Multiple sequence alignment - TraesCS3D01G416200

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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 TraesCS3D01G416200 chr3D 100.000 4945 0 0 1 4945 527560476 527555532 0.000000e+00 9132
1 TraesCS3D01G416200 chr3A 88.635 4250 222 130 829 4945 661974435 661978556 0.000000e+00 4931
2 TraesCS3D01G416200 chr3A 86.198 768 57 17 1 749 661973704 661974441 0.000000e+00 785
3 TraesCS3D01G416200 chr3B 87.307 3246 175 111 869 3977 697470409 697473554 0.000000e+00 3493
4 TraesCS3D01G416200 chr3B 91.300 954 54 13 4013 4945 697473554 697474499 0.000000e+00 1275
5 TraesCS3D01G416200 chr3B 83.180 434 45 16 2 425 697469287 697469702 6.050000e-99 372
6 TraesCS3D01G416200 chr3B 76.642 411 62 22 11 416 543869505 543869886 3.910000e-46 196
7 TraesCS3D01G416200 chr2A 77.830 424 55 27 11 426 565616396 565616788 4.980000e-55 226
8 TraesCS3D01G416200 chr7B 77.358 424 62 21 11 429 107638563 107638169 2.320000e-53 220
9 TraesCS3D01G416200 chr7B 77.536 414 59 21 11 419 517845781 517846165 8.330000e-53 219
10 TraesCS3D01G416200 chr7B 95.312 64 3 0 755 818 618512138 618512075 8.760000e-18 102
11 TraesCS3D01G416200 chr5A 77.143 420 62 21 11 425 669590909 669590519 3.880000e-51 213
12 TraesCS3D01G416200 chr4B 77.143 420 62 21 11 425 175555135 175554745 3.880000e-51 213
13 TraesCS3D01G416200 chr1A 77.143 420 62 21 11 425 74100160 74099770 3.880000e-51 213


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 TraesCS3D01G416200 chr3D 527555532 527560476 4944 True 9132.000000 9132 100.000000 1 4945 1 chr3D.!!$R1 4944
1 TraesCS3D01G416200 chr3A 661973704 661978556 4852 False 2858.000000 4931 87.416500 1 4945 2 chr3A.!!$F1 4944
2 TraesCS3D01G416200 chr3B 697469287 697474499 5212 False 1713.333333 3493 87.262333 2 4945 3 chr3B.!!$F2 4943

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
437 465 1.001887 TATCAACCCAACCGCCCAC 60.002 57.895 0.0 0.0 0.0 4.61 F
1533 1901 0.323629 TTAAACCACTCTCCCTGCCG 59.676 55.000 0.0 0.0 0.0 5.69 F
2279 2668 0.394352 ATGGATGAAACGGCTGGACC 60.394 55.000 0.0 0.0 0.0 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1570 1942 0.169009 GGAAATGCGGCTCAGAACAC 59.831 55.0 0.0 0.0 0.00 3.32 R
2539 2937 0.460987 GGCCGTCAGAACAGAGATGG 60.461 60.0 0.0 0.0 42.56 3.51 R
4218 4775 0.468226 TCTTGGGACAGAGTTGCGTT 59.532 50.0 0.0 0.0 42.39 4.84 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
36 38 5.059161 TGATCACAAAGGAACTCTCAAGTG 58.941 41.667 0.00 0.00 38.49 3.16
46 48 4.576463 GGAACTCTCAAGTGTGTCAAATGT 59.424 41.667 0.00 0.00 35.36 2.71
50 52 3.065233 TCTCAAGTGTGTCAAATGTGTGC 59.935 43.478 0.00 0.00 0.00 4.57
51 53 2.751806 TCAAGTGTGTCAAATGTGTGCA 59.248 40.909 0.00 0.00 0.00 4.57
52 54 2.849880 AGTGTGTCAAATGTGTGCAC 57.150 45.000 10.75 10.75 34.59 4.57
53 55 2.090760 AGTGTGTCAAATGTGTGCACA 58.909 42.857 17.42 17.42 46.44 4.57
294 308 9.897744 CATTGAGGATACGTTTGCAAAATATAT 57.102 29.630 14.67 11.56 46.39 0.86
323 337 8.515695 TTCCTCACGTAATCTTCTAGTTATCA 57.484 34.615 0.00 0.00 0.00 2.15
351 365 8.863872 AAATATCATTAGCCCATACTTGTACC 57.136 34.615 0.00 0.00 0.00 3.34
437 465 1.001887 TATCAACCCAACCGCCCAC 60.002 57.895 0.00 0.00 0.00 4.61
521 549 3.071747 CCCTAGCCATTCCTCTAAACCTC 59.928 52.174 0.00 0.00 0.00 3.85
548 576 3.541632 ACCAAATATTCTGGTGGCTACG 58.458 45.455 16.64 0.00 45.67 3.51
583 611 3.615496 CCACCCGAACGAGTTAAACATAG 59.385 47.826 0.00 0.00 0.00 2.23
591 619 1.258197 GAGTTAAACATAGCGCCGCTC 59.742 52.381 18.06 0.00 40.44 5.03
592 620 1.134788 AGTTAAACATAGCGCCGCTCT 60.135 47.619 18.06 1.67 40.44 4.09
745 778 8.574196 AAAGTTACAGAAATCCGAAAATGTTG 57.426 30.769 0.00 0.00 0.00 3.33
746 779 7.504924 AGTTACAGAAATCCGAAAATGTTGA 57.495 32.000 0.00 0.00 0.00 3.18
