Multiple sequence alignment - TraesCS6A01G194500

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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 TraesCS6A01G194500 chr6A 100.000 3677 0 0 1 3677 271635107 271638783 0.000000e+00 6791.0
1 TraesCS6A01G194500 chr6A 95.069 649 30 2 1 648 158879554 158878907 0.000000e+00 1020.0
2 TraesCS6A01G194500 chr6A 85.957 470 55 9 2918 3377 307678346 307678814 3.300000e-135 492.0
3 TraesCS6A01G194500 chr7D 93.061 2450 122 15 951 3377 176561331 176563755 0.000000e+00 3539.0
4 TraesCS6A01G194500 chr7D 95.378 649 29 1 1 648 476836625 476837273 0.000000e+00 1031.0
5 TraesCS6A01G194500 chr7D 95.349 645 29 1 4 648 367522488 367521845 0.000000e+00 1024.0
6 TraesCS6A01G194500 chr7D 89.299 271 21 7 646 916 176560959 176561221 2.120000e-87 333.0
7 TraesCS6A01G194500 chr7D 81.818 242 41 3 2470 2708 118444657 118444416 2.240000e-47 200.0
8 TraesCS6A01G194500 chr7B 91.369 2236 124 20 1180 3377 687565277 687563073 0.000000e+00 2996.0
9 TraesCS6A01G194500 chr7B 91.852 270 19 2 647 916 687565937 687565671 1.250000e-99 374.0
10 TraesCS6A01G194500 chr7B 90.493 284 23 3 1005 1286 687565497 687565216 4.480000e-99 372.0
11 TraesCS6A01G194500 chr4B 92.637 1820 120 10 1005 2814 241714485 241712670 0.000000e+00 2606.0
12 TraesCS6A01G194500 chr4B 84.699 549 69 9 2839 3377 49940308 49939765 5.400000e-148 534.0
13 TraesCS6A01G194500 chr4B 88.889 279 26 5 639 916 241714933 241714659 4.550000e-89 339.0
14 TraesCS6A01G194500 chr4B 100.000 28 0 0 951 978 241714549 241714522 7.000000e-03 52.8
15 TraesCS6A01G194500 chr3D 93.386 1648 96 10 1180 2823 501134625 501136263 0.000000e+00 2427.0
16 TraesCS6A01G194500 chr3D 85.246 549 67 9 2839 3377 206157095 206156551 1.490000e-153 553.0
17 TraesCS6A01G194500 chr3D 91.197 284 21 3 1005 1286 501134405 501134686 2.070000e-102 383.0
18 TraesCS6A01G194500 chr3D 90.647 278 20 6 640 916 501133960 501134232 7.500000e-97 364.0
19 TraesCS6A01G194500 chr3D 82.323 198 26 8 2633 2826 206157357 206157165 2.940000e-36 163.0
20 TraesCS6A01G194500 chr3D 78.977 176 28 7 1053 1224 206158417 206158247 1.080000e-20 111.0
21 TraesCS6A01G194500 chr2B 91.048 1642 107 18 1180 2814 711198932 711200540 0.000000e+00 2182.0
22 TraesCS6A01G194500 chr2B 89.299 271 25 3 1005 1273 711198667 711198935 1.640000e-88 337.0
23 TraesCS6A01G194500 chr2B 91.064 235 19 2 647 881 711198107 711198339 2.130000e-82 316.0
24 TraesCS6A01G194500 chr2B 90.909 55 5 0 670 724 711198183 711198237 1.420000e-09 75.0
25 TraesCS6A01G194500 chr2B 100.000 28 0 0 951 978 711198600 711198627 7.000000e-03 52.8
26 TraesCS6A01G194500 chr6B 91.195 1272 75 19 2140 3377 88826932 88828200 0.000000e+00 1694.0
27 TraesCS6A01G194500 chr6B 92.842 922 58 4 1180 2100 88826020 88826934 0.000000e+00 1330.0
28 TraesCS6A01G194500 chr6B 87.000 700 81 5 1247 1941 441860325 441861019 0.000000e+00 780.0
29 TraesCS6A01G194500 chr6B 85.563 755 98 8 1193 1941 442977160 442977909 0.000000e+00 780.0
30 TraesCS6A01G194500 chr6B 85.622 466 57 7 2916 3372 637410892 637410428 7.140000e-132 481.0
31 TraesCS6A01G194500 chr6B 91.197 284 21 3 1005 1286 88825800 88826081 2.070000e-102 383.0
32 TraesCS6A01G194500 chr6B 90.706 269 23 2 648 916 88825360 88825626 1.260000e-94 357.0
33 TraesCS6A01G194500 chr6B 87.547 265 33 0 1005 1269 441860041 441860305 1.280000e-79 307.0
34 TraesCS6A01G194500 chr6B 86.415 265 34 2 1006 1269 442976929 442977192 4.650000e-74 289.0
35 TraesCS6A01G194500 chr3B 91.845 1165 59 11 1005 2166 511054939 511056070 0.000000e+00 1592.0
36 TraesCS6A01G194500 chr3B 89.963 269 24 3 648 916 511052318 511052583 9.780000e-91 344.0
37 TraesCS6A01G194500 chr3B 92.727 55 3 1 670 724 511052393 511052446 1.090000e-10 78.7
38 TraesCS6A01G194500 chr6D 95.216 648 31 0 1 648 275400697 275401344 0.000000e+00 1026.0
39 TraesCS6A01G194500 chr6D 84.615 221 32 1 2490 2708 432970870 432971090 6.180000e-53 219.0
40 TraesCS6A01G194500 chr2D 95.223 649 29 2 1 648 174257132 174257779 0.000000e+00 1026.0
41 TraesCS6A01G194500 chr2D 95.069 649 31 1 1 648 340401119 340401767 0.000000e+00 1020.0
42 TraesCS6A01G194500 chr2D 85.818 550 55 15 2839 3377 69248744 69248207 2.480000e-156 562.0
43 TraesCS6A01G194500 chr2D 85.064 549 59 14 2839 3377 584834745 584834210 4.180000e-149 538.0
44 TraesCS6A01G194500 chr4A 95.342 644 28 2 6 648 458180653 458180011 0.000000e+00 1022.0
45 TraesCS6A01G194500 chr4A 90.759 303 23 5 3377 3675 438253846 438254147 2.060000e-107 399.0
46 TraesCS6A01G194500 chr4A 92.086 278 20 2 3377 3653 438265457 438265733 1.240000e-104 390.0
47 TraesCS6A01G194500 chr4A 88.095 126 14 1 2633 2758 702571042 702571166 8.230000e-32 148.0
48 TraesCS6A01G194500 chr4D 94.915 649 32 1 1 648 109405841 109405193 0.000000e+00 1014.0
49 TraesCS6A01G194500 chr1D 95.179 643 30 1 7 648 340127108 340126466 0.000000e+00 1014.0
50 TraesCS6A01G194500 chr5D 88.506 609 60 5 1346 1944 100932375 100931767 0.000000e+00 728.0
51 TraesCS6A01G194500 chr5D 93.043 230 14 2 1980 2209 100546952 100547179 5.880000e-88 335.0
52 TraesCS6A01G194500 chr5D 88.936 235 23 3 2219 2451 100547448 100547681 1.670000e-73 287.0
