Multiple sequence alignment - TraesCS4B01G144700

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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 TraesCS4B01G144700 chr4B 100.000 5337 0 0 1 5337 195465762 195460426 0.000000e+00 9856.0
1 TraesCS4B01G144700 chr4B 93.548 93 5 1 3108 3200 60771840 60771931 2.590000e-28 137.0
2 TraesCS4B01G144700 chr4D 97.181 2164 41 5 971 3116 136187633 136185472 0.000000e+00 3640.0
3 TraesCS4B01G144700 chr4D 96.007 2154 65 12 3196 5337 136185472 136183328 0.000000e+00 3482.0
4 TraesCS4B01G144700 chr4D 89.918 486 43 3 198 678 136188444 136187960 5.870000e-174 621.0
5 TraesCS4B01G144700 chr4D 94.286 175 6 3 1 173 136188612 136188440 1.140000e-66 265.0
6 TraesCS4B01G144700 chr4D 83.333 114 11 8 665 771 329882926 329883038 1.220000e-16 99.0
7 TraesCS4B01G144700 chr4D 97.872 47 1 0 917 963 136187717 136187671 1.230000e-11 82.4
8 TraesCS4B01G144700 chr4D 97.436 39 1 0 878 916 136187777 136187739 3.450000e-07 67.6
9 TraesCS4B01G144700 chr4A 93.386 2147 94 15 3196 5337 423157193 423159296 0.000000e+00 3134.0
10 TraesCS4B01G144700 chr4A 95.772 1301 42 4 1829 3116 423155893 423157193 0.000000e+00 2085.0
11 TraesCS4B01G144700 chr4A 95.805 739 16 3 971 1695 423155160 423155897 0.000000e+00 1179.0
12 TraesCS4B01G144700 chr4A 90.418 407 29 5 1 401 423154221 423154623 1.320000e-145 527.0
13 TraesCS4B01G144700 chr4A 91.393 244 20 1 437 679 423154623 423154866 3.080000e-87 333.0
14 TraesCS4B01G144700 chr4A 100.000 39 0 0 878 916 423155016 423155054 7.410000e-09 73.1
15 TraesCS4B01G144700 chr5A 84.404 218 34 0 1470 1687 123712419 123712202 1.160000e-51 215.0
16 TraesCS4B01G144700 chr5A 83.621 116 19 0 2501 2616 123711289 123711174 5.650000e-20 110.0
17 TraesCS4B01G144700 chr5D 83.628 226 37 0 1470 1695 116174511 116174286 4.190000e-51 213.0
18 TraesCS4B01G144700 chr5D 83.621 116 19 0 2501 2616 116173373 116173258 5.650000e-20 110.0
19 TraesCS4B01G144700 chr5D 94.366 71 1 3 12 81 223358155 223358087 7.310000e-19 106.0
20 TraesCS4B01G144700 chr5D 96.610 59 1 1 18 76 223358987 223359044 4.400000e-16 97.1
21 TraesCS4B01G144700 chr5B 83.628 226 37 0 1470 1695 128218645 128218420 4.190000e-51 213.0
22 TraesCS4B01G144700 chr5B 83.621 116 19 0 2501 2616 128217501 128217386 5.650000e-20 110.0
23 TraesCS4B01G144700 chr5B 91.429 70 3 3 12 79 249504354 249504286 5.690000e-15 93.5
24 TraesCS4B01G144700 chr1D 94.737 95 4 1 3110 3204 443834406 443834499 4.310000e-31 147.0
25 TraesCS4B01G144700 chr1D 85.294 102 11 4 662 760 321678025 321677925 9.460000e-18 102.0
26 TraesCS4B01G144700 chr1D 84.259 108 12 5 672 776 436106949 436107054 3.400000e-17 100.0
27 TraesCS4B01G144700 chr7A 94.624 93 5 0 3113 3205 155147984 155147892 1.550000e-30 145.0
28 TraesCS4B01G144700 chrUn 94.505 91 5 0 3113 3203 135090802 135090712 2.000000e-29 141.0
29 TraesCS4B01G144700 chrUn 94.505 91 5 0 3113 3203 152687658 152687568 2.000000e-29 141.0
30 TraesCS4B01G144700 chrUn 95.238 63 2 1 12 74 69339868 69339929 1.220000e-16 99.0
31 TraesCS4B01G144700 chrUn 95.238 63 2 1 12 74 69357457 69357518 1.220000e-16 99.0
32 TraesCS4B01G144700 chr3B 93.617 94 6 0 3113 3206 461741672 461741579 2.000000e-29 141.0
33 TraesCS4B01G144700 chr7D 93.478 92 6 0 3110 3201 49828773 49828864 2.590000e-28 137.0
34 TraesCS4B01G144700 chr7B 93.548 93 5 1 3113 3205 203031543 203031452 2.590000e-28 137.0
35 TraesCS4B01G144700 chr7B 87.368 95 8 4 667 758 553802130 553802037 7.310000e-19 106.0
36 TraesCS4B01G144700 chr7B 100.000 28 0 0 5285 5312 252169130 252169103 1.000000e-02 52.8
37 TraesCS4B01G144700 chr1B 92.632 95 6 1 3113 3207 389597289 389597196 9.320000e-28 135.0
38 TraesCS4B01G144700 chr1B 87.000 100 7 5 664 759 490871417 490871514 2.030000e-19 108.0
39 TraesCS4B01G144700 chr1B 87.368 95 8 4 667 758 309593137 309593044 7.310000e-19 106.0
