Multiple sequence alignment - TraesCS4D01G191600

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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 TraesCS4D01G191600 chr4D 100.000 2561 0 0 1 2561 335037938 335035378 0.000000e+00 4730.0
1 TraesCS4D01G191600 chr4D 100.000 302 0 0 2881 3182 335035058 335034757 2.770000e-155 558.0
2 TraesCS4D01G191600 chr4D 87.597 129 8 5 320 445 334968153 334968030 3.310000e-30 143.0
3 TraesCS4D01G191600 chr4B 95.257 1539 47 9 694 2228 413111609 413110093 0.000000e+00 2414.0
4 TraesCS4D01G191600 chr4B 88.742 453 38 7 1 453 413113948 413113509 2.790000e-150 542.0
5 TraesCS4D01G191600 chr4B 90.541 222 12 2 2237 2457 413109988 413109775 5.190000e-73 285.0
6 TraesCS4D01G191600 chr4B 92.746 193 7 4 506 697 413113406 413113220 4.040000e-69 272.0
7 TraesCS4D01G191600 chr4B 92.623 122 9 0 3061 3182 413109628 413109507 3.260000e-40 176.0
8 TraesCS4D01G191600 chr4A 92.818 1643 75 9 604 2233 138170329 138171941 0.000000e+00 2340.0
9 TraesCS4D01G191600 chr4A 89.868 454 27 13 1 453 137968170 137968605 1.660000e-157 566.0
10 TraesCS4D01G191600 chr4A 92.704 233 10 2 2226 2457 138171969 138172195 2.370000e-86 329.0
11 TraesCS4D01G191600 chr4A 92.391 92 6 1 453 544 137968639 137968729 2.580000e-26 130.0
12 TraesCS4D01G191600 chr1B 93.578 109 4 2 313 419 665493109 665493002 3.290000e-35 159.0
13 TraesCS4D01G191600 chr1B 100.000 29 0 0 3121 3149 9567842 9567814 2.000000e-03 54.7
14 TraesCS4D01G191600 chr3D 93.269 104 3 4 327 430 19360218 19360317 1.980000e-32 150.0
15 TraesCS4D01G191600 chr3D 85.714 56 8 0 3088 3143 570827053 570826998 3.430000e-05 60.2
16 TraesCS4D01G191600 chr1D 94.792 96 3 2 319 412 202569098 202569003 7.110000e-32 148.0
17 TraesCS4D01G191600 chr1D 95.699 93 1 3 327 419 478271321 478271232 2.560000e-31 147.0
18 TraesCS4D01G191600 chr1A 95.745 94 1 3 319 412 256826586 256826496 7.110000e-32 148.0
19 TraesCS4D01G191600 chr7A 95.604 91 4 0 327 417 541439361 541439271 2.560000e-31 147.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G191600 chr4D 335034757 335037938 3181 True 2644.0 4730 100.0000 1 3182 2 chr4D.!!$R2 3181
1 TraesCS4D01G191600 chr4B 413109507 413113948 4441 True 737.8 2414 91.9818 1 3182 5 chr4B.!!$R1 3181
2 TraesCS4D01G191600 chr4A 138170329 138172195 1866 False 1334.5 2340 92.7610 604 2457 2 chr4A.!!$F2 1853
3 TraesCS4D01G191600 chr4A 137968170 137968729 559 False 348.0 566 91.1295 1 544 2 chr4A.!!$F1 543

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
401 403 0.033601 ATTCCCGGCTGGTGCAATTA 60.034 50.0 11.58 0.0 41.91 1.40 F
899 2574 0.249155 GAACAACTCACGGTCGTCCA 60.249 55.0 0.00 0.0 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1725 3411 0.323087 ACGGGCAGTACCATTTTCCC 60.323 55.0 0.00 0.0 42.05 3.97 R
2531 4315 0.178873 GTGGGCCCCTCATCCCTATA 60.179 60.0 22.27 0.0 43.04 1.31 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
72 73 1.101049 CGTGGCCGGGATAGCAAATT 61.101 55.000 2.18 0.00 0.00 1.82
73 74 1.812324 CGTGGCCGGGATAGCAAATTA 60.812 52.381 2.18 0.00 0.00 1.40
74 75 1.880027 GTGGCCGGGATAGCAAATTAG 59.120 52.381 2.18 0.00 0.00 1.73
75 76 1.493022 TGGCCGGGATAGCAAATTAGT 59.507 47.619 2.18 0.00 0.00 2.24
93 94 9.868277 CAAATTAGTACCAGAATAATTTTGCCA 57.132 29.630 6.92 0.00 37.12 4.92
102 103 9.218440 ACCAGAATAATTTTGCCATAGTTTTTG 57.782 29.630 0.00 0.00 0.00 2.44
106 107 8.825667 AATAATTTTGCCATAGTTTTTGACGT 57.174 26.923 0.00 0.00 0.00 4.34
112 113 5.837437 TGCCATAGTTTTTGACGTTCATTT 58.163 33.333 0.00 0.00 0.00 2.32
114 115 7.598278 TGCCATAGTTTTTGACGTTCATTTAT 58.402 30.769 0.00 0.00 0.00 1.40
157 158 7.439157 TTGTGTCAGATTCTTGATAAAGTGG 57.561 36.000 0.00 0.00 0.00 4.00
194 196 5.607119 TCTGTTACAATTTCCGCTTCTTC 57.393 39.130 0.00 0.00 0.00 2.87
213 215 1.134521 TCTGTTCCCGTCACCATATGC 60.135 52.381 0.00 0.00 0.00 3.14
247 249 6.044287 ACCCTGATGTGTGCCTGAATATATTA 59.956 38.462 0.00 0.00 0.00 0.98
248 250 7.114754 CCCTGATGTGTGCCTGAATATATTAT 58.885 38.462 0.00 0.00 0.00 1.28
260 262 6.094603 CCTGAATATATTATGTCCAGCAAGCC 59.905 42.308 0.00 0.00 0.00 4.35
261 263 6.541907 TGAATATATTATGTCCAGCAAGCCA 58.458 36.000 0.00 0.00 0.00 4.75
