Multiple sequence alignment - TraesCS4A01G181800

Loading Multiple Alignment...

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 TraesCS4A01G181800 chr4A 100.000 3055 0 0 1 3055 456457006 456453952 0.000000e+00 5642
1 TraesCS4A01G181800 chr4A 93.727 1897 90 14 159 2037 586700833 586698948 0.000000e+00 2817
2 TraesCS4A01G181800 chr4A 100.000 163 0 0 1 163 586706063 586705901 4.950000e-78 302
3 TraesCS4A01G181800 chr4A 89.947 189 15 3 625 810 456437579 456437392 1.090000e-59 241
4 TraesCS4A01G181800 chr4A 89.583 96 8 2 353 447 628504415 628504321 1.490000e-23 121
5 TraesCS4A01G181800 chr4D 88.859 2567 164 56 544 3055 14857378 14859877 0.000000e+00 3044
6 TraesCS4A01G181800 chr4D 91.149 1932 129 20 876 2785 14909159 14911070 0.000000e+00 2582
7 TraesCS4A01G181800 chr4D 90.356 1659 129 19 395 2036 14850638 14852282 0.000000e+00 2148
8 TraesCS4A01G181800 chr4D 88.581 1191 98 20 876 2037 14862580 14863761 0.000000e+00 1411
9 TraesCS4A01G181800 chr4D 87.321 1254 112 24 823 2037 14914333 14915578 0.000000e+00 1391
10 TraesCS4A01G181800 chr4D 84.972 905 113 16 877 1777 14517460 14518345 0.000000e+00 896
11 TraesCS4A01G181800 chr4D 92.532 308 15 6 60 365 14850339 14850640 4.680000e-118 435
12 TraesCS4A01G181800 chr4D 92.754 207 9 3 1 206 14857181 14857382 8.280000e-76 294
13 TraesCS4A01G181800 chr4D 85.666 293 20 11 2784 3055 14911135 14911426 3.850000e-74 289
14 TraesCS4A01G181800 chr4D 85.124 242 23 5 561 798 14914124 14914356 5.090000e-58 235
15 TraesCS4A01G181800 chr4D 87.027 185 18 4 625 807 14460186 14460006 1.440000e-48 204
16 TraesCS4A01G181800 chr4D 83.886 211 22 4 561 767 14862340 14862542 1.120000e-44 191
17 TraesCS4A01G181800 chr4D 85.263 190 23 3 619 807 14908940 14909125 1.120000e-44 191
18 TraesCS4A01G181800 chr4D 93.814 97 6 0 971 1067 14557404 14557308 2.450000e-31 147
19 TraesCS4A01G181800 chr4D 88.333 120 10 4 966 1083 14514237 14514354 1.140000e-29 141
20 TraesCS4A01G181800 chr4B 87.824 1503 142 33 808 2292 24741358 24742837 0.000000e+00 1724
21 TraesCS4A01G181800 chr4B 89.752 1171 88 19 876 2037 24733056 24734203 0.000000e+00 1469
22 TraesCS4A01G181800 chr4B 88.676 1201 98 23 861 2037 24759195 24760381 0.000000e+00 1430
23 TraesCS4A01G181800 chr4B 87.163 1114 115 10 965 2060 24690641 24689538 0.000000e+00 1240
24 TraesCS4A01G181800 chr4B 90.751 173 15 1 627 798 24741226 24741398 2.370000e-56 230
25 TraesCS4A01G181800 chr4B 85.782 211 24 5 2338 2546 24742854 24743060 5.130000e-53 219
26 TraesCS4A01G181800 chr4B 85.185 189 18 4 625 807 24745348 24745532 5.200000e-43 185
27 TraesCS4A01G181800 chr1A 90.909 99 7 2 346 443 544388800 544388703 6.870000e-27 132
28 TraesCS4A01G181800 chr1A 90.323 93 8 1 348 439 551437928 551438020 1.490000e-23 121
29 TraesCS4A01G181800 chr6A 92.308 91 6 1 351 440 172113180 172113270 8.890000e-26 128
30 TraesCS4A01G181800 chr5B 92.135 89 6 1 350 437 371270582 371270670 1.150000e-24 124
31 TraesCS4A01G181800 chr3B 92.135 89 6 1 349 436 406868790 406868878 1.150000e-24 124
32 TraesCS4A01G181800 chr7D 91.209 91 6 2 348 436 330808128 330808218 4.140000e-24 122
33 TraesCS4A01G181800 chr5D 88.350 103 10 2 350 450 332432436 332432538 4.140000e-24 122


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 TraesCS4A01G181800 chr4A 456453952 456457006 3054 True 5642.0 5642 100.0000 1 3055 1 chr4A.!!$R2 3054
1 TraesCS4A01G181800 chr4A 586698948 586700833 1885 True 2817.0 2817 93.7270 159 2037 1 chr4A.!!$R3 1878
2 TraesCS4A01G181800 chr4D 14850339 14852282 1943 False 1291.5 2148 91.4440 60 2036 2 chr4D.!!$F2 1976
3 TraesCS4A01G181800 chr4D 14857181 14863761 6580 False 1235.0 3044 88.5200 1 3055 4 chr4D.!!$F3 3054
4 TraesCS4A01G181800 chr4D 14908940 14915578 6638 False 937.6 2582 86.9046 561 3055 5 chr4D.!!$F4 2494
5 TraesCS4A01G181800 chr4D 14514237 14518345 4108 False 518.5 896 86.6525 877 1777 2 chr4D.!!$F1 900
6 TraesCS4A01G181800 chr4B 24733056 24734203 1147 False 1469.0 1469 89.7520 876 2037 1 chr4B.!!$F1 1161
7 TraesCS4A01G181800 chr4B 24759195 24760381 1186 False 1430.0 1430 88.6760 861 2037 1 chr4B.!!$F2 1176
8 TraesCS4A01G181800 chr4B 24689538 24690641 1103 True 1240.0 1240 87.1630 965 2060 1 chr4B.!!$R1 1095
