Multiple sequence alignment - TraesCS2D01G382900

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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 TraesCS2D01G382900 chr2D 100.000 2585 0 0 1 2585 487314889 487317473 0.000000e+00 4774.0
1 TraesCS2D01G382900 chr2D 76.596 564 104 21 1042 1585 547559492 547560047 4.210000e-73 285.0
2 TraesCS2D01G382900 chr2D 76.832 423 88 9 1168 1585 547574742 547575159 2.000000e-56 230.0
3 TraesCS2D01G382900 chr2B 93.600 1672 73 17 1 1656 572078743 572080396 0.000000e+00 2464.0
4 TraesCS2D01G382900 chr2B 85.294 476 51 11 1642 2101 572080420 572080892 8.370000e-130 473.0
5 TraesCS2D01G382900 chr2B 76.757 555 105 18 1046 1585 653808359 653808904 3.250000e-74 289.0
6 TraesCS2D01G382900 chr2B 87.500 152 16 1 2243 2391 572081134 572081285 3.420000e-39 172.0
7 TraesCS2D01G382900 chr2A 92.564 1681 67 19 1 1656 632389674 632391321 0.000000e+00 2359.0
8 TraesCS2D01G382900 chr2A 78.487 423 81 10 1168 1585 691391852 691391435 4.240000e-68 268.0
9 TraesCS2D01G382900 chr3D 83.838 99 12 4 2382 2479 339005862 339005957 9.850000e-15 91.6
10 TraesCS2D01G382900 chr3D 93.478 46 3 0 2260 2305 442897384 442897339 4.620000e-08 69.4


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 TraesCS2D01G382900 chr2D 487314889 487317473 2584 False 4774.000000 4774 100.000 1 2585 1 chr2D.!!$F1 2584
1 TraesCS2D01G382900 chr2D 547559492 547560047 555 False 285.000000 285 76.596 1042 1585 1 chr2D.!!$F2 543
2 TraesCS2D01G382900 chr2B 572078743 572081285 2542 False 1036.333333 2464 88.798 1 2391 3 chr2B.!!$F2 2390
3 TraesCS2D01G382900 chr2B 653808359 653808904 545 False 289.000000 289 76.757 1046 1585 1 chr2B.!!$F1 539
4 TraesCS2D01G382900 chr2A 632389674 632391321 1647 False 2359.000000 2359 92.564 1 1656 1 chr2A.!!$F1 1655

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
291 307 1.008361 ATTTTGTCGGCGCACAATGC 61.008 50.0 19.92 0.0 40.69 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2204 2339 1.002544 GGGCCGCTGATTATCTAGCTT 59.997 52.381 0.0 0.0 37.78 3.74 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
32 36 7.709149 ACGTTCTACCCCTATATAACCATAC 57.291 40.000 0.00 0.00 0.00 2.39
36 40 6.666678 TCTACCCCTATATAACCATACCGAG 58.333 44.000 0.00 0.00 0.00 4.63
37 41 5.280998 ACCCCTATATAACCATACCGAGT 57.719 43.478 0.00 0.00 0.00 4.18
38 42 5.021458 ACCCCTATATAACCATACCGAGTG 58.979 45.833 0.00 0.00 0.00 3.51
58 62 2.123428 GCTGGTCCATCCATGCACC 61.123 63.158 0.00 0.00 46.12 5.01
64 68 2.043752 CATCCATGCACCTGCCCA 60.044 61.111 0.00 0.00 41.18 5.36
89 105 4.761739 CCTCTCAATACAACCAAGCTTTCA 59.238 41.667 0.00 0.00 0.00 2.69
90 106 5.241506 CCTCTCAATACAACCAAGCTTTCAA 59.758 40.000 0.00 0.00 0.00 2.69
91 107 6.072112 TCTCAATACAACCAAGCTTTCAAC 57.928 37.500 0.00 0.00 0.00 3.18
104 120 2.294074 CTTTCAACTGGAAACCCACGA 58.706 47.619 0.00 0.00 40.51 4.35
130 146 1.812571 GCGAACACAAGGATGACCATT 59.187 47.619 0.00 0.00 38.94 3.16
155 171 1.339055 TGTGCTACCTCACCATCTTGC 60.339 52.381 0.00 0.00 36.17 4.01
211 227 4.702081 AGCGACACTGACGACGGC 62.702 66.667 5.05 0.00 0.00 5.68
213 229 3.097728 CGACACTGACGACGGCAC 61.098 66.667 0.00 0.00 0.00 5.01
291 307 1.008361 ATTTTGTCGGCGCACAATGC 61.008 50.000 19.92 0.00 40.69 3.56
512 528 2.277756 GGTACGACTACGGCAGCG 60.278 66.667 0.00 0.00 44.46 5.18
604 620 2.436646 CTCGGGTGCGGCAAGATT 60.437 61.111 3.23 0.00 0.00 2.40
721 745 2.050168 CGCCGTGCATGCAAGTTT 60.050 55.556 27.97 0.00 0.00 2.66
810 834 7.903995 ATTCGCAAATTGTATGGTTCAAAAT 57.096 28.000 0.00 0.00 0.00 1.82
844 868 6.635755 TCACATTTTCATCACCGACAGTATA 58.364 36.000 0.00 0.00 0.00 1.47
846 870 8.417884 TCACATTTTCATCACCGACAGTATATA 58.582 33.333 0.00 0.00 0.00 0.86
847 871 9.208022 CACATTTTCATCACCGACAGTATATAT 57.792 33.333 0.00 0.00 0.00 0.86
848 872 9.208022 ACATTTTCATCACCGACAGTATATATG 57.792 33.333 0.00 0.00 0.00 1.78
849 873 9.208022 CATTTTCATCACCGACAGTATATATGT 57.792 33.333 0.00 0.00 0.00 2.29
851 875 7.519032 TTCATCACCGACAGTATATATGTGA 57.481 36.000 0.00 0.00 35.92 3.58
