Multiple sequence alignment - TraesCS5A01G261400

Loading Multiple Alignment...

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 TraesCS5A01G261400 chr5A 100.000 3578 0 0 1 3578 475293801 475297378 0.000000e+00 6608.0
1 TraesCS5A01G261400 chr5A 85.593 118 14 1 3406 3520 448618752 448618635 1.740000e-23 121.0
2 TraesCS5A01G261400 chr5D 93.379 3096 111 22 1 3056 371861082 371864123 0.000000e+00 4495.0
3 TraesCS5A01G261400 chr5D 92.818 362 20 4 3049 3407 371868062 371868420 1.470000e-143 520.0
4 TraesCS5A01G261400 chr5B 92.124 1384 75 12 344 1703 441744157 441745530 0.000000e+00 1921.0
5 TraesCS5A01G261400 chr5B 97.624 884 19 2 1722 2604 441745518 441746400 0.000000e+00 1515.0
6 TraesCS5A01G261400 chr5B 89.773 528 35 13 2820 3333 441747684 441748206 0.000000e+00 658.0
7 TraesCS5A01G261400 chr5B 97.297 185 5 0 2638 2822 441746507 441746691 7.460000e-82 315.0
8 TraesCS5A01G261400 chr5B 92.529 174 5 6 1 169 441743878 441744048 3.570000e-60 243.0
9 TraesCS5A01G261400 chr5B 85.849 106 12 1 3405 3507 137675244 137675349 3.780000e-20 110.0
10 TraesCS5A01G261400 chr5B 87.368 95 9 1 3406 3497 158780120 158780214 4.890000e-19 106.0
11 TraesCS5A01G261400 chr7D 81.303 1428 240 19 1144 2563 477641788 477643196 0.000000e+00 1133.0
12 TraesCS5A01G261400 chr7D 78.790 1537 288 30 1039 2562 78115527 78117038 0.000000e+00 998.0
13 TraesCS5A01G261400 chr7D 74.909 1371 292 43 1209 2559 585538299 585539637 2.390000e-161 579.0
14 TraesCS5A01G261400 chr7D 84.762 105 13 1 3406 3507 85289347 85289451 6.320000e-18 102.0
15 TraesCS5A01G261400 chr7A 80.552 1450 241 26 1116 2559 518658701 518657287 0.000000e+00 1077.0
16 TraesCS5A01G261400 chr7A 79.382 1489 272 29 1087 2562 81548324 81549790 0.000000e+00 1016.0
17 TraesCS5A01G261400 chr3A 80.333 1383 256 12 1180 2560 33137245 33138613 0.000000e+00 1033.0
18 TraesCS5A01G261400 chr2B 80.995 1347 217 33 1239 2564 111359805 111361133 0.000000e+00 1033.0
19 TraesCS5A01G261400 chr2B 77.120 1250 238 29 1191 2410 7837662 7838893 0.000000e+00 680.0
20 TraesCS5A01G261400 chr2A 79.694 1438 244 40 1148 2559 72932799 72931384 0.000000e+00 994.0
21 TraesCS5A01G261400 chr2A 80.374 321 56 5 2242 2559 72811776 72811460 1.660000e-58 237.0
22 TraesCS5A01G261400 chr2A 96.970 33 1 0 3428 3460 724045664 724045696 4.990000e-04 56.5
23 TraesCS5A01G261400 chr2D 79.344 1433 263 25 1150 2564 73454255 73452838 0.000000e+00 976.0
24 TraesCS5A01G261400 chr2D 77.769 1246 234 26 1191 2410 2948474 2947246 0.000000e+00 726.0
25 TraesCS5A01G261400 chr2D 85.714 119 13 2 3405 3520 627195500 627195617 4.850000e-24 122.0
26 TraesCS5A01G261400 chr2D 88.525 61 5 2 3428 3487 68862825 68862884 4.960000e-09 73.1
27 TraesCS5A01G261400 chr3D 78.159 1282 240 25 1139 2412 606941038 606942287 0.000000e+00 780.0
28 TraesCS5A01G261400 chr7B 74.591 1468 326 34 1100 2551 502316821 502318257 5.110000e-168 601.0
29 TraesCS5A01G261400 chr7B 79.974 764 127 20 1806 2562 25340433 25341177 1.130000e-149 540.0
30 TraesCS5A01G261400 chr6D 85.246 122 15 1 3406 3524 394591211 394591332 4.850000e-24 122.0
31 TraesCS5A01G261400 chr1D 88.889 54 3 1 3405 3455 47324571 47324624 2.980000e-06 63.9


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 TraesCS5A01G261400 chr5A 475293801 475297378 3577 False 6608.0 6608 100.0000 1 3578 1 chr5A.!!$F1 3577
1 TraesCS5A01G261400 chr5D 371861082 371868420 7338 False 2507.5 4495 93.0985 1 3407 2 chr5D.!!$F1 3406
2 TraesCS5A01G261400 chr5B 441743878 441748206 4328 False 930.4 1921 93.8694 1 3333 5 chr5B.!!$F3 3332
3 TraesCS5A01G261400 chr7D 477641788 477643196 1408 False 1133.0 1133 81.3030 1144 2563 1 chr7D.!!$F3 1419
4 TraesCS5A01G261400 chr7D 78115527 78117038 1511 False 998.0 998 78.7900 1039 2562 1 chr7D.!!$F1 1523
5 TraesCS5A01G261400 chr7D 585538299 585539637 1338 False 579.0 579 74.9090 1209 2559 1 chr7D.!!$F4 1350
6 TraesCS5A01G261400 chr7A 518657287 518658701 1414 True 1077.0 1077 80.5520 1116 2559 1 chr7A.!!$R1 1443
7 TraesCS5A01G261400 chr7A 81548324 81549790 1466 False 1016.0 1016 79.3820 1087 2562 1 chr7A.!!$F1 1475
8 TraesCS5A01G261400 chr3A 33137245 33138613 1368 False 1033.0 1033 80.3330 1180 2560 1 chr3A.!!$F1 1380