747 780 7.360361 AGTTACAGAAATCCGAAAATGTTGAC 58.640 34.615 0.00 0.00 0.00 3.18
748 781 5.766150 ACAGAAATCCGAAAATGTTGACA 57.234 34.783 0.00 0.00 0.00 3.58
749 782 5.762045 ACAGAAATCCGAAAATGTTGACAG 58.238 37.500 0.00 0.00 0.00 3.51
750 783 5.299279 ACAGAAATCCGAAAATGTTGACAGT 59.701 36.000 0.00 0.00 0.00 3.55
751 784 5.853282 CAGAAATCCGAAAATGTTGACAGTC 59.147 40.000 0.00 0.00 0.00 3.51
752 785 5.765182 AGAAATCCGAAAATGTTGACAGTCT 59.235 36.000 1.31 0.00 0.00 3.24
753 786 5.613358 AATCCGAAAATGTTGACAGTCTC 57.387 39.130 1.31 0.00 0.00 3.36
754 787 3.399330 TCCGAAAATGTTGACAGTCTCC 58.601 45.455 1.31 0.00 0.00 3.71
755 788 2.157668 CCGAAAATGTTGACAGTCTCCG 59.842 50.000 1.31 0.00 0.00 4.63
756 789 3.057019 CGAAAATGTTGACAGTCTCCGA 58.943 45.455 1.31 0.00 0.00 4.55
757 790 3.493129 CGAAAATGTTGACAGTCTCCGAA 59.507 43.478 1.31 0.00 0.00 4.30
761 794 2.821546 TGTTGACAGTCTCCGAAACAG 58.178 47.619 1.31 0.00 0.00 3.16
762 795 2.429250 TGTTGACAGTCTCCGAAACAGA 59.571 45.455 1.31 0.00 0.00 3.41
763 796 3.069586 TGTTGACAGTCTCCGAAACAGAT 59.930 43.478 1.31 0.00 0.00 2.90
764 797 4.058817 GTTGACAGTCTCCGAAACAGATT 58.941 43.478 1.31 0.00 0.00 2.40
765 798 4.336889 TGACAGTCTCCGAAACAGATTT 57.663 40.909 1.31 0.00 0.00 2.17
766 799 4.307432 TGACAGTCTCCGAAACAGATTTC 58.693 43.478 1.31 0.00 40.83 2.17
798 831 9.819267 TTACAAAATTTTGGAAATTTCGTAGGT 57.181 25.926 29.37 10.10 38.01 3.08
799 832 8.725405 ACAAAATTTTGGAAATTTCGTAGGTT 57.275 26.923 29.37 5.06 42.34 3.50
800 833 9.168451 ACAAAATTTTGGAAATTTCGTAGGTTT 57.832 25.926 29.37 7.63 42.34 3.27
804 1052 5.600908 TTGGAAATTTCGTAGGTTTCGAG 57.399 39.130 11.95 0.00 38.52 4.04
808 1056 2.730550 TTTCGTAGGTTTCGAGGGTC 57.269 50.000 0.00 0.00 38.52 4.46
809 1057 1.619654 TTCGTAGGTTTCGAGGGTCA 58.380 50.000 0.00 0.00 38.52 4.02
810 1058 1.843368 TCGTAGGTTTCGAGGGTCAT 58.157 50.000 0.00 0.00 33.38 3.06
855 1103 5.123227 ACACTAGAGCAAAGTAAGCAACAA 58.877 37.500 0.00 0.00 0.00 2.83
1322 1668 3.004315 TCGATTCGACGAATCATCCATCA 59.996 43.478 36.47 16.65 46.01 3.07
1323 1669 3.922850 CGATTCGACGAATCATCCATCAT 59.077 43.478 36.47 11.25 46.01 2.45
1336 1682 1.012086 CCATCATGGCGAGTTCACTG 58.988 55.000 0.00 0.00 0.00 3.66
1344 1690 3.521560 TGGCGAGTTCACTGATTACATC 58.478 45.455 0.00 0.00 0.00 3.06
1533 1901 0.323629 TTAAACCACTCTCCCTGCCG 59.676 55.000 0.00 0.00 0.00 5.69
1570 1942 4.388080 CACACACGCACGCCCATG 62.388 66.667 0.00 0.00 0.00 3.66
1581 1953 2.401766 CGCCCATGTGTTCTGAGCC 61.402 63.158 0.00 0.00 0.00 4.70
1762 2134 4.029186 CAACTGCACGCACGCCAT 62.029 61.111 0.00 0.00 0.00 4.40
1764 2136 2.390599 AACTGCACGCACGCCATAG 61.391 57.895 0.00 0.00 0.00 2.23
1775 2151 1.815421 CGCCATAGACACAGGGCAC 60.815 63.158 0.00 0.00 46.75 5.01
1908 2284 3.676742 GATCGTGTCGCGGTCTTC 58.323 61.111 11.78 0.00 46.50 2.87
1970 2347 3.616956 GTGAGGACACCTGAATCATCA 57.383 47.619 0.00 0.00 40.74 3.07
1974 2351 5.525378 GTGAGGACACCTGAATCATCATAAC 59.475 44.000 0.00 0.00 37.89 1.89
1991 2368 2.094762 AACTCAGTTGGTCGCCATAC 57.905 50.000 0.00 2.42 31.53 2.39
1997 2374 2.866156 CAGTTGGTCGCCATACATACTG 59.134 50.000 10.91 10.91 31.53 2.74
2000 2382 1.068588 TGGTCGCCATACATACTGCTC 59.931 52.381 0.00 0.00 0.00 4.26
2003 2385 2.039418 TCGCCATACATACTGCTCCTT 58.961 47.619 0.00 0.00 0.00 3.36
2004 2386 2.035961 TCGCCATACATACTGCTCCTTC 59.964 50.000 0.00 0.00 0.00 3.46
2007 2389 4.561105 GCCATACATACTGCTCCTTCTAC 58.439 47.826 0.00 0.00 0.00 2.59
2008 2390 4.282195 GCCATACATACTGCTCCTTCTACT 59.718 45.833 0.00 0.00 0.00 2.57
2009 2391 5.477291 GCCATACATACTGCTCCTTCTACTA 59.523 44.000 0.00 0.00 0.00 1.82
2010 2392 6.570764 GCCATACATACTGCTCCTTCTACTAC 60.571 46.154 0.00 0.00 0.00 2.73
2083 2472 0.754957 AGATGCAGCTCTACTCGCCT 60.755 55.000 0.00 0.00 0.00 5.52
2190 2579 1.452651 TCGTCGGCGAGGAGGTAAT 60.453 57.895 26.32 0.00 42.81 1.89
