Multiple sequence alignment - TraesCS6A01G367800

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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 TraesCS6A01G367800 chr6A 100.000 3667 0 0 1 3667 594518604 594522270 0.000000e+00 6772.0
1 TraesCS6A01G367800 chr6A 81.640 1073 186 9 998 2063 594529247 594530315 0.000000e+00 880.0
2 TraesCS6A01G367800 chr6A 85.882 765 79 13 2262 2999 612172644 612171882 0.000000e+00 787.0
3 TraesCS6A01G367800 chr6A 77.727 220 33 9 448 663 594513806 594514013 1.790000e-23 121.0
4 TraesCS6A01G367800 chr6A 82.258 124 14 6 40 157 594512971 594513092 2.330000e-17 100.0
5 TraesCS6A01G367800 chr6A 85.057 87 9 2 183 268 594513407 594513490 6.520000e-13 86.1
6 TraesCS6A01G367800 chr6D 93.534 1330 54 8 903 2206 448159053 448160376 0.000000e+00 1951.0
7 TraesCS6A01G367800 chr6D 88.213 789 36 15 1 781 448152156 448152895 0.000000e+00 889.0
8 TraesCS6A01G367800 chr6D 80.695 1093 179 22 993 2063 448430132 448429050 0.000000e+00 821.0
9 TraesCS6A01G367800 chr6D 80.000 1095 173 34 992 2063 448486590 448485519 0.000000e+00 767.0
10 TraesCS6A01G367800 chr6D 87.722 676 52 15 2994 3667 448417951 448417305 0.000000e+00 760.0
11 TraesCS6A01G367800 chr6D 88.084 621 57 11 3031 3637 448160450 448161067 0.000000e+00 721.0
12 TraesCS6A01G367800 chr6D 79.231 1093 181 34 994 2063 448058383 448059452 0.000000e+00 719.0
13 TraesCS6A01G367800 chr6D 83.140 777 85 15 2260 2994 469073879 469073107 0.000000e+00 667.0
14 TraesCS6A01G367800 chr6D 95.781 237 4 3 1962 2198 448418254 448418024 9.610000e-101 377.0
15 TraesCS6A01G367800 chr6D 95.385 65 3 0 903 967 448141215 448141279 1.800000e-18 104.0
16 TraesCS6A01G367800 chr6D 84.091 88 9 3 183 268 448434560 448434476 3.040000e-11 80.5
17 TraesCS6A01G367800 chr6B 95.343 1224 51 5 906 2126 679279283 679278063 0.000000e+00 1940.0
18 TraesCS6A01G367800 chr6B 80.365 1095 179 26 993 2063 679286107 679285025 0.000000e+00 798.0
19 TraesCS6A01G367800 chr6B 80.365 1095 179 26 993 2063 679329295 679330377 0.000000e+00 798.0
20 TraesCS6A01G367800 chr6B 82.583 689 106 7 996 1671 679256767 679256080 2.440000e-166 595.0
21 TraesCS6A01G367800 chr6B 86.402 353 40 6 2645 2993 578460704 578461052 2.670000e-101 379.0
22 TraesCS6A01G367800 chr6B 87.681 138 10 4 40 174 679281177 679281044 1.760000e-33 154.0
23 TraesCS6A01G367800 chr6B 79.670 182 24 8 491 666 679289700 679289526 6.430000e-23 119.0
24 TraesCS6A01G367800 chr6B 79.888 179 23 8 491 663 679325703 679325874 6.430000e-23 119.0
25 TraesCS6A01G367800 chr6B 83.908 87 10 2 183 268 679323800 679323883 3.040000e-11 80.5
26 TraesCS6A01G367800 chr5A 87.381 737 66 10 2274 2985 271057359 271056625 0.000000e+00 821.0
27 TraesCS6A01G367800 chr4D 84.854 548 54 5 2324 2846 418564721 418565264 3.240000e-145 525.0
28 TraesCS6A01G367800 chr4D 87.861 346 38 3 2651 2994 418565017 418565360 1.590000e-108 403.0
29 TraesCS6A01G367800 chr2D 84.929 491 60 10 3082 3566 591190107 591189625 5.510000e-133 484.0
30 TraesCS6A01G367800 chr2D 83.702 362 33 7 2260 2598 75652011 75652369 5.910000e-83 318.0
31 TraesCS6A01G367800 chr2D 90.066 151 13 2 3512 3660 591189609 591189459 1.040000e-45 195.0
32 TraesCS6A01G367800 chr4A 80.495 646 73 23 2260 2858 627976089 627975450 2.600000e-121 446.0
33 TraesCS6A01G367800 chr1D 86.150 426 43 1 2449 2858 370310164 370309739 2.600000e-121 446.0
34 TraesCS6A01G367800 chr1D 83.265 490 45 20 3086 3566 33990935 33991396 2.040000e-112 416.0
35 TraesCS6A01G367800 chr1D 86.348 293 37 2 2702 2994 52613039 52613328 2.130000e-82 316.0
36 TraesCS6A01G367800 chr1D 88.889 162 17 1 3503 3663 33991403 33991564 8.030000e-47 198.0
37 TraesCS6A01G367800 chr3D 81.250 592 66 27 3087 3667 566965755 566966312 1.560000e-118 436.0
38 TraesCS6A01G367800 chr3D 84.385 301 21 6 2321 2598 420010336 420010039 4.670000e-69 272.0
39 TraesCS6A01G367800 chr4B 82.787 488 58 10 2397 2859 646661231 646661717 2.640000e-111 412.0
40 TraesCS6A01G367800 chr4B 89.329 328 33 2 3241 3566 634415374 634415701 9.480000e-111 411.0
41 TraesCS6A01G367800 chr4B 85.075 335 50 0 2652 2986 87709394 87709728 3.510000e-90 342.0
42 TraesCS6A01G367800 chr4B 86.379 301 41 0 2599 2899 87711465 87711765 2.730000e-86 329.0
43 TraesCS6A01G367800 chr3B 80.160 625 50 36 3081 3660 70119238 70119833 2.050000e-107 399.0
