Multiple sequence alignment - TraesCS7A01G016100

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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 TraesCS7A01G016100 chr7A 100.000 4413 0 0 1 4413 6862918 6867330 0.000000e+00 8150.0
1 TraesCS7A01G016100 chr4A 94.089 1624 67 13 2796 4413 737085976 737084376 0.000000e+00 2440.0
2 TraesCS7A01G016100 chr4A 86.030 1811 171 32 2636 4413 736309045 736310806 0.000000e+00 1868.0
3 TraesCS7A01G016100 chr4A 90.990 899 43 18 222 1088 737089583 737088691 0.000000e+00 1177.0
4 TraesCS7A01G016100 chr4A 83.535 1324 112 44 2639 3927 737067745 737066493 0.000000e+00 1140.0
5 TraesCS7A01G016100 chr4A 91.513 707 34 2 1314 2020 737087559 737086879 0.000000e+00 950.0
6 TraesCS7A01G016100 chr4A 88.830 761 77 5 1259 2018 736307486 736308239 0.000000e+00 928.0
7 TraesCS7A01G016100 chr4A 93.069 505 35 0 1259 1763 737069417 737068913 0.000000e+00 739.0
8 TraesCS7A01G016100 chr4A 88.788 553 41 4 556 1092 736306941 736307488 0.000000e+00 658.0
9 TraesCS7A01G016100 chr4A 86.438 612 52 17 1 584 737070554 737069946 3.720000e-180 641.0
10 TraesCS7A01G016100 chr4A 85.842 558 39 11 559 1100 737069941 737069408 1.390000e-154 556.0
11 TraesCS7A01G016100 chr4A 90.071 423 39 2 3959 4378 737066494 737066072 3.000000e-151 545.0
12 TraesCS7A01G016100 chr4A 91.328 369 30 2 216 584 736306573 736306939 1.830000e-138 503.0
13 TraesCS7A01G016100 chr4A 76.210 971 147 54 2738 3689 737062138 737061233 1.880000e-118 436.0
14 TraesCS7A01G016100 chr4A 91.830 306 18 6 2017 2321 737086818 737086519 1.900000e-113 420.0
15 TraesCS7A01G016100 chr4A 92.694 219 13 3 1 218 737089839 737089623 3.310000e-81 313.0
16 TraesCS7A01G016100 chr4A 87.259 259 26 4 1761 2019 737068810 737068559 5.580000e-74 289.0
17 TraesCS7A01G016100 chr4A 80.779 385 47 17 716 1100 737063983 737063626 4.350000e-70 276.0
18 TraesCS7A01G016100 chr4A 95.808 167 6 1 2596 2761 737086143 737085977 7.280000e-68 268.0
19 TraesCS7A01G016100 chr4A 92.432 185 10 4 2413 2596 737086399 737086218 1.220000e-65 261.0
20 TraesCS7A01G016100 chr4A 87.634 186 21 2 2412 2596 736308720 736308904 9.610000e-52 215.0
21 TraesCS7A01G016100 chr4A 79.511 327 39 13 2017 2318 736308301 736308624 1.610000e-49 207.0
22 TraesCS7A01G016100 chr4A 87.778 180 19 3 2413 2591 737068072 737067895 1.610000e-49 207.0
23 TraesCS7A01G016100 chr4A 87.097 155 16 4 1098 1249 740461956 740462109 5.870000e-39 172.0
24 TraesCS7A01G016100 chr7D 86.298 1810 163 36 2636 4410 5416456 5418215 0.000000e+00 1890.0
25 TraesCS7A01G016100 chr7D 94.292 876 40 6 216 1088 5386331 5387199 0.000000e+00 1332.0
26 TraesCS7A01G016100 chr7D 86.382 1263 114 24 3200 4413 5390246 5391499 0.000000e+00 1327.0
27 TraesCS7A01G016100 chr7D 94.492 708 38 1 1313 2020 5388287 5388993 0.000000e+00 1090.0
28 TraesCS7A01G016100 chr7D 89.882 761 66 7 1259 2019 5414898 5415647 0.000000e+00 968.0
29 TraesCS7A01G016100 chr7D 88.770 561 41 7 556 1100 5414353 5414907 0.000000e+00 667.0
30 TraesCS7A01G016100 chr7D 92.667 450 29 4 2598 3045 5389714 5390161 0.000000e+00 645.0
31 TraesCS7A01G016100 chr7D 92.011 363 27 2 222 584 5413991 5414351 3.940000e-140 508.0
32 TraesCS7A01G016100 chr7D 93.291 313 18 3 2010 2321 5389047 5389357 4.020000e-125 459.0
33 TraesCS7A01G016100 chr7D 93.151 219 12 3 1 218 5386081 5386297 7.120000e-83 318.0
34 TraesCS7A01G016100 chr7D 93.514 185 11 1 2413 2596 5389453 5389637 1.560000e-69 274.0
35 TraesCS7A01G016100 chr7D 79.141 326 41 17 2017 2318 5415709 5416031 2.690000e-47 200.0
36 TraesCS7A01G016100 chr7D 86.022 186 24 2 2412 2596 5416131 5416315 9.680000e-47 198.0
37 TraesCS7A01G016100 chr7D 88.344 163 15 4 1101 1260 529042230 529042069 4.500000e-45 193.0
38 TraesCS7A01G016100 chr7D 86.842 152 16 4 1101 1249 632653074 632652924 2.730000e-37 167.0
