Multiple sequence alignment - TraesCS6A01G220500

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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 TraesCS6A01G220500 chr6A 100.000 2903 0 0 1 2903 409433328 409430426 0.000000e+00 5361.0
1 TraesCS6A01G220500 chr6B 93.016 2706 86 40 266 2903 471677596 471674926 0.000000e+00 3855.0
2 TraesCS6A01G220500 chr6D 91.554 2510 70 43 208 2638 305171845 305174291 0.000000e+00 3330.0
3 TraesCS6A01G220500 chr6D 95.434 219 10 0 2685 2903 305174293 305174511 1.660000e-92 350.0
4 TraesCS6A01G220500 chr6D 89.474 57 4 2 2331 2386 57176666 57176721 1.440000e-08 71.3
5 TraesCS6A01G220500 chr2A 86.283 678 72 13 1114 1788 618982493 618981834 0.000000e+00 717.0
6 TraesCS6A01G220500 chr2A 100.000 29 0 0 65 93 766401934 766401962 1.000000e-03 54.7
7 TraesCS6A01G220500 chr2B 85.229 677 81 15 1114 1788 557816031 557815372 0.000000e+00 678.0
8 TraesCS6A01G220500 chr2D 84.808 678 82 15 1114 1788 476696894 476696235 0.000000e+00 662.0
9 TraesCS6A01G220500 chr2D 95.082 61 3 0 2601 2661 548076875 548076815 2.380000e-16 97.1
10 TraesCS6A01G220500 chr2D 100.000 29 0 0 65 93 641111746 641111718 1.000000e-03 54.7
11 TraesCS6A01G220500 chr5D 96.721 61 2 0 2598 2658 354256737 354256797 5.120000e-18 102.0
12 TraesCS6A01G220500 chr5D 96.552 58 2 0 2601 2658 256458043 256458100 2.380000e-16 97.1
13 TraesCS6A01G220500 chr5D 94.828 58 3 0 2345 2402 456610929 456610986 1.110000e-14 91.6
14 TraesCS6A01G220500 chr5A 96.667 60 2 0 2598 2657 455084503 455084562 1.840000e-17 100.0
15 TraesCS6A01G220500 chr1B 88.235 85 6 3 2601 2681 332083873 332083789 6.620000e-17 99.0
16 TraesCS6A01G220500 chr1A 89.024 82 5 1 2601 2678 307037678 307037759 6.620000e-17 99.0
17 TraesCS6A01G220500 chr1A 96.000 50 0 2 2340 2387 583127234 583127283 2.400000e-11 80.5
18 TraesCS6A01G220500 chr1A 90.909 55 3 2 2347 2401 508628938 508628990 4.010000e-09 73.1
19 TraesCS6A01G220500 chr3D 92.424 66 5 0 2593 2658 515667215 515667280 8.560000e-16 95.3
20 TraesCS6A01G220500 chr7D 96.078 51 1 1 2346 2395 615903951 615904001 6.670000e-12 82.4
21 TraesCS6A01G220500 chr4A 90.323 62 3 3 2345 2404 365648762 365648822 8.620000e-11 78.7
22 TraesCS6A01G220500 chr4A 97.143 35 0 1 60 93 467684250 467684216 1.120000e-04 58.4
23 TraesCS6A01G220500 chr4B 89.474 57 5 1 2345 2401 457413353 457413408 1.440000e-08 71.3


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 TraesCS6A01G220500 chr6A 409430426 409433328 2902 True 5361 5361 100.000 1 2903 1 chr6A.!!$R1 2902
1 TraesCS6A01G220500 chr6B 471674926 471677596 2670 True 3855 3855 93.016 266 2903 1 chr6B.!!$R1 2637
2 TraesCS6A01G220500 chr6D 305171845 305174511 2666 False 1840 3330 93.494 208 2903 2 chr6D.!!$F2 2695
3 TraesCS6A01G220500 chr2A 618981834 618982493 659 True 717 717 86.283 1114 1788 1 chr2A.!!$R1 674
4 TraesCS6A01G220500 chr2B 557815372 557816031 659 True 678 678 85.229 1114 1788 1 chr2B.!!$R1 674
5 TraesCS6A01G220500 chr2D 476696235 476696894 659 True 662 662 84.808 1114 1788 1 chr2D.!!$R1 674

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
26 27 0.027979 TCGCAGCAATGAAATAGCGC 59.972 50.0 0.0 0.0 44.27 5.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1910 1982 0.389025 GTTTCACCTTTGTGGCCTGG 59.611 55.0 3.32 0.81 42.98 4.45 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
19 20 3.803082 GCCGCTCGCAGCAATGAA 61.803 61.111 8.52 0.00 42.58 2.57
20 21 2.869646 CCGCTCGCAGCAATGAAA 59.130 55.556 8.52 0.00 42.58 2.69
21 22 1.430632 CCGCTCGCAGCAATGAAAT 59.569 52.632 8.52 0.00 42.58 2.17
22 23 0.657312 CCGCTCGCAGCAATGAAATA 59.343 50.000 8.52 0.00 42.58 1.40
23 24 1.333524 CCGCTCGCAGCAATGAAATAG 60.334 52.381 8.52 0.00 42.58 1.73
24 25 1.751552 GCTCGCAGCAATGAAATAGC 58.248 50.000 0.00 0.00 41.89 2.97
25 26 1.918974 GCTCGCAGCAATGAAATAGCG 60.919 52.381 0.00 0.00 41.89 4.26
