Multiple sequence alignment - TraesCS1A01G444100

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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 TraesCS1A01G444100 chr1A 100.000 2525 0 0 1 2525 592101174 592098650 0.000000e+00 4663.0
1 TraesCS1A01G444100 chr1A 87.522 569 51 10 930 1498 592994265 592994813 7.620000e-180 640.0
2 TraesCS1A01G444100 chr1A 80.920 739 75 36 931 1655 592925055 592925741 8.000000e-145 523.0
3 TraesCS1A01G444100 chr1A 83.133 249 34 4 1317 1565 592978298 592978538 1.180000e-53 220.0
4 TraesCS1A01G444100 chr1A 86.614 127 14 1 749 875 592994122 592994245 1.220000e-28 137.0
5 TraesCS1A01G444100 chr1A 79.710 138 16 7 581 715 593217448 593217576 3.460000e-14 89.8
6 TraesCS1A01G444100 chr1D 90.394 1728 72 33 703 2371 493782834 493781142 0.000000e+00 2185.0
7 TraesCS1A01G444100 chr1D 89.715 632 32 12 2 601 493783455 493782825 0.000000e+00 776.0
8 TraesCS1A01G444100 chr1D 83.221 739 78 29 931 1655 494306796 494307502 9.850000e-179 636.0
9 TraesCS1A01G444100 chr1D 85.860 587 56 17 930 1516 494349692 494350251 1.290000e-167 599.0
10 TraesCS1A01G444100 chr1D 93.506 154 9 1 2373 2525 493776109 493775956 7.030000e-56 228.0
11 TraesCS1A01G444100 chr1B 86.588 1193 78 34 783 1949 686854015 686852879 0.000000e+00 1242.0
12 TraesCS1A01G444100 chr1B 87.092 736 33 21 93 787 686854891 686854177 0.000000e+00 776.0
13 TraesCS1A01G444100 chr1B 86.292 569 57 10 930 1498 687531409 687531956 1.290000e-167 599.0
14 TraesCS1A01G444100 chr1B 91.111 180 7 3 2136 2307 686852699 686852521 4.200000e-58 235.0
15 TraesCS1A01G444100 chr1B 95.050 101 3 1 2031 2129 686852851 686852751 9.350000e-35 158.0
16 TraesCS1A01G444100 chr1B 76.307 287 44 14 392 672 687530617 687530885 5.670000e-27 132.0
17 TraesCS1A01G444100 chr1B 100.000 29 0 0 1964 1992 686852878 686852850 1.000000e-03 54.7
18 TraesCS1A01G444100 chrUn 77.982 327 41 13 586 906 290639177 290638876 2.580000e-40 176.0
19 TraesCS1A01G444100 chrUn 77.982 327 41 13 586 906 290644902 290644601 2.580000e-40 176.0
20 TraesCS1A01G444100 chrUn 77.982 327 41 13 586 906 320337287 320337588 2.580000e-40 176.0


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 TraesCS1A01G444100 chr1A 592098650 592101174 2524 True 4663.00 4663 100.0000 1 2525 1 chr1A.!!$R1 2524
1 TraesCS1A01G444100 chr1A 592925055 592925741 686 False 523.00 523 80.9200 931 1655 1 chr1A.!!$F1 724
2 TraesCS1A01G444100 chr1A 592994122 592994813 691 False 388.50 640 87.0680 749 1498 2 chr1A.!!$F4 749
