Multiple sequence alignment - TraesCS7B01G028600

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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 TraesCS7B01G028600 chr7B 100.000 1972 0 0 1481 3452 27058579 27060550 0.000000e+00 3642.0
1 TraesCS7B01G028600 chr7B 100.000 1355 0 0 1 1355 27057099 27058453 0.000000e+00 2503.0
2 TraesCS7B01G028600 chr7B 99.130 115 1 0 1481 1595 27058339 27058453 1.260000e-49 207.0
3 TraesCS7B01G028600 chr7B 99.130 115 1 0 1241 1355 27058579 27058693 1.260000e-49 207.0
4 TraesCS7B01G028600 chr7D 93.745 1263 57 8 1481 2721 79955581 79956843 0.000000e+00 1875.0
5 TraesCS7B01G028600 chr7D 87.600 1379 95 23 34 1355 79954336 79955695 0.000000e+00 1530.0
6 TraesCS7B01G028600 chr7D 91.108 731 53 4 2732 3452 79956947 79957675 0.000000e+00 979.0
7 TraesCS7B01G028600 chr7A 95.625 1120 46 1 1481 2600 82935288 82936404 0.000000e+00 1794.0
8 TraesCS7B01G028600 chr7A 87.500 728 30 25 675 1355 82934689 82935402 0.000000e+00 784.0
9 TraesCS7B01G028600 chr1B 76.976 291 50 13 599 878 137141017 137141301 2.150000e-32 150.0
10 TraesCS7B01G028600 chr1B 93.333 45 2 1 1 45 151838053 151838096 8.000000e-07 65.8
11 TraesCS7B01G028600 chr1B 95.122 41 0 2 1 41 668867881 668867919 2.880000e-06 63.9
12 TraesCS7B01G028600 chr2A 84.615 91 11 3 762 851 31199067 31199155 1.710000e-13 87.9
13 TraesCS7B01G028600 chr5B 85.185 81 11 1 762 841 486075812 486075732 7.940000e-12 82.4
14 TraesCS7B01G028600 chr5B 93.478 46 1 2 1 45 40789759 40789803 2.220000e-07 67.6
15 TraesCS7B01G028600 chr6D 97.727 44 1 0 3409 3452 62504023 62503980 3.690000e-10 76.8
16 TraesCS7B01G028600 chr6D 95.000 40 0 2 1 40 421801494 421801531 1.030000e-05 62.1
17 TraesCS7B01G028600 chr2B 95.349 43 2 0 1 43 226824282 226824240 6.180000e-08 69.4
18 TraesCS7B01G028600 chr5A 97.368 38 1 0 1 38 600238925 600238888 8.000000e-07 65.8
19 TraesCS7B01G028600 chr5A 92.857 42 3 0 810 851 605142810 605142769 1.030000e-05 62.1
20 TraesCS7B01G028600 chr5A 89.583 48 3 2 810 856 460324786 460324740 3.720000e-05 60.2
21 TraesCS7B01G028600 chr5A 90.476 42 4 0 810 851 622283496 622283455 4.810000e-04 56.5
22 TraesCS7B01G028600 chr4A 97.368 38 1 0 1 38 645773855 645773892 8.000000e-07 65.8
23 TraesCS7B01G028600 chr1A 95.122 41 2 0 1 41 213589058 213589098 8.000000e-07 65.8
24 TraesCS7B01G028600 chr1A 95.122 41 2 0 1 41 488661733 488661693 8.000000e-07 65.8
25 TraesCS7B01G028600 chr3B 90.476 42 4 0 810 851 726123901 726123860 4.810000e-04 56.5


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G028600 chr7B 27057099 27060550 3451 False 1639.750000 3642 99.565000 1 3452 4 chr7B.!!$F1 3451
1 TraesCS7B01G028600 chr7D 79954336 79957675 3339 False 1461.333333 1875 90.817667 34 3452 3 chr7D.!!$F1 3418
2 TraesCS7B01G028600 chr7A 82934689 82936404 1715 False 1289.000000 1794 91.562500 675 2600 2 chr7A.!!$F1 1925

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
335 351 0.106669 GGGGTAATGGAAGGTGAGGC 60.107 60.000 0.00 0.0 0.00 4.70 F
377 393 0.179129 GCTTTTGTGATGATGGGGCG 60.179 55.000 0.00 0.0 0.00 6.13 F
392 408 0.185175 GGGCGGGATTAATCAGGGTT 59.815 55.000 17.07 0.0 0.00 4.11 F
406 422 1.002544 CAGGGTTGAGGAGACACTTCC 59.997 57.143 0.00 0.0 37.52 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1869 1933 1.204113 CCTTTGGGGTGAGGAGCTCT 61.204 60.000 14.64 0.0 34.91 4.09 R
1884 1948 1.888736 GAGACCGTAGCCGACCTTT 59.111 57.895 0.00 0.0 35.63 3.11 R
1965 2029 2.556287 CGTTTGAGCGCTTGGTCC 59.444 61.111 13.26 0.0 39.39 4.46 R
2452 2516 3.637911 ACCTGCCAATCCGTGTAAATA 57.362 42.857 0.00 0.0 0.00 1.40 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
20 21 3.452755 CCTTCAAAAACCACCTCAACC 57.547 47.619 0.00 0.00 0.00 3.77
21 22 2.223711 CCTTCAAAAACCACCTCAACCG 60.224 50.000 0.00 0.00 0.00 4.44
22 23 2.421751 TCAAAAACCACCTCAACCGA 57.578 45.000 0.00 0.00 0.00 4.69
23 24 2.724454 TCAAAAACCACCTCAACCGAA 58.276 42.857 0.00 0.00 0.00 4.30