26 27 0.027979 TCGCAGCAATGAAATAGCGC 59.972 50.000 0.00 0.00 44.27 5.92
27 28 1.257586 CGCAGCAATGAAATAGCGCG 61.258 55.000 0.00 0.00 41.60 6.86
28 29 1.534811 GCAGCAATGAAATAGCGCGC 61.535 55.000 26.66 26.66 0.00 6.86
29 30 0.248175 CAGCAATGAAATAGCGCGCA 60.248 50.000 35.10 19.76 0.00 6.09
30 31 0.248215 AGCAATGAAATAGCGCGCAC 60.248 50.000 35.10 18.17 0.00 5.34
31 32 0.523125 GCAATGAAATAGCGCGCACA 60.523 50.000 35.10 21.34 0.00 4.57
32 33 1.182673 CAATGAAATAGCGCGCACAC 58.817 50.000 35.10 18.88 0.00 3.82
33 34 1.086696 AATGAAATAGCGCGCACACT 58.913 45.000 35.10 15.58 0.00 3.55
34 35 1.086696 ATGAAATAGCGCGCACACTT 58.913 45.000 35.10 19.97 0.00 3.16
35 36 0.871722 TGAAATAGCGCGCACACTTT 59.128 45.000 35.10 24.11 0.00 2.66
36 37 1.265635 TGAAATAGCGCGCACACTTTT 59.734 42.857 35.10 22.51 0.00 2.27
37 38 2.287308 TGAAATAGCGCGCACACTTTTT 60.287 40.909 35.10 18.95 0.00 1.94
38 39 3.058846 TGAAATAGCGCGCACACTTTTTA 60.059 39.130 35.10 14.64 0.00 1.52
39 40 2.806288 ATAGCGCGCACACTTTTTAG 57.194 45.000 35.10 0.00 0.00 1.85
40 41 1.785768 TAGCGCGCACACTTTTTAGA 58.214 45.000 35.10 0.00 0.00 2.10
41 42 1.156736 AGCGCGCACACTTTTTAGAT 58.843 45.000 35.10 3.94 0.00 1.98
42 43 1.535462 AGCGCGCACACTTTTTAGATT 59.465 42.857 35.10 3.40 0.00 2.40
43 44 2.031157 AGCGCGCACACTTTTTAGATTT 60.031 40.909 35.10 2.61 0.00 2.17
44 45 2.724174 GCGCGCACACTTTTTAGATTTT 59.276 40.909 29.10 0.00 0.00 1.82
45 46 3.909574 GCGCGCACACTTTTTAGATTTTA 59.090 39.130 29.10 0.00 0.00 1.52
46 47 4.029087 GCGCGCACACTTTTTAGATTTTAG 59.971 41.667 29.10 0.00 0.00 1.85
47 48 4.553429 CGCGCACACTTTTTAGATTTTAGG 59.447 41.667 8.75 0.00 0.00 2.69
48 49 5.458015 GCGCACACTTTTTAGATTTTAGGT 58.542 37.500 0.30 0.00 0.00 3.08
49 50 5.918576 GCGCACACTTTTTAGATTTTAGGTT 59.081 36.000 0.30 0.00 0.00 3.50
50 51 7.079475 GCGCACACTTTTTAGATTTTAGGTTA 58.921 34.615 0.30 0.00 0.00 2.85
51 52 7.592164 GCGCACACTTTTTAGATTTTAGGTTAA 59.408 33.333 0.30 0.00 0.00 2.01
52 53 9.453325 CGCACACTTTTTAGATTTTAGGTTAAA 57.547 29.630 0.00 0.00 0.00 1.52
78 79 6.851222 ATAACTAGAACATCCATTTGAGCG 57.149 37.500 0.00 0.00 0.00 5.03
79 80 4.471904 ACTAGAACATCCATTTGAGCGA 57.528 40.909 0.00 0.00 0.00 4.93
80 81 4.184629 ACTAGAACATCCATTTGAGCGAC 58.815 43.478 0.00 0.00 0.00 5.19
81 82 3.057969 AGAACATCCATTTGAGCGACA 57.942 42.857 0.00 0.00 0.00 4.35
82 83 3.411446 AGAACATCCATTTGAGCGACAA 58.589 40.909 0.00 0.00 36.65 3.18
83 84 4.012374 AGAACATCCATTTGAGCGACAAT 58.988 39.130 0.00 0.00 38.36 2.71
84 85 4.460382 AGAACATCCATTTGAGCGACAATT 59.540 37.500 0.00 0.00 38.36 2.32
85 86 5.647658 AGAACATCCATTTGAGCGACAATTA 59.352 36.000 0.00 0.00 38.36 1.40
86 87 5.895636 ACATCCATTTGAGCGACAATTAA 57.104 34.783 0.00 0.00 38.36 1.40
87 88 6.455360 ACATCCATTTGAGCGACAATTAAT 57.545 33.333 0.00 0.00 38.36 1.40
88 89 7.566760 ACATCCATTTGAGCGACAATTAATA 57.433 32.000 0.00 0.00 38.36 0.98
89 90 8.169977 ACATCCATTTGAGCGACAATTAATAT 57.830 30.769 0.00 0.00 38.36 1.28
90 91 8.077991 ACATCCATTTGAGCGACAATTAATATG 58.922 33.333 0.00 2.21 38.36 1.78
91 92 6.969366 TCCATTTGAGCGACAATTAATATGG 58.031 36.000 14.97 14.97 40.44 2.74
92 93 6.770303 TCCATTTGAGCGACAATTAATATGGA 59.230 34.615 17.57 17.57 43.06 3.41
93 94 6.857964 CCATTTGAGCGACAATTAATATGGAC 59.142 38.462 15.57 0.00 41.04 4.02
94 95 6.993786 TTTGAGCGACAATTAATATGGACA 57.006 33.333 0.00 0.00 38.36 4.02
95 96 6.603237 TTGAGCGACAATTAATATGGACAG 57.397 37.500 0.00 0.00 33.18 3.51
96 97 5.056480 TGAGCGACAATTAATATGGACAGG 58.944 41.667 0.00 0.00 0.00 4.00
97 98 5.163353 TGAGCGACAATTAATATGGACAGGA 60.163 40.000 0.00 0.00 0.00 3.86
98 99 5.680619 AGCGACAATTAATATGGACAGGAA 58.319 37.500 0.00 0.00 0.00 3.36
99 100 5.760253 AGCGACAATTAATATGGACAGGAAG 59.240 40.000 0.00 0.00 0.00 3.46
100 101 5.758296 GCGACAATTAATATGGACAGGAAGA 59.242 40.000 0.00 0.00 0.00 2.87
