Multiple sequence alignment - TraesCS6B01G125200

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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 TraesCS6B01G125200 chr6B 100.000 3458 0 0 1 3458 120318167 120314710 0.000000e+00 6386.0
1 TraesCS6B01G125200 chr6B 89.611 2339 199 17 694 2990 120355123 120352787 0.000000e+00 2933.0
2 TraesCS6B01G125200 chr6B 90.102 1960 154 13 710 2631 120595440 120593483 0.000000e+00 2508.0
3 TraesCS6B01G125200 chr6B 85.583 326 28 5 2993 3318 120352693 120352387 1.200000e-84 324.0
4 TraesCS6B01G125200 chr6B 95.181 166 7 1 431 595 120595626 120595461 9.520000e-66 261.0
5 TraesCS6B01G125200 chr6B 93.939 132 7 1 434 564 120355286 120355155 7.570000e-47 198.0
6 TraesCS6B01G125200 chr6B 93.220 118 3 1 25 137 120355784 120355667 5.940000e-38 169.0
7 TraesCS6B01G125200 chr6B 90.179 112 9 1 593 704 259879748 259879639 1.000000e-30 145.0
8 TraesCS6B01G125200 chr6B 77.003 287 25 18 64 311 120595968 120595684 3.620000e-25 126.0
9 TraesCS6B01G125200 chr6D 92.888 2798 137 10 697 3458 53176029 53173258 0.000000e+00 4008.0
10 TraesCS6B01G125200 chr6D 92.958 2201 130 10 694 2872 50956332 50958529 0.000000e+00 3182.0
11 TraesCS6B01G125200 chr6D 89.280 2332 192 31 710 2990 51342913 51345237 0.000000e+00 2868.0
12 TraesCS6B01G125200 chr6D 88.832 2346 206 25 694 2990 51068175 51070513 0.000000e+00 2830.0
13 TraesCS6B01G125200 chr6D 88.838 1971 169 18 699 2631 51348795 51350752 0.000000e+00 2374.0
14 TraesCS6B01G125200 chr6D 88.590 1972 175 19 699 2631 51074013 51075973 0.000000e+00 2350.0
15 TraesCS6B01G125200 chr6D 88.471 1969 179 17 701 2631 50949098 50951056 0.000000e+00 2335.0
16 TraesCS6B01G125200 chr6D 87.569 362 25 6 2873 3220 50958572 50958927 5.380000e-108 401.0
17 TraesCS6B01G125200 chr6D 87.048 332 25 7 2990 3318 51345358 51345674 3.280000e-95 359.0
18 TraesCS6B01G125200 chr6D 86.145 332 28 7 2990 3318 51070634 51070950 3.300000e-90 342.0
19 TraesCS6B01G125200 chr6D 94.578 166 8 1 431 595 51342727 51342892 4.430000e-64 255.0
20 TraesCS6B01G125200 chr6D 91.209 182 14 2 434 613 53176210 53176029 2.670000e-61 246.0
21 TraesCS6B01G125200 chr6D 87.831 189 15 3 431 611 51067988 51068176 7.520000e-52 215.0
22 TraesCS6B01G125200 chr6D 78.218 303 38 17 22 307 51067644 51067935 5.940000e-38 169.0
23 TraesCS6B01G125200 chr6D 92.308 117 5 2 431 543 51073848 51073964 2.760000e-36 163.0
24 TraesCS6B01G125200 chr6D 91.453 117 5 3 431 543 51348631 51348746 4.620000e-34 156.0
25 TraesCS6B01G125200 chr6D 77.431 288 23 15 64 311 51342384 51342669 2.170000e-27 134.0
26 TraesCS6B01G125200 chr6D 77.656 273 23 16 73 307 50955829 50956101 7.790000e-27 132.0
27 TraesCS6B01G125200 chr6D 90.217 92 8 1 217 307 53176356 53176265 6.060000e-23 119.0
28 TraesCS6B01G125200 chr6A 93.583 2665 108 28 694 3317 64167877 64165235 0.000000e+00 3916.0
29 TraesCS6B01G125200 chr6A 92.350 183 9 1 434 611 64168058 64167876 4.430000e-64 255.0
30 TraesCS6B01G125200 chr6A 90.476 168 10 2 428 595 64175302 64175141 2.090000e-52 217.0
31 TraesCS6B01G125200 chr6A 98.901 91 0 1 305 395 359016601 359016512 9.930000e-36 161.0
32 TraesCS6B01G125200 chr6A 78.049 287 23 14 64 311 64175652 64175367 1.000000e-30 145.0
33 TraesCS6B01G125200 chr6A 91.860 86 6 1 223 307 64168198 64168113 6.060000e-23 119.0
34 TraesCS6B01G125200 chr6A 84.483 116 12 3 25 139 64168603 64168493 3.650000e-20 110.0
35 TraesCS6B01G125200 chr5B 91.013 1836 148 12 831 2656 60825836 60824008 0.000000e+00 2460.0
36 TraesCS6B01G125200 chr5B 94.175 103 4 2 599 701 678507284 678507384 4.620000e-34 156.0
37 TraesCS6B01G125200 chr5D 90.904 1836 148 11 831 2656 57819687 57821513 0.000000e+00 2447.0
38 TraesCS6B01G125200 chr5D 82.745 765 93 22 2578 3316 535495205 535494454 0.000000e+00 645.0
39 TraesCS6B01G125200 chr5D 97.802 91 2 0 309 399 275419640 275419730 1.280000e-34 158.0
40 TraesCS6B01G125200 chr5D 100.000 29 0 0 3430 3458 410640338 410640310 2.000000e-03 54.7
41 TraesCS6B01G125200 chr3D 87.775 2135 196 37 694 2768 560024908 560022779 0.000000e+00 2436.0
42 TraesCS6B01G125200 chr7D 81.878 756 92 27 2651 3376 548235179 548235919 2.300000e-166 595.0
43 TraesCS6B01G125200 chr7D 81.770 757 91 29 2651 3376 548232982 548233722 1.070000e-164 590.0
44 TraesCS6B01G125200 chr7D 92.308 65 5 0 64 128 548230514 548230578 3.670000e-15 93.5
