Multiple sequence alignment - TraesCS3A01G090600

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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 TraesCS3A01G090600 chr3A 100.000 1937 0 0 664 2600 57590975 57592911 0.000000e+00 3578
1 TraesCS3A01G090600 chr3A 100.000 408 0 0 1 408 57590312 57590719 0.000000e+00 754
2 TraesCS3A01G090600 chr3A 95.484 310 12 2 2024 2332 57607233 57607541 6.460000e-136 494
3 TraesCS3A01G090600 chr3A 97.037 270 8 0 2331 2600 57612772 57613041 3.050000e-124 455
4 TraesCS3A01G090600 chr5A 96.407 1670 54 5 666 2332 637463676 637465342 0.000000e+00 2747
5 TraesCS3A01G090600 chr5A 96.324 408 14 1 1 408 637463140 637463546 0.000000e+00 669
6 TraesCS3A01G090600 chr5A 97.436 273 6 1 2061 2332 637489865 637490137 5.070000e-127 464
7 TraesCS3A01G090600 chr5A 96.296 270 10 0 2331 2600 637509870 637510139 6.600000e-121 444
8 TraesCS3A01G090600 chr5A 95.941 271 10 1 2331 2600 637475252 637475522 3.070000e-119 438
9 TraesCS3A01G090600 chr2A 94.308 1669 57 5 666 2332 49445232 49443600 0.000000e+00 2521
10 TraesCS3A01G090600 chr2A 97.549 408 9 1 1 408 49445768 49445362 0.000000e+00 697
11 TraesCS3A01G090600 chr2A 96.667 270 9 0 2331 2600 49439159 49438890 1.420000e-122 449
12 TraesCS3A01G090600 chr7D 85.744 947 114 13 666 1602 638549132 638548197 0.000000e+00 981
13 TraesCS3A01G090600 chr7D 76.527 311 45 14 1 291 638549544 638549242 7.500000e-31 145
14 TraesCS3A01G090600 chr1B 83.792 1018 133 15 787 1799 646883715 646884705 0.000000e+00 937
15 TraesCS3A01G090600 chr1B 91.358 243 21 0 2331 2573 646893576 646893818 1.490000e-87 333


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 TraesCS3A01G090600 chr3A 57590312 57592911 2599 False 2166 3578 100.0000 1 2600 2 chr3A.!!$F3 2599
1 TraesCS3A01G090600 chr5A 637463140 637465342 2202 False 1708 2747 96.3655 1 2332 2 chr5A.!!$F4 2331
2 TraesCS3A01G090600 chr2A 49443600 49445768 2168 True 1609 2521 95.9285 1 2332 2 chr2A.!!$R2 2331
3 TraesCS3A01G090600 chr7D 638548197 638549544 1347 True 563 981 81.1355 1 1602 2 chr7D.!!$R1 1601
4 TraesCS3A01G090600 chr1B 646883715 646884705 990 False 937 937 83.7920 787 1799 1 chr1B.!!$F1 1012

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
983 1008 0.963962 CCTGCCATGCTTGTGTTTCT 59.036 50.0 0.0 0.0 0.0 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2353 2381 0.036306 ACAATCCACCAAGTCCCGAC 59.964 55.0 0.0 0.0 0.0 4.79 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
257 276 3.322828 ACCTGGCTTCACTTACGAGTTTA 59.677 43.478 0.00 0.00 32.54 2.01
352 371 2.426024 TGGCGCGAGAGATTACTAGTTT 59.574 45.455 12.10 0.00 0.00 2.66
391 410 8.442632 ACCTAAAAAGTTTACTAACGCTTCTT 57.557 30.769 0.00 0.00 39.31 2.52
394 413 5.744666 AAAGTTTACTAACGCTTCTTGCA 57.255 34.783 0.00 0.00 43.06 4.08
691 710 2.250939 TGGCACAAAAGCTCCGACG 61.251 57.895 0.00 0.00 31.92 5.12
867 892 4.799564 AAAAACTGTTTGTTGGAGAGCA 57.200 36.364 6.53 0.00 39.13 4.26
983 1008 0.963962 CCTGCCATGCTTGTGTTTCT 59.036 50.000 0.00 0.00 0.00 2.52
1116 1141 1.195674 GTTGAGCTCGAAAGGAAGCAC 59.804 52.381 4.86 0.00 0.00 4.40
1262 1287 5.263968 TCAAGGTAAAATTGCGTTGGAAA 57.736 34.783 13.87 0.00 38.56 3.13
1350 1375 5.163195 ACTCCACCTTCTACAACATTCACTT 60.163 40.000 0.00 0.00 0.00 3.16
1573 1599 3.602513 AACAGAGCGCTGCCTCCAG 62.603 63.158 18.48 0.00 46.26 3.86
1594 1620 2.445085 ACGTGGTGGACCCTGACA 60.445 61.111 0.00 0.00 34.29 3.58
1739 1765 0.984230 TGTCTGGTGGATCTTGGTCC 59.016 55.000 0.00 0.00 38.81 4.46
1762 1788 1.211709 GAAAACAATCGGGCCGGTG 59.788 57.895 27.98 25.20 0.00 4.94
1920 1947 7.118101 TGCTTTCTTTAATTTGATGAATGGCAC 59.882 33.333 0.00 0.00 0.00 5.01
2030 2057 7.374491 CACTGTCGAAAGAGAAGAAAAACATTC 59.626 37.037 10.30 0.00 43.49 2.67
2345 2373 7.617041 ATCTTCTCTTAAATGTTGGTACAGC 57.383 36.000 0.00 0.00 42.39 4.40
2346 2374 5.637810 TCTTCTCTTAAATGTTGGTACAGCG 59.362 40.000 0.00 0.00 44.56 5.18
