Multiple sequence alignment - TraesCS3B01G282000

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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 TraesCS3B01G282000 chr3B 100.000 4196 0 0 2924 7119 452551459 452555654 0.000000e+00 7749.0
1 TraesCS3B01G282000 chr3B 100.000 2496 0 0 1 2496 452548536 452551031 0.000000e+00 4610.0
2 TraesCS3B01G282000 chr3B 92.739 482 6 3 6664 7119 73039026 73038548 0.000000e+00 669.0
3 TraesCS3B01G282000 chr3B 92.784 97 6 1 2244 2340 672737286 672737191 9.630000e-29 139.0
4 TraesCS3B01G282000 chr3B 90.217 92 9 0 2237 2328 705996390 705996299 3.490000e-23 121.0
5 TraesCS3B01G282000 chr3B 87.619 105 10 2 2224 2328 8871998 8871897 1.250000e-22 119.0
6 TraesCS3B01G282000 chr3B 100.000 33 0 0 6631 6663 73039042 73039010 2.140000e-05 62.1
7 TraesCS3B01G282000 chr4B 92.308 2444 128 24 4221 6624 25273325 25275748 0.000000e+00 3417.0
8 TraesCS3B01G282000 chr4B 94.777 1455 60 13 1051 2496 24838577 24837130 0.000000e+00 2252.0
9 TraesCS3B01G282000 chr4B 97.727 1232 18 2 4223 5454 24835984 24834763 0.000000e+00 2111.0
10 TraesCS3B01G282000 chr4B 93.842 1153 40 12 5451 6574 24834661 24833511 0.000000e+00 1707.0
11 TraesCS3B01G282000 chr4B 98.816 929 11 0 2924 3852 24837091 24836163 0.000000e+00 1655.0
12 TraesCS3B01G282000 chr4B 90.605 1075 54 18 1 1051 25269907 25270958 0.000000e+00 1382.0
13 TraesCS3B01G282000 chr4B 88.946 1167 66 33 1067 2176 25270945 25272105 0.000000e+00 1382.0
14 TraesCS3B01G282000 chr4B 98.904 456 3 2 6664 7118 629927341 629926887 0.000000e+00 813.0
15 TraesCS3B01G282000 chr4B 85.075 670 56 19 3403 4065 25272422 25273054 1.670000e-180 643.0
16 TraesCS3B01G282000 chr4B 98.585 212 2 1 6909 7119 665910332 665910121 2.420000e-99 374.0
17 TraesCS3B01G282000 chr4B 88.991 218 24 0 3026 3243 25272113 25272330 3.270000e-68 270.0
18 TraesCS3B01G282000 chr4B 95.000 160 2 1 110 269 24838750 24838597 5.520000e-61 246.0
19 TraesCS3B01G282000 chr4B 99.107 112 1 0 1 112 24851182 24851071 1.210000e-47 202.0
20 TraesCS3B01G282000 chr4B 97.222 108 3 0 6664 6771 665910476 665910369 4.390000e-42 183.0
21 TraesCS3B01G282000 chr4B 94.898 98 4 1 4140 4236 24836140 24836043 1.240000e-32 152.0
22 TraesCS3B01G282000 chr4B 90.909 110 5 3 907 1011 25987456 25987347 7.440000e-30 143.0
23 TraesCS3B01G282000 chr4B 90.909 110 5 3 907 1011 26027769 26027660 7.440000e-30 143.0
24 TraesCS3B01G282000 chr4B 90.909 110 5 3 907 1011 26079682 26079573 7.440000e-30 143.0
25 TraesCS3B01G282000 chr4B 90.909 110 5 3 907 1011 26116058 26115949 7.440000e-30 143.0
26 TraesCS3B01G282000 chr4B 90.909 110 5 3 907 1011 26207597 26207488 7.440000e-30 143.0
27 TraesCS3B01G282000 chr4B 90.741 108 8 2 2239 2344 427495781 427495888 7.440000e-30 143.0
28 TraesCS3B01G282000 chr4B 87.619 105 10 3 2223 2327 19010219 19010320 1.250000e-22 119.0
29 TraesCS3B01G282000 chr4B 97.368 38 1 0 6626 6663 629927362 629927325 1.660000e-06 65.8
30 TraesCS3B01G282000 chr4D 93.093 2244 106 23 4221 6435 14995530 14997753 0.000000e+00 3240.0
31 TraesCS3B01G282000 chr4D 90.655 1145 65 13 1065 2176 14991469 14992604 0.000000e+00 1483.0
32 TraesCS3B01G282000 chr4D 92.687 588 24 8 466 1053 14990917 14991485 0.000000e+00 830.0
33 TraesCS3B01G282000 chr4D 94.033 419 19 1 2 420 14990403 14990815 1.300000e-176 630.0
34 TraesCS3B01G282000 chr4D 83.044 519 44 16 3594 4097 14994797 14995286 1.420000e-116 431.0
35 TraesCS3B01G282000 chr4D 86.082 388 47 5 2939 3325 448185474 448185093 1.850000e-110 411.0
36 TraesCS3B01G282000 chr4D 85.194 412 46 1 6 417 14999536 14999932 6.650000e-110 409.0
37 TraesCS3B01G282000 chr4D 87.279 283 27 2 3026 3308 14992612 14992885 1.490000e-81 315.0
38 TraesCS3B01G282000 chr4D 94.215 121 7 0 2367 2487 55352438 55352558 1.220000e-42 185.0
39 TraesCS3B01G282000 chr4D 91.870 123 8 2 909 1030 15000330 15000451 3.410000e-38 171.0
40 TraesCS3B01G282000 chr4D 92.784 97 7 0 2237 2333 26898028 26897932 2.680000e-29 141.0
