Multiple sequence alignment - TraesCS3D01G163800

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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 TraesCS3D01G163800 chr3D 100.000 3518 0 0 1 3518 135046154 135042637 0.000000e+00 6497.0
1 TraesCS3D01G163800 chr3D 79.343 213 37 4 3308 3518 36974369 36974576 3.660000e-30 143.0
2 TraesCS3D01G163800 chr3D 80.000 170 33 1 2783 2951 558291226 558291057 1.330000e-24 124.0
3 TraesCS3D01G163800 chr3D 81.757 148 26 1 2817 2963 516183214 516183361 4.770000e-24 122.0
4 TraesCS3D01G163800 chr3D 76.190 189 38 7 3117 3301 606386245 606386060 3.740000e-15 93.5
5 TraesCS3D01G163800 chr3A 95.337 2852 96 18 164 2991 149988208 149985370 0.000000e+00 4495.0
6 TraesCS3D01G163800 chr3A 89.850 532 41 5 2989 3518 149985304 149984784 0.000000e+00 671.0
7 TraesCS3D01G163800 chr3A 76.995 213 44 5 2783 2992 474969655 474969445 2.220000e-22 117.0
8 TraesCS3D01G163800 chr3B 95.085 2584 88 19 178 2731 191191140 191188566 0.000000e+00 4032.0
9 TraesCS3D01G163800 chr3B 77.487 191 37 6 2777 2963 679508743 679508931 3.710000e-20 110.0
10 TraesCS3D01G163800 chr3B 76.630 184 31 11 2782 2957 141734791 141734612 1.340000e-14 91.6
11 TraesCS3D01G163800 chr1A 78.832 411 68 14 3117 3518 495644310 495644710 3.480000e-65 259.0
12 TraesCS3D01G163800 chr2B 77.616 411 70 13 3120 3518 670443041 670442641 2.730000e-56 230.0
13 TraesCS3D01G163800 chr2B 81.949 277 41 4 3244 3518 286977172 286977441 3.530000e-55 226.0
14 TraesCS3D01G163800 chr2B 78.754 353 59 11 3169 3513 641871300 641871644 4.570000e-54 222.0
15 TraesCS3D01G163800 chr2B 78.613 173 25 10 2785 2951 202491480 202491314 1.730000e-18 104.0
16 TraesCS3D01G163800 chr5B 80.126 317 52 8 3205 3518 684618923 684619231 3.530000e-55 226.0
17 TraesCS3D01G163800 chr5B 75.921 353 58 16 3173 3517 319814682 319814349 4.700000e-34 156.0
18 TraesCS3D01G163800 chr5B 77.914 163 32 3 2783 2942 579367522 579367361 8.040000e-17 99.0
19 TraesCS3D01G163800 chr5A 77.867 375 66 12 3147 3516 353156421 353156059 2.130000e-52 217.0
20 TraesCS3D01G163800 chr2D 80.287 279 43 6 3244 3517 262457359 262457088 2.140000e-47 200.0
21 TraesCS3D01G163800 chr2D 73.632 402 80 16 3118 3513 49905765 49906146 7.920000e-27 132.0
22 TraesCS3D01G163800 chr2D 92.500 40 2 1 36 74 131479923 131479962 4.910000e-04 56.5
23 TraesCS3D01G163800 chr5D 76.738 374 69 13 3147 3516 265661362 265661003 3.580000e-45 193.0
24 TraesCS3D01G163800 chr5D 76.144 306 49 12 3213 3514 501083864 501083579 4.740000e-29 139.0
25 TraesCS3D01G163800 chr1B 77.097 310 60 9 3213 3518 668721330 668721028 6.040000e-38 169.0
26 TraesCS3D01G163800 chr1B 95.000 40 1 1 36 74 489542081 489542120 1.050000e-05 62.1
27 TraesCS3D01G163800 chr7A 78.528 163 33 2 2791 2951 35450166 35450328 4.800000e-19 106.0
28 TraesCS3D01G163800 chr4D 92.500 40 2 1 36 74 53869011 53869050 4.910000e-04 56.5


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 TraesCS3D01G163800 chr3D 135042637 135046154 3517 True 6497 6497 100.0000 1 3518 1 chr3D.!!$R1 3517
1 TraesCS3D01G163800 chr3A 149984784 149988208 3424 True 2583 4495 92.5935 164 3518 2 chr3A.!!$R2 3354
2 TraesCS3D01G163800 chr3B 191188566 191191140 2574 True 4032 4032 95.0850 178 2731 1 chr3B.!!$R2 2553

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
151 152 0.109504 TAAAAACAATCTGCGCCCGC 60.110 50.0 4.18 5.6 42.35 6.13 F
1788 1814 0.673333 TCAACGCCATGCTCGTCAAT 60.673 50.0 10.85 0.0 39.48 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1800 1826 1.153086 GGAGCCCGTGAAGATGCAT 60.153 57.895 0.0 0.0 0.0 3.96 R
3023 3155 0.168128 GGCGTCGGAAATGACCTTTG 59.832 55.000 0.0 0.0 35.4 2.77 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 5.456921 ACATTATCTGTTGGAGATGGGTT 57.543 39.130 0.00 0.00 41.86 4.11
