Multiple sequence alignment - TraesCS3B01G124800

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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 TraesCS3B01G124800 chr3B 100.000 4296 0 0 1 4296 99115686 99119981 0.000000e+00 7934.0
1 TraesCS3B01G124800 chr3B 75.626 1038 199 29 2167 3162 99126647 99127672 2.340000e-127 466.0
2 TraesCS3B01G124800 chr3D 93.385 1693 96 8 1608 3291 61679701 61681386 0.000000e+00 2492.0
3 TraesCS3B01G124800 chr3D 95.144 659 27 5 946 1603 61678668 61679322 0.000000e+00 1035.0
4 TraesCS3B01G124800 chr3D 88.714 824 66 18 3288 4096 61681437 61682248 0.000000e+00 981.0
5 TraesCS3B01G124800 chr3D 75.915 1038 197 28 2167 3162 61686407 61687433 2.320000e-132 483.0
6 TraesCS3B01G124800 chr3D 93.458 214 14 0 737 950 61677390 61677603 6.930000e-83 318.0
7 TraesCS3B01G124800 chr3D 87.709 179 3 1 1608 1786 61679358 61679517 1.580000e-44 191.0
8 TraesCS3B01G124800 chr3D 93.043 115 5 1 1831 1942 61679520 61679634 9.560000e-37 165.0
9 TraesCS3B01G124800 chr3D 95.506 89 3 1 4146 4234 61682444 61682531 1.610000e-29 141.0
10 TraesCS3B01G124800 chr3D 95.349 43 2 0 4084 4126 61682201 61682243 7.710000e-08 69.4
11 TraesCS3B01G124800 chr3A 93.194 1337 69 10 1775 3091 70704869 70706203 0.000000e+00 1945.0
12 TraesCS3B01G124800 chr3A 93.644 944 51 5 669 1603 70702478 70703421 0.000000e+00 1402.0
13 TraesCS3B01G124800 chr3A 75.603 1037 201 36 2167 3162 70712306 70713331 2.340000e-127 466.0
14 TraesCS3B01G124800 chr3A 91.775 231 13 6 3515 3745 70706843 70707067 2.490000e-82 316.0
15 TraesCS3B01G124800 chr3A 91.620 179 15 0 1608 1786 70703457 70703635 9.220000e-62 248.0
16 TraesCS3B01G124800 chr4B 91.627 633 39 9 1 623 561716208 561715580 0.000000e+00 863.0
17 TraesCS3B01G124800 chr4B 85.275 618 80 10 5 622 476840321 476839715 1.010000e-175 627.0
18 TraesCS3B01G124800 chr1B 91.304 621 42 11 1 617 375857902 375857290 0.000000e+00 837.0
19 TraesCS3B01G124800 chr1B 89.676 649 46 16 2 633 573321602 573320958 0.000000e+00 808.0
20 TraesCS3B01G124800 chr1B 82.206 281 27 11 336 616 444014895 444015152 2.010000e-53 220.0
21 TraesCS3B01G124800 chr2B 89.030 629 52 13 2 617 11411521 11412145 0.000000e+00 763.0
22 TraesCS3B01G124800 chr2B 86.486 74 9 1 3761 3834 175467248 175467176 3.560000e-11 80.5
23 TraesCS3B01G124800 chr6B 88.636 616 49 11 2 616 514116578 514115983 0.000000e+00 730.0
24 TraesCS3B01G124800 chr6B 90.756 119 7 4 499 617 463561616 463561502 5.750000e-34 156.0
25 TraesCS3B01G124800 chr4A 86.146 563 67 9 2 559 602392520 602391964 7.950000e-167 597.0
26 TraesCS3B01G124800 chr6A 85.655 481 63 6 2 479 564093378 564093855 6.410000e-138 501.0
27 TraesCS3B01G124800 chr7B 87.067 433 56 0 5 437 110341085 110340653 1.390000e-134 490.0
28 TraesCS3B01G124800 chr7B 91.837 98 5 3 527 624 110340651 110340557 2.700000e-27 134.0
29 TraesCS3B01G124800 chr5B 89.815 108 8 3 516 622 520862794 520862899 7.490000e-28 135.0
30 TraesCS3B01G124800 chr5A 84.956 113 14 3 4183 4293 661988581 661988470 1.260000e-20 111.0
31 TraesCS3B01G124800 chr4D 83.333 102 16 1 4195 4296 481380265 481380165 4.570000e-15 93.5
32 TraesCS3B01G124800 chr1D 90.278 72 6 1 4182 4253 141157596 141157526 4.570000e-15 93.5
33 TraesCS3B01G124800 chr7A 91.935 62 3 2 3928 3987 257146730 257146669 7.650000e-13 86.1
34 TraesCS3B01G124800 chr7D 100.000 28 0 0 4261 4288 574832251 574832278 8.000000e-03 52.8


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 TraesCS3B01G124800 chr3B 99115686 99119981 4295 False 7934.000000 7934 100.000000 1 4296 1 chr3B.!!$F1 4295
1 TraesCS3B01G124800 chr3B 99126647 99127672 1025 False 466.000000 466 75.626000 2167 3162 1 chr3B.!!$F2 995
2 TraesCS3B01G124800 chr3D 61677390 61687433 10043 False 652.822222 2492 90.913667 737 4234 9 chr3D.!!$F1 3497
3 TraesCS3B01G124800 chr3A 70702478 70707067 4589 False 977.750000 1945 92.558250 669 3745 4 chr3A.!!$F2 3076
4 TraesCS3B01G124800 chr3A 70712306 70713331 1025 False 466.000000 466 75.603000 2167 3162 1 chr3A.!!$F1 995
5 TraesCS3B01G124800 chr4B 561715580 561716208 628 True 863.000000 863 91.627000 1 623 1 chr4B.!!$R2 622
