Multiple sequence alignment - TraesCS4A01G284100

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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 TraesCS4A01G284100 chr4A 100.000 2288 0 0 1 2288 590901341 590899054 0.000000e+00 4226.0
1 TraesCS4A01G284100 chr4D 88.985 1734 101 37 508 2175 11575287 11576996 0.000000e+00 2061.0
2 TraesCS4A01G284100 chr4D 92.228 193 11 3 207 397 11575069 11575259 1.040000e-68 270.0
3 TraesCS4A01G284100 chr4D 86.321 212 14 6 1 212 11574840 11575036 1.380000e-52 217.0
4 TraesCS4A01G284100 chr4B 88.366 722 41 15 710 1411 21378802 21379500 0.000000e+00 828.0
5 TraesCS4A01G284100 chr4B 84.639 319 35 7 1725 2034 21379809 21380122 2.860000e-79 305.0
6 TraesCS4A01G284100 chr4B 81.962 316 24 11 1 312 21377999 21378285 1.060000e-58 237.0
7 TraesCS4A01G284100 chr4B 82.026 306 30 10 1352 1641 21379503 21379799 1.060000e-58 237.0
8 TraesCS4A01G284100 chr7B 97.872 47 1 0 1644 1690 559140315 559140269 5.240000e-12 82.4
9 TraesCS4A01G284100 chrUn 95.745 47 2 0 1644 1690 93417014 93417060 2.440000e-10 76.8
10 TraesCS4A01G284100 chrUn 95.745 47 2 0 1644 1690 97067178 97067224 2.440000e-10 76.8
11 TraesCS4A01G284100 chrUn 95.745 47 2 0 1644 1690 278886166 278886212 2.440000e-10 76.8
12 TraesCS4A01G284100 chrUn 95.745 47 2 0 1644 1690 327660546 327660592 2.440000e-10 76.8
13 TraesCS4A01G284100 chr6D 95.745 47 2 0 1644 1690 168246536 168246490 2.440000e-10 76.8
14 TraesCS4A01G284100 chr1D 95.745 47 2 0 1644 1690 144238040 144237994 2.440000e-10 76.8
15 TraesCS4A01G284100 chr1D 95.745 47 2 0 1644 1690 254516860 254516814 2.440000e-10 76.8


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 TraesCS4A01G284100 chr4A 590899054 590901341 2287 True 4226.000000 4226 100.00000 1 2288 1 chr4A.!!$R1 2287
1 TraesCS4A01G284100 chr4D 11574840 11576996 2156 False 849.333333 2061 89.17800 1 2175 3 chr4D.!!$F1 2174
2 TraesCS4A01G284100 chr4B 21377999 21380122 2123 False 401.750000 828 84.24825 1 2034 4 chr4B.!!$F1 2033

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
486 614 0.107017 CTAGTCCCCAATGGCCAGTG 60.107 60.0 26.11 26.11 0.0 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1336 1610 0.599204 GACGGAAGGAACAACGAGCA 60.599 55.0 0.0 0.0 0.0 4.26 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
38 39 5.271625 GCTTGATTGTACATCATGCTTCTG 58.728 41.667 23.49 8.32 42.41 3.02
122 123 6.769822 CCTTCCAGCAGAAATATGATGTACTT 59.230 38.462 0.00 0.00 34.79 2.24
123 124 7.933577 CCTTCCAGCAGAAATATGATGTACTTA 59.066 37.037 0.00 0.00 34.79 2.24
124 125 8.662781 TTCCAGCAGAAATATGATGTACTTAC 57.337 34.615 0.00 0.00 34.79 2.34
125 126 8.023021 TCCAGCAGAAATATGATGTACTTACT 57.977 34.615 0.00 0.00 34.79 2.24
153 154 1.118838 AGCAGGACTAGGTCTGATGC 58.881 55.000 15.81 11.50 37.04 3.91
168 169 4.037222 TCTGATGCCTTTCCTGGTGTATA 58.963 43.478 0.00 0.00 0.00 1.47
177 178 6.431852 GCCTTTCCTGGTGTATAAAACTAACA 59.568 38.462 0.00 0.00 0.00 2.41
180 181 9.840427 CTTTCCTGGTGTATAAAACTAACATTG 57.160 33.333 0.00 0.00 0.00 2.82
218 257 5.468746 TGTAACACTAAGGACATGCAAGTTC 59.531 40.000 0.00 0.00 0.00 3.01
221 260 2.038557 ACTAAGGACATGCAAGTTCGGT 59.961 45.455 0.00 0.00 0.00 4.69
271 310 2.101582 TGCGCCACACCTTTTTAACATT 59.898 40.909 4.18 0.00 0.00 2.71
313 354 5.923733 TGTTTTCTAGCCAACTTTTTCCA 57.076 34.783 5.71 0.00 0.00 3.53
314 355 5.656480 TGTTTTCTAGCCAACTTTTTCCAC 58.344 37.500 5.71 0.00 0.00 4.02
315 356 5.186021 TGTTTTCTAGCCAACTTTTTCCACA 59.814 36.000 5.71 0.00 0.00 4.17
316 357 5.514274 TTTCTAGCCAACTTTTTCCACAG 57.486 39.130 0.00 0.00 0.00 3.66
317 358 2.884639 TCTAGCCAACTTTTTCCACAGC 59.115 45.455 0.00 0.00 0.00 4.40
319 360 0.597377 GCCAACTTTTTCCACAGCCG 60.597 55.000 0.00 0.00 0.00 5.52
322 363 1.403679 CAACTTTTTCCACAGCCGTGA 59.596 47.619 0.37 0.00 46.80 4.35
325 366 1.946768 CTTTTTCCACAGCCGTGAGAA 59.053 47.619 0.37 0.95 46.80 2.87
391 516 7.201679 CCATCTTGAATTTCTAGGCAGTGTTAG 60.202 40.741 7.80 0.00 0.00 2.34
404 532 3.548818 GCAGTGTTAGGAACTTGCAACAG 60.549 47.826 0.00 0.00 41.75 3.16
406 534 4.516698 CAGTGTTAGGAACTTGCAACAGAT 59.483 41.667 0.00 0.00 41.75 2.90
424 552 9.766277 GCAACAGATTAAAATAGAAAGAGTGAG 57.234 33.333 0.00 0.00 0.00 3.51
437 565 7.375106 AGAAAGAGTGAGATATTTGCAACAG 57.625 36.000 0.00 0.00 0.00 3.16
438 566 7.164122 AGAAAGAGTGAGATATTTGCAACAGA 58.836 34.615 0.00 0.00 0.00 3.41
439 567 6.981762 AAGAGTGAGATATTTGCAACAGAG 57.018 37.500 0.00 0.00 0.00 3.35
