Multiple sequence alignment - TraesCS7D01G056000

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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 TraesCS7D01G056000 chr7D 100.000 5781 0 0 1 5781 29874279 29880059 0.000000e+00 10676
1 TraesCS7D01G056000 chr7D 82.684 693 77 22 4373 5044 28789533 28788863 5.020000e-160 575
2 TraesCS7D01G056000 chr7D 82.946 645 71 20 5053 5686 28817885 28817269 3.940000e-151 545
3 TraesCS7D01G056000 chr7D 90.358 363 31 3 4519 4879 28827118 28826758 1.890000e-129 473
4 TraesCS7D01G056000 chr7D 93.249 237 15 1 4312 4547 28819026 28818790 1.190000e-91 348
5 TraesCS7D01G056000 chr7D 92.746 193 13 1 5053 5245 28820253 28820062 1.590000e-70 278
6 TraesCS7D01G056000 chr7D 79.420 379 59 17 4680 5044 28823750 28823377 3.460000e-62 250
7 TraesCS7D01G056000 chr7D 85.714 168 23 1 1423 1589 733837 734004 5.950000e-40 176
8 TraesCS7D01G056000 chr7D 90.840 131 12 0 3642 3772 28820015 28819885 5.950000e-40 176
9 TraesCS7D01G056000 chr7A 94.840 3178 130 12 2175 5340 30138475 30141630 0.000000e+00 4929
10 TraesCS7D01G056000 chr7A 88.778 1711 108 35 3 1672 30136245 30137912 0.000000e+00 2019
11 TraesCS7D01G056000 chr7A 89.274 895 67 9 4094 4976 29243689 29242812 0.000000e+00 1094
12 TraesCS7D01G056000 chr7A 94.635 671 34 2 4215 4884 29260554 29259885 0.000000e+00 1038
13 TraesCS7D01G056000 chr7A 81.579 646 87 18 5056 5697 29237390 29236773 6.690000e-139 505
14 TraesCS7D01G056000 chr7A 90.051 392 26 7 1669 2060 30138044 30138422 4.020000e-136 496
15 TraesCS7D01G056000 chr7A 95.192 208 8 2 3923 4129 29260754 29260548 1.550000e-85 327
16 TraesCS7D01G056000 chr7A 92.188 192 15 0 5053 5244 29238028 29237837 7.380000e-69 272
17 TraesCS7D01G056000 chr7A 92.188 192 15 0 5053 5244 29259802 29259611 7.380000e-69 272
18 TraesCS7D01G056000 chr7A 89.697 165 17 0 3607 3771 29236775 29236611 1.630000e-50 211
19 TraesCS7D01G056000 chr7A 89.157 166 16 2 3607 3771 29258549 29258385 7.590000e-49 206
20 TraesCS7D01G056000 chr7A 96.330 109 4 0 3482 3590 29260857 29260749 4.600000e-41 180
21 TraesCS7D01G056000 chr7A 84.375 160 24 1 3354 3513 327304368 327304210 7.760000e-34 156
22 TraesCS7D01G056000 chr7A 93.671 79 5 0 5702 5780 30141654 30141732 1.020000e-22 119
23 TraesCS7D01G056000 chr4A 96.559 2354 71 6 2709 5054 699792525 699790174 0.000000e+00 3890
24 TraesCS7D01G056000 chr4A 87.134 1741 102 57 1 1672 699794649 699792962 0.000000e+00 1862
25 TraesCS7D01G056000 chr4A 87.500 712 66 10 5070 5776 699790292 699789599 0.000000e+00 800
26 TraesCS7D01G056000 chr4A 89.168 637 36 8 4232 4866 700962021 700962626 0.000000e+00 763
27 TraesCS7D01G056000 chr4A 91.842 380 25 5 1671 2050 699792900 699792527 5.130000e-145 525
28 TraesCS7D01G056000 chr4A 83.438 320 31 10 4527 4845 702574100 702573802 1.590000e-70 278
29 TraesCS7D01G056000 chr4A 89.372 207 18 3 5040 5244 700543515 700543719 2.070000e-64 257
30 TraesCS7D01G056000 chr4A 90.426 188 18 0 4305 4492 702574284 702574097 1.240000e-61 248
31 TraesCS7D01G056000 chr4A 90.426 188 18 0 4305 4492 702579095 702578908 1.240000e-61 248
32 TraesCS7D01G056000 chr4A 88.144 194 20 1 5054 5244 700663093 700663286 1.620000e-55 228
33 TraesCS7D01G056000 chr4A 88.554 166 19 0 3607 3772 700968150 700968315 9.820000e-48 202
34 TraesCS7D01G056000 chr4A 92.969 128 9 0 3642 3769 700663333 700663460 2.750000e-43 187
35 TraesCS7D01G056000 chr4A 88.732 142 15 1 3442 3582 702613325 702613184 7.700000e-39 172
36 TraesCS7D01G056000 chr4A 90.000 130 13 0 3642 3771 700543766 700543895 9.960000e-38 169
37 TraesCS7D01G056000 chr4A 77.744 328 24 12 1 304 699803835 699803533 7.760000e-34 156
38 TraesCS7D01G056000 chr4A 96.104 77 3 0 3607 3683 702572467 702572391 6.080000e-25 126
39 TraesCS7D01G056000 chr1B 88.473 668 66 3 1085 1751 54000167 53999510 0.000000e+00 797
