 2.90
859 950 8.678199 TCAATTAATGACTTGTTGTTGTGTACA 58.322 29.630 0.00 0.00 31.50 2.90
860 951 9.462174 CAATTAATGACTTGTTGTTGTGTACAT 57.538 29.630 0.00 0.00 36.44 2.29
910 1004 8.641498 AATAACATAATTATTGCTAGCTGGCT 57.359 30.769 23.43 6.33 0.00 4.75
977 1072 3.414700 CGCAGGCAGGACGACAAC 61.415 66.667 0.00 0.00 0.00 3.32
979 1074 2.607892 GCAGGCAGGACGACAACAC 61.608 63.158 0.00 0.00 0.00 3.32
1073 1168 1.902508 GTTCCAGTGGACCAGATCTGA 59.097 52.381 24.62 0.39 0.00 3.27
1257 1352 5.374071 GAAAACCTCCTTCCACTACTCAAA 58.626 41.667 0.00 0.00 0.00 2.69
1267 1362 6.071334 CCTTCCACTACTCAAAGATACAGTGA 60.071 42.308 0.00 0.00 36.37 3.41
1349 1444 0.106318 AATGCAGCCCAATCTCCTCC 60.106 55.000 0.00 0.00 0.00 4.30
1350 1445 0.992431 ATGCAGCCCAATCTCCTCCT 60.992 55.000 0.00 0.00 0.00 3.69
1351 1446 1.148048 GCAGCCCAATCTCCTCCTC 59.852 63.158 0.00 0.00 0.00 3.71
1436 1549 4.968259 TCAAGGTTGAGGAATCTTTCGAA 58.032 39.130 0.00 0.00 29.39 3.71
1555 1671 4.994907 TGTTATTACAAGGAGCTAGCGA 57.005 40.909 9.55 0.00 0.00 4.93
1568 1684 2.295909 AGCTAGCGAAGGTGATGAGATC 59.704 50.000 9.55 0.00 40.22 2.75
1587 1712 4.827284 AGATCTCCCACAAATTCAAAACGT 59.173 37.500 0.00 0.00 0.00 3.99
1588 1713 4.300189 TCTCCCACAAATTCAAAACGTG 57.700 40.909 0.00 0.00 0.00 4.49
1869 2027 4.878397 ACAACCGATGATTTGGATTCTCTC 59.122 41.667 0.00 0.00 0.00 3.20
1990 2148 2.698274 AGGTTTTGTGCACCTTTTAGGG 59.302 45.455 15.69 0.00 42.45 3.53
2325 2483 2.165998 GAGGCTGACATTTTTCCTGCT 58.834 47.619 0.00 0.00 0.00 4.24
2787 2964 1.136891 GGATTTGTAATGGGCCACTGC 59.863 52.381 9.28 0.51 0.00 4.40
3622 3821 3.781079 TGGCTGCCGAAATTTATCAAG 57.219 42.857 14.98 0.00 0.00 3.02
3623 3822 2.159254 TGGCTGCCGAAATTTATCAAGC 60.159 45.455 14.98 0.00 0.00 4.01
3700 3899 4.534500 TGGAGGTTGCAAGAGGTTAGAATA 59.466 41.667 0.00 0.00 0.00 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
226 236 1.575304 AGGAGAGGAGAGGAGAGCATT 59.425 52.381 0.00 0.00 0.00 3.56
257 267 2.024414 GCGGAAAATGGCAGTATCCTT 58.976 47.619 11.84 0.00 0.00 3.36
259 269 1.680338 AGCGGAAAATGGCAGTATCC 58.320 50.000 0.00 0.00 0.00 2.59
333 346 6.526674 GGTGCAAATGGTAAACTAATCGAAAG 59.473 38.462 0.00 0.00 0.00 2.62
383 396 4.554723 CGAAAACCAGTCGCAATCTTTCTT 60.555 41.667 0.00 0.00 0.00 2.52
384 397 3.058914 CGAAAACCAGTCGCAATCTTTCT 60.059 43.478 0.00 0.00 0.00 2.52
385 398 3.226347 CGAAAACCAGTCGCAATCTTTC 58.774 45.455 0.00 0.00 0.00 2.62
386 399 3.268013 CGAAAACCAGTCGCAATCTTT 57.732 42.857 0.00 0.00 0.00 2.52