301 303 6.431543 AGGTCTGGAACGAGATGTAGTATATG 59.568 42.308 0.00 0.00 0.00 1.78
325 327 3.264947 TGTTGAGCATTTCTCTCATCCG 58.735 45.455 0.00 0.00 42.38 4.18
401 403 0.033601 ATTCCCGGCTGGTGCAATTA 60.034 50.000 11.58 0.00 41.91 1.40
407 409 2.929398 CCGGCTGGTGCAATTATTTTTC 59.071 45.455 2.29 0.00 41.91 2.29
428 430 9.893305 TTTTTCTTTCGTTTTCTATCATTCTCC 57.107 29.630 0.00 0.00 0.00 3.71
468 504 6.900568 CAAATCAGCTTTGGTTTGTGTTTA 57.099 33.333 4.02 0.00 40.52 2.01
469 505 6.936374 CAAATCAGCTTTGGTTTGTGTTTAG 58.064 36.000 4.02 0.00 40.52 1.85
570 631 3.754850 TGTGATCTTGCCACAATCTCTTG 59.245 43.478 0.00 0.00 41.07 3.02
571 632 3.128242 GTGATCTTGCCACAATCTCTTGG 59.872 47.826 0.00 0.00 36.64 3.61
572 633 2.957402 TCTTGCCACAATCTCTTGGT 57.043 45.000 0.00 0.00 36.64 3.67
574 635 3.565307 TCTTGCCACAATCTCTTGGTTT 58.435 40.909 0.00 0.00 36.64 3.27
575 636 4.724399 TCTTGCCACAATCTCTTGGTTTA 58.276 39.130 0.00 0.00 36.64 2.01
576 637 5.136828 TCTTGCCACAATCTCTTGGTTTAA 58.863 37.500 0.00 0.00 36.64 1.52
577 638 5.774690 TCTTGCCACAATCTCTTGGTTTAAT 59.225 36.000 0.00 0.00 36.64 1.40
578 639 5.389859 TGCCACAATCTCTTGGTTTAATG 57.610 39.130 0.00 0.00 36.64 1.90
642 703 4.103943 TCCACATGGGATTGGATTATCGAA 59.896 41.667 0.00 0.00 42.15 3.71
661 722 6.544038 TCGAAATGTATATGCATGTTCCTG 57.456 37.500 10.16 3.39 0.00 3.86
770 2445 5.468746 TCAAACAGAGGTAATTTCTTGGACG 59.531 40.000 0.00 0.00 0.00 4.79
771 2446 4.884668 ACAGAGGTAATTTCTTGGACGA 57.115 40.909 0.00 0.00 0.00 4.20
772 2447 5.223449 ACAGAGGTAATTTCTTGGACGAA 57.777 39.130 0.00 0.00 0.00 3.85
773 2448 5.238583 ACAGAGGTAATTTCTTGGACGAAG 58.761 41.667 0.00 0.00 0.00 3.79
774 2449 4.093556 CAGAGGTAATTTCTTGGACGAAGC 59.906 45.833 0.00 0.00 0.00 3.86
775 2450 4.020128 AGAGGTAATTTCTTGGACGAAGCT 60.020 41.667 0.00 0.00 0.00 3.74
776 2451 4.652822 AGGTAATTTCTTGGACGAAGCTT 58.347 39.130 0.00 0.00 0.00 3.74
777 2452 5.801380 AGGTAATTTCTTGGACGAAGCTTA 58.199 37.500 0.00 0.00 0.00 3.09
778 2453 6.415573 AGGTAATTTCTTGGACGAAGCTTAT 58.584 36.000 0.00 0.00 0.00 1.73
779 2454 7.562135 AGGTAATTTCTTGGACGAAGCTTATA 58.438 34.615 0.00 0.00 0.00 0.98
780 2455 8.211629 AGGTAATTTCTTGGACGAAGCTTATAT 58.788 33.333 0.00 0.00 0.00 0.86
781 2456 8.837389 GGTAATTTCTTGGACGAAGCTTATATT 58.163 33.333 0.00 0.00 0.00 1.28
792 2467 7.692705 GGACGAAGCTTATATTTTGTGAAACTC 59.307 37.037 0.00 0.00 38.04 3.01
899 2574 0.249155 GAACAACTCACGGTCGTCCA 60.249 55.000 0.00 0.00 0.00 4.02
1007 2693 8.591072 ACCCGTACTTGTAGTATATATGCAAAT 58.409 33.333 3.52 0.00 32.65 2.32
1029 2715 5.811399 TTAAACTTGGAAGACACACACAG 57.189 39.130 0.00 0.00 0.00 3.66
1033 2719 3.117888 ACTTGGAAGACACACACAGGAAT 60.118 43.478 0.00 0.00 0.00 3.01
1038 2724 3.393089 AGACACACACAGGAATCAGAC 57.607 47.619 0.00 0.00 0.00 3.51
1146 2832 1.306642 ACTCAGGCTACCTCGTCGTG 61.307 60.000 0.00 0.00 0.00 4.35
1303 2989 1.073722 ACCTACACCGACTCCGTCA 59.926 57.895 0.00 0.00 32.09 4.35
1578 3264 3.693578 ACTACCTCTACCGCAAGAAGTAC 59.306 47.826 0.00 0.00 43.02 2.73
2011 3697 4.803426 CGAGCGTGTGGGAGAGGC 62.803 72.222 0.00 0.00 0.00 4.70
2233 4014 8.367911 TCACAGAATCTTCAGTTAGTATTGTGT 58.632 33.333 0.00 0.00 35.25 3.72
2234 4015 8.651588 CACAGAATCTTCAGTTAGTATTGTGTC 58.348 37.037 0.00 0.00 33.35 3.67
2241 4022 9.185680 TCTTCAGTTAGTATTGTGTCATAGCTA 57.814 33.333 0.00 0.00 0.00 3.32
2267 4048 9.125026 AGGTAAATAAAATTGTGAGATGCTAGG 57.875 33.333 0.00 0.00 0.00 3.02
2269 4050 6.966534 AATAAAATTGTGAGATGCTAGGGG 57.033 37.500 0.00 0.00 0.00 4.79
2274 4055 3.116096 TGTGAGATGCTAGGGGTAAGT 57.884 47.619 0.00 0.00 0.00 2.24
2416 4200 3.131396 CCAACTCCACGACCTATTATGC 58.869 50.000 0.00 0.00 0.00 3.14
2417 4201 3.131396 CAACTCCACGACCTATTATGCC 58.869 50.000 0.00 0.00 0.00 4.40
2418 4202 2.394632 ACTCCACGACCTATTATGCCA 58.605 47.619 0.00 0.00 0.00 4.92
2419 4203 2.972713 ACTCCACGACCTATTATGCCAT 59.027 45.455 0.00 0.00 0.00 4.40
2420 4204 3.391296 ACTCCACGACCTATTATGCCATT 59.609 43.478 0.00 0.00 0.00 3.16
2421 4205 4.591498 ACTCCACGACCTATTATGCCATTA 59.409 41.667 0.00 0.00 0.00 1.90
2422 4206 5.248477 ACTCCACGACCTATTATGCCATTAT 59.752 40.000 0.00 0.00 0.00 1.28
2423 4207 5.487433 TCCACGACCTATTATGCCATTATG 58.513 41.667 0.00 0.00 0.00 1.90
