Multiple sequence alignment - TraesCS2B01G472500

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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 TraesCS2B01G472500 chr2B 100.000 3208 0 0 1 3208 669190690 669193897 0.000000e+00 5925
1 TraesCS2B01G472500 chr2D 93.056 2549 127 20 1 2519 560866357 560863829 0.000000e+00 3681
2 TraesCS2B01G472500 chr2A 92.482 2434 123 26 57 2440 700673668 700671245 0.000000e+00 3426
3 TraesCS2B01G472500 chr2A 84.706 255 30 4 2764 3017 700670778 700670532 2.470000e-61 246
4 TraesCS2B01G472500 chr7D 80.851 1457 221 36 837 2272 621159018 621160437 0.000000e+00 1092
5 TraesCS2B01G472500 chr7D 79.879 1327 209 36 962 2272 621203479 621204763 0.000000e+00 918
6 TraesCS2B01G472500 chr7D 83.155 374 59 4 432 802 621202785 621203157 3.960000e-89 339
7 TraesCS2B01G472500 chr7A 80.831 1299 196 27 461 1738 715785589 715784323 0.000000e+00 970
8 TraesCS2B01G472500 chr7A 80.287 1116 189 23 996 2098 715925498 715924401 0.000000e+00 813
9 TraesCS2B01G472500 chr7A 82.086 374 56 9 438 802 715925917 715925546 3.110000e-80 309
10 TraesCS2B01G472500 chr7B 78.595 1210 206 32 867 2051 717226156 717224975 0.000000e+00 750
11 TraesCS2B01G472500 chr7B 78.264 1210 210 32 867 2051 717150684 717149503 0.000000e+00 728


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 TraesCS2B01G472500 chr2B 669190690 669193897 3207 False 5925.0 5925 100.0000 1 3208 1 chr2B.!!$F1 3207
1 TraesCS2B01G472500 chr2D 560863829 560866357 2528 True 3681.0 3681 93.0560 1 2519 1 chr2D.!!$R1 2518
2 TraesCS2B01G472500 chr2A 700670532 700673668 3136 True 1836.0 3426 88.5940 57 3017 2 chr2A.!!$R1 2960
3 TraesCS2B01G472500 chr7D 621159018 621160437 1419 False 1092.0 1092 80.8510 837 2272 1 chr7D.!!$F1 1435
4 TraesCS2B01G472500 chr7D 621202785 621204763 1978 False 628.5 918 81.5170 432 2272 2 chr7D.!!$F2 1840
5 TraesCS2B01G472500 chr7A 715784323 715785589 1266 True 970.0 970 80.8310 461 1738 1 chr7A.!!$R1 1277
6 TraesCS2B01G472500 chr7A 715924401 715925917 1516 True 561.0 813 81.1865 438 2098 2 chr7A.!!$R2 1660
7 TraesCS2B01G472500 chr7B 717224975 717226156 1181 True 750.0 750 78.5950 867 2051 1 chr7B.!!$R2 1184
8 TraesCS2B01G472500 chr7B 717149503 717150684 1181 True 728.0 728 78.2640 867 2051 1 chr7B.!!$R1 1184

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
66 75 1.134521 CGTAGCCATTCAGTAGCCCAA 60.135 52.381 0.0 0.0 0.0 4.12 F
1003 1221 0.392998 CAGGGGTTTGACGAGGATGG 60.393 60.000 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1566 1835 0.236711 CGGCATGCGAGATTCCATTC 59.763 55.0 12.44 0.0 0.0 2.67 R
2971 3462 0.911769 AGGCAGTCATTCCCATTCGA 59.088 50.0 0.00 0.0 0.0 3.71 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
40 41 5.941948 AGCACAGATATTTTTATACGGCC 57.058 39.130 0.00 0.00 0.00 6.13
66 75 1.134521 CGTAGCCATTCAGTAGCCCAA 60.135 52.381 0.00 0.00 0.00 4.12
135 154 1.741028 TTCCAGTCCAGTCCATTCCA 58.259 50.000 0.00 0.00 0.00 3.53
315 353 3.309506 ACAGTCGGCAGCAGAGCT 61.310 61.111 0.00 0.00 40.77 4.09
345 391 2.203998 CAGTGGGGACTGGGGAGT 60.204 66.667 0.00 0.00 34.28 3.85
994 1212 1.364901 GTCGACGACAGGGGTTTGA 59.635 57.895 22.66 0.00 32.09 2.69
1003 1221 0.392998 CAGGGGTTTGACGAGGATGG 60.393 60.000 0.00 0.00 0.00 3.51
1288 1524 1.508088 CGCATCTGCCAAAAGGTCC 59.492 57.895 0.00 0.00 37.91 4.46
1298 1534 3.010420 GCCAAAAGGTCCACTGACTATC 58.990 50.000 0.00 0.00 41.47 2.08
1299 1535 3.307762 GCCAAAAGGTCCACTGACTATCT 60.308 47.826 0.00 0.00 41.47 1.98
1477 1742 4.973168 TGTCCTCTTTGTATGCACTTCTT 58.027 39.130 0.00 0.00 0.00 2.52
1494 1759 4.222810 ACTTCTTTGCTGGACTTTGGTTTT 59.777 37.500 0.00 0.00 0.00 2.43
1499 1764 5.407407 TTGCTGGACTTTGGTTTTGTTTA 57.593 34.783 0.00 0.00 0.00 2.01
1566 1835 0.535102 AGGTTGTGTCTTCCTTGCCG 60.535 55.000 0.00 0.00 0.00 5.69
1578 1847 0.940126 CCTTGCCGAATGGAATCTCG 59.060 55.000 0.00 0.00 37.49 4.04
1726 1998 4.625083 GCTGTAATCTGGAGAGGCTTTTCT 60.625 45.833 0.00 0.00 0.00 2.52
1740 2012 3.507622 GGCTTTTCTTGCAGGTCTTACAT 59.492 43.478 0.00 0.00 0.00 2.29
1749 2024 5.235850 TGCAGGTCTTACATCCTTTACAA 57.764 39.130 0.00 0.00 30.91 2.41
1751 2026 4.395231 GCAGGTCTTACATCCTTTACAACC 59.605 45.833 0.00 0.00 30.91 3.77
1813 2095 8.158169 TGTCATTCTATTACATTGGCATCTTC 57.842 34.615 0.00 0.00 0.00 2.87
1817 2099 9.976511 CATTCTATTACATTGGCATCTTCATTT 57.023 29.630 0.00 0.00 0.00 2.32
1829 2111 8.223177 TGGCATCTTCATTTTGTTTTCATTTT 57.777 26.923 0.00 0.00 0.00 1.82
1831 2113 8.344098 GGCATCTTCATTTTGTTTTCATTTTGA 58.656 29.630 0.00 0.00 0.00 2.69
1894 2177 2.914289 CATCCCCACTGAGCCCTC 59.086 66.667 0.00 0.00 0.00 4.30
1895 2178 1.997311 CATCCCCACTGAGCCCTCA 60.997 63.158 0.00 0.00 38.06 3.86
1905 2188 1.361204 TGAGCCCTCAGTGGATTCAA 58.639 50.000 0.00 0.00 38.35 2.69
2115 2403 5.580297 CAGAAGGCAGATCTCTTACTTGTTC 59.420 44.000 0.00 0.00 0.00 3.18
2128 2416 1.139058 ACTTGTTCGAGAAGCTGTGGT 59.861 47.619 6.25 0.00 0.00 4.16
2186 2474 1.736696 GCAACCCAGCCATTTCATTCG 60.737 52.381 0.00 0.00 0.00 3.34
2228 2516 2.362077 GTTGCCAGTCACAAGTCCAATT 59.638 45.455 0.00 0.00 0.00 2.32
2229 2517 3.500448 TGCCAGTCACAAGTCCAATTA 57.500 42.857 0.00 0.00 0.00 1.40
2280 2570 0.609131 GGCCTGCCTTTTGACTGCTA 60.609 55.000 0.00 0.00 0.00 3.49
