Multiple sequence alignment - TraesCS5A01G029000

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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 TraesCS5A01G029000 chr5A 100.000 3250 0 0 1 3250 24774477 24777726 0.000000e+00 6002.0
1 TraesCS5A01G029000 chr5A 90.559 519 44 4 2734 3250 25027369 25026854 0.000000e+00 682.0
2 TraesCS5A01G029000 chr5A 91.515 330 28 0 2154 2483 25027696 25027367 3.820000e-124 455.0
3 TraesCS5A01G029000 chr5A 91.188 261 17 2 2482 2736 386169782 386169522 1.860000e-92 350.0
4 TraesCS5A01G029000 chr5A 89.811 265 21 2 2481 2739 548500911 548500647 5.200000e-88 335.0
5 TraesCS5A01G029000 chr5A 89.474 57 6 0 2096 2152 25055269 25055213 4.500000e-09 73.1
6 TraesCS5A01G029000 chr5D 92.663 2508 122 22 2 2483 35981910 35984381 0.000000e+00 3555.0
7 TraesCS5A01G029000 chr5D 94.220 519 26 3 2734 3250 35984379 35984895 0.000000e+00 789.0
8 TraesCS5A01G029000 chr5B 92.109 2522 142 20 2 2483 26914154 26916658 0.000000e+00 3502.0
9 TraesCS5A01G029000 chr5B 93.762 513 28 3 2734 3244 26916656 26917166 0.000000e+00 767.0
10 TraesCS5A01G029000 chr3A 95.038 262 7 2 2481 2736 198535897 198535636 1.090000e-109 407.0
11 TraesCS5A01G029000 chr1A 93.939 264 10 2 2478 2735 21407660 21407923 8.450000e-106 394.0
12 TraesCS5A01G029000 chr1A 88.652 282 23 6 2464 2736 91044581 91044862 5.200000e-88 335.0
13 TraesCS5A01G029000 chr6B 91.386 267 16 3 2480 2740 113783438 113783173 3.080000e-95 359.0
14 TraesCS5A01G029000 chr4D 90.840 262 18 2 2482 2737 426205982 426205721 2.400000e-91 346.0
15 TraesCS5A01G029000 chr2D 90.421 261 19 2 2482 2736 602713815 602714075 4.020000e-89 339.0
16 TraesCS5A01G029000 chr2A 89.811 265 21 4 2478 2736 103588119 103588383 5.200000e-88 335.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5A01G029000 chr5A 24774477 24777726 3249 False 6002.0 6002 100.0000 1 3250 1 chr5A.!!$F1 3249
1 TraesCS5A01G029000 chr5A 25026854 25027696 842 True 568.5 682 91.0370 2154 3250 2 chr5A.!!$R4 1096
2 TraesCS5A01G029000 chr5D 35981910 35984895 2985 False 2172.0 3555 93.4415 2 3250 2 chr5D.!!$F1 3248
3 TraesCS5A01G029000 chr5B 26914154 26917166 3012 False 2134.5 3502 92.9355 2 3244 2 chr5B.!!$F1 3242

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
121 124 0.387202 CCTATGACAGTGGCGAGAGG 59.613 60.000 0.00 0.00 0.0 3.69 F
157 160 0.899720 TATTCGGAACAAGCGGAGGT 59.100 50.000 0.00 0.00 44.6 3.85 F
1065 1073 1.302511 GAAGAAAGTGGCCGGCTCA 60.303 57.895 28.56 19.91 0.0 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1042 1050 0.036875 CCGGCCACTTTCTTCTCCTT 59.963 55.0 2.24 0.0 0.00 3.36 R
1172 1180 0.107165 GATCCTTTTCGGGTCTGGGG 60.107 60.0 0.00 0.0 40.00 4.96 R
2679 2743 0.035317 TGCCTGAAGTCAAGCATCGT 59.965 50.0 0.38 0.0 38.29 3.73 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
19 20 2.825836 GCCTCAAGGGACGCCATG 60.826 66.667 0.00 0.00 37.23 3.66
54 55 2.789917 GCATGCCTGCTTCGTCAG 59.210 61.111 6.36 0.00 45.32 3.51
72 73 3.066342 GTCAGTAGCTGATACGCCAGTTA 59.934 47.826 0.00 0.00 42.73 2.24
73 74 3.889538 TCAGTAGCTGATACGCCAGTTAT 59.110 43.478 0.00 0.00 39.55 1.89
74 75 4.023107 TCAGTAGCTGATACGCCAGTTATC 60.023 45.833 0.00 0.00 39.55 1.75
75 76 2.821991 AGCTGATACGCCAGTTATCC 57.178 50.000 0.00 0.00 36.57 2.59
76 77 2.320781 AGCTGATACGCCAGTTATCCT 58.679 47.619 0.00 0.00 36.57 3.24
77 78 2.036475 AGCTGATACGCCAGTTATCCTG 59.964 50.000 0.00 0.00 41.15 3.86
78 79 2.408050 CTGATACGCCAGTTATCCTGC 58.592 52.381 0.00 0.00 40.06 4.85
79 80 1.760029 TGATACGCCAGTTATCCTGCA 59.240 47.619 0.00 0.00 40.06 4.41
80 81 2.224042 TGATACGCCAGTTATCCTGCAG 60.224 50.000 6.78 6.78 40.06 4.41
104 107 2.903357 CCACGGCTATGTGCTCCT 59.097 61.111 0.00 0.00 42.39 3.69
112 115 2.366916 GGCTATGTGCTCCTATGACAGT 59.633 50.000 0.00 0.00 42.39 3.55
121 124 0.387202 CCTATGACAGTGGCGAGAGG 59.613 60.000 0.00 0.00 0.00 3.69
157 160 0.899720 TATTCGGAACAAGCGGAGGT 59.100 50.000 0.00 0.00 44.60 3.85
163 166 1.507141 GAACAAGCGGAGGTGGTGTG 61.507 60.000 0.00 0.00 43.92 3.82