44 TraesCS6A01G367800 chr3A 88.994 318 32 3 3352 3667 701309281 701309597 1.230000e-104 390.0
45 TraesCS6A01G367800 chr3A 78.543 508 70 21 2260 2755 7088455 7088935 7.700000e-77 298.0
46 TraesCS6A01G367800 chr5D 79.133 623 80 30 3078 3660 438042913 438043525 5.740000e-103 385.0
47 TraesCS6A01G367800 chr5D 82.920 363 35 8 2260 2598 560410524 560410165 5.950000e-78 302.0
48 TraesCS6A01G367800 chr5D 85.294 238 33 2 2758 2994 560409847 560409611 1.020000e-60 244.0
49 TraesCS6A01G367800 chr7B 81.855 496 48 27 3087 3566 146004103 146003634 2.670000e-101 379.0
50 TraesCS6A01G367800 chr7A 79.630 594 69 10 2262 2805 676426596 676426005 2.670000e-101 379.0
51 TraesCS6A01G367800 chr2A 82.701 422 45 10 2358 2753 543185421 543185002 2.100000e-92 350.0
52 TraesCS6A01G367800 chr2A 87.770 278 26 5 3292 3566 12160116 12160388 5.910000e-83 318.0
53 TraesCS6A01G367800 chr2A 87.952 166 19 1 3503 3667 12160417 12160582 1.040000e-45 195.0
54 TraesCS6A01G367800 chr7D 80.637 408 49 9 2216 2598 527737024 527737426 4.630000e-74 289.0
55 TraesCS6A01G367800 chr1A 80.206 389 41 14 2449 2804 297256942 297256557 3.630000e-65 259.0


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 TraesCS6A01G367800 chr6A 594518604 594522270 3666 False 6772.00 6772 100.00000 1 3667 1 chr6A.!!$F1 3666
1 TraesCS6A01G367800 chr6A 594529247 594530315 1068 False 880.00 880 81.64000 998 2063 1 chr6A.!!$F2 1065
2 TraesCS6A01G367800 chr6A 612171882 612172644 762 True 787.00 787 85.88200 2262 2999 1 chr6A.!!$R1 737
3 TraesCS6A01G367800 chr6D 448159053 448161067 2014 False 1336.00 1951 90.80900 903 3637 2 chr6D.!!$F4 2734
4 TraesCS6A01G367800 chr6D 448152156 448152895 739 False 889.00 889 88.21300 1 781 1 chr6D.!!$F3 780
5 TraesCS6A01G367800 chr6D 448429050 448430132 1082 True 821.00 821 80.69500 993 2063 1 chr6D.!!$R1 1070
6 TraesCS6A01G367800 chr6D 448485519 448486590 1071 True 767.00 767 80.00000 992 2063 1 chr6D.!!$R3 1071
7 TraesCS6A01G367800 chr6D 448058383 448059452 1069 False 719.00 719 79.23100 994 2063 1 chr6D.!!$F1 1069
8 TraesCS6A01G367800 chr6D 469073107 469073879 772 True 667.00 667 83.14000 2260 2994 1 chr6D.!!$R4 734
9 TraesCS6A01G367800 chr6D 448417305 448418254 949 True 568.50 760 91.75150 1962 3667 2 chr6D.!!$R5 1705
10 TraesCS6A01G367800 chr6B 679278063 679289700 11637 True 752.75 1940 85.76475 40 2126 4 chr6B.!!$R2 2086
11 TraesCS6A01G367800 chr6B 679256080 679256767 687 True 595.00 595 82.58300 996 1671 1 chr6B.!!$R1 675
12 TraesCS6A01G367800 chr6B 679323800 679330377 6577 False 332.50 798 81.38700 183 2063 3 chr6B.!!$F2 1880
13 TraesCS6A01G367800 chr5A 271056625 271057359 734 True 821.00 821 87.38100 2274 2985 1 chr5A.!!$R1 711
14 TraesCS6A01G367800 chr4D 418564721 418565360 639 False 464.00 525 86.35750 2324 2994 2 chr4D.!!$F1 670
15 TraesCS6A01G367800 chr2D 591189459 591190107 648 True 339.50 484 87.49750 3082 3660 2 chr2D.!!$R1 578
16 TraesCS6A01G367800 chr4A 627975450 627976089 639 True 446.00 446 80.49500 2260 2858 1 chr4A.!!$R1 598
17 TraesCS6A01G367800 chr1D 33990935 33991564 629 False 307.00 416 86.07700 3086 3663 2 chr1D.!!$F2 577
18 TraesCS6A01G367800 chr3D 566965755 566966312 557 False 436.00 436 81.25000 3087 3667 1 chr3D.!!$F1 580
19 TraesCS6A01G367800 chr4B 87709394 87711765 2371 False 335.50 342 85.72700 2599 2986 2 chr4B.!!$F3 387
20 TraesCS6A01G367800 chr3B 70119238 70119833 595 False 399.00 399 80.16000 3081 3660 1 chr3B.!!$F1 579
21 TraesCS6A01G367800 chr5D 438042913 438043525 612 False 385.00 385 79.13300 3078 3660 1 chr5D.!!$F1 582
22 TraesCS6A01G367800 chr5D 560409611 560410524 913 True 273.00 302 84.10700 2260 2994 2 chr5D.!!$R1 734
23 TraesCS6A01G367800 chr7A 676426005 676426596 591 True 379.00 379 79.63000 2262 2805 1 chr7A.!!$R1 543

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
418 9414 0.179020 CAGGTGTGCTGGGTCTTTGA 60.179 55.0 0.0 0.0 0.00 2.69 F
793 11305 0.242825 CAAACCACTCATGCCTGCTG 59.757 55.0 0.0 0.0 0.00 4.41 F
806 11318 0.321021 CCTGCTGCAGAGACTTCAGT 59.679 55.0 30.1 0.0 32.44 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2066 16306 0.038892 GCAGCAACAACCCACATCAG 60.039 55.0 0.00 0.0 0.00 2.90 R
2231 16501 0.107848 AATCGGCCGGTGAAGGTAAG 60.108 55.0 27.83 0.0 0.00 2.34 R
