Multiple sequence alignment - TraesCS1D01G405700

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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 TraesCS1D01G405700 chr1D 100.000 2855 0 0 1 2855 470045728 470042874 0.000000e+00 5273.0
1 TraesCS1D01G405700 chr1D 91.497 294 14 4 2567 2855 3624592 3624305 7.410000e-106 394.0
2 TraesCS1D01G405700 chr1D 80.603 531 84 15 1584 2097 470034374 470033846 2.670000e-105 392.0
3 TraesCS1D01G405700 chr1B 92.474 2591 142 23 1 2569 652303232 652300673 0.000000e+00 3655.0
4 TraesCS1D01G405700 chr1B 80.597 134 19 5 59 191 308616223 308616096 2.340000e-16 97.1
5 TraesCS1D01G405700 chr1B 84.043 94 11 2 56 149 49872266 49872355 1.410000e-13 87.9
6 TraesCS1D01G405700 chr1A 92.418 2361 126 19 1 2334 563610982 563608648 0.000000e+00 3319.0
7 TraesCS1D01G405700 chr1A 75.689 798 136 34 1322 2097 563606418 563605657 2.110000e-91 346.0
8 TraesCS1D01G405700 chr1A 93.258 178 12 0 2392 2569 563608652 563608475 2.180000e-66 263.0
9 TraesCS1D01G405700 chr2D 94.810 289 15 0 2567 2855 610270960 610271248 4.340000e-123 451.0
10 TraesCS1D01G405700 chr2D 94.792 288 15 0 2568 2855 610265372 610265659 1.560000e-122 449.0
11 TraesCS1D01G405700 chr2D 91.973 299 14 6 2567 2855 533865476 533865178 7.360000e-111 411.0
12 TraesCS1D01G405700 chr2D 91.582 297 17 4 2567 2855 52528833 52528537 1.230000e-108 403.0
13 TraesCS1D01G405700 chr6D 93.772 289 11 5 2567 2855 35465932 35465651 7.310000e-116 427.0
14 TraesCS1D01G405700 chr6D 89.831 59 6 0 61 119 321125554 321125612 3.050000e-10 76.8
15 TraesCS1D01G405700 chr6D 79.787 94 15 2 56 149 419772062 419772151 6.600000e-07 65.8
16 TraesCS1D01G405700 chr3D 92.491 293 17 2 2568 2855 462458231 462458523 5.690000e-112 414.0
17 TraesCS1D01G405700 chr3D 91.639 299 15 7 2567 2855 462463475 462463773 3.430000e-109 405.0
18 TraesCS1D01G405700 chr3D 75.665 263 40 19 60 310 600174922 600175172 3.010000e-20 110.0
19 TraesCS1D01G405700 chr4D 91.497 294 18 3 2567 2855 441066644 441066353 5.730000e-107 398.0
20 TraesCS1D01G405700 chr7A 84.553 123 14 5 2448 2569 650607882 650607764 1.800000e-22 117.0
21 TraesCS1D01G405700 chr7A 77.536 138 23 5 56 191 543618442 543618573 3.050000e-10 76.8
22 TraesCS1D01G405700 chr5B 80.769 104 16 1 59 162 34568846 34568747 8.480000e-11 78.7
23 TraesCS1D01G405700 chr7D 76.471 136 28 2 56 191 626898967 626899098 1.420000e-08 71.3


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 TraesCS1D01G405700 chr1D 470042874 470045728 2854 True 5273.000000 5273 100.000000 1 2855 1 chr1D.!!$R3 2854
1 TraesCS1D01G405700 chr1D 470033846 470034374 528 True 392.000000 392 80.603000 1584 2097 1 chr1D.!!$R2 513
2 TraesCS1D01G405700 chr1B 652300673 652303232 2559 True 3655.000000 3655 92.474000 1 2569 1 chr1B.!!$R2 2568
3 TraesCS1D01G405700 chr1A 563605657 563610982 5325 True 1309.333333 3319 87.121667 1 2569 3 chr1A.!!$R1 2568

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
819 828 0.24445 ACATGGCTGGCACGATTTTG 59.756 50.0 5.88 2.09 0.0 2.44 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2281 2340 0.036732 CACCACCACTGTGCTACCAT 59.963 55.0 1.29 0.0 41.35 3.55 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 5.770162 AGATACCTTAGTTTGTGCTTTGCTT 59.230 36.000 0.00 0.00 0.00 3.91
42 43 2.124942 GCTTGGCCTTCGAGAGGG 60.125 66.667 3.32 6.35 46.40 4.30
142 143 5.485662 CATAGGTGCTTAGCCTTTTGTAC 57.514 43.478 0.29 0.00 37.54 2.90
157 158 5.768164 CCTTTTGTACCTAAGCTTCCTTCAA 59.232 40.000 0.00 1.13 32.47 2.69
214 215 5.450592 TGTGTTTTGCATAGATTTGCTCA 57.549 34.783 0.00 0.00 43.18 4.26
232 233 3.494626 GCTCACTTGACATCGTTTCTTCA 59.505 43.478 0.00 0.00 0.00 3.02
335 336 2.076863 GCGCTGAGAAAAGCCTAAAGA 58.923 47.619 0.00 0.00 40.23 2.52
410 413 2.137810 TGCATTACCAACCCCTAAGC 57.862 50.000 0.00 0.00 0.00 3.09
459 462 6.563422 CGGATGGATTGATACAAACATGTTT 58.437 36.000 18.13 18.13 0.00 2.83
