Multiple sequence alignment - TraesCS2B01G219600

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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 TraesCS2B01G219600 chr2B 100.000 2738 0 0 1 2738 210013497 210016234 0.000000e+00 5057.0
1 TraesCS2B01G219600 chr2B 94.545 55 3 0 1647 1701 210203667 210203721 4.860000e-13 86.1
2 TraesCS2B01G219600 chr2D 93.305 2554 126 20 6 2520 151436695 151439242 0.000000e+00 3727.0
3 TraesCS2B01G219600 chr2A 90.297 1886 122 29 4 1850 149653591 149651728 0.000000e+00 2412.0
4 TraesCS2B01G219600 chr2A 89.437 568 46 7 1906 2461 149651524 149650959 0.000000e+00 704.0
5 TraesCS2B01G219600 chr2A 90.625 64 6 0 1647 1710 149458275 149458212 4.860000e-13 86.1
6 TraesCS2B01G219600 chr2A 90.625 64 6 0 1647 1710 149483459 149483396 4.860000e-13 86.1
7 TraesCS2B01G219600 chr6D 100.000 31 0 0 449 479 57513291 57513261 1.060000e-04 58.4


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 TraesCS2B01G219600 chr2B 210013497 210016234 2737 False 5057 5057 100.000 1 2738 1 chr2B.!!$F1 2737
1 TraesCS2B01G219600 chr2D 151436695 151439242 2547 False 3727 3727 93.305 6 2520 1 chr2D.!!$F1 2514
2 TraesCS2B01G219600 chr2A 149650959 149653591 2632 True 1558 2412 89.867 4 2461 2 chr2A.!!$R3 2457

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
179 180 0.749818 TCGCACCAACACACACCATT 60.750 50.000 0.00 0.0 0.0 3.16 F
282 283 1.067846 CGCTTGCTATAGTATCCGCCA 60.068 52.381 0.84 0.0 0.0 5.69 F
1283 1326 1.011968 CACCGCGACGAGGAATCAAA 61.012 55.000 25.04 0.0 0.0 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1174 1217 0.030504 TTAACGACTGGCGAACGTGA 59.969 50.0 11.23 0.0 44.57 4.35 R
1457 1500 0.610687 CAGAGAGCGGTTTCTTCCCT 59.389 55.0 4.72 0.0 0.00 4.20 R
2668 2888 0.106519 GGTTGGGGACATGATCTGGG 60.107 60.0 0.00 0.0 42.32 4.45 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
78 79 6.060028 TCAACCGAATCTGACAAAAAGAAG 57.940 37.500 0.00 0.00 0.00 2.85
179 180 0.749818 TCGCACCAACACACACCATT 60.750 50.000 0.00 0.00 0.00 3.16
282 283 1.067846 CGCTTGCTATAGTATCCGCCA 60.068 52.381 0.84 0.00 0.00 5.69
296 297 1.353103 CGCCATCGCCATCTTTCAC 59.647 57.895 0.00 0.00 0.00 3.18
300 301 2.026641 CCATCGCCATCTTTCACCATT 58.973 47.619 0.00 0.00 0.00 3.16
417 420 4.564782 TCATCAGAGCTCAAGGACAAAT 57.435 40.909 17.77 0.00 0.00 2.32
439 446 4.607293 ACCAAGCCATTTTCTTTCCTTC 57.393 40.909 0.00 0.00 0.00 3.46
642 653 4.523943 TGATTCCCACCAAAACAGATCTTG 59.476 41.667 0.00 0.00 0.00 3.02
681 692 7.654923 GCAAAAACAGGAAAGAAGAGAATTCAT 59.345 33.333 8.44 0.00 0.00 2.57
758 769 1.227380 GGCCCAGCGTCATACTCAG 60.227 63.158 0.00 0.00 0.00 3.35
872 885 3.653344 GTGTCGATCCATATAAGCAGCA 58.347 45.455 0.00 0.00 0.00 4.41
906 919 1.427072 CCACCCCCTGTCCAGACTTT 61.427 60.000 0.00 0.00 0.00 2.66
929 942 2.359967 CCCTCGTCCTCCCCAAGAC 61.360 68.421 0.00 0.00 0.00 3.01
933 946 3.319198 GTCCTCCCCAAGACCGCA 61.319 66.667 0.00 0.00 0.00 5.69
935 948 4.410400 CCTCCCCAAGACCGCACC 62.410 72.222 0.00 0.00 0.00 5.01
936 949 3.322466 CTCCCCAAGACCGCACCT 61.322 66.667 0.00 0.00 0.00 4.00
937 950 1.987855 CTCCCCAAGACCGCACCTA 60.988 63.158 0.00 0.00 0.00 3.08
938 951 2.240162 CTCCCCAAGACCGCACCTAC 62.240 65.000 0.00 0.00 0.00 3.18
939 952 2.125673 CCCAAGACCGCACCTACG 60.126 66.667 0.00 0.00 0.00 3.51
1191 1234 1.947642 GTCACGTTCGCCAGTCGTT 60.948 57.895 0.00 0.00 39.67 3.85
1283 1326 1.011968 CACCGCGACGAGGAATCAAA 61.012 55.000 25.04 0.00 0.00 2.69
1356 1399 2.357517 CGCAGCTCTTTCGGTGGT 60.358 61.111 0.00 0.00 33.23 4.16
1358 1401 1.078759 CGCAGCTCTTTCGGTGGTAG 61.079 60.000 0.00 0.00 33.23 3.18
1361 1404 1.482593 CAGCTCTTTCGGTGGTAGGAT 59.517 52.381 0.00 0.00 0.00 3.24
1473 1516 0.036875 CCAAGGGAAGAAACCGCTCT 59.963 55.000 0.00 0.00 0.00 4.09
1475 1518 1.002544 CAAGGGAAGAAACCGCTCTCT 59.997 52.381 0.00 0.00 0.00 3.10
1710 1753 5.977725 CGTCTACTTCAACGATCCATACATT 59.022 40.000 0.00 0.00 41.29 2.71
1734 1777 1.134098 CCCCTGGATATGTTCAAGCGT 60.134 52.381 0.00 0.00 0.00 5.07
1840 1883 3.141398 CAAATACTCATACAGCGGGCAT 58.859 45.455 0.00 0.00 0.00 4.40
1850 2056 1.153086 AGCGGGCATGATGAGTTCC 60.153 57.895 0.00 0.00 0.00 3.62
1862 2068 5.698741 TGATGAGTTCCAGGAATGTGTAT 57.301 39.130 4.80 0.00 0.00 2.29
