Multiple sequence alignment - TraesCS4B01G078100

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4B01G078100 chr4B 100.000 6368 0 0 1 6368 75195776 75189409 0.000000e+00 11760.0
1 TraesCS4B01G078100 chr4B 96.491 57 1 1 5742 5797 75189964 75189908 6.800000e-15 93.5
2 TraesCS4B01G078100 chr4B 96.491 57 1 1 5813 5869 75190035 75189980 6.800000e-15 93.5
3 TraesCS4B01G078100 chr4B 84.694 98 9 2 6163 6255 469503566 469503662 6.800000e-15 93.5
4 TraesCS4B01G078100 chr4A 96.489 3019 78 8 976 3971 545612523 545615536 0.000000e+00 4963.0
5 TraesCS4B01G078100 chr4A 95.886 2431 71 6 3966 6368 545617513 545619942 0.000000e+00 3908.0
6 TraesCS4B01G078100 chr4A 90.685 891 45 18 1 857 719117526 719116640 0.000000e+00 1151.0
7 TraesCS4B01G078100 chr4A 89.245 874 70 17 1 855 493576506 493577374 0.000000e+00 1072.0
8 TraesCS4B01G078100 chr4A 93.130 131 7 2 857 987 545612435 545612563 2.340000e-44 191.0
9 TraesCS4B01G078100 chr4A 98.246 57 0 1 5813 5869 545619289 545619344 1.460000e-16 99.0
10 TraesCS4B01G078100 chr4A 98.182 55 1 0 5743 5797 545619362 545619416 5.260000e-16 97.1
11 TraesCS4B01G078100 chr4A 85.135 74 8 3 6167 6239 685762825 685762754 8.860000e-09 73.1
12 TraesCS4B01G078100 chr4A 84.722 72 6 4 6167 6236 728845763 728845831 4.120000e-07 67.6
13 TraesCS4B01G078100 chr3B 94.222 900 17 8 1 870 817268939 817269833 0.000000e+00 1341.0
14 TraesCS4B01G078100 chr3B 81.313 396 49 16 481 858 545641888 545641500 1.340000e-76 298.0
15 TraesCS4B01G078100 chr3B 76.389 432 64 23 2114 2531 753676903 753676496 1.400000e-46 198.0
16 TraesCS4B01G078100 chr3B 75.694 432 66 18 2114 2531 753580064 753579658 5.070000e-41 180.0
17 TraesCS4B01G078100 chr3B 98.361 61 0 1 800 859 828517839 828517899 8.730000e-19 106.0
18 TraesCS4B01G078100 chr3B 91.892 74 6 0 6285 6358 71975691 71975764 3.140000e-18 104.0
19 TraesCS4B01G078100 chr7B 94.376 889 14 5 1 857 166582037 166582921 0.000000e+00 1332.0
20 TraesCS4B01G078100 chr7B 92.105 76 6 0 6283 6358 191527397 191527322 2.430000e-19 108.0
21 TraesCS4B01G078100 chr7B 93.939 66 3 1 800 864 730415705 730415770 1.460000e-16 99.0
22 TraesCS4B01G078100 chr1B 93.820 890 20 6 1 860 64387736 64386852 0.000000e+00 1306.0
23 TraesCS4B01G078100 chr1B 85.075 268 10 13 620 858 529704152 529704418 4.930000e-61 246.0
24 TraesCS4B01G078100 chr1B 91.358 81 7 0 6283 6363 174648801 174648881 1.880000e-20 111.0
25 TraesCS4B01G078100 chr1B 98.305 59 0 1 800 857 280099505 280099563 1.130000e-17 102.0
26 TraesCS4B01G078100 chr1B 96.721 61 1 1 799 858 235559914 235559974 4.060000e-17 100.0
27 TraesCS4B01G078100 chr1B 77.114 201 22 9 6163 6358 612930323 612930504 1.890000e-15 95.3
28 TraesCS4B01G078100 chr5B 97.590 747 9 4 1 738 697372909 697373655 0.000000e+00 1271.0
29 TraesCS4B01G078100 chr5B 77.674 215 37 9 2092 2298 75534572 75534783 3.120000e-23 121.0
30 TraesCS4B01G078100 chr5B 85.366 82 5 3 6162 6237 629963912 629963832 1.900000e-10 78.7
31 TraesCS4B01G078100 chr1D 92.474 877 38 15 1 858 47700477 47701344 0.000000e+00 1229.0
32 TraesCS4B01G078100 chr1D 76.906 459 81 19 2100 2548 206090856 206091299 2.970000e-58 237.0
33 TraesCS4B01G078100 chr1D 87.654 81 9 1 6283 6362 409016202 409016282 6.800000e-15 93.5
34 TraesCS4B01G078100 chr1D 83.516 91 8 5 6269 6358 327935071 327935155 1.900000e-10 78.7
35 TraesCS4B01G078100 chr1D 85.526 76 6 1 6167 6237 3959770 3959695 2.460000e-09 75.0
36 TraesCS4B01G078100 chr1D 87.500 64 8 0 6295 6358 451027898 451027961 2.460000e-09 75.0
37 TraesCS4B01G078100 chr1D 100.000 32 0 0 6327 6358 324338834 324338803 6.890000e-05 60.2
38 TraesCS4B01G078100 chr1D 100.000 29 0 0 6330 6358 478115562 478115534 3.000000e-03 54.7
39 TraesCS4B01G078100 chr2D 91.206 887 45 11 1 858 450946495 450947377 0.000000e+00 1175.0
40 TraesCS4B01G078100 chr2D 76.901 355 68 7 2093 2443 48566018 48566362 8.430000e-44 189.0
41 TraesCS4B01G078100 chr2D 75.504 347 64 21 2116 2450 156711862 156711525 3.980000e-32 150.0
42 TraesCS4B01G078100 chr2D 92.105 76 6 0 6283 6358 515573589 515573664 2.430000e-19 108.0
43 TraesCS4B01G078100 chr2D 88.312 77 9 0 6283 6359 148282843 148282919 6.800000e-15 93.5
44 TraesCS4B01G078100 chr2D 96.078 51 2 0 6162 6212 422762013 422762063 4.090000e-12 84.2