41 TraesCS3B01G282000 chr4D 100.000 46 0 0 419 464 14990833 14990878 1.270000e-12 86.1
42 TraesCS3B01G282000 chr4A 88.520 1655 93 27 562 2176 586437255 586435658 0.000000e+00 1914.0
43 TraesCS3B01G282000 chr4A 92.222 990 55 9 5459 6431 586432783 586431799 0.000000e+00 1382.0
44 TraesCS3B01G282000 chr4A 93.501 677 39 3 4227 4902 586434417 586433745 0.000000e+00 1002.0
45 TraesCS3B01G282000 chr4A 92.756 566 32 4 4897 5459 586433492 586432933 0.000000e+00 809.0
46 TraesCS3B01G282000 chr4A 84.979 699 77 15 3404 4097 586435344 586434669 0.000000e+00 684.0
47 TraesCS3B01G282000 chr4A 95.714 420 12 2 1 420 586437813 586437400 0.000000e+00 671.0
48 TraesCS3B01G282000 chr4A 91.770 486 8 5 6664 7118 35993793 35994277 0.000000e+00 647.0
49 TraesCS3B01G282000 chr4A 83.942 411 48 4 12 420 586426851 586426457 1.870000e-100 377.0
50 TraesCS3B01G282000 chr4A 82.555 407 53 4 13 417 538169045 538169435 6.840000e-90 342.0
51 TraesCS3B01G282000 chr4A 86.380 279 28 3 3031 3308 586435652 586435383 5.400000e-76 296.0
52 TraesCS3B01G282000 chr4A 84.868 152 19 4 1302 1452 538169695 538169843 4.450000e-32 150.0
53 TraesCS3B01G282000 chr4A 92.784 97 7 0 2240 2336 241153027 241152931 2.680000e-29 141.0
54 TraesCS3B01G282000 chr4A 89.189 111 10 1 2218 2328 597739858 597739966 3.460000e-28 137.0
55 TraesCS3B01G282000 chr4A 92.500 80 6 0 1087 1166 586426385 586426306 1.620000e-21 115.0
56 TraesCS3B01G282000 chr4A 100.000 46 0 0 419 464 586437382 586437337 1.270000e-12 86.1
57 TraesCS3B01G282000 chr2B 98.468 457 6 1 6664 7119 553887924 553887468 0.000000e+00 804.0
58 TraesCS3B01G282000 chr5D 92.441 463 26 5 6664 7119 120937495 120937035 0.000000e+00 652.0
59 TraesCS3B01G282000 chr5D 93.600 125 8 0 2368 2492 385720422 385720546 3.390000e-43 187.0
60 TraesCS3B01G282000 chr5D 90.196 51 3 2 6614 6663 120937528 120937479 1.660000e-06 65.8
61 TraesCS3B01G282000 chr5A 90.554 487 15 14 6664 7119 262462669 262463155 3.650000e-172 616.0
62 TraesCS3B01G282000 chr5A 98.113 212 3 1 6909 7119 705891539 705891328 1.130000e-97 368.0
63 TraesCS3B01G282000 chr5A 96.296 108 4 0 6664 6771 705891683 705891576 2.040000e-40 178.0
64 TraesCS3B01G282000 chr5A 90.741 108 8 2 2235 2340 113720079 113720186 7.440000e-30 143.0
65 TraesCS3B01G282000 chr5A 90.196 51 4 1 6613 6663 705891716 705891667 1.660000e-06 65.8
66 TraesCS3B01G282000 chr1A 98.175 274 5 0 6664 6937 444154592 444154865 5.000000e-131 479.0
67 TraesCS3B01G282000 chr1A 81.102 635 67 38 1537 2163 462127699 462128288 6.510000e-125 459.0
68 TraesCS3B01G282000 chr1A 84.334 383 49 7 2939 3316 462128919 462129295 1.460000e-96 364.0
69 TraesCS3B01G282000 chr1A 96.729 214 6 1 6907 7119 444154865 444155078 8.780000e-94 355.0
70 TraesCS3B01G282000 chr1A 90.476 105 7 3 2229 2331 566604758 566604655 1.250000e-27 135.0
71 TraesCS3B01G282000 chr1A 97.297 37 1 0 6627 6663 444154572 444154608 5.960000e-06 63.9
72 TraesCS3B01G282000 chr2A 97.091 275 8 0 6664 6938 759795332 759795606 1.400000e-126 464.0
73 TraesCS3B01G282000 chr2A 85.398 226 31 2 832 1057 59732659 59732882 4.290000e-57 233.0
74 TraesCS3B01G282000 chr2A 93.548 124 7 1 2365 2487 78845695 78845572 4.390000e-42 183.0
75 TraesCS3B01G282000 chr6B 85.000 420 38 20 1752 2163 88721207 88720805 3.090000e-108 403.0
76 TraesCS3B01G282000 chr6B 86.577 149 20 0 3119 3267 88719806 88719658 1.590000e-36 165.0
77 TraesCS3B01G282000 chr1B 85.042 361 39 10 2974 3328 326789018 326789369 3.160000e-93 353.0
78 TraesCS3B01G282000 chr2D 95.000 120 6 0 2368 2487 12692238 12692357 9.430000e-44 189.0
79 TraesCS3B01G282000 chr2D 92.135 89 6 1 2244 2331 565156919 565156831 2.700000e-24 124.0
80 TraesCS3B01G282000 chr7A 94.215 121 7 0 2367 2487 543780215 543780335 1.220000e-42 185.0
81 TraesCS3B01G282000 chr7A 97.297 37 1 0 6627 6663 709130281 709130317 5.960000e-06 63.9
82 TraesCS3B01G282000 chr5B 94.215 121 7 0 2367 2487 214108401 214108521 1.220000e-42 185.0
83 TraesCS3B01G282000 chr3A 94.215 121 7 0 2370 2490 12239979 12239859 1.220000e-42 185.0
