Multiple sequence alignment - TraesCS4D01G104200

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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 TraesCS4D01G104200 chr4D 100.000 2831 0 0 1 2831 82732515 82729685 0.000000e+00 5228.0
1 TraesCS4D01G104200 chr4A 94.314 2093 52 16 618 2664 494011307 494009236 0.000000e+00 3144.0
2 TraesCS4D01G104200 chr4A 90.074 272 13 10 30 298 494011599 494011339 9.710000e-90 340.0
3 TraesCS4D01G104200 chr4A 100.000 140 0 0 2692 2831 494009244 494009105 2.800000e-65 259.0
4 TraesCS4D01G104200 chr4A 94.118 51 2 1 457 507 494011349 494011300 3.020000e-10 76.8
5 TraesCS4D01G104200 chr4B 95.537 1882 59 10 539 2400 117058911 117057035 0.000000e+00 2987.0
6 TraesCS4D01G104200 chr4B 88.684 433 17 16 2399 2831 117056930 117056530 1.510000e-137 499.0
7 TraesCS4D01G104200 chr4B 96.970 132 4 0 167 298 117097694 117097563 3.670000e-54 222.0
8 TraesCS4D01G104200 chr4B 93.023 129 8 1 30 157 117077357 117077229 1.340000e-43 187.0
9 TraesCS4D01G104200 chr4B 93.023 129 8 1 30 157 117098707 117098579 1.340000e-43 187.0
10 TraesCS4D01G104200 chr1B 95.758 165 7 0 297 461 17384724 17384560 1.670000e-67 267.0
11 TraesCS4D01G104200 chr1B 95.506 89 3 1 49 137 371137592 371137679 1.060000e-29 141.0
12 TraesCS4D01G104200 chr5B 95.706 163 7 0 297 459 655620546 655620708 2.160000e-66 263.0
13 TraesCS4D01G104200 chr7D 95.181 166 7 1 292 457 600764277 600764441 7.780000e-66 261.0
14 TraesCS4D01G104200 chr7D 95.031 161 8 0 297 457 627023094 627022934 1.300000e-63 254.0
15 TraesCS4D01G104200 chr2D 95.000 160 8 0 297 456 45540258 45540099 4.680000e-63 252.0
16 TraesCS4D01G104200 chr2D 94.444 162 9 0 296 457 391461636 391461475 1.680000e-62 250.0
17 TraesCS4D01G104200 chr2B 95.031 161 7 1 297 457 397938601 397938760 4.680000e-63 252.0
18 TraesCS4D01G104200 chr2B 92.000 175 12 2 290 463 559188012 559188185 7.830000e-61 244.0
19 TraesCS4D01G104200 chr3B 94.444 162 9 0 296 457 690512182 690512021 1.680000e-62 250.0
20 TraesCS4D01G104200 chrUn 96.970 132 4 0 167 298 301227866 301227997 3.670000e-54 222.0
21 TraesCS4D01G104200 chrUn 96.899 129 4 0 170 298 361775568 361775440 1.710000e-52 217.0
22 TraesCS4D01G104200 chrUn 93.023 129 8 1 30 157 361776583 361776455 1.340000e-43 187.0
23 TraesCS4D01G104200 chrUn 93.023 129 8 1 30 157 470173706 470173834 1.340000e-43 187.0
24 TraesCS4D01G104200 chr7B 95.506 89 4 0 49 137 85304944 85305032 2.940000e-30 143.0
25 TraesCS4D01G104200 chr5D 92.233 103 5 3 45 146 9077904 9077804 2.940000e-30 143.0
26 TraesCS4D01G104200 chr1D 92.929 99 4 3 33 130 272186678 272186774 1.060000e-29 141.0
27 TraesCS4D01G104200 chr7A 91.111 45 2 2 501 543 114040187 114040231 3.050000e-05 60.2


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 TraesCS4D01G104200 chr4D 82729685 82732515 2830 True 5228.00 5228 100.0000 1 2831 1 chr4D.!!$R1 2830
1 TraesCS4D01G104200 chr4A 494009105 494011599 2494 True 954.95 3144 94.6265 30 2831 4 chr4A.!!$R1 2801
2 TraesCS4D01G104200 chr4B 117056530 117058911 2381 True 1743.00 2987 92.1105 539 2831 2 chr4B.!!$R2 2292
3 TraesCS4D01G104200 chr4B 117097563 117098707 1144 True 204.50 222 94.9965 30 298 2 chr4B.!!$R3 268
4 TraesCS4D01G104200 chrUn 361775440 361776583 1143 True 202.00 217 94.9610 30 298 2 chrUn.!!$R1 268

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
264 1148 0.034756 AGCCACAGAACACATACGCA 59.965 50.0 0.00 0.0 0.00 5.24 F
452 1336 0.036306 AACAGGACCCGGTTGACATC 59.964 55.0 0.00 0.0 33.42 3.06 F
1488 2418 0.104882 TGTCCAAGGAGTACCACCCA 60.105 55.0 3.49 0.0 38.94 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1161 2090 0.036294 CCACCGTCTTCTTCTTCCCC 60.036 60.000 0.00 0.0 0.0 4.81 R
1509 2439 1.080705 CTTCTCCGACGCCGTCTTT 60.081 57.895 16.07 0.0 0.0 2.52 R
2451 3494 2.288152 GCTCCGGATGCTTTTTGTTTGA 60.288 45.455 3.57 0.0 0.0 2.69 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
