Multiple sequence alignment - TraesCS5A01G074200

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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 TraesCS5A01G074200 chr5A 100.000 3578 0 0 1 3578 87418775 87415198 0.000000e+00 6608
1 TraesCS5A01G074200 chr5D 94.632 3148 114 16 462 3576 93863481 93860356 0.000000e+00 4826
2 TraesCS5A01G074200 chr5D 96.875 128 4 0 74 201 93864044 93863917 7.780000e-52 215
3 TraesCS5A01G074200 chr5B 96.431 1681 48 2 988 2657 98846279 98844600 0.000000e+00 2761
4 TraesCS5A01G074200 chr5B 84.101 1736 239 17 935 2659 5067291 5065582 0.000000e+00 1642
5 TraesCS5A01G074200 chr5B 84.808 1560 231 4 1013 2566 5072940 5071381 0.000000e+00 1563
6 TraesCS5A01G074200 chr5B 90.856 514 27 9 493 991 98849089 98848581 0.000000e+00 671
7 TraesCS5A01G074200 chr5B 94.845 97 5 0 3480 3576 536480815 536480911 6.190000e-33 152
8 TraesCS5A01G074200 chr7A 84.803 1599 230 3 972 2566 700338096 700339685 0.000000e+00 1594
9 TraesCS5A01G074200 chr7A 84.740 1599 231 3 972 2566 700300278 700301867 0.000000e+00 1589
10 TraesCS5A01G074200 chr7D 85.178 1545 216 3 973 2513 610421531 610419996 0.000000e+00 1572
11 TraesCS5A01G074200 chr7D 81.646 158 24 3 2988 3141 514989075 514989231 3.750000e-25 126
12 TraesCS5A01G074200 chr7B 84.675 1553 227 4 993 2544 698682805 698684347 0.000000e+00 1539
13 TraesCS5A01G074200 chr7B 98.485 66 1 0 1 66 641091298 641091233 2.260000e-22 117
14 TraesCS5A01G074200 chrUn 83.760 1601 231 14 972 2566 77521390 77522967 0.000000e+00 1489
15 TraesCS5A01G074200 chrUn 89.344 366 28 3 3139 3493 287847625 287847260 1.960000e-122 449
16 TraesCS5A01G074200 chrUn 89.344 366 28 3 3139 3493 295169057 295168692 1.960000e-122 449
17 TraesCS5A01G074200 chrUn 89.344 366 28 3 3139 3493 347971746 347971381 1.960000e-122 449
18 TraesCS5A01G074200 chrUn 97.059 68 2 0 1 68 11822451 11822384 8.120000e-22 115
19 TraesCS5A01G074200 chrUn 97.059 68 2 0 1 68 11858558 11858491 8.120000e-22 115
20 TraesCS5A01G074200 chr2D 95.134 411 19 1 3162 3571 30404970 30404560 0.000000e+00 647
21 TraesCS5A01G074200 chr3B 92.262 336 25 1 3159 3493 225178391 225178726 3.230000e-130 475
22 TraesCS5A01G074200 chr1A 89.488 371 29 2 3133 3493 242688200 242688570 9.050000e-126 460
23 TraesCS5A01G074200 chr6B 89.826 344 32 3 3159 3501 275295186 275294845 4.240000e-119 438
24 TraesCS5A01G074200 chr2A 89.826 344 32 3 3159 3501 100234899 100234558 4.240000e-119 438
25 TraesCS5A01G074200 chr2A 94.667 75 2 2 1 73 660023586 660023512 8.120000e-22 115
26 TraesCS5A01G074200 chr6A 98.507 67 1 0 1 67 102118127 102118061 6.280000e-23 119
27 TraesCS5A01G074200 chr4A 98.462 65 1 0 1 65 741781026 741780962 8.120000e-22 115
28 TraesCS5A01G074200 chr2B 98.462 65 1 0 1 65 25688503 25688567 8.120000e-22 115
29 TraesCS5A01G074200 chr2B 98.462 65 1 0 1 65 733460715 733460651 8.120000e-22 115
30 TraesCS5A01G074200 chr3A 97.015 67 2 0 1 67 457922064 457921998 2.920000e-21 113


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 TraesCS5A01G074200 chr5A 87415198 87418775 3577 True 6608.0 6608 100.0000 1 3578 1 chr5A.!!$R1 3577
1 TraesCS5A01G074200 chr5D 93860356 93864044 3688 True 2520.5 4826 95.7535 74 3576 2 chr5D.!!$R1 3502
2 TraesCS5A01G074200 chr5B 98844600 98849089 4489 True 1716.0 2761 93.6435 493 2657 2 chr5B.!!$R3 2164
3 TraesCS5A01G074200 chr5B 5065582 5067291 1709 True 1642.0 1642 84.1010 935 2659 1 chr5B.!!$R1 1724
4 TraesCS5A01G074200 chr5B 5071381 5072940 1559 True 1563.0 1563 84.8080 1013 2566 1 chr5B.!!$R2 1553
5 TraesCS5A01G074200 chr7A 700338096 700339685 1589 False 1594.0 1594 84.8030 972 2566 1 chr7A.!!$F2 1594
6 TraesCS5A01G074200 chr7A 700300278 700301867 1589 False 1589.0 1589 84.7400 972 2566 1 chr7A.!!$F1 1594
7 TraesCS5A01G074200 chr7D 610419996 610421531 1535 True 1572.0 1572 85.1780 973 2513 1 chr7D.!!$R1 1540
8 TraesCS5A01G074200 chr7B 698682805 698684347 1542 False 1539.0 1539 84.6750 993 2544 1 chr7B.!!$F1 1551