84 TraesCS3B01G282000 chr3A 94.215 121 7 0 2370 2490 638983761 638983641 1.220000e-42 185.0
85 TraesCS3B01G282000 chrUn 87.931 116 8 6 2215 2328 197752368 197752479 1.610000e-26 132.0
86 TraesCS3B01G282000 chr6D 88.496 113 6 7 2220 2328 95295014 95294905 5.800000e-26 130.0
87 TraesCS3B01G282000 chr6A 84.348 115 17 1 2216 2329 604198291 604198405 2.100000e-20 111.0


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 TraesCS3B01G282000 chr3B 452548536 452555654 7118 False 6179.500000 7749 100.000000 1 7119 2 chr3B.!!$F1 7118
1 TraesCS3B01G282000 chr4B 25269907 25275748 5841 False 1418.800000 3417 89.185000 1 6624 5 chr4B.!!$F3 6623
2 TraesCS3B01G282000 chr4B 24833511 24838750 5239 True 1353.833333 2252 95.843333 110 6574 6 chr4B.!!$R7 6464
3 TraesCS3B01G282000 chr4D 14990403 15000451 10048 False 843.900000 3240 90.872778 2 6435 9 chr4D.!!$F2 6433
4 TraesCS3B01G282000 chr4A 586431799 586437813 6014 True 855.512500 1914 91.759000 1 6431 8 chr4A.!!$R3 6430
5 TraesCS3B01G282000 chr4A 538169045 538169843 798 False 246.000000 342 83.711500 13 1452 2 chr4A.!!$F3 1439
6 TraesCS3B01G282000 chr4A 586426306 586426851 545 True 246.000000 377 88.221000 12 1166 2 chr4A.!!$R2 1154
7 TraesCS3B01G282000 chr1A 462127699 462129295 1596 False 411.500000 459 82.718000 1537 3316 2 chr1A.!!$F2 1779
8 TraesCS3B01G282000 chr1A 444154572 444155078 506 False 299.300000 479 97.400333 6627 7119 3 chr1A.!!$F1 492
9 TraesCS3B01G282000 chr6B 88719658 88721207 1549 True 284.000000 403 85.788500 1752 3267 2 chr6B.!!$R1 1515

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
543 602 0.810823 GGGTTTTCCGACACGTGTCA 60.811 55.000 39.14 23.91 44.99 3.58 F
545 604 1.000884 GTTTTCCGACACGTGTCACA 58.999 50.000 39.14 26.09 44.99 3.58 F
1408 1532 1.003233 GGGGACGGTGAAGAAACAGAT 59.997 52.381 0.00 0.00 0.00 2.90 F
1574 1702 2.668280 GCACAAGTTCGAGGTCGCC 61.668 63.158 0.00 0.00 39.60 5.54 F
3178 3676 2.647299 TCCACATGTTACCCAACCAGAT 59.353 45.455 0.00 0.00 33.41 2.90 F
3880 6081 5.065914 TCCATGGAAACTAATAGAGCATGC 58.934 41.667 13.46 10.51 0.00 4.06 F
3994 6203 0.393132 GAGCAAAGGTAGGGGCTGAC 60.393 60.000 0.00 0.00 36.59 3.51 F
5234 7847 1.398692 GCTCACTTGGGTTGTTTGGA 58.601 50.000 0.00 0.00 0.00 3.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1408 1532 1.801242 TTGGAGAACTGACTGTGGGA 58.199 50.000 0.00 0.00 0.00 4.37 R
1574 1702 3.007723 CCACATAGTCTGGGATGGAGATG 59.992 52.174 0.00 0.00 0.00 2.90 R
3100 3598 1.823295 CTAAGCTCGCCCCTGCTAA 59.177 57.895 0.00 0.00 38.75 3.09 R
3610 5809 1.283905 CCCCCGAAAAGGAAGGTACAT 59.716 52.381 0.00 0.00 45.00 2.29 R
3984 6193 0.770557 AACCCAACAGTCAGCCCCTA 60.771 55.000 0.00 0.00 0.00 3.53 R
5662 8535 0.605589 GTCCTGACTGAGTCCTGTGG 59.394 60.000 10.52 7.33 0.00 4.17 R
5988 8883 1.146930 GATTGCCGGCTCTGATGGA 59.853 57.895 29.70 0.07 0.00 3.41 R
6668 10576 0.107897 TTATCTGCATTGTCGCCCGT 60.108 50.000 0.00 0.00 0.00 5.28 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
66 67 1.363744 CTGCGATCACCAAGTTCCTC 58.636 55.000 0.00 0.00 0.00 3.71
201 204 3.989698 AAGCATGGAGTCGACGCGG 62.990 63.158 12.47 6.55 0.00 6.46
203 206 3.822192 CATGGAGTCGACGCGGGA 61.822 66.667 12.47 4.17 0.00 5.14
204 207 3.823330 ATGGAGTCGACGCGGGAC 61.823 66.667 20.65 20.65 34.62 4.46
543 602 0.810823 GGGTTTTCCGACACGTGTCA 60.811 55.000 39.14 23.91 44.99 3.58
545 604 1.000884 GTTTTCCGACACGTGTCACA 58.999 50.000 39.14 26.09 44.99 3.58
606 665 7.996644 GGGAATAATACTGTTACTTGGGAATCA 59.003 37.037 0.00 0.00 0.00 2.57
607 666 8.837389 GGAATAATACTGTTACTTGGGAATCAC 58.163 37.037 0.00 0.00 0.00 3.06
608 667 8.433421 AATAATACTGTTACTTGGGAATCACG 57.567 34.615 0.00 0.00 0.00 4.35
609 668 3.764237 ACTGTTACTTGGGAATCACGT 57.236 42.857 0.00 0.00 0.00 4.49
610 669 4.877378 ACTGTTACTTGGGAATCACGTA 57.123 40.909 0.00 0.00 0.00 3.57
611 670 5.416271 ACTGTTACTTGGGAATCACGTAT 57.584 39.130 0.00 0.00 31.49 3.06
612 671 5.801380 ACTGTTACTTGGGAATCACGTATT 58.199 37.500 0.00 0.00 31.49 1.89