440 568 6.047511 AGAGTGAGATATTTGCAACAGAGT 57.952 37.500 0.00 0.00 0.00 3.24
442 570 4.940046 AGTGAGATATTTGCAACAGAGTGG 59.060 41.667 0.00 0.00 0.00 4.00
444 572 5.182001 GTGAGATATTTGCAACAGAGTGGTT 59.818 40.000 0.00 0.00 0.00 3.67
446 574 6.939730 TGAGATATTTGCAACAGAGTGGTTAA 59.060 34.615 0.00 0.00 0.00 2.01
447 575 7.446931 TGAGATATTTGCAACAGAGTGGTTAAA 59.553 33.333 0.00 0.00 0.00 1.52
448 576 8.353423 AGATATTTGCAACAGAGTGGTTAAAT 57.647 30.769 0.00 0.00 0.00 1.40
449 577 8.246180 AGATATTTGCAACAGAGTGGTTAAATG 58.754 33.333 0.00 0.00 0.00 2.32
450 578 3.641437 TGCAACAGAGTGGTTAAATGC 57.359 42.857 0.00 0.00 0.00 3.56
451 579 2.954989 TGCAACAGAGTGGTTAAATGCA 59.045 40.909 0.00 0.00 0.00 3.96
452 580 3.004629 TGCAACAGAGTGGTTAAATGCAG 59.995 43.478 0.00 0.00 0.00 4.41
453 581 3.568538 CAACAGAGTGGTTAAATGCAGC 58.431 45.455 0.00 0.00 0.00 5.25
454 582 2.862541 ACAGAGTGGTTAAATGCAGCA 58.137 42.857 0.00 0.00 0.00 4.41
455 583 3.424703 ACAGAGTGGTTAAATGCAGCAT 58.575 40.909 0.52 0.52 0.00 3.79
456 584 3.828451 ACAGAGTGGTTAAATGCAGCATT 59.172 39.130 15.33 15.33 35.39 3.56
457 585 4.171005 CAGAGTGGTTAAATGCAGCATTG 58.829 43.478 21.56 1.68 34.04 2.82
458 586 4.081406 AGAGTGGTTAAATGCAGCATTGA 58.919 39.130 21.56 11.57 34.04 2.57
460 588 5.887598 AGAGTGGTTAAATGCAGCATTGATA 59.112 36.000 21.56 8.34 34.04 2.15
461 589 5.894807 AGTGGTTAAATGCAGCATTGATAC 58.105 37.500 21.56 17.37 34.04 2.24
463 591 6.097270 AGTGGTTAAATGCAGCATTGATACAT 59.903 34.615 21.56 7.16 34.04 2.29
464 592 6.418819 GTGGTTAAATGCAGCATTGATACATC 59.581 38.462 21.56 11.48 34.04 3.06
465 593 6.096564 TGGTTAAATGCAGCATTGATACATCA 59.903 34.615 21.56 2.99 34.04 3.07
482 610 0.623723 TCAACTAGTCCCCAATGGCC 59.376 55.000 0.00 0.00 0.00 5.36
483 611 0.331278 CAACTAGTCCCCAATGGCCA 59.669 55.000 8.56 8.56 0.00 5.36
484 612 0.625849 AACTAGTCCCCAATGGCCAG 59.374 55.000 13.05 0.00 0.00 4.85
485 613 0.550147 ACTAGTCCCCAATGGCCAGT 60.550 55.000 13.05 5.37 0.00 4.00
486 614 0.107017 CTAGTCCCCAATGGCCAGTG 60.107 60.000 26.11 26.11 0.00 3.66
487 615 2.210144 TAGTCCCCAATGGCCAGTGC 62.210 60.000 27.54 13.75 0.00 4.40
489 617 2.757099 CCCCAATGGCCAGTGCTC 60.757 66.667 27.54 0.00 37.74 4.26
491 619 2.345760 CCCAATGGCCAGTGCTCAC 61.346 63.158 27.54 0.00 37.74 3.51
493 621 0.896940 CCAATGGCCAGTGCTCACTT 60.897 55.000 27.54 2.47 40.20 3.16
495 623 2.161855 CAATGGCCAGTGCTCACTTTA 58.838 47.619 21.78 0.00 40.20 1.85
496 624 1.826385 ATGGCCAGTGCTCACTTTAC 58.174 50.000 13.05 0.00 40.20 2.01
497 625 0.764890 TGGCCAGTGCTCACTTTACT 59.235 50.000 0.00 0.00 40.20 2.24
498 626 1.160137 GGCCAGTGCTCACTTTACTG 58.840 55.000 0.00 0.00 40.20 2.74
499 627 0.519077 GCCAGTGCTCACTTTACTGC 59.481 55.000 0.00 0.00 40.20 4.40
500 628 1.882912 CCAGTGCTCACTTTACTGCA 58.117 50.000 0.00 0.00 40.20 4.41
501 629 2.430465 CCAGTGCTCACTTTACTGCAT 58.570 47.619 0.00 0.00 40.20 3.96
502 630 2.417933 CCAGTGCTCACTTTACTGCATC 59.582 50.000 0.00 0.00 40.20 3.91
503 631 3.069289 CAGTGCTCACTTTACTGCATCA 58.931 45.455 0.00 0.00 40.20 3.07
505 633 3.937706 AGTGCTCACTTTACTGCATCATC 59.062 43.478 0.00 0.00 38.83 2.92
506 634 3.937706 GTGCTCACTTTACTGCATCATCT 59.062 43.478 0.00 0.00 37.76 2.90
541 670 7.142995 ACATTTTGAACCCTAAATTTTCCCA 57.857 32.000 0.00 0.00 0.00 4.37
543 672 7.882791 ACATTTTGAACCCTAAATTTTCCCATC 59.117 33.333 0.00 0.00 0.00 3.51
573 781 1.989706 TTGCACCCTAAACTTGTCCC 58.010 50.000 0.00 0.00 0.00 4.46
582 790 3.250040 CCTAAACTTGTCCCAAACACTCG 59.750 47.826 0.00 0.00 37.70 4.18
593 801 4.283978 TCCCAAACACTCGGATTAGTACAA 59.716 41.667 0.00 0.00 0.00 2.41
594 802 5.046159 TCCCAAACACTCGGATTAGTACAAT 60.046 40.000 0.00 0.00 0.00 2.71
640 850 6.806668 AAAAAGATTCCCACCTTTTCTTCA 57.193 33.333 0.00 0.00 40.49 3.02
649 859 3.983344 CCACCTTTTCTTCATTTCAAGCG 59.017 43.478 0.00 0.00 0.00 4.68
673 883 5.506686 AAACTTTTTCTTCAGTCTCCAGC 57.493 39.130 0.00 0.00 0.00 4.85
802 1018 3.196901 TGAAAATGAGCGGACTAGGCTAA 59.803 43.478 0.00 0.00 41.72 3.09
807 1023 2.025898 GAGCGGACTAGGCTAACTTCT 58.974 52.381 0.00 0.00 41.72 2.85
830 1056 0.898326 ATCACCTTCCGGCCCAAAAC 60.898 55.000 0.00 0.00 0.00 2.43
844 1070 3.749284 AAAACTGTTGGGCCGGGCT 62.749 57.895 28.80 3.13 0.00 5.19
860 1086 3.112205 GCTGGGCCGGTCATCATCT 62.112 63.158 15.16 0.00 0.00 2.90
986 1248 1.019805 TCGCGAGCGAAAGAGAGAGA 61.020 55.000 18.25 0.00 46.01 3.10
1288 1550 3.068691 CGCCCTCCTCGTCCTGAA 61.069 66.667 0.00 0.00 0.00 3.02
1290 1552 1.908483 GCCCTCCTCGTCCTGAAAT 59.092 57.895 0.00 0.00 0.00 2.17
