Multiple sequence alignment - TraesCS1D01G125500

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 TraesCS1D01G125500 chr1D 100.000 6262 0 0 1 6262 134674553 134680814 0.000000e+00 11564
1 TraesCS1D01G125500 chr1D 87.303 953 84 20 1 918 6372090 6371140 0.000000e+00 1055
2 TraesCS1D01G125500 chr1D 86.604 851 84 14 82 919 431051006 431050173 0.000000e+00 913
3 TraesCS1D01G125500 chr1D 85.010 954 77 24 1 918 490426515 490425592 0.000000e+00 909
4 TraesCS1D01G125500 chr1D 91.975 486 24 1 1 471 205089725 205090210 0.000000e+00 667
5 TraesCS1D01G125500 chr1D 85.811 592 50 20 373 932 77743963 77743374 1.160000e-166 597
6 TraesCS1D01G125500 chr1D 93.607 219 11 3 5625 5842 320973700 320973484 2.180000e-84 324
7 TraesCS1D01G125500 chr1B 96.562 4654 104 19 918 5540 201753763 201758391 0.000000e+00 7657
8 TraesCS1D01G125500 chr1B 92.479 359 21 4 5848 6205 201758553 201758906 5.600000e-140 508
9 TraesCS1D01G125500 chr1B 94.737 209 10 1 5625 5832 660983631 660983839 2.180000e-84 324
10 TraesCS1D01G125500 chr1B 97.183 71 0 1 5539 5607 389004946 389004876 1.100000e-22 119
11 TraesCS1D01G125500 chr1A 96.521 4657 102 20 924 5540 163397303 163392667 0.000000e+00 7648
12 TraesCS1D01G125500 chr1A 91.646 395 20 10 5837 6230 163392673 163392291 9.240000e-148 534
13 TraesCS1D01G125500 chr1A 97.183 71 0 1 5539 5607 73775662 73775732 1.100000e-22 119
14 TraesCS1D01G125500 chr4D 89.738 955 62 10 1 919 231205125 231204171 0.000000e+00 1188
15 TraesCS1D01G125500 chr2D 89.215 955 67 7 1 919 528991970 528992924 0.000000e+00 1160
16 TraesCS1D01G125500 chr2D 90.746 778 46 4 1 753 395264210 395263434 0.000000e+00 1014
17 TraesCS1D01G125500 chr2D 95.122 82 1 2 5529 5607 13627817 13627898 6.590000e-25 126
18 TraesCS1D01G125500 chr2D 97.183 71 0 1 5539 5607 647430390 647430460 1.100000e-22 119
19 TraesCS1D01G125500 chr6D 89.286 952 65 16 1 917 22241084 22242033 0.000000e+00 1158
20 TraesCS1D01G125500 chr6D 87.971 956 78 9 1 919 162123565 162122610 0.000000e+00 1094
21 TraesCS1D01G125500 chr6D 85.414 953 79 20 1 918 85097679 85098606 0.000000e+00 935
22 TraesCS1D01G125500 chr6D 88.684 380 24 10 1 363 389624816 389625193 4.450000e-121 446
23 TraesCS1D01G125500 chr3D 89.278 942 74 10 1 918 298982848 298983786 0.000000e+00 1155
24 TraesCS1D01G125500 chr3D 94.737 209 10 1 5625 5832 470722265 470722473 2.180000e-84 324
25 TraesCS1D01G125500 chr5D 89.407 944 57 8 1 918 424797917 424798843 0.000000e+00 1149
26 TraesCS1D01G125500 chr5D 88.711 939 63 20 1 902 112054247 112055179 0.000000e+00 1107
27 TraesCS1D01G125500 chr5D 87.833 526 44 9 411 918 440637313 440637836 3.230000e-167 599
28 TraesCS1D01G125500 chr4A 88.795 946 76 10 1 918 482140637 482141580 0.000000e+00 1133
29 TraesCS1D01G125500 chr4A 92.478 226 14 3 5625 5847 88419800 88419575 2.820000e-83 320
30 TraesCS1D01G125500 chr4A 97.183 71 0 1 5539 5607 167468862 167468792 1.100000e-22 119
31 TraesCS1D01G125500 chr7B 86.054 882 106 13 51 918 523737869 523738747 0.000000e+00 931
32 TraesCS1D01G125500 chr2A 85.042 956 95 19 1 918 43456872 43457817 0.000000e+00 929
33 TraesCS1D01G125500 chr2A 94.737 209 10 1 5625 5832 81020473 81020265 2.180000e-84 324
34 TraesCS1D01G125500 chr2A 94.737 209 10 1 5625 5832 194475303 194475095 2.180000e-84 324
35 TraesCS1D01G125500 chr6B 84.737 950 109 13 1 919 183359049 183358105 0.000000e+00 918
36 TraesCS1D01G125500 chr6B 97.222 72 0 1 5538 5607 557418968 557419039 3.070000e-23 121
37 TraesCS1D01G125500 chrUn 84.607 955 107 23 1 918 326390195 326389244 0.000000e+00 913
38 TraesCS1D01G125500 chrUn 84.607 955 107 22 1 918 384902779 384901828 0.000000e+00 913
39 TraesCS1D01G125500 chrUn 99.219 384 3 0 2608 2991 480934145 480934528 0.000000e+00 693
40 TraesCS1D01G125500 chrUn 87.067 549 52 7 1 531 387787041 387787588 2.500000e-168 603
41 TraesCS1D01G125500 chrUn 88.037 326 22 6 1 310 475025790 475025466 2.760000e-98 370
42 TraesCS1D01G125500 chr7D 91.449 573 40 5 51 614 65868534 65869106 0.000000e+00 778
43 TraesCS1D01G125500 chr5A 94.444 216 10 2 5625 5838 552330175 552329960 1.300000e-86 331