24 25 2.424246 TCAAAAACCACCTCAACCGAAC 59.576 45.455 0.00 0.00 0.00 3.95
25 26 2.131776 AAAACCACCTCAACCGAACA 57.868 45.000 0.00 0.00 0.00 3.18
26 27 2.131776 AAACCACCTCAACCGAACAA 57.868 45.000 0.00 0.00 0.00 2.83
27 28 1.675552 AACCACCTCAACCGAACAAG 58.324 50.000 0.00 0.00 0.00 3.16
28 29 0.179029 ACCACCTCAACCGAACAAGG 60.179 55.000 0.00 0.00 34.94 3.61
29 30 1.515521 CCACCTCAACCGAACAAGGC 61.516 60.000 0.00 0.00 31.79 4.35
30 31 1.228154 ACCTCAACCGAACAAGGCC 60.228 57.895 0.00 0.00 31.79 5.19
31 32 1.073199 CCTCAACCGAACAAGGCCT 59.927 57.895 0.00 0.00 33.69 5.19
32 33 1.237285 CCTCAACCGAACAAGGCCTG 61.237 60.000 5.69 2.82 33.69 4.85
33 34 0.250295 CTCAACCGAACAAGGCCTGA 60.250 55.000 5.69 0.00 33.69 3.86
34 35 0.181587 TCAACCGAACAAGGCCTGAA 59.818 50.000 5.69 0.00 33.69 3.02
35 36 0.593128 CAACCGAACAAGGCCTGAAG 59.407 55.000 5.69 1.47 33.69 3.02
36 37 0.537371 AACCGAACAAGGCCTGAAGG 60.537 55.000 5.69 8.82 38.53 3.46
48 49 2.435805 GGCCTGAAGGAGATCATGTGTA 59.564 50.000 0.00 0.00 37.39 2.90
53 54 0.753262 AGGAGATCATGTGTACGCCC 59.247 55.000 3.51 0.00 0.00 6.13
133 148 0.537143 TTGATACCCATGCCCGCATC 60.537 55.000 0.00 0.00 33.90 3.91
134 149 1.073025 GATACCCATGCCCGCATCA 59.927 57.895 0.00 0.00 33.90 3.07
143 158 1.035923 TGCCCGCATCAAAAGACAAA 58.964 45.000 0.00 0.00 0.00 2.83
144 159 1.410517 TGCCCGCATCAAAAGACAAAA 59.589 42.857 0.00 0.00 0.00 2.44
153 168 5.387752 GCATCAAAAGACAAAAGCGATCAAC 60.388 40.000 0.00 0.00 0.00 3.18
164 179 3.185246 AGCGATCAACGAAATCCATCT 57.815 42.857 0.00 0.00 45.77 2.90
177 192 5.468072 CGAAATCCATCTATCAAGACAAGGG 59.532 44.000 0.00 0.00 33.57 3.95
180 195 5.620738 TCCATCTATCAAGACAAGGGAAG 57.379 43.478 0.00 0.00 33.57 3.46
183 198 6.672218 TCCATCTATCAAGACAAGGGAAGTTA 59.328 38.462 0.00 0.00 33.57 2.24
210 225 9.677567 TGATCTGTTAAGATTTTTGCAAGTTAC 57.322 29.630 0.00 0.00 43.48 2.50
240 255 5.693769 AAGGGAAGGTTGAGAAATCGATA 57.306 39.130 0.00 0.00 0.00 2.92
242 257 5.615289 AGGGAAGGTTGAGAAATCGATATG 58.385 41.667 0.00 0.00 0.00 1.78
251 266 5.666462 TGAGAAATCGATATGAAAACCCGA 58.334 37.500 0.00 0.00 0.00 5.14
266 281 3.668386 CGAAAGGTGGGGTTCAGC 58.332 61.111 0.00 0.00 43.73 4.26
275 290 1.341209 GTGGGGTTCAGCTGGAAAAAG 59.659 52.381 15.13 0.00 37.23 2.27
278 293 2.698274 GGGGTTCAGCTGGAAAAAGAAA 59.302 45.455 15.13 0.00 37.23 2.52
279 294 3.243873 GGGGTTCAGCTGGAAAAAGAAAG 60.244 47.826 15.13 0.00 37.23 2.62
281 296 4.281941 GGGTTCAGCTGGAAAAAGAAAGAT 59.718 41.667 15.13 0.00 37.23 2.40
282 297 5.225642 GGTTCAGCTGGAAAAAGAAAGATG 58.774 41.667 15.13 0.00 37.23 2.90
283 298 5.010012 GGTTCAGCTGGAAAAAGAAAGATGA 59.990 40.000 15.13 0.00 37.23 2.92
284 299 6.461509 GGTTCAGCTGGAAAAAGAAAGATGAA 60.462 38.462 15.13 0.00 41.34 2.57
287 302 7.729116 TCAGCTGGAAAAAGAAAGATGAAAAT 58.271 30.769 15.13 0.00 32.53 1.82
288 303 7.654520 TCAGCTGGAAAAAGAAAGATGAAAATG 59.345 33.333 15.13 0.00 32.53 2.32
289 304 7.440255 CAGCTGGAAAAAGAAAGATGAAAATGT 59.560 33.333 5.57 0.00 0.00 2.71
290 305 7.440255 AGCTGGAAAAAGAAAGATGAAAATGTG 59.560 33.333 0.00 0.00 0.00 3.21
291 306 7.439056 GCTGGAAAAAGAAAGATGAAAATGTGA 59.561 33.333 0.00 0.00 0.00 3.58
292 307 9.316730 CTGGAAAAAGAAAGATGAAAATGTGAA 57.683 29.630 0.00 0.00 0.00 3.18
321 337 2.170012 AAATCAGCGTAGAGGGGGTA 57.830 50.000 0.00 0.00 0.00 3.69
322 338 2.170012 AATCAGCGTAGAGGGGGTAA 57.830 50.000 0.00 0.00 0.00 2.85
326 342 0.263765 AGCGTAGAGGGGGTAATGGA 59.736 55.000 0.00 0.00 0.00 3.41
329 345 1.692519 CGTAGAGGGGGTAATGGAAGG 59.307 57.143 0.00 0.00 0.00 3.46
335 351 0.106669 GGGGTAATGGAAGGTGAGGC 60.107 60.000 0.00 0.00 0.00 4.70
336 352 0.623723 GGGTAATGGAAGGTGAGGCA 59.376 55.000 0.00 0.00 0.00 4.75
358 374 5.581874 GCAAAATTAAACTGATGGGATGTGG 59.418 40.000 0.00 0.00 0.00 4.17
359 375 5.343307 AAATTAAACTGATGGGATGTGGC 57.657 39.130 0.00 0.00 0.00 5.01
367 383 2.170166 GATGGGATGTGGCTTTTGTGA 58.830 47.619 0.00 0.00 0.00 3.58