101 102 6.073548 GCGACAATTAATATGGACAGGAAGAG 60.074 42.308 0.00 0.00 0.00 2.85
102 103 6.986817 CGACAATTAATATGGACAGGAAGAGT 59.013 38.462 0.00 0.00 0.00 3.24
103 104 8.141909 CGACAATTAATATGGACAGGAAGAGTA 58.858 37.037 0.00 0.00 0.00 2.59
104 105 9.832445 GACAATTAATATGGACAGGAAGAGTAA 57.168 33.333 0.00 0.00 0.00 2.24
129 130 6.516739 AAATTTCTACTAAGCAAAGGAGGC 57.483 37.500 0.00 0.00 0.00 4.70
130 131 3.629142 TTCTACTAAGCAAAGGAGGCC 57.371 47.619 0.00 0.00 0.00 5.19
131 132 2.834113 TCTACTAAGCAAAGGAGGCCT 58.166 47.619 3.86 3.86 33.87 5.19
132 133 3.990369 TCTACTAAGCAAAGGAGGCCTA 58.010 45.455 4.42 0.00 31.13 3.93
133 134 3.705072 TCTACTAAGCAAAGGAGGCCTAC 59.295 47.826 6.98 6.98 31.13 3.18
134 135 2.266279 ACTAAGCAAAGGAGGCCTACA 58.734 47.619 19.90 0.00 31.13 2.74
135 136 2.237392 ACTAAGCAAAGGAGGCCTACAG 59.763 50.000 19.90 6.18 31.13 2.74
136 137 1.068121 AAGCAAAGGAGGCCTACAGT 58.932 50.000 19.90 0.39 31.13 3.55
137 138 1.952621 AGCAAAGGAGGCCTACAGTA 58.047 50.000 19.90 0.00 31.13 2.74
138 139 1.834263 AGCAAAGGAGGCCTACAGTAG 59.166 52.381 19.90 4.97 31.13 2.57
139 140 1.831736 GCAAAGGAGGCCTACAGTAGA 59.168 52.381 19.90 0.00 31.13 2.59
140 141 2.236395 GCAAAGGAGGCCTACAGTAGAA 59.764 50.000 19.90 0.00 31.13 2.10
141 142 3.307480 GCAAAGGAGGCCTACAGTAGAAA 60.307 47.826 19.90 0.00 31.13 2.52
142 143 4.508662 CAAAGGAGGCCTACAGTAGAAAG 58.491 47.826 19.90 0.00 31.13 2.62
143 144 3.759815 AGGAGGCCTACAGTAGAAAGA 57.240 47.619 19.90 0.00 28.47 2.52
144 145 4.062490 AGGAGGCCTACAGTAGAAAGAA 57.938 45.455 19.90 0.00 28.47 2.52
145 146 4.426704 AGGAGGCCTACAGTAGAAAGAAA 58.573 43.478 19.90 0.00 28.47 2.52
146 147 4.468153 AGGAGGCCTACAGTAGAAAGAAAG 59.532 45.833 19.90 0.00 28.47 2.62
147 148 4.466726 GGAGGCCTACAGTAGAAAGAAAGA 59.533 45.833 11.24 0.00 0.00 2.52
148 149 5.046520 GGAGGCCTACAGTAGAAAGAAAGAA 60.047 44.000 11.24 0.00 0.00 2.52
149 150 6.043854 AGGCCTACAGTAGAAAGAAAGAAG 57.956 41.667 1.29 0.00 0.00 2.85
150 151 4.632251 GGCCTACAGTAGAAAGAAAGAAGC 59.368 45.833 9.38 0.00 0.00 3.86
151 152 5.238583 GCCTACAGTAGAAAGAAAGAAGCA 58.761 41.667 9.38 0.00 0.00 3.91
152 153 5.120986 GCCTACAGTAGAAAGAAAGAAGCAC 59.879 44.000 9.38 0.00 0.00 4.40
153 154 6.223852 CCTACAGTAGAAAGAAAGAAGCACA 58.776 40.000 9.38 0.00 0.00 4.57
154 155 6.706270 CCTACAGTAGAAAGAAAGAAGCACAA 59.294 38.462 9.38 0.00 0.00 3.33
155 156 7.226720 CCTACAGTAGAAAGAAAGAAGCACAAA 59.773 37.037 9.38 0.00 0.00 2.83
156 157 6.786207 ACAGTAGAAAGAAAGAAGCACAAAC 58.214 36.000 0.00 0.00 0.00 2.93
157 158 5.904080 CAGTAGAAAGAAAGAAGCACAAACG 59.096 40.000 0.00 0.00 0.00 3.60
158 159 4.965119 AGAAAGAAAGAAGCACAAACGT 57.035 36.364 0.00 0.00 0.00 3.99
159 160 4.662145 AGAAAGAAAGAAGCACAAACGTG 58.338 39.130 0.00 0.00 37.46 4.49
167 168 3.276091 CACAAACGTGCGCTGGGA 61.276 61.111 9.73 0.00 0.00 4.37
168 169 2.972505 ACAAACGTGCGCTGGGAG 60.973 61.111 9.73 0.00 0.00 4.30
169 170 2.972505 CAAACGTGCGCTGGGAGT 60.973 61.111 9.73 0.00 0.00 3.85
170 171 2.203153 AAACGTGCGCTGGGAGTT 60.203 55.556 9.73 4.85 0.00 3.01
171 172 1.822186 AAACGTGCGCTGGGAGTTT 60.822 52.632 9.73 10.76 0.00 2.66
172 173 2.058829 AAACGTGCGCTGGGAGTTTG 62.059 55.000 9.73 0.00 34.26 2.93
173 174 4.389576 CGTGCGCTGGGAGTTTGC 62.390 66.667 9.73 0.00 0.00 3.68
178 179 2.347490 GCTGGGAGTTTGCGAGGA 59.653 61.111 0.00 0.00 0.00 3.71
179 180 2.035442 GCTGGGAGTTTGCGAGGAC 61.035 63.158 0.00 0.00 0.00 3.85
180 181 1.738099 CTGGGAGTTTGCGAGGACG 60.738 63.158 0.00 0.00 42.93 4.79
181 182 2.434359 GGGAGTTTGCGAGGACGG 60.434 66.667 0.00 0.00 40.15 4.79
182 183 3.119096 GGAGTTTGCGAGGACGGC 61.119 66.667 0.00 0.00 40.15 5.68
183 184 3.479269 GAGTTTGCGAGGACGGCG 61.479 66.667 4.80 4.80 40.15 6.46
184 185 3.909258 GAGTTTGCGAGGACGGCGA 62.909 63.158 16.62 0.00 40.15 5.54
185 186 3.774702 GTTTGCGAGGACGGCGAC 61.775 66.667 16.62 7.58 40.15 5.19
223 224 3.254166 TCGCAGAAAAACGTACTCCTAGT 59.746 43.478 0.00 0.00 0.00 2.57
