Multiple sequence alignment - TraesCS6B01G335500

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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 TraesCS6B01G335500 chr6B 100.000 6412 0 0 1 6412 590675243 590668832 0.000000e+00 11841.0
1 TraesCS6B01G335500 chr6B 97.306 594 14 2 1 594 590677241 590676650 0.000000e+00 1007.0
2 TraesCS6B01G335500 chr6B 93.750 96 6 0 1295 1390 590673916 590673821 1.860000e-30 145.0
3 TraesCS6B01G335500 chr6B 89.888 89 9 0 12 100 590682643 590682555 1.460000e-21 115.0
4 TraesCS6B01G335500 chr6B 98.077 52 1 0 2824 2875 590672374 590672323 2.460000e-14 91.6
5 TraesCS6B01G335500 chr6B 98.077 52 1 0 2870 2921 590672420 590672369 2.460000e-14 91.6
6 TraesCS6B01G335500 chr6B 95.238 42 2 0 5660 5701 590669527 590669486 4.150000e-07 67.6
7 TraesCS6B01G335500 chr6B 95.238 42 2 0 5717 5758 590669584 590669543 4.150000e-07 67.6
8 TraesCS6B01G335500 chr6D 92.120 1967 95 29 2870 4804 394622873 394620935 0.000000e+00 2719.0
9 TraesCS6B01G335500 chr6D 88.914 1326 87 24 123 1423 394626561 394625271 0.000000e+00 1580.0
10 TraesCS6B01G335500 chr6D 92.955 1022 58 11 1862 2875 394623833 394622818 0.000000e+00 1476.0
11 TraesCS6B01G335500 chr6D 93.844 601 27 4 5107 5700 394620784 394620187 0.000000e+00 896.0
12 TraesCS6B01G335500 chr6D 89.028 720 52 11 123 828 394630780 394630074 0.000000e+00 867.0
13 TraesCS6B01G335500 chr6D 92.193 538 42 0 1321 1858 394624845 394624308 0.000000e+00 761.0
14 TraesCS6B01G335500 chr6D 84.597 409 30 19 6013 6405 394619997 394619606 6.070000e-100 375.0
15 TraesCS6B01G335500 chr6D 90.244 123 12 0 1295 1417 394625366 394625244 1.850000e-35 161.0
16 TraesCS6B01G335500 chr6D 94.792 96 5 0 1328 1423 394625399 394625304 4.000000e-32 150.0
17 TraesCS6B01G335500 chr6D 81.560 141 26 0 123 263 394633858 394633718 4.060000e-22 117.0
18 TraesCS6B01G335500 chr6D 88.889 90 10 0 1295 1384 394625333 394625244 1.890000e-20 111.0
19 TraesCS6B01G335500 chr6D 87.324 71 2 3 5046 5110 242996851 242996782 2.480000e-09 75.0
20 TraesCS6B01G335500 chr6D 97.619 42 1 0 1382 1423 394624850 394624809 8.920000e-09 73.1
21 TraesCS6B01G335500 chr6A 91.772 1981 86 27 2870 4804 540621800 540619851 0.000000e+00 2684.0
22 TraesCS6B01G335500 chr6A 92.955 1022 56 12 1862 2875 540622758 540621745 0.000000e+00 1474.0
23 TraesCS6B01G335500 chr6A 87.023 1364 92 30 126 1423 540625071 540623727 0.000000e+00 1459.0
24 TraesCS6B01G335500 chr6A 92.500 520 39 0 1339 1858 540623434 540622915 0.000000e+00 745.0
25 TraesCS6B01G335500 chr6A 88.166 507 34 9 123 625 540628103 540627619 1.200000e-161 580.0
26 TraesCS6B01G335500 chr6A 83.031 607 77 15 123 721 540663283 540662695 1.580000e-145 527.0
27 TraesCS6B01G335500 chr6A 95.804 286 10 2 5317 5600 540619502 540619217 1.630000e-125 460.0
28 TraesCS6B01G335500 chr6A 83.051 413 29 25 6020 6406 540618709 540618312 2.860000e-88 337.0
29 TraesCS6B01G335500 chr6A 98.519 135 1 1 5529 5662 540619258 540619124 2.990000e-58 237.0
30 TraesCS6B01G335500 chr6A 89.785 186 16 2 5107 5292 540619675 540619493 1.070000e-57 235.0
31 TraesCS6B01G335500 chr6A 86.705 173 16 4 4882 5047 540619856 540619684 1.100000e-42 185.0
32 TraesCS6B01G335500 chr6A 92.708 96 7 0 1328 1423 540623855 540623760 8.670000e-29 139.0
33 TraesCS6B01G335500 chr6A 88.764 89 10 0 12 100 540663366 540663278 6.800000e-20 110.0
34 TraesCS6B01G335500 chr6A 90.909 77 7 0 1782 1858 540622866 540622790 3.160000e-18 104.0
35 TraesCS6B01G335500 chr7A 85.455 165 15 6 5783 5941 232337034 232336873 5.140000e-36 163.0
36 TraesCS6B01G335500 chr4D 85.625 160 16 4 5782 5941 365080732 365080884 1.850000e-35 161.0
37 TraesCS6B01G335500 chr3D 84.940 166 16 6 5782 5941 187836470 187836308 6.650000e-35 159.0
38 TraesCS6B01G335500 chr3D 84.706 170 14 9 5783 5944 375693829 375693994 6.650000e-35 159.0
39 TraesCS6B01G335500 chr3D 79.397 199 27 10 2944 3134 279199921 279199729 1.880000e-25 128.0
40 TraesCS6B01G335500 chr2D 85.000 160 20 3 5783 5941 372927120 372926964 6.650000e-35 159.0
41 TraesCS6B01G335500 chr2D 93.023 86 5 1 4800 4884 95418728 95418643 2.430000e-24 124.0
42 TraesCS6B01G335500 chr5A 84.211 171 17 7 5777 5941 320214410 320214244 2.390000e-34 158.0
