Multiple sequence alignment - TraesCS1B01G326600

Loading Multiple Alignment...

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 TraesCS1B01G326600 chr1B 100.000 2723 0 0 1 2723 552475373 552472651 0.000000e+00 5029
1 TraesCS1B01G326600 chr1D 91.200 2534 97 48 1 2482 410073157 410070698 0.000000e+00 3328
2 TraesCS1B01G326600 chr1A 90.801 2533 123 46 5 2482 505926974 505924497 0.000000e+00 3286
3 TraesCS1B01G326600 chr1A 97.817 229 4 1 2495 2722 29811009 29811237 7.070000e-106 394
4 TraesCS1B01G326600 chr1A 97.817 229 4 1 2495 2722 341181455 341181227 7.070000e-106 394
5 TraesCS1B01G326600 chr6A 97.046 237 5 2 2487 2722 467575451 467575216 5.460000e-107 398
6 TraesCS1B01G326600 chr6A 85.714 210 27 3 1078 1285 183188150 183188358 4.570000e-53 219
7 TraesCS1B01G326600 chr4B 97.817 229 4 1 2495 2722 4887381 4887609 7.070000e-106 394
8 TraesCS1B01G326600 chr4B 97.817 229 4 1 2495 2722 128541214 128540986 7.070000e-106 394
9 TraesCS1B01G326600 chr4A 97.807 228 5 0 2495 2722 40235707 40235934 7.070000e-106 394
10 TraesCS1B01G326600 chr3B 97.009 234 5 2 2490 2722 736493735 736493967 2.540000e-105 392
11 TraesCS1B01G326600 chr2B 97.807 228 4 1 2497 2723 586904886 586904659 2.540000e-105 392
12 TraesCS1B01G326600 chr2B 82.061 262 30 14 1117 1368 640765309 640765055 9.880000e-50 207
13 TraesCS1B01G326600 chr5A 95.473 243 9 2 2481 2722 613698186 613698427 1.180000e-103 387
14 TraesCS1B01G326600 chr3A 76.840 652 100 29 1050 1663 573112486 573113124 1.220000e-83 320
15 TraesCS1B01G326600 chr2A 82.890 263 30 12 1117 1370 680357721 680357465 3.530000e-54 222
16 TraesCS1B01G326600 chr6B 85.714 210 27 3 1078 1285 239729224 239729432 4.570000e-53 219
17 TraesCS1B01G326600 chr6D 85.377 212 24 6 1078 1285 139916287 139916495 2.120000e-51 213
18 TraesCS1B01G326600 chr2D 81.887 265 34 11 1117 1373 538055269 538055011 7.640000e-51 211


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 TraesCS1B01G326600 chr1B 552472651 552475373 2722 True 5029 5029 100.000 1 2723 1 chr1B.!!$R1 2722
1 TraesCS1B01G326600 chr1D 410070698 410073157 2459 True 3328 3328 91.200 1 2482 1 chr1D.!!$R1 2481
2 TraesCS1B01G326600 chr1A 505924497 505926974 2477 True 3286 3286 90.801 5 2482 1 chr1A.!!$R2 2477
3 TraesCS1B01G326600 chr3A 573112486 573113124 638 False 320 320 76.840 1050 1663 1 chr3A.!!$F1 613

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
653 665 0.037232 GTGACCCAGAAGGAACGGAG 60.037 60.0 0.0 0.0 39.89 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2129 2218 0.605589 AAACGCACTTACTCCTGCCC 60.606 55.0 0.0 0.0 0.0 5.36 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
58 59 0.400213 TGGGAACAACGGAATGCTCT 59.600 50.000 0.00 0.00 37.44 4.09
238 245 5.504392 GTTGTTCCAACGATCGTAAGTTTT 58.496 37.500 23.04 0.75 39.48 2.43
280 287 7.468906 GCTCTCTTCTATAAACTCATGGTACGT 60.469 40.741 0.00 0.00 0.00 3.57
286 293 8.002984 TCTATAAACTCATGGTACGTCATTGA 57.997 34.615 0.00 0.00 0.00 2.57
325 332 0.608308 AACCCCTAGAGTTTTGCGGC 60.608 55.000 0.00 0.00 0.00 6.53
363 370 2.699321 TCCAGCATCATCCTCTTCTCTG 59.301 50.000 0.00 0.00 0.00 3.35
420 427 2.224159 ATGGCAGGGTTCGGTGACT 61.224 57.895 0.00 0.00 0.00 3.41
426 433 0.538977 AGGGTTCGGTGACTTCTCGA 60.539 55.000 0.00 0.00 0.00 4.04
439 446 0.948623 TTCTCGATTGCACGTGTGGG 60.949 55.000 18.38 2.53 34.70 4.61
444 451 1.359848 GATTGCACGTGTGGGTAGAG 58.640 55.000 18.38 0.00 0.00 2.43
447 454 0.896479 TGCACGTGTGGGTAGAGCTA 60.896 55.000 18.38 0.00 0.00 3.32
448 455 0.460311 GCACGTGTGGGTAGAGCTAT 59.540 55.000 18.38 0.00 0.00 2.97
457 464 4.286032 TGTGGGTAGAGCTATGTTGTTTCT 59.714 41.667 0.00 0.00 0.00 2.52
459 466 6.014070 TGTGGGTAGAGCTATGTTGTTTCTAA 60.014 38.462 0.00 0.00 0.00 2.10
488 495 2.294132 AAACTCTAGCCGCCGCTACC 62.294 60.000 2.40 0.00 46.08 3.18
514 521 1.790123 CGTGCCATTTGTATGTGCGAC 60.790 52.381 0.00 0.00 33.36 5.19
