Multiple sequence alignment - TraesCS1D01G251600

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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 TraesCS1D01G251600 chr1D 100.000 1793 0 0 3838 5630 344082693 344084485 0.000000e+00 3312.0
1 TraesCS1D01G251600 chr1D 100.000 1392 0 0 848 2239 344079703 344081094 0.000000e+00 2571.0
2 TraesCS1D01G251600 chr1D 100.000 1060 0 0 2422 3481 344081277 344082336 0.000000e+00 1958.0
3 TraesCS1D01G251600 chr1D 100.000 574 0 0 1 574 344078856 344079429 0.000000e+00 1061.0
4 TraesCS1D01G251600 chr1D 89.726 584 43 5 1 570 482916650 482916070 0.000000e+00 730.0
5 TraesCS1D01G251600 chr1D 85.017 594 35 19 1 570 62156903 62157466 6.370000e-154 555.0
6 TraesCS1D01G251600 chr1D 98.361 61 1 0 5027 5087 344083816 344083876 2.140000e-19 108.0
7 TraesCS1D01G251600 chr1D 98.361 61 1 0 4961 5021 344083882 344083942 2.140000e-19 108.0
8 TraesCS1D01G251600 chr1B 93.774 1285 42 6 969 2237 462792380 462793642 0.000000e+00 1895.0
9 TraesCS1D01G251600 chr1B 93.922 1201 43 16 3838 5020 462795202 462796390 0.000000e+00 1786.0
10 TraesCS1D01G251600 chr1B 96.034 1059 35 3 2422 3479 462793743 462794795 0.000000e+00 1716.0
11 TraesCS1D01G251600 chr1B 86.316 95 8 3 5027 5119 462796330 462796421 1.290000e-16 99.0
12 TraesCS1D01G251600 chr1A 92.471 1275 41 21 970 2192 443712034 443710763 0.000000e+00 1772.0
13 TraesCS1D01G251600 chr1A 94.306 1124 49 6 3838 4946 443709432 443708309 0.000000e+00 1707.0
14 TraesCS1D01G251600 chr1A 91.777 1058 63 11 2422 3464 443710725 443709677 0.000000e+00 1450.0
15 TraesCS1D01G251600 chr1A 91.429 70 3 3 853 921 4386429 4386362 6.010000e-15 93.5
16 TraesCS1D01G251600 chrUn 94.542 513 26 1 5120 5630 104762521 104762009 0.000000e+00 791.0
17 TraesCS1D01G251600 chrUn 89.655 580 46 8 1 570 424731071 424731646 0.000000e+00 726.0
18 TraesCS1D01G251600 chrUn 89.655 580 46 8 1 570 424732385 424732960 0.000000e+00 726.0
19 TraesCS1D01G251600 chrUn 89.655 580 46 8 1 570 471123680 471123105 0.000000e+00 726.0
20 TraesCS1D01G251600 chrUn 91.650 515 37 4 5120 5629 97100332 97099819 0.000000e+00 708.0
21 TraesCS1D01G251600 chrUn 94.203 69 2 2 854 921 8849969 8850036 2.770000e-18 104.0
22 TraesCS1D01G251600 chr3D 94.118 510 28 1 1 508 295968647 295968138 0.000000e+00 774.0
23 TraesCS1D01G251600 chr3D 92.534 509 34 3 2 508 168183014 168183520 0.000000e+00 726.0
24 TraesCS1D01G251600 chr3D 87.479 591 39 7 1 570 544416892 544417468 0.000000e+00 649.0
25 TraesCS1D01G251600 chr3D 92.857 70 3 2 852 921 13155141 13155074 3.590000e-17 100.0
26 TraesCS1D01G251600 chr5D 94.118 510 27 2 1 508 542604818 542605326 0.000000e+00 773.0
27 TraesCS1D01G251600 chr5D 91.033 513 42 3 5120 5629 420377083 420377594 0.000000e+00 689.0
28 TraesCS1D01G251600 chr5D 85.473 592 28 16 1 570 124517027 124517582 1.060000e-156 564.0
29 TraesCS1D01G251600 chr5D 93.056 72 1 4 851 921 48357581 48357513 9.980000e-18 102.0
30 TraesCS1D01G251600 chr7D 90.694 591 34 4 1 572 164854687 164854099 0.000000e+00 767.0
31 TraesCS1D01G251600 chr7D 92.586 526 29 5 5114 5630 306476705 306476181 0.000000e+00 747.0
32 TraesCS1D01G251600 chr7D 92.593 513 32 4 5120 5629 150599669 150599160 0.000000e+00 732.0
33 TraesCS1D01G251600 chr7D 89.590 586 42 2 1 569 533937224 533937807 0.000000e+00 726.0
34 TraesCS1D01G251600 chr7D 89.041 584 29 8 1 572 566126157 566126717 0.000000e+00 691.0
35 TraesCS1D01G251600 chr7D 88.423 596 40 8 1 572 623766042 623765452 0.000000e+00 691.0
36 TraesCS1D01G251600 chr6D 90.017 591 38 4 1 571 421464847 421464258 0.000000e+00 745.0
37 TraesCS1D01G251600 chr6D 89.493 533 54 1 5100 5630 19664873 19665405 0.000000e+00 673.0
38 TraesCS1D01G251600 chr2D 91.618 513 37 4 5120 5629 308901278 308900769 0.000000e+00 704.0
39 TraesCS1D01G251600 chr2D 91.171 521 41 4 5114 5630 126853239 126853758 0.000000e+00 702.0
40 TraesCS1D01G251600 chr5A 90.891 516 41 4 5120 5630 398778619 398778105 0.000000e+00 688.0
41 TraesCS1D01G251600 chr5B 95.652 69 2 1 853 921 94128314 94128247 5.960000e-20 110.0
42 TraesCS1D01G251600 chr2B 95.588 68 1 2 854 921 794099440 794099375 2.140000e-19 108.0
