Multiple sequence alignment - TraesCS7A01G396100

Loading Multiple Alignment...

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 TraesCS7A01G396100 chr7A 100.000 3572 0 0 1 3572 574677228 574680799 0.000000e+00 6597
1 TraesCS7A01G396100 chr7A 88.356 584 64 4 2 583 130498934 130499515 0.000000e+00 699
2 TraesCS7A01G396100 chr7A 100.000 349 0 0 3858 4206 574681085 574681433 0.000000e+00 645
3 TraesCS7A01G396100 chr7A 80.256 780 128 18 1943 2714 574747806 574748567 7.890000e-157 564
4 TraesCS7A01G396100 chr7A 89.121 239 26 0 1365 1603 574746522 574746760 8.840000e-77 298
5 TraesCS7A01G396100 chr7A 89.121 239 22 1 1682 1916 574747162 574747400 1.140000e-75 294
6 TraesCS7A01G396100 chr7A 85.714 266 29 4 3053 3310 574748851 574749115 5.360000e-69 272
7 TraesCS7A01G396100 chr7A 81.553 309 43 11 3020 3316 574127409 574127715 4.200000e-60 243
8 TraesCS7A01G396100 chr7A 84.836 244 28 5 1003 1244 574745954 574746190 1.950000e-58 237
9 TraesCS7A01G396100 chr7A 86.010 193 26 1 1398 1590 574115702 574115893 5.510000e-49 206
10 TraesCS7A01G396100 chr7A 85.427 199 27 2 1714 1911 574116268 574116465 5.510000e-49 206
11 TraesCS7A01G396100 chr7A 87.931 174 10 5 974 1138 574115164 574115335 1.190000e-45 195
12 TraesCS7A01G396100 chr7A 85.000 180 27 0 2050 2229 574126374 574126553 2.580000e-42 183
13 TraesCS7A01G396100 chr7A 87.662 154 11 5 3077 3224 21447835 21447986 5.590000e-39 172
14 TraesCS7A01G396100 chr7B 93.532 1206 51 10 1609 2795 535449843 535451040 0.000000e+00 1770
15 TraesCS7A01G396100 chr7B 91.268 710 42 11 2870 3571 535451049 535451746 0.000000e+00 950
16 TraesCS7A01G396100 chr7B 89.645 676 36 17 957 1613 535449130 535449790 0.000000e+00 830
17 TraesCS7A01G396100 chr7B 81.081 777 128 13 1943 2714 535503028 535503790 1.670000e-168 603
18 TraesCS7A01G396100 chr7B 88.400 250 25 1 1682 1927 535502383 535502632 8.840000e-77 298
19 TraesCS7A01G396100 chr7B 83.391 289 37 6 3059 3339 535504091 535504376 1.500000e-64 257
20 TraesCS7A01G396100 chr7B 81.494 308 45 8 3020 3316 535259515 535259821 4.200000e-60 243
21 TraesCS7A01G396100 chr7B 82.971 276 28 13 973 1244 535500486 535500746 9.090000e-57 231
22 TraesCS7A01G396100 chr7B 92.029 138 7 3 785 919 535433611 535433747 1.540000e-44 191
23 TraesCS7A01G396100 chr7B 81.513 238 21 9 3992 4206 535451863 535452100 1.550000e-39 174
24 TraesCS7A01G396100 chr7B 86.364 154 10 4 659 801 535433444 535433597 1.570000e-34 158
25 TraesCS7A01G396100 chr7B 83.333 90 5 1 3919 3998 535451762 535451851 1.620000e-09 75
26 TraesCS7A01G396100 chr7D 92.644 1074 56 12 1682 2738 506812993 506814060 0.000000e+00 1524
27 TraesCS7A01G396100 chr7D 90.686 612 32 8 2958 3567 506814063 506814651 0.000000e+00 791
28 TraesCS7A01G396100 chr7D 89.626 588 60 1 4 590 168429002 168428415 0.000000e+00 747
29 TraesCS7A01G396100 chr7D 89.402 585 57 5 4 583 539759035 539758451 0.000000e+00 732
30 TraesCS7A01G396100 chr7D 88.571 595 52 11 4 583 572273220 572273813 0.000000e+00 708
31 TraesCS7A01G396100 chr7D 81.290 775 125 12 1943 2714 506873729 506874486 1.000000e-170 610
32 TraesCS7A01G396100 chr7D 92.758 359 16 1 3858 4206 506814679 506815037 1.040000e-140 510
33 TraesCS7A01G396100 chr7D 93.750 240 12 1 1364 1603 506811904 506812140 1.440000e-94 357
34 TraesCS7A01G396100 chr7D 89.407 236 19 1 1707 1936 506873117 506873352 4.110000e-75 292
35 TraesCS7A01G396100 chr7D 88.235 238 28 0 1363 1600 506872450 506872687 6.880000e-73 285
36 TraesCS7A01G396100 chr7D 83.721 301 36 7 3020 3310 506874734 506875031 5.360000e-69 272
37 TraesCS7A01G396100 chr7D 76.578 602 76 37 662 1228 506811303 506811874 1.930000e-68 270
38 TraesCS7A01G396100 chr7D 83.333 276 30 12 973 1244 506871796 506872059 1.510000e-59 241
39 TraesCS7A01G396100 chr7D 83.032 277 32 11 3020 3284 506723022 506723295 1.950000e-58 237
40 TraesCS7A01G396100 chr7D 87.709 179 13 5 969 1138 506719488 506719666 2.560000e-47 200
41 TraesCS7A01G396100 chr7D 85.556 180 26 0 2050 2229 506722071 506722250 5.550000e-44 189
42 TraesCS7A01G396100 chr7D 85.088 114 12 3 1033 1146 506675098 506675206 1.240000e-20 111
43 TraesCS7A01G396100 chr4D 91.222 581 50 1 4 583 29640384 29639804 0.000000e+00 789
44 TraesCS7A01G396100 chr4D 87.162 592 53 17 10 587 391024268 391024850 0.000000e+00 651
45 TraesCS7A01G396100 chr5D 88.127 598 55 12 4 586 305194468 305193872 0.000000e+00 697
46 TraesCS7A01G396100 chr3D 87.223 587 70 4 4 589 32391938 32391356 0.000000e+00 664
47 TraesCS7A01G396100 chr2D 87.119 590 61 13 4 583 430012886 430012302 0.000000e+00 654
