Multiple sequence alignment - TraesCS4D01G293700

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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 TraesCS4D01G293700 chr4D 100.000 2656 0 0 644 3299 464301333 464298678 0.000000e+00 4905.0
1 TraesCS4D01G293700 chr4D 96.278 1397 46 2 971 2361 464362773 464364169 0.000000e+00 2287.0
2 TraesCS4D01G293700 chr4D 100.000 496 0 0 1 496 464301976 464301481 0.000000e+00 917.0
3 TraesCS4D01G293700 chr4D 79.775 178 26 10 25 200 468393785 468393954 1.610000e-23 121.0
4 TraesCS4D01G293700 chr4D 87.654 81 10 0 412 492 464362362 464362442 9.750000e-16 95.3
5 TraesCS4D01G293700 chr4B 96.410 1337 48 0 971 2307 580770178 580771514 0.000000e+00 2204.0
6 TraesCS4D01G293700 chr4B 94.186 946 40 7 914 1846 580614502 580613559 0.000000e+00 1428.0
7 TraesCS4D01G293700 chr4B 90.361 581 44 10 2719 3293 64779341 64778767 0.000000e+00 752.0
8 TraesCS4D01G293700 chr4B 96.032 378 15 0 1930 2307 580613560 580613183 1.680000e-172 616.0
9 TraesCS4D01G293700 chr4B 85.587 562 51 19 2719 3255 70110488 70109932 2.220000e-156 562.0
10 TraesCS4D01G293700 chr4B 88.940 434 35 12 2719 3144 15453572 15454000 1.050000e-144 523.0
11 TraesCS4D01G293700 chr4B 87.156 436 32 14 1 423 580615926 580615502 1.070000e-129 473.0
12 TraesCS4D01G293700 chr4B 94.262 244 7 4 675 918 580614767 580614531 1.870000e-97 366.0
13 TraesCS4D01G293700 chr4A 96.080 1352 50 1 971 2322 5743629 5742281 0.000000e+00 2200.0
14 TraesCS4D01G293700 chr4A 88.165 583 57 8 2716 3291 629919975 629920552 0.000000e+00 684.0
15 TraesCS4D01G293700 chr4A 88.406 276 16 9 156 420 5772129 5772399 5.310000e-83 318.0
16 TraesCS4D01G293700 chr4A 85.366 287 22 9 2420 2699 5781051 5781324 2.510000e-71 279.0
17 TraesCS4D01G293700 chr4A 89.595 173 15 1 2369 2541 5742326 5742157 1.990000e-52 217.0
18 TraesCS4D01G293700 chr4A 94.118 85 5 0 412 496 5772885 5772969 2.670000e-26 130.0
19 TraesCS4D01G293700 chr4A 92.857 84 6 0 2204 2287 5780942 5781025 4.470000e-24 122.0
20 TraesCS4D01G293700 chr4A 87.013 77 10 0 419 495 5744037 5743961 1.630000e-13 87.9
21 TraesCS4D01G293700 chr2B 90.566 583 46 6 2724 3299 230591303 230590723 0.000000e+00 763.0
22 TraesCS4D01G293700 chr7B 87.776 589 56 15 2721 3299 307431489 307430907 0.000000e+00 675.0
23 TraesCS4D01G293700 chr7B 85.943 562 50 18 2719 3255 694932768 694932211 1.030000e-159 573.0
24 TraesCS4D01G293700 chr1B 86.486 518 55 12 2784 3293 646891372 646890862 3.720000e-154 555.0
25 TraesCS4D01G293700 chr7D 87.202 461 47 10 2719 3170 546043441 546042984 6.310000e-142 514.0
26 TraesCS4D01G293700 chr6B 86.667 345 44 2 1143 1486 714580550 714580207 6.680000e-102 381.0
27 TraesCS4D01G293700 chr6B 81.790 324 47 3 1507 1819 6617452 6617130 9.080000e-66 261.0
28 TraesCS4D01G293700 chr6B 81.250 304 42 10 1124 1426 714582758 714582469 7.120000e-57 231.0
29 TraesCS4D01G293700 chr6B 93.662 142 8 1 3158 3299 20346141 20346281 9.270000e-51 211.0
30 TraesCS4D01G293700 chr6B 82.883 222 38 0 1511 1732 6614124 6613903 2.010000e-47 200.0
31 TraesCS4D01G293700 chr6D 86.944 337 42 2 1143 1478 468811724 468811389 8.640000e-101 377.0
32 TraesCS4D01G293700 chr6D 76.991 339 64 6 1487 1814 3343223 3342888 7.270000e-42 182.0
33 TraesCS4D01G293700 chr6D 97.561 41 0 1 1245 1285 3348374 3348335 5.910000e-08 69.4
34 TraesCS4D01G293700 chrUn 85.754 358 47 4 1131 1486 75203636 75203991 3.110000e-100 375.0
35 TraesCS4D01G293700 chr3B 90.411 219 14 2 3085 3299 463248079 463248294 6.970000e-72 281.0
36 TraesCS4D01G293700 chr3B 81.148 122 18 5 4 122 687587646 687587765 3.510000e-15 93.5
37 TraesCS4D01G293700 chr5A 75.773 194 30 13 21 209 646225429 646225610 7.590000e-12 82.4


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 TraesCS4D01G293700 chr4D 464298678 464301976 3298 True 2911.000000 4905 100.0000 1 3299 2 chr4D.!!$R1 3298
1 TraesCS4D01G293700 chr4D 464362362 464364169 1807 False 1191.150000 2287 91.9660 412 2361 2 chr4D.!!$F2 1949
2 TraesCS4D01G293700 chr4B 580770178 580771514 1336 False 2204.000000 2204 96.4100 971 2307 1 chr4B.!!$F2 1336
3 TraesCS4D01G293700 chr4B 64778767 64779341 574 True 752.000000 752 90.3610 2719 3293 1 chr4B.!!$R1 574
4 TraesCS4D01G293700 chr4B 580613183 580615926 2743 True 720.750000 1428 92.9090 1 2307 4 chr4B.!!$R3 2306
5 TraesCS4D01G293700 chr4B 70109932 70110488 556 True 562.000000 562 85.5870 2719 3255 1 chr4B.!!$R2 536
6 TraesCS4D01G293700 chr4A 5742157 5744037 1880 True 834.966667 2200 90.8960 419 2541 3 chr4A.!!$R1 2122
7 TraesCS4D01G293700 chr4A 629919975 629920552 577 False 684.000000 684 88.1650 2716 3291 1 chr4A.!!$F1 575
8 TraesCS4D01G293700 chr4A 5772129 5772969 840 False 224.000000 318 91.2620 156 496 2 chr4A.!!$F2 340
9 TraesCS4D01G293700 chr2B 230590723 230591303 580 True 763.000000 763 90.5660 2724 3299 1 chr2B.!!$R1 575
10 TraesCS4D01G293700 chr7B 307430907 307431489 582 True 675.000000 675 87.7760 2721 3299 1 chr7B.!!$R1 578
11 TraesCS4D01G293700 chr7B 694932211 694932768 557 True 573.000000 573 85.9430 2719 3255 1 chr7B.!!$R2 536
12 TraesCS4D01G293700 chr1B 646890862 646891372 510 True 555.000000 555 86.4860 2784 3293 1 chr1B.!!$R1 509
13 TraesCS4D01G293700 chr6B 714580207 714582758 2551 True 306.000000 381 83.9585 1124 1486 2 chr6B.!!$R2 362
