Multiple sequence alignment - TraesCS6A01G111100

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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 TraesCS6A01G111100 chr6A 100.000 4574 0 0 1 4574 80648616 80644043 0.000000e+00 8447.0
1 TraesCS6A01G111100 chr6D 94.401 3715 128 25 802 4468 62880570 62876888 0.000000e+00 5635.0
2 TraesCS6A01G111100 chr6D 85.430 803 83 26 1 788 62882407 62881624 0.000000e+00 804.0
3 TraesCS6A01G111100 chr6D 97.143 35 1 0 1416 1450 62879987 62879953 4.940000e-05 60.2
4 TraesCS6A01G111100 chr6B 96.044 2250 74 7 858 3103 136460547 136458309 0.000000e+00 3648.0
5 TraesCS6A01G111100 chr6B 94.213 1054 51 6 3102 4151 136458205 136457158 0.000000e+00 1600.0
6 TraesCS6A01G111100 chr6B 90.547 201 15 3 4188 4386 136456954 136456756 3.510000e-66 263.0
7 TraesCS6A01G111100 chr6B 80.851 94 13 5 87 178 229705934 229706024 8.210000e-08 69.4
8 TraesCS6A01G111100 chr6B 74.545 165 32 10 21 180 229705936 229706095 3.820000e-06 63.9
9 TraesCS6A01G111100 chr6B 97.143 35 1 0 1416 1450 136460024 136459990 4.940000e-05 60.2
10 TraesCS6A01G111100 chr7A 77.473 546 82 28 1 521 221675545 221676074 5.790000e-74 289.0
11 TraesCS6A01G111100 chr7A 83.417 199 22 10 13 206 223939871 223940063 1.690000e-39 174.0
12 TraesCS6A01G111100 chr7B 81.707 328 39 13 1 315 192803177 192802858 2.110000e-63 254.0
13 TraesCS6A01G111100 chr2D 90.000 50 4 1 137 185 192163060 192163011 3.820000e-06 63.9
14 TraesCS6A01G111100 chr5D 81.333 75 13 1 105 178 387293618 387293544 4.940000e-05 60.2


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 TraesCS6A01G111100 chr6A 80644043 80648616 4573 True 8447.0 8447 100.000000 1 4574 1 chr6A.!!$R1 4573
1 TraesCS6A01G111100 chr6D 62876888 62882407 5519 True 2166.4 5635 92.324667 1 4468 3 chr6D.!!$R1 4467
2 TraesCS6A01G111100 chr6B 136456756 136460547 3791 True 1392.8 3648 94.486750 858 4386 4 chr6B.!!$R1 3528
3 TraesCS6A01G111100 chr7A 221675545 221676074 529 False 289.0 289 77.473000 1 521 1 chr7A.!!$F1 520

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
533 555 0.174162 GCCATTGCCCATTGAGTGTC 59.826 55.0 0.0 0.0 0.00 3.67 F
1553 2626 0.178998 GCAGATGCCCAGTCCATGAT 60.179 55.0 0.0 0.0 34.31 2.45 F
2012 3089 0.460311 CCCTCGACCACCTATGTCAC 59.540 60.0 0.0 0.0 32.91 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2024 3101 0.743701 GAGCAGGGCACATGACTCTG 60.744 60.0 13.83 13.83 0.0 3.35 R
3408 4597 0.179000 CCGCTATCTTCTGGGCTGTT 59.821 55.0 0.00 0.00 0.0 3.16 R
3616 4807 0.469144 GGACAAAAAGGGGAGGCACA 60.469 55.0 0.00 0.00 0.0 4.57 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
81 84 8.608185 ACCATGGAAATTTATTAATCACACCT 57.392 30.769 21.47 0.00 0.00 4.00
238 250 6.345096 AGACCTTGGTGATTTTATTGTTGG 57.655 37.500 0.00 0.00 0.00 3.77
455 477 6.279227 TGTGTTGCAAAAATCAATTAACCG 57.721 33.333 0.00 0.00 0.00 4.44
458 480 6.200097 GTGTTGCAAAAATCAATTAACCGAGT 59.800 34.615 0.00 0.00 0.00 4.18
469 491 6.500041 TCAATTAACCGAGTCTTTTGTTTGG 58.500 36.000 0.00 0.00 0.00 3.28
480 502 8.020819 CGAGTCTTTTGTTTGGCAATAAAGATA 58.979 33.333 23.46 9.71 36.73 1.98
487 509 9.921637 TTTGTTTGGCAATAAAGATAAAGTAGG 57.078 29.630 0.00 0.00 36.89 3.18
490 512 6.584471 TGGCAATAAAGATAAAGTAGGGGA 57.416 37.500 0.00 0.00 0.00 4.81
522 544 2.410469 GCATGTCGAGCCATTGCC 59.590 61.111 0.00 0.00 38.69 4.52
523 545 3.113745 CATGTCGAGCCATTGCCC 58.886 61.111 0.00 0.00 38.69 5.36
524 546 1.750018 CATGTCGAGCCATTGCCCA 60.750 57.895 0.00 0.00 38.69 5.36
525 547 1.105167 CATGTCGAGCCATTGCCCAT 61.105 55.000 0.00 0.00 38.69 4.00
526 548 0.396139 ATGTCGAGCCATTGCCCATT 60.396 50.000 0.00 0.00 38.69 3.16
527 549 1.314534 TGTCGAGCCATTGCCCATTG 61.315 55.000 0.00 0.00 38.69 2.82
528 550 1.031571 GTCGAGCCATTGCCCATTGA 61.032 55.000 0.00 0.00 38.69 2.57
529 551 0.749091 TCGAGCCATTGCCCATTGAG 60.749 55.000 0.00 0.00 38.69 3.02
532 554 0.251922 AGCCATTGCCCATTGAGTGT 60.252 50.000 0.00 0.00 38.69 3.55
533 555 0.174162 GCCATTGCCCATTGAGTGTC 59.826 55.000 0.00 0.00 0.00 3.67
534 556 1.548081 CCATTGCCCATTGAGTGTCA 58.452 50.000 0.00 0.00 0.00 3.58
535 557 1.203052 CCATTGCCCATTGAGTGTCAC 59.797 52.381 0.00 0.00 0.00 3.67
536 558 1.135603 CATTGCCCATTGAGTGTCACG 60.136 52.381 0.00 0.00 0.00 4.35
537 559 1.514678 TTGCCCATTGAGTGTCACGC 61.515 55.000 0.00 0.00 0.00 5.34
538 560 1.672356 GCCCATTGAGTGTCACGCT 60.672 57.895 8.24 0.00 0.00 5.07
