Multiple sequence alignment - TraesCS2A01G405100

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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 TraesCS2A01G405100 chr2A 100.000 4124 0 0 1 4124 661080711 661084834 0.000000e+00 7616.0
1 TraesCS2A01G405100 chr2A 79.386 1499 178 77 1146 2543 661394536 661396004 0.000000e+00 935.0
2 TraesCS2A01G405100 chr2A 80.500 1200 169 31 1892 3082 661152434 661153577 0.000000e+00 859.0
3 TraesCS2A01G405100 chr2A 85.172 580 68 9 1968 2543 661448236 661448801 2.760000e-161 579.0
4 TraesCS2A01G405100 chr2A 79.592 490 69 14 2597 3082 661448857 661449319 5.140000e-84 322.0
5 TraesCS2A01G405100 chr2A 87.006 177 20 2 2611 2787 661396102 661396275 3.250000e-46 196.0
6 TraesCS2A01G405100 chr2A 81.081 74 11 2 2820 2892 661396335 661396406 5.760000e-04 56.5
7 TraesCS2A01G405100 chr2B 92.604 2515 109 18 917 3381 608539784 608542271 0.000000e+00 3542.0
8 TraesCS2A01G405100 chr2B 90.596 872 48 11 1 853 608538628 608539484 0.000000e+00 1125.0
9 TraesCS2A01G405100 chr2B 95.398 565 23 3 3562 4124 608542386 608542949 0.000000e+00 896.0
10 TraesCS2A01G405100 chr2B 80.917 1200 163 39 1892 3082 608668029 608669171 0.000000e+00 887.0
11 TraesCS2A01G405100 chr2B 83.309 683 70 24 1892 2543 608802741 608803410 1.280000e-164 590.0
12 TraesCS2A01G405100 chr2B 79.326 682 71 28 1146 1778 608801994 608802654 8.250000e-112 414.0
13 TraesCS2A01G405100 chr2B 84.103 195 27 3 2594 2787 608803500 608803691 7.040000e-43 185.0
14 TraesCS2A01G405100 chr2B 90.370 135 11 1 3397 3531 608542257 608542389 4.240000e-40 176.0
15 TraesCS2A01G405100 chr2B 88.235 51 2 4 3661 3707 437938178 437938128 1.600000e-04 58.4
16 TraesCS2A01G405100 chr2D 93.939 2178 93 12 933 3100 516862211 516864359 0.000000e+00 3254.0
17 TraesCS2A01G405100 chr2D 90.839 775 46 15 55 821 516861168 516861925 0.000000e+00 1014.0
18 TraesCS2A01G405100 chr2D 80.747 1205 168 33 1892 3082 516925490 516926644 0.000000e+00 881.0
19 TraesCS2A01G405100 chr2D 85.269 577 63 6 1968 2543 517087283 517087838 3.580000e-160 575.0
20 TraesCS2A01G405100 chr2D 90.654 428 31 5 3399 3826 516864663 516865081 1.000000e-155 560.0
21 TraesCS2A01G405100 chr2D 77.706 924 112 44 1057 1904 517086255 517087160 2.880000e-131 479.0
22 TraesCS2A01G405100 chr2D 95.638 298 10 3 3086 3381 516864378 516864674 3.730000e-130 475.0
23 TraesCS2A01G405100 chr2D 83.712 528 60 16 1892 2400 517038218 517038738 3.730000e-130 475.0
24 TraesCS2A01G405100 chr2D 84.091 264 39 2 2820 3082 517045911 517046172 6.840000e-63 252.0
25 TraesCS2A01G405100 chr2D 91.954 174 11 3 3952 4124 516866431 516866602 1.480000e-59 241.0
26 TraesCS2A01G405100 chr2D 86.598 194 23 2 2594 2787 517045661 517045851 1.160000e-50 211.0
27 TraesCS2A01G405100 chr2D 90.551 127 11 1 2418 2543 517045445 517045571 2.550000e-37 167.0
28 TraesCS2A01G405100 chr2D 93.750 96 5 1 3859 3953 516866301 516866396 4.300000e-30 143.0
29 TraesCS2A01G405100 chr1B 89.880 919 69 7 1010 1919 676246643 676247546 0.000000e+00 1160.0
30 TraesCS2A01G405100 chr1B 89.947 567 43 4 1010 1572 491697443 491697999 0.000000e+00 719.0
31 TraesCS2A01G405100 chr1B 88.797 241 19 1 1563 1795 491699549 491699789 5.220000e-74 289.0
32 TraesCS2A01G405100 chr1B 97.222 36 1 0 59 94 668929094 668929059 1.240000e-05 62.1
33 TraesCS2A01G405100 chr5A 89.350 892 71 7 1010 1892 419361107 419361983 0.000000e+00 1099.0
34 TraesCS2A01G405100 chr5A 84.564 149 17 5 3975 4121 7681529 7681385 4.300000e-30 143.0
35 TraesCS2A01G405100 chr5A 86.885 61 2 6 3664 3719 255924649 255924708 3.440000e-06 63.9
36 TraesCS2A01G405100 chr5A 86.885 61 2 6 3664 3719 582549625 582549684 3.440000e-06 63.9
37 TraesCS2A01G405100 chr4A 89.792 578 43 4 1010 1584 541336971 541336407 0.000000e+00 726.0
38 TraesCS2A01G405100 chr4A 90.596 319 21 6 1607 1919 541336410 541336095 8.250000e-112 414.0