6 TraesCS3B01G124800 chr4B 476839715 476840321 606 True 627.000000 627 85.275000 5 622 1 chr4B.!!$R1 617
7 TraesCS3B01G124800 chr1B 375857290 375857902 612 True 837.000000 837 91.304000 1 617 1 chr1B.!!$R1 616
8 TraesCS3B01G124800 chr1B 573320958 573321602 644 True 808.000000 808 89.676000 2 633 1 chr1B.!!$R2 631
9 TraesCS3B01G124800 chr2B 11411521 11412145 624 False 763.000000 763 89.030000 2 617 1 chr2B.!!$F1 615
10 TraesCS3B01G124800 chr6B 514115983 514116578 595 True 730.000000 730 88.636000 2 616 1 chr6B.!!$R2 614
11 TraesCS3B01G124800 chr4A 602391964 602392520 556 True 597.000000 597 86.146000 2 559 1 chr4A.!!$R1 557
12 TraesCS3B01G124800 chr7B 110340557 110341085 528 True 312.000000 490 89.452000 5 624 2 chr7B.!!$R1 619

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
71 72 0.324943 AAGACTATTGTGGCGGCTGT 59.675 50.000 11.43 0.0 0.00 4.40 F
534 561 0.558712 TGTGTAAAAACCCTGCCCCT 59.441 50.000 0.00 0.0 0.00 4.79 F
662 690 0.739112 GGAGCAACAGAGCGGAGAAG 60.739 60.000 0.00 0.0 40.15 2.85 F
1708 3186 1.003112 AAATAACGCGGCCACTGGA 60.003 52.632 12.47 0.0 0.00 3.86 F
2837 5593 0.375106 GTTATGACTGCCGAAGCTGC 59.625 55.000 0.00 0.0 41.37 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1473 2577 0.106149 ATAAACGGGAGATGACGGGC 59.894 55.0 0.00 0.00 0.00 6.13 R
2410 5153 0.251916 TACCTCCCAGTGGCATTTCG 59.748 55.0 2.61 0.00 0.00 3.46 R
2414 5157 1.410850 CGGATACCTCCCAGTGGCAT 61.411 60.0 2.61 0.00 38.45 4.40 R
2918 5674 0.388649 GAACAGTCACCTCGCACGAT 60.389 55.0 0.00 0.00 0.00 3.73 R
3829 6879 0.976641 GTCCTGGTCCAGTGATCACA 59.023 55.0 27.02 4.33 0.00 3.58 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
19 20 2.431683 GGTGGCTCCTTGTGCAGA 59.568 61.111 0.00 0.00 0.00 4.26
71 72 0.324943 AAGACTATTGTGGCGGCTGT 59.675 50.000 11.43 0.00 0.00 4.40
95 96 4.457496 CTCGTGCCCCATCTGCGT 62.457 66.667 0.00 0.00 0.00 5.24
162 163 2.718731 CGTTCGTTTTGGCTGGCA 59.281 55.556 0.00 0.00 0.00 4.92
195 196 0.613853 TGGTCGGGAGGAGTTACCAG 60.614 60.000 0.00 0.00 42.04 4.00
204 205 0.690762 GGAGTTACCAGGTTGGAGCA 59.309 55.000 0.00 0.00 40.96 4.26
400 402 2.809307 TTGAAAGTGGCCGACCGGA 61.809 57.895 9.46 0.00 39.70 5.14
433 435 4.189188 GGCTCCGCGCGTTCTCTA 62.189 66.667 29.95 5.57 40.44 2.43
511 528 2.123251 TCTCCTCATCGCTCCCCC 60.123 66.667 0.00 0.00 0.00 5.40
512 529 3.610669 CTCCTCATCGCTCCCCCG 61.611 72.222 0.00 0.00 0.00 5.73
514 531 2.520982 CCTCATCGCTCCCCCGTA 60.521 66.667 0.00 0.00 0.00 4.02
534 561 0.558712 TGTGTAAAAACCCTGCCCCT 59.441 50.000 0.00 0.00 0.00 4.79
538 565 2.321719 GTAAAAACCCTGCCCCTTTCA 58.678 47.619 0.00 0.00 0.00 2.69
556 583 6.068010 CCTTTCATAGGGGTGTAATGCAATA 58.932 40.000 0.00 0.00 40.67 1.90
639 667 8.970859 AAAGAAGAAGAAGAAGAAAGATGACA 57.029 30.769 0.00 0.00 0.00 3.58
640 668 8.970859 AAGAAGAAGAAGAAGAAAGATGACAA 57.029 30.769 0.00 0.00 0.00 3.18
641 669 8.376889 AGAAGAAGAAGAAGAAAGATGACAAC 57.623 34.615 0.00 0.00 0.00 3.32
642 670 7.989741 AGAAGAAGAAGAAGAAAGATGACAACA 59.010 33.333 0.00 0.00 0.00 3.33
643 671 7.727331 AGAAGAAGAAGAAAGATGACAACAG 57.273 36.000 0.00 0.00 0.00 3.16
644 672 6.709846 AGAAGAAGAAGAAAGATGACAACAGG 59.290 38.462 0.00 0.00 0.00 4.00
645 673 6.179906 AGAAGAAGAAAGATGACAACAGGA 57.820 37.500 0.00 0.00 0.00 3.86
646 674 6.229733 AGAAGAAGAAAGATGACAACAGGAG 58.770 40.000 0.00 0.00 0.00 3.69
647 675 4.322567 AGAAGAAAGATGACAACAGGAGC 58.677 43.478 0.00 0.00 0.00 4.70
648 676 3.777106 AGAAAGATGACAACAGGAGCA 57.223 42.857 0.00 0.00 0.00 4.26
649 677 4.090761 AGAAAGATGACAACAGGAGCAA 57.909 40.909 0.00 0.00 0.00 3.91
650 678 3.817647 AGAAAGATGACAACAGGAGCAAC 59.182 43.478 0.00 0.00 0.00 4.17
651 679 2.936919 AGATGACAACAGGAGCAACA 57.063 45.000 0.00 0.00 0.00 3.33
652 680 2.775890 AGATGACAACAGGAGCAACAG 58.224 47.619 0.00 0.00 0.00 3.16
653 681 2.369860 AGATGACAACAGGAGCAACAGA 59.630 45.455 0.00 0.00 0.00 3.41
654 682 2.245159 TGACAACAGGAGCAACAGAG 57.755 50.000 0.00 0.00 0.00 3.35
655 683 0.871057 GACAACAGGAGCAACAGAGC 59.129 55.000 0.00 0.00 0.00 4.09
656 684 0.882042 ACAACAGGAGCAACAGAGCG 60.882 55.000 0.00 0.00 40.15 5.03
657 685 1.302033 AACAGGAGCAACAGAGCGG 60.302 57.895 0.00 0.00 40.15 5.52