613 672 6.938507 ACTGTTACTTGGGAATCACGTATTA 58.061 36.000 0.00 0.00 31.49 0.98
694 753 2.930826 TGAGACCCTGAAACTTGACC 57.069 50.000 0.00 0.00 0.00 4.02
703 762 1.226746 GAAACTTGACCACCACGGAG 58.773 55.000 0.00 0.00 38.63 4.63
747 806 5.130145 AGCTAGCACTCACAAGGAAAGATAT 59.870 40.000 18.83 0.00 0.00 1.63
748 807 6.325028 AGCTAGCACTCACAAGGAAAGATATA 59.675 38.462 18.83 0.00 0.00 0.86
749 808 6.422400 GCTAGCACTCACAAGGAAAGATATAC 59.578 42.308 10.63 0.00 0.00 1.47
750 809 5.352284 AGCACTCACAAGGAAAGATATACG 58.648 41.667 0.00 0.00 0.00 3.06
751 810 5.105310 AGCACTCACAAGGAAAGATATACGT 60.105 40.000 0.00 0.00 0.00 3.57
791 850 1.841663 CGGCCAGTCCAAGAAACGTG 61.842 60.000 2.24 0.00 34.01 4.49
804 863 6.374894 TCCAAGAAACGTGAAACTTCCTTTTA 59.625 34.615 0.00 0.00 31.75 1.52
881 940 2.391389 CCGCGGAGGAAGTCAAAGC 61.391 63.158 24.07 0.00 45.00 3.51
904 963 1.451387 GGATCACCGGCGGTTTGAT 60.451 57.895 32.12 28.66 31.02 2.57
975 1034 2.037772 TGCTCCTGTTCTTCTCTTGGAC 59.962 50.000 0.00 0.00 0.00 4.02
998 1057 1.067516 TGTTCTTGCTCTGCTTTTGGC 59.932 47.619 0.00 0.00 42.22 4.52
1010 1069 1.264826 GCTTTTGGCCATGCTTGTTTG 59.735 47.619 6.09 0.00 34.27 2.93
1054 1113 3.912496 TGGAGACAGAGAGAGAGAGAG 57.088 52.381 0.00 0.00 35.01 3.20
1055 1114 3.449918 TGGAGACAGAGAGAGAGAGAGA 58.550 50.000 0.00 0.00 35.01 3.10
1056 1115 3.452264 TGGAGACAGAGAGAGAGAGAGAG 59.548 52.174 0.00 0.00 35.01 3.20
1057 1116 3.706594 GGAGACAGAGAGAGAGAGAGAGA 59.293 52.174 0.00 0.00 0.00 3.10
1058 1117 4.202202 GGAGACAGAGAGAGAGAGAGAGAG 60.202 54.167 0.00 0.00 0.00 3.20
1059 1118 4.614475 AGACAGAGAGAGAGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
1060 1119 4.648762 AGACAGAGAGAGAGAGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
1061 1120 4.614475 ACAGAGAGAGAGAGAGAGAGAGA 58.386 47.826 0.00 0.00 0.00 3.10
1062 1121 4.648762 ACAGAGAGAGAGAGAGAGAGAGAG 59.351 50.000 0.00 0.00 0.00 3.20
1063 1122 4.892345 CAGAGAGAGAGAGAGAGAGAGAGA 59.108 50.000 0.00 0.00 0.00 3.10
1064 1123 5.009911 CAGAGAGAGAGAGAGAGAGAGAGAG 59.990 52.000 0.00 0.00 0.00 3.20
1065 1124 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1066 1125 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1067 1126 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1068 1127 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1069 1128 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1070 1129 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1071 1130 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1072 1131 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1073 1132 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1074 1133 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1075 1134 5.103728 AGAGAGAGAGAGAGAGAGAGAGAGA 60.104 48.000 0.00 0.00 0.00 3.10
1076 1135 5.139727 AGAGAGAGAGAGAGAGAGAGAGAG 58.860 50.000 0.00 0.00 0.00 3.20
1322 1443 4.707448 TCTTTTAGCTTGGTTGGTCACAAA 59.293 37.500 0.00 0.00 38.54 2.83
1408 1532 1.003233 GGGGACGGTGAAGAAACAGAT 59.997 52.381 0.00 0.00 0.00 2.90
1435 1559 5.406780 CACAGTCAGTTCTCCAAACTATCAC 59.593 44.000 0.00 0.00 0.00 3.06
1457 1581 7.168219 TCACCAGTAAGAAAATTATCAGCAGT 58.832 34.615 0.00 0.00 0.00 4.40
1520 1648 7.059156 ACTATGAAAATAGGCTGAAGATGCTT 58.941 34.615 0.00 0.00 0.00 3.91
1574 1702 2.668280 GCACAAGTTCGAGGTCGCC 61.668 63.158 0.00 0.00 39.60 5.54
3178 3676 2.647299 TCCACATGTTACCCAACCAGAT 59.353 45.455 0.00 0.00 33.41 2.90
3427 3933 8.547069 GCAAACAAATCTACTCTAAGAGCTATG 58.453 37.037 0.00 0.00 32.04 2.23
3610 5809 8.445275 TTTAAGTCTGCACACTTCAGAATTTA 57.555 30.769 10.88 0.50 43.58 1.40
3880 6081 5.065914 TCCATGGAAACTAATAGAGCATGC 58.934 41.667 13.46 10.51 0.00 4.06
3881 6082 5.068636 CCATGGAAACTAATAGAGCATGCT 58.931 41.667 22.92 22.92 0.00 3.79
3882 6083 5.533903 CCATGGAAACTAATAGAGCATGCTT 59.466 40.000 23.61 14.05 0.00 3.91
3883 6084 6.040166 CCATGGAAACTAATAGAGCATGCTTT 59.960 38.462 23.61 19.46 0.00 3.51
3887 6088 6.095440 GGAAACTAATAGAGCATGCTTTCCAA 59.905 38.462 27.19 13.26 35.55 3.53