39 TraesCS2A01G405100 chr4A 89.583 48 5 0 88 135 58548101 58548054 1.240000e-05 62.1
40 TraesCS2A01G405100 chr7B 88.320 488 49 3 1438 1919 541490096 541490581 2.760000e-161 579.0
41 TraesCS2A01G405100 chr7A 77.117 437 65 23 3721 4124 83301062 83300628 1.930000e-53 220.0
42 TraesCS2A01G405100 chr6B 87.349 166 20 1 3960 4124 684145862 684145697 5.440000e-44 189.0
43 TraesCS2A01G405100 chr6B 90.909 44 4 0 52 95 30251580 30251537 4.450000e-05 60.2
44 TraesCS2A01G405100 chr5D 85.526 152 20 2 3972 4121 9549807 9549656 1.530000e-34 158.0
45 TraesCS2A01G405100 chr1D 81.707 164 18 7 3962 4124 6412472 6412624 4.330000e-25 126.0
46 TraesCS2A01G405100 chr6A 89.091 55 0 6 3670 3719 390364832 390364779 3.440000e-06 63.9
47 TraesCS2A01G405100 chr7D 86.885 61 1 7 3665 3719 623409372 623409313 1.240000e-05 62.1
48 TraesCS2A01G405100 chr3A 100.000 29 0 0 3670 3698 479194867 479194839 2.000000e-03 54.7


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 TraesCS2A01G405100 chr2A 661080711 661084834 4123 False 7616.000000 7616 100.000000 1 4124 1 chr2A.!!$F1 4123
1 TraesCS2A01G405100 chr2A 661152434 661153577 1143 False 859.000000 859 80.500000 1892 3082 1 chr2A.!!$F2 1190
2 TraesCS2A01G405100 chr2A 661448236 661449319 1083 False 450.500000 579 82.382000 1968 3082 2 chr2A.!!$F4 1114
3 TraesCS2A01G405100 chr2A 661394536 661396406 1870 False 395.833333 935 82.491000 1146 2892 3 chr2A.!!$F3 1746
4 TraesCS2A01G405100 chr2B 608538628 608542949 4321 False 1434.750000 3542 92.242000 1 4124 4 chr2B.!!$F2 4123
5 TraesCS2A01G405100 chr2B 608668029 608669171 1142 False 887.000000 887 80.917000 1892 3082 1 chr2B.!!$F1 1190
6 TraesCS2A01G405100 chr2B 608801994 608803691 1697 False 396.333333 590 82.246000 1146 2787 3 chr2B.!!$F3 1641
7 TraesCS2A01G405100 chr2D 516861168 516866602 5434 False 947.833333 3254 92.795667 55 4124 6 chr2D.!!$F3 4069
8 TraesCS2A01G405100 chr2D 516925490 516926644 1154 False 881.000000 881 80.747000 1892 3082 1 chr2D.!!$F1 1190
9 TraesCS2A01G405100 chr2D 517086255 517087838 1583 False 527.000000 575 81.487500 1057 2543 2 chr2D.!!$F5 1486
10 TraesCS2A01G405100 chr2D 517038218 517038738 520 False 475.000000 475 83.712000 1892 2400 1 chr2D.!!$F2 508
11 TraesCS2A01G405100 chr2D 517045445 517046172 727 False 210.000000 252 87.080000 2418 3082 3 chr2D.!!$F4 664
12 TraesCS2A01G405100 chr1B 676246643 676247546 903 False 1160.000000 1160 89.880000 1010 1919 1 chr1B.!!$F1 909
13 TraesCS2A01G405100 chr1B 491697443 491699789 2346 False 504.000000 719 89.372000 1010 1795 2 chr1B.!!$F2 785
14 TraesCS2A01G405100 chr5A 419361107 419361983 876 False 1099.000000 1099 89.350000 1010 1892 1 chr5A.!!$F2 882
15 TraesCS2A01G405100 chr4A 541336095 541336971 876 True 570.000000 726 90.194000 1010 1919 2 chr4A.!!$R2 909

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
871 892 0.035458 TCCACACACACACACACACA 59.965 50.0 0.0 0.0 0.00 3.72 F
872 893 0.167908 CCACACACACACACACACAC 59.832 55.0 0.0 0.0 0.00 3.82 F
1636 3528 0.527817 CGTAGGTCTTGGGCACGATC 60.528 60.0 0.0 0.0 34.66 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2853 4985 0.389025 CCGCCCCCTGCAATAAATTC 59.611 55.000 0.00 0.00 41.33 2.17 R
2913 5045 3.824510 GCCGTCTTTCGCGTCGAC 61.825 66.667 5.77 5.18 34.89 4.20 R
3458 5635 0.183014 CTACCTCACCTCCCGCTCTA 59.817 60.000 0.00 0.00 0.00 2.43 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
68 69 6.899393 TTACATAATGATGGGCAGGATTTC 57.101 37.500 0.00 0.00 37.39 2.17
74 75 8.537016 CATAATGATGGGCAGGATTTCATAAAT 58.463 33.333 0.00 0.00 0.00 1.40
110 111 8.184192 CACAATCACAGGTAGGATTTGATAAAC 58.816 37.037 0.00 0.00 31.63 2.01
155 156 9.698309 ATTTATGACAGATAAATCACGAGGTAG 57.302 33.333 0.00 0.00 30.77 3.18
156 157 6.716934 ATGACAGATAAATCACGAGGTAGT 57.283 37.500 0.00 0.00 0.00 2.73
258 259 3.588742 TCTGCCACGTCAGAGGATA 57.411 52.632 2.98 0.00 38.11 2.59
