Multiple sequence alignment - TraesCS6D01G160200

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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 TraesCS6D01G160200 chr6D 100.000 2625 0 0 1 2625 138383256 138385880 0.000000e+00 4848.0
1 TraesCS6D01G160200 chr6B 91.595 1511 60 29 553 2034 237730504 237731976 0.000000e+00 2025.0
2 TraesCS6D01G160200 chr6B 92.031 389 22 4 1 389 237730122 237730501 2.970000e-149 538.0
3 TraesCS6D01G160200 chr6B 94.313 211 6 3 2416 2625 237731986 237732191 4.220000e-83 318.0
4 TraesCS6D01G160200 chr6B 90.000 190 15 4 362 549 216876637 216876450 2.610000e-60 243.0
5 TraesCS6D01G160200 chr6A 89.180 1488 89 31 664 2128 181012745 181014183 0.000000e+00 1790.0
6 TraesCS6D01G160200 chr6A 93.846 390 16 5 1 390 181012071 181012452 4.870000e-162 580.0
7 TraesCS6D01G160200 chr6A 88.293 410 18 10 2229 2625 181014264 181014656 5.120000e-127 464.0
8 TraesCS6D01G160200 chr6A 89.583 96 10 0 553 648 181012504 181012599 3.550000e-24 122.0
9 TraesCS6D01G160200 chr6A 95.556 45 1 1 2127 2170 181014204 181014248 1.300000e-08 71.3
10 TraesCS6D01G160200 chr1D 96.429 168 6 0 385 552 23004242 23004075 7.160000e-71 278.0
11 TraesCS6D01G160200 chr7D 94.886 176 9 0 377 552 18809307 18809482 2.570000e-70 276.0
12 TraesCS6D01G160200 chr7D 95.092 163 8 0 390 552 82346110 82346272 9.320000e-65 257.0
13 TraesCS6D01G160200 chr7D 81.435 237 32 10 1314 1544 501108284 501108054 1.600000e-42 183.0
14 TraesCS6D01G160200 chr2D 96.386 166 6 0 387 552 304655116 304655281 9.260000e-70 274.0
15 TraesCS6D01G160200 chr7B 94.578 166 9 0 389 554 115373864 115374029 9.320000e-65 257.0
16 TraesCS6D01G160200 chr7B 82.031 256 34 10 1296 1544 530590638 530590388 9.520000e-50 207.0
17 TraesCS6D01G160200 chr7B 81.712 257 33 12 1296 1544 530434731 530434481 4.430000e-48 202.0
18 TraesCS6D01G160200 chr1B 95.092 163 8 0 390 552 561836560 561836398 9.320000e-65 257.0
19 TraesCS6D01G160200 chr4B 93.567 171 11 0 383 553 230458808 230458638 3.350000e-64 255.0
20 TraesCS6D01G160200 chr3D 91.713 181 11 4 375 552 604180666 604180845 5.610000e-62 248.0
21 TraesCS6D01G160200 chr7A 82.700 237 29 10 1314 1544 567591240 567591010 1.590000e-47 200.0


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 TraesCS6D01G160200 chr6D 138383256 138385880 2624 False 4848.000000 4848 100.000000 1 2625 1 chr6D.!!$F1 2624
1 TraesCS6D01G160200 chr6B 237730122 237732191 2069 False 960.333333 2025 92.646333 1 2625 3 chr6B.!!$F1 2624
2 TraesCS6D01G160200 chr6A 181012071 181014656 2585 False 605.460000 1790 91.291600 1 2625 5 chr6A.!!$F1 2624

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
697 886 0.959867 TGCCATTCCACATGTGACGG 60.96 55.0 27.46 19.89 0.0 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2219 2477 0.231279 GCGTCAAGGTGTGTTGTACG 59.769 55.0 0.0 0.0 35.7 3.67 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
28 29 5.508567 TCCATTTGCACTCAATATTGGAGA 58.491 37.500 15.36 0.00 34.23 3.71
29 30 5.951148 TCCATTTGCACTCAATATTGGAGAA 59.049 36.000 15.36 3.53 34.23 2.87
105 106 6.318648 TGCTATCACCACTCATTAATCCAAAC 59.681 38.462 0.00 0.00 0.00 2.93
151 152 3.056749 GGATTCAGTAGGACGTGACACTT 60.057 47.826 3.68 0.00 0.00 3.16
322 323 2.098607 CAGGTTAGCCGTGAGTAATCGA 59.901 50.000 0.00 0.00 40.50 3.59
349 350 6.777213 TTGTAAAACAATGTACTTGGTGGT 57.223 33.333 9.05 0.00 39.30 4.16
350 351 6.137794 TGTAAAACAATGTACTTGGTGGTG 57.862 37.500 9.05 0.00 39.30 4.17
351 352 4.664150 AAAACAATGTACTTGGTGGTGG 57.336 40.909 9.05 0.00 39.30 4.61
352 353 3.586470 AACAATGTACTTGGTGGTGGA 57.414 42.857 9.05 0.00 39.30 4.02
401 452 9.661954 ATGAATATATGATATACTCCCTCCGTT 57.338 33.333 0.00 0.00 0.00 4.44
402 453 9.132923 TGAATATATGATATACTCCCTCCGTTC 57.867 37.037 0.00 0.00 0.00 3.95
403 454 8.480133 AATATATGATATACTCCCTCCGTTCC 57.520 38.462 0.00 0.00 0.00 3.62
404 455 3.897657 TGATATACTCCCTCCGTTCCT 57.102 47.619 0.00 0.00 0.00 3.36
405 456 5.531753 ATGATATACTCCCTCCGTTCCTA 57.468 43.478 0.00 0.00 0.00 2.94
