Multiple sequence alignment - TraesCS1A01G176400

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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 TraesCS1A01G176400 chr1A 100.000 2264 0 0 1 2264 315060895 315063158 0.000000e+00 4181
1 TraesCS1A01G176400 chr5B 94.002 1267 70 4 1 1261 517327648 517326382 0.000000e+00 1914
2 TraesCS1A01G176400 chr5B 95.395 456 19 1 1 456 698601236 698601689 0.000000e+00 725
3 TraesCS1A01G176400 chr5B 93.970 199 11 1 1063 1261 698601710 698601907 1.310000e-77 300
4 TraesCS1A01G176400 chr2B 96.000 750 23 3 1 743 16375904 16376653 0.000000e+00 1212
5 TraesCS1A01G176400 chr2B 86.038 795 94 14 1472 2262 756870553 756869772 0.000000e+00 837
6 TraesCS1A01G176400 chr2B 92.800 375 27 0 887 1261 16376652 16377026 5.500000e-151 544
7 TraesCS1A01G176400 chr2B 82.385 369 28 13 813 1145 785893841 785894208 1.020000e-73 287
8 TraesCS1A01G176400 chr6A 85.240 874 104 20 1391 2262 62461235 62462085 0.000000e+00 876
9 TraesCS1A01G176400 chr6A 85.160 876 105 18 1391 2262 413099396 413100250 0.000000e+00 874
10 TraesCS1A01G176400 chr5A 85.280 856 97 17 1411 2262 171559766 171560596 0.000000e+00 856
11 TraesCS1A01G176400 chr5A 84.475 876 106 24 1390 2262 687889611 687888763 0.000000e+00 837
12 TraesCS1A01G176400 chr2D 86.710 775 81 16 1472 2243 15070481 15071236 0.000000e+00 841
13 TraesCS1A01G176400 chr2D 83.469 369 30 13 807 1145 649820592 649820959 4.690000e-82 315
14 TraesCS1A01G176400 chr2D 82.078 385 26 16 803 1145 612542917 612543300 2.850000e-74 289
15 TraesCS1A01G176400 chr1D 85.357 799 94 18 1470 2262 288858661 288857880 0.000000e+00 806
16 TraesCS1A01G176400 chr1D 85.409 795 91 20 1472 2262 265145435 265146208 0.000000e+00 802
17 TraesCS1A01G176400 chr7D 83.628 849 118 20 1418 2262 40632627 40633458 0.000000e+00 778
18 TraesCS1A01G176400 chr7B 82.310 407 50 12 906 1301 242511778 242511383 1.300000e-87 333
19 TraesCS1A01G176400 chr2A 84.419 353 33 11 812 1145 69995391 69995042 6.030000e-86 327
20 TraesCS1A01G176400 chr2A 83.914 373 29 11 803 1145 775013253 775012882 6.030000e-86 327
21 TraesCS1A01G176400 chr4A 83.754 357 38 12 807 1145 546639006 546638652 1.010000e-83 320
22 TraesCS1A01G176400 chr1B 90.789 228 20 1 1025 1252 44983605 44983831 1.020000e-78 303
23 TraesCS1A01G176400 chr1B 91.441 222 18 1 1031 1252 51508729 51508509 1.020000e-78 303
24 TraesCS1A01G176400 chr3B 93.007 143 9 1 1066 1208 818876045 818876186 8.200000e-50 207


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 TraesCS1A01G176400 chr1A 315060895 315063158 2263 False 4181.0 4181 100.0000 1 2264 1 chr1A.!!$F1 2263
1 TraesCS1A01G176400 chr5B 517326382 517327648 1266 True 1914.0 1914 94.0020 1 1261 1 chr5B.!!$R1 1260
2 TraesCS1A01G176400 chr5B 698601236 698601907 671 False 512.5 725 94.6825 1 1261 2 chr5B.!!$F1 1260
3 TraesCS1A01G176400 chr2B 16375904 16377026 1122 False 878.0 1212 94.4000 1 1261 2 chr2B.!!$F2 1260
4 TraesCS1A01G176400 chr2B 756869772 756870553 781 True 837.0 837 86.0380 1472 2262 1 chr2B.!!$R1 790
5 TraesCS1A01G176400 chr6A 62461235 62462085 850 False 876.0 876 85.2400 1391 2262 1 chr6A.!!$F1 871
6 TraesCS1A01G176400 chr6A 413099396 413100250 854 False 874.0 874 85.1600 1391 2262 1 chr6A.!!$F2 871
7 TraesCS1A01G176400 chr5A 171559766 171560596 830 False 856.0 856 85.2800 1411 2262 1 chr5A.!!$F1 851
8 TraesCS1A01G176400 chr5A 687888763 687889611 848 True 837.0 837 84.4750 1390 2262 1 chr5A.!!$R1 872
9 TraesCS1A01G176400 chr2D 15070481 15071236 755 False 841.0 841 86.7100 1472 2243 1 chr2D.!!$F1 771
10 TraesCS1A01G176400 chr1D 288857880 288858661 781 True 806.0 806 85.3570 1470 2262 1 chr1D.!!$R1 792
11 TraesCS1A01G176400 chr1D 265145435 265146208 773 False 802.0 802 85.4090 1472 2262 1 chr1D.!!$F1 790
