Multiple sequence alignment - TraesCS3D01G084500

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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 TraesCS3D01G084500 chr3D 100.000 4700 0 0 1 4700 42748501 42743802 0.000000e+00 8680.0
1 TraesCS3D01G084500 chr3D 97.895 95 2 0 4446 4540 42743962 42743868 1.050000e-36 165.0
2 TraesCS3D01G084500 chr3D 97.895 95 2 0 4540 4634 42744056 42743962 1.050000e-36 165.0
3 TraesCS3D01G084500 chr3A 94.860 3716 137 19 1 3703 54670246 54666572 0.000000e+00 5755.0
4 TraesCS3D01G084500 chr3A 90.587 818 52 7 3741 4540 54666575 54665765 0.000000e+00 1061.0
5 TraesCS3D01G084500 chr3A 89.916 119 8 1 4540 4658 54665859 54665745 2.930000e-32 150.0
6 TraesCS3D01G084500 chr3B 96.864 3093 97 0 1224 4316 66588646 66585554 0.000000e+00 5175.0
7 TraesCS3D01G084500 chr3B 88.136 59 2 2 4305 4359 66585552 66585495 1.090000e-06 65.8
8 TraesCS3D01G084500 chr1B 92.662 2562 185 1 1178 3739 32594787 32592229 0.000000e+00 3687.0
9 TraesCS3D01G084500 chrUn 91.292 2538 184 17 1308 3836 10169503 10172012 0.000000e+00 3428.0
10 TraesCS3D01G084500 chrUn 77.701 722 90 36 256 941 10168774 10169460 4.440000e-100 375.0
11 TraesCS3D01G084500 chr6D 96.296 81 3 0 1 81 380198385 380198305 2.950000e-27 134.0


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 TraesCS3D01G084500 chr3D 42743802 42748501 4699 True 8680.0 8680 100.000000 1 4700 1 chr3D.!!$R1 4699
1 TraesCS3D01G084500 chr3A 54665745 54670246 4501 True 2322.0 5755 91.787667 1 4658 3 chr3A.!!$R1 4657
2 TraesCS3D01G084500 chr3B 66585495 66588646 3151 True 2620.4 5175 92.500000 1224 4359 2 chr3B.!!$R1 3135
3 TraesCS3D01G084500 chr1B 32592229 32594787 2558 True 3687.0 3687 92.662000 1178 3739 1 chr1B.!!$R1 2561
4 TraesCS3D01G084500 chrUn 10168774 10172012 3238 False 1901.5 3428 84.496500 256 3836 2 chrUn.!!$F1 3580

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
239 240 0.895559 CTTCCCTTGTCCTGCAACCC 60.896 60.0 0.0 0.0 32.9 4.11 F
1534 1588 0.532573 GCAACAGAGTGGGATCGAGA 59.467 55.0 0.0 0.0 0.0 4.04 F
2673 2727 1.081892 CTGAGGATGCCGACAAACTG 58.918 55.0 0.0 0.0 0.0 3.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2129 2183 1.270907 TGCTTCTTCCTCTCCTCCAC 58.729 55.0 0.0 0.0 0.00 4.02 R
2847 2901 1.868713 TCCCATCGTTAAGGGCTGTA 58.131 50.0 0.0 0.0 45.07 2.74 R
4404 4485 0.036732 TCTACTTGCTGCTTGGGTGG 59.963 55.0 0.0 0.0 0.00 4.61 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
89 90 4.424711 GCACCATCCGCCCCTGAA 62.425 66.667 0.00 0.00 0.00 3.02
90 91 2.124570 CACCATCCGCCCCTGAAG 60.125 66.667 0.00 0.00 0.00 3.02
91 92 4.115199 ACCATCCGCCCCTGAAGC 62.115 66.667 0.00 0.00 0.00 3.86
92 93 3.801997 CCATCCGCCCCTGAAGCT 61.802 66.667 0.00 0.00 0.00 3.74
151 152 4.838152 GCTCGAGCGCCCCAATCA 62.838 66.667 23.61 0.00 0.00 2.57
152 153 2.587194 CTCGAGCGCCCCAATCAG 60.587 66.667 2.29 0.00 0.00 2.90
161 162 4.883354 CCCAATCAGCCGCTCCCC 62.883 72.222 0.00 0.00 0.00 4.81
187 188 3.147595 TCCTGATGCCGGACCTCG 61.148 66.667 5.05 0.00 38.88 4.63
200 201 3.461773 CCTCGCCGTCCACATCCT 61.462 66.667 0.00 0.00 0.00 3.24
232 233 1.279271 CGATTGACCTTCCCTTGTCCT 59.721 52.381 0.00 0.00 0.00 3.85
239 240 0.895559 CTTCCCTTGTCCTGCAACCC 60.896 60.000 0.00 0.00 32.90 4.11
271 272 5.186198 ACAAGTGAAGCTCTGTAAGTTGTT 58.814 37.500 0.00 0.00 31.96 2.83
317 319 4.023963 GGCTGCCGGATTCTTAACTAATTC 60.024 45.833 5.05 0.00 0.00 2.17
318 320 4.816925 GCTGCCGGATTCTTAACTAATTCT 59.183 41.667 5.05 0.00 0.00 2.40
376 381 3.935818 TGTTGTTCTGGAACCTAACCA 57.064 42.857 10.44 0.00 40.46 3.67
377 382 4.447138 TGTTGTTCTGGAACCTAACCAT 57.553 40.909 10.44 0.00 40.46 3.55
380 385 6.548321 TGTTGTTCTGGAACCTAACCATATT 58.452 36.000 10.44 0.00 40.46 1.28
407 416 1.025041 GACCGGGGAAAGATTGATGC 58.975 55.000 6.32 0.00 0.00 3.91
488 511 7.933577 TCTTAATCGGCAAGTTCATGATAATCT 59.066 33.333 0.00 0.00 0.00 2.40
490 513 4.051237 TCGGCAAGTTCATGATAATCTCG 58.949 43.478 0.00 0.00 0.00 4.04