2728 18212 0.391263 CCCACTCGTTAGTTCCTGCC 60.391 60.0 0.00 0.0 31.97 4.85 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
55 8540 3.084039 TCCATCAACCTCTGCATGAAAC 58.916 45.455 0.00 0.00 0.00 2.78
84 8569 4.287001 ATGAAGGCTCAATGGCAGACCA 62.287 50.000 0.00 0.00 41.49 4.02
236 8986 6.097554 TCCACATGACTTAAACACAAACCATT 59.902 34.615 0.00 0.00 0.00 3.16
314 9064 7.425224 ACTACAGTAGCATTTAGATTCACCT 57.575 36.000 7.57 0.00 0.00 4.00
345 9330 8.733458 CATCAACAAGGTTTCTAATCAAGATGA 58.267 33.333 0.00 0.00 33.05 2.92
402 9398 0.244721 TCAGCGACACATCTGACAGG 59.755 55.000 1.81 0.00 34.69 4.00
418 9414 0.179020 CAGGTGTGCTGGGTCTTTGA 60.179 55.000 0.00 0.00 0.00 2.69
429 9425 2.224769 TGGGTCTTTGACTTTGGGCTAG 60.225 50.000 0.00 0.00 32.47 3.42
476 9648 5.717119 ATTTACAGAGGAATGCTAAGGGT 57.283 39.130 0.00 0.00 0.00 4.34
478 9650 6.630203 TTTACAGAGGAATGCTAAGGGTTA 57.370 37.500 0.00 0.00 0.00 2.85
599 11110 7.687941 AATCCAAGGACAGTACATAAAACAG 57.312 36.000 0.00 0.00 0.00 3.16
602 11113 6.878923 TCCAAGGACAGTACATAAAACAGATG 59.121 38.462 0.00 0.00 0.00 2.90
629 11140 2.096335 TCGATCAGCACATGCAATCAAC 59.904 45.455 6.64 0.00 45.16 3.18
636 11147 2.288334 GCACATGCAATCAACCAGTTCA 60.288 45.455 0.00 0.00 41.59 3.18
667 11178 2.613133 GCACAAAGCAGCAAAAATTCCA 59.387 40.909 0.00 0.00 44.79 3.53
670 11181 2.865551 CAAAGCAGCAAAAATTCCACGT 59.134 40.909 0.00 0.00 0.00 4.49
671 11182 4.047822 CAAAGCAGCAAAAATTCCACGTA 58.952 39.130 0.00 0.00 0.00 3.57
672 11183 3.282831 AGCAGCAAAAATTCCACGTAC 57.717 42.857 0.00 0.00 0.00 3.67
674 11185 2.287909 GCAGCAAAAATTCCACGTACCA 60.288 45.455 0.00 0.00 0.00 3.25
675 11186 3.305110 CAGCAAAAATTCCACGTACCAC 58.695 45.455 0.00 0.00 0.00 4.16
676 11187 3.004315 CAGCAAAAATTCCACGTACCACT 59.996 43.478 0.00 0.00 0.00 4.00
677 11188 3.634910 AGCAAAAATTCCACGTACCACTT 59.365 39.130 0.00 0.00 0.00 3.16
679 11190 5.475564 AGCAAAAATTCCACGTACCACTTAT 59.524 36.000 0.00 0.00 0.00 1.73
680 11191 5.571357 GCAAAAATTCCACGTACCACTTATG 59.429 40.000 0.00 0.00 0.00 1.90
681 11192 4.957759 AAATTCCACGTACCACTTATGC 57.042 40.909 0.00 0.00 0.00 3.14
682 11193 1.999048 TTCCACGTACCACTTATGCG 58.001 50.000 0.00 0.00 0.00 4.73
683 11194 1.175654 TCCACGTACCACTTATGCGA 58.824 50.000 0.00 0.00 0.00 5.10
684 11195 1.545136 TCCACGTACCACTTATGCGAA 59.455 47.619 0.00 0.00 0.00 4.70
685 11196 1.924524 CCACGTACCACTTATGCGAAG 59.075 52.381 0.00 0.00 0.00 3.79
686 11197 2.416296 CCACGTACCACTTATGCGAAGA 60.416 50.000 5.26 0.00 0.00 2.87
687 11198 3.247442 CACGTACCACTTATGCGAAGAA 58.753 45.455 5.26 0.00 0.00 2.52
688 11199 3.303495 CACGTACCACTTATGCGAAGAAG 59.697 47.826 0.00 0.00 0.00 2.85
689 11200 3.057033 ACGTACCACTTATGCGAAGAAGT 60.057 43.478 0.00 0.00 36.31 3.01
690 11201 4.156556 ACGTACCACTTATGCGAAGAAGTA 59.843 41.667 2.38 3.89 34.13 2.24
691 11202 5.163581 ACGTACCACTTATGCGAAGAAGTAT 60.164 40.000 2.38 0.00 34.13 2.12
692 11203 5.173312 CGTACCACTTATGCGAAGAAGTATG 59.827 44.000 2.38 0.68 34.13 2.39
693 11204 3.871594 ACCACTTATGCGAAGAAGTATGC 59.128 43.478 2.38 0.00 34.13 3.14
721 11233 1.477685 TTGGTGGAGAACTCGGGGAC 61.478 60.000 0.00 0.00 0.00 4.46
745 11257 0.964358 GGGAACTCGTCCTCGGAGAA 60.964 60.000 6.58 0.00 46.92 2.87
746 11258 1.104630 GGAACTCGTCCTCGGAGAAT 58.895 55.000 6.58 0.00 43.98 2.40
750 11262 2.022934 ACTCGTCCTCGGAGAATAACC 58.977 52.381 6.58 0.00 34.09 2.85
789 11301 1.826385 GTAGCAAACCACTCATGCCT 58.174 50.000 0.00 0.00 40.93 4.75
790 11302 1.470098 GTAGCAAACCACTCATGCCTG 59.530 52.381 0.00 0.00 40.93 4.85
791 11303 1.080298 GCAAACCACTCATGCCTGC 60.080 57.895 0.00 0.00 34.03 4.85
792 11304 1.530013 GCAAACCACTCATGCCTGCT 61.530 55.000 0.00 0.00 34.03 4.24
793 11305 0.242825 CAAACCACTCATGCCTGCTG 59.757 55.000 0.00 0.00 0.00 4.41
794 11306 1.530013 AAACCACTCATGCCTGCTGC 61.530 55.000 0.00 0.00 41.77 5.25
806 11318 0.321021 CCTGCTGCAGAGACTTCAGT 59.679 55.000 30.10 0.00 32.44 3.41
808 11320 2.492012 CTGCTGCAGAGACTTCAGTTT 58.508 47.619 24.88 0.00 32.44 2.66
809 11321 2.216046 TGCTGCAGAGACTTCAGTTTG 58.784 47.619 20.43 0.00 0.00 2.93
811 11323 3.072944 GCTGCAGAGACTTCAGTTTGAT 58.927 45.455 20.43 0.00 0.00 2.57
815 11327 3.190118 GCAGAGACTTCAGTTTGATTGGG 59.810 47.826 0.00 0.00 0.00 4.12
820 11332 6.039829 AGAGACTTCAGTTTGATTGGGAAAAC 59.960 38.462 0.00 0.00 36.69 2.43
