Multiple sequence alignment - TraesCS3D01G295900
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 | TraesCS3D01G295900 | chr3D | 100.000 | 3533 | 0 | 0 | 1 | 3533 | 409013703 | 409010171 | 0.000000e+00 | 6525.0 |
1 | TraesCS3D01G295900 | chr3B | 92.576 | 2748 | 156 | 32 | 4 | 2739 | 534538298 | 534535587 | 0.000000e+00 | 3901.0 |
2 | TraesCS3D01G295900 | chr3A | 94.411 | 2344 | 91 | 24 | 570 | 2892 | 542228715 | 542231039 | 0.000000e+00 | 3567.0 |
3 | TraesCS3D01G295900 | chr3A | 85.285 | 666 | 79 | 14 | 2881 | 3533 | 542230919 | 542231578 | 0.000000e+00 | 669.0 |
4 | TraesCS3D01G295900 | chr3A | 91.223 | 376 | 21 | 4 | 1 | 369 | 542226154 | 542226524 | 5.270000e-138 | 501.0 |
5 | TraesCS3D01G295900 | chr3A | 90.116 | 172 | 16 | 1 | 371 | 541 | 542228550 | 542228721 | 4.590000e-54 | 222.0 |
6 | TraesCS3D01G295900 | chr3A | 90.698 | 43 | 4 | 0 | 305 | 347 | 108879676 | 108879718 | 1.370000e-04 | 58.4 |
7 | TraesCS3D01G295900 | chr7A | 81.319 | 91 | 9 | 7 | 2760 | 2845 | 89037823 | 89037736 | 2.280000e-07 | 67.6 |
8 | TraesCS3D01G295900 | chr1A | 91.304 | 46 | 4 | 0 | 302 | 347 | 373769029 | 373769074 | 2.940000e-06 | 63.9 |
9 | TraesCS3D01G295900 | chr1A | 96.875 | 32 | 1 | 0 | 1217 | 1248 | 63331538 | 63331507 | 2.000000e-03 | 54.7 |
10 | TraesCS3D01G295900 | chr1A | 96.875 | 32 | 1 | 0 | 1217 | 1248 | 63480740 | 63480709 | 2.000000e-03 | 54.7 |
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 | TraesCS3D01G295900 | chr3D | 409010171 | 409013703 | 3532 | True | 6525.00 | 6525 | 100.00000 | 1 | 3533 | 1 | chr3D.!!$R1 | 3532 |
1 | TraesCS3D01G295900 | chr3B | 534535587 | 534538298 | 2711 | True | 3901.00 | 3901 | 92.57600 | 4 | 2739 | 1 | chr3B.!!$R1 | 2735 |
2 | TraesCS3D01G295900 | chr3A | 542226154 | 542231578 | 5424 | False | 1239.75 | 3567 | 90.25875 | 1 | 3533 | 4 | chr3A.!!$F2 | 3532 |
AutoCloner calculated primer pairsThese primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
44 | 45 | 0.549950 | CACATCCTGCATCCCCTCTT | 59.450 | 55.000 | 0.00 | 0.0 | 0.0 | 2.85 | F |
167 | 169 | 1.133823 | TCGCTGATATGGCAATGGGTT | 60.134 | 47.619 | 0.00 | 0.0 | 0.0 | 4.11 | F |
1272 | 3322 | 0.103208 | CGCGCTCCAGGATCTACTTT | 59.897 | 55.000 | 5.56 | 0.0 | 0.0 | 2.66 | F |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability | Orientation |
---|---|---|---|---|---|---|---|---|---|---|
1120 | 3170 | 0.179004 | AACACCTTGATGGCCACGAA | 60.179 | 50.0 | 8.16 | 2.15 | 40.22 | 3.85 | R |
1404 | 3454 | 0.389948 | GCTTGAGGTCACGGTGGTAG | 60.390 | 60.0 | 8.50 | 0.00 | 0.00 | 3.18 | R |
3269 | 5342 | 0.109597 | ATCGTTTAGGTCGCGTTCGT | 60.110 | 50.0 | 5.77 | 5.27 | 36.96 | 3.85 | R |
All possible primersListed 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. |
---|
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
32 | 33 | 4.740822 | GGGCCGCAACCACATCCT | 62.741 | 66.667 | 0.00 | 0.00 | 0.00 | 3.24 |
44 | 45 | 0.549950 | CACATCCTGCATCCCCTCTT | 59.450 | 55.000 | 0.00 | 0.00 | 0.00 | 2.85 |
83 | 84 | 8.110860 | ACGACAATGAAAAATGAGAATAAGGT | 57.889 | 30.769 | 0.00 | 0.00 | 0.00 | 3.50 |
110 | 111 | 1.216990 | GAGGTGATGGGAGGGTGAAT | 58.783 | 55.000 | 0.00 | 0.00 | 0.00 | 2.57 |
167 | 169 | 1.133823 | TCGCTGATATGGCAATGGGTT | 60.134 | 47.619 | 0.00 | 0.00 | 0.00 | 4.11 |
316 | 342 | 9.213777 | TGAAATATGAGTTATACTCCCTCTGTT | 57.786 | 33.333 | 4.52 | 0.00 | 44.44 | 3.16 |
331 | 357 | 8.512138 | ACTCCCTCTGTTTTAAAATAAATGTCG | 58.488 | 33.333 | 3.52 | 0.00 | 0.00 | 4.35 |
332 | 358 | 8.398878 | TCCCTCTGTTTTAAAATAAATGTCGT | 57.601 | 30.769 | 3.52 | 0.00 | 0.00 | 4.34 |
333 | 359 | 8.852135 | TCCCTCTGTTTTAAAATAAATGTCGTT | 58.148 | 29.630 | 3.52 | 0.00 | 0.00 | 3.85 |
529 | 2579 | 4.394439 | TTGTTAAAGGCTGACCCAAAAC | 57.606 | 40.909 | 0.00 | 0.00 | 36.11 | 2.43 |
531 | 2581 | 3.964031 | TGTTAAAGGCTGACCCAAAACAT | 59.036 | 39.130 | 0.00 | 0.00 | 36.11 | 2.71 |
571 | 2621 | 7.052142 | ACGGAGGAAGTACATTCTATTTAGG | 57.948 | 40.000 | 0.00 | 0.00 | 38.07 | 2.69 |
575 | 2625 | 7.290481 | GGAGGAAGTACATTCTATTTAGGAGGT | 59.710 | 40.741 | 0.00 | 0.00 | 38.07 | 3.85 |
649 | 2699 | 7.398047 | TCCACATTAGCTACACCTCTAAACTAA | 59.602 | 37.037 | 0.00 | 0.00 | 0.00 | 2.24 |
1076 | 3126 | 1.153549 | GTCTTCTAGGCCGTGGCAG | 60.154 | 63.158 | 13.76 | 2.38 | 44.11 | 4.85 |
1080 | 3130 | 2.045926 | CTAGGCCGTGGCAGCTTT | 60.046 | 61.111 | 13.76 | 0.00 | 44.11 | 3.51 |
1120 | 3170 | 0.968901 | TAACATCTCCACCGGCGAGT | 60.969 | 55.000 | 9.30 | 0.86 | 0.00 | 4.18 |