498 528 7.721286 AGTTCATGATAATCTCGGATTGAAC 57.279 36.000 0.00 14.22 41.07 3.18
515 545 4.794278 TGAACCGATGCTACTTTAGTGA 57.206 40.909 0.00 0.00 0.00 3.41
554 584 2.980568 ACTGTTTCAAGTGTTCCGTGA 58.019 42.857 0.00 0.00 0.00 4.35
597 629 7.174413 TGATGGAAAGTTGGAATCAATCTGTA 58.826 34.615 0.00 0.00 35.10 2.74
606 638 5.687780 TGGAATCAATCTGTATGCTCACAT 58.312 37.500 0.00 0.00 40.49 3.21
610 642 7.646922 GGAATCAATCTGTATGCTCACATTTTC 59.353 37.037 0.00 0.00 37.74 2.29
611 643 7.876936 ATCAATCTGTATGCTCACATTTTCT 57.123 32.000 0.00 0.00 37.74 2.52
612 644 7.080353 TCAATCTGTATGCTCACATTTTCTG 57.920 36.000 0.00 0.00 37.74 3.02
613 645 6.880529 TCAATCTGTATGCTCACATTTTCTGA 59.119 34.615 0.00 0.00 37.74 3.27
614 646 6.922247 ATCTGTATGCTCACATTTTCTGAG 57.078 37.500 0.00 0.00 37.74 3.35
617 649 2.957402 TGCTCACATTTTCTGAGGGT 57.043 45.000 0.00 0.00 36.43 4.34
663 696 6.093495 CGCCTATTTCTATCCAAAGTGTGAAA 59.907 38.462 0.00 0.00 0.00 2.69
691 724 8.898761 AGTTAATGTTCATACAGTTGTTGAACA 58.101 29.630 26.19 26.19 46.53 3.18
704 737 8.832521 ACAGTTGTTGAACACGAAAATTCTATA 58.167 29.630 0.00 0.00 34.17 1.31
705 738 9.658475 CAGTTGTTGAACACGAAAATTCTATAA 57.342 29.630 0.00 0.00 34.17 0.98
744 780 9.523168 TTGGTTAGGTGTTAATTAGCTACAATT 57.477 29.630 0.00 0.00 32.91 2.32
761 798 9.265901 AGCTACAATTTGTCATGTATAGCTAAG 57.734 33.333 15.57 2.08 38.85 2.18
767 804 5.614324 TGTCATGTATAGCTAAGCCAACT 57.386 39.130 0.00 0.00 0.00 3.16
787 824 7.415653 GCCAACTTTTAGTGAGATCCTTATTGG 60.416 40.741 0.00 0.00 34.74 3.16
834 872 1.324736 GTCTTTAGGCGCATTCAGACG 59.675 52.381 10.83 0.00 0.00 4.18
863 901 2.434336 TCACAGCCACAGTTTAGACAGT 59.566 45.455 0.00 0.00 0.00 3.55
931 970 2.303311 GCTTCTCTCCCACAGGTACTTT 59.697 50.000 0.00 0.00 34.60 2.66
937 976 2.107552 CTCCCACAGGTACTTTCCCAAA 59.892 50.000 0.00 0.00 34.60 3.28
938 977 2.107552 TCCCACAGGTACTTTCCCAAAG 59.892 50.000 0.00 0.00 44.10 2.77
978 1032 1.197721 CCAAACACAGCCTCAATCGAC 59.802 52.381 0.00 0.00 0.00 4.20
991 1045 2.558554 AATCGACTGGGCTCGTTCGG 62.559 60.000 6.79 0.00 35.10 4.30
1003 1057 0.961857 TCGTTCGGGAGGTTCGATGA 60.962 55.000 0.00 0.00 36.49 2.92
1011 1065 2.618045 GGGAGGTTCGATGACAATGGTT 60.618 50.000 0.00 0.00 0.00 3.67
1044 1098 0.953471 CCACGGCGGTTCTTGATTCA 60.953 55.000 13.24 0.00 0.00 2.57
1068 1122 2.180017 CACATCAAGCGCTTGGCC 59.820 61.111 41.00 0.00 45.17 5.36
1099 1153 2.027625 GACCAGTTTGACCTCGCGG 61.028 63.158 6.13 0.00 0.00 6.46
1136 1190 2.516460 GAGGCTAGGCGTCCTCGA 60.516 66.667 11.10 0.00 39.43 4.04
1357 1411 3.365364 GGAAGCATTGTCTTTGTTCTCGG 60.365 47.826 0.00 0.00 0.00 4.63
1419 1473 3.125316 GTGTCACCGTCATTTCCATTCTC 59.875 47.826 0.00 0.00 0.00 2.87
1534 1588 0.532573 GCAACAGAGTGGGATCGAGA 59.467 55.000 0.00 0.00 0.00 4.04
1614 1668 1.302752 TTTCGCCAGCATGCTGAGT 60.303 52.632 42.21 10.61 46.30 3.41
1887 1941 1.376466 GAGGCTTGGTCTTGAGGCA 59.624 57.895 0.00 0.00 40.58 4.75
2055 2109 2.627515 TTGGAGCTACAGATGATGCC 57.372 50.000 0.00 0.00 0.00 4.40
2067 2121 7.707893 GCTACAGATGATGCCAAAACATTATTT 59.292 33.333 0.00 0.00 0.00 1.40
2129 2183 5.760253 CCCTTATAGTTGGACTTGCACATAG 59.240 44.000 0.00 0.00 0.00 2.23
2135 2189 1.278985 TGGACTTGCACATAGTGGAGG 59.721 52.381 0.00 0.00 37.05 4.30
2673 2727 1.081892 CTGAGGATGCCGACAAACTG 58.918 55.000 0.00 0.00 0.00 3.16
2745 2799 3.017048 TCAGGGTATGCTCAAAATGGG 57.983 47.619 0.00 0.00 0.00 4.00
2766 2820 4.095483 GGGTACAGTTCTCAATCATTGCTG 59.905 45.833 0.00 0.00 0.00 4.41
2847 2901 7.882271 AGTATTCTCAAAGCTTGTTCAGAGATT 59.118 33.333 0.00 7.52 32.76 2.40
2853 2907 3.604582 AGCTTGTTCAGAGATTACAGCC 58.395 45.455 0.00 0.00 0.00 4.85
2949 3003 4.141711 GCCCTCATAGACATGTACTCCAAA 60.142 45.833 0.00 0.00 33.57 3.28
3162 3216 3.280197 TGTGCTCATGCTGGCTTAATA 57.720 42.857 6.68 0.00 40.48 0.98
3168 3222 4.153835 GCTCATGCTGGCTTAATATCTGTC 59.846 45.833 0.00 0.00 36.03 3.51
3173 3227 3.492656 GCTGGCTTAATATCTGTCGGTCA 60.493 47.826 0.00 0.00 0.00 4.02
