Multiple sequence alignment - TraesCS4B01G201900

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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 TraesCS4B01G201900 chr4B 100.000 2927 0 0 1 2927 432493277 432496203 0.000000e+00 5406
1 TraesCS4B01G201900 chr4B 92.932 2391 142 13 388 2761 252685084 252687464 0.000000e+00 3454
2 TraesCS4B01G201900 chr4B 93.480 1273 68 9 24 1284 211804981 211806250 0.000000e+00 1877
3 TraesCS4B01G201900 chr6B 93.398 2772 166 7 1 2761 185500776 185498011 0.000000e+00 4089
4 TraesCS4B01G201900 chr2B 94.024 2376 134 6 388 2761 176992887 176990518 0.000000e+00 3594
5 TraesCS4B01G201900 chr2B 91.726 2103 133 15 24 2107 386803565 386805645 0.000000e+00 2881
6 TraesCS4B01G201900 chr3B 92.467 2509 154 12 40 2519 241587884 241585382 0.000000e+00 3554
7 TraesCS4B01G201900 chr3B 93.434 2391 133 9 388 2760 546113199 546110815 0.000000e+00 3524
8 TraesCS4B01G201900 chr3B 93.535 2150 128 8 583 2723 255571977 255569830 0.000000e+00 3190
9 TraesCS4B01G201900 chr3B 92.220 2095 139 7 24 2098 164342499 164344589 0.000000e+00 2944
10 TraesCS4B01G201900 chr3B 85.090 389 39 11 1 377 570751262 570750881 2.130000e-101 379
11 TraesCS4B01G201900 chr7B 92.792 2400 125 17 388 2762 138297508 138299884 0.000000e+00 3430
12 TraesCS4B01G201900 chr7B 92.211 2388 141 14 398 2761 382869153 382866787 0.000000e+00 3338
13 TraesCS4B01G201900 chr7B 90.347 518 33 9 70 576 408802772 408803283 0.000000e+00 664
14 TraesCS4B01G201900 chr7B 87.081 596 51 8 1 576 531014044 531014633 0.000000e+00 651
15 TraesCS4B01G201900 chr5B 92.503 2401 130 18 388 2762 26548198 26550574 0.000000e+00 3391
16 TraesCS4B01G201900 chr5B 93.637 2153 115 8 583 2720 120140039 120142184 0.000000e+00 3197
17 TraesCS4B01G201900 chr2D 92.881 2107 123 10 24 2107 453152530 453150428 0.000000e+00 3035
18 TraesCS4B01G201900 chr2D 98.214 168 3 0 2760 2927 493365873 493366040 7.930000e-76 294
19 TraesCS4B01G201900 chr2D 97.619 168 4 0 2760 2927 122162918 122162751 3.690000e-74 289
20 TraesCS4B01G201900 chr2D 97.619 168 4 0 2760 2927 404359096 404358929 3.690000e-74 289
21 TraesCS4B01G201900 chr2A 85.530 387 35 11 79 451 658390658 658391037 4.580000e-103 385
22 TraesCS4B01G201900 chr4A 83.838 396 38 10 70 451 474304872 474305255 1.290000e-93 353
23 TraesCS4B01G201900 chr7D 97.619 168 4 0 2760 2927 554257972 554258139 3.690000e-74 289
24 TraesCS4B01G201900 chr4D 97.619 168 4 0 2760 2927 304243166 304243333 3.690000e-74 289
25 TraesCS4B01G201900 chr4D 97.619 168 4 0 2760 2927 336190177 336190010 3.690000e-74 289
26 TraesCS4B01G201900 chr4D 97.024 168 5 0 2760 2927 37896458 37896291 1.720000e-72 283
27 TraesCS4B01G201900 chr4D 97.024 168 5 0 2760 2927 38755709 38755876 1.720000e-72 283
28 TraesCS4B01G201900 chr4D 97.024 168 5 0 2760 2927 66100707 66100874 1.720000e-72 283
29 TraesCS4B01G201900 chr4D 97.024 168 5 0 2760 2927 107491177 107491010 1.720000e-72 283
30 TraesCS4B01G201900 chr4D 97.024 168 5 0 2760 2927 370249480 370249647 1.720000e-72 283
31 TraesCS4B01G201900 chr4D 97.024 168 5 0 2760 2927 393548602 393548435 1.720000e-72 283
32 TraesCS4B01G201900 chr3D 97.619 168 4 0 2760 2927 217497178 217497011 3.690000e-74 289
33 TraesCS4B01G201900 chr3D 97.619 168 4 0 2760 2927 511794142 511793975 3.690000e-74 289
34 TraesCS4B01G201900 chr1D 97.619 168 4 0 2760 2927 35713303 35713136 3.690000e-74 289
35 TraesCS4B01G201900 chrUn 97.024 168 5 0 2760 2927 45430163 45430330 1.720000e-72 283
36 TraesCS4B01G201900 chrUn 96.429 168 6 0 2760 2927 250353255 250353422 7.990000e-71 278
37 TraesCS4B01G201900 chrUn 96.429 168 6 0 2760 2927 378856151 378855984 7.990000e-71 278
38 TraesCS4B01G201900 chrUn 95.833 168 7 0 2760 2927 26324959 26324792 3.720000e-69 272
39 TraesCS4B01G201900 chrUn 95.833 168 7 0 2760 2927 53026084 53025917 3.720000e-69 272
40 TraesCS4B01G201900 chrUn 95.833 168 7 0 2760 2927 64530882 64531049 3.720000e-69 272
41 TraesCS4B01G201900 chrUn 95.833 168 7 0 2760 2927 67741310 67741477 3.720000e-69 272
42 TraesCS4B01G201900 chrUn 95.833 168 7 0 2760 2927 69612691 69612524 3.720000e-69 272
43 TraesCS4B01G201900 chrUn 95.833 168 7 0 2760 2927 137847513 137847346 3.720000e-69 272


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 TraesCS4B01G201900 chr4B 432493277 432496203 2926 False 5406 5406 100.000 1 2927 1 chr4B.!!$F3 2926
