Multiple sequence alignment - TraesCS5B01G055800

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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 TraesCS5B01G055800 chr5B 100.000 2585 0 0 1 2585 61393580 61396164 0.000000e+00 4774.0
1 TraesCS5B01G055800 chr5B 86.207 58 6 2 779 834 61394271 61394328 7.720000e-06 62.1
2 TraesCS5B01G055800 chr5B 86.207 58 6 2 692 749 61394358 61394413 7.720000e-06 62.1
3 TraesCS5B01G055800 chr1D 92.049 1132 72 8 120 1250 474455040 474456154 0.000000e+00 1576.0
4 TraesCS5B01G055800 chr1D 93.156 979 63 4 1608 2585 474577676 474576701 0.000000e+00 1434.0
5 TraesCS5B01G055800 chr1D 92.850 979 68 2 1608 2585 259379000 259379977 0.000000e+00 1419.0
6 TraesCS5B01G055800 chr1D 92.143 980 74 3 1608 2585 194720552 194721530 0.000000e+00 1380.0
7 TraesCS5B01G055800 chr1D 92.469 810 53 7 795 1600 458780281 458779476 0.000000e+00 1151.0
8 TraesCS5B01G055800 chr1D 89.515 639 55 5 120 757 458780903 458780276 0.000000e+00 798.0
9 TraesCS5B01G055800 chr4D 93.388 983 62 3 1605 2585 359230517 359231498 0.000000e+00 1452.0
10 TraesCS5B01G055800 chr3D 92.472 983 67 6 1607 2585 271881444 271880465 0.000000e+00 1399.0
11 TraesCS5B01G055800 chr3D 84.462 1358 163 23 120 1473 445099844 445101157 0.000000e+00 1295.0
12 TraesCS5B01G055800 chr2D 92.347 980 72 3 1608 2585 500271160 500272138 0.000000e+00 1391.0
13 TraesCS5B01G055800 chr2D 92.761 815 54 5 795 1607 375622853 375622042 0.000000e+00 1173.0
14 TraesCS5B01G055800 chr2D 92.515 815 56 5 795 1607 375634511 375633700 0.000000e+00 1162.0
15 TraesCS5B01G055800 chr2D 92.147 815 57 7 795 1607 375602675 375601866 0.000000e+00 1144.0
16 TraesCS5B01G055800 chr2D 90.813 566 41 4 120 684 375623490 375622935 0.000000e+00 747.0
17 TraesCS5B01G055800 chr2D 90.602 532 35 4 120 646 292663481 292664002 0.000000e+00 691.0
18 TraesCS5B01G055800 chr2D 90.646 449 39 3 310 757 561855389 561854943 6.160000e-166 593.0
19 TraesCS5B01G055800 chr7D 92.041 980 75 3 1608 2585 162391623 162390645 0.000000e+00 1375.0
20 TraesCS5B01G055800 chr7D 91.895 987 73 7 1603 2585 445734984 445735967 0.000000e+00 1373.0
21 TraesCS5B01G055800 chr7D 92.743 813 51 6 795 1605 88167319 88166513 0.000000e+00 1168.0
22 TraesCS5B01G055800 chr7D 91.166 566 38 5 120 684 88167911 88167357 0.000000e+00 758.0
23 TraesCS5B01G055800 chr7D 89.962 528 42 4 120 646 406899686 406900203 0.000000e+00 671.0
24 TraesCS5B01G055800 chr7D 97.368 76 1 1 1 75 59674215 59674140 7.510000e-26 128.0
25 TraesCS5B01G055800 chr2B 92.033 979 76 2 1608 2585 228946182 228947159 0.000000e+00 1375.0
26 TraesCS5B01G055800 chr5D 84.168 1358 171 18 121 1473 69908384 69909702 0.000000e+00 1277.0
27 TraesCS5B01G055800 chr5D 92.875 814 54 4 795 1607 423456193 423457003 0.000000e+00 1179.0
28 TraesCS5B01G055800 chr5D 90.513 643 50 4 116 757 423455566 423456198 0.000000e+00 839.0
29 TraesCS5B01G055800 chr7A 83.186 1362 184 26 117 1473 694810734 694812055 0.000000e+00 1205.0
30 TraesCS5B01G055800 chr7A 81.638 403 63 10 117 518 694947827 694948219 8.920000e-85 324.0
31 TraesCS5B01G055800 chr7A 81.638 403 63 9 117 518 694977079 694977471 8.920000e-85 324.0
32 TraesCS5B01G055800 chr6D 92.963 810 51 6 795 1600 28006745 28007552 0.000000e+00 1175.0
33 TraesCS5B01G055800 chr6D 89.969 638 52 5 120 757 28006125 28006750 0.000000e+00 813.0
34 TraesCS5B01G055800 chr2A 92.980 641 43 2 795 1433 772865506 772866146 0.000000e+00 933.0


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 TraesCS5B01G055800 chr5B 61393580 61396164 2584 False 1632.733333 4774 90.804667 1 2585 3 chr5B.!!$F1 2584
1 TraesCS5B01G055800 chr1D 474455040 474456154 1114 False 1576.000000 1576 92.049000 120 1250 1 chr1D.!!$F3 1130
2 TraesCS5B01G055800 chr1D 474576701 474577676 975 True 1434.000000 1434 93.156000 1608 2585 1 chr1D.!!$R1 977
3 TraesCS5B01G055800 chr1D 259379000 259379977 977 False 1419.000000 1419 92.850000 1608 2585 1 chr1D.!!$F2 977