45 TraesCS6B01G125200 chr7D 100.000 28 0 0 3431 3458 151776594 151776567 6.000000e-03 52.8
46 TraesCS6B01G125200 chr7B 82.280 728 80 27 2651 3344 591463530 591464242 4.970000e-163 584.0
47 TraesCS6B01G125200 chr7B 98.876 89 1 0 610 698 194555207 194555119 3.570000e-35 159.0
48 TraesCS6B01G125200 chr7B 95.000 100 4 1 600 698 72259483 72259384 4.620000e-34 156.0
49 TraesCS6B01G125200 chr7B 89.655 116 9 2 290 402 534830124 534830239 1.000000e-30 145.0
50 TraesCS6B01G125200 chr7B 76.821 302 30 24 22 289 591461008 591461303 2.170000e-27 134.0
51 TraesCS6B01G125200 chr7B 100.000 28 0 0 3431 3458 2672994 2673021 6.000000e-03 52.8
52 TraesCS6B01G125200 chr7A 84.220 545 56 21 2850 3376 631986685 631987217 1.430000e-138 503.0
53 TraesCS6B01G125200 chr7A 76.435 331 32 27 22 311 631983816 631984141 1.670000e-28 137.0
54 TraesCS6B01G125200 chr2B 98.913 92 0 1 604 695 582299512 582299602 2.760000e-36 163.0
55 TraesCS6B01G125200 chr2B 95.050 101 3 2 306 406 575869956 575869858 1.280000e-34 158.0
56 TraesCS6B01G125200 chr2B 95.000 100 4 1 610 708 297439024 297438925 4.620000e-34 156.0
57 TraesCS6B01G125200 chr4B 97.849 93 2 0 610 702 527979223 527979131 9.930000e-36 161.0
58 TraesCS6B01G125200 chr3B 98.889 90 1 0 307 396 652291839 652291750 9.930000e-36 161.0
59 TraesCS6B01G125200 chr3B 96.842 95 2 1 306 400 200482328 200482421 1.280000e-34 158.0
60 TraesCS6B01G125200 chr1D 98.889 90 1 0 609 698 6790593 6790682 9.930000e-36 161.0
61 TraesCS6B01G125200 chr1D 94.595 37 0 2 3424 3458 486390060 486390096 4.820000e-04 56.5
62 TraesCS6B01G125200 chr1D 100.000 28 0 0 3431 3458 43181117 43181090 6.000000e-03 52.8
63 TraesCS6B01G125200 chr1B 96.875 96 2 1 304 398 164832070 164832165 3.570000e-35 159.0
64 TraesCS6B01G125200 chr1B 94.175 103 4 2 294 395 660748496 660748395 4.620000e-34 156.0
65 TraesCS6B01G125200 chr1A 94.286 105 2 3 594 695 299072325 299072428 1.280000e-34 158.0
66 TraesCS6B01G125200 chr1A 100.000 28 0 0 3431 3458 30295861 30295888 6.000000e-03 52.8
67 TraesCS6B01G125200 chr2A 92.661 109 7 1 291 398 98882836 98882728 4.620000e-34 156.0
68 TraesCS6B01G125200 chr4A 89.583 48 3 2 3411 3458 537951988 537951943 3.730000e-05 60.2
69 TraesCS6B01G125200 chr2D 96.875 32 0 1 3428 3458 638503455 638503486 6.000000e-03 52.8


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 TraesCS6B01G125200 chr6B 120314710 120318167 3457 True 6386.000000 6386 100.000000 1 3458 1 chr6B.!!$R1 3457
1 TraesCS6B01G125200 chr6B 120593483 120595968 2485 True 965.000000 2508 87.428667 64 2631 3 chr6B.!!$R4 2567
2 TraesCS6B01G125200 chr6B 120352387 120355784 3397 True 906.000000 2933 90.588250 25 3318 4 chr6B.!!$R3 3293
3 TraesCS6B01G125200 chr6D 50949098 50951056 1958 False 2335.000000 2335 88.471000 701 2631 1 chr6D.!!$F1 1930
4 TraesCS6B01G125200 chr6D 53173258 53176356 3098 True 1457.666667 4008 91.438000 217 3458 3 chr6D.!!$R1 3241
5 TraesCS6B01G125200 chr6D 50955829 50958927 3098 False 1238.333333 3182 86.061000 73 3220 3 chr6D.!!$F2 3147
6 TraesCS6B01G125200 chr6D 51342384 51350752 8368 False 1024.333333 2868 88.104667 64 3318 6 chr6D.!!$F4 3254
7 TraesCS6B01G125200 chr6D 51067644 51075973 8329 False 1011.500000 2830 86.987333 22 3318 6 chr6D.!!$F3 3296
8 TraesCS6B01G125200 chr6A 64165235 64168603 3368 True 1100.000000 3916 90.569000 25 3317 4 chr6A.!!$R2 3292
9 TraesCS6B01G125200 chr5B 60824008 60825836 1828 True 2460.000000 2460 91.013000 831 2656 1 chr5B.!!$R1 1825
10 TraesCS6B01G125200 chr5D 57819687 57821513 1826 False 2447.000000 2447 90.904000 831 2656 1 chr5D.!!$F1 1825
11 TraesCS6B01G125200 chr5D 535494454 535495205 751 True 645.000000 645 82.745000 2578 3316 1 chr5D.!!$R2 738
12 TraesCS6B01G125200 chr3D 560022779 560024908 2129 True 2436.000000 2436 87.775000 694 2768 1 chr3D.!!$R1 2074
13 TraesCS6B01G125200 chr7D 548230514 548235919 5405 False 426.166667 595 85.318667 64 3376 3 chr7D.!!$F1 3312
14 TraesCS6B01G125200 chr7B 591461008 591464242 3234 False 359.000000 584 79.550500 22 3344 2 chr7B.!!$F3 3322
15 TraesCS6B01G125200 chr7A 631983816 631987217 3401 False 320.000000 503 80.327500 22 3376 2 chr7A.!!$F1 3354

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
624 1069 0.465097 TAGCTACTCCCTCCGTTCCG 60.465 60.000 0.0 0.0 0.00 4.30 F
