Multiple sequence alignment - TraesCS3D01G237700

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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 TraesCS3D01G237700 chr3D 100.000 9629 0 0 1 9629 328969844 328979472 0.000000e+00 17782.0
1 TraesCS3D01G237700 chr3D 84.828 290 33 10 8 293 437473384 437473102 2.050000e-71 281.0
2 TraesCS3D01G237700 chr3D 84.138 290 36 9 9 293 30369204 30368920 1.230000e-68 272.0
3 TraesCS3D01G237700 chr3D 80.876 251 30 11 39 274 446876276 446876523 2.140000e-41 182.0
4 TraesCS3D01G237700 chr3D 88.525 122 13 1 8515 8636 24162484 24162364 7.790000e-31 147.0
5 TraesCS3D01G237700 chr3D 88.525 122 13 1 8515 8636 24162968 24162848 7.790000e-31 147.0
6 TraesCS3D01G237700 chr3D 91.525 59 5 0 7704 7762 29699615 29699557 2.230000e-11 82.4
7 TraesCS3D01G237700 chr3D 86.111 72 8 2 7704 7773 8970007 8969936 1.040000e-09 76.8
8 TraesCS3D01G237700 chr3A 96.109 7221 186 32 3 7185 443811689 443818852 0.000000e+00 11690.0
9 TraesCS3D01G237700 chr3A 94.411 1324 66 4 8310 9629 443819874 443821193 0.000000e+00 2028.0
10 TraesCS3D01G237700 chr3A 86.364 814 55 22 7503 8309 443819064 443819828 0.000000e+00 837.0
11 TraesCS3D01G237700 chr3A 85.380 171 20 3 7029 7196 238686370 238686202 1.290000e-38 172.0
12 TraesCS3D01G237700 chr3A 90.426 94 7 2 7195 7287 54981536 54981444 1.310000e-23 122.0
13 TraesCS3D01G237700 chr3B 96.692 3779 97 11 20 3776 426304975 426308747 0.000000e+00 6261.0
14 TraesCS3D01G237700 chr3B 96.649 3223 82 11 3773 6989 426308869 426312071 0.000000e+00 5330.0
15 TraesCS3D01G237700 chr3B 94.094 1219 64 7 8310 9526 426313489 426314701 0.000000e+00 1845.0
16 TraesCS3D01G237700 chr3B 85.299 619 49 16 7704 8309 426312848 426313437 1.380000e-167 601.0
17 TraesCS3D01G237700 chr3B 91.176 204 16 2 7287 7490 426312399 426312600 9.530000e-70 276.0
18 TraesCS3D01G237700 chr3B 86.735 196 25 1 6990 7185 426312190 426312384 5.860000e-52 217.0
19 TraesCS3D01G237700 chr3B 80.612 196 24 2 7503 7698 426312583 426312764 1.300000e-28 139.0
20 TraesCS3D01G237700 chr3B 87.324 71 7 2 9560 9629 426314704 426314773 8.020000e-11 80.5
21 TraesCS3D01G237700 chr3B 88.136 59 6 1 7704 7762 27052325 27052268 1.740000e-07 69.4
22 TraesCS3D01G237700 chr4A 94.005 367 21 1 4070 4436 479426507 479426142 1.090000e-153 555.0
23 TraesCS3D01G237700 chr4A 93.460 367 24 0 4070 4436 480552941 480552575 6.580000e-151 545.0
24 TraesCS3D01G237700 chr4A 93.478 276 18 0 4161 4436 481059710 481059435 2.500000e-110 411.0
25 TraesCS3D01G237700 chr4A 92.275 233 18 0 4070 4302 479612268 479612036 2.000000e-86 331.0
26 TraesCS3D01G237700 chr4A 93.333 180 12 0 4070 4249 479895787 479895608 5.730000e-67 267.0
27 TraesCS3D01G237700 chr4A 85.897 234 31 2 4070 4302 480413603 480413371 2.080000e-61 248.0
28 TraesCS3D01G237700 chr4A 93.289 149 9 1 4288 4436 479598969 479598822 1.630000e-52 219.0
29 TraesCS3D01G237700 chr4A 92.617 149 11 0 4288 4436 480562470 480562322 2.110000e-51 215.0
30 TraesCS3D01G237700 chr4A 80.000 290 30 18 2 284 690882628 690882896 1.280000e-43 189.0
31 TraesCS3D01G237700 chr4A 89.344 122 12 1 8515 8636 309397136 309397256 1.670000e-32 152.0
32 TraesCS3D01G237700 chr4A 92.000 100 8 0 8418 8517 309396980 309397079 3.630000e-29 141.0
33 TraesCS3D01G237700 chr4D 93.750 368 19 2 4070 4433 96729054 96729421 5.080000e-152 549.0
34 TraesCS3D01G237700 chr4D 91.273 275 14 2 4161 4433 96896869 96897135 5.490000e-97 366.0
35 TraesCS3D01G237700 chr5D 81.605 299 39 14 1 287 113396094 113396388 5.810000e-57 233.0
36 TraesCS3D01G237700 chr5D 80.198 303 43 16 14 306 272147941 272148236 2.720000e-50 211.0
37 TraesCS3D01G237700 chr5D 86.875 160 18 1 7029 7185 241274687 241274846 9.940000e-40 176.0
38 TraesCS3D01G237700 chr5D 89.076 119 12 1 8515 8633 6238982 6239099 7.790000e-31 147.0
39 TraesCS3D01G237700 chr5D 89.076 119 12 1 8515 8633 432308072 432308189 7.790000e-31 147.0
40 TraesCS3D01G237700 chr5D 91.228 57 5 0 7704 7760 366007893 366007837 2.880000e-10 78.7
41 TraesCS3D01G237700 chr5D 93.478 46 2 1 8467 8512 19888349 19888305 6.240000e-07 67.6
