Multiple sequence alignment - TraesCS2A01G161100

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


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

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2A01G161100 chr2A 100.000 4767 0 0 1 4767 112743820 112748586 0.000000e+00 8804.0
1 TraesCS2A01G161100 chr2A 95.031 2878 97 20 567 3424 113312410 113309559 0.000000e+00 4481.0
2 TraesCS2A01G161100 chr2A 86.385 1469 134 40 589 2033 111921526 111922952 0.000000e+00 1544.0
3 TraesCS2A01G161100 chr2A 86.758 876 63 30 2119 2985 111923016 111923847 0.000000e+00 926.0
4 TraesCS2A01G161100 chr2A 90.000 400 24 11 3648 4037 111924874 111925267 1.980000e-138 503.0
5 TraesCS2A01G161100 chr2A 86.494 385 35 10 3650 4029 113309512 113309140 1.600000e-109 407.0
6 TraesCS2A01G161100 chr2A 79.654 462 60 18 3131 3580 113196997 113196558 7.750000e-78 302.0
7 TraesCS2A01G161100 chr2A 79.854 412 68 13 3061 3467 111924204 111924605 2.170000e-73 287.0
8 TraesCS2A01G161100 chr2A 91.160 181 7 6 3441 3619 111924627 111924800 2.220000e-58 237.0
9 TraesCS2A01G161100 chr2A 82.500 240 36 4 577 814 113319380 113319145 6.250000e-49 206.0
10 TraesCS2A01G161100 chr2A 88.321 137 15 1 194 330 113312545 113312410 3.820000e-36 163.0
11 TraesCS2A01G161100 chr2A 81.481 162 29 1 2778 2938 113197558 113197397 1.080000e-26 132.0
12 TraesCS2A01G161100 chr2A 96.721 61 2 0 1 61 113315832 113315772 8.440000e-18 102.0
13 TraesCS2A01G161100 chr2A 97.222 36 1 0 4684 4719 111925654 111925689 1.430000e-05 62.1
14 TraesCS2A01G161100 chr2D 91.065 1813 66 37 246 2033 112098570 112100311 0.000000e+00 2362.0
15 TraesCS2A01G161100 chr2D 84.796 1493 149 50 566 2035 111588237 111589674 0.000000e+00 1428.0
16 TraesCS2A01G161100 chr2D 90.031 973 86 9 730 1692 112181350 112180379 0.000000e+00 1249.0
17 TraesCS2A01G161100 chr2D 90.929 893 31 24 2132 2998 112100375 112101243 0.000000e+00 1155.0
18 TraesCS2A01G161100 chr2D 88.045 895 52 28 2119 2994 112180031 112179173 0.000000e+00 1009.0
19 TraesCS2A01G161100 chr2D 98.214 336 6 0 3702 4037 112102069 112102404 5.310000e-164 588.0
20 TraesCS2A01G161100 chr2D 90.868 438 31 6 2996 3428 112101268 112101701 3.200000e-161 579.0
21 TraesCS2A01G161100 chr2D 84.534 569 63 18 3061 3619 111590939 111591492 1.510000e-149 540.0
22 TraesCS2A01G161100 chr2D 89.737 419 15 12 4352 4766 112102529 112102923 1.180000e-140 510.0
23 TraesCS2A01G161100 chr2D 90.051 392 27 8 3640 4029 111591558 111591939 9.210000e-137 497.0
24 TraesCS2A01G161100 chr2D 86.684 383 38 7 3647 4024 112178120 112177746 3.430000e-111 412.0
25 TraesCS2A01G161100 chr2D 94.093 237 14 0 1 237 112098356 112098592 1.260000e-95 361.0
26 TraesCS2A01G161100 chr2D 86.262 313 42 1 2682 2994 111590280 111590591 5.910000e-89 339.0
27 TraesCS2A01G161100 chr2D 87.291 299 14 12 1754 2033 112180360 112180067 2.140000e-83 320.0
28 TraesCS2A01G161100 chr2D 81.886 403 44 20 3034 3424 112178836 112178451 3.580000e-81 313.0
29 TraesCS2A01G161100 chr2D 85.714 301 32 7 2377 2670 111589931 111590227 1.670000e-79 307.0
30 TraesCS2A01G161100 chr2D 89.806 206 17 4 1 202 112183553 112183348 1.320000e-65 261.0
31 TraesCS2A01G161100 chr2D 94.545 165 4 1 2142 2301 111589752 111589916 2.850000e-62 250.0
32 TraesCS2A01G161100 chr2D 83.190 232 36 2 585 814 112186893 112186663 4.830000e-50 209.0
33 TraesCS2A01G161100 chr2D 84.112 214 32 2 601 814 112187995 112187784 6.250000e-49 206.0
34 TraesCS2A01G161100 chr2D 90.789 152 14 0 567 718 112181768 112181617 2.250000e-48 204.0
35 TraesCS2A01G161100 chr2D 81.124 249 26 9 4439 4678 111592284 111592520 3.790000e-41 180.0
36 TraesCS2A01G161100 chr2D 91.270 126 4 3 4140 4265 112102402 112102520 1.060000e-36 165.0
37 TraesCS2A01G161100 chr2D 84.884 172 6 10 3456 3613 112101766 112101931 6.390000e-34 156.0
38 TraesCS2A01G161100 chr2D 87.500 136 14 2 195 330 112181900 112181768 2.300000e-33 154.0
39 TraesCS2A01G161100 chr2D 87.097 124 9 3 3465 3581 112178367 112178244 2.990000e-27 134.0
40 TraesCS2A01G161100 chr2D 91.209 91 8 0 4259 4349 201441658 201441568 1.800000e-24 124.0
41 TraesCS2A01G161100 chr2D 90.426 94 5 3 4264 4357 641605275 641605364 2.330000e-23 121.0
42 TraesCS2A01G161100 chr2D 81.600 125 13 5 4140 4264 111591974 111592088 1.410000e-15 95.3
43 TraesCS2A01G161100 chr2B 93.230 1093 49 12 727 1797 162007420 162008509 0.000000e+00 1585.0
44 TraesCS2A01G161100 chr2B 85.424 1331 92 50 746 2033 162449043 162447772 0.000000e+00 1290.0
45 TraesCS2A01G161100 chr2B 85.337 1173 99 42 567 1726 161721995 161723107 0.000000e+00 1146.0
46 TraesCS2A01G161100 chr2B 88.940 877 27 36 2161 2998 162008837 162009682 0.000000e+00 1018.0
47 TraesCS2A01G161100 chr2B 85.189 898 83 28 2119 2994 161723407 161724276 0.000000e+00 876.0
48 TraesCS2A01G161100 chr2B 93.035 603 19 10 2401 2981 162447482 162446881 0.000000e+00 859.0