515 522 0.808125 TGCCATTTGTATGTGCGACC 59.192 50.000 0.00 0.00 33.36 4.79
517 524 1.458398 CCATTTGTATGTGCGACCCA 58.542 50.000 0.00 0.00 0.00 4.51
555 563 7.852971 AATACCAAAATTCATTTGCCTGATG 57.147 32.000 0.00 0.00 45.79 3.07
569 581 1.336517 CCTGATGTGCTGCTTTTGTGG 60.337 52.381 0.00 0.00 0.00 4.17
582 594 6.297694 TGCTTTTGTGGTTTATGCATTTTC 57.702 33.333 3.54 0.00 0.00 2.29
583 595 5.050499 TGCTTTTGTGGTTTATGCATTTTCG 60.050 36.000 3.54 0.00 0.00 3.46
590 602 5.116983 GTGGTTTATGCATTTTCGTTGAGTG 59.883 40.000 3.54 0.00 0.00 3.51
592 604 5.457140 GTTTATGCATTTTCGTTGAGTGGA 58.543 37.500 3.54 0.00 0.00 4.02
607 619 7.026562 CGTTGAGTGGATTTTATGCATTTGTA 58.973 34.615 3.54 0.00 31.75 2.41
647 659 2.504274 AACGCGTGACCCAGAAGGA 61.504 57.895 14.98 0.00 39.89 3.36
653 665 0.037232 GTGACCCAGAAGGAACGGAG 60.037 60.000 0.00 0.00 39.89 4.63
654 666 0.178944 TGACCCAGAAGGAACGGAGA 60.179 55.000 0.00 0.00 39.89 3.71
664 676 3.277142 AGGAACGGAGACACAAAGTTT 57.723 42.857 0.00 0.00 0.00 2.66
676 688 1.324383 CAAAGTTTGTAACCGCCCCT 58.676 50.000 7.48 0.00 0.00 4.79
736 748 2.341318 AAAGCGGGCGTTACAAATTC 57.659 45.000 0.00 0.00 0.00 2.17
895 916 1.639108 CCCCCACCCCCTATAATAAGC 59.361 57.143 0.00 0.00 0.00 3.09
956 978 1.725665 CACGCCATCCATCAGCTTG 59.274 57.895 0.00 0.00 0.00 4.01
1542 1612 0.526662 ACTACTTCTTCGGACAGGCG 59.473 55.000 0.00 0.00 0.00 5.52
1804 1885 2.811410 TGCCCCTAGTAGAACGAAGAA 58.189 47.619 0.00 0.00 0.00 2.52
1836 1917 6.318648 GCATGTACCTCCATGATGTTTTTAGA 59.681 38.462 5.39 0.00 43.99 2.10
1845 1926 3.343617 TGATGTTTTTAGAAGAGGCCGG 58.656 45.455 0.00 0.00 0.00 6.13
1861 1942 3.910490 GGCCGCCTTGCACAACAA 61.910 61.111 0.71 0.00 36.62 2.83
2018 2104 5.942236 ACAGACCACTCGTATTTACTCACTA 59.058 40.000 0.00 0.00 0.00 2.74
2034 2120 9.790344 TTTACTCACTACTCAGTTACTTCTACT 57.210 33.333 0.00 0.00 30.46 2.57
2120 2209 1.975660 TCTTTGGTGAAACGGAAGGG 58.024 50.000 0.00 0.00 38.12 3.95
2121 2210 0.958822 CTTTGGTGAAACGGAAGGGG 59.041 55.000 0.00 0.00 38.12 4.79
2122 2211 0.259356 TTTGGTGAAACGGAAGGGGT 59.741 50.000 0.00 0.00 38.12 4.95
2129 2218 0.328258 AAACGGAAGGGGTGATGGAG 59.672 55.000 0.00 0.00 0.00 3.86
2149 2238 0.796927 GGCAGGAGTAAGTGCGTTTC 59.203 55.000 0.00 0.00 40.82 2.78
2150 2239 0.438830 GCAGGAGTAAGTGCGTTTCG 59.561 55.000 0.00 0.00 0.00 3.46
2151 2240 1.068474 CAGGAGTAAGTGCGTTTCGG 58.932 55.000 0.00 0.00 0.00 4.30
2152 2241 0.677842 AGGAGTAAGTGCGTTTCGGT 59.322 50.000 0.00 0.00 0.00 4.69
2153 2242 0.788391 GGAGTAAGTGCGTTTCGGTG 59.212 55.000 0.00 0.00 0.00 4.94
2154 2243 0.788391 GAGTAAGTGCGTTTCGGTGG 59.212 55.000 0.00 0.00 0.00 4.61
2155 2244 0.601841 AGTAAGTGCGTTTCGGTGGG 60.602 55.000 0.00 0.00 0.00 4.61
2156 2245 1.962306 TAAGTGCGTTTCGGTGGGC 60.962 57.895 0.00 0.00 0.00 5.36
2195 2284 0.452184 GTCGCCTCGTCTCATCTCAA 59.548 55.000 0.00 0.00 0.00 3.02
2196 2285 1.066303 GTCGCCTCGTCTCATCTCAAT 59.934 52.381 0.00 0.00 0.00 2.57
2197 2286 1.335182 TCGCCTCGTCTCATCTCAATC 59.665 52.381 0.00 0.00 0.00 2.67
2198 2287 1.336440 CGCCTCGTCTCATCTCAATCT 59.664 52.381 0.00 0.00 0.00 2.40
2199 2288 2.604373 CGCCTCGTCTCATCTCAATCTC 60.604 54.545 0.00 0.00 0.00 2.75
2200 2289 2.604373 GCCTCGTCTCATCTCAATCTCG 60.604 54.545 0.00 0.00 0.00 4.04
2484 2614 2.405892 CTTGGCAGCACAAGTGTAAC 57.594 50.000 12.94 0.00 42.18 2.50
2485 2615 0.660488 TTGGCAGCACAAGTGTAACG 59.340 50.000 1.79 0.00 45.86 3.18
2486 2616 0.179070 TGGCAGCACAAGTGTAACGA 60.179 50.000 1.79 0.00 45.86 3.85
2487 2617 0.512952 GGCAGCACAAGTGTAACGAG 59.487 55.000 1.79 0.00 45.86 4.18
2488 2618 1.497991 GCAGCACAAGTGTAACGAGA 58.502 50.000 1.79 0.00 45.86 4.04
2489 2619 2.069273 GCAGCACAAGTGTAACGAGAT 58.931 47.619 1.79 0.00 45.86 2.75
2490 2620 2.480419 GCAGCACAAGTGTAACGAGATT 59.520 45.455 1.79 0.00 45.86 2.40
2491 2621 3.678072 GCAGCACAAGTGTAACGAGATTA 59.322 43.478 1.79 0.00 45.86 1.75
2492 2622 4.201628 GCAGCACAAGTGTAACGAGATTAG 60.202 45.833 1.79 0.00 45.86 1.73
