Multiple sequence alignment - TraesCS6B01G276600

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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 TraesCS6B01G276600 chr6B 100.000 2843 0 0 1 2843 500524404 500521562 0.000000e+00 5251
1 TraesCS6B01G276600 chr6B 89.696 427 35 5 2418 2843 177796664 177797082 1.160000e-148 536
2 TraesCS6B01G276600 chr6B 92.627 217 16 0 498 714 279576805 279576589 2.130000e-81 313
3 TraesCS6B01G276600 chr6D 95.018 1706 48 10 732 2425 323043952 323045632 0.000000e+00 2645
4 TraesCS6B01G276600 chr6A 93.081 1720 54 19 730 2431 460631076 460632748 0.000000e+00 2457
5 TraesCS6B01G276600 chr5A 96.218 714 6 1 1 714 396681930 396682622 0.000000e+00 1149
6 TraesCS6B01G276600 chr5A 92.727 220 16 0 495 714 635347189 635347408 4.570000e-83 318
7 TraesCS6B01G276600 chr5A 90.868 219 20 0 496 714 55037569 55037787 7.700000e-76 294
8 TraesCS6B01G276600 chr1B 96.327 490 18 0 1 490 487680715 487680226 0.000000e+00 806
9 TraesCS6B01G276600 chr1B 90.499 421 35 4 2424 2843 10371122 10370706 4.140000e-153 551
10 TraesCS6B01G276600 chr1D 96.122 490 19 0 1 490 364385579 364385090 0.000000e+00 800
11 TraesCS6B01G276600 chr1A 95.714 490 21 0 1 490 463401530 463401041 0.000000e+00 789
12 TraesCS6B01G276600 chr7B 90.974 421 36 2 2424 2843 659240207 659239788 1.480000e-157 566
13 TraesCS6B01G276600 chr7B 89.737 419 40 3 2426 2843 646376646 646376230 1.500000e-147 532
14 TraesCS6B01G276600 chr4B 91.148 418 33 4 2427 2843 1114504 1114918 5.320000e-157 564
15 TraesCS6B01G276600 chr5B 90.931 419 34 3 2426 2843 493563958 493564373 6.880000e-156 560
16 TraesCS6B01G276600 chr5B 94.570 221 12 0 495 715 558014298 558014518 2.710000e-90 342
17 TraesCS6B01G276600 chr5B 94.608 204 11 0 501 704 557957900 557957697 1.640000e-82 316
18 TraesCS6B01G276600 chr5B 91.324 219 19 0 496 714 78306021 78306239 1.660000e-77 300
19 TraesCS6B01G276600 chr4A 90.238 420 37 4 2426 2843 689832825 689832408 1.930000e-151 545
20 TraesCS6B01G276600 chr2B 90.238 420 37 3 2426 2843 731195776 731196193 1.930000e-151 545
21 TraesCS6B01G276600 chr2B 92.273 220 17 0 495 714 190980415 190980196 2.130000e-81 313
22 TraesCS6B01G276600 chr3B 89.573 422 39 5 2424 2843 818933640 818934058 5.390000e-147 531
23 TraesCS6B01G276600 chr3A 91.705 217 18 0 498 714 44779818 44779602 4.600000e-78 302


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 TraesCS6B01G276600 chr6B 500521562 500524404 2842 True 5251 5251 100.000 1 2843 1 chr6B.!!$R2 2842
1 TraesCS6B01G276600 chr6D 323043952 323045632 1680 False 2645 2645 95.018 732 2425 1 chr6D.!!$F1 1693
2 TraesCS6B01G276600 chr6A 460631076 460632748 1672 False 2457 2457 93.081 730 2431 1 chr6A.!!$F1 1701
3 TraesCS6B01G276600 chr5A 396681930 396682622 692 False 1149 1149 96.218 1 714 1 chr5A.!!$F2 713

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
907 908 0.035176 TACTTTACCACGCCACCACC 59.965 55.0 0.0 0.0 0.0 4.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2226 2249 0.024238 GATACGATGCGATGCGATGC 59.976 55.0 0.0 0.0 0.0 3.91 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
120 121 5.876651 ATATCAGTGATGCAGTTGGACTA 57.123 39.130 16.15 0.00 0.00 2.59
152 153 0.726827 GGCGATGCAGATTGTTTCGA 59.273 50.000 7.74 0.00 31.74 3.71
337 338 2.044946 AGCTGGCGAAACCCCATC 60.045 61.111 0.00 0.00 37.83 3.51
338 339 2.361104 GCTGGCGAAACCCCATCA 60.361 61.111 0.00 0.00 37.83 3.07
339 340 2.700773 GCTGGCGAAACCCCATCAC 61.701 63.158 0.00 0.00 37.83 3.06
340 341 1.303236 CTGGCGAAACCCCATCACA 60.303 57.895 0.00 0.00 37.83 3.58
341 342 0.893270 CTGGCGAAACCCCATCACAA 60.893 55.000 0.00 0.00 37.83 3.33
342 343 1.175983 TGGCGAAACCCCATCACAAC 61.176 55.000 0.00 0.00 37.83 3.32
343 344 1.175983 GGCGAAACCCCATCACAACA 61.176 55.000 0.00 0.00 0.00 3.33
344 345 0.671251 GCGAAACCCCATCACAACAA 59.329 50.000 0.00 0.00 0.00 2.83
345 346 1.272212 GCGAAACCCCATCACAACAAT 59.728 47.619 0.00 0.00 0.00 2.71
346 347 2.926159 GCGAAACCCCATCACAACAATG 60.926 50.000 0.00 0.00 0.00 2.82
347 348 2.687370 GAAACCCCATCACAACAATGC 58.313 47.619 0.00 0.00 0.00 3.56
348 349 2.014010 AACCCCATCACAACAATGCT 57.986 45.000 0.00 0.00 0.00 3.79
349 350 1.259609 ACCCCATCACAACAATGCTG 58.740 50.000 0.00 0.00 0.00 4.41
350 351 0.533491 CCCCATCACAACAATGCTGG 59.467 55.000 0.00 0.00 0.00 4.85