626 1071 1.108132 GCTACTCCCTCCGTTCCGAT 61.108 60.000 0.0 0.0 0.00 4.18 F
634 1079 1.133790 CCTCCGTTCCGATTTACTCGT 59.866 52.381 0.0 0.0 46.18 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1858 2395 0.179100 TTGCTGCAGCTCCGAGATAC 60.179 55.000 36.61 6.97 42.66 2.24 R
2406 2944 1.065564 AGGGCATCTGAGAAGTTGCTC 60.066 52.381 6.50 2.61 35.75 4.26 R
2633 5379 0.321564 TCACCAGATGCCGTCCAAAG 60.322 55.000 0.00 0.00 0.00 2.77 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
110 119 0.794473 CTCAAGGTACCGCCGTTTTC 59.206 55.000 6.18 0.00 43.70 2.29
123 133 1.676014 CCGTTTTCCGCTTCTCCTGAT 60.676 52.381 0.00 0.00 34.38 2.90
148 183 1.203052 CCCCTGTTCGTATGTACACGT 59.797 52.381 0.00 0.00 42.51 4.49
186 227 4.503714 TCGCTTTCTTGATAGGGGAAAT 57.496 40.909 5.62 0.00 0.00 2.17
211 252 5.340803 CGACCGGTAGTATCATCCATAATG 58.659 45.833 7.34 0.00 36.65 1.90
212 253 5.105877 CGACCGGTAGTATCATCCATAATGT 60.106 44.000 7.34 0.00 36.68 2.71
216 257 7.122353 ACCGGTAGTATCATCCATAATGTAGTC 59.878 40.741 4.49 0.00 36.68 2.59
221 262 8.907829 AGTATCATCCATAATGTAGTCATCCT 57.092 34.615 0.00 0.00 36.68 3.24
222 263 8.976353 AGTATCATCCATAATGTAGTCATCCTC 58.024 37.037 0.00 0.00 36.68 3.71
223 264 6.611613 TCATCCATAATGTAGTCATCCTCC 57.388 41.667 0.00 0.00 36.68 4.30
240 479 7.121611 GTCATCCTCCTAGGTAGTATAGAAAGC 59.878 44.444 9.08 0.00 36.53 3.51
316 685 8.840200 TTCTAGTTGAACAGATATTACTCCCT 57.160 34.615 0.00 0.00 0.00 4.20
317 686 8.466617 TCTAGTTGAACAGATATTACTCCCTC 57.533 38.462 0.00 0.00 0.00 4.30
318 687 6.487299 AGTTGAACAGATATTACTCCCTCC 57.513 41.667 0.00 0.00 0.00 4.30
319 688 5.069251 AGTTGAACAGATATTACTCCCTCCG 59.931 44.000 0.00 0.00 0.00 4.63
320 689 4.543689 TGAACAGATATTACTCCCTCCGT 58.456 43.478 0.00 0.00 0.00 4.69
321 690 4.960469 TGAACAGATATTACTCCCTCCGTT 59.040 41.667 0.00 0.00 0.00 4.44
322 691 5.068723 TGAACAGATATTACTCCCTCCGTTC 59.931 44.000 0.00 0.00 0.00 3.95
323 692 3.896272 ACAGATATTACTCCCTCCGTTCC 59.104 47.826 0.00 0.00 0.00 3.62
324 693 3.895656 CAGATATTACTCCCTCCGTTCCA 59.104 47.826 0.00 0.00 0.00 3.53
325 694 4.344102 CAGATATTACTCCCTCCGTTCCAA 59.656 45.833 0.00 0.00 0.00 3.53
326 695 4.966805 AGATATTACTCCCTCCGTTCCAAA 59.033 41.667 0.00 0.00 0.00 3.28
327 696 5.427481 AGATATTACTCCCTCCGTTCCAAAA 59.573 40.000 0.00 0.00 0.00 2.44
328 697 4.586306 ATTACTCCCTCCGTTCCAAAAT 57.414 40.909 0.00 0.00 0.00 1.82
329 698 5.703730 ATTACTCCCTCCGTTCCAAAATA 57.296 39.130 0.00 0.00 0.00 1.40
330 699 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
331 700 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
332 701 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
333 702 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
334 703 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
335 704 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
336 705 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
337 706 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
338 707 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
339 708 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
340 709 4.142469 CCGTTCCAAAATAGATGACCCAAC 60.142 45.833 0.00 0.00 0.00 3.77
341 710 4.700213 CGTTCCAAAATAGATGACCCAACT 59.300 41.667 0.00 0.00 0.00 3.16
342 711 5.183140 CGTTCCAAAATAGATGACCCAACTT 59.817 40.000 0.00 0.00 0.00 2.66
343 712 6.294508 CGTTCCAAAATAGATGACCCAACTTT 60.295 38.462 0.00 0.00 0.00 2.66
344 713 7.094549 CGTTCCAAAATAGATGACCCAACTTTA 60.095 37.037 0.00 0.00 0.00 1.85
345 714 8.749354 GTTCCAAAATAGATGACCCAACTTTAT 58.251 33.333 0.00 0.00 0.00 1.40
346 715 9.983024 TTCCAAAATAGATGACCCAACTTTATA 57.017 29.630 0.00 0.00 0.00 0.98
347 716 9.403583 TCCAAAATAGATGACCCAACTTTATAC 57.596 33.333 0.00 0.00 0.00 1.47
348 717 9.408648 CCAAAATAGATGACCCAACTTTATACT 57.591 33.333 0.00 0.00 0.00 2.12
382 751 9.739276 ATACAAAGTTGAGTCATCTATTTTGGA 57.261 29.630 14.35 9.09 40.00 3.53
383 752 8.463930 ACAAAGTTGAGTCATCTATTTTGGAA 57.536 30.769 14.35 0.00 40.00 3.53
384 753 8.352942 ACAAAGTTGAGTCATCTATTTTGGAAC 58.647 33.333 14.35 0.00 40.00 3.62
385 754 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
386 755 5.643777 AGTTGAGTCATCTATTTTGGAACGG 59.356 40.000 1.70 0.00 0.00 4.44
387 756 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
388 757 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