1309 1574 2.126071 CGAATCCGGTGCGTCACT 60.126 61.111 0.00 0.00 34.40 3.41
1326 1596 3.950861 CTTCCCCTCCCCTCCAGCA 62.951 68.421 0.00 0.00 0.00 4.41
1336 1610 2.053244 CCCCTCCAGCAAGATCTACAT 58.947 52.381 0.00 0.00 0.00 2.29
1350 1624 3.678056 TCTACATGCTCGTTGTTCCTT 57.322 42.857 0.00 0.00 0.00 3.36
1359 1633 1.071071 TCGTTGTTCCTTCCGTCCATT 59.929 47.619 0.00 0.00 0.00 3.16
1368 1642 0.820074 TTCCGTCCATTTTGCCGTGT 60.820 50.000 0.00 0.00 0.00 4.49
1373 1647 2.642129 CATTTTGCCGTGTCCGCA 59.358 55.556 0.00 0.00 0.00 5.69
1458 1793 2.361119 CCGTGGAGGAGAATTCGATGTA 59.639 50.000 0.00 0.00 45.00 2.29
1459 1794 3.551046 CCGTGGAGGAGAATTCGATGTAG 60.551 52.174 0.00 0.00 45.00 2.74
1460 1795 3.551046 CGTGGAGGAGAATTCGATGTAGG 60.551 52.174 0.00 0.00 0.00 3.18
1463 1798 5.068723 GTGGAGGAGAATTCGATGTAGGTTA 59.931 44.000 0.00 0.00 0.00 2.85
1483 1832 1.484240 AGAATGCTCCAGCTAGGTGTC 59.516 52.381 19.98 10.04 42.66 3.67
1497 1846 0.594602 GGTGTCGTTTAGTTTGGGCC 59.405 55.000 0.00 0.00 0.00 5.80
1629 1985 1.784525 GAATCGCCTTATCTCCACCG 58.215 55.000 0.00 0.00 0.00 4.94
1652 2008 6.712998 CCGGTTATCCATTGTGAATATTACCA 59.287 38.462 0.00 0.00 0.00 3.25
1658 2014 8.925161 ATCCATTGTGAATATTACCAAAAACG 57.075 30.769 4.03 0.00 0.00 3.60
1690 2046 9.597170 AAAATACTTCTACGAGAGGGTTTTATC 57.403 33.333 0.00 0.00 28.99 1.75
1701 2057 3.314693 AGGGTTTTATCGGGCTGAGATA 58.685 45.455 1.04 0.00 0.00 1.98
1703 2059 3.400255 GGTTTTATCGGGCTGAGATACC 58.600 50.000 1.04 4.68 31.07 2.73
1708 2064 2.677542 TCGGGCTGAGATACCAGTAT 57.322 50.000 0.00 0.00 36.57 2.12
1717 2073 9.032624 GGGCTGAGATACCAGTATATTACTTTA 57.967 37.037 0.00 0.00 36.76 1.85
1747 2103 3.308473 GGTTGGAGAAGCCTTTAGTGGAT 60.308 47.826 0.00 0.00 37.63 3.41
1752 2108 6.548321 TGGAGAAGCCTTTAGTGGATTTTTA 58.452 36.000 0.00 0.00 35.67 1.52
1758 2114 9.358872 GAAGCCTTTAGTGGATTTTTATTTCAG 57.641 33.333 0.00 0.00 35.67 3.02
1784 2140 7.422399 GTTTTGATGAGTTAGGCTTTGTGTTA 58.578 34.615 0.00 0.00 0.00 2.41
1793 2149 0.825840 GCTTTGTGTTACCCCAGCCA 60.826 55.000 0.00 0.00 0.00 4.75
1810 2166 2.900122 CCACTGGCATTCTGTTAACG 57.100 50.000 0.26 0.00 0.00 3.18
1882 2238 1.821061 CGTGAGTGGTGAGAAGGCCT 61.821 60.000 0.00 0.00 0.00 5.19
1886 2242 1.205893 GAGTGGTGAGAAGGCCTGTAG 59.794 57.143 5.69 0.00 0.00 2.74
1909 2265 5.355350 AGGCATGCTAGAACATTCAAAGTAC 59.645 40.000 18.92 0.00 0.00 2.73
1910 2266 5.123820 GGCATGCTAGAACATTCAAAGTACA 59.876 40.000 18.92 0.00 0.00 2.90
1912 2268 6.128172 GCATGCTAGAACATTCAAAGTACACT 60.128 38.462 11.37 0.00 0.00 3.55
1918 2274 5.594317 AGAACATTCAAAGTACACTGCCTTT 59.406 36.000 0.00 0.00 0.00 3.11
2034 2398 4.939439 TGGATCATTTCTGTCTCACATGTG 59.061 41.667 20.18 20.18 0.00 3.21
2054 2418 1.592081 GAACTGCACTCATCGAGATGC 59.408 52.381 8.14 6.14 38.65 3.91
2058 2422 1.479730 TGCACTCATCGAGATGCTCTT 59.520 47.619 8.14 0.00 37.48 2.85
2062 2426 4.676546 CACTCATCGAGATGCTCTTACAA 58.323 43.478 8.14 0.00 38.65 2.41
2068 2432 3.701542 TCGAGATGCTCTTACAATCTGGT 59.298 43.478 0.00 0.00 0.00 4.00
2081 2445 4.156455 CAATCTGGTTGTACTAGGGCAT 57.844 45.455 0.00 0.00 33.01 4.40
2082 2446 3.845781 ATCTGGTTGTACTAGGGCATG 57.154 47.619 0.00 0.00 0.00 4.06
2121 2485 4.572985 ATGTTGGTGACATTGTTCTGTG 57.427 40.909 0.00 0.00 46.80 3.66
2122 2486 3.615155 TGTTGGTGACATTGTTCTGTGA 58.385 40.909 0.00 0.00 42.32 3.58
2123 2487 3.627123 TGTTGGTGACATTGTTCTGTGAG 59.373 43.478 0.00 0.00 42.32 3.51
2124 2488 2.849942 TGGTGACATTGTTCTGTGAGG 58.150 47.619 0.00 0.00 33.40 3.86
2125 2489 2.437651 TGGTGACATTGTTCTGTGAGGA 59.562 45.455 0.00 0.00 33.40 3.71
2126 2490 3.072915 TGGTGACATTGTTCTGTGAGGAT 59.927 43.478 0.00 0.00 33.40 3.24
2127 2491 3.686726 GGTGACATTGTTCTGTGAGGATC 59.313 47.826 0.00 0.00 0.00 3.36
2128 2492 7.208519 TGGTGACATTGTTCTGTGAGGATCA 62.209 44.000 0.00 0.00 38.23 2.92
2129 2493 8.599227 TGGTGACATTGTTCTGTGAGGATCAA 62.599 42.308 0.00 0.00 41.90 2.57
2181 2545 9.429109 TGTAGGTTCTATCTATGTATTTGGTCA 57.571 33.333 0.00 0.00 0.00 4.02
2185 2549 8.926710 GGTTCTATCTATGTATTTGGTCATTCG 58.073 37.037 0.00 0.00 0.00 3.34
2186 2550 9.477484 GTTCTATCTATGTATTTGGTCATTCGT 57.523 33.333 0.00 0.00 0.00 3.85
2187 2551 9.476202 TTCTATCTATGTATTTGGTCATTCGTG 57.524 33.333 0.00 0.00 0.00 4.35
2188 2552 8.638873 TCTATCTATGTATTTGGTCATTCGTGT 58.361 33.333 0.00 0.00 0.00 4.49
2189 2553 9.908152 CTATCTATGTATTTGGTCATTCGTGTA 57.092 33.333 0.00 0.00 0.00 2.90
2191 2555 8.812147 TCTATGTATTTGGTCATTCGTGTATC 57.188 34.615 0.00 0.00 0.00 2.24