498 501 6.492429 CCACAACCATCATCTTTATCATCCAT 59.508 38.462 0.00 0.00 0.00 3.41
499 502 7.368059 CACAACCATCATCTTTATCATCCATG 58.632 38.462 0.00 0.00 0.00 3.66
558 563 1.404047 CCATAAGGTTGCCTTTTGCCG 60.404 52.381 5.69 0.00 41.69 5.69
656 663 7.719633 GGTCCAATATTTGTCCATAAGCTCTTA 59.280 37.037 0.00 0.00 0.00 2.10
691 700 7.847096 TGTTTAAGGAGTGATATGCAACTAGA 58.153 34.615 0.00 0.00 0.00 2.43
723 732 1.472990 GCTGTTGCGTGTGGTTAAAC 58.527 50.000 0.00 0.00 0.00 2.01
812 821 1.506262 CGGTTTACATGGCTGGCAC 59.494 57.895 5.88 0.00 0.00 5.01
818 827 1.832883 TACATGGCTGGCACGATTTT 58.167 45.000 5.88 0.00 0.00 1.82
819 828 0.244450 ACATGGCTGGCACGATTTTG 59.756 50.000 5.88 2.09 0.00 2.44
822 831 1.006337 GGCTGGCACGATTTTGCAA 60.006 52.632 0.00 0.00 44.94 4.08
897 913 1.802636 GTGAACATCCCACATGCCG 59.197 57.895 0.00 0.00 34.81 5.69
944 960 2.114616 CCATCCAAGCCTAGTCTCAGT 58.885 52.381 0.00 0.00 0.00 3.41
965 981 5.025453 AGTAATCCATCAACCAAAGCCATT 58.975 37.500 0.00 0.00 0.00 3.16
967 983 6.840705 AGTAATCCATCAACCAAAGCCATTAT 59.159 34.615 0.00 0.00 0.00 1.28
968 984 8.004215 AGTAATCCATCAACCAAAGCCATTATA 58.996 33.333 0.00 0.00 0.00 0.98
969 985 6.655078 ATCCATCAACCAAAGCCATTATAC 57.345 37.500 0.00 0.00 0.00 1.47
970 986 5.765510 TCCATCAACCAAAGCCATTATACT 58.234 37.500 0.00 0.00 0.00 2.12
971 987 6.194235 TCCATCAACCAAAGCCATTATACTT 58.806 36.000 0.00 0.00 0.00 2.24
972 988 6.321181 TCCATCAACCAAAGCCATTATACTTC 59.679 38.462 0.00 0.00 0.00 3.01
973 989 6.322201 CCATCAACCAAAGCCATTATACTTCT 59.678 38.462 0.00 0.00 0.00 2.85
974 990 7.147846 CCATCAACCAAAGCCATTATACTTCTT 60.148 37.037 0.00 0.00 0.00 2.52
1132 1148 1.228124 TGCTACAACCTTTGCCGCT 60.228 52.632 0.00 0.00 32.45 5.52
1156 1172 2.704572 GTGGTGCTCAGAAGTTATGCT 58.295 47.619 0.00 0.00 0.00 3.79
1160 1176 3.126000 GGTGCTCAGAAGTTATGCTCAAC 59.874 47.826 0.00 0.00 0.00 3.18
1206 1222 1.384191 CCTAAGCTGCCCCAAAGGT 59.616 57.895 0.00 0.00 38.26 3.50
1427 1445 7.222872 TGCCATGAATAATTTTCCACAAGTTT 58.777 30.769 0.00 0.00 0.00 2.66
1510 1528 7.616528 TGATAGAGACCATGTGAATATCCAA 57.383 36.000 0.00 0.00 0.00 3.53
1511 1529 8.033178 TGATAGAGACCATGTGAATATCCAAA 57.967 34.615 0.00 0.00 0.00 3.28
1512 1530 8.493607 TGATAGAGACCATGTGAATATCCAAAA 58.506 33.333 0.00 0.00 0.00 2.44
1513 1531 8.682936 ATAGAGACCATGTGAATATCCAAAAC 57.317 34.615 0.00 0.00 0.00 2.43
1514 1532 6.484288 AGAGACCATGTGAATATCCAAAACA 58.516 36.000 0.00 0.00 0.00 2.83
1515 1533 7.121382 AGAGACCATGTGAATATCCAAAACAT 58.879 34.615 0.00 0.00 31.79 2.71
1516 1534 7.284034 AGAGACCATGTGAATATCCAAAACATC 59.716 37.037 0.00 0.00 29.20 3.06
1549 1574 7.841282 TGTAACTGGGGAATTATTTGTTTCA 57.159 32.000 0.00 0.00 0.00 2.69
1552 1577 7.610580 AACTGGGGAATTATTTGTTTCAGAA 57.389 32.000 0.00 0.00 0.00 3.02
1672 1697 3.482436 TGGTCAACGCAGGTAAAGAAAT 58.518 40.909 0.00 0.00 0.00 2.17
1797 1837 5.391312 AACTCTATGTGGAAAATTGTGGC 57.609 39.130 0.00 0.00 0.00 5.01
1839 1879 2.673523 GGTGATGCTGGCCTCACT 59.326 61.111 22.80 2.62 40.07 3.41
1958 1998 3.391296 AGTATCCAAACCAGTGTGTCACT 59.609 43.478 4.27 0.00 46.51 3.41
2091 2139 6.039605 TGTTGTATCATTTGCCTGTGGATATG 59.960 38.462 0.00 0.00 0.00 1.78
2298 2357 1.453155 GAATGGTAGCACAGTGGTGG 58.547 55.000 15.78 0.00 45.38 4.61
2306 2365 0.464735 GCACAGTGGTGGTGTTGGTA 60.465 55.000 1.84 0.00 45.38 3.25
2355 2414 1.140589 CACGGGCAGCAGACTAGAG 59.859 63.158 0.00 0.00 0.00 2.43
2456 2515 0.693092 AGTAGTGGTGGTGGTGGTGT 60.693 55.000 0.00 0.00 0.00 4.16
2499 2558 3.567579 ATGGTGTTGTGGAGGCCGG 62.568 63.158 0.00 0.00 0.00 6.13
2534 2593 1.539496 CCTTCTGGTTTGGTTCGTCGA 60.539 52.381 0.00 0.00 0.00 4.20
2545 2604 3.135225 TGGTTCGTCGATGTTGATGTTT 58.865 40.909 4.21 0.00 0.00 2.83
2569 2628 4.822628 GCCTGGCCCCTACCTTGC 62.823 72.222 7.66 0.00 0.00 4.01
2570 2629 3.017581 CCTGGCCCCTACCTTGCT 61.018 66.667 0.00 0.00 0.00 3.91
2571 2630 2.273449 CTGGCCCCTACCTTGCTG 59.727 66.667 0.00 0.00 0.00 4.41