4 TraesCS5B01G055800 chr1D 194720552 194721530 978 False 1380.000000 1380 92.143000 1608 2585 1 chr1D.!!$F1 977
5 TraesCS5B01G055800 chr1D 458779476 458780903 1427 True 974.500000 1151 90.992000 120 1600 2 chr1D.!!$R2 1480
6 TraesCS5B01G055800 chr4D 359230517 359231498 981 False 1452.000000 1452 93.388000 1605 2585 1 chr4D.!!$F1 980
7 TraesCS5B01G055800 chr3D 271880465 271881444 979 True 1399.000000 1399 92.472000 1607 2585 1 chr3D.!!$R1 978
8 TraesCS5B01G055800 chr3D 445099844 445101157 1313 False 1295.000000 1295 84.462000 120 1473 1 chr3D.!!$F1 1353
9 TraesCS5B01G055800 chr2D 500271160 500272138 978 False 1391.000000 1391 92.347000 1608 2585 1 chr2D.!!$F2 977
10 TraesCS5B01G055800 chr2D 375633700 375634511 811 True 1162.000000 1162 92.515000 795 1607 1 chr2D.!!$R2 812
11 TraesCS5B01G055800 chr2D 375601866 375602675 809 True 1144.000000 1144 92.147000 795 1607 1 chr2D.!!$R1 812
12 TraesCS5B01G055800 chr2D 375622042 375623490 1448 True 960.000000 1173 91.787000 120 1607 2 chr2D.!!$R4 1487
13 TraesCS5B01G055800 chr2D 292663481 292664002 521 False 691.000000 691 90.602000 120 646 1 chr2D.!!$F1 526
14 TraesCS5B01G055800 chr7D 162390645 162391623 978 True 1375.000000 1375 92.041000 1608 2585 1 chr7D.!!$R2 977
15 TraesCS5B01G055800 chr7D 445734984 445735967 983 False 1373.000000 1373 91.895000 1603 2585 1 chr7D.!!$F2 982
16 TraesCS5B01G055800 chr7D 88166513 88167911 1398 True 963.000000 1168 91.954500 120 1605 2 chr7D.!!$R3 1485
17 TraesCS5B01G055800 chr7D 406899686 406900203 517 False 671.000000 671 89.962000 120 646 1 chr7D.!!$F1 526
18 TraesCS5B01G055800 chr2B 228946182 228947159 977 False 1375.000000 1375 92.033000 1608 2585 1 chr2B.!!$F1 977
19 TraesCS5B01G055800 chr5D 69908384 69909702 1318 False 1277.000000 1277 84.168000 121 1473 1 chr5D.!!$F1 1352
20 TraesCS5B01G055800 chr5D 423455566 423457003 1437 False 1009.000000 1179 91.694000 116 1607 2 chr5D.!!$F2 1491
21 TraesCS5B01G055800 chr7A 694810734 694812055 1321 False 1205.000000 1205 83.186000 117 1473 1 chr7A.!!$F1 1356
22 TraesCS5B01G055800 chr6D 28006125 28007552 1427 False 994.000000 1175 91.466000 120 1600 2 chr6D.!!$F1 1480
23 TraesCS5B01G055800 chr2A 772865506 772866146 640 False 933.000000 933 92.980000 795 1433 1 chr2A.!!$F1 638

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
793 818 0.184933 TTGCCAGTGTTTGCTAGGGT 59.815 50.0 0.0 0.0 0.0 4.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1856 1938 0.103572 GACCCGATAGCTTAACGGCA 59.896 55.0 16.64 0.0 44.45 5.69 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
21 22 4.406648 CATGGTCACTGTAGCCATAGAA 57.593 45.455 12.85 0.00 40.68 2.10
22 23 4.769688 CATGGTCACTGTAGCCATAGAAA 58.230 43.478 12.85 0.00 40.68 2.52
23 24 4.202245 TGGTCACTGTAGCCATAGAAAC 57.798 45.455 0.00 0.00 0.00 2.78
24 25 3.187700 GGTCACTGTAGCCATAGAAACG 58.812 50.000 0.00 0.00 0.00 3.60
25 26 3.119245 GGTCACTGTAGCCATAGAAACGA 60.119 47.826 0.00 0.00 0.00 3.85
26 27 4.441634 GGTCACTGTAGCCATAGAAACGAT 60.442 45.833 0.00 0.00 0.00 3.73
27 28 5.221185 GGTCACTGTAGCCATAGAAACGATA 60.221 44.000 0.00 0.00 0.00 2.92
28 29 6.448006 GTCACTGTAGCCATAGAAACGATAT 58.552 40.000 0.00 0.00 0.00 1.63
29 30 6.924060 GTCACTGTAGCCATAGAAACGATATT 59.076 38.462 0.00 0.00 0.00 1.28
30 31 7.115095 GTCACTGTAGCCATAGAAACGATATTC 59.885 40.741 0.00 0.00 0.00 1.75
31 32 6.366332 CACTGTAGCCATAGAAACGATATTCC 59.634 42.308 0.00 0.00 0.00 3.01
32 33 6.267928 ACTGTAGCCATAGAAACGATATTCCT 59.732 38.462 0.00 0.00 0.00 3.36
33 34 7.062749 TGTAGCCATAGAAACGATATTCCTT 57.937 36.000 0.00 0.00 0.00 3.36
34 35 7.506114 TGTAGCCATAGAAACGATATTCCTTT 58.494 34.615 0.00 0.00 0.00 3.11
35 36 7.990886 TGTAGCCATAGAAACGATATTCCTTTT 59.009 33.333 0.00 0.00 0.00 2.27
36 37 7.264373 AGCCATAGAAACGATATTCCTTTTG 57.736 36.000 0.00 0.00 0.00 2.44
37 38 6.263168 AGCCATAGAAACGATATTCCTTTTGG 59.737 38.462 0.00 0.00 42.21 3.28
38 39 6.515035 GCCATAGAAACGATATTCCTTTTGGG 60.515 42.308 0.00 0.00 40.87 4.12
39 40 6.546034 CCATAGAAACGATATTCCTTTTGGGT 59.454 38.462 0.00 0.00 40.87 4.51