9 TraesCS5A01G074200 chrUn 77521390 77522967 1577 False 1489.0 1489 83.7600 972 2566 1 chrUn.!!$F1 1594

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
311 424 0.106519 CCAACCTAGATGGGCTTGGG 60.107 60.0 6.63 0.0 42.91 4.12 F
482 658 0.328258 GAAAGCCAGGAAGGTAGCCA 59.672 55.0 0.00 0.0 40.61 4.75 F
483 659 0.329596 AAAGCCAGGAAGGTAGCCAG 59.670 55.0 0.00 0.0 40.61 4.85 F
2319 4818 0.389166 CTGACGTGGCAGAGAACCTC 60.389 60.0 0.00 0.0 38.14 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2032 4531 1.364626 CCAGAGAGCGTCACATTGGC 61.365 60.000 0.0 0.00 0.00 4.52 R
2358 4857 1.455217 GATGAGGCCTGCCAAGCAT 60.455 57.895 12.0 5.91 38.13 3.79 R
2485 4990 4.764308 GTCTTTCTCCTTGGCTTTCTTCAT 59.236 41.667 0.0 0.00 0.00 2.57 R
3432 6000 1.247567 GCTGGGAAAAACTGCTGCTA 58.752 50.000 0.0 0.00 0.00 3.49 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
25 26 1.934463 CCGAGATGGCCGAAATTCG 59.066 57.895 8.62 8.62 40.07 3.34
35 36 3.641031 CGAAATTCGGCCCAAATCC 57.359 52.632 7.61 0.00 36.00 3.01
36 37 0.814457 CGAAATTCGGCCCAAATCCA 59.186 50.000 7.61 0.00 36.00 3.41
37 38 1.469079 CGAAATTCGGCCCAAATCCAC 60.469 52.381 7.61 0.00 36.00 4.02
38 39 1.824852 GAAATTCGGCCCAAATCCACT 59.175 47.619 0.00 0.00 0.00 4.00
39 40 1.937191 AATTCGGCCCAAATCCACTT 58.063 45.000 0.00 0.00 0.00 3.16
40 41 1.937191 ATTCGGCCCAAATCCACTTT 58.063 45.000 0.00 0.00 0.00 2.66
41 42 1.710816 TTCGGCCCAAATCCACTTTT 58.289 45.000 0.00 0.00 0.00 2.27
42 43 1.710816 TCGGCCCAAATCCACTTTTT 58.289 45.000 0.00 0.00 0.00 1.94
43 44 1.342819 TCGGCCCAAATCCACTTTTTG 59.657 47.619 0.00 0.00 34.55 2.44
44 45 1.522668 GGCCCAAATCCACTTTTTGC 58.477 50.000 0.00 0.00 33.66 3.68
45 46 1.147473 GCCCAAATCCACTTTTTGCG 58.853 50.000 0.00 0.00 33.66 4.85
46 47 1.794512 CCCAAATCCACTTTTTGCGG 58.205 50.000 0.00 0.00 33.66 5.69
47 48 1.147473 CCAAATCCACTTTTTGCGGC 58.853 50.000 0.00 0.00 33.66 6.53
48 49 1.147473 CAAATCCACTTTTTGCGGCC 58.853 50.000 0.00 0.00 0.00 6.13
49 50 0.319469 AAATCCACTTTTTGCGGCCG 60.319 50.000 24.05 24.05 0.00 6.13
50 51 1.175983 AATCCACTTTTTGCGGCCGA 61.176 50.000 33.48 11.82 0.00 5.54
51 52 1.175983 ATCCACTTTTTGCGGCCGAA 61.176 50.000 33.48 19.06 0.00 4.30
52 53 1.066587 CCACTTTTTGCGGCCGAAA 59.933 52.632 33.48 25.41 0.00 3.46
53 54 0.528684 CCACTTTTTGCGGCCGAAAA 60.529 50.000 33.48 30.41 34.13 2.29
54 55 1.496934 CACTTTTTGCGGCCGAAAAT 58.503 45.000 31.40 14.84 34.63 1.82
55 56 1.455408 CACTTTTTGCGGCCGAAAATC 59.545 47.619 31.40 12.64 34.63 2.17
56 57 1.067821 ACTTTTTGCGGCCGAAAATCA 59.932 42.857 31.40 19.65 34.63 2.57
57 58 2.131183 CTTTTTGCGGCCGAAAATCAA 58.869 42.857 31.40 21.75 34.63 2.57
58 59 2.225068 TTTTGCGGCCGAAAATCAAA 57.775 40.000 31.40 24.80 0.00 2.69
59 60 2.225068 TTTGCGGCCGAAAATCAAAA 57.775 40.000 33.48 5.17 0.00 2.44
60 61 1.492720 TTGCGGCCGAAAATCAAAAC 58.507 45.000 33.48 7.30 0.00 2.43
61 62 0.385751 TGCGGCCGAAAATCAAAACA 59.614 45.000 33.48 10.37 0.00 2.83
62 63 0.781787 GCGGCCGAAAATCAAAACAC 59.218 50.000 33.48 1.16 0.00 3.32
63 64 1.866063 GCGGCCGAAAATCAAAACACA 60.866 47.619 33.48 0.00 0.00 3.72
64 65 2.050691 CGGCCGAAAATCAAAACACAG 58.949 47.619 24.07 0.00 0.00 3.66
65 66 2.403259 GGCCGAAAATCAAAACACAGG 58.597 47.619 0.00 0.00 0.00 4.00
66 67 2.223947 GGCCGAAAATCAAAACACAGGT 60.224 45.455 0.00 0.00 0.00 4.00
67 68 3.004944 GGCCGAAAATCAAAACACAGGTA 59.995 43.478 0.00 0.00 0.00 3.08
68 69 4.500035 GGCCGAAAATCAAAACACAGGTAA 60.500 41.667 0.00 0.00 0.00 2.85
69 70 5.044558 GCCGAAAATCAAAACACAGGTAAA 58.955 37.500 0.00 0.00 0.00 2.01
70 71 5.174943 GCCGAAAATCAAAACACAGGTAAAG 59.825 40.000 0.00 0.00 0.00 1.85
71 72 6.500041 CCGAAAATCAAAACACAGGTAAAGA 58.500 36.000 0.00 0.00 0.00 2.52
72 73 6.416750 CCGAAAATCAAAACACAGGTAAAGAC 59.583 38.462 0.00 0.00 0.00 3.01
73 74 7.193595 CGAAAATCAAAACACAGGTAAAGACT 58.806 34.615 0.00 0.00 0.00 3.24
74 75 8.339714 CGAAAATCAAAACACAGGTAAAGACTA 58.660 33.333 0.00 0.00 0.00 2.59
