Multiple sequence alignment - TraesCS6B01G459000

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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 TraesCS6B01G459000 chr6B 100.000 3401 0 0 1 3401 713742663 713746063 0.000000e+00 6281
1 TraesCS6B01G459000 chr6B 91.040 2701 174 38 1 2688 713847038 713849683 0.000000e+00 3585
2 TraesCS6B01G459000 chr6B 86.274 2579 272 42 363 2924 713163390 713165903 0.000000e+00 2726
3 TraesCS6B01G459000 chr6B 86.216 2561 286 43 392 2927 713783892 713781374 0.000000e+00 2712
4 TraesCS6B01G459000 chr6B 95.148 948 45 1 351 1298 713205626 713206572 0.000000e+00 1495
5 TraesCS6B01G459000 chr6B 83.583 1535 172 45 1291 2818 713206808 713208269 0.000000e+00 1365
6 TraesCS6B01G459000 chr6B 84.751 1246 168 15 1200 2441 713780414 713779187 0.000000e+00 1229
7 TraesCS6B01G459000 chr6B 83.781 968 153 3 409 1374 713487739 713488704 0.000000e+00 915
8 TraesCS6B01G459000 chr6B 82.202 972 159 11 409 1374 713960743 713961706 0.000000e+00 824
9 TraesCS6B01G459000 chr6B 81.238 1002 170 15 364 1356 713391163 713392155 0.000000e+00 793
10 TraesCS6B01G459000 chr6B 78.295 1032 208 16 1180 2202 713773982 713775006 0.000000e+00 651
11 TraesCS6B01G459000 chr6B 94.752 343 13 3 1 343 713205236 713205573 2.320000e-146 529
12 TraesCS6B01G459000 chr6B 94.697 132 7 0 3065 3196 644577292 644577161 4.450000e-49 206
13 TraesCS6B01G459000 chr6B 82.063 223 30 6 1 217 713784526 713784308 7.500000e-42 182
14 TraesCS6B01G459000 chr6D 91.093 2077 181 4 351 2425 467848191 467850265 0.000000e+00 2808
15 TraesCS6B01G459000 chr6D 98.017 353 5 1 1 353 467847764 467848114 2.240000e-171 612
16 TraesCS6B01G459000 chr6A 90.568 2078 190 6 351 2425 613962409 613964483 0.000000e+00 2747
17 TraesCS6B01G459000 chr6A 89.046 566 60 2 1532 2096 613979093 613979657 0.000000e+00 701
18 TraesCS6B01G459000 chr5A 96.124 129 5 0 3065 3193 655994067 655993939 9.560000e-51 211
19 TraesCS6B01G459000 chr3B 93.056 144 6 4 3066 3207 407477890 407477749 1.240000e-49 207
20 TraesCS6B01G459000 chr3B 94.776 134 6 1 3060 3193 797464003 797463871 1.240000e-49 207
21 TraesCS6B01G459000 chr5B 93.525 139 7 2 3055 3192 292392125 292392262 4.450000e-49 206
22 TraesCS6B01G459000 chr4B 94.161 137 4 4 3062 3196 383097925 383097791 4.450000e-49 206
23 TraesCS6B01G459000 chr2B 94.074 135 8 0 3059 3193 517437016 517436882 4.450000e-49 206
24 TraesCS6B01G459000 chr2B 94.697 132 7 0 3065 3196 789947090 789946959 4.450000e-49 206
25 TraesCS6B01G459000 chr2B 94.074 135 7 1 3061 3195 367825731 367825598 1.600000e-48 204


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 TraesCS6B01G459000 chr6B 713742663 713746063 3400 False 6281.000000 6281 100.000000 1 3401 1 chr6B.!!$F4 3400
1 TraesCS6B01G459000 chr6B 713847038 713849683 2645 False 3585.000000 3585 91.040000 1 2688 1 chr6B.!!$F6 2687
2 TraesCS6B01G459000 chr6B 713163390 713165903 2513 False 2726.000000 2726 86.274000 363 2924 1 chr6B.!!$F1 2561
3 TraesCS6B01G459000 chr6B 713779187 713784526 5339 True 1374.333333 2712 84.343333 1 2927 3 chr6B.!!$R2 2926
4 TraesCS6B01G459000 chr6B 713205236 713208269 3033 False 1129.666667 1495 91.161000 1 2818 3 chr6B.!!$F8 2817
5 TraesCS6B01G459000 chr6B 713487739 713488704 965 False 915.000000 915 83.781000 409 1374 1 chr6B.!!$F3 965
6 TraesCS6B01G459000 chr6B 713960743 713961706 963 False 824.000000 824 82.202000 409 1374 1 chr6B.!!$F7 965
7 TraesCS6B01G459000 chr6B 713391163 713392155 992 False 793.000000 793 81.238000 364 1356 1 chr6B.!!$F2 992
8 TraesCS6B01G459000 chr6B 713773982 713775006 1024 False 651.000000 651 78.295000 1180 2202 1 chr6B.!!$F5 1022
9 TraesCS6B01G459000 chr6D 467847764 467850265 2501 False 1710.000000 2808 94.555000 1 2425 2 chr6D.!!$F1 2424
10 TraesCS6B01G459000 chr6A 613962409 613964483 2074 False 2747.000000 2747 90.568000 351 2425 1 chr6A.!!$F1 2074
11 TraesCS6B01G459000 chr6A 613979093 613979657 564 False 701.000000 701 89.046000 1532 2096 1 chr6A.!!$F2 564

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
862 1169 6.893583 AGAAGCATGATATTACCAACTCAGT 58.106 36.0 0.0 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2682 3257 0.324368 ACACCGCCAGAGGATACAGA 60.324 55.0 0.0 0.0 41.41 3.41 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
468 775 9.613428 TTTAGGAATATGACTACTGATTTGGTG 57.387 33.333 0.00 0.00 0.00 4.17