2347 2375 4.890088 TCTCTTAAATGTTGGTACAGCGT 58.110 39.130 0.00 0.00 44.56 5.07
2348 2376 4.688879 TCTCTTAAATGTTGGTACAGCGTG 59.311 41.667 0.00 0.00 44.56 5.34
2349 2377 3.749088 TCTTAAATGTTGGTACAGCGTGG 59.251 43.478 0.00 0.00 44.56 4.94
2350 2378 2.264005 AAATGTTGGTACAGCGTGGA 57.736 45.000 0.00 0.00 44.56 4.02
2351 2379 1.808411 AATGTTGGTACAGCGTGGAG 58.192 50.000 0.00 0.00 44.56 3.86
2352 2380 0.973632 ATGTTGGTACAGCGTGGAGA 59.026 50.000 0.00 0.00 44.56 3.71
2353 2381 0.317160 TGTTGGTACAGCGTGGAGAG 59.683 55.000 0.00 0.00 44.56 3.20
2354 2382 0.317479 GTTGGTACAGCGTGGAGAGT 59.683 55.000 0.00 0.00 42.39 3.24
2355 2383 0.601558 TTGGTACAGCGTGGAGAGTC 59.398 55.000 0.00 0.00 42.39 3.36
2356 2384 1.136984 GGTACAGCGTGGAGAGTCG 59.863 63.158 0.00 0.00 0.00 4.18
2357 2385 1.136984 GTACAGCGTGGAGAGTCGG 59.863 63.158 0.00 0.00 0.00 4.79
2358 2386 2.044555 TACAGCGTGGAGAGTCGGG 61.045 63.158 0.00 0.00 0.00 5.14
2359 2387 2.473891 TACAGCGTGGAGAGTCGGGA 62.474 60.000 0.00 0.00 0.00 5.14
2360 2388 3.063084 AGCGTGGAGAGTCGGGAC 61.063 66.667 0.00 0.00 0.00 4.46
2361 2389 3.063084 GCGTGGAGAGTCGGGACT 61.063 66.667 0.00 0.00 45.84 3.85
2362 2390 2.637383 GCGTGGAGAGTCGGGACTT 61.637 63.158 2.39 0.00 42.66 3.01
2363 2391 1.213013 CGTGGAGAGTCGGGACTTG 59.787 63.158 2.39 0.00 42.66 3.16
2364 2392 1.592223 GTGGAGAGTCGGGACTTGG 59.408 63.158 2.39 0.00 42.66 3.61
2365 2393 1.155390 TGGAGAGTCGGGACTTGGT 59.845 57.895 2.39 0.00 42.66 3.67
2366 2394 1.185618 TGGAGAGTCGGGACTTGGTG 61.186 60.000 2.39 0.00 42.66 4.17
2367 2395 1.592223 GAGAGTCGGGACTTGGTGG 59.408 63.158 2.39 0.00 42.66 4.61
2368 2396 0.898789 GAGAGTCGGGACTTGGTGGA 60.899 60.000 2.39 0.00 42.66 4.02
2369 2397 0.252284 AGAGTCGGGACTTGGTGGAT 60.252 55.000 2.39 0.00 42.66 3.41
2370 2398 0.613777 GAGTCGGGACTTGGTGGATT 59.386 55.000 2.39 0.00 42.66 3.01
2371 2399 0.324943 AGTCGGGACTTGGTGGATTG 59.675 55.000 0.00 0.00 38.83 2.67
2372 2400 0.036306 GTCGGGACTTGGTGGATTGT 59.964 55.000 0.00 0.00 0.00 2.71
2373 2401 0.768622 TCGGGACTTGGTGGATTGTT 59.231 50.000 0.00 0.00 0.00 2.83
2374 2402 1.979308 TCGGGACTTGGTGGATTGTTA 59.021 47.619 0.00 0.00 0.00 2.41
2375 2403 2.372504 TCGGGACTTGGTGGATTGTTAA 59.627 45.455 0.00 0.00 0.00 2.01
2376 2404 3.009695 TCGGGACTTGGTGGATTGTTAAT 59.990 43.478 0.00 0.00 0.00 1.40
2377 2405 3.128589 CGGGACTTGGTGGATTGTTAATG 59.871 47.826 0.00 0.00 0.00 1.90
2378 2406 4.340617 GGGACTTGGTGGATTGTTAATGA 58.659 43.478 0.00 0.00 0.00 2.57
2379 2407 4.956075 GGGACTTGGTGGATTGTTAATGAT 59.044 41.667 0.00 0.00 0.00 2.45
2380 2408 5.163519 GGGACTTGGTGGATTGTTAATGATG 60.164 44.000 0.00 0.00 0.00 3.07
2381 2409 5.329035 ACTTGGTGGATTGTTAATGATGC 57.671 39.130 0.00 0.00 0.00 3.91
2382 2410 4.771577 ACTTGGTGGATTGTTAATGATGCA 59.228 37.500 0.00 0.00 0.00 3.96
2383 2411 5.422970 ACTTGGTGGATTGTTAATGATGCAT 59.577 36.000 0.00 0.00 0.00 3.96
2384 2412 5.265350 TGGTGGATTGTTAATGATGCATG 57.735 39.130 2.46 0.00 0.00 4.06
2385 2413 4.099727 TGGTGGATTGTTAATGATGCATGG 59.900 41.667 2.46 0.00 0.00 3.66
2386 2414 4.053295 GTGGATTGTTAATGATGCATGGC 58.947 43.478 2.46 0.00 0.00 4.40
2387 2415 3.705072 TGGATTGTTAATGATGCATGGCA 59.295 39.130 2.46 0.00 44.86 4.92
2388 2416 4.202172 TGGATTGTTAATGATGCATGGCAG 60.202 41.667 2.46 0.00 43.65 4.85
2389 2417 4.038282 GGATTGTTAATGATGCATGGCAGA 59.962 41.667 2.46 0.00 43.65 4.26
2390 2418 4.642445 TTGTTAATGATGCATGGCAGAG 57.358 40.909 2.46 0.00 43.65 3.35
2391 2419 3.623703 TGTTAATGATGCATGGCAGAGT 58.376 40.909 2.46 0.00 43.65 3.24
2392 2420 4.779696 TGTTAATGATGCATGGCAGAGTA 58.220 39.130 2.46 0.00 43.65 2.59
2393 2421 4.576053 TGTTAATGATGCATGGCAGAGTAC 59.424 41.667 2.46 0.00 43.65 2.73
2394 2422 1.875009 ATGATGCATGGCAGAGTACG 58.125 50.000 2.46 0.00 43.65 3.67
2395 2423 0.536724 TGATGCATGGCAGAGTACGT 59.463 50.000 2.46 0.00 43.65 3.57
2396 2424 1.754226 TGATGCATGGCAGAGTACGTA 59.246 47.619 2.46 0.00 43.65 3.57
2397 2425 2.223805 TGATGCATGGCAGAGTACGTAG 60.224 50.000 2.46 0.00 43.65 3.51