42 TraesCS3D01G237700 chr7D 83.665 251 35 5 23 267 136012661 136012411 2.090000e-56 231.0
43 TraesCS3D01G237700 chr7D 94.048 84 5 0 7195 7278 261868457 261868374 2.820000e-25 128.0
44 TraesCS3D01G237700 chr7D 90.323 62 6 0 7700 7761 402345097 402345036 2.230000e-11 82.4
45 TraesCS3D01G237700 chr7D 93.617 47 2 1 435 481 181846792 181846837 1.740000e-07 69.4
46 TraesCS3D01G237700 chr5B 81.333 300 41 13 20 314 295943170 295942881 7.520000e-56 230.0
47 TraesCS3D01G237700 chr5B 81.944 288 34 14 20 293 326908866 326908583 2.710000e-55 228.0
48 TraesCS3D01G237700 chr5B 87.273 165 17 4 7029 7189 384587698 384587534 1.650000e-42 185.0
49 TraesCS3D01G237700 chr6D 82.661 248 29 7 39 273 304112991 304113237 3.520000e-49 207.0
50 TraesCS3D01G237700 chr6D 86.875 160 17 3 7029 7185 431160669 431160827 9.940000e-40 176.0
51 TraesCS3D01G237700 chr5A 79.930 284 43 8 23 293 542150517 542150235 7.630000e-46 196.0
52 TraesCS3D01G237700 chr5A 86.842 76 8 2 7700 7773 537745328 537745253 6.200000e-12 84.2
53 TraesCS3D01G237700 chr4B 80.220 273 36 16 23 282 661169980 661169713 1.280000e-43 189.0
54 TraesCS3D01G237700 chr4B 85.882 170 18 5 7029 7192 613157422 613157253 9.940000e-40 176.0
55 TraesCS3D01G237700 chr4B 91.270 126 10 1 4130 4255 138281922 138282046 4.620000e-38 171.0
56 TraesCS3D01G237700 chr4B 91.270 126 6 1 4313 4433 137706138 137706263 5.980000e-37 167.0
57 TraesCS3D01G237700 chr4B 91.270 126 6 1 4313 4433 138282044 138282169 5.980000e-37 167.0
58 TraesCS3D01G237700 chr4B 93.182 88 5 1 7195 7282 283349148 283349062 2.820000e-25 128.0
59 TraesCS3D01G237700 chr4B 88.525 61 7 0 7700 7760 423354597 423354537 3.730000e-09 75.0
60 TraesCS3D01G237700 chr2A 88.125 160 16 1 7029 7185 778130758 778130599 4.590000e-43 187.0
61 TraesCS3D01G237700 chr1A 86.503 163 19 1 7029 7188 441240913 441240751 9.940000e-40 176.0
62 TraesCS3D01G237700 chr1A 93.976 83 5 0 7195 7277 572846738 572846656 1.020000e-24 126.0
63 TraesCS3D01G237700 chr2D 82.192 219 22 14 13 227 417966923 417967128 1.290000e-38 172.0
64 TraesCS3D01G237700 chr2D 93.023 86 6 0 7192 7277 67303449 67303534 1.020000e-24 126.0
65 TraesCS3D01G237700 chrUn 89.076 119 12 1 8515 8633 30304114 30304231 7.790000e-31 147.0
66 TraesCS3D01G237700 chr1D 89.076 119 12 1 8515 8633 180365552 180365669 7.790000e-31 147.0
67 TraesCS3D01G237700 chr6B 92.553 94 7 0 7192 7285 614580301 614580394 1.690000e-27 135.0
68 TraesCS3D01G237700 chr6B 91.489 94 8 0 7192 7285 614578673 614578766 7.850000e-26 130.0
69 TraesCS3D01G237700 chr6B 97.778 45 1 0 8473 8517 150249732 150249688 2.880000e-10 78.7
70 TraesCS3D01G237700 chr7B 89.474 95 10 0 7192 7286 1094568 1094662 4.720000e-23 121.0
71 TraesCS3D01G237700 chr7B 90.323 93 8 1 7195 7287 186868900 186868809 4.720000e-23 121.0


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 TraesCS3D01G237700 chr3D 328969844 328979472 9628 False 17782.000000 17782 100.000000 1 9629 1 chr3D.!!$F1 9628
1 TraesCS3D01G237700 chr3A 443811689 443821193 9504 False 4851.666667 11690 92.294667 3 9629 3 chr3A.!!$F1 9626
2 TraesCS3D01G237700 chr3B 426304975 426314773 9798 False 1843.687500 6261 89.822625 20 9629 8 chr3B.!!$F1 9609

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
576 588 1.513178 CGGATTCGACTCGATTTCGTG 59.487 52.381 13.52 0.13 34.78 4.35 F
1355 1384 1.215382 CCGTCGATGTGGAGAAGCA 59.785 57.895 3.52 0.00 0.00 3.91 F
1698 1733 1.188871 GGGAGAGGGAGCGGGATAAG 61.189 65.000 0.00 0.00 0.00 1.73 F
2450 2486 3.278668 TTTGGAACGGGTGTGAAGTTA 57.721 42.857 0.00 0.00 0.00 2.24 F
3682 3724 2.508526 GAAGAACTTGCATGGAGTGGT 58.491 47.619 4.44 0.00 0.00 4.16 F
4090 4257 1.826385 ATTGGTCTTCGGAAAGGCTG 58.174 50.000 0.00 0.00 37.28 4.85 F
5971 6143 0.465097 GATGTGGATGCACCTCCAGG 60.465 60.000 15.34 0.00 45.87 4.45 F
6021 6193 0.532196 GGCACCTCCTATAACCGCAC 60.532 60.000 0.00 0.00 0.00 5.34 F
7640 7948 0.246635 GCTTGTACTCCTTCCGAGCA 59.753 55.000 0.00 0.00 43.01 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1430 1459 1.694150 TCTTGGACACAACCTCCTCAG 59.306 52.381 0.00 0.00 32.14 3.35 R