862 1169 6.893583 AGAAGCATGATATTACCAACTCAGT 58.106 36.000 0.00 0.00 0.00 3.41
1206 1514 4.232310 GAGCACATTGGGGAGCTC 57.768 61.111 4.71 4.71 45.50 4.09
1381 1932 1.410882 GTCTCCATGCTGGTAGAGGTC 59.589 57.143 2.68 0.00 39.03 3.85
1391 1948 0.566679 GGTAGAGGTCCAGGGGGTAT 59.433 60.000 0.00 0.00 34.93 2.73
1398 1955 0.837940 GTCCAGGGGGTATTGAGGAC 59.162 60.000 0.00 0.00 38.77 3.85
1414 1971 7.587037 ATTGAGGACAATTGTTTCTCAAAGA 57.413 32.000 35.12 24.90 43.95 2.52
1420 1977 9.136323 AGGACAATTGTTTCTCAAAGAGTAAAT 57.864 29.630 13.36 0.00 39.62 1.40
1474 2031 1.941294 CATGCTGCTCACTGGATCTTC 59.059 52.381 0.00 0.00 0.00 2.87
1500 2057 4.056125 GAGGGTTTTGGCAGGCGC 62.056 66.667 0.00 0.00 37.44 6.53
1527 2084 1.135527 TGCCATATTGCTTGCTGCTTC 59.864 47.619 0.00 0.00 43.37 3.86
1528 2085 1.862815 GCCATATTGCTTGCTGCTTCG 60.863 52.381 0.00 0.00 43.37 3.79
1530 2087 2.159338 CCATATTGCTTGCTGCTTCGTT 60.159 45.455 0.00 0.00 43.37 3.85
1559 2116 7.456725 CCTAATATCATTAGGGGCATAGATGG 58.543 42.308 14.64 0.00 38.26 3.51
1566 2123 0.538287 GGGGCATAGATGGTTCTGGC 60.538 60.000 0.00 0.00 34.59 4.85
1573 2130 4.442706 CATAGATGGTTCTGGCGTTAAGT 58.557 43.478 0.00 0.00 33.17 2.24
1606 2163 1.630878 CTAGGAAACTGAAGGCCCTGT 59.369 52.381 0.00 0.00 43.88 4.00
1743 2300 0.960364 TCTGTTCGGCCATTTCCAGC 60.960 55.000 2.24 0.00 0.00 4.85
1778 2335 1.516161 TCATTGTCAGTGCTGTCAGC 58.484 50.000 18.32 18.32 42.82 4.26
1779 2336 0.165295 CATTGTCAGTGCTGTCAGCG 59.835 55.000 19.68 6.13 46.26 5.18
1823 2380 1.203038 TGGCATGTCCACATCTTTGGT 60.203 47.619 4.93 0.00 40.72 3.67
1871 2428 1.134946 CAGCCTAGAAAAATTGCCGGG 59.865 52.381 2.18 0.00 0.00 5.73
1872 2429 0.459899 GCCTAGAAAAATTGCCGGGG 59.540 55.000 2.18 0.00 0.00 5.73
1921 2478 2.953020 AGCTCAAGTTAGAACTCAGCG 58.047 47.619 15.49 2.29 43.99 5.18
1995 2552 1.501170 TCCATTCTGGGTTTGTGGGAA 59.499 47.619 0.00 0.00 38.32 3.97
2005 2562 2.102420 GGTTTGTGGGAAGAAGGGTTTG 59.898 50.000 0.00 0.00 0.00 2.93
2010 2567 3.140144 TGTGGGAAGAAGGGTTTGAGATT 59.860 43.478 0.00 0.00 0.00 2.40
2016 2573 5.105997 GGAAGAAGGGTTTGAGATTGATGTG 60.106 44.000 0.00 0.00 0.00 3.21
2017 2574 4.990526 AGAAGGGTTTGAGATTGATGTGT 58.009 39.130 0.00 0.00 0.00 3.72
2061 2618 1.166531 AAAGGCTCACGGTGCTTGAC 61.167 55.000 2.51 0.00 0.00 3.18
2080 2637 7.882791 TGCTTGACCTTTTCTACTCAAATATGA 59.117 33.333 0.00 0.00 0.00 2.15
2154 2711 1.914108 ACCCTTAGCCTTGGAAGTACC 59.086 52.381 0.00 0.00 39.54 3.34
2155 2712 1.212195 CCCTTAGCCTTGGAAGTACCC 59.788 57.143 0.00 0.00 38.00 3.69
2185 2742 2.370349 TCTCTGGGCTAGAACTTCTCG 58.630 52.381 1.15 0.00 34.32 4.04
2193 2750 4.441634 GGGCTAGAACTTCTCGAAAGCATA 60.442 45.833 11.64 0.06 33.39 3.14
2203 2760 7.331791 ACTTCTCGAAAGCATAAAGGAAGTAT 58.668 34.615 7.38 0.00 39.81 2.12
2212 2769 6.663734 AGCATAAAGGAAGTATGGCTTAGTT 58.336 36.000 0.48 0.48 37.59 2.24
2227 2784 3.633986 GCTTAGTTTTCATCATCCCTGGG 59.366 47.826 6.33 6.33 0.00 4.45
2324 2883 4.338400 AGAAGAAAAGAGAAACAAACCCGG 59.662 41.667 0.00 0.00 0.00 5.73
2371 2930 3.058155 GCAGATGCAGCTTGATAGGAATG 60.058 47.826 0.00 0.00 41.59 2.67
2392 2957 3.323691 TGAGAATCAACCCGTCTTGAAGA 59.676 43.478 0.00 0.00 45.97 2.87
2412 2977 1.538047 TGCAATGAGCTCAGAAACCC 58.462 50.000 22.96 7.49 45.94 4.11
2425 2990 1.228459 AAACCCGGGGCAACTTCTC 60.228 57.895 27.92 0.00 0.00 2.87
2430 2995 1.078848 CGGGGCAACTTCTCTCCTG 60.079 63.158 0.00 0.00 0.00 3.86
2436 3001 4.133078 GGGCAACTTCTCTCCTGAATATG 58.867 47.826 0.00 0.00 0.00 1.78
2465 3030 3.546543 GCTGCCATGCCATGCCAT 61.547 61.111 0.00 0.00 0.00 4.40
2466 3031 2.421314 CTGCCATGCCATGCCATG 59.579 61.111 9.68 9.68 41.71 3.66
2467 3032 3.807631 CTGCCATGCCATGCCATGC 62.808 63.158 11.13 7.49 40.92 4.06
2468 3033 4.619227 GCCATGCCATGCCATGCC 62.619 66.667 11.13 0.00 40.92 4.40
2469 3034 3.157949 CCATGCCATGCCATGCCA 61.158 61.111 11.13 0.00 40.92 4.92
2470 3035 2.515979 CCATGCCATGCCATGCCAT 61.516 57.895 11.13 0.00 40.92 4.40
2471 3036 1.449782 CATGCCATGCCATGCCATT 59.550 52.632 3.39 0.00 36.52 3.16
2472 3037 0.602638 CATGCCATGCCATGCCATTC 60.603 55.000 3.39 0.00 36.52 2.67
2548 3114 9.621629 TCCTTGTTAGTATGTTGTAATAATGGG 57.378 33.333 0.00 0.00 0.00 4.00
2568 3134 1.834188 CTGAAATAAAGCCCACCCGT 58.166 50.000 0.00 0.00 0.00 5.28
2569 3135 1.743394 CTGAAATAAAGCCCACCCGTC 59.257 52.381 0.00 0.00 0.00 4.79
2570 3136 1.074084 TGAAATAAAGCCCACCCGTCA 59.926 47.619 0.00 0.00 0.00 4.35