49 TraesCS2A01G161100 chr2B 93.594 562 27 6 3086 3641 162009901 162010459 0.000000e+00 830.0
50 TraesCS2A01G161100 chr2B 94.802 404 8 4 4364 4767 162011123 162011513 6.780000e-173 617.0
51 TraesCS2A01G161100 chr2B 94.737 399 8 2 3640 4037 162010621 162011007 4.080000e-170 608.0
52 TraesCS2A01G161100 chr2B 90.561 392 25 8 3648 4037 161725247 161725628 4.260000e-140 508.0
53 TraesCS2A01G161100 chr2B 84.411 526 53 17 3061 3571 161724624 161725135 1.540000e-134 490.0
54 TraesCS2A01G161100 chr2B 87.629 388 35 7 3647 4029 162445876 162445497 5.660000e-119 438.0
55 TraesCS2A01G161100 chr2B 81.799 478 62 16 3134 3590 162446470 162445997 1.250000e-100 377.0
56 TraesCS2A01G161100 chr2B 85.207 338 23 13 1 334 162006828 162007142 5.950000e-84 322.0
57 TraesCS2A01G161100 chr2B 89.604 202 20 1 1 202 162479342 162479142 6.120000e-64 255.0
58 TraesCS2A01G161100 chr2B 85.366 246 32 3 567 812 162496537 162496296 7.920000e-63 252.0
59 TraesCS2A01G161100 chr2B 91.160 181 11 3 2161 2341 162447668 162447493 1.710000e-59 241.0
60 TraesCS2A01G161100 chr2B 84.454 238 33 3 577 814 162482993 162482760 1.030000e-56 231.0
61 TraesCS2A01G161100 chr2B 96.183 131 4 1 1796 1926 162008543 162008672 3.740000e-51 213.0
62 TraesCS2A01G161100 chr2B 87.432 183 20 3 567 748 162449333 162449153 1.740000e-49 207.0
63 TraesCS2A01G161100 chr2B 91.270 126 3 1 4140 4265 162011005 162011122 1.060000e-36 165.0
64 TraesCS2A01G161100 chr2B 93.333 75 5 0 256 330 162449407 162449333 1.400000e-20 111.0
65 TraesCS2A01G161100 chr2B 83.333 114 11 4 4538 4648 161725909 161726017 1.090000e-16 99.0
66 TraesCS2A01G161100 chr2B 100.000 41 0 0 1934 1974 161723226 161723266 5.120000e-10 76.8
67 TraesCS2A01G161100 chr2B 88.889 54 2 1 567 620 162007139 162007188 3.980000e-06 63.9
68 TraesCS2A01G161100 chr4D 98.182 110 2 0 4032 4141 211385328 211385437 4.870000e-45 193.0
69 TraesCS2A01G161100 chr4D 95.763 118 5 0 4024 4141 317234610 317234727 1.750000e-44 191.0
70 TraesCS2A01G161100 chr4D 76.777 211 33 12 362 567 126435262 126435461 2.350000e-18 104.0
71 TraesCS2A01G161100 chr5A 96.522 115 4 0 4027 4141 547790011 547790125 1.750000e-44 191.0
72 TraesCS2A01G161100 chr5A 92.424 132 5 4 4015 4141 507966360 507966491 2.930000e-42 183.0
73 TraesCS2A01G161100 chr5A 76.190 210 36 14 370 570 400486148 400486352 1.090000e-16 99.0
74 TraesCS2A01G161100 chr4A 96.552 116 2 2 4027 4141 381221441 381221327 1.750000e-44 191.0
75 TraesCS2A01G161100 chr4A 97.321 112 3 0 4034 4145 416231502 416231391 1.750000e-44 191.0
76 TraesCS2A01G161100 chr4A 94.118 85 4 1 4264 4348 211051204 211051121 1.390000e-25 128.0
77 TraesCS2A01G161100 chr3D 97.321 112 3 0 4030 4141 606889398 606889287 1.750000e-44 191.0
78 TraesCS2A01G161100 chr1D 97.345 113 2 1 4029 4141 419999 420110 1.750000e-44 191.0
79 TraesCS2A01G161100 chr6A 94.262 122 6 1 4021 4142 91886005 91886125 8.150000e-43 185.0
80 TraesCS2A01G161100 chr6A 78.355 231 35 11 354 581 481083727 481083509 8.320000e-28 135.0
81 TraesCS2A01G161100 chr6A 83.654 104 15 2 1386 1488 535154205 535154103 3.930000e-16 97.1
82 TraesCS2A01G161100 chr3A 94.118 85 5 0 4264 4348 113364138 113364054 3.870000e-26 130.0
83 TraesCS2A01G161100 chr3A 94.118 85 5 0 4264 4348 714035511 714035427 3.870000e-26 130.0
84 TraesCS2A01G161100 chr3A 100.000 60 0 0 4487 4546 23177353 23177294 1.400000e-20 111.0
85 TraesCS2A01G161100 chr7A 93.103 87 6 0 4262 4348 133087788 133087702 1.390000e-25 128.0
86 TraesCS2A01G161100 chr3B 92.135 89 7 0 4260 4348 629555686 629555774 5.010000e-25 126.0
87 TraesCS2A01G161100 chr4B 92.941 85 6 0 4264 4348 26837428 26837344 1.800000e-24 124.0
88 TraesCS2A01G161100 chr1B 92.045 88 7 0 4261 4348 57536855 57536942 1.800000e-24 124.0
89 TraesCS2A01G161100 chr7D 77.907 172 23 11 400 567 171971133 171970973 5.080000e-15 93.5


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 TraesCS2A01G161100 chr2A 112743820 112748586 4766 False 8804.000000 8804 100.000000 1 4767 1 chr2A.!!$F1 4766
1 TraesCS2A01G161100 chr2A 113309140 113319380 10240 True 1071.800000 4481 89.813400 1 4029 5 chr2A.!!$R2 4028
2 TraesCS2A01G161100 chr2A 111921526 111925689 4163 False 593.183333 1544 88.563167 589 4719 6 chr2A.!!$F2 4130
3 TraesCS2A01G161100 chr2A 113196558 113197558 1000 True 217.000000 302 80.567500 2778 3580 2 chr2A.!!$R1 802
4 TraesCS2A01G161100 chr2D 112098356 112102923 4567 False 734.500000 2362 91.382500 1 4766 8 chr2D.!!$F3 4765
5 TraesCS2A01G161100 chr2D 111588237 111592520 4283 False 454.537500 1428 86.078250 566 4678 8 chr2D.!!$F2 4112
6 TraesCS2A01G161100 chr2D 112177746 112187995 10249 True 406.454545 1249 86.948273 1 4024 11 chr2D.!!$R2 4023
7 TraesCS2A01G161100 chr2B 162006828 162011513 4685 False 602.433333 1585 91.872444 1 4767 9 chr2B.!!$F2 4766
8 TraesCS2A01G161100 chr2B 161721995 161726017 4022 False 532.633333 1146 88.138500 567 4648 6 chr2B.!!$F1 4081
