Multiple sequence alignment - TraesCS1B01G399300

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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 TraesCS1B01G399300 chr1B 100.000 2555 0 0 1 2555 630522637 630520083 0.000000e+00 4719.0
1 TraesCS1B01G399300 chr1B 88.546 227 15 7 1 219 630561584 630561361 5.420000e-67 265.0
2 TraesCS1B01G399300 chr1B 100.000 41 0 0 2243 2283 648704499 648704539 2.730000e-10 76.8
3 TraesCS1B01G399300 chr1D 92.349 2261 108 30 1 2242 458786338 458784124 0.000000e+00 3157.0
4 TraesCS1B01G399300 chr1D 94.574 129 7 0 2427 2555 458784132 458784004 1.550000e-47 200.0
5 TraesCS1B01G399300 chr1A 89.798 1637 87 36 294 1883 551214519 551212916 0.000000e+00 2025.0
6 TraesCS1B01G399300 chr1A 93.884 327 13 3 1920 2242 551212774 551212451 1.060000e-133 486.0
7 TraesCS1B01G399300 chr1A 91.089 202 10 3 1 194 551214721 551214520 1.510000e-67 267.0
8 TraesCS1B01G399300 chr1A 93.798 129 8 0 2427 2555 551212459 551212331 7.210000e-46 195.0
9 TraesCS1B01G399300 chr1A 88.372 129 9 3 2242 2370 48724894 48724772 1.580000e-32 150.0
10 TraesCS1B01G399300 chr2B 93.011 186 12 1 2242 2427 613234960 613235144 1.170000e-68 270.0
11 TraesCS1B01G399300 chr2B 91.758 182 10 2 2243 2424 772822655 772822831 5.460000e-62 248.0
12 TraesCS1B01G399300 chr3B 87.654 162 19 1 2271 2432 75969457 75969297 1.210000e-43 187.0


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 TraesCS1B01G399300 chr1B 630520083 630522637 2554 True 4719.00 4719 100.00000 1 2555 1 chr1B.!!$R1 2554
1 TraesCS1B01G399300 chr1D 458784004 458786338 2334 True 1678.50 3157 93.46150 1 2555 2 chr1D.!!$R1 2554
2 TraesCS1B01G399300 chr1A 551212331 551214721 2390 True 743.25 2025 92.14225 1 2555 4 chr1A.!!$R2 2554

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
314 328 0.384309 CGCTGACGCCCTTAGATGTA 59.616 55.0 0.0 0.0 0.0 2.29 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2151 2332 0.459585 CATGGCAGTTCCTTGCATGC 60.46 55.0 11.82 11.82 45.86 4.06 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
97 105 7.285401 TGACTAAAGAAGAAAACAAGGCAAGAT 59.715 33.333 0.00 0.00 0.00 2.40
194 204 5.290335 TGAGACCAACCCACCCTAATAATA 58.710 41.667 0.00 0.00 0.00 0.98
195 205 5.732170 TGAGACCAACCCACCCTAATAATAA 59.268 40.000 0.00 0.00 0.00 1.40
196 206 6.391649 TGAGACCAACCCACCCTAATAATAAT 59.608 38.462 0.00 0.00 0.00 1.28
197 207 6.849151 AGACCAACCCACCCTAATAATAATC 58.151 40.000 0.00 0.00 0.00 1.75
198 208 6.624021 AGACCAACCCACCCTAATAATAATCT 59.376 38.462 0.00 0.00 0.00 2.40
199 209 6.610830 ACCAACCCACCCTAATAATAATCTG 58.389 40.000 0.00 0.00 0.00 2.90
314 328 0.384309 CGCTGACGCCCTTAGATGTA 59.616 55.000 0.00 0.00 0.00 2.29
373 388 4.603131 AGAGTCATACAAAACCCATGCAT 58.397 39.130 0.00 0.00 0.00 3.96
388 403 0.751277 TGCATGCACCGGATTTAGGG 60.751 55.000 18.46 0.00 0.00 3.53
396 411 3.139077 CACCGGATTTAGGGAATACAGC 58.861 50.000 9.46 0.00 0.00 4.40
430 445 3.149196 GCTGTTGGGTCTGAATCTGAAA 58.851 45.455 0.00 0.00 0.00 2.69
431 446 3.190118 GCTGTTGGGTCTGAATCTGAAAG 59.810 47.826 0.00 0.00 0.00 2.62
432 447 4.392940 CTGTTGGGTCTGAATCTGAAAGT 58.607 43.478 0.00 0.00 33.76 2.66
486 502 2.112815 GCGCCCACGGATAAAAGCT 61.113 57.895 0.00 0.00 40.57 3.74
528 548 2.014857 GGGGCGAGACCATTTTTCTAC 58.985 52.381 0.00 0.00 42.05 2.59
533 553 3.621715 GCGAGACCATTTTTCTACCGAAT 59.378 43.478 0.00 0.00 0.00 3.34
601 636 4.408821 GGGCAGATCACCACCGCA 62.409 66.667 7.07 0.00 0.00 5.69
602 637 3.127533 GGCAGATCACCACCGCAC 61.128 66.667 0.00 0.00 0.00 5.34
771 810 4.625781 CGACCCGCGGTAGCTAGC 62.626 72.222 26.12 13.03 42.32 3.42
772 811 3.217743 GACCCGCGGTAGCTAGCT 61.218 66.667 26.12 23.12 42.32 3.32
773 812 1.895707 GACCCGCGGTAGCTAGCTA 60.896 63.158 26.12 20.67 42.32 3.32
825 864 3.353836 CCGAACCAACCACCGCAG 61.354 66.667 0.00 0.00 0.00 5.18
919 962 0.526524 CTTGTCTTAGCTCGGCCTCG 60.527 60.000 0.00 0.00 37.82 4.63
932 977 2.258726 GCCTCGTTCCGTTTGGCTT 61.259 57.895 0.00 0.00 36.56 4.35
973 1033 1.218316 GCGACGGTTCTTGGAGGAT 59.782 57.895 0.00 0.00 0.00 3.24
1219 1280 2.362503 ACCTCGAGATGGGCGTCA 60.363 61.111 15.71 0.00 0.00 4.35
1254 1315 2.436469 ATGAAGCGCATCGGCACA 60.436 55.556 11.47 0.00 41.24 4.57
1389 1456 2.359850 GCCATCACCTTCGTGCCA 60.360 61.111 0.00 0.00 40.04 4.92
1563 1631 3.865164 TGTGCAGACGCTGAAATATACTG 59.135 43.478 10.46 0.00 39.64 2.74
