Multiple sequence alignment - TraesCS3D01G324700

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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 TraesCS3D01G324700 chr3D 100.000 3877 0 0 1 3877 437671239 437675115 0.000000e+00 7160.0
1 TraesCS3D01G324700 chr3D 98.450 258 4 0 2133 2390 17649908 17649651 4.570000e-124 455.0
2 TraesCS3D01G324700 chr3D 85.102 443 39 13 618 1055 266653670 266654090 9.950000e-116 427.0
3 TraesCS3D01G324700 chr6B 94.961 2163 76 15 4 2136 173804502 173806661 0.000000e+00 3360.0
4 TraesCS3D01G324700 chr6B 97.061 1497 26 4 2384 3877 173806644 173808125 0.000000e+00 2505.0
5 TraesCS3D01G324700 chr6B 94.960 1488 70 3 2391 3877 149038611 149037128 0.000000e+00 2327.0
6 TraesCS3D01G324700 chr6B 92.472 1448 71 15 724 2136 149040043 149038599 0.000000e+00 2036.0
7 TraesCS3D01G324700 chr4B 94.776 2163 77 16 4 2136 399957631 399955475 0.000000e+00 3336.0
8 TraesCS3D01G324700 chr4B 96.980 1490 28 4 2391 3877 399955487 399954012 0.000000e+00 2486.0
9 TraesCS3D01G324700 chr3A 94.721 1989 75 14 175 2136 61553004 61554989 0.000000e+00 3064.0
10 TraesCS3D01G324700 chr3A 96.575 1489 32 4 2392 3877 61554978 61556450 0.000000e+00 2449.0
11 TraesCS3D01G324700 chr3A 93.571 140 6 1 3 139 61552864 61553003 5.080000e-49 206.0
12 TraesCS3D01G324700 chr2A 96.980 1490 29 3 2391 3877 761507519 761506043 0.000000e+00 2488.0
13 TraesCS3D01G324700 chr2A 96.552 1363 41 6 779 2136 761508868 761507507 0.000000e+00 2252.0
14 TraesCS3D01G324700 chr2A 91.844 797 37 12 8 779 761511445 761510652 0.000000e+00 1086.0
15 TraesCS3D01G324700 chr5A 93.705 826 45 3 3057 3877 4722617 4721794 0.000000e+00 1230.0
16 TraesCS3D01G324700 chr7A 93.439 823 48 2 3057 3877 191840183 191841001 0.000000e+00 1216.0
17 TraesCS3D01G324700 chr7A 92.970 825 50 2 3057 3877 736106344 736105524 0.000000e+00 1195.0
18 TraesCS3D01G324700 chr6A 93.074 823 51 2 3057 3877 565049481 565050299 0.000000e+00 1199.0
19 TraesCS3D01G324700 chr6D 99.614 259 1 0 2132 2390 33250570 33250828 1.260000e-129 473.0
20 TraesCS3D01G324700 chr6D 98.842 259 3 0 2133 2391 431064565 431064307 2.730000e-126 462.0
21 TraesCS3D01G324700 chr6D 97.736 265 5 1 2126 2390 445269073 445268810 4.570000e-124 455.0
22 TraesCS3D01G324700 chr5D 99.612 258 1 0 2133 2390 21676803 21677060 4.530000e-129 472.0
23 TraesCS3D01G324700 chr4D 99.612 258 1 0 2133 2390 485489304 485489047 4.530000e-129 472.0
24 TraesCS3D01G324700 chr4D 78.661 239 26 11 1923 2137 245079353 245079590 6.760000e-28 135.0
25 TraesCS3D01G324700 chr2D 99.228 259 2 0 2133 2391 580967715 580967973 5.870000e-128 468.0
26 TraesCS3D01G324700 chr2D 98.069 259 5 0 2132 2390 80654563 80654821 5.910000e-123 451.0
27 TraesCS3D01G324700 chr7D 97.710 262 5 1 2133 2394 632827761 632827501 2.120000e-122 449.0
28 TraesCS3D01G324700 chr7D 83.441 465 55 12 1698 2143 553007085 553006624 2.790000e-111 412.0
29 TraesCS3D01G324700 chr7D 86.777 121 14 2 258 378 23361797 23361679 2.430000e-27 134.0
30 TraesCS3D01G324700 chr3B 82.900 462 53 13 1698 2136 19051990 19052448 3.630000e-105 392.0
31 TraesCS3D01G324700 chr2B 89.268 205 21 1 1304 1508 123182433 123182230 4.970000e-64 255.0
32 TraesCS3D01G324700 chr2B 88.293 205 23 1 1304 1508 123185972 123185769 1.080000e-60 244.0
33 TraesCS3D01G324700 chr2B 88.177 203 23 1 1306 1508 123275533 123275332 1.390000e-59 241.0
34 TraesCS3D01G324700 chr2B 87.805 205 23 1 1304 1508 123269607 123269405 5.010000e-59 239.0
35 TraesCS3D01G324700 chr1D 83.117 77 11 2 904 978 421587240 421587316 6.950000e-08 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 TraesCS3D01G324700 chr3D 437671239 437675115 3876 False 7160.000000 7160 100.000000 1 3877 1 chr3D.!!$F2 3876
1 TraesCS3D01G324700 chr6B 173804502 173808125 3623 False 2932.500000 3360 96.011000 4 3877 2 chr6B.!!$F1 3873
2 TraesCS3D01G324700 chr6B 149037128 149040043 2915 True 2181.500000 2327 93.716000 724 3877 2 chr6B.!!$R1 3153
3 TraesCS3D01G324700 chr4B 399954012 399957631 3619 True 2911.000000 3336 95.878000 4 3877 2 chr4B.!!$R1 3873
4 TraesCS3D01G324700 chr3A 61552864 61556450 3586 False 1906.333333 3064 94.955667 3 3877 3 chr3A.!!$F1 3874
5 TraesCS3D01G324700 chr2A 761506043 761511445 5402 True 1942.000000 2488 95.125333 8 3877 3 chr2A.!!$R1 3869