40 41 7.068226 CCATAGAAACGATATTCCTTTTGGGTT 59.932 37.037 0.00 0.00 40.87 4.11
41 42 6.267496 AGAAACGATATTCCTTTTGGGTTG 57.733 37.500 0.00 0.00 40.87 3.77
42 43 5.185056 AGAAACGATATTCCTTTTGGGTTGG 59.815 40.000 0.00 0.00 40.87 3.77
43 44 4.042271 ACGATATTCCTTTTGGGTTGGT 57.958 40.909 0.00 0.00 40.87 3.67
44 45 4.014406 ACGATATTCCTTTTGGGTTGGTC 58.986 43.478 0.00 0.00 40.87 4.02
45 46 3.064820 CGATATTCCTTTTGGGTTGGTCG 59.935 47.826 0.00 0.00 40.87 4.79
46 47 2.668144 ATTCCTTTTGGGTTGGTCGA 57.332 45.000 0.00 0.00 40.87 4.20
47 48 1.975660 TTCCTTTTGGGTTGGTCGAG 58.024 50.000 0.00 0.00 40.87 4.04
48 49 0.536460 TCCTTTTGGGTTGGTCGAGC 60.536 55.000 7.89 7.89 40.87 5.03
49 50 0.821711 CCTTTTGGGTTGGTCGAGCA 60.822 55.000 14.39 14.39 35.46 4.26
50 51 1.247567 CTTTTGGGTTGGTCGAGCAT 58.752 50.000 19.37 0.00 0.00 3.79
51 52 2.432444 CTTTTGGGTTGGTCGAGCATA 58.568 47.619 19.37 6.76 0.00 3.14
52 53 2.570415 TTTGGGTTGGTCGAGCATAA 57.430 45.000 19.37 8.82 0.00 1.90
53 54 2.570415 TTGGGTTGGTCGAGCATAAA 57.430 45.000 19.37 7.80 0.00 1.40
54 55 1.816074 TGGGTTGGTCGAGCATAAAC 58.184 50.000 19.37 13.51 0.00 2.01
55 56 1.072489 TGGGTTGGTCGAGCATAAACA 59.928 47.619 19.37 12.24 0.00 2.83
56 57 2.290641 TGGGTTGGTCGAGCATAAACAT 60.291 45.455 19.37 0.00 0.00 2.71
57 58 2.097466 GGGTTGGTCGAGCATAAACATG 59.903 50.000 19.37 0.00 0.00 3.21
58 59 2.747446 GGTTGGTCGAGCATAAACATGT 59.253 45.455 19.37 0.00 0.00 3.21
59 60 3.190535 GGTTGGTCGAGCATAAACATGTT 59.809 43.478 19.37 4.92 0.00 2.71
60 61 4.403453 GTTGGTCGAGCATAAACATGTTC 58.597 43.478 19.37 0.00 0.00 3.18
61 62 3.669536 TGGTCGAGCATAAACATGTTCA 58.330 40.909 14.39 0.00 32.30 3.18
62 63 4.260985 TGGTCGAGCATAAACATGTTCAT 58.739 39.130 14.39 0.00 32.30 2.57
63 64 5.423886 TGGTCGAGCATAAACATGTTCATA 58.576 37.500 14.39 1.68 32.30 2.15
64 65 5.293324 TGGTCGAGCATAAACATGTTCATAC 59.707 40.000 14.39 0.00 32.30 2.39
65 66 5.293324 GGTCGAGCATAAACATGTTCATACA 59.707 40.000 12.39 0.00 38.95 2.29
66 67 6.414079 GTCGAGCATAAACATGTTCATACAG 58.586 40.000 12.39 1.86 37.77 2.74
67 68 6.255670 GTCGAGCATAAACATGTTCATACAGA 59.744 38.462 12.39 4.21 37.77 3.41
68 69 6.986231 TCGAGCATAAACATGTTCATACAGAT 59.014 34.615 12.39 0.00 37.77 2.90
69 70 7.495606 TCGAGCATAAACATGTTCATACAGATT 59.504 33.333 12.39 0.00 37.77 2.40
70 71 8.124823 CGAGCATAAACATGTTCATACAGATTT 58.875 33.333 12.39 0.00 37.77 2.17
71 72 9.793252 GAGCATAAACATGTTCATACAGATTTT 57.207 29.630 12.39 0.00 37.77 1.82
72 73 9.577110 AGCATAAACATGTTCATACAGATTTTG 57.423 29.630 12.39 0.00 37.77 2.44
73 74 9.571810 GCATAAACATGTTCATACAGATTTTGA 57.428 29.630 12.39 0.00 37.77 2.69
82 83 9.246670 TGTTCATACAGATTTTGAATCTGGATT 57.753 29.630 25.81 13.42 44.95 3.01
95 96 9.745018 TTTGAATCTGGATTTATTGAACTCTCT 57.255 29.630 0.00 0.00 0.00 3.10
97 98 9.823647 TGAATCTGGATTTATTGAACTCTCTAC 57.176 33.333 0.00 0.00 0.00 2.59
98 99 9.823647 GAATCTGGATTTATTGAACTCTCTACA 57.176 33.333 0.00 0.00 0.00 2.74
100 101 9.775854 ATCTGGATTTATTGAACTCTCTACATG 57.224 33.333 0.00 0.00 0.00 3.21
101 102 8.206867 TCTGGATTTATTGAACTCTCTACATGG 58.793 37.037 0.00 0.00 0.00 3.66
102 103 7.861629 TGGATTTATTGAACTCTCTACATGGT 58.138 34.615 0.00 0.00 0.00 3.55
103 104 8.328758 TGGATTTATTGAACTCTCTACATGGTT 58.671 33.333 0.00 0.00 0.00 3.67
104 105 8.616076 GGATTTATTGAACTCTCTACATGGTTG 58.384 37.037 0.00 0.00 0.00 3.77
105 106 6.985188 TTATTGAACTCTCTACATGGTTGC 57.015 37.500 0.00 0.00 0.00 4.17
106 107 4.623932 TTGAACTCTCTACATGGTTGCT 57.376 40.909 0.00 0.00 0.00 3.91
107 108 3.930336 TGAACTCTCTACATGGTTGCTG 58.070 45.455 0.00 0.00 0.00 4.41
108 109 2.393271 ACTCTCTACATGGTTGCTGC 57.607 50.000 0.00 0.00 0.00 5.25
109 110 1.625315 ACTCTCTACATGGTTGCTGCA 59.375 47.619 0.00 0.00 0.00 4.41
110 111 2.238144 ACTCTCTACATGGTTGCTGCAT 59.762 45.455 1.84 0.00 0.00 3.96
111 112 3.276857 CTCTCTACATGGTTGCTGCATT 58.723 45.455 1.84 0.00 0.00 3.56
112 113 3.689347 TCTCTACATGGTTGCTGCATTT 58.311 40.909 1.84 0.00 0.00 2.32
