Multiple sequence alignment - TraesCS5B01G493500

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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 TraesCS5B01G493500 chr5B 100.000 6570 0 0 1 6570 661514593 661521162 0.000000e+00 12133
1 TraesCS5B01G493500 chr5B 83.040 967 130 23 3546 4497 662029858 662030805 0.000000e+00 846
2 TraesCS5B01G493500 chr5B 78.549 634 103 16 3742 4367 419845539 419844931 2.870000e-103 387
3 TraesCS5B01G493500 chr5D 90.417 5113 266 83 2 4992 526404174 526409184 0.000000e+00 6521
4 TraesCS5B01G493500 chr5D 96.375 662 24 0 4951 5612 526409185 526409846 0.000000e+00 1090
5 TraesCS5B01G493500 chr5D 84.178 967 126 14 3546 4497 526566329 526567283 0.000000e+00 913
6 TraesCS5B01G493500 chr5D 87.584 298 35 2 3264 3560 526565865 526566161 1.750000e-90 344
7 TraesCS5B01G493500 chr5A 92.940 4462 196 34 1236 5612 653469422 653473849 0.000000e+00 6384
8 TraesCS5B01G493500 chr5A 95.820 957 38 2 5614 6570 693358565 693357611 0.000000e+00 1544
9 TraesCS5B01G493500 chr5A 82.654 957 128 22 3549 4497 653711957 653712883 0.000000e+00 813
10 TraesCS5B01G493500 chr5A 86.969 706 38 23 393 1075 653468587 653469261 0.000000e+00 745
11 TraesCS5B01G493500 chr5A 84.969 326 44 3 1 326 653468150 653468470 6.350000e-85 326
12 TraesCS5B01G493500 chr7A 99.478 957 5 0 5614 6570 53280505 53281461 0.000000e+00 1740
13 TraesCS5B01G493500 chr3B 97.179 957 27 0 5614 6570 113487280 113486324 0.000000e+00 1618
14 TraesCS5B01G493500 chr3B 96.552 957 32 1 5614 6570 495273081 495274036 0.000000e+00 1583
15 TraesCS5B01G493500 chr3A 97.179 957 27 0 5614 6570 660274853 660275809 0.000000e+00 1618
16 TraesCS5B01G493500 chr4B 96.970 957 29 0 5614 6570 608783388 608782432 0.000000e+00 1607
17 TraesCS5B01G493500 chr1D 96.872 959 25 3 5614 6570 381025908 381024953 0.000000e+00 1600
18 TraesCS5B01G493500 chr1D 97.885 851 18 0 5608 6458 398943477 398944327 0.000000e+00 1472
19 TraesCS5B01G493500 chr6B 96.545 955 33 0 5616 6570 172762849 172763803 0.000000e+00 1581


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 TraesCS5B01G493500 chr5B 661514593 661521162 6569 False 12133.0 12133 100.000000 1 6570 1 chr5B.!!$F1 6569
1 TraesCS5B01G493500 chr5B 662029858 662030805 947 False 846.0 846 83.040000 3546 4497 1 chr5B.!!$F2 951
2 TraesCS5B01G493500 chr5B 419844931 419845539 608 True 387.0 387 78.549000 3742 4367 1 chr5B.!!$R1 625
3 TraesCS5B01G493500 chr5D 526404174 526409846 5672 False 3805.5 6521 93.396000 2 5612 2 chr5D.!!$F1 5610
4 TraesCS5B01G493500 chr5D 526565865 526567283 1418 False 628.5 913 85.881000 3264 4497 2 chr5D.!!$F2 1233
5 TraesCS5B01G493500 chr5A 653468150 653473849 5699 False 2485.0 6384 88.292667 1 5612 3 chr5A.!!$F2 5611
6 TraesCS5B01G493500 chr5A 693357611 693358565 954 True 1544.0 1544 95.820000 5614 6570 1 chr5A.!!$R1 956
7 TraesCS5B01G493500 chr5A 653711957 653712883 926 False 813.0 813 82.654000 3549 4497 1 chr5A.!!$F1 948
8 TraesCS5B01G493500 chr7A 53280505 53281461 956 False 1740.0 1740 99.478000 5614 6570 1 chr7A.!!$F1 956
9 TraesCS5B01G493500 chr3B 113486324 113487280 956 True 1618.0 1618 97.179000 5614 6570 1 chr3B.!!$R1 956
10 TraesCS5B01G493500 chr3B 495273081 495274036 955 False 1583.0 1583 96.552000 5614 6570 1 chr3B.!!$F1 956
11 TraesCS5B01G493500 chr3A 660274853 660275809 956 False 1618.0 1618 97.179000 5614 6570 1 chr3A.!!$F1 956
12 TraesCS5B01G493500 chr4B 608782432 608783388 956 True 1607.0 1607 96.970000 5614 6570 1 chr4B.!!$R1 956
13 TraesCS5B01G493500 chr1D 381024953 381025908 955 True 1600.0 1600 96.872000 5614 6570 1 chr1D.!!$R1 956
14 TraesCS5B01G493500 chr1D 398943477 398944327 850 False 1472.0 1472 97.885000 5608 6458 1 chr1D.!!$F1 850
15 TraesCS5B01G493500 chr6B 172762849 172763803 954 False 1581.0 1581 96.545000 5616 6570 1 chr6B.!!$F1 954

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
