Multiple sequence alignment - TraesCS1B01G250300

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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 TraesCS1B01G250300 chr1B 100.000 6967 0 0 1 6967 442204671 442197705 0.000000e+00 12866.0
1 TraesCS1B01G250300 chr1B 94.937 79 2 1 2588 2664 638725443 638725365 9.490000e-24 122.0
2 TraesCS1B01G250300 chr1A 95.871 3730 119 22 3038 6751 407334129 407330419 0.000000e+00 6002.0
3 TraesCS1B01G250300 chr1A 97.614 1425 30 2 894 2314 407335977 407334553 0.000000e+00 2440.0
4 TraesCS1B01G250300 chr1A 94.248 452 17 5 2323 2774 407334574 407334132 0.000000e+00 682.0
5 TraesCS1B01G250300 chr1A 84.239 184 13 6 6792 6967 407330420 407330245 1.550000e-36 165.0
6 TraesCS1B01G250300 chr1D 95.792 3256 111 15 3116 6368 328113950 328110718 0.000000e+00 5230.0
7 TraesCS1B01G250300 chr1D 93.478 2024 61 28 678 2684 328116111 328114142 0.000000e+00 2940.0
8 TraesCS1B01G250300 chr1D 93.648 677 34 5 8 679 250209729 250210401 0.000000e+00 1003.0
9 TraesCS1B01G250300 chr1D 91.369 336 27 2 6416 6751 328104563 328104230 6.370000e-125 459.0
10 TraesCS1B01G250300 chr1D 86.957 184 14 4 6792 6967 328104231 328104050 1.530000e-46 198.0
11 TraesCS1B01G250300 chr1D 92.000 50 3 1 6757 6806 3368766 3368814 1.250000e-07 69.4
12 TraesCS1B01G250300 chr7B 97.667 643 12 2 8 649 99499447 99500087 0.000000e+00 1101.0
13 TraesCS1B01G250300 chr7B 89.899 198 19 1 77 274 209598592 209598396 3.230000e-63 254.0
14 TraesCS1B01G250300 chr7B 92.000 50 3 1 6757 6806 4091573 4091525 1.250000e-07 69.4
15 TraesCS1B01G250300 chr4B 94.659 674 30 4 8 678 512659374 512658704 0.000000e+00 1040.0
16 TraesCS1B01G250300 chr4B 91.813 513 18 3 8 518 646228669 646228179 0.000000e+00 693.0
17 TraesCS1B01G250300 chr4B 94.253 261 15 0 2775 3035 22857357 22857617 3.910000e-107 399.0
18 TraesCS1B01G250300 chr4B 96.532 173 6 0 507 679 646228164 646227992 3.180000e-73 287.0
19 TraesCS1B01G250300 chr4D 94.351 655 30 5 8 655 11491946 11491292 0.000000e+00 998.0
20 TraesCS1B01G250300 chr5D 94.253 261 15 0 2775 3035 538762370 538762630 3.910000e-107 399.0
21 TraesCS1B01G250300 chr5B 94.253 261 15 0 2775 3035 645230886 645230626 3.910000e-107 399.0
22 TraesCS1B01G250300 chr3A 94.186 258 15 0 2775 3032 582944621 582944878 1.820000e-105 394.0
23 TraesCS1B01G250300 chr2D 93.870 261 16 0 2775 3035 315859248 315858988 1.820000e-105 394.0
24 TraesCS1B01G250300 chr2D 93.208 265 17 1 2775 3039 558801619 558801356 8.470000e-104 388.0
25 TraesCS1B01G250300 chr5A 92.647 272 16 3 2766 3036 427372590 427372322 8.470000e-104 388.0
26 TraesCS1B01G250300 chr5A 87.365 277 28 2 403 679 544172017 544172286 1.890000e-80 311.0
27 TraesCS1B01G250300 chr4A 93.182 264 17 1 2772 3035 444159904 444160166 3.050000e-103 387.0
28 TraesCS1B01G250300 chr4A 91.912 272 20 2 2772 3042 674617058 674616788 5.100000e-101 379.0
29 TraesCS1B01G250300 chr4A 94.937 79 2 1 2588 2664 388416845 388416923 9.490000e-24 122.0
30 TraesCS1B01G250300 chr3D 88.679 212 18 4 468 679 156980740 156980945 3.230000e-63 254.0
31 TraesCS1B01G250300 chr3D 91.860 172 11 3 510 679 483542044 483541874 3.250000e-58 237.0
32 TraesCS1B01G250300 chr3D 97.619 42 1 0 6757 6798 552290499 552290458 9.690000e-09 73.1
33 TraesCS1B01G250300 chr6D 89.385 179 16 2 501 678 431263908 431264084 9.100000e-54 222.0
34 TraesCS1B01G250300 chr6D 90.566 53 2 3 6757 6806 89737682 89737630 4.510000e-07 67.6
35 TraesCS1B01G250300 chr6B 85.227 176 24 1 2414 2587 625529654 625529479 5.550000e-41 180.0
36 TraesCS1B01G250300 chr6B 94.937 79 2 1 2588 2664 297433309 297433387 9.490000e-24 122.0
37 TraesCS1B01G250300 chr6B 92.000 50 3 1 6757 6806 135505674 135505626 1.250000e-07 69.4
38 TraesCS1B01G250300 chrUn 94.937 79 2 1 2588 2664 221552657 221552579 9.490000e-24 122.0
39 TraesCS1B01G250300 chrUn 94.937 79 2 1 2588 2664 229486265 229486187 9.490000e-24 122.0
40 TraesCS1B01G250300 chrUn 94.937 79 2 1 2588 2664 448702536 448702458 9.490000e-24 122.0
41 TraesCS1B01G250300 chr7A 94.937 79 2 1 2588 2664 4921311 4921389 9.490000e-24 122.0
42 TraesCS1B01G250300 chr7A 97.619 42 1 0 6757 6798 226753939 226753980 9.690000e-09 73.1
43 TraesCS1B01G250300 chr3B 97.727 44 0 1 6757 6799 763000889 763000846 2.700000e-09 75.0