53 TraesCS6A01G194500 chr5A 81.877 767 83 33 2633 3377 333448700 333447968 2.440000e-166 595.0
54 TraesCS6A01G194500 chr5A 90.545 275 23 3 3375 3648 180658995 180659267 9.710000e-96 361.0
55 TraesCS6A01G194500 chr5A 88.889 234 23 3 2222 2453 99593948 99593716 6.010000e-73 285.0
56 TraesCS6A01G194500 chr5A 83.471 242 37 3 2470 2708 567114315 567114556 4.780000e-54 222.0
57 TraesCS6A01G194500 chrUn 81.593 766 85 33 2633 3376 27088604 27089335 1.900000e-162 582.0
58 TraesCS6A01G194500 chr1B 84.909 550 67 9 2839 3377 163736119 163735575 3.230000e-150 542.0
59 TraesCS6A01G194500 chr1A 86.580 462 50 10 2918 3369 219375859 219375400 1.970000e-137 499.0
60 TraesCS6A01G194500 chr1A 96.575 292 9 1 3377 3668 155925619 155925909 1.990000e-132 483.0
61 TraesCS6A01G194500 chr1A 96.233 292 11 0 3377 3668 155915989 155916280 2.570000e-131 479.0
62 TraesCS6A01G194500 chr1A 88.449 303 25 9 3378 3673 539088070 539088369 1.260000e-94 357.0
63 TraesCS6A01G194500 chr2A 86.393 463 50 11 2918 3369 583250860 583251320 9.170000e-136 494.0
64 TraesCS6A01G194500 chr2A 89.180 305 22 8 3377 3675 212242042 212241743 1.610000e-98 370.0
65 TraesCS6A01G194500 chr2A 88.562 306 28 7 3377 3677 212250044 212249741 7.500000e-97 364.0
66 TraesCS6A01G194500 chr3A 85.961 463 52 10 2918 3369 725702791 725703251 1.990000e-132 483.0
67 TraesCS6A01G194500 chr3A 89.680 281 25 4 3377 3655 121343195 121342917 4.520000e-94 355.0
68 TraesCS6A01G194500 chr5B 93.886 229 13 1 1981 2209 109220073 109219846 9.780000e-91 344.0
69 TraesCS6A01G194500 chr5B 88.936 235 23 3 2219 2451 108981833 108982066 1.670000e-73 287.0
70 TraesCS6A01G194500 chr7A 82.500 160 14 12 2664 2811 612422080 612422237 1.070000e-25 128.0


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 TraesCS6A01G194500 chr6A 271635107 271638783 3676 False 6791.000000 6791 100.000000 1 3677 1 chr6A.!!$F1 3676
1 TraesCS6A01G194500 chr6A 158878907 158879554 647 True 1020.000000 1020 95.069000 1 648 1 chr6A.!!$R1 647
2 TraesCS6A01G194500 chr7D 176560959 176563755 2796 False 1936.000000 3539 91.180000 646 3377 2 chr7D.!!$F2 2731
3 TraesCS6A01G194500 chr7D 476836625 476837273 648 False 1031.000000 1031 95.378000 1 648 1 chr7D.!!$F1 647
4 TraesCS6A01G194500 chr7D 367521845 367522488 643 True 1024.000000 1024 95.349000 4 648 1 chr7D.!!$R2 644
5 TraesCS6A01G194500 chr7B 687563073 687565937 2864 True 1247.333333 2996 91.238000 647 3377 3 chr7B.!!$R1 2730
6 TraesCS6A01G194500 chr4B 241712670 241714933 2263 True 999.266667 2606 93.842000 639 2814 3 chr4B.!!$R2 2175
7 TraesCS6A01G194500 chr4B 49939765 49940308 543 True 534.000000 534 84.699000 2839 3377 1 chr4B.!!$R1 538
8 TraesCS6A01G194500 chr3D 501133960 501136263 2303 False 1058.000000 2427 91.743333 640 2823 3 chr3D.!!$F1 2183
9 TraesCS6A01G194500 chr3D 206156551 206158417 1866 True 275.666667 553 82.182000 1053 3377 3 chr3D.!!$R1 2324
10 TraesCS6A01G194500 chr2B 711198107 711200540 2433 False 592.560000 2182 92.464000 647 2814 5 chr2B.!!$F1 2167
11 TraesCS6A01G194500 chr6B 88825360 88828200 2840 False 941.000000 1694 91.485000 648 3377 4 chr6B.!!$F1 2729
12 TraesCS6A01G194500 chr6B 441860041 441861019 978 False 543.500000 780 87.273500 1005 1941 2 chr6B.!!$F2 936
13 TraesCS6A01G194500 chr6B 442976929 442977909 980 False 534.500000 780 85.989000 1006 1941 2 chr6B.!!$F3 935
14 TraesCS6A01G194500 chr3B 511052318 511056070 3752 False 671.566667 1592 91.511667 648 2166 3 chr3B.!!$F1 1518
15 TraesCS6A01G194500 chr6D 275400697 275401344 647 False 1026.000000 1026 95.216000 1 648 1 chr6D.!!$F1 647
16 TraesCS6A01G194500 chr2D 174257132 174257779 647 False 1026.000000 1026 95.223000 1 648 1 chr2D.!!$F1 647
17 TraesCS6A01G194500 chr2D 340401119 340401767 648 False 1020.000000 1020 95.069000 1 648 1 chr2D.!!$F2 647
18 TraesCS6A01G194500 chr2D 69248207 69248744 537 True 562.000000 562 85.818000 2839 3377 1 chr2D.!!$R1 538
19 TraesCS6A01G194500 chr2D 584834210 584834745 535 True 538.000000 538 85.064000 2839 3377 1 chr2D.!!$R2 538
20 TraesCS6A01G194500 chr4A 458180011 458180653 642 True 1022.000000 1022 95.342000 6 648 1 chr4A.!!$R1 642
21 TraesCS6A01G194500 chr4D 109405193 109405841 648 True 1014.000000 1014 94.915000 1 648 1 chr4D.!!$R1 647
22 TraesCS6A01G194500 chr1D 340126466 340127108 642 True 1014.000000 1014 95.179000 7 648 1 chr1D.!!$R1 641
23 TraesCS6A01G194500 chr5D 100931767 100932375 608 True 728.000000 728 88.506000 1346 1944 1 chr5D.!!$R1 598
24 TraesCS6A01G194500 chr5D 100546952 100547681 729 False 311.000000 335 90.989500 1980 2451 2 chr5D.!!$F1 471
25 TraesCS6A01G194500 chr5A 333447968 333448700 732 True 595.000000 595 81.877000 2633 3377 1 chr5A.!!$R2 744
26 TraesCS6A01G194500 chrUn 27088604 27089335 731 False 582.000000 582 81.593000 2633 3376 1 chrUn.!!$F1 743
27 TraesCS6A01G194500 chr1B 163735575 163736119 544 True 542.000000 542 84.909000 2839 3377 1 chr1B.!!$R1 538

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
688 691 0.247185 ATGGCGCAAGAACCCAATTG 59.753 50.0 10.83 0.00 43.02 2.32 F