3908 6109 9.837681 TTCCAAGATATTCTACCTATACATCCA 57.162 33.333 0.00 0.00 0.00 3.41
3949 6156 9.369672 ACACCCTTTCAATATAAGGTGTTAAAA 57.630 29.630 6.80 0.00 40.47 1.52
3982 6191 7.166473 GTCATTTTACAGACAACAAGAGCAAAG 59.834 37.037 0.00 0.00 34.93 2.77
3984 6193 3.004752 ACAGACAACAAGAGCAAAGGT 57.995 42.857 0.00 0.00 0.00 3.50
3985 6194 4.150897 ACAGACAACAAGAGCAAAGGTA 57.849 40.909 0.00 0.00 0.00 3.08
3988 6197 2.814336 GACAACAAGAGCAAAGGTAGGG 59.186 50.000 0.00 0.00 0.00 3.53
3994 6203 0.393132 GAGCAAAGGTAGGGGCTGAC 60.393 60.000 0.00 0.00 36.59 3.51
4039 6248 6.076981 AGGAACACTGAAGCTTATGTTTTG 57.923 37.500 18.94 6.56 35.47 2.44
4065 6274 2.708861 ACCAGGTTAGTGTCACCATGAA 59.291 45.455 0.00 0.00 36.67 2.57
4066 6275 3.330701 ACCAGGTTAGTGTCACCATGAAT 59.669 43.478 0.00 0.00 36.67 2.57
4067 6276 3.941483 CCAGGTTAGTGTCACCATGAATC 59.059 47.826 0.00 0.00 36.67 2.52
4068 6277 3.941483 CAGGTTAGTGTCACCATGAATCC 59.059 47.826 0.00 0.00 36.67 3.01
4069 6278 3.587061 AGGTTAGTGTCACCATGAATCCA 59.413 43.478 0.00 0.00 36.67 3.41
4070 6279 4.228210 AGGTTAGTGTCACCATGAATCCAT 59.772 41.667 0.00 0.00 36.67 3.41
4083 6292 4.589647 TGAATCCATGATTCCTTGACCA 57.410 40.909 12.82 0.00 45.37 4.02
4097 6306 3.447229 CCTTGACCACCAAAACTCAGTTT 59.553 43.478 0.00 0.00 37.34 2.66
4098 6307 4.081697 CCTTGACCACCAAAACTCAGTTTT 60.082 41.667 9.89 9.89 45.06 2.43
4123 6358 5.394663 GCAACCACACTCTATACAGTCATCT 60.395 44.000 0.00 0.00 0.00 2.90
4124 6359 6.634805 CAACCACACTCTATACAGTCATCTT 58.365 40.000 0.00 0.00 0.00 2.40
4282 6621 9.856488 GCTAGTTCCAACGATTTATCATCTATA 57.144 33.333 0.00 0.00 0.00 1.31
4461 6800 8.506168 TTCTCTTTGAAGTGCTTCTTTAAGAA 57.494 30.769 7.22 7.22 40.14 2.52
4464 6803 9.741647 CTCTTTGAAGTGCTTCTTTAAGAAAAT 57.258 29.630 8.82 0.00 40.14 1.82
4465 6804 9.520204 TCTTTGAAGTGCTTCTTTAAGAAAATG 57.480 29.630 8.82 0.00 40.14 2.32
4466 6805 9.520204 CTTTGAAGTGCTTCTTTAAGAAAATGA 57.480 29.630 8.82 0.00 40.14 2.57
4991 7603 7.047891 AGAAAAGTCGTCATATGAAATGCCTA 58.952 34.615 7.07 0.00 0.00 3.93
5234 7847 1.398692 GCTCACTTGGGTTGTTTGGA 58.601 50.000 0.00 0.00 0.00 3.53
5988 8883 2.310538 CCCTTCTGTGAAACCTTGCTT 58.689 47.619 0.00 0.00 34.36 3.91
5991 8887 2.727123 TCTGTGAAACCTTGCTTCCA 57.273 45.000 0.00 0.00 34.36 3.53
5992 8888 3.228188 TCTGTGAAACCTTGCTTCCAT 57.772 42.857 0.00 0.00 34.36 3.41
6043 8940 3.315521 CGCTCGATGAGGCGTTCG 61.316 66.667 8.46 0.00 45.34 3.95
6069 8966 1.560923 CTCTCGAGTATGGTTTGCCG 58.439 55.000 13.13 0.00 37.67 5.69
6075 8972 0.538516 AGTATGGTTTGCCGCCAACA 60.539 50.000 9.35 0.00 39.72 3.33
6101 8998 1.618084 TGGGGGATGGGAATTGATCA 58.382 50.000 0.00 0.00 0.00 2.92
6254 9166 4.354208 TCAGGAGGTTCTTCTATTCCCT 57.646 45.455 0.00 0.00 0.00 4.20
6317 9229 3.194005 TCAACTGAAGAGGGACAACAC 57.806 47.619 0.00 0.00 0.00 3.32
6330 9242 5.876357 AGGGACAACACACAACAGTATTAT 58.124 37.500 0.00 0.00 0.00 1.28
6504 9429 1.739929 TTCGCCACCGTGTAGCATG 60.740 57.895 0.00 0.00 35.54 4.06
6601 9549 4.619227 ACCTTCACGGTGCCCACG 62.619 66.667 2.51 0.00 46.80 4.94
6624 9572 4.260784 GCCGCTCCTCACAAAACTTATATG 60.261 45.833 0.00 0.00 0.00 1.78
6663 10571 4.705746 TTGCTACGGGCGACAATT 57.294 50.000 0.00 0.00 45.43 2.32
6664 10572 2.935505 TTGCTACGGGCGACAATTT 58.064 47.368 0.00 0.00 45.43 1.82
6665 10573 0.519519 TTGCTACGGGCGACAATTTG 59.480 50.000 0.00 0.00 45.43 2.32
6666 10574 1.226295 GCTACGGGCGACAATTTGC 60.226 57.895 0.00 0.00 0.00 3.68
6667 10575 1.644786 GCTACGGGCGACAATTTGCT 61.645 55.000 0.00 0.00 31.91 3.91
6668 10576 1.647346 CTACGGGCGACAATTTGCTA 58.353 50.000 0.00 0.00 31.91 3.49
6671 10579 1.427819 GGGCGACAATTTGCTACGG 59.572 57.895 0.00 0.00 31.91 4.02
6672 10580 1.427819 GGCGACAATTTGCTACGGG 59.572 57.895 11.16 0.00 31.91 5.28
6673 10581 1.226295 GCGACAATTTGCTACGGGC 60.226 57.895 11.16 0.00 42.22 6.13
6674 10582 1.060308 CGACAATTTGCTACGGGCG 59.940 57.895 0.00 0.00 45.43 6.13
6675 10583 1.355796 CGACAATTTGCTACGGGCGA 61.356 55.000 0.00 0.00 45.43 5.54
6676 10584 0.096454 GACAATTTGCTACGGGCGAC 59.904 55.000 0.00 0.00 45.43 5.19
