Multiple sequence alignment - TraesCS2A01G229500

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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 TraesCS2A01G229500 chr2A 100.000 2981 0 0 1 2981 260547158 260550138 0.000000e+00 5505
1 TraesCS2A01G229500 chr2A 74.214 318 49 24 192 488 763185448 763185143 5.260000e-18 102
2 TraesCS2A01G229500 chr2B 93.887 1325 70 8 1326 2650 262807074 262808387 0.000000e+00 1988
3 TraesCS2A01G229500 chr2B 91.537 1347 77 21 1 1324 262805704 262807036 0.000000e+00 1821
4 TraesCS2A01G229500 chr2B 87.716 521 47 11 2136 2652 262638590 262639097 2.560000e-165 592
5 TraesCS2A01G229500 chr2B 88.218 331 24 8 2654 2981 653617444 653617762 6.030000e-102 381
6 TraesCS2A01G229500 chr2D 93.348 1338 65 12 1326 2650 207906950 207908276 0.000000e+00 1956
7 TraesCS2A01G229500 chr2D 90.120 830 62 17 1 817 207905282 207906104 0.000000e+00 1061
8 TraesCS2A01G229500 chr2D 93.050 518 21 1 807 1324 207906410 207906912 0.000000e+00 743
9 TraesCS2A01G229500 chr3A 93.694 333 17 3 2650 2981 38424573 38424244 2.060000e-136 496
10 TraesCS2A01G229500 chr3A 76.562 320 58 16 2 311 42021913 42022225 3.080000e-35 159
11 TraesCS2A01G229500 chr3D 89.318 337 30 2 2649 2981 385094844 385094510 4.600000e-113 418
12 TraesCS2A01G229500 chr3D 85.030 334 32 7 2649 2978 445608471 445608790 1.030000e-84 324
13 TraesCS2A01G229500 chr7B 88.253 332 22 2 2650 2981 399424399 399424713 6.030000e-102 381
14 TraesCS2A01G229500 chr7B 78.971 447 81 11 5 442 485042608 485042166 2.910000e-75 292
15 TraesCS2A01G229500 chr5D 84.524 336 27 9 2650 2978 113880756 113881073 2.890000e-80 309
16 TraesCS2A01G229500 chr5D 77.233 347 64 11 21 359 527387510 527387171 3.920000e-44 189
17 TraesCS2A01G229500 chr5A 83.333 330 39 7 2650 2978 9500208 9500522 1.050000e-74 291
18 TraesCS2A01G229500 chr7A 82.698 341 42 8 2640 2978 5445166 5445491 1.350000e-73 287
19 TraesCS2A01G229500 chr7D 79.661 413 67 15 1 403 561964099 561964504 6.290000e-72 281
20 TraesCS2A01G229500 chr7D 77.986 427 77 14 23 443 474531489 474531074 4.930000e-63 252
21 TraesCS2A01G229500 chr7D 75.405 309 59 15 192 486 104916914 104916609 1.860000e-27 134
22 TraesCS2A01G229500 chr6D 79.108 426 63 22 15 421 394821420 394821838 1.360000e-68 270
23 TraesCS2A01G229500 chr5B 76.852 324 62 11 4 319 663631808 663631490 1.420000e-38 171
24 TraesCS2A01G229500 chr1A 85.897 156 16 2 2650 2801 554108829 554108982 8.550000e-36 161
25 TraesCS2A01G229500 chr4B 79.803 203 28 9 326 524 626406277 626406084 5.180000e-28 135
26 TraesCS2A01G229500 chr4A 80.986 142 22 4 349 487 551129185 551129324 1.130000e-19 108


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 TraesCS2A01G229500 chr2A 260547158 260550138 2980 False 5505.000000 5505 100.000000 1 2981 1 chr2A.!!$F1 2980
1 TraesCS2A01G229500 chr2B 262805704 262808387 2683 False 1904.500000 1988 92.712000 1 2650 2 chr2B.!!$F3 2649
2 TraesCS2A01G229500 chr2B 262638590 262639097 507 False 592.000000 592 87.716000 2136 2652 1 chr2B.!!$F1 516
3 TraesCS2A01G229500 chr2D 207905282 207908276 2994 False 1253.333333 1956 92.172667 1 2650 3 chr2D.!!$F1 2649

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
998 1346 0.460284 CTTGCCAAGACGCGAGGTAT 60.46 55.0 15.93 0.0 36.72 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2765 3169 0.027063 CTTGCACGGTTCGACGTTTT 59.973 50.0 0.0 0.0 46.25 2.43 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
233 240 9.467258 ACAAGTTCAACATTTTCTGAATACATG 57.533 29.630 0.00 0.00 34.26 3.21
234 241 8.918658 CAAGTTCAACATTTTCTGAATACATGG 58.081 33.333 0.00 0.00 34.26 3.66
235 242 8.181904 AGTTCAACATTTTCTGAATACATGGT 57.818 30.769 0.00 0.00 34.26 3.55
236 243 8.299570 AGTTCAACATTTTCTGAATACATGGTC 58.700 33.333 0.00 0.00 34.26 4.02
237 244 7.757941 TCAACATTTTCTGAATACATGGTCA 57.242 32.000 0.00 0.00 0.00 4.02
238 245 7.592938 TCAACATTTTCTGAATACATGGTCAC 58.407 34.615 0.00 0.00 0.00 3.67
239 246 6.515272 ACATTTTCTGAATACATGGTCACC 57.485 37.500 0.00 0.00 0.00 4.02
240 247 6.009589 ACATTTTCTGAATACATGGTCACCA 58.990 36.000 0.00 0.00 38.19 4.17
554 569 7.258441 TGGTCAACATTTTTCGAAACATTACA 58.742 30.769 10.79 0.00 0.00 2.41
644 670 9.240159 GGAAATTAAAGCGTAAAGAAAAACAGA 57.760 29.630 0.00 0.00 0.00 3.41
793 824 0.804364 TTCGAGGTAAAGTCGCGCTA 59.196 50.000 5.56 0.00 37.35 4.26
914 1261 2.238646 TCCGCTACTCCATTGGTTCAAT 59.761 45.455 1.86 0.00 34.04 2.57