44 TraesCS1D01G125500 chr5A 94.660 206 10 1 5628 5832 54462172 54461967 1.010000e-82 318
45 TraesCS1D01G125500 chr5A 96.053 76 0 2 5534 5607 546819574 546819500 3.070000e-23 121
46 TraesCS1D01G125500 chr3A 94.762 210 9 2 5625 5832 221915939 221916148 6.050000e-85 326
47 TraesCS1D01G125500 chr3A 95.946 74 1 1 5536 5607 741985535 741985608 1.100000e-22 119
48 TraesCS1D01G125500 chr5B 97.183 71 0 1 5539 5607 82463634 82463704 1.100000e-22 119


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 TraesCS1D01G125500 chr1D 134674553 134680814 6261 False 11564.0 11564 100.0000 1 6262 1 chr1D.!!$F1 6261
1 TraesCS1D01G125500 chr1D 6371140 6372090 950 True 1055.0 1055 87.3030 1 918 1 chr1D.!!$R1 917
2 TraesCS1D01G125500 chr1D 431050173 431051006 833 True 913.0 913 86.6040 82 919 1 chr1D.!!$R4 837
3 TraesCS1D01G125500 chr1D 490425592 490426515 923 True 909.0 909 85.0100 1 918 1 chr1D.!!$R5 917
4 TraesCS1D01G125500 chr1D 77743374 77743963 589 True 597.0 597 85.8110 373 932 1 chr1D.!!$R2 559
5 TraesCS1D01G125500 chr1B 201753763 201758906 5143 False 4082.5 7657 94.5205 918 6205 2 chr1B.!!$F2 5287
6 TraesCS1D01G125500 chr1A 163392291 163397303 5012 True 4091.0 7648 94.0835 924 6230 2 chr1A.!!$R1 5306
7 TraesCS1D01G125500 chr4D 231204171 231205125 954 True 1188.0 1188 89.7380 1 919 1 chr4D.!!$R1 918
8 TraesCS1D01G125500 chr2D 528991970 528992924 954 False 1160.0 1160 89.2150 1 919 1 chr2D.!!$F2 918
9 TraesCS1D01G125500 chr2D 395263434 395264210 776 True 1014.0 1014 90.7460 1 753 1 chr2D.!!$R1 752
10 TraesCS1D01G125500 chr6D 22241084 22242033 949 False 1158.0 1158 89.2860 1 917 1 chr6D.!!$F1 916
11 TraesCS1D01G125500 chr6D 162122610 162123565 955 True 1094.0 1094 87.9710 1 919 1 chr6D.!!$R1 918
12 TraesCS1D01G125500 chr6D 85097679 85098606 927 False 935.0 935 85.4140 1 918 1 chr6D.!!$F2 917
13 TraesCS1D01G125500 chr3D 298982848 298983786 938 False 1155.0 1155 89.2780 1 918 1 chr3D.!!$F1 917
14 TraesCS1D01G125500 chr5D 424797917 424798843 926 False 1149.0 1149 89.4070 1 918 1 chr5D.!!$F2 917
15 TraesCS1D01G125500 chr5D 112054247 112055179 932 False 1107.0 1107 88.7110 1 902 1 chr5D.!!$F1 901
16 TraesCS1D01G125500 chr5D 440637313 440637836 523 False 599.0 599 87.8330 411 918 1 chr5D.!!$F3 507
17 TraesCS1D01G125500 chr4A 482140637 482141580 943 False 1133.0 1133 88.7950 1 918 1 chr4A.!!$F1 917
18 TraesCS1D01G125500 chr7B 523737869 523738747 878 False 931.0 931 86.0540 51 918 1 chr7B.!!$F1 867
19 TraesCS1D01G125500 chr2A 43456872 43457817 945 False 929.0 929 85.0420 1 918 1 chr2A.!!$F1 917
20 TraesCS1D01G125500 chr6B 183358105 183359049 944 True 918.0 918 84.7370 1 919 1 chr6B.!!$R1 918
21 TraesCS1D01G125500 chrUn 326389244 326390195 951 True 913.0 913 84.6070 1 918 1 chrUn.!!$R1 917
22 TraesCS1D01G125500 chrUn 384901828 384902779 951 True 913.0 913 84.6070 1 918 1 chrUn.!!$R2 917
23 TraesCS1D01G125500 chrUn 387787041 387787588 547 False 603.0 603 87.0670 1 531 1 chrUn.!!$F1 530
24 TraesCS1D01G125500 chr7D 65868534 65869106 572 False 778.0 778 91.4490 51 614 1 chr7D.!!$F1 563

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
318 336 0.249031 CACTGTATGAGCGGCATCGA 60.249 55.000 1.45 0.00 38.44 3.59 F
910 992 1.220749 GATGCGGGGTGTGCTAGAA 59.779 57.895 0.00 0.00 0.00 2.10 F
2519 2636 0.183492 ATGACTGGCCACAACACTGT 59.817 50.000 0.00 0.00 35.63 3.55 F
3193 3311 2.029623 CAATGCCTAAAGCTGATGCCT 58.970 47.619 0.00 0.00 44.23 4.75 F
4214 4336 0.179161 GGTCACGACATCAGAGGACG 60.179 60.000 5.41 5.41 0.00 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1494 1576 1.338020 CCGCTTTGCCTTTTTCTGAGT 59.662 47.619 0.00 0.00 0.00 3.41 R
2727 2844 2.007113 CTGCTGGTGCTGTTTGTGCA 62.007 55.000 0.00 0.00 40.48 4.57 R
4214 4336 2.004583 TTGTGGGATCGATTCGTGAC 57.995 50.000 5.89 0.00 0.00 3.67 R
4972 5096 0.588252 TTTCAGAAAGACTGCGCTGC 59.412 50.000 14.80 7.36 45.38 5.25 R
5559 5685 0.106015 AATAGGGCTCCAATGCACCC 60.106 55.000 0.00 0.00 43.17 4.61 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
151 167 6.260050 ACAAAAGAATGAGCAAGTTCGAAGTA 59.740 34.615 5.80 0.00 0.00 2.24
210 228 1.082117 GCTACCGCAAGTGCACGTAT 61.082 55.000 12.01 0.00 42.21 3.06
