Multiple sequence alignment - TraesCS4A01G477000

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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 TraesCS4A01G477000 chr4A 100.000 3709 0 0 1 3709 735162334 735158626 0.000000e+00 6813.0
1 TraesCS4A01G477000 chr4A 94.716 1987 101 2 766 2752 734447329 734445347 0.000000e+00 3085.0
2 TraesCS4A01G477000 chr4A 92.326 2137 129 17 630 2752 734350121 734348006 0.000000e+00 3005.0
3 TraesCS4A01G477000 chr4A 95.257 1750 69 1 1320 3069 735950982 735949247 0.000000e+00 2760.0
4 TraesCS4A01G477000 chr4A 95.184 1661 71 3 1320 2973 736693230 736691572 0.000000e+00 2615.0
5 TraesCS4A01G477000 chr4A 94.149 1504 63 13 1486 2973 734949092 734947598 0.000000e+00 2266.0
6 TraesCS4A01G477000 chr4A 93.694 1443 88 1 1298 2740 736257157 736258596 0.000000e+00 2158.0
7 TraesCS4A01G477000 chr4A 95.201 646 27 3 632 1276 736256522 736257164 0.000000e+00 1018.0
8 TraesCS4A01G477000 chr4A 96.213 581 22 0 683 1263 735951561 735950981 0.000000e+00 952.0
9 TraesCS4A01G477000 chr4A 99.603 504 2 0 3102 3605 735949191 735948688 0.000000e+00 920.0
10 TraesCS4A01G477000 chr4A 88.743 533 33 17 392 917 734890669 734890157 8.740000e-176 627.0
11 TraesCS4A01G477000 chr4A 85.813 578 59 10 720 1276 736693814 736693239 3.190000e-165 592.0
12 TraesCS4A01G477000 chr4A 99.565 230 1 0 162 391 735167581 735167352 1.590000e-113 420.0
13 TraesCS4A01G477000 chr4A 95.726 234 9 1 1044 1276 734953808 734953575 3.500000e-100 375.0
14 TraesCS4A01G477000 chr4A 98.947 190 1 1 392 580 736256312 736256501 4.590000e-89 339.0
15 TraesCS4A01G477000 chr4A 99.451 182 1 0 399 580 734350321 734350140 7.680000e-87 331.0
16 TraesCS4A01G477000 chr4A 99.451 182 1 0 399 580 735953530 735953349 7.680000e-87 331.0
17 TraesCS4A01G477000 chr4A 97.531 162 4 0 1 162 620259657 620259496 1.010000e-70 278.0
18 TraesCS4A01G477000 chr4A 93.252 163 7 4 1 162 39081928 39081769 1.720000e-58 237.0
19 TraesCS4A01G477000 chr4A 89.349 169 17 1 2798 2966 734445343 734445176 1.040000e-50 211.0
20 TraesCS4A01G477000 chr4A 93.056 144 9 1 630 773 734448602 734448460 3.750000e-50 209.0
21 TraesCS4A01G477000 chr4A 97.403 77 1 1 392 467 734448767 734448691 3.010000e-26 130.0
22 TraesCS4A01G477000 chr4A 98.592 71 1 0 510 580 734448691 734448621 3.890000e-25 126.0
23 TraesCS4A01G477000 chr7D 93.777 1382 80 4 1359 2740 5926743 5928118 0.000000e+00 2071.0
24 TraesCS4A01G477000 chr7D 93.508 878 41 2 1824 2701 5819435 5820296 0.000000e+00 1291.0
25 TraesCS4A01G477000 chr7D 89.981 519 48 3 768 1284 5920608 5921124 0.000000e+00 667.0
26 TraesCS4A01G477000 chr7D 87.805 246 25 2 720 960 5840656 5840901 2.180000e-72 283.0
27 TraesCS4A01G477000 chr7D 88.068 176 18 3 2799 2973 5928135 5928308 4.860000e-49 206.0
28 TraesCS4A01G477000 chr7D 87.578 161 20 0 3092 3252 513704948 513705108 1.760000e-43 187.0
29 TraesCS4A01G477000 chr7D 79.259 135 28 0 3120 3254 53657984 53657850 1.100000e-15 95.3
30 TraesCS4A01G477000 chr3B 97.391 230 6 0 162 391 807548589 807548818 3.470000e-105 392.0
31 TraesCS4A01G477000 chr3B 96.537 231 8 0 162 392 807571739 807571969 2.090000e-102 383.0
32 TraesCS4A01G477000 chr3B 96.522 230 8 0 162 391 807564540 807564769 7.520000e-102 381.0
33 TraesCS4A01G477000 chr3B 96.087 230 9 0 162 391 807559319 807559548 3.500000e-100 375.0
34 TraesCS4A01G477000 chr3B 95.679 162 6 1 1 162 145317591 145317751 3.670000e-65 259.0
35 TraesCS4A01G477000 chr3B 93.827 162 9 1 1 162 155656064 155655904 3.700000e-60 243.0
36 TraesCS4A01G477000 chr3B 86.164 159 21 1 3092 3250 558194526 558194683 1.770000e-38 171.0
37 TraesCS4A01G477000 chr7A 94.515 237 12 1 162 397 17331232 17330996 7.570000e-97 364.0
38 TraesCS4A01G477000 chr7A 85.161 155 21 2 3100 3253 669001094 669001247 1.380000e-34 158.0
39 TraesCS4A01G477000 chr3A 93.043 230 13 2 162 391 41489584 41489358 2.130000e-87 333.0
40 TraesCS4A01G477000 chr3A 90.533 169 13 2 226 391 21217914 21217746 1.730000e-53 220.0