539 561 0.391130 GCCCATTGAGTGTCACGCTA 60.391 55.000 8.24 0.62 0.00 4.26
541 563 1.066858 CCCATTGAGTGTCACGCTAGT 60.067 52.381 8.24 0.00 0.00 2.57
551 573 2.832931 CACGCTAGTGCTTTGCTCT 58.167 52.632 2.40 0.03 41.94 4.09
552 574 1.996292 CACGCTAGTGCTTTGCTCTA 58.004 50.000 2.40 0.00 41.94 2.43
553 575 2.544685 CACGCTAGTGCTTTGCTCTAT 58.455 47.619 2.40 0.00 41.94 1.98
583 605 7.970061 TGAAATCATTCATTGAAACGATCCTTC 59.030 33.333 2.68 10.06 40.59 3.46
584 606 6.052840 ATCATTCATTGAAACGATCCTTCG 57.947 37.500 2.68 0.00 43.76 3.79
631 654 5.185454 ACCATCTTTATGATTTGACGAGCA 58.815 37.500 0.00 0.00 34.84 4.26
632 655 5.824624 ACCATCTTTATGATTTGACGAGCAT 59.175 36.000 0.00 0.00 34.84 3.79
645 668 9.646336 GATTTGACGAGCATTAAATATTAACGT 57.354 29.630 0.00 0.00 0.00 3.99
648 671 8.187354 TGACGAGCATTAAATATTAACGTTCA 57.813 30.769 2.82 0.00 0.00 3.18
652 675 9.268255 CGAGCATTAAATATTAACGTTCAAACA 57.732 29.630 2.82 0.00 0.00 2.83
662 685 7.631915 ATTAACGTTCAAACATTTTACAGGC 57.368 32.000 2.82 0.00 0.00 4.85
663 686 4.640789 ACGTTCAAACATTTTACAGGCA 57.359 36.364 0.00 0.00 0.00 4.75
664 687 5.195001 ACGTTCAAACATTTTACAGGCAT 57.805 34.783 0.00 0.00 0.00 4.40
665 688 5.219633 ACGTTCAAACATTTTACAGGCATC 58.780 37.500 0.00 0.00 0.00 3.91
666 689 5.218885 CGTTCAAACATTTTACAGGCATCA 58.781 37.500 0.00 0.00 0.00 3.07
667 690 5.343058 CGTTCAAACATTTTACAGGCATCAG 59.657 40.000 0.00 0.00 0.00 2.90
668 691 6.446318 GTTCAAACATTTTACAGGCATCAGA 58.554 36.000 0.00 0.00 0.00 3.27
670 693 4.685169 AACATTTTACAGGCATCAGACG 57.315 40.909 0.00 0.00 0.00 4.18
671 694 3.009723 ACATTTTACAGGCATCAGACGG 58.990 45.455 0.00 0.00 0.00 4.79
672 695 1.448985 TTTTACAGGCATCAGACGGC 58.551 50.000 0.00 0.00 0.00 5.68
673 696 0.323302 TTTACAGGCATCAGACGGCA 59.677 50.000 0.00 0.00 0.00 5.69
674 697 0.323302 TTACAGGCATCAGACGGCAA 59.677 50.000 0.00 0.00 0.00 4.52
677 700 2.437359 GGCATCAGACGGCAAGCT 60.437 61.111 0.00 0.00 0.00 3.74
678 701 2.042831 GGCATCAGACGGCAAGCTT 61.043 57.895 0.00 0.00 0.00 3.74
680 703 1.300971 GCATCAGACGGCAAGCTTGA 61.301 55.000 30.39 7.62 0.00 3.02
681 704 1.376543 CATCAGACGGCAAGCTTGAT 58.623 50.000 30.39 14.06 0.00 2.57
682 705 2.554142 CATCAGACGGCAAGCTTGATA 58.446 47.619 30.39 6.45 0.00 2.15
683 706 2.760634 TCAGACGGCAAGCTTGATAA 57.239 45.000 30.39 4.47 0.00 1.75
711 735 9.830975 AAACTATAAAAAGGCAGACAAACAATT 57.169 25.926 0.00 0.00 0.00 2.32
742 766 5.968387 GACAACGGTCCAGATTTATACTG 57.032 43.478 0.00 0.00 38.12 2.74
756 780 1.668419 ATACTGGAATCAGCCGCAAC 58.332 50.000 0.00 0.00 44.59 4.17
772 796 3.063997 CCGCAACCACTGATCAATTCTAC 59.936 47.826 0.00 0.00 0.00 2.59
776 800 5.064452 GCAACCACTGATCAATTCTACAGAG 59.936 44.000 0.00 0.00 34.88 3.35
777 801 6.401394 CAACCACTGATCAATTCTACAGAGA 58.599 40.000 0.00 0.00 34.88 3.10
788 812 6.040955 TCAATTCTACAGAGACCGCATAAGAT 59.959 38.462 0.00 0.00 0.00 2.40
789 813 5.854010 TTCTACAGAGACCGCATAAGATT 57.146 39.130 0.00 0.00 0.00 2.40
790 814 5.854010 TCTACAGAGACCGCATAAGATTT 57.146 39.130 0.00 0.00 0.00 2.17
791 815 6.222038 TCTACAGAGACCGCATAAGATTTT 57.778 37.500 0.00 0.00 0.00 1.82
792 816 6.042777 TCTACAGAGACCGCATAAGATTTTG 58.957 40.000 0.00 0.00 0.00 2.44
793 817 3.375299 ACAGAGACCGCATAAGATTTTGC 59.625 43.478 0.00 0.00 35.50 3.68
794 818 3.374988 CAGAGACCGCATAAGATTTTGCA 59.625 43.478 8.39 0.00 38.80 4.08
795 819 4.036027 CAGAGACCGCATAAGATTTTGCAT 59.964 41.667 8.39 0.00 38.80 3.96
796 820 4.274459 AGAGACCGCATAAGATTTTGCATC 59.726 41.667 8.39 5.40 38.80 3.91
797 821 3.002656 AGACCGCATAAGATTTTGCATCG 59.997 43.478 8.39 0.00 38.80 3.84
800 1864 4.334203 ACCGCATAAGATTTTGCATCGTAA 59.666 37.500 8.39 0.00 38.80 3.18
828 1892 1.339151 ACAGAATGAACGCTCCTTCCC 60.339 52.381 0.90 0.00 39.69 3.97
834 1898 0.466124 GAACGCTCCTTCCCATAGCT 59.534 55.000 0.00 0.00 34.03 3.32
835 1899 0.179000 AACGCTCCTTCCCATAGCTG 59.821 55.000 0.00 0.00 34.03 4.24
839 1903 1.500474 CTCCTTCCCATAGCTGGTGA 58.500 55.000 0.00 0.00 41.37 4.02
840 1904 1.839994 CTCCTTCCCATAGCTGGTGAA 59.160 52.381 0.00 0.00 41.37 3.18
971 2035 3.064987 GCGTCTCTCCGGCAGCTTA 62.065 63.158 0.00 0.00 0.00 3.09
1149 2219 2.597903 GGATTGCAGGGGAGGGAC 59.402 66.667 0.00 0.00 0.00 4.46
1179 2249 2.374342 CTGGGGATCTGGGGAGGT 59.626 66.667 0.00 0.00 0.00 3.85
1355 2425 1.153549 GTGAGGTGGATGTCTCGCC 60.154 63.158 0.00 0.00 35.25 5.54