2455 4239 1.638070 TGCAAACCCATGACTCCCATA 59.362 47.619 0.00 0.00 33.31 2.74
2456 4240 2.244510 TGCAAACCCATGACTCCCATAT 59.755 45.455 0.00 0.00 33.31 1.78
2457 4241 2.624838 GCAAACCCATGACTCCCATATG 59.375 50.000 0.00 0.00 33.31 1.78
2458 4242 3.688126 GCAAACCCATGACTCCCATATGA 60.688 47.826 3.65 0.00 33.31 2.15
2459 4243 4.139786 CAAACCCATGACTCCCATATGAG 58.860 47.826 3.65 0.00 38.37 2.90
2461 4245 4.213531 ACCCATGACTCCCATATGAGTA 57.786 45.455 3.65 0.00 45.41 2.59
2462 4246 4.566837 ACCCATGACTCCCATATGAGTAA 58.433 43.478 3.65 0.00 45.41 2.24
2463 4247 5.165652 ACCCATGACTCCCATATGAGTAAT 58.834 41.667 3.65 0.00 45.41 1.89
2465 4249 4.940046 CCATGACTCCCATATGAGTAATGC 59.060 45.833 13.24 0.00 46.51 3.56
2466 4250 5.280368 CCATGACTCCCATATGAGTAATGCT 60.280 44.000 13.24 0.00 46.51 3.79
2467 4251 5.219343 TGACTCCCATATGAGTAATGCTG 57.781 43.478 3.65 0.00 45.41 4.41
2468 4252 3.999663 GACTCCCATATGAGTAATGCTGC 59.000 47.826 3.65 0.00 45.41 5.25
2469 4253 3.392285 ACTCCCATATGAGTAATGCTGCA 59.608 43.478 4.13 4.13 43.65 4.41
2470 4254 4.042560 ACTCCCATATGAGTAATGCTGCAT 59.957 41.667 9.81 9.81 43.65 3.96
2471 4255 4.582869 TCCCATATGAGTAATGCTGCATC 58.417 43.478 16.55 4.73 0.00 3.91
2472 4256 4.287845 TCCCATATGAGTAATGCTGCATCT 59.712 41.667 16.55 9.61 0.00 2.90
2473 4257 5.484998 TCCCATATGAGTAATGCTGCATCTA 59.515 40.000 16.55 7.86 0.00 1.98
2474 4258 5.583854 CCCATATGAGTAATGCTGCATCTAC 59.416 44.000 16.55 17.96 0.00 2.59
2475 4259 5.290400 CCATATGAGTAATGCTGCATCTACG 59.710 44.000 16.55 6.86 0.00 3.51
2476 4260 4.590850 ATGAGTAATGCTGCATCTACGA 57.409 40.909 16.55 11.90 0.00 3.43
2477 4261 4.385358 TGAGTAATGCTGCATCTACGAA 57.615 40.909 16.55 10.63 0.00 3.85
2478 4262 4.363138 TGAGTAATGCTGCATCTACGAAG 58.637 43.478 16.55 0.00 0.00 3.79
2479 4263 3.722147 AGTAATGCTGCATCTACGAAGG 58.278 45.455 16.55 0.00 0.00 3.46
2480 4264 2.698855 AATGCTGCATCTACGAAGGT 57.301 45.000 16.55 0.00 0.00 3.50
2481 4265 2.698855 ATGCTGCATCTACGAAGGTT 57.301 45.000 9.81 0.00 0.00 3.50
2482 4266 2.472695 TGCTGCATCTACGAAGGTTT 57.527 45.000 0.00 0.00 0.00 3.27
2483 4267 3.603158 TGCTGCATCTACGAAGGTTTA 57.397 42.857 0.00 0.00 0.00 2.01
2484 4268 3.259064 TGCTGCATCTACGAAGGTTTAC 58.741 45.455 0.00 0.00 0.00 2.01
2485 4269 3.056107 TGCTGCATCTACGAAGGTTTACT 60.056 43.478 0.00 0.00 0.00 2.24
2486 4270 3.933332 GCTGCATCTACGAAGGTTTACTT 59.067 43.478 0.00 0.00 43.65 2.24
2487 4271 5.107133 GCTGCATCTACGAAGGTTTACTTA 58.893 41.667 0.00 0.00 40.21 2.24
2488 4272 5.579511 GCTGCATCTACGAAGGTTTACTTAA 59.420 40.000 0.00 0.00 40.21 1.85
2489 4273 6.091713 GCTGCATCTACGAAGGTTTACTTAAA 59.908 38.462 0.00 0.00 40.21 1.52
2490 4274 7.360607 GCTGCATCTACGAAGGTTTACTTAAAA 60.361 37.037 0.00 0.00 40.21 1.52
2491 4275 8.380743 TGCATCTACGAAGGTTTACTTAAAAA 57.619 30.769 0.00 0.00 40.21 1.94
2492 4276 8.284693 TGCATCTACGAAGGTTTACTTAAAAAC 58.715 33.333 0.00 0.00 40.21 2.43
2515 4299 9.912634 AAACTTTACATACAAATTGATGTGGAG 57.087 29.630 15.95 14.79 36.92 3.86
2516 4300 8.055279 ACTTTACATACAAATTGATGTGGAGG 57.945 34.615 15.95 10.17 36.92 4.30
2517 4301 7.888021 ACTTTACATACAAATTGATGTGGAGGA 59.112 33.333 15.95 0.44 36.92 3.71
2518 4302 8.821686 TTTACATACAAATTGATGTGGAGGAT 57.178 30.769 15.95 0.00 36.92 3.24
2519 4303 8.821686 TTACATACAAATTGATGTGGAGGATT 57.178 30.769 15.95 0.00 36.92 3.01
2520 4304 9.913310 TTACATACAAATTGATGTGGAGGATTA 57.087 29.630 15.95 0.00 36.92 1.75
2522 4306 8.853126 ACATACAAATTGATGTGGAGGATTATG 58.147 33.333 0.00 0.00 34.98 1.90
2523 4307 6.152932 ACAAATTGATGTGGAGGATTATGC 57.847 37.500 0.00 0.00 30.82 3.14
2524 4308 5.895534 ACAAATTGATGTGGAGGATTATGCT 59.104 36.000 0.00 0.00 30.82 3.79
2525 4309 6.381994 ACAAATTGATGTGGAGGATTATGCTT 59.618 34.615 0.00 0.00 30.82 3.91
2526 4310 6.401047 AATTGATGTGGAGGATTATGCTTG 57.599 37.500 0.00 0.00 0.00 4.01
2527 4311 4.776435 TGATGTGGAGGATTATGCTTGA 57.224 40.909 0.00 0.00 0.00 3.02
2528 4312 5.314718 TGATGTGGAGGATTATGCTTGAT 57.685 39.130 0.00 0.00 0.00 2.57
2529 4313 6.438186 TGATGTGGAGGATTATGCTTGATA 57.562 37.500 0.00 0.00 0.00 2.15
2530 4314 6.840527 TGATGTGGAGGATTATGCTTGATAA 58.159 36.000 0.00 0.00 0.00 1.75