9 TraesCS5A01G261400 chr2B 111359805 111361133 1328 False 1033.0 1033 80.9950 1239 2564 1 chr2B.!!$F2 1325
10 TraesCS5A01G261400 chr2B 7837662 7838893 1231 False 680.0 680 77.1200 1191 2410 1 chr2B.!!$F1 1219
11 TraesCS5A01G261400 chr2A 72931384 72932799 1415 True 994.0 994 79.6940 1148 2559 1 chr2A.!!$R2 1411
12 TraesCS5A01G261400 chr2D 73452838 73454255 1417 True 976.0 976 79.3440 1150 2564 1 chr2D.!!$R2 1414
13 TraesCS5A01G261400 chr2D 2947246 2948474 1228 True 726.0 726 77.7690 1191 2410 1 chr2D.!!$R1 1219
14 TraesCS5A01G261400 chr3D 606941038 606942287 1249 False 780.0 780 78.1590 1139 2412 1 chr3D.!!$F1 1273
15 TraesCS5A01G261400 chr7B 502316821 502318257 1436 False 601.0 601 74.5910 1100 2551 1 chr7B.!!$F2 1451
16 TraesCS5A01G261400 chr7B 25340433 25341177 744 False 540.0 540 79.9740 1806 2562 1 chr7B.!!$F1 756

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
758 797 0.175531 TGGACGATGCGATGTGATGT 59.824 50.0 0.00 0.0 0.0 3.06 F
2349 2432 0.037697 AGTTCTACGCGTTCATGGCA 60.038 50.0 20.78 0.0 0.0 4.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2568 2663 0.177373 TGCTGAGCTATCACCTGCTG 59.823 55.0 5.83 0.00 39.91 4.41 R
3523 8648 0.105964 TATACCACGGCATGCCAGTC 59.894 55.0 34.93 9.63 35.37 3.51 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
27 28 6.145696 GCCATAAATGTGGACTATAGTCGTTC 59.854 42.308 23.35 16.57 45.65 3.95
75 81 2.105134 TGAGAGGGAAAACGGCTAAACA 59.895 45.455 0.00 0.00 0.00 2.83
78 85 0.885879 GGGAAAACGGCTAAACAGGG 59.114 55.000 0.00 0.00 0.00 4.45
143 150 0.994995 GCATGTCAGCGACAGTACAG 59.005 55.000 14.80 0.00 46.04 2.74
193 200 8.422577 TGGATAGCGATGCTGGTATAATATAT 57.577 34.615 0.70 0.00 40.10 0.86
224 231 5.769662 TCCAATATATTTGACTGACCCATGC 59.230 40.000 0.00 0.00 0.00 4.06
274 281 1.067213 GTAACCGGCCATGCATTTTGT 60.067 47.619 0.00 0.00 0.00 2.83
275 282 0.396060 AACCGGCCATGCATTTTGTT 59.604 45.000 0.00 0.00 0.00 2.83
276 283 0.320596 ACCGGCCATGCATTTTGTTG 60.321 50.000 0.00 0.00 0.00 3.33
277 284 0.320596 CCGGCCATGCATTTTGTTGT 60.321 50.000 2.24 0.00 0.00 3.32
318 325 3.749226 TGGATATGTCACTGCAAACACA 58.251 40.909 0.00 0.00 0.00 3.72
319 326 4.140536 TGGATATGTCACTGCAAACACAA 58.859 39.130 0.00 0.00 0.00 3.33
320 327 4.766373 TGGATATGTCACTGCAAACACAAT 59.234 37.500 0.00 0.00 0.00 2.71
321 328 5.106197 TGGATATGTCACTGCAAACACAATC 60.106 40.000 0.00 0.83 0.00 2.67
322 329 5.124457 GGATATGTCACTGCAAACACAATCT 59.876 40.000 14.14 0.00 0.00 2.40
323 330 3.969117 TGTCACTGCAAACACAATCTC 57.031 42.857 0.00 0.00 0.00 2.75
324 331 2.618241 TGTCACTGCAAACACAATCTCC 59.382 45.455 0.00 0.00 0.00 3.71
325 332 2.880890 GTCACTGCAAACACAATCTCCT 59.119 45.455 0.00 0.00 0.00 3.69
326 333 3.316308 GTCACTGCAAACACAATCTCCTT 59.684 43.478 0.00 0.00 0.00 3.36
327 334 3.953612 TCACTGCAAACACAATCTCCTTT 59.046 39.130 0.00 0.00 0.00 3.11
328 335 4.402155 TCACTGCAAACACAATCTCCTTTT 59.598 37.500 0.00 0.00 0.00 2.27
329 336 5.105392 TCACTGCAAACACAATCTCCTTTTT 60.105 36.000 0.00 0.00 0.00 1.94
360 367 4.802039 GCATATGCAAACACAATCTCCTTG 59.198 41.667 22.84 0.00 41.59 3.61
382 389 3.658757 TCTTTCTTTTGCGGGGAAATG 57.341 42.857 0.00 0.00 0.00 2.32
389 396 0.817013 TTGCGGGGAAATGCAATCTC 59.183 50.000 0.00 0.00 45.45 2.75
390 397 1.037030 TGCGGGGAAATGCAATCTCC 61.037 55.000 10.97 10.97 38.34 3.71
392 399 1.767759 CGGGGAAATGCAATCTCCTT 58.232 50.000 17.10 0.00 32.64 3.36
394 401 3.287222 CGGGGAAATGCAATCTCCTTTA 58.713 45.455 17.10 0.00 32.64 1.85
437 449 7.962964 TGATTATTCGTTATTCCATCCTGAC 57.037 36.000 0.00 0.00 0.00 3.51
445 457 6.323996 TCGTTATTCCATCCTGACTGATTACT 59.676 38.462 0.00 0.00 0.00 2.24
509 521 1.227674 GACCGTCCTGCATCCCATC 60.228 63.158 0.00 0.00 0.00 3.51
540 552 4.021104 TCTCACCACTATTCTCACCAGTTG 60.021 45.833 0.00 0.00 0.00 3.16
573 589 1.604604 CCGTGTGTCCAAAAGTCCAT 58.395 50.000 0.00 0.00 0.00 3.41
574 590 1.535462 CCGTGTGTCCAAAAGTCCATC 59.465 52.381 0.00 0.00 0.00 3.51
575 591 1.535462 CGTGTGTCCAAAAGTCCATCC 59.465 52.381 0.00 0.00 0.00 3.51
576 592 2.582052 GTGTGTCCAAAAGTCCATCCA 58.418 47.619 0.00 0.00 0.00 3.41
629 648 3.737972 CGTGACAGTGCCATGCTTATCTA 60.738 47.826 0.00 0.00 0.00 1.98
633 652 2.874701 CAGTGCCATGCTTATCTACCAC 59.125 50.000 0.00 0.00 0.00 4.16
