Multiple sequence alignment - TraesCS3A01G258000

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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 TraesCS3A01G258000 chr3A 100.000 9154 0 0 1 9154 479765816 479774969 0.000000e+00 16905.0
1 TraesCS3A01G258000 chr3A 90.100 3818 314 38 4483 8262 480048607 480052398 0.000000e+00 4898.0
2 TraesCS3A01G258000 chr3A 85.529 1154 117 31 2751 3878 480047475 480048604 0.000000e+00 1160.0
3 TraesCS3A01G258000 chr3A 83.878 459 51 11 1246 1691 480046064 480046512 5.110000e-112 416.0
4 TraesCS3A01G258000 chr3A 86.080 352 40 5 2156 2506 480046980 480047323 4.040000e-98 370.0
5 TraesCS3A01G258000 chr3A 88.554 166 11 3 8975 9140 479774740 479774897 2.610000e-45 195.0
6 TraesCS3A01G258000 chr3A 88.554 166 11 3 8925 9082 479774790 479774955 2.610000e-45 195.0
7 TraesCS3A01G258000 chr3A 89.815 108 3 1 8931 9030 479774848 479774955 2.070000e-26 132.0
8 TraesCS3A01G258000 chr3A 100.000 69 0 0 2520 2588 651627823 651627755 2.680000e-25 128.0
9 TraesCS3A01G258000 chr3A 86.905 84 6 3 1137 1220 480045984 480046062 1.270000e-13 89.8
10 TraesCS3A01G258000 chr3A 100.000 46 0 0 9085 9130 479774740 479774785 1.640000e-12 86.1
11 TraesCS3A01G258000 chr3A 100.000 46 0 0 8925 8970 479774900 479774945 1.640000e-12 86.1
12 TraesCS3A01G258000 chr3B 98.300 4293 52 12 4479 8758 466262634 466266918 0.000000e+00 7504.0
13 TraesCS3A01G258000 chr3B 89.034 3903 319 48 4483 8332 466608445 466612291 0.000000e+00 4735.0
14 TraesCS3A01G258000 chr3B 97.246 1852 27 5 2584 4419 466260400 466262243 0.000000e+00 3116.0
15 TraesCS3A01G258000 chr3B 89.080 1044 69 29 2 1012 466255494 466256525 0.000000e+00 1254.0
16 TraesCS3A01G258000 chr3B 97.944 681 14 0 997 1677 466256543 466257223 0.000000e+00 1181.0
17 TraesCS3A01G258000 chr3B 84.896 1152 126 31 2751 3878 466607315 466608442 0.000000e+00 1120.0
18 TraesCS3A01G258000 chr3B 91.473 516 19 7 1713 2211 466257316 466257823 0.000000e+00 686.0
19 TraesCS3A01G258000 chr3B 98.052 308 6 0 2207 2514 466260095 466260402 3.760000e-148 536.0
20 TraesCS3A01G258000 chr3B 91.579 380 15 4 8792 9154 466267009 466267388 8.200000e-140 508.0
21 TraesCS3A01G258000 chr3B 91.860 172 8 1 8975 9140 466267145 466267316 1.540000e-57 235.0
22 TraesCS3A01G258000 chr3B 87.209 172 8 4 8925 9082 466267203 466267374 5.650000e-42 183.0
23 TraesCS3A01G258000 chr3B 97.196 107 3 0 9034 9140 466267152 466267258 2.030000e-41 182.0
24 TraesCS3A01G258000 chr3B 98.780 82 1 0 4415 4496 466262364 466262445 7.410000e-31 147.0
25 TraesCS3A01G258000 chr3B 88.596 114 5 1 8925 9030 466267261 466267374 2.070000e-26 132.0
26 TraesCS3A01G258000 chr3B 96.429 56 2 0 9085 9140 466267145 466267200 9.790000e-15 93.5
27 TraesCS3A01G258000 chr3B 100.000 44 0 0 9111 9154 466267145 466267102 2.120000e-11 82.4
28 TraesCS3A01G258000 chr3B 97.143 35 1 0 537 571 688391906 688391940 9.930000e-05 60.2
29 TraesCS3A01G258000 chr3D 96.266 4205 134 16 4595 8782 360332424 360336622 0.000000e+00 6874.0
30 TraesCS3A01G258000 chr3D 90.489 2513 179 24 4463 6958 360555705 360558174 0.000000e+00 3262.0
31 TraesCS3A01G258000 chr3D 89.091 1375 122 14 6972 8332 360558271 360559631 0.000000e+00 1683.0
32 TraesCS3A01G258000 chr3D 90.427 1264 70 27 450 1681 360328442 360329686 0.000000e+00 1616.0
33 TraesCS3A01G258000 chr3D 88.683 1025 74 22 2585 3577 360330370 360331384 0.000000e+00 1212.0
34 TraesCS3A01G258000 chr3D 85.417 1152 121 31 2751 3878 360554580 360555708 0.000000e+00 1153.0
35 TraesCS3A01G258000 chr3D 83.367 998 96 35 3584 4570 360331487 360332425 0.000000e+00 859.0
36 TraesCS3A01G258000 chr3D 87.994 633 38 21 1904 2511 360329749 360330368 0.000000e+00 713.0
37 TraesCS3A01G258000 chr3D 89.620 395 12 7 8789 9154 360336752 360337146 8.320000e-130 475.0
38 TraesCS3A01G258000 chr3D 85.683 461 45 11 1246 1690 360553118 360553573 5.010000e-127 466.0