2377 2668 8.094548 TGTATGCAACAAGTACTACTTCTGAAT 58.905 33.333 0.00 8.19 36.03 2.57
2382 2673 6.038997 ACAAGTACTACTTCTGAATGGGAC 57.961 41.667 0.00 0.00 36.03 4.46
2478 2772 4.439016 GGTGGTTTCTTTTTCTACGCACAA 60.439 41.667 0.00 0.00 0.00 3.33
2479 2773 5.278604 GTGGTTTCTTTTTCTACGCACAAT 58.721 37.500 0.00 0.00 0.00 2.71
2480 2774 5.173131 GTGGTTTCTTTTTCTACGCACAATG 59.827 40.000 0.00 0.00 0.00 2.82
2481 2775 5.163602 TGGTTTCTTTTTCTACGCACAATGT 60.164 36.000 0.00 0.00 0.00 2.71
2482 2776 5.746721 GGTTTCTTTTTCTACGCACAATGTT 59.253 36.000 0.00 0.00 0.00 2.71
2483 2777 6.291585 GGTTTCTTTTTCTACGCACAATGTTG 60.292 38.462 0.00 0.00 0.00 3.33
2484 2778 5.743026 TCTTTTTCTACGCACAATGTTGA 57.257 34.783 0.00 0.00 0.00 3.18
2485 2779 6.312399 TCTTTTTCTACGCACAATGTTGAT 57.688 33.333 0.00 0.00 0.00 2.57
2486 2780 6.734137 TCTTTTTCTACGCACAATGTTGATT 58.266 32.000 0.00 0.00 0.00 2.57
2520 2814 6.289834 TGCAAGTGTTGATTTTCCATCATTT 58.710 32.000 0.00 0.00 0.00 2.32
2521 2815 6.766944 TGCAAGTGTTGATTTTCCATCATTTT 59.233 30.769 0.00 0.00 0.00 1.82
2526 3016 7.654520 AGTGTTGATTTTCCATCATTTTCAGTG 59.345 33.333 0.00 0.00 0.00 3.66
2528 3018 7.868922 TGTTGATTTTCCATCATTTTCAGTGAG 59.131 33.333 0.00 0.00 0.00 3.51
2539 3029 3.708403 TTTCAGTGAGCACAGGATGAT 57.292 42.857 3.19 0.00 39.69 2.45
2540 3030 2.685850 TCAGTGAGCACAGGATGATG 57.314 50.000 3.19 0.00 39.69 3.07
2541 3031 2.181975 TCAGTGAGCACAGGATGATGA 58.818 47.619 3.19 0.00 39.69 2.92
2542 3032 2.568509 TCAGTGAGCACAGGATGATGAA 59.431 45.455 3.19 0.00 39.69 2.57
2543 3033 2.937149 CAGTGAGCACAGGATGATGAAG 59.063 50.000 3.19 0.00 39.69 3.02
2544 3034 2.570752 AGTGAGCACAGGATGATGAAGT 59.429 45.455 3.19 0.00 39.69 3.01
2547 3037 3.754850 TGAGCACAGGATGATGAAGTTTG 59.245 43.478 0.00 0.00 39.69 2.93
2548 3038 2.490903 AGCACAGGATGATGAAGTTTGC 59.509 45.455 0.00 0.00 39.69 3.68
2553 3044 4.586001 ACAGGATGATGAAGTTTGCTTTGT 59.414 37.500 0.00 0.00 39.69 2.83
2577 3068 4.751767 ACAGACTTCCCTGATCATTCTC 57.248 45.455 0.00 0.00 37.59 2.87
2586 3077 7.618512 ACTTCCCTGATCATTCTCATTTCATTT 59.381 33.333 0.00 0.00 0.00 2.32
2590 3081 6.322969 CCTGATCATTCTCATTTCATTTCCCA 59.677 38.462 0.00 0.00 0.00 4.37
2595 3086 6.322969 TCATTCTCATTTCATTTCCCATGGAG 59.677 38.462 15.22 3.25 31.21 3.86
2613 3104 5.304686 TGGAGGGATCAATATGTACAACC 57.695 43.478 0.00 0.00 0.00 3.77
2614 3105 4.724293 TGGAGGGATCAATATGTACAACCA 59.276 41.667 0.00 0.00 0.00 3.67
2615 3106 5.192722 TGGAGGGATCAATATGTACAACCAA 59.807 40.000 0.00 0.00 0.00 3.67
2618 3109 7.419750 GGAGGGATCAATATGTACAACCAACTA 60.420 40.741 0.00 0.00 0.00 2.24
2619 3110 8.045720 AGGGATCAATATGTACAACCAACTAT 57.954 34.615 0.00 0.00 0.00 2.12
2620 3111 8.157476 AGGGATCAATATGTACAACCAACTATC 58.843 37.037 0.00 0.00 0.00 2.08
2630 3121 8.771920 TGTACAACCAACTATCTATCTTGTTG 57.228 34.615 0.00 0.00 39.35 3.33
2631 3122 8.590204 TGTACAACCAACTATCTATCTTGTTGA 58.410 33.333 0.00 0.00 41.35 3.18
2633 3124 6.595716 ACAACCAACTATCTATCTTGTTGAGC 59.404 38.462 0.00 0.00 41.35 4.26
2634 3125 5.675538 ACCAACTATCTATCTTGTTGAGCC 58.324 41.667 0.00 0.00 41.35 4.70
2636 3127 5.451937 CCAACTATCTATCTTGTTGAGCCGA 60.452 44.000 0.00 0.00 41.35 5.54
2637 3128 5.854010 ACTATCTATCTTGTTGAGCCGAA 57.146 39.130 0.00 0.00 0.00 4.30
2638 3129 5.837437 ACTATCTATCTTGTTGAGCCGAAG 58.163 41.667 0.00 0.00 0.00 3.79
2639 3130 8.631559 CAACTATCTATCTTGTTGAGCCGAAGG 61.632 44.444 0.00 0.00 45.87 3.46
2713 3204 7.698163 ATAAGATGGGAGAAAGTCAAGGTAT 57.302 36.000 0.00 0.00 0.00 2.73
2716 3207 2.093658 TGGGAGAAAGTCAAGGTATCGC 60.094 50.000 0.00 0.00 0.00 4.58
2726 3217 3.676646 GTCAAGGTATCGCGTAAACAACT 59.323 43.478 5.77 0.00 0.00 3.16
2727 3218 4.858692 GTCAAGGTATCGCGTAAACAACTA 59.141 41.667 5.77 0.00 0.00 2.24
2728 3219 5.345741 GTCAAGGTATCGCGTAAACAACTAA 59.654 40.000 5.77 0.00 0.00 2.24
2729 3220 5.925397 TCAAGGTATCGCGTAAACAACTAAA 59.075 36.000 5.77 0.00 0.00 1.85
2730 3221 5.768333 AGGTATCGCGTAAACAACTAAAC 57.232 39.130 5.77 0.00 0.00 2.01
2731 3222 5.229423 AGGTATCGCGTAAACAACTAAACA 58.771 37.500 5.77 0.00 0.00 2.83
2732 3223 5.870978 AGGTATCGCGTAAACAACTAAACAT 59.129 36.000 5.77 0.00 0.00 2.71
2733 3224 5.955496 GGTATCGCGTAAACAACTAAACATG 59.045 40.000 5.77 0.00 0.00 3.21
2734 3225 5.849357 ATCGCGTAAACAACTAAACATGA 57.151 34.783 5.77 0.00 0.00 3.07
2735 3226 5.849357 TCGCGTAAACAACTAAACATGAT 57.151 34.783 5.77 0.00 0.00 2.45
2736 3227 5.849858 TCGCGTAAACAACTAAACATGATC 58.150 37.500 5.77 0.00 0.00 2.92
2737 3228 5.636121 TCGCGTAAACAACTAAACATGATCT 59.364 36.000 5.77 0.00 0.00 2.75
2738 3229 6.146510 TCGCGTAAACAACTAAACATGATCTT 59.853 34.615 5.77 0.00 0.00 2.40
2739 3230 6.795114 CGCGTAAACAACTAAACATGATCTTT 59.205 34.615 0.00 0.00 0.00 2.52
2740 3231 7.322699 CGCGTAAACAACTAAACATGATCTTTT 59.677 33.333 0.00 0.00 0.00 2.27
2741 3232 8.417176 GCGTAAACAACTAAACATGATCTTTTG 58.583 33.333 0.00 0.00 0.00 2.44
2742 3233 8.417176 CGTAAACAACTAAACATGATCTTTTGC 58.583 33.333 0.00 0.00 0.00 3.68
2743 3234 7.713764 AAACAACTAAACATGATCTTTTGCC 57.286 32.000 0.00 0.00 0.00 4.52
2744 3235 5.783111 ACAACTAAACATGATCTTTTGCCC 58.217 37.500 0.00 0.00 0.00 5.36
2745 3236 4.701956 ACTAAACATGATCTTTTGCCCG 57.298 40.909 0.00 0.00 0.00 6.13
