Multiple sequence alignment - TraesCS3B01G127900

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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 TraesCS3B01G127900 chr3B 100.000 2814 0 0 1 2814 106957285 106954472 0.000000e+00 5197
1 TraesCS3B01G127900 chr3B 97.987 2285 30 4 1 2273 8785039 8787319 0.000000e+00 3951
2 TraesCS3B01G127900 chr3B 98.592 284 4 0 2266 2549 8788127 8788410 1.160000e-138 503
3 TraesCS3B01G127900 chr3B 90.809 272 21 3 2544 2814 255962809 255962541 7.410000e-96 361
4 TraesCS3B01G127900 chr5B 93.651 2599 95 20 1 2543 567869135 567866551 0.000000e+00 3821
5 TraesCS3B01G127900 chr5B 88.187 728 44 20 1844 2543 41904446 41903733 0.000000e+00 830
6 TraesCS3B01G127900 chr5B 92.857 266 17 2 2287 2550 542676875 542677140 4.400000e-103 385
7 TraesCS3B01G127900 chr6D 93.617 2585 101 34 1 2543 61814046 61811484 0.000000e+00 3801
8 TraesCS3B01G127900 chr6D 95.522 1340 32 9 244 1555 65307826 65309165 0.000000e+00 2117
9 TraesCS3B01G127900 chr6D 90.547 1005 67 22 1551 2543 65317487 65318475 0.000000e+00 1304
10 TraesCS3B01G127900 chr6D 91.513 271 20 2 2544 2814 177761838 177761571 1.230000e-98 370
11 TraesCS3B01G127900 chr6D 91.111 270 19 4 2544 2812 91862611 91862876 7.410000e-96 361
12 TraesCS3B01G127900 chr2D 93.086 2589 123 31 2 2549 226333132 226335705 0.000000e+00 3738
13 TraesCS3B01G127900 chr2D 87.404 2207 192 54 1 2151 621361689 621363865 0.000000e+00 2457
14 TraesCS3B01G127900 chr2D 91.111 270 21 2 2544 2813 398765543 398765809 2.060000e-96 363
15 TraesCS3B01G127900 chr2D 90.775 271 22 2 2544 2814 388179223 388179490 2.670000e-95 359
16 TraesCS3B01G127900 chr3D 95.396 2172 65 13 1 2140 535143528 535145696 0.000000e+00 3424
17 TraesCS3B01G127900 chr3D 91.480 939 72 5 937 1868 49963608 49964545 0.000000e+00 1284
18 TraesCS3B01G127900 chr3D 91.111 270 19 4 2544 2812 437519029 437518764 7.410000e-96 361
19 TraesCS3B01G127900 chr1B 85.394 2629 269 80 1 2542 7321323 7318723 0.000000e+00 2621
20 TraesCS3B01G127900 chr7A 87.191 2186 212 35 1 2129 683510193 683508019 0.000000e+00 2423
21 TraesCS3B01G127900 chr7A 88.410 2019 179 25 1 1971 683625641 683627652 0.000000e+00 2381
22 TraesCS3B01G127900 chr7A 92.969 256 16 2 2290 2543 683627848 683628103 3.420000e-99 372
23 TraesCS3B01G127900 chr5D 92.741 1350 68 25 1203 2545 43163527 43162201 0.000000e+00 1923
24 TraesCS3B01G127900 chr5D 91.144 271 18 5 2544 2813 452930053 452929788 2.060000e-96 363
25 TraesCS3B01G127900 chr4A 91.063 828 66 6 1 827 649887645 649888465 0.000000e+00 1112
26 TraesCS3B01G127900 chr4B 92.435 727 46 5 1 720 38607796 38608520 0.000000e+00 1029
27 TraesCS3B01G127900 chr1D 94.139 563 31 2 1 563 108680674 108680114 0.000000e+00 856
28 TraesCS3B01G127900 chr6A 91.544 272 18 4 2544 2814 550710154 550709887 1.230000e-98 370
29 TraesCS3B01G127900 chr4D 91.635 263 21 1 2552 2814 132915610 132915349 2.060000e-96 363


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 TraesCS3B01G127900 chr3B 106954472 106957285 2813 True 5197.0 5197 100.0000 1 2814 1 chr3B.!!$R1 2813
1 TraesCS3B01G127900 chr3B 8785039 8788410 3371 False 2227.0 3951 98.2895 1 2549 2 chr3B.!!$F1 2548
2 TraesCS3B01G127900 chr5B 567866551 567869135 2584 True 3821.0 3821 93.6510 1 2543 1 chr5B.!!$R2 2542
3 TraesCS3B01G127900 chr5B 41903733 41904446 713 True 830.0 830 88.1870 1844 2543 1 chr5B.!!$R1 699
4 TraesCS3B01G127900 chr6D 61811484 61814046 2562 True 3801.0 3801 93.6170 1 2543 1 chr6D.!!$R1 2542
5 TraesCS3B01G127900 chr6D 65307826 65309165 1339 False 2117.0 2117 95.5220 244 1555 1 chr6D.!!$F1 1311
6 TraesCS3B01G127900 chr6D 65317487 65318475 988 False 1304.0 1304 90.5470 1551 2543 1 chr6D.!!$F2 992
7 TraesCS3B01G127900 chr2D 226333132 226335705 2573 False 3738.0 3738 93.0860 2 2549 1 chr2D.!!$F1 2547
8 TraesCS3B01G127900 chr2D 621361689 621363865 2176 False 2457.0 2457 87.4040 1 2151 1 chr2D.!!$F4 2150
9 TraesCS3B01G127900 chr3D 535143528 535145696 2168 False 3424.0 3424 95.3960 1 2140 1 chr3D.!!$F2 2139
10 TraesCS3B01G127900 chr3D 49963608 49964545 937 False 1284.0 1284 91.4800 937 1868 1 chr3D.!!$F1 931
11 TraesCS3B01G127900 chr1B 7318723 7321323 2600 True 2621.0 2621 85.3940 1 2542 1 chr1B.!!$R1 2541
12 TraesCS3B01G127900 chr7A 683508019 683510193 2174 True 2423.0 2423 87.1910 1 2129 1 chr7A.!!$R1 2128
13 TraesCS3B01G127900 chr7A 683625641 683628103 2462 False 1376.5 2381 90.6895 1 2543 2 chr7A.!!$F1 2542
14 TraesCS3B01G127900 chr5D 43162201 43163527 1326 True 1923.0 1923 92.7410 1203 2545 1 chr5D.!!$R1 1342
15 TraesCS3B01G127900 chr4A 649887645 649888465 820 False 1112.0 1112 91.0630 1 827 1 chr4A.!!$F1 826
16 TraesCS3B01G127900 chr4B 38607796 38608520 724 False 1029.0 1029 92.4350 1 720 1 chr4B.!!$F1 719
17 TraesCS3B01G127900 chr1D 108680114 108680674 560 True 856.0 856 94.1390 1 563 1 chr1D.!!$R1 562

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
409 411 7.559897 TCAAAGTTTCTTTGACATAAAGGACCT 59.440 33.333 17.35 0.0 33.9 3.85 F