2531 4315 7.464273 TGATGTGGAGGATTATGCTTGATAAT 58.536 34.615 0.00 0.00 39.56 1.28
2532 4316 8.605065 TGATGTGGAGGATTATGCTTGATAATA 58.395 33.333 0.00 0.00 37.37 0.98
2533 4317 9.624373 GATGTGGAGGATTATGCTTGATAATAT 57.376 33.333 0.00 0.00 37.37 1.28
2536 4320 9.553064 GTGGAGGATTATGCTTGATAATATAGG 57.447 37.037 0.00 0.00 37.37 2.57
2537 4321 8.717717 TGGAGGATTATGCTTGATAATATAGGG 58.282 37.037 0.00 0.00 37.37 3.53
2538 4322 8.938883 GGAGGATTATGCTTGATAATATAGGGA 58.061 37.037 0.00 0.00 37.37 4.20
2544 4328 6.566079 TGCTTGATAATATAGGGATGAGGG 57.434 41.667 0.00 0.00 0.00 4.30
2545 4329 5.429762 TGCTTGATAATATAGGGATGAGGGG 59.570 44.000 0.00 0.00 0.00 4.79
2546 4330 5.688766 GCTTGATAATATAGGGATGAGGGGC 60.689 48.000 0.00 0.00 0.00 5.80
2547 4331 4.307259 TGATAATATAGGGATGAGGGGCC 58.693 47.826 0.00 0.00 0.00 5.80
2548 4332 1.987080 AATATAGGGATGAGGGGCCC 58.013 55.000 17.12 17.12 45.04 5.80
2552 4336 3.493303 GGGATGAGGGGCCCACTC 61.493 72.222 27.72 26.06 44.07 3.51
2553 4337 3.493303 GGATGAGGGGCCCACTCC 61.493 72.222 27.72 22.38 34.06 3.85
2554 4338 3.493303 GATGAGGGGCCCACTCCC 61.493 72.222 27.72 19.26 45.80 4.30
2560 4344 3.503099 GGGCCCACTCCCACTTAA 58.497 61.111 19.95 0.00 45.82 1.85
2911 4695 5.845391 TTGGAAGGTCAAACTTTTGTAGG 57.155 39.130 1.75 0.00 39.18 3.18
2912 4696 4.862371 TGGAAGGTCAAACTTTTGTAGGT 58.138 39.130 1.75 0.00 39.18 3.08
2913 4697 4.885325 TGGAAGGTCAAACTTTTGTAGGTC 59.115 41.667 1.75 0.00 39.18 3.85
2914 4698 5.131067 GGAAGGTCAAACTTTTGTAGGTCT 58.869 41.667 1.75 0.00 39.18 3.85
2915 4699 6.126710 TGGAAGGTCAAACTTTTGTAGGTCTA 60.127 38.462 1.75 0.00 39.18 2.59
2916 4700 6.427242 GGAAGGTCAAACTTTTGTAGGTCTAG 59.573 42.308 1.75 0.00 39.18 2.43
2917 4701 5.306394 AGGTCAAACTTTTGTAGGTCTAGC 58.694 41.667 1.75 0.00 39.18 3.42
2918 4702 5.061179 GGTCAAACTTTTGTAGGTCTAGCA 58.939 41.667 1.75 0.00 39.18 3.49
2919 4703 5.705905 GGTCAAACTTTTGTAGGTCTAGCAT 59.294 40.000 1.75 0.00 39.18 3.79
2920 4704 6.206829 GGTCAAACTTTTGTAGGTCTAGCATT 59.793 38.462 1.75 0.00 39.18 3.56
2921 4705 7.389607 GGTCAAACTTTTGTAGGTCTAGCATTA 59.610 37.037 1.75 0.00 39.18 1.90
2922 4706 8.947115 GTCAAACTTTTGTAGGTCTAGCATTAT 58.053 33.333 1.75 0.00 39.18 1.28
2923 4707 9.515226 TCAAACTTTTGTAGGTCTAGCATTATT 57.485 29.630 1.75 0.00 39.18 1.40
2924 4708 9.559958 CAAACTTTTGTAGGTCTAGCATTATTG 57.440 33.333 0.00 0.00 33.59 1.90
2941 4725 7.928103 GCATTATTGCTCTCATATCTATTGGG 58.072 38.462 2.33 0.00 45.77 4.12
2945 4729 3.906218 TGCTCTCATATCTATTGGGCACT 59.094 43.478 0.00 0.00 0.00 4.40
2946 4730 4.020751 TGCTCTCATATCTATTGGGCACTC 60.021 45.833 0.00 0.00 0.00 3.51
2947 4731 4.020751 GCTCTCATATCTATTGGGCACTCA 60.021 45.833 0.00 0.00 0.00 3.41
2948 4732 5.512060 GCTCTCATATCTATTGGGCACTCAA 60.512 44.000 0.00 0.00 0.00 3.02
2949 4733 6.106648 TCTCATATCTATTGGGCACTCAAG 57.893 41.667 0.00 0.00 0.00 3.02
2950 4734 4.645535 TCATATCTATTGGGCACTCAAGC 58.354 43.478 0.00 0.00 0.00 4.01
2951 4735 1.959042 ATCTATTGGGCACTCAAGCG 58.041 50.000 0.00 0.00 34.64 4.68
2952 4736 0.107703 TCTATTGGGCACTCAAGCGG 60.108 55.000 0.00 0.00 34.64 5.52
2953 4737 1.077787 TATTGGGCACTCAAGCGGG 60.078 57.895 0.00 0.00 34.64 6.13
2954 4738 1.847798 TATTGGGCACTCAAGCGGGT 61.848 55.000 0.00 0.00 34.64 5.28
2955 4739 2.713531 ATTGGGCACTCAAGCGGGTT 62.714 55.000 0.00 0.00 34.64 4.11
2956 4740 2.597510 GGGCACTCAAGCGGGTTT 60.598 61.111 0.00 0.00 34.64 3.27
2957 4741 2.644992 GGCACTCAAGCGGGTTTG 59.355 61.111 0.00 0.00 34.64 2.93
2963 4747 2.032030 CACTCAAGCGGGTTTGTAACAG 60.032 50.000 0.00 0.00 0.00 3.16
2974 4758 5.704053 CGGGTTTGTAACAGGTAGAAGATTT 59.296 40.000 0.00 0.00 0.00 2.17
2975 4759 6.206048 CGGGTTTGTAACAGGTAGAAGATTTT 59.794 38.462 0.00 0.00 0.00 1.82
2977 4761 7.229907 GGGTTTGTAACAGGTAGAAGATTTTCA 59.770 37.037 0.00 0.00 35.70 2.69
2979 4763 8.837389 GTTTGTAACAGGTAGAAGATTTTCACT 58.163 33.333 0.00 0.00 35.70 3.41
2980 4764 8.603242 TTGTAACAGGTAGAAGATTTTCACTC 57.397 34.615 0.00 0.00 35.70 3.51
2981 4765 7.732025 TGTAACAGGTAGAAGATTTTCACTCA 58.268 34.615 0.00 0.00 35.70 3.41
2982 4766 8.208224 TGTAACAGGTAGAAGATTTTCACTCAA 58.792 33.333 0.00 0.00 35.70 3.02