167 170 4.643387 GCGGAGGTGGTGTGGCTT 62.643 66.667 0.00 0.00 0.00 4.35
192 195 1.609501 CGTCCTTCCCCACTCTCCA 60.610 63.158 0.00 0.00 0.00 3.86
246 249 8.212372 CAATGCATGCTTAATTTAGATTCTCG 57.788 34.615 20.33 0.00 0.00 4.04
482 485 3.616379 GTCTGAGGCGATTCTTTCTTGAG 59.384 47.826 0.00 0.00 0.00 3.02
488 491 5.552178 AGGCGATTCTTTCTTGAGTTTAGT 58.448 37.500 0.00 0.00 0.00 2.24
489 492 6.698380 AGGCGATTCTTTCTTGAGTTTAGTA 58.302 36.000 0.00 0.00 0.00 1.82
499 502 9.549078 CTTTCTTGAGTTTAGTAACCTCTCTTT 57.451 33.333 8.69 0.00 34.71 2.52
515 518 5.123027 CCTCTCTTTGCTGTTGTTATCTTCC 59.877 44.000 0.00 0.00 0.00 3.46
516 519 4.690748 TCTCTTTGCTGTTGTTATCTTCCG 59.309 41.667 0.00 0.00 0.00 4.30
517 520 3.188460 TCTTTGCTGTTGTTATCTTCCGC 59.812 43.478 0.00 0.00 0.00 5.54
523 526 2.965462 GTTATCTTCCGCGCCCCG 60.965 66.667 0.00 0.00 0.00 5.73
543 546 3.365832 CGCATCCCAAGAAAATCAATCG 58.634 45.455 0.00 0.00 0.00 3.34
701 707 6.366332 GCAGTAGTATTGATATTTGAGACCCG 59.634 42.308 0.00 0.00 0.00 5.28
794 800 2.557056 GCCTTGTTCCTGGTACCTTTTC 59.443 50.000 14.36 0.91 0.00 2.29
815 821 5.092554 TCCTGTCTGTAGTTTTGTTCACA 57.907 39.130 0.00 0.00 0.00 3.58
816 822 5.680619 TCCTGTCTGTAGTTTTGTTCACAT 58.319 37.500 0.00 0.00 0.00 3.21
848 854 7.226720 CGGAGGTAGCACAAATAATTATGTCTT 59.773 37.037 0.00 0.00 0.00 3.01
907 914 3.118408 TCAGGAACTACATACACATGCCC 60.118 47.826 0.00 0.00 36.02 5.36
911 918 2.575532 ACTACATACACATGCCCATGC 58.424 47.619 8.11 0.00 42.39 4.06
1041 1049 2.357836 CCTGCACCCAAGGATGCT 59.642 61.111 7.04 0.00 42.55 3.79
1042 1050 1.609239 CCTGCACCCAAGGATGCTA 59.391 57.895 7.04 0.00 42.55 3.49
1055 1063 5.495640 CAAGGATGCTAAGGAGAAGAAAGT 58.504 41.667 0.00 0.00 0.00 2.66
1065 1073 1.302511 GAAGAAAGTGGCCGGCTCA 60.303 57.895 28.56 19.91 0.00 4.26
1172 1180 0.459759 GGACCAAACCTCGACGGATC 60.460 60.000 7.76 0.00 36.31 3.36
1245 1253 1.745320 AAACCGACTGGAGCGTCACT 61.745 55.000 0.00 0.00 39.21 3.41
1272 1280 2.399916 AGGCTCTCTTCAGCATCAAC 57.600 50.000 0.00 0.00 41.65 3.18
1291 1299 1.289380 GTCGGGAACACGAGCTTCT 59.711 57.895 0.00 0.00 44.42 2.85
1292 1300 0.733223 GTCGGGAACACGAGCTTCTC 60.733 60.000 0.00 0.00 44.42 2.87
1364 1372 2.434534 GCATTTGGCGCCATTGCA 60.435 55.556 39.13 23.51 36.26 4.08
1366 1374 1.789116 CATTTGGCGCCATTGCAAC 59.211 52.632 33.25 0.00 37.32 4.17
1367 1375 0.949588 CATTTGGCGCCATTGCAACA 60.950 50.000 33.25 10.98 37.32 3.33
1372 1380 1.300080 GCGCCATTGCAACAGTTGT 60.300 52.632 14.88 0.00 37.32 3.32
1436 1444 1.228429 CCAAGGCAACCGGGAAAGA 60.228 57.895 6.32 0.00 37.17 2.52
1439 1447 0.106419 AAGGCAACCGGGAAAGACAA 60.106 50.000 6.32 0.00 37.17 3.18
1491 1499 7.523544 GCGGATCACATAGATAGCATATCTCAT 60.524 40.741 2.65 0.00 39.13 2.90
1546 1554 5.903923 TCCTGATGTATGGCCTCTCTATAA 58.096 41.667 3.32 0.00 0.00 0.98
1556 1564 2.370189 GCCTCTCTATAACATGCACCCT 59.630 50.000 0.00 0.00 0.00 4.34
1609 1618 7.926555 AGTTCTTTCTCGACTTTTCAGTTATCA 59.073 33.333 0.00 0.00 31.22 2.15
1617 1626 5.403166 CGACTTTTCAGTTATCACCGTACAA 59.597 40.000 0.00 0.00 31.22 2.41
1712 1727 8.272866 ACTTAATTACAAAATTGTTTTCTGCGC 58.727 29.630 0.00 0.00 42.35 6.09
1717 1732 4.810491 ACAAAATTGTTTTCTGCGCAATCT 59.190 33.333 13.05 0.00 38.47 2.40
1723 1738 3.066621 TGTTTTCTGCGCAATCTTTCACT 59.933 39.130 13.05 0.00 0.00 3.41
1996 2012 1.668151 GTGGGTGCTCGAAGGACAC 60.668 63.158 8.31 5.60 40.70 3.67
2087 2124 1.068474 AGAACGAATCACCGAAAGCG 58.932 50.000 0.00 0.00 37.24 4.68
2231 2295 2.435372 TGTTTCCCTGCTGTTCTTGT 57.565 45.000 0.00 0.00 0.00 3.16
2262 2326 6.109156 TCTGTTGCTAAGGAGTATTCAACA 57.891 37.500 0.00 0.00 40.67 3.33
2265 2329 5.221843 TGTTGCTAAGGAGTATTCAACAGGT 60.222 40.000 0.00 0.00 38.86 4.00
2267 2331 4.530553 TGCTAAGGAGTATTCAACAGGTGA 59.469 41.667 0.00 0.00 0.00 4.02
2309 2373 4.467795 TGGTTCTTTCCCTAGATGACTCAG 59.532 45.833 0.00 0.00 0.00 3.35
2430 2494 3.329520 ACCAATTACTTGCTCTGGGTACA 59.670 43.478 0.00 0.00 0.00 2.90
2487 2551 8.794335 AGAGAAGATGTTAATTTTGTACTCCC 57.206 34.615 0.00 0.00 0.00 4.30
