Multiple sequence alignment - TraesCS3A01G317300

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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 TraesCS3A01G317300 chr3A 100.000 4787 0 0 1 4787 557946493 557951279 0.000000e+00 8841.0
1 TraesCS3A01G317300 chr3D 96.009 3007 76 10 1574 4549 427818587 427815594 0.000000e+00 4848.0
2 TraesCS3A01G317300 chr3D 90.383 1175 64 24 119 1258 427820485 427819325 0.000000e+00 1498.0
3 TraesCS3A01G317300 chr3D 93.889 180 7 2 4608 4787 427815576 427815401 7.900000e-68 268.0
4 TraesCS3A01G317300 chr3D 91.743 109 8 1 1370 1478 427819188 427819081 2.980000e-32 150.0
5 TraesCS3A01G317300 chr3B 94.141 3004 112 27 1574 4549 559342996 559340029 0.000000e+00 4514.0
6 TraesCS3A01G317300 chr3B 89.005 1146 94 17 119 1254 559344502 559343379 0.000000e+00 1389.0
7 TraesCS3A01G317300 chr3B 92.347 196 13 1 4567 4762 559340043 559339850 1.310000e-70 278.0
8 TraesCS3A01G317300 chr3B 92.169 166 11 2 1370 1533 559343253 559343088 2.880000e-57 233.0
9 TraesCS3A01G317300 chr3B 86.111 108 6 3 9 116 559344640 559344542 1.820000e-19 108.0
10 TraesCS3A01G317300 chr6B 84.577 402 51 6 122 515 716541144 716541542 5.810000e-104 388.0
11 TraesCS3A01G317300 chr6B 89.706 136 14 0 3286 3421 107771869 107771734 1.770000e-39 174.0
12 TraesCS3A01G317300 chr2B 83.529 425 57 8 122 537 800267667 800267247 7.520000e-103 385.0
13 TraesCS3A01G317300 chr2B 89.427 227 20 4 3264 3488 751842026 751841802 2.820000e-72 283.0
14 TraesCS3A01G317300 chr1D 83.981 412 54 7 122 525 254638007 254638414 7.520000e-103 385.0
15 TraesCS3A01G317300 chr5D 83.942 411 55 5 122 524 446678637 446679044 2.700000e-102 383.0
16 TraesCS3A01G317300 chr5D 83.411 428 52 10 122 541 72615398 72614982 3.500000e-101 379.0
17 TraesCS3A01G317300 chr4D 83.732 418 53 7 125 533 114426446 114426857 9.720000e-102 381.0
18 TraesCS3A01G317300 chr2D 83.102 432 60 10 120 540 112538391 112538820 9.720000e-102 381.0
19 TraesCS3A01G317300 chr2D 89.908 218 18 3 3271 3484 616635075 616634858 1.310000e-70 278.0
20 TraesCS3A01G317300 chr2A 89.450 218 21 2 3271 3487 746852175 746851959 1.700000e-69 274.0
21 TraesCS3A01G317300 chrUn 89.706 136 14 0 3286 3421 98211657 98211522 1.770000e-39 174.0
22 TraesCS3A01G317300 chr6A 89.706 136 14 0 3286 3421 53156881 53156746 1.770000e-39 174.0
23 TraesCS3A01G317300 chr5B 87.234 141 14 4 3285 3423 562048336 562048474 1.780000e-34 158.0
24 TraesCS3A01G317300 chr7D 80.769 104 16 2 17 116 64063805 64063908 1.430000e-10 78.7


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 TraesCS3A01G317300 chr3A 557946493 557951279 4786 False 8841.0 8841 100.0000 1 4787 1 chr3A.!!$F1 4786
1 TraesCS3A01G317300 chr3D 427815401 427820485 5084 True 1691.0 4848 93.0060 119 4787 4 chr3D.!!$R1 4668
2 TraesCS3A01G317300 chr3B 559339850 559344640 4790 True 1304.4 4514 90.7546 9 4762 5 chr3B.!!$R1 4753

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
74 75 0.034896 TGGTGAGAGGGCTTCGTTTC 59.965 55.0 0.00 0.00 0.0 2.78 F
1299 1377 0.179140 CGTTCGGAATTTGCCCATGG 60.179 55.0 4.14 4.14 0.0 3.66 F
1478 2040 0.522495 ATTATCGCGCGCCACAAAAC 60.522 50.0 27.95 0.00 0.0 2.43 F
2730 3369 0.607489 CCTCCACCAAGTTCCTGCTG 60.607 60.0 0.00 0.00 0.0 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1367 1445 0.105778 TGCACAATCGATATCCGCCA 59.894 50.000 0.00 0.00 38.37 5.69 R
3193 3832 2.676471 GCAAACCGGGATGTGCCT 60.676 61.111 6.32 0.00 36.66 4.75 R
3195 3834 2.700773 GGAGCAAACCGGGATGTGC 61.701 63.158 6.32 9.68 37.26 4.57 R
4434 5094 0.520404 CACTGCTCAGCATTGTGGTC 59.480 55.000 8.83 0.00 38.13 4.02 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
26 27 1.500474 CCCTCATCAGTGGCCTTAGA 58.500 55.000 3.32 0.00 0.00 2.10
36 37 3.335711 GCCTTAGAGCCATGGGGT 58.664 61.111 15.13 0.00 36.17 4.95
62 63 3.943137 ATCCCGGCCCTTGGTGAGA 62.943 63.158 0.00 0.00 0.00 3.27
