Multiple sequence alignment - TraesCS5A01G100200

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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 TraesCS5A01G100200 chr5A 100.000 3464 0 0 1 3464 143660701 143657238 0.000000e+00 6397.0
1 TraesCS5A01G100200 chr5D 97.268 2416 53 8 1 2405 128644424 128642011 0.000000e+00 4084.0
2 TraesCS5A01G100200 chr5D 91.945 869 18 9 2373 3239 128642010 128641192 0.000000e+00 1170.0
3 TraesCS5A01G100200 chr5D 100.000 30 0 0 3160 3189 467553362 467553391 4.830000e-04 56.5
4 TraesCS5A01G100200 chr5D 100.000 30 0 0 3160 3189 519341557 519341586 4.830000e-04 56.5
5 TraesCS5A01G100200 chr5B 97.058 2379 61 7 235 2606 141149701 141147325 0.000000e+00 3997.0
6 TraesCS5A01G100200 chr5B 89.531 277 10 3 2852 3127 141147152 141146894 1.990000e-87 333.0
7 TraesCS5A01G100200 chr5B 95.050 202 4 4 2 197 141149899 141149698 2.600000e-81 313.0
8 TraesCS5A01G100200 chr5B 98.286 175 3 0 2645 2819 141147325 141147151 1.210000e-79 307.0
9 TraesCS5A01G100200 chr3B 76.984 1386 288 26 994 2359 72715464 72716838 0.000000e+00 763.0
10 TraesCS5A01G100200 chr3B 81.188 606 103 8 1758 2359 72923375 72923973 8.700000e-131 477.0
11 TraesCS5A01G100200 chr3D 75.815 1472 321 30 910 2359 46485703 46487161 0.000000e+00 713.0
12 TraesCS5A01G100200 chr3D 75.218 1376 298 32 985 2328 560024577 560023213 2.290000e-171 612.0
13 TraesCS5A01G100200 chr3D 81.878 607 100 9 1758 2359 46525744 46526345 1.440000e-138 503.0
14 TraesCS5A01G100200 chr3D 93.000 100 7 0 2553 2652 2379920 2379821 2.790000e-31 147.0
15 TraesCS5A01G100200 chr6D 73.760 1391 313 41 997 2364 411470789 411469428 1.860000e-137 499.0
16 TraesCS5A01G100200 chr6D 92.308 39 3 0 3160 3198 471329407 471329369 4.830000e-04 56.5
17 TraesCS5A01G100200 chr3A 80.395 607 109 8 1758 2359 57905489 57906090 1.470000e-123 453.0
18 TraesCS5A01G100200 chr1A 90.566 106 6 3 2553 2657 2665812 2665710 1.680000e-28 137.0
19 TraesCS5A01G100200 chr1A 90.426 94 9 0 2553 2646 6900748 6900841 1.310000e-24 124.0
20 TraesCS5A01G100200 chr7B 90.426 94 9 0 2553 2646 226609142 226609235 1.310000e-24 124.0
21 TraesCS5A01G100200 chr7B 89.583 96 10 0 2552 2647 418752906 418753001 4.690000e-24 122.0
22 TraesCS5A01G100200 chr2B 89.109 101 10 1 2556 2656 74002923 74002824 1.310000e-24 124.0
23 TraesCS5A01G100200 chr2B 92.308 39 1 1 3151 3189 724741900 724741936 2.000000e-03 54.7
24 TraesCS5A01G100200 chr1D 91.209 91 8 0 2556 2646 5423682 5423592 1.310000e-24 124.0
25 TraesCS5A01G100200 chr2A 95.000 40 0 2 3160 3198 19695529 19695567 1.040000e-05 62.1
26 TraesCS5A01G100200 chrUn 92.308 39 3 0 3160 3198 85478500 85478462 4.830000e-04 56.5
27 TraesCS5A01G100200 chrUn 92.308 39 3 0 3160 3198 236205803 236205765 4.830000e-04 56.5
28 TraesCS5A01G100200 chr2D 92.308 39 3 0 3160 3198 413708484 413708446 4.830000e-04 56.5


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 TraesCS5A01G100200 chr5A 143657238 143660701 3463 True 6397.0 6397 100.00000 1 3464 1 chr5A.!!$R1 3463
1 TraesCS5A01G100200 chr5D 128641192 128644424 3232 True 2627.0 4084 94.60650 1 3239 2 chr5D.!!$R1 3238
2 TraesCS5A01G100200 chr5B 141146894 141149899 3005 True 1237.5 3997 94.98125 2 3127 4 chr5B.!!$R1 3125
3 TraesCS5A01G100200 chr3B 72715464 72716838 1374 False 763.0 763 76.98400 994 2359 1 chr3B.!!$F1 1365
4 TraesCS5A01G100200 chr3B 72923375 72923973 598 False 477.0 477 81.18800 1758 2359 1 chr3B.!!$F2 601
5 TraesCS5A01G100200 chr3D 46485703 46487161 1458 False 713.0 713 75.81500 910 2359 1 chr3D.!!$F1 1449
6 TraesCS5A01G100200 chr3D 560023213 560024577 1364 True 612.0 612 75.21800 985 2328 1 chr3D.!!$R2 1343
7 TraesCS5A01G100200 chr3D 46525744 46526345 601 False 503.0 503 81.87800 1758 2359 1 chr3D.!!$F2 601
8 TraesCS5A01G100200 chr6D 411469428 411470789 1361 True 499.0 499 73.76000 997 2364 1 chr6D.!!$R1 1367
9 TraesCS5A01G100200 chr3A 57905489 57906090 601 False 453.0 453 80.39500 1758 2359 1 chr3A.!!$F1 601

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
420 430 2.224548 ACTGTTTACTTCACAGAGGCCC 60.225 50.000 0.00 0.0 43.90 5.80 F
1425 1438 1.001631 TTCAGGCGGGATCCTCTCA 59.998 57.895 12.58 0.0 33.25 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1474 1487 0.530870 CCCTCGCTCCCGATTTTCTC 60.531 60.0 0.00 0.00 43.47 2.87 R