224 225 3.364023 CGCAGAAAAACGTACTCCTAGTG 59.636 47.826 0.00 0.00 0.00 2.74
225 226 3.123116 GCAGAAAAACGTACTCCTAGTGC 59.877 47.826 0.00 0.00 0.00 4.40
227 228 4.386049 CAGAAAAACGTACTCCTAGTGCAG 59.614 45.833 0.00 0.00 29.68 4.41
228 229 4.280174 AGAAAAACGTACTCCTAGTGCAGA 59.720 41.667 0.00 0.00 29.68 4.26
229 230 4.595762 AAAACGTACTCCTAGTGCAGAA 57.404 40.909 0.00 0.00 29.68 3.02
230 231 4.595762 AAACGTACTCCTAGTGCAGAAA 57.404 40.909 0.00 0.00 29.68 2.52
231 232 4.595762 AACGTACTCCTAGTGCAGAAAA 57.404 40.909 0.00 0.00 29.68 2.29
232 233 4.595762 ACGTACTCCTAGTGCAGAAAAA 57.404 40.909 0.00 0.00 29.68 1.94
233 234 4.304939 ACGTACTCCTAGTGCAGAAAAAC 58.695 43.478 0.00 0.00 29.68 2.43
262 263 1.079819 CGTTCCTCCGCACATGAGT 60.080 57.895 0.00 0.00 0.00 3.41
381 383 1.878522 GCTGGACGATGCGGTAGTG 60.879 63.158 0.00 0.00 0.00 2.74
382 384 1.878522 CTGGACGATGCGGTAGTGC 60.879 63.158 0.00 0.00 0.00 4.40
383 385 2.284798 CTGGACGATGCGGTAGTGCT 62.285 60.000 0.00 0.00 35.36 4.40
408 410 2.126424 GGTCGTGGCGTGAGAGAC 60.126 66.667 0.00 0.00 0.00 3.36
436 438 3.245284 CACGTATCGGGATGCAGTTTTAG 59.755 47.826 0.00 0.00 28.17 1.85
460 462 3.010420 GACTAGAATGGTTGCTTCACCC 58.990 50.000 0.00 0.00 35.73 4.61
470 472 1.291272 GCTTCACCCCTCGTTACGT 59.709 57.895 4.24 0.00 0.00 3.57
517 519 1.371267 GAAAAACGCCGAAGCCCAC 60.371 57.895 0.00 0.00 34.57 4.61
563 587 5.218885 CGAAATCACTAGCATGGTAGAGAG 58.781 45.833 32.85 22.14 0.00 3.20
682 714 4.570772 CCAGACGTTCTTTGTCTCAGAAAA 59.429 41.667 0.00 0.00 44.60 2.29
683 715 5.277058 CCAGACGTTCTTTGTCTCAGAAAAG 60.277 44.000 0.00 4.00 44.60 2.27
798 838 0.467290 CCCCGGAGAGGAGAAGAGAG 60.467 65.000 0.73 0.00 45.00 3.20
1158 1218 2.496817 CGGGCCTTCTTCTCCTCG 59.503 66.667 0.84 0.00 0.00 4.63
1161 1221 2.363172 GGCCTTCTTCTCCTCGGCT 61.363 63.158 0.00 0.00 40.52 5.52
1362 1422 1.519013 GCAGCTGCTCTTCCTCGAG 60.519 63.158 31.33 5.13 38.21 4.04
1363 1423 1.889454 CAGCTGCTCTTCCTCGAGT 59.111 57.895 12.31 0.00 33.55 4.18
1364 1424 0.179140 CAGCTGCTCTTCCTCGAGTC 60.179 60.000 12.31 0.00 33.55 3.36
1365 1425 1.140804 GCTGCTCTTCCTCGAGTCC 59.859 63.158 12.31 0.00 33.55 3.85
1366 1426 1.431440 CTGCTCTTCCTCGAGTCCG 59.569 63.158 12.31 0.00 33.55 4.79
1367 1427 1.002502 TGCTCTTCCTCGAGTCCGA 60.003 57.895 12.31 0.00 43.35 4.55
1635 1707 1.438469 CCATCCAGGCCAAGGAGATA 58.562 55.000 20.06 0.05 38.83 1.98
1806 1878 2.459086 GGCCTCCCTCATGCCTGAT 61.459 63.158 0.00 0.00 42.01 2.90
1908 1980 3.151710 TCCGCGGTATGAGGGGTG 61.152 66.667 27.15 0.00 41.75 4.61
1909 1981 4.235762 CCGCGGTATGAGGGGTGG 62.236 72.222 19.50 0.00 37.00 4.61
1910 1982 4.910585 CGCGGTATGAGGGGTGGC 62.911 72.222 0.00 0.00 0.00 5.01
1911 1983 4.564110 GCGGTATGAGGGGTGGCC 62.564 72.222 0.00 0.00 0.00 5.36
1912 1984 3.087253 CGGTATGAGGGGTGGCCA 61.087 66.667 0.00 0.00 0.00 5.36
2010 2085 3.751518 ACAACAGGTCAACTTGGTATCC 58.248 45.455 0.00 0.00 0.00 2.59
2014 2089 3.910627 ACAGGTCAACTTGGTATCCTCTT 59.089 43.478 0.00 0.00 0.00 2.85
2049 2124 1.020437 GCCTGAACTGAGCTATTGCC 58.980 55.000 0.00 0.00 40.80 4.52
2055 2130 4.960938 TGAACTGAGCTATTGCCGATATT 58.039 39.130 0.00 0.00 40.80 1.28
2073 2148 7.429920 GCCGATATTTATTGCAACTCGTAAAAA 59.570 33.333 0.00 0.00 0.00 1.94
2076 2151 9.997482 GATATTTATTGCAACTCGTAAAAAGGA 57.003 29.630 0.00 0.00 0.00 3.36
2082 2157 5.209240 TGCAACTCGTAAAAAGGAATTTCG 58.791 37.500 0.00 0.00 0.00 3.46
2152 2227 4.791676 CGATCAATTTCAAGTCACAGCATG 59.208 41.667 0.00 0.00 46.00 4.06
2171 2248 7.121272 CAGCATGAAAACATGTTGTTCTTTTC 58.879 34.615 12.82 11.24 37.84 2.29
2173 2250 7.550196 AGCATGAAAACATGTTGTTCTTTTCTT 59.450 29.630 12.82 6.45 40.14 2.52
2175 2252 7.826260 TGAAAACATGTTGTTCTTTTCTTCC 57.174 32.000 12.82 0.00 40.14 3.46
2179 2256 6.484364 ACATGTTGTTCTTTTCTTCCCATT 57.516 33.333 0.00 0.00 0.00 3.16
2192 2269 9.987272 CTTTTCTTCCCATTAGATTTTCTTTGT 57.013 29.630 0.00 0.00 0.00 2.83