40 TraesCS7D01G056000 chr1B 87.963 108 11 2 3192 3298 415226979 415227085 6.080000e-25 126
41 TraesCS7D01G056000 chrUn 79.572 607 109 11 4283 4879 82026760 82027361 2.490000e-113 420
42 TraesCS7D01G056000 chrUn 89.121 239 25 1 999 1237 231905162 231905399 4.380000e-76 296
43 TraesCS7D01G056000 chrUn 91.748 206 13 3 5040 5244 50236641 50236843 3.410000e-72 283
44 TraesCS7D01G056000 chrUn 90.260 154 15 0 3607 3760 477902472 477902625 9.820000e-48 202
45 TraesCS7D01G056000 chrUn 83.929 168 26 1 1423 1589 231905500 231905667 6.000000e-35 159
46 TraesCS7D01G056000 chr6B 85.818 275 34 5 1000 1271 456578456 456578184 2.640000e-73 287
47 TraesCS7D01G056000 chr6B 84.795 171 25 1 1423 1592 456578112 456577942 2.770000e-38 171
48 TraesCS7D01G056000 chr6B 93.478 92 4 2 2091 2182 135505683 135505594 1.010000e-27 135
49 TraesCS7D01G056000 chr6A 92.632 190 10 3 1871 2060 611099438 611099253 2.650000e-68 270
50 TraesCS7D01G056000 chr6A 94.656 131 7 0 2178 2308 611099195 611099065 2.730000e-48 204
51 TraesCS7D01G056000 chr6A 87.500 112 8 3 2090 2196 601226114 601226004 2.190000e-24 124
52 TraesCS7D01G056000 chr5B 88.152 211 22 3 1423 1631 522046244 522046035 1.240000e-61 248
53 TraesCS7D01G056000 chr5B 90.066 151 14 1 990 1140 561795084 561794935 1.640000e-45 195
54 TraesCS7D01G056000 chr2B 91.391 151 12 1 990 1140 102553014 102553163 7.590000e-49 206
55 TraesCS7D01G056000 chr2B 94.681 94 4 1 2090 2182 448376766 448376673 1.680000e-30 145
56 TraesCS7D01G056000 chr3D 93.333 135 9 0 1074 1208 203918101 203918235 3.530000e-47 200
57 TraesCS7D01G056000 chr3D 87.255 102 11 2 3198 3298 414906879 414906979 1.320000e-21 115
58 TraesCS7D01G056000 chr3D 86.275 102 12 2 3202 3302 1887680 1887580 6.120000e-20 110
59 TraesCS7D01G056000 chr4B 89.404 151 15 1 990 1140 610014895 610015044 7.650000e-44 189
60 TraesCS7D01G056000 chr4B 83.636 110 12 3 3202 3306 131353626 131353518 1.330000e-16 99
61 TraesCS7D01G056000 chr4B 85.000 100 12 2 1169 1265 610015041 610015140 1.330000e-16 99
62 TraesCS7D01G056000 chr3B 89.404 151 15 1 990 1140 604555177 604555028 7.650000e-44 189
63 TraesCS7D01G056000 chr3B 91.089 101 9 0 3198 3298 540729669 540729769 2.810000e-28 137
64 TraesCS7D01G056000 chr3B 85.567 97 11 2 1172 1265 604555028 604554932 1.330000e-16 99
65 TraesCS7D01G056000 chr5D 85.621 153 22 0 3354 3506 356985300 356985148 1.670000e-35 161
66 TraesCS7D01G056000 chr1A 93.684 95 2 1 2091 2181 530756666 530756572 7.810000e-29 139
67 TraesCS7D01G056000 chr1A 89.815 108 9 2 3192 3298 385895948 385896054 2.810000e-28 137
68 TraesCS7D01G056000 chr2A 93.617 94 2 1 2093 2182 483604566 483604659 2.810000e-28 137
69 TraesCS7D01G056000 chr2A 93.684 95 1 3 2098 2188 617636118 617636025 2.810000e-28 137
70 TraesCS7D01G056000 chr2A 87.755 98 9 3 3202 3298 224917763 224917668 1.700000e-20 111
71 TraesCS7D01G056000 chr7B 91.176 102 4 2 2096 2193 639796285 639796185 3.630000e-27 134
72 TraesCS7D01G056000 chr7B 86.458 96 11 1 1172 1265 673853523 673853428 2.850000e-18 104
73 TraesCS7D01G056000 chr4D 87.931 116 8 3 2086 2197 303079354 303079241 1.310000e-26 132
74 TraesCS7D01G056000 chr2D 89.623 106 6 4 2083 2186 594456995 594457097 4.700000e-26 130
75 TraesCS7D01G056000 chr1D 89.796 98 10 0 3201 3298 31154862 31154765 6.080000e-25 126


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 TraesCS7D01G056000 chr7D 29874279 29880059 5780 False 10676.000000 10676 100.000000 1 5781 1 chr7D.!!$F2 5780
1 TraesCS7D01G056000 chr7D 28788863 28789533 670 True 575.000000 575 82.684000 4373 5044 1 chr7D.!!$R1 671
2 TraesCS7D01G056000 chr7D 28817269 28827118 9849 True 345.000000 545 88.259833 3642 5686 6 chr7D.!!$R2 2044
3 TraesCS7D01G056000 chr7A 30136245 30141732 5487 False 1890.750000 4929 91.835000 3 5780 4 chr7A.!!$F1 5777
4 TraesCS7D01G056000 chr7A 29242812 29243689 877 True 1094.000000 1094 89.274000 4094 4976 1 chr7A.!!$R1 882