852 876 6.909909 TCATCACCGACAGTATATATGTGAC 58.090 40.000 0.00 0.00 34.47 3.67
853 877 5.700722 TCACCGACAGTATATATGTGACC 57.299 43.478 0.00 0.00 0.00 4.02
854 878 5.134661 TCACCGACAGTATATATGTGACCA 58.865 41.667 0.00 0.00 0.00 4.02
856 880 6.943718 TCACCGACAGTATATATGTGACCATA 59.056 38.462 0.00 0.00 37.92 2.74
857 881 7.614192 TCACCGACAGTATATATGTGACCATAT 59.386 37.037 0.00 0.00 44.56 1.78
858 882 7.702348 CACCGACAGTATATATGTGACCATATG 59.298 40.741 0.00 0.00 42.80 1.78
859 883 7.396339 ACCGACAGTATATATGTGACCATATGT 59.604 37.037 1.24 2.29 42.80 2.29
1036 1061 4.358851 CTTGCAAACTTCACCAAATCGAA 58.641 39.130 0.00 0.00 0.00 3.71
1348 1388 2.901042 GGAACCTCTACTGGGCCG 59.099 66.667 0.00 0.00 0.00 6.13
1593 1633 1.269102 CCGCCCTACTGATTCTGTACG 60.269 57.143 0.00 3.22 0.00 3.67
1603 1645 3.521560 TGATTCTGTACGGCAAGCTAAG 58.478 45.455 0.00 0.00 0.00 2.18
1607 1649 1.818363 GTACGGCAAGCTAAGGGGC 60.818 63.158 0.00 0.00 0.00 5.80
1608 1650 2.294839 TACGGCAAGCTAAGGGGCA 61.295 57.895 0.00 0.00 34.17 5.36
1609 1651 1.843462 TACGGCAAGCTAAGGGGCAA 61.843 55.000 0.00 0.00 34.17 4.52
1618 1662 6.159293 GCAAGCTAAGGGGCAAATATATTTC 58.841 40.000 7.76 3.93 34.17 2.17
1619 1663 6.691508 CAAGCTAAGGGGCAAATATATTTCC 58.308 40.000 7.76 11.55 34.17 3.13
1628 1672 6.367695 GGGGCAAATATATTTCCAAATAACGC 59.632 38.462 19.57 12.59 34.79 4.84
1679 1761 6.043243 ACTTCATGTGAATTACCCGATATCCT 59.957 38.462 0.00 0.00 33.01 3.24
1705 1787 4.407296 ACAAGGTTCTTTGTTAATGGGCAA 59.593 37.500 0.00 0.00 38.05 4.52
1712 1794 3.859411 TTGTTAATGGGCAACGATTCC 57.141 42.857 0.00 0.00 41.66 3.01
1718 1800 1.916506 TGGGCAACGATTCCATTCAA 58.083 45.000 0.00 0.00 37.60 2.69
1729 1811 3.598019 TTCCATTCAAATTCAGCTGGC 57.402 42.857 15.13 0.00 0.00 4.85
1738 1820 2.498248 TCAGCTGGCTGATCGCTC 59.502 61.111 19.66 1.85 46.80 5.03
1746 1828 2.656328 CTGATCGCTCGCGCATGA 60.656 61.111 8.75 0.00 39.59 3.07
1751 1833 0.378257 ATCGCTCGCGCATGATTTTT 59.622 45.000 8.75 0.00 39.59 1.94
1753 1835 1.196130 CGCTCGCGCATGATTTTTCC 61.196 55.000 8.75 0.00 35.30 3.13
1759 1841 2.222931 CGCGCATGATTTTTCCGTTAGA 60.223 45.455 8.75 0.00 0.00 2.10
1766 1848 7.061673 CGCATGATTTTTCCGTTAGATTTGAAA 59.938 33.333 0.00 0.00 0.00 2.69
1794 1876 9.536558 AAGTTCTAAACAATTTTTGAAAAACGC 57.463 25.926 5.08 0.00 37.92 4.84
1797 1879 7.605259 TCTAAACAATTTTTGAAAAACGCGAG 58.395 30.769 15.93 0.00 0.00 5.03
1856 1938 9.775854 ATGAACACATTTTCATATTTTGGAACA 57.224 25.926 0.00 0.00 43.11 3.18
1889 1971 7.826260 AACCATGAAAGGTATAAAATTTGCG 57.174 32.000 0.00 0.00 42.25 4.85
1890 1972 7.164230 ACCATGAAAGGTATAAAATTTGCGA 57.836 32.000 0.00 0.00 40.98 5.10
1891 1973 7.033185 ACCATGAAAGGTATAAAATTTGCGAC 58.967 34.615 0.00 0.00 40.98 5.19
1892 1974 7.093945 ACCATGAAAGGTATAAAATTTGCGACT 60.094 33.333 0.00 0.00 40.98 4.18
1961 2044 6.481954 AAAATGGAAGACTGATACGAACAC 57.518 37.500 0.00 0.00 0.00 3.32
1998 2092 9.956720 TTGTGAACAAATTTTGTCAACATTTTT 57.043 22.222 21.23 5.92 44.59 1.94
2135 2270 9.660180 ACCAGCAAAAAGAAACAAATAGTAAAA 57.340 25.926 0.00 0.00 0.00 1.52
2171 2306 7.734865 AGGAAATTTCTAGAAGGTTCCCAAAAT 59.265 33.333 28.71 16.88 36.50 1.82
2185 2320 7.016563 AGGTTCCCAAAATAGAAAGAAAAGCAT 59.983 33.333 0.00 0.00 0.00 3.79
2220 2355 7.585867 TCTACACTAAAGCTAGATAATCAGCG 58.414 38.462 0.00 0.00 42.74 5.18
2225 2361 0.391793 GCTAGATAATCAGCGGCCCC 60.392 60.000 0.00 0.00 0.00 5.80
2228 2364 1.227853 GATAATCAGCGGCCCCGTT 60.228 57.895 8.66 0.00 42.09 4.44
2241 2377 3.744719 CCGTTCGTCGCTCCCTGA 61.745 66.667 0.00 0.00 38.35 3.86
2283 2420 4.510340 CGACCGAAATCACTAATTAAGGGG 59.490 45.833 0.00 0.00 31.70 4.79
2284 2421 5.677567 GACCGAAATCACTAATTAAGGGGA 58.322 41.667 0.00 0.00 31.70 4.81
2346 2544 2.488153 AGTGGCGCAATTTAGGAGTTTC 59.512 45.455 10.83 0.00 0.00 2.78
2352 2550 4.621460 GCGCAATTTAGGAGTTTCCTTTTC 59.379 41.667 0.30 0.00 46.91 2.29
2364 2562 5.780984 AGTTTCCTTTTCTCGTAGATTCGT 58.219 37.500 0.00 0.00 33.89 3.85
2370 2568 9.859427 TTCCTTTTCTCGTAGATTCGTTTATTA 57.141 29.630 0.00 0.00 33.89 0.98
