Multiple sequence alignment - TraesCS7D01G181000

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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 TraesCS7D01G181000 chr7D 100.000 2728 0 0 1 2728 134468088 134465361 0.000000e+00 5038.0
1 TraesCS7D01G181000 chr7D 87.296 307 30 8 372 673 614262880 614262578 2.600000e-90 342.0
2 TraesCS7D01G181000 chr7D 85.312 320 41 5 372 686 249422730 249423048 2.620000e-85 326.0
3 TraesCS7D01G181000 chr7D 94.595 37 1 1 20 56 504486277 504486312 3.790000e-04 56.5
4 TraesCS7D01G181000 chr7A 93.719 1433 55 20 771 2194 133627711 133626305 0.000000e+00 2115.0
5 TraesCS7D01G181000 chr7A 82.456 342 34 12 7 323 133628661 133628321 2.680000e-70 276.0
6 TraesCS7D01G181000 chr7A 96.226 106 4 0 675 780 133627990 133627885 1.000000e-39 174.0
7 TraesCS7D01G181000 chr7A 90.000 50 4 1 8 56 218267164 218267115 2.270000e-06 63.9
8 TraesCS7D01G181000 chr2A 90.351 798 40 14 1043 1822 673452136 673452914 0.000000e+00 1013.0
9 TraesCS7D01G181000 chr2A 91.641 646 33 7 727 1361 673417494 673418129 0.000000e+00 874.0
10 TraesCS7D01G181000 chr2A 90.964 664 30 10 719 1361 672746581 672745927 0.000000e+00 867.0
11 TraesCS7D01G181000 chr2A 90.813 664 31 11 719 1361 673419653 673420307 0.000000e+00 861.0
12 TraesCS7D01G181000 chr2A 90.670 418 34 5 1043 1459 178171042 178171455 3.970000e-153 551.0
13 TraesCS7D01G181000 chr2A 86.452 310 36 5 372 677 391106241 391106548 4.350000e-88 335.0
14 TraesCS7D01G181000 chr2A 90.079 252 16 6 1854 2096 673452914 673453165 4.380000e-83 318.0
15 TraesCS7D01G181000 chr2A 76.094 297 33 24 1815 2086 643440053 643440336 1.330000e-23 121.0
16 TraesCS7D01G181000 chr2D 89.875 800 36 15 1043 1822 528998889 528999663 0.000000e+00 987.0
17 TraesCS7D01G181000 chr2D 93.250 637 34 5 726 1361 527804862 527804234 0.000000e+00 929.0
18 TraesCS7D01G181000 chr2D 92.097 658 40 5 708 1361 528994401 528995050 0.000000e+00 917.0
19 TraesCS7D01G181000 chr2D 91.017 423 35 3 1043 1462 171444842 171444420 3.940000e-158 568.0
20 TraesCS7D01G181000 chr2D 91.561 237 15 4 1854 2085 528999663 528999899 3.390000e-84 322.0
21 TraesCS7D01G181000 chr2D 84.615 325 41 8 367 682 620197191 620197515 5.670000e-82 315.0
22 TraesCS7D01G181000 chr2D 83.824 68 7 3 8 72 644155542 644155608 8.160000e-06 62.1
23 TraesCS7D01G181000 chr2B 83.729 1094 104 44 1036 2096 628157095 628158147 0.000000e+00 966.0
24 TraesCS7D01G181000 chr2B 91.994 637 40 4 727 1361 627317433 627318060 0.000000e+00 883.0
25 TraesCS7D01G181000 chr2B 92.635 611 34 3 754 1361 627322843 627323445 0.000000e+00 869.0
26 TraesCS7D01G181000 chr2B 93.310 583 28 6 782 1361 625239186 625238612 0.000000e+00 850.0
27 TraesCS7D01G181000 chr2B 87.148 568 54 14 1380 1933 625261291 625260729 6.410000e-176 627.0
28 TraesCS7D01G181000 chr2B 91.627 418 31 4 1043 1459 225691691 225692105 2.360000e-160 575.0
29 TraesCS7D01G181000 chr2B 97.492 319 8 0 1043 1361 585890276 585890594 1.850000e-151 545.0
30 TraesCS7D01G181000 chr2B 85.000 320 37 9 372 683 118818978 118818662 5.670000e-82 315.0
31 TraesCS7D01G181000 chr2B 78.014 282 51 10 23 300 80621122 80621396 1.680000e-37 167.0
32 TraesCS7D01G181000 chr2B 75.887 282 34 20 1828 2086 585891647 585891917 2.220000e-21 113.0
33 TraesCS7D01G181000 chr2B 74.731 186 39 7 2329 2508 463864182 463863999 2.910000e-10 76.8
34 TraesCS7D01G181000 chr2B 97.059 34 0 1 20 53 789552011 789552043 3.790000e-04 56.5
35 TraesCS7D01G181000 chr7B 89.684 601 47 6 2135 2728 96602238 96601646 0.000000e+00 752.0
36 TraesCS7D01G181000 chr7B 86.557 305 37 3 371 673 599430266 599430568 1.570000e-87 333.0
37 TraesCS7D01G181000 chr7B 80.455 220 27 11 110 321 61121392 61121181 1.310000e-33 154.0
38 TraesCS7D01G181000 chr5B 93.103 319 22 0 1049 1367 388481609 388481291 4.110000e-128 468.0
39 TraesCS7D01G181000 chr5B 88.779 303 30 3 375 673 303229401 303229099 4.290000e-98 368.0
40 TraesCS7D01G181000 chr5B 80.508 236 33 9 77 304 491227102 491226872 4.670000e-38 169.0
41 TraesCS7D01G181000 chr5B 76.293 232 39 11 31 254 415527595 415527372 2.870000e-20 110.0
42 TraesCS7D01G181000 chr5D 88.562 306 29 5 372 673 267851826 267851523 1.540000e-97 366.0
43 TraesCS7D01G181000 chr1A 87.869 305 31 5 372 671 100300845 100300542 1.200000e-93 353.0
44 TraesCS7D01G181000 chr3D 87.584 298 33 4 372 667 69501418 69501713 2.600000e-90 342.0
45 TraesCS7D01G181000 chr3D 84.524 168 20 2 137 303 24205684 24205522 7.820000e-36 161.0
46 TraesCS7D01G181000 chr3D 79.204 226 37 8 81 301 512698171 512698391 6.090000e-32 148.0
47 TraesCS7D01G181000 chr5A 86.452 310 35 5 372 676 611135358 611135665 1.570000e-87 333.0
48 TraesCS7D01G181000 chr5A 85.185 324 42 5 358 677 553356211 553356532 7.280000e-86 327.0
49 TraesCS7D01G181000 chr5A 80.189 318 57 6 371 685 328682054 328682368 1.630000e-57 233.0
50 TraesCS7D01G181000 chrUn 85.016 307 36 9 364 664 402802799 402803101 1.230000e-78 303.0
51 TraesCS7D01G181000 chr6B 83.333 186 23 6 138 321 592939271 592939092 6.040000e-37 165.0
52 TraesCS7D01G181000 chr1D 77.703 296 49 14 35 321 310878263 310877976 6.040000e-37 165.0
