Multiple sequence alignment - TraesCS7D01G270500

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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 TraesCS7D01G270500 chr7D 100.000 3424 0 0 1 3424 256221499 256218076 0.000000e+00 6324.0
1 TraesCS7D01G270500 chr7D 91.667 192 13 3 3200 3390 57543849 57544038 2.620000e-66 263.0
2 TraesCS7D01G270500 chr7D 88.525 183 15 2 3200 3382 448053511 448053687 2.070000e-52 217.0
3 TraesCS7D01G270500 chr7D 86.170 94 10 3 394 486 110317157 110317066 7.820000e-17 99.0
4 TraesCS7D01G270500 chr7A 94.529 2486 90 19 586 3046 275973981 275971517 0.000000e+00 3795.0
5 TraesCS7D01G270500 chr7A 89.899 594 58 1 1 594 275974853 275974262 0.000000e+00 763.0
6 TraesCS7D01G270500 chr7A 83.784 222 24 10 3203 3415 727123110 727122892 2.080000e-47 200.0
7 TraesCS7D01G270500 chr7A 92.188 128 7 2 3043 3168 275970244 275970118 9.760000e-41 178.0
8 TraesCS7D01G270500 chr7A 88.043 92 11 0 395 486 733444695 733444786 3.610000e-20 110.0
9 TraesCS7D01G270500 chr7A 86.957 92 11 1 394 485 696716140 696716230 6.050000e-18 102.0
10 TraesCS7D01G270500 chr7B 93.518 2314 108 18 4 2297 234915373 234913082 0.000000e+00 3404.0
11 TraesCS7D01G270500 chr7B 90.863 591 27 13 2420 2998 234912842 234912267 0.000000e+00 767.0
12 TraesCS7D01G270500 chr7B 96.842 190 5 1 3011 3200 234911948 234911760 1.980000e-82 316.0
13 TraesCS7D01G270500 chr7B 90.821 207 16 3 3202 3407 501532332 501532128 1.210000e-69 274.0
14 TraesCS7D01G270500 chr7B 85.253 217 25 7 3196 3406 272520923 272520708 2.070000e-52 217.0
15 TraesCS7D01G270500 chr7B 98.889 90 1 0 2347 2436 234913081 234912992 9.830000e-36 161.0
16 TraesCS7D01G270500 chr7B 83.019 106 17 1 592 696 741493950 741493845 1.010000e-15 95.3
17 TraesCS7D01G270500 chr4D 88.660 485 49 5 4 487 549851 549372 1.370000e-163 586.0
18 TraesCS7D01G270500 chr4D 80.392 102 13 5 580 680 46719204 46719299 1.700000e-08 71.3
19 TraesCS7D01G270500 chr2A 88.445 476 48 7 13 487 644222744 644222275 4.960000e-158 568.0
20 TraesCS7D01G270500 chr2B 87.654 486 57 3 1 486 400598755 400598273 2.310000e-156 562.0
21 TraesCS7D01G270500 chr2B 89.247 93 6 4 395 486 477522020 477522109 2.790000e-21 113.0
22 TraesCS7D01G270500 chr2B 77.397 146 32 1 6 150 180109838 180109983 6.090000e-13 86.1
23 TraesCS7D01G270500 chr6D 86.893 412 48 4 13 424 317850946 317850541 1.120000e-124 457.0
24 TraesCS7D01G270500 chr6D 86.916 107 13 1 592 697 27536402 27536296 6.000000e-23 119.0
25 TraesCS7D01G270500 chr4A 81.766 351 52 9 115 455 4000509 4000161 2.010000e-72 283.0
26 TraesCS7D01G270500 chr3D 84.848 231 29 4 3193 3423 293206337 293206113 9.560000e-56 228.0
27 TraesCS7D01G270500 chr3D 89.205 176 16 3 3199 3372 364674588 364674762 2.070000e-52 217.0
28 TraesCS7D01G270500 chr3D 87.838 74 7 2 628 701 66251603 66251674 6.090000e-13 86.1
29 TraesCS7D01G270500 chr3D 84.932 73 11 0 631 703 66141103 66141031 1.320000e-09 75.0
30 TraesCS7D01G270500 chr6B 86.473 207 24 4 3196 3401 653847904 653847701 1.240000e-54 224.0
31 TraesCS7D01G270500 chr5D 85.333 225 24 8 3195 3412 159093765 159093543 1.240000e-54 224.0
32 TraesCS7D01G270500 chr5B 72.912 443 97 22 1 434 90959941 90960369 7.710000e-27 132.0
33 TraesCS7D01G270500 chr2D 86.179 123 15 2 580 701 634317985 634317864 7.710000e-27 132.0
34 TraesCS7D01G270500 chr1D 84.746 118 17 1 586 702 415622949 415623066 2.160000e-22 117.0


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 TraesCS7D01G270500 chr7D 256218076 256221499 3423 True 6324.000000 6324 100.000000 1 3424 1 chr7D.!!$R2 3423
1 TraesCS7D01G270500 chr7A 275970118 275974853 4735 True 1578.666667 3795 92.205333 1 3168 3 chr7A.!!$R2 3167
2 TraesCS7D01G270500 chr7B 234911760 234915373 3613 True 1162.000000 3404 95.028000 4 3200 4 chr7B.!!$R4 3196

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
465 466 0.033011 AGCCCTATCACAGACTCGGT 60.033 55.000 0.0 0.0 0.0 4.69 F
1197 1511 1.000938 GCTGCTTCCTGTGTTTTCCTG 60.001 52.381 0.0 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1613 1927 0.521735 GCAAAATCACCTCACCGTCC 59.478 55.000 0.00 0.0 0.0 4.79 R
2437 2751 1.000163 TGTGAGCTCTTCTTGTCGGTC 60.000 52.381 16.19 0.0 0.0 4.79 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
40 41 0.987613 TATGTGGCCATCCTCCAGCA 60.988 55.000 9.72 0.00 33.63 4.41
66 67 4.911390 ACCATTCTTGTTCTAGGTGGAAG 58.089 43.478 0.00 0.00 0.00 3.46
104 105 2.490148 CGGTGCCTATCGAGCCAGA 61.490 63.158 0.00 0.00 30.05 3.86