3514 3573 4.202441 AGCAATGCGAGAAAATGGAGTAT 58.798 39.130 0.00 0.00 0.00 2.12
3543 3602 0.459585 CGGGATGTAGTTGGGTCACG 60.460 60.000 0.00 0.00 0.00 4.35
3597 3656 2.104963 AGACAAGAAACACCCTGACTCC 59.895 50.000 0.00 0.00 0.00 3.85
3786 3847 3.866651 CCAATCCAGGACTTGTGTAGAG 58.133 50.000 0.00 0.00 0.00 2.43
3871 3934 5.830912 TGACCACTTTATTTTCTGCAGTTG 58.169 37.500 14.67 0.00 0.00 3.16
3926 3989 0.187117 TGGTTTCACCCTGCATTCCA 59.813 50.000 0.00 0.00 37.50 3.53
3958 4021 5.297029 GGAGCCTAATTACCTGTGATGAAAC 59.703 44.000 0.00 0.00 0.00 2.78
3980 4043 3.488553 CCACTTTGTTCAGGTTCGTTTCC 60.489 47.826 0.00 0.00 0.00 3.13
4047 4111 1.815003 CTGAGGGCTCGCAAAATTTCT 59.185 47.619 0.00 0.00 0.00 2.52
4165 4229 6.780031 ACTAGAACTCATATATGCTCAGGTGT 59.220 38.462 7.92 0.79 0.00 4.16
4171 4235 6.126940 ACTCATATATGCTCAGGTGTTTCAGT 60.127 38.462 7.92 0.00 0.00 3.41
4265 4329 8.378565 TCTGTTCTAATCTTGATTTCCTGTCTT 58.621 33.333 0.95 0.00 0.00 3.01
4344 4425 5.535753 TTCCGATCTCTTATGCATTCAGA 57.464 39.130 3.54 6.30 0.00 3.27
4350 4431 4.625028 TCTCTTATGCATTCAGATGGTCG 58.375 43.478 3.54 0.00 33.72 4.79
4352 4433 2.549064 TATGCATTCAGATGGTCGGG 57.451 50.000 3.54 0.00 33.72 5.14
4353 4434 0.548031 ATGCATTCAGATGGTCGGGT 59.452 50.000 0.00 0.00 33.72 5.28
4395 4476 3.395273 TCCATGACATCCATCATAAGCCA 59.605 43.478 0.00 0.00 37.20 4.75
4396 4477 4.043686 TCCATGACATCCATCATAAGCCAT 59.956 41.667 0.00 0.00 37.20 4.40
4404 4485 9.265901 GACATCCATCATAAGCCATATATACAC 57.734 37.037 0.00 0.00 0.00 2.90
4415 4496 4.326826 CCATATATACACCACCCAAGCAG 58.673 47.826 0.00 0.00 0.00 4.24
4416 4497 2.348411 ATATACACCACCCAAGCAGC 57.652 50.000 0.00 0.00 0.00 5.25
4431 4512 3.601443 AGCAGCAAGTAGACTAGTTGG 57.399 47.619 24.81 14.08 39.06 3.77
4434 4515 4.712337 AGCAGCAAGTAGACTAGTTGGTAT 59.288 41.667 26.44 18.29 45.15 2.73
4435 4516 5.187967 AGCAGCAAGTAGACTAGTTGGTATT 59.812 40.000 26.44 17.69 45.15 1.89
4442 4523 7.005709 AGTAGACTAGTTGGTATTGCAGTTT 57.994 36.000 0.00 0.00 0.00 2.66
4457 4538 3.872511 CAGTTTTGCAGGATATTGCCA 57.127 42.857 0.00 0.00 43.43 4.92
4467 4548 4.986659 GCAGGATATTGCCAATTCATGAAC 59.013 41.667 11.07 0.00 38.13 3.18
4508 4589 1.822581 GTGTTCGCACAAGGTTTGTC 58.177 50.000 0.00 0.00 46.85 3.18
4509 4590 0.736053 TGTTCGCACAAGGTTTGTCC 59.264 50.000 0.00 0.00 43.23 4.02
4510 4591 0.736053 GTTCGCACAAGGTTTGTCCA 59.264 50.000 0.00 0.00 43.23 4.02
4511 4592 1.133407 GTTCGCACAAGGTTTGTCCAA 59.867 47.619 0.00 0.00 43.23 3.53
4512 4593 1.021202 TCGCACAAGGTTTGTCCAAG 58.979 50.000 0.00 0.00 43.23 3.61
4513 4594 0.738389 CGCACAAGGTTTGTCCAAGT 59.262 50.000 0.00 0.00 43.23 3.16
4514 4595 1.134175 CGCACAAGGTTTGTCCAAGTT 59.866 47.619 0.00 0.00 43.23 2.66
4515 4596 2.416701 CGCACAAGGTTTGTCCAAGTTT 60.417 45.455 0.00 0.00 43.23 2.66
4516 4597 3.186909 GCACAAGGTTTGTCCAAGTTTC 58.813 45.455 0.00 0.00 43.23 2.78
4517 4598 3.119137 GCACAAGGTTTGTCCAAGTTTCT 60.119 43.478 0.00 0.00 43.23 2.52
4518 4599 4.423732 CACAAGGTTTGTCCAAGTTTCTG 58.576 43.478 0.00 0.00 43.23 3.02
4519 4600 3.119137 ACAAGGTTTGTCCAAGTTTCTGC 60.119 43.478 0.00 0.00 40.56 4.26
4520 4601 2.031870 AGGTTTGTCCAAGTTTCTGCC 58.968 47.619 0.00 0.00 39.02 4.85
4521 4602 1.754226 GGTTTGTCCAAGTTTCTGCCA 59.246 47.619 0.00 0.00 35.97 4.92
4522 4603 2.223805 GGTTTGTCCAAGTTTCTGCCAG 60.224 50.000 0.00 0.00 35.97 4.85
4523 4604 2.687935 GTTTGTCCAAGTTTCTGCCAGA 59.312 45.455 0.00 0.00 0.00 3.86
4524 4605 2.727123 TGTCCAAGTTTCTGCCAGAA 57.273 45.000 2.24 2.24 31.28 3.02
4525 4606 2.297701 TGTCCAAGTTTCTGCCAGAAC 58.702 47.619 6.65 2.95 33.26 3.01
4526 4607 2.092429 TGTCCAAGTTTCTGCCAGAACT 60.092 45.455 6.65 5.27 33.26 3.01
4527 4608 2.952310 GTCCAAGTTTCTGCCAGAACTT 59.048 45.455 6.65 10.86 33.26 2.66
4528 4609 2.951642 TCCAAGTTTCTGCCAGAACTTG 59.048 45.455 26.06 26.06 39.81 3.16
4542 4623 4.615949 CAGAACTTGGATCGAGATACAGG 58.384 47.826 5.95 5.95 35.12 4.00
4543 4624 4.339530 CAGAACTTGGATCGAGATACAGGA 59.660 45.833 13.42 0.00 32.92 3.86