39 TraesCS3A01G258000 chr3D 86.819 349 39 4 2156 2503 360554083 360554425 5.190000e-102 383.0
40 TraesCS3A01G258000 chr3D 92.827 237 13 3 2 238 360327956 360328188 3.170000e-89 340.0
41 TraesCS3A01G258000 chr3D 87.500 184 5 3 8975 9140 360336891 360337074 7.250000e-46 196.0
42 TraesCS3A01G258000 chr3D 97.248 109 2 1 9033 9140 360336897 360337005 5.650000e-42 183.0
43 TraesCS3A01G258000 chr3D 80.078 256 18 17 182 433 360328164 360328390 9.510000e-35 159.0
44 TraesCS3A01G258000 chr3D 84.699 183 3 4 8925 9082 360336950 360337132 9.510000e-35 159.0
45 TraesCS3A01G258000 chr3D 87.129 101 5 1 8938 9030 360337032 360337132 3.500000e-19 108.0
46 TraesCS3A01G258000 chr3D 100.000 44 0 0 9111 9154 360336891 360336848 2.120000e-11 82.4
47 TraesCS3A01G258000 chr6A 90.612 3920 316 31 4389 8272 87928106 87932009 0.000000e+00 5153.0
48 TraesCS3A01G258000 chr6A 83.797 1475 159 36 2566 4000 87926608 87928042 0.000000e+00 1327.0
49 TraesCS3A01G258000 chr6A 84.110 730 74 24 991 1690 87924987 87925704 0.000000e+00 667.0
50 TraesCS3A01G258000 chr6A 88.921 343 28 6 2186 2519 87926168 87926509 1.840000e-111 414.0
51 TraesCS3A01G258000 chr6A 98.611 72 0 1 2520 2590 181521067 181521138 9.650000e-25 126.0
52 TraesCS3A01G258000 chr6A 91.071 56 5 0 4024 4079 87928037 87928092 9.860000e-10 76.8
53 TraesCS3A01G258000 chr6D 90.451 3812 311 40 4384 8172 71140880 71144661 0.000000e+00 4974.0
54 TraesCS3A01G258000 chr6D 88.292 2588 250 31 5705 8272 71134151 71136705 0.000000e+00 3051.0
55 TraesCS3A01G258000 chr6D 84.605 1455 158 35 2583 4000 71139396 71140821 0.000000e+00 1386.0
56 TraesCS3A01G258000 chr6D 85.544 1259 141 24 2699 3937 71123431 71124668 0.000000e+00 1279.0
57 TraesCS3A01G258000 chr6D 83.948 1003 125 19 2950 3937 71131181 71132162 0.000000e+00 928.0
58 TraesCS3A01G258000 chr6D 83.836 730 79 18 991 1690 71137889 71138609 0.000000e+00 658.0
59 TraesCS3A01G258000 chr6D 81.830 743 81 24 991 1690 71120171 71120902 7.970000e-160 575.0
60 TraesCS3A01G258000 chr6D 92.097 329 24 2 2186 2513 71122987 71123314 6.480000e-126 462.0
61 TraesCS3A01G258000 chr6D 89.254 335 27 4 2186 2514 71139065 71139396 2.380000e-110 411.0
62 TraesCS3A01G258000 chr6D 92.857 56 4 0 4024 4079 71140816 71140871 2.120000e-11 82.4
63 TraesCS3A01G258000 chr6D 80.769 104 15 2 1875 1977 71122613 71122712 9.860000e-10 76.8
64 TraesCS3A01G258000 chr6B 89.559 3017 248 39 4384 7384 145888330 145891295 0.000000e+00 3764.0
65 TraesCS3A01G258000 chr6B 91.986 2034 145 13 4384 6406 145896489 145898515 0.000000e+00 2837.0
66 TraesCS3A01G258000 chr6B 90.099 1212 98 15 6999 8193 145898539 145899745 0.000000e+00 1554.0
67 TraesCS3A01G258000 chr6B 85.572 1407 156 24 2699 4079 145886936 145888321 0.000000e+00 1430.0
68 TraesCS3A01G258000 chr6B 85.486 1378 151 25 2652 4000 145895073 145896430 0.000000e+00 1391.0
69 TraesCS3A01G258000 chr6B 89.135 902 83 9 7381 8272 145891417 145892313 0.000000e+00 1109.0
70 TraesCS3A01G258000 chr6B 84.022 726 81 16 991 1690 145893480 145894196 0.000000e+00 665.0
71 TraesCS3A01G258000 chr6B 83.541 723 72 22 991 1677 145882863 145883574 4.660000e-177 632.0
72 TraesCS3A01G258000 chr6B 92.308 325 24 1 2189 2513 145886485 145886808 2.330000e-125 460.0
73 TraesCS3A01G258000 chr6B 88.955 335 30 3 2186 2514 145894669 145895002 3.080000e-109 407.0
74 TraesCS3A01G258000 chr5D 81.250 176 20 10 507 677 478455289 478455456 7.460000e-26 130.0
75 TraesCS3A01G258000 chr5A 100.000 69 0 0 2520 2588 397145961 397145893 2.680000e-25 128.0
76 TraesCS3A01G258000 chr5A 95.000 80 2 2 2520 2597 383832195 383832116 3.470000e-24 124.0
77 TraesCS3A01G258000 chr5A 90.196 51 5 0 527 577 506991559 506991509 5.930000e-07 67.6
78 TraesCS3A01G258000 chr2D 97.333 75 2 0 2520 2594 448138304 448138230 2.680000e-25 128.0
79 TraesCS3A01G258000 chr7A 98.592 71 1 0 2520 2590 139051580 139051510 9.650000e-25 126.0
80 TraesCS3A01G258000 chr2A 98.592 71 1 0 2520 2590 680278270 680278340 9.650000e-25 126.0