9 TraesCS4A01G181800 chr4B 24741226 24745532 4306 False 589.5 1724 87.3855 625 2546 4 chr4B.!!$F3 1921

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
27 28 0.320334 TCGATCGCAGCCACAAAGAA 60.320 50.0 11.09 0.0 0.00 2.52 F
95 96 0.536724 TGACCATCATGCTACACGCT 59.463 50.0 0.00 0.0 40.11 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1177 1539 0.318699 CGAGGTCAGCGACACAGAAA 60.319 55.0 10.14 0.0 33.68 2.52 R
2090 12620 1.315690 TCCGAAGTTGACGTGACTCT 58.684 50.0 0.00 0.0 0.00 3.24 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
22 23 2.278792 CGATCGATCGCAGCCACA 60.279 61.111 32.34 0.00 43.84 4.17
27 28 0.320334 TCGATCGCAGCCACAAAGAA 60.320 50.000 11.09 0.00 0.00 2.52
55 56 9.586435 AGAAACAAAACAAGAAACTATTTGAGG 57.414 29.630 3.81 0.00 35.52 3.86
72 73 2.436824 GCCGGAGAAGCTTCCCAC 60.437 66.667 22.81 13.96 33.46 4.61
95 96 0.536724 TGACCATCATGCTACACGCT 59.463 50.000 0.00 0.00 40.11 5.07
96 97 1.754226 TGACCATCATGCTACACGCTA 59.246 47.619 0.00 0.00 40.11 4.26
97 98 2.223805 TGACCATCATGCTACACGCTAG 60.224 50.000 0.00 0.00 40.11 3.42
98 99 1.143305 CCATCATGCTACACGCTAGC 58.857 55.000 4.06 4.06 40.11 3.42
140 141 1.429463 CCTTCAGCGAGTACACAACC 58.571 55.000 0.00 0.00 0.00 3.77
357 359 3.612955 GCTTGTTCGCTGAGAAGTACTCT 60.613 47.826 0.00 0.00 45.13 3.24
536 542 7.524863 GCATAATGGTGGATTGATCATCACATT 60.525 37.037 19.21 17.56 36.75 2.71
570 576 3.181458 GGACTTGGTGGTTGAAGACACTA 60.181 47.826 0.00 0.00 37.72 2.74
644 654 9.770097 GAAATCCATATGATTGACAAGTAGAGA 57.230 33.333 3.65 0.00 42.97 3.10
652 663 4.335400 TTGACAAGTAGAGATGTGCACA 57.665 40.909 24.08 24.08 0.00 4.57
655 666 4.511454 TGACAAGTAGAGATGTGCACAAAC 59.489 41.667 25.72 20.06 0.00 2.93
700 715 1.391485 CGCAACACTCCATCGAGAAAG 59.609 52.381 0.00 0.00 38.52 2.62
1189 1551 0.976641 TCCAGGATTTCTGTGTCGCT 59.023 50.000 0.00 0.00 41.83 4.93
1277 1639 2.559231 GACTTCCTCTTCTCGTCCAAGT 59.441 50.000 0.00 0.00 0.00 3.16
1317 1679 4.636435 CACCCCAAACGGCTCGGT 62.636 66.667 0.00 0.00 0.00 4.69
1333 1695 1.215647 GGTTGTGACGGAGCTCGAT 59.784 57.895 7.83 0.00 42.43 3.59
1334 1696 0.454600 GGTTGTGACGGAGCTCGATA 59.545 55.000 7.83 0.00 42.43 2.92
1383 1745 3.124921 GGCGTGTCCATGAACCGG 61.125 66.667 0.00 0.00 34.01 5.28
1771 12268 3.563479 GCTGGGTTTTAATTCCTGGGAGA 60.563 47.826 0.00 0.00 0.00 3.71
1791 12291 6.240894 GGAGACTGCCCATAAATGATCATAA 58.759 40.000 9.04 0.52 0.00 1.90
1794 12294 8.345724 AGACTGCCCATAAATGATCATAAATC 57.654 34.615 9.04 0.00 0.00 2.17
1800 12300 7.703621 GCCCATAAATGATCATAAATCATTCGG 59.296 37.037 9.04 12.37 45.07 4.30
1818 12318 1.920574 CGGTATATGCATGCTAGCGAC 59.079 52.381 24.37 13.98 38.30 5.19
2061 12591 4.103365 AGTTAGACATGCTCTCAAGTCG 57.897 45.455 0.00 0.00 43.50 4.18
2066 12596 2.857152 GACATGCTCTCAAGTCGACATC 59.143 50.000 19.50 0.00 32.27 3.06
2073 12603 4.024893 GCTCTCAAGTCGACATCAACAAAA 60.025 41.667 19.50 0.00 0.00 2.44
2086 12616 4.759516 TCAACAAAAGGAAAGGTATCGC 57.240 40.909 0.00 0.00 0.00 4.58
2090 12620 4.901868 ACAAAAGGAAAGGTATCGCTACA 58.098 39.130 0.00 0.00 0.00 2.74
2116 12646 5.356190 AGTCACGTCAACTTCGGATATAGAA 59.644 40.000 0.00 0.00 0.00 2.10
2117 12647 6.032094 GTCACGTCAACTTCGGATATAGAAA 58.968 40.000 0.00 0.00 0.00 2.52
2126 12656 6.760291 ACTTCGGATATAGAAAAGGCTAAGG 58.240 40.000 0.00 0.00 0.00 2.69
2129 12659 6.994221 TCGGATATAGAAAAGGCTAAGGAAG 58.006 40.000 0.00 0.00 0.00 3.46
2133 12664 7.389330 GGATATAGAAAAGGCTAAGGAAGAAGC 59.611 40.741 0.00 0.00 38.03 3.86
2146 12677 8.184848 GCTAAGGAAGAAGCCTTAAAGTATTTG 58.815 37.037 0.00 0.00 46.77 2.32
2149 12680 5.185056 GGAAGAAGCCTTAAAGTATTTGCCA 59.815 40.000 0.00 0.00 39.63 4.92
2152 12683 5.185828 AGAAGCCTTAAAGTATTTGCCAAGG 59.814 40.000 0.00 0.00 41.85 3.61
2159 12690 7.201705 CCTTAAAGTATTTGCCAAGGCTACTAC 60.202 40.741 12.96 12.77 39.63 2.73
2161 12692 2.038387 ATTTGCCAAGGCTACTACGG 57.962 50.000 12.96 0.00 42.51 4.02
2211 12742 8.275015 TCAGAAAACATGTTCTCAAGTTACAA 57.725 30.769 14.17 0.00 35.63 2.41
2213 12744 7.166473 CAGAAAACATGTTCTCAAGTTACAAGC 59.834 37.037 14.17 0.00 35.63 4.01
2218 12759 5.734855 TGTTCTCAAGTTACAAGCAGAAC 57.265 39.130 0.00 0.00 40.03 3.01
