Multiple sequence alignment - TraesCS3D01G015700

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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 TraesCS3D01G015700 chr3D 100.000 3089 0 0 1 3089 5608123 5611211 0.000000e+00 5705.0
1 TraesCS3D01G015700 chr3D 80.242 1159 152 41 998 2107 5681389 5680259 0.000000e+00 800.0
2 TraesCS3D01G015700 chr3D 88.298 94 11 0 2356 2449 79559947 79560040 2.520000e-21 113.0
3 TraesCS3D01G015700 chr3D 87.500 96 12 0 2356 2451 141474603 141474698 9.050000e-21 111.0
4 TraesCS3D01G015700 chr3B 88.314 2379 159 57 1 2320 28083476 28081158 0.000000e+00 2743.0
5 TraesCS3D01G015700 chr3B 89.291 2157 144 49 1 2110 12402263 12400147 0.000000e+00 2623.0
6 TraesCS3D01G015700 chr3B 80.700 1171 148 46 998 2107 12181752 12180599 0.000000e+00 839.0
7 TraesCS3D01G015700 chr3B 91.099 573 17 10 2525 3089 28078154 28077608 0.000000e+00 745.0
8 TraesCS3D01G015700 chr3B 87.432 183 16 2 2133 2314 12400085 12399909 1.450000e-48 204.0
9 TraesCS3D01G015700 chr3B 83.256 215 20 7 2500 2713 12399833 12399634 1.890000e-42 183.0
10 TraesCS3D01G015700 chr3B 98.276 58 0 1 2472 2528 28080981 28080924 1.960000e-17 100.0
11 TraesCS3D01G015700 chrUn 87.330 2352 169 70 1 2267 35453375 35451068 0.000000e+00 2573.0
12 TraesCS3D01G015700 chrUn 79.966 1168 159 49 998 2107 35795053 35796203 0.000000e+00 791.0
13 TraesCS3D01G015700 chrUn 90.541 74 3 3 2498 2568 35450873 35450801 9.120000e-16 95.3
14 TraesCS3D01G015700 chr3A 88.889 1575 104 36 784 2320 15781036 15779495 0.000000e+00 1873.0
15 TraesCS3D01G015700 chr3A 90.110 1365 92 11 773 2123 17258739 17257404 0.000000e+00 1733.0
16 TraesCS3D01G015700 chr3A 84.581 1135 129 30 976 2090 15695325 15694217 0.000000e+00 1085.0
17 TraesCS3D01G015700 chr3A 84.685 1110 130 16 998 2090 11629196 11628110 0.000000e+00 1072.0
18 TraesCS3D01G015700 chr3A 82.143 756 111 17 1373 2107 15604011 15604763 7.270000e-176 627.0
19 TraesCS3D01G015700 chr3A 84.144 473 33 22 2462 2914 15779468 15779018 1.320000e-113 420.0
20 TraesCS3D01G015700 chr3A 80.581 551 83 20 4 539 15782129 15781588 1.330000e-108 403.0
21 TraesCS3D01G015700 chr3A 94.413 179 7 1 2137 2315 15778291 15778116 3.930000e-69 272.0
22 TraesCS3D01G015700 chr3A 91.566 166 10 2 2155 2320 15776694 15776533 3.100000e-55 226.0
23 TraesCS3D01G015700 chr3A 84.314 153 5 10 2448 2595 15776540 15776402 6.950000e-27 132.0
24 TraesCS3D01G015700 chr3A 91.304 92 8 0 2356 2447 107042737 107042646 3.230000e-25 126.0
25 TraesCS3D01G015700 chr3A 93.023 86 2 1 2921 3006 15778943 15778862 4.180000e-24 122.0
26 TraesCS3D01G015700 chr6D 89.286 168 15 1 987 1154 456901166 456901002 1.120000e-49 207.0
27 TraesCS3D01G015700 chr6D 96.774 93 1 2 2356 2447 80008724 80008815 1.480000e-33 154.0
28 TraesCS3D01G015700 chr6D 90.000 90 9 0 2358 2447 187387825 187387736 1.950000e-22 117.0
29 TraesCS3D01G015700 chr6D 100.000 37 0 0 2321 2357 187387879 187387843 5.530000e-08 69.4
30 TraesCS3D01G015700 chr6D 100.000 29 0 0 2321 2349 80008672 80008700 2.000000e-03 54.7
31 TraesCS3D01G015700 chr2D 98.913 92 1 0 2356 2447 18769040 18769131 6.850000e-37 165.0
32 TraesCS3D01G015700 chr2D 100.000 38 0 0 2320 2357 18768987 18769024 1.540000e-08 71.3
33 TraesCS3D01G015700 chr1D 97.826 92 2 0 2356 2447 334610233 334610142 3.190000e-35 159.0
34 TraesCS3D01G015700 chr7D 96.809 94 3 0 2356 2449 519958434 519958527 1.150000e-34 158.0
35 TraesCS3D01G015700 chr7D 96.774 62 2 0 2356 2417 575922062 575922001 1.520000e-18 104.0
36 TraesCS3D01G015700 chr7D 100.000 38 0 0 2320 2357 519958381 519958418 1.540000e-08 71.3
37 TraesCS3D01G015700 chr5D 96.739 92 3 0 2356 2447 428574427 428574336 1.480000e-33 154.0
38 TraesCS3D01G015700 chr5D 100.000 37 0 0 2321 2357 428574479 428574443 5.530000e-08 69.4
39 TraesCS3D01G015700 chr5B 96.739 92 3 0 2356 2447 700942219 700942128 1.480000e-33 154.0
40 TraesCS3D01G015700 chr5B 100.000 28 0 0 2320 2347 700942272 700942245 6.000000e-03 52.8
41 TraesCS3D01G015700 chr1B 92.391 92 7 0 2356 2447 429199078 429199169 6.950000e-27 132.0