48 TraesCS7A01G396100 chr5A 84.541 207 29 3 2050 2255 602786112 602786316 7.130000e-48 202
49 TraesCS7A01G396100 chr5A 84.541 207 29 3 2050 2255 602810352 602810556 7.130000e-48 202
50 TraesCS7A01G396100 chr5A 83.486 109 15 2 1031 1139 478993111 478993006 9.620000e-17 99


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 TraesCS7A01G396100 chr7A 574677228 574681433 4205 False 3621.000000 6597 100.000000 1 4206 2 chr7A.!!$F5 4205
1 TraesCS7A01G396100 chr7A 130498934 130499515 581 False 699.000000 699 88.356000 2 583 1 chr7A.!!$F2 581
2 TraesCS7A01G396100 chr7A 574745954 574749115 3161 False 333.000000 564 85.809600 1003 3310 5 chr7A.!!$F6 2307
3 TraesCS7A01G396100 chr7A 574126374 574127715 1341 False 213.000000 243 83.276500 2050 3316 2 chr7A.!!$F4 1266
4 TraesCS7A01G396100 chr7A 574115164 574116465 1301 False 202.333333 206 86.456000 974 1911 3 chr7A.!!$F3 937
5 TraesCS7A01G396100 chr7B 535449130 535452100 2970 False 759.800000 1770 87.858200 957 4206 5 chr7B.!!$F3 3249
6 TraesCS7A01G396100 chr7B 535500486 535504376 3890 False 347.250000 603 83.960750 973 3339 4 chr7B.!!$F4 2366
7 TraesCS7A01G396100 chr7D 168428415 168429002 587 True 747.000000 747 89.626000 4 590 1 chr7D.!!$R1 586
8 TraesCS7A01G396100 chr7D 539758451 539759035 584 True 732.000000 732 89.402000 4 583 1 chr7D.!!$R2 579
9 TraesCS7A01G396100 chr7D 572273220 572273813 593 False 708.000000 708 88.571000 4 583 1 chr7D.!!$F2 579
10 TraesCS7A01G396100 chr7D 506811303 506815037 3734 False 690.400000 1524 89.283200 662 4206 5 chr7D.!!$F4 3544
11 TraesCS7A01G396100 chr7D 506871796 506875031 3235 False 340.000000 610 85.197200 973 3310 5 chr7D.!!$F5 2337
12 TraesCS7A01G396100 chr7D 506719488 506723295 3807 False 208.666667 237 85.432333 969 3284 3 chr7D.!!$F3 2315
13 TraesCS7A01G396100 chr4D 29639804 29640384 580 True 789.000000 789 91.222000 4 583 1 chr4D.!!$R1 579
14 TraesCS7A01G396100 chr4D 391024268 391024850 582 False 651.000000 651 87.162000 10 587 1 chr4D.!!$F1 577
15 TraesCS7A01G396100 chr5D 305193872 305194468 596 True 697.000000 697 88.127000 4 586 1 chr5D.!!$R1 582
16 TraesCS7A01G396100 chr3D 32391356 32391938 582 True 664.000000 664 87.223000 4 589 1 chr3D.!!$R1 585
17 TraesCS7A01G396100 chr2D 430012302 430012886 584 True 654.000000 654 87.119000 4 583 1 chr2D.!!$R1 579

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
919 979 0.027063 ACGCGCACTACAAAACACAC 59.973 50.0 5.73 0.0 0.00 3.82 F
933 993 0.105408 ACACACTTACCACGACCACC 59.895 55.0 0.00 0.0 0.00 4.61 F
1375 2453 0.827507 AAGGGTTGTGATGGTGGTGC 60.828 55.0 0.00 0.0 0.00 5.01 F
2020 5148 1.140312 TCCTTGCTATGGATGACCCC 58.860 55.0 0.00 0.0 34.81 4.95 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2147 5276 0.404040 TCAAGGGGCCAAGTACCAAG 59.596 55.000 4.39 0.0 0.0 3.61 R
2798 6093 1.005097 TCCAGGTGATGCTGAATTGCT 59.995 47.619 0.00 0.0 0.0 3.91 R
2803 6098 1.202915 TGCTTTCCAGGTGATGCTGAA 60.203 47.619 0.00 0.0 0.0 3.02 R
3964 7328 0.593128 GACTTGTTGTGGCGAGCAAT 59.407 50.000 0.00 0.0 0.0 3.56 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
41 43 0.889186 GTGATGTTGAACGGGGCAGT 60.889 55.000 0.00 0.00 0.00 4.40
42 44 0.888736 TGATGTTGAACGGGGCAGTG 60.889 55.000 0.00 0.00 0.00 3.66
207 232 0.543410 TCGAGGCTAGGGTTTGGTGA 60.543 55.000 0.00 0.00 0.00 4.02
211 236 1.710809 AGGCTAGGGTTTGGTGATGTT 59.289 47.619 0.00 0.00 0.00 2.71
260 288 4.338539 AGTGTGGACGACGACCGC 62.339 66.667 20.57 20.57 43.32 5.68
352 380 2.823593 CGCATTGATGTGGGCGGA 60.824 61.111 0.00 0.00 45.27 5.54
550 580 2.281208 CTCAAACGAACGGGGCCA 60.281 61.111 4.39 0.00 0.00 5.36
596 626 2.194326 GCCTCATGCCCCCTCTTC 59.806 66.667 0.00 0.00 0.00 2.87
597 627 2.381941 GCCTCATGCCCCCTCTTCT 61.382 63.158 0.00 0.00 0.00 2.85
598 628 1.931007 GCCTCATGCCCCCTCTTCTT 61.931 60.000 0.00 0.00 0.00 2.52
599 629 0.182299 CCTCATGCCCCCTCTTCTTC 59.818 60.000 0.00 0.00 0.00 2.87
600 630 0.914644 CTCATGCCCCCTCTTCTTCA 59.085 55.000 0.00 0.00 0.00 3.02
601 631 0.914644 TCATGCCCCCTCTTCTTCAG 59.085 55.000 0.00 0.00 0.00 3.02
602 632 0.750911 CATGCCCCCTCTTCTTCAGC 60.751 60.000 0.00 0.00 0.00 4.26
603 633 1.210204 ATGCCCCCTCTTCTTCAGCA 61.210 55.000 0.00 0.00 0.00 4.41
604 634 1.077858 GCCCCCTCTTCTTCAGCAG 60.078 63.158 0.00 0.00 0.00 4.24
605 635 1.077858 CCCCCTCTTCTTCAGCAGC 60.078 63.158 0.00 0.00 0.00 5.25
606 636 1.077858 CCCCTCTTCTTCAGCAGCC 60.078 63.158 0.00 0.00 0.00 4.85
607 637 1.681666 CCCTCTTCTTCAGCAGCCA 59.318 57.895 0.00 0.00 0.00 4.75