2983 4767 7.497925 AACAGGTAGAAGATTTTCACTCAAC 57.502 36.000 0.00 0.00 35.70 3.18
2984 4768 6.831976 ACAGGTAGAAGATTTTCACTCAACT 58.168 36.000 0.00 0.00 35.70 3.16
2986 4770 7.873505 ACAGGTAGAAGATTTTCACTCAACTAC 59.126 37.037 0.00 0.00 35.70 2.73
2987 4771 7.332182 CAGGTAGAAGATTTTCACTCAACTACC 59.668 40.741 0.00 0.00 44.07 3.18
2997 4784 5.416271 TCACTCAACTACCAAGGTAATCC 57.584 43.478 0.00 0.00 0.00 3.01
3002 4789 4.785914 TCAACTACCAAGGTAATCCATCCA 59.214 41.667 0.00 0.00 35.89 3.41
3008 4795 4.147321 CCAAGGTAATCCATCCATGAAGG 58.853 47.826 0.00 0.00 35.73 3.46
3030 4817 4.142138 GGTCTTCACGAGTCCAATGATAGT 60.142 45.833 0.00 0.00 34.19 2.12
3048 4835 3.155093 AGTTTGTCTTGCTTGTTGCTG 57.845 42.857 0.00 0.00 43.37 4.41
3049 4836 1.589779 GTTTGTCTTGCTTGTTGCTGC 59.410 47.619 0.00 0.00 43.37 5.25
3058 4845 1.529826 GCTTGTTGCTGCGTGTATAGC 60.530 52.381 0.00 0.00 40.29 2.97
3059 4846 1.062587 CTTGTTGCTGCGTGTATAGCC 59.937 52.381 0.00 0.00 39.15 3.93
3072 4859 5.653507 CGTGTATAGCCTAACAACCAGTTA 58.346 41.667 0.00 0.00 41.64 2.24
3103 4920 3.064207 TGTAAGAGTTTGTAGCAAGCGG 58.936 45.455 0.00 0.00 0.00 5.52
3114 4931 3.189702 TGTAGCAAGCGGTAATTGTTTCC 59.810 43.478 0.00 0.00 0.00 3.13
3115 4932 1.544246 AGCAAGCGGTAATTGTTTCCC 59.456 47.619 0.00 0.00 0.00 3.97
3142 4959 7.501559 AGTGAGAAACCAAGATATCAATCCATG 59.498 37.037 5.32 0.00 31.98 3.66
3143 4960 7.500227 GTGAGAAACCAAGATATCAATCCATGA 59.500 37.037 5.32 0.00 43.67 3.07
3146 4963 7.504911 AGAAACCAAGATATCAATCCATGAAGG 59.495 37.037 5.32 0.00 42.54 3.46
3158 4975 8.421249 TCAATCCATGAAGGTACAAGATTTTT 57.579 30.769 0.00 0.00 39.02 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
58 59 4.039973 TCTGGTACTAATTTGCTATCCCGG 59.960 45.833 0.00 0.00 0.00 5.73
72 73 9.914834 AACTATGGCAAAATTATTCTGGTACTA 57.085 29.630 0.00 0.00 0.00 1.82
73 74 8.823220 AACTATGGCAAAATTATTCTGGTACT 57.177 30.769 0.00 0.00 0.00 2.73
74 75 9.869757 AAAACTATGGCAAAATTATTCTGGTAC 57.130 29.630 0.00 0.00 0.00 3.34
102 103 7.360101 GGCCATACAGTATGATAAATGAACGTC 60.360 40.741 20.55 0.00 39.69 4.34
104 105 6.650807 AGGCCATACAGTATGATAAATGAACG 59.349 38.462 20.55 2.61 39.69 3.95
106 107 8.439971 AGAAGGCCATACAGTATGATAAATGAA 58.560 33.333 20.55 0.00 39.69 2.57
112 113 6.992123 CACAAAGAAGGCCATACAGTATGATA 59.008 38.462 20.55 0.00 39.69 2.15
114 115 5.185454 CACAAAGAAGGCCATACAGTATGA 58.815 41.667 20.55 0.00 39.69 2.15
157 158 9.696917 AATTGTAACAGAACCAAAATCTCATTC 57.303 29.630 0.00 0.00 0.00 2.67
194 196 1.134401 AGCATATGGTGACGGGAACAG 60.134 52.381 6.62 0.00 0.00 3.16
213 215 2.810274 CACACATCAGGGTTCTTCACAG 59.190 50.000 0.00 0.00 0.00 3.66
247 249 1.538687 GCCTTTGGCTTGCTGGACAT 61.539 55.000 0.73 0.00 46.69 3.06
248 250 2.202395 GCCTTTGGCTTGCTGGACA 61.202 57.895 0.73 0.00 46.69 4.02
260 262 1.368579 CCTTTGCACCCAGCCTTTG 59.631 57.895 0.00 0.00 44.83 2.77
261 263 1.075301 ACCTTTGCACCCAGCCTTT 60.075 52.632 0.00 0.00 44.83 3.11
273 275 3.045601 ACATCTCGTTCCAGACCTTTG 57.954 47.619 0.00 0.00 0.00 2.77
301 303 5.397326 GGATGAGAGAAATGCTCAACAAAC 58.603 41.667 0.00 0.00 46.45 2.93
325 327 3.822607 CACTAGACCACTGGTGCTC 57.177 57.895 5.10 0.00 45.52 4.26
407 409 7.413438 CCACAGGAGAATGATAGAAAACGAAAG 60.413 40.741 0.00 0.00 0.00 2.62
468 504 5.977129 CGTAAAAACAGAAAAATGGACTGCT 59.023 36.000 0.00 0.00 35.38 4.24
469 505 5.746721 ACGTAAAAACAGAAAAATGGACTGC 59.253 36.000 0.00 0.00 35.38 4.40
529 590 5.178061 TCACACATTACAGTGATGACCATC 58.822 41.667 12.15 3.17 42.05 3.51
577 638 9.541143 GTTGACTTTTATTTCCTGAAATTTCCA 57.459 29.630 15.48 3.32 40.99 3.53
578 639 8.699749 CGTTGACTTTTATTTCCTGAAATTTCC 58.300 33.333 15.48 0.00 40.99 3.13
773 2448 9.846248 ACATTCAGAGTTTCACAAAATATAAGC 57.154 29.630 0.00 0.00 0.00 3.09
776 2451 9.624697 GCAACATTCAGAGTTTCACAAAATATA 57.375 29.630 0.00 0.00 0.00 0.86
777 2452 8.143193 TGCAACATTCAGAGTTTCACAAAATAT 58.857 29.630 0.00 0.00 0.00 1.28
778 2453 7.487484 TGCAACATTCAGAGTTTCACAAAATA 58.513 30.769 0.00 0.00 0.00 1.40
779 2454 6.339730 TGCAACATTCAGAGTTTCACAAAAT 58.660 32.000 0.00 0.00 0.00 1.82
780 2455 5.718146 TGCAACATTCAGAGTTTCACAAAA 58.282 33.333 0.00 0.00 0.00 2.44
781 2456 5.321959 TGCAACATTCAGAGTTTCACAAA 57.678 34.783 0.00 0.00 0.00 2.83