2398 2426 0.459899 TGCATGGCAGAGTACGTAGG 59.540 55.000 0.00 0.00 33.32 3.18
2399 2427 0.876342 GCATGGCAGAGTACGTAGGC 60.876 60.000 0.00 0.00 0.00 3.93
2400 2428 0.747255 CATGGCAGAGTACGTAGGCT 59.253 55.000 0.00 0.00 0.00 4.58
2401 2429 0.747255 ATGGCAGAGTACGTAGGCTG 59.253 55.000 16.40 16.40 0.00 4.85
2402 2430 4.403976 GCAGAGTACGTAGGCTGC 57.596 61.111 24.93 24.93 45.64 5.25
2405 2433 1.630148 CAGAGTACGTAGGCTGCAAC 58.370 55.000 10.59 0.09 0.00 4.17
2406 2434 1.067846 CAGAGTACGTAGGCTGCAACA 60.068 52.381 10.59 0.00 0.00 3.33
2407 2435 1.825474 AGAGTACGTAGGCTGCAACAT 59.175 47.619 2.89 0.00 0.00 2.71
2408 2436 3.021695 AGAGTACGTAGGCTGCAACATA 58.978 45.455 2.89 0.00 0.00 2.29
2409 2437 3.637229 AGAGTACGTAGGCTGCAACATAT 59.363 43.478 2.89 0.00 0.00 1.78
2410 2438 3.717707 AGTACGTAGGCTGCAACATATG 58.282 45.455 2.89 0.00 0.00 1.78
2420 2448 1.650912 CAACATATGCAGCCCTCGC 59.349 57.895 1.58 0.00 0.00 5.03
2421 2449 1.526917 AACATATGCAGCCCTCGCC 60.527 57.895 1.58 0.00 34.57 5.54
2422 2450 2.111669 CATATGCAGCCCTCGCCA 59.888 61.111 0.00 0.00 34.57 5.69
2423 2451 1.526686 CATATGCAGCCCTCGCCAA 60.527 57.895 0.00 0.00 34.57 4.52
2424 2452 1.228063 ATATGCAGCCCTCGCCAAG 60.228 57.895 0.00 0.00 34.57 3.61
2431 2459 3.838271 CCCTCGCCAAGCTCGCTA 61.838 66.667 4.42 0.00 0.00 4.26
2432 2460 2.184322 CCTCGCCAAGCTCGCTAA 59.816 61.111 4.42 0.00 0.00 3.09
2433 2461 2.167861 CCTCGCCAAGCTCGCTAAC 61.168 63.158 4.42 0.00 0.00 2.34
2434 2462 2.506217 TCGCCAAGCTCGCTAACG 60.506 61.111 4.42 0.00 42.01 3.18
2451 2479 3.351604 CGAGTGCGTTCAGAAAAGC 57.648 52.632 5.21 5.21 39.90 3.51
2452 2480 0.449507 CGAGTGCGTTCAGAAAAGCG 60.450 55.000 7.21 0.00 42.03 4.68
2453 2481 0.110644 GAGTGCGTTCAGAAAAGCGG 60.111 55.000 7.21 0.00 42.03 5.52
2454 2482 0.814010 AGTGCGTTCAGAAAAGCGGT 60.814 50.000 7.21 0.00 42.03 5.68
2455 2483 0.657368 GTGCGTTCAGAAAAGCGGTG 60.657 55.000 7.21 0.00 42.03 4.94
2456 2484 1.092921 TGCGTTCAGAAAAGCGGTGT 61.093 50.000 7.21 0.00 42.03 4.16
2457 2485 0.384353 GCGTTCAGAAAAGCGGTGTC 60.384 55.000 0.00 0.00 30.33 3.67
2458 2486 0.234884 CGTTCAGAAAAGCGGTGTCC 59.765 55.000 0.00 0.00 0.00 4.02
2459 2487 1.594331 GTTCAGAAAAGCGGTGTCCT 58.406 50.000 0.00 0.00 0.00 3.85
2460 2488 1.531578 GTTCAGAAAAGCGGTGTCCTC 59.468 52.381 0.00 0.00 0.00 3.71
2461 2489 0.319555 TCAGAAAAGCGGTGTCCTCG 60.320 55.000 0.00 0.00 0.00 4.63
2462 2490 1.004918 AGAAAAGCGGTGTCCTCGG 60.005 57.895 0.00 0.00 0.00 4.63
2463 2491 2.668550 AAAAGCGGTGTCCTCGGC 60.669 61.111 0.00 0.00 0.00 5.54
2464 2492 3.469863 AAAAGCGGTGTCCTCGGCA 62.470 57.895 0.00 0.00 36.38 5.69
2465 2493 2.951475 AAAAGCGGTGTCCTCGGCAA 62.951 55.000 0.00 0.00 36.38 4.52
2466 2494 2.951475 AAAGCGGTGTCCTCGGCAAA 62.951 55.000 0.00 0.00 36.38 3.68
2467 2495 3.723348 GCGGTGTCCTCGGCAAAC 61.723 66.667 0.00 0.00 34.55 2.93
2468 2496 2.280524 CGGTGTCCTCGGCAAACA 60.281 61.111 0.00 0.00 0.00 2.83
2469 2497 2.317609 CGGTGTCCTCGGCAAACAG 61.318 63.158 0.00 0.00 0.00 3.16
2470 2498 1.070786 GGTGTCCTCGGCAAACAGA 59.929 57.895 0.00 0.00 0.00 3.41
2471 2499 0.321653 GGTGTCCTCGGCAAACAGAT 60.322 55.000 0.00 0.00 0.00 2.90
2472 2500 1.079503 GTGTCCTCGGCAAACAGATC 58.920 55.000 0.00 0.00 0.00 2.75
2473 2501 0.976641 TGTCCTCGGCAAACAGATCT 59.023 50.000 0.00 0.00 0.00 2.75
2474 2502 1.338105 TGTCCTCGGCAAACAGATCTG 60.338 52.381 21.37 21.37 0.00 2.90
2476 2504 1.066858 TCCTCGGCAAACAGATCTGTC 60.067 52.381 28.01 15.75 44.13 3.51
2477 2505 1.066573 CCTCGGCAAACAGATCTGTCT 60.067 52.381 28.01 12.94 44.13 3.41
2478 2506 2.613977 CCTCGGCAAACAGATCTGTCTT 60.614 50.000 28.01 19.76 44.13 3.01
2479 2507 3.368427 CCTCGGCAAACAGATCTGTCTTA 60.368 47.826 28.01 10.24 44.13 2.10
2480 2508 4.245660 CTCGGCAAACAGATCTGTCTTAA 58.754 43.478 28.01 11.21 44.13 1.85
2481 2509 4.245660 TCGGCAAACAGATCTGTCTTAAG 58.754 43.478 28.01 18.56 44.13 1.85
2482 2510 4.021456 TCGGCAAACAGATCTGTCTTAAGA 60.021 41.667 28.01 20.31 44.13 2.10