5 TraesCS7D01G056000 chr7A 29258385 29260857 2472 True 404.600000 1038 93.500400 3482 5244 5 chr7A.!!$R4 1762
6 TraesCS7D01G056000 chr7A 29236611 29238028 1417 True 329.333333 505 87.821333 3607 5697 3 chr7A.!!$R3 2090
7 TraesCS7D01G056000 chr4A 699789599 699794649 5050 True 1769.250000 3890 90.758750 1 5776 4 chr4A.!!$R4 5775
8 TraesCS7D01G056000 chr4A 700962021 700962626 605 False 763.000000 763 89.168000 4232 4866 1 chr4A.!!$F1 634
9 TraesCS7D01G056000 chr4A 702572391 702574284 1893 True 217.333333 278 89.989333 3607 4845 3 chr4A.!!$R5 1238
10 TraesCS7D01G056000 chr1B 53999510 54000167 657 True 797.000000 797 88.473000 1085 1751 1 chr1B.!!$R1 666
11 TraesCS7D01G056000 chrUn 82026760 82027361 601 False 420.000000 420 79.572000 4283 4879 1 chrUn.!!$F2 596
12 TraesCS7D01G056000 chrUn 231905162 231905667 505 False 227.500000 296 86.525000 999 1589 2 chrUn.!!$F4 590
13 TraesCS7D01G056000 chr6B 456577942 456578456 514 True 229.000000 287 85.306500 1000 1592 2 chr6B.!!$R2 592

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
291 321 0.106868 TTGGCTCCATCATCAGGCAG 60.107 55.0 0.0 0.0 45.13 4.85 F
303 333 0.250901 TCAGGCAGCCAGAAGAAACC 60.251 55.0 15.8 0.0 0.00 3.27 F
1553 1669 0.447801 ATTGACGCTGTCGAATTGCC 59.552 50.0 0.0 0.0 39.41 4.52 F
1708 1959 0.466372 TGGTTTGGTGAATGCGGTGA 60.466 50.0 0.0 0.0 0.00 4.02 F
2304 2573 0.801872 TTCGGATGTTTGTCGCCATG 59.198 50.0 0.0 0.0 0.00 3.66 F
4034 7498 0.179234 TGTTTGGCGGTCACTGAAGA 59.821 50.0 0.0 0.0 0.00 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1811 2062 0.396811 ACAGGTCAGCTGTAACACCC 59.603 55.000 8.02 5.51 32.69 4.61 R
1812 2063 2.143925 GAACAGGTCAGCTGTAACACC 58.856 52.381 10.60 13.82 34.25 4.16 R
2820 3090 2.810439 TTGGGAAAAACCATGAAGCG 57.190 45.000 0.00 0.00 40.91 4.68 R
3271 3542 6.445139 ACTCCCTCCGATCCATATTAATTGAT 59.555 38.462 0.00 0.00 0.00 2.57 R
4123 7587 2.072298 CGAGCTTCCCACTCTTTGAAG 58.928 52.381 0.00 0.00 38.77 3.02 R
5607 11112 0.516877 TTCCGAAGCTGCAATGTTCG 59.483 50.000 14.66 14.66 42.13 3.95 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
59 60 6.647212 TGAATAACACGAATGACAGATGAC 57.353 37.500 0.00 0.00 0.00 3.06
89 91 4.995487 GGTCGGGACATTTATCACCTAATC 59.005 45.833 0.75 0.00 0.00 1.75
97 99 7.721399 GGACATTTATCACCTAATCCTGAACAT 59.279 37.037 0.00 0.00 0.00 2.71
130 132 0.395586 ACTGCTCCCACAAAACAGCA 60.396 50.000 0.00 0.00 39.58 4.41
146 157 1.196808 CAGCACGCCGACAAAATAACT 59.803 47.619 0.00 0.00 0.00 2.24
147 158 2.413796 CAGCACGCCGACAAAATAACTA 59.586 45.455 0.00 0.00 0.00 2.24
148 159 3.068560 AGCACGCCGACAAAATAACTAA 58.931 40.909 0.00 0.00 0.00 2.24
171 195 1.564348 GAGGTTCCCCAATGCTCCTAA 59.436 52.381 0.00 0.00 0.00 2.69
176 200 1.494721 TCCCCAATGCTCCTAATGGTC 59.505 52.381 0.00 0.00 34.23 4.02
195 219 4.832266 TGGTCACTGAATTTTAGCCATTGT 59.168 37.500 0.00 0.00 0.00 2.71
201 225 8.726988 TCACTGAATTTTAGCCATTGTTACTAC 58.273 33.333 0.00 0.00 0.00 2.73
202 226 8.730680 CACTGAATTTTAGCCATTGTTACTACT 58.269 33.333 0.00 0.00 0.00 2.57
215 239 7.438459 CCATTGTTACTACTAGACAGCCATAAC 59.562 40.741 0.00 0.05 0.00 1.89
258 283 0.112218 TCCATCCAAACACCCACTGG 59.888 55.000 0.00 0.00 37.80 4.00
264 289 2.443632 TCCAAACACCCACTGGTTATCA 59.556 45.455 0.00 0.00 44.75 2.15
267 292 0.321298 ACACCCACTGGTTATCACGC 60.321 55.000 0.00 0.00 44.75 5.34
271 296 0.673333 CCACTGGTTATCACGCTGCA 60.673 55.000 0.00 0.00 0.00 4.41
275 305 1.064505 CTGGTTATCACGCTGCATTGG 59.935 52.381 0.00 0.00 0.00 3.16
290 320 0.554305 ATTGGCTCCATCATCAGGCA 59.446 50.000 0.00 0.00 43.04 4.75
291 321 0.106868 TTGGCTCCATCATCAGGCAG 60.107 55.000 0.00 0.00 45.13 4.85
292 322 1.897615 GGCTCCATCATCAGGCAGC 60.898 63.158 0.00 0.00 35.29 5.25
293 323 1.897615 GCTCCATCATCAGGCAGCC 60.898 63.158 1.84 1.84 0.00 4.85
294 324 1.530283 CTCCATCATCAGGCAGCCA 59.470 57.895 15.80 0.00 0.00 4.75