681 715 7.379797 GGTTGAGAACTTTCTTGCTTTTACATC 59.620 37.037 0.00 0.00 37.73 3.06
720 754 2.704973 AAAAACGAAAGCCGCGTCCG 62.705 55.000 4.92 3.29 41.75 4.79
756 795 0.877649 GCTGGACGATGCGATGTGAT 60.878 55.000 0.00 0.00 0.00 3.06
757 796 0.857287 CTGGACGATGCGATGTGATG 59.143 55.000 0.00 0.00 0.00 3.07
758 797 0.175531 TGGACGATGCGATGTGATGT 59.824 50.000 0.00 0.00 0.00 3.06
759 798 0.578683 GGACGATGCGATGTGATGTG 59.421 55.000 0.00 0.00 0.00 3.21
760 799 1.559831 GACGATGCGATGTGATGTGA 58.440 50.000 0.00 0.00 0.00 3.58
772 811 6.074623 GCGATGTGATGTGACTAATGTAGAAG 60.075 42.308 0.00 0.00 0.00 2.85
797 836 2.126071 CCGATTGACAGTCGCCGT 60.126 61.111 14.32 0.00 37.75 5.68
799 838 2.158959 CGATTGACAGTCGCCGTCC 61.159 63.158 7.46 0.00 32.15 4.79
844 883 4.660168 AGAGCTGACCATGACTTTTCAAT 58.340 39.130 0.00 0.00 34.61 2.57
860 899 1.619363 AATGCCCCCAGCTGGAGTA 60.619 57.895 34.91 23.34 44.23 2.59
885 928 1.610379 TAGACCAGAGCAGCTGCCA 60.610 57.895 34.39 7.37 43.50 4.92
974 1018 2.126888 GAACCATGCAACACGGCG 60.127 61.111 4.80 4.80 36.28 6.46
975 1019 3.609214 GAACCATGCAACACGGCGG 62.609 63.158 13.24 2.35 36.28 6.13
1066 1110 2.679996 TCTGCTGCTACGCCTCCA 60.680 61.111 0.00 0.00 0.00 3.86
1092 1136 1.007963 TCCTCCCAGGGTAATTCGTCT 59.992 52.381 5.01 0.00 35.59 4.18
1110 1154 2.028930 GTCTGATGGTTTCCTCTCGTGT 60.029 50.000 0.00 0.00 0.00 4.49
1114 1158 1.699730 TGGTTTCCTCTCGTGTCTGA 58.300 50.000 0.00 0.00 0.00 3.27
1236 1280 3.588277 CGTGAGGCCGCTGTATATT 57.412 52.632 8.34 0.00 0.00 1.28
2349 2432 0.037697 AGTTCTACGCGTTCATGGCA 60.038 50.000 20.78 0.00 0.00 4.92
2568 2663 1.153588 CATCCCGCCATTTGCCAAC 60.154 57.895 0.00 0.00 36.24 3.77
2581 2676 2.101700 GCCAACAGCAGGTGATAGC 58.898 57.895 6.61 0.00 42.97 2.97
2623 2718 5.133221 AGCTCTTTCTTTTGTGTACATGGT 58.867 37.500 0.00 0.00 0.00 3.55
2625 2720 6.428159 AGCTCTTTCTTTTGTGTACATGGTAG 59.572 38.462 0.00 0.00 0.00 3.18
2626 2721 6.554334 TCTTTCTTTTGTGTACATGGTAGC 57.446 37.500 0.00 0.00 0.00 3.58
2627 2722 6.296026 TCTTTCTTTTGTGTACATGGTAGCT 58.704 36.000 0.00 0.00 0.00 3.32
2628 2723 7.446769 TCTTTCTTTTGTGTACATGGTAGCTA 58.553 34.615 0.00 0.00 0.00 3.32
2629 2724 7.934665 TCTTTCTTTTGTGTACATGGTAGCTAA 59.065 33.333 0.00 0.00 0.00 3.09
2630 2725 7.429636 TTCTTTTGTGTACATGGTAGCTAAC 57.570 36.000 0.40 0.40 0.00 2.34
2712 2880 6.806739 GGTTTGAGATTGCTTACCACAATTAC 59.193 38.462 0.00 0.00 37.85 1.89
2862 4025 6.737346 GCAGAAAACTACACATTTTGGCCTAA 60.737 38.462 3.32 0.00 29.44 2.69
3019 4182 6.596888 TGAAAGGAGAATTAGCTGATCTGTTG 59.403 38.462 0.00 0.00 0.00 3.33
3119 8229 9.791801 TTGCTTATCCAATAATTAGCACATCTA 57.208 29.630 0.00 0.00 40.04 1.98
3282 8406 2.099446 GTGTTTGTGTGTGCGCGT 59.901 55.556 8.43 0.00 0.00 6.01
3307 8432 6.175087 GCGTGTGTTTATGTTTCAAAAAGTG 58.825 36.000 0.00 0.00 0.00 3.16
3314 8439 8.865001 TGTTTATGTTTCAAAAAGTGTAAGTGC 58.135 29.630 0.00 0.00 0.00 4.40
3346 8471 1.256895 TCGTTTTCGCTCTGTTTGACG 59.743 47.619 0.00 0.00 43.73 4.35
3390 8515 6.809630 TGTAGCATTACAACTAACATGCAA 57.190 33.333 5.82 0.00 43.81 4.08
3394 8519 6.381801 AGCATTACAACTAACATGCAACTTC 58.618 36.000 5.82 0.00 43.81 3.01
3399 8524 8.896320 TTACAACTAACATGCAACTTCTCTTA 57.104 30.769 0.00 0.00 0.00 2.10
3408 8533 8.621532 ACATGCAACTTCTCTTAAAAGATACA 57.378 30.769 0.00 0.00 33.93 2.29
3409 8534 8.507249 ACATGCAACTTCTCTTAAAAGATACAC 58.493 33.333 0.00 0.00 33.93 2.90
3410 8535 7.435068 TGCAACTTCTCTTAAAAGATACACC 57.565 36.000 0.00 0.00 33.93 4.16
3411 8536 6.430000 TGCAACTTCTCTTAAAAGATACACCC 59.570 38.462 0.00 0.00 33.93 4.61
3412 8537 6.655425 GCAACTTCTCTTAAAAGATACACCCT 59.345 38.462 0.00 0.00 33.93 4.34
3413 8538 7.148390 GCAACTTCTCTTAAAAGATACACCCTC 60.148 40.741 0.00 0.00 33.93 4.30
3414 8539 6.948589 ACTTCTCTTAAAAGATACACCCTCC 58.051 40.000 0.00 0.00 33.93 4.30
3415 8540 5.593679 TCTCTTAAAAGATACACCCTCCG 57.406 43.478 0.00 0.00 33.93 4.63
3416 8541 5.021458 TCTCTTAAAAGATACACCCTCCGT 58.979 41.667 0.00 0.00 33.93 4.69
3417 8542 5.126707 TCTCTTAAAAGATACACCCTCCGTC 59.873 44.000 0.00 0.00 33.93 4.79
3418 8543 4.161001 TCTTAAAAGATACACCCTCCGTCC 59.839 45.833 0.00 0.00 0.00 4.79
3419 8544 0.822164 AAAGATACACCCTCCGTCCG 59.178 55.000 0.00 0.00 0.00 4.79
3420 8545 0.033796 AAGATACACCCTCCGTCCGA 60.034 55.000 0.00 0.00 0.00 4.55