406 457 5.329191 TGATATACTCCCTCCGTTCCTAA 57.671 43.478 0.00 0.00 0.00 2.69
407 458 5.708544 TGATATACTCCCTCCGTTCCTAAA 58.291 41.667 0.00 0.00 0.00 1.85
408 459 6.320518 TGATATACTCCCTCCGTTCCTAAAT 58.679 40.000 0.00 0.00 0.00 1.40
409 460 4.957684 ATACTCCCTCCGTTCCTAAATG 57.042 45.455 0.00 0.00 0.00 2.32
410 461 2.547990 ACTCCCTCCGTTCCTAAATGT 58.452 47.619 0.00 0.00 0.00 2.71
411 462 3.716431 ACTCCCTCCGTTCCTAAATGTA 58.284 45.455 0.00 0.00 0.00 2.29
412 463 4.098894 ACTCCCTCCGTTCCTAAATGTAA 58.901 43.478 0.00 0.00 0.00 2.41
413 464 4.161754 ACTCCCTCCGTTCCTAAATGTAAG 59.838 45.833 0.00 0.00 0.00 2.34
414 465 4.098894 TCCCTCCGTTCCTAAATGTAAGT 58.901 43.478 0.00 0.00 0.00 2.24
415 466 4.533311 TCCCTCCGTTCCTAAATGTAAGTT 59.467 41.667 0.00 0.00 0.00 2.66
416 467 5.013391 TCCCTCCGTTCCTAAATGTAAGTTT 59.987 40.000 0.00 0.00 0.00 2.66
417 468 5.708697 CCCTCCGTTCCTAAATGTAAGTTTT 59.291 40.000 0.00 0.00 0.00 2.43
418 469 6.208007 CCCTCCGTTCCTAAATGTAAGTTTTT 59.792 38.462 0.00 0.00 0.00 1.94
419 470 7.081976 CCTCCGTTCCTAAATGTAAGTTTTTG 58.918 38.462 0.00 0.00 0.00 2.44
420 471 7.255346 CCTCCGTTCCTAAATGTAAGTTTTTGT 60.255 37.037 0.00 0.00 0.00 2.83
421 472 8.674263 TCCGTTCCTAAATGTAAGTTTTTGTA 57.326 30.769 0.00 0.00 0.00 2.41
422 473 8.776470 TCCGTTCCTAAATGTAAGTTTTTGTAG 58.224 33.333 0.00 0.00 0.00 2.74
423 474 8.776470 CCGTTCCTAAATGTAAGTTTTTGTAGA 58.224 33.333 0.00 0.00 0.00 2.59
424 475 9.807386 CGTTCCTAAATGTAAGTTTTTGTAGAG 57.193 33.333 0.00 0.00 0.00 2.43
452 503 6.270815 TCACTAAATGAACTACATACGGAGC 58.729 40.000 0.00 0.00 38.38 4.70
453 504 6.040247 CACTAAATGAACTACATACGGAGCA 58.960 40.000 0.00 0.00 38.38 4.26
454 505 6.533723 CACTAAATGAACTACATACGGAGCAA 59.466 38.462 0.00 0.00 38.38 3.91
455 506 7.064134 CACTAAATGAACTACATACGGAGCAAA 59.936 37.037 0.00 0.00 38.38 3.68
456 507 6.811253 AAATGAACTACATACGGAGCAAAA 57.189 33.333 0.00 0.00 38.38 2.44
457 508 7.391148 AAATGAACTACATACGGAGCAAAAT 57.609 32.000 0.00 0.00 38.38 1.82
458 509 5.794687 TGAACTACATACGGAGCAAAATG 57.205 39.130 0.00 0.00 0.00 2.32
459 510 5.483811 TGAACTACATACGGAGCAAAATGA 58.516 37.500 0.00 0.00 0.00 2.57
460 511 5.935206 TGAACTACATACGGAGCAAAATGAA 59.065 36.000 0.00 0.00 0.00 2.57
461 512 6.597672 TGAACTACATACGGAGCAAAATGAAT 59.402 34.615 0.00 0.00 0.00 2.57
462 513 6.363577 ACTACATACGGAGCAAAATGAATG 57.636 37.500 0.00 0.00 0.00 2.67
463 514 6.112734 ACTACATACGGAGCAAAATGAATGA 58.887 36.000 0.00 0.00 0.00 2.57
464 515 5.895636 ACATACGGAGCAAAATGAATGAA 57.104 34.783 0.00 0.00 0.00 2.57
465 516 6.455360 ACATACGGAGCAAAATGAATGAAT 57.545 33.333 0.00 0.00 0.00 2.57
466 517 6.498304 ACATACGGAGCAAAATGAATGAATC 58.502 36.000 0.00 0.00 0.00 2.52
467 518 6.319658 ACATACGGAGCAAAATGAATGAATCT 59.680 34.615 0.00 0.00 0.00 2.40
468 519 7.498900 ACATACGGAGCAAAATGAATGAATCTA 59.501 33.333 0.00 0.00 0.00 1.98
469 520 6.757897 ACGGAGCAAAATGAATGAATCTAA 57.242 33.333 0.00 0.00 0.00 2.10
470 521 7.156876 ACGGAGCAAAATGAATGAATCTAAA 57.843 32.000 0.00 0.00 0.00 1.85
471 522 7.029563 ACGGAGCAAAATGAATGAATCTAAAC 58.970 34.615 0.00 0.00 0.00 2.01
472 523 7.094205 ACGGAGCAAAATGAATGAATCTAAACT 60.094 33.333 0.00 0.00 0.00 2.66
473 524 7.756722 CGGAGCAAAATGAATGAATCTAAACTT 59.243 33.333 0.00 0.00 0.00 2.66
534 585 9.965902 AATGGAATCTCTACAAAGACTTACATT 57.034 29.630 0.00 0.00 30.67 2.71
535 586 9.965902 ATGGAATCTCTACAAAGACTTACATTT 57.034 29.630 0.00 0.00 0.00 2.32
541 592 9.924650 TCTCTACAAAGACTTACATTTAGGAAC 57.075 33.333 0.00 0.00 0.00 3.62
542 593 8.752766 TCTACAAAGACTTACATTTAGGAACG 57.247 34.615 0.00 0.00 0.00 3.95
543 594 6.796705 ACAAAGACTTACATTTAGGAACGG 57.203 37.500 0.00 0.00 0.00 4.44
544 595 6.527423 ACAAAGACTTACATTTAGGAACGGA 58.473 36.000 0.00 0.00 0.00 4.69
545 596 6.993902 ACAAAGACTTACATTTAGGAACGGAA 59.006 34.615 0.00 0.00 0.00 4.30
546 597 7.172703 ACAAAGACTTACATTTAGGAACGGAAG 59.827 37.037 0.00 0.00 0.00 3.46
547 598 5.731591 AGACTTACATTTAGGAACGGAAGG 58.268 41.667 0.00 0.00 0.00 3.46
