Multiple sequence alignment - TraesCS3A01G259900

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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 TraesCS3A01G259900 chr3A 100.000 3485 0 0 1 3485 482185743 482182259 0.000000e+00 6436.0
1 TraesCS3A01G259900 chr3A 84.828 290 41 3 1680 1966 30997355 30997644 4.400000e-74 289.0
2 TraesCS3A01G259900 chr3A 98.462 65 1 0 2956 3020 69632018 69631954 7.900000e-22 115.0
3 TraesCS3A01G259900 chr3A 98.462 65 1 0 2956 3020 745462291 745462227 7.900000e-22 115.0
4 TraesCS3A01G259900 chr3D 91.854 2087 75 33 688 2730 362070958 362068923 0.000000e+00 2824.0
5 TraesCS3A01G259900 chr3D 87.903 372 25 7 2267 2627 362042924 362042562 1.500000e-113 420.0
6 TraesCS3A01G259900 chr3D 86.464 362 12 16 3022 3367 362068711 362068371 2.560000e-96 363.0
7 TraesCS3A01G259900 chr3D 87.407 270 27 3 1976 2238 362043192 362042923 1.570000e-78 303.0
8 TraesCS3A01G259900 chr3D 91.758 182 14 1 1819 2000 538374007 538374187 5.770000e-63 252.0
9 TraesCS3A01G259900 chr3D 98.148 54 1 0 2732 2785 362068886 362068833 1.030000e-15 95.3
10 TraesCS3A01G259900 chr3B 90.202 2133 94 34 607 2656 471801671 471799571 0.000000e+00 2675.0
11 TraesCS3A01G259900 chr3B 98.986 592 5 1 1 592 828405633 828406223 0.000000e+00 1059.0
12 TraesCS3A01G259900 chr3B 82.663 398 28 18 3112 3483 471796718 471796336 7.260000e-82 315.0
13 TraesCS3A01G259900 chr3B 81.778 225 9 13 2732 2956 471797328 471797136 3.600000e-35 159.0
14 TraesCS3A01G259900 chr3B 87.013 77 3 2 3021 3097 471797136 471797067 2.880000e-11 80.5
15 TraesCS3A01G259900 chr6A 99.324 592 3 1 1 592 48527133 48526543 0.000000e+00 1070.0
16 TraesCS3A01G259900 chr6A 98.986 592 5 1 1 592 205097731 205097141 0.000000e+00 1059.0
17 TraesCS3A01G259900 chr6A 88.692 451 40 7 1459 1903 17776491 17776936 1.100000e-149 540.0
18 TraesCS3A01G259900 chr2A 99.324 592 3 1 1 592 108030978 108030388 0.000000e+00 1070.0
19 TraesCS3A01G259900 chr2A 89.239 539 54 2 1465 2000 751920229 751920766 0.000000e+00 671.0
20 TraesCS3A01G259900 chr2A 81.792 346 43 11 1686 2028 645311425 645311753 4.430000e-69 272.0
21 TraesCS3A01G259900 chr7A 99.155 592 3 2 1 592 617485402 617484813 0.000000e+00 1064.0
22 TraesCS3A01G259900 chr7A 98.653 594 5 3 1 592 659593760 659593168 0.000000e+00 1050.0
23 TraesCS3A01G259900 chr5A 99.155 592 4 1 1 592 703475132 703474542 0.000000e+00 1064.0
24 TraesCS3A01G259900 chr5A 96.923 65 2 0 2956 3020 489845397 489845333 3.680000e-20 110.0
25 TraesCS3A01G259900 chr5A 96.923 65 2 0 2956 3020 535134079 535134015 3.680000e-20 110.0
26 TraesCS3A01G259900 chr2B 98.818 592 5 2 1 592 393997390 393997979 0.000000e+00 1053.0
27 TraesCS3A01G259900 chr6B 98.649 592 7 1 1 592 2801072 2801662 0.000000e+00 1048.0
28 TraesCS3A01G259900 chr6B 98.462 65 1 0 2956 3020 505321975 505321911 7.900000e-22 115.0
29 TraesCS3A01G259900 chr1D 82.202 972 106 41 1199 2132 454493714 454492772 0.000000e+00 774.0
30 TraesCS3A01G259900 chr1D 81.393 1005 108 45 1174 2129 454812836 454813810 0.000000e+00 747.0
31 TraesCS3A01G259900 chr1A 80.935 1070 116 51 1107 2129 548789350 548790378 0.000000e+00 765.0
32 TraesCS3A01G259900 chr1A 84.275 814 82 28 1199 1980 548733467 548734266 0.000000e+00 752.0
33 TraesCS3A01G259900 chr1A 81.026 1033 120 43 1135 2129 548772457 548773451 0.000000e+00 752.0
34 TraesCS3A01G259900 chr1A 96.923 65 2 0 2956 3020 404926777 404926713 3.680000e-20 110.0
35 TraesCS3A01G259900 chr1B 82.930 908 92 40 1107 1978 625145245 625146125 0.000000e+00 760.0
36 TraesCS3A01G259900 chr1B 82.821 879 97 31 1135 1980 625082636 625083493 0.000000e+00 737.0
37 TraesCS3A01G259900 chr1B 83.211 816 90 28 1199 1980 624970930 624971732 0.000000e+00 704.0
38 TraesCS3A01G259900 chr4B 87.319 552 57 5 1459 2000 89357989 89358537 1.370000e-173 619.0
39 TraesCS3A01G259900 chrUn 84.155 284 42 3 1686 1966 270382314 270382031 4.430000e-69 272.0