1644 1712 5.256474 ACAGAAGTTGGAAAGGATGTATGG 58.744 41.667 0.00 0.00 0.00 2.74
1646 1714 4.540099 AGAAGTTGGAAAGGATGTATGGGA 59.460 41.667 0.00 0.00 0.00 4.37
1721 1791 5.419155 ACGTATACATATGGATCAGGTCAGG 59.581 44.000 2.89 0.00 0.00 3.86
1722 1792 4.833478 ATACATATGGATCAGGTCAGGC 57.167 45.455 7.80 0.00 0.00 4.85
1743 1813 4.060205 GCTTGCCATTTGTTTGTTCATCT 58.940 39.130 0.00 0.00 0.00 2.90
1746 1816 5.125100 TGCCATTTGTTTGTTCATCTCTC 57.875 39.130 0.00 0.00 0.00 3.20
1747 1817 4.583907 TGCCATTTGTTTGTTCATCTCTCA 59.416 37.500 0.00 0.00 0.00 3.27
1749 1819 5.575606 GCCATTTGTTTGTTCATCTCTCATG 59.424 40.000 0.00 0.00 0.00 3.07
1759 1829 5.645067 TGTTCATCTCTCATGCCTACAAAAG 59.355 40.000 0.00 0.00 0.00 2.27
1761 1831 2.621338 TCTCTCATGCCTACAAAAGCG 58.379 47.619 0.00 0.00 0.00 4.68
1763 1833 2.744202 CTCTCATGCCTACAAAAGCGTT 59.256 45.455 0.00 0.00 0.00 4.84
1764 1834 2.742053 TCTCATGCCTACAAAAGCGTTC 59.258 45.455 0.00 0.00 0.00 3.95
1772 1842 6.508777 TGCCTACAAAAGCGTTCTAAAATTT 58.491 32.000 0.00 0.00 0.00 1.82
1780 1850 8.334632 CAAAAGCGTTCTAAAATTTGAAATGGT 58.665 29.630 0.00 0.00 31.23 3.55
1799 1869 2.305927 GGTGAACATCTCCTGGGAAAGA 59.694 50.000 0.00 0.00 0.00 2.52
1806 1876 1.985895 TCTCCTGGGAAAGAGGGAAAC 59.014 52.381 0.00 0.00 0.00 2.78
2020 2198 5.677612 CACGTTTTAGAATGTTTTGTACGCA 59.322 36.000 0.00 0.00 32.75 5.24
2041 2220 5.864474 CGCAAAGATACTAGGTCATATCACC 59.136 44.000 0.00 0.00 36.58 4.02
2136 2317 9.554724 GATTTGCGAGTCATTTGTATTAAGAAA 57.445 29.630 0.00 0.00 0.00 2.52
2153 2334 7.962964 TTAAGAAAAAGAAGATTCGAGAGCA 57.037 32.000 0.00 0.00 0.00 4.26
2155 2336 6.419980 AGAAAAAGAAGATTCGAGAGCATG 57.580 37.500 0.00 0.00 0.00 4.06
2256 2439 8.687824 AATTTTGTTTGCAATAATCCTAGACG 57.312 30.769 0.00 0.00 34.18 4.18
2257 2440 4.875544 TGTTTGCAATAATCCTAGACGC 57.124 40.909 0.00 0.00 0.00 5.19
2258 2441 4.257731 TGTTTGCAATAATCCTAGACGCA 58.742 39.130 0.00 0.00 0.00 5.24
2259 2442 4.094294 TGTTTGCAATAATCCTAGACGCAC 59.906 41.667 0.00 0.00 0.00 5.34
2260 2443 2.469826 TGCAATAATCCTAGACGCACG 58.530 47.619 0.00 0.00 0.00 5.34
2261 2444 1.792949 GCAATAATCCTAGACGCACGG 59.207 52.381 0.00 0.00 0.00 4.94
2262 2445 2.545113 GCAATAATCCTAGACGCACGGA 60.545 50.000 0.00 0.00 0.00 4.69
2263 2446 3.861131 GCAATAATCCTAGACGCACGGAT 60.861 47.826 0.00 0.00 39.15 4.18
2264 2447 4.307432 CAATAATCCTAGACGCACGGATT 58.693 43.478 11.82 11.82 46.31 3.01
2267 2450 4.602340 AATCCTAGACGCACGGATTATT 57.398 40.909 6.98 0.00 43.69 1.40
2268 2451 5.717078 AATCCTAGACGCACGGATTATTA 57.283 39.130 6.98 0.00 43.69 0.98
2269 2452 4.494350 TCCTAGACGCACGGATTATTAC 57.506 45.455 0.00 0.00 0.00 1.89
2270 2453 3.058708 TCCTAGACGCACGGATTATTACG 60.059 47.826 0.00 0.00 0.00 3.18
2271 2454 2.129823 AGACGCACGGATTATTACGG 57.870 50.000 0.00 0.00 0.00 4.02
2272 2455 1.677576 AGACGCACGGATTATTACGGA 59.322 47.619 0.00 0.00 0.00 4.69
2273 2456 2.049228 GACGCACGGATTATTACGGAG 58.951 52.381 0.00 0.00 0.00 4.63
2274 2457 0.782384 CGCACGGATTATTACGGAGC 59.218 55.000 0.00 0.00 33.81 4.70
2275 2458 1.602165 CGCACGGATTATTACGGAGCT 60.602 52.381 0.00 0.00 34.58 4.09
2276 2459 1.792949 GCACGGATTATTACGGAGCTG 59.207 52.381 0.00 0.00 34.16 4.24
2277 2460 2.802057 GCACGGATTATTACGGAGCTGT 60.802 50.000 0.00 0.00 34.16 4.40
2278 2461 3.454375 CACGGATTATTACGGAGCTGTT 58.546 45.455 0.00 0.00 0.00 3.16
2279 2462 4.613944 CACGGATTATTACGGAGCTGTTA 58.386 43.478 0.00 0.00 0.00 2.41
2280 2463 4.443394 CACGGATTATTACGGAGCTGTTAC 59.557 45.833 0.00 0.00 0.00 2.50
2281 2464 3.667261 CGGATTATTACGGAGCTGTTACG 59.333 47.826 0.00 0.00 0.00 3.18
2282 2465 3.985925 GGATTATTACGGAGCTGTTACGG 59.014 47.826 0.22 0.00 0.00 4.02
2283 2466 4.261741 GGATTATTACGGAGCTGTTACGGA 60.262 45.833 0.22 0.00 0.00 4.69
2284 2467 2.865343 ATTACGGAGCTGTTACGGAG 57.135 50.000 0.22 0.00 0.00 4.63
2286 2469 1.538047 TACGGAGCTGTTACGGAGTT 58.462 50.000 0.22 0.00 37.78 3.01
2287 2470 0.677842 ACGGAGCTGTTACGGAGTTT 59.322 50.000 0.22 0.00 37.78 2.66
2288 2471 1.069668 ACGGAGCTGTTACGGAGTTTT 59.930 47.619 0.22 0.00 37.78 2.43
2289 2472 1.725164 CGGAGCTGTTACGGAGTTTTC 59.275 52.381 0.00 0.00 37.78 2.29
2290 2473 2.609737 CGGAGCTGTTACGGAGTTTTCT 60.610 50.000 0.00 0.00 37.78 2.52
2291 2474 2.994578 GGAGCTGTTACGGAGTTTTCTC 59.005 50.000 0.00 0.00 37.78 2.87