44 TraesCS1B01G250300 chr3B 87.302 63 6 2 6744 6806 593558131 593558191 3.490000e-08 71.3
45 TraesCS1B01G250300 chr2B 90.741 54 1 4 6757 6806 710325620 710325567 1.250000e-07 69.4


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 TraesCS1B01G250300 chr1B 442197705 442204671 6966 True 12866.00 12866 100.0000 1 6967 1 chr1B.!!$R1 6966
1 TraesCS1B01G250300 chr1A 407330245 407335977 5732 True 2322.25 6002 92.9930 894 6967 4 chr1A.!!$R1 6073
2 TraesCS1B01G250300 chr1D 328110718 328116111 5393 True 4085.00 5230 94.6350 678 6368 2 chr1D.!!$R2 5690
3 TraesCS1B01G250300 chr1D 250209729 250210401 672 False 1003.00 1003 93.6480 8 679 1 chr1D.!!$F2 671
4 TraesCS1B01G250300 chr1D 328104050 328104563 513 True 328.50 459 89.1630 6416 6967 2 chr1D.!!$R1 551
5 TraesCS1B01G250300 chr7B 99499447 99500087 640 False 1101.00 1101 97.6670 8 649 1 chr7B.!!$F1 641
6 TraesCS1B01G250300 chr4B 512658704 512659374 670 True 1040.00 1040 94.6590 8 678 1 chr4B.!!$R1 670
7 TraesCS1B01G250300 chr4B 646227992 646228669 677 True 490.00 693 94.1725 8 679 2 chr4B.!!$R2 671
8 TraesCS1B01G250300 chr4D 11491292 11491946 654 True 998.00 998 94.3510 8 655 1 chr4D.!!$R1 647

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
936 974 1.623811 ACCAAATGACGCCTAGTGAGT 59.376 47.619 0.00 0.0 0.00 3.41 F
2520 2577 0.956633 TCTTAATAGCCGGTCGCGAT 59.043 50.000 14.06 0.0 44.76 4.58 F
3110 3167 0.817654 GGTACCCAGCCTTCAAATGC 59.182 55.000 0.00 0.0 0.00 3.56 F
4371 4438 0.629596 ATCAGTCACCTCCCGTCCTA 59.370 55.000 0.00 0.0 0.00 2.94 F
4516 4583 1.270550 CAGGTCTGTGATTGTTTGGGC 59.729 52.381 0.00 0.0 0.00 5.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2562 2619 0.625849 ATTGCCCTCCCAGTTCGAAT 59.374 50.000 0.00 0.00 0.00 3.34 R
4331 4398 0.398318 AGGTTCCCACTCAACTCAGC 59.602 55.000 0.00 0.00 0.00 4.26 R
5063 5130 0.321298 TAACTTGACGGGCTTCAGGC 60.321 55.000 0.00 0.00 40.90 4.85 R
5789 5856 1.518133 CAGAGAGTACTGCAGCGGC 60.518 63.158 15.27 0.31 41.68 6.53 R
6389 6461 1.226974 CCATCGCCTCAGGTGTACG 60.227 63.158 3.58 0.00 34.40 3.67 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
115 118 5.097742 TGTGTCTACATAACCTGGATTGG 57.902 43.478 0.00 0.00 0.00 3.16
178 181 2.705312 TTTGGTCAGCGGCCCATCAA 62.705 55.000 0.00 0.00 0.00 2.57
415 424 5.565592 TTGTGGCTCAAAACAGCTATATG 57.434 39.130 0.00 0.00 39.58 1.78
633 670 2.047061 TCTCCGCTACTTGGCCATATT 58.953 47.619 6.09 0.00 0.00 1.28
685 722 3.000727 GTTGCCGTTCTAGTGCTACATT 58.999 45.455 0.00 0.00 32.28 2.71
703 740 7.713507 TGCTACATTATGTTGTCCCTATTGTAC 59.286 37.037 2.23 0.00 0.00 2.90
714 751 5.003804 GTCCCTATTGTACATGCCCTTATG 58.996 45.833 0.00 0.00 0.00 1.90
715 752 4.910913 TCCCTATTGTACATGCCCTTATGA 59.089 41.667 0.00 0.00 0.00 2.15
716 753 5.371176 TCCCTATTGTACATGCCCTTATGAA 59.629 40.000 0.00 0.00 0.00 2.57
738 775 5.340439 AACGGAGGGAGTAGTTGAATAAG 57.660 43.478 0.00 0.00 0.00 1.73
799 837 7.094975 CGTAATGTGAAAAATGTTCCCTCTGTA 60.095 37.037 0.00 0.00 0.00 2.74
825 863 5.689383 ACAGCGTGACAGTGAATAAAAAT 57.311 34.783 0.00 0.00 0.00 1.82
832 870 6.795114 CGTGACAGTGAATAAAAATAAAGCGT 59.205 34.615 0.00 0.00 0.00 5.07
874 912 8.589701 AATCGAAATTTAGTGGAAAAGGGTAT 57.410 30.769 0.00 0.00 0.00 2.73
875 913 8.589701 ATCGAAATTTAGTGGAAAAGGGTATT 57.410 30.769 0.00 0.00 0.00 1.89
876 914 8.411991 TCGAAATTTAGTGGAAAAGGGTATTT 57.588 30.769 0.00 0.00 0.00 1.40
913 951 7.687941 TTAGCCAATTTTCTCAACCTTCTAG 57.312 36.000 0.00 0.00 0.00 2.43
936 974 1.623811 ACCAAATGACGCCTAGTGAGT 59.376 47.619 0.00 0.00 0.00 3.41
1710 1748 2.880879 CGTGGCATCACCGAGTCG 60.881 66.667 5.29 5.29 43.94 4.18
1804 1842 1.733402 CGTGGGGAAGTGCAAAGCAA 61.733 55.000 0.00 0.00 41.47 3.91
2131 2170 8.599624 ATTGATGGAAATGACAATTAGAACCT 57.400 30.769 0.00 0.00 30.31 3.50
2197 2253 7.984050 AGTATGACTGTCACTTGAGAATTATGG 59.016 37.037 13.50 0.00 0.00 2.74
2302 2358 9.869844 CTGTTTTTCAGTTCTTATGTTGACTAG 57.130 33.333 0.00 0.00 39.17 2.57
2303 2359 9.607988 TGTTTTTCAGTTCTTATGTTGACTAGA 57.392 29.630 0.00 0.00 0.00 2.43
2304 2360 9.865484 GTTTTTCAGTTCTTATGTTGACTAGAC 57.135 33.333 0.00 0.00 0.00 2.59
2305 2361 9.832445 TTTTTCAGTTCTTATGTTGACTAGACT 57.168 29.630 0.00 0.00 0.00 3.24
2306 2362 9.832445 TTTTCAGTTCTTATGTTGACTAGACTT 57.168 29.630 0.00 0.00 0.00 3.01