39 TraesCS7A01G016100 chr7D 94.937 79 4 0 2338 2416 5389345 5389423 1.670000e-24 124.0
40 TraesCS7A01G016100 chr7D 94.595 37 2 0 3085 3121 5390159 5390195 1.710000e-04 58.4
41 TraesCS7A01G016100 chr6A 81.202 516 66 19 2644 3139 9484447 9484951 1.930000e-103 387.0
42 TraesCS7A01G016100 chr6D 76.342 503 77 26 3213 3689 34084328 34084814 9.550000e-57 231.0
43 TraesCS7A01G016100 chr6D 88.079 151 15 3 1101 1249 18932562 18932711 4.540000e-40 176.0
44 TraesCS7A01G016100 chr5B 76.098 410 73 19 3301 3700 556783017 556782623 1.620000e-44 191.0
45 TraesCS7A01G016100 chr5D 87.879 165 10 9 1101 1256 121293844 121293681 7.540000e-43 185.0
46 TraesCS7A01G016100 chr5D 75.414 423 68 26 3303 3704 42078863 42079270 5.870000e-39 172.0
47 TraesCS7A01G016100 chr5D 86.335 161 19 3 1106 1265 558874601 558874759 5.870000e-39 172.0
48 TraesCS7A01G016100 chr2A 87.821 156 15 4 1098 1249 44184361 44184516 3.510000e-41 180.0
49 TraesCS7A01G016100 chr2D 87.417 151 17 2 1101 1249 531685285 531685435 5.870000e-39 172.0
50 TraesCS7A01G016100 chr7B 86.164 159 17 5 1101 1256 749693331 749693487 2.730000e-37 167.0


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 TraesCS7A01G016100 chr7A 6862918 6867330 4412 False 8150.000000 8150 100.000000 1 4413 1 chr7A.!!$F1 4412
1 TraesCS7A01G016100 chr4A 737084376 737089839 5463 True 832.714286 2440 92.765143 1 4413 7 chr4A.!!$R2 4412
2 TraesCS7A01G016100 chr4A 736306573 736310806 4233 False 729.833333 1868 87.020167 216 4413 6 chr4A.!!$F2 4197
3 TraesCS7A01G016100 chr4A 737061233 737070554 9321 True 536.555556 1140 85.664556 1 4378 9 chr4A.!!$R1 4377
4 TraesCS7A01G016100 chr7D 5413991 5418215 4224 False 738.500000 1890 87.020667 222 4410 6 chr7D.!!$F2 4188
5 TraesCS7A01G016100 chr7D 5386081 5391499 5418 False 625.266667 1332 93.035667 1 4413 9 chr7D.!!$F1 4412
6 TraesCS7A01G016100 chr6A 9484447 9484951 504 False 387.000000 387 81.202000 2644 3139 1 chr6A.!!$F1 495

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
61 62 1.070175 CGGTTGCTTCAACTTACCACG 60.070 52.381 9.23 0.80 43.14 4.94 F
1127 1341 0.105039 AAATAGCGCGCTAAGCCTCT 59.895 50.000 40.90 23.18 44.76 3.69 F
1219 1433 0.036765 ATCAAAGTCCCGTAGCGCAA 60.037 50.000 11.47 0.00 0.00 4.85 F
2733 4152 0.182299 GGAGGCTGGAATGAAGGGAG 59.818 60.000 0.00 0.00 0.00 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1200 1414 0.036765 TTGCGCTACGGGACTTTGAT 60.037 50.000 9.73 0.0 0.00 2.57 R
2764 4183 1.067846 GGAAAGACCCACAAAATCGGC 60.068 52.381 0.00 0.0 0.00 5.54 R
3214 4666 2.110578 GGCCATTACAATTTGCCTCCT 58.889 47.619 0.00 0.0 39.05 3.69 R
4366 5895 0.756294 CCACCATAGTCCATACGCCA 59.244 55.000 0.00 0.0 0.00 5.69 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
61 62 1.070175 CGGTTGCTTCAACTTACCACG 60.070 52.381 9.23 0.80 43.14 4.94
136 137 4.106197 GTCGTGATCTAGCTACCTTTGTG 58.894 47.826 0.00 0.00 0.00 3.33
159 160 1.726853 GAACATTGGTCGTCCCTCAG 58.273 55.000 0.00 0.00 0.00 3.35
200 201 6.600032 TGGCTAGTTACAACAGTTCAGAAAAA 59.400 34.615 0.00 0.00 0.00 1.94
229 265 8.591114 AGGAGCTACACTAAACTTTATCTACA 57.409 34.615 0.00 0.00 0.00 2.74
532 569 7.282585 TGAAACTATTCCTACATCCCATCAAG 58.717 38.462 0.00 0.00 34.49 3.02
541 578 8.504811 TCCTACATCCCATCAAGAATATTACA 57.495 34.615 0.00 0.00 0.00 2.41
637 704 5.765510 AGGTATCCAATGAAACAATGCCTA 58.234 37.500 0.00 0.00 31.67 3.93
774 857 2.969628 AGTCGTCCATTTCCAGCTAG 57.030 50.000 0.00 0.00 0.00 3.42
775 858 2.180276 AGTCGTCCATTTCCAGCTAGT 58.820 47.619 0.00 0.00 0.00 2.57
776 859 3.362706 AGTCGTCCATTTCCAGCTAGTA 58.637 45.455 0.00 0.00 0.00 1.82
842 926 2.116869 TATGGAATGGCAGCCCTCTA 57.883 50.000 9.64 3.89 0.00 2.43
854 938 3.322254 GCAGCCCTCTATTTCTAGCTACA 59.678 47.826 0.00 0.00 0.00 2.74
855 939 4.202264 GCAGCCCTCTATTTCTAGCTACAA 60.202 45.833 0.00 0.00 0.00 2.41
1093 1212 0.975135 TTGATGCCATTTGTGTGGGG 59.025 50.000 0.00 0.00 39.73 4.96