782 2457 4.979943 TGCAACATTCAGAGTTTCACAA 57.020 36.364 0.00 0.00 0.00 3.33
783 2458 4.979943 TTGCAACATTCAGAGTTTCACA 57.020 36.364 0.00 0.00 0.00 3.58
792 2467 4.418013 TTGGACGTATTGCAACATTCAG 57.582 40.909 0.00 0.00 29.00 3.02
1007 2693 4.638421 CCTGTGTGTGTCTTCCAAGTTTAA 59.362 41.667 0.00 0.00 0.00 1.52
1016 2702 3.743396 GTCTGATTCCTGTGTGTGTCTTC 59.257 47.826 0.00 0.00 0.00 2.87
1018 2704 2.700371 TGTCTGATTCCTGTGTGTGTCT 59.300 45.455 0.00 0.00 0.00 3.41
1029 2715 2.948315 GGCTCCTTGATTGTCTGATTCC 59.052 50.000 0.00 0.00 0.00 3.01
1033 2719 2.306805 ACATGGCTCCTTGATTGTCTGA 59.693 45.455 8.56 0.00 0.00 3.27
1038 2724 1.331756 GCGTACATGGCTCCTTGATTG 59.668 52.381 8.56 0.08 0.00 2.67
1116 2802 2.434359 CCTGAGTTTCGGCCGTCC 60.434 66.667 27.15 14.03 0.00 4.79
1125 2811 0.526662 CGACGAGGTAGCCTGAGTTT 59.473 55.000 0.00 0.00 31.76 2.66
1131 2817 1.313812 CCTTCACGACGAGGTAGCCT 61.314 60.000 0.00 0.00 36.03 4.58
1166 2852 4.738345 AGCACGTCTCGTCGTCGC 62.738 66.667 0.00 12.27 42.27 5.19
1303 2989 3.782443 GGGGACGGGCACGAAGAT 61.782 66.667 19.19 0.00 44.60 2.40
1470 3156 3.417275 CTGCTGGTAGAGGTCGGCG 62.417 68.421 0.00 0.00 38.05 6.46
1725 3411 0.323087 ACGGGCAGTACCATTTTCCC 60.323 55.000 0.00 0.00 42.05 3.97
1774 3460 2.415608 GGTCCATCTGCTCCGACGA 61.416 63.158 0.00 0.00 0.00 4.20
1836 3522 1.478510 CCGTTATCTGTCTGCTGGACT 59.521 52.381 10.66 0.00 44.74 3.85
1842 3528 3.376540 CTTAGAGCCGTTATCTGTCTGC 58.623 50.000 0.00 0.00 0.00 4.26
1843 3529 3.067461 AGCTTAGAGCCGTTATCTGTCTG 59.933 47.826 0.00 0.00 43.77 3.51
1845 3531 3.181485 ACAGCTTAGAGCCGTTATCTGTC 60.181 47.826 0.00 0.00 43.77 3.51
1848 3534 3.952323 TGTACAGCTTAGAGCCGTTATCT 59.048 43.478 0.00 0.00 43.77 1.98
1849 3535 4.291783 CTGTACAGCTTAGAGCCGTTATC 58.708 47.826 10.54 0.00 43.77 1.75
1851 3537 3.777465 CTGTACAGCTTAGAGCCGTTA 57.223 47.619 10.54 0.00 43.77 3.18
1875 3561 3.197790 CCGCCGATGAGCACCTTG 61.198 66.667 0.00 0.00 0.00 3.61
2011 3697 1.949847 CTGTACTCCTCCCACCGCAG 61.950 65.000 0.00 0.00 0.00 5.18
2241 4022 9.125026 CCTAGCATCTCACAATTTTATTTACCT 57.875 33.333 0.00 0.00 0.00 3.08
2267 4048 6.321435 AGCAGCAAAATCCTTAATACTTACCC 59.679 38.462 0.00 0.00 0.00 3.69
2269 4050 7.126398 CGAGCAGCAAAATCCTTAATACTTAC 58.874 38.462 0.00 0.00 0.00 2.34
2274 4055 5.064707 GTGACGAGCAGCAAAATCCTTAATA 59.935 40.000 0.00 0.00 0.00 0.98
2377 4159 3.581024 TGGTGAAGCATTGCTCAAATC 57.419 42.857 12.39 6.37 38.25 2.17
2416 4200 6.638096 TTGCAACATCTCATACCATAATGG 57.362 37.500 0.00 0.00 45.02 3.16
2417 4201 6.919662 GGTTTGCAACATCTCATACCATAATG 59.080 38.462 0.00 0.00 35.36 1.90
2418 4202 6.040842 GGGTTTGCAACATCTCATACCATAAT 59.959 38.462 13.21 0.00 36.46 1.28
2419 4203 5.359576 GGGTTTGCAACATCTCATACCATAA 59.640 40.000 13.21 0.00 36.46 1.90
2420 4204 4.887071 GGGTTTGCAACATCTCATACCATA 59.113 41.667 13.21 0.00 36.46 2.74
2421 4205 3.701040 GGGTTTGCAACATCTCATACCAT 59.299 43.478 13.21 0.00 36.46 3.55
2422 4206 3.088532 GGGTTTGCAACATCTCATACCA 58.911 45.455 13.21 0.00 36.46 3.25
2423 4207 3.088532 TGGGTTTGCAACATCTCATACC 58.911 45.455 0.00 0.68 34.79 2.73
2455 4239 4.590850 TCGTAGATGCAGCATTACTCAT 57.409 40.909 9.90 0.00 0.00 2.90
2456 4240 4.363138 CTTCGTAGATGCAGCATTACTCA 58.637 43.478 9.90 1.84 35.04 3.41
2457 4241 3.738282 CCTTCGTAGATGCAGCATTACTC 59.262 47.826 9.90 0.00 35.04 2.59
2458 4242 3.133003 ACCTTCGTAGATGCAGCATTACT 59.867 43.478 9.90 5.56 35.04 2.24
2459 4243 3.458189 ACCTTCGTAGATGCAGCATTAC 58.542 45.455 9.90 12.31 35.04 1.89
2460 4244 3.819564 ACCTTCGTAGATGCAGCATTA 57.180 42.857 9.90 1.43 35.04 1.90
2461 4245 2.698855 ACCTTCGTAGATGCAGCATT 57.301 45.000 9.90 2.42 35.04 3.56
2462 4246 2.698855 AACCTTCGTAGATGCAGCAT 57.301 45.000 7.91 7.91 35.04 3.79
2463 4247 2.472695 AAACCTTCGTAGATGCAGCA 57.527 45.000 4.07 0.00 35.04 4.41
2464 4248 3.522553 AGTAAACCTTCGTAGATGCAGC 58.477 45.455 0.00 0.00 35.04 5.25
2465 4249 7.591006 TTTAAGTAAACCTTCGTAGATGCAG 57.409 36.000 0.00 0.00 35.04 4.41
2466 4250 7.966246 TTTTAAGTAAACCTTCGTAGATGCA 57.034 32.000 0.00 0.00 35.04 3.96
2467 4251 8.501580 AGTTTTTAAGTAAACCTTCGTAGATGC 58.498 33.333 0.00 0.00 38.49 3.91
2489 4273 9.912634 CTCCACATCAATTTGTATGTAAAGTTT 57.087 29.630 11.54 0.00 34.61 2.66