351 352 1.259609 CCCATCACAACAATGCTGGT 58.740 50.000 0.00 0.00 0.00 4.00
352 353 1.067425 CCCATCACAACAATGCTGGTG 60.067 52.381 0.00 0.00 46.50 4.17
353 354 1.887854 CCATCACAACAATGCTGGTGA 59.112 47.619 0.00 5.03 43.55 4.02
354 355 2.296752 CCATCACAACAATGCTGGTGAA 59.703 45.455 0.00 0.00 43.55 3.18
355 356 3.311106 CATCACAACAATGCTGGTGAAC 58.689 45.455 0.00 0.00 43.55 3.18
356 357 2.373224 TCACAACAATGCTGGTGAACA 58.627 42.857 0.00 0.00 43.55 3.18
357 358 2.957680 TCACAACAATGCTGGTGAACAT 59.042 40.909 0.00 0.00 43.55 2.71
544 545 0.458370 GGCTAAGTGCAAAATGCCGG 60.458 55.000 0.00 0.00 44.23 6.13
586 587 1.244019 GGCATCCACTTGGCGAGTTT 61.244 55.000 4.15 0.00 36.10 2.66
714 715 0.597637 CCCGCAGTGCTATTACCTCG 60.598 60.000 14.33 0.00 0.00 4.63
715 716 0.597637 CCGCAGTGCTATTACCTCGG 60.598 60.000 14.33 0.00 32.44 4.63
716 717 0.102481 CGCAGTGCTATTACCTCGGT 59.898 55.000 14.33 0.00 0.00 4.69
717 718 1.335810 CGCAGTGCTATTACCTCGGTA 59.664 52.381 14.33 0.00 0.00 4.02
718 719 2.223641 CGCAGTGCTATTACCTCGGTAA 60.224 50.000 14.33 10.70 43.56 2.85
719 720 3.735820 CGCAGTGCTATTACCTCGGTAAA 60.736 47.826 14.33 2.61 42.82 2.01
720 721 4.377897 GCAGTGCTATTACCTCGGTAAAT 58.622 43.478 8.18 4.82 42.82 1.40
721 722 4.814771 GCAGTGCTATTACCTCGGTAAATT 59.185 41.667 8.18 0.61 42.82 1.82
722 723 5.277345 GCAGTGCTATTACCTCGGTAAATTG 60.277 44.000 8.18 4.95 42.82 2.32
723 724 5.236478 CAGTGCTATTACCTCGGTAAATTGG 59.764 44.000 12.17 1.40 42.82 3.16
724 725 4.024302 GTGCTATTACCTCGGTAAATTGGC 60.024 45.833 12.17 10.66 42.82 4.52
725 726 4.131596 GCTATTACCTCGGTAAATTGGCA 58.868 43.478 12.17 0.00 42.82 4.92
726 727 4.760204 GCTATTACCTCGGTAAATTGGCAT 59.240 41.667 12.17 0.00 42.82 4.40
727 728 5.935789 GCTATTACCTCGGTAAATTGGCATA 59.064 40.000 12.17 0.00 42.82 3.14
728 729 6.092259 GCTATTACCTCGGTAAATTGGCATAG 59.908 42.308 12.17 8.68 42.82 2.23
731 732 4.957296 ACCTCGGTAAATTGGCATAGTAG 58.043 43.478 0.00 0.00 0.00 2.57
734 735 5.924825 CCTCGGTAAATTGGCATAGTAGTAC 59.075 44.000 0.00 0.00 0.00 2.73
737 738 8.413309 TCGGTAAATTGGCATAGTAGTACTAT 57.587 34.615 15.79 15.79 41.82 2.12
862 863 0.456312 CGAGCGACAGGAACACTACC 60.456 60.000 0.00 0.00 0.00 3.18
863 864 0.601558 GAGCGACAGGAACACTACCA 59.398 55.000 0.00 0.00 0.00 3.25
864 865 0.603569 AGCGACAGGAACACTACCAG 59.396 55.000 0.00 0.00 0.00 4.00
884 885 3.373748 CAGTACCACAATAAGCATTCGCA 59.626 43.478 0.00 0.00 42.27 5.10
902 903 1.406341 GCATCCTACTTTACCACGCCA 60.406 52.381 0.00 0.00 0.00 5.69
903 904 2.277084 CATCCTACTTTACCACGCCAC 58.723 52.381 0.00 0.00 0.00 5.01
904 905 0.609662 TCCTACTTTACCACGCCACC 59.390 55.000 0.00 0.00 0.00 4.61
905 906 0.322322 CCTACTTTACCACGCCACCA 59.678 55.000 0.00 0.00 0.00 4.17
906 907 1.435577 CTACTTTACCACGCCACCAC 58.564 55.000 0.00 0.00 0.00 4.16
907 908 0.035176 TACTTTACCACGCCACCACC 59.965 55.000 0.00 0.00 0.00 4.61
988 995 2.240493 AACACAACGTCAGCTAGCTT 57.760 45.000 16.46 0.00 0.00 3.74
1929 1941 2.686405 ACCATCAACTGCATGCATGTAG 59.314 45.455 34.56 34.56 44.64 2.74
1940 1952 6.849588 TGCATGCATGTAGTAATAGTTCTG 57.150 37.500 26.79 0.00 0.00 3.02
1941 1953 6.581712 TGCATGCATGTAGTAATAGTTCTGA 58.418 36.000 26.79 0.00 0.00 3.27
1972 1984 2.051256 CCCGTCGATCCGATCACG 60.051 66.667 18.57 18.57 38.42 4.35
1980 1992 2.978452 GATCCGATCACGCACCCAGG 62.978 65.000 3.33 0.00 38.29 4.45
2013 2025 3.753272 AGCAGTTTAAGGCATGTACAGTG 59.247 43.478 0.33 1.44 0.00 3.66
2014 2026 3.670627 GCAGTTTAAGGCATGTACAGTGC 60.671 47.826 17.01 17.01 41.78 4.40
2015 2027 3.753272 CAGTTTAAGGCATGTACAGTGCT 59.247 43.478 21.55 11.24 42.16 4.40
2016 2028 3.753272 AGTTTAAGGCATGTACAGTGCTG 59.247 43.478 21.55 9.30 42.16 4.41
2017 2029 3.417069 TTAAGGCATGTACAGTGCTGT 57.583 42.857 21.55 9.90 46.87 4.40
2018 2030 4.545208 TTAAGGCATGTACAGTGCTGTA 57.455 40.909 21.55 7.87 44.42 2.74
2136 2159 3.226777 CACTGTGGTTGGTTTATTCCCA 58.773 45.455 0.00 0.00 0.00 4.37
2151 2174 0.834612 TCCCAGGAGTTGTCGTGTTT 59.165 50.000 0.00 0.00 36.94 2.83
2173 2196 2.558147 GGGGAGGGGGAGGCTTTTT 61.558 63.158 0.00 0.00 0.00 1.94
2183 2206 1.135373 GGAGGCTTTTTAGGCTTTCGC 60.135 52.381 0.00 0.00 45.06 4.70
2425 2460 3.953712 TCAATTCAGGCGTCTCTGTTA 57.046 42.857 0.00 0.00 36.25 2.41
2427 2462 2.932614 CAATTCAGGCGTCTCTGTTAGG 59.067 50.000 0.00 0.00 36.25 2.69