45 TraesCS4B01G078100 chr2D 86.842 76 5 1 6167 6237 35562227 35562302 5.290000e-11 80.5
46 TraesCS4B01G078100 chr2A 90.444 879 58 13 1 857 76500323 76501197 0.000000e+00 1134.0
47 TraesCS4B01G078100 chr2A 86.842 76 5 1 6167 6237 533527757 533527682 5.290000e-11 80.5
48 TraesCS4B01G078100 chr7D 90.090 888 53 12 1 857 210391052 210390169 0.000000e+00 1120.0
49 TraesCS4B01G078100 chr7D 89.272 261 14 9 555 810 410895667 410895918 1.330000e-81 315.0
50 TraesCS4B01G078100 chr7D 96.053 76 3 0 6283 6358 518085350 518085425 2.410000e-24 124.0
51 TraesCS4B01G078100 chr7D 85.526 76 6 3 6167 6237 272093238 272093313 2.460000e-09 75.0
52 TraesCS4B01G078100 chr5A 89.532 898 60 20 1 869 245436168 245435276 0.000000e+00 1107.0
53 TraesCS4B01G078100 chr5A 91.781 73 6 0 6286 6358 613460814 613460886 1.130000e-17 102.0
54 TraesCS4B01G078100 chr5A 100.000 47 0 0 6162 6208 25862612 25862566 3.160000e-13 87.9
55 TraesCS4B01G078100 chr6D 89.016 874 69 18 1 858 157735425 157734563 0.000000e+00 1057.0
56 TraesCS4B01G078100 chr6D 77.933 358 60 12 2093 2443 29851944 29852289 8.370000e-49 206.0
57 TraesCS4B01G078100 chr6D 77.067 375 65 12 2101 2466 29926117 29926479 5.040000e-46 196.0
58 TraesCS4B01G078100 chr6D 93.750 80 4 1 6283 6362 100600540 100600618 1.120000e-22 119.0
59 TraesCS4B01G078100 chr6D 97.917 48 1 0 6161 6208 173408978 173409025 4.090000e-12 84.2
60 TraesCS4B01G078100 chr6D 86.842 76 5 3 6283 6358 423793464 423793534 5.290000e-11 80.5
61 TraesCS4B01G078100 chr6D 100.000 42 0 0 6167 6208 423083341 423083300 1.900000e-10 78.7
62 TraesCS4B01G078100 chr6D 97.674 43 1 0 6166 6208 318956543 318956501 2.460000e-09 75.0
63 TraesCS4B01G078100 chr6D 97.619 42 1 0 6167 6208 28687016 28686975 8.860000e-09 73.1
64 TraesCS4B01G078100 chr6D 97.561 41 1 0 6167 6207 323051145 323051185 3.190000e-08 71.3
65 TraesCS4B01G078100 chr6D 92.500 40 2 1 6161 6200 436870234 436870196 8.920000e-04 56.5
66 TraesCS4B01G078100 chr6D 87.234 47 5 1 6163 6209 354104394 354104349 1.200000e-02 52.8
67 TraesCS4B01G078100 chr7A 86.952 889 56 25 1 857 721499404 721500264 0.000000e+00 944.0
68 TraesCS4B01G078100 chr7A 96.296 54 2 0 6283 6336 244662044 244662097 8.790000e-14 89.8
69 TraesCS4B01G078100 chr7A 86.250 80 6 1 6163 6237 48919103 48919182 1.470000e-11 82.4
70 TraesCS4B01G078100 chr7A 90.323 62 4 2 6299 6358 446460681 446460742 5.290000e-11 80.5
71 TraesCS4B01G078100 chr6A 78.830 359 60 10 2093 2446 32885005 32884658 1.790000e-55 228.0
72 TraesCS4B01G078100 chr6A 78.466 339 52 12 2140 2469 32811589 32811263 1.080000e-47 202.0
73 TraesCS4B01G078100 chr6A 86.207 87 6 4 6283 6368 105637453 105637534 8.790000e-14 89.8
74 TraesCS4B01G078100 chr6A 100.000 44 0 0 6167 6210 591859614 591859657 1.470000e-11 82.4
75 TraesCS4B01G078100 chr6B 78.171 339 53 12 2140 2469 57733115 57732789 5.040000e-46 196.0
76 TraesCS4B01G078100 chr3A 76.102 431 66 17 2114 2531 699754676 699754270 2.340000e-44 191.0
77 TraesCS4B01G078100 chr3D 75.926 432 65 20 2114 2531 565561615 565561209 1.090000e-42 185.0
78 TraesCS4B01G078100 chr3D 75.410 427 77 19 2114 2531 565608362 565607955 1.410000e-41 182.0
79 TraesCS4B01G078100 chr3D 93.506 77 5 0 6283 6359 330293795 330293871 1.450000e-21 115.0
80 TraesCS4B01G078100 chr3D 97.826 46 1 0 6163 6208 581570930 581570885 5.290000e-11 80.5
81 TraesCS4B01G078100 chr3D 86.885 61 7 1 6157 6217 79598053 79598112 4.120000e-07 67.6
82 TraesCS4B01G078100 chr4D 97.436 78 2 0 2281 2358 51069386 51069309 4.010000e-27 134.0
83 TraesCS4B01G078100 chr4D 92.105 76 6 0 6283 6358 17753199 17753124 2.430000e-19 108.0
84 TraesCS4B01G078100 chr4D 83.784 111 12 5 6167 6272 433111414 433111523 4.060000e-17 100.0
85 TraesCS4B01G078100 chr4D 86.076 79 5 2 6283 6361 12412363 12412291 5.290000e-11 80.5
86 TraesCS4B01G078100 chr4D 88.060 67 3 1 6295 6361 433111594 433111655 2.460000e-09 75.0
87 TraesCS4B01G078100 chr4D 94.000 50 1 1 6161 6208 439166188 439166139 2.460000e-09 75.0
88 TraesCS4B01G078100 chr4D 100.000 32 0 0 6327 6358 14939131 14939162 6.890000e-05 60.2
89 TraesCS4B01G078100 chr4D 100.000 32 0 0 6327 6358 39240939 39240970 6.890000e-05 60.2
