Multiple sequence alignment - TraesCS3B01G388800

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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 TraesCS3B01G388800 chr3B 100.000 2905 0 0 1 2905 611726304 611729208 0.000000e+00 5365
1 TraesCS3B01G388800 chr3B 96.667 180 5 1 2435 2613 611728678 611728857 6.090000e-77 298
2 TraesCS3B01G388800 chr3B 96.667 180 5 1 2375 2554 611728738 611728916 6.090000e-77 298
3 TraesCS3B01G388800 chr3B 96.667 120 3 1 2495 2613 611728678 611728797 6.350000e-47 198
4 TraesCS3B01G388800 chr3B 96.667 120 3 1 2375 2494 611728798 611728916 6.350000e-47 198
5 TraesCS3B01G388800 chr3B 96.667 60 1 1 2555 2613 611728678 611728737 6.620000e-17 99
6 TraesCS3B01G388800 chr3B 96.667 60 1 1 2375 2434 611728858 611728916 6.620000e-17 99
7 TraesCS3B01G388800 chr3A 89.187 2201 165 45 9 2171 603802275 603804440 0.000000e+00 2678
8 TraesCS3B01G388800 chr3A 83.880 366 42 11 2555 2905 603804730 603805093 1.670000e-87 333
9 TraesCS3B01G388800 chr3A 85.496 131 17 2 2305 2434 603804661 603804790 5.050000e-28 135
10 TraesCS3B01G388800 chr3D 91.076 1412 86 23 857 2237 461212532 461213934 0.000000e+00 1873
11 TraesCS3B01G388800 chr3D 86.884 953 77 22 1 928 461211556 461212485 0.000000e+00 1024
12 TraesCS3B01G388800 chr3D 91.111 90 7 1 2794 2882 461214208 461214297 1.410000e-23 121
13 TraesCS3B01G388800 chr1B 83.309 689 68 22 82 733 469588572 469589250 2.490000e-165 592
14 TraesCS3B01G388800 chr1B 83.033 389 55 8 1158 1541 513545775 513545393 2.770000e-90 342
15 TraesCS3B01G388800 chr1D 83.505 388 55 9 1158 1541 383320442 383320060 1.280000e-93 353
16 TraesCS3B01G388800 chr1A 83.548 389 53 8 1158 1541 483034072 483033690 1.280000e-93 353


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 TraesCS3B01G388800 chr3B 611726304 611729208 2904 False 936.428571 5365 97.143143 1 2905 7 chr3B.!!$F1 2904
1 TraesCS3B01G388800 chr3A 603802275 603805093 2818 False 1048.666667 2678 86.187667 9 2905 3 chr3A.!!$F1 2896
2 TraesCS3B01G388800 chr3D 461211556 461214297 2741 False 1006.000000 1873 89.690333 1 2882 3 chr3D.!!$F1 2881
3 TraesCS3B01G388800 chr1B 469588572 469589250 678 False 592.000000 592 83.309000 82 733 1 chr1B.!!$F1 651

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
225 245 0.029834 TTTCCTAGATCGGCGCGTAC 59.970 55.0 8.43 0.0 0.0 3.67 F
1624 1808 0.109086 CAGCACGTGTCGGATCTCTT 60.109 55.0 18.38 0.0 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1687 1871 0.108207 GGTCCATGATCCCAGCAGAG 59.892 60.0 0.0 0.0 0.00 3.35 R
2651 2984 0.036306 GGGACGAAAGCCCTTCTTCA 59.964 55.0 0.0 0.0 42.07 3.02 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
171 188 2.356313 CACTCGCAGGAGCACGTT 60.356 61.111 0.00 0.00 44.48 3.99
186 203 2.669133 CGTTGCCCTGATCCCTCCA 61.669 63.158 0.00 0.00 0.00 3.86
208 228 2.783510 TCCCTCTCCCTTCTGTTTGTTT 59.216 45.455 0.00 0.00 0.00 2.83
225 245 0.029834 TTTCCTAGATCGGCGCGTAC 59.970 55.000 8.43 0.00 0.00 3.67
319 339 8.967664 TTTTAGTTTCTTCTAGTGTGGCTAAA 57.032 30.769 0.00 0.00 0.00 1.85
320 340 9.569122 TTTTAGTTTCTTCTAGTGTGGCTAAAT 57.431 29.630 0.00 0.00 0.00 1.40
329 349 6.049149 TCTAGTGTGGCTAAATATCTTGTGC 58.951 40.000 0.00 0.00 0.00 4.57
337 357 4.154195 GCTAAATATCTTGTGCGTATGGGG 59.846 45.833 0.00 0.00 0.00 4.96
356 376 0.244721 GTGCCTTGGTTTGATCTGGC 59.755 55.000 0.00 0.00 40.62 4.85
395 430 6.755542 ATAGAGAGCCCTTGTTAGCTATTT 57.244 37.500 0.00 0.00 40.11 1.40
396 431 4.775236 AGAGAGCCCTTGTTAGCTATTTG 58.225 43.478 0.00 0.00 40.11 2.32
443 482 4.285775 TGTGTATCCTGTTCATGAGGTTGA 59.714 41.667 0.00 0.00 31.85 3.18
453 492 7.307493 TGTTCATGAGGTTGAAGATTTATCG 57.693 36.000 0.00 0.00 36.34 2.92
468 507 4.392619 TTTATCGTAGTTTGGTGCGTTG 57.607 40.909 0.00 0.00 0.00 4.10
484 523 2.724839 GCGTTGGAATGTCTAGTTTGCG 60.725 50.000 0.00 0.00 0.00 4.85
489 528 3.190874 GGAATGTCTAGTTTGCGAGAGG 58.809 50.000 0.00 0.00 0.00 3.69
539 592 0.381801 GATTGGCGCCGATGAAATGT 59.618 50.000 34.01 8.91 0.00 2.71
658 711 3.999229 AAATCTTTAGCGAGCTGAACG 57.001 42.857 7.99 0.00 0.00 3.95
695 748 1.338960 TGTCATTTCGCCATGCTCTGA 60.339 47.619 0.00 0.00 0.00 3.27
724 780 6.360329 GTGTTAAGGAATCACGTACTTTGTG 58.640 40.000 0.00 0.00 38.70 3.33
729 785 3.432252 GGAATCACGTACTTTGTGTCTGG 59.568 47.826 0.00 0.00 38.48 3.86
753 809 6.185399 GCAGTTCACGTGTTTATATGCTTAG 58.815 40.000 16.51 0.00 0.00 2.18
827 883 4.497473 TCATTTTGGAACGTGATTCACC 57.503 40.909 11.12 0.00 39.30 4.02
861 918 7.299134 AGTAGCTAGTTACCAATCATCCTACT 58.701 38.462 12.62 3.19 0.00 2.57
