Multiple sequence alignment - TraesCS6A01G293700

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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 TraesCS6A01G293700 chr6A 100.000 3581 0 0 1 3581 525032205 525028625 0.000000e+00 6613.0
1 TraesCS6A01G293700 chr6A 95.935 123 4 1 1377 1499 74321334 74321213 7.840000e-47 198.0
2 TraesCS6A01G293700 chr6B 93.411 2398 124 18 215 2599 573415968 573413592 0.000000e+00 3522.0
3 TraesCS6A01G293700 chr6B 87.395 595 36 14 2998 3575 573413326 573412754 0.000000e+00 647.0
4 TraesCS6A01G293700 chr6B 90.476 189 14 4 2690 2876 573413587 573413401 2.760000e-61 246.0
5 TraesCS6A01G293700 chr6B 78.333 300 52 11 330 623 140818193 140817901 7.900000e-42 182.0
6 TraesCS6A01G293700 chr6B 91.358 81 5 1 2881 2961 39203506 39203584 3.780000e-20 110.0
7 TraesCS6A01G293700 chr6B 94.340 53 2 1 2961 3012 573413398 573413346 2.960000e-11 80.5
8 TraesCS6A01G293700 chr6D 95.917 2131 52 11 730 2833 383228590 383226468 0.000000e+00 3421.0
9 TraesCS6A01G293700 chr6D 88.889 603 27 8 2998 3576 383226371 383225785 0.000000e+00 706.0
10 TraesCS6A01G293700 chr6D 84.549 576 81 6 79 651 383229204 383228634 6.710000e-157 564.0
11 TraesCS6A01G293700 chr1B 91.033 1316 98 12 1270 2581 645142627 645141328 0.000000e+00 1759.0
12 TraesCS6A01G293700 chr1B 85.758 330 40 5 1 325 540358759 540359086 3.420000e-90 342.0
13 TraesCS6A01G293700 chr1B 100.000 46 0 0 2881 2926 102142243 102142198 6.370000e-13 86.1
14 TraesCS6A01G293700 chr1A 89.850 1330 119 10 1270 2595 559707901 559706584 0.000000e+00 1694.0
15 TraesCS6A01G293700 chr1D 89.878 1314 113 10 1272 2581 467439116 467437819 0.000000e+00 1672.0
16 TraesCS6A01G293700 chr1D 78.302 318 61 6 330 642 338509339 338509653 7.840000e-47 198.0
17 TraesCS6A01G293700 chr4D 81.751 1359 213 26 1238 2580 443206611 443207950 0.000000e+00 1103.0
18 TraesCS6A01G293700 chr4A 81.525 1364 213 31 1238 2583 24557502 24556160 0.000000e+00 1086.0
19 TraesCS6A01G293700 chr4A 78.287 677 109 24 15 664 535504590 535503925 5.570000e-108 401.0
20 TraesCS6A01G293700 chr4A 78.652 356 70 6 1457 1809 62538293 62538645 7.730000e-57 231.0
21 TraesCS6A01G293700 chr4B 80.868 1359 225 26 1238 2580 552744547 552745886 0.000000e+00 1037.0
22 TraesCS6A01G293700 chr4B 100.000 46 0 0 2881 2926 671845605 671845650 6.370000e-13 86.1
23 TraesCS6A01G293700 chr7B 79.455 1212 224 19 1310 2502 711475697 711476902 0.000000e+00 835.0
24 TraesCS6A01G293700 chr5D 80.669 688 96 21 1 660 237271402 237270724 1.920000e-137 499.0
25 TraesCS6A01G293700 chr5D 84.756 328 42 6 1 325 370009192 370008870 4.460000e-84 322.0
26 TraesCS6A01G293700 chr5D 100.000 46 0 0 2881 2926 478223301 478223346 6.370000e-13 86.1
27 TraesCS6A01G293700 chr5D 84.211 76 5 4 2892 2967 2789741 2789673 2.310000e-07 67.6
28 TraesCS6A01G293700 chr5A 80.793 656 93 18 1 628 318098642 318099292 1.930000e-132 483.0
29 TraesCS6A01G293700 chr3D 79.798 693 103 19 1 660 339841255 339841943 1.510000e-128 470.0
30 TraesCS6A01G293700 chr3D 85.627 327 37 7 1 322 500655440 500655761 5.730000e-88 335.0
31 TraesCS6A01G293700 chr2B 80.612 588 83 16 1 562 14753206 14752624 3.300000e-115 425.0
32 TraesCS6A01G293700 chr2B 78.635 337 69 3 326 660 427576170 427575835 1.670000e-53 220.0
33 TraesCS6A01G293700 chr7A 80.535 411 63 12 17 422 476941680 476942078 2.090000e-77 300.0
34 TraesCS6A01G293700 chr2D 81.009 337 62 2 326 660 359235432 359235768 2.120000e-67 267.0
35 TraesCS6A01G293700 chr2D 77.812 329 68 5 326 651 513333309 513333635 7.840000e-47 198.0
36 TraesCS6A01G293700 chr7D 77.941 340 66 9 326 660 106868826 106868491 1.690000e-48 204.0
37 TraesCS6A01G293700 chr2A 90.361 83 5 3 2881 2961 159877733 159877814 4.890000e-19 106.0
38 TraesCS6A01G293700 chrUn 85.870 92 2 2 2881 2961 183183428 183183519 1.770000e-13 87.9
39 TraesCS6A01G293700 chrUn 85.870 92 2 2 2881 2961 254881191 254881282 1.770000e-13 87.9
