Multiple sequence alignment - TraesCS6B01G204400

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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 TraesCS6B01G204400 chr6B 100.000 3752 0 0 1 3752 255074480 255070729 0.000000e+00 6929.0
1 TraesCS6B01G204400 chr6B 89.916 833 75 9 2787 3613 625322350 625321521 0.000000e+00 1064.0
2 TraesCS6B01G204400 chr6B 85.315 429 44 12 279 699 565391271 565391688 3.460000e-115 425.0
3 TraesCS6B01G204400 chr6B 76.119 134 21 4 2748 2870 597270637 597270504 4.050000e-05 60.2
4 TraesCS6B01G204400 chr6D 94.453 1911 61 17 854 2720 143092606 143090697 0.000000e+00 2900.0
5 TraesCS6B01G204400 chr6D 90.545 825 70 6 2796 3614 331251566 331252388 0.000000e+00 1085.0
6 TraesCS6B01G204400 chr6A 95.341 1760 67 1 925 2669 188355106 188353347 0.000000e+00 2782.0
7 TraesCS6B01G204400 chr6A 76.908 1533 275 57 1129 2610 205114753 205116257 0.000000e+00 797.0
8 TraesCS6B01G204400 chr6A 93.575 358 20 3 1 356 496042488 496042132 7.140000e-147 531.0
9 TraesCS6B01G204400 chr6A 86.158 419 46 9 279 688 236594175 236593760 3.440000e-120 442.0
10 TraesCS6B01G204400 chr6A 91.566 249 16 2 445 688 496042112 496041864 4.640000e-89 339.0
11 TraesCS6B01G204400 chr6A 82.143 252 21 16 688 939 188386024 188385797 1.060000e-45 195.0
12 TraesCS6B01G204400 chr3B 97.384 688 4 4 1 688 196582793 196583466 0.000000e+00 1158.0
13 TraesCS6B01G204400 chr7B 90.789 836 69 6 2787 3615 616541994 616542828 0.000000e+00 1110.0
14 TraesCS6B01G204400 chr7B 76.928 1491 272 52 1129 2573 682283726 682282262 0.000000e+00 782.0
15 TraesCS6B01G204400 chr7B 79.560 318 56 8 1336 1645 715931765 715932081 6.310000e-53 219.0
16 TraesCS6B01G204400 chr7B 79.560 318 56 8 1336 1645 715967038 715967354 6.310000e-53 219.0
17 TraesCS6B01G204400 chr7B 79.560 318 56 8 1336 1645 715970123 715970439 6.310000e-53 219.0
18 TraesCS6B01G204400 chr4B 90.712 829 71 4 2791 3613 33174694 33173866 0.000000e+00 1099.0
19 TraesCS6B01G204400 chr5D 89.667 871 74 11 2749 3613 231939995 231939135 0.000000e+00 1096.0
20 TraesCS6B01G204400 chr5D 90.493 831 73 4 2787 3612 367422230 367421401 0.000000e+00 1092.0
21 TraesCS6B01G204400 chr5D 90.557 826 71 5 2794 3613 438061498 438062322 0.000000e+00 1086.0
22 TraesCS6B01G204400 chr5D 87.770 834 91 8 2787 3613 520105315 520104486 0.000000e+00 965.0
23 TraesCS6B01G204400 chr3D 89.583 864 79 8 2761 3613 6424250 6423387 0.000000e+00 1086.0
24 TraesCS6B01G204400 chr3D 78.674 558 102 12 2025 2575 48349690 48350237 4.610000e-94 355.0
25 TraesCS6B01G204400 chr3D 75.124 808 155 35 1142 1920 48252167 48251377 1.670000e-88 337.0
26 TraesCS6B01G204400 chr3D 74.667 825 150 43 1136 1920 48348771 48349576 1.010000e-80 311.0
27 TraesCS6B01G204400 chr3D 80.592 304 42 11 1300 1587 40183426 40183124 6.310000e-53 219.0
28 TraesCS6B01G204400 chr7D 90.276 833 74 5 2787 3613 152355190 152356021 0.000000e+00 1083.0
29 TraesCS6B01G204400 chr7D 90.424 825 73 4 2794 3613 477407070 477407893 0.000000e+00 1081.0
30 TraesCS6B01G204400 chr7D 89.781 822 73 9 2800 3613 616365540 616366358 0.000000e+00 1042.0
31 TraesCS6B01G204400 chr7D 87.424 819 94 7 2800 3613 162117825 162118639 0.000000e+00 933.0
32 TraesCS6B01G204400 chr7D 77.445 501 94 15 1135 1624 613694204 613693712 7.930000e-72 281.0
33 TraesCS6B01G204400 chr5A 87.373 887 88 15 2749 3613 397521690 397520806 0.000000e+00 996.0
34 TraesCS6B01G204400 chr5A 88.983 708 57 15 1 699 60208351 60207656 0.000000e+00 856.0
35 TraesCS6B01G204400 chr5A 80.907 529 83 14 2023 2539 520208756 520208234 5.840000e-108 401.0
36 TraesCS6B01G204400 chr5A 92.308 247 14 2 445 686 586172390 586172144 2.770000e-91 346.0
37 TraesCS6B01G204400 chr2D 91.248 697 43 12 1 689 140470745 140471431 0.000000e+00 933.0
38 TraesCS6B01G204400 chr2D 87.316 339 38 3 2801 3134 469504465 469504127 2.110000e-102 383.0
39 TraesCS6B01G204400 chr2D 76.650 591 124 12 2025 2608 568465301 568465884 7.820000e-82 315.0
40 TraesCS6B01G204400 chr2D 77.117 555 110 13 2025 2572 568358392 568358936 4.710000e-79 305.0
41 TraesCS6B01G204400 chr7A 84.665 776 88 16 2747 3507 91394070 91393311 0.000000e+00 745.0
42 TraesCS6B01G204400 chr5B 93.855 358 19 3 1 356 468900621 468900977 1.530000e-148 536.0
43 TraesCS6B01G204400 chr5B 79.623 530 88 15 2023 2539 491083199 491082677 2.750000e-96 363.0
44 TraesCS6B01G204400 chr5B 92.369 249 14 2 445 688 468900997 468901245 2.140000e-92 350.0
45 TraesCS6B01G204400 chr4A 86.603 418 38 10 279 688 169464923 169465330 2.660000e-121 446.0
46 TraesCS6B01G204400 chr1D 85.442 419 48 9 279 688 65842714 65843128 1.250000e-114 424.0
47 TraesCS6B01G204400 chr1D 82.828 99 15 2 1167 1264 426931074 426931171 1.860000e-13 87.9
48 TraesCS6B01G204400 chr3A 74.413 809 159 36 1142 1920 60442872 60442082 1.690000e-78 303.0
49 TraesCS6B01G204400 chr3A 74.167 840 166 35 1136 1939 60471623 60472447 6.090000e-78 302.0
50 TraesCS6B01G204400 chrUn 80.836 287 48 6 1365 1645 176261426 176261141 6.310000e-53 219.0
51 TraesCS6B01G204400 chrUn 80.488 287 49 6 1365 1645 176285623 176285338 2.940000e-51 213.0
52 TraesCS6B01G204400 chr2A 75.385 455 53 33 1221 1653 687283512 687283095 8.340000e-37 165.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6B01G204400 chr6B 255070729 255074480 3751 True 6929 6929 100.0000 1 3752 1 chr6B.!!$R1 3751
1 TraesCS6B01G204400 chr6B 625321521 625322350 829 True 1064 1064 89.9160 2787 3613 1 chr6B.!!$R3 826