2928 3003 0.392998 AAACAGACTATGGGCGCAGG 60.393 55.0 10.83 7.27 0.00 4.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
119 120 3.855858 CTCTTGCCTTACTCCTTCTCAC 58.144 50.000 0.00 0.00 0.00 3.51
212 219 2.656069 GGCTGAAGGCGACACCCTA 61.656 63.158 0.00 0.00 42.94 3.53
249 256 4.630430 GCTACTTAGGGCCCCTACAATTTT 60.630 45.833 21.43 0.00 35.63 1.82
263 270 5.796935 CCTACAATTTTGATTTCAGCAGACG 59.203 40.000 0.00 0.00 0.00 4.18
328 336 3.054878 GTTCGTGAAGGCGTTTTCTCTA 58.945 45.455 0.00 0.00 0.00 2.43
333 341 3.062774 GTGAAGGCGTTTTCTCTAGCATC 59.937 47.826 0.00 0.00 0.00 3.91
420 430 2.224548 ACTGTTTACTTCACAGAGGCCC 60.225 50.000 0.00 0.00 43.90 5.80
566 576 5.701750 TCTCGCTACTGTCTGATTATCCTAC 59.298 44.000 0.00 0.00 0.00 3.18
573 583 7.603180 ACTGTCTGATTATCCTACATGCTTA 57.397 36.000 0.00 0.00 0.00 3.09
742 752 6.016276 GTCCTCATTACATGTTGTGGTTTTCT 60.016 38.462 2.30 0.00 0.00 2.52
743 753 6.549364 TCCTCATTACATGTTGTGGTTTTCTT 59.451 34.615 2.30 0.00 0.00 2.52
802 814 3.244078 ACAGATAAGTGTTCTTGCGGACA 60.244 43.478 0.00 0.00 35.36 4.02
835 847 8.409371 TGCTTTTCTTTATGTATGTGTGTCAAA 58.591 29.630 0.00 0.00 0.00 2.69
961 974 5.775195 AGTGCAGTATGATGTATACCTGCTA 59.225 40.000 22.04 11.47 42.18 3.49
982 995 6.537301 TGCTAAACGTTAAGATTACCCATCAG 59.463 38.462 0.00 0.00 33.75 2.90
1329 1342 3.932710 CCTTAAGCTTCTGTTCACGCATA 59.067 43.478 0.00 0.00 0.00 3.14
1425 1438 1.001631 TTCAGGCGGGATCCTCTCA 59.998 57.895 12.58 0.00 33.25 3.27
1474 1487 3.265791 GCTCTCCACCTTATTGACTGTG 58.734 50.000 0.00 0.00 0.00 3.66
1521 1536 0.995024 AGAACCTTGGATGTGAGGGG 59.005 55.000 0.00 0.00 37.36 4.79
1779 1803 5.626116 GCCAGGAATAGGACTTCGTTTTCTA 60.626 44.000 0.00 0.00 0.00 2.10
2471 2543 6.743575 AAGAATTCGCTACTAATGCTGTTT 57.256 33.333 0.00 0.00 0.00 2.83
2486 2558 9.906660 CTAATGCTGTTTGAGTTTAAAACCATA 57.093 29.630 0.00 0.00 36.82 2.74
2548 2622 1.544691 ACCACTAGTGTTGCTCTACGG 59.455 52.381 21.18 4.66 0.00 4.02
2796 2870 7.877097 ACATAATTATTTGGCTGTTTGCTTTCA 59.123 29.630 0.00 0.00 42.39 2.69
2823 2897 7.165485 TGTACTTCTGCAACCTGTAATATTGT 58.835 34.615 0.00 0.00 0.00 2.71
2867 2941 0.682532 AGCATGCTCTCTCTCGACCA 60.683 55.000 16.30 0.00 0.00 4.02
2917 2992 3.397482 ACCTAGCAAGCATCGATGATTC 58.603 45.455 29.20 20.26 33.58 2.52
2918 2993 2.411069 CCTAGCAAGCATCGATGATTCG 59.589 50.000 29.20 21.53 46.87 3.34
2932 3007 2.771089 TGATTCGAATATCTGGCCTGC 58.229 47.619 11.38 0.00 0.00 4.85
2933 3008 1.728971 GATTCGAATATCTGGCCTGCG 59.271 52.381 11.38 1.95 0.00 5.18
3005 3080 7.042051 GCTGGTTTTAAATGAAAAAGAAGACCC 60.042 37.037 0.00 0.00 38.75 4.46
3023 3098 1.560505 CCTTTTGTAGGCTGGGCAAT 58.439 50.000 0.00 0.00 37.17 3.56
3053 3128 3.505680 TGCAAGGATATGTGCGAGTTTTT 59.494 39.130 0.00 0.00 43.93 1.94
3114 3189 2.158300 CAACCGTGCAATAGACGCA 58.842 52.632 0.00 0.00 35.45 5.24
3115 3190 0.095245 CAACCGTGCAATAGACGCAG 59.905 55.000 0.00 0.00 40.78 5.18
3200 3275 6.099413 TGCCTCATCTCATTGACTAAGAATCT 59.901 38.462 0.00 0.00 0.00 2.40
3214 3289 8.255206 TGACTAAGAATCTAAATACGGAAAGCA 58.745 33.333 0.00 0.00 0.00 3.91
3256 3331 9.296400 TCATAAAACTTTTTCTTTGACTTTCGG 57.704 29.630 0.00 0.00 0.00 4.30
3257 3332 6.961359 AAAACTTTTTCTTTGACTTTCGGG 57.039 33.333 0.00 0.00 0.00 5.14
3258 3333 5.654603 AACTTTTTCTTTGACTTTCGGGT 57.345 34.783 0.00 0.00 0.00 5.28
3259 3334 4.993905 ACTTTTTCTTTGACTTTCGGGTG 58.006 39.130 0.00 0.00 0.00 4.61
3260 3335 4.703093 ACTTTTTCTTTGACTTTCGGGTGA 59.297 37.500 0.00 0.00 0.00 4.02
3261 3336 4.893424 TTTTCTTTGACTTTCGGGTGAG 57.107 40.909 0.00 0.00 0.00 3.51
3262 3337 1.878953 TCTTTGACTTTCGGGTGAGC 58.121 50.000 0.00 0.00 0.00 4.26
3263 3338 1.140052 TCTTTGACTTTCGGGTGAGCA 59.860 47.619 0.00 0.00 0.00 4.26
3264 3339 2.154462 CTTTGACTTTCGGGTGAGCAT 58.846 47.619 0.00 0.00 0.00 3.79
3265 3340 1.808411 TTGACTTTCGGGTGAGCATC 58.192 50.000 0.00 0.00 0.00 3.91
3266 3341 0.976641 TGACTTTCGGGTGAGCATCT 59.023 50.000 0.00 0.00 34.92 2.90
3267 3342 2.176045 TGACTTTCGGGTGAGCATCTA 58.824 47.619 0.00 0.00 34.92 1.98
3268 3343 2.766263 TGACTTTCGGGTGAGCATCTAT 59.234 45.455 0.00 0.00 34.92 1.98
3269 3344 3.181475 TGACTTTCGGGTGAGCATCTATC 60.181 47.826 0.00 0.00 34.92 2.08
3270 3345 2.766263 ACTTTCGGGTGAGCATCTATCA 59.234 45.455 0.00 0.00 34.92 2.15
3271 3346 3.197766 ACTTTCGGGTGAGCATCTATCAA 59.802 43.478 0.00 0.00 34.92 2.57
3272 3347 3.459232 TTCGGGTGAGCATCTATCAAG 57.541 47.619 0.00 0.00 34.92 3.02
3273 3348 1.688735 TCGGGTGAGCATCTATCAAGG 59.311 52.381 0.00 0.00 34.92 3.61