2403 2604 7.459394 TCTATTAAACCGTGCTTCTAAATCG 57.541 36.000 0.00 0.00 0.00 3.34
2404 2605 2.894307 AAACCGTGCTTCTAAATCGC 57.106 45.000 0.00 0.00 0.00 4.58
2405 2606 1.803334 AACCGTGCTTCTAAATCGCA 58.197 45.000 0.00 0.00 0.00 5.10
2406 2607 1.803334 ACCGTGCTTCTAAATCGCAA 58.197 45.000 0.00 0.00 35.16 4.85
2407 2608 2.147958 ACCGTGCTTCTAAATCGCAAA 58.852 42.857 0.00 0.00 35.16 3.68
2408 2609 2.095919 ACCGTGCTTCTAAATCGCAAAC 60.096 45.455 0.00 0.00 35.16 2.93
2409 2610 2.159627 CCGTGCTTCTAAATCGCAAACT 59.840 45.455 0.00 0.00 35.16 2.66
2410 2611 3.155998 CGTGCTTCTAAATCGCAAACTG 58.844 45.455 0.00 0.00 35.16 3.16
2411 2612 3.363970 CGTGCTTCTAAATCGCAAACTGT 60.364 43.478 0.00 0.00 35.16 3.55
2412 2613 4.537015 GTGCTTCTAAATCGCAAACTGTT 58.463 39.130 0.00 0.00 35.16 3.16
2413 2614 4.976116 GTGCTTCTAAATCGCAAACTGTTT 59.024 37.500 0.00 0.00 35.16 2.83
2414 2615 5.458779 GTGCTTCTAAATCGCAAACTGTTTT 59.541 36.000 2.41 0.00 35.16 2.43
2415 2616 5.685511 TGCTTCTAAATCGCAAACTGTTTTC 59.314 36.000 2.41 0.00 0.00 2.29
2416 2617 5.685511 GCTTCTAAATCGCAAACTGTTTTCA 59.314 36.000 2.41 0.00 0.00 2.69
2417 2618 6.345015 GCTTCTAAATCGCAAACTGTTTTCAC 60.345 38.462 2.41 0.00 0.00 3.18
2418 2619 5.516090 TCTAAATCGCAAACTGTTTTCACC 58.484 37.500 2.41 0.00 0.00 4.02
2419 2620 2.399396 ATCGCAAACTGTTTTCACCG 57.601 45.000 2.41 4.83 0.00 4.94
2420 2621 1.088306 TCGCAAACTGTTTTCACCGT 58.912 45.000 2.41 0.00 0.00 4.83
2421 2622 1.062880 TCGCAAACTGTTTTCACCGTC 59.937 47.619 2.41 0.00 0.00 4.79
2422 2623 1.202087 CGCAAACTGTTTTCACCGTCA 60.202 47.619 2.41 0.00 0.00 4.35
2423 2624 2.729467 CGCAAACTGTTTTCACCGTCAA 60.729 45.455 2.41 0.00 0.00 3.18
2424 2625 3.246619 GCAAACTGTTTTCACCGTCAAA 58.753 40.909 2.41 0.00 0.00 2.69
2425 2626 3.862845 GCAAACTGTTTTCACCGTCAAAT 59.137 39.130 2.41 0.00 0.00 2.32
2426 2627 4.328712 GCAAACTGTTTTCACCGTCAAATT 59.671 37.500 2.41 0.00 0.00 1.82
2427 2628 5.163903 GCAAACTGTTTTCACCGTCAAATTT 60.164 36.000 2.41 0.00 0.00 1.82
2428 2629 6.465978 CAAACTGTTTTCACCGTCAAATTTC 58.534 36.000 2.41 0.00 0.00 2.17
2429 2630 5.576447 ACTGTTTTCACCGTCAAATTTCT 57.424 34.783 0.00 0.00 0.00 2.52
2430 2631 5.578776 ACTGTTTTCACCGTCAAATTTCTC 58.421 37.500 0.00 0.00 0.00 2.87
2431 2632 4.593157 TGTTTTCACCGTCAAATTTCTCG 58.407 39.130 0.00 0.00 0.00 4.04
2432 2633 2.961522 TTCACCGTCAAATTTCTCGC 57.038 45.000 6.15 0.00 0.00 5.03
2433 2634 0.787787 TCACCGTCAAATTTCTCGCG 59.212 50.000 0.00 0.00 0.00 5.87
2434 2635 0.511221 CACCGTCAAATTTCTCGCGT 59.489 50.000 5.77 4.06 0.00 6.01
2435 2636 0.788391 ACCGTCAAATTTCTCGCGTC 59.212 50.000 5.77 0.00 0.00 5.19
2436 2637 0.246757 CCGTCAAATTTCTCGCGTCG 60.247 55.000 5.77 0.00 0.00 5.12
2437 2638 0.706184 CGTCAAATTTCTCGCGTCGA 59.294 50.000 5.77 0.63 0.00 4.20
2438 2639 1.123576 CGTCAAATTTCTCGCGTCGAA 59.876 47.619 5.77 7.79 34.74 3.71
2439 2640 2.409244 CGTCAAATTTCTCGCGTCGAAA 60.409 45.455 21.63 21.63 34.74 3.46
2440 2641 3.720920 CGTCAAATTTCTCGCGTCGAAAT 60.721 43.478 23.39 23.39 41.46 2.17
2441 2642 3.774064 GTCAAATTTCTCGCGTCGAAATC 59.226 43.478 26.59 16.70 39.46 2.17
2442 2643 3.678072 TCAAATTTCTCGCGTCGAAATCT 59.322 39.130 26.59 17.48 39.46 2.40
2443 2644 4.151689 TCAAATTTCTCGCGTCGAAATCTT 59.848 37.500 26.59 21.21 39.46 2.40
2444 2645 4.663636 AATTTCTCGCGTCGAAATCTTT 57.336 36.364 26.59 16.37 39.46 2.52
2445 2646 5.773239 AATTTCTCGCGTCGAAATCTTTA 57.227 34.783 26.59 9.88 39.46 1.85
2446 2647 5.773239 ATTTCTCGCGTCGAAATCTTTAA 57.227 34.783 23.39 7.22 36.62 1.52
2447 2648 5.579384 TTTCTCGCGTCGAAATCTTTAAA 57.421 34.783 17.67 0.00 34.74 1.52
2448 2649 4.817987 TCTCGCGTCGAAATCTTTAAAG 57.182 40.909 5.77 9.04 34.74 1.85
2449 2650 3.060363 TCTCGCGTCGAAATCTTTAAAGC 59.940 43.478 10.51 0.00 34.74 3.51
2450 2651 2.991190 TCGCGTCGAAATCTTTAAAGCT 59.009 40.909 10.51 0.00 31.06 3.74
2451 2652 4.168014 TCGCGTCGAAATCTTTAAAGCTA 58.832 39.130 10.51 0.00 31.06 3.32
2452 2653 4.264614 TCGCGTCGAAATCTTTAAAGCTAG 59.735 41.667 10.51 0.83 31.06 3.42