1160 3556 0.036952 ATCTTCACGGTGGCTCACAG 60.037 55.0 8.50 5.94 35.86 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1653 4282 0.107410 TGTGTGTGGACCACCTGAAC 60.107 55.000 22.0 13.38 43.85 3.18 R
3034 6644 1.900498 GGCTTCAGGTTGCTGCTGT 60.900 57.895 0.0 0.00 0.00 4.40 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
50 51 4.974501 AGAAATCAATCTAGGCCCTCTCTT 59.025 41.667 0.00 0.00 0.00 2.85
55 56 0.252239 TCTAGGCCCTCTCTTGCACA 60.252 55.000 0.00 0.00 0.00 4.57
221 224 2.283173 TGCTCTCTCTCGGTGGCA 60.283 61.111 0.00 0.00 0.00 4.92
308 311 7.384524 TCATCACCATCCTCATCTCTTTTAT 57.615 36.000 0.00 0.00 0.00 1.40
322 325 4.774726 TCTCTTTTATGCAGTCCACTCTCT 59.225 41.667 0.00 0.00 0.00 3.10
379 382 6.963242 GTGCTTTATGCCACATATTATGATCG 59.037 38.462 10.62 0.00 42.00 3.69
482 485 8.018520 CGAGTTGTATGTTTTATTTTGGTGCTA 58.981 33.333 0.00 0.00 0.00 3.49
524 527 2.859273 CGCAAGCGTGAGGGATTCCT 62.859 60.000 2.99 0.00 39.40 3.36
546 549 2.420022 GCTGTAGGGTGTTGCAATACAG 59.580 50.000 25.09 24.28 43.90 2.74
600 603 6.070538 AGTGACAGAAGCATAAACCTGAGTAT 60.071 38.462 0.00 0.00 0.00 2.12
665 668 2.032620 CTACTAGATGACCCGGTTGCT 58.967 52.381 0.00 0.00 0.00 3.91
685 688 1.664873 CAATGGCGCAAGAACCCAA 59.335 52.632 10.83 0.00 43.02 4.12
688 691 0.247185 ATGGCGCAAGAACCCAATTG 59.753 50.000 10.83 0.00 43.02 2.32
728 731 8.452138 AGGGAGTAAGTAGATGTAGATAGCTA 57.548 38.462 0.00 0.00 0.00 3.32
758 761 8.375493 ACCCAGTTAGAAATGATGTTAGTAGA 57.625 34.615 0.00 0.00 0.00 2.59
843 847 5.764131 TGGAAACAATACAATGTTCGGAAC 58.236 37.500 13.86 13.86 42.49 3.62
846 850 3.816523 AACAATACAATGTTCGGAACGGT 59.183 39.130 15.52 14.79 42.78 4.83
934 1093 9.515226 AGTATCAACCAGACAGCTTATTTAAAA 57.485 29.630 0.00 0.00 0.00 1.52
1048 3442 1.079543 AGCGCTGACCACATGTCTC 60.080 57.895 10.39 0.00 44.75 3.36
1104 3498 3.449377 TCAAGGTATGCGTCATGTTCCTA 59.551 43.478 0.00 0.00 0.00 2.94
1160 3556 0.036952 ATCTTCACGGTGGCTCACAG 60.037 55.000 8.50 5.94 35.86 3.66
1226 3803 0.179065 CGGCTCCATCTGCATCTCAA 60.179 55.000 0.00 0.00 0.00 3.02
1269 3887 2.191641 GCCTCCACCTGCATCTCC 59.808 66.667 0.00 0.00 0.00 3.71
1270 3888 2.673200 GCCTCCACCTGCATCTCCA 61.673 63.158 0.00 0.00 0.00 3.86
1297 3915 1.900498 GCAACTCCCACTGCAGCTT 60.900 57.895 15.27 0.00 38.48 3.74
1303 3921 3.060615 CCACTGCAGCTTGGAGCC 61.061 66.667 16.55 0.00 43.77 4.70
1404 4027 1.959042 CTGCTTGGAGTGACTGTTGT 58.041 50.000 0.00 0.00 0.00 3.32
1424 4047 5.183530 TGTCCTTTCAACAGGATGATCAT 57.816 39.130 8.25 8.25 45.14 2.45
1425 4048 5.573219 TGTCCTTTCAACAGGATGATCATT 58.427 37.500 10.14 0.00 45.14 2.57
1653 4282 5.411361 TCTGTAATGGTCCTTGTTCGATTTG 59.589 40.000 0.00 0.00 0.00 2.32
1660 4295 3.564225 GTCCTTGTTCGATTTGTTCAGGT 59.436 43.478 0.00 0.00 0.00 4.00
1667 4302 1.535462 CGATTTGTTCAGGTGGTCCAC 59.465 52.381 14.13 14.13 35.89 4.02
1682 4317 4.151121 TGGTCCACACACAATCAAATCAT 58.849 39.130 0.00 0.00 0.00 2.45
1719 4355 8.200120 AGATGACTCGATCAAATCATACTTCAA 58.800 33.333 3.29 0.00 41.93 2.69
1786 4422 1.978617 ACCATCCGGCAGGCTTTTG 60.979 57.895 11.44 0.00 37.47 2.44
1796 4435 1.802508 GCAGGCTTTTGTCGTTGCTTT 60.803 47.619 0.00 0.00 0.00 3.51
1814 4453 3.613193 GCTTTTGCTGCACTCATCATCAA 60.613 43.478 0.00 0.00 43.35 2.57
1845 4484 2.353323 GACATTGCTCTCACTGCATGA 58.647 47.619 0.00 0.00 40.34 3.07
1909 4548 2.684001 TATTGGCGGTAAGTGGTGAG 57.316 50.000 0.00 0.00 0.00 3.51
1968 4607 4.653801 TCTCATCCATAGGTCCGAATTCAA 59.346 41.667 6.22 0.00 0.00 2.69
1978 4617 4.589374 AGGTCCGAATTCAATACTCCTAGG 59.411 45.833 0.82 0.82 0.00 3.02
2146 4785 4.021456 TGAAGCTATACCATCATGTACCGG 60.021 45.833 0.00 0.00 0.00 5.28
2199 4838 3.003480 GTGTAGTCATGCTTCTCCCAAC 58.997 50.000 0.00 0.00 0.00 3.77
2341 5239 4.946772 TCATCGCATGGTTCTTTTCCATTA 59.053 37.500 0.00 0.00 42.92 1.90
2352 5250 7.180051 TGGTTCTTTTCCATTATAGCATGGTTT 59.820 33.333 1.12 0.00 43.94 3.27
2360 5258 8.918202 TCCATTATAGCATGGTTTACTAAAGG 57.082 34.615 1.12 3.89 43.94 3.11
2361 5259 8.719596 TCCATTATAGCATGGTTTACTAAAGGA 58.280 33.333 1.12 6.02 43.94 3.36
2484 5387 3.024547 TCTAGTGTAGGTGGCATCTGTC 58.975 50.000 11.36 4.17 0.00 3.51
2557 5460 1.525995 CAACAAGACCGTGGTGGCT 60.526 57.895 0.00 0.00 43.94 4.75
2729 6246 1.923148 ACTAATTAGTGGCTGGGGCTT 59.077 47.619 17.35 0.00 38.73 4.35
2730 6247 2.301346 CTAATTAGTGGCTGGGGCTTG 58.699 52.381 4.18 0.00 38.73 4.01
2740 6257 2.659428 GCTGGGGCTTGTCTAATCATT 58.341 47.619 0.00 0.00 35.22 2.57
2743 6260 3.620488 TGGGGCTTGTCTAATCATTGAC 58.380 45.455 0.00 0.00 0.00 3.18
2889 6489 6.798476 GGAATTGTTGATATGCATATGTGTCG 59.202 38.462 23.76 0.00 0.00 4.35
3122 6735 6.872020 CCTAATAACTTTGAAAGTCGGAGTCA 59.128 38.462 11.44 0.00 41.91 3.41
3158 6773 5.080337 TCACAGTCAATAGTCAGAAGAGGT 58.920 41.667 0.00 0.00 0.00 3.85
3272 6887 2.363306 AATGGCACTCACCTGAACAA 57.637 45.000 0.00 0.00 0.00 2.83
3273 6888 1.609208 ATGGCACTCACCTGAACAAC 58.391 50.000 0.00 0.00 0.00 3.32
3274 6889 0.813610 TGGCACTCACCTGAACAACG 60.814 55.000 0.00 0.00 0.00 4.10
3385 7000 9.524106 AAAATAAAATAAGCCTATTGTAACGCC 57.476 29.630 0.00 0.00 0.00 5.68
3386 7001 5.509716 AAAATAAGCCTATTGTAACGCCC 57.490 39.130 0.00 0.00 0.00 6.13
3387 7002 2.228138 TAAGCCTATTGTAACGCCCG 57.772 50.000 0.00 0.00 0.00 6.13