2571 3137 2.164338 GAAATAAAGCCCACCCGTCAA 58.836 47.619 0.00 0.00 0.00 3.18
2573 3139 0.696501 ATAAAGCCCACCCGTCAAGT 59.303 50.000 0.00 0.00 0.00 3.16
2574 3140 1.350071 TAAAGCCCACCCGTCAAGTA 58.650 50.000 0.00 0.00 0.00 2.24
2589 3157 4.260579 CGTCAAGTACATTGTTGTTCTGCA 60.261 41.667 0.00 0.00 40.05 4.41
2590 3158 5.207768 GTCAAGTACATTGTTGTTCTGCAG 58.792 41.667 7.63 7.63 40.05 4.41
2611 3185 5.112686 CAGCTGTTAGAGGTGGTATTTCTC 58.887 45.833 5.25 0.00 45.05 2.87
2615 3189 6.655425 GCTGTTAGAGGTGGTATTTCTCTTTT 59.345 38.462 0.00 0.00 38.62 2.27
2616 3190 7.148390 GCTGTTAGAGGTGGTATTTCTCTTTTC 60.148 40.741 0.00 0.00 38.62 2.29
2617 3191 7.974504 TGTTAGAGGTGGTATTTCTCTTTTCT 58.025 34.615 0.00 0.00 38.62 2.52
2618 3192 7.878127 TGTTAGAGGTGGTATTTCTCTTTTCTG 59.122 37.037 0.00 0.00 38.62 3.02
2619 3193 5.249420 AGAGGTGGTATTTCTCTTTTCTGC 58.751 41.667 0.00 0.00 34.55 4.26
2622 3196 6.071320 AGGTGGTATTTCTCTTTTCTGCTTT 58.929 36.000 0.00 0.00 0.00 3.51
2639 3214 5.702670 TCTGCTTTGGTATCTCTTTGAGTTG 59.297 40.000 0.00 0.00 0.00 3.16
2650 3225 4.758674 TCTCTTTGAGTTGCTGAAGAATGG 59.241 41.667 0.00 0.00 0.00 3.16
2669 3244 4.925390 TGGATGGCCACTGCAATATATA 57.075 40.909 8.16 0.00 39.92 0.86
2670 3245 5.455392 TGGATGGCCACTGCAATATATAT 57.545 39.130 8.16 0.00 39.92 0.86
2682 3257 9.543783 CACTGCAATATATATGATGCTCTGTAT 57.456 33.333 19.24 3.37 39.49 2.29
2696 3271 3.056891 GCTCTGTATCTGTATCCTCTGGC 60.057 52.174 0.00 0.00 0.00 4.85
2698 3273 2.230025 CTGTATCTGTATCCTCTGGCGG 59.770 54.545 0.00 0.00 0.00 6.13
2699 3274 2.240279 GTATCTGTATCCTCTGGCGGT 58.760 52.381 0.00 0.00 0.00 5.68
2703 3278 0.902984 TGTATCCTCTGGCGGTGTGT 60.903 55.000 0.00 0.00 0.00 3.72
2745 3323 7.450074 CAGCTTAATAAGGGTGTGGTGATATA 58.550 38.462 1.88 0.00 0.00 0.86
2798 3383 6.020971 TGCAGAAAATTCGTCAGTACTCTA 57.979 37.500 0.00 0.00 0.00 2.43
2829 3416 2.420642 CATCTATGCTGCGCCTGTAAT 58.579 47.619 4.18 0.00 0.00 1.89
2851 3438 2.433970 CCTTTTCTTTTGCCCTTGGTGA 59.566 45.455 0.00 0.00 0.00 4.02
2853 3440 3.749665 TTTCTTTTGCCCTTGGTGATG 57.250 42.857 0.00 0.00 0.00 3.07
2855 3442 3.173953 TCTTTTGCCCTTGGTGATGAT 57.826 42.857 0.00 0.00 0.00 2.45
2856 3443 3.509442 TCTTTTGCCCTTGGTGATGATT 58.491 40.909 0.00 0.00 0.00 2.57
2861 3451 1.684983 GCCCTTGGTGATGATTCCATG 59.315 52.381 0.00 0.00 33.50 3.66
2869 3459 3.314635 GGTGATGATTCCATGTCTGCTTC 59.685 47.826 0.00 0.00 32.09 3.86
2879 3469 2.604686 TCTGCTTCGGGGCTCTGT 60.605 61.111 0.00 0.00 0.00 3.41
2906 3497 0.036388 TGGTGAAGAATGAGTCGGCC 60.036 55.000 0.00 0.00 0.00 6.13
2914 3505 1.033746 AATGAGTCGGCCCTGCAATG 61.034 55.000 0.00 0.00 0.00 2.82
2924 3515 1.753073 GCCCTGCAATGTAAGATGCTT 59.247 47.619 0.00 0.00 42.97 3.91
2927 3518 3.184541 CCTGCAATGTAAGATGCTTTGC 58.815 45.455 10.58 10.58 42.97 3.68
2928 3519 3.119245 CCTGCAATGTAAGATGCTTTGCT 60.119 43.478 15.88 0.00 43.18 3.91
2930 3521 5.239359 TGCAATGTAAGATGCTTTGCTAG 57.761 39.130 15.88 0.00 43.18 3.42
2944 3535 5.119694 GCTTTGCTAGCCTTTGTATCTACT 58.880 41.667 13.29 0.00 44.48 2.57
2945 3536 6.281405 GCTTTGCTAGCCTTTGTATCTACTA 58.719 40.000 13.29 0.00 44.48 1.82
2947 3538 8.088981 GCTTTGCTAGCCTTTGTATCTACTATA 58.911 37.037 13.29 0.00 44.48 1.31
2982 3589 3.803082 CATCGTTGGGCGGCAGTG 61.803 66.667 12.47 0.00 41.72 3.66
2994 3601 2.484770 GGCGGCAGTGATATCTTTGGTA 60.485 50.000 3.07 0.00 0.00 3.25
2995 3602 3.202906 GCGGCAGTGATATCTTTGGTAA 58.797 45.455 3.98 0.00 0.00 2.85
3001 3608 7.173218 CGGCAGTGATATCTTTGGTAATTGTAT 59.827 37.037 3.98 0.00 0.00 2.29
3041 3648 8.366671 ACGTATTTAGATTAGATGCAGAAACC 57.633 34.615 0.00 0.00 0.00 3.27
3050 3657 4.623932 AGATGCAGAAACCTTGTCAGTA 57.376 40.909 0.00 0.00 0.00 2.74
3051 3658 4.973168 AGATGCAGAAACCTTGTCAGTAA 58.027 39.130 0.00 0.00 0.00 2.24
3058 3665 5.687285 CAGAAACCTTGTCAGTAATTTGCAC 59.313 40.000 0.00 0.00 0.00 4.57
3060 3667 2.552315 ACCTTGTCAGTAATTTGCACCG 59.448 45.455 0.00 0.00 0.00 4.94
3061 3668 2.811431 CCTTGTCAGTAATTTGCACCGA 59.189 45.455 0.00 0.00 0.00 4.69
3062 3669 3.440173 CCTTGTCAGTAATTTGCACCGAT 59.560 43.478 0.00 0.00 0.00 4.18
3063 3670 4.437390 CCTTGTCAGTAATTTGCACCGATC 60.437 45.833 0.00 0.00 0.00 3.69
3064 3671 2.670905 TGTCAGTAATTTGCACCGATCG 59.329 45.455 8.51 8.51 0.00 3.69
3065 3672 2.671396 GTCAGTAATTTGCACCGATCGT 59.329 45.455 15.09 0.00 0.00 3.73
3066 3673 3.861113 GTCAGTAATTTGCACCGATCGTA 59.139 43.478 15.09 0.00 0.00 3.43
3067 3674 3.861113 TCAGTAATTTGCACCGATCGTAC 59.139 43.478 15.09 7.22 0.00 3.67