2232 12773 2.621055 AGCAGAACGCAAAATGTACCAA 59.379 40.909 0.00 0.00 46.13 3.67
2291 12833 9.665264 AAAAGAACACGAGAATGATTTTTCTAC 57.335 29.630 0.00 0.00 36.10 2.59
2292 12834 7.365840 AGAACACGAGAATGATTTTTCTACC 57.634 36.000 0.00 0.00 36.10 3.18
2298 12840 6.319658 ACGAGAATGATTTTTCTACCATGCAT 59.680 34.615 0.00 0.00 36.10 3.96
2326 12868 3.436001 CATACGTGGACCCACTGTC 57.564 57.895 16.25 0.00 44.16 3.51
2327 12869 0.457853 CATACGTGGACCCACTGTCG 60.458 60.000 16.25 6.45 45.46 4.35
2328 12870 1.601419 ATACGTGGACCCACTGTCGG 61.601 60.000 16.25 3.94 45.46 4.79
2329 12871 2.981914 TACGTGGACCCACTGTCGGT 62.982 60.000 16.25 0.00 45.46 4.69
2330 12872 2.826702 GTGGACCCACTGTCGGTT 59.173 61.111 11.73 0.00 45.46 4.44
2331 12873 1.597027 GTGGACCCACTGTCGGTTG 60.597 63.158 11.73 0.00 45.46 3.77
2342 12884 0.736053 TGTCGGTTGGTTGCTTTGAC 59.264 50.000 0.00 0.00 0.00 3.18
2383 12925 8.789881 TGGTTAACGTCAAAATTTATCTTGTG 57.210 30.769 0.00 0.00 0.00 3.33
2418 12976 5.981088 TTGTTTCAATGTGCATACCATCT 57.019 34.783 0.00 0.00 0.00 2.90
2424 12989 8.810427 GTTTCAATGTGCATACCATCTTATTTG 58.190 33.333 0.00 0.00 0.00 2.32
2426 12991 7.933396 TCAATGTGCATACCATCTTATTTGAG 58.067 34.615 0.00 0.00 0.00 3.02
2437 13002 6.663093 ACCATCTTATTTGAGTATGCACCAAA 59.337 34.615 0.00 0.00 32.80 3.28
2516 13081 4.454504 ACCACTAGGATGCACTTTTAAACG 59.545 41.667 0.00 0.00 38.69 3.60
2525 13091 5.821516 TGCACTTTTAAACGAGAGGAAAA 57.178 34.783 0.00 0.00 0.00 2.29
2526 13092 6.197364 TGCACTTTTAAACGAGAGGAAAAA 57.803 33.333 0.00 0.00 0.00 1.94
2548 13114 6.916360 AAAACCTAATGTGACACATTGGAT 57.084 33.333 33.86 25.41 46.09 3.41
2549 13115 6.916360 AAACCTAATGTGACACATTGGATT 57.084 33.333 33.86 28.10 46.09 3.01
2550 13116 6.916360 AACCTAATGTGACACATTGGATTT 57.084 33.333 33.86 25.32 46.09 2.17
2551 13117 6.916360 ACCTAATGTGACACATTGGATTTT 57.084 33.333 33.86 18.43 46.09 1.82
2552 13118 7.301868 ACCTAATGTGACACATTGGATTTTT 57.698 32.000 33.86 18.40 46.09 1.94
2615 13203 4.516698 ACGAAACTCAAAGCAATCACTGAT 59.483 37.500 0.00 0.00 0.00 2.90
2616 13204 4.849926 CGAAACTCAAAGCAATCACTGATG 59.150 41.667 0.00 0.00 0.00 3.07
2627 13215 4.823442 GCAATCACTGATGGTGGATTCATA 59.177 41.667 0.00 0.00 45.38 2.15
2640 13228 7.450074 TGGTGGATTCATACATGGTAGAATAC 58.550 38.462 10.05 10.05 42.04 1.89
2680 13269 6.446781 ACATGCTCTCAAGTTATTGGAATG 57.553 37.500 0.00 0.00 37.02 2.67
2687 13276 7.415541 GCTCTCAAGTTATTGGAATGCATTGTA 60.416 37.037 18.59 2.05 37.02 2.41
2704 13293 6.589523 TGCATTGTAAATGTATTGGTTCAAGC 59.410 34.615 2.23 0.00 0.00 4.01
2711 13300 3.976169 TGTATTGGTTCAAGCTTTGTGC 58.024 40.909 0.00 0.00 43.29 4.57
2742 13571 7.669427 TGTAAATGCATCCACATCTTCTTTTT 58.331 30.769 0.00 0.00 0.00 1.94
2748 13577 7.669427 TGCATCCACATCTTCTTTTTATTGTT 58.331 30.769 0.00 0.00 0.00 2.83
2750 13579 7.276438 GCATCCACATCTTCTTTTTATTGTTCC 59.724 37.037 0.00 0.00 0.00 3.62
2753 13582 9.527157 TCCACATCTTCTTTTTATTGTTCCATA 57.473 29.630 0.00 0.00 0.00 2.74
2767 13596 7.615039 ATTGTTCCATATTGCAATATCCCAA 57.385 32.000 25.71 22.51 30.78 4.12
2774 13603 4.605640 ATTGCAATATCCCAATTTCCCG 57.394 40.909 11.02 0.00 0.00 5.14
2781 13610 0.039035 TCCCAATTTCCCGGACAAGG 59.961 55.000 0.73 0.00 0.00 3.61
2785 13614 0.898326 AATTTCCCGGACAAGGCACC 60.898 55.000 0.73 0.00 0.00 5.01
2796 13625 4.798682 AGGCACCGGGGTAGAGGG 62.799 72.222 5.12 0.00 0.00 4.30
2802 13631 1.138228 ACCGGGGTAGAGGGCTTTTT 61.138 55.000 6.32 0.00 0.00 1.94
2825 13789 9.558396 TTTTTCCATGCTTTTACAAGATTTGAT 57.442 25.926 0.00 0.00 30.57 2.57
2848 13812 2.870411 GCTTATTATCAAGGACGCGGTT 59.130 45.455 12.47 0.00 0.00 4.44
2853 13817 0.539986 ATCAAGGACGCGGTTATGGT 59.460 50.000 12.47 0.00 0.00 3.55
2860 13824 1.063972 CGCGGTTATGGTGGCAATG 59.936 57.895 0.00 0.00 0.00 2.82
2863 13827 0.529833 CGGTTATGGTGGCAATGCAA 59.470 50.000 7.79 0.00 0.00 4.08
2865 13829 1.274728 GGTTATGGTGGCAATGCAACA 59.725 47.619 15.38 6.48 33.46 3.33
2868 13832 1.563924 ATGGTGGCAATGCAACAGAT 58.436 45.000 15.38 2.93 33.46 2.90
2886 13850 3.804325 CAGATTGCTCGTGGTAATGGTAG 59.196 47.826 0.00 0.00 30.59 3.18
2912 13876 9.183368 GGAATTTTCATTCTCTCAATAAGACCT 57.817 33.333 0.00 0.00 39.17 3.85
2918 13882 8.728337 TCATTCTCTCAATAAGACCTTGATTG 57.272 34.615 0.00 0.00 32.50 2.67