318 336 0.249031 CACTGTATGAGCGGCATCGA 60.249 55.000 1.45 0.00 38.44 3.59
335 353 2.029844 GACAAGCCACAGAGACGCC 61.030 63.158 0.00 0.00 0.00 5.68
389 407 3.679738 CCATGCCCGCAAACCGTT 61.680 61.111 0.00 0.00 34.38 4.44
519 551 1.471287 GAAAAAGCTAAATCCGGCGGT 59.529 47.619 27.32 9.60 0.00 5.68
715 796 4.278513 CCCCACCAACCGCTTCCA 62.279 66.667 0.00 0.00 0.00 3.53
910 992 1.220749 GATGCGGGGTGTGCTAGAA 59.779 57.895 0.00 0.00 0.00 2.10
922 1004 5.358160 GGGTGTGCTAGAATTGCTCTTTAAT 59.642 40.000 0.00 0.00 35.41 1.40
1419 1501 2.516888 CCACCAGGTTCCGGTCTGT 61.517 63.158 16.49 6.52 33.25 3.41
1494 1576 4.482025 ACTTGATCCCCTCATCCCAATTAA 59.518 41.667 0.00 0.00 32.72 1.40
1509 1591 5.600484 TCCCAATTAACTCAGAAAAAGGCAA 59.400 36.000 0.00 0.00 0.00 4.52
1643 1725 7.014615 GGACATGAGTGCCCTTTCAAATATATT 59.985 37.037 0.00 0.00 0.00 1.28
1646 1728 7.716799 TGAGTGCCCTTTCAAATATATTGTT 57.283 32.000 0.00 0.00 0.00 2.83
1840 1922 2.456010 GCTCTTAGTGCGCTCTCTTAC 58.544 52.381 16.36 0.00 0.00 2.34
1875 1958 2.789409 AGAGACAACTACCCCAATGC 57.211 50.000 0.00 0.00 0.00 3.56
1915 1998 4.263949 GCTTAATATTGGAGTAGCCCCCAT 60.264 45.833 0.00 0.00 34.97 4.00
1991 2082 2.039418 TGGATTCCGTGTAGAGATGGG 58.961 52.381 0.00 0.00 0.00 4.00
2004 2095 7.228906 CGTGTAGAGATGGGTTCTTAGATAAGA 59.771 40.741 0.00 0.00 40.33 2.10
2028 2119 4.639078 TGGTTCCATCATCTCTTGTCAA 57.361 40.909 0.00 0.00 0.00 3.18
2171 2264 3.788227 AACAGATTCACAGCCCTACAA 57.212 42.857 0.00 0.00 0.00 2.41
2380 2473 6.128336 GCTATTGGCTTCATATCAGCTACTTG 60.128 42.308 3.89 0.00 37.43 3.16
2519 2636 0.183492 ATGACTGGCCACAACACTGT 59.817 50.000 0.00 0.00 35.63 3.55
2552 2669 3.492102 TTGGTTCTAGAAGCTGCAAGT 57.508 42.857 29.30 0.00 39.38 3.16
2727 2844 6.947733 TGATATCACATGTCCAAAGTTTTCCT 59.052 34.615 0.00 0.00 0.00 3.36
2815 2932 6.712547 GGCTTGATATGCTATTACTTTGAGGT 59.287 38.462 0.00 0.00 0.00 3.85
2901 3018 5.831525 TCGAGTATTAAAGATACAGGCTCCA 59.168 40.000 0.00 0.00 0.00 3.86
3045 3163 9.294030 GAATAAATTCTTCTTTGGTGCACTATG 57.706 33.333 17.98 7.08 34.05 2.23
3074 3192 8.529476 ACATTTACCTATGAACTACGACTCTTT 58.471 33.333 0.00 0.00 0.00 2.52
3075 3193 9.367444 CATTTACCTATGAACTACGACTCTTTT 57.633 33.333 0.00 0.00 0.00 2.27
3193 3311 2.029623 CAATGCCTAAAGCTGATGCCT 58.970 47.619 0.00 0.00 44.23 4.75
3205 3323 2.613696 ATGCCTGCACACCCCCTA 60.614 61.111 0.00 0.00 0.00 3.53
3303 3421 6.519679 AAAGATGCAACTTTATCATCAGCA 57.480 33.333 19.22 0.00 39.12 4.41
3360 3478 4.017808 TGTACTCTTCTGGGACTCTTAGC 58.982 47.826 0.00 0.00 0.00 3.09
3482 3600 4.040461 CGGGGTAAGTCATGACATATCCTT 59.960 45.833 29.91 17.23 36.35 3.36
3491 3609 9.716531 AAGTCATGACATATCCTTGTGTATATG 57.283 33.333 27.02 0.00 40.42 1.78
3497 3615 8.094548 TGACATATCCTTGTGTATATGGTTAGC 58.905 37.037 0.00 0.00 39.40 3.09
3549 3667 6.442952 CAGAGTTAGTGATCCTATTCCTTCG 58.557 44.000 0.00 0.00 0.00 3.79
4214 4336 0.179161 GGTCACGACATCAGAGGACG 60.179 60.000 5.41 5.41 0.00 4.79
4284 4406 3.140623 GGTTTCTGCCATGCAATTGTTT 58.859 40.909 7.40 0.00 38.41 2.83
4309 4431 4.283212 AGCCTCTGACTAATATTCTCCTGC 59.717 45.833 0.00 0.00 0.00 4.85
4328 4451 5.066375 TCCTGCAATGGATCTTAATTTCGTG 59.934 40.000 0.00 0.00 0.00 4.35
4461 4584 1.886542 CAGCACTGTTAGTTTTCCCCC 59.113 52.381 0.00 0.00 0.00 5.40
4550 4673 3.857052 CCAGAAATTGGTACTCGCAGTA 58.143 45.455 0.00 0.00 42.41 2.74
4659 4783 8.692710 ACCATTTATTATCAGAGTGTTCGTCTA 58.307 33.333 0.00 0.00 0.00 2.59
4660 4784 9.698309 CCATTTATTATCAGAGTGTTCGTCTAT 57.302 33.333 0.00 0.00 0.00 1.98
4768 4892 3.069289 TGACATAGCAAGCAGTTCTGTG 58.931 45.455 1.78 0.00 0.00 3.66
4780 4904 3.124297 GCAGTTCTGTGTGTCTTAGATGC 59.876 47.826 1.78 0.00 0.00 3.91
4972 5096 4.349501 GAATTCTCTACTACCGGTTGTCG 58.650 47.826 25.00 18.72 38.88 4.35
5000 5124 4.363138 CAGTCTTTCTGAAAACTTTGCCC 58.637 43.478 4.18 0.00 46.27 5.36
5020 5144 3.257873 CCCATGATGAGGCTCAGTAGTAG 59.742 52.174 23.24 9.43 0.00 2.57
5068 5192 1.002868 CTGGTACTGCCTTGCTGCT 60.003 57.895 0.00 0.00 38.35 4.24
5249 5375 3.697045 ACGGGAAATTGTTGAAGTTGTCA 59.303 39.130 0.00 0.00 0.00 3.58
5363 5489 5.995282 TCCAGTATTTTTCACTTGTCACGAT 59.005 36.000 0.00 0.00 0.00 3.73