3068 3675 3.863424 CAGTAATTTGCACCGATCGTACT 59.137 43.478 15.09 9.42 0.00 2.73
3069 3676 4.026804 CAGTAATTTGCACCGATCGTACTC 60.027 45.833 15.09 0.80 0.00 2.59
3070 3677 1.935933 ATTTGCACCGATCGTACTCC 58.064 50.000 15.09 0.00 0.00 3.85
3071 3678 0.108520 TTTGCACCGATCGTACTCCC 60.109 55.000 15.09 0.00 0.00 4.30
3072 3679 0.968901 TTGCACCGATCGTACTCCCT 60.969 55.000 15.09 0.00 0.00 4.20
3073 3680 1.359475 GCACCGATCGTACTCCCTC 59.641 63.158 15.09 0.00 0.00 4.30
3074 3681 2.031360 CACCGATCGTACTCCCTCC 58.969 63.158 15.09 0.00 0.00 4.30
3075 3682 1.152798 ACCGATCGTACTCCCTCCC 60.153 63.158 15.09 0.00 0.00 4.30
3076 3683 1.150992 CCGATCGTACTCCCTCCCT 59.849 63.158 15.09 0.00 0.00 4.20
3077 3684 0.890090 CCGATCGTACTCCCTCCCTC 60.890 65.000 15.09 0.00 0.00 4.30
3078 3685 0.890090 CGATCGTACTCCCTCCCTCC 60.890 65.000 7.03 0.00 0.00 4.30
3079 3686 0.890090 GATCGTACTCCCTCCCTCCG 60.890 65.000 0.00 0.00 0.00 4.63
3080 3687 2.354755 ATCGTACTCCCTCCCTCCGG 62.355 65.000 0.00 0.00 0.00 5.14
3081 3688 3.013631 GTACTCCCTCCCTCCGGA 58.986 66.667 2.93 2.93 36.45 5.14
3082 3689 1.309006 GTACTCCCTCCCTCCGGAA 59.691 63.158 5.23 0.00 37.86 4.30
3083 3690 0.325016 GTACTCCCTCCCTCCGGAAA 60.325 60.000 5.23 0.00 37.86 3.13
3084 3691 0.640495 TACTCCCTCCCTCCGGAAAT 59.360 55.000 5.23 0.00 37.86 2.17
3085 3692 0.640495 ACTCCCTCCCTCCGGAAATA 59.360 55.000 5.23 0.00 37.86 1.40
3086 3693 1.049402 CTCCCTCCCTCCGGAAATAC 58.951 60.000 5.23 0.00 37.86 1.89
3087 3694 0.640495 TCCCTCCCTCCGGAAATACT 59.360 55.000 5.23 0.00 37.86 2.12
3088 3695 1.009183 TCCCTCCCTCCGGAAATACTT 59.991 52.381 5.23 0.00 37.86 2.24
3089 3696 1.141053 CCCTCCCTCCGGAAATACTTG 59.859 57.143 5.23 0.00 37.86 3.16
3090 3697 1.838077 CCTCCCTCCGGAAATACTTGT 59.162 52.381 5.23 0.00 37.86 3.16
3091 3698 2.158943 CCTCCCTCCGGAAATACTTGTC 60.159 54.545 5.23 0.00 37.86 3.18
3092 3699 2.500098 CTCCCTCCGGAAATACTTGTCA 59.500 50.000 5.23 0.00 37.86 3.58
3093 3700 3.112263 TCCCTCCGGAAATACTTGTCAT 58.888 45.455 5.23 0.00 34.19 3.06
3094 3701 3.134081 TCCCTCCGGAAATACTTGTCATC 59.866 47.826 5.23 0.00 34.19 2.92
3095 3702 3.118408 CCCTCCGGAAATACTTGTCATCA 60.118 47.826 5.23 0.00 0.00 3.07
3096 3703 4.513442 CCTCCGGAAATACTTGTCATCAA 58.487 43.478 5.23 0.00 0.00 2.57
3097 3704 4.941263 CCTCCGGAAATACTTGTCATCAAA 59.059 41.667 5.23 0.00 32.87 2.69
3098 3705 5.414454 CCTCCGGAAATACTTGTCATCAAAA 59.586 40.000 5.23 0.00 32.87 2.44
3099 3706 6.095440 CCTCCGGAAATACTTGTCATCAAAAT 59.905 38.462 5.23 0.00 32.87 1.82
3100 3707 6.851609 TCCGGAAATACTTGTCATCAAAATG 58.148 36.000 0.00 0.00 32.87 2.32
3101 3708 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
3102 3709 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
3103 3710 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
3179 3786 9.490663 GTCTATTTTGATGACAAGTATTTTCGG 57.509 33.333 0.00 0.00 37.32 4.30
3180 3787 9.443323 TCTATTTTGATGACAAGTATTTTCGGA 57.557 29.630 0.00 0.00 37.32 4.55
3181 3788 9.490663 CTATTTTGATGACAAGTATTTTCGGAC 57.509 33.333 0.00 0.00 37.32 4.79
3182 3789 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
3183 3790 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
3184 3791 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
3185 3792 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
3186 3793 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
3187 3794 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
3188 3795 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
3189 3796 1.755380 AGTATTTTCGGACGGAGGGAG 59.245 52.381 0.00 0.00 0.00 4.30
3195 3802 0.839277 TCGGACGGAGGGAGTATGTA 59.161 55.000 0.00 0.00 0.00 2.29
3204 3811 4.683400 CGGAGGGAGTATGTAATTGCTTGT 60.683 45.833 0.00 0.00 0.00 3.16
3223 3830 5.803967 GCTTGTTTGCAATCCTATTCTTCTG 59.196 40.000 0.00 0.00 33.65 3.02
3224 3831 6.571150 GCTTGTTTGCAATCCTATTCTTCTGT 60.571 38.462 0.00 0.00 33.65 3.41
3226 3833 5.415701 TGTTTGCAATCCTATTCTTCTGTCC 59.584 40.000 0.00 0.00 0.00 4.02
3227 3834 5.441718 TTGCAATCCTATTCTTCTGTCCT 57.558 39.130 0.00 0.00 0.00 3.85
3228 3835 5.028549 TGCAATCCTATTCTTCTGTCCTC 57.971 43.478 0.00 0.00 0.00 3.71
3229 3836 4.141620 TGCAATCCTATTCTTCTGTCCTCC 60.142 45.833 0.00 0.00 0.00 4.30
3230 3837 4.102367 GCAATCCTATTCTTCTGTCCTCCT 59.898 45.833 0.00 0.00 0.00 3.69
3243 3850 2.026915 TGTCCTCCTTGGTGATCATGTG 60.027 50.000 0.00 0.00 37.07 3.21