295 325 0.535328 CTCCATCATCAGGCAGCCAG 60.535 60.000 15.80 5.66 0.00 4.85
296 326 0.984432 TCCATCATCAGGCAGCCAGA 60.984 55.000 15.80 12.46 0.00 3.86
297 327 0.106868 CCATCATCAGGCAGCCAGAA 60.107 55.000 15.80 0.00 0.00 3.02
298 328 1.309950 CATCATCAGGCAGCCAGAAG 58.690 55.000 15.80 8.66 0.00 2.85
299 329 1.134189 CATCATCAGGCAGCCAGAAGA 60.134 52.381 15.80 14.51 0.00 2.87
300 330 0.986527 TCATCAGGCAGCCAGAAGAA 59.013 50.000 15.80 0.00 0.00 2.52
301 331 1.352017 TCATCAGGCAGCCAGAAGAAA 59.648 47.619 15.80 0.00 0.00 2.52
303 333 0.250901 TCAGGCAGCCAGAAGAAACC 60.251 55.000 15.80 0.00 0.00 3.27
304 334 0.538057 CAGGCAGCCAGAAGAAACCA 60.538 55.000 15.80 0.00 0.00 3.67
306 336 0.529378 GGCAGCCAGAAGAAACCATG 59.471 55.000 6.55 0.00 0.00 3.66
307 337 1.538047 GCAGCCAGAAGAAACCATGA 58.462 50.000 0.00 0.00 0.00 3.07
308 338 1.888512 GCAGCCAGAAGAAACCATGAA 59.111 47.619 0.00 0.00 0.00 2.57
309 339 2.297033 GCAGCCAGAAGAAACCATGAAA 59.703 45.455 0.00 0.00 0.00 2.69
314 344 4.021192 GCCAGAAGAAACCATGAAATCCAA 60.021 41.667 0.00 0.00 0.00 3.53
322 352 5.796424 AACCATGAAATCCAATATCCAGC 57.204 39.130 0.00 0.00 0.00 4.85
328 358 4.096231 TGAAATCCAATATCCAGCGTGTTG 59.904 41.667 0.00 0.00 0.00 3.33
363 403 1.002624 ACATCACCGAAATGGGCGT 60.003 52.632 0.00 0.00 44.64 5.68
381 421 2.105128 GGAGATCGACCGTGGCTG 59.895 66.667 0.00 0.00 0.00 4.85
384 424 4.148825 GATCGACCGTGGCTGGCT 62.149 66.667 2.00 0.00 0.00 4.75
385 425 4.457496 ATCGACCGTGGCTGGCTG 62.457 66.667 2.00 0.00 0.00 4.85
394 434 1.270550 CGTGGCTGGCTGAAAGAAATT 59.729 47.619 2.00 0.00 34.07 1.82
441 481 4.847444 GGCGGAAGAGGAGCAGCC 62.847 72.222 0.00 0.00 37.61 4.85
794 847 1.066587 GGGTCATCGCCGAGAGAAG 59.933 63.158 0.00 0.00 0.00 2.85
924 981 2.283529 CGGAGTGGTGGCTAGTGGT 61.284 63.158 0.00 0.00 0.00 4.16
1251 1320 0.825840 CTCCCCTCCTGATCTCGTCC 60.826 65.000 0.00 0.00 0.00 4.79
1265 1334 0.926155 TCGTCCGTAGTCTCGATTCG 59.074 55.000 0.00 0.00 0.00 3.34
1294 1366 2.512515 GTGATGCCCTCCGCTGTC 60.513 66.667 0.00 0.00 38.78 3.51
1390 1479 1.595093 GCAGTGTGCCATGGGTTACC 61.595 60.000 15.13 0.00 37.42 2.85
1397 1486 1.064758 TGCCATGGGTTACCTGTCATC 60.065 52.381 15.13 0.00 37.76 2.92
1553 1669 0.447801 ATTGACGCTGTCGAATTGCC 59.552 50.000 0.00 0.00 39.41 4.52
1628 1744 4.721776 TCTAGGTGTCCTCCATTTATGCTT 59.278 41.667 0.00 0.00 34.61 3.91
1708 1959 0.466372 TGGTTTGGTGAATGCGGTGA 60.466 50.000 0.00 0.00 0.00 4.02
1724 1975 0.811616 GTGAAGGCTGCTGGGATACG 60.812 60.000 0.00 0.00 37.60 3.06
1812 2063 2.907910 CTGAAAGCCTGTCATTTCGG 57.092 50.000 0.00 0.00 38.08 4.30
1838 2089 1.085091 CAGCTGACCTGTTCATCTGC 58.915 55.000 8.42 0.00 40.63 4.26
1914 2165 4.501400 GCTTCTCTCTGCCTATTCCTCTTC 60.501 50.000 0.00 0.00 0.00 2.87
1929 2180 3.323979 TCCTCTTCACACAGTTAGGTTCC 59.676 47.826 0.00 0.00 0.00 3.62
1931 2182 4.310769 CTCTTCACACAGTTAGGTTCCTG 58.689 47.826 1.12 0.00 34.82 3.86
1997 2248 5.618236 TCTTCTATTGGATGCCTCATTCTG 58.382 41.667 0.00 0.00 0.00 3.02
2042 2293 5.250200 TCTGTTACCTGTTGACTGTTGTTT 58.750 37.500 0.00 0.00 0.00 2.83
2077 2346 1.465777 TGACATCATCGCAAGTTGCTG 59.534 47.619 24.61 17.09 42.25 4.41
2087 2356 2.605338 CGCAAGTTGCTGTGCTTGTATT 60.605 45.455 24.61 0.00 42.25 1.89
2088 2357 3.383761 GCAAGTTGCTGTGCTTGTATTT 58.616 40.909 20.71 0.00 42.76 1.40
2090 2359 5.163513 GCAAGTTGCTGTGCTTGTATTTAT 58.836 37.500 20.71 0.00 42.76 1.40
2091 2360 6.321717 GCAAGTTGCTGTGCTTGTATTTATA 58.678 36.000 20.71 0.00 42.76 0.98
2094 2363 9.357652 CAAGTTGCTGTGCTTGTATTTATATTT 57.642 29.630 0.00 0.00 37.78 1.40
2124 2393 8.425703 ACTCCCTCTGTAAAGAAATATAAGAGC 58.574 37.037 0.00 0.00 0.00 4.09
2125 2394 7.434492 TCCCTCTGTAAAGAAATATAAGAGCG 58.566 38.462 0.00 0.00 0.00 5.03
2126 2395 7.069578 TCCCTCTGTAAAGAAATATAAGAGCGT 59.930 37.037 0.00 0.00 0.00 5.07
2127 2396 7.711339 CCCTCTGTAAAGAAATATAAGAGCGTT 59.289 37.037 0.00 0.00 0.00 4.84
2128 2397 9.099454 CCTCTGTAAAGAAATATAAGAGCGTTT 57.901 33.333 0.00 0.00 0.00 3.60