3274 3349 1.414181 CGGGTGAGCATCTATCAAGGT 59.586 52.381 0.00 0.00 34.92 3.50
3275 3350 2.158900 CGGGTGAGCATCTATCAAGGTT 60.159 50.000 0.00 0.00 34.92 3.50
3276 3351 3.682718 CGGGTGAGCATCTATCAAGGTTT 60.683 47.826 0.00 0.00 34.92 3.27
3277 3352 4.442893 CGGGTGAGCATCTATCAAGGTTTA 60.443 45.833 0.00 0.00 34.92 2.01
3278 3353 4.816925 GGGTGAGCATCTATCAAGGTTTAC 59.183 45.833 0.00 0.00 34.92 2.01
3279 3354 5.396884 GGGTGAGCATCTATCAAGGTTTACT 60.397 44.000 0.00 0.00 34.92 2.24
3280 3355 6.116126 GGTGAGCATCTATCAAGGTTTACTT 58.884 40.000 0.00 0.00 36.25 2.24
3281 3356 6.599638 GGTGAGCATCTATCAAGGTTTACTTT 59.400 38.462 0.00 0.00 34.22 2.66
3282 3357 7.121315 GGTGAGCATCTATCAAGGTTTACTTTT 59.879 37.037 0.00 0.00 34.22 2.27
3283 3358 8.515414 GTGAGCATCTATCAAGGTTTACTTTTT 58.485 33.333 0.00 0.00 34.22 1.94
3284 3359 8.730680 TGAGCATCTATCAAGGTTTACTTTTTC 58.269 33.333 0.00 0.00 34.22 2.29
3285 3360 8.870075 AGCATCTATCAAGGTTTACTTTTTCT 57.130 30.769 0.00 0.00 37.29 2.52
3286 3361 9.301897 AGCATCTATCAAGGTTTACTTTTTCTT 57.698 29.630 0.00 0.00 37.29 2.52
3287 3362 9.914131 GCATCTATCAAGGTTTACTTTTTCTTT 57.086 29.630 0.00 0.00 37.29 2.52
3298 3373 9.650371 GGTTTACTTTTTCTTTGATGAAAATGC 57.350 29.630 12.37 0.00 42.94 3.56
3302 3377 8.897872 ACTTTTTCTTTGATGAAAATGCATCT 57.102 26.923 0.00 0.00 42.94 2.90
3303 3378 8.770828 ACTTTTTCTTTGATGAAAATGCATCTG 58.229 29.630 0.00 0.00 42.94 2.90
3304 3379 6.715344 TTTCTTTGATGAAAATGCATCTGC 57.285 33.333 0.00 0.00 43.89 4.26
3305 3380 5.654603 TCTTTGATGAAAATGCATCTGCT 57.345 34.783 0.00 0.00 43.89 4.24
3306 3381 5.407502 TCTTTGATGAAAATGCATCTGCTG 58.592 37.500 0.00 0.00 43.89 4.41
3307 3382 8.947657 TTTCTTTGATGAAAATGCATCTGCTGC 61.948 37.037 0.00 0.00 43.89 5.25
3318 3393 1.917955 CATCTGCTGCTTTTCATTGCG 59.082 47.619 0.00 0.00 0.00 4.85
3319 3394 1.237533 TCTGCTGCTTTTCATTGCGA 58.762 45.000 0.00 0.00 0.00 5.10
3320 3395 1.814394 TCTGCTGCTTTTCATTGCGAT 59.186 42.857 0.00 0.00 0.00 4.58
3321 3396 2.229543 TCTGCTGCTTTTCATTGCGATT 59.770 40.909 0.00 0.00 0.00 3.34
3322 3397 3.439825 TCTGCTGCTTTTCATTGCGATTA 59.560 39.130 0.00 0.00 0.00 1.75
3323 3398 3.761657 TGCTGCTTTTCATTGCGATTAG 58.238 40.909 0.00 0.00 0.00 1.73
3324 3399 3.191162 TGCTGCTTTTCATTGCGATTAGT 59.809 39.130 0.00 0.00 0.00 2.24
3325 3400 4.394610 TGCTGCTTTTCATTGCGATTAGTA 59.605 37.500 0.00 0.00 0.00 1.82
3326 3401 5.106357 TGCTGCTTTTCATTGCGATTAGTAA 60.106 36.000 0.00 0.00 0.00 2.24
3327 3402 5.453587 GCTGCTTTTCATTGCGATTAGTAAG 59.546 40.000 0.00 0.00 0.00 2.34
3328 3403 6.675486 GCTGCTTTTCATTGCGATTAGTAAGA 60.675 38.462 0.00 0.00 0.00 2.10
3329 3404 6.775088 TGCTTTTCATTGCGATTAGTAAGAG 58.225 36.000 0.00 0.00 0.00 2.85
3330 3405 6.371548 TGCTTTTCATTGCGATTAGTAAGAGT 59.628 34.615 0.00 0.00 0.00 3.24
3331 3406 7.547722 TGCTTTTCATTGCGATTAGTAAGAGTA 59.452 33.333 0.00 0.00 0.00 2.59
3332 3407 8.388103 GCTTTTCATTGCGATTAGTAAGAGTAA 58.612 33.333 0.00 0.00 0.00 2.24
3336 3411 8.942338 TCATTGCGATTAGTAAGAGTAAATGT 57.058 30.769 0.00 0.00 0.00 2.71
3337 3412 9.378551 TCATTGCGATTAGTAAGAGTAAATGTT 57.621 29.630 0.00 0.00 0.00 2.71
3357 3432 9.942526 AAATGTTATAAATGAAGAGAAGGGGAT 57.057 29.630 0.00 0.00 0.00 3.85
3358 3433 8.930846 ATGTTATAAATGAAGAGAAGGGGATG 57.069 34.615 0.00 0.00 0.00 3.51
3359 3434 7.290061 TGTTATAAATGAAGAGAAGGGGATGG 58.710 38.462 0.00 0.00 0.00 3.51
3360 3435 3.677156 AAATGAAGAGAAGGGGATGGG 57.323 47.619 0.00 0.00 0.00 4.00
3361 3436 2.594536 ATGAAGAGAAGGGGATGGGA 57.405 50.000 0.00 0.00 0.00 4.37
3362 3437 2.359376 TGAAGAGAAGGGGATGGGAA 57.641 50.000 0.00 0.00 0.00 3.97
3363 3438 2.642982 TGAAGAGAAGGGGATGGGAAA 58.357 47.619 0.00 0.00 0.00 3.13
3364 3439 2.993146 TGAAGAGAAGGGGATGGGAAAA 59.007 45.455 0.00 0.00 0.00 2.29
3365 3440 3.010584 TGAAGAGAAGGGGATGGGAAAAG 59.989 47.826 0.00 0.00 0.00 2.27
3366 3441 2.934722 AGAGAAGGGGATGGGAAAAGA 58.065 47.619 0.00 0.00 0.00 2.52
3367 3442 3.478991 AGAGAAGGGGATGGGAAAAGAT 58.521 45.455 0.00 0.00 0.00 2.40
3368 3443 3.461458 AGAGAAGGGGATGGGAAAAGATC 59.539 47.826 0.00 0.00 0.00 2.75
3369 3444 3.201363 AGAAGGGGATGGGAAAAGATCA 58.799 45.455 0.00 0.00 0.00 2.92
3370 3445 3.597868 AGAAGGGGATGGGAAAAGATCAA 59.402 43.478 0.00 0.00 0.00 2.57
3371 3446 4.045846 AGAAGGGGATGGGAAAAGATCAAA 59.954 41.667 0.00 0.00 0.00 2.69
3372 3447 3.986435 AGGGGATGGGAAAAGATCAAAG 58.014 45.455 0.00 0.00 0.00 2.77