41 TraesCS4A01G477000 chr3A 90.533 169 13 2 226 391 21223106 21222938 1.730000e-53 220.0
42 TraesCS4A01G477000 chr3A 89.744 117 7 2 162 275 41484408 41484294 1.070000e-30 145.0
43 TraesCS4A01G477000 chr2A 95.679 162 6 1 1 162 9676843 9676683 3.670000e-65 259.0
44 TraesCS4A01G477000 chr2A 95.726 117 4 1 46 162 9675061 9674946 1.760000e-43 187.0
45 TraesCS4A01G477000 chr2A 80.347 173 22 4 2324 2496 19902127 19902287 1.810000e-23 121.0
46 TraesCS4A01G477000 chr6A 94.611 167 4 1 1 162 539530529 539530363 1.710000e-63 254.0
47 TraesCS4A01G477000 chr1A 93.711 159 10 0 3095 3253 115360587 115360429 4.790000e-59 239.0
48 TraesCS4A01G477000 chr1A 95.789 95 2 2 2974 3067 115361628 115361535 6.420000e-33 152.0
49 TraesCS4A01G477000 chr1A 93.750 96 4 2 2973 3067 115360428 115360522 3.860000e-30 143.0
50 TraesCS4A01G477000 chr5B 92.308 169 6 2 1 162 400924595 400924763 2.230000e-57 233.0
51 TraesCS4A01G477000 chr5B 94.667 150 7 1 1 150 423795761 423795613 8.010000e-57 231.0
52 TraesCS4A01G477000 chr5B 89.571 163 17 0 3092 3254 512388773 512388935 1.350000e-49 207.0
53 TraesCS4A01G477000 chr5B 92.632 95 5 2 2974 3067 270915496 270915589 6.460000e-28 135.0
54 TraesCS4A01G477000 chr5B 91.579 95 6 2 2974 3067 367074655 367074748 3.010000e-26 130.0
55 TraesCS4A01G477000 chr5B 92.391 92 5 2 2977 3067 512388931 512388841 3.010000e-26 130.0
56 TraesCS4A01G477000 chr6B 86.164 159 22 0 3095 3253 624609231 624609073 4.920000e-39 172.0
57 TraesCS4A01G477000 chr6B 83.735 166 26 1 3092 3256 624610099 624610264 4.960000e-34 156.0
58 TraesCS4A01G477000 chr7B 93.478 92 4 2 2977 3067 734384496 734384406 6.460000e-28 135.0
59 TraesCS4A01G477000 chr7B 91.304 92 6 2 2977 3067 616817476 616817386 1.400000e-24 124.0
60 TraesCS4A01G477000 chr4B 92.391 92 5 2 2977 3067 649179934 649180024 3.010000e-26 130.0
61 TraesCS4A01G477000 chr4D 80.000 150 20 10 3120 3263 307812860 307812715 6.550000e-18 102.0
62 TraesCS4A01G477000 chr1B 98.214 56 1 0 163 218 683486437 683486492 8.480000e-17 99.0


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 TraesCS4A01G477000 chr4A 735158626 735162334 3708 True 6813.000000 6813 100.000000 1 3709 1 chr4A.!!$R6 3708
1 TraesCS4A01G477000 chr4A 734947598 734949092 1494 True 2266.000000 2266 94.149000 1486 2973 1 chr4A.!!$R4 1487
2 TraesCS4A01G477000 chr4A 734348006 734350321 2315 True 1668.000000 3005 95.888500 399 2752 2 chr4A.!!$R8 2353
3 TraesCS4A01G477000 chr4A 736691572 736693814 2242 True 1603.500000 2615 90.498500 720 2973 2 chr4A.!!$R11 2253
4 TraesCS4A01G477000 chr4A 735948688 735953530 4842 True 1240.750000 2760 97.631000 399 3605 4 chr4A.!!$R10 3206
5 TraesCS4A01G477000 chr4A 736256312 736258596 2284 False 1171.666667 2158 95.947333 392 2740 3 chr4A.!!$F1 2348
6 TraesCS4A01G477000 chr4A 734445176 734448767 3591 True 752.200000 3085 94.623200 392 2966 5 chr4A.!!$R9 2574
7 TraesCS4A01G477000 chr4A 734890157 734890669 512 True 627.000000 627 88.743000 392 917 1 chr4A.!!$R3 525
8 TraesCS4A01G477000 chr7D 5819435 5820296 861 False 1291.000000 1291 93.508000 1824 2701 1 chr7D.!!$F1 877
9 TraesCS4A01G477000 chr7D 5926743 5928308 1565 False 1138.500000 2071 90.922500 1359 2973 2 chr7D.!!$F5 1614
10 TraesCS4A01G477000 chr7D 5920608 5921124 516 False 667.000000 667 89.981000 768 1284 1 chr7D.!!$F3 516
11 TraesCS4A01G477000 chr2A 9674946 9676843 1897 True 223.000000 259 95.702500 1 162 2 chr2A.!!$R1 161

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
309 310 0.031449 TTTTTACTTGCTGCCGTGCC 59.969 50.0 0.00 0.00 0.00 5.01 F
335 336 0.312102 CAGCCATGCATGCATCTGAG 59.688 55.0 31.32 21.14 33.01 3.35 F
377 378 0.542333 TGTGTGAACCGGAAGACCAA 59.458 50.0 9.46 0.00 35.59 3.67 F
859 4613 0.956410 CCAATCAAACGCCGGTGGTA 60.956 55.0 21.14 0.00 0.00 3.25 F
2227 6356 1.251251 AAGTTTGCTGATCTGGTGCC 58.749 50.0 1.46 0.00 0.00 5.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1222 4993 0.400594 CCTCGTTTCTTGTCCCCCTT 59.599 55.000 0.00 0.00 0.00 3.95 R