899 1069 4.217118 AGAACTTGCTTTGACTTGCATAGG 59.783 41.667 0.00 0.00 39.07 2.57
901 1071 3.503748 ACTTGCTTTGACTTGCATAGGAC 59.496 43.478 0.00 0.00 39.07 3.85
910 1086 5.255687 TGACTTGCATAGGACATGTCATTT 58.744 37.500 26.47 12.80 43.31 2.32
944 1123 9.642343 TGAATAAACTATCTTAGCCAGAGTCTA 57.358 33.333 0.00 0.00 33.87 2.59
952 1131 9.290988 CTATCTTAGCCAGAGTCTAATAGTTGA 57.709 37.037 0.00 0.00 33.87 3.18
998 1179 4.517285 TGTTCCTTCAACTGGATGATAGC 58.483 43.478 0.00 0.00 35.79 2.97
1006 1187 6.239217 TCAACTGGATGATAGCTGTAACAT 57.761 37.500 0.00 0.00 0.00 2.71
1011 1192 7.112122 ACTGGATGATAGCTGTAACATTTTGA 58.888 34.615 0.00 0.00 0.00 2.69
1060 1242 7.334421 TGCTAGAGTGAAATATCCAAAGTGTTC 59.666 37.037 0.00 0.00 0.00 3.18
1098 1280 7.663905 ACTGTTCCATTACTACTTGCATACAAA 59.336 33.333 0.00 0.00 34.74 2.83
1100 1282 7.120579 TGTTCCATTACTACTTGCATACAAAGG 59.879 37.037 0.00 0.00 34.74 3.11
1101 1283 5.588648 TCCATTACTACTTGCATACAAAGGC 59.411 40.000 0.00 0.00 34.74 4.35
1102 1284 5.356751 CCATTACTACTTGCATACAAAGGCA 59.643 40.000 0.00 0.00 41.44 4.75
1103 1285 6.039717 CCATTACTACTTGCATACAAAGGCAT 59.960 38.462 0.00 0.00 42.89 4.40
1104 1286 4.970662 ACTACTTGCATACAAAGGCATG 57.029 40.909 0.00 0.00 42.89 4.06
1107 1289 4.178545 ACTTGCATACAAAGGCATGTTC 57.821 40.909 1.20 0.00 45.14 3.18
1591 1775 7.969508 TGAATTGTGTATGTAACTTGATGCATG 59.030 33.333 2.46 0.00 0.00 4.06
1602 1786 7.661437 TGTAACTTGATGCATGAACTCTTAGTT 59.339 33.333 2.46 3.80 41.95 2.24
1606 1790 7.229306 ACTTGATGCATGAACTCTTAGTTTTCA 59.771 33.333 2.46 1.96 38.80 2.69
1622 1806 0.109272 TTCAGCACGTGTCGGATCTC 60.109 55.000 18.38 0.00 0.00 2.75
1623 1807 0.960861 TCAGCACGTGTCGGATCTCT 60.961 55.000 18.38 0.00 0.00 3.10
1624 1808 0.109086 CAGCACGTGTCGGATCTCTT 60.109 55.000 18.38 0.00 0.00 2.85
1635 1819 6.579292 CGTGTCGGATCTCTTATCATTAACTC 59.421 42.308 0.00 0.00 0.00 3.01
1675 1859 5.163513 CCTGATTTGCAGTTTGGTTACATC 58.836 41.667 0.00 0.00 43.33 3.06
1687 1871 1.463444 GGTTACATCGTGCTGACAACC 59.537 52.381 0.00 0.00 32.10 3.77
1741 1925 2.668279 GCGTAAGAATGTTGGTGGCAAG 60.668 50.000 0.00 0.00 43.02 4.01
1793 1977 9.586435 GGAAAATGGAAAATTCGATGAAAGTAT 57.414 29.630 0.00 0.00 0.00 2.12
1888 2073 5.415701 TGCTTGTTGAGTTATTCTGGAATCC 59.584 40.000 0.00 0.00 32.50 3.01
1901 2086 3.938963 TCTGGAATCCGTTATGCACTTTC 59.061 43.478 0.00 0.00 0.00 2.62
1961 2146 5.800438 GCCTGTCGTTAATTCTGAAAAATCC 59.200 40.000 0.00 0.00 0.00 3.01
1997 2182 3.442625 TGTTGTTCCGTCGAGATAGATGT 59.557 43.478 0.00 0.00 0.00 3.06
2053 2238 6.203723 GCTCACTGTAGTTTCAATCTTGTCTT 59.796 38.462 0.00 0.00 0.00 3.01
2088 2285 9.439500 TGCTTAGTTCGTTATAATTAAAGGTGT 57.561 29.630 0.00 0.00 0.00 4.16
2110 2307 7.251994 GTGTTGGGTTTTTATCGTATTGCATA 58.748 34.615 0.00 0.00 0.00 3.14
2159 2357 9.840427 CATAATAGTCGGTTGAAACTTGAAAAT 57.160 29.630 0.00 0.00 0.00 1.82
2176 2379 9.481340 ACTTGAAAATTTCAGAAAATAAGCCTC 57.519 29.630 8.51 0.00 41.38 4.70
2187 2390 4.563140 AAATAAGCCTCCTTAACCGTCA 57.437 40.909 0.00 0.00 37.12 4.35
2188 2391 4.772886 AATAAGCCTCCTTAACCGTCAT 57.227 40.909 0.00 0.00 37.12 3.06
2189 2392 4.772886 ATAAGCCTCCTTAACCGTCATT 57.227 40.909 0.00 0.00 37.12 2.57
2190 2393 5.881923 ATAAGCCTCCTTAACCGTCATTA 57.118 39.130 0.00 0.00 37.12 1.90
2191 2394 3.538634 AGCCTCCTTAACCGTCATTAC 57.461 47.619 0.00 0.00 0.00 1.89
2194 2397 3.528532 CCTCCTTAACCGTCATTACACC 58.471 50.000 0.00 0.00 0.00 4.16
2205 2408 0.911769 CATTACACCTCTCCCAGCCA 59.088 55.000 0.00 0.00 0.00 4.75
2226 2440 0.878416 TCCGATGGCCAACTTTTTCG 59.122 50.000 10.96 13.92 0.00 3.46
2230 2444 1.439644 TGGCCAACTTTTTCGCCAC 59.560 52.632 0.61 0.00 46.26 5.01
2244 2458 4.624364 CCACTGGCACCGCTGTGA 62.624 66.667 12.93 0.00 45.76 3.58
2245 2459 3.046087 CACTGGCACCGCTGTGAG 61.046 66.667 12.93 4.00 45.76 3.51
2246 2460 4.320456 ACTGGCACCGCTGTGAGG 62.320 66.667 12.93 3.56 45.76 3.86
2247 2461 4.320456 CTGGCACCGCTGTGAGGT 62.320 66.667 12.93 0.00 45.76 3.85
2248 2462 3.832237 CTGGCACCGCTGTGAGGTT 62.832 63.158 12.93 0.00 45.76 3.50
2249 2463 3.357079 GGCACCGCTGTGAGGTTG 61.357 66.667 12.93 0.00 45.76 3.77
2291 2594 1.218047 CCGAACCCAGATCGCAGAA 59.782 57.895 0.00 0.00 43.58 3.02
2389 2721 3.660111 GCACCGGTGGACAAGCAC 61.660 66.667 34.58 12.61 0.00 4.40
2393 2725 2.591429 CGGTGGACAAGCACTGCA 60.591 61.111 3.30 0.00 0.00 4.41
2403 2736 1.467678 AAGCACTGCAGGAGTCGAGT 61.468 55.000 19.93 0.00 29.75 4.18
2409 2742 2.772691 GCAGGAGTCGAGTACCGGG 61.773 68.421 6.32 0.00 39.14 5.73
2439 2772 4.729856 GGCGAACGTGCTACCGGT 62.730 66.667 13.98 13.98 34.52 5.28