2192 2556 8.417884 TCTATGTATTTGGTCATTCGTGTATCA 58.582 33.333 0.00 0.00 0.00 2.15
2193 2557 6.902224 TGTATTTGGTCATTCGTGTATCAG 57.098 37.500 0.00 0.00 0.00 2.90
2194 2558 6.635755 TGTATTTGGTCATTCGTGTATCAGA 58.364 36.000 0.00 0.00 0.00 3.27
2195 2559 6.533723 TGTATTTGGTCATTCGTGTATCAGAC 59.466 38.462 0.00 0.00 0.00 3.51
2196 2560 4.801330 TTGGTCATTCGTGTATCAGACT 57.199 40.909 0.00 0.00 0.00 3.24
2197 2561 4.801330 TGGTCATTCGTGTATCAGACTT 57.199 40.909 0.00 0.00 0.00 3.01
2198 2562 5.907866 TGGTCATTCGTGTATCAGACTTA 57.092 39.130 0.00 0.00 0.00 2.24
2199 2563 6.275494 TGGTCATTCGTGTATCAGACTTAA 57.725 37.500 0.00 0.00 0.00 1.85
2200 2564 6.693466 TGGTCATTCGTGTATCAGACTTAAA 58.307 36.000 0.00 0.00 0.00 1.52
2201 2565 7.327975 TGGTCATTCGTGTATCAGACTTAAAT 58.672 34.615 0.00 0.00 0.00 1.40
2202 2566 7.491372 TGGTCATTCGTGTATCAGACTTAAATC 59.509 37.037 0.00 0.00 0.00 2.17
2203 2567 7.707035 GGTCATTCGTGTATCAGACTTAAATCT 59.293 37.037 0.00 0.00 0.00 2.40
2204 2568 8.535592 GTCATTCGTGTATCAGACTTAAATCTG 58.464 37.037 7.62 7.62 46.40 2.90
2205 2569 8.251026 TCATTCGTGTATCAGACTTAAATCTGT 58.749 33.333 13.25 4.45 45.41 3.41
2206 2570 8.873830 CATTCGTGTATCAGACTTAAATCTGTT 58.126 33.333 13.25 8.09 45.41 3.16
2208 2572 8.906636 TCGTGTATCAGACTTAAATCTGTTAC 57.093 34.615 20.55 20.55 45.41 2.50
2209 2573 7.972277 TCGTGTATCAGACTTAAATCTGTTACC 59.028 37.037 22.79 16.25 44.34 2.85
2210 2574 7.974501 CGTGTATCAGACTTAAATCTGTTACCT 59.025 37.037 22.79 6.75 44.34 3.08
2211 2575 9.654663 GTGTATCAGACTTAAATCTGTTACCTT 57.345 33.333 22.79 5.60 44.34 3.50
2215 2579 8.431910 TCAGACTTAAATCTGTTACCTTAGGT 57.568 34.615 13.25 9.57 45.41 3.08
2216 2580 8.529476 TCAGACTTAAATCTGTTACCTTAGGTC 58.471 37.037 7.39 0.00 45.41 3.85
2217 2581 8.532819 CAGACTTAAATCTGTTACCTTAGGTCT 58.467 37.037 7.39 0.00 39.74 3.85
2218 2582 9.102453 AGACTTAAATCTGTTACCTTAGGTCTT 57.898 33.333 7.39 0.00 37.39 3.01
2219 2583 9.368674 GACTTAAATCTGTTACCTTAGGTCTTC 57.631 37.037 7.39 0.16 37.09 2.87
2220 2584 9.102453 ACTTAAATCTGTTACCTTAGGTCTTCT 57.898 33.333 7.39 0.00 37.09 2.85
2221 2585 9.372369 CTTAAATCTGTTACCTTAGGTCTTCTG 57.628 37.037 7.39 4.30 37.09 3.02
2222 2586 6.936968 AATCTGTTACCTTAGGTCTTCTGT 57.063 37.500 7.39 0.00 37.09 3.41
2223 2587 6.936968 ATCTGTTACCTTAGGTCTTCTGTT 57.063 37.500 7.39 0.00 37.09 3.16
2224 2588 8.431910 AATCTGTTACCTTAGGTCTTCTGTTA 57.568 34.615 7.39 0.00 37.09 2.41
2225 2589 7.844493 TCTGTTACCTTAGGTCTTCTGTTAA 57.156 36.000 7.39 0.00 37.09 2.01
2226 2590 7.664758 TCTGTTACCTTAGGTCTTCTGTTAAC 58.335 38.462 7.39 4.81 37.09 2.01
2227 2591 6.762333 TGTTACCTTAGGTCTTCTGTTAACC 58.238 40.000 7.39 0.00 37.09 2.85
2228 2592 6.327104 TGTTACCTTAGGTCTTCTGTTAACCA 59.673 38.462 7.39 0.00 37.09 3.67
2229 2593 5.899631 ACCTTAGGTCTTCTGTTAACCAA 57.100 39.130 0.00 0.00 35.43 3.67
2230 2594 6.256643 ACCTTAGGTCTTCTGTTAACCAAA 57.743 37.500 0.00 0.00 35.43 3.28
2231 2595 6.296803 ACCTTAGGTCTTCTGTTAACCAAAG 58.703 40.000 0.00 6.91 35.43 2.77
2232 2596 5.705905 CCTTAGGTCTTCTGTTAACCAAAGG 59.294 44.000 13.91 6.70 35.43 3.11
2233 2597 4.100279 AGGTCTTCTGTTAACCAAAGGG 57.900 45.455 13.91 0.00 41.29 3.95
2234 2598 3.154710 GGTCTTCTGTTAACCAAAGGGG 58.845 50.000 13.91 0.00 44.81 4.79
2235 2599 3.154710 GTCTTCTGTTAACCAAAGGGGG 58.845 50.000 13.91 0.00 42.91 5.40
2236 2600 2.787035 TCTTCTGTTAACCAAAGGGGGT 59.213 45.455 13.91 0.00 45.04 4.95
2237 2601 2.668144 TCTGTTAACCAAAGGGGGTG 57.332 50.000 2.48 0.00 41.32 4.61
2238 2602 2.136863 TCTGTTAACCAAAGGGGGTGA 58.863 47.619 2.48 0.00 41.32 4.02
2239 2603 2.158579 TCTGTTAACCAAAGGGGGTGAC 60.159 50.000 2.48 0.00 43.06 3.67
2240 2604 2.368311 GTTAACCAAAGGGGGTGACA 57.632 50.000 0.00 0.00 42.33 3.58
2241 2605 2.235891 GTTAACCAAAGGGGGTGACAG 58.764 52.381 0.00 0.00 42.33 3.51
2242 2606 1.822425 TAACCAAAGGGGGTGACAGA 58.178 50.000 0.00 0.00 41.32 3.41
2243 2607 1.158007 AACCAAAGGGGGTGACAGAT 58.842 50.000 0.00 0.00 41.32 2.90
2244 2608 2.053747 ACCAAAGGGGGTGACAGATA 57.946 50.000 0.00 0.00 40.44 1.98
2245 2609 2.354328 ACCAAAGGGGGTGACAGATAA 58.646 47.619 0.00 0.00 40.44 1.75
2246 2610 2.308866 ACCAAAGGGGGTGACAGATAAG 59.691 50.000 0.00 0.00 40.44 1.73
2247 2611 2.308866 CCAAAGGGGGTGACAGATAAGT 59.691 50.000 0.00 0.00 0.00 2.24
2248 2612 3.521937 CCAAAGGGGGTGACAGATAAGTA 59.478 47.826 0.00 0.00 0.00 2.24
2249 2613 4.166144 CCAAAGGGGGTGACAGATAAGTAT 59.834 45.833 0.00 0.00 0.00 2.12