2 TraesCS6B01G204400 chr6D 143090697 143092606 1909 True 2900 2900 94.4530 854 2720 1 chr6D.!!$R1 1866
3 TraesCS6B01G204400 chr6D 331251566 331252388 822 False 1085 1085 90.5450 2796 3614 1 chr6D.!!$F1 818
4 TraesCS6B01G204400 chr6A 188353347 188355106 1759 True 2782 2782 95.3410 925 2669 1 chr6A.!!$R1 1744
5 TraesCS6B01G204400 chr6A 205114753 205116257 1504 False 797 797 76.9080 1129 2610 1 chr6A.!!$F1 1481
6 TraesCS6B01G204400 chr6A 496041864 496042488 624 True 435 531 92.5705 1 688 2 chr6A.!!$R4 687
7 TraesCS6B01G204400 chr3B 196582793 196583466 673 False 1158 1158 97.3840 1 688 1 chr3B.!!$F1 687
8 TraesCS6B01G204400 chr7B 616541994 616542828 834 False 1110 1110 90.7890 2787 3615 1 chr7B.!!$F1 828
9 TraesCS6B01G204400 chr7B 682282262 682283726 1464 True 782 782 76.9280 1129 2573 1 chr7B.!!$R1 1444
10 TraesCS6B01G204400 chr7B 715967038 715970439 3401 False 219 219 79.5600 1336 1645 2 chr7B.!!$F3 309
11 TraesCS6B01G204400 chr4B 33173866 33174694 828 True 1099 1099 90.7120 2791 3613 1 chr4B.!!$R1 822
12 TraesCS6B01G204400 chr5D 231939135 231939995 860 True 1096 1096 89.6670 2749 3613 1 chr5D.!!$R1 864
13 TraesCS6B01G204400 chr5D 367421401 367422230 829 True 1092 1092 90.4930 2787 3612 1 chr5D.!!$R2 825
14 TraesCS6B01G204400 chr5D 438061498 438062322 824 False 1086 1086 90.5570 2794 3613 1 chr5D.!!$F1 819
15 TraesCS6B01G204400 chr5D 520104486 520105315 829 True 965 965 87.7700 2787 3613 1 chr5D.!!$R3 826
16 TraesCS6B01G204400 chr3D 6423387 6424250 863 True 1086 1086 89.5830 2761 3613 1 chr3D.!!$R1 852
17 TraesCS6B01G204400 chr3D 48251377 48252167 790 True 337 337 75.1240 1142 1920 1 chr3D.!!$R3 778
18 TraesCS6B01G204400 chr3D 48348771 48350237 1466 False 333 355 76.6705 1136 2575 2 chr3D.!!$F1 1439
19 TraesCS6B01G204400 chr7D 152355190 152356021 831 False 1083 1083 90.2760 2787 3613 1 chr7D.!!$F1 826
20 TraesCS6B01G204400 chr7D 477407070 477407893 823 False 1081 1081 90.4240 2794 3613 1 chr7D.!!$F3 819
21 TraesCS6B01G204400 chr7D 616365540 616366358 818 False 1042 1042 89.7810 2800 3613 1 chr7D.!!$F4 813
22 TraesCS6B01G204400 chr7D 162117825 162118639 814 False 933 933 87.4240 2800 3613 1 chr7D.!!$F2 813
23 TraesCS6B01G204400 chr5A 397520806 397521690 884 True 996 996 87.3730 2749 3613 1 chr5A.!!$R2 864
24 TraesCS6B01G204400 chr5A 60207656 60208351 695 True 856 856 88.9830 1 699 1 chr5A.!!$R1 698
25 TraesCS6B01G204400 chr5A 520208234 520208756 522 True 401 401 80.9070 2023 2539 1 chr5A.!!$R3 516
26 TraesCS6B01G204400 chr2D 140470745 140471431 686 False 933 933 91.2480 1 689 1 chr2D.!!$F1 688
27 TraesCS6B01G204400 chr2D 568465301 568465884 583 False 315 315 76.6500 2025 2608 1 chr2D.!!$F3 583
28 TraesCS6B01G204400 chr2D 568358392 568358936 544 False 305 305 77.1170 2025 2572 1 chr2D.!!$F2 547
29 TraesCS6B01G204400 chr7A 91393311 91394070 759 True 745 745 84.6650 2747 3507 1 chr7A.!!$R1 760
30 TraesCS6B01G204400 chr5B 468900621 468901245 624 False 443 536 93.1120 1 688 2 chr5B.!!$F1 687
31 TraesCS6B01G204400 chr5B 491082677 491083199 522 True 363 363 79.6230 2023 2539 1 chr5B.!!$R1 516
32 TraesCS6B01G204400 chr3A 60442082 60442872 790 True 303 303 74.4130 1142 1920 1 chr3A.!!$R1 778
33 TraesCS6B01G204400 chr3A 60471623 60472447 824 False 302 302 74.1670 1136 1939 1 chr3A.!!$F1 803

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
737 752 0.034198 TCGTGATGTTTTGCGGGAGA 59.966 50.0 0.00 0.0 0.00 3.71 F
769 784 0.044702 AGGTGTCATGGGAGGGATCA 59.955 55.0 0.00 0.0 0.00 2.92 F
1766 3528 0.758734 ATACAGCGCCATAGCCAAGA 59.241 50.0 2.29 0.0 38.01 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2723 4569 0.179158 AACCGTTTGTTTCACGCCAC 60.179 50.0 0.00 0.0 36.27 5.01 R
2724 4570 0.526662 AAACCGTTTGTTTCACGCCA 59.473 45.0 0.00 0.0 43.74 5.69 R
3633 5505 0.107017 ATGAGCACGCTGGGCTAATT 60.107 50.0 5.29 0.0 42.78 1.40 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
400 404 2.503331 TGCATTTCGTTCACTGGTGAT 58.497 42.857 4.19 0.00 39.64 3.06
401 405 2.884012 TGCATTTCGTTCACTGGTGATT 59.116 40.909 4.19 0.00 39.64 2.57
402 406 4.068599 TGCATTTCGTTCACTGGTGATTA 58.931 39.130 4.19 0.00 39.64 1.75
403 407 4.699735 TGCATTTCGTTCACTGGTGATTAT 59.300 37.500 4.19 0.00 39.64 1.28
404 408 5.182950 TGCATTTCGTTCACTGGTGATTATT 59.817 36.000 4.19 0.00 39.64 1.40
405 409 6.372937 TGCATTTCGTTCACTGGTGATTATTA 59.627 34.615 4.19 0.00 39.64 0.98
406 410 7.066887 TGCATTTCGTTCACTGGTGATTATTAT 59.933 33.333 4.19 0.00 39.64 1.28
407 411 7.915397 GCATTTCGTTCACTGGTGATTATTATT 59.085 33.333 4.19 0.00 39.64 1.40
408 412 9.787532 CATTTCGTTCACTGGTGATTATTATTT 57.212 29.630 4.19 0.00 39.64 1.40
411 415 9.619316 TTCGTTCACTGGTGATTATTATTTTTG 57.381 29.630 4.19 0.00 39.64 2.44
412 416 8.788806 TCGTTCACTGGTGATTATTATTTTTGT 58.211 29.630 4.19 0.00 39.64 2.83
692 707 3.869246 CACGGGCATTCGACTAGTTAAAT 59.131 43.478 0.00 0.00 0.00 1.40
693 708 3.869246 ACGGGCATTCGACTAGTTAAATG 59.131 43.478 19.35 19.35 33.31 2.32
694 709 3.247648 CGGGCATTCGACTAGTTAAATGG 59.752 47.826 22.50 10.19 31.33 3.16
695 710 4.196971 GGGCATTCGACTAGTTAAATGGT 58.803 43.478 22.50 0.00 31.33 3.55
697 712 5.818857 GGGCATTCGACTAGTTAAATGGTAA 59.181 40.000 22.50 0.00 31.33 2.85
698 713 6.316890 GGGCATTCGACTAGTTAAATGGTAAA 59.683 38.462 22.50 0.00 31.33 2.01
699 714 7.148205 GGGCATTCGACTAGTTAAATGGTAAAA 60.148 37.037 22.50 0.00 31.33 1.52
