Multiple sequence alignment - TraesCS3B01G553700

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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 TraesCS3B01G553700 chr3B 100.000 2572 0 0 1 2572 788056505 788053934 0.000000e+00 4750.0
1 TraesCS3B01G553700 chr3B 85.693 671 71 9 1 659 787993210 787993867 0.000000e+00 684.0
2 TraesCS3B01G553700 chr3B 87.831 567 49 13 1074 1625 787472829 787473390 0.000000e+00 647.0
3 TraesCS3B01G553700 chr3B 82.887 485 67 10 1074 1546 788073284 788072804 3.060000e-114 422.0
4 TraesCS3B01G553700 chr3B 89.790 333 18 9 692 1023 787995142 787995459 1.840000e-111 412.0
5 TraesCS3B01G553700 chr3B 80.966 352 51 10 1207 1546 788067729 788067382 5.460000e-67 265.0
6 TraesCS3B01G553700 chr3B 94.118 170 9 1 2403 2572 733405134 733405302 9.130000e-65 257.0
7 TraesCS3B01G553700 chr3B 81.500 200 14 8 817 997 788022606 788022411 2.670000e-30 143.0
8 TraesCS3B01G553700 chr3B 85.470 117 4 5 958 1071 787472400 787472506 2.710000e-20 110.0
9 TraesCS3B01G553700 chr1D 97.228 505 13 1 1902 2405 410239806 410240310 0.000000e+00 854.0
10 TraesCS3B01G553700 chr1D 97.036 506 13 2 1902 2405 202541849 202542354 0.000000e+00 850.0
11 TraesCS3B01G553700 chr1D 96.047 506 18 2 1902 2405 129426152 129425647 0.000000e+00 822.0
12 TraesCS3B01G553700 chr1D 82.278 79 10 3 160 236 479130258 479130334 5.940000e-07 65.8
13 TraesCS3B01G553700 chr4D 97.030 505 14 1 1902 2405 11363641 11363137 0.000000e+00 848.0
14 TraesCS3B01G553700 chr2B 96.443 506 16 2 1902 2405 128345680 128345175 0.000000e+00 833.0
15 TraesCS3B01G553700 chr2B 97.059 170 5 0 2403 2572 769101088 769101257 1.160000e-73 287.0
16 TraesCS3B01G553700 chr4B 96.245 506 17 2 1902 2405 566231353 566230848 0.000000e+00 828.0
17 TraesCS3B01G553700 chr4B 96.245 506 16 3 1902 2405 101931891 101932395 0.000000e+00 826.0
18 TraesCS3B01G553700 chr2D 96.245 506 17 2 1902 2405 506521291 506521796 0.000000e+00 828.0
19 TraesCS3B01G553700 chrUn 96.208 501 17 2 1898 2396 270055191 270054691 0.000000e+00 819.0
20 TraesCS3B01G553700 chr3D 87.970 665 44 13 1074 1702 589417465 589416801 0.000000e+00 752.0
21 TraesCS3B01G553700 chr3D 83.221 447 44 17 278 705 589473432 589472998 5.190000e-102 381.0
22 TraesCS3B01G553700 chr3D 77.661 667 95 35 1247 1900 589472420 589471795 8.750000e-95 357.0
23 TraesCS3B01G553700 chr3D 90.987 233 18 3 1 233 589473660 589473431 6.910000e-81 311.0
24 TraesCS3B01G553700 chr3D 79.303 459 64 19 1074 1530 589432504 589432075 2.500000e-75 292.0
25 TraesCS3B01G553700 chr3D 87.190 242 26 4 1080 1320 589492889 589492652 1.170000e-68 270.0
26 TraesCS3B01G553700 chr3D 91.257 183 16 0 1074 1256 589572568 589572386 1.530000e-62 250.0
27 TraesCS3B01G553700 chr3D 82.095 296 36 8 1608 1900 589422951 589422670 1.190000e-58 237.0
28 TraesCS3B01G553700 chr3D 82.353 170 20 6 1381 1543 589572286 589572120 3.450000e-29 139.0
29 TraesCS3B01G553700 chr3D 81.935 155 25 2 1391 1543 589504624 589504777 7.470000e-26 128.0
30 TraesCS3B01G553700 chr3D 85.294 102 10 5 1784 1882 589569372 589569273 1.630000e-17 100.0
31 TraesCS3B01G553700 chr3A 85.970 727 69 14 1 709 719357215 719356504 0.000000e+00 747.0
32 TraesCS3B01G553700 chr3A 85.688 538 64 6 134 659 719351861 719351325 2.890000e-154 555.0
33 TraesCS3B01G553700 chr3A 79.283 642 64 44 480 1074 719338008 719337389 4.010000e-103 385.0
34 TraesCS3B01G553700 chr3A 81.098 492 72 16 1074 1546 719360519 719360030 8.690000e-100 374.0
35 TraesCS3B01G553700 chr3A 89.299 271 24 2 1074 1341 719337035 719336767 4.100000e-88 335.0
36 TraesCS3B01G553700 chr3A 79.792 480 63 24 1074 1543 719353793 719353338 4.130000e-83 318.0
37 TraesCS3B01G553700 chr3A 79.778 361 50 13 1547 1899 719335147 719334802 9.200000e-60 241.0
38 TraesCS3B01G553700 chr3A 84.211 171 19 3 773 935 719356401 719356231 2.650000e-35 159.0
39 TraesCS3B01G553700 chr3A 81.818 176 26 5 1729 1900 719352483 719352310 2.670000e-30 143.0
40 TraesCS3B01G553700 chr3A 96.104 77 3 0 692 768 719350976 719350900 2.690000e-25 126.0
41 TraesCS3B01G553700 chr3A 89.333 75 5 2 6 80 719351931 719351860 9.800000e-15 91.6
42 TraesCS3B01G553700 chr7B 96.471 170 6 0 2403 2572 109959166 109959335 5.420000e-72 281.0
43 TraesCS3B01G553700 chr7B 96.471 170 6 0 2403 2572 682912449 682912618 5.420000e-72 281.0
44 TraesCS3B01G553700 chr5B 96.471 170 6 0 2403 2572 586322074 586322243 5.420000e-72 281.0
45 TraesCS3B01G553700 chr5B 95.294 170 7 1 2403 2572 678979365 678979533 4.220000e-68 268.0
46 TraesCS3B01G553700 chr5B 94.118 170 9 1 2403 2572 6687317 6687485 9.130000e-65 257.0
47 TraesCS3B01G553700 chr1B 95.322 171 7 1 2403 2572 20577706 20577876 1.170000e-68 270.0
48 TraesCS3B01G553700 chr1B 94.118 170 10 0 2403 2572 681935004 681935173 2.540000e-65 259.0
49 TraesCS3B01G553700 chr1A 76.016 246 38 10 171 402 58066579 58066817 9.730000e-20 108.0