822 11334 6.154363 AGACTTCAGTTTGATTGGGAAAACAA 59.846 34.615 0.00 0.00 38.48 2.83
823 11335 6.106003 ACTTCAGTTTGATTGGGAAAACAAC 58.894 36.000 0.00 0.00 38.48 3.32
824 11336 5.667539 TCAGTTTGATTGGGAAAACAACA 57.332 34.783 0.00 0.00 38.48 3.33
825 11337 5.659463 TCAGTTTGATTGGGAAAACAACAG 58.341 37.500 0.00 0.00 38.48 3.16
826 11338 5.186797 TCAGTTTGATTGGGAAAACAACAGT 59.813 36.000 0.00 0.00 38.48 3.55
828 11340 7.069331 TCAGTTTGATTGGGAAAACAACAGTAT 59.931 33.333 0.00 0.00 38.48 2.12
829 11341 7.382218 CAGTTTGATTGGGAAAACAACAGTATC 59.618 37.037 0.00 0.00 38.48 2.24
830 11342 7.287696 AGTTTGATTGGGAAAACAACAGTATCT 59.712 33.333 0.00 0.00 38.48 1.98
831 11343 7.595819 TTGATTGGGAAAACAACAGTATCTT 57.404 32.000 0.00 0.00 32.39 2.40
832 11344 7.595819 TGATTGGGAAAACAACAGTATCTTT 57.404 32.000 0.00 0.00 32.39 2.52
833 11345 7.432869 TGATTGGGAAAACAACAGTATCTTTG 58.567 34.615 0.00 0.00 32.39 2.77
834 11346 5.195001 TGGGAAAACAACAGTATCTTTGC 57.805 39.130 0.00 0.00 0.00 3.68
835 11347 4.646945 TGGGAAAACAACAGTATCTTTGCA 59.353 37.500 0.00 0.00 0.00 4.08
836 11348 5.127845 TGGGAAAACAACAGTATCTTTGCAA 59.872 36.000 0.00 0.00 0.00 4.08
837 11349 5.462068 GGGAAAACAACAGTATCTTTGCAAC 59.538 40.000 0.00 0.00 0.00 4.17
857 13811 2.299867 ACAATGCCAATGAACCAGGAAC 59.700 45.455 0.00 0.00 0.00 3.62
863 13817 2.958355 CCAATGAACCAGGAACAACAGT 59.042 45.455 0.00 0.00 0.00 3.55
868 13822 3.279434 GAACCAGGAACAACAGTGTCTT 58.721 45.455 0.00 0.00 36.80 3.01
871 13825 2.874701 CCAGGAACAACAGTGTCTTCAG 59.125 50.000 13.12 6.98 36.80 3.02
872 13826 3.535561 CAGGAACAACAGTGTCTTCAGT 58.464 45.455 13.12 0.00 36.80 3.41
892 15044 7.561021 TCAGTACAATAAACTCACAAAGCAA 57.439 32.000 0.00 0.00 0.00 3.91
901 15053 3.460103 ACTCACAAAGCAAGGCAAAATG 58.540 40.909 0.00 0.00 0.00 2.32
926 15102 8.713971 TGAGGGTATAATTTTGCATCTAAGAGA 58.286 33.333 0.00 0.00 0.00 3.10
942 15118 6.300703 TCTAAGAGAGCTACCCAGATTACTC 58.699 44.000 0.00 0.00 0.00 2.59
987 15163 0.528017 TGCTAGAACACTCAGAGGCG 59.472 55.000 1.53 0.00 0.00 5.52
1029 15222 1.134670 AGCTTGACCATAAGAGACGGC 60.135 52.381 0.00 0.00 0.00 5.68
1229 15422 2.124819 CTTCAGCCGCTCCATGCT 60.125 61.111 0.00 0.00 40.11 3.79
1341 15534 2.357517 AGCGCCTTGAACACCTCG 60.358 61.111 2.29 0.00 0.00 4.63
1350 15543 0.327924 TGAACACCTCGGCATCCATT 59.672 50.000 0.00 0.00 0.00 3.16
2066 16306 1.139095 CCAACCTACTCCGCGAGAC 59.861 63.158 8.23 0.00 33.32 3.36
2088 16328 0.467844 ATGTGGGTTGTTGCTGCAGA 60.468 50.000 20.43 0.00 0.00 4.26
2089 16329 0.467844 TGTGGGTTGTTGCTGCAGAT 60.468 50.000 20.43 0.00 0.00 2.90
2091 16331 1.885887 GTGGGTTGTTGCTGCAGATTA 59.114 47.619 20.43 0.00 0.00 1.75
2096 16339 5.244851 TGGGTTGTTGCTGCAGATTAATTTA 59.755 36.000 20.43 0.00 0.00 1.40
2131 16374 2.736192 CGCAGCCAAAGGGTAATTTTTG 59.264 45.455 0.00 0.00 36.17 2.44
2132 16375 3.738982 GCAGCCAAAGGGTAATTTTTGT 58.261 40.909 0.94 0.00 33.52 2.83
2222 16492 5.597806 CCCCACAAGTTAACCTTTCTTTTC 58.402 41.667 0.88 0.00 0.00 2.29
2224 16494 5.278604 CCACAAGTTAACCTTTCTTTTCGG 58.721 41.667 0.88 0.00 0.00 4.30
2225 16495 5.278604 CACAAGTTAACCTTTCTTTTCGGG 58.721 41.667 0.88 0.00 0.00 5.14
2239 16509 4.841443 TTTTCGGGAAAAGCTTACCTTC 57.159 40.909 18.01 10.65 35.57 3.46
2240 16510 3.495434 TTCGGGAAAAGCTTACCTTCA 57.505 42.857 18.01 4.45 32.55 3.02
2241 16511 2.774687 TCGGGAAAAGCTTACCTTCAC 58.225 47.619 18.01 10.93 32.55 3.18
2242 16512 1.810755 CGGGAAAAGCTTACCTTCACC 59.189 52.381 18.01 12.03 32.55 4.02
2243 16513 1.810755 GGGAAAAGCTTACCTTCACCG 59.189 52.381 18.01 0.00 31.91 4.94
2244 16514 1.810755 GGAAAAGCTTACCTTCACCGG 59.189 52.381 0.00 0.00 31.99 5.28
2245 16515 1.199327 GAAAAGCTTACCTTCACCGGC 59.801 52.381 0.00 0.00 31.99 6.13
2246 16516 0.608308 AAAGCTTACCTTCACCGGCC 60.608 55.000 0.00 0.00 31.99 6.13
2247 16517 2.798148 AAGCTTACCTTCACCGGCCG 62.798 60.000 21.04 21.04 0.00 6.13
2248 16518 2.975536 CTTACCTTCACCGGCCGA 59.024 61.111 30.73 2.89 0.00 5.54
2249 16519 1.520666 CTTACCTTCACCGGCCGAT 59.479 57.895 30.73 6.36 0.00 4.18
2250 16520 0.107848 CTTACCTTCACCGGCCGATT 60.108 55.000 30.73 10.67 0.00 3.34
2251 16521 0.391927 TTACCTTCACCGGCCGATTG 60.392 55.000 30.73 23.13 0.00 2.67
2252 16522 2.862674 TACCTTCACCGGCCGATTGC 62.863 60.000 30.73 0.00 40.16 3.56
2253 16523 3.864686 CTTCACCGGCCGATTGCG 61.865 66.667 30.73 12.43 42.61 4.85