24 25 7.759489 AAGCAAGTAGATATGGTGAAAACAA 57.241 32.000 0.00 0.00 0.00 2.83
25 26 7.944729 AGCAAGTAGATATGGTGAAAACAAT 57.055 32.000 0.00 0.00 0.00 2.71
26 27 7.765307 AGCAAGTAGATATGGTGAAAACAATG 58.235 34.615 0.00 0.00 0.00 2.82
27 28 7.394359 AGCAAGTAGATATGGTGAAAACAATGT 59.606 33.333 0.00 0.00 0.00 2.71
28 29 7.485913 GCAAGTAGATATGGTGAAAACAATGTG 59.514 37.037 0.00 0.00 0.00 3.21
50 51 4.277174 TGGAACAAAGATAAACGCACACAT 59.723 37.500 0.00 0.00 31.92 3.21
129 131 1.351017 TCCCCCGCATCTCCATATTTC 59.649 52.381 0.00 0.00 0.00 2.17
151 153 5.450453 TCTTGTTTTCACTTTGTCCCCATA 58.550 37.500 0.00 0.00 0.00 2.74
216 1100 6.514870 GCTGTGTCCATGTTTTTATCAGAACA 60.515 38.462 0.00 0.00 39.78 3.18
264 1148 0.034756 AGCCACAGAACACATACGCA 59.965 50.000 0.00 0.00 0.00 5.24
296 1180 2.586258 CATTTCCTGGACGACGATCT 57.414 50.000 0.00 0.00 0.00 2.75
297 1181 3.710326 CATTTCCTGGACGACGATCTA 57.290 47.619 0.00 0.00 0.00 1.98
298 1182 3.633235 CATTTCCTGGACGACGATCTAG 58.367 50.000 0.00 2.94 0.00 2.43
299 1183 1.022735 TTCCTGGACGACGATCTAGC 58.977 55.000 0.00 0.00 0.00 3.42
300 1184 1.158484 TCCTGGACGACGATCTAGCG 61.158 60.000 0.00 0.00 37.29 4.26
301 1185 1.158484 CCTGGACGACGATCTAGCGA 61.158 60.000 0.00 0.00 34.83 4.93
302 1186 0.869068 CTGGACGACGATCTAGCGAT 59.131 55.000 0.00 0.00 34.83 4.58
303 1187 0.586802 TGGACGACGATCTAGCGATG 59.413 55.000 0.00 0.00 34.83 3.84
304 1188 0.587285 GGACGACGATCTAGCGATGT 59.413 55.000 0.00 0.00 34.83 3.06
305 1189 1.797046 GGACGACGATCTAGCGATGTA 59.203 52.381 0.00 0.00 34.83 2.29
306 1190 2.222678 GGACGACGATCTAGCGATGTAA 59.777 50.000 0.00 0.00 34.83 2.41
307 1191 3.471495 GACGACGATCTAGCGATGTAAG 58.529 50.000 0.00 0.00 34.83 2.34
308 1192 2.871022 ACGACGATCTAGCGATGTAAGT 59.129 45.455 0.00 0.00 34.83 2.24
309 1193 3.219189 CGACGATCTAGCGATGTAAGTG 58.781 50.000 0.00 0.00 34.83 3.16
310 1194 3.556513 GACGATCTAGCGATGTAAGTGG 58.443 50.000 0.00 0.00 34.83 4.00
311 1195 2.287668 ACGATCTAGCGATGTAAGTGGC 60.288 50.000 0.00 0.00 34.83 5.01
312 1196 2.287608 CGATCTAGCGATGTAAGTGGCA 60.288 50.000 0.00 0.00 0.00 4.92
313 1197 3.717707 GATCTAGCGATGTAAGTGGCAA 58.282 45.455 0.00 0.00 0.00 4.52
314 1198 3.603158 TCTAGCGATGTAAGTGGCAAA 57.397 42.857 0.00 0.00 0.00 3.68
315 1199 4.137116 TCTAGCGATGTAAGTGGCAAAT 57.863 40.909 0.00 0.00 0.00 2.32
316 1200 5.270893 TCTAGCGATGTAAGTGGCAAATA 57.729 39.130 0.00 0.00 0.00 1.40
317 1201 5.666462 TCTAGCGATGTAAGTGGCAAATAA 58.334 37.500 0.00 0.00 0.00 1.40
318 1202 6.110033 TCTAGCGATGTAAGTGGCAAATAAA 58.890 36.000 0.00 0.00 0.00 1.40
319 1203 5.835113 AGCGATGTAAGTGGCAAATAAAT 57.165 34.783 0.00 0.00 0.00 1.40
320 1204 5.581605 AGCGATGTAAGTGGCAAATAAATG 58.418 37.500 0.00 0.00 0.00 2.32
321 1205 5.356751 AGCGATGTAAGTGGCAAATAAATGA 59.643 36.000 0.00 0.00 0.00 2.57
322 1206 5.455525 GCGATGTAAGTGGCAAATAAATGAC 59.544 40.000 0.00 0.00 0.00 3.06
323 1207 5.676744 CGATGTAAGTGGCAAATAAATGACG 59.323 40.000 0.00 0.00 0.00 4.35
324 1208 5.950758 TGTAAGTGGCAAATAAATGACGT 57.049 34.783 0.00 0.00 0.00 4.34
325 1209 5.933790 TGTAAGTGGCAAATAAATGACGTC 58.066 37.500 9.11 9.11 0.00 4.34
326 1210 4.434713 AAGTGGCAAATAAATGACGTCC 57.565 40.909 14.12 0.00 0.00 4.79
327 1211 2.418628 AGTGGCAAATAAATGACGTCCG 59.581 45.455 14.12 0.00 0.00 4.79
328 1212 1.131504 TGGCAAATAAATGACGTCCGC 59.868 47.619 14.12 2.76 0.00 5.54
329 1213 1.131504 GGCAAATAAATGACGTCCGCA 59.868 47.619 14.12 0.00 0.00 5.69
330 1214 2.414824 GGCAAATAAATGACGTCCGCAA 60.415 45.455 14.12 0.00 0.00 4.85
331 1215 3.434637 GCAAATAAATGACGTCCGCAAT 58.565 40.909 14.12 0.00 0.00 3.56
332 1216 3.482110 GCAAATAAATGACGTCCGCAATC 59.518 43.478 14.12 0.00 0.00 2.67
333 1217 3.963383 AATAAATGACGTCCGCAATCC 57.037 42.857 14.12 0.00 0.00 3.01
334 1218 1.658994 TAAATGACGTCCGCAATCCC 58.341 50.000 14.12 0.00 0.00 3.85
335 1219 1.366111 AAATGACGTCCGCAATCCCG 61.366 55.000 14.12 0.00 0.00 5.14