2292 2475 3.306156 GGAGCTGTTACGGAGTTTTCTCT 60.306 47.826 0.00 0.00 37.78 3.10
2293 2476 3.915536 AGCTGTTACGGAGTTTTCTCTC 58.084 45.455 0.00 0.00 37.78 3.20
2294 2477 3.574826 AGCTGTTACGGAGTTTTCTCTCT 59.425 43.478 0.00 0.00 37.78 3.10
2295 2478 4.765856 AGCTGTTACGGAGTTTTCTCTCTA 59.234 41.667 0.00 0.00 37.78 2.43
2296 2479 5.243283 AGCTGTTACGGAGTTTTCTCTCTAA 59.757 40.000 0.00 0.00 37.78 2.10
2297 2480 5.345472 GCTGTTACGGAGTTTTCTCTCTAAC 59.655 44.000 0.00 0.00 37.78 2.34
2298 2481 6.645790 TGTTACGGAGTTTTCTCTCTAACT 57.354 37.500 0.00 0.00 37.78 2.24
2299 2482 7.574592 GCTGTTACGGAGTTTTCTCTCTAACTA 60.575 40.741 0.00 0.00 37.78 2.24
2300 2483 8.169977 TGTTACGGAGTTTTCTCTCTAACTAA 57.830 34.615 0.00 0.00 37.78 2.24
2301 2484 8.800332 TGTTACGGAGTTTTCTCTCTAACTAAT 58.200 33.333 0.00 0.00 37.78 1.73
2302 2485 9.288124 GTTACGGAGTTTTCTCTCTAACTAATC 57.712 37.037 0.00 0.00 37.78 1.75
2303 2486 7.706100 ACGGAGTTTTCTCTCTAACTAATCT 57.294 36.000 0.00 0.00 37.78 2.40
2304 2487 8.804912 ACGGAGTTTTCTCTCTAACTAATCTA 57.195 34.615 0.00 0.00 37.78 1.98
2305 2488 9.411189 ACGGAGTTTTCTCTCTAACTAATCTAT 57.589 33.333 0.00 0.00 37.78 1.98
2306 2489 9.887406 CGGAGTTTTCTCTCTAACTAATCTATC 57.113 37.037 0.00 0.00 45.52 2.08
2311 2494 8.943594 TTTCTCTCTAACTAATCTATCTCCCC 57.056 38.462 0.00 0.00 0.00 4.81
2312 2495 7.034967 TCTCTCTAACTAATCTATCTCCCCC 57.965 44.000 0.00 0.00 0.00 5.40
2327 2510 3.379617 CCCCCTTGATTTTCAGGCA 57.620 52.632 0.00 0.00 0.00 4.75
2328 2511 1.188863 CCCCCTTGATTTTCAGGCAG 58.811 55.000 0.00 0.00 0.00 4.85
2329 2512 1.188863 CCCCTTGATTTTCAGGCAGG 58.811 55.000 0.00 0.00 0.00 4.85
2330 2513 1.188863 CCCTTGATTTTCAGGCAGGG 58.811 55.000 0.00 0.00 36.16 4.45
2331 2514 1.550869 CCCTTGATTTTCAGGCAGGGT 60.551 52.381 5.07 0.00 37.31 4.34
2332 2515 1.547372 CCTTGATTTTCAGGCAGGGTG 59.453 52.381 0.00 0.00 0.00 4.61
2333 2516 1.547372 CTTGATTTTCAGGCAGGGTGG 59.453 52.381 0.00 0.00 0.00 4.61
2334 2517 0.251742 TGATTTTCAGGCAGGGTGGG 60.252 55.000 0.00 0.00 0.00 4.61
2335 2518 0.972471 GATTTTCAGGCAGGGTGGGG 60.972 60.000 0.00 0.00 0.00 4.96
2336 2519 3.826265 TTTTCAGGCAGGGTGGGGC 62.826 63.158 0.00 0.00 0.00 5.80
2347 2530 3.493303 GTGGGGCCCATCCTCCTC 61.493 72.222 31.48 10.32 35.28 3.71
2348 2531 3.710631 TGGGGCCCATCCTCCTCT 61.711 66.667 24.76 0.00 32.90 3.69
2349 2532 2.851588 GGGGCCCATCCTCCTCTC 60.852 72.222 26.86 0.00 34.39 3.20
2350 2533 2.288643 GGGCCCATCCTCCTCTCT 59.711 66.667 19.95 0.00 34.39 3.10
2351 2534 1.841103 GGGCCCATCCTCCTCTCTC 60.841 68.421 19.95 0.00 34.39 3.20
2352 2535 1.841103 GGCCCATCCTCCTCTCTCC 60.841 68.421 0.00 0.00 0.00 3.71
2353 2536 1.235696 GCCCATCCTCCTCTCTCCT 59.764 63.158 0.00 0.00 0.00 3.69
2354 2537 0.831711 GCCCATCCTCCTCTCTCCTC 60.832 65.000 0.00 0.00 0.00 3.71
2355 2538 0.178935 CCCATCCTCCTCTCTCCTCC 60.179 65.000 0.00 0.00 0.00 4.30
2356 2539 0.560193 CCATCCTCCTCTCTCCTCCA 59.440 60.000 0.00 0.00 0.00 3.86
2357 2540 1.062581 CCATCCTCCTCTCTCCTCCAA 60.063 57.143 0.00 0.00 0.00 3.53
2358 2541 2.427593 CCATCCTCCTCTCTCCTCCAAT 60.428 54.545 0.00 0.00 0.00 3.16
2359 2542 2.765689 TCCTCCTCTCTCCTCCAATC 57.234 55.000 0.00 0.00 0.00 2.67
2360 2543 2.222271 TCCTCCTCTCTCCTCCAATCT 58.778 52.381 0.00 0.00 0.00 2.40
2361 2544 2.176798 TCCTCCTCTCTCCTCCAATCTC 59.823 54.545 0.00 0.00 0.00 2.75
2362 2545 2.091389 CCTCCTCTCTCCTCCAATCTCA 60.091 54.545 0.00 0.00 0.00 3.27
2363 2546 3.629539 CCTCCTCTCTCCTCCAATCTCAA 60.630 52.174 0.00 0.00 0.00 3.02
2364 2547 3.370104 TCCTCTCTCCTCCAATCTCAAC 58.630 50.000 0.00 0.00 0.00 3.18
2365 2548 2.433970 CCTCTCTCCTCCAATCTCAACC 59.566 54.545 0.00 0.00 0.00 3.77
2366 2549 3.373830 CTCTCTCCTCCAATCTCAACCT 58.626 50.000 0.00 0.00 0.00 3.50
2367 2550 3.370104 TCTCTCCTCCAATCTCAACCTC 58.630 50.000 0.00 0.00 0.00 3.85
2368 2551 2.433970 CTCTCCTCCAATCTCAACCTCC 59.566 54.545 0.00 0.00 0.00 4.30
2369 2552 1.488393 CTCCTCCAATCTCAACCTCCC 59.512 57.143 0.00 0.00 0.00 4.30
2370 2553 1.203428 TCCTCCAATCTCAACCTCCCA 60.203 52.381 0.00 0.00 0.00 4.37
2371 2554 1.065126 CCTCCAATCTCAACCTCCCAC 60.065 57.143 0.00 0.00 0.00 4.61
2372 2555 1.630369 CTCCAATCTCAACCTCCCACA 59.370 52.381 0.00 0.00 0.00 4.17
2373 2556 2.240667 CTCCAATCTCAACCTCCCACAT 59.759 50.000 0.00 0.00 0.00 3.21
2374 2557 2.649312 TCCAATCTCAACCTCCCACATT 59.351 45.455 0.00 0.00 0.00 2.71