1443 2513 5.416271 TGTTTCCTCTTGTGTATCTACCC 57.584 43.478 0.00 0.00 0.00 3.69
1549 2622 0.991146 TTTAGCAGATGCCCAGTCCA 59.009 50.000 0.14 0.00 43.38 4.02
1553 2626 0.178998 GCAGATGCCCAGTCCATGAT 60.179 55.000 0.00 0.00 34.31 2.45
1690 2767 6.968263 TGGAGGTCTTGTTCATCTATCTAG 57.032 41.667 0.00 0.00 0.00 2.43
1856 2933 4.776349 TGTCATGTGGGGTATGTAATGTC 58.224 43.478 0.00 0.00 0.00 3.06
1859 2936 6.100424 TGTCATGTGGGGTATGTAATGTCATA 59.900 38.462 0.00 0.00 0.00 2.15
2012 3089 0.460311 CCCTCGACCACCTATGTCAC 59.540 60.000 0.00 0.00 32.91 3.67
2074 3151 1.746787 CTTAAGCACTGCATCATGGCA 59.253 47.619 3.30 0.00 42.53 4.92
2091 3168 2.359848 TGGCACTTCTCATATGCATTGC 59.640 45.455 3.54 5.78 41.27 3.56
2092 3169 2.621998 GGCACTTCTCATATGCATTGCT 59.378 45.455 3.54 0.00 41.27 3.91
2464 3541 1.599071 CGACCGCATGTATCATTGCTT 59.401 47.619 0.00 0.00 36.71 3.91
2486 3563 7.502895 TGCTTTAACAAATCAGGTTGGTTACTA 59.497 33.333 0.00 0.00 36.24 1.82
2582 3659 4.918810 AAGTTGACCACCATTCTTTGTC 57.081 40.909 0.00 0.00 0.00 3.18
2671 3748 5.511377 CGATTTCGGATTTGGTTGTACATTG 59.489 40.000 0.00 0.00 35.37 2.82
2833 3910 1.605710 CCTAATGCTGCACAGGTATGC 59.394 52.381 19.21 0.00 46.32 3.14
2972 4049 9.011095 AGTTTTATGTTCTAGTAAAAGAAGCCC 57.989 33.333 0.00 0.00 36.19 5.19
2980 4057 1.960689 GTAAAAGAAGCCCTTGTGCCA 59.039 47.619 0.00 0.00 34.79 4.92
3132 4314 6.475402 CACATGTAGTATAATTCTGCGACACA 59.525 38.462 0.00 0.00 0.00 3.72
3133 4315 7.169813 CACATGTAGTATAATTCTGCGACACAT 59.830 37.037 0.00 0.00 0.00 3.21
3136 4318 5.023533 AGTATAATTCTGCGACACATGGT 57.976 39.130 0.00 0.00 0.00 3.55
3147 4329 4.277174 TGCGACACATGGTTTGTAGAATTT 59.723 37.500 0.00 0.00 36.57 1.82
3291 4480 2.258109 ACTCAGGTCTTCAAGGTACCC 58.742 52.381 8.74 0.00 33.53 3.69
3343 4532 4.553330 ACAGATGGGTTGTTCGATAACT 57.447 40.909 11.39 0.00 36.51 2.24
3408 4597 1.500474 CTGGCCTGGATCCTCAAGTA 58.500 55.000 14.23 0.00 0.00 2.24
3429 4618 2.066393 AGCCCAGAAGATAGCGGCA 61.066 57.895 1.45 0.00 42.28 5.69
3585 4776 2.211250 ACTCGTAGCAGTGGGTTAGA 57.789 50.000 0.00 0.00 0.00 2.10
3616 4807 2.814919 CTGAATATCTAGACCGAGGCGT 59.185 50.000 0.00 0.00 0.00 5.68
3649 4840 5.773176 CCTTTTTGTCCTGTAAATACCCACT 59.227 40.000 0.00 0.00 0.00 4.00
3658 4849 5.129815 CCTGTAAATACCCACTACAGCCTTA 59.870 44.000 3.46 0.00 40.71 2.69
3754 4945 2.792878 ACAGTAGCTGTAGAGAACCGT 58.207 47.619 0.00 0.00 43.46 4.83
3755 4946 2.488545 ACAGTAGCTGTAGAGAACCGTG 59.511 50.000 0.00 0.00 43.46 4.94
3761 4952 1.887198 CTGTAGAGAACCGTGGACAGT 59.113 52.381 0.00 0.00 31.70 3.55
3810 5001 1.025812 ACGGATTCAAACACGGCAAA 58.974 45.000 0.00 0.00 0.00 3.68
3967 5160 3.435186 GAGAACAAGCTGCGGCCC 61.435 66.667 15.55 0.00 39.73 5.80
3968 5161 4.269523 AGAACAAGCTGCGGCCCA 62.270 61.111 15.55 0.00 39.73 5.36
4009 5202 0.465097 CAAGCAATGGAGAGGCCGAT 60.465 55.000 0.00 0.00 40.66 4.18
4013 5206 1.755179 CAATGGAGAGGCCGATTGTT 58.245 50.000 0.00 0.00 40.66 2.83
4095 5312 6.039616 TGTGTTCTATGCCTTTGTTTTTCAC 58.960 36.000 0.00 0.00 0.00 3.18
4276 5660 5.690865 ACTTTGGTGAAATGTAGTTGGAGA 58.309 37.500 0.00 0.00 0.00 3.71
4343 5729 6.830873 AGATCATGCTGTAGAAAGCTTTTT 57.169 33.333 14.05 10.53 43.90 1.94
4345 5731 7.983307 AGATCATGCTGTAGAAAGCTTTTTAG 58.017 34.615 14.05 10.23 43.90 1.85
4367 5755 5.126779 AGAAACTTCTTCTCTTGAACCCAC 58.873 41.667 0.00 0.00 32.55 4.61
4387 5775 6.431234 ACCCACTTAGAGTTAAAAGAAGCATG 59.569 38.462 0.00 0.00 0.00 4.06
4396 5784 3.831715 AAAAGAAGCATGTAACGGAGC 57.168 42.857 0.00 0.00 0.00 4.70
4397 5785 1.739067 AAGAAGCATGTAACGGAGCC 58.261 50.000 0.00 0.00 0.00 4.70
4398 5786 0.460284 AGAAGCATGTAACGGAGCCG 60.460 55.000 7.48 7.48 46.03 5.52
4399 5787 0.459585 GAAGCATGTAACGGAGCCGA 60.460 55.000 16.83 0.00 42.83 5.54
4400 5788 0.036765 AAGCATGTAACGGAGCCGAA 60.037 50.000 16.83 0.06 42.83 4.30
4401 5789 0.739813 AGCATGTAACGGAGCCGAAC 60.740 55.000 16.83 13.09 42.83 3.95
4402 5790 1.017177 GCATGTAACGGAGCCGAACA 61.017 55.000 16.83 17.92 42.83 3.18
4403 5791 1.434555 CATGTAACGGAGCCGAACAA 58.565 50.000 16.83 5.20 42.83 2.83
4404 5792 1.801771 CATGTAACGGAGCCGAACAAA 59.198 47.619 16.83 0.00 42.83 2.83
4405 5793 2.172851 TGTAACGGAGCCGAACAAAT 57.827 45.000 16.83 0.00 42.83 2.32
4406 5794 2.070783 TGTAACGGAGCCGAACAAATC 58.929 47.619 16.83 0.00 42.83 2.17
4407 5795 2.289195 TGTAACGGAGCCGAACAAATCT 60.289 45.455 16.83 0.00 42.83 2.40