81 TraesCS3A01G258000 chr2A 95.000 80 2 2 2520 2597 22592696 22592617 3.470000e-24 124.0
82 TraesCS3A01G258000 chr2A 89.130 92 9 1 2520 2611 43132348 43132258 7.510000e-21 113.0
83 TraesCS3A01G258000 chr1A 83.636 110 15 3 500 607 14485933 14485825 5.850000e-17 100.0
84 TraesCS3A01G258000 chr1A 93.478 46 2 1 652 696 522968735 522968780 5.930000e-07 67.6
85 TraesCS3A01G258000 chr1B 83.673 98 13 3 500 595 18430787 18430883 1.270000e-13 89.8
86 TraesCS3A01G258000 chr1B 93.478 46 2 1 652 696 579940906 579940951 5.930000e-07 67.6
87 TraesCS3A01G258000 chr1D 86.957 69 8 1 629 696 427630942 427631010 9.860000e-10 76.8


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 TraesCS3A01G258000 chr3A 479765816 479774969 9153 False 2933.200000 16905 94.487167 1 9154 6 chr3A.!!$F1 9153
1 TraesCS3A01G258000 chr3A 480045984 480052398 6414 False 1386.760000 4898 86.498400 1137 8262 5 chr3A.!!$F2 7125
2 TraesCS3A01G258000 chr3B 466607315 466612291 4976 False 2927.500000 4735 86.965000 2751 8332 2 chr3B.!!$F3 5581
3 TraesCS3A01G258000 chr3B 466255494 466267388 11894 False 1212.115385 7504 94.134154 2 9154 13 chr3B.!!$F2 9152
4 TraesCS3A01G258000 chr3D 360553118 360559631 6513 False 1389.400000 3262 87.499800 1246 8332 5 chr3D.!!$F2 7086
5 TraesCS3A01G258000 chr3D 360327956 360337146 9190 False 1074.500000 6874 88.819833 2 9154 12 chr3D.!!$F1 9152
6 TraesCS3A01G258000 chr6A 87924987 87932009 7022 False 1527.560000 5153 87.702200 991 8272 5 chr6A.!!$F2 7281
7 TraesCS3A01G258000 chr6D 71131181 71144661 13480 False 1641.485714 4974 87.606143 991 8272 7 chr6D.!!$F2 7281
8 TraesCS3A01G258000 chr6D 71120171 71124668 4497 False 598.200000 1279 85.060000 991 3937 4 chr6D.!!$F1 2946
9 TraesCS3A01G258000 chr6B 145882863 145899745 16882 False 1424.900000 3764 88.066300 991 8272 10 chr6B.!!$F1 7281

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
261 291 0.111061 ACTTGGATGTGAAGCAGGCA 59.889 50.000 0.00 0.0 0.00 4.75 F
314 344 0.470766 TTTAACCGTGCCAGGTGTCT 59.529 50.000 0.65 0.0 45.21 3.41 F
387 425 0.756903 ACGTCTGTACAGCCAACCTT 59.243 50.000 18.45 0.0 0.00 3.50 F
435 473 1.086696 CTCCACGGTCGATGCAATTT 58.913 50.000 0.00 0.0 0.00 1.82 F
1711 8928 1.269361 GGAAATCCGTTGGTGCGTTTT 60.269 47.619 0.00 0.0 0.00 2.43 F
2565 14344 1.066858 ACATCCATTTCTGCGACGAGT 60.067 47.619 0.00 0.0 0.00 4.18 F
3689 15759 0.036388 GCCCACGAGATTCAAGGTGA 60.036 55.000 0.00 0.0 32.23 4.02 F
3903 15976 0.111061 ATTGCAACCTCACAGCAGGA 59.889 50.000 0.00 0.0 39.72 3.86 F
3931 16004 3.513912 TGAATCCCGAGAAAGCTCTAACA 59.486 43.478 0.00 0.0 39.06 2.41 F
4219 16325 3.923461 CGAAGACAAGTAAAGGCAGAGAG 59.077 47.826 0.00 0.0 0.00 3.20 F
6625 19132 1.413077 CCTAAGGACCCTGGAATCGAC 59.587 57.143 0.00 0.0 0.00 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1797 9036 0.251341 AGAATGGCGTTTTGGCTCCT 60.251 50.000 0.00 0.0 45.14 3.69 R
1916 11085 1.062886 AGAGTACCAGCTCTGCCCATA 60.063 52.381 0.00 0.0 43.54 2.74 R
2337 14116 2.241941 TGATTGCCTTTCTCCTGCCATA 59.758 45.455 0.00 0.0 0.00 2.74 R
2364 14143 6.816640 CAGATTTCAGGTACAAAGAACGGATA 59.183 38.462 0.00 0.0 0.00 2.59 R
2568 14347 0.038744 ACTACTCCCTCCGTTCCGAA 59.961 55.000 0.00 0.0 0.00 4.30 R
3882 15955 1.470098 CCTGCTGTGAGGTTGCAATAC 59.530 52.381 0.59 0.0 36.22 1.89 R
5623 18086 2.141911 AGCTCCATTGGGATCCTTCAT 58.858 47.619 12.58 0.0 43.91 2.57 R
5972 18435 1.462616 TGGGAAAATGACTCCATGCG 58.537 50.000 0.00 0.0 34.34 4.73 R
6298 18766 6.727824 TGTAAGTGAAAGCAGAATCTTAGC 57.272 37.500 0.00 0.0 0.00 3.09 R
6641 19148 7.774625 TCATACATCTCCTGCACAATAATTGAA 59.225 33.333 0.00 0.0 0.00 2.69 R
8255 28523 2.292267 CCGCTAACCTCTTGCATTCAT 58.708 47.619 0.00 0.0 0.00 2.57 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
62 63 2.818432 CTCGTGTGTGGACTAGTTAGGT 59.182 50.000 0.00 0.00 0.00 3.08
148 150 1.070786 TCCGTTCTTGAGCCCACAC 59.929 57.895 0.00 0.00 0.00 3.82