1096 1215 0.975887 ATGCCATTTGTGTGGGGTTC 59.024 50.000 0.00 0.00 39.73 3.62
1097 1216 0.105760 TGCCATTTGTGTGGGGTTCT 60.106 50.000 0.00 0.00 39.73 3.01
1098 1217 1.145945 TGCCATTTGTGTGGGGTTCTA 59.854 47.619 0.00 0.00 39.73 2.10
1099 1218 1.818674 GCCATTTGTGTGGGGTTCTAG 59.181 52.381 0.00 0.00 39.73 2.43
1101 1220 2.513753 CATTTGTGTGGGGTTCTAGCA 58.486 47.619 0.00 0.00 0.00 3.49
1103 1222 4.269183 CATTTGTGTGGGGTTCTAGCATA 58.731 43.478 0.00 0.00 0.00 3.14
1104 1223 3.627395 TTGTGTGGGGTTCTAGCATAG 57.373 47.619 0.00 0.00 41.04 2.23
1106 1225 2.910319 TGTGTGGGGTTCTAGCATAGTT 59.090 45.455 0.00 0.00 40.38 2.24
1107 1226 3.329520 TGTGTGGGGTTCTAGCATAGTTT 59.670 43.478 0.00 0.00 40.38 2.66
1108 1227 4.532916 TGTGTGGGGTTCTAGCATAGTTTA 59.467 41.667 0.00 0.00 40.38 2.01
1109 1228 5.013287 TGTGTGGGGTTCTAGCATAGTTTAA 59.987 40.000 0.00 0.00 40.38 1.52
1110 1229 5.941647 GTGTGGGGTTCTAGCATAGTTTAAA 59.058 40.000 0.00 0.00 40.38 1.52
1112 1326 7.771826 GTGTGGGGTTCTAGCATAGTTTAAATA 59.228 37.037 0.00 0.00 40.38 1.40
1114 1328 6.996282 TGGGGTTCTAGCATAGTTTAAATAGC 59.004 38.462 0.00 0.00 40.38 2.97
1119 1333 3.131396 AGCATAGTTTAAATAGCGCGCT 58.869 40.909 38.01 38.01 0.00 5.92
1123 1337 3.587403 AGTTTAAATAGCGCGCTAAGC 57.413 42.857 40.90 28.27 43.95 3.09
1124 1338 2.287103 AGTTTAAATAGCGCGCTAAGCC 59.713 45.455 40.90 24.75 44.76 4.35
1126 1340 1.779569 TAAATAGCGCGCTAAGCCTC 58.220 50.000 40.90 6.44 44.76 4.70
1127 1341 0.105039 AAATAGCGCGCTAAGCCTCT 59.895 50.000 40.90 23.18 44.76 3.69
1129 1343 0.959553 ATAGCGCGCTAAGCCTCTTA 59.040 50.000 40.90 20.62 44.76 2.10
1139 1353 3.839432 GCCTCTTAGCGGCGACCT 61.839 66.667 12.98 0.56 37.87 3.85
1142 1356 1.668101 CCTCTTAGCGGCGACCTCTT 61.668 60.000 12.98 0.00 0.00 2.85
1143 1357 0.248702 CTCTTAGCGGCGACCTCTTC 60.249 60.000 12.98 0.00 0.00 2.87
1144 1358 0.680280 TCTTAGCGGCGACCTCTTCT 60.680 55.000 12.98 0.00 0.00 2.85
1145 1359 1.022735 CTTAGCGGCGACCTCTTCTA 58.977 55.000 12.98 0.00 0.00 2.10
1146 1360 1.404391 CTTAGCGGCGACCTCTTCTAA 59.596 52.381 12.98 5.89 0.00 2.10
1147 1361 1.466856 TAGCGGCGACCTCTTCTAAA 58.533 50.000 12.98 0.00 0.00 1.85
1149 1363 1.411493 GCGGCGACCTCTTCTAAACG 61.411 60.000 12.98 0.00 0.00 3.60
1152 1366 1.133790 GGCGACCTCTTCTAAACGCTA 59.866 52.381 0.00 0.00 44.31 4.26
1153 1367 2.223758 GGCGACCTCTTCTAAACGCTAT 60.224 50.000 0.00 0.00 44.31 2.97
1154 1368 3.004106 GGCGACCTCTTCTAAACGCTATA 59.996 47.826 0.00 0.00 44.31 1.31
1155 1369 4.220572 GCGACCTCTTCTAAACGCTATAG 58.779 47.826 0.00 0.00 42.19 1.31
1176 1390 5.461032 AGCGTGCTATAGAAGAGCTATTT 57.539 39.130 3.21 0.00 40.30 1.40
1177 1391 6.576662 AGCGTGCTATAGAAGAGCTATTTA 57.423 37.500 3.21 0.00 40.30 1.40
1178 1392 6.982852 AGCGTGCTATAGAAGAGCTATTTAA 58.017 36.000 3.21 0.00 40.30 1.52
1179 1393 7.434492 AGCGTGCTATAGAAGAGCTATTTAAA 58.566 34.615 3.21 0.00 40.30 1.52
1181 1395 8.548721 GCGTGCTATAGAAGAGCTATTTAAAAA 58.451 33.333 3.21 0.00 40.30 1.94
1200 1414 9.712305 TTTAAAAAGTTCTTTCATGTGTTTGGA 57.288 25.926 0.00 0.00 0.00 3.53
1201 1415 9.883142 TTAAAAAGTTCTTTCATGTGTTTGGAT 57.117 25.926 0.00 0.00 0.00 3.41
1204 1418 6.713762 AGTTCTTTCATGTGTTTGGATCAA 57.286 33.333 0.00 0.00 0.00 2.57
1205 1419 7.111247 AGTTCTTTCATGTGTTTGGATCAAA 57.889 32.000 0.00 0.00 0.00 2.69
1207 1421 6.713762 TCTTTCATGTGTTTGGATCAAAGT 57.286 33.333 0.00 0.00 33.82 2.66
1209 1423 5.452078 TTCATGTGTTTGGATCAAAGTCC 57.548 39.130 0.00 0.00 33.82 3.85
1210 1424 3.826157 TCATGTGTTTGGATCAAAGTCCC 59.174 43.478 0.00 0.00 37.48 4.46
1211 1425 2.226330 TGTGTTTGGATCAAAGTCCCG 58.774 47.619 0.00 0.00 37.48 5.14
1216 1430 0.174845 TGGATCAAAGTCCCGTAGCG 59.825 55.000 0.00 0.00 37.48 4.26
1217 1431 1.152383 GGATCAAAGTCCCGTAGCGC 61.152 60.000 0.00 0.00 31.82 5.92
1218 1432 0.459585 GATCAAAGTCCCGTAGCGCA 60.460 55.000 11.47 0.00 0.00 6.09
