Multiple sequence alignment - TraesCS2D01G399400

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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 TraesCS2D01G399400 chr2D 100.000 4915 0 0 1 4915 512172907 512167993 0.000000e+00 9077.0
1 TraesCS2D01G399400 chr2B 92.089 4437 188 67 8 4398 601943654 601939335 0.000000e+00 6098.0
2 TraesCS2D01G399400 chr2B 93.220 59 4 0 4857 4915 601938771 601938713 2.440000e-13 87.9
3 TraesCS2D01G399400 chr2A 92.807 4004 163 54 467 4404 655550971 655547027 0.000000e+00 5683.0
4 TraesCS2D01G399400 chr2A 86.667 360 11 10 8 347 655551671 655551329 1.010000e-96 364.0
5 TraesCS2D01G399400 chr2A 87.821 312 30 4 4532 4841 655546984 655546679 4.680000e-95 359.0
6 TraesCS2D01G399400 chr2A 82.418 182 13 7 4752 4915 655426974 655426794 1.840000e-29 141.0
7 TraesCS2D01G399400 chr7A 95.312 128 6 0 4406 4533 462339313 462339186 2.320000e-48 204.0
8 TraesCS2D01G399400 chr7A 93.077 130 9 0 4405 4534 202995223 202995352 1.810000e-44 191.0
9 TraesCS2D01G399400 chr4B 95.276 127 6 0 4407 4533 518087591 518087717 8.340000e-48 202.0
10 TraesCS2D01G399400 chr4A 94.030 134 7 1 4407 4540 730341012 730340880 8.340000e-48 202.0
11 TraesCS2D01G399400 chr4A 92.593 135 10 0 4406 4540 667350634 667350500 1.400000e-45 195.0
12 TraesCS2D01G399400 chr4A 91.971 137 10 1 4399 4535 46564756 46564621 1.810000e-44 191.0
13 TraesCS2D01G399400 chr5D 93.233 133 8 1 4401 4533 342697499 342697368 1.400000e-45 195.0
14 TraesCS2D01G399400 chr3B 92.086 139 10 1 4400 4538 556858193 556858330 1.400000e-45 195.0
15 TraesCS2D01G399400 chr3A 93.182 132 9 0 4406 4537 607110171 607110040 1.400000e-45 195.0


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 TraesCS2D01G399400 chr2D 512167993 512172907 4914 True 9077.000000 9077 100.000000 1 4915 1 chr2D.!!$R1 4914
1 TraesCS2D01G399400 chr2B 601938713 601943654 4941 True 3092.950000 6098 92.654500 8 4915 2 chr2B.!!$R1 4907
2 TraesCS2D01G399400 chr2A 655546679 655551671 4992 True 2135.333333 5683 89.098333 8 4841 3 chr2A.!!$R2 4833

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
958 1341 0.743345 CGCTTTACTTCCTTCCCCCG 60.743 60.0 0.00 0.00 0.0 5.73 F
1667 2065 0.107643 TGGATAATGCGGCGGATGAA 59.892 50.0 16.33 6.93 0.0 2.57 F
3412 3819 0.693049 TTCCTTCAAGACCCTCTGCC 59.307 55.0 0.00 0.00 0.0 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2084 2482 0.727398 GCCCATAGAACTCGTGCAAC 59.273 55.0 0.0 0.0 0.0 4.17 R
3484 3891 0.392193 CAGACGGCAGCATTTCCTCT 60.392 55.0 0.0 0.0 0.0 3.69 R
4404 4840 0.038744 TTTCGGACGGAGGGAGTACT 59.961 55.0 0.0 0.0 0.0 2.73 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
66 68 6.484643 GGGTTACCGGGATTAATAAAACTCTC 59.515 42.308 6.32 0.00 0.00 3.20
69 71 9.993454 GTTACCGGGATTAATAAAACTCTCTAT 57.007 33.333 6.32 0.00 0.00 1.98
286 307 1.064758 CCATTCCGTTCCAATCCTCCA 60.065 52.381 0.00 0.00 0.00 3.86
287 308 2.423373 CCATTCCGTTCCAATCCTCCAT 60.423 50.000 0.00 0.00 0.00 3.41
360 384 4.025401 CACCCAAGAACACGCGCC 62.025 66.667 5.73 0.00 0.00 6.53
387 415 4.394712 CTGACAGGCCCGACACCC 62.395 72.222 0.00 0.00 0.00 4.61
388 416 4.954118 TGACAGGCCCGACACCCT 62.954 66.667 0.00 0.00 0.00 4.34
398 426 3.075641 GACACCCTCCTCCGTCCC 61.076 72.222 0.00 0.00 0.00 4.46
412 440 4.410033 TCCCTCCCTCGGAACCCC 62.410 72.222 0.00 0.00 0.00 4.95
414 442 2.609610 CCTCCCTCGGAACCCCAA 60.610 66.667 0.00 0.00 0.00 4.12
416 444 1.571773 CCTCCCTCGGAACCCCAATT 61.572 60.000 0.00 0.00 0.00 2.32
418 446 1.076995 CCCTCGGAACCCCAATTCC 60.077 63.158 0.00 0.00 44.19 3.01
419 447 1.076995 CCTCGGAACCCCAATTCCC 60.077 63.158 0.00 0.00 44.72 3.97
420 448 1.451387 CTCGGAACCCCAATTCCCG 60.451 63.158 0.00 0.00 44.72 5.14
421 449 1.906105 CTCGGAACCCCAATTCCCGA 61.906 60.000 0.00 0.00 44.72 5.14