2483 2511 4.092091 CGGCAAACAGATCTGTCTTAAGAC 59.908 45.833 28.01 25.73 44.13 3.01
2484 2512 5.241662 GGCAAACAGATCTGTCTTAAGACT 58.758 41.667 30.47 15.08 44.13 3.24
2485 2513 5.121454 GGCAAACAGATCTGTCTTAAGACTG 59.879 44.000 30.47 29.01 44.13 3.51
2486 2514 5.698545 GCAAACAGATCTGTCTTAAGACTGT 59.301 40.000 30.47 23.55 44.13 3.55
2487 2515 6.203723 GCAAACAGATCTGTCTTAAGACTGTT 59.796 38.462 30.47 26.83 44.13 3.16
2488 2516 7.385205 GCAAACAGATCTGTCTTAAGACTGTTA 59.615 37.037 30.47 18.16 44.13 2.41
2489 2517 8.920665 CAAACAGATCTGTCTTAAGACTGTTAG 58.079 37.037 30.47 21.18 44.13 2.34
2490 2518 6.626302 ACAGATCTGTCTTAAGACTGTTAGC 58.374 40.000 30.47 19.51 44.99 3.09
2491 2519 5.741510 CAGATCTGTCTTAAGACTGTTAGCG 59.258 44.000 30.47 17.14 44.99 4.26
2492 2520 5.648526 AGATCTGTCTTAAGACTGTTAGCGA 59.351 40.000 30.47 16.36 44.99 4.93
2493 2521 5.298197 TCTGTCTTAAGACTGTTAGCGAG 57.702 43.478 30.47 19.05 44.99 5.03
2494 2522 3.834610 TGTCTTAAGACTGTTAGCGAGC 58.165 45.455 30.47 5.88 44.99 5.03
2495 2523 3.180613 GTCTTAAGACTGTTAGCGAGCC 58.819 50.000 25.30 0.00 41.65 4.70
2496 2524 3.090037 TCTTAAGACTGTTAGCGAGCCT 58.910 45.455 0.00 0.00 0.00 4.58
2497 2525 4.096081 GTCTTAAGACTGTTAGCGAGCCTA 59.904 45.833 25.30 0.00 41.65 3.93
2498 2526 4.703575 TCTTAAGACTGTTAGCGAGCCTAA 59.296 41.667 0.00 0.00 33.69 2.69
2499 2527 3.955650 AAGACTGTTAGCGAGCCTAAA 57.044 42.857 0.00 0.00 37.75 1.85
2500 2528 4.473477 AAGACTGTTAGCGAGCCTAAAT 57.527 40.909 0.00 0.00 37.75 1.40
2501 2529 3.786635 AGACTGTTAGCGAGCCTAAATG 58.213 45.455 0.00 0.00 37.75 2.32
2502 2530 3.195825 AGACTGTTAGCGAGCCTAAATGT 59.804 43.478 0.00 0.00 37.75 2.71
2503 2531 3.262420 ACTGTTAGCGAGCCTAAATGTG 58.738 45.455 0.00 0.00 37.75 3.21
2504 2532 2.609459 CTGTTAGCGAGCCTAAATGTGG 59.391 50.000 0.00 0.00 37.75 4.17
2505 2533 2.027561 TGTTAGCGAGCCTAAATGTGGT 60.028 45.455 0.00 0.00 37.75 4.16
2506 2534 2.309528 TAGCGAGCCTAAATGTGGTG 57.690 50.000 0.00 0.00 0.00 4.17
2507 2535 0.392998 AGCGAGCCTAAATGTGGTGG 60.393 55.000 0.00 0.00 0.00 4.61
2508 2536 0.676782 GCGAGCCTAAATGTGGTGGT 60.677 55.000 0.00 0.00 0.00 4.16
2509 2537 1.086696 CGAGCCTAAATGTGGTGGTG 58.913 55.000 0.00 0.00 0.00 4.17
2510 2538 1.610624 CGAGCCTAAATGTGGTGGTGT 60.611 52.381 0.00 0.00 0.00 4.16
2511 2539 2.514803 GAGCCTAAATGTGGTGGTGTT 58.485 47.619 0.00 0.00 0.00 3.32
2512 2540 3.681593 GAGCCTAAATGTGGTGGTGTTA 58.318 45.455 0.00 0.00 0.00 2.41
2513 2541 4.270008 GAGCCTAAATGTGGTGGTGTTAT 58.730 43.478 0.00 0.00 0.00 1.89
2514 2542 4.016444 AGCCTAAATGTGGTGGTGTTATG 58.984 43.478 0.00 0.00 0.00 1.90
2515 2543 3.428862 GCCTAAATGTGGTGGTGTTATGC 60.429 47.826 0.00 0.00 0.00 3.14
2516 2544 4.016444 CCTAAATGTGGTGGTGTTATGCT 58.984 43.478 0.00 0.00 0.00 3.79
2517 2545 4.462483 CCTAAATGTGGTGGTGTTATGCTT 59.538 41.667 0.00 0.00 0.00 3.91
2518 2546 4.519540 AAATGTGGTGGTGTTATGCTTC 57.480 40.909 0.00 0.00 0.00 3.86
2519 2547 2.949177 TGTGGTGGTGTTATGCTTCT 57.051 45.000 0.00 0.00 0.00 2.85
2520 2548 3.222173 TGTGGTGGTGTTATGCTTCTT 57.778 42.857 0.00 0.00 0.00 2.52
2521 2549 3.146066 TGTGGTGGTGTTATGCTTCTTC 58.854 45.455 0.00 0.00 0.00 2.87
2522 2550 3.146066 GTGGTGGTGTTATGCTTCTTCA 58.854 45.455 0.00 0.00 0.00 3.02
2523 2551 3.758554 GTGGTGGTGTTATGCTTCTTCAT 59.241 43.478 0.00 0.00 0.00 2.57
2524 2552 4.009675 TGGTGGTGTTATGCTTCTTCATC 58.990 43.478 0.00 0.00 0.00 2.92
2525 2553 4.009675 GGTGGTGTTATGCTTCTTCATCA 58.990 43.478 0.00 0.00 0.00 3.07
2526 2554 4.095483 GGTGGTGTTATGCTTCTTCATCAG 59.905 45.833 0.00 0.00 0.00 2.90
2527 2555 3.691118 TGGTGTTATGCTTCTTCATCAGC 59.309 43.478 0.00 0.00 36.49 4.26
2533 2561 2.547826 TGCTTCTTCATCAGCATCTCG 58.452 47.619 0.00 0.00 41.20 4.04
2534 2562 2.167075 TGCTTCTTCATCAGCATCTCGA 59.833 45.455 0.00 0.00 41.20 4.04
2535 2563 3.181468 TGCTTCTTCATCAGCATCTCGAT 60.181 43.478 0.00 0.00 41.20 3.59
2536 2564 3.429543 GCTTCTTCATCAGCATCTCGATC 59.570 47.826 0.00 0.00 35.95 3.69
2537 2565 4.796946 GCTTCTTCATCAGCATCTCGATCT 60.797 45.833 0.00 0.00 35.95 2.75