2429 2464 1.153549 CAGGCGTCTCTGTTAGGCC 60.154 63.158 0.00 0.00 45.98 5.19
2430 2465 2.978824 GGCGTCTCTGTTAGGCCA 59.021 61.111 5.01 0.00 45.18 5.36
2431 2466 1.295423 GGCGTCTCTGTTAGGCCAA 59.705 57.895 5.01 0.00 45.18 4.52
2432 2467 1.019805 GGCGTCTCTGTTAGGCCAAC 61.020 60.000 5.01 8.36 45.18 3.77
2433 2468 0.037232 GCGTCTCTGTTAGGCCAACT 60.037 55.000 5.01 0.00 38.05 3.16
2434 2469 1.997669 CGTCTCTGTTAGGCCAACTC 58.002 55.000 5.01 0.00 38.05 3.01
2435 2470 1.272490 CGTCTCTGTTAGGCCAACTCA 59.728 52.381 5.01 0.00 38.05 3.41
2436 2471 2.288825 CGTCTCTGTTAGGCCAACTCAA 60.289 50.000 5.01 0.00 38.05 3.02
2437 2472 3.067833 GTCTCTGTTAGGCCAACTCAAC 58.932 50.000 5.01 1.23 38.05 3.18
2438 2473 2.038557 TCTCTGTTAGGCCAACTCAACC 59.961 50.000 5.01 0.00 38.05 3.77
2439 2474 1.156736 CTGTTAGGCCAACTCAACCG 58.843 55.000 5.01 0.00 38.05 4.44
2440 2475 0.887387 TGTTAGGCCAACTCAACCGC 60.887 55.000 5.01 0.00 38.05 5.68
2441 2476 0.887387 GTTAGGCCAACTCAACCGCA 60.887 55.000 5.01 0.00 34.06 5.69
2442 2477 0.887387 TTAGGCCAACTCAACCGCAC 60.887 55.000 5.01 0.00 0.00 5.34
2443 2478 4.025401 GGCCAACTCAACCGCACG 62.025 66.667 0.00 0.00 0.00 5.34
2444 2479 2.970324 GCCAACTCAACCGCACGA 60.970 61.111 0.00 0.00 0.00 4.35
2445 2480 2.935955 CCAACTCAACCGCACGAC 59.064 61.111 0.00 0.00 0.00 4.34
2446 2481 2.604174 CCAACTCAACCGCACGACC 61.604 63.158 0.00 0.00 0.00 4.79
2447 2482 1.594293 CAACTCAACCGCACGACCT 60.594 57.895 0.00 0.00 0.00 3.85
2448 2483 1.300697 AACTCAACCGCACGACCTC 60.301 57.895 0.00 0.00 0.00 3.85
2449 2484 2.023414 AACTCAACCGCACGACCTCA 62.023 55.000 0.00 0.00 0.00 3.86
2450 2485 1.300620 CTCAACCGCACGACCTCAA 60.301 57.895 0.00 0.00 0.00 3.02
2451 2486 1.284982 CTCAACCGCACGACCTCAAG 61.285 60.000 0.00 0.00 0.00 3.02
2452 2487 2.665185 AACCGCACGACCTCAAGC 60.665 61.111 0.00 0.00 0.00 4.01
2455 2490 4.717629 CGCACGACCTCAAGCGGA 62.718 66.667 0.00 0.00 45.83 5.54
2456 2491 3.112709 GCACGACCTCAAGCGGAC 61.113 66.667 0.00 0.00 0.00 4.79
2457 2492 2.805353 CACGACCTCAAGCGGACG 60.805 66.667 0.00 0.00 45.39 4.79
2459 2494 2.504244 CGACCTCAAGCGGACGTC 60.504 66.667 7.13 7.13 37.43 4.34
2460 2495 2.126031 GACCTCAAGCGGACGTCC 60.126 66.667 25.28 25.28 0.00 4.79
2480 2515 0.459899 GGATTGGCCGGATTTTGTCC 59.540 55.000 5.05 0.00 44.10 4.02
2497 2532 3.470267 CGTTTGGGACGTCGATGG 58.530 61.111 9.92 0.00 46.49 3.51
2498 2533 2.098233 CGTTTGGGACGTCGATGGG 61.098 63.158 9.92 0.00 46.49 4.00
2499 2534 1.004200 GTTTGGGACGTCGATGGGT 60.004 57.895 9.92 0.00 0.00 4.51
2500 2535 0.604511 GTTTGGGACGTCGATGGGTT 60.605 55.000 9.92 0.00 0.00 4.11
2501 2536 0.320946 TTTGGGACGTCGATGGGTTC 60.321 55.000 9.92 0.00 0.00 3.62
2509 2544 4.521075 CGATGGGTTCGCTCATGT 57.479 55.556 0.00 0.00 38.69 3.21
2510 2545 2.301505 CGATGGGTTCGCTCATGTC 58.698 57.895 0.00 0.00 38.69 3.06
2511 2546 1.154205 CGATGGGTTCGCTCATGTCC 61.154 60.000 0.00 0.00 38.69 4.02
2512 2547 1.153369 ATGGGTTCGCTCATGTCCG 60.153 57.895 0.00 0.00 36.84 4.79
2513 2548 2.511600 GGGTTCGCTCATGTCCGG 60.512 66.667 0.00 0.00 0.00 5.14
2514 2549 3.195698 GGTTCGCTCATGTCCGGC 61.196 66.667 0.00 0.00 0.00 6.13
2515 2550 2.125512 GTTCGCTCATGTCCGGCT 60.126 61.111 0.00 0.00 0.00 5.52
2516 2551 2.125552 TTCGCTCATGTCCGGCTG 60.126 61.111 0.00 0.00 0.00 4.85
2517 2552 2.942796 TTCGCTCATGTCCGGCTGT 61.943 57.895 0.00 0.00 0.00 4.40
2518 2553 3.190849 CGCTCATGTCCGGCTGTG 61.191 66.667 0.00 0.00 0.00 3.66
2519 2554 2.046892 GCTCATGTCCGGCTGTGT 60.047 61.111 0.00 0.00 0.00 3.72
2520 2555 2.103042 GCTCATGTCCGGCTGTGTC 61.103 63.158 0.00 0.00 0.00 3.67
2521 2556 1.448540 CTCATGTCCGGCTGTGTCC 60.449 63.158 0.00 0.00 0.00 4.02
2528 2563 4.619227 CGGCTGTGTCCGTTGGGT 62.619 66.667 0.00 0.00 44.18 4.51
2529 2564 2.668550 GGCTGTGTCCGTTGGGTC 60.669 66.667 0.00 0.00 33.83 4.46
2530 2565 3.041940 GCTGTGTCCGTTGGGTCG 61.042 66.667 0.00 0.00 33.83 4.79
2531 2566 2.420043 CTGTGTCCGTTGGGTCGT 59.580 61.111 0.00 0.00 33.83 4.34
2532 2567 1.954146 CTGTGTCCGTTGGGTCGTG 60.954 63.158 0.00 0.00 33.83 4.35
2533 2568 2.107546 GTGTCCGTTGGGTCGTGT 59.892 61.111 0.00 0.00 33.83 4.49
2534 2569 2.107343 TGTCCGTTGGGTCGTGTG 59.893 61.111 0.00 0.00 33.83 3.82
2535 2570 2.107546 GTCCGTTGGGTCGTGTGT 59.892 61.111 0.00 0.00 33.83 3.72
2536 2571 2.107343 TCCGTTGGGTCGTGTGTG 59.893 61.111 0.00 0.00 33.83 3.82