375 391 1.205417 GTGGCTTTTGTGATGATGGGG 59.795 52.381 0.00 0.00 0.00 4.96
377 393 0.179129 GCTTTTGTGATGATGGGGCG 60.179 55.000 0.00 0.00 0.00 6.13
385 401 1.710244 TGATGATGGGGCGGGATTAAT 59.290 47.619 0.00 0.00 0.00 1.40
387 403 1.144691 TGATGGGGCGGGATTAATCA 58.855 50.000 17.07 0.00 0.00 2.57
390 406 1.074951 GGGGCGGGATTAATCAGGG 59.925 63.158 17.07 6.54 0.00 4.45
392 408 0.185175 GGGCGGGATTAATCAGGGTT 59.815 55.000 17.07 0.00 0.00 4.11
394 410 1.133915 GGCGGGATTAATCAGGGTTGA 60.134 52.381 17.07 0.00 37.81 3.18
395 411 2.222027 GCGGGATTAATCAGGGTTGAG 58.778 52.381 17.07 0.80 36.61 3.02
396 412 2.851195 CGGGATTAATCAGGGTTGAGG 58.149 52.381 17.07 0.00 36.61 3.86
397 413 2.438021 CGGGATTAATCAGGGTTGAGGA 59.562 50.000 17.07 0.00 36.61 3.71
398 414 3.495100 CGGGATTAATCAGGGTTGAGGAG 60.495 52.174 17.07 0.00 36.61 3.69
399 415 3.716872 GGGATTAATCAGGGTTGAGGAGA 59.283 47.826 17.07 0.00 36.61 3.71
400 416 4.445019 GGGATTAATCAGGGTTGAGGAGAC 60.445 50.000 17.07 0.00 36.61 3.36
401 417 4.164221 GGATTAATCAGGGTTGAGGAGACA 59.836 45.833 17.07 0.00 36.61 3.41
402 418 4.553330 TTAATCAGGGTTGAGGAGACAC 57.447 45.455 0.00 0.00 36.61 3.67
403 419 2.334006 ATCAGGGTTGAGGAGACACT 57.666 50.000 0.00 0.00 36.61 3.55
404 420 2.103153 TCAGGGTTGAGGAGACACTT 57.897 50.000 0.00 0.00 0.00 3.16
405 421 1.971357 TCAGGGTTGAGGAGACACTTC 59.029 52.381 0.00 0.00 0.00 3.01
406 422 1.002544 CAGGGTTGAGGAGACACTTCC 59.997 57.143 0.00 0.00 37.52 3.46
407 423 1.056660 GGGTTGAGGAGACACTTCCA 58.943 55.000 0.00 0.00 39.84 3.53
408 424 1.270893 GGGTTGAGGAGACACTTCCAC 60.271 57.143 0.00 0.00 39.84 4.02
409 425 1.270893 GGTTGAGGAGACACTTCCACC 60.271 57.143 0.00 0.00 39.84 4.61
465 481 6.618287 TGCATTCTGGTATTGTATTAGCAC 57.382 37.500 0.00 0.00 0.00 4.40
472 488 7.842982 TCTGGTATTGTATTAGCACACTGTAA 58.157 34.615 0.00 0.00 0.00 2.41
521 537 9.739276 TCAGTATTTGAGGTGAAAGAAACATAT 57.261 29.630 0.00 0.00 0.00 1.78
522 538 9.994432 CAGTATTTGAGGTGAAAGAAACATATC 57.006 33.333 0.00 0.00 0.00 1.63
537 553 7.201145 AGAAACATATCGTGGTGTATGTACTC 58.799 38.462 0.00 0.00 39.83 2.59
539 555 2.486951 ATCGTGGTGTATGTACTCGC 57.513 50.000 0.00 0.00 0.00 5.03
545 561 1.600957 GGTGTATGTACTCGCGAGCTA 59.399 52.381 34.83 22.27 0.00 3.32
637 654 8.207545 AGTTTTTGTGGCAAACTTTATGGAATA 58.792 29.630 0.00 0.00 40.83 1.75
641 658 8.545229 TTGTGGCAAACTTTATGGAATATTTG 57.455 30.769 0.00 0.00 0.00 2.32
642 659 7.901029 TGTGGCAAACTTTATGGAATATTTGA 58.099 30.769 0.00 0.00 30.44 2.69
654 671 5.851720 TGGAATATTTGAAGTGCTTGCAAA 58.148 33.333 0.00 0.00 36.15 3.68
710 727 7.246674 GTGGAACAATAAAATCGATGCTCTA 57.753 36.000 0.00 0.00 44.16 2.43
731 748 8.321005 GCTCTAAAAATGATATTTTTGAACGCC 58.679 33.333 17.78 3.49 34.98 5.68
794 811 6.778108 TCATCAATGTGATTTCATGACGAAG 58.222 36.000 0.00 0.00 34.28 3.79
798 815 8.729756 ATCAATGTGATTTCATGACGAAGTTTA 58.270 29.630 0.00 0.00 34.86 2.01
832 849 5.236263 CCAAACATTCCTTAAAGTTTGCCAC 59.764 40.000 11.46 0.00 45.65 5.01
838 855 7.555914 ACATTCCTTAAAGTTTGCCACAAAAAT 59.444 29.630 0.00 0.00 0.00 1.82
840 857 9.791801 ATTCCTTAAAGTTTGCCACAAAAATAT 57.208 25.926 0.00 0.00 0.00 1.28
888 930 7.728580 TTTTACTGTTGACATTTTCGTTGAC 57.271 32.000 0.00 0.00 0.00 3.18
1053 1096 2.610859 AACCCGCCAGTCCTCCAT 60.611 61.111 0.00 0.00 0.00 3.41
1066 1109 1.004758 CTCCATCCCTCCCCCTTCA 59.995 63.158 0.00 0.00 0.00 3.02
1074 1117 3.920093 CTCCCCCTTCAACCACCGC 62.920 68.421 0.00 0.00 0.00 5.68
1325 1389 4.517703 CCGCGTCGACTCCGTCTC 62.518 72.222 14.70 0.00 37.05 3.36
1326 1390 4.517703 CGCGTCGACTCCGTCTCC 62.518 72.222 14.70 0.00 37.05 3.71
1327 1391 4.517703 GCGTCGACTCCGTCTCCG 62.518 72.222 14.70 0.00 37.05 4.63
1328 1392 4.517703 CGTCGACTCCGTCTCCGC 62.518 72.222 14.70 0.00 37.05 5.54
1329 1393 4.176851 GTCGACTCCGTCTCCGCC 62.177 72.222 8.70 0.00 37.05 6.13
1330 1394 4.405671 TCGACTCCGTCTCCGCCT 62.406 66.667 0.00 0.00 37.05 5.52
1331 1395 3.441290 CGACTCCGTCTCCGCCTT 61.441 66.667 0.00 0.00 0.00 4.35