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 TraesCS3D01G015700 chr3D 5608123 5611211 3088 False 5705.000000 5705 100.000000 1 3089 1 chr3D.!!$F1 3088
1 TraesCS3D01G015700 chr3D 5680259 5681389 1130 True 800.000000 800 80.242000 998 2107 1 chr3D.!!$R1 1109
2 TraesCS3D01G015700 chr3B 28077608 28083476 5868 True 1196.000000 2743 92.563000 1 3089 3 chr3B.!!$R3 3088
3 TraesCS3D01G015700 chr3B 12399634 12402263 2629 True 1003.333333 2623 86.659667 1 2713 3 chr3B.!!$R2 2712
4 TraesCS3D01G015700 chr3B 12180599 12181752 1153 True 839.000000 839 80.700000 998 2107 1 chr3B.!!$R1 1109
5 TraesCS3D01G015700 chrUn 35450801 35453375 2574 True 1334.150000 2573 88.935500 1 2568 2 chrUn.!!$R1 2567
6 TraesCS3D01G015700 chrUn 35795053 35796203 1150 False 791.000000 791 79.966000 998 2107 1 chrUn.!!$F1 1109
7 TraesCS3D01G015700 chr3A 17257404 17258739 1335 True 1733.000000 1733 90.110000 773 2123 1 chr3A.!!$R3 1350
8 TraesCS3D01G015700 chr3A 15694217 15695325 1108 True 1085.000000 1085 84.581000 976 2090 1 chr3A.!!$R2 1114
9 TraesCS3D01G015700 chr3A 11628110 11629196 1086 True 1072.000000 1072 84.685000 998 2090 1 chr3A.!!$R1 1092
10 TraesCS3D01G015700 chr3A 15604011 15604763 752 False 627.000000 627 82.143000 1373 2107 1 chr3A.!!$F1 734
11 TraesCS3D01G015700 chr3A 15776402 15782129 5727 True 492.571429 1873 88.132857 4 3006 7 chr3A.!!$R5 3002

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
930 1300 0.109132 CTCCATTTGTTCTTGCGCCC 60.109 55.0 4.18 0.0 0.0 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2380 4330 0.034896 GAGACAGGCCCGTTTTCTGA 59.965 55.0 0.0 0.0 33.19 3.27 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
92 103 8.211198 AGCGTCTTGTTTTTATTAACAATTCG 57.789 30.769 15.07 15.07 44.44 3.34
116 127 8.788806 TCGCAAAATCTATTTAAAAGTCAAGGA 58.211 29.630 0.00 0.00 0.00 3.36
174 186 5.046878 ACAGAAGGTACGAACAACATATGGA 60.047 40.000 7.80 0.00 0.00 3.41
179 191 5.836898 AGGTACGAACAACATATGGATCCTA 59.163 40.000 14.23 3.34 0.00 2.94
305 317 4.825422 TGACTGTTCTTGAATGCTCCTAG 58.175 43.478 0.00 0.00 0.00 3.02
381 397 8.619146 TGAATTTATTGACATTTGAGCGAATC 57.381 30.769 0.00 0.00 0.00 2.52
462 478 2.386064 TTTGTTAGCCAGACCGCCGT 62.386 55.000 0.00 0.00 0.00 5.68
469 485 3.403057 CAGACCGCCGTGTGTTCG 61.403 66.667 0.00 0.00 0.00 3.95
590 607 6.947464 TGGAGTTTATGGACCAAAAACAAAA 58.053 32.000 0.00 0.00 35.93 2.44
600 621 6.816140 TGGACCAAAAACAAAAACAAGATCTC 59.184 34.615 0.00 0.00 0.00 2.75
601 622 6.019881 GGACCAAAAACAAAAACAAGATCTCG 60.020 38.462 0.00 0.00 0.00 4.04
687 709 2.503920 GCAATGTGCATCTCCCATTC 57.496 50.000 0.00 0.00 44.26 2.67
729 751 8.830580 CATTTTGACCGATTTATCATGTACTCT 58.169 33.333 0.00 0.00 0.00 3.24
733 755 6.773200 TGACCGATTTATCATGTACTCTCTCT 59.227 38.462 0.00 0.00 0.00 3.10
735 757 6.207810 ACCGATTTATCATGTACTCTCTCTCC 59.792 42.308 0.00 0.00 0.00 3.71
736 758 6.310960 CGATTTATCATGTACTCTCTCTCCG 58.689 44.000 0.00 0.00 0.00 4.63
737 759 6.072948 CGATTTATCATGTACTCTCTCTCCGT 60.073 42.308 0.00 0.00 0.00 4.69
751 779 5.044428 TCTCTCCGTTAATATAAGAGCGC 57.956 43.478 0.00 0.00 34.73 5.92
756 784 6.200286 TCTCCGTTAATATAAGAGCGCTTTTG 59.800 38.462 22.35 3.66 35.56 2.44
761 789 5.485662 AATATAAGAGCGCTTTTGACACC 57.514 39.130 22.35 1.66 35.56 4.16
765 793 0.947180 GAGCGCTTTTGACACCGGTA 60.947 55.000 13.26 0.00 0.00 4.02
834 1173 4.070552 AAGTGGAGGGACGCGAGC 62.071 66.667 15.93 3.71 0.00 5.03
873 1215 5.531659 GTCAATGATGAAGGAAGCATCTCAT 59.468 40.000 0.00 0.00 42.00 2.90
874 1216 5.763698 TCAATGATGAAGGAAGCATCTCATC 59.236 40.000 12.01 12.01 42.00 2.92
875 1217 5.570205 ATGATGAAGGAAGCATCTCATCT 57.430 39.130 17.09 5.58 42.00 2.90
930 1300 0.109132 CTCCATTTGTTCTTGCGCCC 60.109 55.000 4.18 0.00 0.00 6.13
1280 1669 0.693049 TTCCAGGTTCTTCCTCTGCC 59.307 55.000 0.00 0.00 46.24 4.85
1340 1767 1.000145 GATTCTTTCCCGCAGACGTC 59.000 55.000 7.70 7.70 37.70 4.34
1512 1960 4.553144 GTGTCCTCCACCAGGGTA 57.447 61.111 0.00 0.00 43.67 3.69
2125 2656 1.136252 CACCGAGATGCAACTGAAACG 60.136 52.381 0.00 0.00 0.00 3.60
2129 2660 2.029728 CGAGATGCAACTGAAACGATCC 59.970 50.000 0.00 0.00 0.00 3.36
2135 4053 2.413837 CAACTGAAACGATCCGGAGTT 58.586 47.619 11.34 6.80 0.00 3.01