70 71 0.037734 CGAAGGTTAGGGTTTGGGCT 59.962 55.000 0.00 0.00 0.00 5.19 F
478 532 0.105709 CCCTTCTCCTCCTCCTCCTC 60.106 65.000 0.00 0.00 0.00 3.71 F
1258 1370 0.039618 AGGTGGAAATCGGTGCCATT 59.960 50.000 0.00 0.00 33.66 3.16 F
1578 1696 0.249238 GACATCGATGCTTCGCTCCT 60.249 55.000 25.11 1.94 45.10 3.69 F
3249 3400 0.668706 GCAGCAGTCGAGCTTCTTCA 60.669 55.000 0.00 0.00 43.70 3.02 F
3830 4164 4.081642 GGTACTGCTTAGAGGATGAACACA 60.082 45.833 0.00 0.00 0.00 3.72 F
5290 5772 0.036388 TGAACGGAGCCCAGACAATC 60.036 55.000 0.00 0.00 0.00 2.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1239 1351 0.039618 AATGGCACCGATTTCCACCT 59.960 50.000 0.00 0.00 31.94 4.00 R
2351 2492 0.104304 ACAGACAGACCGGTGTGAAC 59.896 55.000 35.91 26.39 35.75 3.18 R
3249 3400 0.323178 CACTTGGAGGCATGGAAGCT 60.323 55.000 0.00 0.00 34.17 3.74 R
3294 3445 4.922206 TGAAGACCTTAACATTGGCTGAT 58.078 39.130 0.00 0.00 0.00 2.90 R
4056 4436 1.537135 GCTAGTCCTTTAGCAGCTCCG 60.537 57.143 0.00 0.00 44.30 4.63 R
5428 5931 1.548357 GGTCTTGAGGCCTCTCTGCA 61.548 60.000 32.28 10.87 40.58 4.41 R
6293 6798 2.558359 TCAGTCAAGAGCTCGACAATCA 59.442 45.455 19.79 2.57 34.48 2.57 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
70 71 0.037734 CGAAGGTTAGGGTTTGGGCT 59.962 55.000 0.00 0.00 0.00 5.19
77 78 0.118346 TAGGGTTTGGGCTGGAGAGA 59.882 55.000 0.00 0.00 0.00 3.10
87 88 1.332997 GGCTGGAGAGAAATCAATGCG 59.667 52.381 0.00 0.00 0.00 4.73
94 95 3.201290 AGAGAAATCAATGCGCGAGAAT 58.799 40.909 12.10 0.00 0.00 2.40
95 96 3.247173 AGAGAAATCAATGCGCGAGAATC 59.753 43.478 12.10 5.00 0.00 2.52
136 137 4.260656 CGAGAAAAACACGCTGATATTTGC 59.739 41.667 0.00 0.00 0.00 3.68
165 166 4.693532 TGGAACAGACACATCGGC 57.306 55.556 0.00 0.00 0.00 5.54
210 211 2.355363 CTGTCGAAACCACGCCGA 60.355 61.111 0.00 0.00 0.00 5.54
220 221 3.268603 CACGCCGACACACAGCAA 61.269 61.111 0.00 0.00 0.00 3.91
250 251 4.773117 GGTGTCCGTCGCGACCTC 62.773 72.222 31.84 21.53 31.35 3.85
289 290 0.800012 GAGAAACGCGCCCACATTTA 59.200 50.000 5.73 0.00 0.00 1.40
314 315 2.355363 TCTGTCGAAACCGCACGG 60.355 61.111 7.71 7.71 42.03 4.94
327 328 2.516930 CACGGGCATCCATCCACC 60.517 66.667 0.00 0.00 0.00 4.61
344 363 4.277476 TCCACCCACCAAATATAGCAAAG 58.723 43.478 0.00 0.00 0.00 2.77
350 369 4.276926 CCACCAAATATAGCAAAGCCTCTC 59.723 45.833 0.00 0.00 0.00 3.20
353 372 4.450419 CCAAATATAGCAAAGCCTCTCTCG 59.550 45.833 0.00 0.00 0.00 4.04
368 387 2.104622 TCTCTCGATGCCCATATGCAAA 59.895 45.455 0.00 0.00 45.84 3.68
390 409 3.423996 TTTTTCAACGTTAGGTGGCAC 57.576 42.857 9.70 9.70 35.31 5.01
395 414 3.249999 CGTTAGGTGGCACCAACG 58.750 61.111 36.03 36.03 41.95 4.10
396 415 2.951458 GTTAGGTGGCACCAACGC 59.049 61.111 36.28 19.78 41.95 4.84
397 416 1.894756 GTTAGGTGGCACCAACGCA 60.895 57.895 36.28 14.26 41.95 5.24
463 517 1.571955 GCCATTCATTTCACCCCCTT 58.428 50.000 0.00 0.00 0.00 3.95
471 525 0.196118 TTTCACCCCCTTCTCCTCCT 59.804 55.000 0.00 0.00 0.00 3.69
477 531 1.598856 CCCCTTCTCCTCCTCCTCCT 61.599 65.000 0.00 0.00 0.00 3.69
478 532 0.105709 CCCTTCTCCTCCTCCTCCTC 60.106 65.000 0.00 0.00 0.00 3.71
482 536 4.144727 TCCTCCTCCTCCTCCGGC 62.145 72.222 0.00 0.00 0.00 6.13
486 540 4.517934 CCTCCTCCTCCGGCGGTA 62.518 72.222 27.32 11.85 0.00 4.02
943 1033 2.256461 CTGCTTGCTCGGTTTGGC 59.744 61.111 0.00 0.00 0.00 4.52
1074 1164 4.475135 GGTTCGGCCTGCTCCTCC 62.475 72.222 0.00 0.00 0.00 4.30
1075 1165 3.706373 GTTCGGCCTGCTCCTCCA 61.706 66.667 0.00 0.00 0.00 3.86
1077 1167 4.704103 TCGGCCTGCTCCTCCACT 62.704 66.667 0.00 0.00 0.00 4.00
1078 1168 3.710722 CGGCCTGCTCCTCCACTT 61.711 66.667 0.00 0.00 0.00 3.16
1082 1175 1.920325 CCTGCTCCTCCACTTCCCA 60.920 63.158 0.00 0.00 0.00 4.37
1085 1178 0.116342 TGCTCCTCCACTTCCCACTA 59.884 55.000 0.00 0.00 0.00 2.74
1092 1185 3.821033 CCTCCACTTCCCACTAGTTTTTG 59.179 47.826 0.00 0.00 0.00 2.44
1101 1194 1.396996 CACTAGTTTTTGGGCGATCCG 59.603 52.381 0.00 0.00 38.76 4.18
1105 1198 0.525455 GTTTTTGGGCGATCCGATGC 60.525 55.000 0.00 0.00 38.76 3.91