1 TraesCS4B01G201900 chr4B 252685084 252687464 2380 False 3454 3454 92.932 388 2761 1 chr4B.!!$F2 2373
2 TraesCS4B01G201900 chr4B 211804981 211806250 1269 False 1877 1877 93.480 24 1284 1 chr4B.!!$F1 1260
3 TraesCS4B01G201900 chr6B 185498011 185500776 2765 True 4089 4089 93.398 1 2761 1 chr6B.!!$R1 2760
4 TraesCS4B01G201900 chr2B 176990518 176992887 2369 True 3594 3594 94.024 388 2761 1 chr2B.!!$R1 2373
5 TraesCS4B01G201900 chr2B 386803565 386805645 2080 False 2881 2881 91.726 24 2107 1 chr2B.!!$F1 2083
6 TraesCS4B01G201900 chr3B 241585382 241587884 2502 True 3554 3554 92.467 40 2519 1 chr3B.!!$R1 2479
7 TraesCS4B01G201900 chr3B 546110815 546113199 2384 True 3524 3524 93.434 388 2760 1 chr3B.!!$R3 2372
8 TraesCS4B01G201900 chr3B 255569830 255571977 2147 True 3190 3190 93.535 583 2723 1 chr3B.!!$R2 2140
9 TraesCS4B01G201900 chr3B 164342499 164344589 2090 False 2944 2944 92.220 24 2098 1 chr3B.!!$F1 2074
10 TraesCS4B01G201900 chr7B 138297508 138299884 2376 False 3430 3430 92.792 388 2762 1 chr7B.!!$F1 2374
11 TraesCS4B01G201900 chr7B 382866787 382869153 2366 True 3338 3338 92.211 398 2761 1 chr7B.!!$R1 2363
12 TraesCS4B01G201900 chr7B 408802772 408803283 511 False 664 664 90.347 70 576 1 chr7B.!!$F2 506
13 TraesCS4B01G201900 chr7B 531014044 531014633 589 False 651 651 87.081 1 576 1 chr7B.!!$F3 575
14 TraesCS4B01G201900 chr5B 26548198 26550574 2376 False 3391 3391 92.503 388 2762 1 chr5B.!!$F1 2374
15 TraesCS4B01G201900 chr5B 120140039 120142184 2145 False 3197 3197 93.637 583 2720 1 chr5B.!!$F2 2137
16 TraesCS4B01G201900 chr2D 453150428 453152530 2102 True 3035 3035 92.881 24 2107 1 chr2D.!!$R3 2083

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
418 440 0.984230 TACAGGTGCTAAGCTTGCCT 59.016 50.0 9.86 8.43 29.54 4.75 F
1328 1387 0.392706 TGCCTTTCTCGCTTCAGACA 59.607 50.0 0.00 0.00 0.00 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1582 1641 0.683504 ACAACGAGGCCTATCCGACT 60.684 55.0 18.32 3.07 40.77 4.18 R
2856 2961 0.029433 GGCTCGCATCGAAAAATCCC 59.971 55.0 0.00 0.00 34.74 3.85 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
54 63 4.678743 GGGCGGGGCTTTTCCTGT 62.679 66.667 0.00 0.00 35.63 4.00
118 127 3.320610 TGAGAAGATGAGGGAGTAGGG 57.679 52.381 0.00 0.00 0.00 3.53
123 132 1.044611 GATGAGGGAGTAGGGTGCTC 58.955 60.000 0.00 0.00 0.00 4.26
150 159 2.363306 AGGGCTGTGTGATTTGACAA 57.637 45.000 0.00 0.00 0.00 3.18
163 172 5.404366 GTGATTTGACAACGAGTTACTGCTA 59.596 40.000 0.00 0.00 0.00 3.49
236 245 2.049433 CGACCGGCGTGAGTCTTT 60.049 61.111 6.01 0.00 34.64 2.52
244 253 1.000145 GCGTGAGTCTTTCGATTCCC 59.000 55.000 7.02 0.00 0.00 3.97
377 398 2.992543 GCAAAAATGCCATGTAAAGCGA 59.007 40.909 0.00 0.00 0.00 4.93
418 440 0.984230 TACAGGTGCTAAGCTTGCCT 59.016 50.000 9.86 8.43 29.54 4.75
441 463 6.463472 CCTCATAGGCATAAACTCTGATGTGA 60.463 42.308 0.00 0.00 0.00 3.58
473 495 6.019779 TCAAGAAGAGAGAGACTAGTTTGC 57.980 41.667 0.00 0.00 0.00 3.68
588 617 8.649841 CAATGAAAAACTAATAAGCACACCATG 58.350 33.333 0.00 0.00 0.00 3.66
619 648 1.425066 AGGTCACTCCTTGGCAAATGA 59.575 47.619 0.00 0.00 45.67 2.57
660 692 7.599245 CCTCTGTCCCATAATATAAGAACGTTC 59.401 40.741 20.71 20.71 0.00 3.95
823 873 5.366482 TGCCAACATTAGATAGCCTAACA 57.634 39.130 0.00 0.00 39.93 2.41
895 953 2.156917 CGACCATGATACGGGCTACTA 58.843 52.381 0.00 0.00 0.00 1.82
969 1027 4.242811 TGCAGAATAACCCTCCAGGATAT 58.757 43.478 0.00 0.00 39.89 1.63
1079 1138 2.033602 GCCACTACCCTGCCGTTT 59.966 61.111 0.00 0.00 0.00 3.60
1151 1210 0.526662 CGGTTCGCTCCTAGTTGTCT 59.473 55.000 0.00 0.00 0.00 3.41
1328 1387 0.392706 TGCCTTTCTCGCTTCAGACA 59.607 50.000 0.00 0.00 0.00 3.41
1343 1402 5.730568 GCTTCAGACACATGTTCGAAAACTT 60.731 40.000 0.00 0.00 36.30 2.66
1451 1510 1.219664 CCGCCGTGATCCAGGTTTA 59.780 57.895 5.59 0.00 0.00 2.01
1507 1566 2.325082 GCCGACGTTGAATGCCTGT 61.325 57.895 3.74 0.00 0.00 4.00
1525 1584 5.944007 TGCCTGTATTTTAAGAACTTCCTCC 59.056 40.000 0.00 0.00 0.00 4.30
1582 1641 3.812156 TGAACGACAAAGAAGTCCTGA 57.188 42.857 0.00 0.00 35.07 3.86
1743 1802 3.435327 ACACGTTTCATCGTTATGCATGT 59.565 39.130 10.16 0.00 42.27 3.21
1839 1898 2.290577 GGGTTGGATGAAGAGCAAGAGT 60.291 50.000 0.00 0.00 0.00 3.24
1937 2005 0.601558 TCCGAGTAAGGTGTCAGTGC 59.398 55.000 0.00 0.00 0.00 4.40