12 TraesCS1A01G176400 chr7D 40632627 40633458 831 False 778.0 778 83.6280 1418 2262 1 chr7D.!!$F1 844

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
778 786 1.00456 CCGAGCAGAGTGGAAGCAA 60.005 57.895 0.0 0.0 0.0 3.91 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2137 2174 1.727511 ATTGCGGGCATGACCATTCG 61.728 55.0 20.22 4.2 42.05 3.34 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
141 148 1.071385 CCAAGACAAGAGGAGCAGTGT 59.929 52.381 0.00 0.00 0.00 3.55
614 621 2.205074 GATGATTCGTGTGGGTAGCAG 58.795 52.381 0.00 0.00 0.00 4.24
671 678 3.502211 ACCAACCAGAATCTTTTACAGCG 59.498 43.478 0.00 0.00 0.00 5.18
690 698 4.181051 GGAAACCAAGCAGCCTGT 57.819 55.556 0.00 0.00 0.00 4.00
778 786 1.004560 CCGAGCAGAGTGGAAGCAA 60.005 57.895 0.00 0.00 0.00 3.91
836 844 2.330216 CTTGGGGATCCTATCGAAGGT 58.670 52.381 12.58 2.54 46.62 3.50
840 848 2.541466 GGGATCCTATCGAAGGTGGAT 58.459 52.381 12.58 10.30 46.62 3.41
841 849 2.234908 GGGATCCTATCGAAGGTGGATG 59.765 54.545 12.58 0.00 46.62 3.51
842 850 2.234908 GGATCCTATCGAAGGTGGATGG 59.765 54.545 3.84 0.00 46.62 3.51
916 929 3.410628 TCCCTGCCGTGATGCCAT 61.411 61.111 0.00 0.00 0.00 4.40
955 968 2.762969 CTTGGCCGTGATCCACCCAA 62.763 60.000 0.00 0.00 34.83 4.12
1029 1042 2.228480 GCCCTGGAAGTACACCCCA 61.228 63.158 0.00 0.00 0.00 4.96
1037 1050 1.553704 GAAGTACACCCCATCGACCTT 59.446 52.381 0.00 0.00 0.00 3.50
1039 1052 0.899720 GTACACCCCATCGACCTTCA 59.100 55.000 0.00 0.00 0.00 3.02
1120 1133 1.433879 CTCAGGATCGTCGTGGGTC 59.566 63.158 0.00 0.00 33.45 4.46
1151 1164 4.069232 CCTTGTCGAGCTCGGCCA 62.069 66.667 35.43 27.27 44.42 5.36
1224 1237 2.610859 GGGCCTGGTGGAGAAGGA 60.611 66.667 0.84 0.00 35.40 3.36
1262 1276 3.775654 GGAGGGCAGGGAGTCGTG 61.776 72.222 0.00 0.00 0.00 4.35
1263 1277 2.680352 GAGGGCAGGGAGTCGTGA 60.680 66.667 0.00 0.00 0.00 4.35
1264 1278 2.681778 AGGGCAGGGAGTCGTGAG 60.682 66.667 0.00 0.00 0.00 3.51
1265 1279 3.775654 GGGCAGGGAGTCGTGAGG 61.776 72.222 0.00 0.00 0.00 3.86
1266 1280 2.680352 GGCAGGGAGTCGTGAGGA 60.680 66.667 0.00 0.00 0.00 3.71
1267 1281 2.716017 GGCAGGGAGTCGTGAGGAG 61.716 68.421 0.00 0.00 0.00 3.69
1268 1282 1.679305 GCAGGGAGTCGTGAGGAGA 60.679 63.158 0.00 0.00 0.00 3.71
1269 1283 1.251527 GCAGGGAGTCGTGAGGAGAA 61.252 60.000 0.00 0.00 0.00 2.87
1270 1284 0.814457 CAGGGAGTCGTGAGGAGAAG 59.186 60.000 0.00 0.00 0.00 2.85
1271 1285 0.699399 AGGGAGTCGTGAGGAGAAGA 59.301 55.000 0.00 0.00 0.00 2.87
1272 1286 0.812549 GGGAGTCGTGAGGAGAAGAC 59.187 60.000 0.00 0.00 0.00 3.01
1273 1287 0.448593 GGAGTCGTGAGGAGAAGACG 59.551 60.000 0.00 0.00 38.53 4.18
1274 1288 1.440708 GAGTCGTGAGGAGAAGACGA 58.559 55.000 0.00 0.00 39.68 4.20
1276 1290 3.317449 TCGTGAGGAGAAGACGACA 57.683 52.632 0.00 0.00 37.21 4.35
1277 1291 1.157585 TCGTGAGGAGAAGACGACAG 58.842 55.000 0.00 0.00 37.21 3.51
1278 1292 0.169230 CGTGAGGAGAAGACGACAGG 59.831 60.000 0.00 0.00 35.05 4.00
1279 1293 0.528470 GTGAGGAGAAGACGACAGGG 59.472 60.000 0.00 0.00 0.00 4.45
1280 1294 0.612174 TGAGGAGAAGACGACAGGGG 60.612 60.000 0.00 0.00 0.00 4.79
1281 1295 1.305381 AGGAGAAGACGACAGGGGG 60.305 63.158 0.00 0.00 0.00 5.40
1282 1296 1.305046 GGAGAAGACGACAGGGGGA 60.305 63.158 0.00 0.00 0.00 4.81
1283 1297 1.605971 GGAGAAGACGACAGGGGGAC 61.606 65.000 0.00 0.00 0.00 4.46
1284 1298 0.898789 GAGAAGACGACAGGGGGACA 60.899 60.000 0.00 0.00 0.00 4.02
1285 1299 0.900647 AGAAGACGACAGGGGGACAG 60.901 60.000 0.00 0.00 0.00 3.51
1286 1300 1.889530 GAAGACGACAGGGGGACAGG 61.890 65.000 0.00 0.00 0.00 4.00
1287 1301 2.283676 GACGACAGGGGGACAGGA 60.284 66.667 0.00 0.00 0.00 3.86
1288 1302 1.686110 GACGACAGGGGGACAGGAT 60.686 63.158 0.00 0.00 0.00 3.24