2919 13883 6.992063 TTCTCTCAATAAGACCTTGATTGC 57.008 37.500 0.00 0.00 32.50 3.56
2920 13884 6.305272 TCTCTCAATAAGACCTTGATTGCT 57.695 37.500 0.00 0.00 32.50 3.91
2925 15544 5.190528 TCAATAAGACCTTGATTGCTCTCCT 59.809 40.000 0.00 0.00 31.86 3.69
2927 15546 6.814954 ATAAGACCTTGATTGCTCTCCTTA 57.185 37.500 0.00 0.00 0.00 2.69
2932 15551 6.385467 AGACCTTGATTGCTCTCCTTACTATT 59.615 38.462 0.00 0.00 0.00 1.73
2936 15827 5.674525 TGATTGCTCTCCTTACTATTGTGG 58.325 41.667 0.00 0.00 0.00 4.17
2937 15828 5.425217 TGATTGCTCTCCTTACTATTGTGGA 59.575 40.000 0.00 0.00 0.00 4.02
2939 15830 4.353777 TGCTCTCCTTACTATTGTGGACT 58.646 43.478 0.00 0.00 0.00 3.85
2944 15835 5.045869 TCTCCTTACTATTGTGGACTTTGGG 60.046 44.000 0.00 0.00 0.00 4.12
2948 15839 0.322997 TATTGTGGACTTTGGGCCCG 60.323 55.000 19.37 5.25 0.00 6.13
2951 15842 1.073548 GTGGACTTTGGGCCCGTTA 59.926 57.895 19.37 1.28 0.00 3.18
2952 15843 0.958876 GTGGACTTTGGGCCCGTTAG 60.959 60.000 19.37 16.33 0.00 2.34
2953 15844 1.377612 GGACTTTGGGCCCGTTAGT 59.622 57.895 19.37 19.62 0.00 2.24
2954 15845 0.675837 GGACTTTGGGCCCGTTAGTC 60.676 60.000 29.25 29.25 35.61 2.59
2957 15848 1.277273 ACTTTGGGCCCGTTAGTCTAC 59.723 52.381 19.37 0.00 0.00 2.59
2958 15849 1.553704 CTTTGGGCCCGTTAGTCTACT 59.446 52.381 19.37 0.00 0.00 2.57
2959 15850 1.188863 TTGGGCCCGTTAGTCTACTC 58.811 55.000 19.37 0.00 0.00 2.59
2960 15851 0.685458 TGGGCCCGTTAGTCTACTCC 60.685 60.000 19.37 0.00 0.00 3.85
2961 15852 0.685458 GGGCCCGTTAGTCTACTCCA 60.685 60.000 5.69 0.00 0.00 3.86
2962 15853 1.411041 GGCCCGTTAGTCTACTCCAT 58.589 55.000 0.00 0.00 0.00 3.41
2965 15856 1.687123 CCCGTTAGTCTACTCCATGGG 59.313 57.143 13.02 5.22 32.36 4.00
2967 15858 3.231818 CCGTTAGTCTACTCCATGGGAT 58.768 50.000 13.02 2.59 0.00 3.85
2968 15859 3.256136 CCGTTAGTCTACTCCATGGGATC 59.744 52.174 13.02 0.00 0.00 3.36
2969 15860 3.256136 CGTTAGTCTACTCCATGGGATCC 59.744 52.174 13.02 1.92 0.00 3.36
2970 15861 2.407340 AGTCTACTCCATGGGATCCC 57.593 55.000 25.22 25.22 0.00 3.85
2982 15873 3.669939 TGGGATCCCAAGATCTTTTCC 57.330 47.619 32.09 9.65 46.96 3.13
2985 16148 3.956848 GGGATCCCAAGATCTTTTCCAAG 59.043 47.826 26.95 0.00 46.96 3.61
2986 16149 3.956848 GGATCCCAAGATCTTTTCCAAGG 59.043 47.826 4.86 2.66 46.96 3.61
2991 16154 3.168292 CAAGATCTTTTCCAAGGCCCTT 58.832 45.455 4.86 0.00 0.00 3.95
2995 16158 2.770132 CTTTTCCAAGGCCCTTGCGC 62.770 60.000 18.41 0.00 39.85 6.09
2998 16161 3.752339 CCAAGGCCCTTGCGCTTC 61.752 66.667 18.41 0.00 39.85 3.86
3000 16163 4.643387 AAGGCCCTTGCGCTTCGT 62.643 61.111 9.73 0.00 38.85 3.85
3001 16164 4.643387 AGGCCCTTGCGCTTCGTT 62.643 61.111 9.73 0.00 38.85 3.85
3004 16167 2.255252 CCCTTGCGCTTCGTTTGG 59.745 61.111 9.73 0.00 0.00 3.28
3005 16168 2.255252 CCTTGCGCTTCGTTTGGG 59.745 61.111 9.73 0.00 0.00 4.12
3009 16172 3.660111 GCGCTTCGTTTGGGCACT 61.660 61.111 0.00 0.00 41.97 4.40
3012 16175 0.802494 CGCTTCGTTTGGGCACTATT 59.198 50.000 0.00 0.00 0.00 1.73
3016 16179 3.574614 CTTCGTTTGGGCACTATTTTGG 58.425 45.455 0.00 0.00 0.00 3.28
3017 16180 1.271102 TCGTTTGGGCACTATTTTGGC 59.729 47.619 0.00 0.00 41.31 4.52
3018 16181 1.272212 CGTTTGGGCACTATTTTGGCT 59.728 47.619 0.00 0.00 41.74 4.75
3020 16183 2.298729 GTTTGGGCACTATTTTGGCTCA 59.701 45.455 0.00 0.00 41.74 4.26
3021 16184 2.530460 TGGGCACTATTTTGGCTCAT 57.470 45.000 0.00 0.00 41.74 2.90
3022 16185 2.378038 TGGGCACTATTTTGGCTCATC 58.622 47.619 0.00 0.00 41.74 2.92
3023 16186 2.025037 TGGGCACTATTTTGGCTCATCT 60.025 45.455 0.00 0.00 41.74 2.90
3025 16188 3.282021 GGCACTATTTTGGCTCATCTCA 58.718 45.455 0.00 0.00 38.98 3.27
3026 16189 3.887716 GGCACTATTTTGGCTCATCTCAT 59.112 43.478 0.00 0.00 38.98 2.90
3028 16191 4.577693 GCACTATTTTGGCTCATCTCATCA 59.422 41.667 0.00 0.00 0.00 3.07
3030 16193 5.008415 CACTATTTTGGCTCATCTCATCACC 59.992 44.000 0.00 0.00 0.00 4.02
3031 16194 3.438216 TTTTGGCTCATCTCATCACCA 57.562 42.857 0.00 0.00 0.00 4.17
3032 16195 3.438216 TTTGGCTCATCTCATCACCAA 57.562 42.857 0.00 0.00 35.46 3.67
3033 16196 2.408271 TGGCTCATCTCATCACCAAC 57.592 50.000 0.00 0.00 0.00 3.77
3034 16197 1.629861 TGGCTCATCTCATCACCAACA 59.370 47.619 0.00 0.00 0.00 3.33
3035 16198 2.040145 TGGCTCATCTCATCACCAACAA 59.960 45.455 0.00 0.00 0.00 2.83