3388 7003 0.463116 AAGCCTATTGTAACGCCCGG 60.463 55.000 0.00 0.00 0.00 5.73
3389 7004 1.890510 GCCTATTGTAACGCCCGGG 60.891 63.158 19.09 19.09 0.00 5.73
3390 7005 1.523524 CCTATTGTAACGCCCGGGT 59.476 57.895 24.63 4.48 0.00 5.28
3391 7006 0.752054 CCTATTGTAACGCCCGGGTA 59.248 55.000 24.63 3.24 0.00 3.69
3392 7007 1.138661 CCTATTGTAACGCCCGGGTAA 59.861 52.381 24.63 8.51 0.00 2.85
3393 7008 2.224354 CCTATTGTAACGCCCGGGTAAT 60.224 50.000 24.63 14.78 0.00 1.89
3394 7009 1.957668 ATTGTAACGCCCGGGTAATC 58.042 50.000 24.63 9.95 0.00 1.75
3395 7010 0.612229 TTGTAACGCCCGGGTAATCA 59.388 50.000 24.63 12.53 0.00 2.57
3396 7011 0.612229 TGTAACGCCCGGGTAATCAA 59.388 50.000 24.63 1.06 0.00 2.57
3397 7012 1.292992 GTAACGCCCGGGTAATCAAG 58.707 55.000 24.63 7.55 0.00 3.02
3398 7013 0.462403 TAACGCCCGGGTAATCAAGC 60.462 55.000 24.63 3.29 0.00 4.01
3399 7014 2.189521 CGCCCGGGTAATCAAGCT 59.810 61.111 24.63 0.00 0.00 3.74
3400 7015 1.332144 ACGCCCGGGTAATCAAGCTA 61.332 55.000 24.63 0.00 0.00 3.32
3401 7016 0.878961 CGCCCGGGTAATCAAGCTAC 60.879 60.000 24.63 0.00 0.00 3.58
3402 7017 0.179468 GCCCGGGTAATCAAGCTACA 59.821 55.000 24.63 0.00 0.00 2.74
3403 7018 1.810412 GCCCGGGTAATCAAGCTACAG 60.810 57.143 24.63 0.00 0.00 2.74
3404 7019 1.485066 CCCGGGTAATCAAGCTACAGT 59.515 52.381 14.18 0.00 0.00 3.55
3405 7020 2.696707 CCCGGGTAATCAAGCTACAGTA 59.303 50.000 14.18 0.00 0.00 2.74
3406 7021 3.133362 CCCGGGTAATCAAGCTACAGTAA 59.867 47.826 14.18 0.00 0.00 2.24
3407 7022 4.202326 CCCGGGTAATCAAGCTACAGTAAT 60.202 45.833 14.18 0.00 0.00 1.89
3408 7023 5.365619 CCGGGTAATCAAGCTACAGTAATT 58.634 41.667 0.00 0.00 0.00 1.40
3409 7024 5.465724 CCGGGTAATCAAGCTACAGTAATTC 59.534 44.000 0.00 0.00 0.00 2.17
3410 7025 5.465724 CGGGTAATCAAGCTACAGTAATTCC 59.534 44.000 0.00 0.00 0.00 3.01
3411 7026 6.354130 GGGTAATCAAGCTACAGTAATTCCA 58.646 40.000 0.00 0.00 0.00 3.53
3412 7027 6.998673 GGGTAATCAAGCTACAGTAATTCCAT 59.001 38.462 0.00 0.00 0.00 3.41
3413 7028 7.041098 GGGTAATCAAGCTACAGTAATTCCATG 60.041 40.741 0.00 0.00 0.00 3.66
3414 7029 6.382869 AATCAAGCTACAGTAATTCCATGC 57.617 37.500 0.00 0.00 0.00 4.06
3415 7030 5.102953 TCAAGCTACAGTAATTCCATGCT 57.897 39.130 0.00 0.00 0.00 3.79
3416 7031 6.233905 TCAAGCTACAGTAATTCCATGCTA 57.766 37.500 0.00 0.00 0.00 3.49
3417 7032 6.649155 TCAAGCTACAGTAATTCCATGCTAA 58.351 36.000 0.00 0.00 0.00 3.09
3418 7033 7.282585 TCAAGCTACAGTAATTCCATGCTAAT 58.717 34.615 0.00 0.00 0.00 1.73
3419 7034 7.227314 TCAAGCTACAGTAATTCCATGCTAATG 59.773 37.037 0.00 0.00 0.00 1.90
3420 7035 6.595682 AGCTACAGTAATTCCATGCTAATGT 58.404 36.000 0.00 0.00 31.27 2.71
3421 7036 7.056635 AGCTACAGTAATTCCATGCTAATGTT 58.943 34.615 0.00 0.00 31.27 2.71
3422 7037 7.012704 AGCTACAGTAATTCCATGCTAATGTTG 59.987 37.037 0.00 0.00 31.27 3.33
3423 7038 5.894807 ACAGTAATTCCATGCTAATGTTGC 58.105 37.500 0.00 0.00 31.27 4.17
3424 7039 5.163519 ACAGTAATTCCATGCTAATGTTGCC 60.164 40.000 0.00 0.00 31.27 4.52
3425 7040 4.955450 AGTAATTCCATGCTAATGTTGCCA 59.045 37.500 0.00 0.00 31.27 4.92
3426 7041 3.806625 ATTCCATGCTAATGTTGCCAC 57.193 42.857 0.00 0.00 31.27 5.01
3427 7042 1.093972 TCCATGCTAATGTTGCCACG 58.906 50.000 0.00 0.00 31.27 4.94
3428 7043 0.810648 CCATGCTAATGTTGCCACGT 59.189 50.000 0.00 0.00 31.27 4.49
3429 7044 1.202177 CCATGCTAATGTTGCCACGTC 60.202 52.381 0.00 0.00 31.27 4.34
3430 7045 1.468127 CATGCTAATGTTGCCACGTCA 59.532 47.619 0.00 0.00 0.00 4.35
3431 7046 0.871722 TGCTAATGTTGCCACGTCAC 59.128 50.000 0.00 0.00 0.00 3.67
3432 7047 0.168128 GCTAATGTTGCCACGTCACC 59.832 55.000 0.00 0.00 0.00 4.02
3433 7048 1.518325 CTAATGTTGCCACGTCACCA 58.482 50.000 0.00 0.00 0.00 4.17
3434 7049 1.196808 CTAATGTTGCCACGTCACCAC 59.803 52.381 0.00 0.00 0.00 4.16
3444 7059 3.277652 CGTCACCACGGTTACTGTT 57.722 52.632 0.00 0.00 42.73 3.16
3445 7060 0.856641 CGTCACCACGGTTACTGTTG 59.143 55.000 0.00 0.00 42.73 3.33
3446 7061 0.584876 GTCACCACGGTTACTGTTGC 59.415 55.000 0.00 0.00 0.00 4.17
3447 7062 0.466543 TCACCACGGTTACTGTTGCT 59.533 50.000 0.00 0.00 0.00 3.91
3448 7063 1.687660 TCACCACGGTTACTGTTGCTA 59.312 47.619 0.00 0.00 0.00 3.49
3449 7064 2.102757 TCACCACGGTTACTGTTGCTAA 59.897 45.455 0.00 0.00 0.00 3.09
3450 7065 3.071479 CACCACGGTTACTGTTGCTAAT 58.929 45.455 0.00 0.00 0.00 1.73
3451 7066 3.124636 CACCACGGTTACTGTTGCTAATC 59.875 47.826 0.00 0.00 0.00 1.75
3452 7067 3.007614 ACCACGGTTACTGTTGCTAATCT 59.992 43.478 0.00 0.00 0.00 2.40
3453 7068 4.221262 ACCACGGTTACTGTTGCTAATCTA 59.779 41.667 0.00 0.00 0.00 1.98
3454 7069 4.565564 CCACGGTTACTGTTGCTAATCTAC 59.434 45.833 0.00 0.00 0.00 2.59
3455 7070 4.565564 CACGGTTACTGTTGCTAATCTACC 59.434 45.833 0.00 0.00 0.00 3.18
3456 7071 3.795101 CGGTTACTGTTGCTAATCTACCG 59.205 47.826 0.00 0.00 39.80 4.02
3457 7072 4.676196 CGGTTACTGTTGCTAATCTACCGT 60.676 45.833 0.00 0.00 40.63 4.83
3458 7073 5.173664 GGTTACTGTTGCTAATCTACCGTT 58.826 41.667 0.00 0.00 0.00 4.44
3459 7074 6.332630 GGTTACTGTTGCTAATCTACCGTTA 58.667 40.000 0.00 0.00 0.00 3.18
3460 7075 6.474751 GGTTACTGTTGCTAATCTACCGTTAG 59.525 42.308 0.00 0.00 33.36 2.34
3461 7076 5.656213 ACTGTTGCTAATCTACCGTTAGT 57.344 39.130 0.00 0.00 32.90 2.24