3373 3448 3.597868 AGGGGATGGGAAAAGATCAAAGA 59.402 43.478 0.00 0.00 0.00 2.52
3374 3449 4.233755 AGGGGATGGGAAAAGATCAAAGAT 59.766 41.667 0.00 0.00 0.00 2.40
3375 3450 5.436374 AGGGGATGGGAAAAGATCAAAGATA 59.564 40.000 0.00 0.00 0.00 1.98
3376 3451 6.068260 AGGGGATGGGAAAAGATCAAAGATAA 60.068 38.462 0.00 0.00 0.00 1.75
3377 3452 6.611236 GGGGATGGGAAAAGATCAAAGATAAA 59.389 38.462 0.00 0.00 0.00 1.40
3378 3453 7.125659 GGGGATGGGAAAAGATCAAAGATAAAA 59.874 37.037 0.00 0.00 0.00 1.52
3379 3454 8.539544 GGGATGGGAAAAGATCAAAGATAAAAA 58.460 33.333 0.00 0.00 0.00 1.94
3393 3468 9.921637 TCAAAGATAAAAATACAATTGTGGGTC 57.078 29.630 21.42 9.02 0.00 4.46
3394 3469 9.927668 CAAAGATAAAAATACAATTGTGGGTCT 57.072 29.630 21.42 10.90 0.00 3.85
3401 3476 9.927668 AAAAATACAATTGTGGGTCTTAATCTG 57.072 29.630 21.42 0.00 0.00 2.90
3402 3477 7.645058 AATACAATTGTGGGTCTTAATCTGG 57.355 36.000 21.42 0.00 0.00 3.86
3403 3478 3.763897 ACAATTGTGGGTCTTAATCTGGC 59.236 43.478 11.07 0.00 0.00 4.85
3404 3479 4.019174 CAATTGTGGGTCTTAATCTGGCT 58.981 43.478 0.00 0.00 0.00 4.75
3405 3480 3.350219 TTGTGGGTCTTAATCTGGCTC 57.650 47.619 0.00 0.00 0.00 4.70
3406 3481 2.265367 TGTGGGTCTTAATCTGGCTCA 58.735 47.619 0.00 0.00 0.00 4.26
3407 3482 2.642311 TGTGGGTCTTAATCTGGCTCAA 59.358 45.455 0.00 0.00 0.00 3.02
3408 3483 3.274288 GTGGGTCTTAATCTGGCTCAAG 58.726 50.000 0.00 0.00 0.00 3.02
3409 3484 3.055094 GTGGGTCTTAATCTGGCTCAAGA 60.055 47.826 0.00 0.00 0.00 3.02
3410 3485 3.198635 TGGGTCTTAATCTGGCTCAAGAG 59.801 47.826 0.00 0.00 0.00 2.85
3411 3486 3.432890 GGGTCTTAATCTGGCTCAAGAGG 60.433 52.174 0.00 0.00 0.00 3.69
3412 3487 3.198853 GGTCTTAATCTGGCTCAAGAGGT 59.801 47.826 0.00 0.00 0.00 3.85
3413 3488 4.406003 GGTCTTAATCTGGCTCAAGAGGTA 59.594 45.833 0.00 0.00 0.00 3.08
3414 3489 5.071115 GGTCTTAATCTGGCTCAAGAGGTAT 59.929 44.000 0.00 0.00 0.00 2.73
3415 3490 6.408662 GGTCTTAATCTGGCTCAAGAGGTATT 60.409 42.308 0.00 0.00 0.00 1.89
3416 3491 6.704050 GTCTTAATCTGGCTCAAGAGGTATTC 59.296 42.308 0.00 0.00 0.00 1.75
3417 3492 6.613271 TCTTAATCTGGCTCAAGAGGTATTCT 59.387 38.462 0.00 0.00 37.93 2.40
3418 3493 7.785028 TCTTAATCTGGCTCAAGAGGTATTCTA 59.215 37.037 0.00 0.00 34.14 2.10
3419 3494 6.814954 AATCTGGCTCAAGAGGTATTCTAA 57.185 37.500 0.00 0.00 34.14 2.10
3420 3495 7.385894 AATCTGGCTCAAGAGGTATTCTAAT 57.614 36.000 0.00 0.00 34.14 1.73
3421 3496 6.166984 TCTGGCTCAAGAGGTATTCTAATG 57.833 41.667 0.00 0.00 34.14 1.90
3422 3497 5.070981 TCTGGCTCAAGAGGTATTCTAATGG 59.929 44.000 0.00 0.00 34.14 3.16
3423 3498 4.103153 TGGCTCAAGAGGTATTCTAATGGG 59.897 45.833 0.00 0.00 34.14 4.00
3424 3499 4.068599 GCTCAAGAGGTATTCTAATGGGC 58.931 47.826 0.00 0.00 34.14 5.36
3425 3500 4.646572 CTCAAGAGGTATTCTAATGGGCC 58.353 47.826 0.00 0.00 34.14 5.80
3426 3501 3.071023 TCAAGAGGTATTCTAATGGGCCG 59.929 47.826 0.00 0.00 34.14 6.13
3427 3502 2.690840 AGAGGTATTCTAATGGGCCGT 58.309 47.619 0.00 0.00 33.23 5.68
3428 3503 2.633481 AGAGGTATTCTAATGGGCCGTC 59.367 50.000 0.00 0.00 33.23 4.79
3429 3504 2.367567 GAGGTATTCTAATGGGCCGTCA 59.632 50.000 0.00 0.00 0.00 4.35
3430 3505 2.104281 AGGTATTCTAATGGGCCGTCAC 59.896 50.000 0.00 0.00 0.00 3.67
3431 3506 2.104281 GGTATTCTAATGGGCCGTCACT 59.896 50.000 0.00 0.00 0.00 3.41
3432 3507 2.622064 ATTCTAATGGGCCGTCACTC 57.378 50.000 0.00 0.00 0.00 3.51
3433 3508 1.568504 TTCTAATGGGCCGTCACTCT 58.431 50.000 0.00 0.00 0.00 3.24
3434 3509 2.447408 TCTAATGGGCCGTCACTCTA 57.553 50.000 0.00 0.00 0.00 2.43
3435 3510 2.029623 TCTAATGGGCCGTCACTCTAC 58.970 52.381 0.00 0.00 0.00 2.59
3436 3511 0.742505 TAATGGGCCGTCACTCTACG 59.257 55.000 0.00 0.00 42.49 3.51
3437 3512 1.255667 AATGGGCCGTCACTCTACGT 61.256 55.000 0.00 0.00 41.27 3.57
3438 3513 1.664321 ATGGGCCGTCACTCTACGTC 61.664 60.000 0.00 0.00 41.27 4.34
3439 3514 2.045131 GGGCCGTCACTCTACGTCT 61.045 63.158 0.00 0.00 41.27 4.18
3440 3515 1.593296 GGGCCGTCACTCTACGTCTT 61.593 60.000 0.00 0.00 41.27 3.01
3441 3516 0.179169 GGCCGTCACTCTACGTCTTC 60.179 60.000 0.00 0.00 41.27 2.87
3442 3517 0.179169 GCCGTCACTCTACGTCTTCC 60.179 60.000 0.00 0.00 41.27 3.46
3443 3518 1.451067 CCGTCACTCTACGTCTTCCT 58.549 55.000 0.00 0.00 41.27 3.36
3444 3519 1.811359 CCGTCACTCTACGTCTTCCTT 59.189 52.381 0.00 0.00 41.27 3.36
3445 3520 2.159544 CCGTCACTCTACGTCTTCCTTC 60.160 54.545 0.00 0.00 41.27 3.46
3446 3521 2.483106 CGTCACTCTACGTCTTCCTTCA 59.517 50.000 0.00 0.00 38.07 3.02