2453 2654 4.264614 CGCGTCGAAATCTTTAAAGCTAGA 59.735 41.667 10.51 3.06 0.00 2.43
2454 2655 5.051641 CGCGTCGAAATCTTTAAAGCTAGAT 60.052 40.000 10.51 0.00 32.62 1.98
2455 2656 6.348653 GCGTCGAAATCTTTAAAGCTAGATC 58.651 40.000 10.51 3.87 30.95 2.75
2456 2657 6.562455 GCGTCGAAATCTTTAAAGCTAGATCC 60.562 42.308 10.51 0.00 30.95 3.36
2457 2658 6.074249 CGTCGAAATCTTTAAAGCTAGATCCC 60.074 42.308 10.51 0.00 30.95 3.85
2458 2659 5.983720 TCGAAATCTTTAAAGCTAGATCCCG 59.016 40.000 10.51 6.47 30.95 5.14
2459 2660 5.753921 CGAAATCTTTAAAGCTAGATCCCGT 59.246 40.000 10.51 0.00 30.95 5.28
2460 2661 6.292381 CGAAATCTTTAAAGCTAGATCCCGTG 60.292 42.308 10.51 0.00 30.95 4.94
2461 2662 5.615925 ATCTTTAAAGCTAGATCCCGTGT 57.384 39.130 10.51 0.00 0.00 4.49
2462 2663 5.416271 TCTTTAAAGCTAGATCCCGTGTT 57.584 39.130 10.51 0.00 0.00 3.32
2463 2664 6.534475 TCTTTAAAGCTAGATCCCGTGTTA 57.466 37.500 10.51 0.00 0.00 2.41
2464 2665 6.938507 TCTTTAAAGCTAGATCCCGTGTTAA 58.061 36.000 10.51 0.00 0.00 2.01
2465 2666 7.562135 TCTTTAAAGCTAGATCCCGTGTTAAT 58.438 34.615 10.51 0.00 0.00 1.40
2466 2667 8.698210 TCTTTAAAGCTAGATCCCGTGTTAATA 58.302 33.333 10.51 0.00 0.00 0.98
2467 2668 8.882415 TTTAAAGCTAGATCCCGTGTTAATAG 57.118 34.615 0.00 0.00 0.00 1.73
2468 2669 5.470047 AAGCTAGATCCCGTGTTAATAGG 57.530 43.478 0.00 0.00 0.00 2.57
2469 2670 4.481072 AGCTAGATCCCGTGTTAATAGGT 58.519 43.478 0.00 0.00 0.00 3.08
2470 2671 4.900054 AGCTAGATCCCGTGTTAATAGGTT 59.100 41.667 0.00 0.00 0.00 3.50
2471 2672 5.365895 AGCTAGATCCCGTGTTAATAGGTTT 59.634 40.000 0.00 0.00 0.00 3.27
2472 2673 6.053650 GCTAGATCCCGTGTTAATAGGTTTT 58.946 40.000 0.00 0.00 0.00 2.43
2473 2674 6.018180 GCTAGATCCCGTGTTAATAGGTTTTG 60.018 42.308 0.00 0.00 0.00 2.44
2474 2675 6.057321 AGATCCCGTGTTAATAGGTTTTGA 57.943 37.500 0.00 0.00 0.00 2.69
2475 2676 5.878669 AGATCCCGTGTTAATAGGTTTTGAC 59.121 40.000 0.00 0.00 0.00 3.18
2476 2677 3.995705 TCCCGTGTTAATAGGTTTTGACG 59.004 43.478 0.00 0.00 0.00 4.35
2477 2678 3.995705 CCCGTGTTAATAGGTTTTGACGA 59.004 43.478 0.00 0.00 0.00 4.20
2478 2679 4.451774 CCCGTGTTAATAGGTTTTGACGAA 59.548 41.667 0.00 0.00 0.00 3.85
2479 2680 5.376537 CCGTGTTAATAGGTTTTGACGAAC 58.623 41.667 0.00 0.00 0.00 3.95
2480 2681 5.178067 CCGTGTTAATAGGTTTTGACGAACT 59.822 40.000 0.00 0.00 0.00 3.01
2481 2682 6.293027 CCGTGTTAATAGGTTTTGACGAACTT 60.293 38.462 0.00 0.00 0.00 2.66
2482 2683 6.788930 CGTGTTAATAGGTTTTGACGAACTTC 59.211 38.462 0.00 0.00 0.00 3.01
2483 2684 7.306983 CGTGTTAATAGGTTTTGACGAACTTCT 60.307 37.037 0.00 0.00 0.00 2.85
2484 2685 8.340443 GTGTTAATAGGTTTTGACGAACTTCTT 58.660 33.333 0.00 0.00 0.00 2.52
2485 2686 8.895737 TGTTAATAGGTTTTGACGAACTTCTTT 58.104 29.630 0.00 0.00 0.00 2.52
2486 2687 9.726232 GTTAATAGGTTTTGACGAACTTCTTTT 57.274 29.630 0.00 0.00 0.00 2.27
2488 2689 8.851960 AATAGGTTTTGACGAACTTCTTTTTC 57.148 30.769 0.00 0.00 0.00 2.29
2489 2690 6.262193 AGGTTTTGACGAACTTCTTTTTCA 57.738 33.333 0.00 0.00 0.00 2.69
2490 2691 6.090783 AGGTTTTGACGAACTTCTTTTTCAC 58.909 36.000 0.00 0.00 0.00 3.18
2491 2692 5.859648 GGTTTTGACGAACTTCTTTTTCACA 59.140 36.000 0.00 0.00 0.00 3.58
2492 2693 6.363896 GGTTTTGACGAACTTCTTTTTCACAA 59.636 34.615 0.00 0.00 0.00 3.33
2493 2694 7.095982 GGTTTTGACGAACTTCTTTTTCACAAA 60.096 33.333 0.00 0.00 32.34 2.83
2494 2695 7.932120 TTTGACGAACTTCTTTTTCACAAAA 57.068 28.000 0.00 0.00 31.81 2.44
2495 2696 7.932120 TTGACGAACTTCTTTTTCACAAAAA 57.068 28.000 0.00 0.00 37.99 1.94
2520 2721 7.744087 AATGGAAGAAAAATAAAACCAAGCC 57.256 32.000 0.00 0.00 0.00 4.35
2521 2722 5.293560 TGGAAGAAAAATAAAACCAAGCCG 58.706 37.500 0.00 0.00 0.00 5.52
2522 2723 5.069251 TGGAAGAAAAATAAAACCAAGCCGA 59.931 36.000 0.00 0.00 0.00 5.54
2523 2724 5.986741 GGAAGAAAAATAAAACCAAGCCGAA 59.013 36.000 0.00 0.00 0.00 4.30
2524 2725 6.480651 GGAAGAAAAATAAAACCAAGCCGAAA 59.519 34.615 0.00 0.00 0.00 3.46
2525 2726 7.307160 GGAAGAAAAATAAAACCAAGCCGAAAG 60.307 37.037 0.00 0.00 0.00 2.62
2526 2727 5.465390 AGAAAAATAAAACCAAGCCGAAAGC 59.535 36.000 0.00 0.00 44.25 3.51