925 1272 5.355071 TCCATTGGTTCAATCTCAAATCTCG 59.645 40.000 1.86 0.00 31.05 4.04
998 1346 0.460284 CTTGCCAAGACGCGAGGTAT 60.460 55.000 15.93 0.00 36.72 2.73
1324 1675 0.030705 TAGGGATGCTTCCAGGAGCT 60.031 55.000 19.49 9.68 44.60 4.09
1451 1838 3.058160 CAGGGGAAAGCACGGCAG 61.058 66.667 0.00 0.00 0.00 4.85
1992 2379 2.427453 AGATTCATAGGCGTGTCTTCGT 59.573 45.455 0.00 0.00 0.00 3.85
2024 2422 1.874019 CGACCATCGCGTTCAGAGG 60.874 63.158 5.77 2.85 31.14 3.69
2036 2434 1.537202 GTTCAGAGGCATTTGACGCTT 59.463 47.619 0.00 0.00 27.75 4.68
2061 2459 2.235402 TCTGGTTTCCCGAATCTGGTAC 59.765 50.000 0.00 0.00 0.00 3.34
2091 2491 4.508124 ACTCGCAGTTTCTTGTAAGTTCTG 59.492 41.667 0.00 0.00 0.00 3.02
2233 2633 5.639082 CCAAGCTTTAATCCGAAAATTTGCT 59.361 36.000 0.00 0.00 0.00 3.91
2294 2694 7.675619 TCTCCCAGAATACAGAGATTGCATATA 59.324 37.037 0.00 0.00 30.56 0.86
2355 2755 7.617723 AGTGAACATTACATAGAGAAGAGAGGT 59.382 37.037 0.00 0.00 0.00 3.85
2393 2793 3.128938 TGTTGGTAAAGGGAAACAACACG 59.871 43.478 2.72 0.00 44.32 4.49
2396 2796 2.689471 GGTAAAGGGAAACAACACGGTT 59.311 45.455 0.00 0.00 0.00 4.44
2397 2797 2.951457 AAAGGGAAACAACACGGTTG 57.049 45.000 13.18 13.18 0.00 3.77
2424 2824 0.106268 TGCCAAGCCTGAACTCCAAA 60.106 50.000 0.00 0.00 0.00 3.28
2465 2865 1.807165 CACATGACACTCGAGCCGG 60.807 63.158 13.61 0.00 0.00 6.13
2521 2925 3.890674 GGCTCCACAACCGATCAC 58.109 61.111 0.00 0.00 0.00 3.06
2522 2926 1.745489 GGCTCCACAACCGATCACC 60.745 63.158 0.00 0.00 0.00 4.02
2523 2927 1.003839 GCTCCACAACCGATCACCA 60.004 57.895 0.00 0.00 0.00 4.17
2524 2928 0.605319 GCTCCACAACCGATCACCAA 60.605 55.000 0.00 0.00 0.00 3.67
2525 2929 1.950484 GCTCCACAACCGATCACCAAT 60.950 52.381 0.00 0.00 0.00 3.16
2526 2930 2.009774 CTCCACAACCGATCACCAATC 58.990 52.381 0.00 0.00 0.00 2.67
2630 3034 1.622499 CCAAGGAGGATGGGCCAAT 59.378 57.895 11.89 0.00 41.22 3.16
2650 3054 1.078778 ATGTCGTACATTGCGCCCA 60.079 52.632 4.18 0.00 34.67 5.36
2651 3055 1.089481 ATGTCGTACATTGCGCCCAG 61.089 55.000 4.18 0.00 34.67 4.45
2653 3057 3.876198 CGTACATTGCGCCCAGGC 61.876 66.667 4.18 0.00 37.85 4.85
2654 3058 3.518068 GTACATTGCGCCCAGGCC 61.518 66.667 4.18 0.00 37.98 5.19
2655 3059 4.813235 TACATTGCGCCCAGGCCC 62.813 66.667 4.18 0.00 37.98 5.80
2675 3079 3.939564 CCCATAGGCCTGGCAAAC 58.060 61.111 22.05 2.80 34.77 2.93
2676 3080 1.000233 CCCATAGGCCTGGCAAACA 60.000 57.895 22.05 1.91 34.77 2.83
2726 3130 2.042639 GCCCCGACCCAGGTAGTA 60.043 66.667 0.00 0.00 0.00 1.82
2727 3131 1.458967 GCCCCGACCCAGGTAGTAT 60.459 63.158 0.00 0.00 0.00 2.12
2728 3132 0.178953 GCCCCGACCCAGGTAGTATA 60.179 60.000 0.00 0.00 0.00 1.47
2729 3133 1.625511 CCCCGACCCAGGTAGTATAC 58.374 60.000 0.00 0.00 42.04 1.47
2744 3148 4.995624 AGTATACCTTTATTGAGCCCCC 57.004 45.455 0.00 0.00 0.00 5.40
2745 3149 4.312487 AGTATACCTTTATTGAGCCCCCA 58.688 43.478 0.00 0.00 0.00 4.96
2746 3150 4.729881 AGTATACCTTTATTGAGCCCCCAA 59.270 41.667 0.00 0.00 0.00 4.12
2747 3151 4.618378 ATACCTTTATTGAGCCCCCAAA 57.382 40.909 0.00 0.00 0.00 3.28
2748 3152 3.268034 ACCTTTATTGAGCCCCCAAAA 57.732 42.857 0.00 0.00 0.00 2.44
2749 3153 3.592865 ACCTTTATTGAGCCCCCAAAAA 58.407 40.909 0.00 0.00 0.00 1.94
2773 3177 5.836678 AATACACGAAAAACAAAACGTCG 57.163 34.783 0.00 0.00 36.86 5.12
2774 3178 3.452466 ACACGAAAAACAAAACGTCGA 57.548 38.095 0.00 0.00 36.86 4.20
2775 3179 3.808095 ACACGAAAAACAAAACGTCGAA 58.192 36.364 0.00 0.00 36.86 3.71
2776 3180 3.599091 ACACGAAAAACAAAACGTCGAAC 59.401 39.130 0.00 0.00 36.86 3.95
2777 3181 3.002829 CACGAAAAACAAAACGTCGAACC 60.003 43.478 0.00 0.00 36.86 3.62
2778 3182 2.209393 CGAAAAACAAAACGTCGAACCG 59.791 45.455 0.00 0.00 33.63 4.44
2779 3183 2.898181 AAAACAAAACGTCGAACCGT 57.102 40.000 0.00 0.00 44.23 4.83
2780 3184 2.162371 AAACAAAACGTCGAACCGTG 57.838 45.000 0.00 0.00 41.65 4.94
2781 3185 0.247775 AACAAAACGTCGAACCGTGC 60.248 50.000 0.00 0.00 41.65 5.34
2782 3186 1.348938 CAAAACGTCGAACCGTGCA 59.651 52.632 0.00 0.00 41.65 4.57
2783 3187 0.247735 CAAAACGTCGAACCGTGCAA 60.248 50.000 0.00 0.00 41.65 4.08
2784 3188 0.027063 AAAACGTCGAACCGTGCAAG 59.973 50.000 0.00 0.00 41.65 4.01
2785 3189 1.768112 AAACGTCGAACCGTGCAAGG 61.768 55.000 17.83 17.83 41.65 3.61
2786 3190 2.355363 CGTCGAACCGTGCAAGGA 60.355 61.111 26.25 0.00 34.73 3.36
2787 3191 1.952133 CGTCGAACCGTGCAAGGAA 60.952 57.895 26.25 4.79 34.73 3.36
2788 3192 1.492319 CGTCGAACCGTGCAAGGAAA 61.492 55.000 26.25 4.42 34.73 3.13