40 TraesCS3A01G259900 chr5D 91.758 182 14 1 1819 2000 457997831 457998011 5.770000e-63 252.0
41 TraesCS3A01G259900 chr7B 96.923 65 2 0 2956 3020 610351301 610351365 3.680000e-20 110.0
42 TraesCS3A01G259900 chr4A 96.923 65 2 0 2956 3020 494069713 494069649 3.680000e-20 110.0
43 TraesCS3A01G259900 chr7D 94.118 68 4 0 2956 3023 198019348 198019281 1.710000e-18 104.0


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 TraesCS3A01G259900 chr3A 482182259 482185743 3484 True 6436.000 6436 100.000000 1 3485 1 chr3A.!!$R2 3484
1 TraesCS3A01G259900 chr3D 362068371 362070958 2587 True 1094.100 2824 92.155333 688 3367 3 chr3D.!!$R2 2679
2 TraesCS3A01G259900 chr3D 362042562 362043192 630 True 361.500 420 87.655000 1976 2627 2 chr3D.!!$R1 651
3 TraesCS3A01G259900 chr3B 828405633 828406223 590 False 1059.000 1059 98.986000 1 592 1 chr3B.!!$F1 591
4 TraesCS3A01G259900 chr3B 471796336 471801671 5335 True 807.375 2675 85.414000 607 3483 4 chr3B.!!$R1 2876
5 TraesCS3A01G259900 chr6A 48526543 48527133 590 True 1070.000 1070 99.324000 1 592 1 chr6A.!!$R1 591
6 TraesCS3A01G259900 chr6A 205097141 205097731 590 True 1059.000 1059 98.986000 1 592 1 chr6A.!!$R2 591
7 TraesCS3A01G259900 chr2A 108030388 108030978 590 True 1070.000 1070 99.324000 1 592 1 chr2A.!!$R1 591
8 TraesCS3A01G259900 chr2A 751920229 751920766 537 False 671.000 671 89.239000 1465 2000 1 chr2A.!!$F2 535
9 TraesCS3A01G259900 chr7A 617484813 617485402 589 True 1064.000 1064 99.155000 1 592 1 chr7A.!!$R1 591
10 TraesCS3A01G259900 chr7A 659593168 659593760 592 True 1050.000 1050 98.653000 1 592 1 chr7A.!!$R2 591
11 TraesCS3A01G259900 chr5A 703474542 703475132 590 True 1064.000 1064 99.155000 1 592 1 chr5A.!!$R3 591
12 TraesCS3A01G259900 chr2B 393997390 393997979 589 False 1053.000 1053 98.818000 1 592 1 chr2B.!!$F1 591
13 TraesCS3A01G259900 chr6B 2801072 2801662 590 False 1048.000 1048 98.649000 1 592 1 chr6B.!!$F1 591
14 TraesCS3A01G259900 chr1D 454492772 454493714 942 True 774.000 774 82.202000 1199 2132 1 chr1D.!!$R1 933
15 TraesCS3A01G259900 chr1D 454812836 454813810 974 False 747.000 747 81.393000 1174 2129 1 chr1D.!!$F1 955
16 TraesCS3A01G259900 chr1A 548789350 548790378 1028 False 765.000 765 80.935000 1107 2129 1 chr1A.!!$F3 1022
17 TraesCS3A01G259900 chr1A 548733467 548734266 799 False 752.000 752 84.275000 1199 1980 1 chr1A.!!$F1 781
18 TraesCS3A01G259900 chr1A 548772457 548773451 994 False 752.000 752 81.026000 1135 2129 1 chr1A.!!$F2 994
19 TraesCS3A01G259900 chr1B 625145245 625146125 880 False 760.000 760 82.930000 1107 1978 1 chr1B.!!$F3 871
20 TraesCS3A01G259900 chr1B 625082636 625083493 857 False 737.000 737 82.821000 1135 1980 1 chr1B.!!$F2 845
21 TraesCS3A01G259900 chr1B 624970930 624971732 802 False 704.000 704 83.211000 1199 1980 1 chr1B.!!$F1 781
22 TraesCS3A01G259900 chr4B 89357989 89358537 548 False 619.000 619 87.319000 1459 2000 1 chr4B.!!$F1 541

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
668 674 0.106819 GAGCCAACCCATGAGCTGAT 60.107 55.0 0.00 0.0 36.21 2.90 F
670 676 0.394762 GCCAACCCATGAGCTGATGA 60.395 55.0 15.36 0.0 0.00 2.92 F
771 791 0.461870 TGCATTAGCCCTACACAGCG 60.462 55.0 0.00 0.0 41.13 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2247 2378 0.461693 CTGCTAGCTGGAGACAAGGC 60.462 60.0 17.23 0.0 42.06 4.35 R
2248 2379 0.461693 GCTGCTAGCTGGAGACAAGG 60.462 60.0 21.46 0.0 42.06 3.61 R
2720 5031 1.246737 TGTGCATGCGGCCATAACAA 61.247 50.0 14.09 0.0 43.89 2.83 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
24 25 0.109039 GGCTCTCTGGTGTCGTCTTC 60.109 60.000 0.00 0.00 0.00 2.87
326 327 3.390521 TCTGACCGGATTGCGCCT 61.391 61.111 9.46 0.00 0.00 5.52
630 632 7.838696 AGTATCCATCTACCTTCATCATCTAGG 59.161 40.741 0.00 0.00 35.14 3.02
631 633 4.774726 TCCATCTACCTTCATCATCTAGGC 59.225 45.833 0.00 0.00 32.08 3.93