3421 8546 0.033796 AGATACACCCTCCGTCCGAA 60.034 55.000 0.00 0.00 0.00 4.30
3422 8547 0.819582 GATACACCCTCCGTCCGAAA 59.180 55.000 0.00 0.00 0.00 3.46
3423 8548 1.205417 GATACACCCTCCGTCCGAAAA 59.795 52.381 0.00 0.00 0.00 2.29
3424 8549 1.047002 TACACCCTCCGTCCGAAAAA 58.953 50.000 0.00 0.00 0.00 1.94
3425 8550 0.250166 ACACCCTCCGTCCGAAAAAG 60.250 55.000 0.00 0.00 0.00 2.27
3426 8551 1.302271 ACCCTCCGTCCGAAAAAGC 60.302 57.895 0.00 0.00 0.00 3.51
3427 8552 1.003718 CCCTCCGTCCGAAAAAGCT 60.004 57.895 0.00 0.00 0.00 3.74
3428 8553 1.019805 CCCTCCGTCCGAAAAAGCTC 61.020 60.000 0.00 0.00 0.00 4.09
3429 8554 1.019805 CCTCCGTCCGAAAAAGCTCC 61.020 60.000 0.00 0.00 0.00 4.70
3430 8555 1.004200 TCCGTCCGAAAAAGCTCCC 60.004 57.895 0.00 0.00 0.00 4.30
3431 8556 1.003718 CCGTCCGAAAAAGCTCCCT 60.004 57.895 0.00 0.00 0.00 4.20
3432 8557 1.019805 CCGTCCGAAAAAGCTCCCTC 61.020 60.000 0.00 0.00 0.00 4.30
3433 8558 0.320421 CGTCCGAAAAAGCTCCCTCA 60.320 55.000 0.00 0.00 0.00 3.86
3434 8559 1.876416 CGTCCGAAAAAGCTCCCTCAA 60.876 52.381 0.00 0.00 0.00 3.02
3435 8560 2.227194 GTCCGAAAAAGCTCCCTCAAA 58.773 47.619 0.00 0.00 0.00 2.69
3436 8561 2.820197 GTCCGAAAAAGCTCCCTCAAAT 59.180 45.455 0.00 0.00 0.00 2.32
3437 8562 2.819608 TCCGAAAAAGCTCCCTCAAATG 59.180 45.455 0.00 0.00 0.00 2.32
3438 8563 2.094545 CCGAAAAAGCTCCCTCAAATGG 60.095 50.000 0.00 0.00 0.00 3.16
3439 8564 2.819608 CGAAAAAGCTCCCTCAAATGGA 59.180 45.455 0.00 0.00 0.00 3.41
3440 8565 3.445096 CGAAAAAGCTCCCTCAAATGGAT 59.555 43.478 0.00 0.00 0.00 3.41
3441 8566 4.676196 CGAAAAAGCTCCCTCAAATGGATG 60.676 45.833 0.00 0.00 0.00 3.51
3442 8567 3.463048 AAAGCTCCCTCAAATGGATGT 57.537 42.857 0.00 0.00 0.00 3.06
3443 8568 4.591321 AAAGCTCCCTCAAATGGATGTA 57.409 40.909 0.00 0.00 0.00 2.29
3444 8569 4.803329 AAGCTCCCTCAAATGGATGTAT 57.197 40.909 0.00 0.00 0.00 2.29
3445 8570 4.803329 AGCTCCCTCAAATGGATGTATT 57.197 40.909 0.00 0.00 0.00 1.89
3446 8571 5.134725 AGCTCCCTCAAATGGATGTATTT 57.865 39.130 0.00 0.00 0.00 1.40
3447 8572 6.266131 AGCTCCCTCAAATGGATGTATTTA 57.734 37.500 0.00 0.00 0.00 1.40
3448 8573 6.302269 AGCTCCCTCAAATGGATGTATTTAG 58.698 40.000 0.00 0.00 0.00 1.85
3449 8574 5.048434 GCTCCCTCAAATGGATGTATTTAGC 60.048 44.000 0.00 0.00 0.00 3.09
3450 8575 6.012337 TCCCTCAAATGGATGTATTTAGCA 57.988 37.500 0.00 0.00 0.00 3.49
3451 8576 6.613699 TCCCTCAAATGGATGTATTTAGCAT 58.386 36.000 0.00 0.00 0.00 3.79
3452 8577 6.716628 TCCCTCAAATGGATGTATTTAGCATC 59.283 38.462 0.00 0.00 41.30 3.91
3453 8578 6.491062 CCCTCAAATGGATGTATTTAGCATCA 59.509 38.462 7.46 0.00 43.17 3.07
3454 8579 7.014518 CCCTCAAATGGATGTATTTAGCATCAA 59.985 37.037 7.46 0.00 43.17 2.57
3455 8580 8.415553 CCTCAAATGGATGTATTTAGCATCAAA 58.584 33.333 7.46 0.00 43.17 2.69
3456 8581 9.976511 CTCAAATGGATGTATTTAGCATCAAAT 57.023 29.630 7.46 0.00 43.17 2.32
3462 8587 8.352201 TGGATGTATTTAGCATCAAATTAGTGC 58.648 33.333 7.46 2.41 43.17 4.40
3482 8607 4.264253 TGCTAGACACATCCATTTGAAGG 58.736 43.478 0.00 0.00 0.00 3.46
3483 8608 4.019411 TGCTAGACACATCCATTTGAAGGA 60.019 41.667 0.00 0.00 39.97 3.36
3484 8609 4.333926 GCTAGACACATCCATTTGAAGGAC 59.666 45.833 0.00 0.00 38.13 3.85
3485 8610 4.371624 AGACACATCCATTTGAAGGACA 57.628 40.909 0.00 0.00 38.13 4.02
3486 8611 4.728772 AGACACATCCATTTGAAGGACAA 58.271 39.130 0.00 0.00 38.13 3.18
3496 8621 3.304911 TTGAAGGACAAACATGGGACA 57.695 42.857 0.00 0.00 38.10 4.02
3497 8622 2.955660 TTGAAGGACAAACATGGGACAC 59.044 45.455 0.00 0.00 36.92 3.67
3498 8623 4.548868 TTGAAGGACAAACATGGGACACG 61.549 47.826 0.00 0.00 36.92 4.49
3507 8632 2.823114 TGGGACACGCTTTTCCGA 59.177 55.556 0.00 0.00 32.00 4.55
3508 8633 1.146485 TGGGACACGCTTTTCCGAA 59.854 52.632 0.00 0.00 32.00 4.30
3509 8634 0.250553 TGGGACACGCTTTTCCGAAT 60.251 50.000 0.00 0.00 32.00 3.34
3510 8635 0.168128 GGGACACGCTTTTCCGAATG 59.832 55.000 0.00 0.00 32.00 2.67
3511 8636 0.168128 GGACACGCTTTTCCGAATGG 59.832 55.000 0.00 0.00 0.00 3.16
3512 8637 1.153353 GACACGCTTTTCCGAATGGA 58.847 50.000 0.00 0.00 44.61 3.41
3525 8650 4.766375 TCCGAATGGAGGAAGTAATTGAC 58.234 43.478 0.00 0.00 40.17 3.18
3526 8651 4.469945 TCCGAATGGAGGAAGTAATTGACT 59.530 41.667 0.00 0.00 40.17 3.41