1289 1303 1.677637 GACGACAGGGGGACAGGATC 61.678 65.000 0.00 0.00 0.00 3.36
1290 1304 2.786495 CGACAGGGGGACAGGATCG 61.786 68.421 0.00 0.00 0.00 3.69
1291 1305 1.381327 GACAGGGGGACAGGATCGA 60.381 63.158 0.00 0.00 0.00 3.59
1292 1306 1.381872 ACAGGGGGACAGGATCGAG 60.382 63.158 0.00 0.00 0.00 4.04
1293 1307 1.075970 CAGGGGGACAGGATCGAGA 60.076 63.158 0.00 0.00 0.00 4.04
1294 1308 1.112315 CAGGGGGACAGGATCGAGAG 61.112 65.000 0.00 0.00 0.00 3.20
1295 1309 1.834822 GGGGGACAGGATCGAGAGG 60.835 68.421 0.00 0.00 0.00 3.69
1296 1310 1.230497 GGGGACAGGATCGAGAGGA 59.770 63.158 0.00 0.00 0.00 3.71
1297 1311 0.825840 GGGGACAGGATCGAGAGGAG 60.826 65.000 0.00 0.00 0.00 3.69
1298 1312 1.460273 GGGACAGGATCGAGAGGAGC 61.460 65.000 0.00 0.00 0.00 4.70
1299 1313 1.652012 GACAGGATCGAGAGGAGCG 59.348 63.158 0.00 0.00 0.00 5.03
1300 1314 1.791103 GACAGGATCGAGAGGAGCGG 61.791 65.000 0.00 0.00 0.00 5.52
1301 1315 1.826054 CAGGATCGAGAGGAGCGGT 60.826 63.158 0.00 0.00 0.00 5.68
1302 1316 1.076632 AGGATCGAGAGGAGCGGTT 60.077 57.895 0.00 0.00 0.00 4.44
1303 1317 1.104577 AGGATCGAGAGGAGCGGTTC 61.105 60.000 0.00 0.00 0.00 3.62
1304 1318 1.384989 GGATCGAGAGGAGCGGTTCA 61.385 60.000 0.00 0.00 0.00 3.18
1305 1319 0.030101 GATCGAGAGGAGCGGTTCAG 59.970 60.000 0.00 0.00 0.00 3.02
1306 1320 0.394488 ATCGAGAGGAGCGGTTCAGA 60.394 55.000 0.00 0.00 0.00 3.27
1307 1321 1.027255 TCGAGAGGAGCGGTTCAGAG 61.027 60.000 0.00 0.00 0.00 3.35
1308 1322 1.309499 CGAGAGGAGCGGTTCAGAGT 61.309 60.000 0.00 0.00 0.00 3.24
1309 1323 0.892063 GAGAGGAGCGGTTCAGAGTT 59.108 55.000 0.00 0.00 0.00 3.01
1310 1324 0.605589 AGAGGAGCGGTTCAGAGTTG 59.394 55.000 0.00 0.00 0.00 3.16
1311 1325 0.318762 GAGGAGCGGTTCAGAGTTGT 59.681 55.000 0.00 0.00 0.00 3.32
1312 1326 0.034059 AGGAGCGGTTCAGAGTTGTG 59.966 55.000 0.00 0.00 0.00 3.33
1313 1327 0.033504 GGAGCGGTTCAGAGTTGTGA 59.966 55.000 0.00 0.00 0.00 3.58
1314 1328 1.338200 GGAGCGGTTCAGAGTTGTGAT 60.338 52.381 0.00 0.00 0.00 3.06
1315 1329 1.728971 GAGCGGTTCAGAGTTGTGATG 59.271 52.381 0.00 0.00 0.00 3.07
1316 1330 0.166814 GCGGTTCAGAGTTGTGATGC 59.833 55.000 0.00 0.00 0.00 3.91
1317 1331 1.800805 CGGTTCAGAGTTGTGATGCT 58.199 50.000 0.00 0.00 0.00 3.79
1318 1332 1.728971 CGGTTCAGAGTTGTGATGCTC 59.271 52.381 0.00 0.00 0.00 4.26
1319 1333 2.079925 GGTTCAGAGTTGTGATGCTCC 58.920 52.381 0.00 0.00 32.47 4.70
1320 1334 1.728971 GTTCAGAGTTGTGATGCTCCG 59.271 52.381 0.00 0.00 32.47 4.63
1321 1335 0.390340 TCAGAGTTGTGATGCTCCGC 60.390 55.000 0.00 0.00 32.47 5.54
1322 1336 1.078848 AGAGTTGTGATGCTCCGCC 60.079 57.895 0.00 0.00 32.47 6.13
1323 1337 2.434884 AGTTGTGATGCTCCGCCG 60.435 61.111 0.00 0.00 0.00 6.46
1324 1338 3.499737 GTTGTGATGCTCCGCCGG 61.500 66.667 0.00 0.00 0.00 6.13
1325 1339 3.700970 TTGTGATGCTCCGCCGGA 61.701 61.111 5.05 5.37 0.00 5.14
1326 1340 3.247056 TTGTGATGCTCCGCCGGAA 62.247 57.895 7.50 0.00 0.00 4.30
1327 1341 2.892425 GTGATGCTCCGCCGGAAG 60.892 66.667 7.50 2.54 0.00 3.46
1339 1353 2.123425 CGGAAGGGAGGGGATCGA 60.123 66.667 0.00 0.00 0.00 3.59
1340 1354 2.203771 CGGAAGGGAGGGGATCGAG 61.204 68.421 0.00 0.00 0.00 4.04
1341 1355 1.233369 GGAAGGGAGGGGATCGAGA 59.767 63.158 0.00 0.00 0.00 4.04
1342 1356 0.830023 GGAAGGGAGGGGATCGAGAG 60.830 65.000 0.00 0.00 0.00 3.20
1343 1357 0.830023 GAAGGGAGGGGATCGAGAGG 60.830 65.000 0.00 0.00 0.00 3.69
1344 1358 1.297409 AAGGGAGGGGATCGAGAGGA 61.297 60.000 0.00 0.00 0.00 3.71
1345 1359 1.228737 GGGAGGGGATCGAGAGGAG 60.229 68.421 0.00 0.00 0.00 3.69
1346 1360 1.906333 GGAGGGGATCGAGAGGAGC 60.906 68.421 0.00 0.00 0.00 4.70
1347 1361 2.203422 AGGGGATCGAGAGGAGCG 60.203 66.667 0.00 0.00 0.00 5.03
1348 1362 3.299190 GGGGATCGAGAGGAGCGG 61.299 72.222 0.00 0.00 0.00 5.52
1349 1363 3.299190 GGGATCGAGAGGAGCGGG 61.299 72.222 0.00 0.00 0.00 6.13