338 339 1.640428 CTCGAGTCCGCAAAATAGCA 58.360 50.000 3.62 0.00 35.37 3.49
375 376 5.796424 AAATGAGAAATATGGGTGCCATC 57.204 39.130 0.00 0.00 40.74 3.51
376 377 4.736611 ATGAGAAATATGGGTGCCATCT 57.263 40.909 0.00 0.00 40.74 2.90
377 378 3.824133 TGAGAAATATGGGTGCCATCTG 58.176 45.455 0.00 0.00 40.74 2.90
378 379 2.555757 GAGAAATATGGGTGCCATCTGC 59.444 50.000 0.00 0.00 40.74 4.26
379 380 1.615392 GAAATATGGGTGCCATCTGCC 59.385 52.381 0.00 0.00 40.74 4.85
380 381 0.557238 AATATGGGTGCCATCTGCCA 59.443 50.000 0.00 0.00 40.74 4.92
381 382 0.781920 ATATGGGTGCCATCTGCCAT 59.218 50.000 0.00 0.00 40.74 4.40
423 424 7.148407 CCTTCATAAATTCAGTACGCCATATCC 60.148 40.741 0.00 0.00 0.00 2.59
424 425 6.170506 TCATAAATTCAGTACGCCATATCCC 58.829 40.000 0.00 0.00 0.00 3.85
425 426 4.706842 AAATTCAGTACGCCATATCCCT 57.293 40.909 0.00 0.00 0.00 4.20
428 429 3.801307 TCAGTACGCCATATCCCTCTA 57.199 47.619 0.00 0.00 0.00 2.43
429 430 3.418995 TCAGTACGCCATATCCCTCTAC 58.581 50.000 0.00 0.00 0.00 2.59
492 498 3.567576 TGTGTACGCATTCAATTTGGG 57.432 42.857 4.65 0.00 0.00 4.12
517 523 1.752501 AAATCTGCGCGATCGAACGG 61.753 55.000 21.57 14.53 38.10 4.44
523 529 1.696644 CGCGATCGAACGGATATGC 59.303 57.895 21.57 0.00 34.82 3.14
551 567 7.718314 ACTCCCCTCAAAATAAATAACGTATCC 59.282 37.037 0.00 0.00 0.00 2.59
602 618 0.732880 AGAACACGACGCAGAATCCG 60.733 55.000 0.00 0.00 0.00 4.18
609 625 3.257561 CGCAGAATCCGTCCAGCG 61.258 66.667 0.00 0.00 42.47 5.18
630 646 3.242413 CGCCGGTGATTGTTGAAAGATAG 60.242 47.826 10.20 0.00 0.00 2.08
635 651 5.065090 CGGTGATTGTTGAAAGATAGATGCA 59.935 40.000 0.00 0.00 0.00 3.96
636 652 6.238566 CGGTGATTGTTGAAAGATAGATGCAT 60.239 38.462 0.00 0.00 0.00 3.96
662 678 0.600557 TGGCAAAATACACTTGGGCG 59.399 50.000 0.00 0.00 0.00 6.13
686 702 3.003897 TCTTCAACACCAAAACATACGGC 59.996 43.478 0.00 0.00 0.00 5.68
826 847 6.012658 TCTCATCGCAAAAACATTAGCTTT 57.987 33.333 0.00 0.00 0.00 3.51
831 852 5.767269 TCGCAAAAACATTAGCTTTGATCA 58.233 33.333 0.00 0.00 32.87 2.92
832 853 6.212235 TCGCAAAAACATTAGCTTTGATCAA 58.788 32.000 3.38 3.38 32.87 2.57
837 858 7.951530 AAAACATTAGCTTTGATCAAACAGG 57.048 32.000 16.91 8.95 0.00 4.00
853 874 0.529378 CAGGGCTTGGCACTTGATTC 59.471 55.000 0.00 0.00 40.61 2.52
854 875 0.613012 AGGGCTTGGCACTTGATTCC 60.613 55.000 0.00 0.00 40.61 3.01
855 876 0.899717 GGGCTTGGCACTTGATTCCA 60.900 55.000 0.00 0.00 0.00 3.53
856 877 0.244721 GGCTTGGCACTTGATTCCAC 59.755 55.000 0.00 0.00 0.00 4.02
857 878 0.961019 GCTTGGCACTTGATTCCACA 59.039 50.000 0.00 0.00 0.00 4.17
858 879 1.336240 GCTTGGCACTTGATTCCACAC 60.336 52.381 0.00 0.00 0.00 3.82
859 880 1.955778 CTTGGCACTTGATTCCACACA 59.044 47.619 0.00 0.00 0.00 3.72
860 881 1.317613 TGGCACTTGATTCCACACAC 58.682 50.000 0.00 0.00 0.00 3.82
861 882 1.317613 GGCACTTGATTCCACACACA 58.682 50.000 0.00 0.00 0.00 3.72
862 883 1.001378 GGCACTTGATTCCACACACAC 60.001 52.381 0.00 0.00 0.00 3.82
863 884 1.675483 GCACTTGATTCCACACACACA 59.325 47.619 0.00 0.00 0.00 3.72
864 885 2.541588 GCACTTGATTCCACACACACAC 60.542 50.000 0.00 0.00 0.00 3.82
865 886 2.682352 CACTTGATTCCACACACACACA 59.318 45.455 0.00 0.00 0.00 3.72
866 887 2.682856 ACTTGATTCCACACACACACAC 59.317 45.455 0.00 0.00 0.00 3.82
867 888 2.409948 TGATTCCACACACACACACA 57.590 45.000 0.00 0.00 0.00 3.72
868 889 2.013400 TGATTCCACACACACACACAC 58.987 47.619 0.00 0.00 0.00 3.82
869 890 2.013400 GATTCCACACACACACACACA 58.987 47.619 0.00 0.00 0.00 3.72
870 891 1.160989 TTCCACACACACACACACAC 58.839 50.000 0.00 0.00 0.00 3.82
871 892 0.035458 TCCACACACACACACACACA 59.965 50.000 0.00 0.00 0.00 3.72
872 893 0.167908 CCACACACACACACACACAC 59.832 55.000 0.00 0.00 0.00 3.82
873 894 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
874 895 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
875 896 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
876 897 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