1223 1261 0.898326 AGCGGGTTTGGTTGGGATTC 60.898 55.000 0.00 0.0 0.0 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1607 1652 1.271379 GGGCAGTTCTAGTGGCTCAAA 60.271 52.381 7.82 0.0 42.98 2.69 R
2736 3886 0.037697 TGGTTACGTCGATGCAAGCT 60.038 50.000 18.01 0.0 0.00 3.74 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
346 348 9.682465 TGCTAGAAATGTAGTAGAGAGAACTTA 57.318 33.333 0.00 0.00 0.00 2.24
409 411 7.559897 TCAAAGTTTCTTTGACATAAAGGACCT 59.440 33.333 17.35 0.00 33.90 3.85
800 809 7.821359 GCTAGATGTTGGATTAGCAAGATGATA 59.179 37.037 0.00 0.00 38.64 2.15
1223 1261 0.898326 AGCGGGTTTGGTTGGGATTC 60.898 55.000 0.00 0.00 0.00 2.52
1596 1641 6.983906 AATGAAGGGTTCTTTTCAAGATGT 57.016 33.333 0.00 0.00 36.93 3.06
1662 1710 1.203038 TCTTGAAATCCTTGCTGCCCA 60.203 47.619 0.00 0.00 0.00 5.36
2445 3595 3.928727 ATTCTGTGCACATCCAAACAG 57.071 42.857 22.00 6.03 41.11 3.16
2549 3699 3.632145 ACATCCAAACAAAGCGAAAGAGT 59.368 39.130 0.00 0.00 0.00 3.24
2550 3700 4.097892 ACATCCAAACAAAGCGAAAGAGTT 59.902 37.500 0.00 0.00 0.00 3.01
2551 3701 4.712122 TCCAAACAAAGCGAAAGAGTTT 57.288 36.364 0.00 0.00 33.09 2.66
2552 3702 5.821516 TCCAAACAAAGCGAAAGAGTTTA 57.178 34.783 0.00 0.00 31.80 2.01
2553 3703 5.575019 TCCAAACAAAGCGAAAGAGTTTAC 58.425 37.500 0.00 0.00 31.80 2.01
2554 3704 4.738252 CCAAACAAAGCGAAAGAGTTTACC 59.262 41.667 0.00 0.00 31.80 2.85
2555 3705 5.336744 CAAACAAAGCGAAAGAGTTTACCA 58.663 37.500 0.00 0.00 31.80 3.25
2556 3706 5.570234 AACAAAGCGAAAGAGTTTACCAA 57.430 34.783 0.00 0.00 0.00 3.67
2557 3707 5.169836 ACAAAGCGAAAGAGTTTACCAAG 57.830 39.130 0.00 0.00 0.00 3.61
2558 3708 4.036380 ACAAAGCGAAAGAGTTTACCAAGG 59.964 41.667 0.00 0.00 0.00 3.61
2559 3709 3.487120 AGCGAAAGAGTTTACCAAGGT 57.513 42.857 0.00 0.00 0.00 3.50
2560 3710 3.139077 AGCGAAAGAGTTTACCAAGGTG 58.861 45.455 1.07 0.00 0.00 4.00
2561 3711 2.876550 GCGAAAGAGTTTACCAAGGTGT 59.123 45.455 1.07 0.00 0.00 4.16
2562 3712 3.303791 GCGAAAGAGTTTACCAAGGTGTG 60.304 47.826 1.07 0.00 0.00 3.82
2563 3713 4.124238 CGAAAGAGTTTACCAAGGTGTGA 58.876 43.478 1.07 0.00 0.00 3.58
2564 3714 4.755123 CGAAAGAGTTTACCAAGGTGTGAT 59.245 41.667 1.07 0.00 0.00 3.06
2565 3715 5.107065 CGAAAGAGTTTACCAAGGTGTGATC 60.107 44.000 1.07 0.00 0.00 2.92
2566 3716 4.974645 AGAGTTTACCAAGGTGTGATCA 57.025 40.909 1.07 0.00 0.00 2.92
2567 3717 5.505181 AGAGTTTACCAAGGTGTGATCAT 57.495 39.130 0.00 0.00 0.00 2.45
2568 3718 5.248640 AGAGTTTACCAAGGTGTGATCATG 58.751 41.667 0.00 0.00 0.00 3.07
2569 3719 4.985538 AGTTTACCAAGGTGTGATCATGT 58.014 39.130 0.00 0.00 0.00 3.21
2570 3720 5.385198 AGTTTACCAAGGTGTGATCATGTT 58.615 37.500 0.00 0.00 0.00 2.71
2571 3721 5.833131 AGTTTACCAAGGTGTGATCATGTTT 59.167 36.000 0.00 0.00 0.00 2.83
2572 3722 6.323739 AGTTTACCAAGGTGTGATCATGTTTT 59.676 34.615 0.00 0.00 0.00 2.43
2573 3723 4.589216 ACCAAGGTGTGATCATGTTTTG 57.411 40.909 0.00 2.59 0.00 2.44
2574 3724 3.243839 ACCAAGGTGTGATCATGTTTTGC 60.244 43.478 0.00 0.00 0.00 3.68
2575 3725 3.006110 CCAAGGTGTGATCATGTTTTGCT 59.994 43.478 0.00 0.00 0.00 3.91
2576 3726 4.501915 CCAAGGTGTGATCATGTTTTGCTT 60.502 41.667 0.00 0.00 0.00 3.91
2577 3727 4.247267 AGGTGTGATCATGTTTTGCTTG 57.753 40.909 0.00 0.00 0.00 4.01
2578 3728 3.638160 AGGTGTGATCATGTTTTGCTTGT 59.362 39.130 0.00 0.00 0.00 3.16
2579 3729 3.737266 GGTGTGATCATGTTTTGCTTGTG 59.263 43.478 0.00 0.00 0.00 3.33
2580 3730 4.499526 GGTGTGATCATGTTTTGCTTGTGA 60.500 41.667 0.00 0.00 0.00 3.58
2581 3731 4.678287 GTGTGATCATGTTTTGCTTGTGAG 59.322 41.667 0.00 0.00 0.00 3.51
2582 3732 4.579753 TGTGATCATGTTTTGCTTGTGAGA 59.420 37.500 0.00 0.00 0.00 3.27
2583 3733 5.152097 GTGATCATGTTTTGCTTGTGAGAG 58.848 41.667 0.00 0.00 0.00 3.20
2584 3734 5.049198 GTGATCATGTTTTGCTTGTGAGAGA 60.049 40.000 0.00 0.00 0.00 3.10
2585 3735 5.708697 TGATCATGTTTTGCTTGTGAGAGAT 59.291 36.000 0.00 0.00 0.00 2.75
2586 3736 5.366829 TCATGTTTTGCTTGTGAGAGATG 57.633 39.130 0.00 0.00 0.00 2.90
2587 3737 4.823442 TCATGTTTTGCTTGTGAGAGATGT 59.177 37.500 0.00 0.00 0.00 3.06
2588 3738 5.300034 TCATGTTTTGCTTGTGAGAGATGTT 59.700 36.000 0.00 0.00 0.00 2.71
2589 3739 5.581126 TGTTTTGCTTGTGAGAGATGTTT 57.419 34.783 0.00 0.00 0.00 2.83
2590 3740 6.691754 TGTTTTGCTTGTGAGAGATGTTTA 57.308 33.333 0.00 0.00 0.00 2.01
2591 3741 6.728200 TGTTTTGCTTGTGAGAGATGTTTAG 58.272 36.000 0.00 0.00 0.00 1.85
2592 3742 6.542005 TGTTTTGCTTGTGAGAGATGTTTAGA 59.458 34.615 0.00 0.00 0.00 2.10
2593 3743 6.545504 TTTGCTTGTGAGAGATGTTTAGAC 57.454 37.500 0.00 0.00 0.00 2.59
2594 3744 5.213891 TGCTTGTGAGAGATGTTTAGACA 57.786 39.130 0.00 0.00 40.71 3.41
2595 3745 5.610398 TGCTTGTGAGAGATGTTTAGACAA 58.390 37.500 0.00 0.00 39.66 3.18
2596 3746 6.233434 TGCTTGTGAGAGATGTTTAGACAAT 58.767 36.000 0.00 0.00 39.66 2.71
2597 3747 6.148315 TGCTTGTGAGAGATGTTTAGACAATG 59.852 38.462 0.00 0.00 39.66 2.82
2598 3748 6.402983 GCTTGTGAGAGATGTTTAGACAATGG 60.403 42.308 0.00 0.00 39.66 3.16
2599 3749 5.491070 TGTGAGAGATGTTTAGACAATGGG 58.509 41.667 0.00 0.00 39.66 4.00