112 113 0.468648 TATCGAGCCAGACGAGGAGA 59.531 55.000 0.00 0.00 42.81 3.71
132 133 0.762418 TTGTGGCCTTCTTCGGAGAA 59.238 50.000 5.89 5.89 45.90 2.87
174 175 1.447314 CGGGGTCCGTAGCTGTTTC 60.447 63.158 0.00 0.00 42.73 2.78
188 189 1.194547 CTGTTTCGTGACCACATTCCG 59.805 52.381 0.85 0.00 0.00 4.30
253 254 0.822121 GGTTCCCTGGTGCTTCGTTT 60.822 55.000 0.00 0.00 0.00 3.60
286 287 2.061773 CTCGATGTCTTCAGTTGCGTT 58.938 47.619 0.00 0.00 0.00 4.84
287 288 2.476619 CTCGATGTCTTCAGTTGCGTTT 59.523 45.455 0.00 0.00 0.00 3.60
363 364 2.325761 CGCCTATGTATCTTACCGTGC 58.674 52.381 0.00 0.00 0.00 5.34
365 366 3.552273 CGCCTATGTATCTTACCGTGCTT 60.552 47.826 0.00 0.00 0.00 3.91
371 372 9.052759 CCTATGTATCTTACCGTGCTTTATTTT 57.947 33.333 0.00 0.00 0.00 1.82
401 402 5.657474 TCGGTTACTTGTCATCTGTATTCC 58.343 41.667 0.00 0.00 0.00 3.01
405 406 6.407202 GTTACTTGTCATCTGTATTCCTGGT 58.593 40.000 0.00 0.00 0.00 4.00
427 428 5.227152 GTCGGTTGATGGCTTTGTTAATTT 58.773 37.500 0.00 0.00 0.00 1.82
465 466 0.033011 AGCCCTATCACAGACTCGGT 60.033 55.000 0.00 0.00 0.00 4.69
468 469 1.471676 CCCTATCACAGACTCGGTTGC 60.472 57.143 0.00 0.00 0.00 4.17
623 928 4.095782 GTGCGTCCTATTTCCAATTAAGCA 59.904 41.667 0.00 0.00 0.00 3.91
625 930 5.359576 TGCGTCCTATTTCCAATTAAGCAAT 59.640 36.000 0.00 0.00 0.00 3.56
870 1177 4.627284 TTCATTTTGGAGGAGGTTACGA 57.373 40.909 0.00 0.00 0.00 3.43
917 1224 4.257267 TCATGGAATATCGACGCTCATT 57.743 40.909 0.00 0.00 0.00 2.57
919 1226 4.448732 TCATGGAATATCGACGCTCATTTG 59.551 41.667 0.00 0.00 0.00 2.32
930 1237 1.724654 CGCTCATTTGTGTAACGGTGC 60.725 52.381 0.00 0.00 42.39 5.01
964 1275 2.101415 CGAAGATCCCTGCTGACATACA 59.899 50.000 0.00 0.00 0.00 2.29
993 1304 3.441500 AAGTCTGAACTTCCAATCCCC 57.558 47.619 0.00 0.00 42.10 4.81
1071 1382 2.672996 GGCCGCCATGTTCACTGT 60.673 61.111 3.91 0.00 0.00 3.55
1196 1510 1.322442 GCTGCTTCCTGTGTTTTCCT 58.678 50.000 0.00 0.00 0.00 3.36
1197 1511 1.000938 GCTGCTTCCTGTGTTTTCCTG 60.001 52.381 0.00 0.00 0.00 3.86
1198 1512 2.575532 CTGCTTCCTGTGTTTTCCTGA 58.424 47.619 0.00 0.00 0.00 3.86
1199 1513 2.291741 CTGCTTCCTGTGTTTTCCTGAC 59.708 50.000 0.00 0.00 0.00 3.51
1206 1520 3.117794 CTGTGTTTTCCTGACGTTCGTA 58.882 45.455 0.00 0.00 0.00 3.43
1310 1624 4.980805 GCTCCACGACCGGCAACA 62.981 66.667 0.00 0.00 0.00 3.33
1453 1767 1.768275 TGCCACCTAACGGATGATGAT 59.232 47.619 0.00 0.00 0.00 2.45
1468 1782 3.534554 TGATGATTGGATCACGTTCAGG 58.465 45.455 0.00 0.00 43.01 3.86
1580 1894 1.873903 CGGCCCTCAATACTGAATCGG 60.874 57.143 0.00 0.00 0.00 4.18
1613 1927 5.912955 GTGTCATTTCCTTTTTACTGAACGG 59.087 40.000 0.00 0.00 0.00 4.44
2000 2314 1.296715 GCTGGTGATCCGGAACTGT 59.703 57.895 9.01 0.00 42.46 3.55
2303 2617 2.511600 GACGGCATCAACCTCCGG 60.512 66.667 0.00 0.00 46.78 5.14
2437 2751 4.201851 CGCTGAATAACCAACCATTCTCTG 60.202 45.833 0.00 0.00 33.26 3.35
2452 2933 1.542030 TCTCTGACCGACAAGAAGAGC 59.458 52.381 0.00 0.00 35.42 4.09
2545 3030 2.937149 GAGGACCTATCGGTTTTGCTTC 59.063 50.000 0.00 0.00 45.73 3.86
2571 3056 9.044150 CAGAATTGCTTGATTTTGGTTTAAAGA 57.956 29.630 0.00 0.00 0.00 2.52
2642 3130 9.740239 CTGAAAAATTGCATACAAGCAGTATAT 57.260 29.630 2.05 0.00 46.54 0.86
2941 3439 0.249868 ATCCGTCGGTGCACATATGG 60.250 55.000 20.43 19.20 0.00 2.74
2949 3447 1.690616 TGCACATATGGCACCACCT 59.309 52.632 12.98 0.00 40.22 4.00
2963 3461 0.250038 CCACCTGGATGCGATTCGAT 60.250 55.000 10.88 0.45 37.39 3.59
3004 3815 1.992667 CACGCTCACTTTCAATCGCTA 59.007 47.619 0.00 0.00 0.00 4.26
3005 3816 2.411748 CACGCTCACTTTCAATCGCTAA 59.588 45.455 0.00 0.00 0.00 3.09
3006 3817 2.412089 ACGCTCACTTTCAATCGCTAAC 59.588 45.455 0.00 0.00 0.00 2.34
3007 3818 2.411748 CGCTCACTTTCAATCGCTAACA 59.588 45.455 0.00 0.00 0.00 2.41
3008 3819 3.120683 CGCTCACTTTCAATCGCTAACAA 60.121 43.478 0.00 0.00 0.00 2.83
3009 3820 4.398247 GCTCACTTTCAATCGCTAACAAG 58.602 43.478 0.00 0.00 0.00 3.16
3010 3821 4.083802 GCTCACTTTCAATCGCTAACAAGT 60.084 41.667 0.00 0.00 0.00 3.16
3046 3857 1.138036 CCATGCCATGAACGCTGTG 59.862 57.895 6.18 0.00 0.00 3.66
3200 5289 9.645059 TCAAGACTTGATTATCAGTTAGAAGTG 57.355 33.333 13.99 0.00 34.08 3.16
3201 5290 9.429359 CAAGACTTGATTATCAGTTAGAAGTGT 57.571 33.333 9.76 0.00 0.00 3.55
3203 5292 9.429359 AGACTTGATTATCAGTTAGAAGTGTTG 57.571 33.333 0.40 0.00 0.00 3.33
3204 5293 9.424319 GACTTGATTATCAGTTAGAAGTGTTGA 57.576 33.333 0.40 0.00 0.00 3.18
3205 5294 9.429359 ACTTGATTATCAGTTAGAAGTGTTGAG 57.571 33.333 0.00 0.00 0.00 3.02
3206 5295 9.429359 CTTGATTATCAGTTAGAAGTGTTGAGT 57.571 33.333 0.00 0.00 0.00 3.41