2789 3193 0.658897 GTCGAACCGTGCAAGGAAAA 59.341 50.000 26.25 4.78 34.73 2.29
2790 3194 0.941542 TCGAACCGTGCAAGGAAAAG 59.058 50.000 26.25 12.79 34.73 2.27
2791 3195 0.660300 CGAACCGTGCAAGGAAAAGC 60.660 55.000 26.25 8.08 34.73 3.51
2792 3196 0.318699 GAACCGTGCAAGGAAAAGCC 60.319 55.000 26.25 3.68 34.73 4.35
2793 3197 1.744320 AACCGTGCAAGGAAAAGCCC 61.744 55.000 26.25 0.00 37.37 5.19
2794 3198 2.199652 CCGTGCAAGGAAAAGCCCA 61.200 57.895 14.14 0.00 37.37 5.36
2795 3199 1.007387 CGTGCAAGGAAAAGCCCAC 60.007 57.895 0.00 0.00 37.37 4.61
2796 3200 1.455383 CGTGCAAGGAAAAGCCCACT 61.455 55.000 0.00 0.00 37.37 4.00
2797 3201 1.616159 GTGCAAGGAAAAGCCCACTA 58.384 50.000 0.00 0.00 37.37 2.74
2798 3202 1.541588 GTGCAAGGAAAAGCCCACTAG 59.458 52.381 0.00 0.00 37.37 2.57
2799 3203 1.177401 GCAAGGAAAAGCCCACTAGG 58.823 55.000 0.00 0.00 37.37 3.02
2809 3213 3.249687 CCCACTAGGCAAACCTCAC 57.750 57.895 0.00 0.00 46.34 3.51
2810 3214 0.673644 CCCACTAGGCAAACCTCACG 60.674 60.000 0.00 0.00 46.34 4.35
2811 3215 0.320374 CCACTAGGCAAACCTCACGA 59.680 55.000 0.00 0.00 46.34 4.35
2812 3216 1.270625 CCACTAGGCAAACCTCACGAA 60.271 52.381 0.00 0.00 46.34 3.85
2813 3217 2.069273 CACTAGGCAAACCTCACGAAG 58.931 52.381 0.00 0.00 46.34 3.79
2814 3218 1.002087 ACTAGGCAAACCTCACGAAGG 59.998 52.381 7.01 7.01 46.34 3.46
2815 3219 1.275291 CTAGGCAAACCTCACGAAGGA 59.725 52.381 14.23 0.00 46.34 3.36
2816 3220 0.472471 AGGCAAACCTCACGAAGGAA 59.528 50.000 14.23 0.00 46.34 3.36
2817 3221 1.073923 AGGCAAACCTCACGAAGGAAT 59.926 47.619 14.23 1.88 46.34 3.01
2818 3222 2.489073 AGGCAAACCTCACGAAGGAATT 60.489 45.455 14.23 6.98 46.34 2.17
2819 3223 4.615294 AGGCAAACCTCACGAAGGAATTG 61.615 47.826 14.23 16.41 46.34 2.32
2820 3224 6.805215 AGGCAAACCTCACGAAGGAATTGA 62.805 45.833 22.08 3.76 46.34 2.57
2821 3225 8.709889 TAGGCAAACCTCACGAAGGAATTGAT 62.710 42.308 22.08 16.11 46.34 2.57
2830 3234 8.146479 CTCACGAAGGAATTGATTGATAATCA 57.854 34.615 0.36 0.36 45.68 2.57
2844 3248 6.603237 TTGATAATCAATCTGTTAGCACGG 57.397 37.500 0.00 0.00 35.45 4.94
2845 3249 5.056480 TGATAATCAATCTGTTAGCACGGG 58.944 41.667 0.00 0.00 35.45 5.28
2846 3250 3.627395 AATCAATCTGTTAGCACGGGA 57.373 42.857 0.00 0.00 0.00 5.14
2847 3251 2.380084 TCAATCTGTTAGCACGGGAC 57.620 50.000 0.00 0.00 0.00 4.46
2848 3252 1.066430 TCAATCTGTTAGCACGGGACC 60.066 52.381 0.00 0.00 0.00 4.46
2849 3253 0.252197 AATCTGTTAGCACGGGACCC 59.748 55.000 0.00 0.00 0.00 4.46
2850 3254 1.623542 ATCTGTTAGCACGGGACCCC 61.624 60.000 4.46 0.00 0.00 4.95
2851 3255 2.527123 TGTTAGCACGGGACCCCA 60.527 61.111 4.46 0.00 35.37 4.96
2852 3256 2.267961 GTTAGCACGGGACCCCAG 59.732 66.667 4.46 0.00 35.37 4.45
2853 3257 2.120940 TTAGCACGGGACCCCAGA 59.879 61.111 4.46 0.00 35.37 3.86
2854 3258 2.288025 TTAGCACGGGACCCCAGAC 61.288 63.158 4.46 0.00 35.37 3.51
2860 3264 4.791069 GGGACCCCAGACCGGCTA 62.791 72.222 0.00 0.00 35.81 3.93
2861 3265 3.468140 GGACCCCAGACCGGCTAC 61.468 72.222 0.00 0.00 0.00 3.58
2862 3266 2.363925 GACCCCAGACCGGCTACT 60.364 66.667 0.00 0.00 0.00 2.57
2863 3267 2.363925 ACCCCAGACCGGCTACTC 60.364 66.667 0.00 0.00 0.00 2.59
2864 3268 3.155167 CCCCAGACCGGCTACTCC 61.155 72.222 0.00 0.00 0.00 3.85
2865 3269 2.042843 CCCAGACCGGCTACTCCT 60.043 66.667 0.00 0.00 0.00 3.69
2866 3270 2.128507 CCCAGACCGGCTACTCCTC 61.129 68.421 0.00 0.00 0.00 3.71
2867 3271 1.076632 CCAGACCGGCTACTCCTCT 60.077 63.158 0.00 0.00 0.00 3.69
2868 3272 1.388065 CCAGACCGGCTACTCCTCTG 61.388 65.000 0.00 5.04 37.07 3.35
2869 3273 1.755008 AGACCGGCTACTCCTCTGC 60.755 63.158 0.00 0.00 0.00 4.26
2870 3274 1.755008 GACCGGCTACTCCTCTGCT 60.755 63.158 0.00 0.00 0.00 4.24
2871 3275 1.305381 ACCGGCTACTCCTCTGCTT 60.305 57.895 0.00 0.00 0.00 3.91
2872 3276 0.905337 ACCGGCTACTCCTCTGCTTT 60.905 55.000 0.00 0.00 0.00 3.51
2873 3277 0.460987 CCGGCTACTCCTCTGCTTTG 60.461 60.000 0.00 0.00 0.00 2.77
2874 3278 1.086634 CGGCTACTCCTCTGCTTTGC 61.087 60.000 0.00 0.00 0.00 3.68
2875 3279 0.746204 GGCTACTCCTCTGCTTTGCC 60.746 60.000 0.00 0.00 0.00 4.52
2876 3280 0.036010 GCTACTCCTCTGCTTTGCCA 60.036 55.000 0.00 0.00 0.00 4.92
2877 3281 1.611673 GCTACTCCTCTGCTTTGCCAA 60.612 52.381 0.00 0.00 0.00 4.52
2878 3282 2.783135 CTACTCCTCTGCTTTGCCAAA 58.217 47.619 0.00 0.00 0.00 3.28
2879 3283 2.299326 ACTCCTCTGCTTTGCCAAAT 57.701 45.000 0.00 0.00 0.00 2.32
2880 3284 2.165998 ACTCCTCTGCTTTGCCAAATC 58.834 47.619 0.00 0.00 0.00 2.17