2157 2426 9.988815 ATCATTTAGTGATCTAAACGCTCTTAT 57.011 29.630 0.00 0.00 44.23 1.73
2170 2439 9.241317 CTAAACGCTCTTATATTTCTTTACGGA 57.759 33.333 0.00 0.00 0.00 4.69
2172 2441 6.214399 ACGCTCTTATATTTCTTTACGGAGG 58.786 40.000 0.00 0.00 0.00 4.30
2195 2464 8.783660 AGGGAGTATCATAGTAATCTTTGTCA 57.216 34.615 0.00 0.00 36.25 3.58
2304 2573 0.801872 TTCGGATGTTTGTCGCCATG 59.198 50.000 0.00 0.00 0.00 3.66
2322 2591 6.529829 TCGCCATGTTTGCTTTGTAAATAATC 59.470 34.615 0.00 0.00 0.00 1.75
2383 2653 6.758886 CCATACTCAGTGTGAACCTTTCTATC 59.241 42.308 2.50 0.00 0.00 2.08
2450 2720 5.283457 AGATAACTGTCTAACTGGGCATC 57.717 43.478 0.00 0.00 0.00 3.91
2466 2736 2.354199 GGCATCTGACTTTTCTAGCAGC 59.646 50.000 0.00 0.00 31.88 5.25
2528 2798 4.870123 ATGTTTCAGCTGCATGGTTTTA 57.130 36.364 9.47 0.00 0.00 1.52
2656 2926 2.290323 ACCTGGAGCTGTAATTGTCCAC 60.290 50.000 0.00 0.00 35.22 4.02
2657 2927 2.026822 CCTGGAGCTGTAATTGTCCACT 60.027 50.000 0.00 0.00 35.22 4.00
2771 3041 3.199727 TGGTCTGTTAGATGCTTGCCATA 59.800 43.478 0.00 0.00 33.29 2.74
2820 3090 5.899120 TGACATCTGACTGTAGTACTTCC 57.101 43.478 0.00 0.00 0.00 3.46
2846 3117 3.645212 TCATGGTTTTTCCCAATGCTTCA 59.355 39.130 0.00 0.00 38.20 3.02
2855 3126 5.887214 TTCCCAATGCTTCATACTAGCTA 57.113 39.130 0.00 0.00 39.38 3.32
2857 3128 5.147767 TCCCAATGCTTCATACTAGCTAGA 58.852 41.667 27.45 11.19 39.38 2.43
3062 3333 2.094182 TCTTAGTTTACCTGGAGCAGCG 60.094 50.000 0.00 0.00 0.00 5.18
3242 3513 7.757097 ATTAATTGACGCTCACTTAGTACAG 57.243 36.000 0.00 0.00 0.00 2.74
3271 3542 5.556006 ACTAAAGTTGTACTAAGTGGGCA 57.444 39.130 0.00 0.00 0.00 5.36
3362 3633 1.429930 TCTGCTTGTGGTGGTCCTTA 58.570 50.000 0.00 0.00 34.23 2.69
3850 7313 1.609061 CGTGTTGCTCCTGATTGGACT 60.609 52.381 0.00 0.00 40.56 3.85
3891 7354 3.386402 TCCATATACGTTGATGCTGGACA 59.614 43.478 0.00 0.00 0.00 4.02
4034 7498 0.179234 TGTTTGGCGGTCACTGAAGA 59.821 50.000 0.00 0.00 0.00 2.87
4090 7554 6.003326 TCTTAACATGATTCAGGTTCTTGCA 58.997 36.000 18.96 0.07 39.15 4.08
4146 7610 1.275291 CAAAGAGTGGGAAGCTCGGTA 59.725 52.381 0.00 0.00 37.99 4.02
4369 8664 1.678101 GGTATGCTTGACAAGGCCATC 59.322 52.381 16.80 0.00 0.00 3.51
4438 8733 2.678336 GACGTGGGAGATTTTCATGGAC 59.322 50.000 0.00 0.00 0.00 4.02
4447 8742 6.043243 GGGAGATTTTCATGGACCACTATCTA 59.957 42.308 0.00 0.00 0.00 1.98
4453 8748 5.614324 TCATGGACCACTATCTAAAGGTG 57.386 43.478 0.00 0.00 33.77 4.00
4784 9088 7.011389 TCGATTCCATCTGTGTTGATTGATTAC 59.989 37.037 0.00 0.00 0.00 1.89
4979 9944 0.685097 TTCTGTGGTACTGTGGCCTC 59.315 55.000 3.32 0.00 0.00 4.70
4980 9945 0.471022 TCTGTGGTACTGTGGCCTCA 60.471 55.000 3.32 5.63 0.00 3.86
5103 10577 3.111098 CTCTGCTTTTCAGTTGTGTTGC 58.889 45.455 0.00 0.00 43.32 4.17
5104 10578 2.491298 TCTGCTTTTCAGTTGTGTTGCA 59.509 40.909 0.00 0.00 43.32 4.08
5115 10589 1.473258 TGTGTTGCAGCCTTGTCTTT 58.527 45.000 0.00 0.00 0.00 2.52
5173 10651 8.445193 TTGAAACAAAAATTGAATTTGTGTGC 57.555 26.923 23.02 18.45 46.99 4.57
5238 10716 7.201679 GCTGTGATGAATGAATACTTTGCTACT 60.202 37.037 0.00 0.00 0.00 2.57
5239 10717 8.201554 TGTGATGAATGAATACTTTGCTACTC 57.798 34.615 0.00 0.00 0.00 2.59
5240 10718 8.043113 TGTGATGAATGAATACTTTGCTACTCT 58.957 33.333 0.00 0.00 0.00 3.24
5241 10719 8.333908 GTGATGAATGAATACTTTGCTACTCTG 58.666 37.037 0.00 0.00 0.00 3.35
5242 10720 8.260114 TGATGAATGAATACTTTGCTACTCTGA 58.740 33.333 0.00 0.00 0.00 3.27
5243 10721 9.102757 GATGAATGAATACTTTGCTACTCTGAA 57.897 33.333 0.00 0.00 0.00 3.02
5244 10722 8.846943 TGAATGAATACTTTGCTACTCTGAAA 57.153 30.769 0.00 0.00 0.00 2.69
5245 10723 8.939929 TGAATGAATACTTTGCTACTCTGAAAG 58.060 33.333 0.00 0.00 33.69 2.62
5323 10802 2.920490 GAGACTCTGAATGCGTCTGAAC 59.080 50.000 2.44 0.00 40.44 3.18
5377 10869 2.549064 AAGCAAAATTGGCACTTCCC 57.451 45.000 0.00 0.00 0.00 3.97
5392 10884 1.134946 CTTCCCGGAAATCATTGTGCC 59.865 52.381 0.73 0.00 0.00 5.01