43 TraesCS1D01G251600 chr2B 95.588 68 1 2 854 921 794108585 794108520 2.140000e-19 108.0
44 TraesCS1D01G251600 chr2B 92.754 69 3 2 853 921 24698850 24698784 1.290000e-16 99.0
45 TraesCS1D01G251600 chr3B 94.203 69 3 1 853 921 829473690 829473623 2.770000e-18 104.0


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 TraesCS1D01G251600 chr1D 344078856 344084485 5629 False 1519.666667 3312 99.453667 1 5630 6 chr1D.!!$F2 5629
1 TraesCS1D01G251600 chr1D 482916070 482916650 580 True 730.000000 730 89.726000 1 570 1 chr1D.!!$R1 569
2 TraesCS1D01G251600 chr1D 62156903 62157466 563 False 555.000000 555 85.017000 1 570 1 chr1D.!!$F1 569
3 TraesCS1D01G251600 chr1B 462792380 462796421 4041 False 1374.000000 1895 92.511500 969 5119 4 chr1B.!!$F1 4150
4 TraesCS1D01G251600 chr1A 443708309 443712034 3725 True 1643.000000 1772 92.851333 970 4946 3 chr1A.!!$R2 3976
5 TraesCS1D01G251600 chrUn 104762009 104762521 512 True 791.000000 791 94.542000 5120 5630 1 chrUn.!!$R2 510
6 TraesCS1D01G251600 chrUn 424731071 424732960 1889 False 726.000000 726 89.655000 1 570 2 chrUn.!!$F2 569
7 TraesCS1D01G251600 chrUn 471123105 471123680 575 True 726.000000 726 89.655000 1 570 1 chrUn.!!$R3 569
8 TraesCS1D01G251600 chrUn 97099819 97100332 513 True 708.000000 708 91.650000 5120 5629 1 chrUn.!!$R1 509
9 TraesCS1D01G251600 chr3D 295968138 295968647 509 True 774.000000 774 94.118000 1 508 1 chr3D.!!$R2 507
10 TraesCS1D01G251600 chr3D 168183014 168183520 506 False 726.000000 726 92.534000 2 508 1 chr3D.!!$F1 506
11 TraesCS1D01G251600 chr3D 544416892 544417468 576 False 649.000000 649 87.479000 1 570 1 chr3D.!!$F2 569
12 TraesCS1D01G251600 chr5D 542604818 542605326 508 False 773.000000 773 94.118000 1 508 1 chr5D.!!$F3 507
13 TraesCS1D01G251600 chr5D 420377083 420377594 511 False 689.000000 689 91.033000 5120 5629 1 chr5D.!!$F2 509
14 TraesCS1D01G251600 chr5D 124517027 124517582 555 False 564.000000 564 85.473000 1 570 1 chr5D.!!$F1 569
15 TraesCS1D01G251600 chr7D 164854099 164854687 588 True 767.000000 767 90.694000 1 572 1 chr7D.!!$R2 571
16 TraesCS1D01G251600 chr7D 306476181 306476705 524 True 747.000000 747 92.586000 5114 5630 1 chr7D.!!$R3 516
17 TraesCS1D01G251600 chr7D 150599160 150599669 509 True 732.000000 732 92.593000 5120 5629 1 chr7D.!!$R1 509
18 TraesCS1D01G251600 chr7D 533937224 533937807 583 False 726.000000 726 89.590000 1 569 1 chr7D.!!$F1 568
19 TraesCS1D01G251600 chr7D 566126157 566126717 560 False 691.000000 691 89.041000 1 572 1 chr7D.!!$F2 571
20 TraesCS1D01G251600 chr7D 623765452 623766042 590 True 691.000000 691 88.423000 1 572 1 chr7D.!!$R4 571
21 TraesCS1D01G251600 chr6D 421464258 421464847 589 True 745.000000 745 90.017000 1 571 1 chr6D.!!$R1 570
22 TraesCS1D01G251600 chr6D 19664873 19665405 532 False 673.000000 673 89.493000 5100 5630 1 chr6D.!!$F1 530
23 TraesCS1D01G251600 chr2D 308900769 308901278 509 True 704.000000 704 91.618000 5120 5629 1 chr2D.!!$R1 509
24 TraesCS1D01G251600 chr2D 126853239 126853758 519 False 702.000000 702 91.171000 5114 5630 1 chr2D.!!$F1 516
25 TraesCS1D01G251600 chr5A 398778105 398778619 514 True 688.000000 688 90.891000 5120 5630 1 chr5A.!!$R1 510

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
940 2291 0.035630 ACAGCAAGGCACTGGATCTC 60.036 55.0 7.06 0.0 40.86 2.75 F
941 2292 0.035725 CAGCAAGGCACTGGATCTCA 60.036 55.0 0.00 0.0 40.86 3.27 F
947 2298 0.179006 GGCACTGGATCTCATTCCCC 60.179 60.0 0.00 0.0 34.67 4.81 F
957 2308 0.480252 CTCATTCCCCCATTCTCCCC 59.520 60.0 0.00 0.0 0.00 4.81 F
2928 4342 0.248012 TACATCGCCATTGACGTGGT 59.752 50.0 0.00 0.0 41.47 4.16 F
3011 4431 0.175989 GCGCTGCTAGGTAGGACTTT 59.824 55.0 0.00 0.0 0.00 2.66 F
3286 4706 0.764369 AAGTGGTGGTGCTCTCTCCA 60.764 55.0 0.00 0.0 33.79 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2738 4150 1.398041 CACCGACGCATTGACAATGAT 59.602 47.619 28.37 16.71 41.46 2.45 R
2873 4287 1.748122 GTGCTGTCCATGGAGCTGG 60.748 63.158 22.52 11.69 36.11 4.85 R
2928 4342 2.159156 CCACCATGCGTTACTGCTACTA 60.159 50.000 0.00 0.00 35.36 1.82 R
2938 4352 2.282180 GGACACCCACCATGCGTT 60.282 61.111 0.00 0.00 0.00 4.84 R