3244 3851 1.561076 TCCTCCTTGGTGATCATGTGG 59.439 52.381 0.00 0.00 37.07 4.17
3248 3855 1.372582 CTTGGTGATCATGTGGGTCG 58.627 55.000 0.00 0.00 0.00 4.79
3251 3858 0.811616 GGTGATCATGTGGGTCGCTC 60.812 60.000 0.00 0.00 0.00 5.03
3252 3859 1.141665 TGATCATGTGGGTCGCTCG 59.858 57.895 0.00 0.00 0.00 5.03
3261 3868 4.500116 GGTCGCTCGGCTCTGTCC 62.500 72.222 0.00 0.00 0.00 4.02
3262 3869 4.500116 GTCGCTCGGCTCTGTCCC 62.500 72.222 0.00 0.00 0.00 4.46
3271 3878 1.741732 CGGCTCTGTCCCTTTCATCTG 60.742 57.143 0.00 0.00 0.00 2.90
3298 3905 8.623903 TCAGCAGAATGGAATAAATGATGTAAC 58.376 33.333 0.00 0.00 35.86 2.50
3336 3943 9.800572 ATCTATCTTACTCATCTACAGCTTACA 57.199 33.333 0.00 0.00 0.00 2.41
3337 3944 9.628500 TCTATCTTACTCATCTACAGCTTACAA 57.372 33.333 0.00 0.00 0.00 2.41
3345 3952 6.946340 TCATCTACAGCTTACAAATGAAGGA 58.054 36.000 0.00 0.00 0.00 3.36
3347 3954 7.550551 TCATCTACAGCTTACAAATGAAGGAAG 59.449 37.037 0.00 0.00 0.00 3.46
3349 3956 4.082125 ACAGCTTACAAATGAAGGAAGGG 58.918 43.478 0.00 0.00 0.00 3.95
3350 3957 4.082125 CAGCTTACAAATGAAGGAAGGGT 58.918 43.478 0.00 0.00 0.00 4.34
3352 3959 5.123979 CAGCTTACAAATGAAGGAAGGGTAC 59.876 44.000 0.00 0.00 0.00 3.34
3353 3960 5.014228 AGCTTACAAATGAAGGAAGGGTACT 59.986 40.000 0.00 0.00 0.00 2.73
3354 3961 6.214819 AGCTTACAAATGAAGGAAGGGTACTA 59.785 38.462 0.00 0.00 0.00 1.82
3355 3962 6.539103 GCTTACAAATGAAGGAAGGGTACTAG 59.461 42.308 0.00 0.00 0.00 2.57
3356 3963 7.563724 TTACAAATGAAGGAAGGGTACTAGT 57.436 36.000 0.00 0.00 0.00 2.57
3357 3964 8.669055 TTACAAATGAAGGAAGGGTACTAGTA 57.331 34.615 0.00 0.00 0.00 1.82
3358 3965 6.944096 ACAAATGAAGGAAGGGTACTAGTAC 58.056 40.000 22.53 22.53 35.40 2.73
3359 3966 6.729569 ACAAATGAAGGAAGGGTACTAGTACT 59.270 38.462 27.71 12.23 36.36 2.73
3360 3967 7.093421 ACAAATGAAGGAAGGGTACTAGTACTC 60.093 40.741 27.71 25.57 36.81 2.59
3361 3968 5.525454 TGAAGGAAGGGTACTAGTACTCA 57.475 43.478 30.04 20.65 38.98 3.41
3362 3969 5.259632 TGAAGGAAGGGTACTAGTACTCAC 58.740 45.833 30.04 22.73 38.98 3.51
3363 3970 5.014966 TGAAGGAAGGGTACTAGTACTCACT 59.985 44.000 30.04 22.01 38.98 3.41
3365 3972 6.000246 AGGAAGGGTACTAGTACTCACTAC 58.000 45.833 30.04 19.05 38.98 2.73
3367 3974 6.054941 GGAAGGGTACTAGTACTCACTACTC 58.945 48.000 30.04 18.25 38.98 2.59
3368 3975 6.352565 GGAAGGGTACTAGTACTCACTACTCA 60.353 46.154 30.04 0.00 38.98 3.41
3369 3976 6.237887 AGGGTACTAGTACTCACTACTCAG 57.762 45.833 30.04 0.00 38.98 3.35
3373 3980 4.519213 ACTAGTACTCACTACTCAGGCAG 58.481 47.826 0.00 0.00 36.95 4.85
3375 3982 1.819288 GTACTCACTACTCAGGCAGCA 59.181 52.381 0.00 0.00 0.00 4.41
3376 3983 1.566211 ACTCACTACTCAGGCAGCAT 58.434 50.000 0.00 0.00 0.00 3.79
3377 3984 1.905215 ACTCACTACTCAGGCAGCATT 59.095 47.619 0.00 0.00 0.00 3.56
3378 3985 2.304180 ACTCACTACTCAGGCAGCATTT 59.696 45.455 0.00 0.00 0.00 2.32
3379 3986 3.244700 ACTCACTACTCAGGCAGCATTTT 60.245 43.478 0.00 0.00 0.00 1.82
3380 3987 3.754965 TCACTACTCAGGCAGCATTTTT 58.245 40.909 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 7.724305 TCCTCACAAACACTAACTAAATCAC 57.276 36.000 0.00 0.00 0.00 3.06
308 536 1.731160 GCTGCTCTGTCACATTGAGAC 59.269 52.381 7.22 7.22 36.55 3.36
467 774 2.091720 ACCAATGCAGGATATTGCTCCA 60.092 45.455 0.00 0.00 44.38 3.86
468 775 2.555757 GACCAATGCAGGATATTGCTCC 59.444 50.000 0.00 0.00 44.38 4.70
770 1077 2.497273 GCATAACCTTCAGCAACCCATT 59.503 45.455 0.00 0.00 0.00 3.16
862 1169 3.503363 CCTTGTCTGCTGCAAACTGATTA 59.497 43.478 7.70 0.00 0.00 1.75
1249 1557 1.144057 CCGAATCTGGGAGGGAACG 59.856 63.158 0.00 0.00 0.00 3.95
1318 1869 5.428457 TGATGATGGTTCTGGGTAACATAGT 59.572 40.000 0.00 0.00 39.74 2.12
1326 1877 1.637553 AGCTTGATGATGGTTCTGGGT 59.362 47.619 0.00 0.00 0.00 4.51
1381 1932 1.295020 TTGTCCTCAATACCCCCTGG 58.705 55.000 0.00 0.00 37.80 4.45
1391 1948 6.603201 ACTCTTTGAGAAACAATTGTCCTCAA 59.397 34.615 31.40 31.40 40.72 3.02
1477 2034 1.699083 CCTGCCAAAACCCTCCATTTT 59.301 47.619 0.00 0.00 0.00 1.82
1500 2057 1.066002 CAAGCAATATGGCAACCCTCG 59.934 52.381 4.54 0.00 35.83 4.63
1566 2123 1.804748 GTCCCTCTTGGCAACTTAACG 59.195 52.381 0.00 0.00 37.61 3.18
1573 2130 2.038863 TTCCTAGTCCCTCTTGGCAA 57.961 50.000 0.00 0.00 38.59 4.52
1606 2163 2.610976 GGTGAACATACCGCAGTGTACA 60.611 50.000 0.00 0.00 0.00 2.90
1678 2235 0.741915 CCGACCACTCCTAGCTTCTC 59.258 60.000 0.00 0.00 0.00 2.87
1743 2300 3.952323 ACAATGATTCAAGATGGCTGAGG 59.048 43.478 0.00 0.00 0.00 3.86