877 898 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
878 899 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
879 900 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
880 901 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
881 902 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
882 903 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
883 904 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
884 905 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
885 906 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
886 907 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
887 908 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
888 909 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
889 910 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
890 911 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
891 912 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
892 913 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
893 914 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
894 915 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
895 916 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
896 917 1.136000 CACACACACACACACACACAG 60.136 52.381 0.00 0.00 0.00 3.66
897 918 1.270571 ACACACACACACACACACAGA 60.271 47.619 0.00 0.00 0.00 3.41
898 919 1.394572 CACACACACACACACACAGAG 59.605 52.381 0.00 0.00 0.00 3.35
899 920 1.275010 ACACACACACACACACAGAGA 59.725 47.619 0.00 0.00 0.00 3.10
900 921 1.929169 CACACACACACACACAGAGAG 59.071 52.381 0.00 0.00 0.00 3.20
901 922 1.824852 ACACACACACACACAGAGAGA 59.175 47.619 0.00 0.00 0.00 3.10
902 923 2.159184 ACACACACACACACAGAGAGAG 60.159 50.000 0.00 0.00 0.00 3.20
903 924 2.099756 CACACACACACACAGAGAGAGA 59.900 50.000 0.00 0.00 0.00 3.10
904 925 2.360483 ACACACACACACAGAGAGAGAG 59.640 50.000 0.00 0.00 0.00 3.20
905 926 2.620585 CACACACACACAGAGAGAGAGA 59.379 50.000 0.00 0.00 0.00 3.10
906 927 2.884012 ACACACACACAGAGAGAGAGAG 59.116 50.000 0.00 0.00 0.00 3.20
907 928 3.145286 CACACACACAGAGAGAGAGAGA 58.855 50.000 0.00 0.00 0.00 3.10
908 929 3.189080 CACACACACAGAGAGAGAGAGAG 59.811 52.174 0.00 0.00 0.00 3.20
909 930 3.072330 ACACACACAGAGAGAGAGAGAGA 59.928 47.826 0.00 0.00 0.00 3.10
910 931 3.686241 CACACACAGAGAGAGAGAGAGAG 59.314 52.174 0.00 0.00 0.00 3.20
911 932 3.582647 ACACACAGAGAGAGAGAGAGAGA 59.417 47.826 0.00 0.00 0.00 3.10
912 933 4.186926 CACACAGAGAGAGAGAGAGAGAG 58.813 52.174 0.00 0.00 0.00 3.20
913 934 4.081476 CACACAGAGAGAGAGAGAGAGAGA 60.081 50.000 0.00 0.00 0.00 3.10
914 935 4.161189 ACACAGAGAGAGAGAGAGAGAGAG 59.839 50.000 0.00 0.00 0.00 3.20
915 936 4.403752 CACAGAGAGAGAGAGAGAGAGAGA 59.596 50.000 0.00 0.00 0.00 3.10
938 1195 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
940 1197 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1033 1291 6.587608 CGCTCTGTATATATCAGTGCATTTCA 59.412 38.462 23.49 2.54 46.17 2.69
1068 1326 4.647564 AACTGGTGTTCAGATTCATCCT 57.352 40.909 0.00 0.00 46.18 3.24
1112 1384 1.758862 TGCTGGTGATCAGTGATCGAT 59.241 47.619 24.52 0.00 45.08 3.59
1127 1399 2.112380 TCGATGACCATGCATGTGTT 57.888 45.000 24.58 9.06 0.00 3.32
1131 1403 3.486375 CGATGACCATGCATGTGTTTCTC 60.486 47.826 24.58 16.17 0.00 2.87
1135 1407 3.225104 ACCATGCATGTGTTTCTCTGTT 58.775 40.909 24.58 0.00 0.00 3.16
1351 1663 1.006832 CCCTCGAAAATACTGGCGTG 58.993 55.000 0.00 0.00 0.00 5.34
1417 1729 1.745115 CGTTCGTGGATGCATGGGT 60.745 57.895 2.46 0.00 0.00 4.51
1566 1878 1.035932 TCGTCCGTCCTTCCTGATCC 61.036 60.000 0.00 0.00 0.00 3.36
1593 3477 1.071542 TGGTTTGGCTTCATCTGACGA 59.928 47.619 0.00 0.00 0.00 4.20
1636 3528 0.527817 CGTAGGTCTTGGGCACGATC 60.528 60.000 0.00 0.00 34.66 3.69
1714 3606 3.434319 GTCGACGGGCTCACGGTA 61.434 66.667 0.00 0.00 38.39 4.02
1781 3684 2.816672 TGGAGCGATAAATGCAAACACA 59.183 40.909 0.00 0.00 33.85 3.72