658 686 1.758440 AACAGGAGCAACAGAGCGGA 61.758 55.000 0.00 0.00 40.15 5.54
659 687 1.447489 CAGGAGCAACAGAGCGGAG 60.447 63.158 0.00 0.00 40.15 4.63
660 688 1.607756 AGGAGCAACAGAGCGGAGA 60.608 57.895 0.00 0.00 40.15 3.71
661 689 1.188219 AGGAGCAACAGAGCGGAGAA 61.188 55.000 0.00 0.00 40.15 2.87
662 690 0.739112 GGAGCAACAGAGCGGAGAAG 60.739 60.000 0.00 0.00 40.15 2.85
663 691 1.357991 GAGCAACAGAGCGGAGAAGC 61.358 60.000 0.00 0.00 40.15 3.86
664 692 2.734673 GCAACAGAGCGGAGAAGCG 61.735 63.158 0.00 0.00 43.00 4.68
665 693 1.080501 CAACAGAGCGGAGAAGCGA 60.081 57.895 0.00 0.00 43.00 4.93
666 694 1.080434 AACAGAGCGGAGAAGCGAC 60.080 57.895 0.00 0.00 43.00 5.19
667 695 2.202676 CAGAGCGGAGAAGCGACC 60.203 66.667 0.00 0.00 43.00 4.79
684 712 3.198068 CGACCACCTCCAATGTTCATAG 58.802 50.000 0.00 0.00 0.00 2.23
762 799 4.761975 TGGTCATCCATTTTAGTCCGTAC 58.238 43.478 0.00 0.00 39.03 3.67
831 868 6.126739 GGAGGGAGTAGAATACACTGGAATTT 60.127 42.308 0.00 0.00 46.26 1.82
837 874 5.046910 AGAATACACTGGAATTTGTTGCG 57.953 39.130 0.00 0.00 0.00 4.85
924 961 1.230635 GGAGCTGCTTTGACGCTTCA 61.231 55.000 2.53 0.00 33.47 3.02
1134 2238 4.554363 CTCGCCGCCTCGTACCAG 62.554 72.222 0.00 0.00 0.00 4.00
1290 2394 3.744719 CTCGACGCGTCCCAAGGA 61.745 66.667 31.84 21.28 0.00 3.36
1522 2626 8.700973 AGTCTCTCCCTCTTATCTCAAAATTAC 58.299 37.037 0.00 0.00 0.00 1.89
1590 3037 7.386573 CCTGTTTATATGTTGTATGATACGCCA 59.613 37.037 0.00 0.00 0.00 5.69
1603 3050 3.932710 TGATACGCCAAGTTGCTCTAAAG 59.067 43.478 0.00 0.00 0.00 1.85
1604 3051 2.256117 ACGCCAAGTTGCTCTAAAGT 57.744 45.000 0.00 0.00 0.00 2.66
1605 3052 2.572290 ACGCCAAGTTGCTCTAAAGTT 58.428 42.857 0.00 0.00 0.00 2.66
1606 3053 2.290641 ACGCCAAGTTGCTCTAAAGTTG 59.709 45.455 0.00 0.00 39.28 3.16
1607 3054 2.548057 CGCCAAGTTGCTCTAAAGTTGA 59.452 45.455 0.00 0.00 41.17 3.18
1610 3057 4.555511 GCCAAGTTGCTCTAAAGTTGAGTG 60.556 45.833 0.00 0.00 41.17 3.51
1682 3160 4.670221 GCTCAAGTGTGTAGCTATTTGTGC 60.670 45.833 0.00 6.48 33.40 4.57
1696 3174 7.752695 AGCTATTTGTGCTGTGTAGAAATAAC 58.247 34.615 0.00 0.00 39.56 1.89
1708 3186 1.003112 AAATAACGCGGCCACTGGA 60.003 52.632 12.47 0.00 0.00 3.86
1722 3200 2.488153 CCACTGGAAACGGGAGAATTTC 59.512 50.000 0.00 0.00 42.76 2.17
1741 3219 6.867662 ATTTCAGGCTTGTATAGTGCATAC 57.132 37.500 0.00 0.00 40.10 2.39
1795 4520 9.713684 TGGTTTAGAAATAAGGATTTGATGGAT 57.286 29.630 0.00 0.00 35.33 3.41
1830 4555 2.560504 CAATATGCAGGCGACCAGTTA 58.439 47.619 0.00 0.00 0.00 2.24
1831 4556 3.141398 CAATATGCAGGCGACCAGTTAT 58.859 45.455 0.00 0.00 0.00 1.89
1858 4583 5.733620 AAGCCTGTTGATCATTGATTTGT 57.266 34.783 0.00 0.00 0.00 2.83
1866 4591 6.919115 TGTTGATCATTGATTTGTGTCTTGTG 59.081 34.615 0.00 0.00 0.00 3.33
1867 4592 6.638096 TGATCATTGATTTGTGTCTTGTGT 57.362 33.333 0.00 0.00 0.00 3.72
1884 4609 5.414454 TCTTGTGTGCTGTTAGTTTTCAGTT 59.586 36.000 0.00 0.00 34.57 3.16
1888 4613 6.373216 TGTGTGCTGTTAGTTTTCAGTTAAGT 59.627 34.615 0.00 0.00 34.57 2.24
1890 4615 8.557029 GTGTGCTGTTAGTTTTCAGTTAAGTAT 58.443 33.333 0.00 0.00 34.57 2.12
1891 4616 8.556194 TGTGCTGTTAGTTTTCAGTTAAGTATG 58.444 33.333 0.00 0.00 34.57 2.39
1937 4676 6.161855 TGTAGTAGATAACATTGGCAGGAG 57.838 41.667 0.00 0.00 0.00 3.69
1946 4685 2.821969 ACATTGGCAGGAGTTTAGCTTG 59.178 45.455 0.00 0.00 0.00 4.01
1952 4691 3.142174 GCAGGAGTTTAGCTTGTTCACT 58.858 45.455 0.00 0.00 0.00 3.41
1953 4692 3.187432 GCAGGAGTTTAGCTTGTTCACTC 59.813 47.826 0.00 0.00 34.31 3.51
2124 4866 2.923655 CGCCATATGCACGGTCTTATAG 59.076 50.000 8.12 0.00 41.33 1.31
2140 4882 7.376336 CGGTCTTATAGTCTGTTTCATTCTACG 59.624 40.741 0.00 0.00 0.00 3.51
2410 5153 2.235898 AGATTCACCTTCCTCAGCTGAC 59.764 50.000 13.74 0.00 0.00 3.51
2414 5157 1.048601 ACCTTCCTCAGCTGACGAAA 58.951 50.000 22.90 12.86 0.00 3.46
2432 5176 0.846693 AATGCCACTGGGAGGTATCC 59.153 55.000 0.00 0.00 45.85 2.59
2489 5233 8.846211 CCTAACTTGGTTTATCTTGAGTTGAAA 58.154 33.333 0.00 0.00 0.00 2.69
2517 5261 4.286707 TCGACCAGGAATCCTCATTCTAA 58.713 43.478 0.00 0.00 38.85 2.10
2591 5335 2.790433 GTCCAAGTTGATGGCCTTGTA 58.210 47.619 3.32 0.00 40.46 2.41
2837 5593 0.375106 GTTATGACTGCCGAAGCTGC 59.625 55.000 0.00 0.00 41.37 5.25