389 758 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
390 759 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
391 760 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
392 761 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
393 762 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
394 763 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
395 764 3.629142 ATTTTGGAACGGAGGGAGTAG 57.371 47.619 0.00 0.00 0.00 2.57
396 765 2.314071 TTTGGAACGGAGGGAGTAGA 57.686 50.000 0.00 0.00 0.00 2.59
415 787 7.873505 GGAGTAGAAGATTGGCGTTATCTATTT 59.126 37.037 0.00 0.00 32.21 1.40
416 788 8.819643 AGTAGAAGATTGGCGTTATCTATTTC 57.180 34.615 0.00 0.00 32.21 2.17
421 793 9.262358 GAAGATTGGCGTTATCTATTTCTAGTT 57.738 33.333 0.00 0.00 32.21 2.24
422 794 8.594881 AGATTGGCGTTATCTATTTCTAGTTG 57.405 34.615 0.00 0.00 30.74 3.16
424 796 8.958119 ATTGGCGTTATCTATTTCTAGTTGAA 57.042 30.769 0.00 0.00 0.00 2.69
425 797 7.766219 TGGCGTTATCTATTTCTAGTTGAAC 57.234 36.000 0.00 0.00 33.88 3.18
426 798 7.324935 TGGCGTTATCTATTTCTAGTTGAACA 58.675 34.615 0.00 0.00 33.88 3.18
427 799 7.491372 TGGCGTTATCTATTTCTAGTTGAACAG 59.509 37.037 0.00 0.00 33.88 3.16
428 800 7.705325 GGCGTTATCTATTTCTAGTTGAACAGA 59.295 37.037 0.00 0.00 33.88 3.41
429 801 9.250624 GCGTTATCTATTTCTAGTTGAACAGAT 57.749 33.333 12.27 12.27 38.83 2.90
441 842 8.915036 TCTAGTTGAACAGATATTTCCCTACTC 58.085 37.037 0.00 0.00 0.00 2.59
599 1044 6.255887 CGATCCTAGCTCGTTTCTTTGTATTT 59.744 38.462 0.00 0.00 0.00 1.40
618 1063 8.191534 TGTATTTTCTTATAGCTACTCCCTCC 57.808 38.462 0.00 0.00 0.00 4.30
619 1064 5.786264 TTTTCTTATAGCTACTCCCTCCG 57.214 43.478 0.00 0.00 0.00 4.63
620 1065 4.450305 TTCTTATAGCTACTCCCTCCGT 57.550 45.455 0.00 0.00 0.00 4.69
621 1066 4.450305 TCTTATAGCTACTCCCTCCGTT 57.550 45.455 0.00 0.00 0.00 4.44
622 1067 4.396522 TCTTATAGCTACTCCCTCCGTTC 58.603 47.826 0.00 0.00 0.00 3.95
623 1068 1.998222 ATAGCTACTCCCTCCGTTCC 58.002 55.000 0.00 0.00 0.00 3.62
624 1069 0.465097 TAGCTACTCCCTCCGTTCCG 60.465 60.000 0.00 0.00 0.00 4.30
625 1070 1.751927 GCTACTCCCTCCGTTCCGA 60.752 63.158 0.00 0.00 0.00 4.55
626 1071 1.108132 GCTACTCCCTCCGTTCCGAT 61.108 60.000 0.00 0.00 0.00 4.18
627 1072 1.400737 CTACTCCCTCCGTTCCGATT 58.599 55.000 0.00 0.00 0.00 3.34
628 1073 1.755380 CTACTCCCTCCGTTCCGATTT 59.245 52.381 0.00 0.00 0.00 2.17
629 1074 1.856629 ACTCCCTCCGTTCCGATTTA 58.143 50.000 0.00 0.00 0.00 1.40
630 1075 1.479730 ACTCCCTCCGTTCCGATTTAC 59.520 52.381 0.00 0.00 0.00 2.01
631 1076 1.755380 CTCCCTCCGTTCCGATTTACT 59.245 52.381 0.00 0.00 0.00 2.24
632 1077 1.753073 TCCCTCCGTTCCGATTTACTC 59.247 52.381 0.00 0.00 0.00 2.59
634 1079 1.133790 CCTCCGTTCCGATTTACTCGT 59.866 52.381 0.00 0.00 46.18 4.18
635 1080 2.448219 CTCCGTTCCGATTTACTCGTC 58.552 52.381 0.00 0.00 46.18 4.20
636 1081 1.186030 CCGTTCCGATTTACTCGTCG 58.814 55.000 0.00 0.00 46.18 5.12
637 1082 1.466360 CCGTTCCGATTTACTCGTCGT 60.466 52.381 0.00 0.00 46.18 4.34
638 1083 1.576246 CGTTCCGATTTACTCGTCGTG 59.424 52.381 0.00 0.00 46.18 4.35
639 1084 1.916000 GTTCCGATTTACTCGTCGTGG 59.084 52.381 0.00 0.00 46.18 4.94
640 1085 1.167851 TCCGATTTACTCGTCGTGGT 58.832 50.000 0.00 0.00 46.18 4.16
641 1086 1.541147 TCCGATTTACTCGTCGTGGTT 59.459 47.619 0.00 0.00 46.18 3.67
642 1087 2.030007 TCCGATTTACTCGTCGTGGTTT 60.030 45.455 0.00 0.00 46.18 3.27
643 1088 2.733026 CCGATTTACTCGTCGTGGTTTT 59.267 45.455 0.00 0.00 46.18 2.43
644 1089 3.919804 CCGATTTACTCGTCGTGGTTTTA 59.080 43.478 0.00 0.00 46.18 1.52
645 1090 4.030977 CCGATTTACTCGTCGTGGTTTTAG 59.969 45.833 0.00 0.00 46.18 1.85
646 1091 4.618489 CGATTTACTCGTCGTGGTTTTAGT 59.382 41.667 0.00 0.00 42.56 2.24
647 1092 5.117592 CGATTTACTCGTCGTGGTTTTAGTT 59.882 40.000 0.00 0.00 42.56 2.24
648 1093 6.346040 CGATTTACTCGTCGTGGTTTTAGTTT 60.346 38.462 0.00 0.00 42.56 2.66
649 1094 7.148983 CGATTTACTCGTCGTGGTTTTAGTTTA 60.149 37.037 0.00 0.00 42.56 2.01
650 1095 7.763172 TTTACTCGTCGTGGTTTTAGTTTAA 57.237 32.000 0.00 0.00 0.00 1.52
651 1096 7.763172 TTACTCGTCGTGGTTTTAGTTTAAA 57.237 32.000 0.00 0.00 0.00 1.52
652 1097 6.849588 ACTCGTCGTGGTTTTAGTTTAAAT 57.150 33.333 0.00 0.00 0.00 1.40
653 1098 7.250445 ACTCGTCGTGGTTTTAGTTTAAATT 57.750 32.000 0.00 0.00 0.00 1.82
654 1099 7.696755 ACTCGTCGTGGTTTTAGTTTAAATTT 58.303 30.769 0.00 0.00 0.00 1.82
655 1100 7.641020 ACTCGTCGTGGTTTTAGTTTAAATTTG 59.359 33.333 0.00 0.00 0.00 2.32