336 1220 2.515996 AATGACGTCCGCAATCCCGT 62.516 55.000 14.12 0.00 36.04 5.28
337 1221 2.433664 GACGTCCGCAATCCCGTT 60.434 61.111 3.51 0.00 33.03 4.44
338 1222 2.030958 GACGTCCGCAATCCCGTTT 61.031 57.895 3.51 0.00 33.03 3.60
339 1223 0.737019 GACGTCCGCAATCCCGTTTA 60.737 55.000 3.51 0.00 33.03 2.01
340 1224 0.738412 ACGTCCGCAATCCCGTTTAG 60.738 55.000 0.00 0.00 0.00 1.85
341 1225 0.738412 CGTCCGCAATCCCGTTTAGT 60.738 55.000 0.00 0.00 0.00 2.24
342 1226 1.445871 GTCCGCAATCCCGTTTAGTT 58.554 50.000 0.00 0.00 0.00 2.24
343 1227 2.620242 GTCCGCAATCCCGTTTAGTTA 58.380 47.619 0.00 0.00 0.00 2.24
344 1228 2.606272 GTCCGCAATCCCGTTTAGTTAG 59.394 50.000 0.00 0.00 0.00 2.34
345 1229 2.234414 TCCGCAATCCCGTTTAGTTAGT 59.766 45.455 0.00 0.00 0.00 2.24
346 1230 3.004862 CCGCAATCCCGTTTAGTTAGTT 58.995 45.455 0.00 0.00 0.00 2.24
347 1231 3.437741 CCGCAATCCCGTTTAGTTAGTTT 59.562 43.478 0.00 0.00 0.00 2.66
348 1232 4.083164 CCGCAATCCCGTTTAGTTAGTTTT 60.083 41.667 0.00 0.00 0.00 2.43
349 1233 5.454520 CGCAATCCCGTTTAGTTAGTTTTT 58.545 37.500 0.00 0.00 0.00 1.94
350 1234 5.341196 CGCAATCCCGTTTAGTTAGTTTTTG 59.659 40.000 0.00 0.00 0.00 2.44
351 1235 5.118050 GCAATCCCGTTTAGTTAGTTTTTGC 59.882 40.000 0.00 0.00 0.00 3.68
352 1236 6.443792 CAATCCCGTTTAGTTAGTTTTTGCT 58.556 36.000 0.00 0.00 0.00 3.91
353 1237 7.586747 CAATCCCGTTTAGTTAGTTTTTGCTA 58.413 34.615 0.00 0.00 0.00 3.49
354 1238 6.790285 TCCCGTTTAGTTAGTTTTTGCTAG 57.210 37.500 0.00 0.00 0.00 3.42
355 1239 5.179929 TCCCGTTTAGTTAGTTTTTGCTAGC 59.820 40.000 8.10 8.10 0.00 3.42
356 1240 5.180680 CCCGTTTAGTTAGTTTTTGCTAGCT 59.819 40.000 17.23 0.00 36.65 3.32
357 1241 6.293790 CCCGTTTAGTTAGTTTTTGCTAGCTT 60.294 38.462 17.23 0.00 34.92 3.74
358 1242 6.577427 CCGTTTAGTTAGTTTTTGCTAGCTTG 59.423 38.462 17.23 0.00 34.92 4.01
359 1243 7.349711 CGTTTAGTTAGTTTTTGCTAGCTTGA 58.650 34.615 17.23 0.00 34.92 3.02
360 1244 7.530861 CGTTTAGTTAGTTTTTGCTAGCTTGAG 59.469 37.037 17.23 0.00 34.92 3.02
361 1245 5.948992 AGTTAGTTTTTGCTAGCTTGAGG 57.051 39.130 17.23 0.00 30.04 3.86
362 1246 4.762251 AGTTAGTTTTTGCTAGCTTGAGGG 59.238 41.667 17.23 0.00 30.04 4.30
363 1247 3.229697 AGTTTTTGCTAGCTTGAGGGT 57.770 42.857 17.23 0.00 0.00 4.34
364 1248 3.566351 AGTTTTTGCTAGCTTGAGGGTT 58.434 40.909 17.23 0.00 0.00 4.11
365 1249 3.570125 AGTTTTTGCTAGCTTGAGGGTTC 59.430 43.478 17.23 0.00 0.00 3.62
366 1250 2.949177 TTTGCTAGCTTGAGGGTTCA 57.051 45.000 17.23 0.00 0.00 3.18
367 1251 3.439857 TTTGCTAGCTTGAGGGTTCAT 57.560 42.857 17.23 0.00 32.27 2.57
368 1252 3.439857 TTGCTAGCTTGAGGGTTCATT 57.560 42.857 17.23 0.00 32.27 2.57
369 1253 3.439857 TGCTAGCTTGAGGGTTCATTT 57.560 42.857 17.23 0.00 32.27 2.32
370 1254 3.766545 TGCTAGCTTGAGGGTTCATTTT 58.233 40.909 17.23 0.00 32.27 1.82
371 1255 4.151883 TGCTAGCTTGAGGGTTCATTTTT 58.848 39.130 17.23 0.00 32.27 1.94
372 1256 4.218417 TGCTAGCTTGAGGGTTCATTTTTC 59.782 41.667 17.23 0.00 32.27 2.29
373 1257 4.460731 GCTAGCTTGAGGGTTCATTTTTCT 59.539 41.667 7.70 0.00 32.27 2.52
374 1258 5.392487 GCTAGCTTGAGGGTTCATTTTTCTC 60.392 44.000 7.70 0.00 32.27 2.87
375 1259 4.473444 AGCTTGAGGGTTCATTTTTCTCA 58.527 39.130 0.00 0.00 32.27 3.27
376 1260 4.895297 AGCTTGAGGGTTCATTTTTCTCAA 59.105 37.500 0.00 0.00 40.70 3.02
377 1261 5.363580 AGCTTGAGGGTTCATTTTTCTCAAA 59.636 36.000 0.00 0.00 41.84 2.69
378 1262 5.463392 GCTTGAGGGTTCATTTTTCTCAAAC 59.537 40.000 0.00 0.00 41.84 2.93
379 1263 6.537453 TTGAGGGTTCATTTTTCTCAAACA 57.463 33.333 0.00 0.00 40.23 2.83
380 1264 6.537453 TGAGGGTTCATTTTTCTCAAACAA 57.463 33.333 0.00 0.00 32.36 2.83
381 1265 6.940739 TGAGGGTTCATTTTTCTCAAACAAA 58.059 32.000 0.00 0.00 32.36 2.83
382 1266 6.816140 TGAGGGTTCATTTTTCTCAAACAAAC 59.184 34.615 0.00 0.00 32.36 2.93
383 1267 6.706295 AGGGTTCATTTTTCTCAAACAAACA 58.294 32.000 0.00 0.00 0.00 2.83
384 1268 7.164803 AGGGTTCATTTTTCTCAAACAAACAA 58.835 30.769 0.00 0.00 0.00 2.83