2307 2363 9.832445 TTTCAGTTCTTATGTTGACTAGACTTT 57.168 29.630 0.00 0.00 0.00 2.66
2308 2364 9.832445 TTCAGTTCTTATGTTGACTAGACTTTT 57.168 29.630 0.00 0.00 0.00 2.27
2309 2365 9.832445 TCAGTTCTTATGTTGACTAGACTTTTT 57.168 29.630 0.00 0.00 0.00 1.94
2459 2516 9.756571 TCTAGTCTTTTGATTAGAGTAGAGGTT 57.243 33.333 11.49 0.00 44.15 3.50
2462 2519 7.038658 AGTCTTTTGATTAGAGTAGAGGTTGCT 60.039 37.037 0.00 0.00 0.00 3.91
2469 2526 2.583566 AGAGTAGAGGTTGCTAGAGGGT 59.416 50.000 0.00 0.00 0.00 4.34
2520 2577 0.956633 TCTTAATAGCCGGTCGCGAT 59.043 50.000 14.06 0.00 44.76 4.58
2562 2619 5.020132 TGGTTGAAACTTCCTGGAAAAAGA 58.980 37.500 10.86 0.00 0.00 2.52
2569 2626 5.690997 ACTTCCTGGAAAAAGATTCGAAC 57.309 39.130 10.86 0.00 0.00 3.95
2611 2668 3.947834 CCACTCAATCCACCAATAACTCC 59.052 47.826 0.00 0.00 0.00 3.85
2675 2732 3.512724 CCAGCCCTTCTGTTGATTGAAAT 59.487 43.478 0.00 0.00 41.25 2.17
2781 2838 9.503369 AGATGGTTAAATTAAGTACTACTCCCT 57.497 33.333 0.00 0.00 0.00 4.20
2782 2839 9.761504 GATGGTTAAATTAAGTACTACTCCCTC 57.238 37.037 0.00 0.00 0.00 4.30
2783 2840 8.906238 TGGTTAAATTAAGTACTACTCCCTCT 57.094 34.615 0.00 0.00 0.00 3.69
2784 2841 8.755977 TGGTTAAATTAAGTACTACTCCCTCTG 58.244 37.037 0.00 0.00 0.00 3.35
2785 2842 8.756927 GGTTAAATTAAGTACTACTCCCTCTGT 58.243 37.037 0.00 0.00 0.00 3.41
2798 2855 8.319881 ACTACTCCCTCTGTTTTTATTTAGTCC 58.680 37.037 0.00 0.00 0.00 3.85
2799 2856 7.086685 ACTCCCTCTGTTTTTATTTAGTCCA 57.913 36.000 0.00 0.00 0.00 4.02
2800 2857 6.940867 ACTCCCTCTGTTTTTATTTAGTCCAC 59.059 38.462 0.00 0.00 0.00 4.02
2801 2858 5.935789 TCCCTCTGTTTTTATTTAGTCCACG 59.064 40.000 0.00 0.00 0.00 4.94
2802 2859 5.704053 CCCTCTGTTTTTATTTAGTCCACGT 59.296 40.000 0.00 0.00 0.00 4.49
2803 2860 6.875195 CCCTCTGTTTTTATTTAGTCCACGTA 59.125 38.462 0.00 0.00 0.00 3.57
2804 2861 7.551617 CCCTCTGTTTTTATTTAGTCCACGTAT 59.448 37.037 0.00 0.00 0.00 3.06
2805 2862 8.943002 CCTCTGTTTTTATTTAGTCCACGTATT 58.057 33.333 0.00 0.00 0.00 1.89
2808 2865 9.698617 CTGTTTTTATTTAGTCCACGTATTAGC 57.301 33.333 0.00 0.00 0.00 3.09
2809 2866 9.439500 TGTTTTTATTTAGTCCACGTATTAGCT 57.561 29.630 0.00 0.00 0.00 3.32
2815 2872 8.868635 ATTTAGTCCACGTATTAGCTTTAGTC 57.131 34.615 0.00 0.00 0.00 2.59
2816 2873 5.909621 AGTCCACGTATTAGCTTTAGTCA 57.090 39.130 0.00 0.00 0.00 3.41
2817 2874 6.276832 AGTCCACGTATTAGCTTTAGTCAA 57.723 37.500 0.00 0.00 0.00 3.18
2818 2875 6.694447 AGTCCACGTATTAGCTTTAGTCAAA 58.306 36.000 0.00 0.00 0.00 2.69
2819 2876 6.812160 AGTCCACGTATTAGCTTTAGTCAAAG 59.188 38.462 0.00 0.00 43.46 2.77
2820 2877 6.589139 GTCCACGTATTAGCTTTAGTCAAAGT 59.411 38.462 0.00 0.00 42.71 2.66
2821 2878 6.810182 TCCACGTATTAGCTTTAGTCAAAGTC 59.190 38.462 0.00 0.00 42.71 3.01
2822 2879 6.588756 CCACGTATTAGCTTTAGTCAAAGTCA 59.411 38.462 0.00 0.00 42.71 3.41
2823 2880 7.117236 CCACGTATTAGCTTTAGTCAAAGTCAA 59.883 37.037 0.00 0.00 42.71 3.18
2824 2881 8.162880 CACGTATTAGCTTTAGTCAAAGTCAAG 58.837 37.037 0.00 0.00 42.71 3.02
2825 2882 7.871463 ACGTATTAGCTTTAGTCAAAGTCAAGT 59.129 33.333 0.00 0.00 42.71 3.16
2826 2883 8.709646 CGTATTAGCTTTAGTCAAAGTCAAGTT 58.290 33.333 0.00 0.00 42.71 2.66
2829 2886 9.736023 ATTAGCTTTAGTCAAAGTCAAGTTTTG 57.264 29.630 0.00 0.00 42.71 2.44
2830 2887 7.158099 AGCTTTAGTCAAAGTCAAGTTTTGT 57.842 32.000 0.00 0.00 42.71 2.83
2831 2888 8.276252 AGCTTTAGTCAAAGTCAAGTTTTGTA 57.724 30.769 0.00 0.00 42.71 2.41
2832 2889 8.736244 AGCTTTAGTCAAAGTCAAGTTTTGTAA 58.264 29.630 0.00 0.00 42.71 2.41
2833 2890 9.349145 GCTTTAGTCAAAGTCAAGTTTTGTAAA 57.651 29.630 0.00 0.00 42.71 2.01
2838 2895 9.191995 AGTCAAAGTCAAGTTTTGTAAACTTTG 57.808 29.630 18.68 18.68 45.12 2.77
2840 2897 9.187455 TCAAAGTCAAGTTTTGTAAACTTTGAC 57.813 29.630 21.08 22.60 46.09 3.18
2841 2898 8.973378 CAAAGTCAAGTTTTGTAAACTTTGACA 58.027 29.630 26.54 4.92 45.80 3.58
2842 2899 9.535878 AAAGTCAAGTTTTGTAAACTTTGACAA 57.464 25.926 26.54 9.63 38.32 3.18
2843 2900 9.535878 AAGTCAAGTTTTGTAAACTTTGACAAA 57.464 25.926 26.54 13.73 42.31 2.83
3011 3068 7.462109 GACTTCAGTCAACTCTAATATGCAG 57.538 40.000 1.86 0.00 44.18 4.41
3012 3069 7.175347 ACTTCAGTCAACTCTAATATGCAGA 57.825 36.000 0.00 0.00 0.00 4.26
3013 3070 7.264221 ACTTCAGTCAACTCTAATATGCAGAG 58.736 38.462 11.37 11.37 44.28 3.35