40 TraesCS4B01G144700 chr2B 86.667 105 10 4 666 767 726552118 726552221 4.370000e-21 113.0
41 TraesCS4B01G144700 chr3D 87.755 98 8 4 677 770 508187071 508186974 1.570000e-20 111.0
42 TraesCS4B01G144700 chr3D 93.939 66 2 2 12 76 112723368 112723432 1.220000e-16 99.0
43 TraesCS4B01G144700 chr3D 92.537 67 3 2 15 80 112723193 112723128 1.580000e-15 95.3
44 TraesCS4B01G144700 chr2A 88.172 93 10 1 667 758 150176201 150176109 5.650000e-20 110.0
45 TraesCS4B01G144700 chr1A 87.629 97 7 5 666 758 572677880 572677785 2.030000e-19 108.0
46 TraesCS4B01G144700 chr2D 83.333 114 12 7 669 775 76538152 76538039 1.220000e-16 99.0


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 TraesCS4B01G144700 chr4B 195460426 195465762 5336 True 9856.000000 9856 100.000000 1 5337 1 chr4B.!!$R1 5336
1 TraesCS4B01G144700 chr4D 136183328 136188612 5284 True 1359.666667 3640 95.450000 1 5337 6 chr4D.!!$R1 5336
2 TraesCS4B01G144700 chr4A 423154221 423159296 5075 False 1221.850000 3134 94.462333 1 5337 6 chr4A.!!$F1 5336

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
876 939 0.252479 CTTCTCCTGTCCTGCTGCAT 59.748 55.0 1.31 0.0 0.00 3.96 F
1244 1394 0.107945 GAGGTCTGCCGAGCAAAGAT 60.108 55.0 10.04 0.0 38.41 2.40 F
3134 3303 0.258484 TCCCTCCGTCCCGTAATGTA 59.742 55.0 0.00 0.0 0.00 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2280 2437 0.168788 ACCGACAAGCAATCGCAATG 59.831 50.0 0.00 0.0 42.27 2.82 R
3179 3348 1.229131 AGTACTCCCTCCGTCCCATA 58.771 55.0 0.00 0.0 0.00 2.74 R
4734 4909 0.251077 AGGCTGCCAAACTCCAAGAG 60.251 55.0 22.65 0.0 35.52 2.85 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
52 55 2.158914 AGCCAAAGTGAAAAAGGCCAAG 60.159 45.455 5.01 0.00 46.35 3.61
111 114 0.731417 ATCTGCAGCAACGAGAATGC 59.269 50.000 9.47 0.00 44.15 3.56
166 169 4.520492 CACTTCATGTAGGCACCTTCTTTT 59.480 41.667 4.24 0.00 0.00 2.27
184 187 3.426787 TTTTTGCAAGGACCCTATCGA 57.573 42.857 0.00 0.00 0.00 3.59
185 188 3.426787 TTTTGCAAGGACCCTATCGAA 57.573 42.857 0.00 0.00 0.00 3.71
186 189 3.426787 TTTGCAAGGACCCTATCGAAA 57.573 42.857 0.00 0.00 0.00 3.46
187 190 2.396590 TGCAAGGACCCTATCGAAAC 57.603 50.000 0.00 0.00 0.00 2.78
188 191 1.906574 TGCAAGGACCCTATCGAAACT 59.093 47.619 0.00 0.00 0.00 2.66
189 192 2.280628 GCAAGGACCCTATCGAAACTG 58.719 52.381 0.00 0.00 0.00 3.16
190 193 2.093658 GCAAGGACCCTATCGAAACTGA 60.094 50.000 0.00 0.00 0.00 3.41
191 194 3.618997 GCAAGGACCCTATCGAAACTGAA 60.619 47.826 0.00 0.00 0.00 3.02
192 195 3.889520 AGGACCCTATCGAAACTGAAC 57.110 47.619 0.00 0.00 0.00 3.18
193 196 3.442076 AGGACCCTATCGAAACTGAACT 58.558 45.455 0.00 0.00 0.00 3.01
194 197 4.607239 AGGACCCTATCGAAACTGAACTA 58.393 43.478 0.00 0.00 0.00 2.24
195 198 5.209659 AGGACCCTATCGAAACTGAACTAT 58.790 41.667 0.00 0.00 0.00 2.12
196 199 6.371278 AGGACCCTATCGAAACTGAACTATA 58.629 40.000 0.00 0.00 0.00 1.31
224 256 7.362574 GCAATATCTAAAGGAGTCTCGCTATCT 60.363 40.741 0.00 0.00 0.00 1.98
242 274 6.017605 CGCTATCTTTGCAATGGAGTTATCTT 60.018 38.462 11.99 0.00 0.00 2.40
251 283 8.806429 TGCAATGGAGTTATCTTTTGAATCTA 57.194 30.769 0.00 0.00 0.00 1.98
359 395 0.826715 TCAGGAGATCAAGCGGAAGG 59.173 55.000 0.00 0.00 0.00 3.46
417 453 5.354792 GTCGTAGTTAAAATAATGCCACCCA 59.645 40.000 0.00 0.00 0.00 4.51
447 483 4.269603 GGCATTATATGATAGTGAGCAGCG 59.730 45.833 0.00 0.00 0.00 5.18
476 512 1.628846 CAGTTTGGCTAGGTACAGGGT 59.371 52.381 0.00 0.00 0.00 4.34
487 523 2.105993 AGGTACAGGGTCTTTGGTTGAC 59.894 50.000 0.00 0.00 0.00 3.18
521 557 2.516923 GTCTTCGGTCATGTGTCTACG 58.483 52.381 0.00 0.00 0.00 3.51
524 560 1.141019 CGGTCATGTGTCTACGGGG 59.859 63.158 0.00 0.00 0.00 5.73
536 572 0.533491 CTACGGGGTTGATCGTTCCA 59.467 55.000 0.00 0.00 40.31 3.53
549 585 4.693566 TGATCGTTCCAATCTACGCTTTTT 59.306 37.500 0.00 0.00 37.66 1.94
555 591 6.020440 CGTTCCAATCTACGCTTTTTATCGTA 60.020 38.462 0.00 0.00 39.79 3.43
575 611 4.031426 CGTATTTGGTTCGCTCTAGTGTTC 59.969 45.833 0.00 0.00 0.00 3.18