2488 2552 8.606830 AGAGAAGATGTTAATTTTGTACTCCCT 58.393 33.333 0.00 0.00 0.00 4.20
2489 2553 8.794335 AGAAGATGTTAATTTTGTACTCCCTC 57.206 34.615 0.00 0.00 0.00 4.30
2490 2554 7.829706 AGAAGATGTTAATTTTGTACTCCCTCC 59.170 37.037 0.00 0.00 0.00 4.30
2491 2555 6.113411 AGATGTTAATTTTGTACTCCCTCCG 58.887 40.000 0.00 0.00 0.00 4.63
2492 2556 4.581868 TGTTAATTTTGTACTCCCTCCGG 58.418 43.478 0.00 0.00 0.00 5.14
2493 2557 4.041938 TGTTAATTTTGTACTCCCTCCGGT 59.958 41.667 0.00 0.00 0.00 5.28
2494 2558 3.345508 AATTTTGTACTCCCTCCGGTC 57.654 47.619 0.00 0.00 0.00 4.79
2495 2559 0.978907 TTTTGTACTCCCTCCGGTCC 59.021 55.000 0.00 0.00 0.00 4.46
2496 2560 0.115745 TTTGTACTCCCTCCGGTCCT 59.884 55.000 0.00 0.00 0.00 3.85
2497 2561 0.115745 TTGTACTCCCTCCGGTCCTT 59.884 55.000 0.00 0.00 0.00 3.36
2498 2562 0.115745 TGTACTCCCTCCGGTCCTTT 59.884 55.000 0.00 0.00 0.00 3.11
2499 2563 1.273759 GTACTCCCTCCGGTCCTTTT 58.726 55.000 0.00 0.00 0.00 2.27
2500 2564 1.627329 GTACTCCCTCCGGTCCTTTTT 59.373 52.381 0.00 0.00 0.00 1.94
2501 2565 2.034436 ACTCCCTCCGGTCCTTTTTA 57.966 50.000 0.00 0.00 0.00 1.52
2502 2566 1.627329 ACTCCCTCCGGTCCTTTTTAC 59.373 52.381 0.00 0.00 0.00 2.01
2503 2567 1.907255 CTCCCTCCGGTCCTTTTTACT 59.093 52.381 0.00 0.00 0.00 2.24
2504 2568 2.305052 CTCCCTCCGGTCCTTTTTACTT 59.695 50.000 0.00 0.00 0.00 2.24
2505 2569 2.303890 TCCCTCCGGTCCTTTTTACTTC 59.696 50.000 0.00 0.00 0.00 3.01
2506 2570 2.344025 CCTCCGGTCCTTTTTACTTCG 58.656 52.381 0.00 0.00 0.00 3.79
2507 2571 1.730612 CTCCGGTCCTTTTTACTTCGC 59.269 52.381 0.00 0.00 0.00 4.70
2508 2572 1.070445 TCCGGTCCTTTTTACTTCGCA 59.930 47.619 0.00 0.00 0.00 5.10
2509 2573 2.081462 CCGGTCCTTTTTACTTCGCAT 58.919 47.619 0.00 0.00 0.00 4.73
2510 2574 3.055963 TCCGGTCCTTTTTACTTCGCATA 60.056 43.478 0.00 0.00 0.00 3.14
2511 2575 3.875134 CCGGTCCTTTTTACTTCGCATAT 59.125 43.478 0.00 0.00 0.00 1.78
2512 2576 5.051816 CCGGTCCTTTTTACTTCGCATATA 58.948 41.667 0.00 0.00 0.00 0.86
2513 2577 5.524646 CCGGTCCTTTTTACTTCGCATATAA 59.475 40.000 0.00 0.00 0.00 0.98
2514 2578 6.292703 CCGGTCCTTTTTACTTCGCATATAAG 60.293 42.308 0.00 0.00 0.00 1.73
2515 2579 6.477688 CGGTCCTTTTTACTTCGCATATAAGA 59.522 38.462 0.00 0.00 0.00 2.10
2516 2580 7.010738 CGGTCCTTTTTACTTCGCATATAAGAA 59.989 37.037 0.00 0.00 0.00 2.52
2517 2581 8.837389 GGTCCTTTTTACTTCGCATATAAGAAT 58.163 33.333 0.00 0.00 0.00 2.40
2524 2588 9.594478 TTTACTTCGCATATAAGAATTGTCTGA 57.406 29.630 0.00 0.00 33.05 3.27
2525 2589 9.594478 TTACTTCGCATATAAGAATTGTCTGAA 57.406 29.630 0.00 0.00 33.05 3.02
2526 2590 8.136057 ACTTCGCATATAAGAATTGTCTGAAG 57.864 34.615 0.00 0.00 33.05 3.02
2527 2591 7.766278 ACTTCGCATATAAGAATTGTCTGAAGT 59.234 33.333 0.00 0.00 37.07 3.01
2528 2592 7.700322 TCGCATATAAGAATTGTCTGAAGTC 57.300 36.000 0.00 0.00 33.05 3.01
2529 2593 7.264947 TCGCATATAAGAATTGTCTGAAGTCA 58.735 34.615 0.00 0.00 33.05 3.41
2530 2594 7.763985 TCGCATATAAGAATTGTCTGAAGTCAA 59.236 33.333 0.00 0.00 33.05 3.18
2531 2595 8.390354 CGCATATAAGAATTGTCTGAAGTCAAA 58.610 33.333 0.00 0.00 33.05 2.69
2532 2596 9.495754 GCATATAAGAATTGTCTGAAGTCAAAC 57.504 33.333 0.00 0.00 33.05 2.93
2556 2620 7.781056 ACTTCACAAAGTTTGACCATATTTGT 58.219 30.769 22.23 5.50 43.28 2.83
2557 2621 8.908903 ACTTCACAAAGTTTGACCATATTTGTA 58.091 29.630 22.23 0.92 43.28 2.41
2558 2622 9.912634 CTTCACAAAGTTTGACCATATTTGTAT 57.087 29.630 22.23 0.00 40.95 2.29
2559 2623 9.689976 TTCACAAAGTTTGACCATATTTGTATG 57.310 29.630 22.23 5.29 40.95 2.39
2560 2624 9.072375 TCACAAAGTTTGACCATATTTGTATGA 57.928 29.630 22.23 7.49 40.95 2.15
2561 2625 9.689976 CACAAAGTTTGACCATATTTGTATGAA 57.310 29.630 22.23 0.00 40.95 2.57
2596 2660 9.899661 AATATCTACCATGCTAAAGTTGTACAA 57.100 29.630 3.59 3.59 0.00 2.41
2599 2663 8.712285 TCTACCATGCTAAAGTTGTACAATAC 57.288 34.615 12.26 0.00 0.00 1.89
2600 2664 8.315482 TCTACCATGCTAAAGTTGTACAATACA 58.685 33.333 12.26 4.82 36.79 2.29
2601 2665 7.938140 ACCATGCTAAAGTTGTACAATACAT 57.062 32.000 12.26 6.82 38.68 2.29