63 64 4.101448 CCCGGCCCTTGGTGAGAG 62.101 72.222 0.00 0.00 0.00 3.20
64 65 4.101448 CCGGCCCTTGGTGAGAGG 62.101 72.222 0.00 0.00 0.00 3.69
69 70 1.301293 CCCTTGGTGAGAGGGCTTC 59.699 63.158 0.00 0.00 46.90 3.86
70 71 1.078848 CCTTGGTGAGAGGGCTTCG 60.079 63.158 0.00 0.00 0.00 3.79
71 72 1.674057 CTTGGTGAGAGGGCTTCGT 59.326 57.895 0.00 0.00 0.00 3.85
72 73 0.035458 CTTGGTGAGAGGGCTTCGTT 59.965 55.000 0.00 0.00 0.00 3.85
73 74 0.472471 TTGGTGAGAGGGCTTCGTTT 59.528 50.000 0.00 0.00 0.00 3.60
74 75 0.034896 TGGTGAGAGGGCTTCGTTTC 59.965 55.000 0.00 0.00 0.00 2.78
75 76 0.321996 GGTGAGAGGGCTTCGTTTCT 59.678 55.000 0.00 0.00 0.00 2.52
76 77 1.549170 GGTGAGAGGGCTTCGTTTCTA 59.451 52.381 0.00 0.00 0.00 2.10
77 78 2.417515 GGTGAGAGGGCTTCGTTTCTAG 60.418 54.545 0.00 0.00 0.00 2.43
117 118 3.710209 AGGATTTCTGTCCTGTTCAGG 57.290 47.619 12.20 12.20 46.76 3.86
124 162 0.468226 TGTCCTGTTCAGGCGTTCTT 59.532 50.000 13.44 0.00 0.00 2.52
200 239 2.358267 GTGTATCTCCGACGGATCTGTT 59.642 50.000 18.71 3.79 0.00 3.16
205 244 2.297880 TCTCCGACGGATCTGTTTTTGA 59.702 45.455 18.71 4.75 0.00 2.69
235 274 3.832730 GAATCAGTTCGTCGTTCGC 57.167 52.632 0.00 0.00 39.67 4.70
276 315 3.384789 TGTTGGATCCTTCCGATCTACAG 59.615 47.826 14.23 0.00 45.90 2.74
294 333 1.141019 GTACTCTTCATCGGCGGCA 59.859 57.895 10.53 0.00 0.00 5.69
319 363 1.909302 CTGTTCTGGTGGTCCTATGGT 59.091 52.381 0.00 0.00 34.23 3.55
321 365 1.628846 GTTCTGGTGGTCCTATGGTGT 59.371 52.381 0.00 0.00 34.23 4.16
354 398 3.678252 CGACTTCCCGACTGTCTACTAGA 60.678 52.174 6.21 0.00 0.00 2.43
392 436 1.700042 GGTGAAGGAGGGGCGATGAT 61.700 60.000 0.00 0.00 0.00 2.45
553 597 8.833976 AAAAACAAATCAATTTTAAGCCAACG 57.166 26.923 0.00 0.00 0.00 4.10
635 695 2.057922 CAGGTAGGCCCCATGACTTAT 58.942 52.381 0.00 0.00 34.57 1.73
636 696 3.248024 CAGGTAGGCCCCATGACTTATA 58.752 50.000 0.00 0.00 34.57 0.98
736 798 0.179181 GAACTGTCCGTGCATGCATG 60.179 55.000 29.36 29.36 0.00 4.06
1063 1131 1.066430 TCGAAGGCCTCACATGGTTAC 60.066 52.381 5.23 0.00 0.00 2.50
1089 1164 5.549619 CCCCTTCCTCATTTCATATACTCCT 59.450 44.000 0.00 0.00 0.00 3.69
1090 1165 6.730977 CCCCTTCCTCATTTCATATACTCCTA 59.269 42.308 0.00 0.00 0.00 2.94
1091 1166 7.404396 CCCCTTCCTCATTTCATATACTCCTAT 59.596 40.741 0.00 0.00 0.00 2.57
1155 1231 4.728409 TGCACTTGGAGATGCAGG 57.272 55.556 0.00 0.00 46.63 4.85
1160 1236 2.615912 GCACTTGGAGATGCAGGATTAC 59.384 50.000 0.00 0.00 41.65 1.89
1174 1250 6.182627 TGCAGGATTACTCTCAATGTTTGAT 58.817 36.000 0.00 0.00 39.30 2.57
1182 1258 6.174451 ACTCTCAATGTTTGATCGAACATG 57.826 37.500 32.57 25.96 46.53 3.21
1254 1332 1.526887 GTGGGTTCATATCATCACGCG 59.473 52.381 3.53 3.53 0.00 6.01
1258 1336 3.994392 GGGTTCATATCATCACGCGTATT 59.006 43.478 13.44 0.00 0.00 1.89
1259 1337 4.091509 GGGTTCATATCATCACGCGTATTC 59.908 45.833 13.44 0.00 0.00 1.75
1261 1339 5.164051 GGTTCATATCATCACGCGTATTCAG 60.164 44.000 13.44 0.00 0.00 3.02
1262 1340 5.371115 TCATATCATCACGCGTATTCAGA 57.629 39.130 13.44 4.74 0.00 3.27
1263 1341 5.154222 TCATATCATCACGCGTATTCAGAC 58.846 41.667 13.44 0.00 0.00 3.51
1264 1342 1.822581 TCATCACGCGTATTCAGACG 58.177 50.000 13.44 0.00 45.70 4.18
1275 1353 2.029838 ATTCAGACGCCAATGAGTCC 57.970 50.000 5.49 0.00 41.68 3.85
1276 1354 0.976641 TTCAGACGCCAATGAGTCCT 59.023 50.000 5.49 0.00 41.68 3.85
1277 1355 0.247460 TCAGACGCCAATGAGTCCTG 59.753 55.000 5.49 0.00 41.68 3.86
1278 1356 0.247460 CAGACGCCAATGAGTCCTGA 59.753 55.000 5.49 0.00 41.68 3.86
1280 1358 1.079503 GACGCCAATGAGTCCTGAAC 58.920 55.000 0.00 0.00 35.50 3.18
1281 1359 0.670546 ACGCCAATGAGTCCTGAACG 60.671 55.000 0.00 0.00 0.00 3.95
1282 1360 0.670546 CGCCAATGAGTCCTGAACGT 60.671 55.000 0.00 0.00 0.00 3.99
1283 1361 1.523758 GCCAATGAGTCCTGAACGTT 58.476 50.000 0.00 0.00 0.00 3.99
1284 1362 1.464997 GCCAATGAGTCCTGAACGTTC 59.535 52.381 21.42 21.42 0.00 3.95
1285 1363 1.726791 CCAATGAGTCCTGAACGTTCG 59.273 52.381 22.48 16.45 0.00 3.95