1332 1396 2.490685 GACTCCGTCTCCGCCTTC 59.509 66.667 0.00 0.00 0.00 3.46
1333 1397 3.398353 GACTCCGTCTCCGCCTTCG 62.398 68.421 0.00 0.00 0.00 3.79
1334 1398 4.856607 CTCCGTCTCCGCCTTCGC 62.857 72.222 0.00 0.00 0.00 4.70
1337 1401 4.735132 CGTCTCCGCCTTCGCCAA 62.735 66.667 0.00 0.00 0.00 4.52
1338 1402 3.119096 GTCTCCGCCTTCGCCAAC 61.119 66.667 0.00 0.00 0.00 3.77
1339 1403 4.388499 TCTCCGCCTTCGCCAACC 62.388 66.667 0.00 0.00 0.00 3.77
1352 1416 4.025401 CAACCGCCACGCCTTCAC 62.025 66.667 0.00 0.00 0.00 3.18
1860 1924 3.486383 CAACAACACCAAGTACCAGGAT 58.514 45.455 8.10 0.00 0.00 3.24
1884 1948 2.363018 CGAGAGCTCCTCACCCCA 60.363 66.667 10.93 0.00 42.06 4.96
1899 1963 2.660802 CCAAAGGTCGGCTACGGT 59.339 61.111 0.00 0.00 41.39 4.83
2452 2516 5.161135 AGGATGAGGATGGTTATCTGTGAT 58.839 41.667 0.00 0.00 33.68 3.06
2489 2553 4.499696 GGCAGGTAACAATTGGATATGTGC 60.500 45.833 10.83 13.51 41.41 4.57
2497 2561 4.752604 ACAATTGGATATGTGCGCGTATTA 59.247 37.500 13.08 0.00 0.00 0.98
2510 2574 3.538392 GCGCGTATTACTTTTGCTTTCAG 59.462 43.478 8.43 0.00 0.00 3.02
2532 2596 3.777087 TGGATATACCATGCCCAATTGG 58.223 45.455 18.21 18.21 44.64 3.16
2546 2616 4.646572 CCCAATTGGCTCTCTAGATAACC 58.353 47.826 19.75 0.00 0.00 2.85
2575 2645 7.563924 TGTAGGGTTAGTAGCAAGATATTGAGT 59.436 37.037 3.77 0.00 0.00 3.41
2600 2670 1.081641 CGCAGTTTGCTTCAGCCTG 60.082 57.895 0.00 0.00 42.25 4.85
2603 2673 1.068954 GCAGTTTGCTTCAGCCTGTAC 60.069 52.381 0.00 0.00 40.96 2.90
2604 2674 1.537202 CAGTTTGCTTCAGCCTGTACC 59.463 52.381 0.00 0.00 41.18 3.34
2608 2678 1.639722 TGCTTCAGCCTGTACCTACA 58.360 50.000 0.00 0.00 41.18 2.74
2618 2688 2.681848 CCTGTACCTACACCTGTACGAG 59.318 54.545 0.00 0.00 40.12 4.18
2630 2716 2.159099 CCTGTACGAGGTGCACATATGT 60.159 50.000 20.43 15.92 37.02 2.29
2665 2751 7.587037 TCCTTTTCATTTTTCAGACTCATGT 57.413 32.000 0.00 0.00 0.00 3.21
2667 2753 9.130661 TCCTTTTCATTTTTCAGACTCATGTTA 57.869 29.630 0.00 0.00 0.00 2.41
2680 2766 6.090763 CAGACTCATGTTATCTGCGTTGTTAA 59.909 38.462 9.57 0.00 33.93 2.01
2681 2767 6.818644 AGACTCATGTTATCTGCGTTGTTAAT 59.181 34.615 0.00 0.00 0.00 1.40
2693 2779 7.905126 TCTGCGTTGTTAATATACAGTGATTG 58.095 34.615 0.00 0.00 0.00 2.67
2694 2780 6.482835 TGCGTTGTTAATATACAGTGATTGC 58.517 36.000 0.00 0.00 0.00 3.56
2695 2781 6.092807 TGCGTTGTTAATATACAGTGATTGCA 59.907 34.615 0.00 0.00 0.00 4.08
2712 2861 1.675483 TGCACTGGTTCATCACAACAC 59.325 47.619 0.00 0.00 0.00 3.32
2714 2863 2.575532 CACTGGTTCATCACAACACCT 58.424 47.619 0.00 0.00 0.00 4.00
2746 2925 2.286365 GGACCAACAATTCAGTCCCA 57.714 50.000 0.00 0.00 42.49 4.37
2751 2930 1.270550 CAACAATTCAGTCCCACTGCC 59.729 52.381 0.00 0.00 45.54 4.85
2755 2934 0.706433 ATTCAGTCCCACTGCCCAAT 59.294 50.000 0.00 0.00 45.54 3.16
2758 2937 1.133199 TCAGTCCCACTGCCCAATTTT 60.133 47.619 0.00 0.00 45.54 1.82
2811 2990 0.610174 CTAGGCAGCAGGTTCTGTGA 59.390 55.000 0.00 0.00 36.49 3.58
2816 2995 3.426568 GCAGGTTCTGTGAGGCGC 61.427 66.667 0.00 0.00 33.43 6.53
2817 2996 2.743928 CAGGTTCTGTGAGGCGCC 60.744 66.667 21.89 21.89 0.00 6.53
2823 3002 4.463879 CTGTGAGGCGCCAGGAGG 62.464 72.222 31.54 11.83 38.23 4.30
2841 3020 1.817209 GGAAGTCTCCCTACCGCAG 59.183 63.158 0.00 0.00 35.42 5.18
2877 3056 5.124297 TCAACAAGACAATATCACTGGCATG 59.876 40.000 0.00 0.00 0.00 4.06
2886 3065 0.250858 TCACTGGCATGTGTCCTTGG 60.251 55.000 14.00 0.00 38.90 3.61
2895 3074 2.746279 TGTGTCCTTGGGTTCATGTT 57.254 45.000 0.00 0.00 0.00 2.71
2900 3079 5.242838 TGTGTCCTTGGGTTCATGTTATTTC 59.757 40.000 0.00 0.00 0.00 2.17
2910 3089 7.667635 TGGGTTCATGTTATTTCTACATCACAA 59.332 33.333 0.00 0.00 34.11 3.33
2915 3094 8.615211 TCATGTTATTTCTACATCACAATCTGC 58.385 33.333 0.00 0.00 34.11 4.26
2925 3104 1.980765 TCACAATCTGCCTCCTGAACT 59.019 47.619 0.00 0.00 0.00 3.01
2936 3115 2.027100 CCTCCTGAACTAACTTCACCCC 60.027 54.545 0.00 0.00 33.65 4.95
2962 3141 2.156917 TGATTGCTTTCCTCAGTGCTG 58.843 47.619 0.00 0.00 0.00 4.41