4544 4625 5.010516 CAGAACTTGGATCGAGATACAGGAT 59.989 44.000 13.42 2.47 32.92 3.24
4545 4626 6.207614 CAGAACTTGGATCGAGATACAGGATA 59.792 42.308 13.42 0.00 32.92 2.59
4546 4627 6.951198 AGAACTTGGATCGAGATACAGGATAT 59.049 38.462 13.42 0.00 32.92 1.63
4547 4628 7.453126 AGAACTTGGATCGAGATACAGGATATT 59.547 37.037 13.42 0.00 32.92 1.28
4548 4629 6.929625 ACTTGGATCGAGATACAGGATATTG 58.070 40.000 13.42 0.00 32.92 1.90
4549 4630 5.330455 TGGATCGAGATACAGGATATTGC 57.670 43.478 0.00 0.00 0.00 3.56
4550 4631 4.160439 TGGATCGAGATACAGGATATTGCC 59.840 45.833 0.00 0.00 0.00 4.52
4551 4632 4.160439 GGATCGAGATACAGGATATTGCCA 59.840 45.833 0.00 0.00 0.00 4.92
4552 4633 5.337571 GGATCGAGATACAGGATATTGCCAA 60.338 44.000 0.00 0.00 0.00 4.52
4553 4634 5.745312 TCGAGATACAGGATATTGCCAAT 57.255 39.130 0.00 0.00 0.00 3.16
4554 4635 6.114187 TCGAGATACAGGATATTGCCAATT 57.886 37.500 0.00 0.00 0.00 2.32
4555 4636 6.166279 TCGAGATACAGGATATTGCCAATTC 58.834 40.000 0.00 0.00 0.00 2.17
4556 4637 5.934043 CGAGATACAGGATATTGCCAATTCA 59.066 40.000 0.00 0.00 0.00 2.57
4557 4638 6.596888 CGAGATACAGGATATTGCCAATTCAT 59.403 38.462 0.00 0.00 0.00 2.57
4558 4639 7.413767 CGAGATACAGGATATTGCCAATTCATG 60.414 40.741 0.00 4.28 0.00 3.07
4559 4640 7.464273 AGATACAGGATATTGCCAATTCATGA 58.536 34.615 15.81 0.00 0.00 3.07
4560 4641 7.946219 AGATACAGGATATTGCCAATTCATGAA 59.054 33.333 11.26 11.26 0.00 2.57
4561 4642 6.989155 ACAGGATATTGCCAATTCATGAAT 57.011 33.333 15.36 15.36 0.00 2.57
4562 4643 7.369551 ACAGGATATTGCCAATTCATGAATT 57.630 32.000 24.83 24.83 41.33 2.17
4563 4644 7.798071 ACAGGATATTGCCAATTCATGAATTT 58.202 30.769 27.30 16.75 38.84 1.82
4564 4645 8.926374 ACAGGATATTGCCAATTCATGAATTTA 58.074 29.630 27.30 18.16 38.84 1.40
4565 4646 9.419297 CAGGATATTGCCAATTCATGAATTTAG 57.581 33.333 27.30 22.02 38.84 1.85
4566 4647 9.151177 AGGATATTGCCAATTCATGAATTTAGT 57.849 29.630 27.30 16.54 38.84 2.24
4567 4648 9.768662 GGATATTGCCAATTCATGAATTTAGTT 57.231 29.630 27.30 15.18 38.84 2.24
4571 4652 9.675464 ATTGCCAATTCATGAATTTAGTTGATT 57.325 25.926 27.30 5.24 38.84 2.57
4572 4653 8.481974 TGCCAATTCATGAATTTAGTTGATTG 57.518 30.769 27.30 15.86 38.84 2.67
4573 4654 7.064847 TGCCAATTCATGAATTTAGTTGATTGC 59.935 33.333 27.30 16.98 38.84 3.56
4574 4655 7.064847 GCCAATTCATGAATTTAGTTGATTGCA 59.935 33.333 27.30 0.00 38.84 4.08
4575 4656 8.385111 CCAATTCATGAATTTAGTTGATTGCAC 58.615 33.333 27.30 0.00 38.84 4.57
4576 4657 9.146984 CAATTCATGAATTTAGTTGATTGCACT 57.853 29.630 27.30 2.01 38.84 4.40
4577 4658 8.697846 ATTCATGAATTTAGTTGATTGCACTG 57.302 30.769 15.36 0.00 0.00 3.66
4578 4659 6.094719 TCATGAATTTAGTTGATTGCACTGC 58.905 36.000 0.00 0.00 0.00 4.40
4579 4660 5.710513 TGAATTTAGTTGATTGCACTGCT 57.289 34.783 1.98 0.00 0.00 4.24
4580 4661 5.463286 TGAATTTAGTTGATTGCACTGCTG 58.537 37.500 1.98 0.00 0.00 4.41
4581 4662 5.241285 TGAATTTAGTTGATTGCACTGCTGA 59.759 36.000 1.98 0.00 0.00 4.26
4582 4663 5.909621 ATTTAGTTGATTGCACTGCTGAT 57.090 34.783 1.98 0.00 0.00 2.90
4583 4664 4.690184 TTAGTTGATTGCACTGCTGATG 57.310 40.909 1.98 0.00 0.00 3.07
4584 4665 2.511659 AGTTGATTGCACTGCTGATGT 58.488 42.857 1.98 0.00 0.00 3.06
4585 4666 2.228103 AGTTGATTGCACTGCTGATGTG 59.772 45.455 1.98 0.00 38.36 3.21
4586 4667 1.900245 TGATTGCACTGCTGATGTGT 58.100 45.000 1.98 0.00 37.70 3.72
4587 4668 2.232399 TGATTGCACTGCTGATGTGTT 58.768 42.857 1.98 0.00 37.70 3.32
4588 4669 2.227149 TGATTGCACTGCTGATGTGTTC 59.773 45.455 1.98 0.00 37.70 3.18
4589 4670 0.587768 TTGCACTGCTGATGTGTTCG 59.412 50.000 1.98 0.00 37.70 3.95
4590 4671 1.154338 GCACTGCTGATGTGTTCGC 60.154 57.895 0.00 0.00 37.70 4.70
4591 4672 1.844771 GCACTGCTGATGTGTTCGCA 61.845 55.000 0.00 0.00 37.70 5.10
4638 4719 5.067153 CAGAACTTGGATCGAGATACTGTCT 59.933 44.000 0.00 0.00 40.81 3.41
4639 4720 5.654650 AGAACTTGGATCGAGATACTGTCTT 59.345 40.000 0.00 0.00 37.29 3.01
4640 4721 5.923733 ACTTGGATCGAGATACTGTCTTT 57.076 39.130 0.00 0.00 37.29 2.52