3 TraesCS1A01G444100 chr1D 493781142 493783455 2313 True 1480.50 2185 90.0545 2 2371 2 chr1D.!!$R2 2369
4 TraesCS1A01G444100 chr1D 494306796 494307502 706 False 636.00 636 83.2210 931 1655 1 chr1D.!!$F1 724
5 TraesCS1A01G444100 chr1D 494349692 494350251 559 False 599.00 599 85.8600 930 1516 1 chr1D.!!$F2 586
6 TraesCS1A01G444100 chr1B 686852521 686854891 2370 True 493.14 1242 91.9682 93 2307 5 chr1B.!!$R1 2214
7 TraesCS1A01G444100 chr1B 687530617 687531956 1339 False 365.50 599 81.2995 392 1498 2 chr1B.!!$F1 1106

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
75 82 2.016318 TGGTTTTGATCTATGCCGCAG 58.984 47.619 0.0 0.0 0.0 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1924 2545 0.320771 ATCGCTGGCGTGTCTTTCTT 60.321 50.0 14.55 0.0 40.74 2.52 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
22 23 5.537300 AGAGATTAATTTGCTAGAGGCGA 57.463 39.130 0.00 0.00 45.43 5.54
23 24 6.107901 AGAGATTAATTTGCTAGAGGCGAT 57.892 37.500 0.00 0.00 45.43 4.58
24 25 7.233389 AGAGATTAATTTGCTAGAGGCGATA 57.767 36.000 0.00 0.00 45.43 2.92
25 26 7.846066 AGAGATTAATTTGCTAGAGGCGATAT 58.154 34.615 0.00 0.00 45.43 1.63
27 28 8.934507 AGATTAATTTGCTAGAGGCGATATAC 57.065 34.615 0.00 0.00 45.43 1.47
30 31 9.672673 ATTAATTTGCTAGAGGCGATATACATT 57.327 29.630 0.00 0.00 45.43 2.71
71 78 4.889409 TCCTGATTGGTTTTGATCTATGCC 59.111 41.667 0.00 0.00 37.07 4.40
75 82 2.016318 TGGTTTTGATCTATGCCGCAG 58.984 47.619 0.00 0.00 0.00 5.18
113 120 3.078837 TGCAGCCATGTATATGCATCTG 58.921 45.455 0.19 14.41 43.34 2.90
121 129 4.898829 TGTATATGCATCTGTGTTTGCC 57.101 40.909 0.19 0.00 38.08 4.52
136 144 3.376546 TGTTTGCCATTTCTTTTGTTGCC 59.623 39.130 0.00 0.00 0.00 4.52
156 165 3.126073 CCTTCTTTGCCTTTTTGTGCTC 58.874 45.455 0.00 0.00 0.00 4.26
166 175 3.760151 CCTTTTTGTGCTCATCCTCATGA 59.240 43.478 0.00 0.00 36.62 3.07
266 297 2.432146 TCTCTGATCTTTCCATGACCGG 59.568 50.000 0.00 0.00 0.00 5.28
437 484 6.013812 TGCACTATTTTTAATTTGGCTCCCTT 60.014 34.615 0.00 0.00 0.00 3.95
440 487 7.545615 CACTATTTTTAATTTGGCTCCCTTGTC 59.454 37.037 0.00 0.00 0.00 3.18
630 683 6.660949 GGAGAAATTATCCATCCAAGTATGGG 59.339 42.308 1.16 0.00 45.57 4.00
631 684 8.235607 GGAGAAATTATCCATCCAAGTATGGGG 61.236 44.444 1.16 0.00 45.57 4.96
673 726 6.060028 TGTTGCTATCGATCCAAATTAAGC 57.940 37.500 0.00 3.09 0.00 3.09
674 727 5.588246 TGTTGCTATCGATCCAAATTAAGCA 59.412 36.000 10.39 10.39 36.98 3.91
675 728 5.673337 TGCTATCGATCCAAATTAAGCAC 57.327 39.130 10.39 0.00 34.05 4.40
676 729 5.122519 TGCTATCGATCCAAATTAAGCACA 58.877 37.500 10.39 0.00 34.05 4.57