2258 16528 4.612536 CCGGCCGATTGCGCATTC 62.613 66.667 30.73 19.74 42.61 2.67
2268 16538 2.895372 GCGCATTCCCGTCCGATT 60.895 61.111 0.30 0.00 0.00 3.34
2276 16546 2.234300 TCCCGTCCGATTTATGCTTC 57.766 50.000 0.00 0.00 0.00 3.86
2280 16550 2.155732 CCGTCCGATTTATGCTTCATCG 59.844 50.000 6.97 6.97 39.63 3.84
2300 16570 3.062466 CGGTCGAGAGCACTCCCA 61.062 66.667 5.52 0.00 39.76 4.37
2305 16575 2.336478 CGAGAGCACTCCCACGTCT 61.336 63.158 5.52 0.00 39.76 4.18
2359 16629 2.091885 TCTTGTTTCAGGACAGCCCTTT 60.092 45.455 0.00 0.00 44.85 3.11
2436 16706 3.655810 CTGGGAGTGTGAGCGGCTC 62.656 68.421 22.78 22.78 0.00 4.70
2487 16766 0.179018 GCGACTGGGGCTTATCCAAT 60.179 55.000 0.00 0.00 36.21 3.16
2519 16798 3.148279 GACTGGCTCGGGATCGGT 61.148 66.667 0.00 0.00 36.95 4.69
2614 18097 4.882671 TTCTCTTGTTTCTGCAACAGAC 57.117 40.909 0.00 0.00 46.37 3.51
2647 18130 0.036164 AAGTAACGAGTGGGCATGCA 59.964 50.000 21.36 0.00 0.00 3.96
2648 18131 0.673644 AGTAACGAGTGGGCATGCAC 60.674 55.000 21.36 18.25 0.00 4.57
2649 18132 0.953471 GTAACGAGTGGGCATGCACA 60.953 55.000 21.25 21.25 0.00 4.57
2662 18145 2.390938 CATGCACACTTGTTTCTGCAG 58.609 47.619 7.63 7.63 35.70 4.41
2664 18147 0.383231 GCACACTTGTTTCTGCAGCT 59.617 50.000 9.47 0.00 0.00 4.24
2669 18152 0.949397 CTTGTTTCTGCAGCTGAGCA 59.051 50.000 20.43 8.44 43.35 4.26
2694 18177 0.675083 TGCGGAAAGTAACGAGTGGA 59.325 50.000 0.00 0.00 0.00 4.02
2722 18206 2.355756 GTCTTGTTTCTGCAACAGAGCA 59.644 45.455 0.00 0.00 46.37 4.26
2728 18212 3.358707 TTCTGCAACAGAGCATTTGTG 57.641 42.857 0.00 0.00 44.68 3.33
2736 18220 1.068055 CAGAGCATTTGTGGCAGGAAC 60.068 52.381 0.00 0.00 0.00 3.62
2748 18232 0.320697 GCAGGAACTAACGAGTGGGT 59.679 55.000 0.00 0.00 36.02 4.51
2759 18243 0.806102 CGAGTGGGTATGCGGTCTTG 60.806 60.000 0.00 0.00 0.00 3.02
2793 18277 3.018149 AGCGTTTGTTGTGGGAAGTAAA 58.982 40.909 0.00 0.00 0.00 2.01
2812 19091 1.656587 AGAGTGGGCATGTGGTCTTA 58.343 50.000 0.00 0.00 0.00 2.10
2846 19130 3.018149 AGCGTTTGTTGTGGGAAGTAAA 58.982 40.909 0.00 0.00 0.00 2.01
2858 19142 2.290960 GGGAAGTAAAGAGTGGGCATGT 60.291 50.000 0.00 0.00 0.00 3.21
2935 19327 2.609491 GGTGCGAACACTACATCAGACA 60.609 50.000 0.00 0.00 46.57 3.41
3015 19408 3.556633 CGAGGATAGGAAGACGCCTACTA 60.557 52.174 0.00 0.00 43.00 1.82
3028 19421 2.298610 GCCTACTATTGGAACTTGGCC 58.701 52.381 0.00 0.00 33.66 5.36
3040 19433 4.346418 TGGAACTTGGCCAACAAATACAAT 59.654 37.500 16.05 0.00 38.91 2.71
3044 19437 5.481105 ACTTGGCCAACAAATACAATCATG 58.519 37.500 16.05 1.72 38.91 3.07
3047 19440 5.862845 TGGCCAACAAATACAATCATGTTT 58.137 33.333 0.61 0.00 41.05 2.83
3056 19449 8.464404 ACAAATACAATCATGTTTGAGATGAGG 58.536 33.333 20.66 10.03 41.05 3.86
3061 19454 8.130671 ACAATCATGTTTGAGATGAGGAAAAT 57.869 30.769 20.66 0.00 35.91 1.82
3067 19460 8.853345 CATGTTTGAGATGAGGAAAATAAAACG 58.147 33.333 0.00 0.00 0.00 3.60
3070 19463 6.182039 TGAGATGAGGAAAATAAAACGCAG 57.818 37.500 0.00 0.00 0.00 5.18
3078 19471 2.566952 AATAAAACGCAGGCAGCATC 57.433 45.000 1.96 0.00 46.13 3.91
3132 19526 2.203280 CAACAGTTGGGCCCGTCA 60.203 61.111 19.37 0.00 0.00 4.35
3146 19540 0.675522 CCGTCAAGCCCATACCGTTT 60.676 55.000 0.00 0.00 0.00 3.60
3153 19547 1.032014 GCCCATACCGTTTGATGCAT 58.968 50.000 0.00 0.00 0.00 3.96
3201 19621 1.135083 CCTGCATCGTCGTCTACCTTT 60.135 52.381 0.00 0.00 0.00 3.11
3388 19860 4.113815 CCGCCCCCTCTCATGCAA 62.114 66.667 0.00 0.00 0.00 4.08
3424 19900 3.119280 CCAACAAAGAAAAACGACCCTGT 60.119 43.478 0.00 0.00 0.00 4.00
3469 19945 4.537433 GCTCCGCCGAGAAGCCAT 62.537 66.667 6.23 0.00 38.52 4.40
3470 19946 2.187946 CTCCGCCGAGAAGCCATT 59.812 61.111 0.00 0.00 38.52 3.16
3484 19960 3.981071 AGCCATTGCAGTAGTCAGTTA 57.019 42.857 0.00 0.00 41.13 2.24
3510 19986 0.605319 TGGTGAGGTGCCGATTCAAC 60.605 55.000 0.00 0.00 0.00 3.18
3521 19997 2.287368 GCCGATTCAACCTTTTTGTCGT 60.287 45.455 0.00 0.00 0.00 4.34
3530 20076 2.169769 ACCTTTTTGTCGTGGTCTCTGA 59.830 45.455 0.00 0.00 0.00 3.27
3626 20174 5.178797 GGTTGAAGCTTTCTATACAGCTGA 58.821 41.667 23.35 4.31 46.01 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
18 19 6.434340 GGTTGATGGATTGAACTTTAAGGACT 59.566 38.462 0.00 0.00 0.00 3.85
55 8540 3.380637 CCATTGAGCCTTCATTTCTCCTG 59.619 47.826 0.00 0.00 32.27 3.86
87 8572 2.798976 TTCAGCAAGTGCCAATTGAC 57.201 45.000 9.37 0.00 43.38 3.18