2881 3285 1.475682 CTCCTCTGCTTTGCCAAATCC 59.524 52.381 0.00 0.00 0.00 3.01
2882 3286 0.533951 CCTCTGCTTTGCCAAATCCC 59.466 55.000 0.00 0.00 0.00 3.85
2883 3287 1.259609 CTCTGCTTTGCCAAATCCCA 58.740 50.000 0.00 0.00 0.00 4.37
2884 3288 1.203994 CTCTGCTTTGCCAAATCCCAG 59.796 52.381 0.00 0.00 0.00 4.45
2885 3289 1.203038 TCTGCTTTGCCAAATCCCAGA 60.203 47.619 9.75 9.75 0.00 3.86
2886 3290 0.968405 TGCTTTGCCAAATCCCAGAC 59.032 50.000 0.00 0.00 0.00 3.51
2887 3291 1.260544 GCTTTGCCAAATCCCAGACT 58.739 50.000 0.00 0.00 0.00 3.24
2888 3292 2.224992 TGCTTTGCCAAATCCCAGACTA 60.225 45.455 0.00 0.00 0.00 2.59
2889 3293 2.424956 GCTTTGCCAAATCCCAGACTAG 59.575 50.000 0.00 0.00 0.00 2.57
2890 3294 2.806945 TTGCCAAATCCCAGACTAGG 57.193 50.000 0.00 0.00 0.00 3.02
2891 3295 0.255890 TGCCAAATCCCAGACTAGGC 59.744 55.000 0.00 0.00 40.93 3.93
2892 3296 0.815615 GCCAAATCCCAGACTAGGCG 60.816 60.000 0.00 0.00 0.00 5.52
2893 3297 0.815615 CCAAATCCCAGACTAGGCGC 60.816 60.000 0.00 0.00 0.00 6.53
2894 3298 0.815615 CAAATCCCAGACTAGGCGCC 60.816 60.000 21.89 21.89 0.00 6.53
2895 3299 2.311688 AAATCCCAGACTAGGCGCCG 62.312 60.000 23.20 10.77 0.00 6.46
2912 3316 3.934962 GCCCCTCCGATGCCTCTC 61.935 72.222 0.00 0.00 0.00 3.20
2913 3317 3.237741 CCCCTCCGATGCCTCTCC 61.238 72.222 0.00 0.00 0.00 3.71
2914 3318 3.610669 CCCTCCGATGCCTCTCCG 61.611 72.222 0.00 0.00 0.00 4.63
2915 3319 2.519541 CCTCCGATGCCTCTCCGA 60.520 66.667 0.00 0.00 0.00 4.55
2916 3320 1.905843 CCTCCGATGCCTCTCCGAT 60.906 63.158 0.00 0.00 0.00 4.18
2917 3321 1.467678 CCTCCGATGCCTCTCCGATT 61.468 60.000 0.00 0.00 0.00 3.34
2918 3322 0.390860 CTCCGATGCCTCTCCGATTT 59.609 55.000 0.00 0.00 0.00 2.17
2919 3323 0.830648 TCCGATGCCTCTCCGATTTT 59.169 50.000 0.00 0.00 0.00 1.82
2920 3324 0.940126 CCGATGCCTCTCCGATTTTG 59.060 55.000 0.00 0.00 0.00 2.44
2921 3325 1.473257 CCGATGCCTCTCCGATTTTGA 60.473 52.381 0.00 0.00 0.00 2.69
2922 3326 2.279741 CGATGCCTCTCCGATTTTGAA 58.720 47.619 0.00 0.00 0.00 2.69
2923 3327 2.286294 CGATGCCTCTCCGATTTTGAAG 59.714 50.000 0.00 0.00 0.00 3.02
2924 3328 2.859165 TGCCTCTCCGATTTTGAAGT 57.141 45.000 0.00 0.00 0.00 3.01
2925 3329 2.699954 TGCCTCTCCGATTTTGAAGTC 58.300 47.619 0.00 0.00 0.00 3.01
2926 3330 1.661112 GCCTCTCCGATTTTGAAGTCG 59.339 52.381 2.16 2.16 37.58 4.18
2927 3331 2.931320 GCCTCTCCGATTTTGAAGTCGT 60.931 50.000 7.66 0.00 36.17 4.34
2928 3332 2.668457 CCTCTCCGATTTTGAAGTCGTG 59.332 50.000 7.66 1.75 36.17 4.35
2929 3333 2.668457 CTCTCCGATTTTGAAGTCGTGG 59.332 50.000 7.66 1.48 36.17 4.94
2930 3334 1.128692 CTCCGATTTTGAAGTCGTGGC 59.871 52.381 7.66 0.00 36.17 5.01
2931 3335 0.168128 CCGATTTTGAAGTCGTGGCC 59.832 55.000 0.00 0.00 36.17 5.36
2932 3336 0.179225 CGATTTTGAAGTCGTGGCCG 60.179 55.000 0.00 0.00 33.42 6.13
2933 3337 0.168128 GATTTTGAAGTCGTGGCCGG 59.832 55.000 0.00 0.00 33.95 6.13
2934 3338 1.862602 ATTTTGAAGTCGTGGCCGGC 61.863 55.000 21.18 21.18 39.53 6.13
2944 3348 3.091694 TGGCCGGCCATTAAAGGA 58.908 55.556 44.23 19.94 41.89 3.36
2945 3349 1.618030 TGGCCGGCCATTAAAGGAT 59.382 52.632 44.23 0.00 41.89 3.24
2946 3350 0.847373 TGGCCGGCCATTAAAGGATA 59.153 50.000 44.23 18.21 41.89 2.59
2947 3351 1.202879 TGGCCGGCCATTAAAGGATAG 60.203 52.381 44.23 0.00 41.89 2.08
2948 3352 0.881796 GCCGGCCATTAAAGGATAGC 59.118 55.000 18.11 0.00 0.00 2.97
2949 3353 1.545651 GCCGGCCATTAAAGGATAGCT 60.546 52.381 18.11 0.00 0.00 3.32
2950 3354 2.290071 GCCGGCCATTAAAGGATAGCTA 60.290 50.000 18.11 0.00 0.00 3.32
2951 3355 3.335579 CCGGCCATTAAAGGATAGCTAC 58.664 50.000 2.24 0.00 0.00 3.58
2952 3356 2.993899 CGGCCATTAAAGGATAGCTACG 59.006 50.000 2.24 0.00 0.00 3.51
2953 3357 3.335579 GGCCATTAAAGGATAGCTACGG 58.664 50.000 0.00 0.00 0.00 4.02
2954 3358 2.742589 GCCATTAAAGGATAGCTACGGC 59.257 50.000 0.00 0.00 39.06 5.68
2955 3359 3.805807 GCCATTAAAGGATAGCTACGGCA 60.806 47.826 0.00 0.00 41.70 5.69
2956 3360 3.746492 CCATTAAAGGATAGCTACGGCAC 59.254 47.826 0.00 0.00 41.70 5.01
2957 3361 4.377021 CATTAAAGGATAGCTACGGCACA 58.623 43.478 0.00 0.00 41.70 4.57
2958 3362 4.475051 TTAAAGGATAGCTACGGCACAA 57.525 40.909 0.00 0.00 41.70 3.33
2959 3363 3.343941 AAAGGATAGCTACGGCACAAA 57.656 42.857 0.00 0.00 41.70 2.83
2960 3364 3.560636 AAGGATAGCTACGGCACAAAT 57.439 42.857 0.00 0.00 41.70 2.32
2961 3365 3.113260 AGGATAGCTACGGCACAAATC 57.887 47.619 0.00 0.00 41.70 2.17
2962 3366 2.434336 AGGATAGCTACGGCACAAATCA 59.566 45.455 0.00 0.00 41.70 2.57