6 TraesCS3D01G324700 chr5A 4721794 4722617 823 True 1230.000000 1230 93.705000 3057 3877 1 chr5A.!!$R1 820
7 TraesCS3D01G324700 chr7A 191840183 191841001 818 False 1216.000000 1216 93.439000 3057 3877 1 chr7A.!!$F1 820
8 TraesCS3D01G324700 chr7A 736105524 736106344 820 True 1195.000000 1195 92.970000 3057 3877 1 chr7A.!!$R1 820
9 TraesCS3D01G324700 chr6A 565049481 565050299 818 False 1199.000000 1199 93.074000 3057 3877 1 chr6A.!!$F1 820
10 TraesCS3D01G324700 chr2B 123182230 123185972 3742 True 249.500000 255 88.780500 1304 1508 2 chr2B.!!$R3 204

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
147 151 0.040425 GCATTCACACACGTCCAACC 60.040 55.0 0.00 0.0 0.00 3.77 F
460 464 0.326048 AGAGGCCATGTGACCTAGCT 60.326 55.0 5.01 0.0 36.05 3.32 F
2233 7615 0.531974 GCCGCGAAATCCTCCACATA 60.532 55.0 8.23 0.0 0.00 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2142 7524 0.951558 CGGCTATTTTGCGGGCTATT 59.048 50.0 0.0 0.0 0.00 1.73 R
2268 7650 0.475906 GGTGGGGGAGATGATTCTGG 59.524 60.0 0.0 0.0 30.30 3.86 R
3350 8739 0.031994 AAACGACAAATGGCACTGGC 59.968 50.0 0.0 0.0 40.13 4.85 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
33 34 6.270000 ACATATAAAGCATGCTAGACTACCCA 59.730 38.462 23.00 0.00 0.00 4.51
35 36 1.123928 AGCATGCTAGACTACCCACC 58.876 55.000 21.21 0.00 0.00 4.61
89 90 2.303163 ACCGCACGATGCATTTACTA 57.697 45.000 0.00 0.00 45.36 1.82
146 150 0.660488 TGCATTCACACACGTCCAAC 59.340 50.000 0.00 0.00 0.00 3.77
147 151 0.040425 GCATTCACACACGTCCAACC 60.040 55.000 0.00 0.00 0.00 3.77
200 204 2.687200 TATGGGGCCACTGAGCGT 60.687 61.111 6.53 0.00 0.00 5.07
230 234 2.530151 TCTTGAGCTGGGTGGGCT 60.530 61.111 0.00 0.00 43.26 5.19
328 332 0.741221 GCTCTACCCTGCTGTTTCGG 60.741 60.000 0.00 0.00 0.00 4.30
335 339 1.071471 CTGCTGTTTCGGTGGTCCT 59.929 57.895 0.00 0.00 0.00 3.85
337 341 1.070786 GCTGTTTCGGTGGTCCTGA 59.929 57.895 0.00 0.00 0.00 3.86
340 344 2.614481 GCTGTTTCGGTGGTCCTGATTA 60.614 50.000 0.00 0.00 0.00 1.75
378 382 1.708993 AAGTGGCTTGGGTGCTCAGA 61.709 55.000 0.00 0.00 0.00 3.27
397 401 1.819903 GATAGCTCATACGAGGGGGAC 59.180 57.143 0.00 0.00 39.88 4.46
423 427 2.280186 GGATAAGAGCGGCGTGGG 60.280 66.667 9.37 0.00 0.00 4.61
460 464 0.326048 AGAGGCCATGTGACCTAGCT 60.326 55.000 5.01 0.00 36.05 3.32
510 536 0.998945 CCCCTCTCCTCTCCTCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
536 562 1.008329 CTCCTACCTCAGTCGTCGTC 58.992 60.000 0.00 0.00 0.00 4.20
537 563 0.738762 TCCTACCTCAGTCGTCGTCG 60.739 60.000 0.00 0.00 38.55 5.12
538 564 1.060622 CTACCTCAGTCGTCGTCGC 59.939 63.158 0.00 0.00 36.96 5.19
539 565 2.307137 CTACCTCAGTCGTCGTCGCC 62.307 65.000 0.00 0.00 36.96 5.54
606 632 2.963101 TGTGGTATGGATAAGGAGACGG 59.037 50.000 0.00 0.00 0.00 4.79
616 642 0.973496 AAGGAGACGGGAGGAAGAGC 60.973 60.000 0.00 0.00 0.00 4.09
631 657 1.890552 AGAGCACATCCTTCCCTGAT 58.109 50.000 0.00 0.00 0.00 2.90
675 701 3.217743 CCTCGTCGGCCTAGGTCC 61.218 72.222 8.07 9.92 0.00 4.46
877 2688 1.276421 CCTGGTGAGTCGTCCTTGATT 59.724 52.381 5.89 0.00 0.00 2.57
899 2710 8.145122 TGATTTAAAATATTTAATCCCCGCACC 58.855 33.333 16.04 0.00 34.97 5.01
1107 2921 5.059404 AGGTTTGTAATTTCAGATTGCCG 57.941 39.130 0.00 0.00 0.00 5.69
1654 7012 3.537874 CGAAGCTACCCTCCCCCG 61.538 72.222 0.00 0.00 0.00 5.73
1873 7234 7.488792 TGCATTAAAATTGTAGATGTGCATGAC 59.511 33.333 0.00 0.00 35.41 3.06
2150 7532 9.831737 CATTTCTTCATAGATTAAAATAGCCCG 57.168 33.333 0.00 0.00 0.00 6.13
2151 7533 7.435068 TTCTTCATAGATTAAAATAGCCCGC 57.565 36.000 0.00 0.00 0.00 6.13
2152 7534 6.530120 TCTTCATAGATTAAAATAGCCCGCA 58.470 36.000 0.00 0.00 0.00 5.69
2153 7535 6.995686 TCTTCATAGATTAAAATAGCCCGCAA 59.004 34.615 0.00 0.00 0.00 4.85
2154 7536 7.500892 TCTTCATAGATTAAAATAGCCCGCAAA 59.499 33.333 0.00 0.00 0.00 3.68
2155 7537 7.575414 TCATAGATTAAAATAGCCCGCAAAA 57.425 32.000 0.00 0.00 0.00 2.44
2156 7538 8.177119 TCATAGATTAAAATAGCCCGCAAAAT 57.823 30.769 0.00 0.00 0.00 1.82
2157 7539 9.290988 TCATAGATTAAAATAGCCCGCAAAATA 57.709 29.630 0.00 0.00 0.00 1.40
2158 7540 9.559958 CATAGATTAAAATAGCCCGCAAAATAG 57.440 33.333 0.00 0.00 0.00 1.73
2159 7541 6.447162 AGATTAAAATAGCCCGCAAAATAGC 58.553 36.000 0.00 0.00 0.00 2.97
2160 7542 3.452755 AAAATAGCCCGCAAAATAGCC 57.547 42.857 0.00 0.00 0.00 3.93
2161 7543 0.951558 AATAGCCCGCAAAATAGCCG 59.048 50.000 0.00 0.00 0.00 5.52
2162 7544 1.515521 ATAGCCCGCAAAATAGCCGC 61.516 55.000 0.00 0.00 0.00 6.53