3447 3522 3.127203 CGTCACTCTACGTCTTCCTTCAT 59.873 47.826 0.00 0.00 38.07 2.57
3448 3523 4.379603 CGTCACTCTACGTCTTCCTTCATT 60.380 45.833 0.00 0.00 38.07 2.57
3449 3524 5.096849 GTCACTCTACGTCTTCCTTCATTC 58.903 45.833 0.00 0.00 0.00 2.67
3450 3525 4.765339 TCACTCTACGTCTTCCTTCATTCA 59.235 41.667 0.00 0.00 0.00 2.57
3451 3526 4.859798 CACTCTACGTCTTCCTTCATTCAC 59.140 45.833 0.00 0.00 0.00 3.18
3452 3527 4.082136 ACTCTACGTCTTCCTTCATTCACC 60.082 45.833 0.00 0.00 0.00 4.02
3453 3528 2.474410 ACGTCTTCCTTCATTCACCC 57.526 50.000 0.00 0.00 0.00 4.61
3454 3529 1.697432 ACGTCTTCCTTCATTCACCCA 59.303 47.619 0.00 0.00 0.00 4.51
3455 3530 2.305927 ACGTCTTCCTTCATTCACCCAT 59.694 45.455 0.00 0.00 0.00 4.00
3456 3531 3.244911 ACGTCTTCCTTCATTCACCCATT 60.245 43.478 0.00 0.00 0.00 3.16
3457 3532 3.375299 CGTCTTCCTTCATTCACCCATTC 59.625 47.826 0.00 0.00 0.00 2.67
3458 3533 3.696548 GTCTTCCTTCATTCACCCATTCC 59.303 47.826 0.00 0.00 0.00 3.01
3459 3534 3.333381 TCTTCCTTCATTCACCCATTCCA 59.667 43.478 0.00 0.00 0.00 3.53
3460 3535 4.017222 TCTTCCTTCATTCACCCATTCCAT 60.017 41.667 0.00 0.00 0.00 3.41
3461 3536 5.193527 TCTTCCTTCATTCACCCATTCCATA 59.806 40.000 0.00 0.00 0.00 2.74
3462 3537 5.052693 TCCTTCATTCACCCATTCCATAG 57.947 43.478 0.00 0.00 0.00 2.23
3463 3538 3.571401 CCTTCATTCACCCATTCCATAGC 59.429 47.826 0.00 0.00 0.00 2.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.675844 GGCCCATTTTGCGGTTTATTTC 59.324 45.455 0.00 0.00 0.00 2.17
106 107 1.601419 CGGCGGGTGAGAAGGAGTAA 61.601 60.000 0.00 0.00 0.00 2.24
128 135 4.160635 CGCGGTCGTGAATTGGGC 62.161 66.667 0.00 0.00 0.00 5.36
205 212 9.210228 AGTAGCTTACAAAATAGTATAGGGTGT 57.790 33.333 0.00 0.00 0.00 4.16
212 219 8.155510 GGCCCTAAGTAGCTTACAAAATAGTAT 58.844 37.037 0.00 0.00 0.00 2.12
249 256 1.741401 CGCCCGTCTGCTGAAATCA 60.741 57.895 0.00 0.00 0.00 2.57
263 270 5.388408 AGCTACAAGATAGTATAACGCCC 57.612 43.478 0.00 0.00 0.00 6.13
328 336 2.171237 TCTGGATTGATGGAACGATGCT 59.829 45.455 0.00 0.00 0.00 3.79
333 341 1.605710 GGCATCTGGATTGATGGAACG 59.394 52.381 6.62 0.00 42.82 3.95
420 430 8.060020 TGCAAAGAACAAAGAACATTAATTCG 57.940 30.769 0.00 0.00 33.57 3.34
483 493 1.271856 TGGAAATGCCGGTGTCTAGA 58.728 50.000 1.90 0.00 40.66 2.43
603 613 6.463995 AGGTTTGCTTCTTGACATTTACAA 57.536 33.333 0.00 0.00 0.00 2.41
670 680 1.921887 GGAATGTTGCACGCATCAATG 59.078 47.619 6.85 0.00 30.69 2.82
742 752 5.925509 AGGAAGTGTTTAACTGAGCACTAA 58.074 37.500 0.00 0.00 40.79 2.24
743 753 5.546621 AGGAAGTGTTTAACTGAGCACTA 57.453 39.130 0.00 0.00 40.79 2.74
835 847 4.141733 CCAACAAATGTGAACCTTTCCCTT 60.142 41.667 0.00 0.00 0.00 3.95
837 849 3.133901 ACCAACAAATGTGAACCTTTCCC 59.866 43.478 0.00 0.00 0.00 3.97
961 974 5.123344 GTGCTGATGGGTAATCTTAACGTTT 59.877 40.000 5.91 0.00 36.15 3.60
1329 1342 6.463614 CGAGATATCCAAGACCAGAATCCTTT 60.464 42.308 0.00 0.00 0.00 3.11
1413 1426 1.323412 CTACCACTGAGAGGATCCCG 58.677 60.000 8.55 0.00 33.66 5.14
1425 1438 2.172717 AGTCTTGCAACCAACTACCACT 59.827 45.455 0.00 0.00 0.00 4.00
1474 1487 0.530870 CCCTCGCTCCCGATTTTCTC 60.531 60.000 0.00 0.00 43.47 2.87
1521 1536 3.304928 CCACAACAAGCTCTTCCAATGAC 60.305 47.826 0.00 0.00 0.00 3.06
1779 1803 1.648116 ATGCTTTGCACTTCCCCAAT 58.352 45.000 0.00 0.00 43.04 3.16
2405 2477 1.592400 CTCGGCGGAGTACTGAACCA 61.592 60.000 12.89 0.00 35.48 3.67
2486 2558 0.682209 GTCCAGCATGAACCCAGCAT 60.682 55.000 0.00 0.00 39.69 3.79
2539 2611 1.035932 GGGAGTAGCACCGTAGAGCA 61.036 60.000 0.00 0.00 0.00 4.26
2540 2612 0.752376 AGGGAGTAGCACCGTAGAGC 60.752 60.000 0.00 0.00 0.00 4.09
2548 2622 5.609533 TTATAGGACAAAGGGAGTAGCAC 57.390 43.478 0.00 0.00 0.00 4.40
2625 2699 5.681494 AGTACTCCCTCTGTCCCATAATA 57.319 43.478 0.00 0.00 0.00 0.98
2756 2830 2.627863 TTATGTTGAACACCGCATGC 57.372 45.000 7.91 7.91 0.00 4.06
2796 2870 4.682778 TTACAGGTTGCAGAAGTACAGT 57.317 40.909 0.00 0.00 0.00 3.55
2823 2897 5.304101 ACAGCCATATTCAAAACTGTTTCCA 59.696 36.000 6.20 0.00 34.89 3.53
2917 2992 3.248029 GCGCAGGCCAGATATTCG 58.752 61.111 5.01 0.00 0.00 3.34
2928 3003 0.392998 AAACAGACTATGGGCGCAGG 60.393 55.000 10.83 7.27 0.00 4.85
2929 3004 1.131126 CAAAACAGACTATGGGCGCAG 59.869 52.381 10.83 0.00 0.00 5.18
2930 3005 1.164411 CAAAACAGACTATGGGCGCA 58.836 50.000 10.83 5.70 0.00 6.09
2931 3006 1.165270 ACAAAACAGACTATGGGCGC 58.835 50.000 0.00 0.00 0.00 6.53