2440 2773 3.475774 GCGAACGTGCTACCGGTG 61.476 66.667 19.93 8.61 0.00 4.94
2441 2774 2.807895 CGAACGTGCTACCGGTGG 60.808 66.667 19.93 17.17 0.00 4.61
2442 2775 2.652530 GAACGTGCTACCGGTGGA 59.347 61.111 23.78 8.20 0.00 4.02
2443 2776 1.735559 GAACGTGCTACCGGTGGAC 60.736 63.158 23.78 18.67 0.00 4.02
2444 2777 2.424705 GAACGTGCTACCGGTGGACA 62.425 60.000 23.78 16.00 0.00 4.02
2445 2778 2.030490 AACGTGCTACCGGTGGACAA 62.030 55.000 23.78 2.98 0.00 3.18
2446 2779 1.736645 CGTGCTACCGGTGGACAAG 60.737 63.158 23.78 16.48 0.00 3.16
2447 2780 2.033194 GTGCTACCGGTGGACAAGC 61.033 63.158 23.78 20.32 0.00 4.01
2448 2781 2.345991 GCTACCGGTGGACAAGCA 59.654 61.111 23.78 0.00 0.00 3.91
2449 2782 2.033194 GCTACCGGTGGACAAGCAC 61.033 63.158 23.78 0.00 0.00 4.40
2450 2783 1.671742 CTACCGGTGGACAAGCACT 59.328 57.895 19.93 0.00 0.00 4.40
2451 2784 0.670546 CTACCGGTGGACAAGCACTG 60.671 60.000 19.93 0.00 0.00 3.66
2452 2785 2.725203 TACCGGTGGACAAGCACTGC 62.725 60.000 19.93 0.00 0.00 4.40
2453 2786 2.591429 CGGTGGACAAGCACTGCA 60.591 61.111 3.30 0.00 0.00 4.41
2454 2787 2.610694 CGGTGGACAAGCACTGCAG 61.611 63.158 13.48 13.48 0.00 4.41
2455 2788 2.263741 GGTGGACAAGCACTGCAGG 61.264 63.158 19.93 8.27 0.00 4.85
2456 2789 1.227943 GTGGACAAGCACTGCAGGA 60.228 57.895 19.93 0.00 0.00 3.86
2457 2790 1.071987 TGGACAAGCACTGCAGGAG 59.928 57.895 19.93 11.42 0.00 3.69
2458 2791 1.072159 GGACAAGCACTGCAGGAGT 59.928 57.895 19.93 8.51 34.02 3.85
2459 2792 0.952984 GGACAAGCACTGCAGGAGTC 60.953 60.000 19.93 16.29 29.75 3.36
2460 2793 1.287730 GACAAGCACTGCAGGAGTCG 61.288 60.000 19.93 5.91 29.75 4.18
2461 2794 1.005748 CAAGCACTGCAGGAGTCGA 60.006 57.895 19.93 0.00 29.75 4.20
2462 2795 1.013005 CAAGCACTGCAGGAGTCGAG 61.013 60.000 19.93 0.00 29.75 4.04
2463 2796 1.467678 AAGCACTGCAGGAGTCGAGT 61.468 55.000 19.93 0.00 29.75 4.18
2464 2797 0.609406 AGCACTGCAGGAGTCGAGTA 60.609 55.000 19.93 0.00 29.75 2.59
2465 2798 0.456995 GCACTGCAGGAGTCGAGTAC 60.457 60.000 19.93 0.00 29.75 2.73
2466 2799 0.171455 CACTGCAGGAGTCGAGTACC 59.829 60.000 19.93 0.00 29.75 3.34
2467 2800 1.306642 ACTGCAGGAGTCGAGTACCG 61.307 60.000 19.93 0.00 40.25 4.02
2468 2801 1.994507 CTGCAGGAGTCGAGTACCGG 61.995 65.000 5.57 0.00 39.14 5.28
2469 2802 2.772691 GCAGGAGTCGAGTACCGGG 61.773 68.421 6.32 0.00 39.14 5.73
2470 2803 2.439883 AGGAGTCGAGTACCGGGC 60.440 66.667 6.32 0.00 39.14 6.13
2471 2804 3.525545 GGAGTCGAGTACCGGGCC 61.526 72.222 6.32 0.00 39.14 5.80
2472 2805 2.439883 GAGTCGAGTACCGGGCCT 60.440 66.667 6.32 0.00 39.14 5.19
2473 2806 2.036890 AGTCGAGTACCGGGCCTT 59.963 61.111 6.32 0.00 39.14 4.35
2474 2807 2.183555 GTCGAGTACCGGGCCTTG 59.816 66.667 6.32 4.86 39.14 3.61
2475 2808 3.766691 TCGAGTACCGGGCCTTGC 61.767 66.667 6.32 0.00 39.14 4.01
2477 2810 4.832608 GAGTACCGGGCCTTGCGG 62.833 72.222 16.37 16.37 0.00 5.69
2502 2835 3.376078 GGTCGTGCTACCGGTGGA 61.376 66.667 23.78 8.20 0.00 4.02
2503 2836 2.126189 GTCGTGCTACCGGTGGAC 60.126 66.667 23.78 18.67 0.00 4.02
2504 2837 2.598099 TCGTGCTACCGGTGGACA 60.598 61.111 23.78 16.00 0.00 4.02
2505 2838 2.201708 TCGTGCTACCGGTGGACAA 61.202 57.895 23.78 3.57 0.00 3.18
2506 2839 1.736645 CGTGCTACCGGTGGACAAG 60.737 63.158 23.78 16.48 0.00 3.16
2507 2840 2.033194 GTGCTACCGGTGGACAAGC 61.033 63.158 23.78 20.32 0.00 4.01
2508 2841 2.345991 GCTACCGGTGGACAAGCA 59.654 61.111 23.78 0.00 0.00 3.91
2509 2842 2.033194 GCTACCGGTGGACAAGCAC 61.033 63.158 23.78 0.00 0.00 4.40
2510 2843 1.671742 CTACCGGTGGACAAGCACT 59.328 57.895 19.93 0.00 0.00 4.40
2511 2844 0.670546 CTACCGGTGGACAAGCACTG 60.671 60.000 19.93 0.00 0.00 3.66
2512 2845 2.725203 TACCGGTGGACAAGCACTGC 62.725 60.000 19.93 0.00 0.00 4.40
2513 2846 2.591429 CGGTGGACAAGCACTGCA 60.591 61.111 3.30 0.00 0.00 4.41
2514 2847 2.610694 CGGTGGACAAGCACTGCAG 61.611 63.158 13.48 13.48 0.00 4.41
2515 2848 2.263741 GGTGGACAAGCACTGCAGG 61.264 63.158 19.93 8.27 0.00 4.85
2516 2849 1.227943 GTGGACAAGCACTGCAGGA 60.228 57.895 19.93 0.00 0.00 3.86
2517 2850 1.071987 TGGACAAGCACTGCAGGAG 59.928 57.895 19.93 11.42 0.00 3.69
2518 2851 1.072159 GGACAAGCACTGCAGGAGT 59.928 57.895 19.93 8.51 34.02 3.85
2519 2852 0.952984 GGACAAGCACTGCAGGAGTC 60.953 60.000 19.93 16.29 29.75 3.36
2520 2853 1.287730 GACAAGCACTGCAGGAGTCG 61.288 60.000 19.93 5.91 29.75 4.18
2521 2854 1.005748 CAAGCACTGCAGGAGTCGA 60.006 57.895 19.93 0.00 29.75 4.20
2522 2855 1.013005 CAAGCACTGCAGGAGTCGAG 61.013 60.000 19.93 0.00 29.75 4.04
2523 2856 1.467678 AAGCACTGCAGGAGTCGAGT 61.468 55.000 19.93 0.00 29.75 4.18