2145 4063 2.609459 CGATCCGGAGTTTGATTGAAGG 59.391 50.000 11.34 0.00 0.00 3.46
2266 4216 8.785329 AGGATTTTTATTGTTGTTGTGTTTGT 57.215 26.923 0.00 0.00 0.00 2.83
2267 4217 8.663911 AGGATTTTTATTGTTGTTGTGTTTGTG 58.336 29.630 0.00 0.00 0.00 3.33
2268 4218 8.447053 GGATTTTTATTGTTGTTGTGTTTGTGT 58.553 29.630 0.00 0.00 0.00 3.72
2279 4229 1.326213 TGTTTGTGTGCACCCTTGGG 61.326 55.000 15.69 3.77 0.00 4.12
2312 4262 9.093970 CATGCTATTGAACACATCATTTTCATT 57.906 29.630 0.00 0.00 38.03 2.57
2313 4263 9.661563 ATGCTATTGAACACATCATTTTCATTT 57.338 25.926 0.00 0.00 38.03 2.32
2314 4264 9.491675 TGCTATTGAACACATCATTTTCATTTT 57.508 25.926 0.00 0.00 38.03 1.82
2315 4265 9.962759 GCTATTGAACACATCATTTTCATTTTC 57.037 29.630 0.00 0.00 38.03 2.29
2318 4268 8.961294 TTGAACACATCATTTTCATTTTCCTT 57.039 26.923 0.00 0.00 38.03 3.36
2319 4269 8.961294 TGAACACATCATTTTCATTTTCCTTT 57.039 26.923 0.00 0.00 31.50 3.11
2320 4270 8.828644 TGAACACATCATTTTCATTTTCCTTTG 58.171 29.630 0.00 0.00 31.50 2.77
2321 4271 8.961294 AACACATCATTTTCATTTTCCTTTGA 57.039 26.923 0.00 0.00 0.00 2.69
2322 4272 8.597662 ACACATCATTTTCATTTTCCTTTGAG 57.402 30.769 0.00 0.00 0.00 3.02
2323 4273 8.423349 ACACATCATTTTCATTTTCCTTTGAGA 58.577 29.630 0.00 0.00 0.00 3.27
2324 4274 8.922676 CACATCATTTTCATTTTCCTTTGAGAG 58.077 33.333 0.00 0.00 0.00 3.20
2325 4275 7.601508 ACATCATTTTCATTTTCCTTTGAGAGC 59.398 33.333 0.00 0.00 0.00 4.09
2326 4276 7.294017 TCATTTTCATTTTCCTTTGAGAGCT 57.706 32.000 0.00 0.00 0.00 4.09
2327 4277 7.149973 TCATTTTCATTTTCCTTTGAGAGCTG 58.850 34.615 0.00 0.00 0.00 4.24
2328 4278 4.510038 TTCATTTTCCTTTGAGAGCTGC 57.490 40.909 0.00 0.00 0.00 5.25
2329 4279 3.759581 TCATTTTCCTTTGAGAGCTGCT 58.240 40.909 0.00 0.00 0.00 4.24
2330 4280 4.910195 TCATTTTCCTTTGAGAGCTGCTA 58.090 39.130 0.15 0.00 0.00 3.49
2331 4281 5.503927 TCATTTTCCTTTGAGAGCTGCTAT 58.496 37.500 0.15 0.00 0.00 2.97
2332 4282 6.653020 TCATTTTCCTTTGAGAGCTGCTATA 58.347 36.000 0.15 0.00 0.00 1.31
2333 4283 6.540189 TCATTTTCCTTTGAGAGCTGCTATAC 59.460 38.462 0.15 0.00 0.00 1.47
2334 4284 3.717400 TCCTTTGAGAGCTGCTATACG 57.283 47.619 0.15 0.00 0.00 3.06
2335 4285 3.024547 TCCTTTGAGAGCTGCTATACGT 58.975 45.455 0.15 0.00 0.00 3.57
2336 4286 4.204799 TCCTTTGAGAGCTGCTATACGTA 58.795 43.478 0.15 0.00 0.00 3.57
2337 4287 4.036498 TCCTTTGAGAGCTGCTATACGTAC 59.964 45.833 0.15 0.00 0.00 3.67
2338 4288 3.604065 TTGAGAGCTGCTATACGTACG 57.396 47.619 15.01 15.01 0.00 3.67
2339 4289 2.830104 TGAGAGCTGCTATACGTACGA 58.170 47.619 24.41 6.04 0.00 3.43
2340 4290 3.400255 TGAGAGCTGCTATACGTACGAT 58.600 45.455 24.41 13.27 0.00 3.73
2341 4291 3.432592 TGAGAGCTGCTATACGTACGATC 59.567 47.826 24.41 6.19 0.00 3.69
2342 4292 3.400255 AGAGCTGCTATACGTACGATCA 58.600 45.455 24.41 6.86 0.00 2.92
2343 4293 3.813724 AGAGCTGCTATACGTACGATCAA 59.186 43.478 24.41 4.52 0.00 2.57
2344 4294 4.275196 AGAGCTGCTATACGTACGATCAAA 59.725 41.667 24.41 1.85 0.00 2.69
2345 4295 5.048643 AGAGCTGCTATACGTACGATCAAAT 60.049 40.000 24.41 9.29 0.00 2.32
2346 4296 5.529791 AGCTGCTATACGTACGATCAAATT 58.470 37.500 24.41 0.00 0.00 1.82
2347 4297 5.629849 AGCTGCTATACGTACGATCAAATTC 59.370 40.000 24.41 5.28 0.00 2.17
2348 4298 5.629849 GCTGCTATACGTACGATCAAATTCT 59.370 40.000 24.41 0.00 0.00 2.40
2349 4299 6.399039 GCTGCTATACGTACGATCAAATTCTG 60.399 42.308 24.41 7.86 0.00 3.02
2350 4300 6.500910 TGCTATACGTACGATCAAATTCTGT 58.499 36.000 24.41 0.00 0.00 3.41
2351 4301 7.641760 TGCTATACGTACGATCAAATTCTGTA 58.358 34.615 24.41 0.00 0.00 2.74
2352 4302 7.801783 TGCTATACGTACGATCAAATTCTGTAG 59.198 37.037 24.41 8.95 0.00 2.74
2353 4303 7.270793 GCTATACGTACGATCAAATTCTGTAGG 59.729 40.741 24.41 0.00 0.00 3.18
2354 4304 5.571784 ACGTACGATCAAATTCTGTAGGA 57.428 39.130 24.41 0.00 0.00 2.94
2355 4305 6.145338 ACGTACGATCAAATTCTGTAGGAT 57.855 37.500 24.41 0.00 0.00 3.24
2356 4306 6.207213 ACGTACGATCAAATTCTGTAGGATC 58.793 40.000 24.41 0.00 0.00 3.36
2357 4307 6.183360 ACGTACGATCAAATTCTGTAGGATCA 60.183 38.462 24.41 0.00 35.29 2.92
2358 4308 6.863645 CGTACGATCAAATTCTGTAGGATCAT 59.136 38.462 10.44 0.00 35.29 2.45
2359 4309 7.061210 CGTACGATCAAATTCTGTAGGATCATC 59.939 40.741 10.44 0.00 35.29 2.92