651 657 3.370315 GGCATAGATGGATAGCCCTTGAG 60.370 52.174 0.00 0.00 39.42 3.02
653 659 1.063183 AGATGGATAGCCCTTGAGCC 58.937 55.000 0.00 0.00 35.38 4.70
668 674 0.106819 GAGCCAACCCATGAGCTGAT 60.107 55.000 0.00 0.00 36.21 2.90
669 675 0.395311 AGCCAACCCATGAGCTGATG 60.395 55.000 6.14 6.14 35.21 3.07
670 676 0.394762 GCCAACCCATGAGCTGATGA 60.395 55.000 15.36 0.00 0.00 2.92
671 677 1.676746 CCAACCCATGAGCTGATGAG 58.323 55.000 15.36 3.55 0.00 2.90
757 774 0.965363 GGGGGTGACGTCAATGCATT 60.965 55.000 21.95 5.99 0.00 3.56
758 775 1.680555 GGGGGTGACGTCAATGCATTA 60.681 52.381 21.95 0.00 0.00 1.90
759 776 1.670811 GGGGTGACGTCAATGCATTAG 59.329 52.381 21.95 9.21 0.00 1.73
762 779 1.064060 GTGACGTCAATGCATTAGCCC 59.936 52.381 21.95 0.00 41.13 5.19
763 780 1.065491 TGACGTCAATGCATTAGCCCT 60.065 47.619 17.62 0.00 41.13 5.19
771 791 0.461870 TGCATTAGCCCTACACAGCG 60.462 55.000 0.00 0.00 41.13 5.18
899 928 1.532316 ATGGTATGGGCATGGCAGC 60.532 57.895 22.06 10.80 0.00 5.25
935 964 1.295423 GCCATACACGACACCCACT 59.705 57.895 0.00 0.00 0.00 4.00
950 984 2.364842 ACTCTGCCGCTGGGATCT 60.365 61.111 3.83 0.00 34.06 2.75
951 985 2.420890 CTCTGCCGCTGGGATCTC 59.579 66.667 0.00 0.00 34.06 2.75
952 986 2.042537 TCTGCCGCTGGGATCTCT 60.043 61.111 0.00 0.00 34.06 3.10
953 987 2.086251 CTCTGCCGCTGGGATCTCTC 62.086 65.000 0.00 0.00 34.06 3.20
967 1001 5.137949 TGGGATCTCTCCTTCCTTCCTATAA 59.862 44.000 0.00 0.00 41.74 0.98
1012 1046 5.828747 TCAGCGTCCTACAATTGATACTAC 58.171 41.667 13.59 2.88 0.00 2.73
1013 1047 4.982916 CAGCGTCCTACAATTGATACTACC 59.017 45.833 13.59 0.00 0.00 3.18
1014 1048 4.647853 AGCGTCCTACAATTGATACTACCA 59.352 41.667 13.59 0.00 0.00 3.25
2096 2209 1.891919 GTGCACAAGGCCGTGAGAA 60.892 57.895 26.25 9.50 43.89 2.87
2156 2284 1.842920 TGCAAGAGGGCCAGAGACA 60.843 57.895 6.18 0.00 0.00 3.41
2165 2293 1.028868 GGCCAGAGACATGGTGAAGC 61.029 60.000 0.00 0.00 42.75 3.86
2247 2378 2.989840 GGAACCATTAGCTCGATCGATG 59.010 50.000 19.78 13.28 0.00 3.84
2248 2379 2.071688 ACCATTAGCTCGATCGATGC 57.928 50.000 19.78 22.04 0.00 3.91
2252 2383 2.140065 TTAGCTCGATCGATGCCTTG 57.860 50.000 25.62 13.60 0.00 3.61
2264 2395 0.179936 ATGCCTTGTCTCCAGCTAGC 59.820 55.000 6.62 6.62 0.00 3.42
2265 2396 1.194121 TGCCTTGTCTCCAGCTAGCA 61.194 55.000 18.83 0.00 0.00 3.49
2329 2460 6.415573 AGCTTAATTAGTCCCTTGTTGGTAG 58.584 40.000 0.00 0.00 0.00 3.18
2330 2461 6.012771 AGCTTAATTAGTCCCTTGTTGGTAGT 60.013 38.462 0.00 0.00 0.00 2.73
2331 2462 7.181485 AGCTTAATTAGTCCCTTGTTGGTAGTA 59.819 37.037 0.00 0.00 0.00 1.82
2332 2463 7.279536 GCTTAATTAGTCCCTTGTTGGTAGTAC 59.720 40.741 0.00 0.00 0.00 2.73
2427 2561 6.420913 TGTATACTAATTCAGGAAGCCCTC 57.579 41.667 4.17 0.00 42.02 4.30
2604 2758 6.146898 TCTTGCGCCTTTTTATACACTTTTC 58.853 36.000 4.18 0.00 0.00 2.29
2605 2759 5.699097 TGCGCCTTTTTATACACTTTTCT 57.301 34.783 4.18 0.00 0.00 2.52
2607 2761 5.009210 TGCGCCTTTTTATACACTTTTCTGT 59.991 36.000 4.18 0.00 0.00 3.41
2608 2762 6.205076 TGCGCCTTTTTATACACTTTTCTGTA 59.795 34.615 4.18 0.00 0.00 2.74
2609 2763 7.094549 TGCGCCTTTTTATACACTTTTCTGTAT 60.095 33.333 4.18 0.00 39.98 2.29
2639 2794 0.390340 CACCCTGAGACGTGATGTGG 60.390 60.000 0.00 0.00 31.36 4.17
2713 5024 0.181114 AAGAGAAGTGGTGCAGTGCA 59.819 50.000 15.37 15.37 35.60 4.57
2715 5026 0.250038 GAGAAGTGGTGCAGTGCAGA 60.250 55.000 20.42 5.20 40.08 4.26
2720 5031 2.360852 GGTGCAGTGCAGAGCCAT 60.361 61.111 20.42 0.00 40.08 4.40
2727 5038 2.479049 GCAGTGCAGAGCCATTGTTATG 60.479 50.000 11.09 0.00 0.00 1.90
2795 5141 8.599055 TGATAAACTTATCTTATCAGCAGCAG 57.401 34.615 10.11 0.00 39.63 4.24
2796 5142 8.424133 TGATAAACTTATCTTATCAGCAGCAGA 58.576 33.333 10.11 0.00 39.63 4.26
2797 5143 9.265901 GATAAACTTATCTTATCAGCAGCAGAA 57.734 33.333 0.00 0.00 37.23 3.02
2798 5144 6.917217 AACTTATCTTATCAGCAGCAGAAC 57.083 37.500 0.00 0.00 0.00 3.01
2799 5145 5.982356 ACTTATCTTATCAGCAGCAGAACA 58.018 37.500 0.00 0.00 0.00 3.18