2746 3237 2.368655 AAACATGATCTTTTGCCCGC 57.631 45.000 0.00 0.00 0.00 6.13
2747 3238 1.255882 AACATGATCTTTTGCCCGCA 58.744 45.000 0.00 0.00 0.00 5.69
2748 3239 1.255882 ACATGATCTTTTGCCCGCAA 58.744 45.000 0.00 0.00 0.00 4.85
2749 3240 1.617850 ACATGATCTTTTGCCCGCAAA 59.382 42.857 10.71 10.71 43.23 3.68
2790 3281 4.999950 TGATCTTCTCTCTTGCCAAGAAAC 59.000 41.667 8.74 0.00 37.02 2.78
2798 3289 6.998074 TCTCTCTTGCCAAGAAACTATCAAAA 59.002 34.615 8.74 0.00 37.02 2.44
2802 3293 5.376854 TGCCAAGAAACTATCAAAAGCTC 57.623 39.130 0.00 0.00 0.00 4.09
2806 3297 6.622462 GCCAAGAAACTATCAAAAGCTCTCAG 60.622 42.308 0.00 0.00 0.00 3.35
2820 3311 5.220710 AGCTCTCAGTGTCTTGTAATGTT 57.779 39.130 0.00 0.00 0.00 2.71
2832 3323 9.065871 GTGTCTTGTAATGTTGATTTAGATTGC 57.934 33.333 0.00 0.00 0.00 3.56
2877 3368 6.343716 TCCAAATTTATCAGCTTTGCTTCA 57.656 33.333 0.00 0.00 36.40 3.02
2885 3376 3.550820 TCAGCTTTGCTTCAAGTTACCA 58.449 40.909 0.00 0.00 36.40 3.25
2892 3383 6.478512 TTTGCTTCAAGTTACCATTTCCTT 57.521 33.333 0.00 0.00 0.00 3.36
2895 3386 6.065374 TGCTTCAAGTTACCATTTCCTTACA 58.935 36.000 0.00 0.00 0.00 2.41
2896 3387 6.016610 TGCTTCAAGTTACCATTTCCTTACAC 60.017 38.462 0.00 0.00 0.00 2.90
2899 3390 7.883391 TCAAGTTACCATTTCCTTACACAAA 57.117 32.000 0.00 0.00 0.00 2.83
2910 3401 5.600908 TCCTTACACAAATTTACGTGCTC 57.399 39.130 0.00 0.00 36.57 4.26
2920 3411 5.470845 AATTTACGTGCTCTGTCTATTGC 57.529 39.130 0.00 0.00 0.00 3.56
2926 3417 3.730963 CGTGCTCTGTCTATTGCGACTTA 60.731 47.826 0.00 0.00 35.00 2.24
2929 3420 5.292101 GTGCTCTGTCTATTGCGACTTATTT 59.708 40.000 0.00 0.00 35.00 1.40
2930 3421 5.520288 TGCTCTGTCTATTGCGACTTATTTC 59.480 40.000 0.00 0.00 35.00 2.17
2931 3422 5.050702 GCTCTGTCTATTGCGACTTATTTCC 60.051 44.000 0.00 0.00 35.00 3.13
2932 3423 6.222038 TCTGTCTATTGCGACTTATTTCCT 57.778 37.500 0.00 0.00 35.00 3.36
2933 3424 6.640518 TCTGTCTATTGCGACTTATTTCCTT 58.359 36.000 0.00 0.00 35.00 3.36
2934 3425 7.778083 TCTGTCTATTGCGACTTATTTCCTTA 58.222 34.615 0.00 0.00 35.00 2.69
2935 3426 8.255206 TCTGTCTATTGCGACTTATTTCCTTAA 58.745 33.333 0.00 0.00 35.00 1.85
2936 3427 8.193250 TGTCTATTGCGACTTATTTCCTTAAC 57.807 34.615 0.00 0.00 35.00 2.01
2943 3434 5.626116 GCGACTTATTTCCTTAACTCCCTGA 60.626 44.000 0.00 0.00 0.00 3.86
2946 3437 5.489278 ACTTATTTCCTTAACTCCCTGAGCT 59.511 40.000 0.00 0.00 32.04 4.09
2958 3449 7.385894 AACTCCCTGAGCTATTTTATGAGAT 57.614 36.000 0.00 0.00 32.04 2.75
2961 3452 7.180051 ACTCCCTGAGCTATTTTATGAGATAGG 59.820 40.741 0.00 0.00 32.04 2.57
2962 3453 7.248976 TCCCTGAGCTATTTTATGAGATAGGA 58.751 38.462 0.00 0.00 0.00 2.94
2973 3464 8.662781 TTTTATGAGATAGGATGTCCTTTTCG 57.337 34.615 6.92 0.00 46.09 3.46
2984 3475 4.027674 TGTCCTTTTCGAATGGGAATGA 57.972 40.909 17.43 2.15 0.00 2.57
2988 3479 3.428045 CCTTTTCGAATGGGAATGACTGC 60.428 47.826 0.00 0.00 0.00 4.40
2993 3484 3.136443 TCGAATGGGAATGACTGCCTTAT 59.864 43.478 0.00 0.00 36.22 1.73
3002 3493 7.035612 GGGAATGACTGCCTTATTTTAACTTG 58.964 38.462 0.00 0.00 31.27 3.16
3003 3494 7.093945 GGGAATGACTGCCTTATTTTAACTTGA 60.094 37.037 0.00 0.00 31.27 3.02
3005 3496 9.860898 GAATGACTGCCTTATTTTAACTTGAAT 57.139 29.630 0.00 0.00 0.00 2.57
3006 3497 9.643693 AATGACTGCCTTATTTTAACTTGAATG 57.356 29.630 0.00 0.00 0.00 2.67
3007 3498 8.177119 TGACTGCCTTATTTTAACTTGAATGT 57.823 30.769 0.00 0.00 0.00 2.71
3008 3499 9.290988 TGACTGCCTTATTTTAACTTGAATGTA 57.709 29.630 0.00 0.00 0.00 2.29
3025 3516 9.930693 CTTGAATGTAGATAGGTATCCTTTACC 57.069 37.037 0.00 0.00 34.61 2.85
3026 3517 9.442062 TTGAATGTAGATAGGTATCCTTTACCA 57.558 33.333 4.72 0.00 39.99 3.25
3027 3518 9.442062 TGAATGTAGATAGGTATCCTTTACCAA 57.558 33.333 4.72 0.00 39.99 3.67
3031 3522 9.886337 TGTAGATAGGTATCCTTTACCAATACA 57.114 33.333 4.72 5.03 39.99 2.29
3034 3525 9.393786 AGATAGGTATCCTTTACCAATACATGT 57.606 33.333 2.69 2.69 39.99 3.21
3037 3528 8.747538 AGGTATCCTTTACCAATACATGTTTC 57.252 34.615 2.30 0.00 39.99 2.78
3038 3529 8.557450 AGGTATCCTTTACCAATACATGTTTCT 58.443 33.333 2.30 0.00 39.99 2.52
3039 3530 9.185680 GGTATCCTTTACCAATACATGTTTCTT 57.814 33.333 2.30 0.00 37.53 2.52
3042 3533 8.698973 TCCTTTACCAATACATGTTTCTTTGA 57.301 30.769 2.30 0.00 0.00 2.69
3043 3534 8.573035 TCCTTTACCAATACATGTTTCTTTGAC 58.427 33.333 2.30 0.00 0.00 3.18
3044 3535 8.356657 CCTTTACCAATACATGTTTCTTTGACA 58.643 33.333 2.30 0.00 0.00 3.58
3045 3536 9.912634 CTTTACCAATACATGTTTCTTTGACAT 57.087 29.630 2.30 0.00 38.21 3.06
3052 3543 4.997107 CATGTTTCTTTGACATGTTTGCG 58.003 39.130 0.00 0.00 45.78 4.85
3053 3544 2.857152 TGTTTCTTTGACATGTTTGCGC 59.143 40.909 0.00 0.00 0.00 6.09
3054 3545 3.115554 GTTTCTTTGACATGTTTGCGCT 58.884 40.909 9.73 0.00 0.00 5.92
3055 3546 2.404265 TCTTTGACATGTTTGCGCTG 57.596 45.000 9.73 0.00 0.00 5.18
3056 3547 0.780002 CTTTGACATGTTTGCGCTGC 59.220 50.000 9.73 0.00 0.00 5.25
3057 3548 0.385029 TTTGACATGTTTGCGCTGCT 59.615 45.000 9.73 0.00 0.00 4.24
3058 3549 1.233919 TTGACATGTTTGCGCTGCTA 58.766 45.000 9.73 0.00 0.00 3.49
3059 3550 1.233919 TGACATGTTTGCGCTGCTAA 58.766 45.000 9.73 0.00 0.00 3.09
3060 3551 1.811965 TGACATGTTTGCGCTGCTAAT 59.188 42.857 9.73 0.00 0.00 1.73
3061 3552 3.006247 TGACATGTTTGCGCTGCTAATA 58.994 40.909 9.73 0.00 0.00 0.98