548 599 5.482878 AGACTTACATTTAGGAACGGAAGGA 59.517 40.000 0.00 0.00 0.00 3.36
549 600 5.731591 ACTTACATTTAGGAACGGAAGGAG 58.268 41.667 0.00 0.00 0.00 3.69
550 601 5.247792 ACTTACATTTAGGAACGGAAGGAGT 59.752 40.000 0.00 0.00 0.00 3.85
551 602 6.438425 ACTTACATTTAGGAACGGAAGGAGTA 59.562 38.462 0.00 0.00 0.00 2.59
594 645 4.957954 AGAAAAATCTATTGGGCAGCATCA 59.042 37.500 0.00 0.00 0.00 3.07
638 689 1.299620 CACGGTCGGACGTTGAACT 60.300 57.895 1.43 0.00 46.25 3.01
643 694 2.056577 GGTCGGACGTTGAACTAAGTG 58.943 52.381 1.43 0.00 0.00 3.16
644 695 2.287788 GGTCGGACGTTGAACTAAGTGA 60.288 50.000 1.43 0.00 0.00 3.41
645 696 3.572584 GTCGGACGTTGAACTAAGTGAT 58.427 45.455 0.00 0.00 0.00 3.06
646 697 3.607209 GTCGGACGTTGAACTAAGTGATC 59.393 47.826 0.00 0.00 0.00 2.92
647 698 3.253921 TCGGACGTTGAACTAAGTGATCA 59.746 43.478 0.00 0.00 0.00 2.92
648 699 4.082408 TCGGACGTTGAACTAAGTGATCAT 60.082 41.667 0.00 0.00 0.00 2.45
653 704 5.516696 ACGTTGAACTAAGTGATCATGATCG 59.483 40.000 26.52 16.18 40.63 3.69
693 882 1.066787 TGCAATGCCATTCCACATGTG 60.067 47.619 19.31 19.31 0.00 3.21
697 886 0.959867 TGCCATTCCACATGTGACGG 60.960 55.000 27.46 19.89 0.00 4.79
859 1049 5.043903 CCACGACAGATTACGAATCAAGAT 58.956 41.667 9.31 0.00 40.42 2.40
882 1075 2.194201 AATTCCCAAACGTCCACGAT 57.806 45.000 6.03 0.00 43.02 3.73
980 1173 1.084478 GTTTATAAGCGGCGCGTCG 60.084 57.895 31.31 31.31 0.00 5.12
1043 1243 7.090173 CACACGAAAGAAAATCCACCAATAAT 58.910 34.615 0.00 0.00 0.00 1.28
1044 1244 7.598493 CACACGAAAGAAAATCCACCAATAATT 59.402 33.333 0.00 0.00 0.00 1.40
1045 1245 8.147704 ACACGAAAGAAAATCCACCAATAATTT 58.852 29.630 0.00 0.00 0.00 1.82
1046 1246 9.632807 CACGAAAGAAAATCCACCAATAATTTA 57.367 29.630 0.00 0.00 0.00 1.40
1071 1271 2.197324 AAACCTTGCGGCCTTCCA 59.803 55.556 0.00 0.00 0.00 3.53
1074 1274 0.831711 AACCTTGCGGCCTTCCAATT 60.832 50.000 0.00 0.00 0.00 2.32
1592 1795 2.032528 TCCGCAGAGCACAAAGGG 59.967 61.111 0.00 0.00 0.00 3.95
1615 1818 1.649267 GGCAATACGGCTTAGCTGC 59.351 57.895 13.60 9.84 38.71 5.25
1616 1819 1.276844 GCAATACGGCTTAGCTGCG 59.723 57.895 13.60 7.15 38.71 5.18
1617 1820 1.276844 CAATACGGCTTAGCTGCGC 59.723 57.895 13.60 0.00 38.71 6.09
1620 1823 0.387929 ATACGGCTTAGCTGCGCTAA 59.612 50.000 13.60 17.75 46.97 3.09
1680 1891 4.957684 AGCCAGGTGGACATAATACTAC 57.042 45.455 0.00 0.00 37.39 2.73
1681 1892 3.321111 AGCCAGGTGGACATAATACTACG 59.679 47.826 0.00 0.00 37.39 3.51
1682 1893 3.069158 GCCAGGTGGACATAATACTACGT 59.931 47.826 0.00 0.00 37.39 3.57
1683 1894 4.279169 GCCAGGTGGACATAATACTACGTA 59.721 45.833 0.00 0.00 37.39 3.57
1690 1901 8.286097 GGTGGACATAATACTACGTAGTTCTAC 58.714 40.741 31.58 25.62 37.78 2.59
1771 1982 2.279517 GCATCTGTAGACGGCCGG 60.280 66.667 31.76 10.66 0.00 6.13
1772 1983 3.077519 GCATCTGTAGACGGCCGGT 62.078 63.158 31.76 19.09 0.00 5.28
1773 1984 1.226974 CATCTGTAGACGGCCGGTG 60.227 63.158 31.76 12.17 0.00 4.94
1797 2008 0.762418 TCACAGTTGGAATCGGGTGT 59.238 50.000 0.00 0.00 0.00 4.16
1798 2009 1.972075 TCACAGTTGGAATCGGGTGTA 59.028 47.619 0.00 0.00 0.00 2.90
1799 2010 2.073816 CACAGTTGGAATCGGGTGTAC 58.926 52.381 0.00 0.00 0.00 2.90
1800 2011 1.695242 ACAGTTGGAATCGGGTGTACA 59.305 47.619 0.00 0.00 0.00 2.90
1801 2012 2.289444 ACAGTTGGAATCGGGTGTACAG 60.289 50.000 0.00 0.00 0.00 2.74
1802 2013 2.028476 CAGTTGGAATCGGGTGTACAGA 60.028 50.000 0.00 0.00 0.00 3.41
1806 2038 1.409427 GGAATCGGGTGTACAGAGGAG 59.591 57.143 0.00 0.00 0.00 3.69
1808 2040 3.285484 GAATCGGGTGTACAGAGGAGTA 58.715 50.000 0.00 0.00 0.00 2.59
1828 2061 0.661552 CAGCCATTGAGAATCTGCGG 59.338 55.000 0.00 0.00 34.92 5.69
1832 2065 1.009078 CATTGAGAATCTGCGGCGAA 58.991 50.000 12.98 0.00 34.92 4.70
1833 2066 1.009829 ATTGAGAATCTGCGGCGAAC 58.990 50.000 12.98 0.00 34.92 3.95
1834 2067 1.351430 TTGAGAATCTGCGGCGAACG 61.351 55.000 12.98 0.00 40.59 3.95
1835 2068 2.509336 AGAATCTGCGGCGAACGG 60.509 61.111 12.98 0.00 44.51 4.44
1836 2069 3.564027 GAATCTGCGGCGAACGGG 61.564 66.667 12.98 0.00 44.51 5.28