3462 7077 6.034161 ACTGTTGCTAATCTACCGTTAGTT 57.966 37.500 0.00 0.00 32.90 2.24
3463 7078 6.098017 ACTGTTGCTAATCTACCGTTAGTTC 58.902 40.000 0.00 0.00 32.90 3.01
3464 7079 5.097529 TGTTGCTAATCTACCGTTAGTTCG 58.902 41.667 0.00 0.00 32.90 3.95
3465 7080 5.106197 TGTTGCTAATCTACCGTTAGTTCGA 60.106 40.000 0.00 0.00 32.90 3.71
3466 7081 5.565592 TGCTAATCTACCGTTAGTTCGAA 57.434 39.130 0.00 0.00 32.90 3.71
3467 7082 5.953183 TGCTAATCTACCGTTAGTTCGAAA 58.047 37.500 0.00 0.00 32.90 3.46
3468 7083 6.389091 TGCTAATCTACCGTTAGTTCGAAAA 58.611 36.000 0.00 0.00 32.90 2.29
3469 7084 6.308766 TGCTAATCTACCGTTAGTTCGAAAAC 59.691 38.462 0.00 0.43 32.90 2.43
3470 7085 5.752098 AATCTACCGTTAGTTCGAAAACG 57.248 39.130 22.18 22.18 46.05 3.60
3479 7094 6.692691 GTTAGTTCGAAAACGAGTCAAAAC 57.307 37.500 0.00 0.00 40.48 2.43
3480 7095 4.268767 AGTTCGAAAACGAGTCAAAACC 57.731 40.909 0.00 0.00 40.48 3.27
3481 7096 3.024313 GTTCGAAAACGAGTCAAAACCG 58.976 45.455 0.00 0.00 0.00 4.44
3482 7097 2.538437 TCGAAAACGAGTCAAAACCGA 58.462 42.857 0.00 0.00 0.00 4.69
3483 7098 2.536803 TCGAAAACGAGTCAAAACCGAG 59.463 45.455 0.00 0.00 0.00 4.63
3484 7099 2.283351 CGAAAACGAGTCAAAACCGAGT 59.717 45.455 0.00 0.00 0.00 4.18
3485 7100 3.600909 CGAAAACGAGTCAAAACCGAGTC 60.601 47.826 0.00 0.00 32.86 3.36
3486 7101 2.589798 AACGAGTCAAAACCGAGTCA 57.410 45.000 0.00 0.00 35.44 3.41
3487 7102 2.589798 ACGAGTCAAAACCGAGTCAA 57.410 45.000 0.00 0.00 35.44 3.18
3488 7103 2.896168 ACGAGTCAAAACCGAGTCAAA 58.104 42.857 0.00 0.00 35.44 2.69
3489 7104 3.463944 ACGAGTCAAAACCGAGTCAAAT 58.536 40.909 0.00 0.00 35.44 2.32
3490 7105 3.875134 ACGAGTCAAAACCGAGTCAAATT 59.125 39.130 0.00 0.00 35.44 1.82
3491 7106 4.025145 ACGAGTCAAAACCGAGTCAAATTC 60.025 41.667 0.00 0.00 35.44 2.17
3492 7107 4.025229 CGAGTCAAAACCGAGTCAAATTCA 60.025 41.667 0.00 0.00 35.44 2.57
3493 7108 5.503357 CGAGTCAAAACCGAGTCAAATTCAA 60.503 40.000 0.00 0.00 35.44 2.69
3494 7109 6.202516 AGTCAAAACCGAGTCAAATTCAAA 57.797 33.333 0.00 0.00 0.00 2.69
3495 7110 6.033966 AGTCAAAACCGAGTCAAATTCAAAC 58.966 36.000 0.00 0.00 0.00 2.93
3496 7111 6.033966 GTCAAAACCGAGTCAAATTCAAACT 58.966 36.000 0.00 0.00 0.00 2.66
3497 7112 6.196538 GTCAAAACCGAGTCAAATTCAAACTC 59.803 38.462 5.26 5.26 36.82 3.01
3498 7113 5.828299 AAACCGAGTCAAATTCAAACTCA 57.172 34.783 12.57 0.00 39.49 3.41
3499 7114 5.828299 AACCGAGTCAAATTCAAACTCAA 57.172 34.783 12.57 0.00 39.49 3.02
3500 7115 5.828299 ACCGAGTCAAATTCAAACTCAAA 57.172 34.783 12.57 0.00 39.49 2.69
3501 7116 6.391227 ACCGAGTCAAATTCAAACTCAAAT 57.609 33.333 12.57 0.00 39.49 2.32
3502 7117 6.805713 ACCGAGTCAAATTCAAACTCAAATT 58.194 32.000 12.57 0.00 39.49 1.82
3503 7118 7.936584 ACCGAGTCAAATTCAAACTCAAATTA 58.063 30.769 12.57 0.00 39.49 1.40
3504 7119 8.410141 ACCGAGTCAAATTCAAACTCAAATTAA 58.590 29.630 12.57 0.00 39.49 1.40
3505 7120 9.410556 CCGAGTCAAATTCAAACTCAAATTAAT 57.589 29.630 12.57 0.00 39.49 1.40
3548 7163 8.401046 TCAAAAGTTGAAACTAAAATGTTCGG 57.599 30.769 0.00 0.00 38.57 4.30
3549 7164 7.489757 TCAAAAGTTGAAACTAAAATGTTCGGG 59.510 33.333 0.00 0.00 38.57 5.14
3550 7165 5.447624 AGTTGAAACTAAAATGTTCGGGG 57.552 39.130 0.00 0.00 37.52 5.73
3551 7166 4.891168 AGTTGAAACTAAAATGTTCGGGGT 59.109 37.500 0.00 0.00 37.52 4.95
3552 7167 4.839668 TGAAACTAAAATGTTCGGGGTG 57.160 40.909 0.00 0.00 0.00 4.61
3553 7168 4.208746 TGAAACTAAAATGTTCGGGGTGT 58.791 39.130 0.00 0.00 0.00 4.16
3554 7169 4.036971 TGAAACTAAAATGTTCGGGGTGTG 59.963 41.667 0.00 0.00 0.00 3.82
3555 7170 1.883926 ACTAAAATGTTCGGGGTGTGC 59.116 47.619 0.00 0.00 0.00 4.57
3556 7171 1.883275 CTAAAATGTTCGGGGTGTGCA 59.117 47.619 0.00 0.00 0.00 4.57
3557 7172 0.673437 AAAATGTTCGGGGTGTGCAG 59.327 50.000 0.00 0.00 0.00 4.41
3558 7173 0.467290 AAATGTTCGGGGTGTGCAGT 60.467 50.000 0.00 0.00 0.00 4.40
3559 7174 0.467290 AATGTTCGGGGTGTGCAGTT 60.467 50.000 0.00 0.00 0.00 3.16
3560 7175 0.398696 ATGTTCGGGGTGTGCAGTTA 59.601 50.000 0.00 0.00 0.00 2.24
3561 7176 0.180642 TGTTCGGGGTGTGCAGTTAA 59.819 50.000 0.00 0.00 0.00 2.01
3562 7177 1.310904 GTTCGGGGTGTGCAGTTAAA 58.689 50.000 0.00 0.00 0.00 1.52
3563 7178 1.883926 GTTCGGGGTGTGCAGTTAAAT 59.116 47.619 0.00 0.00 0.00 1.40
3564 7179 1.529226 TCGGGGTGTGCAGTTAAATG 58.471 50.000 0.00 0.00 0.00 2.32
3565 7180 0.109319 CGGGGTGTGCAGTTAAATGC 60.109 55.000 20.45 20.45 46.68 3.56
3566 7181 0.246360 GGGGTGTGCAGTTAAATGCC 59.754 55.000 23.74 15.56 45.91 4.40
3567 7182 0.246360 GGGTGTGCAGTTAAATGCCC 59.754 55.000 23.74 17.28 45.91 5.36
3568 7183 0.109319 GGTGTGCAGTTAAATGCCCG 60.109 55.000 23.74 0.00 45.91 6.13
3569 7184 0.109319 GTGTGCAGTTAAATGCCCGG 60.109 55.000 23.74 0.00 45.91 5.73
3570 7185 1.247419 TGTGCAGTTAAATGCCCGGG 61.247 55.000 23.74 19.09 45.91 5.73
3571 7186 1.075836 TGCAGTTAAATGCCCGGGT 59.924 52.632 24.63 4.02 45.91 5.28
3572 7187 0.328592 TGCAGTTAAATGCCCGGGTA 59.671 50.000 24.63 20.49 45.91 3.69
3573 7188 1.271982 TGCAGTTAAATGCCCGGGTAA 60.272 47.619 24.63 11.92 45.91 2.85
3574 7189 2.028876 GCAGTTAAATGCCCGGGTAAT 58.971 47.619 24.63 13.95 40.43 1.89
3575 7190 2.429250 GCAGTTAAATGCCCGGGTAATT 59.571 45.455 24.63 20.26 40.43 1.40
3576 7191 3.633065 GCAGTTAAATGCCCGGGTAATTA 59.367 43.478 24.63 19.05 40.43 1.40