1816 2373 2.504367 GCTCTGCAGGTTTACCAAAGA 58.496 47.619 15.13 0.65 38.89 2.52
1819 2376 0.771127 AGGCTCTGCAGGTTTACCAA 59.229 50.000 15.13 0.00 38.89 3.67
1823 2380 1.611673 GCTTGAGGCTCTGCAGGTTTA 60.612 52.381 21.69 0.00 38.06 2.01
1871 2428 2.276309 CTGGAGCCCCTTGATCCACC 62.276 65.000 0.00 0.00 38.19 4.61
1872 2429 1.225704 CTGGAGCCCCTTGATCCAC 59.774 63.158 0.00 0.00 38.19 4.02
1921 2478 1.693627 TCGAGGTTCCCTGATAGCTC 58.306 55.000 0.00 0.00 31.76 4.09
1995 2552 4.990526 ACACATCAATCTCAAACCCTTCT 58.009 39.130 0.00 0.00 0.00 2.85
2005 2562 4.326826 TGGAACTGGAACACATCAATCTC 58.673 43.478 0.00 0.00 0.00 2.75
2010 2567 2.705658 AGTCTGGAACTGGAACACATCA 59.294 45.455 0.00 0.00 36.65 3.07
2080 2637 8.477419 TTCTGGAACTCCACTAATTCAATTTT 57.523 30.769 0.00 0.00 42.01 1.82
2100 2657 0.397941 TGGGCACTGAGTCTTTCTGG 59.602 55.000 0.00 0.00 0.00 3.86
2101 2658 2.260844 TTGGGCACTGAGTCTTTCTG 57.739 50.000 0.00 0.00 0.00 3.02
2109 2666 2.775911 TCTCAAGATTGGGCACTGAG 57.224 50.000 0.00 0.00 0.00 3.35
2185 2742 6.456795 AAGCCATACTTCCTTTATGCTTTC 57.543 37.500 0.00 0.00 30.77 2.62
2193 2750 7.669722 TGATGAAAACTAAGCCATACTTCCTTT 59.330 33.333 0.00 0.00 39.97 3.11
2203 2760 4.272489 CAGGGATGATGAAAACTAAGCCA 58.728 43.478 0.00 0.00 0.00 4.75
2212 2769 1.715931 ACCAACCCAGGGATGATGAAA 59.284 47.619 17.58 0.00 0.00 2.69
2290 2849 7.793927 TTCTCTTTTCTTCTTCTTTCACCTC 57.206 36.000 0.00 0.00 0.00 3.85
2293 2852 9.626045 TTTGTTTCTCTTTTCTTCTTCTTTCAC 57.374 29.630 0.00 0.00 0.00 3.18
2324 2883 4.140536 CTCCTCCCTGAATTTATCTTGCC 58.859 47.826 0.00 0.00 0.00 4.52
2371 2930 3.926616 TCTTCAAGACGGGTTGATTCTC 58.073 45.455 2.90 0.00 36.34 2.87
2378 2943 2.270352 TTGCATCTTCAAGACGGGTT 57.730 45.000 0.00 0.00 0.00 4.11
2392 2957 2.097825 GGGTTTCTGAGCTCATTGCAT 58.902 47.619 18.63 0.00 45.94 3.96
2412 2977 1.078848 CAGGAGAGAAGTTGCCCCG 60.079 63.158 0.00 0.00 0.00 5.73
2425 2990 4.370049 CACTCAGTCAGCATATTCAGGAG 58.630 47.826 0.00 0.00 0.00 3.69
2430 2995 2.871022 CAGCCACTCAGTCAGCATATTC 59.129 50.000 0.00 0.00 0.00 1.75
2436 3001 2.745492 GGCAGCCACTCAGTCAGC 60.745 66.667 6.55 0.00 0.00 4.26
2463 3028 5.031066 AGATTTTCCAATGGAATGGCATG 57.969 39.130 16.30 0.00 41.71 4.06
2464 3029 6.785963 AGATAGATTTTCCAATGGAATGGCAT 59.214 34.615 16.30 5.95 41.71 4.40
2465 3030 6.138263 AGATAGATTTTCCAATGGAATGGCA 58.862 36.000 16.30 0.00 41.71 4.92
2466 3031 6.661304 AGATAGATTTTCCAATGGAATGGC 57.339 37.500 16.30 7.85 41.71 4.40
2470 3035 9.768215 AGGTAAAAGATAGATTTTCCAATGGAA 57.232 29.630 11.23 11.23 40.27 3.53
2548 3114 0.455815 CGGGTGGGCTTTATTTCAGC 59.544 55.000 0.00 0.00 36.45 4.26
2565 3131 4.772434 CAGAACAACAATGTACTTGACGG 58.228 43.478 10.71 4.18 39.40 4.79
2568 3134 4.261155 GCTGCAGAACAACAATGTACTTGA 60.261 41.667 20.43 0.00 39.40 3.02
2569 3135 3.976942 GCTGCAGAACAACAATGTACTTG 59.023 43.478 20.43 0.00 39.40 3.16
2570 3136 3.885297 AGCTGCAGAACAACAATGTACTT 59.115 39.130 20.43 0.00 39.40 2.24
2571 3137 3.251729 CAGCTGCAGAACAACAATGTACT 59.748 43.478 20.43 0.00 39.40 2.73
2573 3139 3.213506 ACAGCTGCAGAACAACAATGTA 58.786 40.909 20.43 0.00 39.40 2.29
2574 3140 2.026641 ACAGCTGCAGAACAACAATGT 58.973 42.857 20.43 5.27 43.14 2.71
2589 3157 5.026790 AGAGAAATACCACCTCTAACAGCT 58.973 41.667 0.00 0.00 35.68 4.24
2590 3158 5.346181 AGAGAAATACCACCTCTAACAGC 57.654 43.478 0.00 0.00 35.68 4.40
2611 3185 7.040823 ACTCAAAGAGATACCAAAGCAGAAAAG 60.041 37.037 0.31 0.00 33.32 2.27
2615 3189 5.489792 ACTCAAAGAGATACCAAAGCAGA 57.510 39.130 0.31 0.00 33.32 4.26
2616 3190 5.618640 GCAACTCAAAGAGATACCAAAGCAG 60.619 44.000 0.31 0.00 33.32 4.24
2617 3191 4.216257 GCAACTCAAAGAGATACCAAAGCA 59.784 41.667 0.31 0.00 33.32 3.91
2618 3192 4.457257 AGCAACTCAAAGAGATACCAAAGC 59.543 41.667 0.31 0.00 33.32 3.51
2619 3193 5.702670 TCAGCAACTCAAAGAGATACCAAAG 59.297 40.000 0.31 0.00 33.32 2.77
2622 3196 4.890158 TCAGCAACTCAAAGAGATACCA 57.110 40.909 0.31 0.00 33.32 3.25
2639 3214 0.743097 GTGGCCATCCATTCTTCAGC 59.257 55.000 9.72 0.00 45.62 4.26
2650 3225 6.514541 GCATCATATATATTGCAGTGGCCATC 60.515 42.308 9.72 2.38 40.13 3.51
2669 3244 6.153170 CAGAGGATACAGATACAGAGCATCAT 59.847 42.308 0.00 0.00 36.61 2.45
2670 3245 5.476254 CAGAGGATACAGATACAGAGCATCA 59.524 44.000 0.00 0.00 36.61 3.07
2682 3257 0.324368 ACACCGCCAGAGGATACAGA 60.324 55.000 0.00 0.00 41.41 3.41
2689 3264 2.666190 CACACACACCGCCAGAGG 60.666 66.667 0.00 0.00 37.30 3.69