2870 5626 2.779430 TCTGGTTCATATGCCACCATCT 59.221 45.455 20.85 0.00 39.89 2.90
2918 5674 2.634777 GTTAACAACTGCGCGCCA 59.365 55.556 30.77 15.83 0.00 5.69
2960 5716 2.408271 TCCATGCTGATTCCAGTGAC 57.592 50.000 0.00 0.00 42.35 3.67
3114 5888 4.696402 ACCTGTGACACTTTTTGTTAACGA 59.304 37.500 7.20 0.00 39.17 3.85
3149 5925 1.111277 AGTGTGAAACTGGGTTTGGC 58.889 50.000 0.17 0.00 37.88 4.52
3154 5930 1.337118 GAAACTGGGTTTGGCCATGA 58.663 50.000 6.09 0.00 35.77 3.07
3162 5938 2.564947 GGGTTTGGCCATGACACATTTA 59.435 45.455 6.09 0.00 39.65 1.40
3163 5939 3.007398 GGGTTTGGCCATGACACATTTAA 59.993 43.478 6.09 0.00 39.65 1.52
3164 5940 4.323409 GGGTTTGGCCATGACACATTTAAT 60.323 41.667 6.09 0.00 39.65 1.40
3165 5941 5.244755 GGTTTGGCCATGACACATTTAATT 58.755 37.500 6.09 0.00 37.17 1.40
3166 5942 5.704978 GGTTTGGCCATGACACATTTAATTT 59.295 36.000 6.09 0.00 37.17 1.82
3180 5956 6.311935 CACATTTAATTTGTTGATGGCCTCAG 59.688 38.462 3.32 0.00 34.68 3.35
3181 5957 5.404466 TTTAATTTGTTGATGGCCTCAGG 57.596 39.130 3.32 0.00 34.68 3.86
3209 5985 7.011950 TGCCTAATGTGTGCTTATGTATGTTAC 59.988 37.037 0.00 0.00 0.00 2.50
3212 5988 3.619483 TGTGTGCTTATGTATGTTACGGC 59.381 43.478 0.00 0.00 0.00 5.68
3228 6117 1.768275 ACGGCAGAACCATGGATATGA 59.232 47.619 21.47 0.00 39.03 2.15
3245 6134 8.392631 TGGATATGATTATGTATAAGGCCTGT 57.607 34.615 5.69 0.00 0.00 4.00
3265 6155 3.386078 TGTTTTGGCACCATTGTGTACAT 59.614 39.130 0.00 0.00 44.65 2.29
3283 6173 8.204160 TGTGTACATATGTTCCAAGATAAGGAG 58.796 37.037 14.77 0.00 36.33 3.69
3296 6239 8.938883 TCCAAGATAAGGAGCTAAGTAATCATT 58.061 33.333 0.00 0.00 0.00 2.57
3306 6249 8.204836 GGAGCTAAGTAATCATTCTTTGTCCTA 58.795 37.037 0.00 0.00 0.00 2.94
3307 6250 9.771534 GAGCTAAGTAATCATTCTTTGTCCTAT 57.228 33.333 0.00 0.00 0.00 2.57
3337 6280 8.589338 ACCAAAACCATACATATTTGCACTTTA 58.411 29.630 0.00 0.00 32.73 1.85
3351 6294 3.876914 TGCACTTTATCCCTAAATCAGCG 59.123 43.478 0.00 0.00 0.00 5.18
3371 6314 0.955919 GCTAAGCTGGTGCGAGGTTT 60.956 55.000 4.18 0.00 45.42 3.27
3374 6317 0.685097 AAGCTGGTGCGAGGTTTAGA 59.315 50.000 0.00 0.00 45.42 2.10
3375 6318 0.685097 AGCTGGTGCGAGGTTTAGAA 59.315 50.000 0.00 0.00 45.42 2.10
3376 6319 1.079503 GCTGGTGCGAGGTTTAGAAG 58.920 55.000 0.00 0.00 0.00 2.85
3377 6320 1.726853 CTGGTGCGAGGTTTAGAAGG 58.273 55.000 0.00 0.00 0.00 3.46
3378 6321 1.002087 CTGGTGCGAGGTTTAGAAGGT 59.998 52.381 0.00 0.00 0.00 3.50
3379 6322 2.232941 CTGGTGCGAGGTTTAGAAGGTA 59.767 50.000 0.00 0.00 0.00 3.08
3380 6323 2.028748 TGGTGCGAGGTTTAGAAGGTAC 60.029 50.000 0.00 0.00 0.00 3.34
3381 6324 2.257034 GTGCGAGGTTTAGAAGGTACG 58.743 52.381 0.00 0.00 0.00 3.67
3384 6327 2.673326 GCGAGGTTTAGAAGGTACGCTT 60.673 50.000 0.00 0.00 41.25 4.68
3385 6328 3.428045 GCGAGGTTTAGAAGGTACGCTTA 60.428 47.826 0.00 0.00 41.25 3.09
3386 6329 4.101235 CGAGGTTTAGAAGGTACGCTTAC 58.899 47.826 0.00 0.00 0.00 2.34
3389 6390 5.718146 AGGTTTAGAAGGTACGCTTACTTC 58.282 41.667 0.00 0.00 0.00 3.01
3397 6398 2.490903 GGTACGCTTACTTCCTCACAGA 59.509 50.000 0.00 0.00 0.00 3.41
3467 6468 4.561959 TGATTCTTTCGATCGTTCAACG 57.438 40.909 15.94 2.64 44.19 4.10
3480 6481 3.364322 TCGTTCAACGCGATATCGAAAAA 59.636 39.130 28.63 11.22 42.21 1.94
3622 6672 7.293828 TGCAAAGGATATATTTGGTCCATGTA 58.706 34.615 12.45 0.00 37.96 2.29
3637 6687 2.972713 CCATGTACCATGTAGCCCTACT 59.027 50.000 6.96 0.00 37.00 2.57
3641 6691 5.864418 TGTACCATGTAGCCCTACTAAAG 57.136 43.478 6.96 0.00 37.00 1.85
3705 6755 3.069158 GCAATCCTTCATCCTCCAATTGG 59.931 47.826 19.08 19.08 0.00 3.16
3710 6760 2.619697 TCATCCTCCAATTGGCCAAA 57.380 45.000 24.71 4.58 34.44 3.28
3751 6801 3.193782 AGAGGGATGAGTAAAAAGGGCT 58.806 45.455 0.00 0.00 0.00 5.19
3770 6820 1.228337 GCCCGGTACACTTTGGGTT 60.228 57.895 0.00 0.00 43.89 4.11
3771 6821 0.824595 GCCCGGTACACTTTGGGTTT 60.825 55.000 0.00 0.00 43.89 3.27
3809 6859 5.099042 TCCCTTACATTTCTACAAGAGGC 57.901 43.478 0.00 0.00 0.00 4.70
3818 6868 5.751243 TTTCTACAAGAGGCTGTTTTCAC 57.249 39.130 0.00 0.00 0.00 3.18
3823 6873 2.156343 AGAGGCTGTTTTCACGACTC 57.844 50.000 0.00 0.00 35.12 3.36
3829 6879 2.470821 CTGTTTTCACGACTCGAACCT 58.529 47.619 5.20 0.00 0.00 3.50
3838 6888 1.200252 CGACTCGAACCTGTGATCACT 59.800 52.381 25.55 6.21 0.00 3.41