2600 3750 4.333926 GTGAGAGATGTTTAGACAATGGGC 59.666 45.833 0.00 0.00 39.66 5.36
2601 3751 3.879892 GAGAGATGTTTAGACAATGGGCC 59.120 47.826 0.00 0.00 39.66 5.80
2602 3752 3.525199 AGAGATGTTTAGACAATGGGCCT 59.475 43.478 4.53 0.00 39.66 5.19
2603 3753 3.624777 AGATGTTTAGACAATGGGCCTG 58.375 45.455 4.53 0.00 39.66 4.85
2604 3754 1.544724 TGTTTAGACAATGGGCCTGC 58.455 50.000 4.53 0.00 31.49 4.85
2605 3755 0.817654 GTTTAGACAATGGGCCTGCC 59.182 55.000 4.53 0.00 0.00 4.85
2606 3756 0.704076 TTTAGACAATGGGCCTGCCT 59.296 50.000 4.53 0.00 36.10 4.75
2607 3757 0.704076 TTAGACAATGGGCCTGCCTT 59.296 50.000 4.53 0.00 36.10 4.35
2608 3758 1.590591 TAGACAATGGGCCTGCCTTA 58.409 50.000 4.53 0.00 36.10 2.69
2609 3759 0.929244 AGACAATGGGCCTGCCTTAT 59.071 50.000 4.53 0.55 36.10 1.73
2610 3760 1.288932 AGACAATGGGCCTGCCTTATT 59.711 47.619 4.53 6.74 36.10 1.40
2611 3761 1.683385 GACAATGGGCCTGCCTTATTC 59.317 52.381 4.53 0.00 36.10 1.75
2612 3762 1.006998 ACAATGGGCCTGCCTTATTCA 59.993 47.619 4.53 0.00 36.10 2.57
2613 3763 1.684983 CAATGGGCCTGCCTTATTCAG 59.315 52.381 4.53 0.00 36.10 3.02
2614 3764 1.225373 ATGGGCCTGCCTTATTCAGA 58.775 50.000 4.53 0.00 36.10 3.27
2615 3765 1.225373 TGGGCCTGCCTTATTCAGAT 58.775 50.000 4.53 0.00 36.10 2.90
2616 3766 1.143684 TGGGCCTGCCTTATTCAGATC 59.856 52.381 4.53 0.00 36.10 2.75
2617 3767 1.546548 GGGCCTGCCTTATTCAGATCC 60.547 57.143 8.29 0.00 36.10 3.36
2618 3768 1.517242 GCCTGCCTTATTCAGATCCG 58.483 55.000 0.00 0.00 33.54 4.18
2619 3769 1.202698 GCCTGCCTTATTCAGATCCGT 60.203 52.381 0.00 0.00 33.54 4.69
2620 3770 2.037251 GCCTGCCTTATTCAGATCCGTA 59.963 50.000 0.00 0.00 33.54 4.02
2621 3771 3.307059 GCCTGCCTTATTCAGATCCGTAT 60.307 47.826 0.00 0.00 33.54 3.06
2622 3772 4.248859 CCTGCCTTATTCAGATCCGTATG 58.751 47.826 0.00 0.00 33.54 2.39
2623 3773 4.262635 CCTGCCTTATTCAGATCCGTATGT 60.263 45.833 0.00 0.00 33.54 2.29
2624 3774 5.047306 CCTGCCTTATTCAGATCCGTATGTA 60.047 44.000 0.00 0.00 33.54 2.29
2625 3775 6.351371 CCTGCCTTATTCAGATCCGTATGTAT 60.351 42.308 0.00 0.00 33.54 2.29
2626 3776 7.004555 TGCCTTATTCAGATCCGTATGTATT 57.995 36.000 0.00 0.00 0.00 1.89
2627 3777 7.450074 TGCCTTATTCAGATCCGTATGTATTT 58.550 34.615 0.00 0.00 0.00 1.40
2628 3778 7.936847 TGCCTTATTCAGATCCGTATGTATTTT 59.063 33.333 0.00 0.00 0.00 1.82
2629 3779 8.230486 GCCTTATTCAGATCCGTATGTATTTTG 58.770 37.037 0.00 0.00 0.00 2.44
2630 3780 8.230486 CCTTATTCAGATCCGTATGTATTTTGC 58.770 37.037 0.00 0.00 0.00 3.68
2631 3781 8.669946 TTATTCAGATCCGTATGTATTTTGCA 57.330 30.769 0.00 0.00 0.00 4.08
2632 3782 6.993786 TTCAGATCCGTATGTATTTTGCAA 57.006 33.333 0.00 0.00 0.00 4.08
2633 3783 7.566760 TTCAGATCCGTATGTATTTTGCAAT 57.433 32.000 0.00 0.00 0.00 3.56
2634 3784 7.566760 TCAGATCCGTATGTATTTTGCAATT 57.433 32.000 0.00 0.00 0.00 2.32
2635 3785 7.995289 TCAGATCCGTATGTATTTTGCAATTT 58.005 30.769 0.00 0.00 0.00 1.82
2636 3786 8.465999 TCAGATCCGTATGTATTTTGCAATTTT 58.534 29.630 0.00 0.00 0.00 1.82
2637 3787 8.745837 CAGATCCGTATGTATTTTGCAATTTTC 58.254 33.333 0.00 0.00 0.00 2.29
2638 3788 8.686334 AGATCCGTATGTATTTTGCAATTTTCT 58.314 29.630 0.00 0.00 0.00 2.52
2639 3789 9.944663 GATCCGTATGTATTTTGCAATTTTCTA 57.055 29.630 0.00 0.00 0.00 2.10
2641 3791 9.729023 TCCGTATGTATTTTGCAATTTTCTATG 57.271 29.630 0.00 0.00 0.00 2.23
2642 3792 9.515020 CCGTATGTATTTTGCAATTTTCTATGT 57.485 29.630 0.00 0.00 0.00 2.29
2651 3801 8.464770 TTTGCAATTTTCTATGTCTACAATGC 57.535 30.769 0.00 0.00 0.00 3.56
2652 3802 7.395190 TGCAATTTTCTATGTCTACAATGCT 57.605 32.000 0.00 0.00 0.00 3.79
2653 3803 7.829725 TGCAATTTTCTATGTCTACAATGCTT 58.170 30.769 0.00 0.00 0.00 3.91
2654 3804 8.306038 TGCAATTTTCTATGTCTACAATGCTTT 58.694 29.630 0.00 0.00 0.00 3.51
2655 3805 8.589629 GCAATTTTCTATGTCTACAATGCTTTG 58.410 33.333 10.58 10.58 38.86 2.77
2656 3806 8.589629 CAATTTTCTATGTCTACAATGCTTTGC 58.410 33.333 11.96 0.00 36.22 3.68
2657 3807 6.816134 TTTCTATGTCTACAATGCTTTGCA 57.184 33.333 11.96 3.00 44.86 4.08
2667 3817 3.963733 TGCTTTGCATGGAGCTACT 57.036 47.368 15.44 0.00 45.94 2.57
2668 3818 1.742761 TGCTTTGCATGGAGCTACTC 58.257 50.000 15.44 0.00 45.94 2.59
2669 3819 1.280133 TGCTTTGCATGGAGCTACTCT 59.720 47.619 15.44 0.00 45.94 3.24
2670 3820 2.501316 TGCTTTGCATGGAGCTACTCTA 59.499 45.455 15.44 0.00 45.94 2.43
2671 3821 3.055167 TGCTTTGCATGGAGCTACTCTAA 60.055 43.478 15.44 0.00 45.94 2.10
2672 3822 3.311048 GCTTTGCATGGAGCTACTCTAAC 59.689 47.826 0.00 0.00 45.94 2.34
2673 3823 4.764172 CTTTGCATGGAGCTACTCTAACT 58.236 43.478 0.00 0.00 45.94 2.24
2674 3824 5.682471 GCTTTGCATGGAGCTACTCTAACTA 60.682 44.000 0.00 0.00 45.94 2.24
2675 3825 5.932619 TTGCATGGAGCTACTCTAACTAA 57.067 39.130 0.00 0.00 45.94 2.24
2676 3826 6.485830 TTGCATGGAGCTACTCTAACTAAT 57.514 37.500 0.00 0.00 45.94 1.73
2677 3827 6.485830 TGCATGGAGCTACTCTAACTAATT 57.514 37.500 0.00 0.00 45.94 1.40
2678 3828 6.283694 TGCATGGAGCTACTCTAACTAATTG 58.716 40.000 0.00 0.00 45.94 2.32
2679 3829 5.178438 GCATGGAGCTACTCTAACTAATTGC 59.822 44.000 0.00 0.00 41.15 3.56
2680 3830 6.520272 CATGGAGCTACTCTAACTAATTGCT 58.480 40.000 0.00 0.00 0.00 3.91