2836 2878 1.485895 TCGGATCATGCACTCATCCAA 59.514 47.619 16.78 0.26 36.61 3.53 R
3661 3703 1.815003 CCACTCCATGCAAGTTCTTCC 59.185 52.381 0.00 0.00 0.00 3.46 R
4030 4197 1.067495 AGTCTAGAAGCAGGTGTTCGC 60.067 52.381 0.00 0.00 0.00 4.70 R
4762 4929 0.822121 GGGGCGAAAACCTGTCAACT 60.822 55.000 0.00 0.00 0.00 3.16 R
6012 6184 0.821517 TCATCAGGACGTGCGGTTAT 59.178 50.000 7.13 0.00 0.00 1.89 R
7570 7878 0.034896 CATCTGTGGGTATACGGGGC 59.965 60.000 0.00 0.00 0.00 5.80 R
7949 8345 0.658897 TTTGTCGCAACGAGGGTTTC 59.341 50.000 0.00 0.00 36.23 2.78 R
9064 9520 0.244721 GCAGGGGAGATGCAAACAAC 59.755 55.000 0.00 0.00 43.31 3.32 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
197 199 6.200808 CAAAATGCTTAACCTTTTTGCCTTG 58.799 36.000 8.22 0.00 34.93 3.61
305 311 5.801350 GCCCAGAAGCCAAATTAAATTTC 57.199 39.130 0.00 0.00 0.00 2.17
308 314 4.869861 CCAGAAGCCAAATTAAATTTCCGG 59.130 41.667 0.00 0.00 0.00 5.14
329 335 5.799936 CCGGATTTATCATGTTGTTTGTCAC 59.200 40.000 0.00 0.00 0.00 3.67
370 376 7.962964 TTTCAAGAGATTTACTGATGTCGTT 57.037 32.000 0.00 0.00 0.00 3.85
401 407 2.437413 ACGAGGGATGCCTTTCTTTTC 58.563 47.619 7.42 0.00 0.00 2.29
427 433 4.093115 CGTTACAACGCATGGGTATGTTTA 59.907 41.667 24.46 15.68 46.06 2.01
576 588 1.513178 CGGATTCGACTCGATTTCGTG 59.487 52.381 13.52 0.13 34.78 4.35
753 781 2.031683 AGCCGAACGAAACAAAACTGAG 59.968 45.455 0.00 0.00 0.00 3.35
841 870 2.034999 CAAAACCCTAGCCGCCCA 59.965 61.111 0.00 0.00 0.00 5.36
1355 1384 1.215382 CCGTCGATGTGGAGAAGCA 59.785 57.895 3.52 0.00 0.00 3.91
1424 1453 4.664677 GACGGCGGGATCGGATGG 62.665 72.222 13.24 0.00 36.79 3.51
1430 1459 3.641454 GGGATCGGATGGGAGGGC 61.641 72.222 0.00 0.00 0.00 5.19
1455 1484 2.484889 GAGGTTGTGTCCAAGAGTGAC 58.515 52.381 0.00 0.00 0.00 3.67
1698 1733 1.188871 GGGAGAGGGAGCGGGATAAG 61.189 65.000 0.00 0.00 0.00 1.73
2147 2182 5.115480 GGTTGCAAAGAGTCCATTTTTCAA 58.885 37.500 0.00 0.00 0.00 2.69
2149 2184 6.073602 GGTTGCAAAGAGTCCATTTTTCAATC 60.074 38.462 0.00 0.00 0.00 2.67
2450 2486 3.278668 TTTGGAACGGGTGTGAAGTTA 57.721 42.857 0.00 0.00 0.00 2.24
2836 2878 3.812053 GAGACAGCAAGATGACAAGTGTT 59.188 43.478 0.00 0.00 0.00 3.32
2845 2887 4.978099 AGATGACAAGTGTTTGGATGAGT 58.022 39.130 0.00 0.00 38.66 3.41
3218 3260 8.004087 TCAAATCCTCATCATGAAAAAGATCC 57.996 34.615 0.00 0.00 0.00 3.36
3563 3605 6.194967 TCAGAGTGAGATAATCCCTACAACA 58.805 40.000 0.00 0.00 0.00 3.33
3610 3652 4.100035 TGAATGTGCAGGTAGGAGTATGAG 59.900 45.833 0.00 0.00 0.00 2.90
3648 3690 4.601019 CGGTTATTGATGGTGAGAAATGC 58.399 43.478 0.00 0.00 0.00 3.56
3682 3724 2.508526 GAAGAACTTGCATGGAGTGGT 58.491 47.619 4.44 0.00 0.00 4.16
3691 3733 6.186957 ACTTGCATGGAGTGGTATTTATCAA 58.813 36.000 4.44 0.00 0.00 2.57
4090 4257 1.826385 ATTGGTCTTCGGAAAGGCTG 58.174 50.000 0.00 0.00 37.28 4.85
4096 4263 2.616842 GTCTTCGGAAAGGCTGAAACAA 59.383 45.455 0.00 0.00 41.20 2.83
4210 4377 8.049117 TCACCAAAACAGCTATCTGATAAATCT 58.951 33.333 0.00 0.00 42.95 2.40
4762 4929 6.594744 AGTTTCATATCCTATGCATGACACA 58.405 36.000 10.16 0.00 33.71 3.72
4824 4991 4.248859 CCTAATCCGCTCGATGAATCATT 58.751 43.478 0.00 0.00 0.00 2.57
4825 4992 5.410924 CCTAATCCGCTCGATGAATCATTA 58.589 41.667 0.00 0.00 0.00 1.90
4924 5091 2.490903 GGATCAGAACAAGCTGCATGTT 59.509 45.455 21.53 21.53 43.37 2.71
5037 5204 3.889538 GACTCTTTAGCAACCCCTGTTTT 59.110 43.478 0.00 0.00 30.42 2.43
5038 5205 4.286707 ACTCTTTAGCAACCCCTGTTTTT 58.713 39.130 0.00 0.00 30.42 1.94
5112 5279 7.336427 AGCAAACCATTTGATTTCAGAAAAACA 59.664 29.630 0.00 1.15 43.26 2.83
5308 5478 2.441532 CTGGGAGGCTTGGGCATG 60.442 66.667 0.00 0.00 40.87 4.06
5383 5553 8.892723 CAGTGCCTATTTTGATGTATCTGTTTA 58.107 33.333 0.00 0.00 0.00 2.01
5426 5596 4.771590 TTCTCACTATGGCTTTTGCTTG 57.228 40.909 0.00 0.00 46.54 4.01
5791 5963 3.674997 ACACAGAAATGCTTGACCGTAT 58.325 40.909 0.00 0.00 0.00 3.06
5951 6123 2.234661 TCGAGCAATCACAGAATCTGGT 59.765 45.455 15.38 0.00 35.51 4.00
5971 6143 0.465097 GATGTGGATGCACCTCCAGG 60.465 60.000 15.34 0.00 45.87 4.45
6012 6184 0.691078 GGAGATGGTGGCACCTCCTA 60.691 60.000 34.69 17.30 41.40 2.94
6021 6193 0.532196 GGCACCTCCTATAACCGCAC 60.532 60.000 0.00 0.00 0.00 5.34