1106 1199 1.987704 TTTTTGGGCGATCCGATGCG 61.988 55.000 0.00 0.00 38.76 4.73
1169 1281 0.327924 TCCCAGATGCGAACACCAAT 59.672 50.000 0.00 0.00 0.00 3.16
1178 1290 1.832883 CGAACACCAATCCATTCCCA 58.167 50.000 0.00 0.00 0.00 4.37
1179 1291 2.378038 CGAACACCAATCCATTCCCAT 58.622 47.619 0.00 0.00 0.00 4.00
1182 1294 4.400884 CGAACACCAATCCATTCCCATTTA 59.599 41.667 0.00 0.00 0.00 1.40
1183 1295 5.105554 CGAACACCAATCCATTCCCATTTAA 60.106 40.000 0.00 0.00 0.00 1.52
1184 1296 5.937975 ACACCAATCCATTCCCATTTAAG 57.062 39.130 0.00 0.00 0.00 1.85
1185 1297 4.716287 ACACCAATCCATTCCCATTTAAGG 59.284 41.667 0.00 0.00 0.00 2.69
1186 1298 3.711190 ACCAATCCATTCCCATTTAAGGC 59.289 43.478 0.00 0.00 0.00 4.35
1188 1300 4.409901 CCAATCCATTCCCATTTAAGGCTT 59.590 41.667 4.58 4.58 0.00 4.35
1189 1301 5.453762 CCAATCCATTCCCATTTAAGGCTTC 60.454 44.000 1.30 0.00 0.00 3.86
1190 1302 3.642141 TCCATTCCCATTTAAGGCTTCC 58.358 45.455 1.30 0.00 0.00 3.46
1191 1303 2.362077 CCATTCCCATTTAAGGCTTCCG 59.638 50.000 1.30 0.00 0.00 4.30
1192 1304 1.470051 TTCCCATTTAAGGCTTCCGC 58.530 50.000 1.30 0.00 0.00 5.54
1193 1305 0.746563 TCCCATTTAAGGCTTCCGCG 60.747 55.000 1.30 0.00 36.88 6.46
1194 1306 1.064134 CCATTTAAGGCTTCCGCGC 59.936 57.895 1.30 0.00 36.88 6.86
1195 1307 1.297598 CATTTAAGGCTTCCGCGCG 60.298 57.895 25.67 25.67 36.88 6.86
1196 1308 3.108357 ATTTAAGGCTTCCGCGCGC 62.108 57.895 27.36 23.91 36.88 6.86
1213 1325 1.809207 GCGTTGGGTGGATGGATTG 59.191 57.895 0.00 0.00 0.00 2.67
1214 1326 1.809207 CGTTGGGTGGATGGATTGC 59.191 57.895 0.00 0.00 0.00 3.56
1215 1327 1.666209 CGTTGGGTGGATGGATTGCC 61.666 60.000 0.00 0.00 0.00 4.52
1216 1328 1.001503 TTGGGTGGATGGATTGCCC 59.998 57.895 0.00 0.00 39.73 5.36
1217 1329 1.517538 TTGGGTGGATGGATTGCCCT 61.518 55.000 0.00 0.00 39.97 5.19
1219 1331 1.307647 GGTGGATGGATTGCCCTGT 59.692 57.895 0.00 0.00 35.38 4.00
1220 1332 0.753111 GGTGGATGGATTGCCCTGTC 60.753 60.000 0.00 0.00 35.38 3.51
1221 1333 1.097547 GTGGATGGATTGCCCTGTCG 61.098 60.000 0.00 0.00 35.38 4.35
1222 1334 1.271127 TGGATGGATTGCCCTGTCGA 61.271 55.000 0.00 0.00 35.38 4.20
1223 1335 0.109342 GGATGGATTGCCCTGTCGAT 59.891 55.000 0.00 0.00 35.38 3.59
1224 1336 1.477558 GGATGGATTGCCCTGTCGATT 60.478 52.381 0.00 0.00 35.38 3.34
1225 1337 2.224523 GGATGGATTGCCCTGTCGATTA 60.225 50.000 0.00 0.00 35.38 1.75
1226 1338 2.325583 TGGATTGCCCTGTCGATTAC 57.674 50.000 0.00 0.00 35.38 1.89
1227 1339 1.557371 TGGATTGCCCTGTCGATTACA 59.443 47.619 0.00 0.00 36.42 2.41
1228 1340 1.940613 GGATTGCCCTGTCGATTACAC 59.059 52.381 0.00 0.00 33.45 2.90
1230 1342 0.604073 TTGCCCTGTCGATTACACGA 59.396 50.000 0.00 0.00 40.00 4.35
1237 1349 3.700577 TCGATTACACGACCGGTTC 57.299 52.632 9.42 0.00 37.37 3.62
1238 1350 0.171007 TCGATTACACGACCGGTTCC 59.829 55.000 9.42 0.00 37.37 3.62
1239 1351 0.109179 CGATTACACGACCGGTTCCA 60.109 55.000 9.42 0.00 35.09 3.53
1254 1366 1.002624 TCCAGGTGGAAATCGGTGC 60.003 57.895 0.00 0.00 42.18 5.01
1255 1367 2.046285 CCAGGTGGAAATCGGTGCC 61.046 63.158 0.00 0.00 37.39 5.01
1258 1370 0.039618 AGGTGGAAATCGGTGCCATT 59.960 50.000 0.00 0.00 33.66 3.16
1270 1382 3.827634 GCCATTAGCGGGTTCCTG 58.172 61.111 0.00 0.00 0.00 3.86
1274 1386 0.451783 CATTAGCGGGTTCCTGTTGC 59.548 55.000 0.00 0.00 0.00 4.17
1285 1397 1.226379 CCTGTTGCGCGCAATTAGG 60.226 57.895 40.35 40.35 38.28 2.69
1289 1401 1.154054 TTGCGCGCAATTAGGCTTG 60.154 52.632 40.23 0.00 0.00 4.01
1297 1409 2.607771 CGCAATTAGGCTTGTGCAGTTT 60.608 45.455 14.52 0.00 41.91 2.66
1331 1443 4.419522 ACTTGTTTGTATGCGTGATTCC 57.580 40.909 0.00 0.00 0.00 3.01
1334 1446 2.413796 TGTTTGTATGCGTGATTCCGTC 59.586 45.455 0.00 0.00 0.00 4.79
1335 1447 2.665649 TTGTATGCGTGATTCCGTCT 57.334 45.000 0.00 0.00 0.00 4.18
1336 1448 3.786516 TTGTATGCGTGATTCCGTCTA 57.213 42.857 0.00 0.00 0.00 2.59
1338 1450 4.316205 TGTATGCGTGATTCCGTCTATT 57.684 40.909 0.00 0.00 0.00 1.73