2681 3831 6.150396 TGGAGCTACTCTAACTAATTGCTC 57.850 41.667 0.00 0.00 43.18 4.26
2683 3833 5.534407 GAGCTACTCTAACTAATTGCTCCC 58.466 45.833 0.00 0.00 39.53 4.30
2684 3834 4.962995 AGCTACTCTAACTAATTGCTCCCA 59.037 41.667 0.00 0.00 0.00 4.37
2685 3835 5.051153 GCTACTCTAACTAATTGCTCCCAC 58.949 45.833 0.00 0.00 0.00 4.61
2686 3836 5.163395 GCTACTCTAACTAATTGCTCCCACT 60.163 44.000 0.00 0.00 0.00 4.00
2687 3837 5.763876 ACTCTAACTAATTGCTCCCACTT 57.236 39.130 0.00 0.00 0.00 3.16
2688 3838 6.128138 ACTCTAACTAATTGCTCCCACTTT 57.872 37.500 0.00 0.00 0.00 2.66
2689 3839 6.174049 ACTCTAACTAATTGCTCCCACTTTC 58.826 40.000 0.00 0.00 0.00 2.62
2690 3840 6.121776 TCTAACTAATTGCTCCCACTTTCA 57.878 37.500 0.00 0.00 0.00 2.69
2691 3841 6.539173 TCTAACTAATTGCTCCCACTTTCAA 58.461 36.000 0.00 0.00 0.00 2.69
2692 3842 7.175104 TCTAACTAATTGCTCCCACTTTCAAT 58.825 34.615 0.00 0.00 0.00 2.57
2693 3843 8.325787 TCTAACTAATTGCTCCCACTTTCAATA 58.674 33.333 0.00 0.00 0.00 1.90
2694 3844 6.759497 ACTAATTGCTCCCACTTTCAATAC 57.241 37.500 0.00 0.00 0.00 1.89
2695 3845 6.245408 ACTAATTGCTCCCACTTTCAATACA 58.755 36.000 0.00 0.00 0.00 2.29
2696 3846 6.891908 ACTAATTGCTCCCACTTTCAATACAT 59.108 34.615 0.00 0.00 0.00 2.29
2697 3847 8.052748 ACTAATTGCTCCCACTTTCAATACATA 58.947 33.333 0.00 0.00 0.00 2.29
2698 3848 7.902920 AATTGCTCCCACTTTCAATACATAT 57.097 32.000 0.00 0.00 0.00 1.78
2699 3849 6.942532 TTGCTCCCACTTTCAATACATATC 57.057 37.500 0.00 0.00 0.00 1.63
2700 3850 5.376625 TGCTCCCACTTTCAATACATATCC 58.623 41.667 0.00 0.00 0.00 2.59
2701 3851 5.104151 TGCTCCCACTTTCAATACATATCCA 60.104 40.000 0.00 0.00 0.00 3.41
2702 3852 5.471456 GCTCCCACTTTCAATACATATCCAG 59.529 44.000 0.00 0.00 0.00 3.86
2703 3853 6.688922 GCTCCCACTTTCAATACATATCCAGA 60.689 42.308 0.00 0.00 0.00 3.86
2704 3854 7.392766 TCCCACTTTCAATACATATCCAGAT 57.607 36.000 0.00 0.00 0.00 2.90
2705 3855 7.815383 TCCCACTTTCAATACATATCCAGATT 58.185 34.615 0.00 0.00 0.00 2.40
2706 3856 7.720957 TCCCACTTTCAATACATATCCAGATTG 59.279 37.037 0.00 0.00 0.00 2.67
2707 3857 7.720957 CCCACTTTCAATACATATCCAGATTGA 59.279 37.037 0.00 0.00 36.71 2.57
2708 3858 8.781196 CCACTTTCAATACATATCCAGATTGAG 58.219 37.037 0.00 0.00 38.98 3.02
2709 3859 9.551734 CACTTTCAATACATATCCAGATTGAGA 57.448 33.333 0.00 0.00 38.98 3.27
2710 3860 9.553064 ACTTTCAATACATATCCAGATTGAGAC 57.447 33.333 0.00 0.00 38.98 3.36
2711 3861 9.775854 CTTTCAATACATATCCAGATTGAGACT 57.224 33.333 0.00 0.00 38.98 3.24
2712 3862 9.770097 TTTCAATACATATCCAGATTGAGACTC 57.230 33.333 0.00 0.00 38.98 3.36
2713 3863 8.482852 TCAATACATATCCAGATTGAGACTCA 57.517 34.615 0.00 0.00 34.27 3.41
2714 3864 8.583296 TCAATACATATCCAGATTGAGACTCAG 58.417 37.037 5.10 0.00 34.27 3.35
2715 3865 8.583296 CAATACATATCCAGATTGAGACTCAGA 58.417 37.037 5.10 0.00 32.16 3.27
2716 3866 6.653526 ACATATCCAGATTGAGACTCAGAG 57.346 41.667 5.10 0.00 0.00 3.35
2717 3867 6.135454 ACATATCCAGATTGAGACTCAGAGT 58.865 40.000 1.46 1.46 0.00 3.24
2718 3868 6.265196 ACATATCCAGATTGAGACTCAGAGTC 59.735 42.308 21.47 21.47 45.38 3.36
2727 3877 2.570442 GACTCAGAGTCATCCGTTCC 57.430 55.000 23.62 0.00 44.45 3.62
2728 3878 0.811915 ACTCAGAGTCATCCGTTCCG 59.188 55.000 0.00 0.00 0.00 4.30
2729 3879 4.397731 GACTCAGAGTCATCCGTTCCGG 62.398 59.091 23.62 0.00 45.54 5.14
2738 3888 2.943653 CCGTTCCGGTGTCAAAGC 59.056 61.111 0.00 0.00 42.73 3.51
2739 3889 1.597027 CCGTTCCGGTGTCAAAGCT 60.597 57.895 0.00 0.00 42.73 3.74
2740 3890 1.164041 CCGTTCCGGTGTCAAAGCTT 61.164 55.000 0.00 0.00 42.73 3.74
2741 3891 0.041312 CGTTCCGGTGTCAAAGCTTG 60.041 55.000 0.00 0.00 0.00 4.01
2742 3892 0.317854 GTTCCGGTGTCAAAGCTTGC 60.318 55.000 0.00 0.00 0.00 4.01
2743 3893 0.749818 TTCCGGTGTCAAAGCTTGCA 60.750 50.000 0.00 0.00 0.00 4.08
2744 3894 0.537143 TCCGGTGTCAAAGCTTGCAT 60.537 50.000 0.00 0.00 0.00 3.96
2745 3895 0.109597 CCGGTGTCAAAGCTTGCATC 60.110 55.000 0.00 0.00 0.00 3.91
2746 3896 0.453282 CGGTGTCAAAGCTTGCATCG 60.453 55.000 14.23 14.23 35.93 3.84
2747 3897 0.874390 GGTGTCAAAGCTTGCATCGA 59.126 50.000 0.00 0.00 0.00 3.59
2748 3898 1.400242 GGTGTCAAAGCTTGCATCGAC 60.400 52.381 0.00 3.14 0.00 4.20
2749 3899 0.512518 TGTCAAAGCTTGCATCGACG 59.487 50.000 0.00 0.00 0.00 5.12
2750 3900 0.512952 GTCAAAGCTTGCATCGACGT 59.487 50.000 0.00 0.00 0.00 4.34
2751 3901 1.724623 GTCAAAGCTTGCATCGACGTA 59.275 47.619 0.00 0.00 0.00 3.57
2752 3902 2.156891 GTCAAAGCTTGCATCGACGTAA 59.843 45.455 0.00 0.00 0.00 3.18
2753 3903 2.156891 TCAAAGCTTGCATCGACGTAAC 59.843 45.455 0.00 0.00 0.00 2.50
2754 3904 1.076332 AAGCTTGCATCGACGTAACC 58.924 50.000 0.00 0.00 0.00 2.85
2755 3905 0.037697 AGCTTGCATCGACGTAACCA 60.038 50.000 0.00 0.00 0.00 3.67
2756 3906 1.006832 GCTTGCATCGACGTAACCAT 58.993 50.000 0.00 0.00 0.00 3.55
2757 3907 1.396996 GCTTGCATCGACGTAACCATT 59.603 47.619 0.00 0.00 0.00 3.16
2758 3908 2.159572 GCTTGCATCGACGTAACCATTT 60.160 45.455 0.00 0.00 0.00 2.32
2759 3909 3.062909 GCTTGCATCGACGTAACCATTTA 59.937 43.478 0.00 0.00 0.00 1.40
2760 3910 4.574759 CTTGCATCGACGTAACCATTTAC 58.425 43.478 0.00 0.00 35.17 2.01