1989 2222 2.173569 AGCACTCTTTCTTCACCCAACT 59.826 45.455 0.00 0.00 0.00 3.16
2035 2268 3.730761 CTGCCGTTCTGCACCAGC 61.731 66.667 0.00 0.00 36.04 4.85
2066 2301 3.958860 GGCAGCACCCACCTCACT 61.959 66.667 0.00 0.00 0.00 3.41
2067 2302 2.592993 GGCAGCACCCACCTCACTA 61.593 63.158 0.00 0.00 0.00 2.74
2068 2303 1.376037 GCAGCACCCACCTCACTAC 60.376 63.158 0.00 0.00 0.00 2.73
2069 2304 2.057830 CAGCACCCACCTCACTACA 58.942 57.895 0.00 0.00 0.00 2.74
2070 2305 0.396435 CAGCACCCACCTCACTACAA 59.604 55.000 0.00 0.00 0.00 2.41
2071 2306 0.396811 AGCACCCACCTCACTACAAC 59.603 55.000 0.00 0.00 0.00 3.32
2072 2307 0.949105 GCACCCACCTCACTACAACG 60.949 60.000 0.00 0.00 0.00 4.10
2073 2308 0.949105 CACCCACCTCACTACAACGC 60.949 60.000 0.00 0.00 0.00 4.84
2074 2309 1.369692 CCCACCTCACTACAACGCA 59.630 57.895 0.00 0.00 0.00 5.24
2091 2326 7.119605 ACAACGCAAATTACAAACGAGTATA 57.880 32.000 0.00 0.00 0.00 1.47
2115 2350 1.160137 CAACTTACTGCTGGGTGCTC 58.840 55.000 0.00 0.00 43.37 4.26
2128 2363 0.752658 GGTGCTCAAGCCCAACTTTT 59.247 50.000 0.00 0.00 41.18 2.27
2129 2364 1.269778 GGTGCTCAAGCCCAACTTTTC 60.270 52.381 0.00 0.00 41.18 2.29
2131 2366 2.106566 TGCTCAAGCCCAACTTTTCAA 58.893 42.857 0.00 0.00 41.18 2.69
2132 2367 2.499289 TGCTCAAGCCCAACTTTTCAAA 59.501 40.909 0.00 0.00 41.18 2.69
2134 2369 3.181476 GCTCAAGCCCAACTTTTCAAAGA 60.181 43.478 6.29 0.00 36.04 2.52
2170 2428 3.444742 TGTTGATTGAATGATGGTGCTCC 59.555 43.478 0.00 0.00 0.00 4.70
2180 2438 3.282557 TGGTGCTCCATTATACGCG 57.717 52.632 3.53 3.53 39.03 6.01
2182 2440 0.600255 GGTGCTCCATTATACGCGCT 60.600 55.000 5.73 0.00 33.69 5.92
2183 2441 0.508641 GTGCTCCATTATACGCGCTG 59.491 55.000 5.73 1.02 0.00 5.18
2185 2443 1.901650 GCTCCATTATACGCGCTGGC 61.902 60.000 5.73 0.00 0.00 4.85
2195 2453 3.044305 GCGCTGGCGAGTGAAGTT 61.044 61.111 19.31 0.00 42.83 2.66
2196 2454 2.856032 CGCTGGCGAGTGAAGTTG 59.144 61.111 9.51 0.00 42.83 3.16
2197 2455 1.956170 CGCTGGCGAGTGAAGTTGT 60.956 57.895 9.51 0.00 42.83 3.32
2198 2456 1.862806 GCTGGCGAGTGAAGTTGTC 59.137 57.895 0.00 0.00 0.00 3.18
2199 2457 0.880278 GCTGGCGAGTGAAGTTGTCA 60.880 55.000 0.00 0.00 0.00 3.58
2200 2458 1.581934 CTGGCGAGTGAAGTTGTCAA 58.418 50.000 0.00 0.00 38.23 3.18
2201 2459 1.261619 CTGGCGAGTGAAGTTGTCAAC 59.738 52.381 7.68 7.68 38.23 3.18
2202 2460 0.232303 GGCGAGTGAAGTTGTCAACG 59.768 55.000 10.02 0.00 38.23 4.10
2203 2461 0.232303 GCGAGTGAAGTTGTCAACGG 59.768 55.000 10.02 0.00 38.23 4.44
2204 2462 1.847818 CGAGTGAAGTTGTCAACGGA 58.152 50.000 10.02 0.00 38.23 4.69
2205 2463 2.404215 CGAGTGAAGTTGTCAACGGAT 58.596 47.619 10.02 1.08 38.23 4.18
2206 2464 2.155732 CGAGTGAAGTTGTCAACGGATG 59.844 50.000 10.02 0.00 38.23 3.51
2207 2465 3.390135 GAGTGAAGTTGTCAACGGATGA 58.610 45.455 10.02 0.00 38.23 2.92
2224 2482 4.808077 GATGACGAATCCTCTACGTACA 57.192 45.455 0.00 0.00 40.29 2.90
2225 2483 5.165911 GATGACGAATCCTCTACGTACAA 57.834 43.478 0.00 0.00 40.29 2.41
2226 2484 4.346734 TGACGAATCCTCTACGTACAAC 57.653 45.455 0.00 0.00 40.29 3.32
2227 2485 3.752747 TGACGAATCCTCTACGTACAACA 59.247 43.478 0.00 0.00 40.29 3.33
2245 2503 3.423154 CACCTTGACGCGCCTTCC 61.423 66.667 5.73 0.00 0.00 3.46
2275 2533 0.320771 TTTCCTGCCGAGACTTCAGC 60.321 55.000 0.00 0.00 0.00 4.26
2282 2540 1.214062 CGAGACTTCAGCCGCTTCT 59.786 57.895 0.00 0.00 0.00 2.85
2293 2551 1.898574 CCGCTTCTTGTGGTGGCTT 60.899 57.895 0.00 0.00 41.27 4.35
2402 2673 0.388134 CGAACCACCGGTACAGACAG 60.388 60.000 6.87 0.00 33.12 3.51
2403 2674 0.677842 GAACCACCGGTACAGACAGT 59.322 55.000 6.87 0.00 33.12 3.55
2404 2675 0.391597 AACCACCGGTACAGACAGTG 59.608 55.000 6.87 0.00 33.12 3.66
2405 2676 1.374252 CCACCGGTACAGACAGTGC 60.374 63.158 6.87 0.00 32.63 4.40
2406 2677 1.666011 CACCGGTACAGACAGTGCT 59.334 57.895 6.87 0.00 32.88 4.40
2407 2678 0.033504 CACCGGTACAGACAGTGCTT 59.966 55.000 6.87 0.00 32.88 3.91
2408 2679 0.033504 ACCGGTACAGACAGTGCTTG 59.966 55.000 4.49 0.00 32.88 4.01
2409 2680 0.033504 CCGGTACAGACAGTGCTTGT 59.966 55.000 0.00 5.56 44.55 3.16