1339 1451 4.689071 TGTATGCGTGATTCCGTCTATTT 58.311 39.130 0.00 0.00 0.00 1.40
1341 1453 2.190161 TGCGTGATTCCGTCTATTTCG 58.810 47.619 0.00 0.00 0.00 3.46
1346 1464 1.415289 GATTCCGTCTATTTCGGGGGT 59.585 52.381 4.58 0.00 46.82 4.95
1351 1469 1.687123 CGTCTATTTCGGGGGTGATCT 59.313 52.381 0.00 0.00 0.00 2.75
1352 1470 2.545952 CGTCTATTTCGGGGGTGATCTG 60.546 54.545 0.00 0.00 0.00 2.90
1355 1473 0.255890 ATTTCGGGGGTGATCTGGTG 59.744 55.000 0.00 0.00 0.00 4.17
1357 1475 3.009115 CGGGGGTGATCTGGTGGT 61.009 66.667 0.00 0.00 0.00 4.16
1368 1486 3.826157 TGATCTGGTGGTTTGATTTGGTC 59.174 43.478 0.00 0.00 0.00 4.02
1369 1487 3.304911 TCTGGTGGTTTGATTTGGTCA 57.695 42.857 0.00 0.00 34.25 4.02
1370 1488 2.955660 TCTGGTGGTTTGATTTGGTCAC 59.044 45.455 0.00 0.00 36.32 3.67
1371 1489 1.678627 TGGTGGTTTGATTTGGTCACG 59.321 47.619 0.00 0.00 36.32 4.35
1372 1490 1.601914 GGTGGTTTGATTTGGTCACGC 60.602 52.381 0.00 0.00 36.32 5.34
1373 1491 1.336755 GTGGTTTGATTTGGTCACGCT 59.663 47.619 0.00 0.00 36.32 5.07
1374 1492 1.606668 TGGTTTGATTTGGTCACGCTC 59.393 47.619 0.00 0.00 36.32 5.03
1375 1493 1.606668 GGTTTGATTTGGTCACGCTCA 59.393 47.619 0.00 0.00 36.32 4.26
1394 1512 3.639094 CTCACATAGCTAGTGGCCTAGTT 59.361 47.826 17.67 0.00 42.35 2.24
1397 1515 2.160721 TAGCTAGTGGCCTAGTTGCT 57.839 50.000 17.67 17.67 42.35 3.91
1436 1554 3.422546 GCACACTAAAGCGAGATATCGTC 59.577 47.826 11.90 3.92 35.26 4.20
1578 1696 0.249238 GACATCGATGCTTCGCTCCT 60.249 55.000 25.11 1.94 45.10 3.69
1579 1697 1.001268 GACATCGATGCTTCGCTCCTA 60.001 52.381 25.11 0.11 45.10 2.94
1580 1698 1.269309 ACATCGATGCTTCGCTCCTAC 60.269 52.381 25.11 0.00 45.10 3.18
1727 1851 3.202097 TCAGTGTGGTGTGTGTTATGTG 58.798 45.455 0.00 0.00 0.00 3.21
1728 1852 2.290367 CAGTGTGGTGTGTGTTATGTGG 59.710 50.000 0.00 0.00 0.00 4.17
1759 1883 3.758554 GTGGTGTGGATGTTTTAGCATCT 59.241 43.478 6.54 0.00 43.41 2.90
1769 1893 7.176515 TGGATGTTTTAGCATCTTATGTGTTGT 59.823 33.333 6.54 0.00 43.41 3.32
1802 1926 4.685169 AACCACTTAGCACGATGAATTG 57.315 40.909 0.00 0.00 0.00 2.32
1807 1931 6.071952 ACCACTTAGCACGATGAATTGAAAAT 60.072 34.615 0.00 0.00 0.00 1.82
1815 1939 6.620678 CACGATGAATTGAAAATACCCTTGT 58.379 36.000 0.00 0.00 0.00 3.16
1826 1950 5.453567 AAATACCCTTGTTTCAGTTGCTC 57.546 39.130 0.00 0.00 0.00 4.26
1854 1984 7.377398 CAAGAAACATTTGATTGTGGTGGATA 58.623 34.615 0.00 0.00 0.00 2.59
1901 2031 1.802960 CTGCACTGACACTTAGCTTGG 59.197 52.381 0.00 0.00 0.00 3.61
2015 2148 4.709397 ACAGGTTGACCAAGAAACATTTGA 59.291 37.500 2.56 0.00 38.89 2.69
2048 2181 5.296283 AGACTAATACTACAGTGCAGTACGG 59.704 44.000 5.33 2.40 31.53 4.02
2050 2183 1.536940 TACTACAGTGCAGTACGGCA 58.463 50.000 17.06 17.06 42.53 5.69
2155 2296 2.290260 TGTCACATGAACTTAGGGGCAG 60.290 50.000 0.00 0.00 0.00 4.85
2156 2297 1.098050 CACATGAACTTAGGGGCAGC 58.902 55.000 0.00 0.00 0.00 5.25
2157 2298 0.995024 ACATGAACTTAGGGGCAGCT 59.005 50.000 0.00 0.00 0.00 4.24
2179 2320 4.269183 TGCTTGTCAAGGAAAAGAGAACA 58.731 39.130 14.40 0.00 28.86 3.18
2194 2335 5.986501 AGAGAACAGTTAGGGTTGACTAG 57.013 43.478 0.00 0.00 0.00 2.57
2203 2344 6.202954 CAGTTAGGGTTGACTAGTTGTTTCTG 59.797 42.308 0.00 0.00 0.00 3.02
2462 2613 6.436843 ACGCTATTATTTTCTTTCCCAGTG 57.563 37.500 0.00 0.00 0.00 3.66
2525 2676 5.314923 CAGTTCCATTATTCAACTGGGTG 57.685 43.478 3.56 0.00 42.20 4.61
2647 2798 0.869730 GCAACGGACGTACATTTGGT 59.130 50.000 10.37 0.00 0.00 3.67
2667 2818 3.056035 GGTGGGACAAGGTCTACTGTTAG 60.056 52.174 0.00 0.00 44.16 2.34
2726 2877 7.892241 CCCTCTGATTTTCACCATATCCATTAT 59.108 37.037 0.00 0.00 0.00 1.28
2842 2993 4.467438 CCAACCCCTATCAAAATGCTCTTT 59.533 41.667 0.00 0.00 0.00 2.52
3249 3400 0.668706 GCAGCAGTCGAGCTTCTTCA 60.669 55.000 0.00 0.00 43.70 3.02
3294 3445 4.903054 AGACTGAATGTGAGATCTTGCAA 58.097 39.130 0.00 0.00 0.00 4.08
3562 3894 7.202526 TGTTGTTCTTGGATGTCATTTTTCTC 58.797 34.615 0.00 0.00 0.00 2.87
3563 3895 6.331369 TGTTCTTGGATGTCATTTTTCTCC 57.669 37.500 0.00 0.00 0.00 3.71