53 TraesCS7D01G181000 chr4A 78.210 257 39 10 76 321 678883171 678882921 6.090000e-32 148.0
54 TraesCS7D01G181000 chr6D 78.313 249 36 7 2496 2727 58220520 58220767 7.870000e-31 145.0
55 TraesCS7D01G181000 chr6D 87.692 65 7 1 8 72 137798664 137798601 1.050000e-09 75.0
56 TraesCS7D01G181000 chr4B 97.222 36 0 1 20 55 25798714 25798680 2.930000e-05 60.2


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 TraesCS7D01G181000 chr7D 134465361 134468088 2727 True 5038.0 5038 100.000000 1 2728 1 chr7D.!!$R1 2727
1 TraesCS7D01G181000 chr7A 133626305 133628661 2356 True 855.0 2115 90.800333 7 2194 3 chr7A.!!$R2 2187
2 TraesCS7D01G181000 chr2A 673417494 673420307 2813 False 867.5 874 91.227000 719 1361 2 chr2A.!!$F4 642
3 TraesCS7D01G181000 chr2A 672745927 672746581 654 True 867.0 867 90.964000 719 1361 1 chr2A.!!$R1 642
4 TraesCS7D01G181000 chr2A 673452136 673453165 1029 False 665.5 1013 90.215000 1043 2096 2 chr2A.!!$F5 1053
5 TraesCS7D01G181000 chr2D 527804234 527804862 628 True 929.0 929 93.250000 726 1361 1 chr2D.!!$R2 635
6 TraesCS7D01G181000 chr2D 528994401 528999899 5498 False 742.0 987 91.177667 708 2085 3 chr2D.!!$F3 1377
7 TraesCS7D01G181000 chr2B 628157095 628158147 1052 False 966.0 966 83.729000 1036 2096 1 chr2B.!!$F5 1060
8 TraesCS7D01G181000 chr2B 627317433 627318060 627 False 883.0 883 91.994000 727 1361 1 chr2B.!!$F3 634
9 TraesCS7D01G181000 chr2B 627322843 627323445 602 False 869.0 869 92.635000 754 1361 1 chr2B.!!$F4 607
10 TraesCS7D01G181000 chr2B 625238612 625239186 574 True 850.0 850 93.310000 782 1361 1 chr2B.!!$R3 579
11 TraesCS7D01G181000 chr2B 625260729 625261291 562 True 627.0 627 87.148000 1380 1933 1 chr2B.!!$R4 553
12 TraesCS7D01G181000 chr2B 585890276 585891917 1641 False 329.0 545 86.689500 1043 2086 2 chr2B.!!$F7 1043
13 TraesCS7D01G181000 chr7B 96601646 96602238 592 True 752.0 752 89.684000 2135 2728 1 chr7B.!!$R2 593

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
469 798 0.035630 AGTGCAAGCCACCATCTCTC 60.036 55.0 0.00 0.0 45.83 3.2 F
664 993 0.037975 GCACCTTCTTTACCGGACGA 60.038 55.0 9.46 0.0 0.00 4.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1362 8229 0.108615 GCAGAGCACACCACGTATCT 60.109 55.0 0.00 0.00 0.00 1.98 R
2479 10117 0.546122 AAGGAAGTGGCACTGTGACA 59.454 50.0 22.83 13.36 29.15 3.58 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
46 47 0.602638 ACACGGATTTGCTTCTGCGA 60.603 50.000 0.00 0.00 43.34 5.10
50 51 1.012841 GGATTTGCTTCTGCGAGAGG 58.987 55.000 0.00 0.00 43.34 3.69
74 75 3.081133 CGCGTGTCTCGGAAATGG 58.919 61.111 0.00 0.00 40.26 3.16
86 87 5.411669 GTCTCGGAAATGGCTTTAGAAAAGA 59.588 40.000 3.63 0.00 0.00 2.52
110 126 4.900635 AAAAAGTGCTCTTCGTGTGATT 57.099 36.364 0.74 0.00 32.90 2.57
119 135 3.449632 TCTTCGTGTGATTTGTTCGTCA 58.550 40.909 0.00 0.00 0.00 4.35
120 136 4.055360 TCTTCGTGTGATTTGTTCGTCAT 58.945 39.130 0.00 0.00 0.00 3.06
191 213 2.323939 AGATCTCGACGCGATGAATC 57.676 50.000 15.93 14.20 34.61 2.52
200 222 0.930310 CGCGATGAATCCAACGATGT 59.070 50.000 0.00 0.00 40.41 3.06
205 227 4.201773 GCGATGAATCCAACGATGTAAACA 60.202 41.667 0.00 0.00 40.41 2.83
212 234 8.286800 TGAATCCAACGATGTAAACAGTTTAAG 58.713 33.333 7.35 3.13 0.00 1.85
305 331 0.463654 AGTTGCGAGAAGTGGTGCAA 60.464 50.000 0.00 0.00 44.34 4.08
306 332 2.021722 TTGCGAGAAGTGGTGCAAC 58.978 52.632 0.00 0.00 41.95 4.17
307 333 1.771073 TTGCGAGAAGTGGTGCAACG 61.771 55.000 0.00 0.00 41.95 4.10
308 334 2.244651 GCGAGAAGTGGTGCAACGT 61.245 57.895 0.00 0.00 38.12 3.99
309 335 1.564622 CGAGAAGTGGTGCAACGTG 59.435 57.895 0.00 0.00 38.12 4.49
310 336 1.279840 GAGAAGTGGTGCAACGTGC 59.720 57.895 0.00 0.00 45.29 5.34
328 657 3.055719 AACGGGCCACAAGCGATG 61.056 61.111 4.39 0.00 45.17 3.84
344 673 5.679734 AGCGATGATGACATATGAAAACC 57.320 39.130 10.38 0.00 36.82 3.27
348 677 5.613360 CGATGATGACATATGAAAACCGAGC 60.613 44.000 10.38 0.00 36.82 5.03
349 678 4.769688 TGATGACATATGAAAACCGAGCT 58.230 39.130 10.38 0.00 0.00 4.09
350 679 5.912892 TGATGACATATGAAAACCGAGCTA 58.087 37.500 10.38 0.00 0.00 3.32
351 680 6.524734 TGATGACATATGAAAACCGAGCTAT 58.475 36.000 10.38 0.00 0.00 2.97
352 681 6.992123 TGATGACATATGAAAACCGAGCTATT 59.008 34.615 10.38 0.00 0.00 1.73
353 682 8.147704 TGATGACATATGAAAACCGAGCTATTA 58.852 33.333 10.38 0.00 0.00 0.98
354 683 8.902540 ATGACATATGAAAACCGAGCTATTAA 57.097 30.769 10.38 0.00 0.00 1.40
355 684 8.138365 TGACATATGAAAACCGAGCTATTAAC 57.862 34.615 10.38 0.00 0.00 2.01
356 685 7.225931 TGACATATGAAAACCGAGCTATTAACC 59.774 37.037 10.38 0.00 0.00 2.85
357 686 7.280356 ACATATGAAAACCGAGCTATTAACCT 58.720 34.615 10.38 0.00 0.00 3.50
358 687 8.426489 ACATATGAAAACCGAGCTATTAACCTA 58.574 33.333 10.38 0.00 0.00 3.08
359 688 9.268268 CATATGAAAACCGAGCTATTAACCTAA 57.732 33.333 0.00 0.00 0.00 2.69
360 689 9.841295 ATATGAAAACCGAGCTATTAACCTAAA 57.159 29.630 0.00 0.00 0.00 1.85
361 690 7.982761 TGAAAACCGAGCTATTAACCTAAAA 57.017 32.000 0.00 0.00 0.00 1.52
362 691 8.393671 TGAAAACCGAGCTATTAACCTAAAAA 57.606 30.769 0.00 0.00 0.00 1.94
380 709 3.704800 AAAAACTGAGCTACTCCCTCC 57.295 47.619 0.00 0.00 0.00 4.30
381 710 1.187087 AAACTGAGCTACTCCCTCCG 58.813 55.000 0.00 0.00 0.00 4.63