2250 2614 5.126067 CAAAGGGGGTGACAGATAAGTATG 58.874 45.833 0.00 0.00 0.00 2.39
2251 2615 4.008916 AGGGGGTGACAGATAAGTATGT 57.991 45.455 0.00 0.00 31.21 2.29
2252 2616 4.371681 AGGGGGTGACAGATAAGTATGTT 58.628 43.478 0.00 0.00 28.05 2.71
2253 2617 4.409247 AGGGGGTGACAGATAAGTATGTTC 59.591 45.833 0.00 0.00 28.05 3.18
2254 2618 4.163458 GGGGGTGACAGATAAGTATGTTCA 59.837 45.833 0.00 0.00 28.05 3.18
2255 2619 5.116882 GGGGTGACAGATAAGTATGTTCAC 58.883 45.833 0.00 0.00 32.17 3.18
2256 2620 5.104900 GGGGTGACAGATAAGTATGTTCACT 60.105 44.000 0.00 0.00 32.85 3.41
2257 2621 6.407202 GGGTGACAGATAAGTATGTTCACTT 58.593 40.000 0.00 0.00 41.56 3.16
2258 2622 6.313905 GGGTGACAGATAAGTATGTTCACTTG 59.686 42.308 0.00 0.00 39.12 3.16
2259 2623 7.097192 GGTGACAGATAAGTATGTTCACTTGA 58.903 38.462 0.00 0.00 39.12 3.02
2260 2624 7.602644 GGTGACAGATAAGTATGTTCACTTGAA 59.397 37.037 0.00 0.00 39.12 2.69
2261 2625 9.155975 GTGACAGATAAGTATGTTCACTTGAAT 57.844 33.333 0.00 0.00 39.12 2.57
2262 2626 9.725019 TGACAGATAAGTATGTTCACTTGAATT 57.275 29.630 0.00 0.00 39.12 2.17
2263 2627 9.979270 GACAGATAAGTATGTTCACTTGAATTG 57.021 33.333 0.00 0.00 39.12 2.32
2264 2628 9.725019 ACAGATAAGTATGTTCACTTGAATTGA 57.275 29.630 0.00 0.00 39.12 2.57
2266 2630 8.887717 AGATAAGTATGTTCACTTGAATTGAGC 58.112 33.333 0.00 0.00 39.12 4.26
2267 2631 6.882610 AAGTATGTTCACTTGAATTGAGCA 57.117 33.333 4.72 4.72 37.37 4.26
2268 2632 6.882610 AGTATGTTCACTTGAATTGAGCAA 57.117 33.333 6.21 0.00 37.68 3.91
2269 2633 6.672147 AGTATGTTCACTTGAATTGAGCAAC 58.328 36.000 6.21 6.44 37.68 4.17
2270 2634 5.779529 ATGTTCACTTGAATTGAGCAACT 57.220 34.783 6.21 0.00 37.68 3.16
2271 2635 5.581126 TGTTCACTTGAATTGAGCAACTT 57.419 34.783 0.00 0.00 36.33 2.66
2272 2636 5.342433 TGTTCACTTGAATTGAGCAACTTG 58.658 37.500 0.00 0.00 36.33 3.16
2273 2637 3.968649 TCACTTGAATTGAGCAACTTGC 58.031 40.909 5.55 5.55 45.46 4.01
2274 2638 5.962133 GTTCACTTGAATTGAGCAACTTGCT 60.962 40.000 16.37 16.37 45.94 3.91
2275 2639 7.918341 GTTCACTTGAATTGAGCAACTTGCTG 61.918 42.308 21.14 6.48 44.48 4.41
2283 2647 3.646650 GCAACTTGCTGCTTGTCAA 57.353 47.368 6.50 0.00 40.96 3.18
2284 2648 1.484356 GCAACTTGCTGCTTGTCAAG 58.516 50.000 8.31 8.31 43.79 3.02
2285 2649 1.866880 GCAACTTGCTGCTTGTCAAGG 60.867 52.381 14.40 0.00 42.82 3.61
2286 2650 1.406539 CAACTTGCTGCTTGTCAAGGT 59.593 47.619 14.40 0.00 42.82 3.50
2287 2651 1.767759 ACTTGCTGCTTGTCAAGGTT 58.232 45.000 14.40 0.00 42.82 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 39 0.460284 CGGAGCTCACATGGGTGTAC 60.460 60.000 17.19 0.00 45.45 2.90
125 126 1.550524 CCTAGTCCTGCTACAACTGCA 59.449 52.381 0.00 0.00 38.81 4.41
141 142 2.158842 CCAGGAAAGGCATCAGACCTAG 60.159 54.545 0.00 0.00 36.14 3.02
153 154 7.989416 TGTTAGTTTTATACACCAGGAAAGG 57.011 36.000 0.00 0.00 0.00 3.11
183 184 8.809066 TGTCCTTAGTGTTACATTAGCTTCTAA 58.191 33.333 0.00 0.00 0.00 2.10
218 257 1.263217 GCTACAACCAAACACTCACCG 59.737 52.381 0.00 0.00 0.00 4.94
221 260 2.171659 TCTGGCTACAACCAAACACTCA 59.828 45.455 0.00 0.00 39.86 3.41
271 310 4.862371 ACAAGTCTGAAAAGTGGGGTAAA 58.138 39.130 0.00 0.00 0.00 2.01
313 354 1.069765 CACAGGTTCTCACGGCTGT 59.930 57.895 0.00 0.00 0.00 4.40
314 355 0.946221 GTCACAGGTTCTCACGGCTG 60.946 60.000 0.00 0.00 0.00 4.85
315 356 1.367840 GTCACAGGTTCTCACGGCT 59.632 57.895 0.00 0.00 0.00 5.52
316 357 2.022129 CGTCACAGGTTCTCACGGC 61.022 63.158 0.00 0.00 0.00 5.68
317 358 0.663568 GTCGTCACAGGTTCTCACGG 60.664 60.000 0.00 0.00 0.00 4.94
319 360 0.387929 TGGTCGTCACAGGTTCTCAC 59.612 55.000 0.00 0.00 0.00 3.51
322 363 2.930826 AATTGGTCGTCACAGGTTCT 57.069 45.000 0.00 0.00 0.00 3.01
325 366 3.811083 TGTAAAATTGGTCGTCACAGGT 58.189 40.909 0.00 0.00 0.00 4.00
391 516 9.691362 TTTCTATTTTAATCTGTTGCAAGTTCC 57.309 29.630 0.00 0.00 0.00 3.62
421 549 4.910195 ACCACTCTGTTGCAAATATCTCA 58.090 39.130 0.00 0.00 0.00 3.27
424 552 7.009540 GCATTTAACCACTCTGTTGCAAATATC 59.990 37.037 0.00 0.00 0.00 1.63
427 555 4.990426 GCATTTAACCACTCTGTTGCAAAT 59.010 37.500 0.00 0.00 0.00 2.32
430 558 2.954989 TGCATTTAACCACTCTGTTGCA 59.045 40.909 0.00 0.00 0.00 4.08
437 565 4.439305 TCAATGCTGCATTTAACCACTC 57.561 40.909 24.28 0.00 31.05 3.51
438 566 5.418524 TGTATCAATGCTGCATTTAACCACT 59.581 36.000 24.28 5.15 31.05 4.00
439 567 5.649557 TGTATCAATGCTGCATTTAACCAC 58.350 37.500 24.28 16.83 31.05 4.16
440 568 5.911378 TGTATCAATGCTGCATTTAACCA 57.089 34.783 24.28 15.56 31.05 3.67
442 570 7.990541 TTGATGTATCAATGCTGCATTTAAC 57.009 32.000 24.28 20.40 41.51 2.01