1806 3709 1.271543 TGATGTGAGGAAGCCCAACTG 60.272 52.381 0.00 0.00 33.88 3.16
1815 3718 3.008485 AGGAAGCCCAACTGAACTCTTAG 59.992 47.826 0.00 0.00 33.88 2.18
1822 3735 5.325239 CCCAACTGAACTCTTAGGGAATTT 58.675 41.667 0.00 0.00 36.96 1.82
1858 3777 4.083164 CCTTGCATTTGGCCTTTTGATTTC 60.083 41.667 3.32 0.00 43.89 2.17
1942 3916 3.754965 AGGCACCGACGGTTAGTATATA 58.245 45.455 19.02 0.00 31.02 0.86
1943 3917 4.338879 AGGCACCGACGGTTAGTATATAT 58.661 43.478 19.02 0.00 31.02 0.86
1944 3918 5.500234 AGGCACCGACGGTTAGTATATATA 58.500 41.667 19.02 0.00 31.02 0.86
1945 3919 6.125029 AGGCACCGACGGTTAGTATATATAT 58.875 40.000 19.02 0.00 31.02 0.86
2012 4023 4.621991 ACCTCATTGCGTATGTATCACTC 58.378 43.478 0.00 0.00 35.64 3.51
2053 4064 0.888736 TTGGTCATGAACTGCACCGG 60.889 55.000 12.94 0.00 31.45 5.28
2222 4233 1.740296 CGTCCACATCACCGGTTCC 60.740 63.158 2.97 0.00 0.00 3.62
2261 4272 2.769621 TGCATCTCCATCGGCCCT 60.770 61.111 0.00 0.00 0.00 5.19
2264 4275 2.040464 ATCTCCATCGGCCCTGGT 60.040 61.111 16.59 0.00 35.19 4.00
2389 4422 6.403049 TCTATTTACCATGCACTCGAAGAAA 58.597 36.000 0.00 0.00 34.09 2.52
2541 4575 1.066573 AGCAAGGATCAAGACGTGGAG 60.067 52.381 0.00 0.00 0.00 3.86
2768 4846 7.956328 ACTCTACTACTATGTGTGGATTGAA 57.044 36.000 0.00 0.00 0.00 2.69
2787 4866 9.823647 GGATTGAATGTTGGACGATCTATATAT 57.176 33.333 0.00 0.00 0.00 0.86
2850 4982 1.452145 TTTGTGCGTCTTCTTGGGGC 61.452 55.000 0.00 0.00 0.00 5.80
2853 4985 2.747855 GCGTCTTCTTGGGGCCTG 60.748 66.667 0.84 0.00 0.00 4.85
2952 5084 1.725641 TCGACTTCGATTGCAGCAAT 58.274 45.000 21.00 21.00 44.22 3.56
2984 5116 3.605013 TGGACATCCACGTCAACAG 57.395 52.632 0.00 0.00 42.01 3.16
3140 5312 0.893270 TAGCAATGCTGTTGGGCGTT 60.893 50.000 19.25 0.00 40.10 4.84
3145 5317 0.596082 ATGCTGTTGGGCGTTTGTAC 59.404 50.000 0.00 0.00 34.52 2.90
3375 5552 1.483415 GGACATTACGCAGGAAGGGTA 59.517 52.381 0.00 0.00 43.86 3.69
3404 5581 1.448185 TTTTTCGGGGTAGGAAGGGT 58.552 50.000 0.00 0.00 0.00 4.34
3405 5582 2.340721 TTTTCGGGGTAGGAAGGGTA 57.659 50.000 0.00 0.00 0.00 3.69
3406 5583 1.571955 TTTCGGGGTAGGAAGGGTAC 58.428 55.000 0.00 0.00 0.00 3.34
3423 5600 1.197264 GTACCCGTTTGCGTGCATTAA 59.803 47.619 0.00 0.00 36.15 1.40
3440 5617 4.160252 GCATTAATCAAAGGCTCAAAGGGA 59.840 41.667 0.00 0.00 41.64 4.20
3450 5627 5.514500 AGGCTCAAAGGGAAGTTACATAA 57.486 39.130 0.00 0.00 0.00 1.90
3456 5633 7.755373 GCTCAAAGGGAAGTTACATAATTTCAC 59.245 37.037 8.57 5.43 36.08 3.18
3457 5634 8.698973 TCAAAGGGAAGTTACATAATTTCACA 57.301 30.769 10.62 0.00 37.66 3.58
3458 5635 9.308000 TCAAAGGGAAGTTACATAATTTCACAT 57.692 29.630 10.62 0.00 37.66 3.21
3549 5726 4.402056 AGTCCGAAGAGTGAAGTTTGAA 57.598 40.909 0.00 0.00 0.00 2.69
3550 5727 4.766375 AGTCCGAAGAGTGAAGTTTGAAA 58.234 39.130 0.00 0.00 0.00 2.69
3551 5728 5.368989 AGTCCGAAGAGTGAAGTTTGAAAT 58.631 37.500 0.00 0.00 0.00 2.17
3655 5832 7.373617 TGGATAACATGAGGCAAGAGTTATA 57.626 36.000 0.00 0.00 36.01 0.98
3710 5887 3.753272 CGATTGTATTGATGGATGGGGTC 59.247 47.826 0.00 0.00 0.00 4.46
3727 5904 3.602483 GGGTCTACAAAGTGCGGAAATA 58.398 45.455 0.00 0.00 0.00 1.40
3790 5967 2.575532 GCCATGTATGCAGGTGTACAT 58.424 47.619 0.00 5.10 41.02 2.29
4089 7507 7.930325 TGTGAGATGATAGGAGAATGAATTGAC 59.070 37.037 0.00 0.00 0.00 3.18
4093 7511 5.371526 TGATAGGAGAATGAATTGACCTGC 58.628 41.667 0.00 0.00 0.00 4.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 6.838090 TGAAATCCTGCCCATCATTATGTAAA 59.162 34.615 0.00 0.00 0.00 2.01
46 47 5.951204 TGAAATCCTGCCCATCATTATGTA 58.049 37.500 0.00 0.00 0.00 2.29
47 48 4.806892 TGAAATCCTGCCCATCATTATGT 58.193 39.130 0.00 0.00 0.00 2.29
48 49 5.995565 ATGAAATCCTGCCCATCATTATG 57.004 39.130 0.00 0.00 0.00 1.90
49 50 8.674925 ATTTATGAAATCCTGCCCATCATTAT 57.325 30.769 0.00 0.00 33.17 1.28
50 51 9.772605 ATATTTATGAAATCCTGCCCATCATTA 57.227 29.630 0.00 0.00 33.17 1.90
129 130 9.698309 CTACCTCGTGATTTATCTGTCATAAAT 57.302 33.333 0.21 0.21 37.03 1.40