43 TraesCS6B01G335500 chr2B 84.524 168 16 8 5783 5944 41136280 41136117 2.390000e-34 158.0
44 TraesCS6B01G335500 chr2B 83.616 177 17 8 5779 5947 109974310 109974482 8.610000e-34 156.0
45 TraesCS6B01G335500 chr2B 82.963 135 15 7 3015 3146 546932098 546932227 1.460000e-21 115.0
46 TraesCS6B01G335500 chr1A 84.848 165 16 6 5783 5941 354626637 354626798 2.390000e-34 158.0
47 TraesCS6B01G335500 chr3B 79.899 199 26 11 2944 3134 370932991 370933183 4.030000e-27 134.0
48 TraesCS6B01G335500 chr3B 89.796 98 8 2 4796 4891 690416889 690416986 2.430000e-24 124.0
49 TraesCS6B01G335500 chr3B 89.362 94 9 1 4800 4892 132525343 132525250 4.060000e-22 117.0
50 TraesCS6B01G335500 chr3A 79.899 199 26 10 2944 3134 359662813 359663005 4.030000e-27 134.0
51 TraesCS6B01G335500 chr3A 92.857 42 2 1 5033 5074 520437431 520437471 6.940000e-05 60.2
52 TraesCS6B01G335500 chr3A 87.755 49 5 1 5028 5075 492889029 492889077 8.980000e-04 56.5
53 TraesCS6B01G335500 chr7D 93.182 88 6 0 4800 4887 633878851 633878764 5.220000e-26 130.0
54 TraesCS6B01G335500 chr7D 88.462 52 6 0 5054 5105 53566004 53565953 5.370000e-06 63.9
55 TraesCS6B01G335500 chr5B 94.118 85 5 0 4800 4884 488608199 488608115 5.220000e-26 130.0
56 TraesCS6B01G335500 chr5B 92.941 85 6 0 4800 4884 629934766 629934850 2.430000e-24 124.0
57 TraesCS6B01G335500 chr5B 90.000 60 3 3 5046 5105 491246951 491247007 2.480000e-09 75.0
58 TraesCS6B01G335500 chr5B 85.484 62 7 2 5047 5108 43692129 43692070 5.370000e-06 63.9
59 TraesCS6B01G335500 chr1B 94.186 86 4 1 4800 4884 681691006 681691091 5.220000e-26 130.0
60 TraesCS6B01G335500 chr5D 93.103 87 5 1 4798 4884 276618084 276618169 6.750000e-25 126.0
61 TraesCS6B01G335500 chr5D 92.857 42 2 1 5033 5074 423267706 423267666 6.940000e-05 60.2
62 TraesCS6B01G335500 chr7B 90.217 92 8 1 4800 4890 353796312 353796221 1.130000e-22 119.0
63 TraesCS6B01G335500 chr4B 91.667 60 4 1 5046 5105 622109229 622109287 1.480000e-11 82.4
64 TraesCS6B01G335500 chr4A 86.486 74 5 2 5042 5110 677813099 677813026 6.890000e-10 76.8
65 TraesCS6B01G335500 chr4A 100.000 33 0 0 5074 5106 7440657 7440689 1.930000e-05 62.1


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 TraesCS6B01G335500 chr6B 590668832 590675243 6411 True 11841.000000 11841 100.00000 1 6412 1 chr6B.!!$R1 6411
1 TraesCS6B01G335500 chr6B 590669486 590677241 7755 True 245.066667 1007 96.28100 1 5758 6 chr6B.!!$R3 5757
2 TraesCS6B01G335500 chr6D 394619606 394626561 6955 True 830.210000 2719 91.61670 123 6405 10 chr6D.!!$R2 6282
3 TraesCS6B01G335500 chr6D 394630074 394633858 3784 True 492.000000 867 85.29400 123 828 2 chr6D.!!$R3 705
4 TraesCS6B01G335500 chr6A 540618312 540628103 9791 True 719.916667 2684 90.82475 123 6406 12 chr6A.!!$R1 6283
5 TraesCS6B01G335500 chr6A 540662695 540663366 671 True 318.500000 527 85.89750 12 721 2 chr6A.!!$R2 709

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
91 92 0.105964 AGCAGGAACAACACTACGCA 59.894 50.0 0.0 0.0 0.0 5.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
5765 12367 7.477945 AGGGAGTATTAAACTTCGAAGAAGA 57.522 36.0 31.08 10.07 45.9 2.87 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
23 24 5.757886 CGTTATTTTCCACAAAGCTCAGAA 58.242 37.500 0.00 0.00 0.00 3.02
24 25 6.205784 CGTTATTTTCCACAAAGCTCAGAAA 58.794 36.000 0.00 0.00 0.00 2.52
26 27 7.221838 CGTTATTTTCCACAAAGCTCAGAAAAA 59.778 33.333 11.07 4.62 39.21 1.94
27 28 8.542953 GTTATTTTCCACAAAGCTCAGAAAAAG 58.457 33.333 11.07 0.00 39.21 2.27
28 29 4.654091 TTCCACAAAGCTCAGAAAAAGG 57.346 40.909 0.00 0.00 0.00 3.11
29 30 2.958355 TCCACAAAGCTCAGAAAAAGGG 59.042 45.455 0.00 0.00 0.00 3.95
30 31 2.958355 CCACAAAGCTCAGAAAAAGGGA 59.042 45.455 0.00 0.00 0.00 4.20
32 33 4.500375 CCACAAAGCTCAGAAAAAGGGAAG 60.500 45.833 0.00 0.00 0.00 3.46
33 34 3.068732 ACAAAGCTCAGAAAAAGGGAAGC 59.931 43.478 0.00 0.00 0.00 3.86
34 35 2.967745 AGCTCAGAAAAAGGGAAGCT 57.032 45.000 0.00 0.00 0.00 3.74
35 36 2.512705 AGCTCAGAAAAAGGGAAGCTG 58.487 47.619 0.00 0.00 0.00 4.24
36 37 2.158549 AGCTCAGAAAAAGGGAAGCTGT 60.159 45.455 0.00 0.00 0.00 4.40
37 38 3.073062 AGCTCAGAAAAAGGGAAGCTGTA 59.927 43.478 0.00 0.00 0.00 2.74
41 42 3.058914 CAGAAAAAGGGAAGCTGTACGTG 60.059 47.826 0.00 0.00 0.00 4.49