2537 2738 2.044888 GCCGAAAGCACGATTTTTCA 57.955 45.000 0.00 0.00 42.97 2.69
2538 2739 1.713932 GCCGAAAGCACGATTTTTCAC 59.286 47.619 0.00 0.00 42.97 3.18
2539 2740 2.856720 GCCGAAAGCACGATTTTTCACA 60.857 45.455 0.00 0.00 42.97 3.58
2540 2741 2.973224 CCGAAAGCACGATTTTTCACAG 59.027 45.455 0.00 0.00 33.89 3.66
2541 2742 3.548014 CCGAAAGCACGATTTTTCACAGT 60.548 43.478 0.00 0.00 33.89 3.55
2542 2743 4.035017 CGAAAGCACGATTTTTCACAGTT 58.965 39.130 0.00 0.00 33.89 3.16
2543 2744 4.499040 CGAAAGCACGATTTTTCACAGTTT 59.501 37.500 0.00 0.00 33.89 2.66
2544 2745 5.004345 CGAAAGCACGATTTTTCACAGTTTT 59.996 36.000 0.00 0.00 33.89 2.43
2545 2746 6.453659 CGAAAGCACGATTTTTCACAGTTTTT 60.454 34.615 0.00 0.00 33.89 1.94
2566 2767 5.982890 TTTTCCTTTTCCAAGAGGCATAG 57.017 39.130 0.00 0.00 32.93 2.23
2567 2768 4.657814 TTCCTTTTCCAAGAGGCATAGT 57.342 40.909 0.00 0.00 32.93 2.12
2568 2769 4.657814 TCCTTTTCCAAGAGGCATAGTT 57.342 40.909 0.00 0.00 32.93 2.24
2569 2770 4.335416 TCCTTTTCCAAGAGGCATAGTTG 58.665 43.478 0.00 0.00 32.93 3.16
2570 2771 4.082125 CCTTTTCCAAGAGGCATAGTTGT 58.918 43.478 0.00 0.00 33.74 3.32
2571 2772 4.082571 CCTTTTCCAAGAGGCATAGTTGTG 60.083 45.833 0.00 0.00 33.74 3.33
2572 2773 2.113860 TCCAAGAGGCATAGTTGTGC 57.886 50.000 0.00 0.00 44.31 4.57
2580 2781 0.383231 GCATAGTTGTGCCTCCATGC 59.617 55.000 0.00 0.00 39.18 4.06
2581 2782 0.659427 CATAGTTGTGCCTCCATGCG 59.341 55.000 0.00 0.00 0.00 4.73
2582 2783 0.541392 ATAGTTGTGCCTCCATGCGA 59.459 50.000 0.00 0.00 0.00 5.10
2583 2784 0.323302 TAGTTGTGCCTCCATGCGAA 59.677 50.000 0.00 0.00 0.00 4.70
2584 2785 0.537143 AGTTGTGCCTCCATGCGAAA 60.537 50.000 0.00 0.00 0.00 3.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 36 1.142748 GATGGACCAGCTCACTCGG 59.857 63.158 1.43 0.00 0.00 4.63
58 62 0.911769 TGTATTGAGAGGGTGGGCAG 59.088 55.000 0.00 0.00 0.00 4.85
64 68 2.644798 AGCTTGGTTGTATTGAGAGGGT 59.355 45.455 0.00 0.00 0.00 4.34
89 105 2.364002 CCATTTTCGTGGGTTTCCAGTT 59.636 45.455 0.00 0.00 45.05 3.16
90 106 1.960689 CCATTTTCGTGGGTTTCCAGT 59.039 47.619 0.00 0.00 45.05 4.00
91 107 1.336795 GCCATTTTCGTGGGTTTCCAG 60.337 52.381 0.00 0.00 45.05 3.86
104 120 2.890311 TCATCCTTGTGTTCGCCATTTT 59.110 40.909 0.00 0.00 0.00 1.82
130 146 1.347062 TGGTGAGGTAGCACATGTGA 58.653 50.000 29.80 6.58 40.52 3.58
155 171 2.096496 GTGCCAGTAATGCAAGCAGTAG 59.904 50.000 2.11 0.00 41.06 2.57
346 362 1.517913 GGCGTAGTCCTTGGCGTAC 60.518 63.158 0.00 0.00 0.00 3.67
494 510 2.277756 GCTGCCGTAGTCGTACCG 60.278 66.667 0.00 0.00 35.01 4.02
652 668 4.388499 CCGGTGCCGTAGTTGCCT 62.388 66.667 9.90 0.00 37.81 4.75
721 745 1.613317 CCACGTGGAGGGATGCAGTA 61.613 60.000 31.31 0.00 37.39 2.74
846 870 5.308976 TGGATTGCTACATATGGTCACAT 57.691 39.130 7.80 0.00 41.13 3.21
847 871 4.769345 TGGATTGCTACATATGGTCACA 57.231 40.909 7.80 0.00 0.00 3.58
848 872 6.936900 AGTAATGGATTGCTACATATGGTCAC 59.063 38.462 7.80 0.00 30.79 3.67
849 873 7.078249 AGTAATGGATTGCTACATATGGTCA 57.922 36.000 7.80 0.00 30.79 4.02
851 875 6.014584 TCGAGTAATGGATTGCTACATATGGT 60.015 38.462 7.80 0.00 32.78 3.55
852 876 6.311445 GTCGAGTAATGGATTGCTACATATGG 59.689 42.308 7.80 0.00 32.78 2.74
853 877 6.033937 CGTCGAGTAATGGATTGCTACATATG 59.966 42.308 0.00 0.00 32.78 1.78
854 878 6.072119 TCGTCGAGTAATGGATTGCTACATAT 60.072 38.462 0.00 0.00 32.78 1.78
856 880 4.037565 TCGTCGAGTAATGGATTGCTACAT 59.962 41.667 0.00 0.00 32.78 2.29
857 881 3.379057 TCGTCGAGTAATGGATTGCTACA 59.621 43.478 0.00 0.00 32.78 2.74
858 882 3.961182 TCGTCGAGTAATGGATTGCTAC 58.039 45.455 0.00 0.00 32.78 3.58
859 883 4.277423 TCATCGTCGAGTAATGGATTGCTA 59.723 41.667 0.00 0.00 32.78 3.49
1593 1633 1.775385 TATTTGCCCCTTAGCTTGCC 58.225 50.000 0.00 0.00 0.00 4.52
1603 1645 6.367695 GCGTTATTTGGAAATATATTTGCCCC 59.632 38.462 22.39 14.72 37.31 5.80
1618 1662 1.325037 TGCGTCGTATGCGTTATTTGG 59.675 47.619 2.37 0.00 39.49 3.28
1619 1663 2.350616 GTGCGTCGTATGCGTTATTTG 58.649 47.619 2.37 0.00 39.49 2.32
1628 1672 1.268386 ACTATGGTCGTGCGTCGTATG 60.268 52.381 0.00 0.00 40.80 2.39