24 25 6.575244 ACATTATCTGTTGGAGATGGGTTA 57.425 37.500 0.00 0.00 41.86 2.85
25 26 7.154191 ACATTATCTGTTGGAGATGGGTTAT 57.846 36.000 0.00 0.00 41.86 1.89
26 27 7.586349 ACATTATCTGTTGGAGATGGGTTATT 58.414 34.615 0.00 0.00 41.86 1.40
27 28 7.503566 ACATTATCTGTTGGAGATGGGTTATTG 59.496 37.037 0.00 0.00 41.86 1.90
28 29 4.235079 TCTGTTGGAGATGGGTTATTGG 57.765 45.455 0.00 0.00 0.00 3.16
29 30 3.053693 TCTGTTGGAGATGGGTTATTGGG 60.054 47.826 0.00 0.00 0.00 4.12
30 31 2.652348 TGTTGGAGATGGGTTATTGGGT 59.348 45.455 0.00 0.00 0.00 4.51
31 32 3.288092 GTTGGAGATGGGTTATTGGGTC 58.712 50.000 0.00 0.00 0.00 4.46
32 33 2.858644 TGGAGATGGGTTATTGGGTCT 58.141 47.619 0.00 0.00 0.00 3.85
33 34 2.777692 TGGAGATGGGTTATTGGGTCTC 59.222 50.000 0.00 0.00 33.20 3.36
34 35 2.224305 GGAGATGGGTTATTGGGTCTCG 60.224 54.545 0.00 0.00 34.42 4.04
35 36 2.698797 GAGATGGGTTATTGGGTCTCGA 59.301 50.000 0.00 0.00 0.00 4.04
36 37 3.112263 AGATGGGTTATTGGGTCTCGAA 58.888 45.455 0.00 0.00 0.00 3.71
37 38 3.134804 AGATGGGTTATTGGGTCTCGAAG 59.865 47.826 0.00 0.00 0.00 3.79
38 39 2.262637 TGGGTTATTGGGTCTCGAAGT 58.737 47.619 0.00 0.00 0.00 3.01
39 40 3.443052 TGGGTTATTGGGTCTCGAAGTA 58.557 45.455 0.00 0.00 0.00 2.24
40 41 3.449737 TGGGTTATTGGGTCTCGAAGTAG 59.550 47.826 0.00 0.00 0.00 2.57
41 42 3.450096 GGGTTATTGGGTCTCGAAGTAGT 59.550 47.826 0.00 0.00 0.00 2.73
42 43 4.081254 GGGTTATTGGGTCTCGAAGTAGTT 60.081 45.833 0.00 0.00 0.00 2.24
43 44 5.127682 GGGTTATTGGGTCTCGAAGTAGTTA 59.872 44.000 0.00 0.00 0.00 2.24
44 45 6.183360 GGGTTATTGGGTCTCGAAGTAGTTAT 60.183 42.308 0.00 0.00 0.00 1.89
45 46 7.270779 GGTTATTGGGTCTCGAAGTAGTTATT 58.729 38.462 0.00 0.00 0.00 1.40
46 47 7.767659 GGTTATTGGGTCTCGAAGTAGTTATTT 59.232 37.037 0.00 0.00 0.00 1.40
47 48 9.159364 GTTATTGGGTCTCGAAGTAGTTATTTT 57.841 33.333 0.00 0.00 0.00 1.82
48 49 9.729281 TTATTGGGTCTCGAAGTAGTTATTTTT 57.271 29.630 0.00 0.00 0.00 1.94
49 50 7.429636 TTGGGTCTCGAAGTAGTTATTTTTG 57.570 36.000 0.00 0.00 0.00 2.44
50 51 5.410439 TGGGTCTCGAAGTAGTTATTTTTGC 59.590 40.000 0.00 0.00 0.00 3.68
51 52 5.410439 GGGTCTCGAAGTAGTTATTTTTGCA 59.590 40.000 0.00 0.00 0.00 4.08
52 53 6.093633 GGGTCTCGAAGTAGTTATTTTTGCAT 59.906 38.462 0.00 0.00 0.00 3.96
53 54 7.180748 GGTCTCGAAGTAGTTATTTTTGCATC 58.819 38.462 0.00 0.00 0.00 3.91
54 55 7.064728 GGTCTCGAAGTAGTTATTTTTGCATCT 59.935 37.037 0.00 0.00 0.00 2.90
55 56 9.084164 GTCTCGAAGTAGTTATTTTTGCATCTA 57.916 33.333 0.00 0.00 0.00 1.98
56 57 9.817809 TCTCGAAGTAGTTATTTTTGCATCTAT 57.182 29.630 0.00 0.00 0.00 1.98
93 94 9.798994 AAAGATGTTCATCTATTGAAAATGCTC 57.201 29.630 14.50 0.00 45.71 4.26
94 95 7.938715 AGATGTTCATCTATTGAAAATGCTCC 58.061 34.615 12.83 0.00 45.71 4.70
95 96 7.778853 AGATGTTCATCTATTGAAAATGCTCCT 59.221 33.333 12.83 0.00 45.71 3.69
96 97 8.985315 ATGTTCATCTATTGAAAATGCTCCTA 57.015 30.769 0.00 0.00 45.71 2.94
97 98 8.442632 TGTTCATCTATTGAAAATGCTCCTAG 57.557 34.615 0.00 0.00 45.71 3.02
98 99 7.500227 TGTTCATCTATTGAAAATGCTCCTAGG 59.500 37.037 0.82 0.82 45.71 3.02
99 100 7.379059 TCATCTATTGAAAATGCTCCTAGGA 57.621 36.000 11.98 11.98 0.00 2.94
100 101 7.220030 TCATCTATTGAAAATGCTCCTAGGAC 58.780 38.462 7.62 5.90 0.00 3.85
101 102 6.814954 TCTATTGAAAATGCTCCTAGGACT 57.185 37.500 7.62 0.00 0.00 3.85
102 103 7.200434 TCTATTGAAAATGCTCCTAGGACTT 57.800 36.000 7.62 0.00 0.00 3.01
103 104 7.275920 TCTATTGAAAATGCTCCTAGGACTTC 58.724 38.462 7.62 6.62 0.00 3.01
104 105 5.505181 TTGAAAATGCTCCTAGGACTTCT 57.495 39.130 7.62 0.00 0.00 2.85
105 106 6.620877 TTGAAAATGCTCCTAGGACTTCTA 57.379 37.500 7.62 0.87 0.00 2.10
106 107 6.620877 TGAAAATGCTCCTAGGACTTCTAA 57.379 37.500 7.62 0.00 0.00 2.10