3830 4164 4.081642 GGTACTGCTTAGAGGATGAACACA 60.082 45.833 0.00 0.00 0.00 3.72
3963 4326 5.638657 ACGATATCGATCCAGACTGTAGTAC 59.361 44.000 30.75 0.00 43.02 2.73
3967 4330 4.758688 TCGATCCAGACTGTAGTACGTTA 58.241 43.478 0.00 0.00 0.00 3.18
4056 4436 4.327680 ACCTAAGAATGAAGGTTGCACTC 58.672 43.478 0.00 0.00 43.77 3.51
4351 4753 4.934602 GGTTATGCAGCTCCAGAATATCTC 59.065 45.833 0.00 0.00 0.00 2.75
4381 4783 7.147811 ACAGGTAACCTTTGACTTGCAATTTTA 60.148 33.333 0.00 0.00 34.33 1.52
4398 4800 6.972328 GCAATTTTATGTTTTATCGAGCCAGA 59.028 34.615 0.00 0.00 0.00 3.86
4504 4909 9.803315 TGCATTAGTTCATAGAAGTTAGTGTAG 57.197 33.333 0.00 0.00 0.00 2.74
4561 4967 1.506309 TATGCGCATCATCCGTTGCC 61.506 55.000 29.11 0.00 34.88 4.52
4562 4968 4.256090 GCGCATCATCCGTTGCCC 62.256 66.667 0.30 0.00 34.88 5.36
4563 4969 2.514592 CGCATCATCCGTTGCCCT 60.515 61.111 0.00 0.00 34.88 5.19
4576 4982 0.925558 TTGCCCTGCAGATCCCATTA 59.074 50.000 17.39 0.00 40.61 1.90
4580 4986 2.489619 GCCCTGCAGATCCCATTATTGA 60.490 50.000 17.39 0.00 0.00 2.57
4583 4989 4.650588 CCCTGCAGATCCCATTATTGAAAA 59.349 41.667 17.39 0.00 0.00 2.29
4627 5034 4.448732 TGCTAGACATGCAGTATAAATGCG 59.551 41.667 0.00 0.00 46.87 4.73
4667 5080 6.526526 TGATTGAATATCCCAAATGCCAATG 58.473 36.000 0.00 0.00 0.00 2.82
4745 5185 7.377398 TGTAGGAAATGTTTGATGGTGATTTG 58.623 34.615 0.00 0.00 0.00 2.32
4861 5301 5.650703 TGCCTTCTGGTAAAATTTACCTAGC 59.349 40.000 28.68 23.01 38.39 3.42
4879 5319 7.520451 ACCTAGCGTTCATATTCAGTATGTA 57.480 36.000 0.00 0.00 40.87 2.29
4967 5407 8.629986 CGCTTAATTTACTTTGTTGTGAGAATG 58.370 33.333 0.00 0.00 0.00 2.67
4988 5470 7.890655 AGAATGTTAAAATTCTGCCTTCTAGGT 59.109 33.333 18.35 0.00 43.65 3.08
4999 5481 5.594725 TCTGCCTTCTAGGTACAGAACATAG 59.405 44.000 0.00 0.00 42.57 2.23
5038 5520 7.553881 ACATTTACCAAACATCTCCTATTCG 57.446 36.000 0.00 0.00 0.00 3.34
5290 5772 0.036388 TGAACGGAGCCCAGACAATC 60.036 55.000 0.00 0.00 0.00 2.67
5393 5875 1.371183 CAAGACTCCAGCGACCCAA 59.629 57.895 0.00 0.00 0.00 4.12
5428 5931 1.201429 ATCCAACCAGAAGACCGGCT 61.201 55.000 0.00 0.00 0.00 5.52
5612 6115 2.850695 AGCTAGCTAGGGTGGTAGTT 57.149 50.000 17.69 0.00 39.44 2.24
5907 6412 5.076182 TGTGACTAGGCAATCATCCAAAAA 58.924 37.500 0.00 0.00 0.00 1.94
5990 6495 0.969917 AACACTTGCTGTTGCCACCA 60.970 50.000 0.00 0.00 41.87 4.17
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 49 1.339727 CCCAAACCCTAACCTTCGAGG 60.340 57.143 0.03 0.03 42.49 4.63
62 63 2.795329 TGATTTCTCTCCAGCCCAAAC 58.205 47.619 0.00 0.00 0.00 2.93
64 65 3.359033 CATTGATTTCTCTCCAGCCCAA 58.641 45.455 0.00 0.00 0.00 4.12
70 71 1.009078 CGCGCATTGATTTCTCTCCA 58.991 50.000 8.75 0.00 0.00 3.86
77 78 1.003545 CCGATTCTCGCGCATTGATTT 60.004 47.619 8.75 0.00 38.82 2.17
87 88 1.299773 CCTCAGAGCCGATTCTCGC 60.300 63.158 0.00 0.00 38.82 5.03
94 95 2.363018 CACCTCCCTCAGAGCCGA 60.363 66.667 0.00 0.00 41.74 5.54
95 96 3.465403 CCACCTCCCTCAGAGCCG 61.465 72.222 0.00 0.00 41.74 5.52
98 99 2.363018 TCGCCACCTCCCTCAGAG 60.363 66.667 0.00 0.00 42.83 3.35
101 102 1.125093 TTTTCTCGCCACCTCCCTCA 61.125 55.000 0.00 0.00 0.00 3.86
128 129 1.853319 CGGAGTCGCGGCAAATATC 59.147 57.895 15.58 0.00 0.00 1.63
164 165 1.421410 AAACGTCGATGCGGATCTGC 61.421 55.000 20.08 20.08 35.98 4.26
165 166 0.298707 CAAACGTCGATGCGGATCTG 59.701 55.000 15.31 8.66 35.98 2.90
199 200 2.125065 TGTGTGTCGGCGTGGTTT 60.125 55.556 6.85 0.00 0.00 3.27
210 211 2.024176 ACGTTTCTCTTGCTGTGTGT 57.976 45.000 0.00 0.00 0.00 3.72
211 212 3.181540 CGATACGTTTCTCTTGCTGTGTG 60.182 47.826 0.00 0.00 0.00 3.82
220 221 2.935481 GGACACCGATACGTTTCTCT 57.065 50.000 0.00 0.00 0.00 3.10
264 265 4.084888 GGCGCGTTTCTCCCGTTG 62.085 66.667 8.43 0.00 0.00 4.10
314 315 2.123726 GGTGGGTGGATGGATGCC 60.124 66.667 0.00 0.00 0.00 4.40
327 328 4.210331 AGAGGCTTTGCTATATTTGGTGG 58.790 43.478 0.00 0.00 0.00 4.61
350 369 3.928727 AATTTGCATATGGGCATCGAG 57.071 42.857 4.56 0.00 44.48 4.04