5416 10908 4.455533 CCTCGTGGAAATCATTGTTTCTCA 59.544 41.667 0.00 5.79 38.02 3.27
5417 10909 5.124457 CCTCGTGGAAATCATTGTTTCTCAT 59.876 40.000 0.00 0.00 38.02 2.90
5424 10916 6.349280 GGAAATCATTGTTTCTCATCCGTCAA 60.349 38.462 9.82 0.00 38.02 3.18
5454 10949 9.411801 CTTTGCTAACTATTGAGCGATTATCTA 57.588 33.333 0.00 0.00 41.83 1.98
5469 10964 1.169577 ATCTACGATAGGGCTGCTCG 58.830 55.000 7.37 7.37 43.77 5.03
5502 10997 6.151817 GGTGAAGGAGATGCTTAAAACTCATT 59.848 38.462 0.00 0.00 36.39 2.57
5506 11001 6.963322 AGGAGATGCTTAAAACTCATTAGGT 58.037 36.000 0.00 0.00 0.00 3.08
5575 11073 5.995565 ATTTTAGTTAAGGAAGGTTGCCC 57.004 39.130 0.00 0.00 0.00 5.36
5584 11082 0.966179 GAAGGTTGCCCGAATGGTTT 59.034 50.000 0.00 0.00 36.04 3.27
5595 11093 4.460263 CCCGAATGGTTTCATATCCTTCA 58.540 43.478 0.00 0.00 32.44 3.02
5762 11273 4.111375 AGAAGCTGTATACCTTGTCACG 57.889 45.455 0.00 0.00 0.00 4.35
5780 11291 2.094906 CACGGAGATTACAAGTGGACGA 60.095 50.000 0.00 0.00 0.00 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
59 60 2.521958 AAATGTCCCGACCAGCTCCG 62.522 60.000 0.00 0.00 0.00 4.63
89 91 5.586243 AGTTTGTCGGAATATGATGTTCAGG 59.414 40.000 4.34 0.00 0.00 3.86
97 99 3.531538 GGAGCAGTTTGTCGGAATATGA 58.468 45.455 0.00 0.00 0.00 2.15
130 132 4.309099 TCTGTTAGTTATTTTGTCGGCGT 58.691 39.130 6.85 0.00 0.00 5.68
171 195 5.481473 ACAATGGCTAAAATTCAGTGACCAT 59.519 36.000 3.88 3.88 38.27 3.55
176 200 8.730680 AGTAGTAACAATGGCTAAAATTCAGTG 58.269 33.333 0.00 0.00 33.43 3.66
201 225 8.783833 ATGCTAATTATGTTATGGCTGTCTAG 57.216 34.615 0.00 0.00 0.00 2.43
202 226 9.573166 AAATGCTAATTATGTTATGGCTGTCTA 57.427 29.630 0.00 0.00 0.00 2.59
215 239 9.635520 GGAATCAATGGAGAAATGCTAATTATG 57.364 33.333 0.00 0.00 0.00 1.90
258 283 0.734889 AGCCAATGCAGCGTGATAAC 59.265 50.000 0.00 0.00 41.13 1.89
264 289 2.044650 ATGGAGCCAATGCAGCGT 60.045 55.556 0.00 0.00 41.13 5.07
267 292 1.609072 CTGATGATGGAGCCAATGCAG 59.391 52.381 0.00 0.00 41.13 4.41
271 296 0.554305 TGCCTGATGATGGAGCCAAT 59.446 50.000 0.00 0.00 0.00 3.16
275 305 1.897615 GGCTGCCTGATGATGGAGC 60.898 63.158 12.43 0.00 0.00 4.70
290 320 3.766051 GGATTTCATGGTTTCTTCTGGCT 59.234 43.478 0.00 0.00 0.00 4.75
291 321 3.511146 TGGATTTCATGGTTTCTTCTGGC 59.489 43.478 0.00 0.00 0.00 4.85
292 322 5.726980 TTGGATTTCATGGTTTCTTCTGG 57.273 39.130 0.00 0.00 0.00 3.86
293 323 8.139989 GGATATTGGATTTCATGGTTTCTTCTG 58.860 37.037 0.00 0.00 0.00 3.02
294 324 7.840716 TGGATATTGGATTTCATGGTTTCTTCT 59.159 33.333 0.00 0.00 0.00 2.85
295 325 8.010733 TGGATATTGGATTTCATGGTTTCTTC 57.989 34.615 0.00 0.00 0.00 2.87
296 326 7.418254 GCTGGATATTGGATTTCATGGTTTCTT 60.418 37.037 0.00 0.00 0.00 2.52
297 327 6.041296 GCTGGATATTGGATTTCATGGTTTCT 59.959 38.462 0.00 0.00 0.00 2.52
298 328 6.218746 GCTGGATATTGGATTTCATGGTTTC 58.781 40.000 0.00 0.00 0.00 2.78
299 329 5.221303 CGCTGGATATTGGATTTCATGGTTT 60.221 40.000 0.00 0.00 0.00 3.27
300 330 4.279169 CGCTGGATATTGGATTTCATGGTT 59.721 41.667 0.00 0.00 0.00 3.67
301 331 3.822735 CGCTGGATATTGGATTTCATGGT 59.177 43.478 0.00 0.00 0.00 3.55
303 333 4.276678 ACACGCTGGATATTGGATTTCATG 59.723 41.667 0.00 0.00 0.00 3.07
304 334 4.464008 ACACGCTGGATATTGGATTTCAT 58.536 39.130 0.00 0.00 0.00 2.57
306 336 4.096382 ACAACACGCTGGATATTGGATTTC 59.904 41.667 0.00 0.00 0.00 2.17
307 337 4.016444 ACAACACGCTGGATATTGGATTT 58.984 39.130 0.00 0.00 0.00 2.17
308 338 3.620488 ACAACACGCTGGATATTGGATT 58.380 40.909 0.00 0.00 0.00 3.01
309 339 3.206150 GACAACACGCTGGATATTGGAT 58.794 45.455 0.00 0.00 0.00 3.41
328 358 4.451150 TGATCCACCCAGCGCGAC 62.451 66.667 12.10 0.04 0.00 5.19
334 373 3.483954 GGTGATGTGATCCACCCAG 57.516 57.895 7.45 0.00 45.30 4.45
363 403 2.362503 AGCCACGGTCGATCTCCA 60.363 61.111 0.00 0.00 0.00 3.86
381 421 5.010282 TCTCCAAGGTAATTTCTTTCAGCC 58.990 41.667 0.00 0.00 0.00 4.85
384 424 5.880332 CCGATCTCCAAGGTAATTTCTTTCA 59.120 40.000 0.00 0.00 0.00 2.69