3846 6896 3.849002 CTGTGATCACTGGACCAGG 57.151 57.895 25.34 14.09 35.51 4.45
3847 6897 1.269958 CTGTGATCACTGGACCAGGA 58.730 55.000 25.34 18.62 35.51 3.86
3849 6899 0.976641 GTGATCACTGGACCAGGACA 59.023 55.000 25.34 15.32 35.51 4.02
3850 6900 1.347707 GTGATCACTGGACCAGGACAA 59.652 52.381 25.34 8.01 35.51 3.18
3851 6901 1.347707 TGATCACTGGACCAGGACAAC 59.652 52.381 25.34 12.47 35.51 3.32
3852 6902 1.625818 GATCACTGGACCAGGACAACT 59.374 52.381 25.34 0.00 35.51 3.16
3857 6907 2.025321 ACTGGACCAGGACAACTTTGTT 60.025 45.455 25.34 0.00 36.88 2.83
3862 6912 1.536709 CCAGGACAACTTTGTTGCTGC 60.537 52.381 9.96 0.00 42.43 5.25
3895 6945 6.749139 TCGTGAGAGGGATGAGTAATAAATG 58.251 40.000 0.00 0.00 34.84 2.32
3923 6973 7.713764 AAAATGTTAAATGGAGCACAAACTC 57.286 32.000 0.00 0.00 35.86 3.01
4011 7063 6.073167 CCCAAATGTGTAACGTACATGTGTAA 60.073 38.462 15.62 0.00 40.54 2.41
4013 7065 7.856398 CCAAATGTGTAACGTACATGTGTAAAA 59.144 33.333 15.62 0.00 40.54 1.52
4015 7067 9.953697 AAATGTGTAACGTACATGTGTAAAAAT 57.046 25.926 9.11 0.00 42.39 1.82
4023 7075 8.514136 ACGTACATGTGTAAAAATTTTCATGG 57.486 30.769 23.50 14.16 31.52 3.66
4024 7076 7.115663 ACGTACATGTGTAAAAATTTTCATGGC 59.884 33.333 23.50 17.52 31.52 4.40
4031 7083 8.704234 TGTGTAAAAATTTTCATGGCGAAATAC 58.296 29.630 3.41 0.16 43.12 1.89
4044 7096 5.520632 TGGCGAAATACGTTGAAATGAAAA 58.479 33.333 0.00 0.00 44.60 2.29
4096 7148 8.026607 TGAGGCTTTTTAGCACAAACATAATAC 58.973 33.333 0.00 0.00 36.33 1.89
4098 7150 8.364142 AGGCTTTTTAGCACAAACATAATACAA 58.636 29.630 0.00 0.00 36.33 2.41
4099 7151 8.432359 GGCTTTTTAGCACAAACATAATACAAC 58.568 33.333 0.00 0.00 36.33 3.32
4100 7152 8.973378 GCTTTTTAGCACAAACATAATACAACA 58.027 29.630 0.00 0.00 34.41 3.33
4110 7162 9.364989 ACAAACATAATACAACAAATATGTGGC 57.635 29.630 0.00 0.00 40.46 5.01
4111 7163 9.585099 CAAACATAATACAACAAATATGTGGCT 57.415 29.630 0.00 0.00 40.46 4.75
4126 7178 5.720371 ATGTGGCTTTTTAGCACATACAA 57.280 34.783 0.00 0.00 36.00 2.41
4142 7194 8.883731 AGCACATACAATGTTCACTCTAAATAC 58.116 33.333 0.00 0.00 42.70 1.89
4184 7394 0.464036 TGCACCGTTCACTCTCTTGT 59.536 50.000 0.00 0.00 0.00 3.16
4186 7396 0.861837 CACCGTTCACTCTCTTGTGC 59.138 55.000 0.00 0.00 37.81 4.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 3.075283 ACATCTCTCGTATGGATCCTCCT 59.925 47.826 14.23 0.10 37.46 3.69
30 31 1.681538 GGAGCAGGACATCTCTCGTA 58.318 55.000 0.00 0.00 0.00 3.43
95 96 1.509463 GCCGTCTCGACCACATACA 59.491 57.895 0.00 0.00 0.00 2.29
195 196 0.868406 CGTCTTGAAGTGCTCCAACC 59.132 55.000 0.00 0.00 0.00 3.77
400 402 1.827969 GAGCCACCTCTCTACACATGT 59.172 52.381 0.00 0.00 35.16 3.21
486 497 1.178534 GCGATGAGGAGAGAGAGGGG 61.179 65.000 0.00 0.00 0.00 4.79
488 499 1.238439 GAGCGATGAGGAGAGAGAGG 58.762 60.000 0.00 0.00 0.00 3.69
498 515 1.290324 CATACGGGGGAGCGATGAG 59.710 63.158 0.00 0.00 0.00 2.90
511 528 2.162809 GGGCAGGGTTTTTACACATACG 59.837 50.000 0.00 0.00 0.00 3.06
512 529 2.494471 GGGGCAGGGTTTTTACACATAC 59.506 50.000 0.00 0.00 0.00 2.39
514 531 1.149077 AGGGGCAGGGTTTTTACACAT 59.851 47.619 0.00 0.00 0.00 3.21
534 561 6.905736 TCTATTGCATTACACCCCTATGAAA 58.094 36.000 0.00 0.00 0.00 2.69
617 645 8.147642 TGTTGTCATCTTTCTTCTTCTTCTTC 57.852 34.615 0.00 0.00 0.00 2.87
626 654 4.067896 TGCTCCTGTTGTCATCTTTCTTC 58.932 43.478 0.00 0.00 0.00 2.87
628 656 3.777106 TGCTCCTGTTGTCATCTTTCT 57.223 42.857 0.00 0.00 0.00 2.52
629 657 3.565482 TGTTGCTCCTGTTGTCATCTTTC 59.435 43.478 0.00 0.00 0.00 2.62
632 660 2.369860 TCTGTTGCTCCTGTTGTCATCT 59.630 45.455 0.00 0.00 0.00 2.90
633 661 2.740981 CTCTGTTGCTCCTGTTGTCATC 59.259 50.000 0.00 0.00 0.00 2.92
634 662 2.775890 CTCTGTTGCTCCTGTTGTCAT 58.224 47.619 0.00 0.00 0.00 3.06
635 663 1.811558 GCTCTGTTGCTCCTGTTGTCA 60.812 52.381 0.00 0.00 0.00 3.58
636 664 0.871057 GCTCTGTTGCTCCTGTTGTC 59.129 55.000 0.00 0.00 0.00 3.18
637 665 0.882042 CGCTCTGTTGCTCCTGTTGT 60.882 55.000 0.00 0.00 0.00 3.32
638 666 1.572085 CCGCTCTGTTGCTCCTGTTG 61.572 60.000 0.00 0.00 0.00 3.33
639 667 1.302033 CCGCTCTGTTGCTCCTGTT 60.302 57.895 0.00 0.00 0.00 3.16
640 668 2.164865 CTCCGCTCTGTTGCTCCTGT 62.165 60.000 0.00 0.00 0.00 4.00