4641 4722 6.287589 ACTTGGATCGAGATACTGTCTTTT 57.712 37.500 0.00 0.00 37.29 2.27
4642 4723 7.406031 ACTTGGATCGAGATACTGTCTTTTA 57.594 36.000 0.00 0.00 37.29 1.52
4643 4724 8.012957 ACTTGGATCGAGATACTGTCTTTTAT 57.987 34.615 0.00 0.00 37.29 1.40
4680 4761 9.045223 TGTATCATACTTGTACTCAAATCATGC 57.955 33.333 0.00 0.00 32.87 4.06
4681 4762 9.265901 GTATCATACTTGTACTCAAATCATGCT 57.734 33.333 0.00 0.00 32.87 3.79
4682 4763 8.743085 ATCATACTTGTACTCAAATCATGCTT 57.257 30.769 0.00 0.00 32.87 3.91
4683 4764 8.565896 TCATACTTGTACTCAAATCATGCTTT 57.434 30.769 0.00 0.00 32.87 3.51
4684 4765 8.668353 TCATACTTGTACTCAAATCATGCTTTC 58.332 33.333 0.00 0.00 32.87 2.62
4685 4766 8.671921 CATACTTGTACTCAAATCATGCTTTCT 58.328 33.333 0.00 0.00 32.87 2.52
4686 4767 7.516198 ACTTGTACTCAAATCATGCTTTCTT 57.484 32.000 0.00 0.00 32.87 2.52
4687 4768 7.945134 ACTTGTACTCAAATCATGCTTTCTTT 58.055 30.769 0.00 0.00 32.87 2.52
4688 4769 8.078596 ACTTGTACTCAAATCATGCTTTCTTTC 58.921 33.333 0.00 0.00 32.87 2.62
4689 4770 7.750229 TGTACTCAAATCATGCTTTCTTTCT 57.250 32.000 0.00 0.00 0.00 2.52
4690 4771 7.587629 TGTACTCAAATCATGCTTTCTTTCTG 58.412 34.615 0.00 0.00 0.00 3.02
4691 4772 6.889301 ACTCAAATCATGCTTTCTTTCTGA 57.111 33.333 0.00 0.00 0.00 3.27
4692 4773 6.910995 ACTCAAATCATGCTTTCTTTCTGAG 58.089 36.000 5.34 5.34 0.00 3.35
4693 4774 6.489361 ACTCAAATCATGCTTTCTTTCTGAGT 59.511 34.615 6.33 6.33 0.00 3.41
4694 4775 7.014038 ACTCAAATCATGCTTTCTTTCTGAGTT 59.986 33.333 6.33 0.00 0.00 3.01
4695 4776 7.719483 TCAAATCATGCTTTCTTTCTGAGTTT 58.281 30.769 0.00 0.00 0.00 2.66
4696 4777 8.199449 TCAAATCATGCTTTCTTTCTGAGTTTT 58.801 29.630 0.00 0.00 0.00 2.43
4697 4778 8.823818 CAAATCATGCTTTCTTTCTGAGTTTTT 58.176 29.630 0.00 0.00 0.00 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 1.141234 CGGCGGGTAAAGGAGAGAC 59.859 63.158 0.00 0.00 0.00 3.36
85 86 4.821589 GTCGGGGGCGAGCTTCAG 62.822 72.222 0.00 0.00 0.00 3.02
143 144 4.883354 GGGAGCGGCTGATTGGGG 62.883 72.222 7.50 0.00 0.00 4.96
144 145 4.883354 GGGGAGCGGCTGATTGGG 62.883 72.222 7.50 0.00 0.00 4.12
145 146 4.883354 GGGGGAGCGGCTGATTGG 62.883 72.222 7.50 0.00 0.00 3.16
161 162 1.144057 GGCATCAGGACGTACTGGG 59.856 63.158 27.28 19.89 38.98 4.45
187 188 2.821366 CAGCAGGATGTGGACGGC 60.821 66.667 0.00 0.00 39.31 5.68
232 233 2.592287 GTTCCCGTTCGGGTTGCA 60.592 61.111 26.30 7.65 45.43 4.08
239 240 0.234884 GCTTCACTTGTTCCCGTTCG 59.765 55.000 0.00 0.00 0.00 3.95
246 247 5.294552 ACAACTTACAGAGCTTCACTTGTTC 59.705 40.000 0.00 0.00 0.00 3.18
345 350 7.611855 AGGTTCCAGAACAACAAAATAGATAGG 59.388 37.037 12.32 0.00 42.85 2.57
376 381 5.309543 TCTTTCCCCGGTCATACATGAATAT 59.690 40.000 0.00 0.00 38.75 1.28
377 382 4.656575 TCTTTCCCCGGTCATACATGAATA 59.343 41.667 0.00 0.00 38.75 1.75
380 385 2.473070 TCTTTCCCCGGTCATACATGA 58.527 47.619 0.00 0.00 0.00 3.07
407 416 4.728882 GCACAGGCAAGAAATGTATCTTCG 60.729 45.833 0.00 0.00 37.56 3.79
469 492 3.185188 CCGAGATTATCATGAACTTGCCG 59.815 47.826 0.00 0.21 0.00 5.69
490 513 5.006746 CACTAAAGTAGCATCGGTTCAATCC 59.993 44.000 0.00 0.00 0.00 3.01
498 528 3.165058 TGCTCACTAAAGTAGCATCGG 57.835 47.619 9.00 0.00 41.15 4.18
542 572 1.070758 AGCATCAGTCACGGAACACTT 59.929 47.619 0.00 0.00 0.00 3.16
554 584 4.940046 CCATCAGAAGTACAAAGCATCAGT 59.060 41.667 0.00 0.00 0.00 3.41
597 629 3.087031 CACCCTCAGAAAATGTGAGCAT 58.913 45.455 0.00 0.00 40.22 3.79
606 638 4.626287 GCATGGAGATACACCCTCAGAAAA 60.626 45.833 0.00 0.00 32.48 2.29
610 642 1.269988 CGCATGGAGATACACCCTCAG 60.270 57.143 0.00 0.00 32.48 3.35
611 643 0.752658 CGCATGGAGATACACCCTCA 59.247 55.000 0.00 0.00 32.48 3.86
612 644 1.040646 TCGCATGGAGATACACCCTC 58.959 55.000 0.00 0.00 0.00 4.30
613 645 1.345741 CATCGCATGGAGATACACCCT 59.654 52.381 0.00 0.00 0.00 4.34
614 646 1.800805 CATCGCATGGAGATACACCC 58.199 55.000 0.00 0.00 0.00 4.61
617 649 1.138661 TGTGCATCGCATGGAGATACA 59.861 47.619 0.00 0.00 41.91 2.29
744 780 5.989477 AGTTGGCTTAGCTATACATGACAA 58.011 37.500 3.59 0.00 0.00 3.18