3036 16199 3.084039 GGCTCATCTCATCACCAACAAA 58.916 45.455 0.00 0.00 0.00 2.83
3039 16202 4.022935 GCTCATCTCATCACCAACAAACAA 60.023 41.667 0.00 0.00 0.00 2.83
3040 16203 5.507817 GCTCATCTCATCACCAACAAACAAA 60.508 40.000 0.00 0.00 0.00 2.83
3042 16205 4.305989 TCTCATCACCAACAAACAAAGC 57.694 40.909 0.00 0.00 0.00 3.51
3043 16206 3.698539 TCTCATCACCAACAAACAAAGCA 59.301 39.130 0.00 0.00 0.00 3.91
3044 16207 4.159321 TCTCATCACCAACAAACAAAGCAA 59.841 37.500 0.00 0.00 0.00 3.91
3045 16208 5.021033 TCATCACCAACAAACAAAGCAAT 57.979 34.783 0.00 0.00 0.00 3.56
3047 16210 5.879223 TCATCACCAACAAACAAAGCAATTT 59.121 32.000 0.00 0.00 0.00 1.82
3048 16211 6.373774 TCATCACCAACAAACAAAGCAATTTT 59.626 30.769 0.00 0.00 0.00 1.82
3049 16212 7.550551 TCATCACCAACAAACAAAGCAATTTTA 59.449 29.630 0.00 0.00 0.00 1.52
3050 16213 7.856145 TCACCAACAAACAAAGCAATTTTAT 57.144 28.000 0.00 0.00 0.00 1.40
3051 16214 8.273780 TCACCAACAAACAAAGCAATTTTATT 57.726 26.923 0.00 0.00 0.00 1.40
3052 16215 8.394121 TCACCAACAAACAAAGCAATTTTATTC 58.606 29.630 0.00 0.00 0.00 1.75
3053 16216 7.372918 CACCAACAAACAAAGCAATTTTATTCG 59.627 33.333 0.00 0.00 0.00 3.34
3054 16217 6.850317 CCAACAAACAAAGCAATTTTATTCGG 59.150 34.615 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
55 56 2.436824 GTGGGAAGCTTCTCCGGC 60.437 66.667 23.54 15.40 36.21 6.13
72 73 2.800985 CGTGTAGCATGATGGTCAGAGG 60.801 54.545 0.00 0.00 0.00 3.69
95 96 4.679662 GTCTCCATGCTAACGTTTAGCTA 58.320 43.478 21.86 13.39 40.95 3.32
96 97 3.522553 GTCTCCATGCTAACGTTTAGCT 58.477 45.455 21.86 0.00 40.95 3.32
97 98 2.281762 CGTCTCCATGCTAACGTTTAGC 59.718 50.000 5.91 13.74 40.76 3.09
98 99 3.508762 ACGTCTCCATGCTAACGTTTAG 58.491 45.455 5.91 3.24 45.21 1.85
459 461 3.467483 TCCCTCTGATCCATACTACCTGT 59.533 47.826 0.00 0.00 0.00 4.00
536 542 1.418637 ACCAAGTCCTTTGCTCCGTTA 59.581 47.619 0.00 0.00 35.37 3.18
570 576 0.806868 CGTGCTGATGGTGAAATGCT 59.193 50.000 0.00 0.00 0.00 3.79
644 654 5.237048 GGGTTTCATAATGTTTGTGCACAT 58.763 37.500 22.39 7.85 39.17 3.21
652 663 2.164338 ACGGCGGGTTTCATAATGTTT 58.836 42.857 13.24 0.00 0.00 2.83
655 666 2.931512 AAACGGCGGGTTTCATAATG 57.068 45.000 13.24 0.00 45.60 1.90
1177 1539 0.318699 CGAGGTCAGCGACACAGAAA 60.319 55.000 10.14 0.00 33.68 2.52
1189 1551 4.373116 GCCTTGCCGTCGAGGTCA 62.373 66.667 0.91 0.00 44.38 4.02
1317 1679 1.749063 ACATATCGAGCTCCGTCACAA 59.251 47.619 8.47 0.00 39.75 3.33
1403 1766 2.032834 ATGTGCGGCGGGTTTGTA 59.967 55.556 9.78 0.00 0.00 2.41
1406 1769 4.652131 TGGATGTGCGGCGGGTTT 62.652 61.111 9.78 0.00 0.00 3.27
1771 12268 8.660295 ATGATTTATGATCATTTATGGGCAGT 57.340 30.769 14.65 0.00 35.39 4.40
1791 12291 5.295292 GCTAGCATGCATATACCGAATGATT 59.705 40.000 21.98 0.00 0.00 2.57
1794 12294 3.000623 CGCTAGCATGCATATACCGAATG 59.999 47.826 21.98 0.00 0.00 2.67
1800 12300 5.536554 AAATGTCGCTAGCATGCATATAC 57.463 39.130 21.98 11.42 0.00 1.47
1867 12369 7.337480 TCAATCTTATTACAACTGCATGCAT 57.663 32.000 22.97 9.00 0.00 3.96
1868 12370 6.756299 TCAATCTTATTACAACTGCATGCA 57.244 33.333 21.29 21.29 0.00 3.96
2005 12535 7.844493 AGGGTAATCGGACAAATATACTACA 57.156 36.000 0.00 0.00 0.00 2.74
2006 12536 9.551734 AAAAGGGTAATCGGACAAATATACTAC 57.448 33.333 0.00 0.00 0.00 2.73
2037 12567 6.072119 TCGACTTGAGAGCATGTCTAACTTAA 60.072 38.462 0.00 0.00 43.35 1.85
2039 12569 4.218635 TCGACTTGAGAGCATGTCTAACTT 59.781 41.667 0.00 0.00 43.35 2.66
2042 12572 3.506067 TGTCGACTTGAGAGCATGTCTAA 59.494 43.478 17.92 0.00 43.35 2.10
2043 12573 3.081804 TGTCGACTTGAGAGCATGTCTA 58.918 45.455 17.92 0.00 43.35 2.59
2044 12574 1.889170 TGTCGACTTGAGAGCATGTCT 59.111 47.619 17.92 0.00 43.35 3.41
2045 12575 2.354109 TGTCGACTTGAGAGCATGTC 57.646 50.000 17.92 0.00 42.57 3.06
2061 12591 6.314784 CGATACCTTTCCTTTTGTTGATGTC 58.685 40.000 0.00 0.00 0.00 3.06
2066 12596 4.766404 AGCGATACCTTTCCTTTTGTTG 57.234 40.909 0.00 0.00 0.00 3.33
2073 12603 3.633065 GACTCTGTAGCGATACCTTTCCT 59.367 47.826 8.59 0.00 0.00 3.36
2086 12616 3.227147 CGAAGTTGACGTGACTCTGTAG 58.773 50.000 0.00 0.00 0.00 2.74
2090 12620 1.315690 TCCGAAGTTGACGTGACTCT 58.684 50.000 0.00 0.00 0.00 3.24
2126 12656 6.267496 TGGCAAATACTTTAAGGCTTCTTC 57.733 37.500 1.30 0.00 32.23 2.87