4032 5510 0.904649 CATGCTAGGTGTCAGGTGGA 59.095 55.000 0.00 0.00 0.00 4.02 R
4425 5908 1.946768 TGTTTGAGTACTTGCACCTGC 59.053 47.619 0.00 0.00 42.50 4.85 R
5048 6548 1.814429 TCAGTCTGGAGGGTTTTGGA 58.186 50.000 0.00 0.00 0.00 3.53 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
45 46 4.388499 GCCAAAGACGGAGCCGGA 62.388 66.667 5.05 0.00 44.69 5.14
47 48 2.657237 CAAAGACGGAGCCGGAGT 59.343 61.111 5.05 0.00 44.69 3.85
398 411 2.943034 GCGACTACTCCGCGTTCG 60.943 66.667 4.92 4.30 43.28 3.95
444 466 1.192534 GCTATGTAAGCCGCGAACATC 59.807 52.381 8.23 0.00 46.25 3.06
450 472 2.380084 AAGCCGCGAACATCTCTAAA 57.620 45.000 8.23 0.00 0.00 1.85
497 1823 1.134226 CGTGTTTAGCCGAACTTCGT 58.866 50.000 10.22 0.00 38.40 3.85
870 2221 3.124686 TTTTTGCACCGGCTCACC 58.875 55.556 0.00 0.00 41.91 4.02
871 2222 2.494530 TTTTTGCACCGGCTCACCC 61.495 57.895 0.00 0.00 41.91 4.61
872 2223 4.966787 TTTGCACCGGCTCACCCC 62.967 66.667 0.00 0.00 41.91 4.95
888 2239 2.202960 CCCGAGGCGGCGATTTTA 60.203 61.111 12.98 0.00 46.86 1.52
889 2240 2.244651 CCCGAGGCGGCGATTTTAG 61.245 63.158 12.98 0.00 46.86 1.85
890 2241 2.244651 CCGAGGCGGCGATTTTAGG 61.245 63.158 12.98 1.09 41.17 2.69
891 2242 2.882366 CGAGGCGGCGATTTTAGGC 61.882 63.158 12.98 0.00 0.00 3.93
897 2248 2.516225 GCGATTTTAGGCGCCCCT 60.516 61.111 26.15 8.44 46.93 4.79
898 2249 2.834618 GCGATTTTAGGCGCCCCTG 61.835 63.158 26.15 7.46 46.93 4.45
899 2250 2.186826 CGATTTTAGGCGCCCCTGG 61.187 63.158 26.15 1.98 42.90 4.45
900 2251 1.226262 GATTTTAGGCGCCCCTGGA 59.774 57.895 26.15 6.15 42.90 3.86
901 2252 0.819666 GATTTTAGGCGCCCCTGGAG 60.820 60.000 26.15 0.00 42.90 3.86
902 2253 2.284515 ATTTTAGGCGCCCCTGGAGG 62.285 60.000 26.15 0.00 42.90 4.30
922 2273 3.181367 CAACGGCTGGAGATGCAC 58.819 61.111 0.00 0.00 0.00 4.57
923 2274 1.672030 CAACGGCTGGAGATGCACA 60.672 57.895 0.00 0.00 0.00 4.57
924 2275 1.376424 AACGGCTGGAGATGCACAG 60.376 57.895 0.00 0.00 37.76 3.66
929 2280 2.478989 CTGGAGATGCACAGCAAGG 58.521 57.895 0.00 0.00 43.62 3.61
930 2281 1.654954 CTGGAGATGCACAGCAAGGC 61.655 60.000 0.00 0.00 43.62 4.35
931 2282 1.676635 GGAGATGCACAGCAAGGCA 60.677 57.895 0.00 0.00 43.62 4.75
932 2283 1.505353 GAGATGCACAGCAAGGCAC 59.495 57.895 0.00 0.00 43.62 5.01
933 2284 0.959372 GAGATGCACAGCAAGGCACT 60.959 55.000 0.00 0.00 43.62 4.40
934 2285 1.211969 GATGCACAGCAAGGCACTG 59.788 57.895 0.00 1.25 43.62 3.66
935 2286 2.209064 GATGCACAGCAAGGCACTGG 62.209 60.000 0.00 0.00 43.62 4.00
936 2287 2.595463 GCACAGCAAGGCACTGGA 60.595 61.111 7.06 0.00 40.86 3.86
937 2288 1.975407 GCACAGCAAGGCACTGGAT 60.975 57.895 7.06 0.00 40.86 3.41
938 2289 1.930908 GCACAGCAAGGCACTGGATC 61.931 60.000 7.06 0.00 40.86 3.36
939 2290 0.322277 CACAGCAAGGCACTGGATCT 60.322 55.000 7.06 0.00 40.86 2.75
940 2291 0.035630 ACAGCAAGGCACTGGATCTC 60.036 55.000 7.06 0.00 40.86 2.75
941 2292 0.035725 CAGCAAGGCACTGGATCTCA 60.036 55.000 0.00 0.00 40.86 3.27
942 2293 0.917533 AGCAAGGCACTGGATCTCAT 59.082 50.000 0.00 0.00 40.86 2.90
943 2294 1.284198 AGCAAGGCACTGGATCTCATT 59.716 47.619 0.00 0.00 40.86 2.57
944 2295 1.674962 GCAAGGCACTGGATCTCATTC 59.325 52.381 0.00 0.00 40.86 2.67
945 2296 2.295885 CAAGGCACTGGATCTCATTCC 58.704 52.381 0.00 0.00 40.86 3.01
946 2297 0.842635 AGGCACTGGATCTCATTCCC 59.157 55.000 0.00 0.00 37.18 3.97
947 2298 0.179006 GGCACTGGATCTCATTCCCC 60.179 60.000 0.00 0.00 34.67 4.81
948 2299 0.179006 GCACTGGATCTCATTCCCCC 60.179 60.000 0.00 0.00 34.67 5.40
949 2300 1.216064 CACTGGATCTCATTCCCCCA 58.784 55.000 0.00 0.00 34.67 4.96
950 2301 1.779092 CACTGGATCTCATTCCCCCAT 59.221 52.381 0.00 0.00 34.67 4.00
951 2302 2.176364 CACTGGATCTCATTCCCCCATT 59.824 50.000 0.00 0.00 34.67 3.16
952 2303 2.444766 ACTGGATCTCATTCCCCCATTC 59.555 50.000 0.00 0.00 34.67 2.67
953 2304 2.715336 CTGGATCTCATTCCCCCATTCT 59.285 50.000 0.00 0.00 34.67 2.40
954 2305 2.713167 TGGATCTCATTCCCCCATTCTC 59.287 50.000 0.00 0.00 34.67 2.87
955 2306 2.040947 GGATCTCATTCCCCCATTCTCC 59.959 54.545 0.00 0.00 0.00 3.71
956 2307 1.522900 TCTCATTCCCCCATTCTCCC 58.477 55.000 0.00 0.00 0.00 4.30
957 2308 0.480252 CTCATTCCCCCATTCTCCCC 59.520 60.000 0.00 0.00 0.00 4.81
958 2309 0.998945 TCATTCCCCCATTCTCCCCC 60.999 60.000 0.00 0.00 0.00 5.40