2572 2631 3.338250 TGGCCCCTACCTTGCTGG 61.338 66.667 0.00 0.00 42.93 4.85
2574 2633 2.612493 GGCCCCTACCTTGCTGGAA 61.612 63.158 0.00 0.00 39.71 3.53
2575 2634 1.615262 GCCCCTACCTTGCTGGAAT 59.385 57.895 3.40 0.00 39.71 3.01
2576 2635 0.033109 GCCCCTACCTTGCTGGAATT 60.033 55.000 3.40 0.00 39.71 2.17
2577 2636 1.619704 GCCCCTACCTTGCTGGAATTT 60.620 52.381 3.40 0.00 39.71 1.82
2579 2638 3.880117 GCCCCTACCTTGCTGGAATTTTA 60.880 47.826 3.40 0.00 39.71 1.52
2580 2639 4.546674 CCCCTACCTTGCTGGAATTTTAT 58.453 43.478 3.40 0.00 39.71 1.40
2582 2641 5.449553 CCCTACCTTGCTGGAATTTTATCT 58.550 41.667 3.40 0.00 39.71 1.98
2584 2643 7.234355 CCCTACCTTGCTGGAATTTTATCTAT 58.766 38.462 3.40 0.00 39.71 1.98
2585 2644 7.725844 CCCTACCTTGCTGGAATTTTATCTATT 59.274 37.037 3.40 0.00 39.71 1.73
2586 2645 9.136323 CCTACCTTGCTGGAATTTTATCTATTT 57.864 33.333 3.40 0.00 39.71 1.40
2590 2649 9.918630 CCTTGCTGGAATTTTATCTATTTATGG 57.081 33.333 0.00 0.00 38.35 2.74
2592 2651 7.895759 TGCTGGAATTTTATCTATTTATGGGC 58.104 34.615 0.00 0.00 0.00 5.36
2595 2654 9.753674 CTGGAATTTTATCTATTTATGGGCCTA 57.246 33.333 4.53 0.00 0.00 3.93
2596 2655 9.753674 TGGAATTTTATCTATTTATGGGCCTAG 57.246 33.333 4.53 0.00 0.00 3.02
2597 2656 8.687242 GGAATTTTATCTATTTATGGGCCTAGC 58.313 37.037 4.53 0.00 0.00 3.42
2612 2671 4.725490 GGCCTAGCCCAGTAATAATTTCA 58.275 43.478 0.00 0.00 44.06 2.69
2613 2672 4.762251 GGCCTAGCCCAGTAATAATTTCAG 59.238 45.833 0.00 0.00 44.06 3.02
2614 2673 5.456186 GGCCTAGCCCAGTAATAATTTCAGA 60.456 44.000 0.00 0.00 44.06 3.27
2618 4833 9.136323 CCTAGCCCAGTAATAATTTCAGAAATT 57.864 33.333 22.03 22.03 43.19 1.82
2620 4835 8.011844 AGCCCAGTAATAATTTCAGAAATTCC 57.988 34.615 22.02 10.57 41.16 3.01
2621 4836 7.841222 AGCCCAGTAATAATTTCAGAAATTCCT 59.159 33.333 22.02 13.76 41.16 3.36
2639 4854 8.492415 AAATTCCTAATAAATCCTAAAGGCCC 57.508 34.615 0.00 0.00 34.44 5.80
2640 4855 6.599986 TTCCTAATAAATCCTAAAGGCCCA 57.400 37.500 0.00 0.00 34.44 5.36
2641 4856 6.796867 TCCTAATAAATCCTAAAGGCCCAT 57.203 37.500 0.00 0.00 34.44 4.00
2642 4857 7.174363 TCCTAATAAATCCTAAAGGCCCATT 57.826 36.000 0.00 0.00 34.44 3.16
2643 4858 7.601017 TCCTAATAAATCCTAAAGGCCCATTT 58.399 34.615 0.00 0.00 34.44 2.32
2645 4860 9.025041 CCTAATAAATCCTAAAGGCCCATTTAG 57.975 37.037 14.71 14.71 40.79 1.85
2646 4861 6.918067 ATAAATCCTAAAGGCCCATTTAGC 57.082 37.500 15.78 0.00 40.11 3.09
2653 4868 2.041153 GGCCCATTTAGCCCATTCG 58.959 57.895 0.00 0.00 45.16 3.34
2654 4869 0.755327 GGCCCATTTAGCCCATTCGT 60.755 55.000 0.00 0.00 45.16 3.85
2655 4870 0.385390 GCCCATTTAGCCCATTCGTG 59.615 55.000 0.00 0.00 0.00 4.35
2656 4871 0.385390 CCCATTTAGCCCATTCGTGC 59.615 55.000 0.00 0.00 0.00 5.34
2657 4872 1.102154 CCATTTAGCCCATTCGTGCA 58.898 50.000 0.00 0.00 0.00 4.57
2658 4873 1.476085 CCATTTAGCCCATTCGTGCAA 59.524 47.619 0.00 0.00 0.00 4.08
2660 4875 1.173043 TTTAGCCCATTCGTGCAAGG 58.827 50.000 0.00 0.00 0.00 3.61
2663 4878 2.929903 GCCCATTCGTGCAAGGCAA 61.930 57.895 0.00 0.00 41.47 4.52
2664 4879 1.213537 CCCATTCGTGCAAGGCAAG 59.786 57.895 0.00 0.00 41.47 4.01
2665 4880 1.213537 CCATTCGTGCAAGGCAAGG 59.786 57.895 0.00 0.00 41.47 3.61
2666 4881 1.213537 CATTCGTGCAAGGCAAGGG 59.786 57.895 0.00 0.00 41.47 3.95
2667 4882 1.074775 ATTCGTGCAAGGCAAGGGA 59.925 52.632 0.00 0.00 41.47 4.20
2668 4883 1.244019 ATTCGTGCAAGGCAAGGGAC 61.244 55.000 0.00 0.00 41.47 4.46
2670 4885 2.908073 CGTGCAAGGCAAGGGACAC 61.908 63.158 0.00 0.00 41.47 3.67
2671 4886 1.529244 GTGCAAGGCAAGGGACACT 60.529 57.895 0.00 0.00 41.47 3.55
2672 4887 0.250727 GTGCAAGGCAAGGGACACTA 60.251 55.000 0.00 0.00 41.47 2.74
2673 4888 0.250727 TGCAAGGCAAGGGACACTAC 60.251 55.000 0.00 0.00 34.76 2.73
2674 4889 0.036875 GCAAGGCAAGGGACACTACT 59.963 55.000 0.00 0.00 0.00 2.57
2675 4890 1.278127 GCAAGGCAAGGGACACTACTA 59.722 52.381 0.00 0.00 0.00 1.82
2676 4891 2.290071 GCAAGGCAAGGGACACTACTAA 60.290 50.000 0.00 0.00 0.00 2.24