2375 2558 3.075882 TCCAATCTCAACCTCCCACATTT 59.924 43.478 0.00 0.00 0.00 2.32
2376 2559 3.194116 CCAATCTCAACCTCCCACATTTG 59.806 47.826 0.00 0.00 0.00 2.32
2377 2560 1.909700 TCTCAACCTCCCACATTTGC 58.090 50.000 0.00 0.00 0.00 3.68
2378 2561 1.425066 TCTCAACCTCCCACATTTGCT 59.575 47.619 0.00 0.00 0.00 3.91
2379 2562 2.642311 TCTCAACCTCCCACATTTGCTA 59.358 45.455 0.00 0.00 0.00 3.49
2380 2563 3.266772 TCTCAACCTCCCACATTTGCTAT 59.733 43.478 0.00 0.00 0.00 2.97
2381 2564 4.019174 CTCAACCTCCCACATTTGCTATT 58.981 43.478 0.00 0.00 0.00 1.73
2382 2565 4.016444 TCAACCTCCCACATTTGCTATTC 58.984 43.478 0.00 0.00 0.00 1.75
2383 2566 3.018423 ACCTCCCACATTTGCTATTCC 57.982 47.619 0.00 0.00 0.00 3.01
2384 2567 1.949525 CCTCCCACATTTGCTATTCCG 59.050 52.381 0.00 0.00 0.00 4.30
2385 2568 2.643551 CTCCCACATTTGCTATTCCGT 58.356 47.619 0.00 0.00 0.00 4.69
2386 2569 2.355756 CTCCCACATTTGCTATTCCGTG 59.644 50.000 0.00 0.00 0.00 4.94
2387 2570 2.026729 TCCCACATTTGCTATTCCGTGA 60.027 45.455 0.00 0.00 0.00 4.35
2388 2571 2.752354 CCCACATTTGCTATTCCGTGAA 59.248 45.455 0.00 0.00 0.00 3.18
2389 2572 3.381272 CCCACATTTGCTATTCCGTGAAT 59.619 43.478 4.82 4.82 36.20 2.57
2390 2573 4.498009 CCCACATTTGCTATTCCGTGAATC 60.498 45.833 2.88 0.00 33.95 2.52
2391 2574 4.498009 CCACATTTGCTATTCCGTGAATCC 60.498 45.833 2.88 0.00 33.95 3.01
2392 2575 3.632145 ACATTTGCTATTCCGTGAATCCC 59.368 43.478 2.88 0.00 33.95 3.85
2393 2576 1.948104 TTGCTATTCCGTGAATCCCG 58.052 50.000 2.88 0.00 33.95 5.14
2394 2577 0.828022 TGCTATTCCGTGAATCCCGT 59.172 50.000 2.88 0.00 33.95 5.28
2395 2578 2.033372 TGCTATTCCGTGAATCCCGTA 58.967 47.619 2.88 0.00 33.95 4.02
2396 2579 2.431419 TGCTATTCCGTGAATCCCGTAA 59.569 45.455 2.88 0.00 33.95 3.18
2397 2580 3.070446 TGCTATTCCGTGAATCCCGTAAT 59.930 43.478 2.88 0.00 33.95 1.89
2398 2581 3.678548 GCTATTCCGTGAATCCCGTAATC 59.321 47.826 2.88 0.00 33.95 1.75
2399 2582 2.607631 TTCCGTGAATCCCGTAATCC 57.392 50.000 0.00 0.00 0.00 3.01
2400 2583 1.784358 TCCGTGAATCCCGTAATCCT 58.216 50.000 0.00 0.00 0.00 3.24
2401 2584 2.112998 TCCGTGAATCCCGTAATCCTT 58.887 47.619 0.00 0.00 0.00 3.36
2402 2585 2.101917 TCCGTGAATCCCGTAATCCTTC 59.898 50.000 0.00 0.00 0.00 3.46
2403 2586 2.102588 CCGTGAATCCCGTAATCCTTCT 59.897 50.000 0.00 0.00 0.00 2.85
2404 2587 3.381949 CGTGAATCCCGTAATCCTTCTC 58.618 50.000 0.00 0.00 0.00 2.87
2405 2588 3.068307 CGTGAATCCCGTAATCCTTCTCT 59.932 47.826 0.00 0.00 0.00 3.10
2406 2589 4.623002 GTGAATCCCGTAATCCTTCTCTC 58.377 47.826 0.00 0.00 0.00 3.20
2407 2590 3.641906 TGAATCCCGTAATCCTTCTCTCC 59.358 47.826 0.00 0.00 0.00 3.71
2408 2591 1.688772 TCCCGTAATCCTTCTCTCCG 58.311 55.000 0.00 0.00 0.00 4.63
2409 2592 1.064166 TCCCGTAATCCTTCTCTCCGT 60.064 52.381 0.00 0.00 0.00 4.69
2410 2593 1.067212 CCCGTAATCCTTCTCTCCGTG 59.933 57.143 0.00 0.00 0.00 4.94
2411 2594 2.022195 CCGTAATCCTTCTCTCCGTGA 58.978 52.381 0.00 0.00 0.00 4.35
2412 2595 2.426024 CCGTAATCCTTCTCTCCGTGAA 59.574 50.000 0.00 0.00 0.00 3.18
2413 2596 3.068307 CCGTAATCCTTCTCTCCGTGAAT 59.932 47.826 0.00 0.00 0.00 2.57
2414 2597 4.291783 CGTAATCCTTCTCTCCGTGAATC 58.708 47.826 0.00 0.00 0.00 2.52
2415 2598 4.036971 CGTAATCCTTCTCTCCGTGAATCT 59.963 45.833 0.00 0.00 0.00 2.40
2416 2599 5.238868 CGTAATCCTTCTCTCCGTGAATCTA 59.761 44.000 0.00 0.00 0.00 1.98
2417 2600 6.238676 CGTAATCCTTCTCTCCGTGAATCTAA 60.239 42.308 0.00 0.00 0.00 2.10
2418 2601 4.985538 TCCTTCTCTCCGTGAATCTAAC 57.014 45.455 0.00 0.00 0.00 2.34
2419 2602 4.341487 TCCTTCTCTCCGTGAATCTAACA 58.659 43.478 0.00 0.00 0.00 2.41
2420 2603 4.956700 TCCTTCTCTCCGTGAATCTAACAT 59.043 41.667 0.00 0.00 0.00 2.71
2421 2604 5.422331 TCCTTCTCTCCGTGAATCTAACATT 59.578 40.000 0.00 0.00 0.00 2.71
2422 2605 5.521735 CCTTCTCTCCGTGAATCTAACATTG 59.478 44.000 0.00 0.00 0.00 2.82
2423 2606 4.433615 TCTCTCCGTGAATCTAACATTGC 58.566 43.478 0.00 0.00 0.00 3.56
2424 2607 3.531538 TCTCCGTGAATCTAACATTGCC 58.468 45.455 0.00 0.00 0.00 4.52
2425 2608 2.276201 TCCGTGAATCTAACATTGCCG 58.724 47.619 0.00 0.00 0.00 5.69
2426 2609 2.006888 CCGTGAATCTAACATTGCCGT 58.993 47.619 0.00 0.00 0.00 5.68
2427 2610 2.418628 CCGTGAATCTAACATTGCCGTT 59.581 45.455 0.00 0.00 0.00 4.44
2428 2611 3.119990 CCGTGAATCTAACATTGCCGTTT 60.120 43.478 0.00 0.00 0.00 3.60
2429 2612 4.472286 CGTGAATCTAACATTGCCGTTTT 58.528 39.130 0.00 0.00 0.00 2.43