2537 2572 3.645975 CCGTTGGGTCGTGTGTGC 61.646 66.667 0.00 0.00 0.00 4.57
2538 2573 3.995669 CGTTGGGTCGTGTGTGCG 61.996 66.667 0.00 0.00 0.00 5.34
2539 2574 4.307908 GTTGGGTCGTGTGTGCGC 62.308 66.667 0.00 0.00 0.00 6.09
2562 2597 2.671619 CACGACCGCACCCCAAAT 60.672 61.111 0.00 0.00 0.00 2.32
2563 2598 2.359478 ACGACCGCACCCCAAATC 60.359 61.111 0.00 0.00 0.00 2.17
2564 2599 2.359354 CGACCGCACCCCAAATCA 60.359 61.111 0.00 0.00 0.00 2.57
2565 2600 1.748879 CGACCGCACCCCAAATCAT 60.749 57.895 0.00 0.00 0.00 2.45
2566 2601 1.809207 GACCGCACCCCAAATCATG 59.191 57.895 0.00 0.00 0.00 3.07
2567 2602 0.965363 GACCGCACCCCAAATCATGT 60.965 55.000 0.00 0.00 0.00 3.21
2568 2603 0.965363 ACCGCACCCCAAATCATGTC 60.965 55.000 0.00 0.00 0.00 3.06
2569 2604 1.666209 CCGCACCCCAAATCATGTCC 61.666 60.000 0.00 0.00 0.00 4.02
2570 2605 1.809207 GCACCCCAAATCATGTCCG 59.191 57.895 0.00 0.00 0.00 4.79
2571 2606 1.666209 GCACCCCAAATCATGTCCGG 61.666 60.000 0.00 0.00 0.00 5.14
2572 2607 1.037030 CACCCCAAATCATGTCCGGG 61.037 60.000 0.00 0.00 34.96 5.73
2573 2608 4.258206 CCCAAATCATGTCCGGGG 57.742 61.111 0.00 0.00 32.88 5.73
2574 2609 1.306296 CCCAAATCATGTCCGGGGT 59.694 57.895 0.00 0.00 32.88 4.95
2575 2610 1.037030 CCCAAATCATGTCCGGGGTG 61.037 60.000 0.00 0.00 32.88 4.61
2576 2611 1.037030 CCAAATCATGTCCGGGGTGG 61.037 60.000 0.00 0.00 40.09 4.61
2586 2621 3.311725 CGGGGTGGACGGGAATAA 58.688 61.111 0.00 0.00 0.00 1.40
2587 2622 1.603306 CGGGGTGGACGGGAATAAA 59.397 57.895 0.00 0.00 0.00 1.40
2588 2623 0.035247 CGGGGTGGACGGGAATAAAA 60.035 55.000 0.00 0.00 0.00 1.52
2589 2624 1.613785 CGGGGTGGACGGGAATAAAAA 60.614 52.381 0.00 0.00 0.00 1.94
2658 2693 8.857694 AAATGTAAAACATATATAGGGGTCGG 57.142 34.615 0.00 0.00 37.97 4.79
2659 2694 5.797051 TGTAAAACATATATAGGGGTCGGC 58.203 41.667 0.00 0.00 0.00 5.54
2660 2695 3.994931 AAACATATATAGGGGTCGGCC 57.005 47.619 0.00 0.00 0.00 6.13
2661 2696 2.634639 ACATATATAGGGGTCGGCCA 57.365 50.000 9.07 0.00 36.17 5.36
2662 2697 2.185387 ACATATATAGGGGTCGGCCAC 58.815 52.381 9.07 3.04 38.88 5.01
2663 2698 2.184533 CATATATAGGGGTCGGCCACA 58.815 52.381 12.87 0.00 41.86 4.17
2664 2699 2.402182 TATATAGGGGTCGGCCACAA 57.598 50.000 12.87 0.00 41.86 3.33
2665 2700 1.513858 ATATAGGGGTCGGCCACAAA 58.486 50.000 12.87 0.00 41.86 2.83
2666 2701 1.287217 TATAGGGGTCGGCCACAAAA 58.713 50.000 12.87 0.00 41.86 2.44
2667 2702 0.323087 ATAGGGGTCGGCCACAAAAC 60.323 55.000 12.87 0.00 41.86 2.43
2668 2703 2.734948 TAGGGGTCGGCCACAAAACG 62.735 60.000 12.87 0.00 41.86 3.60
2669 2704 2.592287 GGGTCGGCCACAAAACGA 60.592 61.111 9.07 0.00 36.17 3.85
2672 2707 3.412061 TCGGCCACAAAACGACAC 58.588 55.556 2.24 0.00 0.00 3.67
2673 2708 2.052590 CGGCCACAAAACGACACG 60.053 61.111 2.24 0.00 0.00 4.49
2674 2709 2.330041 GGCCACAAAACGACACGG 59.670 61.111 0.00 0.00 0.00 4.94
2675 2710 2.474612 GGCCACAAAACGACACGGT 61.475 57.895 0.00 0.00 0.00 4.83
2676 2711 1.430228 GCCACAAAACGACACGGTT 59.570 52.632 0.00 0.00 38.92 4.44
2678 2713 1.817609 CCACAAAACGACACGGTTTC 58.182 50.000 4.21 0.00 43.51 2.78
2679 2714 1.130749 CCACAAAACGACACGGTTTCA 59.869 47.619 4.21 0.00 43.51 2.69
2680 2715 2.414293 CCACAAAACGACACGGTTTCAA 60.414 45.455 4.21 0.00 43.51 2.69
2681 2716 2.590712 CACAAAACGACACGGTTTCAAC 59.409 45.455 4.21 0.00 43.51 3.18
2682 2717 1.835365 CAAAACGACACGGTTTCAACG 59.165 47.619 4.21 0.00 43.51 4.10
2683 2718 0.374410 AAACGACACGGTTTCAACGG 59.626 50.000 0.00 0.00 30.38 4.44
2684 2719 2.039062 AACGACACGGTTTCAACGGC 62.039 55.000 0.00 0.00 35.23 5.68
2685 2720 2.635338 GACACGGTTTCAACGGCC 59.365 61.111 0.00 0.00 35.23 6.13
2689 2724 3.656045 CGGTTTCAACGGCCGCTT 61.656 61.111 28.58 16.23 38.99 4.68
2690 2725 2.319096 CGGTTTCAACGGCCGCTTA 61.319 57.895 28.58 7.57 38.99 3.09
2691 2726 1.843734 CGGTTTCAACGGCCGCTTAA 61.844 55.000 28.58 14.15 38.99 1.85
2692 2727 0.311477 GGTTTCAACGGCCGCTTAAA 59.689 50.000 28.58 19.51 0.00 1.52
2693 2728 1.269154 GGTTTCAACGGCCGCTTAAAA 60.269 47.619 28.58 17.60 0.00 1.52
2694 2729 2.048498 GTTTCAACGGCCGCTTAAAAG 58.952 47.619 28.58 7.39 0.00 2.27
2695 2730 0.594110 TTCAACGGCCGCTTAAAAGG 59.406 50.000 28.58 5.82 0.00 3.11
2704 2739 3.759527 CCGCTTAAAAGGCCTAGTTTC 57.240 47.619 5.16 0.00 0.00 2.78
2705 2740 3.078837 CCGCTTAAAAGGCCTAGTTTCA 58.921 45.455 5.16 0.00 0.00 2.69