608 638 0.392729 CCCTCTTCTTCAGCAGCCAG 60.393 60.000 0.00 0.00 0.00 4.85
609 639 0.324285 CCTCTTCTTCAGCAGCCAGT 59.676 55.000 0.00 0.00 0.00 4.00
610 640 1.440708 CTCTTCTTCAGCAGCCAGTG 58.559 55.000 0.00 0.00 0.00 3.66
611 641 0.035881 TCTTCTTCAGCAGCCAGTGG 59.964 55.000 4.20 4.20 0.00 4.00
612 642 0.035881 CTTCTTCAGCAGCCAGTGGA 59.964 55.000 15.20 0.00 0.00 4.02
613 643 0.694771 TTCTTCAGCAGCCAGTGGAT 59.305 50.000 15.20 2.47 0.00 3.41
614 644 0.035725 TCTTCAGCAGCCAGTGGATG 60.036 55.000 23.33 23.33 42.66 3.51
615 645 0.322277 CTTCAGCAGCCAGTGGATGT 60.322 55.000 27.33 12.39 41.69 3.06
616 646 0.111061 TTCAGCAGCCAGTGGATGTT 59.889 50.000 27.33 20.10 41.69 2.71
617 647 0.111061 TCAGCAGCCAGTGGATGTTT 59.889 50.000 27.33 14.21 41.69 2.83
618 648 0.963962 CAGCAGCCAGTGGATGTTTT 59.036 50.000 27.33 11.75 41.69 2.43
619 649 2.161855 CAGCAGCCAGTGGATGTTTTA 58.838 47.619 27.33 0.00 41.69 1.52
620 650 2.756760 CAGCAGCCAGTGGATGTTTTAT 59.243 45.455 27.33 7.26 41.69 1.40
621 651 3.194116 CAGCAGCCAGTGGATGTTTTATT 59.806 43.478 27.33 5.26 41.69 1.40
622 652 3.445096 AGCAGCCAGTGGATGTTTTATTC 59.555 43.478 27.33 9.82 41.69 1.75
623 653 3.445096 GCAGCCAGTGGATGTTTTATTCT 59.555 43.478 27.33 0.97 41.69 2.40
624 654 4.082026 GCAGCCAGTGGATGTTTTATTCTT 60.082 41.667 27.33 0.00 41.69 2.52
625 655 5.644644 CAGCCAGTGGATGTTTTATTCTTC 58.355 41.667 19.57 0.00 34.00 2.87
626 656 5.416952 CAGCCAGTGGATGTTTTATTCTTCT 59.583 40.000 19.57 0.00 34.00 2.85
627 657 6.012745 AGCCAGTGGATGTTTTATTCTTCTT 58.987 36.000 15.20 0.00 0.00 2.52
628 658 6.071728 AGCCAGTGGATGTTTTATTCTTCTTG 60.072 38.462 15.20 0.00 0.00 3.02
629 659 6.624423 CCAGTGGATGTTTTATTCTTCTTGG 58.376 40.000 1.68 0.00 0.00 3.61
630 660 6.209391 CCAGTGGATGTTTTATTCTTCTTGGT 59.791 38.462 1.68 0.00 0.00 3.67
631 661 7.255942 CCAGTGGATGTTTTATTCTTCTTGGTT 60.256 37.037 1.68 0.00 0.00 3.67
632 662 8.143835 CAGTGGATGTTTTATTCTTCTTGGTTT 58.856 33.333 0.00 0.00 0.00 3.27
633 663 8.704668 AGTGGATGTTTTATTCTTCTTGGTTTT 58.295 29.630 0.00 0.00 0.00 2.43
634 664 9.325198 GTGGATGTTTTATTCTTCTTGGTTTTT 57.675 29.630 0.00 0.00 0.00 1.94
666 696 9.939424 AGTTTATTACAGAGGGAGTAATACTCT 57.061 33.333 18.64 1.27 44.46 3.24
670 700 8.927675 ATTACAGAGGGAGTAATACTCTACTG 57.072 38.462 24.23 24.23 44.46 2.74
671 701 5.697067 ACAGAGGGAGTAATACTCTACTGG 58.303 45.833 26.62 18.65 44.46 4.00
672 702 5.194132 ACAGAGGGAGTAATACTCTACTGGT 59.806 44.000 26.62 19.04 44.46 4.00
680 710 7.177041 GGAGTAATACTCTACTGGTAATCCTGG 59.823 44.444 18.64 0.00 44.46 4.45
685 715 2.119495 CTACTGGTAATCCTGGCCTGT 58.881 52.381 3.32 6.03 37.95 4.00
689 719 1.032114 GGTAATCCTGGCCTGTGTGC 61.032 60.000 3.32 0.00 0.00 4.57
693 723 4.393155 CCTGGCCTGTGTGCGCTA 62.393 66.667 9.73 0.00 0.00 4.26
695 725 4.393155 TGGCCTGTGTGCGCTAGG 62.393 66.667 9.73 12.28 34.67 3.02
696 726 4.394712 GGCCTGTGTGCGCTAGGT 62.395 66.667 9.73 0.00 34.06 3.08
698 728 2.973899 CCTGTGTGCGCTAGGTCT 59.026 61.111 9.73 0.00 0.00 3.85
699 729 1.446792 CCTGTGTGCGCTAGGTCTG 60.447 63.158 9.73 0.00 0.00 3.51
700 730 1.290324 CTGTGTGCGCTAGGTCTGT 59.710 57.895 9.73 0.00 0.00 3.41
703 733 1.906333 TGTGCGCTAGGTCTGTCCA 60.906 57.895 9.73 0.00 39.02 4.02
707 737 0.108138 GCGCTAGGTCTGTCCATTGT 60.108 55.000 0.00 0.00 39.02 2.71
712 742 3.440522 GCTAGGTCTGTCCATTGTTTTCC 59.559 47.826 0.00 0.00 39.02 3.13
718 748 2.558359 CTGTCCATTGTTTTCCTCCACC 59.442 50.000 0.00 0.00 0.00 4.61
757 791 3.211865 TGTTATAGACGGAGACAGCGAT 58.788 45.455 0.00 0.00 0.00 4.58
759 793 1.968704 ATAGACGGAGACAGCGATGA 58.031 50.000 8.12 0.00 0.00 2.92
765 799 1.035923 GGAGACAGCGATGAGATGGA 58.964 55.000 8.12 0.00 41.32 3.41
767 801 2.468831 GAGACAGCGATGAGATGGAAC 58.531 52.381 8.12 0.00 41.32 3.62
772 806 0.528466 GCGATGAGATGGAACGAGCA 60.528 55.000 0.00 0.00 0.00 4.26
779 813 5.022282 TGAGATGGAACGAGCATTATGAA 57.978 39.130 0.00 0.00 0.00 2.57
783 817 4.794248 TGGAACGAGCATTATGAAATCG 57.206 40.909 11.40 11.40 39.22 3.34
787 821 5.006746 GGAACGAGCATTATGAAATCGAAGT 59.993 40.000 17.22 6.24 37.16 3.01
794 828 5.904080 GCATTATGAAATCGAAGTCTTTCCG 59.096 40.000 6.74 0.00 32.38 4.30
796 830 6.887376 TTATGAAATCGAAGTCTTTCCGAG 57.113 37.500 6.74 0.00 32.38 4.63
799 833 4.684703 TGAAATCGAAGTCTTTCCGAGAAC 59.315 41.667 6.74 0.00 35.79 3.01
804 838 4.083431 TCGAAGTCTTTCCGAGAACAGTAG 60.083 45.833 0.00 0.00 35.79 2.57
805 839 4.487019 GAAGTCTTTCCGAGAACAGTAGG 58.513 47.826 0.00 0.00 35.79 3.18
806 840 3.764218 AGTCTTTCCGAGAACAGTAGGA 58.236 45.455 0.00 0.00 35.79 2.94
807 841 3.759618 AGTCTTTCCGAGAACAGTAGGAG 59.240 47.826 0.00 0.00 35.79 3.69