6093 6265 5.450965 CCTGATAAAAACATGGAGGATGTGC 60.451 44.000 0.00 0.00 45.12 4.57
6222 6394 5.202746 ACCAGGTGATACTGTAGAGGTTA 57.797 43.478 0.00 0.00 36.75 2.85
6664 6844 1.491563 GTGTGAGCTTAACGTGCCG 59.508 57.895 0.00 0.00 0.00 5.69
6740 6920 3.499338 TGTCCTTTCAGCATTGTTCCAT 58.501 40.909 0.00 0.00 0.00 3.41
6804 6984 7.277098 CGCTTTCAATTTCATCATGGAGAAAAT 59.723 33.333 14.49 6.57 37.30 1.82
6836 7017 1.644786 GCCAATTCCGCTACGTTGCT 61.645 55.000 19.36 0.00 0.00 3.91
6962 7145 3.963383 AGTTTTACAGTTTGTGCCTCG 57.037 42.857 0.00 0.00 0.00 4.63
7025 7326 3.745975 ACGTGGACAATATCACAACAGTG 59.254 43.478 0.00 0.00 33.83 3.66
7026 7327 3.424829 CGTGGACAATATCACAACAGTGC 60.425 47.826 0.00 0.00 33.83 4.40
7027 7328 3.081061 TGGACAATATCACAACAGTGCC 58.919 45.455 0.00 0.00 33.28 5.01
7041 7342 0.548682 AGTGCCACTCCCTCCATTCT 60.549 55.000 0.00 0.00 0.00 2.40
7052 7353 6.038714 CACTCCCTCCATTCTTAAATACAAGC 59.961 42.308 0.00 0.00 0.00 4.01
7088 7389 6.754702 TCCAATATAGACTACATACGGAGC 57.245 41.667 0.00 0.00 0.00 4.70
7098 7400 6.096423 AGACTACATACGGAGCAAAATGAGTA 59.904 38.462 0.00 0.00 0.00 2.59
7111 7413 9.587772 GAGCAAAATGAGTAAATCTACACTCTA 57.412 33.333 3.65 0.00 41.46 2.43
7117 7419 6.875076 TGAGTAAATCTACACTCTAAAGGGC 58.125 40.000 3.65 0.00 41.46 5.19
7126 7428 5.455056 ACACTCTAAAGGGCGTCTATATG 57.545 43.478 0.00 0.00 0.00 1.78
7185 7487 9.495572 GACTTATATTTAGAAATGGAGGGAGTG 57.504 37.037 0.00 0.00 0.00 3.51
7186 7488 9.225682 ACTTATATTTAGAAATGGAGGGAGTGA 57.774 33.333 0.00 0.00 0.00 3.41
7192 7494 3.718434 AGAAATGGAGGGAGTGATGCATA 59.282 43.478 0.00 0.00 0.00 3.14
7195 7497 5.432680 AATGGAGGGAGTGATGCATATAG 57.567 43.478 0.00 0.00 0.00 1.31
7196 7498 3.861846 TGGAGGGAGTGATGCATATAGT 58.138 45.455 0.00 0.00 0.00 2.12
7197 7499 3.580022 TGGAGGGAGTGATGCATATAGTG 59.420 47.826 0.00 0.00 0.00 2.74
7199 7501 4.772624 GGAGGGAGTGATGCATATAGTGTA 59.227 45.833 0.00 0.00 0.00 2.90
7200 7502 5.105554 GGAGGGAGTGATGCATATAGTGTAG 60.106 48.000 0.00 0.00 0.00 2.74
7201 7503 5.645201 AGGGAGTGATGCATATAGTGTAGA 58.355 41.667 0.00 0.00 0.00 2.59
7202 7504 6.259893 AGGGAGTGATGCATATAGTGTAGAT 58.740 40.000 0.00 0.00 0.00 1.98
7203 7505 6.728164 AGGGAGTGATGCATATAGTGTAGATT 59.272 38.462 0.00 0.00 0.00 2.40
7204 7506 7.236432 AGGGAGTGATGCATATAGTGTAGATTT 59.764 37.037 0.00 0.00 0.00 2.17
7205 7507 8.531982 GGGAGTGATGCATATAGTGTAGATTTA 58.468 37.037 0.00 0.00 0.00 1.40
7206 7508 9.360093 GGAGTGATGCATATAGTGTAGATTTAC 57.640 37.037 0.00 0.00 0.00 2.01
7209 7511 9.914131 GTGATGCATATAGTGTAGATTTACTCA 57.086 33.333 0.00 0.00 0.00 3.41
7219 7521 7.743104 AGTGTAGATTTACTCATTTTGCTTCG 58.257 34.615 0.00 0.00 0.00 3.79
7220 7522 7.387948 AGTGTAGATTTACTCATTTTGCTTCGT 59.612 33.333 0.00 0.00 0.00 3.85
7221 7523 8.653338 GTGTAGATTTACTCATTTTGCTTCGTA 58.347 33.333 0.00 0.00 0.00 3.43
7222 7524 9.378551 TGTAGATTTACTCATTTTGCTTCGTAT 57.621 29.630 0.00 0.00 0.00 3.06
7223 7525 9.638300 GTAGATTTACTCATTTTGCTTCGTATG 57.362 33.333 0.00 0.00 0.00 2.39
7224 7526 8.268850 AGATTTACTCATTTTGCTTCGTATGT 57.731 30.769 0.00 0.00 0.00 2.29
7225 7527 9.378551 AGATTTACTCATTTTGCTTCGTATGTA 57.621 29.630 0.00 0.00 0.00 2.29
7226 7528 9.638300 GATTTACTCATTTTGCTTCGTATGTAG 57.362 33.333 0.00 0.00 0.00 2.74
7227 7529 8.542497 TTTACTCATTTTGCTTCGTATGTAGT 57.458 30.769 0.00 0.00 0.00 2.73
7228 7530 6.648725 ACTCATTTTGCTTCGTATGTAGTC 57.351 37.500 0.00 0.00 0.00 2.59
7229 7531 6.163476 ACTCATTTTGCTTCGTATGTAGTCA 58.837 36.000 0.00 0.00 0.00 3.41
7230 7532 6.818644 ACTCATTTTGCTTCGTATGTAGTCAT 59.181 34.615 0.00 0.00 38.00 3.06
7231 7533 7.334421 ACTCATTTTGCTTCGTATGTAGTCATT 59.666 33.333 0.00 0.00 35.70 2.57
7232 7534 8.039603 TCATTTTGCTTCGTATGTAGTCATTT 57.960 30.769 0.00 0.00 35.70 2.32
7233 7535 7.962373 TCATTTTGCTTCGTATGTAGTCATTTG 59.038 33.333 0.00 0.00 35.70 2.32
7234 7536 6.795098 TTTGCTTCGTATGTAGTCATTTGT 57.205 33.333 0.00 0.00 35.70 2.83
7235 7537 6.795098 TTGCTTCGTATGTAGTCATTTGTT 57.205 33.333 0.00 0.00 35.70 2.83
7236 7538 6.164408 TGCTTCGTATGTAGTCATTTGTTG 57.836 37.500 0.00 0.00 35.70 3.33