40 TraesCS6A01G293700 chr5B 100.000 46 0 0 2881 2926 350495073 350495028 6.370000e-13 86.1


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 TraesCS6A01G293700 chr6A 525028625 525032205 3580 True 6613.000000 6613 100.0000 1 3581 1 chr6A.!!$R2 3580
1 TraesCS6A01G293700 chr6B 573412754 573415968 3214 True 1123.875000 3522 91.4055 215 3575 4 chr6B.!!$R2 3360
2 TraesCS6A01G293700 chr6D 383225785 383229204 3419 True 1563.666667 3421 89.7850 79 3576 3 chr6D.!!$R1 3497
3 TraesCS6A01G293700 chr1B 645141328 645142627 1299 True 1759.000000 1759 91.0330 1270 2581 1 chr1B.!!$R2 1311
4 TraesCS6A01G293700 chr1A 559706584 559707901 1317 True 1694.000000 1694 89.8500 1270 2595 1 chr1A.!!$R1 1325
5 TraesCS6A01G293700 chr1D 467437819 467439116 1297 True 1672.000000 1672 89.8780 1272 2581 1 chr1D.!!$R1 1309
6 TraesCS6A01G293700 chr4D 443206611 443207950 1339 False 1103.000000 1103 81.7510 1238 2580 1 chr4D.!!$F1 1342
7 TraesCS6A01G293700 chr4A 24556160 24557502 1342 True 1086.000000 1086 81.5250 1238 2583 1 chr4A.!!$R1 1345
8 TraesCS6A01G293700 chr4A 535503925 535504590 665 True 401.000000 401 78.2870 15 664 1 chr4A.!!$R2 649
9 TraesCS6A01G293700 chr4B 552744547 552745886 1339 False 1037.000000 1037 80.8680 1238 2580 1 chr4B.!!$F1 1342
10 TraesCS6A01G293700 chr7B 711475697 711476902 1205 False 835.000000 835 79.4550 1310 2502 1 chr7B.!!$F1 1192
11 TraesCS6A01G293700 chr5D 237270724 237271402 678 True 499.000000 499 80.6690 1 660 1 chr5D.!!$R2 659
12 TraesCS6A01G293700 chr5A 318098642 318099292 650 False 483.000000 483 80.7930 1 628 1 chr5A.!!$F1 627
13 TraesCS6A01G293700 chr3D 339841255 339841943 688 False 470.000000 470 79.7980 1 660 1 chr3D.!!$F1 659
14 TraesCS6A01G293700 chr2B 14752624 14753206 582 True 425.000000 425 80.6120 1 562 1 chr2B.!!$R1 561

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
571 607 0.391597 GTCTGGTGTCCGAACTTCCA 59.608 55.0 0.0 0.0 0.00 3.53 F
1114 1163 0.101399 AGACGCAAGCGATACAGAGG 59.899 55.0 22.3 0.0 42.83 3.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1704 1759 1.216178 GCGGAGGTTGTAGCGGTTA 59.784 57.895 0.00 0.0 0.0 2.85 R
2703 2772 0.029035 CGGGTCGATCGTTGGTAGAG 59.971 60.000 15.94 0.0 0.0 2.43 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
28 30 3.147595 CGGAGAGTGCATCGGGGA 61.148 66.667 0.00 0.00 0.00 4.81
115 121 4.267536 TGATTGAGCCCTGAAATTGAGAG 58.732 43.478 0.00 0.00 0.00 3.20
119 125 3.200605 TGAGCCCTGAAATTGAGAGCATA 59.799 43.478 0.00 0.00 0.00 3.14
173 179 1.785430 CTGCATCATCGTCGTCTCATG 59.215 52.381 0.00 0.00 0.00 3.07
264 270 8.585471 AATGAGAATCCATTGCTAGAAAGAAA 57.415 30.769 0.00 0.00 35.60 2.52
335 365 4.443457 CCATGGTGAGTATTCGAAGGACAT 60.443 45.833 2.57 4.69 0.00 3.06
395 430 3.695606 GGAGCGCTGGAGGTGACA 61.696 66.667 18.48 0.00 0.00 3.58
399 434 2.575993 CGCTGGAGGTGACAGAGG 59.424 66.667 0.00 0.00 38.20 3.69
478 513 5.639139 AGGCAAGAGAGAAAGAAGGAAAAT 58.361 37.500 0.00 0.00 0.00 1.82
503 538 1.281925 AATGGGGAGGATGAAGGCGT 61.282 55.000 0.00 0.00 0.00 5.68
508 544 1.299976 GAGGATGAAGGCGTGGGTT 59.700 57.895 0.00 0.00 0.00 4.11
529 565 1.271926 CGAGAAGGGTTTTGGGTGGAT 60.272 52.381 0.00 0.00 0.00 3.41
564 600 1.182667 CCTACATGTCTGGTGTCCGA 58.817 55.000 0.00 0.00 0.00 4.55
568 604 1.416401 ACATGTCTGGTGTCCGAACTT 59.584 47.619 0.00 0.00 0.00 2.66
571 607 0.391597 GTCTGGTGTCCGAACTTCCA 59.608 55.000 0.00 0.00 0.00 3.53
589 626 6.542821 ACTTCCACAAATCTCCTCATGTTTA 58.457 36.000 0.00 0.00 0.00 2.01
590 627 7.004086 ACTTCCACAAATCTCCTCATGTTTAA 58.996 34.615 0.00 0.00 0.00 1.52
602 639 7.229907 TCTCCTCATGTTTAACTTTGGTTTACC 59.770 37.037 0.00 0.00 36.92 2.85
633 670 1.032657 ATCCGGACCGTCTCACAGAG 61.033 60.000 6.12 0.00 0.00 3.35
634 672 1.674651 CCGGACCGTCTCACAGAGA 60.675 63.158 13.94 0.00 36.22 3.10
656 694 1.753930 TACAGTCCCGCGTTAGATGA 58.246 50.000 4.92 0.00 0.00 2.92