90 TraesCS4B01G078100 chr5D 100.000 44 0 0 6167 6210 399997364 399997407 1.470000e-11 82.4
91 TraesCS4B01G078100 chr5D 85.526 76 6 2 6283 6358 310254523 310254593 2.460000e-09 75.0
92 TraesCS4B01G078100 chr5D 87.719 57 7 0 6181 6237 515818692 515818636 4.120000e-07 67.6
93 TraesCS4B01G078100 chr1A 97.872 47 1 0 6162 6208 96362890 96362936 1.470000e-11 82.4
94 TraesCS4B01G078100 chr1A 97.872 47 1 0 6162 6208 533735718 533735764 1.470000e-11 82.4
95 TraesCS4B01G078100 chr1A 85.507 69 4 2 6295 6363 555805076 555805138 4.120000e-07 67.6
96 TraesCS4B01G078100 chrUn 95.238 42 2 0 6167 6208 348964573 348964532 4.120000e-07 67.6
97 TraesCS4B01G078100 chrUn 88.235 51 5 1 6162 6212 332292919 332292870 6.890000e-05 60.2
98 TraesCS4B01G078100 chrUn 89.583 48 4 1 6162 6209 405279236 405279282 6.890000e-05 60.2
99 TraesCS4B01G078100 chrUn 94.595 37 2 0 6327 6363 88650622 88650658 2.480000e-04 58.4


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 TraesCS4B01G078100 chr4B 75189409 75195776 6367 True 11760.00 11760 100.0000 1 6368 1 chr4B.!!$R1 6367
1 TraesCS4B01G078100 chr4A 545612435 545619942 7507 False 1851.62 4963 96.3866 857 6368 5 chr4A.!!$F3 5511
2 TraesCS4B01G078100 chr4A 719116640 719117526 886 True 1151.00 1151 90.6850 1 857 1 chr4A.!!$R2 856
3 TraesCS4B01G078100 chr4A 493576506 493577374 868 False 1072.00 1072 89.2450 1 855 1 chr4A.!!$F1 854
4 TraesCS4B01G078100 chr3B 817268939 817269833 894 False 1341.00 1341 94.2220 1 870 1 chr3B.!!$F2 869
5 TraesCS4B01G078100 chr7B 166582037 166582921 884 False 1332.00 1332 94.3760 1 857 1 chr7B.!!$F1 856
6 TraesCS4B01G078100 chr1B 64386852 64387736 884 True 1306.00 1306 93.8200 1 860 1 chr1B.!!$R1 859
7 TraesCS4B01G078100 chr5B 697372909 697373655 746 False 1271.00 1271 97.5900 1 738 1 chr5B.!!$F2 737
8 TraesCS4B01G078100 chr1D 47700477 47701344 867 False 1229.00 1229 92.4740 1 858 1 chr1D.!!$F1 857
9 TraesCS4B01G078100 chr2D 450946495 450947377 882 False 1175.00 1175 91.2060 1 858 1 chr2D.!!$F5 857
10 TraesCS4B01G078100 chr2A 76500323 76501197 874 False 1134.00 1134 90.4440 1 857 1 chr2A.!!$F1 856
11 TraesCS4B01G078100 chr7D 210390169 210391052 883 True 1120.00 1120 90.0900 1 857 1 chr7D.!!$R1 856
12 TraesCS4B01G078100 chr5A 245435276 245436168 892 True 1107.00 1107 89.5320 1 869 1 chr5A.!!$R2 868
13 TraesCS4B01G078100 chr6D 157734563 157735425 862 True 1057.00 1057 89.0160 1 858 1 chr6D.!!$R2 857
14 TraesCS4B01G078100 chr7A 721499404 721500264 860 False 944.00 944 86.9520 1 857 1 chr7A.!!$F4 856

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
964 1086 0.037975 TAACTCTTGCGAACCCGTCC 60.038 55.0 0.00 0.00 38.24 4.79 F
1454 1582 0.378962 GGTCGACTCATCTGTCTCCG 59.621 60.0 16.46 0.00 35.00 4.63 F
2702 2830 0.034574 TGGTATGACACACATGGGCC 60.035 55.0 0.00 0.00 39.77 5.80 F
3711 3856 0.179097 GAGGAAGTCGGGACAGCATC 60.179 60.0 1.17 0.00 0.00 3.91 F
4081 6208 0.233848 GGCCGTACAACAAAGACACG 59.766 55.0 0.00 0.00 0.00 4.49 F
5062 7189 0.172578 TACGTTGTCGGAGCTCCATG 59.827 55.0 31.67 19.34 41.85 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2298 2426 0.178958 AGGACACGGTCTTCCTCACT 60.179 55.0 2.52 0.00 37.77 3.41 R
2852 2996 0.250901 AGCTGGTAGTTTGCACCCAG 60.251 55.0 9.89 9.89 45.87 4.45 R
4584 6711 0.036306 ACGCCAAACCTCGATTTCCT 59.964 50.0 0.00 0.00 0.00 3.36 R
5047 7174 0.036388 GGAACATGGAGCTCCGACAA 60.036 55.0 27.43 10.80 39.43 3.18 R
5136 7263 0.038744 AGGGACAGACAAGCCCAATG 59.961 55.0 0.00 0.00 44.55 2.82 R
6149 8276 0.784495 AGGTATAGCGGGGATCCTCA 59.216 55.0 13.38 0.00 0.00 3.86 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
285 291 1.201704 CGTTGTCGAGCGTTCTTGATG 60.202 52.381 0.00 0.00 39.71 3.07
293 299 0.737715 GCGTTCTTGATGCTCGAGGT 60.738 55.000 15.58 0.00 37.30 3.85
881 1003 4.344359 CCTAAATTCTGAGTAGGCCTCC 57.656 50.000 9.68 0.00 39.65 4.30
882 1004 2.990066 AAATTCTGAGTAGGCCTCCG 57.010 50.000 9.68 0.00 39.65 4.63
884 1006 1.867363 ATTCTGAGTAGGCCTCCGTT 58.133 50.000 9.68 0.00 39.65 4.44
886 1008 0.331954 TCTGAGTAGGCCTCCGTTCT 59.668 55.000 9.68 0.69 39.65 3.01
908 1030 7.260558 TCTGTGAGTACGAGGACTAAATATG 57.739 40.000 0.00 0.00 0.00 1.78
914 1036 8.746530 TGAGTACGAGGACTAAATATGAGTTTT 58.253 33.333 0.00 0.00 0.00 2.43