1999 2067 5.629079 AGTTGCATAGTTTAGTTTCAGGC 57.371 39.130 0.00 0.00 0.00 4.85
2247 2315 7.491048 GTGCTTAGTTTTGTCAAAGAATTCCAA 59.509 33.333 0.65 0.00 0.00 3.53
2252 2320 8.010733 AGTTTTGTCAAAGAATTCCAAGATGA 57.989 30.769 0.65 0.00 0.00 2.92
2627 2723 8.046107 AGTTTTCCACTAGAGTAGTACTACGAT 58.954 37.037 23.87 18.94 37.23 3.73
2664 2761 1.281199 ACAGCCCAGTGCCATATGGA 61.281 55.000 26.47 7.84 42.71 3.41
2756 2861 2.984562 TGTTCTATTCATGCCTCGCAA 58.015 42.857 0.00 0.00 43.62 4.85
2762 2867 4.883585 TCTATTCATGCCTCGCAAAGAATT 59.116 37.500 17.24 7.26 43.62 2.17
2763 2868 3.492421 TTCATGCCTCGCAAAGAATTC 57.508 42.857 0.00 0.00 43.62 2.17
2764 2869 1.398041 TCATGCCTCGCAAAGAATTCG 59.602 47.619 0.00 0.00 43.62 3.34
2765 2870 0.099436 ATGCCTCGCAAAGAATTCGC 59.901 50.000 0.00 0.00 43.62 4.70
2766 2871 1.226407 GCCTCGCAAAGAATTCGCC 60.226 57.895 0.00 0.00 0.00 5.54
2767 2872 1.060937 CCTCGCAAAGAATTCGCCG 59.939 57.895 0.00 2.16 0.00 6.46
2768 2873 1.581147 CTCGCAAAGAATTCGCCGC 60.581 57.895 0.00 3.06 0.00 6.53
2769 2874 2.939003 CGCAAAGAATTCGCCGCG 60.939 61.111 18.97 18.97 36.47 6.46
2770 2875 2.576847 GCAAAGAATTCGCCGCGG 60.577 61.111 24.05 24.05 0.00 6.46
2771 2876 3.034370 GCAAAGAATTCGCCGCGGA 62.034 57.895 33.48 8.89 0.00 5.54
2772 2877 1.060937 CAAAGAATTCGCCGCGGAG 59.939 57.895 33.48 28.60 0.00 4.63
2773 2878 1.375523 AAAGAATTCGCCGCGGAGT 60.376 52.632 33.48 10.42 0.00 3.85
2774 2879 1.359459 AAAGAATTCGCCGCGGAGTC 61.359 55.000 33.48 19.76 28.89 3.36
2775 2880 3.617538 GAATTCGCCGCGGAGTCG 61.618 66.667 33.48 23.68 39.81 4.18
2776 2881 4.430765 AATTCGCCGCGGAGTCGT 62.431 61.111 33.48 13.50 38.89 4.34
2777 2882 2.924922 GAATTCGCCGCGGAGTCGTA 62.925 60.000 33.48 17.59 38.89 3.43
2778 2883 2.546645 AATTCGCCGCGGAGTCGTAA 62.547 55.000 33.48 16.77 38.89 3.18
2779 2884 3.951655 TTCGCCGCGGAGTCGTAAC 62.952 63.158 33.48 7.28 38.89 2.50
2780 2885 4.471726 CGCCGCGGAGTCGTAACT 62.472 66.667 33.48 0.00 38.88 2.24
2781 2886 2.879462 GCCGCGGAGTCGTAACTG 60.879 66.667 33.48 0.00 35.28 3.16
2782 2887 2.879462 CCGCGGAGTCGTAACTGC 60.879 66.667 24.07 0.00 40.24 4.40
2783 2888 2.178521 CGCGGAGTCGTAACTGCT 59.821 61.111 0.00 0.00 41.38 4.24
2784 2889 1.443872 CGCGGAGTCGTAACTGCTT 60.444 57.895 0.00 0.00 41.38 3.91
2785 2890 1.403972 CGCGGAGTCGTAACTGCTTC 61.404 60.000 0.00 0.00 41.38 3.86
2786 2891 0.109226 GCGGAGTCGTAACTGCTTCT 60.109 55.000 0.00 0.00 41.38 2.85
2787 2892 1.669211 GCGGAGTCGTAACTGCTTCTT 60.669 52.381 0.00 0.00 41.38 2.52
2788 2893 2.251893 CGGAGTCGTAACTGCTTCTTC 58.748 52.381 0.00 0.00 41.38 2.87
2789 2894 2.351447 CGGAGTCGTAACTGCTTCTTCA 60.351 50.000 0.00 0.00 41.38 3.02
2790 2895 3.673594 CGGAGTCGTAACTGCTTCTTCAT 60.674 47.826 0.00 0.00 41.38 2.57
2791 2896 3.860536 GGAGTCGTAACTGCTTCTTCATC 59.139 47.826 0.00 0.00 40.46 2.92
2792 2897 3.502920 AGTCGTAACTGCTTCTTCATCG 58.497 45.455 0.00 0.00 33.32 3.84
2793 2898 2.028165 GTCGTAACTGCTTCTTCATCGC 59.972 50.000 0.00 0.00 0.00 4.58
2794 2899 1.324736 CGTAACTGCTTCTTCATCGCC 59.675 52.381 0.00 0.00 0.00 5.54
2795 2900 2.622436 GTAACTGCTTCTTCATCGCCT 58.378 47.619 0.00 0.00 0.00 5.52
2796 2901 1.731720 AACTGCTTCTTCATCGCCTC 58.268 50.000 0.00 0.00 0.00 4.70
2797 2902 0.107945 ACTGCTTCTTCATCGCCTCC 60.108 55.000 0.00 0.00 0.00 4.30
2798 2903 0.107993 CTGCTTCTTCATCGCCTCCA 60.108 55.000 0.00 0.00 0.00 3.86
2799 2904 0.543277 TGCTTCTTCATCGCCTCCAT 59.457 50.000 0.00 0.00 0.00 3.41
2800 2905 0.942962 GCTTCTTCATCGCCTCCATG 59.057 55.000 0.00 0.00 0.00 3.66
2801 2906 1.473965 GCTTCTTCATCGCCTCCATGA 60.474 52.381 0.00 0.00 0.00 3.07
2802 2907 2.208431 CTTCTTCATCGCCTCCATGAC 58.792 52.381 0.00 0.00 29.70 3.06
2803 2908 0.465705 TCTTCATCGCCTCCATGACC 59.534 55.000 0.00 0.00 29.70 4.02
2804 2909 0.467384 CTTCATCGCCTCCATGACCT 59.533 55.000 0.00 0.00 29.70 3.85
2805 2910 0.465705 TTCATCGCCTCCATGACCTC 59.534 55.000 0.00 0.00 29.70 3.85
2806 2911 1.070445 CATCGCCTCCATGACCTCC 59.930 63.158 0.00 0.00 0.00 4.30
2807 2912 1.383109 ATCGCCTCCATGACCTCCA 60.383 57.895 0.00 0.00 0.00 3.86
2808 2913 0.765903 ATCGCCTCCATGACCTCCAT 60.766 55.000 0.00 0.00 35.44 3.41
2809 2914 1.070445 CGCCTCCATGACCTCCATC 59.930 63.158 0.00 0.00 31.94 3.51
2810 2915 1.406065 CGCCTCCATGACCTCCATCT 61.406 60.000 0.00 0.00 31.94 2.90
2811 2916 0.396060 GCCTCCATGACCTCCATCTC 59.604 60.000 0.00 0.00 31.94 2.75