660 698 1.549170 AGTCCCGCGTTAGATGACTTT 59.451 47.619 4.92 0.00 32.61 2.66
662 700 1.546923 TCCCGCGTTAGATGACTTTGA 59.453 47.619 4.92 0.00 0.00 2.69
664 702 2.607187 CCGCGTTAGATGACTTTGACT 58.393 47.619 4.92 0.00 0.00 3.41
665 703 2.993899 CCGCGTTAGATGACTTTGACTT 59.006 45.455 4.92 0.00 0.00 3.01
667 705 4.386230 CGCGTTAGATGACTTTGACTTTG 58.614 43.478 0.00 0.00 0.00 2.77
668 706 4.149922 CGCGTTAGATGACTTTGACTTTGA 59.850 41.667 0.00 0.00 0.00 2.69
669 707 5.374898 GCGTTAGATGACTTTGACTTTGAC 58.625 41.667 0.00 0.00 0.00 3.18
670 708 5.177696 GCGTTAGATGACTTTGACTTTGACT 59.822 40.000 0.00 0.00 0.00 3.41
671 709 6.292919 GCGTTAGATGACTTTGACTTTGACTT 60.293 38.462 0.00 0.00 0.00 3.01
672 710 7.630924 CGTTAGATGACTTTGACTTTGACTTT 58.369 34.615 0.00 0.00 0.00 2.66
673 711 7.584123 CGTTAGATGACTTTGACTTTGACTTTG 59.416 37.037 0.00 0.00 0.00 2.77
674 712 8.612619 GTTAGATGACTTTGACTTTGACTTTGA 58.387 33.333 0.00 0.00 0.00 2.69
675 713 7.020914 AGATGACTTTGACTTTGACTTTGAC 57.979 36.000 0.00 0.00 0.00 3.18
676 714 6.599244 AGATGACTTTGACTTTGACTTTGACA 59.401 34.615 0.00 0.00 0.00 3.58
677 715 6.182039 TGACTTTGACTTTGACTTTGACAG 57.818 37.500 0.00 0.00 0.00 3.51
678 716 5.705441 TGACTTTGACTTTGACTTTGACAGT 59.295 36.000 0.00 0.00 39.07 3.55
679 717 6.206634 TGACTTTGACTTTGACTTTGACAGTT 59.793 34.615 0.00 0.00 35.01 3.16
681 719 8.106247 ACTTTGACTTTGACTTTGACAGTTTA 57.894 30.769 0.00 0.00 35.01 2.01
682 720 8.237267 ACTTTGACTTTGACTTTGACAGTTTAG 58.763 33.333 0.00 0.00 35.01 1.85
683 721 7.915293 TTGACTTTGACTTTGACAGTTTAGA 57.085 32.000 0.00 0.00 35.01 2.10
684 722 7.539712 TGACTTTGACTTTGACAGTTTAGAG 57.460 36.000 0.00 0.00 35.01 2.43
685 723 7.327975 TGACTTTGACTTTGACAGTTTAGAGA 58.672 34.615 0.00 0.00 35.01 3.10
686 724 7.987458 TGACTTTGACTTTGACAGTTTAGAGAT 59.013 33.333 0.00 0.00 35.01 2.75
687 725 9.477484 GACTTTGACTTTGACAGTTTAGAGATA 57.523 33.333 0.00 0.00 35.01 1.98
688 726 9.262358 ACTTTGACTTTGACAGTTTAGAGATAC 57.738 33.333 0.00 0.00 35.01 2.24
689 727 9.261180 CTTTGACTTTGACAGTTTAGAGATACA 57.739 33.333 0.00 0.00 35.01 2.29
690 728 8.818141 TTGACTTTGACAGTTTAGAGATACAG 57.182 34.615 0.00 0.00 35.01 2.74
691 729 7.952671 TGACTTTGACAGTTTAGAGATACAGT 58.047 34.615 0.00 0.00 35.01 3.55
692 730 8.082852 TGACTTTGACAGTTTAGAGATACAGTC 58.917 37.037 0.00 0.00 35.01 3.51
693 731 7.379750 ACTTTGACAGTTTAGAGATACAGTCC 58.620 38.462 0.00 0.00 31.93 3.85
694 732 5.916661 TGACAGTTTAGAGATACAGTCCC 57.083 43.478 0.00 0.00 31.93 4.46
695 733 5.330233 TGACAGTTTAGAGATACAGTCCCA 58.670 41.667 0.00 0.00 31.93 4.37
698 736 5.542635 ACAGTTTAGAGATACAGTCCCACAA 59.457 40.000 0.00 0.00 0.00 3.33
704 742 2.838202 AGATACAGTCCCACAAACGGAT 59.162 45.455 0.00 0.00 0.00 4.18
710 748 4.114997 CCACAAACGGATGCGGGC 62.115 66.667 12.44 0.00 0.00 6.13
712 750 4.690719 ACAAACGGATGCGGGCGA 62.691 61.111 12.44 0.00 0.00 5.54
741 780 1.134401 TCGCCTTGAAGATGCCCTAAG 60.134 52.381 0.00 0.00 0.00 2.18
742 781 1.685148 GCCTTGAAGATGCCCTAAGG 58.315 55.000 0.00 0.00 40.61 2.69
795 834 2.588877 GTCGGATGATGCCCGGTG 60.589 66.667 0.00 0.00 46.47 4.94
810 849 1.442769 CGGTGCAGCACAAATCTACT 58.557 50.000 26.78 0.00 35.86 2.57
824 863 5.352569 ACAAATCTACTCGCAAAGATCCAAG 59.647 40.000 0.00 0.00 31.20 3.61
860 899 6.057627 GTCGACCGAGACTTGATTAATCTA 57.942 41.667 16.24 8.13 38.09 1.98
1058 1097 4.662961 CGAGCCAGGCGACACACA 62.663 66.667 5.55 0.00 0.00 3.72
1114 1163 0.101399 AGACGCAAGCGATACAGAGG 59.899 55.000 22.30 0.00 42.83 3.69
1141 1190 4.854784 GCATGAGCTCGTCCGCGA 62.855 66.667 8.23 0.00 45.79 5.87
2088 2146 0.742281 CCAAGGACCTGATGAGCGTG 60.742 60.000 0.00 0.00 0.00 5.34
2601 2670 3.218386 TAGCCAACCCAACCCAGCC 62.218 63.158 0.00 0.00 0.00 4.85
2631 2700 1.459592 GTCTGGTGCACATTCGTACAC 59.540 52.381 20.43 0.00 38.49 2.90
2680 2749 0.320771 CACACTCCAGTAGCCACCAC 60.321 60.000 0.00 0.00 0.00 4.16
2736 2823 0.523072 GACCCGTGCTCTGTACGTAA 59.477 55.000 0.00 0.00 39.80 3.18