3213 5302 9.809096 ATCAGTTAGAAGTGTTGAGTATATGTG 57.191 33.333 0.00 0.00 0.00 3.21
3214 5303 8.803235 TCAGTTAGAAGTGTTGAGTATATGTGT 58.197 33.333 0.00 0.00 0.00 3.72
3215 5304 9.424319 CAGTTAGAAGTGTTGAGTATATGTGTT 57.576 33.333 0.00 0.00 0.00 3.32
3216 5305 9.424319 AGTTAGAAGTGTTGAGTATATGTGTTG 57.576 33.333 0.00 0.00 0.00 3.33
3217 5306 9.204570 GTTAGAAGTGTTGAGTATATGTGTTGT 57.795 33.333 0.00 0.00 0.00 3.32
3218 5307 7.658179 AGAAGTGTTGAGTATATGTGTTGTG 57.342 36.000 0.00 0.00 0.00 3.33
3219 5308 5.862924 AGTGTTGAGTATATGTGTTGTGC 57.137 39.130 0.00 0.00 0.00 4.57
3220 5309 5.304778 AGTGTTGAGTATATGTGTTGTGCA 58.695 37.500 0.00 0.00 0.00 4.57
3221 5310 5.939883 AGTGTTGAGTATATGTGTTGTGCAT 59.060 36.000 0.00 0.00 0.00 3.96
3222 5311 7.102993 AGTGTTGAGTATATGTGTTGTGCATA 58.897 34.615 0.00 0.00 33.91 3.14
3223 5312 7.770433 AGTGTTGAGTATATGTGTTGTGCATAT 59.230 33.333 0.00 0.00 41.05 1.78
3224 5313 8.397906 GTGTTGAGTATATGTGTTGTGCATATT 58.602 33.333 0.00 0.00 39.44 1.28
3225 5314 8.955388 TGTTGAGTATATGTGTTGTGCATATTT 58.045 29.630 0.00 0.00 39.44 1.40
3235 5324 7.487484 TGTGTTGTGCATATTTATGTATTGGG 58.513 34.615 0.00 0.00 36.11 4.12
3236 5325 6.420604 GTGTTGTGCATATTTATGTATTGGGC 59.579 38.462 0.00 0.00 36.11 5.36
3237 5326 5.720371 TGTGCATATTTATGTATTGGGCC 57.280 39.130 0.00 0.00 36.11 5.80
3238 5327 5.392995 TGTGCATATTTATGTATTGGGCCT 58.607 37.500 4.53 0.00 36.11 5.19
3239 5328 6.547402 TGTGCATATTTATGTATTGGGCCTA 58.453 36.000 4.53 0.00 36.11 3.93
3240 5329 6.432783 TGTGCATATTTATGTATTGGGCCTAC 59.567 38.462 4.53 0.00 36.11 3.18
3241 5330 5.949354 TGCATATTTATGTATTGGGCCTACC 59.051 40.000 4.53 0.00 36.11 3.18
3242 5331 6.187682 GCATATTTATGTATTGGGCCTACCT 58.812 40.000 4.53 0.00 36.74 3.08
3243 5332 6.318900 GCATATTTATGTATTGGGCCTACCTC 59.681 42.308 4.53 0.00 36.74 3.85
3244 5333 4.717279 TTTATGTATTGGGCCTACCTCC 57.283 45.455 4.53 0.00 41.11 4.30
3245 5334 2.514726 ATGTATTGGGCCTACCTCCT 57.485 50.000 4.53 0.00 41.11 3.69
3246 5335 3.648683 ATGTATTGGGCCTACCTCCTA 57.351 47.619 4.53 0.00 41.11 2.94
3247 5336 3.424724 TGTATTGGGCCTACCTCCTAA 57.575 47.619 4.53 0.00 41.11 2.69
3248 5337 3.949430 TGTATTGGGCCTACCTCCTAAT 58.051 45.455 4.53 0.00 41.11 1.73
3249 5338 4.312487 TGTATTGGGCCTACCTCCTAATT 58.688 43.478 4.53 0.00 41.11 1.40
3250 5339 3.884037 ATTGGGCCTACCTCCTAATTG 57.116 47.619 4.53 0.00 41.11 2.32
3251 5340 0.843984 TGGGCCTACCTCCTAATTGC 59.156 55.000 4.53 0.00 41.11 3.56
3252 5341 0.110678 GGGCCTACCTCCTAATTGCC 59.889 60.000 0.84 0.00 35.85 4.52
3253 5342 1.141185 GGCCTACCTCCTAATTGCCT 58.859 55.000 0.00 0.00 34.61 4.75
3254 5343 1.495148 GGCCTACCTCCTAATTGCCTT 59.505 52.381 0.00 0.00 34.61 4.35
3255 5344 2.576615 GCCTACCTCCTAATTGCCTTG 58.423 52.381 0.00 0.00 0.00 3.61
3256 5345 2.092375 GCCTACCTCCTAATTGCCTTGT 60.092 50.000 0.00 0.00 0.00 3.16
3257 5346 3.135895 GCCTACCTCCTAATTGCCTTGTA 59.864 47.826 0.00 0.00 0.00 2.41
3258 5347 4.202472 GCCTACCTCCTAATTGCCTTGTAT 60.202 45.833 0.00 0.00 0.00 2.29
3259 5348 5.012768 GCCTACCTCCTAATTGCCTTGTATA 59.987 44.000 0.00 0.00 0.00 1.47
3260 5349 6.702329 CCTACCTCCTAATTGCCTTGTATAG 58.298 44.000 0.00 0.00 0.00 1.31
3261 5350 6.270231 CCTACCTCCTAATTGCCTTGTATAGT 59.730 42.308 0.00 0.00 0.00 2.12
3262 5351 6.576778 ACCTCCTAATTGCCTTGTATAGTT 57.423 37.500 0.00 0.00 0.00 2.24
3263 5352 6.357367 ACCTCCTAATTGCCTTGTATAGTTG 58.643 40.000 0.00 0.00 0.00 3.16
3264 5353 6.157994 ACCTCCTAATTGCCTTGTATAGTTGA 59.842 38.462 0.00 0.00 0.00 3.18
3265 5354 6.708054 CCTCCTAATTGCCTTGTATAGTTGAG 59.292 42.308 0.00 0.00 0.00 3.02
3266 5355 7.195374 TCCTAATTGCCTTGTATAGTTGAGT 57.805 36.000 0.00 0.00 0.00 3.41
3267 5356 7.630082 TCCTAATTGCCTTGTATAGTTGAGTT 58.370 34.615 0.00 0.00 0.00 3.01
3268 5357 7.769044 TCCTAATTGCCTTGTATAGTTGAGTTC 59.231 37.037 0.00 0.00 0.00 3.01
3269 5358 6.422776 AATTGCCTTGTATAGTTGAGTTCG 57.577 37.500 0.00 0.00 0.00 3.95
3270 5359 4.530710 TGCCTTGTATAGTTGAGTTCGT 57.469 40.909 0.00 0.00 0.00 3.85
3271 5360 4.242475 TGCCTTGTATAGTTGAGTTCGTG 58.758 43.478 0.00 0.00 0.00 4.35
3272 5361 3.617263 GCCTTGTATAGTTGAGTTCGTGG 59.383 47.826 0.00 0.00 0.00 4.94
3273 5362 4.817517 CCTTGTATAGTTGAGTTCGTGGT 58.182 43.478 0.00 0.00 0.00 4.16
3274 5363 4.863131 CCTTGTATAGTTGAGTTCGTGGTC 59.137 45.833 0.00 0.00 0.00 4.02
3275 5364 4.445452 TGTATAGTTGAGTTCGTGGTCC 57.555 45.455 0.00 0.00 0.00 4.46
3276 5365 3.827876 TGTATAGTTGAGTTCGTGGTCCA 59.172 43.478 0.00 0.00 0.00 4.02
3277 5366 2.806608 TAGTTGAGTTCGTGGTCCAC 57.193 50.000 12.40 12.40 0.00 4.02