2602 2666 8.348285 ACCATGCTAAAGTTGTACAATACATT 57.652 30.769 12.26 2.56 38.68 2.71
2603 2667 9.456147 ACCATGCTAAAGTTGTACAATACATTA 57.544 29.630 12.26 3.63 38.68 1.90
2613 2677 8.869897 AGTTGTACAATACATTAAGTCATGACG 58.130 33.333 19.85 8.08 38.68 4.35
2614 2678 8.653338 GTTGTACAATACATTAAGTCATGACGT 58.347 33.333 19.85 19.06 38.68 4.34
2615 2679 9.857957 TTGTACAATACATTAAGTCATGACGTA 57.142 29.630 19.85 17.98 38.68 3.57
2621 2685 9.909644 AATACATTAAGTCATGACGTATCTACC 57.090 33.333 20.01 0.00 36.20 3.18
2622 2686 6.436261 ACATTAAGTCATGACGTATCTACCG 58.564 40.000 20.01 9.21 36.20 4.02
2623 2687 3.984508 AAGTCATGACGTATCTACCGG 57.015 47.619 19.85 0.00 36.20 5.28
2624 2688 3.204306 AGTCATGACGTATCTACCGGA 57.796 47.619 19.85 0.00 36.20 5.14
2625 2689 3.548770 AGTCATGACGTATCTACCGGAA 58.451 45.455 19.85 0.00 36.20 4.30
2626 2690 4.142790 AGTCATGACGTATCTACCGGAAT 58.857 43.478 19.85 0.54 36.20 3.01
2627 2691 4.583489 AGTCATGACGTATCTACCGGAATT 59.417 41.667 19.85 0.00 36.20 2.17
2628 2692 4.680110 GTCATGACGTATCTACCGGAATTG 59.320 45.833 9.46 0.00 0.00 2.32
2629 2693 4.581409 TCATGACGTATCTACCGGAATTGA 59.419 41.667 9.46 0.00 0.00 2.57
2630 2694 5.243060 TCATGACGTATCTACCGGAATTGAT 59.757 40.000 9.46 8.40 0.00 2.57
2631 2695 5.524971 TGACGTATCTACCGGAATTGATT 57.475 39.130 9.46 0.00 0.00 2.57
2632 2696 5.909477 TGACGTATCTACCGGAATTGATTT 58.091 37.500 9.46 0.00 0.00 2.17
2633 2697 5.981315 TGACGTATCTACCGGAATTGATTTC 59.019 40.000 9.46 0.00 0.00 2.17
2634 2698 5.909477 ACGTATCTACCGGAATTGATTTCA 58.091 37.500 9.46 0.00 35.94 2.69
2635 2699 5.751990 ACGTATCTACCGGAATTGATTTCAC 59.248 40.000 9.46 0.93 35.94 3.18
2636 2700 5.751509 CGTATCTACCGGAATTGATTTCACA 59.248 40.000 9.46 0.00 35.94 3.58
2637 2701 6.423905 CGTATCTACCGGAATTGATTTCACAT 59.576 38.462 9.46 0.00 35.94 3.21
2638 2702 7.042051 CGTATCTACCGGAATTGATTTCACATT 60.042 37.037 9.46 0.00 35.94 2.71
2639 2703 6.435430 TCTACCGGAATTGATTTCACATTG 57.565 37.500 9.46 0.00 35.94 2.82
2640 2704 5.943416 TCTACCGGAATTGATTTCACATTGT 59.057 36.000 9.46 0.00 35.94 2.71
2641 2705 4.808558 ACCGGAATTGATTTCACATTGTG 58.191 39.130 9.46 10.64 35.94 3.33
2642 2706 4.522405 ACCGGAATTGATTTCACATTGTGA 59.478 37.500 15.41 15.41 41.09 3.58
2686 2750 4.483476 GTTGGTCAAACTTTACGATGCT 57.517 40.909 0.00 0.00 35.75 3.79
2687 2751 4.855531 GTTGGTCAAACTTTACGATGCTT 58.144 39.130 0.00 0.00 35.75 3.91
2688 2752 4.481930 TGGTCAAACTTTACGATGCTTG 57.518 40.909 0.00 0.00 0.00 4.01
2689 2753 4.130857 TGGTCAAACTTTACGATGCTTGA 58.869 39.130 0.00 0.00 0.00 3.02
2690 2754 4.024387 TGGTCAAACTTTACGATGCTTGAC 60.024 41.667 4.55 4.55 41.09 3.18
2691 2755 4.213482 GGTCAAACTTTACGATGCTTGACT 59.787 41.667 11.30 0.00 41.40 3.41
2692 2756 5.277828 GGTCAAACTTTACGATGCTTGACTT 60.278 40.000 11.30 0.00 41.40 3.01
2693 2757 5.846473 GTCAAACTTTACGATGCTTGACTTC 59.154 40.000 5.69 0.00 39.54 3.01
2694 2758 5.525745 TCAAACTTTACGATGCTTGACTTCA 59.474 36.000 0.00 0.00 0.00 3.02
2695 2759 5.597813 AACTTTACGATGCTTGACTTCAG 57.402 39.130 0.00 0.00 0.00 3.02
2696 2760 3.997021 ACTTTACGATGCTTGACTTCAGG 59.003 43.478 0.00 0.00 0.00 3.86
2704 2768 3.930634 GCTTGACTTCAGGCAAATCTT 57.069 42.857 8.37 0.00 46.60 2.40
2706 2770 5.573337 GCTTGACTTCAGGCAAATCTTAT 57.427 39.130 8.37 0.00 46.60 1.73
2707 2771 6.683974 GCTTGACTTCAGGCAAATCTTATA 57.316 37.500 8.37 0.00 46.60 0.98
2708 2772 7.269477 GCTTGACTTCAGGCAAATCTTATAT 57.731 36.000 8.37 0.00 46.60 0.86
2709 2773 7.137426 GCTTGACTTCAGGCAAATCTTATATG 58.863 38.462 8.37 0.00 46.60 1.78
2710 2774 6.624352 TGACTTCAGGCAAATCTTATATGC 57.376 37.500 0.00 0.00 39.33 3.14
2711 2775 5.237127 TGACTTCAGGCAAATCTTATATGCG 59.763 40.000 0.00 0.00 40.94 4.73
2712 2776 5.368145 ACTTCAGGCAAATCTTATATGCGA 58.632 37.500 0.00 0.00 40.94 5.10
2713 2777 5.822519 ACTTCAGGCAAATCTTATATGCGAA 59.177 36.000 0.00 0.00 40.94 4.70
2714 2778 5.673337 TCAGGCAAATCTTATATGCGAAC 57.327 39.130 0.00 0.00 40.94 3.95
2715 2779 5.368145 TCAGGCAAATCTTATATGCGAACT 58.632 37.500 0.00 0.00 40.94 3.01