385 1269 7.663493 AGGGTTCATTTTTCTCAAACAAACAAA 59.337 29.630 0.00 0.00 0.00 2.83
386 1270 8.293157 GGGTTCATTTTTCTCAAACAAACAAAA 58.707 29.630 0.00 0.00 0.00 2.44
387 1271 9.670719 GGTTCATTTTTCTCAAACAAACAAAAA 57.329 25.926 0.00 0.00 32.16 1.94
438 1322 8.630037 AGTGAACTTTAAACAGGATTAAACAGG 58.370 33.333 0.00 0.00 32.77 4.00
439 1323 8.626526 GTGAACTTTAAACAGGATTAAACAGGA 58.373 33.333 0.00 0.00 32.77 3.86
440 1324 8.626526 TGAACTTTAAACAGGATTAAACAGGAC 58.373 33.333 0.00 0.00 32.77 3.85
441 1325 7.520451 ACTTTAAACAGGATTAAACAGGACC 57.480 36.000 0.00 0.00 32.77 4.46
442 1326 6.492429 ACTTTAAACAGGATTAAACAGGACCC 59.508 38.462 0.00 0.00 32.77 4.46
443 1327 2.781681 ACAGGATTAAACAGGACCCG 57.218 50.000 0.00 0.00 0.00 5.28
444 1328 1.280998 ACAGGATTAAACAGGACCCGG 59.719 52.381 0.00 0.00 0.00 5.73
445 1329 1.280998 CAGGATTAAACAGGACCCGGT 59.719 52.381 0.00 0.00 0.00 5.28
446 1330 1.990327 AGGATTAAACAGGACCCGGTT 59.010 47.619 0.00 0.00 35.99 4.44
447 1331 2.089201 GGATTAAACAGGACCCGGTTG 58.911 52.381 0.00 0.00 34.79 3.77
448 1332 2.290450 GGATTAAACAGGACCCGGTTGA 60.290 50.000 0.00 0.00 34.79 3.18
449 1333 2.259266 TTAAACAGGACCCGGTTGAC 57.741 50.000 0.00 0.00 34.79 3.18
450 1334 1.129917 TAAACAGGACCCGGTTGACA 58.870 50.000 0.00 0.00 34.79 3.58
451 1335 0.476771 AAACAGGACCCGGTTGACAT 59.523 50.000 0.00 0.00 34.79 3.06
452 1336 0.036306 AACAGGACCCGGTTGACATC 59.964 55.000 0.00 0.00 33.42 3.06
453 1337 1.078426 CAGGACCCGGTTGACATCC 60.078 63.158 0.00 0.00 0.00 3.51
454 1338 2.271173 GGACCCGGTTGACATCCC 59.729 66.667 0.00 0.00 0.00 3.85
455 1339 2.298661 GGACCCGGTTGACATCCCT 61.299 63.158 0.00 0.00 0.00 4.20
456 1340 0.979187 GGACCCGGTTGACATCCCTA 60.979 60.000 0.00 0.00 0.00 3.53
457 1341 0.177373 GACCCGGTTGACATCCCTAC 59.823 60.000 0.00 0.00 0.00 3.18
458 1342 1.143183 CCCGGTTGACATCCCTACG 59.857 63.158 0.00 0.00 0.00 3.51
459 1343 1.324740 CCCGGTTGACATCCCTACGA 61.325 60.000 0.00 0.00 0.00 3.43
460 1344 0.179119 CCGGTTGACATCCCTACGAC 60.179 60.000 0.00 0.00 0.00 4.34
461 1345 0.524816 CGGTTGACATCCCTACGACG 60.525 60.000 0.00 0.00 0.00 5.12
470 1354 1.089920 TCCCTACGACGAGCTAACAC 58.910 55.000 0.00 0.00 0.00 3.32
491 1375 2.539338 GCGTTTGTGGCGGTGAGAA 61.539 57.895 0.00 0.00 0.00 2.87
492 1376 2.018544 CGTTTGTGGCGGTGAGAAA 58.981 52.632 0.00 0.00 0.00 2.52
493 1377 0.591170 CGTTTGTGGCGGTGAGAAAT 59.409 50.000 0.00 0.00 0.00 2.17
494 1378 1.662876 CGTTTGTGGCGGTGAGAAATG 60.663 52.381 0.00 0.00 0.00 2.32
495 1379 0.958091 TTTGTGGCGGTGAGAAATGG 59.042 50.000 0.00 0.00 0.00 3.16
496 1380 0.109532 TTGTGGCGGTGAGAAATGGA 59.890 50.000 0.00 0.00 0.00 3.41
497 1381 0.321564 TGTGGCGGTGAGAAATGGAG 60.322 55.000 0.00 0.00 0.00 3.86
498 1382 1.026718 GTGGCGGTGAGAAATGGAGG 61.027 60.000 0.00 0.00 0.00 4.30
499 1383 1.452108 GGCGGTGAGAAATGGAGGG 60.452 63.158 0.00 0.00 0.00 4.30
500 1384 1.299976 GCGGTGAGAAATGGAGGGT 59.700 57.895 0.00 0.00 0.00 4.34
501 1385 0.322546 GCGGTGAGAAATGGAGGGTT 60.323 55.000 0.00 0.00 0.00 4.11
502 1386 1.886655 GCGGTGAGAAATGGAGGGTTT 60.887 52.381 0.00 0.00 0.00 3.27
503 1387 2.514803 CGGTGAGAAATGGAGGGTTTT 58.485 47.619 0.00 0.00 0.00 2.43
504 1388 2.890945 CGGTGAGAAATGGAGGGTTTTT 59.109 45.455 0.00 0.00 0.00 1.94
523 1407 4.996062 TTTTTAGCCGAAACCGTAGAAG 57.004 40.909 0.00 0.00 0.00 2.85
524 1408 3.940209 TTTAGCCGAAACCGTAGAAGA 57.060 42.857 0.00 0.00 0.00 2.87
525 1409 3.940209 TTAGCCGAAACCGTAGAAGAA 57.060 42.857 0.00 0.00 0.00 2.52
526 1410 4.460948 TTAGCCGAAACCGTAGAAGAAT 57.539 40.909 0.00 0.00 0.00 2.40
527 1411 2.889852 AGCCGAAACCGTAGAAGAATC 58.110 47.619 0.00 0.00 0.00 2.52
528 1412 1.587034 GCCGAAACCGTAGAAGAATCG 59.413 52.381 0.00 0.00 0.00 3.34
529 1413 2.872370 CCGAAACCGTAGAAGAATCGT 58.128 47.619 0.00 0.00 0.00 3.73
530 1414 3.248266 CCGAAACCGTAGAAGAATCGTT 58.752 45.455 0.00 0.00 0.00 3.85
531 1415 3.302699 CCGAAACCGTAGAAGAATCGTTC 59.697 47.826 0.00 0.00 0.00 3.95