1962 2168 8.458573 AGTTACTGTTTGATTGGTTACAATGA 57.541 30.769 0.00 0.00 46.89 2.57
2042 2254 3.591196 TTCTTGCGGGGAAATCAAATG 57.409 42.857 0.00 0.00 0.00 2.32
2082 2294 1.686355 TTGCTTTTCATGTCACCCGT 58.314 45.000 0.00 0.00 0.00 5.28
2134 2351 9.438228 TTCATTTCCGTGTTACTATTTCACATA 57.562 29.630 0.00 0.00 33.04 2.29
2139 2356 8.780846 TCCGTGTTACTATTTCACATACAATT 57.219 30.769 0.00 0.00 33.04 2.32
2156 2373 7.228108 ACATACAATTGACTAGAGATGCCAATG 59.772 37.037 13.59 0.00 0.00 2.82
2171 2388 3.774766 TGCCAATGTGTCAGGTATAGAGT 59.225 43.478 0.00 0.00 0.00 3.24
2207 2424 9.877178 AATCTCATACCCATACTCGATATTTTC 57.123 33.333 0.00 0.00 0.00 2.29
2259 2476 2.034053 CCGCGGGTATAAAATTGCACAT 59.966 45.455 20.10 0.00 0.00 3.21
2261 2478 3.638484 GCGGGTATAAAATTGCACATCC 58.362 45.455 0.00 0.00 0.00 3.51
2262 2479 3.067461 GCGGGTATAAAATTGCACATCCA 59.933 43.478 0.00 0.00 0.00 3.41
2271 2488 6.594788 AAAATTGCACATCCACATACTCTT 57.405 33.333 0.00 0.00 0.00 2.85
2274 2491 5.375417 TTGCACATCCACATACTCTTTTG 57.625 39.130 0.00 0.00 0.00 2.44
2278 2495 5.163754 GCACATCCACATACTCTTTTGGTAC 60.164 44.000 0.00 0.00 0.00 3.34
2280 2497 5.250774 ACATCCACATACTCTTTTGGTACCT 59.749 40.000 14.36 0.00 0.00 3.08
2284 2501 5.527582 CCACATACTCTTTTGGTACCTATGC 59.472 44.000 14.36 0.00 0.00 3.14
2287 2504 2.916934 ACTCTTTTGGTACCTATGCCCA 59.083 45.455 14.36 0.00 0.00 5.36
2289 2506 4.017499 ACTCTTTTGGTACCTATGCCCAAT 60.017 41.667 14.36 0.00 38.02 3.16
2317 2534 4.083696 ACCCAACGAGCAACTAATTAAACG 60.084 41.667 0.00 0.00 0.00 3.60
2437 2657 7.848223 ATAGTTTTTAAAATGCCTTCATGCC 57.152 32.000 0.55 0.00 32.23 4.40
2438 2658 5.868454 AGTTTTTAAAATGCCTTCATGCCT 58.132 33.333 0.55 0.00 32.23 4.75
2520 2740 0.388649 GACGGCTGATCACGTGTTCT 60.389 55.000 23.26 7.79 44.24 3.01
2521 2741 0.885879 ACGGCTGATCACGTGTTCTA 59.114 50.000 23.26 11.62 42.39 2.10
2522 2742 1.476891 ACGGCTGATCACGTGTTCTAT 59.523 47.619 23.26 7.60 42.39 1.98
2523 2743 2.094182 ACGGCTGATCACGTGTTCTATT 60.094 45.455 23.26 5.04 42.39 1.73
2524 2744 2.535984 CGGCTGATCACGTGTTCTATTC 59.464 50.000 23.26 11.68 0.00 1.75
2525 2745 3.735208 CGGCTGATCACGTGTTCTATTCT 60.735 47.826 23.26 0.00 0.00 2.40
2526 2746 4.497507 CGGCTGATCACGTGTTCTATTCTA 60.498 45.833 23.26 5.32 0.00 2.10
2527 2747 4.740695 GGCTGATCACGTGTTCTATTCTAC 59.259 45.833 23.26 8.19 0.00 2.59
2528 2748 5.450688 GGCTGATCACGTGTTCTATTCTACT 60.451 44.000 23.26 0.00 0.00 2.57
2529 2749 6.037098 GCTGATCACGTGTTCTATTCTACTT 58.963 40.000 23.26 0.00 0.00 2.24
2530 2750 6.020281 GCTGATCACGTGTTCTATTCTACTTG 60.020 42.308 23.26 6.05 0.00 3.16
2531 2751 6.920817 TGATCACGTGTTCTATTCTACTTGT 58.079 36.000 23.26 0.00 0.00 3.16
2532 2752 7.027760 TGATCACGTGTTCTATTCTACTTGTC 58.972 38.462 23.26 0.00 0.00 3.18
2533 2753 6.321848 TCACGTGTTCTATTCTACTTGTCA 57.678 37.500 16.51 0.00 0.00 3.58
2534 2754 6.147581 TCACGTGTTCTATTCTACTTGTCAC 58.852 40.000 16.51 0.00 0.00 3.67
2535 2755 5.059343 CACGTGTTCTATTCTACTTGTCACG 59.941 44.000 7.58 11.28 46.97 4.35
2536 2756 4.030306 CGTGTTCTATTCTACTTGTCACGC 59.970 45.833 0.00 0.00 39.22 5.34
2537 2757 4.921515 GTGTTCTATTCTACTTGTCACGCA 59.078 41.667 0.00 0.00 0.00 5.24
2538 2758 5.404366 GTGTTCTATTCTACTTGTCACGCAA 59.596 40.000 0.00 0.00 35.50 4.85
2539 2759 5.404366 TGTTCTATTCTACTTGTCACGCAAC 59.596 40.000 0.00 0.00 32.90 4.17
2540 2760 5.386958 TCTATTCTACTTGTCACGCAACT 57.613 39.130 0.00 0.00 32.90 3.16
2541 2761 5.161358 TCTATTCTACTTGTCACGCAACTG 58.839 41.667 0.00 0.00 32.90 3.16
2542 2762 2.882927 TCTACTTGTCACGCAACTGT 57.117 45.000 0.00 0.00 32.90 3.55
2543 2763 3.173668 TCTACTTGTCACGCAACTGTT 57.826 42.857 0.00 0.00 32.90 3.16
2544 2764 2.863740 TCTACTTGTCACGCAACTGTTG 59.136 45.455 15.98 15.98 32.90 3.33
2545 2765 1.732941 ACTTGTCACGCAACTGTTGA 58.267 45.000 23.81 0.00 32.90 3.18
2546 2766 2.080693 ACTTGTCACGCAACTGTTGAA 58.919 42.857 23.81 7.24 32.90 2.69
2547 2767 2.682856 ACTTGTCACGCAACTGTTGAAT 59.317 40.909 23.81 7.85 32.90 2.57
2548 2768 3.128589 ACTTGTCACGCAACTGTTGAATT 59.871 39.130 23.81 4.09 32.90 2.17
2549 2769 3.063670 TGTCACGCAACTGTTGAATTG 57.936 42.857 23.81 15.34 0.00 2.32
2550 2770 1.780860 GTCACGCAACTGTTGAATTGC 59.219 47.619 23.81 7.99 46.24 3.56
2551 2771 1.130955 CACGCAACTGTTGAATTGCC 58.869 50.000 23.81 4.29 46.87 4.52