2410 2681 1.271379 CCGGTACAGACAGTGCTTGTA 59.729 52.381 0.00 3.83 41.05 2.41
2411 2682 2.325761 CGGTACAGACAGTGCTTGTAC 58.674 52.381 21.07 21.07 41.05 2.90
2412 2683 2.287970 CGGTACAGACAGTGCTTGTACA 60.288 50.000 26.27 0.00 41.05 2.90
2413 2684 3.724374 GGTACAGACAGTGCTTGTACAA 58.276 45.455 26.27 8.28 41.05 2.41
2438 2709 1.308998 ACGAACAGGACAGCAAAAGG 58.691 50.000 0.00 0.00 0.00 3.11
2475 2746 2.159787 CGTTCTGAAACATCTTCGGCAG 60.160 50.000 0.00 0.00 34.93 4.85
2527 2798 1.300963 CTGGGCTGCCACATGTACT 59.699 57.895 22.05 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
115 116 9.083422 TCCTACTGAATCCTACATGATTAGAAG 57.917 37.037 0.00 0.00 35.15 2.85
136 137 1.336609 GGGTCAAGTGTCACGTCCTAC 60.337 57.143 0.00 0.00 0.00 3.18
151 152 4.798882 ACAAATAGGAAAACACAGGGTCA 58.201 39.130 0.00 0.00 0.00 4.02
201 202 4.587056 GATGTTCCCATCCAGCCC 57.413 61.111 0.00 0.00 41.43 5.19
242 243 0.240945 CTTGGCGCAAAATTCCGACT 59.759 50.000 10.83 0.00 32.65 4.18
270 271 1.921243 ACAACTTTGCCGCAAACTTC 58.079 45.000 14.60 0.00 0.00 3.01
271 272 3.380142 CATACAACTTTGCCGCAAACTT 58.620 40.909 14.60 9.35 0.00 2.66
350 351 3.837355 AGAAATGGTATGGAAGCCATCC 58.163 45.455 1.57 5.33 40.74 3.51
351 352 8.680903 CATATAAGAAATGGTATGGAAGCCATC 58.319 37.037 1.57 0.00 40.74 3.51
352 353 8.393259 TCATATAAGAAATGGTATGGAAGCCAT 58.607 33.333 4.18 4.18 46.99 4.40
389 440 3.716431 ACATTTAGGAACGGAGGGAGTA 58.284 45.455 0.00 0.00 0.00 2.59
390 441 2.547990 ACATTTAGGAACGGAGGGAGT 58.452 47.619 0.00 0.00 0.00 3.85
391 442 4.161754 ACTTACATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
392 443 4.098894 ACTTACATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
393 444 4.482952 ACTTACATTTAGGAACGGAGGG 57.517 45.455 0.00 0.00 0.00 4.30
394 445 6.812879 AAAACTTACATTTAGGAACGGAGG 57.187 37.500 0.00 0.00 0.00 4.30
395 446 7.645402 ACAAAAACTTACATTTAGGAACGGAG 58.355 34.615 0.00 0.00 0.00 4.63
396 447 7.571080 ACAAAAACTTACATTTAGGAACGGA 57.429 32.000 0.00 0.00 0.00 4.69
397 448 8.776470 TCTACAAAAACTTACATTTAGGAACGG 58.224 33.333 0.00 0.00 0.00 4.44
398 449 9.807386 CTCTACAAAAACTTACATTTAGGAACG 57.193 33.333 0.00 0.00 0.00 3.95
427 478 6.755141 GCTCCGTATGTAGTTCATTTAGTGAA 59.245 38.462 0.00 0.00 44.36 3.18
428 479 6.127563 TGCTCCGTATGTAGTTCATTTAGTGA 60.128 38.462 0.00 0.00 37.91 3.41
429 480 6.040247 TGCTCCGTATGTAGTTCATTTAGTG 58.960 40.000 0.00 0.00 37.91 2.74
430 481 6.216801 TGCTCCGTATGTAGTTCATTTAGT 57.783 37.500 0.00 0.00 37.91 2.24
431 482 7.534085 TTTGCTCCGTATGTAGTTCATTTAG 57.466 36.000 0.00 0.00 37.91 1.85
432 483 7.908827 TTTTGCTCCGTATGTAGTTCATTTA 57.091 32.000 0.00 0.00 37.91 1.40
433 484 6.811253 TTTTGCTCCGTATGTAGTTCATTT 57.189 33.333 0.00 0.00 37.91 2.32
434 485 6.597672 TCATTTTGCTCCGTATGTAGTTCATT 59.402 34.615 0.00 0.00 37.91 2.57
435 486 6.112734 TCATTTTGCTCCGTATGTAGTTCAT 58.887 36.000 0.00 0.00 40.25 2.57
436 487 5.483811 TCATTTTGCTCCGTATGTAGTTCA 58.516 37.500 0.00 0.00 0.00 3.18
437 488 6.417191 TTCATTTTGCTCCGTATGTAGTTC 57.583 37.500 0.00 0.00 0.00 3.01
438 489 6.597672 TCATTCATTTTGCTCCGTATGTAGTT 59.402 34.615 0.00 0.00 0.00 2.24
439 490 6.112734 TCATTCATTTTGCTCCGTATGTAGT 58.887 36.000 0.00 0.00 0.00 2.73
440 491 6.603237 TCATTCATTTTGCTCCGTATGTAG 57.397 37.500 0.00 0.00 0.00 2.74
441 492 6.993786 TTCATTCATTTTGCTCCGTATGTA 57.006 33.333 0.00 0.00 0.00 2.29
442 493 5.895636 TTCATTCATTTTGCTCCGTATGT 57.104 34.783 0.00 0.00 0.00 2.29
443 494 6.732154 AGATTCATTCATTTTGCTCCGTATG 58.268 36.000 0.00 0.00 0.00 2.39
444 495 6.949352 AGATTCATTCATTTTGCTCCGTAT 57.051 33.333 0.00 0.00 0.00 3.06
445 496 7.857734 TTAGATTCATTCATTTTGCTCCGTA 57.142 32.000 0.00 0.00 0.00 4.02
446 497 6.757897 TTAGATTCATTCATTTTGCTCCGT 57.242 33.333 0.00 0.00 0.00 4.69
447 498 7.253422 AGTTTAGATTCATTCATTTTGCTCCG 58.747 34.615 0.00 0.00 0.00 4.63
448 499 8.992835 AAGTTTAGATTCATTCATTTTGCTCC 57.007 30.769 0.00 0.00 0.00 4.70
508 559 9.965902 AATGTAAGTCTTTGTAGAGATTCCATT 57.034 29.630 0.00 0.00 0.00 3.16