422 450 1.451387 CGGAACCCCAATTCCCGAG 60.451 63.158 0.00 0.00 44.72 4.63
423 451 1.753078 GGAACCCCAATTCCCGAGC 60.753 63.158 0.00 0.00 42.16 5.03
424 452 2.045340 AACCCCAATTCCCGAGCG 60.045 61.111 0.00 0.00 0.00 5.03
425 453 2.530958 GAACCCCAATTCCCGAGCGA 62.531 60.000 0.00 0.00 0.00 4.93
426 454 2.203070 CCCCAATTCCCGAGCGAG 60.203 66.667 0.00 0.00 0.00 5.03
507 867 1.669265 CCCGCGAGTTTTTCTATTCCC 59.331 52.381 8.23 0.00 0.00 3.97
554 914 2.331893 CGCCCAATTCGCTTCACCA 61.332 57.895 0.00 0.00 0.00 4.17
862 1232 9.907229 TTTTTAAATAATTCTCCTCTCCTCTCC 57.093 33.333 0.00 0.00 0.00 3.71
863 1233 7.619512 TTAAATAATTCTCCTCTCCTCTCCC 57.380 40.000 0.00 0.00 0.00 4.30
864 1234 2.487746 AATTCTCCTCTCCTCTCCCC 57.512 55.000 0.00 0.00 0.00 4.81
865 1235 1.631536 ATTCTCCTCTCCTCTCCCCT 58.368 55.000 0.00 0.00 0.00 4.79
866 1236 0.930726 TTCTCCTCTCCTCTCCCCTC 59.069 60.000 0.00 0.00 0.00 4.30
867 1237 1.150536 CTCCTCTCCTCTCCCCTCG 59.849 68.421 0.00 0.00 0.00 4.63
868 1238 2.520741 CCTCTCCTCTCCCCTCGC 60.521 72.222 0.00 0.00 0.00 5.03
869 1239 2.904866 CTCTCCTCTCCCCTCGCG 60.905 72.222 0.00 0.00 0.00 5.87
870 1240 3.707640 CTCTCCTCTCCCCTCGCGT 62.708 68.421 5.77 0.00 0.00 6.01
871 1241 3.213402 CTCCTCTCCCCTCGCGTC 61.213 72.222 5.77 0.00 0.00 5.19
872 1242 4.816984 TCCTCTCCCCTCGCGTCC 62.817 72.222 5.77 0.00 0.00 4.79
903 1273 1.870016 GCGCTCTCTTTCTCGTCCG 60.870 63.158 0.00 0.00 0.00 4.79
958 1341 0.743345 CGCTTTACTTCCTTCCCCCG 60.743 60.000 0.00 0.00 0.00 5.73
1101 1493 0.107703 CCAATTAGTGCGGGAGAGCA 60.108 55.000 0.00 0.00 45.96 4.26
1119 1511 1.266446 GCACTAGTAGTAGCGGTAGGC 59.734 57.143 1.57 0.00 44.05 3.93
1128 1520 3.541713 GCGGTAGGCTGGAGGAGG 61.542 72.222 0.00 0.00 39.11 4.30
1321 1716 2.224159 AGGCAGTGGATCCCGTGTT 61.224 57.895 9.90 0.00 0.00 3.32
1397 1795 2.401592 CTCTCGTCGCACTCGGAG 59.598 66.667 2.83 2.83 36.13 4.63
1445 1843 1.716826 CGGAGGAGACCACGAGCTAC 61.717 65.000 0.00 0.00 0.00 3.58
1548 1946 1.322637 GTTCGTTCTCGTTTATCCGGC 59.677 52.381 0.00 0.00 38.33 6.13
1613 2011 0.826715 TTGAGATGAGGAGAAGCGGG 59.173 55.000 0.00 0.00 0.00 6.13
1628 2026 3.791586 GGGTGGCTGGAGAGGCTC 61.792 72.222 6.34 6.34 45.20 4.70
1667 2065 0.107643 TGGATAATGCGGCGGATGAA 59.892 50.000 16.33 6.93 0.00 2.57
1696 2094 2.493973 CTCCTCTGACAGCGAGCC 59.506 66.667 0.00 0.00 0.00 4.70
1889 2287 1.455959 CCGGGTTTGGGGTGTTTCA 60.456 57.895 0.00 0.00 0.00 2.69
2037 2435 4.400884 GCATGAAGAAGACTGGAGACTCTA 59.599 45.833 0.00 0.00 0.00 2.43
2084 2482 4.846779 TTTCCAAATTTCAGAGGAACCG 57.153 40.909 7.11 0.00 39.69 4.44
2090 2488 1.305201 TTTCAGAGGAACCGTTGCAC 58.695 50.000 5.50 0.00 31.35 4.57
2162 2560 5.505173 ACAAGGTCAGTTGAAGAAATGTG 57.495 39.130 0.00 0.00 0.00 3.21
2200 2601 6.983906 AATGGGATTGTTCTTTGTTTCTCT 57.016 33.333 0.00 0.00 0.00 3.10
2253 2654 4.913335 ATTTGATACCTTGCAGCATCTG 57.087 40.909 0.00 0.00 34.12 2.90
2382 2783 4.142609 TCTCTGCTTGCCTATACCTTTG 57.857 45.455 0.00 0.00 0.00 2.77
2421 2823 6.571150 GCTGACAGTTTGCTCTCCATATTTTT 60.571 38.462 3.99 0.00 0.00 1.94
2451 2853 4.153475 ACTTGTGTCCAATTTAATCCGACG 59.847 41.667 0.00 0.00 0.00 5.12
2452 2854 3.927854 TGTGTCCAATTTAATCCGACGA 58.072 40.909 0.00 0.00 0.00 4.20
2478 2880 3.376234 ACAATTGCTTCATCACTGGATCG 59.624 43.478 5.05 0.00 0.00 3.69
2544 2946 0.911769 TGGACTGGGCAGATGTTAGG 59.088 55.000 0.00 0.00 0.00 2.69
2619 3021 7.895759 AGTGCACCATTGTAGTTATTTTGATT 58.104 30.769 14.63 0.00 0.00 2.57
2767 3169 3.181451 TGGAAACTCAGATTGCACTCAGT 60.181 43.478 6.84 0.00 0.00 3.41
2848 3250 3.715628 AAGGATGACTGTTGTTGCAAC 57.284 42.857 22.83 22.83 0.00 4.17
2976 3380 2.613133 GCTGACTCCAAGATCAGAATGC 59.387 50.000 5.45 0.00 44.32 3.56
2978 3382 4.515361 CTGACTCCAAGATCAGAATGCTT 58.485 43.478 0.00 0.00 44.32 3.91