107 108 7.016153 TGAAAATGCTCCTAGGACTTCTAAA 57.984 36.000 7.62 0.00 0.00 1.85
108 109 7.458397 TGAAAATGCTCCTAGGACTTCTAAAA 58.542 34.615 7.62 0.00 0.00 1.52
109 110 8.109634 TGAAAATGCTCCTAGGACTTCTAAAAT 58.890 33.333 7.62 0.00 0.00 1.82
110 111 8.885693 AAAATGCTCCTAGGACTTCTAAAATT 57.114 30.769 7.62 0.00 0.00 1.82
111 112 8.885693 AAATGCTCCTAGGACTTCTAAAATTT 57.114 30.769 7.62 3.00 0.00 1.82
112 113 8.512966 AATGCTCCTAGGACTTCTAAAATTTC 57.487 34.615 7.62 0.00 0.00 2.17
113 114 7.259088 TGCTCCTAGGACTTCTAAAATTTCT 57.741 36.000 7.62 0.00 0.00 2.52
114 115 8.375493 TGCTCCTAGGACTTCTAAAATTTCTA 57.625 34.615 7.62 0.00 0.00 2.10
115 116 8.822805 TGCTCCTAGGACTTCTAAAATTTCTAA 58.177 33.333 7.62 0.00 0.00 2.10
116 117 9.668497 GCTCCTAGGACTTCTAAAATTTCTAAA 57.332 33.333 7.62 0.00 0.00 1.85
123 124 9.626045 GGACTTCTAAAATTTCTAAACATGTGG 57.374 33.333 0.00 0.00 0.00 4.17
130 131 7.810766 AAATTTCTAAACATGTGGTTATGCG 57.189 32.000 0.00 0.00 39.29 4.73
131 132 5.950758 TTTCTAAACATGTGGTTATGCGT 57.049 34.783 0.00 0.00 39.29 5.24
132 133 5.950758 TTCTAAACATGTGGTTATGCGTT 57.049 34.783 0.00 0.00 39.29 4.84
133 134 7.436430 TTTCTAAACATGTGGTTATGCGTTA 57.564 32.000 0.00 0.00 39.29 3.18
134 135 7.436430 TTCTAAACATGTGGTTATGCGTTAA 57.564 32.000 0.00 0.00 39.29 2.01
135 136 7.436430 TCTAAACATGTGGTTATGCGTTAAA 57.564 32.000 0.00 0.00 39.29 1.52
136 137 7.872881 TCTAAACATGTGGTTATGCGTTAAAA 58.127 30.769 0.00 0.00 39.29 1.52
137 138 8.350722 TCTAAACATGTGGTTATGCGTTAAAAA 58.649 29.630 0.00 0.00 39.29 1.94
138 139 6.757026 AACATGTGGTTATGCGTTAAAAAC 57.243 33.333 0.00 0.00 38.15 2.43
139 140 5.833082 ACATGTGGTTATGCGTTAAAAACA 58.167 33.333 0.00 0.00 0.00 2.83
140 141 6.273825 ACATGTGGTTATGCGTTAAAAACAA 58.726 32.000 0.00 0.00 0.00 2.83
141 142 6.926272 ACATGTGGTTATGCGTTAAAAACAAT 59.074 30.769 0.00 0.00 0.00 2.71
142 143 6.994868 TGTGGTTATGCGTTAAAAACAATC 57.005 33.333 0.00 0.00 0.00 2.67
143 144 6.740110 TGTGGTTATGCGTTAAAAACAATCT 58.260 32.000 0.00 0.00 0.00 2.40
144 145 6.638873 TGTGGTTATGCGTTAAAAACAATCTG 59.361 34.615 0.00 0.00 0.00 2.90
145 146 5.631512 TGGTTATGCGTTAAAAACAATCTGC 59.368 36.000 0.00 0.00 0.00 4.26
146 147 5.219951 GGTTATGCGTTAAAAACAATCTGCG 60.220 40.000 0.00 0.00 0.00 5.18
147 148 2.047769 TGCGTTAAAAACAATCTGCGC 58.952 42.857 0.00 0.00 43.26 6.09
148 149 1.385409 GCGTTAAAAACAATCTGCGCC 59.615 47.619 4.18 0.00 38.03 6.53
149 150 1.982913 CGTTAAAAACAATCTGCGCCC 59.017 47.619 4.18 0.00 0.00 6.13
150 151 1.982913 GTTAAAAACAATCTGCGCCCG 59.017 47.619 4.18 0.00 0.00 6.13
151 152 0.109504 TAAAAACAATCTGCGCCCGC 60.110 50.000 4.18 5.60 42.35 6.13
161 162 3.044305 GCGCCCGCACTCCATATC 61.044 66.667 7.91 0.00 41.49 1.63
162 163 2.421314 CGCCCGCACTCCATATCA 59.579 61.111 0.00 0.00 0.00 2.15
170 171 3.814842 CCGCACTCCATATCAAAATAGCA 59.185 43.478 0.00 0.00 0.00 3.49
174 175 5.755813 CACTCCATATCAAAATAGCAGTGC 58.244 41.667 7.13 7.13 0.00 4.40
217 226 2.224843 CCAGCCAGCCATCCAATATACA 60.225 50.000 0.00 0.00 0.00 2.29
476 498 1.299468 GCAGTAGCCGTCGGATCTG 60.299 63.158 17.49 18.23 33.58 2.90
637 659 1.856597 GTACGTAGCCGCCATTTACTG 59.143 52.381 0.00 0.00 37.70 2.74
827 850 4.735132 GTGGCGAGGCTGTGCGTA 62.735 66.667 0.00 0.00 0.00 4.42
828 851 4.435436 TGGCGAGGCTGTGCGTAG 62.435 66.667 0.00 0.00 0.00 3.51
991 1014 1.759445 GAGTGGCTTGCTGGAGATAGA 59.241 52.381 0.00 0.00 0.00 1.98
1629 1655 4.722700 AAGAAGCGCCCGCACCAT 62.723 61.111 15.50 0.00 44.88 3.55
1773 1799 3.124921 CACGACGGGCCCATCAAC 61.125 66.667 24.92 6.59 0.00 3.18
1788 1814 0.673333 TCAACGCCATGCTCGTCAAT 60.673 50.000 10.85 0.00 39.48 2.57
1800 1826 2.577059 GTCAATGAGGCCGACGGA 59.423 61.111 20.50 0.00 0.00 4.69
1977 2003 3.955101 CTCTACGCCGGCTCCTCG 61.955 72.222 26.68 11.18 0.00 4.63