2678 4893 3.983044 AGGCAAGGGACACTACTAAAG 57.017 47.619 0.00 0.00 0.00 1.85
2681 4896 4.104261 AGGCAAGGGACACTACTAAAGTTT 59.896 41.667 0.00 0.00 35.76 2.66
2682 4897 5.308759 AGGCAAGGGACACTACTAAAGTTTA 59.691 40.000 0.00 0.00 35.76 2.01
2683 4898 5.642491 GGCAAGGGACACTACTAAAGTTTAG 59.358 44.000 19.07 19.07 35.76 1.85
2684 4899 5.121925 GCAAGGGACACTACTAAAGTTTAGC 59.878 44.000 20.31 5.12 35.76 3.09
2685 4900 5.417754 AGGGACACTACTAAAGTTTAGCC 57.582 43.478 20.31 12.69 35.76 3.93
2686 4901 4.224594 AGGGACACTACTAAAGTTTAGCCC 59.775 45.833 20.31 19.49 35.76 5.19
2688 4903 4.019950 GGACACTACTAAAGTTTAGCCCCA 60.020 45.833 20.31 5.00 35.76 4.96
2690 4905 4.348754 ACACTACTAAAGTTTAGCCCCACA 59.651 41.667 20.31 1.37 35.76 4.17
2691 4906 5.013808 ACACTACTAAAGTTTAGCCCCACAT 59.986 40.000 20.31 4.15 35.76 3.21
2692 4907 5.944007 CACTACTAAAGTTTAGCCCCACATT 59.056 40.000 20.31 3.50 35.76 2.71
2693 4908 5.944007 ACTACTAAAGTTTAGCCCCACATTG 59.056 40.000 20.31 5.18 33.35 2.82
2695 4910 1.266178 AAGTTTAGCCCCACATTGCC 58.734 50.000 0.00 0.00 0.00 4.52
2697 4912 0.532115 GTTTAGCCCCACATTGCCAG 59.468 55.000 0.00 0.00 0.00 4.85
2700 4915 0.114168 TAGCCCCACATTGCCAGTTT 59.886 50.000 0.00 0.00 0.00 2.66
2701 4916 0.114168 AGCCCCACATTGCCAGTTTA 59.886 50.000 0.00 0.00 0.00 2.01
2702 4917 0.532115 GCCCCACATTGCCAGTTTAG 59.468 55.000 0.00 0.00 0.00 1.85
2703 4918 1.890573 GCCCCACATTGCCAGTTTAGA 60.891 52.381 0.00 0.00 0.00 2.10
2704 4919 2.094675 CCCCACATTGCCAGTTTAGAG 58.905 52.381 0.00 0.00 0.00 2.43
2705 4920 2.094675 CCCACATTGCCAGTTTAGAGG 58.905 52.381 0.00 0.00 0.00 3.69
2707 4922 2.290896 CCACATTGCCAGTTTAGAGGGA 60.291 50.000 0.00 0.00 0.00 4.20
2708 4923 3.012518 CACATTGCCAGTTTAGAGGGAG 58.987 50.000 0.00 0.00 0.00 4.30
2709 4924 2.644798 ACATTGCCAGTTTAGAGGGAGT 59.355 45.455 0.00 0.00 0.00 3.85
2710 4925 3.074538 ACATTGCCAGTTTAGAGGGAGTT 59.925 43.478 0.00 0.00 0.00 3.01
2711 4926 2.859165 TGCCAGTTTAGAGGGAGTTG 57.141 50.000 0.00 0.00 0.00 3.16
2712 4927 1.351017 TGCCAGTTTAGAGGGAGTTGG 59.649 52.381 0.00 0.00 0.00 3.77
2713 4928 1.628846 GCCAGTTTAGAGGGAGTTGGA 59.371 52.381 0.00 0.00 0.00 3.53
2714 4929 2.615747 GCCAGTTTAGAGGGAGTTGGAC 60.616 54.545 0.00 0.00 0.00 4.02
2715 4930 2.027100 CCAGTTTAGAGGGAGTTGGACC 60.027 54.545 0.00 0.00 0.00 4.46
2716 4931 2.907042 CAGTTTAGAGGGAGTTGGACCT 59.093 50.000 0.00 0.00 40.54 3.85
2724 4939 3.803340 AGGGAGTTGGACCTCTTTATGA 58.197 45.455 0.00 0.00 28.88 2.15
2725 4940 3.777522 AGGGAGTTGGACCTCTTTATGAG 59.222 47.826 0.00 0.00 42.30 2.90
2738 4953 5.432645 CTCTTTATGAGGGAGGTTCTTTCC 58.567 45.833 0.00 0.00 39.08 3.13
2747 4962 4.042271 GGAGGTTCTTTCCCCATTTGTA 57.958 45.455 0.00 0.00 0.00 2.41
2749 4964 4.402474 GGAGGTTCTTTCCCCATTTGTATG 59.598 45.833 0.00 0.00 0.00 2.39
2750 4965 5.261216 GAGGTTCTTTCCCCATTTGTATGA 58.739 41.667 0.00 0.00 33.37 2.15
2753 4968 6.011981 AGGTTCTTTCCCCATTTGTATGAGTA 60.012 38.462 0.00 0.00 33.37 2.59
2755 4970 7.201821 GGTTCTTTCCCCATTTGTATGAGTATG 60.202 40.741 0.00 0.00 33.37 2.39
2756 4971 7.206789 TCTTTCCCCATTTGTATGAGTATGA 57.793 36.000 0.00 0.00 33.37 2.15
2757 4972 7.282585 TCTTTCCCCATTTGTATGAGTATGAG 58.717 38.462 0.00 0.00 33.37 2.90
2758 4973 6.823286 TTCCCCATTTGTATGAGTATGAGA 57.177 37.500 0.00 0.00 33.37 3.27
2759 4974 6.823286 TCCCCATTTGTATGAGTATGAGAA 57.177 37.500 0.00 0.00 33.37 2.87
2760 4975 6.591935 TCCCCATTTGTATGAGTATGAGAAC 58.408 40.000 0.00 0.00 33.37 3.01
2761 4976 6.157820 TCCCCATTTGTATGAGTATGAGAACA 59.842 38.462 0.00 0.00 33.37 3.18
2762 4977 6.828273 CCCCATTTGTATGAGTATGAGAACAA 59.172 38.462 0.00 0.00 33.37 2.83
2763 4978 7.012704 CCCCATTTGTATGAGTATGAGAACAAG 59.987 40.741 0.00 0.00 33.37 3.16
2764 4979 7.770433 CCCATTTGTATGAGTATGAGAACAAGA 59.230 37.037 0.00 0.00 33.37 3.02
2765 4980 8.824781 CCATTTGTATGAGTATGAGAACAAGAG 58.175 37.037 0.00 0.00 33.37 2.85
2766 4981 8.824781 CATTTGTATGAGTATGAGAACAAGAGG 58.175 37.037 0.00 0.00 33.37 3.69