1286 1364 1.726791 CAATGAGTCCTGAACGTTCGG 59.273 52.381 26.94 26.94 0.00 4.30
1287 1365 1.254026 ATGAGTCCTGAACGTTCGGA 58.746 50.000 33.55 29.83 35.56 4.55
1288 1366 1.034356 TGAGTCCTGAACGTTCGGAA 58.966 50.000 33.55 15.79 35.56 4.30
1289 1367 1.616865 TGAGTCCTGAACGTTCGGAAT 59.383 47.619 33.55 30.80 35.56 3.01
1290 1368 2.036733 TGAGTCCTGAACGTTCGGAATT 59.963 45.455 33.55 24.45 35.56 2.17
1291 1369 3.064931 GAGTCCTGAACGTTCGGAATTT 58.935 45.455 33.55 22.53 35.56 1.82
1292 1370 2.806244 AGTCCTGAACGTTCGGAATTTG 59.194 45.455 33.55 18.73 35.56 2.32
1293 1371 1.533731 TCCTGAACGTTCGGAATTTGC 59.466 47.619 33.55 4.84 35.56 3.68
1294 1372 1.401018 CCTGAACGTTCGGAATTTGCC 60.401 52.381 33.55 4.09 35.56 4.52
1295 1373 0.594110 TGAACGTTCGGAATTTGCCC 59.406 50.000 22.48 0.00 0.00 5.36
1296 1374 0.594110 GAACGTTCGGAATTTGCCCA 59.406 50.000 13.36 0.00 0.00 5.36
1297 1375 1.201414 GAACGTTCGGAATTTGCCCAT 59.799 47.619 13.36 0.00 0.00 4.00
1298 1376 0.525761 ACGTTCGGAATTTGCCCATG 59.474 50.000 0.00 0.00 0.00 3.66
1299 1377 0.179140 CGTTCGGAATTTGCCCATGG 60.179 55.000 4.14 4.14 0.00 3.66
1324 1402 9.064804 GGCAAATCAAACTTCTTTTTCTTTTTG 57.935 29.630 0.00 0.00 0.00 2.44
1325 1403 8.577939 GCAAATCAAACTTCTTTTTCTTTTTGC 58.422 29.630 0.00 0.00 0.00 3.68
1326 1404 9.609950 CAAATCAAACTTCTTTTTCTTTTTGCA 57.390 25.926 0.00 0.00 0.00 4.08
1343 1421 1.774639 GCAATTTGCATATGCGAGGG 58.225 50.000 22.21 13.98 44.26 4.30
1344 1422 1.337703 GCAATTTGCATATGCGAGGGA 59.662 47.619 22.21 6.73 44.26 4.20
1348 1426 5.771469 CAATTTGCATATGCGAGGGATAAA 58.229 37.500 22.21 14.88 45.83 1.40
1411 1543 6.440328 AGAAAATGTAATGCCCATTGTAAGGT 59.560 34.615 3.85 0.00 33.01 3.50
1432 1564 4.082463 GGTAAGTTCCATTGGCGAATCAAA 60.082 41.667 0.00 0.00 0.00 2.69
1462 1594 5.296531 TCTTATGCATGCGCTGAAGAAATTA 59.703 36.000 14.09 0.00 36.93 1.40
1463 1595 4.579454 ATGCATGCGCTGAAGAAATTAT 57.421 36.364 14.09 0.00 39.64 1.28
1478 2040 0.522495 ATTATCGCGCGCCACAAAAC 60.522 50.000 27.95 0.00 0.00 2.43
1484 2046 1.009108 CGCGCCACAAAACACATCA 60.009 52.632 0.00 0.00 0.00 3.07
1485 2047 1.268113 CGCGCCACAAAACACATCAC 61.268 55.000 0.00 0.00 0.00 3.06
1512 2074 6.289064 AGGTTTATCCCATTCAGTATCGTTC 58.711 40.000 0.00 0.00 36.75 3.95
1513 2075 6.053005 GGTTTATCCCATTCAGTATCGTTCA 58.947 40.000 0.00 0.00 0.00 3.18
1514 2076 6.018180 GGTTTATCCCATTCAGTATCGTTCAC 60.018 42.308 0.00 0.00 0.00 3.18
1515 2077 3.159353 TCCCATTCAGTATCGTTCACG 57.841 47.619 0.00 0.00 41.45 4.35
1536 2100 3.425094 CGTCGATCTAAGATCCGATCCAC 60.425 52.174 4.67 7.75 34.04 4.02
1537 2101 3.502595 GTCGATCTAAGATCCGATCCACA 59.497 47.826 4.67 0.00 34.04 4.17
1538 2102 4.156922 GTCGATCTAAGATCCGATCCACAT 59.843 45.833 4.67 0.00 34.04 3.21
1539 2103 5.354513 GTCGATCTAAGATCCGATCCACATA 59.645 44.000 4.67 0.00 34.04 2.29
1540 2104 6.038825 GTCGATCTAAGATCCGATCCACATAT 59.961 42.308 4.67 0.00 34.04 1.78
1541 2105 7.226918 GTCGATCTAAGATCCGATCCACATATA 59.773 40.741 4.67 0.00 34.04 0.86
1542 2106 7.226918 TCGATCTAAGATCCGATCCACATATAC 59.773 40.741 4.67 0.00 34.04 1.47
1555 2119 4.598807 TCCACATATACTACTCCCTCCGTA 59.401 45.833 0.00 0.00 0.00 4.02
1556 2120 5.073554 TCCACATATACTACTCCCTCCGTAA 59.926 44.000 0.00 0.00 0.00 3.18
1557 2121 5.771666 CCACATATACTACTCCCTCCGTAAA 59.228 44.000 0.00 0.00 0.00 2.01
1558 2122 6.294397 CCACATATACTACTCCCTCCGTAAAC 60.294 46.154 0.00 0.00 0.00 2.01
1559 2123 6.489361 CACATATACTACTCCCTCCGTAAACT 59.511 42.308 0.00 0.00 0.00 2.66
1560 2124 6.714356 ACATATACTACTCCCTCCGTAAACTC 59.286 42.308 0.00 0.00 0.00 3.01
1562 2126 3.354467 ACTACTCCCTCCGTAAACTCAG 58.646 50.000 0.00 0.00 0.00 3.35
1564 2128 2.448453 ACTCCCTCCGTAAACTCAGAG 58.552 52.381 0.00 0.00 0.00 3.35
1565 2129 1.751924 CTCCCTCCGTAAACTCAGAGG 59.248 57.143 1.53 0.00 44.65 3.69
1586 2210 4.579753 AGGGAGTACTTACTTATCAGTCGC 59.420 45.833 0.00 0.00 36.50 5.19
1670 2295 5.448225 CGTGATCCATCCATCTTGACTTTTG 60.448 44.000 0.00 0.00 0.00 2.44