2049 2075 2.033194 CGTCGGTTTCCTCAAGGGC 61.033 63.158 0.00 0.00 35.41 5.19
2596 2647 3.893200 GGCCAACCTTAGTTTAGTGGTTT 59.107 43.478 0.00 0.00 40.39 3.27
2597 2648 5.072055 GGCCAACCTTAGTTTAGTGGTTTA 58.928 41.667 0.00 0.00 40.39 2.01
2651 2703 3.379057 GTCGTTTTTCCTTCTTCACCCAA 59.621 43.478 0.00 0.00 0.00 4.12
2742 2797 3.603857 GCAGTACAATCACACACGTTCAC 60.604 47.826 0.00 0.00 0.00 3.18
2745 2800 3.607422 ACAATCACACACGTTCACATG 57.393 42.857 0.00 0.00 0.00 3.21
2748 2803 0.655208 TCACACACGTTCACATGCAC 59.345 50.000 0.00 0.00 0.00 4.57
2756 2811 4.515191 ACACGTTCACATGCACTTATCTTT 59.485 37.500 0.00 0.00 0.00 2.52
2774 2829 8.989653 TTATCTTTATGAACACACACATACGA 57.010 30.769 0.00 0.00 0.00 3.43
2779 2834 9.472995 CTTTATGAACACACACATACGAATTAC 57.527 33.333 0.00 0.00 0.00 1.89
2780 2835 8.766000 TTATGAACACACACATACGAATTACT 57.234 30.769 0.00 0.00 0.00 2.24
2788 2843 8.746751 CACACACATACGAATTACTTCTATGAG 58.253 37.037 13.86 10.58 32.58 2.90
2791 2846 9.947669 ACACATACGAATTACTTCTATGAGTAC 57.052 33.333 13.86 0.00 32.12 2.73
2798 2862 8.127327 CGAATTACTTCTATGAGTACCTTCGAA 58.873 37.037 16.17 0.00 42.65 3.71
2808 2872 5.357257 TGAGTACCTTCGAAATATTGAGCC 58.643 41.667 0.00 0.00 0.00 4.70
2810 2874 2.561569 ACCTTCGAAATATTGAGCCGG 58.438 47.619 0.00 0.00 0.00 6.13
2811 2875 2.093128 ACCTTCGAAATATTGAGCCGGT 60.093 45.455 1.90 0.00 0.00 5.28
2812 2876 3.133362 ACCTTCGAAATATTGAGCCGGTA 59.867 43.478 1.90 0.00 0.00 4.02
2813 2877 4.202326 ACCTTCGAAATATTGAGCCGGTAT 60.202 41.667 1.90 0.00 0.00 2.73
2818 2882 8.867112 TTCGAAATATTGAGCCGGTATATATC 57.133 34.615 1.90 0.00 0.00 1.63
2823 2887 9.823647 AAATATTGAGCCGGTATATATCTTGAG 57.176 33.333 1.90 0.00 0.00 3.02
2833 2897 6.802348 CGGTATATATCTTGAGGTTGACGAAG 59.198 42.308 0.00 0.00 0.00 3.79
2872 2936 8.049721 CCTTATAGTTGATGGGAAAGTCTTCTT 58.950 37.037 0.00 0.00 35.14 2.52
2873 2937 9.103861 CTTATAGTTGATGGGAAAGTCTTCTTC 57.896 37.037 0.00 0.00 32.90 2.87
2874 2938 4.319177 AGTTGATGGGAAAGTCTTCTTCG 58.681 43.478 0.00 0.00 32.90 3.79
2878 2942 3.386768 TGGGAAAGTCTTCTTCGACTG 57.613 47.619 0.00 0.00 43.14 3.51
2881 2945 3.741856 GGGAAAGTCTTCTTCGACTGAAC 59.258 47.826 0.00 0.00 43.14 3.18
2928 2992 7.865706 ATAAATCCAGAAAAATGCGAGTACT 57.134 32.000 0.00 0.00 0.00 2.73
2932 2996 8.958119 AATCCAGAAAAATGCGAGTACTAATA 57.042 30.769 0.00 0.00 0.00 0.98
2967 3031 6.567602 ACTTGAATCCTGATAGGCTAGTTT 57.432 37.500 0.00 0.00 34.61 2.66
2970 3034 5.918608 TGAATCCTGATAGGCTAGTTTCAC 58.081 41.667 0.00 0.00 34.61 3.18
2971 3035 4.965200 ATCCTGATAGGCTAGTTTCACC 57.035 45.455 0.00 0.00 34.61 4.02
2974 3038 3.199946 CCTGATAGGCTAGTTTCACCCAA 59.800 47.826 0.00 0.00 0.00 4.12
2999 3131 2.880963 ACCAAACCATCAAAACGGTG 57.119 45.000 0.00 0.00 35.08 4.94
3036 3168 7.722363 TCCTAAGAAAAACAAAGGTCATTTCC 58.278 34.615 0.00 0.00 35.21 3.13
3037 3169 6.640907 CCTAAGAAAAACAAAGGTCATTTCCG 59.359 38.462 0.00 0.00 35.21 4.30
3056 3188 1.689959 GACGCCGACTCTTAAAACGA 58.310 50.000 0.00 0.00 0.00 3.85
3116 3249 3.326747 GGGCACATATATGGAAGTCGTC 58.673 50.000 16.96 0.19 0.00 4.20
3129 3262 0.984230 AGTCGTCCATCCAACCATGT 59.016 50.000 0.00 0.00 0.00 3.21
3142 3275 1.435577 ACCATGTCCGCTAAACGTTC 58.564 50.000 0.00 0.00 41.42 3.95
3213 3347 9.959749 AAATCTTTGTGAAGCGAAAATACTAAA 57.040 25.926 0.00 0.00 32.75 1.85
3214 3348 9.959749 AATCTTTGTGAAGCGAAAATACTAAAA 57.040 25.926 0.00 0.00 32.75 1.52
3216 3350 9.393249 TCTTTGTGAAGCGAAAATACTAAAATG 57.607 29.630 0.00 0.00 32.75 2.32
3217 3351 7.561237 TTGTGAAGCGAAAATACTAAAATGC 57.439 32.000 0.00 0.00 0.00 3.56
3218 3352 5.792962 TGTGAAGCGAAAATACTAAAATGCG 59.207 36.000 0.00 0.00 0.00 4.73
3304 3438 5.991328 ATTCAACTAGCACATATGTTCCG 57.009 39.130 5.37 0.00 0.00 4.30
3328 3462 0.323629 TCCTCTTTAAGTGCCCACGG 59.676 55.000 0.00 0.00 36.20 4.94