1350 1364 2.519780 GGATCGAGAGGAGCGGGT 60.520 66.667 0.00 0.00 0.00 5.28
1351 1365 2.725008 GATCGAGAGGAGCGGGTG 59.275 66.667 0.00 0.00 0.00 4.61
1352 1366 1.824329 GATCGAGAGGAGCGGGTGA 60.824 63.158 0.00 0.00 0.00 4.02
1353 1367 1.791103 GATCGAGAGGAGCGGGTGAG 61.791 65.000 0.00 0.00 0.00 3.51
1354 1368 3.522731 CGAGAGGAGCGGGTGAGG 61.523 72.222 0.00 0.00 0.00 3.86
1355 1369 2.043852 GAGAGGAGCGGGTGAGGA 60.044 66.667 0.00 0.00 0.00 3.71
1356 1370 1.456705 GAGAGGAGCGGGTGAGGAT 60.457 63.158 0.00 0.00 0.00 3.24
1357 1371 1.743321 GAGAGGAGCGGGTGAGGATG 61.743 65.000 0.00 0.00 0.00 3.51
1358 1372 2.765807 AGGAGCGGGTGAGGATGG 60.766 66.667 0.00 0.00 0.00 3.51
1359 1373 4.554036 GGAGCGGGTGAGGATGGC 62.554 72.222 0.00 0.00 0.00 4.40
1360 1374 3.785859 GAGCGGGTGAGGATGGCA 61.786 66.667 0.00 0.00 0.00 4.92
1361 1375 3.746949 GAGCGGGTGAGGATGGCAG 62.747 68.421 0.00 0.00 0.00 4.85
1364 1378 3.785859 GGGTGAGGATGGCAGCGA 61.786 66.667 0.00 0.00 34.74 4.93
1365 1379 2.202987 GGTGAGGATGGCAGCGAG 60.203 66.667 0.00 0.00 0.00 5.03
1366 1380 2.894387 GTGAGGATGGCAGCGAGC 60.894 66.667 0.00 0.00 44.65 5.03
1367 1381 3.079478 TGAGGATGGCAGCGAGCT 61.079 61.111 0.00 0.00 44.79 4.09
1368 1382 2.280052 GAGGATGGCAGCGAGCTC 60.280 66.667 2.73 2.73 44.79 4.09
1369 1383 3.805891 GAGGATGGCAGCGAGCTCC 62.806 68.421 8.47 0.68 44.79 4.70
1379 1393 3.592814 CGAGCTCCGCCGGATGTA 61.593 66.667 6.16 0.00 0.00 2.29
1380 1394 2.336809 GAGCTCCGCCGGATGTAG 59.663 66.667 6.16 0.00 0.00 2.74
1381 1395 2.442272 AGCTCCGCCGGATGTAGT 60.442 61.111 6.16 0.00 0.00 2.73
1382 1396 2.017559 GAGCTCCGCCGGATGTAGTT 62.018 60.000 6.16 0.00 0.00 2.24
1383 1397 1.883084 GCTCCGCCGGATGTAGTTG 60.883 63.158 6.16 0.00 0.00 3.16
1384 1398 1.227263 CTCCGCCGGATGTAGTTGG 60.227 63.158 6.16 0.00 0.00 3.77
1385 1399 2.895372 CCGCCGGATGTAGTTGGC 60.895 66.667 5.05 0.00 44.09 4.52
1387 1401 3.813596 GCCGGATGTAGTTGGCAG 58.186 61.111 5.05 0.00 46.76 4.85
1388 1402 2.472909 GCCGGATGTAGTTGGCAGC 61.473 63.158 5.05 0.00 46.76 5.25
1405 1419 2.812619 GCGGATCTGGAAGGGGAGG 61.813 68.421 3.14 0.00 0.00 4.30
1406 1420 1.075226 CGGATCTGGAAGGGGAGGA 60.075 63.158 0.00 0.00 0.00 3.71
1409 1423 1.344496 GGATCTGGAAGGGGAGGAGAA 60.344 57.143 0.00 0.00 0.00 2.87
1411 1425 1.093408 TCTGGAAGGGGAGGAGAAGA 58.907 55.000 0.00 0.00 0.00 2.87
1412 1426 1.007721 TCTGGAAGGGGAGGAGAAGAG 59.992 57.143 0.00 0.00 0.00 2.85
1413 1427 0.618968 TGGAAGGGGAGGAGAAGAGC 60.619 60.000 0.00 0.00 0.00 4.09
1414 1428 0.618968 GGAAGGGGAGGAGAAGAGCA 60.619 60.000 0.00 0.00 0.00 4.26
1415 1429 0.539518 GAAGGGGAGGAGAAGAGCAC 59.460 60.000 0.00 0.00 0.00 4.40
1433 1447 2.039084 GCACAGAGGGAAAGAAAGGAGA 59.961 50.000 0.00 0.00 0.00 3.71
1434 1448 3.308046 GCACAGAGGGAAAGAAAGGAGAT 60.308 47.826 0.00 0.00 0.00 2.75
1462 1487 2.102578 GGATGGAAAATGACCACAGGG 58.897 52.381 0.00 0.00 40.36 4.45
1463 1488 2.102578 GATGGAAAATGACCACAGGGG 58.897 52.381 0.00 0.00 40.36 4.79
1465 1490 1.501170 TGGAAAATGACCACAGGGGAA 59.499 47.619 0.00 0.00 41.15 3.97
1466 1491 2.171003 GGAAAATGACCACAGGGGAAG 58.829 52.381 0.00 0.00 41.15 3.46
1467 1492 2.225017 GGAAAATGACCACAGGGGAAGA 60.225 50.000 0.00 0.00 41.15 2.87
1468 1493 3.496331 GAAAATGACCACAGGGGAAGAA 58.504 45.455 0.00 0.00 41.15 2.52
1520 1546 2.511600 GACTGCCGTTGGATCCCG 60.512 66.667 9.90 6.34 0.00 5.14
1528 1554 1.832912 GTTGGATCCCGGAGCATCT 59.167 57.895 9.90 0.00 33.73 2.90
1703 1730 9.313118 GAAAATAGAAAACCTTCACATTGTGTT 57.687 29.630 16.06 2.48 34.79 3.32
1828 1861 5.078949 TCATTTTCCATTTTCTGAGAGCCA 58.921 37.500 0.00 0.00 0.00 4.75
1837 1870 6.294899 CCATTTTCTGAGAGCCAAAAATGAGA 60.295 38.462 14.77 0.00 45.39 3.27
1872 1908 4.180817 GGCCTACCAAATATTTGTTGCAC 58.819 43.478 23.24 11.69 36.45 4.57