42 43 1.235724 AAAAGGGAAGCTGTACGTGC 58.764 50.000 0.00 0.00 0.00 5.34
43 44 0.949105 AAAGGGAAGCTGTACGTGCG 60.949 55.000 0.00 0.00 35.28 5.34
45 46 2.736995 GGAAGCTGTACGTGCGCA 60.737 61.111 5.66 5.66 35.28 6.09
48 49 0.731514 GAAGCTGTACGTGCGCACTA 60.732 55.000 35.27 23.49 35.28 2.74
49 50 1.007336 AAGCTGTACGTGCGCACTAC 61.007 55.000 35.27 31.05 35.28 2.73
51 52 2.126773 TGTACGTGCGCACTACCG 60.127 61.111 35.27 25.42 0.00 4.02
53 54 4.781959 TACGTGCGCACTACCGGC 62.782 66.667 35.27 10.44 0.00 6.13
59 60 2.434185 CGCACTACCGGCACACAT 60.434 61.111 0.00 0.00 0.00 3.21
60 61 2.032634 CGCACTACCGGCACACATT 61.033 57.895 0.00 0.00 0.00 2.71
61 62 1.573829 CGCACTACCGGCACACATTT 61.574 55.000 0.00 0.00 0.00 2.32
64 65 2.159572 GCACTACCGGCACACATTTAAG 60.160 50.000 0.00 0.00 0.00 1.85
65 66 3.331150 CACTACCGGCACACATTTAAGA 58.669 45.455 0.00 0.00 0.00 2.10
66 67 3.124636 CACTACCGGCACACATTTAAGAC 59.875 47.826 0.00 0.00 0.00 3.01
67 68 2.561478 ACCGGCACACATTTAAGACT 57.439 45.000 0.00 0.00 0.00 3.24
68 69 2.423577 ACCGGCACACATTTAAGACTC 58.576 47.619 0.00 0.00 0.00 3.36
70 71 3.009723 CCGGCACACATTTAAGACTCAT 58.990 45.455 0.00 0.00 0.00 2.90
71 72 3.181507 CCGGCACACATTTAAGACTCATG 60.182 47.826 0.00 0.00 0.00 3.07
72 73 3.684305 CGGCACACATTTAAGACTCATGA 59.316 43.478 0.00 0.00 0.00 3.07
74 75 4.437930 GGCACACATTTAAGACTCATGAGC 60.438 45.833 22.83 14.86 0.00 4.26
76 77 5.673068 GCACACATTTAAGACTCATGAGCAG 60.673 44.000 22.83 0.20 0.00 4.24
78 79 5.181009 CACATTTAAGACTCATGAGCAGGA 58.819 41.667 22.83 3.27 0.00 3.86
79 80 5.645067 CACATTTAAGACTCATGAGCAGGAA 59.355 40.000 22.83 11.35 0.00 3.36
81 82 4.890158 TTAAGACTCATGAGCAGGAACA 57.110 40.909 22.83 0.00 0.00 3.18
82 83 3.777106 AAGACTCATGAGCAGGAACAA 57.223 42.857 22.83 0.00 0.00 2.83
83 84 3.051081 AGACTCATGAGCAGGAACAAC 57.949 47.619 22.83 3.56 0.00 3.32
84 85 2.369860 AGACTCATGAGCAGGAACAACA 59.630 45.455 22.83 0.00 0.00 3.33
86 87 2.105477 ACTCATGAGCAGGAACAACACT 59.895 45.455 22.83 0.00 0.00 3.55
87 88 3.324846 ACTCATGAGCAGGAACAACACTA 59.675 43.478 22.83 0.00 0.00 2.74
88 89 3.664107 TCATGAGCAGGAACAACACTAC 58.336 45.455 0.00 0.00 0.00 2.73
89 90 2.148916 TGAGCAGGAACAACACTACG 57.851 50.000 0.00 0.00 0.00 3.51
90 91 0.790814 GAGCAGGAACAACACTACGC 59.209 55.000 0.00 0.00 0.00 4.42
91 92 0.105964 AGCAGGAACAACACTACGCA 59.894 50.000 0.00 0.00 0.00 5.24
92 93 1.156736 GCAGGAACAACACTACGCAT 58.843 50.000 0.00 0.00 0.00 4.73
95 96 3.187637 GCAGGAACAACACTACGCATAAA 59.812 43.478 0.00 0.00 0.00 1.40
97 98 4.688879 CAGGAACAACACTACGCATAAAGA 59.311 41.667 0.00 0.00 0.00 2.52
100 101 5.121768 GGAACAACACTACGCATAAAGACAT 59.878 40.000 0.00 0.00 0.00 3.06
101 102 5.779806 ACAACACTACGCATAAAGACATC 57.220 39.130 0.00 0.00 0.00 3.06
103 104 5.874810 ACAACACTACGCATAAAGACATCAT 59.125 36.000 0.00 0.00 0.00 2.45
104 105 5.973651 ACACTACGCATAAAGACATCATG 57.026 39.130 0.00 0.00 0.00 3.07
105 106 5.419542 ACACTACGCATAAAGACATCATGT 58.580 37.500 0.00 0.00 0.00 3.21
106 107 5.874810 ACACTACGCATAAAGACATCATGTT 59.125 36.000 0.00 0.00 0.00 2.71
108 109 7.094805 ACACTACGCATAAAGACATCATGTTTT 60.095 33.333 0.00 0.00 0.00 2.43
109 110 7.750458 CACTACGCATAAAGACATCATGTTTTT 59.250 33.333 10.87 10.87 38.14 1.94
5761 12363 3.442977 AGTGCGTAGAAACTCGGTAGATT 59.557 43.478 0.00 0.00 0.00 2.40
5762 12364 4.082354 AGTGCGTAGAAACTCGGTAGATTT 60.082 41.667 0.00 0.00 0.00 2.17
5763 12365 4.264849 GTGCGTAGAAACTCGGTAGATTTC 59.735 45.833 0.00 0.00 33.40 2.17
5764 12366 4.082625 TGCGTAGAAACTCGGTAGATTTCA 60.083 41.667 0.00 0.00 35.26 2.69
5765 12367 5.041940 GCGTAGAAACTCGGTAGATTTCAT 58.958 41.667 0.00 0.00 35.26 2.57
5766 12368 5.173492 GCGTAGAAACTCGGTAGATTTCATC 59.827 44.000 0.00 0.00 35.26 2.92
5768 12370 6.973474 CGTAGAAACTCGGTAGATTTCATCTT 59.027 38.462 0.00 0.00 40.76 2.40
5769 12371 7.166142 CGTAGAAACTCGGTAGATTTCATCTTC 59.834 40.741 0.00 0.00 40.76 2.87
5770 12372 7.176589 AGAAACTCGGTAGATTTCATCTTCT 57.823 36.000 0.00 0.00 40.76 2.85
5771 12373 7.616313 AGAAACTCGGTAGATTTCATCTTCTT 58.384 34.615 0.00 0.00 40.76 2.52
5772 12374 7.762159 AGAAACTCGGTAGATTTCATCTTCTTC 59.238 37.037 0.00 0.00 40.76 2.87
5773 12375 5.583495 ACTCGGTAGATTTCATCTTCTTCG 58.417 41.667 0.00 0.00 40.76 3.79