2493 2623 5.161358 CAGCACAAGTGTAACGAGATTAGA 58.839 41.667 1.79 0.00 45.86 2.10
2494 2624 5.807520 CAGCACAAGTGTAACGAGATTAGAT 59.192 40.000 1.79 0.00 45.86 1.98
2495 2625 6.972901 CAGCACAAGTGTAACGAGATTAGATA 59.027 38.462 1.79 0.00 45.86 1.98
2496 2626 7.488150 CAGCACAAGTGTAACGAGATTAGATAA 59.512 37.037 1.79 0.00 45.86 1.75
2497 2627 7.702772 AGCACAAGTGTAACGAGATTAGATAAG 59.297 37.037 1.79 0.00 45.86 1.73
2498 2628 7.701078 GCACAAGTGTAACGAGATTAGATAAGA 59.299 37.037 1.79 0.00 45.86 2.10
2499 2629 9.227490 CACAAGTGTAACGAGATTAGATAAGAG 57.773 37.037 0.00 0.00 45.86 2.85
2500 2630 7.916450 ACAAGTGTAACGAGATTAGATAAGAGC 59.084 37.037 0.00 0.00 45.86 4.09
2501 2631 7.569639 AGTGTAACGAGATTAGATAAGAGCA 57.430 36.000 0.00 0.00 45.86 4.26
2502 2632 8.172352 AGTGTAACGAGATTAGATAAGAGCAT 57.828 34.615 0.00 0.00 45.86 3.79
2503 2633 8.079203 AGTGTAACGAGATTAGATAAGAGCATG 58.921 37.037 0.00 0.00 45.86 4.06
2504 2634 6.863645 TGTAACGAGATTAGATAAGAGCATGC 59.136 38.462 10.51 10.51 0.00 4.06
2505 2635 5.720371 ACGAGATTAGATAAGAGCATGCT 57.280 39.130 22.92 22.92 0.00 3.79
2506 2636 6.095432 ACGAGATTAGATAAGAGCATGCTT 57.905 37.500 23.61 9.66 0.00 3.91
2507 2637 5.925397 ACGAGATTAGATAAGAGCATGCTTG 59.075 40.000 23.61 0.83 0.00 4.01
2508 2638 6.155136 CGAGATTAGATAAGAGCATGCTTGA 58.845 40.000 23.61 10.63 0.00 3.02
2509 2639 6.812656 CGAGATTAGATAAGAGCATGCTTGAT 59.187 38.462 23.61 15.12 0.00 2.57
2510 2640 7.972832 CGAGATTAGATAAGAGCATGCTTGATA 59.027 37.037 23.61 15.18 0.00 2.15
2511 2641 9.086336 GAGATTAGATAAGAGCATGCTTGATAC 57.914 37.037 23.61 13.51 0.00 2.24
2512 2642 7.758980 AGATTAGATAAGAGCATGCTTGATACG 59.241 37.037 23.61 0.00 0.00 3.06
2513 2643 5.207110 AGATAAGAGCATGCTTGATACGT 57.793 39.130 23.61 9.29 0.00 3.57
2514 2644 5.605534 AGATAAGAGCATGCTTGATACGTT 58.394 37.500 23.61 9.27 0.00 3.99
2515 2645 6.051717 AGATAAGAGCATGCTTGATACGTTT 58.948 36.000 23.61 8.82 0.00 3.60
2516 2646 6.540189 AGATAAGAGCATGCTTGATACGTTTT 59.460 34.615 23.61 7.87 0.00 2.43
2517 2647 7.710907 AGATAAGAGCATGCTTGATACGTTTTA 59.289 33.333 23.61 9.61 0.00 1.52
2518 2648 5.725110 AGAGCATGCTTGATACGTTTTAG 57.275 39.130 23.61 0.00 0.00 1.85
2519 2649 5.178797 AGAGCATGCTTGATACGTTTTAGT 58.821 37.500 23.61 0.00 0.00 2.24
2520 2650 5.292101 AGAGCATGCTTGATACGTTTTAGTC 59.708 40.000 23.61 2.84 0.00 2.59
2521 2651 4.332819 AGCATGCTTGATACGTTTTAGTCC 59.667 41.667 16.30 0.00 0.00 3.85
2522 2652 4.495844 GCATGCTTGATACGTTTTAGTCCC 60.496 45.833 11.37 0.00 0.00 4.46
2523 2653 4.274602 TGCTTGATACGTTTTAGTCCCA 57.725 40.909 0.00 0.00 0.00 4.37
2524 2654 4.839121 TGCTTGATACGTTTTAGTCCCAT 58.161 39.130 0.00 0.00 0.00 4.00
2525 2655 4.634004 TGCTTGATACGTTTTAGTCCCATG 59.366 41.667 0.00 0.00 0.00 3.66
2526 2656 4.873827 GCTTGATACGTTTTAGTCCCATGA 59.126 41.667 0.00 0.00 0.00 3.07
2527 2657 5.220605 GCTTGATACGTTTTAGTCCCATGAC 60.221 44.000 0.00 0.00 42.09 3.06
2540 2670 4.514401 GTCCCATGACTAAAAGTAGTGGG 58.486 47.826 17.22 17.22 46.41 4.61
2543 2673 5.422214 CCATGACTAAAAGTAGTGGGACT 57.578 43.478 0.00 0.00 40.82 3.85
2544 2674 6.540438 CCATGACTAAAAGTAGTGGGACTA 57.460 41.667 0.00 0.00 40.82 2.59
2545 2675 6.942976 CCATGACTAAAAGTAGTGGGACTAA 58.057 40.000 0.00 0.00 40.82 2.24
2546 2676 7.391620 CCATGACTAAAAGTAGTGGGACTAAA 58.608 38.462 0.00 0.00 40.82 1.85
2547 2677 7.881232 CCATGACTAAAAGTAGTGGGACTAAAA 59.119 37.037 0.00 0.00 40.82 1.52
2548 2678 8.718734 CATGACTAAAAGTAGTGGGACTAAAAC 58.281 37.037 0.00 0.00 40.82 2.43
2549 2679 8.026396 TGACTAAAAGTAGTGGGACTAAAACT 57.974 34.615 0.00 0.00 40.82 2.66
2550 2680 8.488668 TGACTAAAAGTAGTGGGACTAAAACTT 58.511 33.333 0.00 0.00 40.82 2.66
2551 2681 8.672823 ACTAAAAGTAGTGGGACTAAAACTTG 57.327 34.615 0.00 0.00 39.20 3.16
2552 2682 6.387041 AAAAGTAGTGGGACTAAAACTTGC 57.613 37.500 0.00 0.00 31.62 4.01
2553 2683 4.976540 AGTAGTGGGACTAAAACTTGCT 57.023 40.909 0.00 0.00 31.62 3.91