3577 7192 4.279922 GCAGTTAAATGCCCGGGTAATTAT 59.720 41.667 24.63 14.37 40.43 1.28
3578 7193 5.474189 GCAGTTAAATGCCCGGGTAATTATA 59.526 40.000 24.63 13.51 40.43 0.98
3579 7194 6.016108 GCAGTTAAATGCCCGGGTAATTATAA 60.016 38.462 24.63 17.58 40.43 0.98
3580 7195 7.309560 GCAGTTAAATGCCCGGGTAATTATAAT 60.310 37.037 24.63 8.73 40.43 1.28
3581 7196 9.233649 CAGTTAAATGCCCGGGTAATTATAATA 57.766 33.333 24.63 8.89 0.00 0.98
3582 7197 9.457436 AGTTAAATGCCCGGGTAATTATAATAG 57.543 33.333 24.63 0.00 0.00 1.73
3583 7198 9.452287 GTTAAATGCCCGGGTAATTATAATAGA 57.548 33.333 24.63 2.06 0.00 1.98
3584 7199 9.675464 TTAAATGCCCGGGTAATTATAATAGAG 57.325 33.333 24.63 0.00 0.00 2.43
3585 7200 5.093849 TGCCCGGGTAATTATAATAGAGC 57.906 43.478 24.63 1.29 0.00 4.09
3586 7201 4.532916 TGCCCGGGTAATTATAATAGAGCA 59.467 41.667 24.63 4.38 0.00 4.26
3587 7202 5.013287 TGCCCGGGTAATTATAATAGAGCAA 59.987 40.000 24.63 0.00 0.00 3.91
3588 7203 5.941647 GCCCGGGTAATTATAATAGAGCAAA 59.058 40.000 24.63 0.00 0.00 3.68
3589 7204 6.128090 GCCCGGGTAATTATAATAGAGCAAAC 60.128 42.308 24.63 0.00 0.00 2.93
3590 7205 6.938030 CCCGGGTAATTATAATAGAGCAAACA 59.062 38.462 14.18 0.00 0.00 2.83
3591 7206 7.094933 CCCGGGTAATTATAATAGAGCAAACAC 60.095 40.741 14.18 0.00 0.00 3.32
3592 7207 7.442969 CCGGGTAATTATAATAGAGCAAACACA 59.557 37.037 0.00 0.00 0.00 3.72
3593 7208 8.999431 CGGGTAATTATAATAGAGCAAACACAT 58.001 33.333 0.00 0.00 0.00 3.21
3607 7222 9.270640 AGAGCAAACACATTTTTATAAAATGCA 57.729 25.926 22.65 7.83 40.35 3.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
103 105 2.207988 TCATGGTGATGATGTCCCCTT 58.792 47.619 0.00 0.00 33.40 3.95
109 111 1.285667 TGGCCTTCATGGTGATGATGT 59.714 47.619 3.32 0.00 38.43 3.06
205 208 2.183046 GTGCCACCGAGAGAGAGC 59.817 66.667 0.00 0.00 0.00 4.09
221 224 2.284625 TCCCGATGGCACTCTGGT 60.285 61.111 0.00 0.00 0.00 4.00
308 311 1.903404 TGCGAGAGAGTGGACTGCA 60.903 57.895 0.00 0.00 0.00 4.41
482 485 2.567615 GACACGGAGGGCATAATAGGAT 59.432 50.000 0.00 0.00 0.00 3.24
524 527 2.224646 TGTATTGCAACACCCTACAGCA 60.225 45.455 5.21 0.00 0.00 4.41
546 549 4.632153 ACCCACTATAAGCGAATCATGAC 58.368 43.478 0.00 0.00 0.00 3.06
600 603 1.303724 CCATACGCAACAACCCCCA 60.304 57.895 0.00 0.00 0.00 4.96
665 668 1.976474 GGGTTCTTGCGCCATTGGA 60.976 57.895 6.95 0.00 0.00 3.53
685 688 6.708285 ACTCCCTACTAACATCGTTTTCAAT 58.292 36.000 0.00 0.00 0.00 2.57
688 691 7.318893 ACTTACTCCCTACTAACATCGTTTTC 58.681 38.462 0.00 0.00 0.00 2.29
724 727 6.779860 TCATTTCTAACTGGGTTCTTTAGCT 58.220 36.000 0.00 0.00 0.00 3.32
728 731 7.839680 AACATCATTTCTAACTGGGTTCTTT 57.160 32.000 0.00 0.00 0.00 2.52
758 761 8.267894 ACATTGCCATCTACATTTACTTACTCT 58.732 33.333 0.00 0.00 0.00 3.24
808 812 7.595819 TGTATTGTTTCCATCTGAAAACCTT 57.404 32.000 2.09 0.00 44.30 3.50
809 813 7.595819 TTGTATTGTTTCCATCTGAAAACCT 57.404 32.000 2.09 0.00 44.30 3.50
843 847 0.906775 ATGTAACAGTACCCCCACCG 59.093 55.000 0.00 0.00 0.00 4.94
846 850 8.598916 CATTATATACATGTAACAGTACCCCCA 58.401 37.037 10.14 0.00 0.00 4.96
898 1018 8.195436 GCTGTCTGGTTGATACTAAACTACATA 58.805 37.037 0.00 0.00 0.00 2.29
902 1022 6.852420 AGCTGTCTGGTTGATACTAAACTA 57.148 37.500 0.00 0.00 0.00 2.24
981 3362 0.809385 TGCTAGACACGTAGACCAGC 59.191 55.000 0.00 0.00 0.00 4.85
1104 3498 2.834549 CTCACTTCAGTACAGTGGGGAT 59.165 50.000 10.87 0.00 41.83 3.85
1282 3900 2.121992 CTCCAAGCTGCAGTGGGAGT 62.122 60.000 27.99 5.15 40.18 3.85
1303 3921 2.537560 GCCATCTGCCGATTCCACG 61.538 63.158 0.00 0.00 0.00 4.94
1322 3940 0.035439 CGGATACAAGCAAGGGTGGT 60.035 55.000 0.00 0.00 36.94 4.16
1424 4047 3.320541 CCCTGACCAACAACATGCTTTAA 59.679 43.478 0.00 0.00 0.00 1.52
1425 4048 2.890311 CCCTGACCAACAACATGCTTTA 59.110 45.455 0.00 0.00 0.00 1.85
1498 4122 2.093921 GGTTGAGTCCAGACCTTCTAGC 60.094 54.545 0.00 0.00 0.00 3.42
1653 4282 0.107410 TGTGTGTGGACCACCTGAAC 60.107 55.000 22.00 13.38 43.85 3.18
1660 4295 3.560105 TGATTTGATTGTGTGTGGACCA 58.440 40.909 0.00 0.00 0.00 4.02
1667 4302 4.688879 AGCAAAGCATGATTTGATTGTGTG 59.311 37.500 34.14 11.42 41.71 3.82
1682 4317 1.162698 GAGTCATCTGCAGCAAAGCA 58.837 50.000 9.47 0.00 43.35 3.91
1786 4422 0.248621 AGTGCAGCAAAAGCAACGAC 60.249 50.000 0.00 0.00 44.64 4.34
1796 4435 1.471287 GCTTGATGATGAGTGCAGCAA 59.529 47.619 0.00 0.00 44.52 3.91
1814 4453 1.378250 GCAATGTCCAGAGCCAGCT 60.378 57.895 0.00 0.00 0.00 4.24
1845 4484 2.373169 ACTGACAGTCCACATGGTGATT 59.627 45.455 1.07 0.00 35.23 2.57
1909 4548 3.118847 TGTCAGATCATCAGTCTCCAAGC 60.119 47.826 0.00 0.00 0.00 4.01
1978 4617 7.773690 TGGAGGAAGCAATAGTAATTACCTTTC 59.226 37.037 12.05 6.83 0.00 2.62
2054 4693 4.879545 TCTAACACTTTCTTTGGCTTTCGT 59.120 37.500 0.00 0.00 0.00 3.85
2059 4698 6.354130 TGTACTTCTAACACTTTCTTTGGCT 58.646 36.000 0.00 0.00 0.00 4.75
2341 5239 8.644374 TTGTTTCCTTTAGTAAACCATGCTAT 57.356 30.769 0.00 0.00 35.23 2.97
2359 5257 6.479660 TGCATTCTCAACTGATTTTTGTTTCC 59.520 34.615 0.00 0.00 0.00 3.13
2360 5258 7.223387 ACTGCATTCTCAACTGATTTTTGTTTC 59.777 33.333 0.00 0.00 0.00 2.78
2361 5259 7.043565 ACTGCATTCTCAACTGATTTTTGTTT 58.956 30.769 0.00 0.00 0.00 2.83
2465 5368 2.108168 GGACAGATGCCACCTACACTA 58.892 52.381 0.00 0.00 0.00 2.74