509 560 9.965902 AAATGTAAGTCTTTGTAGAGATTCCAT 57.034 29.630 0.00 0.00 0.00 3.41
515 566 9.924650 GTTCCTAAATGTAAGTCTTTGTAGAGA 57.075 33.333 0.00 0.00 0.00 3.10
516 567 8.861101 CGTTCCTAAATGTAAGTCTTTGTAGAG 58.139 37.037 0.00 0.00 0.00 2.43
517 568 7.816031 CCGTTCCTAAATGTAAGTCTTTGTAGA 59.184 37.037 0.00 0.00 0.00 2.59
518 569 7.816031 TCCGTTCCTAAATGTAAGTCTTTGTAG 59.184 37.037 0.00 0.00 0.00 2.74
519 570 7.669427 TCCGTTCCTAAATGTAAGTCTTTGTA 58.331 34.615 0.00 0.00 0.00 2.41
520 571 6.527423 TCCGTTCCTAAATGTAAGTCTTTGT 58.473 36.000 0.00 0.00 0.00 2.83
521 572 7.360946 CCTTCCGTTCCTAAATGTAAGTCTTTG 60.361 40.741 0.00 0.00 0.00 2.77
522 573 6.653740 CCTTCCGTTCCTAAATGTAAGTCTTT 59.346 38.462 0.00 0.00 0.00 2.52
523 574 6.013984 TCCTTCCGTTCCTAAATGTAAGTCTT 60.014 38.462 0.00 0.00 0.00 3.01
524 575 5.482878 TCCTTCCGTTCCTAAATGTAAGTCT 59.517 40.000 0.00 0.00 0.00 3.24
525 576 5.727434 TCCTTCCGTTCCTAAATGTAAGTC 58.273 41.667 0.00 0.00 0.00 3.01
526 577 5.247792 ACTCCTTCCGTTCCTAAATGTAAGT 59.752 40.000 0.00 0.00 0.00 2.24
527 578 5.731591 ACTCCTTCCGTTCCTAAATGTAAG 58.268 41.667 0.00 0.00 0.00 2.34
528 579 5.750352 ACTCCTTCCGTTCCTAAATGTAA 57.250 39.130 0.00 0.00 0.00 2.41
529 580 5.716228 TGTACTCCTTCCGTTCCTAAATGTA 59.284 40.000 0.00 0.00 0.00 2.29
530 581 4.529377 TGTACTCCTTCCGTTCCTAAATGT 59.471 41.667 0.00 0.00 0.00 2.71
531 582 5.080969 TGTACTCCTTCCGTTCCTAAATG 57.919 43.478 0.00 0.00 0.00 2.32
532 583 5.189145 ACATGTACTCCTTCCGTTCCTAAAT 59.811 40.000 0.00 0.00 0.00 1.40
533 584 4.529377 ACATGTACTCCTTCCGTTCCTAAA 59.471 41.667 0.00 0.00 0.00 1.85
534 585 4.091549 ACATGTACTCCTTCCGTTCCTAA 58.908 43.478 0.00 0.00 0.00 2.69
535 586 3.698040 GACATGTACTCCTTCCGTTCCTA 59.302 47.826 0.00 0.00 0.00 2.94
536 587 2.496470 GACATGTACTCCTTCCGTTCCT 59.504 50.000 0.00 0.00 0.00 3.36
537 588 2.496470 AGACATGTACTCCTTCCGTTCC 59.504 50.000 0.00 0.00 0.00 3.62
538 589 3.870633 AGACATGTACTCCTTCCGTTC 57.129 47.619 0.00 0.00 0.00 3.95
539 590 5.661458 CATAAGACATGTACTCCTTCCGTT 58.339 41.667 0.00 0.00 0.00 4.44
540 591 4.441634 GCATAAGACATGTACTCCTTCCGT 60.442 45.833 0.00 0.00 0.00 4.69
541 592 4.051922 GCATAAGACATGTACTCCTTCCG 58.948 47.826 0.00 0.00 0.00 4.30
542 593 4.051922 CGCATAAGACATGTACTCCTTCC 58.948 47.826 0.00 0.00 0.00 3.46
543 594 4.683832 ACGCATAAGACATGTACTCCTTC 58.316 43.478 0.00 0.00 0.00 3.46
544 595 4.737855 ACGCATAAGACATGTACTCCTT 57.262 40.909 0.00 0.00 0.00 3.36
545 596 6.265649 AGAATACGCATAAGACATGTACTCCT 59.734 38.462 0.00 0.00 0.00 3.69
546 597 6.448006 AGAATACGCATAAGACATGTACTCC 58.552 40.000 0.00 0.00 0.00 3.85
547 598 8.504815 TCTAGAATACGCATAAGACATGTACTC 58.495 37.037 0.00 0.00 0.00 2.59
548 599 8.392372 TCTAGAATACGCATAAGACATGTACT 57.608 34.615 0.00 0.00 0.00 2.73
549 600 9.459640 TTTCTAGAATACGCATAAGACATGTAC 57.540 33.333 5.89 0.00 0.00 2.90
551 602 8.942338 TTTTCTAGAATACGCATAAGACATGT 57.058 30.769 5.89 0.00 0.00 3.21
653 704 4.095334 TGCATTACAGAGTTGCATGATCAC 59.905 41.667 0.00 0.00 41.18 3.06
693 882 5.164022 CCAGTAAACAAAATACTCGTCCGTC 60.164 44.000 0.00 0.00 31.33 4.79
697 886 4.435121 CCGCCAGTAAACAAAATACTCGTC 60.435 45.833 0.00 0.00 31.33 4.20
837 1027 5.743872 TCATCTTGATTCGTAATCTGTCGTG 59.256 40.000 8.41 3.56 38.72 4.35
859 1049 3.004171 CGTGGACGTTTGGGAATTATCA 58.996 45.455 0.00 0.00 34.11 2.15
868 1058 1.194547 CTCAACATCGTGGACGTTTGG 59.805 52.381 0.00 0.00 40.80 3.28
882 1075 6.377327 TTTGGTTTTTGTTTTTGCTCAACA 57.623 29.167 0.00 0.00 32.16 3.33
1071 1271 0.390209 GGCGTTGCATGCTTGGAATT 60.390 50.000 20.33 0.00 35.50 2.17
1074 1274 2.596923 TGGCGTTGCATGCTTGGA 60.597 55.556 20.33 0.00 0.00 3.53
1588 1791 2.437716 CGTATTGCCGGTGCCCTT 60.438 61.111 1.90 0.00 36.33 3.95
1615 1818 6.032775 CCATGCGCATTTTTATCTTATTAGCG 59.967 38.462 22.81 2.61 44.77 4.26
1616 1819 6.308766 CCCATGCGCATTTTTATCTTATTAGC 59.691 38.462 22.81 0.00 0.00 3.09
1617 1820 7.538678 GTCCCATGCGCATTTTTATCTTATTAG 59.461 37.037 22.81 3.74 0.00 1.73
1620 1823 5.536161 AGTCCCATGCGCATTTTTATCTTAT 59.464 36.000 22.81 0.00 0.00 1.73