14 TraesCS4D01G293700 chr6B 6613903 6617452 3549 True 230.500000 261 82.3365 1507 1819 2 chr6B.!!$R1 312

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
889 1654 1.517694 GCATGCGGCCACTGAATTG 60.518 57.895 0.0 0.0 36.11 2.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2411 6274 0.036765 TAAGCACCACAAGTAGGCGG 60.037 55.0 0.0 0.0 0.0 6.13 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
230 232 8.858003 ACATGAGAAACATCTAGTTATACACG 57.142 34.615 0.00 0.00 40.26 4.49
234 236 9.135843 TGAGAAACATCTAGTTATACACGTTTG 57.864 33.333 0.00 0.00 40.26 2.93
236 238 9.701098 AGAAACATCTAGTTATACACGTTTGAA 57.299 29.630 0.00 0.00 40.26 2.69
279 288 7.687005 TTTTTAAAGTGCGGTGAATACTTTG 57.313 32.000 10.78 0.00 42.65 2.77
291 300 7.419204 CGGTGAATACTTTGAAAACCTACAAA 58.581 34.615 0.00 0.00 35.26 2.83
662 1326 2.128771 GCCAGGCATAGGACTTTTCA 57.871 50.000 6.55 0.00 0.00 2.69
664 1328 2.009774 CCAGGCATAGGACTTTTCACG 58.990 52.381 0.00 0.00 0.00 4.35
669 1333 2.673043 GCATAGGACTTTTCACGGACGA 60.673 50.000 0.00 0.00 0.00 4.20
670 1334 3.179830 CATAGGACTTTTCACGGACGAG 58.820 50.000 0.00 0.00 0.00 4.18
673 1337 1.525619 GGACTTTTCACGGACGAGTTG 59.474 52.381 0.00 0.00 0.00 3.16
685 1444 2.032924 GGACGAGTTGGTTGGTTGAAAG 59.967 50.000 0.00 0.00 0.00 2.62
765 1524 3.853104 GGACACATTCCATCCACGA 57.147 52.632 0.00 0.00 45.10 4.35
766 1525 2.107950 GGACACATTCCATCCACGAA 57.892 50.000 0.00 0.00 45.10 3.85
858 1623 2.953669 CGCGCACGTCCTTTATAGT 58.046 52.632 8.75 0.00 33.53 2.12
862 1627 2.214914 GCGCACGTCCTTTATAGTTACG 59.785 50.000 0.30 0.00 35.90 3.18
889 1654 1.517694 GCATGCGGCCACTGAATTG 60.518 57.895 0.00 0.00 36.11 2.32
908 1678 7.962431 TGAATTGTTCATTTTGCTACGCAACG 61.962 38.462 0.05 0.00 40.60 4.10
1057 1893 2.637383 AACGACGAGCTCCAGTCCC 61.637 63.158 8.47 0.00 34.10 4.46
1064 1900 2.363147 GCTCCAGTCCCTCCTCGT 60.363 66.667 0.00 0.00 0.00 4.18
1555 2622 2.436115 GGTCCTTGGTGCCGTAGC 60.436 66.667 0.00 0.00 40.48 3.58
1650 2717 1.067060 CTGATGACCATCGCCGACTTA 59.933 52.381 0.00 0.00 40.63 2.24
1911 3540 3.467226 ATCCCGCCCGTGTTCGAT 61.467 61.111 0.00 0.00 39.71 3.59
2287 6150 0.320771 ACTCGTCAAGCACATCCACC 60.321 55.000 0.00 0.00 0.00 4.61
2351 6214 3.123621 CGATCAGTTGTGGTGCTTACTTC 59.876 47.826 0.00 0.00 0.00 3.01
2362 6225 1.615107 GCTTACTTCGCGCGAGTTGT 61.615 55.000 32.74 29.82 0.00 3.32
2363 6226 0.091344 CTTACTTCGCGCGAGTTGTG 59.909 55.000 32.74 21.56 0.00 3.33
2364 6227 1.279527 TTACTTCGCGCGAGTTGTGG 61.280 55.000 32.74 19.83 0.00 4.17
2366 6229 3.281751 CTTCGCGCGAGTTGTGGTG 62.282 63.158 32.74 12.20 0.00 4.17
2369 6232 4.077188 GCGCGAGTTGTGGTGCTC 62.077 66.667 12.10 0.00 35.22 4.26
2370 6233 2.661537 CGCGAGTTGTGGTGCTCA 60.662 61.111 0.00 0.00 0.00 4.26
2371 6234 2.243957 CGCGAGTTGTGGTGCTCAA 61.244 57.895 0.00 0.00 0.00 3.02
2372 6235 1.279840 GCGAGTTGTGGTGCTCAAC 59.720 57.895 0.00 0.00 43.51 3.18
2382 6245 1.781555 GTGCTCAACCACATCGACG 59.218 57.895 0.00 0.00 35.80 5.12
2383 6246 0.666274 GTGCTCAACCACATCGACGA 60.666 55.000 0.00 0.00 35.80 4.20
2384 6247 0.666274 TGCTCAACCACATCGACGAC 60.666 55.000 0.00 0.00 0.00 4.34
2385 6248 1.674611 GCTCAACCACATCGACGACG 61.675 60.000 0.00 0.00 41.26 5.12
2396 6259 1.891178 TCGACGACGACAATTAGCTG 58.109 50.000 5.75 0.00 43.81 4.24
2397 6260 0.294887 CGACGACGACAATTAGCTGC 59.705 55.000 0.00 0.00 42.66 5.25
2398 6261 0.645868 GACGACGACAATTAGCTGCC 59.354 55.000 0.00 0.00 0.00 4.85
2399 6262 1.076533 ACGACGACAATTAGCTGCCG 61.077 55.000 0.00 0.00 0.00 5.69
2400 6263 1.076533 CGACGACAATTAGCTGCCGT 61.077 55.000 0.00 0.00 0.00 5.68
2401 6264 0.645868 GACGACAATTAGCTGCCGTC 59.354 55.000 8.98 8.98 39.32 4.79
2402 6265 0.037697 ACGACAATTAGCTGCCGTCA 60.038 50.000 0.00 0.00 0.00 4.35
2403 6266 1.290203 CGACAATTAGCTGCCGTCAT 58.710 50.000 0.00 0.00 0.00 3.06
2404 6267 1.665679 CGACAATTAGCTGCCGTCATT 59.334 47.619 0.00 0.00 0.00 2.57
2405 6268 2.095853 CGACAATTAGCTGCCGTCATTT 59.904 45.455 0.00 0.00 0.00 2.32
2406 6269 3.308595 CGACAATTAGCTGCCGTCATTTA 59.691 43.478 0.00 0.00 0.00 1.40
2407 6270 4.024893 CGACAATTAGCTGCCGTCATTTAT 60.025 41.667 0.00 0.00 0.00 1.40
2408 6271 5.176774 CGACAATTAGCTGCCGTCATTTATA 59.823 40.000 0.00 0.00 0.00 0.98
2409 6272 6.292649 CGACAATTAGCTGCCGTCATTTATAA 60.293 38.462 0.00 0.00 0.00 0.98
2410 6273 6.725246 ACAATTAGCTGCCGTCATTTATAAC 58.275 36.000 0.00 0.00 0.00 1.89
2411 6274 5.941948 ATTAGCTGCCGTCATTTATAACC 57.058 39.130 0.00 0.00 0.00 2.85
2412 6275 2.572290 AGCTGCCGTCATTTATAACCC 58.428 47.619 0.00 0.00 0.00 4.11
2413 6276 1.263217 GCTGCCGTCATTTATAACCCG 59.737 52.381 0.00 0.00 0.00 5.28
2414 6277 1.263217 CTGCCGTCATTTATAACCCGC 59.737 52.381 0.00 0.00 0.00 6.13
2415 6278 0.589708 GCCGTCATTTATAACCCGCC 59.410 55.000 0.00 0.00 0.00 6.13
2416 6279 1.812708 GCCGTCATTTATAACCCGCCT 60.813 52.381 0.00 0.00 0.00 5.52
2417 6280 2.548493 GCCGTCATTTATAACCCGCCTA 60.548 50.000 0.00 0.00 0.00 3.93
2418 6281 3.062042 CCGTCATTTATAACCCGCCTAC 58.938 50.000 0.00 0.00 0.00 3.18
2419 6282 3.243975 CCGTCATTTATAACCCGCCTACT 60.244 47.826 0.00 0.00 0.00 2.57
2420 6283 4.374399 CGTCATTTATAACCCGCCTACTT 58.626 43.478 0.00 0.00 0.00 2.24
2421 6284 4.210537 CGTCATTTATAACCCGCCTACTTG 59.789 45.833 0.00 0.00 0.00 3.16
2422 6285 5.121105 GTCATTTATAACCCGCCTACTTGT 58.879 41.667 0.00 0.00 0.00 3.16
2423 6286 5.007332 GTCATTTATAACCCGCCTACTTGTG 59.993 44.000 0.00 0.00 0.00 3.33