5477 5603 5.697633 CAGCAGGAATAAAAGTGCAACAATT 59.302 36.000 0.00 0.00 41.43 2.32
5478 5604 6.867816 CAGCAGGAATAAAAGTGCAACAATTA 59.132 34.615 0.00 0.00 41.43 1.40
5479 5605 7.546667 CAGCAGGAATAAAAGTGCAACAATTAT 59.453 33.333 0.00 0.00 41.43 1.28
5481 5607 9.533253 GCAGGAATAAAAGTGCAACAATTATAT 57.467 29.630 0.00 0.00 41.43 0.86
5551 5677 7.908230 CAATACATGTTGCAAAAAGTCACTTT 58.092 30.769 2.30 0.00 34.94 2.66
5552 5678 5.783100 ACATGTTGCAAAAAGTCACTTTG 57.217 34.783 2.78 0.00 33.64 2.77
5554 5680 4.527509 TGTTGCAAAAAGTCACTTTGGA 57.472 36.364 2.78 0.00 33.64 3.53
5555 5681 4.887748 TGTTGCAAAAAGTCACTTTGGAA 58.112 34.783 2.78 0.00 40.43 3.53
5558 5684 3.194861 GCAAAAAGTCACTTTGGAACCC 58.805 45.455 2.78 0.00 33.64 4.11
5559 5685 3.443976 CAAAAAGTCACTTTGGAACCCG 58.556 45.455 2.78 0.00 33.64 5.28
5560 5686 1.687563 AAAGTCACTTTGGAACCCGG 58.312 50.000 0.68 0.00 31.98 5.73
5561 5687 0.179001 AAGTCACTTTGGAACCCGGG 60.179 55.000 22.25 22.25 0.00 5.73
5563 5689 1.149627 TCACTTTGGAACCCGGGTG 59.850 57.895 31.05 16.58 0.00 4.61
5564 5690 2.203437 ACTTTGGAACCCGGGTGC 60.203 61.111 31.05 28.06 0.00 5.01
5566 5692 1.606313 CTTTGGAACCCGGGTGCAT 60.606 57.895 33.33 15.95 0.00 3.96
5567 5693 1.152440 TTTGGAACCCGGGTGCATT 60.152 52.632 33.33 15.52 0.00 3.56
5568 5694 1.467678 TTTGGAACCCGGGTGCATTG 61.468 55.000 33.33 1.33 0.00 2.82
5569 5695 3.068064 GGAACCCGGGTGCATTGG 61.068 66.667 33.33 0.47 0.00 3.16
5570 5696 2.034999 GAACCCGGGTGCATTGGA 59.965 61.111 31.05 0.00 0.00 3.53
5571 5697 2.035626 AACCCGGGTGCATTGGAG 59.964 61.111 31.05 0.00 0.00 3.86
5572 5698 4.740822 ACCCGGGTGCATTGGAGC 62.741 66.667 29.69 0.00 0.00 4.70
5575 5701 4.431131 CGGGTGCATTGGAGCCCT 62.431 66.667 19.11 0.00 38.97 5.19
5576 5702 3.006677 GGGTGCATTGGAGCCCTA 58.993 61.111 14.84 0.00 38.12 3.53
5577 5703 1.538666 GGGTGCATTGGAGCCCTAT 59.461 57.895 14.84 0.00 38.12 2.57
5578 5704 0.106015 GGGTGCATTGGAGCCCTATT 60.106 55.000 14.84 0.00 38.12 1.73
5579 5705 1.689258 GGGTGCATTGGAGCCCTATTT 60.689 52.381 14.84 0.00 38.12 1.40
5604 5730 9.985318 TTTTTGAACTGTGAAAATGCTATTTTG 57.015 25.926 10.33 1.80 0.00 2.44
5608 5734 9.545105 TGAACTGTGAAAATGCTATTTTGAAAT 57.455 25.926 10.33 0.00 0.00 2.17
5610 5736 8.538409 ACTGTGAAAATGCTATTTTGAAATCC 57.462 30.769 10.33 0.00 0.00 3.01
5611 5737 8.370182 ACTGTGAAAATGCTATTTTGAAATCCT 58.630 29.630 10.33 0.00 0.00 3.24
5614 5740 9.638239 GTGAAAATGCTATTTTGAAATCCTGTA 57.362 29.630 10.33 0.00 0.00 2.74
5621 5747 9.019656 TGCTATTTTGAAATCCTGTAAAGCTAA 57.980 29.630 0.00 0.00 0.00 3.09
5626 5752 8.574251 TTTGAAATCCTGTAAAGCTAATAGCA 57.426 30.769 15.28 0.00 45.56 3.49
5627 5753 8.752005 TTGAAATCCTGTAAAGCTAATAGCAT 57.248 30.769 15.28 0.00 45.56 3.79
5628 5754 8.752005 TGAAATCCTGTAAAGCTAATAGCATT 57.248 30.769 15.28 11.38 45.56 3.56
5634 5760 9.273016 TCCTGTAAAGCTAATAGCATTATTCAC 57.727 33.333 15.28 4.70 45.56 3.18
5649 5775 9.228949 AGCATTATTCACTATTTGGAGATCATC 57.771 33.333 0.00 0.00 0.00 2.92
5657 5783 8.896744 TCACTATTTGGAGATCATCATTTTGTC 58.103 33.333 0.00 0.00 0.00 3.18
5658 5784 8.680001 CACTATTTGGAGATCATCATTTTGTCA 58.320 33.333 0.00 0.00 0.00 3.58
5659 5785 9.417561 ACTATTTGGAGATCATCATTTTGTCAT 57.582 29.630 0.00 0.00 0.00 3.06
5662 5788 9.953565 ATTTGGAGATCATCATTTTGTCATTTT 57.046 25.926 0.00 0.00 0.00 1.82
5665 5791 8.369424 TGGAGATCATCATTTTGTCATTTTTGT 58.631 29.630 0.00 0.00 0.00 2.83
5673 5799 9.787532 ATCATTTTGTCATTTTTGTATAGGTCG 57.212 29.630 0.00 0.00 0.00 4.79
5676 5802 6.751514 TTGTCATTTTTGTATAGGTCGCAT 57.248 33.333 0.00 0.00 0.00 4.73
5678 5804 8.445275 TTGTCATTTTTGTATAGGTCGCATAT 57.555 30.769 0.00 0.00 0.00 1.78
5679 5805 8.445275 TGTCATTTTTGTATAGGTCGCATATT 57.555 30.769 0.00 0.00 0.00 1.28
5680 5806 8.898761 TGTCATTTTTGTATAGGTCGCATATTT 58.101 29.630 0.00 0.00 0.00 1.40
5695 5821 8.015658 GGTCGCATATTTACTTATTTCATCACC 58.984 37.037 0.00 0.00 0.00 4.02
5696 5822 8.556194 GTCGCATATTTACTTATTTCATCACCA 58.444 33.333 0.00 0.00 0.00 4.17
5698 5824 9.729023 CGCATATTTACTTATTTCATCACCAAA 57.271 29.630 0.00 0.00 0.00 3.28
5707 5833 8.908903 ACTTATTTCATCACCAAACTTTACACA 58.091 29.630 0.00 0.00 0.00 3.72