2524 2857 0.609406 AGCACTGCAGGAGTCGAGTA 60.609 55.000 19.93 0.00 29.75 2.59
2525 2858 0.456995 GCACTGCAGGAGTCGAGTAC 60.457 60.000 19.93 0.00 29.75 2.73
2526 2859 0.171455 CACTGCAGGAGTCGAGTACC 59.829 60.000 19.93 0.00 29.75 3.34
2527 2860 1.306642 ACTGCAGGAGTCGAGTACCG 61.307 60.000 19.93 0.00 40.25 4.02
2528 2861 1.994507 CTGCAGGAGTCGAGTACCGG 61.995 65.000 5.57 0.00 39.14 5.28
2529 2862 2.772691 GCAGGAGTCGAGTACCGGG 61.773 68.421 6.32 0.00 39.14 5.73
2530 2863 2.439883 AGGAGTCGAGTACCGGGC 60.440 66.667 6.32 0.00 39.14 6.13
2531 2864 3.525545 GGAGTCGAGTACCGGGCC 61.526 72.222 6.32 0.00 39.14 5.80
2532 2865 2.439883 GAGTCGAGTACCGGGCCT 60.440 66.667 6.32 0.00 39.14 5.19
2533 2866 2.036890 AGTCGAGTACCGGGCCTT 59.963 61.111 6.32 0.00 39.14 4.35
2534 2867 2.183555 GTCGAGTACCGGGCCTTG 59.816 66.667 6.32 4.86 39.14 3.61
2535 2868 3.766691 TCGAGTACCGGGCCTTGC 61.767 66.667 6.32 0.00 39.14 4.01
2537 2870 4.832608 GAGTACCGGGCCTTGCGG 62.833 72.222 16.37 16.37 0.00 5.69
2559 2892 4.729856 GGCGAACGTGCTACCGGT 62.730 66.667 13.98 13.98 34.52 5.28
2560 2893 3.177249 GCGAACGTGCTACCGGTC 61.177 66.667 12.40 0.00 41.09 4.79
2562 2895 2.562912 GAACGTGCTACCGGTCGA 59.437 61.111 12.40 0.00 34.49 4.20
2563 2896 1.799121 GAACGTGCTACCGGTCGAC 60.799 63.158 12.40 7.13 34.49 4.20
2564 2897 2.462255 GAACGTGCTACCGGTCGACA 62.462 60.000 12.40 4.94 34.49 4.35
2565 2898 2.074230 AACGTGCTACCGGTCGACAA 62.074 55.000 12.40 0.00 0.00 3.18
2566 2899 1.800315 CGTGCTACCGGTCGACAAG 60.800 63.158 12.40 2.91 0.00 3.16
2567 2900 2.092882 GTGCTACCGGTCGACAAGC 61.093 63.158 12.40 15.74 0.00 4.01
2568 2901 2.260434 GCTACCGGTCGACAAGCA 59.740 61.111 19.17 0.00 33.38 3.91
2569 2902 2.092882 GCTACCGGTCGACAAGCAC 61.093 63.158 19.17 0.00 33.38 4.40
2570 2903 1.585006 CTACCGGTCGACAAGCACT 59.415 57.895 12.40 0.00 0.00 4.40
2571 2904 0.732880 CTACCGGTCGACAAGCACTG 60.733 60.000 12.40 0.00 0.00 3.66
2572 2905 2.758770 TACCGGTCGACAAGCACTGC 62.759 60.000 12.40 0.00 0.00 4.40
2573 2906 2.661537 CGGTCGACAAGCACTGCA 60.662 61.111 18.91 0.00 0.00 4.41
2574 2907 2.661566 CGGTCGACAAGCACTGCAG 61.662 63.158 18.91 13.48 0.00 4.41
2575 2908 2.320587 GGTCGACAAGCACTGCAGG 61.321 63.158 19.93 8.27 0.00 4.85
2576 2909 1.300931 GTCGACAAGCACTGCAGGA 60.301 57.895 19.93 0.00 0.00 3.86
2577 2910 1.005748 TCGACAAGCACTGCAGGAG 60.006 57.895 19.93 11.42 0.00 3.69
2578 2911 1.301244 CGACAAGCACTGCAGGAGT 60.301 57.895 19.93 8.51 34.02 3.85
2579 2912 1.287730 CGACAAGCACTGCAGGAGTC 61.288 60.000 19.93 15.62 29.75 3.36
2580 2913 1.287730 GACAAGCACTGCAGGAGTCG 61.288 60.000 19.93 5.91 29.75 4.18
2581 2914 1.005748 CAAGCACTGCAGGAGTCGA 60.006 57.895 19.93 0.00 29.75 4.20
2582 2915 1.013005 CAAGCACTGCAGGAGTCGAG 61.013 60.000 19.93 0.00 29.75 4.04
2583 2916 1.467678 AAGCACTGCAGGAGTCGAGT 61.468 55.000 19.93 0.00 29.75 4.18
2584 2917 0.609406 AGCACTGCAGGAGTCGAGTA 60.609 55.000 19.93 0.00 29.75 2.59
2585 2918 0.456995 GCACTGCAGGAGTCGAGTAC 60.457 60.000 19.93 0.00 29.75 2.73
2586 2919 0.171455 CACTGCAGGAGTCGAGTACC 59.829 60.000 19.93 0.00 29.75 3.34
2587 2920 1.306642 ACTGCAGGAGTCGAGTACCG 61.307 60.000 19.93 0.00 40.25 4.02
2588 2921 1.994507 CTGCAGGAGTCGAGTACCGG 61.995 65.000 5.57 0.00 39.14 5.28
2589 2922 2.772691 GCAGGAGTCGAGTACCGGG 61.773 68.421 6.32 0.00 39.14 5.73
2590 2923 2.439883 AGGAGTCGAGTACCGGGC 60.440 66.667 6.32 0.00 39.14 6.13
2591 2924 3.525545 GGAGTCGAGTACCGGGCC 61.526 72.222 6.32 0.00 39.14 5.80
2592 2925 2.439883 GAGTCGAGTACCGGGCCT 60.440 66.667 6.32 0.00 39.14 5.19
2593 2926 2.036890 AGTCGAGTACCGGGCCTT 59.963 61.111 6.32 0.00 39.14 4.35
2594 2927 2.002509 GAGTCGAGTACCGGGCCTTC 62.003 65.000 6.32 0.00 39.14 3.46
2595 2928 3.136123 TCGAGTACCGGGCCTTCG 61.136 66.667 6.32 9.97 39.14 3.79
2628 2961 1.004918 GCTCCTTGTAGTGTGCGGT 60.005 57.895 0.00 0.00 0.00 5.68
2631 2964 0.317160 TCCTTGTAGTGTGCGGTCTG 59.683 55.000 0.00 0.00 0.00 3.51
2653 2986 3.691342 CGGTCGGCCTTGTCCTGA 61.691 66.667 3.66 0.00 0.00 3.86
2655 2988 1.376037 GGTCGGCCTTGTCCTGAAG 60.376 63.158 0.00 0.00 0.00 3.02
2656 2989 1.671742 GTCGGCCTTGTCCTGAAGA 59.328 57.895 0.00 0.00 0.00 2.87
2658 2991 0.321671 TCGGCCTTGTCCTGAAGAAG 59.678 55.000 0.00 0.00 0.00 2.85
2667 3000 3.633361 CCTGAAGAAGGGCTTTCGT 57.367 52.632 3.52 0.00 43.15 3.85
2668 3001 1.443802 CCTGAAGAAGGGCTTTCGTC 58.556 55.000 16.27 16.27 43.15 4.20
2670 3003 0.036306 TGAAGAAGGGCTTTCGTCCC 59.964 55.000 19.31 5.04 41.74 4.46
2671 3004 0.036306 GAAGAAGGGCTTTCGTCCCA 59.964 55.000 13.00 0.00 46.36 4.37