677 730 5.588246 TGCTATCGATCCAAATTAAGCACAA 59.412 36.000 10.39 0.00 34.05 3.33
678 731 5.909610 GCTATCGATCCAAATTAAGCACAAC 59.090 40.000 0.00 0.00 0.00 3.32
679 732 5.895636 ATCGATCCAAATTAAGCACAACA 57.104 34.783 0.00 0.00 0.00 3.33
687 740 8.364129 TCCAAATTAAGCACAACATTTCTTTC 57.636 30.769 0.00 0.00 0.00 2.62
692 745 3.299503 AGCACAACATTTCTTTCTGGGT 58.700 40.909 0.00 0.00 0.00 4.51
734 787 6.046762 TGTCCTCATCTATGTAATCTAGGGGA 59.953 42.308 0.00 0.00 0.00 4.81
735 788 6.954684 GTCCTCATCTATGTAATCTAGGGGAA 59.045 42.308 0.00 0.00 0.00 3.97
736 789 7.455008 GTCCTCATCTATGTAATCTAGGGGAAA 59.545 40.741 0.00 0.00 0.00 3.13
769 1133 4.937201 TCTCTTCGCCTGATAAAGCATA 57.063 40.909 0.00 0.00 0.00 3.14
923 1457 5.069251 ACGTGTGCTTATCTTCCTATTAGCT 59.931 40.000 0.00 0.00 33.68 3.32
1005 1539 2.445565 TTAGCTAGCTGATCATGGCG 57.554 50.000 27.68 0.00 0.00 5.69
1293 1831 0.176680 GCATGGTCACCTCATCGACT 59.823 55.000 0.00 0.00 32.57 4.18
1374 1912 1.662629 GCCACTGATGTGAAGATCGTG 59.337 52.381 0.00 0.00 46.55 4.35
1395 1933 3.654321 TGGGGCTGTCTGATGATGATAAT 59.346 43.478 0.00 0.00 0.00 1.28
1525 2079 0.511221 GTTAGCGACGCTTGCTTGAA 59.489 50.000 29.54 12.21 43.71 2.69
1619 2189 7.148390 TGTCGTGTTGTCATTTTACTTTCAAGA 60.148 33.333 0.00 0.00 0.00 3.02
1764 2359 7.041030 CCGTGCCAATGGTTGTATTATTACATA 60.041 37.037 0.00 0.00 38.12 2.29
1769 2364 9.624697 CCAATGGTTGTATTATTACATACATGC 57.375 33.333 11.95 0.00 39.01 4.06
1812 2430 0.247814 CGTACGTACGTACCTGCTGG 60.248 60.000 38.76 25.83 45.80 4.85
1826 2444 2.890109 GCTGGATTGGCTCGATGCG 61.890 63.158 0.00 0.00 44.05 4.73
1842 2460 8.818057 GGCTCGATGCGTAATTATATATCTTTT 58.182 33.333 0.00 0.00 44.05 2.27
1924 2545 2.523015 GCTAGCTCGCAACTTTACGTA 58.477 47.619 7.70 0.00 0.00 3.57
1925 2546 2.919229 GCTAGCTCGCAACTTTACGTAA 59.081 45.455 7.70 3.29 0.00 3.18
1927 2548 3.293311 AGCTCGCAACTTTACGTAAGA 57.707 42.857 8.23 0.57 43.62 2.10
1944 2565 1.016130 AGAAAGACACGCCAGCGATG 61.016 55.000 20.32 14.88 42.83 3.84
1948 2569 2.202932 ACACGCCAGCGATGGATC 60.203 61.111 26.87 5.42 42.83 3.36
1949 2570 2.202919 CACGCCAGCGATGGATCA 60.203 61.111 26.87 0.00 42.83 2.92
1950 2571 1.815003 CACGCCAGCGATGGATCAA 60.815 57.895 26.87 0.00 42.83 2.57
1951 2572 1.815421 ACGCCAGCGATGGATCAAC 60.815 57.895 26.87 3.68 42.83 3.18
1992 2613 5.952526 TTCTCTCTATCACGTACACACAA 57.047 39.130 0.00 0.00 0.00 3.33
2000 2621 2.286563 TCACGTACACACAATGCACAAG 59.713 45.455 0.00 0.00 0.00 3.16
2014 2635 1.847968 ACAAGGCCAGCCACCTACT 60.848 57.895 12.03 0.00 36.14 2.57