1920 1956 8.622948 AAAATTGTTAGGTCTCAGAAGTTAGG 57.377 34.615 0.00 0.00 0.00 2.69
1921 1957 6.936968 ATTGTTAGGTCTCAGAAGTTAGGT 57.063 37.500 0.00 0.00 0.00 3.08
1922 1958 5.979288 TGTTAGGTCTCAGAAGTTAGGTC 57.021 43.478 0.00 0.00 0.00 3.85
1923 1959 5.642165 TGTTAGGTCTCAGAAGTTAGGTCT 58.358 41.667 0.00 0.00 0.00 3.85
1924 1960 5.711036 TGTTAGGTCTCAGAAGTTAGGTCTC 59.289 44.000 0.00 0.00 0.00 3.36
1925 1961 4.390129 AGGTCTCAGAAGTTAGGTCTCA 57.610 45.455 0.00 0.00 0.00 3.27
1927 1963 5.148502 AGGTCTCAGAAGTTAGGTCTCAAA 58.851 41.667 0.00 0.00 0.00 2.69
1929 1965 5.929415 GGTCTCAGAAGTTAGGTCTCAAAAG 59.071 44.000 0.00 0.00 0.00 2.27
1932 1968 7.496263 GTCTCAGAAGTTAGGTCTCAAAAGTTT 59.504 37.037 0.00 0.00 0.00 2.66
1940 1976 9.197306 AGTTAGGTCTCAAAAGTTTACCAAATT 57.803 29.630 7.79 0.00 32.43 1.82
1944 1980 8.973182 AGGTCTCAAAAGTTTACCAAATTGTTA 58.027 29.630 7.79 0.00 32.43 2.41
1948 1984 9.244799 CTCAAAAGTTTACCAAATTGTTAGGTC 57.755 33.333 0.00 0.00 36.87 3.85
1964 2000 8.519799 TTGTTAGGTCTCAAAAGTTTTGATCT 57.480 30.769 26.87 23.74 0.00 2.75
1965 2001 8.154649 TGTTAGGTCTCAAAAGTTTTGATCTC 57.845 34.615 26.87 19.42 0.00 2.75
1966 2002 7.773224 TGTTAGGTCTCAAAAGTTTTGATCTCA 59.227 33.333 26.87 16.88 0.00 3.27
1967 2003 8.621286 GTTAGGTCTCAAAAGTTTTGATCTCAA 58.379 33.333 26.87 15.99 0.00 3.02
2030 2066 3.365969 CGGGTCAAATTTGAACTACAGCC 60.366 47.826 30.02 20.39 44.25 4.85
2137 2174 5.086104 TCCAAGATTCAACCACTAGCTAC 57.914 43.478 0.00 0.00 0.00 3.58
2154 2191 2.245438 TACGAATGGTCATGCCCGCA 62.245 55.000 0.00 0.00 36.04 5.69
2164 2201 0.037512 CATGCCCGCAATTTTGACCA 60.038 50.000 0.00 0.00 0.00 4.02
2175 2212 6.428799 CGCAATTTTGACCACATTTTGAAAT 58.571 32.000 0.00 0.00 0.00 2.17
2180 2217 2.288702 TGACCACATTTTGAAATGGGCG 60.289 45.455 17.85 11.51 46.05 6.13
2182 2219 2.067766 CCACATTTTGAAATGGGCGTG 58.932 47.619 17.85 8.80 46.05 5.34
2183 2220 3.186522 CCACATTTTGAAATGGGCGTGG 61.187 50.000 17.85 12.90 46.05 4.94
2191 2230 2.630098 TGAAATGGGCGTGGAAAATTCA 59.370 40.909 0.00 0.00 0.00 2.57
2192 2231 3.070159 TGAAATGGGCGTGGAAAATTCAA 59.930 39.130 0.00 0.00 0.00 2.69
2193 2232 3.760580 AATGGGCGTGGAAAATTCAAA 57.239 38.095 0.00 0.00 0.00 2.69
2194 2233 3.760580 ATGGGCGTGGAAAATTCAAAA 57.239 38.095 0.00 0.00 0.00 2.44
2227 2269 5.922739 AAAAATTGGAAAACCTTCGCATC 57.077 34.783 0.00 0.00 31.77 3.91
2262 2304 4.082463 TGTGACAAAGTGTCCAGGAAAAAC 60.082 41.667 5.96 0.00 46.40 2.43
2263 2305 4.082463 GTGACAAAGTGTCCAGGAAAAACA 60.082 41.667 5.96 0.00 46.40 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 71 5.907391 GGCCTTGTTGTTTAATAATCGATCG 59.093 40.000 9.36 9.36 0.00 3.69
141 148 7.928167 CCACACTGATATTAGAGTAATCAGCAA 59.072 37.037 10.61 0.00 46.88 3.91
148 155 5.128663 TGCTGCCACACTGATATTAGAGTAA 59.871 40.000 0.78 0.00 0.00 2.24
378 385 2.978156 TTTGAGGACCAAAGGAGCAT 57.022 45.000 0.00 0.00 39.65 3.79
386 393 5.306937 TCTCACTGATAACTTTGAGGACCAA 59.693 40.000 0.00 0.00 36.84 3.67
614 621 2.345641 CGTTCAGTTGATCATCGGTGTC 59.654 50.000 0.00 0.00 0.00 3.67
671 678 2.118294 AGGCTGCTTGGTTTCCCC 59.882 61.111 0.00 0.00 0.00 4.81
690 698 2.367377 CCCTCCCTCCCTCATGCA 60.367 66.667 0.00 0.00 0.00 3.96
758 766 2.125350 CTTCCACTCTGCTCGGCC 60.125 66.667 0.00 0.00 0.00 6.13
828 836 1.528824 CAGGCCATCCACCTTCGAT 59.471 57.895 5.01 0.00 34.42 3.59
836 844 3.731728 GGACTGGCAGGCCATCCA 61.732 66.667 34.60 14.34 45.15 3.41
841 849 4.106925 CCTGAGGACTGGCAGGCC 62.107 72.222 32.81 32.81 46.64 5.19
856 869 3.626924 GTGGTGGAGTCACGGCCT 61.627 66.667 0.00 0.00 44.50 5.19
862 875 3.625897 CGCAGGGTGGTGGAGTCA 61.626 66.667 0.00 0.00 0.00 3.41
971 984 4.312152 ACGACGGGAGGAAGGGGT 62.312 66.667 0.00 0.00 0.00 4.95
1029 1042 2.126071 CGCGTGGTGAAGGTCGAT 60.126 61.111 0.00 0.00 0.00 3.59