1219 1433 0.036765 ATCAAAGTCCCGTAGCGCAA 60.037 50.000 11.47 0.00 0.00 4.85
1221 1435 0.669318 CAAAGTCCCGTAGCGCAAGA 60.669 55.000 11.47 0.00 43.02 3.02
1222 1436 0.669625 AAAGTCCCGTAGCGCAAGAC 60.670 55.000 11.47 8.67 43.02 3.01
1224 1438 2.678934 TCCCGTAGCGCAAGACCT 60.679 61.111 11.47 0.00 43.02 3.85
1226 1440 2.711922 CCCGTAGCGCAAGACCTCT 61.712 63.158 11.47 0.00 43.02 3.69
1227 1441 1.215647 CCGTAGCGCAAGACCTCTT 59.784 57.895 11.47 0.00 43.02 2.85
1241 1455 7.527084 CAAGACCTCTTGTAAACACTATAGC 57.473 40.000 6.85 0.00 46.11 2.97
1242 1456 5.892568 AGACCTCTTGTAAACACTATAGCG 58.107 41.667 0.00 0.00 0.00 4.26
1243 1457 5.007385 ACCTCTTGTAAACACTATAGCGG 57.993 43.478 0.00 0.00 0.00 5.52
1244 1458 4.142004 ACCTCTTGTAAACACTATAGCGGG 60.142 45.833 0.00 0.00 0.00 6.13
1245 1459 3.788937 TCTTGTAAACACTATAGCGGGC 58.211 45.455 0.00 0.00 0.00 6.13
1246 1460 3.449737 TCTTGTAAACACTATAGCGGGCT 59.550 43.478 0.00 0.00 0.00 5.19
1247 1461 4.646040 TCTTGTAAACACTATAGCGGGCTA 59.354 41.667 2.42 2.42 0.00 3.93
1248 1462 5.303589 TCTTGTAAACACTATAGCGGGCTAT 59.696 40.000 16.61 16.61 41.58 2.97
1249 1463 5.540400 TGTAAACACTATAGCGGGCTATT 57.460 39.130 17.49 3.30 39.65 1.73
1251 1465 7.053316 TGTAAACACTATAGCGGGCTATTTA 57.947 36.000 17.49 8.47 39.65 1.40
1252 1466 7.499292 TGTAAACACTATAGCGGGCTATTTAA 58.501 34.615 17.49 0.55 39.65 1.52
1253 1467 7.986320 TGTAAACACTATAGCGGGCTATTTAAA 59.014 33.333 17.49 4.48 39.65 1.52
1254 1468 7.868906 AAACACTATAGCGGGCTATTTAAAA 57.131 32.000 17.49 0.00 39.65 1.52
1257 1593 5.761234 CACTATAGCGGGCTATTTAAAACCA 59.239 40.000 17.49 0.00 39.65 3.67
1360 2426 1.080638 TGGGTTAGGGTTTGCTGGAT 58.919 50.000 0.00 0.00 0.00 3.41
1375 2441 0.617935 TGGATGATCAGTTCCGGCAA 59.382 50.000 10.16 0.00 34.58 4.52
1417 2483 1.569493 CAACCCAGACTTCGTTGCG 59.431 57.895 0.00 0.00 31.35 4.85
1553 2619 2.304761 ACTTCTTACTTGGGCATTCGGA 59.695 45.455 0.00 0.00 0.00 4.55
1562 2628 4.102524 ACTTGGGCATTCGGATTATGTCTA 59.897 41.667 0.00 0.00 0.00 2.59
1628 2694 2.649312 TGTGGATCAACTCTGGGGAAAT 59.351 45.455 1.02 0.00 0.00 2.17
1650 2716 8.966069 AAATAGTTTATAGTGAGGCCTCTTTC 57.034 34.615 32.28 21.41 0.00 2.62
1672 2738 4.101119 TCCTTCTTCTTTCACGTCCTCTTT 59.899 41.667 0.00 0.00 0.00 2.52
1688 2754 4.036262 TCCTCTTTGTATGTGTTTGTGCAC 59.964 41.667 10.75 10.75 39.65 4.57
1775 2946 6.098838 CCCAGCTAGATACATCATAAGGCATA 59.901 42.308 0.00 0.00 0.00 3.14
1799 2970 7.888514 ACTATCATGTTGGGGGAGAATTATA 57.111 36.000 0.00 0.00 0.00 0.98
1887 3058 6.767902 GGCTCAACAAGTATGGATAGATTGAA 59.232 38.462 0.00 0.00 0.00 2.69
1979 3150 4.342862 AATCCATTCCGTACATCTCAGG 57.657 45.455 0.00 0.00 0.00 3.86
2144 3400 7.129109 TGATTAAGATCTGACAAAACCGTTC 57.871 36.000 0.00 0.00 33.28 3.95
2155 3411 3.816523 ACAAAACCGTTCGACCATTGTAT 59.183 39.130 0.00 0.00 0.00 2.29
2178 3434 4.855531 TGTTCTATGATGTACATCGGACG 58.144 43.478 26.56 16.35 40.63 4.79
2201 3461 6.093082 ACGATTTGGCCATTGTAGTACTTTAC 59.907 38.462 6.09 0.00 0.00 2.01
2304 3565 7.923461 TCATATAGCTCCATGAGTAGTACTCT 58.077 38.462 26.60 12.60 45.27 3.24
2305 3566 8.387039 TCATATAGCTCCATGAGTAGTACTCTT 58.613 37.037 26.60 19.45 45.27 2.85
2322 3583 8.247666 AGTACTCTTATATCCACCTTGTTACC 57.752 38.462 0.00 0.00 0.00 2.85
2323 3584 6.496144 ACTCTTATATCCACCTTGTTACCC 57.504 41.667 0.00 0.00 0.00 3.69
2324 3585 5.368816 ACTCTTATATCCACCTTGTTACCCC 59.631 44.000 0.00 0.00 0.00 4.95
2326 3587 0.542805 TATCCACCTTGTTACCCCGC 59.457 55.000 0.00 0.00 0.00 6.13
2327 3588 1.493854 ATCCACCTTGTTACCCCGCA 61.494 55.000 0.00 0.00 0.00 5.69
2328 3589 1.228306 CCACCTTGTTACCCCGCAA 60.228 57.895 0.00 0.00 0.00 4.85
2329 3590 0.824182 CCACCTTGTTACCCCGCAAA 60.824 55.000 0.00 0.00 0.00 3.68
2330 3591 1.033574 CACCTTGTTACCCCGCAAAA 58.966 50.000 0.00 0.00 0.00 2.44
2331 3592 1.409427 CACCTTGTTACCCCGCAAAAA 59.591 47.619 0.00 0.00 0.00 1.94
2355 3616 0.392461 TATCCACCTTGCGAAGTGGC 60.392 55.000 16.03 0.00 36.94 5.01