132 133 7.818997 ACTACCTCGTGATTTATCTGTCATA 57.181 36.000 0.00 0.00 0.00 2.15
133 134 6.716934 ACTACCTCGTGATTTATCTGTCAT 57.283 37.500 0.00 0.00 0.00 3.06
134 135 7.478322 GTTACTACCTCGTGATTTATCTGTCA 58.522 38.462 0.00 0.00 0.00 3.58
135 136 6.632035 CGTTACTACCTCGTGATTTATCTGTC 59.368 42.308 0.00 0.00 0.00 3.51
136 137 6.094603 ACGTTACTACCTCGTGATTTATCTGT 59.905 38.462 0.00 0.00 36.46 3.41
167 168 8.999431 ACTAGAACATACCGGCATTTAAATATG 58.001 33.333 0.00 1.76 0.00 1.78
181 182 7.755373 GCCTTTTTGAAATCACTAGAACATACC 59.245 37.037 0.00 0.00 0.00 2.73
184 185 7.014615 AGTGCCTTTTTGAAATCACTAGAACAT 59.985 33.333 0.00 0.00 33.56 2.71
225 226 4.712476 GTGGCAGAGATCTACCAAATCAT 58.288 43.478 12.01 0.00 40.85 2.45
338 339 4.870636 TCTCATTTTATTGCCCAGGTGAT 58.129 39.130 0.00 0.00 0.00 3.06
375 376 2.868583 CGTATCCAAGAGTTCATGGCAG 59.131 50.000 0.00 0.00 34.89 4.85
376 377 2.905075 CGTATCCAAGAGTTCATGGCA 58.095 47.619 0.00 0.00 34.89 4.92
377 378 1.599542 GCGTATCCAAGAGTTCATGGC 59.400 52.381 0.00 0.00 34.89 4.40
378 379 2.158900 AGGCGTATCCAAGAGTTCATGG 60.159 50.000 0.00 0.00 36.14 3.66
379 380 3.185246 AGGCGTATCCAAGAGTTCATG 57.815 47.619 0.00 0.00 37.29 3.07
380 381 3.197766 TGAAGGCGTATCCAAGAGTTCAT 59.802 43.478 0.00 0.00 37.29 2.57
381 382 2.565391 TGAAGGCGTATCCAAGAGTTCA 59.435 45.455 0.00 0.00 37.29 3.18
423 424 4.428209 TCGTCAAGACTACTACGTAGAGG 58.572 47.826 28.74 20.38 38.29 3.69
424 425 5.101628 ACTCGTCAAGACTACTACGTAGAG 58.898 45.833 28.74 21.18 38.29 2.43
425 426 5.065704 ACTCGTCAAGACTACTACGTAGA 57.934 43.478 28.74 11.46 38.29 2.59
428 429 5.457148 CGTATACTCGTCAAGACTACTACGT 59.543 44.000 0.56 0.00 36.73 3.57
429 430 5.609269 GCGTATACTCGTCAAGACTACTACG 60.609 48.000 0.56 6.14 36.71 3.51
492 498 1.056447 CGATCGCGCAGATTTATCGTC 59.944 52.381 8.75 0.00 40.26 4.20
517 523 3.297134 TTTTGAGGGGAGTGGCATATC 57.703 47.619 0.00 0.00 0.00 1.63
523 529 5.650703 ACGTTATTTATTTTGAGGGGAGTGG 59.349 40.000 0.00 0.00 0.00 4.00
551 567 6.659361 AGAAATGAGATTGATTGAGTGACG 57.341 37.500 0.00 0.00 0.00 4.35
595 611 4.514577 CGGCGCTGGACGGATTCT 62.515 66.667 8.83 0.00 42.40 2.40
602 618 3.499737 CAATCACCGGCGCTGGAC 61.500 66.667 41.14 6.82 0.00 4.02
609 625 3.938963 TCTATCTTTCAACAATCACCGGC 59.061 43.478 0.00 0.00 0.00 6.13
630 646 6.805271 GTGTATTTTGCCAGATCATATGCATC 59.195 38.462 0.19 2.76 33.08 3.91
635 651 6.266103 CCCAAGTGTATTTTGCCAGATCATAT 59.734 38.462 0.00 0.00 0.00 1.78
636 652 5.593909 CCCAAGTGTATTTTGCCAGATCATA 59.406 40.000 0.00 0.00 0.00 2.15
662 678 5.390613 CCGTATGTTTTGGTGTTGAAGATC 58.609 41.667 0.00 0.00 0.00 2.75
686 702 2.030893 TCATTCAAACAAAGAGGCAGCG 60.031 45.455 0.00 0.00 0.00 5.18
826 847 0.178967 TGCCAAGCCCTGTTTGATCA 60.179 50.000 0.00 0.00 0.00 2.92
831 852 0.396974 TCAAGTGCCAAGCCCTGTTT 60.397 50.000 0.00 0.00 0.00 2.83
832 853 0.178953 ATCAAGTGCCAAGCCCTGTT 60.179 50.000 0.00 0.00 0.00 3.16
837 858 0.244721 GTGGAATCAAGTGCCAAGCC 59.755 55.000 0.00 0.00 32.68 4.35
853 874 0.167908 GTGTGTGTGTGTGTGTGTGG 59.832 55.000 0.00 0.00 0.00 4.17
854 875 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
855 876 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
856 877 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
857 878 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
858 879 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
859 880 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
860 881 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
861 882 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
862 883 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
863 884 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
864 885 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
865 886 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
866 887 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