2812 2917 1.055040 CCTCCATGACCTCCATCTCC 58.945 60.000 0.00 0.00 31.94 3.71
2813 2918 1.414245 CCTCCATGACCTCCATCTCCT 60.414 57.143 0.00 0.00 31.94 3.69
2814 2919 2.406559 CTCCATGACCTCCATCTCCTT 58.593 52.381 0.00 0.00 31.94 3.36
2815 2920 2.104451 CTCCATGACCTCCATCTCCTTG 59.896 54.545 0.00 0.00 31.94 3.61
2816 2921 1.476471 CCATGACCTCCATCTCCTTGC 60.476 57.143 0.00 0.00 31.94 4.01
2817 2922 0.467384 ATGACCTCCATCTCCTTGCG 59.533 55.000 0.00 0.00 0.00 4.85
2818 2923 1.522580 GACCTCCATCTCCTTGCGC 60.523 63.158 0.00 0.00 0.00 6.09
2819 2924 2.587194 CCTCCATCTCCTTGCGCG 60.587 66.667 0.00 0.00 0.00 6.86
2820 2925 2.185350 CTCCATCTCCTTGCGCGT 59.815 61.111 8.43 0.00 0.00 6.01
2821 2926 1.880340 CTCCATCTCCTTGCGCGTC 60.880 63.158 8.43 0.00 0.00 5.19
2822 2927 2.185350 CCATCTCCTTGCGCGTCT 59.815 61.111 8.43 0.00 0.00 4.18
2823 2928 1.880340 CCATCTCCTTGCGCGTCTC 60.880 63.158 8.43 0.00 0.00 3.36
2824 2929 1.880340 CATCTCCTTGCGCGTCTCC 60.880 63.158 8.43 0.00 0.00 3.71
2825 2930 2.055042 ATCTCCTTGCGCGTCTCCT 61.055 57.895 8.43 0.00 0.00 3.69
2826 2931 2.010582 ATCTCCTTGCGCGTCTCCTC 62.011 60.000 8.43 0.00 0.00 3.71
2827 2932 3.708220 CTCCTTGCGCGTCTCCTCC 62.708 68.421 8.43 0.00 0.00 4.30
2834 2939 3.532155 GCGTCTCCTCCGCCATCT 61.532 66.667 0.00 0.00 45.20 2.90
2835 2940 3.082579 GCGTCTCCTCCGCCATCTT 62.083 63.158 0.00 0.00 45.20 2.40
2836 2941 1.066587 CGTCTCCTCCGCCATCTTC 59.933 63.158 0.00 0.00 0.00 2.87
2837 2942 1.388065 CGTCTCCTCCGCCATCTTCT 61.388 60.000 0.00 0.00 0.00 2.85
2838 2943 0.827368 GTCTCCTCCGCCATCTTCTT 59.173 55.000 0.00 0.00 0.00 2.52
2839 2944 1.115467 TCTCCTCCGCCATCTTCTTC 58.885 55.000 0.00 0.00 0.00 2.87
2840 2945 0.826715 CTCCTCCGCCATCTTCTTCA 59.173 55.000 0.00 0.00 0.00 3.02
2841 2946 1.415659 CTCCTCCGCCATCTTCTTCAT 59.584 52.381 0.00 0.00 0.00 2.57
2842 2947 1.839994 TCCTCCGCCATCTTCTTCATT 59.160 47.619 0.00 0.00 0.00 2.57
2843 2948 2.158900 TCCTCCGCCATCTTCTTCATTC 60.159 50.000 0.00 0.00 0.00 2.67
2844 2949 2.158842 CCTCCGCCATCTTCTTCATTCT 60.159 50.000 0.00 0.00 0.00 2.40
2845 2950 2.871022 CTCCGCCATCTTCTTCATTCTG 59.129 50.000 0.00 0.00 0.00 3.02
2846 2951 2.237143 TCCGCCATCTTCTTCATTCTGT 59.763 45.455 0.00 0.00 0.00 3.41
2847 2952 2.611292 CCGCCATCTTCTTCATTCTGTC 59.389 50.000 0.00 0.00 0.00 3.51
2848 2953 2.611292 CGCCATCTTCTTCATTCTGTCC 59.389 50.000 0.00 0.00 0.00 4.02
2849 2954 3.614092 GCCATCTTCTTCATTCTGTCCA 58.386 45.455 0.00 0.00 0.00 4.02
2850 2955 4.205587 GCCATCTTCTTCATTCTGTCCAT 58.794 43.478 0.00 0.00 0.00 3.41
2851 2956 4.036498 GCCATCTTCTTCATTCTGTCCATG 59.964 45.833 0.00 0.00 0.00 3.66
2852 2957 5.434408 CCATCTTCTTCATTCTGTCCATGA 58.566 41.667 0.00 0.00 0.00 3.07
2853 2958 5.884232 CCATCTTCTTCATTCTGTCCATGAA 59.116 40.000 0.00 0.00 38.14 2.57
2856 2961 3.670311 CTTCATTCTGTCCATGAAGCG 57.330 47.619 9.18 0.00 46.58 4.68
2857 2962 2.028420 TCATTCTGTCCATGAAGCGG 57.972 50.000 0.00 0.00 0.00 5.52
2858 2963 1.019673 CATTCTGTCCATGAAGCGGG 58.980 55.000 0.00 0.00 0.00 6.13
2859 2964 0.911769 ATTCTGTCCATGAAGCGGGA 59.088 50.000 0.00 0.00 0.00 5.14
2860 2965 0.911769 TTCTGTCCATGAAGCGGGAT 59.088 50.000 0.00 0.00 35.25 3.85
2861 2966 0.911769 TCTGTCCATGAAGCGGGATT 59.088 50.000 0.00 0.00 35.25 3.01
2862 2967 1.281867 TCTGTCCATGAAGCGGGATTT 59.718 47.619 0.00 0.00 35.25 2.17
2863 2968 2.094675 CTGTCCATGAAGCGGGATTTT 58.905 47.619 0.00 0.00 35.25 1.82
2864 2969 2.493278 CTGTCCATGAAGCGGGATTTTT 59.507 45.455 0.00 0.00 35.25 1.94
2865 2970 2.491693 TGTCCATGAAGCGGGATTTTTC 59.508 45.455 0.00 0.00 35.25 2.29
2866 2971 1.742831 TCCATGAAGCGGGATTTTTCG 59.257 47.619 0.00 0.00 0.00 3.46
2867 2972 1.742831 CCATGAAGCGGGATTTTTCGA 59.257 47.619 0.00 0.00 0.00 3.71
2868 2973 2.358898 CCATGAAGCGGGATTTTTCGAT 59.641 45.455 0.00 0.00 0.00 3.59
2869 2974 3.365832 CATGAAGCGGGATTTTTCGATG 58.634 45.455 0.00 0.00 0.00 3.84
2870 2975 1.132262 TGAAGCGGGATTTTTCGATGC 59.868 47.619 0.00 0.00 0.00 3.91
2871 2976 0.098728 AAGCGGGATTTTTCGATGCG 59.901 50.000 0.00 0.00 0.00 4.73
2872 2977 0.742990 AGCGGGATTTTTCGATGCGA 60.743 50.000 0.00 0.00 0.00 5.10
2873 2978 0.316196 GCGGGATTTTTCGATGCGAG 60.316 55.000 0.00 0.00 37.14 5.03
2874 2979 0.316196 CGGGATTTTTCGATGCGAGC 60.316 55.000 0.00 0.00 37.14 5.03
2875 2980 0.029433 GGGATTTTTCGATGCGAGCC 59.971 55.000 0.00 0.00 37.14 4.70