3278 5367 0.106149 AGTTGAGTTCGTGGTCCACC 59.894 55.000 16.60 2.49 0.00 4.61
3279 5368 1.068417 TTGAGTTCGTGGTCCACCG 59.932 57.895 16.60 11.40 39.43 4.94
3280 5369 1.678598 TTGAGTTCGTGGTCCACCGT 61.679 55.000 16.60 0.00 39.43 4.83
3281 5370 1.068585 GAGTTCGTGGTCCACCGTT 59.931 57.895 16.60 0.00 39.43 4.44
3282 5371 1.219522 GAGTTCGTGGTCCACCGTTG 61.220 60.000 16.60 2.33 39.43 4.10
3283 5372 1.522130 GTTCGTGGTCCACCGTTGT 60.522 57.895 16.60 0.00 39.43 3.32
3284 5373 0.249405 GTTCGTGGTCCACCGTTGTA 60.249 55.000 16.60 0.00 39.43 2.41
3285 5374 0.249405 TTCGTGGTCCACCGTTGTAC 60.249 55.000 16.60 0.00 39.43 2.90
3286 5375 1.067749 CGTGGTCCACCGTTGTACA 59.932 57.895 16.60 0.00 39.43 2.90
3287 5376 0.320073 CGTGGTCCACCGTTGTACAT 60.320 55.000 16.60 0.00 39.43 2.29
3288 5377 1.435577 GTGGTCCACCGTTGTACATC 58.564 55.000 11.30 0.00 39.43 3.06
3289 5378 1.049402 TGGTCCACCGTTGTACATCA 58.951 50.000 0.00 0.00 39.43 3.07
3290 5379 1.626321 TGGTCCACCGTTGTACATCAT 59.374 47.619 0.00 0.00 39.43 2.45
3291 5380 2.832733 TGGTCCACCGTTGTACATCATA 59.167 45.455 0.00 0.00 39.43 2.15
3292 5381 3.452990 TGGTCCACCGTTGTACATCATAT 59.547 43.478 0.00 0.00 39.43 1.78
3293 5382 4.650131 TGGTCCACCGTTGTACATCATATA 59.350 41.667 0.00 0.00 39.43 0.86
3294 5383 5.305902 TGGTCCACCGTTGTACATCATATAT 59.694 40.000 0.00 0.00 39.43 0.86
3295 5384 6.494146 TGGTCCACCGTTGTACATCATATATA 59.506 38.462 0.00 0.00 39.43 0.86
3296 5385 6.810182 GGTCCACCGTTGTACATCATATATAC 59.190 42.308 0.00 0.00 0.00 1.47
3297 5386 6.525628 GTCCACCGTTGTACATCATATATACG 59.474 42.308 0.00 0.50 0.00 3.06
3298 5387 6.207221 TCCACCGTTGTACATCATATATACGT 59.793 38.462 10.51 0.00 0.00 3.57
3299 5388 6.307077 CCACCGTTGTACATCATATATACGTG 59.693 42.308 0.00 8.79 0.00 4.49
3300 5389 6.859508 CACCGTTGTACATCATATATACGTGT 59.140 38.462 0.00 0.00 0.00 4.49
3301 5390 6.859508 ACCGTTGTACATCATATATACGTGTG 59.140 38.462 0.00 0.59 0.00 3.82
3302 5391 6.859508 CCGTTGTACATCATATATACGTGTGT 59.140 38.462 0.00 0.00 0.00 3.72
3303 5392 7.380333 CCGTTGTACATCATATATACGTGTGTT 59.620 37.037 0.00 0.00 0.00 3.32
3304 5393 8.748582 CGTTGTACATCATATATACGTGTGTTT 58.251 33.333 0.00 0.00 0.00 2.83
3305 5394 9.843874 GTTGTACATCATATATACGTGTGTTTG 57.156 33.333 0.00 0.00 0.00 2.93
3306 5395 8.067780 TGTACATCATATATACGTGTGTTTGC 57.932 34.615 0.00 0.00 0.00 3.68
3307 5396 7.707035 TGTACATCATATATACGTGTGTTTGCA 59.293 33.333 0.00 0.00 0.00 4.08
3308 5397 6.943981 ACATCATATATACGTGTGTTTGCAC 58.056 36.000 0.00 0.00 45.44 4.57
3309 5398 5.977171 TCATATATACGTGTGTTTGCACC 57.023 39.130 0.00 0.00 44.65 5.01
3310 5399 5.666462 TCATATATACGTGTGTTTGCACCT 58.334 37.500 0.00 0.00 44.65 4.00
3311 5400 5.522097 TCATATATACGTGTGTTTGCACCTG 59.478 40.000 0.00 0.00 44.65 4.00
3312 5401 2.248280 ATACGTGTGTTTGCACCTGA 57.752 45.000 0.00 0.00 44.65 3.86
3313 5402 1.292061 TACGTGTGTTTGCACCTGAC 58.708 50.000 0.00 0.00 44.65 3.51
3314 5403 0.392461 ACGTGTGTTTGCACCTGACT 60.392 50.000 0.00 0.00 44.65 3.41
3315 5404 1.134640 ACGTGTGTTTGCACCTGACTA 60.135 47.619 0.00 0.00 44.65 2.59
3316 5405 1.937223 CGTGTGTTTGCACCTGACTAA 59.063 47.619 0.00 0.00 44.65 2.24
3317 5406 2.548057 CGTGTGTTTGCACCTGACTAAT 59.452 45.455 0.00 0.00 44.65 1.73
3318 5407 3.743911 CGTGTGTTTGCACCTGACTAATA 59.256 43.478 0.00 0.00 44.65 0.98
3319 5408 4.377022 CGTGTGTTTGCACCTGACTAATAC 60.377 45.833 0.00 0.00 44.65 1.89
3320 5409 4.513692 GTGTGTTTGCACCTGACTAATACA 59.486 41.667 0.00 0.00 44.65 2.29
3321 5410 5.181245 GTGTGTTTGCACCTGACTAATACAT 59.819 40.000 0.00 0.00 44.65 2.29
3322 5411 5.411361 TGTGTTTGCACCTGACTAATACATC 59.589 40.000 0.00 0.00 44.65 3.06
3323 5412 4.629634 TGTTTGCACCTGACTAATACATCG 59.370 41.667 0.00 0.00 0.00 3.84
3324 5413 4.465632 TTGCACCTGACTAATACATCGT 57.534 40.909 0.00 0.00 0.00 3.73
3325 5414 3.780902 TGCACCTGACTAATACATCGTG 58.219 45.455 0.00 0.00 0.00 4.35
3326 5415 2.540101 GCACCTGACTAATACATCGTGC 59.460 50.000 0.00 0.00 36.79 5.34
3327 5416 3.780902 CACCTGACTAATACATCGTGCA 58.219 45.455 0.00 0.00 0.00 4.57
3328 5417 4.180817 CACCTGACTAATACATCGTGCAA 58.819 43.478 0.00 0.00 0.00 4.08
3329 5418 4.811024 CACCTGACTAATACATCGTGCAAT 59.189 41.667 0.00 0.00 0.00 3.56
3330 5419 5.294306 CACCTGACTAATACATCGTGCAATT 59.706 40.000 0.00 0.00 0.00 2.32
3331 5420 5.523916 ACCTGACTAATACATCGTGCAATTC 59.476 40.000 0.00 0.00 0.00 2.17
3332 5421 5.755375 CCTGACTAATACATCGTGCAATTCT 59.245 40.000 0.00 0.00 0.00 2.40
3333 5422 6.074088 CCTGACTAATACATCGTGCAATTCTC 60.074 42.308 0.00 0.00 0.00 2.87