2129 12659 5.410924 CCTTGGCAAATACTTTAAGGCTTC 58.589 41.667 1.30 0.00 0.00 3.86
2133 12664 5.652452 AGTAGCCTTGGCAAATACTTTAAGG 59.348 40.000 14.54 0.00 38.13 2.69
2140 12671 2.870411 CCGTAGTAGCCTTGGCAAATAC 59.130 50.000 14.54 11.14 0.00 1.89
2146 12677 2.585247 CGCCGTAGTAGCCTTGGC 60.585 66.667 2.97 2.97 37.55 4.52
2149 12680 1.980772 ACCACGCCGTAGTAGCCTT 60.981 57.895 0.00 0.00 0.00 4.35
2152 12683 1.226603 CTCACCACGCCGTAGTAGC 60.227 63.158 0.00 0.00 0.00 3.58
2159 12690 3.027170 GACATTGCTCACCACGCCG 62.027 63.158 0.00 0.00 0.00 6.46
2161 12692 1.514678 TTGGACATTGCTCACCACGC 61.515 55.000 0.00 0.00 31.87 5.34
2211 12742 2.226330 TGGTACATTTTGCGTTCTGCT 58.774 42.857 0.00 0.00 46.63 4.24
2213 12744 4.793071 TGATTGGTACATTTTGCGTTCTG 58.207 39.130 0.00 0.00 39.30 3.02
2218 12759 3.925299 TGCATTGATTGGTACATTTTGCG 59.075 39.130 0.00 0.00 39.30 4.85
2232 12773 7.770366 TTGGAGATTGCTATAATGCATTGAT 57.230 32.000 22.27 13.02 42.96 2.57
2260 12802 9.965824 AAAATCATTCTCGTGTTCTTTTTGTAT 57.034 25.926 0.00 0.00 0.00 2.29
2274 12816 6.122850 TGCATGGTAGAAAAATCATTCTCG 57.877 37.500 0.00 0.00 40.13 4.04
2282 12824 6.438425 GGATATCCCATGCATGGTAGAAAAAT 59.562 38.462 37.30 23.41 46.65 1.82
2318 12860 2.551912 GCAACCAACCGACAGTGGG 61.552 63.158 0.00 0.00 46.48 4.61
2319 12861 1.101049 AAGCAACCAACCGACAGTGG 61.101 55.000 0.00 0.00 0.00 4.00
2320 12862 0.738389 AAAGCAACCAACCGACAGTG 59.262 50.000 0.00 0.00 0.00 3.66
2321 12863 0.738389 CAAAGCAACCAACCGACAGT 59.262 50.000 0.00 0.00 0.00 3.55
2322 12864 1.021202 TCAAAGCAACCAACCGACAG 58.979 50.000 0.00 0.00 0.00 3.51
2323 12865 0.736053 GTCAAAGCAACCAACCGACA 59.264 50.000 0.00 0.00 0.00 4.35
2324 12866 0.736053 TGTCAAAGCAACCAACCGAC 59.264 50.000 0.00 0.00 0.00 4.79
2325 12867 1.686355 ATGTCAAAGCAACCAACCGA 58.314 45.000 0.00 0.00 0.00 4.69
2326 12868 2.393764 GAATGTCAAAGCAACCAACCG 58.606 47.619 0.00 0.00 0.00 4.44
2327 12869 2.223711 ACGAATGTCAAAGCAACCAACC 60.224 45.455 0.00 0.00 0.00 3.77
2328 12870 2.788786 CACGAATGTCAAAGCAACCAAC 59.211 45.455 0.00 0.00 0.00 3.77
2329 12871 2.797792 GCACGAATGTCAAAGCAACCAA 60.798 45.455 0.00 0.00 0.00 3.67
2330 12872 1.268999 GCACGAATGTCAAAGCAACCA 60.269 47.619 0.00 0.00 0.00 3.67
2331 12873 1.001378 AGCACGAATGTCAAAGCAACC 60.001 47.619 0.00 0.00 0.00 3.77
2365 12907 9.840427 AAATAGGACACAAGATAAATTTTGACG 57.160 29.630 0.00 0.00 0.00 4.35
2395 12953 6.343716 AGATGGTATGCACATTGAAACAAA 57.656 33.333 0.00 0.00 0.00 2.83
2409 12967 7.445096 TGGTGCATACTCAAATAAGATGGTATG 59.555 37.037 0.00 0.00 39.31 2.39
2412 12970 5.754782 TGGTGCATACTCAAATAAGATGGT 58.245 37.500 0.00 0.00 0.00 3.55
2413 12971 6.698008 TTGGTGCATACTCAAATAAGATGG 57.302 37.500 0.00 0.00 0.00 3.51
2424 12989 7.331687 AGTGCATTTTATTTTTGGTGCATACTC 59.668 33.333 0.98 0.00 43.43 2.59
2426 12991 7.363205 AGTGCATTTTATTTTTGGTGCATAC 57.637 32.000 0.98 0.00 43.43 2.39
2431 12996 8.908172 AAAACAAGTGCATTTTATTTTTGGTG 57.092 26.923 7.50 0.00 0.00 4.17
2463 13028 8.212317 TGTGTACCATCATTTATCAACAGATG 57.788 34.615 0.00 0.00 36.67 2.90
2482 13047 4.083484 GCATCCTAGTGGTTTGTTGTGTAC 60.083 45.833 0.00 0.00 34.23 2.90
2525 13091 6.916360 ATCCAATGTGTCACATTAGGTTTT 57.084 33.333 26.73 16.57 46.22 2.43
2526 13092 6.916360 AATCCAATGTGTCACATTAGGTTT 57.084 33.333 26.73 23.86 46.22 3.27
2586 13174 1.680735 TGCTTTGAGTTTCGTGCCAAT 59.319 42.857 0.00 0.00 0.00 3.16
2588 13176 1.098869 TTGCTTTGAGTTTCGTGCCA 58.901 45.000 0.00 0.00 0.00 4.92
2590 13178 2.721090 GTGATTGCTTTGAGTTTCGTGC 59.279 45.455 0.00 0.00 0.00 5.34
2591 13179 3.970610 CAGTGATTGCTTTGAGTTTCGTG 59.029 43.478 0.00 0.00 0.00 4.35
2592 13180 3.876914 TCAGTGATTGCTTTGAGTTTCGT 59.123 39.130 0.00 0.00 0.00 3.85
2593 13181 4.472691 TCAGTGATTGCTTTGAGTTTCG 57.527 40.909 0.00 0.00 0.00 3.46
2594 13182 5.159209 CCATCAGTGATTGCTTTGAGTTTC 58.841 41.667 1.86 0.00 0.00 2.78
2596 13184 4.147321 ACCATCAGTGATTGCTTTGAGTT 58.853 39.130 1.86 0.00 0.00 3.01
2597 13185 3.759581 ACCATCAGTGATTGCTTTGAGT 58.240 40.909 1.86 0.00 0.00 3.41
2615 13203 5.966853 TTCTACCATGTATGAATCCACCA 57.033 39.130 0.00 0.00 0.00 4.17
2616 13204 7.907214 GTATTCTACCATGTATGAATCCACC 57.093 40.000 7.33 0.00 32.33 4.61