2672 3005 0.036875 AAGAAGGGCTTTCGTCCCAG 59.963 55.000 3.52 0.00 46.36 4.45
2694 3030 0.597637 CATCGATGCCTACCGTGGTC 60.598 60.000 13.37 0.00 0.00 4.02
2701 3037 1.962144 CCTACCGTGGTCGACAGTT 59.038 57.895 18.91 0.00 39.71 3.16
2712 3048 2.594592 GACAGTTGGGCGGCTTGT 60.595 61.111 9.56 8.72 0.00 3.16
2716 3052 3.799755 GTTGGGCGGCTTGTAGCG 61.800 66.667 9.56 0.00 43.62 4.26
2742 3079 2.047061 TGTGTCTACAGAACAAGCCCT 58.953 47.619 0.00 0.00 31.91 5.19
2757 3094 4.504916 CCTCGGCGAGTGCTCTGG 62.505 72.222 32.41 14.96 42.25 3.86
2872 3218 1.126846 CGTCGATCACTTCAAACCTGC 59.873 52.381 0.00 0.00 0.00 4.85
2875 3221 1.466167 CGATCACTTCAAACCTGCAGG 59.534 52.381 31.60 31.60 42.17 4.85
2883 3229 0.175302 CAAACCTGCAGGCACAAACA 59.825 50.000 33.06 0.00 39.32 2.83
2888 3234 1.403249 CCTGCAGGCACAAACATAAGC 60.403 52.381 22.33 0.00 0.00 3.09
2894 3240 1.602191 GCACAAACATAAGCCGAACG 58.398 50.000 0.00 0.00 0.00 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 4.143301 GGGGTGGAAGGATGGGGC 62.143 72.222 0.00 0.00 0.00 5.80
7 8 0.413434 AAAAGGGGTGGAAGGATGGG 59.587 55.000 0.00 0.00 0.00 4.00
171 188 1.771746 GGATGGAGGGATCAGGGCA 60.772 63.158 0.00 0.00 0.00 5.36
176 193 0.192064 GGAGAGGGATGGAGGGATCA 59.808 60.000 0.00 0.00 0.00 2.92
186 203 2.637165 ACAAACAGAAGGGAGAGGGAT 58.363 47.619 0.00 0.00 0.00 3.85
208 228 2.256591 GGTACGCGCCGATCTAGGA 61.257 63.158 5.73 0.00 0.00 2.94
225 245 5.563085 CGTGAAACTAGAGATCCGGAATAGG 60.563 48.000 9.01 0.00 31.75 2.57
319 339 2.810400 GCACCCCATACGCACAAGATAT 60.810 50.000 0.00 0.00 0.00 1.63
320 340 1.474320 GCACCCCATACGCACAAGATA 60.474 52.381 0.00 0.00 0.00 1.98
321 341 0.748005 GCACCCCATACGCACAAGAT 60.748 55.000 0.00 0.00 0.00 2.40
329 349 0.610785 AAACCAAGGCACCCCATACG 60.611 55.000 0.00 0.00 0.00 3.06
337 357 0.244721 GCCAGATCAAACCAAGGCAC 59.755 55.000 0.00 0.00 41.63 5.01
389 424 3.323243 ACACCTACACGACACAAATAGC 58.677 45.455 0.00 0.00 0.00 2.97
395 430 2.168936 AGGAAAACACCTACACGACACA 59.831 45.455 0.00 0.00 38.65 3.72
396 431 2.542595 CAGGAAAACACCTACACGACAC 59.457 50.000 0.00 0.00 38.32 3.67
443 482 4.933400 ACGCACCAAACTACGATAAATCTT 59.067 37.500 0.00 0.00 0.00 2.40
453 492 2.292292 ACATTCCAACGCACCAAACTAC 59.708 45.455 0.00 0.00 0.00 2.73
468 507 3.190874 CCTCTCGCAAACTAGACATTCC 58.809 50.000 0.00 0.00 0.00 3.01
484 523 2.998316 ATTTAGCAGAGTGCCCTCTC 57.002 50.000 0.00 0.00 45.08 3.20
489 528 3.983344 CACACAAAATTTAGCAGAGTGCC 59.017 43.478 0.00 0.00 46.52 5.01
564 617 8.154856 GGTTAATCTTACCCATACTATGAAGCA 58.845 37.037 0.00 0.00 0.00 3.91
577 630 5.885912 TGCATCTCTTTGGTTAATCTTACCC 59.114 40.000 0.00 0.00 34.66 3.69
578 631 6.183360 GGTGCATCTCTTTGGTTAATCTTACC 60.183 42.308 0.00 0.00 36.17 2.85
579 632 6.599638 AGGTGCATCTCTTTGGTTAATCTTAC 59.400 38.462 0.00 0.00 0.00 2.34
581 634 5.416952 CAGGTGCATCTCTTTGGTTAATCTT 59.583 40.000 0.00 0.00 0.00 2.40
593 646 3.003689 CGTTTGAAAACAGGTGCATCTCT 59.996 43.478 0.00 0.00 38.81 3.10
658 711 1.067060 GACAACCCAAGCAAGGTTCAC 59.933 52.381 2.36 0.00 44.42 3.18
724 780 1.014352 AAACACGTGAACTGCCAGAC 58.986 50.000 25.01 0.00 0.00 3.51
729 785 4.600012 AGCATATAAACACGTGAACTGC 57.400 40.909 25.01 19.43 0.00 4.40
827 883 4.081642 TGGTAACTAGCTACTCCAGCAAAG 60.082 45.833 3.43 0.00 46.42 2.77
861 918 4.272504 GCAAGTTCTACAGTACACAAGCAA 59.727 41.667 0.00 0.00 0.00 3.91
939 1118 5.997746 TGCAAGTGCTTTCAACTATTAGACT 59.002 36.000 4.69 0.00 42.66 3.24
948 1127 7.496529 TCCTATATATGCAAGTGCTTTCAAC 57.503 36.000 4.69 0.00 42.66 3.18
952 1131 9.745018 ACATAATCCTATATATGCAAGTGCTTT 57.255 29.630 4.69 0.00 42.66 3.51
984 1163 6.932356 AATGTTACAGCTATCATCCAGTTG 57.068 37.500 0.00 0.00 0.00 3.16
990 1169 9.443283 GAATGTCAAAATGTTACAGCTATCATC 57.557 33.333 0.00 0.00 0.00 2.92
998 1179 6.144402 GGCACAAGAATGTCAAAATGTTACAG 59.856 38.462 0.00 0.00 37.82 2.74
1117 1299 6.463755 GCCTTTTAGAAACCAAATGGAAGGAA 60.464 38.462 14.65 0.00 38.94 3.36
1118 1300 5.011635 GCCTTTTAGAAACCAAATGGAAGGA 59.988 40.000 14.65 0.00 38.94 3.36
1119 1301 5.012046 AGCCTTTTAGAAACCAAATGGAAGG 59.988 40.000 6.42 7.82 38.94 3.46
1296 1478 4.617253 ATGTGCAGTGTAGAACTAACCA 57.383 40.909 0.00 0.00 36.83 3.67
1591 1775 4.270325 ACACGTGCTGAAAACTAAGAGTTC 59.730 41.667 17.22 0.00 37.47 3.01
1602 1786 0.317160 AGATCCGACACGTGCTGAAA 59.683 50.000 17.22 0.00 0.00 2.69
1606 1790 1.460504 TAAGAGATCCGACACGTGCT 58.539 50.000 17.22 2.68 0.00 4.40
1623 1807 9.256477 GGACAATGTACATCGAGTTAATGATAA 57.744 33.333 9.23 0.00 0.00 1.75