382 711 0.039911 AACTGAGCTACTCCCTCCGT 59.960 55.000 0.00 0.00 0.00 4.69
383 712 0.039911 ACTGAGCTACTCCCTCCGTT 59.960 55.000 0.00 0.00 0.00 4.44
384 713 0.741915 CTGAGCTACTCCCTCCGTTC 59.258 60.000 0.00 0.00 0.00 3.95
385 714 1.030488 TGAGCTACTCCCTCCGTTCG 61.030 60.000 0.00 0.00 0.00 3.95
386 715 1.726533 GAGCTACTCCCTCCGTTCGG 61.727 65.000 4.74 4.74 0.00 4.30
387 716 2.050934 GCTACTCCCTCCGTTCGGT 61.051 63.158 11.04 0.00 0.00 4.69
388 717 0.749454 GCTACTCCCTCCGTTCGGTA 60.749 60.000 11.04 0.00 0.00 4.02
389 718 1.755179 CTACTCCCTCCGTTCGGTAA 58.245 55.000 11.04 0.00 0.00 2.85
390 719 2.094675 CTACTCCCTCCGTTCGGTAAA 58.905 52.381 11.04 0.00 0.00 2.01
391 720 1.341080 ACTCCCTCCGTTCGGTAAAA 58.659 50.000 11.04 0.00 0.00 1.52
392 721 1.693606 ACTCCCTCCGTTCGGTAAAAA 59.306 47.619 11.04 0.00 0.00 1.94
393 722 2.289257 ACTCCCTCCGTTCGGTAAAAAG 60.289 50.000 11.04 6.52 0.00 2.27
394 723 1.693606 TCCCTCCGTTCGGTAAAAAGT 59.306 47.619 11.04 0.00 0.00 2.66
395 724 2.104622 TCCCTCCGTTCGGTAAAAAGTT 59.895 45.455 11.04 0.00 0.00 2.66
396 725 3.323403 TCCCTCCGTTCGGTAAAAAGTTA 59.677 43.478 11.04 0.00 0.00 2.24
397 726 3.433274 CCCTCCGTTCGGTAAAAAGTTAC 59.567 47.826 11.04 0.00 39.18 2.50
398 727 4.057432 CCTCCGTTCGGTAAAAAGTTACA 58.943 43.478 11.04 0.00 41.31 2.41
399 728 4.692155 CCTCCGTTCGGTAAAAAGTTACAT 59.308 41.667 11.04 0.00 41.31 2.29
400 729 5.868801 CCTCCGTTCGGTAAAAAGTTACATA 59.131 40.000 11.04 0.00 41.31 2.29
401 730 6.536224 CCTCCGTTCGGTAAAAAGTTACATAT 59.464 38.462 11.04 0.00 41.31 1.78
402 731 7.706179 CCTCCGTTCGGTAAAAAGTTACATATA 59.294 37.037 11.04 0.00 41.31 0.86
403 732 8.633075 TCCGTTCGGTAAAAAGTTACATATAG 57.367 34.615 11.04 0.00 41.31 1.31
404 733 8.465999 TCCGTTCGGTAAAAAGTTACATATAGA 58.534 33.333 11.04 0.00 41.31 1.98
405 734 8.749499 CCGTTCGGTAAAAAGTTACATATAGAG 58.251 37.037 2.82 0.00 41.31 2.43
406 735 9.507280 CGTTCGGTAAAAAGTTACATATAGAGA 57.493 33.333 0.00 0.00 41.31 3.10
458 787 1.868469 TGCATTGGAAAAGTGCAAGC 58.132 45.000 0.00 0.00 44.99 4.01
459 788 1.150827 GCATTGGAAAAGTGCAAGCC 58.849 50.000 0.00 0.00 38.60 4.35
460 789 1.540797 GCATTGGAAAAGTGCAAGCCA 60.541 47.619 0.00 0.00 38.60 4.75
461 790 2.137523 CATTGGAAAAGTGCAAGCCAC 58.862 47.619 0.00 0.00 45.01 5.01
462 791 0.463620 TTGGAAAAGTGCAAGCCACC 59.536 50.000 0.00 0.00 45.83 4.61
463 792 0.685785 TGGAAAAGTGCAAGCCACCA 60.686 50.000 0.00 0.00 45.83 4.17
464 793 0.681175 GGAAAAGTGCAAGCCACCAT 59.319 50.000 0.00 0.00 45.83 3.55
465 794 1.337167 GGAAAAGTGCAAGCCACCATC 60.337 52.381 0.00 0.00 45.83 3.51
466 795 1.615392 GAAAAGTGCAAGCCACCATCT 59.385 47.619 0.00 0.00 45.83 2.90
467 796 1.251251 AAAGTGCAAGCCACCATCTC 58.749 50.000 0.00 0.00 45.83 2.75
468 797 0.403271 AAGTGCAAGCCACCATCTCT 59.597 50.000 0.00 0.00 45.83 3.10
469 798 0.035630 AGTGCAAGCCACCATCTCTC 60.036 55.000 0.00 0.00 45.83 3.20
470 799 1.028868 GTGCAAGCCACCATCTCTCC 61.029 60.000 0.00 0.00 38.55 3.71
471 800 1.203441 TGCAAGCCACCATCTCTCCT 61.203 55.000 0.00 0.00 0.00 3.69
472 801 0.463474 GCAAGCCACCATCTCTCCTC 60.463 60.000 0.00 0.00 0.00 3.71
473 802 1.202330 CAAGCCACCATCTCTCCTCT 58.798 55.000 0.00 0.00 0.00 3.69
474 803 1.558756 CAAGCCACCATCTCTCCTCTT 59.441 52.381 0.00 0.00 0.00 2.85
475 804 1.963985 AGCCACCATCTCTCCTCTTT 58.036 50.000 0.00 0.00 0.00 2.52
476 805 3.121929 AGCCACCATCTCTCCTCTTTA 57.878 47.619 0.00 0.00 0.00 1.85
477 806 3.454858 AGCCACCATCTCTCCTCTTTAA 58.545 45.455 0.00 0.00 0.00 1.52
478 807 4.043596 AGCCACCATCTCTCCTCTTTAAT 58.956 43.478 0.00 0.00 0.00 1.40
479 808 4.476479 AGCCACCATCTCTCCTCTTTAATT 59.524 41.667 0.00 0.00 0.00 1.40
480 809 5.667626 AGCCACCATCTCTCCTCTTTAATTA 59.332 40.000 0.00 0.00 0.00 1.40
481 810 5.760743 GCCACCATCTCTCCTCTTTAATTAC 59.239 44.000 0.00 0.00 0.00 1.89
482 811 6.292150 CCACCATCTCTCCTCTTTAATTACC 58.708 44.000 0.00 0.00 0.00 2.85
483 812 6.292150 CACCATCTCTCCTCTTTAATTACCC 58.708 44.000 0.00 0.00 0.00 3.69
484 813 5.970640 ACCATCTCTCCTCTTTAATTACCCA 59.029 40.000 0.00 0.00 0.00 4.51
485 814 6.447084 ACCATCTCTCCTCTTTAATTACCCAA 59.553 38.462 0.00 0.00 0.00 4.12
486 815 7.129504 ACCATCTCTCCTCTTTAATTACCCAAT 59.870 37.037 0.00 0.00 0.00 3.16
487 816 7.663493 CCATCTCTCCTCTTTAATTACCCAATC 59.337 40.741 0.00 0.00 0.00 2.67
488 817 7.138054 TCTCTCCTCTTTAATTACCCAATCC 57.862 40.000 0.00 0.00 0.00 3.01
489 818 6.101296 TCTCTCCTCTTTAATTACCCAATCCC 59.899 42.308 0.00 0.00 0.00 3.85
490 819 5.133830 TCTCCTCTTTAATTACCCAATCCCC 59.866 44.000 0.00 0.00 0.00 4.81
491 820 4.796816 TCCTCTTTAATTACCCAATCCCCA 59.203 41.667 0.00 0.00 0.00 4.96
492 821 5.256626 TCCTCTTTAATTACCCAATCCCCAA 59.743 40.000 0.00 0.00 0.00 4.12
493 822 6.067901 TCCTCTTTAATTACCCAATCCCCAAT 60.068 38.462 0.00 0.00 0.00 3.16
494 823 6.041979 CCTCTTTAATTACCCAATCCCCAATG 59.958 42.308 0.00 0.00 0.00 2.82
495 824 6.746894 TCTTTAATTACCCAATCCCCAATGA 58.253 36.000 0.00 0.00 0.00 2.57
496 825 6.838612 TCTTTAATTACCCAATCCCCAATGAG 59.161 38.462 0.00 0.00 0.00 2.90
497 826 4.625225 AATTACCCAATCCCCAATGAGT 57.375 40.909 0.00 0.00 0.00 3.41
498 827 4.625225 ATTACCCAATCCCCAATGAGTT 57.375 40.909 0.00 0.00 0.00 3.01
499 828 5.742562 ATTACCCAATCCCCAATGAGTTA 57.257 39.130 0.00 0.00 0.00 2.24