2185 7567 2.736236 CTGCGCTATAGCTGCCCG 60.736 66.667 27.09 18.74 38.89 6.13
2186 7568 4.299547 TGCGCTATAGCTGCCCGG 62.300 66.667 27.09 12.85 38.89 5.73
2188 7570 3.303135 CGCTATAGCTGCCCGGGA 61.303 66.667 29.31 8.79 39.32 5.14
2189 7571 2.659610 GCTATAGCTGCCCGGGAG 59.340 66.667 29.31 19.83 38.21 4.30
2190 7572 2.659610 CTATAGCTGCCCGGGAGC 59.340 66.667 29.31 28.32 36.65 4.70
2191 7573 2.923035 TATAGCTGCCCGGGAGCC 60.923 66.667 29.89 16.37 37.12 4.70
2192 7574 3.468390 TATAGCTGCCCGGGAGCCT 62.468 63.158 29.89 22.78 37.12 4.58
2206 7588 4.344474 GCCTCGCCGCTACGCTAT 62.344 66.667 0.00 0.00 0.00 2.97
2207 7589 2.429236 CCTCGCCGCTACGCTATG 60.429 66.667 0.00 0.00 0.00 2.23
2208 7590 2.429236 CTCGCCGCTACGCTATGG 60.429 66.667 0.00 0.00 0.00 2.74
2209 7591 4.640855 TCGCCGCTACGCTATGGC 62.641 66.667 0.00 0.00 44.09 4.40
2210 7592 4.647615 CGCCGCTACGCTATGGCT 62.648 66.667 0.00 0.00 45.36 4.75
2211 7593 3.038417 GCCGCTACGCTATGGCTG 61.038 66.667 0.00 0.00 44.16 4.85
2212 7594 3.038417 CCGCTACGCTATGGCTGC 61.038 66.667 0.00 0.08 36.09 5.25
2213 7595 2.028190 CGCTACGCTATGGCTGCT 59.972 61.111 0.00 0.00 36.09 4.24
2214 7596 2.305853 CGCTACGCTATGGCTGCTG 61.306 63.158 0.00 0.00 36.09 4.41
2215 7597 2.602322 GCTACGCTATGGCTGCTGC 61.602 63.158 7.10 7.10 36.09 5.25
2225 7607 4.543084 GCTGCTGCCGCGAAATCC 62.543 66.667 8.23 0.00 39.65 3.01
2226 7608 2.821366 CTGCTGCCGCGAAATCCT 60.821 61.111 8.23 0.00 39.65 3.24
2227 7609 2.817423 CTGCTGCCGCGAAATCCTC 61.817 63.158 8.23 0.00 39.65 3.71
2228 7610 3.577313 GCTGCCGCGAAATCCTCC 61.577 66.667 8.23 0.00 0.00 4.30
2229 7611 2.125147 CTGCCGCGAAATCCTCCA 60.125 61.111 8.23 0.00 0.00 3.86
2230 7612 2.435938 TGCCGCGAAATCCTCCAC 60.436 61.111 8.23 0.00 0.00 4.02
2231 7613 2.435938 GCCGCGAAATCCTCCACA 60.436 61.111 8.23 0.00 0.00 4.17
2232 7614 1.819632 GCCGCGAAATCCTCCACAT 60.820 57.895 8.23 0.00 0.00 3.21
2233 7615 0.531974 GCCGCGAAATCCTCCACATA 60.532 55.000 8.23 0.00 0.00 2.29
2234 7616 1.878102 GCCGCGAAATCCTCCACATAT 60.878 52.381 8.23 0.00 0.00 1.78
2235 7617 2.069273 CCGCGAAATCCTCCACATATC 58.931 52.381 8.23 0.00 0.00 1.63
2236 7618 2.069273 CGCGAAATCCTCCACATATCC 58.931 52.381 0.00 0.00 0.00 2.59
2237 7619 2.427506 GCGAAATCCTCCACATATCCC 58.572 52.381 0.00 0.00 0.00 3.85
2238 7620 2.039084 GCGAAATCCTCCACATATCCCT 59.961 50.000 0.00 0.00 0.00 4.20
2239 7621 3.260884 GCGAAATCCTCCACATATCCCTA 59.739 47.826 0.00 0.00 0.00 3.53
2240 7622 4.080863 GCGAAATCCTCCACATATCCCTAT 60.081 45.833 0.00 0.00 0.00 2.57
2241 7623 5.128827 GCGAAATCCTCCACATATCCCTATA 59.871 44.000 0.00 0.00 0.00 1.31
2242 7624 6.351881 GCGAAATCCTCCACATATCCCTATAA 60.352 42.308 0.00 0.00 0.00 0.98
2243 7625 7.620880 CGAAATCCTCCACATATCCCTATAAA 58.379 38.462 0.00 0.00 0.00 1.40
2244 7626 8.267894 CGAAATCCTCCACATATCCCTATAAAT 58.732 37.037 0.00 0.00 0.00 1.40
2245 7627 9.401058 GAAATCCTCCACATATCCCTATAAATG 57.599 37.037 0.00 0.00 0.00 2.32
2246 7628 6.891306 TCCTCCACATATCCCTATAAATGG 57.109 41.667 0.00 0.00 31.95 3.16
2247 7629 5.191722 TCCTCCACATATCCCTATAAATGGC 59.808 44.000 0.00 0.00 31.27 4.40
2248 7630 5.192522 CCTCCACATATCCCTATAAATGGCT 59.807 44.000 0.00 0.00 31.27 4.75
2249 7631 6.313519 TCCACATATCCCTATAAATGGCTC 57.686 41.667 0.00 0.00 31.27 4.70
2250 7632 5.790096 TCCACATATCCCTATAAATGGCTCA 59.210 40.000 0.00 0.00 31.27 4.26
2251 7633 6.274436 TCCACATATCCCTATAAATGGCTCAA 59.726 38.462 0.00 0.00 31.27 3.02
2252 7634 6.375455 CCACATATCCCTATAAATGGCTCAAC 59.625 42.308 0.00 0.00 0.00 3.18
2253 7635 6.942005 CACATATCCCTATAAATGGCTCAACA 59.058 38.462 0.00 0.00 0.00 3.33
2254 7636 7.448161 CACATATCCCTATAAATGGCTCAACAA 59.552 37.037 0.00 0.00 0.00 2.83
2255 7637 8.172741 ACATATCCCTATAAATGGCTCAACAAT 58.827 33.333 0.00 0.00 0.00 2.71
2256 7638 8.680903 CATATCCCTATAAATGGCTCAACAATC 58.319 37.037 0.00 0.00 0.00 2.67
2257 7639 6.012337 TCCCTATAAATGGCTCAACAATCA 57.988 37.500 0.00 0.00 0.00 2.57
2258 7640 6.430864 TCCCTATAAATGGCTCAACAATCAA 58.569 36.000 0.00 0.00 0.00 2.57
2259 7641 6.321181 TCCCTATAAATGGCTCAACAATCAAC 59.679 38.462 0.00 0.00 0.00 3.18
2260 7642 6.096705 CCCTATAAATGGCTCAACAATCAACA 59.903 38.462 0.00 0.00 0.00 3.33
2261 7643 7.363705 CCCTATAAATGGCTCAACAATCAACAA 60.364 37.037 0.00 0.00 0.00 2.83
2262 7644 8.034215 CCTATAAATGGCTCAACAATCAACAAA 58.966 33.333 0.00 0.00 0.00 2.83