2196 2273 9.981114 TCTTCCCATTAGATTTTCTTTGTTTTC 57.019 29.630 0.00 0.00 0.00 2.29
2204 2281 7.740519 AGATTTTCTTTGTTTTCTGTCAACG 57.259 32.000 0.00 0.00 0.00 4.10
2222 2299 6.151985 TGTCAACGGCCAATTAGTTTTATGAT 59.848 34.615 2.24 0.00 0.00 2.45
2280 2357 4.876679 AGAGATGCATCAGTTGTCATTCTG 59.123 41.667 27.81 0.00 0.00 3.02
2302 2379 4.103469 TGTTCCTGTCCTTTTAGGCTAACA 59.897 41.667 6.43 0.00 34.61 2.41
2395 2493 2.616842 GTTTTTCAAGCTTGGACGGAGA 59.383 45.455 25.73 1.89 0.00 3.71
2673 2772 6.426937 TCTCTAAAACCTCATTTGTGTACAGC 59.573 38.462 0.00 0.00 0.00 4.40
2674 2773 6.058833 TCTAAAACCTCATTTGTGTACAGCA 58.941 36.000 0.00 0.00 0.00 4.41
2702 2801 4.682778 AGTAGCTTGTGGTGTTGAGTTA 57.317 40.909 0.00 0.00 0.00 2.24
2795 2894 8.207350 AGTTGCAGTATATACCTATGAACCAT 57.793 34.615 9.32 0.00 0.00 3.55
2830 2929 4.566987 ACCTAGAAACAGCGTTCTAAAGG 58.433 43.478 11.88 11.88 39.13 3.11
2871 2970 2.180276 CTACTGTTAGGCACCCTGTCT 58.820 52.381 0.00 0.00 35.80 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 2.603135 ATTTCATTGCTGCGAGCGGC 62.603 55.000 20.87 20.87 46.26 6.53
3 4 0.657312 TATTTCATTGCTGCGAGCGG 59.343 50.000 0.00 0.00 46.26 5.52
4 5 1.918974 GCTATTTCATTGCTGCGAGCG 60.919 52.381 0.00 0.00 46.26 5.03
5 6 1.751552 GCTATTTCATTGCTGCGAGC 58.248 50.000 0.00 1.70 42.82 5.03
6 7 1.918974 GCGCTATTTCATTGCTGCGAG 60.919 52.381 0.00 0.00 45.15 5.03
7 8 0.027979 GCGCTATTTCATTGCTGCGA 59.972 50.000 0.00 0.00 45.15 5.10
8 9 1.257586 CGCGCTATTTCATTGCTGCG 61.258 55.000 5.56 11.90 42.52 5.18
9 10 1.534811 GCGCGCTATTTCATTGCTGC 61.535 55.000 26.67 0.00 0.00 5.25
10 11 0.248175 TGCGCGCTATTTCATTGCTG 60.248 50.000 33.29 0.00 0.00 4.41
11 12 0.248215 GTGCGCGCTATTTCATTGCT 60.248 50.000 33.29 0.00 0.00 3.91
12 13 0.523125 TGTGCGCGCTATTTCATTGC 60.523 50.000 33.29 9.31 0.00 3.56
13 14 1.182673 GTGTGCGCGCTATTTCATTG 58.817 50.000 33.29 0.00 0.00 2.82
14 15 1.086696 AGTGTGCGCGCTATTTCATT 58.913 45.000 33.29 15.96 33.01 2.57
15 16 1.086696 AAGTGTGCGCGCTATTTCAT 58.913 45.000 33.29 9.57 34.60 2.57
16 17 0.871722 AAAGTGTGCGCGCTATTTCA 59.128 45.000 33.29 18.99 34.60 2.69
17 18 1.963747 AAAAGTGTGCGCGCTATTTC 58.036 45.000 33.29 17.03 34.60 2.17
18 19 2.415697 AAAAAGTGTGCGCGCTATTT 57.584 40.000 33.29 22.21 34.60 1.40
19 20 2.739913 TCTAAAAAGTGTGCGCGCTATT 59.260 40.909 33.29 17.75 34.60 1.73
20 21 2.343101 TCTAAAAAGTGTGCGCGCTAT 58.657 42.857 33.29 12.42 34.60 2.97
21 22 1.785768 TCTAAAAAGTGTGCGCGCTA 58.214 45.000 33.29 18.69 34.60 4.26
22 23 1.156736 ATCTAAAAAGTGTGCGCGCT 58.843 45.000 33.29 7.70 36.97 5.92
23 24 1.963747 AATCTAAAAAGTGTGCGCGC 58.036 45.000 27.26 27.26 0.00 6.86
24 25 4.553429 CCTAAAATCTAAAAAGTGTGCGCG 59.447 41.667 0.00 0.00 0.00 6.86
25 26 5.458015 ACCTAAAATCTAAAAAGTGTGCGC 58.542 37.500 0.00 0.00 0.00 6.09
26 27 9.453325 TTTAACCTAAAATCTAAAAAGTGTGCG 57.547 29.630 0.00 0.00 0.00 5.34
52 53 8.993121 CGCTCAAATGGATGTTCTAGTTATATT 58.007 33.333 0.00 0.00 0.00 1.28
53 54 8.367911 TCGCTCAAATGGATGTTCTAGTTATAT 58.632 33.333 0.00 0.00 0.00 0.86
54 55 7.652105 GTCGCTCAAATGGATGTTCTAGTTATA 59.348 37.037 0.00 0.00 0.00 0.98
55 56 6.480320 GTCGCTCAAATGGATGTTCTAGTTAT 59.520 38.462 0.00 0.00 0.00 1.89
56 57 5.810587 GTCGCTCAAATGGATGTTCTAGTTA 59.189 40.000 0.00 0.00 0.00 2.24
57 58 4.631813 GTCGCTCAAATGGATGTTCTAGTT 59.368 41.667 0.00 0.00 0.00 2.24
58 59 4.184629 GTCGCTCAAATGGATGTTCTAGT 58.815 43.478 0.00 0.00 0.00 2.57
59 60 4.183865 TGTCGCTCAAATGGATGTTCTAG 58.816 43.478 0.00 0.00 0.00 2.43
60 61 4.200838 TGTCGCTCAAATGGATGTTCTA 57.799 40.909 0.00 0.00 0.00 2.10
61 62 3.057969 TGTCGCTCAAATGGATGTTCT 57.942 42.857 0.00 0.00 0.00 3.01
62 63 3.829886 TTGTCGCTCAAATGGATGTTC 57.170 42.857 0.00 0.00 32.64 3.18
63 64 4.789012 AATTGTCGCTCAAATGGATGTT 57.211 36.364 0.00 0.00 39.62 2.71
64 65 5.895636 TTAATTGTCGCTCAAATGGATGT 57.104 34.783 0.00 0.00 39.62 3.06