1024 2375 2.109799 AGCTGCTGTTCACGCTGT 59.890 55.556 0.00 0.00 31.25 4.40
1230 2581 2.343758 GAGTTCGCCCAGCTCACA 59.656 61.111 0.00 0.00 0.00 3.58
1348 2699 3.747852 TGGAATCCCTCATACCTCCTTT 58.252 45.455 0.00 0.00 0.00 3.11
1351 2702 4.352298 GGAATCCCTCATACCTCCTTTCAT 59.648 45.833 0.00 0.00 0.00 2.57
1390 2746 6.350906 TGGTAAATTAGGGGACGAAATAGTG 58.649 40.000 0.00 0.00 0.00 2.74
1548 2929 8.215132 CGCGAATTTAGGATTCTAATAACAGAC 58.785 37.037 0.00 0.00 35.61 3.51
1588 2969 3.941483 AGCGAGGGATGTGACAATAAAAG 59.059 43.478 0.00 0.00 0.00 2.27
1613 2997 9.472361 AGAATGTGAAAAATGAATTGTCAAGAG 57.528 29.630 0.00 0.00 37.30 2.85
1715 3101 4.879545 ACTTGTGTTACCAAATTCTGTCGT 59.120 37.500 0.00 0.00 0.00 4.34
1722 3108 9.321590 GTGTTACCAAATTCTGTCGTAATAAAC 57.678 33.333 0.00 0.00 0.00 2.01
1804 3190 2.611224 CCTTTTTCCATGGAGCACAAGC 60.611 50.000 15.53 0.00 42.56 4.01
2219 3625 4.363138 TCATCATGATTCTACTCGTGTGC 58.637 43.478 5.16 0.00 34.44 4.57
2231 3637 2.486203 ACTCGTGTGCACTAGAGAGAAG 59.514 50.000 33.02 17.36 34.98 2.85
2541 3947 4.998788 TCATACATCGGAGAGAACACTTG 58.001 43.478 0.00 0.00 43.63 3.16
2546 3952 1.301716 GGAGAGAACACTTGCGCCA 60.302 57.895 4.18 0.00 0.00 5.69
2548 3954 1.569479 GAGAGAACACTTGCGCCACC 61.569 60.000 4.18 0.00 0.00 4.61
2738 4150 1.738474 ATCATCTATCTGGGGCTGCA 58.262 50.000 0.50 0.00 0.00 4.41
2928 4342 0.248012 TACATCGCCATTGACGTGGT 59.752 50.000 0.00 0.00 41.47 4.16
2938 4352 3.129813 CCATTGACGTGGTAGTAGCAGTA 59.870 47.826 1.37 0.00 34.46 2.74
3011 4431 0.175989 GCGCTGCTAGGTAGGACTTT 59.824 55.000 0.00 0.00 0.00 2.66
3097 4517 3.884774 AGCAGGTTGTTGCCGGGA 61.885 61.111 2.18 0.00 45.18 5.14
3174 4594 1.268794 CGTCGACATGGCTAGAGAAGG 60.269 57.143 17.16 0.00 0.00 3.46
3177 4597 1.127343 GACATGGCTAGAGAAGGGCT 58.873 55.000 0.00 0.00 0.00 5.19
3286 4706 0.764369 AAGTGGTGGTGCTCTCTCCA 60.764 55.000 0.00 0.00 33.79 3.86
3319 4739 2.650322 AGCGAAGTTGAAAAGGGAACA 58.350 42.857 0.00 0.00 0.00 3.18
3479 4900 6.601613 TGTCAAGTGAACCATAAGACAAGTTT 59.398 34.615 0.00 0.00 32.26 2.66
3480 4901 7.771361 TGTCAAGTGAACCATAAGACAAGTTTA 59.229 33.333 0.00 0.00 32.26 2.01
4032 5510 8.907222 ATAAGTTGCTTTCCATTTCAACATTT 57.093 26.923 6.71 0.00 40.71 2.32
4425 5908 8.965172 CAGAAAAAGATTGACAGTTTGAATGAG 58.035 33.333 0.00 0.00 0.00 2.90
4506 5989 8.598075 GCTGAAATGAATAATTTGGCTTTACAG 58.402 33.333 0.00 0.00 38.64 2.74
4633 6116 7.806690 TGACAGCAAGAAAAATACATAGTGAC 58.193 34.615 0.00 0.00 0.00 3.67
4720 6205 7.958567 GTGCATACTTATAGACGTACTCTCATC 59.041 40.741 0.00 0.00 0.00 2.92
4755 6240 8.345565 CAAAGAACATAACTATATCTGTTGGGC 58.654 37.037 4.79 0.00 32.28 5.36
4780 6265 2.358015 TGTTTTGAGTCGAAACGGGTT 58.642 42.857 24.49 0.00 39.75 4.11
4782 6267 2.027003 TTTGAGTCGAAACGGGTTGT 57.973 45.000 0.00 0.00 0.00 3.32
4819 6304 4.991153 AGTCATTTACTCGATGAGCAGA 57.009 40.909 0.00 0.00 34.41 4.26
4893 6378 6.939132 ACAGATTGCCTCTTCATTTATCTG 57.061 37.500 0.00 0.00 41.84 2.90
4901 6386 6.070824 TGCCTCTTCATTTATCTGTCACTGTA 60.071 38.462 0.00 0.00 0.00 2.74
4918 6404 7.042051 TGTCACTGTATCACTTTTAAGTTCTGC 60.042 37.037 0.00 0.00 37.08 4.26
4991 6491 5.510430 AGGTCTATTGAAGATCCAAAACCC 58.490 41.667 0.00 0.00 35.77 4.11
4992 6492 5.254032 AGGTCTATTGAAGATCCAAAACCCT 59.746 40.000 0.00 0.00 35.77 4.34
4993 6493 5.590663 GGTCTATTGAAGATCCAAAACCCTC 59.409 44.000 0.00 0.00 36.36 4.30
4994 6494 5.590663 GTCTATTGAAGATCCAAAACCCTCC 59.409 44.000 0.00 0.00 36.36 4.30
4995 6495 3.893753 TTGAAGATCCAAAACCCTCCA 57.106 42.857 0.00 0.00 0.00 3.86
4996 6496 3.439857 TGAAGATCCAAAACCCTCCAG 57.560 47.619 0.00 0.00 0.00 3.86
4997 6497 2.986019 TGAAGATCCAAAACCCTCCAGA 59.014 45.455 0.00 0.00 0.00 3.86
4998 6498 3.244911 TGAAGATCCAAAACCCTCCAGAC 60.245 47.826 0.00 0.00 0.00 3.51
4999 6499 2.637165 AGATCCAAAACCCTCCAGACT 58.363 47.619 0.00 0.00 0.00 3.24
5000 6500 2.307098 AGATCCAAAACCCTCCAGACTG 59.693 50.000 0.00 0.00 0.00 3.51
5001 6501 1.814429 TCCAAAACCCTCCAGACTGA 58.186 50.000 3.32 0.00 0.00 3.41
5002 6502 2.348472 TCCAAAACCCTCCAGACTGAT 58.652 47.619 3.32 0.00 0.00 2.90
5003 6503 2.305927 TCCAAAACCCTCCAGACTGATC 59.694 50.000 3.32 0.00 0.00 2.92