9 TraesCS2A01G161100 chr2B 162445497 162449407 3910 True 503.285714 1290 88.544571 256 4029 7 chr2B.!!$R2 3773
10 TraesCS2A01G161100 chr2B 162479142 162482993 3851 True 243.000000 255 87.029000 1 814 2 chr2B.!!$R3 813

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
158 5402 0.475906 ACAAGACCAAGGCTGAAGCT 59.524 50.000 1.74 0.00 41.70 3.74 F
942 9894 1.228552 TTGAAGCCCAGGCACCTTC 60.229 57.895 12.03 6.81 44.88 3.46 F
1503 10473 0.033894 AGTCTCCTTCCTCCCTCGTC 60.034 60.000 0.00 0.00 0.00 4.20 F
2351 11468 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1267 10229 0.241213 GGGAACGAAAGGAAAGCAGC 59.759 55.0 0.00 0.0 0.00 5.25 R
2363 11480 2.832733 TCACGAGGACTGTAGAGAGAGA 59.167 50.0 0.00 0.0 0.00 3.10 R
3378 13058 0.674895 AGGATGCGCTTGTGTCCTTC 60.675 55.0 9.73 0.0 37.84 3.46 R
4334 14439 0.183252 ACTAGCTACTCCCTCCGTCC 59.817 60.0 0.00 0.0 0.00 4.79 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
90 5334 6.259550 ACAAGAAGTATGAAATCAAGGCAC 57.740 37.500 0.00 0.00 0.00 5.01
148 5392 5.048224 CCTCGAGTTTCTAGTACAAGACCAA 60.048 44.000 12.31 0.00 0.00 3.67
157 5401 1.807142 GTACAAGACCAAGGCTGAAGC 59.193 52.381 0.00 0.00 41.14 3.86
158 5402 0.475906 ACAAGACCAAGGCTGAAGCT 59.524 50.000 1.74 0.00 41.70 3.74
184 5432 1.621672 CCTCTGGACTTGGCTCCTCC 61.622 65.000 0.00 0.00 0.00 4.30
223 8624 7.754069 TCCGTTGTACGTTAAAGGTATAATG 57.246 36.000 13.77 8.48 40.58 1.90
230 8631 9.767228 TGTACGTTAAAGGTATAATGTGCATAT 57.233 29.630 0.00 0.00 40.28 1.78
289 8690 4.699522 AAGCCTCCGTCAACCGCC 62.700 66.667 0.00 0.00 34.38 6.13
379 8790 6.945435 TCTAACAAATCTCAGCCATTAAACCA 59.055 34.615 0.00 0.00 0.00 3.67
393 8804 7.012044 AGCCATTAAACCATGTAATCTAACGAC 59.988 37.037 0.00 0.00 0.00 4.34
397 8808 9.661563 ATTAAACCATGTAATCTAACGACTCAA 57.338 29.630 0.00 0.00 0.00 3.02
415 8826 2.158623 TCAACCTGCTTCAATGGTGAGT 60.159 45.455 0.00 0.00 34.49 3.41
416 8827 1.901591 ACCTGCTTCAATGGTGAGTG 58.098 50.000 0.00 0.00 34.49 3.51
550 8961 4.557296 GCCTAATATCAACGTGCATTGCAT 60.557 41.667 15.49 0.00 41.91 3.96
598 9009 7.695201 GCAAAAACAAGTAGTAGAAGAAACGTT 59.305 33.333 0.00 0.00 0.00 3.99
656 9230 5.916661 TCACCTCACTATAACTCTTGGAC 57.083 43.478 0.00 0.00 0.00 4.02
776 9718 3.311106 AGCATCAAAATGTTGCACTTCG 58.689 40.909 13.92 0.00 43.50 3.79
934 9886 2.747855 GCTCCCGTTGAAGCCCAG 60.748 66.667 0.00 0.00 0.00 4.45
942 9894 1.228552 TTGAAGCCCAGGCACCTTC 60.229 57.895 12.03 6.81 44.88 3.46
986 9943 1.679305 TCTCTCTCCCTGTGTCGGC 60.679 63.158 0.00 0.00 0.00 5.54
1264 10226 5.411361 TGGATCGTAAGTTTCTTTCACATGG 59.589 40.000 0.00 0.00 39.48 3.66
1265 10227 4.742438 TCGTAAGTTTCTTTCACATGGC 57.258 40.909 0.00 0.00 39.48 4.40
1266 10228 4.130857 TCGTAAGTTTCTTTCACATGGCA 58.869 39.130 0.00 0.00 39.48 4.92
1267 10229 4.213270 TCGTAAGTTTCTTTCACATGGCAG 59.787 41.667 0.00 0.00 39.48 4.85
1269 10231 2.590821 AGTTTCTTTCACATGGCAGCT 58.409 42.857 0.00 0.00 0.00 4.24
1270 10232 2.295349 AGTTTCTTTCACATGGCAGCTG 59.705 45.455 10.11 10.11 0.00 4.24
1271 10233 0.599558 TTCTTTCACATGGCAGCTGC 59.400 50.000 30.88 30.88 41.14 5.25
1272 10234 0.251033 TCTTTCACATGGCAGCTGCT 60.251 50.000 35.82 16.94 41.70 4.24
1275 10244 0.599558 TTCACATGGCAGCTGCTTTC 59.400 50.000 35.82 21.24 41.70 2.62
1281 10250 1.211190 GGCAGCTGCTTTCCTTTCG 59.789 57.895 35.82 0.00 41.70 3.46
1503 10473 0.033894 AGTCTCCTTCCTCCCTCGTC 60.034 60.000 0.00 0.00 0.00 4.20
2349 11466 5.136068 TCTCTCTCTCTCTCTCTCTCTCT 57.864 47.826 0.00 0.00 0.00 3.10
2350 11467 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2351 11468 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2353 11470 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2356 11473 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2358 11475 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2359 11476 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2360 11477 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2361 11478 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2362 11479 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2363 11480 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2364 11481 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2365 11482 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2366 11483 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
2367 11484 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
2368 11485 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
3378 13058 1.961793 TCCTTGTGACCAAGTTTCCG 58.038 50.000 2.17 0.00 45.49 4.30
3424 13104 1.153745 CGTGAGCCTGCTGAGGTAC 60.154 63.158 0.00 0.00 42.15 3.34
3431 13111 2.571653 AGCCTGCTGAGGTACACAATAA 59.428 45.455 0.00 0.00 42.15 1.40
3433 13113 4.408921 AGCCTGCTGAGGTACACAATAATA 59.591 41.667 0.00 0.00 42.15 0.98
3617 13472 6.978674 AGCTAGCAGTAGGTGTATGAAATA 57.021 37.500 18.83 0.00 35.60 1.40