641 669 1.447489 CTCCGCTCTGTTGCTCCTG 60.447 63.158 0.00 0.00 0.00 3.86
642 670 1.188219 TTCTCCGCTCTGTTGCTCCT 61.188 55.000 0.00 0.00 0.00 3.69
643 671 0.739112 CTTCTCCGCTCTGTTGCTCC 60.739 60.000 0.00 0.00 0.00 4.70
644 672 1.357991 GCTTCTCCGCTCTGTTGCTC 61.358 60.000 0.00 0.00 0.00 4.26
645 673 1.375268 GCTTCTCCGCTCTGTTGCT 60.375 57.895 0.00 0.00 0.00 3.91
646 674 2.734673 CGCTTCTCCGCTCTGTTGC 61.735 63.158 0.00 0.00 0.00 4.17
647 675 1.080501 TCGCTTCTCCGCTCTGTTG 60.081 57.895 0.00 0.00 0.00 3.33
648 676 1.080434 GTCGCTTCTCCGCTCTGTT 60.080 57.895 0.00 0.00 0.00 3.16
649 677 2.569134 GTCGCTTCTCCGCTCTGT 59.431 61.111 0.00 0.00 0.00 3.41
650 678 2.202676 GGTCGCTTCTCCGCTCTG 60.203 66.667 0.00 0.00 0.00 3.35
651 679 2.676822 TGGTCGCTTCTCCGCTCT 60.677 61.111 0.00 0.00 0.00 4.09
652 680 2.507324 GTGGTCGCTTCTCCGCTC 60.507 66.667 0.00 0.00 0.00 5.03
653 681 4.070552 GGTGGTCGCTTCTCCGCT 62.071 66.667 0.00 0.00 34.96 5.52
654 682 3.991536 GAGGTGGTCGCTTCTCCGC 62.992 68.421 0.00 0.00 0.00 5.54
655 683 2.182030 GAGGTGGTCGCTTCTCCG 59.818 66.667 0.00 0.00 0.00 4.63
656 684 1.827399 TTGGAGGTGGTCGCTTCTCC 61.827 60.000 0.00 0.00 44.39 3.71
657 685 0.250513 ATTGGAGGTGGTCGCTTCTC 59.749 55.000 0.00 0.00 0.00 2.87
658 686 0.036010 CATTGGAGGTGGTCGCTTCT 60.036 55.000 0.00 0.00 0.00 2.85
659 687 0.321653 ACATTGGAGGTGGTCGCTTC 60.322 55.000 0.00 0.00 0.00 3.86
660 688 0.110486 AACATTGGAGGTGGTCGCTT 59.890 50.000 0.00 0.00 0.00 4.68
661 689 0.321653 GAACATTGGAGGTGGTCGCT 60.322 55.000 0.00 0.00 0.00 4.93
662 690 0.605319 TGAACATTGGAGGTGGTCGC 60.605 55.000 0.00 0.00 36.07 5.19
663 691 2.113860 ATGAACATTGGAGGTGGTCG 57.886 50.000 0.00 0.00 36.07 4.79
664 692 4.487714 TCTATGAACATTGGAGGTGGTC 57.512 45.455 0.00 0.00 33.90 4.02
665 693 6.770286 ATATCTATGAACATTGGAGGTGGT 57.230 37.500 0.00 0.00 0.00 4.16
666 694 8.597167 TCTTATATCTATGAACATTGGAGGTGG 58.403 37.037 0.00 0.00 0.00 4.61
783 820 9.968743 CTCCGTTTACAAGTATAAGATGTTTTC 57.031 33.333 0.00 0.00 0.00 2.29
806 843 3.912248 TCCAGTGTATTCTACTCCCTCC 58.088 50.000 0.00 0.00 0.00 4.30
831 868 7.721286 AAATGTTTCAAAAATATCCGCAACA 57.279 28.000 0.00 0.00 0.00 3.33
960 997 1.961394 GACTGGTGTGGTGAGTGAGTA 59.039 52.381 0.00 0.00 0.00 2.59
961 998 0.753262 GACTGGTGTGGTGAGTGAGT 59.247 55.000 0.00 0.00 0.00 3.41
962 999 1.000283 GAGACTGGTGTGGTGAGTGAG 60.000 57.143 0.00 0.00 0.00 3.51
1328 2432 0.669318 GTTGGCATCGTCGAACTCCA 60.669 55.000 0.00 4.20 0.00 3.86
1341 2445 3.825160 GAGGTGCAGGTCGTTGGCA 62.825 63.158 0.00 0.00 34.70 4.92
1473 2577 0.106149 ATAAACGGGAGATGACGGGC 59.894 55.000 0.00 0.00 0.00 6.13
1522 2626 4.621034 GGATTTGCAACCGAAATGTACTTG 59.379 41.667 0.00 0.00 0.00 3.16
1590 3037 5.428253 TCACACTCAACTTTAGAGCAACTT 58.572 37.500 0.00 0.00 36.58 2.66
1603 3050 5.484173 TCTTCAACATGTTCACACTCAAC 57.516 39.130 8.48 0.00 0.00 3.18
1604 3051 6.698008 ATTCTTCAACATGTTCACACTCAA 57.302 33.333 8.48 0.00 0.00 3.02
1605 3052 6.318396 TCAATTCTTCAACATGTTCACACTCA 59.682 34.615 8.48 0.00 0.00 3.41
1606 3053 6.728200 TCAATTCTTCAACATGTTCACACTC 58.272 36.000 8.48 0.00 0.00 3.51
1607 3054 6.698008 TCAATTCTTCAACATGTTCACACT 57.302 33.333 8.48 0.00 0.00 3.55
1610 3057 7.170320 AGCAAATCAATTCTTCAACATGTTCAC 59.830 33.333 8.48 0.00 0.00 3.18
1651 3129 2.717639 ACACACTTGAGCCAGAAACT 57.282 45.000 0.00 0.00 0.00 2.66
1682 3160 1.326548 GGCCGCGTTATTTCTACACAG 59.673 52.381 4.92 0.00 0.00 3.66
1708 3186 2.558359 CAAGCCTGAAATTCTCCCGTTT 59.442 45.455 0.00 0.00 0.00 3.60
1712 3190 5.529060 CACTATACAAGCCTGAAATTCTCCC 59.471 44.000 0.00 0.00 0.00 4.30
1741 3219 1.334869 AGTTTTTCTGCTCCGTGCTTG 59.665 47.619 0.00 0.00 43.37 4.01
1744 3222 3.188460 TGATTAGTTTTTCTGCTCCGTGC 59.812 43.478 0.00 0.00 43.25 5.34
1782 3260 2.441001 AGAGGCGAATCCATCAAATCCT 59.559 45.455 0.00 0.00 37.29 3.24
1795 4520 3.181497 GCATATTGCAAAAGAGAGGCGAA 60.181 43.478 1.71 0.00 44.26 4.70
1830 4555 6.839124 TCAATGATCAACAGGCTTAACAAT 57.161 33.333 0.00 0.00 0.00 2.71
1831 4556 6.839124 ATCAATGATCAACAGGCTTAACAA 57.161 33.333 0.00 0.00 0.00 2.83
1858 4583 4.697828 TGAAAACTAACAGCACACAAGACA 59.302 37.500 0.00 0.00 0.00 3.41
1866 4591 8.557029 ACATACTTAACTGAAAACTAACAGCAC 58.443 33.333 0.00 0.00 37.61 4.40