2193 2582 1.334779 CGTCGGCGAGGAGGTAATAAG 60.335 57.143 23.88 0.00 41.33 1.73
2194 2583 1.952296 GTCGGCGAGGAGGTAATAAGA 59.048 52.381 11.20 0.00 0.00 2.10
2195 2584 2.360165 GTCGGCGAGGAGGTAATAAGAA 59.640 50.000 11.20 0.00 0.00 2.52
2279 2668 0.394352 ATGGATGAAACGGCTGGACC 60.394 55.000 0.00 0.00 0.00 4.46
2357 2746 1.973812 GACCAGGAGGCTGCCAAAC 60.974 63.158 22.65 10.27 39.06 2.93
2467 2856 1.450312 CAACTCCATCTGGTCCGCC 60.450 63.158 0.00 0.00 36.34 6.13
2539 2937 0.652592 CGATCCATCGTGGCTTGTTC 59.347 55.000 0.55 0.00 44.74 3.18
2547 2945 1.081892 CGTGGCTTGTTCCATCTCTG 58.918 55.000 0.00 0.00 38.57 3.35
2569 2971 3.480133 GACGGCCTGCCCCTGTAT 61.480 66.667 0.00 0.00 0.00 2.29
2628 3030 7.661536 ACACTCATTGTCAGGTACAGTATAT 57.338 36.000 0.00 0.00 39.87 0.86
2630 3032 8.851145 ACACTCATTGTCAGGTACAGTATATAG 58.149 37.037 0.00 0.00 39.87 1.31
2631 3033 9.067986 CACTCATTGTCAGGTACAGTATATAGA 57.932 37.037 0.00 0.00 39.87 1.98
2632 3034 9.815306 ACTCATTGTCAGGTACAGTATATAGAT 57.185 33.333 0.00 0.00 39.87 1.98
2639 3041 4.948621 AGGTACAGTATATAGATGACCCGC 59.051 45.833 0.00 0.00 0.00 6.13
2695 3132 7.984050 TCTTGGATCATTCTCTGTCATCTTAAC 59.016 37.037 0.00 0.00 0.00 2.01
2740 3177 3.000080 GAAGTGCGGCGACACGAAG 62.000 63.158 22.05 0.00 45.45 3.79
2888 3325 2.500229 TGGTAGGTCGCCAAAGAAAAG 58.500 47.619 0.00 0.00 32.29 2.27
2889 3326 2.105134 TGGTAGGTCGCCAAAGAAAAGA 59.895 45.455 0.00 0.00 32.29 2.52
2890 3327 3.143728 GGTAGGTCGCCAAAGAAAAGAA 58.856 45.455 0.00 0.00 0.00 2.52
2891 3328 3.566742 GGTAGGTCGCCAAAGAAAAGAAA 59.433 43.478 0.00 0.00 0.00 2.52
2892 3329 4.037089 GGTAGGTCGCCAAAGAAAAGAAAA 59.963 41.667 0.00 0.00 0.00 2.29
2893 3330 4.307443 AGGTCGCCAAAGAAAAGAAAAG 57.693 40.909 0.00 0.00 0.00 2.27
2894 3331 3.951680 AGGTCGCCAAAGAAAAGAAAAGA 59.048 39.130 0.00 0.00 0.00 2.52
2895 3332 4.401202 AGGTCGCCAAAGAAAAGAAAAGAA 59.599 37.500 0.00 0.00 0.00 2.52
2896 3333 5.105513 AGGTCGCCAAAGAAAAGAAAAGAAA 60.106 36.000 0.00 0.00 0.00 2.52
2897 3334 5.579119 GGTCGCCAAAGAAAAGAAAAGAAAA 59.421 36.000 0.00 0.00 0.00 2.29
2898 3335 6.237835 GGTCGCCAAAGAAAAGAAAAGAAAAG 60.238 38.462 0.00 0.00 0.00 2.27
2899 3336 6.530181 GTCGCCAAAGAAAAGAAAAGAAAAGA 59.470 34.615 0.00 0.00 0.00 2.52
2900 3337 7.062956 GTCGCCAAAGAAAAGAAAAGAAAAGAA 59.937 33.333 0.00 0.00 0.00 2.52
2901 3338 7.062956 TCGCCAAAGAAAAGAAAAGAAAAGAAC 59.937 33.333 0.00 0.00 0.00 3.01
2922 3359 5.177725 ACAAGTTGTTAAATTCCACCGTC 57.822 39.130 1.64 0.00 0.00 4.79
2928 3369 5.427036 TGTTAAATTCCACCGTCTGTTTC 57.573 39.130 0.00 0.00 0.00 2.78
2966 3407 9.891828 CATGTGTTTTTACTTACTTGATGCTTA 57.108 29.630 0.00 0.00 0.00 3.09
3048 3489 7.360017 GCAAATGCCAAACATAAAAGTAAGACC 60.360 37.037 0.00 0.00 38.34 3.85
3050 3491 6.325919 TGCCAAACATAAAAGTAAGACCAG 57.674 37.500 0.00 0.00 0.00 4.00
3052 3493 5.390613 CCAAACATAAAAGTAAGACCAGCG 58.609 41.667 0.00 0.00 0.00 5.18
3061 3511 1.067142 GTAAGACCAGCGTCACCATGA 60.067 52.381 0.00 0.00 41.87 3.07
3088 3546 4.026744 TCATTCTAGCTACTCTGGCTTGT 58.973 43.478 0.00 0.00 40.74 3.16
3226 3709 1.346722 CACGGTAGGTTTTCTCCCACT 59.653 52.381 0.00 0.00 0.00 4.00
3227 3710 2.564062 CACGGTAGGTTTTCTCCCACTA 59.436 50.000 0.00 0.00 0.00 2.74
3229 3712 3.450096 ACGGTAGGTTTTCTCCCACTATC 59.550 47.826 0.00 0.00 0.00 2.08
3248 3734 1.810151 TCGCAAACTGTAAATCCCTGC 59.190 47.619 0.00 0.00 0.00 4.85
3284 3792 1.674962 GATCTGGTACTTAGGACGCGT 59.325 52.381 13.85 13.85 0.00 6.01
3290 3798 0.241749 TACTTAGGACGCGTGTGTGG 59.758 55.000 20.70 6.52 0.00 4.17
3476 3987 0.548510 CCTGAATCCCCACCTTCCTC 59.451 60.000 0.00 0.00 0.00 3.71
3477 3988 1.589414 CTGAATCCCCACCTTCCTCT 58.411 55.000 0.00 0.00 0.00 3.69
3478 3989 1.211457 CTGAATCCCCACCTTCCTCTG 59.789 57.143 0.00 0.00 0.00 3.35
3480 3991 1.636003 GAATCCCCACCTTCCTCTGTT 59.364 52.381 0.00 0.00 0.00 3.16