3527 8652 4.572389 CCGAATGGAGGAAGTAATTGACTG 59.428 45.833 0.00 0.00 36.29 3.51
3528 8653 4.572389 CGAATGGAGGAAGTAATTGACTGG 59.428 45.833 0.00 0.00 38.87 4.00
3529 8654 3.350219 TGGAGGAAGTAATTGACTGGC 57.650 47.619 0.00 0.00 38.87 4.85
3530 8655 2.642311 TGGAGGAAGTAATTGACTGGCA 59.358 45.455 0.00 0.00 38.87 4.92
3531 8656 3.266772 TGGAGGAAGTAATTGACTGGCAT 59.733 43.478 0.00 0.00 38.87 4.40
3532 8657 3.629398 GGAGGAAGTAATTGACTGGCATG 59.371 47.826 0.00 0.00 38.87 4.06
3533 8658 3.019564 AGGAAGTAATTGACTGGCATGC 58.980 45.455 9.90 9.90 38.87 4.06
3534 8659 2.099756 GGAAGTAATTGACTGGCATGCC 59.900 50.000 30.54 30.54 38.87 4.40
3535 8660 1.382522 AGTAATTGACTGGCATGCCG 58.617 50.000 30.87 25.81 36.87 5.69
3536 8661 1.094785 GTAATTGACTGGCATGCCGT 58.905 50.000 30.87 28.64 39.42 5.68
3537 8662 1.093972 TAATTGACTGGCATGCCGTG 58.906 50.000 30.08 26.55 39.42 4.94
3538 8663 1.597797 AATTGACTGGCATGCCGTGG 61.598 55.000 30.08 24.33 39.42 4.94
3539 8664 2.769652 ATTGACTGGCATGCCGTGGT 62.770 55.000 30.08 26.81 39.42 4.16
3540 8665 2.118233 TTGACTGGCATGCCGTGGTA 62.118 55.000 30.08 14.92 39.42 3.25
3541 8666 1.153168 GACTGGCATGCCGTGGTAT 60.153 57.895 30.08 14.58 39.42 2.73
3542 8667 0.105964 GACTGGCATGCCGTGGTATA 59.894 55.000 30.08 13.57 39.42 1.47
3543 8668 0.179056 ACTGGCATGCCGTGGTATAC 60.179 55.000 30.87 5.02 39.42 1.47
3544 8669 0.106708 CTGGCATGCCGTGGTATACT 59.893 55.000 30.87 0.00 39.42 2.12
3545 8670 0.544223 TGGCATGCCGTGGTATACTT 59.456 50.000 30.87 0.00 39.42 2.24
3546 8671 1.065053 TGGCATGCCGTGGTATACTTT 60.065 47.619 30.87 0.00 39.42 2.66
3547 8672 2.170817 TGGCATGCCGTGGTATACTTTA 59.829 45.455 30.87 6.34 39.42 1.85
3548 8673 3.207778 GGCATGCCGTGGTATACTTTAA 58.792 45.455 23.48 0.00 0.00 1.52
3549 8674 3.002965 GGCATGCCGTGGTATACTTTAAC 59.997 47.826 23.48 0.00 0.00 2.01
3550 8675 3.623960 GCATGCCGTGGTATACTTTAACA 59.376 43.478 6.36 0.00 0.00 2.41
3551 8676 4.260620 GCATGCCGTGGTATACTTTAACAG 60.261 45.833 6.36 0.00 0.00 3.16
3552 8677 4.804868 TGCCGTGGTATACTTTAACAGA 57.195 40.909 2.25 0.00 0.00 3.41
3553 8678 5.347620 TGCCGTGGTATACTTTAACAGAT 57.652 39.130 2.25 0.00 0.00 2.90
3554 8679 5.113383 TGCCGTGGTATACTTTAACAGATG 58.887 41.667 2.25 0.00 0.00 2.90
3555 8680 4.510340 GCCGTGGTATACTTTAACAGATGG 59.490 45.833 2.25 0.00 0.00 3.51
3556 8681 5.682990 GCCGTGGTATACTTTAACAGATGGA 60.683 44.000 2.25 0.00 0.00 3.41
3557 8682 6.522054 CCGTGGTATACTTTAACAGATGGAT 58.478 40.000 2.25 0.00 0.00 3.41
3558 8683 6.990349 CCGTGGTATACTTTAACAGATGGATT 59.010 38.462 2.25 0.00 0.00 3.01
3559 8684 8.145767 CCGTGGTATACTTTAACAGATGGATTA 58.854 37.037 2.25 0.00 0.00 1.75
3560 8685 9.193133 CGTGGTATACTTTAACAGATGGATTAG 57.807 37.037 2.25 0.00 0.00 1.73
3561 8686 9.490379 GTGGTATACTTTAACAGATGGATTAGG 57.510 37.037 2.25 0.00 0.00 2.69
3562 8687 9.442062 TGGTATACTTTAACAGATGGATTAGGA 57.558 33.333 2.25 0.00 0.00 2.94
3568 8693 9.533831 ACTTTAACAGATGGATTAGGAATTGTT 57.466 29.630 0.00 0.00 0.00 2.83
3569 8694 9.793252 CTTTAACAGATGGATTAGGAATTGTTG 57.207 33.333 0.00 0.00 0.00 3.33
3570 8695 9.527157 TTTAACAGATGGATTAGGAATTGTTGA 57.473 29.630 0.00 0.00 0.00 3.18
3571 8696 9.527157 TTAACAGATGGATTAGGAATTGTTGAA 57.473 29.630 0.00 0.00 0.00 2.69
3572 8697 8.599624 AACAGATGGATTAGGAATTGTTGAAT 57.400 30.769 0.00 0.00 0.00 2.57
3573 8698 9.699410 AACAGATGGATTAGGAATTGTTGAATA 57.301 29.630 0.00 0.00 0.00 1.75
3574 8699 9.699410 ACAGATGGATTAGGAATTGTTGAATAA 57.301 29.630 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 1.948834 ACGTTTTTACCGTTCCAAGGG 59.051 47.619 0.00 0.00 39.76 3.95
101 108 4.382901 CCTCTTCTTCTTCTCATGACTGGG 60.383 50.000 0.00 0.00 0.00 4.45
193 200 6.982141 GTCAGTCAAATATATTGGACGGTGTA 59.018 38.462 24.02 9.71 43.82 2.90
224 231 2.159421 AGCTGTTACGTACACAGGATCG 60.159 50.000 25.49 11.62 41.81 3.69
274 281 3.945346 AGCGTTGGTATACCATCAACAA 58.055 40.909 25.12 6.52 46.97 2.83
275 282 3.620427 AGCGTTGGTATACCATCAACA 57.380 42.857 25.12 7.30 46.97 3.33
276 283 4.451096 CCATAGCGTTGGTATACCATCAAC 59.549 45.833 25.12 18.47 46.97 3.18
277 284 4.345547 TCCATAGCGTTGGTATACCATCAA 59.654 41.667 25.12 8.09 46.97 2.57
334 341 2.164017 AGATTGTGTTTGCATATGCGCA 59.836 40.909 22.21 14.96 45.83 6.09
335 342 2.785477 GAGATTGTGTTTGCATATGCGC 59.215 45.455 22.21 14.94 45.83 6.09