2800 5146 6.047870 ACTTATCTTATCAGCAGCAGAACAG 58.952 40.000 0.00 0.00 0.00 3.16
2801 5147 4.750021 ATCTTATCAGCAGCAGAACAGA 57.250 40.909 0.00 0.00 0.00 3.41
2802 5148 4.120792 TCTTATCAGCAGCAGAACAGAG 57.879 45.455 0.00 0.00 0.00 3.35
2812 5158 1.724429 CAGAACAGAGCAGAAGAGCC 58.276 55.000 0.00 0.00 34.23 4.70
2820 5166 1.211190 GCAGAAGAGCCGCCTTTTG 59.789 57.895 7.39 7.39 33.08 2.44
2825 5171 3.752339 GAGCCGCCTTTTGCAGGG 61.752 66.667 0.00 0.00 44.16 4.45
2826 5172 4.284550 AGCCGCCTTTTGCAGGGA 62.285 61.111 6.63 0.00 44.16 4.20
2827 5173 3.070576 GCCGCCTTTTGCAGGGAT 61.071 61.111 6.63 0.00 44.16 3.85
2829 5175 2.713967 CCGCCTTTTGCAGGGATGG 61.714 63.158 6.63 4.00 44.16 3.51
2830 5176 1.678635 CGCCTTTTGCAGGGATGGA 60.679 57.895 6.63 0.00 44.16 3.41
2831 5177 1.039233 CGCCTTTTGCAGGGATGGAT 61.039 55.000 6.63 0.00 44.16 3.41
2832 5178 1.750332 CGCCTTTTGCAGGGATGGATA 60.750 52.381 6.63 0.00 44.16 2.59
2833 5179 2.601905 GCCTTTTGCAGGGATGGATAT 58.398 47.619 6.63 0.00 44.16 1.63
2834 5180 3.766545 GCCTTTTGCAGGGATGGATATA 58.233 45.455 6.63 0.00 44.16 0.86
2835 5181 4.347607 GCCTTTTGCAGGGATGGATATAT 58.652 43.478 6.63 0.00 44.16 0.86
2836 5182 4.159135 GCCTTTTGCAGGGATGGATATATG 59.841 45.833 6.63 0.00 44.16 1.78
2837 5183 4.159135 CCTTTTGCAGGGATGGATATATGC 59.841 45.833 0.00 0.00 39.39 3.14
2838 5184 4.662966 TTTGCAGGGATGGATATATGCT 57.337 40.909 5.77 0.00 34.80 3.79
2839 5185 3.920231 TGCAGGGATGGATATATGCTC 57.080 47.619 5.77 1.27 34.80 4.26
2852 5198 1.738346 TATGCTCTGCTCGCCATCGT 61.738 55.000 0.00 0.00 36.96 3.73
2858 5204 0.867753 CTGCTCGCCATCGTCAGTAC 60.868 60.000 0.00 0.00 34.94 2.73
2875 5221 7.628235 CGTCAGTACGTAGAGAAGATGAAATA 58.372 38.462 0.00 0.00 44.21 1.40
2877 5223 8.614346 GTCAGTACGTAGAGAAGATGAAATACT 58.386 37.037 0.00 0.00 0.00 2.12
2878 5224 8.828644 TCAGTACGTAGAGAAGATGAAATACTC 58.171 37.037 0.00 0.00 0.00 2.59
2879 5225 8.071368 CAGTACGTAGAGAAGATGAAATACTCC 58.929 40.741 0.00 0.00 0.00 3.85
2880 5226 6.062434 ACGTAGAGAAGATGAAATACTCCG 57.938 41.667 0.00 0.00 0.00 4.63
2886 5232 8.749026 AGAGAAGATGAAATACTCCGTACTAA 57.251 34.615 0.00 0.00 0.00 2.24
2936 5282 0.808755 CCGTCCCTGTAACAAATGCC 59.191 55.000 0.00 0.00 0.00 4.40
2955 5301 0.389817 CTTCTGTTCATCACGCCCGA 60.390 55.000 0.00 0.00 0.00 5.14
2956 5302 0.034198 TTCTGTTCATCACGCCCGAA 59.966 50.000 0.00 0.00 0.00 4.30
2957 5303 0.034198 TCTGTTCATCACGCCCGAAA 59.966 50.000 0.00 0.00 0.00 3.46
2958 5304 1.086696 CTGTTCATCACGCCCGAAAT 58.913 50.000 0.00 0.00 0.00 2.17
2959 5305 1.468520 CTGTTCATCACGCCCGAAATT 59.531 47.619 0.00 0.00 0.00 1.82
2960 5306 1.883275 TGTTCATCACGCCCGAAATTT 59.117 42.857 0.00 0.00 0.00 1.82
2961 5307 2.250188 GTTCATCACGCCCGAAATTTG 58.750 47.619 0.00 0.00 0.00 2.32
2962 5308 1.814793 TCATCACGCCCGAAATTTGA 58.185 45.000 0.00 0.00 0.00 2.69
2963 5309 2.155279 TCATCACGCCCGAAATTTGAA 58.845 42.857 0.00 0.00 0.00 2.69
2964 5310 2.752354 TCATCACGCCCGAAATTTGAAT 59.248 40.909 0.00 0.00 0.00 2.57
2965 5311 3.192422 TCATCACGCCCGAAATTTGAATT 59.808 39.130 0.00 0.00 0.00 2.17
2966 5312 3.210358 TCACGCCCGAAATTTGAATTC 57.790 42.857 0.00 0.00 0.00 2.17
2967 5313 1.910819 CACGCCCGAAATTTGAATTCG 59.089 47.619 0.00 1.93 46.86 3.34
2972 5318 1.544686 CGAAATTTGAATTCGGGCCG 58.455 50.000 22.51 22.51 44.36 6.13
2973 5319 1.277326 GAAATTTGAATTCGGGCCGC 58.723 50.000 23.83 7.83 0.00 6.53
2974 5320 0.605589 AAATTTGAATTCGGGCCGCA 59.394 45.000 23.83 12.24 0.00 5.69
2975 5321 0.605589 AATTTGAATTCGGGCCGCAA 59.394 45.000 23.83 16.89 0.00 4.85
2976 5322 0.173255 ATTTGAATTCGGGCCGCAAG 59.827 50.000 23.83 0.00 0.00 4.01
2988 5334 4.526152 CGCAAGGCAAACGGTAAC 57.474 55.556 0.00 0.00 0.00 2.50
2989 5335 1.649815 CGCAAGGCAAACGGTAACA 59.350 52.632 0.00 0.00 0.00 2.41
2990 5336 0.239879 CGCAAGGCAAACGGTAACAT 59.760 50.000 0.00 0.00 0.00 2.71
2991 5337 1.696988 GCAAGGCAAACGGTAACATG 58.303 50.000 0.00 0.00 0.00 3.21