3481 3992 0.995024 ATCCCCACCTTCCTCTGTTG 59.005 55.000 0.00 0.00 0.00 3.33
3507 4027 3.129287 ACAACATAATTACCAGCTGCTGC 59.871 43.478 23.86 7.62 40.05 5.25
3624 4144 3.992999 TGGTATGCCCAATTTCCTGAAT 58.007 40.909 0.00 0.00 41.50 2.57
3637 4157 7.404985 CAATTTCCTGAATCTCGTGATAACAG 58.595 38.462 18.88 18.88 37.18 3.16
3643 4177 6.479990 CCTGAATCTCGTGATAACAGCATTAA 59.520 38.462 19.72 0.00 36.67 1.40
3672 4206 6.354794 TGTTGCTAACTGACATAACTACCT 57.645 37.500 0.00 0.00 0.00 3.08
3673 4207 6.163476 TGTTGCTAACTGACATAACTACCTG 58.837 40.000 0.00 0.00 0.00 4.00
3679 4213 8.604890 GCTAACTGACATAACTACCTGAAAATC 58.395 37.037 0.00 0.00 0.00 2.17
3683 4217 6.693466 TGACATAACTACCTGAAAATCGACA 58.307 36.000 0.00 0.00 0.00 4.35
3798 4332 4.335647 CAAGCAGCCCAGTCCGGT 62.336 66.667 0.00 0.00 0.00 5.28
3804 4338 3.399181 GCCCAGTCCGGTCATGGA 61.399 66.667 19.58 0.00 36.09 3.41
3814 4348 1.308069 CGGTCATGGAGCCAACTTGG 61.308 60.000 3.10 3.10 41.55 3.61
3839 4374 2.299993 TTCGAGCTCTTGGCATGTAG 57.700 50.000 12.85 0.00 44.79 2.74
3840 4375 1.186200 TCGAGCTCTTGGCATGTAGT 58.814 50.000 12.85 0.00 44.79 2.73
3841 4376 2.375146 TCGAGCTCTTGGCATGTAGTA 58.625 47.619 12.85 0.00 44.79 1.82
3851 4386 5.900699 TCTTGGCATGTAGTACTATGGGTTA 59.099 40.000 5.75 0.00 0.00 2.85
3945 4480 1.718757 CTGGAACGCCAAGGCATAGC 61.719 60.000 12.19 0.00 45.41 2.97
3946 4481 1.748879 GGAACGCCAAGGCATAGCA 60.749 57.895 12.19 0.00 42.06 3.49
3947 4482 1.429423 GAACGCCAAGGCATAGCAC 59.571 57.895 12.19 0.00 42.06 4.40
3948 4483 1.002134 AACGCCAAGGCATAGCACT 60.002 52.632 12.19 0.00 42.06 4.40
3950 4485 0.469917 ACGCCAAGGCATAGCACTAT 59.530 50.000 12.19 0.00 42.06 2.12
3955 4490 3.332919 CCAAGGCATAGCACTATAGCAG 58.667 50.000 0.00 0.00 36.85 4.24
3956 4491 3.244353 CCAAGGCATAGCACTATAGCAGT 60.244 47.826 0.00 0.00 38.32 4.40
3958 4493 5.337894 CCAAGGCATAGCACTATAGCAGTAT 60.338 44.000 0.00 0.00 34.98 2.12
3972 4507 2.146342 GCAGTATCGTGGATGGAATGG 58.854 52.381 0.00 0.00 0.00 3.16
3977 4512 2.346766 TCGTGGATGGAATGGAATGG 57.653 50.000 0.00 0.00 0.00 3.16
3979 4514 2.240921 TCGTGGATGGAATGGAATGGAA 59.759 45.455 0.00 0.00 0.00 3.53
3981 4516 3.005050 CGTGGATGGAATGGAATGGAATG 59.995 47.826 0.00 0.00 0.00 2.67
3983 4518 3.236896 GGATGGAATGGAATGGAATGCT 58.763 45.455 0.00 0.00 0.00 3.79
3984 4519 3.257624 GGATGGAATGGAATGGAATGCTC 59.742 47.826 0.00 0.00 0.00 4.26
3985 4520 2.669781 TGGAATGGAATGGAATGCTCC 58.330 47.619 0.00 0.00 42.81 4.70
3986 4521 2.245546 TGGAATGGAATGGAATGCTCCT 59.754 45.455 0.00 0.00 42.94 3.69
3987 4522 3.462954 TGGAATGGAATGGAATGCTCCTA 59.537 43.478 0.00 0.00 42.94 2.94
3988 4523 3.823304 GGAATGGAATGGAATGCTCCTAC 59.177 47.826 0.00 0.00 42.94 3.18
3989 4524 4.446889 GGAATGGAATGGAATGCTCCTACT 60.447 45.833 0.00 0.00 42.94 2.57
3990 4525 3.845781 TGGAATGGAATGCTCCTACTC 57.154 47.619 0.00 0.00 42.94 2.59
3991 4526 2.439507 TGGAATGGAATGCTCCTACTCC 59.560 50.000 0.00 0.00 42.94 3.85
3992 4527 2.224646 GGAATGGAATGCTCCTACTCCC 60.225 54.545 0.00 0.00 42.94 4.30
4002 4537 2.691011 GCTCCTACTCCCTAGTTGACAG 59.309 54.545 0.00 0.00 37.15 3.51
4007 4542 1.203187 ACTCCCTAGTTGACAGCCAGA 60.203 52.381 0.00 0.00 29.00 3.86
4084 4619 4.386652 CCGGCAAAAGAAAGATGAAACATG 59.613 41.667 0.00 0.00 0.00 3.21
4100 4639 6.375377 TGAAACATGTGTAATTTTCGTAGCC 58.625 36.000 0.00 0.00 31.76 3.93
4172 4728 9.803315 ACCATGTACTATTTATACGATGCTATG 57.197 33.333 0.00 0.00 0.00 2.23
4218 4775 4.017126 ACTGTTGTATGAGACGAGATGGA 58.983 43.478 0.00 0.00 0.00 3.41
4233 4790 0.321653 ATGGAACGCAACTCTGTCCC 60.322 55.000 0.00 0.00 0.00 4.46
4261 4827 9.198475 AGAAAAAGCTCTTGATCCAAATCATAT 57.802 29.630 0.00 0.00 41.49 1.78
4265 4831 9.803507 AAAGCTCTTGATCCAAATCATATATGA 57.196 29.630 17.56 17.56 41.49 2.15