2430 2613 4.320690 CGTGAATCTAACATTGCCGTTTTG 59.679 41.667 0.00 0.00 0.00 2.44
2431 2614 5.219633 GTGAATCTAACATTGCCGTTTTGT 58.780 37.500 0.00 0.00 0.00 2.83
2432 2615 5.689961 GTGAATCTAACATTGCCGTTTTGTT 59.310 36.000 0.00 0.00 37.37 2.83
2433 2616 6.200097 GTGAATCTAACATTGCCGTTTTGTTT 59.800 34.615 0.00 0.00 35.37 2.83
2434 2617 6.199908 TGAATCTAACATTGCCGTTTTGTTTG 59.800 34.615 0.00 0.00 35.37 2.93
2455 2638 3.181445 TGTGGTCATCTAAAAGCACACCT 60.181 43.478 3.50 0.00 45.84 4.00
2486 2669 6.913873 TTTTATTTCTGCCACGTAGGATAC 57.086 37.500 8.04 0.00 41.22 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 9.357652 CAAGATATTGTATGTCTTTTTGTTGGG 57.642 33.333 0.00 0.00 38.46 4.12
174 184 6.715264 CAGATTATTATTAGGGTGGGTTGGTC 59.285 42.308 0.00 0.00 0.00 4.02
194 204 6.916360 TTGTTTAGGCAAATCCTTCAGATT 57.084 33.333 0.00 0.00 44.75 2.40
195 205 6.916360 TTTGTTTAGGCAAATCCTTCAGAT 57.084 33.333 0.00 0.00 44.75 2.90
196 206 6.916360 ATTTGTTTAGGCAAATCCTTCAGA 57.084 33.333 0.00 0.00 44.75 3.27
197 207 6.747280 CGTATTTGTTTAGGCAAATCCTTCAG 59.253 38.462 7.22 0.00 44.75 3.02
198 208 6.207810 ACGTATTTGTTTAGGCAAATCCTTCA 59.792 34.615 7.22 0.00 44.75 3.02
199 209 6.617879 ACGTATTTGTTTAGGCAAATCCTTC 58.382 36.000 7.22 0.00 44.75 3.46
208 218 6.484818 TTGGAAGTACGTATTTGTTTAGGC 57.515 37.500 8.17 0.00 0.00 3.93
314 328 7.151308 TCACATTCTTTTTGTTGTCTTTGTGT 58.849 30.769 0.00 0.00 34.07 3.72
373 388 2.506231 TGTATTCCCTAAATCCGGTGCA 59.494 45.455 0.00 0.00 0.00 4.57
388 403 2.421424 CCAAGACCTGCAAGCTGTATTC 59.579 50.000 0.00 0.00 0.00 1.75
396 411 0.313043 CAACAGCCAAGACCTGCAAG 59.687 55.000 0.00 0.00 33.65 4.01
430 445 4.331968 TGTCAACAACACCTTTTCTGACT 58.668 39.130 0.00 0.00 34.26 3.41
431 446 4.695217 TGTCAACAACACCTTTTCTGAC 57.305 40.909 0.00 0.00 31.20 3.51
515 531 6.480981 TCGGAATATTCGGTAGAAAAATGGTC 59.519 38.462 19.10 0.00 40.15 4.02
528 548 0.250166 GGGTGGGTCGGAATATTCGG 60.250 60.000 15.05 15.05 0.00 4.30
533 553 2.372074 GGCTGGGTGGGTCGGAATA 61.372 63.158 0.00 0.00 0.00 1.75
584 619 4.408821 TGCGGTGGTGATCTGCCC 62.409 66.667 0.00 0.00 36.47 5.36
585 620 3.127533 GTGCGGTGGTGATCTGCC 61.128 66.667 0.00 0.00 36.47 4.85
615 650 4.746309 ATGGGGTCGGGTCGTCGA 62.746 66.667 0.00 0.00 36.76 4.20
770 809 1.012486 ACGCCGCGGCTTTATATAGC 61.012 55.000 43.60 17.10 40.48 2.97
771 810 0.989890 GACGCCGCGGCTTTATATAG 59.010 55.000 43.60 28.89 39.32 1.31
772 811 0.314618 TGACGCCGCGGCTTTATATA 59.685 50.000 43.60 21.75 35.04 0.86
773 812 1.068417 TGACGCCGCGGCTTTATAT 59.932 52.632 43.60 23.61 35.04 0.86
825 864 3.400599 AACGGCCGGGATGGATGTC 62.401 63.158 31.76 0.00 42.00 3.06
919 962 0.660300 CGCAAGAAGCCAAACGGAAC 60.660 55.000 0.00 0.00 41.38 3.62
925 970 0.248990 CTGTTGCGCAAGAAGCCAAA 60.249 50.000 25.78 0.00 41.38 3.28
932 977 1.944035 CAGAAGCTGTTGCGCAAGA 59.056 52.632 25.78 22.51 45.42 3.02
1219 1280 0.694444 ATGGGGAAGGTGGCGTAGAT 60.694 55.000 0.00 0.00 0.00 1.98
1455 1522 1.467556 GCTTGAGCACGTCGATCTCG 61.468 60.000 0.00 5.80 41.59 4.04
1563 1631 4.961435 AGAAGAAAAATGAGCTGCTAGC 57.039 40.909 8.10 8.10 42.84 3.42
1639 1707 6.154363 TCAATTCCTTGGTTTTCATCCCATAC 59.846 38.462 0.00 0.00 32.95 2.39
1644 1712 6.466812 ACAATCAATTCCTTGGTTTTCATCC 58.533 36.000 2.52 0.00 33.34 3.51
1646 1714 7.961351 TGTACAATCAATTCCTTGGTTTTCAT 58.039 30.769 0.00 0.00 33.34 2.57
1721 1791 4.060205 AGATGAACAAACAAATGGCAAGC 58.940 39.130 0.00 0.00 0.00 4.01
1722 1792 5.535333 AGAGATGAACAAACAAATGGCAAG 58.465 37.500 0.00 0.00 0.00 4.01
1743 1813 2.472695 ACGCTTTTGTAGGCATGAGA 57.527 45.000 0.00 0.00 0.00 3.27
1746 1816 4.678509 TTAGAACGCTTTTGTAGGCATG 57.321 40.909 0.00 0.00 0.00 4.06
1747 1817 5.699097 TTTTAGAACGCTTTTGTAGGCAT 57.301 34.783 0.00 0.00 0.00 4.40
1749 1819 6.639279 TCAAATTTTAGAACGCTTTTGTAGGC 59.361 34.615 0.00 0.00 0.00 3.93
1759 1829 7.043059 TGTTCACCATTTCAAATTTTAGAACGC 60.043 33.333 0.00 0.00 35.63 4.84
1763 1833 9.912634 GAGATGTTCACCATTTCAAATTTTAGA 57.087 29.630 0.00 0.00 35.32 2.10
1764 1834 9.143631 GGAGATGTTCACCATTTCAAATTTTAG 57.856 33.333 0.00 0.00 36.60 1.85
1772 1842 3.561960 CCCAGGAGATGTTCACCATTTCA 60.562 47.826 0.00 0.00 36.60 2.69
1780 1850 2.573462 CCTCTTTCCCAGGAGATGTTCA 59.427 50.000 0.00 0.00 31.91 3.18
1980 2158 1.948145 ACGTGTACGGCCAAAATTTCA 59.052 42.857 2.24 0.00 44.95 2.69
2020 2198 7.785028 TGTCTGGTGATATGACCTAGTATCTTT 59.215 37.037 12.86 0.00 36.88 2.52