336 343 3.065786 AGGAGATTGTGTTTGCATATGCG 59.934 43.478 22.21 0.00 45.83 4.73
337 344 4.644103 AGGAGATTGTGTTTGCATATGC 57.356 40.909 21.09 21.09 42.50 3.14
350 357 5.400485 CGCAAAAGAAAGAACAAGGAGATTG 59.600 40.000 0.00 0.00 45.01 2.67
360 367 3.446310 TTTCCCCGCAAAAGAAAGAAC 57.554 42.857 0.00 0.00 0.00 3.01
382 389 4.135747 AGTCAGAGCTAAAGGAGATTGC 57.864 45.455 0.00 0.00 0.00 3.56
389 396 5.248640 TCATCCAAAAGTCAGAGCTAAAGG 58.751 41.667 0.00 0.00 0.00 3.11
390 397 6.596888 TCATCATCCAAAAGTCAGAGCTAAAG 59.403 38.462 0.00 0.00 0.00 1.85
392 399 6.053632 TCATCATCCAAAAGTCAGAGCTAA 57.946 37.500 0.00 0.00 0.00 3.09
394 401 4.564782 TCATCATCCAAAAGTCAGAGCT 57.435 40.909 0.00 0.00 0.00 4.09
509 521 4.748892 AGAATAGTGGTGAGAACGATGTG 58.251 43.478 0.00 0.00 0.00 3.21
557 569 2.955660 GTTGGATGGACTTTTGGACACA 59.044 45.455 0.00 0.00 0.00 3.72
558 570 2.031157 CGTTGGATGGACTTTTGGACAC 60.031 50.000 0.00 0.00 0.00 3.67
629 648 1.003355 CAGGTCATCCTTGCGTGGT 60.003 57.895 0.00 0.00 43.07 4.16
633 652 1.452651 ATGGCAGGTCATCCTTGCG 60.453 57.895 0.00 0.00 43.07 4.85
720 754 3.894427 TCCAGCATCTCTATCTGAAGACC 59.106 47.826 0.00 0.00 0.00 3.85
756 795 4.163552 CGAACGCTTCTACATTAGTCACA 58.836 43.478 0.00 0.00 0.00 3.58
757 796 3.000971 GCGAACGCTTCTACATTAGTCAC 60.001 47.826 11.97 0.00 38.26 3.67
758 797 3.176708 GCGAACGCTTCTACATTAGTCA 58.823 45.455 11.97 0.00 38.26 3.41
759 798 2.534757 GGCGAACGCTTCTACATTAGTC 59.465 50.000 18.14 0.00 41.60 2.59
760 799 2.537401 GGCGAACGCTTCTACATTAGT 58.463 47.619 18.14 0.00 41.60 2.24
772 811 3.083600 CTGTCAATCGGGCGAACGC 62.084 63.158 10.81 10.81 41.06 4.84
797 836 1.982395 CGCTATCCATAGGCCGGGA 60.982 63.158 14.93 14.93 37.64 5.14
799 838 0.103208 GATCGCTATCCATAGGCCGG 59.897 60.000 0.00 0.00 0.00 6.13
823 862 4.730657 CATTGAAAAGTCATGGTCAGCTC 58.269 43.478 0.00 0.00 32.48 4.09
844 883 2.688666 CTACTCCAGCTGGGGGCA 60.689 66.667 35.70 21.86 43.06 5.36
860 899 1.599606 CTGCTCTGGTCTACCACGCT 61.600 60.000 15.68 0.00 42.01 5.07
974 1018 2.194271 CTAGCTAGCTTGTTGTACGCC 58.806 52.381 24.88 0.00 0.00 5.68
975 1019 1.588861 GCTAGCTAGCTTGTTGTACGC 59.411 52.381 33.71 7.89 45.62 4.42
1066 1110 1.807771 TTACCCTGGGAGGAGACGGT 61.808 60.000 22.23 0.00 37.67 4.83
1092 1136 2.029020 CAGACACGAGAGGAAACCATCA 60.029 50.000 0.00 0.00 0.00 3.07
1110 1154 3.838271 GGGATGCTCGCCGTCAGA 61.838 66.667 0.00 0.00 0.00 3.27
1236 1280 2.577644 GCGTTCGTCGGCGTGATA 60.578 61.111 10.18 0.00 40.26 2.15
2349 2432 1.300697 GTTGGAGCTCACGAACGGT 60.301 57.895 17.19 0.00 0.00 4.83
2568 2663 0.177373 TGCTGAGCTATCACCTGCTG 59.823 55.000 5.83 0.00 39.91 4.41
2579 2674 2.345760 CGGCCCATTTTGCTGAGCT 61.346 57.895 5.83 0.00 37.27 4.09
2581 2676 1.031571 TAGCGGCCCATTTTGCTGAG 61.032 55.000 10.45 0.00 38.33 3.35
2712 2880 9.710900 ACATGTACATATATACCACACAATCAG 57.289 33.333 8.32 0.00 0.00 2.90
2777 2945 1.302366 TGTGCTGAGCTTTCACACAG 58.698 50.000 5.83 3.52 36.39 3.66
2862 4025 5.106396 CGCAAATCATCACTCTCTCCTTTTT 60.106 40.000 0.00 0.00 0.00 1.94
2991 4154 6.822676 CAGATCAGCTAATTCTCCTTTCAAGT 59.177 38.462 0.00 0.00 0.00 3.16
3019 4182 7.489113 CCCAAATGCTGAAACTATACATTTCAC 59.511 37.037 0.00 3.53 40.32 3.18
3282 8406 5.864474 ACTTTTTGAAACATAAACACACGCA 59.136 32.000 0.00 0.00 0.00 5.24
3286 8410 9.915629 ACTTACACTTTTTGAAACATAAACACA 57.084 25.926 0.00 0.00 0.00 3.72
3288 8412 8.865001 GCACTTACACTTTTTGAAACATAAACA 58.135 29.630 0.00 0.00 0.00 2.83
3307 8432 1.255600 GAACAGCTATCGCGCACTTAC 59.744 52.381 8.75 0.00 42.32 2.34
3314 8439 1.586679 CGAAAACGAACAGCTATCGCG 60.587 52.381 18.03 0.00 43.88 5.87
3322 8447 3.029074 CAAACAGAGCGAAAACGAACAG 58.971 45.455 0.00 0.00 0.00 3.16
3390 8515 6.351117 CGGAGGGTGTATCTTTTAAGAGAAGT 60.351 42.308 0.00 0.00 38.66 3.01
3394 8519 5.340439 ACGGAGGGTGTATCTTTTAAGAG 57.660 43.478 0.00 0.00 38.66 2.85
3399 8524 1.206371 CGGACGGAGGGTGTATCTTTT 59.794 52.381 0.00 0.00 0.00 2.27
3407 8532 1.574702 GCTTTTTCGGACGGAGGGTG 61.575 60.000 0.00 0.00 0.00 4.61
3408 8533 1.302271 GCTTTTTCGGACGGAGGGT 60.302 57.895 0.00 0.00 0.00 4.34
3409 8534 1.003718 AGCTTTTTCGGACGGAGGG 60.004 57.895 0.00 0.00 0.00 4.30
3410 8535 1.019805 GGAGCTTTTTCGGACGGAGG 61.020 60.000 0.00 0.00 0.00 4.30