2876 2981 1.017387 GGATTTTTCGATGCGAGCCT 58.983 50.000 0.00 0.00 37.14 4.58
2877 2982 1.401905 GGATTTTTCGATGCGAGCCTT 59.598 47.619 0.00 0.00 37.14 4.35
2878 2983 2.539750 GGATTTTTCGATGCGAGCCTTC 60.540 50.000 0.00 0.00 37.14 3.46
2879 2984 1.518325 TTTTTCGATGCGAGCCTTCA 58.482 45.000 0.00 0.00 37.14 3.02
2880 2985 1.737838 TTTTCGATGCGAGCCTTCAT 58.262 45.000 0.00 0.00 37.14 2.57
2881 2986 1.290203 TTTCGATGCGAGCCTTCATC 58.710 50.000 0.00 0.00 37.14 2.92
2882 2987 0.175531 TTCGATGCGAGCCTTCATCA 59.824 50.000 9.41 0.00 39.11 3.07
2883 2988 0.390492 TCGATGCGAGCCTTCATCAT 59.610 50.000 9.41 0.00 39.11 2.45
2884 2989 0.788995 CGATGCGAGCCTTCATCATC 59.211 55.000 9.41 0.00 39.11 2.92
2885 2990 1.604947 CGATGCGAGCCTTCATCATCT 60.605 52.381 9.41 0.00 39.11 2.90
2886 2991 1.799403 GATGCGAGCCTTCATCATCTG 59.201 52.381 0.00 0.00 39.02 2.90
2887 2992 0.538584 TGCGAGCCTTCATCATCTGT 59.461 50.000 0.00 0.00 0.00 3.41
2888 2993 1.065926 TGCGAGCCTTCATCATCTGTT 60.066 47.619 0.00 0.00 0.00 3.16
2889 2994 1.596727 GCGAGCCTTCATCATCTGTTC 59.403 52.381 0.00 0.00 0.00 3.18
2890 2995 2.208431 CGAGCCTTCATCATCTGTTCC 58.792 52.381 0.00 0.00 0.00 3.62
2891 2996 2.419159 CGAGCCTTCATCATCTGTTCCA 60.419 50.000 0.00 0.00 0.00 3.53
2892 2997 2.941720 GAGCCTTCATCATCTGTTCCAC 59.058 50.000 0.00 0.00 0.00 4.02
2893 2998 1.667724 GCCTTCATCATCTGTTCCACG 59.332 52.381 0.00 0.00 0.00 4.94
2894 2999 2.283298 CCTTCATCATCTGTTCCACGG 58.717 52.381 0.00 0.00 0.00 4.94
2895 3000 1.667724 CTTCATCATCTGTTCCACGGC 59.332 52.381 0.00 0.00 0.00 5.68
2896 3001 0.107703 TCATCATCTGTTCCACGGCC 60.108 55.000 0.00 0.00 0.00 6.13
2897 3002 1.153369 ATCATCTGTTCCACGGCCG 60.153 57.895 26.86 26.86 0.00 6.13
2898 3003 3.499737 CATCTGTTCCACGGCCGC 61.500 66.667 28.58 9.24 0.00 6.53
2899 3004 4.015406 ATCTGTTCCACGGCCGCA 62.015 61.111 28.58 14.10 0.00 5.69
2900 3005 3.329542 ATCTGTTCCACGGCCGCAT 62.330 57.895 28.58 2.80 0.00 4.73
2901 3006 2.819984 ATCTGTTCCACGGCCGCATT 62.820 55.000 28.58 1.81 0.00 3.56
2902 3007 1.743623 CTGTTCCACGGCCGCATTA 60.744 57.895 28.58 5.35 0.00 1.90
2903 3008 1.977594 CTGTTCCACGGCCGCATTAC 61.978 60.000 28.58 18.86 0.00 1.89
2904 3009 2.816083 TTCCACGGCCGCATTACG 60.816 61.111 28.58 6.68 43.15 3.18
2905 3010 3.592856 TTCCACGGCCGCATTACGT 62.593 57.895 28.58 0.00 41.42 3.57
2906 3011 2.202770 CCACGGCCGCATTACGTA 60.203 61.111 28.58 0.00 41.42 3.57
2907 3012 2.519175 CCACGGCCGCATTACGTAC 61.519 63.158 28.58 0.00 41.42 3.67
2908 3013 2.202783 ACGGCCGCATTACGTACC 60.203 61.111 28.58 0.00 41.42 3.34
2909 3014 2.105528 CGGCCGCATTACGTACCT 59.894 61.111 14.67 0.00 41.42 3.08
2910 3015 1.519898 CGGCCGCATTACGTACCTT 60.520 57.895 14.67 0.00 41.42 3.50
2911 3016 1.758319 CGGCCGCATTACGTACCTTG 61.758 60.000 14.67 0.00 41.42 3.61
2912 3017 0.460635 GGCCGCATTACGTACCTTGA 60.461 55.000 0.00 0.00 41.42 3.02
2913 3018 1.578583 GCCGCATTACGTACCTTGAT 58.421 50.000 0.00 0.00 41.42 2.57
2914 3019 2.546373 GGCCGCATTACGTACCTTGATA 60.546 50.000 0.00 0.00 41.42 2.15
2915 3020 2.729882 GCCGCATTACGTACCTTGATAG 59.270 50.000 0.00 0.00 41.42 2.08
2916 3021 2.729882 CCGCATTACGTACCTTGATAGC 59.270 50.000 0.00 0.00 41.42 2.97
2917 3022 3.377439 CGCATTACGTACCTTGATAGCA 58.623 45.455 0.00 0.00 36.87 3.49
2918 3023 3.425525 CGCATTACGTACCTTGATAGCAG 59.574 47.826 0.00 0.00 36.87 4.24
2919 3024 3.184581 GCATTACGTACCTTGATAGCAGC 59.815 47.826 0.00 0.00 0.00 5.25
2920 3025 3.447918 TTACGTACCTTGATAGCAGCC 57.552 47.619 0.00 0.00 0.00 4.85
2921 3026 0.102481 ACGTACCTTGATAGCAGCCG 59.898 55.000 0.00 0.00 0.00 5.52
2922 3027 0.597637 CGTACCTTGATAGCAGCCGG 60.598 60.000 0.00 0.00 0.00 6.13
2923 3028 0.249911 GTACCTTGATAGCAGCCGGG 60.250 60.000 2.18 0.00 0.00 5.73
2924 3029 0.689745 TACCTTGATAGCAGCCGGGT 60.690 55.000 0.00 0.00 0.00 5.28
2925 3030 1.524621 CCTTGATAGCAGCCGGGTG 60.525 63.158 29.14 29.14 0.00 4.61
2926 3031 2.124736 TTGATAGCAGCCGGGTGC 60.125 61.111 43.67 43.67 44.35 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
98 107 2.587777 ACCCTACTCCCTCATCTTCTCA 59.412 50.000 0.00 0.00 0.00 3.27
118 127 1.003718 AGCCCTACGTTTGGAGCAC 60.004 57.895 16.53 0.00 0.00 4.40
123 132 0.250124 TCACACAGCCCTACGTTTGG 60.250 55.000 0.00 0.00 0.00 3.28
150 159 2.488545 CACCTGTCTAGCAGTAACTCGT 59.511 50.000 11.57 1.51 43.55 4.18
174 183 0.608035 GCAAGTCAAATCACGGGGGA 60.608 55.000 0.00 0.00 0.00 4.81