1626 1837 2.441410 TCAGTCCCATGCGCATTTTTA 58.559 42.857 22.81 3.56 0.00 1.52
1680 1891 1.467035 GGTCGCCACAGTAGAACTACG 60.467 57.143 6.37 4.86 40.80 3.51
1681 1892 1.542915 TGGTCGCCACAGTAGAACTAC 59.457 52.381 4.05 4.05 36.35 2.73
1682 1893 1.913778 TGGTCGCCACAGTAGAACTA 58.086 50.000 0.00 0.00 0.00 2.24
1683 1894 1.045407 TTGGTCGCCACAGTAGAACT 58.955 50.000 0.00 0.00 30.78 3.01
1690 1901 9.528018 AAAAATAAATATAATTGGTCGCCACAG 57.472 29.630 0.00 0.00 30.78 3.66
1771 1982 2.032030 CGATTCCAACTGTGAACACCAC 60.032 50.000 2.46 0.00 45.88 4.16
1772 1983 2.217750 CGATTCCAACTGTGAACACCA 58.782 47.619 2.46 0.00 0.00 4.17
1773 1984 1.535462 CCGATTCCAACTGTGAACACC 59.465 52.381 2.46 0.00 0.00 4.16
1797 2008 3.701542 CTCAATGGCTGTACTCCTCTGTA 59.298 47.826 0.00 0.00 0.00 2.74
1798 2009 2.499289 CTCAATGGCTGTACTCCTCTGT 59.501 50.000 0.00 0.00 0.00 3.41
1799 2010 2.762887 TCTCAATGGCTGTACTCCTCTG 59.237 50.000 0.00 0.00 0.00 3.35
1800 2011 3.107402 TCTCAATGGCTGTACTCCTCT 57.893 47.619 0.00 0.00 0.00 3.69
1801 2012 3.895232 TTCTCAATGGCTGTACTCCTC 57.105 47.619 0.00 0.00 0.00 3.71
1802 2013 4.036518 AGATTCTCAATGGCTGTACTCCT 58.963 43.478 0.00 0.00 0.00 3.69
1806 2038 2.286294 CGCAGATTCTCAATGGCTGTAC 59.714 50.000 0.00 0.00 0.00 2.90
1808 2040 1.376543 CGCAGATTCTCAATGGCTGT 58.623 50.000 0.00 0.00 0.00 4.40
1828 2061 1.772063 ATATTGCTTCGCCCGTTCGC 61.772 55.000 0.00 0.00 0.00 4.70
1832 2065 0.597637 CTCGATATTGCTTCGCCCGT 60.598 55.000 0.00 0.00 36.56 5.28
1833 2066 0.597637 ACTCGATATTGCTTCGCCCG 60.598 55.000 0.00 0.00 36.56 6.13
1834 2067 2.433868 TACTCGATATTGCTTCGCCC 57.566 50.000 0.00 0.00 36.56 6.13
1835 2068 3.365220 GTGATACTCGATATTGCTTCGCC 59.635 47.826 0.00 0.00 36.56 5.54
1836 2069 3.981416 TGTGATACTCGATATTGCTTCGC 59.019 43.478 0.00 0.00 36.56 4.70
1837 2070 6.019881 TGTTTGTGATACTCGATATTGCTTCG 60.020 38.462 0.00 0.00 37.94 3.79
1838 2071 7.234187 TGTTTGTGATACTCGATATTGCTTC 57.766 36.000 0.00 0.00 0.00 3.86
1839 2072 7.609760 TTGTTTGTGATACTCGATATTGCTT 57.390 32.000 0.00 0.00 0.00 3.91
1840 2073 7.609760 TTTGTTTGTGATACTCGATATTGCT 57.390 32.000 0.00 0.00 0.00 3.91
1841 2074 8.841444 ATTTTGTTTGTGATACTCGATATTGC 57.159 30.769 0.00 0.00 0.00 3.56
1851 2084 7.201266 CGCTCTTGCTTATTTTGTTTGTGATAC 60.201 37.037 0.00 0.00 36.97 2.24
1989 2222 4.451150 GTGTCCAGATGCCGCCGA 62.451 66.667 0.00 0.00 0.00 5.54
2065 2300 5.437263 ACTCGTTTGTAATTTGCGTTGTAG 58.563 37.500 0.00 0.00 0.00 2.74
2066 2301 5.406767 ACTCGTTTGTAATTTGCGTTGTA 57.593 34.783 0.00 0.00 0.00 2.41
2067 2302 4.281525 ACTCGTTTGTAATTTGCGTTGT 57.718 36.364 0.00 0.00 0.00 3.32
2068 2303 7.900864 TGATATACTCGTTTGTAATTTGCGTTG 59.099 33.333 0.00 0.00 0.00 4.10
2069 2304 7.966111 TGATATACTCGTTTGTAATTTGCGTT 58.034 30.769 0.00 0.00 0.00 4.84
2070 2305 7.528481 TGATATACTCGTTTGTAATTTGCGT 57.472 32.000 0.00 0.00 0.00 5.24
2071 2306 8.272866 TGATGATATACTCGTTTGTAATTTGCG 58.727 33.333 0.00 0.00 0.00 4.85
2072 2307 9.929722 TTGATGATATACTCGTTTGTAATTTGC 57.070 29.630 0.00 0.00 0.00 3.68
2091 2326 3.614092 CACCCAGCAGTAAGTTGATGAT 58.386 45.455 0.00 0.00 36.61 2.45
2115 2350 3.721035 CCTCTTTGAAAAGTTGGGCTTG 58.279 45.455 2.88 0.00 37.52 4.01
2122 2357 4.520492 ACATCATCGCCTCTTTGAAAAGTT 59.480 37.500 2.88 0.00 37.31 2.66
2128 2363 4.769688 ACAATACATCATCGCCTCTTTGA 58.230 39.130 0.00 0.00 0.00 2.69
2129 2364 5.065090 TCAACAATACATCATCGCCTCTTTG 59.935 40.000 0.00 0.00 0.00 2.77
2131 2366 4.769688 TCAACAATACATCATCGCCTCTT 58.230 39.130 0.00 0.00 0.00 2.85
2132 2367 4.406648 TCAACAATACATCATCGCCTCT 57.593 40.909 0.00 0.00 0.00 3.69
2134 2369 5.125356 TCAATCAACAATACATCATCGCCT 58.875 37.500 0.00 0.00 0.00 5.52
2178 2436 3.044305 AACTTCACTCGCCAGCGC 61.044 61.111 7.27 0.00 39.59 5.92
2179 2437 1.891060 GACAACTTCACTCGCCAGCG 61.891 60.000 5.50 5.50 41.35 5.18
2180 2438 0.880278 TGACAACTTCACTCGCCAGC 60.880 55.000 0.00 0.00 0.00 4.85
2182 2440 1.295792 GTTGACAACTTCACTCGCCA 58.704 50.000 11.18 0.00 32.26 5.69