2552 2772 1.032014 ACGCAACTGTTGAATTGCCT 58.968 45.000 23.81 0.00 46.87 4.75
2553 2773 1.408702 ACGCAACTGTTGAATTGCCTT 59.591 42.857 23.81 0.00 46.87 4.35
2554 2774 2.159114 ACGCAACTGTTGAATTGCCTTT 60.159 40.909 23.81 0.00 46.87 3.11
2555 2775 2.865551 CGCAACTGTTGAATTGCCTTTT 59.134 40.909 23.81 0.00 46.87 2.27
2556 2776 3.309410 CGCAACTGTTGAATTGCCTTTTT 59.691 39.130 23.81 0.00 46.87 1.94
2557 2777 4.590226 GCAACTGTTGAATTGCCTTTTTG 58.410 39.130 23.81 0.00 44.42 2.44
2558 2778 4.496175 GCAACTGTTGAATTGCCTTTTTGG 60.496 41.667 23.81 0.00 44.42 3.28
2559 2779 4.486125 ACTGTTGAATTGCCTTTTTGGT 57.514 36.364 0.00 0.00 38.35 3.67
2560 2780 4.441792 ACTGTTGAATTGCCTTTTTGGTC 58.558 39.130 0.00 0.00 38.35 4.02
2561 2781 3.802866 TGTTGAATTGCCTTTTTGGTCC 58.197 40.909 0.00 0.00 38.35 4.46
2562 2782 3.198635 TGTTGAATTGCCTTTTTGGTCCA 59.801 39.130 0.00 0.00 38.35 4.02
2563 2783 3.467374 TGAATTGCCTTTTTGGTCCAC 57.533 42.857 0.00 0.00 38.35 4.02
2564 2784 2.103941 TGAATTGCCTTTTTGGTCCACC 59.896 45.455 0.00 0.00 38.35 4.61
2565 2785 1.799933 ATTGCCTTTTTGGTCCACCA 58.200 45.000 0.00 0.00 45.94 4.17
2575 2795 2.279935 TGGTCCACCAACCACATTAC 57.720 50.000 0.00 0.00 44.40 1.89
2576 2796 1.777878 TGGTCCACCAACCACATTACT 59.222 47.619 0.00 0.00 44.40 2.24
2577 2797 2.175931 TGGTCCACCAACCACATTACTT 59.824 45.455 0.00 0.00 44.40 2.24
2578 2798 3.227614 GGTCCACCAACCACATTACTTT 58.772 45.455 0.00 0.00 39.27 2.66
2579 2799 3.005367 GGTCCACCAACCACATTACTTTG 59.995 47.826 0.00 0.00 39.27 2.77
2580 2800 3.005367 GTCCACCAACCACATTACTTTGG 59.995 47.826 0.00 0.00 43.61 3.28
2581 2801 2.298729 CCACCAACCACATTACTTTGGG 59.701 50.000 4.34 0.00 42.49 4.12
2582 2802 2.298729 CACCAACCACATTACTTTGGGG 59.701 50.000 4.34 0.00 46.26 4.96
2583 2803 1.275010 CCAACCACATTACTTTGGGGC 59.725 52.381 0.00 0.00 44.57 5.80
2584 2804 1.275010 CAACCACATTACTTTGGGGCC 59.725 52.381 0.00 0.00 44.57 5.80
2585 2805 0.252057 ACCACATTACTTTGGGGCCC 60.252 55.000 18.17 18.17 44.57 5.80
2586 2806 0.252012 CCACATTACTTTGGGGCCCA 60.252 55.000 24.76 24.76 32.29 5.36
2587 2807 0.894835 CACATTACTTTGGGGCCCAC 59.105 55.000 28.84 14.10 30.78 4.61
2588 2808 0.485099 ACATTACTTTGGGGCCCACA 59.515 50.000 28.84 19.80 30.78 4.17
2589 2809 1.133009 ACATTACTTTGGGGCCCACAA 60.133 47.619 28.84 21.98 30.78 3.33
2590 2810 1.550072 CATTACTTTGGGGCCCACAAG 59.450 52.381 29.94 29.94 30.78 3.16
2591 2811 0.830023 TTACTTTGGGGCCCACAAGC 60.830 55.000 30.80 5.98 30.78 4.01
2592 2812 3.683937 CTTTGGGGCCCACAAGCG 61.684 66.667 28.84 15.18 30.78 4.68
2607 2827 4.479993 GCGCACTGCCCTCTCCAT 62.480 66.667 0.30 0.00 37.76 3.41
2608 2828 2.202987 CGCACTGCCCTCTCCATC 60.203 66.667 0.00 0.00 0.00 3.51
2609 2829 2.993008 GCACTGCCCTCTCCATCA 59.007 61.111 0.00 0.00 0.00 3.07
2610 2830 1.530771 GCACTGCCCTCTCCATCAT 59.469 57.895 0.00 0.00 0.00 2.45
2611 2831 0.534652 GCACTGCCCTCTCCATCATC 60.535 60.000 0.00 0.00 0.00 2.92
2612 2832 1.129917 CACTGCCCTCTCCATCATCT 58.870 55.000 0.00 0.00 0.00 2.90
2613 2833 1.489649 CACTGCCCTCTCCATCATCTT 59.510 52.381 0.00 0.00 0.00 2.40
2614 2834 2.702478 CACTGCCCTCTCCATCATCTTA 59.298 50.000 0.00 0.00 0.00 2.10
2615 2835 3.327172 CACTGCCCTCTCCATCATCTTAT 59.673 47.826 0.00 0.00 0.00 1.73
2616 2836 3.582208 ACTGCCCTCTCCATCATCTTATC 59.418 47.826 0.00 0.00 0.00 1.75
2617 2837 2.909006 TGCCCTCTCCATCATCTTATCC 59.091 50.000 0.00 0.00 0.00 2.59
2618 2838 2.909006 GCCCTCTCCATCATCTTATCCA 59.091 50.000 0.00 0.00 0.00 3.41
2619 2839 3.307339 GCCCTCTCCATCATCTTATCCAC 60.307 52.174 0.00 0.00 0.00 4.02
2620 2840 3.906218 CCCTCTCCATCATCTTATCCACA 59.094 47.826 0.00 0.00 0.00 4.17
2621 2841 4.262808 CCCTCTCCATCATCTTATCCACAC 60.263 50.000 0.00 0.00 0.00 3.82
2622 2842 4.346127 CCTCTCCATCATCTTATCCACACA 59.654 45.833 0.00 0.00 0.00 3.72
2623 2843 5.511031 CCTCTCCATCATCTTATCCACACAG 60.511 48.000 0.00 0.00 0.00 3.66
2624 2844 4.346127 TCTCCATCATCTTATCCACACAGG 59.654 45.833 0.00 0.00 39.47 4.00
2633 2853 1.761174 TCCACACAGGAAAGGCTCC 59.239 57.895 0.00 0.00 45.65 4.70
2646 2866 3.723348 GCTCCGCCGCTCGTTTTT 61.723 61.111 0.00 0.00 36.19 1.94
2647 2867 2.385091 GCTCCGCCGCTCGTTTTTA 61.385 57.895 0.00 0.00 36.19 1.52
2648 2868 1.702491 GCTCCGCCGCTCGTTTTTAT 61.702 55.000 0.00 0.00 36.19 1.40