2360 4310 7.060383 ACGATCAAATTCTGTAGGATCATCT 57.940 36.000 0.00 0.00 35.29 2.90
2361 4311 6.927936 ACGATCAAATTCTGTAGGATCATCTG 59.072 38.462 0.00 0.00 35.29 2.90
2362 4312 7.150640 CGATCAAATTCTGTAGGATCATCTGA 58.849 38.462 0.00 0.00 35.29 3.27
2363 4313 7.818446 CGATCAAATTCTGTAGGATCATCTGAT 59.182 37.037 0.00 0.00 35.29 2.90
2364 4314 8.850007 ATCAAATTCTGTAGGATCATCTGATG 57.150 34.615 11.42 11.42 34.37 3.07
2365 4315 7.799081 TCAAATTCTGTAGGATCATCTGATGT 58.201 34.615 16.66 5.16 34.37 3.06
2366 4316 7.713942 TCAAATTCTGTAGGATCATCTGATGTG 59.286 37.037 16.66 3.66 34.37 3.21
2367 4317 5.541953 TTCTGTAGGATCATCTGATGTGG 57.458 43.478 16.66 0.00 34.37 4.17
2368 4318 4.550669 TCTGTAGGATCATCTGATGTGGT 58.449 43.478 16.66 5.30 34.37 4.16
2369 4319 4.343239 TCTGTAGGATCATCTGATGTGGTG 59.657 45.833 16.66 0.00 34.37 4.17
2370 4320 3.389002 TGTAGGATCATCTGATGTGGTGG 59.611 47.826 16.66 0.00 34.37 4.61
2371 4321 1.773052 AGGATCATCTGATGTGGTGGG 59.227 52.381 16.66 0.00 34.37 4.61
2372 4322 1.602311 GATCATCTGATGTGGTGGGC 58.398 55.000 16.66 0.00 34.37 5.36
2373 4323 0.184451 ATCATCTGATGTGGTGGGCC 59.816 55.000 16.66 0.00 32.68 5.80
2374 4324 1.206811 TCATCTGATGTGGTGGGCCA 61.207 55.000 16.66 0.00 43.73 5.36
2375 4325 5.834460 GATCATCTGATGTGGTGGGCCAA 62.834 52.174 8.40 0.00 39.79 4.52
2382 4332 2.449518 TGGTGGGCCAAGACCTCA 60.450 61.111 8.40 0.00 42.83 3.86
2383 4333 2.352805 GGTGGGCCAAGACCTCAG 59.647 66.667 8.40 0.00 34.09 3.35
2384 4334 2.224159 GGTGGGCCAAGACCTCAGA 61.224 63.158 8.40 0.00 34.09 3.27
2385 4335 1.761174 GTGGGCCAAGACCTCAGAA 59.239 57.895 8.40 0.00 0.00 3.02
2386 4336 0.110486 GTGGGCCAAGACCTCAGAAA 59.890 55.000 8.40 0.00 0.00 2.52
2387 4337 0.850100 TGGGCCAAGACCTCAGAAAA 59.150 50.000 2.13 0.00 0.00 2.29
2388 4338 1.248486 GGGCCAAGACCTCAGAAAAC 58.752 55.000 4.39 0.00 0.00 2.43
2389 4339 0.875059 GGCCAAGACCTCAGAAAACG 59.125 55.000 0.00 0.00 0.00 3.60
2390 4340 0.875059 GCCAAGACCTCAGAAAACGG 59.125 55.000 0.00 0.00 0.00 4.44
2391 4341 1.523758 CCAAGACCTCAGAAAACGGG 58.476 55.000 0.00 0.00 0.00 5.28
2392 4342 0.875059 CAAGACCTCAGAAAACGGGC 59.125 55.000 0.00 0.00 0.00 6.13
2393 4343 0.250770 AAGACCTCAGAAAACGGGCC 60.251 55.000 0.00 0.00 0.00 5.80
2394 4344 1.128188 AGACCTCAGAAAACGGGCCT 61.128 55.000 0.84 0.00 0.00 5.19
2395 4345 0.955919 GACCTCAGAAAACGGGCCTG 60.956 60.000 11.02 11.02 0.00 4.85
2396 4346 1.073199 CCTCAGAAAACGGGCCTGT 59.927 57.895 12.85 12.85 0.00 4.00
2397 4347 0.955919 CCTCAGAAAACGGGCCTGTC 60.956 60.000 20.00 5.62 0.00 3.51
2398 4348 0.035458 CTCAGAAAACGGGCCTGTCT 59.965 55.000 20.00 8.29 0.00 3.41
2399 4349 0.034896 TCAGAAAACGGGCCTGTCTC 59.965 55.000 20.00 17.48 0.00 3.36
2400 4350 0.035458 CAGAAAACGGGCCTGTCTCT 59.965 55.000 20.00 19.50 0.00 3.10
2401 4351 0.765510 AGAAAACGGGCCTGTCTCTT 59.234 50.000 20.00 11.98 0.00 2.85
2402 4352 1.157585 GAAAACGGGCCTGTCTCTTC 58.842 55.000 20.00 16.75 0.00 2.87
2403 4353 0.765510 AAAACGGGCCTGTCTCTTCT 59.234 50.000 20.00 0.00 0.00 2.85
2404 4354 0.321996 AAACGGGCCTGTCTCTTCTC 59.678 55.000 20.00 0.00 0.00 2.87
2405 4355 1.878656 AACGGGCCTGTCTCTTCTCG 61.879 60.000 20.00 3.05 0.00 4.04
2406 4356 2.344203 CGGGCCTGTCTCTTCTCGT 61.344 63.158 2.29 0.00 0.00 4.18
2407 4357 1.030488 CGGGCCTGTCTCTTCTCGTA 61.030 60.000 2.29 0.00 0.00 3.43
2408 4358 0.456628 GGGCCTGTCTCTTCTCGTAC 59.543 60.000 0.84 0.00 0.00 3.67
2409 4359 1.174783 GGCCTGTCTCTTCTCGTACA 58.825 55.000 0.00 0.00 0.00 2.90
2410 4360 1.544691 GGCCTGTCTCTTCTCGTACAA 59.455 52.381 0.00 0.00 0.00 2.41
2411 4361 2.029290 GGCCTGTCTCTTCTCGTACAAA 60.029 50.000 0.00 0.00 0.00 2.83
2412 4362 3.368531 GGCCTGTCTCTTCTCGTACAAAT 60.369 47.826 0.00 0.00 0.00 2.32
2413 4363 3.860536 GCCTGTCTCTTCTCGTACAAATC 59.139 47.826 0.00 0.00 0.00 2.17
2414 4364 4.099120 CCTGTCTCTTCTCGTACAAATCG 58.901 47.826 0.00 0.00 0.00 3.34
2415 4365 4.379603 CCTGTCTCTTCTCGTACAAATCGT 60.380 45.833 0.00 0.00 0.00 3.73
2416 4366 5.163784 CCTGTCTCTTCTCGTACAAATCGTA 60.164 44.000 0.00 0.00 0.00 3.43
2417 4367 6.432607 TGTCTCTTCTCGTACAAATCGTAT 57.567 37.500 0.00 0.00 31.20 3.06
2418 4368 6.255950 TGTCTCTTCTCGTACAAATCGTATG 58.744 40.000 0.00 0.00 38.30 2.39