5774 12376 5.357314 ACTCGGTAGATTTCATCTTCTTCGA 59.643 40.000 0.00 0.00 40.76 3.71
5775 12377 6.127703 ACTCGGTAGATTTCATCTTCTTCGAA 60.128 38.462 0.00 0.00 40.76 3.71
5777 12379 6.037098 CGGTAGATTTCATCTTCTTCGAAGT 58.963 40.000 23.85 2.44 40.76 3.01
5778 12380 6.531948 CGGTAGATTTCATCTTCTTCGAAGTT 59.468 38.462 23.85 6.03 40.76 2.66
5779 12381 7.063544 CGGTAGATTTCATCTTCTTCGAAGTTT 59.936 37.037 23.85 5.69 40.76 2.66
5780 12382 9.367444 GGTAGATTTCATCTTCTTCGAAGTTTA 57.633 33.333 23.85 11.13 40.76 2.01
5787 12389 8.928270 TCATCTTCTTCGAAGTTTAATACTCC 57.072 34.615 23.85 0.00 35.54 3.85
5788 12390 7.980099 TCATCTTCTTCGAAGTTTAATACTCCC 59.020 37.037 23.85 0.00 35.54 4.30
5789 12391 7.477945 TCTTCTTCGAAGTTTAATACTCCCT 57.522 36.000 23.85 0.00 35.54 4.20
5790 12392 7.904205 TCTTCTTCGAAGTTTAATACTCCCTT 58.096 34.615 23.85 0.00 35.54 3.95
5791 12393 8.033626 TCTTCTTCGAAGTTTAATACTCCCTTC 58.966 37.037 23.85 0.00 35.54 3.46
5795 12397 6.328507 CGAAGTTTAATACTCCCTTCGTTC 57.671 41.667 10.88 0.00 45.60 3.95
5796 12398 5.290400 CGAAGTTTAATACTCCCTTCGTTCC 59.710 44.000 10.88 0.00 45.60 3.62
5797 12399 6.370186 AAGTTTAATACTCCCTTCGTTCCT 57.630 37.500 0.00 0.00 35.54 3.36
5798 12400 7.486407 AAGTTTAATACTCCCTTCGTTCCTA 57.514 36.000 0.00 0.00 35.54 2.94
5799 12401 7.486407 AGTTTAATACTCCCTTCGTTCCTAA 57.514 36.000 0.00 0.00 28.23 2.69
5800 12402 7.910584 AGTTTAATACTCCCTTCGTTCCTAAA 58.089 34.615 0.00 0.00 28.23 1.85
5801 12403 8.546322 AGTTTAATACTCCCTTCGTTCCTAAAT 58.454 33.333 0.00 0.00 28.23 1.40
5802 12404 9.822185 GTTTAATACTCCCTTCGTTCCTAAATA 57.178 33.333 0.00 0.00 0.00 1.40
5806 12408 6.099159 ACTCCCTTCGTTCCTAAATATAGC 57.901 41.667 0.00 0.00 0.00 2.97
5808 12410 6.270231 ACTCCCTTCGTTCCTAAATATAGCAT 59.730 38.462 0.00 0.00 0.00 3.79
5809 12411 6.464222 TCCCTTCGTTCCTAAATATAGCATG 58.536 40.000 0.00 0.00 0.00 4.06
5810 12412 6.042781 TCCCTTCGTTCCTAAATATAGCATGT 59.957 38.462 0.00 0.00 0.00 3.21
5811 12413 6.369065 CCCTTCGTTCCTAAATATAGCATGTC 59.631 42.308 0.00 0.00 0.00 3.06
5812 12414 7.155328 CCTTCGTTCCTAAATATAGCATGTCT 58.845 38.462 0.00 0.00 0.00 3.41
5815 12417 8.589335 TCGTTCCTAAATATAGCATGTCTTTC 57.411 34.615 0.00 0.00 0.00 2.62
5816 12418 8.421784 TCGTTCCTAAATATAGCATGTCTTTCT 58.578 33.333 0.00 0.00 0.00 2.52
5883 12485 7.138692 AGTGTAGATTCACTCATTTTGCTTC 57.861 36.000 0.00 0.00 44.07 3.86
5884 12486 6.939163 AGTGTAGATTCACTCATTTTGCTTCT 59.061 34.615 0.00 0.00 44.07 2.85
5885 12487 7.446625 AGTGTAGATTCACTCATTTTGCTTCTT 59.553 33.333 0.00 0.00 44.07 2.52
5887 12489 9.453572 TGTAGATTCACTCATTTTGCTTCTTAT 57.546 29.630 0.00 0.00 0.00 1.73
5892 12494 5.769662 TCACTCATTTTGCTTCTTATGTGGT 59.230 36.000 0.00 0.00 0.00 4.16
5893 12495 6.072508 TCACTCATTTTGCTTCTTATGTGGTC 60.073 38.462 0.00 0.00 0.00 4.02
5894 12496 6.006449 ACTCATTTTGCTTCTTATGTGGTCT 58.994 36.000 0.00 0.00 0.00 3.85
5895 12497 7.119699 CACTCATTTTGCTTCTTATGTGGTCTA 59.880 37.037 0.00 0.00 0.00 2.59
5896 12498 7.831193 ACTCATTTTGCTTCTTATGTGGTCTAT 59.169 33.333 0.00 0.00 0.00 1.98
5897 12499 9.330063 CTCATTTTGCTTCTTATGTGGTCTATA 57.670 33.333 0.00 0.00 0.00 1.31
5898 12500 9.851686 TCATTTTGCTTCTTATGTGGTCTATAT 57.148 29.630 0.00 0.00 0.00 0.86
5901 12503 9.679661 TTTTGCTTCTTATGTGGTCTATATTGA 57.320 29.630 0.00 0.00 0.00 2.57
5902 12504 9.679661 TTTGCTTCTTATGTGGTCTATATTGAA 57.320 29.630 0.00 0.00 0.00 2.69
5903 12505 9.679661 TTGCTTCTTATGTGGTCTATATTGAAA 57.320 29.630 0.00 0.00 0.00 2.69
5904 12506 9.851686 TGCTTCTTATGTGGTCTATATTGAAAT 57.148 29.630 0.00 0.00 0.00 2.17
5937 12539 7.563888 AAACTTATATTTAGAAACGGAGGGC 57.436 36.000 0.00 0.00 0.00 5.19
5938 12540 5.295152 ACTTATATTTAGAAACGGAGGGCG 58.705 41.667 0.00 0.00 0.00 6.13
5939 12541 3.832615 ATATTTAGAAACGGAGGGCGT 57.167 42.857 0.00 0.00 0.00 5.68
5940 12542 4.942761 ATATTTAGAAACGGAGGGCGTA 57.057 40.909 0.00 0.00 0.00 4.42
5941 12543 3.615224 ATTTAGAAACGGAGGGCGTAA 57.385 42.857 0.00 0.00 0.00 3.18
5957 12559 2.354805 GCGTAATTCCTGGTCAAGTCCT 60.355 50.000 0.00 0.00 0.00 3.85
5958 12560 3.522553 CGTAATTCCTGGTCAAGTCCTC 58.477 50.000 0.00 0.00 0.00 3.71
5963 12565 1.298014 CTGGTCAAGTCCTCCAGGC 59.702 63.158 0.00 0.00 43.30 4.85
5974 12576 4.421554 TCCAGGCAGGAGGGAGGG 62.422 72.222 0.00 0.00 43.07 4.30