2649 2869 0.725117 CTCCGCCGCTCGTTTTTATT 59.275 50.000 0.00 0.00 36.19 1.40
2650 2870 1.928503 CTCCGCCGCTCGTTTTTATTA 59.071 47.619 0.00 0.00 36.19 0.98
2651 2871 1.660104 TCCGCCGCTCGTTTTTATTAC 59.340 47.619 0.00 0.00 36.19 1.89
2652 2872 1.267682 CCGCCGCTCGTTTTTATTACC 60.268 52.381 0.00 0.00 36.19 2.85
2653 2873 1.662122 CGCCGCTCGTTTTTATTACCT 59.338 47.619 0.00 0.00 0.00 3.08
2654 2874 2.094734 CGCCGCTCGTTTTTATTACCTT 59.905 45.455 0.00 0.00 0.00 3.50
2655 2875 3.677601 GCCGCTCGTTTTTATTACCTTC 58.322 45.455 0.00 0.00 0.00 3.46
2656 2876 3.373130 GCCGCTCGTTTTTATTACCTTCT 59.627 43.478 0.00 0.00 0.00 2.85
2657 2877 4.493708 GCCGCTCGTTTTTATTACCTTCTC 60.494 45.833 0.00 0.00 0.00 2.87
2658 2878 4.868734 CCGCTCGTTTTTATTACCTTCTCT 59.131 41.667 0.00 0.00 0.00 3.10
2659 2879 5.350640 CCGCTCGTTTTTATTACCTTCTCTT 59.649 40.000 0.00 0.00 0.00 2.85
2660 2880 6.128363 CCGCTCGTTTTTATTACCTTCTCTTT 60.128 38.462 0.00 0.00 0.00 2.52
2661 2881 6.954297 CGCTCGTTTTTATTACCTTCTCTTTC 59.046 38.462 0.00 0.00 0.00 2.62
2662 2882 7.242079 GCTCGTTTTTATTACCTTCTCTTTCC 58.758 38.462 0.00 0.00 0.00 3.13
2663 2883 7.119407 GCTCGTTTTTATTACCTTCTCTTTCCT 59.881 37.037 0.00 0.00 0.00 3.36
2664 2884 8.913487 TCGTTTTTATTACCTTCTCTTTCCTT 57.087 30.769 0.00 0.00 0.00 3.36
2670 2890 9.916360 TTTATTACCTTCTCTTTCCTTAATCCC 57.084 33.333 0.00 0.00 0.00 3.85
2671 2891 6.963117 TTACCTTCTCTTTCCTTAATCCCA 57.037 37.500 0.00 0.00 0.00 4.37
2672 2892 5.443230 ACCTTCTCTTTCCTTAATCCCAG 57.557 43.478 0.00 0.00 0.00 4.45
2673 2893 5.101529 ACCTTCTCTTTCCTTAATCCCAGA 58.898 41.667 0.00 0.00 0.00 3.86
2674 2894 5.733647 ACCTTCTCTTTCCTTAATCCCAGAT 59.266 40.000 0.00 0.00 0.00 2.90
2675 2895 6.126623 ACCTTCTCTTTCCTTAATCCCAGATC 60.127 42.308 0.00 0.00 0.00 2.75
2676 2896 6.126652 CCTTCTCTTTCCTTAATCCCAGATCA 60.127 42.308 0.00 0.00 0.00 2.92
2677 2897 7.421147 CCTTCTCTTTCCTTAATCCCAGATCAT 60.421 40.741 0.00 0.00 0.00 2.45
2678 2898 6.835174 TCTCTTTCCTTAATCCCAGATCATG 58.165 40.000 0.00 0.00 0.00 3.07
2679 2899 6.388100 TCTCTTTCCTTAATCCCAGATCATGT 59.612 38.462 0.00 0.00 0.00 3.21
2680 2900 6.595682 TCTTTCCTTAATCCCAGATCATGTC 58.404 40.000 0.00 0.00 0.00 3.06
2681 2901 4.982241 TCCTTAATCCCAGATCATGTCC 57.018 45.455 0.00 0.00 0.00 4.02
2682 2902 3.652869 TCCTTAATCCCAGATCATGTCCC 59.347 47.826 0.00 0.00 0.00 4.46
2683 2903 3.245052 CCTTAATCCCAGATCATGTCCCC 60.245 52.174 0.00 0.00 0.00 4.81
2684 2904 1.911454 AATCCCAGATCATGTCCCCA 58.089 50.000 0.00 0.00 0.00 4.96
2685 2905 1.911454 ATCCCAGATCATGTCCCCAA 58.089 50.000 0.00 0.00 0.00 4.12
2686 2906 0.918983 TCCCAGATCATGTCCCCAAC 59.081 55.000 0.00 0.00 0.00 3.77
2687 2907 0.106519 CCCAGATCATGTCCCCAACC 60.107 60.000 0.00 0.00 0.00 3.77
2688 2908 0.106519 CCAGATCATGTCCCCAACCC 60.107 60.000 0.00 0.00 0.00 4.11
2689 2909 0.106519 CAGATCATGTCCCCAACCCC 60.107 60.000 0.00 0.00 0.00 4.95
2690 2910 0.552367 AGATCATGTCCCCAACCCCA 60.552 55.000 0.00 0.00 0.00 4.96
2691 2911 0.557729 GATCATGTCCCCAACCCCAT 59.442 55.000 0.00 0.00 0.00 4.00
2692 2912 1.018031 ATCATGTCCCCAACCCCATT 58.982 50.000 0.00 0.00 0.00 3.16
2693 2913 0.789687 TCATGTCCCCAACCCCATTT 59.210 50.000 0.00 0.00 0.00 2.32
2694 2914 2.003830 TCATGTCCCCAACCCCATTTA 58.996 47.619 0.00 0.00 0.00 1.40
2695 2915 2.024464 TCATGTCCCCAACCCCATTTAG 60.024 50.000 0.00 0.00 0.00 1.85
2696 2916 1.462426 TGTCCCCAACCCCATTTAGT 58.538 50.000 0.00 0.00 0.00 2.24
2697 2917 2.645320 TGTCCCCAACCCCATTTAGTA 58.355 47.619 0.00 0.00 0.00 1.82
2698 2918 3.203059 TGTCCCCAACCCCATTTAGTAT 58.797 45.455 0.00 0.00 0.00 2.12
2699 2919 3.053245 TGTCCCCAACCCCATTTAGTATG 60.053 47.826 0.00 0.00 0.00 2.39
2700 2920 3.053170 GTCCCCAACCCCATTTAGTATGT 60.053 47.826 0.00 0.00 0.00 2.29
2701 2921 4.166531 GTCCCCAACCCCATTTAGTATGTA 59.833 45.833 0.00 0.00 0.00 2.29
2702 2922 4.166531 TCCCCAACCCCATTTAGTATGTAC 59.833 45.833 0.00 0.00 0.00 2.90
2703 2923 4.466827 CCCAACCCCATTTAGTATGTACC 58.533 47.826 0.00 0.00 0.00 3.34
2704 2924 4.079672 CCCAACCCCATTTAGTATGTACCA 60.080 45.833 0.00 0.00 0.00 3.25
2705 2925 5.399727 CCCAACCCCATTTAGTATGTACCAT 60.400 44.000 0.00 0.00 0.00 3.55
2706 2926 5.768164 CCAACCCCATTTAGTATGTACCATC 59.232 44.000 0.00 0.00 0.00 3.51
2707 2927 6.410388 CCAACCCCATTTAGTATGTACCATCT 60.410 42.308 0.00 0.00 0.00 2.90