75 76 9.447040 GAAAATCAAAACACAGGTAAAGACTAC 57.553 33.333 0.00 0.00 0.00 2.73
76 77 8.747538 AAATCAAAACACAGGTAAAGACTACT 57.252 30.769 0.00 0.00 0.00 2.57
77 78 9.841295 AAATCAAAACACAGGTAAAGACTACTA 57.159 29.630 0.00 0.00 0.00 1.82
139 140 4.802307 TCTGATAGCTCATCTTCTCCTGT 58.198 43.478 0.00 0.00 34.46 4.00
191 192 5.615289 AGTGCTCAAGTCAAGTAAATCACT 58.385 37.500 0.00 0.00 40.05 3.41
201 202 5.178809 GTCAAGTAAATCACTACACCACACC 59.821 44.000 0.00 0.00 36.04 4.16
202 203 5.071250 TCAAGTAAATCACTACACCACACCT 59.929 40.000 0.00 0.00 36.04 4.00
204 205 6.282199 AGTAAATCACTACACCACACCTAG 57.718 41.667 0.00 0.00 34.98 3.02
225 253 6.485984 CCTAGCTTATGACTAGACCGTTAGAA 59.514 42.308 0.00 0.00 39.64 2.10
226 254 6.963083 AGCTTATGACTAGACCGTTAGAAT 57.037 37.500 0.00 0.00 0.00 2.40
228 256 8.461249 AGCTTATGACTAGACCGTTAGAATTA 57.539 34.615 0.00 0.00 0.00 1.40
229 257 8.351461 AGCTTATGACTAGACCGTTAGAATTAC 58.649 37.037 0.00 0.00 0.00 1.89
287 398 0.594602 CACCTGGCTTGATGTGTGTG 59.405 55.000 0.00 0.00 0.00 3.82
289 400 0.877071 CCTGGCTTGATGTGTGTGAC 59.123 55.000 0.00 0.00 0.00 3.67
290 401 1.596603 CTGGCTTGATGTGTGTGACA 58.403 50.000 0.00 0.00 39.53 3.58
291 402 1.948834 CTGGCTTGATGTGTGTGACAA 59.051 47.619 0.00 0.00 38.36 3.18
292 403 1.675483 TGGCTTGATGTGTGTGACAAC 59.325 47.619 0.00 0.00 38.36 3.32
293 404 1.001378 GGCTTGATGTGTGTGACAACC 60.001 52.381 0.00 0.00 38.36 3.77
294 405 1.675483 GCTTGATGTGTGTGACAACCA 59.325 47.619 0.00 0.00 38.36 3.67
296 409 3.694734 CTTGATGTGTGTGACAACCAAC 58.305 45.455 0.00 0.00 38.36 3.77
298 411 2.297701 GATGTGTGTGACAACCAACCT 58.702 47.619 0.00 0.00 38.36 3.50
301 414 2.502130 TGTGTGTGACAACCAACCTAGA 59.498 45.455 0.00 0.00 0.00 2.43
311 424 0.106519 CCAACCTAGATGGGCTTGGG 60.107 60.000 6.63 0.00 42.91 4.12
314 427 0.919710 ACCTAGATGGGCTTGGGTTC 59.080 55.000 0.00 0.00 42.91 3.62
324 438 2.238521 GGCTTGGGTTCACTGATTTCA 58.761 47.619 0.00 0.00 0.00 2.69
340 454 7.439157 CTGATTTCAGTTCTACCAACATCAA 57.561 36.000 0.00 0.00 39.09 2.57
343 457 7.884877 TGATTTCAGTTCTACCAACATCAATCT 59.115 33.333 0.00 0.00 0.00 2.40
358 472 7.886629 ACATCAATCTTGTATGTAAATGGCT 57.113 32.000 0.00 0.00 31.74 4.75
359 473 7.934457 ACATCAATCTTGTATGTAAATGGCTC 58.066 34.615 0.00 0.00 31.74 4.70
360 474 7.776969 ACATCAATCTTGTATGTAAATGGCTCT 59.223 33.333 0.00 0.00 31.74 4.09
361 475 8.627403 CATCAATCTTGTATGTAAATGGCTCTT 58.373 33.333 0.00 0.00 0.00 2.85
362 476 7.988737 TCAATCTTGTATGTAAATGGCTCTTG 58.011 34.615 0.00 0.00 0.00 3.02
363 477 7.828717 TCAATCTTGTATGTAAATGGCTCTTGA 59.171 33.333 0.00 0.00 0.00 3.02
364 478 8.461222 CAATCTTGTATGTAAATGGCTCTTGAA 58.539 33.333 0.00 0.00 0.00 2.69
365 479 7.994425 TCTTGTATGTAAATGGCTCTTGAAA 57.006 32.000 0.00 0.00 0.00 2.69
366 480 8.579850 TCTTGTATGTAAATGGCTCTTGAAAT 57.420 30.769 0.00 0.00 0.00 2.17
367 481 9.023962 TCTTGTATGTAAATGGCTCTTGAAATT 57.976 29.630 0.00 0.00 0.00 1.82
368 482 9.643693 CTTGTATGTAAATGGCTCTTGAAATTT 57.356 29.630 0.00 0.00 0.00 1.82
369 483 8.984891 TGTATGTAAATGGCTCTTGAAATTTG 57.015 30.769 0.00 0.00 0.00 2.32
370 484 8.034215 TGTATGTAAATGGCTCTTGAAATTTGG 58.966 33.333 0.00 0.00 0.00 3.28
371 485 6.662865 TGTAAATGGCTCTTGAAATTTGGA 57.337 33.333 0.00 0.00 0.00 3.53
372 486 7.060383 TGTAAATGGCTCTTGAAATTTGGAA 57.940 32.000 0.00 0.00 0.00 3.53
374 488 7.989741 TGTAAATGGCTCTTGAAATTTGGAAAA 59.010 29.630 0.00 0.00 0.00 2.29
375 489 6.866010 AATGGCTCTTGAAATTTGGAAAAC 57.134 33.333 0.00 0.00 0.00 2.43
376 490 4.367450 TGGCTCTTGAAATTTGGAAAACG 58.633 39.130 0.00 0.00 0.00 3.60
377 491 4.098654 TGGCTCTTGAAATTTGGAAAACGA 59.901 37.500 0.00 0.00 0.00 3.85
378 492 5.047188 GGCTCTTGAAATTTGGAAAACGAA 58.953 37.500 0.00 0.00 0.00 3.85
380 494 5.977129 GCTCTTGAAATTTGGAAAACGAAGA 59.023 36.000 0.00 0.00 0.00 2.87
382 496 7.306225 GCTCTTGAAATTTGGAAAACGAAGAAG 60.306 37.037 0.00 0.00 0.00 2.85
384 498 5.596845 TGAAATTTGGAAAACGAAGAAGGG 58.403 37.500 0.00 0.00 0.00 3.95
400 514 0.613012 AGGGAGTGGCAGGATTTTGC 60.613 55.000 0.00 0.00 43.34 3.68