1867 4592 8.671384 ACATACTTAACTGAAAACTAACAGCA 57.329 30.769 0.00 0.00 37.61 4.41
1884 4609 8.775527 TCACGTTAAAATCAAGCAACATACTTA 58.224 29.630 0.00 0.00 0.00 2.24
1888 4613 6.853872 GTGTCACGTTAAAATCAAGCAACATA 59.146 34.615 0.00 0.00 0.00 2.29
1890 4615 5.031578 GTGTCACGTTAAAATCAAGCAACA 58.968 37.500 0.00 0.00 0.00 3.33
1891 4616 5.171337 CAGTGTCACGTTAAAATCAAGCAAC 59.829 40.000 0.00 0.00 0.00 4.17
1904 4629 6.564709 TGTTATCTACTACAGTGTCACGTT 57.435 37.500 0.00 0.00 0.00 3.99
1906 4631 6.472486 CCAATGTTATCTACTACAGTGTCACG 59.528 42.308 0.00 0.00 38.34 4.35
1937 4676 4.082733 GGAATGGGAGTGAACAAGCTAAAC 60.083 45.833 0.00 0.00 0.00 2.01
1946 4685 2.586648 AACTGGGAATGGGAGTGAAC 57.413 50.000 0.00 0.00 0.00 3.18
1952 4691 3.399644 TCTGGTTAAAACTGGGAATGGGA 59.600 43.478 0.00 0.00 0.00 4.37
1953 4692 3.773560 TCTGGTTAAAACTGGGAATGGG 58.226 45.455 0.00 0.00 0.00 4.00
2070 4812 9.831737 GCCTTGAATGTACAAATGACATATATC 57.168 33.333 0.00 0.00 36.50 1.63
2078 4820 4.022416 GTGTGGCCTTGAATGTACAAATGA 60.022 41.667 3.32 0.00 0.00 2.57
2083 4825 1.546773 GGGTGTGGCCTTGAATGTACA 60.547 52.381 3.32 0.00 37.43 2.90
2085 4827 0.322098 CGGGTGTGGCCTTGAATGTA 60.322 55.000 3.32 0.00 37.43 2.29
2124 4866 7.230222 CAGTTGAATCGTAGAATGAAACAGAC 58.770 38.462 0.00 0.00 43.58 3.51
2140 4882 6.430451 CAGTGTCAAGTTAACCAGTTGAATC 58.570 40.000 9.58 6.87 44.88 2.52
2144 4887 3.376859 TGCAGTGTCAAGTTAACCAGTTG 59.623 43.478 0.88 0.81 37.18 3.16
2410 5153 0.251916 TACCTCCCAGTGGCATTTCG 59.748 55.000 2.61 0.00 0.00 3.46
2414 5157 1.410850 CGGATACCTCCCAGTGGCAT 61.411 60.000 2.61 0.00 38.45 4.40
2432 5176 1.659098 GCTAAAGACCGTGGAACATCG 59.341 52.381 0.00 0.00 44.52 3.84
2489 5233 1.909302 AGGATTCCTGGTCGAACACAT 59.091 47.619 3.86 0.00 29.57 3.21
2711 5455 0.669625 GCTCCACCGCTTCGTAAAGT 60.670 55.000 0.00 0.00 34.79 2.66
2837 5593 3.131709 TGAACCAGAAGCTTCCTCAAG 57.868 47.619 22.81 9.65 0.00 3.02
2870 5626 4.562767 TGAATGGGCAGGTAGTAAGGATA 58.437 43.478 0.00 0.00 0.00 2.59
2918 5674 0.388649 GAACAGTCACCTCGCACGAT 60.389 55.000 0.00 0.00 0.00 3.73
3114 5888 2.095853 CACACTGTTCAAGACGCTGTTT 59.904 45.455 0.00 0.00 0.00 2.83
3149 5925 7.413219 GCCATCAACAAATTAAATGTGTCATGG 60.413 37.037 14.70 14.70 38.00 3.66
3154 5930 6.112927 AGGCCATCAACAAATTAAATGTGT 57.887 33.333 5.01 0.00 0.00 3.72
3162 5938 3.173953 TCCTGAGGCCATCAACAAATT 57.826 42.857 5.01 0.00 37.52 1.82
3163 5939 2.905415 TCCTGAGGCCATCAACAAAT 57.095 45.000 5.01 0.00 37.52 2.32
3164 5940 2.449464 CATCCTGAGGCCATCAACAAA 58.551 47.619 5.01 0.00 37.52 2.83
3165 5941 1.956636 GCATCCTGAGGCCATCAACAA 60.957 52.381 5.01 0.00 37.52 2.83
3166 5942 0.394762 GCATCCTGAGGCCATCAACA 60.395 55.000 5.01 0.00 37.52 3.33
3180 5956 3.885297 ACATAAGCACACATTAGGCATCC 59.115 43.478 0.00 0.00 0.00 3.51
3181 5957 6.205464 ACATACATAAGCACACATTAGGCATC 59.795 38.462 0.00 0.00 0.00 3.91
3209 5985 2.549064 TCATATCCATGGTTCTGCCG 57.451 50.000 12.58 0.00 41.21 5.69
3256 6146 8.544622 TCCTTATCTTGGAACATATGTACACAA 58.455 33.333 9.21 12.94 39.30 3.33
3265 6155 7.676683 ACTTAGCTCCTTATCTTGGAACATA 57.323 36.000 0.00 0.00 39.30 2.29
3283 6173 9.547753 TGATAGGACAAAGAATGATTACTTAGC 57.452 33.333 0.00 0.00 0.00 3.09
3296 6239 5.894393 TGGTTTTGGTTTGATAGGACAAAGA 59.106 36.000 0.00 0.00 39.83 2.52
3306 6249 8.099537 TGCAAATATGTATGGTTTTGGTTTGAT 58.900 29.630 0.00 0.00 31.37 2.57
3307 6250 7.386299 GTGCAAATATGTATGGTTTTGGTTTGA 59.614 33.333 0.00 0.00 31.37 2.69
3337 6280 2.551071 GCTTAGCCGCTGATTTAGGGAT 60.551 50.000 2.16 0.00 41.61 3.85
3351 6294 2.512515 CCTCGCACCAGCTTAGCC 60.513 66.667 0.00 0.00 39.10 3.93
3371 6314 4.397417 GTGAGGAAGTAAGCGTACCTTCTA 59.603 45.833 6.16 0.41 34.95 2.10
3374 6317 2.895404 TGTGAGGAAGTAAGCGTACCTT 59.105 45.455 6.16 0.76 37.57 3.50
3375 6318 2.492484 CTGTGAGGAAGTAAGCGTACCT 59.508 50.000 6.16 0.00 0.00 3.08
3376 6319 2.490903 TCTGTGAGGAAGTAAGCGTACC 59.509 50.000 6.16 0.00 0.00 3.34
3377 6320 3.500014 GTCTGTGAGGAAGTAAGCGTAC 58.500 50.000 1.07 1.07 0.00 3.67
3378 6321 2.161012 CGTCTGTGAGGAAGTAAGCGTA 59.839 50.000 0.00 0.00 0.00 4.42
3379 6322 1.068472 CGTCTGTGAGGAAGTAAGCGT 60.068 52.381 0.00 0.00 0.00 5.07