925 1047 6.494893 AAATATGAGTTTTACGAGCAAGCA 57.505 33.333 0.00 0.00 0.00 3.91
933 1055 0.669318 TACGAGCAAGCAAAGGACCG 60.669 55.000 0.00 0.00 0.00 4.79
935 1057 3.314388 GAGCAAGCAAAGGACCGCG 62.314 63.158 0.00 0.00 0.00 6.46
957 1079 5.672051 CGTTGTGTATTTAACTCTTGCGAA 58.328 37.500 0.00 0.00 0.00 4.70
958 1080 5.558888 CGTTGTGTATTTAACTCTTGCGAAC 59.441 40.000 0.00 0.00 0.00 3.95
959 1081 5.600908 TGTGTATTTAACTCTTGCGAACC 57.399 39.130 0.00 0.00 0.00 3.62
960 1082 4.453136 TGTGTATTTAACTCTTGCGAACCC 59.547 41.667 0.00 0.00 0.00 4.11
961 1083 3.680937 TGTATTTAACTCTTGCGAACCCG 59.319 43.478 0.00 0.00 39.16 5.28
962 1084 2.243602 TTTAACTCTTGCGAACCCGT 57.756 45.000 0.00 0.00 38.24 5.28
963 1085 1.787012 TTAACTCTTGCGAACCCGTC 58.213 50.000 0.00 0.00 38.24 4.79
964 1086 0.037975 TAACTCTTGCGAACCCGTCC 60.038 55.000 0.00 0.00 38.24 4.79
965 1087 1.755393 AACTCTTGCGAACCCGTCCT 61.755 55.000 0.00 0.00 38.24 3.85
966 1088 1.446272 CTCTTGCGAACCCGTCCTC 60.446 63.158 0.00 0.00 38.24 3.71
967 1089 2.434359 CTTGCGAACCCGTCCTCC 60.434 66.667 0.00 0.00 38.24 4.30
968 1090 2.920912 TTGCGAACCCGTCCTCCT 60.921 61.111 0.00 0.00 38.24 3.69
969 1091 2.837371 CTTGCGAACCCGTCCTCCTC 62.837 65.000 0.00 0.00 38.24 3.71
970 1092 4.144703 GCGAACCCGTCCTCCTCC 62.145 72.222 0.00 0.00 38.24 4.30
971 1093 3.823330 CGAACCCGTCCTCCTCCG 61.823 72.222 0.00 0.00 0.00 4.63
972 1094 4.144703 GAACCCGTCCTCCTCCGC 62.145 72.222 0.00 0.00 0.00 5.54
973 1095 4.698625 AACCCGTCCTCCTCCGCT 62.699 66.667 0.00 0.00 0.00 5.52
976 1098 3.068691 CCGTCCTCCTCCGCTGAA 61.069 66.667 0.00 0.00 0.00 3.02
977 1099 2.427245 CCGTCCTCCTCCGCTGAAT 61.427 63.158 0.00 0.00 0.00 2.57
978 1100 1.517832 CGTCCTCCTCCGCTGAATT 59.482 57.895 0.00 0.00 0.00 2.17
979 1101 0.528684 CGTCCTCCTCCGCTGAATTC 60.529 60.000 0.00 0.00 0.00 2.17
980 1102 0.827368 GTCCTCCTCCGCTGAATTCT 59.173 55.000 7.05 0.00 0.00 2.40
981 1103 1.208293 GTCCTCCTCCGCTGAATTCTT 59.792 52.381 7.05 0.00 0.00 2.52
982 1104 1.208052 TCCTCCTCCGCTGAATTCTTG 59.792 52.381 7.05 1.00 0.00 3.02
983 1105 1.012841 CTCCTCCGCTGAATTCTTGC 58.987 55.000 7.05 10.04 0.00 4.01
1026 1148 2.356553 TTGCGAACCGGTCCTTCG 60.357 61.111 20.25 20.25 42.78 3.79
1034 1156 2.171725 CCGGTCCTTCGGCGAATTC 61.172 63.158 23.96 15.18 43.71 2.17
1104 1226 1.226746 CAAGAACCGGTTGAGTCCAC 58.773 55.000 27.87 8.34 0.00 4.02
1454 1582 0.378962 GGTCGACTCATCTGTCTCCG 59.621 60.000 16.46 0.00 35.00 4.63
1651 1779 4.021102 ACCATTTTCTCGTGGAACAGAT 57.979 40.909 0.00 0.00 41.80 2.90
1653 1781 5.556915 ACCATTTTCTCGTGGAACAGATTA 58.443 37.500 0.00 0.00 41.80 1.75
1682 1810 5.821097 AGAAAAGAAAGGAGGATAACTGGG 58.179 41.667 0.00 0.00 0.00 4.45
1708 1836 3.940209 TGTGAATTGGCAGGTTTGATC 57.060 42.857 0.00 0.00 0.00 2.92
1710 1838 2.827921 GTGAATTGGCAGGTTTGATCCT 59.172 45.455 0.00 0.00 38.51 3.24
1740 1868 8.388103 AGCGTCTGATAATGTTAAATGTTGTAC 58.612 33.333 0.00 0.00 0.00 2.90
1762 1890 7.868922 TGTACTGTAGATGTTTGATGTTAACGT 59.131 33.333 0.00 0.00 0.00 3.99
1766 1894 9.135843 CTGTAGATGTTTGATGTTAACGTCTTA 57.864 33.333 24.50 12.57 45.08 2.10
1813 1941 2.806945 TGTGATGAATCCTGAACCCC 57.193 50.000 0.00 0.00 0.00 4.95
1869 1997 8.696043 TTCAATGAAGGGATAATGTCTATTGG 57.304 34.615 0.00 0.00 0.00 3.16
1936 2064 6.403092 GGAAAACTGGAACCAAACACAAATTG 60.403 38.462 0.00 0.00 0.00 2.32
1944 2072 2.534298 CAAACACAAATTGCCGTCACA 58.466 42.857 0.00 0.00 0.00 3.58
1954 2082 7.328249 CACAAATTGCCGTCACATTTTAGTTAT 59.672 33.333 0.00 0.00 0.00 1.89
2034 2162 3.310774 AGACGATTCCAATGAATGAAGCG 59.689 43.478 8.16 8.16 41.30 4.68
2082 2210 5.481824 AGTTGATCAGTCTATGTCAGGACAA 59.518 40.000 6.17 0.00 45.41 3.18
2220 2348 6.070596 TCCCTGTACTTAGCATATGATGGATG 60.071 42.308 6.97 0.00 0.00 3.51
2298 2426 5.957771 AGTTCTTGATAGGCAGGATACAA 57.042 39.130 0.00 0.00 41.41 2.41
2306 2434 2.551270 AGGCAGGATACAAGTGAGGAA 58.449 47.619 0.00 0.00 41.41 3.36
2323 2451 1.079503 GAAGACCGTGTCCTTGATGC 58.920 55.000 1.06 0.00 32.18 3.91
2324 2452 0.396435 AAGACCGTGTCCTTGATGCA 59.604 50.000 0.00 0.00 32.18 3.96
2397 2525 1.234615 TGTGAGCCGCAAAGTAAGCC 61.235 55.000 0.00 0.00 0.00 4.35
2399 2527 1.377333 GAGCCGCAAAGTAAGCCCT 60.377 57.895 0.00 0.00 0.00 5.19