599 635 0.892358 TCGTCGCTAGTTGGTCCACT 60.892 55.000 0.00 0.00 0.00 4.00
648 684 8.901793 TGTACTGCATGCAGAATATATTGAAAA 58.098 29.630 45.50 17.43 46.30 2.29
690 744 9.959721 ATAATACAATAATACTCCATGTGTCCC 57.040 33.333 0.00 0.00 0.00 4.46
691 745 5.708736 ACAATAATACTCCATGTGTCCCA 57.291 39.130 0.00 0.00 0.00 4.37
692 746 6.266131 ACAATAATACTCCATGTGTCCCAT 57.734 37.500 0.00 0.00 0.00 4.00
693 747 7.387265 ACAATAATACTCCATGTGTCCCATA 57.613 36.000 0.00 0.00 30.71 2.74
694 748 7.811282 ACAATAATACTCCATGTGTCCCATAA 58.189 34.615 0.00 0.00 30.71 1.90
695 749 7.719633 ACAATAATACTCCATGTGTCCCATAAC 59.280 37.037 0.00 0.00 30.71 1.89
696 750 5.708736 AATACTCCATGTGTCCCATAACA 57.291 39.130 0.00 0.00 30.71 2.41
697 751 5.912149 ATACTCCATGTGTCCCATAACAT 57.088 39.130 0.00 0.00 37.50 2.71
698 752 7.387265 AATACTCCATGTGTCCCATAACATA 57.613 36.000 0.00 0.00 35.28 2.29
699 753 5.708736 ACTCCATGTGTCCCATAACATAA 57.291 39.130 0.00 0.00 35.28 1.90
700 754 5.684704 ACTCCATGTGTCCCATAACATAAG 58.315 41.667 0.00 0.00 35.28 1.73
701 755 5.428457 ACTCCATGTGTCCCATAACATAAGA 59.572 40.000 0.00 0.00 35.28 2.10
702 756 5.928976 TCCATGTGTCCCATAACATAAGAG 58.071 41.667 0.00 0.00 35.28 2.85
703 757 4.516698 CCATGTGTCCCATAACATAAGAGC 59.483 45.833 0.00 0.00 35.28 4.09
704 758 3.792401 TGTGTCCCATAACATAAGAGCG 58.208 45.455 0.00 0.00 0.00 5.03
705 759 3.196901 TGTGTCCCATAACATAAGAGCGT 59.803 43.478 0.00 0.00 0.00 5.07
706 760 4.189231 GTGTCCCATAACATAAGAGCGTT 58.811 43.478 0.00 0.00 0.00 4.84
707 761 4.634443 GTGTCCCATAACATAAGAGCGTTT 59.366 41.667 0.00 0.00 0.00 3.60
708 762 5.123344 GTGTCCCATAACATAAGAGCGTTTT 59.877 40.000 0.00 0.00 0.00 2.43
709 763 5.708230 TGTCCCATAACATAAGAGCGTTTTT 59.292 36.000 0.00 0.00 0.00 1.94
734 788 9.772973 TTTACACTACATGTGAATAAGTGTTCT 57.227 29.630 27.56 12.33 46.38 3.01
735 789 9.772973 TTACACTACATGTGAATAAGTGTTCTT 57.227 29.630 27.56 12.06 46.38 2.52
737 791 9.944376 ACACTACATGTGAATAAGTGTTCTTAT 57.056 29.630 20.59 2.98 46.38 1.73
749 803 9.720769 AATAAGTGTTCTTATATTATGGGACGG 57.279 33.333 1.71 0.00 43.52 4.79
750 804 6.989155 AGTGTTCTTATATTATGGGACGGA 57.011 37.500 0.00 0.00 0.00 4.69
751 805 6.994221 AGTGTTCTTATATTATGGGACGGAG 58.006 40.000 0.00 0.00 0.00 4.63
752 806 6.014499 AGTGTTCTTATATTATGGGACGGAGG 60.014 42.308 0.00 0.00 0.00 4.30
753 807 5.247564 TGTTCTTATATTATGGGACGGAGGG 59.752 44.000 0.00 0.00 0.00 4.30
754 808 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
755 809 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
767 821 7.885961 TGGGACGGAGGGAGTATATTATATAA 58.114 38.462 0.00 0.00 0.00 0.98
768 822 8.346067 TGGGACGGAGGGAGTATATTATATAAA 58.654 37.037 0.00 0.00 0.00 1.40
795 855 3.944087 AGAGATACAAAGACTTGGCCAC 58.056 45.455 3.88 0.00 36.82 5.01
796 856 2.673368 GAGATACAAAGACTTGGCCACG 59.327 50.000 3.88 6.21 36.82 4.94
828 891 0.598065 CCAAGGTGCTTTGGTACTGC 59.402 55.000 5.08 0.00 42.16 4.40
848 911 2.094130 GCTACTAGCAAAACCTCGTCCT 60.094 50.000 2.96 0.00 41.89 3.85
876 939 0.252479 CTTCTCCTGTCCTGCTGCAT 59.748 55.000 1.31 0.00 0.00 3.96
929 1042 1.816074 TTTAGCGGCTACCTTGTTGG 58.184 50.000 9.68 0.00 42.93 3.77
963 1076 4.742201 TGTTCCTCGCCGCTGCTC 62.742 66.667 0.00 0.00 34.43 4.26
1076 1219 1.550524 CTGGATTCTTCCTGTCCGTGA 59.449 52.381 0.00 0.00 43.07 4.35
1232 1382 0.461961 GATCGTTCCCCTGAGGTCTG 59.538 60.000 0.00 0.00 36.75 3.51
1244 1394 0.107945 GAGGTCTGCCGAGCAAAGAT 60.108 55.000 10.04 0.00 38.41 2.40
1273 1423 3.062763 CTCGTGCTTCTTGATGTGTCTT 58.937 45.455 0.00 0.00 0.00 3.01
1312 1469 1.474478 TCGGAACAGAGCACTGATCTC 59.526 52.381 18.54 10.40 46.03 2.75
1494 1651 1.419922 GCACAGCGTCACCATTACG 59.580 57.895 0.00 0.00 43.12 3.18
1695 1852 4.552365 ATCATGGGCGCGGAGGTG 62.552 66.667 8.83 0.00 0.00 4.00
1697 1854 4.552365 CATGGGCGCGGAGGTGAT 62.552 66.667 8.83 0.00 0.00 3.06