2992 5338 1.696988 CAAGGCAAACGGTAACATGC 58.303 50.000 0.00 0.00 38.99 4.06
2993 5339 1.000827 CAAGGCAAACGGTAACATGCA 60.001 47.619 0.00 0.00 40.81 3.96
2994 5340 1.323412 AGGCAAACGGTAACATGCAA 58.677 45.000 0.00 0.00 40.81 4.08
2995 5341 1.683917 AGGCAAACGGTAACATGCAAA 59.316 42.857 0.00 0.00 40.81 3.68
2996 5342 2.058057 GGCAAACGGTAACATGCAAAG 58.942 47.619 0.00 0.00 40.81 2.77
2997 5343 2.058057 GCAAACGGTAACATGCAAAGG 58.942 47.619 0.00 0.00 39.37 3.11
2998 5344 2.544903 GCAAACGGTAACATGCAAAGGT 60.545 45.455 0.00 0.00 39.37 3.50
2999 5345 3.049206 CAAACGGTAACATGCAAAGGTG 58.951 45.455 0.00 0.00 0.00 4.00
3016 5362 2.105006 GTGCATGTCACCTGATCTGT 57.895 50.000 8.54 0.00 39.79 3.41
3017 5363 1.736126 GTGCATGTCACCTGATCTGTG 59.264 52.381 9.00 9.00 39.79 3.66
3018 5364 1.348696 TGCATGTCACCTGATCTGTGT 59.651 47.619 13.35 2.86 35.25 3.72
3019 5365 2.005451 GCATGTCACCTGATCTGTGTC 58.995 52.381 13.35 9.78 35.25 3.67
3051 5397 1.652124 CACAACACGTATCGTACAGGC 59.348 52.381 0.00 0.00 38.32 4.85
3098 5444 2.171870 GGTGGGTGGTTGCTAGCTAATA 59.828 50.000 17.23 0.00 0.00 0.98
3100 5446 3.112263 TGGGTGGTTGCTAGCTAATACT 58.888 45.455 17.23 0.00 0.00 2.12
3101 5447 3.118408 TGGGTGGTTGCTAGCTAATACTG 60.118 47.826 17.23 0.00 0.00 2.74
3104 5450 5.048507 GGTGGTTGCTAGCTAATACTGTAC 58.951 45.833 17.23 9.11 0.00 2.90
3106 5452 6.040166 GGTGGTTGCTAGCTAATACTGTACTA 59.960 42.308 17.23 0.00 0.00 1.82
3107 5453 6.916932 GTGGTTGCTAGCTAATACTGTACTAC 59.083 42.308 17.23 0.00 0.00 2.73
3109 5455 7.140048 GGTTGCTAGCTAATACTGTACTACTG 58.860 42.308 17.23 0.00 0.00 2.74
3110 5456 7.013083 GGTTGCTAGCTAATACTGTACTACTGA 59.987 40.741 17.23 0.00 0.00 3.41
3230 5910 1.062525 GCCGCCAATTTCGCAGTAG 59.937 57.895 0.00 0.00 0.00 2.57
3231 5911 1.062525 CCGCCAATTTCGCAGTAGC 59.937 57.895 0.00 0.00 37.42 3.58
3232 5912 1.369091 CCGCCAATTTCGCAGTAGCT 61.369 55.000 0.00 0.00 39.10 3.32
3237 5917 4.037690 GCCAATTTCGCAGTAGCTTTATG 58.962 43.478 0.00 0.00 39.10 1.90
3253 5942 2.008242 TATGGGTTTTGCCAGCTTGT 57.992 45.000 0.00 0.00 39.65 3.16
3254 5943 0.681175 ATGGGTTTTGCCAGCTTGTC 59.319 50.000 0.00 0.00 39.65 3.18
3256 5945 1.661509 GGTTTTGCCAGCTTGTCGC 60.662 57.895 0.00 0.00 37.17 5.19
3293 5982 4.270153 TCCAGCCCAGGGTGAGGT 62.270 66.667 17.32 0.00 45.42 3.85
3377 6088 1.407979 ACACCATACGGACGGATCTTC 59.592 52.381 0.00 0.00 35.59 2.87
3382 6093 0.729116 TACGGACGGATCTTCGTGTC 59.271 55.000 1.55 0.00 43.96 3.67
3399 6110 2.254350 CGGTCTGTCACGCGAGAA 59.746 61.111 15.93 0.34 0.00 2.87
3404 6115 0.168348 TCTGTCACGCGAGAAGCTAC 59.832 55.000 15.93 0.00 45.59 3.58
3405 6116 1.128724 CTGTCACGCGAGAAGCTACG 61.129 60.000 15.93 0.00 45.59 3.51
3406 6117 1.868251 GTCACGCGAGAAGCTACGG 60.868 63.158 15.93 3.59 45.59 4.02
3407 6118 3.248171 CACGCGAGAAGCTACGGC 61.248 66.667 15.93 0.48 45.59 5.68
3423 6144 1.234615 CGGCACCCAACAGATCGTTT 61.235 55.000 1.02 0.00 34.86 3.60
3426 6147 1.508632 CACCCAACAGATCGTTTCGT 58.491 50.000 1.02 0.00 34.86 3.85
3427 6148 1.459592 CACCCAACAGATCGTTTCGTC 59.540 52.381 1.02 0.00 34.86 4.20
3458 6179 4.751431 CCAAGGAAGGGAAGCCAG 57.249 61.111 0.00 0.00 0.00 4.85
3483 6204 2.106683 GTCGCCGGTGGAATCTTGG 61.107 63.158 16.49 0.00 0.00 3.61
3484 6205 2.824041 CGCCGGTGGAATCTTGGG 60.824 66.667 7.26 0.00 0.00 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
372 373 2.230266 GCCTAACATCAAAAGCCGGAAA 59.770 45.455 5.05 0.00 0.00 3.13
592 594 6.987992 GGTAGATGGATACTCTAGGTAGATCG 59.012 46.154 0.00 0.00 33.51 3.69
593 595 8.097791 AGGTAGATGGATACTCTAGGTAGATC 57.902 42.308 0.00 0.00 33.51 2.75
594 596 8.471302 AAGGTAGATGGATACTCTAGGTAGAT 57.529 38.462 0.00 0.00 33.51 1.98
595 597 7.516557 TGAAGGTAGATGGATACTCTAGGTAGA 59.483 40.741 0.00 0.00 33.51 2.59
596 598 7.691213 TGAAGGTAGATGGATACTCTAGGTAG 58.309 42.308 0.00 0.00 33.51 3.18
597 599 7.643612 TGAAGGTAGATGGATACTCTAGGTA 57.356 40.000 0.00 0.00 37.61 3.08
598 600 6.532119 TGAAGGTAGATGGATACTCTAGGT 57.468 41.667 0.00 0.00 37.61 3.08