2116 2737 5.066634 GCTAGCCAAGTCTTTCCTTATTTCC 59.933 44.000 2.29 0.00 0.00 3.13
2129 2750 8.833231 TTTCCTTATTTCCTCTTCGCATATAG 57.167 34.615 0.00 0.00 0.00 1.31
2130 2751 6.936279 TCCTTATTTCCTCTTCGCATATAGG 58.064 40.000 0.00 0.00 0.00 2.57
2131 2752 6.724441 TCCTTATTTCCTCTTCGCATATAGGA 59.276 38.462 0.00 0.00 36.34 2.94
2138 2804 5.658634 TCCTCTTCGCATATAGGAGCATATT 59.341 40.000 0.00 0.00 33.18 1.28
2164 2830 0.316841 TGAATCCGCCAAAGCCAAAC 59.683 50.000 0.00 0.00 34.57 2.93
2165 2831 0.603065 GAATCCGCCAAAGCCAAACT 59.397 50.000 0.00 0.00 34.57 2.66
2187 2854 3.190874 GACGATCCATCTTGTCACTTCC 58.809 50.000 0.00 0.00 0.00 3.46
2189 2856 3.007940 ACGATCCATCTTGTCACTTCCAA 59.992 43.478 0.00 0.00 0.00 3.53
2309 2984 3.551846 CCACGGCTTGGTTCCTATAAAT 58.448 45.455 1.04 0.00 41.10 1.40
2310 2985 3.951680 CCACGGCTTGGTTCCTATAAATT 59.048 43.478 1.04 0.00 41.10 1.82
2311 2986 5.127491 CCACGGCTTGGTTCCTATAAATTA 58.873 41.667 1.04 0.00 41.10 1.40
2312 2987 5.591067 CCACGGCTTGGTTCCTATAAATTAA 59.409 40.000 1.04 0.00 41.10 1.40
2313 2988 6.095720 CCACGGCTTGGTTCCTATAAATTAAA 59.904 38.462 1.04 0.00 41.10 1.52
2363 3038 5.551760 ATGCTTCCTCGAAAACTTACATG 57.448 39.130 0.00 0.00 0.00 3.21
2371 3046 7.275183 TCCTCGAAAACTTACATGATCATCAT 58.725 34.615 4.86 0.00 37.65 2.45
2372 3047 8.421002 TCCTCGAAAACTTACATGATCATCATA 58.579 33.333 4.86 0.00 34.28 2.15
2373 3048 8.491152 CCTCGAAAACTTACATGATCATCATAC 58.509 37.037 4.86 0.00 34.28 2.39
2374 3049 8.365399 TCGAAAACTTACATGATCATCATACC 57.635 34.615 4.86 0.00 34.28 2.73
2375 3050 8.204160 TCGAAAACTTACATGATCATCATACCT 58.796 33.333 4.86 0.00 34.28 3.08
2376 3051 8.491152 CGAAAACTTACATGATCATCATACCTC 58.509 37.037 4.86 0.00 34.28 3.85
2377 3052 9.553064 GAAAACTTACATGATCATCATACCTCT 57.447 33.333 4.86 0.00 34.28 3.69
2378 3053 9.553064 AAAACTTACATGATCATCATACCTCTC 57.447 33.333 4.86 0.00 34.28 3.20
2379 3054 7.238486 ACTTACATGATCATCATACCTCTCC 57.762 40.000 4.86 0.00 34.28 3.71
2380 3055 6.212388 ACTTACATGATCATCATACCTCTCCC 59.788 42.308 4.86 0.00 34.28 4.30
2381 3056 4.761086 ACATGATCATCATACCTCTCCCT 58.239 43.478 4.86 0.00 34.28 4.20
2382 3057 4.776837 ACATGATCATCATACCTCTCCCTC 59.223 45.833 4.86 0.00 34.28 4.30
2383 3058 4.756203 TGATCATCATACCTCTCCCTCT 57.244 45.455 0.00 0.00 0.00 3.69
2384 3059 4.671831 TGATCATCATACCTCTCCCTCTC 58.328 47.826 0.00 0.00 0.00 3.20
2385 3060 4.106987 TGATCATCATACCTCTCCCTCTCA 59.893 45.833 0.00 0.00 0.00 3.27
2386 3061 4.542906 TCATCATACCTCTCCCTCTCAA 57.457 45.455 0.00 0.00 0.00 3.02
2387 3062 5.085275 TCATCATACCTCTCCCTCTCAAT 57.915 43.478 0.00 0.00 0.00 2.57