3411 8536 1.019805 GGGAGCTTTTTCGGACGGAG 61.020 60.000 0.00 0.00 0.00 4.63
3412 8537 1.004200 GGGAGCTTTTTCGGACGGA 60.004 57.895 0.00 0.00 0.00 4.69
3413 8538 1.003718 AGGGAGCTTTTTCGGACGG 60.004 57.895 0.00 0.00 0.00 4.79
3414 8539 0.320421 TGAGGGAGCTTTTTCGGACG 60.320 55.000 0.00 0.00 0.00 4.79
3415 8540 1.892209 TTGAGGGAGCTTTTTCGGAC 58.108 50.000 0.00 0.00 0.00 4.79
3416 8541 2.649531 TTTGAGGGAGCTTTTTCGGA 57.350 45.000 0.00 0.00 0.00 4.55
3417 8542 2.094545 CCATTTGAGGGAGCTTTTTCGG 60.095 50.000 0.00 0.00 0.00 4.30
3418 8543 2.819608 TCCATTTGAGGGAGCTTTTTCG 59.180 45.455 0.00 0.00 0.00 3.46
3419 8544 4.221482 ACATCCATTTGAGGGAGCTTTTTC 59.779 41.667 0.00 0.00 37.96 2.29
3420 8545 4.162651 ACATCCATTTGAGGGAGCTTTTT 58.837 39.130 0.00 0.00 37.96 1.94
3421 8546 3.782992 ACATCCATTTGAGGGAGCTTTT 58.217 40.909 0.00 0.00 37.96 2.27
3422 8547 3.463048 ACATCCATTTGAGGGAGCTTT 57.537 42.857 0.00 0.00 37.96 3.51
3423 8548 4.803329 ATACATCCATTTGAGGGAGCTT 57.197 40.909 0.00 0.00 37.96 3.74
3424 8549 4.803329 AATACATCCATTTGAGGGAGCT 57.197 40.909 0.00 0.00 37.96 4.09
3425 8550 5.048434 GCTAAATACATCCATTTGAGGGAGC 60.048 44.000 0.00 0.00 37.96 4.70
3426 8551 6.064060 TGCTAAATACATCCATTTGAGGGAG 58.936 40.000 0.00 0.00 37.96 4.30
3427 8552 6.012337 TGCTAAATACATCCATTTGAGGGA 57.988 37.500 0.00 0.00 39.14 4.20
3428 8553 6.491062 TGATGCTAAATACATCCATTTGAGGG 59.509 38.462 1.61 0.00 42.68 4.30
3429 8554 7.514784 TGATGCTAAATACATCCATTTGAGG 57.485 36.000 1.61 0.00 42.68 3.86
3430 8555 9.976511 ATTTGATGCTAAATACATCCATTTGAG 57.023 29.630 1.61 0.00 42.68 3.02
3436 8561 8.352201 GCACTAATTTGATGCTAAATACATCCA 58.648 33.333 1.61 0.00 42.68 3.41
3437 8562 8.733857 GCACTAATTTGATGCTAAATACATCC 57.266 34.615 1.61 0.00 42.68 3.51
3460 8585 4.019411 TCCTTCAAATGGATGTGTCTAGCA 60.019 41.667 0.00 0.00 0.00 3.49
3461 8586 4.333926 GTCCTTCAAATGGATGTGTCTAGC 59.666 45.833 0.00 0.00 35.87 3.42
3462 8587 5.491070 TGTCCTTCAAATGGATGTGTCTAG 58.509 41.667 0.00 0.00 35.87 2.43
3463 8588 5.497464 TGTCCTTCAAATGGATGTGTCTA 57.503 39.130 0.00 0.00 35.87 2.59
3464 8589 4.371624 TGTCCTTCAAATGGATGTGTCT 57.628 40.909 0.00 0.00 35.87 3.41
3465 8590 5.221224 TGTTTGTCCTTCAAATGGATGTGTC 60.221 40.000 0.00 0.00 45.88 3.67
3466 8591 4.648762 TGTTTGTCCTTCAAATGGATGTGT 59.351 37.500 0.00 0.00 45.88 3.72
3467 8592 5.199024 TGTTTGTCCTTCAAATGGATGTG 57.801 39.130 0.00 0.00 45.88 3.21
3468 8593 5.279607 CCATGTTTGTCCTTCAAATGGATGT 60.280 40.000 6.97 0.00 43.44 3.06
3469 8594 5.172934 CCATGTTTGTCCTTCAAATGGATG 58.827 41.667 6.97 5.59 43.44 3.51
3470 8595 4.223477 CCCATGTTTGTCCTTCAAATGGAT 59.777 41.667 11.91 0.00 43.44 3.41
3471 8596 3.577848 CCCATGTTTGTCCTTCAAATGGA 59.422 43.478 11.91 0.00 43.44 3.41
3472 8597 3.577848 TCCCATGTTTGTCCTTCAAATGG 59.422 43.478 0.00 6.17 45.88 3.16
3473 8598 4.039004 TGTCCCATGTTTGTCCTTCAAATG 59.961 41.667 0.00 0.00 45.88 2.32
3474 8599 4.039124 GTGTCCCATGTTTGTCCTTCAAAT 59.961 41.667 0.00 0.00 45.88 2.32
3475 8600 3.383185 GTGTCCCATGTTTGTCCTTCAAA 59.617 43.478 0.00 0.00 42.79 2.69
3476 8601 2.955660 GTGTCCCATGTTTGTCCTTCAA 59.044 45.455 0.00 0.00 0.00 2.69
3477 8602 2.582052 GTGTCCCATGTTTGTCCTTCA 58.418 47.619 0.00 0.00 0.00 3.02
3478 8603 1.535462 CGTGTCCCATGTTTGTCCTTC 59.465 52.381 0.00 0.00 0.00 3.46
3479 8604 1.604604 CGTGTCCCATGTTTGTCCTT 58.395 50.000 0.00 0.00 0.00 3.36
3480 8605 0.889186 GCGTGTCCCATGTTTGTCCT 60.889 55.000 0.00 0.00 0.00 3.85
3481 8606 0.889186 AGCGTGTCCCATGTTTGTCC 60.889 55.000 0.00 0.00 0.00 4.02
3482 8607 0.951558 AAGCGTGTCCCATGTTTGTC 59.048 50.000 0.00 0.00 0.00 3.18
3483 8608 1.398692 AAAGCGTGTCCCATGTTTGT 58.601 45.000 0.00 0.00 0.00 2.83
3484 8609 2.393764 GAAAAGCGTGTCCCATGTTTG 58.606 47.619 0.00 0.00 0.00 2.93
3485 8610 1.339929 GGAAAAGCGTGTCCCATGTTT 59.660 47.619 0.00 0.00 0.00 2.83
3486 8611 0.958822 GGAAAAGCGTGTCCCATGTT 59.041 50.000 0.00 0.00 0.00 2.71
3487 8612 1.234615 CGGAAAAGCGTGTCCCATGT 61.235 55.000 2.96 0.00 0.00 3.21
3488 8613 0.953471 TCGGAAAAGCGTGTCCCATG 60.953 55.000 2.96 0.00 0.00 3.66
3489 8614 0.250553 TTCGGAAAAGCGTGTCCCAT 60.251 50.000 2.96 0.00 0.00 4.00
3490 8615 0.250553 ATTCGGAAAAGCGTGTCCCA 60.251 50.000 2.96 0.00 0.00 4.37
3491 8616 0.168128 CATTCGGAAAAGCGTGTCCC 59.832 55.000 2.96 0.00 0.00 4.46