2772 3922 6.505044 GTAACCATTTACGATGAACCCTTT 57.495 37.500 0.00 0.00 0.00 3.11
2773 3923 6.916440 GTAACCATTTACGATGAACCCTTTT 58.084 36.000 0.00 0.00 0.00 2.27
2774 3924 8.042944 GTAACCATTTACGATGAACCCTTTTA 57.957 34.615 0.00 0.00 0.00 1.52
2775 3925 7.712204 AACCATTTACGATGAACCCTTTTAT 57.288 32.000 0.00 0.00 0.00 1.40
2776 3926 7.329588 ACCATTTACGATGAACCCTTTTATC 57.670 36.000 0.00 0.00 0.00 1.75
2777 3927 6.887545 ACCATTTACGATGAACCCTTTTATCA 59.112 34.615 0.00 0.00 29.90 2.15
2778 3928 7.148137 ACCATTTACGATGAACCCTTTTATCAC 60.148 37.037 0.00 0.00 29.90 3.06
2779 3929 6.746745 TTTACGATGAACCCTTTTATCACC 57.253 37.500 0.00 0.00 29.90 4.02
2780 3930 4.569719 ACGATGAACCCTTTTATCACCT 57.430 40.909 0.00 0.00 29.90 4.00
2781 3931 4.918588 ACGATGAACCCTTTTATCACCTT 58.081 39.130 0.00 0.00 29.90 3.50
2782 3932 4.941873 ACGATGAACCCTTTTATCACCTTC 59.058 41.667 0.00 0.00 29.90 3.46
2783 3933 4.941263 CGATGAACCCTTTTATCACCTTCA 59.059 41.667 0.00 0.00 29.90 3.02
2784 3934 5.590259 CGATGAACCCTTTTATCACCTTCAT 59.410 40.000 0.00 0.00 29.90 2.57
2785 3935 6.765989 CGATGAACCCTTTTATCACCTTCATA 59.234 38.462 0.00 0.00 29.90 2.15
2786 3936 7.282224 CGATGAACCCTTTTATCACCTTCATAA 59.718 37.037 0.00 0.00 29.90 1.90
2787 3937 7.696992 TGAACCCTTTTATCACCTTCATAAC 57.303 36.000 0.00 0.00 0.00 1.89
2788 3938 6.661805 TGAACCCTTTTATCACCTTCATAACC 59.338 38.462 0.00 0.00 0.00 2.85
2789 3939 5.190677 ACCCTTTTATCACCTTCATAACCG 58.809 41.667 0.00 0.00 0.00 4.44
2790 3940 5.045432 ACCCTTTTATCACCTTCATAACCGA 60.045 40.000 0.00 0.00 0.00 4.69
2791 3941 5.527582 CCCTTTTATCACCTTCATAACCGAG 59.472 44.000 0.00 0.00 0.00 4.63
2792 3942 6.346096 CCTTTTATCACCTTCATAACCGAGA 58.654 40.000 0.00 0.00 0.00 4.04
2793 3943 6.821665 CCTTTTATCACCTTCATAACCGAGAA 59.178 38.462 0.00 0.00 0.00 2.87
2794 3944 7.335924 CCTTTTATCACCTTCATAACCGAGAAA 59.664 37.037 0.00 0.00 0.00 2.52
2795 3945 7.605410 TTTATCACCTTCATAACCGAGAAAC 57.395 36.000 0.00 0.00 0.00 2.78
2796 3946 4.610605 TCACCTTCATAACCGAGAAACA 57.389 40.909 0.00 0.00 0.00 2.83
2797 3947 5.160607 TCACCTTCATAACCGAGAAACAT 57.839 39.130 0.00 0.00 0.00 2.71
2798 3948 5.556915 TCACCTTCATAACCGAGAAACATT 58.443 37.500 0.00 0.00 0.00 2.71
2799 3949 6.001460 TCACCTTCATAACCGAGAAACATTT 58.999 36.000 0.00 0.00 0.00 2.32
2800 3950 6.148811 TCACCTTCATAACCGAGAAACATTTC 59.851 38.462 0.00 0.00 37.45 2.17
2801 3951 5.414765 ACCTTCATAACCGAGAAACATTTCC 59.585 40.000 0.68 0.00 37.92 3.13
2802 3952 5.648092 CCTTCATAACCGAGAAACATTTCCT 59.352 40.000 0.68 0.00 37.92 3.36
2803 3953 6.151144 CCTTCATAACCGAGAAACATTTCCTT 59.849 38.462 0.68 0.00 37.92 3.36
2804 3954 7.335924 CCTTCATAACCGAGAAACATTTCCTTA 59.664 37.037 0.68 0.00 37.92 2.69
2805 3955 7.843490 TCATAACCGAGAAACATTTCCTTAG 57.157 36.000 0.68 0.00 37.92 2.18
2806 3956 7.391620 TCATAACCGAGAAACATTTCCTTAGT 58.608 34.615 0.68 0.00 37.92 2.24
2807 3957 7.548075 TCATAACCGAGAAACATTTCCTTAGTC 59.452 37.037 0.68 0.00 37.92 2.59
2808 3958 4.576879 ACCGAGAAACATTTCCTTAGTCC 58.423 43.478 0.68 0.00 37.92 3.85
2809 3959 4.286291 ACCGAGAAACATTTCCTTAGTCCT 59.714 41.667 0.68 0.00 37.92 3.85
2810 3960 4.870991 CCGAGAAACATTTCCTTAGTCCTC 59.129 45.833 0.68 0.00 37.92 3.71
2811 3961 5.337652 CCGAGAAACATTTCCTTAGTCCTCT 60.338 44.000 0.68 0.00 37.92 3.69
2812 3962 6.166982 CGAGAAACATTTCCTTAGTCCTCTT 58.833 40.000 0.68 0.00 37.92 2.85
2813 3963 7.321153 CGAGAAACATTTCCTTAGTCCTCTTA 58.679 38.462 0.68 0.00 37.92 2.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
185 186 2.566833 TTGTGTAACCAGCATCAGCT 57.433 45.000 0.00 0.00 44.62 4.24
346 348 3.490348 CACTTCTTCTTCCACAACCCAT 58.510 45.455 0.00 0.00 0.00 4.00
409 411 2.109128 ACCCAATGGACACATGTTACCA 59.891 45.455 18.98 18.98 37.40 3.25
800 809 4.262164 CCAGCTACCACAAAAGCAAAAGAT 60.262 41.667 0.00 0.00 41.32 2.40
1223 1261 4.271049 CCATGAGTAGCTTGTTATTGACCG 59.729 45.833 0.00 0.00 0.00 4.79
1370 1415 7.316544 TCTTCACTTCTTTGTTCTTGTAACC 57.683 36.000 0.00 0.00 0.00 2.85
1596 1641 8.677300 GTTCTAGTGGCTCAAATGATTTCATAA 58.323 33.333 0.00 0.00 35.10 1.90
1607 1652 1.271379 GGGCAGTTCTAGTGGCTCAAA 60.271 52.381 7.82 0.00 42.98 2.69
1662 1710 4.617593 AGCCAAATCTGGGATCTTTTCAT 58.382 39.130 0.00 0.00 43.74 2.57
1908 1963 7.065683 ACGATCAAATGAAGCACACAATACATA 59.934 33.333 0.00 0.00 0.00 2.29
2445 3595 4.365899 TGACATTGAGCATGAATTCTGC 57.634 40.909 17.13 17.13 39.97 4.26
2549 3699 6.511416 CAAAACATGATCACACCTTGGTAAA 58.489 36.000 0.00 0.00 0.00 2.01
2550 3700 5.508825 GCAAAACATGATCACACCTTGGTAA 60.509 40.000 0.00 0.00 0.00 2.85
2551 3701 4.022416 GCAAAACATGATCACACCTTGGTA 60.022 41.667 0.00 0.00 0.00 3.25
2552 3702 3.243839 GCAAAACATGATCACACCTTGGT 60.244 43.478 0.00 0.00 0.00 3.67
2553 3703 3.006110 AGCAAAACATGATCACACCTTGG 59.994 43.478 0.00 0.00 0.00 3.61
2554 3704 4.247267 AGCAAAACATGATCACACCTTG 57.753 40.909 0.00 1.32 0.00 3.61
2555 3705 4.099881 ACAAGCAAAACATGATCACACCTT 59.900 37.500 0.00 0.00 0.00 3.50
2556 3706 3.638160 ACAAGCAAAACATGATCACACCT 59.362 39.130 0.00 0.00 0.00 4.00