2932 3007 3.915437 AAACAAAACAGACTATGGGCG 57.085 42.857 0.00 0.00 0.00 6.13
2933 3008 6.327279 ACTTAAACAAAACAGACTATGGGC 57.673 37.500 0.00 0.00 0.00 5.36
3005 3080 1.205417 CCATTGCCCAGCCTACAAAAG 59.795 52.381 0.00 0.00 0.00 2.27
3023 3098 3.679361 GCACATATCCTTGCAAATTGCCA 60.679 43.478 15.98 3.21 44.23 4.92
3053 3128 4.927425 GTCAATCCTTTGTAGTTGCGAGTA 59.073 41.667 0.00 0.00 34.32 2.59
3100 3175 0.790207 AACACTGCGTCTATTGCACG 59.210 50.000 0.00 0.00 37.44 5.34
3101 3176 1.798223 TGAACACTGCGTCTATTGCAC 59.202 47.619 0.00 0.00 37.44 4.57
3102 3177 2.162319 TGAACACTGCGTCTATTGCA 57.838 45.000 0.00 0.00 40.70 4.08
3103 3178 4.271049 ACATATGAACACTGCGTCTATTGC 59.729 41.667 10.38 0.00 0.00 3.56
3104 3179 5.731278 CACATATGAACACTGCGTCTATTG 58.269 41.667 10.38 0.00 0.00 1.90
3105 3180 4.271049 GCACATATGAACACTGCGTCTATT 59.729 41.667 10.38 0.00 0.00 1.73
3106 3181 3.804325 GCACATATGAACACTGCGTCTAT 59.196 43.478 10.38 0.00 0.00 1.98
3107 3182 3.186909 GCACATATGAACACTGCGTCTA 58.813 45.455 10.38 0.00 0.00 2.59
3108 3183 2.002586 GCACATATGAACACTGCGTCT 58.997 47.619 10.38 0.00 0.00 4.18
3109 3184 1.731709 TGCACATATGAACACTGCGTC 59.268 47.619 10.38 0.00 0.00 5.19
3110 3185 1.807139 TGCACATATGAACACTGCGT 58.193 45.000 10.38 0.00 0.00 5.24
3111 3186 2.898181 TTGCACATATGAACACTGCG 57.102 45.000 10.38 0.00 0.00 5.18
3112 3187 5.505286 GTCTATTGCACATATGAACACTGC 58.495 41.667 10.38 8.97 0.00 4.40
3113 3188 5.731278 CGTCTATTGCACATATGAACACTG 58.269 41.667 10.38 0.00 0.00 3.66
3114 3189 4.271049 GCGTCTATTGCACATATGAACACT 59.729 41.667 10.38 4.02 0.00 3.55
3115 3190 4.033932 TGCGTCTATTGCACATATGAACAC 59.966 41.667 10.38 0.00 37.44 3.32
3116 3191 4.187694 TGCGTCTATTGCACATATGAACA 58.812 39.130 10.38 3.98 37.44 3.18
3117 3192 4.271049 ACTGCGTCTATTGCACATATGAAC 59.729 41.667 10.38 1.10 37.44 3.18
3118 3193 4.270808 CACTGCGTCTATTGCACATATGAA 59.729 41.667 10.38 0.00 37.44 2.57
3119 3194 3.803778 CACTGCGTCTATTGCACATATGA 59.196 43.478 10.38 0.00 37.44 2.15
3120 3195 3.557185 ACACTGCGTCTATTGCACATATG 59.443 43.478 0.00 0.00 37.44 1.78
3121 3196 3.797039 ACACTGCGTCTATTGCACATAT 58.203 40.909 0.00 0.00 37.44 1.78
3122 3197 3.245518 ACACTGCGTCTATTGCACATA 57.754 42.857 0.00 0.00 37.44 2.29
3123 3198 2.099141 ACACTGCGTCTATTGCACAT 57.901 45.000 0.00 0.00 37.44 3.21
3124 3199 1.798223 GAACACTGCGTCTATTGCACA 59.202 47.619 0.00 0.00 37.44 4.57
3152 3227 3.934457 ACTTTTGCCTCCGTATTTTGG 57.066 42.857 0.00 0.00 0.00 3.28
3200 3275 9.221933 TGTCTTTTATCTTGCTTTCCGTATTTA 57.778 29.630 0.00 0.00 0.00 1.40
3239 3314 4.439563 GCTCACCCGAAAGTCAAAGAAAAA 60.440 41.667 0.00 0.00 0.00 1.94
3240 3315 3.066203 GCTCACCCGAAAGTCAAAGAAAA 59.934 43.478 0.00 0.00 0.00 2.29
3241 3316 2.616842 GCTCACCCGAAAGTCAAAGAAA 59.383 45.455 0.00 0.00 0.00 2.52
3242 3317 2.218603 GCTCACCCGAAAGTCAAAGAA 58.781 47.619 0.00 0.00 0.00 2.52
3243 3318 1.140052 TGCTCACCCGAAAGTCAAAGA 59.860 47.619 0.00 0.00 0.00 2.52
3244 3319 1.593196 TGCTCACCCGAAAGTCAAAG 58.407 50.000 0.00 0.00 0.00 2.77
3245 3320 2.151202 GATGCTCACCCGAAAGTCAAA 58.849 47.619 0.00 0.00 0.00 2.69
3246 3321 1.347707 AGATGCTCACCCGAAAGTCAA 59.652 47.619 0.00 0.00 0.00 3.18
3247 3322 0.976641 AGATGCTCACCCGAAAGTCA 59.023 50.000 0.00 0.00 0.00 3.41
3248 3323 2.961526 TAGATGCTCACCCGAAAGTC 57.038 50.000 0.00 0.00 0.00 3.01
3249 3324 2.766263 TGATAGATGCTCACCCGAAAGT 59.234 45.455 0.00 0.00 0.00 2.66
3250 3325 3.459232 TGATAGATGCTCACCCGAAAG 57.541 47.619 0.00 0.00 0.00 2.62
3251 3326 3.432186 CCTTGATAGATGCTCACCCGAAA 60.432 47.826 0.00 0.00 0.00 3.46
3252 3327 2.103094 CCTTGATAGATGCTCACCCGAA 59.897 50.000 0.00 0.00 0.00 4.30
3253 3328 1.688735 CCTTGATAGATGCTCACCCGA 59.311 52.381 0.00 0.00 0.00 5.14
3254 3329 1.414181 ACCTTGATAGATGCTCACCCG 59.586 52.381 0.00 0.00 0.00 5.28
3255 3330 3.567478 AACCTTGATAGATGCTCACCC 57.433 47.619 0.00 0.00 0.00 4.61
3256 3331 5.675538 AGTAAACCTTGATAGATGCTCACC 58.324 41.667 0.00 0.00 0.00 4.02
3257 3332 7.617041 AAAGTAAACCTTGATAGATGCTCAC 57.383 36.000 0.00 0.00 32.32 3.51
3258 3333 8.635765 AAAAAGTAAACCTTGATAGATGCTCA 57.364 30.769 0.00 0.00 32.32 4.26
3259 3334 8.951243 AGAAAAAGTAAACCTTGATAGATGCTC 58.049 33.333 0.00 0.00 32.32 4.26
3260 3335 8.870075 AGAAAAAGTAAACCTTGATAGATGCT 57.130 30.769 0.00 0.00 32.32 3.79
3261 3336 9.914131 AAAGAAAAAGTAAACCTTGATAGATGC 57.086 29.630 0.00 0.00 32.32 3.91
3272 3347 9.650371 GCATTTTCATCAAAGAAAAAGTAAACC 57.350 29.630 6.03 0.00 46.81 3.27