2538 2566 4.933505 TCTTCATCAGCATCTCGATCTT 57.066 40.909 0.00 0.00 0.00 2.40
2539 2567 4.869215 TCTTCATCAGCATCTCGATCTTC 58.131 43.478 0.00 0.00 0.00 2.87
2540 2568 3.279853 TCATCAGCATCTCGATCTTCG 57.720 47.619 0.00 0.00 42.10 3.79
2548 2576 3.207354 TCGATCTTCGAGGTGGCC 58.793 61.111 0.00 0.00 44.82 5.36
2549 2577 1.379977 TCGATCTTCGAGGTGGCCT 60.380 57.895 3.32 0.00 44.82 5.19
2550 2578 1.227089 CGATCTTCGAGGTGGCCTG 60.227 63.158 3.32 0.00 43.74 4.85
2551 2579 1.901085 GATCTTCGAGGTGGCCTGT 59.099 57.895 3.32 0.00 31.76 4.00
2552 2580 0.250513 GATCTTCGAGGTGGCCTGTT 59.749 55.000 3.32 0.00 31.76 3.16
2553 2581 0.693049 ATCTTCGAGGTGGCCTGTTT 59.307 50.000 3.32 0.00 31.76 2.83
2554 2582 0.472471 TCTTCGAGGTGGCCTGTTTT 59.528 50.000 3.32 0.00 31.76 2.43
2555 2583 1.133915 TCTTCGAGGTGGCCTGTTTTT 60.134 47.619 3.32 0.00 31.76 1.94
2574 2602 4.335082 TTTTTCACGTGAGAGTGTTGTG 57.665 40.909 19.11 0.00 42.40 3.33
2575 2603 1.286501 TTCACGTGAGAGTGTTGTGC 58.713 50.000 19.11 0.00 42.40 4.57
2576 2604 0.174617 TCACGTGAGAGTGTTGTGCA 59.825 50.000 15.76 0.00 42.40 4.57
2577 2605 1.202521 TCACGTGAGAGTGTTGTGCAT 60.203 47.619 15.76 0.00 42.40 3.96
2578 2606 2.035321 TCACGTGAGAGTGTTGTGCATA 59.965 45.455 15.76 0.00 42.40 3.14
2579 2607 2.995939 CACGTGAGAGTGTTGTGCATAT 59.004 45.455 10.90 0.00 37.35 1.78
2580 2608 4.082463 TCACGTGAGAGTGTTGTGCATATA 60.082 41.667 15.76 0.00 42.40 0.86
2581 2609 4.805719 CACGTGAGAGTGTTGTGCATATAT 59.194 41.667 10.90 0.00 37.35 0.86
2582 2610 5.043903 ACGTGAGAGTGTTGTGCATATATC 58.956 41.667 0.00 0.00 0.00 1.63
2583 2611 5.043248 CGTGAGAGTGTTGTGCATATATCA 58.957 41.667 0.00 0.00 0.00 2.15
2584 2612 5.693555 CGTGAGAGTGTTGTGCATATATCAT 59.306 40.000 0.00 0.00 0.00 2.45
2585 2613 6.201615 CGTGAGAGTGTTGTGCATATATCATT 59.798 38.462 0.00 0.00 0.00 2.57
2586 2614 7.254556 CGTGAGAGTGTTGTGCATATATCATTT 60.255 37.037 0.00 0.00 0.00 2.32
2587 2615 9.045223 GTGAGAGTGTTGTGCATATATCATTTA 57.955 33.333 0.00 0.00 0.00 1.40
2588 2616 9.045223 TGAGAGTGTTGTGCATATATCATTTAC 57.955 33.333 0.00 0.00 0.00 2.01
2589 2617 9.265901 GAGAGTGTTGTGCATATATCATTTACT 57.734 33.333 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
257 276 0.537143 TTGGCGACTGCTGGTGAAAT 60.537 50.000 0.00 0.00 42.25 2.17
364 383 9.546428 AGAAGCGTTAGTAAACTTTTTAGGTAA 57.454 29.630 1.99 0.00 33.15 2.85
663 682 2.298729 GCTTTTGTGCCACCTTCCATTA 59.701 45.455 0.00 0.00 0.00 1.90
664 683 1.070601 GCTTTTGTGCCACCTTCCATT 59.929 47.619 0.00 0.00 0.00 3.16
867 892 2.666508 GTCTTCACATCATAACGCACGT 59.333 45.455 0.00 0.00 0.00 4.49
877 902 1.725641 GACGGCATGTCTTCACATCA 58.274 50.000 0.00 0.00 41.69 3.07
983 1008 5.893500 CCTTCATAGGGACCAGTATCTAGA 58.106 45.833 0.00 0.00 37.94 2.43
1025 1050 4.798387 TCATCATGTCGAAGATGTACAACG 59.202 41.667 17.89 4.29 41.74 4.10
1116 1141 1.434622 GCCTGTCGATGCATCCTGTG 61.435 60.000 20.87 7.03 0.00 3.66
1166 1191 0.894835 ATGCCACCCATCGAAAAACC 59.105 50.000 0.00 0.00 0.00 3.27
1262 1287 5.713025 CAAATCGATGGACCACTCAAAAAT 58.287 37.500 0.00 0.00 0.00 1.82
1350 1375 2.150390 CACCATCAAACGACCACATGA 58.850 47.619 0.00 0.00 0.00 3.07
1573 1599 2.603776 AGGGTCCACCACGTCCTC 60.604 66.667 0.00 0.00 43.89 3.71
1594 1620 4.039730 CGAGAAACCCTCTATCCATCACAT 59.960 45.833 0.00 0.00 39.78 3.21
1739 1765 1.665735 CGGCCCGATTGTTTTCAACAG 60.666 52.381 0.00 0.00 43.27 3.16
1762 1788 1.066454 GCACACCCACAAACTGGTAAC 59.934 52.381 0.00 0.00 38.60 2.50
2323 2351 5.408604 ACGCTGTACCAACATTTAAGAGAAG 59.591 40.000 0.00 0.00 34.37 2.85
2332 2360 1.346395 TCTCCACGCTGTACCAACATT 59.654 47.619 0.00 0.00 34.37 2.71
2333 2361 0.973632 TCTCCACGCTGTACCAACAT 59.026 50.000 0.00 0.00 34.37 2.71
2334 2362 0.317160 CTCTCCACGCTGTACCAACA 59.683 55.000 0.00 0.00 0.00 3.33
2335 2363 0.317479 ACTCTCCACGCTGTACCAAC 59.683 55.000 0.00 0.00 0.00 3.77
2336 2364 0.601558 GACTCTCCACGCTGTACCAA 59.398 55.000 0.00 0.00 0.00 3.67
2337 2365 1.583495 CGACTCTCCACGCTGTACCA 61.583 60.000 0.00 0.00 0.00 3.25