532 1416 4.164294 CGAAACCGTAGAAGAATCGTTCT 58.836 43.478 0.00 0.00 43.15 3.01
533 1417 5.327091 CGAAACCGTAGAAGAATCGTTCTA 58.673 41.667 1.53 0.00 39.61 2.10
628 1512 4.773323 GCAGTAAGCAGTTCTTTTCCAT 57.227 40.909 0.00 0.00 44.79 3.41
815 1738 2.234913 CTGGTTCTCGTTACCGGGGG 62.235 65.000 6.32 0.00 38.21 5.40
894 1817 1.304381 AATGCGATGTGGTGCCCTT 60.304 52.632 0.00 0.00 0.00 3.95
907 1830 4.241555 CCCTTCATCCGCTCCCCG 62.242 72.222 0.00 0.00 0.00 5.73
1331 2260 2.036475 CACACTACCAGTTGAGCTCAGT 59.964 50.000 17.43 13.64 0.00 3.41
1405 2335 9.263446 ACTACACCAAGATTACTCTGGTATAAA 57.737 33.333 4.63 0.00 33.70 1.40
1488 2418 0.104882 TGTCCAAGGAGTACCACCCA 60.105 55.000 3.49 0.00 38.94 4.51
1513 2443 2.184322 CGAGGCTGCCGCTAAAGA 59.816 61.111 20.11 0.00 36.09 2.52
1758 2688 4.783621 GCCATGACAGCCCTCGCA 62.784 66.667 0.00 0.00 37.52 5.10
2171 3107 6.710597 ATCTCAGGCGTATAGTTGAAACTA 57.289 37.500 5.43 5.43 44.84 2.24
2451 3494 5.133941 TCAGATAGTTGCTCCGTAGATCTT 58.866 41.667 0.00 0.00 0.00 2.40
2511 3554 5.783111 ACATTGGAAATAACAGAACTTGCC 58.217 37.500 0.00 0.00 0.00 4.52
2608 3651 1.019278 ACATTGCCTCGCCTGTAACG 61.019 55.000 0.00 0.00 0.00 3.18
2655 3698 9.974980 GGATTCCTTTAAAGAAAAACACATACA 57.025 29.630 16.98 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.759489 TTGTTTTCACCATATCTACTTGCTT 57.241 32.000 0.00 0.00 0.00 3.91
1 2 7.394359 ACATTGTTTTCACCATATCTACTTGCT 59.606 33.333 0.00 0.00 0.00 3.91
2 3 7.485913 CACATTGTTTTCACCATATCTACTTGC 59.514 37.037 0.00 0.00 0.00 4.01
3 4 7.970061 CCACATTGTTTTCACCATATCTACTTG 59.030 37.037 0.00 0.00 0.00 3.16
4 5 7.888021 TCCACATTGTTTTCACCATATCTACTT 59.112 33.333 0.00 0.00 0.00 2.24
5 6 7.402054 TCCACATTGTTTTCACCATATCTACT 58.598 34.615 0.00 0.00 0.00 2.57
6 7 7.624360 TCCACATTGTTTTCACCATATCTAC 57.376 36.000 0.00 0.00 0.00 2.59
7 8 7.667635 TGTTCCACATTGTTTTCACCATATCTA 59.332 33.333 0.00 0.00 0.00 1.98
8 9 6.493115 TGTTCCACATTGTTTTCACCATATCT 59.507 34.615 0.00 0.00 0.00 1.98
9 10 6.686630 TGTTCCACATTGTTTTCACCATATC 58.313 36.000 0.00 0.00 0.00 1.63
10 11 6.662865 TGTTCCACATTGTTTTCACCATAT 57.337 33.333 0.00 0.00 0.00 1.78
11 12 6.471233 TTGTTCCACATTGTTTTCACCATA 57.529 33.333 0.00 0.00 0.00 2.74
12 13 5.350504 TTGTTCCACATTGTTTTCACCAT 57.649 34.783 0.00 0.00 0.00 3.55
13 14 4.808414 TTGTTCCACATTGTTTTCACCA 57.192 36.364 0.00 0.00 0.00 4.17
14 15 5.415221 TCTTTGTTCCACATTGTTTTCACC 58.585 37.500 0.00 0.00 0.00 4.02
15 16 8.641499 TTATCTTTGTTCCACATTGTTTTCAC 57.359 30.769 0.00 0.00 0.00 3.18
16 17 9.092876 GTTTATCTTTGTTCCACATTGTTTTCA 57.907 29.630 0.00 0.00 0.00 2.69
17 18 8.265998 CGTTTATCTTTGTTCCACATTGTTTTC 58.734 33.333 0.00 0.00 0.00 2.29
18 19 7.254286 GCGTTTATCTTTGTTCCACATTGTTTT 60.254 33.333 0.00 0.00 0.00 2.43
19 20 6.200097 GCGTTTATCTTTGTTCCACATTGTTT 59.800 34.615 0.00 0.00 0.00 2.83
20 21 5.689961 GCGTTTATCTTTGTTCCACATTGTT 59.310 36.000 0.00 0.00 0.00 2.83
21 22 5.219633 GCGTTTATCTTTGTTCCACATTGT 58.780 37.500 0.00 0.00 0.00 2.71
22 23 5.116983 GTGCGTTTATCTTTGTTCCACATTG 59.883 40.000 0.00 0.00 0.00 2.82
23 24 5.219633 GTGCGTTTATCTTTGTTCCACATT 58.780 37.500 0.00 0.00 0.00 2.71
24 25 4.277174 TGTGCGTTTATCTTTGTTCCACAT 59.723 37.500 0.00 0.00 0.00 3.21
25 26 3.628032 TGTGCGTTTATCTTTGTTCCACA 59.372 39.130 0.00 0.00 0.00 4.17
26 27 3.972502 GTGTGCGTTTATCTTTGTTCCAC 59.027 43.478 0.00 0.00 0.00 4.02
27 28 3.628032 TGTGTGCGTTTATCTTTGTTCCA 59.372 39.130 0.00 0.00 0.00 3.53
28 29 4.217754 TGTGTGCGTTTATCTTTGTTCC 57.782 40.909 0.00 0.00 0.00 3.62
38 39 1.271652 ACATCCCCATGTGTGCGTTTA 60.272 47.619 0.00 0.00 42.05 2.01
40 41 0.326595 TACATCCCCATGTGTGCGTT 59.673 50.000 0.00 0.00 43.54 4.84
42 43 1.439353 GCTACATCCCCATGTGTGCG 61.439 60.000 0.00 0.00 43.54 5.34
50 51 1.922447 ACCATTTGAGCTACATCCCCA 59.078 47.619 0.00 0.00 0.00 4.96
264 1148 2.298163 CAGGAAATGGCAGTGAAGCTTT 59.702 45.455 0.00 0.00 34.17 3.51