149 151 2.317609 CCGTTCTTGAGCCCACACG 61.318 63.158 0.00 0.00 0.00 4.49
180 182 1.883275 CCTCGAGAATAGCTGGACGAT 59.117 52.381 15.71 0.00 0.00 3.73
261 291 0.111061 ACTTGGATGTGAAGCAGGCA 59.889 50.000 0.00 0.00 0.00 4.75
314 344 0.470766 TTTAACCGTGCCAGGTGTCT 59.529 50.000 0.65 0.00 45.21 3.41
353 391 1.401318 TTGTGCCCAAGTTGCTGCAT 61.401 50.000 17.76 0.00 35.96 3.96
375 413 1.588932 CGTGTGTGCTGACGTCTGT 60.589 57.895 21.51 0.00 0.00 3.41
387 425 0.756903 ACGTCTGTACAGCCAACCTT 59.243 50.000 18.45 0.00 0.00 3.50
405 443 4.128388 CGCCCGGCCAAAATGTCC 62.128 66.667 2.24 0.00 0.00 4.02
433 471 1.153369 CCTCCACGGTCGATGCAAT 60.153 57.895 0.00 0.00 0.00 3.56
435 473 1.086696 CTCCACGGTCGATGCAATTT 58.913 50.000 0.00 0.00 0.00 1.82
436 474 1.468520 CTCCACGGTCGATGCAATTTT 59.531 47.619 0.00 0.00 0.00 1.82
437 475 1.883275 TCCACGGTCGATGCAATTTTT 59.117 42.857 0.00 0.00 0.00 1.94
438 476 3.075148 TCCACGGTCGATGCAATTTTTA 58.925 40.909 0.00 0.00 0.00 1.52
442 480 5.347364 CCACGGTCGATGCAATTTTTATTTT 59.653 36.000 0.00 0.00 0.00 1.82
443 481 6.128688 CCACGGTCGATGCAATTTTTATTTTT 60.129 34.615 0.00 0.00 0.00 1.94
484 558 2.817844 GAGCACCCCAAAAGAAACGTAT 59.182 45.455 0.00 0.00 0.00 3.06
485 559 4.004982 GAGCACCCCAAAAGAAACGTATA 58.995 43.478 0.00 0.00 0.00 1.47
577 651 9.167311 ACTTATTTCATCATCAGACTTTACACC 57.833 33.333 0.00 0.00 0.00 4.16
578 652 9.166173 CTTATTTCATCATCAGACTTTACACCA 57.834 33.333 0.00 0.00 0.00 4.17
612 691 6.435277 ACATCCATATTACCATGCAGGATTTC 59.565 38.462 0.00 0.00 41.22 2.17
613 692 6.204852 TCCATATTACCATGCAGGATTTCT 57.795 37.500 0.00 0.00 41.22 2.52
617 696 7.654520 CCATATTACCATGCAGGATTTCTTTTG 59.345 37.037 0.00 0.00 41.22 2.44
618 697 3.323751 ACCATGCAGGATTTCTTTTGC 57.676 42.857 0.00 0.00 41.22 3.68
619 698 2.901839 ACCATGCAGGATTTCTTTTGCT 59.098 40.909 0.00 0.00 41.22 3.91
620 699 4.088634 ACCATGCAGGATTTCTTTTGCTA 58.911 39.130 0.00 0.00 41.22 3.49
621 700 4.159135 ACCATGCAGGATTTCTTTTGCTAG 59.841 41.667 0.00 0.00 41.22 3.42
622 701 3.855689 TGCAGGATTTCTTTTGCTAGC 57.144 42.857 8.10 8.10 37.45 3.42
624 703 3.828451 TGCAGGATTTCTTTTGCTAGCTT 59.172 39.130 17.23 0.00 37.45 3.74
727 808 7.229306 ACGCTCATGAATACATCCATATTTGTT 59.771 33.333 0.00 0.00 34.15 2.83
728 809 8.077991 CGCTCATGAATACATCCATATTTGTTT 58.922 33.333 0.00 0.00 34.15 2.83
753 834 6.758593 TTGACGTTTTCATACTACACTGTC 57.241 37.500 0.00 0.00 32.84 3.51
754 835 5.834169 TGACGTTTTCATACTACACTGTCA 58.166 37.500 0.00 0.00 0.00 3.58
756 837 6.757478 TGACGTTTTCATACTACACTGTCAAA 59.243 34.615 0.00 0.00 30.50 2.69
906 997 4.530094 CTGACAAAGCACAAAAGTACGA 57.470 40.909 0.00 0.00 0.00 3.43
980 1079 6.016693 CCCATAATTAATCACATGCCGTAACA 60.017 38.462 0.00 0.00 0.00 2.41
1332 7132 2.665000 CTGCTCATGGTGGTCGGT 59.335 61.111 0.00 0.00 0.00 4.69
1487 7311 9.219603 CTTATGGTGATCACTTAACTTGAAGAA 57.780 33.333 24.50 3.74 0.00 2.52
1709 8926 1.953772 GGAAATCCGTTGGTGCGTT 59.046 52.632 0.00 0.00 0.00 4.84
1711 8928 1.269361 GGAAATCCGTTGGTGCGTTTT 60.269 47.619 0.00 0.00 0.00 2.43
1712 8929 2.465855 GAAATCCGTTGGTGCGTTTTT 58.534 42.857 0.00 0.00 0.00 1.94
1916 11085 6.983906 AACCAACTTCTCCATGAAAATTCT 57.016 33.333 0.00 0.00 33.79 2.40
2035 11213 8.436046 TGCATTTCAAAGATATAAAATTGGCC 57.564 30.769 0.00 0.00 0.00 5.36
2038 11216 9.603921 CATTTCAAAGATATAAAATTGGCCAGT 57.396 29.630 5.11 0.00 0.00 4.00
2337 14116 1.922369 AGAGGTGGCATGCTGGACT 60.922 57.895 18.92 10.82 0.00 3.85
2355 14134 1.635487 ACTATGGCAGGAGAAAGGCAA 59.365 47.619 6.22 0.00 43.78 4.52
2469 14248 5.061853 TCTAGAATGTCTAGCGATACGGTT 58.938 41.667 7.32 0.00 44.65 4.44
2514 14293 7.548427 GGTGAGAAGGTAATACTTCCTTTGTAC 59.452 40.741 2.60 0.00 46.24 2.90
2515 14294 8.312564 GTGAGAAGGTAATACTTCCTTTGTACT 58.687 37.037 2.60 0.00 46.24 2.73
2516 14295 8.529476 TGAGAAGGTAATACTTCCTTTGTACTC 58.471 37.037 2.60 0.00 46.24 2.59
2517 14296 7.849160 AGAAGGTAATACTTCCTTTGTACTCC 58.151 38.462 2.60 0.00 46.24 3.85