2360 3621 0.685097 ACCTTGCGAAGTGGCTCTTA 59.315 50.000 1.16 0.00 36.40 2.10
2418 3714 8.932945 TCTGTTGTAGTGCTTAATGATTAGAG 57.067 34.615 0.00 0.00 0.00 2.43
2469 3765 0.813184 TCTAAAGTGGGGCTCGTACG 59.187 55.000 9.53 9.53 0.00 3.67
2502 3798 0.747852 GGATCGTCACCCTCTCCTTC 59.252 60.000 0.00 0.00 0.00 3.46
2722 4141 3.845781 TCTATTTGCTTAGGAGGCTGG 57.154 47.619 0.00 0.00 0.00 4.85
2733 4152 0.182299 GGAGGCTGGAATGAAGGGAG 59.818 60.000 0.00 0.00 0.00 4.30
2765 4184 8.693542 ACAATGCTATTTTTCTGTCATTAAGC 57.306 30.769 0.00 0.00 0.00 3.09
2898 4317 4.772100 AGCATTGGGTTAGTAATTTGTGCT 59.228 37.500 0.00 0.00 34.68 4.40
2899 4318 5.102313 GCATTGGGTTAGTAATTTGTGCTC 58.898 41.667 0.00 0.00 0.00 4.26
3121 4573 3.449018 TGGCTAACTCCACTGAGATTCTC 59.551 47.826 6.73 6.73 41.42 2.87
3144 4596 5.242393 TCGGGTTAGGAATATAACTTCTCCG 59.758 44.000 0.00 0.00 37.73 4.63
3207 4659 4.650972 ACCCTACCAATGCAGAGTTTTA 57.349 40.909 0.00 0.00 0.00 1.52
3214 4666 8.956426 CCTACCAATGCAGAGTTTTATTCTTAA 58.044 33.333 0.00 0.00 0.00 1.85
3246 4736 4.389890 TGTAATGGCCATGAGCATTTTC 57.610 40.909 21.63 0.43 46.50 2.29
3248 4738 2.973694 ATGGCCATGAGCATTTTCAC 57.026 45.000 20.04 0.00 46.50 3.18
3304 4794 2.330440 ATAACATCGCCATGAGCACA 57.670 45.000 0.00 0.00 44.04 4.57
3327 4817 4.385825 TGGAAACGAGCTTCACAACTTAT 58.614 39.130 0.00 0.00 0.00 1.73
3331 4821 5.597813 AACGAGCTTCACAACTTATTGAG 57.402 39.130 0.00 0.00 39.30 3.02
3550 5065 8.939929 TGAAATGCAAAATGTTGAACTAAACAA 58.060 25.926 0.00 0.00 42.98 2.83
3595 5113 4.641396 AGCTTACTGCATAACAACAGACA 58.359 39.130 0.00 0.00 45.94 3.41
3609 5127 9.730420 ATAACAACAGACAAAAGACATGTTAAC 57.270 29.630 0.00 0.00 36.12 2.01
3685 5205 3.384467 TGGAAAAAGACAAGCAGGGAAAG 59.616 43.478 0.00 0.00 0.00 2.62
3795 5315 7.417612 CAGATAACTGTTTTGGGTATGTATGC 58.582 38.462 0.00 0.00 39.11 3.14
3846 5369 3.584834 GAAATGGTCACCCAAATTTCGG 58.415 45.455 0.00 0.00 46.04 4.30
3860 5383 6.389906 CCAAATTTCGGCTCAAAACTTATCT 58.610 36.000 0.00 0.00 0.00 1.98
3968 5492 3.562108 ACTCTTTGGGTCCTCCTTCTA 57.438 47.619 0.00 0.00 36.20 2.10
3983 5508 5.826737 CCTCCTTCTAAGTAAGATCGTGGTA 59.173 44.000 0.00 0.00 33.05 3.25
3997 5522 1.253545 CGTGGTATACGCAACTTACGC 59.746 52.381 0.00 0.00 46.92 4.42
4042 5567 2.632377 GCAGCAGCATGTCCTAAACTA 58.368 47.619 0.00 0.00 41.58 2.24
4061 5586 3.901844 ACTATAGGCCGGAGCAATAAAGA 59.098 43.478 5.05 0.00 42.56 2.52
4147 5672 0.752658 GGCCTGGAGTTGTTTGCTTT 59.247 50.000 0.00 0.00 0.00 3.51
4210 5735 3.827876 TGGTGTCGATTTCTGTGGTACTA 59.172 43.478 0.00 0.00 0.00 1.82
4241 5766 6.938030 AGTTTCGTTCTGAATTATTGGTGGTA 59.062 34.615 0.00 0.00 36.22 3.25
4366 5895 2.622942 ACAAAATCATGTGTCTGCGGTT 59.377 40.909 0.00 0.00 30.82 4.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 62 7.731556 AGACGACAATAGACGTAAAATGTAC 57.268 36.000 0.00 0.00 45.48 2.90
229 265 9.561069 AATCAAAGTTTAGTGTAGATGACAAGT 57.439 29.630 0.00 0.00 40.66 3.16
551 588 5.389642 TGTTTCGATTATTGTGAGATCGC 57.610 39.130 0.00 0.00 41.64 4.58
593 660 4.522022 CCTTTCATTTGCCTCTCACTTTCT 59.478 41.667 0.00 0.00 0.00 2.52
637 704 8.043710 CCTTACTTGATTTGACTGGTTAGATCT 58.956 37.037 0.00 0.00 0.00 2.75
685 752 9.710900 CCTTCACCTTTTGATTATTTTTAGCTT 57.289 29.630 0.00 0.00 32.84 3.74
729 812 6.097129 ACCCTTCCTTCTCTTTATTACTCTCG 59.903 42.308 0.00 0.00 0.00 4.04
774 857 7.298854 GTCTTTTGTCCTTTCATTAGCTGTAC 58.701 38.462 0.00 0.00 0.00 2.90
775 858 6.147164 CGTCTTTTGTCCTTTCATTAGCTGTA 59.853 38.462 0.00 0.00 0.00 2.74
776 859 5.049405 CGTCTTTTGTCCTTTCATTAGCTGT 60.049 40.000 0.00 0.00 0.00 4.40
842 926 7.383102 CAAGTCATTGGTTGTAGCTAGAAAT 57.617 36.000 4.66 0.00 32.43 2.17
1008 1127 2.213499 CTGAGTTGGTTTGACTTCGCT 58.787 47.619 0.00 0.00 0.00 4.93
1066 1185 6.372103 CCACACAAATGGCATCAAAATTGTAT 59.628 34.615 12.67 1.25 31.61 2.29