1157 | 3207 | 4.680237 | CGACAAGGAGGCCGTGCA | 62.680 | 66.667 | 0.00 | 0.00 | 36.49 | 4.57 |
1272 | 3322 | 0.103208 | CGCGCTCCAGGATCTACTTT | 59.897 | 55.000 | 5.56 | 0.00 | 0.00 | 2.66 |
1281 | 3331 | 4.782691 | TCCAGGATCTACTTTGTCATGGAA | 59.217 | 41.667 | 5.61 | 0.00 | 46.24 | 3.53 |
1318 | 3368 | 1.153568 | CTCTTTGATCGCCTCGCCA | 60.154 | 57.895 | 0.00 | 0.00 | 0.00 | 5.69 |
1609 | 3659 | 2.220133 | CACGCACGTGTTAACTAGCTTT | 59.780 | 45.455 | 18.38 | 0.00 | 40.91 | 3.51 |
1663 | 3713 | 0.179166 | CCCAATGTGTGCATGTACGC | 60.179 | 55.000 | 19.16 | 19.16 | 35.15 | 4.42 |
1839 | 3889 | 3.372123 | TGGTTCTCCATCGACGCA | 58.628 | 55.556 | 0.00 | 0.00 | 39.03 | 5.24 |
1899 | 3949 | 0.748005 | CCCGGATCACCATCACCAAC | 60.748 | 60.000 | 0.73 | 0.00 | 35.59 | 3.77 |
2565 | 4615 | 2.964174 | CGCTTGGCATTTCAGGCA | 59.036 | 55.556 | 0.00 | 0.00 | 39.33 | 4.75 |
2712 | 4775 | 5.108187 | TCTGTCACTACTATAGGAACCGT | 57.892 | 43.478 | 4.43 | 0.00 | 0.00 | 4.83 |
2720 | 4783 | 6.040616 | CACTACTATAGGAACCGTGGAGAAAT | 59.959 | 42.308 | 4.43 | 0.00 | 0.00 | 2.17 |
2740 | 4803 | 1.334160 | TCCGCCTAATAATCGCTGGA | 58.666 | 50.000 | 0.00 | 0.00 | 0.00 | 3.86 |
2741 | 4804 | 1.689813 | TCCGCCTAATAATCGCTGGAA | 59.310 | 47.619 | 0.00 | 0.00 | 0.00 | 3.53 |
2742 | 4805 | 2.103432 | TCCGCCTAATAATCGCTGGAAA | 59.897 | 45.455 | 0.00 | 0.00 | 0.00 | 3.13 |
2745 | 4808 | 3.807622 | CGCCTAATAATCGCTGGAAAAGA | 59.192 | 43.478 | 0.00 | 0.00 | 0.00 | 2.52 |
2746 | 4809 | 4.272504 | CGCCTAATAATCGCTGGAAAAGAA | 59.727 | 41.667 | 0.00 | 0.00 | 0.00 | 2.52 |
2747 | 4810 | 5.220777 | CGCCTAATAATCGCTGGAAAAGAAA | 60.221 | 40.000 | 0.00 | 0.00 | 0.00 | 2.52 |
2748 | 4811 | 6.202226 | GCCTAATAATCGCTGGAAAAGAAAG | 58.798 | 40.000 | 0.00 | 0.00 | 0.00 | 2.62 |
2749 | 4812 | 6.729187 | CCTAATAATCGCTGGAAAAGAAAGG | 58.271 | 40.000 | 0.00 | 0.00 | 0.00 | 3.11 |
2750 | 4813 | 6.318900 | CCTAATAATCGCTGGAAAAGAAAGGT | 59.681 | 38.462 | 0.00 | 0.00 | 0.00 | 3.50 |
2751 | 4814 | 7.497909 | CCTAATAATCGCTGGAAAAGAAAGGTA | 59.502 | 37.037 | 0.00 | 0.00 | 0.00 | 3.08 |
2753 | 4816 | 5.567138 | AATCGCTGGAAAAGAAAGGTATG | 57.433 | 39.130 | 0.00 | 0.00 | 0.00 | 2.39 |
2755 | 4818 | 2.159379 | CGCTGGAAAAGAAAGGTATGGC | 60.159 | 50.000 | 0.00 | 0.00 | 0.00 | 4.40 |
2757 | 4820 | 3.430453 | CTGGAAAAGAAAGGTATGGCCA | 58.570 | 45.455 | 8.56 | 8.56 | 40.61 | 5.36 |
2758 | 4821 | 3.430453 | TGGAAAAGAAAGGTATGGCCAG | 58.570 | 45.455 | 13.05 | 0.00 | 40.61 | 4.85 |
2759 | 4822 | 2.760650 | GGAAAAGAAAGGTATGGCCAGG | 59.239 | 50.000 | 13.05 | 0.00 | 40.61 | 4.45 |
2760 | 4823 | 3.431415 | GAAAAGAAAGGTATGGCCAGGT | 58.569 | 45.455 | 13.05 | 0.00 | 40.61 | 4.00 |
2761 | 4824 | 2.808906 | AAGAAAGGTATGGCCAGGTC | 57.191 | 50.000 | 13.05 | 3.63 | 40.61 | 3.85 |
2762 | 4825 | 0.541863 | AGAAAGGTATGGCCAGGTCG | 59.458 | 55.000 | 13.05 | 0.00 | 40.61 | 4.79 |
2763 | 4826 | 0.539986 | GAAAGGTATGGCCAGGTCGA | 59.460 | 55.000 | 13.05 | 0.00 | 40.61 | 4.20 |
2764 | 4827 | 1.141053 | GAAAGGTATGGCCAGGTCGAT | 59.859 | 52.381 | 13.05 | 0.00 | 40.61 | 3.59 |
2765 | 4828 | 1.213296 | AAGGTATGGCCAGGTCGATT | 58.787 | 50.000 | 13.05 | 0.00 | 40.61 | 3.34 |
2766 | 4829 | 0.469917 | AGGTATGGCCAGGTCGATTG | 59.530 | 55.000 | 13.05 | 0.00 | 40.61 | 2.67 |
2779 | 4842 | 5.065218 | CCAGGTCGATTGAGATTTAACCAAG | 59.935 | 44.000 | 0.00 | 0.00 | 0.00 | 3.61 |
2783 | 4846 | 7.039882 | GGTCGATTGAGATTTAACCAAGTCTA | 58.960 | 38.462 | 0.00 | 0.00 | 31.40 | 2.59 |
2785 | 4848 | 8.596380 | GTCGATTGAGATTTAACCAAGTCTAAG | 58.404 | 37.037 | 0.00 | 0.00 | 31.40 | 2.18 |
2791 | 4854 | 9.793259 | TGAGATTTAACCAAGTCTAAGTCAAAT | 57.207 | 29.630 | 0.00 | 0.00 | 31.40 | 2.32 |
2849 | 4912 | 8.172484 | TGAAAAATATTTACACGGATCTTCACG | 58.828 | 33.333 | 0.01 | 0.00 | 0.00 | 4.35 |
2850 | 4913 | 5.652744 | AATATTTACACGGATCTTCACGC | 57.347 | 39.130 | 0.00 | 0.00 | 0.00 | 5.34 |
2851 | 4914 | 2.442212 | TTTACACGGATCTTCACGCA | 57.558 | 45.000 | 0.00 | 0.00 | 0.00 | 5.24 |
2852 | 4915 | 2.442212 | TTACACGGATCTTCACGCAA | 57.558 | 45.000 | 0.00 | 0.00 | 0.00 | 4.85 |
2854 | 4917 | 0.317160 | ACACGGATCTTCACGCAAGA | 59.683 | 50.000 | 0.16 | 0.16 | 45.60 | 3.02 |
2863 | 4926 | 4.209452 | TCTTCACGCAAGATCAAACAAC | 57.791 | 40.909 | 0.00 | 0.00 | 36.08 | 3.32 |
2864 | 4927 | 3.876914 | TCTTCACGCAAGATCAAACAACT | 59.123 | 39.130 | 0.00 | 0.00 | 36.08 | 3.16 |
2865 | 4928 | 5.053811 | TCTTCACGCAAGATCAAACAACTA | 58.946 | 37.500 | 0.00 | 0.00 | 36.08 | 2.24 |
2866 | 4929 | 5.700832 | TCTTCACGCAAGATCAAACAACTAT | 59.299 | 36.000 | 0.00 | 0.00 | 36.08 | 2.12 |