2970 3149 1.674651 CCTCAGTGCTGTGCTGCAT 60.675 57.895 5.27 0.00 45.23 3.96
2987 3166 4.095483 GCTGCATGCAACTAGTCAGTAATT 59.905 41.667 22.88 0.00 42.31 1.40
3046 3234 7.334171 CCACTTCAATTTTTCCTGTTTTGTCTT 59.666 33.333 0.00 0.00 0.00 3.01
3047 3235 8.382875 CACTTCAATTTTTCCTGTTTTGTCTTC 58.617 33.333 0.00 0.00 0.00 2.87
3050 3238 9.447157 TTCAATTTTTCCTGTTTTGTCTTCAAT 57.553 25.926 0.00 0.00 33.32 2.57
3054 3242 8.647143 TTTTTCCTGTTTTGTCTTCAATGATC 57.353 30.769 0.00 0.00 33.32 2.92
3119 3308 5.939883 TCTTCAGTTGGTATCCATTTGTCTG 59.060 40.000 0.00 0.00 31.53 3.51
3129 3318 4.846779 TCCATTTGTCTGGCAAGTAAAC 57.153 40.909 0.00 0.00 38.47 2.01
3151 3340 4.909695 ACAGTACCTGTAACTTAACCCCTT 59.090 41.667 0.00 0.00 43.46 3.95
3165 3354 8.333226 ACTTAACCCCTTGCTAATCTACTAAT 57.667 34.615 0.00 0.00 0.00 1.73
3193 3382 8.250332 TGAAATATCATAGTTCCTTTTTGCCAC 58.750 33.333 2.47 0.00 32.20 5.01
3224 3413 2.744202 GTCACCTCCATAAGCAACACTG 59.256 50.000 0.00 0.00 0.00 3.66
3227 3416 2.639839 ACCTCCATAAGCAACACTGTCT 59.360 45.455 0.00 0.00 0.00 3.41
3256 3445 6.017109 CACCATATTCATAAAAACCCTCCTCG 60.017 42.308 0.00 0.00 0.00 4.63
3277 3466 4.637091 TCGATGTTCATCATGTCAGCATTT 59.363 37.500 12.34 0.00 36.83 2.32
3283 3472 5.970317 TCATCATGTCAGCATTTTTCAGT 57.030 34.783 0.00 0.00 31.99 3.41
3293 3482 7.283127 TGTCAGCATTTTTCAGTCTCTAAAAGT 59.717 33.333 0.00 0.00 0.00 2.66
3302 3491 7.447374 TTCAGTCTCTAAAAGTCTCTCTCTG 57.553 40.000 0.00 0.00 0.00 3.35
3308 3497 5.777802 TCTAAAAGTCTCTCTCTGCAGTTG 58.222 41.667 14.67 8.33 0.00 3.16
3313 3502 3.255642 AGTCTCTCTCTGCAGTTGTTCTC 59.744 47.826 14.67 1.64 0.00 2.87
3336 3525 2.648059 ACCAATGTCATCTGCTAAGCC 58.352 47.619 0.00 0.00 0.00 4.35
3341 3530 5.303165 CAATGTCATCTGCTAAGCCATCTA 58.697 41.667 0.00 0.00 0.00 1.98
3359 3548 5.584649 CCATCTACTACTTTTCCGCAATTGA 59.415 40.000 10.34 0.00 0.00 2.57
3381 3570 7.429374 TGATCTCCTTGATTTCTGTGACTAT 57.571 36.000 0.00 0.00 35.14 2.12
3415 3604 5.587844 CCAATACTCTGTAGCTTTGCAGAAT 59.412 40.000 13.70 8.56 40.68 2.40
3429 3618 4.085357 TGCAGAATTATTATGCGAGGGT 57.915 40.909 17.83 0.00 42.92 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.223711 CGGTTGAGGTGGTTTTTGAAGG 60.224 50.000 0.00 0.00 0.00 3.46
1 2 2.685897 TCGGTTGAGGTGGTTTTTGAAG 59.314 45.455 0.00 0.00 0.00 3.02
2 3 2.724454 TCGGTTGAGGTGGTTTTTGAA 58.276 42.857 0.00 0.00 0.00 2.69
3 4 2.421751 TCGGTTGAGGTGGTTTTTGA 57.578 45.000 0.00 0.00 0.00 2.69
4 5 2.164624 TGTTCGGTTGAGGTGGTTTTTG 59.835 45.455 0.00 0.00 0.00 2.44
5 6 2.448453 TGTTCGGTTGAGGTGGTTTTT 58.552 42.857 0.00 0.00 0.00 1.94
6 7 2.131776 TGTTCGGTTGAGGTGGTTTT 57.868 45.000 0.00 0.00 0.00 2.43
7 8 2.021457 CTTGTTCGGTTGAGGTGGTTT 58.979 47.619 0.00 0.00 0.00 3.27
8 9 1.675552 CTTGTTCGGTTGAGGTGGTT 58.324 50.000 0.00 0.00 0.00 3.67
9 10 0.179029 CCTTGTTCGGTTGAGGTGGT 60.179 55.000 0.00 0.00 0.00 4.16
10 11 1.515521 GCCTTGTTCGGTTGAGGTGG 61.516 60.000 0.00 0.00 0.00 4.61
11 12 1.515521 GGCCTTGTTCGGTTGAGGTG 61.516 60.000 0.00 0.00 0.00 4.00
12 13 1.228154 GGCCTTGTTCGGTTGAGGT 60.228 57.895 0.00 0.00 0.00 3.85
13 14 1.073199 AGGCCTTGTTCGGTTGAGG 59.927 57.895 0.00 0.00 0.00 3.86
14 15 0.250295 TCAGGCCTTGTTCGGTTGAG 60.250 55.000 0.00 0.00 0.00 3.02
15 16 0.181587 TTCAGGCCTTGTTCGGTTGA 59.818 50.000 0.00 0.00 0.00 3.18
16 17 0.593128 CTTCAGGCCTTGTTCGGTTG 59.407 55.000 0.00 0.00 0.00 3.77
17 18 0.537371 CCTTCAGGCCTTGTTCGGTT 60.537 55.000 0.00 0.00 0.00 4.44
18 19 1.073199 CCTTCAGGCCTTGTTCGGT 59.927 57.895 0.00 0.00 0.00 4.69
19 20 0.674895 CTCCTTCAGGCCTTGTTCGG 60.675 60.000 0.00 0.00 34.44 4.30
20 21 0.321671 TCTCCTTCAGGCCTTGTTCG 59.678 55.000 0.00 0.00 34.44 3.95
21 22 2.026822 TGATCTCCTTCAGGCCTTGTTC 60.027 50.000 0.00 0.00 34.44 3.18
22 23 1.988107 TGATCTCCTTCAGGCCTTGTT 59.012 47.619 0.00 0.00 34.44 2.83
23 24 1.661463 TGATCTCCTTCAGGCCTTGT 58.339 50.000 0.00 0.00 34.44 3.16
24 25 2.092538 ACATGATCTCCTTCAGGCCTTG 60.093 50.000 0.00 0.00 30.75 3.61