2660 13249 4.334552 TGCATTCCAATAACTTGAGAGCA 58.665 39.130 0.00 0.00 34.04 4.26
2662 13251 6.860080 ACAATGCATTCCAATAACTTGAGAG 58.140 36.000 9.53 0.00 34.04 3.20
2663 13252 6.839124 ACAATGCATTCCAATAACTTGAGA 57.161 33.333 9.53 0.00 34.04 3.27
2664 13253 8.984891 TTTACAATGCATTCCAATAACTTGAG 57.015 30.769 9.53 0.00 34.04 3.02
2674 13263 7.180322 ACCAATACATTTACAATGCATTCCA 57.820 32.000 9.53 0.00 0.00 3.53
2675 13264 7.763528 TGAACCAATACATTTACAATGCATTCC 59.236 33.333 9.53 0.00 0.00 3.01
2680 13269 6.813152 AGCTTGAACCAATACATTTACAATGC 59.187 34.615 0.00 0.00 0.00 3.56
2687 13276 5.466393 GCACAAAGCTTGAACCAATACATTT 59.534 36.000 0.00 0.00 41.15 2.32
2694 13283 1.547820 TGTGCACAAAGCTTGAACCAA 59.452 42.857 19.28 0.00 45.94 3.67
2696 13285 2.514205 ATGTGCACAAAGCTTGAACC 57.486 45.000 25.72 0.00 45.94 3.62
2711 13300 7.210718 AGATGTGGATGCATTTACATATGTG 57.789 36.000 22.14 2.61 34.18 3.21
2748 13577 6.213195 GGGAAATTGGGATATTGCAATATGGA 59.787 38.462 31.58 16.53 31.96 3.41
2750 13579 6.101332 CGGGAAATTGGGATATTGCAATATG 58.899 40.000 31.58 12.25 31.96 1.78
2753 13582 3.324556 CCGGGAAATTGGGATATTGCAAT 59.675 43.478 17.56 17.56 0.00 3.56
2754 13583 2.697751 CCGGGAAATTGGGATATTGCAA 59.302 45.455 0.00 0.00 0.00 4.08
2755 13584 2.091610 TCCGGGAAATTGGGATATTGCA 60.092 45.455 0.00 0.00 0.00 4.08
2756 13585 2.296190 GTCCGGGAAATTGGGATATTGC 59.704 50.000 0.00 0.00 31.43 3.56
2760 13589 2.092103 CCTTGTCCGGGAAATTGGGATA 60.092 50.000 0.00 0.00 31.43 2.59
2764 13593 0.897863 TGCCTTGTCCGGGAAATTGG 60.898 55.000 0.00 0.00 0.00 3.16
2767 13596 1.304134 GGTGCCTTGTCCGGGAAAT 60.304 57.895 0.00 0.00 0.00 2.17
2774 13603 3.324108 TACCCCGGTGCCTTGTCC 61.324 66.667 0.00 0.00 0.00 4.02
2802 13631 7.975616 GCTATCAAATCTTGTAAAAGCATGGAA 59.024 33.333 0.00 0.00 0.00 3.53
2803 13632 7.340232 AGCTATCAAATCTTGTAAAAGCATGGA 59.660 33.333 0.00 0.00 0.00 3.41
2804 13633 7.486647 AGCTATCAAATCTTGTAAAAGCATGG 58.513 34.615 0.00 0.00 0.00 3.66
2822 13651 5.161358 CGCGTCCTTGATAATAAGCTATCA 58.839 41.667 0.00 0.00 36.68 2.15
2823 13652 4.563184 CCGCGTCCTTGATAATAAGCTATC 59.437 45.833 4.92 0.00 0.00 2.08
2825 13789 3.319972 ACCGCGTCCTTGATAATAAGCTA 59.680 43.478 4.92 0.00 0.00 3.32
2832 13796 2.168936 ACCATAACCGCGTCCTTGATAA 59.831 45.455 4.92 0.00 0.00 1.75
2833 13797 1.758280 ACCATAACCGCGTCCTTGATA 59.242 47.619 4.92 0.00 0.00 2.15
2834 13798 0.539986 ACCATAACCGCGTCCTTGAT 59.460 50.000 4.92 0.00 0.00 2.57
2835 13799 0.390603 CACCATAACCGCGTCCTTGA 60.391 55.000 4.92 0.00 0.00 3.02
2836 13800 1.366111 CCACCATAACCGCGTCCTTG 61.366 60.000 4.92 0.00 0.00 3.61
2839 13803 3.199891 GCCACCATAACCGCGTCC 61.200 66.667 4.92 0.00 0.00 4.79
2848 13812 2.212812 TCTGTTGCATTGCCACCATA 57.787 45.000 10.07 0.00 0.00 2.74
2863 13827 2.027192 ACCATTACCACGAGCAATCTGT 60.027 45.455 0.00 0.00 0.00 3.41
2865 13829 3.181465 CCTACCATTACCACGAGCAATCT 60.181 47.826 0.00 0.00 0.00 2.40
2868 13832 2.181125 TCCTACCATTACCACGAGCAA 58.819 47.619 0.00 0.00 0.00 3.91
2871 13835 5.878116 TGAAAATTCCTACCATTACCACGAG 59.122 40.000 0.00 0.00 0.00 4.18
2879 13843 8.884124 TTGAGAGAATGAAAATTCCTACCATT 57.116 30.769 0.00 0.00 0.00 3.16
2886 13850 9.183368 AGGTCTTATTGAGAGAATGAAAATTCC 57.817 33.333 0.00 0.00 34.31 3.01
2906 13870 4.534103 AGTAAGGAGAGCAATCAAGGTCTT 59.466 41.667 0.00 0.00 45.59 3.01
2909 13873 6.069963 ACAATAGTAAGGAGAGCAATCAAGGT 60.070 38.462 0.00 0.00 0.00 3.50
2912 13876 6.070251 TCCACAATAGTAAGGAGAGCAATCAA 60.070 38.462 0.00 0.00 0.00 2.57
2913 13877 5.425217 TCCACAATAGTAAGGAGAGCAATCA 59.575 40.000 0.00 0.00 0.00 2.57
2914 13878 5.755861 GTCCACAATAGTAAGGAGAGCAATC 59.244 44.000 0.00 0.00 0.00 2.67
2918 13882 5.346181 AAGTCCACAATAGTAAGGAGAGC 57.654 43.478 0.00 0.00 0.00 4.09
2919 13883 6.109359 CCAAAGTCCACAATAGTAAGGAGAG 58.891 44.000 0.00 0.00 0.00 3.20
2920 13884 5.045869 CCCAAAGTCCACAATAGTAAGGAGA 60.046 44.000 0.00 0.00 0.00 3.71
2925 15544 3.562609 GGGCCCAAAGTCCACAATAGTAA 60.563 47.826 19.95 0.00 0.00 2.24
2927 15546 1.272480 GGGCCCAAAGTCCACAATAGT 60.272 52.381 19.95 0.00 0.00 2.12
2932 15551 1.706995 TAACGGGCCCAAAGTCCACA 61.707 55.000 24.92 0.00 0.00 4.17
2936 15827 0.323957 AGACTAACGGGCCCAAAGTC 59.676 55.000 28.67 28.67 37.44 3.01