825 878 2.510691 CGGTCGGGGGAATCGTTG 60.511 66.667 0.00 0.00 0.00 4.10
826 879 2.983791 GGTCGGGGGAATCGTTGA 59.016 61.111 0.00 0.00 0.00 3.18
827 880 1.525442 GGTCGGGGGAATCGTTGAT 59.475 57.895 0.00 0.00 0.00 2.57
828 881 0.107361 GGTCGGGGGAATCGTTGATT 60.107 55.000 0.00 0.00 34.71 2.57
831 884 0.461339 CGGGGGAATCGTTGATTCGT 60.461 55.000 12.05 0.00 46.47 3.85
832 885 1.746470 GGGGGAATCGTTGATTCGTT 58.254 50.000 12.05 0.00 46.47 3.85
833 886 2.089201 GGGGGAATCGTTGATTCGTTT 58.911 47.619 12.05 0.00 46.47 3.60
834 887 2.096980 GGGGGAATCGTTGATTCGTTTC 59.903 50.000 12.05 0.00 46.47 2.78
835 888 2.096980 GGGGAATCGTTGATTCGTTTCC 59.903 50.000 15.86 15.86 46.47 3.13
836 889 3.400505 GGAATCGTTGATTCGTTTCCC 57.599 47.619 12.05 0.00 46.47 3.97
837 890 2.745281 GGAATCGTTGATTCGTTTCCCA 59.255 45.455 12.05 0.00 46.47 4.37
838 891 3.189702 GGAATCGTTGATTCGTTTCCCAA 59.810 43.478 12.05 0.00 46.47 4.12
839 892 3.824414 ATCGTTGATTCGTTTCCCAAC 57.176 42.857 0.00 0.00 36.48 3.77
847 900 3.959975 GTTTCCCAACGCAGCGCA 61.960 61.111 16.61 0.00 0.00 6.09
848 901 3.659092 TTTCCCAACGCAGCGCAG 61.659 61.111 16.61 7.48 0.00 5.18
865 918 4.374702 GCGCGTGGCAAGACAGTG 62.375 66.667 8.43 0.00 42.87 3.66
866 919 2.967076 CGCGTGGCAAGACAGTGT 60.967 61.111 4.11 0.00 0.00 3.55
867 920 2.633657 GCGTGGCAAGACAGTGTG 59.366 61.111 0.00 0.00 0.00 3.82
868 921 2.633657 CGTGGCAAGACAGTGTGC 59.366 61.111 0.00 0.00 40.14 4.57
869 922 2.633657 GTGGCAAGACAGTGTGCG 59.366 61.111 0.00 0.00 41.85 5.34
870 923 2.180204 GTGGCAAGACAGTGTGCGT 61.180 57.895 0.00 0.00 41.85 5.24
871 924 2.179547 TGGCAAGACAGTGTGCGTG 61.180 57.895 0.00 2.50 41.85 5.34
872 925 2.633657 GCAAGACAGTGTGCGTGG 59.366 61.111 0.00 0.00 0.00 4.94
904 964 2.507992 CAAGCTCCTCCTCACGCG 60.508 66.667 3.53 3.53 0.00 6.01
919 979 0.027063 ACGCGCACTACAAAACACAC 59.973 50.000 5.73 0.00 0.00 3.82
921 981 1.267832 CGCGCACTACAAAACACACTT 60.268 47.619 8.75 0.00 0.00 3.16
922 982 2.033577 CGCGCACTACAAAACACACTTA 60.034 45.455 8.75 0.00 0.00 2.24
924 984 3.847105 GCGCACTACAAAACACACTTACC 60.847 47.826 0.30 0.00 0.00 2.85
925 985 3.310227 CGCACTACAAAACACACTTACCA 59.690 43.478 0.00 0.00 0.00 3.25
928 988 4.567558 CACTACAAAACACACTTACCACGA 59.432 41.667 0.00 0.00 0.00 4.35
930 990 2.679336 ACAAAACACACTTACCACGACC 59.321 45.455 0.00 0.00 0.00 4.79
931 991 2.678836 CAAAACACACTTACCACGACCA 59.321 45.455 0.00 0.00 0.00 4.02
932 992 1.944032 AACACACTTACCACGACCAC 58.056 50.000 0.00 0.00 0.00 4.16
933 993 0.105408 ACACACTTACCACGACCACC 59.895 55.000 0.00 0.00 0.00 4.61
934 994 0.942410 CACACTTACCACGACCACCG 60.942 60.000 0.00 0.00 45.44 4.94
958 1018 2.720758 CGCGCAGTGTGAGCAGTAC 61.721 63.158 8.75 0.00 43.53 2.73
971 1031 5.066634 TGTGAGCAGTACTAGAGCATAAGAC 59.933 44.000 6.47 0.00 0.00 3.01
972 1032 4.273724 TGAGCAGTACTAGAGCATAAGACG 59.726 45.833 6.47 0.00 0.00 4.18
975 1035 4.555116 GCAGTACTAGAGCATAAGACGGAC 60.555 50.000 0.00 0.00 0.00 4.79
981 1041 2.685897 AGAGCATAAGACGGACAGAGAC 59.314 50.000 0.00 0.00 0.00 3.36
1098 1183 1.695597 CCTCCTCTCCAAGCCCCAT 60.696 63.158 0.00 0.00 0.00 4.00
1170 1265 3.072468 TTCGATCCGACGGCCCTT 61.072 61.111 9.66 0.00 34.89 3.95
1173 1268 4.237207 GATCCGACGGCCCTTCCC 62.237 72.222 9.66 0.00 0.00 3.97
1234 1341 3.366476 ATCGGAGATCTATGCTTACGCAC 60.366 47.826 0.00 0.00 46.93 5.34
1265 1388 8.096621 TGTAGGGATTGGTCAATAGAATGTAA 57.903 34.615 0.00 0.00 0.00 2.41
1266 1389 8.723365 TGTAGGGATTGGTCAATAGAATGTAAT 58.277 33.333 0.00 0.00 0.00 1.89
1267 1390 9.003658 GTAGGGATTGGTCAATAGAATGTAATG 57.996 37.037 0.00 0.00 0.00 1.90
1268 1391 7.586349 AGGGATTGGTCAATAGAATGTAATGT 58.414 34.615 0.00 0.00 0.00 2.71
1269 1392 8.723365 AGGGATTGGTCAATAGAATGTAATGTA 58.277 33.333 0.00 0.00 0.00 2.29
1270 1393 9.003658 GGGATTGGTCAATAGAATGTAATGTAG 57.996 37.037 0.00 0.00 0.00 2.74
1293 1422 4.590850 AGTTGCTGAAAAATGAGAACCC 57.409 40.909 0.00 0.00 0.00 4.11
1306 1435 4.097551 TGAGAACCCAATGTTGACATGA 57.902 40.909 0.00 0.00 37.29 3.07
1309 1438 4.728772 AGAACCCAATGTTGACATGAAGA 58.271 39.130 0.00 0.00 37.29 2.87
1375 2453 0.827507 AAGGGTTGTGATGGTGGTGC 60.828 55.000 0.00 0.00 0.00 5.01
1590 2686 4.483950 TCCCGAGGTGATATTCTCAAGAT 58.516 43.478 0.00 0.00 35.07 2.40
1604 2700 4.051237 TCTCAAGATCACGTGTTTCACAG 58.949 43.478 16.51 10.44 33.40 3.66
1679 3484 4.555313 CGTGTGAGTGAGATGTGCAAATTT 60.555 41.667 0.00 0.00 0.00 1.82
1830 3815 1.334556 TCATGTGCTGCTGTGTTCAAC 59.665 47.619 0.00 0.00 0.00 3.18
1837 3822 2.606308 GCTGCTGTGTTCAACAATCCTG 60.606 50.000 0.00 0.00 38.67 3.86