2716 2780 6.521162 TCAGGCAAATCTTATATGCGAACTA 58.479 36.000 0.00 0.00 40.94 2.24
2717 2781 6.989759 TCAGGCAAATCTTATATGCGAACTAA 59.010 34.615 0.00 0.00 40.94 2.24
2718 2782 7.497579 TCAGGCAAATCTTATATGCGAACTAAA 59.502 33.333 0.00 0.00 40.94 1.85
2719 2783 8.128582 CAGGCAAATCTTATATGCGAACTAAAA 58.871 33.333 0.00 0.00 40.94 1.52
2720 2784 8.682710 AGGCAAATCTTATATGCGAACTAAAAA 58.317 29.630 0.00 0.00 40.94 1.94
2721 2785 8.958043 GGCAAATCTTATATGCGAACTAAAAAG 58.042 33.333 0.00 0.00 40.94 2.27
2722 2786 8.958043 GCAAATCTTATATGCGAACTAAAAAGG 58.042 33.333 0.00 0.00 0.00 3.11
2725 2789 7.781548 TCTTATATGCGAACTAAAAAGGACC 57.218 36.000 0.00 0.00 0.00 4.46
2726 2790 6.477688 TCTTATATGCGAACTAAAAAGGACCG 59.522 38.462 0.00 0.00 0.00 4.79
2727 2791 1.515081 TGCGAACTAAAAAGGACCGG 58.485 50.000 0.00 0.00 0.00 5.28
2728 2792 1.070445 TGCGAACTAAAAAGGACCGGA 59.930 47.619 9.46 0.00 0.00 5.14
2729 2793 1.730612 GCGAACTAAAAAGGACCGGAG 59.269 52.381 9.46 0.00 0.00 4.63
2789 2853 9.875708 ATGGAGGCAATTTATACTATTTGGTTA 57.124 29.630 0.00 0.00 0.00 2.85
2821 2885 4.210120 GTGAGGATGCGTAGATGCTTTTAG 59.790 45.833 0.00 0.00 35.36 1.85
3064 3128 5.239525 GGACCAATCAATACTAATCTGCACC 59.760 44.000 0.00 0.00 0.00 5.01
3076 3140 6.296026 ACTAATCTGCACCTAAAACACTTCA 58.704 36.000 0.00 0.00 0.00 3.02
3084 3148 7.592938 TGCACCTAAAACACTTCATTGATTAG 58.407 34.615 0.00 0.00 0.00 1.73
3143 3209 1.133809 TCAGGGTTAGTGGCCTTGCT 61.134 55.000 3.32 1.96 33.69 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
19 20 2.001361 GCAGAGGCACATGCATGGTC 62.001 60.000 29.41 19.43 44.36 4.02
52 53 2.586258 AACTGGCGTATCAGCTACTG 57.414 50.000 0.00 0.00 38.26 2.74
53 54 3.256136 GGATAACTGGCGTATCAGCTACT 59.744 47.826 0.00 0.00 38.26 2.57
54 55 3.256136 AGGATAACTGGCGTATCAGCTAC 59.744 47.826 0.00 0.00 38.26 3.58
72 73 0.463295 CGTGGCTCATTCTGCAGGAT 60.463 55.000 15.13 8.07 0.00 3.24
73 74 1.078918 CGTGGCTCATTCTGCAGGA 60.079 57.895 15.13 5.14 0.00 3.86
74 75 2.110967 CCGTGGCTCATTCTGCAGG 61.111 63.158 15.13 0.00 0.00 4.85
75 76 2.758089 GCCGTGGCTCATTCTGCAG 61.758 63.158 7.63 7.63 38.26 4.41
76 77 2.747460 GCCGTGGCTCATTCTGCA 60.747 61.111 2.98 0.00 38.26 4.41
94 97 2.103094 GCCACTGTCATAGGAGCACATA 59.897 50.000 0.00 0.00 0.00 2.29
96 99 0.250234 GCCACTGTCATAGGAGCACA 59.750 55.000 0.00 0.00 0.00 4.57
104 107 0.324368 ACCCTCTCGCCACTGTCATA 60.324 55.000 0.00 0.00 0.00 2.15
112 115 2.604686 AGCTCAACCCTCTCGCCA 60.605 61.111 0.00 0.00 0.00 5.69
121 124 4.285292 CGAATAAATCATGCAGCTCAACC 58.715 43.478 0.00 0.00 0.00 3.77
157 160 2.203337 GACAGGCAAGCCACACCA 60.203 61.111 14.40 0.00 38.92 4.17
163 166 2.032681 AAGGACGACAGGCAAGCC 59.967 61.111 2.02 2.02 0.00 4.35
167 170 3.319198 GGGGAAGGACGACAGGCA 61.319 66.667 0.00 0.00 0.00 4.75
246 249 0.928922 CTGATGCATGCAGACGTCTC 59.071 55.000 26.69 17.29 35.39 3.36
482 485 6.260271 ACAACAGCAAAGAGAGGTTACTAAAC 59.740 38.462 0.00 0.00 34.66 2.01
488 491 6.769512 AGATAACAACAGCAAAGAGAGGTTA 58.230 36.000 0.00 0.00 0.00 2.85
489 492 5.625150 AGATAACAACAGCAAAGAGAGGTT 58.375 37.500 0.00 0.00 0.00 3.50
499 502 1.075542 CGCGGAAGATAACAACAGCA 58.924 50.000 0.00 0.00 0.00 4.41
517 520 4.794648 TTCTTGGGATGCGGGGCG 62.795 66.667 0.00 0.00 0.00 6.13
523 526 4.637483 TCGATTGATTTTCTTGGGATGC 57.363 40.909 0.00 0.00 0.00 3.91
543 546 5.460091 GCAAACAAATGTCTTCTGTTCCTTC 59.540 40.000 0.00 0.00 32.21 3.46
624 628 2.997980 ACGATGTGGAATGTATGGCAA 58.002 42.857 0.00 0.00 0.00 4.52
696 702 2.265683 GTACGAATCAAAGGACGGGTC 58.734 52.381 0.00 0.00 0.00 4.46
701 707 7.015877 GTCAATTTCTGTACGAATCAAAGGAC 58.984 38.462 0.00 0.00 0.00 3.85
794 800 7.173218 ACATATGTGAACAAAACTACAGACAGG 59.827 37.037 7.78 0.00 0.00 4.00
815 821 5.546621 ATTTGTGCTACCTCCGTACATAT 57.453 39.130 0.00 0.00 0.00 1.78
816 822 6.468333 TTATTTGTGCTACCTCCGTACATA 57.532 37.500 0.00 0.00 0.00 2.29
876 882 7.047891 GTGTATGTAGTTCCTGATGAATGGAA 58.952 38.462 0.00 0.00 39.73 3.53
1041 1049 1.278127 CCGGCCACTTTCTTCTCCTTA 59.722 52.381 2.24 0.00 0.00 2.69
1042 1050 0.036875 CCGGCCACTTTCTTCTCCTT 59.963 55.000 2.24 0.00 0.00 3.36