500 829 5.538082 TTACCCAATCCCCAATGAGTTAA 57.462 39.130 0.00 0.00 0.00 2.01
501 830 3.981212 ACCCAATCCCCAATGAGTTAAG 58.019 45.455 0.00 0.00 0.00 1.85
502 831 3.336694 ACCCAATCCCCAATGAGTTAAGT 59.663 43.478 0.00 0.00 0.00 2.24
503 832 3.701040 CCCAATCCCCAATGAGTTAAGTG 59.299 47.826 0.00 0.00 0.00 3.16
504 833 3.131046 CCAATCCCCAATGAGTTAAGTGC 59.869 47.826 0.00 0.00 0.00 4.40
505 834 3.737559 ATCCCCAATGAGTTAAGTGCA 57.262 42.857 0.00 0.00 0.00 4.57
506 835 3.737559 TCCCCAATGAGTTAAGTGCAT 57.262 42.857 0.00 0.00 0.00 3.96
507 836 3.355378 TCCCCAATGAGTTAAGTGCATG 58.645 45.455 0.00 0.00 0.00 4.06
508 837 3.091545 CCCCAATGAGTTAAGTGCATGT 58.908 45.455 0.00 0.00 0.00 3.21
509 838 4.018870 TCCCCAATGAGTTAAGTGCATGTA 60.019 41.667 0.00 0.00 0.00 2.29
510 839 4.336433 CCCCAATGAGTTAAGTGCATGTAG 59.664 45.833 0.00 0.00 0.00 2.74
511 840 5.185454 CCCAATGAGTTAAGTGCATGTAGA 58.815 41.667 0.00 0.00 0.00 2.59
512 841 5.647658 CCCAATGAGTTAAGTGCATGTAGAA 59.352 40.000 0.00 0.00 0.00 2.10
513 842 6.150976 CCCAATGAGTTAAGTGCATGTAGAAA 59.849 38.462 0.00 0.00 0.00 2.52
514 843 7.246311 CCAATGAGTTAAGTGCATGTAGAAAG 58.754 38.462 0.00 0.00 0.00 2.62
515 844 7.094634 CCAATGAGTTAAGTGCATGTAGAAAGT 60.095 37.037 0.00 0.00 0.00 2.66
516 845 8.935844 CAATGAGTTAAGTGCATGTAGAAAGTA 58.064 33.333 0.00 0.00 0.00 2.24
517 846 9.502091 AATGAGTTAAGTGCATGTAGAAAGTAA 57.498 29.630 0.00 0.00 0.00 2.24
518 847 8.534333 TGAGTTAAGTGCATGTAGAAAGTAAG 57.466 34.615 0.00 0.00 0.00 2.34
519 848 7.602644 TGAGTTAAGTGCATGTAGAAAGTAAGG 59.397 37.037 0.00 0.00 0.00 2.69
520 849 7.676947 AGTTAAGTGCATGTAGAAAGTAAGGA 58.323 34.615 0.00 0.00 0.00 3.36
521 850 7.819900 AGTTAAGTGCATGTAGAAAGTAAGGAG 59.180 37.037 0.00 0.00 0.00 3.69
522 851 6.360370 AAGTGCATGTAGAAAGTAAGGAGA 57.640 37.500 0.00 0.00 0.00 3.71
523 852 6.552445 AGTGCATGTAGAAAGTAAGGAGAT 57.448 37.500 0.00 0.00 0.00 2.75
524 853 6.951971 AGTGCATGTAGAAAGTAAGGAGATT 58.048 36.000 0.00 0.00 0.00 2.40
525 854 8.079211 AGTGCATGTAGAAAGTAAGGAGATTA 57.921 34.615 0.00 0.00 0.00 1.75
526 855 8.709308 AGTGCATGTAGAAAGTAAGGAGATTAT 58.291 33.333 0.00 0.00 0.00 1.28
527 856 8.768955 GTGCATGTAGAAAGTAAGGAGATTATG 58.231 37.037 0.00 0.00 0.00 1.90
528 857 8.486210 TGCATGTAGAAAGTAAGGAGATTATGT 58.514 33.333 0.00 0.00 0.00 2.29
529 858 8.768955 GCATGTAGAAAGTAAGGAGATTATGTG 58.231 37.037 0.00 0.00 0.00 3.21
530 859 9.823647 CATGTAGAAAGTAAGGAGATTATGTGT 57.176 33.333 0.00 0.00 0.00 3.72
566 895 9.490379 TTGATCTTGATTATCATGTGATGAGAG 57.510 33.333 5.78 0.00 43.53 3.20
567 896 8.867097 TGATCTTGATTATCATGTGATGAGAGA 58.133 33.333 5.78 4.03 43.53 3.10
568 897 9.361315 GATCTTGATTATCATGTGATGAGAGAG 57.639 37.037 5.78 0.06 43.53 3.20
569 898 8.474710 TCTTGATTATCATGTGATGAGAGAGA 57.525 34.615 5.78 2.13 43.53 3.10
570 899 8.921205 TCTTGATTATCATGTGATGAGAGAGAA 58.079 33.333 5.78 0.00 43.53 2.87
571 900 9.543783 CTTGATTATCATGTGATGAGAGAGAAA 57.456 33.333 5.78 0.00 43.53 2.52
640 969 9.877137 CACTTTTTATGGACAAATTTTAAAGCC 57.123 29.630 0.00 0.00 0.00 4.35
641 970 9.620259 ACTTTTTATGGACAAATTTTAAAGCCA 57.380 25.926 0.00 0.00 0.00 4.75
646 975 6.311055 TGGACAAATTTTAAAGCCAAATGC 57.689 33.333 0.00 0.00 41.71 3.56
647 976 5.824624 TGGACAAATTTTAAAGCCAAATGCA 59.175 32.000 0.00 0.00 44.83 3.96
648 977 6.142139 GGACAAATTTTAAAGCCAAATGCAC 58.858 36.000 0.00 0.00 44.83 4.57
649 978 6.070897 ACAAATTTTAAAGCCAAATGCACC 57.929 33.333 0.00 0.00 44.83 5.01
650 979 5.827267 ACAAATTTTAAAGCCAAATGCACCT 59.173 32.000 0.00 0.00 44.83 4.00
651 980 6.320926 ACAAATTTTAAAGCCAAATGCACCTT 59.679 30.769 0.00 0.00 44.83 3.50
652 981 6.558771 AATTTTAAAGCCAAATGCACCTTC 57.441 33.333 0.00 0.00 44.83 3.46
653 982 4.953940 TTTAAAGCCAAATGCACCTTCT 57.046 36.364 0.00 0.00 44.83 2.85
654 983 4.953940 TTAAAGCCAAATGCACCTTCTT 57.046 36.364 0.00 0.00 44.83 2.52
655 984 3.843893 AAAGCCAAATGCACCTTCTTT 57.156 38.095 0.00 0.00 44.83 2.52
656 985 4.953940 AAAGCCAAATGCACCTTCTTTA 57.046 36.364 0.00 0.00 44.83 1.85
657 986 3.942130 AGCCAAATGCACCTTCTTTAC 57.058 42.857 0.00 0.00 44.83 2.01
658 987 2.562738 AGCCAAATGCACCTTCTTTACC 59.437 45.455 0.00 0.00 44.83 2.85
659 988 2.671070 GCCAAATGCACCTTCTTTACCG 60.671 50.000 0.00 0.00 40.77 4.02
660 989 2.094752 CCAAATGCACCTTCTTTACCGG 60.095 50.000 0.00 0.00 0.00 5.28
661 990 2.817258 CAAATGCACCTTCTTTACCGGA 59.183 45.455 9.46 0.00 0.00 5.14
662 991 2.109425 ATGCACCTTCTTTACCGGAC 57.891 50.000 9.46 0.00 0.00 4.79
663 992 0.320073 TGCACCTTCTTTACCGGACG 60.320 55.000 9.46 0.00 0.00 4.79
664 993 0.037975 GCACCTTCTTTACCGGACGA 60.038 55.000 9.46 0.00 0.00 4.20
665 994 1.606224 GCACCTTCTTTACCGGACGAA 60.606 52.381 9.46 3.85 0.00 3.85
666 995 2.334838 CACCTTCTTTACCGGACGAAG 58.665 52.381 9.46 13.40 34.22 3.79
696 1025 5.597182 AGTATTAACATTCTCGTCTAGGCCA 59.403 40.000 5.01 0.00 0.00 5.36
820 1344 1.745115 CACCGATCCGCACCACAAT 60.745 57.895 0.00 0.00 0.00 2.71
829 1353 2.040544 GCACCACAATCCTCCCACG 61.041 63.158 0.00 0.00 0.00 4.94
893 1417 2.202797 CACGGATCGACCCAGCAG 60.203 66.667 0.00 0.00 34.64 4.24
896 1420 2.121538 CGGATCGACCCAGCAGAGA 61.122 63.158 0.00 0.00 34.64 3.10
1361 8228 1.077212 TACGGCTTCGGAGGCTAGT 60.077 57.895 16.26 9.31 45.73 2.57