3629 13484 5.756347 GGTGTATGAAATATTAGGCGTGTCA 59.244 40.000 0.00 0.00 0.00 3.58
3641 13496 4.067972 AGGCGTGTCACTTTTCTTCTAA 57.932 40.909 0.65 0.00 0.00 2.10
3643 13498 5.790593 AGGCGTGTCACTTTTCTTCTAATA 58.209 37.500 0.65 0.00 0.00 0.98
3750 13773 1.510480 AAGCTGGTGAAGAGCAACGC 61.510 55.000 0.00 0.00 39.05 4.84
3864 13892 2.487265 GCTTGTTCCTTCCTGGACTTGA 60.487 50.000 0.00 0.00 46.14 3.02
3920 13948 1.386525 ATGCATGCGTGTTGGGATCC 61.387 55.000 12.68 1.92 0.00 3.36
4003 14034 5.608676 TCTATTACTGTATCCTTCTCGCG 57.391 43.478 0.00 0.00 0.00 5.87
4037 14097 9.433153 GTAATTAGCCTTCCGTTATTAGCTATT 57.567 33.333 0.00 0.00 33.21 1.73
4038 14098 8.549338 AATTAGCCTTCCGTTATTAGCTATTC 57.451 34.615 0.00 0.00 33.21 1.75
4039 14099 4.895961 AGCCTTCCGTTATTAGCTATTCC 58.104 43.478 0.00 0.00 0.00 3.01
4040 14100 4.001652 GCCTTCCGTTATTAGCTATTCCC 58.998 47.826 0.00 0.00 0.00 3.97
4041 14101 4.262938 GCCTTCCGTTATTAGCTATTCCCT 60.263 45.833 0.00 0.00 0.00 4.20
4042 14102 5.745181 GCCTTCCGTTATTAGCTATTCCCTT 60.745 44.000 0.00 0.00 0.00 3.95
4043 14103 5.932883 CCTTCCGTTATTAGCTATTCCCTTC 59.067 44.000 0.00 0.00 0.00 3.46
4044 14104 5.130292 TCCGTTATTAGCTATTCCCTTCG 57.870 43.478 0.00 0.00 0.00 3.79
4045 14105 4.586001 TCCGTTATTAGCTATTCCCTTCGT 59.414 41.667 0.00 0.00 0.00 3.85
4046 14106 5.069516 TCCGTTATTAGCTATTCCCTTCGTT 59.930 40.000 0.00 0.00 0.00 3.85
4047 14107 5.404667 CCGTTATTAGCTATTCCCTTCGTTC 59.595 44.000 0.00 0.00 0.00 3.95
4048 14108 5.404667 CGTTATTAGCTATTCCCTTCGTTCC 59.595 44.000 0.00 0.00 0.00 3.62
4049 14109 6.285990 GTTATTAGCTATTCCCTTCGTTCCA 58.714 40.000 0.00 0.00 0.00 3.53
4050 14110 4.829872 TTAGCTATTCCCTTCGTTCCAA 57.170 40.909 0.00 0.00 0.00 3.53
4051 14111 3.713826 AGCTATTCCCTTCGTTCCAAA 57.286 42.857 0.00 0.00 0.00 3.28
4052 14112 4.236527 AGCTATTCCCTTCGTTCCAAAT 57.763 40.909 0.00 0.00 0.00 2.32
4053 14113 4.600062 AGCTATTCCCTTCGTTCCAAATT 58.400 39.130 0.00 0.00 0.00 1.82
4054 14114 5.751586 AGCTATTCCCTTCGTTCCAAATTA 58.248 37.500 0.00 0.00 0.00 1.40
4055 14115 5.589050 AGCTATTCCCTTCGTTCCAAATTAC 59.411 40.000 0.00 0.00 0.00 1.89
4056 14116 5.589050 GCTATTCCCTTCGTTCCAAATTACT 59.411 40.000 0.00 0.00 0.00 2.24
4057 14117 6.238402 GCTATTCCCTTCGTTCCAAATTACTC 60.238 42.308 0.00 0.00 0.00 2.59
4058 14118 3.592059 TCCCTTCGTTCCAAATTACTCG 58.408 45.455 0.00 0.00 0.00 4.18
4059 14119 3.007182 TCCCTTCGTTCCAAATTACTCGT 59.993 43.478 0.00 0.00 0.00 4.18
4060 14120 3.370061 CCCTTCGTTCCAAATTACTCGTC 59.630 47.826 0.00 0.00 0.00 4.20
4061 14121 3.060363 CCTTCGTTCCAAATTACTCGTCG 59.940 47.826 0.00 0.00 0.00 5.12
4062 14122 1.987770 TCGTTCCAAATTACTCGTCGC 59.012 47.619 0.00 0.00 0.00 5.19
4063 14123 1.722464 CGTTCCAAATTACTCGTCGCA 59.278 47.619 0.00 0.00 0.00 5.10
4064 14124 2.222508 CGTTCCAAATTACTCGTCGCAG 60.223 50.000 0.00 0.00 0.00 5.18
4065 14125 2.991190 GTTCCAAATTACTCGTCGCAGA 59.009 45.455 0.00 0.00 0.00 4.26
4066 14126 3.306917 TCCAAATTACTCGTCGCAGAA 57.693 42.857 0.00 0.00 39.69 3.02
4067 14127 3.655486 TCCAAATTACTCGTCGCAGAAA 58.345 40.909 0.00 0.00 39.69 2.52
4068 14128 4.250464 TCCAAATTACTCGTCGCAGAAAT 58.750 39.130 0.00 0.00 39.69 2.17
4069 14129 4.092821 TCCAAATTACTCGTCGCAGAAATG 59.907 41.667 0.00 0.00 39.69 2.32
4070 14130 4.334443 CAAATTACTCGTCGCAGAAATGG 58.666 43.478 0.00 0.00 39.69 3.16
4071 14131 3.520290 ATTACTCGTCGCAGAAATGGA 57.480 42.857 0.00 0.00 39.69 3.41
4072 14132 3.520290 TTACTCGTCGCAGAAATGGAT 57.480 42.857 0.00 0.00 39.69 3.41
4073 14133 1.645034 ACTCGTCGCAGAAATGGATG 58.355 50.000 0.00 0.00 39.69 3.51
4074 14134 1.066858 ACTCGTCGCAGAAATGGATGT 60.067 47.619 0.00 0.00 39.69 3.06
4075 14135 2.165641 ACTCGTCGCAGAAATGGATGTA 59.834 45.455 0.00 0.00 39.69 2.29
4076 14136 3.181475 ACTCGTCGCAGAAATGGATGTAT 60.181 43.478 0.00 0.00 39.69 2.29
4077 14137 3.381045 TCGTCGCAGAAATGGATGTATC 58.619 45.455 0.00 0.00 39.69 2.24
4078 14138 3.068165 TCGTCGCAGAAATGGATGTATCT 59.932 43.478 0.00 0.00 39.69 1.98
4079 14139 4.277423 TCGTCGCAGAAATGGATGTATCTA 59.723 41.667 0.00 0.00 39.69 1.98
4080 14140 4.618912 CGTCGCAGAAATGGATGTATCTAG 59.381 45.833 0.00 0.00 39.69 2.43
4081 14141 5.562890 CGTCGCAGAAATGGATGTATCTAGA 60.563 44.000 0.00 0.00 39.69 2.43
4082 14142 6.216569 GTCGCAGAAATGGATGTATCTAGAA 58.783 40.000 0.00 0.00 39.69 2.10
4083 14143 6.144724 GTCGCAGAAATGGATGTATCTAGAAC 59.855 42.308 0.00 0.00 39.69 3.01
4084 14144 6.040955 TCGCAGAAATGGATGTATCTAGAACT 59.959 38.462 0.00 0.00 0.00 3.01
4085 14145 7.230712 TCGCAGAAATGGATGTATCTAGAACTA 59.769 37.037 0.00 0.00 0.00 2.24
4086 14146 7.867909 CGCAGAAATGGATGTATCTAGAACTAA 59.132 37.037 0.00 0.00 0.00 2.24
4087 14147 9.547753 GCAGAAATGGATGTATCTAGAACTAAA 57.452 33.333 0.00 0.00 0.00 1.85
4113 14173 6.537453 ACATCTAGATACATCCATACCTGC 57.463 41.667 4.54 0.00 0.00 4.85
4114 14174 5.126222 ACATCTAGATACATCCATACCTGCG 59.874 44.000 4.54 0.00 0.00 5.18