3344 3478 1.472082 CACGGCCACAATTGCTCAATA 59.528 47.619 5.05 0.00 0.00 1.90
3361 3495 9.846248 TTGCTCAATAAAATCTTCTTTAAGCTC 57.154 29.630 0.00 0.00 29.45 4.09
3380 3514 2.274437 TCTTCATGAGTTGCTCGATGC 58.726 47.619 0.00 0.00 43.25 3.91
3382 3516 0.807275 TCATGAGTTGCTCGATGCCG 60.807 55.000 0.00 0.00 42.00 5.69
3396 3530 2.463653 CGATGCCGAATTTGTTAATGCG 59.536 45.455 0.00 0.00 41.59 4.73
3398 3532 2.857618 TGCCGAATTTGTTAATGCGTC 58.142 42.857 0.00 0.00 40.54 5.19
3399 3533 2.226674 TGCCGAATTTGTTAATGCGTCA 59.773 40.909 0.00 0.00 40.54 4.35
3412 3546 2.254546 TGCGTCAGGACAAACTCATT 57.745 45.000 0.00 0.00 0.00 2.57
3417 3551 4.698276 CGTCAGGACAAACTCATTAAACG 58.302 43.478 0.00 0.00 0.00 3.60
3419 3553 5.440685 GTCAGGACAAACTCATTAAACGTG 58.559 41.667 0.00 0.00 0.00 4.49
3448 3582 8.292448 CGGATTCTAATTTGACAATTGGATAGG 58.708 37.037 10.83 0.00 39.05 2.57
3454 3588 9.347240 CTAATTTGACAATTGGATAGGATCACT 57.653 33.333 10.83 0.00 33.66 3.41
3472 3606 6.151648 GGATCACTCATGTTCTCAAATTCCAA 59.848 38.462 0.00 0.00 0.00 3.53
3490 3624 2.746362 CCAAACCTCTCAGCATCTTCAC 59.254 50.000 0.00 0.00 0.00 3.18
3492 3626 1.649321 ACCTCTCAGCATCTTCACCA 58.351 50.000 0.00 0.00 0.00 4.17
3500 3634 3.201487 TCAGCATCTTCACCATCATCCTT 59.799 43.478 0.00 0.00 0.00 3.36
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.575244 AACCCATCTCCAACAGATAATGTA 57.425 37.500 0.00 0.00 43.00 2.29
1 2 5.456921 AACCCATCTCCAACAGATAATGT 57.543 39.130 0.00 0.00 46.97 2.71
2 3 7.040201 CCAATAACCCATCTCCAACAGATAATG 60.040 40.741 0.00 0.00 40.20 1.90
3 4 7.006509 CCAATAACCCATCTCCAACAGATAAT 58.993 38.462 0.00 0.00 40.20 1.28
4 5 6.364701 CCAATAACCCATCTCCAACAGATAA 58.635 40.000 0.00 0.00 40.20 1.75
5 6 5.163099 CCCAATAACCCATCTCCAACAGATA 60.163 44.000 0.00 0.00 40.20 1.98
6 7 4.386761 CCCAATAACCCATCTCCAACAGAT 60.387 45.833 0.00 0.00 43.33 2.90
7 8 3.053693 CCCAATAACCCATCTCCAACAGA 60.054 47.826 0.00 0.00 34.78 3.41
8 9 3.290710 CCCAATAACCCATCTCCAACAG 58.709 50.000 0.00 0.00 0.00 3.16
9 10 2.652348 ACCCAATAACCCATCTCCAACA 59.348 45.455 0.00 0.00 0.00 3.33
10 11 3.053619 AGACCCAATAACCCATCTCCAAC 60.054 47.826 0.00 0.00 0.00 3.77
11 12 3.197983 AGACCCAATAACCCATCTCCAA 58.802 45.455 0.00 0.00 0.00 3.53
12 13 2.777692 GAGACCCAATAACCCATCTCCA 59.222 50.000 0.00 0.00 0.00 3.86
13 14 2.224305 CGAGACCCAATAACCCATCTCC 60.224 54.545 0.00 0.00 30.91 3.71
14 15 2.698797 TCGAGACCCAATAACCCATCTC 59.301 50.000 0.00 0.00 0.00 2.75
15 16 2.759355 TCGAGACCCAATAACCCATCT 58.241 47.619 0.00 0.00 0.00 2.90
16 17 3.118371 ACTTCGAGACCCAATAACCCATC 60.118 47.826 0.00 0.00 0.00 3.51
17 18 2.844348 ACTTCGAGACCCAATAACCCAT 59.156 45.455 0.00 0.00 0.00 4.00
18 19 2.262637 ACTTCGAGACCCAATAACCCA 58.737 47.619 0.00 0.00 0.00 4.51
19 20 3.450096 ACTACTTCGAGACCCAATAACCC 59.550 47.826 0.00 0.00 0.00 4.11
20 21 4.732672 ACTACTTCGAGACCCAATAACC 57.267 45.455 0.00 0.00 0.00 2.85
21 22 8.713737 AAATAACTACTTCGAGACCCAATAAC 57.286 34.615 0.00 0.00 0.00 1.89
22 23 9.729281 AAAAATAACTACTTCGAGACCCAATAA 57.271 29.630 0.00 0.00 0.00 1.40
23 24 9.158233 CAAAAATAACTACTTCGAGACCCAATA 57.842 33.333 0.00 0.00 0.00 1.90
24 25 7.361799 GCAAAAATAACTACTTCGAGACCCAAT 60.362 37.037 0.00 0.00 0.00 3.16
25 26 6.072893 GCAAAAATAACTACTTCGAGACCCAA 60.073 38.462 0.00 0.00 0.00 4.12
26 27 5.410439 GCAAAAATAACTACTTCGAGACCCA 59.590 40.000 0.00 0.00 0.00 4.51
27 28 5.410439 TGCAAAAATAACTACTTCGAGACCC 59.590 40.000 0.00 0.00 0.00 4.46
28 29 6.476243 TGCAAAAATAACTACTTCGAGACC 57.524 37.500 0.00 0.00 0.00 3.85
29 30 7.965045 AGATGCAAAAATAACTACTTCGAGAC 58.035 34.615 0.00 0.00 0.00 3.36
30 31 9.817809 ATAGATGCAAAAATAACTACTTCGAGA 57.182 29.630 0.00 0.00 0.00 4.04