3334 5423 6.337356 TGACTAATACATCGTGCAATTCTCA 58.663 36.000 0.00 0.00 0.00 3.27
3335 5424 6.255670 TGACTAATACATCGTGCAATTCTCAC 59.744 38.462 0.00 0.00 0.00 3.51
3336 5425 6.106003 ACTAATACATCGTGCAATTCTCACA 58.894 36.000 0.00 0.00 34.27 3.58
3337 5426 5.878332 AATACATCGTGCAATTCTCACAA 57.122 34.783 0.00 0.00 34.27 3.33
3338 5427 3.542712 ACATCGTGCAATTCTCACAAC 57.457 42.857 0.00 0.00 34.27 3.32
3339 5428 2.877786 ACATCGTGCAATTCTCACAACA 59.122 40.909 0.00 0.00 34.27 3.33
3340 5429 3.503363 ACATCGTGCAATTCTCACAACAT 59.497 39.130 0.00 0.00 34.27 2.71
3341 5430 4.694982 ACATCGTGCAATTCTCACAACATA 59.305 37.500 0.00 0.00 34.27 2.29
3342 5431 4.661993 TCGTGCAATTCTCACAACATAC 57.338 40.909 0.00 0.00 34.27 2.39
3343 5432 4.061596 TCGTGCAATTCTCACAACATACA 58.938 39.130 0.00 0.00 34.27 2.29
3344 5433 4.694982 TCGTGCAATTCTCACAACATACAT 59.305 37.500 0.00 0.00 34.27 2.29
3345 5434 4.789629 CGTGCAATTCTCACAACATACATG 59.210 41.667 0.00 0.00 34.27 3.21
3346 5435 5.097529 GTGCAATTCTCACAACATACATGG 58.902 41.667 0.00 0.00 34.73 3.66
3347 5436 4.766373 TGCAATTCTCACAACATACATGGT 59.234 37.500 0.00 0.00 0.00 3.55
3348 5437 5.942826 TGCAATTCTCACAACATACATGGTA 59.057 36.000 0.00 0.00 0.00 3.25
3349 5438 6.602803 TGCAATTCTCACAACATACATGGTAT 59.397 34.615 0.00 0.00 0.00 2.73
3350 5439 7.134815 GCAATTCTCACAACATACATGGTATC 58.865 38.462 0.00 0.00 0.00 2.24
3351 5440 7.201723 GCAATTCTCACAACATACATGGTATCA 60.202 37.037 0.00 0.00 0.00 2.15
3352 5441 8.340443 CAATTCTCACAACATACATGGTATCAG 58.660 37.037 0.00 0.00 0.00 2.90
3353 5442 6.544928 TCTCACAACATACATGGTATCAGT 57.455 37.500 0.00 0.00 0.00 3.41
3354 5443 6.946340 TCTCACAACATACATGGTATCAGTT 58.054 36.000 0.00 0.00 0.00 3.16
3355 5444 7.394016 TCTCACAACATACATGGTATCAGTTT 58.606 34.615 0.00 0.00 0.00 2.66
3356 5445 7.549134 TCTCACAACATACATGGTATCAGTTTC 59.451 37.037 0.00 0.00 0.00 2.78
3357 5446 6.597672 TCACAACATACATGGTATCAGTTTCC 59.402 38.462 0.00 0.00 0.00 3.13
3358 5447 6.599244 CACAACATACATGGTATCAGTTTCCT 59.401 38.462 0.00 0.00 0.00 3.36
3359 5448 7.768582 CACAACATACATGGTATCAGTTTCCTA 59.231 37.037 0.00 0.00 0.00 2.94
3360 5449 7.987458 ACAACATACATGGTATCAGTTTCCTAG 59.013 37.037 0.00 0.00 0.00 3.02
3361 5450 7.067496 ACATACATGGTATCAGTTTCCTAGG 57.933 40.000 0.82 0.82 0.00 3.02
3362 5451 6.615726 ACATACATGGTATCAGTTTCCTAGGT 59.384 38.462 9.08 0.00 0.00 3.08
3363 5452 7.127339 ACATACATGGTATCAGTTTCCTAGGTT 59.873 37.037 9.08 0.00 0.00 3.50
3364 5453 6.388619 ACATGGTATCAGTTTCCTAGGTTT 57.611 37.500 9.08 0.00 0.00 3.27
3365 5454 6.415573 ACATGGTATCAGTTTCCTAGGTTTC 58.584 40.000 9.08 0.30 0.00 2.78
3366 5455 6.012858 ACATGGTATCAGTTTCCTAGGTTTCA 60.013 38.462 9.08 0.00 0.00 2.69
3367 5456 6.442541 TGGTATCAGTTTCCTAGGTTTCAA 57.557 37.500 9.08 0.00 0.00 2.69
3368 5457 6.235664 TGGTATCAGTTTCCTAGGTTTCAAC 58.764 40.000 9.08 8.04 0.00 3.18
3379 5468 1.450025 GGTTTCAACCCTAGCTTCCG 58.550 55.000 0.00 0.00 43.43 4.30
3380 5469 0.803117 GTTTCAACCCTAGCTTCCGC 59.197 55.000 0.00 0.00 0.00 5.54
3381 5470 0.322187 TTTCAACCCTAGCTTCCGCC 60.322 55.000 0.00 0.00 36.60 6.13
3382 5471 1.485294 TTCAACCCTAGCTTCCGCCA 61.485 55.000 0.00 0.00 36.60 5.69
3383 5472 1.745489 CAACCCTAGCTTCCGCCAC 60.745 63.158 0.00 0.00 36.60 5.01
3384 5473 2.967946 AACCCTAGCTTCCGCCACC 61.968 63.158 0.00 0.00 36.60 4.61
3385 5474 4.530857 CCCTAGCTTCCGCCACCG 62.531 72.222 0.00 0.00 36.60 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 2.435805 GGCCACATAGAGAGGATCAACA 59.564 50.000 0.00 0.00 37.82 3.33
40 41 4.074970 CACCTAGAACAAGAATGGTTGCT 58.925 43.478 0.00 0.00 0.00 3.91
66 67 2.395654 GCACCGTCGGAAGATAGAATC 58.604 52.381 20.51 0.00 45.19 2.52
104 105 0.250513 GAAGGCCACAATCTCCTCGT 59.749 55.000 5.01 0.00 0.00 4.18
112 113 0.984230 TCTCCGAAGAAGGCCACAAT 59.016 50.000 5.01 0.00 0.00 2.71
132 133 1.203162 TGGCACAACCATCCAATTCCT 60.203 47.619 0.00 0.00 46.36 3.36
286 287 8.543774 ACAAGCTAGAGGATAAATCAGAGAAAA 58.456 33.333 0.00 0.00 0.00 2.29
287 288 8.083828 ACAAGCTAGAGGATAAATCAGAGAAA 57.916 34.615 0.00 0.00 0.00 2.52
334 335 2.700897 AGATACATAGGCGCTGGAAAGT 59.299 45.455 7.64 1.54 0.00 2.66
342 343 2.325761 CACGGTAAGATACATAGGCGC 58.674 52.381 0.00 0.00 0.00 6.53
390 391 3.118775 TCAACCGACCAGGAATACAGATG 60.119 47.826 0.00 0.00 45.00 2.90
401 402 0.523072 CAAAGCCATCAACCGACCAG 59.477 55.000 0.00 0.00 0.00 4.00
405 406 5.461032 AAATTAACAAAGCCATCAACCGA 57.539 34.783 0.00 0.00 0.00 4.69
427 428 0.394762 TCGAGCCTAGCCCGACTTTA 60.395 55.000 0.00 0.00 0.00 1.85