1362 8229 0.181114 TACGGCTTCGGAGGCTAGTA 59.819 55.000 16.26 8.26 45.73 1.82
1363 8230 1.102222 ACGGCTTCGGAGGCTAGTAG 61.102 60.000 16.26 1.37 45.73 2.57
1366 8233 2.792878 GGCTTCGGAGGCTAGTAGATA 58.207 52.381 10.66 0.00 44.59 1.98
1378 8251 3.548415 GCTAGTAGATACGTGGTGTGCTC 60.548 52.174 0.00 0.00 0.00 4.26
1513 8427 2.223803 ACTCCGATCCTGAGTTCTGT 57.776 50.000 6.71 0.00 40.06 3.41
1601 8570 1.999735 TGCAGCTAGAATTGTACGCAC 59.000 47.619 0.00 0.00 0.00 5.34
1630 8637 7.258441 CAATCTGATCAATCTTTTGTCATGCT 58.742 34.615 0.00 0.00 34.32 3.79
1794 8805 4.774124 TCTAAAGATGCTGAGATGTTGGG 58.226 43.478 0.00 0.00 0.00 4.12
1825 9413 6.916932 GCAAATATTTCTGAATCAAGCCTCTC 59.083 38.462 0.00 0.00 0.00 3.20
1834 9422 3.648507 ATCAAGCCTCTCAAGCATCTT 57.351 42.857 0.00 0.00 0.00 2.40
2015 9633 5.125356 TGTGCCTGATAAGAATACACATGG 58.875 41.667 0.00 0.00 32.06 3.66
2250 9887 9.663904 CATAAGGTGGTCATTTAATTAACATCG 57.336 33.333 0.00 0.00 0.00 3.84
2267 9904 4.696455 ACATCGAATGTATCACTGATGCA 58.304 39.130 11.68 11.68 42.78 3.96
2314 9951 1.671328 GGCGGCTTCTTTAGGATTGTC 59.329 52.381 0.00 0.00 0.00 3.18
2358 9996 3.570638 CTCGGCTTGCCGATGCTG 61.571 66.667 32.45 19.32 41.47 4.41
2366 10004 2.897350 GCCGATGCTGGTAGTGGC 60.897 66.667 0.00 0.00 35.04 5.01
2393 10031 0.253327 GTGGGTGTCATCCCCTTCTC 59.747 60.000 0.00 0.00 46.48 2.87
2408 10046 0.824109 TTCTCGGAGGCACTACCATG 59.176 55.000 4.96 0.00 41.55 3.66
2415 10053 1.147153 GGCACTACCATGGCCTCTC 59.853 63.158 13.04 0.00 44.32 3.20
2429 10067 0.399091 CCTCTCTACCATGCCCCTCA 60.399 60.000 0.00 0.00 0.00 3.86
2451 10089 1.848886 CGCCAGGGAAAACCCTAGGT 61.849 60.000 8.29 0.00 41.63 3.08
2499 10137 1.230324 GTCACAGTGCCACTTCCTTC 58.770 55.000 0.00 0.00 0.00 3.46
2523 10161 0.178953 AGGCATTGTCTTGGGTGCTT 60.179 50.000 0.00 0.00 37.70 3.91
2525 10163 0.668401 GCATTGTCTTGGGTGCTTGC 60.668 55.000 0.00 0.00 34.85 4.01
2544 10182 2.281484 GAAGCCGCCTGTGTTGGA 60.281 61.111 0.00 0.00 0.00 3.53
2545 10183 1.675641 GAAGCCGCCTGTGTTGGAT 60.676 57.895 0.00 0.00 0.00 3.41
2548 10186 2.568090 CCGCCTGTGTTGGATTGC 59.432 61.111 0.00 0.00 0.00 3.56
2549 10187 2.267351 CCGCCTGTGTTGGATTGCA 61.267 57.895 0.00 0.00 0.00 4.08
2558 10196 3.059166 GTGTTGGATTGCAATGTTGGAC 58.941 45.455 18.59 8.60 0.00 4.02
2562 10200 0.798009 GATTGCAATGTTGGACGCCG 60.798 55.000 18.59 0.00 0.00 6.46
2563 10201 1.523154 ATTGCAATGTTGGACGCCGT 61.523 50.000 12.09 0.00 0.00 5.68
2649 10287 2.041265 TCCAGGCCTTCCTCCTCC 59.959 66.667 0.00 0.00 41.93 4.30
2651 10289 2.364317 CAGGCCTTCCTCCTCCGA 60.364 66.667 0.00 0.00 41.93 4.55
2655 10293 2.885861 CCTTCCTCCTCCGACACG 59.114 66.667 0.00 0.00 0.00 4.49
2697 10335 1.674221 GCCATCTCCTAGGCGCATAAG 60.674 57.143 10.83 0.00 41.70 1.73
2698 10336 1.066573 CCATCTCCTAGGCGCATAAGG 60.067 57.143 10.83 12.80 0.00 2.69
2699 10337 1.620819 CATCTCCTAGGCGCATAAGGT 59.379 52.381 10.83 0.00 0.00 3.50
2714 10357 4.683942 GCATAAGGTGGGGTACGTTGATTA 60.684 45.833 0.00 0.00 37.86 1.75
2715 10358 5.617252 CATAAGGTGGGGTACGTTGATTAT 58.383 41.667 0.00 0.00 37.86 1.28
2720 10363 3.869246 GTGGGGTACGTTGATTATGTCTG 59.131 47.826 0.00 0.00 0.00 3.51
2722 10365 3.869246 GGGGTACGTTGATTATGTCTGTG 59.131 47.826 0.00 0.00 0.00 3.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 2.670414 CAGAAGCAAATCCGTGTCTCTC 59.330 50.000 0.00 0.00 0.00 3.20
27 28 0.602638 TCGCAGAAGCAAATCCGTGT 60.603 50.000 0.00 0.00 42.27 4.49
59 60 1.156736 AAAGCCATTTCCGAGACACG 58.843 50.000 0.00 0.00 42.18 4.49
94 95 3.545633 GAACAAATCACACGAAGAGCAC 58.454 45.455 0.00 0.00 0.00 4.40
95 96 2.220824 CGAACAAATCACACGAAGAGCA 59.779 45.455 0.00 0.00 0.00 4.26
99 115 3.852471 TGACGAACAAATCACACGAAG 57.148 42.857 0.00 0.00 0.00 3.79
126 142 8.532977 AATAGGTTTTGATGAAAAATTCACGG 57.467 30.769 0.00 0.00 43.48 4.94
156 178 6.986817 GTCGAGATCTTCAAAATTAGATCCCA 59.013 38.462 10.90 0.00 45.05 4.37
157 179 6.144724 CGTCGAGATCTTCAAAATTAGATCCC 59.855 42.308 10.90 1.23 45.05 3.85
158 180 6.346199 GCGTCGAGATCTTCAAAATTAGATCC 60.346 42.308 10.90 4.36 45.05 3.36
191 213 8.901748 CAAATCTTAAACTGTTTACATCGTTGG 58.098 33.333 12.27 0.00 0.00 3.77
200 222 8.346300 TCATGCGTTCAAATCTTAAACTGTTTA 58.654 29.630 8.84 8.84 0.00 2.01
205 227 9.906660 TTAAATCATGCGTTCAAATCTTAAACT 57.093 25.926 0.00 0.00 0.00 2.66
287 313 2.021722 TTGCACCACTTCTCGCAAC 58.978 52.632 0.00 0.00 39.32 4.17
306 332 4.326766 CTTGTGGCCCGTTGCACG 62.327 66.667 0.00 0.00 43.89 5.34
307 333 4.645921 GCTTGTGGCCCGTTGCAC 62.646 66.667 0.00 0.00 43.89 4.57
310 336 3.055719 ATCGCTTGTGGCCCGTTG 61.056 61.111 0.00 0.00 37.74 4.10
312 338 3.329542 ATCATCGCTTGTGGCCCGT 62.330 57.895 0.00 0.00 37.74 5.28
313 339 2.514592 ATCATCGCTTGTGGCCCG 60.515 61.111 0.00 0.00 37.74 6.13
314 340 1.451927 TCATCATCGCTTGTGGCCC 60.452 57.895 0.00 0.00 37.74 5.80
316 342 1.019673 ATGTCATCATCGCTTGTGGC 58.980 50.000 0.00 0.00 37.64 5.01
318 344 5.662211 TTCATATGTCATCATCGCTTGTG 57.338 39.130 1.90 0.00 35.70 3.33
328 657 7.426929 AATAGCTCGGTTTTCATATGTCATC 57.573 36.000 1.90 0.00 0.00 2.92
360 689 2.028020 CGGAGGGAGTAGCTCAGTTTTT 60.028 50.000 0.00 0.00 31.08 1.94
361 690 1.550976 CGGAGGGAGTAGCTCAGTTTT 59.449 52.381 0.00 0.00 31.08 2.43