2419 4369 5.171695 GTCTCTTCTCGTACAAATCGTATGC 59.828 44.000 0.00 0.00 37.07 3.14
2420 4370 4.357142 TCTTCTCGTACAAATCGTATGCC 58.643 43.478 0.00 0.00 37.07 4.40
2421 4371 3.786516 TCTCGTACAAATCGTATGCCA 57.213 42.857 0.00 0.00 37.07 4.92
2422 4372 3.702330 TCTCGTACAAATCGTATGCCAG 58.298 45.455 0.00 0.00 37.07 4.85
2423 4373 3.129813 TCTCGTACAAATCGTATGCCAGT 59.870 43.478 0.00 0.00 37.07 4.00
2424 4374 3.852286 TCGTACAAATCGTATGCCAGTT 58.148 40.909 0.00 0.00 37.07 3.16
2425 4375 3.615056 TCGTACAAATCGTATGCCAGTTG 59.385 43.478 0.00 0.00 37.07 3.16
2426 4376 3.615056 CGTACAAATCGTATGCCAGTTGA 59.385 43.478 0.00 0.00 30.48 3.18
2427 4377 4.270084 CGTACAAATCGTATGCCAGTTGAT 59.730 41.667 0.00 0.00 30.48 2.57
2428 4378 4.882671 ACAAATCGTATGCCAGTTGATC 57.117 40.909 0.00 0.00 0.00 2.92
2429 4379 3.309682 ACAAATCGTATGCCAGTTGATCG 59.690 43.478 0.00 0.00 0.00 3.69
2430 4380 2.890808 ATCGTATGCCAGTTGATCGT 57.109 45.000 0.00 0.00 0.00 3.73
2431 4381 4.316205 AATCGTATGCCAGTTGATCGTA 57.684 40.909 0.00 0.00 0.00 3.43
2432 4382 3.074504 TCGTATGCCAGTTGATCGTAC 57.925 47.619 0.00 0.00 0.00 3.67
2433 4383 1.779157 CGTATGCCAGTTGATCGTACG 59.221 52.381 9.53 9.53 38.69 3.67
2434 4384 2.793585 CGTATGCCAGTTGATCGTACGT 60.794 50.000 16.05 2.33 39.48 3.57
2435 4385 1.640428 ATGCCAGTTGATCGTACGTG 58.360 50.000 16.05 4.70 0.00 4.49
2436 4386 0.599060 TGCCAGTTGATCGTACGTGA 59.401 50.000 16.05 0.00 0.00 4.35
2437 4387 1.269166 GCCAGTTGATCGTACGTGAG 58.731 55.000 16.05 0.99 0.00 3.51
2438 4388 1.909376 CCAGTTGATCGTACGTGAGG 58.091 55.000 16.05 5.35 0.00 3.86
2439 4389 1.269166 CAGTTGATCGTACGTGAGGC 58.731 55.000 16.05 4.62 0.00 4.70
2440 4390 0.885879 AGTTGATCGTACGTGAGGCA 59.114 50.000 16.05 4.83 0.00 4.75
2441 4391 1.135373 AGTTGATCGTACGTGAGGCAG 60.135 52.381 16.05 0.00 0.00 4.85
2442 4392 0.885879 TTGATCGTACGTGAGGCAGT 59.114 50.000 16.05 0.00 0.00 4.40
2443 4393 0.885879 TGATCGTACGTGAGGCAGTT 59.114 50.000 16.05 0.00 0.00 3.16
2444 4394 1.271379 TGATCGTACGTGAGGCAGTTT 59.729 47.619 16.05 0.00 0.00 2.66
2445 4395 1.918609 GATCGTACGTGAGGCAGTTTC 59.081 52.381 16.05 0.00 0.00 2.78
2446 4396 0.386352 TCGTACGTGAGGCAGTTTCG 60.386 55.000 16.05 0.00 0.00 3.46
2470 4420 4.112634 TCCTTTTGGGGGCATCATATAC 57.887 45.455 0.00 0.00 40.87 1.47
2577 7544 4.697514 ACCACACACATGCTATCTGATAC 58.302 43.478 0.00 0.00 0.00 2.24
2578 7545 4.406972 ACCACACACATGCTATCTGATACT 59.593 41.667 0.00 0.00 0.00 2.12
2579 7546 5.598417 ACCACACACATGCTATCTGATACTA 59.402 40.000 0.00 0.00 0.00 1.82
2694 8531 6.872020 TCTTTCTGTTTTGTATAACCTCTCCG 59.128 38.462 0.00 0.00 0.00 4.63
2807 8650 6.702716 AAAAATGTCAAAACCTCTCGGTAA 57.297 33.333 0.00 0.00 44.73 2.85
2860 8703 3.063588 GGCCGAAGCATCTAACTACAAAC 59.936 47.826 0.00 0.00 42.56 2.93
2881 8724 1.087501 GAAACCGAGAACATGGCCTC 58.912 55.000 3.32 2.02 0.00 4.70
3019 8862 4.970860 ATGTGGCAGTCTAGCTAATGAT 57.029 40.909 0.00 0.00 34.17 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
89 100 9.405587 CCTTGACTTTTAAATAGATTTTGCGAA 57.594 29.630 0.00 0.00 0.00 4.70
363 379 9.643693 AAATTTAAGATTCGCTCAAATGTCAAT 57.356 25.926 0.00 0.00 0.00 2.57
364 380 8.914654 CAAATTTAAGATTCGCTCAAATGTCAA 58.085 29.630 0.00 0.00 0.00 3.18
586 603 5.942872 ACTATTGGCGAGATCTTGTTTTTG 58.057 37.500 11.71 1.62 0.00 2.44
590 607 6.313905 CACTAAACTATTGGCGAGATCTTGTT 59.686 38.462 11.71 0.00 0.00 2.83
600 621 5.856126 TCTTTGTCACTAAACTATTGGCG 57.144 39.130 0.00 0.00 0.00 5.69
601 622 8.604890 GTCTATCTTTGTCACTAAACTATTGGC 58.395 37.037 0.00 0.00 0.00 4.52
701 723 6.773976 ACATGATAAATCGGTCAAAATGGT 57.226 33.333 0.00 0.00 0.00 3.55
710 732 6.207810 GGAGAGAGAGTACATGATAAATCGGT 59.792 42.308 0.00 0.00 0.00 4.69
714 736 7.589958 AACGGAGAGAGAGTACATGATAAAT 57.410 36.000 0.00 0.00 0.00 1.40
729 751 4.760715 AGCGCTCTTATATTAACGGAGAGA 59.239 41.667 2.64 0.00 36.77 3.10
733 755 6.019318 GTCAAAAGCGCTCTTATATTAACGGA 60.019 38.462 12.06 0.00 31.02 4.69
735 757 6.623743 GTGTCAAAAGCGCTCTTATATTAACG 59.376 38.462 12.06 0.00 31.02 3.18
736 758 6.905609 GGTGTCAAAAGCGCTCTTATATTAAC 59.094 38.462 12.06 3.22 31.02 2.01
737 759 6.237996 CGGTGTCAAAAGCGCTCTTATATTAA 60.238 38.462 12.06 0.00 33.92 1.40