2708 2928 6.435292 ACCCCATTTAGTATGTACCATCTC 57.565 41.667 0.00 0.00 0.00 2.75
2709 2929 6.151049 ACCCCATTTAGTATGTACCATCTCT 58.849 40.000 0.00 0.00 0.00 3.10
2710 2930 6.270231 ACCCCATTTAGTATGTACCATCTCTC 59.730 42.308 0.00 0.00 0.00 3.20
2711 2931 6.295916 CCCCATTTAGTATGTACCATCTCTCC 60.296 46.154 0.00 0.00 0.00 3.71
2712 2932 6.295916 CCCATTTAGTATGTACCATCTCTCCC 60.296 46.154 0.00 0.00 0.00 4.30
2713 2933 6.390721 CATTTAGTATGTACCATCTCTCCCG 58.609 44.000 0.00 0.00 0.00 5.14
2714 2934 3.596940 AGTATGTACCATCTCTCCCGT 57.403 47.619 0.00 0.00 0.00 5.28
2715 2935 4.719026 AGTATGTACCATCTCTCCCGTA 57.281 45.455 0.00 0.00 0.00 4.02
2716 2936 5.258216 AGTATGTACCATCTCTCCCGTAT 57.742 43.478 0.00 0.00 0.00 3.06
2717 2937 5.642165 AGTATGTACCATCTCTCCCGTATT 58.358 41.667 0.00 0.00 0.00 1.89
2718 2938 6.075984 AGTATGTACCATCTCTCCCGTATTT 58.924 40.000 0.00 0.00 0.00 1.40
2719 2939 4.665833 TGTACCATCTCTCCCGTATTTG 57.334 45.455 0.00 0.00 0.00 2.32
2720 2940 3.386726 TGTACCATCTCTCCCGTATTTGG 59.613 47.826 0.00 0.00 0.00 3.28
2721 2941 1.141053 ACCATCTCTCCCGTATTTGGC 59.859 52.381 0.00 0.00 0.00 4.52
2722 2942 1.502231 CATCTCTCCCGTATTTGGCG 58.498 55.000 0.00 0.00 0.00 5.69
2723 2943 1.068588 CATCTCTCCCGTATTTGGCGA 59.931 52.381 0.00 0.00 0.00 5.54
2724 2944 0.744874 TCTCTCCCGTATTTGGCGAG 59.255 55.000 0.00 0.00 0.00 5.03
2725 2945 0.876342 CTCTCCCGTATTTGGCGAGC 60.876 60.000 0.00 0.00 0.00 5.03
2726 2946 1.153449 CTCCCGTATTTGGCGAGCA 60.153 57.895 0.00 0.00 0.00 4.26
2727 2947 0.742990 CTCCCGTATTTGGCGAGCAA 60.743 55.000 0.00 0.00 0.00 3.91
2728 2948 1.022451 TCCCGTATTTGGCGAGCAAC 61.022 55.000 0.00 0.00 0.00 4.17
2729 2949 1.024579 CCCGTATTTGGCGAGCAACT 61.025 55.000 0.00 0.00 0.00 3.16
2730 2950 0.802494 CCGTATTTGGCGAGCAACTT 59.198 50.000 0.00 0.00 0.00 2.66
2731 2951 1.199097 CCGTATTTGGCGAGCAACTTT 59.801 47.619 0.00 0.00 0.00 2.66
2732 2952 2.241722 CGTATTTGGCGAGCAACTTTG 58.758 47.619 0.00 0.00 0.00 2.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 8.773033 ACTCCCCTCGTTTCTAAATATAAGTA 57.227 34.615 0.00 0.00 0.00 2.24
43 44 5.701290 CAGATTCGGTTGAATAATACTCCCC 59.299 44.000 0.00 0.00 44.79 4.81
78 79 6.039829 GGAAAGTGGAATTAGGTTGATCCATC 59.960 42.308 0.00 0.00 43.41 3.51
213 214 1.521450 CTGGCTGGTGCTCTTGGTTG 61.521 60.000 0.00 0.00 39.59 3.77
218 219 1.421646 ACTAAACTGGCTGGTGCTCTT 59.578 47.619 0.00 0.00 39.59 2.85
282 283 2.301346 GGAATGGTGAAAGATGGCGAT 58.699 47.619 0.00 0.00 0.00 4.58
296 297 3.393609 TCATCCCTCTGAAGATGGAATGG 59.606 47.826 8.21 2.86 41.17 3.16
300 301 2.432146 CGTTCATCCCTCTGAAGATGGA 59.568 50.000 14.12 6.78 41.86 3.41
382 385 3.544684 TCTGATGATGGTTGGTGCATAC 58.455 45.455 0.00 0.00 0.00 2.39
417 420 4.526650 GGAAGGAAAGAAAATGGCTTGGTA 59.473 41.667 0.00 0.00 0.00 3.25
642 653 2.114056 GTTTTTGCCGAGTTCCGTTTC 58.886 47.619 0.00 0.00 36.31 2.78
681 692 3.845178 CGGTTTCAGCTATGTGTCTGTA 58.155 45.455 0.00 0.00 0.00 2.74
728 739 3.779083 TGGGCCCCCTAGCTAGCT 61.779 66.667 23.12 23.12 36.94 3.32
729 740 3.245346 CTGGGCCCCCTAGCTAGC 61.245 72.222 22.27 6.62 36.94 3.42
730 741 3.245346 GCTGGGCCCCCTAGCTAG 61.245 72.222 22.27 14.20 37.31 3.42
872 885 1.265454 GGTGGATTGGGGAGACGAGT 61.265 60.000 0.00 0.00 0.00 4.18
906 919 2.359404 GGGAGGACGAGGGACTGA 59.641 66.667 0.00 0.00 41.55 3.41
940 953 3.051392 CTTGGGATTGGAACGCGCC 62.051 63.158 5.73 0.00 0.00 6.53
1037 1080 3.670377 GGTTGCGGTTGGTCTGGC 61.670 66.667 0.00 0.00 0.00 4.85
1174 1217 0.030504 TTAACGACTGGCGAACGTGA 59.969 50.000 11.23 0.00 44.57 4.35
1236 1279 1.378124 CGGTCTCCCTCTTCCTCGAC 61.378 65.000 0.00 0.00 0.00 4.20
1283 1326 2.100631 CGTCGGCGCTTGGATTCTT 61.101 57.895 7.64 0.00 0.00 2.52
1322 1365 2.873367 CGCGAGCATGAAGACGTAT 58.127 52.632 0.00 0.00 0.00 3.06
1353 1396 3.845259 GTCGCCGGCATCCTACCA 61.845 66.667 28.98 0.00 0.00 3.25
1354 1397 4.944372 CGTCGCCGGCATCCTACC 62.944 72.222 28.98 4.06 0.00 3.18
1457 1500 0.610687 CAGAGAGCGGTTTCTTCCCT 59.389 55.000 4.72 0.00 0.00 4.20
1473 1516 3.071206 GCCCTCGGCTCAGACAGA 61.071 66.667 0.00 0.00 46.69 3.41
1710 1753 3.117888 GCTTGAACATATCCAGGGGAGAA 60.118 47.826 0.00 0.00 34.05 2.87
1734 1777 0.971959 GGCCACCCAGCATTCATCAA 60.972 55.000 0.00 0.00 0.00 2.57
1840 1883 5.698741 ATACACATTCCTGGAACTCATCA 57.301 39.130 12.11 0.00 0.00 3.07