867 888 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
868 889 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
869 890 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
870 891 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
871 892 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
872 893 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
873 894 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
874 895 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
875 896 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
876 897 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
877 898 1.155889 CTGTGTGTGTGTGTGTGTGT 58.844 50.000 0.00 0.00 0.00 3.72
878 899 1.394572 CTCTGTGTGTGTGTGTGTGTG 59.605 52.381 0.00 0.00 0.00 3.82
879 900 1.275010 TCTCTGTGTGTGTGTGTGTGT 59.725 47.619 0.00 0.00 0.00 3.72
880 901 1.929169 CTCTCTGTGTGTGTGTGTGTG 59.071 52.381 0.00 0.00 0.00 3.82
881 902 1.824852 TCTCTCTGTGTGTGTGTGTGT 59.175 47.619 0.00 0.00 0.00 3.72
882 903 2.099756 TCTCTCTCTGTGTGTGTGTGTG 59.900 50.000 0.00 0.00 0.00 3.82
883 904 2.360483 CTCTCTCTCTGTGTGTGTGTGT 59.640 50.000 0.00 0.00 0.00 3.72
884 905 2.620585 TCTCTCTCTCTGTGTGTGTGTG 59.379 50.000 0.00 0.00 0.00 3.82
885 906 2.884012 CTCTCTCTCTCTGTGTGTGTGT 59.116 50.000 0.00 0.00 0.00 3.72
886 907 3.145286 TCTCTCTCTCTCTGTGTGTGTG 58.855 50.000 0.00 0.00 0.00 3.82
887 908 3.072330 TCTCTCTCTCTCTCTGTGTGTGT 59.928 47.826 0.00 0.00 0.00 3.72
888 909 3.673902 TCTCTCTCTCTCTCTGTGTGTG 58.326 50.000 0.00 0.00 0.00 3.82
889 910 3.582647 TCTCTCTCTCTCTCTCTGTGTGT 59.417 47.826 0.00 0.00 0.00 3.72
890 911 4.081476 TCTCTCTCTCTCTCTCTCTGTGTG 60.081 50.000 0.00 0.00 0.00 3.82
891 912 4.096681 TCTCTCTCTCTCTCTCTCTGTGT 58.903 47.826 0.00 0.00 0.00 3.72
892 913 4.403752 TCTCTCTCTCTCTCTCTCTCTGTG 59.596 50.000 0.00 0.00 0.00 3.66
893 914 4.614475 TCTCTCTCTCTCTCTCTCTCTGT 58.386 47.826 0.00 0.00 0.00 3.41
894 915 4.892345 TCTCTCTCTCTCTCTCTCTCTCTG 59.108 50.000 0.00 0.00 0.00 3.35
895 916 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
896 917 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
897 918 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
898 919 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
899 920 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
900 921 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
901 922 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
902 923 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
903 924 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
904 925 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
905 926 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
906 927 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
907 928 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
908 929 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
909 930 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
910 931 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
911 932 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
912 933 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
913 934 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
914 935 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
915 936 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
938 1195 0.108756 GTGGAACCCTCGCTGTACTC 60.109 60.000 0.00 0.00 0.00 2.59
940 1197 0.034337 TTGTGGAACCCTCGCTGTAC 59.966 55.000 0.00 0.00 34.36 2.90
1033 1291 2.097466 CACCAGTTCGAGCAAACTTTGT 59.903 45.455 1.01 0.00 37.38 2.83
1068 1326 7.401860 CACGCACGTACTACTCTATAAACTAA 58.598 38.462 0.00 0.00 0.00 2.24
1112 1384 2.815503 CAGAGAAACACATGCATGGTCA 59.184 45.455 29.41 0.00 0.00 4.02
1135 1407 9.777297 TGCATGATTAATTAGTAAGCACATCTA 57.223 29.630 0.00 0.00 40.75 1.98
1334 1644 2.601763 GGTACACGCCAGTATTTTCGAG 59.398 50.000 0.00 0.00 0.00 4.04