2518 14297 6.556974 AGGTAATACTTCCTTTGTACTCCC 57.443 41.667 0.00 0.00 0.00 4.30
2519 14298 6.269974 AGGTAATACTTCCTTTGTACTCCCT 58.730 40.000 0.00 0.00 0.00 4.20
2520 14299 7.425003 AGGTAATACTTCCTTTGTACTCCCTA 58.575 38.462 0.00 0.00 0.00 3.53
2521 14300 8.072480 AGGTAATACTTCCTTTGTACTCCCTAT 58.928 37.037 0.00 0.00 0.00 2.57
2522 14301 8.366401 GGTAATACTTCCTTTGTACTCCCTATC 58.634 40.741 0.00 0.00 0.00 2.08
2523 14302 9.145442 GTAATACTTCCTTTGTACTCCCTATCT 57.855 37.037 0.00 0.00 0.00 1.98
2525 14304 8.943594 ATACTTCCTTTGTACTCCCTATCTAG 57.056 38.462 0.00 0.00 0.00 2.43
2526 14305 6.982899 ACTTCCTTTGTACTCCCTATCTAGA 58.017 40.000 0.00 0.00 0.00 2.43
2527 14306 7.420029 ACTTCCTTTGTACTCCCTATCTAGAA 58.580 38.462 0.00 0.00 0.00 2.10
2528 14307 7.342541 ACTTCCTTTGTACTCCCTATCTAGAAC 59.657 40.741 0.00 0.00 0.00 3.01
2529 14308 6.982899 TCCTTTGTACTCCCTATCTAGAACT 58.017 40.000 0.00 0.00 0.00 3.01
2530 14309 8.110743 TCCTTTGTACTCCCTATCTAGAACTA 57.889 38.462 0.00 0.00 0.00 2.24
2531 14310 8.563502 TCCTTTGTACTCCCTATCTAGAACTAA 58.436 37.037 0.00 0.00 0.00 2.24
2532 14311 9.198475 CCTTTGTACTCCCTATCTAGAACTAAA 57.802 37.037 0.00 0.00 0.00 1.85
2558 14337 9.664332 AATACATCTAGATACATCCATTTCTGC 57.336 33.333 4.54 0.00 0.00 4.26
2559 14338 6.162079 ACATCTAGATACATCCATTTCTGCG 58.838 40.000 4.54 0.00 0.00 5.18
2560 14339 6.015095 ACATCTAGATACATCCATTTCTGCGA 60.015 38.462 4.54 0.00 0.00 5.10
2561 14340 5.773575 TCTAGATACATCCATTTCTGCGAC 58.226 41.667 0.00 0.00 0.00 5.19
2562 14341 3.384668 AGATACATCCATTTCTGCGACG 58.615 45.455 0.00 0.00 0.00 5.12
2563 14342 2.951457 TACATCCATTTCTGCGACGA 57.049 45.000 0.00 0.00 0.00 4.20
2564 14343 1.645034 ACATCCATTTCTGCGACGAG 58.355 50.000 0.00 0.00 0.00 4.18
2565 14344 1.066858 ACATCCATTTCTGCGACGAGT 60.067 47.619 0.00 0.00 0.00 4.18
2566 14345 2.165641 ACATCCATTTCTGCGACGAGTA 59.834 45.455 0.00 0.00 0.00 2.59
2567 14346 3.186909 CATCCATTTCTGCGACGAGTAA 58.813 45.455 0.00 0.00 0.00 2.24
2568 14347 3.520290 TCCATTTCTGCGACGAGTAAT 57.480 42.857 0.00 0.00 0.00 1.89
2569 14348 3.857052 TCCATTTCTGCGACGAGTAATT 58.143 40.909 0.00 0.00 0.00 1.40
2570 14349 3.863424 TCCATTTCTGCGACGAGTAATTC 59.137 43.478 0.00 0.00 0.00 2.17
2644 14563 2.639286 CAAAGTGCGCACAGACCC 59.361 61.111 39.21 14.48 0.00 4.46
2645 14564 2.972505 AAAGTGCGCACAGACCCG 60.973 61.111 39.21 0.00 0.00 5.28
3315 15269 5.233689 GTCCTCACTATATTGTTTGCCGTAC 59.766 44.000 0.00 0.00 0.00 3.67
3689 15759 0.036388 GCCCACGAGATTCAAGGTGA 60.036 55.000 0.00 0.00 32.23 4.02
3882 15955 6.900568 TTTGAAACAGGTGTAAATTGCAAG 57.099 33.333 4.94 0.00 0.00 4.01
3903 15976 0.111061 ATTGCAACCTCACAGCAGGA 59.889 50.000 0.00 0.00 39.72 3.86
3931 16004 3.513912 TGAATCCCGAGAAAGCTCTAACA 59.486 43.478 0.00 0.00 39.06 2.41
4207 16313 9.878599 CATTAGAATTGTAAAACGAAGACAAGT 57.121 29.630 0.00 0.00 36.57 3.16
4219 16325 3.923461 CGAAGACAAGTAAAGGCAGAGAG 59.077 47.826 0.00 0.00 0.00 3.20
4359 16470 4.750098 ACTTTTCGACCTACAACACATGAG 59.250 41.667 0.00 0.00 0.00 2.90
4796 17256 6.373779 GTGATGTTGAACTAAAGGATGTGTG 58.626 40.000 0.00 0.00 0.00 3.82
5189 17650 8.780846 AAATAAGATTGCATGCTTCAAATGAA 57.219 26.923 20.33 1.92 0.00 2.57
5623 18086 4.508551 ACAGGTCCTCATCATGCATTAA 57.491 40.909 0.00 0.00 0.00 1.40
6558 19036 4.868314 AGTGAAGAAGCTAAGGTAACGT 57.132 40.909 0.00 0.00 46.39 3.99
6625 19132 1.413077 CCTAAGGACCCTGGAATCGAC 59.587 57.143 0.00 0.00 0.00 4.20
6968 19562 4.625742 CGAGTTACAGTTTCTGTATGGGTG 59.374 45.833 9.86 0.00 44.85 4.61
6992 19586 9.599322 GTGTCAACTTTTAATAATCAGTCACAG 57.401 33.333 0.00 0.00 0.00 3.66
6997 19591 8.798859 ACTTTTAATAATCAGTCACAGATGCT 57.201 30.769 0.00 0.00 0.00 3.79
7252 19847 7.201679 CCTGATGTCCAAATATTCAGTGACTTC 60.202 40.741 0.00 2.89 0.00 3.01
7345 19941 6.818142 CCCAATTGTTTTCCATTCAGATAACC 59.182 38.462 4.43 0.00 29.65 2.85
7418 20152 6.811665 GTGATGCATCTAGTTACAGTGTTACA 59.188 38.462 26.32 0.00 0.00 2.41
8024 28270 0.824109 CTCACCGCCTCTCCACAATA 59.176 55.000 0.00 0.00 0.00 1.90