3062 3553 3.627123 TGACATGTTTGCGCTGCTAATAT 59.373 39.130 9.73 0.00 0.00 1.28
3063 3554 3.956233 ACATGTTTGCGCTGCTAATATG 58.044 40.909 21.23 21.23 43.58 1.78
3064 3555 2.473530 TGTTTGCGCTGCTAATATGC 57.526 45.000 9.73 0.00 0.00 3.14
3065 3556 1.742268 TGTTTGCGCTGCTAATATGCA 59.258 42.857 9.73 0.00 41.05 3.96
3066 3557 2.163211 TGTTTGCGCTGCTAATATGCAA 59.837 40.909 9.73 6.33 42.83 4.08
3067 3558 3.181488 TGTTTGCGCTGCTAATATGCAAT 60.181 39.130 9.73 0.00 44.12 3.56
3068 3559 2.975410 TGCGCTGCTAATATGCAATC 57.025 45.000 9.73 0.00 42.83 2.67
3069 3560 2.220313 TGCGCTGCTAATATGCAATCA 58.780 42.857 9.73 0.00 42.83 2.57
3070 3561 2.815503 TGCGCTGCTAATATGCAATCAT 59.184 40.909 9.73 0.00 42.83 2.45
3071 3562 3.168963 GCGCTGCTAATATGCAATCATG 58.831 45.455 0.00 0.00 42.83 3.07
3090 3581 9.674824 CAATCATGCTAGGAATGTTAATCTTTC 57.325 33.333 0.00 0.00 0.00 2.62
3091 3582 9.638176 AATCATGCTAGGAATGTTAATCTTTCT 57.362 29.630 0.00 0.00 32.83 2.52
3092 3583 9.638176 ATCATGCTAGGAATGTTAATCTTTCTT 57.362 29.630 0.00 0.00 32.83 2.52
3093 3584 9.466497 TCATGCTAGGAATGTTAATCTTTCTTT 57.534 29.630 0.00 0.00 32.83 2.52
3094 3585 9.512435 CATGCTAGGAATGTTAATCTTTCTTTG 57.488 33.333 0.00 0.00 32.83 2.77
3095 3586 8.635765 TGCTAGGAATGTTAATCTTTCTTTGT 57.364 30.769 0.00 0.00 32.83 2.83
3096 3587 9.077885 TGCTAGGAATGTTAATCTTTCTTTGTT 57.922 29.630 0.00 0.00 32.83 2.83
3097 3588 9.914131 GCTAGGAATGTTAATCTTTCTTTGTTT 57.086 29.630 0.00 0.00 32.83 2.83
3120 3611 4.859304 TTTCATGAGCAGCTCAAAATGT 57.141 36.364 28.78 9.50 44.04 2.71
3121 3612 4.859304 TTCATGAGCAGCTCAAAATGTT 57.141 36.364 28.78 8.71 44.04 2.71
3122 3613 4.859304 TCATGAGCAGCTCAAAATGTTT 57.141 36.364 28.78 7.93 44.04 2.83
3123 3614 5.963176 TCATGAGCAGCTCAAAATGTTTA 57.037 34.783 28.78 4.88 44.04 2.01
3124 3615 6.330004 TCATGAGCAGCTCAAAATGTTTAA 57.670 33.333 28.78 4.53 44.04 1.52
3125 3616 6.384224 TCATGAGCAGCTCAAAATGTTTAAG 58.616 36.000 28.78 8.79 44.04 1.85
3126 3617 4.549458 TGAGCAGCTCAAAATGTTTAAGC 58.451 39.130 23.41 0.00 37.57 3.09
3127 3618 4.279169 TGAGCAGCTCAAAATGTTTAAGCT 59.721 37.500 23.41 8.61 43.81 3.74
3128 3619 5.473162 TGAGCAGCTCAAAATGTTTAAGCTA 59.527 36.000 23.41 0.00 41.19 3.32
3129 3620 6.151648 TGAGCAGCTCAAAATGTTTAAGCTAT 59.848 34.615 23.41 6.98 41.19 2.97
3130 3621 6.327934 AGCAGCTCAAAATGTTTAAGCTATG 58.672 36.000 12.26 6.43 41.19 2.23
3131 3622 6.151648 AGCAGCTCAAAATGTTTAAGCTATGA 59.848 34.615 12.26 0.00 41.19 2.15
3132 3623 6.976925 GCAGCTCAAAATGTTTAAGCTATGAT 59.023 34.615 12.26 0.00 41.19 2.45
3133 3624 7.490402 GCAGCTCAAAATGTTTAAGCTATGATT 59.510 33.333 12.26 0.00 41.19 2.57
3134 3625 8.804743 CAGCTCAAAATGTTTAAGCTATGATTG 58.195 33.333 12.26 0.00 41.19 2.67
3135 3626 8.526147 AGCTCAAAATGTTTAAGCTATGATTGT 58.474 29.630 11.41 0.00 41.32 2.71
3136 3627 8.589629 GCTCAAAATGTTTAAGCTATGATTGTG 58.410 33.333 0.00 0.00 0.00 3.33
3137 3628 9.844790 CTCAAAATGTTTAAGCTATGATTGTGA 57.155 29.630 0.00 0.00 0.00 3.58
3149 3640 8.430801 AGCTATGATTGTGAATAGAAACTGAC 57.569 34.615 0.00 0.00 0.00 3.51
3150 3641 8.043113 AGCTATGATTGTGAATAGAAACTGACA 58.957 33.333 0.00 0.00 0.00 3.58
3151 3642 8.119226 GCTATGATTGTGAATAGAAACTGACAC 58.881 37.037 0.00 0.00 0.00 3.67
3152 3643 7.984422 ATGATTGTGAATAGAAACTGACACA 57.016 32.000 0.00 0.00 36.66 3.72
3153 3644 7.425577 TGATTGTGAATAGAAACTGACACAG 57.574 36.000 0.00 0.00 38.96 3.66
3154 3645 6.427853 TGATTGTGAATAGAAACTGACACAGG 59.572 38.462 0.00 0.00 38.96 4.00
3155 3646 5.545063 TGTGAATAGAAACTGACACAGGA 57.455 39.130 0.00 0.00 35.51 3.86
3156 3647 5.924356 TGTGAATAGAAACTGACACAGGAA 58.076 37.500 0.00 0.00 35.51 3.36
3157 3648 5.991606 TGTGAATAGAAACTGACACAGGAAG 59.008 40.000 0.00 0.00 35.51 3.46
3158 3649 5.409826 GTGAATAGAAACTGACACAGGAAGG 59.590 44.000 0.00 0.00 35.51 3.46
3159 3650 5.306937 TGAATAGAAACTGACACAGGAAGGA 59.693 40.000 0.00 0.00 35.51 3.36
3160 3651 5.825593 ATAGAAACTGACACAGGAAGGAA 57.174 39.130 0.00 0.00 35.51 3.36
3161 3652 4.078639 AGAAACTGACACAGGAAGGAAG 57.921 45.455 0.00 0.00 35.51 3.46
3162 3653 2.262423 AACTGACACAGGAAGGAAGC 57.738 50.000 0.00 0.00 35.51 3.86
3163 3654 0.398318 ACTGACACAGGAAGGAAGCC 59.602 55.000 0.00 0.00 35.51 4.35
3164 3655 0.689623 CTGACACAGGAAGGAAGCCT 59.310 55.000 0.00 0.00 35.75 4.58
3165 3656 3.559727 ACTGACACAGGAAGGAAGCCTT 61.560 50.000 0.00 0.00 39.68 4.35
3166 3657 1.202806 TGACACAGGAAGGAAGCCTTG 60.203 52.381 2.98 0.00 44.82 3.61
3178 3669 2.646121 AGCCTTGCTTAAGTGTGCC 58.354 52.632 4.02 0.00 33.89 5.01
3179 3670 0.895559 AGCCTTGCTTAAGTGTGCCC 60.896 55.000 4.02 0.00 33.89 5.36
3180 3671 1.875963 CCTTGCTTAAGTGTGCCCG 59.124 57.895 4.02 0.00 0.00 6.13
3181 3672 0.605319 CCTTGCTTAAGTGTGCCCGA 60.605 55.000 4.02 0.00 0.00 5.14
3182 3673 1.453155 CTTGCTTAAGTGTGCCCGAT 58.547 50.000 4.02 0.00 0.00 4.18
3183 3674 1.398390 CTTGCTTAAGTGTGCCCGATC 59.602 52.381 4.02 0.00 0.00 3.69
3184 3675 0.323302 TGCTTAAGTGTGCCCGATCA 59.677 50.000 4.02 0.00 0.00 2.92
3185 3676 1.009829 GCTTAAGTGTGCCCGATCAG 58.990 55.000 4.02 0.00 0.00 2.90
3186 3677 1.009829 CTTAAGTGTGCCCGATCAGC 58.990 55.000 0.00 0.00 0.00 4.26
3187 3678 0.392461 TTAAGTGTGCCCGATCAGCC 60.392 55.000 2.49 0.00 0.00 4.85
3188 3679 2.572095 TAAGTGTGCCCGATCAGCCG 62.572 60.000 2.49 0.00 0.00 5.52