599 601 7.178573 TGATGAAGGTAGATGGATACTCTAGG 58.821 42.308 0.00 0.00 37.61 3.02
600 602 8.821686 ATGATGAAGGTAGATGGATACTCTAG 57.178 38.462 0.00 0.00 37.61 2.43
601 603 8.619281 AGATGATGAAGGTAGATGGATACTCTA 58.381 37.037 0.00 0.00 37.61 2.43
602 604 7.477864 AGATGATGAAGGTAGATGGATACTCT 58.522 38.462 0.00 0.00 37.61 3.24
603 605 7.716799 AGATGATGAAGGTAGATGGATACTC 57.283 40.000 0.00 0.00 37.61 2.59
604 606 7.838696 CCTAGATGATGAAGGTAGATGGATACT 59.161 40.741 0.00 0.00 37.61 2.12
605 607 7.417342 GCCTAGATGATGAAGGTAGATGGATAC 60.417 44.444 0.00 0.00 32.67 2.24
630 632 3.871485 CTCAAGGGCTATCCATCTATGC 58.129 50.000 0.00 0.00 38.24 3.14
631 633 3.370315 GGCTCAAGGGCTATCCATCTATG 60.370 52.174 0.00 0.00 38.24 2.23
638 640 0.466372 GGTTGGCTCAAGGGCTATCC 60.466 60.000 0.00 0.00 41.48 2.59
642 644 2.551413 ATGGGTTGGCTCAAGGGCT 61.551 57.895 0.00 0.00 41.48 5.19
651 657 0.394762 TCATCAGCTCATGGGTTGGC 60.395 55.000 9.78 0.00 0.00 4.52
653 659 2.014857 CACTCATCAGCTCATGGGTTG 58.985 52.381 0.00 2.43 35.08 3.77
668 674 1.836391 CCTTGGTGTGGGTCACTCA 59.164 57.895 0.00 0.00 45.50 3.41
669 675 1.600916 GCCTTGGTGTGGGTCACTC 60.601 63.158 0.00 0.00 45.50 3.51
670 676 2.515901 GCCTTGGTGTGGGTCACT 59.484 61.111 0.00 0.00 45.50 3.41
671 677 2.597510 GGCCTTGGTGTGGGTCAC 60.598 66.667 0.00 0.00 45.47 3.67
757 774 2.682136 TGCCGCTGTGTAGGGCTA 60.682 61.111 2.72 0.00 46.97 3.93
758 775 4.087892 CTGCCGCTGTGTAGGGCT 62.088 66.667 2.72 0.00 46.97 5.19
762 779 0.523072 AAAATGCTGCCGCTGTGTAG 59.477 50.000 0.70 0.00 36.97 2.74
763 780 0.958091 AAAAATGCTGCCGCTGTGTA 59.042 45.000 0.70 0.00 36.97 2.90
771 791 4.874966 TGCAAACCATATAAAAATGCTGCC 59.125 37.500 0.00 0.00 33.66 4.85
822 842 8.977505 TGTATTTTGCTCTGCTGTTTTTAATTC 58.022 29.630 0.00 0.00 0.00 2.17
904 933 3.414136 TATGGCATGGGTGGGACGC 62.414 63.158 10.98 0.00 38.67 5.19
908 937 1.823470 CGTGTATGGCATGGGTGGG 60.823 63.158 10.98 0.00 0.00 4.61
935 964 2.042537 AGAGATCCCAGCGGCAGA 60.043 61.111 1.45 0.00 0.00 4.26
950 984 5.163390 GGGGATTTATAGGAAGGAAGGAGA 58.837 45.833 0.00 0.00 0.00 3.71
951 985 4.289934 GGGGGATTTATAGGAAGGAAGGAG 59.710 50.000 0.00 0.00 0.00 3.69
952 986 4.248652 GGGGGATTTATAGGAAGGAAGGA 58.751 47.826 0.00 0.00 0.00 3.36
953 987 4.659529 GGGGGATTTATAGGAAGGAAGG 57.340 50.000 0.00 0.00 0.00 3.46
1012 1046 2.945080 ACTGATGCTATGATGGGTGG 57.055 50.000 0.00 0.00 0.00 4.61
1013 1047 4.067896 GGTAACTGATGCTATGATGGGTG 58.932 47.826 0.00 0.00 0.00 4.61
1014 1048 3.716353 TGGTAACTGATGCTATGATGGGT 59.284 43.478 0.00 0.00 37.61 4.51
1462 1515 2.671963 GGGCGGAAGTTGGTGACC 60.672 66.667 0.00 0.00 0.00 4.02
1762 1851 1.743252 CAGCGGGAAGTGCTTCTCC 60.743 63.158 11.18 9.65 41.72 3.71
1992 2093 2.161808 CAGTCAATGAAGAGCTTGCTGG 59.838 50.000 0.00 0.00 0.00 4.85
2083 2196 1.002366 CGAAGATTCTCACGGCCTTG 58.998 55.000 1.99 1.99 0.00 3.61
2188 2319 3.003482 CCAGCTCTATGCATTGCTTCTTC 59.997 47.826 3.54 0.00 45.94 2.87
2231 2362 2.360553 AGGCATCGATCGAGCTAATG 57.639 50.000 26.98 20.03 0.00 1.90
2247 2378 0.461693 CTGCTAGCTGGAGACAAGGC 60.462 60.000 17.23 0.00 42.06 4.35
2248 2379 0.461693 GCTGCTAGCTGGAGACAAGG 60.462 60.000 21.46 0.00 42.06 3.61
2252 2383 2.105930 CCGCTGCTAGCTGGAGAC 59.894 66.667 21.46 5.47 39.60 3.36
2264 2395 2.429069 GAGCAAAAACCGCCGCTG 60.429 61.111 0.00 0.00 34.12 5.18
2265 2396 4.025401 CGAGCAAAAACCGCCGCT 62.025 61.111 0.00 0.00 37.44 5.52
2427 2561 3.357166 ACGATCTAAAGCTAGCCTTCG 57.643 47.619 12.13 13.00 31.99 3.79
2555 2709 3.260884 AGAAGCTAGGTCAAAATGGACGA 59.739 43.478 0.00 0.00 38.70 4.20
2604 2758 6.992123 TCTCAGGGTGTGCATATAAAATACAG 59.008 38.462 0.00 0.00 0.00 2.74
2605 2759 6.765989 GTCTCAGGGTGTGCATATAAAATACA 59.234 38.462 0.00 0.00 0.00 2.29
2607 2761 5.989168 CGTCTCAGGGTGTGCATATAAAATA 59.011 40.000 0.00 0.00 0.00 1.40
2608 2762 4.816385 CGTCTCAGGGTGTGCATATAAAAT 59.184 41.667 0.00 0.00 0.00 1.82