2424 6287 3.547054 TTATAACCCGCCTACTTGTGG 57.453 47.619 0.00 0.00 35.60 4.17
2425 6288 1.282382 ATAACCCGCCTACTTGTGGT 58.718 50.000 0.00 0.00 33.93 4.16
2426 6289 0.322322 TAACCCGCCTACTTGTGGTG 59.678 55.000 0.00 0.00 33.93 4.17
2427 6290 2.746277 CCCGCCTACTTGTGGTGC 60.746 66.667 0.00 0.00 33.93 5.01
2428 6291 2.347490 CCGCCTACTTGTGGTGCT 59.653 61.111 0.00 0.00 34.02 4.40
2429 6292 1.302511 CCGCCTACTTGTGGTGCTT 60.303 57.895 0.00 0.00 34.02 3.91
2430 6293 0.036765 CCGCCTACTTGTGGTGCTTA 60.037 55.000 0.00 0.00 34.02 3.09
2431 6294 1.076332 CGCCTACTTGTGGTGCTTAC 58.924 55.000 0.00 0.00 0.00 2.34
2432 6295 1.337823 CGCCTACTTGTGGTGCTTACT 60.338 52.381 0.00 0.00 0.00 2.24
2433 6296 2.779506 GCCTACTTGTGGTGCTTACTT 58.220 47.619 0.00 0.00 0.00 2.24
2434 6297 3.615592 CGCCTACTTGTGGTGCTTACTTA 60.616 47.826 0.00 0.00 0.00 2.24
2435 6298 3.933332 GCCTACTTGTGGTGCTTACTTAG 59.067 47.826 0.00 0.00 0.00 2.18
2444 6307 3.626154 GCTTACTTAGCGCGAGTCT 57.374 52.632 20.20 0.00 40.71 3.24
2445 6308 1.192793 GCTTACTTAGCGCGAGTCTG 58.807 55.000 20.20 15.26 40.71 3.51
2446 6309 1.467713 GCTTACTTAGCGCGAGTCTGT 60.468 52.381 20.20 9.18 40.71 3.41
2447 6310 2.177977 CTTACTTAGCGCGAGTCTGTG 58.822 52.381 20.20 7.92 0.00 3.66
2448 6311 1.162698 TACTTAGCGCGAGTCTGTGT 58.837 50.000 20.20 3.88 0.00 3.72
2449 6312 0.314302 ACTTAGCGCGAGTCTGTGTT 59.686 50.000 12.10 0.00 0.00 3.32
2450 6313 0.985549 CTTAGCGCGAGTCTGTGTTC 59.014 55.000 12.10 0.00 0.00 3.18
2451 6314 0.312729 TTAGCGCGAGTCTGTGTTCA 59.687 50.000 12.10 0.00 0.00 3.18
2452 6315 0.526211 TAGCGCGAGTCTGTGTTCAT 59.474 50.000 12.10 0.00 0.00 2.57
2453 6316 0.319900 AGCGCGAGTCTGTGTTCATT 60.320 50.000 12.10 0.00 0.00 2.57
2454 6317 1.067846 AGCGCGAGTCTGTGTTCATTA 60.068 47.619 12.10 0.00 0.00 1.90
2475 6338 2.009774 GCTGTGTGATGGTGTGGTATC 58.990 52.381 0.00 0.00 0.00 2.24
2509 6372 4.229096 CCTATGTTTGTGTCATTGTGTGC 58.771 43.478 0.00 0.00 0.00 4.57
2512 6375 2.223226 TGTTTGTGTCATTGTGTGCTCG 60.223 45.455 0.00 0.00 0.00 5.03
2531 6394 0.796312 GTTAGCGTGATGGTGTGGTG 59.204 55.000 0.00 0.00 0.00 4.17
2532 6395 0.953471 TTAGCGTGATGGTGTGGTGC 60.953 55.000 0.00 0.00 0.00 5.01
2536 6399 1.073025 GTGATGGTGTGGTGCCTGA 59.927 57.895 0.00 0.00 0.00 3.86
2541 6404 1.945580 TGGTGTGGTGCCTGAGTATA 58.054 50.000 0.00 0.00 0.00 1.47
2542 6405 2.477245 TGGTGTGGTGCCTGAGTATAT 58.523 47.619 0.00 0.00 0.00 0.86
2543 6406 2.843730 TGGTGTGGTGCCTGAGTATATT 59.156 45.455 0.00 0.00 0.00 1.28
2544 6407 3.206150 GGTGTGGTGCCTGAGTATATTG 58.794 50.000 0.00 0.00 0.00 1.90
2545 6408 2.614057 GTGTGGTGCCTGAGTATATTGC 59.386 50.000 0.00 0.00 0.00 3.56
2546 6409 2.505407 TGTGGTGCCTGAGTATATTGCT 59.495 45.455 0.00 0.00 0.00 3.91
2547 6410 3.134458 GTGGTGCCTGAGTATATTGCTC 58.866 50.000 0.00 1.38 0.00 4.26
2548 6411 2.224042 TGGTGCCTGAGTATATTGCTCG 60.224 50.000 0.00 0.00 35.85 5.03
2549 6412 2.224066 GGTGCCTGAGTATATTGCTCGT 60.224 50.000 0.00 0.00 35.85 4.18
2550 6413 3.005472 GGTGCCTGAGTATATTGCTCGTA 59.995 47.826 0.00 0.00 35.85 3.43
2551 6414 4.322049 GGTGCCTGAGTATATTGCTCGTAT 60.322 45.833 0.00 0.00 35.85 3.06
2552 6415 4.623167 GTGCCTGAGTATATTGCTCGTATG 59.377 45.833 0.00 0.00 35.85 2.39
2553 6416 4.177026 GCCTGAGTATATTGCTCGTATGG 58.823 47.826 0.00 0.00 35.85 2.74
2554 6417 4.322049 GCCTGAGTATATTGCTCGTATGGT 60.322 45.833 0.00 0.00 35.85 3.55
2555 6418 5.784177 CCTGAGTATATTGCTCGTATGGTT 58.216 41.667 0.00 0.00 35.85 3.67
2556 6419 6.223852 CCTGAGTATATTGCTCGTATGGTTT 58.776 40.000 0.00 0.00 35.85 3.27
2557 6420 6.146184 CCTGAGTATATTGCTCGTATGGTTTG 59.854 42.308 0.00 0.00 35.85 2.93
2558 6421 6.578944 TGAGTATATTGCTCGTATGGTTTGT 58.421 36.000 0.00 0.00 35.85 2.83
2559 6422 7.045416 TGAGTATATTGCTCGTATGGTTTGTT 58.955 34.615 0.00 0.00 35.85 2.83
2560 6423 8.198778 TGAGTATATTGCTCGTATGGTTTGTTA 58.801 33.333 0.00 0.00 35.85 2.41
2561 6424 8.951787 AGTATATTGCTCGTATGGTTTGTTAA 57.048 30.769 0.00 0.00 0.00 2.01
2562 6425 9.555727 AGTATATTGCTCGTATGGTTTGTTAAT 57.444 29.630 0.00 0.00 0.00 1.40
2563 6426 9.594038 GTATATTGCTCGTATGGTTTGTTAATG 57.406 33.333 0.00 0.00 0.00 1.90
2564 6427 6.751514 ATTGCTCGTATGGTTTGTTAATGA 57.248 33.333 0.00 0.00 0.00 2.57
2565 6428 6.561737 TTGCTCGTATGGTTTGTTAATGAA 57.438 33.333 0.00 0.00 0.00 2.57
2566 6429 6.751514 TGCTCGTATGGTTTGTTAATGAAT 57.248 33.333 0.00 0.00 0.00 2.57
2567 6430 7.851387 TGCTCGTATGGTTTGTTAATGAATA 57.149 32.000 0.00 0.00 0.00 1.75
2568 6431 7.915508 TGCTCGTATGGTTTGTTAATGAATAG 58.084 34.615 0.00 0.00 0.00 1.73
2569 6432 6.851330 GCTCGTATGGTTTGTTAATGAATAGC 59.149 38.462 0.00 0.00 0.00 2.97
2570 6433 7.254795 GCTCGTATGGTTTGTTAATGAATAGCT 60.255 37.037 0.00 0.00 0.00 3.32
2571 6434 7.915508 TCGTATGGTTTGTTAATGAATAGCTG 58.084 34.615 0.00 0.00 0.00 4.24
2572 6435 6.632834 CGTATGGTTTGTTAATGAATAGCTGC 59.367 38.462 0.00 0.00 0.00 5.25
2573 6436 6.780457 ATGGTTTGTTAATGAATAGCTGCT 57.220 33.333 7.57 7.57 0.00 4.24
2574 6437 7.880160 ATGGTTTGTTAATGAATAGCTGCTA 57.120 32.000 12.40 12.40 0.00 3.49
2575 6438 7.695480 TGGTTTGTTAATGAATAGCTGCTAA 57.305 32.000 14.13 0.00 0.00 3.09
2576 6439 8.292444 TGGTTTGTTAATGAATAGCTGCTAAT 57.708 30.769 14.13 5.00 0.00 1.73
2577 6440 9.402320 TGGTTTGTTAATGAATAGCTGCTAATA 57.598 29.630 14.13 3.54 0.00 0.98
2581 6444 9.897744 TTGTTAATGAATAGCTGCTAATAATGC 57.102 29.630 14.13 0.00 0.00 3.56