25 26 2.092538 CACATGATCTCCTTCAGGCCTT 60.093 50.000 0.00 0.00 30.75 4.35
26 27 1.489649 CACATGATCTCCTTCAGGCCT 59.510 52.381 0.00 0.00 30.75 5.19
27 28 1.211457 ACACATGATCTCCTTCAGGCC 59.789 52.381 0.00 0.00 30.75 5.19
28 29 2.706339 ACACATGATCTCCTTCAGGC 57.294 50.000 0.00 0.00 30.75 4.85
29 30 3.711086 CGTACACATGATCTCCTTCAGG 58.289 50.000 0.00 0.00 33.76 3.86
30 31 3.119291 GCGTACACATGATCTCCTTCAG 58.881 50.000 0.00 0.00 0.00 3.02
31 32 2.159099 GGCGTACACATGATCTCCTTCA 60.159 50.000 0.00 0.00 0.00 3.02
32 33 2.474816 GGCGTACACATGATCTCCTTC 58.525 52.381 0.00 0.00 0.00 3.46
33 34 1.139058 GGGCGTACACATGATCTCCTT 59.861 52.381 0.00 0.00 0.00 3.36
34 35 0.753262 GGGCGTACACATGATCTCCT 59.247 55.000 0.00 0.00 0.00 3.69
35 36 0.597637 CGGGCGTACACATGATCTCC 60.598 60.000 0.00 0.00 0.00 3.71
36 37 1.215655 GCGGGCGTACACATGATCTC 61.216 60.000 0.00 0.00 0.00 2.75
53 54 1.216178 CCCATTGCCTTTCCAAGCG 59.784 57.895 0.00 0.00 0.00 4.68
63 64 3.451902 TGGATTTCTTTGATCCCATTGCC 59.548 43.478 1.03 0.00 41.97 4.52
108 109 3.258123 GCGGGCATGGGTATCAAATTATT 59.742 43.478 0.00 0.00 0.00 1.40
119 120 1.606885 CTTTTGATGCGGGCATGGGT 61.607 55.000 11.44 0.00 36.70 4.51
121 122 0.179129 GTCTTTTGATGCGGGCATGG 60.179 55.000 11.44 0.00 36.70 3.66
122 123 0.527113 TGTCTTTTGATGCGGGCATG 59.473 50.000 11.44 0.00 36.70 4.06
124 125 1.035923 TTTGTCTTTTGATGCGGGCA 58.964 45.000 0.00 0.00 0.00 5.36
133 148 4.278858 TCGTTGATCGCTTTTGTCTTTTG 58.721 39.130 0.00 0.00 39.67 2.44
134 149 4.545823 TCGTTGATCGCTTTTGTCTTTT 57.454 36.364 0.00 0.00 39.67 2.27
143 158 3.535561 AGATGGATTTCGTTGATCGCTT 58.464 40.909 0.00 0.00 39.67 4.68
144 159 3.185246 AGATGGATTTCGTTGATCGCT 57.815 42.857 0.00 0.00 39.67 4.93
153 168 5.468072 CCCTTGTCTTGATAGATGGATTTCG 59.532 44.000 0.00 0.00 31.86 3.46
164 179 8.206867 CAGATCATAACTTCCCTTGTCTTGATA 58.793 37.037 0.00 0.00 0.00 2.15
210 225 6.709018 TTCTCAACCTTCCCTTTAAACAAG 57.291 37.500 0.00 0.00 0.00 3.16
218 233 4.576330 ATCGATTTCTCAACCTTCCCTT 57.424 40.909 0.00 0.00 0.00 3.95
251 266 1.153756 CCAGCTGAACCCCACCTTT 59.846 57.895 17.39 0.00 0.00 3.11
265 280 7.439056 TCACATTTTCATCTTTCTTTTTCCAGC 59.561 33.333 0.00 0.00 0.00 4.85
266 281 8.876275 TCACATTTTCATCTTTCTTTTTCCAG 57.124 30.769 0.00 0.00 0.00 3.86
275 290 9.480053 TTTCTCCATTTCACATTTTCATCTTTC 57.520 29.630 0.00 0.00 0.00 2.62
312 328 1.082194 TCACCTTCCATTACCCCCTCT 59.918 52.381 0.00 0.00 0.00 3.69
316 332 0.106669 GCCTCACCTTCCATTACCCC 60.107 60.000 0.00 0.00 0.00 4.95
321 337 6.043127 AGTTTAATTTTGCCTCACCTTCCATT 59.957 34.615 0.00 0.00 0.00 3.16
322 338 5.543790 AGTTTAATTTTGCCTCACCTTCCAT 59.456 36.000 0.00 0.00 0.00 3.41
326 342 6.458210 CATCAGTTTAATTTTGCCTCACCTT 58.542 36.000 0.00 0.00 0.00 3.50
329 345 5.047377 TCCCATCAGTTTAATTTTGCCTCAC 60.047 40.000 0.00 0.00 0.00 3.51
335 351 5.581874 GCCACATCCCATCAGTTTAATTTTG 59.418 40.000 0.00 0.00 0.00 2.44
336 352 5.484998 AGCCACATCCCATCAGTTTAATTTT 59.515 36.000 0.00 0.00 0.00 1.82
358 374 0.179129 CGCCCCATCATCACAAAAGC 60.179 55.000 0.00 0.00 0.00 3.51
359 375 0.457035 CCGCCCCATCATCACAAAAG 59.543 55.000 0.00 0.00 0.00 2.27
367 383 1.710244 TGATTAATCCCGCCCCATCAT 59.290 47.619 12.90 0.00 0.00 2.45
375 391 2.222027 CTCAACCCTGATTAATCCCGC 58.778 52.381 12.90 0.00 0.00 6.13
377 393 3.716872 TCTCCTCAACCCTGATTAATCCC 59.283 47.826 12.90 0.00 0.00 3.85
385 401 1.971357 GAAGTGTCTCCTCAACCCTGA 59.029 52.381 0.00 0.00 0.00 3.86
387 403 1.353091 GGAAGTGTCTCCTCAACCCT 58.647 55.000 0.00 0.00 32.21 4.34
390 406 1.694696 AGGTGGAAGTGTCTCCTCAAC 59.305 52.381 0.00 0.00 36.35 3.18
392 408 1.633774 GAGGTGGAAGTGTCTCCTCA 58.366 55.000 0.00 0.00 40.83 3.86
394 410 3.074788 GGAGGTGGAAGTGTCTCCT 57.925 57.895 0.00 0.00 41.76 3.69
395 411 0.899019 GAGGAGGTGGAAGTGTCTCC 59.101 60.000 0.00 0.00 44.46 3.71
396 412 1.931635 AGAGGAGGTGGAAGTGTCTC 58.068 55.000 0.00 0.00 0.00 3.36