2963 3367 3.071602 AGGATAGCTACGGCACAAATCAT 59.928 43.478 0.00 0.00 41.70 2.45
2964 3368 3.815401 GGATAGCTACGGCACAAATCATT 59.185 43.478 0.00 0.00 41.70 2.57
2965 3369 4.083802 GGATAGCTACGGCACAAATCATTC 60.084 45.833 0.00 0.00 41.70 2.67
2966 3370 2.017049 AGCTACGGCACAAATCATTCC 58.983 47.619 0.00 0.00 41.70 3.01
2967 3371 2.017049 GCTACGGCACAAATCATTCCT 58.983 47.619 0.00 0.00 38.54 3.36
2968 3372 2.032178 GCTACGGCACAAATCATTCCTC 59.968 50.000 0.00 0.00 38.54 3.71
2969 3373 2.198827 ACGGCACAAATCATTCCTCA 57.801 45.000 0.00 0.00 0.00 3.86
2970 3374 2.513753 ACGGCACAAATCATTCCTCAA 58.486 42.857 0.00 0.00 0.00 3.02
2971 3375 3.091545 ACGGCACAAATCATTCCTCAAT 58.908 40.909 0.00 0.00 0.00 2.57
2972 3376 3.129287 ACGGCACAAATCATTCCTCAATC 59.871 43.478 0.00 0.00 0.00 2.67
2973 3377 3.129113 CGGCACAAATCATTCCTCAATCA 59.871 43.478 0.00 0.00 0.00 2.57
2974 3378 4.679662 GGCACAAATCATTCCTCAATCAG 58.320 43.478 0.00 0.00 0.00 2.90
2975 3379 4.110482 GCACAAATCATTCCTCAATCAGC 58.890 43.478 0.00 0.00 0.00 4.26
2976 3380 4.142227 GCACAAATCATTCCTCAATCAGCT 60.142 41.667 0.00 0.00 0.00 4.24
2977 3381 5.579718 CACAAATCATTCCTCAATCAGCTC 58.420 41.667 0.00 0.00 0.00 4.09
2978 3382 4.643784 ACAAATCATTCCTCAATCAGCTCC 59.356 41.667 0.00 0.00 0.00 4.70
2979 3383 3.505480 ATCATTCCTCAATCAGCTCCC 57.495 47.619 0.00 0.00 0.00 4.30
2980 3384 1.492176 TCATTCCTCAATCAGCTCCCC 59.508 52.381 0.00 0.00 0.00 4.81
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
86 89 8.076178 AGATGTTAAACATGTACAGAAAAGTGC 58.924 33.333 0.00 0.00 39.27 4.40
229 236 6.945435 TGTGTATAGAAAAATGGTGACCATGT 59.055 34.615 19.32 10.24 44.40 3.21
230 237 7.389803 TGTGTATAGAAAAATGGTGACCATG 57.610 36.000 19.32 0.00 44.40 3.66
232 239 8.415950 AAATGTGTATAGAAAAATGGTGACCA 57.584 30.769 6.84 6.84 38.19 4.02
506 521 6.427974 CATGTGCACAAAAATTGTATGCAAA 58.572 32.000 25.72 4.91 42.02 3.68
507 522 5.049612 CCATGTGCACAAAAATTGTATGCAA 60.050 36.000 25.72 0.00 42.02 4.08
524 539 3.637432 TCGAAAAATGTTGACCATGTGC 58.363 40.909 0.00 0.00 32.82 4.57
618 644 9.240159 TCTGTTTTTCTTTACGCTTTAATTTCC 57.760 29.630 0.00 0.00 0.00 3.13
640 666 3.691498 CGCCTCGTTTTTCTTTTTCTGT 58.309 40.909 0.00 0.00 0.00 3.41
644 670 2.863401 AGCGCCTCGTTTTTCTTTTT 57.137 40.000 2.29 0.00 0.00 1.94
649 677 0.726118 GCTGAAGCGCCTCGTTTTTC 60.726 55.000 2.29 0.00 29.28 2.29
767 798 3.834610 CGACTTTACCTCGAATGACACT 58.165 45.455 0.00 0.00 32.65 3.55
793 824 1.002087 GTCACGAGAGGTTGGGTTGAT 59.998 52.381 0.00 0.00 0.00 2.57
914 1261 0.101399 GAGCTCCGCGAGATTTGAGA 59.899 55.000 8.23 0.00 0.00 3.27
925 1272 0.808060 GCTACTTTGAGGAGCTCCGC 60.808 60.000 27.89 27.89 42.08 5.54
1265 1613 4.785453 CCGAGGAGGTTGCCAGGC 62.785 72.222 3.66 3.66 34.51 4.85
1310 1661 0.749649 CTCGTAGCTCCTGGAAGCAT 59.250 55.000 16.74 7.62 45.00 3.79
1324 1675 1.662629 GAGGATGACGTCGAACTCGTA 59.337 52.381 11.62 0.00 41.64 3.43
1476 1863 1.221909 TGAGCCCTGGGAGGTAGAGA 61.222 60.000 19.27 0.00 31.93 3.10
1585 1972 2.203640 TGACTCAGGCTGGACGGT 60.204 61.111 15.73 8.69 0.00 4.83
1907 2294 1.078759 GATTCTGTCAGTGCCGGACG 61.079 60.000 5.05 0.00 38.10 4.79
2024 2422 2.095059 ACCAGATCAAAGCGTCAAATGC 60.095 45.455 0.00 0.00 0.00 3.56
2061 2459 5.095691 ACAAGAAACTGCGAGTACATTTG 57.904 39.130 0.00 0.00 0.00 2.32
2258 2658 7.461749 TCTGTATTCTGGGAGAAAATGAAGTT 58.538 34.615 0.00 0.00 37.82 2.66
2307 2707 9.256228 TCACTCCATGTACTATTTTCTTCTACT 57.744 33.333 0.00 0.00 0.00 2.57
2355 2755 0.106268 AACACTTGATGTGGTGCCCA 60.106 50.000 3.47 0.00 46.28 5.36
2374 2774 2.299521 CCGTGTTGTTTCCCTTTACCA 58.700 47.619 0.00 0.00 0.00 3.25
2393 2793 3.934579 CAGGCTTGGCAAATATTTCAACC 59.065 43.478 0.00 1.38 0.00 3.77
2396 2796 4.527816 AGTTCAGGCTTGGCAAATATTTCA 59.472 37.500 0.00 0.00 0.00 2.69
2397 2797 5.077134 AGTTCAGGCTTGGCAAATATTTC 57.923 39.130 0.00 0.00 0.00 2.17
2424 2824 1.371558 GTCTCGTGGCCTTTCCTGT 59.628 57.895 3.32 0.00 35.26 4.00
2435 2835 1.069227 TGTCATGTGTCTCGTCTCGTG 60.069 52.381 0.00 0.00 0.00 4.35
2460 2860 4.078516 GTTGGTCGCTACCCGGCT 62.079 66.667 4.73 0.00 46.16 5.52
2519 2923 1.931172 GGTACATCGGTTCGATTGGTG 59.069 52.381 0.00 0.00 44.59 4.17
2520 2924 1.134610 GGGTACATCGGTTCGATTGGT 60.135 52.381 0.00 0.11 44.59 3.67
2521 2925 1.578583 GGGTACATCGGTTCGATTGG 58.421 55.000 0.00 0.00 44.59 3.16
2522 2926 1.578583 GGGGTACATCGGTTCGATTG 58.421 55.000 0.00 0.30 44.59 2.67
2523 2927 0.466963 GGGGGTACATCGGTTCGATT 59.533 55.000 0.00 0.00 44.59 3.34