2557 3707 3.737266 CACAAGCAAAACATGATCACACC 59.263 43.478 0.00 0.00 0.00 4.16
2558 3708 4.609947 TCACAAGCAAAACATGATCACAC 58.390 39.130 0.00 0.00 0.00 3.82
2559 3709 4.579753 TCTCACAAGCAAAACATGATCACA 59.420 37.500 0.00 0.00 0.00 3.58
2560 3710 5.049198 TCTCTCACAAGCAAAACATGATCAC 60.049 40.000 0.00 0.00 0.00 3.06
2561 3711 5.065235 TCTCTCACAAGCAAAACATGATCA 58.935 37.500 0.00 0.00 0.00 2.92
2562 3712 5.618056 TCTCTCACAAGCAAAACATGATC 57.382 39.130 0.00 0.00 0.00 2.92
2563 3713 5.475909 ACATCTCTCACAAGCAAAACATGAT 59.524 36.000 0.00 0.00 0.00 2.45
2564 3714 4.823442 ACATCTCTCACAAGCAAAACATGA 59.177 37.500 0.00 0.00 0.00 3.07
2565 3715 5.117355 ACATCTCTCACAAGCAAAACATG 57.883 39.130 0.00 0.00 0.00 3.21
2566 3716 5.779529 AACATCTCTCACAAGCAAAACAT 57.220 34.783 0.00 0.00 0.00 2.71
2567 3717 5.581126 AAACATCTCTCACAAGCAAAACA 57.419 34.783 0.00 0.00 0.00 2.83
2568 3718 6.853362 GTCTAAACATCTCTCACAAGCAAAAC 59.147 38.462 0.00 0.00 0.00 2.43
2569 3719 6.542005 TGTCTAAACATCTCTCACAAGCAAAA 59.458 34.615 0.00 0.00 0.00 2.44
2570 3720 6.054941 TGTCTAAACATCTCTCACAAGCAAA 58.945 36.000 0.00 0.00 0.00 3.68
2571 3721 5.610398 TGTCTAAACATCTCTCACAAGCAA 58.390 37.500 0.00 0.00 0.00 3.91
2572 3722 5.213891 TGTCTAAACATCTCTCACAAGCA 57.786 39.130 0.00 0.00 0.00 3.91
2573 3723 6.402983 CCATTGTCTAAACATCTCTCACAAGC 60.403 42.308 0.00 0.00 34.73 4.01
2574 3724 6.093219 CCCATTGTCTAAACATCTCTCACAAG 59.907 42.308 0.00 0.00 34.73 3.16
2575 3725 5.939883 CCCATTGTCTAAACATCTCTCACAA 59.060 40.000 0.00 0.00 34.73 3.33
2576 3726 5.491070 CCCATTGTCTAAACATCTCTCACA 58.509 41.667 0.00 0.00 34.73 3.58
2577 3727 4.333926 GCCCATTGTCTAAACATCTCTCAC 59.666 45.833 0.00 0.00 34.73 3.51
2578 3728 4.517285 GCCCATTGTCTAAACATCTCTCA 58.483 43.478 0.00 0.00 34.73 3.27
2579 3729 3.879892 GGCCCATTGTCTAAACATCTCTC 59.120 47.826 0.00 0.00 34.73 3.20
2580 3730 3.525199 AGGCCCATTGTCTAAACATCTCT 59.475 43.478 0.00 0.00 34.73 3.10
2581 3731 3.629398 CAGGCCCATTGTCTAAACATCTC 59.371 47.826 0.00 0.00 34.73 2.75
2582 3732 3.624777 CAGGCCCATTGTCTAAACATCT 58.375 45.455 0.00 0.00 34.73 2.90
2583 3733 2.099756 GCAGGCCCATTGTCTAAACATC 59.900 50.000 0.00 0.00 34.73 3.06
2584 3734 2.102578 GCAGGCCCATTGTCTAAACAT 58.897 47.619 0.00 0.00 34.73 2.71
2585 3735 1.544724 GCAGGCCCATTGTCTAAACA 58.455 50.000 0.00 0.00 0.00 2.83
2586 3736 0.817654 GGCAGGCCCATTGTCTAAAC 59.182 55.000 0.00 0.00 0.00 2.01
2587 3737 0.704076 AGGCAGGCCCATTGTCTAAA 59.296 50.000 6.70 0.00 36.58 1.85
2588 3738 0.704076 AAGGCAGGCCCATTGTCTAA 59.296 50.000 6.70 0.00 36.58 2.10
2589 3739 1.590591 TAAGGCAGGCCCATTGTCTA 58.409 50.000 6.70 0.00 36.58 2.59
2590 3740 0.929244 ATAAGGCAGGCCCATTGTCT 59.071 50.000 6.70 0.00 36.58 3.41
2591 3741 1.683385 GAATAAGGCAGGCCCATTGTC 59.317 52.381 6.70 0.00 36.58 3.18
2592 3742 1.006998 TGAATAAGGCAGGCCCATTGT 59.993 47.619 6.70 0.00 36.58 2.71
2593 3743 1.684983 CTGAATAAGGCAGGCCCATTG 59.315 52.381 6.70 0.00 36.58 2.82
2594 3744 1.570501 TCTGAATAAGGCAGGCCCATT 59.429 47.619 6.70 7.05 36.58 3.16
2595 3745 1.225373 TCTGAATAAGGCAGGCCCAT 58.775 50.000 6.70 0.00 36.58 4.00
2596 3746 1.143684 GATCTGAATAAGGCAGGCCCA 59.856 52.381 6.70 0.00 36.58 5.36
2597 3747 1.546548 GGATCTGAATAAGGCAGGCCC 60.547 57.143 6.70 0.00 36.58 5.80
2598 3748 1.879796 CGGATCTGAATAAGGCAGGCC 60.880 57.143 0.97 0.97 34.20 5.19
2599 3749 1.202698 ACGGATCTGAATAAGGCAGGC 60.203 52.381 9.00 0.00 34.20 4.85
2600 3750 2.918712 ACGGATCTGAATAAGGCAGG 57.081 50.000 9.00 0.00 34.20 4.85
2601 3751 4.887748 ACATACGGATCTGAATAAGGCAG 58.112 43.478 9.00 0.00 34.71 4.85
2602 3752 4.955811 ACATACGGATCTGAATAAGGCA 57.044 40.909 9.00 0.00 0.00 4.75
2603 3753 7.907214 AAATACATACGGATCTGAATAAGGC 57.093 36.000 9.00 0.00 0.00 4.35
2604 3754 8.230486 GCAAAATACATACGGATCTGAATAAGG 58.770 37.037 9.00 0.00 0.00 2.69
2605 3755 8.773645 TGCAAAATACATACGGATCTGAATAAG 58.226 33.333 9.00 0.00 0.00 1.73
2606 3756 8.669946 TGCAAAATACATACGGATCTGAATAA 57.330 30.769 9.00 0.00 0.00 1.40
2607 3757 8.669946 TTGCAAAATACATACGGATCTGAATA 57.330 30.769 9.00 0.00 0.00 1.75
2608 3758 7.566760 TTGCAAAATACATACGGATCTGAAT 57.433 32.000 9.00 0.00 0.00 2.57
2609 3759 6.993786 TTGCAAAATACATACGGATCTGAA 57.006 33.333 9.00 0.00 0.00 3.02
2610 3760 7.566760 AATTGCAAAATACATACGGATCTGA 57.433 32.000 9.00 0.00 0.00 3.27
2611 3761 8.633075 AAAATTGCAAAATACATACGGATCTG 57.367 30.769 1.71 0.00 0.00 2.90
2612 3762 8.686334 AGAAAATTGCAAAATACATACGGATCT 58.314 29.630 1.71 0.00 0.00 2.75
2613 3763 8.856490 AGAAAATTGCAAAATACATACGGATC 57.144 30.769 1.71 0.00 0.00 3.36
2615 3765 9.729023 CATAGAAAATTGCAAAATACATACGGA 57.271 29.630 1.71 0.00 0.00 4.69
2616 3766 9.515020 ACATAGAAAATTGCAAAATACATACGG 57.485 29.630 1.71 0.00 0.00 4.02
2625 3775 8.924691 GCATTGTAGACATAGAAAATTGCAAAA 58.075 29.630 1.71 0.00 0.00 2.44
2626 3776 8.306038 AGCATTGTAGACATAGAAAATTGCAAA 58.694 29.630 1.71 0.00 0.00 3.68
2627 3777 7.829725 AGCATTGTAGACATAGAAAATTGCAA 58.170 30.769 0.00 0.00 0.00 4.08