2076 2257 6.698359 TCTTGAAAACAAAAGGTTGAAACG 57.302 33.333 0.00 0.00 40.35 3.60
2136 2317 3.603532 TGCATGCTCTCGAATCTTCTTT 58.396 40.909 20.33 0.00 0.00 2.52
2151 2332 0.459585 CATGGCAGTTCCTTGCATGC 60.460 55.000 11.82 11.82 45.86 4.06
2153 2334 1.610554 GCCATGGCAGTTCCTTGCAT 61.611 55.000 32.08 0.00 45.86 3.96
2155 2336 2.575461 GCCATGGCAGTTCCTTGC 59.425 61.111 32.08 0.00 43.34 4.01
2242 2425 3.364889 TCCGTGCGTCTAGGATTATTG 57.635 47.619 0.00 0.00 0.00 1.90
2247 2430 4.379186 CGTAATAATCCGTGCGTCTAGGAT 60.379 45.833 0.00 0.00 45.88 3.24
2248 2431 3.058708 CGTAATAATCCGTGCGTCTAGGA 60.059 47.826 0.00 0.00 38.56 2.94
2249 2432 3.231965 CGTAATAATCCGTGCGTCTAGG 58.768 50.000 0.00 0.00 0.00 3.02
2250 2433 3.058708 TCCGTAATAATCCGTGCGTCTAG 60.059 47.826 0.00 0.00 0.00 2.43
2251 2434 2.877786 TCCGTAATAATCCGTGCGTCTA 59.122 45.455 0.00 0.00 0.00 2.59
2252 2435 1.677576 TCCGTAATAATCCGTGCGTCT 59.322 47.619 0.00 0.00 0.00 4.18
2253 2436 2.049228 CTCCGTAATAATCCGTGCGTC 58.951 52.381 0.00 0.00 0.00 5.19
2254 2437 1.866880 GCTCCGTAATAATCCGTGCGT 60.867 52.381 0.00 0.00 0.00 5.24
2255 2438 0.782384 GCTCCGTAATAATCCGTGCG 59.218 55.000 0.00 0.00 0.00 5.34
2256 2439 1.792949 CAGCTCCGTAATAATCCGTGC 59.207 52.381 0.00 0.00 0.00 5.34
2257 2440 3.093717 ACAGCTCCGTAATAATCCGTG 57.906 47.619 0.00 0.00 0.00 4.94
2258 2441 3.814005 AACAGCTCCGTAATAATCCGT 57.186 42.857 0.00 0.00 0.00 4.69
2259 2442 3.667261 CGTAACAGCTCCGTAATAATCCG 59.333 47.826 0.00 0.00 0.00 4.18
2260 2443 3.985925 CCGTAACAGCTCCGTAATAATCC 59.014 47.826 0.00 0.00 0.00 3.01
2261 2444 4.863491 TCCGTAACAGCTCCGTAATAATC 58.137 43.478 0.00 0.00 0.00 1.75
2262 2445 4.340381 ACTCCGTAACAGCTCCGTAATAAT 59.660 41.667 0.00 0.00 0.00 1.28
2263 2446 3.696051 ACTCCGTAACAGCTCCGTAATAA 59.304 43.478 0.00 0.00 0.00 1.40
2264 2447 3.282021 ACTCCGTAACAGCTCCGTAATA 58.718 45.455 0.00 0.00 0.00 0.98
2265 2448 2.097825 ACTCCGTAACAGCTCCGTAAT 58.902 47.619 0.00 0.00 0.00 1.89
2266 2449 1.538047 ACTCCGTAACAGCTCCGTAA 58.462 50.000 0.00 0.00 0.00 3.18
2267 2450 1.538047 AACTCCGTAACAGCTCCGTA 58.462 50.000 0.00 0.00 0.00 4.02
2268 2451 0.677842 AAACTCCGTAACAGCTCCGT 59.322 50.000 0.00 0.00 0.00 4.69
2269 2452 1.725164 GAAAACTCCGTAACAGCTCCG 59.275 52.381 0.00 0.00 0.00 4.63
2270 2453 2.994578 GAGAAAACTCCGTAACAGCTCC 59.005 50.000 0.00 0.00 0.00 4.70
2271 2454 3.915536 AGAGAAAACTCCGTAACAGCTC 58.084 45.455 0.00 0.00 0.00 4.09
2272 2455 3.574826 AGAGAGAAAACTCCGTAACAGCT 59.425 43.478 0.00 0.00 37.60 4.24
2273 2456 3.915536 AGAGAGAAAACTCCGTAACAGC 58.084 45.455 0.00 0.00 37.60 4.40
2274 2457 6.679843 AGTTAGAGAGAAAACTCCGTAACAG 58.320 40.000 15.28 0.00 37.60 3.16
2275 2458 6.645790 AGTTAGAGAGAAAACTCCGTAACA 57.354 37.500 15.28 0.00 37.60 2.41
2276 2459 9.288124 GATTAGTTAGAGAGAAAACTCCGTAAC 57.712 37.037 0.00 0.00 37.19 2.50
2277 2460 9.240734 AGATTAGTTAGAGAGAAAACTCCGTAA 57.759 33.333 0.00 0.00 37.19 3.18
2278 2461 8.804912 AGATTAGTTAGAGAGAAAACTCCGTA 57.195 34.615 0.00 0.00 37.19 4.02
2279 2462 7.706100 AGATTAGTTAGAGAGAAAACTCCGT 57.294 36.000 0.00 0.00 37.19 4.69
2280 2463 9.887406 GATAGATTAGTTAGAGAGAAAACTCCG 57.113 37.037 0.00 0.00 37.19 4.63
2285 2468 9.369672 GGGGAGATAGATTAGTTAGAGAGAAAA 57.630 37.037 0.00 0.00 0.00 2.29
2286 2469 7.951245 GGGGGAGATAGATTAGTTAGAGAGAAA 59.049 40.741 0.00 0.00 0.00 2.52
2287 2470 7.471890 GGGGGAGATAGATTAGTTAGAGAGAA 58.528 42.308 0.00 0.00 0.00 2.87
2288 2471 7.034967 GGGGGAGATAGATTAGTTAGAGAGA 57.965 44.000 0.00 0.00 0.00 3.10
2309 2492 1.188863 CTGCCTGAAAATCAAGGGGG 58.811 55.000 0.00 0.00 0.00 5.40
2310 2493 1.188863 CCTGCCTGAAAATCAAGGGG 58.811 55.000 0.00 0.00 0.00 4.79
2311 2494 1.188863 CCCTGCCTGAAAATCAAGGG 58.811 55.000 2.13 2.13 36.16 3.95
2312 2495 1.547372 CACCCTGCCTGAAAATCAAGG 59.453 52.381 0.00 0.00 0.00 3.61
2313 2496 1.547372 CCACCCTGCCTGAAAATCAAG 59.453 52.381 0.00 0.00 0.00 3.02
2314 2497 1.631405 CCACCCTGCCTGAAAATCAA 58.369 50.000 0.00 0.00 0.00 2.57
2315 2498 0.251742 CCCACCCTGCCTGAAAATCA 60.252 55.000 0.00 0.00 0.00 2.57
2316 2499 0.972471 CCCCACCCTGCCTGAAAATC 60.972 60.000 0.00 0.00 0.00 2.17
2317 2500 1.079073 CCCCACCCTGCCTGAAAAT 59.921 57.895 0.00 0.00 0.00 1.82
2318 2501 2.525592 CCCCACCCTGCCTGAAAA 59.474 61.111 0.00 0.00 0.00 2.29