175 184 1.595093 GGCAAGTCAAATCACGGGGG 61.595 60.000 0.00 0.00 0.00 5.40
236 245 2.056223 GGAGGTGGTCGGGAATCGA 61.056 63.158 0.00 0.00 46.77 3.59
244 253 2.591915 ACCTGTATGGAGGTGGTCG 58.408 57.895 0.00 0.00 45.20 4.79
314 323 3.632145 GCAAGGAAAAAGTGGAGAAGTGA 59.368 43.478 0.00 0.00 0.00 3.41
377 398 8.130671 TGTAGGAGCAAGTAAGTACAATAGTT 57.869 34.615 0.00 0.00 0.00 2.24
418 440 6.127083 TGTCACATCAGAGTTTATGCCTATGA 60.127 38.462 0.00 0.00 34.92 2.15
431 453 7.895975 TCTTGATTAACTTGTCACATCAGAG 57.104 36.000 0.00 0.00 0.00 3.35
441 463 8.189119 AGTCTCTCTCTTCTTGATTAACTTGT 57.811 34.615 0.00 0.00 0.00 3.16
473 495 1.202770 ACCGTTTCTTCCTTGGGTCAG 60.203 52.381 0.00 0.00 0.00 3.51
565 592 7.013750 TGACATGGTGTGCTTATTAGTTTTTCA 59.986 33.333 0.00 0.00 0.00 2.69
566 594 7.367285 TGACATGGTGTGCTTATTAGTTTTTC 58.633 34.615 0.00 0.00 0.00 2.29
588 617 2.979240 GGAGTGACCTCTTCCAATGAC 58.021 52.381 0.00 0.00 37.86 3.06
619 648 6.906901 TGGGACAGAGGGAGTAGTATTTATTT 59.093 38.462 0.00 0.00 0.00 1.40
703 735 3.090037 CTCTTTCTTCGTACTCCCTCCA 58.910 50.000 0.00 0.00 0.00 3.86
823 873 4.344104 CCCTTGGAGATTTAACATGGTGT 58.656 43.478 0.00 0.00 0.00 4.16
895 953 0.619832 TCTCAGATCCAAGGGCTGCT 60.620 55.000 0.00 0.00 0.00 4.24
1079 1138 2.736995 GCGAACTACCAGCGTGCA 60.737 61.111 0.00 0.00 0.00 4.57
1151 1210 1.001068 TGCCGTAATGTGAAAGGACGA 59.999 47.619 0.00 0.00 35.59 4.20
1328 1387 7.604164 ACTCATCATCTAAGTTTTCGAACATGT 59.396 33.333 0.00 0.00 0.00 3.21
1343 1402 1.683385 CAGCGACCCACTCATCATCTA 59.317 52.381 0.00 0.00 0.00 1.98
1507 1566 7.016153 TGCTCTGGAGGAAGTTCTTAAAATA 57.984 36.000 2.25 0.00 0.00 1.40
1525 1584 5.695851 ACAAATTTGACTAGGTTGCTCTG 57.304 39.130 24.64 0.00 0.00 3.35
1582 1641 0.683504 ACAACGAGGCCTATCCGACT 60.684 55.000 18.32 3.07 40.77 4.18
1743 1802 8.445588 TGGTCTATATCTAGTACATTCCACTGA 58.554 37.037 0.00 0.00 0.00 3.41
1839 1898 0.746204 TGCTTGAACCGCACACTTGA 60.746 50.000 0.00 0.00 31.40 3.02
1999 2067 4.457949 ACCCCTCAAATTAAACTAAGCACG 59.542 41.667 0.00 0.00 0.00 5.34
2175 2243 2.107031 TGCTGGCTATATGATGTTGGCT 59.893 45.455 0.00 0.00 0.00 4.75
2247 2315 7.561356 CCACCCCTCAAATAAAACTAATCATCT 59.439 37.037 0.00 0.00 0.00 2.90
2252 2320 5.910931 ACCCACCCCTCAAATAAAACTAAT 58.089 37.500 0.00 0.00 0.00 1.73
2314 2391 7.039270 TCGTCGCCAAATTATGCATATAGTAT 58.961 34.615 7.36 0.00 0.00 2.12
2449 2535 1.538876 ACCAAGCTAGACTGCCCCA 60.539 57.895 0.00 0.00 0.00 4.96
2627 2723 0.596600 GTCGTGTTTCGTGCTCTCCA 60.597 55.000 0.00 0.00 40.80 3.86
2756 2861 1.810030 GACTCCGCGGCGAATTCTT 60.810 57.895 24.18 0.00 0.00 2.52
2762 2867 4.465512 GTTACGACTCCGCGGCGA 62.466 66.667 26.67 8.54 39.95 5.54
2763 2868 4.471726 AGTTACGACTCCGCGGCG 62.472 66.667 23.51 21.38 39.95 6.46
2764 2869 2.879462 CAGTTACGACTCCGCGGC 60.879 66.667 23.51 5.56 39.95 6.53
2765 2870 2.814183 AAGCAGTTACGACTCCGCGG 62.814 60.000 22.12 22.12 39.95 6.46
2766 2871 1.403972 GAAGCAGTTACGACTCCGCG 61.404 60.000 0.00 0.00 39.95 6.46
2767 2872 0.109226 AGAAGCAGTTACGACTCCGC 60.109 55.000 0.00 0.00 39.95 5.54
2768 2873 2.251893 GAAGAAGCAGTTACGACTCCG 58.748 52.381 0.00 0.00 42.50 4.63
2769 2874 3.299340 TGAAGAAGCAGTTACGACTCC 57.701 47.619 0.00 0.00 32.54 3.85
2770 2875 3.544285 CGATGAAGAAGCAGTTACGACTC 59.456 47.826 0.00 0.00 32.54 3.36
2771 2876 3.502920 CGATGAAGAAGCAGTTACGACT 58.497 45.455 0.00 0.00 36.25 4.18
2772 2877 2.028165 GCGATGAAGAAGCAGTTACGAC 59.972 50.000 0.00 0.00 0.00 4.34
2773 2878 2.259618 GCGATGAAGAAGCAGTTACGA 58.740 47.619 0.00 0.00 0.00 3.43
2774 2879 1.324736 GGCGATGAAGAAGCAGTTACG 59.675 52.381 0.00 0.00 0.00 3.18
2775 2880 2.605366 GAGGCGATGAAGAAGCAGTTAC 59.395 50.000 0.00 0.00 0.00 2.50
2776 2881 2.418746 GGAGGCGATGAAGAAGCAGTTA 60.419 50.000 0.00 0.00 0.00 2.24
2777 2882 1.677217 GGAGGCGATGAAGAAGCAGTT 60.677 52.381 0.00 0.00 0.00 3.16
2778 2883 0.107945 GGAGGCGATGAAGAAGCAGT 60.108 55.000 0.00 0.00 0.00 4.40
2779 2884 0.107993 TGGAGGCGATGAAGAAGCAG 60.108 55.000 0.00 0.00 0.00 4.24
2780 2885 0.543277 ATGGAGGCGATGAAGAAGCA 59.457 50.000 0.00 0.00 0.00 3.91
2781 2886 0.942962 CATGGAGGCGATGAAGAAGC 59.057 55.000 0.00 0.00 0.00 3.86
2782 2887 2.208431 GTCATGGAGGCGATGAAGAAG 58.792 52.381 0.00 0.00 31.00 2.85
2783 2888 1.134401 GGTCATGGAGGCGATGAAGAA 60.134 52.381 0.00 0.00 31.00 2.52
2784 2889 0.465705 GGTCATGGAGGCGATGAAGA 59.534 55.000 0.00 0.00 31.00 2.87