1730 1887 9.832445 TTTAATTTGGGTTGCAGTTATTGTTTA 57.168 25.926 0.00 0.00 0.00 2.01
1783 1940 6.664515 ACAAATTCTGCTTTGCATTGAATTG 58.335 32.000 15.47 12.84 40.20 2.32
2126 2283 6.775629 AGTTGTTTCCTTCTGCTTTACCATAA 59.224 34.615 0.00 0.00 0.00 1.90
2189 2346 3.321950 AGGGCTGTGGCTAATAAGAGAT 58.678 45.455 0.00 0.00 38.73 2.75
2345 2502 3.056304 TGCGGCTATTTTTGTTTCTTGC 58.944 40.909 0.00 0.00 0.00 4.01
2697 2856 1.724582 GCGTGCTTGGTCCACTTGTT 61.725 55.000 0.00 0.00 0.00 2.83
2699 2858 1.102978 GTGCTTGGTCCACTTGTTGT 58.897 50.000 0.00 0.00 0.00 3.32
2743 2902 0.982852 CCAGGGCTCAGTATGGTGGA 60.983 60.000 0.00 0.00 36.16 4.02
2866 3025 1.134007 CAGCCTGGAGCATACATCCAA 60.134 52.381 0.00 0.00 46.04 3.53
2906 3065 3.952323 AGCATTAATGAGCTTCATGCACT 59.048 39.130 19.73 0.00 43.78 4.40
2913 3072 2.831526 TGAGCTTCATGCACTAGGTGTA 59.168 45.455 0.00 0.00 45.94 2.90
2955 3124 8.795786 TTGAGCATATACTGTTTTGTTTGTTC 57.204 30.769 0.00 0.00 0.00 3.18
3081 3250 6.942005 ACCATCTCATCTTCACACATTGTTTA 59.058 34.615 0.00 0.00 0.00 2.01
3116 3285 9.529325 TCATATGTATTTTGCACAGTAGTACTC 57.471 33.333 0.00 0.00 0.00 2.59
3117 3286 8.765219 CATATGTATTTTGCACAGTAGTACTCC 58.235 37.037 0.00 0.00 0.00 3.85
3118 3287 5.484715 TGTATTTTGCACAGTAGTACTCCC 58.515 41.667 0.00 0.00 0.00 4.30
3119 3288 4.910458 ATTTTGCACAGTAGTACTCCCT 57.090 40.909 0.00 0.00 0.00 4.20
3120 3289 3.955650 TTTGCACAGTAGTACTCCCTC 57.044 47.619 0.00 0.00 0.00 4.30
3121 3290 1.848652 TGCACAGTAGTACTCCCTCC 58.151 55.000 0.00 0.00 0.00 4.30
3122 3291 0.739561 GCACAGTAGTACTCCCTCCG 59.260 60.000 0.00 0.00 0.00 4.63
3123 3292 1.954258 GCACAGTAGTACTCCCTCCGT 60.954 57.143 0.00 0.00 0.00 4.69
3124 3293 2.015587 CACAGTAGTACTCCCTCCGTC 58.984 57.143 0.00 0.00 0.00 4.79
3125 3294 1.064832 ACAGTAGTACTCCCTCCGTCC 60.065 57.143 0.00 0.00 0.00 4.79
3126 3295 0.550432 AGTAGTACTCCCTCCGTCCC 59.450 60.000 0.00 0.00 0.00 4.46
3127 3296 0.817229 GTAGTACTCCCTCCGTCCCG 60.817 65.000 0.00 0.00 0.00 5.14
3128 3297 1.274703 TAGTACTCCCTCCGTCCCGT 61.275 60.000 0.00 0.00 0.00 5.28
3129 3298 1.224592 GTACTCCCTCCGTCCCGTA 59.775 63.158 0.00 0.00 0.00 4.02
3130 3299 0.394352 GTACTCCCTCCGTCCCGTAA 60.394 60.000 0.00 0.00 0.00 3.18
3131 3300 0.552848 TACTCCCTCCGTCCCGTAAT 59.447 55.000 0.00 0.00 0.00 1.89
3132 3301 1.041447 ACTCCCTCCGTCCCGTAATG 61.041 60.000 0.00 0.00 0.00 1.90
3133 3302 1.000739 TCCCTCCGTCCCGTAATGT 59.999 57.895 0.00 0.00 0.00 2.71
3134 3303 0.258484 TCCCTCCGTCCCGTAATGTA 59.742 55.000 0.00 0.00 0.00 2.29
3135 3304 1.113788 CCCTCCGTCCCGTAATGTAA 58.886 55.000 0.00 0.00 0.00 2.41
3136 3305 1.481772 CCCTCCGTCCCGTAATGTAAA 59.518 52.381 0.00 0.00 0.00 2.01
3137 3306 2.093553 CCCTCCGTCCCGTAATGTAAAA 60.094 50.000 0.00 0.00 0.00 1.52
3138 3307 2.931969 CCTCCGTCCCGTAATGTAAAAC 59.068 50.000 0.00 0.00 0.00 2.43
3139 3308 3.587923 CTCCGTCCCGTAATGTAAAACA 58.412 45.455 0.00 0.00 0.00 2.83
3140 3309 4.186159 CTCCGTCCCGTAATGTAAAACAT 58.814 43.478 0.00 0.00 41.31 2.71
3142 3311 5.002516 TCCGTCCCGTAATGTAAAACATTT 58.997 37.500 10.29 0.00 45.80 2.32
3143 3312 5.472820 TCCGTCCCGTAATGTAAAACATTTT 59.527 36.000 10.29 0.00 45.80 1.82
3144 3313 5.796437 CCGTCCCGTAATGTAAAACATTTTC 59.204 40.000 10.29 4.67 45.80 2.29
3145 3314 6.348704 CCGTCCCGTAATGTAAAACATTTTCT 60.349 38.462 10.29 0.00 45.80 2.52
3146 3315 6.521821 CGTCCCGTAATGTAAAACATTTTCTG 59.478 38.462 10.29 2.71 45.80 3.02
3147 3316 7.571613 CGTCCCGTAATGTAAAACATTTTCTGA 60.572 37.037 10.29 1.93 45.80 3.27
3148 3317 7.536281 GTCCCGTAATGTAAAACATTTTCTGAC 59.464 37.037 10.29 9.03 45.80 3.51
3149 3318 7.228906 TCCCGTAATGTAAAACATTTTCTGACA 59.771 33.333 10.29 0.00 45.80 3.58
3150 3319 7.325097 CCCGTAATGTAAAACATTTTCTGACAC 59.675 37.037 10.29 1.21 45.80 3.67
3151 3320 8.073768 CCGTAATGTAAAACATTTTCTGACACT 58.926 33.333 10.29 0.00 45.80 3.55
3155 3324 9.950680 AATGTAAAACATTTTCTGACACTAGTG 57.049 29.630 21.44 21.44 45.80 2.74