454 582 7.910285 CCATTGGGGACTAGTTGATGTATCAAT 60.910 40.741 10.20 3.56 43.39 2.57
455 583 6.356556 CATTGGGGACTAGTTGATGTATCAA 58.643 40.000 0.00 3.28 43.94 2.57
456 584 5.163205 CCATTGGGGACTAGTTGATGTATCA 60.163 44.000 0.00 0.00 40.01 2.15
457 585 5.308825 CCATTGGGGACTAGTTGATGTATC 58.691 45.833 0.00 0.00 40.01 2.24
458 586 4.446311 GCCATTGGGGACTAGTTGATGTAT 60.446 45.833 4.53 0.00 40.01 2.29
460 588 2.357154 GCCATTGGGGACTAGTTGATGT 60.357 50.000 4.53 0.00 40.01 3.06
461 589 2.301346 GCCATTGGGGACTAGTTGATG 58.699 52.381 4.53 0.00 40.01 3.07
463 591 0.623723 GGCCATTGGGGACTAGTTGA 59.376 55.000 4.53 0.00 43.78 3.18
464 592 3.191182 GGCCATTGGGGACTAGTTG 57.809 57.895 4.53 0.00 43.78 3.16
471 599 3.267233 AGCACTGGCCATTGGGGA 61.267 61.111 23.17 0.00 42.56 4.81
472 600 2.757099 GAGCACTGGCCATTGGGG 60.757 66.667 23.17 6.80 42.56 4.96
473 601 2.036098 TGAGCACTGGCCATTGGG 59.964 61.111 23.17 7.59 42.56 4.12
474 602 0.896940 AAGTGAGCACTGGCCATTGG 60.897 55.000 23.17 7.09 41.58 3.16
482 610 3.069289 TGATGCAGTAAAGTGAGCACTG 58.931 45.455 3.57 0.00 41.58 3.66
483 611 3.407424 TGATGCAGTAAAGTGAGCACT 57.593 42.857 0.00 0.00 44.94 4.40
484 612 3.937706 AGATGATGCAGTAAAGTGAGCAC 59.062 43.478 0.00 0.00 40.14 4.40
485 613 4.212143 AGATGATGCAGTAAAGTGAGCA 57.788 40.909 0.00 0.00 41.73 4.26
486 614 4.730035 GCAAGATGATGCAGTAAAGTGAGC 60.730 45.833 0.00 0.00 45.70 4.26
487 615 4.906423 GCAAGATGATGCAGTAAAGTGAG 58.094 43.478 0.00 0.00 45.70 3.51
498 626 2.356695 TGTAGCATGTGCAAGATGATGC 59.643 45.455 7.83 8.35 40.63 3.91
499 627 4.830826 ATGTAGCATGTGCAAGATGATG 57.169 40.909 7.83 0.05 40.63 3.07
500 628 5.847111 AAATGTAGCATGTGCAAGATGAT 57.153 34.783 7.83 6.99 40.63 2.45
501 629 5.183522 TCAAAATGTAGCATGTGCAAGATGA 59.816 36.000 7.83 0.26 40.63 2.92
502 630 5.404096 TCAAAATGTAGCATGTGCAAGATG 58.596 37.500 7.83 0.00 45.16 2.90
503 631 5.648178 TCAAAATGTAGCATGTGCAAGAT 57.352 34.783 7.83 0.00 45.16 2.40
505 633 4.386652 GGTTCAAAATGTAGCATGTGCAAG 59.613 41.667 7.83 0.00 45.16 4.01
506 634 4.305769 GGTTCAAAATGTAGCATGTGCAA 58.694 39.130 7.83 0.00 45.16 4.08
550 758 4.525100 GGGACAAGTTTAGGGTGCAAAATA 59.475 41.667 0.00 0.00 0.00 1.40
627 837 3.983344 CGCTTGAAATGAAGAAAAGGTGG 59.017 43.478 0.00 0.00 0.00 4.61
631 841 7.914537 AGTTTACGCTTGAAATGAAGAAAAG 57.085 32.000 0.00 0.00 0.00 2.27
640 850 7.973944 ACTGAAGAAAAAGTTTACGCTTGAAAT 59.026 29.630 0.00 0.00 0.00 2.17
649 859 6.431278 GCTGGAGACTGAAGAAAAAGTTTAC 58.569 40.000 0.00 0.00 0.00 2.01
753 966 9.620660 GTTCTGTTTAACTGAAGAAAAAGTCAA 57.379 29.630 15.80 0.00 36.86 3.18
754 967 9.010029 AGTTCTGTTTAACTGAAGAAAAAGTCA 57.990 29.630 15.80 0.00 38.28 3.41
844 1070 2.910360 CAGATGATGACCGGCCCA 59.090 61.111 0.00 0.00 0.00 5.36
847 1073 2.541120 GCAGCAGATGATGACCGGC 61.541 63.158 0.00 0.00 32.25 6.13
848 1074 0.745486 TTGCAGCAGATGATGACCGG 60.745 55.000 0.00 0.00 32.25 5.28
849 1075 1.089112 TTTGCAGCAGATGATGACCG 58.911 50.000 1.56 0.00 32.25 4.79
850 1076 2.034305 GGATTTGCAGCAGATGATGACC 59.966 50.000 2.46 0.00 32.25 4.02
851 1077 2.686405 TGGATTTGCAGCAGATGATGAC 59.314 45.455 2.46 0.00 32.25 3.06
852 1078 2.686405 GTGGATTTGCAGCAGATGATGA 59.314 45.455 2.46 0.00 32.25 2.92
853 1079 2.540973 CGTGGATTTGCAGCAGATGATG 60.541 50.000 2.46 0.00 34.00 3.07
854 1080 1.674441 CGTGGATTTGCAGCAGATGAT 59.326 47.619 2.46 0.00 0.00 2.45
860 1086 0.310543 GTCAACGTGGATTTGCAGCA 59.689 50.000 0.00 0.00 0.00 4.41
974 1210 1.202245 CCGAGGCTTCTCTCTCTTTCG 60.202 57.143 0.00 0.00 35.43 3.46
980 1242 3.144193 CGGCCGAGGCTTCTCTCT 61.144 66.667 24.07 0.00 41.60 3.10
1309 1574 3.515383 TTGCTGGAGGGGAGGGGAA 62.515 63.158 0.00 0.00 0.00 3.97
1326 1596 4.081420 AGGAACAACGAGCATGTAGATCTT 60.081 41.667 0.00 0.00 0.00 2.40
1336 1610 0.599204 GACGGAAGGAACAACGAGCA 60.599 55.000 0.00 0.00 0.00 4.26
1340 1614 1.519408 AATGGACGGAAGGAACAACG 58.481 50.000 0.00 0.00 0.00 4.10
1350 1624 1.228003 ACACGGCAAAATGGACGGA 60.228 52.632 0.00 0.00 45.67 4.69
1359 1633 2.970324 GACTGCGGACACGGCAAA 60.970 61.111 0.00 0.00 41.36 3.68
1373 1647 1.000771 TAGGCAGGCAGAGACGACT 60.001 57.895 0.00 0.00 0.00 4.18
1402 1676 2.320587 CCGCCTGCGCTATCAATCC 61.321 63.158 9.73 0.00 38.24 3.01
1433 1765 1.600663 CGAATTCTCCTCCACGGATCG 60.601 57.143 3.52 0.00 42.12 3.69
1443 1778 7.437748 CATTCTAACCTACATCGAATTCTCCT 58.562 38.462 3.52 0.00 0.00 3.69
1444 1779 6.146347 GCATTCTAACCTACATCGAATTCTCC 59.854 42.308 3.52 0.00 0.00 3.71