3276 3351 9.985730 AGATGCATTTTCATCAAAGAAAAAGTA 57.014 25.926 0.00 2.61 46.81 2.24
3277 3352 8.770828 CAGATGCATTTTCATCAAAGAAAAAGT 58.229 29.630 0.00 0.00 46.81 2.66
3278 3353 7.744715 GCAGATGCATTTTCATCAAAGAAAAAG 59.255 33.333 0.00 3.59 46.81 2.27
3279 3354 7.442969 AGCAGATGCATTTTCATCAAAGAAAAA 59.557 29.630 0.00 0.00 42.94 1.94
3280 3355 6.932400 AGCAGATGCATTTTCATCAAAGAAAA 59.068 30.769 0.00 4.57 43.94 2.29
3281 3356 6.367695 CAGCAGATGCATTTTCATCAAAGAAA 59.632 34.615 0.00 0.00 43.94 2.52
3282 3357 5.867174 CAGCAGATGCATTTTCATCAAAGAA 59.133 36.000 0.00 0.00 43.94 2.52
3283 3358 5.407502 CAGCAGATGCATTTTCATCAAAGA 58.592 37.500 0.00 0.00 43.94 2.52
3284 3359 5.702622 CAGCAGATGCATTTTCATCAAAG 57.297 39.130 0.00 0.00 43.94 2.77
3298 3373 1.917955 CGCAATGAAAAGCAGCAGATG 59.082 47.619 0.00 0.00 0.00 2.90
3299 3374 1.814394 TCGCAATGAAAAGCAGCAGAT 59.186 42.857 0.00 0.00 0.00 2.90
3300 3375 1.237533 TCGCAATGAAAAGCAGCAGA 58.762 45.000 0.00 0.00 0.00 4.26
3301 3376 2.273370 ATCGCAATGAAAAGCAGCAG 57.727 45.000 0.00 0.00 0.00 4.24
3302 3377 2.728690 AATCGCAATGAAAAGCAGCA 57.271 40.000 0.00 0.00 0.00 4.41
3303 3378 3.762779 ACTAATCGCAATGAAAAGCAGC 58.237 40.909 0.00 0.00 0.00 5.25
3304 3379 6.775088 TCTTACTAATCGCAATGAAAAGCAG 58.225 36.000 0.00 0.00 0.00 4.24
3305 3380 6.371548 ACTCTTACTAATCGCAATGAAAAGCA 59.628 34.615 0.00 0.00 0.00 3.91
3306 3381 6.776094 ACTCTTACTAATCGCAATGAAAAGC 58.224 36.000 0.00 0.00 0.00 3.51
3310 3385 9.378551 ACATTTACTCTTACTAATCGCAATGAA 57.621 29.630 0.00 0.00 0.00 2.57
3311 3386 8.942338 ACATTTACTCTTACTAATCGCAATGA 57.058 30.769 0.00 0.00 0.00 2.57
3331 3406 9.942526 ATCCCCTTCTCTTCATTTATAACATTT 57.057 29.630 0.00 0.00 0.00 2.32
3332 3407 9.359653 CATCCCCTTCTCTTCATTTATAACATT 57.640 33.333 0.00 0.00 0.00 2.71
3333 3408 7.946776 CCATCCCCTTCTCTTCATTTATAACAT 59.053 37.037 0.00 0.00 0.00 2.71
3334 3409 7.290061 CCATCCCCTTCTCTTCATTTATAACA 58.710 38.462 0.00 0.00 0.00 2.41
3335 3410 6.717084 CCCATCCCCTTCTCTTCATTTATAAC 59.283 42.308 0.00 0.00 0.00 1.89
3336 3411 6.623602 TCCCATCCCCTTCTCTTCATTTATAA 59.376 38.462 0.00 0.00 0.00 0.98
3337 3412 6.157536 TCCCATCCCCTTCTCTTCATTTATA 58.842 40.000 0.00 0.00 0.00 0.98
3338 3413 4.984268 TCCCATCCCCTTCTCTTCATTTAT 59.016 41.667 0.00 0.00 0.00 1.40
3339 3414 4.379875 TCCCATCCCCTTCTCTTCATTTA 58.620 43.478 0.00 0.00 0.00 1.40
3340 3415 3.201363 TCCCATCCCCTTCTCTTCATTT 58.799 45.455 0.00 0.00 0.00 2.32
3341 3416 2.863884 TCCCATCCCCTTCTCTTCATT 58.136 47.619 0.00 0.00 0.00 2.57
3342 3417 2.594536 TCCCATCCCCTTCTCTTCAT 57.405 50.000 0.00 0.00 0.00 2.57
3343 3418 2.359376 TTCCCATCCCCTTCTCTTCA 57.641 50.000 0.00 0.00 0.00 3.02
3344 3419 3.267031 TCTTTTCCCATCCCCTTCTCTTC 59.733 47.826 0.00 0.00 0.00 2.87
3345 3420 3.269034 TCTTTTCCCATCCCCTTCTCTT 58.731 45.455 0.00 0.00 0.00 2.85
3346 3421 2.934722 TCTTTTCCCATCCCCTTCTCT 58.065 47.619 0.00 0.00 0.00 3.10
3347 3422 3.203040 TGATCTTTTCCCATCCCCTTCTC 59.797 47.826 0.00 0.00 0.00 2.87
3348 3423 3.201363 TGATCTTTTCCCATCCCCTTCT 58.799 45.455 0.00 0.00 0.00 2.85
3349 3424 3.669939 TGATCTTTTCCCATCCCCTTC 57.330 47.619 0.00 0.00 0.00 3.46
3350 3425 4.045846 TCTTTGATCTTTTCCCATCCCCTT 59.954 41.667 0.00 0.00 0.00 3.95
3351 3426 3.597868 TCTTTGATCTTTTCCCATCCCCT 59.402 43.478 0.00 0.00 0.00 4.79
3352 3427 3.981212 TCTTTGATCTTTTCCCATCCCC 58.019 45.455 0.00 0.00 0.00 4.81
3353 3428 7.660030 TTTATCTTTGATCTTTTCCCATCCC 57.340 36.000 0.00 0.00 0.00 3.85
3367 3442 9.921637 GACCCACAATTGTATTTTTATCTTTGA 57.078 29.630 11.53 0.00 0.00 2.69
3368 3443 9.927668 AGACCCACAATTGTATTTTTATCTTTG 57.072 29.630 11.53 0.00 0.00 2.77
3375 3450 9.927668 CAGATTAAGACCCACAATTGTATTTTT 57.072 29.630 11.53 5.42 0.00 1.94
3376 3451 8.531146 CCAGATTAAGACCCACAATTGTATTTT 58.469 33.333 11.53 4.49 0.00 1.82
3377 3452 7.363793 GCCAGATTAAGACCCACAATTGTATTT 60.364 37.037 11.53 4.42 0.00 1.40
3378 3453 6.096846 GCCAGATTAAGACCCACAATTGTATT 59.903 38.462 11.53 4.38 0.00 1.89
3379 3454 5.594317 GCCAGATTAAGACCCACAATTGTAT 59.406 40.000 11.53 0.00 0.00 2.29
3380 3455 4.947388 GCCAGATTAAGACCCACAATTGTA 59.053 41.667 11.53 0.00 0.00 2.41
3381 3456 3.763897 GCCAGATTAAGACCCACAATTGT 59.236 43.478 4.92 4.92 0.00 2.71
3382 3457 4.019174 AGCCAGATTAAGACCCACAATTG 58.981 43.478 3.24 3.24 0.00 2.32
3383 3458 4.263905 TGAGCCAGATTAAGACCCACAATT 60.264 41.667 0.00 0.00 0.00 2.32