2263 7645 9.590451 CTATAAATGGCTCAACAATCAACAAAT 57.410 29.630 0.00 0.00 0.00 2.32
2264 7646 6.790285 AAATGGCTCAACAATCAACAAATC 57.210 33.333 0.00 0.00 0.00 2.17
2265 7647 4.255833 TGGCTCAACAATCAACAAATCC 57.744 40.909 0.00 0.00 0.00 3.01
2266 7648 3.006752 TGGCTCAACAATCAACAAATCCC 59.993 43.478 0.00 0.00 0.00 3.85
2267 7649 3.259123 GGCTCAACAATCAACAAATCCCT 59.741 43.478 0.00 0.00 0.00 4.20
2268 7650 4.488879 GCTCAACAATCAACAAATCCCTC 58.511 43.478 0.00 0.00 0.00 4.30
2269 7651 4.619160 GCTCAACAATCAACAAATCCCTCC 60.619 45.833 0.00 0.00 0.00 4.30
2270 7652 4.478203 TCAACAATCAACAAATCCCTCCA 58.522 39.130 0.00 0.00 0.00 3.86
2271 7653 4.523943 TCAACAATCAACAAATCCCTCCAG 59.476 41.667 0.00 0.00 0.00 3.86
2272 7654 4.387026 ACAATCAACAAATCCCTCCAGA 57.613 40.909 0.00 0.00 0.00 3.86
2273 7655 4.739793 ACAATCAACAAATCCCTCCAGAA 58.260 39.130 0.00 0.00 0.00 3.02
2274 7656 5.336102 ACAATCAACAAATCCCTCCAGAAT 58.664 37.500 0.00 0.00 0.00 2.40
2275 7657 5.420104 ACAATCAACAAATCCCTCCAGAATC 59.580 40.000 0.00 0.00 0.00 2.52
2276 7658 4.656100 TCAACAAATCCCTCCAGAATCA 57.344 40.909 0.00 0.00 0.00 2.57
2277 7659 5.197224 TCAACAAATCCCTCCAGAATCAT 57.803 39.130 0.00 0.00 0.00 2.45
2278 7660 5.195940 TCAACAAATCCCTCCAGAATCATC 58.804 41.667 0.00 0.00 0.00 2.92
2279 7661 5.044624 TCAACAAATCCCTCCAGAATCATCT 60.045 40.000 0.00 0.00 35.88 2.90
2280 7662 5.046288 ACAAATCCCTCCAGAATCATCTC 57.954 43.478 0.00 0.00 32.03 2.75
2281 7663 4.141298 ACAAATCCCTCCAGAATCATCTCC 60.141 45.833 0.00 0.00 32.03 3.71
2282 7664 2.109229 TCCCTCCAGAATCATCTCCC 57.891 55.000 0.00 0.00 32.03 4.30
2283 7665 1.063183 CCCTCCAGAATCATCTCCCC 58.937 60.000 0.00 0.00 32.03 4.81
2284 7666 1.063183 CCTCCAGAATCATCTCCCCC 58.937 60.000 0.00 0.00 32.03 5.40
2285 7667 1.696965 CCTCCAGAATCATCTCCCCCA 60.697 57.143 0.00 0.00 32.03 4.96
2286 7668 1.419387 CTCCAGAATCATCTCCCCCAC 59.581 57.143 0.00 0.00 32.03 4.61
2287 7669 0.475906 CCAGAATCATCTCCCCCACC 59.524 60.000 0.00 0.00 32.03 4.61
2288 7670 1.216064 CAGAATCATCTCCCCCACCA 58.784 55.000 0.00 0.00 32.03 4.17
2289 7671 1.142465 CAGAATCATCTCCCCCACCAG 59.858 57.143 0.00 0.00 32.03 4.00
2290 7672 1.010046 AGAATCATCTCCCCCACCAGA 59.990 52.381 0.00 0.00 0.00 3.86
2291 7673 1.846439 GAATCATCTCCCCCACCAGAA 59.154 52.381 0.00 0.00 0.00 3.02
2292 7674 1.985622 ATCATCTCCCCCACCAGAAA 58.014 50.000 0.00 0.00 0.00 2.52
2293 7675 1.753903 TCATCTCCCCCACCAGAAAA 58.246 50.000 0.00 0.00 0.00 2.29
2294 7676 2.069775 TCATCTCCCCCACCAGAAAAA 58.930 47.619 0.00 0.00 0.00 1.94
2295 7677 2.654385 TCATCTCCCCCACCAGAAAAAT 59.346 45.455 0.00 0.00 0.00 1.82
2296 7678 3.077391 TCATCTCCCCCACCAGAAAAATT 59.923 43.478 0.00 0.00 0.00 1.82
2297 7679 3.628832 TCTCCCCCACCAGAAAAATTT 57.371 42.857 0.00 0.00 0.00 1.82
2298 7680 3.506398 TCTCCCCCACCAGAAAAATTTC 58.494 45.455 0.00 0.00 37.45 2.17
2299 7681 2.567169 CTCCCCCACCAGAAAAATTTCC 59.433 50.000 2.37 0.00 37.92 3.13
2300 7682 1.275010 CCCCCACCAGAAAAATTTCCG 59.725 52.381 2.37 0.00 37.92 4.30
2301 7683 1.337728 CCCCACCAGAAAAATTTCCGC 60.338 52.381 2.37 0.00 37.92 5.54
2302 7684 1.618343 CCCACCAGAAAAATTTCCGCT 59.382 47.619 2.37 0.00 37.92 5.52
2303 7685 2.823154 CCCACCAGAAAAATTTCCGCTA 59.177 45.455 2.37 0.00 37.92 4.26
2304 7686 3.447229 CCCACCAGAAAAATTTCCGCTAT 59.553 43.478 2.37 0.00 37.92 2.97
2305 7687 4.081697 CCCACCAGAAAAATTTCCGCTATT 60.082 41.667 2.37 0.00 37.92 1.73
2306 7688 5.478407 CCACCAGAAAAATTTCCGCTATTT 58.522 37.500 2.37 0.00 37.92 1.40
2307 7689 5.348451 CCACCAGAAAAATTTCCGCTATTTG 59.652 40.000 2.37 0.00 37.92 2.32
2308 7690 4.929211 ACCAGAAAAATTTCCGCTATTTGC 59.071 37.500 2.37 0.00 37.92 3.68
2309 7691 4.329801 CCAGAAAAATTTCCGCTATTTGCC 59.670 41.667 2.37 0.00 37.92 4.52
2310 7692 4.031652 CAGAAAAATTTCCGCTATTTGCCG 59.968 41.667 2.37 0.00 37.92 5.69
2311 7693 1.921243 AAATTTCCGCTATTTGCCGC 58.079 45.000 0.00 0.00 38.78 6.53
2317 7699 3.907893 GCTATTTGCCGCGATTGC 58.092 55.556 8.23 2.45 35.15 3.56
2318 7700 1.658409 GCTATTTGCCGCGATTGCC 60.658 57.895 8.23 0.00 38.08 4.52
2319 7701 1.008538 CTATTTGCCGCGATTGCCC 60.009 57.895 8.23 0.00 38.08 5.36
2320 7702 2.715864 CTATTTGCCGCGATTGCCCG 62.716 60.000 8.23 0.00 38.08 6.13
2346 7728 2.358003 GCCGCTATAGCTGCTGGG 60.358 66.667 27.86 19.26 45.80 4.45
2347 7729 2.872388 GCCGCTATAGCTGCTGGGA 61.872 63.158 27.86 0.00 45.80 4.37
2348 7730 1.291588 CCGCTATAGCTGCTGGGAG 59.708 63.158 21.98 7.61 39.32 4.30