8520 28790 1.135603 ACGACTCGCACGTAGCATTAA 60.136 47.619 9.95 0.00 46.13 1.40
8533 28803 7.222999 GCACGTAGCATTAAAGATAGTCTTCTT 59.777 37.037 5.30 0.00 44.79 2.52
8761 29031 2.986479 CCAGCCGCAAGTTTGAAATTAC 59.014 45.455 0.00 0.00 0.00 1.89
8763 29033 1.982913 GCCGCAAGTTTGAAATTACCG 59.017 47.619 0.00 0.00 0.00 4.02
8786 29056 8.932791 ACCGCAATTATTAGTACTATAACATGC 58.067 33.333 2.79 14.76 0.00 4.06
8787 29057 8.931775 CCGCAATTATTAGTACTATAACATGCA 58.068 33.333 23.14 0.00 31.67 3.96
8832 29225 1.351017 TCAAAGATCCCAGGGTGTCAC 59.649 52.381 5.01 0.00 0.00 3.67
8863 29256 1.265365 GCCTCACAGACTCAGCAAAAC 59.735 52.381 0.00 0.00 0.00 2.43
8864 29257 2.564771 CCTCACAGACTCAGCAAAACA 58.435 47.619 0.00 0.00 0.00 2.83
8865 29258 2.547211 CCTCACAGACTCAGCAAAACAG 59.453 50.000 0.00 0.00 0.00 3.16
8866 29259 3.461061 CTCACAGACTCAGCAAAACAGA 58.539 45.455 0.00 0.00 0.00 3.41
8867 29260 3.198068 TCACAGACTCAGCAAAACAGAC 58.802 45.455 0.00 0.00 0.00 3.51
8893 29287 5.608860 AGAAAGAAGAAAGGAGAAAGGAGGA 59.391 40.000 0.00 0.00 0.00 3.71
8937 29333 3.181463 TGAAAAGATTTGCTGCTTTGGCT 60.181 39.130 0.00 0.00 39.59 4.75
8995 29400 1.307097 GCTGCTTTGGCTAGAGATGG 58.693 55.000 0.00 0.00 39.59 3.51
9007 29412 4.064388 GCTAGAGATGGGCTGAATCTTTC 58.936 47.826 0.00 0.00 34.50 2.62
9017 29422 2.916640 CTGAATCTTTCCAGAGAGGCC 58.083 52.381 0.00 0.00 37.29 5.19
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.284982 CTTGGTCAGCACCTTCGACG 61.285 60.000 0.00 0.00 44.17 5.12
149 151 2.819984 TTCTCGAGGGCCCATTGCAC 62.820 60.000 27.56 6.79 46.89 4.57
215 219 2.373169 AGAAGGTGCAATCAGGAGTTCA 59.627 45.455 0.00 0.00 0.00 3.18
240 244 1.883638 GCCTGCTTCACATCCAAGTCA 60.884 52.381 0.00 0.00 0.00 3.41
261 291 5.338365 CGTTTTGTTCCGCTCTACTACTAT 58.662 41.667 0.00 0.00 0.00 2.12
310 340 2.209690 TCGACCACACTATCCAGACA 57.790 50.000 0.00 0.00 0.00 3.41
314 344 1.614903 ACGTTTCGACCACACTATCCA 59.385 47.619 0.00 0.00 0.00 3.41
375 413 2.349755 GGGCGAAGGTTGGCTGTA 59.650 61.111 0.00 0.00 32.12 2.74
387 425 3.059386 GACATTTTGGCCGGGCGA 61.059 61.111 24.45 20.16 0.00 5.54
405 443 4.873129 CGTGGAGGATGGGCGACG 62.873 72.222 0.00 0.00 0.00 5.12
442 480 1.134848 GCTGGCACCAGTGTTCAAAAA 60.135 47.619 17.72 0.00 45.24 1.94
443 481 0.459489 GCTGGCACCAGTGTTCAAAA 59.541 50.000 17.72 0.00 45.24 2.44
484 558 9.940166 GAAGAGGTGAAAAACGTTAAAAATCTA 57.060 29.630 0.00 0.00 0.00 1.98
485 559 8.463607 TGAAGAGGTGAAAAACGTTAAAAATCT 58.536 29.630 0.00 0.00 0.00 2.40
674 753 1.670406 GGAGCACAGTGCCAGTGAG 60.670 63.158 22.41 0.00 46.52 3.51
727 808 7.976826 ACAGTGTAGTATGAAAACGTCAAAAA 58.023 30.769 0.00 0.00 40.50 1.94
728 809 7.278203 TGACAGTGTAGTATGAAAACGTCAAAA 59.722 33.333 0.00 0.00 40.50 2.44
734 815 7.792925 TGATTTGACAGTGTAGTATGAAAACG 58.207 34.615 0.00 0.00 0.00 3.60
746 827 7.810759 ACGTTTTACTTTTTGATTTGACAGTGT 59.189 29.630 0.00 0.00 0.00 3.55
748 829 7.274686 CCACGTTTTACTTTTTGATTTGACAGT 59.725 33.333 0.00 0.00 0.00 3.55
749 830 7.274686 ACCACGTTTTACTTTTTGATTTGACAG 59.725 33.333 0.00 0.00 0.00 3.51
751 832 7.062488 ACACCACGTTTTACTTTTTGATTTGAC 59.938 33.333 0.00 0.00 0.00 3.18
753 834 7.062371 TCACACCACGTTTTACTTTTTGATTTG 59.938 33.333 0.00 0.00 0.00 2.32
754 835 7.062488 GTCACACCACGTTTTACTTTTTGATTT 59.938 33.333 0.00 0.00 0.00 2.17
756 837 6.031471 GTCACACCACGTTTTACTTTTTGAT 58.969 36.000 0.00 0.00 0.00 2.57
801 891 6.374333 GGCTCTTTGGTGTTCACAGATAATTA 59.626 38.462 5.32 0.00 32.40 1.40
906 997 5.824624 AGGTGCGACAATTCAAGATTCATAT 59.175 36.000 0.00 0.00 0.00 1.78
980 1079 5.067283 GCCATGGAAAATTACACGGACTATT 59.933 40.000 18.40 0.00 0.00 1.73
1157 6927 3.671702 GCTACTTGCTTTGTTGATGAGCC 60.672 47.826 0.00 0.00 38.95 4.70
1244 7041 1.369091 CTCCGGCCGGTCATCTTTTG 61.369 60.000 41.57 14.30 36.47 2.44
1487 7311 6.360370 TTCTCTGTTAACTCAACTAGCCAT 57.640 37.500 7.22 0.00 38.05 4.40
1771 9010 2.216046 CACGCACTCCTGCATGAATAT 58.784 47.619 0.00 0.00 38.98 1.28