2628 3778 7.395190 AGCATTGTAGACATAGAAAATTGCA 57.605 32.000 0.00 0.00 0.00 4.08
2629 3779 8.589629 CAAAGCATTGTAGACATAGAAAATTGC 58.410 33.333 0.00 0.00 0.00 3.56
2630 3780 8.589629 GCAAAGCATTGTAGACATAGAAAATTG 58.410 33.333 3.31 0.00 38.85 2.32
2631 3781 8.306038 TGCAAAGCATTGTAGACATAGAAAATT 58.694 29.630 3.31 0.00 38.85 1.82
2632 3782 7.829725 TGCAAAGCATTGTAGACATAGAAAAT 58.170 30.769 3.31 0.00 38.85 1.82
2633 3783 7.213216 TGCAAAGCATTGTAGACATAGAAAA 57.787 32.000 3.31 0.00 38.85 2.29
2634 3784 6.816134 TGCAAAGCATTGTAGACATAGAAA 57.184 33.333 3.31 0.00 38.85 2.52
2649 3799 1.280133 AGAGTAGCTCCATGCAAAGCA 59.720 47.619 17.93 0.00 45.94 3.91
2650 3800 2.035530 AGAGTAGCTCCATGCAAAGC 57.964 50.000 10.24 10.24 45.94 3.51
2651 3801 4.764172 AGTTAGAGTAGCTCCATGCAAAG 58.236 43.478 0.00 0.00 45.94 2.77
2652 3802 4.826274 AGTTAGAGTAGCTCCATGCAAA 57.174 40.909 0.00 0.00 45.94 3.68
2653 3803 5.932619 TTAGTTAGAGTAGCTCCATGCAA 57.067 39.130 0.00 0.00 45.94 4.08
2654 3804 6.283694 CAATTAGTTAGAGTAGCTCCATGCA 58.716 40.000 0.00 0.00 45.94 3.96
2655 3805 5.178438 GCAATTAGTTAGAGTAGCTCCATGC 59.822 44.000 0.00 0.00 43.29 4.06
2656 3806 6.520272 AGCAATTAGTTAGAGTAGCTCCATG 58.480 40.000 0.00 0.00 0.00 3.66
2657 3807 6.739331 AGCAATTAGTTAGAGTAGCTCCAT 57.261 37.500 0.00 0.00 0.00 3.41
2658 3808 6.150396 GAGCAATTAGTTAGAGTAGCTCCA 57.850 41.667 0.00 0.00 40.86 3.86
2660 3810 5.069251 TGGGAGCAATTAGTTAGAGTAGCTC 59.931 44.000 0.00 0.00 44.69 4.09
2661 3811 4.962995 TGGGAGCAATTAGTTAGAGTAGCT 59.037 41.667 0.00 0.00 0.00 3.32
2662 3812 5.051153 GTGGGAGCAATTAGTTAGAGTAGC 58.949 45.833 0.00 0.00 0.00 3.58
2663 3813 6.472686 AGTGGGAGCAATTAGTTAGAGTAG 57.527 41.667 0.00 0.00 0.00 2.57
2664 3814 6.869206 AAGTGGGAGCAATTAGTTAGAGTA 57.131 37.500 0.00 0.00 0.00 2.59
2665 3815 5.763876 AAGTGGGAGCAATTAGTTAGAGT 57.236 39.130 0.00 0.00 0.00 3.24
2666 3816 6.173339 TGAAAGTGGGAGCAATTAGTTAGAG 58.827 40.000 0.00 0.00 0.00 2.43
2667 3817 6.121776 TGAAAGTGGGAGCAATTAGTTAGA 57.878 37.500 0.00 0.00 0.00 2.10
2668 3818 6.817765 TTGAAAGTGGGAGCAATTAGTTAG 57.182 37.500 0.00 0.00 0.00 2.34
2669 3819 7.885922 TGTATTGAAAGTGGGAGCAATTAGTTA 59.114 33.333 0.00 0.00 33.45 2.24
2670 3820 6.719370 TGTATTGAAAGTGGGAGCAATTAGTT 59.281 34.615 0.00 0.00 33.45 2.24
2671 3821 6.245408 TGTATTGAAAGTGGGAGCAATTAGT 58.755 36.000 0.00 0.00 33.45 2.24
2672 3822 6.757897 TGTATTGAAAGTGGGAGCAATTAG 57.242 37.500 0.00 0.00 33.45 1.73
2673 3823 8.995027 ATATGTATTGAAAGTGGGAGCAATTA 57.005 30.769 0.00 0.00 33.45 1.40
2674 3824 7.014615 GGATATGTATTGAAAGTGGGAGCAATT 59.985 37.037 0.00 0.00 33.45 2.32
2675 3825 6.491403 GGATATGTATTGAAAGTGGGAGCAAT 59.509 38.462 0.00 0.00 35.38 3.56
2676 3826 5.827797 GGATATGTATTGAAAGTGGGAGCAA 59.172 40.000 0.00 0.00 0.00 3.91
2677 3827 5.104151 TGGATATGTATTGAAAGTGGGAGCA 60.104 40.000 0.00 0.00 0.00 4.26
2678 3828 5.376625 TGGATATGTATTGAAAGTGGGAGC 58.623 41.667 0.00 0.00 0.00 4.70
2679 3829 6.830912 TCTGGATATGTATTGAAAGTGGGAG 58.169 40.000 0.00 0.00 0.00 4.30
2680 3830 6.823286 TCTGGATATGTATTGAAAGTGGGA 57.177 37.500 0.00 0.00 0.00 4.37
2681 3831 7.720957 TCAATCTGGATATGTATTGAAAGTGGG 59.279 37.037 0.00 0.00 35.88 4.61
2682 3832 8.681486 TCAATCTGGATATGTATTGAAAGTGG 57.319 34.615 0.00 0.00 35.88 4.00
2683 3833 9.551734 TCTCAATCTGGATATGTATTGAAAGTG 57.448 33.333 0.00 0.00 37.76 3.16
2684 3834 9.553064 GTCTCAATCTGGATATGTATTGAAAGT 57.447 33.333 0.00 0.00 37.76 2.66
2685 3835 9.775854 AGTCTCAATCTGGATATGTATTGAAAG 57.224 33.333 0.00 0.00 37.76 2.62
2686 3836 9.770097 GAGTCTCAATCTGGATATGTATTGAAA 57.230 33.333 0.00 0.00 37.76 2.69
2687 3837 8.927411 TGAGTCTCAATCTGGATATGTATTGAA 58.073 33.333 0.00 0.00 37.76 2.69
2688 3838 8.482852 TGAGTCTCAATCTGGATATGTATTGA 57.517 34.615 0.00 0.00 36.32 2.57
2689 3839 8.583296 TCTGAGTCTCAATCTGGATATGTATTG 58.417 37.037 3.67 0.00 0.00 1.90
2690 3840 8.718158 TCTGAGTCTCAATCTGGATATGTATT 57.282 34.615 3.67 0.00 0.00 1.89
2691 3841 7.949565 ACTCTGAGTCTCAATCTGGATATGTAT 59.050 37.037 4.06 0.00 0.00 2.29
2692 3842 7.293828 ACTCTGAGTCTCAATCTGGATATGTA 58.706 38.462 4.06 0.00 0.00 2.29
2693 3843 6.135454 ACTCTGAGTCTCAATCTGGATATGT 58.865 40.000 4.06 0.00 0.00 2.29
2694 3844 6.264970 TGACTCTGAGTCTCAATCTGGATATG 59.735 42.308 31.34 0.00 45.27 1.78
2695 3845 6.372104 TGACTCTGAGTCTCAATCTGGATAT 58.628 40.000 31.34 0.00 45.27 1.63
2696 3846 5.760131 TGACTCTGAGTCTCAATCTGGATA 58.240 41.667 31.34 9.97 45.27 2.59
2697 3847 4.608269 TGACTCTGAGTCTCAATCTGGAT 58.392 43.478 31.34 0.00 45.27 3.41
2698 3848 4.039603 TGACTCTGAGTCTCAATCTGGA 57.960 45.455 31.34 11.08 45.27 3.86
2699 3849 4.202141 GGATGACTCTGAGTCTCAATCTGG 60.202 50.000 31.34 0.00 45.27 3.86
2700 3850 4.497842 CGGATGACTCTGAGTCTCAATCTG 60.498 50.000 31.34 25.79 45.27 2.90
2701 3851 3.631686 CGGATGACTCTGAGTCTCAATCT 59.368 47.826 31.34 13.73 45.27 2.40
2702 3852 3.380004 ACGGATGACTCTGAGTCTCAATC 59.620 47.826 31.34 25.30 45.27 2.67
2703 3853 3.360867 ACGGATGACTCTGAGTCTCAAT 58.639 45.455 31.34 20.22 45.27 2.57
2704 3854 2.796557 ACGGATGACTCTGAGTCTCAA 58.203 47.619 31.34 16.82 45.27 3.02