1947 5063 3.312973 TGGTAAACCTTTGTGTGCTAACG 59.687 43.478 0.02 0.00 36.82 3.18
1955 5071 5.523916 ACCTTTGTGTGCTAACGATATGATC 59.476 40.000 0.00 0.00 0.00 2.92
2009 5137 5.938125 GGTCTCTTGTTGTAATTCCTTGCTA 59.062 40.000 0.00 0.00 0.00 3.49
2020 5148 1.140312 TCCTTGCTATGGATGACCCC 58.860 55.000 0.00 0.00 34.81 4.95
2022 5150 2.090210 TCCTTGCTATGGATGACCCCTA 60.090 50.000 0.00 0.00 34.81 3.53
2147 5276 5.221244 GGATGTTGTAGCCATTTTACCATCC 60.221 44.000 0.00 0.00 35.09 3.51
2299 5438 7.040201 ACACAAATGAGTCAATATTGCTCTGTT 60.040 33.333 26.14 20.75 34.58 3.16
2300 5439 7.811236 CACAAATGAGTCAATATTGCTCTGTTT 59.189 33.333 26.14 23.27 34.58 2.83
2301 5440 9.013229 ACAAATGAGTCAATATTGCTCTGTTTA 57.987 29.630 26.14 14.79 34.58 2.01
2424 5657 7.812669 AGTTGTTCAAAAGACCAAACTAGTTTG 59.187 33.333 32.52 32.52 46.93 2.93
2448 5682 9.742144 TTGGGCTTGTATATAGTTTTGTTTCTA 57.258 29.630 0.00 0.00 0.00 2.10
2531 5767 2.161012 TCTAGTGGACGTTCGTGATGTC 59.839 50.000 1.74 5.66 42.46 3.06
2764 6023 9.301897 CCCCTGAAAAGGAAGGATAAATATAAG 57.698 37.037 0.00 0.00 35.40 1.73
2797 6092 8.900983 ATCTTTTCCTGAGATAAGCAAGTATC 57.099 34.615 0.00 0.00 32.76 2.24
2798 6093 7.851228 TCTTTTCCTGAGATAAGCAAGTATCA 58.149 34.615 5.27 0.00 32.76 2.15
2799 6094 7.984050 TCTTTTCCTGAGATAAGCAAGTATCAG 59.016 37.037 5.27 0.00 32.76 2.90
2800 6095 5.207110 TCCTGAGATAAGCAAGTATCAGC 57.793 43.478 0.00 0.00 34.26 4.26
2801 6096 4.651045 TCCTGAGATAAGCAAGTATCAGCA 59.349 41.667 0.00 2.91 34.26 4.41
2802 6097 5.129320 TCCTGAGATAAGCAAGTATCAGCAA 59.871 40.000 0.00 0.00 34.26 3.91
2803 6098 5.996513 CCTGAGATAAGCAAGTATCAGCAAT 59.003 40.000 0.00 0.00 34.26 3.56
2826 6123 0.524862 GCATCACCTGGAAAGCACTG 59.475 55.000 0.00 0.00 32.63 3.66
2839 6136 0.706433 AGCACTGGAATGGGGATTGT 59.294 50.000 0.00 0.00 0.00 2.71
2840 6137 1.077663 AGCACTGGAATGGGGATTGTT 59.922 47.619 0.00 0.00 0.00 2.83
2841 6138 1.205417 GCACTGGAATGGGGATTGTTG 59.795 52.381 0.00 0.00 0.00 3.33
2842 6139 2.528564 CACTGGAATGGGGATTGTTGT 58.471 47.619 0.00 0.00 0.00 3.32
2843 6140 2.493278 CACTGGAATGGGGATTGTTGTC 59.507 50.000 0.00 0.00 0.00 3.18
2844 6141 2.109834 ACTGGAATGGGGATTGTTGTCA 59.890 45.455 0.00 0.00 0.00 3.58
2845 6142 3.245730 ACTGGAATGGGGATTGTTGTCAT 60.246 43.478 0.00 0.00 0.00 3.06
2846 6143 3.770933 CTGGAATGGGGATTGTTGTCATT 59.229 43.478 0.00 0.00 0.00 2.57
2847 6144 4.166539 TGGAATGGGGATTGTTGTCATTT 58.833 39.130 0.00 0.00 0.00 2.32
2848 6145 4.020396 TGGAATGGGGATTGTTGTCATTTG 60.020 41.667 0.00 0.00 0.00 2.32
2849 6146 4.020307 GGAATGGGGATTGTTGTCATTTGT 60.020 41.667 0.00 0.00 0.00 2.83
2855 6152 5.639082 GGGGATTGTTGTCATTTGTCAAATC 59.361 40.000 7.87 0.00 0.00 2.17
2982 6309 9.887189 CACGATATCATAAAATGCTTACGATAC 57.113 33.333 3.12 0.00 0.00 2.24
2987 6314 7.773864 TCATAAAATGCTTACGATACGGAAA 57.226 32.000 0.00 0.00 0.00 3.13
2994 6321 6.822667 TGCTTACGATACGGAAATATCCTA 57.177 37.500 0.00 0.00 44.17 2.94
2997 6324 6.746364 GCTTACGATACGGAAATATCCTACTG 59.254 42.308 0.00 0.00 44.17 2.74
3047 6374 2.687935 CCATACTTAACTTGGGCGCAAT 59.312 45.455 17.30 5.73 0.00 3.56
3057 6389 0.895100 TGGGCGCAATTTGCTCTCTT 60.895 50.000 18.57 0.00 42.25 2.85
3206 6545 2.942752 GCATCTGGCATCCTGAACTGAA 60.943 50.000 0.00 0.00 43.97 3.02
3287 6632 6.020995 GTGAAACAAAATAAGTTGGTGACACG 60.021 38.462 0.00 0.00 36.95 4.49
3428 6773 6.204688 TGTGATTACTGAACCTGTTAAAGCAG 59.795 38.462 0.00 0.00 36.31 4.24
3445 6790 2.372837 AGCAGGAACATTTTGCCCATTT 59.627 40.909 0.00 0.00 38.58 2.32
3473 6834 4.221422 GAGTGATAGGCGCCCGCA 62.221 66.667 26.15 16.50 44.11 5.69
3510 6871 2.202623 GCCGGTCTCTGCACTACG 60.203 66.667 1.90 0.00 0.00 3.51
3534 6895 1.850441 CGATACGCCACTTCTAAACCG 59.150 52.381 0.00 0.00 0.00 4.44
3535 6896 2.199236 GATACGCCACTTCTAAACCGG 58.801 52.381 0.00 0.00 0.00 5.28
3536 6897 0.968405 TACGCCACTTCTAAACCGGT 59.032 50.000 0.00 0.00 0.00 5.28
3537 6898 0.968405 ACGCCACTTCTAAACCGGTA 59.032 50.000 8.00 0.00 0.00 4.02
3538 6899 1.337167 ACGCCACTTCTAAACCGGTAC 60.337 52.381 8.00 0.00 0.00 3.34
3539 6900 1.730501 GCCACTTCTAAACCGGTACC 58.269 55.000 8.00 0.16 0.00 3.34
3540 6901 2.000429 CCACTTCTAAACCGGTACCG 58.000 55.000 27.68 27.68 39.44 4.02
4023 7415 1.883084 GCCATTGTAGCTCCCGACG 60.883 63.158 0.00 0.00 0.00 5.12
4055 7447 4.054825 GCACGGGGGCACATTGTG 62.055 66.667 12.54 12.54 36.51 3.33
4064 7456 2.877975 GCACATTGTGGCATCTCCT 58.122 52.632 18.05 0.00 33.64 3.69
4105 7497 2.520968 GCCACCACCTTTGTCCCT 59.479 61.111 0.00 0.00 0.00 4.20
4108 7500 1.966451 CACCACCTTTGTCCCTCGC 60.966 63.158 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 25 0.888736 CACTGCCCCGTTCAACATCA 60.889 55.000 0.00 0.00 0.00 3.07