404 518 2.019984 GAGTGGCAGGATTTTGCTAGG 58.980 52.381 0.00 0.00 43.57 3.02
413 527 3.766051 AGGATTTTGCTAGGGCTGAAAAG 59.234 43.478 0.00 0.00 39.59 2.27
423 537 1.274447 GGGCTGAAAAGCTGCAGAAAT 59.726 47.619 20.43 0.00 42.62 2.17
425 539 3.056607 GGGCTGAAAAGCTGCAGAAATTA 60.057 43.478 20.43 0.00 42.62 1.40
427 541 5.173664 GGCTGAAAAGCTGCAGAAATTAAT 58.826 37.500 20.43 1.58 42.62 1.40
429 543 6.148315 GGCTGAAAAGCTGCAGAAATTAATTT 59.852 34.615 20.43 13.24 42.62 1.82
430 544 7.331687 GGCTGAAAAGCTGCAGAAATTAATTTA 59.668 33.333 20.43 0.00 42.62 1.40
431 545 8.164790 GCTGAAAAGCTGCAGAAATTAATTTAC 58.835 33.333 20.43 7.17 40.75 2.01
432 546 9.415544 CTGAAAAGCTGCAGAAATTAATTTACT 57.584 29.630 20.43 9.55 34.06 2.24
439 557 7.063426 GCTGCAGAAATTAATTTACTTGAACCC 59.937 37.037 20.43 0.00 0.00 4.11
457 575 4.034285 ACCCAAAGTAAACCATCTCCTG 57.966 45.455 0.00 0.00 0.00 3.86
471 647 3.703001 TCTCCTGGTTAAGAAAGCCAG 57.297 47.619 0.00 0.00 46.83 4.85
477 653 2.445525 TGGTTAAGAAAGCCAGGAAGGT 59.554 45.455 0.00 0.00 40.61 3.50
480 656 2.498644 AAGAAAGCCAGGAAGGTAGC 57.501 50.000 0.00 0.00 40.61 3.58
482 658 0.328258 GAAAGCCAGGAAGGTAGCCA 59.672 55.000 0.00 0.00 40.61 4.75
483 659 0.329596 AAAGCCAGGAAGGTAGCCAG 59.670 55.000 0.00 0.00 40.61 4.85
484 660 1.566298 AAGCCAGGAAGGTAGCCAGG 61.566 60.000 0.00 0.00 40.61 4.45
485 661 2.301738 GCCAGGAAGGTAGCCAGGT 61.302 63.158 0.00 0.00 40.61 4.00
539 715 1.135460 GGAGACATCAAGCAAGCAAGC 60.135 52.381 0.00 0.00 0.00 4.01
605 785 6.245408 TCCCTTGCATAAAAAGATACAGTGT 58.755 36.000 0.00 0.00 0.00 3.55
662 851 5.128171 TGAGTGCTACAATACGAAATACCCT 59.872 40.000 0.00 0.00 0.00 4.34
692 881 1.273838 TGTTGGCTAGGAGAGACCCAT 60.274 52.381 0.00 0.00 40.05 4.00
735 924 3.782656 TCTGTACTGGGAAAAGGGAAC 57.217 47.619 0.00 0.00 0.00 3.62
765 954 1.964933 TGTTCCGTGTGTATGGACTCA 59.035 47.619 0.00 0.00 41.69 3.41
883 1072 2.740055 CACGTCTCCAGCCAGCAC 60.740 66.667 0.00 0.00 0.00 4.40
943 1136 1.118838 GGTGCAGAGCCAGATAGAGT 58.881 55.000 0.00 0.00 0.00 3.24
1387 3885 2.281761 CCAAGCAGCGACCCAAGT 60.282 61.111 0.00 0.00 0.00 3.16
2032 4531 1.227089 CCAGAGAAGGATGACGCGG 60.227 63.158 12.47 0.00 0.00 6.46
2037 4536 1.819632 GAAGGATGACGCGGCCAAT 60.820 57.895 10.82 0.00 0.00 3.16
2286 4785 2.709883 GCAGCTGCTCGAGGAGACT 61.710 63.158 34.83 26.37 40.49 3.24
2319 4818 0.389166 CTGACGTGGCAGAGAACCTC 60.389 60.000 0.00 0.00 38.14 3.85
2342 4841 2.627699 TGCCCATGTCCAAGAAGAAAAC 59.372 45.455 0.00 0.00 0.00 2.43
2358 4857 0.540365 AAACGAGGGACCCTGACGTA 60.540 55.000 23.51 0.00 36.20 3.57
2485 4990 2.625639 AGGAGAAAGAGGAGGCTGAAA 58.374 47.619 0.00 0.00 0.00 2.69
2608 5153 1.197721 CATGCTCCGTGACCAAAAGAC 59.802 52.381 0.00 0.00 0.00 3.01
2683 5228 5.382618 AGCTTCCTTTTGTCATTTGCTAG 57.617 39.130 0.00 0.00 0.00 3.42
2688 5233 6.899393 TCCTTTTGTCATTTGCTAGTTCAT 57.101 33.333 0.00 0.00 0.00 2.57
2689 5234 6.680810 TCCTTTTGTCATTTGCTAGTTCATG 58.319 36.000 0.00 0.00 0.00 3.07
2726 5271 7.497595 TGTTGTAATGTTGCTATAGGTAGAGG 58.502 38.462 1.04 0.00 0.00 3.69
2778 5323 7.362662 ACACTGTGTATTTGTAAATGCAGAAG 58.637 34.615 12.53 10.67 40.75 2.85
2785 5330 9.290988 TGTATTTGTAAATGCAGAAGGAAACTA 57.709 29.630 4.36 0.00 36.46 2.24
2788 5333 8.458573 TTTGTAAATGCAGAAGGAAACTAAGA 57.541 30.769 0.00 0.00 42.68 2.10
2801 5346 9.691362 GAAGGAAACTAAGATTGTTTGCATAAA 57.309 29.630 11.95 0.00 44.43 1.40
2825 5370 8.985315 AATATGCATTTCCTCATTTCTCTACA 57.015 30.769 3.54 0.00 0.00 2.74
2826 5371 6.939132 ATGCATTTCCTCATTTCTCTACAG 57.061 37.500 0.00 0.00 0.00 2.74
2827 5372 6.053632 TGCATTTCCTCATTTCTCTACAGA 57.946 37.500 0.00 0.00 0.00 3.41
2828 5373 6.475504 TGCATTTCCTCATTTCTCTACAGAA 58.524 36.000 0.00 0.00 36.82 3.02
2856 5401 0.871057 GCAGTCTGCCAGAAGTTGAC 59.129 55.000 14.27 0.00 37.42 3.18
2861 5407 2.731976 GTCTGCCAGAAGTTGACTTACG 59.268 50.000 0.00 0.00 36.11 3.18
2869 5415 0.324943 AGTTGACTTACGCATGGCCT 59.675 50.000 3.32 0.00 0.00 5.19