2349 7731 1.181741 CCGCTATAGCTGCTGGGAGA 61.182 60.000 21.98 0.00 39.32 3.71
2350 7732 0.243365 CGCTATAGCTGCTGGGAGAG 59.757 60.000 21.98 4.64 39.32 3.20
2351 7733 0.607620 GCTATAGCTGCTGGGAGAGG 59.392 60.000 17.75 0.00 38.21 3.69
2352 7734 0.607620 CTATAGCTGCTGGGAGAGGC 59.392 60.000 13.43 0.00 0.00 4.70
2353 7735 0.833834 TATAGCTGCTGGGAGAGGCC 60.834 60.000 13.43 0.00 0.00 5.19
2368 7750 4.454717 GCCGCCGCGAAATCGTTT 62.455 61.111 15.93 0.00 42.22 3.60
2369 7751 2.276430 CCGCCGCGAAATCGTTTC 60.276 61.111 15.93 0.00 42.22 2.78
2370 7752 2.736682 CCGCCGCGAAATCGTTTCT 61.737 57.895 15.93 0.00 42.22 2.52
2371 7753 1.295930 CGCCGCGAAATCGTTTCTC 60.296 57.895 8.23 1.46 42.22 2.87
2372 7754 1.060465 GCCGCGAAATCGTTTCTCC 59.940 57.895 8.23 1.10 42.22 3.71
2373 7755 1.713830 CCGCGAAATCGTTTCTCCC 59.286 57.895 8.23 0.00 42.22 4.30
2374 7756 1.343821 CGCGAAATCGTTTCTCCCG 59.656 57.895 0.00 0.00 42.22 5.14
2375 7757 1.060465 GCGAAATCGTTTCTCCCGC 59.940 57.895 4.59 0.00 42.22 6.13
2376 7758 1.343821 CGAAATCGTTTCTCCCGCG 59.656 57.895 0.00 0.00 37.52 6.46
2377 7759 1.074319 CGAAATCGTTTCTCCCGCGA 61.074 55.000 8.23 0.00 37.52 5.87
2378 7760 1.287425 GAAATCGTTTCTCCCGCGAT 58.713 50.000 8.23 0.00 45.66 4.58
2379 7761 3.453559 AATCGTTTCTCCCGCGATT 57.546 47.368 8.23 5.71 46.31 3.34
2380 7762 3.453559 ATCGTTTCTCCCGCGATTT 57.546 47.368 8.23 0.00 41.78 2.17
2381 7763 1.734163 ATCGTTTCTCCCGCGATTTT 58.266 45.000 8.23 0.00 41.78 1.82
2382 7764 2.367030 TCGTTTCTCCCGCGATTTTA 57.633 45.000 8.23 0.00 0.00 1.52
2383 7765 2.686235 TCGTTTCTCCCGCGATTTTAA 58.314 42.857 8.23 0.00 0.00 1.52
2384 7766 3.264104 TCGTTTCTCCCGCGATTTTAAT 58.736 40.909 8.23 0.00 0.00 1.40
2385 7767 3.307782 TCGTTTCTCCCGCGATTTTAATC 59.692 43.478 8.23 0.00 0.00 1.75
2386 7768 3.308866 CGTTTCTCCCGCGATTTTAATCT 59.691 43.478 8.23 0.00 33.24 2.40
2387 7769 4.505191 CGTTTCTCCCGCGATTTTAATCTA 59.495 41.667 8.23 0.00 33.24 1.98
2388 7770 5.176958 CGTTTCTCCCGCGATTTTAATCTAT 59.823 40.000 8.23 0.00 33.24 1.98
2389 7771 6.363473 GTTTCTCCCGCGATTTTAATCTATG 58.637 40.000 8.23 0.00 33.24 2.23
2430 7812 5.248248 AGGTATGCTGCAAAAATTAAGGGTT 59.752 36.000 6.36 0.00 0.00 4.11
2566 7948 2.228822 CACCTTTGAAATAAGCAGCGGT 59.771 45.455 0.00 0.00 0.00 5.68
2611 7993 0.250295 TCAGTTCTGGTTGCCTTCCG 60.250 55.000 0.00 0.00 0.00 4.30
2656 8038 9.959721 ACACTTACCTCACATATCTATTGTTTT 57.040 29.630 0.00 0.00 0.00 2.43
2694 8076 1.800805 ATCTGCTCGACAAAGTGTGG 58.199 50.000 0.00 0.00 0.00 4.17
2813 8197 2.709883 ATTCATTTGCCCCGCCACG 61.710 57.895 0.00 0.00 0.00 4.94
3350 8739 3.944250 ATGGGCGGGCTCCAAACTG 62.944 63.158 0.26 0.00 37.87 3.16
3831 9225 7.175119 AGTTTAGTGCTCAAAATCCTTCTAACC 59.825 37.037 0.00 0.00 0.00 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.498358 TCTAGCATGCTTTATATGTTCGATTTG 58.502 33.333 28.02 0.00 0.00 2.32
1 2 8.499162 GTCTAGCATGCTTTATATGTTCGATTT 58.501 33.333 28.02 0.00 0.00 2.17
6 7 7.332182 GGGTAGTCTAGCATGCTTTATATGTTC 59.668 40.741 28.02 8.34 0.00 3.18
19 20 1.755380 GAACGGTGGGTAGTCTAGCAT 59.245 52.381 11.07 0.00 0.00 3.79
35 36 4.817063 CGCAATGCCGCTGGAACG 62.817 66.667 0.00 0.00 0.00 3.95
146 150 7.040494 CCATCAGTCATAGAGCTACATAATGG 58.960 42.308 0.00 0.00 0.00 3.16
147 151 7.040494 CCCATCAGTCATAGAGCTACATAATG 58.960 42.308 0.00 0.00 0.00 1.90
200 204 1.279271 GCTCAAGAGAAACCCAGCCTA 59.721 52.381 0.32 0.00 0.00 3.93
230 234 2.270850 GCGGTCCACCAGCCAATA 59.729 61.111 0.00 0.00 35.14 1.90
300 304 0.965866 CAGGGTAGAGCACGGTCTGA 60.966 60.000 8.97 0.00 0.00 3.27
328 332 2.689983 CCCAAATGCTAATCAGGACCAC 59.310 50.000 0.00 0.00 0.00 4.16
335 339 1.391157 GCGGGCCCAAATGCTAATCA 61.391 55.000 24.92 0.00 0.00 2.57
337 341 1.076044 AGCGGGCCCAAATGCTAAT 60.076 52.632 24.92 0.00 35.56 1.73
340 344 4.684134 ACAGCGGGCCCAAATGCT 62.684 61.111 24.92 19.76 38.43 3.79
378 382 1.429687 AGTCCCCCTCGTATGAGCTAT 59.570 52.381 6.42 0.00 41.13 2.97
392 396 0.623723 TTATCCAGTTGGCAGTCCCC 59.376 55.000 0.00 0.00 34.44 4.81
397 401 1.293924 CGCTCTTATCCAGTTGGCAG 58.706 55.000 0.00 0.00 34.44 4.85
485 489 4.150454 AGAGGAGAGGGGGAGGCG 62.150 72.222 0.00 0.00 0.00 5.52
486 490 2.123033 GAGAGGAGAGGGGGAGGC 60.123 72.222 0.00 0.00 0.00 4.70
488 492 0.998945 AGAGGAGAGGAGAGGGGGAG 60.999 65.000 0.00 0.00 0.00 4.30
489 493 0.996762 GAGAGGAGAGGAGAGGGGGA 60.997 65.000 0.00 0.00 0.00 4.81