2525 2929 1.000739 AGGGGGTACATCGGTTCGA 59.999 57.895 0.00 0.00 41.13 3.71
2526 2930 1.440476 GAGGGGGTACATCGGTTCG 59.560 63.158 0.00 0.00 0.00 3.95
2530 2934 2.847715 GGGGAGGGGGTACATCGG 60.848 72.222 0.00 0.00 0.00 4.18
2534 2938 4.358181 GGTGGGGGAGGGGGTACA 62.358 72.222 0.00 0.00 0.00 2.90
2630 3034 1.087202 GGGCGCAATGTACGACATCA 61.087 55.000 10.83 0.00 41.50 3.07
2658 3062 1.000233 TGTTTGCCAGGCCTATGGG 60.000 57.895 3.98 3.46 40.97 4.00
2659 3063 2.496942 CTGTTTGCCAGGCCTATGG 58.503 57.895 3.98 5.61 43.72 2.74
2708 3112 2.959729 ATACTACCTGGGTCGGGGCC 62.960 65.000 0.00 0.00 33.40 5.80
2709 3113 0.178953 TATACTACCTGGGTCGGGGC 60.179 60.000 0.00 0.00 33.40 5.80
2710 3114 1.625511 GTATACTACCTGGGTCGGGG 58.374 60.000 0.00 0.00 33.40 5.73
2711 3115 1.625511 GGTATACTACCTGGGTCGGG 58.374 60.000 2.25 0.00 45.52 5.14
2721 3125 5.308759 TGGGGGCTCAATAAAGGTATACTAC 59.691 44.000 2.25 0.00 0.00 2.73
2722 3126 5.478844 TGGGGGCTCAATAAAGGTATACTA 58.521 41.667 2.25 0.00 0.00 1.82
2723 3127 4.312487 TGGGGGCTCAATAAAGGTATACT 58.688 43.478 2.25 0.00 0.00 2.12
2724 3128 4.717279 TGGGGGCTCAATAAAGGTATAC 57.283 45.455 0.00 0.00 0.00 1.47
2725 3129 5.735733 TTTGGGGGCTCAATAAAGGTATA 57.264 39.130 0.00 0.00 0.00 1.47
2726 3130 4.618378 TTTGGGGGCTCAATAAAGGTAT 57.382 40.909 0.00 0.00 0.00 2.73
2727 3131 4.405756 TTTTGGGGGCTCAATAAAGGTA 57.594 40.909 0.00 0.00 0.00 3.08
2728 3132 3.268034 TTTTGGGGGCTCAATAAAGGT 57.732 42.857 0.00 0.00 0.00 3.50
2748 3152 7.060403 TCGACGTTTTGTTTTTCGTGTATTTTT 59.940 29.630 0.00 0.00 36.67 1.94
2749 3153 6.522510 TCGACGTTTTGTTTTTCGTGTATTTT 59.477 30.769 0.00 0.00 36.67 1.82
2750 3154 6.020372 TCGACGTTTTGTTTTTCGTGTATTT 58.980 32.000 0.00 0.00 36.67 1.40
2751 3155 5.558307 TCGACGTTTTGTTTTTCGTGTATT 58.442 33.333 0.00 0.00 36.67 1.89
2752 3156 5.141355 TCGACGTTTTGTTTTTCGTGTAT 57.859 34.783 0.00 0.00 36.67 2.29
2753 3157 4.574527 TCGACGTTTTGTTTTTCGTGTA 57.425 36.364 0.00 0.00 36.67 2.90
2754 3158 3.452466 TCGACGTTTTGTTTTTCGTGT 57.548 38.095 0.00 0.00 36.67 4.49
2755 3159 3.002829 GGTTCGACGTTTTGTTTTTCGTG 60.003 43.478 0.00 0.00 36.67 4.35
2756 3160 3.162831 GGTTCGACGTTTTGTTTTTCGT 58.837 40.909 0.00 0.00 39.21 3.85
2757 3161 2.209393 CGGTTCGACGTTTTGTTTTTCG 59.791 45.455 0.00 0.00 0.00 3.46
2758 3162 3.002829 CACGGTTCGACGTTTTGTTTTTC 60.003 43.478 0.00 0.00 46.25 2.29
2759 3163 2.909863 CACGGTTCGACGTTTTGTTTTT 59.090 40.909 0.00 0.00 46.25 1.94
2760 3164 2.507866 CACGGTTCGACGTTTTGTTTT 58.492 42.857 0.00 0.00 46.25 2.43
2761 3165 1.791196 GCACGGTTCGACGTTTTGTTT 60.791 47.619 0.00 0.00 46.25 2.83
2762 3166 0.247775 GCACGGTTCGACGTTTTGTT 60.248 50.000 0.00 0.00 46.25 2.83
2763 3167 1.349282 GCACGGTTCGACGTTTTGT 59.651 52.632 0.00 0.00 46.25 2.83
2764 3168 0.247735 TTGCACGGTTCGACGTTTTG 60.248 50.000 0.00 0.00 46.25 2.44
2765 3169 0.027063 CTTGCACGGTTCGACGTTTT 59.973 50.000 0.00 0.00 46.25 2.43
2766 3170 1.639534 CTTGCACGGTTCGACGTTT 59.360 52.632 0.00 0.00 46.25 3.60
2767 3171 2.241880 CCTTGCACGGTTCGACGTT 61.242 57.895 0.00 0.00 46.25 3.99
2769 3173 1.492319 TTTCCTTGCACGGTTCGACG 61.492 55.000 9.36 0.00 40.31 5.12
2770 3174 0.658897 TTTTCCTTGCACGGTTCGAC 59.341 50.000 9.36 0.00 0.00 4.20
2771 3175 0.941542 CTTTTCCTTGCACGGTTCGA 59.058 50.000 9.36 0.00 0.00 3.71
2772 3176 0.660300 GCTTTTCCTTGCACGGTTCG 60.660 55.000 9.36 0.00 0.00 3.95
2773 3177 0.318699 GGCTTTTCCTTGCACGGTTC 60.319 55.000 9.36 0.00 0.00 3.62
2774 3178 1.739667 GGCTTTTCCTTGCACGGTT 59.260 52.632 9.36 0.00 0.00 4.44
2775 3179 2.200337 GGGCTTTTCCTTGCACGGT 61.200 57.895 9.36 0.00 34.39 4.83
2776 3180 2.199652 TGGGCTTTTCCTTGCACGG 61.200 57.895 1.99 1.99 34.94 4.94
2777 3181 1.007387 GTGGGCTTTTCCTTGCACG 60.007 57.895 0.00 0.00 34.94 5.34
2778 3182 1.541588 CTAGTGGGCTTTTCCTTGCAC 59.458 52.381 0.00 0.00 34.39 4.57
2779 3183 1.547675 CCTAGTGGGCTTTTCCTTGCA 60.548 52.381 0.00 0.00 34.39 4.08
2780 3184 1.177401 CCTAGTGGGCTTTTCCTTGC 58.823 55.000 0.00 0.00 34.39 4.01
2798 3202 1.534729 ATTCCTTCGTGAGGTTTGCC 58.465 50.000 7.33 0.00 46.39 4.52
2799 3203 2.552315 TCAATTCCTTCGTGAGGTTTGC 59.448 45.455 7.33 0.00 46.39 3.68
2800 3204 5.048782 TCAATCAATTCCTTCGTGAGGTTTG 60.049 40.000 7.33 11.18 46.39 2.93
2801 3205 5.070001 TCAATCAATTCCTTCGTGAGGTTT 58.930 37.500 7.33 1.81 46.39 3.27
2802 3206 4.651778 TCAATCAATTCCTTCGTGAGGTT 58.348 39.130 7.33 0.00 46.39 3.50
2803 3207 4.286297 TCAATCAATTCCTTCGTGAGGT 57.714 40.909 7.33 0.00 46.39 3.85