4267 4833 9.616156 AGCTCTTGATCCAAATCATATATGATC 57.384 33.333 24.96 14.65 46.22 2.92
4268 4834 9.392259 GCTCTTGATCCAAATCATATATGATCA 57.608 33.333 24.96 16.76 46.22 2.92
4299 4875 9.015577 CACTAGTAGTAAGTACGTAGTCTACAC 57.984 40.741 21.94 16.16 43.93 2.90
4331 4919 2.599082 GTGTTAACTTGGCTCGATCGAG 59.401 50.000 35.25 35.25 44.56 4.04
4563 5166 2.390599 CGTGACATTGCACCCCTCG 61.391 63.158 0.00 0.00 35.37 4.63
4779 5382 2.433868 TGTTCTGCTCCGTGTAGTTC 57.566 50.000 0.00 0.00 0.00 3.01
4799 5402 2.149578 CAGGTTGCAGAGGAAGTTGAG 58.850 52.381 0.00 0.00 0.00 3.02
4807 5410 3.165875 CAGAGGAAGTTGAGGTAGTCCA 58.834 50.000 0.00 0.00 35.89 4.02
4808 5411 3.194542 CAGAGGAAGTTGAGGTAGTCCAG 59.805 52.174 0.00 0.00 35.89 3.86
4938 5541 2.193536 GCCGTTGCTGTTGTCCCTT 61.194 57.895 0.00 0.00 33.53 3.95
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
46 48 6.971756 GCACAATATTTGTATGTATGTGCACA 59.028 34.615 24.08 24.08 46.21 4.57
50 52 9.830294 CATAGGCACAATATTTGTATGTATGTG 57.170 33.333 0.00 0.00 43.23 3.21
51 53 9.791801 TCATAGGCACAATATTTGTATGTATGT 57.208 29.630 0.00 0.00 43.23 2.29
53 55 8.935844 CGTCATAGGCACAATATTTGTATGTAT 58.064 33.333 0.00 0.00 43.23 2.29
54 56 8.145122 TCGTCATAGGCACAATATTTGTATGTA 58.855 33.333 0.00 0.00 43.23 2.29
78 80 6.020121 CGACTATATGTTTGTAGGTTTGGTCG 60.020 42.308 0.00 0.00 35.35 4.79
267 281 5.446143 TTTTGCAAACGTATCCTCAATGT 57.554 34.783 12.39 0.00 0.00 2.71
300 314 7.704271 TGTGATAACTAGAAGATTACGTGAGG 58.296 38.462 0.00 0.00 0.00 3.86
323 337 8.766994 ACAAGTATGGGCTAATGATATTTTGT 57.233 30.769 0.00 0.00 0.00 2.83
419 447 1.001887 GTGGGCGGTTGGGTTGATA 60.002 57.895 0.00 0.00 0.00 2.15
503 531 1.847088 GGGAGGTTTAGAGGAATGGCT 59.153 52.381 0.00 0.00 0.00 4.75
571 599 1.258197 GAGCGGCGCTATGTTTAACTC 59.742 52.381 36.55 14.74 39.88 3.01
591 619 0.790207 CACAACGTCACCGATGGAAG 59.210 55.000 0.00 0.00 40.74 3.46
592 620 0.601576 CCACAACGTCACCGATGGAA 60.602 55.000 0.00 0.00 40.74 3.53
600 628 1.641677 GTGTCAGCCACAACGTCAC 59.358 57.895 0.00 0.00 43.92 3.67
611 639 1.148157 CGATCCATGACCGTGTCAGC 61.148 60.000 11.50 0.00 46.04 4.26
672 705 4.760047 ATGTGTGCCGCCCGAGTC 62.760 66.667 0.00 0.00 0.00 3.36
688 721 2.169144 TGCATCAGTCGATTCCTCACAT 59.831 45.455 0.00 0.00 0.00 3.21
725 758 6.485313 ACTGTCAACATTTTCGGATTTCTGTA 59.515 34.615 0.00 0.00 0.00 2.74
727 760 5.762045 ACTGTCAACATTTTCGGATTTCTG 58.238 37.500 0.00 0.00 0.00 3.02
728 761 5.765182 AGACTGTCAACATTTTCGGATTTCT 59.235 36.000 10.88 0.00 0.00 2.52
732 765 4.003648 GGAGACTGTCAACATTTTCGGAT 58.996 43.478 10.88 0.00 0.00 4.18
745 778 4.912528 GAAATCTGTTTCGGAGACTGTC 57.087 45.455 0.00 0.00 34.88 3.51
773 806 9.819267 AACCTACGAAATTTCCAAAATTTTGTA 57.181 25.926 25.25 23.60 41.74 2.41
777 810 7.921745 TCGAAACCTACGAAATTTCCAAAATTT 59.078 29.630 12.54 9.49 36.84 1.82
779 812 6.972722 TCGAAACCTACGAAATTTCCAAAAT 58.027 32.000 12.54 0.00 36.84 1.82
780 813 6.374565 TCGAAACCTACGAAATTTCCAAAA 57.625 33.333 12.54 0.00 36.84 2.44
781 814 5.049267 CCTCGAAACCTACGAAATTTCCAAA 60.049 40.000 12.54 0.00 39.23 3.28
783 816 3.998341 CCTCGAAACCTACGAAATTTCCA 59.002 43.478 12.54 0.13 39.23 3.53
784 817 3.373130 CCCTCGAAACCTACGAAATTTCC 59.627 47.826 12.54 0.00 39.23 3.13
785 818 3.999001 ACCCTCGAAACCTACGAAATTTC 59.001 43.478 8.20 8.20 39.23 2.17
786 819 3.999001 GACCCTCGAAACCTACGAAATTT 59.001 43.478 0.00 0.00 39.23 1.82
787 820 3.007182 TGACCCTCGAAACCTACGAAATT 59.993 43.478 0.00 0.00 39.23 1.82
788 821 2.564062 TGACCCTCGAAACCTACGAAAT 59.436 45.455 0.00 0.00 39.23 2.17
790 823 1.619654 TGACCCTCGAAACCTACGAA 58.380 50.000 0.00 0.00 39.23 3.85
793 826 1.747355 TCGATGACCCTCGAAACCTAC 59.253 52.381 0.00 0.00 44.14 3.18
794 827 2.133281 TCGATGACCCTCGAAACCTA 57.867 50.000 0.00 0.00 44.14 3.08
800 833 1.746787 TCGAATTTCGATGACCCTCGA 59.253 47.619 17.08 0.00 44.82 4.04