2737 2824 0.961019 ACCCGTGCTCTGTACGTAAA 59.039 50.000 0.00 0.00 39.80 2.01
2738 2825 1.340889 ACCCGTGCTCTGTACGTAAAA 59.659 47.619 0.00 0.00 39.80 1.52
2739 2826 1.723003 CCCGTGCTCTGTACGTAAAAC 59.277 52.381 0.00 0.00 39.80 2.43
2740 2827 2.608752 CCCGTGCTCTGTACGTAAAACT 60.609 50.000 0.00 0.00 39.80 2.66
2742 2829 3.850273 CCGTGCTCTGTACGTAAAACTAG 59.150 47.826 0.00 0.00 39.80 2.57
2785 2876 4.392047 TGAGCTCATCTCATCTCTCTCTC 58.608 47.826 13.74 0.00 46.34 3.20
2786 2877 4.103627 TGAGCTCATCTCATCTCTCTCTCT 59.896 45.833 13.74 0.00 46.34 3.10
2787 2878 4.649692 AGCTCATCTCATCTCTCTCTCTC 58.350 47.826 0.00 0.00 0.00 3.20
2839 2931 2.275466 CTTTTACTTCCCCTCTCCCCA 58.725 52.381 0.00 0.00 0.00 4.96
2842 2934 1.160289 TACTTCCCCTCTCCCCACCT 61.160 60.000 0.00 0.00 0.00 4.00
2854 2946 4.143333 CCACCTCGCCCCTACGTG 62.143 72.222 0.00 0.00 0.00 4.49
2859 2951 2.836360 TCGCCCCTACGTGATCCC 60.836 66.667 0.00 0.00 0.00 3.85
2877 2969 1.468895 CCACGCACCAAACGTTTTAC 58.531 50.000 11.66 0.11 42.96 2.01
2878 2970 1.064357 CCACGCACCAAACGTTTTACT 59.936 47.619 11.66 0.00 42.96 2.24
2879 2971 2.368685 CACGCACCAAACGTTTTACTC 58.631 47.619 11.66 0.63 42.96 2.59
2880 2972 2.031191 CACGCACCAAACGTTTTACTCT 59.969 45.455 11.66 0.00 42.96 3.24
2881 2973 2.679336 ACGCACCAAACGTTTTACTCTT 59.321 40.909 11.66 0.00 41.93 2.85
2882 2974 3.242511 ACGCACCAAACGTTTTACTCTTC 60.243 43.478 11.66 0.00 41.93 2.87
2883 2975 3.624900 GCACCAAACGTTTTACTCTTCC 58.375 45.455 11.66 0.00 0.00 3.46
2884 2976 3.847105 GCACCAAACGTTTTACTCTTCCG 60.847 47.826 11.66 0.00 0.00 4.30
2885 2977 3.556775 CACCAAACGTTTTACTCTTCCGA 59.443 43.478 11.66 0.00 0.00 4.55
2886 2978 4.034279 CACCAAACGTTTTACTCTTCCGAA 59.966 41.667 11.66 0.00 0.00 4.30
2887 2979 4.818005 ACCAAACGTTTTACTCTTCCGAAT 59.182 37.500 11.66 0.00 0.00 3.34
2888 2980 5.297527 ACCAAACGTTTTACTCTTCCGAATT 59.702 36.000 11.66 0.00 0.00 2.17
2889 2981 6.482973 ACCAAACGTTTTACTCTTCCGAATTA 59.517 34.615 11.66 0.00 0.00 1.40
2890 2982 6.793680 CCAAACGTTTTACTCTTCCGAATTAC 59.206 38.462 11.66 0.00 0.00 1.89
2891 2983 7.307573 CCAAACGTTTTACTCTTCCGAATTACT 60.308 37.037 11.66 0.00 0.00 2.24
2892 2984 7.719778 AACGTTTTACTCTTCCGAATTACTT 57.280 32.000 0.00 0.00 0.00 2.24
2893 2985 7.113704 ACGTTTTACTCTTCCGAATTACTTG 57.886 36.000 0.00 0.00 0.00 3.16
2894 2986 6.703165 ACGTTTTACTCTTCCGAATTACTTGT 59.297 34.615 0.00 0.00 0.00 3.16
2895 2987 7.095899 ACGTTTTACTCTTCCGAATTACTTGTC 60.096 37.037 0.00 0.00 0.00 3.18
2896 2988 7.115947 CGTTTTACTCTTCCGAATTACTTGTCT 59.884 37.037 0.00 0.00 0.00 3.41
2897 2989 8.771766 GTTTTACTCTTCCGAATTACTTGTCTT 58.228 33.333 0.00 0.00 0.00 3.01
2898 2990 7.884816 TTACTCTTCCGAATTACTTGTCTTG 57.115 36.000 0.00 0.00 0.00 3.02
2899 2991 6.097915 ACTCTTCCGAATTACTTGTCTTGA 57.902 37.500 0.00 0.00 0.00 3.02
2900 2992 6.522054 ACTCTTCCGAATTACTTGTCTTGAA 58.478 36.000 0.00 0.00 0.00 2.69
2901 2993 7.162082 ACTCTTCCGAATTACTTGTCTTGAAT 58.838 34.615 0.00 0.00 0.00 2.57
2902 2994 7.661847 ACTCTTCCGAATTACTTGTCTTGAATT 59.338 33.333 0.00 0.00 0.00 2.17
2903 2995 8.391075 TCTTCCGAATTACTTGTCTTGAATTT 57.609 30.769 0.00 0.00 0.00 1.82
2904 2996 8.289618 TCTTCCGAATTACTTGTCTTGAATTTG 58.710 33.333 0.00 0.00 0.00 2.32
2905 2997 7.504924 TCCGAATTACTTGTCTTGAATTTGT 57.495 32.000 0.00 0.00 0.00 2.83
2906 2998 7.581476 TCCGAATTACTTGTCTTGAATTTGTC 58.419 34.615 0.00 0.00 0.00 3.18
2907 2999 7.444183 TCCGAATTACTTGTCTTGAATTTGTCT 59.556 33.333 0.00 0.00 0.00 3.41
2908 3000 8.717821 CCGAATTACTTGTCTTGAATTTGTCTA 58.282 33.333 0.00 0.00 0.00 2.59
2909 3001 9.746711 CGAATTACTTGTCTTGAATTTGTCTAG 57.253 33.333 0.00 0.00 0.00 2.43
2914 3006 8.467402 ACTTGTCTTGAATTTGTCTAGATACG 57.533 34.615 0.00 0.00 39.77 3.06
2915 3007 7.545965 ACTTGTCTTGAATTTGTCTAGATACGG 59.454 37.037 0.00 0.00 39.77 4.02
2916 3008 7.165460 TGTCTTGAATTTGTCTAGATACGGA 57.835 36.000 0.00 0.00 39.77 4.69