293 1177 3.819564 TTGCCACTTACATCGCTAGAT 57.180 42.857 0.00 0.00 37.65 1.98
294 1178 3.603158 TTTGCCACTTACATCGCTAGA 57.397 42.857 0.00 0.00 0.00 2.43
295 1179 5.984233 TTATTTGCCACTTACATCGCTAG 57.016 39.130 0.00 0.00 0.00 3.42
296 1180 6.540551 TCATTTATTTGCCACTTACATCGCTA 59.459 34.615 0.00 0.00 0.00 4.26
297 1181 5.356751 TCATTTATTTGCCACTTACATCGCT 59.643 36.000 0.00 0.00 0.00 4.93
298 1182 5.455525 GTCATTTATTTGCCACTTACATCGC 59.544 40.000 0.00 0.00 0.00 4.58
299 1183 5.676744 CGTCATTTATTTGCCACTTACATCG 59.323 40.000 0.00 0.00 0.00 3.84
300 1184 6.551736 ACGTCATTTATTTGCCACTTACATC 58.448 36.000 0.00 0.00 0.00 3.06
301 1185 6.404293 GGACGTCATTTATTTGCCACTTACAT 60.404 38.462 18.91 0.00 0.00 2.29
302 1186 5.106475 GGACGTCATTTATTTGCCACTTACA 60.106 40.000 18.91 0.00 0.00 2.41
303 1187 5.329493 GGACGTCATTTATTTGCCACTTAC 58.671 41.667 18.91 0.00 0.00 2.34
304 1188 4.093703 CGGACGTCATTTATTTGCCACTTA 59.906 41.667 18.91 0.00 0.00 2.24
305 1189 3.119990 CGGACGTCATTTATTTGCCACTT 60.120 43.478 18.91 0.00 0.00 3.16
306 1190 2.418628 CGGACGTCATTTATTTGCCACT 59.581 45.455 18.91 0.00 0.00 4.00
307 1191 2.780993 CGGACGTCATTTATTTGCCAC 58.219 47.619 18.91 0.00 0.00 5.01
308 1192 1.131504 GCGGACGTCATTTATTTGCCA 59.868 47.619 18.91 0.00 0.00 4.92
309 1193 1.131504 TGCGGACGTCATTTATTTGCC 59.868 47.619 18.91 0.00 0.00 4.52
310 1194 2.535934 TGCGGACGTCATTTATTTGC 57.464 45.000 18.91 7.92 0.00 3.68
311 1195 4.035017 GGATTGCGGACGTCATTTATTTG 58.965 43.478 18.91 0.00 0.00 2.32
312 1196 3.066203 GGGATTGCGGACGTCATTTATTT 59.934 43.478 18.91 0.00 0.00 1.40
313 1197 2.616842 GGGATTGCGGACGTCATTTATT 59.383 45.455 18.91 0.00 0.00 1.40
314 1198 2.218603 GGGATTGCGGACGTCATTTAT 58.781 47.619 18.91 5.06 0.00 1.40
315 1199 1.658994 GGGATTGCGGACGTCATTTA 58.341 50.000 18.91 0.00 0.00 1.40
316 1200 1.366111 CGGGATTGCGGACGTCATTT 61.366 55.000 18.91 0.00 0.00 2.32
317 1201 1.813753 CGGGATTGCGGACGTCATT 60.814 57.895 18.91 0.00 0.00 2.57
318 1202 2.202878 CGGGATTGCGGACGTCAT 60.203 61.111 18.91 1.23 0.00 3.06
319 1203 2.718747 AAACGGGATTGCGGACGTCA 62.719 55.000 18.91 0.00 38.79 4.35
320 1204 0.737019 TAAACGGGATTGCGGACGTC 60.737 55.000 7.13 7.13 38.79 4.34
321 1205 0.738412 CTAAACGGGATTGCGGACGT 60.738 55.000 0.00 0.00 41.88 4.34
322 1206 0.738412 ACTAAACGGGATTGCGGACG 60.738 55.000 0.00 0.00 0.00 4.79
323 1207 1.445871 AACTAAACGGGATTGCGGAC 58.554 50.000 0.00 0.00 0.00 4.79
324 1208 2.234414 ACTAACTAAACGGGATTGCGGA 59.766 45.455 0.00 0.00 0.00 5.54
325 1209 2.624636 ACTAACTAAACGGGATTGCGG 58.375 47.619 0.00 0.00 0.00 5.69
326 1210 4.673534 AAACTAACTAAACGGGATTGCG 57.326 40.909 0.00 0.00 0.00 4.85
327 1211 5.118050 GCAAAAACTAACTAAACGGGATTGC 59.882 40.000 0.00 0.00 0.00 3.56
328 1212 6.443792 AGCAAAAACTAACTAAACGGGATTG 58.556 36.000 0.00 0.00 0.00 2.67
329 1213 6.644248 AGCAAAAACTAACTAAACGGGATT 57.356 33.333 0.00 0.00 0.00 3.01
330 1214 6.128090 GCTAGCAAAAACTAACTAAACGGGAT 60.128 38.462 10.63 0.00 0.00 3.85
331 1215 5.179929 GCTAGCAAAAACTAACTAAACGGGA 59.820 40.000 10.63 0.00 0.00 5.14
332 1216 5.180680 AGCTAGCAAAAACTAACTAAACGGG 59.819 40.000 18.83 0.00 0.00 5.28
333 1217 6.237313 AGCTAGCAAAAACTAACTAAACGG 57.763 37.500 18.83 0.00 0.00 4.44
334 1218 7.349711 TCAAGCTAGCAAAAACTAACTAAACG 58.650 34.615 18.83 0.00 0.00 3.60
335 1219 7.803659 CCTCAAGCTAGCAAAAACTAACTAAAC 59.196 37.037 18.83 0.00 0.00 2.01
336 1220 7.040686 CCCTCAAGCTAGCAAAAACTAACTAAA 60.041 37.037 18.83 0.00 0.00 1.85
337 1221 6.430000 CCCTCAAGCTAGCAAAAACTAACTAA 59.570 38.462 18.83 0.00 0.00 2.24
338 1222 5.938125 CCCTCAAGCTAGCAAAAACTAACTA 59.062 40.000 18.83 0.00 0.00 2.24
339 1223 4.762251 CCCTCAAGCTAGCAAAAACTAACT 59.238 41.667 18.83 0.00 0.00 2.24
340 1224 4.519350 ACCCTCAAGCTAGCAAAAACTAAC 59.481 41.667 18.83 0.00 0.00 2.34
341 1225 4.725490 ACCCTCAAGCTAGCAAAAACTAA 58.275 39.130 18.83 0.00 0.00 2.24
342 1226 4.367039 ACCCTCAAGCTAGCAAAAACTA 57.633 40.909 18.83 0.00 0.00 2.24