1351 1663 0.532862 CACATCCGGCCATCAGGTAC 60.533 60.000 2.24 0.00 37.19 3.34
1468 1780 1.439679 GCCGACGAGGAATGACTTTT 58.560 50.000 0.00 0.00 45.00 2.27
1593 3477 5.733676 ACAAACAAAGCAAGTTTTCCTGAT 58.266 33.333 0.00 0.00 37.10 2.90
1752 3652 0.604073 TTTATCGCTCCACCACGTCA 59.396 50.000 0.00 0.00 0.00 4.35
1781 3684 1.211457 GGGCTTCCTCACATCATCACT 59.789 52.381 0.00 0.00 0.00 3.41
1858 3777 5.719173 ACTTTCTCTCCGAAGAAGATTGAG 58.281 41.667 0.00 0.00 36.66 3.02
2053 4064 1.986575 GAATTGGCTCAGCTCCACGC 61.987 60.000 0.00 0.00 39.57 5.34
2181 4192 3.823330 GCTCCGGTCGACGTGGAT 61.823 66.667 23.47 0.00 42.24 3.41
2261 4272 2.260434 GTGACGAAGCGGCTACCA 59.740 61.111 1.35 0.00 35.04 3.25
2389 4422 3.016736 CCATCACGCCATTTTACTCCTT 58.983 45.455 0.00 0.00 0.00 3.36
2565 4599 8.001881 TCAGCTTCTTTGTAATTGTAACCAAA 57.998 30.769 0.00 0.00 33.44 3.28
2567 4601 6.206634 CCTCAGCTTCTTTGTAATTGTAACCA 59.793 38.462 0.00 0.00 0.00 3.67
2787 4866 7.580007 TCCTCCACACATACAGAAGTAGTATA 58.420 38.462 0.00 0.00 32.86 1.47
2788 4867 6.432581 TCCTCCACACATACAGAAGTAGTAT 58.567 40.000 0.00 0.00 32.86 2.12
2789 4868 5.823312 TCCTCCACACATACAGAAGTAGTA 58.177 41.667 0.00 0.00 32.86 1.82
2790 4869 4.673968 TCCTCCACACATACAGAAGTAGT 58.326 43.478 0.00 0.00 32.86 2.73
2791 4870 4.707448 ACTCCTCCACACATACAGAAGTAG 59.293 45.833 0.00 0.00 32.86 2.57
2792 4871 4.673968 ACTCCTCCACACATACAGAAGTA 58.326 43.478 0.00 0.00 34.10 2.24
2850 4982 1.413812 GCCCCCTGCAATAAATTCAGG 59.586 52.381 3.63 3.63 45.24 3.86
2853 4985 0.389025 CCGCCCCCTGCAATAAATTC 59.611 55.000 0.00 0.00 41.33 2.17
2913 5045 3.824510 GCCGTCTTTCGCGTCGAC 61.825 66.667 5.77 5.18 34.89 4.20
2952 5084 1.745115 GTCCATGCAGCTGCCGTTA 60.745 57.895 34.64 17.72 41.18 3.18
3108 5249 1.133976 CATTGCTAGGTGCTAAGCCCT 60.134 52.381 0.00 0.00 43.37 5.19
3110 5251 0.665298 GCATTGCTAGGTGCTAAGCC 59.335 55.000 0.16 0.00 43.37 4.35
3140 5312 2.482336 GTGCGTTCACATCCATGTACAA 59.518 45.455 0.00 0.00 42.66 2.41
3145 5317 1.298157 ACCGTGCGTTCACATCCATG 61.298 55.000 0.00 0.00 43.28 3.66
3273 5449 1.888512 TGCTCAACAAAATCCTGCTCC 59.111 47.619 0.00 0.00 0.00 4.70
3385 5562 1.448185 ACCCTTCCTACCCCGAAAAA 58.552 50.000 0.00 0.00 0.00 1.94
3386 5563 1.908619 GTACCCTTCCTACCCCGAAAA 59.091 52.381 0.00 0.00 0.00 2.29
3387 5564 1.571955 GTACCCTTCCTACCCCGAAA 58.428 55.000 0.00 0.00 0.00 3.46
3388 5565 0.325577 GGTACCCTTCCTACCCCGAA 60.326 60.000 0.00 0.00 0.00 4.30
3389 5566 1.311059 GGTACCCTTCCTACCCCGA 59.689 63.158 0.00 0.00 0.00 5.14
3390 5567 1.763655 GGGTACCCTTCCTACCCCG 60.764 68.421 24.75 0.00 45.62 5.73
3391 5568 4.407353 GGGTACCCTTCCTACCCC 57.593 66.667 24.75 0.00 45.62 4.95
3407 5584 2.254918 TGATTAATGCACGCAAACGG 57.745 45.000 0.00 0.00 46.04 4.44
3409 5586 3.181531 GCCTTTGATTAATGCACGCAAAC 60.182 43.478 0.00 0.00 0.00 2.93
3414 5591 3.763097 TGAGCCTTTGATTAATGCACG 57.237 42.857 0.00 0.00 30.64 5.34
3423 5600 3.532641 ACTTCCCTTTGAGCCTTTGAT 57.467 42.857 0.00 0.00 0.00 2.57
3440 5617 7.226720 CCCGCTCTATGTGAAATTATGTAACTT 59.773 37.037 0.00 0.00 0.00 2.66
3450 5627 2.119495 ACCTCCCGCTCTATGTGAAAT 58.881 47.619 0.00 0.00 0.00 2.17
3456 5633 0.757188 ACCTCACCTCCCGCTCTATG 60.757 60.000 0.00 0.00 0.00 2.23
3457 5634 0.851469 TACCTCACCTCCCGCTCTAT 59.149 55.000 0.00 0.00 0.00 1.98
3458 5635 0.183014 CTACCTCACCTCCCGCTCTA 59.817 60.000 0.00 0.00 0.00 2.43
3655 5832 5.780958 AGGGTTTTAGCTTCAGAACCTAT 57.219 39.130 15.36 6.49 40.98 2.57
3734 5911 0.868406 GACAGAAACCGGAACTGCTG 59.132 55.000 9.46 9.00 35.38 4.41
3790 5967 8.613060 ATTCGGTAGAGTACTCGTATGAATTA 57.387 34.615 17.07 0.00 34.09 1.40
3853 7235 8.600668 AGTGCAATAGATGTCATGTTCCTATAT 58.399 33.333 0.00 0.00 0.00 0.86
4089 7507 5.873712 TGCATGTTTTTATTATTGGTGCAGG 59.126 36.000 0.00 0.00 35.41 4.85


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

AutoCloner maintained by Alex Coulton.