2867 | 4930 | 6.871492 | TCTTCACGCAAGATCAAACAACTATA | 59.129 | 34.615 | 0.00 | 0.00 | 36.08 | 1.31 |
2868 | 4931 | 6.647212 | TCACGCAAGATCAAACAACTATAG | 57.353 | 37.500 | 0.00 | 0.00 | 43.62 | 1.31 |
2869 | 4932 | 5.063438 | TCACGCAAGATCAAACAACTATAGC | 59.937 | 40.000 | 0.00 | 0.00 | 43.62 | 2.97 |
2870 | 4933 | 4.032900 | ACGCAAGATCAAACAACTATAGCG | 59.967 | 41.667 | 0.00 | 0.00 | 44.98 | 4.26 |
2871 | 4934 | 4.274865 | GCAAGATCAAACAACTATAGCGC | 58.725 | 43.478 | 0.00 | 0.00 | 0.00 | 5.92 |
2872 | 4935 | 4.508971 | CAAGATCAAACAACTATAGCGCG | 58.491 | 43.478 | 0.00 | 0.00 | 0.00 | 6.86 |
2873 | 4936 | 3.782046 | AGATCAAACAACTATAGCGCGT | 58.218 | 40.909 | 8.43 | 0.00 | 0.00 | 6.01 |
2874 | 4937 | 3.551890 | AGATCAAACAACTATAGCGCGTG | 59.448 | 43.478 | 8.43 | 0.00 | 0.00 | 5.34 |
2875 | 4938 | 2.949142 | TCAAACAACTATAGCGCGTGA | 58.051 | 42.857 | 8.43 | 0.00 | 0.00 | 4.35 |
2876 | 4939 | 3.318886 | TCAAACAACTATAGCGCGTGAA | 58.681 | 40.909 | 8.43 | 0.00 | 0.00 | 3.18 |
2877 | 4940 | 3.741856 | TCAAACAACTATAGCGCGTGAAA | 59.258 | 39.130 | 8.43 | 0.00 | 0.00 | 2.69 |
2878 | 4941 | 3.717350 | AACAACTATAGCGCGTGAAAC | 57.283 | 42.857 | 8.43 | 0.00 | 0.00 | 2.78 |
2879 | 4942 | 2.679450 | ACAACTATAGCGCGTGAAACA | 58.321 | 42.857 | 8.43 | 0.00 | 35.74 | 2.83 |
2880 | 4943 | 3.259064 | ACAACTATAGCGCGTGAAACAT | 58.741 | 40.909 | 8.43 | 0.00 | 35.74 | 2.71 |
2881 | 4944 | 4.426416 | ACAACTATAGCGCGTGAAACATA | 58.574 | 39.130 | 8.43 | 0.00 | 35.74 | 2.29 |
2882 | 4945 | 4.865925 | ACAACTATAGCGCGTGAAACATAA | 59.134 | 37.500 | 8.43 | 0.00 | 35.74 | 1.90 |
2883 | 4946 | 5.188194 | CAACTATAGCGCGTGAAACATAAC | 58.812 | 41.667 | 8.43 | 0.00 | 35.74 | 1.89 |
2884 | 4947 | 3.800506 | ACTATAGCGCGTGAAACATAACC | 59.199 | 43.478 | 8.43 | 0.00 | 35.74 | 2.85 |
2885 | 4948 | 2.081725 | TAGCGCGTGAAACATAACCA | 57.918 | 45.000 | 8.43 | 0.00 | 35.74 | 3.67 |
2886 | 4949 | 1.231221 | AGCGCGTGAAACATAACCAA | 58.769 | 45.000 | 8.43 | 0.00 | 35.74 | 3.67 |
2887 | 4950 | 1.196808 | AGCGCGTGAAACATAACCAAG | 59.803 | 47.619 | 8.43 | 0.00 | 35.74 | 3.61 |
2888 | 4951 | 1.069500 | GCGCGTGAAACATAACCAAGT | 60.069 | 47.619 | 8.43 | 0.00 | 35.74 | 3.16 |
2889 | 4952 | 2.834689 | CGCGTGAAACATAACCAAGTC | 58.165 | 47.619 | 0.00 | 0.00 | 35.74 | 3.01 |
2890 | 4953 | 2.478894 | CGCGTGAAACATAACCAAGTCT | 59.521 | 45.455 | 0.00 | 0.00 | 35.74 | 3.24 |
2891 | 4954 | 3.423123 | CGCGTGAAACATAACCAAGTCTC | 60.423 | 47.826 | 0.00 | 0.00 | 35.74 | 3.36 |
2892 | 4955 | 3.746492 | GCGTGAAACATAACCAAGTCTCT | 59.254 | 43.478 | 0.00 | 0.00 | 35.74 | 3.10 |
2893 | 4956 | 4.377431 | GCGTGAAACATAACCAAGTCTCTG | 60.377 | 45.833 | 0.00 | 0.00 | 35.74 | 3.35 |
2894 | 4957 | 4.750098 | CGTGAAACATAACCAAGTCTCTGT | 59.250 | 41.667 | 0.00 | 0.00 | 35.74 | 3.41 |
2895 | 4958 | 5.107453 | CGTGAAACATAACCAAGTCTCTGTC | 60.107 | 44.000 | 0.00 | 0.00 | 35.74 | 3.51 |
2896 | 4959 | 5.758296 | GTGAAACATAACCAAGTCTCTGTCA | 59.242 | 40.000 | 0.00 | 0.00 | 36.32 | 3.58 |
2897 | 4960 | 6.260050 | GTGAAACATAACCAAGTCTCTGTCAA | 59.740 | 38.462 | 0.00 | 0.00 | 36.32 | 3.18 |
2898 | 4961 | 6.483307 | TGAAACATAACCAAGTCTCTGTCAAG | 59.517 | 38.462 | 0.00 | 0.00 | 0.00 | 3.02 |
2899 | 4962 | 5.552870 | ACATAACCAAGTCTCTGTCAAGT | 57.447 | 39.130 | 0.00 | 0.00 | 0.00 | 3.16 |
2900 | 4963 | 5.300752 | ACATAACCAAGTCTCTGTCAAGTG | 58.699 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
2901 | 4964 | 5.070446 | ACATAACCAAGTCTCTGTCAAGTGA | 59.930 | 40.000 | 0.00 | 0.00 | 0.00 | 3.41 |
2902 | 4965 | 4.696479 | AACCAAGTCTCTGTCAAGTGAT | 57.304 | 40.909 | 0.00 | 0.00 | 0.00 | 3.06 |
2903 | 4966 | 4.000331 | ACCAAGTCTCTGTCAAGTGATG | 58.000 | 45.455 | 0.00 | 0.00 | 0.00 | 3.07 |
2904 | 4967 | 3.389329 | ACCAAGTCTCTGTCAAGTGATGT | 59.611 | 43.478 | 0.00 | 0.00 | 0.00 | 3.06 |
2905 | 4968 | 4.588951 | ACCAAGTCTCTGTCAAGTGATGTA | 59.411 | 41.667 | 0.00 | 0.00 | 0.00 | 2.29 |
2906 | 4969 | 5.167121 | CCAAGTCTCTGTCAAGTGATGTAG | 58.833 | 45.833 | 0.00 | 0.00 | 0.00 | 2.74 |
2907 | 4970 | 5.279206 | CCAAGTCTCTGTCAAGTGATGTAGT | 60.279 | 44.000 | 0.00 | 0.00 | 0.00 | 2.73 |
2908 | 4971 | 6.071896 | CCAAGTCTCTGTCAAGTGATGTAGTA | 60.072 | 42.308 | 0.00 | 0.00 | 0.00 | 1.82 |
2909 | 4972 | 7.363355 | CCAAGTCTCTGTCAAGTGATGTAGTAT | 60.363 | 40.741 | 0.00 | 0.00 | 0.00 | 2.12 |
2910 | 4973 | 8.678199 | CAAGTCTCTGTCAAGTGATGTAGTATA | 58.322 | 37.037 | 0.00 | 0.00 | 0.00 | 1.47 |
2911 | 4974 | 8.988546 | AGTCTCTGTCAAGTGATGTAGTATAT | 57.011 | 34.615 | 0.00 | 0.00 | 0.00 | 0.86 |