4115 14175 4.918588 TCTAGATACATCCATACCTGCGA 58.081 43.478 0.00 0.00 0.00 5.10
4116 14176 3.944055 AGATACATCCATACCTGCGAC 57.056 47.619 0.00 0.00 0.00 5.19
4117 14177 3.230976 AGATACATCCATACCTGCGACA 58.769 45.455 0.00 0.00 0.00 4.35
4118 14178 3.641436 AGATACATCCATACCTGCGACAA 59.359 43.478 0.00 0.00 0.00 3.18
4119 14179 2.315925 ACATCCATACCTGCGACAAG 57.684 50.000 0.00 0.00 0.00 3.16
4120 14180 1.555075 ACATCCATACCTGCGACAAGT 59.445 47.619 0.00 0.00 0.00 3.16
4121 14181 2.764010 ACATCCATACCTGCGACAAGTA 59.236 45.455 0.00 0.00 0.00 2.24
4122 14182 3.196901 ACATCCATACCTGCGACAAGTAA 59.803 43.478 0.00 0.00 0.00 2.24
4123 14183 4.141711 ACATCCATACCTGCGACAAGTAAT 60.142 41.667 0.00 0.00 0.00 1.89
4124 14184 4.481368 TCCATACCTGCGACAAGTAATT 57.519 40.909 0.00 0.00 0.00 1.40
4125 14185 4.439057 TCCATACCTGCGACAAGTAATTC 58.561 43.478 0.00 0.00 0.00 2.17
4126 14186 3.245284 CCATACCTGCGACAAGTAATTCG 59.755 47.826 0.00 0.00 38.31 3.34
4127 14187 1.722011 ACCTGCGACAAGTAATTCGG 58.278 50.000 0.00 0.00 35.73 4.30
4128 14188 1.274167 ACCTGCGACAAGTAATTCGGA 59.726 47.619 0.00 0.00 35.73 4.55
4129 14189 2.289195 ACCTGCGACAAGTAATTCGGAA 60.289 45.455 0.00 0.00 35.02 4.30
4130 14190 2.093783 CCTGCGACAAGTAATTCGGAAC 59.906 50.000 0.00 0.00 35.02 3.62
4191 14254 1.237285 CCTTTTCTCACCCCGCACTG 61.237 60.000 0.00 0.00 0.00 3.66
4210 14275 4.379793 CACTGTAAAATTGTTCTCGCTTGC 59.620 41.667 0.00 0.00 0.00 4.01
4211 14276 4.275936 ACTGTAAAATTGTTCTCGCTTGCT 59.724 37.500 0.00 0.00 0.00 3.91
4212 14277 5.181690 TGTAAAATTGTTCTCGCTTGCTT 57.818 34.783 0.00 0.00 0.00 3.91
4213 14278 5.212194 TGTAAAATTGTTCTCGCTTGCTTC 58.788 37.500 0.00 0.00 0.00 3.86
4214 14279 2.997485 AATTGTTCTCGCTTGCTTCC 57.003 45.000 0.00 0.00 0.00 3.46
4215 14280 2.191128 ATTGTTCTCGCTTGCTTCCT 57.809 45.000 0.00 0.00 0.00 3.36
4216 14281 1.967319 TTGTTCTCGCTTGCTTCCTT 58.033 45.000 0.00 0.00 0.00 3.36
4217 14282 1.512926 TGTTCTCGCTTGCTTCCTTC 58.487 50.000 0.00 0.00 0.00 3.46
4254 14324 5.100344 AGCTTGTGATGATGTGATCTCTT 57.900 39.130 0.00 0.00 0.00 2.85
4270 14375 5.544176 TGATCTCTTTTGACAAGTACTCCCT 59.456 40.000 0.00 0.00 0.00 4.20
4275 14380 4.602340 TTTGACAAGTACTCCCTCTGTC 57.398 45.455 14.93 14.93 0.00 3.51
4276 14381 2.526432 TGACAAGTACTCCCTCTGTCC 58.474 52.381 17.77 5.24 0.00 4.02
4277 14382 1.826096 GACAAGTACTCCCTCTGTCCC 59.174 57.143 11.91 0.00 0.00 4.46
4278 14383 1.149288 ACAAGTACTCCCTCTGTCCCA 59.851 52.381 0.00 0.00 0.00 4.37
4287 14392 8.239478 AGTACTCCCTCTGTCCCATAATATAAA 58.761 37.037 0.00 0.00 0.00 1.40
4289 14394 7.978925 ACTCCCTCTGTCCCATAATATAAAAG 58.021 38.462 0.00 0.00 0.00 2.27
4295 14400 8.149973 TCTGTCCCATAATATAAAAGCGTTTC 57.850 34.615 0.00 0.00 0.00 2.78
4296 14401 7.990886 TCTGTCCCATAATATAAAAGCGTTTCT 59.009 33.333 0.00 0.00 0.00 2.52
4297 14402 8.514330 TGTCCCATAATATAAAAGCGTTTCTT 57.486 30.769 0.00 0.00 36.34 2.52
4298 14403 9.616156 TGTCCCATAATATAAAAGCGTTTCTTA 57.384 29.630 0.00 0.00 33.88 2.10
4309 14414 7.775397 AAAAGCGTTTCTTACACTACACTAA 57.225 32.000 0.00 0.00 33.88 2.24
4311 14416 6.946229 AGCGTTTCTTACACTACACTAATG 57.054 37.500 0.00 0.00 0.00 1.90
4312 14417 6.453092 AGCGTTTCTTACACTACACTAATGT 58.547 36.000 0.00 0.00 43.30 2.71
4313 14418 6.927381 AGCGTTTCTTACACTACACTAATGTT 59.073 34.615 0.00 0.00 40.48 2.71
4314 14419 8.084073 AGCGTTTCTTACACTACACTAATGTTA 58.916 33.333 0.00 0.00 40.48 2.41
4315 14420 8.702438 GCGTTTCTTACACTACACTAATGTTAA 58.298 33.333 0.00 0.00 40.48 2.01
4348 14453 8.492782 TCTTATATTATAGGACGGAGGGAGTAG 58.507 40.741 0.00 0.00 0.00 2.57
4349 14454 2.875094 TATAGGACGGAGGGAGTAGC 57.125 55.000 0.00 0.00 0.00 3.58
4362 14467 6.660094 CGGAGGGAGTAGCTAGTTAAGATATT 59.340 42.308 1.78 0.00 0.00 1.28
4431 14545 6.690530 CATGCAATCAAGGGAGAACTTAAAA 58.309 36.000 0.00 0.00 0.00 1.52
4433 14547 6.512297 TGCAATCAAGGGAGAACTTAAAAAC 58.488 36.000 0.00 0.00 0.00 2.43
4434 14548 6.097554 TGCAATCAAGGGAGAACTTAAAAACA 59.902 34.615 0.00 0.00 0.00 2.83
4435 14549 6.983890 GCAATCAAGGGAGAACTTAAAAACAA 59.016 34.615 0.00 0.00 0.00 2.83
4436 14550 7.657354 GCAATCAAGGGAGAACTTAAAAACAAT 59.343 33.333 0.00 0.00 0.00 2.71
4551 14670 2.348362 CGTTCGTGTATGCATGTGTGAT 59.652 45.455 10.16 0.00 33.51 3.06
4567 14686 5.779922 TGTGTGATAAGTCAGAACTACCAC 58.220 41.667 0.00 0.00 33.48 4.16
4568 14687 5.169295 GTGTGATAAGTCAGAACTACCACC 58.831 45.833 0.00 0.00 33.48 4.61
4570 14689 5.305902 TGTGATAAGTCAGAACTACCACCAA 59.694 40.000 0.00 0.00 33.48 3.67
4571 14690 5.869888 GTGATAAGTCAGAACTACCACCAAG 59.130 44.000 0.00 0.00 33.48 3.61
4572 14691 3.771577 AAGTCAGAACTACCACCAAGG 57.228 47.619 0.00 0.00 37.97 3.61
4573 14692 1.348036 AGTCAGAACTACCACCAAGGC 59.652 52.381 0.00 0.00 43.14 4.35
4574 14693 0.690762 TCAGAACTACCACCAAGGCC 59.309 55.000 0.00 0.00 43.14 5.19
4658 14780 2.183300 CATGGCATGGCACTGCAC 59.817 61.111 25.84 11.34 44.12 4.57