1055 1063 4.804420 AGGAGGATGAGCCGGCCA 62.804 66.667 26.15 21.45 43.43 5.36
1172 1180 0.107165 GATCCTTTTCGGGTCTGGGG 60.107 60.000 0.00 0.00 40.00 4.96
1245 1253 1.200252 CTGAAGAGAGCCTCGTTCGAA 59.800 52.381 0.00 0.00 35.36 3.71
1272 1280 2.049433 AAGCTCGTGTTCCCGACG 60.049 61.111 0.00 0.00 38.20 5.12
1349 1357 0.671163 CTGTTGCAATGGCGCCAAAT 60.671 50.000 36.33 23.16 45.35 2.32
1364 1372 1.221414 GCTCTGCTTCGACAACTGTT 58.779 50.000 0.00 0.00 0.00 3.16
1366 1374 1.294659 GGGCTCTGCTTCGACAACTG 61.295 60.000 0.00 0.00 0.00 3.16
1367 1375 1.004440 GGGCTCTGCTTCGACAACT 60.004 57.895 0.00 0.00 0.00 3.16
1372 1380 3.393970 CCCTGGGCTCTGCTTCGA 61.394 66.667 0.00 0.00 0.00 3.71
1401 1409 2.520968 GGTGACACTGCCCCCTTT 59.479 61.111 5.39 0.00 0.00 3.11
1432 1440 3.458189 CCTTCACAGTCGAGTTGTCTTT 58.542 45.455 0.00 0.00 0.00 2.52
1436 1444 0.393077 CCCCTTCACAGTCGAGTTGT 59.607 55.000 0.00 0.00 0.00 3.32
1439 1447 3.793060 CCCCCTTCACAGTCGAGT 58.207 61.111 0.00 0.00 0.00 4.18
1457 1465 0.952280 TATGTGATCCGCGTCTCCTC 59.048 55.000 4.92 0.00 0.00 3.71
1509 1517 3.642848 ACATCAGGAATGCAAAGTTGGTT 59.357 39.130 0.00 0.00 39.12 3.67
1526 1534 6.575056 GCATGTTATAGAGAGGCCATACATCA 60.575 42.308 5.01 0.00 0.00 3.07
1546 1554 4.656112 AGTTAGCTAATAGAGGGTGCATGT 59.344 41.667 9.88 0.00 0.00 3.21
1609 1618 7.159372 AGATAAAAAGAGTGTCATTGTACGGT 58.841 34.615 0.00 0.00 0.00 4.83
1784 1800 2.875296 AGCAACAATGGGAGCTAACAA 58.125 42.857 0.00 0.00 35.19 2.83
1913 1929 1.741947 CGCGATTTGGGAAAATGCGC 61.742 55.000 0.00 0.00 35.10 6.09
1996 2012 1.750399 CGGGCAAGATCTGGTTGGG 60.750 63.158 0.00 0.00 0.00 4.12
2087 2124 1.469767 GCTTTCGGTGATTCCATTGCC 60.470 52.381 0.00 0.00 35.57 4.52
2231 2295 4.202461 ACTCCTTAGCAACAGAATGGACAA 60.202 41.667 0.00 0.00 43.62 3.18
2262 2326 4.065321 GTGATTCGGATTGAGATCACCT 57.935 45.455 8.04 0.00 38.17 4.00
2265 2329 4.445453 CAAGGTGATTCGGATTGAGATCA 58.555 43.478 0.00 0.00 33.77 2.92
2267 2331 3.200825 ACCAAGGTGATTCGGATTGAGAT 59.799 43.478 0.00 0.00 0.00 2.75
2487 2551 1.730612 GCGAAGTAAAAAGGACCGGAG 59.269 52.381 9.46 0.00 0.00 4.63
2488 2552 1.070445 TGCGAAGTAAAAAGGACCGGA 59.930 47.619 9.46 0.00 0.00 5.14
2489 2553 1.515081 TGCGAAGTAAAAAGGACCGG 58.485 50.000 0.00 0.00 0.00 5.28
2490 2554 6.477688 TCTTATATGCGAAGTAAAAAGGACCG 59.522 38.462 0.00 0.00 0.00 4.79
2491 2555 7.781548 TCTTATATGCGAAGTAAAAAGGACC 57.218 36.000 0.00 0.00 0.00 4.46
2498 2562 9.594478 TCAGACAATTCTTATATGCGAAGTAAA 57.406 29.630 0.00 0.00 0.00 2.01
2499 2563 9.594478 TTCAGACAATTCTTATATGCGAAGTAA 57.406 29.630 0.00 0.00 0.00 2.24
2500 2564 9.249457 CTTCAGACAATTCTTATATGCGAAGTA 57.751 33.333 0.00 0.00 0.00 2.24
2501 2565 7.766278 ACTTCAGACAATTCTTATATGCGAAGT 59.234 33.333 0.00 0.00 34.83 3.01
2502 2566 8.136057 ACTTCAGACAATTCTTATATGCGAAG 57.864 34.615 0.00 0.00 0.00 3.79
2503 2567 7.763985 TGACTTCAGACAATTCTTATATGCGAA 59.236 33.333 0.00 0.00 0.00 4.70
2504 2568 7.264947 TGACTTCAGACAATTCTTATATGCGA 58.735 34.615 0.00 0.00 0.00 5.10
2505 2569 7.468922 TGACTTCAGACAATTCTTATATGCG 57.531 36.000 0.00 0.00 0.00 4.73
2506 2570 9.495754 GTTTGACTTCAGACAATTCTTATATGC 57.504 33.333 0.00 0.00 31.96 3.14
2532 2596 9.912634 ATACAAATATGGTCAAACTTTGTGAAG 57.087 29.630 8.72 0.00 39.58 3.02
2533 2597 9.689976 CATACAAATATGGTCAAACTTTGTGAA 57.310 29.630 8.72 0.00 39.58 3.18
2534 2598 9.072375 TCATACAAATATGGTCAAACTTTGTGA 57.928 29.630 8.72 0.00 39.58 3.58
2535 2599 9.689976 TTCATACAAATATGGTCAAACTTTGTG 57.310 29.630 8.72 0.00 39.58 3.33
2570 2634 9.899661 TTGTACAACTTTAGCATGGTAGATATT 57.100 29.630 3.59 0.00 0.00 1.28
2573 2637 9.326413 GTATTGTACAACTTTAGCATGGTAGAT 57.674 33.333 11.22 0.00 0.00 1.98
2574 2638 8.315482 TGTATTGTACAACTTTAGCATGGTAGA 58.685 33.333 11.22 0.00 35.38 2.59
2575 2639 8.487313 TGTATTGTACAACTTTAGCATGGTAG 57.513 34.615 11.22 0.00 35.38 3.18
2576 2640 9.456147 AATGTATTGTACAACTTTAGCATGGTA 57.544 29.630 11.22 0.00 42.76 3.25
2577 2641 7.938140 ATGTATTGTACAACTTTAGCATGGT 57.062 32.000 11.22 1.62 42.76 3.55