1862 2068 9.519191 TTCATGGAAGTCATCTTGAAGAATTAA 57.481 29.630 0.00 0.00 32.92 1.40
1925 2131 6.097356 TCAAACAGTAACTATCGTTGCCTAG 58.903 40.000 0.00 0.00 36.54 3.02
1928 2134 5.796350 ATCAAACAGTAACTATCGTTGCC 57.204 39.130 0.00 0.00 36.54 4.52
1961 2167 1.849097 AAACGTTCACTCGACACCTC 58.151 50.000 0.00 0.00 34.70 3.85
1962 2168 3.441496 TTAAACGTTCACTCGACACCT 57.559 42.857 0.00 0.00 34.70 4.00
2010 2222 3.119849 CCCCGCAAGAAAAAGACATACAG 60.120 47.826 0.00 0.00 43.02 2.74
2090 2307 6.473397 AATGAAACACGTGAAAAGCAAAAA 57.527 29.167 25.01 0.00 0.00 1.94
2103 2320 4.461992 AGTAACACGGAAATGAAACACG 57.538 40.909 0.00 0.00 0.00 4.49
2134 2351 5.356190 CACATTGGCATCTCTAGTCAATTGT 59.644 40.000 5.13 0.00 0.00 2.71
2139 2356 3.515104 TGACACATTGGCATCTCTAGTCA 59.485 43.478 0.00 0.00 24.43 3.41
2156 2373 6.600822 TGTTGTACCTACTCTATACCTGACAC 59.399 42.308 0.00 0.00 0.00 3.67
2171 2388 7.787904 AGTATGGGTATGAGATTGTTGTACCTA 59.212 37.037 0.00 0.00 36.06 3.08
2189 2406 6.433847 TCCATGAAAATATCGAGTATGGGT 57.566 37.500 0.00 0.00 35.48 4.51
2207 2424 4.305539 TGGGTAGATATTGGCATCCATG 57.694 45.455 0.00 0.00 31.53 3.66
2259 2476 6.631766 GCATAGGTACCAAAAGAGTATGTGGA 60.632 42.308 15.94 0.00 35.04 4.02
2261 2478 5.527582 GGCATAGGTACCAAAAGAGTATGTG 59.472 44.000 15.94 0.00 0.00 3.21
2262 2479 5.397559 GGGCATAGGTACCAAAAGAGTATGT 60.398 44.000 15.94 0.00 0.00 2.29
2271 2488 2.358721 CCCATTGGGCATAGGTACCAAA 60.359 50.000 15.94 1.42 46.30 3.28
2274 2491 3.745723 CCCATTGGGCATAGGTACC 57.254 57.895 9.28 2.73 35.35 3.34
2338 2556 6.992063 TGTTTTGCCAAAAGATGCTTTTAA 57.008 29.167 2.15 0.00 0.00 1.52
2340 2558 5.893897 TTGTTTTGCCAAAAGATGCTTTT 57.106 30.435 2.15 0.00 0.00 2.27
2345 2563 8.586570 TTGTAGTATTGTTTTGCCAAAAGATG 57.413 30.769 2.15 0.00 0.00 2.90
2385 2604 8.421249 AATCCTTTTTCTTTGACCATGTCATA 57.579 30.769 0.00 0.00 42.40 2.15
2487 2707 4.891260 TCAGCCGTCTATATCGAAGAGTA 58.109 43.478 0.00 0.00 43.63 2.59
2500 2720 0.388649 GAACACGTGATCAGCCGTCT 60.389 55.000 25.01 0.00 34.59 4.18
2502 2722 0.885879 TAGAACACGTGATCAGCCGT 59.114 50.000 25.01 6.15 37.90 5.68
2515 2735 5.128992 TGCGTGACAAGTAGAATAGAACA 57.871 39.130 0.00 0.00 0.00 3.18
2520 2740 4.878439 ACAGTTGCGTGACAAGTAGAATA 58.122 39.130 0.00 0.00 40.04 1.75
2521 2741 3.728845 ACAGTTGCGTGACAAGTAGAAT 58.271 40.909 0.00 0.00 40.04 2.40
2522 2742 3.173668 ACAGTTGCGTGACAAGTAGAA 57.826 42.857 0.00 0.00 40.04 2.10
2523 2743 2.863740 CAACAGTTGCGTGACAAGTAGA 59.136 45.455 0.00 0.00 40.04 2.59
2524 2744 2.863740 TCAACAGTTGCGTGACAAGTAG 59.136 45.455 8.58 0.00 40.04 2.57
2525 2745 2.894902 TCAACAGTTGCGTGACAAGTA 58.105 42.857 8.58 0.00 40.04 2.24
2526 2746 1.732941 TCAACAGTTGCGTGACAAGT 58.267 45.000 8.58 0.00 42.91 3.16
2527 2747 2.823196 TTCAACAGTTGCGTGACAAG 57.177 45.000 8.58 0.00 39.50 3.16
2528 2748 3.433709 CAATTCAACAGTTGCGTGACAA 58.566 40.909 8.58 0.00 35.33 3.18
2529 2749 2.794282 GCAATTCAACAGTTGCGTGACA 60.794 45.455 8.58 0.00 40.95 3.58
2530 2750 1.780860 GCAATTCAACAGTTGCGTGAC 59.219 47.619 8.58 0.00 40.95 3.67
2531 2751 2.118228 GCAATTCAACAGTTGCGTGA 57.882 45.000 8.58 0.00 40.95 4.35
2536 2756 4.635324 ACCAAAAAGGCAATTCAACAGTTG 59.365 37.500 6.99 6.99 43.14 3.16
2537 2757 4.842574 ACCAAAAAGGCAATTCAACAGTT 58.157 34.783 0.00 0.00 43.14 3.16
2538 2758 4.441792 GACCAAAAAGGCAATTCAACAGT 58.558 39.130 0.00 0.00 43.14 3.55
2539 2759 3.809279 GGACCAAAAAGGCAATTCAACAG 59.191 43.478 0.00 0.00 43.14 3.16
2540 2760 3.198635 TGGACCAAAAAGGCAATTCAACA 59.801 39.130 0.00 0.00 43.14 3.33
2541 2761 3.559655 GTGGACCAAAAAGGCAATTCAAC 59.440 43.478 0.00 0.00 43.14 3.18
2542 2762 3.432890 GGTGGACCAAAAAGGCAATTCAA 60.433 43.478 0.00 0.00 43.14 2.69
2543 2763 2.103941 GGTGGACCAAAAAGGCAATTCA 59.896 45.455 0.00 0.00 43.14 2.57
2544 2764 2.103941 TGGTGGACCAAAAAGGCAATTC 59.896 45.455 0.00 0.00 44.35 2.17
2545 2765 2.122768 TGGTGGACCAAAAAGGCAATT 58.877 42.857 0.00 0.00 44.35 2.32
2546 2766 1.799933 TGGTGGACCAAAAAGGCAAT 58.200 45.000 0.00 0.00 44.35 3.56
2547 2767 3.306902 TGGTGGACCAAAAAGGCAA 57.693 47.368 0.00 0.00 44.35 4.52
2557 2777 2.579410 AGTAATGTGGTTGGTGGACC 57.421 50.000 0.00 0.00 40.23 4.46
2558 2778 3.005367 CCAAAGTAATGTGGTTGGTGGAC 59.995 47.826 0.00 0.00 36.55 4.02