2915 5474 2.664185 CCAGATCCCATGAGCGCG 60.664 66.667 0.00 0.00 30.37 6.86
2985 5544 5.122396 CCAAGTAATCCAGTTCTTTCTTCCG 59.878 44.000 0.00 0.00 0.00 4.30
3002 5561 3.888093 CGAAGGTGGTTCTTCTCGT 57.112 52.632 0.00 0.00 40.56 4.18
3007 5566 3.277142 AGGTGGTTCTTCTCGTTGTTT 57.723 42.857 0.00 0.00 0.00 2.83
3030 5589 2.169832 TTTCGTCTTCTGAGCCCTTG 57.830 50.000 0.00 0.00 0.00 3.61
3031 5590 1.338107 TTCGTCTTCTGAGCCCTTGA 58.662 50.000 0.00 0.00 0.00 3.02
3033 5592 1.691976 TCGTCTTCTGAGCCCTTGAAA 59.308 47.619 0.00 0.00 0.00 2.69
3045 5604 2.795329 CCCTTGAAACCACAGCTACAT 58.205 47.619 0.00 0.00 0.00 2.29
3053 5612 5.046663 TGAAACCACAGCTACATGAGACATA 60.047 40.000 0.00 0.00 0.00 2.29
3069 5628 1.985159 ACATAACCAACAGCAGGAGGA 59.015 47.619 0.00 0.00 0.00 3.71
3076 5635 2.619849 CCAACAGCAGGAGGATCACAAT 60.620 50.000 0.00 0.00 36.25 2.71
3079 5638 0.917533 AGCAGGAGGATCACAATGCT 59.082 50.000 8.42 8.42 37.36 3.79
3080 5639 2.121948 AGCAGGAGGATCACAATGCTA 58.878 47.619 11.59 0.00 39.35 3.49
3091 5650 2.038952 TCACAATGCTAACACTCTGCCT 59.961 45.455 0.00 0.00 0.00 4.75
3118 5677 6.092259 GCTGAACTTATCACGAATACTTGGTT 59.908 38.462 0.00 0.00 33.47 3.67
3145 5704 5.221126 GGATTATGACAACCATCAGGCTTTC 60.221 44.000 0.00 0.00 39.06 2.62
3215 5783 1.002857 CCCTTCCTTCCACCCAATCT 58.997 55.000 0.00 0.00 0.00 2.40
3247 5815 0.871024 TTGAATCCCCCAAACCCCTT 59.129 50.000 0.00 0.00 0.00 3.95
3259 5827 2.497273 CAAACCCCTTCATCCACAATCC 59.503 50.000 0.00 0.00 0.00 3.01
3271 5839 7.831691 TCATCCACAATCCTCTTTGTTTAAA 57.168 32.000 0.00 0.00 37.73 1.52
3302 5870 6.266558 TGTTTGGTAGGCAAGTTTTGTCATAT 59.733 34.615 0.00 0.00 37.85 1.78
3432 6000 7.906327 ACAAAGTTGCTACATGGGAATAATTT 58.094 30.769 0.13 0.00 0.00 1.82
3456 6024 0.319297 GCAGTTTTTCCCAGCAGCAG 60.319 55.000 0.00 0.00 0.00 4.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 1.934463 CGAATTTCGGCCATCTCGG 59.066 57.895 10.95 0.00 36.00 4.63
17 18 0.814457 TGGATTTGGGCCGAATTTCG 59.186 50.000 19.99 11.81 40.07 3.46
18 19 1.824852 AGTGGATTTGGGCCGAATTTC 59.175 47.619 19.99 15.11 0.00 2.17
19 20 1.937191 AGTGGATTTGGGCCGAATTT 58.063 45.000 19.99 0.00 0.00 1.82
20 21 1.937191 AAGTGGATTTGGGCCGAATT 58.063 45.000 19.99 1.92 0.00 2.17
21 22 1.937191 AAAGTGGATTTGGGCCGAAT 58.063 45.000 19.14 19.14 0.00 3.34
22 23 1.710816 AAAAGTGGATTTGGGCCGAA 58.289 45.000 9.06 9.06 0.00 4.30
23 24 1.342819 CAAAAAGTGGATTTGGGCCGA 59.657 47.619 0.00 0.00 34.81 5.54
24 25 1.794512 CAAAAAGTGGATTTGGGCCG 58.205 50.000 0.00 0.00 34.81 6.13
25 26 1.522668 GCAAAAAGTGGATTTGGGCC 58.477 50.000 0.00 0.00 38.04 5.80
26 27 1.147473 CGCAAAAAGTGGATTTGGGC 58.853 50.000 3.64 0.00 41.64 5.36
35 36 1.455408 GATTTTCGGCCGCAAAAAGTG 59.545 47.619 26.06 0.00 0.00 3.16
36 37 1.067821 TGATTTTCGGCCGCAAAAAGT 59.932 42.857 26.06 15.45 0.00 2.66
37 38 1.777101 TGATTTTCGGCCGCAAAAAG 58.223 45.000 26.06 0.00 0.00 2.27
38 39 2.225068 TTGATTTTCGGCCGCAAAAA 57.775 40.000 26.06 24.01 0.00 1.94
39 40 2.225068 TTTGATTTTCGGCCGCAAAA 57.775 40.000 26.06 26.26 0.00 2.44
40 41 1.861575 GTTTTGATTTTCGGCCGCAAA 59.138 42.857 24.67 24.67 0.00 3.68
41 42 1.202417 TGTTTTGATTTTCGGCCGCAA 60.202 42.857 23.51 14.89 0.00 4.85
42 43 0.385751 TGTTTTGATTTTCGGCCGCA 59.614 45.000 23.51 6.92 0.00 5.69
43 44 0.781787 GTGTTTTGATTTTCGGCCGC 59.218 50.000 23.51 6.50 0.00 6.53
44 45 2.050691 CTGTGTTTTGATTTTCGGCCG 58.949 47.619 22.12 22.12 0.00 6.13
45 46 2.223947 ACCTGTGTTTTGATTTTCGGCC 60.224 45.455 0.00 0.00 0.00 6.13
46 47 3.092334 ACCTGTGTTTTGATTTTCGGC 57.908 42.857 0.00 0.00 0.00 5.54
47 48 6.416750 GTCTTTACCTGTGTTTTGATTTTCGG 59.583 38.462 0.00 0.00 0.00 4.30
48 49 7.193595 AGTCTTTACCTGTGTTTTGATTTTCG 58.806 34.615 0.00 0.00 0.00 3.46
49 50 9.447040 GTAGTCTTTACCTGTGTTTTGATTTTC 57.553 33.333 0.00 0.00 0.00 2.29
50 51 9.185680 AGTAGTCTTTACCTGTGTTTTGATTTT 57.814 29.630 0.00 0.00 0.00 1.82
51 52 8.747538 AGTAGTCTTTACCTGTGTTTTGATTT 57.252 30.769 0.00 0.00 0.00 2.17