490 494 1.541672 GAGAGGAGAGGAGAGGGGG 59.458 68.421 0.00 0.00 0.00 5.40
491 495 0.998945 AGGAGAGGAGAGGAGAGGGG 60.999 65.000 0.00 0.00 0.00 4.79
494 498 1.128200 TCGAGGAGAGGAGAGGAGAG 58.872 60.000 0.00 0.00 0.00 3.20
495 499 1.585895 TTCGAGGAGAGGAGAGGAGA 58.414 55.000 0.00 0.00 0.00 3.71
510 536 2.943690 CGACTGAGGTAGGAGAATTCGA 59.056 50.000 0.00 0.00 0.00 3.71
584 610 3.386726 CCGTCTCCTTATCCATACCACAA 59.613 47.826 0.00 0.00 0.00 3.33
606 632 2.323968 GAAGGATGTGCTCTTCCTCC 57.676 55.000 19.97 7.34 44.21 4.30
616 642 1.875576 GCGCTATCAGGGAAGGATGTG 60.876 57.143 0.00 0.00 0.00 3.21
675 701 1.270518 CCATCTAATCCAGCAGACCCG 60.271 57.143 0.00 0.00 0.00 5.28
678 704 3.386078 TCTGTCCATCTAATCCAGCAGAC 59.614 47.826 0.00 0.00 0.00 3.51
877 2688 5.593502 ACGGTGCGGGGATTAAATATTTTAA 59.406 36.000 5.91 0.00 0.00 1.52
1107 2921 5.373222 TGCATATACACCAATGGAAGGTAC 58.627 41.667 6.16 0.00 37.23 3.34
1199 3015 3.488553 GCCTAATTTCACATGGCGGTAAC 60.489 47.826 0.00 0.00 33.96 2.50
1259 3079 6.710744 GCATGTAAGCCAGTAATATAGGTTGT 59.289 38.462 0.00 0.00 0.00 3.32
1263 3083 7.986085 AAAGCATGTAAGCCAGTAATATAGG 57.014 36.000 0.00 0.00 34.23 2.57
1667 7025 1.822581 GCGAACTGCGTTTGAAAAGT 58.177 45.000 11.34 0.00 43.41 2.66
1873 7234 4.675510 GTGCCATAATGATTTCCACACTG 58.324 43.478 0.00 0.00 0.00 3.66
2064 7443 8.556213 ACAAAATTTACCATAGAACGAGCTTA 57.444 30.769 0.00 0.00 0.00 3.09
2069 7448 7.014422 ACCCAAACAAAATTTACCATAGAACGA 59.986 33.333 0.00 0.00 0.00 3.85
2070 7449 7.149307 ACCCAAACAAAATTTACCATAGAACG 58.851 34.615 0.00 0.00 0.00 3.95
2124 7506 9.831737 CGGGCTATTTTAATCTATGAAGAAATG 57.168 33.333 0.00 0.00 34.73 2.32
2125 7507 8.515414 GCGGGCTATTTTAATCTATGAAGAAAT 58.485 33.333 0.00 0.00 34.73 2.17
2126 7508 7.500892 TGCGGGCTATTTTAATCTATGAAGAAA 59.499 33.333 0.00 0.00 34.73 2.52
2127 7509 6.995686 TGCGGGCTATTTTAATCTATGAAGAA 59.004 34.615 0.00 0.00 34.73 2.52
2128 7510 6.530120 TGCGGGCTATTTTAATCTATGAAGA 58.470 36.000 0.00 0.00 35.80 2.87
2129 7511 6.801539 TGCGGGCTATTTTAATCTATGAAG 57.198 37.500 0.00 0.00 0.00 3.02
2130 7512 7.575414 TTTGCGGGCTATTTTAATCTATGAA 57.425 32.000 0.00 0.00 0.00 2.57
2131 7513 7.575414 TTTTGCGGGCTATTTTAATCTATGA 57.425 32.000 0.00 0.00 0.00 2.15
2132 7514 9.559958 CTATTTTGCGGGCTATTTTAATCTATG 57.440 33.333 0.00 0.00 0.00 2.23
2133 7515 8.244113 GCTATTTTGCGGGCTATTTTAATCTAT 58.756 33.333 0.00 0.00 0.00 1.98
2134 7516 7.308951 GGCTATTTTGCGGGCTATTTTAATCTA 60.309 37.037 0.00 0.00 0.00 1.98
2135 7517 6.447162 GCTATTTTGCGGGCTATTTTAATCT 58.553 36.000 0.00 0.00 0.00 2.40
2136 7518 5.633601 GGCTATTTTGCGGGCTATTTTAATC 59.366 40.000 0.00 0.00 0.00 1.75
2137 7519 5.538118 GGCTATTTTGCGGGCTATTTTAAT 58.462 37.500 0.00 0.00 0.00 1.40
2138 7520 4.498345 CGGCTATTTTGCGGGCTATTTTAA 60.498 41.667 0.00 0.00 0.00 1.52
2139 7521 3.003897 CGGCTATTTTGCGGGCTATTTTA 59.996 43.478 0.00 0.00 0.00 1.52
2140 7522 2.223711 CGGCTATTTTGCGGGCTATTTT 60.224 45.455 0.00 0.00 0.00 1.82
2141 7523 1.336755 CGGCTATTTTGCGGGCTATTT 59.663 47.619 0.00 0.00 0.00 1.40
2142 7524 0.951558 CGGCTATTTTGCGGGCTATT 59.048 50.000 0.00 0.00 0.00 1.73
2143 7525 1.515521 GCGGCTATTTTGCGGGCTAT 61.516 55.000 0.00 0.00 34.48 2.97
2144 7526 2.184167 GCGGCTATTTTGCGGGCTA 61.184 57.895 0.00 0.00 34.48 3.93
2145 7527 3.518068 GCGGCTATTTTGCGGGCT 61.518 61.111 0.00 0.00 34.48 5.19
2150 7532 0.868406 AGCTATCGCGGCTATTTTGC 59.132 50.000 6.13 0.00 42.32 3.68
2151 7533 2.584166 CAGCTATCGCGGCTATTTTG 57.416 50.000 6.13 0.00 42.32 2.44
2172 7554 2.659610 CTCCCGGGCAGCTATAGC 59.340 66.667 18.49 17.33 42.49 2.97
2173 7555 2.659610 GCTCCCGGGCAGCTATAG 59.340 66.667 27.75 16.02 33.75 1.31
2174 7556 2.923035 GGCTCCCGGGCAGCTATA 60.923 66.667 31.11 9.77 40.53 1.31
2175 7557 4.888325 AGGCTCCCGGGCAGCTAT 62.888 66.667 31.11 22.15 43.56 2.97
2197 7579 2.602322 GCAGCAGCCATAGCGTAGC 61.602 63.158 0.00 0.00 46.32 3.58
2198 7580 3.635204 GCAGCAGCCATAGCGTAG 58.365 61.111 0.00 0.00 46.67 3.51
2208 7590 4.543084 GGATTTCGCGGCAGCAGC 62.543 66.667 10.08 7.57 45.49 5.25
2209 7591 2.817423 GAGGATTTCGCGGCAGCAG 61.817 63.158 10.08 1.86 45.49 4.24
2210 7592 2.819595 GAGGATTTCGCGGCAGCA 60.820 61.111 10.08 0.00 45.49 4.41
2211 7593 3.577313 GGAGGATTTCGCGGCAGC 61.577 66.667 6.13 0.00 40.74 5.25
2212 7594 2.125147 TGGAGGATTTCGCGGCAG 60.125 61.111 6.13 0.00 0.00 4.85