1839 2469 4.562390 GCGCGTTAATGTGACTAACTAAC 58.438 43.478 12.42 0.00 0.00 2.34
1879 2509 3.058160 GCATGCAGTTCCCGCTGT 61.058 61.111 14.21 0.00 38.65 4.40
2730 3369 0.607489 CCTCCACCAAGTTCCTGCTG 60.607 60.000 0.00 0.00 0.00 4.41
3193 3832 3.270027 CTCAAGGTCACAACAACTCACA 58.730 45.455 0.00 0.00 0.00 3.58
3195 3834 2.332063 AGGTCACAACAACTCACAGG 57.668 50.000 0.00 0.00 0.00 4.00
3201 3840 1.949525 ACAACAACTCACAGGCACATC 59.050 47.619 0.00 0.00 0.00 3.06
3241 3880 4.805192 GCATTTCATCACTGTCTCTCTCTC 59.195 45.833 0.00 0.00 0.00 3.20
3242 3881 5.394443 GCATTTCATCACTGTCTCTCTCTCT 60.394 44.000 0.00 0.00 0.00 3.10
3243 3882 5.895636 TTTCATCACTGTCTCTCTCTCTC 57.104 43.478 0.00 0.00 0.00 3.20
3244 3883 4.842531 TCATCACTGTCTCTCTCTCTCT 57.157 45.455 0.00 0.00 0.00 3.10
3260 3899 8.744652 TCTCTCTCTCTTACTTAACATTTGAGG 58.255 37.037 0.00 0.00 0.00 3.86
3591 4230 1.219124 CGAGGAGGTGGTGATGGTG 59.781 63.158 0.00 0.00 0.00 4.17
3800 4439 3.597728 GTAGAGAGAGGCGCCCCG 61.598 72.222 26.15 0.00 35.76 5.73
3809 4448 2.822701 GGCGCCCCGAAAAGTAGG 60.823 66.667 18.11 0.00 0.00 3.18
3830 4469 3.430929 GGGTATGAAATCTCAGCTCACGT 60.431 47.826 0.00 0.00 34.23 4.49
3847 4489 5.419760 TCACGTCAGAGTTATAGATTCGG 57.580 43.478 0.00 0.00 0.00 4.30
3980 4623 8.848474 ACTAGTTTTAGCACTTCACATACATT 57.152 30.769 0.00 0.00 0.00 2.71
4089 4732 0.268869 ACATGGATCTGGGGCCTAGA 59.731 55.000 22.72 22.72 0.00 2.43
4107 4750 5.809719 CTAGAAAAGGAATGAAGCACTCC 57.190 43.478 0.00 0.00 0.00 3.85
4206 4859 1.873591 ACAAAGACAAGACGCCATCAC 59.126 47.619 0.00 0.00 0.00 3.06
4210 4863 1.352156 GACAAGACGCCATCACCGAC 61.352 60.000 0.00 0.00 0.00 4.79
4263 4916 0.747255 GACCGCTCTATCAGAAGGCA 59.253 55.000 0.00 0.00 0.00 4.75
4272 4925 5.418524 GCTCTATCAGAAGGCAGATCTCATA 59.581 44.000 0.00 0.00 0.00 2.15
4302 4955 0.540454 CTGCCTCTTGCCTCATCTGA 59.460 55.000 0.00 0.00 40.16 3.27
4349 5002 6.348498 AGTACATGTATACTTGCTGCATTCA 58.652 36.000 16.47 0.00 30.99 2.57
4350 5003 5.746307 ACATGTATACTTGCTGCATTCAG 57.254 39.130 16.47 0.00 43.16 3.02
4353 5006 3.873361 TGTATACTTGCTGCATTCAGAGC 59.127 43.478 1.84 0.00 42.95 4.09
4434 5094 1.093972 TGCATAAACGCACCTGGATG 58.906 50.000 0.00 0.00 36.86 3.51
4545 5216 4.816048 ATGACTAGTCATCTACAGGGGA 57.184 45.455 28.95 3.20 46.57 4.81
4546 5217 4.171878 TGACTAGTCATCTACAGGGGAG 57.828 50.000 21.74 0.00 34.14 4.30
4547 5218 3.786450 TGACTAGTCATCTACAGGGGAGA 59.214 47.826 21.74 0.00 34.14 3.71
4548 5219 4.139038 GACTAGTCATCTACAGGGGAGAC 58.861 52.174 18.20 0.00 0.00 3.36
4549 5220 3.789274 ACTAGTCATCTACAGGGGAGACT 59.211 47.826 0.00 0.00 39.43 3.24
4550 5221 3.025322 AGTCATCTACAGGGGAGACTG 57.975 52.381 0.00 0.00 44.03 3.51
4551 5222 2.035632 GTCATCTACAGGGGAGACTGG 58.964 57.143 0.00 0.00 42.75 4.00
4552 5223 0.755686 CATCTACAGGGGAGACTGGC 59.244 60.000 0.00 0.00 42.75 4.85
4553 5224 0.639392 ATCTACAGGGGAGACTGGCT 59.361 55.000 0.00 0.00 42.75 4.75
4554 5225 0.033011 TCTACAGGGGAGACTGGCTC 60.033 60.000 0.59 0.59 42.75 4.70
4555 5226 0.324738 CTACAGGGGAGACTGGCTCA 60.325 60.000 13.47 0.00 45.81 4.26
4556 5227 0.116342 TACAGGGGAGACTGGCTCAA 59.884 55.000 13.47 0.00 45.81 3.02
4557 5228 0.768221 ACAGGGGAGACTGGCTCAAA 60.768 55.000 13.47 0.00 45.81 2.69
4558 5229 0.401738 CAGGGGAGACTGGCTCAAAA 59.598 55.000 13.47 0.00 45.81 2.44
4559 5230 1.149101 AGGGGAGACTGGCTCAAAAA 58.851 50.000 13.47 0.00 45.81 1.94
4560 5231 1.074566 AGGGGAGACTGGCTCAAAAAG 59.925 52.381 13.47 0.00 45.81 2.27
4561 5232 1.073923 GGGGAGACTGGCTCAAAAAGA 59.926 52.381 13.47 0.00 45.81 2.52
4562 5233 2.489073 GGGGAGACTGGCTCAAAAAGAA 60.489 50.000 13.47 0.00 45.81 2.52
4563 5234 3.222603 GGGAGACTGGCTCAAAAAGAAA 58.777 45.455 13.47 0.00 45.81 2.52
4564 5235 3.636764 GGGAGACTGGCTCAAAAAGAAAA 59.363 43.478 13.47 0.00 45.81 2.29
4565 5236 4.099419 GGGAGACTGGCTCAAAAAGAAAAA 59.901 41.667 13.47 0.00 45.81 1.94
4587 5258 1.994507 CTACAGAGGAGACGCGGGTG 61.995 65.000 10.96 0.00 34.13 4.61