362 691 1.187087 CGGAGGGAGTAGCTCAGTTT 58.813 55.000 0.00 0.00 31.08 2.66
363 692 0.039911 ACGGAGGGAGTAGCTCAGTT 59.960 55.000 0.00 0.00 31.08 3.16
364 693 0.039911 AACGGAGGGAGTAGCTCAGT 59.960 55.000 0.00 0.00 31.08 3.41
365 694 0.741915 GAACGGAGGGAGTAGCTCAG 59.258 60.000 0.00 0.00 31.08 3.35
366 695 1.030488 CGAACGGAGGGAGTAGCTCA 61.030 60.000 0.00 0.00 31.08 4.26
367 696 1.726533 CCGAACGGAGGGAGTAGCTC 61.727 65.000 7.53 0.00 37.50 4.09
368 697 1.753463 CCGAACGGAGGGAGTAGCT 60.753 63.158 7.53 0.00 37.50 3.32
369 698 0.749454 TACCGAACGGAGGGAGTAGC 60.749 60.000 20.14 0.00 38.96 3.58
370 699 1.755179 TTACCGAACGGAGGGAGTAG 58.245 55.000 20.14 0.00 38.96 2.57
371 700 2.214376 TTTACCGAACGGAGGGAGTA 57.786 50.000 20.14 0.00 38.96 2.59
372 701 1.341080 TTTTACCGAACGGAGGGAGT 58.659 50.000 20.14 0.00 38.96 3.85
373 702 2.289257 ACTTTTTACCGAACGGAGGGAG 60.289 50.000 20.14 11.98 38.96 4.30
374 703 1.693606 ACTTTTTACCGAACGGAGGGA 59.306 47.619 20.14 0.71 38.96 4.20
375 704 2.174363 ACTTTTTACCGAACGGAGGG 57.826 50.000 20.14 6.17 38.96 4.30
376 705 4.057432 TGTAACTTTTTACCGAACGGAGG 58.943 43.478 20.14 0.50 37.39 4.30
377 706 5.851047 ATGTAACTTTTTACCGAACGGAG 57.149 39.130 20.14 8.60 37.39 4.63
378 707 8.465999 TCTATATGTAACTTTTTACCGAACGGA 58.534 33.333 20.14 1.01 37.39 4.69
379 708 8.633075 TCTATATGTAACTTTTTACCGAACGG 57.367 34.615 11.83 11.83 37.39 4.44
380 709 9.507280 TCTCTATATGTAACTTTTTACCGAACG 57.493 33.333 0.00 0.00 37.39 3.95
440 769 1.150827 GGCTTGCACTTTTCCAATGC 58.849 50.000 0.00 0.00 39.88 3.56
441 770 2.137523 GTGGCTTGCACTTTTCCAATG 58.862 47.619 0.00 0.00 0.00 2.82
442 771 1.070601 GGTGGCTTGCACTTTTCCAAT 59.929 47.619 0.00 0.00 0.00 3.16
443 772 0.463620 GGTGGCTTGCACTTTTCCAA 59.536 50.000 0.00 0.00 0.00 3.53
444 773 0.685785 TGGTGGCTTGCACTTTTCCA 60.686 50.000 0.00 0.00 0.00 3.53
445 774 0.681175 ATGGTGGCTTGCACTTTTCC 59.319 50.000 0.00 0.00 0.00 3.13
446 775 1.615392 AGATGGTGGCTTGCACTTTTC 59.385 47.619 0.00 0.00 0.00 2.29
447 776 1.615392 GAGATGGTGGCTTGCACTTTT 59.385 47.619 0.00 0.00 0.00 2.27
448 777 1.202976 AGAGATGGTGGCTTGCACTTT 60.203 47.619 0.00 0.00 0.00 2.66
449 778 0.403271 AGAGATGGTGGCTTGCACTT 59.597 50.000 0.00 0.00 0.00 3.16
450 779 0.035630 GAGAGATGGTGGCTTGCACT 60.036 55.000 0.00 0.00 0.00 4.40
451 780 1.028868 GGAGAGATGGTGGCTTGCAC 61.029 60.000 0.00 0.00 0.00 4.57
452 781 1.203441 AGGAGAGATGGTGGCTTGCA 61.203 55.000 0.00 0.00 0.00 4.08
453 782 0.463474 GAGGAGAGATGGTGGCTTGC 60.463 60.000 0.00 0.00 0.00 4.01
454 783 1.202330 AGAGGAGAGATGGTGGCTTG 58.798 55.000 0.00 0.00 0.00 4.01
455 784 1.963985 AAGAGGAGAGATGGTGGCTT 58.036 50.000 0.00 0.00 0.00 4.35
456 785 1.963985 AAAGAGGAGAGATGGTGGCT 58.036 50.000 0.00 0.00 0.00 4.75
457 786 3.914426 TTAAAGAGGAGAGATGGTGGC 57.086 47.619 0.00 0.00 0.00 5.01
458 787 6.292150 GGTAATTAAAGAGGAGAGATGGTGG 58.708 44.000 0.00 0.00 0.00 4.61
459 788 6.126768 TGGGTAATTAAAGAGGAGAGATGGTG 60.127 42.308 0.00 0.00 0.00 4.17
460 789 5.970640 TGGGTAATTAAAGAGGAGAGATGGT 59.029 40.000 0.00 0.00 0.00 3.55
461 790 6.500589 TGGGTAATTAAAGAGGAGAGATGG 57.499 41.667 0.00 0.00 0.00 3.51
462 791 7.663493 GGATTGGGTAATTAAAGAGGAGAGATG 59.337 40.741 0.00 0.00 0.00 2.90
463 792 7.202232 GGGATTGGGTAATTAAAGAGGAGAGAT 60.202 40.741 0.00 0.00 0.00 2.75
464 793 6.101296 GGGATTGGGTAATTAAAGAGGAGAGA 59.899 42.308 0.00 0.00 0.00 3.10
465 794 6.299922 GGGATTGGGTAATTAAAGAGGAGAG 58.700 44.000 0.00 0.00 0.00 3.20
466 795 5.133830 GGGGATTGGGTAATTAAAGAGGAGA 59.866 44.000 0.00 0.00 0.00 3.71
467 796 5.103686 TGGGGATTGGGTAATTAAAGAGGAG 60.104 44.000 0.00 0.00 0.00 3.69
468 797 4.796816 TGGGGATTGGGTAATTAAAGAGGA 59.203 41.667 0.00 0.00 0.00 3.71
469 798 5.137412 TGGGGATTGGGTAATTAAAGAGG 57.863 43.478 0.00 0.00 0.00 3.69
470 799 6.838612 TCATTGGGGATTGGGTAATTAAAGAG 59.161 38.462 0.00 0.00 0.00 2.85
471 800 6.746894 TCATTGGGGATTGGGTAATTAAAGA 58.253 36.000 0.00 0.00 0.00 2.52
472 801 6.611236 ACTCATTGGGGATTGGGTAATTAAAG 59.389 38.462 0.00 0.00 0.00 1.85
473 802 6.507568 ACTCATTGGGGATTGGGTAATTAAA 58.492 36.000 0.00 0.00 0.00 1.52
474 803 6.098716 ACTCATTGGGGATTGGGTAATTAA 57.901 37.500 0.00 0.00 0.00 1.40
475 804 5.742562 ACTCATTGGGGATTGGGTAATTA 57.257 39.130 0.00 0.00 0.00 1.40
476 805 4.625225 ACTCATTGGGGATTGGGTAATT 57.375 40.909 0.00 0.00 0.00 1.40
477 806 4.625225 AACTCATTGGGGATTGGGTAAT 57.375 40.909 0.00 0.00 0.00 1.89
478 807 5.015817 ACTTAACTCATTGGGGATTGGGTAA 59.984 40.000 0.00 0.00 0.00 2.85
479 808 4.542525 ACTTAACTCATTGGGGATTGGGTA 59.457 41.667 0.00 0.00 0.00 3.69
480 809 3.336694 ACTTAACTCATTGGGGATTGGGT 59.663 43.478 0.00 0.00 0.00 4.51
481 810 3.701040 CACTTAACTCATTGGGGATTGGG 59.299 47.826 0.00 0.00 0.00 4.12
482 811 3.131046 GCACTTAACTCATTGGGGATTGG 59.869 47.826 0.00 0.00 0.00 3.16
483 812 3.763360 TGCACTTAACTCATTGGGGATTG 59.237 43.478 0.00 0.00 0.00 2.67
484 813 4.046286 TGCACTTAACTCATTGGGGATT 57.954 40.909 0.00 0.00 0.00 3.01
485 814 3.737559 TGCACTTAACTCATTGGGGAT 57.262 42.857 0.00 0.00 0.00 3.85
486 815 3.245229 ACATGCACTTAACTCATTGGGGA 60.245 43.478 0.00 0.00 0.00 4.81
487 816 3.091545 ACATGCACTTAACTCATTGGGG 58.908 45.455 0.00 0.00 0.00 4.96