1624 1808 7.870954 GGGACAATGTACATCGAGTTAATGATA 59.129 37.037 9.23 0.00 0.00 2.15
1635 1819 2.093711 TCAGGTGGGACAATGTACATCG 60.094 50.000 9.23 0.00 44.16 3.84
1646 1830 1.963515 AAACTGCAAATCAGGTGGGAC 59.036 47.619 0.00 0.00 43.24 4.46
1675 1859 1.301244 AGCAGAGGTTGTCAGCACG 60.301 57.895 0.00 0.00 40.14 5.34
1687 1871 0.108207 GGTCCATGATCCCAGCAGAG 59.892 60.000 0.00 0.00 0.00 3.35
1741 1925 3.939066 TCAGTAGAAAAAGCCTAGCACC 58.061 45.455 0.00 0.00 0.00 5.01
1793 1977 8.861086 GGAAATATCCTACTAACACATCTCAGA 58.139 37.037 0.00 0.00 42.93 3.27
1888 2073 2.223249 CCCAATCCGAAAGTGCATAACG 60.223 50.000 0.00 0.00 0.00 3.18
1901 2086 0.678950 AAACAAAGGCACCCAATCCG 59.321 50.000 0.00 0.00 0.00 4.18
1961 2146 7.478355 CGACGGAACAACATAATATTGCATATG 59.522 37.037 0.00 0.00 35.97 1.78
2068 2253 7.819644 ACCCAACACCTTTAATTATAACGAAC 58.180 34.615 0.00 0.00 0.00 3.95
2071 2256 9.478768 AAAAACCCAACACCTTTAATTATAACG 57.521 29.630 0.00 0.00 0.00 3.18
2086 2283 5.707242 TGCAATACGATAAAAACCCAACA 57.293 34.783 0.00 0.00 0.00 3.33
2110 2307 1.620739 ATCACCAGCAGAGCATCGGT 61.621 55.000 0.00 0.00 42.67 4.69
2117 2314 4.913335 ATTATGCAAATCACCAGCAGAG 57.087 40.909 0.00 0.00 42.14 3.35
2159 2357 6.150474 CGGTTAAGGAGGCTTATTTTCTGAAA 59.850 38.462 0.00 0.00 0.00 2.69
2176 2379 4.430908 GAGAGGTGTAATGACGGTTAAGG 58.569 47.826 0.00 0.00 0.00 2.69
2187 2390 1.898863 ATGGCTGGGAGAGGTGTAAT 58.101 50.000 0.00 0.00 0.00 1.89
2188 2391 1.559682 GAATGGCTGGGAGAGGTGTAA 59.440 52.381 0.00 0.00 0.00 2.41
2189 2392 1.204146 GAATGGCTGGGAGAGGTGTA 58.796 55.000 0.00 0.00 0.00 2.90
2190 2393 1.566298 GGAATGGCTGGGAGAGGTGT 61.566 60.000 0.00 0.00 0.00 4.16
2191 2394 1.225704 GGAATGGCTGGGAGAGGTG 59.774 63.158 0.00 0.00 0.00 4.00
2194 2397 0.250209 CATCGGAATGGCTGGGAGAG 60.250 60.000 0.00 0.00 0.00 3.20
2205 2408 2.094752 CGAAAAAGTTGGCCATCGGAAT 60.095 45.455 6.09 0.00 0.00 3.01
2230 2444 3.832237 AACCTCACAGCGGTGCCAG 62.832 63.158 15.82 10.40 44.87 4.85
2241 2455 0.947244 CCACTTCTGTGCAACCTCAC 59.053 55.000 0.00 0.00 42.54 3.51
2242 2456 0.546122 ACCACTTCTGTGCAACCTCA 59.454 50.000 0.00 0.00 42.54 3.86
2243 2457 0.947244 CACCACTTCTGTGCAACCTC 59.053 55.000 0.00 0.00 42.54 3.85
2244 2458 0.546122 TCACCACTTCTGTGCAACCT 59.454 50.000 0.00 0.00 42.54 3.50
2245 2459 1.267806 CATCACCACTTCTGTGCAACC 59.732 52.381 0.00 0.00 42.54 3.77
2246 2460 1.949525 ACATCACCACTTCTGTGCAAC 59.050 47.619 0.00 0.00 42.54 4.17
2247 2461 2.346766 ACATCACCACTTCTGTGCAA 57.653 45.000 0.00 0.00 42.54 4.08
2248 2462 1.948834 CAACATCACCACTTCTGTGCA 59.051 47.619 0.00 0.00 42.54 4.57
2249 2463 1.949525 ACAACATCACCACTTCTGTGC 59.050 47.619 0.00 0.00 42.54 4.57
2361 2693 2.264794 CCGGTGCTTTCGGTAGCT 59.735 61.111 10.32 0.00 42.33 3.32
2369 2701 2.193536 GCTTGTCCACCGGTGCTTT 61.194 57.895 29.75 0.00 0.00 3.51
2389 2721 1.429825 CGGTACTCGACTCCTGCAG 59.570 63.158 6.78 6.78 42.43 4.41
2393 2725 2.439883 GCCCGGTACTCGACTCCT 60.440 66.667 0.00 0.00 42.43 3.69
2425 2758 1.735559 GTCCACCGGTAGCACGTTC 60.736 63.158 6.87 0.00 0.00 3.95
2431 2764 2.033194 GTGCTTGTCCACCGGTAGC 61.033 63.158 17.62 17.62 0.00 3.58
2432 2765 0.670546 CAGTGCTTGTCCACCGGTAG 60.671 60.000 6.87 0.00 36.38 3.18
2433 2766 1.369692 CAGTGCTTGTCCACCGGTA 59.630 57.895 6.87 0.00 36.38 4.02
2434 2767 2.111043 CAGTGCTTGTCCACCGGT 59.889 61.111 0.00 0.00 36.38 5.28
2435 2768 3.357079 GCAGTGCTTGTCCACCGG 61.357 66.667 8.18 0.00 36.38 5.28
2436 2769 2.591429 TGCAGTGCTTGTCCACCG 60.591 61.111 17.60 0.00 36.38 4.94
2437 2770 2.263741 CCTGCAGTGCTTGTCCACC 61.264 63.158 17.60 0.00 36.38 4.61
2438 2771 1.227943 TCCTGCAGTGCTTGTCCAC 60.228 57.895 17.60 0.00 35.98 4.02
2439 2772 1.071987 CTCCTGCAGTGCTTGTCCA 59.928 57.895 17.60 0.00 0.00 4.02
2440 2773 0.952984 GACTCCTGCAGTGCTTGTCC 60.953 60.000 17.60 0.00 34.41 4.02
2441 2774 1.287730 CGACTCCTGCAGTGCTTGTC 61.288 60.000 17.60 16.09 34.41 3.18
2442 2775 1.301244 CGACTCCTGCAGTGCTTGT 60.301 57.895 17.60 9.39 34.41 3.16
2443 2776 1.005748 TCGACTCCTGCAGTGCTTG 60.006 57.895 17.60 9.09 34.41 4.01
2444 2777 1.291588 CTCGACTCCTGCAGTGCTT 59.708 57.895 17.60 0.00 34.41 3.91
2445 2778 0.609406 TACTCGACTCCTGCAGTGCT 60.609 55.000 17.60 0.00 34.41 4.40
2446 2779 0.456995 GTACTCGACTCCTGCAGTGC 60.457 60.000 13.81 8.58 34.41 4.40
2447 2780 0.171455 GGTACTCGACTCCTGCAGTG 59.829 60.000 13.81 7.69 34.41 3.66
2448 2781 1.306642 CGGTACTCGACTCCTGCAGT 61.307 60.000 13.81 0.00 42.43 4.40
2449 2782 1.429825 CGGTACTCGACTCCTGCAG 59.570 63.158 6.78 6.78 42.43 4.41
2450 2783 2.044555 CCGGTACTCGACTCCTGCA 61.045 63.158 0.00 0.00 42.43 4.41