7237 7539 5.929415 TGCTTCGTATGTAGTCATTTGTTGA 59.071 36.000 0.00 0.00 35.70 3.18
7238 7540 6.425417 TGCTTCGTATGTAGTCATTTGTTGAA 59.575 34.615 0.00 0.00 35.70 2.69
7239 7541 7.041712 TGCTTCGTATGTAGTCATTTGTTGAAA 60.042 33.333 0.00 0.00 35.70 2.69
7240 7542 7.962918 GCTTCGTATGTAGTCATTTGTTGAAAT 59.037 33.333 0.00 0.00 35.70 2.17
7241 7543 9.478019 CTTCGTATGTAGTCATTTGTTGAAATC 57.522 33.333 0.00 0.00 35.70 2.17
7242 7544 8.771920 TCGTATGTAGTCATTTGTTGAAATCT 57.228 30.769 0.00 0.00 35.70 2.40
7243 7545 8.869897 TCGTATGTAGTCATTTGTTGAAATCTC 58.130 33.333 0.00 0.00 35.70 2.75
7244 7546 8.873830 CGTATGTAGTCATTTGTTGAAATCTCT 58.126 33.333 0.00 0.00 35.70 3.10
7248 7550 9.996554 TGTAGTCATTTGTTGAAATCTCTAGAA 57.003 29.630 0.00 0.00 35.70 2.10
7314 7616 9.559732 TTGATATCACTTCTCAGAAGAAAAACA 57.440 29.630 21.82 10.32 40.95 2.83
7366 7672 8.693625 AGTCTTAGGTATATTTTGTACTTCGCT 58.306 33.333 0.00 0.00 0.00 4.93
7397 7703 0.611896 GCTGGGTATTTGGGTGCAGT 60.612 55.000 0.00 0.00 0.00 4.40
7557 7865 4.307908 GCACAACGACCGCACCAC 62.308 66.667 0.00 0.00 0.00 4.16
7558 7866 2.892914 CACAACGACCGCACCACA 60.893 61.111 0.00 0.00 0.00 4.17
7600 7908 1.548081 CCACAGATGCCACCAATGAA 58.452 50.000 0.00 0.00 0.00 2.57
7601 7909 1.475280 CCACAGATGCCACCAATGAAG 59.525 52.381 0.00 0.00 0.00 3.02
7602 7910 2.439409 CACAGATGCCACCAATGAAGA 58.561 47.619 0.00 0.00 0.00 2.87
7632 7940 2.100989 CGAGGTTAGGCTTGTACTCCT 58.899 52.381 0.00 0.84 36.51 3.69
7640 7948 0.246635 GCTTGTACTCCTTCCGAGCA 59.753 55.000 0.00 0.00 43.01 4.26
7654 7962 6.042093 TCCTTCCGAGCATTTAGATCACTAAT 59.958 38.462 0.00 0.00 38.23 1.73
7655 7963 6.146837 CCTTCCGAGCATTTAGATCACTAATG 59.853 42.308 0.00 3.01 38.23 1.90
7676 7984 0.886563 AGTGTTCGTACTCCTTCCGG 59.113 55.000 0.00 0.00 0.00 5.14
7689 7997 7.707893 CGTACTCCTTCCGGAAAGAAATATAAA 59.292 37.037 19.39 0.00 39.29 1.40
7698 8006 8.392612 TCCGGAAAGAAATATAAAAGCGTTTAG 58.607 33.333 0.00 0.00 32.76 1.85
7700 8008 9.763465 CGGAAAGAAATATAAAAGCGTTTAGAA 57.237 29.630 10.55 2.38 32.76 2.10
7938 8334 1.775770 CACTTATCGTGATCGTGAGCG 59.224 52.381 6.43 0.00 46.81 5.03
7939 8335 2.538939 CACTTATCGTGATCGTGAGCGA 60.539 50.000 6.43 0.00 46.81 4.93
7940 8336 4.616780 CACTTATCGTGATCGTGAGCGAC 61.617 52.174 6.43 0.00 46.81 5.19
7949 8345 0.934496 TCGTGAGCGACCAACAAAAG 59.066 50.000 0.00 0.00 42.81 2.27
8019 8415 8.451748 GCTTACTATTCTGTCAAACCCTTTTAG 58.548 37.037 0.00 0.00 0.00 1.85
8045 8442 6.627690 AACACTATTCTGTCAAATACGTCG 57.372 37.500 0.00 0.00 0.00 5.12
8047 8444 5.798934 ACACTATTCTGTCAAATACGTCGAC 59.201 40.000 5.18 5.18 0.00 4.20
8050 8447 3.752412 TCTGTCAAATACGTCGACGAT 57.248 42.857 41.52 26.60 43.02 3.73
8057 8454 0.248907 ATACGTCGACGATTGGGCAG 60.249 55.000 41.52 12.23 43.02 4.85
8094 8491 1.205568 GCCTCGAGCGAGAGATACG 59.794 63.158 20.41 4.58 44.53 3.06
8124 8524 1.202639 TCGACAAAGCATGACACCACT 60.203 47.619 0.00 0.00 0.00 4.00
8136 8536 0.756442 ACACCACTGCAAGGCATTGT 60.756 50.000 13.30 0.16 37.48 2.71
8229 8629 5.759059 TGCTTAGATTTGAGACCATTGGAT 58.241 37.500 10.37 0.00 0.00 3.41
8264 8664 7.558081 TCTCTGTACATTGAGCTACTACATCTT 59.442 37.037 7.15 0.00 0.00 2.40
8265 8665 7.484140 TCTGTACATTGAGCTACTACATCTTG 58.516 38.462 0.00 0.00 0.00 3.02
8329 8780 8.694975 AATCTATATTCGATTCGAGTGGATTG 57.305 34.615 19.07 8.26 37.14 2.67
8702 9158 4.608948 AGGTTTCTAGGGATATGAAGCG 57.391 45.455 0.00 0.00 0.00 4.68
8798 9254 5.753716 AGAGAAGAGATCCCTTGAATTTGG 58.246 41.667 0.00 0.00 0.00 3.28
8820 9276 1.751927 CTGGGCAAGGGTGATGCTC 60.752 63.158 0.00 0.00 44.70 4.26
8866 9322 1.444933 TTGAATCTGGGACACCACCT 58.555 50.000 0.00 0.00 43.37 4.00
8890 9346 0.687920 TACAAACGGGAGTGCCATCA 59.312 50.000 0.08 0.00 46.69 3.07
9075 9531 2.222007 TGCAACCTGTTGTTTGCATC 57.778 45.000 11.35 0.00 42.31 3.91
9193 9650 6.591448 GCCAACTCTTGATTCTTTAAAATGGG 59.409 38.462 0.00 0.00 0.00 4.00
9214 9671 6.372104 TGGGTTGCATTATTTGATGGATCTA 58.628 36.000 0.00 0.00 0.00 1.98
9323 9780 4.196626 AGCATGTGGGTGATTTGAATTG 57.803 40.909 0.00 0.00 0.00 2.32
9392 9849 9.492730 AAAGGGTTTCAGAATTGATATACCAAT 57.507 29.630 0.00 0.00 38.30 3.16
9476 9933 2.551459 GGCTGGTCACATCTAATGCATC 59.449 50.000 0.00 0.00 0.00 3.91