4408 5796 1.439679 AACGGAGCCGAACAAATCTC 58.560 50.000 16.83 0.00 42.83 2.75
4409 5797 0.320374 ACGGAGCCGAACAAATCTCA 59.680 50.000 16.83 0.00 42.83 3.27
4410 5798 1.066143 ACGGAGCCGAACAAATCTCAT 60.066 47.619 16.83 0.00 42.83 2.90
4424 5812 5.537674 ACAAATCTCATTGTTTCCAGAAGCT 59.462 36.000 0.00 0.00 40.52 3.74
4428 5816 5.835257 TCTCATTGTTTCCAGAAGCTTTTG 58.165 37.500 9.98 9.98 0.00 2.44
4469 5860 2.526958 TGTCACAGAAGACAGCCCA 58.473 52.632 0.00 0.00 43.18 5.36
4470 5861 1.059098 TGTCACAGAAGACAGCCCAT 58.941 50.000 0.00 0.00 43.18 4.00
4471 5862 1.002430 TGTCACAGAAGACAGCCCATC 59.998 52.381 0.00 0.00 43.18 3.51
4472 5863 1.002430 GTCACAGAAGACAGCCCATCA 59.998 52.381 0.00 0.00 38.40 3.07
4473 5864 1.911357 TCACAGAAGACAGCCCATCAT 59.089 47.619 0.00 0.00 0.00 2.45
4474 5865 2.014857 CACAGAAGACAGCCCATCATG 58.985 52.381 0.00 0.00 0.00 3.07
4475 5866 1.632409 ACAGAAGACAGCCCATCATGT 59.368 47.619 0.00 0.00 0.00 3.21
4476 5867 2.040813 ACAGAAGACAGCCCATCATGTT 59.959 45.455 0.00 0.00 0.00 2.71
4477 5868 3.264193 ACAGAAGACAGCCCATCATGTTA 59.736 43.478 0.00 0.00 0.00 2.41
4478 5869 4.080129 ACAGAAGACAGCCCATCATGTTAT 60.080 41.667 0.00 0.00 0.00 1.89
4479 5870 4.514441 CAGAAGACAGCCCATCATGTTATC 59.486 45.833 0.00 0.00 0.00 1.75
4480 5871 3.498774 AGACAGCCCATCATGTTATCC 57.501 47.619 0.00 0.00 0.00 2.59
4481 5872 2.779430 AGACAGCCCATCATGTTATCCA 59.221 45.455 0.00 0.00 0.00 3.41
4482 5873 3.202818 AGACAGCCCATCATGTTATCCAA 59.797 43.478 0.00 0.00 0.00 3.53
4483 5874 3.953612 GACAGCCCATCATGTTATCCAAA 59.046 43.478 0.00 0.00 0.00 3.28
4484 5875 4.549668 ACAGCCCATCATGTTATCCAAAT 58.450 39.130 0.00 0.00 0.00 2.32
4485 5876 4.342951 ACAGCCCATCATGTTATCCAAATG 59.657 41.667 0.00 0.00 0.00 2.32
4486 5877 3.322828 AGCCCATCATGTTATCCAAATGC 59.677 43.478 0.00 0.00 0.00 3.56
4487 5878 3.069872 GCCCATCATGTTATCCAAATGCA 59.930 43.478 0.00 0.00 0.00 3.96
4488 5879 4.262721 GCCCATCATGTTATCCAAATGCAT 60.263 41.667 0.00 0.00 0.00 3.96
4489 5880 5.234752 CCCATCATGTTATCCAAATGCATG 58.765 41.667 0.00 0.00 38.49 4.06
4490 5881 5.221561 CCCATCATGTTATCCAAATGCATGT 60.222 40.000 0.00 0.00 38.35 3.21
4491 5882 5.924254 CCATCATGTTATCCAAATGCATGTC 59.076 40.000 0.00 0.00 38.35 3.06
4492 5883 5.518848 TCATGTTATCCAAATGCATGTCC 57.481 39.130 0.00 0.00 38.35 4.02
4493 5884 5.202765 TCATGTTATCCAAATGCATGTCCT 58.797 37.500 0.00 0.00 38.35 3.85
4494 5885 5.657745 TCATGTTATCCAAATGCATGTCCTT 59.342 36.000 0.00 0.00 38.35 3.36
4495 5886 5.999205 TGTTATCCAAATGCATGTCCTTT 57.001 34.783 0.00 0.00 0.00 3.11
4496 5887 6.357579 TGTTATCCAAATGCATGTCCTTTT 57.642 33.333 0.00 0.00 0.00 2.27
4497 5888 6.397272 TGTTATCCAAATGCATGTCCTTTTC 58.603 36.000 0.00 0.00 0.00 2.29
4498 5889 3.574284 TCCAAATGCATGTCCTTTTCG 57.426 42.857 0.00 0.00 0.00 3.46
4499 5890 1.994779 CCAAATGCATGTCCTTTTCGC 59.005 47.619 0.00 0.00 0.00 4.70
4500 5891 2.353011 CCAAATGCATGTCCTTTTCGCT 60.353 45.455 0.00 0.00 0.00 4.93
4501 5892 3.319755 CAAATGCATGTCCTTTTCGCTT 58.680 40.909 0.00 0.00 0.00 4.68
4502 5893 3.665745 AATGCATGTCCTTTTCGCTTT 57.334 38.095 0.00 0.00 0.00 3.51
4503 5894 2.420628 TGCATGTCCTTTTCGCTTTG 57.579 45.000 0.00 0.00 0.00 2.77
4504 5895 1.063031 GCATGTCCTTTTCGCTTTGC 58.937 50.000 0.00 0.00 0.00 3.68
4505 5896 1.602668 GCATGTCCTTTTCGCTTTGCA 60.603 47.619 0.00 0.00 0.00 4.08
4506 5897 2.741612 CATGTCCTTTTCGCTTTGCAA 58.258 42.857 0.00 0.00 0.00 4.08
4507 5898 3.319755 CATGTCCTTTTCGCTTTGCAAT 58.680 40.909 0.00 0.00 0.00 3.56
4508 5899 3.011949 TGTCCTTTTCGCTTTGCAATC 57.988 42.857 0.00 0.00 0.00 2.67
4509 5900 2.360483 TGTCCTTTTCGCTTTGCAATCA 59.640 40.909 0.00 0.00 0.00 2.57
4510 5901 2.982470 GTCCTTTTCGCTTTGCAATCAG 59.018 45.455 0.00 0.00 0.00 2.90
4511 5902 2.622942 TCCTTTTCGCTTTGCAATCAGT 59.377 40.909 0.00 0.00 0.00 3.41
4512 5903 3.068024 TCCTTTTCGCTTTGCAATCAGTT 59.932 39.130 0.00 0.00 0.00 3.16
4513 5904 3.182972 CCTTTTCGCTTTGCAATCAGTTG 59.817 43.478 0.00 0.00 38.39 3.16
4514 5905 3.435105 TTTCGCTTTGCAATCAGTTGT 57.565 38.095 0.00 0.00 37.65 3.32
4515 5906 3.435105 TTCGCTTTGCAATCAGTTGTT 57.565 38.095 0.00 0.00 37.65 2.83
4516 5907 2.998772 TCGCTTTGCAATCAGTTGTTC 58.001 42.857 0.00 0.00 37.65 3.18
4517 5908 1.710249 CGCTTTGCAATCAGTTGTTCG 59.290 47.619 0.00 0.00 37.65 3.95
4518 5909 1.453148 GCTTTGCAATCAGTTGTTCGC 59.547 47.619 0.00 0.00 37.65 4.70