2582 6445 9.065798 TGTTAATGAATAGCTGCTAATAATGCA 57.934 29.630 14.13 3.25 38.81 3.96
2583 6446 9.897744 GTTAATGAATAGCTGCTAATAATGCAA 57.102 29.630 14.13 0.13 40.13 4.08
2585 6448 7.991084 ATGAATAGCTGCTAATAATGCAAGA 57.009 32.000 14.13 0.00 40.13 3.02
2586 6449 7.430992 TGAATAGCTGCTAATAATGCAAGAG 57.569 36.000 14.13 0.00 40.13 2.85
2587 6450 7.219322 TGAATAGCTGCTAATAATGCAAGAGA 58.781 34.615 14.13 0.00 40.13 3.10
2588 6451 7.387122 TGAATAGCTGCTAATAATGCAAGAGAG 59.613 37.037 14.13 0.00 40.13 3.20
2589 6452 5.033589 AGCTGCTAATAATGCAAGAGAGT 57.966 39.130 0.00 0.00 40.13 3.24
2590 6453 4.815308 AGCTGCTAATAATGCAAGAGAGTG 59.185 41.667 0.00 0.00 40.13 3.51
2591 6454 4.024218 GCTGCTAATAATGCAAGAGAGTGG 60.024 45.833 0.00 0.00 40.13 4.00
2592 6455 5.102953 TGCTAATAATGCAAGAGAGTGGT 57.897 39.130 0.00 0.00 37.51 4.16
2593 6456 5.500234 TGCTAATAATGCAAGAGAGTGGTT 58.500 37.500 0.00 0.00 37.51 3.67
2594 6457 5.945784 TGCTAATAATGCAAGAGAGTGGTTT 59.054 36.000 0.00 0.00 37.51 3.27
2595 6458 6.434028 TGCTAATAATGCAAGAGAGTGGTTTT 59.566 34.615 0.00 0.00 37.51 2.43
2596 6459 7.039784 TGCTAATAATGCAAGAGAGTGGTTTTT 60.040 33.333 0.00 0.00 37.51 1.94
2597 6460 7.486232 GCTAATAATGCAAGAGAGTGGTTTTTC 59.514 37.037 0.00 0.00 0.00 2.29
2598 6461 6.899393 ATAATGCAAGAGAGTGGTTTTTCA 57.101 33.333 0.00 0.00 0.00 2.69
2599 6462 5.596836 AATGCAAGAGAGTGGTTTTTCAA 57.403 34.783 0.00 0.00 0.00 2.69
2600 6463 4.637483 TGCAAGAGAGTGGTTTTTCAAG 57.363 40.909 0.00 0.00 0.00 3.02
2601 6464 4.016444 TGCAAGAGAGTGGTTTTTCAAGT 58.984 39.130 0.00 0.00 0.00 3.16
2602 6465 4.096382 TGCAAGAGAGTGGTTTTTCAAGTC 59.904 41.667 0.00 0.00 0.00 3.01
2603 6466 4.336713 GCAAGAGAGTGGTTTTTCAAGTCT 59.663 41.667 0.00 0.00 0.00 3.24
2604 6467 5.504830 GCAAGAGAGTGGTTTTTCAAGTCTC 60.505 44.000 0.00 0.00 32.97 3.36
2605 6468 5.359194 AGAGAGTGGTTTTTCAAGTCTCA 57.641 39.130 8.89 0.00 34.19 3.27
2606 6469 5.363939 AGAGAGTGGTTTTTCAAGTCTCAG 58.636 41.667 8.89 0.00 34.19 3.35
2607 6470 5.129485 AGAGAGTGGTTTTTCAAGTCTCAGA 59.871 40.000 8.89 0.00 34.19 3.27
2608 6471 5.934781 AGAGTGGTTTTTCAAGTCTCAGAT 58.065 37.500 0.00 0.00 0.00 2.90
2609 6472 5.762218 AGAGTGGTTTTTCAAGTCTCAGATG 59.238 40.000 0.00 0.00 0.00 2.90
2610 6473 5.440610 AGTGGTTTTTCAAGTCTCAGATGT 58.559 37.500 0.00 0.00 0.00 3.06
2611 6474 5.529060 AGTGGTTTTTCAAGTCTCAGATGTC 59.471 40.000 0.00 0.00 0.00 3.06
2612 6475 4.821805 TGGTTTTTCAAGTCTCAGATGTCC 59.178 41.667 0.00 0.00 0.00 4.02
2613 6476 5.066593 GGTTTTTCAAGTCTCAGATGTCCT 58.933 41.667 0.00 0.00 0.00 3.85
2614 6477 5.532779 GGTTTTTCAAGTCTCAGATGTCCTT 59.467 40.000 0.00 0.00 0.00 3.36
2615 6478 6.710744 GGTTTTTCAAGTCTCAGATGTCCTTA 59.289 38.462 0.00 0.00 0.00 2.69
2616 6479 7.308049 GGTTTTTCAAGTCTCAGATGTCCTTAC 60.308 40.741 0.00 0.00 0.00 2.34
2617 6480 6.419484 TTTCAAGTCTCAGATGTCCTTACA 57.581 37.500 0.00 0.00 40.69 2.41
2619 6482 7.718334 TTCAAGTCTCAGATGTCCTTACATA 57.282 36.000 0.00 0.00 46.49 2.29
2620 6483 7.718334 TCAAGTCTCAGATGTCCTTACATAA 57.282 36.000 0.00 0.00 46.49 1.90
2621 6484 8.311395 TCAAGTCTCAGATGTCCTTACATAAT 57.689 34.615 0.00 0.00 46.49 1.28
2622 6485 8.762645 TCAAGTCTCAGATGTCCTTACATAATT 58.237 33.333 0.00 0.00 46.49 1.40
2623 6486 9.388506 CAAGTCTCAGATGTCCTTACATAATTT 57.611 33.333 0.00 0.00 46.49 1.82
2654 6517 8.961294 AAAATCCAAAACTTCATGACATCAAA 57.039 26.923 0.00 0.00 0.00 2.69
2655 6518 9.563748 AAAATCCAAAACTTCATGACATCAAAT 57.436 25.926 0.00 0.00 0.00 2.32
2658 6521 9.811995 ATCCAAAACTTCATGACATCAAATATG 57.188 29.630 0.00 0.00 0.00 1.78
2659 6522 7.760794 TCCAAAACTTCATGACATCAAATATGC 59.239 33.333 0.00 0.00 0.00 3.14
2660 6523 7.010738 CCAAAACTTCATGACATCAAATATGCC 59.989 37.037 0.00 0.00 0.00 4.40
2661 6524 5.779529 ACTTCATGACATCAAATATGCCC 57.220 39.130 0.00 0.00 0.00 5.36
2662 6525 5.202765 ACTTCATGACATCAAATATGCCCA 58.797 37.500 0.00 0.00 0.00 5.36
2663 6526 5.657745 ACTTCATGACATCAAATATGCCCAA 59.342 36.000 0.00 0.00 0.00 4.12
2664 6527 6.154877 ACTTCATGACATCAAATATGCCCAAA 59.845 34.615 0.00 0.00 0.00 3.28
2665 6528 5.904941 TCATGACATCAAATATGCCCAAAC 58.095 37.500 0.00 0.00 0.00 2.93
2666 6529 5.657745 TCATGACATCAAATATGCCCAAACT 59.342 36.000 0.00 0.00 0.00 2.66
2667 6530 5.999205 TGACATCAAATATGCCCAAACTT 57.001 34.783 0.00 0.00 0.00 2.66
2668 6531 5.722263 TGACATCAAATATGCCCAAACTTG 58.278 37.500 0.00 0.00 0.00 3.16
2669 6532 5.245751 TGACATCAAATATGCCCAAACTTGT 59.754 36.000 0.00 0.00 0.00 3.16
2670 6533 6.435591 TGACATCAAATATGCCCAAACTTGTA 59.564 34.615 0.00 0.00 0.00 2.41
2671 6534 6.866480 ACATCAAATATGCCCAAACTTGTAG 58.134 36.000 0.00 0.00 0.00 2.74
2672 6535 5.913137 TCAAATATGCCCAAACTTGTAGG 57.087 39.130 0.00 0.00 0.00 3.18
2673 6536 5.329399 TCAAATATGCCCAAACTTGTAGGT 58.671 37.500 0.00 0.00 0.00 3.08
2674 6537 5.184864 TCAAATATGCCCAAACTTGTAGGTG 59.815 40.000 0.00 0.00 0.00 4.00
2675 6538 1.256812 ATGCCCAAACTTGTAGGTGC 58.743 50.000 0.00 0.00 0.00 5.01
2676 6539 0.184933 TGCCCAAACTTGTAGGTGCT 59.815 50.000 0.00 0.00 0.00 4.40
2677 6540 1.328279 GCCCAAACTTGTAGGTGCTT 58.672 50.000 0.00 0.00 0.00 3.91
2678 6541 2.158593 TGCCCAAACTTGTAGGTGCTTA 60.159 45.455 0.00 0.00 0.00 3.09
2679 6542 3.089284 GCCCAAACTTGTAGGTGCTTAT 58.911 45.455 0.00 0.00 0.00 1.73
2680 6543 4.263550 TGCCCAAACTTGTAGGTGCTTATA 60.264 41.667 0.00 0.00 0.00 0.98