2917 3009 7.782049 TGTCTTGAATTTGTCTAGATACGGAT 58.218 34.615 0.00 0.00 39.77 4.18
2918 3010 7.706607 TGTCTTGAATTTGTCTAGATACGGATG 59.293 37.037 0.00 0.00 39.77 3.51
2919 3011 7.707035 GTCTTGAATTTGTCTAGATACGGATGT 59.293 37.037 0.00 0.00 39.77 3.06
2920 3012 8.909923 TCTTGAATTTGTCTAGATACGGATGTA 58.090 33.333 0.00 0.00 33.79 2.29
2921 3013 9.698309 CTTGAATTTGTCTAGATACGGATGTAT 57.302 33.333 0.00 0.00 43.97 2.29
2957 3049 9.781633 GATACCTCTGTATCTAGACAAGTCTAA 57.218 37.037 10.81 3.74 46.54 2.10
2958 3050 9.787435 ATACCTCTGTATCTAGACAAGTCTAAG 57.213 37.037 10.81 5.69 34.76 2.18
2978 3070 2.817258 AGACTGAGAAGAAGACGTGAGG 59.183 50.000 0.00 0.00 0.00 3.86
3004 3131 1.837499 GGGCGATGGTAGCTAGGGT 60.837 63.158 0.00 0.00 34.52 4.34
3024 3151 3.555586 GGTTTTGCATTGGAGCACTGATT 60.556 43.478 0.00 0.00 45.61 2.57
3027 3154 0.379669 GCATTGGAGCACTGATTCCG 59.620 55.000 0.00 0.00 36.22 4.30
3059 3186 3.790437 CCGTGCTCTGCCCCATCT 61.790 66.667 0.00 0.00 0.00 2.90
3116 3243 2.556287 GCTTGGTTGCTTCGGTCG 59.444 61.111 0.00 0.00 0.00 4.79
3144 3271 3.673809 CCTGTCTGTTTACACTCGTTAGC 59.326 47.826 0.00 0.00 0.00 3.09
3225 3352 2.224113 TGTACACAAGTCCCTCCGTTTC 60.224 50.000 0.00 0.00 0.00 2.78
3226 3353 0.108019 ACACAAGTCCCTCCGTTTCC 59.892 55.000 0.00 0.00 0.00 3.13
3227 3354 0.949105 CACAAGTCCCTCCGTTTCCG 60.949 60.000 0.00 0.00 0.00 4.30
3228 3355 1.370064 CAAGTCCCTCCGTTTCCGT 59.630 57.895 0.00 0.00 0.00 4.69
3229 3356 0.250166 CAAGTCCCTCCGTTTCCGTT 60.250 55.000 0.00 0.00 0.00 4.44
3230 3357 0.471191 AAGTCCCTCCGTTTCCGTTT 59.529 50.000 0.00 0.00 0.00 3.60
3243 3370 2.249844 TCCGTTTCTGTTTCTGGGAC 57.750 50.000 0.00 0.00 0.00 4.46
3260 3387 3.066342 TGGGACGACTCGATAATGTTCTC 59.934 47.826 5.20 0.00 0.00 2.87
3302 3429 3.875727 CCTACGAGTTAATGAGACGAGGA 59.124 47.826 0.00 0.00 0.00 3.71
3314 3441 4.399219 TGAGACGAGGAAAAAGAGAGAGA 58.601 43.478 0.00 0.00 0.00 3.10
3315 3442 4.457603 TGAGACGAGGAAAAAGAGAGAGAG 59.542 45.833 0.00 0.00 0.00 3.20
3316 3443 4.658063 AGACGAGGAAAAAGAGAGAGAGA 58.342 43.478 0.00 0.00 0.00 3.10
3318 3445 4.403734 ACGAGGAAAAAGAGAGAGAGAGT 58.596 43.478 0.00 0.00 0.00 3.24
3319 3446 4.830600 ACGAGGAAAAAGAGAGAGAGAGTT 59.169 41.667 0.00 0.00 0.00 3.01
3320 3447 5.160641 CGAGGAAAAAGAGAGAGAGAGTTG 58.839 45.833 0.00 0.00 0.00 3.16
3321 3448 5.478407 GAGGAAAAAGAGAGAGAGAGTTGG 58.522 45.833 0.00 0.00 0.00 3.77
3322 3449 4.000325 GGAAAAAGAGAGAGAGAGTTGGC 59.000 47.826 0.00 0.00 0.00 4.52
3323 3450 4.262851 GGAAAAAGAGAGAGAGAGTTGGCT 60.263 45.833 0.00 0.00 0.00 4.75
3324 3451 4.535526 AAAAGAGAGAGAGAGTTGGCTC 57.464 45.455 0.00 0.00 41.94 4.70
3325 3452 1.750193 AGAGAGAGAGAGTTGGCTCG 58.250 55.000 0.00 0.00 46.03 5.03
3326 3453 0.100503 GAGAGAGAGAGTTGGCTCGC 59.899 60.000 0.00 0.00 46.03 5.03
3327 3454 1.140804 GAGAGAGAGTTGGCTCGCC 59.859 63.158 0.00 0.00 46.03 5.54
3350 3483 4.758251 TCGCCCGGTGCATCAGTG 62.758 66.667 14.17 0.00 41.33 3.66
3432 3577 1.595993 CGGACAGTCACTCACCGGAT 61.596 60.000 9.46 0.00 39.92 4.18
3577 3741 4.598894 CCCCGCTCGCTCATCCTG 62.599 72.222 0.00 0.00 0.00 3.86
3578 3742 3.531207 CCCGCTCGCTCATCCTGA 61.531 66.667 0.00 0.00 0.00 3.86
3579 3743 2.279120 CCGCTCGCTCATCCTGAC 60.279 66.667 0.00 0.00 0.00 3.51
3580 3744 2.279120 CGCTCGCTCATCCTGACC 60.279 66.667 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 3.461773 CCCCGATGCACTCTCCGT 61.462 66.667 0.00 0.00 0.00 4.69
13 14 0.036388 TTTGTCCCCGATGCACTCTC 60.036 55.000 0.00 0.00 0.00 3.20
28 30 3.071602 ACACTGATGGCTGACTACTTTGT 59.928 43.478 0.00 0.00 0.00 2.83
71 74 1.300931 GTCTGAGTGCTCAACCGCA 60.301 57.895 3.36 0.00 39.39 5.69
86 89 0.622665 CAGGGCTCAATCAAGGGTCT 59.377 55.000 0.00 0.00 0.00 3.85
115 121 1.599542 GGATCGTGCAAAGGAGTATGC 59.400 52.381 0.00 0.00 42.86 3.14
119 125 1.741770 GCGGATCGTGCAAAGGAGT 60.742 57.895 3.88 0.00 0.00 3.85
202 208 0.992072 CAGTATGTTGAGTCGTGCGG 59.008 55.000 0.00 0.00 0.00 5.69