2400 2528 1.369839 GAGCCGCAAAGTAAGCCCTC 61.370 60.000 0.00 0.00 0.00 4.30
2471 2599 5.163774 GGATGATTCTCTTCAAGTTGCACTC 60.164 44.000 0.00 0.00 0.00 3.51
2486 2614 5.934625 AGTTGCACTCTACTTGATTAACTGG 59.065 40.000 0.00 0.00 0.00 4.00
2493 2621 4.777896 TCTACTTGATTAACTGGAGCTGGT 59.222 41.667 0.00 0.00 0.00 4.00
2497 2625 3.942829 TGATTAACTGGAGCTGGTTCTG 58.057 45.455 0.00 0.00 0.00 3.02
2571 2699 3.820467 TGCCATCAGTCTTAAACCTTGTG 59.180 43.478 0.00 0.00 0.00 3.33
2573 2701 3.191371 CCATCAGTCTTAAACCTTGTGCC 59.809 47.826 0.00 0.00 0.00 5.01
2605 2733 8.292444 ACCAATTGTACATAATGCACTGTAAT 57.708 30.769 4.43 0.00 30.14 1.89
2606 2734 8.748412 ACCAATTGTACATAATGCACTGTAATT 58.252 29.630 4.43 4.74 30.14 1.40
2640 2768 4.183865 CAGATCAACGCCACTAATGAGAA 58.816 43.478 0.00 0.00 0.00 2.87
2699 2827 9.681692 CATTAAATATTGGTATGACACACATGG 57.318 33.333 0.00 0.00 39.77 3.66
2702 2830 0.034574 TGGTATGACACACATGGGCC 60.035 55.000 0.00 0.00 39.77 5.80
2801 2945 7.734924 TGTGCATATCTGTTTATCCTTCATC 57.265 36.000 0.00 0.00 0.00 2.92
2839 2983 4.507756 TGTAAGCATTATCGCAACTGCTAG 59.492 41.667 0.00 0.00 43.82 3.42
3047 3191 6.549433 AAATATTGTGTCCAAATGCATCCT 57.451 33.333 0.00 0.00 33.44 3.24
3188 3333 2.289694 ACCCTTCTTGATGGTTCTGACG 60.290 50.000 2.57 0.00 0.00 4.35
3344 3489 7.956420 ACGAACATCACTTTGATTACACTTA 57.044 32.000 0.00 0.00 34.28 2.24
3402 3547 8.211629 CCTAGCACTTGATACCTATTTTACCTT 58.788 37.037 0.00 0.00 0.00 3.50
3458 3603 1.984424 TCATTCCATGTGGTGAGTGGA 59.016 47.619 0.00 0.00 40.13 4.02
3508 3653 2.672098 ACAGCCCTAGAGATACCACTG 58.328 52.381 0.00 0.00 0.00 3.66
3711 3856 0.179097 GAGGAAGTCGGGACAGCATC 60.179 60.000 1.17 0.00 0.00 3.91
3788 3933 1.668151 GTCCCGATGCTAATCCGCC 60.668 63.158 0.00 0.00 0.00 6.13
3860 4005 1.340502 TGCAACAGGGAAGTGTCACAA 60.341 47.619 5.62 0.00 0.00 3.33
3871 4016 2.867624 AGTGTCACAATTGCACTGGAT 58.132 42.857 14.15 0.00 38.14 3.41
3891 4036 9.159254 ACTGGATATGGAATTTATGAGTACAGA 57.841 33.333 0.00 0.00 0.00 3.41
3962 4107 1.392589 CGATTTGGTCAATGGAGGGG 58.607 55.000 0.00 0.00 0.00 4.79
4081 6208 0.233848 GGCCGTACAACAAAGACACG 59.766 55.000 0.00 0.00 0.00 4.49
4225 6352 1.423921 TGGGTTTTCTTCCAGGGAGAC 59.576 52.381 0.00 0.00 0.00 3.36
4237 6364 1.683385 CAGGGAGACTATGATGTCGCA 59.317 52.381 0.00 0.00 41.47 5.10
4256 6383 5.000591 TCGCATTTCTGTTAAATCTGGTCA 58.999 37.500 0.00 0.00 0.00 4.02
4265 6392 8.924511 TCTGTTAAATCTGGTCAGAAATTTCT 57.075 30.769 15.11 15.11 41.36 2.52
4279 6406 2.907458 ATTTCTTGCCAGCTACCCTT 57.093 45.000 0.00 0.00 0.00 3.95
4315 6442 3.529216 AGGTATACCTGCTCTCTACCC 57.471 52.381 24.01 0.00 46.55 3.69
4399 6526 5.121380 ACTGGTTGGCAGATAAGATCAAT 57.879 39.130 0.00 0.00 0.00 2.57
4402 6529 5.263599 TGGTTGGCAGATAAGATCAATGTT 58.736 37.500 0.00 0.00 0.00 2.71
4500 6627 2.905075 CCTCGGAATTGACAGCATACA 58.095 47.619 0.00 0.00 0.00 2.29
4537 6664 6.876257 GGGTTCTCTGTGGATTATATGATGTC 59.124 42.308 0.00 0.00 0.00 3.06
4584 6711 2.396713 TGGGACATGCCAATCTCCA 58.603 52.632 8.20 0.00 38.95 3.86
4616 6743 4.279671 AGGTTTGGCGTGACAATTTTGATA 59.720 37.500 0.00 0.00 0.00 2.15
4625 6752 6.246449 CGTGACAATTTTGATAGAGAAGCAG 58.754 40.000 0.00 0.00 0.00 4.24
4684 6811 3.674997 TGTGGGAGTAGATGTTTGCTTC 58.325 45.455 0.00 0.00 0.00 3.86
4747 6874 2.624838 AGGTTGTTTTGAGCTCATGGTG 59.375 45.455 19.04 0.00 0.00 4.17
4818 6945 0.698238 TACACTGGGCAGCTTCCAAT 59.302 50.000 4.34 0.00 33.36 3.16
4851 6978 2.030981 GGAGATTCCACGTATCCGAGTC 60.031 54.545 0.00 0.00 36.28 3.36
4856 6983 1.407618 TCCACGTATCCGAGTCCATTG 59.592 52.381 0.00 0.00 37.88 2.82
4871 6998 1.002257 ATTGACACTGATGCCGCCA 60.002 52.632 0.00 0.00 0.00 5.69
4872 6999 0.608856 ATTGACACTGATGCCGCCAA 60.609 50.000 0.00 0.00 0.00 4.52
4890 7017 4.261405 CGCCAAGTACATTCACTTTCCAAA 60.261 41.667 0.00 0.00 36.61 3.28
4904 7031 7.382110 TCACTTTCCAAAATTTGTTGAACTCA 58.618 30.769 4.92 0.00 0.00 3.41
4917 7044 4.579753 TGTTGAACTCATTCACAGATGCAA 59.420 37.500 0.00 0.00 44.66 4.08
4969 7096 2.437281 CACCTATGAGGGAGCAGAATGT 59.563 50.000 0.00 0.00 40.58 2.71
5038 7165 3.788227 ATACCATTGACAGTGTGTGGT 57.212 42.857 21.52 21.52 44.75 4.16
5046 7173 2.034939 TGACAGTGTGTGGTTACCTACG 59.965 50.000 0.00 0.00 0.00 3.51
5047 7174 2.034124 ACAGTGTGTGGTTACCTACGT 58.966 47.619 2.07 0.00 0.00 3.57