817 1065 2.702592 AGTGTCAACCAAGGTTTCGA 57.297 45.000 0.79 0.00 36.00 3.71
823 1071 2.839486 TGCTCTAGTGTCAACCAAGG 57.161 50.000 0.00 0.00 0.00 3.61
824 1072 4.130118 ACTTTGCTCTAGTGTCAACCAAG 58.870 43.478 0.00 0.00 0.00 3.61
825 1073 4.150897 ACTTTGCTCTAGTGTCAACCAA 57.849 40.909 0.00 0.00 0.00 3.67
826 1074 3.838244 ACTTTGCTCTAGTGTCAACCA 57.162 42.857 0.00 0.00 0.00 3.67
827 1075 4.152580 GCTTACTTTGCTCTAGTGTCAACC 59.847 45.833 0.00 0.00 0.00 3.77
855 1103 8.537223 CGCGTTAATTTCGTATATATATTGGCT 58.463 33.333 0.00 0.00 0.00 4.75
917 1229 4.077184 TTGCTCTGGTACCGGCCG 62.077 66.667 21.04 21.04 0.00 6.13
921 1233 3.347411 GCTACTTGCTCTGGTACCG 57.653 57.895 7.57 2.25 38.95 4.02
1307 1650 1.462283 CGCCATGATGGATGATTCGTC 59.538 52.381 17.22 0.00 40.96 4.20
1310 1653 2.775890 ACTCGCCATGATGGATGATTC 58.224 47.619 17.22 0.00 40.96 2.52
1322 1668 3.610040 TGTAATCAGTGAACTCGCCAT 57.390 42.857 0.00 0.00 0.00 4.40
1323 1669 3.521560 GATGTAATCAGTGAACTCGCCA 58.478 45.455 0.00 0.00 44.70 5.69
1336 1682 1.787155 CACCTGCGCGTAGATGTAATC 59.213 52.381 26.43 0.00 46.04 1.75
1344 1690 1.626654 CCACTTTCACCTGCGCGTAG 61.627 60.000 17.98 17.98 0.00 3.51
1542 1910 1.358725 GCGTGTGTGTGTGTGTGTCT 61.359 55.000 0.00 0.00 0.00 3.41
1543 1911 1.060308 GCGTGTGTGTGTGTGTGTC 59.940 57.895 0.00 0.00 0.00 3.67
1544 1912 1.669437 TGCGTGTGTGTGTGTGTGT 60.669 52.632 0.00 0.00 0.00 3.72
1549 1917 4.589700 GGCGTGCGTGTGTGTGTG 62.590 66.667 0.00 0.00 0.00 3.82
1552 1920 4.927782 ATGGGCGTGCGTGTGTGT 62.928 61.111 0.00 0.00 0.00 3.72
1570 1942 0.169009 GGAAATGCGGCTCAGAACAC 59.831 55.000 0.00 0.00 0.00 3.32
1581 1953 1.226211 CTGCAGCGAAGGAAATGCG 60.226 57.895 0.00 0.00 41.58 4.73
1762 2134 2.203728 ACCGGTGCCCTGTGTCTA 60.204 61.111 6.12 0.00 0.00 2.59
1790 2166 0.242286 GAGCTCTGCTCGTCAGTTCA 59.758 55.000 6.43 0.00 45.85 3.18
1906 2282 0.175760 CGAAGATCTTGAGCCCGGAA 59.824 55.000 14.00 0.00 0.00 4.30
1907 2283 0.683179 TCGAAGATCTTGAGCCCGGA 60.683 55.000 14.00 0.00 0.00 5.14
1908 2284 0.249238 CTCGAAGATCTTGAGCCCGG 60.249 60.000 14.00 0.00 33.89 5.73
1970 2347 3.196901 TGTATGGCGACCAACTGAGTTAT 59.803 43.478 0.00 0.00 36.95 1.89
1974 2351 2.315925 ATGTATGGCGACCAACTGAG 57.684 50.000 2.68 0.00 36.95 3.35
1991 2368 6.641169 TCATGTAGTAGAAGGAGCAGTATG 57.359 41.667 0.00 0.00 40.87 2.39
1997 2374 4.210120 CGCAAATCATGTAGTAGAAGGAGC 59.790 45.833 0.00 0.00 0.00 4.70
2000 2382 3.248602 GCCGCAAATCATGTAGTAGAAGG 59.751 47.826 0.00 0.00 0.00 3.46
2003 2385 2.100087 TCGCCGCAAATCATGTAGTAGA 59.900 45.455 0.00 0.00 0.00 2.59
2004 2386 2.218759 GTCGCCGCAAATCATGTAGTAG 59.781 50.000 0.00 0.00 0.00 2.57
2007 2389 0.304705 GGTCGCCGCAAATCATGTAG 59.695 55.000 0.00 0.00 0.00 2.74
2008 2390 1.425267 CGGTCGCCGCAAATCATGTA 61.425 55.000 5.38 0.00 41.17 2.29
2009 2391 2.749865 CGGTCGCCGCAAATCATGT 61.750 57.895 5.38 0.00 41.17 3.21
2010 2392 2.023181 CGGTCGCCGCAAATCATG 59.977 61.111 5.38 0.00 41.17 3.07
2083 2472 1.286354 CGTCGAAAGCCGCCTTGTTA 61.286 55.000 0.00 0.00 38.37 2.41
2212 2601 5.107875 GCATGAAATCTGTTGAAACGAAACC 60.108 40.000 0.00 0.00 0.00 3.27
2299 2688 1.135333 GGAGCCTTCTTCTCCTACACG 59.865 57.143 2.01 0.00 45.13 4.49
2333 2722 1.846712 GCAGCCTCCTGGTCTCCTTT 61.847 60.000 0.00 0.00 39.54 3.11
2357 2746 2.560119 CGATCTCAGGCTCCTCGGG 61.560 68.421 0.00 0.00 0.00 5.14
2467 2856 1.450312 GAGCCCGACCATCAACCAG 60.450 63.158 0.00 0.00 0.00 4.00
2500 2889 2.483714 CGACCATGTGATTACCTGGAGG 60.484 54.545 17.12 5.95 43.07 4.30
2539 2937 0.460987 GGCCGTCAGAACAGAGATGG 60.461 60.000 0.00 0.00 42.56 3.51
2569 2971 1.810151 GCAAGCCCTGAACGTGAAATA 59.190 47.619 0.00 0.00 0.00 1.40
2628 3030 1.557099 AAGTGTCAGCGGGTCATCTA 58.443 50.000 0.00 0.00 0.00 1.98
2630 3032 2.380084 TTAAGTGTCAGCGGGTCATC 57.620 50.000 0.00 0.00 0.00 2.92