2705 3855 2.498644 ACGGATGACTCTGAGTCTCA 57.501 50.000 31.34 18.00 45.27 3.27
2706 3856 2.098443 GGAACGGATGACTCTGAGTCTC 59.902 54.545 31.34 25.00 45.27 3.36
2707 3857 2.096248 GGAACGGATGACTCTGAGTCT 58.904 52.381 31.34 20.04 45.27 3.24
2708 3858 2.570442 GGAACGGATGACTCTGAGTC 57.430 55.000 26.86 26.86 45.26 3.36
2723 3873 0.317854 GCAAGCTTTGACACCGGAAC 60.318 55.000 9.46 0.00 0.00 3.62
2724 3874 0.749818 TGCAAGCTTTGACACCGGAA 60.750 50.000 9.46 0.00 0.00 4.30
2725 3875 0.537143 ATGCAAGCTTTGACACCGGA 60.537 50.000 9.46 0.00 0.00 5.14
2726 3876 0.109597 GATGCAAGCTTTGACACCGG 60.110 55.000 0.00 0.00 0.00 5.28
2727 3877 0.453282 CGATGCAAGCTTTGACACCG 60.453 55.000 0.00 0.00 0.00 4.94
2728 3878 0.874390 TCGATGCAAGCTTTGACACC 59.126 50.000 0.00 0.00 0.00 4.16
2729 3879 1.722751 CGTCGATGCAAGCTTTGACAC 60.723 52.381 21.21 4.04 35.47 3.67
2730 3880 0.512518 CGTCGATGCAAGCTTTGACA 59.487 50.000 21.21 0.00 35.47 3.58
2731 3881 0.512952 ACGTCGATGCAAGCTTTGAC 59.487 50.000 14.91 14.91 33.61 3.18
2732 3882 2.073117 TACGTCGATGCAAGCTTTGA 57.927 45.000 4.06 0.00 0.00 2.69
2733 3883 2.495939 GTTACGTCGATGCAAGCTTTG 58.504 47.619 4.06 0.00 0.00 2.77
2734 3884 1.463444 GGTTACGTCGATGCAAGCTTT 59.537 47.619 11.65 0.00 0.00 3.51
2735 3885 1.076332 GGTTACGTCGATGCAAGCTT 58.924 50.000 11.65 0.00 0.00 3.74
2736 3886 0.037697 TGGTTACGTCGATGCAAGCT 60.038 50.000 18.01 0.00 0.00 3.74
2737 3887 1.006832 ATGGTTACGTCGATGCAAGC 58.993 50.000 11.96 11.96 0.00 4.01
2738 3888 3.740044 AAATGGTTACGTCGATGCAAG 57.260 42.857 4.06 0.00 0.00 4.01
2739 3889 4.587211 GTAAATGGTTACGTCGATGCAA 57.413 40.909 4.06 0.00 30.76 4.08
2749 3899 6.505044 AAAGGGTTCATCGTAAATGGTTAC 57.495 37.500 0.00 0.00 36.94 2.50
2750 3900 8.810990 ATAAAAGGGTTCATCGTAAATGGTTA 57.189 30.769 0.00 0.00 0.00 2.85
2751 3901 7.394923 TGATAAAAGGGTTCATCGTAAATGGTT 59.605 33.333 0.00 0.00 0.00 3.67
2752 3902 6.887545 TGATAAAAGGGTTCATCGTAAATGGT 59.112 34.615 0.00 0.00 0.00 3.55
2753 3903 7.193595 GTGATAAAAGGGTTCATCGTAAATGG 58.806 38.462 0.00 0.00 0.00 3.16
2754 3904 7.067008 AGGTGATAAAAGGGTTCATCGTAAATG 59.933 37.037 0.00 0.00 0.00 2.32
2755 3905 7.116736 AGGTGATAAAAGGGTTCATCGTAAAT 58.883 34.615 0.00 0.00 0.00 1.40
2756 3906 6.478129 AGGTGATAAAAGGGTTCATCGTAAA 58.522 36.000 0.00 0.00 0.00 2.01
2757 3907 6.057321 AGGTGATAAAAGGGTTCATCGTAA 57.943 37.500 0.00 0.00 0.00 3.18
2758 3908 5.687166 AGGTGATAAAAGGGTTCATCGTA 57.313 39.130 0.00 0.00 0.00 3.43
2759 3909 4.569719 AGGTGATAAAAGGGTTCATCGT 57.430 40.909 0.00 0.00 0.00 3.73
2760 3910 4.941263 TGAAGGTGATAAAAGGGTTCATCG 59.059 41.667 0.00 0.00 0.00 3.84
2761 3911 8.406297 GTTATGAAGGTGATAAAAGGGTTCATC 58.594 37.037 0.00 0.00 35.39 2.92
2762 3912 7.342026 GGTTATGAAGGTGATAAAAGGGTTCAT 59.658 37.037 0.00 0.00 37.09 2.57
2763 3913 6.661805 GGTTATGAAGGTGATAAAAGGGTTCA 59.338 38.462 0.00 0.00 0.00 3.18
2764 3914 6.183360 CGGTTATGAAGGTGATAAAAGGGTTC 60.183 42.308 0.00 0.00 0.00 3.62
2765 3915 5.650703 CGGTTATGAAGGTGATAAAAGGGTT 59.349 40.000 0.00 0.00 0.00 4.11
2766 3916 5.045432 TCGGTTATGAAGGTGATAAAAGGGT 60.045 40.000 0.00 0.00 0.00 4.34
2767 3917 5.433526 TCGGTTATGAAGGTGATAAAAGGG 58.566 41.667 0.00 0.00 0.00 3.95
2768 3918 6.346096 TCTCGGTTATGAAGGTGATAAAAGG 58.654 40.000 0.00 0.00 0.00 3.11
2769 3919 7.843490 TTCTCGGTTATGAAGGTGATAAAAG 57.157 36.000 0.00 0.00 0.00 2.27
2770 3920 7.662258 TGTTTCTCGGTTATGAAGGTGATAAAA 59.338 33.333 0.00 0.00 0.00 1.52
2771 3921 7.162761 TGTTTCTCGGTTATGAAGGTGATAAA 58.837 34.615 0.00 0.00 0.00 1.40
2772 3922 6.703319 TGTTTCTCGGTTATGAAGGTGATAA 58.297 36.000 0.00 0.00 0.00 1.75
2773 3923 6.288941 TGTTTCTCGGTTATGAAGGTGATA 57.711 37.500 0.00 0.00 0.00 2.15
2774 3924 5.160607 TGTTTCTCGGTTATGAAGGTGAT 57.839 39.130 0.00 0.00 0.00 3.06
2775 3925 4.610605 TGTTTCTCGGTTATGAAGGTGA 57.389 40.909 0.00 0.00 0.00 4.02
2776 3926 5.880054 AATGTTTCTCGGTTATGAAGGTG 57.120 39.130 0.00 0.00 0.00 4.00
2777 3927 5.414765 GGAAATGTTTCTCGGTTATGAAGGT 59.585 40.000 5.56 0.00 37.35 3.50
2778 3928 5.648092 AGGAAATGTTTCTCGGTTATGAAGG 59.352 40.000 5.56 0.00 37.35 3.46
2779 3929 6.743575 AGGAAATGTTTCTCGGTTATGAAG 57.256 37.500 5.56 0.00 37.35 3.02
2780 3930 7.881232 ACTAAGGAAATGTTTCTCGGTTATGAA 59.119 33.333 5.56 0.00 37.35 2.57
2781 3931 7.391620 ACTAAGGAAATGTTTCTCGGTTATGA 58.608 34.615 5.56 0.00 37.35 2.15
2782 3932 7.201617 GGACTAAGGAAATGTTTCTCGGTTATG 60.202 40.741 5.56 0.00 37.35 1.90
2783 3933 6.822170 GGACTAAGGAAATGTTTCTCGGTTAT 59.178 38.462 5.56 0.00 37.35 1.89
2784 3934 6.013984 AGGACTAAGGAAATGTTTCTCGGTTA 60.014 38.462 5.56 0.13 37.35 2.85
2785 3935 5.001874 GGACTAAGGAAATGTTTCTCGGTT 58.998 41.667 5.56 0.00 37.35 4.44
2786 3936 4.286291 AGGACTAAGGAAATGTTTCTCGGT 59.714 41.667 5.56 1.19 37.35 4.69
2787 3937 4.833390 AGGACTAAGGAAATGTTTCTCGG 58.167 43.478 5.56 0.00 37.35 4.63
2788 3938 5.725362 AGAGGACTAAGGAAATGTTTCTCG 58.275 41.667 5.56 0.00 37.35 4.04


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

AutoCloner maintained by Alex Coulton.