6678 10586 0.519519 CAATTTGCTACGGGCGACAA 59.480 50.000 0.00 0.00 45.43 3.18
6679 10587 1.132262 CAATTTGCTACGGGCGACAAT 59.868 47.619 0.00 0.00 45.43 2.71
6680 10588 0.732571 ATTTGCTACGGGCGACAATG 59.267 50.000 0.00 0.00 45.43 2.82
6681 10589 1.917782 TTTGCTACGGGCGACAATGC 61.918 55.000 0.00 0.00 45.43 3.56
6682 10590 2.817834 GCTACGGGCGACAATGCA 60.818 61.111 0.00 0.00 36.28 3.96
6683 10591 2.813179 GCTACGGGCGACAATGCAG 61.813 63.158 0.00 0.00 36.28 4.41
6684 10592 1.153647 CTACGGGCGACAATGCAGA 60.154 57.895 0.00 0.00 36.28 4.26
6685 10593 0.530650 CTACGGGCGACAATGCAGAT 60.531 55.000 0.00 0.00 36.28 2.90
6686 10594 0.747852 TACGGGCGACAATGCAGATA 59.252 50.000 0.00 0.00 36.28 1.98
6687 10595 0.107897 ACGGGCGACAATGCAGATAA 60.108 50.000 0.00 0.00 36.28 1.75
6688 10596 0.304705 CGGGCGACAATGCAGATAAC 59.695 55.000 0.00 0.00 36.28 1.89
6847 11650 3.494398 GCTCGGGATAGGAGTATGCAAAA 60.494 47.826 0.00 0.00 34.00 2.44
6980 11813 1.203928 CAACGACGATCCATCTCTGC 58.796 55.000 0.00 0.00 0.00 4.26
7002 11835 4.684757 GCTAATGGTTCTTCTTCCTCCCTC 60.685 50.000 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 2.087646 GGCTTGAGGAACTTGGTGATC 58.912 52.381 0.00 0.00 41.55 2.92
66 67 3.314635 GCATCTTCAGAACATAGGGCTTG 59.685 47.826 0.00 0.00 0.00 4.01
403 406 0.321298 TCAAGGACTAAACAGCCGGC 60.321 55.000 21.89 21.89 0.00 6.13
543 602 5.935789 CCAAAAGATGCAATTTCATTCCTGT 59.064 36.000 0.00 0.00 0.00 4.00
545 604 6.363167 TCCAAAAGATGCAATTTCATTCCT 57.637 33.333 0.00 0.00 0.00 3.36
607 666 4.326817 TTGGAATCCAACGACGTTAATACG 59.673 41.667 13.77 0.19 44.94 3.06
608 667 5.349543 ACTTGGAATCCAACGACGTTAATAC 59.650 40.000 13.77 7.65 38.75 1.89
609 668 5.481105 ACTTGGAATCCAACGACGTTAATA 58.519 37.500 13.77 2.10 38.75 0.98
610 669 4.320870 ACTTGGAATCCAACGACGTTAAT 58.679 39.130 13.77 7.40 38.75 1.40
611 670 3.731089 ACTTGGAATCCAACGACGTTAA 58.269 40.909 13.77 5.17 38.75 2.01
612 671 3.006110 AGACTTGGAATCCAACGACGTTA 59.994 43.478 13.77 0.00 38.75 3.18
613 672 2.140717 GACTTGGAATCCAACGACGTT 58.859 47.619 11.23 7.57 38.75 3.99
618 677 3.433615 GTCTCAAGACTTGGAATCCAACG 59.566 47.826 11.23 9.90 37.97 4.10
694 753 3.194968 ACTCCTTATGTTACTCCGTGGTG 59.805 47.826 0.00 0.00 0.00 4.17
703 762 6.210287 AGCTGACTGTACTCCTTATGTTAC 57.790 41.667 0.00 0.00 0.00 2.50
747 806 6.093082 GCTGCTTTTCCCTTCTTTAATACGTA 59.907 38.462 0.00 0.00 0.00 3.57
748 807 5.106277 GCTGCTTTTCCCTTCTTTAATACGT 60.106 40.000 0.00 0.00 0.00 3.57
749 808 5.332707 GCTGCTTTTCCCTTCTTTAATACG 58.667 41.667 0.00 0.00 0.00 3.06
750 809 5.332707 CGCTGCTTTTCCCTTCTTTAATAC 58.667 41.667 0.00 0.00 0.00 1.89
751 810 4.398044 CCGCTGCTTTTCCCTTCTTTAATA 59.602 41.667 0.00 0.00 0.00 0.98
791 850 7.826690 TGCACCATTAGATAAAAGGAAGTTTC 58.173 34.615 0.00 0.00 0.00 2.78
804 863 3.118149 TGTGAGCTGATGCACCATTAGAT 60.118 43.478 0.00 0.00 42.74 1.98
881 940 4.891727 CCGCCGGTGATCCTTCCG 62.892 72.222 18.79 12.18 45.42 4.30
894 953 1.327764 GATGAACTCGATCAAACCGCC 59.672 52.381 0.00 0.00 32.06 6.13
904 963 4.339530 CCTGTAGGATGAAGATGAACTCGA 59.660 45.833 0.00 0.00 37.39 4.04
975 1034 0.947244 AAAGCAGAGCAAGAACACCG 59.053 50.000 0.00 0.00 0.00 4.94
998 1057 3.495377 CACCAAATGACAAACAAGCATGG 59.505 43.478 0.00 0.00 0.00 3.66
1010 1069 2.288334 TGCTGCATCAACACCAAATGAC 60.288 45.455 0.00 0.00 0.00 3.06
1053 1112 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1054 1113 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1055 1114 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1056 1115 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1057 1116 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
1058 1117 4.280677 CCTCTCTCTCTCTCTCTCTCTCTC 59.719 54.167 0.00 0.00 0.00 3.20
1059 1118 4.222336 CCTCTCTCTCTCTCTCTCTCTCT 58.778 52.174 0.00 0.00 0.00 3.10
1060 1119 3.323403 CCCTCTCTCTCTCTCTCTCTCTC 59.677 56.522 0.00 0.00 0.00 3.20
1061 1120 3.312890 CCCTCTCTCTCTCTCTCTCTCT 58.687 54.545 0.00 0.00 0.00 3.10