3189 3680 4.451150 GTGTGCCCGATCAGCCGA 62.451 66.667 2.49 0.00 0.00 5.54
3190 3681 3.700970 TGTGCCCGATCAGCCGAA 61.701 61.111 2.49 0.00 0.00 4.30
3191 3682 2.203070 GTGCCCGATCAGCCGAAT 60.203 61.111 2.49 0.00 0.00 3.34
3192 3683 2.108976 TGCCCGATCAGCCGAATC 59.891 61.111 2.49 0.00 0.00 2.52
3193 3684 2.108976 GCCCGATCAGCCGAATCA 59.891 61.111 0.00 0.00 0.00 2.57
3194 3685 1.958205 GCCCGATCAGCCGAATCAG 60.958 63.158 0.00 0.00 0.00 2.90
3195 3686 1.742146 CCCGATCAGCCGAATCAGA 59.258 57.895 0.00 0.00 0.00 3.27
3196 3687 0.104855 CCCGATCAGCCGAATCAGAA 59.895 55.000 0.00 0.00 0.00 3.02
3197 3688 1.212616 CCGATCAGCCGAATCAGAAC 58.787 55.000 0.00 0.00 0.00 3.01
3198 3689 1.202463 CCGATCAGCCGAATCAGAACT 60.202 52.381 0.00 0.00 0.00 3.01
3199 3690 2.034685 CCGATCAGCCGAATCAGAACTA 59.965 50.000 0.00 0.00 0.00 2.24
3200 3691 3.046390 CGATCAGCCGAATCAGAACTAC 58.954 50.000 0.00 0.00 0.00 2.73
3201 3692 3.489229 CGATCAGCCGAATCAGAACTACA 60.489 47.826 0.00 0.00 0.00 2.74
3202 3693 4.626042 GATCAGCCGAATCAGAACTACAT 58.374 43.478 0.00 0.00 0.00 2.29
3203 3694 3.785486 TCAGCCGAATCAGAACTACATG 58.215 45.455 0.00 0.00 0.00 3.21
3204 3695 3.447229 TCAGCCGAATCAGAACTACATGA 59.553 43.478 0.00 0.00 0.00 3.07
3205 3696 3.801050 CAGCCGAATCAGAACTACATGAG 59.199 47.826 0.00 0.00 0.00 2.90
3206 3697 3.701542 AGCCGAATCAGAACTACATGAGA 59.298 43.478 0.00 0.00 0.00 3.27
3207 3698 4.343526 AGCCGAATCAGAACTACATGAGAT 59.656 41.667 0.00 0.00 0.00 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 1.912731 TGTTGGGCTACTGAATGGCTA 59.087 47.619 0.00 0.00 34.56 3.93
50 51 1.474077 CTTGTTGGGCTACTGAATGGC 59.526 52.381 0.00 0.00 0.00 4.40
51 52 2.094675 CCTTGTTGGGCTACTGAATGG 58.905 52.381 0.00 0.00 0.00 3.16
66 75 2.361610 CGCTGGATTGGGCCTTGT 60.362 61.111 4.53 0.00 0.00 3.16
135 154 1.972978 CTTCTCCGGTCGGGAACTT 59.027 57.895 9.68 0.00 46.61 2.66
315 353 1.586541 CCACTGCACTCACTCGCTA 59.413 57.895 0.00 0.00 0.00 4.26
345 391 1.478916 TCGGATTCCAGCGACATTGTA 59.521 47.619 3.09 0.00 0.00 2.41
825 882 4.101448 CGGAGGGTGGCCTTCTGG 62.101 72.222 3.32 0.00 33.09 3.86
826 883 4.785453 GCGGAGGGTGGCCTTCTG 62.785 72.222 3.32 2.95 38.77 3.02
828 885 3.978571 GAAGCGGAGGGTGGCCTTC 62.979 68.421 3.32 0.00 0.00 3.46
1288 1524 7.816513 TGACAAGAATTCTTCAGATAGTCAGTG 59.183 37.037 22.88 11.21 31.11 3.66
1316 1553 8.868522 TCATCATGGTAACTTCTGAAGAAAAT 57.131 30.769 23.36 9.13 33.07 1.82
1477 1742 3.971245 AACAAAACCAAAGTCCAGCAA 57.029 38.095 0.00 0.00 0.00 3.91
1494 1759 6.092122 GTCCATGATTTCAGACATCGTAAACA 59.908 38.462 0.00 0.00 0.00 2.83
1499 1764 4.186926 CAGTCCATGATTTCAGACATCGT 58.813 43.478 0.00 0.00 0.00 3.73
1566 1835 0.236711 CGGCATGCGAGATTCCATTC 59.763 55.000 12.44 0.00 0.00 2.67
1701 1971 2.191400 AGCCTCTCCAGATTACAGCAA 58.809 47.619 0.00 0.00 0.00 3.91
1726 1998 5.235850 TGTAAAGGATGTAAGACCTGCAA 57.764 39.130 0.00 0.00 36.56 4.08
1740 2012 9.465199 ACTTAAGTTGTAAAAGGTTGTAAAGGA 57.535 29.630 1.12 0.00 0.00 3.36
1783 2065 8.158169 TGCCAATGTAATAGAATGACAGAATC 57.842 34.615 0.00 0.00 0.00 2.52
1795 2077 9.590451 AACAAAATGAAGATGCCAATGTAATAG 57.410 29.630 0.00 0.00 0.00 1.73
1813 2095 8.211181 GCATTGCATCAAAATGAAAACAAAATG 58.789 29.630 3.15 0.00 34.00 2.32
1817 2099 5.531659 AGGCATTGCATCAAAATGAAAACAA 59.468 32.000 11.39 0.00 34.00 2.83
1829 2111 2.028876 CCATTCAGAGGCATTGCATCA 58.971 47.619 23.61 5.24 42.11 3.07
1894 2177 4.381185 CCACATGGTCAATTGAATCCACTG 60.381 45.833 17.49 17.13 32.60 3.66
1895 2178 3.765511 CCACATGGTCAATTGAATCCACT 59.234 43.478 17.49 5.83 32.60 4.00
1905 2188 1.846439 CTCTACCCCCACATGGTCAAT 59.154 52.381 0.00 0.00 37.31 2.57
2115 2403 1.081892 CCATTCACCACAGCTTCTCG 58.918 55.000 0.00 0.00 0.00 4.04
2128 2416 8.587608 ACTTGCTGAGAATTATTTTTCCATTCA 58.412 29.630 0.00 0.00 30.51 2.57
2186 2474 3.751698 ACTAAACTTCGGCAAAGACATCC 59.248 43.478 5.20 0.00 38.44 3.51
2228 2516 8.158025 ACAATATAACAAGCTATAGGGCCATA 57.842 34.615 6.18 0.43 0.00 2.74
2229 2517 7.032598 ACAATATAACAAGCTATAGGGCCAT 57.967 36.000 6.18 0.00 0.00 4.40
2314 2605 4.901849 AGTTGCCTCATTGATAGCCTACTA 59.098 41.667 6.41 0.00 0.00 1.82
2478 2772 7.927629 ACACTTGCAATTGTAGAAAATCAACAT 59.072 29.630 19.69 0.00 0.00 2.71
2479 2773 7.264221 ACACTTGCAATTGTAGAAAATCAACA 58.736 30.769 19.69 0.00 0.00 3.33
2480 2774 7.698836 ACACTTGCAATTGTAGAAAATCAAC 57.301 32.000 19.69 0.00 0.00 3.18
2481 2775 7.978414 TCAACACTTGCAATTGTAGAAAATCAA 59.022 29.630 21.12 0.00 0.00 2.57
2482 2776 7.487484 TCAACACTTGCAATTGTAGAAAATCA 58.513 30.769 21.12 0.00 0.00 2.57
2483 2777 7.928908 TCAACACTTGCAATTGTAGAAAATC 57.071 32.000 21.12 0.00 0.00 2.17
2484 2778 8.891671 AATCAACACTTGCAATTGTAGAAAAT 57.108 26.923 21.12 8.98 0.00 1.82
2485 2779 8.715191 AAATCAACACTTGCAATTGTAGAAAA 57.285 26.923 21.12 7.30 0.00 2.29
2486 2780 8.715191 AAAATCAACACTTGCAATTGTAGAAA 57.285 26.923 21.12 8.83 0.00 2.52
2520 2814 2.568509 TCATCATCCTGTGCTCACTGAA 59.431 45.455 8.23 0.00 32.81 3.02
2521 2815 2.181975 TCATCATCCTGTGCTCACTGA 58.818 47.619 8.23 1.17 32.81 3.41
2526 3016 3.427233 GCAAACTTCATCATCCTGTGCTC 60.427 47.826 0.00 0.00 0.00 4.26
2528 3018 2.490903 AGCAAACTTCATCATCCTGTGC 59.509 45.455 0.00 0.00 0.00 4.57