656 1101 7.692088 TCGTCGTGGTTTTAGTTTAAATTTGA 58.308 30.769 0.00 0.00 0.00 2.69
657 1102 8.180267 TCGTCGTGGTTTTAGTTTAAATTTGAA 58.820 29.630 0.00 0.00 0.00 2.69
658 1103 8.254470 CGTCGTGGTTTTAGTTTAAATTTGAAC 58.746 33.333 15.93 15.93 0.00 3.18
659 1104 9.292846 GTCGTGGTTTTAGTTTAAATTTGAACT 57.707 29.630 25.84 25.84 39.80 3.01
670 1115 9.292846 AGTTTAAATTTGAACTAAAACCACGAC 57.707 29.630 22.70 0.00 35.55 4.34
671 1116 7.895582 TTAAATTTGAACTAAAACCACGACG 57.104 32.000 0.00 0.00 0.00 5.12
672 1117 5.738118 AATTTGAACTAAAACCACGACGA 57.262 34.783 0.00 0.00 0.00 4.20
673 1118 4.782252 TTTGAACTAAAACCACGACGAG 57.218 40.909 0.00 0.00 0.00 4.18
674 1119 3.441496 TGAACTAAAACCACGACGAGT 57.559 42.857 0.00 0.00 0.00 4.18
675 1120 4.566545 TGAACTAAAACCACGACGAGTA 57.433 40.909 0.00 0.00 0.00 2.59
676 1121 4.930963 TGAACTAAAACCACGACGAGTAA 58.069 39.130 0.00 0.00 0.00 2.24
677 1122 5.347342 TGAACTAAAACCACGACGAGTAAA 58.653 37.500 0.00 0.00 0.00 2.01
678 1123 5.984926 TGAACTAAAACCACGACGAGTAAAT 59.015 36.000 0.00 0.00 0.00 1.40
679 1124 6.144402 TGAACTAAAACCACGACGAGTAAATC 59.856 38.462 0.00 0.00 0.00 2.17
894 1412 2.685017 TCGCCAGTGCCATCTCCT 60.685 61.111 0.00 0.00 0.00 3.69
1054 1587 2.244486 TCTCAAGAGGATCACCAGCT 57.756 50.000 0.00 0.00 37.82 4.24
1219 1752 3.372822 GCGGAAAGTGGAAATCGATTACA 59.627 43.478 11.83 10.98 0.00 2.41
1411 1944 6.084326 ACTCCACACCAAAAATAACATCAC 57.916 37.500 0.00 0.00 0.00 3.06
1519 2052 4.445879 GGTTGGAATACCTTGGTAGGGATC 60.446 50.000 5.71 2.08 44.97 3.36
1844 2381 6.426587 AGTATGTTCAAGCCCTAAATGACAT 58.573 36.000 0.00 0.00 0.00 3.06
1858 2395 6.695713 CCTAAATGACATTGACATGATTGCAG 59.304 38.462 0.00 0.00 34.11 4.41
2242 2779 1.747355 GGATGCACTTCATTGGACAGG 59.253 52.381 0.00 0.00 35.05 4.00
2406 2944 1.978542 CCAAGTCGGTTCACTACTCG 58.021 55.000 0.00 0.00 0.00 4.18
2468 3009 2.905075 CGGCTATTGATGAAGTGGTCA 58.095 47.619 0.00 0.00 41.67 4.02
2585 5325 5.755409 TGTCTGGACTTTCTATTGCCTTA 57.245 39.130 2.38 0.00 0.00 2.69
2633 5379 7.890515 TCTGTATGACAGTCTAATGATGATCC 58.109 38.462 1.31 0.00 46.03 3.36
2660 5406 1.133025 CGGCATCTGGTGAATGAAACC 59.867 52.381 0.00 0.00 38.26 3.27
2661 5407 1.133025 GGCATCTGGTGAATGAAACCG 59.867 52.381 0.00 0.00 40.86 4.44
2665 5411 4.083003 GCATCTGGTGAATGAAACCGTAAA 60.083 41.667 0.00 0.00 40.86 2.01
2747 5518 2.386661 AATCCGCACAAATCGTCTCT 57.613 45.000 0.00 0.00 0.00 3.10
2772 5544 4.405358 AGATTCCCTGTTTTTGCTGTTTGA 59.595 37.500 0.00 0.00 0.00 2.69
2812 5591 6.811954 TCAAATGTTTTGAACCCTTTCTACC 58.188 36.000 0.37 0.00 32.36 3.18
2821 5600 1.992557 ACCCTTTCTACCATGCAAGGA 59.007 47.619 16.33 0.00 38.52 3.36
2824 5603 4.229582 ACCCTTTCTACCATGCAAGGAATA 59.770 41.667 16.33 0.00 38.52 1.75
2868 5816 4.233789 TGCTATTTTCGTGTGGCAATTTC 58.766 39.130 0.00 0.00 0.00 2.17
2890 5880 6.971726 TCGGTATGGATCAGTGTAGTAATT 57.028 37.500 0.00 0.00 0.00 1.40
2892 5882 5.405571 CGGTATGGATCAGTGTAGTAATTGC 59.594 44.000 0.00 0.00 0.00 3.56
2972 5977 4.569719 TCTACTTGGGGATGTCTTTTCC 57.430 45.455 0.00 0.00 0.00 3.13
3099 6234 4.504514 CCACTGAAGGCATATGACATAGCT 60.505 45.833 12.11 0.00 0.00 3.32
3100 6235 4.451435 CACTGAAGGCATATGACATAGCTG 59.549 45.833 12.11 3.67 0.00 4.24
3101 6236 4.102210 ACTGAAGGCATATGACATAGCTGT 59.898 41.667 12.11 4.28 38.67 4.40
3102 6237 4.383173 TGAAGGCATATGACATAGCTGTG 58.617 43.478 12.11 9.17 35.14 3.66
3103 6238 2.775890 AGGCATATGACATAGCTGTGC 58.224 47.619 12.11 9.38 35.14 4.57
3104 6239 1.808945 GGCATATGACATAGCTGTGCC 59.191 52.381 17.74 17.74 35.14 5.01
3201 6342 9.552114 GAGTGTATGAAAAATCAGAATTGAGTG 57.448 33.333 0.00 0.00 36.61 3.51
3202 6343 9.071276 AGTGTATGAAAAATCAGAATTGAGTGT 57.929 29.630 0.00 0.00 36.61 3.55
3377 8739 7.494952 GGCTAAAGGTCGTACTTTGAGAATAAT 59.505 37.037 14.35 0.00 40.64 1.28
3408 8770 2.523015 CTCCGATAAAAGTGCGTACGT 58.477 47.619 17.90 0.00 0.00 3.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 80 0.669077 CACGACCGGGAGATAGGAAG 59.331 60.000 6.32 0.00 0.00 3.46
110 119 1.745264 GAGGGATCAGGAGAAGCGG 59.255 63.158 0.00 0.00 0.00 5.52
123 133 0.042131 ACATACGAACAGGGGAGGGA 59.958 55.000 0.00 0.00 0.00 4.20
158 193 6.055588 CCCCTATCAAGAAAGCGAATCTTAA 58.944 40.000 0.00 0.00 35.43 1.85
159 194 5.365605 TCCCCTATCAAGAAAGCGAATCTTA 59.634 40.000 0.00 0.00 35.43 2.10
161 196 3.711704 TCCCCTATCAAGAAAGCGAATCT 59.288 43.478 0.00 0.00 0.00 2.40