50 TraesCS3B01G553700 chr1A 78.761 113 24 0 1684 1796 514693614 514693726 2.740000e-10 76.8
51 TraesCS3B01G553700 chr6D 78.102 137 24 5 1691 1824 396523053 396523186 5.900000e-12 82.4


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 TraesCS3B01G553700 chr3B 788053934 788056505 2571 True 4750.000000 4750 100.000000 1 2572 1 chr3B.!!$R2 2571
1 TraesCS3B01G553700 chr3B 787993210 787995459 2249 False 548.000000 684 87.741500 1 1023 2 chr3B.!!$F3 1022
2 TraesCS3B01G553700 chr3B 787472400 787473390 990 False 378.500000 647 86.650500 958 1625 2 chr3B.!!$F2 667
3 TraesCS3B01G553700 chr1D 410239806 410240310 504 False 854.000000 854 97.228000 1902 2405 1 chr1D.!!$F2 503
4 TraesCS3B01G553700 chr1D 202541849 202542354 505 False 850.000000 850 97.036000 1902 2405 1 chr1D.!!$F1 503
5 TraesCS3B01G553700 chr1D 129425647 129426152 505 True 822.000000 822 96.047000 1902 2405 1 chr1D.!!$R1 503
6 TraesCS3B01G553700 chr4D 11363137 11363641 504 True 848.000000 848 97.030000 1902 2405 1 chr4D.!!$R1 503
7 TraesCS3B01G553700 chr2B 128345175 128345680 505 True 833.000000 833 96.443000 1902 2405 1 chr2B.!!$R1 503
8 TraesCS3B01G553700 chr4B 566230848 566231353 505 True 828.000000 828 96.245000 1902 2405 1 chr4B.!!$R1 503
9 TraesCS3B01G553700 chr4B 101931891 101932395 504 False 826.000000 826 96.245000 1902 2405 1 chr4B.!!$F1 503
10 TraesCS3B01G553700 chr2D 506521291 506521796 505 False 828.000000 828 96.245000 1902 2405 1 chr2D.!!$F1 503
11 TraesCS3B01G553700 chrUn 270054691 270055191 500 True 819.000000 819 96.208000 1898 2396 1 chrUn.!!$R1 498
12 TraesCS3B01G553700 chr3D 589416801 589417465 664 True 752.000000 752 87.970000 1074 1702 1 chr3D.!!$R1 628
13 TraesCS3B01G553700 chr3D 589471795 589473660 1865 True 349.666667 381 83.956333 1 1900 3 chr3D.!!$R5 1899
14 TraesCS3B01G553700 chr3A 719334802 719338008 3206 True 320.333333 385 82.786667 480 1899 3 chr3A.!!$R1 1419
15 TraesCS3B01G553700 chr3A 719350900 719360519 9619 True 314.200000 747 85.501750 1 1900 8 chr3A.!!$R2 1899

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
471 3795 0.10852 TGGCTAATCACGTTCGGACC 60.109 55.0 0.0 0.0 0.0 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2432 11920 0.038343 GTGCCACGAACCGGTACTAA 60.038 55.0 8.0 0.0 36.33 2.24 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
80 3385 3.007182 CCAGCATCAACACCCTTTGATTT 59.993 43.478 0.00 0.00 42.45 2.17
87 3392 4.037446 TCAACACCCTTTGATTTTTCCTCG 59.963 41.667 0.00 0.00 30.29 4.63
104 3409 6.540438 TTCCTCGTTTATCTACAGAATGGT 57.460 37.500 0.00 0.00 43.62 3.55
125 3430 5.163269 TGGTCCAAGAAGATATCCAGTGATG 60.163 44.000 0.00 0.00 32.18 3.07
129 3434 8.807118 GTCCAAGAAGATATCCAGTGATGTATA 58.193 37.037 0.00 0.00 32.18 1.47
132 3437 9.149225 CAAGAAGATATCCAGTGATGTATAAGC 57.851 37.037 0.00 0.00 32.18 3.09
199 3504 1.077716 GAGCCCGGGTGTAGCATTT 60.078 57.895 24.63 0.00 0.00 2.32
201 3506 2.414785 GCCCGGGTGTAGCATTTGG 61.415 63.158 24.63 0.00 0.00 3.28
203 3508 1.301623 CCGGGTGTAGCATTTGGGA 59.698 57.895 0.00 0.00 0.00 4.37
311 3634 0.700269 AGGATGGATGCATGGGGTCT 60.700 55.000 2.46 0.00 0.00 3.85
332 3655 1.257750 GGATGAGTTTTGGGTGGCCC 61.258 60.000 0.00 0.00 45.71 5.80
346 3669 4.280019 GCCCGGGGTGTTGGAGTT 62.280 66.667 25.28 0.00 0.00 3.01
362 3685 2.275318 GAGTTCTGCATGGCTACTGTC 58.725 52.381 0.00 0.00 0.00 3.51
385 3709 1.379044 CTTCCGCAAAGCCTCCCAT 60.379 57.895 0.00 0.00 0.00 4.00
419 3743 2.485122 CAGAAAATGCGTCCGGCC 59.515 61.111 0.00 0.00 42.61 6.13
444 3768 2.719979 CGGACCGATACAGACCCG 59.280 66.667 8.64 0.00 0.00 5.28
459 3783 2.026262 AGACCCGTGTTCAATGGCTAAT 60.026 45.455 0.00 0.00 32.98 1.73
470 3794 1.935933 ATGGCTAATCACGTTCGGAC 58.064 50.000 0.00 0.00 0.00 4.79
471 3795 0.108520 TGGCTAATCACGTTCGGACC 60.109 55.000 0.00 0.00 0.00 4.46
472 3796 1.143969 GGCTAATCACGTTCGGACCG 61.144 60.000 7.84 7.84 0.00 4.79
473 3797 0.457337 GCTAATCACGTTCGGACCGT 60.457 55.000 14.79 0.00 39.52 4.83
496 3820 0.605319 GGCTGAACGATTGTGGGTGA 60.605 55.000 0.00 0.00 0.00 4.02
502 3826 5.621197 TGAACGATTGTGGGTGATTTAAG 57.379 39.130 0.00 0.00 0.00 1.85
503 3827 5.309638 TGAACGATTGTGGGTGATTTAAGA 58.690 37.500 0.00 0.00 0.00 2.10
526 3850 0.394352 CGCTTTGGACCTGGCCTAAT 60.394 55.000 3.32 0.00 0.00 1.73
552 3881 5.041191 ACCAAGCCTATCTCGAAAATCAT 57.959 39.130 0.00 0.00 0.00 2.45
582 3911 1.305201 TGAACGGAGGCAAGTGAAAC 58.695 50.000 0.00 0.00 0.00 2.78
615 3944 1.068333 CATCAACGCTCCCAACCAAAG 60.068 52.381 0.00 0.00 0.00 2.77
693 5238 2.017049 GAATTTGCATACGAGCCCACT 58.983 47.619 0.00 0.00 0.00 4.00
694 5239 1.382522 ATTTGCATACGAGCCCACTG 58.617 50.000 0.00 0.00 0.00 3.66
769 5361 1.537202 GCAACCAACGCTCATCTTTCT 59.463 47.619 0.00 0.00 0.00 2.52
775 5414 1.347564 CGCTCATCTTTCTGCGCAG 59.652 57.895 31.53 31.53 41.85 5.18
789 5428 4.543084 GCAGCAGATTTCGCCGCC 62.543 66.667 0.00 0.00 0.00 6.13