385 425 5.297029 CCCGATCTCCAAGGTAATTTCTTTC 59.703 44.000 0.00 0.00 0.00 2.62
394 434 1.717032 CATCCCCGATCTCCAAGGTA 58.283 55.000 0.00 0.00 0.00 3.08
794 847 0.803117 GGTAAGAAGAAGGCGTTGGC 59.197 55.000 0.00 0.00 38.90 4.52
1241 1310 1.135721 TCGAGACTACGGACGAGATCA 59.864 52.381 0.00 0.00 0.00 2.92
1251 1320 1.328069 AGAGCACGAATCGAGACTACG 59.672 52.381 10.55 0.00 0.00 3.51
1265 1334 2.459442 GCATCACGGAGCAGAGCAC 61.459 63.158 0.00 0.00 0.00 4.40
1294 1366 2.222213 CCGTCAGATCTAGTCTACTGCG 59.778 54.545 0.00 0.00 34.69 5.18
1299 1371 1.140452 ACCGCCGTCAGATCTAGTCTA 59.860 52.381 0.00 0.00 34.69 2.59
1390 1479 5.583854 ACAAATCTCGATCTTTGGATGACAG 59.416 40.000 18.53 0.08 36.81 3.51
1397 1486 4.161333 GCAACACAAATCTCGATCTTTGG 58.839 43.478 18.53 12.27 36.81 3.28
1553 1669 6.366061 TCAGACACTTATCATTGTTTCACTCG 59.634 38.462 0.00 0.00 0.00 4.18
1628 1744 0.399949 ACAACACTGGACAGAGGGGA 60.400 55.000 6.29 0.00 0.00 4.81
1708 1959 2.911143 CCGTATCCCAGCAGCCTT 59.089 61.111 0.00 0.00 0.00 4.35
1724 1975 3.286751 TGCGAGCCAACAGTTGCC 61.287 61.111 7.88 0.00 0.00 4.52
1736 1987 0.738389 AACCAACCAAAGTGTGCGAG 59.262 50.000 0.00 0.00 0.00 5.03
1811 2062 0.396811 ACAGGTCAGCTGTAACACCC 59.603 55.000 8.02 5.51 32.69 4.61
1812 2063 2.143925 GAACAGGTCAGCTGTAACACC 58.856 52.381 10.60 13.82 34.25 4.16
1869 2120 7.329588 AGCTAAAGGTAATTCATAAAACCGG 57.670 36.000 0.00 0.00 37.09 5.28
1914 2165 2.368875 AGACCAGGAACCTAACTGTGTG 59.631 50.000 0.00 0.00 32.90 3.82
1929 2180 4.321230 GCCAAGACAAAACCATAAGACCAG 60.321 45.833 0.00 0.00 0.00 4.00
1931 2182 3.572255 TGCCAAGACAAAACCATAAGACC 59.428 43.478 0.00 0.00 0.00 3.85
1972 2223 6.205076 CAGAATGAGGCATCCAATAGAAGAAG 59.795 42.308 0.00 0.00 39.69 2.85
1973 2224 6.060136 CAGAATGAGGCATCCAATAGAAGAA 58.940 40.000 0.00 0.00 39.69 2.52
1974 2225 5.367644 TCAGAATGAGGCATCCAATAGAAGA 59.632 40.000 0.00 0.00 42.56 2.87
1975 2226 5.618236 TCAGAATGAGGCATCCAATAGAAG 58.382 41.667 0.00 0.00 42.56 2.85
1997 2248 4.367386 GCATATGAGGCCATGCTTATTC 57.633 45.455 16.47 0.00 43.38 1.75
2099 2368 7.596995 CGCTCTTATATTTCTTTACAGAGGGAG 59.403 40.741 4.76 0.00 40.49 4.30
2100 2369 7.069578 ACGCTCTTATATTTCTTTACAGAGGGA 59.930 37.037 14.96 0.00 40.49 4.20
2101 2370 7.210873 ACGCTCTTATATTTCTTTACAGAGGG 58.789 38.462 8.36 8.36 42.53 4.30
2102 2371 8.649973 AACGCTCTTATATTTCTTTACAGAGG 57.350 34.615 0.00 0.00 0.00 3.69
2117 2386 9.988815 ATCACTAAATGATCTAAACGCTCTTAT 57.011 29.630 0.00 0.00 45.52 1.73
2144 2413 9.241317 TCCGTAAAGAAATATAAGAGCGTTTAG 57.759 33.333 0.00 0.00 0.00 1.85
2145 2414 9.241317 CTCCGTAAAGAAATATAAGAGCGTTTA 57.759 33.333 0.00 0.00 0.00 2.01
2146 2415 7.224167 CCTCCGTAAAGAAATATAAGAGCGTTT 59.776 37.037 0.00 0.00 0.00 3.60
2147 2416 6.700520 CCTCCGTAAAGAAATATAAGAGCGTT 59.299 38.462 0.00 0.00 0.00 4.84
2150 2419 6.756221 TCCCTCCGTAAAGAAATATAAGAGC 58.244 40.000 0.00 0.00 0.00 4.09
2151 2420 7.953752 ACTCCCTCCGTAAAGAAATATAAGAG 58.046 38.462 0.00 0.00 0.00 2.85
2152 2421 7.909485 ACTCCCTCCGTAAAGAAATATAAGA 57.091 36.000 0.00 0.00 0.00 2.10
2153 2422 9.857957 GATACTCCCTCCGTAAAGAAATATAAG 57.142 37.037 0.00 0.00 0.00 1.73
2154 2423 9.370930 TGATACTCCCTCCGTAAAGAAATATAA 57.629 33.333 0.00 0.00 0.00 0.98
2155 2424 8.945195 TGATACTCCCTCCGTAAAGAAATATA 57.055 34.615 0.00 0.00 0.00 0.86
2157 2426 7.850935 ATGATACTCCCTCCGTAAAGAAATA 57.149 36.000 0.00 0.00 0.00 1.40
2159 2428 6.837568 ACTATGATACTCCCTCCGTAAAGAAA 59.162 38.462 0.00 0.00 0.00 2.52
2160 2429 6.371278 ACTATGATACTCCCTCCGTAAAGAA 58.629 40.000 0.00 0.00 0.00 2.52
2161 2430 5.950023 ACTATGATACTCCCTCCGTAAAGA 58.050 41.667 0.00 0.00 0.00 2.52
2163 2432 8.168725 AGATTACTATGATACTCCCTCCGTAAA 58.831 37.037 0.00 0.00 0.00 2.01
2164 2433 7.696981 AGATTACTATGATACTCCCTCCGTAA 58.303 38.462 0.00 0.00 0.00 3.18
2165 2434 7.268212 AGATTACTATGATACTCCCTCCGTA 57.732 40.000 0.00 0.00 0.00 4.02