162 197 4.073293 TCCCCTATCAAGAAAGCGAATC 57.927 45.455 0.00 0.00 0.00 2.52
163 198 4.503714 TTCCCCTATCAAGAAAGCGAAT 57.496 40.909 0.00 0.00 0.00 3.34
186 227 1.143481 TGGATGATACTACCGGTCGGA 59.857 52.381 12.40 0.00 38.96 4.55
211 252 8.378115 TCTATACTACCTAGGAGGATGACTAC 57.622 42.308 17.98 0.00 37.67 2.73
212 253 8.985755 TTCTATACTACCTAGGAGGATGACTA 57.014 38.462 17.98 0.00 37.67 2.59
216 257 6.948886 TGCTTTCTATACTACCTAGGAGGATG 59.051 42.308 17.98 6.25 37.67 3.51
220 261 6.492087 AGCTTGCTTTCTATACTACCTAGGAG 59.508 42.308 17.98 11.09 0.00 3.69
221 262 6.374588 AGCTTGCTTTCTATACTACCTAGGA 58.625 40.000 17.98 0.00 0.00 2.94
222 263 6.658188 AGCTTGCTTTCTATACTACCTAGG 57.342 41.667 7.41 7.41 0.00 3.02
223 264 8.950208 AAAAGCTTGCTTTCTATACTACCTAG 57.050 34.615 19.10 0.00 0.00 3.02
240 479 4.925068 AGTACTCAGTTGCAAAAAGCTTG 58.075 39.130 0.00 0.00 45.94 4.01
311 680 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
312 681 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
313 682 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
314 683 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
315 684 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
316 685 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
317 686 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
318 687 4.700213 AGTTGGGTCATCTATTTTGGAACG 59.300 41.667 0.00 0.00 0.00 3.95
319 688 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
320 689 8.893563 ATAAAGTTGGGTCATCTATTTTGGAA 57.106 30.769 0.00 0.00 0.00 3.53
321 690 9.403583 GTATAAAGTTGGGTCATCTATTTTGGA 57.596 33.333 0.00 0.00 0.00 3.53
322 691 9.408648 AGTATAAAGTTGGGTCATCTATTTTGG 57.591 33.333 0.00 0.00 0.00 3.28
356 725 9.739276 TCCAAAATAGATGACTCAACTTTGTAT 57.261 29.630 0.00 0.00 0.00 2.29
357 726 9.567776 TTCCAAAATAGATGACTCAACTTTGTA 57.432 29.630 0.00 0.00 0.00 2.41
358 727 8.352942 GTTCCAAAATAGATGACTCAACTTTGT 58.647 33.333 0.00 0.00 0.00 2.83
359 728 7.535258 CGTTCCAAAATAGATGACTCAACTTTG 59.465 37.037 0.00 0.00 0.00 2.77
360 729 7.308589 CCGTTCCAAAATAGATGACTCAACTTT 60.309 37.037 0.00 0.00 0.00 2.66
361 730 6.149474 CCGTTCCAAAATAGATGACTCAACTT 59.851 38.462 0.00 0.00 0.00 2.66
362 731 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
363 732 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
364 733 5.800296 TCCGTTCCAAAATAGATGACTCAA 58.200 37.500 0.00 0.00 0.00 3.02
365 734 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
366 735 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
367 736 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
368 737 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
369 738 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
370 739 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
371 740 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
372 741 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
373 742 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
374 743 4.355549 TCTACTCCCTCCGTTCCAAAATA 58.644 43.478 0.00 0.00 0.00 1.40
375 744 3.178865 TCTACTCCCTCCGTTCCAAAAT 58.821 45.455 0.00 0.00 0.00 1.82
376 745 2.612000 TCTACTCCCTCCGTTCCAAAA 58.388 47.619 0.00 0.00 0.00 2.44
377 746 2.314071 TCTACTCCCTCCGTTCCAAA 57.686 50.000 0.00 0.00 0.00 3.28
378 747 2.176889 CTTCTACTCCCTCCGTTCCAA 58.823 52.381 0.00 0.00 0.00 3.53
379 748 1.356738 TCTTCTACTCCCTCCGTTCCA 59.643 52.381 0.00 0.00 0.00 3.53
380 749 2.140839 TCTTCTACTCCCTCCGTTCC 57.859 55.000 0.00 0.00 0.00 3.62
381 750 3.181474 CCAATCTTCTACTCCCTCCGTTC 60.181 52.174 0.00 0.00 0.00 3.95
382 751 2.766828 CCAATCTTCTACTCCCTCCGTT 59.233 50.000 0.00 0.00 0.00 4.44
383 752 2.389715 CCAATCTTCTACTCCCTCCGT 58.610 52.381 0.00 0.00 0.00 4.69
384 753 1.069358 GCCAATCTTCTACTCCCTCCG 59.931 57.143 0.00 0.00 0.00 4.63
385 754 1.069358 CGCCAATCTTCTACTCCCTCC 59.931 57.143 0.00 0.00 0.00 4.30
386 755 1.757699 ACGCCAATCTTCTACTCCCTC 59.242 52.381 0.00 0.00 0.00 4.30
387 756 1.867363 ACGCCAATCTTCTACTCCCT 58.133 50.000 0.00 0.00 0.00 4.20
388 757 2.693267 AACGCCAATCTTCTACTCCC 57.307 50.000 0.00 0.00 0.00 4.30
389 758 5.203060 AGATAACGCCAATCTTCTACTCC 57.797 43.478 0.00 0.00 29.18 3.85
390 759 8.819643 AAATAGATAACGCCAATCTTCTACTC 57.180 34.615 0.72 0.00 35.36 2.59
391 760 8.643324 AGAAATAGATAACGCCAATCTTCTACT 58.357 33.333 0.72 0.00 35.36 2.57