2706 2741 3.694566 CCGCTTAAAAGGCCTAGTTTCAT 59.305 43.478 5.16 0.00 0.00 2.57
2707 2742 4.879545 CCGCTTAAAAGGCCTAGTTTCATA 59.120 41.667 5.16 0.00 0.00 2.15
2708 2743 5.355910 CCGCTTAAAAGGCCTAGTTTCATAA 59.644 40.000 5.16 0.00 0.00 1.90
2709 2744 6.039382 CCGCTTAAAAGGCCTAGTTTCATAAT 59.961 38.462 5.16 0.00 0.00 1.28
2710 2745 7.416326 CCGCTTAAAAGGCCTAGTTTCATAATT 60.416 37.037 5.16 0.00 0.00 1.40
2711 2746 8.617809 CGCTTAAAAGGCCTAGTTTCATAATTA 58.382 33.333 5.16 0.00 0.00 1.40
2744 2779 7.898014 ACAAAATACAAAGAAAACTCCTCCT 57.102 32.000 0.00 0.00 0.00 3.69
2745 2780 7.716612 ACAAAATACAAAGAAAACTCCTCCTG 58.283 34.615 0.00 0.00 0.00 3.86
2746 2781 6.901081 AAATACAAAGAAAACTCCTCCTGG 57.099 37.500 0.00 0.00 0.00 4.45
2747 2782 3.229697 ACAAAGAAAACTCCTCCTGGG 57.770 47.619 0.00 0.00 0.00 4.45
2748 2783 1.889170 CAAAGAAAACTCCTCCTGGGC 59.111 52.381 0.00 0.00 34.39 5.36
2749 2784 0.036875 AAGAAAACTCCTCCTGGGCG 59.963 55.000 0.00 0.00 34.39 6.13
2750 2785 2.034221 AAAACTCCTCCTGGGCGC 59.966 61.111 0.00 0.00 34.39 6.53
2751 2786 2.470938 GAAAACTCCTCCTGGGCGCT 62.471 60.000 7.64 0.00 34.39 5.92
2752 2787 2.470938 AAAACTCCTCCTGGGCGCTC 62.471 60.000 7.64 2.47 34.39 5.03
2793 2828 4.719369 GCCGTCGCCGTCTTCACT 62.719 66.667 0.00 0.00 0.00 3.41
2794 2829 2.805353 CCGTCGCCGTCTTCACTG 60.805 66.667 0.00 0.00 0.00 3.66
2795 2830 2.805353 CGTCGCCGTCTTCACTGG 60.805 66.667 0.00 0.00 0.00 4.00
2796 2831 3.112709 GTCGCCGTCTTCACTGGC 61.113 66.667 0.00 0.00 45.39 4.85
2797 2832 4.373116 TCGCCGTCTTCACTGGCC 62.373 66.667 0.00 0.00 46.12 5.36
2831 2866 3.785499 TCGCTGACGAGGTCGACG 61.785 66.667 9.92 0.17 45.12 5.12
2832 2867 4.086178 CGCTGACGAGGTCGACGT 62.086 66.667 11.12 11.12 46.58 4.34
2833 2868 2.733671 CGCTGACGAGGTCGACGTA 61.734 63.158 11.30 0.00 43.97 3.57
2834 2869 1.225963 GCTGACGAGGTCGACGTAC 60.226 63.158 11.30 6.68 43.97 3.67
2835 2870 1.633852 GCTGACGAGGTCGACGTACT 61.634 60.000 11.30 1.07 43.97 2.73
2836 2871 0.369589 CTGACGAGGTCGACGTACTC 59.630 60.000 11.30 10.25 43.97 2.59
2837 2872 1.016130 TGACGAGGTCGACGTACTCC 61.016 60.000 11.30 0.00 43.97 3.85
2838 2873 2.018582 GACGAGGTCGACGTACTCCG 62.019 65.000 11.30 12.55 43.97 4.63
2839 2874 2.806856 CGAGGTCGACGTACTCCGG 61.807 68.421 11.30 0.00 43.02 5.14
2840 2875 3.105852 GAGGTCGACGTACTCCGGC 62.106 68.421 11.30 0.00 42.89 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
152 153 0.679505 TCAGCACGACTAAGCCTTGT 59.320 50.000 0.00 0.00 0.00 3.16
337 338 2.867287 TGTTCACCAGCATTGTTGTG 57.133 45.000 0.00 0.00 0.00 3.33
338 339 2.694628 ACATGTTCACCAGCATTGTTGT 59.305 40.909 0.00 0.00 0.00 3.32
339 340 3.374220 ACATGTTCACCAGCATTGTTG 57.626 42.857 0.00 0.00 0.00 3.33
340 341 3.132646 ACAACATGTTCACCAGCATTGTT 59.867 39.130 8.48 0.00 0.00 2.83
341 342 2.694628 ACAACATGTTCACCAGCATTGT 59.305 40.909 8.48 0.00 0.00 2.71
342 343 3.374220 ACAACATGTTCACCAGCATTG 57.626 42.857 8.48 0.00 0.00 2.82
586 587 3.756082 ATTTAGTCCAGGGCCAATCAA 57.244 42.857 6.18 0.00 0.00 2.57
661 662 2.746279 TGTCAGGTGATGGTTTGGTT 57.254 45.000 0.00 0.00 0.00 3.67
862 863 3.373748 TGCGAATGCTTATTGTGGTACTG 59.626 43.478 0.00 0.00 43.34 2.74
863 864 3.605634 TGCGAATGCTTATTGTGGTACT 58.394 40.909 0.00 0.00 43.34 2.73
864 865 4.527564 GATGCGAATGCTTATTGTGGTAC 58.472 43.478 0.00 0.00 43.34 3.34
884 885 1.208776 GGTGGCGTGGTAAAGTAGGAT 59.791 52.381 0.00 0.00 0.00 3.24
902 903 2.039831 AGTGAGGGTGGTGGTGGT 60.040 61.111 0.00 0.00 0.00 4.16
903 904 2.116983 CTGAGTGAGGGTGGTGGTGG 62.117 65.000 0.00 0.00 0.00 4.61
904 905 1.372683 CTGAGTGAGGGTGGTGGTG 59.627 63.158 0.00 0.00 0.00 4.17
905 906 1.074471 ACTGAGTGAGGGTGGTGGT 60.074 57.895 0.00 0.00 0.00 4.16
906 907 0.833834 AGACTGAGTGAGGGTGGTGG 60.834 60.000 0.00 0.00 0.00 4.61
907 908 0.605589 GAGACTGAGTGAGGGTGGTG 59.394 60.000 0.00 0.00 0.00 4.17
1420 1427 2.041922 CATCTCCACCTCCCCCGA 60.042 66.667 0.00 0.00 0.00 5.14
1932 1944 7.290813 GGGGATTTACCAAGAATCAGAACTAT 58.709 38.462 0.00 0.00 41.20 2.12
1933 1945 6.631766 CGGGGATTTACCAAGAATCAGAACTA 60.632 42.308 0.00 0.00 41.20 2.24
1934 1946 5.510430 GGGGATTTACCAAGAATCAGAACT 58.490 41.667 0.00 0.00 41.20 3.01
1935 1947 4.335594 CGGGGATTTACCAAGAATCAGAAC 59.664 45.833 0.00 0.00 41.20 3.01
1936 1948 4.018779 ACGGGGATTTACCAAGAATCAGAA 60.019 41.667 0.00 0.00 41.20 3.02