4593 5264 2.029964 GAGACGCGGGTGTGGAAA 59.970 61.111 10.96 0.00 0.00 3.13
4604 5275 2.562298 GGGTGTGGAAAATGCTTCATCA 59.438 45.455 0.00 0.00 0.00 3.07
4622 5293 2.733956 TCAAACACCCAGAAAAGCAGT 58.266 42.857 0.00 0.00 0.00 4.40
4641 5312 4.901814 CAGTCATGCCAAATTAACTCGAG 58.098 43.478 11.84 11.84 0.00 4.04
4642 5313 4.631377 CAGTCATGCCAAATTAACTCGAGA 59.369 41.667 21.68 0.00 0.00 4.04
4670 5341 6.659824 ACAGAAATACTTACCCCCACAATAG 58.340 40.000 0.00 0.00 0.00 1.73
4672 5343 3.764237 ATACTTACCCCCACAATAGCG 57.236 47.619 0.00 0.00 0.00 4.26
4729 5400 5.048991 CCCACTGTAACACCAGAAACAATAC 60.049 44.000 0.00 0.00 36.30 1.89
4776 5447 8.134895 GTGAATGAGTTGTAGATAAGAGGAGAG 58.865 40.741 0.00 0.00 0.00 3.20
4777 5448 8.055790 TGAATGAGTTGTAGATAAGAGGAGAGA 58.944 37.037 0.00 0.00 0.00 3.10
4778 5449 9.077885 GAATGAGTTGTAGATAAGAGGAGAGAT 57.922 37.037 0.00 0.00 0.00 2.75
4779 5450 7.815840 TGAGTTGTAGATAAGAGGAGAGATG 57.184 40.000 0.00 0.00 0.00 2.90
4781 5452 8.224025 TGAGTTGTAGATAAGAGGAGAGATGAT 58.776 37.037 0.00 0.00 0.00 2.45
4782 5453 9.733556 GAGTTGTAGATAAGAGGAGAGATGATA 57.266 37.037 0.00 0.00 0.00 2.15
4784 5455 8.736244 GTTGTAGATAAGAGGAGAGATGATACC 58.264 40.741 0.00 0.00 0.00 2.73
4785 5456 7.406916 TGTAGATAAGAGGAGAGATGATACCC 58.593 42.308 0.00 0.00 0.00 3.69
4786 5457 6.476409 AGATAAGAGGAGAGATGATACCCA 57.524 41.667 0.00 0.00 0.00 4.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.181010 CACTGATGAGGGGCCCGG 62.181 72.222 18.95 7.02 0.00 5.73
2 3 4.181010 CCACTGATGAGGGGCCCG 62.181 72.222 18.95 3.77 35.35 6.13
7 8 1.415659 CTCTAAGGCCACTGATGAGGG 59.584 57.143 5.01 0.00 0.00 4.30
43 44 3.406595 CTCACCAAGGGCCGGGATC 62.407 68.421 21.92 0.00 0.00 3.36
62 63 2.567615 ACACATCTAGAAACGAAGCCCT 59.432 45.455 0.00 0.00 0.00 5.19
63 64 2.973945 ACACATCTAGAAACGAAGCCC 58.026 47.619 0.00 0.00 0.00 5.19
64 65 5.358298 AAAACACATCTAGAAACGAAGCC 57.642 39.130 0.00 0.00 0.00 4.35
65 66 6.427150 TCAAAAACACATCTAGAAACGAAGC 58.573 36.000 0.00 0.00 0.00 3.86
66 67 7.630924 ACTCAAAAACACATCTAGAAACGAAG 58.369 34.615 0.00 0.00 0.00 3.79
67 68 7.548196 ACTCAAAAACACATCTAGAAACGAA 57.452 32.000 0.00 0.00 0.00 3.85
69 70 8.523464 CAAAACTCAAAAACACATCTAGAAACG 58.477 33.333 0.00 0.00 0.00 3.60
70 71 9.353999 ACAAAACTCAAAAACACATCTAGAAAC 57.646 29.630 0.00 0.00 0.00 2.78
73 74 8.836413 CCTACAAAACTCAAAAACACATCTAGA 58.164 33.333 0.00 0.00 0.00 2.43
74 75 8.836413 TCCTACAAAACTCAAAAACACATCTAG 58.164 33.333 0.00 0.00 0.00 2.43
75 76 8.740123 TCCTACAAAACTCAAAAACACATCTA 57.260 30.769 0.00 0.00 0.00 1.98
76 77 7.639113 TCCTACAAAACTCAAAAACACATCT 57.361 32.000 0.00 0.00 0.00 2.90
77 78 8.871686 AATCCTACAAAACTCAAAAACACATC 57.128 30.769 0.00 0.00 0.00 3.06
124 162 4.835456 AATGGGGGCTAGGCGGGA 62.835 66.667 10.58 0.00 0.00 5.14
200 239 5.183713 ACTGATTCGAGCAAATCCATCAAAA 59.816 36.000 4.63 0.00 35.23 2.44
205 244 4.889832 GAACTGATTCGAGCAAATCCAT 57.110 40.909 4.63 0.00 35.23 3.41
235 274 2.289072 ACATGAAGACACACGAAGGAGG 60.289 50.000 0.00 0.00 0.00 4.30
276 315 0.872021 CTGCCGCCGATGAAGAGTAC 60.872 60.000 0.00 0.00 0.00 2.73
294 333 0.179018 GGACCACCAGAACAGCAACT 60.179 55.000 0.00 0.00 35.97 3.16
319 363 1.068748 GGAAGTCGTCGTGCTAAGACA 60.069 52.381 7.36 0.00 38.46 3.41
321 365 0.524862 GGGAAGTCGTCGTGCTAAGA 59.475 55.000 0.00 0.00 0.00 2.10
354 398 1.739667 GGAGCGGGCAAAACTTGTT 59.260 52.632 0.00 0.00 0.00 2.83
392 436 2.478335 GAACCGAAGATGCCCCACCA 62.478 60.000 0.00 0.00 0.00 4.17
476 520 7.260558 TCAAACATGGTAATACAACGAACAA 57.739 32.000 0.00 0.00 0.00 2.83
550 594 7.692705 GCGAATCTAGAAAGAAAATAAAGCGTT 59.307 33.333 0.00 0.00 34.73 4.84
553 597 7.429630 GTGGCGAATCTAGAAAGAAAATAAAGC 59.570 37.037 0.00 0.00 34.73 3.51
556 600 7.065803 CCAGTGGCGAATCTAGAAAGAAAATAA 59.934 37.037 0.00 0.00 34.73 1.40
566 610 1.688735 CCATCCAGTGGCGAATCTAGA 59.311 52.381 3.51 0.00 42.12 2.43
567 611 2.160822 CCATCCAGTGGCGAATCTAG 57.839 55.000 3.51 0.00 42.12 2.43