761 798 7.415653 CCAATAAGGATCTCACTAAAAGTTGGC 60.416 40.741 0.00 0.00 41.22 4.52
787 824 4.705023 AGGGGATGTTTACATGCTGTTTAC 59.295 41.667 13.01 0.00 43.17 2.01
834 872 2.561569 ACTGTGGCTGTGAGTGTAAAC 58.438 47.619 0.00 0.00 0.00 2.01
931 970 0.823356 GTGGCTTGACAGCTTTGGGA 60.823 55.000 0.00 0.00 46.44 4.37
955 1009 2.811431 CGATTGAGGCTGTGTTTGGTTA 59.189 45.455 0.00 0.00 0.00 2.85
978 1032 4.148825 CCTCCCGAACGAGCCCAG 62.149 72.222 0.00 0.00 0.00 4.45
991 1045 2.403252 ACCATTGTCATCGAACCTCC 57.597 50.000 0.00 0.00 0.00 4.30
1003 1057 1.834188 GGATTCACCCGAACCATTGT 58.166 50.000 0.00 0.00 32.81 2.71
1026 1080 1.086696 ATGAATCAAGAACCGCCGTG 58.913 50.000 0.00 0.00 0.00 4.94
1039 1093 4.277258 CGCTTGATGTGCTTGTATGAATC 58.723 43.478 0.00 0.00 0.00 2.52
1074 1128 3.235481 TCAAACTGGTCCGGCCGA 61.235 61.111 30.73 10.38 41.21 5.54
1118 1172 3.597728 CGAGGACGCCTAGCCTCC 61.598 72.222 8.15 0.00 46.32 4.30
1119 1173 2.516460 TCGAGGACGCCTAGCCTC 60.516 66.667 0.00 0.00 45.73 4.70
1125 1179 3.374402 CCACAGTCGAGGACGCCT 61.374 66.667 0.00 0.00 37.67 5.52
1127 1181 4.357947 TGCCACAGTCGAGGACGC 62.358 66.667 0.00 0.00 37.67 5.19
1129 1183 1.664965 GTGTGCCACAGTCGAGGAC 60.665 63.158 0.00 0.00 34.08 3.85
1382 1436 2.325583 GACACAAGTCACTTGGTCCA 57.674 50.000 21.71 0.00 44.81 4.02
1419 1473 4.148825 AGCCTACCCAAGCTCGCG 62.149 66.667 0.00 0.00 32.71 5.87
1494 1548 2.739609 CGCATAACTGGAGATGACAGCA 60.740 50.000 0.00 0.00 39.55 4.41
1534 1588 7.678171 ACCCTTATACAATCCAAAAACCTCATT 59.322 33.333 0.00 0.00 0.00 2.57
1614 1668 1.395635 CCTTCATATTGGCTGCTGCA 58.604 50.000 17.89 0.88 41.91 4.41
1887 1941 2.293677 ACTGACGAACGTGAACTCATCT 59.706 45.455 4.19 0.00 0.00 2.90
2129 2183 1.270907 TGCTTCTTCCTCTCCTCCAC 58.729 55.000 0.00 0.00 0.00 4.02
2135 2189 4.036144 GCATACCAATTGCTTCTTCCTCTC 59.964 45.833 0.00 0.00 37.14 3.20
2673 2727 2.935201 GTGATCTGGCATCTCTGTCAAC 59.065 50.000 0.00 0.00 36.34 3.18
2745 2799 5.409520 TGACAGCAATGATTGAGAACTGTAC 59.590 40.000 9.76 7.46 37.05 2.90
2766 2820 2.095059 ACTGCGCATTCTCCAAAATGAC 60.095 45.455 12.24 0.00 38.64 3.06
2847 2901 1.868713 TCCCATCGTTAAGGGCTGTA 58.131 50.000 0.00 0.00 45.07 2.74
2853 2907 5.914033 TGTATCTCTTTCCCATCGTTAAGG 58.086 41.667 0.00 0.00 0.00 2.69
2919 2973 3.639094 ACATGTCTATGAGGGCACTAGTC 59.361 47.826 0.00 0.00 37.73 2.59
2949 3003 2.915604 GGATGAGGTGATATCCCCACAT 59.084 50.000 15.13 15.13 37.48 3.21
3168 3222 6.479990 TCATAGAATCAAAGTAATGCTGACCG 59.520 38.462 0.00 0.00 0.00 4.79
3514 3573 4.461081 CCAACTACATCCCGGAAATTTTGA 59.539 41.667 0.73 0.00 0.00 2.69
3543 3602 2.861147 AGCTTGTCTTGTTCCCTACC 57.139 50.000 0.00 0.00 0.00 3.18
3597 3656 6.932356 TCAAGCTTTTCATAGATGCTAAGG 57.068 37.500 0.00 0.00 33.28 2.69
3786 3847 4.281898 TCTTTACCTCAGTAACCAAGCC 57.718 45.455 0.00 0.00 38.19 4.35
3871 3934 1.660167 TGCTGATGCAGTGATGCTAC 58.340 50.000 0.00 0.00 45.31 3.58
3958 4021 3.488553 GGAAACGAACCTGAACAAAGTGG 60.489 47.826 0.00 0.00 0.00 4.00
4047 4111 7.178628 GCCATCTTGGTATCCACTACTAGATAA 59.821 40.741 0.00 0.00 40.46 1.75
4165 4229 9.766277 GTGTTAAAATGAATGCAAAAACTGAAA 57.234 25.926 0.00 0.00 0.00 2.69
4379 4460 8.213679 GGTGTATATATGGCTTATGATGGATGT 58.786 37.037 3.33 0.00 0.00 3.06
4395 4476 3.394274 TGCTGCTTGGGTGGTGTATATAT 59.606 43.478 0.00 0.00 0.00 0.86
4396 4477 2.774809 TGCTGCTTGGGTGGTGTATATA 59.225 45.455 0.00 0.00 0.00 0.86
4404 4485 0.036732 TCTACTTGCTGCTTGGGTGG 59.963 55.000 0.00 0.00 0.00 4.61
4415 4496 5.175859 TGCAATACCAACTAGTCTACTTGC 58.824 41.667 16.77 16.77 37.54 4.01
4416 4497 6.398918 ACTGCAATACCAACTAGTCTACTTG 58.601 40.000 0.00 0.00 0.00 3.16
4431 4512 5.232838 GCAATATCCTGCAAAACTGCAATAC 59.767 40.000 0.97 0.00 44.88 1.89
4434 4515 3.587923 GCAATATCCTGCAAAACTGCAA 58.412 40.909 0.97 0.00 44.88 4.08
4435 4516 2.094078 GGCAATATCCTGCAAAACTGCA 60.094 45.455 1.99 0.00 44.52 4.41
4442 4523 4.650131 TCATGAATTGGCAATATCCTGCAA 59.350 37.500 14.05 0.00 44.52 4.08