1064 1077 2.426024 GCTTCCTCTACATACACGGACA 59.574 50.000 0.00 0.00 0.00 4.02
1120 1133 4.379243 AAGGTGGAGCTCGTGCGG 62.379 66.667 7.83 0.00 45.42 5.69
1174 1187 1.557443 GCCTTGACCTTGTCGTCGTG 61.557 60.000 0.00 0.00 34.95 4.35
1252 1266 0.699399 TCTTCTCCTCACGACTCCCT 59.301 55.000 0.00 0.00 0.00 4.20
1261 1275 0.612174 CCCCTGTCGTCTTCTCCTCA 60.612 60.000 0.00 0.00 0.00 3.86
1262 1276 1.324005 CCCCCTGTCGTCTTCTCCTC 61.324 65.000 0.00 0.00 0.00 3.71
1263 1277 1.305381 CCCCCTGTCGTCTTCTCCT 60.305 63.158 0.00 0.00 0.00 3.69
1264 1278 1.305046 TCCCCCTGTCGTCTTCTCC 60.305 63.158 0.00 0.00 0.00 3.71
1265 1279 0.898789 TGTCCCCCTGTCGTCTTCTC 60.899 60.000 0.00 0.00 0.00 2.87
1266 1280 0.900647 CTGTCCCCCTGTCGTCTTCT 60.901 60.000 0.00 0.00 0.00 2.85
1267 1281 1.592223 CTGTCCCCCTGTCGTCTTC 59.408 63.158 0.00 0.00 0.00 2.87
1268 1282 1.913762 CCTGTCCCCCTGTCGTCTT 60.914 63.158 0.00 0.00 0.00 3.01
1269 1283 2.169590 ATCCTGTCCCCCTGTCGTCT 62.170 60.000 0.00 0.00 0.00 4.18
1270 1284 1.677637 GATCCTGTCCCCCTGTCGTC 61.678 65.000 0.00 0.00 0.00 4.20
1271 1285 1.686110 GATCCTGTCCCCCTGTCGT 60.686 63.158 0.00 0.00 0.00 4.34
1272 1286 2.786495 CGATCCTGTCCCCCTGTCG 61.786 68.421 0.00 0.00 0.00 4.35
1273 1287 1.381327 TCGATCCTGTCCCCCTGTC 60.381 63.158 0.00 0.00 0.00 3.51
1274 1288 1.381872 CTCGATCCTGTCCCCCTGT 60.382 63.158 0.00 0.00 0.00 4.00
1275 1289 1.075970 TCTCGATCCTGTCCCCCTG 60.076 63.158 0.00 0.00 0.00 4.45
1276 1290 1.231641 CTCTCGATCCTGTCCCCCT 59.768 63.158 0.00 0.00 0.00 4.79
1277 1291 1.834822 CCTCTCGATCCTGTCCCCC 60.835 68.421 0.00 0.00 0.00 5.40
1278 1292 0.825840 CTCCTCTCGATCCTGTCCCC 60.826 65.000 0.00 0.00 0.00 4.81
1279 1293 1.460273 GCTCCTCTCGATCCTGTCCC 61.460 65.000 0.00 0.00 0.00 4.46
1280 1294 1.791103 CGCTCCTCTCGATCCTGTCC 61.791 65.000 0.00 0.00 0.00 4.02
1281 1295 1.652012 CGCTCCTCTCGATCCTGTC 59.348 63.158 0.00 0.00 0.00 3.51
1282 1296 1.826054 CCGCTCCTCTCGATCCTGT 60.826 63.158 0.00 0.00 0.00 4.00
1283 1297 1.388065 AACCGCTCCTCTCGATCCTG 61.388 60.000 0.00 0.00 0.00 3.86
1284 1298 1.076632 AACCGCTCCTCTCGATCCT 60.077 57.895 0.00 0.00 0.00 3.24
1285 1299 1.360911 GAACCGCTCCTCTCGATCC 59.639 63.158 0.00 0.00 0.00 3.36
1286 1300 0.030101 CTGAACCGCTCCTCTCGATC 59.970 60.000 0.00 0.00 0.00 3.69
1287 1301 0.394488 TCTGAACCGCTCCTCTCGAT 60.394 55.000 0.00 0.00 0.00 3.59
1288 1302 1.002502 TCTGAACCGCTCCTCTCGA 60.003 57.895 0.00 0.00 0.00 4.04
1289 1303 1.309499 ACTCTGAACCGCTCCTCTCG 61.309 60.000 0.00 0.00 0.00 4.04
1290 1304 0.892063 AACTCTGAACCGCTCCTCTC 59.108 55.000 0.00 0.00 0.00 3.20
1291 1305 0.605589 CAACTCTGAACCGCTCCTCT 59.394 55.000 0.00 0.00 0.00 3.69
1292 1306 0.318762 ACAACTCTGAACCGCTCCTC 59.681 55.000 0.00 0.00 0.00 3.71
1293 1307 0.034059 CACAACTCTGAACCGCTCCT 59.966 55.000 0.00 0.00 0.00 3.69
1294 1308 0.033504 TCACAACTCTGAACCGCTCC 59.966 55.000 0.00 0.00 0.00 4.70
1295 1309 1.728971 CATCACAACTCTGAACCGCTC 59.271 52.381 0.00 0.00 0.00 5.03
1296 1310 1.800805 CATCACAACTCTGAACCGCT 58.199 50.000 0.00 0.00 0.00 5.52
1297 1311 0.166814 GCATCACAACTCTGAACCGC 59.833 55.000 0.00 0.00 0.00 5.68
1298 1312 1.728971 GAGCATCACAACTCTGAACCG 59.271 52.381 0.00 0.00 33.17 4.44
1299 1313 2.079925 GGAGCATCACAACTCTGAACC 58.920 52.381 0.00 0.00 36.25 3.62
1300 1314 1.728971 CGGAGCATCACAACTCTGAAC 59.271 52.381 0.00 0.00 41.03 3.18
1301 1315 2.084610 CGGAGCATCACAACTCTGAA 57.915 50.000 0.00 0.00 41.03 3.02
1302 1316 3.820595 CGGAGCATCACAACTCTGA 57.179 52.632 0.00 0.00 41.03 3.27
1320 1334 3.561241 GATCCCCTCCCTTCCGGC 61.561 72.222 0.00 0.00 0.00 6.13
1321 1335 3.234730 CGATCCCCTCCCTTCCGG 61.235 72.222 0.00 0.00 0.00 5.14
1322 1336 2.123425 TCGATCCCCTCCCTTCCG 60.123 66.667 0.00 0.00 0.00 4.30