644 670 1.810031 GCAACTTTTGGGGAAACAGCC 60.810 52.381 0.00 0.00 0.00 4.85
645 671 1.138859 AGCAACTTTTGGGGAAACAGC 59.861 47.619 0.00 0.00 0.00 4.40
728 819 9.323985 GAAGACAAAGATATCTCTGCAATTACT 57.676 33.333 5.51 0.00 0.00 2.24
729 820 8.555361 GGAAGACAAAGATATCTCTGCAATTAC 58.445 37.037 5.51 0.00 0.00 1.89
730 821 8.489489 AGGAAGACAAAGATATCTCTGCAATTA 58.511 33.333 5.51 0.00 0.00 1.40
731 822 7.344913 AGGAAGACAAAGATATCTCTGCAATT 58.655 34.615 5.51 0.00 0.00 2.32
732 823 6.897986 AGGAAGACAAAGATATCTCTGCAAT 58.102 36.000 5.51 0.00 0.00 3.56
733 824 6.155910 AGAGGAAGACAAAGATATCTCTGCAA 59.844 38.462 5.51 0.00 0.00 4.08
734 825 5.660417 AGAGGAAGACAAAGATATCTCTGCA 59.340 40.000 5.51 0.00 0.00 4.41
735 826 6.160576 AGAGGAAGACAAAGATATCTCTGC 57.839 41.667 5.51 0.00 0.00 4.26
774 865 4.986034 TGCCGTGGAATTAGTTATACATCG 59.014 41.667 0.00 0.00 0.00 3.84
775 866 6.259167 TGTTGCCGTGGAATTAGTTATACATC 59.741 38.462 0.00 0.00 0.00 3.06
776 867 6.116806 TGTTGCCGTGGAATTAGTTATACAT 58.883 36.000 0.00 0.00 0.00 2.29
777 868 5.489249 TGTTGCCGTGGAATTAGTTATACA 58.511 37.500 0.00 0.00 0.00 2.29
778 869 6.613755 ATGTTGCCGTGGAATTAGTTATAC 57.386 37.500 0.00 0.00 0.00 1.47
779 870 8.372459 AGATATGTTGCCGTGGAATTAGTTATA 58.628 33.333 0.00 0.00 0.00 0.98
780 871 7.173218 CAGATATGTTGCCGTGGAATTAGTTAT 59.827 37.037 0.00 0.00 0.00 1.89
781 872 6.481976 CAGATATGTTGCCGTGGAATTAGTTA 59.518 38.462 0.00 0.00 0.00 2.24
782 873 5.296780 CAGATATGTTGCCGTGGAATTAGTT 59.703 40.000 0.00 0.00 0.00 2.24
783 874 4.816385 CAGATATGTTGCCGTGGAATTAGT 59.184 41.667 0.00 0.00 0.00 2.24
784 875 4.319766 GCAGATATGTTGCCGTGGAATTAG 60.320 45.833 0.00 0.00 35.54 1.73
785 876 3.563808 GCAGATATGTTGCCGTGGAATTA 59.436 43.478 0.00 0.00 35.54 1.40
786 877 2.358898 GCAGATATGTTGCCGTGGAATT 59.641 45.455 0.00 0.00 35.54 2.17
787 878 1.949525 GCAGATATGTTGCCGTGGAAT 59.050 47.619 0.00 0.00 35.54 3.01
788 879 1.065491 AGCAGATATGTTGCCGTGGAA 60.065 47.619 5.42 0.00 42.48 3.53
789 880 0.541392 AGCAGATATGTTGCCGTGGA 59.459 50.000 5.42 0.00 42.48 4.02
790 881 0.659427 CAGCAGATATGTTGCCGTGG 59.341 55.000 5.42 0.00 42.48 4.94
791 882 0.659427 CCAGCAGATATGTTGCCGTG 59.341 55.000 0.00 0.06 42.48 4.94
792 883 0.464373 CCCAGCAGATATGTTGCCGT 60.464 55.000 0.00 0.00 42.48 5.68
793 884 1.789078 GCCCAGCAGATATGTTGCCG 61.789 60.000 0.00 0.00 42.48 5.69
794 885 0.752743 TGCCCAGCAGATATGTTGCC 60.753 55.000 0.00 0.00 42.48 4.52
795 886 1.105457 TTGCCCAGCAGATATGTTGC 58.895 50.000 0.00 1.42 40.61 4.17