2690 3265 3.349006 GCACACACACCGCCAGAG 61.349 66.667 0.00 0.00 0.00 3.35
2721 3296 4.862641 ATCACCACACCCTTATTAAGCT 57.137 40.909 0.00 0.00 0.00 3.74
2750 3328 9.912634 CATCTAATCCAAACAGTTTACAATTGT 57.087 29.630 16.68 16.68 0.00 2.71
2819 3405 3.850122 AAAGAAAAGGATTACAGGCGC 57.150 42.857 0.00 0.00 0.00 6.53
2820 3406 3.920412 GCAAAAGAAAAGGATTACAGGCG 59.080 43.478 0.00 0.00 0.00 5.52
2823 3409 5.728637 AGGGCAAAAGAAAAGGATTACAG 57.271 39.130 0.00 0.00 0.00 2.74
2829 3416 2.433970 CACCAAGGGCAAAAGAAAAGGA 59.566 45.455 0.00 0.00 0.00 3.36
2851 3438 2.569059 CCGAAGCAGACATGGAATCAT 58.431 47.619 0.00 0.00 0.00 2.45
2853 3440 1.303309 CCCGAAGCAGACATGGAATC 58.697 55.000 0.00 0.00 0.00 2.52
2855 3442 1.299648 CCCCGAAGCAGACATGGAA 59.700 57.895 0.00 0.00 0.00 3.53
2856 3443 2.989639 CCCCGAAGCAGACATGGA 59.010 61.111 0.00 0.00 0.00 3.41
2861 3451 2.125350 CAGAGCCCCGAAGCAGAC 60.125 66.667 0.00 0.00 34.23 3.51
2869 3459 1.067635 CCAAATCAAAACAGAGCCCCG 60.068 52.381 0.00 0.00 0.00 5.73
2879 3469 6.437928 CGACTCATTCTTCACCAAATCAAAA 58.562 36.000 0.00 0.00 0.00 2.44
2906 3497 3.119245 AGCAAAGCATCTTACATTGCAGG 60.119 43.478 10.89 0.00 46.59 4.85
2938 3529 8.346300 GCGTGCACATACAGATATATAGTAGAT 58.654 37.037 18.64 0.00 0.00 1.98
2940 3531 6.913132 GGCGTGCACATACAGATATATAGTAG 59.087 42.308 18.64 0.00 0.00 2.57
2944 3535 5.652994 TGGCGTGCACATACAGATATATA 57.347 39.130 18.64 0.00 0.00 0.86
2945 3536 4.535526 TGGCGTGCACATACAGATATAT 57.464 40.909 18.64 0.00 0.00 0.86
2947 3538 2.908688 TGGCGTGCACATACAGATAT 57.091 45.000 18.64 0.00 0.00 1.63
2948 3539 2.754472 GATGGCGTGCACATACAGATA 58.246 47.619 18.64 0.00 0.00 1.98
2949 3540 1.586422 GATGGCGTGCACATACAGAT 58.414 50.000 18.64 1.71 0.00 2.90
2950 3541 0.805711 CGATGGCGTGCACATACAGA 60.806 55.000 18.64 0.00 0.00 3.41
2952 3543 3.792904 CGATGGCGTGCACATACA 58.207 55.556 18.64 12.41 0.00 2.29
3015 3622 9.472361 GGTTTCTGCATCTAATCTAAATACGTA 57.528 33.333 0.00 0.00 0.00 3.57
3016 3623 8.204836 AGGTTTCTGCATCTAATCTAAATACGT 58.795 33.333 0.00 0.00 0.00 3.57
3017 3624 8.594881 AGGTTTCTGCATCTAATCTAAATACG 57.405 34.615 0.00 0.00 0.00 3.06
3024 3631 5.809001 TGACAAGGTTTCTGCATCTAATCT 58.191 37.500 0.00 0.00 0.00 2.40
3036 3643 4.982295 GGTGCAAATTACTGACAAGGTTTC 59.018 41.667 0.00 0.00 0.00 2.78
3038 3645 3.004315 CGGTGCAAATTACTGACAAGGTT 59.996 43.478 0.00 0.00 0.00 3.50
3040 3647 2.811431 TCGGTGCAAATTACTGACAAGG 59.189 45.455 0.00 0.00 0.00 3.61
3041 3648 4.651994 GATCGGTGCAAATTACTGACAAG 58.348 43.478 0.00 0.00 36.35 3.16
3050 3657 2.277084 GGAGTACGATCGGTGCAAATT 58.723 47.619 20.98 0.00 33.10 1.82
3051 3658 1.472728 GGGAGTACGATCGGTGCAAAT 60.473 52.381 20.98 0.00 33.10 2.32
3058 3665 0.890090 GAGGGAGGGAGTACGATCGG 60.890 65.000 20.98 1.23 0.00 4.18
3060 3667 0.890090 CGGAGGGAGGGAGTACGATC 60.890 65.000 0.00 0.00 0.00 3.69
3061 3668 1.150992 CGGAGGGAGGGAGTACGAT 59.849 63.158 0.00 0.00 0.00 3.73
3062 3669 2.593978 CGGAGGGAGGGAGTACGA 59.406 66.667 0.00 0.00 0.00 3.43
3071 3678 9.894518 TTTGATGACAAGTATTTCCGGAGGGAG 62.895 44.444 3.34 0.00 42.46 4.30
3072 3679 8.215881 TTTGATGACAAGTATTTCCGGAGGGA 62.216 42.308 3.34 0.00 42.46 4.20
3073 3680 6.091883 TTTGATGACAAGTATTTCCGGAGGG 61.092 44.000 3.34 0.00 42.46 4.30
3074 3681 4.941263 TTTGATGACAAGTATTTCCGGAGG 59.059 41.667 3.34 0.00 43.17 4.30
3075 3682 6.494893 TTTTGATGACAAGTATTTCCGGAG 57.505 37.500 3.34 0.00 37.32 4.63
3076 3683 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
3077 3684 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
3078 3685 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
3153 3760 9.490663 CCGAAAATACTTGTCATCAAAATAGAC 57.509 33.333 0.00 0.00 32.87 2.59
3154 3761 9.443323 TCCGAAAATACTTGTCATCAAAATAGA 57.557 29.630 0.00 0.00 32.87 1.98
3155 3762 9.490663 GTCCGAAAATACTTGTCATCAAAATAG 57.509 33.333 0.00 0.00 32.87 1.73
3156 3763 8.172484 CGTCCGAAAATACTTGTCATCAAAATA 58.828 33.333 0.00 0.00 32.87 1.40
3157 3764 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
3158 3765 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
3159 3766 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
3160 3767 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
3161 3768 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
3162 3769 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
3163 3770 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