3029 3086 5.873179 TGCAGAGTAAATAAAAACGGAGG 57.127 39.130 0.00 0.00 0.00 4.30
3030 3087 4.698304 TGCAGAGTAAATAAAAACGGAGGG 59.302 41.667 0.00 0.00 0.00 4.30
3031 3088 4.939439 GCAGAGTAAATAAAAACGGAGGGA 59.061 41.667 0.00 0.00 0.00 4.20
3032 3089 5.064834 GCAGAGTAAATAAAAACGGAGGGAG 59.935 44.000 0.00 0.00 0.00 4.30
3033 3090 6.171213 CAGAGTAAATAAAAACGGAGGGAGT 58.829 40.000 0.00 0.00 0.00 3.85
3110 3167 0.817654 GGTACCCAGCCTTCAAATGC 59.182 55.000 0.00 0.00 0.00 3.56
3143 3200 6.073058 ACTGATACATTGGTAAATGCATAGCG 60.073 38.462 0.00 0.00 46.06 4.26
3144 3201 3.354089 ACATTGGTAAATGCATAGCGC 57.646 42.857 0.00 0.00 46.06 5.92
3266 3325 3.706594 TCCTAGTTCCTACATTGCCTCAG 59.293 47.826 0.00 0.00 0.00 3.35
3329 3388 5.508200 TGTTCGCTTGTTTCCAAAGTATT 57.492 34.783 0.00 0.00 0.00 1.89
3454 3513 2.297129 GCAGGAGGGTGAGCCTCTT 61.297 63.158 27.68 19.62 34.95 2.85
3478 3537 1.959985 ACAGAGAGAGTATGGGATGCG 59.040 52.381 0.00 0.00 0.00 4.73
3556 3615 7.938140 TGTCAAGGAAATATTTACTCTTGGG 57.062 36.000 23.48 11.19 34.23 4.12
3562 3621 7.450903 AGGAAATATTTACTCTTGGGTATCCG 58.549 38.462 7.14 0.00 35.24 4.18
4047 4106 6.834168 ATAAGTTCCCAGTAATGTGTTTGG 57.166 37.500 0.00 0.00 0.00 3.28
4053 4112 4.825085 TCCCAGTAATGTGTTTGGAACTTC 59.175 41.667 0.00 0.00 32.34 3.01
4136 4203 2.426522 CTTGGGACATGTGTCGATTGT 58.573 47.619 1.15 0.00 45.65 2.71
4147 4214 3.005367 TGTGTCGATTGTCTTGAGCAGTA 59.995 43.478 0.00 0.00 0.00 2.74
4219 4286 3.456380 AGCATTTTCCCTTGGCTTCTA 57.544 42.857 0.00 0.00 0.00 2.10
4331 4398 0.744281 AGCGGGTTGGTTTTTCACTG 59.256 50.000 0.00 0.00 0.00 3.66
4371 4438 0.629596 ATCAGTCACCTCCCGTCCTA 59.370 55.000 0.00 0.00 0.00 2.94
4382 4449 5.071384 CACCTCCCGTCCTAACCTTTATTAT 59.929 44.000 0.00 0.00 0.00 1.28
4516 4583 1.270550 CAGGTCTGTGATTGTTTGGGC 59.729 52.381 0.00 0.00 0.00 5.36
4633 4700 5.968387 ACGTATAGAATGCTGCAAGTAAC 57.032 39.130 6.36 0.00 35.30 2.50
4681 4748 7.651808 TCAAACAGGAGAAATCATGAGAAAAC 58.348 34.615 0.09 0.00 0.00 2.43
4717 4784 5.105756 GCACACTGCTTAATTTATCCCTGTT 60.106 40.000 0.00 0.00 40.96 3.16
4888 4955 8.612619 TGACAGTCTTCTTTTTCATTGTCTTAC 58.387 33.333 1.31 0.00 35.82 2.34
4889 4956 8.738645 ACAGTCTTCTTTTTCATTGTCTTACT 57.261 30.769 0.00 0.00 0.00 2.24
4890 4957 9.178758 ACAGTCTTCTTTTTCATTGTCTTACTT 57.821 29.630 0.00 0.00 0.00 2.24
5063 5130 5.988561 GCTTCAAATGTAGATCTCTACTGGG 59.011 44.000 16.19 5.98 46.74 4.45
6139 6206 3.181466 GCTTGTGTTTCTGGTGGGAATTT 60.181 43.478 0.00 0.00 0.00 1.82
6199 6266 0.811915 CTGGACGACACCGAGAATCT 59.188 55.000 0.00 0.00 39.50 2.40
6200 6267 0.526211 TGGACGACACCGAGAATCTG 59.474 55.000 0.00 0.00 39.50 2.90
6226 6293 2.233271 ACTGAACCTGCAAACCTCATG 58.767 47.619 0.00 0.00 0.00 3.07
6242 6309 4.572389 ACCTCATGAAGATGCGTTATGAAC 59.428 41.667 0.00 0.00 0.00 3.18
6348 6418 8.007405 TCATTTCTATTCATCTCGTCAAGGTA 57.993 34.615 0.00 0.00 0.00 3.08
6389 6461 7.994334 TGTGTGTAATAATCAAGGTATTACCCC 59.006 37.037 9.31 4.21 41.02 4.95
6424 6496 5.330295 GCGATGGATATGCATCTTTCATTC 58.670 41.667 28.02 7.67 0.00 2.67
6431 6504 7.074502 GGATATGCATCTTTCATTCTTTCGTC 58.925 38.462 0.19 0.00 0.00 4.20
6438 6511 7.168135 GCATCTTTCATTCTTTCGTCTGTTTTT 59.832 33.333 0.00 0.00 0.00 1.94
6458 6531 2.935481 CTGTGGGAAGGCCTGGGA 60.935 66.667 5.69 0.00 0.00 4.37
6466 6539 0.394899 GAAGGCCTGGGAGTGATTGG 60.395 60.000 5.69 0.00 0.00 3.16
6482 6555 4.080638 GTGATTGGAGAAGGACCTTGATCT 60.081 45.833 12.68 2.06 0.00 2.75
6515 6588 3.822940 ACCGTGGGAAATTAACTGAACA 58.177 40.909 0.00 0.00 0.00 3.18
6519 6592 5.633182 CCGTGGGAAATTAACTGAACAATTG 59.367 40.000 3.24 3.24 0.00 2.32
6525 6598 9.974980 GGGAAATTAACTGAACAATTGAAGTAA 57.025 29.630 13.59 8.18 0.00 2.24
6556 6629 6.664515 TGCGAAACTTAGTCCAAAATAACAG 58.335 36.000 0.00 0.00 0.00 3.16
6611 6684 4.713792 ACAGAACTTCAAACAGAGGGAT 57.286 40.909 0.00 0.00 0.00 3.85
6622 6695 5.890985 TCAAACAGAGGGATTTTTGAAGTGA 59.109 36.000 0.00 0.00 35.54 3.41
6642 6715 3.444742 TGATGTGATGTCTTTGAATGGCC 59.555 43.478 0.00 0.00 0.00 5.36
6698 6773 6.094881 ACGAAAAAGAAGATGGACAAAAGTCA 59.905 34.615 0.00 0.00 0.00 3.41
6736 6811 9.601217 AGTATAAAATAGGTTATCCGATCATGC 57.399 33.333 0.00 0.00 39.05 4.06
6749 6824 3.261580 CGATCATGCAGGTTGTCAAGTA 58.738 45.455 0.00 0.00 0.00 2.24