2767 4982 6.471233 TGTATGAGTATGAGAACAAGAGGG 57.529 41.667 0.00 0.00 0.00 4.30
2769 4984 5.606348 ATGAGTATGAGAACAAGAGGGAC 57.394 43.478 0.00 0.00 0.00 4.46
2770 4985 4.416516 TGAGTATGAGAACAAGAGGGACA 58.583 43.478 0.00 0.00 0.00 4.02
2772 4987 5.127845 TGAGTATGAGAACAAGAGGGACATC 59.872 44.000 0.00 0.00 0.00 3.06
2773 4988 3.922171 ATGAGAACAAGAGGGACATCC 57.078 47.619 0.00 0.00 0.00 3.51
2774 4989 2.619931 TGAGAACAAGAGGGACATCCA 58.380 47.619 0.00 0.00 38.24 3.41
2776 4991 1.276421 AGAACAAGAGGGACATCCACG 59.724 52.381 0.00 0.00 38.24 4.94
2777 4992 0.321653 AACAAGAGGGACATCCACGC 60.322 55.000 0.00 0.00 38.24 5.34
2778 4993 1.811266 CAAGAGGGACATCCACGCG 60.811 63.158 3.53 3.53 38.24 6.01
2779 4994 3.665675 AAGAGGGACATCCACGCGC 62.666 63.158 5.73 0.00 38.24 6.86
2826 5041 3.439540 CCACGGGTTGCGGGAATG 61.440 66.667 0.00 0.00 0.00 2.67
2827 5042 2.359354 CACGGGTTGCGGGAATGA 60.359 61.111 0.00 0.00 0.00 2.57
2828 5043 2.046314 ACGGGTTGCGGGAATGAG 60.046 61.111 0.00 0.00 0.00 2.90
2829 5044 3.508840 CGGGTTGCGGGAATGAGC 61.509 66.667 0.00 0.00 0.00 4.26
2830 5045 3.140814 GGGTTGCGGGAATGAGCC 61.141 66.667 0.00 0.00 0.00 4.70
2832 5047 1.976474 GGTTGCGGGAATGAGCCAA 60.976 57.895 0.00 0.00 0.00 4.52
2834 5049 0.179129 GTTGCGGGAATGAGCCAATG 60.179 55.000 0.00 0.00 0.00 2.82
2835 5050 0.611618 TTGCGGGAATGAGCCAATGT 60.612 50.000 0.00 0.00 0.00 2.71
2836 5051 1.031571 TGCGGGAATGAGCCAATGTC 61.032 55.000 0.00 0.00 0.00 3.06
2838 5053 1.475034 GCGGGAATGAGCCAATGTCTA 60.475 52.381 0.00 0.00 0.00 2.59
2841 5056 3.885297 CGGGAATGAGCCAATGTCTAAAT 59.115 43.478 0.00 0.00 0.00 1.40
2842 5057 4.339247 CGGGAATGAGCCAATGTCTAAATT 59.661 41.667 0.00 0.00 0.00 1.82
2843 5058 5.163519 CGGGAATGAGCCAATGTCTAAATTT 60.164 40.000 0.00 0.00 0.00 1.82
2846 5061 7.064966 GGGAATGAGCCAATGTCTAAATTTTTG 59.935 37.037 0.00 0.00 0.00 2.44
2847 5062 6.973229 ATGAGCCAATGTCTAAATTTTTGC 57.027 33.333 0.00 0.00 0.00 3.68
2848 5063 5.237048 TGAGCCAATGTCTAAATTTTTGCC 58.763 37.500 0.00 0.00 0.00 4.52
2849 5064 5.221601 TGAGCCAATGTCTAAATTTTTGCCA 60.222 36.000 0.00 0.00 0.00 4.92
2851 5066 4.143137 GCCAATGTCTAAATTTTTGCCACG 60.143 41.667 0.00 0.00 0.00 4.94
2852 5067 4.143137 CCAATGTCTAAATTTTTGCCACGC 60.143 41.667 0.00 0.00 0.00 5.34
2853 5068 3.717400 TGTCTAAATTTTTGCCACGCA 57.283 38.095 0.00 0.00 36.47 5.24
2854 5069 3.376540 TGTCTAAATTTTTGCCACGCAC 58.623 40.909 0.00 0.00 38.71 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 1.229209 AGAACCCTCTCGAAGGCCA 60.229 57.895 5.01 0.00 44.71 5.36
106 107 1.707106 CCTATGCATGCATTGGGGAA 58.293 50.000 38.24 21.60 42.70 3.97
148 149 9.474920 TGTTGCTAAACAATTAATTGAAGGAAG 57.525 29.630 30.18 19.64 43.32 3.46
180 181 3.119065 TGCAAAACACATATGCATGAGGG 60.119 43.478 10.16 5.10 44.52 4.30
214 215 3.679980 CCGATGAAGAAACGATGTCAAGT 59.320 43.478 0.00 0.00 0.00 3.16
286 287 4.486125 TGCTAAGAATGTCACATAGGCA 57.514 40.909 0.00 0.00 35.48 4.75
335 336 4.899352 AGCTAGTTCTTGTCCTCATGTT 57.101 40.909 0.00 0.00 0.00 2.71
410 413 2.672874 CCACAGTTCACATGGTATGTCG 59.327 50.000 0.00 0.00 42.70 4.35
459 462 1.265635 GTTGTGGAATACGTGCAAGCA 59.734 47.619 0.00 0.00 0.00 3.91
498 501 4.942852 AGAAATTTGGTTGAAATCGTGCA 58.057 34.783 0.00 0.00 32.76 4.57
499 502 5.222631 AGAGAAATTTGGTTGAAATCGTGC 58.777 37.500 0.00 0.00 32.76 5.34
558 563 1.580132 CTTTAATCACGCGCGGCAC 60.580 57.895 35.22 0.00 0.00 5.01
662 669 7.281774 AGTTGCATATCACTCCTTAAACATGAG 59.718 37.037 0.00 0.00 0.00 2.90
723 732 1.619654 TCCAAACTCCACTGGCAATG 58.380 50.000 0.00 0.00 32.33 2.82
897 913 4.423625 AGTTATAGGAGATGGTGGTTGC 57.576 45.455 0.00 0.00 0.00 4.17
944 960 8.004215 AGTATAATGGCTTTGGTTGATGGATTA 58.996 33.333 0.00 0.00 0.00 1.75
965 981 7.495934 GGCTATCTTGCAGAACAAAGAAGTATA 59.504 37.037 0.00 0.00 37.96 1.47
967 983 5.643777 GGCTATCTTGCAGAACAAAGAAGTA 59.356 40.000 0.00 0.00 37.96 2.24