397 413 2.407340 AAGAGGAGGTGGAAGTGTCT 57.593 50.000 0.00 0.00 0.00 3.41
398 414 4.195225 CTAAAGAGGAGGTGGAAGTGTC 57.805 50.000 0.00 0.00 0.00 3.67
438 454 8.136800 TGCTAATACAATACCAGAATGCATTTG 58.863 33.333 14.33 12.93 31.97 2.32
440 456 7.285172 TGTGCTAATACAATACCAGAATGCATT 59.715 33.333 12.83 12.83 31.97 3.56
447 463 6.294361 ACAGTGTGCTAATACAATACCAGA 57.706 37.500 0.00 0.00 31.36 3.86
511 527 7.553334 AGTACATACACCACGATATGTTTCTT 58.447 34.615 2.49 0.00 41.27 2.52
517 533 3.912563 GCGAGTACATACACCACGATATG 59.087 47.826 0.00 0.00 35.33 1.78
521 537 0.097499 CGCGAGTACATACACCACGA 59.903 55.000 0.00 0.00 0.00 4.35
522 538 0.097499 TCGCGAGTACATACACCACG 59.903 55.000 3.71 0.00 0.00 4.94
598 615 8.729805 TGCCACAAAAACTTCAGAATTTTATT 57.270 26.923 0.00 0.00 0.00 1.40
616 633 8.370940 TCAAATATTCCATAAAGTTTGCCACAA 58.629 29.630 0.00 0.00 31.48 3.33
637 654 5.177326 TGAAACTTTGCAAGCACTTCAAAT 58.823 33.333 0.00 0.00 0.00 2.32
641 658 4.362279 TGATGAAACTTTGCAAGCACTTC 58.638 39.130 0.00 2.77 0.00 3.01
642 659 4.389890 TGATGAAACTTTGCAAGCACTT 57.610 36.364 0.00 0.00 0.00 3.16
654 671 8.799367 TCATGAATGTGATTTCTTGATGAAACT 58.201 29.630 0.00 0.00 46.08 2.66
673 690 9.829507 TTTTATTGTTCCACAACTTTCATGAAT 57.170 25.926 9.40 0.00 41.40 2.57
680 697 7.116233 GCATCGATTTTATTGTTCCACAACTTT 59.884 33.333 0.00 0.00 41.40 2.66
710 727 9.662545 CAAAAGGCGTTCAAAAATATCATTTTT 57.337 25.926 4.23 4.23 30.31 1.94
758 775 1.464608 CATTGATGAAAGTCGTGGCGT 59.535 47.619 0.00 0.00 0.00 5.68
765 782 7.217636 CGTCATGAAATCACATTGATGAAAGTC 59.782 37.037 0.00 0.00 37.15 3.01
773 790 6.558771 AACTTCGTCATGAAATCACATTGA 57.441 33.333 0.00 0.00 35.79 2.57
794 811 5.462068 GGAATGTTTGGAGTGCTTGTTAAAC 59.538 40.000 0.00 0.00 0.00 2.01
798 815 3.299503 AGGAATGTTTGGAGTGCTTGTT 58.700 40.909 0.00 0.00 0.00 2.83
851 868 9.796120 TGTCAACAGTAAAATAAAAAGGTTCAG 57.204 29.630 0.00 0.00 0.00 3.02
863 880 7.165154 CGTCAACGAAAATGTCAACAGTAAAAT 59.835 33.333 0.00 0.00 43.02 1.82
868 887 3.242608 CCGTCAACGAAAATGTCAACAGT 60.243 43.478 3.71 0.00 43.02 3.55
869 888 3.288242 CCGTCAACGAAAATGTCAACAG 58.712 45.455 3.71 0.00 43.02 3.16
870 889 2.032302 CCCGTCAACGAAAATGTCAACA 59.968 45.455 3.71 0.00 43.02 3.33
871 890 2.288458 TCCCGTCAACGAAAATGTCAAC 59.712 45.455 3.71 0.00 43.02 3.18
872 891 2.288458 GTCCCGTCAACGAAAATGTCAA 59.712 45.455 3.71 0.00 43.02 3.18
1053 1096 1.850755 GTGGTTGAAGGGGGAGGGA 60.851 63.158 0.00 0.00 0.00 4.20
1335 1399 4.025401 GTGAAGGCGTGGCGGTTG 62.025 66.667 0.00 0.00 0.00 3.77
1503 1567 4.821589 GAGGTGGCCGCCTCGAAG 62.822 72.222 41.89 0.00 44.64 3.79
1869 1933 1.204113 CCTTTGGGGTGAGGAGCTCT 61.204 60.000 14.64 0.00 34.91 4.09
1884 1948 1.888736 GAGACCGTAGCCGACCTTT 59.111 57.895 0.00 0.00 35.63 3.11
1965 2029 2.556287 CGTTTGAGCGCTTGGTCC 59.444 61.111 13.26 0.00 39.39 4.46
2452 2516 3.637911 ACCTGCCAATCCGTGTAAATA 57.362 42.857 0.00 0.00 0.00 1.40
2489 2553 4.549599 CACTGAAAGCAAAAGTAATACGCG 59.450 41.667 3.53 3.53 37.60 6.01
2497 2561 6.245408 TGGTATATCCACTGAAAGCAAAAGT 58.755 36.000 0.00 0.00 41.93 2.66
2524 2588 4.103153 TGGTTATCTAGAGAGCCAATTGGG 59.897 45.833 25.73 7.43 40.85 4.12
2528 2592 4.965532 ACAGTGGTTATCTAGAGAGCCAAT 59.034 41.667 22.60 19.37 0.00 3.16
2530 2594 3.982516 ACAGTGGTTATCTAGAGAGCCA 58.017 45.455 17.91 17.91 0.00 4.75
2531 2595 4.521256 CCTACAGTGGTTATCTAGAGAGCC 59.479 50.000 12.92 12.92 0.00 4.70
2532 2596 4.521256 CCCTACAGTGGTTATCTAGAGAGC 59.479 50.000 0.00 0.00 0.00 4.09
2533 2597 5.697067 ACCCTACAGTGGTTATCTAGAGAG 58.303 45.833 0.00 0.00 29.75 3.20
2534 2598 5.728937 ACCCTACAGTGGTTATCTAGAGA 57.271 43.478 0.00 0.00 29.75 3.10
2546 2616 5.599999 ATCTTGCTACTAACCCTACAGTG 57.400 43.478 0.00 0.00 0.00 3.66
2562 2632 3.419915 CGTGCAACACTCAATATCTTGC 58.580 45.455 0.00 0.00 38.16 4.01
2618 2688 8.413229 AGGAATATTTGTTAACATATGTGCACC 58.587 33.333 15.69 15.33 0.00 5.01
2647 2733 7.413328 CGCAGATAACATGAGTCTGAAAAATGA 60.413 37.037 21.96 0.00 41.38 2.57