2681 6544 4.703093 GCCCAAACTTGTAGGTGCTTATAA 59.297 41.667 0.00 0.00 0.00 0.98
2682 6545 5.163652 GCCCAAACTTGTAGGTGCTTATAAG 60.164 44.000 8.20 8.20 0.00 1.73
2683 6546 6.177610 CCCAAACTTGTAGGTGCTTATAAGA 58.822 40.000 16.85 0.00 0.00 2.10
2684 6547 6.828785 CCCAAACTTGTAGGTGCTTATAAGAT 59.171 38.462 16.85 1.45 0.00 2.40
2685 6548 7.339466 CCCAAACTTGTAGGTGCTTATAAGATT 59.661 37.037 16.85 0.85 0.00 2.40
2686 6549 8.739972 CCAAACTTGTAGGTGCTTATAAGATTT 58.260 33.333 16.85 1.18 0.00 2.17
2687 6550 9.774742 CAAACTTGTAGGTGCTTATAAGATTTC 57.225 33.333 16.85 0.00 0.00 2.17
2688 6551 9.515226 AAACTTGTAGGTGCTTATAAGATTTCA 57.485 29.630 16.85 1.65 0.00 2.69
2689 6552 9.686683 AACTTGTAGGTGCTTATAAGATTTCAT 57.313 29.630 16.85 3.45 0.00 2.57
2690 6553 9.113838 ACTTGTAGGTGCTTATAAGATTTCATG 57.886 33.333 16.85 10.38 0.00 3.07
2691 6554 7.496529 TGTAGGTGCTTATAAGATTTCATGC 57.503 36.000 16.85 0.00 0.00 4.06
2692 6555 6.486657 TGTAGGTGCTTATAAGATTTCATGCC 59.513 38.462 16.85 3.60 0.00 4.40
2693 6556 5.448654 AGGTGCTTATAAGATTTCATGCCA 58.551 37.500 16.85 0.00 0.00 4.92
2694 6557 5.893255 AGGTGCTTATAAGATTTCATGCCAA 59.107 36.000 16.85 0.00 0.00 4.52
2695 6558 6.380846 AGGTGCTTATAAGATTTCATGCCAAA 59.619 34.615 16.85 0.00 0.00 3.28
2696 6559 7.041107 GGTGCTTATAAGATTTCATGCCAAAA 58.959 34.615 16.85 0.00 0.00 2.44
2697 6560 7.548780 GGTGCTTATAAGATTTCATGCCAAAAA 59.451 33.333 16.85 0.00 0.00 1.94
2802 6665 8.783660 TTGTGTTTAGATAGGATATGGAGTCT 57.216 34.615 0.00 0.00 0.00 3.24
2818 6681 4.593206 TGGAGTCTTGTTCAAGTAGGACAT 59.407 41.667 11.52 0.00 0.00 3.06
2820 6683 5.639931 GGAGTCTTGTTCAAGTAGGACATTC 59.360 44.000 11.52 0.00 0.00 2.67
2821 6684 6.174720 AGTCTTGTTCAAGTAGGACATTCA 57.825 37.500 11.52 0.00 0.00 2.57
2827 6690 6.591935 TGTTCAAGTAGGACATTCATATCCC 58.408 40.000 0.00 0.00 35.38 3.85
2845 6708 5.758042 ATCCCAGGCCTCTCATATATAGA 57.242 43.478 0.00 0.00 0.00 1.98
2868 6731 2.231964 GGGGTAGACACACGATGTAACA 59.768 50.000 0.00 0.00 43.56 2.41
2954 6817 0.668096 GGTGTGCGGTATTGTGACGA 60.668 55.000 0.00 0.00 0.00 4.20
2966 6876 3.780357 TGACGATGTCACGGGGAA 58.220 55.556 0.00 0.00 37.67 3.97
3038 6949 1.148310 CAAATCTCGGTGTCGTGCTT 58.852 50.000 0.00 0.00 37.69 3.91
3039 6950 2.288579 ACAAATCTCGGTGTCGTGCTTA 60.289 45.455 0.00 0.00 37.69 3.09
3051 6962 3.501828 TGTCGTGCTTATGTGATTGCTTT 59.498 39.130 0.00 0.00 0.00 3.51
3052 6963 4.693095 TGTCGTGCTTATGTGATTGCTTTA 59.307 37.500 0.00 0.00 0.00 1.85
3062 6973 2.930682 GTGATTGCTTTAGTCCTCGGAC 59.069 50.000 8.03 8.03 44.86 4.79
3074 6985 1.444917 CCTCGGACGATCGATGGTGA 61.445 60.000 24.34 8.88 38.55 4.02
3075 6986 0.593618 CTCGGACGATCGATGGTGAT 59.406 55.000 24.34 0.00 38.55 3.06
3116 7033 2.901249 TGGTATAGCCAAGTTCTTCGC 58.099 47.619 0.00 0.00 45.94 4.70
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
279 288 9.967245 GTTTCATTTTTCACTTTGTAGGTTTTC 57.033 29.630 0.00 0.00 0.00 2.29
443 1101 1.670674 GCGTCCGTTTCAGGTGACATA 60.671 52.381 0.00 0.00 0.00 2.29
648 1312 1.659098 CGTCCGTGAAAAGTCCTATGC 59.341 52.381 0.00 0.00 0.00 3.14
661 1325 0.812412 AACCAACCAACTCGTCCGTG 60.812 55.000 0.00 0.00 0.00 4.94
662 1326 0.812412 CAACCAACCAACTCGTCCGT 60.812 55.000 0.00 0.00 0.00 4.69
664 1328 1.670791 TTCAACCAACCAACTCGTCC 58.329 50.000 0.00 0.00 0.00 4.79
669 1333 3.230976 GGATCCTTTCAACCAACCAACT 58.769 45.455 3.84 0.00 0.00 3.16
670 1334 2.299013 GGGATCCTTTCAACCAACCAAC 59.701 50.000 12.58 0.00 0.00 3.77
673 1337 1.173913 CGGGATCCTTTCAACCAACC 58.826 55.000 12.58 0.00 0.00 3.77
685 1444 3.055312 ACCTTTACTCTTTCACGGGATCC 60.055 47.826 1.92 1.92 0.00 3.36
764 1523 2.540101 CTGTTGTCGTCCTGTGAACTTC 59.460 50.000 0.00 0.00 0.00 3.01
765 1524 2.550978 CTGTTGTCGTCCTGTGAACTT 58.449 47.619 0.00 0.00 0.00 2.66
766 1525 1.806623 GCTGTTGTCGTCCTGTGAACT 60.807 52.381 0.00 0.00 0.00 3.01
813 1575 1.815421 GCACGGTGCTAGGATGGTG 60.815 63.158 25.08 11.58 40.96 4.17
855 1620 2.354510 GCATGCAATTCAGGCGTAACTA 59.645 45.455 14.21 0.00 42.90 2.24
857 1622 1.548986 GCATGCAATTCAGGCGTAAC 58.451 50.000 14.21 0.00 42.90 2.50
908 1678 4.389576 CCTCTGCCGTTGCGTTGC 62.390 66.667 0.00 0.00 41.78 4.17
909 1679 3.726517 CCCTCTGCCGTTGCGTTG 61.727 66.667 0.00 0.00 41.78 4.10
911 1681 4.988598 CACCCTCTGCCGTTGCGT 62.989 66.667 0.00 0.00 41.78 5.24
912 1682 4.680237 TCACCCTCTGCCGTTGCG 62.680 66.667 0.00 0.00 41.78 4.85
1038 1874 1.444553 GGACTGGAGCTCGTCGTTG 60.445 63.158 7.83 0.00 0.00 4.10
1543 2610 4.715523 GCCCTGCTACGGCACCAA 62.716 66.667 4.63 0.00 46.27 3.67
1552 2619 4.015406 CACCACCACGCCCTGCTA 62.015 66.667 0.00 0.00 0.00 3.49
1611 2678 4.539083 ACGAACACCGCCAGCACA 62.539 61.111 0.00 0.00 43.32 4.57
1650 2717 3.303135 TCCGTCTGCTGGTCGCTT 61.303 61.111 0.00 0.00 40.11 4.68
1660 2727 1.202582 CTTGTCCTGGTAGTCCGTCTG 59.797 57.143 0.00 0.00 36.30 3.51
1662 2729 0.108756 GCTTGTCCTGGTAGTCCGTC 60.109 60.000 0.00 0.00 36.30 4.79
2199 6062 1.221840 CTTGTCCCTCATCACCCCG 59.778 63.158 0.00 0.00 0.00 5.73
2200 6063 1.609783 CCTTGTCCCTCATCACCCC 59.390 63.158 0.00 0.00 0.00 4.95
2287 6150 1.291877 GACGGCAGCTAGTTGTGGTG 61.292 60.000 8.48 0.00 36.18 4.17
2364 6227 0.666274 TCGTCGATGTGGTTGAGCAC 60.666 55.000 4.21 6.39 0.00 4.40
2366 6229 1.674611 CGTCGTCGATGTGGTTGAGC 61.675 60.000 6.28 0.00 39.71 4.26
2368 6231 1.950758 TCGTCGTCGATGTGGTTGA 59.049 52.632 13.91 0.00 41.35 3.18