662 724 0.455633 CTTCGCAGCTTGCATGTTCC 60.456 55.000 8.52 0.00 45.36 3.62
672 734 1.407258 GAGAGGTATGACTTCGCAGCT 59.593 52.381 0.00 0.00 0.00 4.24
769 831 4.435436 CGTAGCTGAGGTGGCGCA 62.435 66.667 10.83 0.00 34.52 6.09
1089 1164 6.715718 CGAGGGAGAGGAGTAATCAACTAATA 59.284 42.308 0.00 0.00 39.07 0.98
1090 1165 5.536916 CGAGGGAGAGGAGTAATCAACTAAT 59.463 44.000 0.00 0.00 39.07 1.73
1091 1166 4.888239 CGAGGGAGAGGAGTAATCAACTAA 59.112 45.833 0.00 0.00 39.07 2.24
1145 1221 4.679373 TTGAGAGTAATCCTGCATCTCC 57.321 45.455 8.38 0.00 36.42 3.71
1155 1231 7.963981 TGTTCGATCAAACATTGAGAGTAATC 58.036 34.615 0.00 0.00 43.98 1.75
1160 1236 5.122869 ACCATGTTCGATCAAACATTGAGAG 59.877 40.000 15.44 2.97 45.29 3.20
1182 1258 6.431234 AGAGAAAGATTCACATGTACCAAACC 59.569 38.462 0.00 0.00 0.00 3.27
1231 1307 3.653344 CGTGATGATATGAACCCACGAT 58.347 45.455 0.00 0.00 46.87 3.73
1233 1309 1.526887 GCGTGATGATATGAACCCACG 59.473 52.381 0.00 0.00 46.71 4.94
1254 1332 2.866762 GGACTCATTGGCGTCTGAATAC 59.133 50.000 0.00 0.00 0.00 1.89
1258 1336 0.247460 CAGGACTCATTGGCGTCTGA 59.753 55.000 0.00 0.00 0.00 3.27
1259 1337 0.247460 TCAGGACTCATTGGCGTCTG 59.753 55.000 0.00 0.00 0.00 3.51
1261 1339 1.079503 GTTCAGGACTCATTGGCGTC 58.920 55.000 0.00 0.00 0.00 5.19
1262 1340 0.670546 CGTTCAGGACTCATTGGCGT 60.671 55.000 0.00 0.00 0.00 5.68
1263 1341 0.670546 ACGTTCAGGACTCATTGGCG 60.671 55.000 0.00 0.00 0.00 5.69
1264 1342 1.464997 GAACGTTCAGGACTCATTGGC 59.535 52.381 23.12 0.00 0.00 4.52
1265 1343 1.726791 CGAACGTTCAGGACTCATTGG 59.273 52.381 26.71 3.27 0.00 3.16
1267 1345 1.616865 TCCGAACGTTCAGGACTCATT 59.383 47.619 26.94 0.00 0.00 2.57
1268 1346 1.254026 TCCGAACGTTCAGGACTCAT 58.746 50.000 26.94 0.00 0.00 2.90
1269 1347 1.034356 TTCCGAACGTTCAGGACTCA 58.966 50.000 29.07 18.43 32.46 3.41
1270 1348 2.365408 ATTCCGAACGTTCAGGACTC 57.635 50.000 29.07 6.28 32.46 3.36
1271 1349 2.806244 CAAATTCCGAACGTTCAGGACT 59.194 45.455 29.07 23.94 32.46 3.85
1272 1350 2.664698 GCAAATTCCGAACGTTCAGGAC 60.665 50.000 29.07 18.93 32.46 3.85
1275 1353 1.401018 GGGCAAATTCCGAACGTTCAG 60.401 52.381 26.71 16.79 0.00 3.02
1276 1354 0.594110 GGGCAAATTCCGAACGTTCA 59.406 50.000 26.71 9.14 0.00 3.18
1277 1355 0.594110 TGGGCAAATTCCGAACGTTC 59.406 50.000 18.47 18.47 0.00 3.95
1278 1356 1.067915 CATGGGCAAATTCCGAACGTT 60.068 47.619 0.00 0.00 0.00 3.99
1280 1358 0.179140 CCATGGGCAAATTCCGAACG 60.179 55.000 2.85 0.00 0.00 3.95
1281 1359 3.739077 CCATGGGCAAATTCCGAAC 57.261 52.632 2.85 0.00 0.00 3.95
1293 1371 3.967332 AGAAGTTTGATTTGCCATGGG 57.033 42.857 15.13 0.00 0.00 4.00
1294 1372 6.484308 AGAAAAAGAAGTTTGATTTGCCATGG 59.516 34.615 7.63 7.63 0.00 3.66
1295 1373 7.486802 AGAAAAAGAAGTTTGATTTGCCATG 57.513 32.000 0.00 0.00 0.00 3.66
1296 1374 8.510243 AAAGAAAAAGAAGTTTGATTTGCCAT 57.490 26.923 0.00 0.00 0.00 4.40
1297 1375 7.920160 AAAGAAAAAGAAGTTTGATTTGCCA 57.080 28.000 0.00 0.00 0.00 4.92
1298 1376 9.064804 CAAAAAGAAAAAGAAGTTTGATTTGCC 57.935 29.630 0.00 0.00 0.00 4.52
1299 1377 8.577939 GCAAAAAGAAAAAGAAGTTTGATTTGC 58.422 29.630 0.00 0.00 37.17 3.68
1300 1378 9.609950 TGCAAAAAGAAAAAGAAGTTTGATTTG 57.390 25.926 0.00 0.00 0.00 2.32
1306 1384 8.914654 GCAAATTGCAAAAAGAAAAAGAAGTTT 58.085 25.926 13.73 0.00 44.26 2.66
1307 1385 8.451687 GCAAATTGCAAAAAGAAAAAGAAGTT 57.548 26.923 13.73 0.00 44.26 2.66
1324 1402 1.337703 TCCCTCGCATATGCAAATTGC 59.662 47.619 26.52 11.58 45.29 3.56
1325 1403 3.928727 ATCCCTCGCATATGCAAATTG 57.071 42.857 26.52 10.56 42.21 2.32
1326 1404 6.403866 TTTTATCCCTCGCATATGCAAATT 57.596 33.333 26.52 8.92 42.21 1.82
1348 1426 5.167845 CGCCATGCTTACCAACTAAATTTT 58.832 37.500 0.00 0.00 0.00 1.82
1351 1429 2.687935 CCGCCATGCTTACCAACTAAAT 59.312 45.455 0.00 0.00 0.00 1.40
1352 1430 2.088423 CCGCCATGCTTACCAACTAAA 58.912 47.619 0.00 0.00 0.00 1.85
1354 1432 0.906066 TCCGCCATGCTTACCAACTA 59.094 50.000 0.00 0.00 0.00 2.24