2785 2890 0.467384 AGGTCATGGAGGCGATGAAG 59.533 55.000 0.00 0.00 31.00 3.02
2786 2891 0.465705 GAGGTCATGGAGGCGATGAA 59.534 55.000 0.00 0.00 31.00 2.57
2787 2892 1.402896 GGAGGTCATGGAGGCGATGA 61.403 60.000 0.00 0.00 0.00 2.92
2788 2893 1.070445 GGAGGTCATGGAGGCGATG 59.930 63.158 0.00 0.00 0.00 3.84
2789 2894 0.765903 ATGGAGGTCATGGAGGCGAT 60.766 55.000 0.00 0.00 34.22 4.58
2790 2895 1.383109 ATGGAGGTCATGGAGGCGA 60.383 57.895 0.00 0.00 34.22 5.54
2791 2896 1.070445 GATGGAGGTCATGGAGGCG 59.930 63.158 0.00 0.00 35.97 5.52
2792 2897 0.396060 GAGATGGAGGTCATGGAGGC 59.604 60.000 0.00 0.00 35.97 4.70
2793 2898 1.055040 GGAGATGGAGGTCATGGAGG 58.945 60.000 0.00 0.00 35.97 4.30
2794 2899 2.100128 AGGAGATGGAGGTCATGGAG 57.900 55.000 0.00 0.00 35.97 3.86
2795 2900 2.121948 CAAGGAGATGGAGGTCATGGA 58.878 52.381 0.00 0.00 35.97 3.41
2796 2901 1.476471 GCAAGGAGATGGAGGTCATGG 60.476 57.143 0.00 0.00 35.97 3.66
2797 2902 1.809271 CGCAAGGAGATGGAGGTCATG 60.809 57.143 0.00 0.00 35.97 3.07
2798 2903 0.467384 CGCAAGGAGATGGAGGTCAT 59.533 55.000 0.00 0.00 39.13 3.06
2799 2904 1.900351 CGCAAGGAGATGGAGGTCA 59.100 57.895 0.00 0.00 0.00 4.02
2800 2905 1.522580 GCGCAAGGAGATGGAGGTC 60.523 63.158 0.30 0.00 38.28 3.85
2801 2906 2.586792 GCGCAAGGAGATGGAGGT 59.413 61.111 0.30 0.00 38.28 3.85
2802 2907 2.587194 CGCGCAAGGAGATGGAGG 60.587 66.667 8.75 0.00 38.28 4.30
2803 2908 1.880340 GACGCGCAAGGAGATGGAG 60.880 63.158 5.73 0.00 38.28 3.86
2804 2909 2.184322 GACGCGCAAGGAGATGGA 59.816 61.111 5.73 0.00 38.28 3.41
2805 2910 1.880340 GAGACGCGCAAGGAGATGG 60.880 63.158 5.73 0.00 38.28 3.51
2806 2911 1.880340 GGAGACGCGCAAGGAGATG 60.880 63.158 5.73 0.00 38.28 2.90
2807 2912 2.010582 GAGGAGACGCGCAAGGAGAT 62.011 60.000 5.73 0.00 38.28 2.75
2808 2913 2.676822 AGGAGACGCGCAAGGAGA 60.677 61.111 5.73 0.00 38.28 3.71
2809 2914 2.202676 GAGGAGACGCGCAAGGAG 60.203 66.667 5.73 0.00 38.28 3.69
2810 2915 3.760035 GGAGGAGACGCGCAAGGA 61.760 66.667 5.73 0.00 38.28 3.36
2818 2923 1.066587 GAAGATGGCGGAGGAGACG 59.933 63.158 0.00 0.00 0.00 4.18
2819 2924 0.827368 AAGAAGATGGCGGAGGAGAC 59.173 55.000 0.00 0.00 0.00 3.36
2820 2925 1.115467 GAAGAAGATGGCGGAGGAGA 58.885 55.000 0.00 0.00 0.00 3.71
2821 2926 0.826715 TGAAGAAGATGGCGGAGGAG 59.173 55.000 0.00 0.00 0.00 3.69
2822 2927 1.500474 ATGAAGAAGATGGCGGAGGA 58.500 50.000 0.00 0.00 0.00 3.71
2823 2928 2.158842 AGAATGAAGAAGATGGCGGAGG 60.159 50.000 0.00 0.00 0.00 4.30
2824 2929 2.871022 CAGAATGAAGAAGATGGCGGAG 59.129 50.000 0.00 0.00 39.69 4.63
2825 2930 2.237143 ACAGAATGAAGAAGATGGCGGA 59.763 45.455 0.00 0.00 39.69 5.54
2826 2931 2.611292 GACAGAATGAAGAAGATGGCGG 59.389 50.000 0.00 0.00 39.69 6.13
2827 2932 2.611292 GGACAGAATGAAGAAGATGGCG 59.389 50.000 0.00 0.00 39.69 5.69
2828 2933 3.614092 TGGACAGAATGAAGAAGATGGC 58.386 45.455 0.00 0.00 39.69 4.40
2829 2934 5.434408 TCATGGACAGAATGAAGAAGATGG 58.566 41.667 0.00 0.00 39.69 3.51
2830 2935 6.997239 TTCATGGACAGAATGAAGAAGATG 57.003 37.500 0.00 0.00 38.73 2.90
2837 2942 2.358957 CCGCTTCATGGACAGAATGAA 58.641 47.619 0.00 0.00 40.77 2.57
2838 2943 1.407299 CCCGCTTCATGGACAGAATGA 60.407 52.381 0.00 0.00 39.69 2.57
2839 2944 1.019673 CCCGCTTCATGGACAGAATG 58.980 55.000 0.00 0.00 46.00 2.67
2840 2945 0.911769 TCCCGCTTCATGGACAGAAT 59.088 50.000 0.00 0.00 0.00 2.40
2841 2946 0.911769 ATCCCGCTTCATGGACAGAA 59.088 50.000 0.00 0.00 32.36 3.02
2842 2947 0.911769 AATCCCGCTTCATGGACAGA 59.088 50.000 0.00 0.00 32.36 3.41
2843 2948 1.755179 AAATCCCGCTTCATGGACAG 58.245 50.000 0.00 0.00 32.36 3.51
2844 2949 2.214376 AAAATCCCGCTTCATGGACA 57.786 45.000 0.00 0.00 32.36 4.02
2845 2950 2.477863 CGAAAAATCCCGCTTCATGGAC 60.478 50.000 0.00 0.00 32.36 4.02
2846 2951 1.742831 CGAAAAATCCCGCTTCATGGA 59.257 47.619 0.00 0.00 34.54 3.41
2847 2952 1.742831 TCGAAAAATCCCGCTTCATGG 59.257 47.619 0.00 0.00 0.00 3.66
2848 2953 3.365832 CATCGAAAAATCCCGCTTCATG 58.634 45.455 0.00 0.00 0.00 3.07
2849 2954 2.223572 GCATCGAAAAATCCCGCTTCAT 60.224 45.455 0.00 0.00 0.00 2.57
2850 2955 1.132262 GCATCGAAAAATCCCGCTTCA 59.868 47.619 0.00 0.00 0.00 3.02
2851 2956 1.827578 GCATCGAAAAATCCCGCTTC 58.172 50.000 0.00 0.00 0.00 3.86
2852 2957 0.098728 CGCATCGAAAAATCCCGCTT 59.901 50.000 0.00 0.00 0.00 4.68
2853 2958 0.742990 TCGCATCGAAAAATCCCGCT 60.743 50.000 0.00 0.00 31.06 5.52