1685 5813 1.549170 GCCCGAAGAACTCTAAGTGGA 59.451 52.381 0.00 0.00 0.00 4.02 R
2227 6356 3.441572 AGCGACATTTGATTCAAAGAGGG 59.558 43.478 16.34 8.92 36.76 4.30 R
2637 6768 3.308595 GTCAACCAATCGACGCAATCATA 59.691 43.478 0.00 0.00 0.00 2.15 R
3093 7270 1.208358 CGTTGCAGCTCCACATGTG 59.792 57.895 19.31 19.31 0.00 3.21 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
32 33 3.682858 TGTAATCTTACGTGAAAGCTGGC 59.317 43.478 0.00 0.00 36.45 4.85
56 57 2.487762 GGCAAGACACGATTGGATGAAA 59.512 45.455 0.00 0.00 0.00 2.69
86 87 2.398554 CCCCACACCGCGAAATCAG 61.399 63.158 8.23 0.00 0.00 2.90
163 164 9.890629 TCATTACATAGATGTAGGATTATTGCC 57.109 33.333 2.79 0.00 43.44 4.52
165 166 6.959606 ACATAGATGTAGGATTATTGCCCT 57.040 37.500 0.00 0.00 39.68 5.19
166 167 9.555411 TTACATAGATGTAGGATTATTGCCCTA 57.445 33.333 2.79 0.00 43.44 3.53
167 168 8.629821 ACATAGATGTAGGATTATTGCCCTAT 57.370 34.615 0.00 0.00 39.68 2.57
168 169 9.729550 ACATAGATGTAGGATTATTGCCCTATA 57.270 33.333 0.00 0.00 39.68 1.31
185 186 7.778083 TGCCCTATATATAGTGTAATGAACCG 58.222 38.462 16.78 0.00 0.00 4.44
188 189 9.186837 CCCTATATATAGTGTAATGAACCGACT 57.813 37.037 16.78 0.00 0.00 4.18
197 198 5.622856 GTGTAATGAACCGACTATACTACGC 59.377 44.000 0.00 0.00 0.00 4.42
200 201 6.564709 AATGAACCGACTATACTACGCATA 57.435 37.500 0.00 0.00 0.00 3.14
201 202 5.602458 TGAACCGACTATACTACGCATAG 57.398 43.478 0.00 0.00 33.10 2.23
203 204 2.746362 ACCGACTATACTACGCATAGGC 59.254 50.000 0.00 0.00 31.63 3.93
204 205 3.008330 CCGACTATACTACGCATAGGCT 58.992 50.000 0.00 0.00 38.10 4.58
205 206 3.181509 CCGACTATACTACGCATAGGCTG 60.182 52.174 0.00 0.00 38.10 4.85
206 207 3.683340 CGACTATACTACGCATAGGCTGA 59.317 47.826 0.00 0.00 38.10 4.26
207 208 4.435784 CGACTATACTACGCATAGGCTGAC 60.436 50.000 0.00 0.00 38.10 3.51
208 209 2.991434 ATACTACGCATAGGCTGACG 57.009 50.000 0.00 0.00 38.10 4.35
209 210 1.671979 TACTACGCATAGGCTGACGT 58.328 50.000 14.16 14.16 39.64 4.34
211 212 0.380733 CTACGCATAGGCTGACGTCA 59.619 55.000 18.88 18.88 38.18 4.35
212 213 0.812549 TACGCATAGGCTGACGTCAA 59.187 50.000 20.49 4.74 38.18 3.18
213 214 0.037697 ACGCATAGGCTGACGTCAAA 60.038 50.000 20.49 5.89 34.13 2.69
214 215 0.370273 CGCATAGGCTGACGTCAAAC 59.630 55.000 20.49 14.78 38.10 2.93
215 216 1.438651 GCATAGGCTGACGTCAAACA 58.561 50.000 20.49 5.52 36.96 2.83
216 217 1.804151 GCATAGGCTGACGTCAAACAA 59.196 47.619 20.49 6.26 36.96 2.83
217 218 2.159653 GCATAGGCTGACGTCAAACAAG 60.160 50.000 20.49 8.56 36.96 3.16
218 219 2.902705 TAGGCTGACGTCAAACAAGT 57.097 45.000 20.49 6.06 0.00 3.16
219 220 1.299541 AGGCTGACGTCAAACAAGTG 58.700 50.000 20.49 7.03 0.00 3.16
220 221 1.134521 AGGCTGACGTCAAACAAGTGA 60.135 47.619 20.49 0.00 0.00 3.41
221 222 1.668751 GGCTGACGTCAAACAAGTGAA 59.331 47.619 20.49 0.00 0.00 3.18
222 223 2.290641 GGCTGACGTCAAACAAGTGAAT 59.709 45.455 20.49 0.00 0.00 2.57
223 224 3.243068 GGCTGACGTCAAACAAGTGAATT 60.243 43.478 20.49 0.00 0.00 2.17
224 225 3.725740 GCTGACGTCAAACAAGTGAATTG 59.274 43.478 20.49 3.99 45.01 2.32
225 226 3.690422 TGACGTCAAACAAGTGAATTGC 58.310 40.909 17.62 0.00 43.15 3.56
226 227 2.713976 GACGTCAAACAAGTGAATTGCG 59.286 45.455 11.55 0.00 43.15 4.85
227 228 2.096819 ACGTCAAACAAGTGAATTGCGT 59.903 40.909 0.00 12.70 43.15 5.24
228 229 2.713976 CGTCAAACAAGTGAATTGCGTC 59.286 45.455 0.00 0.00 43.15 5.19
229 230 3.690422 GTCAAACAAGTGAATTGCGTCA 58.310 40.909 0.00 0.00 43.15 4.35
230 231 3.482110 GTCAAACAAGTGAATTGCGTCAC 59.518 43.478 6.84 6.84 46.90 3.67
235 236 3.373020 GTGAATTGCGTCACTGCTG 57.627 52.632 7.53 0.00 43.82 4.41
236 237 0.867746 GTGAATTGCGTCACTGCTGA 59.132 50.000 7.53 0.00 43.82 4.26
237 238 0.867746 TGAATTGCGTCACTGCTGAC 59.132 50.000 0.00 0.00 43.17 3.51
238 239 0.166814 GAATTGCGTCACTGCTGACC 59.833 55.000 0.00 0.00 43.64 4.02
239 240 0.250467 AATTGCGTCACTGCTGACCT 60.250 50.000 0.00 0.00 43.64 3.85
240 241 0.671781 ATTGCGTCACTGCTGACCTC 60.672 55.000 0.00 0.00 43.64 3.85
241 242 1.748329 TTGCGTCACTGCTGACCTCT 61.748 55.000 0.00 0.00 43.64 3.69