2319 2502 4.299796 GCCCCACCCTGCCTGAAA 62.300 66.667 0.00 0.00 0.00 2.69
2330 2513 3.493303 GAGGAGGATGGGCCCCAC 61.493 72.222 22.27 13.39 35.80 4.61
2331 2514 3.710631 AGAGGAGGATGGGCCCCA 61.711 66.667 22.27 4.05 38.19 4.96
2332 2515 2.851588 GAGAGGAGGATGGGCCCC 60.852 72.222 22.27 3.89 37.37 5.80
2333 2516 1.841103 GAGAGAGGAGGATGGGCCC 60.841 68.421 17.59 17.59 37.37 5.80
2334 2517 1.841103 GGAGAGAGGAGGATGGGCC 60.841 68.421 0.00 0.00 0.00 5.80
2335 2518 0.831711 GAGGAGAGAGGAGGATGGGC 60.832 65.000 0.00 0.00 0.00 5.36
2336 2519 0.178935 GGAGGAGAGAGGAGGATGGG 60.179 65.000 0.00 0.00 0.00 4.00
2337 2520 0.560193 TGGAGGAGAGAGGAGGATGG 59.440 60.000 0.00 0.00 0.00 3.51
2338 2521 2.468301 TTGGAGGAGAGAGGAGGATG 57.532 55.000 0.00 0.00 0.00 3.51
2339 2522 2.797162 AGATTGGAGGAGAGAGGAGGAT 59.203 50.000 0.00 0.00 0.00 3.24
2340 2523 2.176798 GAGATTGGAGGAGAGAGGAGGA 59.823 54.545 0.00 0.00 0.00 3.71
2341 2524 2.091389 TGAGATTGGAGGAGAGAGGAGG 60.091 54.545 0.00 0.00 0.00 4.30
2342 2525 3.311167 TGAGATTGGAGGAGAGAGGAG 57.689 52.381 0.00 0.00 0.00 3.69
2343 2526 3.370104 GTTGAGATTGGAGGAGAGAGGA 58.630 50.000 0.00 0.00 0.00 3.71
2344 2527 2.433970 GGTTGAGATTGGAGGAGAGAGG 59.566 54.545 0.00 0.00 0.00 3.69
2345 2528 3.373830 AGGTTGAGATTGGAGGAGAGAG 58.626 50.000 0.00 0.00 0.00 3.20
2346 2529 3.370104 GAGGTTGAGATTGGAGGAGAGA 58.630 50.000 0.00 0.00 0.00 3.10
2347 2530 2.433970 GGAGGTTGAGATTGGAGGAGAG 59.566 54.545 0.00 0.00 0.00 3.20
2348 2531 2.472029 GGAGGTTGAGATTGGAGGAGA 58.528 52.381 0.00 0.00 0.00 3.71
2349 2532 1.488393 GGGAGGTTGAGATTGGAGGAG 59.512 57.143 0.00 0.00 0.00 3.69
2350 2533 1.203428 TGGGAGGTTGAGATTGGAGGA 60.203 52.381 0.00 0.00 0.00 3.71
2351 2534 1.065126 GTGGGAGGTTGAGATTGGAGG 60.065 57.143 0.00 0.00 0.00 4.30
2352 2535 1.630369 TGTGGGAGGTTGAGATTGGAG 59.370 52.381 0.00 0.00 0.00 3.86
2353 2536 1.741028 TGTGGGAGGTTGAGATTGGA 58.259 50.000 0.00 0.00 0.00 3.53
2354 2537 2.814805 ATGTGGGAGGTTGAGATTGG 57.185 50.000 0.00 0.00 0.00 3.16
2355 2538 3.367703 GCAAATGTGGGAGGTTGAGATTG 60.368 47.826 0.00 0.00 0.00 2.67
2356 2539 2.827921 GCAAATGTGGGAGGTTGAGATT 59.172 45.455 0.00 0.00 0.00 2.40
2357 2540 2.042162 AGCAAATGTGGGAGGTTGAGAT 59.958 45.455 0.00 0.00 0.00 2.75
2358 2541 1.425066 AGCAAATGTGGGAGGTTGAGA 59.575 47.619 0.00 0.00 0.00 3.27
2359 2542 1.915141 AGCAAATGTGGGAGGTTGAG 58.085 50.000 0.00 0.00 0.00 3.02
2360 2543 3.737559 ATAGCAAATGTGGGAGGTTGA 57.262 42.857 0.00 0.00 0.00 3.18
2361 2544 3.131046 GGAATAGCAAATGTGGGAGGTTG 59.869 47.826 0.00 0.00 0.00 3.77
2362 2545 3.365472 GGAATAGCAAATGTGGGAGGTT 58.635 45.455 0.00 0.00 0.00 3.50
2363 2546 2.683742 CGGAATAGCAAATGTGGGAGGT 60.684 50.000 0.00 0.00 0.00 3.85
2364 2547 1.949525 CGGAATAGCAAATGTGGGAGG 59.050 52.381 0.00 0.00 0.00 4.30
2365 2548 2.355756 CACGGAATAGCAAATGTGGGAG 59.644 50.000 0.00 0.00 0.00 4.30
2366 2549 2.026729 TCACGGAATAGCAAATGTGGGA 60.027 45.455 0.00 0.00 0.00 4.37
2367 2550 2.364632 TCACGGAATAGCAAATGTGGG 58.635 47.619 0.00 0.00 0.00 4.61
2368 2551 4.498009 GGATTCACGGAATAGCAAATGTGG 60.498 45.833 0.00 0.00 31.89 4.17
2369 2552 4.498009 GGGATTCACGGAATAGCAAATGTG 60.498 45.833 0.00 0.00 31.89 3.21
2370 2553 3.632145 GGGATTCACGGAATAGCAAATGT 59.368 43.478 0.00 0.00 31.89 2.71
2371 2554 3.303990 CGGGATTCACGGAATAGCAAATG 60.304 47.826 0.00 0.00 31.89 2.32
2372 2555 2.878406 CGGGATTCACGGAATAGCAAAT 59.122 45.455 0.00 0.00 31.89 2.32
2373 2556 2.285083 CGGGATTCACGGAATAGCAAA 58.715 47.619 0.00 0.00 31.89 3.68
2374 2557 1.208535 ACGGGATTCACGGAATAGCAA 59.791 47.619 13.70 0.00 31.89 3.91
2375 2558 0.828022 ACGGGATTCACGGAATAGCA 59.172 50.000 13.70 0.00 31.89 3.49
2376 2559 2.806608 TACGGGATTCACGGAATAGC 57.193 50.000 13.70 0.00 31.89 2.97
2377 2560 4.021368 AGGATTACGGGATTCACGGAATAG 60.021 45.833 18.45 0.00 44.30 1.73
2378 2561 3.899360 AGGATTACGGGATTCACGGAATA 59.101 43.478 18.45 0.00 44.30 1.75
2379 2562 2.704065 AGGATTACGGGATTCACGGAAT 59.296 45.455 18.48 18.48 46.71 3.01
2380 2563 2.112998 AGGATTACGGGATTCACGGAA 58.887 47.619 8.70 8.70 38.70 4.30
2381 2564 1.784358 AGGATTACGGGATTCACGGA 58.216 50.000 13.70 0.00 35.23 4.69
2382 2565 2.102588 AGAAGGATTACGGGATTCACGG 59.897 50.000 13.70 0.00 35.23 4.94
2383 2566 3.068307 AGAGAAGGATTACGGGATTCACG 59.932 47.826 6.80 6.80 37.36 4.35
2384 2567 4.501743 GGAGAGAAGGATTACGGGATTCAC 60.502 50.000 0.00 0.00 0.00 3.18