2554 2684 6.429521 AAGTAGTGGGACTAAAACTTGCTA 57.570 37.500 0.00 0.00 31.62 3.49
2555 2685 6.038997 AGTAGTGGGACTAAAACTTGCTAG 57.961 41.667 0.00 0.00 31.62 3.42
2556 2686 4.976540 AGTGGGACTAAAACTTGCTAGT 57.023 40.909 0.00 0.00 35.68 2.57
2557 2687 4.895961 AGTGGGACTAAAACTTGCTAGTC 58.104 43.478 0.07 0.62 42.17 2.59
2558 2688 4.593634 AGTGGGACTAAAACTTGCTAGTCT 59.406 41.667 0.07 0.00 42.42 3.24
2559 2689 4.930405 GTGGGACTAAAACTTGCTAGTCTC 59.070 45.833 0.07 1.39 43.29 3.36
2560 2690 5.148651 GGGACTAAAACTTGCTAGTCTCA 57.851 43.478 0.07 0.00 42.76 3.27
2561 2691 4.930405 GGGACTAAAACTTGCTAGTCTCAC 59.070 45.833 0.07 0.00 42.76 3.51
2562 2692 4.930405 GGACTAAAACTTGCTAGTCTCACC 59.070 45.833 0.07 0.00 42.42 4.02
2563 2693 4.895961 ACTAAAACTTGCTAGTCTCACCC 58.104 43.478 0.07 0.00 31.99 4.61
2564 2694 3.857157 AAAACTTGCTAGTCTCACCCA 57.143 42.857 0.07 0.00 31.99 4.51
2565 2695 4.373156 AAAACTTGCTAGTCTCACCCAT 57.627 40.909 0.07 0.00 31.99 4.00
2566 2696 3.340814 AACTTGCTAGTCTCACCCATG 57.659 47.619 0.07 0.00 31.99 3.66
2567 2697 1.065854 ACTTGCTAGTCTCACCCATGC 60.066 52.381 0.00 0.00 0.00 4.06
2568 2698 1.209019 CTTGCTAGTCTCACCCATGCT 59.791 52.381 0.00 0.00 0.00 3.79
2569 2699 1.279496 TGCTAGTCTCACCCATGCTT 58.721 50.000 0.00 0.00 0.00 3.91
2570 2700 1.065926 TGCTAGTCTCACCCATGCTTG 60.066 52.381 0.00 0.00 0.00 4.01
2571 2701 1.745141 GCTAGTCTCACCCATGCTTGG 60.745 57.143 11.68 11.68 43.23 3.61
2572 2702 1.833630 CTAGTCTCACCCATGCTTGGA 59.166 52.381 19.85 0.00 46.92 3.53
2573 2703 1.293062 AGTCTCACCCATGCTTGGAT 58.707 50.000 19.85 0.00 46.92 3.41
2574 2704 1.211457 AGTCTCACCCATGCTTGGATC 59.789 52.381 19.85 3.99 46.92 3.36
2575 2705 0.548031 TCTCACCCATGCTTGGATCC 59.452 55.000 19.85 4.20 46.92 3.36
2576 2706 0.256752 CTCACCCATGCTTGGATCCA 59.743 55.000 19.85 11.44 46.92 3.41
2577 2707 0.703488 TCACCCATGCTTGGATCCAA 59.297 50.000 25.53 25.53 46.92 3.53
2578 2708 1.076841 TCACCCATGCTTGGATCCAAA 59.923 47.619 26.87 14.63 46.92 3.28
2579 2709 2.112998 CACCCATGCTTGGATCCAAAT 58.887 47.619 26.87 16.27 46.92 2.32
2580 2710 3.053019 TCACCCATGCTTGGATCCAAATA 60.053 43.478 26.87 18.63 46.92 1.40
2581 2711 3.068590 CACCCATGCTTGGATCCAAATAC 59.931 47.826 26.87 19.00 46.92 1.89
2582 2712 3.052642 ACCCATGCTTGGATCCAAATACT 60.053 43.478 26.87 10.16 46.92 2.12
2583 2713 4.167892 ACCCATGCTTGGATCCAAATACTA 59.832 41.667 26.87 12.31 46.92 1.82
2584 2714 5.139727 CCCATGCTTGGATCCAAATACTAA 58.860 41.667 26.87 10.11 46.92 2.24
2585 2715 5.598005 CCCATGCTTGGATCCAAATACTAAA 59.402 40.000 26.87 8.81 46.92 1.85
2586 2716 6.239120 CCCATGCTTGGATCCAAATACTAAAG 60.239 42.308 26.87 14.21 46.92 1.85
2587 2717 6.547141 CCATGCTTGGATCCAAATACTAAAGA 59.453 38.462 26.87 1.90 46.92 2.52
2588 2718 7.255381 CCATGCTTGGATCCAAATACTAAAGAG 60.255 40.741 26.87 12.80 46.92 2.85
2589 2719 6.957631 TGCTTGGATCCAAATACTAAAGAGA 58.042 36.000 26.87 1.15 35.33 3.10
2590 2720 6.823689 TGCTTGGATCCAAATACTAAAGAGAC 59.176 38.462 26.87 8.83 35.33 3.36
2591 2721 7.051000 GCTTGGATCCAAATACTAAAGAGACT 58.949 38.462 26.87 0.00 35.33 3.24
2592 2722 8.204836 GCTTGGATCCAAATACTAAAGAGACTA 58.795 37.037 26.87 0.00 35.33 2.59
2625 2755 9.866655 AGTTATTGAGCATTTATTATCCTCCAA 57.133 29.630 0.00 0.00 0.00 3.53
2628 2758 6.959639 TGAGCATTTATTATCCTCCAAACC 57.040 37.500 0.00 0.00 0.00 3.27
2629 2759 5.833131 TGAGCATTTATTATCCTCCAAACCC 59.167 40.000 0.00 0.00 0.00 4.11
2630 2760 6.030727 AGCATTTATTATCCTCCAAACCCT 57.969 37.500 0.00 0.00 0.00 4.34
2631 2761 6.071320 AGCATTTATTATCCTCCAAACCCTC 58.929 40.000 0.00 0.00 0.00 4.30
2632 2762 5.243954 GCATTTATTATCCTCCAAACCCTCC 59.756 44.000 0.00 0.00 0.00 4.30
2633 2763 6.372931 CATTTATTATCCTCCAAACCCTCCA 58.627 40.000 0.00 0.00 0.00 3.86
2634 2764 6.410222 TTTATTATCCTCCAAACCCTCCAA 57.590 37.500 0.00 0.00 0.00 3.53
2635 2765 6.606241 TTATTATCCTCCAAACCCTCCAAT 57.394 37.500 0.00 0.00 0.00 3.16