2213 7595 2.435938 GTGGAGGATTTCGCGGCA 60.436 61.111 6.13 0.00 0.00 5.69
2214 7596 0.531974 TATGTGGAGGATTTCGCGGC 60.532 55.000 6.13 0.00 0.00 6.53
2215 7597 2.069273 GATATGTGGAGGATTTCGCGG 58.931 52.381 6.13 0.00 0.00 6.46
2216 7598 2.069273 GGATATGTGGAGGATTTCGCG 58.931 52.381 0.00 0.00 0.00 5.87
2217 7599 2.039084 AGGGATATGTGGAGGATTTCGC 59.961 50.000 0.00 0.00 0.00 4.70
2218 7600 5.683876 ATAGGGATATGTGGAGGATTTCG 57.316 43.478 0.00 0.00 0.00 3.46
2219 7601 9.401058 CATTTATAGGGATATGTGGAGGATTTC 57.599 37.037 0.00 0.00 0.00 2.17
2220 7602 8.339247 CCATTTATAGGGATATGTGGAGGATTT 58.661 37.037 0.00 0.00 29.79 2.17
2221 7603 7.586181 GCCATTTATAGGGATATGTGGAGGATT 60.586 40.741 0.00 0.00 29.79 3.01
2222 7604 6.126361 GCCATTTATAGGGATATGTGGAGGAT 60.126 42.308 0.00 0.00 29.79 3.24
2223 7605 5.191722 GCCATTTATAGGGATATGTGGAGGA 59.808 44.000 0.00 0.00 29.79 3.71
2224 7606 5.192522 AGCCATTTATAGGGATATGTGGAGG 59.807 44.000 0.00 0.00 29.79 4.30
2225 7607 6.070021 TGAGCCATTTATAGGGATATGTGGAG 60.070 42.308 0.00 0.00 29.79 3.86
2226 7608 5.790096 TGAGCCATTTATAGGGATATGTGGA 59.210 40.000 0.00 0.00 29.79 4.02
2227 7609 6.065976 TGAGCCATTTATAGGGATATGTGG 57.934 41.667 0.00 0.00 0.00 4.17
2228 7610 6.942005 TGTTGAGCCATTTATAGGGATATGTG 59.058 38.462 0.00 0.00 0.00 3.21
2229 7611 7.090319 TGTTGAGCCATTTATAGGGATATGT 57.910 36.000 0.00 0.00 0.00 2.29
2230 7612 8.585471 ATTGTTGAGCCATTTATAGGGATATG 57.415 34.615 0.00 0.00 0.00 1.78
2231 7613 8.393259 TGATTGTTGAGCCATTTATAGGGATAT 58.607 33.333 0.00 0.00 0.00 1.63
2232 7614 7.754624 TGATTGTTGAGCCATTTATAGGGATA 58.245 34.615 0.00 0.00 0.00 2.59
2233 7615 6.613699 TGATTGTTGAGCCATTTATAGGGAT 58.386 36.000 0.00 0.00 0.00 3.85
2234 7616 6.012337 TGATTGTTGAGCCATTTATAGGGA 57.988 37.500 0.00 0.00 0.00 4.20
2235 7617 6.096705 TGTTGATTGTTGAGCCATTTATAGGG 59.903 38.462 0.00 0.00 0.00 3.53
2236 7618 7.099266 TGTTGATTGTTGAGCCATTTATAGG 57.901 36.000 0.00 0.00 0.00 2.57
2237 7619 8.984891 TTTGTTGATTGTTGAGCCATTTATAG 57.015 30.769 0.00 0.00 0.00 1.31
2238 7620 9.585099 GATTTGTTGATTGTTGAGCCATTTATA 57.415 29.630 0.00 0.00 0.00 0.98
2239 7621 7.550196 GGATTTGTTGATTGTTGAGCCATTTAT 59.450 33.333 0.00 0.00 0.00 1.40
2240 7622 6.873076 GGATTTGTTGATTGTTGAGCCATTTA 59.127 34.615 0.00 0.00 0.00 1.40
2241 7623 5.702209 GGATTTGTTGATTGTTGAGCCATTT 59.298 36.000 0.00 0.00 0.00 2.32
2242 7624 5.240121 GGATTTGTTGATTGTTGAGCCATT 58.760 37.500 0.00 0.00 0.00 3.16
2243 7625 4.322953 GGGATTTGTTGATTGTTGAGCCAT 60.323 41.667 0.00 0.00 0.00 4.40
2244 7626 3.006752 GGGATTTGTTGATTGTTGAGCCA 59.993 43.478 0.00 0.00 0.00 4.75
2245 7627 3.259123 AGGGATTTGTTGATTGTTGAGCC 59.741 43.478 0.00 0.00 0.00 4.70
2246 7628 4.488879 GAGGGATTTGTTGATTGTTGAGC 58.511 43.478 0.00 0.00 0.00 4.26
2247 7629 4.523943 TGGAGGGATTTGTTGATTGTTGAG 59.476 41.667 0.00 0.00 0.00 3.02
2248 7630 4.478203 TGGAGGGATTTGTTGATTGTTGA 58.522 39.130 0.00 0.00 0.00 3.18
2249 7631 4.523943 TCTGGAGGGATTTGTTGATTGTTG 59.476 41.667 0.00 0.00 0.00 3.33
2250 7632 4.739793 TCTGGAGGGATTTGTTGATTGTT 58.260 39.130 0.00 0.00 0.00 2.83
2251 7633 4.387026 TCTGGAGGGATTTGTTGATTGT 57.613 40.909 0.00 0.00 0.00 2.71
2252 7634 5.419788 TGATTCTGGAGGGATTTGTTGATTG 59.580 40.000 0.00 0.00 0.00 2.67
2253 7635 5.582953 TGATTCTGGAGGGATTTGTTGATT 58.417 37.500 0.00 0.00 0.00 2.57
2254 7636 5.197224 TGATTCTGGAGGGATTTGTTGAT 57.803 39.130 0.00 0.00 0.00 2.57
2255 7637 4.656100 TGATTCTGGAGGGATTTGTTGA 57.344 40.909 0.00 0.00 0.00 3.18
2256 7638 5.198965 AGATGATTCTGGAGGGATTTGTTG 58.801 41.667 0.00 0.00 0.00 3.33
2257 7639 5.444176 GAGATGATTCTGGAGGGATTTGTT 58.556 41.667 0.00 0.00 30.30 2.83
2258 7640 4.141298 GGAGATGATTCTGGAGGGATTTGT 60.141 45.833 0.00 0.00 30.30 2.83
2259 7641 4.396522 GGAGATGATTCTGGAGGGATTTG 58.603 47.826 0.00 0.00 30.30 2.32
2260 7642 3.397282 GGGAGATGATTCTGGAGGGATTT 59.603 47.826 0.00 0.00 30.30 2.17
2261 7643 2.985311 GGGAGATGATTCTGGAGGGATT 59.015 50.000 0.00 0.00 30.30 3.01
2262 7644 2.630232 GGGAGATGATTCTGGAGGGAT 58.370 52.381 0.00 0.00 30.30 3.85
2263 7645 1.415126 GGGGAGATGATTCTGGAGGGA 60.415 57.143 0.00 0.00 30.30 4.20
2264 7646 1.063183 GGGGAGATGATTCTGGAGGG 58.937 60.000 0.00 0.00 30.30 4.30
2265 7647 1.063183 GGGGGAGATGATTCTGGAGG 58.937 60.000 0.00 0.00 30.30 4.30
2266 7648 1.419387 GTGGGGGAGATGATTCTGGAG 59.581 57.143 0.00 0.00 30.30 3.86
2267 7649 1.511613 GTGGGGGAGATGATTCTGGA 58.488 55.000 0.00 0.00 30.30 3.86