1793 9032 2.282180 GCGTTTTGGCTCCTGGGA 60.282 61.111 0.00 0.00 0.00 4.37
1797 9036 0.251341 AGAATGGCGTTTTGGCTCCT 60.251 50.000 0.00 0.00 45.14 3.69
1808 9047 6.311445 GGTATATACTGAATGTGAGAATGGCG 59.689 42.308 12.54 0.00 0.00 5.69
1916 11085 1.062886 AGAGTACCAGCTCTGCCCATA 60.063 52.381 0.00 0.00 43.54 2.74
1991 11169 3.505680 TGCAGTTGAGTTCTCTCTCTCTC 59.494 47.826 1.53 0.00 40.98 3.20
2035 11213 8.400186 TGATTGCACATTCATTTATCACTACTG 58.600 33.333 0.00 0.00 0.00 2.74
2045 11223 5.860182 GCGCTATATGATTGCACATTCATTT 59.140 36.000 11.91 8.01 34.44 2.32
2337 14116 2.241941 TGATTGCCTTTCTCCTGCCATA 59.758 45.455 0.00 0.00 0.00 2.74
2364 14143 6.816640 CAGATTTCAGGTACAAAGAACGGATA 59.183 38.462 0.00 0.00 0.00 2.59
2532 14311 9.664332 GCAGAAATGGATGTATCTAGATGTATT 57.336 33.333 15.79 4.32 0.00 1.89
2533 14312 7.978414 CGCAGAAATGGATGTATCTAGATGTAT 59.022 37.037 15.79 9.11 0.00 2.29
2534 14313 7.176690 TCGCAGAAATGGATGTATCTAGATGTA 59.823 37.037 15.79 4.44 0.00 2.29
2535 14314 6.015095 TCGCAGAAATGGATGTATCTAGATGT 60.015 38.462 15.79 1.25 0.00 3.06
2536 14315 6.309980 GTCGCAGAAATGGATGTATCTAGATG 59.690 42.308 15.79 0.00 39.69 2.90
2537 14316 6.393990 GTCGCAGAAATGGATGTATCTAGAT 58.606 40.000 10.73 10.73 39.69 1.98
2538 14317 5.562890 CGTCGCAGAAATGGATGTATCTAGA 60.563 44.000 0.00 0.00 39.69 2.43
2539 14318 4.618912 CGTCGCAGAAATGGATGTATCTAG 59.381 45.833 0.00 0.00 39.69 2.43
2540 14319 4.277423 TCGTCGCAGAAATGGATGTATCTA 59.723 41.667 0.00 0.00 39.69 1.98
2541 14320 3.068165 TCGTCGCAGAAATGGATGTATCT 59.932 43.478 0.00 0.00 39.69 1.98
2542 14321 3.381045 TCGTCGCAGAAATGGATGTATC 58.619 45.455 0.00 0.00 39.69 2.24
2543 14322 3.181475 ACTCGTCGCAGAAATGGATGTAT 60.181 43.478 0.00 0.00 39.69 2.29
2544 14323 2.165641 ACTCGTCGCAGAAATGGATGTA 59.834 45.455 0.00 0.00 39.69 2.29
2545 14324 1.066858 ACTCGTCGCAGAAATGGATGT 60.067 47.619 0.00 0.00 39.69 3.06
2546 14325 1.645034 ACTCGTCGCAGAAATGGATG 58.355 50.000 0.00 0.00 39.69 3.51
2547 14326 3.520290 TTACTCGTCGCAGAAATGGAT 57.480 42.857 0.00 0.00 39.69 3.41
2548 14327 3.520290 ATTACTCGTCGCAGAAATGGA 57.480 42.857 0.00 0.00 39.69 3.41
2549 14328 3.301835 CGAATTACTCGTCGCAGAAATGG 60.302 47.826 0.00 0.00 42.89 3.16
2550 14329 3.301835 CCGAATTACTCGTCGCAGAAATG 60.302 47.826 0.00 0.00 46.65 2.32
2551 14330 2.858344 CCGAATTACTCGTCGCAGAAAT 59.142 45.455 0.00 0.00 46.65 2.17
2552 14331 2.095110 TCCGAATTACTCGTCGCAGAAA 60.095 45.455 0.00 0.00 46.65 2.52
2553 14332 1.469703 TCCGAATTACTCGTCGCAGAA 59.530 47.619 0.00 0.00 46.65 3.02
2554 14333 1.089112 TCCGAATTACTCGTCGCAGA 58.911 50.000 0.00 0.00 46.65 4.26
2555 14334 1.582502 GTTCCGAATTACTCGTCGCAG 59.417 52.381 0.00 0.00 46.65 5.18
2556 14335 1.621107 GTTCCGAATTACTCGTCGCA 58.379 50.000 0.00 0.00 46.65 5.10
2557 14336 0.564767 CGTTCCGAATTACTCGTCGC 59.435 55.000 0.00 0.00 46.65 5.19
2558 14337 1.186030 CCGTTCCGAATTACTCGTCG 58.814 55.000 0.00 0.00 46.65 5.12
2559 14338 2.448219 CTCCGTTCCGAATTACTCGTC 58.552 52.381 0.00 0.00 46.65 4.20
2560 14339 1.133790 CCTCCGTTCCGAATTACTCGT 59.866 52.381 0.00 0.00 46.65 4.18
2562 14341 1.753073 TCCCTCCGTTCCGAATTACTC 59.247 52.381 0.00 0.00 0.00 2.59
2563 14342 1.755380 CTCCCTCCGTTCCGAATTACT 59.245 52.381 0.00 0.00 0.00 2.24
2564 14343 1.479730 ACTCCCTCCGTTCCGAATTAC 59.520 52.381 0.00 0.00 0.00 1.89
2565 14344 1.856629 ACTCCCTCCGTTCCGAATTA 58.143 50.000 0.00 0.00 0.00 1.40
2566 14345 1.755380 CTACTCCCTCCGTTCCGAATT 59.245 52.381 0.00 0.00 0.00 2.17
2567 14346 1.341778 ACTACTCCCTCCGTTCCGAAT 60.342 52.381 0.00 0.00 0.00 3.34
2568 14347 0.038744 ACTACTCCCTCCGTTCCGAA 59.961 55.000 0.00 0.00 0.00 4.30
2569 14348 0.911769 TACTACTCCCTCCGTTCCGA 59.088 55.000 0.00 0.00 0.00 4.55
2570 14349 1.020437 GTACTACTCCCTCCGTTCCG 58.980 60.000 0.00 0.00 0.00 4.30
2571 14350 1.341383 TGGTACTACTCCCTCCGTTCC 60.341 57.143 0.00 0.00 0.00 3.62
2572 14351 2.134789 TGGTACTACTCCCTCCGTTC 57.865 55.000 0.00 0.00 0.00 3.95