3156 3325 9.120538 ATGTAAAACATTTTCTGACACTAGTGT 57.879 29.630 28.27 28.27 40.45 3.55
3157 3326 9.602568 TGTAAAACATTTTCTGACACTAGTGTA 57.397 29.630 27.98 12.27 45.05 2.90
3159 3328 8.732746 AAAACATTTTCTGACACTAGTGTAGT 57.267 30.769 27.98 6.32 45.05 2.73
3189 3358 5.623956 AATGTCTTACATTATGGGACGGA 57.376 39.130 3.51 0.00 46.11 4.69
3190 3359 4.665833 TGTCTTACATTATGGGACGGAG 57.334 45.455 0.00 0.00 0.00 4.63
3191 3360 3.386726 TGTCTTACATTATGGGACGGAGG 59.613 47.826 0.00 0.00 0.00 4.30
3192 3361 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
3193 3362 2.779429 TACATTATGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
3194 3363 1.424638 ACATTATGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
3195 3364 1.344087 ACATTATGGGACGGAGGGAGT 60.344 52.381 0.00 0.00 0.00 3.85
3337 3509 7.562135 ACAGGTGAACTACTAGAAGTTTTTCA 58.438 34.615 0.00 0.00 39.78 2.69
3339 3511 8.889717 CAGGTGAACTACTAGAAGTTTTTCAAA 58.110 33.333 0.00 0.00 39.78 2.69
3348 3520 8.214721 ACTAGAAGTTTTTCAAAGGAACTCAG 57.785 34.615 0.00 0.00 34.32 3.35
3368 3540 5.189928 TCAGCTGACACACCTTTTTCTTTA 58.810 37.500 13.74 0.00 0.00 1.85
3525 3698 4.839121 AGTGGTGTTGAACTGTTGTCTTA 58.161 39.130 0.00 0.00 0.00 2.10
3610 3783 2.568509 TGCATCATTCTGTCTCCACTCA 59.431 45.455 0.00 0.00 0.00 3.41
3619 3792 6.867519 TTCTGTCTCCACTCAATAACCATA 57.132 37.500 0.00 0.00 0.00 2.74
3817 3990 1.936547 GTGGATCTTCAAGCGTCATCC 59.063 52.381 0.00 0.00 34.64 3.51
3863 4036 1.051812 GATGTCCGGTGGGATCTCAT 58.948 55.000 0.00 0.00 46.14 2.90
3873 4046 7.489375 CCGGTGGGATCTCATGTATTCATGT 62.489 48.000 11.55 0.00 42.88 3.21
3930 4103 1.699634 CTCTTTCAAGACCACCCCTGA 59.300 52.381 0.00 0.00 0.00 3.86
3964 4137 4.759782 ACATAAAGGAAGTGGTCATCTCG 58.240 43.478 0.00 0.00 0.00 4.04
3976 4149 5.833667 AGTGGTCATCTCGGATGTAGAAATA 59.166 40.000 11.91 0.00 0.00 1.40
4013 4186 6.265196 TGTGGCCATTGAATTCATAGGTAATC 59.735 38.462 9.72 13.07 0.00 1.75
4240 4413 5.614324 ATGTTTCTGGATACTCGGAATCA 57.386 39.130 0.00 0.00 37.61 2.57
4278 4451 2.632377 CTCGGAACTGTATGCACCATT 58.368 47.619 0.00 0.00 0.00 3.16
4327 4500 1.679032 CCTAGTTACAGTGCCCTTGCC 60.679 57.143 0.00 0.00 36.33 4.52
4501 4676 0.695462 ATGGGGCCTATGCTCAGACA 60.695 55.000 0.00 0.00 40.96 3.41
4770 4945 3.070734 CAGCCTGGCTATGAATGTAGAGT 59.929 47.826 22.90 0.00 36.40 3.24
4773 4948 4.626042 CCTGGCTATGAATGTAGAGTCAC 58.374 47.826 0.00 0.00 0.00 3.67
4798 4973 6.150474 CACGTCTCCCTGGTTAAATAATTTGT 59.850 38.462 0.00 0.00 0.00 2.83
4831 5006 6.433716 TGAGTTGTTAATTTGATGCTGATGGA 59.566 34.615 0.00 0.00 0.00 3.41
5015 5190 3.193267 GTCATGCTGGCCTTTTCATGTAA 59.807 43.478 19.07 0.00 37.95 2.41
5064 5240 6.549364 TCAAGAAGAAAAATAAGCCTGTTGGA 59.451 34.615 0.00 0.00 34.57 3.53
5083 5259 4.449131 TGGAGCTTCATTATTCTCTGCAG 58.551 43.478 7.63 7.63 0.00 4.41
5122 5298 4.340950 TGTATATTGTCATCGCCAGAGTGA 59.659 41.667 0.00 0.00 36.82 3.41
5225 5401 5.333581 TCTTATATCATGGGATGACGGAGT 58.666 41.667 0.00 0.00 43.01 3.85
5283 5465 5.939764 TGTTCATGTGTCCTATTCTAGCT 57.060 39.130 0.00 0.00 0.00 3.32
5314 5496 2.601067 TCCAACGCTGACCCCGTA 60.601 61.111 0.00 0.00 38.06 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
52 55 2.484065 GGGTGTTTGGTTGGGCTTTTAC 60.484 50.000 0.00 0.00 0.00 2.01
76 79 3.507622 TGCAGATCTATCCACCGACATAG 59.492 47.826 0.00 0.00 0.00 2.23
77 80 3.496331 TGCAGATCTATCCACCGACATA 58.504 45.455 0.00 0.00 0.00 2.29
111 114 3.748048 TCACCATTCGAGCTTCTCAAAAG 59.252 43.478 0.00 0.00 0.00 2.27
166 169 3.078837 GTTTCGATAGGGTCCTTGCAAA 58.921 45.455 0.00 0.00 0.00 3.68
168 171 1.906574 AGTTTCGATAGGGTCCTTGCA 59.093 47.619 0.00 0.00 0.00 4.08
169 172 2.093658 TCAGTTTCGATAGGGTCCTTGC 60.094 50.000 0.00 0.00 0.00 4.01
170 173 3.887621 TCAGTTTCGATAGGGTCCTTG 57.112 47.619 0.00 0.00 0.00 3.61
171 174 3.838903 AGTTCAGTTTCGATAGGGTCCTT 59.161 43.478 0.00 0.00 0.00 3.36
172 175 3.442076 AGTTCAGTTTCGATAGGGTCCT 58.558 45.455 0.00 0.00 0.00 3.85