2183 2441 0.232303 CGTTGACAACTTCACTCGCC 59.768 55.000 16.02 0.00 32.26 5.54
2185 2443 1.847818 TCCGTTGACAACTTCACTCG 58.152 50.000 16.02 1.27 32.26 4.18
2186 2444 3.390135 TCATCCGTTGACAACTTCACTC 58.610 45.455 16.02 0.00 32.26 3.51
2187 2445 3.469008 TCATCCGTTGACAACTTCACT 57.531 42.857 16.02 0.00 32.26 3.41
2203 2461 4.808077 TGTACGTAGAGGATTCGTCATC 57.192 45.455 8.91 1.16 38.69 2.92
2204 2462 4.397103 TGTTGTACGTAGAGGATTCGTCAT 59.603 41.667 8.91 0.00 38.69 3.06
2205 2463 3.752747 TGTTGTACGTAGAGGATTCGTCA 59.247 43.478 8.91 0.00 38.69 4.35
2206 2464 4.094212 GTGTTGTACGTAGAGGATTCGTC 58.906 47.826 0.00 0.00 38.69 4.20
2207 2465 3.503363 TGTGTTGTACGTAGAGGATTCGT 59.497 43.478 0.00 0.00 40.78 3.85
2208 2466 3.850273 GTGTGTTGTACGTAGAGGATTCG 59.150 47.826 0.00 0.00 0.00 3.34
2209 2467 4.082354 AGGTGTGTTGTACGTAGAGGATTC 60.082 45.833 0.00 0.00 0.00 2.52
2210 2468 3.830755 AGGTGTGTTGTACGTAGAGGATT 59.169 43.478 0.00 0.00 0.00 3.01
2211 2469 3.428532 AGGTGTGTTGTACGTAGAGGAT 58.571 45.455 0.00 0.00 0.00 3.24
2212 2470 2.867624 AGGTGTGTTGTACGTAGAGGA 58.132 47.619 0.00 0.00 0.00 3.71
2213 2471 3.005050 TCAAGGTGTGTTGTACGTAGAGG 59.995 47.826 0.00 0.00 0.00 3.69
2214 2472 3.979495 GTCAAGGTGTGTTGTACGTAGAG 59.021 47.826 0.00 0.00 0.00 2.43
2215 2473 3.548616 CGTCAAGGTGTGTTGTACGTAGA 60.549 47.826 0.00 0.00 31.80 2.59
2216 2474 2.722629 CGTCAAGGTGTGTTGTACGTAG 59.277 50.000 0.00 0.00 31.80 3.51
2217 2475 2.730069 CGTCAAGGTGTGTTGTACGTA 58.270 47.619 0.00 0.00 31.80 3.57
2218 2476 1.563111 CGTCAAGGTGTGTTGTACGT 58.437 50.000 0.00 0.00 31.80 3.57
2219 2477 0.231279 GCGTCAAGGTGTGTTGTACG 59.769 55.000 0.00 0.00 35.70 3.67
2220 2478 0.231279 CGCGTCAAGGTGTGTTGTAC 59.769 55.000 0.00 0.00 0.00 2.90
2221 2479 1.492319 GCGCGTCAAGGTGTGTTGTA 61.492 55.000 8.43 0.00 0.00 2.41
2222 2480 2.819552 GCGCGTCAAGGTGTGTTGT 61.820 57.895 8.43 0.00 0.00 3.32
2223 2481 2.052237 GCGCGTCAAGGTGTGTTG 60.052 61.111 8.43 0.00 0.00 3.33
2224 2482 3.276846 GGCGCGTCAAGGTGTGTT 61.277 61.111 5.47 0.00 0.00 3.32
2225 2483 3.750373 AAGGCGCGTCAAGGTGTGT 62.750 57.895 15.58 0.00 0.00 3.72
2226 2484 2.954753 GAAGGCGCGTCAAGGTGTG 61.955 63.158 15.58 0.00 0.00 3.82
2227 2485 2.665185 GAAGGCGCGTCAAGGTGT 60.665 61.111 15.58 0.00 0.00 4.16
2245 2503 0.804989 GGCAGGAAAATGGACACGAG 59.195 55.000 0.00 0.00 0.00 4.18
2275 2533 1.856265 GAAGCCACCACAAGAAGCGG 61.856 60.000 0.00 0.00 0.00 5.52
2323 2581 6.916440 TGCATATGTAAATGATGCTTGGATC 58.084 36.000 4.29 0.00 45.04 3.36
2342 2601 2.290008 ACGATGGTCAACCTGTTGCATA 60.290 45.455 5.14 0.00 40.24 3.14
2376 2647 2.164219 TGTACCGGTGGTTCGTAATCTC 59.836 50.000 19.93 0.00 37.09 2.75
2406 2677 4.330620 GTCCTGTTCGTTTGTCTTGTACAA 59.669 41.667 8.28 8.28 46.41 2.41
2407 2678 3.866910 GTCCTGTTCGTTTGTCTTGTACA 59.133 43.478 0.00 0.00 35.88 2.90
2408 2679 3.866910 TGTCCTGTTCGTTTGTCTTGTAC 59.133 43.478 0.00 0.00 0.00 2.90
2409 2680 4.116961 CTGTCCTGTTCGTTTGTCTTGTA 58.883 43.478 0.00 0.00 0.00 2.41
2410 2681 2.936498 CTGTCCTGTTCGTTTGTCTTGT 59.064 45.455 0.00 0.00 0.00 3.16
2411 2682 2.286418 GCTGTCCTGTTCGTTTGTCTTG 60.286 50.000 0.00 0.00 0.00 3.02
2412 2683 1.940613 GCTGTCCTGTTCGTTTGTCTT 59.059 47.619 0.00 0.00 0.00 3.01
2413 2684 1.134521 TGCTGTCCTGTTCGTTTGTCT 60.135 47.619 0.00 0.00 0.00 3.41
2438 2709 5.401550 TCAGAACGAAATTGATGCCATTTC 58.598 37.500 0.00 0.00 0.00 2.17
2527 2798 8.956426 CACATTTTCAGGAAGGCTTAATAGTTA 58.044 33.333 0.00 0.00 0.00 2.24
2575 2846 2.461300 TCCACTCCACATCTCTAGGG 57.539 55.000 0.00 0.00 0.00 3.53
2576 2847 2.632028 CCATCCACTCCACATCTCTAGG 59.368 54.545 0.00 0.00 0.00 3.02
2577 2848 3.303938 ACCATCCACTCCACATCTCTAG 58.696 50.000 0.00 0.00 0.00 2.43
2578 2849 3.404869 ACCATCCACTCCACATCTCTA 57.595 47.619 0.00 0.00 0.00 2.43
2579 2850 2.260639 ACCATCCACTCCACATCTCT 57.739 50.000 0.00 0.00 0.00 3.10
2580 2851 3.300388 TCTACCATCCACTCCACATCTC 58.700 50.000 0.00 0.00 0.00 2.75


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

AutoCloner maintained by Alex Coulton.