451 452 1.404181 GCAGCAACCGAGTCTGTGATA 60.404 52.381 0.00 0.00 0.00 2.15
455 456 2.031163 GGCAGCAACCGAGTCTGT 59.969 61.111 0.00 0.00 0.00 3.41
465 466 6.655078 AGATTTTTAGAGAAAAGGCAGCAA 57.345 33.333 0.00 0.00 35.96 3.91
468 469 8.334263 AGAGAAGATTTTTAGAGAAAAGGCAG 57.666 34.615 0.00 0.00 35.96 4.85
919 1226 6.129273 CGTATCTTATATGTGCACCGTTACAC 60.129 42.308 15.69 0.78 37.31 2.90
930 1237 6.754209 GCAGGGATCTTCGTATCTTATATGTG 59.246 42.308 0.00 0.00 0.00 3.21
964 1275 3.821421 AAGTTCAGACTTCAGAACCGT 57.179 42.857 10.05 0.00 42.35 4.83
1071 1382 2.124320 GCGGCCCCATTGCTCTTA 60.124 61.111 0.00 0.00 0.00 2.10
1196 1510 1.887854 TGGGTTCAGATACGAACGTCA 59.112 47.619 2.45 0.00 45.12 4.35
1197 1511 2.642139 TGGGTTCAGATACGAACGTC 57.358 50.000 2.45 0.00 45.12 4.34
1198 1512 2.232941 ACATGGGTTCAGATACGAACGT 59.767 45.455 5.03 5.03 45.12 3.99
1199 1513 2.603110 CACATGGGTTCAGATACGAACG 59.397 50.000 0.00 0.00 45.12 3.95
1206 1520 1.347707 ACACGACACATGGGTTCAGAT 59.652 47.619 0.00 0.00 0.00 2.90
1310 1624 4.148825 GGGGATCAGCAGCGTCGT 62.149 66.667 0.00 0.00 0.00 4.34
1453 1767 1.002624 GGCCCTGAACGTGATCCAA 60.003 57.895 0.00 0.00 0.00 3.53
1468 1782 3.334054 AGGAGGTTGCTCAGGGCC 61.334 66.667 0.00 0.00 40.92 5.80
1533 1847 2.050442 CCGTCGTTTTGGCCTTGC 60.050 61.111 3.32 0.00 0.00 4.01
1565 1879 7.482743 CACAAATTTGACCGATTCAGTATTGAG 59.517 37.037 24.64 0.00 34.94 3.02
1566 1880 7.040755 ACACAAATTTGACCGATTCAGTATTGA 60.041 33.333 24.64 0.00 34.94 2.57
1580 1894 9.914923 GTAAAAAGGAAATGACACAAATTTGAC 57.085 29.630 24.64 14.53 0.00 3.18
1613 1927 0.521735 GCAAAATCACCTCACCGTCC 59.478 55.000 0.00 0.00 0.00 4.79
1712 2026 1.813862 CGGTGGAAGCTCAAGTGGAAA 60.814 52.381 0.00 0.00 0.00 3.13
1925 2239 4.758251 CCCACGCTGATGCCGTGA 62.758 66.667 14.60 0.00 42.09 4.35
2162 2476 4.699522 ACCCGCGAAGGCTTGTCC 62.700 66.667 8.23 0.00 39.21 4.02
2381 2695 1.151668 CGTGAGCTTCTTGAACCCAG 58.848 55.000 0.00 0.00 0.00 4.45
2437 2751 1.000163 TGTGAGCTCTTCTTGTCGGTC 60.000 52.381 16.19 0.00 0.00 4.79
2452 2933 1.659211 GCAAGCGTAAAACCGTGTGAG 60.659 52.381 0.00 0.00 0.00 3.51
2510 2992 3.022406 AGGTCCTCCATACTAACGTGTC 58.978 50.000 0.00 0.00 35.89 3.67
2537 3022 7.411274 CAAAATCAAGCAATTCTGAAGCAAAA 58.589 30.769 4.72 0.00 0.00 2.44
2545 3030 9.044150 TCTTTAAACCAAAATCAAGCAATTCTG 57.956 29.630 0.00 0.00 0.00 3.02
2645 3133 8.038944 ACTGCTTGATTTCTGCATTCAAAATAT 58.961 29.630 0.00 0.00 36.07 1.28
2646 3134 7.380536 ACTGCTTGATTTCTGCATTCAAAATA 58.619 30.769 0.00 0.00 36.07 1.40
2651 3146 4.156556 GGTACTGCTTGATTTCTGCATTCA 59.843 41.667 0.00 0.00 36.07 2.57
2656 3152 3.503748 AGTTGGTACTGCTTGATTTCTGC 59.496 43.478 0.00 0.00 31.99 4.26
2750 3247 2.432444 TGGTCCCAAGCTTATTTGTCG 58.568 47.619 0.00 0.00 0.00 4.35
2885 3383 3.807631 TTGTGCTTCCAGCGAGCGT 62.808 57.895 0.00 0.00 46.26 5.07
2941 3439 1.718757 GAATCGCATCCAGGTGGTGC 61.719 60.000 11.41 11.41 38.20 5.01
2949 3447 1.592543 CGTTGAATCGAATCGCATCCA 59.407 47.619 0.00 0.00 0.00 3.41
2963 3461 2.144078 TCCTCTGGTGGCCGTTGAA 61.144 57.895 0.00 0.00 0.00 2.69
3004 3815 2.356386 CGCGAACGTTGTTACTTGTT 57.644 45.000 5.00 0.00 33.53 2.83
3046 3857 5.532779 CCCCTTGGATTCTGTAGCTTTATTC 59.467 44.000 0.00 0.00 0.00 1.75
3189 5278 8.988064 ACACATATACTCAACACTTCTAACTG 57.012 34.615 0.00 0.00 0.00 3.16
3196 5285 5.762711 TGCACAACACATATACTCAACACTT 59.237 36.000 0.00 0.00 0.00 3.16
3209 5298 8.143193 CCCAATACATAAATATGCACAACACAT 58.857 33.333 0.00 0.00 37.19 3.21
3210 5299 7.487484 CCCAATACATAAATATGCACAACACA 58.513 34.615 0.00 0.00 37.19 3.72
3211 5300 6.420604 GCCCAATACATAAATATGCACAACAC 59.579 38.462 0.00 0.00 37.19 3.32
3212 5301 6.462207 GGCCCAATACATAAATATGCACAACA 60.462 38.462 0.00 0.00 37.19 3.33
3213 5302 5.925969 GGCCCAATACATAAATATGCACAAC 59.074 40.000 0.00 0.00 37.19 3.32
3214 5303 5.837979 AGGCCCAATACATAAATATGCACAA 59.162 36.000 0.00 0.00 37.19 3.33
3215 5304 5.392995 AGGCCCAATACATAAATATGCACA 58.607 37.500 0.00 0.00 37.19 4.57
3216 5305 5.982890 AGGCCCAATACATAAATATGCAC 57.017 39.130 0.00 0.00 37.19 4.57
3217 5306 5.949354 GGTAGGCCCAATACATAAATATGCA 59.051 40.000 0.00 0.00 37.19 3.96
3218 5307 6.187682 AGGTAGGCCCAATACATAAATATGC 58.812 40.000 0.00 0.00 34.58 3.14
3219 5308 6.828785 GGAGGTAGGCCCAATACATAAATATG 59.171 42.308 0.00 0.00 36.25 1.78
3220 5309 6.740480 AGGAGGTAGGCCCAATACATAAATAT 59.260 38.462 0.00 0.00 34.66 1.28
3221 5310 6.095680 AGGAGGTAGGCCCAATACATAAATA 58.904 40.000 0.00 0.00 34.66 1.40
3222 5311 4.920129 AGGAGGTAGGCCCAATACATAAAT 59.080 41.667 0.00 0.00 34.66 1.40