242 243 1.005630 GCGTCACTGCTGACCTCTT 60.006 57.895 0.00 0.00 43.64 2.85
243 244 0.243907 GCGTCACTGCTGACCTCTTA 59.756 55.000 0.00 0.00 43.64 2.10
244 245 1.983972 CGTCACTGCTGACCTCTTAC 58.016 55.000 0.00 0.00 43.64 2.34
245 246 1.542030 CGTCACTGCTGACCTCTTACT 59.458 52.381 0.00 0.00 43.64 2.24
246 247 2.747989 CGTCACTGCTGACCTCTTACTA 59.252 50.000 0.00 0.00 43.64 1.82
247 248 3.426426 CGTCACTGCTGACCTCTTACTAC 60.426 52.174 0.00 0.00 43.64 2.73
248 249 3.759618 GTCACTGCTGACCTCTTACTACT 59.240 47.826 0.00 0.00 41.06 2.57
249 250 4.218852 GTCACTGCTGACCTCTTACTACTT 59.781 45.833 0.00 0.00 41.06 2.24
250 251 5.415077 GTCACTGCTGACCTCTTACTACTTA 59.585 44.000 0.00 0.00 41.06 2.24
251 252 5.648526 TCACTGCTGACCTCTTACTACTTAG 59.351 44.000 0.00 0.00 0.00 2.18
252 253 4.399934 ACTGCTGACCTCTTACTACTTAGC 59.600 45.833 0.00 0.00 0.00 3.09
253 254 4.601084 TGCTGACCTCTTACTACTTAGCT 58.399 43.478 0.00 0.00 0.00 3.32
254 255 5.752650 TGCTGACCTCTTACTACTTAGCTA 58.247 41.667 0.00 0.00 0.00 3.32
255 256 5.589452 TGCTGACCTCTTACTACTTAGCTAC 59.411 44.000 0.00 0.00 0.00 3.58
256 257 5.824097 GCTGACCTCTTACTACTTAGCTACT 59.176 44.000 0.00 0.00 0.00 2.57
257 258 6.991531 GCTGACCTCTTACTACTTAGCTACTA 59.008 42.308 0.00 0.00 0.00 1.82
258 259 7.498570 GCTGACCTCTTACTACTTAGCTACTAA 59.501 40.741 0.00 0.00 0.00 2.24
259 260 8.961294 TGACCTCTTACTACTTAGCTACTAAG 57.039 38.462 11.82 11.82 46.15 2.18
260 261 7.992033 TGACCTCTTACTACTTAGCTACTAAGG 59.008 40.741 16.48 4.73 45.32 2.69
261 262 6.772233 ACCTCTTACTACTTAGCTACTAAGGC 59.228 42.308 16.48 0.00 45.32 4.35
262 263 6.771749 CCTCTTACTACTTAGCTACTAAGGCA 59.228 42.308 16.48 5.42 45.32 4.75
263 264 7.255208 CCTCTTACTACTTAGCTACTAAGGCAC 60.255 44.444 16.48 0.00 45.32 5.01
264 265 4.897025 ACTACTTAGCTACTAAGGCACG 57.103 45.455 16.48 6.26 45.32 5.34
265 266 2.580966 ACTTAGCTACTAAGGCACGC 57.419 50.000 16.48 0.00 45.32 5.34
266 267 1.136500 ACTTAGCTACTAAGGCACGCC 59.864 52.381 16.48 0.00 45.32 5.68
277 278 4.099170 GCACGCCTGCTGCTCTTG 62.099 66.667 0.00 0.00 40.63 3.02
278 279 4.099170 CACGCCTGCTGCTCTTGC 62.099 66.667 0.00 0.00 38.05 4.01
308 309 3.560826 TTTTTACTTGCTGCCGTGC 57.439 47.368 0.00 0.00 0.00 5.34
309 310 0.031449 TTTTTACTTGCTGCCGTGCC 59.969 50.000 0.00 0.00 0.00 5.01
310 311 2.123988 TTTTACTTGCTGCCGTGCCG 62.124 55.000 0.00 0.00 0.00 5.69
311 312 2.997952 TTTACTTGCTGCCGTGCCGA 62.998 55.000 0.00 0.00 0.00 5.54
322 323 3.136123 GTGCCGACATGCAGCCAT 61.136 61.111 0.00 0.00 43.02 4.40
334 335 2.414750 CAGCCATGCATGCATCTGA 58.585 52.632 31.32 9.97 33.01 3.27
335 336 0.312102 CAGCCATGCATGCATCTGAG 59.688 55.000 31.32 21.14 33.01 3.35
343 344 3.534554 TGCATGCATCTGAGACGTAAAT 58.465 40.909 18.46 0.00 0.00 1.40
348 349 2.286067 GCATCTGAGACGTAAATGCTGC 60.286 50.000 10.87 0.00 39.62 5.25
349 350 3.193263 CATCTGAGACGTAAATGCTGCT 58.807 45.455 0.00 0.00 0.00 4.24
350 351 2.610433 TCTGAGACGTAAATGCTGCTG 58.390 47.619 0.00 0.00 0.00 4.41
351 352 1.061711 CTGAGACGTAAATGCTGCTGC 59.938 52.381 8.89 8.89 40.20 5.25
352 353 1.338105 TGAGACGTAAATGCTGCTGCT 60.338 47.619 17.00 0.00 40.48 4.24
356 357 1.226491 GTAAATGCTGCTGCTGCCG 60.226 57.895 25.44 7.92 40.48 5.69
357 358 1.675310 TAAATGCTGCTGCTGCCGT 60.675 52.632 25.44 13.51 40.48 5.68
359 360 2.758770 AAATGCTGCTGCTGCCGTTG 62.759 55.000 25.44 2.27 40.48 4.10
361 362 4.695231 GCTGCTGCTGCCGTTGTG 62.695 66.667 19.30 0.00 38.71 3.33
362 363 3.282157 CTGCTGCTGCCGTTGTGT 61.282 61.111 13.47 0.00 38.71 3.72
364 365 3.279116 GCTGCTGCCGTTGTGTGA 61.279 61.111 3.85 0.00 0.00 3.58
365 366 2.833533 GCTGCTGCCGTTGTGTGAA 61.834 57.895 3.85 0.00 0.00 3.18
366 367 1.009675 CTGCTGCCGTTGTGTGAAC 60.010 57.895 0.00 0.00 0.00 3.18
367 368 2.331451 GCTGCCGTTGTGTGAACC 59.669 61.111 0.00 0.00 0.00 3.62
368 369 2.631428 CTGCCGTTGTGTGAACCG 59.369 61.111 0.00 0.00 0.00 4.44
369 370 2.892334 CTGCCGTTGTGTGAACCGG 61.892 63.158 0.00 0.00 43.22 5.28
370 371 2.589442 GCCGTTGTGTGAACCGGA 60.589 61.111 9.46 0.00 43.01 5.14