812 5451 2.255252 CCCCGCACGCTTTTCTTG 59.745 61.111 0.00 0.00 0.00 3.02
956 7603 2.343163 GACCACGGCATCTCTCCTCG 62.343 65.000 0.00 0.00 0.00 4.63
1071 7726 3.743584 GCTTCATAGCAAGCAGAGGATCA 60.744 47.826 1.85 0.00 46.93 2.92
1078 8087 1.065636 CAAGCAGAGGATCAAGAGGCA 60.066 52.381 0.00 0.00 37.82 4.75
1084 8093 1.139853 GAGGATCAAGAGGCATTCGGT 59.860 52.381 0.00 0.00 33.17 4.69
1120 8129 2.191375 CAGGGATGCATCACGCCT 59.809 61.111 27.25 20.77 41.33 5.52
1228 8237 3.782244 GACGGCGTGCTCAGCTTG 61.782 66.667 21.19 0.00 34.52 4.01
1240 8249 2.483876 CTCAGCTTGGACGAGTTCAAA 58.516 47.619 0.00 0.00 0.00 2.69
1256 8271 6.292757 CGAGTTCAAAATCATGATGAGCTAGG 60.293 42.308 9.46 3.87 35.22 3.02
1260 8275 5.104402 TCAAAATCATGATGAGCTAGGGACA 60.104 40.000 9.46 0.00 0.00 4.02
1262 8277 4.554960 ATCATGATGAGCTAGGGACATG 57.445 45.455 7.59 0.00 37.18 3.21
1273 8288 4.101448 GGACATGGCGCCTGGACT 62.101 66.667 29.70 7.55 0.00 3.85
1313 8328 4.672587 TTCGTCTTGCATATAGCTCCTT 57.327 40.909 0.00 0.00 45.94 3.36
1321 8336 3.243535 TGCATATAGCTCCTTCACTCGTG 60.244 47.826 0.00 0.00 45.94 4.35
1322 8337 3.243569 GCATATAGCTCCTTCACTCGTGT 60.244 47.826 0.00 0.00 41.15 4.49
1323 8338 4.737946 GCATATAGCTCCTTCACTCGTGTT 60.738 45.833 0.00 0.00 41.15 3.32
1324 8339 3.512033 ATAGCTCCTTCACTCGTGTTC 57.488 47.619 0.00 0.00 0.00 3.18
1325 8340 0.039074 AGCTCCTTCACTCGTGTTCG 60.039 55.000 0.00 0.00 38.55 3.95
1336 8351 1.253545 CTCGTGTTCGTTCGTTCGTTT 59.746 47.619 2.67 0.00 38.33 3.60
1341 8356 4.603608 CGTGTTCGTTCGTTCGTTTATTCA 60.604 41.667 2.67 0.00 0.00 2.57
1481 8529 4.581309 TTCTTGAGGAATTCAGATGCCT 57.419 40.909 7.93 0.00 44.69 4.75
1561 10053 1.920325 CAGGGAGGGCTCAAGGACA 60.920 63.158 0.00 0.00 0.00 4.02
1579 10099 7.818930 TCAAGGACATGCTTTTTCATTAAATCC 59.181 33.333 0.00 0.00 0.00 3.01
1688 10227 6.602278 GTCCCTGCTAAATTATTTAGGGACT 58.398 40.000 30.93 0.47 45.52 3.85
1726 10265 7.877612 AGTTGCCTGAAAATTTATTTTGGGTAG 59.122 33.333 5.24 0.24 39.86 3.18
1741 10282 4.463050 TGGGTAGGTCAATTTTCAAGGT 57.537 40.909 0.00 0.00 0.00 3.50
1744 10286 4.070009 GGTAGGTCAATTTTCAAGGTCGT 58.930 43.478 0.00 0.00 0.00 4.34
1765 10307 4.440103 CGTTAGATTAAGATCCAACCGTCG 59.560 45.833 0.00 0.00 32.41 5.12
1766 10308 5.346522 GTTAGATTAAGATCCAACCGTCGT 58.653 41.667 0.00 0.00 30.59 4.34
1773 10315 3.064931 AGATCCAACCGTCGTTCTTTTC 58.935 45.455 0.00 0.00 0.00 2.29
1776 10318 1.191647 CCAACCGTCGTTCTTTTCTCG 59.808 52.381 0.00 0.00 0.00 4.04
1798 10340 5.303589 TCGTCTTCCTCCAACTTTCTTCTTA 59.696 40.000 0.00 0.00 0.00 2.10
1800 10342 5.410132 GTCTTCCTCCAACTTTCTTCTTAGC 59.590 44.000 0.00 0.00 0.00 3.09
1826 10369 2.438021 CCGTTCCTCCTCCCATAAATCA 59.562 50.000 0.00 0.00 0.00 2.57
1828 10371 4.523083 CGTTCCTCCTCCCATAAATCAAA 58.477 43.478 0.00 0.00 0.00 2.69
1829 10372 4.576463 CGTTCCTCCTCCCATAAATCAAAG 59.424 45.833 0.00 0.00 0.00 2.77
1896 10441 4.961435 GAGCCTTCCTCTTTGATTTCTG 57.039 45.455 0.00 0.00 37.60 3.02
1900 10445 5.707764 AGCCTTCCTCTTTGATTTCTGTTAC 59.292 40.000 0.00 0.00 0.00 2.50
2197 10813 0.745845 GTCGCAGCCATCTTCCACAT 60.746 55.000 0.00 0.00 0.00 3.21
2209 10825 2.069273 CTTCCACATGTCCGTCTTCAC 58.931 52.381 0.00 0.00 0.00 3.18
2407 11895 4.662468 CAGCATGTACTGATACAGACCT 57.338 45.455 5.76 0.00 44.51 3.85
2408 11896 5.016051 CAGCATGTACTGATACAGACCTT 57.984 43.478 5.76 0.00 44.51 3.50
2409 11897 5.423015 CAGCATGTACTGATACAGACCTTT 58.577 41.667 5.76 0.00 44.51 3.11
2410 11898 6.573434 CAGCATGTACTGATACAGACCTTTA 58.427 40.000 5.76 0.00 44.51 1.85
2411 11899 7.041721 CAGCATGTACTGATACAGACCTTTAA 58.958 38.462 5.76 0.00 44.51 1.52
2412 11900 7.712639 CAGCATGTACTGATACAGACCTTTAAT 59.287 37.037 5.76 0.00 44.51 1.40
2413 11901 8.924303 AGCATGTACTGATACAGACCTTTAATA 58.076 33.333 5.76 0.00 44.51 0.98
2414 11902 9.712305 GCATGTACTGATACAGACCTTTAATAT 57.288 33.333 5.76 0.00 44.51 1.28
2417 11905 8.573885 TGTACTGATACAGACCTTTAATATCGG 58.426 37.037 5.76 0.00 36.34 4.18
2418 11906 7.598759 ACTGATACAGACCTTTAATATCGGT 57.401 36.000 5.76 0.00 37.15 4.69
2419 11907 8.019656 ACTGATACAGACCTTTAATATCGGTT 57.980 34.615 5.76 0.00 38.23 4.44
2420 11908 8.142551 ACTGATACAGACCTTTAATATCGGTTC 58.857 37.037 5.76 0.00 38.23 3.62
2421 11909 8.014070 TGATACAGACCTTTAATATCGGTTCA 57.986 34.615 0.00 0.00 0.00 3.18
2422 11910 8.647796 TGATACAGACCTTTAATATCGGTTCAT 58.352 33.333 0.00 0.00 0.00 2.57
2423 11911 9.490379 GATACAGACCTTTAATATCGGTTCATT 57.510 33.333 0.00 0.00 0.00 2.57
2424 11912 7.553881 ACAGACCTTTAATATCGGTTCATTG 57.446 36.000 0.00 0.00 0.00 2.82
2425 11913 6.038271 ACAGACCTTTAATATCGGTTCATTGC 59.962 38.462 0.00 0.00 0.00 3.56
2426 11914 5.236478 AGACCTTTAATATCGGTTCATTGCG 59.764 40.000 0.00 0.00 0.00 4.85
2427 11915 5.120399 ACCTTTAATATCGGTTCATTGCGA 58.880 37.500 0.00 0.00 0.00 5.10
2428 11916 5.587043 ACCTTTAATATCGGTTCATTGCGAA 59.413 36.000 0.00 0.00 0.00 4.70
2429 11917 6.262273 ACCTTTAATATCGGTTCATTGCGAAT 59.738 34.615 0.00 0.00 35.63 3.34