5976 12578 2.285668 CAGGCAGGAGGGAGGGAA 60.286 66.667 0.00 0.00 0.00 3.97
5977 12579 1.695597 CAGGCAGGAGGGAGGGAAT 60.696 63.158 0.00 0.00 0.00 3.01
5978 12580 1.385206 AGGCAGGAGGGAGGGAATC 60.385 63.158 0.00 0.00 0.00 2.52
5979 12581 1.385206 GGCAGGAGGGAGGGAATCT 60.385 63.158 0.00 0.00 0.00 2.40
5980 12582 0.990818 GGCAGGAGGGAGGGAATCTT 60.991 60.000 0.00 0.00 0.00 2.40
5981 12583 0.472044 GCAGGAGGGAGGGAATCTTC 59.528 60.000 0.00 0.00 0.00 2.87
5983 12585 2.694303 GCAGGAGGGAGGGAATCTTCTA 60.694 54.545 0.00 0.00 0.00 2.10
5984 12586 3.868062 CAGGAGGGAGGGAATCTTCTAT 58.132 50.000 0.00 0.00 0.00 1.98
5985 12587 4.757645 GCAGGAGGGAGGGAATCTTCTATA 60.758 50.000 0.00 0.00 0.00 1.31
5986 12588 5.022787 CAGGAGGGAGGGAATCTTCTATAG 58.977 50.000 0.00 0.00 0.00 1.31
5988 12590 4.512024 GGAGGGAGGGAATCTTCTATAGCT 60.512 50.000 0.00 0.00 0.00 3.32
5991 12593 5.029474 GGGAGGGAATCTTCTATAGCTCAT 58.971 45.833 0.00 0.00 0.00 2.90
5992 12594 5.128663 GGGAGGGAATCTTCTATAGCTCATC 59.871 48.000 0.00 0.00 0.00 2.92
5993 12595 5.719085 GGAGGGAATCTTCTATAGCTCATCA 59.281 44.000 0.00 0.00 0.00 3.07
5994 12596 6.127366 GGAGGGAATCTTCTATAGCTCATCAG 60.127 46.154 0.00 0.00 0.00 2.90
5995 12597 5.721000 AGGGAATCTTCTATAGCTCATCAGG 59.279 44.000 0.00 0.00 0.00 3.86
5996 12598 5.104982 GGGAATCTTCTATAGCTCATCAGGG 60.105 48.000 0.00 0.00 0.00 4.45
5998 12600 6.350949 GGAATCTTCTATAGCTCATCAGGGTC 60.351 46.154 0.00 0.00 0.00 4.46
5999 12601 5.332106 TCTTCTATAGCTCATCAGGGTCT 57.668 43.478 0.00 0.00 0.00 3.85
6002 12604 2.666272 ATAGCTCATCAGGGTCTCGA 57.334 50.000 0.00 0.00 0.00 4.04
6003 12605 1.974265 TAGCTCATCAGGGTCTCGAG 58.026 55.000 5.93 5.93 0.00 4.04
6005 12607 1.670949 GCTCATCAGGGTCTCGAGCA 61.671 60.000 7.81 0.00 46.55 4.26
6006 12608 0.102120 CTCATCAGGGTCTCGAGCAC 59.898 60.000 7.81 4.11 0.00 4.40
6007 12609 0.611896 TCATCAGGGTCTCGAGCACA 60.612 55.000 7.81 0.00 0.00 4.57
6010 12612 1.393603 TCAGGGTCTCGAGCACATAG 58.606 55.000 7.81 0.00 0.00 2.23
6040 12803 2.666098 GGGTAAAGCCAGCGGAGGA 61.666 63.158 0.00 0.00 39.65 3.71
6047 12810 1.302511 GCCAGCGGAGGAGTCAAAA 60.303 57.895 0.00 0.00 0.00 2.44
6050 12813 1.065854 CCAGCGGAGGAGTCAAAAGAT 60.066 52.381 0.00 0.00 0.00 2.40
6058 12821 1.128692 GGAGTCAAAAGATCAACGCCG 59.871 52.381 0.00 0.00 0.00 6.46
6076 12839 0.248289 CGGCGAAAAGGAAGGGACTA 59.752 55.000 0.00 0.00 38.49 2.59
6078 12841 1.370609 GCGAAAAGGAAGGGACTAGC 58.629 55.000 0.00 0.00 38.49 3.42
6079 12842 1.066071 GCGAAAAGGAAGGGACTAGCT 60.066 52.381 0.00 0.00 38.49 3.32
6081 12844 2.735762 CGAAAAGGAAGGGACTAGCTCG 60.736 54.545 0.00 0.00 38.49 5.03
6101 12868 4.514577 CTACCGCTCCACGCTGGG 62.515 72.222 4.52 0.00 41.76 4.45
6108 12877 2.119611 TCCACGCTGGGAGGAAGA 59.880 61.111 8.37 0.00 38.32 2.87
6117 12886 3.623510 CGCTGGGAGGAAGAAAAATCTAC 59.376 47.826 0.00 0.00 0.00 2.59
6120 12889 5.179452 TGGGAGGAAGAAAAATCTACCTG 57.821 43.478 0.00 0.00 31.60 4.00
6121 12890 4.601857 TGGGAGGAAGAAAAATCTACCTGT 59.398 41.667 0.00 0.00 31.60 4.00
6122 12891 5.788533 TGGGAGGAAGAAAAATCTACCTGTA 59.211 40.000 0.00 0.00 31.60 2.74
6129 12909 7.333672 GGAAGAAAAATCTACCTGTACACGATT 59.666 37.037 0.00 0.00 0.00 3.34
6136 12916 4.919168 TCTACCTGTACACGATTTTTGACG 59.081 41.667 0.00 0.00 0.00 4.35
6141 12921 2.741122 ACACGATTTTTGACGCGAAA 57.259 40.000 15.93 2.39 0.00 3.46
6147 12927 3.297979 CGATTTTTGACGCGAAAATCCAG 59.702 43.478 25.97 16.02 44.78 3.86
6163 12943 1.618837 TCCAGAGAAACTTCCCGTGAG 59.381 52.381 0.00 0.00 0.00 3.51
6175 12955 2.363795 CGTGAGGGCTGAGGGGTA 60.364 66.667 0.00 0.00 0.00 3.69
6176 12956 2.722201 CGTGAGGGCTGAGGGGTAC 61.722 68.421 0.00 0.00 0.00 3.34
6177 12957 1.612442 GTGAGGGCTGAGGGGTACA 60.612 63.158 0.00 0.00 0.00 2.90
6178 12958 1.612442 TGAGGGCTGAGGGGTACAC 60.612 63.158 0.00 0.00 0.00 2.90
6179 12959 2.285442 AGGGCTGAGGGGTACACC 60.285 66.667 5.83 5.83 39.11 4.16
6191 12971 1.734117 GTACACCCGTACGCCACAC 60.734 63.158 10.49 0.00 38.77 3.82
6204 12987 1.971167 CCACACCATCACCGTTGGG 60.971 63.158 0.00 0.00 38.64 4.12
6279 13068 2.260088 TTTGATAACCTCCGGCCCCG 62.260 60.000 0.00 0.00 39.44 5.73
6406 13203 0.250513 CGCCTATATTCCAGCCTCCC 59.749 60.000 0.00 0.00 0.00 4.30
6407 13204 0.621082 GCCTATATTCCAGCCTCCCC 59.379 60.000 0.00 0.00 0.00 4.81