392 761 8.819643 AGAAATAGATAACGCCAATCTTCTAC 57.180 34.615 0.72 0.00 35.36 2.59
394 763 8.643324 ACTAGAAATAGATAACGCCAATCTTCT 58.357 33.333 0.00 1.73 35.36 2.85
395 764 8.819643 ACTAGAAATAGATAACGCCAATCTTC 57.180 34.615 0.00 0.00 35.36 2.87
396 765 9.046296 CAACTAGAAATAGATAACGCCAATCTT 57.954 33.333 0.00 0.00 35.36 2.40
415 787 8.840200 AGTAGGGAAATATCTGTTCAACTAGA 57.160 34.615 0.00 0.00 0.00 2.43
416 788 8.919145 AGAGTAGGGAAATATCTGTTCAACTAG 58.081 37.037 0.00 0.00 0.00 2.57
419 791 7.787028 AGAGAGTAGGGAAATATCTGTTCAAC 58.213 38.462 0.00 0.00 0.00 3.18
421 793 7.979786 AAGAGAGTAGGGAAATATCTGTTCA 57.020 36.000 0.00 0.00 0.00 3.18
422 794 8.700973 AGAAAGAGAGTAGGGAAATATCTGTTC 58.299 37.037 0.00 0.00 0.00 3.18
424 796 8.482128 CAAGAAAGAGAGTAGGGAAATATCTGT 58.518 37.037 0.00 0.00 0.00 3.41
425 797 7.440856 GCAAGAAAGAGAGTAGGGAAATATCTG 59.559 40.741 0.00 0.00 0.00 2.90
426 798 7.419634 GGCAAGAAAGAGAGTAGGGAAATATCT 60.420 40.741 0.00 0.00 0.00 1.98
427 799 6.708502 GGCAAGAAAGAGAGTAGGGAAATATC 59.291 42.308 0.00 0.00 0.00 1.63
428 800 6.409810 GGGCAAGAAAGAGAGTAGGGAAATAT 60.410 42.308 0.00 0.00 0.00 1.28
429 801 5.104485 GGGCAAGAAAGAGAGTAGGGAAATA 60.104 44.000 0.00 0.00 0.00 1.40
599 1044 4.450305 ACGGAGGGAGTAGCTATAAGAA 57.550 45.455 0.00 0.00 0.00 2.52
624 1069 6.457851 AACTAAAACCACGACGAGTAAATC 57.542 37.500 0.00 0.00 0.00 2.17
625 1070 6.849588 AAACTAAAACCACGACGAGTAAAT 57.150 33.333 0.00 0.00 0.00 1.40
626 1071 7.763172 TTAAACTAAAACCACGACGAGTAAA 57.237 32.000 0.00 0.00 0.00 2.01
627 1072 7.763172 TTTAAACTAAAACCACGACGAGTAA 57.237 32.000 0.00 0.00 0.00 2.24
628 1073 7.945033 ATTTAAACTAAAACCACGACGAGTA 57.055 32.000 0.00 0.00 0.00 2.59
629 1074 6.849588 ATTTAAACTAAAACCACGACGAGT 57.150 33.333 0.00 0.00 0.00 4.18
630 1075 7.851963 TCAAATTTAAACTAAAACCACGACGAG 59.148 33.333 0.00 0.00 0.00 4.18
631 1076 7.692088 TCAAATTTAAACTAAAACCACGACGA 58.308 30.769 0.00 0.00 0.00 4.20
632 1077 7.895582 TCAAATTTAAACTAAAACCACGACG 57.104 32.000 0.00 0.00 0.00 5.12
633 1078 9.292846 AGTTCAAATTTAAACTAAAACCACGAC 57.707 29.630 4.83 0.00 34.05 4.34
644 1089 9.292846 GTCGTGGTTTTAGTTCAAATTTAAACT 57.707 29.630 11.45 11.45 39.07 2.66
645 1090 8.254470 CGTCGTGGTTTTAGTTCAAATTTAAAC 58.746 33.333 0.00 0.00 0.00 2.01
646 1091 8.180267 TCGTCGTGGTTTTAGTTCAAATTTAAA 58.820 29.630 0.00 0.00 0.00 1.52
647 1092 7.692088 TCGTCGTGGTTTTAGTTCAAATTTAA 58.308 30.769 0.00 0.00 0.00 1.52
648 1093 7.011295 ACTCGTCGTGGTTTTAGTTCAAATTTA 59.989 33.333 0.00 0.00 0.00 1.40
649 1094 6.121613 TCGTCGTGGTTTTAGTTCAAATTT 57.878 33.333 0.00 0.00 0.00 1.82
650 1095 5.295045 ACTCGTCGTGGTTTTAGTTCAAATT 59.705 36.000 0.00 0.00 0.00 1.82
651 1096 4.812626 ACTCGTCGTGGTTTTAGTTCAAAT 59.187 37.500 0.00 0.00 0.00 2.32
652 1097 4.183101 ACTCGTCGTGGTTTTAGTTCAAA 58.817 39.130 0.00 0.00 0.00 2.69
653 1098 3.784338 ACTCGTCGTGGTTTTAGTTCAA 58.216 40.909 0.00 0.00 0.00 2.69
654 1099 3.441496 ACTCGTCGTGGTTTTAGTTCA 57.559 42.857 0.00 0.00 0.00 3.18
655 1100 5.888412 TTTACTCGTCGTGGTTTTAGTTC 57.112 39.130 0.00 0.00 0.00 3.01
656 1101 5.117592 CGATTTACTCGTCGTGGTTTTAGTT 59.882 40.000 0.00 0.00 42.56 2.24
657 1102 4.618489 CGATTTACTCGTCGTGGTTTTAGT 59.382 41.667 0.00 0.00 42.56 2.24
658 1103 4.030977 CCGATTTACTCGTCGTGGTTTTAG 59.969 45.833 0.00 0.00 46.18 1.85
659 1104 3.919804 CCGATTTACTCGTCGTGGTTTTA 59.080 43.478 0.00 0.00 46.18 1.52
660 1105 2.733026 CCGATTTACTCGTCGTGGTTTT 59.267 45.455 0.00 0.00 46.18 2.43
661 1106 2.030007 TCCGATTTACTCGTCGTGGTTT 60.030 45.455 0.00 0.00 46.18 3.27
662 1107 1.541147 TCCGATTTACTCGTCGTGGTT 59.459 47.619 0.00 0.00 46.18 3.67
663 1108 1.167851 TCCGATTTACTCGTCGTGGT 58.832 50.000 0.00 0.00 46.18 4.16
664 1109 1.916000 GTTCCGATTTACTCGTCGTGG 59.084 52.381 0.00 0.00 46.18 4.94
665 1110 1.576246 CGTTCCGATTTACTCGTCGTG 59.424 52.381 0.00 0.00 46.18 4.35
666 1111 1.466360 CCGTTCCGATTTACTCGTCGT 60.466 52.381 0.00 0.00 46.18 4.34
667 1112 1.186030 CCGTTCCGATTTACTCGTCG 58.814 55.000 0.00 0.00 46.18 5.12
668 1113 2.448219 CTCCGTTCCGATTTACTCGTC 58.552 52.381 0.00 0.00 46.18 4.20
669 1114 1.133790 CCTCCGTTCCGATTTACTCGT 59.866 52.381 0.00 0.00 46.18 4.18
671 1116 1.753073 TCCCTCCGTTCCGATTTACTC 59.247 52.381 0.00 0.00 0.00 2.59
672 1117 1.755380 CTCCCTCCGTTCCGATTTACT 59.245 52.381 0.00 0.00 0.00 2.24