2631 3033 2.851263 TTTAAGTGTCAGCGGGTCAT 57.149 45.000 0.00 0.00 0.00 3.06
2632 3034 2.301870 AGATTTAAGTGTCAGCGGGTCA 59.698 45.455 0.00 0.00 0.00 4.02
2639 3041 8.441608 CAGATGAGTTTGAGATTTAAGTGTCAG 58.558 37.037 0.00 0.00 0.00 3.51
2695 3132 1.676746 CTCTGCCCATCCACATCAAG 58.323 55.000 0.00 0.00 0.00 3.02
2740 3177 1.594564 GACCGCCGGGAGCTTTATC 60.595 63.158 8.57 0.00 40.39 1.75
2873 3310 4.301637 TCTTTTCTTTTCTTTGGCGACC 57.698 40.909 0.00 0.00 0.00 4.79
2891 3328 9.936759 TGGAATTTAACAACTTGTTCTTTTCTT 57.063 25.926 10.49 0.00 40.22 2.52
2892 3329 9.366216 GTGGAATTTAACAACTTGTTCTTTTCT 57.634 29.630 10.49 0.00 40.22 2.52
2893 3330 8.600625 GGTGGAATTTAACAACTTGTTCTTTTC 58.399 33.333 10.49 11.07 40.22 2.29
2894 3331 7.276878 CGGTGGAATTTAACAACTTGTTCTTTT 59.723 33.333 10.49 3.56 40.22 2.27
2895 3332 6.754675 CGGTGGAATTTAACAACTTGTTCTTT 59.245 34.615 10.49 3.88 40.22 2.52
2896 3333 6.127563 ACGGTGGAATTTAACAACTTGTTCTT 60.128 34.615 10.49 4.04 40.22 2.52
2897 3334 5.358725 ACGGTGGAATTTAACAACTTGTTCT 59.641 36.000 10.49 0.00 40.22 3.01
2898 3335 5.584442 ACGGTGGAATTTAACAACTTGTTC 58.416 37.500 10.49 0.00 40.22 3.18
2899 3336 5.358725 AGACGGTGGAATTTAACAACTTGTT 59.641 36.000 11.82 11.82 43.88 2.83
2900 3337 4.885325 AGACGGTGGAATTTAACAACTTGT 59.115 37.500 0.00 0.00 0.00 3.16
2901 3338 5.212194 CAGACGGTGGAATTTAACAACTTG 58.788 41.667 0.00 0.00 0.00 3.16
2904 3341 4.823790 ACAGACGGTGGAATTTAACAAC 57.176 40.909 0.00 0.00 0.00 3.32
2922 3359 9.480053 AAACACATGGAAATCAAATAGAAACAG 57.520 29.630 0.00 0.00 0.00 3.16
2966 3407 7.315066 TGCCCTGGAAAAAGAAGAATTAATT 57.685 32.000 0.00 0.00 0.00 1.40
3048 3489 1.805943 TGAATGTTCATGGTGACGCTG 59.194 47.619 0.00 0.00 31.01 5.18
3050 3491 3.127548 AGAATGAATGTTCATGGTGACGC 59.872 43.478 8.86 0.00 46.60 5.19
3052 3493 5.587844 AGCTAGAATGAATGTTCATGGTGAC 59.412 40.000 8.86 0.94 46.60 3.67
3061 3511 5.130145 AGCCAGAGTAGCTAGAATGAATGTT 59.870 40.000 0.00 0.00 39.29 2.71
3107 3565 1.613270 CCGACGCAACCTAAAAATGC 58.387 50.000 0.00 0.00 36.74 3.56
3226 3709 3.625764 GCAGGGATTTACAGTTTGCGATA 59.374 43.478 0.00 0.00 0.00 2.92
3227 3710 2.423538 GCAGGGATTTACAGTTTGCGAT 59.576 45.455 0.00 0.00 0.00 4.58
3229 3712 1.539388 TGCAGGGATTTACAGTTTGCG 59.461 47.619 0.00 0.00 33.03 4.85
3263 3749 1.674441 CGCGTCCTAAGTACCAGATCA 59.326 52.381 0.00 0.00 0.00 2.92
3284 3792 3.673902 CAACCTACATCACATCCACACA 58.326 45.455 0.00 0.00 0.00 3.72
3290 3798 2.684881 CCTTGGCAACCTACATCACATC 59.315 50.000 0.00 0.00 0.00 3.06
3453 3964 3.023735 GGTGGGGATTCAGGCCCT 61.024 66.667 0.00 0.00 45.30 5.19
3480 3991 4.699735 CAGCTGGTAATTATGTTGTGTCCA 59.300 41.667 5.57 0.00 0.00 4.02
3481 3992 4.438744 GCAGCTGGTAATTATGTTGTGTCC 60.439 45.833 17.12 0.00 0.00 4.02
3507 4027 4.052229 GCAACCCAGCAGCAGCAG 62.052 66.667 3.17 0.00 45.49 4.24
3508 4028 4.898765 TGCAACCCAGCAGCAGCA 62.899 61.111 3.17 0.00 45.49 4.41
3624 4144 5.520288 GCTTCTTAATGCTGTTATCACGAGA 59.480 40.000 0.00 0.00 0.00 4.04
3637 4157 5.091431 CAGTTAGCAACAGCTTCTTAATGC 58.909 41.667 0.00 0.00 39.77 3.56
3643 4177 3.475566 TGTCAGTTAGCAACAGCTTCT 57.524 42.857 0.00 0.00 39.77 2.85
3662 4196 6.907212 GCATTGTCGATTTTCAGGTAGTTATG 59.093 38.462 0.00 0.00 0.00 1.90
3672 4206 1.202114 GGCCTGCATTGTCGATTTTCA 59.798 47.619 0.00 0.00 0.00 2.69
3673 4207 1.474077 AGGCCTGCATTGTCGATTTTC 59.526 47.619 3.11 0.00 0.00 2.29
3679 4213 1.028330 ATGACAGGCCTGCATTGTCG 61.028 55.000 33.06 6.81 43.12 4.35
3683 4217 1.180029 GTGAATGACAGGCCTGCATT 58.820 50.000 35.37 35.37 38.78 3.56
3798 4332 1.361204 TCTCCAAGTTGGCTCCATGA 58.639 50.000 17.68 5.44 37.47 3.07
3804 4338 3.077359 CTCGAAATTCTCCAAGTTGGCT 58.923 45.455 17.68 0.00 37.47 4.75
3814 4348 2.350522 TGCCAAGAGCTCGAAATTCTC 58.649 47.619 8.37 0.00 44.23 2.87