6408 13205 1.837454 GCCTATATTCCAGCCTCCCCT 60.837 57.143 0.00 0.00 0.00 4.79
6409 13206 2.192263 CCTATATTCCAGCCTCCCCTC 58.808 57.143 0.00 0.00 0.00 4.30
6410 13207 2.225753 CCTATATTCCAGCCTCCCCTCT 60.226 54.545 0.00 0.00 0.00 3.69
6411 13208 2.037385 ATATTCCAGCCTCCCCTCTC 57.963 55.000 0.00 0.00 0.00 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 3.384467 CCCTTTTTCTGAGCTTTGTGGAA 59.616 43.478 0.00 0.00 0.00 3.53
12 13 3.320256 AGCTTCCCTTTTTCTGAGCTTTG 59.680 43.478 0.00 0.00 0.00 2.77
19 20 3.058914 CACGTACAGCTTCCCTTTTTCTG 60.059 47.826 0.00 0.00 0.00 3.02
23 24 1.235724 GCACGTACAGCTTCCCTTTT 58.764 50.000 0.00 0.00 0.00 2.27
24 25 0.949105 CGCACGTACAGCTTCCCTTT 60.949 55.000 5.84 0.00 0.00 3.11
26 27 2.261671 CGCACGTACAGCTTCCCT 59.738 61.111 5.84 0.00 0.00 4.20
27 28 3.488090 GCGCACGTACAGCTTCCC 61.488 66.667 0.30 0.00 0.00 3.97
28 29 2.736995 TGCGCACGTACAGCTTCC 60.737 61.111 5.66 0.00 0.00 3.46
29 30 0.731514 TAGTGCGCACGTACAGCTTC 60.732 55.000 32.94 7.07 36.20 3.86
30 31 1.007336 GTAGTGCGCACGTACAGCTT 61.007 55.000 32.94 16.69 36.20 3.74
32 33 2.442188 GGTAGTGCGCACGTACAGC 61.442 63.158 31.99 25.13 36.20 4.40
33 34 2.150218 CGGTAGTGCGCACGTACAG 61.150 63.158 31.99 27.96 36.20 2.74
34 35 2.126773 CGGTAGTGCGCACGTACA 60.127 61.111 31.99 20.86 36.20 2.90
35 36 2.877582 CCGGTAGTGCGCACGTAC 60.878 66.667 32.94 29.68 36.20 3.67
36 37 4.781959 GCCGGTAGTGCGCACGTA 62.782 66.667 32.94 22.17 36.20 3.57
42 43 1.573829 AAATGTGTGCCGGTAGTGCG 61.574 55.000 1.90 0.00 0.00 5.34
43 44 1.444836 TAAATGTGTGCCGGTAGTGC 58.555 50.000 1.90 0.00 0.00 4.40
45 46 3.007614 AGTCTTAAATGTGTGCCGGTAGT 59.992 43.478 1.90 0.00 0.00 2.73
48 49 2.224426 TGAGTCTTAAATGTGTGCCGGT 60.224 45.455 1.90 0.00 0.00 5.28
49 50 2.422597 TGAGTCTTAAATGTGTGCCGG 58.577 47.619 0.00 0.00 0.00 6.13
51 52 4.437930 GCTCATGAGTCTTAAATGTGTGCC 60.438 45.833 23.38 0.00 0.00 5.01
53 54 5.163784 CCTGCTCATGAGTCTTAAATGTGTG 60.164 44.000 23.38 0.00 0.00 3.82
55 56 5.181009 TCCTGCTCATGAGTCTTAAATGTG 58.819 41.667 23.38 0.00 0.00 3.21
56 57 5.426689 TCCTGCTCATGAGTCTTAAATGT 57.573 39.130 23.38 0.00 0.00 2.71
57 58 5.645067 TGTTCCTGCTCATGAGTCTTAAATG 59.355 40.000 23.38 5.00 0.00 2.32
58 59 5.809001 TGTTCCTGCTCATGAGTCTTAAAT 58.191 37.500 23.38 0.00 0.00 1.40
59 60 5.227569 TGTTCCTGCTCATGAGTCTTAAA 57.772 39.130 23.38 9.52 0.00 1.52
60 61 4.890158 TGTTCCTGCTCATGAGTCTTAA 57.110 40.909 23.38 10.81 0.00 1.85
61 62 4.040339 TGTTGTTCCTGCTCATGAGTCTTA 59.960 41.667 23.38 7.60 0.00 2.10
64 65 2.481952 GTGTTGTTCCTGCTCATGAGTC 59.518 50.000 23.38 15.78 0.00 3.36
65 66 2.105477 AGTGTTGTTCCTGCTCATGAGT 59.895 45.455 23.38 0.00 0.00 3.41
66 67 2.775890 AGTGTTGTTCCTGCTCATGAG 58.224 47.619 18.84 18.84 0.00 2.90
67 68 2.936919 AGTGTTGTTCCTGCTCATGA 57.063 45.000 0.00 0.00 0.00 3.07
68 69 2.413112 CGTAGTGTTGTTCCTGCTCATG 59.587 50.000 0.00 0.00 0.00 3.07
70 71 1.872237 GCGTAGTGTTGTTCCTGCTCA 60.872 52.381 0.00 0.00 0.00 4.26
71 72 0.790814 GCGTAGTGTTGTTCCTGCTC 59.209 55.000 0.00 0.00 0.00 4.26
72 73 0.105964 TGCGTAGTGTTGTTCCTGCT 59.894 50.000 0.00 0.00 0.00 4.24
74 75 4.688879 TCTTTATGCGTAGTGTTGTTCCTG 59.311 41.667 0.00 0.00 0.00 3.86
76 77 4.449743 TGTCTTTATGCGTAGTGTTGTTCC 59.550 41.667 0.00 0.00 0.00 3.62
78 79 5.699001 TGATGTCTTTATGCGTAGTGTTGTT 59.301 36.000 0.00 0.00 0.00 2.83
79 80 5.234752 TGATGTCTTTATGCGTAGTGTTGT 58.765 37.500 0.00 0.00 0.00 3.32
81 82 5.874810 ACATGATGTCTTTATGCGTAGTGTT 59.125 36.000 0.00 0.00 0.00 3.32
82 83 5.419542 ACATGATGTCTTTATGCGTAGTGT 58.580 37.500 0.00 0.00 0.00 3.55
83 84 5.973651 ACATGATGTCTTTATGCGTAGTG 57.026 39.130 0.00 0.00 0.00 2.74
84 85 6.985188 AAACATGATGTCTTTATGCGTAGT 57.015 33.333 0.00 0.00 0.00 2.73
110 111 2.302260 TGATGTCTTGACCCGCAAAAA 58.698 42.857 0.00 0.00 35.74 1.94
112 113 1.811965 CATGATGTCTTGACCCGCAAA 59.188 47.619 0.00 0.00 35.74 3.68
113 114 1.271325 ACATGATGTCTTGACCCGCAA 60.271 47.619 0.00 0.00 34.73 4.85
115 116 1.453155 AACATGATGTCTTGACCCGC 58.547 50.000 0.00 0.00 0.00 6.13
116 117 3.073678 TGAAACATGATGTCTTGACCCG 58.926 45.455 0.00 0.00 0.00 5.28
117 118 6.115446 TCTATGAAACATGATGTCTTGACCC 58.885 40.000 0.00 0.00 0.00 4.46
5761 12363 9.367444 GGAGTATTAAACTTCGAAGAAGATGAA 57.633 33.333 31.08 15.03 45.90 2.57