2369 6232 4.544762 TCGTCGTCGATGTGGTTG 57.455 55.556 13.91 0.00 41.35 3.77
2377 6240 1.891178 CAGCTAATTGTCGTCGTCGA 58.109 50.000 0.00 0.00 44.12 4.20
2378 6241 0.294887 GCAGCTAATTGTCGTCGTCG 59.705 55.000 0.00 0.00 38.55 5.12
2379 6242 0.645868 GGCAGCTAATTGTCGTCGTC 59.354 55.000 0.00 0.00 0.00 4.20
2380 6243 1.076533 CGGCAGCTAATTGTCGTCGT 61.077 55.000 0.00 0.00 41.02 4.34
2381 6244 1.631072 CGGCAGCTAATTGTCGTCG 59.369 57.895 0.00 0.00 41.02 5.12
2385 6248 3.764885 AAATGACGGCAGCTAATTGTC 57.235 42.857 0.00 0.00 0.00 3.18
2386 6249 6.238648 GGTTATAAATGACGGCAGCTAATTGT 60.239 38.462 0.00 0.00 0.00 2.71
2387 6250 6.142817 GGTTATAAATGACGGCAGCTAATTG 58.857 40.000 0.00 0.00 0.00 2.32
2388 6251 5.240844 GGGTTATAAATGACGGCAGCTAATT 59.759 40.000 0.00 0.00 0.00 1.40
2389 6252 4.760204 GGGTTATAAATGACGGCAGCTAAT 59.240 41.667 0.00 0.00 0.00 1.73
2390 6253 4.131596 GGGTTATAAATGACGGCAGCTAA 58.868 43.478 0.00 0.00 0.00 3.09
2391 6254 3.735591 GGGTTATAAATGACGGCAGCTA 58.264 45.455 0.00 0.00 0.00 3.32
2392 6255 2.572290 GGGTTATAAATGACGGCAGCT 58.428 47.619 0.00 0.00 0.00 4.24
2393 6256 1.263217 CGGGTTATAAATGACGGCAGC 59.737 52.381 0.00 0.00 0.00 5.25
2394 6257 1.263217 GCGGGTTATAAATGACGGCAG 59.737 52.381 0.00 0.00 0.00 4.85
2395 6258 1.301423 GCGGGTTATAAATGACGGCA 58.699 50.000 0.00 0.00 0.00 5.69
2396 6259 0.589708 GGCGGGTTATAAATGACGGC 59.410 55.000 9.09 9.09 39.55 5.68
2397 6260 2.249844 AGGCGGGTTATAAATGACGG 57.750 50.000 0.00 0.00 0.00 4.79
2398 6261 3.986277 AGTAGGCGGGTTATAAATGACG 58.014 45.455 0.00 0.00 0.00 4.35
2399 6262 5.007332 CACAAGTAGGCGGGTTATAAATGAC 59.993 44.000 0.00 0.00 0.00 3.06
2400 6263 5.120399 CACAAGTAGGCGGGTTATAAATGA 58.880 41.667 0.00 0.00 0.00 2.57
2401 6264 4.274950 CCACAAGTAGGCGGGTTATAAATG 59.725 45.833 0.00 0.00 0.00 2.32
2402 6265 4.080186 ACCACAAGTAGGCGGGTTATAAAT 60.080 41.667 0.00 0.00 0.00 1.40
2403 6266 3.263937 ACCACAAGTAGGCGGGTTATAAA 59.736 43.478 0.00 0.00 0.00 1.40
2404 6267 2.839425 ACCACAAGTAGGCGGGTTATAA 59.161 45.455 0.00 0.00 0.00 0.98
2405 6268 2.168936 CACCACAAGTAGGCGGGTTATA 59.831 50.000 0.00 0.00 0.00 0.98
2406 6269 1.065709 CACCACAAGTAGGCGGGTTAT 60.066 52.381 0.00 0.00 0.00 1.89
2407 6270 0.322322 CACCACAAGTAGGCGGGTTA 59.678 55.000 0.00 0.00 0.00 2.85
2408 6271 1.072505 CACCACAAGTAGGCGGGTT 59.927 57.895 0.00 0.00 0.00 4.11
2409 6272 2.747686 CACCACAAGTAGGCGGGT 59.252 61.111 0.00 0.00 0.00 5.28
2410 6273 2.746277 GCACCACAAGTAGGCGGG 60.746 66.667 0.00 0.00 0.00 6.13
2411 6274 0.036765 TAAGCACCACAAGTAGGCGG 60.037 55.000 0.00 0.00 0.00 6.13
2412 6275 1.076332 GTAAGCACCACAAGTAGGCG 58.924 55.000 0.00 0.00 0.00 5.52
2413 6276 2.474410 AGTAAGCACCACAAGTAGGC 57.526 50.000 0.00 0.00 0.00 3.93
2427 6290 2.177977 CACAGACTCGCGCTAAGTAAG 58.822 52.381 11.69 9.83 0.00 2.34
2428 6291 1.538512 ACACAGACTCGCGCTAAGTAA 59.461 47.619 11.69 0.00 0.00 2.24
2429 6292 1.162698 ACACAGACTCGCGCTAAGTA 58.837 50.000 11.69 0.00 0.00 2.24
2430 6293 0.314302 AACACAGACTCGCGCTAAGT 59.686 50.000 11.56 11.56 0.00 2.24
2431 6294 0.985549 GAACACAGACTCGCGCTAAG 59.014 55.000 5.56 5.37 0.00 2.18
2432 6295 0.312729 TGAACACAGACTCGCGCTAA 59.687 50.000 5.56 0.00 0.00 3.09
2433 6296 0.526211 ATGAACACAGACTCGCGCTA 59.474 50.000 5.56 0.00 0.00 4.26
2434 6297 0.319900 AATGAACACAGACTCGCGCT 60.320 50.000 5.56 0.00 0.00 5.92
2435 6298 1.321743 CTAATGAACACAGACTCGCGC 59.678 52.381 0.00 0.00 0.00 6.86
2436 6299 1.321743 GCTAATGAACACAGACTCGCG 59.678 52.381 0.00 0.00 0.00 5.87
2437 6300 2.346847 CAGCTAATGAACACAGACTCGC 59.653 50.000 0.00 0.00 0.00 5.03
2438 6301 3.366121 CACAGCTAATGAACACAGACTCG 59.634 47.826 0.00 0.00 0.00 4.18
2439 6302 4.151335 CACACAGCTAATGAACACAGACTC 59.849 45.833 4.22 0.00 0.00 3.36
2440 6303 4.060900 CACACAGCTAATGAACACAGACT 58.939 43.478 4.22 0.00 0.00 3.24
2441 6304 4.058124 TCACACAGCTAATGAACACAGAC 58.942 43.478 4.22 0.00 0.00 3.51
2442 6305 4.335400 TCACACAGCTAATGAACACAGA 57.665 40.909 4.22 0.00 0.00 3.41
2443 6306 4.142752 CCATCACACAGCTAATGAACACAG 60.143 45.833 4.22 0.00 0.00 3.66
2444 6307 3.752747 CCATCACACAGCTAATGAACACA 59.247 43.478 4.22 0.00 0.00 3.72
2445 6308 3.753272 ACCATCACACAGCTAATGAACAC 59.247 43.478 4.22 0.00 0.00 3.32
2446 6309 3.752747 CACCATCACACAGCTAATGAACA 59.247 43.478 4.22 0.00 0.00 3.18
2447 6310 3.753272 ACACCATCACACAGCTAATGAAC 59.247 43.478 4.22 0.00 0.00 3.18
2448 6311 3.752747 CACACCATCACACAGCTAATGAA 59.247 43.478 4.22 0.00 0.00 2.57
2449 6312 3.337358 CACACCATCACACAGCTAATGA 58.663 45.455 4.22 0.47 0.00 2.57
2450 6313 2.421073 CCACACCATCACACAGCTAATG 59.579 50.000 0.00 0.00 0.00 1.90
2451 6314 2.040278 ACCACACCATCACACAGCTAAT 59.960 45.455 0.00 0.00 0.00 1.73
2452 6315 1.419762 ACCACACCATCACACAGCTAA 59.580 47.619 0.00 0.00 0.00 3.09
2453 6316 1.055849 ACCACACCATCACACAGCTA 58.944 50.000 0.00 0.00 0.00 3.32
2454 6317 1.055849 TACCACACCATCACACAGCT 58.944 50.000 0.00 0.00 0.00 4.24
2475 6338 4.333649 CACAAACATAGGCCACATACTCAG 59.666 45.833 5.01 0.00 0.00 3.35
2509 6372 0.992072 CACACCATCACGCTAACGAG 59.008 55.000 0.00 0.00 43.93 4.18
2512 6375 0.796312 CACCACACCATCACGCTAAC 59.204 55.000 0.00 0.00 0.00 2.34
2531 6394 4.177026 CCATACGAGCAATATACTCAGGC 58.823 47.826 0.00 0.00 33.58 4.85
2532 6395 5.392767 ACCATACGAGCAATATACTCAGG 57.607 43.478 0.00 4.96 33.58 3.86
2536 6399 8.951787 TTAACAAACCATACGAGCAATATACT 57.048 30.769 0.00 0.00 0.00 2.12