3839 4374 6.761714 CAGACCACAAGATTAACCCATAGTAC 59.238 42.308 0.00 0.00 0.00 2.73
3840 4375 6.670464 TCAGACCACAAGATTAACCCATAGTA 59.330 38.462 0.00 0.00 0.00 1.82
3841 4376 5.487488 TCAGACCACAAGATTAACCCATAGT 59.513 40.000 0.00 0.00 0.00 2.12
3851 4386 7.600065 CAAGATCAATTTCAGACCACAAGATT 58.400 34.615 0.00 0.00 0.00 2.40
3945 4480 4.459337 TCCATCCACGATACTGCTATAGTG 59.541 45.833 0.84 0.00 40.65 2.74
3946 4481 4.663334 TCCATCCACGATACTGCTATAGT 58.337 43.478 0.84 0.00 43.56 2.12
3947 4482 5.644977 TTCCATCCACGATACTGCTATAG 57.355 43.478 0.00 0.00 0.00 1.31
3948 4483 5.105351 CCATTCCATCCACGATACTGCTATA 60.105 44.000 0.00 0.00 0.00 1.31
3950 4485 3.006859 CCATTCCATCCACGATACTGCTA 59.993 47.826 0.00 0.00 0.00 3.49
3955 4490 3.753272 CCATTCCATTCCATCCACGATAC 59.247 47.826 0.00 0.00 0.00 2.24
3956 4491 3.650461 TCCATTCCATTCCATCCACGATA 59.350 43.478 0.00 0.00 0.00 2.92
3958 4493 1.843206 TCCATTCCATTCCATCCACGA 59.157 47.619 0.00 0.00 0.00 4.35
3972 4507 2.708325 AGGGAGTAGGAGCATTCCATTC 59.292 50.000 0.00 0.00 46.64 2.67
3977 4512 3.961408 TCAACTAGGGAGTAGGAGCATTC 59.039 47.826 0.00 0.00 33.58 2.67
3979 4514 3.301274 GTCAACTAGGGAGTAGGAGCAT 58.699 50.000 0.00 0.00 33.58 3.79
3981 4516 2.691011 CTGTCAACTAGGGAGTAGGAGC 59.309 54.545 0.00 0.00 33.58 4.70
3983 4518 2.623502 GGCTGTCAACTAGGGAGTAGGA 60.624 54.545 0.00 0.00 33.58 2.94
3984 4519 1.757699 GGCTGTCAACTAGGGAGTAGG 59.242 57.143 0.00 0.00 33.58 3.18
3985 4520 2.428890 CTGGCTGTCAACTAGGGAGTAG 59.571 54.545 0.00 0.00 33.58 2.57
3986 4521 2.042569 TCTGGCTGTCAACTAGGGAGTA 59.957 50.000 0.00 0.00 33.58 2.59
3987 4522 1.203187 TCTGGCTGTCAACTAGGGAGT 60.203 52.381 0.00 0.00 37.59 3.85
3988 4523 1.205893 GTCTGGCTGTCAACTAGGGAG 59.794 57.143 0.00 0.00 0.00 4.30
3989 4524 1.203187 AGTCTGGCTGTCAACTAGGGA 60.203 52.381 0.00 0.00 0.00 4.20
3990 4525 1.270907 AGTCTGGCTGTCAACTAGGG 58.729 55.000 0.00 0.00 0.00 3.53
3991 4526 2.613977 CCAAGTCTGGCTGTCAACTAGG 60.614 54.545 0.00 0.00 35.39 3.02
3992 4527 2.693069 CCAAGTCTGGCTGTCAACTAG 58.307 52.381 0.00 0.00 35.39 2.57
4007 4542 2.663196 GTACGCCTGGAGCCAAGT 59.337 61.111 0.00 0.00 38.78 3.16
4084 4619 7.480542 CACTAACAATGGCTACGAAAATTACAC 59.519 37.037 0.00 0.00 0.00 2.90
4206 4763 0.992802 GTTGCGTTCCATCTCGTCTC 59.007 55.000 0.00 0.00 0.00 3.36
4218 4775 0.468226 TCTTGGGACAGAGTTGCGTT 59.532 50.000 0.00 0.00 42.39 4.84
4263 4829 9.049523 CGTACTTACTACTAGTGGTTATGATCA 57.950 37.037 17.69 0.00 0.00 2.92
4264 4830 9.050601 ACGTACTTACTACTAGTGGTTATGATC 57.949 37.037 17.69 4.13 0.00 2.92
4265 4831 8.970859 ACGTACTTACTACTAGTGGTTATGAT 57.029 34.615 17.69 2.42 0.00 2.45
4266 4832 9.534565 CTACGTACTTACTACTAGTGGTTATGA 57.465 37.037 17.69 0.00 0.00 2.15
4267 4833 9.319143 ACTACGTACTTACTACTAGTGGTTATG 57.681 37.037 17.69 11.35 0.00 1.90
4268 4834 9.535878 GACTACGTACTTACTACTAGTGGTTAT 57.464 37.037 17.69 6.13 0.00 1.89
4269 4835 8.750298 AGACTACGTACTTACTACTAGTGGTTA 58.250 37.037 17.69 7.57 0.00 2.85
4270 4836 7.616313 AGACTACGTACTTACTACTAGTGGTT 58.384 38.462 17.69 2.18 0.00 3.67
4291 4862 1.437772 CGATCTCCGGCGTGTAGACT 61.438 60.000 6.01 0.00 33.91 3.24
4299 4875 0.179145 AGTTAACACGATCTCCGGCG 60.179 55.000 8.61 0.00 43.93 6.46
4331 4919 2.126850 GCCGGCTCGTTGAAAAGC 60.127 61.111 22.15 0.00 37.80 3.51
4674 5277 1.214589 CAACTACCCGTCCCTGTCG 59.785 63.158 0.00 0.00 0.00 4.35
4779 5382 2.149578 CTCAACTTCCTCTGCAACCTG 58.850 52.381 0.00 0.00 0.00 4.00
4807 5410 3.900892 CTACGACATCGCGCCCCT 61.901 66.667 0.00 0.00 44.43 4.79
4808 5411 3.896133 TCTACGACATCGCGCCCC 61.896 66.667 0.00 0.00 44.43 5.80
4912 5515 1.795170 AACAGCAACGGCACCATGAC 61.795 55.000 0.00 0.00 44.61 3.06
4913 5516 1.528076 AACAGCAACGGCACCATGA 60.528 52.632 0.00 0.00 44.61 3.07


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

AutoCloner maintained by Alex Coulton.