343 1227 3.229697 ACCCTCAAGCTAGCAAAAACT 57.770 42.857 18.83 0.00 0.00 2.66
344 1228 3.317993 TGAACCCTCAAGCTAGCAAAAAC 59.682 43.478 18.83 0.00 0.00 2.43
345 1229 3.561143 TGAACCCTCAAGCTAGCAAAAA 58.439 40.909 18.83 0.00 0.00 1.94
346 1230 3.222173 TGAACCCTCAAGCTAGCAAAA 57.778 42.857 18.83 0.00 0.00 2.44
347 1231 2.949177 TGAACCCTCAAGCTAGCAAA 57.051 45.000 18.83 0.13 0.00 3.68
348 1232 3.439857 AATGAACCCTCAAGCTAGCAA 57.560 42.857 18.83 0.53 34.49 3.91
349 1233 3.439857 AAATGAACCCTCAAGCTAGCA 57.560 42.857 18.83 0.00 34.49 3.49
350 1234 4.460731 AGAAAAATGAACCCTCAAGCTAGC 59.539 41.667 6.62 6.62 34.49 3.42
351 1235 5.707298 TGAGAAAAATGAACCCTCAAGCTAG 59.293 40.000 0.00 0.00 34.49 3.42
352 1236 5.630121 TGAGAAAAATGAACCCTCAAGCTA 58.370 37.500 0.00 0.00 34.49 3.32
353 1237 4.473444 TGAGAAAAATGAACCCTCAAGCT 58.527 39.130 0.00 0.00 34.49 3.74
354 1238 4.853924 TGAGAAAAATGAACCCTCAAGC 57.146 40.909 0.00 0.00 34.49 4.01
355 1239 6.572519 TGTTTGAGAAAAATGAACCCTCAAG 58.427 36.000 0.00 0.00 42.50 3.02
356 1240 6.537453 TGTTTGAGAAAAATGAACCCTCAA 57.463 33.333 0.00 0.00 40.72 3.02
357 1241 6.537453 TTGTTTGAGAAAAATGAACCCTCA 57.463 33.333 0.00 0.00 35.56 3.86
358 1242 6.816140 TGTTTGTTTGAGAAAAATGAACCCTC 59.184 34.615 0.00 0.00 0.00 4.30
359 1243 6.706295 TGTTTGTTTGAGAAAAATGAACCCT 58.294 32.000 0.00 0.00 0.00 4.34
360 1244 6.976636 TGTTTGTTTGAGAAAAATGAACCC 57.023 33.333 0.00 0.00 0.00 4.11
361 1245 9.670719 TTTTTGTTTGTTTGAGAAAAATGAACC 57.329 25.926 0.00 0.00 28.24 3.62
412 1296 8.630037 CCTGTTTAATCCTGTTTAAAGTTCACT 58.370 33.333 0.00 0.00 33.07 3.41
413 1297 8.626526 TCCTGTTTAATCCTGTTTAAAGTTCAC 58.373 33.333 0.00 0.00 33.07 3.18
414 1298 8.626526 GTCCTGTTTAATCCTGTTTAAAGTTCA 58.373 33.333 0.00 0.00 33.07 3.18
415 1299 8.080417 GGTCCTGTTTAATCCTGTTTAAAGTTC 58.920 37.037 0.00 0.00 33.07 3.01
416 1300 7.014905 GGGTCCTGTTTAATCCTGTTTAAAGTT 59.985 37.037 0.00 0.00 33.07 2.66
417 1301 6.492429 GGGTCCTGTTTAATCCTGTTTAAAGT 59.508 38.462 0.00 0.00 33.07 2.66
418 1302 6.349033 CGGGTCCTGTTTAATCCTGTTTAAAG 60.349 42.308 0.00 0.00 33.07 1.85
419 1303 5.474189 CGGGTCCTGTTTAATCCTGTTTAAA 59.526 40.000 0.00 0.00 0.00 1.52
420 1304 5.005094 CGGGTCCTGTTTAATCCTGTTTAA 58.995 41.667 0.00 0.00 0.00 1.52
421 1305 4.566070 CCGGGTCCTGTTTAATCCTGTTTA 60.566 45.833 0.00 0.00 0.00 2.01
422 1306 3.418047 CGGGTCCTGTTTAATCCTGTTT 58.582 45.455 0.00 0.00 0.00 2.83
423 1307 2.290705 CCGGGTCCTGTTTAATCCTGTT 60.291 50.000 0.00 0.00 0.00 3.16
424 1308 1.280998 CCGGGTCCTGTTTAATCCTGT 59.719 52.381 0.00 0.00 0.00 4.00
425 1309 1.280998 ACCGGGTCCTGTTTAATCCTG 59.719 52.381 6.32 0.00 0.00 3.86
426 1310 1.665137 ACCGGGTCCTGTTTAATCCT 58.335 50.000 6.32 0.00 0.00 3.24
427 1311 2.089201 CAACCGGGTCCTGTTTAATCC 58.911 52.381 6.32 0.00 0.00 3.01
428 1312 2.745821 GTCAACCGGGTCCTGTTTAATC 59.254 50.000 6.32 0.00 0.00 1.75
429 1313 2.106857 TGTCAACCGGGTCCTGTTTAAT 59.893 45.455 6.32 0.00 0.00 1.40
430 1314 1.489649 TGTCAACCGGGTCCTGTTTAA 59.510 47.619 6.32 0.00 0.00 1.52
431 1315 1.129917 TGTCAACCGGGTCCTGTTTA 58.870 50.000 6.32 0.00 0.00 2.01
432 1316 0.476771 ATGTCAACCGGGTCCTGTTT 59.523 50.000 6.32 0.00 0.00 2.83
433 1317 0.036306 GATGTCAACCGGGTCCTGTT 59.964 55.000 6.32 0.00 0.00 3.16
434 1318 1.677552 GATGTCAACCGGGTCCTGT 59.322 57.895 6.32 0.00 0.00 4.00
435 1319 1.078426 GGATGTCAACCGGGTCCTG 60.078 63.158 6.32 0.00 0.00 3.86
436 1320 2.298661 GGGATGTCAACCGGGTCCT 61.299 63.158 6.32 0.00 0.00 3.85
437 1321 0.979187 TAGGGATGTCAACCGGGTCC 60.979 60.000 6.32 0.00 0.00 4.46
438 1322 0.177373 GTAGGGATGTCAACCGGGTC 59.823 60.000 6.32 0.00 0.00 4.46
439 1323 1.610554 CGTAGGGATGTCAACCGGGT 61.611 60.000 6.32 0.00 0.00 5.28
440 1324 1.143183 CGTAGGGATGTCAACCGGG 59.857 63.158 6.32 0.00 0.00 5.73
441 1325 0.179119 GTCGTAGGGATGTCAACCGG 60.179 60.000 0.00 0.00 0.00 5.28
442 1326 0.524816 CGTCGTAGGGATGTCAACCG 60.525 60.000 0.00 0.00 0.00 4.44