2804 3208 7.227314 TGATTATCAATCAATTCCTTCGTGAGG 59.773 37.037 0.00 1.79 44.47 3.86
2805 3209 8.146479 TGATTATCAATCAATTCCTTCGTGAG 57.854 34.615 0.00 0.00 44.47 3.51
2821 3225 5.527214 CCCGTGCTAACAGATTGATTATCAA 59.473 40.000 10.23 10.23 41.09 2.57
2822 3226 5.056480 CCCGTGCTAACAGATTGATTATCA 58.944 41.667 0.00 0.00 35.59 2.15
2823 3227 5.177696 GTCCCGTGCTAACAGATTGATTATC 59.822 44.000 0.00 0.00 0.00 1.75
2824 3228 5.057149 GTCCCGTGCTAACAGATTGATTAT 58.943 41.667 0.00 0.00 0.00 1.28
2825 3229 4.439057 GTCCCGTGCTAACAGATTGATTA 58.561 43.478 0.00 0.00 0.00 1.75
2826 3230 3.270877 GTCCCGTGCTAACAGATTGATT 58.729 45.455 0.00 0.00 0.00 2.57
2827 3231 2.420129 GGTCCCGTGCTAACAGATTGAT 60.420 50.000 0.00 0.00 0.00 2.57
2828 3232 1.066430 GGTCCCGTGCTAACAGATTGA 60.066 52.381 0.00 0.00 0.00 2.57
2829 3233 1.369625 GGTCCCGTGCTAACAGATTG 58.630 55.000 0.00 0.00 0.00 2.67
2830 3234 0.252197 GGGTCCCGTGCTAACAGATT 59.748 55.000 0.00 0.00 0.00 2.40
2831 3235 1.623542 GGGGTCCCGTGCTAACAGAT 61.624 60.000 0.48 0.00 0.00 2.90
2832 3236 2.288025 GGGGTCCCGTGCTAACAGA 61.288 63.158 0.48 0.00 0.00 3.41
2833 3237 2.267961 GGGGTCCCGTGCTAACAG 59.732 66.667 0.48 0.00 0.00 3.16
2834 3238 2.527123 TGGGGTCCCGTGCTAACA 60.527 61.111 0.48 0.00 39.42 2.41
2835 3239 2.267961 CTGGGGTCCCGTGCTAAC 59.732 66.667 0.48 0.00 39.42 2.34
2836 3240 2.120940 TCTGGGGTCCCGTGCTAA 59.879 61.111 0.48 0.00 39.42 3.09
2837 3241 2.682494 GTCTGGGGTCCCGTGCTA 60.682 66.667 0.48 0.00 39.42 3.49
2843 3247 4.791069 TAGCCGGTCTGGGGTCCC 62.791 72.222 1.90 0.00 38.96 4.46
2844 3248 3.468140 GTAGCCGGTCTGGGGTCC 61.468 72.222 1.90 0.00 38.96 4.46
2845 3249 2.363925 AGTAGCCGGTCTGGGGTC 60.364 66.667 1.90 0.00 38.96 4.46
2846 3250 2.363925 GAGTAGCCGGTCTGGGGT 60.364 66.667 1.90 0.00 41.52 4.95
2847 3251 3.155167 GGAGTAGCCGGTCTGGGG 61.155 72.222 1.90 0.00 38.63 4.96
2848 3252 2.042843 AGGAGTAGCCGGTCTGGG 60.043 66.667 1.90 0.00 43.43 4.45
2849 3253 1.076632 AGAGGAGTAGCCGGTCTGG 60.077 63.158 1.90 0.00 43.43 3.86
2850 3254 2.010582 GCAGAGGAGTAGCCGGTCTG 62.011 65.000 1.90 7.51 43.43 3.51
2851 3255 1.755008 GCAGAGGAGTAGCCGGTCT 60.755 63.158 1.90 3.10 43.43 3.85
2852 3256 1.324005 AAGCAGAGGAGTAGCCGGTC 61.324 60.000 1.90 0.00 43.43 4.79
2853 3257 0.905337 AAAGCAGAGGAGTAGCCGGT 60.905 55.000 1.90 0.00 43.43 5.28
2854 3258 0.460987 CAAAGCAGAGGAGTAGCCGG 60.461 60.000 0.00 0.00 43.43 6.13
2855 3259 1.086634 GCAAAGCAGAGGAGTAGCCG 61.087 60.000 0.00 0.00 43.43 5.52
2856 3260 0.746204 GGCAAAGCAGAGGAGTAGCC 60.746 60.000 0.00 0.00 0.00 3.93
2857 3261 0.036010 TGGCAAAGCAGAGGAGTAGC 60.036 55.000 0.00 0.00 0.00 3.58
2858 3262 2.479566 TTGGCAAAGCAGAGGAGTAG 57.520 50.000 0.00 0.00 0.00 2.57
2859 3263 2.949177 TTTGGCAAAGCAGAGGAGTA 57.051 45.000 8.93 0.00 0.00 2.59
2860 3264 2.165998 GATTTGGCAAAGCAGAGGAGT 58.834 47.619 22.21 0.00 0.00 3.85
2861 3265 1.475682 GGATTTGGCAAAGCAGAGGAG 59.524 52.381 27.16 0.00 0.00 3.69
2862 3266 1.549203 GGATTTGGCAAAGCAGAGGA 58.451 50.000 27.16 0.00 0.00 3.71
2863 3267 0.533951 GGGATTTGGCAAAGCAGAGG 59.466 55.000 27.16 0.00 0.00 3.69
2864 3268 1.203994 CTGGGATTTGGCAAAGCAGAG 59.796 52.381 27.16 18.12 0.00 3.35
2865 3269 1.203038 TCTGGGATTTGGCAAAGCAGA 60.203 47.619 27.16 19.50 0.00 4.26
2866 3270 1.067354 GTCTGGGATTTGGCAAAGCAG 60.067 52.381 27.16 17.67 0.00 4.24
2867 3271 0.968405 GTCTGGGATTTGGCAAAGCA 59.032 50.000 27.16 9.10 0.00 3.91
2868 3272 1.260544 AGTCTGGGATTTGGCAAAGC 58.739 50.000 19.35 19.35 0.00 3.51
2869 3273 3.019564 CCTAGTCTGGGATTTGGCAAAG 58.980 50.000 18.61 4.14 0.00 2.77
2870 3274 2.883888 GCCTAGTCTGGGATTTGGCAAA 60.884 50.000 16.01 16.01 39.18 3.68
2871 3275 1.340991 GCCTAGTCTGGGATTTGGCAA 60.341 52.381 6.40 0.00 39.18 4.52
2872 3276 0.255890 GCCTAGTCTGGGATTTGGCA 59.744 55.000 6.40 0.00 39.18 4.92
2873 3277 0.815615 CGCCTAGTCTGGGATTTGGC 60.816 60.000 6.40 5.71 36.99 4.52
2874 3278 0.815615 GCGCCTAGTCTGGGATTTGG 60.816 60.000 6.40 0.00 0.00 3.28
2875 3279 0.815615 GGCGCCTAGTCTGGGATTTG 60.816 60.000 22.15 0.00 0.00 2.32
2876 3280 1.527370 GGCGCCTAGTCTGGGATTT 59.473 57.895 22.15 0.00 0.00 2.17
2877 3281 2.797278 CGGCGCCTAGTCTGGGATT 61.797 63.158 26.68 0.00 0.00 3.01
2878 3282 3.227276 CGGCGCCTAGTCTGGGAT 61.227 66.667 26.68 0.00 0.00 3.85
2895 3299 3.934962 GAGAGGCATCGGAGGGGC 61.935 72.222 0.00 0.00 0.00 5.80
2896 3300 3.237741 GGAGAGGCATCGGAGGGG 61.238 72.222 0.00 0.00 0.00 4.79