73 87 0.745845 CGTGGCTCCATGAAAGAGGG 60.746 60.000 1.93 0.00 35.09 4.30
159 178 2.124736 GGCTGCCTCGCAACCATA 60.125 61.111 12.43 0.00 43.48 2.74
207 232 0.322546 GCCTCCTCGAAACCCAACAT 60.323 55.000 0.00 0.00 0.00 2.71
211 236 3.702048 CGGCCTCCTCGAAACCCA 61.702 66.667 0.00 0.00 0.00 4.51
260 288 0.254747 TAAATGGGGAAGCCGTGGAG 59.745 55.000 0.00 0.00 0.00 3.86
352 380 2.768344 CGGCCACCTACCTCCCAT 60.768 66.667 2.24 0.00 0.00 4.00
518 548 6.988622 TCGTTTGAGGTAAAAGAGACAAAA 57.011 33.333 0.00 0.00 32.90 2.44
550 580 2.579201 CGCGACCCCATTCTGTCT 59.421 61.111 0.00 0.00 0.00 3.41
590 620 0.324285 ACTGGCTGCTGAAGAAGAGG 59.676 55.000 0.00 0.00 0.00 3.69
591 621 1.440708 CACTGGCTGCTGAAGAAGAG 58.559 55.000 0.00 0.00 0.00 2.85
592 622 0.035881 CCACTGGCTGCTGAAGAAGA 59.964 55.000 0.00 0.00 0.00 2.87
593 623 0.035881 TCCACTGGCTGCTGAAGAAG 59.964 55.000 0.00 0.00 0.00 2.85
594 624 0.694771 ATCCACTGGCTGCTGAAGAA 59.305 50.000 0.00 0.00 0.00 2.52
595 625 0.035725 CATCCACTGGCTGCTGAAGA 60.036 55.000 0.00 0.00 0.00 2.87
596 626 0.322277 ACATCCACTGGCTGCTGAAG 60.322 55.000 0.00 0.00 0.00 3.02
597 627 0.111061 AACATCCACTGGCTGCTGAA 59.889 50.000 0.00 0.00 0.00 3.02
598 628 0.111061 AAACATCCACTGGCTGCTGA 59.889 50.000 0.00 0.00 0.00 4.26
599 629 0.963962 AAAACATCCACTGGCTGCTG 59.036 50.000 0.00 0.00 0.00 4.41
600 630 2.584835 TAAAACATCCACTGGCTGCT 57.415 45.000 0.00 0.00 0.00 4.24
601 631 3.445096 AGAATAAAACATCCACTGGCTGC 59.555 43.478 0.00 0.00 0.00 5.25
602 632 5.416952 AGAAGAATAAAACATCCACTGGCTG 59.583 40.000 0.00 0.00 0.00 4.85
603 633 5.574188 AGAAGAATAAAACATCCACTGGCT 58.426 37.500 0.00 0.00 0.00 4.75
604 634 5.904362 AGAAGAATAAAACATCCACTGGC 57.096 39.130 0.00 0.00 0.00 4.85
605 635 6.209391 ACCAAGAAGAATAAAACATCCACTGG 59.791 38.462 0.00 0.00 0.00 4.00
606 636 7.219484 ACCAAGAAGAATAAAACATCCACTG 57.781 36.000 0.00 0.00 0.00 3.66
607 637 7.839680 AACCAAGAAGAATAAAACATCCACT 57.160 32.000 0.00 0.00 0.00 4.00
608 638 8.887036 AAAACCAAGAAGAATAAAACATCCAC 57.113 30.769 0.00 0.00 0.00 4.02
640 670 9.939424 AGAGTATTACTCCCTCTGTAATAAACT 57.061 33.333 18.16 5.33 46.18 2.66
645 675 7.945664 CCAGTAGAGTATTACTCCCTCTGTAAT 59.054 40.741 23.33 9.46 46.18 1.89
646 676 7.092083 ACCAGTAGAGTATTACTCCCTCTGTAA 60.092 40.741 23.33 0.00 46.18 2.41
647 677 6.389278 ACCAGTAGAGTATTACTCCCTCTGTA 59.611 42.308 23.33 9.97 46.18 2.74
648 678 5.194132 ACCAGTAGAGTATTACTCCCTCTGT 59.806 44.000 23.33 15.60 46.18 3.41
649 679 5.697067 ACCAGTAGAGTATTACTCCCTCTG 58.303 45.833 18.16 19.90 46.18 3.35
650 680 5.998128 ACCAGTAGAGTATTACTCCCTCT 57.002 43.478 18.16 11.90 46.18 3.69
651 681 7.394077 GGATTACCAGTAGAGTATTACTCCCTC 59.606 44.444 18.16 10.16 39.92 4.30
652 682 7.075267 AGGATTACCAGTAGAGTATTACTCCCT 59.925 40.741 18.16 12.41 41.42 4.20
653 683 7.177041 CAGGATTACCAGTAGAGTATTACTCCC 59.823 44.444 18.16 10.59 41.42 4.30
654 684 7.177041 CCAGGATTACCAGTAGAGTATTACTCC 59.823 44.444 18.16 6.18 41.42 3.85
655 685 7.309316 GCCAGGATTACCAGTAGAGTATTACTC 60.309 44.444 14.79 14.79 41.09 2.59
656 686 6.494146 GCCAGGATTACCAGTAGAGTATTACT 59.506 42.308 0.00 0.00 38.94 2.24
657 687 6.295180 GGCCAGGATTACCAGTAGAGTATTAC 60.295 46.154 0.00 0.00 38.94 1.89
658 688 5.778750 GGCCAGGATTACCAGTAGAGTATTA 59.221 44.000 0.00 0.00 38.94 0.98
659 689 4.593634 GGCCAGGATTACCAGTAGAGTATT 59.406 45.833 0.00 0.00 38.94 1.89
660 690 4.140663 AGGCCAGGATTACCAGTAGAGTAT 60.141 45.833 5.01 0.00 38.94 2.12
661 691 3.206866 AGGCCAGGATTACCAGTAGAGTA 59.793 47.826 5.01 0.00 38.94 2.59
662 692 2.022918 AGGCCAGGATTACCAGTAGAGT 60.023 50.000 5.01 0.00 38.94 3.24
663 693 2.366916 CAGGCCAGGATTACCAGTAGAG 59.633 54.545 5.01 0.00 38.94 2.43
664 694 2.292918 ACAGGCCAGGATTACCAGTAGA 60.293 50.000 5.01 0.00 38.94 2.59
665 695 2.119495 ACAGGCCAGGATTACCAGTAG 58.881 52.381 5.01 0.00 38.94 2.57
666 696 1.837439 CACAGGCCAGGATTACCAGTA 59.163 52.381 5.01 0.00 38.94 2.74
667 697 0.620556 CACAGGCCAGGATTACCAGT 59.379 55.000 5.01 0.00 38.94 4.00
668 698 0.620556 ACACAGGCCAGGATTACCAG 59.379 55.000 5.01 0.00 38.94 4.00
669 699 0.327924 CACACAGGCCAGGATTACCA 59.672 55.000 5.01 0.00 38.94 3.25
670 700 1.032114 GCACACAGGCCAGGATTACC 61.032 60.000 5.01 0.00 0.00 2.85
671 701 1.369091 CGCACACAGGCCAGGATTAC 61.369 60.000 5.01 0.00 0.00 1.89
672 702 1.078497 CGCACACAGGCCAGGATTA 60.078 57.895 5.01 0.00 0.00 1.75
680 710 2.815647 GACCTAGCGCACACAGGC 60.816 66.667 11.47 3.43 32.31 4.85
685 715 1.257750 ATGGACAGACCTAGCGCACA 61.258 55.000 11.47 0.00 39.86 4.57