2609 2763 4.188462 CGTCTCAGGGTGTGCATATAAAA 58.812 43.478 0.00 0.00 0.00 1.52
2720 5031 1.246737 TGTGCATGCGGCCATAACAA 61.247 50.000 14.09 0.00 43.89 2.83
2785 5131 0.323957 TGCTCTGTTCTGCTGCTGAT 59.676 50.000 10.09 0.00 0.00 2.90
2786 5132 0.320508 CTGCTCTGTTCTGCTGCTGA 60.321 55.000 5.03 5.03 0.00 4.26
2787 5133 0.320508 TCTGCTCTGTTCTGCTGCTG 60.321 55.000 0.00 0.00 0.00 4.41
2788 5134 0.395686 TTCTGCTCTGTTCTGCTGCT 59.604 50.000 0.00 0.00 0.00 4.24
2789 5135 0.797542 CTTCTGCTCTGTTCTGCTGC 59.202 55.000 0.00 0.00 0.00 5.25
2790 5136 2.339418 CTCTTCTGCTCTGTTCTGCTG 58.661 52.381 0.00 0.00 0.00 4.41
2791 5137 1.338011 GCTCTTCTGCTCTGTTCTGCT 60.338 52.381 0.00 0.00 0.00 4.24
2792 5138 1.077915 GCTCTTCTGCTCTGTTCTGC 58.922 55.000 0.00 0.00 0.00 4.26
2793 5139 1.724429 GGCTCTTCTGCTCTGTTCTG 58.276 55.000 0.00 0.00 0.00 3.02
2794 5140 0.246086 CGGCTCTTCTGCTCTGTTCT 59.754 55.000 0.00 0.00 0.00 3.01
2795 5141 1.357991 GCGGCTCTTCTGCTCTGTTC 61.358 60.000 0.00 0.00 43.74 3.18
2796 5142 1.375268 GCGGCTCTTCTGCTCTGTT 60.375 57.895 0.00 0.00 43.74 3.16
2797 5143 2.264166 GCGGCTCTTCTGCTCTGT 59.736 61.111 0.00 0.00 43.74 3.41
2798 5144 2.511145 GGCGGCTCTTCTGCTCTG 60.511 66.667 0.00 0.00 46.32 3.35
2799 5145 1.835927 AAAGGCGGCTCTTCTGCTCT 61.836 55.000 13.70 0.00 46.32 4.09
2800 5146 0.957888 AAAAGGCGGCTCTTCTGCTC 60.958 55.000 13.70 0.00 46.32 4.26
2801 5147 1.073897 AAAAGGCGGCTCTTCTGCT 59.926 52.632 13.70 0.00 46.32 4.24
2802 5148 1.211190 CAAAAGGCGGCTCTTCTGC 59.789 57.895 13.70 0.00 46.38 4.26
2820 5166 3.806380 CAGAGCATATATCCATCCCTGC 58.194 50.000 0.00 0.00 0.00 4.85
2825 5171 3.122297 GCGAGCAGAGCATATATCCATC 58.878 50.000 0.00 0.00 34.19 3.51
2826 5172 2.158986 GGCGAGCAGAGCATATATCCAT 60.159 50.000 0.00 0.00 36.08 3.41
2827 5173 1.205655 GGCGAGCAGAGCATATATCCA 59.794 52.381 0.00 0.00 36.08 3.41
2829 5175 2.662006 TGGCGAGCAGAGCATATATC 57.338 50.000 0.00 0.00 36.08 1.63
2830 5176 2.480932 CGATGGCGAGCAGAGCATATAT 60.481 50.000 0.00 0.00 40.82 0.86
2831 5177 1.135286 CGATGGCGAGCAGAGCATATA 60.135 52.381 0.00 0.00 40.82 0.86
2832 5178 0.389556 CGATGGCGAGCAGAGCATAT 60.390 55.000 0.00 0.00 40.82 1.78
2833 5179 1.006922 CGATGGCGAGCAGAGCATA 60.007 57.895 0.00 0.00 40.82 3.14
2834 5180 2.279985 CGATGGCGAGCAGAGCAT 60.280 61.111 0.00 0.00 40.82 3.79
2835 5181 3.706563 GACGATGGCGAGCAGAGCA 62.707 63.158 0.00 0.00 41.64 4.26
2836 5182 2.959071 GACGATGGCGAGCAGAGC 60.959 66.667 0.00 0.00 41.64 4.09
2837 5183 1.588403 CTGACGATGGCGAGCAGAG 60.588 63.158 0.00 0.00 41.94 3.35
2838 5184 1.029947 TACTGACGATGGCGAGCAGA 61.030 55.000 15.37 0.00 41.94 4.26
2839 5185 0.867753 GTACTGACGATGGCGAGCAG 60.868 60.000 0.00 0.00 43.53 4.24
2852 5198 8.734218 AGTATTTCATCTTCTCTACGTACTGA 57.266 34.615 0.00 0.00 0.00 3.41
2858 5204 6.062434 ACGGAGTATTTCATCTTCTCTACG 57.938 41.667 0.00 0.00 41.94 3.51
2877 5223 7.558807 TGTTTTCCTCAGATCTATTAGTACGGA 59.441 37.037 0.00 0.00 0.00 4.69
2878 5224 7.713750 TGTTTTCCTCAGATCTATTAGTACGG 58.286 38.462 0.00 0.00 0.00 4.02
2879 5225 9.582431 TTTGTTTTCCTCAGATCTATTAGTACG 57.418 33.333 0.00 0.00 0.00 3.67
2908 5254 0.981183 TACAGGGACGGTGCATTTCT 59.019 50.000 1.14 0.00 37.32 2.52
2918 5264 1.821216 AGGCATTTGTTACAGGGACG 58.179 50.000 0.00 0.00 0.00 4.79
2936 5282 0.389817 TCGGGCGTGATGAACAGAAG 60.390 55.000 0.00 0.00 0.00 2.85
2955 5301 0.605589 TGCGGCCCGAATTCAAATTT 59.394 45.000 7.68 0.00 0.00 1.82
2956 5302 0.605589 TTGCGGCCCGAATTCAAATT 59.394 45.000 7.68 0.00 0.00 1.82
2957 5303 0.173255 CTTGCGGCCCGAATTCAAAT 59.827 50.000 7.68 0.00 0.00 2.32
2958 5304 1.583986 CTTGCGGCCCGAATTCAAA 59.416 52.632 7.68 0.00 0.00 2.69
2959 5305 2.339556 CCTTGCGGCCCGAATTCAA 61.340 57.895 7.68 0.00 0.00 2.69
2960 5306 2.749839 CCTTGCGGCCCGAATTCA 60.750 61.111 7.68 0.00 0.00 2.57
2971 5317 0.239879 ATGTTACCGTTTGCCTTGCG 59.760 50.000 0.00 0.00 0.00 4.85
2972 5318 1.696988 CATGTTACCGTTTGCCTTGC 58.303 50.000 0.00 0.00 0.00 4.01