2636 2766 4.519906 TTATCCTCCAAACCCTCCAATC 57.480 45.455 0.00 0.00 0.00 2.67
2637 2767 0.999712 TCCTCCAAACCCTCCAATCC 59.000 55.000 0.00 0.00 0.00 3.01
2638 2768 0.704076 CCTCCAAACCCTCCAATCCA 59.296 55.000 0.00 0.00 0.00 3.41
2639 2769 1.341383 CCTCCAAACCCTCCAATCCAG 60.341 57.143 0.00 0.00 0.00 3.86
2640 2770 1.635487 CTCCAAACCCTCCAATCCAGA 59.365 52.381 0.00 0.00 0.00 3.86
2641 2771 2.041620 CTCCAAACCCTCCAATCCAGAA 59.958 50.000 0.00 0.00 0.00 3.02
2642 2772 2.171003 CCAAACCCTCCAATCCAGAAC 58.829 52.381 0.00 0.00 0.00 3.01
2643 2773 2.225117 CCAAACCCTCCAATCCAGAACT 60.225 50.000 0.00 0.00 0.00 3.01
2644 2774 3.010138 CCAAACCCTCCAATCCAGAACTA 59.990 47.826 0.00 0.00 0.00 2.24
2645 2775 4.508405 CCAAACCCTCCAATCCAGAACTAA 60.508 45.833 0.00 0.00 0.00 2.24
2646 2776 4.576330 AACCCTCCAATCCAGAACTAAG 57.424 45.455 0.00 0.00 0.00 2.18
2647 2777 3.803340 ACCCTCCAATCCAGAACTAAGA 58.197 45.455 0.00 0.00 0.00 2.10
2648 2778 4.175962 ACCCTCCAATCCAGAACTAAGAA 58.824 43.478 0.00 0.00 0.00 2.52
2649 2779 4.226168 ACCCTCCAATCCAGAACTAAGAAG 59.774 45.833 0.00 0.00 0.00 2.85
2650 2780 4.471386 CCCTCCAATCCAGAACTAAGAAGA 59.529 45.833 0.00 0.00 0.00 2.87
2651 2781 5.396213 CCCTCCAATCCAGAACTAAGAAGAG 60.396 48.000 0.00 0.00 0.00 2.85
2652 2782 5.396213 CCTCCAATCCAGAACTAAGAAGAGG 60.396 48.000 0.00 0.00 0.00 3.69
2653 2783 5.342017 TCCAATCCAGAACTAAGAAGAGGA 58.658 41.667 0.00 0.00 0.00 3.71
2654 2784 5.785423 TCCAATCCAGAACTAAGAAGAGGAA 59.215 40.000 0.00 0.00 0.00 3.36
2655 2785 6.445139 TCCAATCCAGAACTAAGAAGAGGAAT 59.555 38.462 0.00 0.00 0.00 3.01
2656 2786 7.037297 TCCAATCCAGAACTAAGAAGAGGAATT 60.037 37.037 0.00 0.00 0.00 2.17
2657 2787 8.267894 CCAATCCAGAACTAAGAAGAGGAATTA 58.732 37.037 0.00 0.00 0.00 1.40
2658 2788 9.672673 CAATCCAGAACTAAGAAGAGGAATTAA 57.327 33.333 0.00 0.00 0.00 1.40
2661 2791 9.672673 TCCAGAACTAAGAAGAGGAATTAAATG 57.327 33.333 0.00 0.00 0.00 2.32
2662 2792 9.672673 CCAGAACTAAGAAGAGGAATTAAATGA 57.327 33.333 0.00 0.00 0.00 2.57
2674 2804 9.889128 AGAGGAATTAAATGAGAAGAAAGAGAG 57.111 33.333 0.00 0.00 0.00 3.20
2675 2805 8.504812 AGGAATTAAATGAGAAGAAAGAGAGC 57.495 34.615 0.00 0.00 0.00 4.09
2676 2806 8.328014 AGGAATTAAATGAGAAGAAAGAGAGCT 58.672 33.333 0.00 0.00 0.00 4.09
2677 2807 9.606631 GGAATTAAATGAGAAGAAAGAGAGCTA 57.393 33.333 0.00 0.00 0.00 3.32
2706 2836 9.936329 ACATATTTTAGTAGGTTTCCCATGAAT 57.064 29.630 0.00 0.00 0.00 2.57
2715 2845 9.547279 AGTAGGTTTCCCATGAATAAAAGATTT 57.453 29.630 0.00 0.00 0.00 2.17
2719 2849 9.098355 GGTTTCCCATGAATAAAAGATTTTAGC 57.902 33.333 0.00 0.57 36.22 3.09
2720 2850 9.098355 GTTTCCCATGAATAAAAGATTTTAGCC 57.902 33.333 0.00 0.15 36.22 3.93
2721 2851 8.608185 TTCCCATGAATAAAAGATTTTAGCCT 57.392 30.769 0.00 0.00 36.22 4.58
2722 2852 8.608185 TCCCATGAATAAAAGATTTTAGCCTT 57.392 30.769 0.00 0.00 36.22 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 1.464734 AGAGTGATCACGGTGTCGAT 58.535 50.000 19.85 0.00 40.11 3.59
109 111 6.931838 AGGTTACTCGTCTAAAATGTGATCA 58.068 36.000 0.00 0.00 0.00 2.92
238 245 4.065088 AGAGAGCGCAAAAGATGTACAAA 58.935 39.130 11.47 0.00 0.00 2.83
280 287 5.959618 TCTTTGAGAGAGTACGTCAATGA 57.040 39.130 0.00 11.41 34.03 2.57
286 293 6.396450 GGGTTTATTCTTTGAGAGAGTACGT 58.604 40.000 0.00 0.00 35.37 3.57
325 332 3.633235 CTGGATTAGATGACGAAGGTCG 58.367 50.000 0.00 0.00 46.49 4.79
363 370 3.681473 CGAAAGGACCAAAGGCCC 58.319 61.111 0.00 0.00 0.00 5.80
400 407 2.751436 CACCGAACCCTGCCATGG 60.751 66.667 7.63 7.63 0.00 3.66
420 427 0.948623 CCCACACGTGCAATCGAGAA 60.949 55.000 17.22 0.00 34.70 2.87
426 433 0.673644 GCTCTACCCACACGTGCAAT 60.674 55.000 17.22 1.08 0.00 3.56
439 446 6.036191 GCACCTTAGAAACAACATAGCTCTAC 59.964 42.308 0.00 0.00 0.00 2.59
444 451 3.756434 TGGCACCTTAGAAACAACATAGC 59.244 43.478 0.00 0.00 0.00 2.97
447 454 2.552315 CGTGGCACCTTAGAAACAACAT 59.448 45.455 12.86 0.00 0.00 2.71
448 455 1.944024 CGTGGCACCTTAGAAACAACA 59.056 47.619 12.86 0.00 0.00 3.33