3380 6323 1.618861 CGTCTGTGAGGAAGTAAGCG 58.381 55.000 0.00 0.00 0.00 4.68
3381 6324 1.544691 TCCGTCTGTGAGGAAGTAAGC 59.455 52.381 0.00 0.00 32.86 3.09
3467 6468 4.798907 TGACTGAGACTTTTTCGATATCGC 59.201 41.667 20.34 4.46 39.60 4.58
3475 6476 7.251704 TGATGAGTTTGACTGAGACTTTTTC 57.748 36.000 0.00 0.00 0.00 2.29
3480 6481 6.037610 GTGTTTTGATGAGTTTGACTGAGACT 59.962 38.462 0.00 0.00 0.00 3.24
3622 6672 4.003584 TCCTTTAGTAGGGCTACATGGT 57.996 45.455 0.00 0.00 44.86 3.55
3637 6687 3.534357 TTCTGGCCCACATTTCCTTTA 57.466 42.857 0.00 0.00 0.00 1.85
3641 6691 2.178580 TCAATTCTGGCCCACATTTCC 58.821 47.619 0.00 0.00 0.00 3.13
3710 6760 7.293299 TCCCTCTCACATATTCTCACCAAATAT 59.707 37.037 0.00 0.00 31.08 1.28
3751 6801 1.997256 AACCCAAAGTGTACCGGGCA 61.997 55.000 6.32 0.60 42.97 5.36
3771 6821 4.817318 AAGGGAAAACTGCAGACAAAAA 57.183 36.364 23.35 0.00 0.00 1.94
3774 6824 3.892284 TGTAAGGGAAAACTGCAGACAA 58.108 40.909 23.35 0.00 0.00 3.18
3778 6828 5.712152 AGAAATGTAAGGGAAAACTGCAG 57.288 39.130 13.48 13.48 0.00 4.41
3779 6829 6.065374 TGTAGAAATGTAAGGGAAAACTGCA 58.935 36.000 0.00 0.00 0.00 4.41
3788 6838 4.878397 CAGCCTCTTGTAGAAATGTAAGGG 59.122 45.833 0.00 0.00 0.00 3.95
3790 6840 7.440523 AAACAGCCTCTTGTAGAAATGTAAG 57.559 36.000 0.00 0.00 0.00 2.34
3791 6841 7.500892 TGAAAACAGCCTCTTGTAGAAATGTAA 59.499 33.333 0.00 0.00 0.00 2.41
3809 6859 2.218759 CAGGTTCGAGTCGTGAAAACAG 59.781 50.000 13.12 2.81 0.00 3.16
3818 6868 1.200252 AGTGATCACAGGTTCGAGTCG 59.800 52.381 27.02 6.09 0.00 4.18
3823 6873 1.673033 GGTCCAGTGATCACAGGTTCG 60.673 57.143 29.97 10.67 38.87 3.95
3829 6879 0.976641 GTCCTGGTCCAGTGATCACA 59.023 55.000 27.02 4.33 0.00 3.58
3838 6888 2.374184 CAACAAAGTTGTCCTGGTCCA 58.626 47.619 0.00 0.00 41.31 4.02
3843 6893 1.843992 GCAGCAACAAAGTTGTCCTG 58.156 50.000 15.23 15.23 41.31 3.86
3845 6895 2.872028 CGCAGCAACAAAGTTGTCC 58.128 52.632 11.09 0.00 41.31 4.02
3862 6912 2.507992 CTCTCACGAGCCTTGGCG 60.508 66.667 5.95 0.00 0.00 5.69
3915 6965 7.972527 TGAATTGTTCAAAATTGGAGTTTGTG 58.027 30.769 1.54 0.00 37.28 3.33
3916 6966 8.558973 TTGAATTGTTCAAAATTGGAGTTTGT 57.441 26.923 2.84 0.00 45.94 2.83
3976 7028 8.597662 ACGTTACACATTTGGGTATATGTATC 57.402 34.615 0.00 0.00 33.35 2.24
3999 7051 7.444245 GCCATGAAAATTTTTACACATGTACG 58.556 34.615 20.32 11.71 35.04 3.67
4023 7075 6.669485 AGTTTTCATTTCAACGTATTTCGC 57.331 33.333 0.00 0.00 44.19 4.70
4024 7076 8.615585 GTGTAGTTTTCATTTCAACGTATTTCG 58.384 33.333 0.00 0.00 46.00 3.46
4072 7124 7.891561 TGTATTATGTTTGTGCTAAAAAGCCT 58.108 30.769 0.00 0.00 0.00 4.58
4096 7148 6.423302 TGTGCTAAAAAGCCACATATTTGTTG 59.577 34.615 0.00 0.00 32.34 3.33
4098 7150 6.095432 TGTGCTAAAAAGCCACATATTTGT 57.905 33.333 0.00 0.00 36.15 2.83
4099 7151 7.758980 TGTATGTGCTAAAAAGCCACATATTTG 59.241 33.333 13.67 0.00 39.02 2.32
4100 7152 7.835822 TGTATGTGCTAAAAAGCCACATATTT 58.164 30.769 13.67 0.00 39.02 1.40
4102 7154 7.403312 TTGTATGTGCTAAAAAGCCACATAT 57.597 32.000 13.67 0.00 39.02 1.78
4103 7155 6.825944 TTGTATGTGCTAAAAAGCCACATA 57.174 33.333 8.21 8.21 37.54 2.29
4104 7156 5.720371 TTGTATGTGCTAAAAAGCCACAT 57.280 34.783 9.95 9.95 38.76 3.21
4105 7157 5.010516 ACATTGTATGTGCTAAAAAGCCACA 59.989 36.000 0.00 0.00 43.01 4.17
4106 7158 5.469479 ACATTGTATGTGCTAAAAAGCCAC 58.531 37.500 0.00 0.00 43.01 5.01
4107 7159 5.720371 ACATTGTATGTGCTAAAAAGCCA 57.280 34.783 0.00 0.00 43.01 4.75
4108 7160 6.089417 GTGAACATTGTATGTGCTAAAAAGCC 59.911 38.462 0.00 0.00 44.07 4.35
4109 7161 6.863126 AGTGAACATTGTATGTGCTAAAAAGC 59.137 34.615 0.00 0.00 44.07 3.51
4110 7162 8.292448 AGAGTGAACATTGTATGTGCTAAAAAG 58.708 33.333 0.00 0.00 44.07 2.27
4111 7163 8.165239 AGAGTGAACATTGTATGTGCTAAAAA 57.835 30.769 0.00 0.00 44.07 1.94
4112 7164 7.744087 AGAGTGAACATTGTATGTGCTAAAA 57.256 32.000 0.00 0.00 44.07 1.52
4113 7165 8.840833 TTAGAGTGAACATTGTATGTGCTAAA 57.159 30.769 0.00 0.00 44.07 1.85
4114 7166 8.840833 TTTAGAGTGAACATTGTATGTGCTAA 57.159 30.769 0.00 0.00 44.07 3.09
4186 7396 6.258230 TGAGATACCTTGAATTGCAAACTG 57.742 37.500 1.71 0.00 35.74 3.16


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

AutoCloner maintained by Alex Coulton.