1355 1433 0.255890 ATCCGCCATGCTTACCAACT 59.744 50.000 0.00 0.00 0.00 3.16
1356 1434 1.961793 TATCCGCCATGCTTACCAAC 58.038 50.000 0.00 0.00 0.00 3.77
1359 1437 1.067142 TCGATATCCGCCATGCTTACC 60.067 52.381 0.00 0.00 38.37 2.85
1360 1438 2.363788 TCGATATCCGCCATGCTTAC 57.636 50.000 0.00 0.00 38.37 2.34
1361 1439 3.261580 CAATCGATATCCGCCATGCTTA 58.738 45.455 0.00 0.00 38.37 3.09
1362 1440 2.079158 CAATCGATATCCGCCATGCTT 58.921 47.619 0.00 0.00 38.37 3.91
1363 1441 1.002430 ACAATCGATATCCGCCATGCT 59.998 47.619 0.00 0.00 38.37 3.79
1365 1443 1.129251 GCACAATCGATATCCGCCATG 59.871 52.381 0.00 0.00 38.37 3.66
1366 1444 1.270785 TGCACAATCGATATCCGCCAT 60.271 47.619 0.00 0.00 38.37 4.40
1367 1445 0.105778 TGCACAATCGATATCCGCCA 59.894 50.000 0.00 0.00 38.37 5.69
1411 1543 5.163561 GGATTTGATTCGCCAATGGAACTTA 60.164 40.000 2.05 0.00 0.00 2.24
1432 1564 2.228103 CAGCGCATGCATAAGATTGGAT 59.772 45.455 19.57 0.00 46.23 3.41
1462 1594 3.655031 TGTTTTGTGGCGCGCGAT 61.655 55.556 37.18 0.00 0.00 4.58
1463 1595 4.599434 GTGTTTTGTGGCGCGCGA 62.599 61.111 37.18 20.50 0.00 5.87
1478 2040 6.772233 TGAATGGGATAAACCTATGTGATGTG 59.228 38.462 0.00 0.00 39.81 3.21
1484 2046 7.016268 ACGATACTGAATGGGATAAACCTATGT 59.984 37.037 0.00 0.00 39.81 2.29
1485 2047 7.386851 ACGATACTGAATGGGATAAACCTATG 58.613 38.462 0.00 0.00 39.81 2.23
1512 2074 3.425094 GGATCGGATCTTAGATCGACGTG 60.425 52.174 16.96 4.03 42.97 4.49
1513 2075 2.743126 GGATCGGATCTTAGATCGACGT 59.257 50.000 16.96 0.00 42.97 4.34
1514 2076 2.742589 TGGATCGGATCTTAGATCGACG 59.257 50.000 16.96 13.65 42.97 5.12
1515 2077 3.502595 TGTGGATCGGATCTTAGATCGAC 59.497 47.826 21.70 21.70 46.08 4.20
1536 2100 6.713903 TGAGTTTACGGAGGGAGTAGTATATG 59.286 42.308 0.00 0.00 0.00 1.78
1537 2101 6.845908 TGAGTTTACGGAGGGAGTAGTATAT 58.154 40.000 0.00 0.00 0.00 0.86
1538 2102 6.100279 TCTGAGTTTACGGAGGGAGTAGTATA 59.900 42.308 0.00 0.00 0.00 1.47
1539 2103 5.104193 TCTGAGTTTACGGAGGGAGTAGTAT 60.104 44.000 0.00 0.00 0.00 2.12
1540 2104 4.225942 TCTGAGTTTACGGAGGGAGTAGTA 59.774 45.833 0.00 0.00 0.00 1.82
1541 2105 3.009916 TCTGAGTTTACGGAGGGAGTAGT 59.990 47.826 0.00 0.00 0.00 2.73
1542 2106 3.618351 TCTGAGTTTACGGAGGGAGTAG 58.382 50.000 0.00 0.00 0.00 2.57
1559 2123 6.971340 ACTGATAAGTAAGTACTCCCTCTGA 58.029 40.000 0.00 0.00 34.99 3.27
1560 2124 6.017770 CGACTGATAAGTAAGTACTCCCTCTG 60.018 46.154 0.00 0.00 34.99 3.35
1562 2126 5.277925 GCGACTGATAAGTAAGTACTCCCTC 60.278 48.000 0.00 0.00 34.99 4.30
1564 2128 4.337555 TGCGACTGATAAGTAAGTACTCCC 59.662 45.833 0.00 0.00 34.99 4.30
1565 2129 5.066246 ACTGCGACTGATAAGTAAGTACTCC 59.934 44.000 0.00 0.00 34.99 3.85
1566 2130 6.121613 ACTGCGACTGATAAGTAAGTACTC 57.878 41.667 0.00 0.00 34.99 2.59
1568 2132 6.805271 TGAAACTGCGACTGATAAGTAAGTAC 59.195 38.462 0.00 0.00 0.00 2.73
1569 2133 6.916440 TGAAACTGCGACTGATAAGTAAGTA 58.084 36.000 0.00 0.00 0.00 2.24
1571 2135 6.586463 TCTTGAAACTGCGACTGATAAGTAAG 59.414 38.462 0.00 0.00 0.00 2.34
1572 2136 6.452242 TCTTGAAACTGCGACTGATAAGTAA 58.548 36.000 0.00 0.00 0.00 2.24
1578 2202 3.681897 GTGATCTTGAAACTGCGACTGAT 59.318 43.478 0.00 0.00 0.00 2.90
1586 2210 2.159920 CGTGCTCGTGATCTTGAAACTG 60.160 50.000 0.00 0.00 0.00 3.16
1608 2233 4.940654 TCTCATCAAATTTGCATCCGTGTA 59.059 37.500 13.54 0.00 0.00 2.90
1609 2234 3.758023 TCTCATCAAATTTGCATCCGTGT 59.242 39.130 13.54 0.00 0.00 4.49
1610 2235 4.359971 TCTCATCAAATTTGCATCCGTG 57.640 40.909 13.54 5.50 0.00 4.94
1611 2236 5.587388 ATTCTCATCAAATTTGCATCCGT 57.413 34.783 13.54 0.00 0.00 4.69
1612 2237 5.461078 GGAATTCTCATCAAATTTGCATCCG 59.539 40.000 13.54 1.34 0.00 4.18
1613 2238 6.342906 TGGAATTCTCATCAAATTTGCATCC 58.657 36.000 13.54 10.92 0.00 3.51
1614 2239 7.262772 TCTGGAATTCTCATCAAATTTGCATC 58.737 34.615 13.54 2.93 0.00 3.91
1670 2295 1.527844 GGTCATGCATCTCCTGGGC 60.528 63.158 0.00 0.00 0.00 5.36
1712 2338 4.828072 AAAGGACATGTCTCCTACTTCC 57.172 45.455 24.50 6.08 40.04 3.46