1679 1761 4.586841 CCCATTAACAAAGAACCTTGTCCA 59.413 41.667 0.00 0.00 38.59 4.02
1705 1787 4.142315 CCAGCTGAATTTGAATGGAATCGT 60.142 41.667 17.39 0.00 0.00 3.73
1738 1820 2.101125 CTAACGGAAAAATCATGCGCG 58.899 47.619 0.00 0.00 34.78 6.86
1809 1891 8.642020 GTTCATCATTTCTAAAGTTGTTCATGC 58.358 33.333 0.00 0.00 0.00 4.06
1812 1894 8.681806 TGTGTTCATCATTTCTAAAGTTGTTCA 58.318 29.630 0.00 0.00 0.00 3.18
1828 1910 9.993454 TTCCAAAATATGAAAATGTGTTCATCA 57.007 25.926 1.78 0.00 43.24 3.07
1863 1945 9.360093 CGCAAATTTTATACCTTTCATGGTTTA 57.640 29.630 0.00 0.00 41.22 2.01
1866 1948 7.033185 GTCGCAAATTTTATACCTTTCATGGT 58.967 34.615 0.00 0.00 43.66 3.55
1868 1950 8.687824 AAGTCGCAAATTTTATACCTTTCATG 57.312 30.769 0.00 0.00 0.00 3.07
1869 1951 9.705290 AAAAGTCGCAAATTTTATACCTTTCAT 57.295 25.926 0.00 0.00 0.00 2.57
1870 1952 9.535878 AAAAAGTCGCAAATTTTATACCTTTCA 57.464 25.926 0.00 0.00 0.00 2.69
1942 2025 4.866508 AAGTGTTCGTATCAGTCTTCCA 57.133 40.909 0.00 0.00 0.00 3.53
1955 2038 8.388319 TGTTCACAAATTTCTAAAAGTGTTCG 57.612 30.769 4.57 0.00 0.00 3.95
2135 2270 8.642432 CCTTCTAGAAATTTCCTGAACCTTTTT 58.358 33.333 14.61 0.00 0.00 1.94
2200 2335 4.561105 GCCGCTGATTATCTAGCTTTAGT 58.439 43.478 0.00 0.00 37.78 2.24
2204 2339 1.002544 GGGCCGCTGATTATCTAGCTT 59.997 52.381 0.00 0.00 37.78 3.74
2225 2361 2.504244 GTCAGGGAGCGACGAACG 60.504 66.667 0.00 0.00 45.66 3.95
2228 2364 2.415608 GGATGTCAGGGAGCGACGA 61.416 63.158 0.00 0.00 36.11 4.20
2262 2399 5.703730 TCCCCTTAATTAGTGATTTCGGT 57.296 39.130 0.00 0.00 0.00 4.69
2314 2512 2.819595 CGCCACTTGCCGCATACT 60.820 61.111 0.00 0.00 36.24 2.12
2315 2513 4.536687 GCGCCACTTGCCGCATAC 62.537 66.667 0.00 0.00 38.69 2.39
2322 2520 0.525761 TCCTAAATTGCGCCACTTGC 59.474 50.000 4.18 0.00 0.00 4.01
2377 2575 8.548721 CGATTTAGAAGCACGGTTTAATAGATT 58.451 33.333 0.00 0.00 0.00 2.40
2391 2592 4.829064 AACAGTTTGCGATTTAGAAGCA 57.171 36.364 0.00 0.00 39.33 3.91
2392 2593 5.685511 TGAAAACAGTTTGCGATTTAGAAGC 59.314 36.000 0.00 0.00 0.00 3.86
2393 2594 6.142320 GGTGAAAACAGTTTGCGATTTAGAAG 59.858 38.462 0.00 0.00 0.00 2.85
2394 2595 5.974751 GGTGAAAACAGTTTGCGATTTAGAA 59.025 36.000 0.00 0.00 0.00 2.10
2395 2596 5.516090 GGTGAAAACAGTTTGCGATTTAGA 58.484 37.500 0.00 0.00 0.00 2.10
2396 2597 4.378616 CGGTGAAAACAGTTTGCGATTTAG 59.621 41.667 0.00 0.00 0.00 1.85
2397 2598 4.201930 ACGGTGAAAACAGTTTGCGATTTA 60.202 37.500 0.00 0.00 0.00 1.40
2398 2599 3.112580 CGGTGAAAACAGTTTGCGATTT 58.887 40.909 0.00 0.00 0.00 2.17
2399 2600 2.098443 ACGGTGAAAACAGTTTGCGATT 59.902 40.909 0.00 0.00 0.00 3.34
2400 2601 1.673920 ACGGTGAAAACAGTTTGCGAT 59.326 42.857 0.00 0.00 0.00 4.58
2401 2602 1.062880 GACGGTGAAAACAGTTTGCGA 59.937 47.619 0.00 0.00 0.00 5.10
2402 2603 1.202087 TGACGGTGAAAACAGTTTGCG 60.202 47.619 0.00 0.00 0.00 4.85
2403 2604 2.553079 TGACGGTGAAAACAGTTTGC 57.447 45.000 0.00 0.00 0.00 3.68
2404 2605 6.310224 AGAAATTTGACGGTGAAAACAGTTTG 59.690 34.615 0.00 0.00 0.00 2.93
2405 2606 6.394809 AGAAATTTGACGGTGAAAACAGTTT 58.605 32.000 0.00 0.00 0.00 2.66
2406 2607 5.961272 AGAAATTTGACGGTGAAAACAGTT 58.039 33.333 0.00 0.00 0.00 3.16
2407 2608 5.576447 AGAAATTTGACGGTGAAAACAGT 57.424 34.783 0.00 0.00 0.00 3.55
2408 2609 4.670621 CGAGAAATTTGACGGTGAAAACAG 59.329 41.667 0.00 0.00 0.00 3.16
2409 2610 4.593157 CGAGAAATTTGACGGTGAAAACA 58.407 39.130 0.00 0.00 0.00 2.83
2410 2611 3.420904 GCGAGAAATTTGACGGTGAAAAC 59.579 43.478 13.03 0.00 0.00 2.43
2411 2612 3.623863 GCGAGAAATTTGACGGTGAAAA 58.376 40.909 13.03 0.00 0.00 2.29
2412 2613 2.349060 CGCGAGAAATTTGACGGTGAAA 60.349 45.455 0.00 0.00 0.00 2.69
2413 2614 1.193650 CGCGAGAAATTTGACGGTGAA 59.806 47.619 0.00 0.00 0.00 3.18
2414 2615 0.787787 CGCGAGAAATTTGACGGTGA 59.212 50.000 0.00 0.00 0.00 4.02
2415 2616 0.511221 ACGCGAGAAATTTGACGGTG 59.489 50.000 15.93 2.73 0.00 4.94
2416 2617 0.788391 GACGCGAGAAATTTGACGGT 59.212 50.000 15.93 9.86 0.00 4.83
2417 2618 0.246757 CGACGCGAGAAATTTGACGG 60.247 55.000 15.93 7.61 0.00 4.79