968 984 4.457257 GGCTATCTTGCAGAACAAAGAAGT 59.543 41.667 0.00 0.00 37.96 3.01
969 985 4.699257 AGGCTATCTTGCAGAACAAAGAAG 59.301 41.667 0.00 0.00 37.96 2.85
970 986 4.456911 CAGGCTATCTTGCAGAACAAAGAA 59.543 41.667 0.00 0.00 37.96 2.52
971 987 4.005650 CAGGCTATCTTGCAGAACAAAGA 58.994 43.478 0.00 0.00 37.96 2.52
972 988 3.427233 GCAGGCTATCTTGCAGAACAAAG 60.427 47.826 0.00 0.00 37.96 2.77
973 989 2.489329 GCAGGCTATCTTGCAGAACAAA 59.511 45.455 0.00 0.00 37.96 2.83
974 990 2.086869 GCAGGCTATCTTGCAGAACAA 58.913 47.619 0.00 0.00 36.62 2.83
1097 1113 0.895559 GCAGTTTCTTCCCAGGGTGG 60.896 60.000 5.01 0.00 37.25 4.61
1132 1148 1.407656 AACTTCTGAGCACCACGGGA 61.408 55.000 0.00 0.00 0.00 5.14
1156 1172 3.638160 AGTTTACACCTACAGACGGTTGA 59.362 43.478 0.00 0.00 30.82 3.18
1160 1176 3.005050 TGTGAGTTTACACCTACAGACGG 59.995 47.826 0.00 0.00 39.69 4.79
1206 1222 3.181412 ACTCAAGGGCCAATTTAGGGAAA 60.181 43.478 6.18 0.00 0.00 3.13
1369 1387 8.310406 TCATCTAACGCCATCTAACATATTTG 57.690 34.615 0.00 0.00 0.00 2.32
1370 1388 9.155975 GATCATCTAACGCCATCTAACATATTT 57.844 33.333 0.00 0.00 0.00 1.40
1478 1496 7.370905 TCACATGGTCTCTATCATTCATTCT 57.629 36.000 0.00 0.00 0.00 2.40
1482 1500 8.316946 GGATATTCACATGGTCTCTATCATTCA 58.683 37.037 0.00 0.00 0.00 2.57
1510 1528 6.127366 CCCCAGTTACAATATGCTTGATGTTT 60.127 38.462 0.00 0.00 0.00 2.83
1511 1529 5.360714 CCCCAGTTACAATATGCTTGATGTT 59.639 40.000 0.00 0.00 0.00 2.71
1512 1530 4.889409 CCCCAGTTACAATATGCTTGATGT 59.111 41.667 0.00 0.00 0.00 3.06
1513 1531 5.132502 TCCCCAGTTACAATATGCTTGATG 58.867 41.667 0.00 0.00 0.00 3.07
1514 1532 5.387113 TCCCCAGTTACAATATGCTTGAT 57.613 39.130 0.00 0.00 0.00 2.57
1515 1533 4.853468 TCCCCAGTTACAATATGCTTGA 57.147 40.909 0.00 0.00 0.00 3.02
1516 1534 6.469782 AATTCCCCAGTTACAATATGCTTG 57.530 37.500 0.00 0.00 0.00 4.01
1549 1574 9.614792 ATCTAGCGTGTAAATAAAATCCTTTCT 57.385 29.630 0.00 0.00 0.00 2.52
1797 1837 4.151258 ACAGAAATTGACACAAGCATCG 57.849 40.909 0.00 0.00 0.00 3.84
1839 1879 2.618241 GCATCATTACGCATCAAGGGAA 59.382 45.455 0.00 0.00 0.00 3.97
1958 1998 7.809546 TGGAAATACACACACATAAAACAGA 57.190 32.000 0.00 0.00 0.00 3.41
2148 2196 2.825264 CCCCGATCTGAGCCCTTC 59.175 66.667 0.00 0.00 0.00 3.46
2281 2340 0.036732 CACCACCACTGTGCTACCAT 59.963 55.000 1.29 0.00 41.35 3.55
2298 2357 1.562575 CCAACGACGCCTACCAACAC 61.563 60.000 0.00 0.00 0.00 3.32
2349 2408 0.172803 CCGCCAACTAACGCTCTAGT 59.827 55.000 0.00 0.00 33.41 2.57
2355 2414 3.849953 CTCGCCGCCAACTAACGC 61.850 66.667 0.00 0.00 0.00 4.84
2456 2515 0.677731 GCTGCCTGCATAGGTGTTGA 60.678 55.000 0.00 0.00 46.41 3.18
2518 2577 1.508632 ACATCGACGAACCAAACCAG 58.491 50.000 0.00 0.00 0.00 4.00
2534 2593 0.609662 GCCCCTGCAAACATCAACAT 59.390 50.000 0.00 0.00 37.47 2.71
2569 2628 8.655935 AGGCCCATAAATAGATAAAATTCCAG 57.344 34.615 0.00 0.00 0.00 3.86
2570 2629 9.753674 CTAGGCCCATAAATAGATAAAATTCCA 57.246 33.333 0.00 0.00 0.00 3.53
2571 2630 8.687242 GCTAGGCCCATAAATAGATAAAATTCC 58.313 37.037 0.00 0.00 0.00 3.01
2572 2631 8.687242 GGCTAGGCCCATAAATAGATAAAATTC 58.313 37.037 4.61 0.00 44.06 2.17
2592 2651 8.697507 ATTTCTGAAATTATTACTGGGCTAGG 57.302 34.615 9.76 0.00 0.00 3.02
2595 2654 7.841222 AGGAATTTCTGAAATTATTACTGGGCT 59.159 33.333 24.02 2.40 40.97 5.19
2596 2655 8.011844 AGGAATTTCTGAAATTATTACTGGGC 57.988 34.615 24.02 11.10 40.97 5.36
2612 2671 9.368416 GGCCTTTAGGATTTATTAGGAATTTCT 57.632 33.333 0.00 0.00 37.39 2.52
2613 2672 8.585881 GGGCCTTTAGGATTTATTAGGAATTTC 58.414 37.037 0.84 0.00 37.39 2.17
2614 2673 8.071229 TGGGCCTTTAGGATTTATTAGGAATTT 58.929 33.333 4.53 0.00 37.39 1.82
2618 4833 6.796867 ATGGGCCTTTAGGATTTATTAGGA 57.203 37.500 4.53 0.00 37.39 2.94
2620 4835 8.523658 GCTAAATGGGCCTTTAGGATTTATTAG 58.476 37.037 24.31 13.51 38.55 1.73
2621 4836 7.453439 GGCTAAATGGGCCTTTAGGATTTATTA 59.547 37.037 24.31 6.14 45.57 0.98
2639 4854 2.480073 CCTTGCACGAATGGGCTAAATG 60.480 50.000 0.00 0.00 0.00 2.32