6750 6825 3.062639 CGATCATGCAGGTTGTCAAGTAC 59.937 47.826 0.00 0.00 0.00 2.73
6751 6826 3.769739 TCATGCAGGTTGTCAAGTACT 57.230 42.857 0.00 0.00 0.00 2.73
6752 6827 3.664107 TCATGCAGGTTGTCAAGTACTC 58.336 45.455 0.00 0.00 0.00 2.59
6753 6828 2.543777 TGCAGGTTGTCAAGTACTCC 57.456 50.000 0.00 0.00 0.00 3.85
6754 6829 1.071699 TGCAGGTTGTCAAGTACTCCC 59.928 52.381 0.00 0.00 0.00 4.30
6755 6830 1.348036 GCAGGTTGTCAAGTACTCCCT 59.652 52.381 0.00 0.00 31.46 4.20
6756 6831 2.613223 GCAGGTTGTCAAGTACTCCCTC 60.613 54.545 0.00 0.00 29.59 4.30
6757 6832 2.900546 CAGGTTGTCAAGTACTCCCTCT 59.099 50.000 0.00 0.00 29.59 3.69
6758 6833 3.056465 CAGGTTGTCAAGTACTCCCTCTC 60.056 52.174 0.00 0.00 29.59 3.20
6759 6834 2.234168 GGTTGTCAAGTACTCCCTCTCC 59.766 54.545 0.00 0.00 0.00 3.71
6760 6835 2.233305 TGTCAAGTACTCCCTCTCCC 57.767 55.000 0.00 0.00 0.00 4.30
6761 6836 1.717077 TGTCAAGTACTCCCTCTCCCT 59.283 52.381 0.00 0.00 0.00 4.20
6762 6837 2.291670 TGTCAAGTACTCCCTCTCCCTC 60.292 54.545 0.00 0.00 0.00 4.30
6763 6838 2.024751 GTCAAGTACTCCCTCTCCCTCT 60.025 54.545 0.00 0.00 0.00 3.69
6764 6839 2.024846 TCAAGTACTCCCTCTCCCTCTG 60.025 54.545 0.00 0.00 0.00 3.35
6765 6840 1.688750 AGTACTCCCTCTCCCTCTGT 58.311 55.000 0.00 0.00 0.00 3.41
6766 6841 2.861261 AGTACTCCCTCTCCCTCTGTA 58.139 52.381 0.00 0.00 0.00 2.74
6767 6842 3.199671 AGTACTCCCTCTCCCTCTGTAA 58.800 50.000 0.00 0.00 0.00 2.41
6768 6843 3.596956 AGTACTCCCTCTCCCTCTGTAAA 59.403 47.826 0.00 0.00 0.00 2.01
6769 6844 3.108847 ACTCCCTCTCCCTCTGTAAAG 57.891 52.381 0.00 0.00 0.00 1.85
6770 6845 2.655407 ACTCCCTCTCCCTCTGTAAAGA 59.345 50.000 0.00 0.00 0.00 2.52
6771 6846 3.077695 ACTCCCTCTCCCTCTGTAAAGAA 59.922 47.826 0.00 0.00 0.00 2.52
6772 6847 4.097418 CTCCCTCTCCCTCTGTAAAGAAA 58.903 47.826 0.00 0.00 0.00 2.52
6773 6848 4.699994 TCCCTCTCCCTCTGTAAAGAAAT 58.300 43.478 0.00 0.00 0.00 2.17
6774 6849 5.850278 TCCCTCTCCCTCTGTAAAGAAATA 58.150 41.667 0.00 0.00 0.00 1.40
6775 6850 6.453476 TCCCTCTCCCTCTGTAAAGAAATAT 58.547 40.000 0.00 0.00 0.00 1.28
6776 6851 7.601942 TCCCTCTCCCTCTGTAAAGAAATATA 58.398 38.462 0.00 0.00 0.00 0.86
6777 6852 8.071854 TCCCTCTCCCTCTGTAAAGAAATATAA 58.928 37.037 0.00 0.00 0.00 0.98
6778 6853 8.371699 CCCTCTCCCTCTGTAAAGAAATATAAG 58.628 40.741 0.00 0.00 0.00 1.73
6779 6854 9.148879 CCTCTCCCTCTGTAAAGAAATATAAGA 57.851 37.037 0.00 0.00 0.00 2.10
6781 6856 8.643324 TCTCCCTCTGTAAAGAAATATAAGAGC 58.357 37.037 0.00 0.00 0.00 4.09
6782 6857 7.434492 TCCCTCTGTAAAGAAATATAAGAGCG 58.566 38.462 0.00 0.00 0.00 5.03
6783 6858 7.069578 TCCCTCTGTAAAGAAATATAAGAGCGT 59.930 37.037 0.00 0.00 0.00 5.07
6784 6859 7.711339 CCCTCTGTAAAGAAATATAAGAGCGTT 59.289 37.037 0.00 0.00 0.00 4.84
6785 6860 9.099454 CCTCTGTAAAGAAATATAAGAGCGTTT 57.901 33.333 0.00 0.00 0.00 3.60
6799 6874 6.801539 AAGAGCGTTTAGATCACAATTGAA 57.198 33.333 13.59 0.00 37.82 2.69
6830 6912 5.017294 GGGAGAACCTATGATATAGCAGC 57.983 47.826 0.00 0.00 35.85 5.25
6855 6937 6.483640 CCCTTGGCACATTTACTAGAGAATAC 59.516 42.308 0.00 0.00 39.30 1.89
6900 6982 6.546428 AATACTCGGAAAGAATTCTCCAGA 57.454 37.500 8.78 9.04 35.79 3.86
6904 6986 4.090090 TCGGAAAGAATTCTCCAGAGAGT 58.910 43.478 8.78 0.00 41.26 3.24
6937 7019 8.207906 GTCTCATTTCGCAACAATTTTACTTTC 58.792 33.333 0.00 0.00 0.00 2.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.998383 TCATAATAATTAGACCAGGTTGTGCAT 59.002 33.333 0.00 0.00 0.00 3.96
1 2 7.342581 TCATAATAATTAGACCAGGTTGTGCA 58.657 34.615 0.00 0.00 0.00 4.57
2 3 7.801716 TCATAATAATTAGACCAGGTTGTGC 57.198 36.000 0.00 0.00 0.00 4.57
3 4 9.003658 GGATCATAATAATTAGACCAGGTTGTG 57.996 37.037 0.00 0.00 0.00 3.33
4 5 8.949421 AGGATCATAATAATTAGACCAGGTTGT 58.051 33.333 0.00 0.00 0.00 3.32
115 118 4.361451 AATATGTAGCAACAGCAAGCAC 57.639 40.909 0.00 0.00 39.49 4.40
178 181 9.851686 TTAGATAGTTATGATGGCTGTCAATTT 57.148 29.630 0.00 0.00 0.00 1.82
415 424 5.893897 AAAGCTCAATGATCAAACCTCTC 57.106 39.130 0.00 0.00 0.00 3.20
502 513 1.407575 CCCCTTGTGTGTGTGTGTGTA 60.408 52.381 0.00 0.00 0.00 2.90
633 670 2.933287 AGGGTGCCGGTCCAATCA 60.933 61.111 17.08 0.00 0.00 2.57
685 722 5.373222 GGCATGTACAATAGGGACAACATA 58.627 41.667 0.00 0.00 0.00 2.29
703 740 1.949525 CCTCCGTTTCATAAGGGCATG 59.050 52.381 0.00 0.00 38.81 4.06