2559 2779 3.226777 CCAAAGTAATGTGGTTGGTGGA 58.773 45.455 0.00 0.00 36.55 4.02
2560 2780 2.298729 CCCAAAGTAATGTGGTTGGTGG 59.701 50.000 0.00 0.00 39.13 4.61
2561 2781 2.298729 CCCCAAAGTAATGTGGTTGGTG 59.701 50.000 0.00 0.00 39.13 4.17
2562 2782 2.604139 CCCCAAAGTAATGTGGTTGGT 58.396 47.619 0.00 0.00 39.13 3.67
2563 2783 1.275010 GCCCCAAAGTAATGTGGTTGG 59.725 52.381 0.00 0.00 40.24 3.77
2564 2784 1.275010 GGCCCCAAAGTAATGTGGTTG 59.725 52.381 0.00 0.00 32.60 3.77
2565 2785 1.639722 GGCCCCAAAGTAATGTGGTT 58.360 50.000 0.00 0.00 32.60 3.67
2566 2786 0.252057 GGGCCCCAAAGTAATGTGGT 60.252 55.000 12.23 0.00 32.60 4.16
2567 2787 0.252012 TGGGCCCCAAAGTAATGTGG 60.252 55.000 22.27 0.00 34.44 4.17
2568 2788 0.894835 GTGGGCCCCAAAGTAATGTG 59.105 55.000 22.27 0.00 34.18 3.21
2569 2789 0.485099 TGTGGGCCCCAAAGTAATGT 59.515 50.000 22.27 0.00 34.18 2.71
2570 2790 1.550072 CTTGTGGGCCCCAAAGTAATG 59.450 52.381 22.27 6.32 34.18 1.90
2571 2791 1.937191 CTTGTGGGCCCCAAAGTAAT 58.063 50.000 22.27 0.00 34.18 1.89
2572 2792 0.830023 GCTTGTGGGCCCCAAAGTAA 60.830 55.000 26.34 10.92 34.18 2.24
2573 2793 1.228737 GCTTGTGGGCCCCAAAGTA 60.229 57.895 26.34 4.36 34.18 2.24
2574 2794 2.524148 GCTTGTGGGCCCCAAAGT 60.524 61.111 26.34 0.00 34.18 2.66
2575 2795 3.683937 CGCTTGTGGGCCCCAAAG 61.684 66.667 22.27 22.94 34.18 2.77
2590 2810 4.479993 ATGGAGAGGGCAGTGCGC 62.480 66.667 23.64 23.64 41.91 6.09
2591 2811 2.202987 GATGGAGAGGGCAGTGCG 60.203 66.667 9.45 0.00 0.00 5.34
2592 2812 0.534652 GATGATGGAGAGGGCAGTGC 60.535 60.000 6.55 6.55 0.00 4.40
2593 2813 1.129917 AGATGATGGAGAGGGCAGTG 58.870 55.000 0.00 0.00 0.00 3.66
2594 2814 1.890552 AAGATGATGGAGAGGGCAGT 58.109 50.000 0.00 0.00 0.00 4.40
2595 2815 3.055240 GGATAAGATGATGGAGAGGGCAG 60.055 52.174 0.00 0.00 0.00 4.85
2596 2816 2.909006 GGATAAGATGATGGAGAGGGCA 59.091 50.000 0.00 0.00 0.00 5.36
2597 2817 2.909006 TGGATAAGATGATGGAGAGGGC 59.091 50.000 0.00 0.00 0.00 5.19
2598 2818 3.906218 TGTGGATAAGATGATGGAGAGGG 59.094 47.826 0.00 0.00 0.00 4.30
2599 2819 4.346127 TGTGTGGATAAGATGATGGAGAGG 59.654 45.833 0.00 0.00 0.00 3.69
2600 2820 5.511031 CCTGTGTGGATAAGATGATGGAGAG 60.511 48.000 0.00 0.00 38.35 3.20
2601 2821 4.346127 CCTGTGTGGATAAGATGATGGAGA 59.654 45.833 0.00 0.00 38.35 3.71
2602 2822 4.346127 TCCTGTGTGGATAAGATGATGGAG 59.654 45.833 0.00 0.00 40.56 3.86
2603 2823 4.297768 TCCTGTGTGGATAAGATGATGGA 58.702 43.478 0.00 0.00 40.56 3.41
2604 2824 4.694760 TCCTGTGTGGATAAGATGATGG 57.305 45.455 0.00 0.00 40.56 3.51
2605 2825 5.530171 CCTTTCCTGTGTGGATAAGATGATG 59.470 44.000 0.00 0.00 45.68 3.07
2606 2826 5.688807 CCTTTCCTGTGTGGATAAGATGAT 58.311 41.667 0.00 0.00 45.68 2.45
2607 2827 4.626287 GCCTTTCCTGTGTGGATAAGATGA 60.626 45.833 0.00 0.00 45.68 2.92
2608 2828 3.629398 GCCTTTCCTGTGTGGATAAGATG 59.371 47.826 0.00 0.00 45.68 2.90
2609 2829 3.525199 AGCCTTTCCTGTGTGGATAAGAT 59.475 43.478 0.00 0.00 45.68 2.40
2610 2830 2.912956 AGCCTTTCCTGTGTGGATAAGA 59.087 45.455 0.00 0.00 45.68 2.10
2611 2831 3.274288 GAGCCTTTCCTGTGTGGATAAG 58.726 50.000 0.00 0.00 45.68 1.73
2612 2832 2.026262 GGAGCCTTTCCTGTGTGGATAA 60.026 50.000 0.00 0.00 45.68 1.75
2613 2833 1.559682 GGAGCCTTTCCTGTGTGGATA 59.440 52.381 0.00 0.00 45.68 2.59
2614 2834 0.329596 GGAGCCTTTCCTGTGTGGAT 59.670 55.000 0.00 0.00 45.68 3.41
2615 2835 1.761174 GGAGCCTTTCCTGTGTGGA 59.239 57.895 0.00 0.00 43.16 4.02
2616 2836 1.672356 CGGAGCCTTTCCTGTGTGG 60.672 63.158 0.00 0.00 44.41 4.17
2617 2837 3.972227 CGGAGCCTTTCCTGTGTG 58.028 61.111 0.00 0.00 44.41 3.82
2630 2850 0.725117 AATAAAAACGAGCGGCGGAG 59.275 50.000 9.78 0.00 46.49 4.63
2631 2851 1.660104 GTAATAAAAACGAGCGGCGGA 59.340 47.619 9.78 0.00 46.49 5.54
2632 2852 1.267682 GGTAATAAAAACGAGCGGCGG 60.268 52.381 9.78 0.00 46.49 6.13
2634 2854 3.373130 AGAAGGTAATAAAAACGAGCGGC 59.627 43.478 0.00 0.00 0.00 6.53
2635 2855 4.868734 AGAGAAGGTAATAAAAACGAGCGG 59.131 41.667 0.00 0.00 0.00 5.52
2636 2856 6.404712 AAGAGAAGGTAATAAAAACGAGCG 57.595 37.500 0.00 0.00 0.00 5.03
2637 2857 7.119407 AGGAAAGAGAAGGTAATAAAAACGAGC 59.881 37.037 0.00 0.00 0.00 5.03
2638 2858 8.549338 AGGAAAGAGAAGGTAATAAAAACGAG 57.451 34.615 0.00 0.00 0.00 4.18
2639 2859 8.913487 AAGGAAAGAGAAGGTAATAAAAACGA 57.087 30.769 0.00 0.00 0.00 3.85