4519 5910 1.710249 CTTTGCAATCAGTTGTTCGCG 59.290 47.619 0.00 0.00 37.65 5.87
4520 5911 0.660005 TTGCAATCAGTTGTTCGCGC 60.660 50.000 0.00 0.00 37.65 6.86
4521 5912 1.797537 GCAATCAGTTGTTCGCGCC 60.798 57.895 0.00 0.00 37.65 6.53
4522 5913 1.509787 CAATCAGTTGTTCGCGCCG 60.510 57.895 0.00 0.00 0.00 6.46
4523 5914 3.308878 AATCAGTTGTTCGCGCCGC 62.309 57.895 0.00 0.00 0.00 6.53
4536 5927 2.883730 GCCGCGCGATACAGTTCA 60.884 61.111 34.63 0.00 0.00 3.18
4537 5928 2.860628 GCCGCGCGATACAGTTCAG 61.861 63.158 34.63 11.51 0.00 3.02
4538 5929 1.516386 CCGCGCGATACAGTTCAGT 60.516 57.895 34.63 0.00 0.00 3.41
4539 5930 1.472276 CCGCGCGATACAGTTCAGTC 61.472 60.000 34.63 0.00 0.00 3.51
4540 5931 0.796870 CGCGCGATACAGTTCAGTCA 60.797 55.000 28.94 0.00 0.00 3.41
4541 5932 1.346365 GCGCGATACAGTTCAGTCAA 58.654 50.000 12.10 0.00 0.00 3.18
4542 5933 1.321743 GCGCGATACAGTTCAGTCAAG 59.678 52.381 12.10 0.00 0.00 3.02
4543 5934 2.863739 CGCGATACAGTTCAGTCAAGA 58.136 47.619 0.00 0.00 0.00 3.02
4544 5935 2.848887 CGCGATACAGTTCAGTCAAGAG 59.151 50.000 0.00 0.00 0.00 2.85
4545 5936 3.426292 CGCGATACAGTTCAGTCAAGAGA 60.426 47.826 0.00 0.00 0.00 3.10
4546 5937 4.101942 GCGATACAGTTCAGTCAAGAGAG 58.898 47.826 0.00 0.00 0.00 3.20
4547 5938 4.380023 GCGATACAGTTCAGTCAAGAGAGT 60.380 45.833 0.00 0.00 0.00 3.24
4548 5939 5.704888 CGATACAGTTCAGTCAAGAGAGTT 58.295 41.667 0.00 0.00 0.00 3.01
4549 5940 5.797934 CGATACAGTTCAGTCAAGAGAGTTC 59.202 44.000 0.00 0.00 0.00 3.01
4550 5941 4.329462 ACAGTTCAGTCAAGAGAGTTCC 57.671 45.455 0.00 0.00 0.00 3.62
4551 5942 3.070302 ACAGTTCAGTCAAGAGAGTTCCC 59.930 47.826 0.00 0.00 0.00 3.97
4552 5943 2.635427 AGTTCAGTCAAGAGAGTTCCCC 59.365 50.000 0.00 0.00 0.00 4.81
4553 5944 2.368875 GTTCAGTCAAGAGAGTTCCCCA 59.631 50.000 0.00 0.00 0.00 4.96
4554 5945 2.251818 TCAGTCAAGAGAGTTCCCCAG 58.748 52.381 0.00 0.00 0.00 4.45
4555 5946 1.974236 CAGTCAAGAGAGTTCCCCAGT 59.026 52.381 0.00 0.00 0.00 4.00
4556 5947 2.028567 CAGTCAAGAGAGTTCCCCAGTC 60.029 54.545 0.00 0.00 0.00 3.51
4557 5948 1.971357 GTCAAGAGAGTTCCCCAGTCA 59.029 52.381 0.00 0.00 0.00 3.41
4558 5949 2.368875 GTCAAGAGAGTTCCCCAGTCAA 59.631 50.000 0.00 0.00 0.00 3.18
4559 5950 3.045634 TCAAGAGAGTTCCCCAGTCAAA 58.954 45.455 0.00 0.00 0.00 2.69
4560 5951 3.652869 TCAAGAGAGTTCCCCAGTCAAAT 59.347 43.478 0.00 0.00 0.00 2.32
4561 5952 3.990959 AGAGAGTTCCCCAGTCAAATC 57.009 47.619 0.00 0.00 0.00 2.17
4562 5953 2.234908 AGAGAGTTCCCCAGTCAAATCG 59.765 50.000 0.00 0.00 0.00 3.34
4563 5954 2.233922 GAGAGTTCCCCAGTCAAATCGA 59.766 50.000 0.00 0.00 0.00 3.59
4564 5955 2.637872 AGAGTTCCCCAGTCAAATCGAA 59.362 45.455 0.00 0.00 0.00 3.71
4565 5956 3.264450 AGAGTTCCCCAGTCAAATCGAAT 59.736 43.478 0.00 0.00 0.00 3.34
4566 5957 4.469945 AGAGTTCCCCAGTCAAATCGAATA 59.530 41.667 0.00 0.00 0.00 1.75
4567 5958 5.045869 AGAGTTCCCCAGTCAAATCGAATAA 60.046 40.000 0.00 0.00 0.00 1.40
4568 5959 5.186198 AGTTCCCCAGTCAAATCGAATAAG 58.814 41.667 0.00 0.00 0.00 1.73
4569 5960 3.541632 TCCCCAGTCAAATCGAATAAGC 58.458 45.455 0.00 0.00 0.00 3.09
4570 5961 3.054728 TCCCCAGTCAAATCGAATAAGCA 60.055 43.478 0.00 0.00 0.00 3.91
4571 5962 3.694072 CCCCAGTCAAATCGAATAAGCAA 59.306 43.478 0.00 0.00 0.00 3.91
4572 5963 4.157656 CCCCAGTCAAATCGAATAAGCAAA 59.842 41.667 0.00 0.00 0.00 3.68
4573 5964 5.336372 CCCCAGTCAAATCGAATAAGCAAAA 60.336 40.000 0.00 0.00 0.00 2.44
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 7.926018 GGTCTAATTGAAAAACTTGTCATGGTT 59.074 33.333 0.00 0.00 0.00 3.67
84 87 8.759782 GCCATGGTACCTACAATATAGAACTAT 58.240 37.037 14.67 0.00 0.00 2.12
141 145 3.961849 TGAAATTGCCATGCTACCTACA 58.038 40.909 0.00 0.00 0.00 2.74
220 225 7.814264 AAATTGCCAACAATAAAATCACCAA 57.186 28.000 0.00 0.00 45.90 3.67
445 467 6.500041 CCAAACAAAAGACTCGGTTAATTGA 58.500 36.000 0.00 0.00 0.00 2.57
454 476 6.205784 TCTTTATTGCCAAACAAAAGACTCG 58.794 36.000 8.19 0.00 42.86 4.18
455 477 9.691362 TTATCTTTATTGCCAAACAAAAGACTC 57.309 29.630 12.39 0.00 42.86 3.36
469 491 7.228906 GGTCTTCCCCTACTTTATCTTTATTGC 59.771 40.741 0.00 0.00 0.00 3.56
521 543 1.066858 ACTAGCGTGACACTCAATGGG 60.067 52.381 3.68 0.00 0.00 4.00
522 544 1.995484 CACTAGCGTGACACTCAATGG 59.005 52.381 3.68 0.00 43.97 3.16
523 545 1.391485 GCACTAGCGTGACACTCAATG 59.609 52.381 3.68 0.00 43.97 2.82
524 546 1.714794 GCACTAGCGTGACACTCAAT 58.285 50.000 3.68 0.00 43.97 2.57