65 66 7.539710 CCATATTAATTGTCGCTCAAATGGATG 59.460 37.037 11.69 6.67 39.71 3.51
66 67 7.448161 TCCATATTAATTGTCGCTCAAATGGAT 59.552 33.333 13.94 3.75 40.51 3.41
67 68 6.770303 TCCATATTAATTGTCGCTCAAATGGA 59.230 34.615 13.94 13.94 41.85 3.41
68 69 6.857964 GTCCATATTAATTGTCGCTCAAATGG 59.142 38.462 0.00 11.23 39.17 3.16
69 70 7.416817 TGTCCATATTAATTGTCGCTCAAATG 58.583 34.615 0.00 0.00 39.62 2.32
70 71 7.255242 CCTGTCCATATTAATTGTCGCTCAAAT 60.255 37.037 0.00 0.00 39.62 2.32
71 72 6.038161 CCTGTCCATATTAATTGTCGCTCAAA 59.962 38.462 0.00 0.00 39.62 2.69
72 73 5.527214 CCTGTCCATATTAATTGTCGCTCAA 59.473 40.000 0.00 0.00 40.53 3.02
73 74 5.056480 CCTGTCCATATTAATTGTCGCTCA 58.944 41.667 0.00 0.00 0.00 4.26
74 75 5.297547 TCCTGTCCATATTAATTGTCGCTC 58.702 41.667 0.00 0.00 0.00 5.03
75 76 5.290493 TCCTGTCCATATTAATTGTCGCT 57.710 39.130 0.00 0.00 0.00 4.93
76 77 5.758296 TCTTCCTGTCCATATTAATTGTCGC 59.242 40.000 0.00 0.00 0.00 5.19
77 78 6.986817 ACTCTTCCTGTCCATATTAATTGTCG 59.013 38.462 0.00 0.00 0.00 4.35
78 79 9.832445 TTACTCTTCCTGTCCATATTAATTGTC 57.168 33.333 0.00 0.00 0.00 3.18
104 105 7.378966 GCCTCCTTTGCTTAGTAGAAATTTTT 58.621 34.615 0.00 0.00 0.00 1.94
105 106 6.071334 GGCCTCCTTTGCTTAGTAGAAATTTT 60.071 38.462 0.00 0.00 0.00 1.82
106 107 5.419155 GGCCTCCTTTGCTTAGTAGAAATTT 59.581 40.000 0.00 0.00 0.00 1.82
107 108 4.950475 GGCCTCCTTTGCTTAGTAGAAATT 59.050 41.667 0.00 0.00 0.00 1.82
108 109 4.228438 AGGCCTCCTTTGCTTAGTAGAAAT 59.772 41.667 0.00 0.00 0.00 2.17
109 110 3.587506 AGGCCTCCTTTGCTTAGTAGAAA 59.412 43.478 0.00 0.00 0.00 2.52
110 111 3.182152 AGGCCTCCTTTGCTTAGTAGAA 58.818 45.455 0.00 0.00 0.00 2.10
111 112 2.834113 AGGCCTCCTTTGCTTAGTAGA 58.166 47.619 0.00 0.00 0.00 2.59
112 113 3.451178 TGTAGGCCTCCTTTGCTTAGTAG 59.549 47.826 9.68 0.00 34.61 2.57
113 114 3.446968 TGTAGGCCTCCTTTGCTTAGTA 58.553 45.455 9.68 0.00 34.61 1.82
114 115 2.237392 CTGTAGGCCTCCTTTGCTTAGT 59.763 50.000 9.68 0.00 34.61 2.24
115 116 2.237392 ACTGTAGGCCTCCTTTGCTTAG 59.763 50.000 9.68 0.00 34.61 2.18
116 117 2.266279 ACTGTAGGCCTCCTTTGCTTA 58.734 47.619 9.68 0.00 34.61 3.09
117 118 1.068121 ACTGTAGGCCTCCTTTGCTT 58.932 50.000 9.68 0.00 34.61 3.91
118 119 1.834263 CTACTGTAGGCCTCCTTTGCT 59.166 52.381 9.68 0.00 34.61 3.91
119 120 1.831736 TCTACTGTAGGCCTCCTTTGC 59.168 52.381 9.68 0.00 34.61 3.68
120 121 4.223032 TCTTTCTACTGTAGGCCTCCTTTG 59.777 45.833 9.68 0.00 34.61 2.77
121 122 4.426704 TCTTTCTACTGTAGGCCTCCTTT 58.573 43.478 9.68 0.00 34.61 3.11
122 123 4.062490 TCTTTCTACTGTAGGCCTCCTT 57.938 45.455 9.68 0.00 34.61 3.36
123 124 3.759815 TCTTTCTACTGTAGGCCTCCT 57.240 47.619 9.68 0.00 37.71 3.69
124 125 4.466726 TCTTTCTTTCTACTGTAGGCCTCC 59.533 45.833 9.68 0.00 0.00 4.30
125 126 5.662674 TCTTTCTTTCTACTGTAGGCCTC 57.337 43.478 9.68 1.02 0.00 4.70
126 127 5.569832 GCTTCTTTCTTTCTACTGTAGGCCT 60.570 44.000 11.78 11.78 0.00 5.19
127 128 4.632251 GCTTCTTTCTTTCTACTGTAGGCC 59.368 45.833 14.47 0.00 0.00 5.19
128 129 5.120986 GTGCTTCTTTCTTTCTACTGTAGGC 59.879 44.000 14.47 6.70 0.00 3.93
129 130 6.223852 TGTGCTTCTTTCTTTCTACTGTAGG 58.776 40.000 14.47 0.00 0.00 3.18
130 131 7.715265 TTGTGCTTCTTTCTTTCTACTGTAG 57.285 36.000 8.55 8.55 0.00 2.74
131 132 7.254319 CGTTTGTGCTTCTTTCTTTCTACTGTA 60.254 37.037 0.00 0.00 0.00 2.74
132 133 6.456988 CGTTTGTGCTTCTTTCTTTCTACTGT 60.457 38.462 0.00 0.00 0.00 3.55
133 134 5.904080 CGTTTGTGCTTCTTTCTTTCTACTG 59.096 40.000 0.00 0.00 0.00 2.74
134 135 5.585047 ACGTTTGTGCTTCTTTCTTTCTACT 59.415 36.000 0.00 0.00 0.00 2.57
135 136 5.677178 CACGTTTGTGCTTCTTTCTTTCTAC 59.323 40.000 0.00 0.00 39.67 2.59
136 137 5.806286 CACGTTTGTGCTTCTTTCTTTCTA 58.194 37.500 0.00 0.00 39.67 2.10
137 138 4.662145 CACGTTTGTGCTTCTTTCTTTCT 58.338 39.130 0.00 0.00 39.67 2.52
138 139 4.998979 CACGTTTGTGCTTCTTTCTTTC 57.001 40.909 0.00 0.00 39.67 2.62