457 464 2.353406 GCTAGAGTTTCGTGGCACCTTA 60.353 50.000 12.86 0.00 0.00 2.69
459 466 0.037232 GCTAGAGTTTCGTGGCACCT 60.037 55.000 12.86 2.56 0.00 4.00
488 495 2.351418 ACATACAAATGGCACGTCGATG 59.649 45.455 2.26 2.26 37.43 3.84
545 553 1.042229 AAAGCAGCACATCAGGCAAA 58.958 45.000 0.00 0.00 0.00 3.68
549 557 1.336517 CCACAAAAGCAGCACATCAGG 60.337 52.381 0.00 0.00 0.00 3.86
550 558 1.338973 ACCACAAAAGCAGCACATCAG 59.661 47.619 0.00 0.00 0.00 2.90
551 559 1.401761 ACCACAAAAGCAGCACATCA 58.598 45.000 0.00 0.00 0.00 3.07
555 563 2.476241 GCATAAACCACAAAAGCAGCAC 59.524 45.455 0.00 0.00 0.00 4.40
569 581 5.457140 TCCACTCAACGAAAATGCATAAAC 58.543 37.500 0.00 0.00 0.00 2.01
582 594 5.863397 ACAAATGCATAAAATCCACTCAACG 59.137 36.000 0.00 0.00 0.00 4.10
583 595 8.028938 ACTACAAATGCATAAAATCCACTCAAC 58.971 33.333 0.00 0.00 0.00 3.18
607 619 1.000060 GGCATGATGTTTGTGTGCACT 60.000 47.619 19.41 0.00 37.53 4.40
640 652 2.526304 TTGTGTCTCCGTTCCTTCTG 57.474 50.000 0.00 0.00 0.00 3.02
647 659 4.095334 GGTTACAAACTTTGTGTCTCCGTT 59.905 41.667 16.09 0.00 45.03 4.44
653 665 2.542205 GGGCGGTTACAAACTTTGTGTC 60.542 50.000 16.09 9.12 45.03 3.67
654 666 1.406180 GGGCGGTTACAAACTTTGTGT 59.594 47.619 16.09 0.00 45.03 3.72
664 676 2.462626 AAACCCAGGGGCGGTTACA 61.463 57.895 11.37 0.00 42.90 2.41
676 688 4.643733 CGAAATTGCGCAAACCCA 57.356 50.000 28.81 3.42 0.00 4.51
713 725 0.818445 TTGTAACGCCCGCTTTTCCA 60.818 50.000 0.00 0.00 0.00 3.53
736 748 0.798009 CTTTTGCGTGGCGGCATTAG 60.798 55.000 17.19 11.31 43.52 1.73
956 978 1.151777 CGGATGGGTGTGTGCGTATC 61.152 60.000 0.00 0.00 0.00 2.24
1559 1629 2.745884 TGTACATGTGGCAGCCGC 60.746 61.111 18.93 18.93 37.44 6.53
1663 1742 1.423794 AAAGGGACGGGCTTCCTTGA 61.424 55.000 5.79 0.00 40.42 3.02
1797 1878 6.084326 AGGTACATGCAAATTTTTCTTCGT 57.916 33.333 0.00 0.00 0.00 3.85
1804 1885 5.999205 TCATGGAGGTACATGCAAATTTT 57.001 34.783 5.66 0.00 46.02 1.82
1845 1926 2.658268 GTTGTTGTGCAAGGCGGC 60.658 61.111 0.00 0.00 37.83 6.53
1861 1942 3.790437 CAGATCTGCCCCTGCCGT 61.790 66.667 10.38 0.00 36.33 5.68
2018 2104 6.278363 TCGCAAAAAGTAGAAGTAACTGAGT 58.722 36.000 0.00 0.00 0.00 3.41
2034 2120 4.280436 TGGAGTAGAGGATTCGCAAAAA 57.720 40.909 0.00 0.00 0.00 1.94
2083 2171 7.172190 CACCAAAGATATGCTGGTTATGTCTAG 59.828 40.741 0.00 0.00 41.60 2.43
2120 2209 0.691078 TACTCCTGCCCTCCATCACC 60.691 60.000 0.00 0.00 0.00 4.02
2121 2210 1.139853 CTTACTCCTGCCCTCCATCAC 59.860 57.143 0.00 0.00 0.00 3.06
2122 2211 1.273838 ACTTACTCCTGCCCTCCATCA 60.274 52.381 0.00 0.00 0.00 3.07
2129 2218 0.605589 AAACGCACTTACTCCTGCCC 60.606 55.000 0.00 0.00 0.00 5.36
2166 2255 3.723348 GAGGCGACGGGTGCAAAC 61.723 66.667 0.00 0.00 0.00 2.93
2180 2269 2.616376 ACGAGATTGAGATGAGACGAGG 59.384 50.000 0.00 0.00 0.00 4.63
2195 2284 2.185350 CAAGCGGCCAGACGAGAT 59.815 61.111 2.24 0.00 35.47 2.75
2196 2285 4.742201 GCAAGCGGCCAGACGAGA 62.742 66.667 2.24 0.00 36.11 4.04
2197 2286 4.749310 AGCAAGCGGCCAGACGAG 62.749 66.667 2.24 0.00 46.50 4.18
2198 2287 4.314440 AAGCAAGCGGCCAGACGA 62.314 61.111 2.24 0.00 46.50 4.20
2199 2288 4.093952 CAAGCAAGCGGCCAGACG 62.094 66.667 2.24 0.00 46.50 4.18
2200 2289 4.410743 GCAAGCAAGCGGCCAGAC 62.411 66.667 2.24 0.00 46.50 3.51
2482 2612 6.095432 AGCATGCTCTTATCTAATCTCGTT 57.905 37.500 16.30 0.00 0.00 3.85
2483 2613 5.720371 AGCATGCTCTTATCTAATCTCGT 57.280 39.130 16.30 0.00 0.00 4.18
2484 2614 6.155136 TCAAGCATGCTCTTATCTAATCTCG 58.845 40.000 22.93 0.00 0.00 4.04
2485 2615 9.086336 GTATCAAGCATGCTCTTATCTAATCTC 57.914 37.037 22.93 0.00 0.00 2.75
2486 2616 7.758980 CGTATCAAGCATGCTCTTATCTAATCT 59.241 37.037 22.93 0.00 0.00 2.40
2487 2617 7.543868 ACGTATCAAGCATGCTCTTATCTAATC 59.456 37.037 22.93 3.71 0.00 1.75
2488 2618 7.382110 ACGTATCAAGCATGCTCTTATCTAAT 58.618 34.615 22.93 8.23 0.00 1.73
2489 2619 6.749139 ACGTATCAAGCATGCTCTTATCTAA 58.251 36.000 22.93 0.81 0.00 2.10