2912 | 4975 | 8.845227 | AGTCTCTGTCAAGTGATGTAGTATATG | 58.155 | 37.037 | 0.00 | 0.00 | 0.00 | 1.78 |
2913 | 4976 | 8.841300 | GTCTCTGTCAAGTGATGTAGTATATGA | 58.159 | 37.037 | 0.00 | 0.00 | 0.00 | 2.15 |
2983 | 5046 | 7.358066 | CAAGATCAAACAAATATAGCATCGCT | 58.642 | 34.615 | 0.00 | 0.00 | 43.41 | 4.93 |
2984 | 5047 | 6.895898 | AGATCAAACAAATATAGCATCGCTG | 58.104 | 36.000 | 0.00 | 0.00 | 40.10 | 5.18 |
2985 | 5048 | 6.707608 | AGATCAAACAAATATAGCATCGCTGA | 59.292 | 34.615 | 0.00 | 0.00 | 40.10 | 4.26 |
2988 | 5051 | 6.966632 | TCAAACAAATATAGCATCGCTGAAAC | 59.033 | 34.615 | 0.00 | 0.00 | 40.10 | 2.78 |
2989 | 5052 | 6.435430 | AACAAATATAGCATCGCTGAAACA | 57.565 | 33.333 | 0.00 | 0.00 | 40.10 | 2.83 |
2990 | 5053 | 5.810525 | ACAAATATAGCATCGCTGAAACAC | 58.189 | 37.500 | 0.00 | 0.00 | 40.10 | 3.32 |
2991 | 5054 | 5.353956 | ACAAATATAGCATCGCTGAAACACA | 59.646 | 36.000 | 0.00 | 0.00 | 40.10 | 3.72 |
2993 | 5056 | 3.747099 | ATAGCATCGCTGAAACACAAC | 57.253 | 42.857 | 0.00 | 0.00 | 40.10 | 3.32 |
2994 | 5057 | 1.308047 | AGCATCGCTGAAACACAACA | 58.692 | 45.000 | 0.00 | 0.00 | 37.57 | 3.33 |
2995 | 5058 | 1.265095 | AGCATCGCTGAAACACAACAG | 59.735 | 47.619 | 0.00 | 0.00 | 37.57 | 3.16 |
3002 | 5065 | 3.198068 | GCTGAAACACAACAGAGTCTCA | 58.802 | 45.455 | 1.94 | 0.00 | 36.38 | 3.27 |
3003 | 5066 | 3.001736 | GCTGAAACACAACAGAGTCTCAC | 59.998 | 47.826 | 1.94 | 0.00 | 36.38 | 3.51 |
3009 | 5072 | 5.339008 | ACACAACAGAGTCTCACACTTAA | 57.661 | 39.130 | 1.94 | 0.00 | 34.41 | 1.85 |
3015 | 5078 | 7.336931 | ACAACAGAGTCTCACACTTAACAAAAT | 59.663 | 33.333 | 1.94 | 0.00 | 34.41 | 1.82 |
3016 | 5079 | 8.826710 | CAACAGAGTCTCACACTTAACAAAATA | 58.173 | 33.333 | 1.94 | 0.00 | 34.41 | 1.40 |
3017 | 5080 | 9.561069 | AACAGAGTCTCACACTTAACAAAATAT | 57.439 | 29.630 | 1.94 | 0.00 | 34.41 | 1.28 |
3020 | 5083 | 9.003658 | AGAGTCTCACACTTAACAAAATATTGG | 57.996 | 33.333 | 1.94 | 0.00 | 36.76 | 3.16 |
3094 | 5167 | 0.610687 | CAGCTATCGGATTCCTCCCC | 59.389 | 60.000 | 0.30 | 0.00 | 38.45 | 4.81 |
3115 | 5188 | 2.428171 | CGAGACCAACGGATTAACCCTA | 59.572 | 50.000 | 0.00 | 0.00 | 34.64 | 3.53 |
3117 | 5190 | 3.447950 | AGACCAACGGATTAACCCTAGT | 58.552 | 45.455 | 0.00 | 0.00 | 34.64 | 2.57 |
3120 | 5193 | 3.131046 | ACCAACGGATTAACCCTAGTACG | 59.869 | 47.826 | 0.00 | 0.00 | 34.64 | 3.67 |
3129 | 5202 | 0.845337 | ACCCTAGTACGGAGCTAGCT | 59.155 | 55.000 | 19.45 | 19.45 | 35.75 | 3.32 |
3141 | 5214 | 2.613133 | GGAGCTAGCTTTGAGCAATGAG | 59.387 | 50.000 | 20.42 | 0.00 | 45.56 | 2.90 |
3213 | 5286 | 2.836372 | GTGTTGTTACTAGGGCTAGGGT | 59.164 | 50.000 | 0.00 | 0.00 | 37.49 | 4.34 |
3234 | 5307 | 5.427481 | GGGTTATAGCCATAGTTGCCCTATA | 59.573 | 44.000 | 8.00 | 0.00 | 34.49 | 1.31 |
3242 | 5315 | 5.482908 | CCATAGTTGCCCTATACATGTCTC | 58.517 | 45.833 | 0.00 | 0.00 | 34.49 | 3.36 |
3244 | 5317 | 2.365617 | AGTTGCCCTATACATGTCTCCG | 59.634 | 50.000 | 0.00 | 0.00 | 0.00 | 4.63 |
3252 | 5325 | 0.541392 | TACATGTCTCCGCATTGCCT | 59.459 | 50.000 | 0.00 | 0.00 | 0.00 | 4.75 |
3261 | 5334 | 4.065088 | TCTCCGCATTGCCTATATTGTTC | 58.935 | 43.478 | 2.41 | 0.00 | 0.00 | 3.18 |
3269 | 5342 | 6.039717 | GCATTGCCTATATTGTTCTTCTTCCA | 59.960 | 38.462 | 0.00 | 0.00 | 0.00 | 3.53 |
3286 | 5359 | 1.409579 | CACGAACGCGACCTAAACG | 59.590 | 57.895 | 15.93 | 9.69 | 41.64 | 3.60 |
3297 | 5370 | 4.090354 | CGCGACCTAAACGATTTTTACTCA | 59.910 | 41.667 | 0.00 | 0.00 | 0.00 | 3.41 |
3309 | 5382 | 4.715534 | TTTTTACTCATCTCCACCCACA | 57.284 | 40.909 | 0.00 | 0.00 | 0.00 | 4.17 |
3320 | 5393 | 2.282887 | ACCCACATTCGGCCCAAC | 60.283 | 61.111 | 0.00 | 0.00 | 0.00 | 3.77 |
3324 | 5397 | 1.586028 | CACATTCGGCCCAACCTTG | 59.414 | 57.895 | 0.00 | 0.00 | 35.61 | 3.61 |
3377 | 5450 | 2.569218 | ATCACGGTCCGCCCTACTCT | 62.569 | 60.000 | 12.28 | 0.00 | 0.00 | 3.24 |
3378 | 5451 | 2.036890 | ACGGTCCGCCCTACTCTT | 59.963 | 61.111 | 12.28 | 0.00 | 0.00 | 2.85 |
3382 | 5455 | 2.441532 | TCCGCCCTACTCTTCCCG | 60.442 | 66.667 | 0.00 | 0.00 | 0.00 | 5.14 |
3384 | 5457 | 3.148279 | CGCCCTACTCTTCCCGCT | 61.148 | 66.667 | 0.00 | 0.00 | 0.00 | 5.52 |
3390 | 5463 | 1.040646 | CTACTCTTCCCGCTGCCATA | 58.959 | 55.000 | 0.00 | 0.00 | 0.00 | 2.74 |
3420 | 5493 | 1.546476 | CCCTCTATACCTGCCACGATC | 59.454 | 57.143 | 0.00 | 0.00 | 0.00 | 3.69 |
3422 | 5495 | 2.894126 | CCTCTATACCTGCCACGATCTT | 59.106 | 50.000 | 0.00 | 0.00 | 0.00 | 2.40 |
3439 | 5512 | 1.566018 | CTTTGTCGCCGTCAACCTCC | 61.566 | 60.000 | 0.00 | 0.00 | 0.00 | 4.30 |
3464 | 5538 | 1.216678 | ACCCCCTCACACAAACAATCA | 59.783 | 47.619 | 0.00 | 0.00 | 0.00 | 2.57 |