384 403 4.605967 CGTGTGCGTTGGTGCCAC 62.606 66.667 0.00 0.00 34.65 5.01
388 407 1.083489 ATTATCCGTGTGCGTTGGTG 58.917 50.000 0.00 0.00 36.15 4.17
389 408 1.083489 CATTATCCGTGTGCGTTGGT 58.917 50.000 0.00 0.00 36.15 3.67
390 409 1.083489 ACATTATCCGTGTGCGTTGG 58.917 50.000 0.00 0.00 36.15 3.77
395 414 2.080693 TCACCAACATTATCCGTGTGC 58.919 47.619 0.00 0.00 0.00 4.57
396 415 3.938334 TGATCACCAACATTATCCGTGTG 59.062 43.478 0.00 0.00 0.00 3.82
397 416 4.191544 CTGATCACCAACATTATCCGTGT 58.808 43.478 0.00 0.00 0.00 4.49
463 517 3.336820 CGGAGGAGGAGGAGGAGA 58.663 66.667 0.00 0.00 0.00 3.71
558 613 3.068691 CTCGGCCGACTCTTGGGA 61.069 66.667 27.28 0.00 0.00 4.37
828 902 2.058595 GCTAGGGTTCCTCTCGGCA 61.059 63.158 0.00 0.00 34.61 5.69
831 905 2.491022 CGGGCTAGGGTTCCTCTCG 61.491 68.421 0.00 0.00 34.61 4.04
832 906 2.798364 GCGGGCTAGGGTTCCTCTC 61.798 68.421 0.00 0.00 34.61 3.20
833 907 2.764547 GCGGGCTAGGGTTCCTCT 60.765 66.667 0.00 0.00 34.61 3.69
925 1015 2.256461 CCAAACCGAGCAAGCAGC 59.744 61.111 0.00 0.00 46.19 5.25
927 1017 3.294493 GGCCAAACCGAGCAAGCA 61.294 61.111 0.00 0.00 0.00 3.91
1063 1153 2.270527 GGAAGTGGAGGAGCAGGC 59.729 66.667 0.00 0.00 0.00 4.85
1067 1157 0.827368 CTAGTGGGAAGTGGAGGAGC 59.173 60.000 0.00 0.00 0.00 4.70
1068 1158 2.239681 ACTAGTGGGAAGTGGAGGAG 57.760 55.000 0.00 0.00 0.00 3.69
1071 1161 3.821033 CCAAAAACTAGTGGGAAGTGGAG 59.179 47.826 0.00 0.00 0.00 3.86
1072 1162 3.827722 CCAAAAACTAGTGGGAAGTGGA 58.172 45.455 0.00 0.00 0.00 4.02
1082 1175 1.276989 TCGGATCGCCCAAAAACTAGT 59.723 47.619 0.00 0.00 34.14 2.57
1085 1178 1.094785 CATCGGATCGCCCAAAAACT 58.905 50.000 0.00 0.00 34.14 2.66
1106 1199 3.325201 AATCGACCGGAACCTGCCC 62.325 63.158 9.46 0.00 0.00 5.36
1107 1200 1.814169 GAATCGACCGGAACCTGCC 60.814 63.158 9.46 0.00 0.00 4.85
1109 1202 0.460284 CAGGAATCGACCGGAACCTG 60.460 60.000 9.46 12.99 42.47 4.00
1115 1215 2.464459 GCAAGCAGGAATCGACCGG 61.464 63.158 0.00 0.00 34.73 5.28
1119 1219 4.502263 CTCGCAAGCAGGAATCGA 57.498 55.556 0.00 0.00 37.18 3.59
1145 1245 4.467084 TTCGCATCTGGGACCGCC 62.467 66.667 0.00 0.00 36.70 6.13
1148 1248 1.745489 GGTGTTCGCATCTGGGACC 60.745 63.158 0.00 0.00 36.70 4.46
1153 1265 1.452110 TGGATTGGTGTTCGCATCTG 58.548 50.000 0.00 0.00 0.00 2.90
1169 1281 3.642141 GGAAGCCTTAAATGGGAATGGA 58.358 45.455 0.00 0.00 0.00 3.41
1194 1306 1.748879 AATCCATCCACCCAACGCG 60.749 57.895 3.53 3.53 0.00 6.01
1195 1307 1.809207 CAATCCATCCACCCAACGC 59.191 57.895 0.00 0.00 0.00 4.84
1196 1308 1.666209 GGCAATCCATCCACCCAACG 61.666 60.000 0.00 0.00 0.00 4.10
1197 1309 1.329913 GGGCAATCCATCCACCCAAC 61.330 60.000 0.00 0.00 40.52 3.77
1198 1310 1.001503 GGGCAATCCATCCACCCAA 59.998 57.895 0.00 0.00 40.52 4.12
1199 1311 1.935400 AGGGCAATCCATCCACCCA 60.935 57.895 0.00 0.00 43.47 4.51
1200 1312 1.456331 CAGGGCAATCCATCCACCC 60.456 63.158 0.00 0.00 41.17 4.61
1202 1314 1.097547 CGACAGGGCAATCCATCCAC 61.098 60.000 0.00 0.00 38.24 4.02
1204 1316 0.109342 ATCGACAGGGCAATCCATCC 59.891 55.000 0.00 0.00 38.24 3.51
1208 1320 1.940613 GTGTAATCGACAGGGCAATCC 59.059 52.381 0.00 0.00 39.29 3.01
1209 1321 1.593006 CGTGTAATCGACAGGGCAATC 59.407 52.381 0.00 0.00 39.29 2.67
1210 1322 1.206132 TCGTGTAATCGACAGGGCAAT 59.794 47.619 0.00 0.00 42.93 3.56
1219 1331 0.171007 GGAACCGGTCGTGTAATCGA 59.829 55.000 8.04 0.00 37.51 3.59
1220 1332 0.109179 TGGAACCGGTCGTGTAATCG 60.109 55.000 8.04 0.00 0.00 3.34
1221 1333 1.636988 CTGGAACCGGTCGTGTAATC 58.363 55.000 8.04 0.00 0.00 1.75
1222 1334 0.248289 CCTGGAACCGGTCGTGTAAT 59.752 55.000 8.04 0.00 0.00 1.89
1223 1335 1.114722 ACCTGGAACCGGTCGTGTAA 61.115 55.000 8.04 0.00 0.00 2.41
1224 1336 1.531365 ACCTGGAACCGGTCGTGTA 60.531 57.895 8.04 0.00 0.00 2.90
1225 1337 2.841044 ACCTGGAACCGGTCGTGT 60.841 61.111 8.04 0.00 0.00 4.49
1226 1338 2.357034 CACCTGGAACCGGTCGTG 60.357 66.667 8.04 5.94 30.82 4.35
1227 1339 3.622826 CCACCTGGAACCGGTCGT 61.623 66.667 8.04 0.00 37.39 4.34