4450 4531 8.347004 TCAACTAAGTTCATGAATTGGCAATA 57.653 30.769 14.05 0.00 0.00 1.90
4457 4538 7.811236 CAGTGCAATCAACTAAGTTCATGAATT 59.189 33.333 12.12 4.21 0.00 2.17
4467 4548 4.155462 ACATCAGCAGTGCAATCAACTAAG 59.845 41.667 19.20 0.00 0.00 2.18
4505 4586 2.092429 AGTTCTGGCAGAAACTTGGACA 60.092 45.455 30.06 3.41 35.75 4.02
4507 4588 2.951642 CAAGTTCTGGCAGAAACTTGGA 59.048 45.455 34.82 17.08 38.36 3.53
4508 4589 2.035066 CCAAGTTCTGGCAGAAACTTGG 59.965 50.000 39.64 39.64 45.47 3.61
4509 4590 2.951642 TCCAAGTTCTGGCAGAAACTTG 59.048 45.455 35.10 35.10 45.98 3.16
4510 4591 3.297134 TCCAAGTTCTGGCAGAAACTT 57.703 42.857 30.06 27.39 45.98 2.66
4511 4592 3.416156 GATCCAAGTTCTGGCAGAAACT 58.584 45.455 30.06 24.01 45.98 2.66
4512 4593 2.160417 CGATCCAAGTTCTGGCAGAAAC 59.840 50.000 30.06 22.39 45.98 2.78
4513 4594 2.038426 TCGATCCAAGTTCTGGCAGAAA 59.962 45.455 30.06 15.68 45.98 2.52
4514 4595 1.623311 TCGATCCAAGTTCTGGCAGAA 59.377 47.619 25.38 25.38 45.98 3.02
4515 4596 1.205655 CTCGATCCAAGTTCTGGCAGA 59.794 52.381 14.43 14.43 45.98 4.26
4516 4597 1.205655 TCTCGATCCAAGTTCTGGCAG 59.794 52.381 8.58 8.58 45.98 4.85
4517 4598 1.266178 TCTCGATCCAAGTTCTGGCA 58.734 50.000 0.00 0.00 45.98 4.92
4518 4599 2.611225 ATCTCGATCCAAGTTCTGGC 57.389 50.000 0.00 0.00 45.98 4.85
4520 4601 4.339530 TCCTGTATCTCGATCCAAGTTCTG 59.660 45.833 0.00 0.00 0.00 3.02
4521 4602 4.537751 TCCTGTATCTCGATCCAAGTTCT 58.462 43.478 0.00 0.00 0.00 3.01
4522 4603 4.920640 TCCTGTATCTCGATCCAAGTTC 57.079 45.455 0.00 0.00 0.00 3.01
4523 4604 7.382110 CAATATCCTGTATCTCGATCCAAGTT 58.618 38.462 0.00 0.00 0.00 2.66
4524 4605 6.573289 GCAATATCCTGTATCTCGATCCAAGT 60.573 42.308 0.00 0.00 0.00 3.16
4525 4606 5.809562 GCAATATCCTGTATCTCGATCCAAG 59.190 44.000 0.00 0.00 0.00 3.61
4526 4607 5.337571 GGCAATATCCTGTATCTCGATCCAA 60.338 44.000 0.00 0.00 0.00 3.53
4527 4608 4.160439 GGCAATATCCTGTATCTCGATCCA 59.840 45.833 0.00 0.00 0.00 3.41
4528 4609 4.160439 TGGCAATATCCTGTATCTCGATCC 59.840 45.833 0.00 0.00 0.00 3.36
4529 4610 5.330455 TGGCAATATCCTGTATCTCGATC 57.670 43.478 0.00 0.00 0.00 3.69
4530 4611 5.745312 TTGGCAATATCCTGTATCTCGAT 57.255 39.130 0.00 0.00 0.00 3.59
4531 4612 5.745312 ATTGGCAATATCCTGTATCTCGA 57.255 39.130 11.81 0.00 0.00 4.04
4532 4613 5.934043 TGAATTGGCAATATCCTGTATCTCG 59.066 40.000 14.05 0.00 0.00 4.04
4533 4614 7.609146 TCATGAATTGGCAATATCCTGTATCTC 59.391 37.037 14.05 3.82 0.00 2.75
4534 4615 7.464273 TCATGAATTGGCAATATCCTGTATCT 58.536 34.615 14.05 0.00 0.00 1.98
4535 4616 7.692460 TCATGAATTGGCAATATCCTGTATC 57.308 36.000 14.05 5.28 0.00 2.24
4536 4617 8.660295 ATTCATGAATTGGCAATATCCTGTAT 57.340 30.769 15.36 11.64 0.00 2.29
4537 4618 8.481492 AATTCATGAATTGGCAATATCCTGTA 57.519 30.769 28.57 10.15 39.36 2.74
4538 4619 6.989155 ATTCATGAATTGGCAATATCCTGT 57.011 33.333 15.36 0.00 0.00 4.00
4539 4620 9.419297 CTAAATTCATGAATTGGCAATATCCTG 57.581 33.333 29.52 14.65 40.57 3.86
4540 4621 9.151177 ACTAAATTCATGAATTGGCAATATCCT 57.849 29.630 29.52 14.87 40.57 3.24
4541 4622 9.768662 AACTAAATTCATGAATTGGCAATATCC 57.231 29.630 29.52 6.69 40.57 2.59
4545 4626 9.675464 AATCAACTAAATTCATGAATTGGCAAT 57.325 25.926 29.52 17.98 40.57 3.56
4546 4627 8.937884 CAATCAACTAAATTCATGAATTGGCAA 58.062 29.630 29.52 16.42 40.57 4.52
4547 4628 7.064847 GCAATCAACTAAATTCATGAATTGGCA 59.935 33.333 29.52 18.21 40.57 4.92
4548 4629 7.064847 TGCAATCAACTAAATTCATGAATTGGC 59.935 33.333 29.52 16.93 40.57 4.52
4549 4630 8.385111 GTGCAATCAACTAAATTCATGAATTGG 58.615 33.333 29.52 25.30 40.57 3.16
4550 4631 9.146984 AGTGCAATCAACTAAATTCATGAATTG 57.853 29.630 29.52 21.23 40.57 2.32
4551 4632 9.146984 CAGTGCAATCAACTAAATTCATGAATT 57.853 29.630 24.83 24.83 42.35 2.17
4552 4633 7.277098 GCAGTGCAATCAACTAAATTCATGAAT 59.723 33.333 15.36 15.36 0.00 2.57
4553 4634 6.587226 GCAGTGCAATCAACTAAATTCATGAA 59.413 34.615 11.26 11.26 0.00 2.57
4554 4635 6.071784 AGCAGTGCAATCAACTAAATTCATGA 60.072 34.615 19.20 0.00 0.00 3.07