173 176 3.889520 AGTTCAGTTTCGATAGGGTCC 57.110 47.619 0.00 0.00 0.00 4.46
174 177 6.586844 GCATATAGTTCAGTTTCGATAGGGTC 59.413 42.308 0.00 0.00 0.00 4.46
175 178 6.041637 TGCATATAGTTCAGTTTCGATAGGGT 59.958 38.462 0.00 0.00 0.00 4.34
176 179 6.455647 TGCATATAGTTCAGTTTCGATAGGG 58.544 40.000 0.00 0.00 0.00 3.53
177 180 7.946655 TTGCATATAGTTCAGTTTCGATAGG 57.053 36.000 0.00 0.00 0.00 2.57
180 183 9.935241 AGATATTGCATATAGTTCAGTTTCGAT 57.065 29.630 0.00 0.00 0.00 3.59
192 195 9.729023 CGAGACTCCTTTAGATATTGCATATAG 57.271 37.037 0.00 0.00 0.00 1.31
193 196 8.191446 GCGAGACTCCTTTAGATATTGCATATA 58.809 37.037 0.00 0.00 0.00 0.86
194 197 7.038659 GCGAGACTCCTTTAGATATTGCATAT 58.961 38.462 0.00 0.00 0.00 1.78
195 198 6.209589 AGCGAGACTCCTTTAGATATTGCATA 59.790 38.462 0.00 0.00 0.00 3.14
196 199 5.011533 AGCGAGACTCCTTTAGATATTGCAT 59.988 40.000 0.00 0.00 0.00 3.96
211 243 3.247173 CCATTGCAAAGATAGCGAGACTC 59.753 47.826 1.71 0.00 33.85 3.36
224 256 8.587608 AGATTCAAAAGATAACTCCATTGCAAA 58.412 29.630 1.71 0.00 0.00 3.68
242 274 4.019771 GGCCCCCAAACAATTAGATTCAAA 60.020 41.667 0.00 0.00 0.00 2.69
251 283 4.279288 AGTATATGGCCCCCAAACAATT 57.721 40.909 0.00 0.00 36.95 2.32
286 318 5.928976 TCTTTATTGCTTAGCATAGCCTCA 58.071 37.500 8.05 0.00 40.49 3.86
330 366 4.036734 GCTTGATCTCCTGACACAACAAAA 59.963 41.667 0.00 0.00 0.00 2.44
334 370 1.728971 CGCTTGATCTCCTGACACAAC 59.271 52.381 0.00 0.00 0.00 3.32
338 374 1.205655 CTTCCGCTTGATCTCCTGACA 59.794 52.381 0.00 0.00 0.00 3.58
429 465 2.159379 CGCCGCTGCTCACTATCATATA 60.159 50.000 0.00 0.00 34.43 0.86
435 471 1.065928 GTACGCCGCTGCTCACTAT 59.934 57.895 0.00 0.00 34.43 2.12
447 483 2.537401 CTAGCCAAACTGTAGTACGCC 58.463 52.381 0.00 0.00 0.00 5.68
455 491 1.628846 CCCTGTACCTAGCCAAACTGT 59.371 52.381 0.00 0.00 0.00 3.55
476 512 2.712709 TCCAAACACGTCAACCAAAGA 58.287 42.857 0.00 0.00 0.00 2.52
487 523 1.649171 CGAAGACGAGATCCAAACACG 59.351 52.381 0.00 0.00 42.66 4.49
521 557 2.420058 AGATTGGAACGATCAACCCC 57.580 50.000 0.00 0.00 0.00 4.95
524 560 3.187700 AGCGTAGATTGGAACGATCAAC 58.812 45.455 0.00 0.00 41.55 3.18
536 572 8.205131 ACCAAATACGATAAAAAGCGTAGATT 57.795 30.769 0.00 0.00 44.84 2.40
549 585 5.066893 ACACTAGAGCGAACCAAATACGATA 59.933 40.000 0.00 0.00 0.00 2.92
555 591 2.993899 CGAACACTAGAGCGAACCAAAT 59.006 45.455 0.00 0.00 0.00 2.32
575 611 0.445436 ACCAACTAGCGACGACTACG 59.555 55.000 0.00 0.00 45.75 3.51
621 657 8.449251 TTCAATATATTCTGCATGCAGTACAA 57.551 30.769 39.08 29.00 43.96 2.41
686 740 5.813080 AAAACGCTCTTATGTTATGGGAC 57.187 39.130 0.00 0.00 0.00 4.46
708 762 9.772973 AGAACACTTATTCACATGTAGTGTAAA 57.227 29.630 24.51 5.02 46.20 2.01
709 763 9.772973 AAGAACACTTATTCACATGTAGTGTAA 57.227 29.630 24.51 10.42 46.20 2.41
723 777 9.720769 CCGTCCCATAATATAAGAACACTTATT 57.279 33.333 7.60 0.00 37.76 1.40
724 778 9.096823 TCCGTCCCATAATATAAGAACACTTAT 57.903 33.333 0.00 0.00 39.31 1.73
725 779 8.481492 TCCGTCCCATAATATAAGAACACTTA 57.519 34.615 0.00 0.00 0.00 2.24
726 780 7.369551 TCCGTCCCATAATATAAGAACACTT 57.630 36.000 0.00 0.00 0.00 3.16
727 781 6.014499 CCTCCGTCCCATAATATAAGAACACT 60.014 42.308 0.00 0.00 0.00 3.55
728 782 6.164176 CCTCCGTCCCATAATATAAGAACAC 58.836 44.000 0.00 0.00 0.00 3.32
729 783 5.247564 CCCTCCGTCCCATAATATAAGAACA 59.752 44.000 0.00 0.00 0.00 3.18
730 784 5.482878 TCCCTCCGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
731 785 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
732 786 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
733 787 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
734 788 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
735 789 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
736 790 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
737 791 4.687262 ATACTCCCTCCGTCCCATAATA 57.313 45.455 0.00 0.00 0.00 0.98
738 792 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