1228 1340 3.307906 TCCACCTGGAACCGGTCG 61.308 66.667 8.04 0.00 42.18 4.79
1236 1348 1.002624 GCACCGATTTCCACCTGGA 60.003 57.895 0.00 0.00 43.73 3.86
1237 1349 2.046285 GGCACCGATTTCCACCTGG 61.046 63.158 0.00 0.00 0.00 4.45
1238 1350 0.680921 ATGGCACCGATTTCCACCTG 60.681 55.000 0.00 0.00 31.94 4.00
1239 1351 0.039618 AATGGCACCGATTTCCACCT 59.960 50.000 0.00 0.00 31.94 4.00
1252 1364 1.077787 CAGGAACCCGCTAATGGCA 60.078 57.895 0.00 0.00 41.91 4.92
1254 1366 1.094785 CAACAGGAACCCGCTAATGG 58.905 55.000 0.00 0.00 0.00 3.16
1255 1367 0.451783 GCAACAGGAACCCGCTAATG 59.548 55.000 0.00 0.00 0.00 1.90
1258 1370 2.047655 CGCAACAGGAACCCGCTA 60.048 61.111 0.00 0.00 0.00 4.26
1264 1376 0.109964 TAATTGCGCGCAACAGGAAC 60.110 50.000 44.93 8.27 38.88 3.62
1268 1380 1.869132 GCCTAATTGCGCGCAACAG 60.869 57.895 44.93 38.42 38.88 3.16
1270 1382 1.154035 AAGCCTAATTGCGCGCAAC 60.154 52.632 44.93 31.67 38.88 4.17
1274 1386 1.869132 GCACAAGCCTAATTGCGCG 60.869 57.895 0.00 0.00 36.02 6.86
1292 1404 4.869861 ACAAGTTAAGCCTTTTGCAAACTG 59.130 37.500 12.39 7.07 43.53 3.16
1293 1405 5.084818 ACAAGTTAAGCCTTTTGCAAACT 57.915 34.783 12.39 2.89 45.15 2.66
1297 1409 4.826556 ACAAACAAGTTAAGCCTTTTGCA 58.173 34.783 0.00 0.00 44.83 4.08
1300 1412 5.689961 CGCATACAAACAAGTTAAGCCTTTT 59.310 36.000 0.00 0.00 0.00 2.27
1331 1443 1.687123 AGATCACCCCCGAAATAGACG 59.313 52.381 0.00 0.00 0.00 4.18
1334 1446 1.768870 ACCAGATCACCCCCGAAATAG 59.231 52.381 0.00 0.00 0.00 1.73
1335 1447 1.488812 CACCAGATCACCCCCGAAATA 59.511 52.381 0.00 0.00 0.00 1.40
1336 1448 0.255890 CACCAGATCACCCCCGAAAT 59.744 55.000 0.00 0.00 0.00 2.17
1338 1450 2.297895 CCACCAGATCACCCCCGAA 61.298 63.158 0.00 0.00 0.00 4.30
1339 1451 2.687200 CCACCAGATCACCCCCGA 60.687 66.667 0.00 0.00 0.00 5.14
1341 1453 0.611896 CAAACCACCAGATCACCCCC 60.612 60.000 0.00 0.00 0.00 5.40
1346 1464 3.826157 GACCAAATCAAACCACCAGATCA 59.174 43.478 0.00 0.00 0.00 2.92
1351 1469 1.678627 CGTGACCAAATCAAACCACCA 59.321 47.619 0.00 0.00 39.72 4.17
1352 1470 1.601914 GCGTGACCAAATCAAACCACC 60.602 52.381 0.00 0.00 39.72 4.61
1355 1473 1.606668 TGAGCGTGACCAAATCAAACC 59.393 47.619 0.00 0.00 39.72 3.27
1357 1475 2.293170 TGTGAGCGTGACCAAATCAAA 58.707 42.857 0.00 0.00 39.72 2.69
1372 1490 3.932545 CTAGGCCACTAGCTATGTGAG 57.067 52.381 18.98 12.55 40.21 3.51
1394 1512 2.287547 GCCGATTGAACACTTTGAAGCA 60.288 45.455 0.00 0.00 0.00 3.91
1397 1515 2.685388 TGTGCCGATTGAACACTTTGAA 59.315 40.909 7.38 0.00 35.33 2.69
1436 1554 2.737252 GGAGACCACTCTAAAAGCAACG 59.263 50.000 0.00 0.00 42.28 4.10
1635 1754 5.057843 AGCACTATCCAATTCATGATGGT 57.942 39.130 13.79 1.23 37.94 3.55
1702 1826 0.465705 ACACACACCACACTGAGAGG 59.534 55.000 0.00 0.00 0.00 3.69
1727 1851 2.520741 CACACCACACCCCAACCC 60.521 66.667 0.00 0.00 0.00 4.11
1728 1852 2.366153 ATCCACACCACACCCCAACC 62.366 60.000 0.00 0.00 0.00 3.77
1759 1883 3.659786 AGCGCAGAGTAACAACACATAA 58.340 40.909 11.47 0.00 0.00 1.90
1769 1893 4.106029 CTAAGTGGTTAGCGCAGAGTAA 57.894 45.455 11.47 0.00 29.44 2.24
1802 1926 5.842907 AGCAACTGAAACAAGGGTATTTTC 58.157 37.500 0.00 0.00 0.00 2.29
1807 1931 3.211045 GTGAGCAACTGAAACAAGGGTA 58.789 45.455 0.00 0.00 0.00 3.69
1815 1939 3.761218 TGTTTCTTGGTGAGCAACTGAAA 59.239 39.130 7.44 7.44 33.37 2.69
1826 1950 5.234757 CACCACAATCAAATGTTTCTTGGTG 59.765 40.000 14.34 14.34 36.59 4.17
1854 1984 9.632638 AGTACCAACAGATATGATGCTAAAATT 57.367 29.630 0.00 0.00 0.00 1.82
1901 2031 4.853924 ACAGTGGGTGATTTGAATTCAC 57.146 40.909 7.89 10.78 0.00 3.18
1918 2048 5.659440 AATGTTTCTTGGTCAACAACAGT 57.341 34.783 8.67 4.88 36.50 3.55
1994 2124 6.098124 TCAATCAAATGTTTCTTGGTCAACCT 59.902 34.615 0.10 0.00 36.82 3.50
1995 2125 6.279882 TCAATCAAATGTTTCTTGGTCAACC 58.720 36.000 0.00 0.00 0.00 3.77
2015 2148 7.278868 GCACTGTAGTATTAGTCTTGCTTCAAT 59.721 37.037 0.00 0.00 0.00 2.57
2048 2181 1.470098 CCAGAATGCCACTACAAGTGC 59.530 52.381 1.43 0.00 44.63 4.40