74 75 7.716998 GTCCTAGGAGCATTTTCAATAGATGAA 59.283 37.037 13.15 0.00 46.22 2.57
75 76 7.071698 AGTCCTAGGAGCATTTTCAATAGATGA 59.928 37.037 13.15 0.00 35.85 2.92
76 77 7.222872 AGTCCTAGGAGCATTTTCAATAGATG 58.777 38.462 13.15 0.00 0.00 2.90
77 78 7.385894 AGTCCTAGGAGCATTTTCAATAGAT 57.614 36.000 13.15 0.00 0.00 1.98
78 79 6.814954 AGTCCTAGGAGCATTTTCAATAGA 57.185 37.500 13.15 0.00 0.00 1.98
79 80 7.278875 AGAAGTCCTAGGAGCATTTTCAATAG 58.721 38.462 13.15 0.00 0.00 1.73
80 81 7.200434 AGAAGTCCTAGGAGCATTTTCAATA 57.800 36.000 13.15 0.00 0.00 1.90
81 82 6.072199 AGAAGTCCTAGGAGCATTTTCAAT 57.928 37.500 13.15 0.00 0.00 2.57
82 83 5.505181 AGAAGTCCTAGGAGCATTTTCAA 57.495 39.130 13.15 0.00 0.00 2.69
83 84 6.620877 TTAGAAGTCCTAGGAGCATTTTCA 57.379 37.500 13.15 1.16 0.00 2.69
84 85 7.923414 TTTTAGAAGTCCTAGGAGCATTTTC 57.077 36.000 13.15 11.04 0.00 2.29
85 86 8.885693 AATTTTAGAAGTCCTAGGAGCATTTT 57.114 30.769 13.15 5.71 0.00 1.82
86 87 8.885693 AAATTTTAGAAGTCCTAGGAGCATTT 57.114 30.769 13.15 4.57 0.00 2.32
87 88 8.332487 AGAAATTTTAGAAGTCCTAGGAGCATT 58.668 33.333 13.15 7.65 0.00 3.56
88 89 7.866870 AGAAATTTTAGAAGTCCTAGGAGCAT 58.133 34.615 13.15 0.44 0.00 3.79
89 90 7.259088 AGAAATTTTAGAAGTCCTAGGAGCA 57.741 36.000 13.15 0.00 0.00 4.26
90 91 9.668497 TTTAGAAATTTTAGAAGTCCTAGGAGC 57.332 33.333 13.15 7.49 0.00 4.70
97 98 9.626045 CCACATGTTTAGAAATTTTAGAAGTCC 57.374 33.333 0.00 0.00 0.00 3.85
104 105 9.347934 CGCATAACCACATGTTTAGAAATTTTA 57.652 29.630 0.00 0.00 38.42 1.52
105 106 7.870445 ACGCATAACCACATGTTTAGAAATTTT 59.130 29.630 0.00 0.00 38.42 1.82
106 107 7.375053 ACGCATAACCACATGTTTAGAAATTT 58.625 30.769 0.00 0.00 38.42 1.82
107 108 6.919721 ACGCATAACCACATGTTTAGAAATT 58.080 32.000 0.00 0.00 38.42 1.82
108 109 6.509418 ACGCATAACCACATGTTTAGAAAT 57.491 33.333 0.00 0.00 38.42 2.17
109 110 5.950758 ACGCATAACCACATGTTTAGAAA 57.049 34.783 0.00 0.00 38.42 2.52
110 111 5.950758 AACGCATAACCACATGTTTAGAA 57.049 34.783 0.00 0.00 38.42 2.10
111 112 7.436430 TTTAACGCATAACCACATGTTTAGA 57.564 32.000 0.00 0.00 38.42 2.10
112 113 8.421701 GTTTTTAACGCATAACCACATGTTTAG 58.578 33.333 0.00 0.00 38.42 1.85
113 114 7.919091 TGTTTTTAACGCATAACCACATGTTTA 59.081 29.630 0.00 0.00 38.42 2.01
114 115 6.757010 TGTTTTTAACGCATAACCACATGTTT 59.243 30.769 0.00 0.00 38.42 2.83
115 116 6.273825 TGTTTTTAACGCATAACCACATGTT 58.726 32.000 0.00 0.00 41.11 2.71
116 117 5.833082 TGTTTTTAACGCATAACCACATGT 58.167 33.333 0.00 0.00 0.00 3.21
117 118 6.755461 TTGTTTTTAACGCATAACCACATG 57.245 33.333 0.00 0.00 0.00 3.21
118 119 7.328249 CAGATTGTTTTTAACGCATAACCACAT 59.672 33.333 0.00 0.00 0.00 3.21
119 120 6.638873 CAGATTGTTTTTAACGCATAACCACA 59.361 34.615 0.00 0.00 0.00 4.17
120 121 6.399564 GCAGATTGTTTTTAACGCATAACCAC 60.400 38.462 0.00 0.00 0.00 4.16
121 122 5.631512 GCAGATTGTTTTTAACGCATAACCA 59.368 36.000 0.00 0.00 0.00 3.67
122 123 5.219951 CGCAGATTGTTTTTAACGCATAACC 60.220 40.000 0.00 0.00 0.00 2.85
123 124 5.717491 GCGCAGATTGTTTTTAACGCATAAC 60.717 40.000 0.30 0.00 44.15 1.89
124 125 4.322274 GCGCAGATTGTTTTTAACGCATAA 59.678 37.500 0.30 0.00 44.15 1.90
125 126 3.849145 GCGCAGATTGTTTTTAACGCATA 59.151 39.130 0.30 0.00 44.15 3.14
126 127 2.661195 GCGCAGATTGTTTTTAACGCAT 59.339 40.909 0.30 0.00 44.15 4.73
127 128 2.047769 GCGCAGATTGTTTTTAACGCA 58.952 42.857 0.30 0.00 44.15 5.24
128 129 1.385409 GGCGCAGATTGTTTTTAACGC 59.615 47.619 10.83 0.00 44.02 4.84
129 130 1.982913 GGGCGCAGATTGTTTTTAACG 59.017 47.619 10.83 0.00 0.00 3.18
130 131 1.982913 CGGGCGCAGATTGTTTTTAAC 59.017 47.619 10.83 0.00 0.00 2.01
131 132 1.667467 GCGGGCGCAGATTGTTTTTAA 60.667 47.619 10.83 0.00 41.49 1.52
132 133 0.109504 GCGGGCGCAGATTGTTTTTA 60.110 50.000 10.83 0.00 41.49 1.52
133 134 1.372872 GCGGGCGCAGATTGTTTTT 60.373 52.632 10.83 0.00 41.49 1.94