3474 | 5548 | 5.036737 | CACACAAACAATCAAACCTCTGAC | 58.963 | 41.667 | 0.00 | 0.00 | 0.00 | 3.51 |
3475 | 5549 | 4.097892 | ACACAAACAATCAAACCTCTGACC | 59.902 | 41.667 | 0.00 | 0.00 | 0.00 | 4.02 |
3478 | 5552 | 1.697432 | ACAATCAAACCTCTGACCCGA | 59.303 | 47.619 | 0.00 | 0.00 | 0.00 | 5.14 |
3489 | 5563 | 2.171209 | CTGACCCGACTCCACATGCA | 62.171 | 60.000 | 0.00 | 0.00 | 0.00 | 3.96 |
3491 | 5565 | 1.298859 | GACCCGACTCCACATGCAAC | 61.299 | 60.000 | 0.00 | 0.00 | 0.00 | 4.17 |
3508 | 5582 | 3.490759 | CGCCTGTGCCGTGACATC | 61.491 | 66.667 | 0.00 | 0.00 | 0.00 | 3.06 |
3519 | 5593 | 1.812922 | GTGACATCGCTGGCTCCAG | 60.813 | 63.158 | 11.47 | 11.47 | 46.15 | 3.86 |
3527 | 5601 | 3.307445 | CTGGCTCCAGCTAGCTGT | 58.693 | 61.111 | 36.14 | 7.36 | 42.54 | 4.40 |
Position | MSA Position | Penalty | Sequence | TM | GC | Self any TH | Self end TH | Hairpin | End Stability |
---|---|---|---|---|---|---|---|---|---|
32 | 33 | 2.679342 | CGGGGAAAGAGGGGATGCA | 61.679 | 63.158 | 0.00 | 0.00 | 0.00 | 3.96 |
44 | 45 | 2.682136 | TCGTCATGGAGCGGGGAA | 60.682 | 61.111 | 0.00 | 0.00 | 0.00 | 3.97 |
83 | 84 | 1.482182 | CTCCCATCACCTCATTCACGA | 59.518 | 52.381 | 0.00 | 0.00 | 0.00 | 4.35 |
110 | 111 | 2.739913 | GGCGCGAATATGCTGGTTATAA | 59.260 | 45.455 | 12.10 | 0.00 | 0.00 | 0.98 |
167 | 169 | 0.464036 | ATGAGGCGCACGAATCCTAA | 59.536 | 50.000 | 10.83 | 0.00 | 0.00 | 2.69 |
323 | 349 | 9.279904 | CACTTTGAACTAAAACAACGACATTTA | 57.720 | 29.630 | 0.00 | 0.00 | 0.00 | 1.40 |
325 | 351 | 7.309920 | ACACTTTGAACTAAAACAACGACATT | 58.690 | 30.769 | 0.00 | 0.00 | 0.00 | 2.71 |
329 | 355 | 5.120519 | ACGACACTTTGAACTAAAACAACGA | 59.879 | 36.000 | 0.00 | 0.00 | 0.00 | 3.85 |
330 | 356 | 5.224313 | CACGACACTTTGAACTAAAACAACG | 59.776 | 40.000 | 0.00 | 0.00 | 0.00 | 4.10 |
331 | 357 | 5.510323 | CCACGACACTTTGAACTAAAACAAC | 59.490 | 40.000 | 0.00 | 0.00 | 0.00 | 3.32 |
332 | 358 | 5.181622 | ACCACGACACTTTGAACTAAAACAA | 59.818 | 36.000 | 0.00 | 0.00 | 0.00 | 2.83 |
333 | 359 | 4.696402 | ACCACGACACTTTGAACTAAAACA | 59.304 | 37.500 | 0.00 | 0.00 | 0.00 | 2.83 |
345 | 371 | 3.469008 | TGAATTGAGACCACGACACTT | 57.531 | 42.857 | 0.00 | 0.00 | 0.00 | 3.16 |
380 | 2430 | 9.062524 | CCATCCGTTCCTAAATAAATGTTATCA | 57.937 | 33.333 | 0.00 | 0.00 | 0.00 | 2.15 |
498 | 2548 | 7.035612 | GGTCAGCCTTTAACAATAGATTTTGG | 58.964 | 38.462 | 0.00 | 0.00 | 0.00 | 3.28 |
547 | 2597 | 6.837568 | TCCTAAATAGAATGTACTTCCTCCGT | 59.162 | 38.462 | 0.00 | 0.00 | 34.11 | 4.69 |
549 | 2599 | 7.290481 | ACCTCCTAAATAGAATGTACTTCCTCC | 59.710 | 40.741 | 0.00 | 0.00 | 34.11 | 4.30 |
571 | 2621 | 3.188895 | CTTGCAAAGCTAAACGACCTC | 57.811 | 47.619 | 0.00 | 0.00 | 36.98 | 3.85 |
597 | 2647 | 6.206438 | GGAGCAAGAGAGTGAGAAAAGAAAAT | 59.794 | 38.462 | 0.00 | 0.00 | 0.00 | 1.82 |
602 | 2652 | 4.244862 | GAGGAGCAAGAGAGTGAGAAAAG | 58.755 | 47.826 | 0.00 | 0.00 | 0.00 | 2.27 |
649 | 2699 | 2.255252 | GCAATTGCGCGGTTGACT | 59.745 | 55.556 | 23.50 | 0.00 | 0.00 | 3.41 |
954 | 3004 | 1.827344 | TCAAGTGATCATCAGCGAGGT | 59.173 | 47.619 | 0.00 | 0.00 | 0.00 | 3.85 |
1076 | 3126 | 2.754472 | CCTTGTAAACCTTGGCAAAGC | 58.246 | 47.619 | 0.00 | 0.00 | 31.51 | 3.51 |
1080 | 3130 | 0.830023 | GGGCCTTGTAAACCTTGGCA | 60.830 | 55.000 | 0.84 | 0.00 | 44.85 | 4.92 |
1120 | 3170 | 0.179004 | AACACCTTGATGGCCACGAA | 60.179 | 50.000 | 8.16 | 2.15 | 40.22 | 3.85 |
1272 | 3322 | 0.869880 | CGCTCGCGTATTCCATGACA | 60.870 | 55.000 | 5.77 | 0.00 | 34.35 | 3.58 |
1305 | 3355 | 2.496341 | CTCTTGGCGAGGCGATCA | 59.504 | 61.111 | 0.97 | 0.00 | 36.06 | 2.92 |
1307 | 3357 | 3.774528 | TGCTCTTGGCGAGGCGAT | 61.775 | 61.111 | 0.97 | 0.00 | 45.43 | 4.58 |
1380 | 3430 | 2.743928 | CGGCTGTGGCAGAACTCC | 60.744 | 66.667 | 0.00 | 0.00 | 40.87 | 3.85 |
1404 | 3454 | 0.389948 | GCTTGAGGTCACGGTGGTAG | 60.390 | 60.000 | 8.50 | 0.00 | 0.00 | 3.18 |
1899 | 3949 | 4.181010 | CAGGTCCGGGCCATGAGG | 62.181 | 72.222 | 30.48 | 7.13 | 38.23 | 3.86 |
2565 | 4615 | 1.524621 | GTCACGCATGGCTAGGCAT | 60.525 | 57.895 | 25.12 | 25.12 | 31.96 | 4.40 |
2619 | 4682 | 4.194720 | GAGGCGTGGCGATCGTCT | 62.195 | 66.667 | 21.85 | 0.00 | 45.88 | 4.18 |
2688 | 4751 | 5.589452 | ACGGTTCCTATAGTAGTGACAGAAG | 59.411 | 44.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2712 | 4775 | 4.994852 | CGATTATTAGGCGGAATTTCTCCA | 59.005 | 41.667 | 0.00 | 0.00 | 45.74 | 3.86 |
2720 | 4783 | 1.689813 | TCCAGCGATTATTAGGCGGAA | 59.310 | 47.619 | 0.00 | 0.00 | 0.00 | 4.30 |
2740 | 4803 | 3.431415 | GACCTGGCCATACCTTTCTTTT | 58.569 | 45.455 | 5.51 | 0.00 | 40.22 | 2.27 |