2418 2619 0.706184 TCGACGCGAGAAATTTGACG 59.294 50.000 15.93 2.26 0.00 4.35
2419 2620 2.848562 TTCGACGCGAGAAATTTGAC 57.151 45.000 15.93 0.00 37.14 3.18
2420 2621 3.678072 AGATTTCGACGCGAGAAATTTGA 59.322 39.130 31.02 15.95 45.18 2.69
2421 2622 3.991069 AGATTTCGACGCGAGAAATTTG 58.009 40.909 31.02 10.01 45.18 2.32
2422 2623 4.663636 AAGATTTCGACGCGAGAAATTT 57.336 36.364 31.02 26.40 45.18 1.82
2423 2624 4.663636 AAAGATTTCGACGCGAGAAATT 57.336 36.364 31.02 21.63 45.18 1.82
2425 2626 5.579384 TTTAAAGATTTCGACGCGAGAAA 57.421 34.783 26.46 26.46 41.17 2.52
2426 2627 4.433805 GCTTTAAAGATTTCGACGCGAGAA 60.434 41.667 19.48 15.53 37.14 2.87
2427 2628 3.060363 GCTTTAAAGATTTCGACGCGAGA 59.940 43.478 19.48 9.34 37.14 4.04
2428 2629 3.060895 AGCTTTAAAGATTTCGACGCGAG 59.939 43.478 19.48 6.55 37.14 5.03
2429 2630 2.991190 AGCTTTAAAGATTTCGACGCGA 59.009 40.909 19.48 0.00 0.00 5.87
2430 2631 3.369835 AGCTTTAAAGATTTCGACGCG 57.630 42.857 19.48 3.53 0.00 6.01
2431 2632 5.697848 TCTAGCTTTAAAGATTTCGACGC 57.302 39.130 19.48 0.81 0.00 5.19
2432 2633 6.074249 GGGATCTAGCTTTAAAGATTTCGACG 60.074 42.308 19.48 0.00 0.00 5.12
2433 2634 6.074249 CGGGATCTAGCTTTAAAGATTTCGAC 60.074 42.308 19.48 4.31 0.00 4.20
2434 2635 5.983720 CGGGATCTAGCTTTAAAGATTTCGA 59.016 40.000 19.48 10.19 0.00 3.71
2435 2636 5.753921 ACGGGATCTAGCTTTAAAGATTTCG 59.246 40.000 19.48 12.34 0.00 3.46
2436 2637 6.539103 ACACGGGATCTAGCTTTAAAGATTTC 59.461 38.462 19.48 10.09 0.00 2.17
2437 2638 6.415573 ACACGGGATCTAGCTTTAAAGATTT 58.584 36.000 19.48 6.04 0.00 2.17
2438 2639 5.990668 ACACGGGATCTAGCTTTAAAGATT 58.009 37.500 19.48 8.45 0.00 2.40
2439 2640 5.615925 ACACGGGATCTAGCTTTAAAGAT 57.384 39.130 19.48 15.39 0.00 2.40
2440 2641 5.416271 AACACGGGATCTAGCTTTAAAGA 57.584 39.130 19.48 0.00 0.00 2.52
2441 2642 7.787725 ATTAACACGGGATCTAGCTTTAAAG 57.212 36.000 11.02 11.02 0.00 1.85
2442 2643 7.929785 CCTATTAACACGGGATCTAGCTTTAAA 59.070 37.037 0.00 0.00 0.00 1.52
2443 2644 7.070322 ACCTATTAACACGGGATCTAGCTTTAA 59.930 37.037 0.00 0.00 0.00 1.52
2444 2645 6.552350 ACCTATTAACACGGGATCTAGCTTTA 59.448 38.462 0.00 0.00 0.00 1.85
2445 2646 5.365895 ACCTATTAACACGGGATCTAGCTTT 59.634 40.000 0.00 0.00 0.00 3.51
2446 2647 4.900054 ACCTATTAACACGGGATCTAGCTT 59.100 41.667 0.00 0.00 0.00 3.74
2447 2648 4.481072 ACCTATTAACACGGGATCTAGCT 58.519 43.478 0.00 0.00 0.00 3.32
2448 2649 4.868314 ACCTATTAACACGGGATCTAGC 57.132 45.455 0.00 0.00 0.00 3.42
2449 2650 7.224167 GTCAAAACCTATTAACACGGGATCTAG 59.776 40.741 0.00 0.00 0.00 2.43
2450 2651 7.043565 GTCAAAACCTATTAACACGGGATCTA 58.956 38.462 0.00 0.00 0.00 1.98
2451 2652 5.878669 GTCAAAACCTATTAACACGGGATCT 59.121 40.000 0.00 0.00 0.00 2.75
2452 2653 5.220529 CGTCAAAACCTATTAACACGGGATC 60.221 44.000 0.00 0.00 0.00 3.36
2453 2654 4.632688 CGTCAAAACCTATTAACACGGGAT 59.367 41.667 0.00 0.00 0.00 3.85
2454 2655 3.995705 CGTCAAAACCTATTAACACGGGA 59.004 43.478 0.00 0.00 0.00 5.14
2455 2656 3.995705 TCGTCAAAACCTATTAACACGGG 59.004 43.478 0.00 0.00 0.00 5.28
2456 2657 5.178067 AGTTCGTCAAAACCTATTAACACGG 59.822 40.000 0.00 0.00 0.00 4.94
2457 2658 6.219302 AGTTCGTCAAAACCTATTAACACG 57.781 37.500 0.00 0.00 0.00 4.49
2458 2659 7.858583 AGAAGTTCGTCAAAACCTATTAACAC 58.141 34.615 0.00 0.00 0.00 3.32
2459 2660 8.441312 AAGAAGTTCGTCAAAACCTATTAACA 57.559 30.769 0.00 0.00 0.00 2.41
2460 2661 9.726232 AAAAGAAGTTCGTCAAAACCTATTAAC 57.274 29.630 0.00 0.00 0.00 2.01
2462 2663 9.940166 GAAAAAGAAGTTCGTCAAAACCTATTA 57.060 29.630 0.00 0.00 0.00 0.98
2463 2664 8.463607 TGAAAAAGAAGTTCGTCAAAACCTATT 58.536 29.630 0.00 0.00 0.00 1.73
2464 2665 7.913821 GTGAAAAAGAAGTTCGTCAAAACCTAT 59.086 33.333 0.00 0.00 0.00 2.57
2465 2666 7.094720 TGTGAAAAAGAAGTTCGTCAAAACCTA 60.095 33.333 0.00 0.00 0.00 3.08
2466 2667 6.090783 GTGAAAAAGAAGTTCGTCAAAACCT 58.909 36.000 0.00 0.00 0.00 3.50
2467 2668 5.859648 TGTGAAAAAGAAGTTCGTCAAAACC 59.140 36.000 0.00 0.00 0.00 3.27
2468 2669 6.921332 TGTGAAAAAGAAGTTCGTCAAAAC 57.079 33.333 0.00 0.00 0.00 2.43
2469 2670 7.932120 TTTGTGAAAAAGAAGTTCGTCAAAA 57.068 28.000 0.00 0.00 0.00 2.44