700 715 8.238631 GGCATTCGACTAGTTAAATGGTAAAAA 58.761 33.333 22.50 0.00 31.33 1.94
701 716 9.783256 GCATTCGACTAGTTAAATGGTAAAAAT 57.217 29.630 22.50 0.00 31.33 1.82
705 720 8.938906 TCGACTAGTTAAATGGTAAAAATGGTC 58.061 33.333 0.00 0.00 0.00 4.02
706 721 8.723311 CGACTAGTTAAATGGTAAAAATGGTCA 58.277 33.333 0.00 0.00 31.00 4.02
711 726 8.919145 AGTTAAATGGTAAAAATGGTCAAGACA 58.081 29.630 2.29 0.00 0.00 3.41
713 728 6.723298 AATGGTAAAAATGGTCAAGACACA 57.277 33.333 2.29 0.00 0.00 3.72
714 729 5.766150 TGGTAAAAATGGTCAAGACACAG 57.234 39.130 2.29 0.00 0.00 3.66
715 730 4.037446 TGGTAAAAATGGTCAAGACACAGC 59.963 41.667 2.29 0.00 0.00 4.40
716 731 3.354089 AAAAATGGTCAAGACACAGCG 57.646 42.857 2.29 0.00 0.00 5.18
717 732 2.254546 AAATGGTCAAGACACAGCGA 57.745 45.000 2.29 0.00 0.00 4.93
718 733 2.479566 AATGGTCAAGACACAGCGAT 57.520 45.000 2.29 0.00 0.00 4.58
719 734 2.015736 ATGGTCAAGACACAGCGATC 57.984 50.000 2.29 0.00 0.00 3.69
720 735 0.388520 TGGTCAAGACACAGCGATCG 60.389 55.000 11.69 11.69 0.00 3.69
721 736 0.388649 GGTCAAGACACAGCGATCGT 60.389 55.000 17.81 0.26 0.00 3.73
722 737 0.710567 GTCAAGACACAGCGATCGTG 59.289 55.000 17.81 15.38 40.32 4.35
723 738 0.596082 TCAAGACACAGCGATCGTGA 59.404 50.000 17.81 6.83 37.80 4.35
724 739 1.202348 TCAAGACACAGCGATCGTGAT 59.798 47.619 17.81 7.73 37.80 3.06
725 740 1.322637 CAAGACACAGCGATCGTGATG 59.677 52.381 17.81 15.11 37.80 3.07
726 741 0.528017 AGACACAGCGATCGTGATGT 59.472 50.000 17.81 17.09 37.80 3.06
730 745 2.096268 ACACAGCGATCGTGATGTTTTG 60.096 45.455 17.81 9.97 37.80 2.44
731 746 1.135972 ACAGCGATCGTGATGTTTTGC 60.136 47.619 17.81 0.00 0.00 3.68
732 747 0.095245 AGCGATCGTGATGTTTTGCG 59.905 50.000 17.81 0.00 0.00 4.85
733 748 0.857311 GCGATCGTGATGTTTTGCGG 60.857 55.000 17.81 0.00 0.00 5.69
734 749 0.247655 CGATCGTGATGTTTTGCGGG 60.248 55.000 7.03 0.00 0.00 6.13
736 751 1.062587 GATCGTGATGTTTTGCGGGAG 59.937 52.381 0.00 0.00 0.00 4.30
737 752 0.034198 TCGTGATGTTTTGCGGGAGA 59.966 50.000 0.00 0.00 0.00 3.71
738 753 0.443869 CGTGATGTTTTGCGGGAGAG 59.556 55.000 0.00 0.00 0.00 3.20
739 754 1.808411 GTGATGTTTTGCGGGAGAGA 58.192 50.000 0.00 0.00 0.00 3.10
740 755 1.464997 GTGATGTTTTGCGGGAGAGAC 59.535 52.381 0.00 0.00 0.00 3.36
741 756 0.721718 GATGTTTTGCGGGAGAGACG 59.278 55.000 0.00 0.00 0.00 4.18
753 768 1.465794 GAGAGACGCTCCTTGTAGGT 58.534 55.000 0.00 0.00 37.69 3.08
754 769 1.133407 GAGAGACGCTCCTTGTAGGTG 59.867 57.143 0.00 0.00 37.69 4.00
755 770 0.889306 GAGACGCTCCTTGTAGGTGT 59.111 55.000 0.00 0.00 36.53 4.16
756 771 0.889306 AGACGCTCCTTGTAGGTGTC 59.111 55.000 0.00 0.00 36.53 3.67
758 773 1.204941 GACGCTCCTTGTAGGTGTCAT 59.795 52.381 0.00 0.00 36.53 3.06
759 774 1.066858 ACGCTCCTTGTAGGTGTCATG 60.067 52.381 0.00 0.00 36.53 3.07
760 775 1.740380 CGCTCCTTGTAGGTGTCATGG 60.740 57.143 0.00 0.00 36.53 3.66
764 779 1.210478 CCTTGTAGGTGTCATGGGAGG 59.790 57.143 0.00 0.00 0.00 4.30
765 780 1.210478 CTTGTAGGTGTCATGGGAGGG 59.790 57.143 0.00 0.00 0.00 4.30
766 781 0.415830 TGTAGGTGTCATGGGAGGGA 59.584 55.000 0.00 0.00 0.00 4.20
767 782 1.009552 TGTAGGTGTCATGGGAGGGAT 59.990 52.381 0.00 0.00 0.00 3.85
769 784 0.044702 AGGTGTCATGGGAGGGATCA 59.955 55.000 0.00 0.00 0.00 2.92
772 787 2.579873 GTGTCATGGGAGGGATCAATG 58.420 52.381 0.00 0.00 0.00 2.82
774 789 1.151760 TCATGGGAGGGATCAATGGG 58.848 55.000 0.00 0.00 0.00 4.00
776 791 1.500303 CATGGGAGGGATCAATGGGAA 59.500 52.381 0.00 0.00 0.00 3.97
777 792 1.225373 TGGGAGGGATCAATGGGAAG 58.775 55.000 0.00 0.00 0.00 3.46
778 793 1.226311 GGGAGGGATCAATGGGAAGT 58.774 55.000 0.00 0.00 0.00 3.01
779 794 1.143889 GGGAGGGATCAATGGGAAGTC 59.856 57.143 0.00 0.00 0.00 3.01
780 795 1.846439 GGAGGGATCAATGGGAAGTCA 59.154 52.381 0.00 0.00 0.00 3.41
781 796 2.158696 GGAGGGATCAATGGGAAGTCAG 60.159 54.545 0.00 0.00 0.00 3.51
782 797 1.849039 AGGGATCAATGGGAAGTCAGG 59.151 52.381 0.00 0.00 0.00 3.86
783 798 1.566231 GGGATCAATGGGAAGTCAGGT 59.434 52.381 0.00 0.00 0.00 4.00
784 799 2.648059 GGATCAATGGGAAGTCAGGTG 58.352 52.381 0.00 0.00 0.00 4.00
785 800 2.239654 GGATCAATGGGAAGTCAGGTGA 59.760 50.000 0.00 0.00 0.00 4.02
786 801 3.308402 GGATCAATGGGAAGTCAGGTGAA 60.308 47.826 0.00 0.00 0.00 3.18
787 802 3.874383 TCAATGGGAAGTCAGGTGAAA 57.126 42.857 0.00 0.00 0.00 2.69
789 804 4.081406 TCAATGGGAAGTCAGGTGAAATG 58.919 43.478 0.00 0.00 0.00 2.32
790 805 1.909700 TGGGAAGTCAGGTGAAATGC 58.090 50.000 0.00 0.00 0.00 3.56
791 806 1.425066 TGGGAAGTCAGGTGAAATGCT 59.575 47.619 0.00 0.00 0.00 3.79
792 807 2.087646 GGGAAGTCAGGTGAAATGCTC 58.912 52.381 0.00 0.00 0.00 4.26
794 809 2.746362 GGAAGTCAGGTGAAATGCTCAG 59.254 50.000 0.00 0.00 33.60 3.35
796 811 1.980765 AGTCAGGTGAAATGCTCAGGA 59.019 47.619 0.00 0.00 33.60 3.86
801 816 3.822735 CAGGTGAAATGCTCAGGAGAAAA 59.177 43.478 0.00 0.00 33.60 2.29
802 817 3.823304 AGGTGAAATGCTCAGGAGAAAAC 59.177 43.478 0.00 0.00 33.60 2.43
804 819 4.320788 GGTGAAATGCTCAGGAGAAAACAG 60.321 45.833 0.00 0.00 33.60 3.16
805 820 4.276926 GTGAAATGCTCAGGAGAAAACAGT 59.723 41.667 0.00 0.00 33.60 3.55
806 821 4.516698 TGAAATGCTCAGGAGAAAACAGTC 59.483 41.667 0.00 0.00 0.00 3.51
808 823 3.558931 TGCTCAGGAGAAAACAGTCAA 57.441 42.857 0.00 0.00 0.00 3.18
810 825 4.269183 TGCTCAGGAGAAAACAGTCAAAA 58.731 39.130 0.00 0.00 0.00 2.44
846 861 9.476202 CGGAGGAAACAATTATTTCTTTTTCTT 57.524 29.630 8.98 0.00 38.43 2.52
873 889 7.962964 AGTTGAGAAAACAGTCATTTCGATA 57.037 32.000 0.00 0.00 40.78 2.92