1093 1212 6.289901 CGCGCTATTTAAACTATGCTAGAAC 58.710 40.000 5.56 0.00 0.00 3.01
1096 1215 4.386049 AGCGCGCTATTTAAACTATGCTAG 59.614 41.667 35.79 0.00 0.00 3.42
1097 1216 4.304110 AGCGCGCTATTTAAACTATGCTA 58.696 39.130 35.79 0.00 0.00 3.49
1098 1217 3.131396 AGCGCGCTATTTAAACTATGCT 58.869 40.909 35.79 1.11 0.00 3.79
1099 1218 3.521524 AGCGCGCTATTTAAACTATGC 57.478 42.857 35.79 0.00 0.00 3.14
1101 1220 4.151867 GGCTTAGCGCGCTATTTAAACTAT 59.848 41.667 38.51 13.94 40.44 2.12
1103 1222 2.287103 GGCTTAGCGCGCTATTTAAACT 59.713 45.455 38.51 15.29 40.44 2.66
1104 1223 2.287103 AGGCTTAGCGCGCTATTTAAAC 59.713 45.455 38.51 21.83 40.44 2.01
1106 1225 2.132762 GAGGCTTAGCGCGCTATTTAA 58.867 47.619 38.51 25.53 40.44 1.52
1107 1226 1.340248 AGAGGCTTAGCGCGCTATTTA 59.660 47.619 38.51 24.25 40.44 1.40
1108 1227 0.105039 AGAGGCTTAGCGCGCTATTT 59.895 50.000 38.51 24.06 40.44 1.40
1109 1228 0.105039 AAGAGGCTTAGCGCGCTATT 59.895 50.000 38.51 26.01 40.44 1.73
1110 1229 0.959553 TAAGAGGCTTAGCGCGCTAT 59.040 50.000 38.51 25.42 40.44 2.97
1112 1326 1.066587 CTAAGAGGCTTAGCGCGCT 59.933 57.895 38.01 38.01 40.44 5.92
1114 1328 3.619054 GCTAAGAGGCTTAGCGCG 58.381 61.111 19.61 0.00 38.12 6.86
1123 1337 1.668101 AAGAGGTCGCCGCTAAGAGG 61.668 60.000 2.92 0.00 31.02 3.69
1124 1338 0.248702 GAAGAGGTCGCCGCTAAGAG 60.249 60.000 2.92 0.00 31.02 2.85
1126 1340 1.022735 TAGAAGAGGTCGCCGCTAAG 58.977 55.000 2.92 0.00 31.02 2.18
1127 1341 1.466856 TTAGAAGAGGTCGCCGCTAA 58.533 50.000 2.92 0.00 31.02 3.09
1129 1343 0.108756 GTTTAGAAGAGGTCGCCGCT 60.109 55.000 0.00 0.00 34.48 5.52
1152 1366 6.767524 AATAGCTCTTCTATAGCACGCTAT 57.232 37.500 15.45 15.45 42.62 2.97
1153 1367 6.576662 AAATAGCTCTTCTATAGCACGCTA 57.423 37.500 0.39 0.39 42.62 4.26
1154 1368 5.461032 AAATAGCTCTTCTATAGCACGCT 57.539 39.130 0.00 0.00 42.62 5.07
1155 1369 7.639162 TTTAAATAGCTCTTCTATAGCACGC 57.361 36.000 0.00 0.00 42.62 5.34
1174 1388 9.712305 TCCAAACACATGAAAGAACTTTTTAAA 57.288 25.926 0.00 0.00 32.11 1.52
1176 1390 9.528018 GATCCAAACACATGAAAGAACTTTTTA 57.472 29.630 0.00 0.00 32.11 1.52
1177 1391 8.040132 TGATCCAAACACATGAAAGAACTTTTT 58.960 29.630 0.00 0.00 32.11 1.94
1178 1392 7.555087 TGATCCAAACACATGAAAGAACTTTT 58.445 30.769 0.00 0.00 32.11 2.27
1179 1393 7.111247 TGATCCAAACACATGAAAGAACTTT 57.889 32.000 0.00 0.00 35.14 2.66
1181 1395 6.713762 TTGATCCAAACACATGAAAGAACT 57.286 33.333 0.00 0.00 0.00 3.01
1183 1397 7.111247 ACTTTGATCCAAACACATGAAAGAA 57.889 32.000 0.00 0.00 0.00 2.52
1184 1398 6.239008 GGACTTTGATCCAAACACATGAAAGA 60.239 38.462 0.00 0.00 38.77 2.52
1186 1400 5.221422 GGGACTTTGATCCAAACACATGAAA 60.221 40.000 0.00 0.00 40.96 2.69
1187 1401 4.280677 GGGACTTTGATCCAAACACATGAA 59.719 41.667 0.00 0.00 40.96 2.57
1188 1402 3.826157 GGGACTTTGATCCAAACACATGA 59.174 43.478 0.00 0.00 40.96 3.07
1189 1403 3.366273 CGGGACTTTGATCCAAACACATG 60.366 47.826 0.00 0.00 40.96 3.21
1190 1404 2.819608 CGGGACTTTGATCCAAACACAT 59.180 45.455 0.00 0.00 40.96 3.21
1191 1405 2.226330 CGGGACTTTGATCCAAACACA 58.774 47.619 0.00 0.00 40.96 3.72
1192 1406 2.227194 ACGGGACTTTGATCCAAACAC 58.773 47.619 0.00 0.00 40.96 3.32
1194 1408 2.418976 GCTACGGGACTTTGATCCAAAC 59.581 50.000 0.00 0.00 40.96 2.93
1195 1409 2.706890 GCTACGGGACTTTGATCCAAA 58.293 47.619 0.00 0.00 40.96 3.28
1196 1410 1.404986 CGCTACGGGACTTTGATCCAA 60.405 52.381 0.00 0.00 40.96 3.53
1197 1411 0.174845 CGCTACGGGACTTTGATCCA 59.825 55.000 0.00 0.00 40.96 3.41
1198 1412 1.152383 GCGCTACGGGACTTTGATCC 61.152 60.000 0.00 0.00 38.13 3.36
1199 1413 0.459585 TGCGCTACGGGACTTTGATC 60.460 55.000 9.73 0.00 0.00 2.92
1200 1414 0.036765 TTGCGCTACGGGACTTTGAT 60.037 50.000 9.73 0.00 0.00 2.57
1201 1415 0.669318 CTTGCGCTACGGGACTTTGA 60.669 55.000 9.73 0.00 0.00 2.69
1204 1418 1.080025 GTCTTGCGCTACGGGACTT 60.080 57.895 9.73 0.00 0.00 3.01
1205 1419 2.572284 GTCTTGCGCTACGGGACT 59.428 61.111 9.73 0.00 0.00 3.85