1062 1121 2.370189 CCCCTCTCTCTCTCTCTCTCTC 59.630 59.091 0.00 0.00 0.00 3.20
1063 1122 2.022035 TCCCCTCTCTCTCTCTCTCTCT 60.022 54.545 0.00 0.00 0.00 3.10
1064 1123 2.370189 CTCCCCTCTCTCTCTCTCTCTC 59.630 59.091 0.00 0.00 0.00 3.20
1065 1124 2.412591 CTCCCCTCTCTCTCTCTCTCT 58.587 57.143 0.00 0.00 0.00 3.10
1066 1125 1.421646 CCTCCCCTCTCTCTCTCTCTC 59.578 61.905 0.00 0.00 0.00 3.20
1067 1126 1.522900 CCTCCCCTCTCTCTCTCTCT 58.477 60.000 0.00 0.00 0.00 3.10
1068 1127 0.178990 GCCTCCCCTCTCTCTCTCTC 60.179 65.000 0.00 0.00 0.00 3.20
1069 1128 0.923729 TGCCTCCCCTCTCTCTCTCT 60.924 60.000 0.00 0.00 0.00 3.10
1070 1129 0.468029 CTGCCTCCCCTCTCTCTCTC 60.468 65.000 0.00 0.00 0.00 3.20
1071 1130 0.923729 TCTGCCTCCCCTCTCTCTCT 60.924 60.000 0.00 0.00 0.00 3.10
1072 1131 0.188342 ATCTGCCTCCCCTCTCTCTC 59.812 60.000 0.00 0.00 0.00 3.20
1073 1132 0.105555 CATCTGCCTCCCCTCTCTCT 60.106 60.000 0.00 0.00 0.00 3.10
1074 1133 1.120795 CCATCTGCCTCCCCTCTCTC 61.121 65.000 0.00 0.00 0.00 3.20
1075 1134 1.074623 CCATCTGCCTCCCCTCTCT 60.075 63.158 0.00 0.00 0.00 3.10
1076 1135 1.074926 TCCATCTGCCTCCCCTCTC 60.075 63.158 0.00 0.00 0.00 3.20
1408 1532 1.801242 TTGGAGAACTGACTGTGGGA 58.199 50.000 0.00 0.00 0.00 4.37
1435 1559 9.383519 TCTTACTGCTGATAATTTTCTTACTGG 57.616 33.333 0.00 0.00 0.00 4.00
1457 1581 4.330250 AGCAGAATCAGCAAAGCTTCTTA 58.670 39.130 0.00 0.00 36.40 2.10
1574 1702 3.007723 CCACATAGTCTGGGATGGAGATG 59.992 52.174 0.00 0.00 0.00 2.90
2288 2564 9.498307 CCATAATATAAGAACGTTTTTGACACC 57.502 33.333 13.87 0.00 0.00 4.16
3100 3598 1.823295 CTAAGCTCGCCCCTGCTAA 59.177 57.895 0.00 0.00 38.75 3.09
3610 5809 1.283905 CCCCCGAAAAGGAAGGTACAT 59.716 52.381 0.00 0.00 45.00 2.29
3852 6053 6.044754 TGCTCTATTAGTTTCCATGGATCCAT 59.955 38.462 22.15 22.15 37.08 3.41
3854 6055 5.869579 TGCTCTATTAGTTTCCATGGATCC 58.130 41.667 17.06 4.20 0.00 3.36
3856 6057 5.709164 GCATGCTCTATTAGTTTCCATGGAT 59.291 40.000 17.06 2.96 31.73 3.41
3857 6058 5.065914 GCATGCTCTATTAGTTTCCATGGA 58.934 41.667 11.44 11.44 31.73 3.41
3858 6059 5.068636 AGCATGCTCTATTAGTTTCCATGG 58.931 41.667 16.30 4.97 31.73 3.66
3862 6063 5.590259 TGGAAAGCATGCTCTATTAGTTTCC 59.410 40.000 26.14 26.14 41.32 3.13
3863 6064 6.683974 TGGAAAGCATGCTCTATTAGTTTC 57.316 37.500 22.93 17.26 0.00 2.78
3864 6065 6.886459 TCTTGGAAAGCATGCTCTATTAGTTT 59.114 34.615 22.93 8.84 45.70 2.66
3866 6067 5.994250 TCTTGGAAAGCATGCTCTATTAGT 58.006 37.500 22.93 0.00 45.70 2.24
3870 6071 7.460071 AGAATATCTTGGAAAGCATGCTCTAT 58.540 34.615 22.93 10.65 45.70 1.98
3872 6073 5.692928 AGAATATCTTGGAAAGCATGCTCT 58.307 37.500 22.93 7.08 45.70 4.09
3873 6074 6.072783 GGTAGAATATCTTGGAAAGCATGCTC 60.073 42.308 22.93 9.77 45.70 4.26
3874 6075 5.767168 GGTAGAATATCTTGGAAAGCATGCT 59.233 40.000 16.30 16.30 45.70 3.79
3875 6076 5.767168 AGGTAGAATATCTTGGAAAGCATGC 59.233 40.000 10.51 10.51 45.70 4.06
3882 6083 9.837681 TGGATGTATAGGTAGAATATCTTGGAA 57.162 33.333 0.00 0.00 31.83 3.53
3917 6118 8.621286 CACCTTATATTGAAAGGGTGTATTCAC 58.379 37.037 7.51 0.00 46.56 3.18
3949 6156 7.094508 TGTTGTCTGTAAAATGACACAACAT 57.905 32.000 10.56 0.00 39.47 2.71
3954 6161 5.909610 GCTCTTGTTGTCTGTAAAATGACAC 59.090 40.000 0.00 0.00 42.06 3.67
3958 6165 6.418819 CCTTTGCTCTTGTTGTCTGTAAAATG 59.581 38.462 0.00 0.00 0.00 2.32
3962 6171 4.523083 ACCTTTGCTCTTGTTGTCTGTAA 58.477 39.130 0.00 0.00 0.00 2.41
3982 6191 1.299976 CCAACAGTCAGCCCCTACC 59.700 63.158 0.00 0.00 0.00 3.18
3984 6193 0.770557 AACCCAACAGTCAGCCCCTA 60.771 55.000 0.00 0.00 0.00 3.53
3985 6194 2.069165 GAACCCAACAGTCAGCCCCT 62.069 60.000 0.00 0.00 0.00 4.79
3988 6197 0.890996 CTGGAACCCAACAGTCAGCC 60.891 60.000 0.00 0.00 30.80 4.85
3994 6203 2.576191 TCCTATTCCTGGAACCCAACAG 59.424 50.000 12.11 2.68 30.80 3.16
4039 6248 2.289506 GGTGACACTAACCTGGTCCTTC 60.290 54.545 0.00 0.00 34.66 3.46
4065 6274 2.582172 TGGTGGTCAAGGAATCATGGAT 59.418 45.455 0.00 0.00 0.00 3.41
4066 6275 1.991813 TGGTGGTCAAGGAATCATGGA 59.008 47.619 0.00 0.00 0.00 3.41
4067 6276 2.512692 TGGTGGTCAAGGAATCATGG 57.487 50.000 0.00 0.00 0.00 3.66