2981 3385 4.260170 ACTCCAAGATCAGAATGCTTGAC 58.740 43.478 10.88 0.00 41.03 3.18
3379 3786 6.426328 CCTCTCATATCCAATTCAAGTACAGC 59.574 42.308 0.00 0.00 0.00 4.40
3412 3819 0.693049 TTCCTTCAAGACCCTCTGCC 59.307 55.000 0.00 0.00 0.00 4.85
3448 3855 4.043168 AACCAGGAGTTGTTCGCG 57.957 55.556 0.00 0.00 37.29 5.87
3502 3909 0.392193 CAGAGGAAATGCTGCCGTCT 60.392 55.000 0.00 0.00 0.00 4.18
3660 4067 3.127533 GCCGGTGCATCAGTGACC 61.128 66.667 1.90 0.00 37.47 4.02
3819 4226 4.819761 TCACATGCTCGGCGCTCC 62.820 66.667 7.64 0.00 40.11 4.70
3820 4227 4.827087 CACATGCTCGGCGCTCCT 62.827 66.667 7.64 0.00 40.11 3.69
3821 4228 4.827087 ACATGCTCGGCGCTCCTG 62.827 66.667 7.64 1.95 40.11 3.86
3836 4243 2.403987 CTGCTGCTGCTGAATCGC 59.596 61.111 17.00 0.00 40.01 4.58
3958 4366 0.618981 GCTAGCTTTGTACCACCCCT 59.381 55.000 7.70 0.00 0.00 4.79
3959 4367 1.004394 GCTAGCTTTGTACCACCCCTT 59.996 52.381 7.70 0.00 0.00 3.95
4009 4417 3.766051 AGATCAGATTTGTTCTTTGCCCC 59.234 43.478 0.00 0.00 30.91 5.80
4047 4462 7.688372 TCTTTCGATTGCTCTATTGATTTGAC 58.312 34.615 0.00 0.00 0.00 3.18
4054 4469 8.837788 ATTGCTCTATTGATTTGACGATATGA 57.162 30.769 0.00 0.00 0.00 2.15
4071 4486 1.434555 TGACGCGGAAATGTTAGTGG 58.565 50.000 12.47 0.00 0.00 4.00
4195 4630 3.450817 TCAGTGTCCAGTTCTCTTCAACA 59.549 43.478 0.00 0.00 0.00 3.33
4210 4645 6.825213 TCTCTTCAACATATGCTTGTATGCTT 59.175 34.615 1.58 0.00 35.87 3.91
4356 4792 4.392047 CCTTGATTGATTGATCGATCCCA 58.608 43.478 22.31 14.23 43.87 4.37
4404 4840 7.437713 AATATACTGGTCCTGAATCTGTTGA 57.562 36.000 2.23 0.00 0.00 3.18
4405 4841 3.692257 ACTGGTCCTGAATCTGTTGAG 57.308 47.619 2.23 0.00 0.00 3.02
4407 4843 4.160329 ACTGGTCCTGAATCTGTTGAGTA 58.840 43.478 2.23 0.00 0.00 2.59
4408 4844 4.021016 ACTGGTCCTGAATCTGTTGAGTAC 60.021 45.833 2.23 0.00 0.00 2.73
4409 4845 4.160329 TGGTCCTGAATCTGTTGAGTACT 58.840 43.478 0.00 0.00 0.00 2.73
4410 4846 4.220821 TGGTCCTGAATCTGTTGAGTACTC 59.779 45.833 16.32 16.32 0.00 2.59
4413 4849 3.772025 CCTGAATCTGTTGAGTACTCCCT 59.228 47.826 20.11 0.00 0.00 4.20
4414 4850 4.142049 CCTGAATCTGTTGAGTACTCCCTC 60.142 50.000 20.11 10.56 0.00 4.30
4415 4851 3.769844 TGAATCTGTTGAGTACTCCCTCC 59.230 47.826 20.11 5.92 0.00 4.30
4416 4852 1.835494 TCTGTTGAGTACTCCCTCCG 58.165 55.000 20.11 7.16 0.00 4.63
4417 4853 1.075050 TCTGTTGAGTACTCCCTCCGT 59.925 52.381 20.11 0.00 0.00 4.69
4418 4854 1.473278 CTGTTGAGTACTCCCTCCGTC 59.527 57.143 20.11 3.81 0.00 4.79
4419 4855 0.816373 GTTGAGTACTCCCTCCGTCC 59.184 60.000 20.11 0.00 0.00 4.79
4420 4856 0.679002 TTGAGTACTCCCTCCGTCCG 60.679 60.000 20.11 0.00 0.00 4.79
4421 4857 1.222936 GAGTACTCCCTCCGTCCGA 59.777 63.158 12.13 0.00 0.00 4.55
4422 4858 0.393537 GAGTACTCCCTCCGTCCGAA 60.394 60.000 12.13 0.00 0.00 4.30
4423 4859 0.038744 AGTACTCCCTCCGTCCGAAA 59.961 55.000 0.00 0.00 0.00 3.46
4424 4860 0.890683 GTACTCCCTCCGTCCGAAAA 59.109 55.000 0.00 0.00 0.00 2.29
4425 4861 1.479730 GTACTCCCTCCGTCCGAAAAT 59.520 52.381 0.00 0.00 0.00 1.82
4427 4863 1.078708 TCCCTCCGTCCGAAAATGC 60.079 57.895 0.00 0.00 0.00 3.56
4428 4864 1.078426 CCCTCCGTCCGAAAATGCT 60.078 57.895 0.00 0.00 0.00 3.79
4432 4868 1.128692 CTCCGTCCGAAAATGCTTGTC 59.871 52.381 0.00 0.00 0.00 3.18
4433 4869 0.871722 CCGTCCGAAAATGCTTGTCA 59.128 50.000 0.00 0.00 0.00 3.58
4434 4870 1.468520 CCGTCCGAAAATGCTTGTCAT 59.531 47.619 0.00 0.00 36.87 3.06
4435 4871 2.476185 CCGTCCGAAAATGCTTGTCATC 60.476 50.000 0.00 0.00 33.40 2.92
4436 4872 2.159430 CGTCCGAAAATGCTTGTCATCA 59.841 45.455 0.00 0.00 33.40 3.07
4437 4873 3.364864 CGTCCGAAAATGCTTGTCATCAA 60.365 43.478 0.00 0.00 33.40 2.57
4438 4874 4.545610 GTCCGAAAATGCTTGTCATCAAA 58.454 39.130 0.00 0.00 33.40 2.69
4441 4877 5.634439 TCCGAAAATGCTTGTCATCAAAATG 59.366 36.000 0.00 0.00 33.40 2.32
4442 4878 5.634439 CCGAAAATGCTTGTCATCAAAATGA 59.366 36.000 0.00 0.00 39.63 2.57