113 114 3.441222 TCTCTACATGGTTGCTGCATTTG 59.559 43.478 1.84 1.73 0.00 2.32
114 115 3.419943 TCTACATGGTTGCTGCATTTGA 58.580 40.909 1.84 0.00 0.00 2.69
221 222 5.880332 GGTCAGTTTGGTTTGCTATATGAGA 59.120 40.000 0.00 0.00 0.00 3.27
390 393 2.579201 CGACCAGGCGACCTTGAT 59.421 61.111 4.40 0.00 0.00 2.57
427 430 2.281484 GCGGCAAGGTCAAGTCCA 60.281 61.111 0.00 0.00 0.00 4.02
531 541 2.733542 CGACGAATCTGCAGACACTGAT 60.734 50.000 20.97 0.00 32.44 2.90
690 700 0.321671 CCTTCCTTTGTGCCTCTCGA 59.678 55.000 0.00 0.00 0.00 4.04
719 744 2.301583 TGCTAGGGTTTCAAAATTGGGC 59.698 45.455 0.00 0.00 0.00 5.36
748 773 9.748708 TTTTTGTTAGAGAAGTGGATGAATTTG 57.251 29.630 0.00 0.00 0.00 2.32
751 776 4.664688 AGAGAAGTGGATGAATTTGGGT 57.335 40.909 0.00 0.00 0.00 4.51
752 777 5.003096 AGAGAAGTGGATGAATTTGGGTT 57.997 39.130 0.00 0.00 0.00 4.11
753 778 5.012893 AGAGAAGTGGATGAATTTGGGTTC 58.987 41.667 0.00 0.00 0.00 3.62
754 779 4.739793 AGAAGTGGATGAATTTGGGTTCA 58.260 39.130 0.00 0.00 41.88 3.18
755 780 5.147032 AGAAGTGGATGAATTTGGGTTCAA 58.853 37.500 0.00 0.00 41.09 2.69
756 781 5.602145 AGAAGTGGATGAATTTGGGTTCAAA 59.398 36.000 0.00 0.00 45.61 2.69
768 793 6.452494 TTTGGGTTCAAATAAGTGTTTCGA 57.548 33.333 0.00 0.00 37.89 3.71
769 794 6.452494 TTGGGTTCAAATAAGTGTTTCGAA 57.548 33.333 0.00 0.00 0.00 3.71
770 795 6.642707 TGGGTTCAAATAAGTGTTTCGAAT 57.357 33.333 0.00 0.00 0.00 3.34
771 796 7.045126 TGGGTTCAAATAAGTGTTTCGAATT 57.955 32.000 0.00 0.00 0.00 2.17
772 797 8.167605 TGGGTTCAAATAAGTGTTTCGAATTA 57.832 30.769 0.00 0.00 0.00 1.40
773 798 8.293867 TGGGTTCAAATAAGTGTTTCGAATTAG 58.706 33.333 0.00 0.00 0.00 1.73
774 799 8.294577 GGGTTCAAATAAGTGTTTCGAATTAGT 58.705 33.333 0.00 0.00 0.00 2.24
775 800 9.673454 GGTTCAAATAAGTGTTTCGAATTAGTT 57.327 29.630 0.00 3.22 0.00 2.24
777 802 8.722342 TCAAATAAGTGTTTCGAATTAGTTGC 57.278 30.769 17.90 0.58 34.76 4.17
778 803 7.806014 TCAAATAAGTGTTTCGAATTAGTTGCC 59.194 33.333 17.90 0.00 34.76 4.52
779 804 6.811253 ATAAGTGTTTCGAATTAGTTGCCA 57.189 33.333 0.00 0.00 0.00 4.92
780 805 4.749245 AGTGTTTCGAATTAGTTGCCAG 57.251 40.909 0.00 0.00 0.00 4.85
781 806 4.134563 AGTGTTTCGAATTAGTTGCCAGT 58.865 39.130 0.00 0.00 0.00 4.00
782 807 4.024048 AGTGTTTCGAATTAGTTGCCAGTG 60.024 41.667 0.00 0.00 0.00 3.66
783 808 3.880490 TGTTTCGAATTAGTTGCCAGTGT 59.120 39.130 0.00 0.00 0.00 3.55
784 809 4.336993 TGTTTCGAATTAGTTGCCAGTGTT 59.663 37.500 0.00 0.00 0.00 3.32
785 810 5.163602 TGTTTCGAATTAGTTGCCAGTGTTT 60.164 36.000 0.00 0.00 0.00 2.83
786 811 4.481930 TCGAATTAGTTGCCAGTGTTTG 57.518 40.909 0.00 0.00 0.00 2.93
787 812 2.979813 CGAATTAGTTGCCAGTGTTTGC 59.020 45.455 0.00 0.00 0.00 3.68
788 813 3.304659 CGAATTAGTTGCCAGTGTTTGCT 60.305 43.478 0.00 0.00 0.00 3.91
789 814 4.083537 CGAATTAGTTGCCAGTGTTTGCTA 60.084 41.667 0.00 0.00 0.00 3.49
790 815 5.376854 AATTAGTTGCCAGTGTTTGCTAG 57.623 39.130 0.00 0.00 0.00 3.42
791 816 1.609208 AGTTGCCAGTGTTTGCTAGG 58.391 50.000 0.00 0.00 0.00 3.02
792 817 0.598065 GTTGCCAGTGTTTGCTAGGG 59.402 55.000 0.00 0.00 0.00 3.53
793 818 0.184933 TTGCCAGTGTTTGCTAGGGT 59.815 50.000 0.00 0.00 0.00 4.34
822 876 9.065798 CAAAATTGGGGATTTTTGTCAGTAAAT 57.934 29.630 0.00 0.00 43.65 1.40
978 1033 2.640332 TGGCTGTGACAAGGGTACATTA 59.360 45.455 0.00 0.00 0.00 1.90
988 1043 5.076873 ACAAGGGTACATTATGTTGTGCTT 58.923 37.500 2.23 0.00 33.34 3.91
1063 1118 4.422057 TCAAGTGTACTGGTTGGATCCTA 58.578 43.478 14.23 1.56 0.00 2.94
1072 1127 3.826157 CTGGTTGGATCCTAGCAAAACAA 59.174 43.478 24.72 8.15 0.00 2.83
1120 1175 7.276878 TGAACTTTCAAATGCATGCATTATCTG 59.723 33.333 38.60 32.17 44.86 2.90
1123 1178 5.838531 TCAAATGCATGCATTATCTGTGA 57.161 34.783 38.60 32.94 44.86 3.58
1240 1295 3.619979 GCAACCAGTTGAGCTACCTACAT 60.620 47.826 14.56 0.00 42.93 2.29
1315 1370 5.675684 TTGTATGCCTACATTCAGTGAGA 57.324 39.130 2.49 0.00 37.68 3.27
1320 1375 8.264347 TGTATGCCTACATTCAGTGAGAAAATA 58.736 33.333 0.00 0.00 40.22 1.40
1443 1498 4.152647 ACATGGAAAAGAAAGGGAAGGAC 58.847 43.478 0.00 0.00 0.00 3.85