1207 1421 2.678934 AGGTCTTGCGCTACGGGA 60.679 61.111 9.73 0.00 0.00 5.14
1209 1423 1.078759 CAAGAGGTCTTGCGCTACGG 61.079 60.000 9.73 0.00 45.59 4.02
1210 1424 2.363807 CAAGAGGTCTTGCGCTACG 58.636 57.895 9.73 0.00 45.59 3.51
1218 1432 6.331061 CGCTATAGTGTTTACAAGAGGTCTT 58.669 40.000 5.07 0.00 36.45 3.01
1219 1433 5.163540 CCGCTATAGTGTTTACAAGAGGTCT 60.164 44.000 12.20 0.00 0.00 3.85
1221 1435 4.142004 CCCGCTATAGTGTTTACAAGAGGT 60.142 45.833 12.20 0.00 0.00 3.85
1222 1436 4.369182 CCCGCTATAGTGTTTACAAGAGG 58.631 47.826 12.20 0.00 0.00 3.69
1224 1438 3.449737 AGCCCGCTATAGTGTTTACAAGA 59.550 43.478 12.20 0.00 0.00 3.02
1226 1440 3.899052 AGCCCGCTATAGTGTTTACAA 57.101 42.857 12.20 0.00 0.00 2.41
1227 1441 5.540400 AATAGCCCGCTATAGTGTTTACA 57.460 39.130 12.20 0.00 38.20 2.41
1229 1443 8.829612 GTTTTAAATAGCCCGCTATAGTGTTTA 58.170 33.333 12.20 7.13 38.20 2.01
1230 1444 7.201758 GGTTTTAAATAGCCCGCTATAGTGTTT 60.202 37.037 12.20 8.00 38.20 2.83
1231 1445 6.261603 GGTTTTAAATAGCCCGCTATAGTGTT 59.738 38.462 12.20 3.63 38.20 3.32
1232 1446 5.761726 GGTTTTAAATAGCCCGCTATAGTGT 59.238 40.000 12.20 0.00 38.20 3.55
1233 1447 5.761234 TGGTTTTAAATAGCCCGCTATAGTG 59.239 40.000 9.56 6.31 38.20 2.74
1234 1448 5.932455 TGGTTTTAAATAGCCCGCTATAGT 58.068 37.500 9.56 4.27 38.20 2.12
1237 1451 4.522789 CCATGGTTTTAAATAGCCCGCTAT 59.477 41.667 2.57 3.31 40.63 2.97
1238 1452 3.886505 CCATGGTTTTAAATAGCCCGCTA 59.113 43.478 2.57 0.00 0.00 4.26
1239 1453 2.693074 CCATGGTTTTAAATAGCCCGCT 59.307 45.455 2.57 0.00 0.00 5.52
1241 1455 3.028130 ACCCATGGTTTTAAATAGCCCG 58.972 45.455 11.73 0.00 27.29 6.13
1242 1456 4.714802 AGAACCCATGGTTTTAAATAGCCC 59.285 41.667 11.73 0.00 46.95 5.19
1243 1457 5.932619 AGAACCCATGGTTTTAAATAGCC 57.067 39.130 11.73 0.00 46.95 3.93
1244 1458 7.640597 ACTAGAACCCATGGTTTTAAATAGC 57.359 36.000 11.73 0.00 46.95 2.97
1246 1460 9.816787 AGAAACTAGAACCCATGGTTTTAAATA 57.183 29.630 11.73 0.00 46.95 1.40
1247 1461 8.721133 AGAAACTAGAACCCATGGTTTTAAAT 57.279 30.769 11.73 0.00 46.95 1.40
1248 1462 7.231925 GGAGAAACTAGAACCCATGGTTTTAAA 59.768 37.037 11.73 0.00 46.95 1.52
1249 1463 6.717997 GGAGAAACTAGAACCCATGGTTTTAA 59.282 38.462 11.73 0.00 46.95 1.52
1251 1465 5.077564 GGAGAAACTAGAACCCATGGTTTT 58.922 41.667 11.73 2.95 46.95 2.43
1252 1466 4.508584 GGGAGAAACTAGAACCCATGGTTT 60.509 45.833 11.73 1.40 46.95 3.27
1254 1468 2.576648 GGGAGAAACTAGAACCCATGGT 59.423 50.000 11.73 0.00 40.20 3.55
1305 1641 7.599621 CACAAAAGCAGAAACATCATAATCCAA 59.400 33.333 0.00 0.00 0.00 3.53
1321 2384 3.618150 CCACCAAAGAAACACAAAAGCAG 59.382 43.478 0.00 0.00 0.00 4.24
1360 2426 1.071542 TCAAGTTGCCGGAACTGATCA 59.928 47.619 5.05 0.00 44.68 2.92
1375 2441 1.895798 TCGTCTTGGAGCATCTCAAGT 59.104 47.619 0.00 0.00 41.27 3.16
1417 2483 3.311966 GCAGAAAAGCATGACAACCTTC 58.688 45.455 0.00 0.00 0.00 3.46
1553 2619 5.908831 TGGTTGGTCCCTACATAGACATAAT 59.091 40.000 0.54 0.00 34.58 1.28
1562 2628 1.992557 ACACATGGTTGGTCCCTACAT 59.007 47.619 0.00 0.00 34.77 2.29
1628 2694 6.203072 AGGAAAGAGGCCTCACTATAAACTA 58.797 40.000 33.90 0.00 0.00 2.24
1650 2716 3.669251 AGAGGACGTGAAAGAAGAAGG 57.331 47.619 0.00 0.00 0.00 3.46
1672 2738 6.227522 ACATACTAGTGCACAAACACATACA 58.772 36.000 21.04 0.00 43.23 2.29
1775 2946 6.786843 ATAATTCTCCCCCAACATGATAGT 57.213 37.500 0.00 0.00 0.00 2.12
1887 3058 8.300752 TGATATCAACCCTCCCCTTATTTATT 57.699 34.615 1.98 0.00 0.00 1.40
1895 3066 2.897823 ACTGATATCAACCCTCCCCT 57.102 50.000 6.90 0.00 0.00 4.79
1979 3150 3.678072 TCACGTGCTAAATGTTGAGCTAC 59.322 43.478 11.67 0.67 39.54 3.58
2098 3335 3.874392 AAAACGGTACTACGCCTGTAT 57.126 42.857 0.00 0.00 37.37 2.29
2144 3400 7.482654 ACATCATAGAACAATACAATGGTCG 57.517 36.000 0.00 0.00 41.99 4.79
2155 3411 5.066764 TCGTCCGATGTACATCATAGAACAA 59.933 40.000 30.15 12.53 37.69 2.83
2178 3434 6.457799 CCGTAAAGTACTACAATGGCCAAATC 60.458 42.308 10.96 0.00 0.00 2.17