2587 2651 8.869897 CGTCATGACTTAATGTATTGTACAACT 58.130 33.333 22.95 3.26 42.76 3.16
2588 2652 8.653338 ACGTCATGACTTAATGTATTGTACAAC 58.347 33.333 22.95 0.00 42.76 3.32
2589 2653 8.766000 ACGTCATGACTTAATGTATTGTACAA 57.234 30.769 22.95 11.41 42.76 2.41
2595 2659 9.909644 GGTAGATACGTCATGACTTAATGTATT 57.090 33.333 22.95 13.87 0.00 1.89
2596 2660 8.235226 CGGTAGATACGTCATGACTTAATGTAT 58.765 37.037 22.95 20.00 0.00 2.29
2597 2661 7.308169 CCGGTAGATACGTCATGACTTAATGTA 60.308 40.741 22.95 16.56 0.00 2.29
2598 2662 6.436261 CGGTAGATACGTCATGACTTAATGT 58.564 40.000 22.95 15.01 0.00 2.71
2599 2663 5.856986 CCGGTAGATACGTCATGACTTAATG 59.143 44.000 22.95 9.92 0.00 1.90
2600 2664 5.766670 TCCGGTAGATACGTCATGACTTAAT 59.233 40.000 22.95 13.12 0.00 1.40
2601 2665 5.125356 TCCGGTAGATACGTCATGACTTAA 58.875 41.667 22.95 8.95 0.00 1.85
2602 2666 4.707105 TCCGGTAGATACGTCATGACTTA 58.293 43.478 22.95 18.33 0.00 2.24
2603 2667 3.548770 TCCGGTAGATACGTCATGACTT 58.451 45.455 22.95 16.67 0.00 3.01
2604 2668 3.204306 TCCGGTAGATACGTCATGACT 57.796 47.619 22.95 12.64 0.00 3.41
2605 2669 3.976793 TTCCGGTAGATACGTCATGAC 57.023 47.619 16.21 16.21 0.00 3.06
2606 2670 4.581409 TCAATTCCGGTAGATACGTCATGA 59.419 41.667 0.00 0.00 0.00 3.07
2607 2671 4.866921 TCAATTCCGGTAGATACGTCATG 58.133 43.478 0.00 0.00 0.00 3.07
2608 2672 5.723672 ATCAATTCCGGTAGATACGTCAT 57.276 39.130 0.00 0.00 0.00 3.06
2609 2673 5.524971 AATCAATTCCGGTAGATACGTCA 57.475 39.130 0.00 0.00 0.00 4.35
2610 2674 5.981315 TGAAATCAATTCCGGTAGATACGTC 59.019 40.000 0.00 1.56 37.22 4.34
2611 2675 5.751990 GTGAAATCAATTCCGGTAGATACGT 59.248 40.000 0.00 0.00 37.22 3.57
2612 2676 5.751509 TGTGAAATCAATTCCGGTAGATACG 59.248 40.000 0.00 0.00 37.22 3.06
2613 2677 7.730364 ATGTGAAATCAATTCCGGTAGATAC 57.270 36.000 0.00 0.00 37.22 2.24
2614 2678 7.773224 ACAATGTGAAATCAATTCCGGTAGATA 59.227 33.333 0.00 0.00 37.22 1.98
2615 2679 6.603201 ACAATGTGAAATCAATTCCGGTAGAT 59.397 34.615 0.00 0.00 37.22 1.98
2616 2680 5.943416 ACAATGTGAAATCAATTCCGGTAGA 59.057 36.000 0.00 0.00 37.22 2.59
2617 2681 6.029607 CACAATGTGAAATCAATTCCGGTAG 58.970 40.000 7.78 0.00 37.22 3.18
2618 2682 5.707764 TCACAATGTGAAATCAATTCCGGTA 59.292 36.000 14.37 0.00 39.78 4.02
2619 2683 4.522405 TCACAATGTGAAATCAATTCCGGT 59.478 37.500 14.37 0.00 39.78 5.28
2620 2684 5.058149 TCACAATGTGAAATCAATTCCGG 57.942 39.130 14.37 0.00 39.78 5.14
2665 2729 4.483476 AGCATCGTAAAGTTTGACCAAC 57.517 40.909 0.00 0.00 35.32 3.77
2666 2730 4.576873 TCAAGCATCGTAAAGTTTGACCAA 59.423 37.500 0.00 0.00 0.00 3.67
2667 2731 4.024387 GTCAAGCATCGTAAAGTTTGACCA 60.024 41.667 9.91 0.00 38.79 4.02
2668 2732 4.213482 AGTCAAGCATCGTAAAGTTTGACC 59.787 41.667 15.26 2.61 43.15 4.02
2669 2733 5.344207 AGTCAAGCATCGTAAAGTTTGAC 57.656 39.130 12.26 12.26 42.72 3.18
2670 2734 5.525745 TGAAGTCAAGCATCGTAAAGTTTGA 59.474 36.000 0.00 0.00 0.00 2.69
2671 2735 5.747565 TGAAGTCAAGCATCGTAAAGTTTG 58.252 37.500 0.00 0.00 0.00 2.93
2672 2736 5.049405 CCTGAAGTCAAGCATCGTAAAGTTT 60.049 40.000 0.00 0.00 0.00 2.66
2673 2737 4.452455 CCTGAAGTCAAGCATCGTAAAGTT 59.548 41.667 0.00 0.00 0.00 2.66
2674 2738 3.997021 CCTGAAGTCAAGCATCGTAAAGT 59.003 43.478 0.00 0.00 0.00 2.66
2675 2739 3.181516 GCCTGAAGTCAAGCATCGTAAAG 60.182 47.826 0.00 0.00 33.67 1.85
2676 2740 2.742053 GCCTGAAGTCAAGCATCGTAAA 59.258 45.455 0.00 0.00 33.67 2.01
2677 2741 2.289382 TGCCTGAAGTCAAGCATCGTAA 60.289 45.455 0.38 0.00 38.29 3.18
2678 2742 1.275010 TGCCTGAAGTCAAGCATCGTA 59.725 47.619 0.38 0.00 38.29 3.43
2679 2743 0.035317 TGCCTGAAGTCAAGCATCGT 59.965 50.000 0.38 0.00 38.29 3.73
2680 2744 1.159285 TTGCCTGAAGTCAAGCATCG 58.841 50.000 5.46 0.00 42.22 3.84
2681 2745 3.442977 AGATTTGCCTGAAGTCAAGCATC 59.557 43.478 5.46 2.13 42.22 3.91
2682 2746 3.428532 AGATTTGCCTGAAGTCAAGCAT 58.571 40.909 5.46 0.00 42.22 3.79
2683 2747 2.867624 AGATTTGCCTGAAGTCAAGCA 58.132 42.857 0.38 0.38 41.12 3.91
2684 2748 3.930634 AAGATTTGCCTGAAGTCAAGC 57.069 42.857 0.00 0.00 34.05 4.01