3223 5312 4.312487 AGGAGGTAGGCCCAATACATAAA 58.688 43.478 0.00 0.00 34.66 1.40
3224 5313 3.949430 AGGAGGTAGGCCCAATACATAA 58.051 45.455 0.00 0.00 34.66 1.90
3225 5314 3.648683 AGGAGGTAGGCCCAATACATA 57.351 47.619 0.00 0.00 34.66 2.29
3226 5315 2.514726 AGGAGGTAGGCCCAATACAT 57.485 50.000 0.00 0.00 34.66 2.29
3227 5316 3.424724 TTAGGAGGTAGGCCCAATACA 57.575 47.619 0.00 0.00 34.66 2.29
3228 5317 4.652822 CAATTAGGAGGTAGGCCCAATAC 58.347 47.826 0.00 0.00 34.66 1.89
3229 5318 3.073946 GCAATTAGGAGGTAGGCCCAATA 59.926 47.826 0.00 0.00 34.66 1.90
3230 5319 2.158460 GCAATTAGGAGGTAGGCCCAAT 60.158 50.000 0.00 0.00 34.66 3.16
3231 5320 1.214424 GCAATTAGGAGGTAGGCCCAA 59.786 52.381 0.00 0.00 34.66 4.12
3232 5321 0.843984 GCAATTAGGAGGTAGGCCCA 59.156 55.000 0.00 0.00 34.66 5.36
3233 5322 0.110678 GGCAATTAGGAGGTAGGCCC 59.889 60.000 0.00 0.00 33.93 5.80
3234 5323 1.141185 AGGCAATTAGGAGGTAGGCC 58.859 55.000 0.00 0.00 40.18 5.19
3235 5324 2.092375 ACAAGGCAATTAGGAGGTAGGC 60.092 50.000 0.00 0.00 0.00 3.93
3236 5325 3.933861 ACAAGGCAATTAGGAGGTAGG 57.066 47.619 0.00 0.00 0.00 3.18
3237 5326 7.304497 ACTATACAAGGCAATTAGGAGGTAG 57.696 40.000 0.00 0.00 0.00 3.18
3238 5327 7.346175 TCAACTATACAAGGCAATTAGGAGGTA 59.654 37.037 0.00 0.00 0.00 3.08
3239 5328 6.157994 TCAACTATACAAGGCAATTAGGAGGT 59.842 38.462 0.00 0.00 0.00 3.85
3240 5329 6.591935 TCAACTATACAAGGCAATTAGGAGG 58.408 40.000 0.00 0.00 0.00 4.30
3241 5330 7.275920 ACTCAACTATACAAGGCAATTAGGAG 58.724 38.462 0.00 0.00 0.00 3.69
3242 5331 7.195374 ACTCAACTATACAAGGCAATTAGGA 57.805 36.000 0.00 0.00 0.00 2.94
3243 5332 7.254455 CGAACTCAACTATACAAGGCAATTAGG 60.254 40.741 0.00 0.00 0.00 2.69
3244 5333 7.277981 ACGAACTCAACTATACAAGGCAATTAG 59.722 37.037 0.00 0.00 0.00 1.73
3245 5334 7.064134 CACGAACTCAACTATACAAGGCAATTA 59.936 37.037 0.00 0.00 0.00 1.40
3246 5335 5.938125 ACGAACTCAACTATACAAGGCAATT 59.062 36.000 0.00 0.00 0.00 2.32
3247 5336 5.351465 CACGAACTCAACTATACAAGGCAAT 59.649 40.000 0.00 0.00 0.00 3.56
3248 5337 4.688879 CACGAACTCAACTATACAAGGCAA 59.311 41.667 0.00 0.00 0.00 4.52
3249 5338 4.242475 CACGAACTCAACTATACAAGGCA 58.758 43.478 0.00 0.00 0.00 4.75
3250 5339 3.617263 CCACGAACTCAACTATACAAGGC 59.383 47.826 0.00 0.00 0.00 4.35
3251 5340 4.817517 ACCACGAACTCAACTATACAAGG 58.182 43.478 0.00 0.00 0.00 3.61
3252 5341 4.863131 GGACCACGAACTCAACTATACAAG 59.137 45.833 0.00 0.00 0.00 3.16
3253 5342 4.281435 TGGACCACGAACTCAACTATACAA 59.719 41.667 0.00 0.00 0.00 2.41
3254 5343 3.827876 TGGACCACGAACTCAACTATACA 59.172 43.478 0.00 0.00 0.00 2.29
3255 5344 4.171754 GTGGACCACGAACTCAACTATAC 58.828 47.826 9.33 0.00 0.00 1.47
3256 5345 3.194116 GGTGGACCACGAACTCAACTATA 59.806 47.826 18.40 0.00 34.83 1.31
3257 5346 2.028385 GGTGGACCACGAACTCAACTAT 60.028 50.000 18.40 0.00 34.83 2.12
3258 5347 1.342174 GGTGGACCACGAACTCAACTA 59.658 52.381 18.40 0.00 34.83 2.24
3259 5348 0.106149 GGTGGACCACGAACTCAACT 59.894 55.000 18.40 0.00 34.83 3.16
3260 5349 1.219522 CGGTGGACCACGAACTCAAC 61.220 60.000 18.40 1.01 34.83 3.18
3261 5350 1.068417 CGGTGGACCACGAACTCAA 59.932 57.895 18.40 0.00 34.83 3.02
3262 5351 1.678598 AACGGTGGACCACGAACTCA 61.679 55.000 18.40 0.00 34.83 3.41
3263 5352 1.068585 AACGGTGGACCACGAACTC 59.931 57.895 18.40 3.21 34.83 3.01
3264 5353 1.227438 CAACGGTGGACCACGAACT 60.227 57.895 18.40 0.05 34.83 3.01
3265 5354 0.249405 TACAACGGTGGACCACGAAC 60.249 55.000 18.40 3.96 34.83 3.95
3266 5355 0.249405 GTACAACGGTGGACCACGAA 60.249 55.000 18.40 0.00 31.63 3.85
3267 5356 1.363443 GTACAACGGTGGACCACGA 59.637 57.895 18.40 0.00 31.63 4.35
3268 5357 0.320073 ATGTACAACGGTGGACCACG 60.320 55.000 14.65 15.29 37.87 4.94
3269 5358 1.270412 TGATGTACAACGGTGGACCAC 60.270 52.381 14.65 16.86 37.87 4.16
3270 5359 1.049402 TGATGTACAACGGTGGACCA 58.951 50.000 14.65 1.27 37.87 4.02
3271 5360 2.396590 ATGATGTACAACGGTGGACC 57.603 50.000 14.65 0.00 37.87 4.46
3272 5361 6.525628 CGTATATATGATGTACAACGGTGGAC 59.474 42.308 9.52 9.52 39.30 4.02
3273 5362 6.207221 ACGTATATATGATGTACAACGGTGGA 59.793 38.462 4.97 0.00 33.70 4.02
3274 5363 6.307077 CACGTATATATGATGTACAACGGTGG 59.693 42.308 4.97 3.24 33.70 4.61
3275 5364 6.859508 ACACGTATATATGATGTACAACGGTG 59.140 38.462 14.73 0.00 33.70 4.94
3276 5365 6.859508 CACACGTATATATGATGTACAACGGT 59.140 38.462 14.73 8.35 33.70 4.83
3277 5366 6.859508 ACACACGTATATATGATGTACAACGG 59.140 38.462 14.73 7.87 33.70 4.44
3278 5367 7.847166 ACACACGTATATATGATGTACAACG 57.153 36.000 8.98 5.22 34.98 4.10