4681 14803 3.244579 GCTGGTAGCGTAGTAAATTTCGG 59.755 47.826 0.00 0.00 0.00 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
38 5166 7.567571 CATGTACATATCATGGTTTCGAGTTC 58.432 38.462 8.32 0.00 38.97 3.01
90 5334 3.188254 TGATTTTACCATGTGCGAGTGTG 59.812 43.478 0.00 0.00 0.00 3.82
148 5392 0.838122 AGGTACCACAGCTTCAGCCT 60.838 55.000 15.94 0.00 43.38 4.58
157 5401 1.276421 CCAAGTCCAGAGGTACCACAG 59.724 57.143 15.94 4.52 0.00 3.66
158 5402 1.348064 CCAAGTCCAGAGGTACCACA 58.652 55.000 15.94 0.00 0.00 4.17
184 5432 0.324943 ACGGAACCTTCCTCATGGTG 59.675 55.000 2.60 0.00 45.33 4.17
202 5450 7.741198 TGCACATTATACCTTTAACGTACAAC 58.259 34.615 0.00 0.00 0.00 3.32
203 5451 7.902387 TGCACATTATACCTTTAACGTACAA 57.098 32.000 0.00 0.00 0.00 2.41
346 8747 6.543465 TGGCTGAGATTTGTTAGATTACATGG 59.457 38.462 0.00 0.00 0.00 3.66
347 8748 7.558161 TGGCTGAGATTTGTTAGATTACATG 57.442 36.000 0.00 0.00 0.00 3.21
349 8750 9.679661 TTAATGGCTGAGATTTGTTAGATTACA 57.320 29.630 0.00 0.00 0.00 2.41
356 8766 7.178274 ACATGGTTTAATGGCTGAGATTTGTTA 59.822 33.333 0.00 0.00 31.46 2.41
367 8777 7.012044 GTCGTTAGATTACATGGTTTAATGGCT 59.988 37.037 0.00 0.00 31.46 4.75
368 8778 7.012044 AGTCGTTAGATTACATGGTTTAATGGC 59.988 37.037 0.00 0.00 31.46 4.40
379 8790 5.105310 AGCAGGTTGAGTCGTTAGATTACAT 60.105 40.000 0.00 0.00 0.00 2.29
393 8804 2.486982 CTCACCATTGAAGCAGGTTGAG 59.513 50.000 0.00 0.00 32.15 3.02
397 8808 1.901591 CACTCACCATTGAAGCAGGT 58.098 50.000 0.00 0.00 35.65 4.00
416 8827 3.176708 CTGCATGCTAAATGTGTTGAGC 58.823 45.455 20.33 0.00 41.51 4.26
458 8869 6.936222 ACTTATGTGATTAGCGATCGAATC 57.064 37.500 21.57 19.33 37.60 2.52
518 8929 8.450180 TGCACGTTGATATTAGGCATTATATTG 58.550 33.333 0.00 0.00 0.00 1.90
550 8961 9.642327 TTTGCTGATAACTAGTAAATTCGTACA 57.358 29.630 0.00 0.00 0.00 2.90
598 9009 6.450545 TGAAATACAAAAATCGCATGACCAA 58.549 32.000 0.00 0.00 0.00 3.67
636 9210 8.280084 TGTATAGTCCAAGAGTTATAGTGAGGT 58.720 37.037 0.00 0.00 0.00 3.85
776 9718 2.216898 CCTCTCCGAATTTCTGATGCC 58.783 52.381 0.00 0.00 0.00 4.40
884 9835 1.596727 GAAGAGAAGATGTGATGGCGC 59.403 52.381 0.00 0.00 0.00 6.53
934 9886 0.884514 GGAGAAAGCAAGAAGGTGCC 59.115 55.000 0.00 0.00 46.14 5.01
942 9894 0.890996 AAGCGGTGGGAGAAAGCAAG 60.891 55.000 0.00 0.00 0.00 4.01
986 9943 4.193334 TCATGACGAGAGCGCGGG 62.193 66.667 8.83 0.00 42.48 6.13
1264 10226 0.312102 AACGAAAGGAAAGCAGCTGC 59.688 50.000 31.53 31.53 42.49 5.25
1265 10227 1.068954 GGAACGAAAGGAAAGCAGCTG 60.069 52.381 10.11 10.11 0.00 4.24
1266 10228 1.239347 GGAACGAAAGGAAAGCAGCT 58.761 50.000 0.00 0.00 0.00 4.24
1267 10229 0.241213 GGGAACGAAAGGAAAGCAGC 59.759 55.000 0.00 0.00 0.00 5.25
1269 10231 1.314730 GTGGGAACGAAAGGAAAGCA 58.685 50.000 0.00 0.00 0.00 3.91
1270 10232 0.596577 GGTGGGAACGAAAGGAAAGC 59.403 55.000 0.00 0.00 0.00 3.51
1271 10233 1.202891 AGGGTGGGAACGAAAGGAAAG 60.203 52.381 0.00 0.00 0.00 2.62
1272 10234 0.848053 AGGGTGGGAACGAAAGGAAA 59.152 50.000 0.00 0.00 0.00 3.13
1275 10244 1.002502 GGAGGGTGGGAACGAAAGG 60.003 63.158 0.00 0.00 0.00 3.11
1281 10250 3.015753 GGGAGGGAGGGTGGGAAC 61.016 72.222 0.00 0.00 0.00 3.62
1388 10358 2.427245 CGATCTGCTTCCCCTCGGT 61.427 63.158 0.00 0.00 0.00 4.69
1503 10473 0.606401 AAGGCGTCACAAGACATGGG 60.606 55.000 0.00 0.00 45.23 4.00
2349 11466 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
2350 11467 5.830457 TGTAGAGAGAGAGAGAGAGAGAGAG 59.170 48.000 0.00 0.00 0.00 3.20
2351 11468 5.766590 TGTAGAGAGAGAGAGAGAGAGAGA 58.233 45.833 0.00 0.00 0.00 3.10
2353 11470 5.519808 ACTGTAGAGAGAGAGAGAGAGAGA 58.480 45.833 0.00 0.00 0.00 3.10
2356 11473 4.651503 AGGACTGTAGAGAGAGAGAGAGAG 59.348 50.000 0.00 0.00 0.00 3.20
2358 11475 4.499865 CGAGGACTGTAGAGAGAGAGAGAG 60.500 54.167 0.00 0.00 0.00 3.20
2359 11476 3.383505 CGAGGACTGTAGAGAGAGAGAGA 59.616 52.174 0.00 0.00 0.00 3.10
2360 11477 3.132289 ACGAGGACTGTAGAGAGAGAGAG 59.868 52.174 0.00 0.00 0.00 3.20
2361 11478 3.101437 ACGAGGACTGTAGAGAGAGAGA 58.899 50.000 0.00 0.00 0.00 3.10
2362 11479 3.118920 TCACGAGGACTGTAGAGAGAGAG 60.119 52.174 0.00 0.00 0.00 3.20
2363 11480 2.832733 TCACGAGGACTGTAGAGAGAGA 59.167 50.000 0.00 0.00 0.00 3.10
2364 11481 3.254470 TCACGAGGACTGTAGAGAGAG 57.746 52.381 0.00 0.00 0.00 3.20
2365 11482 3.697619 TTCACGAGGACTGTAGAGAGA 57.302 47.619 0.00 0.00 0.00 3.10
2366 11483 4.004314 TCTTTCACGAGGACTGTAGAGAG 58.996 47.826 0.00 0.00 0.00 3.20
2367 11484 4.004314 CTCTTTCACGAGGACTGTAGAGA 58.996 47.826 0.00 0.00 31.76 3.10
2368 11485 4.004314 TCTCTTTCACGAGGACTGTAGAG 58.996 47.826 0.00 0.00 0.00 2.43
3378 13058 0.674895 AGGATGCGCTTGTGTCCTTC 60.675 55.000 9.73 0.00 37.84 3.46
3617 13472 4.642429 AGAAGAAAAGTGACACGCCTAAT 58.358 39.130 0.00 0.00 0.00 1.73
3641 13496 7.118496 TGTCAAACTCAAAACCCATGTTTAT 57.882 32.000 0.00 0.00 43.80 1.40
3643 13498 5.413309 TGTCAAACTCAAAACCCATGTTT 57.587 34.783 0.00 0.00 46.50 2.83
3750 13773 4.034048 CGATGAATTACCCCTTCTTTGTCG 59.966 45.833 0.00 0.00 0.00 4.35