2541 6404 6.751514 TCATTAACAAACCATACGAGCAAT 57.248 33.333 0.00 0.00 0.00 3.56
2542 6405 6.561737 TTCATTAACAAACCATACGAGCAA 57.438 33.333 0.00 0.00 0.00 3.91
2543 6406 6.751514 ATTCATTAACAAACCATACGAGCA 57.248 33.333 0.00 0.00 0.00 4.26
2544 6407 6.851330 GCTATTCATTAACAAACCATACGAGC 59.149 38.462 0.00 0.00 0.00 5.03
2545 6408 8.064222 CAGCTATTCATTAACAAACCATACGAG 58.936 37.037 0.00 0.00 0.00 4.18
2546 6409 7.466725 GCAGCTATTCATTAACAAACCATACGA 60.467 37.037 0.00 0.00 0.00 3.43
2547 6410 6.632834 GCAGCTATTCATTAACAAACCATACG 59.367 38.462 0.00 0.00 0.00 3.06
2548 6411 7.707104 AGCAGCTATTCATTAACAAACCATAC 58.293 34.615 0.00 0.00 0.00 2.39
2549 6412 7.880160 AGCAGCTATTCATTAACAAACCATA 57.120 32.000 0.00 0.00 0.00 2.74
2550 6413 6.780457 AGCAGCTATTCATTAACAAACCAT 57.220 33.333 0.00 0.00 0.00 3.55
2551 6414 7.695480 TTAGCAGCTATTCATTAACAAACCA 57.305 32.000 2.02 0.00 0.00 3.67
2555 6418 9.897744 GCATTATTAGCAGCTATTCATTAACAA 57.102 29.630 2.02 0.00 0.00 2.83
2556 6419 9.065798 TGCATTATTAGCAGCTATTCATTAACA 57.934 29.630 2.02 0.00 37.02 2.41
2557 6420 9.897744 TTGCATTATTAGCAGCTATTCATTAAC 57.102 29.630 2.02 0.00 43.75 2.01
2559 6422 9.506018 TCTTGCATTATTAGCAGCTATTCATTA 57.494 29.630 2.02 0.00 43.75 1.90
2560 6423 8.400184 TCTTGCATTATTAGCAGCTATTCATT 57.600 30.769 2.02 0.00 43.75 2.57
2561 6424 7.881751 TCTCTTGCATTATTAGCAGCTATTCAT 59.118 33.333 2.02 0.00 43.75 2.57
2562 6425 7.219322 TCTCTTGCATTATTAGCAGCTATTCA 58.781 34.615 2.02 0.00 43.75 2.57
2563 6426 7.387397 ACTCTCTTGCATTATTAGCAGCTATTC 59.613 37.037 2.02 0.00 43.75 1.75
2564 6427 7.172875 CACTCTCTTGCATTATTAGCAGCTATT 59.827 37.037 2.02 2.28 43.75 1.73
2565 6428 6.649973 CACTCTCTTGCATTATTAGCAGCTAT 59.350 38.462 2.02 0.00 43.75 2.97
2566 6429 5.987953 CACTCTCTTGCATTATTAGCAGCTA 59.012 40.000 0.00 0.00 43.75 3.32
2567 6430 4.815308 CACTCTCTTGCATTATTAGCAGCT 59.185 41.667 0.00 0.00 43.75 4.24
2568 6431 4.024218 CCACTCTCTTGCATTATTAGCAGC 60.024 45.833 0.00 0.00 43.75 5.25
2569 6432 5.121811 ACCACTCTCTTGCATTATTAGCAG 58.878 41.667 0.00 0.00 43.75 4.24
2570 6433 5.102953 ACCACTCTCTTGCATTATTAGCA 57.897 39.130 0.00 0.00 40.85 3.49
2571 6434 6.442513 AAACCACTCTCTTGCATTATTAGC 57.557 37.500 0.00 0.00 0.00 3.09
2572 6435 8.514594 TGAAAAACCACTCTCTTGCATTATTAG 58.485 33.333 0.00 0.00 0.00 1.73
2573 6436 8.402798 TGAAAAACCACTCTCTTGCATTATTA 57.597 30.769 0.00 0.00 0.00 0.98
2574 6437 7.288810 TGAAAAACCACTCTCTTGCATTATT 57.711 32.000 0.00 0.00 0.00 1.40
2575 6438 6.899393 TGAAAAACCACTCTCTTGCATTAT 57.101 33.333 0.00 0.00 0.00 1.28
2576 6439 6.321181 ACTTGAAAAACCACTCTCTTGCATTA 59.679 34.615 0.00 0.00 0.00 1.90
2577 6440 5.127682 ACTTGAAAAACCACTCTCTTGCATT 59.872 36.000 0.00 0.00 0.00 3.56
2578 6441 4.646492 ACTTGAAAAACCACTCTCTTGCAT 59.354 37.500 0.00 0.00 0.00 3.96
2579 6442 4.016444 ACTTGAAAAACCACTCTCTTGCA 58.984 39.130 0.00 0.00 0.00 4.08
2580 6443 4.336713 AGACTTGAAAAACCACTCTCTTGC 59.663 41.667 0.00 0.00 0.00 4.01
2581 6444 5.586243 TGAGACTTGAAAAACCACTCTCTTG 59.414 40.000 0.00 0.00 0.00 3.02
2582 6445 5.745227 TGAGACTTGAAAAACCACTCTCTT 58.255 37.500 0.00 0.00 0.00 2.85
2583 6446 5.129485 TCTGAGACTTGAAAAACCACTCTCT 59.871 40.000 0.00 0.00 0.00 3.10
2584 6447 5.360591 TCTGAGACTTGAAAAACCACTCTC 58.639 41.667 0.00 0.00 0.00 3.20
2585 6448 5.359194 TCTGAGACTTGAAAAACCACTCT 57.641 39.130 0.00 0.00 0.00 3.24
2586 6449 5.529060 ACATCTGAGACTTGAAAAACCACTC 59.471 40.000 0.00 0.00 0.00 3.51
2587 6450 5.440610 ACATCTGAGACTTGAAAAACCACT 58.559 37.500 0.00 0.00 0.00 4.00
2588 6451 5.278022 GGACATCTGAGACTTGAAAAACCAC 60.278 44.000 0.00 0.00 0.00 4.16
2589 6452 4.821805 GGACATCTGAGACTTGAAAAACCA 59.178 41.667 0.00 0.00 0.00 3.67
2590 6453 5.066593 AGGACATCTGAGACTTGAAAAACC 58.933 41.667 0.00 0.00 0.00 3.27
2591 6454 6.625873 AAGGACATCTGAGACTTGAAAAAC 57.374 37.500 0.00 0.00 0.00 2.43
2592 6455 7.279615 TGTAAGGACATCTGAGACTTGAAAAA 58.720 34.615 0.00 0.00 0.00 1.94
2593 6456 6.826668 TGTAAGGACATCTGAGACTTGAAAA 58.173 36.000 0.00 0.00 0.00 2.29
2594 6457 6.419484 TGTAAGGACATCTGAGACTTGAAA 57.581 37.500 0.00 0.00 0.00 2.69
2595 6458 6.611613 ATGTAAGGACATCTGAGACTTGAA 57.388 37.500 0.00 0.00 43.01 2.69
2596 6459 7.718334 TTATGTAAGGACATCTGAGACTTGA 57.282 36.000 0.00 0.00 43.01 3.02
2597 6460 8.954950 AATTATGTAAGGACATCTGAGACTTG 57.045 34.615 0.00 0.00 43.01 3.16
2629 6492 8.961294 TTTGATGTCATGAAGTTTTGGATTTT 57.039 26.923 0.00 0.00 0.00 1.82
2632 6495 9.811995 CATATTTGATGTCATGAAGTTTTGGAT 57.188 29.630 0.00 0.00 0.00 3.41
2633 6496 7.760794 GCATATTTGATGTCATGAAGTTTTGGA 59.239 33.333 0.00 0.00 0.00 3.53
2634 6497 7.010738 GGCATATTTGATGTCATGAAGTTTTGG 59.989 37.037 0.00 0.00 0.00 3.28
2635 6498 7.010738 GGGCATATTTGATGTCATGAAGTTTTG 59.989 37.037 0.00 0.00 0.00 2.44
2636 6499 7.043565 GGGCATATTTGATGTCATGAAGTTTT 58.956 34.615 0.00 0.00 0.00 2.43
2637 6500 6.154877 TGGGCATATTTGATGTCATGAAGTTT 59.845 34.615 0.00 0.00 0.00 2.66
2638 6501 5.657745 TGGGCATATTTGATGTCATGAAGTT 59.342 36.000 0.00 0.00 0.00 2.66
2639 6502 5.202765 TGGGCATATTTGATGTCATGAAGT 58.797 37.500 0.00 0.00 0.00 3.01
2640 6503 5.777850 TGGGCATATTTGATGTCATGAAG 57.222 39.130 0.00 0.00 0.00 3.02
2641 6504 6.154877 AGTTTGGGCATATTTGATGTCATGAA 59.845 34.615 0.00 0.00 0.00 2.57
2642 6505 5.657745 AGTTTGGGCATATTTGATGTCATGA 59.342 36.000 0.00 0.00 0.00 3.07