5004 6504 2.307098 CCAAAACCCTCCAGACTGATCT 59.693 50.000 3.32 0.00 34.57 2.75
5014 6514 3.383620 CAGACTGATCTGTATGAGCCC 57.616 52.381 19.25 0.16 46.39 5.19
5015 6515 2.964464 CAGACTGATCTGTATGAGCCCT 59.036 50.000 19.25 2.37 46.39 5.19
5016 6516 4.148079 CAGACTGATCTGTATGAGCCCTA 58.852 47.826 19.25 0.00 46.39 3.53
5017 6517 4.586421 CAGACTGATCTGTATGAGCCCTAA 59.414 45.833 19.25 0.00 46.39 2.69
5018 6518 5.069648 CAGACTGATCTGTATGAGCCCTAAA 59.930 44.000 19.25 0.00 46.39 1.85
5019 6519 5.663106 AGACTGATCTGTATGAGCCCTAAAA 59.337 40.000 5.09 0.00 32.29 1.52
5020 6520 5.923204 ACTGATCTGTATGAGCCCTAAAAG 58.077 41.667 3.02 0.00 0.00 2.27
5021 6521 5.663106 ACTGATCTGTATGAGCCCTAAAAGA 59.337 40.000 3.02 0.00 0.00 2.52
5022 6522 6.166984 TGATCTGTATGAGCCCTAAAAGAG 57.833 41.667 0.00 0.00 0.00 2.85
5023 6523 5.663106 TGATCTGTATGAGCCCTAAAAGAGT 59.337 40.000 0.00 0.00 0.00 3.24
5024 6524 5.599999 TCTGTATGAGCCCTAAAAGAGTC 57.400 43.478 0.00 0.00 0.00 3.36
5025 6525 5.273208 TCTGTATGAGCCCTAAAAGAGTCT 58.727 41.667 0.00 0.00 0.00 3.24
5026 6526 5.721960 TCTGTATGAGCCCTAAAAGAGTCTT 59.278 40.000 0.00 0.00 0.00 3.01
5027 6527 5.734720 TGTATGAGCCCTAAAAGAGTCTTG 58.265 41.667 6.06 0.00 0.00 3.02
5028 6528 3.059352 TGAGCCCTAAAAGAGTCTTGC 57.941 47.619 6.06 5.09 0.00 4.01
5029 6529 2.639839 TGAGCCCTAAAAGAGTCTTGCT 59.360 45.455 12.97 12.97 0.00 3.91
5030 6530 3.073062 TGAGCCCTAAAAGAGTCTTGCTT 59.927 43.478 13.98 5.75 0.00 3.91
5031 6531 3.416156 AGCCCTAAAAGAGTCTTGCTTG 58.584 45.455 6.06 0.00 0.00 4.01
5032 6532 3.149981 GCCCTAAAAGAGTCTTGCTTGT 58.850 45.455 6.06 0.00 0.00 3.16
5033 6533 3.057946 GCCCTAAAAGAGTCTTGCTTGTG 60.058 47.826 6.06 0.00 0.00 3.33
5034 6534 4.389374 CCCTAAAAGAGTCTTGCTTGTGA 58.611 43.478 6.06 0.00 0.00 3.58
5035 6535 4.453819 CCCTAAAAGAGTCTTGCTTGTGAG 59.546 45.833 6.06 0.00 0.00 3.51
5036 6536 4.453819 CCTAAAAGAGTCTTGCTTGTGAGG 59.546 45.833 6.06 0.00 0.00 3.86
5037 6537 3.567478 AAAGAGTCTTGCTTGTGAGGT 57.433 42.857 6.06 0.00 0.00 3.85
5038 6538 2.829741 AGAGTCTTGCTTGTGAGGTC 57.170 50.000 0.00 0.00 0.00 3.85
5039 6539 2.324541 AGAGTCTTGCTTGTGAGGTCT 58.675 47.619 0.00 0.00 0.00 3.85
5040 6540 3.501349 AGAGTCTTGCTTGTGAGGTCTA 58.499 45.455 0.00 0.00 0.00 2.59
5041 6541 4.093011 AGAGTCTTGCTTGTGAGGTCTAT 58.907 43.478 0.00 0.00 0.00 1.98
5042 6542 4.530161 AGAGTCTTGCTTGTGAGGTCTATT 59.470 41.667 0.00 0.00 0.00 1.73
5043 6543 5.012561 AGAGTCTTGCTTGTGAGGTCTATTT 59.987 40.000 0.00 0.00 0.00 1.40
5044 6544 6.211584 AGAGTCTTGCTTGTGAGGTCTATTTA 59.788 38.462 0.00 0.00 0.00 1.40
5045 6545 6.769512 AGTCTTGCTTGTGAGGTCTATTTAA 58.230 36.000 0.00 0.00 0.00 1.52
5046 6546 6.876257 AGTCTTGCTTGTGAGGTCTATTTAAG 59.124 38.462 0.00 0.00 0.00 1.85
5047 6547 6.874134 GTCTTGCTTGTGAGGTCTATTTAAGA 59.126 38.462 0.00 0.00 0.00 2.10
5048 6548 7.550906 GTCTTGCTTGTGAGGTCTATTTAAGAT 59.449 37.037 0.00 0.00 36.36 2.40
5049 6549 7.766278 TCTTGCTTGTGAGGTCTATTTAAGATC 59.234 37.037 0.00 0.00 36.36 2.75
5050 6550 6.349300 TGCTTGTGAGGTCTATTTAAGATCC 58.651 40.000 0.00 0.00 35.77 3.36
5051 6551 6.070251 TGCTTGTGAGGTCTATTTAAGATCCA 60.070 38.462 0.00 0.00 35.77 3.41
5052 6552 6.823689 GCTTGTGAGGTCTATTTAAGATCCAA 59.176 38.462 0.00 0.00 35.77 3.53
5053 6553 7.336931 GCTTGTGAGGTCTATTTAAGATCCAAA 59.663 37.037 0.00 0.00 35.77 3.28
5054 6554 9.231297 CTTGTGAGGTCTATTTAAGATCCAAAA 57.769 33.333 0.00 0.00 35.77 2.44
5055 6555 8.561738 TGTGAGGTCTATTTAAGATCCAAAAC 57.438 34.615 0.00 0.00 35.77 2.43
5056 6556 7.610305 TGTGAGGTCTATTTAAGATCCAAAACC 59.390 37.037 0.00 0.00 35.77 3.27
5083 6583 4.586421 CAGACTGATCTGTATGAGCCCTAA 59.414 45.833 19.25 0.00 46.39 2.69
5086 6586 5.923204 ACTGATCTGTATGAGCCCTAAAAG 58.077 41.667 3.02 0.00 0.00 2.27
5087 6587 5.163258 ACTGATCTGTATGAGCCCTAAAAGG 60.163 44.000 3.02 0.00 34.30 3.11
5261 6763 4.589700 CGCGTGTGTGGTGTGTGC 62.590 66.667 0.00 0.00 0.00 4.57
5338 6842 2.594592 GGTGGAACTGCTTGGCGT 60.595 61.111 0.00 0.00 36.74 5.68
5446 6952 2.242196 CTCCATTACTCACCCAACCCAT 59.758 50.000 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 4.735132 TTGACGAAGCGCGGAGGG 62.735 66.667 8.83 0.00 46.49 4.30
45 46 2.589442 TTTTCACCGGCGCGAACT 60.589 55.556 12.10 0.00 0.00 3.01