4443 4879 6.145858 CCGAAAATGCTTGTCATCAAAATGAA 59.854 34.615 0.00 0.00 43.42 2.57
4444 4880 7.148540 CCGAAAATGCTTGTCATCAAAATGAAT 60.149 33.333 0.00 0.00 43.42 2.57
4445 4881 8.862074 CGAAAATGCTTGTCATCAAAATGAATA 58.138 29.630 0.00 0.00 43.42 1.75
4450 4886 9.932207 ATGCTTGTCATCAAAATGAATAAAAGA 57.068 25.926 0.00 0.00 43.42 2.52
4451 4887 9.761504 TGCTTGTCATCAAAATGAATAAAAGAA 57.238 25.926 0.00 0.00 43.42 2.52
4488 4924 9.570488 GACGTATATTAGTTCAAGATACATCCC 57.430 37.037 0.00 0.00 40.04 3.85
4489 4925 9.310449 ACGTATATTAGTTCAAGATACATCCCT 57.690 33.333 0.00 0.00 40.04 4.20
4497 4933 8.753497 AGTTCAAGATACATCCCTTTTTATCC 57.247 34.615 0.00 0.00 0.00 2.59
4498 4934 8.336235 AGTTCAAGATACATCCCTTTTTATCCA 58.664 33.333 0.00 0.00 0.00 3.41
4499 4935 9.136323 GTTCAAGATACATCCCTTTTTATCCAT 57.864 33.333 0.00 0.00 0.00 3.41
4500 4936 9.713684 TTCAAGATACATCCCTTTTTATCCATT 57.286 29.630 0.00 0.00 0.00 3.16
4501 4937 9.713684 TCAAGATACATCCCTTTTTATCCATTT 57.286 29.630 0.00 0.00 0.00 2.32
4504 4940 8.927411 AGATACATCCCTTTTTATCCATTTTGG 58.073 33.333 0.00 0.00 39.43 3.28
4505 4941 6.950860 ACATCCCTTTTTATCCATTTTGGT 57.049 33.333 0.00 0.00 39.03 3.67
4506 4942 6.710278 ACATCCCTTTTTATCCATTTTGGTG 58.290 36.000 0.00 0.00 39.03 4.17
4507 4943 6.500049 ACATCCCTTTTTATCCATTTTGGTGA 59.500 34.615 0.00 0.00 39.03 4.02
4508 4944 6.353404 TCCCTTTTTATCCATTTTGGTGAC 57.647 37.500 0.00 0.00 39.03 3.67
4509 4945 5.841237 TCCCTTTTTATCCATTTTGGTGACA 59.159 36.000 0.00 0.00 39.03 3.58
4524 4960 4.006989 TGGTGACAAGTATTTTCGGATGG 58.993 43.478 0.00 0.00 37.44 3.51
4525 4961 4.258543 GGTGACAAGTATTTTCGGATGGA 58.741 43.478 0.00 0.00 0.00 3.41
4526 4962 4.332819 GGTGACAAGTATTTTCGGATGGAG 59.667 45.833 0.00 0.00 0.00 3.86
4527 4963 4.332819 GTGACAAGTATTTTCGGATGGAGG 59.667 45.833 0.00 0.00 0.00 4.30
4540 4976 3.508012 CGGATGGAGGGAGTAGTATCTTG 59.492 52.174 0.00 0.00 0.00 3.02
4562 4998 3.756434 GTGCTATGCCCTGTGTTTTTCTA 59.244 43.478 0.00 0.00 0.00 2.10
4565 5001 4.399303 GCTATGCCCTGTGTTTTTCTATGT 59.601 41.667 0.00 0.00 0.00 2.29
4594 5190 1.086696 CAAATGCGGTAGAGTGGGTG 58.913 55.000 0.00 0.00 0.00 4.61
4640 5236 4.957759 ACTTGCATTATTTGGTCGGTAC 57.042 40.909 0.00 0.00 0.00 3.34
4691 5287 0.031178 CTTGGTGCCACTTGCTTCAC 59.969 55.000 0.00 0.00 42.00 3.18
4733 5331 3.589735 TCCACTGCTATTTTAGGGTTGGA 59.410 43.478 0.00 0.00 0.00 3.53
4734 5332 4.043561 TCCACTGCTATTTTAGGGTTGGAA 59.956 41.667 0.00 0.00 0.00 3.53
4735 5333 4.770010 CCACTGCTATTTTAGGGTTGGAAA 59.230 41.667 0.00 0.00 0.00 3.13
4736 5334 5.422012 CCACTGCTATTTTAGGGTTGGAAAT 59.578 40.000 0.00 0.00 0.00 2.17
4737 5335 6.332630 CACTGCTATTTTAGGGTTGGAAATG 58.667 40.000 0.00 0.00 0.00 2.32
4741 5339 6.671779 TGCTATTTTAGGGTTGGAAATGGAAT 59.328 34.615 0.00 0.00 0.00 3.01
4750 5348 4.563374 GGTTGGAAATGGAATGGGTTCTTG 60.563 45.833 0.00 0.00 34.68 3.02
4751 5349 3.855668 TGGAAATGGAATGGGTTCTTGT 58.144 40.909 0.00 0.00 34.68 3.16
4802 5400 2.368875 GGACTTCTCCAGGTTCAACTCA 59.631 50.000 0.00 0.00 36.42 3.41
4841 5439 7.558991 CATGCAATTGTATACTCGTAAGACTG 58.441 38.462 8.81 0.00 45.01 3.51
4842 5440 6.627243 TGCAATTGTATACTCGTAAGACTGT 58.373 36.000 7.40 0.00 45.01 3.55
4844 5442 6.750501 GCAATTGTATACTCGTAAGACTGTCA 59.249 38.462 10.88 0.00 45.01 3.58
4845 5443 7.043986 GCAATTGTATACTCGTAAGACTGTCAG 60.044 40.741 10.88 0.00 45.01 3.51
4846 5444 7.627298 ATTGTATACTCGTAAGACTGTCAGT 57.373 36.000 4.81 4.81 45.01 3.41
4848 5446 4.966965 ATACTCGTAAGACTGTCAGTGG 57.033 45.455 11.04 0.00 45.01 4.00
4850 5448 3.748083 ACTCGTAAGACTGTCAGTGGTA 58.252 45.455 11.04 0.00 45.01 3.25
4851 5449 4.333690 ACTCGTAAGACTGTCAGTGGTAT 58.666 43.478 11.04 0.00 45.01 2.73
4852 5450 4.156190 ACTCGTAAGACTGTCAGTGGTATG 59.844 45.833 11.04 7.67 45.01 2.39