874 890 7.797819 AGTTGAGAAAACAGTCATTTCGATAC 58.202 34.615 0.00 0.00 40.78 2.24
888 904 5.856126 TTTCGATACTGCTGAAAAACGAT 57.144 34.783 0.00 0.00 0.00 3.73
891 907 5.109210 TCGATACTGCTGAAAAACGATGAT 58.891 37.500 0.00 0.00 0.00 2.45
900 916 6.094742 TGCTGAAAAACGATGATTTAGGCATA 59.905 34.615 0.00 0.00 0.00 3.14
953 971 7.667219 AGATGAGTTTGACCATTGACTTTACAT 59.333 33.333 0.00 0.00 0.00 2.29
1185 1228 1.078214 CATCGGTCACCTGCACCAT 60.078 57.895 0.00 0.00 32.89 3.55
1329 1378 1.079819 CATGAAGACCCACGACGCT 60.080 57.895 0.00 0.00 0.00 5.07
1453 3212 4.869215 CAAGATATGCACTGTCGAGATCT 58.131 43.478 0.00 0.00 0.00 2.75
1645 3407 1.890894 CAGAGGGACACGTACCTGG 59.109 63.158 5.44 0.00 46.12 4.45
1766 3528 0.758734 ATACAGCGCCATAGCCAAGA 59.241 50.000 2.29 0.00 38.01 3.02
2702 4548 5.822519 TGACCTATATTTGTTGATCCTGTGC 59.177 40.000 0.00 0.00 0.00 4.57
2703 4549 5.754782 ACCTATATTTGTTGATCCTGTGCA 58.245 37.500 0.00 0.00 0.00 4.57
2720 4566 2.754552 GTGCAAGTTGATTAGCCCATCA 59.245 45.455 7.16 0.00 0.00 3.07
2721 4567 2.754552 TGCAAGTTGATTAGCCCATCAC 59.245 45.455 7.16 0.00 32.68 3.06
2722 4568 2.099756 GCAAGTTGATTAGCCCATCACC 59.900 50.000 7.16 0.00 32.68 4.02
2723 4569 2.332063 AGTTGATTAGCCCATCACCG 57.668 50.000 0.00 0.00 32.68 4.94
2724 4570 1.559682 AGTTGATTAGCCCATCACCGT 59.440 47.619 0.00 0.00 32.68 4.83
2725 4571 1.670811 GTTGATTAGCCCATCACCGTG 59.329 52.381 0.00 0.00 32.68 4.94
2726 4572 0.180171 TGATTAGCCCATCACCGTGG 59.820 55.000 0.00 0.00 39.05 4.94
2727 4573 1.152963 ATTAGCCCATCACCGTGGC 60.153 57.895 0.00 0.00 45.70 5.01
2731 4577 4.386951 CCCATCACCGTGGCGTGA 62.387 66.667 0.00 0.00 46.36 4.35
2732 4578 2.358125 CCATCACCGTGGCGTGAA 60.358 61.111 0.00 0.00 45.49 3.18
2733 4579 1.963855 CCATCACCGTGGCGTGAAA 60.964 57.895 0.00 0.00 45.49 2.69
2734 4580 1.206578 CATCACCGTGGCGTGAAAC 59.793 57.895 0.00 0.00 45.49 2.78
2735 4581 1.227704 ATCACCGTGGCGTGAAACA 60.228 52.632 0.00 0.00 45.49 2.83
2736 4582 0.816018 ATCACCGTGGCGTGAAACAA 60.816 50.000 0.00 0.00 45.49 2.83
2737 4583 1.025113 TCACCGTGGCGTGAAACAAA 61.025 50.000 0.00 0.00 39.78 2.83
2738 4584 0.863957 CACCGTGGCGTGAAACAAAC 60.864 55.000 0.00 0.00 35.74 2.93
2739 4585 1.652930 CCGTGGCGTGAAACAAACG 60.653 57.895 0.00 0.00 43.81 3.60
2740 4586 1.652930 CGTGGCGTGAAACAAACGG 60.653 57.895 0.00 0.00 41.31 4.44
2741 4587 1.430228 GTGGCGTGAAACAAACGGT 59.570 52.632 0.00 0.00 41.31 4.83
2742 4588 0.179158 GTGGCGTGAAACAAACGGTT 60.179 50.000 0.00 0.00 42.98 4.44
2823 4682 2.043450 CCCCTCTCTCTGTCGGCT 60.043 66.667 0.00 0.00 0.00 5.52
2851 4710 1.296715 GCGGGAAGAAGAAGGAGCA 59.703 57.895 0.00 0.00 0.00 4.26
2873 4732 1.681327 GGTCTGTCCGCTAGGTGGA 60.681 63.158 0.00 0.00 40.17 4.02
2890 4751 2.570302 GTGGATGTGTGGTAGGGTTAGT 59.430 50.000 0.00 0.00 0.00 2.24
2964 4829 2.649034 GCTCCGTTCGTGGTCAGA 59.351 61.111 0.00 0.00 0.00 3.27
3079 4944 1.671379 GCCGTTTGGGTCCTCAGAC 60.671 63.158 0.00 0.00 42.73 3.51
3081 4946 1.663739 CGTTTGGGTCCTCAGACGA 59.336 57.895 14.36 0.00 44.56 4.20
3104 4970 0.467384 ATGGATGCAGGAGACGAAGG 59.533 55.000 0.00 0.00 0.00 3.46
3136 5002 4.746535 TCCTTGTCGGTATGATTTGCTA 57.253 40.909 0.00 0.00 0.00 3.49
3234 5106 1.037493 CTGGACCGGTCGGATGATTA 58.963 55.000 27.68 5.98 38.96 1.75
3235 5107 1.411246 CTGGACCGGTCGGATGATTAA 59.589 52.381 27.68 4.28 38.96 1.40
3237 5109 2.236644 TGGACCGGTCGGATGATTAAAA 59.763 45.455 27.68 0.00 38.96 1.52
3238 5110 3.272581 GGACCGGTCGGATGATTAAAAA 58.727 45.455 27.68 0.00 38.96 1.94
3268 5140 5.391312 CTTTCGGAAGGGACATTTTTCAT 57.609 39.130 0.00 0.00 0.00 2.57
3465 5337 4.056740 CTCAAGATTCAGGGATGATGTCG 58.943 47.826 0.00 0.00 0.00 4.35
3487 5359 1.218196 AGGGCTCCGGAGATCTTCTTA 59.782 52.381 35.69 0.00 0.00 2.10
3626 5498 3.430473 AAAAAGCCCATCACCGTCA 57.570 47.368 0.00 0.00 0.00 4.35
3627 5499 1.698506 AAAAAGCCCATCACCGTCAA 58.301 45.000 0.00 0.00 0.00 3.18
3628 5500 1.698506 AAAAGCCCATCACCGTCAAA 58.301 45.000 0.00 0.00 0.00 2.69
3629 5501 1.698506 AAAGCCCATCACCGTCAAAA 58.301 45.000 0.00 0.00 0.00 2.44
3630 5502 1.698506 AAGCCCATCACCGTCAAAAA 58.301 45.000 0.00 0.00 0.00 1.94
3648 5520 3.812577 AAAAATTAGCCCAGCGTGC 57.187 47.368 0.00 0.00 0.00 5.34
3649 5521 1.256812 AAAAATTAGCCCAGCGTGCT 58.743 45.000 3.28 3.28 42.81 4.40
3650 5522 0.811281 AAAATTAGCCCAGCGTGCTC 59.189 50.000 0.86 0.00 40.23 4.26
3651 5523 0.322456 AAATTAGCCCAGCGTGCTCA 60.322 50.000 0.86 0.00 40.23 4.26
3652 5524 0.107017 AATTAGCCCAGCGTGCTCAT 60.107 50.000 0.86 0.00 40.23 2.90
3653 5525 0.533755 ATTAGCCCAGCGTGCTCATC 60.534 55.000 0.86 0.00 40.23 2.92
3654 5526 2.593468 TTAGCCCAGCGTGCTCATCC 62.593 60.000 0.86 0.00 40.23 3.51
3656 5528 4.457496 CCCAGCGTGCTCATCCGT 62.457 66.667 0.00 0.00 0.00 4.69
3657 5529 3.190849 CCAGCGTGCTCATCCGTG 61.191 66.667 0.00 0.00 0.00 4.94
3658 5530 3.857854 CAGCGTGCTCATCCGTGC 61.858 66.667 0.00 0.00 0.00 5.34
3659 5531 4.074526 AGCGTGCTCATCCGTGCT 62.075 61.111 0.00 0.00 32.76 4.40
3660 5532 3.121030 GCGTGCTCATCCGTGCTT 61.121 61.111 0.00 0.00 32.76 3.91
3661 5533 2.680913 GCGTGCTCATCCGTGCTTT 61.681 57.895 0.00 0.00 32.76 3.51
3662 5534 1.133253 CGTGCTCATCCGTGCTTTG 59.867 57.895 0.00 0.00 32.76 2.77
3663 5535 1.291184 CGTGCTCATCCGTGCTTTGA 61.291 55.000 0.00 0.00 32.76 2.69
3664 5536 0.874390 GTGCTCATCCGTGCTTTGAA 59.126 50.000 0.00 0.00 32.76 2.69
3665 5537 1.470098 GTGCTCATCCGTGCTTTGAAT 59.530 47.619 0.00 0.00 32.76 2.57