47 48 4.003011 CGTTTTCACCGGCGCGAA 62.003 61.111 12.10 3.26 0.00 4.70
322 326 1.595993 CCTTCTCCTCCTTGACGCGA 61.596 60.000 15.93 0.00 0.00 5.87
853 2204 2.494530 GGGTGAGCCGGTGCAAAAA 61.495 57.895 1.90 0.00 41.13 1.94
854 2205 2.909965 GGGTGAGCCGGTGCAAAA 60.910 61.111 1.90 0.00 41.13 2.44
855 2206 4.966787 GGGGTGAGCCGGTGCAAA 62.967 66.667 1.90 0.00 41.13 3.68
873 2224 2.882366 GCCTAAAATCGCCGCCTCG 61.882 63.158 0.00 0.00 0.00 4.63
874 2225 2.882366 CGCCTAAAATCGCCGCCTC 61.882 63.158 0.00 0.00 0.00 4.70
875 2226 2.895372 CGCCTAAAATCGCCGCCT 60.895 61.111 0.00 0.00 0.00 5.52
876 2227 4.607606 GCGCCTAAAATCGCCGCC 62.608 66.667 0.00 0.00 45.01 6.13
881 2232 2.186826 CCAGGGGCGCCTAAAATCG 61.187 63.158 28.56 8.84 0.00 3.34
882 2233 0.819666 CTCCAGGGGCGCCTAAAATC 60.820 60.000 28.56 8.16 0.00 2.17
883 2234 1.227383 CTCCAGGGGCGCCTAAAAT 59.773 57.895 28.56 4.89 0.00 1.82
884 2235 2.674754 CTCCAGGGGCGCCTAAAA 59.325 61.111 28.56 9.74 0.00 1.52
885 2236 3.407967 CCTCCAGGGGCGCCTAAA 61.408 66.667 28.56 12.35 0.00 1.85
905 2256 1.642037 CTGTGCATCTCCAGCCGTTG 61.642 60.000 0.00 0.00 0.00 4.10
906 2257 1.376424 CTGTGCATCTCCAGCCGTT 60.376 57.895 0.00 0.00 0.00 4.44
907 2258 2.267006 CTGTGCATCTCCAGCCGT 59.733 61.111 0.00 0.00 0.00 5.68
908 2259 3.200593 GCTGTGCATCTCCAGCCG 61.201 66.667 14.42 0.00 46.55 5.52
911 2262 1.654954 GCCTTGCTGTGCATCTCCAG 61.655 60.000 0.00 0.00 38.76 3.86
912 2263 1.676635 GCCTTGCTGTGCATCTCCA 60.677 57.895 0.00 0.00 38.76 3.86
913 2264 1.676635 TGCCTTGCTGTGCATCTCC 60.677 57.895 0.00 0.00 38.76 3.71
914 2265 0.959372 AGTGCCTTGCTGTGCATCTC 60.959 55.000 0.00 0.00 38.76 2.75
915 2266 1.074423 AGTGCCTTGCTGTGCATCT 59.926 52.632 0.00 0.00 38.76 2.90
916 2267 1.211969 CAGTGCCTTGCTGTGCATC 59.788 57.895 0.00 0.00 38.76 3.91
917 2268 2.273179 CCAGTGCCTTGCTGTGCAT 61.273 57.895 0.00 0.00 38.76 3.96
918 2269 2.702040 ATCCAGTGCCTTGCTGTGCA 62.702 55.000 0.00 0.00 36.47 4.57
919 2270 1.930908 GATCCAGTGCCTTGCTGTGC 61.931 60.000 0.00 0.00 32.41 4.57
920 2271 0.322277 AGATCCAGTGCCTTGCTGTG 60.322 55.000 0.00 0.00 32.41 3.66
921 2272 0.035630 GAGATCCAGTGCCTTGCTGT 60.036 55.000 0.00 0.00 32.41 4.40
922 2273 0.035725 TGAGATCCAGTGCCTTGCTG 60.036 55.000 0.00 0.00 0.00 4.41
923 2274 0.917533 ATGAGATCCAGTGCCTTGCT 59.082 50.000 0.00 0.00 0.00 3.91
924 2275 1.674962 GAATGAGATCCAGTGCCTTGC 59.325 52.381 0.00 0.00 0.00 4.01
925 2276 2.295885 GGAATGAGATCCAGTGCCTTG 58.704 52.381 0.00 0.00 39.42 3.61
926 2277 1.213926 GGGAATGAGATCCAGTGCCTT 59.786 52.381 12.57 0.00 46.05 4.35
927 2278 0.842635 GGGAATGAGATCCAGTGCCT 59.157 55.000 12.57 0.00 46.05 4.75
928 2279 3.410960 GGGAATGAGATCCAGTGCC 57.589 57.895 6.47 6.47 43.73 5.01
929 2280 0.179006 GGGGGAATGAGATCCAGTGC 60.179 60.000 0.00 0.00 41.55 4.40
930 2281 1.216064 TGGGGGAATGAGATCCAGTG 58.784 55.000 0.00 0.00 41.55 3.66
931 2282 2.219216 ATGGGGGAATGAGATCCAGT 57.781 50.000 0.00 0.00 41.55 4.00
932 2283 2.715336 AGAATGGGGGAATGAGATCCAG 59.285 50.000 0.00 0.00 41.55 3.86
933 2284 2.713167 GAGAATGGGGGAATGAGATCCA 59.287 50.000 0.00 0.00 41.55 3.41
934 2285 2.040947 GGAGAATGGGGGAATGAGATCC 59.959 54.545 0.00 0.00 38.86 3.36
935 2286 2.040947 GGGAGAATGGGGGAATGAGATC 59.959 54.545 0.00 0.00 0.00 2.75
936 2287 2.068977 GGGAGAATGGGGGAATGAGAT 58.931 52.381 0.00 0.00 0.00 2.75
937 2288 1.522900 GGGAGAATGGGGGAATGAGA 58.477 55.000 0.00 0.00 0.00 3.27
938 2289 0.480252 GGGGAGAATGGGGGAATGAG 59.520 60.000 0.00 0.00 0.00 2.90
939 2290 0.998945 GGGGGAGAATGGGGGAATGA 60.999 60.000 0.00 0.00 0.00 2.57
940 2291 1.543690 GGGGGAGAATGGGGGAATG 59.456 63.158 0.00 0.00 0.00 2.67
941 2292 4.123863 GGGGGAGAATGGGGGAAT 57.876 61.111 0.00 0.00 0.00 3.01
962 2313 3.517497 AAACAGGTGGGGTGGGGG 61.517 66.667 0.00 0.00 0.00 5.40
963 2314 2.203625 CAAACAGGTGGGGTGGGG 60.204 66.667 0.00 0.00 0.00 4.96
964 2315 1.530655 GTCAAACAGGTGGGGTGGG 60.531 63.158 0.00 0.00 0.00 4.61
965 2316 1.896660 CGTCAAACAGGTGGGGTGG 60.897 63.158 0.00 0.00 0.00 4.61
966 2317 2.551912 GCGTCAAACAGGTGGGGTG 61.552 63.158 0.00 0.00 0.00 4.61
967 2318 2.203294 GCGTCAAACAGGTGGGGT 60.203 61.111 0.00 0.00 0.00 4.95
968 2319 2.203280 TGCGTCAAACAGGTGGGG 60.203 61.111 0.00 0.00 0.00 4.96