2385 2568 3.641906 GGAGAGAAGGATTACGGGATTCA 59.358 47.826 0.00 0.00 0.00 2.57
2386 2569 3.305471 CGGAGAGAAGGATTACGGGATTC 60.305 52.174 0.00 0.00 0.00 2.52
2387 2570 2.628657 CGGAGAGAAGGATTACGGGATT 59.371 50.000 0.00 0.00 0.00 3.01
2388 2571 2.240279 CGGAGAGAAGGATTACGGGAT 58.760 52.381 0.00 0.00 0.00 3.85
2389 2572 1.064166 ACGGAGAGAAGGATTACGGGA 60.064 52.381 0.00 0.00 0.00 5.14
2390 2573 1.067212 CACGGAGAGAAGGATTACGGG 59.933 57.143 0.00 0.00 0.00 5.28
2391 2574 2.022195 TCACGGAGAGAAGGATTACGG 58.978 52.381 0.00 0.00 0.00 4.02
2392 2575 3.777465 TTCACGGAGAGAAGGATTACG 57.223 47.619 0.00 0.00 30.97 3.18
2393 2576 5.523438 AGATTCACGGAGAGAAGGATTAC 57.477 43.478 0.00 0.00 40.96 1.89
2394 2577 6.605995 TGTTAGATTCACGGAGAGAAGGATTA 59.394 38.462 0.00 0.00 40.96 1.75
2395 2578 5.422331 TGTTAGATTCACGGAGAGAAGGATT 59.578 40.000 0.00 0.00 40.96 3.01
2396 2579 4.956700 TGTTAGATTCACGGAGAGAAGGAT 59.043 41.667 0.00 0.00 40.96 3.24
2397 2580 4.341487 TGTTAGATTCACGGAGAGAAGGA 58.659 43.478 0.00 0.00 40.96 3.36
2398 2581 4.720649 TGTTAGATTCACGGAGAGAAGG 57.279 45.455 0.00 0.00 40.96 3.46
2399 2582 5.006165 GCAATGTTAGATTCACGGAGAGAAG 59.994 44.000 0.00 0.00 40.96 2.85
2400 2583 4.870426 GCAATGTTAGATTCACGGAGAGAA 59.130 41.667 0.00 0.00 42.00 2.87
2401 2584 4.433615 GCAATGTTAGATTCACGGAGAGA 58.566 43.478 0.00 0.00 0.00 3.10
2402 2585 3.557595 GGCAATGTTAGATTCACGGAGAG 59.442 47.826 0.00 0.00 0.00 3.20
2403 2586 3.531538 GGCAATGTTAGATTCACGGAGA 58.468 45.455 0.00 0.00 0.00 3.71
2404 2587 2.285220 CGGCAATGTTAGATTCACGGAG 59.715 50.000 0.00 0.00 0.00 4.63
2405 2588 2.276201 CGGCAATGTTAGATTCACGGA 58.724 47.619 0.00 0.00 0.00 4.69
2406 2589 2.006888 ACGGCAATGTTAGATTCACGG 58.993 47.619 0.00 0.00 0.00 4.94
2407 2590 3.740044 AACGGCAATGTTAGATTCACG 57.260 42.857 0.00 0.00 0.00 4.35
2408 2591 5.219633 ACAAAACGGCAATGTTAGATTCAC 58.780 37.500 0.00 0.00 0.00 3.18
2409 2592 5.446143 ACAAAACGGCAATGTTAGATTCA 57.554 34.783 0.00 0.00 0.00 2.57
2410 2593 6.200097 ACAAACAAAACGGCAATGTTAGATTC 59.800 34.615 0.00 0.00 36.33 2.52
2411 2594 6.019156 CACAAACAAAACGGCAATGTTAGATT 60.019 34.615 0.00 0.00 36.33 2.40
2412 2595 5.461737 CACAAACAAAACGGCAATGTTAGAT 59.538 36.000 0.00 0.00 36.33 1.98
2413 2596 4.800993 CACAAACAAAACGGCAATGTTAGA 59.199 37.500 0.00 0.00 36.33 2.10
2414 2597 4.026145 CCACAAACAAAACGGCAATGTTAG 60.026 41.667 0.00 0.00 36.33 2.34
2415 2598 3.865745 CCACAAACAAAACGGCAATGTTA 59.134 39.130 0.00 0.00 36.33 2.41
2416 2599 2.675348 CCACAAACAAAACGGCAATGTT 59.325 40.909 0.00 0.00 38.85 2.71
2417 2600 2.275318 CCACAAACAAAACGGCAATGT 58.725 42.857 0.00 0.00 0.00 2.71
2418 2601 2.275318 ACCACAAACAAAACGGCAATG 58.725 42.857 0.00 0.00 0.00 2.82
2419 2602 2.093973 TGACCACAAACAAAACGGCAAT 60.094 40.909 0.00 0.00 0.00 3.56
2420 2603 1.272490 TGACCACAAACAAAACGGCAA 59.728 42.857 0.00 0.00 0.00 4.52
2421 2604 0.888619 TGACCACAAACAAAACGGCA 59.111 45.000 0.00 0.00 0.00 5.69
2422 2605 2.124122 GATGACCACAAACAAAACGGC 58.876 47.619 0.00 0.00 0.00 5.68
2423 2606 3.708563 AGATGACCACAAACAAAACGG 57.291 42.857 0.00 0.00 0.00 4.44
2424 2607 6.291585 GCTTTTAGATGACCACAAACAAAACG 60.292 38.462 0.00 0.00 0.00 3.60
2425 2608 6.533367 TGCTTTTAGATGACCACAAACAAAAC 59.467 34.615 0.00 0.00 0.00 2.43
2426 2609 6.533367 GTGCTTTTAGATGACCACAAACAAAA 59.467 34.615 0.00 0.00 0.00 2.44
2427 2610 6.039616 GTGCTTTTAGATGACCACAAACAAA 58.960 36.000 0.00 0.00 0.00 2.83
2428 2611 5.126222 TGTGCTTTTAGATGACCACAAACAA 59.874 36.000 0.00 0.00 31.09 2.83
2429 2612 4.642437 TGTGCTTTTAGATGACCACAAACA 59.358 37.500 0.00 0.00 31.09 2.83
2430 2613 4.976116 GTGTGCTTTTAGATGACCACAAAC 59.024 41.667 0.00 0.00 35.30 2.93
2431 2614 4.037446 GGTGTGCTTTTAGATGACCACAAA 59.963 41.667 0.00 0.00 35.30 2.83
2432 2615 3.568007 GGTGTGCTTTTAGATGACCACAA 59.432 43.478 0.00 0.00 35.30 3.33
2433 2616 3.146066 GGTGTGCTTTTAGATGACCACA 58.854 45.455 0.00 0.00 0.00 4.17
2434 2617 3.412386 AGGTGTGCTTTTAGATGACCAC 58.588 45.455 0.00 0.00 0.00 4.16
2455 2638 7.624360 ACGTGGCAGAAATAAAAATCATCTA 57.376 32.000 0.00 0.00 0.00 1.98
2486 2669 0.171231 TCTCCGTGCACATCGAGAAG 59.829 55.000 20.20 6.73 0.00 2.85
2531 2714 6.282199 GGTTGACTCCTTAATGAGAGTGTA 57.718 41.667 13.92 0.00 43.32 2.90


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

AutoCloner maintained by Alex Coulton.