90 8575 2.494870 GGAGATTCAGCAAGTGCCAATT 59.505 45.455 0.00 0.00 43.38 2.32
294 9044 7.496920 TGATCAAGGTGAATCTAAATGCTACTG 59.503 37.037 0.00 0.00 0.00 2.74
295 9045 7.568349 TGATCAAGGTGAATCTAAATGCTACT 58.432 34.615 0.00 0.00 0.00 2.57
296 9046 7.792374 TGATCAAGGTGAATCTAAATGCTAC 57.208 36.000 0.00 0.00 0.00 3.58
297 9047 8.212995 TGATGATCAAGGTGAATCTAAATGCTA 58.787 33.333 0.00 0.00 0.00 3.49
298 9048 7.058525 TGATGATCAAGGTGAATCTAAATGCT 58.941 34.615 0.00 0.00 0.00 3.79
314 9064 8.634335 TGATTAGAAACCTTGTTGATGATCAA 57.366 30.769 3.29 3.29 33.32 2.57
345 9330 7.067981 GCAGATACTCCAGAATTCCTGAAAAAT 59.932 37.037 0.65 0.00 45.78 1.82
352 9338 3.135530 GTGGCAGATACTCCAGAATTCCT 59.864 47.826 0.65 0.00 32.15 3.36
402 9398 1.680338 AAGTCAAAGACCCAGCACAC 58.320 50.000 0.00 0.00 32.18 3.82
418 9414 2.906389 TCACAGACATCTAGCCCAAAGT 59.094 45.455 0.00 0.00 0.00 2.66
429 9425 5.330455 TGAGGTGTATTCTCACAGACATC 57.670 43.478 0.00 0.00 39.76 3.06
497 11006 0.877743 GTTCTGCAACCAAGAGAGGC 59.122 55.000 0.00 0.00 0.00 4.70
599 11110 4.143158 GCATGTGCTGATCGATAAGTCATC 60.143 45.833 11.55 7.37 38.21 2.92
602 11113 3.126073 TGCATGTGCTGATCGATAAGTC 58.874 45.455 11.55 4.68 42.66 3.01
614 11125 1.624336 ACTGGTTGATTGCATGTGCT 58.376 45.000 6.55 0.00 42.66 4.40
629 11140 2.890311 TGTGCCTTTTGGTATGAACTGG 59.110 45.455 0.00 0.00 42.99 4.00
636 11147 2.289010 GCTGCTTTGTGCCTTTTGGTAT 60.289 45.455 0.00 0.00 42.99 2.73
663 11174 1.545136 TCGCATAAGTGGTACGTGGAA 59.455 47.619 0.00 0.00 0.00 3.53
667 11178 3.057033 ACTTCTTCGCATAAGTGGTACGT 60.057 43.478 0.00 0.00 34.70 3.57
670 11181 5.047847 GCATACTTCTTCGCATAAGTGGTA 58.952 41.667 0.00 4.26 36.62 3.25
671 11182 3.871594 GCATACTTCTTCGCATAAGTGGT 59.128 43.478 0.00 2.64 36.62 4.16
672 11183 3.871006 TGCATACTTCTTCGCATAAGTGG 59.129 43.478 0.00 0.00 36.62 4.00
674 11185 5.011090 TCTGCATACTTCTTCGCATAAGT 57.989 39.130 0.00 0.00 39.25 2.24
675 11186 4.084641 GCTCTGCATACTTCTTCGCATAAG 60.085 45.833 0.00 0.00 33.15 1.73
676 11187 3.804325 GCTCTGCATACTTCTTCGCATAA 59.196 43.478 0.00 0.00 33.15 1.90
677 11188 3.181476 TGCTCTGCATACTTCTTCGCATA 60.181 43.478 0.00 0.00 31.71 3.14
679 11190 1.066929 TGCTCTGCATACTTCTTCGCA 60.067 47.619 0.00 0.00 31.71 5.10
680 11191 1.592081 CTGCTCTGCATACTTCTTCGC 59.408 52.381 0.00 0.00 38.13 4.70
681 11192 2.200067 CCTGCTCTGCATACTTCTTCG 58.800 52.381 0.00 0.00 38.13 3.79
682 11193 3.258971 ACCTGCTCTGCATACTTCTTC 57.741 47.619 0.00 0.00 38.13 2.87
683 11194 3.341823 CAACCTGCTCTGCATACTTCTT 58.658 45.455 0.00 0.00 38.13 2.52
684 11195 2.355513 CCAACCTGCTCTGCATACTTCT 60.356 50.000 0.00 0.00 38.13 2.85
685 11196 2.012673 CCAACCTGCTCTGCATACTTC 58.987 52.381 0.00 0.00 38.13 3.01
686 11197 1.352352 ACCAACCTGCTCTGCATACTT 59.648 47.619 0.00 0.00 38.13 2.24
687 11198 0.987294 ACCAACCTGCTCTGCATACT 59.013 50.000 0.00 0.00 38.13 2.12
688 11199 1.089920 CACCAACCTGCTCTGCATAC 58.910 55.000 0.00 0.00 38.13 2.39
689 11200 0.035152 CCACCAACCTGCTCTGCATA 60.035 55.000 0.00 0.00 38.13 3.14
690 11201 1.303888 CCACCAACCTGCTCTGCAT 60.304 57.895 0.00 0.00 38.13 3.96
691 11202 2.113774 CCACCAACCTGCTCTGCA 59.886 61.111 0.00 0.00 36.92 4.41
692 11203 1.673665 CTCCACCAACCTGCTCTGC 60.674 63.158 0.00 0.00 0.00 4.26
693 11204 0.397941 TTCTCCACCAACCTGCTCTG 59.602 55.000 0.00 0.00 0.00 3.35
745 11257 1.815421 CGCAGCGCCAAGAGGTTAT 60.815 57.895 2.29 0.00 37.19 1.89
746 11258 2.434185 CGCAGCGCCAAGAGGTTA 60.434 61.111 2.29 0.00 37.19 2.85
770 11282 1.470098 CAGGCATGAGTGGTTTGCTAC 59.530 52.381 0.00 0.00 36.62 3.58
786 11298 1.004080 TGAAGTCTCTGCAGCAGGC 60.004 57.895 22.62 12.65 45.13 4.85
787 11299 0.321021 ACTGAAGTCTCTGCAGCAGG 59.679 55.000 22.62 12.98 40.68 4.85
789 11301 2.158914 TCAAACTGAAGTCTCTGCAGCA 60.159 45.455 9.47 0.00 40.68 4.41
790 11302 2.487934 TCAAACTGAAGTCTCTGCAGC 58.512 47.619 9.47 0.00 40.68 5.25
791 11303 4.083431 CCAATCAAACTGAAGTCTCTGCAG 60.083 45.833 7.63 7.63 42.60 4.41
792 11304 3.817084 CCAATCAAACTGAAGTCTCTGCA 59.183 43.478 0.00 0.00 0.00 4.41
793 11305 3.190118 CCCAATCAAACTGAAGTCTCTGC 59.810 47.826 0.00 0.00 0.00 4.26
794 11306 4.645535 TCCCAATCAAACTGAAGTCTCTG 58.354 43.478 0.00 0.00 0.00 3.35
795 11307 4.982241 TCCCAATCAAACTGAAGTCTCT 57.018 40.909 0.00 0.00 0.00 3.10
806 11318 7.595819 AGATACTGTTGTTTTCCCAATCAAA 57.404 32.000 0.00 0.00 0.00 2.69