134 135 2.258286 GCGGGCGCAGATTGTTTT 59.742 55.556 10.83 0.00 41.49 2.43
144 145 3.044305 GATATGGAGTGCGGGCGC 61.044 66.667 0.00 0.00 42.35 6.53
145 146 0.813610 TTTGATATGGAGTGCGGGCG 60.814 55.000 0.00 0.00 0.00 6.13
146 147 1.388547 TTTTGATATGGAGTGCGGGC 58.611 50.000 0.00 0.00 0.00 6.13
147 148 3.189287 GCTATTTTGATATGGAGTGCGGG 59.811 47.826 0.00 0.00 0.00 6.13
148 149 3.814842 TGCTATTTTGATATGGAGTGCGG 59.185 43.478 0.00 0.00 0.00 5.69
149 150 4.512944 ACTGCTATTTTGATATGGAGTGCG 59.487 41.667 0.00 0.00 0.00 5.34
150 151 5.755813 CACTGCTATTTTGATATGGAGTGC 58.244 41.667 0.00 0.00 0.00 4.40
151 152 5.297527 TGCACTGCTATTTTGATATGGAGTG 59.702 40.000 1.98 8.23 33.09 3.51
152 153 5.297776 GTGCACTGCTATTTTGATATGGAGT 59.702 40.000 10.32 0.00 0.00 3.85
153 154 5.530171 AGTGCACTGCTATTTTGATATGGAG 59.470 40.000 20.97 0.00 0.00 3.86
154 155 5.439721 AGTGCACTGCTATTTTGATATGGA 58.560 37.500 20.97 0.00 0.00 3.41
155 156 5.762825 AGTGCACTGCTATTTTGATATGG 57.237 39.130 20.97 0.00 0.00 2.74
156 157 9.740239 ATTTTAGTGCACTGCTATTTTGATATG 57.260 29.630 29.57 0.00 0.00 1.78
160 161 9.973450 TTTTATTTTAGTGCACTGCTATTTTGA 57.027 25.926 29.57 2.44 0.00 2.69
326 342 2.294791 GCGAGATCAAGCCTAGCTAGAA 59.705 50.000 22.70 2.58 38.25 2.10
637 659 2.202892 CGCCGGAGTTAAGGAGCC 60.203 66.667 5.05 0.00 0.00 4.70
774 797 3.304391 GGCACGTACGTATAAACCCGATA 60.304 47.826 22.34 0.00 0.00 2.92
826 849 2.677524 ACCACCACCGCTACGCTA 60.678 61.111 0.00 0.00 0.00 4.26
827 850 4.373116 CACCACCACCGCTACGCT 62.373 66.667 0.00 0.00 0.00 5.07
829 852 3.998672 ACCACCACCACCGCTACG 61.999 66.667 0.00 0.00 0.00 3.51
830 853 2.358247 CACCACCACCACCGCTAC 60.358 66.667 0.00 0.00 0.00 3.58
991 1014 0.684153 CCAAAATCCATCACCGCCCT 60.684 55.000 0.00 0.00 0.00 5.19
1590 1616 4.406763 AAGGAGAGGAGGCCGCCT 62.407 66.667 30.18 30.18 42.17 5.52
1740 1766 1.814169 GTGGGCGACGAAGGAATCC 60.814 63.158 0.00 0.00 0.00 3.01
1767 1793 1.349627 GACGAGCATGGCGTTGATG 59.650 57.895 0.00 0.00 42.77 3.07
1773 1799 1.640069 CTCATTGACGAGCATGGCG 59.360 57.895 0.00 0.00 0.00 5.69
1788 1814 3.445518 GATGCATCCGTCGGCCTCA 62.446 63.158 16.23 4.01 0.00 3.86
1800 1826 1.153086 GGAGCCCGTGAAGATGCAT 60.153 57.895 0.00 0.00 0.00 3.96
1905 1931 2.789203 GATCGTGAGCGCGTTGACC 61.789 63.158 8.43 0.00 38.14 4.02
2037 2063 2.434331 CGGTGGCCCTTGAGGAAA 59.566 61.111 0.00 0.00 38.24 3.13
2651 2703 6.101734 TGCTAAGTTTGGATTGGAGAGGATAT 59.898 38.462 0.00 0.00 0.00 1.63
2731 2786 1.378531 AAGTGCATGTGAACGTGTGT 58.621 45.000 4.67 0.00 35.38 3.72
2734 2789 4.668576 AAGATAAGTGCATGTGAACGTG 57.331 40.909 0.00 0.00 36.01 4.49
2742 2797 7.482743 GTGTGTGTTCATAAAGATAAGTGCATG 59.517 37.037 0.00 0.00 0.00 4.06
2745 2800 6.898041 TGTGTGTGTTCATAAAGATAAGTGC 58.102 36.000 0.00 0.00 0.00 4.40
2748 2803 9.083080 TCGTATGTGTGTGTTCATAAAGATAAG 57.917 33.333 0.00 0.00 0.00 1.73
2756 2811 8.766000 AAGTAATTCGTATGTGTGTGTTCATA 57.234 30.769 0.00 0.00 0.00 2.15
2779 2834 9.967346 TCAATATTTCGAAGGTACTCATAGAAG 57.033 33.333 0.00 0.00 38.49 2.85
2780 2835 9.967346 CTCAATATTTCGAAGGTACTCATAGAA 57.033 33.333 0.00 0.00 38.49 2.10
2788 2843 3.493503 CCGGCTCAATATTTCGAAGGTAC 59.506 47.826 0.00 0.00 0.00 3.34
2791 2846 2.561569 ACCGGCTCAATATTTCGAAGG 58.438 47.619 0.00 0.00 0.00 3.46
2794 2858 8.234136 AGATATATACCGGCTCAATATTTCGA 57.766 34.615 0.00 0.00 0.00 3.71
2798 2862 8.424918 CCTCAAGATATATACCGGCTCAATATT 58.575 37.037 0.00 0.00 0.00 1.28
2802 2866 5.084519 ACCTCAAGATATATACCGGCTCAA 58.915 41.667 0.00 0.00 0.00 3.02
2808 2872 6.250344 TCGTCAACCTCAAGATATATACCG 57.750 41.667 0.00 0.00 0.00 4.02
2810 2874 8.350722 TGACTTCGTCAACCTCAAGATATATAC 58.649 37.037 0.00 0.00 39.78 1.47