3164 3771 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
3165 3772 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
3166 3773 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
3167 3774 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
3168 3775 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
3169 3776 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
3170 3777 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
3171 3778 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
3172 3779 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
3173 3780 1.479323 CATACTCCCTCCGTCCGAAAA 59.521 52.381 0.00 0.00 0.00 2.29
3174 3781 1.108776 CATACTCCCTCCGTCCGAAA 58.891 55.000 0.00 0.00 0.00 3.46
3175 3782 0.033796 ACATACTCCCTCCGTCCGAA 60.034 55.000 0.00 0.00 0.00 4.30
3176 3783 0.839277 TACATACTCCCTCCGTCCGA 59.161 55.000 0.00 0.00 0.00 4.55
3177 3784 1.683943 TTACATACTCCCTCCGTCCG 58.316 55.000 0.00 0.00 0.00 4.79
3178 3785 3.802675 GCAATTACATACTCCCTCCGTCC 60.803 52.174 0.00 0.00 0.00 4.79
3179 3786 3.069729 AGCAATTACATACTCCCTCCGTC 59.930 47.826 0.00 0.00 0.00 4.79
3180 3787 3.039011 AGCAATTACATACTCCCTCCGT 58.961 45.455 0.00 0.00 0.00 4.69
3181 3788 3.753294 AGCAATTACATACTCCCTCCG 57.247 47.619 0.00 0.00 0.00 4.63
3182 3789 4.781934 ACAAGCAATTACATACTCCCTCC 58.218 43.478 0.00 0.00 0.00 4.30
3183 3790 6.555315 CAAACAAGCAATTACATACTCCCTC 58.445 40.000 0.00 0.00 0.00 4.30
3184 3791 5.105756 GCAAACAAGCAATTACATACTCCCT 60.106 40.000 0.00 0.00 0.00 4.20
3185 3792 5.102313 GCAAACAAGCAATTACATACTCCC 58.898 41.667 0.00 0.00 0.00 4.30
3186 3793 5.708948 TGCAAACAAGCAATTACATACTCC 58.291 37.500 0.00 0.00 42.46 3.85
3204 3811 5.819991 AGGACAGAAGAATAGGATTGCAAA 58.180 37.500 1.71 0.00 0.00 3.68
3215 3822 3.251484 TCACCAAGGAGGACAGAAGAAT 58.749 45.455 0.00 0.00 41.22 2.40
3223 3830 2.636830 CACATGATCACCAAGGAGGAC 58.363 52.381 0.00 0.00 41.22 3.85
3224 3831 1.561076 CCACATGATCACCAAGGAGGA 59.439 52.381 0.00 0.00 41.22 3.71
3226 3833 1.283029 ACCCACATGATCACCAAGGAG 59.717 52.381 0.00 0.00 0.00 3.69
3227 3834 1.281867 GACCCACATGATCACCAAGGA 59.718 52.381 0.00 0.00 0.00 3.36
3228 3835 1.755179 GACCCACATGATCACCAAGG 58.245 55.000 0.00 0.00 0.00 3.61
3229 3836 1.372582 CGACCCACATGATCACCAAG 58.627 55.000 0.00 0.00 0.00 3.61
3230 3837 0.676466 GCGACCCACATGATCACCAA 60.676 55.000 0.00 0.00 0.00 3.67
3243 3850 4.500116 GACAGAGCCGAGCGACCC 62.500 72.222 0.00 0.00 0.00 4.46
3244 3851 4.500116 GGACAGAGCCGAGCGACC 62.500 72.222 0.00 0.00 0.00 4.79
3248 3855 1.448717 GAAAGGGACAGAGCCGAGC 60.449 63.158 0.00 0.00 0.00 5.03
3251 3858 0.539051 AGATGAAAGGGACAGAGCCG 59.461 55.000 0.00 0.00 0.00 5.52
3252 3859 1.280421 ACAGATGAAAGGGACAGAGCC 59.720 52.381 0.00 0.00 0.00 4.70
3271 3878 7.035840 ACATCATTTATTCCATTCTGCTGAC 57.964 36.000 0.00 0.00 0.00 3.51
3315 3922 8.749354 TCATTTGTAAGCTGTAGATGAGTAAGA 58.251 33.333 0.00 0.00 0.00 2.10
3316 3923 8.932945 TCATTTGTAAGCTGTAGATGAGTAAG 57.067 34.615 0.00 0.00 0.00 2.34
3317 3924 9.371136 CTTCATTTGTAAGCTGTAGATGAGTAA 57.629 33.333 0.00 0.00 0.00 2.24
3327 3934 4.082125 CCCTTCCTTCATTTGTAAGCTGT 58.918 43.478 0.00 0.00 0.00 4.40
3335 3942 7.093465 TGAGTACTAGTACCCTTCCTTCATTTG 60.093 40.741 25.97 0.00 36.75 2.32
3336 3943 6.958192 TGAGTACTAGTACCCTTCCTTCATTT 59.042 38.462 25.97 5.94 36.75 2.32
3337 3944 6.380560 GTGAGTACTAGTACCCTTCCTTCATT 59.619 42.308 25.97 6.13 36.75 2.57
3345 3952 6.352910 CCTGAGTAGTGAGTACTAGTACCCTT 60.353 46.154 25.97 10.79 42.48 3.95
3347 3954 5.367302 CCTGAGTAGTGAGTACTAGTACCC 58.633 50.000 25.97 17.35 42.48 3.69
3349 3956 5.426504 TGCCTGAGTAGTGAGTACTAGTAC 58.573 45.833 23.03 23.03 42.48 2.73
3350 3957 5.672503 CTGCCTGAGTAGTGAGTACTAGTA 58.327 45.833 0.00 0.00 42.48 1.82
3352 3959 3.314080 GCTGCCTGAGTAGTGAGTACTAG 59.686 52.174 0.00 0.00 42.48 2.57
3353 3960 3.280295 GCTGCCTGAGTAGTGAGTACTA 58.720 50.000 0.00 0.00 42.48 1.82
3354 3961 2.096248 GCTGCCTGAGTAGTGAGTACT 58.904 52.381 0.00 0.00 45.34 2.73
3355 3962 1.819288 TGCTGCCTGAGTAGTGAGTAC 59.181 52.381 0.00 0.00 0.00 2.73
3356 3963 2.215942 TGCTGCCTGAGTAGTGAGTA 57.784 50.000 0.00 0.00 0.00 2.59
3357 3964 1.566211 ATGCTGCCTGAGTAGTGAGT 58.434 50.000 0.00 0.00 0.00 3.41
3358 3965 2.687700 AATGCTGCCTGAGTAGTGAG 57.312 50.000 0.00 0.00 0.00 3.51
3359 3966 3.423539 AAAATGCTGCCTGAGTAGTGA 57.576 42.857 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.