2640 4855 1.750778 CCTTGCACGAATGGGCTAAAT 59.249 47.619 0.00 0.00 0.00 1.40
2641 4856 1.173043 CCTTGCACGAATGGGCTAAA 58.827 50.000 0.00 0.00 0.00 1.85
2642 4857 1.312371 GCCTTGCACGAATGGGCTAA 61.312 55.000 0.00 0.00 39.68 3.09
2643 4858 1.748879 GCCTTGCACGAATGGGCTA 60.749 57.895 0.00 0.00 39.68 3.93
2645 4860 2.824071 CTTGCCTTGCACGAATGGGC 62.824 60.000 0.00 0.00 38.71 5.36
2646 4861 1.213537 CTTGCCTTGCACGAATGGG 59.786 57.895 0.00 0.00 38.71 4.00
2647 4862 1.213537 CCTTGCCTTGCACGAATGG 59.786 57.895 0.00 0.00 38.71 3.16
2650 4865 1.896660 GTCCCTTGCCTTGCACGAA 60.897 57.895 0.00 0.00 38.71 3.85
2651 4866 2.281484 GTCCCTTGCCTTGCACGA 60.281 61.111 0.00 0.00 38.71 4.35
2652 4867 2.594303 TGTCCCTTGCCTTGCACG 60.594 61.111 0.00 0.00 38.71 5.34
2653 4868 0.250727 TAGTGTCCCTTGCCTTGCAC 60.251 55.000 0.00 0.00 38.71 4.57
2654 4869 0.250727 GTAGTGTCCCTTGCCTTGCA 60.251 55.000 0.00 0.00 36.47 4.08
2655 4870 0.036875 AGTAGTGTCCCTTGCCTTGC 59.963 55.000 0.00 0.00 0.00 4.01
2656 4871 3.695830 TTAGTAGTGTCCCTTGCCTTG 57.304 47.619 0.00 0.00 0.00 3.61
2657 4872 3.651423 ACTTTAGTAGTGTCCCTTGCCTT 59.349 43.478 0.00 0.00 35.19 4.35
2658 4873 3.248888 ACTTTAGTAGTGTCCCTTGCCT 58.751 45.455 0.00 0.00 35.19 4.75
2660 4875 5.121925 GCTAAACTTTAGTAGTGTCCCTTGC 59.878 44.000 9.77 0.00 37.12 4.01
2663 4878 4.224594 GGGCTAAACTTTAGTAGTGTCCCT 59.775 45.833 9.77 0.00 37.12 4.20
2664 4879 4.511527 GGGCTAAACTTTAGTAGTGTCCC 58.488 47.826 9.77 7.03 37.12 4.46
2665 4880 4.019950 TGGGGCTAAACTTTAGTAGTGTCC 60.020 45.833 9.77 2.40 37.12 4.02
2666 4881 4.934001 GTGGGGCTAAACTTTAGTAGTGTC 59.066 45.833 9.77 0.00 37.12 3.67
2667 4882 4.348754 TGTGGGGCTAAACTTTAGTAGTGT 59.651 41.667 9.77 0.00 37.12 3.55
2668 4883 4.901868 TGTGGGGCTAAACTTTAGTAGTG 58.098 43.478 9.77 0.00 37.12 2.74
2670 4885 5.163652 GCAATGTGGGGCTAAACTTTAGTAG 60.164 44.000 9.77 0.00 0.00 2.57
2671 4886 4.703093 GCAATGTGGGGCTAAACTTTAGTA 59.297 41.667 9.77 0.00 0.00 1.82
2672 4887 3.509967 GCAATGTGGGGCTAAACTTTAGT 59.490 43.478 9.77 0.00 0.00 2.24
2673 4888 3.119137 GGCAATGTGGGGCTAAACTTTAG 60.119 47.826 4.39 4.39 0.00 1.85
2674 4889 2.829120 GGCAATGTGGGGCTAAACTTTA 59.171 45.455 0.00 0.00 0.00 1.85
2675 4890 1.623311 GGCAATGTGGGGCTAAACTTT 59.377 47.619 0.00 0.00 0.00 2.66
2676 4891 1.266178 GGCAATGTGGGGCTAAACTT 58.734 50.000 0.00 0.00 0.00 2.66
2678 4893 0.532115 CTGGCAATGTGGGGCTAAAC 59.468 55.000 0.00 0.00 0.00 2.01
2681 4896 0.114168 AAACTGGCAATGTGGGGCTA 59.886 50.000 0.00 0.00 0.00 3.93
2682 4897 0.114168 TAAACTGGCAATGTGGGGCT 59.886 50.000 0.00 0.00 0.00 5.19
2683 4898 0.532115 CTAAACTGGCAATGTGGGGC 59.468 55.000 0.00 0.00 0.00 5.80
2684 4899 2.094675 CTCTAAACTGGCAATGTGGGG 58.905 52.381 0.00 0.00 0.00 4.96
2685 4900 2.094675 CCTCTAAACTGGCAATGTGGG 58.905 52.381 0.00 0.00 0.00 4.61
2686 4901 2.094675 CCCTCTAAACTGGCAATGTGG 58.905 52.381 0.00 0.00 0.00 4.17
2688 4903 2.644798 ACTCCCTCTAAACTGGCAATGT 59.355 45.455 0.00 0.00 0.00 2.71
2690 4905 3.562176 CCAACTCCCTCTAAACTGGCAAT 60.562 47.826 0.00 0.00 0.00 3.56
2691 4906 2.224769 CCAACTCCCTCTAAACTGGCAA 60.225 50.000 0.00 0.00 0.00 4.52
2692 4907 1.351017 CCAACTCCCTCTAAACTGGCA 59.649 52.381 0.00 0.00 0.00 4.92
2693 4908 1.628846 TCCAACTCCCTCTAAACTGGC 59.371 52.381 0.00 0.00 0.00 4.85
2695 4910 2.907042 AGGTCCAACTCCCTCTAAACTG 59.093 50.000 0.00 0.00 0.00 3.16
2697 4912 3.613494 GAGGTCCAACTCCCTCTAAAC 57.387 52.381 0.00 0.00 43.29 2.01
2702 4917 3.775316 TCATAAAGAGGTCCAACTCCCTC 59.225 47.826 0.00 0.00 46.34 4.30
2703 4918 3.777522 CTCATAAAGAGGTCCAACTCCCT 59.222 47.826 0.00 0.00 40.84 4.20
2704 4919 4.143986 CTCATAAAGAGGTCCAACTCCC 57.856 50.000 0.00 0.00 40.84 4.30
2715 4930 5.432645 GGAAAGAACCTCCCTCATAAAGAG 58.567 45.833 0.00 0.00 44.31 2.85
2716 4931 5.437191 GGAAAGAACCTCCCTCATAAAGA 57.563 43.478 0.00 0.00 0.00 2.52
2726 4941 2.889512 ACAAATGGGGAAAGAACCTCC 58.110 47.619 0.00 0.00 0.00 4.30