5062 7189 0.172578 TACGTTGTCGGAGCTCCATG 59.827 55.000 31.67 19.34 41.85 3.66
5071 7198 0.462759 GGAGCTCCATGTTCCCTTCG 60.463 60.000 28.43 0.00 39.78 3.79
5107 7234 0.250295 TGCTGGTGTCTCGGGAAAAG 60.250 55.000 0.00 0.00 0.00 2.27
5109 7236 0.685097 CTGGTGTCTCGGGAAAAGGA 59.315 55.000 0.00 0.00 0.00 3.36
5136 7263 0.955428 TTGGCTGACATTGCTCGTCC 60.955 55.000 0.00 0.00 32.15 4.79
5218 7345 0.756294 TGGTTCGGCTGAGAGAACAA 59.244 50.000 18.11 8.36 46.09 2.83
5225 7352 2.354103 CGGCTGAGAGAACAATTGGAGA 60.354 50.000 10.83 0.00 0.00 3.71
5229 7356 4.391523 GCTGAGAGAACAATTGGAGAAGTC 59.608 45.833 10.83 0.14 0.00 3.01
5247 7374 2.370445 CGGATGCCCTTCTCCTGGT 61.370 63.158 0.00 0.00 0.00 4.00
5262 7389 4.827835 TCTCCTGGTCTATAAAGATCACCG 59.172 45.833 0.00 0.00 37.96 4.94
5284 7411 1.745653 GGGAAACTGTTAGCCAGATGC 59.254 52.381 12.56 0.00 44.49 3.91
5335 7462 6.240894 AGGAAGAGCATTCAATGTTTAGTGA 58.759 36.000 0.00 0.00 0.00 3.41
5344 7471 5.627499 TCAATGTTTAGTGAGGTGCATTC 57.373 39.130 0.00 0.00 0.00 2.67
5393 7520 6.801718 AGGTAGGTGTATACTTGTGCATTA 57.198 37.500 4.17 0.00 0.00 1.90
5421 7548 7.994911 TGTGCTAGAAATTGGATTGATCTGTAT 59.005 33.333 0.00 0.00 0.00 2.29
5550 7677 6.968263 TGTATTCTGGTTGGTGATGAAAAA 57.032 33.333 0.00 0.00 0.00 1.94
5617 7744 3.959535 TTGGCCATTGCTTCTTTAAGG 57.040 42.857 6.09 0.00 37.74 2.69
5697 7824 7.968405 CCTTCATACTACCATTTTAACAACAGC 59.032 37.037 0.00 0.00 0.00 4.40
5756 7883 5.336690 GGATTGCTGCAATTTTTCCTGTAGA 60.337 40.000 26.87 0.00 33.90 2.59
5958 8085 7.807977 TTCTGCATCTTTCTTTTGACTAAGT 57.192 32.000 0.00 0.00 0.00 2.24
5959 8086 7.807977 TCTGCATCTTTCTTTTGACTAAGTT 57.192 32.000 0.00 0.00 0.00 2.66
6010 8137 9.219603 TGCATGAAAAGTATCACTATATAAGGC 57.780 33.333 0.00 0.00 30.82 4.35
6078 8205 3.391296 GTCTGGGTCTATGGGAGCATTAA 59.609 47.826 0.00 0.00 43.58 1.40
6136 8263 3.306019 CCATAAGGGCTTGTTTGGTGAAC 60.306 47.826 0.00 0.00 38.78 3.18
6149 8276 1.210967 TGGTGAACAGGGAAAAGTCGT 59.789 47.619 0.00 0.00 0.00 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 9.237187 TGATTCTACATTACCAAATAACTTGCA 57.763 29.630 0.00 0.00 33.27 4.08
293 299 1.447838 GACGCAGCCCAAGAATCGA 60.448 57.895 0.00 0.00 0.00 3.59
298 304 2.031012 CAGTGACGCAGCCCAAGA 59.969 61.111 0.00 0.00 0.00 3.02
852 974 7.222000 CCTACTCAGAATTTAGGCCTACTAG 57.778 44.000 13.46 7.35 32.16 2.57
881 1003 1.805345 AGTCCTCGTACTCACAGAACG 59.195 52.381 0.00 0.00 37.96 3.95
882 1004 5.368256 TTTAGTCCTCGTACTCACAGAAC 57.632 43.478 0.00 0.00 0.00 3.01
884 1006 7.052248 TCATATTTAGTCCTCGTACTCACAGA 58.948 38.462 0.00 0.00 0.00 3.41
886 1008 6.827251 ACTCATATTTAGTCCTCGTACTCACA 59.173 38.462 0.00 0.00 0.00 3.58
908 1030 3.250040 TCCTTTGCTTGCTCGTAAAACTC 59.750 43.478 0.00 0.00 0.00 3.01
914 1036 0.669318 CGGTCCTTTGCTTGCTCGTA 60.669 55.000 0.00 0.00 0.00 3.43
915 1037 1.961277 CGGTCCTTTGCTTGCTCGT 60.961 57.895 0.00 0.00 0.00 4.18
925 1047 1.886886 AATACACAACGCGGTCCTTT 58.113 45.000 12.47 0.00 0.00 3.11
933 1055 3.838550 CGCAAGAGTTAAATACACAACGC 59.161 43.478 0.00 0.00 43.02 4.84
959 1081 1.961180 AATTCAGCGGAGGAGGACGG 61.961 60.000 0.00 0.00 0.00 4.79
960 1082 0.528684 GAATTCAGCGGAGGAGGACG 60.529 60.000 0.00 0.00 0.00 4.79
961 1083 0.827368 AGAATTCAGCGGAGGAGGAC 59.173 55.000 8.44 0.00 0.00 3.85
962 1084 1.208052 CAAGAATTCAGCGGAGGAGGA 59.792 52.381 8.44 0.00 0.00 3.71
963 1085 1.661341 CAAGAATTCAGCGGAGGAGG 58.339 55.000 8.44 0.00 0.00 4.30
964 1086 1.012841 GCAAGAATTCAGCGGAGGAG 58.987 55.000 8.44 0.00 0.00 3.69
965 1087 3.159298 GCAAGAATTCAGCGGAGGA 57.841 52.632 8.44 0.00 0.00 3.71
979 1101 2.434359 GGAGGACGGGTTCGCAAG 60.434 66.667 0.00 0.00 40.63 4.01
980 1102 2.920912 AGGAGGACGGGTTCGCAA 60.921 61.111 0.00 0.00 40.63 4.85
981 1103 3.379445 GAGGAGGACGGGTTCGCA 61.379 66.667 0.00 0.00 40.63 5.10
982 1104 4.144703 GGAGGAGGACGGGTTCGC 62.145 72.222 0.00 0.00 40.63 4.70
983 1105 3.823330 CGGAGGAGGACGGGTTCG 61.823 72.222 0.00 0.00 43.02 3.95
984 1106 4.144703 GCGGAGGAGGACGGGTTC 62.145 72.222 0.00 0.00 0.00 3.62
985 1107 4.698625 AGCGGAGGAGGACGGGTT 62.699 66.667 0.00 0.00 0.00 4.11
1073 1195 3.136260 ACCGGTTCTTGGTTTAGGTTGTA 59.864 43.478 0.00 0.00 35.82 2.41
1356 1484 1.453155 TGCGAGATTCTTGCCCTTTC 58.547 50.000 20.74 0.00 39.96 2.62