1323 1337 0.830023 CTCTCGATCCCCTCCCTTCC 60.830 65.000 0.00 0.00 0.00 3.46
1324 1338 0.830023 CCTCTCGATCCCCTCCCTTC 60.830 65.000 0.00 0.00 0.00 3.46
1325 1339 1.234529 CCTCTCGATCCCCTCCCTT 59.765 63.158 0.00 0.00 0.00 3.95
1326 1340 1.701757 TCCTCTCGATCCCCTCCCT 60.702 63.158 0.00 0.00 0.00 4.20
1327 1341 1.228737 CTCCTCTCGATCCCCTCCC 60.229 68.421 0.00 0.00 0.00 4.30
1328 1342 1.906333 GCTCCTCTCGATCCCCTCC 60.906 68.421 0.00 0.00 0.00 4.30
1329 1343 2.265182 CGCTCCTCTCGATCCCCTC 61.265 68.421 0.00 0.00 0.00 4.30
1330 1344 2.203422 CGCTCCTCTCGATCCCCT 60.203 66.667 0.00 0.00 0.00 4.79
1331 1345 3.299190 CCGCTCCTCTCGATCCCC 61.299 72.222 0.00 0.00 0.00 4.81
1332 1346 3.299190 CCCGCTCCTCTCGATCCC 61.299 72.222 0.00 0.00 0.00 3.85
1333 1347 2.519780 ACCCGCTCCTCTCGATCC 60.520 66.667 0.00 0.00 0.00 3.36
1334 1348 1.791103 CTCACCCGCTCCTCTCGATC 61.791 65.000 0.00 0.00 0.00 3.69
1335 1349 1.826054 CTCACCCGCTCCTCTCGAT 60.826 63.158 0.00 0.00 0.00 3.59
1336 1350 2.438614 CTCACCCGCTCCTCTCGA 60.439 66.667 0.00 0.00 0.00 4.04
1337 1351 3.522731 CCTCACCCGCTCCTCTCG 61.523 72.222 0.00 0.00 0.00 4.04
1338 1352 1.456705 ATCCTCACCCGCTCCTCTC 60.457 63.158 0.00 0.00 0.00 3.20
1339 1353 1.760086 CATCCTCACCCGCTCCTCT 60.760 63.158 0.00 0.00 0.00 3.69
1340 1354 2.801631 CCATCCTCACCCGCTCCTC 61.802 68.421 0.00 0.00 0.00 3.71
1341 1355 2.765807 CCATCCTCACCCGCTCCT 60.766 66.667 0.00 0.00 0.00 3.69
1342 1356 4.554036 GCCATCCTCACCCGCTCC 62.554 72.222 0.00 0.00 0.00 4.70
1343 1357 3.746949 CTGCCATCCTCACCCGCTC 62.747 68.421 0.00 0.00 0.00 5.03
1344 1358 3.790437 CTGCCATCCTCACCCGCT 61.790 66.667 0.00 0.00 0.00 5.52
1347 1361 3.746949 CTCGCTGCCATCCTCACCC 62.747 68.421 0.00 0.00 0.00 4.61
1348 1362 2.202987 CTCGCTGCCATCCTCACC 60.203 66.667 0.00 0.00 0.00 4.02
1349 1363 2.894387 GCTCGCTGCCATCCTCAC 60.894 66.667 0.00 0.00 35.15 3.51
1350 1364 3.079478 AGCTCGCTGCCATCCTCA 61.079 61.111 0.00 0.00 44.23 3.86
1351 1365 2.280052 GAGCTCGCTGCCATCCTC 60.280 66.667 0.00 0.00 44.23 3.71
1352 1366 3.859414 GGAGCTCGCTGCCATCCT 61.859 66.667 7.83 0.00 44.23 3.24
1366 1380 1.227263 CCAACTACATCCGGCGGAG 60.227 63.158 33.82 25.60 34.05 4.63
1367 1381 2.897207 CCAACTACATCCGGCGGA 59.103 61.111 33.10 33.10 35.55 5.54
1368 1382 2.895372 GCCAACTACATCCGGCGG 60.895 66.667 22.51 22.51 34.26 6.13
1370 1384 2.472909 GCTGCCAACTACATCCGGC 61.473 63.158 0.00 0.00 45.11 6.13
1371 1385 2.173669 CGCTGCCAACTACATCCGG 61.174 63.158 0.00 0.00 0.00 5.14
1372 1386 2.173669 CCGCTGCCAACTACATCCG 61.174 63.158 0.00 0.00 0.00 4.18
1373 1387 0.179045 ATCCGCTGCCAACTACATCC 60.179 55.000 0.00 0.00 0.00 3.51
1374 1388 1.202580 AGATCCGCTGCCAACTACATC 60.203 52.381 0.00 0.00 0.00 3.06
1375 1389 0.833287 AGATCCGCTGCCAACTACAT 59.167 50.000 0.00 0.00 0.00 2.29
1376 1390 0.108186 CAGATCCGCTGCCAACTACA 60.108 55.000 0.00 0.00 37.90 2.74
1377 1391 0.811616 CCAGATCCGCTGCCAACTAC 60.812 60.000 0.00 0.00 43.50 2.73
1378 1392 0.975556 TCCAGATCCGCTGCCAACTA 60.976 55.000 0.00 0.00 43.50 2.24
1379 1393 1.841302 TTCCAGATCCGCTGCCAACT 61.841 55.000 0.00 0.00 43.50 3.16
1380 1394 1.372087 CTTCCAGATCCGCTGCCAAC 61.372 60.000 0.00 0.00 43.50 3.77
1381 1395 1.078214 CTTCCAGATCCGCTGCCAA 60.078 57.895 0.00 0.00 43.50 4.52
1382 1396 2.586245 CTTCCAGATCCGCTGCCA 59.414 61.111 0.00 0.00 43.50 4.92
1383 1397 2.203126 CCTTCCAGATCCGCTGCC 60.203 66.667 0.00 0.00 43.50 4.85
1384 1398 2.203126 CCCTTCCAGATCCGCTGC 60.203 66.667 0.00 0.00 43.50 5.25
1385 1399 2.037620 CTCCCCTTCCAGATCCGCTG 62.038 65.000 0.00 0.00 44.49 5.18
1386 1400 1.764054 CTCCCCTTCCAGATCCGCT 60.764 63.158 0.00 0.00 0.00 5.52
1387 1401 2.812619 CCTCCCCTTCCAGATCCGC 61.813 68.421 0.00 0.00 0.00 5.54
1388 1402 1.075226 TCCTCCCCTTCCAGATCCG 60.075 63.158 0.00 0.00 0.00 4.18