4853 5451 4.077108 TCGTAAGACTGTCAGTGGTATGT 58.923 43.478 11.04 0.00 45.01 2.29
4886 5513 4.530553 TCAGTCAGTGGTGCCTAATCTAAA 59.469 41.667 0.00 0.00 0.00 1.85
4888 5515 3.617263 GTCAGTGGTGCCTAATCTAAACG 59.383 47.826 0.00 0.00 0.00 3.60
4889 5516 3.512329 TCAGTGGTGCCTAATCTAAACGA 59.488 43.478 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.407989 GCCAGGAATCTTCACCAGGAG 60.408 57.143 0.00 0.00 35.28 3.69
1 2 0.620556 GCCAGGAATCTTCACCAGGA 59.379 55.000 0.00 0.00 35.28 3.86
2 3 0.622665 AGCCAGGAATCTTCACCAGG 59.377 55.000 0.00 0.00 36.19 4.45
3 4 1.558756 AGAGCCAGGAATCTTCACCAG 59.441 52.381 0.00 0.00 0.00 4.00
4 5 1.556911 GAGAGCCAGGAATCTTCACCA 59.443 52.381 0.00 0.00 0.00 4.17
5 6 1.472376 CGAGAGCCAGGAATCTTCACC 60.472 57.143 0.00 0.00 0.00 4.02
6 7 1.205893 ACGAGAGCCAGGAATCTTCAC 59.794 52.381 0.00 0.00 0.00 3.18
85 92 0.948678 CGCCAAAAAGAAACGGAGGA 59.051 50.000 0.00 0.00 0.00 3.71
173 186 4.825679 GTGGAGGGAGGGAGGGGG 62.826 77.778 0.00 0.00 0.00 5.40
175 188 4.400251 ACGTGGAGGGAGGGAGGG 62.400 72.222 0.00 0.00 0.00 4.30
176 189 2.760385 GACGTGGAGGGAGGGAGG 60.760 72.222 0.00 0.00 0.00 4.30
177 190 1.934459 TAGGACGTGGAGGGAGGGAG 61.934 65.000 0.00 0.00 0.00 4.30
178 191 1.512201 TTAGGACGTGGAGGGAGGGA 61.512 60.000 0.00 0.00 0.00 4.20
179 192 0.398664 ATTAGGACGTGGAGGGAGGG 60.399 60.000 0.00 0.00 0.00 4.30
180 193 2.376695 TATTAGGACGTGGAGGGAGG 57.623 55.000 0.00 0.00 0.00 4.30
181 194 4.558898 CGATTTATTAGGACGTGGAGGGAG 60.559 50.000 0.00 0.00 0.00 4.30
182 195 3.319972 CGATTTATTAGGACGTGGAGGGA 59.680 47.826 0.00 0.00 0.00 4.20
286 307 1.824658 CATGGCGCAAATGGGGAAT 59.175 52.632 10.83 0.00 0.00 3.01
287 308 3.016541 GCATGGCGCAAATGGGGAA 62.017 57.895 20.02 0.00 41.79 3.97
387 415 2.123640 GAGGGAGGGACGGAGGAG 60.124 72.222 0.00 0.00 0.00 3.69
388 416 4.124943 CGAGGGAGGGACGGAGGA 62.125 72.222 0.00 0.00 0.00 3.71
394 422 3.082055 GGGTTCCGAGGGAGGGAC 61.082 72.222 0.00 0.00 39.10 4.46
398 426 0.107165 GAATTGGGGTTCCGAGGGAG 60.107 60.000 0.00 0.00 35.24 4.30
407 435 2.045340 CGCTCGGGAATTGGGGTT 60.045 61.111 0.00 0.00 0.00 4.11
408 436 3.006728 TCGCTCGGGAATTGGGGT 61.007 61.111 0.00 0.00 0.00 4.95
412 440 2.202743 TCGCTCGCTCGGGAATTG 60.203 61.111 0.00 0.00 0.00 2.32
414 442 4.577246 GCTCGCTCGCTCGGGAAT 62.577 66.667 0.00 0.00 29.93 3.01
449 477 3.412408 GAAGGGGAGGGCAGGACC 61.412 72.222 0.00 0.00 37.93 4.46
507 867 1.017177 TCGAAAGGATTTGCCGACGG 61.017 55.000 10.29 10.29 39.27 4.79
616 978 3.535962 GAGAGCCAGGCGAGGAGG 61.536 72.222 5.55 0.00 0.00 4.30
617 979 3.535962 GGAGAGCCAGGCGAGGAG 61.536 72.222 5.55 0.00 0.00 3.69
666 1028 2.322081 TTAACGAACAGCCAGCCGC 61.322 57.895 0.00 0.00 37.98 6.53
667 1029 0.949105 AGTTAACGAACAGCCAGCCG 60.949 55.000 0.00 0.00 38.10 5.52
891 1261 1.497991 CAACTTGCGGACGAGAAAGA 58.502 50.000 0.00 0.00 0.00 2.52
958 1341 2.155155 GCGCGCTTATATAACAGTGGAC 59.845 50.000 26.67 0.00 0.00 4.02
1119 1511 2.837291 CTCCTCCGCCTCCTCCAG 60.837 72.222 0.00 0.00 0.00 3.86
1128 1520 3.855853 GAAGGCCTCCTCCTCCGC 61.856 72.222 5.23 0.00 34.82 5.54
1307 1699 1.303317 GGCAAACACGGGATCCACT 60.303 57.895 15.23 0.00 0.00 4.00
1308 1700 2.686816 CGGCAAACACGGGATCCAC 61.687 63.158 15.23 1.85 0.00 4.02
1309 1701 2.359354 CGGCAAACACGGGATCCA 60.359 61.111 15.23 0.00 0.00 3.41
1336 1731 2.186384 CCTCCTGCTGCTTCTCCG 59.814 66.667 0.00 0.00 0.00 4.63
1382 1777 1.512310 GTTCTCCGAGTGCGACGAG 60.512 63.158 0.00 0.00 40.82 4.18
1397 1795 0.037326 TGGACATGGAGCAGTCGTTC 60.037 55.000 0.00 0.00 35.63 3.95
1588 1986 2.516227 TCTCCTCATCTCAACCGTCT 57.484 50.000 0.00 0.00 0.00 4.18
1592 1990 1.472376 CCGCTTCTCCTCATCTCAACC 60.472 57.143 0.00 0.00 0.00 3.77
1613 2011 4.154347 CCGAGCCTCTCCAGCCAC 62.154 72.222 0.00 0.00 0.00 5.01
1696 2094 4.060900 CTCATACCTTCCACCATGAATCG 58.939 47.826 0.00 0.00 0.00 3.34