2973 5319 1.000827 TGCATGTTACCGTTTGCCTTG 60.001 47.619 0.00 0.00 34.20 3.61
2974 5320 1.323412 TGCATGTTACCGTTTGCCTT 58.677 45.000 0.00 0.00 34.20 4.35
2975 5321 1.323412 TTGCATGTTACCGTTTGCCT 58.677 45.000 0.00 0.00 34.20 4.75
2976 5322 2.058057 CTTTGCATGTTACCGTTTGCC 58.942 47.619 0.00 0.00 34.20 4.52
2977 5323 2.058057 CCTTTGCATGTTACCGTTTGC 58.942 47.619 0.00 0.00 35.67 3.68
2978 5324 3.049206 CACCTTTGCATGTTACCGTTTG 58.951 45.455 0.00 0.00 0.00 2.93
2979 5325 3.363341 CACCTTTGCATGTTACCGTTT 57.637 42.857 0.00 0.00 0.00 3.60
2997 5343 1.736126 CACAGATCAGGTGACATGCAC 59.264 52.381 10.99 10.63 46.98 4.57
2998 5344 1.348696 ACACAGATCAGGTGACATGCA 59.651 47.619 20.35 0.00 39.53 3.96
2999 5345 2.005451 GACACAGATCAGGTGACATGC 58.995 52.381 20.35 4.76 39.53 4.06
3000 5346 3.323751 TGACACAGATCAGGTGACATG 57.676 47.619 20.35 0.00 39.53 3.21
3001 5347 3.370209 CCATGACACAGATCAGGTGACAT 60.370 47.826 20.87 20.87 46.94 3.06
3002 5348 2.027837 CCATGACACAGATCAGGTGACA 60.028 50.000 20.35 19.60 43.00 3.58
3003 5349 2.234661 TCCATGACACAGATCAGGTGAC 59.765 50.000 20.35 15.57 39.53 3.67
3004 5350 2.539302 TCCATGACACAGATCAGGTGA 58.461 47.619 20.35 3.65 39.53 4.02
3005 5351 3.555527 ATCCATGACACAGATCAGGTG 57.444 47.619 13.98 13.98 41.95 4.00
3006 5352 3.070734 GCTATCCATGACACAGATCAGGT 59.929 47.826 0.00 0.00 30.46 4.00
3007 5353 3.070590 TGCTATCCATGACACAGATCAGG 59.929 47.826 0.00 0.00 30.46 3.86
3008 5354 4.332428 TGCTATCCATGACACAGATCAG 57.668 45.455 0.00 0.00 30.46 2.90
3009 5355 4.080975 TGTTGCTATCCATGACACAGATCA 60.081 41.667 0.00 0.00 0.00 2.92
3010 5356 4.272018 GTGTTGCTATCCATGACACAGATC 59.728 45.833 6.69 0.00 40.12 2.75
3011 5357 4.194640 GTGTTGCTATCCATGACACAGAT 58.805 43.478 6.69 0.00 40.12 2.90
3012 5358 3.007831 TGTGTTGCTATCCATGACACAGA 59.992 43.478 9.49 0.00 43.82 3.41
3013 5359 3.337358 TGTGTTGCTATCCATGACACAG 58.663 45.455 9.49 0.00 43.82 3.66
3014 5360 3.415457 TGTGTTGCTATCCATGACACA 57.585 42.857 9.49 9.49 45.73 3.72
3015 5361 3.501828 TGTTGTGTTGCTATCCATGACAC 59.498 43.478 0.00 0.00 40.62 3.67
3016 5362 3.501828 GTGTTGTGTTGCTATCCATGACA 59.498 43.478 0.00 0.00 0.00 3.58
3017 5363 3.424829 CGTGTTGTGTTGCTATCCATGAC 60.425 47.826 0.00 0.00 0.00 3.06
3018 5364 2.741517 CGTGTTGTGTTGCTATCCATGA 59.258 45.455 0.00 0.00 0.00 3.07
3019 5365 2.483877 ACGTGTTGTGTTGCTATCCATG 59.516 45.455 0.00 0.00 0.00 3.66
3076 5422 1.895020 TAGCTAGCAACCACCCACCG 61.895 60.000 18.83 0.00 0.00 4.94
3106 5452 1.278238 GCGTGCGCTACTATTTCAGT 58.722 50.000 9.73 0.00 41.62 3.41
3107 5453 1.256376 CTGCGTGCGCTACTATTTCAG 59.744 52.381 17.49 1.00 42.51 3.02
3109 5455 1.518929 CTCTGCGTGCGCTACTATTTC 59.481 52.381 17.49 0.00 42.51 2.17
3110 5456 1.560923 CTCTGCGTGCGCTACTATTT 58.439 50.000 17.49 0.00 42.51 1.40
3216 5896 4.498009 CCCATAAAGCTACTGCGAAATTGG 60.498 45.833 0.00 0.00 45.42 3.16
3230 5910 1.276138 AGCTGGCAAAACCCATAAAGC 59.724 47.619 0.00 0.00 37.83 3.51
3231 5911 3.244181 ACAAGCTGGCAAAACCCATAAAG 60.244 43.478 0.00 0.00 37.83 1.85
3232 5912 2.703007 ACAAGCTGGCAAAACCCATAAA 59.297 40.909 0.00 0.00 37.83 1.40
3237 5917 1.007387 CGACAAGCTGGCAAAACCC 60.007 57.895 0.00 0.00 37.83 4.11
3282 5971 2.369394 GCAAAATCTACCTCACCCTGG 58.631 52.381 0.00 0.00 0.00 4.45
3382 6093 1.797933 CTTCTCGCGTGACAGACCG 60.798 63.158 10.88 0.00 0.00 4.79
3399 6110 1.553690 ATCTGTTGGGTGCCGTAGCT 61.554 55.000 0.00 0.00 40.80 3.32
3404 6115 1.234615 AAACGATCTGTTGGGTGCCG 61.235 55.000 0.00 0.00 40.84 5.69
3405 6116 0.521735 GAAACGATCTGTTGGGTGCC 59.478 55.000 0.00 0.00 40.84 5.01
3406 6117 0.165944 CGAAACGATCTGTTGGGTGC 59.834 55.000 0.00 0.00 40.84 5.01
3407 6118 1.459592 GACGAAACGATCTGTTGGGTG 59.540 52.381 0.00 0.00 40.84 4.61
3442 6163 2.042831 CGCTGGCTTCCCTTCCTTG 61.043 63.158 0.00 0.00 0.00 3.61


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

AutoCloner maintained by Alex Coulton.