151 152 2.972505 CTCCCAGCGCACGTTTGT 60.973 61.111 11.47 0.00 0.00 2.83
152 153 2.058829 AAACTCCCAGCGCACGTTTG 62.059 55.000 11.47 0.00 0.00 2.93
153 154 1.822186 AAACTCCCAGCGCACGTTT 60.822 52.632 11.47 8.35 0.00 3.60
154 155 2.203153 AAACTCCCAGCGCACGTT 60.203 55.556 11.47 1.85 0.00 3.99
155 156 2.972505 CAAACTCCCAGCGCACGT 60.973 61.111 11.47 0.00 0.00 4.49
156 157 4.389576 GCAAACTCCCAGCGCACG 62.390 66.667 11.47 0.00 0.00 5.34
157 158 4.389576 CGCAAACTCCCAGCGCAC 62.390 66.667 11.47 0.00 45.14 5.34
161 162 2.035442 GTCCTCGCAAACTCCCAGC 61.035 63.158 0.00 0.00 0.00 4.85
162 163 1.738099 CGTCCTCGCAAACTCCCAG 60.738 63.158 0.00 0.00 0.00 4.45
163 164 2.342279 CGTCCTCGCAAACTCCCA 59.658 61.111 0.00 0.00 0.00 4.37
164 165 2.434359 CCGTCCTCGCAAACTCCC 60.434 66.667 0.00 0.00 35.54 4.30
165 166 3.119096 GCCGTCCTCGCAAACTCC 61.119 66.667 0.00 0.00 35.54 3.85
166 167 3.479269 CGCCGTCCTCGCAAACTC 61.479 66.667 0.00 0.00 35.54 3.01
167 168 3.986006 TCGCCGTCCTCGCAAACT 61.986 61.111 0.00 0.00 35.54 2.66
168 169 3.774702 GTCGCCGTCCTCGCAAAC 61.775 66.667 0.00 0.00 35.54 2.93
192 193 0.787787 TTTTTCTGCGATCCGTGACG 59.212 50.000 0.00 0.00 0.00 4.35
193 194 1.461888 CGTTTTTCTGCGATCCGTGAC 60.462 52.381 0.00 0.00 0.00 3.67
194 195 0.787787 CGTTTTTCTGCGATCCGTGA 59.212 50.000 0.00 0.00 0.00 4.35
195 196 0.511221 ACGTTTTTCTGCGATCCGTG 59.489 50.000 0.00 0.00 0.00 4.94
196 197 1.723003 GTACGTTTTTCTGCGATCCGT 59.277 47.619 0.00 0.00 0.00 4.69
197 198 1.990563 AGTACGTTTTTCTGCGATCCG 59.009 47.619 0.00 0.00 0.00 4.18
198 199 2.347755 GGAGTACGTTTTTCTGCGATCC 59.652 50.000 0.00 0.00 0.00 3.36
199 200 3.251571 AGGAGTACGTTTTTCTGCGATC 58.748 45.455 0.00 0.00 0.00 3.69
200 201 3.314541 AGGAGTACGTTTTTCTGCGAT 57.685 42.857 0.00 0.00 0.00 4.58
201 202 2.806608 AGGAGTACGTTTTTCTGCGA 57.193 45.000 0.00 0.00 0.00 5.10
202 203 3.364023 CACTAGGAGTACGTTTTTCTGCG 59.636 47.826 0.00 0.00 0.00 5.18
203 204 3.123116 GCACTAGGAGTACGTTTTTCTGC 59.877 47.826 0.00 0.00 0.00 4.26
204 205 4.304110 TGCACTAGGAGTACGTTTTTCTG 58.696 43.478 0.00 0.00 0.00 3.02
205 206 4.280174 TCTGCACTAGGAGTACGTTTTTCT 59.720 41.667 0.00 0.00 34.40 2.52
206 207 4.553323 TCTGCACTAGGAGTACGTTTTTC 58.447 43.478 0.00 0.00 34.40 2.29
223 224 1.000385 CTCCATTGGCGTTTTTCTGCA 60.000 47.619 0.00 0.00 0.00 4.41
224 225 1.701704 CTCCATTGGCGTTTTTCTGC 58.298 50.000 0.00 0.00 0.00 4.26
225 226 1.701704 GCTCCATTGGCGTTTTTCTG 58.298 50.000 0.00 0.00 0.00 3.02
227 228 2.724403 CGCTCCATTGGCGTTTTTC 58.276 52.632 0.00 0.00 46.37 2.29
228 229 4.963815 CGCTCCATTGGCGTTTTT 57.036 50.000 0.00 0.00 46.37 1.94
378 380 1.480954 CCACGACCATTACCTAGCACT 59.519 52.381 0.00 0.00 0.00 4.40
381 383 0.874607 CGCCACGACCATTACCTAGC 60.875 60.000 0.00 0.00 0.00 3.42
382 384 0.458669 ACGCCACGACCATTACCTAG 59.541 55.000 0.00 0.00 0.00 3.02
383 385 0.173935 CACGCCACGACCATTACCTA 59.826 55.000 0.00 0.00 0.00 3.08
408 410 0.040336 CATCCCGATACGTGTCTCCG 60.040 60.000 10.73 0.00 0.00 4.63
436 438 1.666189 GAAGCAACCATTCTAGTCCGC 59.334 52.381 0.00 0.00 0.00 5.54
460 462 1.804326 CGCCAAGGACGTAACGAGG 60.804 63.158 0.00 0.00 0.00 4.63
470 472 3.858868 GACGAGCACACGCCAAGGA 62.859 63.158 0.00 0.00 39.83 3.36
517 519 0.102120 TTGTTTTGTTGCAGGCTCGG 59.898 50.000 0.00 0.00 0.00 4.63
519 521 3.483411 CGTTTTTGTTTTGTTGCAGGCTC 60.483 43.478 0.00 0.00 0.00 4.70
520 522 2.414825 CGTTTTTGTTTTGTTGCAGGCT 59.585 40.909 0.00 0.00 0.00 4.58
521 523 2.413453 TCGTTTTTGTTTTGTTGCAGGC 59.587 40.909 0.00 0.00 0.00 4.85
522 524 4.653806 TTCGTTTTTGTTTTGTTGCAGG 57.346 36.364 0.00 0.00 0.00 4.85
523 525 6.246125 GTGATTTCGTTTTTGTTTTGTTGCAG 59.754 34.615 0.00 0.00 0.00 4.41
524 526 6.073548 AGTGATTTCGTTTTTGTTTTGTTGCA 60.074 30.769 0.00 0.00 0.00 4.08
563 587 0.978146 TGGGAGAGTTCTAGCTGGGC 60.978 60.000 0.00 0.00 0.00 5.36