2937 15828 1.277273 GTAGACTAACGGGCCCAAAGT 59.723 52.381 24.92 21.01 0.00 2.66
2939 15830 1.551883 GAGTAGACTAACGGGCCCAAA 59.448 52.381 24.92 4.87 0.00 3.28
2944 15835 1.068741 CCATGGAGTAGACTAACGGGC 59.931 57.143 5.56 0.00 0.00 6.13
2948 15839 3.579151 GGGATCCCATGGAGTAGACTAAC 59.421 52.174 26.95 0.00 34.05 2.34
2951 15842 1.580658 TGGGATCCCATGGAGTAGACT 59.419 52.381 30.62 0.00 41.89 3.24
2952 15843 2.103153 TGGGATCCCATGGAGTAGAC 57.897 55.000 30.62 0.00 41.89 2.59
2953 15844 2.250008 TCTTGGGATCCCATGGAGTAGA 59.750 50.000 34.83 28.59 46.64 2.59
2954 15845 2.694397 TCTTGGGATCCCATGGAGTAG 58.306 52.381 34.83 27.10 46.64 2.57
2957 15848 2.346529 AGATCTTGGGATCCCATGGAG 58.653 52.381 34.83 28.33 46.96 3.86
2958 15849 2.520188 AGATCTTGGGATCCCATGGA 57.480 50.000 34.83 31.40 46.96 3.41
2959 15850 3.607490 AAAGATCTTGGGATCCCATGG 57.393 47.619 34.83 28.29 46.96 3.66
2960 15851 3.893813 GGAAAAGATCTTGGGATCCCATG 59.106 47.826 34.21 32.93 46.96 3.66
2961 15852 3.533068 TGGAAAAGATCTTGGGATCCCAT 59.467 43.478 34.21 20.11 46.96 4.00
2962 15853 2.925653 TGGAAAAGATCTTGGGATCCCA 59.074 45.455 30.62 30.62 46.96 4.37
2965 15856 3.382865 GCCTTGGAAAAGATCTTGGGATC 59.617 47.826 9.17 5.60 46.33 3.36
2967 15858 2.557452 GGCCTTGGAAAAGATCTTGGGA 60.557 50.000 9.17 0.00 0.00 4.37
2968 15859 1.827344 GGCCTTGGAAAAGATCTTGGG 59.173 52.381 9.17 6.18 0.00 4.12
2969 15860 1.827344 GGGCCTTGGAAAAGATCTTGG 59.173 52.381 9.17 5.81 0.00 3.61
2970 15861 2.812658 AGGGCCTTGGAAAAGATCTTG 58.187 47.619 9.17 0.00 0.00 3.02
2971 15862 3.168292 CAAGGGCCTTGGAAAAGATCTT 58.832 45.455 34.03 0.88 37.77 2.40
2972 15863 2.812658 CAAGGGCCTTGGAAAAGATCT 58.187 47.619 34.03 0.00 37.77 2.75
2973 15864 1.205655 GCAAGGGCCTTGGAAAAGATC 59.794 52.381 39.34 21.16 41.31 2.75
2974 15865 1.269958 GCAAGGGCCTTGGAAAAGAT 58.730 50.000 39.34 5.53 41.31 2.40
2975 15866 1.178534 CGCAAGGGCCTTGGAAAAGA 61.179 55.000 39.34 0.00 41.31 2.52
2976 15867 1.290009 CGCAAGGGCCTTGGAAAAG 59.710 57.895 39.34 19.57 41.31 2.27
2977 15868 2.866726 GCGCAAGGGCCTTGGAAAA 61.867 57.895 39.34 0.00 41.31 2.29
2979 15870 3.808218 AAGCGCAAGGGCCTTGGAA 62.808 57.895 39.34 0.00 41.31 3.53
2982 15873 4.107051 CGAAGCGCAAGGGCCTTG 62.107 66.667 36.47 36.47 43.57 3.61
2985 16148 3.670377 AAACGAAGCGCAAGGGCC 61.670 61.111 11.47 0.00 36.38 5.80
2986 16149 2.429069 CAAACGAAGCGCAAGGGC 60.429 61.111 11.47 0.29 38.28 5.19
2991 16154 2.997952 TAGTGCCCAAACGAAGCGCA 62.998 55.000 11.47 0.00 39.46 6.09
2995 16158 3.574614 CCAAAATAGTGCCCAAACGAAG 58.425 45.455 0.00 0.00 0.00 3.79
2998 16161 1.272212 AGCCAAAATAGTGCCCAAACG 59.728 47.619 0.00 0.00 0.00 3.60
3000 16163 2.603021 TGAGCCAAAATAGTGCCCAAA 58.397 42.857 0.00 0.00 0.00 3.28
3001 16164 2.300956 TGAGCCAAAATAGTGCCCAA 57.699 45.000 0.00 0.00 0.00 4.12
3004 16167 3.282021 TGAGATGAGCCAAAATAGTGCC 58.718 45.455 0.00 0.00 0.00 5.01
3005 16168 4.577693 TGATGAGATGAGCCAAAATAGTGC 59.422 41.667 0.00 0.00 0.00 4.40
3007 16170 5.128919 GGTGATGAGATGAGCCAAAATAGT 58.871 41.667 0.00 0.00 0.00 2.12
3009 16172 5.114764 TGGTGATGAGATGAGCCAAAATA 57.885 39.130 0.00 0.00 0.00 1.40
3012 16175 3.084039 GTTGGTGATGAGATGAGCCAAA 58.916 45.455 0.00 0.00 37.68 3.28
3016 16179 3.503363 TGTTTGTTGGTGATGAGATGAGC 59.497 43.478 0.00 0.00 0.00 4.26
3017 16180 5.694231 TTGTTTGTTGGTGATGAGATGAG 57.306 39.130 0.00 0.00 0.00 2.90
3018 16181 5.507817 GCTTTGTTTGTTGGTGATGAGATGA 60.508 40.000 0.00 0.00 0.00 2.92
3020 16183 4.341806 TGCTTTGTTTGTTGGTGATGAGAT 59.658 37.500 0.00 0.00 0.00 2.75
3021 16184 3.698539 TGCTTTGTTTGTTGGTGATGAGA 59.301 39.130 0.00 0.00 0.00 3.27
3022 16185 4.044336 TGCTTTGTTTGTTGGTGATGAG 57.956 40.909 0.00 0.00 0.00 2.90
3023 16186 4.462508 TTGCTTTGTTTGTTGGTGATGA 57.537 36.364 0.00 0.00 0.00 2.92
3025 16188 6.756299 AAAATTGCTTTGTTTGTTGGTGAT 57.244 29.167 0.00 0.00 0.00 3.06
3026 16189 7.856145 ATAAAATTGCTTTGTTTGTTGGTGA 57.144 28.000 0.00 0.00 0.00 4.02
3028 16191 7.405769 CGAATAAAATTGCTTTGTTTGTTGGT 58.594 30.769 0.00 0.00 29.32 3.67
3030 16193 7.819529 CCGAATAAAATTGCTTTGTTTGTTG 57.180 32.000 0.00 0.00 30.95 3.33


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

AutoCloner maintained by Alex Coulton.