1445 1780 6.926272 AGCATTCTAACCTACATCGAATTCTC 59.074 38.462 3.52 0.00 0.00 2.87
1458 1793 2.703007 CCTAGCTGGAGCATTCTAACCT 59.297 50.000 0.00 0.00 45.16 3.50
1459 1794 2.436173 ACCTAGCTGGAGCATTCTAACC 59.564 50.000 0.00 0.00 45.16 2.85
1460 1795 3.118592 ACACCTAGCTGGAGCATTCTAAC 60.119 47.826 0.00 0.00 45.16 2.34
1463 1798 1.484240 GACACCTAGCTGGAGCATTCT 59.516 52.381 0.00 0.00 45.16 2.40
1483 1832 1.063469 CTATGCGGCCCAAACTAAACG 59.937 52.381 0.00 0.00 0.00 3.60
1609 1964 1.784525 GGTGGAGATAAGGCGATTCG 58.215 55.000 0.62 0.62 0.00 3.34
1658 2014 7.816513 ACCCTCTCGTAGAAGTATTTTAACAAC 59.183 37.037 0.00 0.00 34.09 3.32
1665 2021 7.919621 CGATAAAACCCTCTCGTAGAAGTATTT 59.080 37.037 0.00 0.00 34.09 1.40
1690 2046 5.652891 AGTAATATACTGGTATCTCAGCCCG 59.347 44.000 0.00 0.00 37.69 6.13
1701 2057 6.239232 CCAGCGGACTAAAGTAATATACTGGT 60.239 42.308 0.00 0.00 39.39 4.00
1703 2059 6.746120 ACCAGCGGACTAAAGTAATATACTG 58.254 40.000 1.50 0.00 39.39 2.74
1708 2064 4.467082 TCCAACCAGCGGACTAAAGTAATA 59.533 41.667 1.50 0.00 0.00 0.98
1717 2073 1.674057 CTTCTCCAACCAGCGGACT 59.326 57.895 1.50 0.00 0.00 3.85
1752 2108 6.012745 AGCCTAACTCATCAAAACCTGAAAT 58.987 36.000 0.00 0.00 37.67 2.17
1758 2114 5.221244 ACACAAAGCCTAACTCATCAAAACC 60.221 40.000 0.00 0.00 0.00 3.27
1793 2149 3.994392 CACTACGTTAACAGAATGCCAGT 59.006 43.478 6.39 0.00 42.53 4.00
1799 2155 5.750067 ACGAAACACACTACGTTAACAGAAT 59.250 36.000 6.39 0.00 35.47 2.40
1810 2166 2.350498 ACAGCAACACGAAACACACTAC 59.650 45.455 0.00 0.00 0.00 2.73
1882 2238 4.486125 TGAATGTTCTAGCATGCCTACA 57.514 40.909 15.66 13.57 0.00 2.74
1886 2242 4.708726 ACTTTGAATGTTCTAGCATGCC 57.291 40.909 15.66 0.00 0.00 4.40
1894 2250 4.718961 AGGCAGTGTACTTTGAATGTTCT 58.281 39.130 0.00 0.00 0.00 3.01
1909 2265 1.394917 GCACACTATCGAAAGGCAGTG 59.605 52.381 10.87 10.87 43.96 3.66
1910 2266 1.726853 GCACACTATCGAAAGGCAGT 58.273 50.000 0.00 0.00 0.00 4.40
1912 2268 1.358725 GCGCACACTATCGAAAGGCA 61.359 55.000 0.30 0.00 0.00 4.75
1918 2274 0.989164 CGAAAAGCGCACACTATCGA 59.011 50.000 11.47 0.00 33.40 3.59
2034 2398 1.592081 GCATCTCGATGAGTGCAGTTC 59.408 52.381 10.91 0.00 41.20 3.01
2047 2411 4.269603 CAACCAGATTGTAAGAGCATCTCG 59.730 45.833 0.00 0.00 37.85 4.04
2062 2426 2.158755 GCATGCCCTAGTACAACCAGAT 60.159 50.000 6.36 0.00 0.00 2.90
2068 2432 2.571653 ACTCAAGCATGCCCTAGTACAA 59.428 45.455 15.66 0.00 0.00 2.41
2082 2446 5.290158 CCAACATTTGCATGATTACTCAAGC 59.710 40.000 0.00 3.57 44.41 4.01
2120 2484 9.693739 GAGAGTATTATCTATCCTTGATCCTCA 57.306 37.037 0.00 0.00 0.00 3.86
2121 2485 9.920946 AGAGAGTATTATCTATCCTTGATCCTC 57.079 37.037 0.00 0.00 0.00 3.71
2171 2535 6.757010 AGTCTGATACACGAATGACCAAATAC 59.243 38.462 0.00 0.00 0.00 1.89
2175 2539 4.801330 AGTCTGATACACGAATGACCAA 57.199 40.909 0.00 0.00 0.00 3.67
2176 2540 4.801330 AAGTCTGATACACGAATGACCA 57.199 40.909 0.00 0.00 0.00 4.02
2177 2541 7.707035 AGATTTAAGTCTGATACACGAATGACC 59.293 37.037 0.00 0.00 0.00 4.02
2178 2542 8.535592 CAGATTTAAGTCTGATACACGAATGAC 58.464 37.037 20.22 0.00 46.77 3.06
2179 2543 8.251026 ACAGATTTAAGTCTGATACACGAATGA 58.749 33.333 28.68 0.00 46.77 2.57
2180 2544 8.412608 ACAGATTTAAGTCTGATACACGAATG 57.587 34.615 28.68 4.82 46.77 2.67
2182 2546 9.350357 GTAACAGATTTAAGTCTGATACACGAA 57.650 33.333 28.28 7.45 45.89 3.85
2183 2547 8.906636 GTAACAGATTTAAGTCTGATACACGA 57.093 34.615 28.28 7.99 45.89 4.35
2189 2553 9.047947 ACCTAAGGTAACAGATTTAAGTCTGAT 57.952 33.333 28.68 21.25 40.30 2.90
2190 2554 8.431910 ACCTAAGGTAACAGATTTAAGTCTGA 57.568 34.615 28.68 9.59 40.30 3.27
2191 2555 8.532819 AGACCTAAGGTAACAGATTTAAGTCTG 58.467 37.037 22.44 22.44 42.98 3.51
2192 2556 8.667592 AGACCTAAGGTAACAGATTTAAGTCT 57.332 34.615 0.00 0.00 35.25 3.24
2193 2557 9.368674 GAAGACCTAAGGTAACAGATTTAAGTC 57.631 37.037 0.00 0.00 35.25 3.01
2194 2558 9.102453 AGAAGACCTAAGGTAACAGATTTAAGT 57.898 33.333 0.00 0.00 35.25 2.24
2195 2559 9.372369 CAGAAGACCTAAGGTAACAGATTTAAG 57.628 37.037 0.00 0.00 35.25 1.85
2196 2560 8.877195 ACAGAAGACCTAAGGTAACAGATTTAA 58.123 33.333 0.00 0.00 35.25 1.52
2197 2561 8.431910 ACAGAAGACCTAAGGTAACAGATTTA 57.568 34.615 0.00 0.00 35.25 1.40
2198 2562 7.317722 ACAGAAGACCTAAGGTAACAGATTT 57.682 36.000 0.00 0.00 35.25 2.17
2199 2563 6.936968 ACAGAAGACCTAAGGTAACAGATT 57.063 37.500 0.00 0.00 35.25 2.40
2200 2564 6.936968 AACAGAAGACCTAAGGTAACAGAT 57.063 37.500 0.00 0.00 35.25 2.90
2201 2565 7.256083 GGTTAACAGAAGACCTAAGGTAACAGA 60.256 40.741 8.10 0.00 35.25 3.41