751 779 3.672767 ACTAGGTACCGGTGTCAAAAG 57.327 47.619 19.93 9.51 0.00 2.27
756 784 4.881920 TGTTTTTACTAGGTACCGGTGTC 58.118 43.478 19.93 10.33 0.00 3.67
834 1173 4.183865 TCATTGACTAGTGCTGAATTCCG 58.816 43.478 0.00 0.00 0.00 4.30
873 1215 5.706833 GCACTAGAGATGAGATGAGATGAGA 59.293 44.000 0.00 0.00 0.00 3.27
874 1216 5.391203 CGCACTAGAGATGAGATGAGATGAG 60.391 48.000 0.00 0.00 0.00 2.90
875 1217 4.455190 CGCACTAGAGATGAGATGAGATGA 59.545 45.833 0.00 0.00 0.00 2.92
910 1252 0.109132 GGCGCAAGAACAAATGGAGG 60.109 55.000 10.83 0.00 43.02 4.30
930 1300 1.068541 GGCCAAACTTTTCCTGTAGCG 60.069 52.381 0.00 0.00 0.00 4.26
953 1323 0.528470 CCTCTCCGTCTGTTCTGTCC 59.472 60.000 0.00 0.00 0.00 4.02
985 1355 1.542030 CTGCATCCTACCTACCTAGCG 59.458 57.143 0.00 0.00 0.00 4.26
1280 1669 0.851332 AAGGGAAGGGAAGGAAGGGG 60.851 60.000 0.00 0.00 0.00 4.79
1340 1767 4.598894 CTCCGGCGGCAGATCAGG 62.599 72.222 23.83 0.06 0.00 3.86
2125 2656 2.356069 GCCTTCAATCAAACTCCGGATC 59.644 50.000 3.57 0.00 0.00 3.36
2129 2660 0.179189 GCGCCTTCAATCAAACTCCG 60.179 55.000 0.00 0.00 0.00 4.63
2135 4053 0.889994 ATGCAAGCGCCTTCAATCAA 59.110 45.000 2.29 0.00 37.32 2.57
2263 4213 0.105760 ATTCCCAAGGGTGCACACAA 60.106 50.000 23.57 6.56 36.47 3.33
2264 4214 0.105760 AATTCCCAAGGGTGCACACA 60.106 50.000 23.57 0.00 36.47 3.72
2265 4215 0.603065 GAATTCCCAAGGGTGCACAC 59.397 55.000 20.43 16.76 36.47 3.82
2266 4216 0.893270 CGAATTCCCAAGGGTGCACA 60.893 55.000 20.43 0.00 36.47 4.57
2267 4217 1.883021 CGAATTCCCAAGGGTGCAC 59.117 57.895 8.80 8.80 36.47 4.57
2268 4218 1.976474 GCGAATTCCCAAGGGTGCA 60.976 57.895 4.80 0.00 36.47 4.57
2279 4229 4.661125 TGTGTTCAATAGCATGCGAATTC 58.339 39.130 13.01 5.70 0.00 2.17
2312 4262 4.081642 ACGTATAGCAGCTCTCAAAGGAAA 60.082 41.667 0.00 0.00 0.00 3.13
2313 4263 3.447586 ACGTATAGCAGCTCTCAAAGGAA 59.552 43.478 0.00 0.00 0.00 3.36
2314 4264 3.024547 ACGTATAGCAGCTCTCAAAGGA 58.975 45.455 0.00 0.00 0.00 3.36
2315 4265 3.444703 ACGTATAGCAGCTCTCAAAGG 57.555 47.619 0.00 0.00 0.00 3.11
2316 4266 3.969352 CGTACGTATAGCAGCTCTCAAAG 59.031 47.826 7.22 0.00 0.00 2.77
2317 4267 3.624410 TCGTACGTATAGCAGCTCTCAAA 59.376 43.478 16.05 0.00 0.00 2.69
2318 4268 3.200483 TCGTACGTATAGCAGCTCTCAA 58.800 45.455 16.05 0.00 0.00 3.02
2319 4269 2.830104 TCGTACGTATAGCAGCTCTCA 58.170 47.619 16.05 0.00 0.00 3.27
2320 4270 3.432592 TGATCGTACGTATAGCAGCTCTC 59.567 47.826 16.05 0.00 0.00 3.20
2321 4271 3.400255 TGATCGTACGTATAGCAGCTCT 58.600 45.455 16.05 0.00 0.00 4.09
2322 4272 3.808116 TGATCGTACGTATAGCAGCTC 57.192 47.619 16.05 0.90 0.00 4.09
2323 4273 4.563337 TTTGATCGTACGTATAGCAGCT 57.437 40.909 16.05 0.00 0.00 4.24
2324 4274 5.629849 AGAATTTGATCGTACGTATAGCAGC 59.370 40.000 16.05 0.00 0.00 5.25
2325 4275 6.637254 ACAGAATTTGATCGTACGTATAGCAG 59.363 38.462 16.05 0.84 0.00 4.24
2326 4276 6.500910 ACAGAATTTGATCGTACGTATAGCA 58.499 36.000 16.05 1.77 0.00 3.49
2327 4277 6.988109 ACAGAATTTGATCGTACGTATAGC 57.012 37.500 16.05 0.00 0.00 2.97
2328 4278 8.501580 TCCTACAGAATTTGATCGTACGTATAG 58.498 37.037 16.05 0.00 0.00 1.31
2329 4279 8.382030 TCCTACAGAATTTGATCGTACGTATA 57.618 34.615 16.05 0.00 0.00 1.47
2330 4280 7.268199 TCCTACAGAATTTGATCGTACGTAT 57.732 36.000 16.05 7.52 0.00 3.06
2331 4281 6.682423 TCCTACAGAATTTGATCGTACGTA 57.318 37.500 16.05 2.34 0.00 3.57
2332 4282 5.571784 TCCTACAGAATTTGATCGTACGT 57.428 39.130 16.05 2.33 0.00 3.57
2333 4283 6.206498 TGATCCTACAGAATTTGATCGTACG 58.794 40.000 9.53 9.53 35.67 3.67
2334 4284 8.085296 AGATGATCCTACAGAATTTGATCGTAC 58.915 37.037 0.00 0.00 35.67 3.67
2335 4285 8.084684 CAGATGATCCTACAGAATTTGATCGTA 58.915 37.037 0.00 0.00 35.67 3.43
2336 4286 6.927936 CAGATGATCCTACAGAATTTGATCGT 59.072 38.462 0.00 0.00 35.67 3.73
2337 4287 7.150640 TCAGATGATCCTACAGAATTTGATCG 58.849 38.462 0.00 0.00 35.67 3.69
2338 4288 8.937884 CATCAGATGATCCTACAGAATTTGATC 58.062 37.037 4.11 0.00 31.21 2.92
2339 4289 8.438373 ACATCAGATGATCCTACAGAATTTGAT 58.562 33.333 17.81 0.00 31.21 2.57
2340 4290 7.713942 CACATCAGATGATCCTACAGAATTTGA 59.286 37.037 17.81 0.00 31.21 2.69
2341 4291 7.041303 CCACATCAGATGATCCTACAGAATTTG 60.041 40.741 17.81 0.00 31.21 2.32