2897 3301 3.610669 CGGAGAGGCATCGGAGGG 61.611 72.222 0.00 0.00 0.00 4.30
2898 3302 1.467678 AATCGGAGAGGCATCGGAGG 61.468 60.000 0.00 0.00 43.63 4.30
2899 3303 0.390860 AAATCGGAGAGGCATCGGAG 59.609 55.000 0.00 0.00 43.63 4.63
2900 3304 0.830648 AAAATCGGAGAGGCATCGGA 59.169 50.000 0.00 3.19 43.63 4.55
2901 3305 0.940126 CAAAATCGGAGAGGCATCGG 59.060 55.000 0.00 0.00 43.63 4.18
2902 3306 1.939974 TCAAAATCGGAGAGGCATCG 58.060 50.000 0.00 0.00 43.63 3.84
2903 3307 3.274288 ACTTCAAAATCGGAGAGGCATC 58.726 45.455 0.00 0.00 43.63 3.91
2904 3308 3.274288 GACTTCAAAATCGGAGAGGCAT 58.726 45.455 0.00 0.00 43.63 4.40
2905 3309 2.699954 GACTTCAAAATCGGAGAGGCA 58.300 47.619 0.00 0.00 43.63 4.75
2906 3310 1.661112 CGACTTCAAAATCGGAGAGGC 59.339 52.381 0.00 0.00 43.63 4.70
2907 3311 2.668457 CACGACTTCAAAATCGGAGAGG 59.332 50.000 0.00 0.00 43.63 3.69
2908 3312 2.668457 CCACGACTTCAAAATCGGAGAG 59.332 50.000 0.00 0.00 43.63 3.20
2909 3313 2.683968 CCACGACTTCAAAATCGGAGA 58.316 47.619 0.00 0.00 42.67 3.71
2910 3314 1.128692 GCCACGACTTCAAAATCGGAG 59.871 52.381 0.00 0.00 42.67 4.63
2911 3315 1.153353 GCCACGACTTCAAAATCGGA 58.847 50.000 0.00 0.00 42.67 4.55
2912 3316 0.168128 GGCCACGACTTCAAAATCGG 59.832 55.000 0.00 0.00 42.67 4.18
2913 3317 0.179225 CGGCCACGACTTCAAAATCG 60.179 55.000 2.24 0.00 44.60 3.34
2914 3318 0.168128 CCGGCCACGACTTCAAAATC 59.832 55.000 2.24 0.00 44.60 2.17
2915 3319 1.862602 GCCGGCCACGACTTCAAAAT 61.863 55.000 18.11 0.00 44.60 1.82
2916 3320 2.548295 GCCGGCCACGACTTCAAAA 61.548 57.895 18.11 0.00 44.60 2.44
2917 3321 2.975799 GCCGGCCACGACTTCAAA 60.976 61.111 18.11 0.00 44.60 2.69
2928 3332 1.534729 CTATCCTTTAATGGCCGGCC 58.465 55.000 39.40 39.40 0.00 6.13
2929 3333 0.881796 GCTATCCTTTAATGGCCGGC 59.118 55.000 21.18 21.18 0.00 6.13
2930 3334 2.568623 AGCTATCCTTTAATGGCCGG 57.431 50.000 0.00 0.00 33.94 6.13
2931 3335 2.993899 CGTAGCTATCCTTTAATGGCCG 59.006 50.000 0.00 0.00 33.94 6.13
2932 3336 3.335579 CCGTAGCTATCCTTTAATGGCC 58.664 50.000 0.00 0.00 33.94 5.36
2933 3337 2.742589 GCCGTAGCTATCCTTTAATGGC 59.257 50.000 0.00 0.00 35.50 4.40
2934 3338 3.746492 GTGCCGTAGCTATCCTTTAATGG 59.254 47.826 0.00 0.83 40.80 3.16
2935 3339 4.377021 TGTGCCGTAGCTATCCTTTAATG 58.623 43.478 0.00 0.00 40.80 1.90
2936 3340 4.682778 TGTGCCGTAGCTATCCTTTAAT 57.317 40.909 0.00 0.00 40.80 1.40
2937 3341 4.475051 TTGTGCCGTAGCTATCCTTTAA 57.525 40.909 0.00 0.00 40.80 1.52
2938 3342 4.475051 TTTGTGCCGTAGCTATCCTTTA 57.525 40.909 0.00 0.00 40.80 1.85
2939 3343 3.343941 TTTGTGCCGTAGCTATCCTTT 57.656 42.857 0.00 0.00 40.80 3.11
2940 3344 3.118408 TGATTTGTGCCGTAGCTATCCTT 60.118 43.478 0.00 0.00 40.80 3.36
2941 3345 2.434336 TGATTTGTGCCGTAGCTATCCT 59.566 45.455 0.00 0.00 40.80 3.24
2942 3346 2.833794 TGATTTGTGCCGTAGCTATCC 58.166 47.619 0.00 0.00 40.80 2.59
2943 3347 4.083802 GGAATGATTTGTGCCGTAGCTATC 60.084 45.833 0.00 0.00 40.80 2.08
2944 3348 3.815401 GGAATGATTTGTGCCGTAGCTAT 59.185 43.478 0.00 0.00 40.80 2.97
2945 3349 3.118408 AGGAATGATTTGTGCCGTAGCTA 60.118 43.478 0.00 0.00 40.80 3.32
2946 3350 2.017049 GGAATGATTTGTGCCGTAGCT 58.983 47.619 0.00 0.00 40.80 3.32
2947 3351 2.017049 AGGAATGATTTGTGCCGTAGC 58.983 47.619 0.00 0.00 40.48 3.58
2948 3352 3.270027 TGAGGAATGATTTGTGCCGTAG 58.730 45.455 0.00 0.00 0.00 3.51
2949 3353 3.342377 TGAGGAATGATTTGTGCCGTA 57.658 42.857 0.00 0.00 0.00 4.02
2950 3354 2.198827 TGAGGAATGATTTGTGCCGT 57.801 45.000 0.00 0.00 0.00 5.68
2951 3355 3.129113 TGATTGAGGAATGATTTGTGCCG 59.871 43.478 0.00 0.00 0.00 5.69
2952 3356 4.679662 CTGATTGAGGAATGATTTGTGCC 58.320 43.478 0.00 0.00 0.00 5.01
2953 3357 4.110482 GCTGATTGAGGAATGATTTGTGC 58.890 43.478 0.00 0.00 0.00 4.57
2954 3358 5.450137 GGAGCTGATTGAGGAATGATTTGTG 60.450 44.000 0.00 0.00 0.00 3.33
2955 3359 4.643784 GGAGCTGATTGAGGAATGATTTGT 59.356 41.667 0.00 0.00 0.00 2.83
2956 3360 4.037684 GGGAGCTGATTGAGGAATGATTTG 59.962 45.833 0.00 0.00 0.00 2.32
2957 3361 4.213513 GGGAGCTGATTGAGGAATGATTT 58.786 43.478 0.00 0.00 0.00 2.17
2958 3362 3.436180 GGGGAGCTGATTGAGGAATGATT 60.436 47.826 0.00 0.00 0.00 2.57
2959 3363 2.107901 GGGGAGCTGATTGAGGAATGAT 59.892 50.000 0.00 0.00 0.00 2.45
2960 3364 1.492176 GGGGAGCTGATTGAGGAATGA 59.508 52.381 0.00 0.00 0.00 2.57
2961 3365 1.978454 GGGGAGCTGATTGAGGAATG 58.022 55.000 0.00 0.00 0.00 2.67


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

AutoCloner maintained by Alex Coulton.