5708 5834 9.912634 CTTATTTCATCACCAAACTTTACACAT 57.087 29.630 0.00 0.00 0.00 3.21
5709 5835 9.689976 TTATTTCATCACCAAACTTTACACATG 57.310 29.630 0.00 0.00 0.00 3.21
5710 5836 6.707440 TTCATCACCAAACTTTACACATGT 57.293 33.333 0.00 0.00 0.00 3.21
5711 5837 6.070897 TCATCACCAAACTTTACACATGTG 57.929 37.500 24.25 24.25 0.00 3.21
5712 5838 5.592282 TCATCACCAAACTTTACACATGTGT 59.408 36.000 32.47 32.47 46.87 3.72
5713 5839 6.768381 TCATCACCAAACTTTACACATGTGTA 59.232 34.615 30.31 30.31 44.42 2.90
5811 5937 6.753107 AAAATAAGGTCCTTCAATACACCG 57.247 37.500 7.61 0.00 33.78 4.94
5812 5938 2.781681 AAGGTCCTTCAATACACCGG 57.218 50.000 0.00 0.00 33.78 5.28
5813 5939 0.909623 AGGTCCTTCAATACACCGGG 59.090 55.000 6.32 0.00 33.78 5.73
5814 5940 0.616891 GGTCCTTCAATACACCGGGT 59.383 55.000 6.32 3.22 0.00 5.28
5815 5941 1.003928 GGTCCTTCAATACACCGGGTT 59.996 52.381 6.32 0.00 0.00 4.11
5816 5942 2.353323 GTCCTTCAATACACCGGGTTC 58.647 52.381 6.32 0.00 0.00 3.62
5817 5943 1.279846 TCCTTCAATACACCGGGTTCC 59.720 52.381 6.32 0.00 0.00 3.62
5818 5944 1.003812 CCTTCAATACACCGGGTTCCA 59.996 52.381 6.32 0.00 0.00 3.53
5819 5945 2.553466 CCTTCAATACACCGGGTTCCAA 60.553 50.000 6.32 0.00 0.00 3.53
5820 5946 2.953284 TCAATACACCGGGTTCCAAA 57.047 45.000 6.32 0.00 0.00 3.28
5821 5947 3.225177 TCAATACACCGGGTTCCAAAA 57.775 42.857 6.32 0.00 0.00 2.44
5822 5948 3.563223 TCAATACACCGGGTTCCAAAAA 58.437 40.909 6.32 0.00 0.00 1.94
5823 5949 4.153411 TCAATACACCGGGTTCCAAAAAT 58.847 39.130 6.32 0.00 0.00 1.82
5824 5950 4.218852 TCAATACACCGGGTTCCAAAAATC 59.781 41.667 6.32 0.00 0.00 2.17
5825 5951 1.334160 ACACCGGGTTCCAAAAATCC 58.666 50.000 6.32 0.00 0.00 3.01
5826 5952 0.242555 CACCGGGTTCCAAAAATCCG 59.757 55.000 6.32 2.52 40.32 4.18
5827 5953 1.214325 CCGGGTTCCAAAAATCCGC 59.786 57.895 3.97 0.00 39.41 5.54
5828 5954 1.248101 CCGGGTTCCAAAAATCCGCT 61.248 55.000 3.97 0.00 39.41 5.52
5829 5955 0.170339 CGGGTTCCAAAAATCCGCTC 59.830 55.000 0.00 0.00 34.17 5.03
5830 5956 1.545841 GGGTTCCAAAAATCCGCTCT 58.454 50.000 0.00 0.00 0.00 4.09
5831 5957 1.472878 GGGTTCCAAAAATCCGCTCTC 59.527 52.381 0.00 0.00 0.00 3.20
5832 5958 2.437413 GGTTCCAAAAATCCGCTCTCT 58.563 47.619 0.00 0.00 0.00 3.10
5833 5959 3.606687 GGTTCCAAAAATCCGCTCTCTA 58.393 45.455 0.00 0.00 0.00 2.43
5834 5960 4.200092 GGTTCCAAAAATCCGCTCTCTAT 58.800 43.478 0.00 0.00 0.00 1.98
5835 5961 4.273724 GGTTCCAAAAATCCGCTCTCTATC 59.726 45.833 0.00 0.00 0.00 2.08
5836 5962 5.119694 GTTCCAAAAATCCGCTCTCTATCT 58.880 41.667 0.00 0.00 0.00 1.98
5837 5963 4.697514 TCCAAAAATCCGCTCTCTATCTG 58.302 43.478 0.00 0.00 0.00 2.90
5838 5964 4.162320 TCCAAAAATCCGCTCTCTATCTGT 59.838 41.667 0.00 0.00 0.00 3.41
5839 5965 4.878397 CCAAAAATCCGCTCTCTATCTGTT 59.122 41.667 0.00 0.00 0.00 3.16
5840 5966 5.220739 CCAAAAATCCGCTCTCTATCTGTTG 60.221 44.000 0.00 0.00 0.00 3.33
5841 5967 2.810439 ATCCGCTCTCTATCTGTTGC 57.190 50.000 0.00 0.00 0.00 4.17
5842 5968 1.474330 TCCGCTCTCTATCTGTTGCA 58.526 50.000 0.00 0.00 0.00 4.08
5843 5969 2.034878 TCCGCTCTCTATCTGTTGCAT 58.965 47.619 0.00 0.00 0.00 3.96
5844 5970 3.222603 TCCGCTCTCTATCTGTTGCATA 58.777 45.455 0.00 0.00 0.00 3.14
5845 5971 3.829026 TCCGCTCTCTATCTGTTGCATAT 59.171 43.478 0.00 0.00 0.00 1.78
5846 5972 5.010282 TCCGCTCTCTATCTGTTGCATATA 58.990 41.667 0.00 0.00 0.00 0.86
5847 5973 5.476945 TCCGCTCTCTATCTGTTGCATATAA 59.523 40.000 0.00 0.00 0.00 0.98
5848 5974 5.804473 CCGCTCTCTATCTGTTGCATATAAG 59.196 44.000 0.00 0.00 0.00 1.73
5849 5975 6.385843 CGCTCTCTATCTGTTGCATATAAGT 58.614 40.000 0.00 0.00 0.00 2.24
5850 5976 7.362142 CCGCTCTCTATCTGTTGCATATAAGTA 60.362 40.741 0.00 0.00 0.00 2.24
5907 6034 6.260936 CCTCGCCATGTTCTAATTTCACTATT 59.739 38.462 0.00 0.00 0.00 1.73
5946 6073 2.005971 GTAGCTTACCAACCTGACCG 57.994 55.000 0.00 0.00 0.00 4.79
5967 6094 4.034510 CCGCTTGGTCTAATTTCACTCATC 59.965 45.833 0.00 0.00 0.00 2.92
5973 6100 6.227522 TGGTCTAATTTCACTCATCGAAACA 58.772 36.000 0.00 0.00 35.31 2.83
5974 6101 6.708502 TGGTCTAATTTCACTCATCGAAACAA 59.291 34.615 0.00 0.00 35.31 2.83
5975 6102 7.227711 TGGTCTAATTTCACTCATCGAAACAAA 59.772 33.333 0.00 0.00 35.31 2.83
6039 6166 9.788889 TGATATATGACCTCTTACTACTTTCGA 57.211 33.333 0.00 0.00 0.00 3.71