1811 2209 4.142160 CCATCAGGACTGAACTTCATCGTA 60.142 45.833 6.06 0.00 43.58 3.43
1868 2266 3.778097 AACACCCCAAACCCGGACG 62.778 63.158 0.73 0.00 0.00 4.79
2037 2435 2.596346 TGTTGGAATCACAATGCAGGT 58.404 42.857 0.00 0.00 32.24 4.00
2084 2482 0.727398 GCCCATAGAACTCGTGCAAC 59.273 55.000 0.00 0.00 0.00 4.17
2226 2627 7.761249 AGATGCTGCAAGGTATCAAATTTTAAC 59.239 33.333 6.36 0.00 32.14 2.01
2315 2716 2.514803 AGTTGCTATGCGGGAAAACTT 58.485 42.857 0.00 0.00 0.00 2.66
2382 2783 0.807496 GTCAGCTTCAACCCATGAGC 59.193 55.000 0.00 0.00 39.77 4.26
2421 2823 7.255451 GGATTAAATTGGACACAAGTCACTGAA 60.255 37.037 0.00 0.00 46.80 3.02
2422 2824 6.206634 GGATTAAATTGGACACAAGTCACTGA 59.793 38.462 0.00 0.00 46.80 3.41
2451 2853 4.153986 CAGTGATGAAGCAATTGTCGTTC 58.846 43.478 7.40 8.53 0.00 3.95
2452 2854 3.058016 CCAGTGATGAAGCAATTGTCGTT 60.058 43.478 7.40 0.00 0.00 3.85
2478 2880 1.263217 ACACGAACTTTGCCGTCAATC 59.737 47.619 0.00 0.00 36.83 2.67
2544 2946 2.810650 CAGACCGCTGTAACTATGTCC 58.189 52.381 0.00 0.00 37.37 4.02
2619 3021 7.124599 TCTCCAAACTATCGAGGTACCAAATTA 59.875 37.037 15.94 0.00 0.00 1.40
2767 3169 4.728772 TCTTCAAAGAGGATTTCTTGCCA 58.271 39.130 0.00 0.00 45.41 4.92
2976 3380 3.501828 TGAATCACATTGGTTCCGTCAAG 59.498 43.478 0.00 0.00 36.68 3.02
2978 3382 3.073678 CTGAATCACATTGGTTCCGTCA 58.926 45.455 0.00 0.00 36.68 4.35
2981 3385 4.970662 ATTCTGAATCACATTGGTTCCG 57.029 40.909 0.00 0.00 36.68 4.30
3102 3506 9.247861 GCCCTGATGATGGTTTAGAAATATTAT 57.752 33.333 0.00 0.00 0.00 1.28
3103 3507 8.448008 AGCCCTGATGATGGTTTAGAAATATTA 58.552 33.333 0.00 0.00 0.00 0.98
3104 3508 7.300658 AGCCCTGATGATGGTTTAGAAATATT 58.699 34.615 0.00 0.00 0.00 1.28
3127 3534 1.648467 GGCATGAACCACTTCGGAGC 61.648 60.000 0.00 0.00 38.63 4.70
3379 3786 4.654091 TGAAGGAAAACTTTTGCTGGAG 57.346 40.909 8.86 0.00 40.21 3.86
3412 3819 1.631405 TGAGGTTGAAAATGCCAGGG 58.369 50.000 0.00 0.00 0.00 4.45
3448 3855 2.747855 CCTTTGCACGAGGGCTCC 60.748 66.667 7.32 0.00 34.04 4.70
3484 3891 0.392193 CAGACGGCAGCATTTCCTCT 60.392 55.000 0.00 0.00 0.00 3.69
3604 4011 2.187946 CTGATCCTGCCGTCCCAC 59.812 66.667 0.00 0.00 0.00 4.61
3710 4117 4.408821 TGGCCGGCCATGTGAGAC 62.409 66.667 44.23 15.73 41.89 3.36
3819 4226 2.403987 GCGATTCAGCAGCAGCAG 59.596 61.111 3.17 0.00 45.49 4.24
3820 4227 3.493440 CGCGATTCAGCAGCAGCA 61.493 61.111 0.00 0.00 45.49 4.41
3821 4228 4.883300 GCGCGATTCAGCAGCAGC 62.883 66.667 12.10 0.00 42.56 5.25
3836 4243 0.673333 TACAAGCACTGGTCCATGCG 60.673 55.000 15.99 8.92 46.74 4.73
3938 4346 0.618981 GGGGTGGTACAAAGCTAGCT 59.381 55.000 12.68 12.68 44.16 3.32
4047 4462 3.734231 ACTAACATTTCCGCGTCATATCG 59.266 43.478 4.92 0.00 0.00 2.92
4054 4469 2.073816 CTTCCACTAACATTTCCGCGT 58.926 47.619 4.92 0.00 0.00 6.01
4071 4486 5.644206 GGGAGGAGAATTTACACTCAACTTC 59.356 44.000 0.00 0.00 35.17 3.01
4155 4590 6.559810 ACACTGAATTTTGAACGAATGAACA 58.440 32.000 0.00 0.00 0.00 3.18
4195 4630 9.212641 CTGAATAGTACAAGCATACAAGCATAT 57.787 33.333 0.00 0.00 36.85 1.78
4282 4718 6.378280 AGGGACAATAATTACCTTTTCAGCAG 59.622 38.462 0.00 0.00 0.00 4.24
4356 4792 2.105134 TGGGACGAACAAGTAACATGGT 59.895 45.455 0.00 0.00 0.00 3.55
4404 4840 0.038744 TTTCGGACGGAGGGAGTACT 59.961 55.000 0.00 0.00 0.00 2.73
4405 4841 0.890683 TTTTCGGACGGAGGGAGTAC 59.109 55.000 0.00 0.00 0.00 2.73
4407 4843 0.249398 CATTTTCGGACGGAGGGAGT 59.751 55.000 0.00 0.00 0.00 3.85
4408 4844 1.090052 GCATTTTCGGACGGAGGGAG 61.090 60.000 0.00 0.00 0.00 4.30
4409 4845 1.078708 GCATTTTCGGACGGAGGGA 60.079 57.895 0.00 0.00 0.00 4.20
4410 4846 0.676782 AAGCATTTTCGGACGGAGGG 60.677 55.000 0.00 0.00 0.00 4.30
4413 4849 1.153353 GACAAGCATTTTCGGACGGA 58.847 50.000 0.00 0.00 0.00 4.69
4414 4850 0.871722 TGACAAGCATTTTCGGACGG 59.128 50.000 0.00 0.00 0.00 4.79