1937 1949 3.521937 ACGGGGATTTACCAAGAATCAGA 59.478 43.478 0.00 0.00 41.20 3.27
1938 1950 3.877508 GACGGGGATTTACCAAGAATCAG 59.122 47.826 0.00 0.00 41.20 2.90
1939 1951 3.680475 CGACGGGGATTTACCAAGAATCA 60.680 47.826 0.00 0.00 41.20 2.57
1940 1952 2.870411 CGACGGGGATTTACCAAGAATC 59.130 50.000 0.00 0.00 41.20 2.52
1941 1953 2.502538 TCGACGGGGATTTACCAAGAAT 59.497 45.455 0.00 0.00 41.20 2.40
1980 1992 1.632046 TAAACTGCTAACCGCTGCGC 61.632 55.000 18.00 0.00 40.84 6.09
1983 1995 1.130561 GCCTTAAACTGCTAACCGCTG 59.869 52.381 0.00 0.00 42.62 5.18
1994 2006 3.753272 CAGCACTGTACATGCCTTAAACT 59.247 43.478 19.89 4.36 44.53 2.66
2017 2029 5.374437 CACTACAGGTGCACCAAGTGGTA 62.374 52.174 35.44 26.93 42.16 3.25
2018 2030 4.707776 CACTACAGGTGCACCAAGTGGT 62.708 54.545 35.44 33.42 42.41 4.16
2019 2031 0.108585 ACTACAGGTGCACCAAGTGG 59.891 55.000 36.39 32.67 38.89 4.00
2047 2067 2.274437 CGAGCATAGACACACTTGCAT 58.726 47.619 0.00 0.00 36.15 3.96
2136 2159 2.494059 CCATCAAACACGACAACTCCT 58.506 47.619 0.00 0.00 0.00 3.69
2151 2174 4.843331 GCCTCCCCCTCCCCATCA 62.843 72.222 0.00 0.00 0.00 3.07
2183 2206 4.367039 TTCCCTTTGTCTTACCTCAAGG 57.633 45.455 0.00 0.00 42.17 3.61
2222 2245 3.604837 GATGCGATGCGATGCGACG 62.605 63.158 0.00 0.00 34.32 5.12
2223 2246 2.169563 GATGCGATGCGATGCGAC 59.830 61.111 0.00 0.00 0.00 5.19
2224 2247 2.725275 TACGATGCGATGCGATGCGA 62.725 55.000 0.00 0.00 0.00 5.10
2225 2248 1.677353 ATACGATGCGATGCGATGCG 61.677 55.000 0.00 0.00 0.00 4.73
2226 2249 0.024238 GATACGATGCGATGCGATGC 59.976 55.000 0.00 0.00 0.00 3.91
2227 2250 1.319669 CTGATACGATGCGATGCGATG 59.680 52.381 0.00 0.00 0.00 3.84
2228 2251 1.068264 ACTGATACGATGCGATGCGAT 60.068 47.619 0.00 0.00 0.00 4.58
2229 2252 0.310854 ACTGATACGATGCGATGCGA 59.689 50.000 0.00 0.00 0.00 5.10
2230 2253 0.432361 CACTGATACGATGCGATGCG 59.568 55.000 0.00 0.00 0.00 4.73
2231 2254 1.453524 GACACTGATACGATGCGATGC 59.546 52.381 0.00 0.00 0.00 3.91
2232 2255 2.731217 TGACACTGATACGATGCGATG 58.269 47.619 0.00 0.00 0.00 3.84
2233 2256 3.004734 TGATGACACTGATACGATGCGAT 59.995 43.478 0.00 0.00 0.00 4.58
2299 2333 3.861797 CGGTCCATCCCCTTCCCG 61.862 72.222 0.00 0.00 0.00 5.14
2425 2460 2.594592 GTGCGGTTGAGTTGGCCT 60.595 61.111 3.32 0.00 0.00 5.19
2427 2462 2.970324 TCGTGCGGTTGAGTTGGC 60.970 61.111 0.00 0.00 0.00 4.52
2429 2464 1.557443 GAGGTCGTGCGGTTGAGTTG 61.557 60.000 0.00 0.00 0.00 3.16
2430 2465 1.300697 GAGGTCGTGCGGTTGAGTT 60.301 57.895 0.00 0.00 0.00 3.01
2431 2466 2.023414 TTGAGGTCGTGCGGTTGAGT 62.023 55.000 0.00 0.00 0.00 3.41
2432 2467 1.284982 CTTGAGGTCGTGCGGTTGAG 61.285 60.000 0.00 0.00 0.00 3.02
2433 2468 1.300620 CTTGAGGTCGTGCGGTTGA 60.301 57.895 0.00 0.00 0.00 3.18
2434 2469 2.954753 GCTTGAGGTCGTGCGGTTG 61.955 63.158 0.00 0.00 0.00 3.77
2435 2470 2.665185 GCTTGAGGTCGTGCGGTT 60.665 61.111 0.00 0.00 0.00 4.44
2438 2473 4.717629 TCCGCTTGAGGTCGTGCG 62.718 66.667 8.75 8.75 46.74 5.34
2439 2474 3.112709 GTCCGCTTGAGGTCGTGC 61.113 66.667 0.00 0.00 0.00 5.34
2440 2475 2.805353 CGTCCGCTTGAGGTCGTG 60.805 66.667 2.56 0.00 37.87 4.35
2442 2477 2.504244 GACGTCCGCTTGAGGTCG 60.504 66.667 3.51 8.18 45.71 4.79
2461 2496 0.459899 GGACAAAATCCGGCCAATCC 59.540 55.000 2.24 0.00 37.88 3.01
2481 2516 0.604511 AACCCATCGACGTCCCAAAC 60.605 55.000 10.58 0.00 0.00 2.93
2482 2517 0.320946 GAACCCATCGACGTCCCAAA 60.321 55.000 10.58 0.00 0.00 3.28
2483 2518 1.294138 GAACCCATCGACGTCCCAA 59.706 57.895 10.58 0.00 0.00 4.12
2484 2519 2.975536 GAACCCATCGACGTCCCA 59.024 61.111 10.58 0.00 0.00 4.37
2493 2528 1.154205 CGGACATGAGCGAACCCATC 61.154 60.000 0.00 0.00 0.00 3.51
2494 2529 1.153369 CGGACATGAGCGAACCCAT 60.153 57.895 0.00 0.00 0.00 4.00
2495 2530 2.264480 CGGACATGAGCGAACCCA 59.736 61.111 0.00 0.00 0.00 4.51
2496 2531 2.511600 CCGGACATGAGCGAACCC 60.512 66.667 0.00 0.00 0.00 4.11
2497 2532 3.195698 GCCGGACATGAGCGAACC 61.196 66.667 5.05 0.00 0.00 3.62
2498 2533 2.125512 AGCCGGACATGAGCGAAC 60.126 61.111 5.05 0.00 0.00 3.95
2499 2534 2.125552 CAGCCGGACATGAGCGAA 60.126 61.111 5.05 0.00 0.00 4.70
2500 2535 3.381983 ACAGCCGGACATGAGCGA 61.382 61.111 5.05 0.00 0.00 4.93
2501 2536 3.190849 CACAGCCGGACATGAGCG 61.191 66.667 5.05 0.00 0.00 5.03
2502 2537 2.046892 ACACAGCCGGACATGAGC 60.047 61.111 5.05 0.00 0.00 4.26