2573 14352 2.610438 TTGGTACTACTCCCTCCGTT 57.390 50.000 0.00 0.00 0.00 4.44
2574 14353 2.610438 TTTGGTACTACTCCCTCCGT 57.390 50.000 0.00 0.00 0.00 4.69
2575 14354 5.361857 TCTTTATTTGGTACTACTCCCTCCG 59.638 44.000 0.00 0.00 0.00 4.63
2576 14355 6.803366 TCTTTATTTGGTACTACTCCCTCC 57.197 41.667 0.00 0.00 0.00 4.30
2577 14356 8.075761 TCTTCTTTATTTGGTACTACTCCCTC 57.924 38.462 0.00 0.00 0.00 4.30
2578 14357 8.445361 TTCTTCTTTATTTGGTACTACTCCCT 57.555 34.615 0.00 0.00 0.00 4.20
2579 14358 9.682465 AATTCTTCTTTATTTGGTACTACTCCC 57.318 33.333 0.00 0.00 0.00 4.30
2581 14360 9.989869 GCAATTCTTCTTTATTTGGTACTACTC 57.010 33.333 0.00 0.00 0.00 2.59
2582 14361 9.515226 TGCAATTCTTCTTTATTTGGTACTACT 57.485 29.630 0.00 0.00 0.00 2.57
2640 14559 2.955751 GATACTCGTGCCTGCGGGTC 62.956 65.000 14.55 6.23 42.53 4.46
2642 14561 2.279517 GATACTCGTGCCTGCGGG 60.280 66.667 7.41 7.41 38.50 6.13
2644 14563 0.380733 TACTGATACTCGTGCCTGCG 59.619 55.000 0.00 0.00 0.00 5.18
2645 14564 2.802787 ATACTGATACTCGTGCCTGC 57.197 50.000 0.00 0.00 0.00 4.85
3315 15269 2.661537 TCACGTTGCGCCAGTCAG 60.662 61.111 4.18 0.00 0.00 3.51
3689 15759 4.663592 TCTTTTACCTCAAAGGGAAGGAGT 59.336 41.667 0.00 0.00 39.89 3.85
3853 15926 8.821894 GCAATTTACACCTGTTTCAAAATTGTA 58.178 29.630 17.43 0.00 39.72 2.41
3882 15955 1.470098 CCTGCTGTGAGGTTGCAATAC 59.530 52.381 0.59 0.00 36.22 1.89
3903 15976 2.487986 GCTTTCTCGGGATTCATGGGAT 60.488 50.000 0.00 0.00 0.00 3.85
4207 16313 7.148407 CGAAGCTTAAATTTCTCTCTGCCTTTA 60.148 37.037 0.00 0.00 0.00 1.85
4359 16470 7.878477 TTTGATTTGATTCAAGTTCATCTGC 57.122 32.000 12.26 0.00 36.97 4.26
5281 17742 5.175491 TCTCGCAATTGCAATTCTTTGTTTC 59.825 36.000 28.77 0.00 42.21 2.78
5571 18034 4.895297 GGATATGTTTGTGGGGTGAATGAT 59.105 41.667 0.00 0.00 0.00 2.45
5623 18086 2.141911 AGCTCCATTGGGATCCTTCAT 58.858 47.619 12.58 0.00 43.91 2.57
5972 18435 1.462616 TGGGAAAATGACTCCATGCG 58.537 50.000 0.00 0.00 34.34 4.73
6298 18766 6.727824 TGTAAGTGAAAGCAGAATCTTAGC 57.272 37.500 0.00 0.00 0.00 3.09
6640 19147 8.573885 CATACATCTCCTGCACAATAATTGAAT 58.426 33.333 0.00 0.00 0.00 2.57
6641 19148 7.774625 TCATACATCTCCTGCACAATAATTGAA 59.225 33.333 0.00 0.00 0.00 2.69
6992 19586 4.886579 ACCTGAAAAACATCCAAAGCATC 58.113 39.130 0.00 0.00 0.00 3.91
6997 19591 7.361628 GCAAAGAAAACCTGAAAAACATCCAAA 60.362 33.333 0.00 0.00 0.00 3.28
7252 19847 1.542915 CTGGAAGGAATGTGCAAGGTG 59.457 52.381 0.00 0.00 0.00 4.00
7345 19941 8.294577 GGTTTTATGAGGTGGTACTTTAAGTTG 58.705 37.037 1.94 0.00 0.00 3.16
8024 28270 3.640029 CTGCAATCATATCAGCCCCTTTT 59.360 43.478 0.00 0.00 0.00 2.27
8255 28523 2.292267 CCGCTAACCTCTTGCATTCAT 58.708 47.619 0.00 0.00 0.00 2.57
8520 28790 6.760770 GCTTGAGTATGCAAGAAGACTATCTT 59.239 38.462 8.18 0.00 46.31 2.40
8533 28803 7.916977 GTCAAATGATATTTGCTTGAGTATGCA 59.083 33.333 8.92 0.00 35.44 3.96
8761 29031 8.931775 TGCATGTTATAGTACTAATAATTGCGG 58.068 33.333 6.70 0.00 30.88 5.69
8784 29054 8.906867 CCTTTTCTCCTTTCTTATATTGATGCA 58.093 33.333 0.00 0.00 0.00 3.96
8785 29055 9.125026 TCCTTTTCTCCTTTCTTATATTGATGC 57.875 33.333 0.00 0.00 0.00 3.91
8863 29256 7.255070 CCTTTCTCCTTTCTTCTTTCTTGTCTG 60.255 40.741 0.00 0.00 0.00 3.51
8864 29257 6.770303 CCTTTCTCCTTTCTTCTTTCTTGTCT 59.230 38.462 0.00 0.00 0.00 3.41
8865 29258 6.768381 TCCTTTCTCCTTTCTTCTTTCTTGTC 59.232 38.462 0.00 0.00 0.00 3.18
8866 29259 6.663734 TCCTTTCTCCTTTCTTCTTTCTTGT 58.336 36.000 0.00 0.00 0.00 3.16
8867 29260 6.206438 CCTCCTTTCTCCTTTCTTCTTTCTTG 59.794 42.308 0.00 0.00 0.00 3.02
8893 29287 9.959721 TTTCAGAGGCTTTTAGATAGTGTTTAT 57.040 29.630 0.00 0.00 0.00 1.40
8995 29400 2.916640 CCTCTCTGGAAAGATTCAGCC 58.083 52.381 0.00 0.00 38.35 4.85
9007 29412 3.964031 ACACTATCTAAAGGCCTCTCTGG 59.036 47.826 5.23 0.00 39.35 3.86
9017 29422 9.522804 CTCTAGCCAAAGTTACACTATCTAAAG 57.477 37.037 0.00 0.00 0.00 1.85


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

AutoCloner maintained by Alex Coulton.