4415 4851 2.159430 TGATGACAAGCATTTTCGGACG 59.841 45.455 0.00 0.00 37.34 4.79
4416 4852 3.829886 TGATGACAAGCATTTTCGGAC 57.170 42.857 0.00 0.00 37.34 4.79
4417 4853 4.844998 TTTGATGACAAGCATTTTCGGA 57.155 36.364 0.00 0.00 37.34 4.55
4418 4854 5.634439 TCATTTTGATGACAAGCATTTTCGG 59.366 36.000 0.00 0.00 37.34 4.30
4419 4855 6.693761 TCATTTTGATGACAAGCATTTTCG 57.306 33.333 0.00 0.00 37.34 3.46
4424 4860 9.932207 TCTTTTATTCATTTTGATGACAAGCAT 57.068 25.926 0.00 0.00 40.77 3.79
4425 4861 9.761504 TTCTTTTATTCATTTTGATGACAAGCA 57.238 25.926 0.00 0.00 37.32 3.91
4462 4898 9.570488 GGGATGTATCTTGAACTAATATACGTC 57.430 37.037 0.00 0.00 40.32 4.34
4463 4899 9.310449 AGGGATGTATCTTGAACTAATATACGT 57.690 33.333 0.00 0.00 33.39 3.57
4471 4907 9.847224 GGATAAAAAGGGATGTATCTTGAACTA 57.153 33.333 0.00 0.00 0.00 2.24
4472 4908 8.336235 TGGATAAAAAGGGATGTATCTTGAACT 58.664 33.333 0.00 0.00 0.00 3.01
4473 4909 8.519799 TGGATAAAAAGGGATGTATCTTGAAC 57.480 34.615 0.00 0.00 0.00 3.18
4474 4910 9.713684 AATGGATAAAAAGGGATGTATCTTGAA 57.286 29.630 0.00 0.00 0.00 2.69
4475 4911 9.713684 AAATGGATAAAAAGGGATGTATCTTGA 57.286 29.630 0.00 0.00 0.00 3.02
4478 4914 8.927411 CCAAAATGGATAAAAAGGGATGTATCT 58.073 33.333 0.00 0.00 40.96 1.98
4479 4915 8.704668 ACCAAAATGGATAAAAAGGGATGTATC 58.295 33.333 2.85 0.00 40.96 2.24
4480 4916 8.485392 CACCAAAATGGATAAAAAGGGATGTAT 58.515 33.333 2.85 0.00 40.96 2.29
4481 4917 7.676043 TCACCAAAATGGATAAAAAGGGATGTA 59.324 33.333 2.85 0.00 40.96 2.29
4482 4918 6.500049 TCACCAAAATGGATAAAAAGGGATGT 59.500 34.615 2.85 0.00 40.96 3.06
4483 4919 6.818142 GTCACCAAAATGGATAAAAAGGGATG 59.182 38.462 2.85 0.00 40.96 3.51
4484 4920 6.500049 TGTCACCAAAATGGATAAAAAGGGAT 59.500 34.615 2.85 0.00 40.96 3.85
4485 4921 5.841237 TGTCACCAAAATGGATAAAAAGGGA 59.159 36.000 2.85 0.00 40.96 4.20
4486 4922 6.107901 TGTCACCAAAATGGATAAAAAGGG 57.892 37.500 2.85 0.00 40.96 3.95
4487 4923 7.216494 ACTTGTCACCAAAATGGATAAAAAGG 58.784 34.615 2.85 0.00 40.96 3.11
4488 4924 9.927668 ATACTTGTCACCAAAATGGATAAAAAG 57.072 29.630 2.85 2.00 40.96 2.27
4492 4928 9.921637 GAAAATACTTGTCACCAAAATGGATAA 57.078 29.630 2.85 0.00 40.96 1.75
4493 4929 8.240682 CGAAAATACTTGTCACCAAAATGGATA 58.759 33.333 2.85 0.00 40.96 2.59
4494 4930 7.090173 CGAAAATACTTGTCACCAAAATGGAT 58.910 34.615 2.85 0.00 40.96 3.41
4495 4931 6.442952 CGAAAATACTTGTCACCAAAATGGA 58.557 36.000 2.85 0.00 40.96 3.41
4496 4932 5.633182 CCGAAAATACTTGTCACCAAAATGG 59.367 40.000 0.00 0.00 45.02 3.16
4497 4933 6.442952 TCCGAAAATACTTGTCACCAAAATG 58.557 36.000 0.00 0.00 0.00 2.32
4498 4934 6.642707 TCCGAAAATACTTGTCACCAAAAT 57.357 33.333 0.00 0.00 0.00 1.82
4499 4935 6.442952 CATCCGAAAATACTTGTCACCAAAA 58.557 36.000 0.00 0.00 0.00 2.44
4500 4936 5.048364 CCATCCGAAAATACTTGTCACCAAA 60.048 40.000 0.00 0.00 0.00 3.28
4501 4937 4.457603 CCATCCGAAAATACTTGTCACCAA 59.542 41.667 0.00 0.00 0.00 3.67
4502 4938 4.006989 CCATCCGAAAATACTTGTCACCA 58.993 43.478 0.00 0.00 0.00 4.17
4503 4939 4.258543 TCCATCCGAAAATACTTGTCACC 58.741 43.478 0.00 0.00 0.00 4.02
4504 4940 4.332819 CCTCCATCCGAAAATACTTGTCAC 59.667 45.833 0.00 0.00 0.00 3.67
4505 4941 4.513442 CCTCCATCCGAAAATACTTGTCA 58.487 43.478 0.00 0.00 0.00 3.58
4506 4942 3.877508 CCCTCCATCCGAAAATACTTGTC 59.122 47.826 0.00 0.00 0.00 3.18
4507 4943 3.521937 TCCCTCCATCCGAAAATACTTGT 59.478 43.478 0.00 0.00 0.00 3.16
4508 4944 4.130118 CTCCCTCCATCCGAAAATACTTG 58.870 47.826 0.00 0.00 0.00 3.16
4509 4945 3.780850 ACTCCCTCCATCCGAAAATACTT 59.219 43.478 0.00 0.00 0.00 2.24
4510 4946 3.385115 ACTCCCTCCATCCGAAAATACT 58.615 45.455 0.00 0.00 0.00 2.12
4511 4947 3.840124 ACTCCCTCCATCCGAAAATAC 57.160 47.619 0.00 0.00 0.00 1.89
4512 4948 4.553678 ACTACTCCCTCCATCCGAAAATA 58.446 43.478 0.00 0.00 0.00 1.40