1452 1507 7.468141 AAAGAAAGGGAAGGACAATATGTTC 57.532 36.000 0.00 0.00 0.00 3.18
1454 1509 5.254032 AGAAAGGGAAGGACAATATGTTCCT 59.746 40.000 0.25 0.25 38.84 3.36
1519 1574 3.755378 AGAAGAATTAGCTGGTGTGCAAG 59.245 43.478 0.00 0.00 34.99 4.01
1527 1582 1.949525 GCTGGTGTGCAAGAAGAAGAA 59.050 47.619 0.00 0.00 0.00 2.52
1532 1587 4.644234 TGGTGTGCAAGAAGAAGAATTTGA 59.356 37.500 0.00 0.00 0.00 2.69
1585 1666 5.717078 TGCAAGAAGAAGATTTTGCTGAT 57.283 34.783 9.14 0.00 44.59 2.90
1587 1668 7.400599 TGCAAGAAGAAGATTTTGCTGATAT 57.599 32.000 9.14 0.00 44.59 1.63
1588 1669 7.255569 TGCAAGAAGAAGATTTTGCTGATATG 58.744 34.615 9.14 0.00 44.59 1.78
1600 1681 8.763984 ATTTTGCTGATATGGAAGAAGAAGAT 57.236 30.769 0.00 0.00 0.00 2.40
1601 1682 8.585471 TTTTGCTGATATGGAAGAAGAAGATT 57.415 30.769 0.00 0.00 0.00 2.40
1602 1683 9.685276 TTTTGCTGATATGGAAGAAGAAGATTA 57.315 29.630 0.00 0.00 0.00 1.75
1603 1684 9.857656 TTTGCTGATATGGAAGAAGAAGATTAT 57.142 29.630 0.00 0.00 0.00 1.28
1604 1685 8.843885 TGCTGATATGGAAGAAGAAGATTATG 57.156 34.615 0.00 0.00 0.00 1.90
1605 1686 7.389884 TGCTGATATGGAAGAAGAAGATTATGC 59.610 37.037 0.00 0.00 0.00 3.14
1606 1687 7.607223 GCTGATATGGAAGAAGAAGATTATGCT 59.393 37.037 0.00 0.00 0.00 3.79
1665 1747 3.864243 TGTCACAGTAGGTCACGTTTTT 58.136 40.909 0.00 0.00 0.00 1.94
1721 1803 8.996651 TGACAGAATCAAGATAGTCATACCTA 57.003 34.615 8.09 0.00 33.02 3.08
1746 1828 4.038763 ACTGTCGTAGAAGTGTTCCATGAA 59.961 41.667 0.00 0.00 39.69 2.57
1856 1938 0.463116 GGCATCCATCGTAACGGGTT 60.463 55.000 0.00 0.00 0.00 4.11
1904 1986 2.224113 GGATCCGATAACCCGCTAACAA 60.224 50.000 0.00 0.00 0.00 2.83
1953 2035 4.520874 TGTAAAATTCTCATTGGCCAACGA 59.479 37.500 23.27 18.58 0.00 3.85
2097 2179 2.572104 ACTAAAGGCCCACGAGATTTCT 59.428 45.455 0.00 0.00 0.00 2.52
2099 2181 2.586648 AAGGCCCACGAGATTTCTTT 57.413 45.000 0.00 0.00 0.00 2.52
2144 2226 1.678970 GGCCCACGAGATTTTGCCT 60.679 57.895 0.00 0.00 35.99 4.75
2184 2267 3.053395 AGCTAAAGGCCCATGAGATTTCA 60.053 43.478 0.00 0.00 43.05 2.69
2231 2314 2.978156 AGGCCCACAAGATTTTGAGA 57.022 45.000 0.00 0.00 37.73 3.27
2323 2406 1.895131 CATTAACAGCCTGCCAGGTTT 59.105 47.619 13.35 6.15 37.80 3.27
2357 2440 1.557269 GCCCATATGAGATCCGGCCT 61.557 60.000 3.65 0.00 0.00 5.19
2370 2453 3.724732 TCCGGCCTGTTAAAAACCTAT 57.275 42.857 0.00 0.00 0.00 2.57
2518 2601 3.497227 GGCCCATTTAGTAATTCGGCCTA 60.497 47.826 19.48 0.00 45.40 3.93
2578 2662 3.262405 TCGGCCCTATATTTATTTCGGCT 59.738 43.478 0.00 0.00 35.24 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 3.368013 CGTTTCTATGGCTACAGTGACCA 60.368 47.826 0.00 1.55 37.99 4.02
3 4 3.119245 TCGTTTCTATGGCTACAGTGACC 60.119 47.826 0.00 0.00 0.00 4.02
4 5 4.106029 TCGTTTCTATGGCTACAGTGAC 57.894 45.455 0.00 0.00 0.00 3.67
5 6 6.650427 ATATCGTTTCTATGGCTACAGTGA 57.350 37.500 0.00 0.00 0.00 3.41
7 8 6.267928 AGGAATATCGTTTCTATGGCTACAGT 59.732 38.462 0.00 0.00 0.00 3.55
8 9 6.692486 AGGAATATCGTTTCTATGGCTACAG 58.308 40.000 0.00 0.00 0.00 2.74
9 10 6.665992 AGGAATATCGTTTCTATGGCTACA 57.334 37.500 0.00 0.00 0.00 2.74
10 11 7.964604 AAAGGAATATCGTTTCTATGGCTAC 57.035 36.000 0.00 0.00 29.55 3.58
11 12 7.444183 CCAAAAGGAATATCGTTTCTATGGCTA 59.556 37.037 0.00 0.00 33.88 3.93
12 13 6.263168 CCAAAAGGAATATCGTTTCTATGGCT 59.737 38.462 0.00 0.00 33.88 4.75
13 14 6.438763 CCAAAAGGAATATCGTTTCTATGGC 58.561 40.000 0.00 0.00 33.88 4.40
14 15 6.546034 ACCCAAAAGGAATATCGTTTCTATGG 59.454 38.462 7.35 7.35 39.89 2.74
15 16 7.568199 ACCCAAAAGGAATATCGTTTCTATG 57.432 36.000 0.00 0.00 39.89 2.23
16 17 7.068226 CCAACCCAAAAGGAATATCGTTTCTAT 59.932 37.037 0.00 0.00 39.89 1.98
17 18 6.376018 CCAACCCAAAAGGAATATCGTTTCTA 59.624 38.462 0.00 0.00 39.89 2.10
18 19 5.185056 CCAACCCAAAAGGAATATCGTTTCT 59.815 40.000 0.00 0.00 39.89 2.52
19 20 5.047590 ACCAACCCAAAAGGAATATCGTTTC 60.048 40.000 0.00 0.00 39.89 2.78
20 21 4.836175 ACCAACCCAAAAGGAATATCGTTT 59.164 37.500 0.00 0.00 39.89 3.60
21 22 4.412843 ACCAACCCAAAAGGAATATCGTT 58.587 39.130 0.00 0.00 39.89 3.85