371 372 2.181521 GCCGTTGTGTGAACCGGAA 61.182 57.895 9.46 0.00 43.01 4.30
374 375 0.580104 CGTTGTGTGAACCGGAAGAC 59.420 55.000 9.46 2.34 0.00 3.01
375 376 0.942252 GTTGTGTGAACCGGAAGACC 59.058 55.000 9.46 0.00 0.00 3.85
377 378 0.542333 TGTGTGAACCGGAAGACCAA 59.458 50.000 9.46 0.00 35.59 3.67
378 379 1.065345 TGTGTGAACCGGAAGACCAAA 60.065 47.619 9.46 0.00 35.59 3.28
379 380 2.227194 GTGTGAACCGGAAGACCAAAT 58.773 47.619 9.46 0.00 35.59 2.32
380 381 2.621526 GTGTGAACCGGAAGACCAAATT 59.378 45.455 9.46 0.00 35.59 1.82
381 382 3.067601 GTGTGAACCGGAAGACCAAATTT 59.932 43.478 9.46 0.00 35.59 1.82
382 383 3.067461 TGTGAACCGGAAGACCAAATTTG 59.933 43.478 9.46 11.40 35.59 2.32
383 384 3.316868 GTGAACCGGAAGACCAAATTTGA 59.683 43.478 19.86 0.00 35.59 2.69
384 385 3.316868 TGAACCGGAAGACCAAATTTGAC 59.683 43.478 19.86 12.50 35.59 3.18
385 386 3.223674 ACCGGAAGACCAAATTTGACT 57.776 42.857 19.86 14.42 35.59 3.41
386 387 3.146847 ACCGGAAGACCAAATTTGACTC 58.853 45.455 19.86 12.69 35.59 3.36
387 388 3.146066 CCGGAAGACCAAATTTGACTCA 58.854 45.455 19.86 0.00 35.59 3.41
388 389 3.568007 CCGGAAGACCAAATTTGACTCAA 59.432 43.478 19.86 0.00 35.59 3.02
858 4612 2.265182 CCAATCAAACGCCGGTGGT 61.265 57.895 21.14 10.82 0.00 4.16
859 4613 0.956410 CCAATCAAACGCCGGTGGTA 60.956 55.000 21.14 0.00 0.00 3.25
965 4732 1.334384 TTCCGCCCATCTCGATTCCA 61.334 55.000 0.00 0.00 0.00 3.53
1022 4789 9.331282 GGTAATGACACTCAAATTAGAGCTATT 57.669 33.333 0.00 0.00 39.26 1.73
1170 4941 8.253867 ACATTGACATTGCCCTTGATAATATT 57.746 30.769 0.00 0.00 0.00 1.28
1182 4953 4.819105 TGATAATATTACGGGCCAGGAG 57.181 45.455 8.08 0.00 0.00 3.69
1187 4958 1.286248 ATTACGGGCCAGGAGTTCTT 58.714 50.000 8.08 0.00 0.00 2.52
1222 4993 3.240302 GCCTACCTAAAGCTCATAGGGA 58.760 50.000 22.77 16.67 43.55 4.20
1249 5020 3.242969 GGACAAGAAACGAGGAACCAAAC 60.243 47.826 0.00 0.00 0.00 2.93
1442 5219 4.890088 TGGAAACTGCTAAGACGTACATT 58.110 39.130 0.00 0.00 0.00 2.71
1449 5574 3.922240 TGCTAAGACGTACATTTTCGACC 59.078 43.478 0.00 0.00 0.00 4.79
1516 5644 2.044053 CCGCATTCCCACCATGGT 60.044 61.111 13.00 13.00 35.17 3.55
1685 5813 4.530875 CCAAAGCTACCTTCTTGGATGAT 58.469 43.478 6.75 0.00 39.71 2.45
2057 6186 5.712446 GGATGAAGAGGAAAAGCTTTACCTT 59.288 40.000 13.10 12.53 32.53 3.50
2227 6356 1.251251 AAGTTTGCTGATCTGGTGCC 58.749 50.000 1.46 0.00 0.00 5.01
2669 6800 1.024579 ATTGGTTGACGGGATCGCAC 61.025 55.000 10.70 4.00 40.63 5.34
2716 6849 2.224378 GCATCTCATGGTAAGCTGCCTA 60.224 50.000 8.77 0.00 31.36 3.93
3059 7204 5.643777 AGTATTTCACGATCTGACCCTTTTG 59.356 40.000 0.00 0.00 0.00 2.44
3096 7273 3.507290 TTGCGTTGCAGCTTCACA 58.493 50.000 0.00 0.00 40.61 3.58
3097 7274 2.032170 TTGCGTTGCAGCTTCACAT 58.968 47.368 0.00 0.00 40.61 3.21
3098 7275 0.318022 TTGCGTTGCAGCTTCACATG 60.318 50.000 0.00 0.00 40.61 3.21
3099 7276 1.283793 GCGTTGCAGCTTCACATGT 59.716 52.632 0.00 0.00 0.00 3.21
3100 7277 1.000233 GCGTTGCAGCTTCACATGTG 61.000 55.000 20.18 20.18 0.00 3.21
3124 7301 2.856032 CAACGCAAGACAGCTCGG 59.144 61.111 0.00 0.00 43.62 4.63
3182 7359 2.175931 TGTTTCTAAAAGGGCCAGGTCA 59.824 45.455 6.18 0.00 0.00 4.02
3613 7790 9.698309 TTTCATGTTCTTGTTTTACAGTTTTGA 57.302 25.926 0.00 0.00 0.00 2.69
3614 7791 8.682128 TCATGTTCTTGTTTTACAGTTTTGAC 57.318 30.769 0.00 0.00 0.00 3.18
3615 7792 8.519526 TCATGTTCTTGTTTTACAGTTTTGACT 58.480 29.630 0.00 0.00 0.00 3.41
3616 7793 8.586273 CATGTTCTTGTTTTACAGTTTTGACTG 58.414 33.333 5.09 5.09 43.03 3.51
3617 7794 7.087639 TGTTCTTGTTTTACAGTTTTGACTGG 58.912 34.615 10.88 0.00 41.76 4.00
3618 7795 6.827586 TCTTGTTTTACAGTTTTGACTGGT 57.172 33.333 10.88 0.59 41.76 4.00
3619 7796 7.222000 TCTTGTTTTACAGTTTTGACTGGTT 57.778 32.000 10.88 0.00 41.76 3.67
3620 7797 7.662897 TCTTGTTTTACAGTTTTGACTGGTTT 58.337 30.769 10.88 0.00 41.76 3.27
3621 7798 8.145122 TCTTGTTTTACAGTTTTGACTGGTTTT 58.855 29.630 10.88 0.00 41.76 2.43
3622 7799 8.664211 TTGTTTTACAGTTTTGACTGGTTTTT 57.336 26.923 10.88 0.00 41.76 1.94
3623 7800 9.760077 TTGTTTTACAGTTTTGACTGGTTTTTA 57.240 25.926 10.88 0.00 41.76 1.52