525 547 3.195041 GCACTAGCGTGACACTCAA 57.805 52.632 3.68 0.00 43.97 3.02
526 548 4.966005 GCACTAGCGTGACACTCA 57.034 55.556 3.68 0.00 43.97 3.41
536 558 4.813161 TCATTCATAGAGCAAAGCACTAGC 59.187 41.667 2.88 0.00 35.47 3.42
537 559 6.915544 TTCATTCATAGAGCAAAGCACTAG 57.084 37.500 2.88 0.00 35.47 2.57
538 560 7.553760 TGATTTCATTCATAGAGCAAAGCACTA 59.446 33.333 0.00 0.00 36.32 2.74
539 561 6.376299 TGATTTCATTCATAGAGCAAAGCACT 59.624 34.615 0.00 0.00 33.51 4.40
541 563 6.762702 TGATTTCATTCATAGAGCAAAGCA 57.237 33.333 0.00 0.00 0.00 3.91
583 605 8.515473 GTTGAAATAAACATTCATTCGATCACG 58.485 33.333 0.00 0.00 36.72 4.35
584 606 8.798153 GGTTGAAATAAACATTCATTCGATCAC 58.202 33.333 0.00 0.00 36.72 3.06
602 624 8.739039 TCGTCAAATCATAAAGATGGTTGAAAT 58.261 29.630 6.56 0.00 36.48 2.17
641 664 5.000012 TGCCTGTAAAATGTTTGAACGTT 58.000 34.783 0.00 0.00 39.69 3.99
645 668 6.446318 GTCTGATGCCTGTAAAATGTTTGAA 58.554 36.000 0.00 0.00 0.00 2.69
648 671 4.082787 CCGTCTGATGCCTGTAAAATGTTT 60.083 41.667 0.00 0.00 0.00 2.83
652 675 2.017049 GCCGTCTGATGCCTGTAAAAT 58.983 47.619 0.00 0.00 0.00 1.82
662 685 1.376543 ATCAAGCTTGCCGTCTGATG 58.623 50.000 21.99 0.00 0.00 3.07
663 686 2.988010 TATCAAGCTTGCCGTCTGAT 57.012 45.000 21.99 10.59 0.00 2.90
664 687 2.760634 TTATCAAGCTTGCCGTCTGA 57.239 45.000 21.99 2.69 0.00 3.27
665 688 5.065218 AGTTTATTATCAAGCTTGCCGTCTG 59.935 40.000 21.99 0.00 0.00 3.51
666 689 5.186198 AGTTTATTATCAAGCTTGCCGTCT 58.814 37.500 21.99 7.48 0.00 4.18
667 690 5.485662 AGTTTATTATCAAGCTTGCCGTC 57.514 39.130 21.99 6.42 0.00 4.79
668 691 8.671384 TTATAGTTTATTATCAAGCTTGCCGT 57.329 30.769 21.99 12.11 0.00 5.68
733 757 4.085357 TGCGGCTGATTCCAGTATAAAT 57.915 40.909 0.00 0.00 42.35 1.40
742 766 1.675641 AGTGGTTGCGGCTGATTCC 60.676 57.895 0.00 0.00 0.00 3.01
746 770 1.375908 GATCAGTGGTTGCGGCTGA 60.376 57.895 0.00 0.00 42.49 4.26
756 780 5.355596 GGTCTCTGTAGAATTGATCAGTGG 58.644 45.833 0.00 0.00 32.16 4.00
772 796 3.374988 TGCAAAATCTTATGCGGTCTCTG 59.625 43.478 0.00 0.00 45.47 3.35
776 800 3.242739 ACGATGCAAAATCTTATGCGGTC 60.243 43.478 0.00 0.00 45.47 4.79
777 801 2.682856 ACGATGCAAAATCTTATGCGGT 59.317 40.909 0.00 0.00 45.47 5.68
800 1864 5.940470 AGGAGCGTTCATTCTGTAAAGAATT 59.060 36.000 5.33 0.00 36.48 2.17
808 1872 1.339151 GGGAAGGAGCGTTCATTCTGT 60.339 52.381 22.71 0.00 42.29 3.41
817 1881 1.690219 CCAGCTATGGGAAGGAGCGT 61.690 60.000 0.00 0.00 43.54 5.07
892 1956 0.179006 GGGACAAGGATGAGATGCCC 60.179 60.000 0.00 0.00 0.00 5.36
1305 2375 1.192146 TGAAGGACACCTCTTCCGGG 61.192 60.000 0.00 0.00 39.72 5.73
1338 2408 2.710902 CGGCGAGACATCCACCTCA 61.711 63.158 0.00 0.00 0.00 3.86
1343 2413 4.147449 CAGGCGGCGAGACATCCA 62.147 66.667 12.98 0.00 0.00 3.41
1355 2425 1.433879 CCTACGGACTTCTCAGGCG 59.566 63.158 0.00 0.00 0.00 5.52
1409 2479 7.078228 CACAAGAGGAAACATACTTAAACAGC 58.922 38.462 0.00 0.00 0.00 4.40
1549 2622 6.404403 GCACACAATGAGAAGACAATGATCAT 60.404 38.462 1.18 1.18 32.11 2.45
1553 2626 4.136051 TGCACACAATGAGAAGACAATGA 58.864 39.130 0.00 0.00 0.00 2.57
1796 2873 9.457110 GATTTTCTTTCTTTTGAGGAGAGTTTC 57.543 33.333 0.00 0.00 0.00 2.78
1829 2906 3.153919 ACATACCCCACATGACAACAAC 58.846 45.455 0.00 0.00 0.00 3.32
1833 2910 5.186256 ACATTACATACCCCACATGACAA 57.814 39.130 0.00 0.00 0.00 3.18
1839 2916 7.619512 TGTATATGACATTACATACCCCACA 57.380 36.000 0.00 0.00 35.91 4.17
1968 3045 3.961408 GCAACCTCTATCTCCAGGAGTTA 59.039 47.826 16.65 11.38 33.52 2.24
2024 3101 0.743701 GAGCAGGGCACATGACTCTG 60.744 60.000 13.83 13.83 0.00 3.35
2074 3151 7.997773 AATCATAGCAATGCATATGAGAAGT 57.002 32.000 22.06 10.57 40.67 3.01
2139 3216 7.810282 CCTAACATAGTCCTGAAATAGTGATCG 59.190 40.741 0.00 0.00 0.00 3.69
2464 3541 9.802039 AGATTAGTAACCAACCTGATTTGTTAA 57.198 29.630 0.00 0.00 0.00 2.01
2486 3563 8.767085 CATGTCACAGCAAAAATAAACAAGATT 58.233 29.630 0.00 0.00 0.00 2.40
2582 3659 6.852853 GTCAGTTTTGTGGCATTATATCATCG 59.147 38.462 0.00 0.00 0.00 3.84
2654 3731 5.925969 CCTGAAACAATGTACAACCAAATCC 59.074 40.000 0.00 0.00 0.00 3.01
2671 3748 8.470002 AGATTAATTGCTTGTATTCCCTGAAAC 58.530 33.333 0.00 0.00 0.00 2.78
2833 3910 7.042456 ACAAAAGCGTTATCAGCAGTATATGAG 60.042 37.037 0.00 0.00 37.01 2.90
2896 3973 5.387279 ACAAGCCGTGAATATTTGTTAACG 58.613 37.500 0.26 0.00 36.04 3.18
2980 4057 7.455008 CACCTGGGAGTACTAGTATAATCCATT 59.545 40.741 22.92 10.73 0.00 3.16