488 817 5.185454 TCTACATGCACTTAACTCATTGGG 58.815 41.667 0.00 0.00 0.00 4.12
489 818 6.741992 TTCTACATGCACTTAACTCATTGG 57.258 37.500 0.00 0.00 0.00 3.16
490 819 7.810658 ACTTTCTACATGCACTTAACTCATTG 58.189 34.615 0.00 0.00 0.00 2.82
491 820 7.986085 ACTTTCTACATGCACTTAACTCATT 57.014 32.000 0.00 0.00 0.00 2.57
492 821 9.155975 CTTACTTTCTACATGCACTTAACTCAT 57.844 33.333 0.00 0.00 0.00 2.90
493 822 7.602644 CCTTACTTTCTACATGCACTTAACTCA 59.397 37.037 0.00 0.00 0.00 3.41
494 823 7.817962 TCCTTACTTTCTACATGCACTTAACTC 59.182 37.037 0.00 0.00 0.00 3.01
495 824 7.676947 TCCTTACTTTCTACATGCACTTAACT 58.323 34.615 0.00 0.00 0.00 2.24
496 825 7.817962 TCTCCTTACTTTCTACATGCACTTAAC 59.182 37.037 0.00 0.00 0.00 2.01
497 826 7.903145 TCTCCTTACTTTCTACATGCACTTAA 58.097 34.615 0.00 0.00 0.00 1.85
498 827 7.476540 TCTCCTTACTTTCTACATGCACTTA 57.523 36.000 0.00 0.00 0.00 2.24
499 828 6.360370 TCTCCTTACTTTCTACATGCACTT 57.640 37.500 0.00 0.00 0.00 3.16
500 829 6.552445 ATCTCCTTACTTTCTACATGCACT 57.448 37.500 0.00 0.00 0.00 4.40
501 830 8.768955 CATAATCTCCTTACTTTCTACATGCAC 58.231 37.037 0.00 0.00 0.00 4.57
502 831 8.486210 ACATAATCTCCTTACTTTCTACATGCA 58.514 33.333 0.00 0.00 0.00 3.96
503 832 8.768955 CACATAATCTCCTTACTTTCTACATGC 58.231 37.037 0.00 0.00 0.00 4.06
504 833 9.823647 ACACATAATCTCCTTACTTTCTACATG 57.176 33.333 0.00 0.00 0.00 3.21
540 869 9.490379 CTCTCATCACATGATAATCAAGATCAA 57.510 33.333 0.00 0.00 38.85 2.57
541 870 8.867097 TCTCTCATCACATGATAATCAAGATCA 58.133 33.333 0.00 0.00 38.85 2.92
542 871 9.361315 CTCTCTCATCACATGATAATCAAGATC 57.639 37.037 0.00 0.00 38.85 2.75
543 872 9.091220 TCTCTCTCATCACATGATAATCAAGAT 57.909 33.333 0.00 0.00 38.85 2.40
544 873 8.474710 TCTCTCTCATCACATGATAATCAAGA 57.525 34.615 0.00 0.00 38.85 3.02
545 874 9.543783 TTTCTCTCTCATCACATGATAATCAAG 57.456 33.333 0.00 0.00 38.85 3.02
614 943 9.877137 GGCTTTAAAATTTGTCCATAAAAAGTG 57.123 29.630 0.00 0.00 0.00 3.16
615 944 9.620259 TGGCTTTAAAATTTGTCCATAAAAAGT 57.380 25.926 0.00 0.00 0.00 2.66
620 949 8.510505 GCATTTGGCTTTAAAATTTGTCCATAA 58.489 29.630 0.00 0.00 40.25 1.90
621 950 7.663081 TGCATTTGGCTTTAAAATTTGTCCATA 59.337 29.630 0.00 0.00 45.15 2.74
622 951 6.489361 TGCATTTGGCTTTAAAATTTGTCCAT 59.511 30.769 0.00 0.00 45.15 3.41
623 952 5.824624 TGCATTTGGCTTTAAAATTTGTCCA 59.175 32.000 0.00 0.00 45.15 4.02
624 953 6.142139 GTGCATTTGGCTTTAAAATTTGTCC 58.858 36.000 0.00 0.00 45.15 4.02
625 954 6.017192 AGGTGCATTTGGCTTTAAAATTTGTC 60.017 34.615 0.00 0.00 45.15 3.18
626 955 5.827267 AGGTGCATTTGGCTTTAAAATTTGT 59.173 32.000 0.00 0.00 45.15 2.83
627 956 6.316440 AGGTGCATTTGGCTTTAAAATTTG 57.684 33.333 0.00 0.00 45.15 2.32
628 957 6.772233 AGAAGGTGCATTTGGCTTTAAAATTT 59.228 30.769 0.00 0.00 45.15 1.82
629 958 6.298361 AGAAGGTGCATTTGGCTTTAAAATT 58.702 32.000 0.00 0.00 45.15 1.82
630 959 5.868454 AGAAGGTGCATTTGGCTTTAAAAT 58.132 33.333 0.00 0.00 45.15 1.82
631 960 5.289083 AGAAGGTGCATTTGGCTTTAAAA 57.711 34.783 0.00 0.00 45.15 1.52
632 961 4.953940 AGAAGGTGCATTTGGCTTTAAA 57.046 36.364 0.00 0.00 45.15 1.52
633 962 4.953940 AAGAAGGTGCATTTGGCTTTAA 57.046 36.364 0.00 0.00 45.15 1.52
634 963 4.953940 AAAGAAGGTGCATTTGGCTTTA 57.046 36.364 0.00 0.00 45.15 1.85
635 964 3.843893 AAAGAAGGTGCATTTGGCTTT 57.156 38.095 0.00 0.00 45.15 3.51
636 965 3.006859 GGTAAAGAAGGTGCATTTGGCTT 59.993 43.478 0.00 0.00 45.15 4.35
637 966 2.562738 GGTAAAGAAGGTGCATTTGGCT 59.437 45.455 0.00 0.00 45.15 4.75
638 967 2.671070 CGGTAAAGAAGGTGCATTTGGC 60.671 50.000 0.00 0.00 45.13 4.52
639 968 2.094752 CCGGTAAAGAAGGTGCATTTGG 60.095 50.000 0.00 0.00 0.00 3.28
640 969 2.817258 TCCGGTAAAGAAGGTGCATTTG 59.183 45.455 0.00 0.00 0.00 2.32
641 970 2.817844 GTCCGGTAAAGAAGGTGCATTT 59.182 45.455 0.00 0.00 0.00 2.32
642 971 2.433436 GTCCGGTAAAGAAGGTGCATT 58.567 47.619 0.00 0.00 0.00 3.56
643 972 1.674817 CGTCCGGTAAAGAAGGTGCAT 60.675 52.381 0.00 0.00 0.00 3.96
644 973 0.320073 CGTCCGGTAAAGAAGGTGCA 60.320 55.000 0.00 0.00 0.00 4.57
645 974 0.037975 TCGTCCGGTAAAGAAGGTGC 60.038 55.000 0.00 0.00 0.00 5.01
646 975 2.288640 ACTTCGTCCGGTAAAGAAGGTG 60.289 50.000 23.52 9.67 43.00 4.00
647 976 1.966354 ACTTCGTCCGGTAAAGAAGGT 59.034 47.619 23.52 13.21 43.00 3.50
648 977 2.029649 TCACTTCGTCCGGTAAAGAAGG 60.030 50.000 23.52 16.55 43.00 3.46
649 978 3.243336 CTCACTTCGTCCGGTAAAGAAG 58.757 50.000 20.53 20.53 43.95 2.85
650 979 2.624838 ACTCACTTCGTCCGGTAAAGAA 59.375 45.455 16.43 10.43 0.00 2.52
651 980 2.233271 ACTCACTTCGTCCGGTAAAGA 58.767 47.619 16.43 4.09 0.00 2.52
652 981 2.719426 ACTCACTTCGTCCGGTAAAG 57.281 50.000 0.00 6.52 0.00 1.85
653 982 3.149196 ACTACTCACTTCGTCCGGTAAA 58.851 45.455 0.00 0.00 0.00 2.01
654 983 2.783135 ACTACTCACTTCGTCCGGTAA 58.217 47.619 0.00 0.00 0.00 2.85
655 984 2.479566 ACTACTCACTTCGTCCGGTA 57.520 50.000 0.00 0.00 0.00 4.02
656 985 2.479566 TACTACTCACTTCGTCCGGT 57.520 50.000 0.00 0.00 0.00 5.28
657 986 5.163723 TGTTAATACTACTCACTTCGTCCGG 60.164 44.000 0.00 0.00 0.00 5.14
658 987 5.872635 TGTTAATACTACTCACTTCGTCCG 58.127 41.667 0.00 0.00 0.00 4.79
659 988 8.189460 AGAATGTTAATACTACTCACTTCGTCC 58.811 37.037 0.00 0.00 0.00 4.79
660 989 9.224058 GAGAATGTTAATACTACTCACTTCGTC 57.776 37.037 0.00 0.00 0.00 4.20