2342 4292 6.996879 CCACATCAGATGATCCTACAGAATTT 59.003 38.462 17.81 0.00 31.21 1.82
2343 4293 6.100859 ACCACATCAGATGATCCTACAGAATT 59.899 38.462 17.81 0.00 31.21 2.17
2344 4294 5.605908 ACCACATCAGATGATCCTACAGAAT 59.394 40.000 17.81 0.00 31.21 2.40
2345 4295 4.964897 ACCACATCAGATGATCCTACAGAA 59.035 41.667 17.81 0.00 31.21 3.02
2346 4296 4.343239 CACCACATCAGATGATCCTACAGA 59.657 45.833 17.81 0.00 31.21 3.41
2347 4297 4.502777 CCACCACATCAGATGATCCTACAG 60.503 50.000 17.81 0.00 31.21 2.74
2348 4298 3.389002 CCACCACATCAGATGATCCTACA 59.611 47.826 17.81 0.00 31.21 2.74
2349 4299 3.244353 CCCACCACATCAGATGATCCTAC 60.244 52.174 17.81 0.00 31.21 3.18
2350 4300 2.974794 CCCACCACATCAGATGATCCTA 59.025 50.000 17.81 0.00 31.21 2.94
2351 4301 1.773052 CCCACCACATCAGATGATCCT 59.227 52.381 17.81 0.00 31.21 3.24
2352 4302 1.816961 GCCCACCACATCAGATGATCC 60.817 57.143 17.81 0.00 31.21 3.36
2353 4303 1.602311 GCCCACCACATCAGATGATC 58.398 55.000 17.81 0.00 31.21 2.92
2354 4304 0.184451 GGCCCACCACATCAGATGAT 59.816 55.000 17.81 0.00 35.26 2.45
2355 4305 1.206811 TGGCCCACCACATCAGATGA 61.207 55.000 17.81 0.00 42.67 2.92
2356 4306 1.303948 TGGCCCACCACATCAGATG 59.696 57.895 9.03 9.03 42.67 2.90
2357 4307 3.839589 TGGCCCACCACATCAGAT 58.160 55.556 0.00 0.00 42.67 2.90
2366 4316 1.779061 TTCTGAGGTCTTGGCCCACC 61.779 60.000 0.00 3.51 0.00 4.61
2367 4317 0.110486 TTTCTGAGGTCTTGGCCCAC 59.890 55.000 0.00 0.00 0.00 4.61
2368 4318 0.850100 TTTTCTGAGGTCTTGGCCCA 59.150 50.000 0.00 0.00 0.00 5.36
2369 4319 1.248486 GTTTTCTGAGGTCTTGGCCC 58.752 55.000 0.00 0.00 0.00 5.80
2370 4320 0.875059 CGTTTTCTGAGGTCTTGGCC 59.125 55.000 0.00 0.00 0.00 5.36
2371 4321 0.875059 CCGTTTTCTGAGGTCTTGGC 59.125 55.000 0.00 0.00 0.00 4.52
2372 4322 1.523758 CCCGTTTTCTGAGGTCTTGG 58.476 55.000 0.00 0.00 0.00 3.61
2373 4323 0.875059 GCCCGTTTTCTGAGGTCTTG 59.125 55.000 0.00 0.00 0.00 3.02
2374 4324 0.250770 GGCCCGTTTTCTGAGGTCTT 60.251 55.000 0.00 0.00 0.00 3.01
2375 4325 1.128188 AGGCCCGTTTTCTGAGGTCT 61.128 55.000 0.00 0.00 0.00 3.85
2376 4326 0.955919 CAGGCCCGTTTTCTGAGGTC 60.956 60.000 0.00 0.00 0.00 3.85
2377 4327 1.073199 CAGGCCCGTTTTCTGAGGT 59.927 57.895 0.00 0.00 0.00 3.85
2378 4328 0.955919 GACAGGCCCGTTTTCTGAGG 60.956 60.000 0.00 0.00 33.19 3.86
2379 4329 0.035458 AGACAGGCCCGTTTTCTGAG 59.965 55.000 0.00 0.00 33.19 3.35
2380 4330 0.034896 GAGACAGGCCCGTTTTCTGA 59.965 55.000 0.00 0.00 33.19 3.27
2381 4331 0.035458 AGAGACAGGCCCGTTTTCTG 59.965 55.000 0.00 0.00 34.91 3.02
2382 4332 0.765510 AAGAGACAGGCCCGTTTTCT 59.234 50.000 0.00 0.00 0.00 2.52
2383 4333 1.157585 GAAGAGACAGGCCCGTTTTC 58.842 55.000 0.00 0.00 0.00 2.29
2384 4334 0.765510 AGAAGAGACAGGCCCGTTTT 59.234 50.000 0.00 0.00 0.00 2.43
2385 4335 0.321996 GAGAAGAGACAGGCCCGTTT 59.678 55.000 0.00 0.00 0.00 3.60
2386 4336 1.878656 CGAGAAGAGACAGGCCCGTT 61.879 60.000 0.00 0.00 0.00 4.44
2387 4337 2.344203 CGAGAAGAGACAGGCCCGT 61.344 63.158 0.00 0.00 0.00 5.28
2388 4338 1.030488 TACGAGAAGAGACAGGCCCG 61.030 60.000 0.00 0.00 0.00 6.13
2389 4339 0.456628 GTACGAGAAGAGACAGGCCC 59.543 60.000 0.00 0.00 0.00 5.80
2390 4340 1.174783 TGTACGAGAAGAGACAGGCC 58.825 55.000 0.00 0.00 0.00 5.19
2391 4341 3.299340 TTTGTACGAGAAGAGACAGGC 57.701 47.619 0.00 0.00 0.00 4.85
2392 4342 4.099120 CGATTTGTACGAGAAGAGACAGG 58.901 47.826 0.00 0.00 0.00 4.00
2393 4343 4.724303 ACGATTTGTACGAGAAGAGACAG 58.276 43.478 0.00 0.00 34.70 3.51
2394 4344 4.761235 ACGATTTGTACGAGAAGAGACA 57.239 40.909 0.00 0.00 34.70 3.41
2395 4345 5.171695 GCATACGATTTGTACGAGAAGAGAC 59.828 44.000 0.00 0.00 35.44 3.36
2396 4346 5.271625 GCATACGATTTGTACGAGAAGAGA 58.728 41.667 0.00 0.00 35.44 3.10
2397 4347 4.441415 GGCATACGATTTGTACGAGAAGAG 59.559 45.833 0.00 0.00 35.44 2.85
2398 4348 4.142337 TGGCATACGATTTGTACGAGAAGA 60.142 41.667 0.00 0.00 35.44 2.87
2399 4349 4.109766 TGGCATACGATTTGTACGAGAAG 58.890 43.478 0.00 0.00 35.44 2.85
2400 4350 4.109766 CTGGCATACGATTTGTACGAGAA 58.890 43.478 0.00 0.00 35.44 2.87
2401 4351 3.129813 ACTGGCATACGATTTGTACGAGA 59.870 43.478 0.00 0.00 35.44 4.04
2402 4352 3.444916 ACTGGCATACGATTTGTACGAG 58.555 45.455 0.00 0.00 35.44 4.18