714 751 3.672767 TTCAACTACTCCCTCCGTTTC 57.327 47.619 0.00 0.00 0.00 2.78
715 752 5.482878 TCTTATTCAACTACTCCCTCCGTTT 59.517 40.000 0.00 0.00 0.00 3.60
716 753 5.021458 TCTTATTCAACTACTCCCTCCGTT 58.979 41.667 0.00 0.00 0.00 4.44
767 805 6.128929 GGAACATTTTTCACATTACGAAAGCC 60.129 38.462 0.00 0.00 34.07 4.35
774 812 6.981722 ACAGAGGGAACATTTTTCACATTAC 58.018 36.000 0.00 0.00 0.00 1.89
775 813 8.698973 TTACAGAGGGAACATTTTTCACATTA 57.301 30.769 0.00 0.00 0.00 1.90
776 814 7.595819 TTACAGAGGGAACATTTTTCACATT 57.404 32.000 0.00 0.00 0.00 2.71
799 837 6.795098 TTTATTCACTGTCACGCTGTATTT 57.205 33.333 0.00 0.00 0.00 1.40
825 863 8.858003 TTTTTAACATGAATGTCAACGCTTTA 57.142 26.923 0.00 0.00 40.80 1.85
892 930 4.672801 CGCTAGAAGGTTGAGAAAATTGGC 60.673 45.833 0.00 0.00 0.00 4.52
936 974 3.433882 GGAGAGATCCGGAAGACTCACTA 60.434 52.174 26.60 0.00 32.59 2.74
1804 1842 4.379243 CACGCTCTTCGCCCCTGT 62.379 66.667 0.00 0.00 43.23 4.00
1938 1976 1.064166 CACTGCCTCATCCTTTCCCAT 60.064 52.381 0.00 0.00 0.00 4.00
2004 2042 1.312815 GCTTCTTGGTGAGCACAGTT 58.687 50.000 2.75 0.00 0.00 3.16
2131 2170 8.316214 TGATATAGAGCATGTTCAATGCATCTA 58.684 33.333 12.41 14.25 46.77 1.98
2197 2253 8.132362 CGTATCTCTTTGACTGCCTATATATCC 58.868 40.741 0.00 0.00 0.00 2.59
2310 2366 8.958119 AGTCTAGTCAACATGTTAGTCAAAAA 57.042 30.769 11.53 0.00 0.00 1.94
2311 2367 8.958119 AAGTCTAGTCAACATGTTAGTCAAAA 57.042 30.769 11.53 0.00 0.00 2.44
2312 2368 8.958119 AAAGTCTAGTCAACATGTTAGTCAAA 57.042 30.769 11.53 0.00 0.00 2.69
2313 2369 9.692749 CTAAAGTCTAGTCAACATGTTAGTCAA 57.307 33.333 11.53 0.00 0.00 3.18
2314 2370 8.857098 ACTAAAGTCTAGTCAACATGTTAGTCA 58.143 33.333 11.53 0.00 0.00 3.41
2315 2371 9.694137 AACTAAAGTCTAGTCAACATGTTAGTC 57.306 33.333 11.53 3.15 30.91 2.59
2319 2375 8.129211 GCAAAACTAAAGTCTAGTCAACATGTT 58.871 33.333 4.92 4.92 0.00 2.71
2320 2376 7.499232 AGCAAAACTAAAGTCTAGTCAACATGT 59.501 33.333 0.00 0.00 0.00 3.21
2321 2377 7.800380 CAGCAAAACTAAAGTCTAGTCAACATG 59.200 37.037 0.00 0.00 0.00 3.21
2459 2516 1.035932 GTACGCTCCACCCTCTAGCA 61.036 60.000 0.00 0.00 35.98 3.49
2462 2519 4.672251 GGTACGCTCCACCCTCTA 57.328 61.111 0.00 0.00 0.00 2.43
2482 2539 7.876936 TTAAGATCCTCACGACTATTGTAGT 57.123 36.000 0.00 0.00 42.86 2.73
2485 2542 7.371936 GCTATTAAGATCCTCACGACTATTGT 58.628 38.462 0.00 0.00 0.00 2.71
2487 2544 6.349445 CGGCTATTAAGATCCTCACGACTATT 60.349 42.308 0.00 0.00 0.00 1.73
2520 2577 6.706716 TCAACCATCGTTAACTATGACAACAA 59.293 34.615 18.89 0.52 0.00 2.83
2562 2619 0.625849 ATTGCCCTCCCAGTTCGAAT 59.374 50.000 0.00 0.00 0.00 3.34
2611 2668 2.953284 AATGAGATGCTGGGAGATGG 57.047 50.000 0.00 0.00 0.00 3.51
2774 2831 8.098912 GTGGACTAAATAAAAACAGAGGGAGTA 58.901 37.037 0.00 0.00 0.00 2.59
2775 2832 6.940867 GTGGACTAAATAAAAACAGAGGGAGT 59.059 38.462 0.00 0.00 0.00 3.85
2776 2833 6.092259 CGTGGACTAAATAAAAACAGAGGGAG 59.908 42.308 0.00 0.00 0.00 4.30
2777 2834 5.935789 CGTGGACTAAATAAAAACAGAGGGA 59.064 40.000 0.00 0.00 0.00 4.20
2778 2835 5.704053 ACGTGGACTAAATAAAAACAGAGGG 59.296 40.000 0.00 0.00 0.00 4.30
2779 2836 6.796705 ACGTGGACTAAATAAAAACAGAGG 57.203 37.500 0.00 0.00 0.00 3.69
2782 2839 9.698617 GCTAATACGTGGACTAAATAAAAACAG 57.301 33.333 0.00 0.00 0.00 3.16
2783 2840 9.439500 AGCTAATACGTGGACTAAATAAAAACA 57.561 29.630 0.00 0.00 0.00 2.83
2789 2846 9.956720 GACTAAAGCTAATACGTGGACTAAATA 57.043 33.333 0.00 0.00 0.00 1.40
2790 2847 8.472413 TGACTAAAGCTAATACGTGGACTAAAT 58.528 33.333 0.00 0.00 0.00 1.40
2791 2848 7.829725 TGACTAAAGCTAATACGTGGACTAAA 58.170 34.615 0.00 0.00 0.00 1.85
2792 2849 7.395190 TGACTAAAGCTAATACGTGGACTAA 57.605 36.000 0.00 0.00 0.00 2.24
2793 2850 7.395190 TTGACTAAAGCTAATACGTGGACTA 57.605 36.000 0.00 0.00 0.00 2.59
2794 2851 5.909621 TGACTAAAGCTAATACGTGGACT 57.090 39.130 0.00 0.00 0.00 3.85
2795 2852 6.589139 ACTTTGACTAAAGCTAATACGTGGAC 59.411 38.462 0.00 0.00 45.72 4.02
2796 2853 6.694447 ACTTTGACTAAAGCTAATACGTGGA 58.306 36.000 0.00 0.00 45.72 4.02
2797 2854 6.588756 TGACTTTGACTAAAGCTAATACGTGG 59.411 38.462 0.00 0.00 45.72 4.94
2798 2855 7.576750 TGACTTTGACTAAAGCTAATACGTG 57.423 36.000 0.00 0.00 45.72 4.49
2799 2856 7.871463 ACTTGACTTTGACTAAAGCTAATACGT 59.129 33.333 0.00 0.00 45.72 3.57
2800 2857 8.240883 ACTTGACTTTGACTAAAGCTAATACG 57.759 34.615 0.00 0.00 45.72 3.06