2338 2366 1.136984 CGACTCTCCACGCTGTACC 59.863 63.158 0.00 0.00 0.00 3.34
2339 2367 1.136984 CCGACTCTCCACGCTGTAC 59.863 63.158 0.00 0.00 0.00 2.90
2340 2368 2.044555 CCCGACTCTCCACGCTGTA 61.045 63.158 0.00 0.00 0.00 2.74
2341 2369 3.374402 CCCGACTCTCCACGCTGT 61.374 66.667 0.00 0.00 0.00 4.40
2342 2370 3.062466 TCCCGACTCTCCACGCTG 61.062 66.667 0.00 0.00 0.00 5.18
2343 2371 3.063084 GTCCCGACTCTCCACGCT 61.063 66.667 0.00 0.00 0.00 5.07
2344 2372 2.637383 AAGTCCCGACTCTCCACGC 61.637 63.158 0.00 0.00 41.58 5.34
2345 2373 1.213013 CAAGTCCCGACTCTCCACG 59.787 63.158 0.00 0.00 41.58 4.94
2346 2374 1.186267 ACCAAGTCCCGACTCTCCAC 61.186 60.000 0.00 0.00 41.58 4.02
2347 2375 1.155390 ACCAAGTCCCGACTCTCCA 59.845 57.895 0.00 0.00 41.58 3.86
2348 2376 1.592223 CACCAAGTCCCGACTCTCC 59.408 63.158 0.00 0.00 41.58 3.71
2349 2377 0.898789 TCCACCAAGTCCCGACTCTC 60.899 60.000 0.00 0.00 41.58 3.20
2350 2378 0.252284 ATCCACCAAGTCCCGACTCT 60.252 55.000 0.00 0.00 41.58 3.24
2351 2379 0.613777 AATCCACCAAGTCCCGACTC 59.386 55.000 0.00 0.00 41.58 3.36
2352 2380 0.324943 CAATCCACCAAGTCCCGACT 59.675 55.000 0.00 0.00 44.94 4.18
2353 2381 0.036306 ACAATCCACCAAGTCCCGAC 59.964 55.000 0.00 0.00 0.00 4.79
2354 2382 0.768622 AACAATCCACCAAGTCCCGA 59.231 50.000 0.00 0.00 0.00 5.14
2355 2383 2.483014 TAACAATCCACCAAGTCCCG 57.517 50.000 0.00 0.00 0.00 5.14
2356 2384 4.340617 TCATTAACAATCCACCAAGTCCC 58.659 43.478 0.00 0.00 0.00 4.46
2357 2385 5.679638 GCATCATTAACAATCCACCAAGTCC 60.680 44.000 0.00 0.00 0.00 3.85
2358 2386 5.105797 TGCATCATTAACAATCCACCAAGTC 60.106 40.000 0.00 0.00 0.00 3.01
2359 2387 4.771577 TGCATCATTAACAATCCACCAAGT 59.228 37.500 0.00 0.00 0.00 3.16
2360 2388 5.327616 TGCATCATTAACAATCCACCAAG 57.672 39.130 0.00 0.00 0.00 3.61
2361 2389 5.395435 CCATGCATCATTAACAATCCACCAA 60.395 40.000 0.00 0.00 0.00 3.67
2362 2390 4.099727 CCATGCATCATTAACAATCCACCA 59.900 41.667 0.00 0.00 0.00 4.17
2363 2391 4.624015 CCATGCATCATTAACAATCCACC 58.376 43.478 0.00 0.00 0.00 4.61
2364 2392 4.053295 GCCATGCATCATTAACAATCCAC 58.947 43.478 0.00 0.00 0.00 4.02
2365 2393 3.705072 TGCCATGCATCATTAACAATCCA 59.295 39.130 0.00 0.00 31.71 3.41
2366 2394 4.038282 TCTGCCATGCATCATTAACAATCC 59.962 41.667 0.00 0.00 38.13 3.01
2367 2395 5.190992 TCTGCCATGCATCATTAACAATC 57.809 39.130 0.00 0.00 38.13 2.67
2368 2396 4.647853 ACTCTGCCATGCATCATTAACAAT 59.352 37.500 0.00 0.00 38.13 2.71
2369 2397 4.018490 ACTCTGCCATGCATCATTAACAA 58.982 39.130 0.00 0.00 38.13 2.83
2370 2398 3.623703 ACTCTGCCATGCATCATTAACA 58.376 40.909 0.00 0.00 38.13 2.41
2371 2399 4.319046 CGTACTCTGCCATGCATCATTAAC 60.319 45.833 0.00 0.00 38.13 2.01
2372 2400 3.809279 CGTACTCTGCCATGCATCATTAA 59.191 43.478 0.00 0.00 38.13 1.40
2373 2401 3.181466 ACGTACTCTGCCATGCATCATTA 60.181 43.478 0.00 0.00 38.13 1.90
2374 2402 2.216046 CGTACTCTGCCATGCATCATT 58.784 47.619 0.00 0.00 38.13 2.57
2375 2403 1.139654 ACGTACTCTGCCATGCATCAT 59.860 47.619 0.00 0.00 38.13 2.45
2376 2404 0.536724 ACGTACTCTGCCATGCATCA 59.463 50.000 0.00 0.00 38.13 3.07
2377 2405 2.398498 CTACGTACTCTGCCATGCATC 58.602 52.381 0.00 0.00 38.13 3.91
2378 2406 1.069204 CCTACGTACTCTGCCATGCAT 59.931 52.381 0.00 0.00 38.13 3.96
2379 2407 0.459899 CCTACGTACTCTGCCATGCA 59.540 55.000 0.00 0.00 36.92 3.96
2380 2408 0.876342 GCCTACGTACTCTGCCATGC 60.876 60.000 0.00 0.00 0.00 4.06
2381 2409 0.747255 AGCCTACGTACTCTGCCATG 59.253 55.000 0.00 0.00 0.00 3.66
2382 2410 0.747255 CAGCCTACGTACTCTGCCAT 59.253 55.000 6.44 0.00 0.00 4.40
2383 2411 1.945354 GCAGCCTACGTACTCTGCCA 61.945 60.000 23.60 0.00 44.35 4.92
2384 2412 1.227002 GCAGCCTACGTACTCTGCC 60.227 63.158 23.60 12.25 44.35 4.85
2385 2413 4.403976 GCAGCCTACGTACTCTGC 57.596 61.111 21.30 21.30 43.95 4.26
2386 2414 1.067846 TGTTGCAGCCTACGTACTCTG 60.068 52.381 12.58 12.58 0.00 3.35
2387 2415 1.254026 TGTTGCAGCCTACGTACTCT 58.746 50.000 0.00 0.00 0.00 3.24
2388 2416 2.295253 ATGTTGCAGCCTACGTACTC 57.705 50.000 0.00 0.00 0.00 2.59