3042 4119 5.239963 TCTGCGACACGTGGATTATAGAATA 59.760 40.000 21.57 0.00 0.00 1.75
3132 4314 8.706322 ACAAGGACTAAAATTCTACAAACCAT 57.294 30.769 0.00 0.00 0.00 3.55
3133 4315 8.528044 AACAAGGACTAAAATTCTACAAACCA 57.472 30.769 0.00 0.00 0.00 3.67
3291 4480 0.455464 TTACATCACCAGACGCGACG 60.455 55.000 15.93 2.99 0.00 5.12
3343 4532 6.647481 ACAGCTGTTATATCGTTGTTGTACAA 59.353 34.615 15.25 3.59 35.42 2.41
3399 4588 2.024176 TCTGGGCTGTTACTTGAGGA 57.976 50.000 0.00 0.00 0.00 3.71
3408 4597 0.179000 CCGCTATCTTCTGGGCTGTT 59.821 55.000 0.00 0.00 0.00 3.16
3585 4776 6.238897 CGGTCTAGATATTCAGCAGTCTTCTT 60.239 42.308 0.00 0.00 0.00 2.52
3616 4807 0.469144 GGACAAAAAGGGGAGGCACA 60.469 55.000 0.00 0.00 0.00 4.57
3858 5049 1.531739 GCAGGAATCCCCGCAAAACA 61.532 55.000 6.44 0.00 40.87 2.83
3859 5050 1.215382 GCAGGAATCCCCGCAAAAC 59.785 57.895 6.44 0.00 40.87 2.43
3967 5160 7.552458 TGTATGTTATAAGCTGTGTTCCATG 57.448 36.000 0.00 0.00 0.00 3.66
3968 5161 7.201732 GCTTGTATGTTATAAGCTGTGTTCCAT 60.202 37.037 8.28 0.00 45.74 3.41
3985 5178 2.648059 GCCTCTCCATTGCTTGTATGT 58.352 47.619 0.00 0.00 0.00 2.29
4009 5202 2.297315 TGAAACACACACTGGCAAACAA 59.703 40.909 0.00 0.00 0.00 2.83
4013 5206 0.455410 GCTGAAACACACACTGGCAA 59.545 50.000 0.00 0.00 0.00 4.52
4276 5660 2.985957 AAGCCAACTTGCAACATGTT 57.014 40.000 4.92 4.92 33.84 2.71
4343 5729 6.099845 AGTGGGTTCAAGAGAAGAAGTTTCTA 59.900 38.462 0.00 0.00 36.28 2.10
4345 5731 5.126779 AGTGGGTTCAAGAGAAGAAGTTTC 58.873 41.667 0.00 0.00 33.63 2.78
4367 5755 8.169268 CCGTTACATGCTTCTTTTAACTCTAAG 58.831 37.037 0.00 0.00 0.00 2.18
4387 5775 2.344025 AGATTTGTTCGGCTCCGTTAC 58.656 47.619 8.28 8.45 40.74 2.50
4396 5784 5.048782 TCTGGAAACAATGAGATTTGTTCGG 60.049 40.000 3.32 0.00 46.33 4.30
4397 5785 6.000891 TCTGGAAACAATGAGATTTGTTCG 57.999 37.500 3.32 0.00 46.33 3.95
4398 5786 6.364435 GCTTCTGGAAACAATGAGATTTGTTC 59.636 38.462 3.32 0.00 46.33 3.18
4400 5788 5.537674 AGCTTCTGGAAACAATGAGATTTGT 59.462 36.000 0.00 0.00 42.06 2.83
4401 5789 6.022163 AGCTTCTGGAAACAATGAGATTTG 57.978 37.500 0.00 0.00 42.06 2.32
4402 5790 6.661304 AAGCTTCTGGAAACAATGAGATTT 57.339 33.333 0.00 0.00 42.06 2.17
4403 5791 6.661304 AAAGCTTCTGGAAACAATGAGATT 57.339 33.333 0.00 0.00 42.06 2.40
4404 5792 6.453092 CAAAAGCTTCTGGAAACAATGAGAT 58.547 36.000 0.00 0.00 42.06 2.75
4405 5793 5.221303 CCAAAAGCTTCTGGAAACAATGAGA 60.221 40.000 13.99 0.00 42.06 3.27
4406 5794 4.986659 CCAAAAGCTTCTGGAAACAATGAG 59.013 41.667 13.99 0.00 42.06 2.90
4407 5795 4.405358 ACCAAAAGCTTCTGGAAACAATGA 59.595 37.500 25.69 0.00 42.06 2.57
4408 5796 4.696455 ACCAAAAGCTTCTGGAAACAATG 58.304 39.130 25.69 0.00 42.06 2.82
4409 5797 5.129320 AGAACCAAAAGCTTCTGGAAACAAT 59.871 36.000 25.69 0.00 42.06 2.71
4410 5798 4.466015 AGAACCAAAAGCTTCTGGAAACAA 59.534 37.500 25.69 0.00 42.06 2.83
4424 5812 5.624159 ACATCTCACATCAGAGAACCAAAA 58.376 37.500 0.00 0.00 46.81 2.44
4428 5816 6.820656 ACATAAACATCTCACATCAGAGAACC 59.179 38.462 0.00 0.00 46.81 3.62
4456 5847 2.414994 ACATGATGGGCTGTCTTCTG 57.585 50.000 0.00 0.00 0.00 3.02
4468 5859 5.924254 GGACATGCATTTGGATAACATGATG 59.076 40.000 0.00 0.00 40.39 3.07
4469 5860 5.836898 AGGACATGCATTTGGATAACATGAT 59.163 36.000 0.00 0.00 40.39 2.45
4470 5861 5.202765 AGGACATGCATTTGGATAACATGA 58.797 37.500 0.00 0.00 40.39 3.07
4471 5862 5.524971 AGGACATGCATTTGGATAACATG 57.475 39.130 0.00 0.00 42.92 3.21
4472 5863 6.549433 AAAGGACATGCATTTGGATAACAT 57.451 33.333 0.00 0.00 0.00 2.71
4473 5864 5.999205 AAAGGACATGCATTTGGATAACA 57.001 34.783 0.00 0.00 0.00 2.41
4474 5865 5.516339 CGAAAAGGACATGCATTTGGATAAC 59.484 40.000 0.00 0.00 29.77 1.89
4475 5866 5.649557 CGAAAAGGACATGCATTTGGATAA 58.350 37.500 0.00 0.00 29.77 1.75
4476 5867 4.439974 GCGAAAAGGACATGCATTTGGATA 60.440 41.667 0.00 0.00 29.77 2.59
4477 5868 3.676873 GCGAAAAGGACATGCATTTGGAT 60.677 43.478 0.00 0.00 29.77 3.41
4478 5869 2.352617 GCGAAAAGGACATGCATTTGGA 60.353 45.455 0.00 0.00 29.77 3.53
4479 5870 1.994779 GCGAAAAGGACATGCATTTGG 59.005 47.619 0.00 0.00 29.77 3.28
4480 5871 2.950433 AGCGAAAAGGACATGCATTTG 58.050 42.857 0.00 0.00 29.77 2.32
4481 5872 3.665745 AAGCGAAAAGGACATGCATTT 57.334 38.095 0.00 0.00 30.65 2.32
4482 5873 3.319755 CAAAGCGAAAAGGACATGCATT 58.680 40.909 0.00 0.00 0.00 3.56
4483 5874 2.927871 GCAAAGCGAAAAGGACATGCAT 60.928 45.455 0.00 0.00 33.00 3.96