3492 8617 0.168128 CCATTCGGAAAAGCGTGTCC 59.832 55.000 0.00 0.00 0.00 4.02
3493 8618 1.128692 CTCCATTCGGAAAAGCGTGTC 59.871 52.381 0.00 0.00 42.21 3.67
3494 8619 1.156736 CTCCATTCGGAAAAGCGTGT 58.843 50.000 0.00 0.00 42.21 4.49
3495 8620 0.447801 CCTCCATTCGGAAAAGCGTG 59.552 55.000 0.00 0.00 42.21 5.34
3496 8621 0.323629 TCCTCCATTCGGAAAAGCGT 59.676 50.000 0.00 0.00 42.21 5.07
3497 8622 1.398390 CTTCCTCCATTCGGAAAAGCG 59.602 52.381 0.00 0.00 42.21 4.68
3498 8623 2.437413 ACTTCCTCCATTCGGAAAAGC 58.563 47.619 0.00 0.00 42.21 3.51
3499 8624 6.374333 TCAATTACTTCCTCCATTCGGAAAAG 59.626 38.462 0.00 0.00 42.21 2.27
3500 8625 6.150474 GTCAATTACTTCCTCCATTCGGAAAA 59.850 38.462 0.00 0.00 42.21 2.29
3501 8626 5.646360 GTCAATTACTTCCTCCATTCGGAAA 59.354 40.000 0.00 0.00 42.21 3.13
3502 8627 5.045869 AGTCAATTACTTCCTCCATTCGGAA 60.046 40.000 0.00 0.00 36.34 4.30
3503 8628 4.469945 AGTCAATTACTTCCTCCATTCGGA 59.530 41.667 0.00 0.00 34.75 4.55
3504 8629 4.572389 CAGTCAATTACTTCCTCCATTCGG 59.428 45.833 0.00 0.00 35.76 4.30
3505 8630 4.572389 CCAGTCAATTACTTCCTCCATTCG 59.428 45.833 0.00 0.00 35.76 3.34
3506 8631 4.336713 GCCAGTCAATTACTTCCTCCATTC 59.663 45.833 0.00 0.00 35.76 2.67
3507 8632 4.263905 TGCCAGTCAATTACTTCCTCCATT 60.264 41.667 0.00 0.00 35.76 3.16
3508 8633 3.266772 TGCCAGTCAATTACTTCCTCCAT 59.733 43.478 0.00 0.00 35.76 3.41
3509 8634 2.642311 TGCCAGTCAATTACTTCCTCCA 59.358 45.455 0.00 0.00 35.76 3.86
3510 8635 3.350219 TGCCAGTCAATTACTTCCTCC 57.650 47.619 0.00 0.00 35.76 4.30
3511 8636 3.065925 GCATGCCAGTCAATTACTTCCTC 59.934 47.826 6.36 0.00 35.76 3.71
3512 8637 3.019564 GCATGCCAGTCAATTACTTCCT 58.980 45.455 6.36 0.00 35.76 3.36
3513 8638 2.099756 GGCATGCCAGTCAATTACTTCC 59.900 50.000 32.08 0.00 35.76 3.46
3514 8639 2.223340 CGGCATGCCAGTCAATTACTTC 60.223 50.000 34.93 4.14 35.76 3.01
3515 8640 1.745087 CGGCATGCCAGTCAATTACTT 59.255 47.619 34.93 0.00 35.76 2.24
3516 8641 1.340017 ACGGCATGCCAGTCAATTACT 60.340 47.619 34.93 7.73 39.81 2.24
3517 8642 1.094785 ACGGCATGCCAGTCAATTAC 58.905 50.000 34.93 5.36 35.37 1.89
3518 8643 1.093972 CACGGCATGCCAGTCAATTA 58.906 50.000 34.93 0.00 35.37 1.40
3519 8644 1.597797 CCACGGCATGCCAGTCAATT 61.598 55.000 34.93 9.75 35.37 2.32
3520 8645 2.048023 CCACGGCATGCCAGTCAAT 61.048 57.895 34.93 10.86 35.37 2.57
3521 8646 2.118233 TACCACGGCATGCCAGTCAA 62.118 55.000 34.93 15.21 35.37 3.18
3522 8647 1.909459 ATACCACGGCATGCCAGTCA 61.909 55.000 34.93 19.32 35.37 3.41
3523 8648 0.105964 TATACCACGGCATGCCAGTC 59.894 55.000 34.93 9.63 35.37 3.51
3524 8649 0.179056 GTATACCACGGCATGCCAGT 60.179 55.000 34.93 28.34 35.37 4.00
3525 8650 0.106708 AGTATACCACGGCATGCCAG 59.893 55.000 34.93 27.71 35.37 4.85
3526 8651 0.544223 AAGTATACCACGGCATGCCA 59.456 50.000 34.93 16.92 35.37 4.92
3527 8652 1.675552 AAAGTATACCACGGCATGCC 58.324 50.000 27.67 27.67 0.00 4.40
3528 8653 3.623960 TGTTAAAGTATACCACGGCATGC 59.376 43.478 9.90 9.90 0.00 4.06
3529 8654 5.113383 TCTGTTAAAGTATACCACGGCATG 58.887 41.667 0.00 0.00 0.00 4.06
3530 8655 5.347620 TCTGTTAAAGTATACCACGGCAT 57.652 39.130 0.00 0.00 0.00 4.40
3531 8656 4.804868 TCTGTTAAAGTATACCACGGCA 57.195 40.909 0.00 0.00 0.00 5.69
3532 8657 4.510340 CCATCTGTTAAAGTATACCACGGC 59.490 45.833 0.00 0.00 0.00 5.68
3533 8658 5.909477 TCCATCTGTTAAAGTATACCACGG 58.091 41.667 0.00 0.00 0.00 4.94
3534 8659 9.193133 CTAATCCATCTGTTAAAGTATACCACG 57.807 37.037 0.00 0.00 0.00 4.94
3535 8660 9.490379 CCTAATCCATCTGTTAAAGTATACCAC 57.510 37.037 0.00 0.00 0.00 4.16
3536 8661 9.442062 TCCTAATCCATCTGTTAAAGTATACCA 57.558 33.333 0.00 0.00 0.00 3.25
3542 8667 9.533831 AACAATTCCTAATCCATCTGTTAAAGT 57.466 29.630 0.00 0.00 0.00 2.66
3543 8668 9.793252 CAACAATTCCTAATCCATCTGTTAAAG 57.207 33.333 0.00 0.00 0.00 1.85
3544 8669 9.527157 TCAACAATTCCTAATCCATCTGTTAAA 57.473 29.630 0.00 0.00 0.00 1.52
3545 8670 9.527157 TTCAACAATTCCTAATCCATCTGTTAA 57.473 29.630 0.00 0.00 0.00 2.01
3546 8671 9.699410 ATTCAACAATTCCTAATCCATCTGTTA 57.301 29.630 0.00 0.00 0.00 2.41
3547 8672 8.599624 ATTCAACAATTCCTAATCCATCTGTT 57.400 30.769 0.00 0.00 0.00 3.16
3548 8673 9.699410 TTATTCAACAATTCCTAATCCATCTGT 57.301 29.630 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.