9552 10009 5.923204 AGTATTTTCCTGCTCTCATACCTG 58.077 41.667 0.00 0.00 0.00 4.00
9583 10041 4.141620 TGCTTTTCTCAAGAGTCTCCAAGT 60.142 41.667 0.00 0.00 0.00 3.16
9588 10046 6.479972 TTCTCAAGAGTCTCCAAGTAAACA 57.520 37.500 0.00 0.00 0.00 2.83
9619 10077 3.520187 GCACCATGGCCTTTTCTTG 57.480 52.632 13.04 0.36 0.00 3.02
9627 10085 0.242825 GGCCTTTTCTTGCCGTTACC 59.757 55.000 0.00 0.00 38.00 2.85
9628 10086 1.244816 GCCTTTTCTTGCCGTTACCT 58.755 50.000 0.00 0.00 0.00 3.08
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
169 171 3.417069 AAAGGTTAAGCATTTTGGCCC 57.583 42.857 7.52 0.00 0.00 5.80
272 278 2.505407 GGCTTCTGGGCCCAAAAATATT 59.495 45.455 28.29 0.00 45.92 1.28
287 293 5.993748 TCCGGAAATTTAATTTGGCTTCT 57.006 34.783 0.00 0.00 31.47 2.85
301 307 7.610865 ACAAACAACATGATAAATCCGGAAAT 58.389 30.769 9.01 1.97 0.00 2.17
305 311 5.799936 GTGACAAACAACATGATAAATCCGG 59.200 40.000 0.00 0.00 0.00 5.14
308 314 8.227791 ACTACGTGACAAACAACATGATAAATC 58.772 33.333 0.00 0.00 0.00 2.17
329 335 9.569167 TCTCTTGAAATATTTCACTGTACTACG 57.431 33.333 26.69 10.44 45.99 3.51
370 376 1.002659 CATCCCTCGTACAAACACCCA 59.997 52.381 0.00 0.00 0.00 4.51
416 422 9.429109 TCTTATCATGACTAGTAAACATACCCA 57.571 33.333 0.00 0.00 0.00 4.51
427 433 5.048364 GGTCGAGCATCTTATCATGACTAGT 60.048 44.000 10.30 0.00 0.00 2.57
576 588 1.268234 CGGTAGTCGAATGTCCGTACC 60.268 57.143 18.22 6.65 42.43 3.34
753 781 1.154225 CGTGCGTGGAGAAAATGGC 60.154 57.895 0.00 0.00 0.00 4.40
1068 1097 3.063197 ATCCTCGCCCTCGGACTCT 62.063 63.158 0.00 0.00 36.13 3.24
1424 1453 1.920835 ACAACCTCCTCAGCCCTCC 60.921 63.158 0.00 0.00 0.00 4.30
1430 1459 1.694150 TCTTGGACACAACCTCCTCAG 59.306 52.381 0.00 0.00 32.14 3.35
1698 1733 2.432628 CGTTCCCTGTCACGCTCC 60.433 66.667 0.00 0.00 0.00 4.70
1836 1871 3.955524 TCCTCCCCTCTACTAGTCTTG 57.044 52.381 0.00 0.00 0.00 3.02
2572 2608 7.834681 TCTCTCTTTAGCTGGAGTATCTGTTTA 59.165 37.037 0.00 0.00 33.73 2.01
2836 2878 1.485895 TCGGATCATGCACTCATCCAA 59.514 47.619 16.78 0.26 36.61 3.53
3218 3260 8.514594 TGATAAAGAAGAAATGTTACCAGCTTG 58.485 33.333 0.00 0.00 0.00 4.01
3559 3601 8.106247 ACCAATATTTACCTAACACACTGTTG 57.894 34.615 0.00 0.00 41.30 3.33
3563 3605 8.325787 TCATGACCAATATTTACCTAACACACT 58.674 33.333 0.00 0.00 0.00 3.55
3610 3652 8.730970 TCAATAACCGCAATAAACACTTTTAC 57.269 30.769 0.00 0.00 29.77 2.01
3648 3690 6.768078 GCAAGTTCTTCCATTTGCATTTATG 58.232 36.000 3.43 0.00 43.93 1.90
3661 3703 1.815003 CCACTCCATGCAAGTTCTTCC 59.185 52.381 0.00 0.00 0.00 3.46
3847 4014 8.565896 ACTGCATCAGATTGTTTTATTAGTCA 57.434 30.769 0.29 0.00 35.18 3.41
4030 4197 1.067495 AGTCTAGAAGCAGGTGTTCGC 60.067 52.381 0.00 0.00 0.00 4.70
4033 4200 1.337260 CGCAGTCTAGAAGCAGGTGTT 60.337 52.381 16.11 0.00 0.00 3.32
4096 4263 7.578928 GTCACGTGACTGGAGATCATCCTTT 62.579 48.000 35.51 0.83 42.19 3.11
4210 4377 3.146066 CCTTTGGTCGTTTGAAGATGGA 58.854 45.455 0.00 0.00 0.00 3.41
4537 4704 1.139654 TCATTCCTCTTCTGATGGCCG 59.860 52.381 0.00 0.00 0.00 6.13
4762 4929 0.822121 GGGGCGAAAACCTGTCAACT 60.822 55.000 0.00 0.00 0.00 3.16
4824 4991 2.640826 CAAACTTGTAGGTGAGGGGGTA 59.359 50.000 0.00 0.00 0.00 3.69
4825 4992 1.423921 CAAACTTGTAGGTGAGGGGGT 59.576 52.381 0.00 0.00 0.00 4.95
4924 5091 4.980592 TCCCACCCTCTGCTGCCA 62.981 66.667 0.00 0.00 0.00 4.92
5037 5204 3.743521 CATTGTCCACCTGAAGACTCAA 58.256 45.455 0.00 0.00 34.02 3.02
5038 5205 2.550855 GCATTGTCCACCTGAAGACTCA 60.551 50.000 0.00 0.00 34.02 3.41
5112 5279 4.460382 CACTTACATCACCCTTTGCTTCAT 59.540 41.667 0.00 0.00 0.00 2.57
5426 5596 7.115947 CAGCATTTCCATTCTTCTGAGAAAAAC 59.884 37.037 0.00 0.00 44.61 2.43
5681 5853 5.772169 TCTCTCTGTCTGATTCTTGTGAAGA 59.228 40.000 0.00 0.00 35.44 2.87
5971 6143 3.369147 CGTGTCACCAGATTCTGTGATTC 59.631 47.826 12.54 10.93 29.69 2.52
6012 6184 0.821517 TCATCAGGACGTGCGGTTAT 59.178 50.000 7.13 0.00 0.00 1.89
6021 6193 3.576118 ACCTCCATATCTTCATCAGGACG 59.424 47.826 0.00 0.00 0.00 4.79
6119 6291 2.924640 CCATCTGCTGGGCCATCT 59.075 61.111 6.72 0.00 41.82 2.90
6222 6394 1.376424 CTGTGAACGCTGGAGGCAT 60.376 57.895 0.00 0.00 41.91 4.40