1405 1419 2.564947 TCTTTCCCTCTGTGCTCTTCTC 59.435 50.000 0.00 0.00 0.00 2.87
1406 1420 2.614259 TCTTTCCCTCTGTGCTCTTCT 58.386 47.619 0.00 0.00 0.00 2.85
1409 1423 2.039613 CCTTTCTTTCCCTCTGTGCTCT 59.960 50.000 0.00 0.00 0.00 4.09
1411 1425 2.039613 CTCCTTTCTTTCCCTCTGTGCT 59.960 50.000 0.00 0.00 0.00 4.40
1412 1426 2.039084 TCTCCTTTCTTTCCCTCTGTGC 59.961 50.000 0.00 0.00 0.00 4.57
1413 1427 4.260170 CATCTCCTTTCTTTCCCTCTGTG 58.740 47.826 0.00 0.00 0.00 3.66
1414 1428 3.265479 CCATCTCCTTTCTTTCCCTCTGT 59.735 47.826 0.00 0.00 0.00 3.41
1415 1429 3.371380 CCCATCTCCTTTCTTTCCCTCTG 60.371 52.174 0.00 0.00 0.00 3.35
1482 1507 1.152777 CAGCCTTCCACACCAACCA 60.153 57.895 0.00 0.00 0.00 3.67
1536 1562 0.041576 CACGCGGATCATGCATCAAG 60.042 55.000 12.47 0.00 32.33 3.02
1805 1836 5.078949 TGGCTCTCAGAAAATGGAAAATGA 58.921 37.500 0.00 0.00 0.00 2.57
1900 1936 5.642165 AGACCTAACTTCTGAGACCTAACA 58.358 41.667 0.00 0.00 0.00 2.41
1901 1937 5.711036 TGAGACCTAACTTCTGAGACCTAAC 59.289 44.000 0.00 0.00 0.00 2.34
1903 1939 5.516059 TGAGACCTAACTTCTGAGACCTA 57.484 43.478 0.00 0.00 0.00 3.08
1904 1940 4.390129 TGAGACCTAACTTCTGAGACCT 57.610 45.455 0.00 0.00 0.00 3.85
1906 1942 6.517605 ACTTTTGAGACCTAACTTCTGAGAC 58.482 40.000 0.00 0.00 0.00 3.36
1907 1943 6.732896 ACTTTTGAGACCTAACTTCTGAGA 57.267 37.500 0.00 0.00 0.00 3.27
1908 1944 7.793927 AAACTTTTGAGACCTAACTTCTGAG 57.206 36.000 0.00 0.00 0.00 3.35
1910 1946 7.497909 TGGTAAACTTTTGAGACCTAACTTCTG 59.502 37.037 0.00 0.00 0.00 3.02
1911 1947 7.571025 TGGTAAACTTTTGAGACCTAACTTCT 58.429 34.615 0.00 0.00 0.00 2.85
1912 1948 7.797038 TGGTAAACTTTTGAGACCTAACTTC 57.203 36.000 0.00 0.00 0.00 3.01
1913 1949 8.584063 TTTGGTAAACTTTTGAGACCTAACTT 57.416 30.769 0.00 0.00 0.00 2.66
1915 1951 9.244799 CAATTTGGTAAACTTTTGAGACCTAAC 57.755 33.333 0.00 0.00 29.75 2.34
1918 1954 7.418337 ACAATTTGGTAAACTTTTGAGACCT 57.582 32.000 0.78 0.00 0.00 3.85
1919 1955 9.244799 CTAACAATTTGGTAAACTTTTGAGACC 57.755 33.333 0.78 0.00 0.00 3.85
1920 1956 9.244799 CCTAACAATTTGGTAAACTTTTGAGAC 57.755 33.333 0.78 0.00 0.00 3.36
1921 1957 8.973182 ACCTAACAATTTGGTAAACTTTTGAGA 58.027 29.630 0.78 0.00 31.50 3.27
1922 1958 9.244799 GACCTAACAATTTGGTAAACTTTTGAG 57.755 33.333 0.78 0.00 33.74 3.02
1923 1959 8.973182 AGACCTAACAATTTGGTAAACTTTTGA 58.027 29.630 0.78 0.00 33.74 2.69
1924 1960 9.244799 GAGACCTAACAATTTGGTAAACTTTTG 57.755 33.333 0.78 0.00 33.74 2.44
1925 1961 8.973182 TGAGACCTAACAATTTGGTAAACTTTT 58.027 29.630 0.78 0.00 33.74 2.27
1927 1963 8.528044 TTGAGACCTAACAATTTGGTAAACTT 57.472 30.769 0.78 0.00 33.74 2.66
1929 1965 9.244799 CTTTTGAGACCTAACAATTTGGTAAAC 57.755 33.333 0.78 0.00 33.74 2.01
1932 1968 8.528044 AACTTTTGAGACCTAACAATTTGGTA 57.472 30.769 0.78 0.00 33.74 3.25
1940 1976 7.773224 TGAGATCAAAACTTTTGAGACCTAACA 59.227 33.333 19.22 10.81 0.00 2.41
1944 1980 7.830099 ATTGAGATCAAAACTTTTGAGACCT 57.170 32.000 19.22 15.56 39.55 3.85
1965 2001 9.848172 CGGAAATTTGTCTTTTTCACTAAATTG 57.152 29.630 0.00 0.00 34.29 2.32
1966 2002 8.547894 GCGGAAATTTGTCTTTTTCACTAAATT 58.452 29.630 0.00 0.00 34.29 1.82
1967 2003 7.926018 AGCGGAAATTTGTCTTTTTCACTAAAT 59.074 29.630 0.00 0.00 34.29 1.40
2099 2135 9.837525 TGAATCTTGGAAAATTTTTGTTGTTTG 57.162 25.926 4.63 0.00 0.00 2.93
2105 2141 7.828717 AGTGGTTGAATCTTGGAAAATTTTTGT 59.171 29.630 4.63 0.00 0.00 2.83
2137 2174 1.727511 ATTGCGGGCATGACCATTCG 61.728 55.000 20.22 4.20 42.05 3.34
2154 2191 6.238981 GCCCATTTCAAAATGTGGTCAAAATT 60.239 34.615 12.99 0.00 43.24 1.82
2164 2201 1.967066 TCCACGCCCATTTCAAAATGT 59.033 42.857 12.99 0.00 43.24 2.71
2175 2212 3.543680 TTTTTGAATTTTCCACGCCCA 57.456 38.095 0.00 0.00 0.00 5.36


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

AutoCloner maintained by Alex Coulton.