673 1118 1.479730 ACTCCCTCCGTTCCGATTTAC 59.520 52.381 0.00 0.00 0.00 2.01
674 1119 1.856629 ACTCCCTCCGTTCCGATTTA 58.143 50.000 0.00 0.00 0.00 1.40
675 1120 1.755380 CTACTCCCTCCGTTCCGATTT 59.245 52.381 0.00 0.00 0.00 2.17
676 1121 1.341778 ACTACTCCCTCCGTTCCGATT 60.342 52.381 0.00 0.00 0.00 3.34
677 1122 0.258194 ACTACTCCCTCCGTTCCGAT 59.742 55.000 0.00 0.00 0.00 4.18
678 1123 0.038744 AACTACTCCCTCCGTTCCGA 59.961 55.000 0.00 0.00 0.00 4.55
679 1124 0.455005 GAACTACTCCCTCCGTTCCG 59.545 60.000 0.00 0.00 31.89 4.30
680 1125 1.553706 TGAACTACTCCCTCCGTTCC 58.446 55.000 0.00 0.00 35.97 3.62
681 1126 3.889520 AATGAACTACTCCCTCCGTTC 57.110 47.619 0.00 0.00 37.02 3.95
682 1127 5.424252 TGAATAATGAACTACTCCCTCCGTT 59.576 40.000 0.00 0.00 0.00 4.44
683 1128 4.960469 TGAATAATGAACTACTCCCTCCGT 59.040 41.667 0.00 0.00 0.00 4.69
684 1129 5.509840 CCTGAATAATGAACTACTCCCTCCG 60.510 48.000 0.00 0.00 0.00 4.63
685 1130 5.743422 GCCTGAATAATGAACTACTCCCTCC 60.743 48.000 0.00 0.00 0.00 4.30
686 1131 5.071115 AGCCTGAATAATGAACTACTCCCTC 59.929 44.000 0.00 0.00 0.00 4.30
687 1132 4.971924 AGCCTGAATAATGAACTACTCCCT 59.028 41.667 0.00 0.00 0.00 4.20
688 1133 5.071115 AGAGCCTGAATAATGAACTACTCCC 59.929 44.000 0.00 0.00 0.00 4.30
689 1134 5.988561 CAGAGCCTGAATAATGAACTACTCC 59.011 44.000 0.00 0.00 32.44 3.85
690 1135 5.465056 GCAGAGCCTGAATAATGAACTACTC 59.535 44.000 6.40 0.00 32.44 2.59
691 1136 5.130145 AGCAGAGCCTGAATAATGAACTACT 59.870 40.000 6.40 0.00 32.44 2.57
692 1137 5.363939 AGCAGAGCCTGAATAATGAACTAC 58.636 41.667 6.40 0.00 32.44 2.73
809 1280 7.857734 TTCTCTTGTGTGTTCTTCATAACAA 57.142 32.000 0.00 0.00 40.85 2.83
810 1281 7.857734 TTTCTCTTGTGTGTTCTTCATAACA 57.142 32.000 0.00 0.00 37.03 2.41
894 1412 9.346005 ACATATCAGAATAATGCATGTGAAGAA 57.654 29.630 0.00 0.00 29.69 2.52
1054 1587 6.013032 AGGGAAAGAGAATTCAGATCACTTGA 60.013 38.462 8.44 0.00 29.87 3.02
1219 1752 1.344065 TGTCCACGTATCCAACCAGT 58.656 50.000 0.00 0.00 0.00 4.00
1411 1944 1.372087 GCAACCGAGAGAAGCCCATG 61.372 60.000 0.00 0.00 0.00 3.66
1519 2052 1.714794 ACAAGCTCTTCCAACGATCG 58.285 50.000 14.88 14.88 0.00 3.69
1844 2381 4.122046 CCGAGATACTGCAATCATGTCAA 58.878 43.478 1.40 0.00 0.00 3.18
1858 2395 0.179100 TTGCTGCAGCTCCGAGATAC 60.179 55.000 36.61 6.97 42.66 2.24
2406 2944 1.065564 AGGGCATCTGAGAAGTTGCTC 60.066 52.381 6.50 2.61 35.75 4.26
2468 3009 7.816031 CAGCAAATTCATACTGAAAATTCTGGT 59.184 33.333 5.26 2.50 40.12 4.00
2633 5379 0.321564 TCACCAGATGCCGTCCAAAG 60.322 55.000 0.00 0.00 0.00 2.77
2660 5406 1.990563 CGAGTGGTGCCTACTTTTACG 59.009 52.381 0.00 0.00 0.00 3.18
2661 5407 2.735134 CACGAGTGGTGCCTACTTTTAC 59.265 50.000 0.00 0.00 40.33 2.01
2708 5468 7.033791 CGGATTACAAAACAGCTTAGAGAGTA 58.966 38.462 0.00 0.00 0.00 2.59
2709 5469 5.869888 CGGATTACAAAACAGCTTAGAGAGT 59.130 40.000 0.00 0.00 0.00 3.24
2710 5470 5.220491 GCGGATTACAAAACAGCTTAGAGAG 60.220 44.000 0.00 0.00 0.00 3.20
2711 5471 4.630069 GCGGATTACAAAACAGCTTAGAGA 59.370 41.667 0.00 0.00 0.00 3.10
2716 5476 2.621055 TGTGCGGATTACAAAACAGCTT 59.379 40.909 0.00 0.00 0.00 3.74
2747 5518 6.097554 TCAAACAGCAAAAACAGGGAATCTTA 59.902 34.615 0.00 0.00 0.00 2.10
2797 5576 3.517296 TGCATGGTAGAAAGGGTTCAA 57.483 42.857 0.00 0.00 36.09 2.69
2812 5591 6.802608 ACATGTCTTCAATATTCCTTGCATG 58.197 36.000 0.00 13.08 33.15 4.06
2824 5603 7.743749 AGCAGAAGGATATACATGTCTTCAAT 58.256 34.615 20.27 5.40 0.00 2.57
2843 5628 2.499197 TGCCACACGAAAATAGCAGAA 58.501 42.857 0.00 0.00 0.00 3.02
2844 5629 2.177394 TGCCACACGAAAATAGCAGA 57.823 45.000 0.00 0.00 0.00 4.26
2868 5816 5.405571 GCAATTACTACACTGATCCATACCG 59.594 44.000 0.00 0.00 0.00 4.02
3099 6234 3.133141 TGTTATTAGCACACAGGCACA 57.867 42.857 0.00 0.00 35.83 4.57
3100 6235 3.731867 GCATGTTATTAGCACACAGGCAC 60.732 47.826 3.48 0.00 45.31 5.01
3101 6236 2.423185 GCATGTTATTAGCACACAGGCA 59.577 45.455 3.48 0.00 45.31 4.75
3102 6237 2.684881 AGCATGTTATTAGCACACAGGC 59.315 45.455 0.09 0.09 46.11 4.85
3103 6238 4.201950 GGAAGCATGTTATTAGCACACAGG 60.202 45.833 0.00 0.00 0.00 4.00
3104 6239 4.395854 TGGAAGCATGTTATTAGCACACAG 59.604 41.667 0.00 0.00 0.00 3.66
3201 6342 9.745880 TTTAGATACGATTTTCTCAGATGGTAC 57.254 33.333 0.00 0.00 0.00 3.34
3408 8770 4.406003 GGCTAAAGAAGGTGACTATCCAGA 59.594 45.833 0.00 0.00 42.68 3.86


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

AutoCloner maintained by Alex Coulton.