2490 4274 8.522830 CCTCCACATCAATTTGTATGTAAAGTT 58.477 33.333 11.54 0.00 34.61 2.66
2491 4275 7.888021 TCCTCCACATCAATTTGTATGTAAAGT 59.112 33.333 11.54 0.00 34.61 2.66
2492 4276 8.279970 TCCTCCACATCAATTTGTATGTAAAG 57.720 34.615 11.54 11.29 34.61 1.85
2493 4277 8.821686 ATCCTCCACATCAATTTGTATGTAAA 57.178 30.769 11.54 5.47 34.61 2.01
2494 4278 8.821686 AATCCTCCACATCAATTTGTATGTAA 57.178 30.769 11.54 5.70 34.61 2.41
2496 4280 8.853126 CATAATCCTCCACATCAATTTGTATGT 58.147 33.333 7.99 7.99 36.78 2.29
2497 4281 7.811236 GCATAATCCTCCACATCAATTTGTATG 59.189 37.037 0.00 2.51 0.00 2.39
2498 4282 7.727186 AGCATAATCCTCCACATCAATTTGTAT 59.273 33.333 0.00 0.00 0.00 2.29
2499 4283 7.062322 AGCATAATCCTCCACATCAATTTGTA 58.938 34.615 0.00 0.00 0.00 2.41
2500 4284 5.895534 AGCATAATCCTCCACATCAATTTGT 59.104 36.000 0.00 0.00 0.00 2.83
2501 4285 6.401047 AGCATAATCCTCCACATCAATTTG 57.599 37.500 0.00 0.00 0.00 2.32
2502 4286 6.608405 TCAAGCATAATCCTCCACATCAATTT 59.392 34.615 0.00 0.00 0.00 1.82
2503 4287 6.131264 TCAAGCATAATCCTCCACATCAATT 58.869 36.000 0.00 0.00 0.00 2.32
2504 4288 5.698104 TCAAGCATAATCCTCCACATCAAT 58.302 37.500 0.00 0.00 0.00 2.57
2505 4289 5.114764 TCAAGCATAATCCTCCACATCAA 57.885 39.130 0.00 0.00 0.00 2.57
2506 4290 4.776435 TCAAGCATAATCCTCCACATCA 57.224 40.909 0.00 0.00 0.00 3.07
2507 4291 7.934855 ATTATCAAGCATAATCCTCCACATC 57.065 36.000 0.00 0.00 32.94 3.06
2510 4294 9.553064 CCTATATTATCAAGCATAATCCTCCAC 57.447 37.037 0.00 0.00 38.45 4.02
2511 4295 8.717717 CCCTATATTATCAAGCATAATCCTCCA 58.282 37.037 0.00 0.00 38.45 3.86
2512 4296 8.938883 TCCCTATATTATCAAGCATAATCCTCC 58.061 37.037 0.00 0.00 38.45 4.30
2518 4302 8.717717 CCCTCATCCCTATATTATCAAGCATAA 58.282 37.037 0.00 0.00 0.00 1.90
2519 4303 7.293299 CCCCTCATCCCTATATTATCAAGCATA 59.707 40.741 0.00 0.00 0.00 3.14
2520 4304 6.102321 CCCCTCATCCCTATATTATCAAGCAT 59.898 42.308 0.00 0.00 0.00 3.79
2521 4305 5.429762 CCCCTCATCCCTATATTATCAAGCA 59.570 44.000 0.00 0.00 0.00 3.91
2522 4306 5.688766 GCCCCTCATCCCTATATTATCAAGC 60.689 48.000 0.00 0.00 0.00 4.01
2523 4307 5.163152 GGCCCCTCATCCCTATATTATCAAG 60.163 48.000 0.00 0.00 0.00 3.02
2524 4308 4.726825 GGCCCCTCATCCCTATATTATCAA 59.273 45.833 0.00 0.00 0.00 2.57
2525 4309 4.307259 GGCCCCTCATCCCTATATTATCA 58.693 47.826 0.00 0.00 0.00 2.15
2526 4310 3.653352 GGGCCCCTCATCCCTATATTATC 59.347 52.174 12.23 0.00 39.46 1.75
2527 4311 3.016335 TGGGCCCCTCATCCCTATATTAT 59.984 47.826 22.27 0.00 43.04 1.28
2528 4312 2.392457 TGGGCCCCTCATCCCTATATTA 59.608 50.000 22.27 0.00 43.04 0.98
2529 4313 1.156404 TGGGCCCCTCATCCCTATATT 59.844 52.381 22.27 0.00 43.04 1.28
2530 4314 0.806276 TGGGCCCCTCATCCCTATAT 59.194 55.000 22.27 0.00 43.04 0.86
2531 4315 0.178873 GTGGGCCCCTCATCCCTATA 60.179 60.000 22.27 0.00 43.04 1.31
2532 4316 1.464198 GTGGGCCCCTCATCCCTAT 60.464 63.158 22.27 0.00 43.04 2.57
2533 4317 2.039831 GTGGGCCCCTCATCCCTA 60.040 66.667 22.27 0.00 43.04 3.53
2534 4318 4.044390 AGTGGGCCCCTCATCCCT 62.044 66.667 22.27 0.07 43.04 4.20
2535 4319 3.493303 GAGTGGGCCCCTCATCCC 61.493 72.222 26.70 7.52 42.93 3.85
2536 4320 3.493303 GGAGTGGGCCCCTCATCC 61.493 72.222 30.21 22.87 0.00 3.51
2537 4321 3.493303 GGGAGTGGGCCCCTCATC 61.493 72.222 30.21 21.44 42.62 2.92
2888 4672 5.717654 ACCTACAAAAGTTTGACCTTCCAAA 59.282 36.000 10.66 0.00 40.55 3.28
2889 4673 5.265989 ACCTACAAAAGTTTGACCTTCCAA 58.734 37.500 10.66 0.00 40.55 3.53
2890 4674 4.862371 ACCTACAAAAGTTTGACCTTCCA 58.138 39.130 10.66 0.00 40.55 3.53
2891 4675 5.131067 AGACCTACAAAAGTTTGACCTTCC 58.869 41.667 10.66 0.00 40.55 3.46
2892 4676 6.073167 GCTAGACCTACAAAAGTTTGACCTTC 60.073 42.308 10.66 2.48 40.55 3.46
2893 4677 5.763698 GCTAGACCTACAAAAGTTTGACCTT 59.236 40.000 10.66 0.00 40.55 3.50
2894 4678 5.163237 TGCTAGACCTACAAAAGTTTGACCT 60.163 40.000 10.66 3.18 40.55 3.85
2895 4679 5.061179 TGCTAGACCTACAAAAGTTTGACC 58.939 41.667 10.66 0.00 40.55 4.02
2896 4680 6.803154 ATGCTAGACCTACAAAAGTTTGAC 57.197 37.500 10.66 0.00 40.55 3.18
2897 4681 9.515226 AATAATGCTAGACCTACAAAAGTTTGA 57.485 29.630 10.66 0.00 40.55 2.69
2898 4682 9.559958 CAATAATGCTAGACCTACAAAAGTTTG 57.440 33.333 0.00 2.22 43.62 2.93