443 1327 0.813184 TCGTCGTAGGGATGTCAACC 59.187 55.000 0.00 0.00 33.20 3.77
444 1328 1.798079 GCTCGTCGTAGGGATGTCAAC 60.798 57.143 0.00 0.00 33.20 3.18
445 1329 0.454600 GCTCGTCGTAGGGATGTCAA 59.545 55.000 0.00 0.00 33.20 3.18
446 1330 0.393944 AGCTCGTCGTAGGGATGTCA 60.394 55.000 0.00 0.00 33.20 3.58
447 1331 1.590932 TAGCTCGTCGTAGGGATGTC 58.409 55.000 0.00 0.00 33.20 3.06
448 1332 1.674962 GTTAGCTCGTCGTAGGGATGT 59.325 52.381 0.00 0.00 33.20 3.06
449 1333 1.674441 TGTTAGCTCGTCGTAGGGATG 59.326 52.381 0.00 0.00 0.00 3.51
450 1334 1.674962 GTGTTAGCTCGTCGTAGGGAT 59.325 52.381 0.00 0.00 0.00 3.85
451 1335 1.089920 GTGTTAGCTCGTCGTAGGGA 58.910 55.000 0.00 0.00 0.00 4.20
452 1336 0.247974 CGTGTTAGCTCGTCGTAGGG 60.248 60.000 0.00 0.00 0.00 3.53
453 1337 0.723414 TCGTGTTAGCTCGTCGTAGG 59.277 55.000 0.00 0.00 33.82 3.18
454 1338 1.851295 GCTCGTGTTAGCTCGTCGTAG 60.851 57.143 0.00 0.00 39.50 3.51
455 1339 0.095935 GCTCGTGTTAGCTCGTCGTA 59.904 55.000 0.00 0.00 39.50 3.43
456 1340 1.154263 GCTCGTGTTAGCTCGTCGT 60.154 57.895 0.00 0.00 39.50 4.34
457 1341 2.209076 CGCTCGTGTTAGCTCGTCG 61.209 63.158 0.00 3.29 40.49 5.12
458 1342 0.728466 AACGCTCGTGTTAGCTCGTC 60.728 55.000 0.00 0.00 40.49 4.20
459 1343 0.318445 AAACGCTCGTGTTAGCTCGT 60.318 50.000 0.00 0.00 40.49 4.18
460 1344 0.091344 CAAACGCTCGTGTTAGCTCG 59.909 55.000 0.00 0.00 40.49 5.03
461 1345 1.136611 CACAAACGCTCGTGTTAGCTC 60.137 52.381 0.00 0.00 40.49 4.09
470 1354 4.368808 CACCGCCACAAACGCTCG 62.369 66.667 0.00 0.00 0.00 5.03
502 1386 4.630111 TCTTCTACGGTTTCGGCTAAAAA 58.370 39.130 0.00 0.00 41.39 1.94
503 1387 4.255833 TCTTCTACGGTTTCGGCTAAAA 57.744 40.909 0.00 0.00 41.39 1.52
504 1388 3.940209 TCTTCTACGGTTTCGGCTAAA 57.060 42.857 0.00 0.00 41.39 1.85
505 1389 3.940209 TTCTTCTACGGTTTCGGCTAA 57.060 42.857 0.00 0.00 41.39 3.09
506 1390 3.488047 CGATTCTTCTACGGTTTCGGCTA 60.488 47.826 0.00 0.00 41.39 3.93
507 1391 2.734492 CGATTCTTCTACGGTTTCGGCT 60.734 50.000 0.00 0.00 41.39 5.52
508 1392 1.587034 CGATTCTTCTACGGTTTCGGC 59.413 52.381 0.00 0.00 41.39 5.54
509 1393 2.872370 ACGATTCTTCTACGGTTTCGG 58.128 47.619 0.00 0.00 41.39 4.30
510 1394 4.164294 AGAACGATTCTTCTACGGTTTCG 58.836 43.478 0.00 0.00 36.36 3.46
511 1395 6.551812 GTAGAACGATTCTTCTACGGTTTC 57.448 41.667 14.60 0.00 41.59 2.78
517 1401 8.626093 AAAATACCGTAGAACGATTCTTCTAC 57.374 34.615 17.29 17.29 46.05 2.59
556 1440 3.951037 TGCTATCGTGTGGCCAAAATAAT 59.049 39.130 7.24 0.00 32.50 1.28
628 1512 3.165875 GAGCATAGCTATACCCTGACCA 58.834 50.000 5.77 0.00 39.88 4.02
721 1626 2.558378 CAGATGATCATTGTGAGGCGT 58.442 47.619 10.14 0.00 0.00 5.68
821 1744 1.100463 TGCGCCACATGTTGACACTT 61.100 50.000 4.18 0.00 0.00 3.16
907 1830 0.385974 GTGTTCATGCGAGTTGTGGC 60.386 55.000 0.00 0.00 0.00 5.01
910 1833 1.333619 GGTTGTGTTCATGCGAGTTGT 59.666 47.619 0.00 0.00 0.00 3.32
916 1839 1.725625 GTGCGGTTGTGTTCATGCG 60.726 57.895 0.00 0.00 0.00 4.73
1161 2090 0.036294 CCACCGTCTTCTTCTTCCCC 60.036 60.000 0.00 0.00 0.00 4.81
1331 2260 4.159135 GGACGTAGGGTGAATTCTGTTAGA 59.841 45.833 7.05 0.00 0.00 2.10
1405 2335 2.158943 GCGCTATTCCTAAGAACCTGGT 60.159 50.000 0.00 0.00 33.97 4.00
1488 2418 4.057428 GGCAGCCTCGTCGTGTCT 62.057 66.667 3.29 0.00 0.00 3.41
1509 2439 1.080705 CTTCTCCGACGCCGTCTTT 60.081 57.895 16.07 0.00 0.00 2.52
1513 2443 1.874345 ATGAACTTCTCCGACGCCGT 61.874 55.000 0.00 0.00 0.00 5.68
1758 2688 2.531522 TGATGATGCCGATGTCGAAT 57.468 45.000 3.62 0.00 43.02 3.34
2171 3107 2.309755 TGAATGACCCTTCTCAGGCAAT 59.690 45.455 0.00 0.00 39.20 3.56
2451 3494 2.288152 GCTCCGGATGCTTTTTGTTTGA 60.288 45.455 3.57 0.00 0.00 2.69
2608 3651 5.772521 TCCGTAAACTTACACTTACTGACC 58.227 41.667 0.87 0.00 33.28 4.02
2680 3723 9.938280 ACAGGCGTATCTATCTATCTATCTATC 57.062 37.037 0.00 0.00 0.00 2.08


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

AutoCloner maintained by Alex Coulton.