2268 7650 0.475906 GGTGGGGGAGATGATTCTGG 59.524 60.000 0.00 0.00 30.30 3.86
2269 7651 1.142465 CTGGTGGGGGAGATGATTCTG 59.858 57.143 0.00 0.00 30.30 3.02
2270 7652 1.010046 TCTGGTGGGGGAGATGATTCT 59.990 52.381 0.00 0.00 33.88 2.40
2271 7653 1.511613 TCTGGTGGGGGAGATGATTC 58.488 55.000 0.00 0.00 0.00 2.52
2272 7654 1.985622 TTCTGGTGGGGGAGATGATT 58.014 50.000 0.00 0.00 0.00 2.57
2273 7655 1.985622 TTTCTGGTGGGGGAGATGAT 58.014 50.000 0.00 0.00 0.00 2.45
2274 7656 1.753903 TTTTCTGGTGGGGGAGATGA 58.246 50.000 0.00 0.00 0.00 2.92
2275 7657 2.603075 TTTTTCTGGTGGGGGAGATG 57.397 50.000 0.00 0.00 0.00 2.90
2276 7658 3.852858 AATTTTTCTGGTGGGGGAGAT 57.147 42.857 0.00 0.00 0.00 2.75
2277 7659 3.506398 GAAATTTTTCTGGTGGGGGAGA 58.494 45.455 0.00 0.00 34.41 3.71
2278 7660 2.567169 GGAAATTTTTCTGGTGGGGGAG 59.433 50.000 3.28 0.00 37.35 4.30
2279 7661 2.615391 GGAAATTTTTCTGGTGGGGGA 58.385 47.619 3.28 0.00 37.35 4.81
2280 7662 1.275010 CGGAAATTTTTCTGGTGGGGG 59.725 52.381 4.28 0.00 39.36 5.40
2281 7663 1.337728 GCGGAAATTTTTCTGGTGGGG 60.338 52.381 12.51 0.00 42.46 4.96
2282 7664 2.078849 GCGGAAATTTTTCTGGTGGG 57.921 50.000 12.51 0.00 42.46 4.61
2286 7668 5.454736 GCAAATAGCGGAAATTTTTCTGG 57.545 39.130 12.51 3.14 42.46 3.86
2300 7682 1.658409 GGCAATCGCGGCAAATAGC 60.658 57.895 6.13 0.96 39.92 2.97
2301 7683 1.008538 GGGCAATCGCGGCAAATAG 60.009 57.895 6.13 0.00 39.92 1.73
2302 7684 2.829206 CGGGCAATCGCGGCAAATA 61.829 57.895 6.13 0.00 43.76 1.40
2303 7685 4.191950 CGGGCAATCGCGGCAAAT 62.192 61.111 6.13 0.00 43.76 2.32
2332 7714 0.607620 CCTCTCCCAGCAGCTATAGC 59.392 60.000 17.33 17.33 42.49 2.97
2333 7715 0.607620 GCCTCTCCCAGCAGCTATAG 59.392 60.000 0.00 0.00 0.00 1.31
2334 7716 0.833834 GGCCTCTCCCAGCAGCTATA 60.834 60.000 0.00 0.00 0.00 1.31
2335 7717 2.146061 GGCCTCTCCCAGCAGCTAT 61.146 63.158 0.00 0.00 0.00 2.97
2336 7718 2.765807 GGCCTCTCCCAGCAGCTA 60.766 66.667 0.00 0.00 0.00 3.32
2351 7733 4.454717 AAACGATTTCGCGGCGGC 62.455 61.111 23.46 6.12 44.43 6.53
2352 7734 2.276430 GAAACGATTTCGCGGCGG 60.276 61.111 23.46 8.34 44.43 6.13
2353 7735 1.295930 GAGAAACGATTTCGCGGCG 60.296 57.895 17.70 17.70 44.29 6.46
2354 7736 1.060465 GGAGAAACGATTTCGCGGC 59.940 57.895 6.13 0.00 44.29 6.53
2355 7737 1.713830 GGGAGAAACGATTTCGCGG 59.286 57.895 6.13 0.00 44.29 6.46
2356 7738 1.343821 CGGGAGAAACGATTTCGCG 59.656 57.895 0.00 0.00 44.29 5.87
2357 7739 1.060465 GCGGGAGAAACGATTTCGC 59.940 57.895 0.00 0.00 44.29 4.70
2358 7740 1.074319 TCGCGGGAGAAACGATTTCG 61.074 55.000 6.13 0.00 44.29 3.46
2359 7741 1.287425 ATCGCGGGAGAAACGATTTC 58.713 50.000 6.13 0.00 43.55 2.17
2360 7742 3.453559 ATCGCGGGAGAAACGATTT 57.546 47.368 6.13 0.00 43.55 2.17
2363 7745 2.367030 TAAAATCGCGGGAGAAACGA 57.633 45.000 6.13 0.00 40.53 3.85
2364 7746 3.308866 AGATTAAAATCGCGGGAGAAACG 59.691 43.478 6.13 0.00 40.35 3.60
2365 7747 4.877323 AGATTAAAATCGCGGGAGAAAC 57.123 40.909 6.13 0.00 40.35 2.78
2366 7748 5.049680 GCATAGATTAAAATCGCGGGAGAAA 60.050 40.000 6.13 0.00 40.35 2.52
2367 7749 4.451096 GCATAGATTAAAATCGCGGGAGAA 59.549 41.667 6.13 0.05 40.35 2.87
2368 7750 3.994392 GCATAGATTAAAATCGCGGGAGA 59.006 43.478 6.13 0.00 40.35 3.71
2369 7751 3.745975 TGCATAGATTAAAATCGCGGGAG 59.254 43.478 6.13 0.00 40.35 4.30
2370 7752 3.734463 TGCATAGATTAAAATCGCGGGA 58.266 40.909 6.13 4.03 40.35 5.14
2371 7753 4.685169 ATGCATAGATTAAAATCGCGGG 57.315 40.909 6.13 0.00 40.35 6.13
2372 7754 6.373779 AGAAATGCATAGATTAAAATCGCGG 58.626 36.000 6.13 0.00 40.35 6.46
2373 7755 7.842525 AAGAAATGCATAGATTAAAATCGCG 57.157 32.000 0.00 0.00 40.35 5.87
2374 7756 9.663904 TGTAAGAAATGCATAGATTAAAATCGC 57.336 29.630 0.00 0.00 40.35 4.58
2388 7770 9.573166 AGCATACCTTTATATGTAAGAAATGCA 57.427 29.630 22.71 0.00 39.88 3.96
2389 7771 9.831737 CAGCATACCTTTATATGTAAGAAATGC 57.168 33.333 18.48 18.48 38.91 3.56
2430 7812 6.438741 TGAAACAGCCATAAATTACCATCCAA 59.561 34.615 0.00 0.00 0.00 3.53
2658 8040 7.817478 TCGAGCAGATTCAGTCTATAACAAAAA 59.183 33.333 0.00 0.00 34.69 1.94
2813 8197 4.178545 TCTTAGCAAGCCAAAAATCAGC 57.821 40.909 0.00 0.00 0.00 4.26
3350 8739 0.031994 AAACGACAAATGGCACTGGC 59.968 50.000 0.00 0.00 40.13 4.85
3831 9225 8.428536 CGTCAAGAAAATACAGTCAGTAGAAAG 58.571 37.037 0.00 0.00 35.85 2.62


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

AutoCloner maintained by Alex Coulton.