3855 13883 2.816087 CCAAAGACACCATCAAGTCCAG 59.184 50.000 0.00 0.00 35.38 3.86
3864 13892 1.686355 TCAAACGCCAAAGACACCAT 58.314 45.000 0.00 0.00 0.00 3.55
3920 13948 5.958955 TGCTCGATCTGGATCTTATACATG 58.041 41.667 8.65 0.00 35.72 3.21
4003 14034 4.120589 CGGAAGGCTAATTACAAGACCTC 58.879 47.826 0.00 0.00 0.00 3.85
4037 14097 3.007182 ACGAGTAATTTGGAACGAAGGGA 59.993 43.478 0.00 0.00 0.00 4.20
4038 14098 3.332034 ACGAGTAATTTGGAACGAAGGG 58.668 45.455 0.00 0.00 0.00 3.95
4039 14099 3.060363 CGACGAGTAATTTGGAACGAAGG 59.940 47.826 0.00 0.00 0.00 3.46
4040 14100 3.481467 GCGACGAGTAATTTGGAACGAAG 60.481 47.826 0.00 0.00 0.00 3.79
4041 14101 2.409378 GCGACGAGTAATTTGGAACGAA 59.591 45.455 0.00 0.00 0.00 3.85
4042 14102 1.987770 GCGACGAGTAATTTGGAACGA 59.012 47.619 0.00 0.00 0.00 3.85
4043 14103 1.722464 TGCGACGAGTAATTTGGAACG 59.278 47.619 0.00 0.00 0.00 3.95
4044 14104 2.991190 TCTGCGACGAGTAATTTGGAAC 59.009 45.455 0.00 0.00 0.00 3.62
4045 14105 3.306917 TCTGCGACGAGTAATTTGGAA 57.693 42.857 0.00 0.00 0.00 3.53
4046 14106 3.306917 TTCTGCGACGAGTAATTTGGA 57.693 42.857 0.00 0.00 0.00 3.53
4047 14107 4.334443 CATTTCTGCGACGAGTAATTTGG 58.666 43.478 0.00 0.00 0.00 3.28
4048 14108 4.092821 TCCATTTCTGCGACGAGTAATTTG 59.907 41.667 0.00 0.00 0.00 2.32
4049 14109 4.250464 TCCATTTCTGCGACGAGTAATTT 58.750 39.130 0.00 0.00 0.00 1.82
4050 14110 3.857052 TCCATTTCTGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
4051 14111 3.520290 TCCATTTCTGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
4052 14112 3.186909 CATCCATTTCTGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
4053 14113 2.165641 ACATCCATTTCTGCGACGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
4054 14114 1.066858 ACATCCATTTCTGCGACGAGT 60.067 47.619 0.00 0.00 0.00 4.18
4055 14115 1.645034 ACATCCATTTCTGCGACGAG 58.355 50.000 0.00 0.00 0.00 4.18
4056 14116 2.951457 TACATCCATTTCTGCGACGA 57.049 45.000 0.00 0.00 0.00 4.20
4057 14117 3.384668 AGATACATCCATTTCTGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
4058 14118 5.773575 TCTAGATACATCCATTTCTGCGAC 58.226 41.667 0.00 0.00 0.00 5.19
4059 14119 6.040955 AGTTCTAGATACATCCATTTCTGCGA 59.959 38.462 0.00 0.00 0.00 5.10
4060 14120 6.219473 AGTTCTAGATACATCCATTTCTGCG 58.781 40.000 0.00 0.00 0.00 5.18
4061 14121 9.547753 TTTAGTTCTAGATACATCCATTTCTGC 57.452 33.333 0.00 0.00 0.00 4.26
4087 14147 8.700051 GCAGGTATGGATGTATCTAGATGTATT 58.300 37.037 15.79 0.00 0.00 1.89
4088 14148 7.013750 CGCAGGTATGGATGTATCTAGATGTAT 59.986 40.741 15.79 9.11 0.00 2.29
4089 14149 6.318900 CGCAGGTATGGATGTATCTAGATGTA 59.681 42.308 15.79 4.44 0.00 2.29
4090 14150 5.126222 CGCAGGTATGGATGTATCTAGATGT 59.874 44.000 15.79 1.25 0.00 3.06
4091 14151 5.358160 TCGCAGGTATGGATGTATCTAGATG 59.642 44.000 15.79 0.00 0.00 2.90
4092 14152 5.358442 GTCGCAGGTATGGATGTATCTAGAT 59.642 44.000 10.73 10.73 0.00 1.98
4093 14153 4.700692 GTCGCAGGTATGGATGTATCTAGA 59.299 45.833 0.00 0.00 0.00 2.43
4094 14154 4.459337 TGTCGCAGGTATGGATGTATCTAG 59.541 45.833 0.00 0.00 0.00 2.43
4095 14155 4.403734 TGTCGCAGGTATGGATGTATCTA 58.596 43.478 0.00 0.00 0.00 1.98
4096 14156 3.230976 TGTCGCAGGTATGGATGTATCT 58.769 45.455 0.00 0.00 0.00 1.98
4097 14157 3.660501 TGTCGCAGGTATGGATGTATC 57.339 47.619 0.00 0.00 0.00 2.24
4098 14158 3.388024 ACTTGTCGCAGGTATGGATGTAT 59.612 43.478 0.00 0.00 0.00 2.29
4099 14159 2.764010 ACTTGTCGCAGGTATGGATGTA 59.236 45.455 0.00 0.00 0.00 2.29
4100 14160 1.555075 ACTTGTCGCAGGTATGGATGT 59.445 47.619 0.00 0.00 0.00 3.06
4101 14161 2.315925 ACTTGTCGCAGGTATGGATG 57.684 50.000 0.00 0.00 0.00 3.51
4102 14162 4.689612 ATTACTTGTCGCAGGTATGGAT 57.310 40.909 3.46 0.00 0.00 3.41
4103 14163 4.439057 GAATTACTTGTCGCAGGTATGGA 58.561 43.478 3.46 0.00 0.00 3.41
4104 14164 3.245284 CGAATTACTTGTCGCAGGTATGG 59.755 47.826 3.46 0.00 0.00 2.74
4105 14165 3.245284 CCGAATTACTTGTCGCAGGTATG 59.755 47.826 3.46 0.00 35.93 2.39
4106 14166 3.131577 TCCGAATTACTTGTCGCAGGTAT 59.868 43.478 3.46 0.00 35.93 2.73
4107 14167 2.492881 TCCGAATTACTTGTCGCAGGTA 59.507 45.455 0.00 0.00 35.93 3.08
4108 14168 1.274167 TCCGAATTACTTGTCGCAGGT 59.726 47.619 0.00 0.91 35.93 4.00
4109 14169 2.004583 TCCGAATTACTTGTCGCAGG 57.995 50.000 0.00 0.00 35.93 4.85
4110 14170 2.222508 CGTTCCGAATTACTTGTCGCAG 60.223 50.000 0.00 0.00 35.93 5.18
4111 14171 1.722464 CGTTCCGAATTACTTGTCGCA 59.278 47.619 0.00 0.00 35.93 5.10
4112 14172 1.060122 CCGTTCCGAATTACTTGTCGC 59.940 52.381 0.00 0.00 35.93 5.19
4113 14173 2.597305 CTCCGTTCCGAATTACTTGTCG 59.403 50.000 0.00 0.00 37.01 4.35
4114 14174 2.928116 CCTCCGTTCCGAATTACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
4115 14175 2.354403 CCCTCCGTTCCGAATTACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
4116 14176 2.093869 TCCCTCCGTTCCGAATTACTTG 60.094 50.000 0.00 0.00 0.00 3.16
4117 14177 2.167900 CTCCCTCCGTTCCGAATTACTT 59.832 50.000 0.00 0.00 0.00 2.24