2811 2875 8.459911 TGACTTCGTCAACCTCAAGATATATA 57.540 34.615 0.00 0.00 39.78 0.86
2812 2876 7.348080 TGACTTCGTCAACCTCAAGATATAT 57.652 36.000 0.00 0.00 39.78 0.86
2813 2877 6.680625 GCTGACTTCGTCAACCTCAAGATATA 60.681 42.308 0.00 0.00 42.26 0.86
2818 2882 1.795286 GCTGACTTCGTCAACCTCAAG 59.205 52.381 0.00 0.00 42.26 3.02
2823 2887 1.512926 ATGTGCTGACTTCGTCAACC 58.487 50.000 0.00 0.00 42.26 3.77
2833 2897 6.338146 TCAACTATAAGGTGTATGTGCTGAC 58.662 40.000 0.00 0.00 33.77 3.51
2837 2901 5.470098 CCCATCAACTATAAGGTGTATGTGC 59.530 44.000 0.00 0.00 33.77 4.57
2881 2945 1.649171 CAGACTTTCCGACGATGTTCG 59.351 52.381 0.00 0.00 46.93 3.95
2948 3012 5.301555 GGTGAAACTAGCCTATCAGGATTC 58.698 45.833 0.00 0.00 34.65 2.52
2979 3043 2.498078 ACACCGTTTTGATGGTTTGGTT 59.502 40.909 0.00 0.00 35.96 3.67
2981 3045 2.880963 ACACCGTTTTGATGGTTTGG 57.119 45.000 0.00 0.00 35.96 3.28
3023 3155 0.168128 GGCGTCGGAAATGACCTTTG 59.832 55.000 0.00 0.00 35.40 2.77
3034 3166 0.597568 TTTTAAGAGTCGGCGTCGGA 59.402 50.000 10.62 0.00 36.95 4.55
3036 3168 0.361184 CGTTTTAAGAGTCGGCGTCG 59.639 55.000 1.15 1.15 37.82 5.12
3037 3169 1.689959 TCGTTTTAAGAGTCGGCGTC 58.310 50.000 6.85 0.00 0.00 5.19
3083 3216 1.976132 ATGTGCCCCGGATGAGTCTG 61.976 60.000 0.73 0.00 0.00 3.51
3087 3220 2.420547 CCATATATGTGCCCCGGATGAG 60.421 54.545 0.73 0.00 0.00 2.90
3090 3223 1.965414 TCCATATATGTGCCCCGGAT 58.035 50.000 0.73 0.00 0.00 4.18
3116 3249 0.180171 TAGCGGACATGGTTGGATGG 59.820 55.000 0.00 0.00 0.00 3.51
3129 3262 1.868498 CAAAGGTGAACGTTTAGCGGA 59.132 47.619 15.37 0.00 46.52 5.54
3188 3322 9.959749 TTTTAGTATTTTCGCTTCACAAAGATT 57.040 25.926 0.00 0.00 34.14 2.40
3194 3328 5.792962 CGCATTTTAGTATTTTCGCTTCACA 59.207 36.000 0.00 0.00 0.00 3.58
3195 3329 6.019152 TCGCATTTTAGTATTTTCGCTTCAC 58.981 36.000 0.00 0.00 0.00 3.18
3201 3335 9.485591 AACTATTGTCGCATTTTAGTATTTTCG 57.514 29.630 0.00 0.00 0.00 3.46
3208 3342 8.296713 ACATTTGAACTATTGTCGCATTTTAGT 58.703 29.630 0.00 0.00 0.00 2.24
3209 3343 8.673626 ACATTTGAACTATTGTCGCATTTTAG 57.326 30.769 0.00 0.00 0.00 1.85
3211 3345 9.469807 TTTACATTTGAACTATTGTCGCATTTT 57.530 25.926 0.00 0.00 0.00 1.82
3212 3346 9.638239 ATTTACATTTGAACTATTGTCGCATTT 57.362 25.926 0.00 0.00 0.00 2.32
3215 3349 9.929722 GATATTTACATTTGAACTATTGTCGCA 57.070 29.630 0.00 0.00 0.00 5.10
3216 3350 9.929722 TGATATTTACATTTGAACTATTGTCGC 57.070 29.630 0.00 0.00 0.00 5.19
3304 3438 1.613520 GGGCACTTAAAGAGGACACCC 60.614 57.143 0.00 0.00 0.00 4.61
3328 3462 6.815142 AGAAGATTTTATTGAGCAATTGTGGC 59.185 34.615 7.40 0.00 32.50 5.01
3361 3495 2.733820 GCATCGAGCAACTCATGAAG 57.266 50.000 0.00 0.00 44.79 3.02
3380 3514 3.126171 TCCTGACGCATTAACAAATTCGG 59.874 43.478 0.00 0.00 0.00 4.30
3382 3516 5.041951 TGTCCTGACGCATTAACAAATTC 57.958 39.130 0.00 0.00 0.00 2.17
3396 3530 5.440685 CACGTTTAATGAGTTTGTCCTGAC 58.559 41.667 0.00 0.00 0.00 3.51
3398 3532 4.783242 CCACGTTTAATGAGTTTGTCCTG 58.217 43.478 0.00 0.00 0.00 3.86
3399 3533 3.252458 GCCACGTTTAATGAGTTTGTCCT 59.748 43.478 0.00 0.00 0.00 3.85
3412 3546 3.547054 ATTAGAATCCGGCCACGTTTA 57.453 42.857 2.24 0.00 38.78 2.01
3417 3551 3.013921 TGTCAAATTAGAATCCGGCCAC 58.986 45.455 2.24 0.00 0.00 5.01
3419 3553 4.918810 ATTGTCAAATTAGAATCCGGCC 57.081 40.909 0.00 0.00 0.00 6.13
3448 3582 6.748333 TGGAATTTGAGAACATGAGTGATC 57.252 37.500 0.00 0.00 0.00 2.92
3454 3588 6.070656 AGAGGTTTGGAATTTGAGAACATGA 58.929 36.000 0.00 0.00 0.00 3.07
3472 3606 1.980765 TGGTGAAGATGCTGAGAGGTT 59.019 47.619 0.00 0.00 0.00 3.50
3490 3624 3.736720 ACATGATCGTGAAGGATGATGG 58.263 45.455 21.75 0.00 40.81 3.51
3492 3626 4.573607 CACAACATGATCGTGAAGGATGAT 59.426 41.667 21.75 0.00 32.53 2.45


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

AutoCloner maintained by Alex Coulton.