2050 2183 1.073763 TGCCAGAATGCCACTACAAGT 59.926 47.619 0.00 0.00 31.97 3.16
2121 2262 9.651913 AAGTTCATGTGACACACTTTTTATTTT 57.348 25.926 11.22 0.00 35.11 1.82
2123 2264 9.950680 CTAAGTTCATGTGACACACTTTTTATT 57.049 29.630 11.22 3.36 35.11 1.40
2124 2265 8.567948 CCTAAGTTCATGTGACACACTTTTTAT 58.432 33.333 11.22 0.00 35.11 1.40
2155 2296 2.880890 TCTCTTTTCCTTGACAAGCAGC 59.119 45.455 9.85 0.00 0.00 5.25
2156 2297 4.336433 TGTTCTCTTTTCCTTGACAAGCAG 59.664 41.667 9.85 3.15 0.00 4.24
2157 2298 4.269183 TGTTCTCTTTTCCTTGACAAGCA 58.731 39.130 9.85 0.00 0.00 3.91
2179 2320 6.126854 ACAGAAACAACTAGTCAACCCTAACT 60.127 38.462 0.00 0.00 0.00 2.24
2194 2335 7.061752 AGACGAATAGCAATACAGAAACAAC 57.938 36.000 0.00 0.00 0.00 3.32
2348 2489 2.035449 CAGACAGACCGGTGTGAACTAA 59.965 50.000 35.91 0.00 34.21 2.24
2351 2492 0.104304 ACAGACAGACCGGTGTGAAC 59.896 55.000 35.91 26.39 35.75 3.18
2538 2689 5.065988 CACCTAATAATGGCAGTTAAACGCT 59.934 40.000 0.00 0.00 0.00 5.07
2647 2798 3.853207 ACTAACAGTAGACCTTGTCCCA 58.147 45.455 0.00 0.00 32.18 4.37
2667 2818 7.251704 CCATGAAGTGGTCAGATACATAAAC 57.748 40.000 0.00 0.00 43.44 2.01
2701 2852 8.737175 CATAATGGATATGGTGAAAATCAGAGG 58.263 37.037 0.00 0.00 38.19 3.69
2842 2993 0.465460 GTGTCCCAGAAGTTGGTGCA 60.465 55.000 0.00 0.00 46.25 4.57
2901 3052 3.338249 GAGTTGCAAGACTAGCCATTGA 58.662 45.455 0.00 0.00 0.00 2.57
3068 3219 7.530010 TCTCATGAATTAGTTTTTGCACTAGC 58.470 34.615 0.00 0.00 42.57 3.42
3249 3400 0.323178 CACTTGGAGGCATGGAAGCT 60.323 55.000 0.00 0.00 34.17 3.74
3294 3445 4.922206 TGAAGACCTTAACATTGGCTGAT 58.078 39.130 0.00 0.00 0.00 2.90
3562 3894 7.087639 TGCCAATAATCAAAAGTAAACTTCGG 58.912 34.615 0.00 0.00 34.61 4.30
3563 3895 8.687824 ATGCCAATAATCAAAAGTAAACTTCG 57.312 30.769 0.00 0.00 34.61 3.79
3830 4164 1.752683 CACTCGTACACTAGGAGCCT 58.247 55.000 0.00 0.00 42.73 4.58
3950 4312 4.978083 ACCATAACGTACTACAGTCTGG 57.022 45.455 4.53 0.00 32.57 3.86
4056 4436 1.537135 GCTAGTCCTTTAGCAGCTCCG 60.537 57.143 0.00 0.00 44.30 4.63
4351 4753 4.261197 GCAAGTCAAAGGTTACCTGTTGAG 60.261 45.833 20.82 14.22 34.21 3.02
4381 4783 5.220931 GCAGAATTCTGGCTCGATAAAACAT 60.221 40.000 31.41 0.00 43.94 2.71
4417 4819 8.685427 TCACATGACAATGTTTTATATCCAAGG 58.315 33.333 0.00 0.00 44.94 3.61
4561 4967 5.595542 TCTTTTCAATAATGGGATCTGCAGG 59.404 40.000 15.13 0.00 0.00 4.85
4562 4968 6.320672 AGTCTTTTCAATAATGGGATCTGCAG 59.679 38.462 7.63 7.63 0.00 4.41
4563 4969 6.189859 AGTCTTTTCAATAATGGGATCTGCA 58.810 36.000 0.00 0.00 0.00 4.41
4583 4989 9.736023 CTAGCAAATTGAACAAAGTAAAAGTCT 57.264 29.630 0.00 0.00 0.00 3.24
4627 5034 2.681848 CAATCAGAGCCTGACATGGAAC 59.318 50.000 7.00 0.00 43.63 3.62
4667 5080 8.843733 CGTATACATAAATCATGCATTTCAAGC 58.156 33.333 0.00 0.00 38.29 4.01
4909 5349 9.793252 CAAAATGTTAGATGACCTGAAAATAGG 57.207 33.333 0.00 0.00 43.71 2.57
4967 5407 7.822822 TCTGTACCTAGAAGGCAGAATTTTAAC 59.177 37.037 0.00 0.00 39.63 2.01
5023 5505 3.879295 CACATGCCGAATAGGAGATGTTT 59.121 43.478 0.00 0.00 45.00 2.83
5028 5510 2.965147 TCATCACATGCCGAATAGGAGA 59.035 45.455 0.00 0.00 45.00 3.71
5230 5712 2.027561 CCTGGTATCAAGGACACGGAAA 60.028 50.000 0.00 0.00 0.00 3.13
5393 5875 1.617947 GGATCTGCCGGTCTTCTGGT 61.618 60.000 1.90 0.00 41.89 4.00
5428 5931 1.548357 GGTCTTGAGGCCTCTCTGCA 61.548 60.000 32.28 10.87 40.58 4.41
5577 6080 3.381908 GCTAGCTAACAGGCTCAGACTAA 59.618 47.826 7.70 0.00 42.97 2.24
5578 6081 2.952978 GCTAGCTAACAGGCTCAGACTA 59.047 50.000 7.70 0.00 42.97 2.59
5877 6382 4.960938 TGATTGCCTAGTCACATACATCC 58.039 43.478 0.00 0.00 0.00 3.51
5907 6412 7.393515 GGTTAAGAAACAAGATGGGTGATAGTT 59.606 37.037 0.00 0.00 37.34 2.24
5990 6495 7.334671 GCTTCTAAAGTTGGTATTGCTTCTACT 59.665 37.037 0.00 0.00 0.00 2.57
6293 6798 2.558359 TCAGTCAAGAGCTCGACAATCA 59.442 45.455 19.79 2.57 34.48 2.57


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

AutoCloner maintained by Alex Coulton.