2389 2417 3.717707 CATATGTTGCAGCCTACGTACT 58.282 45.455 0.00 0.00 0.00 2.73
2402 2430 1.650912 GCGAGGGCTGCATATGTTG 59.349 57.895 4.29 0.00 35.83 3.33
2403 2431 1.526917 GGCGAGGGCTGCATATGTT 60.527 57.895 4.29 0.00 39.81 2.71
2404 2432 2.111878 GGCGAGGGCTGCATATGT 59.888 61.111 4.29 0.00 39.81 2.29
2405 2433 1.512996 CTTGGCGAGGGCTGCATATG 61.513 60.000 0.50 0.00 39.81 1.78
2406 2434 1.228063 CTTGGCGAGGGCTGCATAT 60.228 57.895 0.50 0.00 39.81 1.78
2407 2435 2.190313 CTTGGCGAGGGCTGCATA 59.810 61.111 0.50 0.00 39.81 3.14
2414 2442 3.371097 TTAGCGAGCTTGGCGAGGG 62.371 63.158 1.86 0.00 35.00 4.30
2415 2443 2.167861 GTTAGCGAGCTTGGCGAGG 61.168 63.158 1.86 0.00 35.00 4.63
2416 2444 2.508891 CGTTAGCGAGCTTGGCGAG 61.509 63.158 1.86 0.00 41.33 5.03
2417 2445 2.506217 CGTTAGCGAGCTTGGCGA 60.506 61.111 1.86 0.00 41.33 5.54
2418 2446 2.506217 TCGTTAGCGAGCTTGGCG 60.506 61.111 1.86 6.15 42.81 5.69
2433 2461 0.449507 CGCTTTTCTGAACGCACTCG 60.450 55.000 10.33 0.00 42.43 4.18
2434 2462 0.110644 CCGCTTTTCTGAACGCACTC 60.111 55.000 10.33 0.00 30.94 3.51
2435 2463 0.814010 ACCGCTTTTCTGAACGCACT 60.814 50.000 10.33 0.00 30.94 4.40
2436 2464 0.657368 CACCGCTTTTCTGAACGCAC 60.657 55.000 10.33 0.00 30.94 5.34
2437 2465 1.092921 ACACCGCTTTTCTGAACGCA 61.093 50.000 10.33 0.00 30.94 5.24
2438 2466 0.384353 GACACCGCTTTTCTGAACGC 60.384 55.000 0.00 0.00 0.00 4.84
2439 2467 0.234884 GGACACCGCTTTTCTGAACG 59.765 55.000 0.00 0.00 0.00 3.95
2440 2468 1.531578 GAGGACACCGCTTTTCTGAAC 59.468 52.381 0.00 0.00 0.00 3.18
2441 2469 1.872237 CGAGGACACCGCTTTTCTGAA 60.872 52.381 0.00 0.00 0.00 3.02
2442 2470 0.319555 CGAGGACACCGCTTTTCTGA 60.320 55.000 0.00 0.00 0.00 3.27
2443 2471 1.291877 CCGAGGACACCGCTTTTCTG 61.292 60.000 0.00 0.00 0.00 3.02
2444 2472 1.004918 CCGAGGACACCGCTTTTCT 60.005 57.895 0.00 0.00 0.00 2.52
2445 2473 2.677979 GCCGAGGACACCGCTTTTC 61.678 63.158 0.00 0.00 0.00 2.29
2446 2474 2.668550 GCCGAGGACACCGCTTTT 60.669 61.111 0.00 0.00 0.00 2.27
2447 2475 2.951475 TTTGCCGAGGACACCGCTTT 62.951 55.000 0.00 0.00 0.00 3.51
2448 2476 3.469863 TTTGCCGAGGACACCGCTT 62.470 57.895 0.00 0.00 0.00 4.68
2449 2477 3.936203 TTTGCCGAGGACACCGCT 61.936 61.111 0.00 0.00 0.00 5.52
2450 2478 3.723348 GTTTGCCGAGGACACCGC 61.723 66.667 0.00 0.00 0.00 5.68
2451 2479 2.280524 TGTTTGCCGAGGACACCG 60.281 61.111 0.00 0.00 0.00 4.94
2452 2480 0.321653 ATCTGTTTGCCGAGGACACC 60.322 55.000 0.00 0.00 0.00 4.16
2453 2481 1.079503 GATCTGTTTGCCGAGGACAC 58.920 55.000 0.00 0.00 0.00 3.67
2454 2482 0.976641 AGATCTGTTTGCCGAGGACA 59.023 50.000 0.00 0.00 0.00 4.02
2455 2483 1.338200 ACAGATCTGTTTGCCGAGGAC 60.338 52.381 22.89 0.00 41.83 3.85
2456 2484 0.976641 ACAGATCTGTTTGCCGAGGA 59.023 50.000 22.89 0.00 41.83 3.71
2457 2485 1.066573 AGACAGATCTGTTTGCCGAGG 60.067 52.381 28.46 0.00 45.05 4.63
2458 2486 2.376808 AGACAGATCTGTTTGCCGAG 57.623 50.000 28.46 0.00 45.05 4.63
2459 2487 2.839486 AAGACAGATCTGTTTGCCGA 57.161 45.000 28.46 0.00 45.05 5.54
2460 2488 4.092091 GTCTTAAGACAGATCTGTTTGCCG 59.908 45.833 28.46 16.86 45.05 5.69
2461 2489 5.538067 GTCTTAAGACAGATCTGTTTGCC 57.462 43.478 28.46 15.97 45.05 4.52
2474 2502 3.119424 AGGCTCGCTAACAGTCTTAAGAC 60.119 47.826 25.24 25.24 45.08 3.01
2475 2503 3.090037 AGGCTCGCTAACAGTCTTAAGA 58.910 45.455 0.00 0.00 0.00 2.10
2476 2504 3.512033 AGGCTCGCTAACAGTCTTAAG 57.488 47.619 0.00 0.00 0.00 1.85
2477 2505 5.395682 TTTAGGCTCGCTAACAGTCTTAA 57.604 39.130 0.00 0.00 0.00 1.85
2478 2506 5.105473 ACATTTAGGCTCGCTAACAGTCTTA 60.105 40.000 0.00 0.00 0.00 2.10
2479 2507 3.955650 TTTAGGCTCGCTAACAGTCTT 57.044 42.857 0.00 0.00 0.00 3.01
2480 2508 3.195825 ACATTTAGGCTCGCTAACAGTCT 59.804 43.478 0.00 0.00 0.00 3.24
2481 2509 3.307242 CACATTTAGGCTCGCTAACAGTC 59.693 47.826 0.00 0.00 0.00 3.51
2482 2510 3.262420 CACATTTAGGCTCGCTAACAGT 58.738 45.455 0.00 0.00 0.00 3.55
2483 2511 2.609459 CCACATTTAGGCTCGCTAACAG 59.391 50.000 0.00 0.00 0.00 3.16