22 23 4.014406 GACCAACCCAAAAGGAATATCGT 58.986 43.478 0.00 0.00 39.89 3.73
23 24 3.064820 CGACCAACCCAAAAGGAATATCG 59.935 47.826 0.00 0.00 39.89 2.92
24 25 4.266714 TCGACCAACCCAAAAGGAATATC 58.733 43.478 0.00 0.00 39.89 1.63
25 26 4.270008 CTCGACCAACCCAAAAGGAATAT 58.730 43.478 0.00 0.00 39.89 1.28
26 27 3.681593 CTCGACCAACCCAAAAGGAATA 58.318 45.455 0.00 0.00 39.89 1.75
27 28 2.514803 CTCGACCAACCCAAAAGGAAT 58.485 47.619 0.00 0.00 39.89 3.01
28 29 1.975660 CTCGACCAACCCAAAAGGAA 58.024 50.000 0.00 0.00 39.89 3.36
29 30 0.536460 GCTCGACCAACCCAAAAGGA 60.536 55.000 0.00 0.00 39.89 3.36
30 31 0.821711 TGCTCGACCAACCCAAAAGG 60.822 55.000 0.00 0.00 43.78 3.11
31 32 1.247567 ATGCTCGACCAACCCAAAAG 58.752 50.000 0.00 0.00 0.00 2.27
32 33 2.570415 TATGCTCGACCAACCCAAAA 57.430 45.000 0.00 0.00 0.00 2.44
33 34 2.554893 GTTTATGCTCGACCAACCCAAA 59.445 45.455 0.00 0.00 0.00 3.28
34 35 2.156098 GTTTATGCTCGACCAACCCAA 58.844 47.619 0.00 0.00 0.00 4.12
35 36 1.072489 TGTTTATGCTCGACCAACCCA 59.928 47.619 0.00 0.00 0.00 4.51
36 37 1.816074 TGTTTATGCTCGACCAACCC 58.184 50.000 0.00 0.00 0.00 4.11
37 38 2.747446 ACATGTTTATGCTCGACCAACC 59.253 45.455 0.00 0.00 37.85 3.77
38 39 4.083537 TGAACATGTTTATGCTCGACCAAC 60.084 41.667 13.36 0.00 37.85 3.77
39 40 4.068599 TGAACATGTTTATGCTCGACCAA 58.931 39.130 13.36 0.00 37.85 3.67
40 41 3.669536 TGAACATGTTTATGCTCGACCA 58.330 40.909 13.36 0.00 37.85 4.02
41 42 4.882671 ATGAACATGTTTATGCTCGACC 57.117 40.909 14.51 0.00 37.85 4.79
42 43 6.255670 TCTGTATGAACATGTTTATGCTCGAC 59.744 38.462 24.61 15.73 37.85 4.20
43 44 6.337356 TCTGTATGAACATGTTTATGCTCGA 58.663 36.000 24.61 19.18 37.85 4.04
44 45 6.588348 TCTGTATGAACATGTTTATGCTCG 57.412 37.500 24.61 17.77 37.85 5.03
45 46 9.793252 AAAATCTGTATGAACATGTTTATGCTC 57.207 29.630 24.61 15.68 37.85 4.26
46 47 9.577110 CAAAATCTGTATGAACATGTTTATGCT 57.423 29.630 24.61 8.72 37.85 3.79
47 48 9.571810 TCAAAATCTGTATGAACATGTTTATGC 57.428 29.630 22.35 21.11 37.85 3.14
52 53 9.850628 CAGATTCAAAATCTGTATGAACATGTT 57.149 29.630 11.78 11.78 40.34 2.71
53 54 8.464404 CCAGATTCAAAATCTGTATGAACATGT 58.536 33.333 21.85 0.00 42.88 3.21
54 55 8.680001 TCCAGATTCAAAATCTGTATGAACATG 58.320 33.333 21.85 8.72 42.88 3.21
55 56 8.812513 TCCAGATTCAAAATCTGTATGAACAT 57.187 30.769 21.85 0.00 42.88 2.71
56 57 8.812513 ATCCAGATTCAAAATCTGTATGAACA 57.187 30.769 21.85 4.28 42.88 3.18
69 70 9.745018 AGAGAGTTCAATAAATCCAGATTCAAA 57.255 29.630 0.00 0.00 29.89 2.69
71 72 9.823647 GTAGAGAGTTCAATAAATCCAGATTCA 57.176 33.333 0.00 0.00 29.89 2.57
72 73 9.823647 TGTAGAGAGTTCAATAAATCCAGATTC 57.176 33.333 0.00 0.00 29.89 2.52
74 75 9.775854 CATGTAGAGAGTTCAATAAATCCAGAT 57.224 33.333 0.00 0.00 29.89 2.90
75 76 8.206867 CCATGTAGAGAGTTCAATAAATCCAGA 58.793 37.037 0.00 0.00 29.89 3.86
76 77 7.989741 ACCATGTAGAGAGTTCAATAAATCCAG 59.010 37.037 0.00 0.00 29.89 3.86
77 78 7.861629 ACCATGTAGAGAGTTCAATAAATCCA 58.138 34.615 0.00 0.00 29.89 3.41
78 79 8.616076 CAACCATGTAGAGAGTTCAATAAATCC 58.384 37.037 0.00 0.00 29.89 3.01
79 80 8.125448 GCAACCATGTAGAGAGTTCAATAAATC 58.875 37.037 0.00 0.00 0.00 2.17
80 81 7.831193 AGCAACCATGTAGAGAGTTCAATAAAT 59.169 33.333 0.00 0.00 0.00 1.40
81 82 7.119699 CAGCAACCATGTAGAGAGTTCAATAAA 59.880 37.037 0.00 0.00 0.00 1.40
82 83 6.595326 CAGCAACCATGTAGAGAGTTCAATAA 59.405 38.462 0.00 0.00 0.00 1.40
83 84 6.108687 CAGCAACCATGTAGAGAGTTCAATA 58.891 40.000 0.00 0.00 0.00 1.90
84 85 4.940046 CAGCAACCATGTAGAGAGTTCAAT 59.060 41.667 0.00 0.00 0.00 2.57
85 86 4.318332 CAGCAACCATGTAGAGAGTTCAA 58.682 43.478 0.00 0.00 0.00 2.69
86 87 3.866066 GCAGCAACCATGTAGAGAGTTCA 60.866 47.826 0.00 0.00 0.00 3.18
87 88 2.675348 GCAGCAACCATGTAGAGAGTTC 59.325 50.000 0.00 0.00 0.00 3.01
88 89 2.038952 TGCAGCAACCATGTAGAGAGTT 59.961 45.455 0.00 0.00 0.00 3.01
89 90 1.625315 TGCAGCAACCATGTAGAGAGT 59.375 47.619 0.00 0.00 0.00 3.24
90 91 2.391616 TGCAGCAACCATGTAGAGAG 57.608 50.000 0.00 0.00 0.00 3.20
91 92 3.354948 AATGCAGCAACCATGTAGAGA 57.645 42.857 0.00 0.00 0.00 3.10