850 941 9.840427 AAATTTTGCAGTCTATATGTACACAAC 57.160 29.630 0.00 0.00 0.00 3.32
857 948 9.461312 TGGAAGTAAATTTTGCAGTCTATATGT 57.539 29.630 0.00 0.00 0.00 2.29
887 981 6.072508 GCAGCCAGCTAGCAATAATTATGTTA 60.073 38.462 18.83 0.00 41.15 2.41
888 982 5.278660 GCAGCCAGCTAGCAATAATTATGTT 60.279 40.000 18.83 0.00 41.15 2.71
889 983 4.217118 GCAGCCAGCTAGCAATAATTATGT 59.783 41.667 18.83 0.00 41.15 2.29
907 1001 9.692749 TTTAGCATTATATATATAGACGCAGCC 57.307 33.333 16.28 0.44 0.00 4.85
974 1069 2.354510 ACTGGACGTTTGACATGTGTTG 59.645 45.455 1.15 0.00 0.00 3.33
977 1072 2.032894 GTGACTGGACGTTTGACATGTG 60.033 50.000 1.15 0.00 0.00 3.21
979 1074 1.531149 GGTGACTGGACGTTTGACATG 59.469 52.381 0.00 0.00 0.00 3.21
985 1080 1.878102 GCTCATGGTGACTGGACGTTT 60.878 52.381 0.00 0.00 0.00 3.60
989 1084 1.195115 TAGGCTCATGGTGACTGGAC 58.805 55.000 0.00 0.00 0.00 4.02
1073 1168 2.625737 CGGAGTGCAGAGATGAAATGT 58.374 47.619 0.00 0.00 0.00 2.71
1216 1311 3.055719 CACACGGGTGTCATGGCC 61.056 66.667 10.41 0.00 42.83 5.36
1249 1344 7.551585 ACCTCATTCACTGTATCTTTGAGTAG 58.448 38.462 0.00 0.00 0.00 2.57
1257 1352 3.634448 CCTCGACCTCATTCACTGTATCT 59.366 47.826 0.00 0.00 0.00 1.98
1372 1485 0.251474 AAGCTGCTGCCTTGGATGAA 60.251 50.000 12.44 0.00 40.80 2.57
1436 1549 0.767446 CCCCAGGATCTCCAGCTGAT 60.767 60.000 17.39 0.00 38.89 2.90
1508 1621 5.018809 ACAATAGGTCTTCACATGGCAAAT 58.981 37.500 0.00 0.00 0.00 2.32
1523 1639 8.520351 GCTCCTTGTAATAACAAAACAATAGGT 58.480 33.333 0.00 0.00 44.79 3.08
1555 1671 2.837947 TGTGGGAGATCTCATCACCTT 58.162 47.619 29.40 0.00 39.61 3.50
1568 1684 4.036262 TCTCACGTTTTGAATTTGTGGGAG 59.964 41.667 0.00 0.00 35.26 4.30
1587 1712 1.873903 GCCAAACTCGTTGCTCTCTCA 60.874 52.381 0.00 0.00 35.74 3.27
1588 1713 0.793250 GCCAAACTCGTTGCTCTCTC 59.207 55.000 0.00 0.00 35.74 3.20
1869 2027 1.079503 GCTTAGAAAGGTCACGCTGG 58.920 55.000 0.00 0.00 0.00 4.85
2004 2162 6.341316 TCTAGTAGTGACCAAAATCATGCTC 58.659 40.000 0.00 0.00 0.00 4.26
2325 2483 3.683365 TGCATGTAGCTCAACTGAAGA 57.317 42.857 0.00 0.00 45.94 2.87
2787 2964 5.013236 CGCATACGCAAAAGTTTAGTACAG 58.987 41.667 0.00 0.00 38.40 2.74
3575 3774 3.399305 TGGCTAGATCTGTCAGGGATAGA 59.601 47.826 5.18 0.00 34.54 1.98
3622 3821 4.501071 TGGTAGTAGAAAATGTTCGAGGC 58.499 43.478 0.00 0.00 38.90 4.70
3623 3822 6.649557 ACTTTGGTAGTAGAAAATGTTCGAGG 59.350 38.462 0.00 0.00 38.90 4.63
3700 3899 4.262678 CCCCAAACATTTCCGTTGGTATTT 60.263 41.667 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.