2917 4701 7.555195 TGCCCAATAGATATGAGAGCAATAATG 59.445 37.037 0.00 0.00 0.00 1.90
2918 4702 7.555554 GTGCCCAATAGATATGAGAGCAATAAT 59.444 37.037 0.00 0.00 0.00 1.28
2919 4703 6.881065 GTGCCCAATAGATATGAGAGCAATAA 59.119 38.462 0.00 0.00 0.00 1.40
2920 4704 6.214208 AGTGCCCAATAGATATGAGAGCAATA 59.786 38.462 0.00 0.00 0.00 1.90
2921 4705 5.013913 AGTGCCCAATAGATATGAGAGCAAT 59.986 40.000 0.00 0.00 0.00 3.56
2922 4706 4.349048 AGTGCCCAATAGATATGAGAGCAA 59.651 41.667 0.00 0.00 0.00 3.91
2923 4707 3.906218 AGTGCCCAATAGATATGAGAGCA 59.094 43.478 0.00 0.00 0.00 4.26
2924 4708 4.020751 TGAGTGCCCAATAGATATGAGAGC 60.021 45.833 0.00 0.00 0.00 4.09
2925 4709 5.735285 TGAGTGCCCAATAGATATGAGAG 57.265 43.478 0.00 0.00 0.00 3.20
2926 4710 5.512060 GCTTGAGTGCCCAATAGATATGAGA 60.512 44.000 0.00 0.00 0.00 3.27
2927 4711 4.694509 GCTTGAGTGCCCAATAGATATGAG 59.305 45.833 0.00 0.00 0.00 2.90
2928 4712 4.645535 GCTTGAGTGCCCAATAGATATGA 58.354 43.478 0.00 0.00 0.00 2.15
2929 4713 3.434641 CGCTTGAGTGCCCAATAGATATG 59.565 47.826 0.00 0.00 0.00 1.78
2930 4714 3.557898 CCGCTTGAGTGCCCAATAGATAT 60.558 47.826 0.00 0.00 0.00 1.63
2931 4715 2.224281 CCGCTTGAGTGCCCAATAGATA 60.224 50.000 0.00 0.00 0.00 1.98
2941 4725 0.948678 TTACAAACCCGCTTGAGTGC 59.051 50.000 0.00 0.00 0.00 4.40
2945 4729 1.134037 ACCTGTTACAAACCCGCTTGA 60.134 47.619 0.00 0.00 0.00 3.02
2946 4730 1.314730 ACCTGTTACAAACCCGCTTG 58.685 50.000 0.00 0.00 0.00 4.01
2947 4731 2.369532 TCTACCTGTTACAAACCCGCTT 59.630 45.455 0.00 0.00 0.00 4.68
2948 4732 1.972795 TCTACCTGTTACAAACCCGCT 59.027 47.619 0.00 0.00 0.00 5.52
2949 4733 2.460757 TCTACCTGTTACAAACCCGC 57.539 50.000 0.00 0.00 0.00 6.13
2950 4734 4.261578 TCTTCTACCTGTTACAAACCCG 57.738 45.455 0.00 0.00 0.00 5.28
2951 4735 7.229907 TGAAAATCTTCTACCTGTTACAAACCC 59.770 37.037 0.00 0.00 32.33 4.11
2952 4736 8.074370 GTGAAAATCTTCTACCTGTTACAAACC 58.926 37.037 0.00 0.00 32.33 3.27
2953 4737 8.837389 AGTGAAAATCTTCTACCTGTTACAAAC 58.163 33.333 0.00 0.00 32.33 2.93
2954 4738 8.974060 AGTGAAAATCTTCTACCTGTTACAAA 57.026 30.769 0.00 0.00 32.33 2.83
2955 4739 8.208224 TGAGTGAAAATCTTCTACCTGTTACAA 58.792 33.333 0.00 0.00 32.33 2.41
2956 4740 7.732025 TGAGTGAAAATCTTCTACCTGTTACA 58.268 34.615 0.00 0.00 32.33 2.41
2957 4741 8.496751 GTTGAGTGAAAATCTTCTACCTGTTAC 58.503 37.037 0.00 0.00 32.33 2.50
2963 4747 7.159372 TGGTAGTTGAGTGAAAATCTTCTACC 58.841 38.462 15.09 15.09 46.59 3.18
2974 4758 5.308497 TGGATTACCTTGGTAGTTGAGTGAA 59.692 40.000 0.00 0.00 37.04 3.18
2975 4759 4.841813 TGGATTACCTTGGTAGTTGAGTGA 59.158 41.667 0.00 0.00 37.04 3.41
2977 4761 5.104485 GGATGGATTACCTTGGTAGTTGAGT 60.104 44.000 0.00 0.00 37.04 3.41
2979 4763 4.785914 TGGATGGATTACCTTGGTAGTTGA 59.214 41.667 0.00 0.00 37.04 3.18
2980 4764 5.110814 TGGATGGATTACCTTGGTAGTTG 57.889 43.478 0.00 0.00 37.04 3.16
2981 4765 5.431731 TCATGGATGGATTACCTTGGTAGTT 59.568 40.000 0.00 0.00 37.04 2.24
2982 4766 4.975147 TCATGGATGGATTACCTTGGTAGT 59.025 41.667 0.00 0.00 37.04 2.73
2983 4767 5.567037 TCATGGATGGATTACCTTGGTAG 57.433 43.478 0.00 0.00 37.04 3.18
2984 4768 5.163099 CCTTCATGGATGGATTACCTTGGTA 60.163 44.000 0.00 0.00 38.35 3.25
2986 4770 4.147321 CCTTCATGGATGGATTACCTTGG 58.853 47.826 0.00 0.00 38.35 3.61
2987 4771 4.796606 ACCTTCATGGATGGATTACCTTG 58.203 43.478 5.29 0.00 39.71 3.61
3008 4795 5.000012 ACTATCATTGGACTCGTGAAGAC 58.000 43.478 0.00 0.00 0.00 3.01
3048 4835 2.864343 CTGGTTGTTAGGCTATACACGC 59.136 50.000 0.00 0.00 0.00 5.34
3049 4836 4.119442 ACTGGTTGTTAGGCTATACACG 57.881 45.455 0.00 0.00 0.00 4.49
3058 4845 4.760204 CCAAGAGGTTAACTGGTTGTTAGG 59.240 45.833 5.42 0.00 41.55 2.69
3059 4846 5.941948 CCAAGAGGTTAACTGGTTGTTAG 57.058 43.478 5.42 0.00 41.55 2.34
3114 4931 6.261826 GGATTGATATCTTGGTTTCTCACTGG 59.738 42.308 3.98 0.00 0.00 4.00
3115 4932 6.825213 TGGATTGATATCTTGGTTTCTCACTG 59.175 38.462 3.98 0.00 0.00 3.66
3142 4959 8.573035 TCATTGGTGTAAAAATCTTGTACCTTC 58.427 33.333 0.00 0.00 0.00 3.46
3143 4960 8.472007 TCATTGGTGTAAAAATCTTGTACCTT 57.528 30.769 0.00 0.00 0.00 3.50


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

AutoCloner maintained by Alex Coulton.