2430 11918 6.797033 CCTTTAATATCGGTTCATTGCGAATC 59.203 38.462 0.00 0.00 35.63 2.52
2431 11919 7.307989 CCTTTAATATCGGTTCATTGCGAATCT 60.308 37.037 0.00 0.00 35.63 2.40
2432 11920 7.490962 TTAATATCGGTTCATTGCGAATCTT 57.509 32.000 0.00 0.00 35.63 2.40
2433 11921 6.377327 AATATCGGTTCATTGCGAATCTTT 57.623 33.333 0.00 0.00 35.63 2.52
2434 11922 7.490962 AATATCGGTTCATTGCGAATCTTTA 57.509 32.000 0.00 0.00 35.63 1.85
2435 11923 4.857871 TCGGTTCATTGCGAATCTTTAG 57.142 40.909 0.00 0.00 35.63 1.85
2436 11924 4.250464 TCGGTTCATTGCGAATCTTTAGT 58.750 39.130 0.00 0.00 35.63 2.24
2437 11925 5.412640 TCGGTTCATTGCGAATCTTTAGTA 58.587 37.500 0.00 0.00 35.63 1.82
2438 11926 5.290158 TCGGTTCATTGCGAATCTTTAGTAC 59.710 40.000 0.00 0.00 35.63 2.73
2439 11927 5.501897 CGGTTCATTGCGAATCTTTAGTACC 60.502 44.000 0.00 0.00 35.63 3.34
2440 11928 5.490213 GTTCATTGCGAATCTTTAGTACCG 58.510 41.667 0.00 0.00 35.63 4.02
2441 11929 4.116961 TCATTGCGAATCTTTAGTACCGG 58.883 43.478 0.00 0.00 0.00 5.28
2442 11930 3.598019 TTGCGAATCTTTAGTACCGGT 57.402 42.857 13.98 13.98 0.00 5.28
2443 11931 3.598019 TGCGAATCTTTAGTACCGGTT 57.402 42.857 15.04 0.00 0.00 4.44
2444 11932 3.514645 TGCGAATCTTTAGTACCGGTTC 58.485 45.455 15.04 8.12 0.00 3.62
2445 11933 2.533129 GCGAATCTTTAGTACCGGTTCG 59.467 50.000 15.04 14.16 39.71 3.95
2446 11934 3.762779 CGAATCTTTAGTACCGGTTCGT 58.237 45.455 15.04 0.00 34.14 3.85
2447 11935 3.545078 CGAATCTTTAGTACCGGTTCGTG 59.455 47.826 15.04 0.80 34.14 4.35
2448 11936 3.515330 ATCTTTAGTACCGGTTCGTGG 57.485 47.619 15.04 1.20 0.00 4.94
2449 11937 1.067635 TCTTTAGTACCGGTTCGTGGC 60.068 52.381 15.04 0.00 0.00 5.01
2450 11938 0.678395 TTTAGTACCGGTTCGTGGCA 59.322 50.000 15.04 0.00 0.00 4.92
2451 11939 0.038343 TTAGTACCGGTTCGTGGCAC 60.038 55.000 15.04 7.79 0.00 5.01
2452 11940 2.198906 TAGTACCGGTTCGTGGCACG 62.199 60.000 32.75 32.75 44.19 5.34
2461 11949 3.107661 CGTGGCACGAACCGGTAC 61.108 66.667 34.85 0.00 46.05 3.34
2462 11950 2.341176 GTGGCACGAACCGGTACT 59.659 61.111 8.00 0.00 0.00 2.73
2463 11951 1.586028 GTGGCACGAACCGGTACTA 59.414 57.895 8.00 0.00 0.00 1.82
2464 11952 0.038343 GTGGCACGAACCGGTACTAA 60.038 55.000 8.00 0.00 0.00 2.24
2465 11953 0.678395 TGGCACGAACCGGTACTAAA 59.322 50.000 8.00 0.00 0.00 1.85
2466 11954 1.337074 TGGCACGAACCGGTACTAAAG 60.337 52.381 8.00 0.00 0.00 1.85
2467 11955 1.067635 GGCACGAACCGGTACTAAAGA 60.068 52.381 8.00 0.00 0.00 2.52
2468 11956 2.257034 GCACGAACCGGTACTAAAGAG 58.743 52.381 8.00 0.00 0.00 2.85
2469 11957 2.872370 CACGAACCGGTACTAAAGAGG 58.128 52.381 8.00 0.00 0.00 3.69
2470 11958 2.229784 CACGAACCGGTACTAAAGAGGT 59.770 50.000 8.00 0.00 36.66 3.85
2471 11959 2.893489 ACGAACCGGTACTAAAGAGGTT 59.107 45.455 8.00 0.00 46.60 3.50
2472 11960 3.248266 CGAACCGGTACTAAAGAGGTTG 58.752 50.000 8.00 0.00 44.29 3.77
2473 11961 3.305608 CGAACCGGTACTAAAGAGGTTGT 60.306 47.826 8.00 0.00 44.29 3.32
2474 11962 3.672767 ACCGGTACTAAAGAGGTTGTG 57.327 47.619 4.49 0.00 0.00 3.33
2475 11963 2.301009 ACCGGTACTAAAGAGGTTGTGG 59.699 50.000 4.49 0.00 0.00 4.17
2476 11964 2.344025 CGGTACTAAAGAGGTTGTGGC 58.656 52.381 0.00 0.00 0.00 5.01
2477 11965 2.289195 CGGTACTAAAGAGGTTGTGGCA 60.289 50.000 0.00 0.00 0.00 4.92
2478 11966 3.335579 GGTACTAAAGAGGTTGTGGCAG 58.664 50.000 0.00 0.00 0.00 4.85
2479 11967 2.568623 ACTAAAGAGGTTGTGGCAGG 57.431 50.000 0.00 0.00 0.00 4.85
2480 11968 1.073923 ACTAAAGAGGTTGTGGCAGGG 59.926 52.381 0.00 0.00 0.00 4.45
2481 11969 0.404040 TAAAGAGGTTGTGGCAGGGG 59.596 55.000 0.00 0.00 0.00 4.79
2482 11970 3.513750 AAGAGGTTGTGGCAGGGGC 62.514 63.158 0.00 0.00 40.13 5.80
2483 11971 3.971702 GAGGTTGTGGCAGGGGCT 61.972 66.667 0.00 0.00 40.87 5.19
2484 11972 2.531685 AGGTTGTGGCAGGGGCTA 60.532 61.111 0.00 0.00 40.87 3.93
2485 11973 1.926426 GAGGTTGTGGCAGGGGCTAT 61.926 60.000 0.00 0.00 40.87 2.97
2486 11974 1.000359 GGTTGTGGCAGGGGCTATT 60.000 57.895 0.00 0.00 40.87 1.73
2487 11975 0.614697 GGTTGTGGCAGGGGCTATTT 60.615 55.000 0.00 0.00 40.87 1.40
2488 11976 1.266178 GTTGTGGCAGGGGCTATTTT 58.734 50.000 0.00 0.00 40.87 1.82
2489 11977 1.623311 GTTGTGGCAGGGGCTATTTTT 59.377 47.619 0.00 0.00 40.87 1.94
2490 11978 2.829120 GTTGTGGCAGGGGCTATTTTTA 59.171 45.455 0.00 0.00 40.87 1.52
2491 11979 2.733956 TGTGGCAGGGGCTATTTTTAG 58.266 47.619 0.00 0.00 40.87 1.85
2492 11980 2.042433 TGTGGCAGGGGCTATTTTTAGT 59.958 45.455 0.00 0.00 40.87 2.24
2493 11981 3.096852 GTGGCAGGGGCTATTTTTAGTT 58.903 45.455 0.00 0.00 40.87 2.24
2494 11982 3.130516 GTGGCAGGGGCTATTTTTAGTTC 59.869 47.826 0.00 0.00 40.87 3.01
2495 11983 2.693591 GGCAGGGGCTATTTTTAGTTCC 59.306 50.000 0.00 0.00 40.87 3.62
2496 11984 3.361786 GCAGGGGCTATTTTTAGTTCCA 58.638 45.455 0.00 0.00 36.96 3.53
2497 11985 3.130516 GCAGGGGCTATTTTTAGTTCCAC 59.869 47.826 0.00 0.00 36.96 4.02
2498 11986 3.699538 CAGGGGCTATTTTTAGTTCCACC 59.300 47.826 0.00 0.00 0.00 4.61