2403 4353 3.513680 ACTGGCATACGATTTGTACGA 57.486 42.857 0.00 0.00 35.44 3.43
2404 4354 3.615056 TCAACTGGCATACGATTTGTACG 59.385 43.478 0.00 0.00 35.44 3.67
2405 4355 5.556382 CGATCAACTGGCATACGATTTGTAC 60.556 44.000 0.00 0.00 35.44 2.90
2406 4356 4.506288 CGATCAACTGGCATACGATTTGTA 59.494 41.667 0.00 0.00 37.49 2.41
2407 4357 3.309682 CGATCAACTGGCATACGATTTGT 59.690 43.478 0.00 0.00 0.00 2.83
2408 4358 3.309682 ACGATCAACTGGCATACGATTTG 59.690 43.478 0.00 0.00 0.00 2.32
2409 4359 3.531538 ACGATCAACTGGCATACGATTT 58.468 40.909 0.00 0.00 0.00 2.17
2410 4360 3.179443 ACGATCAACTGGCATACGATT 57.821 42.857 0.00 0.00 0.00 3.34
2411 4361 2.890808 ACGATCAACTGGCATACGAT 57.109 45.000 0.00 0.00 0.00 3.73
2412 4362 2.540157 CGTACGATCAACTGGCATACGA 60.540 50.000 10.44 0.00 36.85 3.43
2413 4363 1.779157 CGTACGATCAACTGGCATACG 59.221 52.381 10.44 0.00 0.00 3.06
2414 4364 2.534349 CACGTACGATCAACTGGCATAC 59.466 50.000 24.41 0.00 0.00 2.39
2415 4365 2.424246 TCACGTACGATCAACTGGCATA 59.576 45.455 24.41 0.00 0.00 3.14
2416 4366 1.203758 TCACGTACGATCAACTGGCAT 59.796 47.619 24.41 0.00 0.00 4.40
2417 4367 0.599060 TCACGTACGATCAACTGGCA 59.401 50.000 24.41 0.00 0.00 4.92
2418 4368 1.269166 CTCACGTACGATCAACTGGC 58.731 55.000 24.41 0.00 0.00 4.85
2419 4369 1.909376 CCTCACGTACGATCAACTGG 58.091 55.000 24.41 9.64 0.00 4.00
2420 4370 1.269166 GCCTCACGTACGATCAACTG 58.731 55.000 24.41 8.71 0.00 3.16
2421 4371 0.885879 TGCCTCACGTACGATCAACT 59.114 50.000 24.41 0.00 0.00 3.16
2422 4372 1.269166 CTGCCTCACGTACGATCAAC 58.731 55.000 24.41 8.74 0.00 3.18
2423 4373 0.885879 ACTGCCTCACGTACGATCAA 59.114 50.000 24.41 2.92 0.00 2.57
2424 4374 0.885879 AACTGCCTCACGTACGATCA 59.114 50.000 24.41 10.34 0.00 2.92
2425 4375 1.918609 GAAACTGCCTCACGTACGATC 59.081 52.381 24.41 6.19 0.00 3.69
2426 4376 1.731424 CGAAACTGCCTCACGTACGAT 60.731 52.381 24.41 3.10 0.00 3.73
2427 4377 0.386352 CGAAACTGCCTCACGTACGA 60.386 55.000 24.41 0.00 0.00 3.43
2428 4378 0.662374 ACGAAACTGCCTCACGTACG 60.662 55.000 15.01 15.01 35.49 3.67
2429 4379 1.494824 AACGAAACTGCCTCACGTAC 58.505 50.000 0.00 0.00 36.20 3.67
2430 4380 2.129607 GAAACGAAACTGCCTCACGTA 58.870 47.619 0.00 0.00 36.20 3.57
2431 4381 0.935196 GAAACGAAACTGCCTCACGT 59.065 50.000 0.00 0.00 38.81 4.49
2432 4382 0.234884 GGAAACGAAACTGCCTCACG 59.765 55.000 0.00 0.00 0.00 4.35
2433 4383 1.594331 AGGAAACGAAACTGCCTCAC 58.406 50.000 0.00 0.00 0.00 3.51
2434 4384 2.341846 AAGGAAACGAAACTGCCTCA 57.658 45.000 0.00 0.00 0.00 3.86
2435 4385 3.372060 CAAAAGGAAACGAAACTGCCTC 58.628 45.455 0.00 0.00 0.00 4.70
2436 4386 2.100749 CCAAAAGGAAACGAAACTGCCT 59.899 45.455 0.00 0.00 0.00 4.75
2437 4387 2.469826 CCAAAAGGAAACGAAACTGCC 58.530 47.619 0.00 0.00 0.00 4.85
2438 4388 2.469826 CCCAAAAGGAAACGAAACTGC 58.530 47.619 0.00 0.00 38.24 4.40
2439 4389 2.223947 CCCCCAAAAGGAAACGAAACTG 60.224 50.000 0.00 0.00 38.24 3.16
2440 4390 2.036387 CCCCCAAAAGGAAACGAAACT 58.964 47.619 0.00 0.00 38.24 2.66
2441 4391 1.539496 GCCCCCAAAAGGAAACGAAAC 60.539 52.381 0.00 0.00 38.24 2.78
2442 4392 0.753867 GCCCCCAAAAGGAAACGAAA 59.246 50.000 0.00 0.00 38.24 3.46
2443 4393 0.397254 TGCCCCCAAAAGGAAACGAA 60.397 50.000 0.00 0.00 38.24 3.85
2444 4394 0.178947 ATGCCCCCAAAAGGAAACGA 60.179 50.000 0.00 0.00 38.24 3.85
2445 4395 0.246360 GATGCCCCCAAAAGGAAACG 59.754 55.000 0.00 0.00 38.24 3.60
2446 4396 1.347062 TGATGCCCCCAAAAGGAAAC 58.653 50.000 0.00 0.00 38.24 2.78
2470 4420 2.098607 TCGTGCGGTAGGTAGAGAAATG 59.901 50.000 0.00 0.00 0.00 2.32
2665 8501 9.847224 AGAGGTTATACAAAACAGAAAGAAGAA 57.153 29.630 0.00 0.00 0.00 2.52
2666 8502 9.490379 GAGAGGTTATACAAAACAGAAAGAAGA 57.510 33.333 0.00 0.00 0.00 2.87
2667 8503 8.722394 GGAGAGGTTATACAAAACAGAAAGAAG 58.278 37.037 0.00 0.00 0.00 2.85
2881 8724 7.861872 TGTGTCATGTTTCTATCAATGTTGTTG 59.138 33.333 0.00 0.00 0.00 3.33
2926 8769 4.853007 AGTGTATGGTCTTAGTCGTAGGT 58.147 43.478 0.00 0.00 0.00 3.08
2958 8801 4.860835 AGGGGCACACCTCCATAT 57.139 55.556 0.00 0.00 36.95 1.78
3019 8862 1.071542 TGAAAACTCGTGATCTGGCCA 59.928 47.619 4.71 4.71 0.00 5.36
3058 8901 0.248289 CCCCATTACGACGGTGACTT 59.752 55.000 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.