2484 2512 2.027561 ACCACATTTAGGCTCGCTAACA 60.028 45.455 0.00 0.00 0.00 2.41
2485 2513 2.351726 CACCACATTTAGGCTCGCTAAC 59.648 50.000 0.00 0.00 0.00 2.34
2486 2514 2.627945 CACCACATTTAGGCTCGCTAA 58.372 47.619 0.00 0.00 0.00 3.09
2487 2515 1.134521 CCACCACATTTAGGCTCGCTA 60.135 52.381 0.00 0.00 0.00 4.26
2488 2516 0.392998 CCACCACATTTAGGCTCGCT 60.393 55.000 0.00 0.00 0.00 4.93
2489 2517 0.676782 ACCACCACATTTAGGCTCGC 60.677 55.000 0.00 0.00 0.00 5.03
2490 2518 1.086696 CACCACCACATTTAGGCTCG 58.913 55.000 0.00 0.00 0.00 5.03
2491 2519 2.200373 ACACCACCACATTTAGGCTC 57.800 50.000 0.00 0.00 0.00 4.70
2492 2520 2.675658 AACACCACCACATTTAGGCT 57.324 45.000 0.00 0.00 0.00 4.58
2493 2521 3.428862 GCATAACACCACCACATTTAGGC 60.429 47.826 0.00 0.00 0.00 3.93
2494 2522 4.016444 AGCATAACACCACCACATTTAGG 58.984 43.478 0.00 0.00 0.00 2.69
2495 2523 5.415701 AGAAGCATAACACCACCACATTTAG 59.584 40.000 0.00 0.00 0.00 1.85
2496 2524 5.321102 AGAAGCATAACACCACCACATTTA 58.679 37.500 0.00 0.00 0.00 1.40
2497 2525 4.151883 AGAAGCATAACACCACCACATTT 58.848 39.130 0.00 0.00 0.00 2.32
2498 2526 3.766545 AGAAGCATAACACCACCACATT 58.233 40.909 0.00 0.00 0.00 2.71
2499 2527 3.439857 AGAAGCATAACACCACCACAT 57.560 42.857 0.00 0.00 0.00 3.21
2500 2528 2.949177 AGAAGCATAACACCACCACA 57.051 45.000 0.00 0.00 0.00 4.17
2501 2529 3.146066 TGAAGAAGCATAACACCACCAC 58.854 45.455 0.00 0.00 0.00 4.16
2502 2530 3.500448 TGAAGAAGCATAACACCACCA 57.500 42.857 0.00 0.00 0.00 4.17
2503 2531 4.009675 TGATGAAGAAGCATAACACCACC 58.990 43.478 0.00 0.00 0.00 4.61
2504 2532 4.437930 GCTGATGAAGAAGCATAACACCAC 60.438 45.833 0.00 0.00 39.31 4.16
2505 2533 3.691118 GCTGATGAAGAAGCATAACACCA 59.309 43.478 0.00 0.00 39.31 4.17
2506 2534 3.691118 TGCTGATGAAGAAGCATAACACC 59.309 43.478 0.00 0.00 44.26 4.16
2507 2535 4.952262 TGCTGATGAAGAAGCATAACAC 57.048 40.909 0.00 0.00 44.26 3.32
2514 2542 2.819115 TCGAGATGCTGATGAAGAAGC 58.181 47.619 0.00 0.00 39.96 3.86
2515 2543 4.873817 AGATCGAGATGCTGATGAAGAAG 58.126 43.478 0.00 0.00 0.00 2.85
2516 2544 4.933505 AGATCGAGATGCTGATGAAGAA 57.066 40.909 0.00 0.00 0.00 2.52
2517 2545 4.556302 CGAAGATCGAGATGCTGATGAAGA 60.556 45.833 0.00 0.00 43.74 2.87
2518 2546 3.669588 CGAAGATCGAGATGCTGATGAAG 59.330 47.826 0.00 0.00 43.74 3.02
2519 2547 3.316308 TCGAAGATCGAGATGCTGATGAA 59.684 43.478 0.00 0.00 44.82 2.57
2520 2548 2.880890 TCGAAGATCGAGATGCTGATGA 59.119 45.455 0.00 0.00 44.82 2.92
2521 2549 3.279853 TCGAAGATCGAGATGCTGATG 57.720 47.619 0.00 0.00 44.82 3.07
2532 2560 1.227089 CAGGCCACCTCGAAGATCG 60.227 63.158 5.01 0.00 42.10 3.69
2533 2561 0.250513 AACAGGCCACCTCGAAGATC 59.749 55.000 5.01 0.00 33.89 2.75
2534 2562 0.693049 AAACAGGCCACCTCGAAGAT 59.307 50.000 5.01 0.00 33.89 2.40
2535 2563 0.472471 AAAACAGGCCACCTCGAAGA 59.528 50.000 5.01 0.00 0.00 2.87
2536 2564 1.318576 AAAAACAGGCCACCTCGAAG 58.681 50.000 5.01 0.00 0.00 3.79
2537 2565 3.505835 AAAAACAGGCCACCTCGAA 57.494 47.368 5.01 0.00 0.00 3.71
2553 2581 3.425625 GCACAACACTCTCACGTGAAAAA 60.426 43.478 20.49 7.21 38.27 1.94
2554 2582 2.095213 GCACAACACTCTCACGTGAAAA 59.905 45.455 20.49 9.80 38.27 2.29
2555 2583 1.663643 GCACAACACTCTCACGTGAAA 59.336 47.619 20.49 5.35 38.27 2.69
2556 2584 1.286501 GCACAACACTCTCACGTGAA 58.713 50.000 20.49 9.70 38.27 3.18
2557 2585 0.174617 TGCACAACACTCTCACGTGA 59.825 50.000 18.88 18.88 38.27 4.35
2558 2586 1.220529 ATGCACAACACTCTCACGTG 58.779 50.000 9.94 9.94 40.67 4.49
2559 2587 2.812358 TATGCACAACACTCTCACGT 57.188 45.000 0.00 0.00 0.00 4.49
2560 2588 5.043248 TGATATATGCACAACACTCTCACG 58.957 41.667 0.00 0.00 0.00 4.35
2561 2589 7.488187 AATGATATATGCACAACACTCTCAC 57.512 36.000 0.00 0.00 0.00 3.51
2562 2590 9.045223 GTAAATGATATATGCACAACACTCTCA 57.955 33.333 0.00 0.00 0.00 3.27
2563 2591 9.265901 AGTAAATGATATATGCACAACACTCTC 57.734 33.333 0.00 0.00 0.00 3.20


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

AutoCloner maintained by Alex Coulton.