2854 2959 0.316196 CTCGCATCGAAAAATCCCGC 60.316 55.000 0.00 0.00 34.74 6.13
2855 2960 0.316196 GCTCGCATCGAAAAATCCCG 60.316 55.000 0.00 0.00 34.74 5.14
2856 2961 0.029433 GGCTCGCATCGAAAAATCCC 59.971 55.000 0.00 0.00 34.74 3.85
2857 2962 1.017387 AGGCTCGCATCGAAAAATCC 58.983 50.000 0.00 0.00 34.74 3.01
2858 2963 2.095853 TGAAGGCTCGCATCGAAAAATC 59.904 45.455 0.00 0.00 34.74 2.17
2859 2964 2.083774 TGAAGGCTCGCATCGAAAAAT 58.916 42.857 0.00 0.00 34.74 1.82
2860 2965 1.518325 TGAAGGCTCGCATCGAAAAA 58.482 45.000 0.00 0.00 34.74 1.94
2861 2966 1.665679 GATGAAGGCTCGCATCGAAAA 59.334 47.619 12.62 0.00 34.74 2.29
2862 2967 1.290203 GATGAAGGCTCGCATCGAAA 58.710 50.000 12.62 0.00 34.74 3.46
2863 2968 0.175531 TGATGAAGGCTCGCATCGAA 59.824 50.000 19.19 6.20 42.88 3.71
2864 2969 0.390492 ATGATGAAGGCTCGCATCGA 59.610 50.000 19.19 12.15 42.88 3.59
2865 2970 0.788995 GATGATGAAGGCTCGCATCG 59.211 55.000 19.19 0.00 42.88 3.84
2866 2971 1.799403 CAGATGATGAAGGCTCGCATC 59.201 52.381 18.25 18.25 40.92 3.91
2867 2972 1.140452 ACAGATGATGAAGGCTCGCAT 59.860 47.619 2.84 2.84 0.00 4.73
2868 2973 0.538584 ACAGATGATGAAGGCTCGCA 59.461 50.000 0.00 0.00 0.00 5.10
2869 2974 1.596727 GAACAGATGATGAAGGCTCGC 59.403 52.381 0.00 0.00 0.00 5.03
2870 2975 2.208431 GGAACAGATGATGAAGGCTCG 58.792 52.381 0.00 0.00 0.00 5.03
2871 2976 2.941720 GTGGAACAGATGATGAAGGCTC 59.058 50.000 0.00 0.00 41.80 4.70
2872 2977 2.679059 CGTGGAACAGATGATGAAGGCT 60.679 50.000 0.00 0.00 41.80 4.58
2873 2978 1.667724 CGTGGAACAGATGATGAAGGC 59.332 52.381 0.00 0.00 41.80 4.35
2874 2979 2.283298 CCGTGGAACAGATGATGAAGG 58.717 52.381 0.00 0.00 41.80 3.46
2875 2980 1.667724 GCCGTGGAACAGATGATGAAG 59.332 52.381 0.00 0.00 41.80 3.02
2876 2981 1.678728 GGCCGTGGAACAGATGATGAA 60.679 52.381 0.00 0.00 41.80 2.57
2877 2982 0.107703 GGCCGTGGAACAGATGATGA 60.108 55.000 0.00 0.00 41.80 2.92
2878 2983 1.431488 CGGCCGTGGAACAGATGATG 61.431 60.000 19.50 0.00 41.80 3.07
2879 2984 1.153369 CGGCCGTGGAACAGATGAT 60.153 57.895 19.50 0.00 41.80 2.45
2880 2985 2.264480 CGGCCGTGGAACAGATGA 59.736 61.111 19.50 0.00 41.80 2.92
2881 2986 3.499737 GCGGCCGTGGAACAGATG 61.500 66.667 28.70 0.00 41.80 2.90
2882 2987 2.819984 AATGCGGCCGTGGAACAGAT 62.820 55.000 28.70 6.01 41.80 2.90
2883 2988 2.173758 TAATGCGGCCGTGGAACAGA 62.174 55.000 28.70 5.04 41.80 3.41
2884 2989 1.743623 TAATGCGGCCGTGGAACAG 60.744 57.895 28.70 0.00 41.80 3.16
2885 2990 2.036006 GTAATGCGGCCGTGGAACA 61.036 57.895 28.70 16.34 35.74 3.18
2886 2991 2.789249 GTAATGCGGCCGTGGAAC 59.211 61.111 28.70 16.36 0.00 3.62
2887 2992 2.223200 TACGTAATGCGGCCGTGGAA 62.223 55.000 28.70 10.83 46.52 3.53
2888 2993 2.708865 TACGTAATGCGGCCGTGGA 61.709 57.895 28.70 11.81 46.52 4.02
2889 2994 2.202770 TACGTAATGCGGCCGTGG 60.203 61.111 28.70 11.95 46.52 4.94
2890 2995 2.519175 GGTACGTAATGCGGCCGTG 61.519 63.158 28.70 12.14 46.52 4.94
2891 2996 2.202783 GGTACGTAATGCGGCCGT 60.203 61.111 28.70 9.89 46.52 5.68
2892 2997 1.519898 AAGGTACGTAATGCGGCCG 60.520 57.895 24.05 24.05 46.52 6.13
2893 2998 0.460635 TCAAGGTACGTAATGCGGCC 60.461 55.000 0.00 0.00 46.52 6.13
2894 2999 1.578583 ATCAAGGTACGTAATGCGGC 58.421 50.000 0.00 0.00 46.52 6.53
2895 3000 2.729882 GCTATCAAGGTACGTAATGCGG 59.270 50.000 0.00 0.00 46.52 5.69
2897 3002 3.184581 GCTGCTATCAAGGTACGTAATGC 59.815 47.826 0.00 0.00 0.00 3.56
2898 3003 3.741344 GGCTGCTATCAAGGTACGTAATG 59.259 47.826 0.00 0.00 0.00 1.90
2899 3004 3.552273 CGGCTGCTATCAAGGTACGTAAT 60.552 47.826 0.00 0.00 0.00 1.89
2900 3005 2.223641 CGGCTGCTATCAAGGTACGTAA 60.224 50.000 0.00 0.00 0.00 3.18
2901 3006 1.335810 CGGCTGCTATCAAGGTACGTA 59.664 52.381 0.00 0.00 0.00 3.57
2902 3007 0.102481 CGGCTGCTATCAAGGTACGT 59.898 55.000 0.00 0.00 0.00 3.57
2903 3008 0.597637 CCGGCTGCTATCAAGGTACG 60.598 60.000 0.00 0.00 0.00 3.67
2904 3009 0.249911 CCCGGCTGCTATCAAGGTAC 60.250 60.000 0.00 0.00 0.00 3.34
2905 3010 0.689745 ACCCGGCTGCTATCAAGGTA 60.690 55.000 0.00 0.00 0.00 3.08
2906 3011 1.995626 ACCCGGCTGCTATCAAGGT 60.996 57.895 0.00 0.00 0.00 3.50
2907 3012 1.524621 CACCCGGCTGCTATCAAGG 60.525 63.158 0.00 0.00 0.00 3.61
2908 3013 2.182842 GCACCCGGCTGCTATCAAG 61.183 63.158 14.70 0.00 40.25 3.02
2909 3014 2.124736 GCACCCGGCTGCTATCAA 60.125 61.111 14.70 0.00 40.25 2.57


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

AutoCloner maintained by Alex Coulton.