52 53 9.269453 GTAGTAGTCTTTACCTGTGTTTTGATT 57.731 33.333 0.00 0.00 0.00 2.57
53 54 7.876582 GGTAGTAGTCTTTACCTGTGTTTTGAT 59.123 37.037 6.16 0.00 37.06 2.57
54 55 7.147689 TGGTAGTAGTCTTTACCTGTGTTTTGA 60.148 37.037 12.13 0.00 40.01 2.69
55 56 6.987992 TGGTAGTAGTCTTTACCTGTGTTTTG 59.012 38.462 12.13 0.00 40.01 2.44
56 57 7.128234 TGGTAGTAGTCTTTACCTGTGTTTT 57.872 36.000 12.13 0.00 40.01 2.43
57 58 6.736110 TGGTAGTAGTCTTTACCTGTGTTT 57.264 37.500 12.13 0.00 40.01 2.83
58 59 6.239515 CCTTGGTAGTAGTCTTTACCTGTGTT 60.240 42.308 12.13 0.00 40.01 3.32
59 60 5.245526 CCTTGGTAGTAGTCTTTACCTGTGT 59.754 44.000 12.13 0.00 40.01 3.72
60 61 5.479375 TCCTTGGTAGTAGTCTTTACCTGTG 59.521 44.000 12.13 5.16 40.01 3.66
61 62 5.479724 GTCCTTGGTAGTAGTCTTTACCTGT 59.520 44.000 12.13 0.00 40.01 4.00
62 63 5.715753 AGTCCTTGGTAGTAGTCTTTACCTG 59.284 44.000 12.13 7.05 40.01 4.00
63 64 5.901598 AGTCCTTGGTAGTAGTCTTTACCT 58.098 41.667 12.13 0.00 40.01 3.08
64 65 5.126869 GGAGTCCTTGGTAGTAGTCTTTACC 59.873 48.000 0.41 6.38 39.81 2.85
65 66 5.713861 TGGAGTCCTTGGTAGTAGTCTTTAC 59.286 44.000 11.33 0.00 0.00 2.01
66 67 5.713861 GTGGAGTCCTTGGTAGTAGTCTTTA 59.286 44.000 11.33 0.00 0.00 1.85
67 68 4.527427 GTGGAGTCCTTGGTAGTAGTCTTT 59.473 45.833 11.33 0.00 0.00 2.52
68 69 4.087907 GTGGAGTCCTTGGTAGTAGTCTT 58.912 47.826 11.33 0.00 0.00 3.01
69 70 3.699413 GTGGAGTCCTTGGTAGTAGTCT 58.301 50.000 11.33 0.00 0.00 3.24
70 71 2.422832 CGTGGAGTCCTTGGTAGTAGTC 59.577 54.545 11.33 0.00 0.00 2.59
71 72 2.224967 ACGTGGAGTCCTTGGTAGTAGT 60.225 50.000 11.33 0.00 0.00 2.73
72 73 2.444421 ACGTGGAGTCCTTGGTAGTAG 58.556 52.381 11.33 0.00 0.00 2.57
73 74 2.592102 ACGTGGAGTCCTTGGTAGTA 57.408 50.000 11.33 0.00 0.00 1.82
74 75 2.592102 TACGTGGAGTCCTTGGTAGT 57.408 50.000 11.33 4.17 0.00 2.73
75 76 4.036498 CAGTATACGTGGAGTCCTTGGTAG 59.964 50.000 11.33 0.00 0.00 3.18
76 77 3.949754 CAGTATACGTGGAGTCCTTGGTA 59.050 47.826 11.33 9.97 0.00 3.25
77 78 2.758979 CAGTATACGTGGAGTCCTTGGT 59.241 50.000 11.33 8.04 0.00 3.67
139 140 1.201722 CGTTGTTGTCGTCGTCGGAA 61.202 55.000 1.55 0.00 37.69 4.30
170 171 6.423905 GTGTAGTGATTTACTTGACTTGAGCA 59.576 38.462 0.00 0.00 40.89 4.26
191 192 4.350245 AGTCATAAGCTAGGTGTGGTGTA 58.650 43.478 0.00 0.00 0.00 2.90
201 202 7.493743 TTCTAACGGTCTAGTCATAAGCTAG 57.506 40.000 0.00 0.00 37.77 3.42
202 203 8.461249 AATTCTAACGGTCTAGTCATAAGCTA 57.539 34.615 0.00 0.00 0.00 3.32
204 205 8.133627 TGTAATTCTAACGGTCTAGTCATAAGC 58.866 37.037 0.00 0.00 0.00 3.09
225 253 5.564550 ACTGCAAATTCAGTCTCCTGTAAT 58.435 37.500 0.00 0.00 43.28 1.89
226 254 4.973168 ACTGCAAATTCAGTCTCCTGTAA 58.027 39.130 0.00 0.00 43.28 2.41
228 256 3.498774 ACTGCAAATTCAGTCTCCTGT 57.501 42.857 0.00 0.00 43.28 4.00
229 257 4.843220 AAACTGCAAATTCAGTCTCCTG 57.157 40.909 0.64 0.00 45.77 3.86
238 266 6.534793 TGAAAAGGTCAGAAAACTGCAAATTC 59.465 34.615 0.00 0.00 0.00 2.17
265 376 1.064003 ACACATCAAGCCAGGTGGTA 58.936 50.000 0.00 0.00 37.57 3.25
287 398 1.282157 AGCCCATCTAGGTTGGTTGTC 59.718 52.381 10.56 0.31 34.66 3.18
289 400 2.094675 CAAGCCCATCTAGGTTGGTTG 58.905 52.381 10.56 6.02 38.69 3.77
290 401 2.514458 CAAGCCCATCTAGGTTGGTT 57.486 50.000 10.56 0.00 38.69 3.67
293 404 0.625849 ACCCAAGCCCATCTAGGTTG 59.374 55.000 0.00 0.00 41.31 3.77
294 405 1.285078 GAACCCAAGCCCATCTAGGTT 59.715 52.381 0.00 0.00 41.60 3.50
296 409 0.918983 TGAACCCAAGCCCATCTAGG 59.081 55.000 0.00 0.00 37.03 3.02
298 411 1.281867 CAGTGAACCCAAGCCCATCTA 59.718 52.381 0.00 0.00 0.00 1.98
301 414 0.706433 ATCAGTGAACCCAAGCCCAT 59.294 50.000 0.00 0.00 0.00 4.00
324 438 8.103305 ACATACAAGATTGATGTTGGTAGAACT 58.897 33.333 0.00 0.00 35.57 3.01
325 439 8.268850 ACATACAAGATTGATGTTGGTAGAAC 57.731 34.615 0.00 0.00 35.57 3.01
332 446 8.192774 AGCCATTTACATACAAGATTGATGTTG 58.807 33.333 12.57 0.00 37.12 3.33
340 454 8.579850 TTTCAAGAGCCATTTACATACAAGAT 57.420 30.769 0.00 0.00 0.00 2.40
343 457 9.421806 CAAATTTCAAGAGCCATTTACATACAA 57.578 29.630 0.00 0.00 0.00 2.41