3666 5538 2.095059 GTGCTCATCCGTGCTTTGAATT 60.095 45.455 0.00 0.00 32.76 2.17
3667 5539 2.162208 TGCTCATCCGTGCTTTGAATTC 59.838 45.455 0.00 0.00 32.76 2.17
3668 5540 2.162208 GCTCATCCGTGCTTTGAATTCA 59.838 45.455 3.38 3.38 0.00 2.57
3669 5541 3.751621 CTCATCCGTGCTTTGAATTCAC 58.248 45.455 7.89 0.00 0.00 3.18
3670 5542 2.487762 TCATCCGTGCTTTGAATTCACC 59.512 45.455 7.89 0.32 0.00 4.02
3671 5543 0.871722 TCCGTGCTTTGAATTCACCG 59.128 50.000 7.89 3.20 0.00 4.94
3672 5544 0.109781 CCGTGCTTTGAATTCACCGG 60.110 55.000 7.89 10.82 0.00 5.28
3673 5545 0.591170 CGTGCTTTGAATTCACCGGT 59.409 50.000 7.89 0.00 0.00 5.28
3674 5546 1.399727 CGTGCTTTGAATTCACCGGTC 60.400 52.381 2.59 0.00 0.00 4.79
3675 5547 1.068541 GTGCTTTGAATTCACCGGTCC 60.069 52.381 2.59 0.00 0.00 4.46
3676 5548 0.168128 GCTTTGAATTCACCGGTCCG 59.832 55.000 2.59 3.60 0.00 4.79
3677 5549 0.168128 CTTTGAATTCACCGGTCCGC 59.832 55.000 2.59 0.00 0.00 5.54
3678 5550 0.250553 TTTGAATTCACCGGTCCGCT 60.251 50.000 2.59 0.00 0.00 5.52
3679 5551 0.953471 TTGAATTCACCGGTCCGCTG 60.953 55.000 2.59 2.33 0.00 5.18
3680 5552 2.046314 AATTCACCGGTCCGCTGG 60.046 61.111 2.59 0.00 46.63 4.85
3681 5553 2.515996 GAATTCACCGGTCCGCTGGA 62.516 60.000 2.59 0.00 43.97 3.86
3696 5568 2.413765 GGACTCGATCCGCTGGAC 59.586 66.667 0.00 0.00 37.88 4.02
3697 5569 2.122167 GGACTCGATCCGCTGGACT 61.122 63.158 0.00 0.00 37.88 3.85
3698 5570 1.357334 GACTCGATCCGCTGGACTC 59.643 63.158 0.00 0.01 32.98 3.36
3699 5571 2.329690 CTCGATCCGCTGGACTCG 59.670 66.667 15.73 15.73 35.61 4.18
3700 5572 2.124860 TCGATCCGCTGGACTCGA 60.125 61.111 18.19 18.19 38.42 4.04
3701 5573 1.511318 CTCGATCCGCTGGACTCGAT 61.511 60.000 20.26 1.92 39.23 3.59
3702 5574 1.371022 CGATCCGCTGGACTCGATG 60.371 63.158 16.32 0.00 36.00 3.84
3703 5575 1.736586 GATCCGCTGGACTCGATGT 59.263 57.895 0.00 0.00 32.98 3.06
3704 5576 0.952280 GATCCGCTGGACTCGATGTA 59.048 55.000 0.00 0.00 32.98 2.29
3705 5577 0.955178 ATCCGCTGGACTCGATGTAG 59.045 55.000 0.00 0.00 32.98 2.74
3706 5578 1.101635 TCCGCTGGACTCGATGTAGG 61.102 60.000 0.00 0.00 0.00 3.18
3707 5579 1.384989 CCGCTGGACTCGATGTAGGT 61.385 60.000 0.00 0.00 0.00 3.08
3708 5580 1.306148 CGCTGGACTCGATGTAGGTA 58.694 55.000 0.00 0.00 0.00 3.08
3709 5581 1.002684 CGCTGGACTCGATGTAGGTAC 60.003 57.143 0.00 0.00 0.00 3.34
3710 5582 1.337387 GCTGGACTCGATGTAGGTACC 59.663 57.143 2.73 2.73 0.00 3.34
3711 5583 1.602851 CTGGACTCGATGTAGGTACCG 59.397 57.143 6.18 0.00 0.00 4.02
3712 5584 0.310232 GGACTCGATGTAGGTACCGC 59.690 60.000 6.18 4.34 0.00 5.68
3713 5585 0.310232 GACTCGATGTAGGTACCGCC 59.690 60.000 6.18 1.24 37.58 6.13
3714 5586 1.281960 CTCGATGTAGGTACCGCCG 59.718 63.158 6.18 7.13 43.70 6.46
3715 5587 1.442526 CTCGATGTAGGTACCGCCGT 61.443 60.000 6.18 2.00 43.70 5.68
3716 5588 1.298863 CGATGTAGGTACCGCCGTG 60.299 63.158 6.18 0.00 43.70 4.94
3717 5589 1.811860 GATGTAGGTACCGCCGTGT 59.188 57.895 6.18 0.00 43.70 4.49
3718 5590 0.248784 GATGTAGGTACCGCCGTGTC 60.249 60.000 6.18 0.00 43.70 3.67
3719 5591 1.996786 ATGTAGGTACCGCCGTGTCG 61.997 60.000 6.18 0.00 43.70 4.35
3720 5592 2.359850 TAGGTACCGCCGTGTCGT 60.360 61.111 6.18 0.00 43.70 4.34
3721 5593 1.971167 TAGGTACCGCCGTGTCGTT 60.971 57.895 6.18 0.00 43.70 3.85
3722 5594 1.922135 TAGGTACCGCCGTGTCGTTC 61.922 60.000 6.18 0.00 43.70 3.95
3723 5595 3.167945 GTACCGCCGTGTCGTTCG 61.168 66.667 0.00 0.00 0.00 3.95
3729 5601 3.103911 CCGTGTCGTTCGCTGGAC 61.104 66.667 0.00 0.00 0.00 4.02
3730 5602 2.354188 CGTGTCGTTCGCTGGACA 60.354 61.111 0.00 0.00 40.63 4.02
3731 5603 1.733041 CGTGTCGTTCGCTGGACAT 60.733 57.895 5.73 0.00 44.22 3.06
3732 5604 0.455464 CGTGTCGTTCGCTGGACATA 60.455 55.000 5.73 0.00 44.22 2.29
3733 5605 1.797713 CGTGTCGTTCGCTGGACATAT 60.798 52.381 5.73 0.00 44.22 1.78
3734 5606 1.852895 GTGTCGTTCGCTGGACATATC 59.147 52.381 5.73 0.00 44.22 1.63
3735 5607 1.202371 TGTCGTTCGCTGGACATATCC 60.202 52.381 0.00 0.00 46.48 2.59
3736 5608 1.067212 GTCGTTCGCTGGACATATCCT 59.933 52.381 0.00 0.00 46.43 3.24
3737 5609 2.292569 GTCGTTCGCTGGACATATCCTA 59.707 50.000 0.00 0.00 46.43 2.94
3738 5610 3.057456 GTCGTTCGCTGGACATATCCTAT 60.057 47.826 0.00 0.00 46.43 2.57
3739 5611 3.572682 TCGTTCGCTGGACATATCCTATT 59.427 43.478 0.00 0.00 46.43 1.73
3740 5612 4.038763 TCGTTCGCTGGACATATCCTATTT 59.961 41.667 0.00 0.00 46.43 1.40
3741 5613 4.150627 CGTTCGCTGGACATATCCTATTTG 59.849 45.833 0.00 0.00 46.43 2.32
3742 5614 5.297547 GTTCGCTGGACATATCCTATTTGA 58.702 41.667 0.00 0.00 46.43 2.69
3743 5615 5.745312 TCGCTGGACATATCCTATTTGAT 57.255 39.130 0.00 0.00 46.43 2.57
3744 5616 5.482006 TCGCTGGACATATCCTATTTGATG 58.518 41.667 0.00 0.00 46.43 3.07
3745 5617 4.093998 CGCTGGACATATCCTATTTGATGC 59.906 45.833 0.00 0.00 46.43 3.91
3746 5618 4.093998 GCTGGACATATCCTATTTGATGCG 59.906 45.833 0.00 0.00 46.43 4.73
3747 5619 4.002982 TGGACATATCCTATTTGATGCGC 58.997 43.478 0.00 0.00 46.43 6.09
3748 5620 3.375299 GGACATATCCTATTTGATGCGCC 59.625 47.826 4.18 0.00 42.45 6.53
3749 5621 3.347216 ACATATCCTATTTGATGCGCCC 58.653 45.455 4.18 0.00 0.00 6.13
3750 5622 2.093306 TATCCTATTTGATGCGCCCG 57.907 50.000 4.18 0.00 0.00 6.13
3751 5623 0.396435 ATCCTATTTGATGCGCCCGA 59.604 50.000 4.18 0.00 0.00 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
692 707 4.037446 GCTGTGTCTTGACCATTTTTACCA 59.963 41.667 0.00 0.00 0.00 3.25
693 708 4.546570 GCTGTGTCTTGACCATTTTTACC 58.453 43.478 0.00 0.00 0.00 2.85