4118 14178 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
4119 14179 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
4120 14180 1.856629 ACTCCCTCCGTTCCGAATTA 58.143 50.000 0.00 0.00 0.00 1.40
4121 14181 1.856629 TACTCCCTCCGTTCCGAATT 58.143 50.000 0.00 0.00 0.00 2.17
4122 14182 1.687123 CATACTCCCTCCGTTCCGAAT 59.313 52.381 0.00 0.00 0.00 3.34
4123 14183 1.108776 CATACTCCCTCCGTTCCGAA 58.891 55.000 0.00 0.00 0.00 4.30
4124 14184 0.256752 TCATACTCCCTCCGTTCCGA 59.743 55.000 0.00 0.00 0.00 4.55
4125 14185 0.384669 GTCATACTCCCTCCGTTCCG 59.615 60.000 0.00 0.00 0.00 4.30
4126 14186 1.409427 CTGTCATACTCCCTCCGTTCC 59.591 57.143 0.00 0.00 0.00 3.62
4127 14187 2.376109 TCTGTCATACTCCCTCCGTTC 58.624 52.381 0.00 0.00 0.00 3.95
4128 14188 2.526888 TCTGTCATACTCCCTCCGTT 57.473 50.000 0.00 0.00 0.00 4.44
4129 14189 2.526888 TTCTGTCATACTCCCTCCGT 57.473 50.000 0.00 0.00 0.00 4.69
4130 14190 3.493350 CCATTTCTGTCATACTCCCTCCG 60.493 52.174 0.00 0.00 0.00 4.63
4131 14191 3.181450 CCCATTTCTGTCATACTCCCTCC 60.181 52.174 0.00 0.00 0.00 4.30
4132 14192 3.711704 TCCCATTTCTGTCATACTCCCTC 59.288 47.826 0.00 0.00 0.00 4.30
4133 14193 3.713764 CTCCCATTTCTGTCATACTCCCT 59.286 47.826 0.00 0.00 0.00 4.20
4134 14194 3.456277 ACTCCCATTTCTGTCATACTCCC 59.544 47.826 0.00 0.00 0.00 4.30
4135 14195 4.162320 TCACTCCCATTTCTGTCATACTCC 59.838 45.833 0.00 0.00 0.00 3.85
4136 14196 5.112686 GTCACTCCCATTTCTGTCATACTC 58.887 45.833 0.00 0.00 0.00 2.59
4137 14197 4.532126 TGTCACTCCCATTTCTGTCATACT 59.468 41.667 0.00 0.00 0.00 2.12
4138 14198 4.832248 TGTCACTCCCATTTCTGTCATAC 58.168 43.478 0.00 0.00 0.00 2.39
4139 14199 5.497464 TTGTCACTCCCATTTCTGTCATA 57.503 39.130 0.00 0.00 0.00 2.15
4140 14200 4.371624 TTGTCACTCCCATTTCTGTCAT 57.628 40.909 0.00 0.00 0.00 3.06
4141 14201 3.855255 TTGTCACTCCCATTTCTGTCA 57.145 42.857 0.00 0.00 0.00 3.58
4191 14254 4.617223 GGAAGCAAGCGAGAACAATTTTAC 59.383 41.667 0.00 0.00 0.00 2.01
4210 14275 1.903183 ACGAGGAAGGAAGGAAGGAAG 59.097 52.381 0.00 0.00 0.00 3.46
4211 14276 2.025636 ACGAGGAAGGAAGGAAGGAA 57.974 50.000 0.00 0.00 0.00 3.36
4212 14277 2.025636 AACGAGGAAGGAAGGAAGGA 57.974 50.000 0.00 0.00 0.00 3.36
4213 14278 2.418884 GCTAACGAGGAAGGAAGGAAGG 60.419 54.545 0.00 0.00 0.00 3.46
4214 14279 2.498078 AGCTAACGAGGAAGGAAGGAAG 59.502 50.000 0.00 0.00 0.00 3.46
4215 14280 2.537143 AGCTAACGAGGAAGGAAGGAA 58.463 47.619 0.00 0.00 0.00 3.36
4216 14281 2.233305 AGCTAACGAGGAAGGAAGGA 57.767 50.000 0.00 0.00 0.00 3.36
4217 14282 2.028020 ACAAGCTAACGAGGAAGGAAGG 60.028 50.000 0.00 0.00 0.00 3.46
4254 14324 3.323979 GGACAGAGGGAGTACTTGTCAAA 59.676 47.826 20.68 0.00 0.00 2.69
4275 14380 9.659830 GTGTAAGAAACGCTTTTATATTATGGG 57.340 33.333 0.00 0.00 38.05 4.00
4287 14392 6.927381 ACATTAGTGTAGTGTAAGAAACGCTT 59.073 34.615 0.00 0.00 46.97 4.68
4289 14394 6.701432 ACATTAGTGTAGTGTAAGAAACGC 57.299 37.500 0.00 0.00 36.63 4.84
4295 14400 9.309796 GCGTTTTTAACATTAGTGTAGTGTAAG 57.690 33.333 0.00 0.00 37.67 2.34
4296 14401 9.044150 AGCGTTTTTAACATTAGTGTAGTGTAA 57.956 29.630 0.00 0.00 37.67 2.41
4297 14402 8.592105 AGCGTTTTTAACATTAGTGTAGTGTA 57.408 30.769 0.00 0.00 37.67 2.90
4298 14403 7.440255 AGAGCGTTTTTAACATTAGTGTAGTGT 59.560 33.333 0.00 0.00 37.67 3.55
4313 14418 9.630098 CCGTCCTATAATATAAGAGCGTTTTTA 57.370 33.333 0.00 0.00 0.00 1.52
4314 14419 8.362639 TCCGTCCTATAATATAAGAGCGTTTTT 58.637 33.333 0.00 0.00 0.00 1.94
4315 14420 7.889469 TCCGTCCTATAATATAAGAGCGTTTT 58.111 34.615 0.00 0.00 0.00 2.43
4331 14436 1.150872 AGCTACTCCCTCCGTCCTAT 58.849 55.000 0.00 0.00 0.00 2.57
4332 14437 1.698532 CTAGCTACTCCCTCCGTCCTA 59.301 57.143 0.00 0.00 0.00 2.94
4333 14438 0.475044 CTAGCTACTCCCTCCGTCCT 59.525 60.000 0.00 0.00 0.00 3.85
4334 14439 0.183252 ACTAGCTACTCCCTCCGTCC 59.817 60.000 0.00 0.00 0.00 4.79
4335 14440 2.055684 AACTAGCTACTCCCTCCGTC 57.944 55.000 0.00 0.00 0.00 4.79
4348 14453 9.646427 AACTAGCATAGCAATATCTTAACTAGC 57.354 33.333 0.00 0.00 44.39 3.42
4362 14467 2.234661 AGCAGTGACAACTAGCATAGCA 59.765 45.455 0.00 0.00 44.39 3.49
4431 14545 2.481568 CTCGATCGCATGCCATATTGTT 59.518 45.455 13.15 0.00 0.00 2.83
4433 14547 2.071540 ACTCGATCGCATGCCATATTG 58.928 47.619 13.15 7.60 0.00 1.90
4434 14548 2.028658 AGACTCGATCGCATGCCATATT 60.029 45.455 13.15 0.00 0.00 1.28
4435 14549 1.547820 AGACTCGATCGCATGCCATAT 59.452 47.619 13.15 3.10 0.00 1.78
4436 14550 0.961753 AGACTCGATCGCATGCCATA 59.038 50.000 13.15 0.00 0.00 2.74
4551 14670 3.007614 GCCTTGGTGGTAGTTCTGACTTA 59.992 47.826 0.00 0.00 38.35 2.24
4621 14743 0.661552 CATTGATCTGAAGGCGCAGG 59.338 55.000 10.83 0.00 36.55 4.85
4622 14744 0.029035 GCATTGATCTGAAGGCGCAG 59.971 55.000 10.83 0.00 37.24 5.18
4681 14803 2.286301 CGTCTTCTCGGTAATCGGTCTC 60.286 54.545 0.00 0.00 39.77 3.36


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

AutoCloner maintained by Alex Coulton.