358 472 6.978080 CCTTCTTCGTTTTCCAAATTTCAAGA 59.022 34.615 0.00 0.00 0.00 3.02
359 473 6.200854 CCCTTCTTCGTTTTCCAAATTTCAAG 59.799 38.462 0.00 0.00 0.00 3.02
360 474 6.045955 CCCTTCTTCGTTTTCCAAATTTCAA 58.954 36.000 0.00 0.00 0.00 2.69
361 475 5.361285 TCCCTTCTTCGTTTTCCAAATTTCA 59.639 36.000 0.00 0.00 0.00 2.69
362 476 5.838529 TCCCTTCTTCGTTTTCCAAATTTC 58.161 37.500 0.00 0.00 0.00 2.17
363 477 5.362717 ACTCCCTTCTTCGTTTTCCAAATTT 59.637 36.000 0.00 0.00 0.00 1.82
364 478 4.893524 ACTCCCTTCTTCGTTTTCCAAATT 59.106 37.500 0.00 0.00 0.00 1.82
365 479 4.278419 CACTCCCTTCTTCGTTTTCCAAAT 59.722 41.667 0.00 0.00 0.00 2.32
366 480 3.630312 CACTCCCTTCTTCGTTTTCCAAA 59.370 43.478 0.00 0.00 0.00 3.28
367 481 3.211045 CACTCCCTTCTTCGTTTTCCAA 58.789 45.455 0.00 0.00 0.00 3.53
368 482 2.486548 CCACTCCCTTCTTCGTTTTCCA 60.487 50.000 0.00 0.00 0.00 3.53
369 483 2.152016 CCACTCCCTTCTTCGTTTTCC 58.848 52.381 0.00 0.00 0.00 3.13
370 484 1.535896 GCCACTCCCTTCTTCGTTTTC 59.464 52.381 0.00 0.00 0.00 2.29
371 485 1.133915 TGCCACTCCCTTCTTCGTTTT 60.134 47.619 0.00 0.00 0.00 2.43
372 486 0.472471 TGCCACTCCCTTCTTCGTTT 59.528 50.000 0.00 0.00 0.00 3.60
374 488 1.674057 CTGCCACTCCCTTCTTCGT 59.326 57.895 0.00 0.00 0.00 3.85
375 489 1.078848 CCTGCCACTCCCTTCTTCG 60.079 63.158 0.00 0.00 0.00 3.79
376 490 0.915364 ATCCTGCCACTCCCTTCTTC 59.085 55.000 0.00 0.00 0.00 2.87
377 491 1.376649 AATCCTGCCACTCCCTTCTT 58.623 50.000 0.00 0.00 0.00 2.52
378 492 1.376649 AAATCCTGCCACTCCCTTCT 58.623 50.000 0.00 0.00 0.00 2.85
380 494 1.928868 CAAAATCCTGCCACTCCCTT 58.071 50.000 0.00 0.00 0.00 3.95
382 496 0.613012 AGCAAAATCCTGCCACTCCC 60.613 55.000 0.00 0.00 43.73 4.30
384 498 2.019984 CCTAGCAAAATCCTGCCACTC 58.980 52.381 0.00 0.00 43.73 3.51
413 527 7.063426 GGGTTCAAGTAAATTAATTTCTGCAGC 59.937 37.037 16.56 11.90 0.00 5.25
425 539 8.080363 TGGTTTACTTTGGGTTCAAGTAAATT 57.920 30.769 16.85 0.00 37.94 1.82
427 541 7.562088 AGATGGTTTACTTTGGGTTCAAGTAAA 59.438 33.333 12.00 12.00 36.01 2.01
429 543 6.607019 AGATGGTTTACTTTGGGTTCAAGTA 58.393 36.000 0.00 0.00 33.98 2.24
430 544 5.454966 AGATGGTTTACTTTGGGTTCAAGT 58.545 37.500 0.00 0.00 33.98 3.16
431 545 5.048013 GGAGATGGTTTACTTTGGGTTCAAG 60.048 44.000 0.00 0.00 33.98 3.02
432 546 4.830600 GGAGATGGTTTACTTTGGGTTCAA 59.169 41.667 0.00 0.00 0.00 2.69
434 548 4.459337 CAGGAGATGGTTTACTTTGGGTTC 59.541 45.833 0.00 0.00 0.00 3.62
457 575 3.156288 ACCTTCCTGGCTTTCTTAACC 57.844 47.619 0.00 0.00 40.22 2.85
460 636 2.238898 GGCTACCTTCCTGGCTTTCTTA 59.761 50.000 0.00 0.00 40.22 2.10
466 642 1.997874 CCTGGCTACCTTCCTGGCT 60.998 63.158 0.00 0.00 40.22 4.75
471 647 0.393132 GCTTCACCTGGCTACCTTCC 60.393 60.000 0.00 0.00 0.00 3.46
477 653 1.064003 TCCTTTGCTTCACCTGGCTA 58.936 50.000 0.00 0.00 0.00 3.93
480 656 1.610522 CTTGTCCTTTGCTTCACCTGG 59.389 52.381 0.00 0.00 0.00 4.45
482 658 2.092429 TGTCTTGTCCTTTGCTTCACCT 60.092 45.455 0.00 0.00 0.00 4.00
483 659 2.297701 TGTCTTGTCCTTTGCTTCACC 58.702 47.619 0.00 0.00 0.00 4.02
484 660 3.565482 TGATGTCTTGTCCTTTGCTTCAC 59.435 43.478 0.00 0.00 0.00 3.18
485 661 3.565482 GTGATGTCTTGTCCTTTGCTTCA 59.435 43.478 0.00 0.00 0.00 3.02
539 715 3.744942 CCTGTCACTTCATCACTTGTCAG 59.255 47.826 0.00 0.00 0.00 3.51
629 809 5.119279 CGTATTGTAGCACTCAATCCATAGC 59.881 44.000 4.74 0.00 36.92 2.97
643 832 7.095355 CCATGTTAGGGTATTTCGTATTGTAGC 60.095 40.741 0.00 0.00 0.00 3.58
680 869 2.122768 GTGAATGGATGGGTCTCTCCT 58.877 52.381 0.00 0.00 36.25 3.69
681 870 2.103941 GAGTGAATGGATGGGTCTCTCC 59.896 54.545 0.00 0.00 0.00 3.71
682 871 2.768527 TGAGTGAATGGATGGGTCTCTC 59.231 50.000 0.00 0.00 34.18 3.20
683 872 2.503356 GTGAGTGAATGGATGGGTCTCT 59.497 50.000 0.00 0.00 0.00 3.10
684 873 2.420687 GGTGAGTGAATGGATGGGTCTC 60.421 54.545 0.00 0.00 0.00 3.36
692 881 2.972021 TGAGACAAGGTGAGTGAATGGA 59.028 45.455 0.00 0.00 0.00 3.41
735 924 2.872245 ACACACGGAACAAACTCATGAG 59.128 45.455 21.37 21.37 0.00 2.90
786 975 0.757561 GGGTAGGTGGAGAGGAGCTC 60.758 65.000 4.71 4.71 43.17 4.09