694 709 4.024387 TCGCTGTGTCTTGACCATTTTTAC 60.024 41.667 0.00 0.00 0.00 2.01
695 710 4.130857 TCGCTGTGTCTTGACCATTTTTA 58.869 39.130 0.00 0.00 0.00 1.52
697 712 2.571212 TCGCTGTGTCTTGACCATTTT 58.429 42.857 0.00 0.00 0.00 1.82
698 713 2.254546 TCGCTGTGTCTTGACCATTT 57.745 45.000 0.00 0.00 0.00 2.32
699 714 2.350522 GATCGCTGTGTCTTGACCATT 58.649 47.619 0.00 0.00 0.00 3.16
700 715 1.737029 CGATCGCTGTGTCTTGACCAT 60.737 52.381 0.26 0.00 0.00 3.55
701 716 0.388520 CGATCGCTGTGTCTTGACCA 60.389 55.000 0.26 0.00 0.00 4.02
702 717 0.388649 ACGATCGCTGTGTCTTGACC 60.389 55.000 16.60 0.00 0.00 4.02
703 718 0.710567 CACGATCGCTGTGTCTTGAC 59.289 55.000 16.60 0.00 32.68 3.18
705 720 1.322637 CATCACGATCGCTGTGTCTTG 59.677 52.381 16.60 3.19 38.48 3.02
706 721 1.067565 ACATCACGATCGCTGTGTCTT 60.068 47.619 16.60 0.00 38.48 3.01
709 724 1.795768 AAACATCACGATCGCTGTGT 58.204 45.000 16.60 14.02 38.48 3.72
710 725 2.498905 CAAAACATCACGATCGCTGTG 58.501 47.619 16.60 13.35 38.70 3.66
711 726 1.135972 GCAAAACATCACGATCGCTGT 60.136 47.619 16.60 13.52 0.00 4.40
713 728 0.095245 CGCAAAACATCACGATCGCT 59.905 50.000 16.60 0.00 0.00 4.93
714 729 0.857311 CCGCAAAACATCACGATCGC 60.857 55.000 16.60 0.00 0.00 4.58
715 730 0.247655 CCCGCAAAACATCACGATCG 60.248 55.000 14.88 14.88 0.00 3.69
716 731 1.062587 CTCCCGCAAAACATCACGATC 59.937 52.381 0.00 0.00 0.00 3.69
717 732 1.086696 CTCCCGCAAAACATCACGAT 58.913 50.000 0.00 0.00 0.00 3.73
718 733 0.034198 TCTCCCGCAAAACATCACGA 59.966 50.000 0.00 0.00 0.00 4.35
719 734 0.443869 CTCTCCCGCAAAACATCACG 59.556 55.000 0.00 0.00 0.00 4.35
720 735 1.464997 GTCTCTCCCGCAAAACATCAC 59.535 52.381 0.00 0.00 0.00 3.06
721 736 1.808411 GTCTCTCCCGCAAAACATCA 58.192 50.000 0.00 0.00 0.00 3.07
722 737 0.721718 CGTCTCTCCCGCAAAACATC 59.278 55.000 0.00 0.00 0.00 3.06
723 738 2.840974 CGTCTCTCCCGCAAAACAT 58.159 52.632 0.00 0.00 0.00 2.71
724 739 4.354155 CGTCTCTCCCGCAAAACA 57.646 55.556 0.00 0.00 0.00 2.83
734 749 1.133407 CACCTACAAGGAGCGTCTCTC 59.867 57.143 0.00 0.00 37.67 3.20
736 751 0.889306 ACACCTACAAGGAGCGTCTC 59.111 55.000 0.00 0.00 37.67 3.36
737 752 0.889306 GACACCTACAAGGAGCGTCT 59.111 55.000 0.00 0.00 37.67 4.18
738 753 0.601558 TGACACCTACAAGGAGCGTC 59.398 55.000 0.00 4.37 37.67 5.19
739 754 1.066858 CATGACACCTACAAGGAGCGT 60.067 52.381 0.00 0.00 37.67 5.07
740 755 1.645034 CATGACACCTACAAGGAGCG 58.355 55.000 0.00 0.00 37.67 5.03
741 756 1.407437 CCCATGACACCTACAAGGAGC 60.407 57.143 0.00 0.00 37.67 4.70
742 757 2.169352 CTCCCATGACACCTACAAGGAG 59.831 54.545 0.00 0.00 37.67 3.69
743 758 2.187958 CTCCCATGACACCTACAAGGA 58.812 52.381 0.00 0.00 37.67 3.36
744 759 1.210478 CCTCCCATGACACCTACAAGG 59.790 57.143 0.00 0.00 42.49 3.61
745 760 1.210478 CCCTCCCATGACACCTACAAG 59.790 57.143 0.00 0.00 0.00 3.16
746 761 1.203376 TCCCTCCCATGACACCTACAA 60.203 52.381 0.00 0.00 0.00 2.41
747 762 0.415830 TCCCTCCCATGACACCTACA 59.584 55.000 0.00 0.00 0.00 2.74
748 763 1.694696 GATCCCTCCCATGACACCTAC 59.305 57.143 0.00 0.00 0.00 3.18
749 764 1.293763 TGATCCCTCCCATGACACCTA 59.706 52.381 0.00 0.00 0.00 3.08
750 765 0.044702 TGATCCCTCCCATGACACCT 59.955 55.000 0.00 0.00 0.00 4.00
752 767 2.579873 CATTGATCCCTCCCATGACAC 58.420 52.381 0.00 0.00 0.00 3.67
753 768 1.496001 CCATTGATCCCTCCCATGACA 59.504 52.381 0.00 0.00 0.00 3.58
754 769 1.202976 CCCATTGATCCCTCCCATGAC 60.203 57.143 0.00 0.00 0.00 3.06
755 770 1.151760 CCCATTGATCCCTCCCATGA 58.848 55.000 0.00 0.00 0.00 3.07
756 771 1.151760 TCCCATTGATCCCTCCCATG 58.848 55.000 0.00 0.00 0.00 3.66
758 773 1.225373 CTTCCCATTGATCCCTCCCA 58.775 55.000 0.00 0.00 0.00 4.37
759 774 1.143889 GACTTCCCATTGATCCCTCCC 59.856 57.143 0.00 0.00 0.00 4.30
760 775 1.846439 TGACTTCCCATTGATCCCTCC 59.154 52.381 0.00 0.00 0.00 4.30
764 779 2.239654 TCACCTGACTTCCCATTGATCC 59.760 50.000 0.00 0.00 0.00 3.36
765 780 3.634397 TCACCTGACTTCCCATTGATC 57.366 47.619 0.00 0.00 0.00 2.92
766 781 4.387026 TTTCACCTGACTTCCCATTGAT 57.613 40.909 0.00 0.00 0.00 2.57
767 782 3.874383 TTTCACCTGACTTCCCATTGA 57.126 42.857 0.00 0.00 0.00 2.57
769 784 2.827921 GCATTTCACCTGACTTCCCATT 59.172 45.455 0.00 0.00 0.00 3.16
772 787 2.087646 GAGCATTTCACCTGACTTCCC 58.912 52.381 0.00 0.00 0.00 3.97
774 789 2.746362 CCTGAGCATTTCACCTGACTTC 59.254 50.000 0.00 0.00 0.00 3.01
776 791 1.980765 TCCTGAGCATTTCACCTGACT 59.019 47.619 0.00 0.00 0.00 3.41
777 792 2.027745 TCTCCTGAGCATTTCACCTGAC 60.028 50.000 0.00 0.00 0.00 3.51
778 793 2.259917 TCTCCTGAGCATTTCACCTGA 58.740 47.619 0.00 0.00 0.00 3.86
779 794 2.775911 TCTCCTGAGCATTTCACCTG 57.224 50.000 0.00 0.00 0.00 4.00
780 795 3.795688 TTTCTCCTGAGCATTTCACCT 57.204 42.857 0.00 0.00 0.00 4.00
781 796 3.569701 TGTTTTCTCCTGAGCATTTCACC 59.430 43.478 0.00 0.00 0.00 4.02
782 797 4.276926 ACTGTTTTCTCCTGAGCATTTCAC 59.723 41.667 0.00 0.00 0.00 3.18
783 798 4.464008 ACTGTTTTCTCCTGAGCATTTCA 58.536 39.130 0.00 0.00 0.00 2.69
784 799 4.516698 TGACTGTTTTCTCCTGAGCATTTC 59.483 41.667 0.00 0.00 0.00 2.17
785 800 4.464008 TGACTGTTTTCTCCTGAGCATTT 58.536 39.130 0.00 0.00 0.00 2.32
786 801 4.090761 TGACTGTTTTCTCCTGAGCATT 57.909 40.909 0.00 0.00 0.00 3.56
787 802 3.777106 TGACTGTTTTCTCCTGAGCAT 57.223 42.857 0.00 0.00 0.00 3.79
789 804 4.900635 TTTTGACTGTTTTCTCCTGAGC 57.099 40.909 0.00 0.00 0.00 4.26
810 825 2.593026 TGTTTCCTCCGGAGCATTTTT 58.407 42.857 26.87 0.00 31.21 1.94
812 827 2.286365 TTGTTTCCTCCGGAGCATTT 57.714 45.000 26.87 0.00 31.21 2.32