2503 2538 1.448540 GGACACAGCCGGACATGAG 60.449 63.158 5.05 1.15 0.00 2.90
2504 2539 2.662596 GGACACAGCCGGACATGA 59.337 61.111 5.05 0.00 0.00 3.07
2512 2547 2.668550 GACCCAACGGACACAGCC 60.669 66.667 0.00 0.00 0.00 4.85
2513 2548 3.041940 CGACCCAACGGACACAGC 61.042 66.667 0.00 0.00 0.00 4.40
2514 2549 1.954146 CACGACCCAACGGACACAG 60.954 63.158 0.00 0.00 37.61 3.66
2515 2550 2.107343 CACGACCCAACGGACACA 59.893 61.111 0.00 0.00 37.61 3.72
2516 2551 2.107546 ACACGACCCAACGGACAC 59.892 61.111 0.00 0.00 37.61 3.67
2517 2552 2.107343 CACACGACCCAACGGACA 59.893 61.111 0.00 0.00 37.61 4.02
2518 2553 2.107546 ACACACGACCCAACGGAC 59.892 61.111 0.00 0.00 37.61 4.79
2519 2554 2.107343 CACACACGACCCAACGGA 59.893 61.111 0.00 0.00 37.61 4.69
2520 2555 3.645975 GCACACACGACCCAACGG 61.646 66.667 0.00 0.00 37.61 4.44
2521 2556 3.995669 CGCACACACGACCCAACG 61.996 66.667 0.00 0.00 39.31 4.10
2522 2557 4.307908 GCGCACACACGACCCAAC 62.308 66.667 0.30 0.00 34.06 3.77
2545 2580 2.671619 ATTTGGGGTGCGGTCGTG 60.672 61.111 0.00 0.00 0.00 4.35
2546 2581 2.359478 GATTTGGGGTGCGGTCGT 60.359 61.111 0.00 0.00 0.00 4.34
2547 2582 1.748879 ATGATTTGGGGTGCGGTCG 60.749 57.895 0.00 0.00 0.00 4.79
2548 2583 0.965363 ACATGATTTGGGGTGCGGTC 60.965 55.000 0.00 0.00 0.00 4.79
2549 2584 0.965363 GACATGATTTGGGGTGCGGT 60.965 55.000 0.00 0.00 0.00 5.68
2550 2585 1.666209 GGACATGATTTGGGGTGCGG 61.666 60.000 0.00 0.00 0.00 5.69
2551 2586 1.809207 GGACATGATTTGGGGTGCG 59.191 57.895 0.00 0.00 0.00 5.34
2552 2587 1.666209 CCGGACATGATTTGGGGTGC 61.666 60.000 0.00 0.00 0.00 5.01
2553 2588 1.037030 CCCGGACATGATTTGGGGTG 61.037 60.000 0.73 0.00 36.16 4.61
2554 2589 1.306296 CCCGGACATGATTTGGGGT 59.694 57.895 0.73 0.00 36.16 4.95
2555 2590 4.258206 CCCGGACATGATTTGGGG 57.742 61.111 0.73 0.00 36.16 4.96
2556 2591 1.037030 CACCCCGGACATGATTTGGG 61.037 60.000 0.73 6.65 39.69 4.12
2557 2592 1.037030 CCACCCCGGACATGATTTGG 61.037 60.000 0.73 0.00 36.56 3.28
2558 2593 0.034574 TCCACCCCGGACATGATTTG 60.035 55.000 0.73 0.00 39.64 2.32
2559 2594 2.393416 TCCACCCCGGACATGATTT 58.607 52.632 0.73 0.00 39.64 2.17
2560 2595 4.162540 TCCACCCCGGACATGATT 57.837 55.556 0.73 0.00 39.64 2.57
2568 2603 1.912826 TTTATTCCCGTCCACCCCGG 61.913 60.000 0.00 0.00 45.07 5.73
2569 2604 0.035247 TTTTATTCCCGTCCACCCCG 60.035 55.000 0.00 0.00 0.00 5.73
2570 2605 2.219080 TTTTTATTCCCGTCCACCCC 57.781 50.000 0.00 0.00 0.00 4.95
2632 2667 9.292195 CCGACCCCTATATATGTTTTACATTTT 57.708 33.333 0.00 0.00 39.88 1.82
2633 2668 7.392393 GCCGACCCCTATATATGTTTTACATTT 59.608 37.037 0.00 0.00 39.88 2.32
2634 2669 6.882678 GCCGACCCCTATATATGTTTTACATT 59.117 38.462 0.00 0.00 39.88 2.71
2635 2670 6.412214 GCCGACCCCTATATATGTTTTACAT 58.588 40.000 0.00 0.00 42.35 2.29
2636 2671 5.280113 GGCCGACCCCTATATATGTTTTACA 60.280 44.000 0.00 0.00 0.00 2.41
2637 2672 5.181009 GGCCGACCCCTATATATGTTTTAC 58.819 45.833 0.00 0.00 0.00 2.01
2638 2673 4.845225 TGGCCGACCCCTATATATGTTTTA 59.155 41.667 0.00 0.00 33.59 1.52
2639 2674 3.653836 TGGCCGACCCCTATATATGTTTT 59.346 43.478 0.00 0.00 33.59 2.43
2640 2675 3.008704 GTGGCCGACCCCTATATATGTTT 59.991 47.826 0.00 0.00 33.59 2.83
2641 2676 2.570302 GTGGCCGACCCCTATATATGTT 59.430 50.000 0.00 0.00 33.59 2.71
2642 2677 2.185387 GTGGCCGACCCCTATATATGT 58.815 52.381 0.00 0.00 33.59 2.29
2643 2678 2.184533 TGTGGCCGACCCCTATATATG 58.815 52.381 0.00 0.00 33.59 1.78
2644 2679 2.634639 TGTGGCCGACCCCTATATAT 57.365 50.000 0.00 0.00 33.59 0.86
2645 2680 2.402182 TTGTGGCCGACCCCTATATA 57.598 50.000 0.00 0.00 33.59 0.86
2646 2681 1.513858 TTTGTGGCCGACCCCTATAT 58.486 50.000 0.00 0.00 33.59 0.86
2647 2682 1.065272 GTTTTGTGGCCGACCCCTATA 60.065 52.381 0.00 0.00 33.59 1.31
2648 2683 0.323087 GTTTTGTGGCCGACCCCTAT 60.323 55.000 0.00 0.00 33.59 2.57
2649 2684 1.073548 GTTTTGTGGCCGACCCCTA 59.926 57.895 0.00 0.00 33.59 3.53
2650 2685 2.203437 GTTTTGTGGCCGACCCCT 60.203 61.111 0.00 0.00 33.59 4.79
2651 2686 3.666253 CGTTTTGTGGCCGACCCC 61.666 66.667 0.00 0.00 33.59 4.95
2652 2687 2.592287 TCGTTTTGTGGCCGACCC 60.592 61.111 0.00 0.00 33.59 4.46
2653 2688 2.635338 GTCGTTTTGTGGCCGACC 59.365 61.111 0.00 0.00 43.77 4.79
2655 2690 2.526993 CGTGTCGTTTTGTGGCCGA 61.527 57.895 0.00 0.00 0.00 5.54
2656 2691 2.052590 CGTGTCGTTTTGTGGCCG 60.053 61.111 0.00 0.00 0.00 6.13