739 793 4.687262 ATATACTCCCTCCGTCCCATAA 57.313 45.455 0.00 0.00 0.00 1.90
740 794 4.687262 AATATACTCCCTCCGTCCCATA 57.313 45.455 0.00 0.00 0.00 2.74
741 795 3.562108 AATATACTCCCTCCGTCCCAT 57.438 47.619 0.00 0.00 0.00 4.00
742 796 4.687262 ATAATATACTCCCTCCGTCCCA 57.313 45.455 0.00 0.00 0.00 4.37
743 797 8.773033 TTTATATAATATACTCCCTCCGTCCC 57.227 38.462 0.00 0.00 0.00 4.46
804 864 2.135890 CCAAAGCACCTTGGCCTTT 58.864 52.632 3.32 0.00 39.55 3.11
828 891 3.444388 AGAGGACGAGGTTTTGCTAGTAG 59.556 47.826 0.00 0.00 0.00 2.57
844 907 0.458260 GGAGAAGCGAAGGAGAGGAC 59.542 60.000 0.00 0.00 0.00 3.85
848 911 1.178276 GACAGGAGAAGCGAAGGAGA 58.822 55.000 0.00 0.00 0.00 3.71
992 1135 3.733337 ACTAGCCTCTTCATTATTGCCG 58.267 45.455 0.00 0.00 0.00 5.69
997 1140 7.820578 ACGTACTTACTAGCCTCTTCATTAT 57.179 36.000 0.00 0.00 0.00 1.28
1076 1219 1.817447 GAGCAGCAAGGAAAGAGCAAT 59.183 47.619 0.00 0.00 0.00 3.56
1244 1394 1.460743 CAAGAAGCACGAGAAATCGCA 59.539 47.619 0.00 0.00 36.44 5.10
1273 1423 2.672714 GAGAACACACACATACTCGCA 58.327 47.619 0.00 0.00 0.00 5.10
1312 1469 3.120546 ACACATCAAAACATCGCTCTTCG 60.121 43.478 0.00 0.00 40.15 3.79
1416 1573 1.078214 CACATGGCCGTGGACTGAT 60.078 57.895 28.37 3.62 33.05 2.90
1683 1840 4.241555 ATCATCACCTCCGCGCCC 62.242 66.667 0.00 0.00 0.00 6.13
1695 1852 4.571984 GCAACCCAAATTAAAGCCATCATC 59.428 41.667 0.00 0.00 0.00 2.92
1697 1854 3.326006 TGCAACCCAAATTAAAGCCATCA 59.674 39.130 0.00 0.00 0.00 3.07
1762 1919 5.180492 CCACAATTCAATGCAAAGCAGAATT 59.820 36.000 11.22 11.22 43.65 2.17
1783 1940 4.220821 TCATCTAACACACTCCTTCTCCAC 59.779 45.833 0.00 0.00 0.00 4.02
2126 2283 1.308998 CCTTCCAAACACTCGCTGTT 58.691 50.000 0.00 0.00 45.68 3.16
2280 2437 0.168788 ACCGACAAGCAATCGCAATG 59.831 50.000 0.00 0.00 42.27 2.82
2324 2481 3.056304 GCAAGAAACAAAAATAGCCGCA 58.944 40.909 0.00 0.00 0.00 5.69
2345 2502 6.898041 TGTTTGTCTTCCTTCGAATTACATG 58.102 36.000 0.00 0.00 0.00 3.21
2405 2562 9.965824 AAGTATGAAGAACAAATTGTTTTCGAT 57.034 25.926 13.00 13.95 41.28 3.59
2436 2593 7.716560 TGGTTAGTACTAAAAAGGTGGAGAAAC 59.283 37.037 16.82 2.21 0.00 2.78
2633 2790 4.397420 ACAAATGTGACATAGTCAAGCCA 58.603 39.130 0.00 0.00 44.49 4.75
2697 2856 7.310423 CCATCGATAAGTCCATTATTCCCTACA 60.310 40.741 0.00 0.00 34.10 2.74
2699 2858 6.351881 GCCATCGATAAGTCCATTATTCCCTA 60.352 42.308 0.00 0.00 34.10 3.53
2906 3065 8.714179 CAAATAACACTCACGAAATTACACCTA 58.286 33.333 0.00 0.00 0.00 3.08
2913 3072 6.312399 TGCTCAAATAACACTCACGAAATT 57.688 33.333 0.00 0.00 0.00 1.82
2955 3124 6.555315 GTTATGAACCTTTACATTGCTGGAG 58.445 40.000 0.00 0.00 0.00 3.86
3015 3184 3.327757 TCATACCTGGAACTATGCCATCC 59.672 47.826 0.00 0.00 34.33 3.51
3130 3299 9.120538 ACACTAGTGTCAGAAAATGTTTTACAT 57.879 29.630 22.95 0.00 40.24 2.29
3131 3300 8.500753 ACACTAGTGTCAGAAAATGTTTTACA 57.499 30.769 22.95 0.00 40.24 2.41
3133 3302 9.826574 ACTACACTAGTGTCAGAAAATGTTTTA 57.173 29.630 31.11 8.36 43.74 1.52
3134 3303 8.732746 ACTACACTAGTGTCAGAAAATGTTTT 57.267 30.769 31.11 4.99 43.74 2.43
3164 3333 6.887545 TCCGTCCCATAATGTAAGACATTTTT 59.112 34.615 9.92 0.00 45.80 1.94
3165 3334 6.419791 TCCGTCCCATAATGTAAGACATTTT 58.580 36.000 9.92 0.33 45.80 1.82
3166 3335 5.996644 TCCGTCCCATAATGTAAGACATTT 58.003 37.500 9.92 0.00 45.80 2.32
3168 3337 4.040461 CCTCCGTCCCATAATGTAAGACAT 59.960 45.833 0.00 0.00 41.31 3.06
3169 3338 3.386726 CCTCCGTCCCATAATGTAAGACA 59.613 47.826 0.00 0.00 0.00 3.41
3170 3339 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
3171 3340 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
3172 3341 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
3173 3342 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
3174 3343 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
3175 3344 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
3176 3345 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