205 211 1.914051 CGAGCAGTATGTTGAGTCGTG 59.086 52.381 0.00 0.00 39.31 4.35
283 290 4.806330 ACTATTCGATGTATTGGCGTAGG 58.194 43.478 0.00 0.00 0.00 3.18
286 293 4.439057 ACAACTATTCGATGTATTGGCGT 58.561 39.130 0.00 0.00 0.00 5.68
289 296 4.084537 GCCGACAACTATTCGATGTATTGG 60.085 45.833 0.00 0.00 38.85 3.16
335 365 0.461870 CTCCATCGCCGTTCAATCCA 60.462 55.000 0.00 0.00 0.00 3.41
395 430 2.496111 CTATCGGAACTCTACGCCTCT 58.504 52.381 0.00 0.00 0.00 3.69
399 434 0.597072 CCCCTATCGGAACTCTACGC 59.403 60.000 0.00 0.00 0.00 4.42
425 460 2.427320 CATCATCCCGTCCGCCAT 59.573 61.111 0.00 0.00 0.00 4.40
432 467 2.764128 ACCGCTCCATCATCCCGT 60.764 61.111 0.00 0.00 0.00 5.28
478 513 3.053395 CCTTCATCCTCCCCATTTTCTCA 60.053 47.826 0.00 0.00 0.00 3.27
503 538 1.477923 CCAAAACCCTTCTCGAACCCA 60.478 52.381 0.00 0.00 0.00 4.51
508 544 0.109723 CCACCCAAAACCCTTCTCGA 59.890 55.000 0.00 0.00 0.00 4.04
529 565 2.224843 TGTAGGACTACGACACCCTCAA 60.225 50.000 5.14 0.00 38.85 3.02
564 600 4.990526 ACATGAGGAGATTTGTGGAAGTT 58.009 39.130 0.00 0.00 0.00 2.66
568 604 6.542821 AGTTAAACATGAGGAGATTTGTGGA 58.457 36.000 0.00 0.00 0.00 4.02
571 607 7.287696 ACCAAAGTTAAACATGAGGAGATTTGT 59.712 33.333 0.00 0.00 0.00 2.83
589 626 4.201940 CGTTTTCTCCGGTAAACCAAAGTT 60.202 41.667 17.54 0.00 38.03 2.66
590 627 3.313249 CGTTTTCTCCGGTAAACCAAAGT 59.687 43.478 17.54 0.00 31.81 2.66
633 670 1.945394 TCTAACGCGGGACTGTATCTC 59.055 52.381 12.47 0.00 0.00 2.75
634 672 2.048444 TCTAACGCGGGACTGTATCT 57.952 50.000 12.47 0.00 0.00 1.98
644 682 2.607187 AGTCAAAGTCATCTAACGCGG 58.393 47.619 12.47 0.00 0.00 6.46
656 694 6.575162 AACTGTCAAAGTCAAAGTCAAAGT 57.425 33.333 0.00 0.00 38.56 2.66
660 698 7.327975 TCTCTAAACTGTCAAAGTCAAAGTCA 58.672 34.615 0.00 0.00 38.56 3.41
662 700 9.262358 GTATCTCTAAACTGTCAAAGTCAAAGT 57.738 33.333 0.00 0.00 38.56 2.66
664 702 9.261180 CTGTATCTCTAAACTGTCAAAGTCAAA 57.739 33.333 0.00 0.00 38.56 2.69
665 703 8.421784 ACTGTATCTCTAAACTGTCAAAGTCAA 58.578 33.333 0.00 0.00 38.56 3.18
667 705 7.542824 GGACTGTATCTCTAAACTGTCAAAGTC 59.457 40.741 12.48 0.00 42.83 3.01
668 706 7.379750 GGACTGTATCTCTAAACTGTCAAAGT 58.620 38.462 12.48 0.00 42.83 2.66
669 707 6.814146 GGGACTGTATCTCTAAACTGTCAAAG 59.186 42.308 12.48 0.00 42.83 2.77
670 708 6.269077 TGGGACTGTATCTCTAAACTGTCAAA 59.731 38.462 12.48 0.73 42.83 2.69
671 709 5.778241 TGGGACTGTATCTCTAAACTGTCAA 59.222 40.000 12.48 1.00 42.83 3.18
672 710 5.185249 GTGGGACTGTATCTCTAAACTGTCA 59.815 44.000 12.48 0.00 42.83 3.58
673 711 5.185249 TGTGGGACTGTATCTCTAAACTGTC 59.815 44.000 0.00 0.00 41.30 3.51
674 712 5.084519 TGTGGGACTGTATCTCTAAACTGT 58.915 41.667 0.00 0.00 0.00 3.55
675 713 5.661056 TGTGGGACTGTATCTCTAAACTG 57.339 43.478 0.00 0.00 0.00 3.16
676 714 6.465084 GTTTGTGGGACTGTATCTCTAAACT 58.535 40.000 0.00 0.00 34.96 2.66
677 715 5.347907 CGTTTGTGGGACTGTATCTCTAAAC 59.652 44.000 0.00 0.00 34.70 2.01
678 716 5.475719 CGTTTGTGGGACTGTATCTCTAAA 58.524 41.667 0.00 0.00 0.00 1.85
679 717 4.081862 CCGTTTGTGGGACTGTATCTCTAA 60.082 45.833 0.00 0.00 0.00 2.10
681 719 2.233922 CCGTTTGTGGGACTGTATCTCT 59.766 50.000 0.00 0.00 0.00 3.10
682 720 2.232941 TCCGTTTGTGGGACTGTATCTC 59.767 50.000 0.00 0.00 0.00 2.75
683 721 2.253610 TCCGTTTGTGGGACTGTATCT 58.746 47.619 0.00 0.00 0.00 1.98
684 722 2.754946 TCCGTTTGTGGGACTGTATC 57.245 50.000 0.00 0.00 0.00 2.24
685 723 2.939640 GCATCCGTTTGTGGGACTGTAT 60.940 50.000 0.00 0.00 36.14 2.29
686 724 1.609580 GCATCCGTTTGTGGGACTGTA 60.610 52.381 0.00 0.00 36.14 2.74
687 725 0.889186 GCATCCGTTTGTGGGACTGT 60.889 55.000 0.00 0.00 36.14 3.55
688 726 1.875963 GCATCCGTTTGTGGGACTG 59.124 57.895 0.00 0.00 36.14 3.51
689 727 1.671054 CGCATCCGTTTGTGGGACT 60.671 57.895 0.00 0.00 36.14 3.85
690 728 2.686816 CCGCATCCGTTTGTGGGAC 61.687 63.158 6.54 0.00 42.42 4.46
691 729 2.359354 CCGCATCCGTTTGTGGGA 60.359 61.111 6.54 0.00 42.42 4.37