2741 | 4804 | 2.618045 | CGACCTGGCCATACCTTTCTTT | 60.618 | 50.000 | 5.51 | 0.00 | 40.22 | 2.52 |
2742 | 4805 | 1.065418 | CGACCTGGCCATACCTTTCTT | 60.065 | 52.381 | 5.51 | 0.00 | 40.22 | 2.52 |
2745 | 4808 | 1.213296 | ATCGACCTGGCCATACCTTT | 58.787 | 50.000 | 5.51 | 0.00 | 40.22 | 3.11 |
2746 | 4809 | 1.134098 | CAATCGACCTGGCCATACCTT | 60.134 | 52.381 | 5.51 | 0.00 | 40.22 | 3.50 |
2747 | 4810 | 0.469917 | CAATCGACCTGGCCATACCT | 59.530 | 55.000 | 5.51 | 0.00 | 40.22 | 3.08 |
2748 | 4811 | 0.468226 | TCAATCGACCTGGCCATACC | 59.532 | 55.000 | 5.51 | 0.00 | 39.84 | 2.73 |
2749 | 4812 | 1.412710 | TCTCAATCGACCTGGCCATAC | 59.587 | 52.381 | 5.51 | 0.00 | 0.00 | 2.39 |
2750 | 4813 | 1.788229 | TCTCAATCGACCTGGCCATA | 58.212 | 50.000 | 5.51 | 0.00 | 0.00 | 2.74 |
2751 | 4814 | 1.135094 | ATCTCAATCGACCTGGCCAT | 58.865 | 50.000 | 5.51 | 0.00 | 0.00 | 4.40 |
2753 | 4816 | 2.044123 | AAATCTCAATCGACCTGGCC | 57.956 | 50.000 | 0.00 | 0.00 | 0.00 | 5.36 |
2755 | 4818 | 4.513442 | TGGTTAAATCTCAATCGACCTGG | 58.487 | 43.478 | 0.00 | 0.00 | 0.00 | 4.45 |
2757 | 4820 | 5.805728 | ACTTGGTTAAATCTCAATCGACCT | 58.194 | 37.500 | 0.00 | 0.00 | 0.00 | 3.85 |
2758 | 4821 | 5.875359 | AGACTTGGTTAAATCTCAATCGACC | 59.125 | 40.000 | 0.00 | 0.00 | 0.00 | 4.79 |
2759 | 4822 | 6.969828 | AGACTTGGTTAAATCTCAATCGAC | 57.030 | 37.500 | 0.00 | 0.00 | 0.00 | 4.20 |
2760 | 4823 | 8.311836 | ACTTAGACTTGGTTAAATCTCAATCGA | 58.688 | 33.333 | 0.00 | 0.00 | 0.00 | 3.59 |
2761 | 4824 | 8.480643 | ACTTAGACTTGGTTAAATCTCAATCG | 57.519 | 34.615 | 0.00 | 0.00 | 0.00 | 3.34 |
2762 | 4825 | 9.436957 | TGACTTAGACTTGGTTAAATCTCAATC | 57.563 | 33.333 | 0.00 | 0.00 | 0.00 | 2.67 |
2763 | 4826 | 9.793259 | TTGACTTAGACTTGGTTAAATCTCAAT | 57.207 | 29.630 | 0.00 | 0.00 | 0.00 | 2.57 |
2764 | 4827 | 9.621629 | TTTGACTTAGACTTGGTTAAATCTCAA | 57.378 | 29.630 | 0.00 | 0.00 | 0.00 | 3.02 |
2765 | 4828 | 9.793259 | ATTTGACTTAGACTTGGTTAAATCTCA | 57.207 | 29.630 | 0.00 | 0.00 | 27.97 | 3.27 |
2823 | 4886 | 8.172484 | CGTGAAGATCCGTGTAAATATTTTTCA | 58.828 | 33.333 | 5.91 | 4.29 | 0.00 | 2.69 |
2824 | 4887 | 7.163682 | GCGTGAAGATCCGTGTAAATATTTTTC | 59.836 | 37.037 | 5.91 | 1.75 | 0.00 | 2.29 |
2825 | 4888 | 6.964934 | GCGTGAAGATCCGTGTAAATATTTTT | 59.035 | 34.615 | 5.91 | 0.00 | 0.00 | 1.94 |
2826 | 4889 | 6.092944 | TGCGTGAAGATCCGTGTAAATATTTT | 59.907 | 34.615 | 5.91 | 0.00 | 0.00 | 1.82 |
2827 | 4890 | 5.583061 | TGCGTGAAGATCCGTGTAAATATTT | 59.417 | 36.000 | 5.89 | 5.89 | 0.00 | 1.40 |
2828 | 4891 | 5.113383 | TGCGTGAAGATCCGTGTAAATATT | 58.887 | 37.500 | 0.00 | 0.00 | 0.00 | 1.28 |
2829 | 4892 | 4.689071 | TGCGTGAAGATCCGTGTAAATAT | 58.311 | 39.130 | 0.00 | 0.00 | 0.00 | 1.28 |
2830 | 4893 | 4.112716 | TGCGTGAAGATCCGTGTAAATA | 57.887 | 40.909 | 0.00 | 0.00 | 0.00 | 1.40 |
2831 | 4894 | 2.967362 | TGCGTGAAGATCCGTGTAAAT | 58.033 | 42.857 | 0.00 | 0.00 | 0.00 | 1.40 |
2832 | 4895 | 2.442212 | TGCGTGAAGATCCGTGTAAA | 57.558 | 45.000 | 0.00 | 0.00 | 0.00 | 2.01 |
2833 | 4896 | 2.029739 | TCTTGCGTGAAGATCCGTGTAA | 60.030 | 45.455 | 0.00 | 0.00 | 35.64 | 2.41 |
2834 | 4897 | 1.542472 | TCTTGCGTGAAGATCCGTGTA | 59.458 | 47.619 | 0.00 | 0.00 | 35.64 | 2.90 |
2835 | 4898 | 0.317160 | TCTTGCGTGAAGATCCGTGT | 59.683 | 50.000 | 0.00 | 0.00 | 35.64 | 4.49 |
2836 | 4899 | 1.645034 | ATCTTGCGTGAAGATCCGTG | 58.355 | 50.000 | 6.12 | 0.00 | 46.84 | 4.94 |
2842 | 4905 | 3.876914 | AGTTGTTTGATCTTGCGTGAAGA | 59.123 | 39.130 | 0.00 | 2.09 | 45.03 | 2.87 |
2843 | 4906 | 4.214980 | AGTTGTTTGATCTTGCGTGAAG | 57.785 | 40.909 | 0.00 | 0.00 | 0.00 | 3.02 |
2844 | 4907 | 5.940192 | ATAGTTGTTTGATCTTGCGTGAA | 57.060 | 34.783 | 0.00 | 0.00 | 0.00 | 3.18 |
2845 | 4908 | 5.063438 | GCTATAGTTGTTTGATCTTGCGTGA | 59.937 | 40.000 | 0.84 | 0.00 | 0.00 | 4.35 |
2846 | 4909 | 5.258622 | GCTATAGTTGTTTGATCTTGCGTG | 58.741 | 41.667 | 0.84 | 0.00 | 0.00 | 5.34 |
2847 | 4910 | 4.032900 | CGCTATAGTTGTTTGATCTTGCGT | 59.967 | 41.667 | 0.84 | 0.00 | 34.89 | 5.24 |
2848 | 4911 | 4.508971 | CGCTATAGTTGTTTGATCTTGCG | 58.491 | 43.478 | 0.84 | 0.00 | 0.00 | 4.85 |
2849 | 4912 | 4.274865 | GCGCTATAGTTGTTTGATCTTGC | 58.725 | 43.478 | 0.00 | 0.00 | 0.00 | 4.01 |
2850 | 4913 | 4.032900 | ACGCGCTATAGTTGTTTGATCTTG | 59.967 | 41.667 | 5.73 | 0.00 | 0.00 | 3.02 |
2851 | 4914 | 4.032900 | CACGCGCTATAGTTGTTTGATCTT | 59.967 | 41.667 | 5.73 | 0.00 | 0.00 | 2.40 |
2852 | 4915 | 3.551890 | CACGCGCTATAGTTGTTTGATCT | 59.448 | 43.478 | 5.73 | 0.00 | 0.00 | 2.75 |