813 828 2.514458 ATTGTTTCCTCCGGAGCATT 57.486 45.000 26.87 11.61 31.21 3.56
814 829 2.514458 AATTGTTTCCTCCGGAGCAT 57.486 45.000 26.87 7.25 31.21 3.79
815 830 3.644966 ATAATTGTTTCCTCCGGAGCA 57.355 42.857 26.87 15.52 31.21 4.26
816 831 4.640647 AGAAATAATTGTTTCCTCCGGAGC 59.359 41.667 26.87 12.87 38.55 4.70
817 832 6.759497 AAGAAATAATTGTTTCCTCCGGAG 57.241 37.500 25.36 25.36 38.55 4.63
818 833 7.533289 AAAAGAAATAATTGTTTCCTCCGGA 57.467 32.000 20.24 2.93 38.55 5.14
820 835 9.476202 AAGAAAAAGAAATAATTGTTTCCTCCG 57.524 29.630 20.24 0.00 38.55 4.63
844 859 8.947940 CGAAATGACTGTTTTCTCAACTTAAAG 58.052 33.333 4.11 0.00 32.18 1.85
845 860 8.670135 TCGAAATGACTGTTTTCTCAACTTAAA 58.330 29.630 4.11 0.00 32.18 1.52
846 861 8.203937 TCGAAATGACTGTTTTCTCAACTTAA 57.796 30.769 4.11 0.00 32.18 1.85
847 862 7.780008 TCGAAATGACTGTTTTCTCAACTTA 57.220 32.000 4.11 0.00 32.18 2.24
848 863 6.677781 TCGAAATGACTGTTTTCTCAACTT 57.322 33.333 4.11 0.00 32.18 2.66
850 865 7.742089 CAGTATCGAAATGACTGTTTTCTCAAC 59.258 37.037 10.38 0.57 36.62 3.18
851 866 7.571244 GCAGTATCGAAATGACTGTTTTCTCAA 60.571 37.037 16.60 0.00 42.14 3.02
852 867 6.128553 GCAGTATCGAAATGACTGTTTTCTCA 60.129 38.462 16.60 0.00 42.14 3.27
866 881 5.407084 TCATCGTTTTTCAGCAGTATCGAAA 59.593 36.000 0.00 0.00 0.00 3.46
873 889 5.619981 GCCTAAATCATCGTTTTTCAGCAGT 60.620 40.000 0.00 0.00 0.00 4.40
874 890 4.795278 GCCTAAATCATCGTTTTTCAGCAG 59.205 41.667 0.00 0.00 0.00 4.24
953 971 6.993786 TTATGCTTTTCCACGATGATTACA 57.006 33.333 0.00 0.00 0.00 2.41
1029 1072 1.144936 CAGGCAGATCGGGAGAACC 59.855 63.158 0.00 0.00 45.37 3.62
1032 1075 1.680522 GAAGCAGGCAGATCGGGAGA 61.681 60.000 0.00 0.00 46.90 3.71
1173 1216 2.265739 GCGAGATGGTGCAGGTGA 59.734 61.111 0.00 0.00 0.00 4.02
1329 1378 4.388499 GGCCTGGACGCGAAGGAA 62.388 66.667 24.48 2.27 35.40 3.36
1443 3197 1.107114 GGGAGCTGAAGATCTCGACA 58.893 55.000 0.00 0.00 0.00 4.35
1645 3407 0.540923 AGTCCCTCTTGCAGCATCTC 59.459 55.000 0.00 0.00 0.00 2.75
2673 4519 6.386927 AGGATCAACAAATATAGGTCACCTCA 59.613 38.462 0.00 0.00 34.61 3.86
2674 4520 6.708054 CAGGATCAACAAATATAGGTCACCTC 59.292 42.308 0.00 0.00 34.61 3.85
2675 4521 6.158695 ACAGGATCAACAAATATAGGTCACCT 59.841 38.462 0.00 0.00 37.71 4.00
2677 4523 6.238484 GCACAGGATCAACAAATATAGGTCAC 60.238 42.308 0.00 0.00 0.00 3.67
2678 4524 5.822519 GCACAGGATCAACAAATATAGGTCA 59.177 40.000 0.00 0.00 0.00 4.02
2679 4525 5.822519 TGCACAGGATCAACAAATATAGGTC 59.177 40.000 0.00 0.00 0.00 3.85
2680 4526 5.754782 TGCACAGGATCAACAAATATAGGT 58.245 37.500 0.00 0.00 0.00 3.08
2702 4548 2.355756 CGGTGATGGGCTAATCAACTTG 59.644 50.000 14.07 0.39 41.32 3.16
2703 4549 2.026262 ACGGTGATGGGCTAATCAACTT 60.026 45.455 14.07 5.04 41.32 2.66
2720 4566 1.430228 GTTTGTTTCACGCCACGGT 59.570 52.632 0.00 0.00 0.00 4.83
2721 4567 1.652930 CGTTTGTTTCACGCCACGG 60.653 57.895 0.00 0.00 0.00 4.94
2722 4568 1.652930 CCGTTTGTTTCACGCCACG 60.653 57.895 0.00 0.00 36.27 4.94
2723 4569 0.179158 AACCGTTTGTTTCACGCCAC 60.179 50.000 0.00 0.00 36.27 5.01
2724 4570 0.526662 AAACCGTTTGTTTCACGCCA 59.473 45.000 0.00 0.00 43.74 5.69
2725 4571 3.332421 AAACCGTTTGTTTCACGCC 57.668 47.368 0.00 0.00 43.74 5.68
2739 4585 3.072211 CCTACTTTTCCGGAGTGAAACC 58.928 50.000 3.34 0.00 37.80 3.27
2740 4586 3.999046 TCCTACTTTTCCGGAGTGAAAC 58.001 45.455 3.34 0.00 34.13 2.78
2741 4587 4.619863 CGATCCTACTTTTCCGGAGTGAAA 60.620 45.833 3.34 1.41 32.60 2.69
2742 4588 3.119245 CGATCCTACTTTTCCGGAGTGAA 60.119 47.826 3.34 0.24 0.00 3.18
2743 4589 2.426024 CGATCCTACTTTTCCGGAGTGA 59.574 50.000 3.34 0.00 0.00 3.41
2744 4590 2.810650 CGATCCTACTTTTCCGGAGTG 58.189 52.381 3.34 1.21 0.00 3.51
2745 4591 1.136500 GCGATCCTACTTTTCCGGAGT 59.864 52.381 3.34 1.44 0.00 3.85
2777 4623 2.436824 GCCACCGGCTCCTCTTTC 60.437 66.667 0.00 0.00 46.69 2.62
2808 4667 2.003658 GAGCAGCCGACAGAGAGAGG 62.004 65.000 0.00 0.00 0.00 3.69
2839 4698 0.827368 GACCCGATGCTCCTTCTTCT 59.173 55.000 0.00 0.00 0.00 2.85
2844 4703 1.617947 GGACAGACCCGATGCTCCTT 61.618 60.000 0.00 0.00 0.00 3.36
2873 4732 4.263331 CCTCAAACTAACCCTACCACACAT 60.263 45.833 0.00 0.00 0.00 3.21
2890 4751 2.281484 GGCAGCGTCACCCTCAAA 60.281 61.111 0.00 0.00 0.00 2.69
2964 4829 0.942252 GACGAAGGCAAAAACCTCGT 59.058 50.000 7.46 7.46 42.36 4.18
3012 4877 2.403987 CGCGACCTCGACGAGAAT 59.596 61.111 26.11 13.53 43.02 2.40
3013 4878 3.796443 CCGCGACCTCGACGAGAA 61.796 66.667 26.11 0.00 43.02 2.87
3079 4944 1.664017 CTCCTGCATCCATCGCTCG 60.664 63.158 0.00 0.00 0.00 5.03
3081 4946 1.445095 GTCTCCTGCATCCATCGCT 59.555 57.895 0.00 0.00 0.00 4.93
3104 4970 0.440371 CGACAAGGAAGAAGAAGCGC 59.560 55.000 0.00 0.00 0.00 5.92
3136 5002 5.312079 CAGAGGAAGGAGAAGAACAACAAT 58.688 41.667 0.00 0.00 0.00 2.71
3268 5140 3.420893 CCATCTTTGGCTTTGAGTACCA 58.579 45.455 0.00 0.00 35.85 3.25
3295 5167 1.102809 TCCAACACAGCTGCAACAGG 61.103 55.000 15.27 9.98 31.21 4.00
3465 5337 2.376228 GAAGATCTCCGGAGCCCTGC 62.376 65.000 27.39 19.13 0.00 4.85
3487 5359 4.385977 GGTACCCTAAGCCAACCATAACAT 60.386 45.833 0.00 0.00 0.00 2.71
3630 5502 1.202348 GAGCACGCTGGGCTAATTTTT 59.798 47.619 5.29 0.00 42.78 1.94
3631 5503 0.811281 GAGCACGCTGGGCTAATTTT 59.189 50.000 5.29 0.00 42.78 1.82
3632 5504 0.322456 TGAGCACGCTGGGCTAATTT 60.322 50.000 5.29 0.00 42.78 1.82
3633 5505 0.107017 ATGAGCACGCTGGGCTAATT 60.107 50.000 5.29 0.00 42.78 1.40
3634 5506 0.533755 GATGAGCACGCTGGGCTAAT 60.534 55.000 5.29 3.95 42.78 1.73