693 731 4.114997 GCCCGCATCCGTTTGTGG 62.115 66.667 7.30 7.30 45.10 4.17
694 732 4.459331 CGCCCGCATCCGTTTGTG 62.459 66.667 0.00 0.00 0.00 3.33
695 733 3.969250 ATCGCCCGCATCCGTTTGT 62.969 57.895 0.00 0.00 0.00 2.83
698 736 1.153329 TAAATCGCCCGCATCCGTT 60.153 52.632 0.00 0.00 0.00 4.44
704 742 4.085204 ACCCGTAAATCGCCCGCA 62.085 61.111 0.00 0.00 38.35 5.69
710 748 0.458889 TCAAGGCGACCCGTAAATCG 60.459 55.000 0.00 0.00 41.32 3.34
712 750 1.276989 TCTTCAAGGCGACCCGTAAAT 59.723 47.619 0.00 0.00 35.76 1.40
790 829 0.447801 GTAGATTTGTGCTGCACCGG 59.552 55.000 28.17 0.00 32.73 5.28
792 831 1.394917 CGAGTAGATTTGTGCTGCACC 59.605 52.381 28.17 13.78 32.73 5.01
795 834 1.078709 TGCGAGTAGATTTGTGCTGC 58.921 50.000 0.00 0.00 0.00 5.25
810 849 0.038166 AAGCCCTTGGATCTTTGCGA 59.962 50.000 0.00 0.00 0.00 5.10
824 863 1.632948 GGTCGACTGCGTAAAAGCCC 61.633 60.000 16.46 0.00 38.98 5.19
860 899 0.717196 AGTAGGTGGCTACTCCCCTT 59.283 55.000 0.00 0.00 35.43 3.95
995 1034 3.954904 GGGAGGGAGAATTTAAAGAAGCC 59.045 47.826 0.00 0.00 0.00 4.35
1057 1096 2.203280 TTTGTGGCCTCGTGGGTG 60.203 61.111 3.32 0.00 37.43 4.61
1058 1097 2.113139 CTTTGTGGCCTCGTGGGT 59.887 61.111 3.32 0.00 37.43 4.51
1114 1163 3.941836 GCTCATGCTAACGGCGCC 61.942 66.667 19.07 19.07 45.43 6.53
1141 1190 1.376037 GGTACAGCCGCTTGAGCTT 60.376 57.895 1.07 0.00 38.95 3.74
1704 1759 1.216178 GCGGAGGTTGTAGCGGTTA 59.784 57.895 0.00 0.00 0.00 2.85
1842 1897 2.202756 GGCGTGATGGTCTCCGTC 60.203 66.667 1.47 1.47 39.80 4.79
2268 2329 3.134792 AGCTCGTCGATCACCGCT 61.135 61.111 0.00 0.00 38.37 5.52
2544 2608 2.496291 GGGGATGTCGACGGGGTAG 61.496 68.421 11.62 0.00 0.00 3.18
2606 2675 0.671781 GAATGTGCACCAGACGAGCT 60.672 55.000 15.69 0.00 0.00 4.09
2631 2700 0.872451 TGTGTACGAGCCAACGTGTG 60.872 55.000 10.59 0.00 46.02 3.82
2701 2770 2.292267 GGGTCGATCGTTGGTAGAGTA 58.708 52.381 15.94 0.00 0.00 2.59
2702 2771 1.101331 GGGTCGATCGTTGGTAGAGT 58.899 55.000 15.94 0.00 0.00 3.24
2703 2772 0.029035 CGGGTCGATCGTTGGTAGAG 59.971 60.000 15.94 0.00 0.00 2.43
2736 2823 3.498927 GCATGCAGCAATGACTAGTTT 57.501 42.857 14.21 0.00 44.79 2.66
2785 2876 1.068402 TCAATGCAATGCAACGTGGAG 60.068 47.619 13.45 0.00 43.62 3.86
2786 2877 0.957362 TCAATGCAATGCAACGTGGA 59.043 45.000 13.45 2.79 43.62 4.02
2787 2878 1.656594 CATCAATGCAATGCAACGTGG 59.343 47.619 13.45 0.18 43.62 4.94
2839 2931 2.043248 ATCACGTAGGGGCGAGGT 60.043 61.111 0.00 0.00 35.59 3.85
2842 2934 2.836360 GGGATCACGTAGGGGCGA 60.836 66.667 0.00 0.00 35.59 5.54
2854 2946 1.512156 AACGTTTGGTGCGTGGGATC 61.512 55.000 0.00 0.00 42.10 3.36
2859 2951 2.031191 AGAGTAAAACGTTTGGTGCGTG 59.969 45.455 15.46 0.00 42.10 5.34
2877 2969 7.602517 ATTCAAGACAAGTAATTCGGAAGAG 57.397 36.000 0.00 0.00 43.69 2.85
2878 2970 7.979444 AATTCAAGACAAGTAATTCGGAAGA 57.021 32.000 0.00 0.00 39.20 2.87
2879 2971 8.076178 ACAAATTCAAGACAAGTAATTCGGAAG 58.924 33.333 0.00 0.00 0.00 3.46
2880 2972 7.936584 ACAAATTCAAGACAAGTAATTCGGAA 58.063 30.769 0.00 0.00 0.00 4.30
2881 2973 7.444183 AGACAAATTCAAGACAAGTAATTCGGA 59.556 33.333 0.00 0.00 0.00 4.55
2882 2974 7.584987 AGACAAATTCAAGACAAGTAATTCGG 58.415 34.615 0.00 0.00 0.00 4.30
2883 2975 9.746711 CTAGACAAATTCAAGACAAGTAATTCG 57.253 33.333 0.00 0.00 0.00 3.34
2888 2980 9.569167 CGTATCTAGACAAATTCAAGACAAGTA 57.431 33.333 0.00 0.00 0.00 2.24
2889 2981 7.545965 CCGTATCTAGACAAATTCAAGACAAGT 59.454 37.037 0.00 0.00 0.00 3.16
2890 2982 7.759886 TCCGTATCTAGACAAATTCAAGACAAG 59.240 37.037 0.00 0.00 0.00 3.16
2891 2983 7.608153 TCCGTATCTAGACAAATTCAAGACAA 58.392 34.615 0.00 0.00 0.00 3.18
2892 2984 7.165460 TCCGTATCTAGACAAATTCAAGACA 57.835 36.000 0.00 0.00 0.00 3.41
2893 2985 7.707035 ACATCCGTATCTAGACAAATTCAAGAC 59.293 37.037 0.00 0.00 0.00 3.01
2894 2986 7.782049 ACATCCGTATCTAGACAAATTCAAGA 58.218 34.615 0.00 0.00 0.00 3.02
2895 2987 9.698309 ATACATCCGTATCTAGACAAATTCAAG 57.302 33.333 0.00 0.00 32.66 3.02