2490 2620 6.332735 ACGTATCAAGCATGCTCTTATCTA 57.667 37.500 22.93 4.60 0.00 1.98
2491 2621 5.207110 ACGTATCAAGCATGCTCTTATCT 57.793 39.130 22.93 0.00 0.00 1.98
2492 2622 5.914085 AACGTATCAAGCATGCTCTTATC 57.086 39.130 22.93 10.94 0.00 1.75
2493 2623 6.683974 AAAACGTATCAAGCATGCTCTTAT 57.316 33.333 22.93 16.43 0.00 1.73
2494 2624 6.816640 ACTAAAACGTATCAAGCATGCTCTTA 59.183 34.615 22.93 9.92 0.00 2.10
2495 2625 5.643777 ACTAAAACGTATCAAGCATGCTCTT 59.356 36.000 22.93 11.28 0.00 2.85
2496 2626 5.178797 ACTAAAACGTATCAAGCATGCTCT 58.821 37.500 22.93 11.48 0.00 4.09
2497 2627 5.470845 ACTAAAACGTATCAAGCATGCTC 57.529 39.130 22.93 7.00 0.00 4.26
2498 2628 4.332819 GGACTAAAACGTATCAAGCATGCT 59.667 41.667 16.30 16.30 0.00 3.79
2499 2629 4.495844 GGGACTAAAACGTATCAAGCATGC 60.496 45.833 10.51 10.51 0.00 4.06
2500 2630 4.634004 TGGGACTAAAACGTATCAAGCATG 59.366 41.667 0.00 0.00 0.00 4.06
2501 2631 4.839121 TGGGACTAAAACGTATCAAGCAT 58.161 39.130 0.00 0.00 0.00 3.79
2502 2632 4.274602 TGGGACTAAAACGTATCAAGCA 57.725 40.909 0.00 0.00 0.00 3.91
2503 2633 4.873827 TCATGGGACTAAAACGTATCAAGC 59.126 41.667 0.00 0.00 0.00 4.01
2504 2634 6.345920 GTCATGGGACTAAAACGTATCAAG 57.654 41.667 0.00 0.00 40.99 3.02
2520 2650 4.225267 AGTCCCACTACTTTTAGTCATGGG 59.775 45.833 16.70 16.70 46.94 4.00
2521 2651 5.422214 AGTCCCACTACTTTTAGTCATGG 57.578 43.478 0.00 0.00 36.31 3.66
2522 2652 8.718734 GTTTTAGTCCCACTACTTTTAGTCATG 58.281 37.037 0.00 0.00 36.31 3.07
2523 2653 8.657712 AGTTTTAGTCCCACTACTTTTAGTCAT 58.342 33.333 0.00 0.00 36.31 3.06
2524 2654 8.026396 AGTTTTAGTCCCACTACTTTTAGTCA 57.974 34.615 0.00 0.00 36.31 3.41
2525 2655 8.771766 CAAGTTTTAGTCCCACTACTTTTAGTC 58.228 37.037 0.00 0.00 36.31 2.59
2526 2656 7.228108 GCAAGTTTTAGTCCCACTACTTTTAGT 59.772 37.037 0.00 0.00 39.30 2.24
2527 2657 7.444487 AGCAAGTTTTAGTCCCACTACTTTTAG 59.556 37.037 0.00 0.00 28.93 1.85
2528 2658 7.284820 AGCAAGTTTTAGTCCCACTACTTTTA 58.715 34.615 0.00 0.00 28.93 1.52
2529 2659 6.127101 AGCAAGTTTTAGTCCCACTACTTTT 58.873 36.000 0.00 0.00 28.93 2.27
2530 2660 5.691896 AGCAAGTTTTAGTCCCACTACTTT 58.308 37.500 0.00 0.00 28.93 2.66
2531 2661 5.306114 AGCAAGTTTTAGTCCCACTACTT 57.694 39.130 0.00 0.00 28.93 2.24
2532 2662 4.976540 AGCAAGTTTTAGTCCCACTACT 57.023 40.909 0.00 0.00 28.93 2.57
2533 2663 5.791666 ACTAGCAAGTTTTAGTCCCACTAC 58.208 41.667 0.00 0.00 27.15 2.73
2534 2664 5.778750 AGACTAGCAAGTTTTAGTCCCACTA 59.221 40.000 15.72 0.00 44.32 2.74
2535 2665 4.593634 AGACTAGCAAGTTTTAGTCCCACT 59.406 41.667 15.72 1.62 44.32 4.00
2536 2666 4.895961 AGACTAGCAAGTTTTAGTCCCAC 58.104 43.478 15.72 0.00 44.32 4.61
2537 2667 4.591498 TGAGACTAGCAAGTTTTAGTCCCA 59.409 41.667 15.72 10.61 44.32 4.37
2538 2668 4.930405 GTGAGACTAGCAAGTTTTAGTCCC 59.070 45.833 15.72 8.76 44.32 4.46
2539 2669 4.930405 GGTGAGACTAGCAAGTTTTAGTCC 59.070 45.833 15.72 10.59 44.32 3.85
2540 2670 4.930405 GGGTGAGACTAGCAAGTTTTAGTC 59.070 45.833 13.08 13.08 43.83 2.59
2541 2671 4.347000 TGGGTGAGACTAGCAAGTTTTAGT 59.653 41.667 0.00 0.00 35.56 2.24
2542 2672 4.894784 TGGGTGAGACTAGCAAGTTTTAG 58.105 43.478 0.00 0.00 35.56 1.85
2543 2673 4.967084 TGGGTGAGACTAGCAAGTTTTA 57.033 40.909 0.00 0.00 35.56 1.52
2544 2674 3.857157 TGGGTGAGACTAGCAAGTTTT 57.143 42.857 0.00 0.00 35.56 2.43
2545 2675 3.679389 CATGGGTGAGACTAGCAAGTTT 58.321 45.455 0.00 0.00 35.56 2.66
2546 2676 2.616510 GCATGGGTGAGACTAGCAAGTT 60.617 50.000 0.00 0.00 35.56 2.66
2547 2677 1.065854 GCATGGGTGAGACTAGCAAGT 60.066 52.381 0.00 0.00 39.21 3.16
2548 2678 1.209019 AGCATGGGTGAGACTAGCAAG 59.791 52.381 0.00 0.00 0.00 4.01
2549 2679 1.279496 AGCATGGGTGAGACTAGCAA 58.721 50.000 0.00 0.00 0.00 3.91
2550 2680 1.065926 CAAGCATGGGTGAGACTAGCA 60.066 52.381 0.00 0.00 0.00 3.49
2551 2681 1.661341 CAAGCATGGGTGAGACTAGC 58.339 55.000 0.00 0.00 0.00 3.42
2552 2682 2.322355 CCAAGCATGGGTGAGACTAG 57.678 55.000 0.00 0.00 43.51 2.57