3177 3346 2.179424 AGTACTCCCTCCGTCCCATAAT 59.821 50.000 0.00 0.00 0.00 1.28
3178 3347 1.572415 AGTACTCCCTCCGTCCCATAA 59.428 52.381 0.00 0.00 0.00 1.90
3179 3348 1.229131 AGTACTCCCTCCGTCCCATA 58.771 55.000 0.00 0.00 0.00 2.74
3180 3349 1.229131 TAGTACTCCCTCCGTCCCAT 58.771 55.000 0.00 0.00 0.00 4.00
3181 3350 1.229131 ATAGTACTCCCTCCGTCCCA 58.771 55.000 0.00 0.00 0.00 4.37
3182 3351 2.378378 AATAGTACTCCCTCCGTCCC 57.622 55.000 0.00 0.00 0.00 4.46
3183 3352 5.595952 TCTTAAAATAGTACTCCCTCCGTCC 59.404 44.000 0.00 0.00 0.00 4.79
3184 3353 6.705863 TCTTAAAATAGTACTCCCTCCGTC 57.294 41.667 0.00 0.00 0.00 4.79
3185 3354 7.672122 AATCTTAAAATAGTACTCCCTCCGT 57.328 36.000 0.00 0.00 0.00 4.69
3186 3355 8.305317 CCTAATCTTAAAATAGTACTCCCTCCG 58.695 40.741 0.00 0.00 0.00 4.63
3187 3356 8.595421 CCCTAATCTTAAAATAGTACTCCCTCC 58.405 40.741 0.00 0.00 0.00 4.30
3188 3357 9.156940 ACCCTAATCTTAAAATAGTACTCCCTC 57.843 37.037 0.00 0.00 0.00 4.30
3189 3358 9.516788 AACCCTAATCTTAAAATAGTACTCCCT 57.483 33.333 0.00 0.00 0.00 4.20
3190 3359 9.775854 GAACCCTAATCTTAAAATAGTACTCCC 57.224 37.037 0.00 0.00 0.00 4.30
3337 3509 2.565841 GTGTGTCAGCTGAGTTCCTTT 58.434 47.619 18.89 0.00 0.00 3.11
3339 3511 0.394565 GGTGTGTCAGCTGAGTTCCT 59.605 55.000 18.89 0.00 0.00 3.36
3348 3520 5.687285 CACATAAAGAAAAAGGTGTGTCAGC 59.313 40.000 0.00 0.00 34.00 4.26
3368 3540 2.603021 TGGCAACCACAAATACCACAT 58.397 42.857 0.00 0.00 0.00 3.21
3429 3601 9.989869 GCCTTTTAAAGTATACTCATGTTTCTC 57.010 33.333 5.70 0.00 0.00 2.87
3447 3619 3.118811 GCATGTTGCATAGGGCCTTTTAA 60.119 43.478 13.45 0.00 44.26 1.52
3817 3990 3.556543 AAATGCAAGTGCGGCACCG 62.557 57.895 28.14 20.55 45.23 4.94
3863 4036 7.194112 TCCTTAGGTGATCAACATGAATACA 57.806 36.000 14.46 0.00 0.00 2.29
3873 4046 6.386927 AGAACCATGTATCCTTAGGTGATCAA 59.613 38.462 0.00 0.00 31.86 2.57
3964 4137 7.036220 CACGGATACCATCTATTTCTACATCC 58.964 42.308 0.00 0.00 0.00 3.51
3976 4149 0.980754 TGGCCACACGGATACCATCT 60.981 55.000 0.00 0.00 0.00 2.90
4240 4413 0.839853 AGCAAGGCTCAGGGAAGACT 60.840 55.000 0.00 0.00 35.60 3.24
4327 4500 8.811378 CAAGAATATATATGTGACTATGCCACG 58.189 37.037 0.00 0.00 37.34 4.94
4366 4541 3.053619 ACAAGGACTGGGACAAGAAAAGT 60.054 43.478 0.00 0.00 38.70 2.66
4432 4607 7.158021 TCTTGACGCATTTATTGGGAATTTTT 58.842 30.769 0.00 0.00 40.62 1.94
4433 4608 6.696411 TCTTGACGCATTTATTGGGAATTTT 58.304 32.000 0.00 0.00 40.62 1.82
4434 4609 6.279513 TCTTGACGCATTTATTGGGAATTT 57.720 33.333 0.00 0.00 40.62 1.82
4435 4610 5.913137 TCTTGACGCATTTATTGGGAATT 57.087 34.783 0.00 0.00 40.62 2.17
4436 4611 5.652014 TCTTCTTGACGCATTTATTGGGAAT 59.348 36.000 0.00 0.00 40.62 3.01
4501 4676 7.002276 TCCTCATGATCATTATGCATCTTGTT 58.998 34.615 5.16 0.00 0.00 2.83
4599 4774 7.065683 CACACAAGCCCTAACAAAAAGAAAATT 59.934 33.333 0.00 0.00 0.00 1.82
4612 4787 3.503998 TTGTGCACACAAGCCCTAA 57.496 47.368 21.56 0.00 45.42 2.69
4734 4909 0.251077 AGGCTGCCAAACTCCAAGAG 60.251 55.000 22.65 0.00 35.52 2.85
4770 4945 1.707106 TTAACCAGGGAGACGTGTGA 58.293 50.000 0.00 0.00 44.59 3.58
4773 4948 6.150474 ACAAATTATTTAACCAGGGAGACGTG 59.850 38.462 0.00 0.00 45.62 4.49
4798 4973 7.809331 GCATCAAATTAACAACTCATCTGACAA 59.191 33.333 0.00 0.00 0.00 3.18
4831 5006 0.839946 CCGGGAGAGGACAAATGGAT 59.160 55.000 0.00 0.00 0.00 3.41
5015 5190 6.310149 ACATCAAGAGATTCCTCCAAAAGTT 58.690 36.000 0.00 0.00 40.30 2.66
5064 5240 3.457380 TCCCTGCAGAGAATAATGAAGCT 59.543 43.478 17.39 0.00 0.00 3.74
5083 5259 2.389962 TACAACACCTATTGCGTCCC 57.610 50.000 0.00 0.00 32.47 4.46
5122 5298 6.015519 TGTGCTACTTTTTGTGAATGCCTAAT 60.016 34.615 0.00 0.00 0.00 1.73
5165 5341 3.446442 ACTCCGGTAAAGACTAGTCCA 57.554 47.619 19.38 2.29 0.00 4.02
5283 5465 1.207089 CGTTGGAGATGCCCTTAGTCA 59.793 52.381 0.00 0.00 34.97 3.41


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

AutoCloner maintained by Alex Coulton.