1126 2477 1.520787 CGACGGTCCTGGCCATTAC 60.521 63.158 5.51 7.57 0.00 1.89
1230 2581 2.448542 AGCACCTGGTCTGTGGGT 60.449 61.111 0.00 0.00 34.27 4.51
1390 2746 2.181975 CCATCCATAATCCATTGGGGC 58.818 52.381 2.09 0.00 36.21 5.80
1392 2748 3.179902 AGCCATCCATAATCCATTGGG 57.820 47.619 2.09 0.00 33.62 4.12
1393 2749 5.776716 ACTAAAGCCATCCATAATCCATTGG 59.223 40.000 0.00 0.00 0.00 3.16
1490 2846 8.348285 ACTCTCCTATAAGATTCTATCTGCAC 57.652 38.462 0.00 0.00 40.13 4.57
1509 2865 1.291877 ATTCGCGTGTGCAACTCTCC 61.292 55.000 5.77 0.00 42.97 3.71
1588 2969 9.467258 TCTCTTGACAATTCATTTTTCACATTC 57.533 29.630 0.00 0.00 0.00 2.67
2438 3844 8.785329 AAAACAATGATGTGGTTTACAAAACT 57.215 26.923 2.84 0.00 43.77 2.66
2546 3952 2.356673 GAAAACCTCGTCGGCGGT 60.357 61.111 10.62 0.00 38.89 5.68
2548 3954 3.011760 GCAGAAAACCTCGTCGGCG 62.012 63.158 1.15 1.15 39.92 6.46
2642 4049 4.011517 CCGTTGGCCCGTACCTGT 62.012 66.667 0.00 0.00 0.00 4.00
2738 4150 1.398041 CACCGACGCATTGACAATGAT 59.602 47.619 28.37 16.71 41.46 2.45
2873 4287 1.748122 GTGCTGTCCATGGAGCTGG 60.748 63.158 22.52 11.69 36.11 4.85
2928 4342 2.159156 CCACCATGCGTTACTGCTACTA 60.159 50.000 0.00 0.00 35.36 1.82
2938 4352 2.282180 GGACACCCACCATGCGTT 60.282 61.111 0.00 0.00 0.00 4.84
3011 4431 4.918278 TGGTGGTGGACGTCCCGA 62.918 66.667 31.19 16.76 37.93 5.14
3097 4517 1.419374 GCATCGACAAAGACGACTGT 58.581 50.000 0.00 0.00 42.37 3.55
3120 4540 1.227438 CGTTGACCCCGAGTTGTGT 60.227 57.895 0.00 0.00 0.00 3.72
3177 4597 1.204786 TTAGTTAGCAGCCAGGGCCA 61.205 55.000 6.18 0.00 43.17 5.36
3243 4663 4.760047 ACTTAGCCCACTGCCGCG 62.760 66.667 0.00 0.00 42.71 6.46
3286 4706 3.851976 ACTTCGCTTGATTCGTCTAGT 57.148 42.857 0.00 0.00 0.00 2.57
3319 4739 5.252630 AGATCTTCCAAGAAAATCTCCACCT 59.747 40.000 0.00 0.00 38.77 4.00
3918 5396 2.706890 GAGCAAAAATGTCCCGGACTA 58.293 47.619 18.54 5.72 33.15 2.59
3922 5400 0.958382 TCCGAGCAAAAATGTCCCGG 60.958 55.000 0.00 0.00 37.08 5.73
4032 5510 0.904649 CATGCTAGGTGTCAGGTGGA 59.095 55.000 0.00 0.00 0.00 4.02
4147 5625 7.819415 TCTGAAACACTATTCACCATACAGAAG 59.181 37.037 0.00 0.00 35.55 2.85
4260 5743 5.180117 CAGTCGATCAATAATTAGCCCAAGG 59.820 44.000 0.00 0.00 0.00 3.61
4425 5908 1.946768 TGTTTGAGTACTTGCACCTGC 59.053 47.619 0.00 0.00 42.50 4.85
4506 5989 6.638468 CAGTAAGCAAACCTTCAGATTGTTTC 59.362 38.462 0.00 0.00 34.95 2.78
4633 6116 4.508052 GTTCAACAGGTAAAACGTACACG 58.492 43.478 0.00 0.00 46.33 4.49
4692 6175 7.281549 TGAGAGTACGTCTATAAGTATGCACAA 59.718 37.037 0.00 0.00 34.71 3.33
4720 6205 9.698309 ATATAGTTATGTTCTTTGGATCTGACG 57.302 33.333 0.00 0.00 0.00 4.35
4755 6240 4.138817 CCGTTTCGACTCAAAACAATACG 58.861 43.478 0.00 0.00 36.60 3.06
4808 6293 4.200838 TGGTACATTTTCTGCTCATCGA 57.799 40.909 0.00 0.00 0.00 3.59
4893 6378 7.171678 AGCAGAACTTAAAAGTGATACAGTGAC 59.828 37.037 0.00 0.00 39.66 3.67
4901 6386 4.144297 TGCCAGCAGAACTTAAAAGTGAT 58.856 39.130 0.00 0.00 39.66 3.06
4918 6404 2.094258 GTGACGTGTGTTCATATGCCAG 59.906 50.000 0.00 0.00 0.00 4.85
4958 6458 5.181009 TCTTCAATAGACCTCACAAGCATG 58.819 41.667 0.00 0.00 0.00 4.06
4963 6463 6.373005 TTGGATCTTCAATAGACCTCACAA 57.627 37.500 0.00 0.00 35.19 3.33
4974 6474 4.044571 TCTGGAGGGTTTTGGATCTTCAAT 59.955 41.667 0.00 0.00 0.00 2.57
4995 6495 3.326946 AGGGCTCATACAGATCAGTCT 57.673 47.619 0.00 0.00 34.14 3.24
4996 6496 5.537300 TTTAGGGCTCATACAGATCAGTC 57.463 43.478 0.00 0.00 0.00 3.51
4997 6497 5.663106 TCTTTTAGGGCTCATACAGATCAGT 59.337 40.000 0.00 0.00 0.00 3.41
4998 6498 6.166984 TCTTTTAGGGCTCATACAGATCAG 57.833 41.667 0.00 0.00 0.00 2.90
4999 6499 5.663106 ACTCTTTTAGGGCTCATACAGATCA 59.337 40.000 0.00 0.00 0.00 2.92
5000 6500 6.041523 AGACTCTTTTAGGGCTCATACAGATC 59.958 42.308 0.00 0.00 0.00 2.75
5001 6501 5.902431 AGACTCTTTTAGGGCTCATACAGAT 59.098 40.000 0.00 0.00 0.00 2.90
5002 6502 5.273208 AGACTCTTTTAGGGCTCATACAGA 58.727 41.667 0.00 0.00 0.00 3.41
5003 6503 5.606348 AGACTCTTTTAGGGCTCATACAG 57.394 43.478 0.00 0.00 0.00 2.74
5004 6504 5.734720 CAAGACTCTTTTAGGGCTCATACA 58.265 41.667 0.00 0.00 0.00 2.29
5005 6505 4.572795 GCAAGACTCTTTTAGGGCTCATAC 59.427 45.833 0.00 0.00 0.00 2.39