2451 2784 2.772691 CCCGGTACTCGACTCCTGC 61.773 68.421 0.00 0.00 42.43 4.85
2452 2785 2.772691 GCCCGGTACTCGACTCCTG 61.773 68.421 0.00 0.00 42.43 3.86
2453 2786 2.439883 GCCCGGTACTCGACTCCT 60.440 66.667 0.00 0.00 42.43 3.69
2454 2787 3.525545 GGCCCGGTACTCGACTCC 61.526 72.222 0.00 1.02 42.43 3.85
2455 2788 2.050934 AAGGCCCGGTACTCGACTC 61.051 63.158 0.00 0.00 42.43 3.36
2456 2789 2.036890 AAGGCCCGGTACTCGACT 59.963 61.111 0.00 0.00 42.43 4.18
2457 2790 2.183555 CAAGGCCCGGTACTCGAC 59.816 66.667 0.00 0.00 42.43 4.20
2458 2791 3.766691 GCAAGGCCCGGTACTCGA 61.767 66.667 0.00 0.00 42.43 4.04
2485 2818 3.376078 TCCACCGGTAGCACGACC 61.376 66.667 6.87 0.00 35.47 4.79
2486 2819 2.126189 GTCCACCGGTAGCACGAC 60.126 66.667 6.87 4.44 35.47 4.34
2487 2820 2.149803 CTTGTCCACCGGTAGCACGA 62.150 60.000 6.87 2.96 35.47 4.35
2488 2821 1.736645 CTTGTCCACCGGTAGCACG 60.737 63.158 6.87 0.18 0.00 5.34
2489 2822 2.033194 GCTTGTCCACCGGTAGCAC 61.033 63.158 19.17 11.31 0.00 4.40
2490 2823 2.345991 GCTTGTCCACCGGTAGCA 59.654 61.111 19.17 10.54 0.00 3.49
2491 2824 2.033194 GTGCTTGTCCACCGGTAGC 61.033 63.158 17.62 17.62 0.00 3.58
2492 2825 0.670546 CAGTGCTTGTCCACCGGTAG 60.671 60.000 6.87 0.00 36.38 3.18
2493 2826 1.369692 CAGTGCTTGTCCACCGGTA 59.630 57.895 6.87 0.00 36.38 4.02
2494 2827 2.111043 CAGTGCTTGTCCACCGGT 59.889 61.111 0.00 0.00 36.38 5.28
2495 2828 3.357079 GCAGTGCTTGTCCACCGG 61.357 66.667 8.18 0.00 36.38 5.28
2496 2829 2.591429 TGCAGTGCTTGTCCACCG 60.591 61.111 17.60 0.00 36.38 4.94
2497 2830 2.263741 CCTGCAGTGCTTGTCCACC 61.264 63.158 17.60 0.00 36.38 4.61
2498 2831 1.227943 TCCTGCAGTGCTTGTCCAC 60.228 57.895 17.60 0.00 35.98 4.02
2499 2832 1.071987 CTCCTGCAGTGCTTGTCCA 59.928 57.895 17.60 0.00 0.00 4.02
2500 2833 0.952984 GACTCCTGCAGTGCTTGTCC 60.953 60.000 17.60 0.00 34.41 4.02
2501 2834 1.287730 CGACTCCTGCAGTGCTTGTC 61.288 60.000 17.60 16.09 34.41 3.18
2502 2835 1.301244 CGACTCCTGCAGTGCTTGT 60.301 57.895 17.60 9.39 34.41 3.16
2503 2836 1.005748 TCGACTCCTGCAGTGCTTG 60.006 57.895 17.60 9.09 34.41 4.01
2504 2837 1.291588 CTCGACTCCTGCAGTGCTT 59.708 57.895 17.60 0.00 34.41 3.91
2505 2838 0.609406 TACTCGACTCCTGCAGTGCT 60.609 55.000 17.60 0.00 34.41 4.40
2506 2839 0.456995 GTACTCGACTCCTGCAGTGC 60.457 60.000 13.81 8.58 34.41 4.40
2507 2840 0.171455 GGTACTCGACTCCTGCAGTG 59.829 60.000 13.81 7.69 34.41 3.66
2508 2841 1.306642 CGGTACTCGACTCCTGCAGT 61.307 60.000 13.81 0.00 42.43 4.40
2509 2842 1.429825 CGGTACTCGACTCCTGCAG 59.570 63.158 6.78 6.78 42.43 4.41
2510 2843 2.044555 CCGGTACTCGACTCCTGCA 61.045 63.158 0.00 0.00 42.43 4.41
2511 2844 2.772691 CCCGGTACTCGACTCCTGC 61.773 68.421 0.00 0.00 42.43 4.85
2512 2845 2.772691 GCCCGGTACTCGACTCCTG 61.773 68.421 0.00 0.00 42.43 3.86
2513 2846 2.439883 GCCCGGTACTCGACTCCT 60.440 66.667 0.00 0.00 42.43 3.69
2514 2847 3.525545 GGCCCGGTACTCGACTCC 61.526 72.222 0.00 1.02 42.43 3.85
2515 2848 2.050934 AAGGCCCGGTACTCGACTC 61.051 63.158 0.00 0.00 42.43 3.36
2516 2849 2.036890 AAGGCCCGGTACTCGACT 59.963 61.111 0.00 0.00 42.43 4.18
2517 2850 2.183555 CAAGGCCCGGTACTCGAC 59.816 66.667 0.00 0.00 42.43 4.20
2518 2851 3.766691 GCAAGGCCCGGTACTCGA 61.767 66.667 0.00 0.00 42.43 4.04
2542 2875 4.729856 ACCGGTAGCACGTTCGCC 62.730 66.667 4.49 0.00 0.00 5.54
2543 2876 3.177249 GACCGGTAGCACGTTCGC 61.177 66.667 7.34 0.00 0.00 4.70
2544 2877 2.872925 CGACCGGTAGCACGTTCG 60.873 66.667 7.34 0.00 41.92 3.95
2545 2878 1.799121 GTCGACCGGTAGCACGTTC 60.799 63.158 7.34 1.45 0.00 3.95
2546 2879 2.074230 TTGTCGACCGGTAGCACGTT 62.074 55.000 7.34 0.00 0.00 3.99
2547 2880 2.467946 CTTGTCGACCGGTAGCACGT 62.468 60.000 7.34 0.00 0.00 4.49
2548 2881 1.800315 CTTGTCGACCGGTAGCACG 60.800 63.158 7.34 7.17 0.00 5.34
2549 2882 2.092882 GCTTGTCGACCGGTAGCAC 61.093 63.158 19.17 13.82 0.00 4.40
2550 2883 2.260434 GCTTGTCGACCGGTAGCA 59.740 61.111 19.17 13.20 0.00 3.49
2551 2884 2.092882 GTGCTTGTCGACCGGTAGC 61.093 63.158 17.62 17.62 0.00 3.58
2552 2885 0.732880 CAGTGCTTGTCGACCGGTAG 60.733 60.000 7.34 8.08 0.00 3.18
2553 2886 1.287815 CAGTGCTTGTCGACCGGTA 59.712 57.895 7.34 2.21 0.00 4.02
2554 2887 2.029073 CAGTGCTTGTCGACCGGT 59.971 61.111 6.92 6.92 0.00 5.28
2555 2888 3.414700 GCAGTGCTTGTCGACCGG 61.415 66.667 14.12 0.00 0.00 5.28
2556 2889 2.661537 TGCAGTGCTTGTCGACCG 60.662 61.111 17.60 5.30 0.00 4.79
2557 2890 2.320587 CCTGCAGTGCTTGTCGACC 61.321 63.158 17.60 0.00 0.00 4.79
2558 2891 1.287730 CTCCTGCAGTGCTTGTCGAC 61.288 60.000 17.60 9.11 0.00 4.20