3635 5507 1.153369 GATGAGCACGCTGGGCTAA 60.153 57.895 5.29 0.00 42.78 3.09
3636 5508 2.501128 GATGAGCACGCTGGGCTA 59.499 61.111 5.29 0.00 42.78 3.93
3637 5509 4.479993 GGATGAGCACGCTGGGCT 62.480 66.667 4.97 4.97 46.07 5.19
3639 5511 4.457496 ACGGATGAGCACGCTGGG 62.457 66.667 0.00 0.00 0.00 4.45
3640 5512 3.190849 CACGGATGAGCACGCTGG 61.191 66.667 0.00 0.00 0.00 4.85
3641 5513 3.857854 GCACGGATGAGCACGCTG 61.858 66.667 0.00 0.00 0.00 5.18
3642 5514 3.596066 AAGCACGGATGAGCACGCT 62.596 57.895 0.00 0.00 33.73 5.07
3643 5515 2.680913 AAAGCACGGATGAGCACGC 61.681 57.895 0.00 0.00 33.73 5.34
3644 5516 1.133253 CAAAGCACGGATGAGCACG 59.867 57.895 0.00 0.00 33.73 5.34
3645 5517 0.874390 TTCAAAGCACGGATGAGCAC 59.126 50.000 0.00 0.00 33.73 4.40
3646 5518 1.825090 ATTCAAAGCACGGATGAGCA 58.175 45.000 0.00 0.00 33.73 4.26
3647 5519 2.162208 TGAATTCAAAGCACGGATGAGC 59.838 45.455 5.45 0.00 0.00 4.26
3648 5520 3.426695 GGTGAATTCAAAGCACGGATGAG 60.427 47.826 10.35 0.00 33.48 2.90
3649 5521 2.487762 GGTGAATTCAAAGCACGGATGA 59.512 45.455 10.35 0.00 33.48 2.92
3650 5522 2.728846 CGGTGAATTCAAAGCACGGATG 60.729 50.000 10.35 0.00 35.63 3.51
3651 5523 1.468520 CGGTGAATTCAAAGCACGGAT 59.531 47.619 10.35 0.00 35.63 4.18
3652 5524 0.871722 CGGTGAATTCAAAGCACGGA 59.128 50.000 10.35 0.00 35.63 4.69
3653 5525 0.109781 CCGGTGAATTCAAAGCACGG 60.110 55.000 10.35 14.52 33.48 4.94
3654 5526 0.591170 ACCGGTGAATTCAAAGCACG 59.409 50.000 6.12 9.74 33.48 5.34
3655 5527 1.068541 GGACCGGTGAATTCAAAGCAC 60.069 52.381 14.63 0.00 0.00 4.40
3656 5528 1.243902 GGACCGGTGAATTCAAAGCA 58.756 50.000 14.63 0.00 0.00 3.91
3657 5529 0.168128 CGGACCGGTGAATTCAAAGC 59.832 55.000 14.63 0.00 0.00 3.51
3658 5530 0.168128 GCGGACCGGTGAATTCAAAG 59.832 55.000 14.63 7.06 0.00 2.77
3659 5531 0.250553 AGCGGACCGGTGAATTCAAA 60.251 50.000 19.53 0.00 35.85 2.69
3660 5532 1.373435 AGCGGACCGGTGAATTCAA 59.627 52.632 19.53 0.00 35.85 2.69
3661 5533 3.065306 AGCGGACCGGTGAATTCA 58.935 55.556 19.53 3.38 35.85 2.57
3679 5551 2.065906 GAGTCCAGCGGATCGAGTCC 62.066 65.000 0.67 0.00 44.10 3.85
3680 5552 1.357334 GAGTCCAGCGGATCGAGTC 59.643 63.158 0.67 0.00 32.73 3.36
3681 5553 2.473760 CGAGTCCAGCGGATCGAGT 61.474 63.158 16.32 0.00 36.00 4.18
3682 5554 1.511318 ATCGAGTCCAGCGGATCGAG 61.511 60.000 22.24 9.79 41.24 4.04
3683 5555 1.526225 ATCGAGTCCAGCGGATCGA 60.526 57.895 21.22 21.22 41.70 3.59
3684 5556 1.371022 CATCGAGTCCAGCGGATCG 60.371 63.158 15.73 15.73 35.61 3.69
3685 5557 0.952280 TACATCGAGTCCAGCGGATC 59.048 55.000 0.67 0.00 32.73 3.36
3686 5558 0.955178 CTACATCGAGTCCAGCGGAT 59.045 55.000 0.67 0.00 32.73 4.18
3687 5559 1.101635 CCTACATCGAGTCCAGCGGA 61.102 60.000 0.00 0.00 0.00 5.54
3688 5560 1.360551 CCTACATCGAGTCCAGCGG 59.639 63.158 0.00 0.00 0.00 5.52
3689 5561 1.002684 GTACCTACATCGAGTCCAGCG 60.003 57.143 0.00 0.00 0.00 5.18
3690 5562 1.337387 GGTACCTACATCGAGTCCAGC 59.663 57.143 4.06 0.00 0.00 4.85
3691 5563 1.602851 CGGTACCTACATCGAGTCCAG 59.397 57.143 10.90 0.00 0.00 3.86
3692 5564 1.671979 CGGTACCTACATCGAGTCCA 58.328 55.000 10.90 0.00 0.00 4.02
3693 5565 0.310232 GCGGTACCTACATCGAGTCC 59.690 60.000 10.90 0.00 0.00 3.85
3694 5566 0.310232 GGCGGTACCTACATCGAGTC 59.690 60.000 10.90 0.00 34.51 3.36
3695 5567 1.442526 CGGCGGTACCTACATCGAGT 61.443 60.000 10.90 0.00 35.61 4.18
3696 5568 1.281960 CGGCGGTACCTACATCGAG 59.718 63.158 10.90 0.00 35.61 4.04
3697 5569 1.451927 ACGGCGGTACCTACATCGA 60.452 57.895 13.24 0.00 35.61 3.59
3698 5570 1.298863 CACGGCGGTACCTACATCG 60.299 63.158 13.24 8.72 35.61 3.84
3699 5571 0.248784 GACACGGCGGTACCTACATC 60.249 60.000 13.24 0.00 35.61 3.06
3700 5572 1.811860 GACACGGCGGTACCTACAT 59.188 57.895 13.24 0.00 35.61 2.29
3701 5573 2.689785 CGACACGGCGGTACCTACA 61.690 63.158 13.24 0.00 35.61 2.74
3702 5574 2.100991 CGACACGGCGGTACCTAC 59.899 66.667 13.24 1.41 35.61 3.18
3703 5575 1.922135 GAACGACACGGCGGTACCTA 61.922 60.000 13.24 0.00 35.61 3.08
3704 5576 3.273080 GAACGACACGGCGGTACCT 62.273 63.158 13.24 0.00 35.61 3.08
3705 5577 2.806621 GAACGACACGGCGGTACC 60.807 66.667 13.24 0.16 35.12 3.34
3706 5578 3.167945 CGAACGACACGGCGGTAC 61.168 66.667 13.24 0.15 35.12 3.34
3712 5584 3.103911 GTCCAGCGAACGACACGG 61.104 66.667 0.00 0.00 0.00 4.94
3713 5585 0.455464 TATGTCCAGCGAACGACACG 60.455 55.000 0.00 0.00 41.56 4.49
3714 5586 1.852895 GATATGTCCAGCGAACGACAC 59.147 52.381 0.00 0.00 41.56 3.67
3715 5587 1.202371 GGATATGTCCAGCGAACGACA 60.202 52.381 3.16 2.04 44.42 4.35
3716 5588 1.488527 GGATATGTCCAGCGAACGAC 58.511 55.000 3.16 0.00 44.42 4.34
3717 5589 3.959478 GGATATGTCCAGCGAACGA 57.041 52.632 3.16 0.00 44.42 3.85
3726 5598 3.375299 GGCGCATCAAATAGGATATGTCC 59.625 47.826 10.83 0.00 45.45 4.02
3727 5599 3.375299 GGGCGCATCAAATAGGATATGTC 59.625 47.826 10.83 0.00 0.00 3.06
3728 5600 3.347216 GGGCGCATCAAATAGGATATGT 58.653 45.455 10.83 0.00 0.00 2.29
3729 5601 2.352651 CGGGCGCATCAAATAGGATATG 59.647 50.000 10.83 0.00 0.00 1.78
3730 5602 2.236146 TCGGGCGCATCAAATAGGATAT 59.764 45.455 10.83 0.00 0.00 1.63
3731 5603 1.621317 TCGGGCGCATCAAATAGGATA 59.379 47.619 10.83 0.00 0.00 2.59
3732 5604 0.396435 TCGGGCGCATCAAATAGGAT 59.604 50.000 10.83 0.00 0.00 3.24
3733 5605 1.826709 TCGGGCGCATCAAATAGGA 59.173 52.632 10.83 0.00 0.00 2.94
3734 5606 4.454948 TCGGGCGCATCAAATAGG 57.545 55.556 10.83 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.