1454 1582 1.278238 CATCGACTAACTGCGTTCCC 58.722 55.000 0.00 0.00 0.00 3.97
1587 1715 1.558294 ACTACAAGGAAACCCCGATCC 59.442 52.381 0.00 0.00 40.87 3.36
1640 1768 6.494893 TTTCTTCCAATAATCTGTTCCACG 57.505 37.500 0.00 0.00 0.00 4.94
1653 1781 8.173412 AGTTATCCTCCTTTCTTTTCTTCCAAT 58.827 33.333 0.00 0.00 0.00 3.16
1682 1810 2.034124 ACCTGCCAATTCACATATGCC 58.966 47.619 1.58 0.00 0.00 4.40
1708 1836 9.438291 CATTTAACATTATCAGACGCTAAAAGG 57.562 33.333 0.00 0.00 0.00 3.11
1740 1868 7.582435 AGACGTTAACATCAAACATCTACAG 57.418 36.000 4.28 0.00 28.35 2.74
1766 1894 8.375506 TCCAGAGTAACACAGAATTTAGAATGT 58.624 33.333 0.00 0.00 0.00 2.71
1813 1941 1.004745 AGGTGAACAGCATTACAGGGG 59.995 52.381 6.76 0.00 0.00 4.79
1869 1997 5.419760 AAAGAAGTTCTAAACCAAGCGAC 57.580 39.130 5.65 0.00 0.00 5.19
1895 2023 6.884295 CCAGTTTTCCTAGTTCCATGTTATCA 59.116 38.462 0.00 0.00 0.00 2.15
1896 2024 7.110155 TCCAGTTTTCCTAGTTCCATGTTATC 58.890 38.462 0.00 0.00 0.00 1.75
1906 2034 5.126545 GTGTTTGGTTCCAGTTTTCCTAGTT 59.873 40.000 0.00 0.00 0.00 2.24
1908 2036 4.642885 TGTGTTTGGTTCCAGTTTTCCTAG 59.357 41.667 0.00 0.00 0.00 3.02
1936 2064 4.092383 ACGACATAACTAAAATGTGACGGC 59.908 41.667 0.00 0.00 37.69 5.68
1944 2072 9.847224 AGAATATGGGAACGACATAACTAAAAT 57.153 29.630 0.00 0.00 34.75 1.82
1954 2082 7.788026 ACACTTATTAGAATATGGGAACGACA 58.212 34.615 4.83 0.00 0.00 4.35
2034 2162 5.528690 TGGATCACTGTAATAATGCTCAAGC 59.471 40.000 0.00 0.00 42.50 4.01
2082 2210 7.781324 AAGGTTCATCACATTCAAATAACCT 57.219 32.000 0.00 0.00 45.55 3.50
2148 2276 4.579869 TGAAGCTCCTGTAGAAACAATCC 58.420 43.478 0.00 0.00 34.49 3.01
2298 2426 0.178958 AGGACACGGTCTTCCTCACT 60.179 55.000 2.52 0.00 37.77 3.41
2306 2434 0.396435 TTGCATCAAGGACACGGTCT 59.604 50.000 0.00 0.00 32.47 3.85
2324 2452 9.921637 GCATATCTACTAGCTACTCTTTCAATT 57.078 33.333 0.00 0.00 0.00 2.32
2397 2525 6.436843 AAAACAAATATGTAGAAGGCGAGG 57.563 37.500 0.00 0.00 39.40 4.63
2441 2569 6.627087 ACTTGAAGAGAATCATCCCTTACA 57.373 37.500 0.00 0.00 37.82 2.41
2471 2599 5.091261 ACCAGCTCCAGTTAATCAAGTAG 57.909 43.478 0.00 0.00 0.00 2.57
2486 2614 0.251354 TGAGATGCCAGAACCAGCTC 59.749 55.000 0.16 0.16 43.88 4.09
2493 2621 4.285020 ACAGAGATAGTGAGATGCCAGAA 58.715 43.478 0.00 0.00 0.00 3.02
2497 2625 5.755861 GGTAAAACAGAGATAGTGAGATGCC 59.244 44.000 0.00 0.00 0.00 4.40
2571 2699 7.010091 GCATTATGTACAATTGGTTGTTAAGGC 59.990 37.037 10.83 10.01 46.07 4.35
2573 2701 8.859156 GTGCATTATGTACAATTGGTTGTTAAG 58.141 33.333 10.83 0.00 46.07 1.85
2605 2733 6.484977 TGGCGTTGATCTGCATAAACATATAA 59.515 34.615 7.32 0.00 0.00 0.98
2606 2734 5.994668 TGGCGTTGATCTGCATAAACATATA 59.005 36.000 7.32 0.00 0.00 0.86
2673 2801 9.681692 CCATGTGTGTCATACCAATATTTAATG 57.318 33.333 0.00 0.00 34.67 1.90
2699 2827 7.443272 ACAGTAATACCATAATAAGAAACGGCC 59.557 37.037 0.00 0.00 0.00 6.13
2839 2983 1.609072 GCACCCAGAAAGGAGTTCAAC 59.391 52.381 0.00 0.00 41.22 3.18
2852 2996 0.250901 AGCTGGTAGTTTGCACCCAG 60.251 55.000 9.89 9.89 45.87 4.45
2949 3093 4.039852 GGTATCCCTCTGTCTCTTCCATTC 59.960 50.000 0.00 0.00 0.00 2.67
2978 3122 5.938125 ACGTATCAAAAACCTGCTACTTGAT 59.062 36.000 0.00 0.00 39.43 2.57
3168 3313 2.350522 CGTCAGAACCATCAAGAAGGG 58.649 52.381 0.00 0.00 0.00 3.95
3344 3489 8.257306 AGTGTACAAGAAAATTTTGGTTGATGT 58.743 29.630 21.36 13.38 0.00 3.06
3402 3547 3.646162 CCACTGCATGTAGAGGGGTAATA 59.354 47.826 18.40 0.00 0.00 0.98
3458 3603 3.881688 GCCATTACTGCAAGATGATCTGT 59.118 43.478 0.00 0.00 37.43 3.41
3508 3653 3.622163 CACCATTCAGATGCTTCACTCTC 59.378 47.826 2.07 0.00 31.67 3.20
3788 3933 3.760151 TCAGAATTTTCATGCCAGACTGG 59.240 43.478 17.83 17.83 41.55 4.00
3860 4005 7.727186 ACTCATAAATTCCATATCCAGTGCAAT 59.273 33.333 0.00 0.00 0.00 3.56
3871 4016 8.561536 TCCCTTCTGTACTCATAAATTCCATA 57.438 34.615 0.00 0.00 0.00 2.74
3891 4036 1.228459 GGGCGAACTTGGTTCCCTT 60.228 57.895 13.41 0.00 39.14 3.95
3962 4107 3.274288 CCAGCCCTAGTTGAAGAACATC 58.726 50.000 0.00 0.00 34.17 3.06
4081 6208 9.528018 TGTTTTTGATTGGTTAGAAACTTGATC 57.472 29.630 0.00 0.00 0.00 2.92
4225 6352 8.554528 AGATTTAACAGAAATGCGACATCATAG 58.445 33.333 0.00 0.00 0.00 2.23
4256 6383 3.092301 GGGTAGCTGGCAAGAAATTTCT 58.908 45.455 15.11 15.11 39.74 2.52