2252 3513 9.473007 TTTATGGGAAGTGATTGATATTTGTCA 57.527 29.630 0.00 0.00 0.00 3.58
2304 3565 3.181452 GCGGGGTAACAAGGTGGATATAA 60.181 47.826 0.00 0.00 39.74 0.98
2305 3566 2.369532 GCGGGGTAACAAGGTGGATATA 59.630 50.000 0.00 0.00 39.74 0.86
2309 3570 1.706995 TTGCGGGGTAACAAGGTGGA 61.707 55.000 0.00 0.00 39.74 4.02
2331 3592 5.059404 CACTTCGCAAGGTGGATATTTTT 57.941 39.130 1.84 0.00 38.47 1.94
2332 3593 4.701956 CACTTCGCAAGGTGGATATTTT 57.298 40.909 1.84 0.00 38.47 1.82
2348 3609 5.886960 ACATCAATTGTAAGAGCCACTTC 57.113 39.130 5.13 0.00 39.72 3.01
2355 3616 7.219484 ACCTCCAAAACATCAATTGTAAGAG 57.781 36.000 5.13 2.52 37.68 2.85
2360 3621 5.128499 TGTCAACCTCCAAAACATCAATTGT 59.872 36.000 5.13 0.00 41.53 2.71
2418 3714 1.809547 GAAGTGCTTCTCTTTGAGCCC 59.190 52.381 4.80 0.00 36.69 5.19
2469 3765 4.515567 GTGACGATCCTCCCCAAATTAATC 59.484 45.833 0.00 0.00 0.00 1.75
2502 3798 2.984471 GTCATGCAAAGTTGTGATGCTG 59.016 45.455 0.00 0.00 40.66 4.41
2588 3887 5.245531 TCAGTAATGAAAGTGGTGTGATCC 58.754 41.667 0.00 0.00 0.00 3.36
2590 3889 7.581213 TTTTCAGTAATGAAAGTGGTGTGAT 57.419 32.000 16.89 0.00 38.76 3.06
2591 3890 7.068103 ACATTTTCAGTAATGAAAGTGGTGTGA 59.932 33.333 31.29 13.19 44.47 3.58
2592 3891 7.202526 ACATTTTCAGTAATGAAAGTGGTGTG 58.797 34.615 31.29 19.86 44.47 3.82
2593 3892 7.346751 ACATTTTCAGTAATGAAAGTGGTGT 57.653 32.000 31.29 23.20 44.47 4.16
2722 4141 3.895232 TGTAGTGCTCTCCCTTCATTC 57.105 47.619 0.00 0.00 0.00 2.67
2764 4183 1.067846 GGAAAGACCCACAAAATCGGC 60.068 52.381 0.00 0.00 0.00 5.54
2765 4184 2.488153 GAGGAAAGACCCACAAAATCGG 59.512 50.000 0.00 0.00 40.05 4.18
2898 4317 7.281999 TGAAAAACAATAGTGTGTGACATGAGA 59.718 33.333 0.00 0.00 38.27 3.27
2899 4318 7.416817 TGAAAAACAATAGTGTGTGACATGAG 58.583 34.615 0.00 0.00 38.27 2.90
2957 4377 3.935203 CGTGAGCACACTAGGAAATCATT 59.065 43.478 12.54 0.00 43.99 2.57
3049 4470 5.706916 ACATTCAGCAGATTACAAAAGCAG 58.293 37.500 0.00 0.00 0.00 4.24
3121 4573 5.010415 ACGGAGAAGTTATATTCCTAACCCG 59.990 44.000 0.00 0.00 38.03 5.28
3207 4659 7.633553 GCCATTACAATTTGCCTCCTTAAGAAT 60.634 37.037 3.36 0.00 0.00 2.40
3214 4666 2.110578 GGCCATTACAATTTGCCTCCT 58.889 47.619 0.00 0.00 39.05 3.69
3281 4771 4.821260 TGTGCTCATGGCGATGTTATTAAT 59.179 37.500 8.66 0.00 45.43 1.40
3304 4794 2.851195 AGTTGTGAAGCTCGTTTCCAT 58.149 42.857 0.00 0.00 0.00 3.41
3550 5065 9.099071 AGCTAACATGTCTTTCCTCATATCTAT 57.901 33.333 0.00 0.00 0.00 1.98
3562 5077 7.390440 TGTTATGCAGTAAGCTAACATGTCTTT 59.610 33.333 0.00 0.00 45.94 2.52
3563 5078 6.878923 TGTTATGCAGTAAGCTAACATGTCTT 59.121 34.615 0.00 0.69 45.94 3.01
3565 5080 6.662414 TGTTATGCAGTAAGCTAACATGTC 57.338 37.500 0.00 0.00 45.94 3.06
3566 5081 6.429692 TGTTGTTATGCAGTAAGCTAACATGT 59.570 34.615 8.67 0.00 45.94 3.21
3567 5082 6.841119 TGTTGTTATGCAGTAAGCTAACATG 58.159 36.000 8.67 0.00 45.94 3.21
3595 5113 7.148983 CGCATTCATTTCGTTAACATGTCTTTT 60.149 33.333 6.39 0.00 0.00 2.27
3609 5127 4.792702 TGCAAATTAGTCGCATTCATTTCG 59.207 37.500 0.00 0.00 0.00 3.46
3795 5315 6.629128 ACATGAGGCTAAGATTCAGATATCG 58.371 40.000 0.00 0.00 0.00 2.92
3997 5522 6.415867 CAGCTGTATTTGAAAATAAGATGGCG 59.584 38.462 5.25 0.00 33.05 5.69
4000 5525 7.043590 GCTGCAGCTGTATTTGAAAATAAGATG 60.044 37.037 31.33 13.17 38.21 2.90
4042 5567 3.560025 CCATCTTTATTGCTCCGGCCTAT 60.560 47.826 0.00 0.00 37.74 2.57
4061 5586 2.688446 CAATCAGAACATGCAGCTCCAT 59.312 45.455 0.00 0.00 0.00 3.41
4147 5672 6.901300 ACTTGATAGAACTATAGACCCCACAA 59.099 38.462 6.78 5.57 0.00 3.33
4210 5735 7.011109 CCAATAATTCAGAACGAAACTACGGAT 59.989 37.037 0.00 0.00 37.12 4.18
4241 5766 4.272504 ACGATCGCGGATGATTGTTATTTT 59.727 37.500 16.60 0.00 39.45 1.82
4366 5895 0.756294 CCACCATAGTCCATACGCCA 59.244 55.000 0.00 0.00 0.00 5.69


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

AutoCloner maintained by Alex Coulton.