2685 2749 7.137426 GCATATAAGATTTGCCTGAAGTCAAG 58.863 38.462 0.00 0.00 32.10 3.02
2686 2750 6.238456 CGCATATAAGATTTGCCTGAAGTCAA 60.238 38.462 0.00 0.00 34.33 3.18
2687 2751 5.237127 CGCATATAAGATTTGCCTGAAGTCA 59.763 40.000 0.00 0.00 34.33 3.41
2688 2752 5.466728 TCGCATATAAGATTTGCCTGAAGTC 59.533 40.000 0.00 0.00 34.33 3.01
2689 2753 5.368145 TCGCATATAAGATTTGCCTGAAGT 58.632 37.500 0.00 0.00 34.33 3.01
2690 2754 5.929697 TCGCATATAAGATTTGCCTGAAG 57.070 39.130 0.00 0.00 34.33 3.02
2691 2755 5.822519 AGTTCGCATATAAGATTTGCCTGAA 59.177 36.000 0.00 0.00 34.33 3.02
2692 2756 5.368145 AGTTCGCATATAAGATTTGCCTGA 58.632 37.500 0.00 0.00 34.33 3.86
2693 2757 5.679734 AGTTCGCATATAAGATTTGCCTG 57.320 39.130 0.00 0.00 34.33 4.85
2694 2758 7.801716 TTTAGTTCGCATATAAGATTTGCCT 57.198 32.000 0.00 0.00 34.33 4.75
2695 2759 8.850454 TTTTTAGTTCGCATATAAGATTTGCC 57.150 30.769 0.00 0.00 34.33 4.52
2696 2760 8.958043 CCTTTTTAGTTCGCATATAAGATTTGC 58.042 33.333 0.00 0.00 34.47 3.68
2699 2763 8.837389 GGTCCTTTTTAGTTCGCATATAAGATT 58.163 33.333 0.00 0.00 0.00 2.40
2700 2764 7.170998 CGGTCCTTTTTAGTTCGCATATAAGAT 59.829 37.037 0.00 0.00 0.00 2.40
2701 2765 6.477688 CGGTCCTTTTTAGTTCGCATATAAGA 59.522 38.462 0.00 0.00 0.00 2.10
2702 2766 6.292703 CCGGTCCTTTTTAGTTCGCATATAAG 60.293 42.308 0.00 0.00 0.00 1.73
2703 2767 5.524646 CCGGTCCTTTTTAGTTCGCATATAA 59.475 40.000 0.00 0.00 0.00 0.98
2704 2768 5.051816 CCGGTCCTTTTTAGTTCGCATATA 58.948 41.667 0.00 0.00 0.00 0.86
2705 2769 3.875134 CCGGTCCTTTTTAGTTCGCATAT 59.125 43.478 0.00 0.00 0.00 1.78
2706 2770 3.055963 TCCGGTCCTTTTTAGTTCGCATA 60.056 43.478 0.00 0.00 0.00 3.14
2707 2771 2.081462 CCGGTCCTTTTTAGTTCGCAT 58.919 47.619 0.00 0.00 0.00 4.73
2708 2772 1.070445 TCCGGTCCTTTTTAGTTCGCA 59.930 47.619 0.00 0.00 0.00 5.10
2709 2773 1.730612 CTCCGGTCCTTTTTAGTTCGC 59.269 52.381 0.00 0.00 0.00 4.70
2710 2774 2.344025 CCTCCGGTCCTTTTTAGTTCG 58.656 52.381 0.00 0.00 0.00 3.95
2711 2775 2.303890 TCCCTCCGGTCCTTTTTAGTTC 59.696 50.000 0.00 0.00 0.00 3.01
2712 2776 2.305052 CTCCCTCCGGTCCTTTTTAGTT 59.695 50.000 0.00 0.00 0.00 2.24
2713 2777 1.907255 CTCCCTCCGGTCCTTTTTAGT 59.093 52.381 0.00 0.00 0.00 2.24
2714 2778 1.907255 ACTCCCTCCGGTCCTTTTTAG 59.093 52.381 0.00 0.00 0.00 1.85
2715 2779 2.034436 ACTCCCTCCGGTCCTTTTTA 57.966 50.000 0.00 0.00 0.00 1.52
2716 2780 1.907255 CTACTCCCTCCGGTCCTTTTT 59.093 52.381 0.00 0.00 0.00 1.94
2717 2781 1.203275 ACTACTCCCTCCGGTCCTTTT 60.203 52.381 0.00 0.00 0.00 2.27
2718 2782 0.412640 ACTACTCCCTCCGGTCCTTT 59.587 55.000 0.00 0.00 0.00 3.11
2719 2783 0.412640 AACTACTCCCTCCGGTCCTT 59.587 55.000 0.00 0.00 0.00 3.36
2720 2784 0.412640 AAACTACTCCCTCCGGTCCT 59.587 55.000 0.00 0.00 0.00 3.85
2721 2785 1.273759 AAAACTACTCCCTCCGGTCC 58.726 55.000 0.00 0.00 0.00 4.46
2722 2786 2.301009 TCAAAAACTACTCCCTCCGGTC 59.699 50.000 0.00 0.00 0.00 4.79
2723 2787 2.332117 TCAAAAACTACTCCCTCCGGT 58.668 47.619 0.00 0.00 0.00 5.28
2724 2788 3.629142 ATCAAAAACTACTCCCTCCGG 57.371 47.619 0.00 0.00 0.00 5.14
2725 2789 3.689649 CCAATCAAAAACTACTCCCTCCG 59.310 47.826 0.00 0.00 0.00 4.63
2726 2790 4.017126 CCCAATCAAAAACTACTCCCTCC 58.983 47.826 0.00 0.00 0.00 4.30
2727 2791 4.918588 TCCCAATCAAAAACTACTCCCTC 58.081 43.478 0.00 0.00 0.00 4.30
2728 2792 5.536497 ATCCCAATCAAAAACTACTCCCT 57.464 39.130 0.00 0.00 0.00 4.20
2729 2793 7.898014 AATATCCCAATCAAAAACTACTCCC 57.102 36.000 0.00 0.00 0.00 4.30
2730 2794 8.749354 ACAAATATCCCAATCAAAAACTACTCC 58.251 33.333 0.00 0.00 0.00 3.85
2789 2853 6.650427 TCTACGCATCCTCACAATTACTAT 57.350 37.500 0.00 0.00 0.00 2.12
3038 3102 6.017605 GTGCAGATTAGTATTGATTGGTCCAG 60.018 42.308 0.00 0.00 0.00 3.86
3040 3104 5.239525 GGTGCAGATTAGTATTGATTGGTCC 59.760 44.000 0.00 0.00 0.00 4.46
3143 3209 1.281419 TTTCGGAGGCCCTGATGTTA 58.719 50.000 0.00 0.00 0.00 2.41
3218 3285 4.892934 TGTCCTGGTTGCTGAACTAAAAAT 59.107 37.500 0.00 0.00 32.15 1.82


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

AutoCloner maintained by Alex Coulton.