4265 6392 0.476338 TCAACAAGGGTAGCTGGCAA 59.524 50.000 0.00 0.00 0.00 4.52
4279 6406 6.844388 AGGTATACCTCCTCATATGTTCAACA 59.156 38.462 19.27 0.00 44.77 3.33
4315 6442 3.543680 ACCCGAACATCATAGAGTTGG 57.456 47.619 0.00 0.00 0.00 3.77
4382 6509 5.066893 GCTGAACATTGATCTTATCTGCCAA 59.933 40.000 0.00 0.00 0.00 4.52
4399 6526 4.243008 TTGCCGGTCCGCTGAACA 62.243 61.111 5.50 0.00 0.00 3.18
4402 6529 4.680237 CTGTTGCCGGTCCGCTGA 62.680 66.667 5.50 0.00 0.00 4.26
4484 6611 4.989279 ATGGTTGTATGCTGTCAATTCC 57.011 40.909 0.00 0.00 0.00 3.01
4537 6664 3.496130 GGGCTTTACTGATGATGTGATCG 59.504 47.826 0.00 0.00 0.00 3.69
4582 6709 0.811281 GCCAAACCTCGATTTCCTGG 59.189 55.000 0.00 0.00 0.00 4.45
4584 6711 0.036306 ACGCCAAACCTCGATTTCCT 59.964 50.000 0.00 0.00 0.00 3.36
4616 6743 2.746362 GTGCAATAACAGCTGCTTCTCT 59.254 45.455 15.27 0.00 39.38 3.10
4648 6775 6.163135 ACTCCCACAATATAGTAGTTGCTC 57.837 41.667 0.00 0.00 0.00 4.26
4684 6811 0.969149 TGTGACCTAGTGCTGGACTG 59.031 55.000 12.41 0.00 35.96 3.51
4818 6945 0.991920 GAATCTCCACCACCTTCCCA 59.008 55.000 0.00 0.00 0.00 4.37
4846 6973 1.662629 GCATCAGTGTCAATGGACTCG 59.337 52.381 1.02 0.00 44.61 4.18
4851 6978 1.430632 GCGGCATCAGTGTCAATGG 59.569 57.895 0.00 0.00 0.00 3.16
4856 6983 0.391130 TACTTGGCGGCATCAGTGTC 60.391 55.000 22.51 0.00 0.00 3.67
4871 6998 9.665719 AACAAATTTTGGAAAGTGAATGTACTT 57.334 25.926 13.42 0.00 37.46 2.24
4872 6999 9.097257 CAACAAATTTTGGAAAGTGAATGTACT 57.903 29.630 13.42 0.00 34.12 2.73
4890 7017 6.643770 GCATCTGTGAATGAGTTCAACAAATT 59.356 34.615 0.00 0.00 45.38 1.82
4904 7031 6.604396 TCATTAATCAGGTTGCATCTGTGAAT 59.396 34.615 14.61 10.64 34.15 2.57
4969 7096 3.457234 CATACGACAGAGGCTTGCAATA 58.543 45.455 0.00 0.00 0.00 1.90
5010 7137 5.351465 CACACTGTCAATGGTATACCTGTTC 59.649 44.000 22.41 11.22 36.82 3.18
5038 7165 1.470098 GAGCTCCGACAACGTAGGTAA 59.530 52.381 0.87 0.00 36.44 2.85
5046 7173 1.079503 GAACATGGAGCTCCGACAAC 58.920 55.000 27.43 14.66 39.43 3.32
5047 7174 0.036388 GGAACATGGAGCTCCGACAA 60.036 55.000 27.43 10.80 39.43 3.18
5062 7189 6.407202 ACCAATATCATATAGCGAAGGGAAC 58.593 40.000 0.00 0.00 0.00 3.62
5071 7198 5.583854 CACCAGCAGACCAATATCATATAGC 59.416 44.000 0.00 0.00 0.00 2.97
5107 7234 2.818130 TGTCAGCCAAAGCATTTTCC 57.182 45.000 0.00 0.00 43.56 3.13
5109 7236 2.809696 GCAATGTCAGCCAAAGCATTTT 59.190 40.909 0.00 0.00 43.56 1.82
5136 7263 0.038744 AGGGACAGACAAGCCCAATG 59.961 55.000 0.00 0.00 44.55 2.82
5218 7345 0.181350 GGGCATCCGACTTCTCCAAT 59.819 55.000 0.00 0.00 0.00 3.16
5225 7352 0.618968 AGGAGAAGGGCATCCGACTT 60.619 55.000 0.00 0.00 40.73 3.01
5229 7356 2.317149 GACCAGGAGAAGGGCATCCG 62.317 65.000 0.00 0.00 40.73 4.18
5247 7374 2.589720 TCCCGCGGTGATCTTTATAGA 58.410 47.619 26.12 6.29 34.21 1.98
5262 7389 2.171635 CTGGCTAACAGTTTCCCGC 58.828 57.895 0.00 0.00 42.42 6.13
5284 7411 0.868406 GCAAGTGGAAACTCGGACAG 59.132 55.000 0.00 0.00 0.00 3.51
5344 7471 6.317140 ACTTCATCAAGCTATGTGTATTGTGG 59.683 38.462 0.00 0.00 32.09 4.17
5393 7520 6.318144 CAGATCAATCCAATTTCTAGCACAGT 59.682 38.462 0.00 0.00 0.00 3.55
5421 7548 6.657117 ACCACATTAATGCACAAGTATACACA 59.343 34.615 15.48 0.00 0.00 3.72
5471 7598 4.641645 TGGTCCGGGCACAAGCAG 62.642 66.667 9.07 0.00 44.61 4.24
5550 7677 3.493176 GCCACAGCCACTTTTCATTTTCT 60.493 43.478 0.00 0.00 0.00 2.52
5617 7744 8.713737 AATCAAGACTAGTAATAACCGGTTTC 57.286 34.615 27.64 14.16 0.00 2.78
5756 7883 8.994429 TTGAAAGTGACATTACAACATGTTTT 57.006 26.923 8.77 5.26 37.52 2.43
5958 8085 9.407380 ACATATGTATAAGCAAGGACATTGAAA 57.593 29.630 6.56 0.00 41.83 2.69
5959 8086 8.839343 CACATATGTATAAGCAAGGACATTGAA 58.161 33.333 8.32 0.00 41.83 2.69
6136 8263 2.622436 GATCCTCACGACTTTTCCCTG 58.378 52.381 0.00 0.00 0.00 4.45
6149 8276 0.784495 AGGTATAGCGGGGATCCTCA 59.216 55.000 13.38 0.00 0.00 3.86
6188 8315 3.428282 CCGGGTCGGGCTTTTTCG 61.428 66.667 0.00 0.00 44.15 3.46
6231 8358 2.642700 CAAAAACAGACGGGCCCG 59.357 61.111 42.17 42.17 46.03 6.13
6237 8364 3.879427 TGGTAAATCGCAAAAACAGACG 58.121 40.909 0.00 0.00 0.00 4.18
6241 8368 4.372656 CCCTTTGGTAAATCGCAAAAACA 58.627 39.130 0.00 0.00 0.00 2.83
6271 8421 1.663695 CCTGGCCCGTATGTGTAAAG 58.336 55.000 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.