2559 2892 1.005748 CTCCTGCAGTGCTTGTCGA 60.006 57.895 17.60 3.60 0.00 4.20
2560 2893 1.287730 GACTCCTGCAGTGCTTGTCG 61.288 60.000 17.60 3.72 34.41 4.35
2561 2894 1.287730 CGACTCCTGCAGTGCTTGTC 61.288 60.000 17.60 16.09 34.41 3.18
2562 2895 1.301244 CGACTCCTGCAGTGCTTGT 60.301 57.895 17.60 9.39 34.41 3.16
2563 2896 1.005748 TCGACTCCTGCAGTGCTTG 60.006 57.895 17.60 9.09 34.41 4.01
2564 2897 1.291588 CTCGACTCCTGCAGTGCTT 59.708 57.895 17.60 0.00 34.41 3.91
2565 2898 0.609406 TACTCGACTCCTGCAGTGCT 60.609 55.000 17.60 0.00 34.41 4.40
2566 2899 0.456995 GTACTCGACTCCTGCAGTGC 60.457 60.000 13.81 8.58 34.41 4.40
2567 2900 0.171455 GGTACTCGACTCCTGCAGTG 59.829 60.000 13.81 7.69 34.41 3.66
2568 2901 1.306642 CGGTACTCGACTCCTGCAGT 61.307 60.000 13.81 0.00 42.43 4.40
2569 2902 1.429825 CGGTACTCGACTCCTGCAG 59.570 63.158 6.78 6.78 42.43 4.41
2570 2903 2.044555 CCGGTACTCGACTCCTGCA 61.045 63.158 0.00 0.00 42.43 4.41
2571 2904 2.772691 CCCGGTACTCGACTCCTGC 61.773 68.421 0.00 0.00 42.43 4.85
2572 2905 2.772691 GCCCGGTACTCGACTCCTG 61.773 68.421 0.00 0.00 42.43 3.86
2573 2906 2.439883 GCCCGGTACTCGACTCCT 60.440 66.667 0.00 0.00 42.43 3.69
2574 2907 3.525545 GGCCCGGTACTCGACTCC 61.526 72.222 0.00 1.02 42.43 3.85
2575 2908 2.002509 GAAGGCCCGGTACTCGACTC 62.003 65.000 0.00 0.00 42.43 3.36
2576 2909 2.036890 AAGGCCCGGTACTCGACT 59.963 61.111 0.00 0.00 42.43 4.18
2577 2910 2.493501 GAAGGCCCGGTACTCGAC 59.506 66.667 0.00 0.00 42.43 4.20
2578 2911 3.136123 CGAAGGCCCGGTACTCGA 61.136 66.667 0.00 0.00 42.43 4.04
2579 2912 4.203076 CCGAAGGCCCGGTACTCG 62.203 72.222 11.94 2.98 46.14 4.18
2600 2933 3.777925 CAAGGAGCACGTTCGCCG 61.778 66.667 1.94 0.00 44.03 6.46
2601 2934 1.352156 CTACAAGGAGCACGTTCGCC 61.352 60.000 0.00 0.00 0.00 5.54
2602 2935 0.666577 ACTACAAGGAGCACGTTCGC 60.667 55.000 0.00 0.00 0.00 4.70
2603 2936 1.060713 CACTACAAGGAGCACGTTCG 58.939 55.000 0.00 0.00 0.00 3.95
2604 2937 1.792949 CACACTACAAGGAGCACGTTC 59.207 52.381 0.00 0.00 0.00 3.95
2605 2938 1.865865 CACACTACAAGGAGCACGTT 58.134 50.000 0.00 0.00 0.00 3.99
2606 2939 0.600255 GCACACTACAAGGAGCACGT 60.600 55.000 0.00 0.00 0.00 4.49
2607 2940 1.617755 CGCACACTACAAGGAGCACG 61.618 60.000 0.00 0.00 0.00 5.34
2608 2941 1.291877 CCGCACACTACAAGGAGCAC 61.292 60.000 0.00 0.00 0.00 4.40
2609 2942 1.005037 CCGCACACTACAAGGAGCA 60.005 57.895 0.00 0.00 0.00 4.26
2616 2949 1.284715 CGTCAGACCGCACACTACA 59.715 57.895 0.00 0.00 0.00 2.74
2650 2983 1.443802 GGACGAAAGCCCTTCTTCAG 58.556 55.000 0.00 0.00 34.69 3.02
2651 2984 0.036306 GGGACGAAAGCCCTTCTTCA 59.964 55.000 0.00 0.00 42.07 3.02
2652 2985 0.036306 TGGGACGAAAGCCCTTCTTC 59.964 55.000 0.00 0.00 44.53 2.87
2653 2986 0.036875 CTGGGACGAAAGCCCTTCTT 59.963 55.000 0.00 0.00 44.53 2.52
2655 2988 0.391793 CTCTGGGACGAAAGCCCTTC 60.392 60.000 0.00 0.00 44.53 3.46
2656 2989 1.679898 CTCTGGGACGAAAGCCCTT 59.320 57.895 0.00 0.00 44.53 3.95
2658 2991 2.436824 GCTCTGGGACGAAAGCCC 60.437 66.667 0.00 0.00 44.49 5.19
2659 2992 1.078143 ATGCTCTGGGACGAAAGCC 60.078 57.895 0.00 0.00 33.79 4.35
2660 2993 1.424493 CGATGCTCTGGGACGAAAGC 61.424 60.000 0.00 0.00 35.31 3.51
2661 2994 0.173481 TCGATGCTCTGGGACGAAAG 59.827 55.000 0.00 0.00 0.00 2.62
2662 2995 0.824109 ATCGATGCTCTGGGACGAAA 59.176 50.000 0.00 0.00 36.62 3.46
2663 2996 0.103026 CATCGATGCTCTGGGACGAA 59.897 55.000 13.37 0.00 36.62 3.85
2664 2997 1.735973 CATCGATGCTCTGGGACGA 59.264 57.895 13.37 0.00 37.39 4.20
2665 2998 4.333095 CATCGATGCTCTGGGACG 57.667 61.111 13.37 0.00 0.00 4.79
2694 3030 3.726517 CAAGCCGCCCAACTGTCG 61.727 66.667 0.00 0.00 0.00 4.35
2701 3037 3.950794 CTTCGCTACAAGCCGCCCA 62.951 63.158 0.00 0.00 38.18 5.36
2712 3048 3.617284 TCTGTAGACACATCCTTCGCTA 58.383 45.455 0.00 0.00 33.14 4.26
2716 3052 4.390297 GCTTGTTCTGTAGACACATCCTTC 59.610 45.833 0.00 0.00 33.14 3.46
2753 3090 2.757508 CGCTCCCTCTCAGCCAGA 60.758 66.667 0.00 0.00 32.83 3.86
2757 3094 4.828925 GTGGCGCTCCCTCTCAGC 62.829 72.222 7.64 0.00 0.00 4.26
2785 3122 4.840005 CGCTCGGCCTTCTTCCCC 62.840 72.222 0.00 0.00 0.00 4.81
2810 3147 6.291374 CCGGTTGTTTCTAAACGTTTTTCATG 60.291 38.462 20.19 5.26 41.74 3.07
2812 3149 5.094134 CCGGTTGTTTCTAAACGTTTTTCA 58.906 37.500 20.19 8.68 41.74 2.69
2872 3218 1.164411 TCGGCTTATGTTTGTGCCTG 58.836 50.000 0.00 0.00 42.90 4.85
2875 3221 1.195900 TCGTTCGGCTTATGTTTGTGC 59.804 47.619 0.00 0.00 0.00 4.57
2883 3229 0.179119 CCGGTCTTCGTTCGGCTTAT 60.179 55.000 0.00 0.00 37.25 1.73


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

AutoCloner maintained by Alex Coulton.