6101 6228 5.376625 TGGCAAGAAGTCATCTTTGTTAGT 58.623 37.500 0.00 0.00 46.39 2.24
6176 6303 4.272489 CTTGGGATGCTAACATGGAGAAA 58.728 43.478 0.00 0.00 36.35 2.52
6201 6328 8.834004 AGGAACAACACACTACTAATAGGATA 57.166 34.615 0.00 0.00 32.08 2.59
6207 6334 9.915629 CAACACACTACTAATAGGATATTCCTC 57.084 37.037 0.00 0.00 45.66 3.71
6208 6335 9.656323 AACACACTACTAATAGGATATTCCTCA 57.344 33.333 0.00 0.00 45.66 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
151 167 5.001232 TCTTTAGTTCAATTGCGGTAGCTT 58.999 37.500 0.00 0.00 45.42 3.74
210 228 0.236187 CAAATGCGAAAACGACGGGA 59.764 50.000 0.00 0.00 0.00 5.14
318 336 2.031163 GGCGTCTCTGTGGCTTGT 59.969 61.111 0.00 0.00 0.00 3.16
368 386 1.596408 GGTTTGCGGGCATGGATTT 59.404 52.632 0.00 0.00 0.00 2.17
519 551 0.320683 CTGTGGCACTTCATCACGGA 60.321 55.000 19.83 0.00 39.42 4.69
654 724 0.838122 CACCAACCACCTCTCCTCCT 60.838 60.000 0.00 0.00 0.00 3.69
715 796 0.535102 GCGGTGCCCTGCATATAAGT 60.535 55.000 0.00 0.00 41.91 2.24
762 843 4.726254 ATCCCGACCCCAACCCGA 62.726 66.667 0.00 0.00 0.00 5.14
823 905 3.083349 CAGCCCGATCAGACCCCA 61.083 66.667 0.00 0.00 0.00 4.96
902 984 6.458888 GGGTCATTAAAGAGCAATTCTAGCAC 60.459 42.308 11.55 0.00 37.74 4.40
910 992 5.246883 AGCTTTTGGGTCATTAAAGAGCAAT 59.753 36.000 11.55 0.00 37.74 3.56
922 1004 2.359531 CGTAACCAAAGCTTTTGGGTCA 59.640 45.455 18.64 4.75 43.71 4.02
1141 1223 1.871080 ACAGAAAGAACACGCAGGAG 58.129 50.000 0.00 0.00 0.00 3.69
1419 1501 1.742880 GAAGCAGATGCACTCGCCA 60.743 57.895 7.68 0.00 45.16 5.69
1494 1576 1.338020 CCGCTTTGCCTTTTTCTGAGT 59.662 47.619 0.00 0.00 0.00 3.41
1509 1591 3.016736 AGCAAGCACATATTAACCGCTT 58.983 40.909 0.00 0.00 43.41 4.68
1840 1922 7.091443 AGTTGTCTCTAAAAACTACCATCTCG 58.909 38.462 0.00 0.00 32.48 4.04
1991 2082 8.825667 GATGGAACCATCTCTTATCTAAGAAC 57.174 38.462 22.07 0.00 46.67 3.01
2171 2264 5.073144 TCAGTAAGAAAGTGGAGGTGGAAAT 59.927 40.000 0.00 0.00 0.00 2.17
2519 2636 8.349983 GCTTCTAGAACCAAATTACACAAAGAA 58.650 33.333 0.00 0.00 0.00 2.52
2552 2669 4.345859 ACCCAATCGTGTAGTTTCTTCA 57.654 40.909 0.00 0.00 0.00 3.02
2727 2844 2.007113 CTGCTGGTGCTGTTTGTGCA 62.007 55.000 0.00 0.00 40.48 4.57
2815 2932 8.350852 TGTTAAGGTTAAAAGAACTGTTGGAA 57.649 30.769 0.00 0.00 0.00 3.53
2901 3018 4.651540 TCCTTCAGTTTAGCATGGAGGCT 61.652 47.826 0.00 0.00 41.39 4.58
3045 3163 7.256286 AGTCGTAGTTCATAGGTAAATGTGTC 58.744 38.462 0.00 0.00 0.00 3.67
3193 3311 0.897863 GCAAATGTAGGGGGTGTGCA 60.898 55.000 0.00 0.00 0.00 4.57
3205 3323 0.779997 AGGGGGTCTGAAGCAAATGT 59.220 50.000 0.00 0.00 0.00 2.71
3360 3478 5.009631 TCAACTATTTCTGGTTCCACATGG 58.990 41.667 0.00 0.00 0.00 3.66
3482 3600 4.994907 ACAGACGCTAACCATATACACA 57.005 40.909 0.00 0.00 0.00 3.72
3491 3609 4.201881 ACAGAAAACAAACAGACGCTAACC 60.202 41.667 0.00 0.00 0.00 2.85
3497 3615 4.095610 GGTGAACAGAAAACAAACAGACG 58.904 43.478 0.00 0.00 0.00 4.18
3774 3892 6.153340 ACAGAAATGTCACCTCAAATATTGGG 59.847 38.462 0.00 0.00 0.00 4.12
3775 3893 7.121759 AGACAGAAATGTCACCTCAAATATTGG 59.878 37.037 10.72 0.00 41.02 3.16
4007 4129 7.609056 TGTTCCACCTAGAATTGACTAGTTAC 58.391 38.462 0.00 0.00 38.41 2.50
4136 4258 3.417101 TGTAACTGGTAATGTTGGCAGG 58.583 45.455 0.00 0.00 0.00 4.85
4214 4336 2.004583 TTGTGGGATCGATTCGTGAC 57.995 50.000 5.89 0.00 0.00 3.67
4284 4406 6.015010 GCAGGAGAATATTAGTCAGAGGCTAA 60.015 42.308 0.00 0.00 33.59 3.09
4421 4544 7.392673 AGTGCTGGCCATCTTATATATTCAAAG 59.607 37.037 5.51 0.00 0.00 2.77
4461 4584 4.484537 ACAGAGACCCAGATGAATCAAG 57.515 45.455 0.00 0.00 0.00 3.02
4630 4754 6.037062 CGAACACTCTGATAATAAATGGTGCA 59.963 38.462 0.00 0.00 0.00 4.57
4768 4892 2.164624 ACAGGACTCGCATCTAAGACAC 59.835 50.000 0.00 0.00 0.00 3.67
4780 4904 6.183360 ACAGACTATTAGCTTTACAGGACTCG 60.183 42.308 0.00 0.00 0.00 4.18
4972 5096 0.588252 TTTCAGAAAGACTGCGCTGC 59.412 50.000 14.80 7.36 45.38 5.25
5000 5124 4.826733 ACTCTACTACTGAGCCTCATCATG 59.173 45.833 0.00 0.00 35.12 3.07
5249 5375 7.527457 GCGACAACAGGAATAAGAAAATAGTT 58.473 34.615 0.00 0.00 0.00 2.24
5363 5489 3.181445 ACGCCTATAATTTCCCAGCATCA 60.181 43.478 0.00 0.00 0.00 3.07
5540 5666 2.028876 CCGGGTTCCAAAGTGACTTTT 58.971 47.619 8.03 0.00 30.60 2.27