3384 3459 3.266772 TGAGCCAGATTAAGACCCACAAT 59.733 43.478 0.00 0.00 0.00 2.71
3385 3460 2.642311 TGAGCCAGATTAAGACCCACAA 59.358 45.455 0.00 0.00 0.00 3.33
3386 3461 2.265367 TGAGCCAGATTAAGACCCACA 58.735 47.619 0.00 0.00 0.00 4.17
3387 3462 3.055094 TCTTGAGCCAGATTAAGACCCAC 60.055 47.826 0.00 0.00 0.00 4.61
3388 3463 3.181329 TCTTGAGCCAGATTAAGACCCA 58.819 45.455 0.00 0.00 0.00 4.51
3389 3464 3.432890 CCTCTTGAGCCAGATTAAGACCC 60.433 52.174 0.00 0.00 0.00 4.46
3390 3465 3.198853 ACCTCTTGAGCCAGATTAAGACC 59.801 47.826 0.00 0.00 0.00 3.85
3391 3466 4.479786 ACCTCTTGAGCCAGATTAAGAC 57.520 45.455 0.00 0.00 0.00 3.01
3392 3467 6.613271 AGAATACCTCTTGAGCCAGATTAAGA 59.387 38.462 0.00 0.00 0.00 2.10
3393 3468 6.825610 AGAATACCTCTTGAGCCAGATTAAG 58.174 40.000 0.00 0.00 0.00 1.85
3394 3469 6.814954 AGAATACCTCTTGAGCCAGATTAA 57.185 37.500 0.00 0.00 0.00 1.40
3395 3470 7.914427 TTAGAATACCTCTTGAGCCAGATTA 57.086 36.000 0.00 0.00 35.41 1.75
3396 3471 6.814954 TTAGAATACCTCTTGAGCCAGATT 57.185 37.500 0.00 0.00 35.41 2.40
3397 3472 6.239829 CCATTAGAATACCTCTTGAGCCAGAT 60.240 42.308 0.00 0.00 35.41 2.90
3398 3473 5.070981 CCATTAGAATACCTCTTGAGCCAGA 59.929 44.000 0.00 0.00 35.41 3.86
3399 3474 5.303971 CCATTAGAATACCTCTTGAGCCAG 58.696 45.833 0.00 0.00 35.41 4.85
3400 3475 4.103153 CCCATTAGAATACCTCTTGAGCCA 59.897 45.833 0.00 0.00 35.41 4.75
3401 3476 4.646572 CCCATTAGAATACCTCTTGAGCC 58.353 47.826 0.00 0.00 35.41 4.70
3402 3477 4.068599 GCCCATTAGAATACCTCTTGAGC 58.931 47.826 0.00 0.00 35.41 4.26
3403 3478 4.646572 GGCCCATTAGAATACCTCTTGAG 58.353 47.826 0.00 0.00 35.41 3.02
3404 3479 3.071023 CGGCCCATTAGAATACCTCTTGA 59.929 47.826 0.00 0.00 35.41 3.02
3405 3480 3.181454 ACGGCCCATTAGAATACCTCTTG 60.181 47.826 0.00 0.00 35.41 3.02
3406 3481 3.046374 ACGGCCCATTAGAATACCTCTT 58.954 45.455 0.00 0.00 35.41 2.85
3407 3482 2.633481 GACGGCCCATTAGAATACCTCT 59.367 50.000 0.00 0.00 38.28 3.69
3408 3483 2.367567 TGACGGCCCATTAGAATACCTC 59.632 50.000 0.00 0.00 0.00 3.85
3409 3484 2.104281 GTGACGGCCCATTAGAATACCT 59.896 50.000 0.00 0.00 0.00 3.08
3410 3485 2.104281 AGTGACGGCCCATTAGAATACC 59.896 50.000 0.00 0.00 0.00 2.73
3411 3486 3.069729 AGAGTGACGGCCCATTAGAATAC 59.930 47.826 0.00 0.00 0.00 1.89
3412 3487 3.305720 AGAGTGACGGCCCATTAGAATA 58.694 45.455 0.00 0.00 0.00 1.75
3413 3488 2.119495 AGAGTGACGGCCCATTAGAAT 58.881 47.619 0.00 0.00 0.00 2.40
3414 3489 1.568504 AGAGTGACGGCCCATTAGAA 58.431 50.000 0.00 0.00 0.00 2.10
3415 3490 2.029623 GTAGAGTGACGGCCCATTAGA 58.970 52.381 0.00 0.00 0.00 2.10
3416 3491 1.269102 CGTAGAGTGACGGCCCATTAG 60.269 57.143 0.00 0.00 39.19 1.73
3417 3492 0.742505 CGTAGAGTGACGGCCCATTA 59.257 55.000 0.00 0.00 39.19 1.90
3418 3493 1.515954 CGTAGAGTGACGGCCCATT 59.484 57.895 0.00 0.00 39.19 3.16
3419 3494 1.664321 GACGTAGAGTGACGGCCCAT 61.664 60.000 0.00 0.00 45.45 4.00
3420 3495 2.338015 GACGTAGAGTGACGGCCCA 61.338 63.158 0.00 0.00 45.45 5.36
3421 3496 2.488820 GACGTAGAGTGACGGCCC 59.511 66.667 0.00 0.00 45.45 5.80
3426 3501 4.705337 ATGAAGGAAGACGTAGAGTGAC 57.295 45.455 0.00 0.00 0.00 3.67
3427 3502 4.765339 TGAATGAAGGAAGACGTAGAGTGA 59.235 41.667 0.00 0.00 0.00 3.41
3428 3503 4.859798 GTGAATGAAGGAAGACGTAGAGTG 59.140 45.833 0.00 0.00 0.00 3.51
3429 3504 4.082136 GGTGAATGAAGGAAGACGTAGAGT 60.082 45.833 0.00 0.00 0.00 3.24
3430 3505 4.425520 GGTGAATGAAGGAAGACGTAGAG 58.574 47.826 0.00 0.00 0.00 2.43
3431 3506 3.194968 GGGTGAATGAAGGAAGACGTAGA 59.805 47.826 0.00 0.00 0.00 2.59
3432 3507 3.056107 TGGGTGAATGAAGGAAGACGTAG 60.056 47.826 0.00 0.00 0.00 3.51
3433 3508 2.901192 TGGGTGAATGAAGGAAGACGTA 59.099 45.455 0.00 0.00 0.00 3.57
3434 3509 1.697432 TGGGTGAATGAAGGAAGACGT 59.303 47.619 0.00 0.00 0.00 4.34
3435 3510 2.472695 TGGGTGAATGAAGGAAGACG 57.527 50.000 0.00 0.00 0.00 4.18
3436 3511 3.696548 GGAATGGGTGAATGAAGGAAGAC 59.303 47.826 0.00 0.00 0.00 3.01
3437 3512 3.333381 TGGAATGGGTGAATGAAGGAAGA 59.667 43.478 0.00 0.00 0.00 2.87
3438 3513 3.700538 TGGAATGGGTGAATGAAGGAAG 58.299 45.455 0.00 0.00 0.00 3.46
3439 3514 3.824001 TGGAATGGGTGAATGAAGGAA 57.176 42.857 0.00 0.00 0.00 3.36
3440 3515 4.689705 GCTATGGAATGGGTGAATGAAGGA 60.690 45.833 0.00 0.00 0.00 3.36
3441 3516 3.571401 GCTATGGAATGGGTGAATGAAGG 59.429 47.826 0.00 0.00 0.00 3.46
3442 3517 4.843220 GCTATGGAATGGGTGAATGAAG 57.157 45.455 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.