1839 2469 1.766069 TAATGACGATCGATGCACCG 58.234 50.000 24.34 0.00 0.00 4.94
2311 2950 4.838486 GAGCGCGTCCCTGTCGAG 62.838 72.222 8.43 0.00 0.00 4.04
2961 3600 4.390556 AGCTGGCTCCCGTCCTCT 62.391 66.667 0.00 0.00 0.00 3.69
3193 3832 2.676471 GCAAACCGGGATGTGCCT 60.676 61.111 6.32 0.00 36.66 4.75
3195 3834 2.700773 GGAGCAAACCGGGATGTGC 61.701 63.158 6.32 9.68 37.26 4.57
3241 3880 4.492570 CGCGCCTCAAATGTTAAGTAAGAG 60.493 45.833 0.00 0.00 0.00 2.85
3242 3881 3.369756 CGCGCCTCAAATGTTAAGTAAGA 59.630 43.478 0.00 0.00 0.00 2.10
3243 3882 3.124636 ACGCGCCTCAAATGTTAAGTAAG 59.875 43.478 5.73 0.00 0.00 2.34
3244 3883 3.068560 ACGCGCCTCAAATGTTAAGTAA 58.931 40.909 5.73 0.00 0.00 2.24
3703 4342 2.060980 GGATGCTCCACGACCTCCT 61.061 63.158 0.00 0.00 36.28 3.69
3783 4422 3.597728 CGGGGCGCCTCTCTCTAC 61.598 72.222 26.87 5.51 0.00 2.59
3800 4439 7.051000 AGCTGAGATTTCATACCCTACTTTTC 58.949 38.462 0.00 0.00 31.68 2.29
3809 4448 3.786635 ACGTGAGCTGAGATTTCATACC 58.213 45.455 0.00 0.00 31.68 2.73
3830 4469 3.827302 GGGAGCCGAATCTATAACTCTGA 59.173 47.826 0.00 0.00 0.00 3.27
3847 4489 6.710295 ACCTTTAAACAAATGAAAATGGGAGC 59.290 34.615 0.00 0.00 0.00 4.70
3910 4552 6.143438 GCTGAAGCATGTTATTGCATTACATC 59.857 38.462 6.03 3.34 45.23 3.06
4005 4648 4.440663 CCATCACTATTCTGACGAGCTTGA 60.441 45.833 8.31 0.00 0.00 3.02
4206 4859 1.414181 AGAATAGGATGTGCCAGTCGG 59.586 52.381 0.00 0.00 40.02 4.79
4210 4863 3.072038 TGGATGAGAATAGGATGTGCCAG 59.928 47.826 0.00 0.00 40.02 4.85
4263 4916 2.879002 CACGTGGTGCTATGAGATCT 57.121 50.000 7.95 0.00 0.00 2.75
4302 4955 0.538287 GTGGAAGTGGAAAGGCTGCT 60.538 55.000 0.00 0.00 0.00 4.24
4349 5002 2.300152 TCATTCTGAACTTGGTCGCTCT 59.700 45.455 0.00 0.00 0.00 4.09
4350 5003 2.688507 TCATTCTGAACTTGGTCGCTC 58.311 47.619 0.00 0.00 0.00 5.03
4353 5006 6.983307 AGAGATTATCATTCTGAACTTGGTCG 59.017 38.462 0.00 0.00 0.00 4.79
4434 5094 0.520404 CACTGCTCAGCATTGTGGTC 59.480 55.000 8.83 0.00 38.13 4.02
4562 5233 3.512680 CGCGTCTCCTCTGTAGATTTTT 58.487 45.455 0.00 0.00 0.00 1.94
4563 5234 2.159226 CCGCGTCTCCTCTGTAGATTTT 60.159 50.000 4.92 0.00 0.00 1.82
4564 5235 1.405821 CCGCGTCTCCTCTGTAGATTT 59.594 52.381 4.92 0.00 0.00 2.17
4565 5236 1.025812 CCGCGTCTCCTCTGTAGATT 58.974 55.000 4.92 0.00 0.00 2.40
4566 5237 0.820074 CCCGCGTCTCCTCTGTAGAT 60.820 60.000 4.92 0.00 0.00 1.98
4567 5238 1.451567 CCCGCGTCTCCTCTGTAGA 60.452 63.158 4.92 0.00 0.00 2.59
4568 5239 1.749638 ACCCGCGTCTCCTCTGTAG 60.750 63.158 4.92 0.00 0.00 2.74
4569 5240 2.044555 CACCCGCGTCTCCTCTGTA 61.045 63.158 4.92 0.00 0.00 2.74
4570 5241 3.374402 CACCCGCGTCTCCTCTGT 61.374 66.667 4.92 0.00 0.00 3.41
4571 5242 3.374402 ACACCCGCGTCTCCTCTG 61.374 66.667 4.92 0.00 0.00 3.35
4572 5243 3.374402 CACACCCGCGTCTCCTCT 61.374 66.667 4.92 0.00 0.00 3.69
4573 5244 4.436998 CCACACCCGCGTCTCCTC 62.437 72.222 4.92 0.00 0.00 3.71
4574 5245 4.988716 TCCACACCCGCGTCTCCT 62.989 66.667 4.92 0.00 0.00 3.69
4575 5246 2.999739 TTTTCCACACCCGCGTCTCC 63.000 60.000 4.92 0.00 0.00 3.71
4576 5247 0.953960 ATTTTCCACACCCGCGTCTC 60.954 55.000 4.92 0.00 0.00 3.36
4587 5258 4.448732 GGTGTTTGATGAAGCATTTTCCAC 59.551 41.667 0.00 0.00 0.00 4.02
4593 5264 3.499338 TCTGGGTGTTTGATGAAGCATT 58.501 40.909 0.00 0.00 0.00 3.56
4604 5275 2.733956 TGACTGCTTTTCTGGGTGTTT 58.266 42.857 0.00 0.00 0.00 2.83
4622 5293 6.701841 GTCTATCTCGAGTTAATTTGGCATGA 59.298 38.462 13.13 0.00 0.00 3.07
4641 5312 6.099269 TGTGGGGGTAAGTATTTCTGTCTATC 59.901 42.308 0.00 0.00 0.00 2.08
4642 5313 5.968167 TGTGGGGGTAAGTATTTCTGTCTAT 59.032 40.000 0.00 0.00 0.00 1.98
4670 5341 2.025359 GACGTCATAGGCAGCAACGC 62.025 60.000 11.55 0.00 36.85 4.84
4672 5343 1.438651 TTGACGTCATAGGCAGCAAC 58.561 50.000 20.80 0.00 0.00 4.17
4729 5400 5.580691 TCACATTATCTAACTTTGCCTGTCG 59.419 40.000 0.00 0.00 0.00 4.35


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

AutoCloner maintained by Alex Coulton.