3279 5368 9.843874 CAAACACACGTATATATGATGTACAAC 57.156 33.333 8.98 0.00 0.00 3.32
3280 5369 8.544597 GCAAACACACGTATATATGATGTACAA 58.455 33.333 8.98 0.00 0.00 2.41
3281 5370 7.707035 TGCAAACACACGTATATATGATGTACA 59.293 33.333 8.98 0.00 0.00 2.90
3282 5371 8.002107 GTGCAAACACACGTATATATGATGTAC 58.998 37.037 8.98 4.65 46.61 2.90
3283 5372 8.067780 GTGCAAACACACGTATATATGATGTA 57.932 34.615 8.98 0.00 46.61 2.29
3284 5373 6.943981 GTGCAAACACACGTATATATGATGT 58.056 36.000 8.98 9.27 46.61 3.06
3299 5388 5.445939 CGATGTATTAGTCAGGTGCAAACAC 60.446 44.000 0.00 0.00 46.66 3.32
3300 5389 4.629634 CGATGTATTAGTCAGGTGCAAACA 59.370 41.667 0.00 0.00 0.00 2.83
3301 5390 4.630069 ACGATGTATTAGTCAGGTGCAAAC 59.370 41.667 0.00 0.00 0.00 2.93
3302 5391 4.629634 CACGATGTATTAGTCAGGTGCAAA 59.370 41.667 0.00 0.00 0.00 3.68
3303 5392 4.180817 CACGATGTATTAGTCAGGTGCAA 58.819 43.478 0.00 0.00 0.00 4.08
3304 5393 3.780902 CACGATGTATTAGTCAGGTGCA 58.219 45.455 0.00 0.00 0.00 4.57
3305 5394 2.540101 GCACGATGTATTAGTCAGGTGC 59.460 50.000 0.00 0.00 39.75 5.01
3306 5395 3.780902 TGCACGATGTATTAGTCAGGTG 58.219 45.455 0.00 0.00 0.00 4.00
3307 5396 4.465632 TTGCACGATGTATTAGTCAGGT 57.534 40.909 0.00 0.00 0.00 4.00
3308 5397 5.755375 AGAATTGCACGATGTATTAGTCAGG 59.245 40.000 0.00 0.00 0.00 3.86
3309 5398 6.476706 TGAGAATTGCACGATGTATTAGTCAG 59.523 38.462 0.00 0.00 0.00 3.51
3310 5399 6.255670 GTGAGAATTGCACGATGTATTAGTCA 59.744 38.462 0.00 0.00 0.00 3.41
3311 5400 6.255670 TGTGAGAATTGCACGATGTATTAGTC 59.744 38.462 0.00 0.00 39.07 2.59
3312 5401 6.106003 TGTGAGAATTGCACGATGTATTAGT 58.894 36.000 0.00 0.00 39.07 2.24
3313 5402 6.588348 TGTGAGAATTGCACGATGTATTAG 57.412 37.500 0.00 0.00 39.07 1.73
3314 5403 6.370166 TGTTGTGAGAATTGCACGATGTATTA 59.630 34.615 0.00 0.00 39.07 0.98
3315 5404 5.181056 TGTTGTGAGAATTGCACGATGTATT 59.819 36.000 0.00 0.00 39.07 1.89
3316 5405 4.694982 TGTTGTGAGAATTGCACGATGTAT 59.305 37.500 0.00 0.00 39.07 2.29
3317 5406 4.061596 TGTTGTGAGAATTGCACGATGTA 58.938 39.130 0.00 0.00 39.07 2.29
3318 5407 2.877786 TGTTGTGAGAATTGCACGATGT 59.122 40.909 0.00 0.00 39.07 3.06
3319 5408 3.541071 TGTTGTGAGAATTGCACGATG 57.459 42.857 0.00 0.00 39.07 3.84
3320 5409 4.694982 TGTATGTTGTGAGAATTGCACGAT 59.305 37.500 0.00 0.00 39.07 3.73
3321 5410 4.061596 TGTATGTTGTGAGAATTGCACGA 58.938 39.130 0.00 0.14 39.07 4.35
3322 5411 4.403015 TGTATGTTGTGAGAATTGCACG 57.597 40.909 0.00 0.00 39.07 5.34
3323 5412 5.097529 CCATGTATGTTGTGAGAATTGCAC 58.902 41.667 0.00 1.97 36.81 4.57
3324 5413 4.766373 ACCATGTATGTTGTGAGAATTGCA 59.234 37.500 0.00 0.00 0.00 4.08
3325 5414 5.314923 ACCATGTATGTTGTGAGAATTGC 57.685 39.130 0.00 0.00 0.00 3.56
3326 5415 8.212317 TGATACCATGTATGTTGTGAGAATTG 57.788 34.615 0.00 0.00 0.00 2.32
3327 5416 8.049117 ACTGATACCATGTATGTTGTGAGAATT 58.951 33.333 0.00 0.00 0.00 2.17
3328 5417 7.568349 ACTGATACCATGTATGTTGTGAGAAT 58.432 34.615 0.00 0.00 0.00 2.40
3329 5418 6.946340 ACTGATACCATGTATGTTGTGAGAA 58.054 36.000 0.00 0.00 0.00 2.87
3330 5419 6.544928 ACTGATACCATGTATGTTGTGAGA 57.455 37.500 0.00 0.00 0.00 3.27
3331 5420 7.201644 GGAAACTGATACCATGTATGTTGTGAG 60.202 40.741 0.00 0.00 0.00 3.51
3332 5421 6.597672 GGAAACTGATACCATGTATGTTGTGA 59.402 38.462 0.00 0.00 0.00 3.58
3333 5422 6.599244 AGGAAACTGATACCATGTATGTTGTG 59.401 38.462 0.00 0.00 41.13 3.33
3334 5423 6.721318 AGGAAACTGATACCATGTATGTTGT 58.279 36.000 0.00 0.00 41.13 3.32
3335 5424 7.442364 CCTAGGAAACTGATACCATGTATGTTG 59.558 40.741 1.05 0.00 43.88 3.33
3336 5425 7.127339 ACCTAGGAAACTGATACCATGTATGTT 59.873 37.037 17.98 0.00 43.88 2.71
3337 5426 6.615726 ACCTAGGAAACTGATACCATGTATGT 59.384 38.462 17.98 0.00 43.88 2.29
3338 5427 7.067496 ACCTAGGAAACTGATACCATGTATG 57.933 40.000 17.98 0.00 43.88 2.39
3339 5428 7.691993 AACCTAGGAAACTGATACCATGTAT 57.308 36.000 17.98 0.00 43.88 2.29
3340 5429 7.181305 TGAAACCTAGGAAACTGATACCATGTA 59.819 37.037 17.98 0.00 43.88 2.29
3341 5430 6.012858 TGAAACCTAGGAAACTGATACCATGT 60.013 38.462 17.98 0.00 43.88 3.21
3342 5431 6.414732 TGAAACCTAGGAAACTGATACCATG 58.585 40.000 17.98 0.00 43.88 3.66
3343 5432 6.636454 TGAAACCTAGGAAACTGATACCAT 57.364 37.500 17.98 0.00 43.88 3.55
3344 5433 6.235664 GTTGAAACCTAGGAAACTGATACCA 58.764 40.000 17.98 0.00 43.88 3.25
3345 5434 5.646793 GGTTGAAACCTAGGAAACTGATACC 59.353 44.000 17.98 8.32 45.75 2.73
3346 5435 6.738832 GGTTGAAACCTAGGAAACTGATAC 57.261 41.667 17.98 2.92 45.75 2.24


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

AutoCloner maintained by Alex Coulton.