2470 2671 7.932120 TTTTGTGAAAAAGAAGTTCGTCAAA 57.068 28.000 0.00 0.00 0.00 2.69
2471 2672 7.932120 TTTTTGTGAAAAAGAAGTTCGTCAA 57.068 28.000 0.00 0.00 35.57 3.18
2494 2695 8.629158 GGCTTGGTTTTATTTTTCTTCCATTTT 58.371 29.630 0.00 0.00 0.00 1.82
2495 2696 7.041440 CGGCTTGGTTTTATTTTTCTTCCATTT 60.041 33.333 0.00 0.00 0.00 2.32
2496 2697 6.426633 CGGCTTGGTTTTATTTTTCTTCCATT 59.573 34.615 0.00 0.00 0.00 3.16
2497 2698 5.931724 CGGCTTGGTTTTATTTTTCTTCCAT 59.068 36.000 0.00 0.00 0.00 3.41
2498 2699 5.069251 TCGGCTTGGTTTTATTTTTCTTCCA 59.931 36.000 0.00 0.00 0.00 3.53
2499 2700 5.534407 TCGGCTTGGTTTTATTTTTCTTCC 58.466 37.500 0.00 0.00 0.00 3.46
2500 2701 7.471657 TTTCGGCTTGGTTTTATTTTTCTTC 57.528 32.000 0.00 0.00 0.00 2.87
2501 2702 6.018262 GCTTTCGGCTTGGTTTTATTTTTCTT 60.018 34.615 0.00 0.00 38.06 2.52
2502 2703 5.465390 GCTTTCGGCTTGGTTTTATTTTTCT 59.535 36.000 0.00 0.00 38.06 2.52
2503 2704 5.235401 TGCTTTCGGCTTGGTTTTATTTTTC 59.765 36.000 0.00 0.00 42.39 2.29
2504 2705 5.007234 GTGCTTTCGGCTTGGTTTTATTTTT 59.993 36.000 0.00 0.00 42.39 1.94
2505 2706 4.509970 GTGCTTTCGGCTTGGTTTTATTTT 59.490 37.500 0.00 0.00 42.39 1.82
2506 2707 4.055360 GTGCTTTCGGCTTGGTTTTATTT 58.945 39.130 0.00 0.00 42.39 1.40
2507 2708 3.649073 GTGCTTTCGGCTTGGTTTTATT 58.351 40.909 0.00 0.00 42.39 1.40
2508 2709 2.351350 CGTGCTTTCGGCTTGGTTTTAT 60.351 45.455 0.00 0.00 42.39 1.40
2509 2710 1.002251 CGTGCTTTCGGCTTGGTTTTA 60.002 47.619 0.00 0.00 42.39 1.52
2510 2711 0.248866 CGTGCTTTCGGCTTGGTTTT 60.249 50.000 0.00 0.00 42.39 2.43
2511 2712 1.098712 TCGTGCTTTCGGCTTGGTTT 61.099 50.000 0.00 0.00 42.39 3.27
2512 2713 0.889186 ATCGTGCTTTCGGCTTGGTT 60.889 50.000 0.00 0.00 42.39 3.67
2513 2714 0.889186 AATCGTGCTTTCGGCTTGGT 60.889 50.000 0.00 0.00 42.39 3.67
2514 2715 0.240945 AAATCGTGCTTTCGGCTTGG 59.759 50.000 0.00 0.00 42.39 3.61
2515 2716 2.050477 AAAATCGTGCTTTCGGCTTG 57.950 45.000 0.00 0.00 42.39 4.01
2516 2717 2.034053 TGAAAAATCGTGCTTTCGGCTT 59.966 40.909 0.00 0.00 42.39 4.35
2517 2718 1.606668 TGAAAAATCGTGCTTTCGGCT 59.393 42.857 0.00 0.00 42.39 5.52
2518 2719 1.713932 GTGAAAAATCGTGCTTTCGGC 59.286 47.619 0.00 0.00 42.22 5.54
2519 2720 2.973224 CTGTGAAAAATCGTGCTTTCGG 59.027 45.455 0.00 0.00 34.84 4.30
2520 2721 3.617669 ACTGTGAAAAATCGTGCTTTCG 58.382 40.909 0.00 0.00 34.84 3.46
2521 2722 5.949233 AAACTGTGAAAAATCGTGCTTTC 57.051 34.783 0.00 0.00 33.10 2.62
2522 2723 6.720012 AAAAACTGTGAAAAATCGTGCTTT 57.280 29.167 0.00 0.00 0.00 3.51
2543 2744 5.838521 ACTATGCCTCTTGGAAAAGGAAAAA 59.161 36.000 0.00 0.00 34.35 1.94
2544 2745 5.393866 ACTATGCCTCTTGGAAAAGGAAAA 58.606 37.500 0.00 0.00 34.35 2.29
2545 2746 4.998051 ACTATGCCTCTTGGAAAAGGAAA 58.002 39.130 0.00 0.00 34.35 3.13
2546 2747 4.657814 ACTATGCCTCTTGGAAAAGGAA 57.342 40.909 0.00 0.00 34.35 3.36
2547 2748 4.202567 ACAACTATGCCTCTTGGAAAAGGA 60.203 41.667 0.00 0.00 34.35 3.36
2548 2749 4.082125 ACAACTATGCCTCTTGGAAAAGG 58.918 43.478 0.00 0.00 34.57 3.11
2549 2750 4.616835 GCACAACTATGCCTCTTGGAAAAG 60.617 45.833 0.00 0.00 39.86 2.27
2550 2751 3.255642 GCACAACTATGCCTCTTGGAAAA 59.744 43.478 0.00 0.00 39.86 2.29
2551 2752 2.819608 GCACAACTATGCCTCTTGGAAA 59.180 45.455 0.00 0.00 39.86 3.13
2552 2753 2.436417 GCACAACTATGCCTCTTGGAA 58.564 47.619 0.00 0.00 39.86 3.53
2553 2754 2.113860 GCACAACTATGCCTCTTGGA 57.886 50.000 0.00 0.00 39.86 3.53
2561 2762 0.383231 GCATGGAGGCACAACTATGC 59.617 55.000 0.00 0.00 45.34 3.14
2562 2763 0.659427 CGCATGGAGGCACAACTATG 59.341 55.000 0.00 0.00 0.00 2.23
2563 2764 0.541392 TCGCATGGAGGCACAACTAT 59.459 50.000 0.00 0.00 0.00 2.12
2564 2765 0.323302 TTCGCATGGAGGCACAACTA 59.677 50.000 0.00 0.00 0.00 2.24
2565 2766 0.537143 TTTCGCATGGAGGCACAACT 60.537 50.000 0.00 0.00 0.00 3.16
2566 2767 1.956043 TTTCGCATGGAGGCACAAC 59.044 52.632 0.00 0.00 0.00 3.32
2567 2768 4.490696 TTTCGCATGGAGGCACAA 57.509 50.000 0.00 0.00 0.00 3.33


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

AutoCloner maintained by Alex Coulton.