92 93 3.441222 TCAAATGCAGCAACCATGTAGAG 59.559 43.478 0.00 0.00 0.00 2.43
93 94 3.419943 TCAAATGCAGCAACCATGTAGA 58.580 40.909 0.00 0.00 0.00 2.59
94 95 3.853831 TCAAATGCAGCAACCATGTAG 57.146 42.857 0.00 0.00 0.00 2.74
95 96 4.804868 ATTCAAATGCAGCAACCATGTA 57.195 36.364 0.00 0.00 0.00 2.29
96 97 3.688694 ATTCAAATGCAGCAACCATGT 57.311 38.095 0.00 0.00 0.00 3.21
97 98 4.452795 TCAAATTCAAATGCAGCAACCATG 59.547 37.500 0.00 0.00 0.00 3.66
98 99 4.643463 TCAAATTCAAATGCAGCAACCAT 58.357 34.783 0.00 0.00 0.00 3.55
99 100 4.059511 CTCAAATTCAAATGCAGCAACCA 58.940 39.130 0.00 0.00 0.00 3.67
100 101 4.309099 TCTCAAATTCAAATGCAGCAACC 58.691 39.130 0.00 0.00 0.00 3.77
101 102 7.585286 TTATCTCAAATTCAAATGCAGCAAC 57.415 32.000 0.00 0.00 0.00 4.17
102 103 7.148771 CGTTTATCTCAAATTCAAATGCAGCAA 60.149 33.333 0.00 0.00 0.00 3.91
103 104 6.308524 CGTTTATCTCAAATTCAAATGCAGCA 59.691 34.615 0.00 0.00 0.00 4.41
104 105 6.689547 CGTTTATCTCAAATTCAAATGCAGC 58.310 36.000 0.00 0.00 0.00 5.25
105 106 6.308524 TGCGTTTATCTCAAATTCAAATGCAG 59.691 34.615 7.86 0.00 42.84 4.41
106 107 6.089283 GTGCGTTTATCTCAAATTCAAATGCA 59.911 34.615 7.86 7.86 44.48 3.96
107 108 6.454186 GGTGCGTTTATCTCAAATTCAAATGC 60.454 38.462 0.00 0.00 40.08 3.56
108 109 6.585702 TGGTGCGTTTATCTCAAATTCAAATG 59.414 34.615 0.00 0.00 0.00 2.32
109 110 6.686630 TGGTGCGTTTATCTCAAATTCAAAT 58.313 32.000 0.00 0.00 0.00 2.32
110 111 6.078202 TGGTGCGTTTATCTCAAATTCAAA 57.922 33.333 0.00 0.00 0.00 2.69
111 112 5.697473 TGGTGCGTTTATCTCAAATTCAA 57.303 34.783 0.00 0.00 0.00 2.69
112 113 5.895636 ATGGTGCGTTTATCTCAAATTCA 57.104 34.783 0.00 0.00 0.00 2.57
113 114 5.452302 CGAATGGTGCGTTTATCTCAAATTC 59.548 40.000 0.00 0.00 0.00 2.17
114 115 5.106317 ACGAATGGTGCGTTTATCTCAAATT 60.106 36.000 0.00 0.00 39.18 1.82
176 177 2.359598 CGTTTTCCACGTTTTGAGACG 58.640 47.619 0.00 0.00 44.49 4.18
221 222 6.129179 TCAAAAGAAGAGAGTGACCCATTTT 58.871 36.000 0.00 0.00 0.00 1.82
417 420 1.168714 GACAGCCAATGGACTTGACC 58.831 55.000 2.05 0.00 36.97 4.02
427 430 1.066143 CAACCTACGGAGACAGCCAAT 60.066 52.381 0.00 0.00 0.00 3.16
479 486 3.524606 GCGCGGCTACTGTAGGGA 61.525 66.667 16.09 0.00 0.00 4.20
542 552 0.307760 GACAACGGCTTCACCACAAG 59.692 55.000 0.00 0.00 39.03 3.16
690 700 3.290948 TGAAACCCTAGCAAACACTGT 57.709 42.857 0.00 0.00 0.00 3.55
748 773 8.294577 ACTAATTCGAAACACTTATTTGAACCC 58.705 33.333 0.00 0.00 34.02 4.11
751 776 9.176181 GCAACTAATTCGAAACACTTATTTGAA 57.824 29.630 16.92 0.00 35.29 2.69
752 777 7.806014 GGCAACTAATTCGAAACACTTATTTGA 59.194 33.333 16.92 0.00 0.00 2.69
753 778 7.593273 TGGCAACTAATTCGAAACACTTATTTG 59.407 33.333 0.00 8.21 37.61 2.32
754 779 7.653647 TGGCAACTAATTCGAAACACTTATTT 58.346 30.769 0.00 0.00 37.61 1.40
755 780 7.040686 ACTGGCAACTAATTCGAAACACTTATT 60.041 33.333 0.00 0.00 37.61 1.40
756 781 6.430000 ACTGGCAACTAATTCGAAACACTTAT 59.570 34.615 0.00 0.00 37.61 1.73
757 782 5.761234 ACTGGCAACTAATTCGAAACACTTA 59.239 36.000 0.00 0.00 37.61 2.24
758 783 4.578928 ACTGGCAACTAATTCGAAACACTT 59.421 37.500 0.00 0.00 37.61 3.16
759 784 4.024048 CACTGGCAACTAATTCGAAACACT 60.024 41.667 0.00 0.00 37.61 3.55
760 785 4.219033 CACTGGCAACTAATTCGAAACAC 58.781 43.478 0.00 0.00 37.61 3.32
761 786 3.880490 ACACTGGCAACTAATTCGAAACA 59.120 39.130 0.00 0.00 37.61 2.83
762 787 4.483476 ACACTGGCAACTAATTCGAAAC 57.517 40.909 0.00 0.00 37.61 2.78
763 788 5.277825 CAAACACTGGCAACTAATTCGAAA 58.722 37.500 0.00 0.00 37.61 3.46
764 789 4.791411 GCAAACACTGGCAACTAATTCGAA 60.791 41.667 0.00 0.00 37.61 3.71
765 790 3.304391 GCAAACACTGGCAACTAATTCGA 60.304 43.478 0.00 0.00 37.61 3.71
766 791 2.979813 GCAAACACTGGCAACTAATTCG 59.020 45.455 0.00 0.00 37.61 3.34
767 792 4.243007 AGCAAACACTGGCAACTAATTC 57.757 40.909 0.00 0.00 37.61 2.17
768 793 4.218417 CCTAGCAAACACTGGCAACTAATT 59.782 41.667 0.00 0.00 37.61 1.40
769 794 3.758554 CCTAGCAAACACTGGCAACTAAT 59.241 43.478 0.00 0.00 37.61 1.73
770 795 3.146066 CCTAGCAAACACTGGCAACTAA 58.854 45.455 0.00 0.00 37.61 2.24
771 796 2.552155 CCCTAGCAAACACTGGCAACTA 60.552 50.000 0.00 0.00 37.61 2.24