5762 12364 7.980099 GGGAGTATTAAACTTCGAAGAAGATGA 59.020 37.037 31.08 11.78 45.90 2.92
5763 12365 7.982354 AGGGAGTATTAAACTTCGAAGAAGATG 59.018 37.037 31.08 5.17 45.90 2.90
5764 12366 8.080363 AGGGAGTATTAAACTTCGAAGAAGAT 57.920 34.615 31.08 18.96 45.90 2.40
5765 12367 7.477945 AGGGAGTATTAAACTTCGAAGAAGA 57.522 36.000 31.08 10.07 45.90 2.87
5766 12368 8.187354 GAAGGGAGTATTAAACTTCGAAGAAG 57.813 38.462 31.08 6.61 45.90 2.85
5773 12375 6.404708 AGGAACGAAGGGAGTATTAAACTTC 58.595 40.000 0.00 0.00 39.07 3.01
5774 12376 6.370186 AGGAACGAAGGGAGTATTAAACTT 57.630 37.500 0.00 0.00 39.07 2.66
5775 12377 7.486407 TTAGGAACGAAGGGAGTATTAAACT 57.514 36.000 0.00 0.00 42.80 2.66
5780 12382 8.312564 GCTATATTTAGGAACGAAGGGAGTATT 58.687 37.037 0.00 0.00 0.00 1.89
5781 12383 7.453752 TGCTATATTTAGGAACGAAGGGAGTAT 59.546 37.037 0.00 0.00 0.00 2.12
5784 12386 6.097915 TGCTATATTTAGGAACGAAGGGAG 57.902 41.667 0.00 0.00 0.00 4.30
5785 12387 6.042781 ACATGCTATATTTAGGAACGAAGGGA 59.957 38.462 0.00 0.00 28.80 4.20
5786 12388 6.231211 ACATGCTATATTTAGGAACGAAGGG 58.769 40.000 0.00 0.00 28.80 3.95
5787 12389 7.155328 AGACATGCTATATTTAGGAACGAAGG 58.845 38.462 0.00 0.00 28.80 3.46
5788 12390 8.594881 AAGACATGCTATATTTAGGAACGAAG 57.405 34.615 0.00 0.00 28.80 3.79
5789 12391 8.958119 AAAGACATGCTATATTTAGGAACGAA 57.042 30.769 0.00 0.00 28.80 3.85
5790 12392 8.421784 AGAAAGACATGCTATATTTAGGAACGA 58.578 33.333 0.00 0.00 28.80 3.85
5791 12393 8.594881 AGAAAGACATGCTATATTTAGGAACG 57.405 34.615 0.00 0.00 28.80 3.95
5845 12447 9.817809 GTGAATCTACACTCTAAAATACATCCA 57.182 33.333 0.00 0.00 37.73 3.41
5860 12462 7.138692 AGAAGCAAAATGAGTGAATCTACAC 57.861 36.000 0.00 0.00 40.60 2.90
5861 12463 7.750229 AAGAAGCAAAATGAGTGAATCTACA 57.250 32.000 0.00 0.00 0.00 2.74
5862 12464 9.713740 CATAAGAAGCAAAATGAGTGAATCTAC 57.286 33.333 0.00 0.00 0.00 2.59
5864 12466 8.242053 CACATAAGAAGCAAAATGAGTGAATCT 58.758 33.333 0.00 0.00 0.00 2.40
5865 12467 7.487189 CCACATAAGAAGCAAAATGAGTGAATC 59.513 37.037 0.00 0.00 0.00 2.52
5866 12468 7.039504 ACCACATAAGAAGCAAAATGAGTGAAT 60.040 33.333 0.00 0.00 0.00 2.57
5867 12469 6.265196 ACCACATAAGAAGCAAAATGAGTGAA 59.735 34.615 0.00 0.00 0.00 3.18
5872 12474 9.851686 ATATAGACCACATAAGAAGCAAAATGA 57.148 29.630 0.00 0.00 0.00 2.57
5875 12477 9.679661 TCAATATAGACCACATAAGAAGCAAAA 57.320 29.630 0.00 0.00 0.00 2.44
5876 12478 9.679661 TTCAATATAGACCACATAAGAAGCAAA 57.320 29.630 0.00 0.00 0.00 3.68
5878 12480 9.851686 ATTTCAATATAGACCACATAAGAAGCA 57.148 29.630 0.00 0.00 0.00 3.91
5911 12513 8.464404 GCCCTCCGTTTCTAAATATAAGTTTTT 58.536 33.333 0.00 0.00 0.00 1.94
5912 12514 7.201670 CGCCCTCCGTTTCTAAATATAAGTTTT 60.202 37.037 0.00 0.00 0.00 2.43
5913 12515 6.259387 CGCCCTCCGTTTCTAAATATAAGTTT 59.741 38.462 0.00 0.00 0.00 2.66
5914 12516 5.756833 CGCCCTCCGTTTCTAAATATAAGTT 59.243 40.000 0.00 0.00 0.00 2.66
5915 12517 5.295152 CGCCCTCCGTTTCTAAATATAAGT 58.705 41.667 0.00 0.00 0.00 2.24
5916 12518 5.840940 CGCCCTCCGTTTCTAAATATAAG 57.159 43.478 0.00 0.00 0.00 1.73
5930 12532 1.227556 CCAGGAATTACGCCCTCCG 60.228 63.158 0.00 0.00 44.21 4.63
5931 12533 0.179054 GACCAGGAATTACGCCCTCC 60.179 60.000 0.00 0.00 0.00 4.30
5932 12534 0.539986 TGACCAGGAATTACGCCCTC 59.460 55.000 0.00 0.00 0.00 4.30
5933 12535 0.988832 TTGACCAGGAATTACGCCCT 59.011 50.000 0.00 0.00 0.00 5.19
5934 12536 1.339727 ACTTGACCAGGAATTACGCCC 60.340 52.381 0.00 0.00 0.00 6.13
5935 12537 2.007608 GACTTGACCAGGAATTACGCC 58.992 52.381 0.00 0.00 0.00 5.68
5936 12538 2.007608 GGACTTGACCAGGAATTACGC 58.992 52.381 0.00 0.00 0.00 4.42
5937 12539 3.522553 GAGGACTTGACCAGGAATTACG 58.477 50.000 0.00 0.00 0.00 3.18
5938 12540 3.263425 TGGAGGACTTGACCAGGAATTAC 59.737 47.826 0.00 0.00 0.00 1.89
5939 12541 3.519510 CTGGAGGACTTGACCAGGAATTA 59.480 47.826 0.00 0.00 44.96 1.40
5940 12542 2.307098 CTGGAGGACTTGACCAGGAATT 59.693 50.000 0.00 0.00 44.96 2.17
5941 12543 1.912043 CTGGAGGACTTGACCAGGAAT 59.088 52.381 0.00 0.00 44.96 3.01
5957 12559 4.421554 CCCTCCCTCCTGCCTGGA 62.422 72.222 0.00 0.00 43.86 3.86
5958 12560 3.950861 TTCCCTCCCTCCTGCCTGG 62.951 68.421 0.00 0.00 37.10 4.45
5963 12565 2.188818 AGAAGATTCCCTCCCTCCTG 57.811 55.000 0.00 0.00 0.00 3.86
5968 12570 4.421131 TGAGCTATAGAAGATTCCCTCCC 58.579 47.826 3.21 0.00 0.00 4.30