3624 7801 9.930693 TGTTTTACAGTTTTGACTGGTTTTTAT 57.069 25.926 10.88 0.00 41.76 1.40
3629 7806 8.840833 ACAGTTTTGACTGGTTTTTATTTTGT 57.159 26.923 10.88 0.00 41.76 2.83
3630 7807 8.716909 ACAGTTTTGACTGGTTTTTATTTTGTG 58.283 29.630 10.88 0.00 41.76 3.33
3631 7808 8.716909 CAGTTTTGACTGGTTTTTATTTTGTGT 58.283 29.630 0.00 0.00 34.28 3.72
3632 7809 9.278978 AGTTTTGACTGGTTTTTATTTTGTGTT 57.721 25.926 0.00 0.00 0.00 3.32
3633 7810 9.885934 GTTTTGACTGGTTTTTATTTTGTGTTT 57.114 25.926 0.00 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 3.682858 GCCAGCTTTCACGTAAGATTACA 59.317 43.478 2.21 0.00 43.62 2.41
32 33 0.321564 TCCAATCGTGTCTTGCCAGG 60.322 55.000 0.00 0.00 0.00 4.45
162 163 9.186837 AGTCGGTTCATTACACTATATATAGGG 57.813 37.037 18.72 18.72 39.68 3.53
170 171 8.715998 CGTAGTATAGTCGGTTCATTACACTAT 58.284 37.037 0.00 0.00 35.10 2.12
171 172 7.307396 GCGTAGTATAGTCGGTTCATTACACTA 60.307 40.741 0.00 0.00 0.00 2.74
172 173 6.512415 GCGTAGTATAGTCGGTTCATTACACT 60.512 42.308 0.00 0.00 0.00 3.55
173 174 5.622856 GCGTAGTATAGTCGGTTCATTACAC 59.377 44.000 0.00 0.00 0.00 2.90
174 175 5.296531 TGCGTAGTATAGTCGGTTCATTACA 59.703 40.000 0.00 0.00 0.00 2.41
175 176 5.751680 TGCGTAGTATAGTCGGTTCATTAC 58.248 41.667 0.00 0.00 0.00 1.89
176 177 6.564709 ATGCGTAGTATAGTCGGTTCATTA 57.435 37.500 0.00 0.00 0.00 1.90
177 178 4.906065 TGCGTAGTATAGTCGGTTCATT 57.094 40.909 0.00 0.00 0.00 2.57
178 179 6.179504 CTATGCGTAGTATAGTCGGTTCAT 57.820 41.667 4.68 0.00 45.91 2.57
188 189 3.405831 ACGTCAGCCTATGCGTAGTATA 58.594 45.455 11.96 0.00 44.33 1.47
189 190 2.225963 GACGTCAGCCTATGCGTAGTAT 59.774 50.000 11.55 0.00 44.33 2.12
190 191 1.600957 GACGTCAGCCTATGCGTAGTA 59.399 52.381 11.55 0.00 44.33 1.82
191 192 0.381089 GACGTCAGCCTATGCGTAGT 59.619 55.000 11.55 0.00 44.33 2.73
192 193 0.380733 TGACGTCAGCCTATGCGTAG 59.619 55.000 15.76 5.93 44.33 3.51
195 196 0.370273 GTTTGACGTCAGCCTATGCG 59.630 55.000 19.11 0.00 44.33 4.73
197 198 3.067106 ACTTGTTTGACGTCAGCCTATG 58.933 45.455 19.11 10.94 0.00 2.23
200 201 1.134521 TCACTTGTTTGACGTCAGCCT 60.135 47.619 19.11 0.00 0.00 4.58
201 202 1.295792 TCACTTGTTTGACGTCAGCC 58.704 50.000 19.11 13.35 0.00 4.85
203 204 3.725740 GCAATTCACTTGTTTGACGTCAG 59.274 43.478 19.11 9.27 37.18 3.51
204 205 3.690422 GCAATTCACTTGTTTGACGTCA 58.310 40.909 15.76 15.76 37.18 4.35
205 206 2.713976 CGCAATTCACTTGTTTGACGTC 59.286 45.455 9.11 9.11 37.18 4.34
206 207 2.096819 ACGCAATTCACTTGTTTGACGT 59.903 40.909 0.00 0.00 37.18 4.34
207 208 2.713976 GACGCAATTCACTTGTTTGACG 59.286 45.455 0.00 0.00 37.18 4.35
208 209 3.482110 GTGACGCAATTCACTTGTTTGAC 59.518 43.478 3.43 0.00 42.36 3.18
209 210 3.690422 GTGACGCAATTCACTTGTTTGA 58.310 40.909 3.43 0.00 42.36 2.69
217 218 0.867746 TCAGCAGTGACGCAATTCAC 59.132 50.000 0.00 2.56 45.45 3.18
218 219 0.867746 GTCAGCAGTGACGCAATTCA 59.132 50.000 0.00 0.00 43.75 2.57
219 220 3.664930 GTCAGCAGTGACGCAATTC 57.335 52.632 0.00 0.00 43.75 2.17
227 228 4.035612 AGTAGTAAGAGGTCAGCAGTGA 57.964 45.455 0.00 0.00 0.00 3.41
228 229 4.792521 AAGTAGTAAGAGGTCAGCAGTG 57.207 45.455 0.00 0.00 0.00 3.66
229 230 4.399934 GCTAAGTAGTAAGAGGTCAGCAGT 59.600 45.833 0.00 0.00 0.00 4.40
230 231 4.642885 AGCTAAGTAGTAAGAGGTCAGCAG 59.357 45.833 0.00 0.00 0.00 4.24
231 232 4.601084 AGCTAAGTAGTAAGAGGTCAGCA 58.399 43.478 0.00 0.00 0.00 4.41
232 233 5.824097 AGTAGCTAAGTAGTAAGAGGTCAGC 59.176 44.000 0.00 0.00 0.00 4.26
233 234 8.961294 TTAGTAGCTAAGTAGTAAGAGGTCAG 57.039 38.462 0.00 0.00 0.00 3.51
234 235 7.992033 CCTTAGTAGCTAAGTAGTAAGAGGTCA 59.008 40.741 12.99 0.00 41.09 4.02
235 236 7.041167 GCCTTAGTAGCTAAGTAGTAAGAGGTC 60.041 44.444 12.99 0.00 41.09 3.85
236 237 6.772233 GCCTTAGTAGCTAAGTAGTAAGAGGT 59.228 42.308 12.99 0.00 41.09 3.85
237 238 6.771749 TGCCTTAGTAGCTAAGTAGTAAGAGG 59.228 42.308 12.99 3.67 41.09 3.69
238 239 7.518689 CGTGCCTTAGTAGCTAAGTAGTAAGAG 60.519 44.444 12.99 3.18 41.09 2.85
239 240 6.259608 CGTGCCTTAGTAGCTAAGTAGTAAGA 59.740 42.308 12.99 0.00 41.09 2.10