2644 2864 9.916360 GGGATTAAGGAAAGAGAAGGTAATAAA 57.084 33.333 0.00 0.00 0.00 1.40
2645 2865 9.064602 TGGGATTAAGGAAAGAGAAGGTAATAA 57.935 33.333 0.00 0.00 0.00 1.40
2646 2866 8.632731 TGGGATTAAGGAAAGAGAAGGTAATA 57.367 34.615 0.00 0.00 0.00 0.98
2647 2867 7.406151 TCTGGGATTAAGGAAAGAGAAGGTAAT 59.594 37.037 0.00 0.00 0.00 1.89
2648 2868 6.733807 TCTGGGATTAAGGAAAGAGAAGGTAA 59.266 38.462 0.00 0.00 0.00 2.85
2649 2869 6.269194 TCTGGGATTAAGGAAAGAGAAGGTA 58.731 40.000 0.00 0.00 0.00 3.08
2650 2870 5.101529 TCTGGGATTAAGGAAAGAGAAGGT 58.898 41.667 0.00 0.00 0.00 3.50
2651 2871 5.700402 TCTGGGATTAAGGAAAGAGAAGG 57.300 43.478 0.00 0.00 0.00 3.46
2652 2872 6.893583 TGATCTGGGATTAAGGAAAGAGAAG 58.106 40.000 0.00 0.00 0.00 2.85
2653 2873 6.891306 TGATCTGGGATTAAGGAAAGAGAA 57.109 37.500 0.00 0.00 0.00 2.87
2654 2874 6.388100 ACATGATCTGGGATTAAGGAAAGAGA 59.612 38.462 0.00 0.00 0.00 3.10
2655 2875 6.599445 ACATGATCTGGGATTAAGGAAAGAG 58.401 40.000 0.00 0.00 0.00 2.85
2656 2876 6.409695 GGACATGATCTGGGATTAAGGAAAGA 60.410 42.308 0.00 0.00 0.00 2.52
2657 2877 5.767168 GGACATGATCTGGGATTAAGGAAAG 59.233 44.000 0.00 0.00 0.00 2.62
2658 2878 5.399038 GGGACATGATCTGGGATTAAGGAAA 60.399 44.000 0.00 0.00 0.00 3.13
2659 2879 4.104738 GGGACATGATCTGGGATTAAGGAA 59.895 45.833 0.00 0.00 0.00 3.36
2660 2880 3.652869 GGGACATGATCTGGGATTAAGGA 59.347 47.826 0.00 0.00 0.00 3.36
2661 2881 3.245052 GGGGACATGATCTGGGATTAAGG 60.245 52.174 0.00 0.00 0.00 2.69
2662 2882 3.395607 TGGGGACATGATCTGGGATTAAG 59.604 47.826 0.00 0.00 33.40 1.85
2663 2883 3.402353 TGGGGACATGATCTGGGATTAA 58.598 45.455 0.00 0.00 33.40 1.40
2664 2884 3.073411 TGGGGACATGATCTGGGATTA 57.927 47.619 0.00 0.00 33.40 1.75
2665 2885 1.911454 TGGGGACATGATCTGGGATT 58.089 50.000 0.00 0.00 33.40 3.01
2666 2886 1.496429 GTTGGGGACATGATCTGGGAT 59.504 52.381 0.00 0.00 42.32 3.85
2667 2887 0.918983 GTTGGGGACATGATCTGGGA 59.081 55.000 0.00 0.00 42.32 4.37
2668 2888 0.106519 GGTTGGGGACATGATCTGGG 60.107 60.000 0.00 0.00 42.32 4.45
2669 2889 0.106519 GGGTTGGGGACATGATCTGG 60.107 60.000 0.00 0.00 42.32 3.86
2670 2890 0.106519 GGGGTTGGGGACATGATCTG 60.107 60.000 0.00 0.00 42.32 2.90
2671 2891 0.552367 TGGGGTTGGGGACATGATCT 60.552 55.000 0.00 0.00 42.32 2.75
2672 2892 0.557729 ATGGGGTTGGGGACATGATC 59.442 55.000 0.00 0.00 42.32 2.92
2673 2893 1.018031 AATGGGGTTGGGGACATGAT 58.982 50.000 0.00 0.00 42.32 2.45
2674 2894 0.789687 AAATGGGGTTGGGGACATGA 59.210 50.000 0.00 0.00 42.32 3.07
2675 2895 2.292192 ACTAAATGGGGTTGGGGACATG 60.292 50.000 0.00 0.00 42.32 3.21
2676 2896 2.007636 ACTAAATGGGGTTGGGGACAT 58.992 47.619 0.00 0.00 42.32 3.06
2677 2897 1.462426 ACTAAATGGGGTTGGGGACA 58.538 50.000 0.00 0.00 39.83 4.02
2678 2898 3.053170 ACATACTAAATGGGGTTGGGGAC 60.053 47.826 0.00 0.00 0.00 4.46
2679 2899 3.203059 ACATACTAAATGGGGTTGGGGA 58.797 45.455 0.00 0.00 0.00 4.81
2680 2900 3.680777 ACATACTAAATGGGGTTGGGG 57.319 47.619 0.00 0.00 0.00 4.96
2681 2901 4.079672 TGGTACATACTAAATGGGGTTGGG 60.080 45.833 0.00 0.00 0.00 4.12
2682 2902 5.118729 TGGTACATACTAAATGGGGTTGG 57.881 43.478 0.00 0.00 0.00 3.77
2699 2919 3.802675 GCCAAATACGGGAGAGATGGTAC 60.803 52.174 0.00 0.00 0.00 3.34
2700 2920 2.367567 GCCAAATACGGGAGAGATGGTA 59.632 50.000 0.00 0.00 0.00 3.25
2701 2921 1.141053 GCCAAATACGGGAGAGATGGT 59.859 52.381 0.00 0.00 0.00 3.55
2702 2922 1.873903 CGCCAAATACGGGAGAGATGG 60.874 57.143 0.00 0.00 0.00 3.51
2703 2923 1.068588 TCGCCAAATACGGGAGAGATG 59.931 52.381 0.00 0.00 30.37 2.90
2704 2924 1.410004 TCGCCAAATACGGGAGAGAT 58.590 50.000 0.00 0.00 30.37 2.75
2705 2925 2.890612 TCGCCAAATACGGGAGAGA 58.109 52.632 0.00 0.00 30.37 3.10
2706 2926 3.274393 CTCGCCAAATACGGGAGAG 57.726 57.895 0.00 0.00 44.12 3.20
2707 2927 1.143183 GCTCGCCAAATACGGGAGA 59.857 57.895 6.12 0.00 41.51 3.71
2708 2928 0.742990 TTGCTCGCCAAATACGGGAG 60.743 55.000 0.00 0.00 41.80 4.30
2709 2929 1.022451 GTTGCTCGCCAAATACGGGA 61.022 55.000 0.00 0.00 34.68 5.14
2710 2930 1.024579 AGTTGCTCGCCAAATACGGG 61.025 55.000 0.00 0.00 34.68 5.28
2711 2931 0.802494 AAGTTGCTCGCCAAATACGG 59.198 50.000 0.00 0.00 34.68 4.02
2712 2932 2.241722 CAAAGTTGCTCGCCAAATACG 58.758 47.619 0.00 0.00 34.68 3.06


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

AutoCloner maintained by Alex Coulton.