4068 6277 4.281688 AGTTTTGGTGGTCAAGGAATCATG 59.718 41.667 0.00 0.00 36.62 3.07
4069 6278 4.482990 AGTTTTGGTGGTCAAGGAATCAT 58.517 39.130 0.00 0.00 36.62 2.45
4070 6279 3.888930 GAGTTTTGGTGGTCAAGGAATCA 59.111 43.478 0.00 0.00 36.62 2.57
4071 6280 3.888930 TGAGTTTTGGTGGTCAAGGAATC 59.111 43.478 0.00 0.00 36.62 2.52
4072 6281 3.891366 CTGAGTTTTGGTGGTCAAGGAAT 59.109 43.478 0.00 0.00 36.62 3.01
4073 6282 3.287222 CTGAGTTTTGGTGGTCAAGGAA 58.713 45.455 0.00 0.00 36.62 3.36
4074 6283 2.241176 ACTGAGTTTTGGTGGTCAAGGA 59.759 45.455 0.00 0.00 36.62 3.36
4097 6306 4.039852 TGACTGTATAGAGTGTGGTTGCAA 59.960 41.667 7.36 0.00 0.00 4.08
4098 6307 3.576550 TGACTGTATAGAGTGTGGTTGCA 59.423 43.478 7.36 0.00 0.00 4.08
4100 6309 6.214191 AGATGACTGTATAGAGTGTGGTTG 57.786 41.667 7.36 0.00 0.00 3.77
4101 6310 6.859112 AAGATGACTGTATAGAGTGTGGTT 57.141 37.500 7.36 0.00 0.00 3.67
4102 6311 6.211584 ACAAAGATGACTGTATAGAGTGTGGT 59.788 38.462 7.36 0.00 0.00 4.16
4123 6358 7.014711 TGGGCACTATATCAAGTTTTCAACAAA 59.985 33.333 0.00 0.00 0.00 2.83
4124 6359 6.491745 TGGGCACTATATCAAGTTTTCAACAA 59.508 34.615 0.00 0.00 0.00 2.83
4282 6621 1.202382 GCGGTAGCGAGTTTCCTGTAT 60.202 52.381 20.16 0.00 0.00 2.29
4508 6849 0.895530 TCTCGACCTGGACAATGACC 59.104 55.000 0.00 0.00 0.00 4.02
4509 6850 1.546476 AGTCTCGACCTGGACAATGAC 59.454 52.381 0.00 3.09 35.18 3.06
4758 7099 4.096681 TCCATCAGGTCATTGTAGTCTGT 58.903 43.478 0.00 0.00 35.89 3.41
5662 8535 0.605589 GTCCTGACTGAGTCCTGTGG 59.394 60.000 10.52 7.33 0.00 4.17
5988 8883 1.146930 GATTGCCGGCTCTGATGGA 59.853 57.895 29.70 0.07 0.00 3.41
6043 8940 0.249238 CCATACTCGAGAGCAGTGCC 60.249 60.000 21.68 3.25 0.00 5.01
6101 8998 1.284657 CGTCAGAAGCATTGCGATCT 58.715 50.000 12.43 12.43 31.83 2.75
6254 9166 1.483415 GGTAGTTGGGGCTTCATCGTA 59.517 52.381 0.00 0.00 0.00 3.43
6504 9429 2.726241 GCGTTCAAAGAAAGGCATTGAC 59.274 45.455 0.00 0.00 39.27 3.18
6601 9549 1.519408 TAAGTTTTGTGAGGAGCGGC 58.481 50.000 0.00 0.00 0.00 6.53
6603 9551 4.332543 TGCATATAAGTTTTGTGAGGAGCG 59.667 41.667 0.00 0.00 0.00 5.03
6663 10571 2.395360 GCATTGTCGCCCGTAGCAA 61.395 57.895 0.00 0.00 44.04 3.91
6664 10572 2.817834 GCATTGTCGCCCGTAGCA 60.818 61.111 0.00 0.00 44.04 3.49
6665 10573 2.813179 CTGCATTGTCGCCCGTAGC 61.813 63.158 0.00 0.00 38.52 3.58
6666 10574 0.530650 ATCTGCATTGTCGCCCGTAG 60.531 55.000 0.00 0.00 0.00 3.51
6667 10575 0.747852 TATCTGCATTGTCGCCCGTA 59.252 50.000 0.00 0.00 0.00 4.02
6668 10576 0.107897 TTATCTGCATTGTCGCCCGT 60.108 50.000 0.00 0.00 0.00 5.28
6671 10579 1.331756 CTGGTTATCTGCATTGTCGCC 59.668 52.381 0.00 0.00 0.00 5.54
6672 10580 1.268234 GCTGGTTATCTGCATTGTCGC 60.268 52.381 0.00 0.00 39.69 5.19
6673 10581 2.009051 TGCTGGTTATCTGCATTGTCG 58.991 47.619 0.00 0.00 43.78 4.35
6680 10588 6.931281 TGAGTATAAGAATGCTGGTTATCTGC 59.069 38.462 0.00 0.00 40.23 4.26
6681 10589 7.928167 TGTGAGTATAAGAATGCTGGTTATCTG 59.072 37.037 0.00 0.00 0.00 2.90
6682 10590 8.023021 TGTGAGTATAAGAATGCTGGTTATCT 57.977 34.615 0.00 0.00 0.00 1.98
6683 10591 8.662781 TTGTGAGTATAAGAATGCTGGTTATC 57.337 34.615 0.00 0.00 0.00 1.75
6684 10592 9.060347 CATTGTGAGTATAAGAATGCTGGTTAT 57.940 33.333 0.00 0.00 0.00 1.89
6685 10593 8.046708 ACATTGTGAGTATAAGAATGCTGGTTA 58.953 33.333 0.00 0.00 0.00 2.85
6686 10594 6.886459 ACATTGTGAGTATAAGAATGCTGGTT 59.114 34.615 0.00 0.00 0.00 3.67
6687 10595 6.418101 ACATTGTGAGTATAAGAATGCTGGT 58.582 36.000 0.00 0.00 0.00 4.00
6688 10596 6.932356 ACATTGTGAGTATAAGAATGCTGG 57.068 37.500 0.00 0.00 0.00 4.85
6742 11243 2.504585 TGAGGAAGAATGCAGCTCTCAT 59.495 45.455 1.78 0.00 0.00 2.90
6825 11628 1.257743 TGCATACTCCTATCCCGAGC 58.742 55.000 0.00 0.00 0.00 5.03
6847 11650 2.352030 CGCAACATCCTGCAACATTTCT 60.352 45.455 0.00 0.00 42.77 2.52
6980 11813 4.719273 AGAGGGAGGAAGAAGAACCATTAG 59.281 45.833 0.00 0.00 0.00 1.73
7018 11852 0.600255 GCGGGTCAATAGGATGGACG 60.600 60.000 0.00 0.00 32.39 4.79


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

AutoCloner maintained by Alex Coulton.