599 626 7.892445 TTTTTCGAGACAAAGAAAGAATTCG 57.108 32.000 0.00 0.00 40.63 3.34
628 655 8.087750 TCGCTTGTTTTCCATGAAAGAATTTAT 58.912 29.630 0.00 0.00 39.27 1.40
718 750 1.151668 CTTGTTGCTTCTCCGTCTGG 58.848 55.000 0.00 0.00 0.00 3.86
798 838 7.148490 CGGATCTTTTCTTTTCTTCTCTTCTCC 60.148 40.741 0.00 0.00 0.00 3.71
865 905 1.069258 GGAAACGGATAGGGCGAGG 59.931 63.158 0.00 0.00 0.00 4.63
987 1047 3.823330 GTCATGGCTGCTGCTGCC 61.823 66.667 34.99 34.99 46.46 4.85
1362 1422 1.446272 CTTGAGCGGGTTCTCGGAC 60.446 63.158 0.00 0.00 35.90 4.79
1363 1423 2.970639 CTTGAGCGGGTTCTCGGA 59.029 61.111 0.00 0.00 35.90 4.55
1364 1424 2.815647 GCTTGAGCGGGTTCTCGG 60.816 66.667 0.00 0.00 35.90 4.63
1365 1425 2.815647 GGCTTGAGCGGGTTCTCG 60.816 66.667 0.00 0.00 43.26 4.04
1366 1426 2.436824 GGGCTTGAGCGGGTTCTC 60.437 66.667 0.00 0.00 43.26 2.87
1367 1427 2.543067 GATGGGCTTGAGCGGGTTCT 62.543 60.000 0.00 0.00 43.26 3.01
1368 1428 2.044946 ATGGGCTTGAGCGGGTTC 60.045 61.111 0.00 0.00 43.26 3.62
1369 1429 2.044946 GATGGGCTTGAGCGGGTT 60.045 61.111 0.00 0.00 43.26 4.11
1370 1430 3.329889 TGATGGGCTTGAGCGGGT 61.330 61.111 0.00 0.00 43.26 5.28
1371 1431 2.515523 CTGATGGGCTTGAGCGGG 60.516 66.667 0.00 0.00 43.26 6.13
1372 1432 3.207669 GCTGATGGGCTTGAGCGG 61.208 66.667 0.00 0.00 43.26 5.52
1373 1433 3.207669 GGCTGATGGGCTTGAGCG 61.208 66.667 0.00 0.00 43.26 5.03
1746 1818 0.673644 CTATAAGCCCCCATTCGCGG 60.674 60.000 6.13 0.00 0.00 6.46
1909 1981 1.398958 TTTCACCTTTGTGGCCTGGC 61.399 55.000 11.05 11.05 42.98 4.85
1910 1982 0.389025 GTTTCACCTTTGTGGCCTGG 59.611 55.000 3.32 0.81 42.98 4.45
1911 1983 0.389025 GGTTTCACCTTTGTGGCCTG 59.611 55.000 3.32 0.00 42.98 4.85
1912 1984 2.820845 GGTTTCACCTTTGTGGCCT 58.179 52.632 3.32 0.00 42.98 5.19
2010 2085 4.038402 AGGCAATTGAAACAACAGGAAGAG 59.962 41.667 10.34 0.00 0.00 2.85
2014 2089 3.295093 TCAGGCAATTGAAACAACAGGA 58.705 40.909 10.34 0.00 0.00 3.86
2049 2124 8.943925 CCTTTTTACGAGTTGCAATAAATATCG 58.056 33.333 0.59 8.74 35.00 2.92
2055 2130 9.187455 GAAATTCCTTTTTACGAGTTGCAATAA 57.813 29.630 0.59 0.00 0.00 1.40
2119 2194 9.599866 TGACTTGAAATTGATCGTATAACTGAT 57.400 29.630 0.00 0.00 0.00 2.90
2122 2197 8.771920 TGTGACTTGAAATTGATCGTATAACT 57.228 30.769 0.00 0.00 0.00 2.24
2152 2227 6.816140 TGGGAAGAAAAGAACAACATGTTTTC 59.184 34.615 8.77 15.04 41.28 2.29
2171 2248 9.987272 AGAAAACAAAGAAAATCTAATGGGAAG 57.013 29.630 0.00 0.00 0.00 3.46
2173 2250 8.923270 ACAGAAAACAAAGAAAATCTAATGGGA 58.077 29.630 0.00 0.00 0.00 4.37
2175 2252 9.748708 TGACAGAAAACAAAGAAAATCTAATGG 57.251 29.630 0.00 0.00 0.00 3.16
2179 2256 7.913297 CCGTTGACAGAAAACAAAGAAAATCTA 59.087 33.333 0.00 0.00 0.00 1.98
2192 2269 3.886505 ACTAATTGGCCGTTGACAGAAAA 59.113 39.130 0.00 0.00 0.00 2.29
2196 2273 3.915437 AAACTAATTGGCCGTTGACAG 57.085 42.857 0.00 0.00 0.00 3.51
2204 2281 8.947055 AAACATCATCATAAAACTAATTGGCC 57.053 30.769 0.00 0.00 0.00 5.36
2280 2357 4.648651 TGTTAGCCTAAAAGGACAGGAAC 58.351 43.478 0.00 0.00 37.67 3.62
2323 2400 7.936847 AGTAGTGAATAAGAACATTGGACAACA 59.063 33.333 0.00 0.00 0.00 3.33
2475 2573 9.654663 CTAAACACTAAGCTCCTAATAACAGTT 57.345 33.333 0.00 0.00 0.00 3.16
2524 2622 6.946340 TCTAGACATGCTAAACCATTCTTCA 58.054 36.000 0.00 0.00 0.00 3.02
2525 2623 7.550906 ACTTCTAGACATGCTAAACCATTCTTC 59.449 37.037 0.00 0.00 0.00 2.87
2673 2772 4.127171 ACACCACAAGCTACTTACAACTG 58.873 43.478 0.00 0.00 0.00 3.16
2674 2773 4.417426 ACACCACAAGCTACTTACAACT 57.583 40.909 0.00 0.00 0.00 3.16
2702 2801 7.559486 TGAATCACATAGCTTGTATCTGAACT 58.441 34.615 0.00 0.00 36.57 3.01
2795 2894 6.575649 GCTGTTTCTAGGTATGGAACTTGGTA 60.576 42.308 0.00 0.00 0.00 3.25
2852 2951 2.301870 CAAGACAGGGTGCCTAACAGTA 59.698 50.000 0.00 0.00 29.64 2.74
2871 2970 3.957497 ACCTACAGGCAAAATCACAACAA 59.043 39.130 0.00 0.00 39.32 2.83


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

AutoCloner maintained by Alex Coulton.