2643 6506 5.909477 AGTTTGGGCATATTTGATGTCATG 58.091 37.500 0.00 0.00 0.00 3.07
2644 6507 6.070653 ACAAGTTTGGGCATATTTGATGTCAT 60.071 34.615 0.00 0.00 0.00 3.06
2645 6508 5.245751 ACAAGTTTGGGCATATTTGATGTCA 59.754 36.000 0.00 0.00 0.00 3.58
2646 6509 5.723295 ACAAGTTTGGGCATATTTGATGTC 58.277 37.500 0.00 0.00 0.00 3.06
2647 6510 5.743636 ACAAGTTTGGGCATATTTGATGT 57.256 34.783 0.00 0.00 0.00 3.06
2648 6511 6.127366 ACCTACAAGTTTGGGCATATTTGATG 60.127 38.462 0.00 0.00 0.00 3.07
2649 6512 5.957774 ACCTACAAGTTTGGGCATATTTGAT 59.042 36.000 0.00 0.00 0.00 2.57
2650 6513 5.184864 CACCTACAAGTTTGGGCATATTTGA 59.815 40.000 0.00 0.00 0.00 2.69
2651 6514 5.410067 CACCTACAAGTTTGGGCATATTTG 58.590 41.667 0.00 0.00 0.00 2.32
2652 6515 4.081697 GCACCTACAAGTTTGGGCATATTT 60.082 41.667 0.00 0.00 0.00 1.40
2653 6516 3.447229 GCACCTACAAGTTTGGGCATATT 59.553 43.478 0.00 0.00 0.00 1.28
2654 6517 3.023832 GCACCTACAAGTTTGGGCATAT 58.976 45.455 0.00 0.00 0.00 1.78
2655 6518 2.041081 AGCACCTACAAGTTTGGGCATA 59.959 45.455 0.00 0.00 0.00 3.14
2656 6519 1.203050 AGCACCTACAAGTTTGGGCAT 60.203 47.619 0.00 0.00 0.00 4.40
2657 6520 0.184933 AGCACCTACAAGTTTGGGCA 59.815 50.000 0.00 0.00 0.00 5.36
2658 6521 1.328279 AAGCACCTACAAGTTTGGGC 58.672 50.000 0.00 0.00 0.00 5.36
2659 6522 6.177610 TCTTATAAGCACCTACAAGTTTGGG 58.822 40.000 7.67 0.00 0.00 4.12
2660 6523 7.865706 ATCTTATAAGCACCTACAAGTTTGG 57.134 36.000 7.67 0.00 0.00 3.28
2661 6524 9.774742 GAAATCTTATAAGCACCTACAAGTTTG 57.225 33.333 7.67 0.00 0.00 2.93
2662 6525 9.515226 TGAAATCTTATAAGCACCTACAAGTTT 57.485 29.630 7.67 0.00 0.00 2.66
2663 6526 9.686683 ATGAAATCTTATAAGCACCTACAAGTT 57.313 29.630 7.67 0.00 0.00 2.66
2664 6527 9.113838 CATGAAATCTTATAAGCACCTACAAGT 57.886 33.333 7.67 0.00 0.00 3.16
2665 6528 8.072567 GCATGAAATCTTATAAGCACCTACAAG 58.927 37.037 7.67 2.53 0.00 3.16
2666 6529 7.013274 GGCATGAAATCTTATAAGCACCTACAA 59.987 37.037 7.67 0.00 0.00 2.41
2667 6530 6.486657 GGCATGAAATCTTATAAGCACCTACA 59.513 38.462 7.67 4.05 0.00 2.74
2668 6531 6.486657 TGGCATGAAATCTTATAAGCACCTAC 59.513 38.462 7.67 0.00 0.00 3.18
2669 6532 6.600388 TGGCATGAAATCTTATAAGCACCTA 58.400 36.000 7.67 0.00 0.00 3.08
2670 6533 5.448654 TGGCATGAAATCTTATAAGCACCT 58.551 37.500 7.67 0.00 0.00 4.00
2671 6534 5.772825 TGGCATGAAATCTTATAAGCACC 57.227 39.130 7.67 0.28 0.00 5.01
2672 6535 8.477984 TTTTTGGCATGAAATCTTATAAGCAC 57.522 30.769 7.67 0.40 0.00 4.40
2694 6557 7.069950 ACATTTAGACTTTTGCCTCTCCTTTTT 59.930 33.333 0.00 0.00 0.00 1.94
2695 6558 6.551227 ACATTTAGACTTTTGCCTCTCCTTTT 59.449 34.615 0.00 0.00 0.00 2.27
2696 6559 6.071320 ACATTTAGACTTTTGCCTCTCCTTT 58.929 36.000 0.00 0.00 0.00 3.11
2697 6560 5.635120 ACATTTAGACTTTTGCCTCTCCTT 58.365 37.500 0.00 0.00 0.00 3.36
2698 6561 5.248380 ACATTTAGACTTTTGCCTCTCCT 57.752 39.130 0.00 0.00 0.00 3.69
2699 6562 5.966742 AACATTTAGACTTTTGCCTCTCC 57.033 39.130 0.00 0.00 0.00 3.71
2700 6563 7.604545 ACTCTAACATTTAGACTTTTGCCTCTC 59.395 37.037 0.00 0.00 0.00 3.20
2701 6564 7.454225 ACTCTAACATTTAGACTTTTGCCTCT 58.546 34.615 0.00 0.00 0.00 3.69
2702 6565 7.674471 ACTCTAACATTTAGACTTTTGCCTC 57.326 36.000 0.00 0.00 0.00 4.70
2703 6566 7.502561 ACAACTCTAACATTTAGACTTTTGCCT 59.497 33.333 0.00 0.00 0.00 4.75
2704 6567 7.591426 CACAACTCTAACATTTAGACTTTTGCC 59.409 37.037 0.00 0.00 0.00 4.52
2705 6568 8.129211 ACACAACTCTAACATTTAGACTTTTGC 58.871 33.333 0.00 0.00 0.00 3.68
2708 6571 9.391006 TCAACACAACTCTAACATTTAGACTTT 57.609 29.630 0.00 0.00 0.00 2.66
2709 6572 8.958119 TCAACACAACTCTAACATTTAGACTT 57.042 30.769 0.00 0.00 0.00 3.01
2710 6573 8.958119 TTCAACACAACTCTAACATTTAGACT 57.042 30.769 0.00 0.00 0.00 3.24
2745 6608 9.193806 CTACAAGTCCAACTATAACCTACCTTA 57.806 37.037 0.00 0.00 0.00 2.69
2757 6620 7.502696 ACACAATACAACTACAAGTCCAACTA 58.497 34.615 0.00 0.00 0.00 2.24
2802 6665 7.054124 GGGATATGAATGTCCTACTTGAACAA 58.946 38.462 6.11 0.00 38.08 2.83
2818 6681 2.494888 TGAGAGGCCTGGGATATGAA 57.505 50.000 12.00 0.00 0.00 2.57
2820 6683 7.244558 TCTATATATGAGAGGCCTGGGATATG 58.755 42.308 12.00 0.00 0.00 1.78
2821 6684 7.427683 TCTATATATGAGAGGCCTGGGATAT 57.572 40.000 12.00 10.91 0.00 1.63
2845 6708 0.252103 ACATCGTGTGTCTACCCCCT 60.252 55.000 0.00 0.00 35.77 4.79
2868 6731 5.409520 CGTCTGTGCTATTATGTTGGCATAT 59.590 40.000 0.00 0.00 37.42 1.78
2954 6817 2.579201 CGCTCTTCCCCGTGACAT 59.421 61.111 0.00 0.00 0.00 3.06
2966 6876 3.141488 CCTGACTACGGGCGCTCT 61.141 66.667 5.36 0.00 35.63 4.09
3038 6949 4.404394 TCCGAGGACTAAAGCAATCACATA 59.596 41.667 0.00 0.00 0.00 2.29
3039 6950 3.197766 TCCGAGGACTAAAGCAATCACAT 59.802 43.478 0.00 0.00 0.00 3.21
3051 6962 1.509703 CATCGATCGTCCGAGGACTA 58.490 55.000 15.94 9.63 42.14 2.59
3052 6963 1.167155 CCATCGATCGTCCGAGGACT 61.167 60.000 15.94 2.34 42.14 3.85
3062 6973 4.715520 AATTCGAAATCACCATCGATCG 57.284 40.909 9.36 9.36 46.28 3.69
3080 6993 9.914834 TGGCTATACCACTTGTTAGAATAAATT 57.085 29.630 0.00 0.00 46.36 1.82
3105 7022 1.063806 CGACCTCTGCGAAGAACTTG 58.936 55.000 0.00 0.00 0.00 3.16
3107 7024 1.080434 GCGACCTCTGCGAAGAACT 60.080 57.895 0.00 0.00 0.00 3.01
3116 7033 2.672961 TCAATAACCAGCGACCTCTG 57.327 50.000 0.00 0.00 0.00 3.35
3196 7129 3.735208 GCTTGACTTCTTCCGATCGATCA 60.735 47.826 24.40 3.68 0.00 2.92


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

AutoCloner maintained by Alex Coulton.