2499 11987 3.596500 AGGGGCTATTTTTAGTTCCACCT 59.403 43.478 0.00 0.00 0.00 4.00
2500 11988 3.952323 GGGGCTATTTTTAGTTCCACCTC 59.048 47.826 0.00 0.00 0.00 3.85
2501 11989 3.626217 GGGCTATTTTTAGTTCCACCTCG 59.374 47.826 0.00 0.00 0.00 4.63
2502 11990 3.064958 GGCTATTTTTAGTTCCACCTCGC 59.935 47.826 0.00 0.00 0.00 5.03
2503 11991 3.939592 GCTATTTTTAGTTCCACCTCGCT 59.060 43.478 0.00 0.00 0.00 4.93
2504 11992 4.034163 GCTATTTTTAGTTCCACCTCGCTC 59.966 45.833 0.00 0.00 0.00 5.03
2505 11993 2.467566 TTTTAGTTCCACCTCGCTCC 57.532 50.000 0.00 0.00 0.00 4.70
2506 11994 0.611714 TTTAGTTCCACCTCGCTCCC 59.388 55.000 0.00 0.00 0.00 4.30
2507 11995 1.262640 TTAGTTCCACCTCGCTCCCC 61.263 60.000 0.00 0.00 0.00 4.81
2508 11996 2.164332 TAGTTCCACCTCGCTCCCCT 62.164 60.000 0.00 0.00 0.00 4.79
2509 11997 1.684734 GTTCCACCTCGCTCCCCTA 60.685 63.158 0.00 0.00 0.00 3.53
2510 11998 1.381327 TTCCACCTCGCTCCCCTAG 60.381 63.158 0.00 0.00 0.00 3.02
2523 12011 3.282885 CTCCCCTAGCAAGAATTTGACC 58.717 50.000 0.00 0.00 36.36 4.02
2524 12012 2.647299 TCCCCTAGCAAGAATTTGACCA 59.353 45.455 0.00 0.00 36.36 4.02
2525 12013 2.755103 CCCCTAGCAAGAATTTGACCAC 59.245 50.000 0.00 0.00 36.36 4.16
2526 12014 2.755103 CCCTAGCAAGAATTTGACCACC 59.245 50.000 0.00 0.00 36.36 4.61
2527 12015 3.562176 CCCTAGCAAGAATTTGACCACCT 60.562 47.826 0.00 0.00 36.36 4.00
2528 12016 4.082125 CCTAGCAAGAATTTGACCACCTT 58.918 43.478 0.00 0.00 36.36 3.50
2529 12017 5.253330 CCTAGCAAGAATTTGACCACCTTA 58.747 41.667 0.00 0.00 36.36 2.69
2530 12018 5.710099 CCTAGCAAGAATTTGACCACCTTAA 59.290 40.000 0.00 0.00 36.36 1.85
2531 12019 6.208599 CCTAGCAAGAATTTGACCACCTTAAA 59.791 38.462 0.00 0.00 36.36 1.52
2532 12020 6.670695 AGCAAGAATTTGACCACCTTAAAT 57.329 33.333 0.00 0.00 36.36 1.40
2533 12021 7.775053 AGCAAGAATTTGACCACCTTAAATA 57.225 32.000 0.00 0.00 36.36 1.40
2534 12022 8.366359 AGCAAGAATTTGACCACCTTAAATAT 57.634 30.769 0.00 0.00 36.36 1.28
2535 12023 8.253113 AGCAAGAATTTGACCACCTTAAATATG 58.747 33.333 0.00 0.00 36.36 1.78
2536 12024 8.034804 GCAAGAATTTGACCACCTTAAATATGT 58.965 33.333 0.00 0.00 36.36 2.29
2537 12025 9.927668 CAAGAATTTGACCACCTTAAATATGTT 57.072 29.630 0.00 0.00 36.36 2.71
2543 12031 9.802039 TTTGACCACCTTAAATATGTTACTTCT 57.198 29.630 0.00 0.00 0.00 2.85
2544 12032 9.444600 TTGACCACCTTAAATATGTTACTTCTC 57.555 33.333 0.00 0.00 0.00 2.87
2545 12033 8.598916 TGACCACCTTAAATATGTTACTTCTCA 58.401 33.333 0.00 0.00 0.00 3.27
2546 12034 9.444600 GACCACCTTAAATATGTTACTTCTCAA 57.555 33.333 0.00 0.00 0.00 3.02
2547 12035 9.802039 ACCACCTTAAATATGTTACTTCTCAAA 57.198 29.630 0.00 0.00 0.00 2.69
2558 12046 7.421530 TGTTACTTCTCAAACTATCACAAGC 57.578 36.000 0.00 0.00 0.00 4.01
2559 12047 6.989759 TGTTACTTCTCAAACTATCACAAGCA 59.010 34.615 0.00 0.00 0.00 3.91
2560 12048 7.661437 TGTTACTTCTCAAACTATCACAAGCAT 59.339 33.333 0.00 0.00 0.00 3.79
2561 12049 8.507249 GTTACTTCTCAAACTATCACAAGCATT 58.493 33.333 0.00 0.00 0.00 3.56
2562 12050 7.516198 ACTTCTCAAACTATCACAAGCATTT 57.484 32.000 0.00 0.00 0.00 2.32
2563 12051 7.365741 ACTTCTCAAACTATCACAAGCATTTG 58.634 34.615 0.00 0.00 40.24 2.32
2564 12052 6.258230 TCTCAAACTATCACAAGCATTTGG 57.742 37.500 0.00 0.00 38.66 3.28
2565 12053 5.769662 TCTCAAACTATCACAAGCATTTGGT 59.230 36.000 0.00 0.00 38.66 3.67
2566 12054 6.012658 TCAAACTATCACAAGCATTTGGTC 57.987 37.500 0.00 0.00 38.66 4.02
2567 12055 5.769662 TCAAACTATCACAAGCATTTGGTCT 59.230 36.000 0.00 0.00 38.66 3.85
2568 12056 6.265196 TCAAACTATCACAAGCATTTGGTCTT 59.735 34.615 0.00 0.00 38.66 3.01
2569 12057 5.886960 ACTATCACAAGCATTTGGTCTTC 57.113 39.130 0.00 0.00 38.66 2.87
2570 12058 5.316167 ACTATCACAAGCATTTGGTCTTCA 58.684 37.500 0.00 0.00 38.66 3.02
2571 12059 5.948162 ACTATCACAAGCATTTGGTCTTCAT 59.052 36.000 0.00 0.00 38.66 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 3312 3.628032 CGAGGTGTATAGAGCTTCACAGA 59.372 47.826 2.80 0.00 33.17 3.41
8 3313 3.378742 ACGAGGTGTATAGAGCTTCACAG 59.621 47.826 2.80 0.00 33.17 3.66
80 3385 6.942976 ACCATTCTGTAGATAAACGAGGAAA 58.057 36.000 0.00 0.00 0.00 3.13
87 3392 8.041323 TCTTCTTGGACCATTCTGTAGATAAAC 58.959 37.037 0.00 0.00 0.00 2.01
104 3409 7.862274 ATACATCACTGGATATCTTCTTGGA 57.138 36.000 2.05 0.00 30.87 3.53
148 3453 1.511850 CTCCGCCGCAATTATGATCA 58.488 50.000 0.00 0.00 0.00 2.92
177 3482 3.000819 CTACACCCGGGCTCCACA 61.001 66.667 24.08 0.00 0.00 4.17
199 3504 0.323087 TCGACGACTCCATCTTCCCA 60.323 55.000 0.00 0.00 0.00 4.37
201 3506 1.096416 ACTCGACGACTCCATCTTCC 58.904 55.000 0.00 0.00 0.00 3.46
203 3508 1.473278 GGAACTCGACGACTCCATCTT 59.527 52.381 13.88 0.00 0.00 2.40
254 3570 2.569853 TCCGTTTTCTATCTTGCCTCCA 59.430 45.455 0.00 0.00 0.00 3.86
311 3634 0.541764 GCCACCCAAAACTCATCCCA 60.542 55.000 0.00 0.00 0.00 4.37
332 3655 1.966451 GCAGAACTCCAACACCCCG 60.966 63.158 0.00 0.00 0.00 5.73
340 3663 1.065926 CAGTAGCCATGCAGAACTCCA 60.066 52.381 0.00 0.00 0.00 3.86