2853 | 4916 | 3.550275 | TCACGCGCTATAGTTGTTTGATC | 59.450 | 43.478 | 5.73 | 0.00 | 0.00 | 2.92 |
2854 | 4917 | 3.517602 | TCACGCGCTATAGTTGTTTGAT | 58.482 | 40.909 | 5.73 | 0.00 | 0.00 | 2.57 |
2855 | 4918 | 2.949142 | TCACGCGCTATAGTTGTTTGA | 58.051 | 42.857 | 5.73 | 0.00 | 0.00 | 2.69 |
2856 | 4919 | 3.715618 | TTCACGCGCTATAGTTGTTTG | 57.284 | 42.857 | 5.73 | 0.00 | 0.00 | 2.93 |
2857 | 4920 | 3.495377 | TGTTTCACGCGCTATAGTTGTTT | 59.505 | 39.130 | 5.73 | 0.00 | 0.00 | 2.83 |
2858 | 4921 | 3.061322 | TGTTTCACGCGCTATAGTTGTT | 58.939 | 40.909 | 5.73 | 0.00 | 0.00 | 2.83 |
2859 | 4922 | 2.679450 | TGTTTCACGCGCTATAGTTGT | 58.321 | 42.857 | 5.73 | 0.00 | 0.00 | 3.32 |
2860 | 4923 | 3.925688 | ATGTTTCACGCGCTATAGTTG | 57.074 | 42.857 | 5.73 | 0.00 | 0.00 | 3.16 |
2861 | 4924 | 4.269363 | GGTTATGTTTCACGCGCTATAGTT | 59.731 | 41.667 | 5.73 | 0.00 | 0.00 | 2.24 |
2862 | 4925 | 3.800506 | GGTTATGTTTCACGCGCTATAGT | 59.199 | 43.478 | 5.73 | 0.00 | 0.00 | 2.12 |
2863 | 4926 | 3.799963 | TGGTTATGTTTCACGCGCTATAG | 59.200 | 43.478 | 5.73 | 0.00 | 0.00 | 1.31 |
2864 | 4927 | 3.783191 | TGGTTATGTTTCACGCGCTATA | 58.217 | 40.909 | 5.73 | 0.00 | 0.00 | 1.31 |
2865 | 4928 | 2.623535 | TGGTTATGTTTCACGCGCTAT | 58.376 | 42.857 | 5.73 | 0.00 | 0.00 | 2.97 |
2866 | 4929 | 2.081725 | TGGTTATGTTTCACGCGCTA | 57.918 | 45.000 | 5.73 | 0.00 | 0.00 | 4.26 |
2867 | 4930 | 1.196808 | CTTGGTTATGTTTCACGCGCT | 59.803 | 47.619 | 5.73 | 0.00 | 0.00 | 5.92 |
2868 | 4931 | 1.069500 | ACTTGGTTATGTTTCACGCGC | 60.069 | 47.619 | 5.73 | 0.00 | 0.00 | 6.86 |
2869 | 4932 | 2.478894 | AGACTTGGTTATGTTTCACGCG | 59.521 | 45.455 | 3.53 | 3.53 | 0.00 | 6.01 |
2870 | 4933 | 3.746492 | AGAGACTTGGTTATGTTTCACGC | 59.254 | 43.478 | 0.00 | 0.00 | 0.00 | 5.34 |
2871 | 4934 | 4.750098 | ACAGAGACTTGGTTATGTTTCACG | 59.250 | 41.667 | 0.00 | 0.00 | 0.00 | 4.35 |
2872 | 4935 | 5.758296 | TGACAGAGACTTGGTTATGTTTCAC | 59.242 | 40.000 | 0.00 | 0.00 | 0.00 | 3.18 |
2873 | 4936 | 5.924356 | TGACAGAGACTTGGTTATGTTTCA | 58.076 | 37.500 | 0.00 | 0.00 | 0.00 | 2.69 |
2874 | 4937 | 6.483640 | ACTTGACAGAGACTTGGTTATGTTTC | 59.516 | 38.462 | 0.00 | 0.00 | 0.00 | 2.78 |
2875 | 4938 | 6.260936 | CACTTGACAGAGACTTGGTTATGTTT | 59.739 | 38.462 | 0.00 | 0.00 | 0.00 | 2.83 |
2876 | 4939 | 5.760253 | CACTTGACAGAGACTTGGTTATGTT | 59.240 | 40.000 | 0.00 | 0.00 | 0.00 | 2.71 |
2877 | 4940 | 5.070446 | TCACTTGACAGAGACTTGGTTATGT | 59.930 | 40.000 | 0.00 | 0.00 | 0.00 | 2.29 |
2878 | 4941 | 5.541845 | TCACTTGACAGAGACTTGGTTATG | 58.458 | 41.667 | 0.00 | 0.00 | 0.00 | 1.90 |
2879 | 4942 | 5.808366 | TCACTTGACAGAGACTTGGTTAT | 57.192 | 39.130 | 0.00 | 0.00 | 0.00 | 1.89 |
2880 | 4943 | 5.070446 | ACATCACTTGACAGAGACTTGGTTA | 59.930 | 40.000 | 0.00 | 0.00 | 0.00 | 2.85 |
2881 | 4944 | 4.141620 | ACATCACTTGACAGAGACTTGGTT | 60.142 | 41.667 | 0.00 | 0.00 | 0.00 | 3.67 |
2882 | 4945 | 3.389329 | ACATCACTTGACAGAGACTTGGT | 59.611 | 43.478 | 0.00 | 0.00 | 0.00 | 3.67 |
2883 | 4946 | 4.000331 | ACATCACTTGACAGAGACTTGG | 58.000 | 45.455 | 0.00 | 0.00 | 0.00 | 3.61 |
2884 | 4947 | 5.777802 | ACTACATCACTTGACAGAGACTTG | 58.222 | 41.667 | 0.00 | 0.00 | 0.00 | 3.16 |
2885 | 4948 | 7.710676 | ATACTACATCACTTGACAGAGACTT | 57.289 | 36.000 | 0.00 | 0.00 | 0.00 | 3.01 |
2886 | 4949 | 8.845227 | CATATACTACATCACTTGACAGAGACT | 58.155 | 37.037 | 0.00 | 0.00 | 0.00 | 3.24 |
2887 | 4950 | 8.841300 | TCATATACTACATCACTTGACAGAGAC | 58.159 | 37.037 | 0.00 | 0.00 | 0.00 | 3.36 |
2888 | 4951 | 8.980481 | TCATATACTACATCACTTGACAGAGA | 57.020 | 34.615 | 0.00 | 0.00 | 0.00 | 3.10 |
2934 | 4997 | 9.515020 | TTGCGTGAAGATCCATATAAAATTTTC | 57.485 | 29.630 | 6.72 | 0.00 | 0.00 | 2.29 |
2936 | 4999 | 8.902806 | TCTTGCGTGAAGATCCATATAAAATTT | 58.097 | 29.630 | 0.00 | 0.00 | 35.64 | 1.82 |
2954 | 5017 | 6.257423 | TGCTATATTTGTTTGATCTTGCGTG | 58.743 | 36.000 | 0.00 | 0.00 | 0.00 | 5.34 |
2957 | 5020 | 6.087291 | GCGATGCTATATTTGTTTGATCTTGC | 59.913 | 38.462 | 0.00 | 0.00 | 0.00 | 4.01 |
2983 | 5046 | 3.932710 | GTGTGAGACTCTGTTGTGTTTCA | 59.067 | 43.478 | 3.68 | 0.00 | 31.42 | 2.69 |
2984 | 5047 | 4.184629 | AGTGTGAGACTCTGTTGTGTTTC | 58.815 | 43.478 | 3.68 | 0.00 | 0.00 | 2.78 |
2985 | 5048 | 4.207891 | AGTGTGAGACTCTGTTGTGTTT | 57.792 | 40.909 | 3.68 | 0.00 | 0.00 | 2.83 |
2988 | 5051 | 5.109210 | TGTTAAGTGTGAGACTCTGTTGTG | 58.891 | 41.667 | 3.68 | 0.00 | 31.73 | 3.33 |
2989 | 5052 | 5.339008 | TGTTAAGTGTGAGACTCTGTTGT | 57.661 | 39.130 | 3.68 | 0.00 | 31.73 | 3.32 |
2990 | 5053 | 6.662414 | TTTGTTAAGTGTGAGACTCTGTTG | 57.338 | 37.500 | 3.68 | 0.00 | 31.73 | 3.33 |