6634 6806 2.595463 TCACACCAGCAAGCCAGC 60.595 61.111 0.00 0.00 0.00 4.85
6635 6807 2.623915 GCTCACACCAGCAAGCCAG 61.624 63.158 0.00 0.00 39.43 4.85
6636 6808 2.595463 GCTCACACCAGCAAGCCA 60.595 61.111 0.00 0.00 39.43 4.75
6637 6809 0.606401 TAAGCTCACACCAGCAAGCC 60.606 55.000 0.00 0.00 42.40 4.35
6638 6810 1.068954 GTTAAGCTCACACCAGCAAGC 60.069 52.381 0.00 0.00 42.40 4.01
6639 6811 1.195448 CGTTAAGCTCACACCAGCAAG 59.805 52.381 0.00 0.00 42.40 4.01
6640 6812 1.225855 CGTTAAGCTCACACCAGCAA 58.774 50.000 0.00 0.00 42.40 3.91
6641 6813 0.105964 ACGTTAAGCTCACACCAGCA 59.894 50.000 0.00 0.00 42.40 4.41
6740 6920 3.334751 CGTGCACGCGGAAAGACA 61.335 61.111 28.16 0.00 0.00 3.41
6759 6939 2.135933 CGCATGCCTAAGGTTAGTAGC 58.864 52.381 13.15 0.00 0.00 3.58
6804 6984 6.459923 AGCGGAATTGGCAGTAATTTTAAAA 58.540 32.000 2.51 2.51 30.78 1.52
6836 7017 8.630054 ACTAGCCTACAAACAAATATTGACAA 57.370 30.769 0.00 0.00 0.00 3.18
6871 7053 0.799534 CAGGCTAAGCGTTGCAATGC 60.800 55.000 31.81 31.81 41.21 3.56
6927 7110 8.340618 ACTGTAAAACTACTTGCATCATGAAT 57.659 30.769 0.00 0.00 0.00 2.57
7025 7326 3.366052 TTTAAGAATGGAGGGAGTGGC 57.634 47.619 0.00 0.00 0.00 5.01
7026 7327 6.001449 TGTATTTAAGAATGGAGGGAGTGG 57.999 41.667 0.00 0.00 0.00 4.00
7027 7328 6.038714 GCTTGTATTTAAGAATGGAGGGAGTG 59.961 42.308 0.00 0.00 0.00 3.51
7066 7367 6.510879 TGCTCCGTATGTAGTCTATATTGG 57.489 41.667 0.00 0.00 0.00 3.16
7098 7400 4.466726 AGACGCCCTTTAGAGTGTAGATTT 59.533 41.667 0.00 0.00 0.00 2.17
7111 7413 2.371841 TGGATGCATATAGACGCCCTTT 59.628 45.455 0.00 0.00 0.00 3.11
7115 7417 3.753272 ACAAATGGATGCATATAGACGCC 59.247 43.478 0.00 0.00 0.00 5.68
7117 7419 6.033937 CGACTACAAATGGATGCATATAGACG 59.966 42.308 15.55 15.99 0.00 4.18
7126 7428 2.627945 TCACCGACTACAAATGGATGC 58.372 47.619 0.00 0.00 0.00 3.91
7175 7477 3.580022 CACTATATGCATCACTCCCTCCA 59.420 47.826 0.19 0.00 0.00 3.86
7195 7497 7.519002 ACGAAGCAAAATGAGTAAATCTACAC 58.481 34.615 0.00 0.00 0.00 2.90
7196 7498 7.667043 ACGAAGCAAAATGAGTAAATCTACA 57.333 32.000 0.00 0.00 0.00 2.74
7197 7499 9.638300 CATACGAAGCAAAATGAGTAAATCTAC 57.362 33.333 0.00 0.00 0.00 2.59
7199 7501 8.268850 ACATACGAAGCAAAATGAGTAAATCT 57.731 30.769 0.00 0.00 0.00 2.40
7200 7502 9.638300 CTACATACGAAGCAAAATGAGTAAATC 57.362 33.333 0.00 0.00 0.00 2.17
7201 7503 9.162764 ACTACATACGAAGCAAAATGAGTAAAT 57.837 29.630 0.00 0.00 0.00 1.40
7202 7504 8.542497 ACTACATACGAAGCAAAATGAGTAAA 57.458 30.769 0.00 0.00 0.00 2.01
7203 7505 7.815549 TGACTACATACGAAGCAAAATGAGTAA 59.184 33.333 0.00 0.00 0.00 2.24
7204 7506 7.317390 TGACTACATACGAAGCAAAATGAGTA 58.683 34.615 0.00 0.00 0.00 2.59
7205 7507 6.163476 TGACTACATACGAAGCAAAATGAGT 58.837 36.000 0.00 0.00 0.00 3.41
7206 7508 6.647212 TGACTACATACGAAGCAAAATGAG 57.353 37.500 0.00 0.00 0.00 2.90
7207 7509 7.609760 AATGACTACATACGAAGCAAAATGA 57.390 32.000 0.00 0.00 35.50 2.57
7208 7510 7.750458 ACAAATGACTACATACGAAGCAAAATG 59.250 33.333 0.00 0.00 35.50 2.32
7209 7511 7.816640 ACAAATGACTACATACGAAGCAAAAT 58.183 30.769 0.00 0.00 35.50 1.82
7210 7512 7.197071 ACAAATGACTACATACGAAGCAAAA 57.803 32.000 0.00 0.00 35.50 2.44
7211 7513 6.795098 ACAAATGACTACATACGAAGCAAA 57.205 33.333 0.00 0.00 35.50 3.68
7212 7514 6.425417 TCAACAAATGACTACATACGAAGCAA 59.575 34.615 0.00 0.00 35.50 3.91
7213 7515 5.929415 TCAACAAATGACTACATACGAAGCA 59.071 36.000 0.00 0.00 35.50 3.91
7214 7516 6.403333 TCAACAAATGACTACATACGAAGC 57.597 37.500 0.00 0.00 35.50 3.86
7215 7517 9.478019 GATTTCAACAAATGACTACATACGAAG 57.522 33.333 0.00 0.00 37.92 3.79
7216 7518 9.214957 AGATTTCAACAAATGACTACATACGAA 57.785 29.630 0.00 0.00 37.92 3.85
7217 7519 8.771920 AGATTTCAACAAATGACTACATACGA 57.228 30.769 0.00 0.00 37.92 3.43
7218 7520 8.873830 AGAGATTTCAACAAATGACTACATACG 58.126 33.333 0.00 0.00 37.92 3.06
7222 7524 9.996554 TTCTAGAGATTTCAACAAATGACTACA 57.003 29.630 0.00 0.00 37.92 2.74
7363 7669 1.632422 CCAGCCTAAAAATTGCAGCG 58.368 50.000 0.00 0.00 0.00 5.18
7366 7672 5.486526 CAAATACCCAGCCTAAAAATTGCA 58.513 37.500 0.00 0.00 0.00 4.08
7397 7703 9.545105 AAAAAGACTAAATTGCATGTGAATCAA 57.455 25.926 0.00 0.00 0.00 2.57