2539 3029 4.941263 AGTCTGTACACAAAGCAAACTTCA 59.059 37.500 0.00 0.00 34.05 3.02
2540 3030 5.485662 AGTCTGTACACAAAGCAAACTTC 57.514 39.130 0.00 0.00 34.05 3.01
2541 3031 5.163652 GGAAGTCTGTACACAAAGCAAACTT 60.164 40.000 0.00 0.00 37.90 2.66
2542 3032 4.335594 GGAAGTCTGTACACAAAGCAAACT 59.664 41.667 0.00 0.00 0.00 2.66
2543 3033 4.497507 GGGAAGTCTGTACACAAAGCAAAC 60.498 45.833 0.00 0.00 0.00 2.93
2544 3034 3.630312 GGGAAGTCTGTACACAAAGCAAA 59.370 43.478 0.00 0.00 0.00 3.68
2547 3037 2.808543 CAGGGAAGTCTGTACACAAAGC 59.191 50.000 0.00 0.00 0.00 3.51
2548 3038 4.336889 TCAGGGAAGTCTGTACACAAAG 57.663 45.455 0.00 0.00 36.25 2.77
2553 3044 5.026121 AGAATGATCAGGGAAGTCTGTACA 58.974 41.667 0.09 0.00 36.25 2.90
2590 3081 5.372363 TGGTTGTACATATTGATCCCTCCAT 59.628 40.000 0.00 0.00 0.00 3.41
2595 3086 8.157476 AGATAGTTGGTTGTACATATTGATCCC 58.843 37.037 0.00 0.00 0.00 3.85
2613 3104 5.592054 TCGGCTCAACAAGATAGATAGTTG 58.408 41.667 0.00 0.00 41.90 3.16
2614 3105 5.854010 TCGGCTCAACAAGATAGATAGTT 57.146 39.130 0.00 0.00 0.00 2.24
2615 3106 5.221342 CCTTCGGCTCAACAAGATAGATAGT 60.221 44.000 0.00 0.00 0.00 2.12
2618 3109 3.452627 ACCTTCGGCTCAACAAGATAGAT 59.547 43.478 0.00 0.00 0.00 1.98
2619 3110 2.832129 ACCTTCGGCTCAACAAGATAGA 59.168 45.455 0.00 0.00 0.00 1.98
2620 3111 3.252974 ACCTTCGGCTCAACAAGATAG 57.747 47.619 0.00 0.00 0.00 2.08
2622 3113 2.301870 TGTACCTTCGGCTCAACAAGAT 59.698 45.455 0.00 0.00 0.00 2.40
2623 3114 1.689813 TGTACCTTCGGCTCAACAAGA 59.310 47.619 0.00 0.00 0.00 3.02
2624 3115 2.163818 TGTACCTTCGGCTCAACAAG 57.836 50.000 0.00 0.00 0.00 3.16
2627 3118 2.159627 CACATTGTACCTTCGGCTCAAC 59.840 50.000 0.00 0.00 0.00 3.18
2628 3119 2.224426 ACACATTGTACCTTCGGCTCAA 60.224 45.455 0.00 0.00 0.00 3.02
2629 3120 1.346395 ACACATTGTACCTTCGGCTCA 59.654 47.619 0.00 0.00 0.00 4.26
2630 3121 2.094762 ACACATTGTACCTTCGGCTC 57.905 50.000 0.00 0.00 0.00 4.70
2631 3122 3.596214 CTTACACATTGTACCTTCGGCT 58.404 45.455 0.00 0.00 31.69 5.52
2633 3124 2.676342 GGCTTACACATTGTACCTTCGG 59.324 50.000 0.00 0.00 31.69 4.30
2634 3125 3.596214 AGGCTTACACATTGTACCTTCG 58.404 45.455 0.00 0.00 31.69 3.79
2636 3127 5.757099 ACTAGGCTTACACATTGTACCTT 57.243 39.130 0.00 0.00 33.20 3.50
2637 3128 6.862469 TTACTAGGCTTACACATTGTACCT 57.138 37.500 0.00 2.19 34.76 3.08
2638 3129 9.774413 AATATTACTAGGCTTACACATTGTACC 57.226 33.333 0.00 0.00 31.69 3.34
2681 3172 8.772250 TGACTTTCTCCCATCTTATATCACTTT 58.228 33.333 0.00 0.00 0.00 2.66
2683 3174 7.921041 TGACTTTCTCCCATCTTATATCACT 57.079 36.000 0.00 0.00 0.00 3.41
2686 3177 7.740805 ACCTTGACTTTCTCCCATCTTATATC 58.259 38.462 0.00 0.00 0.00 1.63
2687 3178 7.698163 ACCTTGACTTTCTCCCATCTTATAT 57.302 36.000 0.00 0.00 0.00 0.86
2704 3195 3.676646 AGTTGTTTACGCGATACCTTGAC 59.323 43.478 15.93 1.48 0.00 3.18
2713 3204 5.636121 AGATCATGTTTAGTTGTTTACGCGA 59.364 36.000 15.93 0.00 0.00 5.87
2716 3207 8.417176 GCAAAAGATCATGTTTAGTTGTTTACG 58.583 33.333 0.00 0.00 0.00 3.18
2726 3217 2.822561 TGCGGGCAAAAGATCATGTTTA 59.177 40.909 0.00 0.00 0.00 2.01
2727 3218 1.617850 TGCGGGCAAAAGATCATGTTT 59.382 42.857 0.00 0.00 0.00 2.83
2728 3219 1.255882 TGCGGGCAAAAGATCATGTT 58.744 45.000 0.00 0.00 0.00 2.71
2729 3220 1.255882 TTGCGGGCAAAAGATCATGT 58.744 45.000 3.16 0.00 32.44 3.21
2730 3221 2.367030 TTTGCGGGCAAAAGATCATG 57.633 45.000 15.82 0.00 42.16 3.07
2756 3247 9.155975 GCAAGAGAGAAGATCATGTTTAGTTTA 57.844 33.333 0.00 0.00 0.00 2.01
2757 3248 7.120432 GGCAAGAGAGAAGATCATGTTTAGTTT 59.880 37.037 0.00 0.00 0.00 2.66
2758 3249 6.597280 GGCAAGAGAGAAGATCATGTTTAGTT 59.403 38.462 0.00 0.00 0.00 2.24
2759 3250 6.112058 GGCAAGAGAGAAGATCATGTTTAGT 58.888 40.000 0.00 0.00 0.00 2.24
2760 3251 6.111382 TGGCAAGAGAGAAGATCATGTTTAG 58.889 40.000 0.00 0.00 0.00 1.85
2761 3252 6.053632 TGGCAAGAGAGAAGATCATGTTTA 57.946 37.500 0.00 0.00 0.00 2.01
2762 3253 4.914983 TGGCAAGAGAGAAGATCATGTTT 58.085 39.130 0.00 0.00 0.00 2.83
2771 3262 6.169094 TGATAGTTTCTTGGCAAGAGAGAAG 58.831 40.000 27.16 1.70 39.03 2.85
2790 3281 5.931146 ACAAGACACTGAGAGCTTTTGATAG 59.069 40.000 0.00 0.00 0.00 2.08
2798 3289 4.881019 ACATTACAAGACACTGAGAGCT 57.119 40.909 0.00 0.00 0.00 4.09
2802 3293 9.208022 TCTAAATCAACATTACAAGACACTGAG 57.792 33.333 0.00 0.00 0.00 3.35
2806 3297 9.065871 GCAATCTAAATCAACATTACAAGACAC 57.934 33.333 0.00 0.00 0.00 3.67
2820 3311 4.539726 AGCATCAAGGGCAATCTAAATCA 58.460 39.130 0.00 0.00 0.00 2.57
2832 3323 1.679680 CCACATAGCAAGCATCAAGGG 59.320 52.381 0.00 0.00 0.00 3.95
2885 3376 6.977213 AGCACGTAAATTTGTGTAAGGAAAT 58.023 32.000 0.00 0.00 38.36 2.17
2892 3383 5.294356 AGACAGAGCACGTAAATTTGTGTA 58.706 37.500 0.00 0.00 38.36 2.90
2895 3386 6.620733 GCAATAGACAGAGCACGTAAATTTGT 60.621 38.462 0.00 0.00 0.00 2.83
2896 3387 5.734498 GCAATAGACAGAGCACGTAAATTTG 59.266 40.000 0.00 0.00 0.00 2.32
2899 3390 3.551890 CGCAATAGACAGAGCACGTAAAT 59.448 43.478 0.00 0.00 0.00 1.40
2904 3395 0.917259 GTCGCAATAGACAGAGCACG 59.083 55.000 0.00 0.00 40.65 5.34
2910 3401 6.910536 AAGGAAATAAGTCGCAATAGACAG 57.089 37.500 0.00 0.00 43.24 3.51
2920 3411 5.974108 TCAGGGAGTTAAGGAAATAAGTCG 58.026 41.667 0.00 0.00 36.50 4.18
2926 3417 6.582929 AATAGCTCAGGGAGTTAAGGAAAT 57.417 37.500 0.00 0.00 29.90 2.17