772 797 1.609208 CCTAGCAAACACTGGCAACT 58.391 50.000 0.00 0.00 37.61 3.16
773 798 0.598065 CCCTAGCAAACACTGGCAAC 59.402 55.000 0.00 0.00 0.00 4.17
774 799 0.184933 ACCCTAGCAAACACTGGCAA 59.815 50.000 0.00 0.00 0.00 4.52
775 800 0.184933 AACCCTAGCAAACACTGGCA 59.815 50.000 0.00 0.00 0.00 4.92
776 801 1.269723 GAAACCCTAGCAAACACTGGC 59.730 52.381 0.00 0.00 0.00 4.85
777 802 2.582052 TGAAACCCTAGCAAACACTGG 58.418 47.619 0.00 0.00 0.00 4.00
778 803 4.647424 TTTGAAACCCTAGCAAACACTG 57.353 40.909 0.00 0.00 0.00 3.66
779 804 5.869649 ATTTTGAAACCCTAGCAAACACT 57.130 34.783 0.00 0.00 31.89 3.55
780 805 5.236263 CCAATTTTGAAACCCTAGCAAACAC 59.764 40.000 0.00 0.00 31.89 3.32
781 806 5.363939 CCAATTTTGAAACCCTAGCAAACA 58.636 37.500 0.00 0.00 31.89 2.83
782 807 4.754618 CCCAATTTTGAAACCCTAGCAAAC 59.245 41.667 0.00 0.00 31.89 2.93
783 808 4.202409 CCCCAATTTTGAAACCCTAGCAAA 60.202 41.667 0.00 0.00 0.00 3.68
784 809 3.326297 CCCCAATTTTGAAACCCTAGCAA 59.674 43.478 0.00 0.00 0.00 3.91
785 810 2.903135 CCCCAATTTTGAAACCCTAGCA 59.097 45.455 0.00 0.00 0.00 3.49
786 811 3.169908 TCCCCAATTTTGAAACCCTAGC 58.830 45.455 0.00 0.00 0.00 3.42
787 812 6.373005 AAATCCCCAATTTTGAAACCCTAG 57.627 37.500 0.00 0.00 33.69 3.02
788 813 6.771934 AAAATCCCCAATTTTGAAACCCTA 57.228 33.333 0.00 0.00 44.15 3.53
789 814 5.661503 AAAATCCCCAATTTTGAAACCCT 57.338 34.783 0.00 0.00 44.15 4.34
790 815 5.596361 ACAAAAATCCCCAATTTTGAAACCC 59.404 36.000 15.49 0.00 44.88 4.11
791 816 6.319911 TGACAAAAATCCCCAATTTTGAAACC 59.680 34.615 15.49 4.99 44.88 3.27
792 817 7.066887 ACTGACAAAAATCCCCAATTTTGAAAC 59.933 33.333 15.49 8.41 44.88 2.78
793 818 7.115414 ACTGACAAAAATCCCCAATTTTGAAA 58.885 30.769 15.49 4.79 44.88 2.69
893 948 2.305928 CAACACCACAGAACCATCCAA 58.694 47.619 0.00 0.00 0.00 3.53
978 1033 2.037511 CCAATCCACCAAAGCACAACAT 59.962 45.455 0.00 0.00 0.00 2.71
988 1043 3.025978 GCTTGATCATCCAATCCACCAA 58.974 45.455 0.00 0.00 0.00 3.67
1063 1118 7.759489 TCAAACCATCTACTATTGTTTTGCT 57.241 32.000 0.00 0.00 0.00 3.91
1072 1127 7.129457 TCATCTGCTTCAAACCATCTACTAT 57.871 36.000 0.00 0.00 0.00 2.12
1120 1175 1.875514 TGCACAAGCTGAATCTGTCAC 59.124 47.619 0.00 0.00 42.74 3.67
1123 1178 2.812591 CTCTTGCACAAGCTGAATCTGT 59.187 45.455 5.49 0.00 42.74 3.41
1240 1295 7.765695 ATTCTTTCTTGCAAGGACTTATCAA 57.234 32.000 25.73 7.68 0.00 2.57
1315 1370 7.396907 TCCACCTGACATCATGTTGAATATTTT 59.603 33.333 10.74 0.00 0.00 1.82
1320 1375 4.305539 TCCACCTGACATCATGTTGAAT 57.694 40.909 10.74 0.00 0.00 2.57
1443 1498 7.029563 GCTGTAAAACCTCAAGGAACATATTG 58.970 38.462 2.30 0.00 38.94 1.90
1452 1507 4.821805 TCTTCTTGCTGTAAAACCTCAAGG 59.178 41.667 0.00 0.00 42.17 3.61
1454 1509 6.119536 TCTTCTTCTTGCTGTAAAACCTCAA 58.880 36.000 0.00 0.00 0.00 3.02
1585 1666 8.027524 AGTGAGCATAATCTTCTTCTTCCATA 57.972 34.615 0.00 0.00 0.00 2.74
1587 1668 6.305272 AGTGAGCATAATCTTCTTCTTCCA 57.695 37.500 0.00 0.00 0.00 3.53
1588 1669 7.268586 TGTAGTGAGCATAATCTTCTTCTTCC 58.731 38.462 0.00 0.00 0.00 3.46
1628 1709 4.322101 GTGACAAACACGTATCATCACC 57.678 45.455 7.53 0.00 39.78 4.02
1856 1938 0.103572 GACCCGATAGCTTAACGGCA 59.896 55.000 16.64 0.00 44.45 5.69
1904 1986 2.178912 AAATCGTCATTGGTCGTGGT 57.821 45.000 0.00 0.00 0.00 4.16
1953 2035 1.594293 CGGAGCTGACACGTGGTTT 60.594 57.895 21.57 0.00 0.00 3.27
2012 2094 3.932710 GTCCACGTGTCAACACATCATAT 59.067 43.478 15.65 0.00 46.75 1.78
2118 2200 1.789523 ATCTCGTGGGCCTTTAGCTA 58.210 50.000 4.53 0.00 43.05 3.32
2144 2226 2.063015 CTGGGCCGGCCATTATGGTA 62.063 60.000 44.46 19.02 40.46 3.25
2357 2440 5.470777 CCCAGAACGTGATAGGTTTTTAACA 59.529 40.000 0.00 0.00 0.00 2.41
2370 2453 2.156098 GTAATTTGGCCCAGAACGTGA 58.844 47.619 0.00 0.00 0.00 4.35
2518 2601 7.329588 CCTTTAACAGGCCGAAACTAATATT 57.670 36.000 0.00 0.00 35.13 1.28
2544 2627 8.983702 AAATATAGGGCCGAAATGTTAAGTAA 57.016 30.769 0.00 0.00 0.00 2.24


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

AutoCloner maintained by Alex Coulton.