5006 6506 4.471386 AGCAAGACTCTTTTAGGGCTCATA 59.529 41.667 0.00 0.00 0.00 2.15
5007 6507 3.265479 AGCAAGACTCTTTTAGGGCTCAT 59.735 43.478 0.00 0.00 0.00 2.90
5008 6508 2.639839 AGCAAGACTCTTTTAGGGCTCA 59.360 45.455 0.00 0.00 0.00 4.26
5009 6509 3.342377 AGCAAGACTCTTTTAGGGCTC 57.658 47.619 0.00 0.00 0.00 4.70
5010 6510 3.181439 ACAAGCAAGACTCTTTTAGGGCT 60.181 43.478 0.00 0.00 0.00 5.19
5011 6511 3.057946 CACAAGCAAGACTCTTTTAGGGC 60.058 47.826 0.00 0.00 0.00 5.19
5012 6512 4.389374 TCACAAGCAAGACTCTTTTAGGG 58.611 43.478 0.00 0.00 0.00 3.53
5013 6513 4.453819 CCTCACAAGCAAGACTCTTTTAGG 59.546 45.833 0.00 0.00 0.00 2.69
5014 6514 5.059833 ACCTCACAAGCAAGACTCTTTTAG 58.940 41.667 0.00 0.00 0.00 1.85
5015 6515 5.036117 ACCTCACAAGCAAGACTCTTTTA 57.964 39.130 0.00 0.00 0.00 1.52
5016 6516 3.879892 GACCTCACAAGCAAGACTCTTTT 59.120 43.478 0.00 0.00 0.00 2.27
5017 6517 3.135530 AGACCTCACAAGCAAGACTCTTT 59.864 43.478 0.00 0.00 0.00 2.52
5018 6518 2.703007 AGACCTCACAAGCAAGACTCTT 59.297 45.455 0.00 0.00 0.00 2.85
5019 6519 2.324541 AGACCTCACAAGCAAGACTCT 58.675 47.619 0.00 0.00 0.00 3.24
5020 6520 2.829741 AGACCTCACAAGCAAGACTC 57.170 50.000 0.00 0.00 0.00 3.36
5021 6521 4.899352 AATAGACCTCACAAGCAAGACT 57.101 40.909 0.00 0.00 0.00 3.24
5022 6522 6.874134 TCTTAAATAGACCTCACAAGCAAGAC 59.126 38.462 0.00 0.00 0.00 3.01
5023 6523 7.004555 TCTTAAATAGACCTCACAAGCAAGA 57.995 36.000 0.00 0.00 0.00 3.02
5024 6524 7.011857 GGATCTTAAATAGACCTCACAAGCAAG 59.988 40.741 0.00 0.00 35.19 4.01
5025 6525 6.823689 GGATCTTAAATAGACCTCACAAGCAA 59.176 38.462 0.00 0.00 35.19 3.91
5026 6526 6.070251 TGGATCTTAAATAGACCTCACAAGCA 60.070 38.462 0.00 0.00 35.19 3.91
5027 6527 6.349300 TGGATCTTAAATAGACCTCACAAGC 58.651 40.000 0.00 0.00 35.19 4.01
5028 6528 8.792830 TTTGGATCTTAAATAGACCTCACAAG 57.207 34.615 0.00 0.00 35.19 3.16
5029 6529 9.010029 GTTTTGGATCTTAAATAGACCTCACAA 57.990 33.333 0.00 0.00 35.19 3.33
5030 6530 7.610305 GGTTTTGGATCTTAAATAGACCTCACA 59.390 37.037 0.00 0.00 35.19 3.58
5031 6531 7.067129 GGGTTTTGGATCTTAAATAGACCTCAC 59.933 40.741 11.54 0.00 35.19 3.51
5032 6532 7.036863 AGGGTTTTGGATCTTAAATAGACCTCA 60.037 37.037 11.54 0.00 35.19 3.86
5033 6533 7.347252 AGGGTTTTGGATCTTAAATAGACCTC 58.653 38.462 11.54 6.00 35.19 3.85
5034 6534 7.285340 AGGGTTTTGGATCTTAAATAGACCT 57.715 36.000 11.54 0.00 35.19 3.85
5035 6535 6.546403 GGAGGGTTTTGGATCTTAAATAGACC 59.454 42.308 0.00 0.66 35.19 3.85
5036 6536 7.116736 TGGAGGGTTTTGGATCTTAAATAGAC 58.883 38.462 0.00 0.00 35.19 2.59
5037 6537 7.183839 TCTGGAGGGTTTTGGATCTTAAATAGA 59.816 37.037 0.00 0.00 37.28 1.98
5038 6538 7.283354 GTCTGGAGGGTTTTGGATCTTAAATAG 59.717 40.741 0.00 0.00 0.00 1.73
5039 6539 7.036863 AGTCTGGAGGGTTTTGGATCTTAAATA 60.037 37.037 0.00 0.00 0.00 1.40
5040 6540 5.952347 GTCTGGAGGGTTTTGGATCTTAAAT 59.048 40.000 0.00 0.00 0.00 1.40
5041 6541 5.074515 AGTCTGGAGGGTTTTGGATCTTAAA 59.925 40.000 0.00 0.00 0.00 1.52
5042 6542 4.601857 AGTCTGGAGGGTTTTGGATCTTAA 59.398 41.667 0.00 0.00 0.00 1.85
5043 6543 4.019321 CAGTCTGGAGGGTTTTGGATCTTA 60.019 45.833 0.00 0.00 0.00 2.10
5044 6544 2.989571 AGTCTGGAGGGTTTTGGATCTT 59.010 45.455 0.00 0.00 0.00 2.40
5045 6545 2.307098 CAGTCTGGAGGGTTTTGGATCT 59.693 50.000 0.00 0.00 0.00 2.75
5046 6546 2.305927 TCAGTCTGGAGGGTTTTGGATC 59.694 50.000 0.00 0.00 0.00 3.36
5047 6547 2.348472 TCAGTCTGGAGGGTTTTGGAT 58.652 47.619 0.00 0.00 0.00 3.41
5048 6548 1.814429 TCAGTCTGGAGGGTTTTGGA 58.186 50.000 0.00 0.00 0.00 3.53
5049 6549 2.307098 AGATCAGTCTGGAGGGTTTTGG 59.693 50.000 0.00 0.00 32.13 3.28
5050 6550 3.341823 CAGATCAGTCTGGAGGGTTTTG 58.658 50.000 0.00 0.00 46.56 2.44
5051 6551 3.710209 CAGATCAGTCTGGAGGGTTTT 57.290 47.619 0.00 0.00 46.56 2.43
5261 6763 2.738521 CGTGTGGGCGAACTCTGG 60.739 66.667 0.00 0.00 0.00 3.86
5399 6905 2.734670 CGAGTAAATGGAACCGCGATA 58.265 47.619 8.23 0.00 0.00 2.92
5446 6952 1.368641 CAATCGAATGAACTGCGGGA 58.631 50.000 0.00 0.00 0.00 5.14
5503 7009 2.347452 CCGCGAATGTCGTCAACTATTT 59.653 45.455 8.23 0.00 42.81 1.40
5506 7018 1.074319 GCCGCGAATGTCGTCAACTA 61.074 55.000 8.23 0.00 42.81 2.24


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

AutoCloner maintained by Alex Coulton.