2932 3024 9.787435 CTTAGACTTGTCTAGATACAGAGGTAT 57.213 37.037 9.96 0.00 42.86 2.73
2933 3025 8.990203 TCTTAGACTTGTCTAGATACAGAGGTA 58.010 37.037 9.96 0.00 0.00 3.08
2934 3026 7.771826 GTCTTAGACTTGTCTAGATACAGAGGT 59.228 40.741 4.94 0.00 0.00 3.85
2935 3027 7.990886 AGTCTTAGACTTGTCTAGATACAGAGG 59.009 40.741 9.37 0.00 40.28 3.69
2936 3028 8.826710 CAGTCTTAGACTTGTCTAGATACAGAG 58.173 40.741 12.76 4.46 41.37 3.35
2937 3029 8.541234 TCAGTCTTAGACTTGTCTAGATACAGA 58.459 37.037 12.76 7.53 41.37 3.41
2938 3030 8.725405 TCAGTCTTAGACTTGTCTAGATACAG 57.275 38.462 12.76 5.63 41.37 2.74
2939 3031 8.541234 TCTCAGTCTTAGACTTGTCTAGATACA 58.459 37.037 12.76 0.00 41.37 2.29
2940 3032 8.951787 TCTCAGTCTTAGACTTGTCTAGATAC 57.048 38.462 12.76 9.60 41.37 2.24
2941 3033 9.607988 CTTCTCAGTCTTAGACTTGTCTAGATA 57.392 37.037 12.76 0.00 41.37 1.98
2942 3034 8.325787 TCTTCTCAGTCTTAGACTTGTCTAGAT 58.674 37.037 12.76 0.00 41.37 1.98
2943 3035 7.681679 TCTTCTCAGTCTTAGACTTGTCTAGA 58.318 38.462 12.76 9.03 41.37 2.43
2944 3036 7.915293 TCTTCTCAGTCTTAGACTTGTCTAG 57.085 40.000 12.76 6.98 41.37 2.43
2945 3037 8.158132 TCTTCTTCTCAGTCTTAGACTTGTCTA 58.842 37.037 12.76 6.41 41.37 2.59
2946 3038 7.001674 TCTTCTTCTCAGTCTTAGACTTGTCT 58.998 38.462 12.76 8.41 41.37 3.41
2947 3039 7.081976 GTCTTCTTCTCAGTCTTAGACTTGTC 58.918 42.308 12.76 0.00 41.37 3.18
2948 3040 6.293735 CGTCTTCTTCTCAGTCTTAGACTTGT 60.294 42.308 12.76 0.00 41.37 3.16
2949 3041 6.083630 CGTCTTCTTCTCAGTCTTAGACTTG 58.916 44.000 12.76 8.77 41.37 3.16
2950 3042 5.766174 ACGTCTTCTTCTCAGTCTTAGACTT 59.234 40.000 12.76 0.00 41.37 3.01
2951 3043 5.180492 CACGTCTTCTTCTCAGTCTTAGACT 59.820 44.000 9.37 9.37 44.44 3.24
2952 3044 5.179742 TCACGTCTTCTTCTCAGTCTTAGAC 59.820 44.000 3.85 3.85 0.00 2.59
2953 3045 5.306394 TCACGTCTTCTTCTCAGTCTTAGA 58.694 41.667 0.00 0.00 0.00 2.10
2954 3046 5.391523 CCTCACGTCTTCTTCTCAGTCTTAG 60.392 48.000 0.00 0.00 0.00 2.18
2955 3047 4.456222 CCTCACGTCTTCTTCTCAGTCTTA 59.544 45.833 0.00 0.00 0.00 2.10
2956 3048 3.254657 CCTCACGTCTTCTTCTCAGTCTT 59.745 47.826 0.00 0.00 0.00 3.01
2957 3049 2.817258 CCTCACGTCTTCTTCTCAGTCT 59.183 50.000 0.00 0.00 0.00 3.24
2958 3050 2.554893 ACCTCACGTCTTCTTCTCAGTC 59.445 50.000 0.00 0.00 0.00 3.51
3004 3131 3.306225 GGAATCAGTGCTCCAATGCAAAA 60.306 43.478 0.00 0.00 45.12 2.44
3049 3176 0.250640 GAGCATGGTAGATGGGGCAG 60.251 60.000 0.00 0.00 0.00 4.85
3053 3180 0.882042 GCACGAGCATGGTAGATGGG 60.882 60.000 12.16 0.00 41.58 4.00
3059 3186 1.298157 GCACAAGCACGAGCATGGTA 61.298 55.000 14.27 0.00 43.41 3.25
3090 3217 2.908073 GCAACCAAGCCACCTCGTG 61.908 63.158 0.00 0.00 0.00 4.35
3116 3243 1.266989 GTGTAAACAGACAGGGCAAGC 59.733 52.381 0.00 0.00 0.00 4.01
3225 3352 0.865769 CGTCCCAGAAACAGAAACGG 59.134 55.000 0.00 0.00 0.00 4.44
3226 3353 1.525619 GTCGTCCCAGAAACAGAAACG 59.474 52.381 0.00 0.00 0.00 3.60
3227 3354 2.801111 GAGTCGTCCCAGAAACAGAAAC 59.199 50.000 0.00 0.00 0.00 2.78
3228 3355 2.545113 CGAGTCGTCCCAGAAACAGAAA 60.545 50.000 3.82 0.00 0.00 2.52
3229 3356 1.000607 CGAGTCGTCCCAGAAACAGAA 60.001 52.381 3.82 0.00 0.00 3.02
3230 3357 0.596577 CGAGTCGTCCCAGAAACAGA 59.403 55.000 3.82 0.00 0.00 3.41
3243 3370 2.044860 GGCGAGAACATTATCGAGTCG 58.955 52.381 12.50 6.09 43.95 4.18
3260 3387 4.899239 GACGGAGCAGGGATGGCG 62.899 72.222 0.00 0.00 36.08 5.69
3302 3429 4.560513 CGAGCCAACTCTCTCTCTCTTTTT 60.561 45.833 0.00 0.00 41.09 1.94
3314 3441 3.764466 CGAGGGCGAGCCAACTCT 61.764 66.667 16.65 3.32 41.09 3.24
3350 3483 1.335882 GGGTGGTAGGTAGGGCACTC 61.336 65.000 0.00 0.00 0.00 3.51
3432 3577 4.373116 GCGGCGGGTTCAGACAGA 62.373 66.667 9.78 0.00 0.00 3.41
3560 3724 4.598894 CAGGATGAGCGAGCGGGG 62.599 72.222 0.00 0.00 39.69 5.73
3561 3725 3.531207 TCAGGATGAGCGAGCGGG 61.531 66.667 0.00 0.00 42.56 6.13


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

AutoCloner maintained by Alex Coulton.