346 3669 0.538584 CTGGACAGTAGCCATGCAGA 59.461 55.000 0.00 0.00 34.33 4.26
362 3685 3.267974 GGCTTTGCGGAAGTCTGG 58.732 61.111 0.00 0.00 37.01 3.86
385 3709 4.427096 TTCTGCAAAGTCGAAACAAACA 57.573 36.364 0.00 0.00 0.00 2.83
444 3768 4.403453 GAACGTGATTAGCCATTGAACAC 58.597 43.478 0.00 0.00 0.00 3.32
472 3796 2.325082 ACAATCGTTCAGCCGGCAC 61.325 57.895 31.54 17.73 0.00 5.01
473 3797 2.031919 ACAATCGTTCAGCCGGCA 59.968 55.556 31.54 5.56 0.00 5.69
474 3798 2.480555 CACAATCGTTCAGCCGGC 59.519 61.111 21.89 21.89 0.00 6.13
475 3799 2.398554 CCCACAATCGTTCAGCCGG 61.399 63.158 0.00 0.00 0.00 6.13
476 3800 1.671054 ACCCACAATCGTTCAGCCG 60.671 57.895 0.00 0.00 0.00 5.52
477 3801 0.605319 TCACCCACAATCGTTCAGCC 60.605 55.000 0.00 0.00 0.00 4.85
478 3802 1.453155 ATCACCCACAATCGTTCAGC 58.547 50.000 0.00 0.00 0.00 4.26
486 3810 4.261801 CGGACTCTTAAATCACCCACAAT 58.738 43.478 0.00 0.00 0.00 2.71
516 3840 2.576615 GCTTGGTTCTATTAGGCCAGG 58.423 52.381 5.01 10.66 32.09 4.45
517 3841 2.173569 AGGCTTGGTTCTATTAGGCCAG 59.826 50.000 5.01 0.00 40.40 4.85
520 3844 5.483811 GAGATAGGCTTGGTTCTATTAGGC 58.516 45.833 0.00 0.00 0.00 3.93
526 3850 5.670792 TTTTCGAGATAGGCTTGGTTCTA 57.329 39.130 0.00 0.00 0.00 2.10
552 3881 2.163412 GCCTCCGTTCAATAATTGTGCA 59.837 45.455 0.00 0.00 0.00 4.57
582 3911 0.784250 GTTGATGCAACGCGTACACG 60.784 55.000 14.46 0.90 37.22 4.49
615 3944 6.446318 TGGAGCAATTGTATTTTGTCAACTC 58.554 36.000 7.40 0.47 0.00 3.01
775 5414 2.041366 GAAGAGGCGGCGAAATCTGC 62.041 60.000 12.98 4.73 37.61 4.26
789 5428 3.901797 AAAGCGTGCGGGGGAAGAG 62.902 63.158 0.00 0.00 0.00 2.85
801 5440 2.557317 TCGAGAAACCAAGAAAAGCGT 58.443 42.857 0.00 0.00 0.00 5.07
956 7603 1.503542 CATGGAAGCTTCACGGCAC 59.496 57.895 27.02 9.74 34.17 5.01
1024 7675 0.034863 TGCTGCTGCATGATCTTGGA 60.035 50.000 14.93 6.67 45.31 3.53
1025 7676 2.489040 TGCTGCTGCATGATCTTGG 58.511 52.632 14.93 0.00 45.31 3.61
1053 7707 4.059511 CTCTTGATCCTCTGCTTGCTATG 58.940 47.826 0.00 0.00 0.00 2.23
1071 7726 2.691526 TCGTACATACCGAATGCCTCTT 59.308 45.455 0.00 0.00 39.39 2.85
1078 8087 3.506455 CCTCCATCTCGTACATACCGAAT 59.494 47.826 0.00 0.00 33.34 3.34
1084 8093 1.133294 TGCCCCTCCATCTCGTACATA 60.133 52.381 0.00 0.00 0.00 2.29
1174 8183 3.646976 CAGATCATGGCGCGGCAG 61.647 66.667 38.11 28.37 0.00 4.85
1228 8237 5.728898 GCTCATCATGATTTTGAACTCGTCC 60.729 44.000 5.16 0.00 0.00 4.79
1240 8249 4.263374 CCATGTCCCTAGCTCATCATGATT 60.263 45.833 5.16 0.00 35.98 2.57
1256 8271 4.101448 AGTCCAGGCGCCATGTCC 62.101 66.667 31.54 12.18 0.00 4.02
1260 8275 2.270205 CTTGAGTCCAGGCGCCAT 59.730 61.111 31.54 11.31 0.00 4.40
1262 8277 2.593468 TATGCTTGAGTCCAGGCGCC 62.593 60.000 21.89 21.89 46.98 6.53
1273 8288 6.546403 AGACGAAACTAGGAGTATATGCTTGA 59.454 38.462 0.00 0.00 0.00 3.02
1313 8328 1.469917 GAACGAACGAACACGAGTGA 58.530 50.000 10.50 0.00 0.00 3.41
1321 8336 6.066410 TGAATGAATAAACGAACGAACGAAC 58.934 36.000 11.97 0.00 37.03 3.95
1322 8337 6.212934 TGAATGAATAAACGAACGAACGAA 57.787 33.333 11.97 0.00 37.03 3.85
1323 8338 5.825905 TGAATGAATAAACGAACGAACGA 57.174 34.783 11.97 0.00 37.03 3.85
1324 8339 6.734617 TGAATGAATGAATAAACGAACGAACG 59.265 34.615 0.14 0.00 39.31 3.95
1325 8340 8.601243 ATGAATGAATGAATAAACGAACGAAC 57.399 30.769 0.14 0.00 0.00 3.95
1336 8351 9.287373 TCGAATGGATGAATGAATGAATGAATA 57.713 29.630 0.00 0.00 0.00 1.75
1341 8356 7.948357 ACAATCGAATGGATGAATGAATGAAT 58.052 30.769 5.30 0.00 34.93 2.57
1355 8370 8.659491 CACCATTACTATATGACAATCGAATGG 58.341 37.037 5.30 7.99 44.10 3.16
1481 8529 9.993454 TCACATTCACATTTTCCAATAATTTCA 57.007 25.926 0.00 0.00 0.00 2.69
1487 8535 8.428063 ACCTTTTCACATTCACATTTTCCAATA 58.572 29.630 0.00 0.00 0.00 1.90
1489 8537 6.648192 ACCTTTTCACATTCACATTTTCCAA 58.352 32.000 0.00 0.00 0.00 3.53
1561 10053 5.682212 GCTCCCGGATTTAATGAAAAAGCAT 60.682 40.000 0.73 0.00 0.00 3.79
1579 10099 1.268539 GCGGATATTTGTTTGCTCCCG 60.269 52.381 0.00 0.00 38.79 5.14
1726 10265 5.934935 TCTAACGACCTTGAAAATTGACC 57.065 39.130 0.00 0.00 0.00 4.02
1744 10286 5.587388 ACGACGGTTGGATCTTAATCTAA 57.413 39.130 0.00 0.00 30.68 2.10
1765 10307 3.991367 TGGAGGAAGACGAGAAAAGAAC 58.009 45.455 0.00 0.00 0.00 3.01
1766 10308 4.101119 AGTTGGAGGAAGACGAGAAAAGAA 59.899 41.667 0.00 0.00 0.00 2.52
1773 10315 3.669251 AGAAAGTTGGAGGAAGACGAG 57.331 47.619 0.00 0.00 0.00 4.18
1776 10318 5.410132 GCTAAGAAGAAAGTTGGAGGAAGAC 59.590 44.000 0.00 0.00 0.00 3.01
1798 10340 4.698625 AGGAGGAACGGTCGGGCT 62.699 66.667 0.00 0.00 0.00 5.19
1800 10342 3.459063 GGAGGAGGAACGGTCGGG 61.459 72.222 0.00 0.00 0.00 5.14
1826 10369 7.718753 TCATTGAATTTGCAATTTGGGTACTTT 59.281 29.630 11.11 0.00 36.39 2.66
1828 10371 6.767456 TCATTGAATTTGCAATTTGGGTACT 58.233 32.000 11.11 0.00 36.39 2.73
1829 10372 7.173047 AGTTCATTGAATTTGCAATTTGGGTAC 59.827 33.333 11.11 0.00 36.39 3.34
2015 10622 3.761481 GCATATGTTGCCGAGATGC 57.239 52.632 4.29 0.00 46.15 3.91