808 11320 7.432869 CAAAGATACTGTTGTTTTCCCAATCA 58.567 34.615 0.00 0.00 0.00 2.57
809 11321 6.366061 GCAAAGATACTGTTGTTTTCCCAATC 59.634 38.462 0.00 0.00 0.00 2.67
811 11323 5.127845 TGCAAAGATACTGTTGTTTTCCCAA 59.872 36.000 0.00 0.00 0.00 4.12
815 11327 7.518731 TTGTTGCAAAGATACTGTTGTTTTC 57.481 32.000 0.00 0.00 0.00 2.29
834 11346 2.299582 TCCTGGTTCATTGGCATTGTTG 59.700 45.455 9.03 0.00 0.00 3.33
835 11347 2.607499 TCCTGGTTCATTGGCATTGTT 58.393 42.857 9.03 0.00 0.00 2.83
836 11348 2.299867 GTTCCTGGTTCATTGGCATTGT 59.700 45.455 9.03 0.00 0.00 2.71
837 11349 2.299582 TGTTCCTGGTTCATTGGCATTG 59.700 45.455 3.01 3.01 0.00 2.82
850 13804 2.874701 CTGAAGACACTGTTGTTCCTGG 59.125 50.000 0.00 0.00 35.47 4.45
853 13807 4.439057 TGTACTGAAGACACTGTTGTTCC 58.561 43.478 0.00 0.00 35.47 3.62
857 13811 8.142994 AGTTTATTGTACTGAAGACACTGTTG 57.857 34.615 0.00 0.00 0.00 3.33
863 13817 8.725405 TTTGTGAGTTTATTGTACTGAAGACA 57.275 30.769 0.00 0.00 0.00 3.41
868 13822 7.255104 CCTTGCTTTGTGAGTTTATTGTACTGA 60.255 37.037 0.00 0.00 0.00 3.41
871 13825 5.629435 GCCTTGCTTTGTGAGTTTATTGTAC 59.371 40.000 0.00 0.00 0.00 2.90
872 13826 5.300539 TGCCTTGCTTTGTGAGTTTATTGTA 59.699 36.000 0.00 0.00 0.00 2.41
901 15053 9.213799 CTCTCTTAGATGCAAAATTATACCCTC 57.786 37.037 0.00 0.00 0.00 4.30
926 15102 6.020881 AGACTAAGAGTAATCTGGGTAGCT 57.979 41.667 0.00 0.00 0.00 3.32
987 15163 3.890756 TCATGGCCATGTCATTGGATAAC 59.109 43.478 38.18 0.00 39.25 1.89
1074 15267 0.677731 CCTTGCCGGCAAATCTGAGA 60.678 55.000 38.96 17.82 35.33 3.27
1341 15534 0.101219 GCGTGGAAGAAATGGATGCC 59.899 55.000 0.00 0.00 0.00 4.40
1611 15816 1.076332 GGAACGATTCCTTCACCGTG 58.924 55.000 8.87 0.00 46.57 4.94
1660 15865 4.634443 GGCGTACAGTACCTTCATCAAAAT 59.366 41.667 5.07 0.00 0.00 1.82
2066 16306 0.038892 GCAGCAACAACCCACATCAG 60.039 55.000 0.00 0.00 0.00 2.90
2088 16328 4.439563 CGCAAAACCCTCGCCTAAATTAAT 60.440 41.667 0.00 0.00 0.00 1.40
2089 16329 3.119779 CGCAAAACCCTCGCCTAAATTAA 60.120 43.478 0.00 0.00 0.00 1.40
2091 16331 1.201414 CGCAAAACCCTCGCCTAAATT 59.799 47.619 0.00 0.00 0.00 1.82
2131 16374 6.170506 ACCCTTTGGTTTTCTCAAAAGAAAC 58.829 36.000 0.26 0.00 44.75 2.78
2132 16375 6.367374 ACCCTTTGGTTTTCTCAAAAGAAA 57.633 33.333 0.00 0.00 44.75 2.52
2222 16492 1.810755 GGTGAAGGTAAGCTTTTCCCG 59.189 52.381 3.20 0.00 0.00 5.14
2224 16494 1.810755 CCGGTGAAGGTAAGCTTTTCC 59.189 52.381 3.20 8.30 0.00 3.13
2225 16495 1.199327 GCCGGTGAAGGTAAGCTTTTC 59.801 52.381 3.20 3.03 0.00 2.29
2230 16500 2.588856 ATCGGCCGGTGAAGGTAAGC 62.589 60.000 27.83 0.00 0.00 3.09
2231 16501 0.107848 AATCGGCCGGTGAAGGTAAG 60.108 55.000 27.83 0.00 0.00 2.34
2232 16502 0.391927 CAATCGGCCGGTGAAGGTAA 60.392 55.000 27.83 1.69 0.00 2.85
2234 16504 2.046314 CAATCGGCCGGTGAAGGT 60.046 61.111 27.83 0.00 0.00 3.50
2235 16505 3.508840 GCAATCGGCCGGTGAAGG 61.509 66.667 27.83 10.38 36.11 3.46
2236 16506 3.864686 CGCAATCGGCCGGTGAAG 61.865 66.667 27.83 13.55 40.31 3.02
2241 16511 4.612536 GAATGCGCAATCGGCCGG 62.613 66.667 27.83 10.87 40.31 6.13
2242 16512 4.612536 GGAATGCGCAATCGGCCG 62.613 66.667 22.12 22.12 40.31 6.13
2243 16513 4.270376 GGGAATGCGCAATCGGCC 62.270 66.667 17.11 9.82 40.31 6.13
2244 16514 4.612536 CGGGAATGCGCAATCGGC 62.613 66.667 17.11 3.30 39.90 5.54
2245 16515 3.168237 GACGGGAATGCGCAATCGG 62.168 63.158 17.11 13.88 35.95 4.18
2246 16516 2.324477 GACGGGAATGCGCAATCG 59.676 61.111 17.11 17.98 39.07 3.34
2247 16517 2.715624 GGACGGGAATGCGCAATC 59.284 61.111 17.11 17.19 0.00 2.67
2248 16518 2.940890 ATCGGACGGGAATGCGCAAT 62.941 55.000 17.11 5.60 32.82 3.56
2249 16519 3.673956 ATCGGACGGGAATGCGCAA 62.674 57.895 17.11 0.00 32.82 4.85
2250 16520 3.673956 AATCGGACGGGAATGCGCA 62.674 57.895 14.96 14.96 32.82 6.09
2251 16521 1.155424 TAAATCGGACGGGAATGCGC 61.155 55.000 0.00 0.00 32.82 6.09
2252 16522 1.194547 CATAAATCGGACGGGAATGCG 59.805 52.381 0.00 0.00 34.29 4.73
2253 16523 1.069227 GCATAAATCGGACGGGAATGC 60.069 52.381 0.00 0.00 0.00 3.56
2254 16524 2.494059 AGCATAAATCGGACGGGAATG 58.506 47.619 0.00 0.00 0.00 2.67
2255 16525 2.930826 AGCATAAATCGGACGGGAAT 57.069 45.000 0.00 0.00 0.00 3.01
2256 16526 2.093394 TGAAGCATAAATCGGACGGGAA 60.093 45.455 0.00 0.00 0.00 3.97
2257 16527 1.483004 TGAAGCATAAATCGGACGGGA 59.517 47.619 0.00 0.00 0.00 5.14