240 241 6.428799 CGTGCCTTAGTAGCTAAGTAGTAAG 58.571 44.000 12.99 0.00 41.09 2.34
241 242 5.220931 GCGTGCCTTAGTAGCTAAGTAGTAA 60.221 44.000 12.99 0.00 41.09 2.24
242 243 4.274459 GCGTGCCTTAGTAGCTAAGTAGTA 59.726 45.833 12.99 0.00 41.09 1.82
243 244 3.066481 GCGTGCCTTAGTAGCTAAGTAGT 59.934 47.826 12.99 0.00 41.09 2.73
244 245 3.550436 GGCGTGCCTTAGTAGCTAAGTAG 60.550 52.174 2.98 0.00 41.09 2.57
245 246 2.360165 GGCGTGCCTTAGTAGCTAAGTA 59.640 50.000 2.98 0.00 41.09 2.24
246 247 1.136500 GGCGTGCCTTAGTAGCTAAGT 59.864 52.381 2.98 0.00 41.09 2.24
247 248 1.409427 AGGCGTGCCTTAGTAGCTAAG 59.591 52.381 7.79 8.50 45.70 2.18
248 249 1.136305 CAGGCGTGCCTTAGTAGCTAA 59.864 52.381 11.51 0.00 45.70 3.09
249 250 0.744874 CAGGCGTGCCTTAGTAGCTA 59.255 55.000 11.51 0.00 45.70 3.32
250 251 1.517832 CAGGCGTGCCTTAGTAGCT 59.482 57.895 11.51 0.00 45.70 3.32
251 252 2.174319 GCAGGCGTGCCTTAGTAGC 61.174 63.158 20.50 7.55 45.70 3.58
252 253 4.110493 GCAGGCGTGCCTTAGTAG 57.890 61.111 20.50 0.29 45.70 2.57
290 291 0.031449 GGCACGGCAGCAAGTAAAAA 59.969 50.000 0.00 0.00 35.83 1.94
291 292 1.657556 GGCACGGCAGCAAGTAAAA 59.342 52.632 0.00 0.00 35.83 1.52
292 293 3.350377 GGCACGGCAGCAAGTAAA 58.650 55.556 0.00 0.00 35.83 2.01
316 317 0.312102 CTCAGATGCATGCATGGCTG 59.688 55.000 36.73 32.73 36.70 4.85
317 318 0.182775 TCTCAGATGCATGCATGGCT 59.817 50.000 36.73 24.77 36.70 4.75
318 319 0.311165 GTCTCAGATGCATGCATGGC 59.689 55.000 36.73 22.93 36.70 4.40
319 320 0.586802 CGTCTCAGATGCATGCATGG 59.413 55.000 36.73 26.39 36.70 3.66
320 321 1.296727 ACGTCTCAGATGCATGCATG 58.703 50.000 36.73 24.86 36.70 4.06
321 322 2.896745 TACGTCTCAGATGCATGCAT 57.103 45.000 32.66 32.66 39.69 3.96
322 323 2.671130 TTACGTCTCAGATGCATGCA 57.329 45.000 25.04 25.04 0.00 3.96
323 324 3.847467 GCATTTACGTCTCAGATGCATGC 60.847 47.826 11.82 11.82 41.92 4.06
324 325 3.558829 AGCATTTACGTCTCAGATGCATG 59.441 43.478 2.46 0.00 44.08 4.06
325 326 3.558829 CAGCATTTACGTCTCAGATGCAT 59.441 43.478 13.03 0.00 44.08 3.96
326 327 2.931969 CAGCATTTACGTCTCAGATGCA 59.068 45.455 13.03 0.00 44.08 3.96
327 328 2.286067 GCAGCATTTACGTCTCAGATGC 60.286 50.000 4.57 4.57 42.47 3.91
328 329 3.001026 CAGCAGCATTTACGTCTCAGATG 59.999 47.826 0.00 0.00 0.00 2.90
329 330 3.193263 CAGCAGCATTTACGTCTCAGAT 58.807 45.455 0.00 0.00 0.00 2.90
330 331 2.610433 CAGCAGCATTTACGTCTCAGA 58.390 47.619 0.00 0.00 0.00 3.27
331 332 1.061711 GCAGCAGCATTTACGTCTCAG 59.938 52.381 0.00 0.00 41.58 3.35
332 333 1.078709 GCAGCAGCATTTACGTCTCA 58.921 50.000 0.00 0.00 41.58 3.27
333 334 1.061711 CAGCAGCAGCATTTACGTCTC 59.938 52.381 3.17 0.00 45.49 3.36
334 335 1.081892 CAGCAGCAGCATTTACGTCT 58.918 50.000 3.17 0.00 45.49 4.18
335 336 0.522076 GCAGCAGCAGCATTTACGTC 60.522 55.000 4.63 0.00 45.49 4.34
348 349 1.009675 GTTCACACAACGGCAGCAG 60.010 57.895 0.00 0.00 0.00 4.24
349 350 2.477176 GGTTCACACAACGGCAGCA 61.477 57.895 0.00 0.00 0.00 4.41
350 351 2.331451 GGTTCACACAACGGCAGC 59.669 61.111 0.00 0.00 0.00 5.25
351 352 2.631428 CGGTTCACACAACGGCAG 59.369 61.111 0.00 0.00 0.00 4.85
352 353 2.871216 TTCCGGTTCACACAACGGCA 62.871 55.000 0.00 0.00 45.58 5.69
356 357 0.942252 GGTCTTCCGGTTCACACAAC 59.058 55.000 0.00 0.00 0.00 3.32
357 358 0.542333 TGGTCTTCCGGTTCACACAA 59.458 50.000 0.00 0.00 36.30 3.33
359 360 1.670791 TTTGGTCTTCCGGTTCACAC 58.329 50.000 0.00 0.00 36.30 3.82
361 362 3.316868 TCAAATTTGGTCTTCCGGTTCAC 59.683 43.478 17.90 0.00 36.30 3.18
362 363 3.316868 GTCAAATTTGGTCTTCCGGTTCA 59.683 43.478 17.90 0.00 36.30 3.18
364 365 3.562182 AGTCAAATTTGGTCTTCCGGTT 58.438 40.909 17.90 0.00 36.30 4.44
365 366 3.146847 GAGTCAAATTTGGTCTTCCGGT 58.853 45.455 17.90 0.00 36.30 5.28
366 367 3.146066 TGAGTCAAATTTGGTCTTCCGG 58.854 45.455 17.90 0.00 36.30 5.14
367 368 4.036262 TGTTGAGTCAAATTTGGTCTTCCG 59.964 41.667 17.90 0.00 36.30 4.30
368 369 5.281727 GTGTTGAGTCAAATTTGGTCTTCC 58.718 41.667 17.90 7.05 0.00 3.46
369 370 5.163561 TGGTGTTGAGTCAAATTTGGTCTTC 60.164 40.000 17.90 10.65 0.00 2.87