2727 4942 5.261216 TCATACAAATGGGGAAAGAACCTC 58.739 41.667 0.00 0.00 33.61 3.85
2728 4943 5.222337 ACTCATACAAATGGGGAAAGAACCT 60.222 40.000 0.00 0.00 37.97 3.50
2729 4944 5.016831 ACTCATACAAATGGGGAAAGAACC 58.983 41.667 0.00 0.00 37.97 3.62
2732 4947 7.127186 TCTCATACTCATACAAATGGGGAAAGA 59.873 37.037 0.00 0.00 37.97 2.52
2733 4948 7.282585 TCTCATACTCATACAAATGGGGAAAG 58.717 38.462 0.00 0.00 37.97 2.62
2735 4950 6.823286 TCTCATACTCATACAAATGGGGAA 57.177 37.500 0.00 0.00 37.97 3.97
2736 4951 6.157820 TGTTCTCATACTCATACAAATGGGGA 59.842 38.462 0.00 0.00 37.97 4.81
2737 4952 6.356556 TGTTCTCATACTCATACAAATGGGG 58.643 40.000 0.00 0.00 37.97 4.96
2738 4953 7.770433 TCTTGTTCTCATACTCATACAAATGGG 59.230 37.037 0.00 0.00 39.71 4.00
2740 4955 8.824781 CCTCTTGTTCTCATACTCATACAAATG 58.175 37.037 0.00 0.00 0.00 2.32
2741 4956 7.989741 CCCTCTTGTTCTCATACTCATACAAAT 59.010 37.037 0.00 0.00 0.00 2.32
2742 4957 7.180229 TCCCTCTTGTTCTCATACTCATACAAA 59.820 37.037 0.00 0.00 0.00 2.83
2743 4958 6.667848 TCCCTCTTGTTCTCATACTCATACAA 59.332 38.462 0.00 0.00 0.00 2.41
2744 4959 6.096987 GTCCCTCTTGTTCTCATACTCATACA 59.903 42.308 0.00 0.00 0.00 2.29
2745 4960 6.096987 TGTCCCTCTTGTTCTCATACTCATAC 59.903 42.308 0.00 0.00 0.00 2.39
2747 4962 5.026121 TGTCCCTCTTGTTCTCATACTCAT 58.974 41.667 0.00 0.00 0.00 2.90
2749 4964 5.452636 GGATGTCCCTCTTGTTCTCATACTC 60.453 48.000 0.00 0.00 0.00 2.59
2750 4965 4.407296 GGATGTCCCTCTTGTTCTCATACT 59.593 45.833 0.00 0.00 0.00 2.12
2753 4968 3.054802 GTGGATGTCCCTCTTGTTCTCAT 60.055 47.826 0.00 0.00 35.38 2.90
2755 4970 2.675317 CGTGGATGTCCCTCTTGTTCTC 60.675 54.545 0.00 0.00 35.38 2.87
2756 4971 1.276421 CGTGGATGTCCCTCTTGTTCT 59.724 52.381 0.00 0.00 35.38 3.01
2757 4972 1.726853 CGTGGATGTCCCTCTTGTTC 58.273 55.000 0.00 0.00 35.38 3.18
2758 4973 0.321653 GCGTGGATGTCCCTCTTGTT 60.322 55.000 0.00 0.00 35.38 2.83
2759 4974 1.296715 GCGTGGATGTCCCTCTTGT 59.703 57.895 0.00 0.00 35.38 3.16
2760 4975 1.811266 CGCGTGGATGTCCCTCTTG 60.811 63.158 0.00 0.00 35.38 3.02
2761 4976 2.579201 CGCGTGGATGTCCCTCTT 59.421 61.111 0.00 0.00 35.38 2.85
2762 4977 4.148825 GCGCGTGGATGTCCCTCT 62.149 66.667 8.43 0.00 35.38 3.69
2809 5024 3.439540 CATTCCCGCAACCCGTGG 61.440 66.667 0.00 0.00 45.69 4.94
2810 5025 2.359354 TCATTCCCGCAACCCGTG 60.359 61.111 0.00 0.00 34.38 4.94
2811 5026 2.046314 CTCATTCCCGCAACCCGT 60.046 61.111 0.00 0.00 34.38 5.28
2812 5027 3.508840 GCTCATTCCCGCAACCCG 61.509 66.667 0.00 0.00 0.00 5.28
2813 5028 3.140814 GGCTCATTCCCGCAACCC 61.141 66.667 0.00 0.00 0.00 4.11
2814 5029 1.322538 ATTGGCTCATTCCCGCAACC 61.323 55.000 0.00 0.00 0.00 3.77
2815 5030 0.179129 CATTGGCTCATTCCCGCAAC 60.179 55.000 0.00 0.00 0.00 4.17
2816 5031 0.611618 ACATTGGCTCATTCCCGCAA 60.612 50.000 0.00 0.00 0.00 4.85
2817 5032 1.001020 ACATTGGCTCATTCCCGCA 60.001 52.632 0.00 0.00 0.00 5.69
2818 5033 0.749454 AGACATTGGCTCATTCCCGC 60.749 55.000 0.00 0.00 0.00 6.13
2819 5034 2.620251 TAGACATTGGCTCATTCCCG 57.380 50.000 0.00 0.00 0.00 5.14
2820 5035 5.859205 AATTTAGACATTGGCTCATTCCC 57.141 39.130 0.00 0.00 0.00 3.97
2822 5037 7.413328 GGCAAAAATTTAGACATTGGCTCATTC 60.413 37.037 15.20 0.00 41.64 2.67
2824 5039 5.876460 GGCAAAAATTTAGACATTGGCTCAT 59.124 36.000 15.20 0.00 41.64 2.90
2825 5040 5.221601 TGGCAAAAATTTAGACATTGGCTCA 60.222 36.000 20.26 5.36 44.18 4.26
2826 5041 5.120674 GTGGCAAAAATTTAGACATTGGCTC 59.879 40.000 20.26 15.41 44.18 4.70
2827 5042 4.996758 GTGGCAAAAATTTAGACATTGGCT 59.003 37.500 20.26 0.00 44.18 4.75
2828 5043 4.143137 CGTGGCAAAAATTTAGACATTGGC 60.143 41.667 15.48 15.48 44.14 4.52
2829 5044 4.143137 GCGTGGCAAAAATTTAGACATTGG 60.143 41.667 2.78 0.00 0.00 3.16
2830 5045 4.447054 TGCGTGGCAAAAATTTAGACATTG 59.553 37.500 2.78 0.00 34.76 2.82
2832 5047 3.987220 GTGCGTGGCAAAAATTTAGACAT 59.013 39.130 2.78 0.00 41.47 3.06


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

AutoCloner maintained by Alex Coulton.