883 1072 4.503007 GTGAGTGGTTGTGCGTGTATATAG 59.497 45.833 0.00 0.00 0.00 1.31
943 1136 2.949177 TTCTTGCTGGAAGGCTGTAA 57.051 45.000 9.11 0.00 31.85 2.41
1007 3505 3.717294 ACCACTCCACCATCGCCC 61.717 66.667 0.00 0.00 0.00 6.13
1104 3602 3.050275 AAAGCGGCGAGGTTGAGC 61.050 61.111 12.98 0.00 40.91 4.26
1206 3704 1.807573 CTCGACGGCAAGGAAGAGC 60.808 63.158 0.00 0.00 0.00 4.09
1387 3885 4.042809 AGGGTACAAACTGATGACATTGGA 59.957 41.667 0.00 0.00 0.00 3.53
1471 3970 3.861840 TGAAAGGCAGGTAAGAATCGAG 58.138 45.455 0.00 0.00 0.00 4.04
2032 4531 1.364626 CCAGAGAGCGTCACATTGGC 61.365 60.000 0.00 0.00 0.00 4.52
2037 4536 2.601666 AGGCCAGAGAGCGTCACA 60.602 61.111 5.01 0.00 0.00 3.58
2286 4785 3.690280 TCAGCGGGCGACATGTCA 61.690 61.111 24.93 0.22 0.00 3.58
2319 4818 2.133281 TCTTCTTGGACATGGGCATG 57.867 50.000 0.00 0.00 44.15 4.06
2342 4841 1.734137 CATACGTCAGGGTCCCTCG 59.266 63.158 7.76 12.69 0.00 4.63
2358 4857 1.455217 GATGAGGCCTGCCAAGCAT 60.455 57.895 12.00 5.91 38.13 3.79
2485 4990 4.764308 GTCTTTCTCCTTGGCTTTCTTCAT 59.236 41.667 0.00 0.00 0.00 2.57
2608 5153 3.123621 GTCTTATCTGAACCAACACTGCG 59.876 47.826 0.00 0.00 0.00 5.18
2672 5217 5.239359 TCATGCATGAACTAGCAAATGAC 57.761 39.130 26.87 0.00 44.88 3.06
2683 5228 1.466167 ACAGTCGCTTCATGCATGAAC 59.534 47.619 33.08 26.61 41.51 3.18
2688 5233 2.162319 TACAACAGTCGCTTCATGCA 57.838 45.000 0.00 0.00 43.06 3.96
2689 5234 3.120199 ACATTACAACAGTCGCTTCATGC 60.120 43.478 0.00 0.00 38.57 4.06
2746 5291 8.735315 CATTTACAAATACACAGTGTTGGGATA 58.265 33.333 12.53 0.00 0.00 2.59
2801 5346 8.435187 TCTGTAGAGAAATGAGGAAATGCATAT 58.565 33.333 0.00 0.00 0.00 1.78
2804 5349 6.053632 TCTGTAGAGAAATGAGGAAATGCA 57.946 37.500 0.00 0.00 0.00 3.96
2869 5415 2.598565 AGAGAACCTGAGTGTAGTGCA 58.401 47.619 0.00 0.00 0.00 4.57
2874 5420 4.893524 TCAGACAAAGAGAACCTGAGTGTA 59.106 41.667 0.00 0.00 31.15 2.90
2878 5424 3.070159 TGGTCAGACAAAGAGAACCTGAG 59.930 47.826 2.17 0.00 34.92 3.35
2931 5490 2.974845 CGCAGCAGGATTCTGAGAG 58.025 57.895 4.75 0.00 43.49 3.20
2985 5544 2.835027 ACAACGAGAAGAACCACCTTC 58.165 47.619 0.00 0.00 42.07 3.46
2989 5548 2.861935 TCGAAACAACGAGAAGAACCAC 59.138 45.455 0.00 0.00 37.37 4.16
3002 5561 4.084537 GCTCAGAAGACGAAATCGAAACAA 60.085 41.667 10.16 0.00 43.02 2.83
3007 5566 1.135083 GGGCTCAGAAGACGAAATCGA 60.135 52.381 10.16 0.00 43.02 3.59
3030 5589 3.664107 TGTCTCATGTAGCTGTGGTTTC 58.336 45.455 0.00 0.00 0.00 2.78
3031 5590 3.769739 TGTCTCATGTAGCTGTGGTTT 57.230 42.857 0.00 0.00 0.00 3.27
3033 5592 4.383118 GGTTATGTCTCATGTAGCTGTGGT 60.383 45.833 0.00 0.00 0.00 4.16
3045 5604 2.637382 TCCTGCTGTTGGTTATGTCTCA 59.363 45.455 0.00 0.00 0.00 3.27
3053 5612 1.067295 TGATCCTCCTGCTGTTGGTT 58.933 50.000 0.00 0.00 0.00 3.67
3069 5628 3.012518 GGCAGAGTGTTAGCATTGTGAT 58.987 45.455 3.54 0.00 29.09 3.06
3076 5635 1.205655 CAGCTAGGCAGAGTGTTAGCA 59.794 52.381 12.17 0.00 40.66 3.49
3079 5638 3.165875 AGTTCAGCTAGGCAGAGTGTTA 58.834 45.455 0.00 0.00 0.00 2.41
3080 5639 1.974236 AGTTCAGCTAGGCAGAGTGTT 59.026 47.619 0.00 0.00 0.00 3.32
3091 5650 6.978659 CCAAGTATTCGTGATAAGTTCAGCTA 59.021 38.462 0.00 0.00 34.17 3.32
3118 5677 3.205338 CTGATGGTTGTCATAATCCGCA 58.795 45.455 0.00 0.00 35.97 5.69
3145 5704 3.010138 TCCCCAATCCACTTCTACCAAAG 59.990 47.826 0.00 0.00 0.00 2.77
3203 5771 3.496331 GTTTTGAGGAGATTGGGTGGAA 58.504 45.455 0.00 0.00 0.00 3.53
3215 5783 2.225267 GGGATTCAAGGGGTTTTGAGGA 60.225 50.000 0.00 0.00 38.25 3.71
3247 5815 7.831691 TTTAAACAAAGAGGATTGTGGATGA 57.168 32.000 0.00 0.00 42.49 2.92
3271 5839 5.869649 AACTTGCCTACCAAACAGAAAAT 57.130 34.783 0.00 0.00 31.94 1.82
3302 5870 8.862325 AAATGTTCTAGACCATGTTATGTCAA 57.138 30.769 3.22 0.00 0.00 3.18
3432 6000 1.247567 GCTGGGAAAAACTGCTGCTA 58.752 50.000 0.00 0.00 0.00 3.49
3456 6024 7.966111 TGATTTCAAGTCATGCAAAATTATGC 58.034 30.769 0.00 0.00 46.58 3.14


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

AutoCloner maintained by Alex Coulton.