370 371 4.709397 TGGTGTTGAGTCAAATTTGGTCTT 59.291 37.500 17.90 1.82 0.00 3.01
371 372 4.277476 TGGTGTTGAGTCAAATTTGGTCT 58.723 39.130 17.90 15.45 0.00 3.85
374 375 3.742369 GCATGGTGTTGAGTCAAATTTGG 59.258 43.478 17.90 0.12 0.00 3.28
375 376 3.742369 GGCATGGTGTTGAGTCAAATTTG 59.258 43.478 12.15 12.15 0.00 2.32
377 378 3.233507 AGGCATGGTGTTGAGTCAAATT 58.766 40.909 7.25 0.00 0.00 1.82
378 379 2.821969 GAGGCATGGTGTTGAGTCAAAT 59.178 45.455 7.25 0.00 0.00 2.32
379 380 2.229792 GAGGCATGGTGTTGAGTCAAA 58.770 47.619 7.25 0.00 0.00 2.69
380 381 1.877680 CGAGGCATGGTGTTGAGTCAA 60.878 52.381 0.08 0.08 0.00 3.18
381 382 0.320683 CGAGGCATGGTGTTGAGTCA 60.321 55.000 0.00 0.00 0.00 3.41
382 383 1.639298 GCGAGGCATGGTGTTGAGTC 61.639 60.000 0.00 0.00 0.00 3.36
383 384 1.672356 GCGAGGCATGGTGTTGAGT 60.672 57.895 0.00 0.00 0.00 3.41
384 385 2.401766 GGCGAGGCATGGTGTTGAG 61.402 63.158 0.00 0.00 0.00 3.02
385 386 2.359850 GGCGAGGCATGGTGTTGA 60.360 61.111 0.00 0.00 0.00 3.18
386 387 3.443045 GGGCGAGGCATGGTGTTG 61.443 66.667 0.00 0.00 0.00 3.33
387 388 3.505790 TTGGGCGAGGCATGGTGTT 62.506 57.895 0.00 0.00 0.00 3.32
388 389 3.965258 TTGGGCGAGGCATGGTGT 61.965 61.111 0.00 0.00 0.00 4.16
602 1490 3.738246 AGTCGCTCGCTTCTCGCA 61.738 61.111 0.00 0.00 39.08 5.10
655 1544 7.330454 TGCGTCATGTATAAATTGCATGTTTTT 59.670 29.630 3.33 0.00 40.40 1.94
664 1555 8.559536 AGGTAAAGATGCGTCATGTATAAATTG 58.440 33.333 8.99 0.00 0.00 2.32
700 3306 0.462759 GAGTTTGATCTGGAGCCGGG 60.463 60.000 2.18 0.00 0.00 5.73
757 3363 3.049344 GGGTTAGGATCTTGGGATCTGT 58.951 50.000 6.06 0.00 45.53 3.41
858 4612 3.979501 AACCCTAGATAGGTCCCGTTA 57.020 47.619 5.21 0.00 42.03 3.18
859 4613 2.862850 AACCCTAGATAGGTCCCGTT 57.137 50.000 5.21 0.00 42.03 4.44
965 4732 0.971386 CTGCAGCAAAAACCTCCCAT 59.029 50.000 0.00 0.00 0.00 4.00
1049 4816 2.560981 TGACGGACTACATCAAGAAGCA 59.439 45.455 0.00 0.00 0.00 3.91
1170 4941 1.262640 GGAAGAACTCCTGGCCCGTA 61.263 60.000 0.00 0.00 41.61 4.02
1182 4953 5.813157 GTAGGCATCTACTTTCTGGAAGAAC 59.187 44.000 1.91 0.00 43.39 3.01
1187 4958 3.995636 AGGTAGGCATCTACTTTCTGGA 58.004 45.455 3.95 0.00 43.97 3.86
1222 4993 0.400594 CCTCGTTTCTTGTCCCCCTT 59.599 55.000 0.00 0.00 0.00 3.95
1249 5020 2.981859 ACAGCTTACCACGGGATAAG 57.018 50.000 0.00 0.00 0.00 1.73
1442 5219 6.067263 ACAAAATCAATTTCTCGGTCGAAA 57.933 33.333 0.00 0.00 37.31 3.46
1449 5574 8.905702 CCTCAAGTTAACAAAATCAATTTCTCG 58.094 33.333 8.61 0.00 0.00 4.04
1516 5644 4.020617 CTTCAGGAGTGGCGCCCA 62.021 66.667 26.77 9.53 0.00 5.36
1685 5813 1.549170 GCCCGAAGAACTCTAAGTGGA 59.451 52.381 0.00 0.00 0.00 4.02
2227 6356 3.441572 AGCGACATTTGATTCAAAGAGGG 59.558 43.478 16.34 8.92 36.76 4.30
2637 6768 3.308595 GTCAACCAATCGACGCAATCATA 59.691 43.478 0.00 0.00 0.00 2.15
2669 6800 4.461992 TTTTACTTTCTGGCGTTTCGAG 57.538 40.909 0.00 0.00 0.00 4.04
2716 6849 6.286240 TGACTTGACATAACTAGCACAGAT 57.714 37.500 0.00 0.00 0.00 2.90
3092 7269 1.229975 CGTTGCAGCTCCACATGTGA 61.230 55.000 27.46 12.04 0.00 3.58
3093 7270 1.208358 CGTTGCAGCTCCACATGTG 59.792 57.895 19.31 19.31 0.00 3.21
3094 7271 2.620112 GCGTTGCAGCTCCACATGT 61.620 57.895 0.00 0.00 0.00 3.21
3095 7272 2.132517 TTGCGTTGCAGCTCCACATG 62.133 55.000 0.00 0.00 40.61 3.21
3096 7273 1.859427 CTTGCGTTGCAGCTCCACAT 61.859 55.000 0.00 0.00 40.61 3.21
3097 7274 2.515757 TTGCGTTGCAGCTCCACA 60.516 55.556 0.00 0.00 40.61 4.17
3098 7275 2.253452 CTTGCGTTGCAGCTCCAC 59.747 61.111 0.00 0.00 40.61 4.02
3099 7276 2.110835 TCTTGCGTTGCAGCTCCA 59.889 55.556 0.00 0.00 40.61 3.86
3100 7277 2.180131 CTGTCTTGCGTTGCAGCTCC 62.180 60.000 0.00 0.00 40.61 4.70
3124 7301 2.380084 TCCGCTCCACATAGAAACAC 57.620 50.000 0.00 0.00 0.00 3.32
3182 7359 9.436957 ACTGAACTCGACATAAAAGTATTTCAT 57.563 29.630 0.00 0.00 37.28 2.57
3606 7783 8.840833 ACACAAAATAAAAACCAGTCAAAACT 57.159 26.923 0.00 0.00 35.60 2.66
3607 7784 9.885934 AAACACAAAATAAAAACCAGTCAAAAC 57.114 25.926 0.00 0.00 0.00 2.43


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

AutoCloner maintained by Alex Coulton.