2639 6105 2.297597 CCCTCGAGACTTGGCTATTAGG 59.702 54.545 15.71 0.00 0.00 2.69
2662 6128 5.073311 TCACTCAGCTAAGTATCAACACC 57.927 43.478 0.00 0.00 0.00 4.16
2730 6247 9.507329 ACAATATACCCATGTCAATGATTAGAC 57.493 33.333 0.00 0.00 35.67 2.59
2815 6346 7.254387 GCATGTGTGTGTGTGTAAAATCATTTT 60.254 33.333 0.02 0.02 36.67 1.82
3022 6631 4.455877 GGTTGCTGCTGTAAGAAACTACAT 59.544 41.667 0.00 0.00 34.07 2.29
3034 6644 1.900498 GGCTTCAGGTTGCTGCTGT 60.900 57.895 0.00 0.00 0.00 4.40
3122 6735 8.585881 ACTATTGACTGTGAACTGTTGTAGTAT 58.414 33.333 0.00 0.00 39.18 2.12
3272 6887 2.226437 GCAATGACAACCATGACTTCGT 59.774 45.455 0.00 0.00 35.24 3.85
3273 6888 2.226200 TGCAATGACAACCATGACTTCG 59.774 45.455 0.00 0.00 35.24 3.79
3274 6889 3.921119 TGCAATGACAACCATGACTTC 57.079 42.857 0.00 0.00 35.24 3.01
3377 6992 0.612229 TTGATTACCCGGGCGTTACA 59.388 50.000 24.08 12.22 0.00 2.41
3378 6993 1.292992 CTTGATTACCCGGGCGTTAC 58.707 55.000 24.08 9.44 0.00 2.50
3379 6994 0.462403 GCTTGATTACCCGGGCGTTA 60.462 55.000 24.08 1.83 0.00 3.18
3380 6995 1.747745 GCTTGATTACCCGGGCGTT 60.748 57.895 24.08 4.49 0.00 4.84
3381 6996 1.332144 TAGCTTGATTACCCGGGCGT 61.332 55.000 24.08 6.46 0.00 5.68
3382 6997 0.878961 GTAGCTTGATTACCCGGGCG 60.879 60.000 24.08 0.00 0.00 6.13
3383 6998 0.179468 TGTAGCTTGATTACCCGGGC 59.821 55.000 24.08 4.22 0.00 6.13
3384 6999 1.485066 ACTGTAGCTTGATTACCCGGG 59.515 52.381 22.25 22.25 0.00 5.73
3385 7000 2.981859 ACTGTAGCTTGATTACCCGG 57.018 50.000 0.00 0.00 0.00 5.73
3386 7001 5.465724 GGAATTACTGTAGCTTGATTACCCG 59.534 44.000 0.00 0.00 0.00 5.28
3387 7002 6.354130 TGGAATTACTGTAGCTTGATTACCC 58.646 40.000 0.00 0.00 0.00 3.69
3388 7003 7.520614 GCATGGAATTACTGTAGCTTGATTACC 60.521 40.741 0.00 0.00 0.00 2.85
3389 7004 7.227512 AGCATGGAATTACTGTAGCTTGATTAC 59.772 37.037 0.00 0.00 0.00 1.89
3390 7005 7.282585 AGCATGGAATTACTGTAGCTTGATTA 58.717 34.615 0.00 0.00 0.00 1.75
3391 7006 6.125029 AGCATGGAATTACTGTAGCTTGATT 58.875 36.000 0.00 0.00 0.00 2.57
3392 7007 5.688807 AGCATGGAATTACTGTAGCTTGAT 58.311 37.500 0.00 0.00 0.00 2.57
3393 7008 5.102953 AGCATGGAATTACTGTAGCTTGA 57.897 39.130 0.00 0.00 0.00 3.02
3394 7009 6.925610 TTAGCATGGAATTACTGTAGCTTG 57.074 37.500 0.00 0.00 32.70 4.01
3395 7010 7.056635 ACATTAGCATGGAATTACTGTAGCTT 58.943 34.615 0.00 0.00 34.27 3.74
3396 7011 6.595682 ACATTAGCATGGAATTACTGTAGCT 58.404 36.000 0.00 0.00 34.27 3.32
3397 7012 6.867662 ACATTAGCATGGAATTACTGTAGC 57.132 37.500 0.00 0.00 34.27 3.58
3398 7013 7.134815 GCAACATTAGCATGGAATTACTGTAG 58.865 38.462 0.00 0.00 34.27 2.74
3399 7014 6.039270 GGCAACATTAGCATGGAATTACTGTA 59.961 38.462 0.00 0.00 34.27 2.74
3400 7015 5.163519 GGCAACATTAGCATGGAATTACTGT 60.164 40.000 0.00 0.00 34.27 3.55
3401 7016 5.163530 TGGCAACATTAGCATGGAATTACTG 60.164 40.000 0.00 0.00 46.17 2.74
3402 7017 4.955450 TGGCAACATTAGCATGGAATTACT 59.045 37.500 0.00 0.00 46.17 2.24
3403 7018 5.261209 TGGCAACATTAGCATGGAATTAC 57.739 39.130 0.00 0.00 46.17 1.89
3418 7033 2.892914 CGTGGTGACGTGGCAACA 60.893 61.111 0.00 0.00 40.91 3.33
3419 7034 3.645975 CCGTGGTGACGTGGCAAC 61.646 66.667 0.00 0.00 44.54 4.17
3420 7035 2.307611 TAACCGTGGTGACGTGGCAA 62.308 55.000 0.00 0.00 44.54 4.52
3421 7036 2.794028 TAACCGTGGTGACGTGGCA 61.794 57.895 0.00 0.00 44.54 4.92
3422 7037 2.029369 TAACCGTGGTGACGTGGC 59.971 61.111 0.00 0.00 44.54 5.01
3423 7038 0.942410 CAGTAACCGTGGTGACGTGG 60.942 60.000 0.00 0.00 44.54 4.94
3424 7039 0.249155 ACAGTAACCGTGGTGACGTG 60.249 55.000 0.00 3.35 44.54 4.49
3425 7040 0.461135 AACAGTAACCGTGGTGACGT 59.539 50.000 0.77 0.00 44.54 4.34
3426 7041 0.856641 CAACAGTAACCGTGGTGACG 59.143 55.000 0.77 0.00 45.67 4.35
3427 7042 0.584876 GCAACAGTAACCGTGGTGAC 59.415 55.000 0.00 0.00 34.25 3.67
3428 7043 0.466543 AGCAACAGTAACCGTGGTGA 59.533 50.000 0.00 0.00 34.25 4.02
3429 7044 2.157834 TAGCAACAGTAACCGTGGTG 57.842 50.000 0.00 0.00 35.58 4.17
3430 7045 2.914695 TTAGCAACAGTAACCGTGGT 57.085 45.000 0.00 0.00 0.00 4.16
3431 7046 3.596214 AGATTAGCAACAGTAACCGTGG 58.404 45.455 0.00 0.00 0.00 4.94
3432 7047 4.565564 GGTAGATTAGCAACAGTAACCGTG 59.434 45.833 0.00 0.00 0.00 4.94
3433 7048 4.676196 CGGTAGATTAGCAACAGTAACCGT 60.676 45.833 0.00 0.00 41.71 4.83
3434 7049 3.795101 CGGTAGATTAGCAACAGTAACCG 59.205 47.826 0.00 0.00 41.01 4.44
3435 7050 4.752146 ACGGTAGATTAGCAACAGTAACC 58.248 43.478 0.00 0.00 0.00 2.85
3436 7051 7.031975 ACTAACGGTAGATTAGCAACAGTAAC 58.968 38.462 15.99 0.00 33.66 2.50
3437 7052 7.161773 ACTAACGGTAGATTAGCAACAGTAA 57.838 36.000 15.99 0.00 33.66 2.24
3438 7053 6.764308 ACTAACGGTAGATTAGCAACAGTA 57.236 37.500 15.99 0.00 33.66 2.74
3439 7054 5.656213 ACTAACGGTAGATTAGCAACAGT 57.344 39.130 15.99 0.00 33.66 3.55
3440 7055 5.229469 CGAACTAACGGTAGATTAGCAACAG 59.771 44.000 15.99 0.00 33.66 3.16
3441 7056 5.097529 CGAACTAACGGTAGATTAGCAACA 58.902 41.667 15.99 0.00 33.66 3.33
3442 7057 5.335127 TCGAACTAACGGTAGATTAGCAAC 58.665 41.667 15.99 0.00 33.66 4.17
3443 7058 5.565592 TCGAACTAACGGTAGATTAGCAA 57.434 39.130 15.99 0.00 33.66 3.91
3444 7059 5.565592 TTCGAACTAACGGTAGATTAGCA 57.434 39.130 15.99 0.00 33.66 3.49
3445 7060 6.690494 GTTTTCGAACTAACGGTAGATTAGC 58.310 40.000 15.99 0.00 33.66 3.09