5542 5668 0.179001 CCCGGGTTCCAAAGTGACTT 60.179 55.000 14.18 0.00 0.00 3.01
5543 5669 1.350310 ACCCGGGTTCCAAAGTGACT 61.350 55.000 24.16 0.00 0.00 3.41
5544 5670 1.149854 ACCCGGGTTCCAAAGTGAC 59.850 57.895 24.16 0.00 0.00 3.67
5545 5671 1.149627 CACCCGGGTTCCAAAGTGA 59.850 57.895 27.83 0.00 0.00 3.41
5546 5672 2.561037 GCACCCGGGTTCCAAAGTG 61.561 63.158 27.83 11.75 0.00 3.16
5547 5673 2.203437 GCACCCGGGTTCCAAAGT 60.203 61.111 27.83 0.00 0.00 2.66
5549 5675 1.152440 AATGCACCCGGGTTCCAAA 60.152 52.632 27.83 3.17 0.00 3.28
5551 5677 2.282816 CAATGCACCCGGGTTCCA 60.283 61.111 27.83 24.48 0.00 3.53
5552 5678 3.068064 CCAATGCACCCGGGTTCC 61.068 66.667 27.83 19.07 0.00 3.62
5554 5680 2.035626 CTCCAATGCACCCGGGTT 59.964 61.111 27.83 7.04 0.00 4.11
5555 5681 4.740822 GCTCCAATGCACCCGGGT 62.741 66.667 24.16 24.16 0.00 5.28
5559 5685 0.106015 AATAGGGCTCCAATGCACCC 60.106 55.000 0.00 0.00 43.17 4.61
5560 5686 1.780503 AAATAGGGCTCCAATGCACC 58.219 50.000 0.00 0.00 36.97 5.01
5561 5687 3.893326 AAAAATAGGGCTCCAATGCAC 57.107 42.857 0.00 0.00 36.44 4.57
5578 5704 9.985318 CAAAATAGCATTTTCACAGTTCAAAAA 57.015 25.926 4.52 0.00 0.00 1.94
5579 5705 9.376075 TCAAAATAGCATTTTCACAGTTCAAAA 57.624 25.926 4.52 0.00 0.00 2.44
5585 5711 8.370182 AGGATTTCAAAATAGCATTTTCACAGT 58.630 29.630 4.52 0.00 0.00 3.55
5586 5712 8.653338 CAGGATTTCAAAATAGCATTTTCACAG 58.347 33.333 4.52 0.00 0.00 3.66
5587 5713 8.149647 ACAGGATTTCAAAATAGCATTTTCACA 58.850 29.630 4.52 0.00 0.00 3.58
5588 5714 8.538409 ACAGGATTTCAAAATAGCATTTTCAC 57.462 30.769 4.52 0.00 0.00 3.18
5592 5718 9.154847 GCTTTACAGGATTTCAAAATAGCATTT 57.845 29.630 0.00 0.00 0.00 2.32
5593 5719 8.534496 AGCTTTACAGGATTTCAAAATAGCATT 58.466 29.630 0.00 0.00 0.00 3.56
5595 5721 7.466746 AGCTTTACAGGATTTCAAAATAGCA 57.533 32.000 0.00 0.00 0.00 3.49
5600 5726 9.019656 TGCTATTAGCTTTACAGGATTTCAAAA 57.980 29.630 16.29 0.00 42.97 2.44
5601 5727 8.574251 TGCTATTAGCTTTACAGGATTTCAAA 57.426 30.769 16.29 0.00 42.97 2.69
5602 5728 8.752005 ATGCTATTAGCTTTACAGGATTTCAA 57.248 30.769 16.29 0.00 42.97 2.69
5603 5729 8.752005 AATGCTATTAGCTTTACAGGATTTCA 57.248 30.769 16.29 0.00 42.97 2.69
5608 5734 9.273016 GTGAATAATGCTATTAGCTTTACAGGA 57.727 33.333 20.21 6.29 41.57 3.86
5609 5735 9.277783 AGTGAATAATGCTATTAGCTTTACAGG 57.722 33.333 20.21 0.00 41.57 4.00
5623 5749 9.228949 GATGATCTCCAAATAGTGAATAATGCT 57.771 33.333 0.00 0.00 0.00 3.79
5624 5750 9.006839 TGATGATCTCCAAATAGTGAATAATGC 57.993 33.333 0.00 0.00 0.00 3.56
5630 5756 9.246670 ACAAAATGATGATCTCCAAATAGTGAA 57.753 29.630 0.00 0.00 0.00 3.18
5632 5758 8.680001 TGACAAAATGATGATCTCCAAATAGTG 58.320 33.333 0.00 0.00 0.00 2.74
5633 5759 8.812513 TGACAAAATGATGATCTCCAAATAGT 57.187 30.769 0.00 0.00 0.00 2.12
5636 5762 9.953565 AAAATGACAAAATGATGATCTCCAAAT 57.046 25.926 0.00 0.00 0.00 2.32
5638 5764 9.210329 CAAAAATGACAAAATGATGATCTCCAA 57.790 29.630 0.00 0.00 0.00 3.53
5639 5765 8.369424 ACAAAAATGACAAAATGATGATCTCCA 58.631 29.630 0.00 0.00 0.00 3.86
5648 5774 7.753132 GCGACCTATACAAAAATGACAAAATGA 59.247 33.333 0.00 0.00 0.00 2.57
5649 5775 7.540400 TGCGACCTATACAAAAATGACAAAATG 59.460 33.333 0.00 0.00 0.00 2.32
5652 5778 6.561737 TGCGACCTATACAAAAATGACAAA 57.438 33.333 0.00 0.00 0.00 2.83
5654 5780 8.445275 AATATGCGACCTATACAAAAATGACA 57.555 30.769 0.00 0.00 0.00 3.58
5667 5793 9.990360 TGATGAAATAAGTAAATATGCGACCTA 57.010 29.630 0.00 0.00 0.00 3.08
5668 5794 8.774586 GTGATGAAATAAGTAAATATGCGACCT 58.225 33.333 0.00 0.00 0.00 3.85
5669 5795 8.015658 GGTGATGAAATAAGTAAATATGCGACC 58.984 37.037 0.00 0.00 0.00 4.79
5670 5796 8.556194 TGGTGATGAAATAAGTAAATATGCGAC 58.444 33.333 0.00 0.00 0.00 5.19
5672 5798 9.729023 TTTGGTGATGAAATAAGTAAATATGCG 57.271 29.630 0.00 0.00 0.00 4.73
5681 5807 8.908903 TGTGTAAAGTTTGGTGATGAAATAAGT 58.091 29.630 0.00 0.00 0.00 2.24
5682 5808 9.912634 ATGTGTAAAGTTTGGTGATGAAATAAG 57.087 29.630 0.00 0.00 0.00 1.73
5683 5809 9.689976 CATGTGTAAAGTTTGGTGATGAAATAA 57.310 29.630 0.00 0.00 0.00 1.40
5689 5815 5.830912 ACACATGTGTAAAGTTTGGTGATG 58.169 37.500 29.66 0.00 42.90 3.07
5785 5911 8.732531 CGGTGTATTGAAGGACCTTATTTTAAA 58.267 33.333 6.75 0.00 0.00 1.52