4555 4636 6.034577 CAGCAGTGCAATCAACTAAATTCATG 59.965 38.462 19.20 0.00 0.00 3.07
4556 4637 6.071784 TCAGCAGTGCAATCAACTAAATTCAT 60.072 34.615 19.20 0.00 0.00 2.57
4557 4638 5.241285 TCAGCAGTGCAATCAACTAAATTCA 59.759 36.000 19.20 0.00 0.00 2.57
4558 4639 5.702865 TCAGCAGTGCAATCAACTAAATTC 58.297 37.500 19.20 0.00 0.00 2.17
4559 4640 5.710513 TCAGCAGTGCAATCAACTAAATT 57.289 34.783 19.20 0.00 0.00 1.82
4560 4641 5.184479 ACATCAGCAGTGCAATCAACTAAAT 59.816 36.000 19.20 0.00 0.00 1.40
4561 4642 4.520111 ACATCAGCAGTGCAATCAACTAAA 59.480 37.500 19.20 0.00 0.00 1.85
4562 4643 4.074259 ACATCAGCAGTGCAATCAACTAA 58.926 39.130 19.20 0.00 0.00 2.24
4563 4644 3.437741 CACATCAGCAGTGCAATCAACTA 59.562 43.478 19.20 0.00 0.00 2.24
4564 4645 2.228103 CACATCAGCAGTGCAATCAACT 59.772 45.455 19.20 0.00 0.00 3.16
4565 4646 2.030540 ACACATCAGCAGTGCAATCAAC 60.031 45.455 19.20 0.00 40.59 3.18
4566 4647 2.232399 ACACATCAGCAGTGCAATCAA 58.768 42.857 19.20 0.00 40.59 2.57
4567 4648 1.900245 ACACATCAGCAGTGCAATCA 58.100 45.000 19.20 0.00 40.59 2.57
4568 4649 2.726989 CGAACACATCAGCAGTGCAATC 60.727 50.000 19.20 2.56 40.59 2.67
4569 4650 1.198408 CGAACACATCAGCAGTGCAAT 59.802 47.619 19.20 7.57 40.59 3.56
4570 4651 0.587768 CGAACACATCAGCAGTGCAA 59.412 50.000 19.20 5.15 40.59 4.08
4571 4652 1.844771 GCGAACACATCAGCAGTGCA 61.845 55.000 19.20 0.00 40.59 4.57
4572 4653 1.154338 GCGAACACATCAGCAGTGC 60.154 57.895 7.13 7.13 40.59 4.40
4573 4654 0.110509 GTGCGAACACATCAGCAGTG 60.111 55.000 0.00 0.00 46.61 3.66
4574 4655 2.238353 GTGCGAACACATCAGCAGT 58.762 52.632 0.00 0.00 46.61 4.40
4583 4664 2.182014 GGACAAAACTTGTGCGAACAC 58.818 47.619 0.00 0.00 45.52 3.32
4584 4665 2.553079 GGACAAAACTTGTGCGAACA 57.447 45.000 0.00 0.00 45.52 3.18
4590 4671 4.327087 GCAGAAACTTGGACAAAACTTGTG 59.673 41.667 0.00 0.00 45.52 3.33
4592 4673 3.865164 GGCAGAAACTTGGACAAAACTTG 59.135 43.478 0.00 0.00 0.00 3.16
4593 4674 3.513515 TGGCAGAAACTTGGACAAAACTT 59.486 39.130 0.00 0.00 0.00 2.66
4594 4675 3.096092 TGGCAGAAACTTGGACAAAACT 58.904 40.909 0.00 0.00 0.00 2.66
4595 4676 3.130340 TCTGGCAGAAACTTGGACAAAAC 59.870 43.478 16.28 0.00 0.00 2.43
4596 4677 3.360867 TCTGGCAGAAACTTGGACAAAA 58.639 40.909 16.28 0.00 0.00 2.44
4597 4678 3.011566 TCTGGCAGAAACTTGGACAAA 57.988 42.857 16.28 0.00 0.00 2.83
4598 4679 2.687935 GTTCTGGCAGAAACTTGGACAA 59.312 45.455 30.06 2.60 35.75 3.18
4599 4680 2.092429 AGTTCTGGCAGAAACTTGGACA 60.092 45.455 30.06 3.41 35.75 4.02
4600 4681 2.576615 AGTTCTGGCAGAAACTTGGAC 58.423 47.619 30.06 17.15 35.75 4.02
4601 4682 2.951642 CAAGTTCTGGCAGAAACTTGGA 59.048 45.455 34.82 17.08 38.36 3.53
4658 4739 8.565896 AAAGCATGATTTGAGTACAAGTATGA 57.434 30.769 8.40 0.00 37.32 2.15
4659 4740 8.671921 AGAAAGCATGATTTGAGTACAAGTATG 58.328 33.333 14.71 0.00 37.32 2.39
4660 4741 8.798859 AGAAAGCATGATTTGAGTACAAGTAT 57.201 30.769 14.71 0.00 37.32 2.12
4661 4742 8.621532 AAGAAAGCATGATTTGAGTACAAGTA 57.378 30.769 14.71 0.00 37.32 2.24
4662 4743 7.516198 AAGAAAGCATGATTTGAGTACAAGT 57.484 32.000 14.71 0.00 37.32 3.16
4663 4744 8.295288 AGAAAGAAAGCATGATTTGAGTACAAG 58.705 33.333 14.71 0.00 37.32 3.16
4664 4745 8.077991 CAGAAAGAAAGCATGATTTGAGTACAA 58.922 33.333 14.71 0.00 0.00 2.41
4665 4746 7.445096 TCAGAAAGAAAGCATGATTTGAGTACA 59.555 33.333 14.71 0.00 0.00 2.90
4666 4747 7.810658 TCAGAAAGAAAGCATGATTTGAGTAC 58.189 34.615 14.71 0.00 0.00 2.73
4667 4748 7.663081 ACTCAGAAAGAAAGCATGATTTGAGTA 59.337 33.333 19.56 0.00 39.57 2.59
4668 4749 6.489361 ACTCAGAAAGAAAGCATGATTTGAGT 59.511 34.615 14.71 15.94 37.36 3.41
4669 4750 6.910995 ACTCAGAAAGAAAGCATGATTTGAG 58.089 36.000 14.71 15.31 35.63 3.02
4670 4751 6.889301 ACTCAGAAAGAAAGCATGATTTGA 57.111 33.333 14.71 3.49 0.00 2.69
4671 4752 7.941795 AAACTCAGAAAGAAAGCATGATTTG 57.058 32.000 14.71 0.00 0.00 2.32
4672 4753 8.953368 AAAAACTCAGAAAGAAAGCATGATTT 57.047 26.923 9.03 9.03 0.00 2.17


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

AutoCloner maintained by Alex Coulton.