2657 2692 1.995646 AACCGTGTCGTTTTGTGGCC 61.996 55.000 0.00 0.00 0.00 5.36
2658 2693 0.179158 AAACCGTGTCGTTTTGTGGC 60.179 50.000 0.00 0.00 31.94 5.01
2659 2694 1.130749 TGAAACCGTGTCGTTTTGTGG 59.869 47.619 0.00 0.00 36.10 4.17
2660 2695 2.529136 TGAAACCGTGTCGTTTTGTG 57.471 45.000 0.00 0.00 36.10 3.33
2661 2696 2.725452 CGTTGAAACCGTGTCGTTTTGT 60.725 45.455 0.00 0.00 36.10 2.83
2662 2697 1.835365 CGTTGAAACCGTGTCGTTTTG 59.165 47.619 0.00 0.00 36.10 2.44
2663 2698 1.202054 CCGTTGAAACCGTGTCGTTTT 60.202 47.619 0.00 0.00 36.10 2.43
2664 2699 0.374410 CCGTTGAAACCGTGTCGTTT 59.626 50.000 0.00 0.00 38.65 3.60
2665 2700 2.008328 CCGTTGAAACCGTGTCGTT 58.992 52.632 0.00 0.00 0.00 3.85
2666 2701 2.527867 GCCGTTGAAACCGTGTCGT 61.528 57.895 0.00 0.00 0.00 4.34
2667 2702 2.247267 GCCGTTGAAACCGTGTCG 59.753 61.111 0.00 0.00 0.00 4.35
2668 2703 2.635338 GGCCGTTGAAACCGTGTC 59.365 61.111 0.00 0.00 0.00 3.67
2669 2704 3.273834 CGGCCGTTGAAACCGTGT 61.274 61.111 19.50 0.00 42.01 4.49
2673 2708 0.311477 TTTAAGCGGCCGTTGAAACC 59.689 50.000 28.70 7.91 0.00 3.27
2674 2709 2.048498 CTTTTAAGCGGCCGTTGAAAC 58.952 47.619 28.70 8.76 0.00 2.78
2675 2710 1.001158 CCTTTTAAGCGGCCGTTGAAA 60.001 47.619 28.70 23.84 0.00 2.69
2676 2711 0.594110 CCTTTTAAGCGGCCGTTGAA 59.406 50.000 28.70 18.59 0.00 2.69
2677 2712 1.858372 GCCTTTTAAGCGGCCGTTGA 61.858 55.000 28.70 12.08 40.43 3.18
2678 2713 1.443702 GCCTTTTAAGCGGCCGTTG 60.444 57.895 28.70 8.83 40.43 4.10
2679 2714 2.959372 GCCTTTTAAGCGGCCGTT 59.041 55.556 28.70 20.13 40.43 4.44
2683 2718 1.460504 AACTAGGCCTTTTAAGCGGC 58.539 50.000 12.58 8.21 45.55 6.53
2684 2719 3.078837 TGAAACTAGGCCTTTTAAGCGG 58.921 45.455 12.58 0.00 0.00 5.52
2685 2720 4.965119 ATGAAACTAGGCCTTTTAAGCG 57.035 40.909 12.58 0.00 0.00 4.68
2718 2753 9.416284 AGGAGGAGTTTTCTTTGTATTTTGTTA 57.584 29.630 0.00 0.00 0.00 2.41
2719 2754 8.197439 CAGGAGGAGTTTTCTTTGTATTTTGTT 58.803 33.333 0.00 0.00 0.00 2.83
2720 2755 7.201911 CCAGGAGGAGTTTTCTTTGTATTTTGT 60.202 37.037 0.00 0.00 36.89 2.83
2721 2756 7.147976 CCAGGAGGAGTTTTCTTTGTATTTTG 58.852 38.462 0.00 0.00 36.89 2.44
2722 2757 6.267699 CCCAGGAGGAGTTTTCTTTGTATTTT 59.732 38.462 0.00 0.00 38.24 1.82
2723 2758 5.775195 CCCAGGAGGAGTTTTCTTTGTATTT 59.225 40.000 0.00 0.00 38.24 1.40
2724 2759 5.325239 CCCAGGAGGAGTTTTCTTTGTATT 58.675 41.667 0.00 0.00 38.24 1.89
2725 2760 4.811063 GCCCAGGAGGAGTTTTCTTTGTAT 60.811 45.833 0.00 0.00 38.24 2.29
2726 2761 3.497942 GCCCAGGAGGAGTTTTCTTTGTA 60.498 47.826 0.00 0.00 38.24 2.41
2727 2762 2.753168 GCCCAGGAGGAGTTTTCTTTGT 60.753 50.000 0.00 0.00 38.24 2.83
2728 2763 1.889170 GCCCAGGAGGAGTTTTCTTTG 59.111 52.381 0.00 0.00 38.24 2.77
2729 2764 1.545651 CGCCCAGGAGGAGTTTTCTTT 60.546 52.381 0.00 0.00 38.24 2.52
2730 2765 0.036875 CGCCCAGGAGGAGTTTTCTT 59.963 55.000 0.00 0.00 38.24 2.52
2731 2766 1.679898 CGCCCAGGAGGAGTTTTCT 59.320 57.895 0.00 0.00 38.24 2.52
2732 2767 2.041115 GCGCCCAGGAGGAGTTTTC 61.041 63.158 0.00 0.00 37.83 2.29
2733 2768 2.034221 GCGCCCAGGAGGAGTTTT 59.966 61.111 0.00 0.00 37.83 2.43
2734 2769 2.930562 AGCGCCCAGGAGGAGTTT 60.931 61.111 2.29 0.00 37.83 2.66
2735 2770 3.394836 GAGCGCCCAGGAGGAGTT 61.395 66.667 2.29 0.00 37.83 3.01
2779 2814 3.112709 GCCAGTGAAGACGGCGAC 61.113 66.667 16.62 7.87 33.90 5.19
2780 2815 4.373116 GGCCAGTGAAGACGGCGA 62.373 66.667 16.62 0.00 40.54 5.54
2813 2848 2.202324 GTCGACCTCGTCAGCGAC 60.202 66.667 3.51 0.00 44.83 5.19
2814 2849 3.785499 CGTCGACCTCGTCAGCGA 61.785 66.667 10.58 0.00 45.79 4.93
2815 2850 2.733671 TACGTCGACCTCGTCAGCG 61.734 63.158 10.58 0.00 41.72 5.18
2816 2851 1.225963 GTACGTCGACCTCGTCAGC 60.226 63.158 10.58 0.00 41.72 4.26
2817 2852 0.369589 GAGTACGTCGACCTCGTCAG 59.630 60.000 10.58 0.00 41.72 3.51
2818 2853 1.016130 GGAGTACGTCGACCTCGTCA 61.016 60.000 10.58 0.00 41.72 4.35
2819 2854 1.712663 GGAGTACGTCGACCTCGTC 59.287 63.158 10.58 2.07 41.72 4.20
2820 2855 2.097038 CGGAGTACGTCGACCTCGT 61.097 63.158 10.58 7.42 43.86 4.18
2821 2856 2.699809 CGGAGTACGTCGACCTCG 59.300 66.667 10.58 0.40 41.45 4.63
2822 2857 3.096791 CCGGAGTACGTCGACCTC 58.903 66.667 10.58 10.68 42.24 3.85
2823 2858 3.130160 GCCGGAGTACGTCGACCT 61.130 66.667 5.05 0.52 42.24 3.85


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

AutoCloner maintained by Alex Coulton.