5786 5912 7.337436 CCGGTGTATTGAAGGACCTTATTTTAA 59.663 37.037 6.75 0.00 0.00 1.52
5787 5913 6.824704 CCGGTGTATTGAAGGACCTTATTTTA 59.175 38.462 6.75 0.00 0.00 1.52
5788 5914 5.650703 CCGGTGTATTGAAGGACCTTATTTT 59.349 40.000 6.75 0.00 0.00 1.82
5789 5915 5.190677 CCGGTGTATTGAAGGACCTTATTT 58.809 41.667 6.75 0.00 0.00 1.40
5790 5916 4.384868 CCCGGTGTATTGAAGGACCTTATT 60.385 45.833 6.75 0.00 0.00 1.40
5791 5917 3.135895 CCCGGTGTATTGAAGGACCTTAT 59.864 47.826 6.75 0.32 0.00 1.73
5792 5918 2.502538 CCCGGTGTATTGAAGGACCTTA 59.497 50.000 6.75 0.00 0.00 2.69
5793 5919 1.280998 CCCGGTGTATTGAAGGACCTT 59.719 52.381 6.40 6.40 0.00 3.50
5794 5920 0.909623 CCCGGTGTATTGAAGGACCT 59.090 55.000 0.00 0.00 0.00 3.85
5795 5921 0.616891 ACCCGGTGTATTGAAGGACC 59.383 55.000 0.00 0.00 0.00 4.46
5796 5922 2.353323 GAACCCGGTGTATTGAAGGAC 58.647 52.381 0.00 0.00 0.00 3.85
5797 5923 1.279846 GGAACCCGGTGTATTGAAGGA 59.720 52.381 0.00 0.00 0.00 3.36
5798 5924 1.003812 TGGAACCCGGTGTATTGAAGG 59.996 52.381 0.00 0.00 0.00 3.46
5799 5925 2.483014 TGGAACCCGGTGTATTGAAG 57.517 50.000 0.00 0.00 0.00 3.02
5800 5926 2.953284 TTGGAACCCGGTGTATTGAA 57.047 45.000 0.00 0.00 0.00 2.69
5801 5927 2.953284 TTTGGAACCCGGTGTATTGA 57.047 45.000 0.00 0.00 0.00 2.57
5802 5928 4.490743 GATTTTTGGAACCCGGTGTATTG 58.509 43.478 0.00 0.00 0.00 1.90
5803 5929 3.512329 GGATTTTTGGAACCCGGTGTATT 59.488 43.478 0.00 0.00 0.00 1.89
5804 5930 3.093814 GGATTTTTGGAACCCGGTGTAT 58.906 45.455 0.00 0.00 0.00 2.29
5805 5931 2.516906 GGATTTTTGGAACCCGGTGTA 58.483 47.619 0.00 0.00 0.00 2.90
5806 5932 1.334160 GGATTTTTGGAACCCGGTGT 58.666 50.000 0.00 0.00 0.00 4.16
5807 5933 0.242555 CGGATTTTTGGAACCCGGTG 59.757 55.000 0.00 0.00 36.81 4.94
5808 5934 1.529152 GCGGATTTTTGGAACCCGGT 61.529 55.000 0.00 0.00 40.44 5.28
5809 5935 1.214325 GCGGATTTTTGGAACCCGG 59.786 57.895 0.00 0.00 40.44 5.73
5810 5936 0.170339 GAGCGGATTTTTGGAACCCG 59.830 55.000 0.00 0.00 42.74 5.28
5811 5937 1.472878 GAGAGCGGATTTTTGGAACCC 59.527 52.381 0.00 0.00 0.00 4.11
5812 5938 2.437413 AGAGAGCGGATTTTTGGAACC 58.563 47.619 0.00 0.00 0.00 3.62
5813 5939 5.007136 CAGATAGAGAGCGGATTTTTGGAAC 59.993 44.000 0.00 0.00 0.00 3.62
5814 5940 5.118990 CAGATAGAGAGCGGATTTTTGGAA 58.881 41.667 0.00 0.00 0.00 3.53
5815 5941 4.162320 ACAGATAGAGAGCGGATTTTTGGA 59.838 41.667 0.00 0.00 0.00 3.53
5816 5942 4.446371 ACAGATAGAGAGCGGATTTTTGG 58.554 43.478 0.00 0.00 0.00 3.28
5817 5943 5.728898 GCAACAGATAGAGAGCGGATTTTTG 60.729 44.000 0.00 0.00 0.00 2.44
5818 5944 4.333926 GCAACAGATAGAGAGCGGATTTTT 59.666 41.667 0.00 0.00 0.00 1.94
5819 5945 3.873952 GCAACAGATAGAGAGCGGATTTT 59.126 43.478 0.00 0.00 0.00 1.82
5820 5946 3.118629 TGCAACAGATAGAGAGCGGATTT 60.119 43.478 0.00 0.00 0.00 2.17
5821 5947 2.432146 TGCAACAGATAGAGAGCGGATT 59.568 45.455 0.00 0.00 0.00 3.01
5822 5948 2.034878 TGCAACAGATAGAGAGCGGAT 58.965 47.619 0.00 0.00 0.00 4.18
5823 5949 1.474330 TGCAACAGATAGAGAGCGGA 58.526 50.000 0.00 0.00 0.00 5.54
5824 5950 2.522836 ATGCAACAGATAGAGAGCGG 57.477 50.000 0.00 0.00 0.00 5.52
5825 5951 6.385843 ACTTATATGCAACAGATAGAGAGCG 58.614 40.000 0.00 0.00 0.00 5.03
5826 5952 9.698309 TTTACTTATATGCAACAGATAGAGAGC 57.302 33.333 0.00 0.00 0.00 4.09
5847 5973 9.706691 CACCCGTGAACTATATATGAATTTACT 57.293 33.333 0.00 0.00 0.00 2.24
5848 5974 9.485206 ACACCCGTGAACTATATATGAATTTAC 57.515 33.333 0.96 0.00 0.00 2.01
5850 5976 8.974060 AACACCCGTGAACTATATATGAATTT 57.026 30.769 0.96 0.00 0.00 1.82
5946 6073 4.870426 TCGATGAGTGAAATTAGACCAAGC 59.130 41.667 0.00 0.00 0.00 4.01
6022 6149 6.989659 TGAATGTTCGAAAGTAGTAAGAGGT 58.010 36.000 0.00 0.00 0.00 3.85
6029 6156 5.422214 AGGGATGAATGTTCGAAAGTAGT 57.578 39.130 0.00 0.00 0.00 2.73
6037 6164 6.280643 TGTGACTATAAGGGATGAATGTTCG 58.719 40.000 0.00 0.00 0.00 3.95
6039 6166 7.577303 ACATGTGACTATAAGGGATGAATGTT 58.423 34.615 0.00 0.00 0.00 2.71
6101 6228 1.228583 ACTCTGAGGACGCAGGTCA 60.229 57.895 9.85 0.00 45.28 4.02
6128 6255 1.075374 CTGTTGGGTCCTTCCATCCAA 59.925 52.381 0.00 0.00 36.58 3.53
6176 6303 7.735326 ATCCTATTAGTAGTGTGTTGTTCCT 57.265 36.000 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.