3463 7078 2.283351 ACTCGGTTTTGACTCGTTTTCG 59.717 45.455 0.00 0.00 45.64 3.46
3464 7079 3.307782 TGACTCGGTTTTGACTCGTTTTC 59.692 43.478 0.00 0.00 0.00 2.29
3465 7080 3.264104 TGACTCGGTTTTGACTCGTTTT 58.736 40.909 0.00 0.00 0.00 2.43
3466 7081 2.896168 TGACTCGGTTTTGACTCGTTT 58.104 42.857 0.00 0.00 0.00 3.60
3467 7082 2.589798 TGACTCGGTTTTGACTCGTT 57.410 45.000 0.00 0.00 0.00 3.85
3468 7083 2.589798 TTGACTCGGTTTTGACTCGT 57.410 45.000 0.00 0.00 0.00 4.18
3469 7084 4.025229 TGAATTTGACTCGGTTTTGACTCG 60.025 41.667 0.00 0.00 0.00 4.18
3470 7085 5.418310 TGAATTTGACTCGGTTTTGACTC 57.582 39.130 0.00 0.00 0.00 3.36
3471 7086 5.828299 TTGAATTTGACTCGGTTTTGACT 57.172 34.783 0.00 0.00 0.00 3.41
3472 7087 6.033966 AGTTTGAATTTGACTCGGTTTTGAC 58.966 36.000 0.00 0.00 0.00 3.18
3473 7088 6.127869 TGAGTTTGAATTTGACTCGGTTTTGA 60.128 34.615 10.35 0.00 42.02 2.69
3474 7089 6.033341 TGAGTTTGAATTTGACTCGGTTTTG 58.967 36.000 10.35 0.00 42.02 2.44
3475 7090 6.202516 TGAGTTTGAATTTGACTCGGTTTT 57.797 33.333 10.35 0.00 42.02 2.43
3476 7091 5.828299 TGAGTTTGAATTTGACTCGGTTT 57.172 34.783 10.35 0.00 42.02 3.27
3477 7092 5.828299 TTGAGTTTGAATTTGACTCGGTT 57.172 34.783 10.35 0.00 42.02 4.44
3478 7093 5.828299 TTTGAGTTTGAATTTGACTCGGT 57.172 34.783 10.35 0.00 42.02 4.69
3479 7094 8.795786 TTAATTTGAGTTTGAATTTGACTCGG 57.204 30.769 10.35 0.00 42.02 4.63
3523 7138 7.489757 CCCGAACATTTTAGTTTCAACTTTTGA 59.510 33.333 0.00 0.00 40.37 2.69
3524 7139 7.254286 CCCCGAACATTTTAGTTTCAACTTTTG 60.254 37.037 0.00 0.00 40.37 2.44
3525 7140 6.759356 CCCCGAACATTTTAGTTTCAACTTTT 59.241 34.615 0.00 0.00 40.37 2.27
3526 7141 6.127281 ACCCCGAACATTTTAGTTTCAACTTT 60.127 34.615 0.00 0.00 40.37 2.66
3527 7142 5.361571 ACCCCGAACATTTTAGTTTCAACTT 59.638 36.000 0.00 0.00 40.37 2.66
3528 7143 4.891168 ACCCCGAACATTTTAGTTTCAACT 59.109 37.500 0.00 0.00 42.91 3.16
3529 7144 4.979815 CACCCCGAACATTTTAGTTTCAAC 59.020 41.667 0.00 0.00 0.00 3.18
3530 7145 4.645588 ACACCCCGAACATTTTAGTTTCAA 59.354 37.500 0.00 0.00 0.00 2.69
3531 7146 4.036971 CACACCCCGAACATTTTAGTTTCA 59.963 41.667 0.00 0.00 0.00 2.69
3532 7147 4.542735 CACACCCCGAACATTTTAGTTTC 58.457 43.478 0.00 0.00 0.00 2.78
3533 7148 3.243602 GCACACCCCGAACATTTTAGTTT 60.244 43.478 0.00 0.00 0.00 2.66
3534 7149 2.295070 GCACACCCCGAACATTTTAGTT 59.705 45.455 0.00 0.00 0.00 2.24
3535 7150 1.883926 GCACACCCCGAACATTTTAGT 59.116 47.619 0.00 0.00 0.00 2.24
3536 7151 1.883275 TGCACACCCCGAACATTTTAG 59.117 47.619 0.00 0.00 0.00 1.85
3537 7152 1.883275 CTGCACACCCCGAACATTTTA 59.117 47.619 0.00 0.00 0.00 1.52
3538 7153 0.673437 CTGCACACCCCGAACATTTT 59.327 50.000 0.00 0.00 0.00 1.82
3539 7154 0.467290 ACTGCACACCCCGAACATTT 60.467 50.000 0.00 0.00 0.00 2.32
3540 7155 0.467290 AACTGCACACCCCGAACATT 60.467 50.000 0.00 0.00 0.00 2.71
3541 7156 0.398696 TAACTGCACACCCCGAACAT 59.601 50.000 0.00 0.00 0.00 2.71
3542 7157 0.180642 TTAACTGCACACCCCGAACA 59.819 50.000 0.00 0.00 0.00 3.18
3543 7158 1.310904 TTTAACTGCACACCCCGAAC 58.689 50.000 0.00 0.00 0.00 3.95
3544 7159 1.883275 CATTTAACTGCACACCCCGAA 59.117 47.619 0.00 0.00 0.00 4.30
3545 7160 1.529226 CATTTAACTGCACACCCCGA 58.471 50.000 0.00 0.00 0.00 5.14
3546 7161 0.109319 GCATTTAACTGCACACCCCG 60.109 55.000 12.50 0.00 41.87 5.73
3547 7162 0.246360 GGCATTTAACTGCACACCCC 59.754 55.000 18.23 0.00 44.12 4.95
3548 7163 0.246360 GGGCATTTAACTGCACACCC 59.754 55.000 18.23 7.44 45.14 4.61
3549 7164 0.109319 CGGGCATTTAACTGCACACC 60.109 55.000 18.79 10.32 46.14 4.16
3550 7165 0.109319 CCGGGCATTTAACTGCACAC 60.109 55.000 18.79 8.19 46.14 3.82
3551 7166 1.247419 CCCGGGCATTTAACTGCACA 61.247 55.000 18.79 0.00 46.14 4.57
3552 7167 1.248101 ACCCGGGCATTTAACTGCAC 61.248 55.000 24.08 14.31 44.12 4.57
3553 7168 0.328592 TACCCGGGCATTTAACTGCA 59.671 50.000 24.08 0.00 44.12 4.41
3554 7169 1.465794 TTACCCGGGCATTTAACTGC 58.534 50.000 24.08 9.19 41.53 4.40
3555 7170 7.513371 TTATAATTACCCGGGCATTTAACTG 57.487 36.000 24.08 0.00 0.00 3.16
3556 7171 9.457436 CTATTATAATTACCCGGGCATTTAACT 57.543 33.333 24.08 3.81 0.00 2.24
3557 7172 9.452287 TCTATTATAATTACCCGGGCATTTAAC 57.548 33.333 24.08 0.00 0.00 2.01
3558 7173 9.675464 CTCTATTATAATTACCCGGGCATTTAA 57.325 33.333 24.08 12.50 0.00 1.52
3559 7174 7.771826 GCTCTATTATAATTACCCGGGCATTTA 59.228 37.037 24.08 15.56 0.00 1.40
3560 7175 6.602009 GCTCTATTATAATTACCCGGGCATTT 59.398 38.462 24.08 13.60 0.00 2.32
3561 7176 6.120220 GCTCTATTATAATTACCCGGGCATT 58.880 40.000 24.08 21.42 0.00 3.56
3562 7177 5.190925 TGCTCTATTATAATTACCCGGGCAT 59.809 40.000 24.08 10.74 0.00 4.40
3563 7178 4.532916 TGCTCTATTATAATTACCCGGGCA 59.467 41.667 24.08 4.00 0.00 5.36
3564 7179 5.093849 TGCTCTATTATAATTACCCGGGC 57.906 43.478 24.08 0.00 0.00 6.13
3565 7180 6.938030 TGTTTGCTCTATTATAATTACCCGGG 59.062 38.462 22.25 22.25 0.00 5.73
3566 7181 7.442969 TGTGTTTGCTCTATTATAATTACCCGG 59.557 37.037 2.68 0.00 0.00 5.73
3567 7182 8.373048 TGTGTTTGCTCTATTATAATTACCCG 57.627 34.615 2.68 0.00 0.00 5.28
3581 7196 9.270640 TGCATTTTATAAAAATGTGTTTGCTCT 57.729 25.926 21.73 0.90 39.25 4.09


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

AutoCloner maintained by Alex Coulton.