2039 10655 7.037080 AGCATCCCTTCATCATATGGATAAGAA 60.037 37.037 2.13 0.39 34.12 2.52
2197 10813 6.873997 ACTCAATATATTGTGAAGACGGACA 58.126 36.000 26.38 5.12 38.84 4.02
2209 10825 9.823647 ACACAAGGTAGAAGACTCAATATATTG 57.176 33.333 17.82 17.82 39.10 1.90
2319 11807 2.731571 GGCATAGCGGTGTGGAGGA 61.732 63.158 13.37 0.00 0.00 3.71
2332 11820 2.355837 GCGAAGATCGGCGGCATA 60.356 61.111 10.53 0.00 40.84 3.14
2355 11843 4.748892 CGGTACTTCATCTCACTCATTGT 58.251 43.478 0.00 0.00 0.00 2.71
2405 11893 5.666969 TCGCAATGAACCGATATTAAAGG 57.333 39.130 0.00 0.00 0.00 3.11
2406 11894 7.576236 AGATTCGCAATGAACCGATATTAAAG 58.424 34.615 0.00 0.00 40.00 1.85
2407 11895 7.490962 AGATTCGCAATGAACCGATATTAAA 57.509 32.000 0.00 0.00 40.00 1.52
2408 11896 7.490962 AAGATTCGCAATGAACCGATATTAA 57.509 32.000 0.00 0.00 40.00 1.40
2409 11897 7.490962 AAAGATTCGCAATGAACCGATATTA 57.509 32.000 0.00 0.00 40.00 0.98
2410 11898 6.377327 AAAGATTCGCAATGAACCGATATT 57.623 33.333 0.00 0.00 40.00 1.28
2411 11899 6.706270 ACTAAAGATTCGCAATGAACCGATAT 59.294 34.615 0.00 0.00 40.00 1.63
2412 11900 6.046593 ACTAAAGATTCGCAATGAACCGATA 58.953 36.000 0.00 0.00 40.00 2.92
2413 11901 4.876107 ACTAAAGATTCGCAATGAACCGAT 59.124 37.500 0.00 0.00 40.00 4.18
2414 11902 4.250464 ACTAAAGATTCGCAATGAACCGA 58.750 39.130 0.00 0.00 40.00 4.69
2415 11903 4.600012 ACTAAAGATTCGCAATGAACCG 57.400 40.909 0.00 0.00 40.00 4.44
2416 11904 5.501897 CGGTACTAAAGATTCGCAATGAACC 60.502 44.000 0.00 0.00 40.00 3.62
2417 11905 5.490213 CGGTACTAAAGATTCGCAATGAAC 58.510 41.667 0.00 0.00 40.00 3.18
2418 11906 4.569162 CCGGTACTAAAGATTCGCAATGAA 59.431 41.667 0.00 0.00 41.81 2.57
2419 11907 4.116961 CCGGTACTAAAGATTCGCAATGA 58.883 43.478 0.00 0.00 0.00 2.57
2420 11908 3.869246 ACCGGTACTAAAGATTCGCAATG 59.131 43.478 4.49 0.00 0.00 2.82
2421 11909 4.133013 ACCGGTACTAAAGATTCGCAAT 57.867 40.909 4.49 0.00 0.00 3.56
2422 11910 3.598019 ACCGGTACTAAAGATTCGCAA 57.402 42.857 4.49 0.00 0.00 4.85
2423 11911 3.514645 GAACCGGTACTAAAGATTCGCA 58.485 45.455 8.00 0.00 0.00 5.10
2424 11912 2.533129 CGAACCGGTACTAAAGATTCGC 59.467 50.000 8.00 0.00 32.18 4.70
2425 11913 3.545078 CACGAACCGGTACTAAAGATTCG 59.455 47.826 8.00 13.08 42.26 3.34
2426 11914 3.861689 CCACGAACCGGTACTAAAGATTC 59.138 47.826 8.00 0.00 0.00 2.52
2427 11915 3.853475 CCACGAACCGGTACTAAAGATT 58.147 45.455 8.00 0.00 0.00 2.40
2428 11916 2.417787 GCCACGAACCGGTACTAAAGAT 60.418 50.000 8.00 0.00 0.00 2.40
2429 11917 1.067635 GCCACGAACCGGTACTAAAGA 60.068 52.381 8.00 0.00 0.00 2.52
2430 11918 1.337074 TGCCACGAACCGGTACTAAAG 60.337 52.381 8.00 0.00 0.00 1.85
2431 11919 0.678395 TGCCACGAACCGGTACTAAA 59.322 50.000 8.00 0.00 0.00 1.85
2432 11920 0.038343 GTGCCACGAACCGGTACTAA 60.038 55.000 8.00 0.00 36.33 2.24
2433 11921 1.586028 GTGCCACGAACCGGTACTA 59.414 57.895 8.00 0.00 36.33 1.82
2434 11922 2.341176 GTGCCACGAACCGGTACT 59.659 61.111 8.00 0.00 36.33 2.73
2435 11923 3.107661 CGTGCCACGAACCGGTAC 61.108 66.667 12.85 0.00 46.05 3.34
2444 11932 2.198906 TAGTACCGGTTCGTGCCACG 62.199 60.000 15.04 11.80 44.19 4.94
2445 11933 0.038343 TTAGTACCGGTTCGTGCCAC 60.038 55.000 15.04 1.99 0.00 5.01
2446 11934 0.678395 TTTAGTACCGGTTCGTGCCA 59.322 50.000 15.04 0.00 0.00 4.92
2447 11935 1.067635 TCTTTAGTACCGGTTCGTGCC 60.068 52.381 15.04 0.00 0.00 5.01
2448 11936 2.257034 CTCTTTAGTACCGGTTCGTGC 58.743 52.381 15.04 0.00 0.00 5.34
2449 11937 2.229784 ACCTCTTTAGTACCGGTTCGTG 59.770 50.000 15.04 0.80 0.00 4.35
2450 11938 2.519013 ACCTCTTTAGTACCGGTTCGT 58.481 47.619 15.04 0.00 0.00 3.85
2451 11939 3.248266 CAACCTCTTTAGTACCGGTTCG 58.752 50.000 15.04 0.00 35.90 3.95
2452 11940 3.992427 CACAACCTCTTTAGTACCGGTTC 59.008 47.826 15.04 8.12 35.90 3.62
2453 11941 3.244318 CCACAACCTCTTTAGTACCGGTT 60.244 47.826 15.04 0.00 38.42 4.44
2454 11942 2.301009 CCACAACCTCTTTAGTACCGGT 59.699 50.000 13.98 13.98 0.00 5.28
2455 11943 2.933928 GCCACAACCTCTTTAGTACCGG 60.934 54.545 0.00 0.00 0.00 5.28
2456 11944 2.289195 TGCCACAACCTCTTTAGTACCG 60.289 50.000 0.00 0.00 0.00 4.02
2457 11945 3.335579 CTGCCACAACCTCTTTAGTACC 58.664 50.000 0.00 0.00 0.00 3.34
2458 11946 3.335579 CCTGCCACAACCTCTTTAGTAC 58.664 50.000 0.00 0.00 0.00 2.73
2459 11947 2.304761 CCCTGCCACAACCTCTTTAGTA 59.695 50.000 0.00 0.00 0.00 1.82
2460 11948 1.073923 CCCTGCCACAACCTCTTTAGT 59.926 52.381 0.00 0.00 0.00 2.24
2461 11949 1.614317 CCCCTGCCACAACCTCTTTAG 60.614 57.143 0.00 0.00 0.00 1.85
2462 11950 0.404040 CCCCTGCCACAACCTCTTTA 59.596 55.000 0.00 0.00 0.00 1.85
2463 11951 1.153756 CCCCTGCCACAACCTCTTT 59.846 57.895 0.00 0.00 0.00 2.52
2464 11952 2.846532 CCCCTGCCACAACCTCTT 59.153 61.111 0.00 0.00 0.00 2.85
2465 11953 3.971702 GCCCCTGCCACAACCTCT 61.972 66.667 0.00 0.00 0.00 3.69
2466 11954 1.926426 ATAGCCCCTGCCACAACCTC 61.926 60.000 0.00 0.00 38.69 3.85
2467 11955 1.509548 AATAGCCCCTGCCACAACCT 61.510 55.000 0.00 0.00 38.69 3.50