2258 16528 1.948104 TGAAGCATAAATCGGACGGG 58.052 50.000 0.00 0.00 0.00 5.28
2268 16538 1.535226 CGACCGTCCGATGAAGCATAA 60.535 52.381 0.00 0.00 0.00 1.90
2276 16546 2.024871 GCTCTCGACCGTCCGATG 59.975 66.667 0.00 0.00 37.96 3.84
2280 16550 2.486042 GAGTGCTCTCGACCGTCC 59.514 66.667 0.00 0.00 0.00 4.79
2300 16570 4.363990 CACGCCTCCAGCAGACGT 62.364 66.667 0.00 0.00 44.04 4.34
2305 16575 2.933878 AAACGAACACGCCTCCAGCA 62.934 55.000 0.00 0.00 44.04 4.41
2359 16629 3.307691 CCCTTCTGTTATCCAGTTGCAGA 60.308 47.826 0.00 0.00 42.19 4.26
2382 16652 1.005215 CTTCTGCAGGATGAAACCCCT 59.995 52.381 15.13 0.00 39.69 4.79
2383 16653 1.467920 CTTCTGCAGGATGAAACCCC 58.532 55.000 15.13 0.00 39.69 4.95
2463 16742 1.645402 ATAAGCCCCAGTCGCCCAAT 61.645 55.000 0.00 0.00 0.00 3.16
2531 16810 2.490217 CGTACCTGCTGGAGTCGG 59.510 66.667 17.64 0.00 37.04 4.79
2538 16817 3.074412 AGAAAATGAACCGTACCTGCTG 58.926 45.455 0.00 0.00 0.00 4.41
2614 18097 2.667171 CGTTACTTCCCGCAACAAATGG 60.667 50.000 0.00 0.00 0.00 3.16
2647 18130 1.945394 CTCAGCTGCAGAAACAAGTGT 59.055 47.619 20.43 0.00 0.00 3.55
2648 18131 1.334779 GCTCAGCTGCAGAAACAAGTG 60.335 52.381 20.43 2.34 0.00 3.16
2649 18132 0.950116 GCTCAGCTGCAGAAACAAGT 59.050 50.000 20.43 0.00 0.00 3.16
2669 18152 3.562557 ACTCGTTACTTTCCGCAACAAAT 59.437 39.130 0.00 0.00 0.00 2.32
2680 18163 3.067106 CTGCATGTCCACTCGTTACTTT 58.933 45.455 0.00 0.00 0.00 2.66
2722 18206 3.074412 CTCGTTAGTTCCTGCCACAAAT 58.926 45.455 0.00 0.00 0.00 2.32
2728 18212 0.391263 CCCACTCGTTAGTTCCTGCC 60.391 60.000 0.00 0.00 31.97 4.85
2736 18220 0.458669 ACCGCATACCCACTCGTTAG 59.541 55.000 0.00 0.00 0.00 2.34
2748 18232 2.177394 TGCAGAAACAAGACCGCATA 57.823 45.000 0.00 0.00 0.00 3.14
2759 18243 2.111756 CAAACGCTCTGTTGCAGAAAC 58.888 47.619 0.37 0.00 40.18 2.78
2793 18277 1.656587 TAAGACCACATGCCCACTCT 58.343 50.000 0.00 0.00 0.00 3.24
2812 19091 2.358898 ACAAACGCTCTGTTGCAGAAAT 59.641 40.909 0.37 0.00 40.18 2.17
2836 19115 1.440618 TGCCCACTCTTTACTTCCCA 58.559 50.000 0.00 0.00 0.00 4.37
2846 19130 0.037303 CAAGACCACATGCCCACTCT 59.963 55.000 0.00 0.00 0.00 3.24
2935 19327 0.394565 GGATGCCCGAGCTCATAGTT 59.605 55.000 15.40 0.00 40.80 2.24
3015 19408 4.346418 TGTATTTGTTGGCCAAGTTCCAAT 59.654 37.500 21.21 13.08 44.49 3.16
3028 19421 9.628746 TCATCTCAAACATGATTGTATTTGTTG 57.371 29.630 14.54 6.82 34.06 3.33
3040 19433 9.912634 GTTTTATTTTCCTCATCTCAAACATGA 57.087 29.630 0.00 0.00 0.00 3.07
3044 19437 6.861055 TGCGTTTTATTTTCCTCATCTCAAAC 59.139 34.615 0.00 0.00 0.00 2.93
3047 19440 5.123820 CCTGCGTTTTATTTTCCTCATCTCA 59.876 40.000 0.00 0.00 0.00 3.27
3056 19449 2.671596 TGCTGCCTGCGTTTTATTTTC 58.328 42.857 0.00 0.00 46.63 2.29
3061 19454 1.462616 ATGATGCTGCCTGCGTTTTA 58.537 45.000 0.00 0.00 46.63 1.52
3132 19526 1.102978 GCATCAAACGGTATGGGCTT 58.897 50.000 0.00 0.00 0.00 4.35
3140 19534 0.527565 GAGGCAATGCATCAAACGGT 59.472 50.000 15.41 0.00 39.28 4.83
3146 19540 0.971959 GGTTGGGAGGCAATGCATCA 60.972 55.000 21.52 0.00 41.39 3.07
3153 19547 1.488705 ATCTGACGGTTGGGAGGCAA 61.489 55.000 0.00 0.00 0.00 4.52
3201 19621 1.001520 TCGAGGGAAAAGATGACGCAA 59.998 47.619 0.00 0.00 0.00 4.85
3331 19803 3.605749 AACAGGTGACCGGCGATGG 62.606 63.158 9.30 0.00 0.00 3.51
3332 19804 2.047274 AACAGGTGACCGGCGATG 60.047 61.111 9.30 0.00 0.00 3.84
3333 19805 2.047274 CAACAGGTGACCGGCGAT 60.047 61.111 9.30 0.00 0.00 4.58
3334 19806 4.308458 CCAACAGGTGACCGGCGA 62.308 66.667 9.30 0.00 0.00 5.54
3340 19812 2.621763 CTGTGCTCCAACAGGTGAC 58.378 57.895 0.00 0.00 43.22 3.67
3424 19900 1.975407 GACGAACTCCAGGGACCGA 60.975 63.158 0.00 0.00 0.00 4.69
3469 19945 5.643348 CCATTGATGTAACTGACTACTGCAA 59.357 40.000 0.00 0.00 0.00 4.08
3470 19946 5.178061 CCATTGATGTAACTGACTACTGCA 58.822 41.667 0.00 0.00 0.00 4.41
3484 19960 0.677731 CGGCACCTCACCATTGATGT 60.678 55.000 0.00 0.00 31.28 3.06
3510 19986 2.833794 TCAGAGACCACGACAAAAAGG 58.166 47.619 0.00 0.00 0.00 3.11
3521 19997 4.717877 TGAAAAGCTTCAATCAGAGACCA 58.282 39.130 0.00 0.00 38.65 4.02
3530 20076 7.233348 TCAACCCTATTTCTGAAAAGCTTCAAT 59.767 33.333 6.95 0.00 41.05 2.57
3593 20140 1.276622 AGCTTCAACCCCGTGAGTAT 58.723 50.000 0.00 0.00 0.00 2.12
3599 20146 3.262405 TGTATAGAAAGCTTCAACCCCGT 59.738 43.478 0.00 0.00 0.00 5.28


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

AutoCloner maintained by Alex Coulton.