661 990 7.909121 CGAGAATGTTAATACTACTCACTTCGT 59.091 37.037 0.00 0.00 0.00 3.85
662 991 7.909121 ACGAGAATGTTAATACTACTCACTTCG 59.091 37.037 0.00 0.00 0.00 3.79
663 992 9.224058 GACGAGAATGTTAATACTACTCACTTC 57.776 37.037 0.00 0.00 0.00 3.01
664 993 8.958506 AGACGAGAATGTTAATACTACTCACTT 58.041 33.333 0.00 0.00 0.00 3.16
665 994 8.508883 AGACGAGAATGTTAATACTACTCACT 57.491 34.615 0.00 0.00 0.00 3.41
666 995 9.866936 CTAGACGAGAATGTTAATACTACTCAC 57.133 37.037 0.00 0.00 0.00 3.51
667 996 9.053840 CCTAGACGAGAATGTTAATACTACTCA 57.946 37.037 0.00 0.00 0.00 3.41
668 997 8.016801 GCCTAGACGAGAATGTTAATACTACTC 58.983 40.741 0.00 0.00 0.00 2.59
669 998 7.040548 GGCCTAGACGAGAATGTTAATACTACT 60.041 40.741 0.00 0.00 0.00 2.57
670 999 7.083230 GGCCTAGACGAGAATGTTAATACTAC 58.917 42.308 0.00 0.00 0.00 2.73
671 1000 6.774170 TGGCCTAGACGAGAATGTTAATACTA 59.226 38.462 3.32 0.00 0.00 1.82
672 1001 5.597182 TGGCCTAGACGAGAATGTTAATACT 59.403 40.000 3.32 0.00 0.00 2.12
673 1002 5.839621 TGGCCTAGACGAGAATGTTAATAC 58.160 41.667 3.32 0.00 0.00 1.89
696 1025 4.731313 AGGACAATCTGTCTTTTCCCTT 57.269 40.909 6.74 0.00 46.19 3.95
780 1303 2.903855 GGCGGAGATGTGGGCATG 60.904 66.667 0.00 0.00 35.07 4.06
820 1344 4.731853 TGGGATGCCGTGGGAGGA 62.732 66.667 0.00 0.00 0.00 3.71
829 1353 0.533755 CGATCAGAAGGTGGGATGCC 60.534 60.000 0.00 0.00 0.00 4.40
893 1417 0.173255 GTGTCTGCTCTCTGGCTCTC 59.827 60.000 0.00 0.00 0.00 3.20
896 1420 1.229145 AGGTGTCTGCTCTCTGGCT 60.229 57.895 0.00 0.00 0.00 4.75
1297 8164 1.807886 GTAGACGACGTCCATGGCT 59.192 57.895 23.76 6.24 32.18 4.75
1361 8228 1.134367 GCAGAGCACACCACGTATCTA 59.866 52.381 0.00 0.00 0.00 1.98
1362 8229 0.108615 GCAGAGCACACCACGTATCT 60.109 55.000 0.00 0.00 0.00 1.98
1363 8230 0.108615 AGCAGAGCACACCACGTATC 60.109 55.000 0.00 0.00 0.00 2.24
1366 8233 2.280389 CAGCAGAGCACACCACGT 60.280 61.111 0.00 0.00 0.00 4.49
1513 8427 5.446340 CGATTTCATCACTGAAGCAATTCGA 60.446 40.000 0.00 0.00 42.19 3.71
1601 8570 7.088272 TGACAAAAGATTGATCAGATTGCAAG 58.912 34.615 4.94 0.00 38.94 4.01
1794 8805 6.455360 TGATTCAGAAATATTTGCAGGACC 57.545 37.500 5.17 0.00 0.00 4.46
1834 9422 5.334802 CGCATGTACCATTTCAAACTCTGAA 60.335 40.000 0.00 0.00 42.48 3.02
2015 9633 9.981114 TTTCTCAATAAAAGAAAAGGGAATCAC 57.019 29.630 0.00 0.00 39.22 3.06
2121 9758 6.264518 GGGTAACATGAAAGAGAGGAAAAACA 59.735 38.462 0.00 0.00 39.74 2.83
2122 9759 6.490381 AGGGTAACATGAAAGAGAGGAAAAAC 59.510 38.462 0.00 0.00 39.74 2.43
2127 9764 5.590818 ACTAGGGTAACATGAAAGAGAGGA 58.409 41.667 0.00 0.00 39.74 3.71
2221 9858 9.303116 TGTTAATTAAATGACCACCTTATGTGT 57.697 29.630 0.00 0.00 43.85 3.72
2245 9882 4.696455 TGCATCAGTGATACATTCGATGT 58.304 39.130 5.03 5.92 46.92 3.06
2246 9883 5.638234 AGATGCATCAGTGATACATTCGATG 59.362 40.000 27.81 0.75 27.48 3.84
2250 9887 7.443575 AGGTAAAGATGCATCAGTGATACATTC 59.556 37.037 27.81 11.93 27.48 2.67
2289 9926 1.005450 TCCTAAAGAAGCCGCCCAATT 59.995 47.619 0.00 0.00 0.00 2.32
2293 9930 1.025041 CAATCCTAAAGAAGCCGCCC 58.975 55.000 0.00 0.00 0.00 6.13
2344 9982 2.124736 TACCAGCATCGGCAAGCC 60.125 61.111 0.00 0.00 44.61 4.35
2358 9996 1.964373 CACGGGTGTTGCCACTACC 60.964 63.158 0.00 0.00 41.53 3.18
2384 10022 1.870941 TAGTGCCTCCGAGAAGGGGA 61.871 60.000 0.00 0.00 46.06 4.81
2393 10031 2.203070 GCCATGGTAGTGCCTCCG 60.203 66.667 14.67 0.00 38.35 4.63
2408 10046 2.823758 GGGGCATGGTAGAGAGGCC 61.824 68.421 0.00 0.00 45.15 5.19
2415 10053 1.524621 CGCTTGAGGGGCATGGTAG 60.525 63.158 0.00 0.00 0.00 3.18
2451 10089 3.833645 CCGATCCGGCGAACCAGA 61.834 66.667 9.30 0.00 41.17 3.86
2479 10117 0.546122 AAGGAAGTGGCACTGTGACA 59.454 50.000 22.83 13.36 29.15 3.58
2499 10137 2.094390 CACCCAAGACAATGCCTTCATG 60.094 50.000 0.00 0.00 32.23 3.07
2508 10146 1.526575 CCGCAAGCACCCAAGACAAT 61.527 55.000 0.00 0.00 0.00 2.71
2533 10171 1.001181 ACATTGCAATCCAACACAGGC 59.999 47.619 9.53 0.00 35.99 4.85
2537 10175 3.059166 GTCCAACATTGCAATCCAACAC 58.941 45.455 9.53 0.33 35.99 3.32
2544 10182 1.212490 CGGCGTCCAACATTGCAAT 59.788 52.632 5.99 5.99 0.00 3.56
2545 10183 2.190170 ACGGCGTCCAACATTGCAA 61.190 52.632 6.77 0.00 0.00 4.08
2548 10186 2.126888 GCACGGCGTCCAACATTG 60.127 61.111 10.85 0.00 0.00 2.82
2549 10187 2.281484 AGCACGGCGTCCAACATT 60.281 55.556 10.85 0.00 0.00 2.71
2562 10200 2.788191 AAGCAGCCAGTACCGAGCAC 62.788 60.000 2.65 0.00 0.00 4.40
2563 10201 2.507110 GAAGCAGCCAGTACCGAGCA 62.507 60.000 2.65 0.00 0.00 4.26
2572 10210 1.453379 CATCCTGGGAAGCAGCCAG 60.453 63.158 0.00 0.00 0.00 4.85
2588 10226 4.552365 CGCCTCGGATGCCCACAT 62.552 66.667 0.00 0.00 39.98 3.21
2649 10287 2.357034 CAGGACCCAACCGTGTCG 60.357 66.667 0.00 0.00 34.73 4.35
2651 10289 2.748058 GATGCAGGACCCAACCGTGT 62.748 60.000 0.00 0.00 34.73 4.49
2655 10293 2.043953 GGGATGCAGGACCCAACC 60.044 66.667 17.82 0.00 44.96 3.77
2697 10335 3.118519 AGACATAATCAACGTACCCCACC 60.119 47.826 0.00 0.00 0.00 4.61
2698 10336 3.869246 CAGACATAATCAACGTACCCCAC 59.131 47.826 0.00 0.00 0.00 4.61
2699 10337 3.516300 ACAGACATAATCAACGTACCCCA 59.484 43.478 0.00 0.00 0.00 4.96


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

AutoCloner maintained by Alex Coulton.