689 719 2.386661 AACAATGGACAGACCTAGCG 57.613 50.000 0.00 0.00 39.86 4.26
693 723 3.498661 GGAGGAAAACAATGGACAGACCT 60.499 47.826 0.00 0.00 39.86 3.85
695 725 3.253432 GTGGAGGAAAACAATGGACAGAC 59.747 47.826 0.00 0.00 0.00 3.51
696 726 3.486383 GTGGAGGAAAACAATGGACAGA 58.514 45.455 0.00 0.00 0.00 3.41
698 728 2.091610 TGGTGGAGGAAAACAATGGACA 60.092 45.455 0.00 0.00 0.00 4.02
699 729 2.593026 TGGTGGAGGAAAACAATGGAC 58.407 47.619 0.00 0.00 0.00 4.02
700 730 2.962421 GTTGGTGGAGGAAAACAATGGA 59.038 45.455 0.00 0.00 0.00 3.41
703 733 3.181480 CGTTGTTGGTGGAGGAAAACAAT 60.181 43.478 3.45 0.00 42.57 2.71
707 737 0.741915 GCGTTGTTGGTGGAGGAAAA 59.258 50.000 0.00 0.00 0.00 2.29
712 742 1.227999 ACGATGCGTTGTTGGTGGAG 61.228 55.000 0.00 0.00 36.35 3.86
740 772 1.876799 CTCATCGCTGTCTCCGTCTAT 59.123 52.381 0.00 0.00 0.00 1.98
757 791 4.670896 TCATAATGCTCGTTCCATCTCA 57.329 40.909 0.00 0.00 0.00 3.27
759 793 5.178252 CGATTTCATAATGCTCGTTCCATCT 59.822 40.000 0.00 0.00 0.00 2.90
765 799 5.812642 AGACTTCGATTTCATAATGCTCGTT 59.187 36.000 0.00 0.00 0.00 3.85
767 801 5.896922 AGACTTCGATTTCATAATGCTCG 57.103 39.130 0.00 0.00 0.00 5.03
772 806 7.265673 TCTCGGAAAGACTTCGATTTCATAAT 58.734 34.615 10.48 0.00 37.19 1.28
779 813 4.238514 CTGTTCTCGGAAAGACTTCGATT 58.761 43.478 0.05 0.00 32.27 3.34
783 817 4.217983 TCCTACTGTTCTCGGAAAGACTTC 59.782 45.833 0.00 0.00 32.27 3.01
787 821 2.492484 GCTCCTACTGTTCTCGGAAAGA 59.508 50.000 0.00 0.00 0.00 2.52
794 828 0.099082 CGACCGCTCCTACTGTTCTC 59.901 60.000 0.00 0.00 0.00 2.87
796 830 1.139095 CCGACCGCTCCTACTGTTC 59.861 63.158 0.00 0.00 0.00 3.18
799 833 3.528370 CCCCGACCGCTCCTACTG 61.528 72.222 0.00 0.00 0.00 2.74
804 838 4.237207 GATTCCCCCGACCGCTCC 62.237 72.222 0.00 0.00 0.00 4.70
805 839 4.587189 CGATTCCCCCGACCGCTC 62.587 72.222 0.00 0.00 0.00 5.03
807 841 4.462280 AACGATTCCCCCGACCGC 62.462 66.667 0.00 0.00 0.00 5.68
831 884 3.659092 CTGCGCTGCGTTGGGAAA 61.659 61.111 24.04 0.36 0.00 3.13
846 899 4.081030 CTGTCTTGCCACGCGCTG 62.081 66.667 5.73 3.55 38.78 5.18
847 900 4.609018 ACTGTCTTGCCACGCGCT 62.609 61.111 5.73 0.00 38.78 5.92
848 901 4.374702 CACTGTCTTGCCACGCGC 62.375 66.667 5.73 0.00 38.31 6.86
849 902 2.967076 ACACTGTCTTGCCACGCG 60.967 61.111 3.53 3.53 0.00 6.01
857 910 2.967076 CGCCACGCACACTGTCTT 60.967 61.111 0.00 0.00 0.00 3.01
885 938 2.977178 CGTGAGGAGGAGCTTGCT 59.023 61.111 0.00 0.00 0.00 3.91
886 939 2.817396 GCGTGAGGAGGAGCTTGC 60.817 66.667 0.00 0.00 0.00 4.01
904 964 4.594136 GTGGTAAGTGTGTTTTGTAGTGC 58.406 43.478 0.00 0.00 0.00 4.40
947 1007 5.066634 GTCTTATGCTCTAGTACTGCTCACA 59.933 44.000 5.39 0.00 0.00 3.58
951 1011 3.566322 CCGTCTTATGCTCTAGTACTGCT 59.434 47.826 5.39 0.00 0.00 4.24
954 1014 4.778579 TGTCCGTCTTATGCTCTAGTACT 58.221 43.478 0.00 0.00 0.00 2.73
958 1018 4.024387 GTCTCTGTCCGTCTTATGCTCTAG 60.024 50.000 0.00 0.00 0.00 2.43
971 1031 0.034960 TCCCTCTCTGTCTCTGTCCG 60.035 60.000 0.00 0.00 0.00 4.79
972 1032 1.283613 TCTCCCTCTCTGTCTCTGTCC 59.716 57.143 0.00 0.00 0.00 4.02
975 1035 2.421952 CCTCTCTCCCTCTCTGTCTCTG 60.422 59.091 0.00 0.00 0.00 3.35
981 1041 0.258484 TGCTCCTCTCTCCCTCTCTG 59.742 60.000 0.00 0.00 0.00 3.35
1015 1094 0.946221 CACACAACGCTCCTCTCCAC 60.946 60.000 0.00 0.00 0.00 4.02
1016 1095 1.367471 CACACAACGCTCCTCTCCA 59.633 57.895 0.00 0.00 0.00 3.86
1017 1096 2.029844 GCACACAACGCTCCTCTCC 61.030 63.158 0.00 0.00 0.00 3.71
1018 1097 2.375766 CGCACACAACGCTCCTCTC 61.376 63.158 0.00 0.00 0.00 3.20
1168 1263 0.321653 CTTCGGGAGTTGGTGGGAAG 60.322 60.000 0.00 0.00 0.00 3.46
1170 1265 0.546747 ATCTTCGGGAGTTGGTGGGA 60.547 55.000 0.00 0.00 0.00 4.37
1173 1268 2.770164 AGAATCTTCGGGAGTTGGTG 57.230 50.000 0.00 0.00 0.00 4.17
1234 1341 4.665833 TTGACCAATCCCTACATACTCG 57.334 45.455 0.00 0.00 0.00 4.18
1265 1388 8.507249 GTTCTCATTTTTCAGCAACTACTACAT 58.493 33.333 0.00 0.00 0.00 2.29
1266 1389 7.041372 GGTTCTCATTTTTCAGCAACTACTACA 60.041 37.037 0.00 0.00 0.00 2.74
1267 1390 7.298854 GGTTCTCATTTTTCAGCAACTACTAC 58.701 38.462 0.00 0.00 0.00 2.73
1268 1391 6.430000 GGGTTCTCATTTTTCAGCAACTACTA 59.570 38.462 0.00 0.00 0.00 1.82
1269 1392 5.241728 GGGTTCTCATTTTTCAGCAACTACT 59.758 40.000 0.00 0.00 0.00 2.57
1270 1393 5.009610 TGGGTTCTCATTTTTCAGCAACTAC 59.990 40.000 0.00 0.00 0.00 2.73
1293 1422 5.093457 GTCAGCATCTTCATGTCAACATTG 58.907 41.667 0.00 0.00 33.61 2.82
1306 1435 1.251527 ACGTCGGAGGTCAGCATCTT 61.252 55.000 0.00 0.00 0.00 2.40
1309 1438 1.112113 AATACGTCGGAGGTCAGCAT 58.888 50.000 6.61 0.00 0.00 3.79