4513 4949 3.385115 ACTACTCCCTCCATCCGAAAAT 58.615 45.455 0.00 0.00 0.00 1.82
4514 4950 2.829023 ACTACTCCCTCCATCCGAAAA 58.171 47.619 0.00 0.00 0.00 2.29
4515 4951 2.544844 ACTACTCCCTCCATCCGAAA 57.455 50.000 0.00 0.00 0.00 3.46
4516 4952 3.398292 AGATACTACTCCCTCCATCCGAA 59.602 47.826 0.00 0.00 0.00 4.30
4517 4953 2.987437 AGATACTACTCCCTCCATCCGA 59.013 50.000 0.00 0.00 0.00 4.55
4518 4954 3.443145 AGATACTACTCCCTCCATCCG 57.557 52.381 0.00 0.00 0.00 4.18
4519 4955 4.282195 CACAAGATACTACTCCCTCCATCC 59.718 50.000 0.00 0.00 0.00 3.51
4520 4956 4.262249 GCACAAGATACTACTCCCTCCATC 60.262 50.000 0.00 0.00 0.00 3.51
4521 4957 3.643792 GCACAAGATACTACTCCCTCCAT 59.356 47.826 0.00 0.00 0.00 3.41
4522 4958 3.031736 GCACAAGATACTACTCCCTCCA 58.968 50.000 0.00 0.00 0.00 3.86
4523 4959 3.301274 AGCACAAGATACTACTCCCTCC 58.699 50.000 0.00 0.00 0.00 4.30
4524 4960 5.565834 GCATAGCACAAGATACTACTCCCTC 60.566 48.000 0.00 0.00 0.00 4.30
4525 4961 4.282195 GCATAGCACAAGATACTACTCCCT 59.718 45.833 0.00 0.00 0.00 4.20
4526 4962 4.561105 GCATAGCACAAGATACTACTCCC 58.439 47.826 0.00 0.00 0.00 4.30
4527 4963 4.561105 GGCATAGCACAAGATACTACTCC 58.439 47.826 0.00 0.00 0.00 3.85
4540 4976 2.558359 AGAAAAACACAGGGCATAGCAC 59.442 45.455 0.00 0.00 0.00 4.40
4562 4998 3.193267 ACCGCATTTGCAGATGTTTACAT 59.807 39.130 17.65 0.00 42.21 2.29
4565 5001 4.257731 TCTACCGCATTTGCAGATGTTTA 58.742 39.130 17.65 6.72 42.21 2.01
4611 5207 6.173427 ACCAAATAATGCAAGTTCCAAAGT 57.827 33.333 0.00 0.00 0.00 2.66
4613 5209 5.226396 CGACCAAATAATGCAAGTTCCAAA 58.774 37.500 0.00 0.00 0.00 3.28
4659 5255 3.266772 TGGCACCAAGTTGGATCTCTATT 59.733 43.478 28.80 0.00 40.96 1.73
4663 5259 1.168714 GTGGCACCAAGTTGGATCTC 58.831 55.000 28.80 14.08 40.96 2.75
4678 5274 5.523552 ACTTTTATTTTGTGAAGCAAGTGGC 59.476 36.000 0.00 0.00 45.30 5.01
4691 5287 8.953990 CAGTGGAACGAACTAACTTTTATTTTG 58.046 33.333 0.00 0.00 45.86 2.44
4733 5331 3.324556 CACCACAAGAACCCATTCCATTT 59.675 43.478 0.00 0.00 35.18 2.32
4734 5332 2.899256 CACCACAAGAACCCATTCCATT 59.101 45.455 0.00 0.00 35.18 3.16
4735 5333 2.528564 CACCACAAGAACCCATTCCAT 58.471 47.619 0.00 0.00 35.18 3.41
4736 5334 1.993956 CACCACAAGAACCCATTCCA 58.006 50.000 0.00 0.00 35.18 3.53
4737 5335 0.603065 GCACCACAAGAACCCATTCC 59.397 55.000 0.00 0.00 35.18 3.01
4741 5339 0.106268 ACATGCACCACAAGAACCCA 60.106 50.000 0.00 0.00 0.00 4.51
4802 5400 9.874205 ATACAATTGCATGCTAAATGTTTTAGT 57.126 25.926 21.92 9.91 0.00 2.24
4838 5436 7.168219 ACATATTTTGACATACCACTGACAGT 58.832 34.615 1.07 1.07 0.00 3.55
4841 5439 7.334421 ACTGACATATTTTGACATACCACTGAC 59.666 37.037 0.00 0.00 29.71 3.51
4842 5440 7.394016 ACTGACATATTTTGACATACCACTGA 58.606 34.615 0.00 0.00 29.71 3.41
4844 5442 7.394016 TGACTGACATATTTTGACATACCACT 58.606 34.615 0.00 0.00 29.71 4.00
4845 5443 7.334421 ACTGACTGACATATTTTGACATACCAC 59.666 37.037 0.00 0.00 29.71 4.16
4846 5444 7.334171 CACTGACTGACATATTTTGACATACCA 59.666 37.037 0.00 0.00 29.71 3.25
4848 5446 7.334421 ACCACTGACTGACATATTTTGACATAC 59.666 37.037 0.00 0.00 29.71 2.39
4850 5448 6.149973 CACCACTGACTGACATATTTTGACAT 59.850 38.462 0.00 0.00 29.71 3.06
4851 5449 5.469760 CACCACTGACTGACATATTTTGACA 59.530 40.000 0.00 0.00 0.00 3.58
4852 5450 5.617751 GCACCACTGACTGACATATTTTGAC 60.618 44.000 0.00 0.00 0.00 3.18
4853 5451 4.455533 GCACCACTGACTGACATATTTTGA 59.544 41.667 0.00 0.00 0.00 2.69
4886 5513 0.687354 ACAGCCTCAACCAATCTCGT 59.313 50.000 0.00 0.00 0.00 4.18
4888 5515 2.887152 ACAAACAGCCTCAACCAATCTC 59.113 45.455 0.00 0.00 0.00 2.75
4889 5516 2.887152 GACAAACAGCCTCAACCAATCT 59.113 45.455 0.00 0.00 0.00 2.40
4894 5521 2.809446 GTTTGACAAACAGCCTCAACC 58.191 47.619 23.14 0.00 41.04 3.77


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

AutoCloner maintained by Alex Coulton.