2803 2860 9.736023 CAAAACTTGACTTTGACTAAAGCTAAT 57.264 29.630 0.00 0.00 45.72 1.73
2804 2861 8.736244 ACAAAACTTGACTTTGACTAAAGCTAA 58.264 29.630 2.51 0.00 45.72 3.09
2805 2862 8.276252 ACAAAACTTGACTTTGACTAAAGCTA 57.724 30.769 2.51 0.00 45.72 3.32
2806 2863 7.158099 ACAAAACTTGACTTTGACTAAAGCT 57.842 32.000 2.51 0.00 45.72 3.74
2807 2864 8.905103 TTACAAAACTTGACTTTGACTAAAGC 57.095 30.769 2.51 0.00 45.72 3.51
2812 2869 9.191995 CAAAGTTTACAAAACTTGACTTTGACT 57.808 29.630 16.20 0.00 45.80 3.41
2813 2870 9.187455 TCAAAGTTTACAAAACTTGACTTTGAC 57.813 29.630 20.06 2.49 46.09 3.18
2815 2872 8.973378 TGTCAAAGTTTACAAAACTTGACTTTG 58.027 29.630 26.11 17.57 45.12 2.77
2816 2873 9.535878 TTGTCAAAGTTTACAAAACTTGACTTT 57.464 25.926 26.11 11.59 40.10 2.66
2817 2874 9.535878 TTTGTCAAAGTTTACAAAACTTGACTT 57.464 25.926 26.11 11.83 41.34 3.01
2818 2875 9.535878 TTTTGTCAAAGTTTACAAAACTTGACT 57.464 25.926 26.11 12.06 45.66 3.41
2987 3044 7.261325 TCTGCATATTAGAGTTGACTGAAGTC 58.739 38.462 3.41 3.41 44.97 3.01
2988 3045 7.175347 TCTGCATATTAGAGTTGACTGAAGT 57.825 36.000 0.00 0.00 0.00 3.01
2989 3046 7.697352 CTCTGCATATTAGAGTTGACTGAAG 57.303 40.000 5.84 0.00 37.48 3.02
3003 3060 8.621286 CCTCCGTTTTTATTTACTCTGCATATT 58.379 33.333 0.00 0.00 0.00 1.28
3004 3061 7.228706 CCCTCCGTTTTTATTTACTCTGCATAT 59.771 37.037 0.00 0.00 0.00 1.78
3005 3062 6.540914 CCCTCCGTTTTTATTTACTCTGCATA 59.459 38.462 0.00 0.00 0.00 3.14
3006 3063 5.357032 CCCTCCGTTTTTATTTACTCTGCAT 59.643 40.000 0.00 0.00 0.00 3.96
3007 3064 4.698304 CCCTCCGTTTTTATTTACTCTGCA 59.302 41.667 0.00 0.00 0.00 4.41
3008 3065 4.939439 TCCCTCCGTTTTTATTTACTCTGC 59.061 41.667 0.00 0.00 0.00 4.26
3009 3066 6.171213 ACTCCCTCCGTTTTTATTTACTCTG 58.829 40.000 0.00 0.00 0.00 3.35
3010 3067 6.370186 ACTCCCTCCGTTTTTATTTACTCT 57.630 37.500 0.00 0.00 0.00 3.24
3011 3068 7.440556 GGATACTCCCTCCGTTTTTATTTACTC 59.559 40.741 0.00 0.00 0.00 2.59
3012 3069 7.278135 GGATACTCCCTCCGTTTTTATTTACT 58.722 38.462 0.00 0.00 0.00 2.24
3013 3070 7.488187 GGATACTCCCTCCGTTTTTATTTAC 57.512 40.000 0.00 0.00 0.00 2.01
3046 3103 1.692762 GCTCCCCCTCTGGTGATTCTA 60.693 57.143 0.00 0.00 0.00 2.10
3062 3119 0.694444 TATTCAGGTGGGGGAGCTCC 60.694 60.000 25.59 25.59 0.00 4.70
3097 3154 3.373439 GTCTAGTCTGCATTTGAAGGCTG 59.627 47.826 2.79 0.00 36.09 4.85
3110 3167 9.254133 CATTTACCAATGTATCAGTCTAGTCTG 57.746 37.037 10.37 10.37 35.86 3.51
3143 3200 5.637387 GCTGTGATTATAGAAGCTAGAAGGC 59.363 44.000 0.00 0.00 0.00 4.35
3144 3201 6.991938 AGCTGTGATTATAGAAGCTAGAAGG 58.008 40.000 0.00 0.00 42.25 3.46
3266 3325 7.075741 ACTATCGTTGCAAGTGTAAACAAATC 58.924 34.615 0.00 0.00 0.00 2.17
3329 3388 1.153353 GCCTGTTAAGTGTTAGCGCA 58.847 50.000 11.47 0.00 0.00 6.09
3454 3513 4.141846 GCATCCCATACTCTCTCTGTCAAA 60.142 45.833 0.00 0.00 0.00 2.69
3899 3958 4.045104 GTGTGTACCTGATATTCAGCTCG 58.955 47.826 0.00 0.00 42.98 5.03
4147 4214 4.077822 AGCATCTTTAAAGCTGAAGCACT 58.922 39.130 20.42 6.74 45.16 4.40
4331 4398 0.398318 AGGTTCCCACTCAACTCAGC 59.602 55.000 0.00 0.00 0.00 4.26
4371 4438 6.296026 TGAGCGGCATCTAATAATAAAGGTT 58.704 36.000 1.45 0.00 0.00 3.50
4382 4449 4.400529 TCAAACTATGAGCGGCATCTAA 57.599 40.909 1.45 0.00 38.44 2.10
4516 4583 3.979497 AACCCGGGGGAAAGCTGG 61.979 66.667 27.92 0.00 38.96 4.85
4617 4684 2.472695 TCCGTTACTTGCAGCATTCT 57.527 45.000 0.00 0.00 0.00 2.40
4681 4748 1.010935 CAGTGTGCTACAGGACAGCG 61.011 60.000 3.59 0.00 46.84 5.18
4707 4774 5.105392 GGAATGCACATGAAAACAGGGATAA 60.105 40.000 0.00 0.00 0.00 1.75
4717 4784 3.833650 ACTGAATGGGAATGCACATGAAA 59.166 39.130 0.00 0.00 37.08 2.69
4791 4858 1.279846 CGTGCCCCTTTTACTTCCCTA 59.720 52.381 0.00 0.00 0.00 3.53
4891 4958 9.540538 AGGATAGACATGCAGTAAGACTATAAT 57.459 33.333 0.00 0.00 0.00 1.28
4901 4968 6.014327 TGCATATGAAGGATAGACATGCAGTA 60.014 38.462 6.97 0.00 41.53 2.74
5063 5130 0.321298 TAACTTGACGGGCTTCAGGC 60.321 55.000 0.00 0.00 40.90 4.85
5585 5652 1.993370 GGAAACAGATTCTGACCGACG 59.007 52.381 20.33 0.00 38.18 5.12
5789 5856 1.518133 CAGAGAGTACTGCAGCGGC 60.518 63.158 15.27 0.31 41.68 6.53
5945 6012 3.432186 GGTGTGGCCTGTGACAAC 58.568 61.111 3.32 0.00 0.00 3.32
6199 6266 2.121291 TTGCAGGTTCAGTTCACACA 57.879 45.000 0.00 0.00 0.00 3.72
6200 6267 2.479560 GGTTTGCAGGTTCAGTTCACAC 60.480 50.000 0.00 0.00 0.00 3.82