2663 2749 8.813282 CACTGTATATTAACAACGCAGATAACA 58.187 33.333 0.00 0.00 0.00 2.41
2664 2750 9.027129 TCACTGTATATTAACAACGCAGATAAC 57.973 33.333 0.00 0.00 0.00 1.89
2665 2751 9.758651 ATCACTGTATATTAACAACGCAGATAA 57.241 29.630 0.00 0.00 0.00 1.75
2667 2753 8.551205 CAATCACTGTATATTAACAACGCAGAT 58.449 33.333 0.00 0.00 0.00 2.90
2693 2779 1.001378 GGTGTTGTGATGAACCAGTGC 60.001 52.381 0.00 0.00 32.69 4.40
2694 2780 2.575532 AGGTGTTGTGATGAACCAGTG 58.424 47.619 0.00 0.00 35.01 3.66
2695 2781 3.297134 AAGGTGTTGTGATGAACCAGT 57.703 42.857 0.00 0.00 35.01 4.00
2705 2854 5.530915 TCCTAACATTCAGAAAGGTGTTGTG 59.469 40.000 9.88 4.42 36.34 3.33
2712 2861 5.070001 TGTTGGTCCTAACATTCAGAAAGG 58.930 41.667 3.58 0.00 35.75 3.11
2714 2863 7.286546 TGAATTGTTGGTCCTAACATTCAGAAA 59.713 33.333 16.61 3.62 40.00 2.52
2746 2925 1.130777 AGTTGGCAAAATTGGGCAGT 58.869 45.000 0.00 0.00 42.10 4.40
2755 2934 1.205893 GGTGTCACCAAGTTGGCAAAA 59.794 47.619 22.25 2.19 42.67 2.44
2758 2937 0.465460 GAGGTGTCACCAAGTTGGCA 60.465 55.000 24.02 9.17 42.67 4.92
2802 2981 2.743928 CTGGCGCCTCACAGAACC 60.744 66.667 29.70 0.00 36.86 3.62
2806 2985 4.463879 CCTCCTGGCGCCTCACAG 62.464 72.222 29.70 16.59 34.54 3.66
2823 3002 0.971447 ACTGCGGTAGGGAGACTTCC 60.971 60.000 0.00 0.00 43.23 3.46
2867 3046 0.250858 CCAAGGACACATGCCAGTGA 60.251 55.000 12.00 0.00 42.05 3.41
2877 3056 5.476945 AGAAATAACATGAACCCAAGGACAC 59.523 40.000 0.00 0.00 0.00 3.67
2886 3065 9.722056 GATTGTGATGTAGAAATAACATGAACC 57.278 33.333 0.00 0.00 37.69 3.62
2895 3074 6.100279 AGGAGGCAGATTGTGATGTAGAAATA 59.900 38.462 0.00 0.00 0.00 1.40
2900 3079 3.133542 TCAGGAGGCAGATTGTGATGTAG 59.866 47.826 0.00 0.00 0.00 2.74
2910 3089 3.840666 TGAAGTTAGTTCAGGAGGCAGAT 59.159 43.478 0.00 0.00 40.45 2.90
2914 3093 2.615747 GGGTGAAGTTAGTTCAGGAGGC 60.616 54.545 2.32 0.00 46.18 4.70
2915 3094 2.027100 GGGGTGAAGTTAGTTCAGGAGG 60.027 54.545 2.32 0.00 46.18 4.30
2925 3104 3.806949 ATCAAGCTTGGGGTGAAGTTA 57.193 42.857 25.73 3.07 0.00 2.24
2970 3149 8.531982 AGATACTGAAATTACTGACTAGTTGCA 58.468 33.333 0.00 0.00 38.36 4.08
2987 3166 5.618056 ACGAGTAAACGACAGATACTGAA 57.382 39.130 5.76 0.00 34.67 3.02
3054 3242 8.896744 TGCTCTCTTTATAAAGGTGAATGAATG 58.103 33.333 22.11 10.52 36.67 2.67
3061 3249 7.712639 GTGATGATGCTCTCTTTATAAAGGTGA 59.287 37.037 22.11 18.44 36.67 4.02
3107 3296 4.832266 TGTTTACTTGCCAGACAAATGGAT 59.168 37.500 0.00 0.00 43.57 3.41
3165 3354 9.651913 GGCAAAAAGGAACTATGATATTTCAAA 57.348 29.630 5.16 0.00 38.49 2.69
3174 3363 4.522789 GGAAGTGGCAAAAAGGAACTATGA 59.477 41.667 0.00 0.00 38.49 2.15
3177 3366 3.904717 TGGAAGTGGCAAAAAGGAACTA 58.095 40.909 0.00 0.00 38.49 2.24
3180 3369 3.575805 AGATGGAAGTGGCAAAAAGGAA 58.424 40.909 0.00 0.00 0.00 3.36
3193 3382 3.641434 ATGGAGGTGACAAGATGGAAG 57.359 47.619 0.00 0.00 0.00 3.46
3224 3413 7.973944 GGGTTTTTATGAATATGGTGAACAGAC 59.026 37.037 0.00 0.00 0.00 3.51
3227 3416 7.123547 GGAGGGTTTTTATGAATATGGTGAACA 59.876 37.037 0.00 0.00 0.00 3.18
3256 3445 6.809689 TGAAAAATGCTGACATGATGAACATC 59.190 34.615 0.00 7.73 37.07 3.06
3277 3466 7.523052 GCAGAGAGAGACTTTTAGAGACTGAAA 60.523 40.741 0.00 0.00 30.39 2.69
3283 3472 5.321102 ACTGCAGAGAGAGACTTTTAGAGA 58.679 41.667 23.35 0.00 0.00 3.10
3293 3482 2.227626 CGAGAACAACTGCAGAGAGAGA 59.772 50.000 23.35 0.00 0.00 3.10
3302 3491 2.290641 ACATTGGTTCGAGAACAACTGC 59.709 45.455 16.56 1.17 42.85 4.40
3308 3497 3.181516 GCAGATGACATTGGTTCGAGAAC 60.182 47.826 7.40 7.40 40.45 3.01
3313 3502 3.242543 GCTTAGCAGATGACATTGGTTCG 60.243 47.826 0.00 0.00 0.00 3.95
3336 3525 6.662414 TCAATTGCGGAAAAGTAGTAGATG 57.338 37.500 0.00 0.00 0.00 2.90
3341 3530 4.636206 GGAGATCAATTGCGGAAAAGTAGT 59.364 41.667 0.00 0.00 0.00 2.73
3381 3570 9.627123 AAGCTACAGAGTATTGGCAATATAAAA 57.373 29.630 21.82 0.00 0.00 1.52
3415 3604 3.389983 ACAGCCTTACCCTCGCATAATAA 59.610 43.478 0.00 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.