2388 3063 5.083122 TCATCATACCTCTCCCTCTCAATC 58.917 45.833 0.00 0.00 0.00 2.67
2389 3064 3.491342 TCATACCTCTCCCTCTCAATCG 58.509 50.000 0.00 0.00 0.00 3.34
2390 3065 1.693627 TACCTCTCCCTCTCAATCGC 58.306 55.000 0.00 0.00 0.00 4.58
2391 3066 0.324738 ACCTCTCCCTCTCAATCGCA 60.325 55.000 0.00 0.00 0.00 5.10
2392 3067 1.047002 CCTCTCCCTCTCAATCGCAT 58.953 55.000 0.00 0.00 0.00 4.73
2393 3068 1.000731 CCTCTCCCTCTCAATCGCATC 59.999 57.143 0.00 0.00 0.00 3.91
2394 3069 1.962807 CTCTCCCTCTCAATCGCATCT 59.037 52.381 0.00 0.00 0.00 2.90
2395 3070 3.153130 CTCTCCCTCTCAATCGCATCTA 58.847 50.000 0.00 0.00 0.00 1.98
2396 3071 3.153130 TCTCCCTCTCAATCGCATCTAG 58.847 50.000 0.00 0.00 0.00 2.43
2397 3072 1.615883 TCCCTCTCAATCGCATCTAGC 59.384 52.381 0.00 0.00 40.87 3.42
2398 3073 1.337635 CCCTCTCAATCGCATCTAGCC 60.338 57.143 0.00 0.00 41.38 3.93
2399 3074 1.617850 CCTCTCAATCGCATCTAGCCT 59.382 52.381 0.00 0.00 41.38 4.58
2400 3075 2.036992 CCTCTCAATCGCATCTAGCCTT 59.963 50.000 0.00 0.00 41.38 4.35
2401 3076 3.316283 CTCTCAATCGCATCTAGCCTTC 58.684 50.000 0.00 0.00 41.38 3.46
2402 3077 2.961741 TCTCAATCGCATCTAGCCTTCT 59.038 45.455 0.00 0.00 41.38 2.85
2403 3078 3.386078 TCTCAATCGCATCTAGCCTTCTT 59.614 43.478 0.00 0.00 41.38 2.52
2404 3079 4.584743 TCTCAATCGCATCTAGCCTTCTTA 59.415 41.667 0.00 0.00 41.38 2.10
2405 3080 4.621991 TCAATCGCATCTAGCCTTCTTAC 58.378 43.478 0.00 0.00 41.38 2.34
2406 3081 4.342378 TCAATCGCATCTAGCCTTCTTACT 59.658 41.667 0.00 0.00 41.38 2.24
2407 3082 5.535030 TCAATCGCATCTAGCCTTCTTACTA 59.465 40.000 0.00 0.00 41.38 1.82
2408 3083 5.637006 ATCGCATCTAGCCTTCTTACTAG 57.363 43.478 0.00 0.00 41.38 2.57
2409 3084 4.715713 TCGCATCTAGCCTTCTTACTAGA 58.284 43.478 0.00 2.49 46.57 2.43
2410 3085 4.757657 TCGCATCTAGCCTTCTTACTAGAG 59.242 45.833 0.00 0.00 45.93 2.43
2411 3086 4.757657 CGCATCTAGCCTTCTTACTAGAGA 59.242 45.833 0.00 0.00 45.93 3.10
2412 3087 5.239744 CGCATCTAGCCTTCTTACTAGAGAA 59.760 44.000 0.00 0.00 45.93 2.87
2413 3088 6.238786 CGCATCTAGCCTTCTTACTAGAGAAA 60.239 42.308 0.00 0.00 45.93 2.52
2414 3089 7.493367 GCATCTAGCCTTCTTACTAGAGAAAA 58.507 38.462 0.00 0.00 45.93 2.29
2415 3090 7.436970 GCATCTAGCCTTCTTACTAGAGAAAAC 59.563 40.741 0.00 0.00 45.93 2.43
2416 3091 7.407393 TCTAGCCTTCTTACTAGAGAAAACC 57.593 40.000 0.00 0.00 39.89 3.27
2417 3092 6.952358 TCTAGCCTTCTTACTAGAGAAAACCA 59.048 38.462 0.00 0.00 39.89 3.67
2418 3093 6.435292 AGCCTTCTTACTAGAGAAAACCAA 57.565 37.500 0.00 0.00 35.38 3.67
2419 3094 7.021998 AGCCTTCTTACTAGAGAAAACCAAT 57.978 36.000 0.00 0.00 35.38 3.16