2468 11956 0.614697 AAATAGCCCCTGCCACAACC 60.615 55.000 0.00 0.00 38.69 3.77
2469 11957 1.266178 AAAATAGCCCCTGCCACAAC 58.734 50.000 0.00 0.00 38.69 3.32
2470 11958 2.022718 AAAAATAGCCCCTGCCACAA 57.977 45.000 0.00 0.00 38.69 3.33
2471 11959 2.042433 ACTAAAAATAGCCCCTGCCACA 59.958 45.455 0.00 0.00 38.69 4.17
2472 11960 2.735151 ACTAAAAATAGCCCCTGCCAC 58.265 47.619 0.00 0.00 38.69 5.01
2473 11961 3.361786 GAACTAAAAATAGCCCCTGCCA 58.638 45.455 0.00 0.00 38.69 4.92
2474 11962 2.693591 GGAACTAAAAATAGCCCCTGCC 59.306 50.000 0.00 0.00 38.69 4.85
2475 11963 3.130516 GTGGAACTAAAAATAGCCCCTGC 59.869 47.826 0.00 0.00 37.95 4.85
2476 11964 3.699538 GGTGGAACTAAAAATAGCCCCTG 59.300 47.826 0.00 0.00 36.74 4.45
2477 11965 3.596500 AGGTGGAACTAAAAATAGCCCCT 59.403 43.478 0.00 0.00 36.74 4.79
2478 11966 3.952323 GAGGTGGAACTAAAAATAGCCCC 59.048 47.826 0.00 0.00 36.74 5.80
2479 11967 3.626217 CGAGGTGGAACTAAAAATAGCCC 59.374 47.826 0.00 0.00 36.74 5.19
2480 11968 3.064958 GCGAGGTGGAACTAAAAATAGCC 59.935 47.826 0.00 0.00 36.74 3.93
2481 11969 3.939592 AGCGAGGTGGAACTAAAAATAGC 59.060 43.478 0.00 0.00 36.74 2.97
2482 11970 4.571176 GGAGCGAGGTGGAACTAAAAATAG 59.429 45.833 0.00 0.00 36.74 1.73
2483 11971 4.510571 GGAGCGAGGTGGAACTAAAAATA 58.489 43.478 0.00 0.00 36.74 1.40
2484 11972 3.344515 GGAGCGAGGTGGAACTAAAAAT 58.655 45.455 0.00 0.00 36.74 1.82
2485 11973 2.551504 GGGAGCGAGGTGGAACTAAAAA 60.552 50.000 0.00 0.00 36.74 1.94
2486 11974 1.002773 GGGAGCGAGGTGGAACTAAAA 59.997 52.381 0.00 0.00 36.74 1.52
2487 11975 0.611714 GGGAGCGAGGTGGAACTAAA 59.388 55.000 0.00 0.00 36.74 1.85
2488 11976 1.262640 GGGGAGCGAGGTGGAACTAA 61.263 60.000 0.00 0.00 36.74 2.24
2489 11977 1.684734 GGGGAGCGAGGTGGAACTA 60.685 63.158 0.00 0.00 36.74 2.24
2490 11978 2.164332 TAGGGGAGCGAGGTGGAACT 62.164 60.000 0.00 0.00 36.74 3.01
2491 11979 1.677637 CTAGGGGAGCGAGGTGGAAC 61.678 65.000 0.00 0.00 0.00 3.62
2492 11980 1.381327 CTAGGGGAGCGAGGTGGAA 60.381 63.158 0.00 0.00 0.00 3.53
2493 11981 2.279073 CTAGGGGAGCGAGGTGGA 59.721 66.667 0.00 0.00 0.00 4.02
2494 11982 3.541713 GCTAGGGGAGCGAGGTGG 61.542 72.222 0.00 0.00 42.62 4.61
2502 11990 3.282885 GGTCAAATTCTTGCTAGGGGAG 58.717 50.000 0.00 0.00 32.14 4.30
2503 11991 2.647299 TGGTCAAATTCTTGCTAGGGGA 59.353 45.455 0.00 0.00 32.14 4.81
2504 11992 2.755103 GTGGTCAAATTCTTGCTAGGGG 59.245 50.000 0.00 0.00 32.14 4.79
2505 11993 2.755103 GGTGGTCAAATTCTTGCTAGGG 59.245 50.000 0.00 0.00 32.14 3.53
2506 11994 3.690460 AGGTGGTCAAATTCTTGCTAGG 58.310 45.455 0.00 0.00 32.14 3.02
2507 11995 6.817765 TTAAGGTGGTCAAATTCTTGCTAG 57.182 37.500 0.00 0.00 32.14 3.42
2508 11996 7.775053 ATTTAAGGTGGTCAAATTCTTGCTA 57.225 32.000 0.00 0.00 32.14 3.49
2509 11997 6.670695 ATTTAAGGTGGTCAAATTCTTGCT 57.329 33.333 0.00 0.00 32.14 3.91
2510 11998 8.034804 ACATATTTAAGGTGGTCAAATTCTTGC 58.965 33.333 0.00 0.00 32.14 4.01
2511 11999 9.927668 AACATATTTAAGGTGGTCAAATTCTTG 57.072 29.630 0.00 0.00 0.00 3.02
2517 12005 9.802039 AGAAGTAACATATTTAAGGTGGTCAAA 57.198 29.630 0.00 0.00 0.00 2.69
2518 12006 9.444600 GAGAAGTAACATATTTAAGGTGGTCAA 57.555 33.333 0.00 0.00 0.00 3.18
2519 12007 8.598916 TGAGAAGTAACATATTTAAGGTGGTCA 58.401 33.333 0.00 0.00 0.00 4.02
2520 12008 9.444600 TTGAGAAGTAACATATTTAAGGTGGTC 57.555 33.333 0.00 0.00 0.00 4.02
2521 12009 9.802039 TTTGAGAAGTAACATATTTAAGGTGGT 57.198 29.630 0.00 0.00 0.00 4.16
2532 12020 9.151471 GCTTGTGATAGTTTGAGAAGTAACATA 57.849 33.333 0.00 0.00 29.66 2.29
2533 12021 7.661437 TGCTTGTGATAGTTTGAGAAGTAACAT 59.339 33.333 0.00 0.00 29.66 2.71
2534 12022 6.989759 TGCTTGTGATAGTTTGAGAAGTAACA 59.010 34.615 0.00 0.00 0.00 2.41
2535 12023 7.421530 TGCTTGTGATAGTTTGAGAAGTAAC 57.578 36.000 0.00 0.00 0.00 2.50
2536 12024 8.621532 AATGCTTGTGATAGTTTGAGAAGTAA 57.378 30.769 0.00 0.00 0.00 2.24
2537 12025 8.506437 CAAATGCTTGTGATAGTTTGAGAAGTA 58.494 33.333 0.00 0.00 0.00 2.24
2538 12026 7.365741 CAAATGCTTGTGATAGTTTGAGAAGT 58.634 34.615 0.00 0.00 0.00 3.01
2539 12027 6.805271 CCAAATGCTTGTGATAGTTTGAGAAG 59.195 38.462 0.00 0.00 0.00 2.85
2540 12028 6.265196 ACCAAATGCTTGTGATAGTTTGAGAA 59.735 34.615 0.00 0.00 0.00 2.87
2541 12029 5.769662 ACCAAATGCTTGTGATAGTTTGAGA 59.230 36.000 0.00 0.00 0.00 3.27
2542 12030 6.017400 ACCAAATGCTTGTGATAGTTTGAG 57.983 37.500 0.00 0.00 0.00 3.02
2543 12031 5.769662 AGACCAAATGCTTGTGATAGTTTGA 59.230 36.000 0.00 0.00 0.00 2.69
2544 12032 6.017400 AGACCAAATGCTTGTGATAGTTTG 57.983 37.500 0.00 0.00 0.00 2.93
2545 12033 6.265196 TGAAGACCAAATGCTTGTGATAGTTT 59.735 34.615 0.00 0.00 0.00 2.66
2546 12034 5.769662 TGAAGACCAAATGCTTGTGATAGTT 59.230 36.000 0.00 0.00 0.00 2.24
2547 12035 5.316167 TGAAGACCAAATGCTTGTGATAGT 58.684 37.500 0.00 0.00 0.00 2.12
2548 12036 5.885230 TGAAGACCAAATGCTTGTGATAG 57.115 39.130 0.00 0.00 0.00 2.08


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

AutoCloner maintained by Alex Coulton.