2929 3420 7.347222 TCATAAAATAGCTCAGGGAGTTAAGGA 59.653 37.037 0.00 0.00 29.90 3.36
2930 3421 7.509546 TCATAAAATAGCTCAGGGAGTTAAGG 58.490 38.462 0.00 0.00 29.90 2.69
2931 3422 8.424918 TCTCATAAAATAGCTCAGGGAGTTAAG 58.575 37.037 0.00 0.00 29.90 1.85
2932 3423 8.319057 TCTCATAAAATAGCTCAGGGAGTTAA 57.681 34.615 0.00 0.00 29.90 2.01
2933 3424 7.914427 TCTCATAAAATAGCTCAGGGAGTTA 57.086 36.000 0.00 0.00 30.60 2.24
2934 3425 6.814954 TCTCATAAAATAGCTCAGGGAGTT 57.185 37.500 0.00 0.00 31.39 3.01
2935 3426 7.180051 CCTATCTCATAAAATAGCTCAGGGAGT 59.820 40.741 0.00 0.00 31.39 3.85
2936 3427 7.398618 TCCTATCTCATAAAATAGCTCAGGGAG 59.601 40.741 0.00 0.00 0.00 4.30
2943 3434 8.677870 AGGACATCCTATCTCATAAAATAGCT 57.322 34.615 0.00 0.00 46.48 3.32
2961 3452 4.640201 TCATTCCCATTCGAAAAGGACATC 59.360 41.667 16.72 0.00 0.00 3.06
2962 3453 4.399303 GTCATTCCCATTCGAAAAGGACAT 59.601 41.667 16.72 11.57 0.00 3.06
2971 3462 0.911769 AGGCAGTCATTCCCATTCGA 59.088 50.000 0.00 0.00 0.00 3.71
2973 3464 5.859205 AAATAAGGCAGTCATTCCCATTC 57.141 39.130 0.00 0.00 0.00 2.67
2984 3475 9.515226 TCTACATTCAAGTTAAAATAAGGCAGT 57.485 29.630 0.00 0.00 0.00 4.40
3005 3496 9.886337 TGTATTGGTAAAGGATACCTATCTACA 57.114 33.333 6.24 4.15 38.39 2.74
3008 3499 9.393786 ACATGTATTGGTAAAGGATACCTATCT 57.606 33.333 0.00 0.00 38.39 1.98
3011 3502 9.841295 GAAACATGTATTGGTAAAGGATACCTA 57.159 33.333 0.00 0.00 38.39 3.08
3012 3503 8.557450 AGAAACATGTATTGGTAAAGGATACCT 58.443 33.333 0.00 0.00 38.39 3.08
3013 3504 8.747538 AGAAACATGTATTGGTAAAGGATACC 57.252 34.615 0.00 0.00 38.07 2.73
3016 3507 9.308000 TCAAAGAAACATGTATTGGTAAAGGAT 57.692 29.630 0.00 0.00 0.00 3.24
3017 3508 8.573035 GTCAAAGAAACATGTATTGGTAAAGGA 58.427 33.333 0.00 0.00 0.00 3.36
3018 3509 8.356657 TGTCAAAGAAACATGTATTGGTAAAGG 58.643 33.333 0.00 0.00 0.00 3.11
3019 3510 9.912634 ATGTCAAAGAAACATGTATTGGTAAAG 57.087 29.630 0.00 0.00 36.04 1.85
3020 3511 9.689976 CATGTCAAAGAAACATGTATTGGTAAA 57.310 29.630 0.00 0.00 45.72 2.01
3031 3522 3.490526 GCGCAAACATGTCAAAGAAACAT 59.509 39.130 0.30 0.00 37.85 2.71
3032 3523 2.857152 GCGCAAACATGTCAAAGAAACA 59.143 40.909 0.30 0.00 0.00 2.83
3033 3524 3.061006 CAGCGCAAACATGTCAAAGAAAC 60.061 43.478 11.47 0.00 0.00 2.78
3034 3525 3.114809 CAGCGCAAACATGTCAAAGAAA 58.885 40.909 11.47 0.00 0.00 2.52
3035 3526 2.730069 CAGCGCAAACATGTCAAAGAA 58.270 42.857 11.47 0.00 0.00 2.52
3036 3527 1.600164 GCAGCGCAAACATGTCAAAGA 60.600 47.619 11.47 0.00 0.00 2.52
3037 3528 0.780002 GCAGCGCAAACATGTCAAAG 59.220 50.000 11.47 0.00 0.00 2.77
3038 3529 0.385029 AGCAGCGCAAACATGTCAAA 59.615 45.000 11.47 0.00 0.00 2.69
3039 3530 1.233919 TAGCAGCGCAAACATGTCAA 58.766 45.000 11.47 0.00 0.00 3.18
3040 3531 1.233919 TTAGCAGCGCAAACATGTCA 58.766 45.000 11.47 0.00 0.00 3.58
3041 3532 2.549633 ATTAGCAGCGCAAACATGTC 57.450 45.000 11.47 0.00 0.00 3.06
3042 3533 3.793129 GCATATTAGCAGCGCAAACATGT 60.793 43.478 11.47 0.00 0.00 3.21
3043 3534 2.722629 GCATATTAGCAGCGCAAACATG 59.277 45.455 11.47 4.47 0.00 3.21
3044 3535 2.358582 TGCATATTAGCAGCGCAAACAT 59.641 40.909 11.47 0.00 40.11 2.71
3045 3536 1.742268 TGCATATTAGCAGCGCAAACA 59.258 42.857 11.47 0.00 40.11 2.83
3046 3537 2.473530 TGCATATTAGCAGCGCAAAC 57.526 45.000 11.47 0.00 40.11 2.93
3047 3538 3.066481 TGATTGCATATTAGCAGCGCAAA 59.934 39.130 11.47 0.00 46.54 3.68
3048 3539 2.617774 TGATTGCATATTAGCAGCGCAA 59.382 40.909 11.47 5.72 46.54 4.85
3049 3540 2.220313 TGATTGCATATTAGCAGCGCA 58.780 42.857 11.47 0.00 46.54 6.09
3050 3541 2.975410 TGATTGCATATTAGCAGCGC 57.025 45.000 0.00 0.00 46.54 5.92
3064 3555 9.674824 GAAAGATTAACATTCCTAGCATGATTG 57.325 33.333 0.00 0.00 0.00 2.67
3065 3556 9.638176 AGAAAGATTAACATTCCTAGCATGATT 57.362 29.630 0.00 0.00 0.00 2.57
3066 3557 9.638176 AAGAAAGATTAACATTCCTAGCATGAT 57.362 29.630 0.00 0.00 0.00 2.45
3067 3558 9.466497 AAAGAAAGATTAACATTCCTAGCATGA 57.534 29.630 0.00 0.00 0.00 3.07
3068 3559 9.512435 CAAAGAAAGATTAACATTCCTAGCATG 57.488 33.333 0.00 0.00 0.00 4.06
3069 3560 9.247861 ACAAAGAAAGATTAACATTCCTAGCAT 57.752 29.630 0.00 0.00 0.00 3.79
3070 3561 8.635765 ACAAAGAAAGATTAACATTCCTAGCA 57.364 30.769 0.00 0.00 0.00 3.49
3071 3562 9.914131 AAACAAAGAAAGATTAACATTCCTAGC 57.086 29.630 0.00 0.00 0.00 3.42
3097 3588 5.603596 ACATTTTGAGCTGCTCATGAAAAA 58.396 33.333 30.80 25.93 40.39 1.94
3098 3589 5.204409 ACATTTTGAGCTGCTCATGAAAA 57.796 34.783 30.80 26.25 40.39 2.29
3099 3590 4.859304 ACATTTTGAGCTGCTCATGAAA 57.141 36.364 30.80 26.88 40.39 2.69
3100 3591 4.859304 AACATTTTGAGCTGCTCATGAA 57.141 36.364 30.80 26.08 40.39 2.57
3101 3592 4.859304 AAACATTTTGAGCTGCTCATGA 57.141 36.364 30.80 22.09 40.39 3.07
3102 3593 5.061808 GCTTAAACATTTTGAGCTGCTCATG 59.938 40.000 30.80 26.54 40.39 3.07
3103 3594 5.047519 AGCTTAAACATTTTGAGCTGCTCAT 60.048 36.000 30.80 17.42 40.39 2.90
3104 3595 4.279169 AGCTTAAACATTTTGAGCTGCTCA 59.721 37.500 27.35 27.35 38.87 4.26
3105 3596 4.802999 AGCTTAAACATTTTGAGCTGCTC 58.197 39.130 22.38 22.38 37.20 4.26
3106 3597 4.861102 AGCTTAAACATTTTGAGCTGCT 57.139 36.364 14.97 0.00 37.20 4.24
3107 3598 6.324819 TCATAGCTTAAACATTTTGAGCTGC 58.675 36.000 21.72 0.00 38.26 5.25
3108 3599 8.804743 CAATCATAGCTTAAACATTTTGAGCTG 58.195 33.333 21.72 11.28 38.26 4.24