2168 2437 8.196378 ACAAAGATTACTATGATACTCCCTCC 57.804 38.462 0.00 0.00 0.00 4.30
2170 2439 8.783660 TGACAAAGATTACTATGATACTCCCT 57.216 34.615 0.00 0.00 0.00 4.20
2172 2441 9.906660 CTCTGACAAAGATTACTATGATACTCC 57.093 37.037 0.00 0.00 33.29 3.85
2195 2464 7.389053 CCTGTGAAAAGATACTAAGCAAACTCT 59.611 37.037 0.00 0.00 0.00 3.24
2330 2599 8.922058 AAGCACATTTAAAAGCATTAGATCAG 57.078 30.769 11.57 0.00 0.00 2.90
2331 2600 9.709495 AAAAGCACATTTAAAAGCATTAGATCA 57.291 25.926 11.57 0.00 0.00 2.92
2334 2603 8.147058 TGGAAAAGCACATTTAAAAGCATTAGA 58.853 29.630 11.57 0.00 0.00 2.10
2450 2720 4.560128 TGTAGTGCTGCTAGAAAAGTCAG 58.440 43.478 0.00 0.00 34.42 3.51
2528 2798 7.626452 GCAAGCCAAAGAATAGATAAGTCGTTT 60.626 37.037 0.00 0.00 0.00 3.60
2656 2926 9.750125 TTATGTTATGTAGCAGTGTAGATTGAG 57.250 33.333 0.00 0.00 0.00 3.02
2657 2927 9.529325 GTTATGTTATGTAGCAGTGTAGATTGA 57.471 33.333 0.00 0.00 0.00 2.57
2771 3041 9.243105 AGCAGTCATGGTAGTATTTAAAATGTT 57.757 29.630 0.00 0.00 34.74 2.71
2820 3090 2.810439 TTGGGAAAAACCATGAAGCG 57.190 45.000 0.00 0.00 40.91 4.68
3242 3513 8.870879 CCACTTAGTACAACTTTAGTATGAAGC 58.129 37.037 0.00 0.00 0.00 3.86
3271 3542 6.445139 ACTCCCTCCGATCCATATTAATTGAT 59.555 38.462 0.00 0.00 0.00 2.57
3362 3633 6.723977 TGCAGAAATAAACAATAGAAGGGGTT 59.276 34.615 0.00 0.00 0.00 4.11
3850 7313 4.098155 TGGAAGCCAGGTTACTGTATGTA 58.902 43.478 0.00 0.00 43.36 2.29
4090 7554 2.165998 GCAGGCAGATCCTTCAAGTTT 58.834 47.619 0.00 0.00 44.75 2.66
4123 7587 2.072298 CGAGCTTCCCACTCTTTGAAG 58.928 52.381 0.00 0.00 38.77 3.02
4146 7610 2.233305 AGTCTTAGGTGGACGGATGT 57.767 50.000 0.00 0.00 38.58 3.06
4447 8742 2.059756 TCTTCAGATCCCCCACCTTT 57.940 50.000 0.00 0.00 0.00 3.11
4453 8748 0.178978 GGGCATTCTTCAGATCCCCC 60.179 60.000 0.00 0.00 0.00 5.40
4784 9088 7.094549 TGGAACAAAGTGGGATTCTAATAAACG 60.095 37.037 0.00 0.00 31.92 3.60
4979 9944 5.666969 TTTGTAGTTCATTCGGTTCACTG 57.333 39.130 0.00 0.00 0.00 3.66
4980 9945 5.334879 GCATTTGTAGTTCATTCGGTTCACT 60.335 40.000 0.00 0.00 0.00 3.41
5103 10577 5.241506 TCATTCTTTACCAAAGACAAGGCTG 59.758 40.000 0.91 0.00 46.53 4.85
5104 10578 5.385198 TCATTCTTTACCAAAGACAAGGCT 58.615 37.500 0.91 0.00 46.53 4.58
5115 10589 6.830912 AGCATGTATAGCTCATTCTTTACCA 58.169 36.000 0.00 0.00 38.01 3.25
5173 10651 0.997932 GCATTGCAGTCAGAGACTCG 59.002 55.000 3.15 0.00 41.37 4.18
5244 10722 9.547753 GTCACATAACCATGTATAATTCAGACT 57.452 33.333 0.00 0.00 43.73 3.24
5245 10723 9.325198 TGTCACATAACCATGTATAATTCAGAC 57.675 33.333 0.00 0.00 43.73 3.51
5344 10836 5.701029 ATTTTGCTTTCAAAGTTGTGACG 57.299 34.783 0.00 0.00 42.50 4.35
5377 10869 0.740737 GAGGGGCACAATGATTTCCG 59.259 55.000 0.00 0.00 0.00 4.30
5392 10884 3.758554 AGAAACAATGATTTCCACGAGGG 59.241 43.478 0.00 0.00 39.05 4.30
5416 10908 3.008049 AGTTAGCAAAGGACTTGACGGAT 59.992 43.478 0.00 0.00 37.17 4.18
5417 10909 2.367567 AGTTAGCAAAGGACTTGACGGA 59.632 45.455 0.00 0.00 37.17 4.69
5424 10916 4.081642 TCGCTCAATAGTTAGCAAAGGACT 60.082 41.667 0.00 0.00 38.70 3.85
5469 10964 3.006247 GCATCTCCTTCACCTCTTCAAC 58.994 50.000 0.00 0.00 0.00 3.18
5502 10997 4.472108 CACCCACTGAACCCTAAATACCTA 59.528 45.833 0.00 0.00 0.00 3.08
5506 11001 2.355310 CGCACCCACTGAACCCTAAATA 60.355 50.000 0.00 0.00 0.00 1.40
5575 11073 5.368145 TCCTGAAGGATATGAAACCATTCG 58.632 41.667 0.00 0.00 39.78 3.34
5595 11093 3.443329 TGCAATGTTCGCAATACAATCCT 59.557 39.130 0.00 0.00 36.17 3.24
5607 11112 0.516877 TTCCGAAGCTGCAATGTTCG 59.483 50.000 14.66 14.66 42.13 3.95
5635 11141 7.857885 GGTAGTGTTGCTATTTATTCAGAATGC 59.142 37.037 5.85 0.89 30.90 3.56
5674 11180 7.760131 ACTCAACAGTGAACAAAATGAATTG 57.240 32.000 0.00 0.00 31.88 2.32
5708 11217 5.170021 TGCATTAAACACCAAATGATGCTC 58.830 37.500 0.00 0.00 36.33 4.26
5710 11219 5.859521 TTGCATTAAACACCAAATGATGC 57.140 34.783 0.00 0.00 36.06 3.91


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

AutoCloner maintained by Alex Coulton.