7531 7837 0.387565 GGTCGTTGTGCCACCATTTT 59.612 50.000 0.00 0.00 0.00 1.82
7570 7878 0.034896 CATCTGTGGGTATACGGGGC 59.965 60.000 0.00 0.00 0.00 5.80
7600 7908 3.802675 GCCTAACCTCGACAGTGTTTTCT 60.803 47.826 0.00 0.00 0.00 2.52
7601 7909 2.479275 GCCTAACCTCGACAGTGTTTTC 59.521 50.000 0.00 0.00 0.00 2.29
7602 7910 2.104281 AGCCTAACCTCGACAGTGTTTT 59.896 45.455 0.00 0.00 0.00 2.43
7632 7940 6.582636 ACATTAGTGATCTAAATGCTCGGAA 58.417 36.000 12.32 0.00 39.23 4.30
7654 7962 2.485426 CGGAAGGAGTACGAACACTACA 59.515 50.000 0.00 0.00 31.13 2.74
7655 7963 3.128465 CGGAAGGAGTACGAACACTAC 57.872 52.381 0.00 0.00 0.00 2.73
7698 8006 9.202545 ACGATTTAAACGCTTTTATATTCGTTC 57.797 29.630 15.75 0.85 43.23 3.95
7710 8096 7.854534 ACACTACTTTAACGATTTAAACGCTT 58.145 30.769 9.20 6.65 34.21 4.68
7719 8105 7.383300 AGCGTTTAGAACACTACTTTAACGATT 59.617 33.333 0.00 0.00 36.88 3.34
7835 8227 6.830114 TTTTTAAGCACCGGTGTTTATTTG 57.170 33.333 35.01 11.91 36.43 2.32
7873 8269 3.577848 TGCAAGGTGCTTGGATAAAATGT 59.422 39.130 1.43 0.00 45.31 2.71
7883 8279 4.498682 GGCTTCTATAATGCAAGGTGCTTG 60.499 45.833 0.00 0.00 45.31 4.01
7933 8329 2.098443 GGTTTCTTTTGTTGGTCGCTCA 59.902 45.455 0.00 0.00 0.00 4.26
7934 8330 2.543031 GGGTTTCTTTTGTTGGTCGCTC 60.543 50.000 0.00 0.00 0.00 5.03
7935 8331 1.407618 GGGTTTCTTTTGTTGGTCGCT 59.592 47.619 0.00 0.00 0.00 4.93
7936 8332 1.407618 AGGGTTTCTTTTGTTGGTCGC 59.592 47.619 0.00 0.00 0.00 5.19
7937 8333 2.286772 CGAGGGTTTCTTTTGTTGGTCG 60.287 50.000 0.00 0.00 0.00 4.79
7938 8334 2.686405 ACGAGGGTTTCTTTTGTTGGTC 59.314 45.455 0.00 0.00 0.00 4.02
7939 8335 2.730382 ACGAGGGTTTCTTTTGTTGGT 58.270 42.857 0.00 0.00 0.00 3.67
7940 8336 3.443976 CAACGAGGGTTTCTTTTGTTGG 58.556 45.455 0.00 0.00 32.98 3.77
7949 8345 0.658897 TTTGTCGCAACGAGGGTTTC 59.341 50.000 0.00 0.00 36.23 2.78
8019 8415 7.682865 CGACGTATTTGACAGAATAGTGTTTTC 59.317 37.037 0.00 0.00 0.00 2.29
8045 8442 1.086634 GTCAGAGCTGCCCAATCGTC 61.087 60.000 0.00 0.00 0.00 4.20
8047 8444 0.392193 AAGTCAGAGCTGCCCAATCG 60.392 55.000 0.00 0.00 0.00 3.34
8050 8447 3.347216 GAATAAAGTCAGAGCTGCCCAA 58.653 45.455 0.00 0.00 0.00 4.12
8057 8454 4.434520 AGGCTTACGAATAAAGTCAGAGC 58.565 43.478 0.00 0.00 30.83 4.09
8094 8491 3.536158 TGCTTTGTCGATGTAAAGTGC 57.464 42.857 16.13 8.37 36.52 4.40
8101 8498 1.806542 GGTGTCATGCTTTGTCGATGT 59.193 47.619 0.00 0.00 0.00 3.06
8217 8617 7.172875 CAGAGATGTTCAATATCCAATGGTCTC 59.827 40.741 0.00 0.14 0.00 3.36
8229 8629 7.559486 AGCTCAATGTACAGAGATGTTCAATA 58.441 34.615 14.57 0.00 33.74 1.90
8264 8664 3.086282 TCGGAGTGTGAGTACAATAGCA 58.914 45.455 0.00 0.00 38.82 3.49
8265 8665 3.777465 TCGGAGTGTGAGTACAATAGC 57.223 47.619 0.00 0.00 38.82 2.97
8319 8770 8.915871 ATTTTGAATTATTGTCAATCCACTCG 57.084 30.769 0.07 0.00 35.03 4.18
8582 9034 4.922206 AGGGCAATAGTGAGTCAAATTCA 58.078 39.130 0.00 0.00 0.00 2.57
8702 9158 3.196685 ACTTCTCCAGTTCATACTCAGGC 59.803 47.826 0.00 0.00 27.32 4.85
8798 9254 2.988839 ATCACCCTTGCCCAGGCTC 61.989 63.158 10.58 0.00 42.29 4.70
8820 9276 4.635223 TGACCATCACTTTCTTCACAGAG 58.365 43.478 0.00 0.00 0.00 3.35
8866 9322 1.666553 CACTCCCGTTTGTAGCGCA 60.667 57.895 11.47 0.00 0.00 6.09
8890 9346 0.767375 TCTCCTTTGCAAGCTGAGGT 59.233 50.000 13.36 0.00 0.00 3.85
9064 9520 0.244721 GCAGGGGAGATGCAAACAAC 59.755 55.000 0.00 0.00 43.31 3.32
9075 9531 3.094572 ACAATTCAAGAATGCAGGGGAG 58.905 45.455 0.00 0.00 0.00 4.30
9193 9650 8.295288 CCTTCTAGATCCATCAAATAATGCAAC 58.705 37.037 0.00 0.00 0.00 4.17
9214 9671 4.747009 GCAGGAAAAACACTACTCCCTTCT 60.747 45.833 0.00 0.00 0.00 2.85
9323 9780 9.153721 CATCAAGAATATTATCAGGCTCTTCTC 57.846 37.037 0.00 0.00 0.00 2.87
9392 9849 1.066858 GGTCGCTTGGATCTCTGAACA 60.067 52.381 0.00 0.00 0.00 3.18
9476 9933 1.203758 GACCGGGCATGTTAAAAAGGG 59.796 52.381 0.00 0.00 0.00 3.95
9552 10009 4.279420 ACTCTTGAGAAAAGCAATCCCAAC 59.721 41.667 4.49 0.00 0.00 3.77
9583 10041 1.036707 GCCCAAGGTGCAAGTGTTTA 58.963 50.000 0.00 0.00 0.00 2.01
9588 10046 2.521708 GGTGCCCAAGGTGCAAGT 60.522 61.111 0.00 0.00 41.06 3.16


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

AutoCloner maintained by Alex Coulton.