2563 2693 7.500227 TCTCTTTAGTATTTGGATCCAAGCATG 59.500 37.037 25.69 12.43 37.24 4.06
2564 2694 7.500559 GTCTCTTTAGTATTTGGATCCAAGCAT 59.499 37.037 25.69 19.69 37.24 3.79
2565 2695 6.823689 GTCTCTTTAGTATTTGGATCCAAGCA 59.176 38.462 25.69 14.00 37.24 3.91
2566 2696 7.051000 AGTCTCTTTAGTATTTGGATCCAAGC 58.949 38.462 25.69 19.18 37.24 4.01
2599 2729 9.866655 TTGGAGGATAATAAATGCTCAATAACT 57.133 29.630 8.48 0.00 38.10 2.24
2602 2732 9.077885 GGTTTGGAGGATAATAAATGCTCAATA 57.922 33.333 8.48 0.00 38.10 1.90
2603 2733 7.015584 GGGTTTGGAGGATAATAAATGCTCAAT 59.984 37.037 8.48 0.00 38.10 2.57
2604 2734 6.323739 GGGTTTGGAGGATAATAAATGCTCAA 59.676 38.462 8.48 0.00 38.10 3.02
2605 2735 5.833131 GGGTTTGGAGGATAATAAATGCTCA 59.167 40.000 8.48 0.00 38.10 4.26
2606 2736 6.071320 AGGGTTTGGAGGATAATAAATGCTC 58.929 40.000 0.00 0.00 36.02 4.26
2607 2737 6.030727 AGGGTTTGGAGGATAATAAATGCT 57.969 37.500 0.00 0.00 0.00 3.79
2608 2738 5.243954 GGAGGGTTTGGAGGATAATAAATGC 59.756 44.000 0.00 0.00 0.00 3.56
2609 2739 6.372931 TGGAGGGTTTGGAGGATAATAAATG 58.627 40.000 0.00 0.00 0.00 2.32
2610 2740 6.606241 TGGAGGGTTTGGAGGATAATAAAT 57.394 37.500 0.00 0.00 0.00 1.40
2611 2741 6.410222 TTGGAGGGTTTGGAGGATAATAAA 57.590 37.500 0.00 0.00 0.00 1.40
2612 2742 6.411554 GGATTGGAGGGTTTGGAGGATAATAA 60.412 42.308 0.00 0.00 0.00 1.40
2613 2743 5.074515 GGATTGGAGGGTTTGGAGGATAATA 59.925 44.000 0.00 0.00 0.00 0.98
2614 2744 4.140924 GGATTGGAGGGTTTGGAGGATAAT 60.141 45.833 0.00 0.00 0.00 1.28
2615 2745 3.204382 GGATTGGAGGGTTTGGAGGATAA 59.796 47.826 0.00 0.00 0.00 1.75
2616 2746 2.783510 GGATTGGAGGGTTTGGAGGATA 59.216 50.000 0.00 0.00 0.00 2.59
2617 2747 1.570979 GGATTGGAGGGTTTGGAGGAT 59.429 52.381 0.00 0.00 0.00 3.24
2618 2748 0.999712 GGATTGGAGGGTTTGGAGGA 59.000 55.000 0.00 0.00 0.00 3.71
2619 2749 0.704076 TGGATTGGAGGGTTTGGAGG 59.296 55.000 0.00 0.00 0.00 4.30
2620 2750 1.635487 TCTGGATTGGAGGGTTTGGAG 59.365 52.381 0.00 0.00 0.00 3.86
2621 2751 1.753903 TCTGGATTGGAGGGTTTGGA 58.246 50.000 0.00 0.00 0.00 3.53
2622 2752 2.171003 GTTCTGGATTGGAGGGTTTGG 58.829 52.381 0.00 0.00 0.00 3.28
2623 2753 3.160679 AGTTCTGGATTGGAGGGTTTG 57.839 47.619 0.00 0.00 0.00 2.93
2624 2754 4.601857 TCTTAGTTCTGGATTGGAGGGTTT 59.398 41.667 0.00 0.00 0.00 3.27
2625 2755 4.175962 TCTTAGTTCTGGATTGGAGGGTT 58.824 43.478 0.00 0.00 0.00 4.11
2626 2756 3.803340 TCTTAGTTCTGGATTGGAGGGT 58.197 45.455 0.00 0.00 0.00 4.34
2627 2757 4.471386 TCTTCTTAGTTCTGGATTGGAGGG 59.529 45.833 0.00 0.00 0.00 4.30
2628 2758 5.396213 CCTCTTCTTAGTTCTGGATTGGAGG 60.396 48.000 0.00 0.00 0.00 4.30
2629 2759 5.423610 TCCTCTTCTTAGTTCTGGATTGGAG 59.576 44.000 0.00 0.00 0.00 3.86
2630 2760 5.342017 TCCTCTTCTTAGTTCTGGATTGGA 58.658 41.667 0.00 0.00 0.00 3.53
2631 2761 5.683876 TCCTCTTCTTAGTTCTGGATTGG 57.316 43.478 0.00 0.00 0.00 3.16
2632 2762 9.672673 TTAATTCCTCTTCTTAGTTCTGGATTG 57.327 33.333 0.00 0.00 0.00 2.67
2635 2765 9.672673 CATTTAATTCCTCTTCTTAGTTCTGGA 57.327 33.333 0.00 0.00 0.00 3.86
2636 2766 9.672673 TCATTTAATTCCTCTTCTTAGTTCTGG 57.327 33.333 0.00 0.00 0.00 3.86
2648 2778 9.889128 CTCTCTTTCTTCTCATTTAATTCCTCT 57.111 33.333 0.00 0.00 0.00 3.69
2649 2779 8.611757 GCTCTCTTTCTTCTCATTTAATTCCTC 58.388 37.037 0.00 0.00 0.00 3.71
2650 2780 8.328014 AGCTCTCTTTCTTCTCATTTAATTCCT 58.672 33.333 0.00 0.00 0.00 3.36
2651 2781 8.504812 AGCTCTCTTTCTTCTCATTTAATTCC 57.495 34.615 0.00 0.00 0.00 3.01
2693 2823 9.098355 GCTAAAATCTTTTATTCATGGGAAACC 57.902 33.333 0.00 0.00 40.44 3.27
2694 2824 9.098355 GGCTAAAATCTTTTATTCATGGGAAAC 57.902 33.333 0.00 0.00 36.43 2.78
2695 2825 9.045745 AGGCTAAAATCTTTTATTCATGGGAAA 57.954 29.630 0.00 0.00 36.43 3.13
2696 2826 8.608185 AGGCTAAAATCTTTTATTCATGGGAA 57.392 30.769 0.00 0.00 37.45 3.97
2697 2827 8.608185 AAGGCTAAAATCTTTTATTCATGGGA 57.392 30.769 0.00 0.00 32.69 4.37


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

AutoCloner maintained by Alex Coulton.