2991 | 5054 | 7.865706 | ATTTTGTTAAGTGTGAGACTCTGTT | 57.134 | 32.000 | 3.68 | 0.00 | 31.73 | 3.16 |
2993 | 5056 | 9.817365 | CAATATTTTGTTAAGTGTGAGACTCTG | 57.183 | 33.333 | 3.68 | 0.00 | 31.73 | 3.35 |
2994 | 5057 | 9.003658 | CCAATATTTTGTTAAGTGTGAGACTCT | 57.996 | 33.333 | 3.68 | 0.00 | 31.73 | 3.24 |
2995 | 5058 | 8.999431 | TCCAATATTTTGTTAAGTGTGAGACTC | 58.001 | 33.333 | 0.00 | 0.00 | 31.73 | 3.36 |
3028 | 5091 | 0.456221 | GTCGTAGCTTAGCTGCTCCA | 59.544 | 55.000 | 17.97 | 0.00 | 42.97 | 3.86 |
3030 | 5093 | 1.833860 | CAGTCGTAGCTTAGCTGCTC | 58.166 | 55.000 | 17.97 | 11.04 | 42.97 | 4.26 |
3072 | 5136 | 1.068194 | GGAGGAATCCGATAGCTGACG | 60.068 | 57.143 | 0.00 | 1.43 | 0.00 | 4.35 |
3075 | 5139 | 0.610687 | GGGGAGGAATCCGATAGCTG | 59.389 | 60.000 | 0.00 | 0.00 | 0.00 | 4.24 |
3094 | 5167 | 1.206371 | AGGGTTAATCCGTTGGTCTCG | 59.794 | 52.381 | 0.00 | 0.00 | 37.00 | 4.04 |
3099 | 5172 | 3.491447 | CCGTACTAGGGTTAATCCGTTGG | 60.491 | 52.174 | 0.00 | 0.00 | 37.00 | 3.77 |
3110 | 5183 | 0.845337 | AGCTAGCTCCGTACTAGGGT | 59.155 | 55.000 | 12.68 | 0.00 | 38.05 | 4.34 |
3111 | 5184 | 1.984066 | AAGCTAGCTCCGTACTAGGG | 58.016 | 55.000 | 19.65 | 0.00 | 38.05 | 3.53 |
3112 | 5185 | 2.950309 | TCAAAGCTAGCTCCGTACTAGG | 59.050 | 50.000 | 19.65 | 0.00 | 38.05 | 3.02 |
3115 | 5188 | 1.135333 | GCTCAAAGCTAGCTCCGTACT | 59.865 | 52.381 | 19.65 | 0.00 | 38.45 | 2.73 |
3117 | 5190 | 1.182667 | TGCTCAAAGCTAGCTCCGTA | 58.817 | 50.000 | 19.65 | 3.54 | 42.97 | 4.02 |
3120 | 5193 | 2.613133 | CTCATTGCTCAAAGCTAGCTCC | 59.387 | 50.000 | 19.65 | 5.12 | 42.97 | 4.70 |
3129 | 5202 | 8.665643 | AAAATCATGAAAACTCATTGCTCAAA | 57.334 | 26.923 | 0.00 | 0.00 | 0.00 | 2.69 |
3186 | 5259 | 2.752903 | GCCCTAGTAACAACACCCATTG | 59.247 | 50.000 | 0.00 | 0.00 | 35.59 | 2.82 |
3189 | 5262 | 1.737199 | AGCCCTAGTAACAACACCCA | 58.263 | 50.000 | 0.00 | 0.00 | 0.00 | 4.51 |
3234 | 5307 | 0.541392 | TAGGCAATGCGGAGACATGT | 59.459 | 50.000 | 0.00 | 0.00 | 0.00 | 3.21 |
3242 | 5315 | 4.516698 | AGAAGAACAATATAGGCAATGCGG | 59.483 | 41.667 | 0.00 | 0.00 | 0.00 | 5.69 |
3244 | 5317 | 6.039717 | TGGAAGAAGAACAATATAGGCAATGC | 59.960 | 38.462 | 0.00 | 0.00 | 0.00 | 3.56 |
3252 | 5325 | 5.290158 | GCGTTCGTGGAAGAAGAACAATATA | 59.710 | 40.000 | 8.06 | 0.00 | 41.62 | 0.86 |
3261 | 5334 | 1.615107 | GGTCGCGTTCGTGGAAGAAG | 61.615 | 60.000 | 5.77 | 0.00 | 36.96 | 2.85 |
3269 | 5342 | 0.109597 | ATCGTTTAGGTCGCGTTCGT | 60.110 | 50.000 | 5.77 | 5.27 | 36.96 | 3.85 |
3286 | 5359 | 5.253330 | TGTGGGTGGAGATGAGTAAAAATC | 58.747 | 41.667 | 0.00 | 0.00 | 0.00 | 2.17 |
3297 | 5370 | 1.224592 | GCCGAATGTGGGTGGAGAT | 59.775 | 57.895 | 0.00 | 0.00 | 0.00 | 2.75 |
3309 | 5382 | 0.469144 | AACACAAGGTTGGGCCGAAT | 60.469 | 50.000 | 2.57 | 0.00 | 43.70 | 3.34 |
3320 | 5393 | 2.551912 | GGGTGACGGCAACACAAGG | 61.552 | 63.158 | 9.46 | 0.00 | 39.65 | 3.61 |
3350 | 5423 | 1.215655 | GCGGACCGTGATAGATGTGC | 61.216 | 60.000 | 16.73 | 0.00 | 0.00 | 4.57 |
3354 | 5427 | 0.111832 | TAGGGCGGACCGTGATAGAT | 59.888 | 55.000 | 16.73 | 0.00 | 46.96 | 1.98 |
3356 | 5429 | 0.822532 | AGTAGGGCGGACCGTGATAG | 60.823 | 60.000 | 16.73 | 0.00 | 46.96 | 2.08 |
3357 | 5430 | 0.820891 | GAGTAGGGCGGACCGTGATA | 60.821 | 60.000 | 16.73 | 2.90 | 46.96 | 2.15 |
3377 | 5450 | 1.077787 | CTGGTTATGGCAGCGGGAA | 60.078 | 57.895 | 0.00 | 0.00 | 0.00 | 3.97 |
3378 | 5451 | 2.589540 | CTGGTTATGGCAGCGGGA | 59.410 | 61.111 | 0.00 | 0.00 | 0.00 | 5.14 |
3382 | 5455 | 1.458639 | GGATGGCTGGTTATGGCAGC | 61.459 | 60.000 | 0.00 | 0.00 | 43.99 | 5.25 |
3384 | 5457 | 1.229927 | GGGATGGCTGGTTATGGCA | 59.770 | 57.895 | 0.00 | 0.00 | 43.90 | 4.92 |
3390 | 5463 | 2.089925 | AGGTATAGAGGGATGGCTGGTT | 60.090 | 50.000 | 0.00 | 0.00 | 0.00 | 3.67 |
3420 | 5493 | 1.566018 | GGAGGTTGACGGCGACAAAG | 61.566 | 60.000 | 24.69 | 0.00 | 0.00 | 2.77 |
3422 | 5495 | 2.029964 | GGAGGTTGACGGCGACAA | 59.970 | 61.111 | 19.96 | 19.96 | 0.00 | 3.18 |
3450 | 5523 | 4.946772 | TCAGAGGTTTGATTGTTTGTGTGA | 59.053 | 37.500 | 0.00 | 0.00 | 0.00 | 3.58 |
3464 | 5538 | 0.471211 | TGGAGTCGGGTCAGAGGTTT | 60.471 | 55.000 | 0.00 | 0.00 | 0.00 | 3.27 |
3474 | 5548 | 2.390599 | CGTTGCATGTGGAGTCGGG | 61.391 | 63.158 | 0.00 | 0.00 | 0.00 | 5.14 |
3475 | 5549 | 3.027170 | GCGTTGCATGTGGAGTCGG | 62.027 | 63.158 | 0.00 | 0.00 | 0.00 | 4.79 |
3478 | 5552 | 1.968017 | CAGGCGTTGCATGTGGAGT | 60.968 | 57.895 | 0.00 | 0.00 | 35.52 | 3.85 |
Based at the University of Bristol with support from BBSRC.
AutoCloner maintained by Alex Coulton.