3109 3600 8.526147 ACAATCATAGCTTAAACATTTTGAGCT 58.474 29.630 18.46 18.46 39.82 4.09
3110 3601 8.589629 CACAATCATAGCTTAAACATTTTGAGC 58.410 33.333 7.20 7.20 0.00 4.26
3111 3602 9.844790 TCACAATCATAGCTTAAACATTTTGAG 57.155 29.630 0.00 0.00 0.00 3.02
3123 3614 8.887717 GTCAGTTTCTATTCACAATCATAGCTT 58.112 33.333 0.00 0.00 0.00 3.74
3124 3615 8.043113 TGTCAGTTTCTATTCACAATCATAGCT 58.957 33.333 0.00 0.00 0.00 3.32
3125 3616 8.119226 GTGTCAGTTTCTATTCACAATCATAGC 58.881 37.037 0.00 0.00 0.00 2.97
3126 3617 9.154847 TGTGTCAGTTTCTATTCACAATCATAG 57.845 33.333 0.00 0.00 33.81 2.23
3127 3618 9.154847 CTGTGTCAGTTTCTATTCACAATCATA 57.845 33.333 0.00 0.00 35.82 2.15
3128 3619 7.120285 CCTGTGTCAGTTTCTATTCACAATCAT 59.880 37.037 0.00 0.00 35.82 2.45
3129 3620 6.427853 CCTGTGTCAGTTTCTATTCACAATCA 59.572 38.462 0.00 0.00 35.82 2.57
3130 3621 6.650807 TCCTGTGTCAGTTTCTATTCACAATC 59.349 38.462 0.00 0.00 35.82 2.67
3131 3622 6.533730 TCCTGTGTCAGTTTCTATTCACAAT 58.466 36.000 0.00 0.00 35.82 2.71
3132 3623 5.924356 TCCTGTGTCAGTTTCTATTCACAA 58.076 37.500 0.00 0.00 35.82 3.33
3133 3624 5.545063 TCCTGTGTCAGTTTCTATTCACA 57.455 39.130 0.00 0.00 35.15 3.58
3134 3625 5.409826 CCTTCCTGTGTCAGTTTCTATTCAC 59.590 44.000 0.00 0.00 0.00 3.18
3135 3626 5.306937 TCCTTCCTGTGTCAGTTTCTATTCA 59.693 40.000 0.00 0.00 0.00 2.57
3136 3627 5.794894 TCCTTCCTGTGTCAGTTTCTATTC 58.205 41.667 0.00 0.00 0.00 1.75
3137 3628 5.825593 TCCTTCCTGTGTCAGTTTCTATT 57.174 39.130 0.00 0.00 0.00 1.73
3138 3629 5.799213 CTTCCTTCCTGTGTCAGTTTCTAT 58.201 41.667 0.00 0.00 0.00 1.98
3139 3630 4.503296 GCTTCCTTCCTGTGTCAGTTTCTA 60.503 45.833 0.00 0.00 0.00 2.10
3140 3631 3.745797 GCTTCCTTCCTGTGTCAGTTTCT 60.746 47.826 0.00 0.00 0.00 2.52
3141 3632 2.550180 GCTTCCTTCCTGTGTCAGTTTC 59.450 50.000 0.00 0.00 0.00 2.78
3142 3633 2.576615 GCTTCCTTCCTGTGTCAGTTT 58.423 47.619 0.00 0.00 0.00 2.66
3143 3634 1.202818 GGCTTCCTTCCTGTGTCAGTT 60.203 52.381 0.00 0.00 0.00 3.16
3144 3635 0.398318 GGCTTCCTTCCTGTGTCAGT 59.602 55.000 0.00 0.00 0.00 3.41
3145 3636 0.689623 AGGCTTCCTTCCTGTGTCAG 59.310 55.000 0.00 0.00 31.53 3.51
3146 3637 1.140312 AAGGCTTCCTTCCTGTGTCA 58.860 50.000 0.00 0.00 40.17 3.58
3147 3638 1.528129 CAAGGCTTCCTTCCTGTGTC 58.472 55.000 0.00 0.00 42.67 3.67
3148 3639 0.538287 GCAAGGCTTCCTTCCTGTGT 60.538 55.000 0.00 0.00 42.67 3.72
3149 3640 0.251077 AGCAAGGCTTCCTTCCTGTG 60.251 55.000 0.00 0.00 42.67 3.66
3150 3641 0.480252 AAGCAAGGCTTCCTTCCTGT 59.520 50.000 0.00 0.00 46.77 4.00
3151 3642 2.496899 TAAGCAAGGCTTCCTTCCTG 57.503 50.000 6.71 0.00 46.77 3.86
3152 3643 2.376855 ACTTAAGCAAGGCTTCCTTCCT 59.623 45.455 6.71 0.00 46.77 3.36
3153 3644 2.489722 CACTTAAGCAAGGCTTCCTTCC 59.510 50.000 6.71 0.00 46.77 3.46
3154 3645 3.057946 CACACTTAAGCAAGGCTTCCTTC 60.058 47.826 6.71 0.00 46.77 3.46
3155 3646 2.887152 CACACTTAAGCAAGGCTTCCTT 59.113 45.455 8.72 8.72 46.77 3.36
3156 3647 2.508526 CACACTTAAGCAAGGCTTCCT 58.491 47.619 6.75 0.00 46.77 3.36
3157 3648 1.068264 GCACACTTAAGCAAGGCTTCC 60.068 52.381 6.75 0.00 46.77 3.46
3158 3649 1.068264 GGCACACTTAAGCAAGGCTTC 60.068 52.381 6.75 0.00 46.77 3.86
3160 3651 0.895559 GGGCACACTTAAGCAAGGCT 60.896 55.000 1.29 0.00 42.56 4.58
3161 3652 1.586541 GGGCACACTTAAGCAAGGC 59.413 57.895 1.29 4.60 35.97 4.35
3162 3653 0.605319 TCGGGCACACTTAAGCAAGG 60.605 55.000 1.29 0.00 35.97 3.61
3163 3654 1.398390 GATCGGGCACACTTAAGCAAG 59.602 52.381 1.29 0.00 37.81 4.01
3164 3655 1.271108 TGATCGGGCACACTTAAGCAA 60.271 47.619 1.29 0.00 0.00 3.91
3165 3656 0.323302 TGATCGGGCACACTTAAGCA 59.677 50.000 1.29 0.00 0.00 3.91
3166 3657 1.009829 CTGATCGGGCACACTTAAGC 58.990 55.000 1.29 0.00 0.00 3.09
3167 3658 1.009829 GCTGATCGGGCACACTTAAG 58.990 55.000 3.14 0.00 0.00 1.85
3168 3659 0.392461 GGCTGATCGGGCACACTTAA 60.392 55.000 22.49 0.00 0.00 1.85
3169 3660 1.220749 GGCTGATCGGGCACACTTA 59.779 57.895 22.49 0.00 0.00 2.24
3170 3661 2.045926 GGCTGATCGGGCACACTT 60.046 61.111 22.49 0.00 0.00 3.16
3171 3662 4.457496 CGGCTGATCGGGCACACT 62.457 66.667 26.05 0.00 0.00 3.55
3172 3663 3.950794 TTCGGCTGATCGGGCACAC 62.951 63.158 26.05 0.00 0.00 3.82
3173 3664 2.923426 GATTCGGCTGATCGGGCACA 62.923 60.000 26.05 13.07 0.00 4.57
3174 3665 2.203070 ATTCGGCTGATCGGGCAC 60.203 61.111 26.05 8.41 0.00 5.01
3175 3666 2.108976 GATTCGGCTGATCGGGCA 59.891 61.111 26.05 9.62 0.00 5.36
3176 3667 1.958205 CTGATTCGGCTGATCGGGC 60.958 63.158 17.95 17.95 0.00 6.13
3177 3668 0.104855 TTCTGATTCGGCTGATCGGG 59.895 55.000 3.14 0.00 0.00 5.14
3178 3669 1.202463 AGTTCTGATTCGGCTGATCGG 60.202 52.381 0.00 0.00 0.00 4.18
3179 3670 2.215907 AGTTCTGATTCGGCTGATCG 57.784 50.000 0.00 0.00 0.00 3.69
3180 3671 4.046938 TGTAGTTCTGATTCGGCTGATC 57.953 45.455 0.00 0.00 0.00 2.92
3181 3672 4.100035 TCATGTAGTTCTGATTCGGCTGAT 59.900 41.667 0.00 0.00 0.00 2.90
3182 3673 3.447229 TCATGTAGTTCTGATTCGGCTGA 59.553 43.478 0.00 0.00 0.00 4.26
3183 3674 3.785486 TCATGTAGTTCTGATTCGGCTG 58.215 45.455 0.00 0.00 0.00 4.85
3184 3675 3.701542 TCTCATGTAGTTCTGATTCGGCT 59.298 43.478 0.00 0.00 0.00 5.52
3185 3676 4.046938 TCTCATGTAGTTCTGATTCGGC 57.953 45.455 0.00 0.00 0.00 5.54


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

AutoCloner maintained by Alex Coulton.