4484 5875 1.602668 GCAAAGCGAAAAGGACATGCA 60.603 47.619 0.00 0.00 33.00 3.96
4485 5876 1.063031 GCAAAGCGAAAAGGACATGC 58.937 50.000 0.00 0.00 0.00 4.06
4486 5877 2.420628 TGCAAAGCGAAAAGGACATG 57.579 45.000 0.00 0.00 0.00 3.21
4487 5878 3.005684 TGATTGCAAAGCGAAAAGGACAT 59.994 39.130 1.71 0.00 32.73 3.06
4488 5879 2.360483 TGATTGCAAAGCGAAAAGGACA 59.640 40.909 1.71 0.00 32.73 4.02
4489 5880 2.982470 CTGATTGCAAAGCGAAAAGGAC 59.018 45.455 1.71 0.00 32.73 3.85
4490 5881 2.622942 ACTGATTGCAAAGCGAAAAGGA 59.377 40.909 1.71 0.00 32.73 3.36
4491 5882 3.017265 ACTGATTGCAAAGCGAAAAGG 57.983 42.857 1.71 0.00 32.73 3.11
4492 5883 3.798337 ACAACTGATTGCAAAGCGAAAAG 59.202 39.130 1.71 0.00 39.66 2.27
4493 5884 3.779759 ACAACTGATTGCAAAGCGAAAA 58.220 36.364 1.71 0.00 39.66 2.29
4494 5885 3.435105 ACAACTGATTGCAAAGCGAAA 57.565 38.095 1.71 0.00 39.66 3.46
4495 5886 3.371168 GAACAACTGATTGCAAAGCGAA 58.629 40.909 1.71 0.00 39.66 4.70
4496 5887 2.601979 CGAACAACTGATTGCAAAGCGA 60.602 45.455 1.71 0.00 39.66 4.93
4497 5888 1.710249 CGAACAACTGATTGCAAAGCG 59.290 47.619 1.71 0.00 39.66 4.68
4498 5889 1.453148 GCGAACAACTGATTGCAAAGC 59.547 47.619 1.71 0.00 39.66 3.51
4499 5890 1.710249 CGCGAACAACTGATTGCAAAG 59.290 47.619 1.71 0.00 39.66 2.77
4500 5891 1.752753 CGCGAACAACTGATTGCAAA 58.247 45.000 1.71 0.00 39.66 3.68
4501 5892 0.660005 GCGCGAACAACTGATTGCAA 60.660 50.000 12.10 0.00 39.66 4.08
4502 5893 1.082169 GCGCGAACAACTGATTGCA 60.082 52.632 12.10 0.00 39.66 4.08
4503 5894 1.797537 GGCGCGAACAACTGATTGC 60.798 57.895 12.10 0.00 39.66 3.56
4504 5895 1.509787 CGGCGCGAACAACTGATTG 60.510 57.895 12.10 0.00 41.98 2.67
4505 5896 2.860293 CGGCGCGAACAACTGATT 59.140 55.556 12.10 0.00 0.00 2.57
4506 5897 3.788766 GCGGCGCGAACAACTGAT 61.789 61.111 19.09 0.00 0.00 2.90
4519 5910 2.860628 CTGAACTGTATCGCGCGGC 61.861 63.158 31.69 20.23 0.00 6.53
4520 5911 1.472276 GACTGAACTGTATCGCGCGG 61.472 60.000 31.69 16.11 0.00 6.46
4521 5912 0.796870 TGACTGAACTGTATCGCGCG 60.797 55.000 26.76 26.76 0.00 6.86
4522 5913 1.321743 CTTGACTGAACTGTATCGCGC 59.678 52.381 0.00 0.00 0.00 6.86
4523 5914 2.848887 CTCTTGACTGAACTGTATCGCG 59.151 50.000 0.00 0.00 0.00 5.87
4524 5915 4.098055 TCTCTTGACTGAACTGTATCGC 57.902 45.455 0.00 0.00 0.00 4.58
4525 5916 5.303747 ACTCTCTTGACTGAACTGTATCG 57.696 43.478 0.00 0.00 0.00 2.92
4526 5917 6.096695 GGAACTCTCTTGACTGAACTGTATC 58.903 44.000 0.00 0.00 0.00 2.24
4527 5918 5.046950 GGGAACTCTCTTGACTGAACTGTAT 60.047 44.000 0.00 0.00 0.00 2.29
4528 5919 4.281182 GGGAACTCTCTTGACTGAACTGTA 59.719 45.833 0.00 0.00 0.00 2.74
4529 5920 3.070302 GGGAACTCTCTTGACTGAACTGT 59.930 47.826 0.00 0.00 0.00 3.55
4530 5921 3.556004 GGGGAACTCTCTTGACTGAACTG 60.556 52.174 0.00 0.00 0.00 3.16
4531 5922 2.635427 GGGGAACTCTCTTGACTGAACT 59.365 50.000 0.00 0.00 0.00 3.01
4532 5923 2.368875 TGGGGAACTCTCTTGACTGAAC 59.631 50.000 0.00 0.00 0.00 3.18
4533 5924 2.634940 CTGGGGAACTCTCTTGACTGAA 59.365 50.000 0.00 0.00 0.00 3.02
4534 5925 2.251818 CTGGGGAACTCTCTTGACTGA 58.748 52.381 0.00 0.00 0.00 3.41
4535 5926 1.974236 ACTGGGGAACTCTCTTGACTG 59.026 52.381 0.00 0.00 0.00 3.51
4536 5927 2.252714 GACTGGGGAACTCTCTTGACT 58.747 52.381 0.00 0.00 0.00 3.41
4537 5928 1.971357 TGACTGGGGAACTCTCTTGAC 59.029 52.381 0.00 0.00 0.00 3.18
4538 5929 2.398754 TGACTGGGGAACTCTCTTGA 57.601 50.000 0.00 0.00 0.00 3.02
4539 5930 3.492102 TTTGACTGGGGAACTCTCTTG 57.508 47.619 0.00 0.00 0.00 3.02
4540 5931 3.307059 CGATTTGACTGGGGAACTCTCTT 60.307 47.826 0.00 0.00 0.00 2.85
4541 5932 2.234908 CGATTTGACTGGGGAACTCTCT 59.765 50.000 0.00 0.00 0.00 3.10
4542 5933 2.233922 TCGATTTGACTGGGGAACTCTC 59.766 50.000 0.00 0.00 0.00 3.20
4543 5934 2.257207 TCGATTTGACTGGGGAACTCT 58.743 47.619 0.00 0.00 0.00 3.24
4544 5935 2.762535 TCGATTTGACTGGGGAACTC 57.237 50.000 0.00 0.00 0.00 3.01
4545 5936 3.721087 ATTCGATTTGACTGGGGAACT 57.279 42.857 0.00 0.00 0.00 3.01
4546 5937 4.201920 GCTTATTCGATTTGACTGGGGAAC 60.202 45.833 0.00 0.00 0.00 3.62
4547 5938 3.945285 GCTTATTCGATTTGACTGGGGAA 59.055 43.478 0.00 0.00 0.00 3.97
4548 5939 3.054728 TGCTTATTCGATTTGACTGGGGA 60.055 43.478 0.00 0.00 0.00 4.81
4549 5940 3.278574 TGCTTATTCGATTTGACTGGGG 58.721 45.455 0.00 0.00 0.00 4.96
4550 5941 4.963276 TTGCTTATTCGATTTGACTGGG 57.037 40.909 0.00 0.00 0.00 4.45


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

AutoCloner maintained by Alex Coulton.