5973 12575 5.483583 ACCCTGATGAGCTATAGAAGATTCC 59.516 44.000 3.21 0.00 0.00 3.01
5974 12576 6.437162 AGACCCTGATGAGCTATAGAAGATTC 59.563 42.308 3.21 0.00 0.00 2.52
5976 12578 5.902760 AGACCCTGATGAGCTATAGAAGAT 58.097 41.667 3.21 0.00 0.00 2.40
5977 12579 5.321102 GAGACCCTGATGAGCTATAGAAGA 58.679 45.833 3.21 0.00 0.00 2.87
5978 12580 4.155826 CGAGACCCTGATGAGCTATAGAAG 59.844 50.000 3.21 0.00 0.00 2.85
5979 12581 4.075682 CGAGACCCTGATGAGCTATAGAA 58.924 47.826 3.21 0.00 0.00 2.10
5980 12582 3.328050 TCGAGACCCTGATGAGCTATAGA 59.672 47.826 3.21 0.00 0.00 1.98
5981 12583 3.680490 TCGAGACCCTGATGAGCTATAG 58.320 50.000 0.00 0.00 0.00 1.31
5983 12585 2.513753 CTCGAGACCCTGATGAGCTAT 58.486 52.381 6.58 0.00 0.00 2.97
5984 12586 1.974265 CTCGAGACCCTGATGAGCTA 58.026 55.000 6.58 0.00 0.00 3.32
5985 12587 1.391157 GCTCGAGACCCTGATGAGCT 61.391 60.000 18.75 0.00 46.45 4.09
5986 12588 1.067250 GCTCGAGACCCTGATGAGC 59.933 63.158 18.75 0.00 44.37 4.26
5988 12590 0.611896 TGTGCTCGAGACCCTGATGA 60.612 55.000 18.75 0.00 0.00 2.92
5991 12593 1.393603 CTATGTGCTCGAGACCCTGA 58.606 55.000 18.75 0.00 0.00 3.86
5992 12594 0.249238 GCTATGTGCTCGAGACCCTG 60.249 60.000 18.75 2.02 38.95 4.45
5993 12595 1.395826 GGCTATGTGCTCGAGACCCT 61.396 60.000 18.75 0.61 42.39 4.34
5994 12596 1.068250 GGCTATGTGCTCGAGACCC 59.932 63.158 18.75 2.85 42.39 4.46
5995 12597 0.249238 CAGGCTATGTGCTCGAGACC 60.249 60.000 18.75 5.66 42.39 3.85
5996 12598 0.249238 CCAGGCTATGTGCTCGAGAC 60.249 60.000 18.75 12.04 42.39 3.36
5998 12600 1.593750 GCCAGGCTATGTGCTCGAG 60.594 63.158 8.45 8.45 42.39 4.04
5999 12601 2.501128 GCCAGGCTATGTGCTCGA 59.499 61.111 3.29 0.00 42.39 4.04
6002 12604 4.181010 CCGGCCAGGCTATGTGCT 62.181 66.667 12.43 0.00 42.39 4.40
6024 12787 0.460459 GACTCCTCCGCTGGCTTTAC 60.460 60.000 0.00 0.00 0.00 2.01
6035 12798 2.416893 GCGTTGATCTTTTGACTCCTCC 59.583 50.000 0.00 0.00 0.00 4.30
6036 12799 2.416893 GGCGTTGATCTTTTGACTCCTC 59.583 50.000 0.00 0.00 0.00 3.71
6040 12803 1.156736 CCGGCGTTGATCTTTTGACT 58.843 50.000 6.01 0.00 0.00 3.41
6047 12810 1.635663 CTTTTCGCCGGCGTTGATCT 61.636 55.000 44.16 0.00 40.74 2.75
6050 12813 3.350612 CCTTTTCGCCGGCGTTGA 61.351 61.111 44.16 29.34 40.74 3.18
6058 12821 2.012554 GCTAGTCCCTTCCTTTTCGCC 61.013 57.143 0.00 0.00 0.00 5.54
6093 12860 1.604604 TTTTTCTTCCTCCCAGCGTG 58.395 50.000 0.00 0.00 0.00 5.34
6096 12863 3.948473 GGTAGATTTTTCTTCCTCCCAGC 59.052 47.826 0.00 0.00 0.00 4.85
6097 12864 5.189180 CAGGTAGATTTTTCTTCCTCCCAG 58.811 45.833 0.00 0.00 35.69 4.45
6098 12865 4.601857 ACAGGTAGATTTTTCTTCCTCCCA 59.398 41.667 0.00 0.00 35.69 4.37
6099 12866 5.180810 ACAGGTAGATTTTTCTTCCTCCC 57.819 43.478 0.00 0.00 35.69 4.30
6100 12867 6.594547 GTGTACAGGTAGATTTTTCTTCCTCC 59.405 42.308 0.00 0.00 35.69 4.30
6101 12868 6.310711 CGTGTACAGGTAGATTTTTCTTCCTC 59.689 42.308 7.41 0.00 35.69 3.71
6117 12886 2.720590 CGCGTCAAAAATCGTGTACAGG 60.721 50.000 9.30 9.30 33.73 4.00
6120 12889 2.841070 TCGCGTCAAAAATCGTGTAC 57.159 45.000 5.77 0.00 38.46 2.90
6121 12890 3.856104 TTTCGCGTCAAAAATCGTGTA 57.144 38.095 5.77 0.00 38.46 2.90
6122 12891 2.741122 TTTCGCGTCAAAAATCGTGT 57.259 40.000 5.77 0.00 38.46 4.49
6129 12909 3.135225 TCTCTGGATTTTCGCGTCAAAA 58.865 40.909 5.77 7.12 0.00 2.44
6136 12916 3.119814 GGGAAGTTTCTCTGGATTTTCGC 60.120 47.826 0.00 0.00 0.00 4.70
6141 12921 2.637872 TCACGGGAAGTTTCTCTGGATT 59.362 45.455 0.00 0.00 0.00 3.01
6172 12952 2.125952 GTGGCGTACGGGTGTACC 60.126 66.667 18.39 8.89 46.71 3.34
6173 12953 1.734117 GTGTGGCGTACGGGTGTAC 60.734 63.158 18.39 0.00 46.09 2.90
6174 12954 2.650196 GTGTGGCGTACGGGTGTA 59.350 61.111 18.39 0.00 0.00 2.90
6175 12955 4.303993 GGTGTGGCGTACGGGTGT 62.304 66.667 18.39 0.00 0.00 4.16
6176 12956 3.599285 ATGGTGTGGCGTACGGGTG 62.599 63.158 18.39 0.00 0.00 4.61
6177 12957 3.305177 GATGGTGTGGCGTACGGGT 62.305 63.158 18.39 0.00 0.00 5.28
6178 12958 2.510691 GATGGTGTGGCGTACGGG 60.511 66.667 18.39 0.00 0.00 5.28
6179 12959 2.098233 GTGATGGTGTGGCGTACGG 61.098 63.158 18.39 0.00 0.00 4.02
6180 12960 2.098233 GGTGATGGTGTGGCGTACG 61.098 63.158 11.84 11.84 0.00 3.67


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

AutoCloner maintained by Alex Coulton.