6226 6293 8.950403 AACTTTAAAGTTCATAACGCATCTTC 57.050 30.769 24.66 0.00 45.65 2.87
6266 6333 3.007831 CCAAGCCTTTCAGAACTCTCTCT 59.992 47.826 0.00 0.00 0.00 3.10
6267 6334 3.007398 TCCAAGCCTTTCAGAACTCTCTC 59.993 47.826 0.00 0.00 0.00 3.20
6370 6442 7.219322 GTGTACGGGGTAATACCTTGATTATT 58.781 38.462 9.58 0.00 38.64 1.40
6389 6461 1.226974 CCATCGCCTCAGGTGTACG 60.227 63.158 3.58 0.00 34.40 3.67
6424 6496 4.342772 CCACAGACAAAAACAGACGAAAG 58.657 43.478 0.00 0.00 0.00 2.62
6431 6504 2.223805 GCCTTCCCACAGACAAAAACAG 60.224 50.000 0.00 0.00 0.00 3.16
6438 6511 2.528818 CCAGGCCTTCCCACAGACA 61.529 63.158 0.00 0.00 35.39 3.41
6458 6531 3.251484 TCAAGGTCCTTCTCCAATCACT 58.749 45.455 0.00 0.00 0.00 3.41
6597 6670 6.379703 TCACTTCAAAAATCCCTCTGTTTGAA 59.620 34.615 9.36 9.36 43.86 2.69
6605 6678 5.964958 TCACATCACTTCAAAAATCCCTC 57.035 39.130 0.00 0.00 0.00 4.30
6611 6684 7.770201 TCAAAGACATCACATCACTTCAAAAA 58.230 30.769 0.00 0.00 0.00 1.94
6622 6695 2.762327 GGGCCATTCAAAGACATCACAT 59.238 45.455 4.39 0.00 0.00 3.21
6716 6791 5.221925 ACCTGCATGATCGGATAACCTATTT 60.222 40.000 0.00 0.00 0.00 1.40
6725 6800 1.210234 TGACAACCTGCATGATCGGAT 59.790 47.619 0.00 0.00 0.00 4.18
6727 6802 1.399440 CTTGACAACCTGCATGATCGG 59.601 52.381 0.00 0.00 0.00 4.18
6728 6803 2.079158 ACTTGACAACCTGCATGATCG 58.921 47.619 0.00 0.00 0.00 3.69
6736 6811 2.900546 AGAGGGAGTACTTGACAACCTG 59.099 50.000 0.00 0.00 36.78 4.00
6749 6824 2.655407 TCTTTACAGAGGGAGAGGGAGT 59.345 50.000 0.00 0.00 0.00 3.85
6750 6825 3.390175 TCTTTACAGAGGGAGAGGGAG 57.610 52.381 0.00 0.00 0.00 4.30
6751 6826 3.847042 TTCTTTACAGAGGGAGAGGGA 57.153 47.619 0.00 0.00 0.00 4.20
6752 6827 6.755542 ATATTTCTTTACAGAGGGAGAGGG 57.244 41.667 0.00 0.00 0.00 4.30
6753 6828 9.148879 TCTTATATTTCTTTACAGAGGGAGAGG 57.851 37.037 0.00 0.00 0.00 3.69
6755 6830 8.643324 GCTCTTATATTTCTTTACAGAGGGAGA 58.357 37.037 0.00 0.00 0.00 3.71
6756 6831 7.596995 CGCTCTTATATTTCTTTACAGAGGGAG 59.403 40.741 4.76 0.00 40.49 4.30
6757 6832 7.069578 ACGCTCTTATATTTCTTTACAGAGGGA 59.930 37.037 14.96 0.00 40.49 4.20
6758 6833 7.210873 ACGCTCTTATATTTCTTTACAGAGGG 58.789 38.462 8.36 8.36 42.53 4.30
6759 6834 8.649973 AACGCTCTTATATTTCTTTACAGAGG 57.350 34.615 0.00 0.00 0.00 3.69
6767 6842 9.817809 TGTGATCTAAACGCTCTTATATTTCTT 57.182 29.630 0.00 0.00 0.00 2.52
6768 6843 9.817809 TTGTGATCTAAACGCTCTTATATTTCT 57.182 29.630 0.00 0.00 0.00 2.52
6772 6847 9.764363 TCAATTGTGATCTAAACGCTCTTATAT 57.236 29.630 5.13 0.00 0.00 0.86
6773 6848 9.594478 TTCAATTGTGATCTAAACGCTCTTATA 57.406 29.630 5.13 0.00 32.48 0.98
6774 6849 8.492673 TTCAATTGTGATCTAAACGCTCTTAT 57.507 30.769 5.13 0.00 32.48 1.73
6775 6850 7.899178 TTCAATTGTGATCTAAACGCTCTTA 57.101 32.000 5.13 0.00 32.48 2.10
6776 6851 6.801539 TTCAATTGTGATCTAAACGCTCTT 57.198 33.333 5.13 0.00 32.48 2.85
6777 6852 6.372659 ACATTCAATTGTGATCTAAACGCTCT 59.627 34.615 5.13 0.00 32.48 4.09
6778 6853 6.546395 ACATTCAATTGTGATCTAAACGCTC 58.454 36.000 5.13 0.00 32.48 5.03
6779 6854 6.500684 ACATTCAATTGTGATCTAAACGCT 57.499 33.333 5.13 0.00 32.48 5.07
6780 6855 8.667987 TTTACATTCAATTGTGATCTAAACGC 57.332 30.769 5.13 0.00 32.48 4.84
6785 6860 9.527157 TCCCTTTTTACATTCAATTGTGATCTA 57.473 29.630 5.13 0.00 32.48 1.98
6786 6861 8.421249 TCCCTTTTTACATTCAATTGTGATCT 57.579 30.769 5.13 0.00 32.48 2.75
6787 6862 8.522830 TCTCCCTTTTTACATTCAATTGTGATC 58.477 33.333 5.13 0.00 32.48 2.92
6788 6863 8.421249 TCTCCCTTTTTACATTCAATTGTGAT 57.579 30.769 5.13 0.00 32.48 3.06
6789 6864 7.831691 TCTCCCTTTTTACATTCAATTGTGA 57.168 32.000 5.13 0.00 0.00 3.58
6790 6865 7.384932 GGTTCTCCCTTTTTACATTCAATTGTG 59.615 37.037 5.13 0.00 0.00 3.33
6830 6912 4.487714 TCTCTAGTAAATGTGCCAAGGG 57.512 45.455 0.00 0.00 0.00 3.95
6878 6960 5.894393 TCTCTGGAGAATTCTTTCCGAGTAT 59.106 40.000 21.23 0.00 36.45 2.12
6888 6970 2.544721 TGCCACTCTCTGGAGAATTCT 58.455 47.619 7.95 7.95 43.95 2.40
6900 6982 3.005554 CGAAATGAGACAATGCCACTCT 58.994 45.455 0.00 0.00 0.00 3.24
6904 6986 1.532523 TGCGAAATGAGACAATGCCA 58.467 45.000 0.00 0.00 0.00 4.92
6937 7019 3.384467 AGTGGGGAGTTGTGTTCAAATTG 59.616 43.478 0.00 0.00 35.20 2.32


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

AutoCloner maintained by Alex Coulton.