1375 2453 2.633657 GGCACGCACAGAACACAG 59.366 61.111 0.00 0.00 0.00 3.66
1590 2686 3.623960 CCCTTAAACTGTGAAACACGTGA 59.376 43.478 25.01 0.00 45.67 4.35
1830 3815 1.133976 CCCTTAGGCCAGTCAGGATTG 60.134 57.143 5.01 0.00 41.22 2.67
1837 3822 9.909050 AGTAAATACTTTGCCCTTAGGCCAGTC 62.909 44.444 5.01 0.00 46.56 3.51
1947 5063 6.927936 TGCAGTTAGCTGAAGAAGATCATATC 59.072 38.462 11.20 0.00 45.28 1.63
1955 5071 4.531332 GTTTGTGCAGTTAGCTGAAGAAG 58.469 43.478 11.20 0.00 45.28 2.85
2009 5137 6.786843 ACTTATTTCATAGGGGTCATCCAT 57.213 37.500 0.00 0.00 37.22 3.41
2022 5150 8.665685 GGACGACACAAAGATAACTTATTTCAT 58.334 33.333 0.00 0.00 35.05 2.57
2038 5166 2.137528 TCCTGCCAGGACGACACAA 61.138 57.895 10.05 0.00 40.06 3.33
2047 5176 1.410153 GCAAATACCAATCCTGCCAGG 59.590 52.381 3.69 3.69 36.46 4.45
2147 5276 0.404040 TCAAGGGGCCAAGTACCAAG 59.596 55.000 4.39 0.00 0.00 3.61
2221 5350 3.243975 ACGAACCCGAAGATAAACACACT 60.244 43.478 0.00 0.00 39.50 3.55
2299 5438 8.811017 TCATTTTCTGATGCCCAAGTTTAATAA 58.189 29.630 0.00 0.00 0.00 1.40
2300 5439 8.359875 TCATTTTCTGATGCCCAAGTTTAATA 57.640 30.769 0.00 0.00 0.00 0.98
2301 5440 7.243604 TCATTTTCTGATGCCCAAGTTTAAT 57.756 32.000 0.00 0.00 0.00 1.40
2448 5682 9.077885 TGCAAAAGAGAGGTATTTCAGTTTTAT 57.922 29.630 0.00 0.00 0.00 1.40
2519 5755 1.872234 ATCGGCGACATCACGAACG 60.872 57.895 13.76 0.00 40.27 3.95
2764 6023 9.471084 GCTTATCTCAGGAAAAGATAACTAGAC 57.529 37.037 0.00 0.00 39.58 2.59
2769 6028 8.499403 ACTTGCTTATCTCAGGAAAAGATAAC 57.501 34.615 2.30 1.99 39.58 1.89
2797 6092 1.134367 CCAGGTGATGCTGAATTGCTG 59.866 52.381 0.00 0.00 0.00 4.41
2798 6093 1.005097 TCCAGGTGATGCTGAATTGCT 59.995 47.619 0.00 0.00 0.00 3.91
2799 6094 1.466856 TCCAGGTGATGCTGAATTGC 58.533 50.000 0.00 0.00 0.00 3.56
2800 6095 3.675228 GCTTTCCAGGTGATGCTGAATTG 60.675 47.826 0.00 0.00 0.00 2.32
2801 6096 2.494870 GCTTTCCAGGTGATGCTGAATT 59.505 45.455 0.00 0.00 0.00 2.17
2802 6097 2.097825 GCTTTCCAGGTGATGCTGAAT 58.902 47.619 0.00 0.00 0.00 2.57
2803 6098 1.202915 TGCTTTCCAGGTGATGCTGAA 60.203 47.619 0.00 0.00 0.00 3.02
2826 6123 4.020307 ACAAATGACAACAATCCCCATTCC 60.020 41.667 0.00 0.00 0.00 3.01
2839 6136 7.864882 TGCTTTATTCGATTTGACAAATGACAA 59.135 29.630 18.00 7.93 0.00 3.18
2840 6137 7.366513 TGCTTTATTCGATTTGACAAATGACA 58.633 30.769 18.00 2.02 0.00 3.58
2841 6138 7.795431 TGCTTTATTCGATTTGACAAATGAC 57.205 32.000 18.00 4.05 0.00 3.06
2842 6139 9.720667 CTATGCTTTATTCGATTTGACAAATGA 57.279 29.630 18.00 12.20 0.00 2.57
2843 6140 9.507280 ACTATGCTTTATTCGATTTGACAAATG 57.493 29.630 18.00 10.27 0.00 2.32
2845 6142 9.906660 AAACTATGCTTTATTCGATTTGACAAA 57.093 25.926 2.48 2.48 0.00 2.83
2846 6143 9.906660 AAAACTATGCTTTATTCGATTTGACAA 57.093 25.926 0.00 0.00 0.00 3.18
2847 6144 9.906660 AAAAACTATGCTTTATTCGATTTGACA 57.093 25.926 0.00 0.00 0.00 3.58
2855 6152 9.180678 ACACTTTGAAAAACTATGCTTTATTCG 57.819 29.630 0.00 0.00 0.00 3.34
2886 6183 5.058149 TGCTAAATTGTATGTGCAGTTGG 57.942 39.130 0.00 0.00 0.00 3.77
2959 6286 9.297586 TCCGTATCGTAAGCATTTTATGATATC 57.702 33.333 10.40 0.00 36.12 1.63
3004 6331 4.321527 GGAAAAGCATTTGTCAGAAGGGAG 60.322 45.833 0.00 0.00 39.02 4.30
3006 6333 3.321682 TGGAAAAGCATTTGTCAGAAGGG 59.678 43.478 0.00 0.00 39.02 3.95
3047 6374 4.792704 GCAAACCAATTCGAAGAGAGCAAA 60.793 41.667 3.35 0.00 38.43 3.68
3057 6389 3.608241 CGTAAAGCTGCAAACCAATTCGA 60.608 43.478 1.02 0.00 0.00 3.71
3206 6545 7.502561 GCATTATTACTTTCCCTAGTTGGATGT 59.497 37.037 0.00 0.00 38.35 3.06
3287 6632 6.704289 TTTCACATGATTCCCTTGATGATC 57.296 37.500 0.00 0.00 0.00 2.92
3445 6790 3.737047 CGCCTATCACTCGCCTAAGAAAA 60.737 47.826 0.00 0.00 0.00 2.29
3448 6793 0.952280 CGCCTATCACTCGCCTAAGA 59.048 55.000 0.00 0.00 0.00 2.10
3473 6834 1.301322 CAAATTTTTGGGCCGGCGT 60.301 52.632 22.54 0.00 34.59 5.68
3500 6861 1.061566 CGTATCGTGTCGTAGTGCAGA 59.938 52.381 0.00 0.00 0.00 4.26
3510 6871 2.838386 TAGAAGTGGCGTATCGTGTC 57.162 50.000 0.00 0.00 0.00 3.67
3534 6895 2.042104 CGAATGATCGTACCGGTACC 57.958 55.000 33.52 22.23 44.06 3.34
3871 7235 1.162800 GGATGAGGATGAGCGGTTGC 61.163 60.000 0.00 0.00 43.24 4.17
3931 7295 2.432628 GTCACAAGGACGGCCGAG 60.433 66.667 35.90 17.62 39.96 4.63
3964 7328 0.593128 GACTTGTTGTGGCGAGCAAT 59.407 50.000 0.00 0.00 0.00 3.56
4055 7447 2.191641 GCTGGTGGAGGAGATGCC 59.808 66.667 0.00 0.00 0.00 4.40
4105 7497 2.435938 GTCGATTTGCTGGGGCGA 60.436 61.111 0.00 0.00 42.25 5.54
4108 7500 1.470098 CTTTGAGTCGATTTGCTGGGG 59.530 52.381 0.00 0.00 0.00 4.96


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

AutoCloner maintained by Alex Coulton.