2202 2566 6.872547 GGTTAACAGAAGACCTAAGGTAACAG 59.127 42.308 8.10 0.00 35.25 3.16
2203 2567 6.327104 TGGTTAACAGAAGACCTAAGGTAACA 59.673 38.462 8.10 0.00 35.25 2.41
2204 2568 6.762333 TGGTTAACAGAAGACCTAAGGTAAC 58.238 40.000 8.10 0.00 35.25 2.50
2205 2569 6.999705 TGGTTAACAGAAGACCTAAGGTAA 57.000 37.500 8.10 0.00 35.25 2.85
2206 2570 6.999705 TTGGTTAACAGAAGACCTAAGGTA 57.000 37.500 8.10 0.00 35.25 3.08
2207 2571 5.899631 TTGGTTAACAGAAGACCTAAGGT 57.100 39.130 8.10 0.00 39.44 3.50
2208 2572 6.803154 CTTTGGTTAACAGAAGACCTAAGG 57.197 41.667 8.10 0.00 40.35 2.69
2209 2573 5.705905 CCCTTTGGTTAACAGAAGACCTAAG 59.294 44.000 17.10 8.36 42.24 2.18
2210 2574 5.457052 CCCCTTTGGTTAACAGAAGACCTAA 60.457 44.000 17.10 0.00 34.52 2.69
2211 2575 4.042435 CCCCTTTGGTTAACAGAAGACCTA 59.958 45.833 17.10 0.00 34.52 3.08
2212 2576 3.181433 CCCCTTTGGTTAACAGAAGACCT 60.181 47.826 17.10 0.00 34.52 3.85
2213 2577 3.154710 CCCCTTTGGTTAACAGAAGACC 58.845 50.000 17.10 0.00 0.00 3.85
2214 2578 3.154710 CCCCCTTTGGTTAACAGAAGAC 58.845 50.000 17.10 0.00 0.00 3.01
2215 2579 2.787035 ACCCCCTTTGGTTAACAGAAGA 59.213 45.455 17.10 0.00 33.91 2.87
2216 2580 2.890945 CACCCCCTTTGGTTAACAGAAG 59.109 50.000 8.10 10.06 36.12 2.85
2217 2581 2.514582 TCACCCCCTTTGGTTAACAGAA 59.485 45.455 8.10 0.52 36.12 3.02
2218 2582 2.136863 TCACCCCCTTTGGTTAACAGA 58.863 47.619 8.10 0.00 36.12 3.41
2219 2583 2.235891 GTCACCCCCTTTGGTTAACAG 58.764 52.381 8.10 0.00 36.12 3.16
2220 2584 1.569548 TGTCACCCCCTTTGGTTAACA 59.430 47.619 8.10 0.00 36.12 2.41
2221 2585 2.158579 TCTGTCACCCCCTTTGGTTAAC 60.159 50.000 0.00 0.00 36.12 2.01
2222 2586 2.136863 TCTGTCACCCCCTTTGGTTAA 58.863 47.619 0.00 0.00 36.12 2.01
2223 2587 1.822425 TCTGTCACCCCCTTTGGTTA 58.178 50.000 0.00 0.00 36.12 2.85
2224 2588 1.158007 ATCTGTCACCCCCTTTGGTT 58.842 50.000 0.00 0.00 36.12 3.67
2225 2589 2.053747 TATCTGTCACCCCCTTTGGT 57.946 50.000 0.00 0.00 39.96 3.67
2226 2590 2.308866 ACTTATCTGTCACCCCCTTTGG 59.691 50.000 0.00 0.00 0.00 3.28
2227 2591 3.721087 ACTTATCTGTCACCCCCTTTG 57.279 47.619 0.00 0.00 0.00 2.77
2228 2592 4.788617 ACATACTTATCTGTCACCCCCTTT 59.211 41.667 0.00 0.00 0.00 3.11
2229 2593 4.371681 ACATACTTATCTGTCACCCCCTT 58.628 43.478 0.00 0.00 0.00 3.95
2230 2594 4.008916 ACATACTTATCTGTCACCCCCT 57.991 45.455 0.00 0.00 0.00 4.79
2231 2595 4.163458 TGAACATACTTATCTGTCACCCCC 59.837 45.833 0.00 0.00 0.00 5.40
2232 2596 5.104900 AGTGAACATACTTATCTGTCACCCC 60.105 44.000 0.00 0.00 30.51 4.95
2233 2597 5.978814 AGTGAACATACTTATCTGTCACCC 58.021 41.667 0.00 0.00 30.51 4.61
2234 2598 7.097192 TCAAGTGAACATACTTATCTGTCACC 58.903 38.462 0.00 0.00 38.78 4.02
2235 2599 8.534333 TTCAAGTGAACATACTTATCTGTCAC 57.466 34.615 0.00 0.00 38.78 3.67
2236 2600 9.725019 AATTCAAGTGAACATACTTATCTGTCA 57.275 29.630 0.00 0.00 38.78 3.58
2237 2601 9.979270 CAATTCAAGTGAACATACTTATCTGTC 57.021 33.333 0.00 0.00 38.78 3.51
2238 2602 9.725019 TCAATTCAAGTGAACATACTTATCTGT 57.275 29.630 0.00 0.00 38.78 3.41
2240 2604 8.887717 GCTCAATTCAAGTGAACATACTTATCT 58.112 33.333 0.00 0.00 38.78 1.98
2241 2605 8.668353 TGCTCAATTCAAGTGAACATACTTATC 58.332 33.333 0.00 0.00 38.78 1.75
2242 2606 8.565896 TGCTCAATTCAAGTGAACATACTTAT 57.434 30.769 0.00 0.00 38.78 1.73
2243 2607 7.977789 TGCTCAATTCAAGTGAACATACTTA 57.022 32.000 0.00 0.00 38.78 2.24
2244 2608 6.882610 TGCTCAATTCAAGTGAACATACTT 57.117 33.333 0.00 0.00 41.37 2.24
2245 2609 6.488006 AGTTGCTCAATTCAAGTGAACATACT 59.512 34.615 0.00 0.00 36.80 2.12
2246 2610 6.672147 AGTTGCTCAATTCAAGTGAACATAC 58.328 36.000 0.00 0.00 36.80 2.39
2247 2611 6.882610 AGTTGCTCAATTCAAGTGAACATA 57.117 33.333 0.00 0.00 36.80 2.29
2248 2612 5.779529 AGTTGCTCAATTCAAGTGAACAT 57.220 34.783 0.00 0.00 36.80 2.71
2249 2613 5.342433 CAAGTTGCTCAATTCAAGTGAACA 58.658 37.500 0.00 0.00 36.80 3.18
2250 2614 4.207841 GCAAGTTGCTCAATTCAAGTGAAC 59.792 41.667 20.71 0.00 40.96 3.18
2251 2615 4.362279 GCAAGTTGCTCAATTCAAGTGAA 58.638 39.130 20.71 0.00 40.96 3.18
2252 2616 3.968649 GCAAGTTGCTCAATTCAAGTGA 58.031 40.909 20.71 0.00 40.96 3.41
2265 2629 1.484356 CTTGACAAGCAGCAAGTTGC 58.516 50.000 20.44 20.44 45.46 4.17
2266 2630 1.406539 ACCTTGACAAGCAGCAAGTTG 59.593 47.619 9.85 0.00 39.79 3.16
2267 2631 1.767759 ACCTTGACAAGCAGCAAGTT 58.232 45.000 9.85 0.00 39.79 2.66
2268 2632 1.767759 AACCTTGACAAGCAGCAAGT 58.232 45.000 9.85 0.00 39.79 3.16


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

AutoCloner maintained by Alex Coulton.