2420 3095 7.106890 AGCCTTCTTACTAGAGAAAACCAATC 58.893 38.462 0.00 0.00 35.38 2.67
2421 3096 7.037945 AGCCTTCTTACTAGAGAAAACCAATCT 60.038 37.037 0.00 0.00 35.38 2.40
2422 3097 8.258708 GCCTTCTTACTAGAGAAAACCAATCTA 58.741 37.037 0.00 0.00 35.38 1.98
2423 3098 9.810545 CCTTCTTACTAGAGAAAACCAATCTAG 57.189 37.037 0.00 6.87 45.26 2.43
2424 3099 9.308318 CTTCTTACTAGAGAAAACCAATCTAGC 57.692 37.037 0.00 0.00 44.15 3.42
2425 3100 7.783042 TCTTACTAGAGAAAACCAATCTAGCC 58.217 38.462 0.00 0.00 44.15 3.93
2426 3101 7.399191 TCTTACTAGAGAAAACCAATCTAGCCA 59.601 37.037 0.00 0.00 44.15 4.75
2427 3102 5.983540 ACTAGAGAAAACCAATCTAGCCAG 58.016 41.667 0.00 0.00 44.15 4.85
2428 3103 4.227864 AGAGAAAACCAATCTAGCCAGG 57.772 45.455 0.00 0.00 0.00 4.45
2429 3104 3.846588 AGAGAAAACCAATCTAGCCAGGA 59.153 43.478 0.00 0.00 0.00 3.86
2430 3105 4.289672 AGAGAAAACCAATCTAGCCAGGAA 59.710 41.667 0.00 0.00 0.00 3.36
2431 3106 4.336280 AGAAAACCAATCTAGCCAGGAAC 58.664 43.478 0.00 0.00 0.00 3.62
2432 3107 2.808906 AACCAATCTAGCCAGGAACC 57.191 50.000 0.00 0.00 0.00 3.62
2433 3108 1.668826 ACCAATCTAGCCAGGAACCA 58.331 50.000 0.00 0.00 0.00 3.67
2434 3109 1.282157 ACCAATCTAGCCAGGAACCAC 59.718 52.381 0.00 0.00 0.00 4.16
2435 3110 1.408822 CCAATCTAGCCAGGAACCACC 60.409 57.143 0.00 0.00 39.35 4.61
2436 3111 1.281867 CAATCTAGCCAGGAACCACCA 59.718 52.381 0.00 0.00 42.04 4.17
2437 3112 0.912486 ATCTAGCCAGGAACCACCAC 59.088 55.000 0.00 0.00 42.04 4.16
2438 3113 0.472925 TCTAGCCAGGAACCACCACA 60.473 55.000 0.00 0.00 42.04 4.17
2439 3114 0.400213 CTAGCCAGGAACCACCACAA 59.600 55.000 0.00 0.00 42.04 3.33
2440 3115 0.109723 TAGCCAGGAACCACCACAAC 59.890 55.000 0.00 0.00 42.04 3.32
2441 3116 1.152756 GCCAGGAACCACCACAACT 60.153 57.895 0.00 0.00 42.04 3.16
2442 3117 0.755327 GCCAGGAACCACCACAACTT 60.755 55.000 0.00 0.00 42.04 2.66
2443 3118 1.318576 CCAGGAACCACCACAACTTC 58.681 55.000 0.00 0.00 42.04 3.01
2444 3119 1.318576 CAGGAACCACCACAACTTCC 58.681 55.000 0.00 0.00 42.04 3.46
2445 3120 1.133792 CAGGAACCACCACAACTTCCT 60.134 52.381 0.00 0.00 42.78 3.36
2446 3121 1.143073 AGGAACCACCACAACTTCCTC 59.857 52.381 0.00 0.00 38.53 3.71
2447 3122 1.605753 GAACCACCACAACTTCCTCC 58.394 55.000 0.00 0.00 0.00 4.30
2448 3123 0.179029 AACCACCACAACTTCCTCCG 60.179 55.000 0.00 0.00 0.00 4.63
2449 3124 1.966451 CCACCACAACTTCCTCCGC 60.966 63.158 0.00 0.00 0.00 5.54
2450 3125 1.227823 CACCACAACTTCCTCCGCA 60.228 57.895 0.00 0.00 0.00 5.69
2451 3126 0.606401 CACCACAACTTCCTCCGCAT 60.606 55.000 0.00 0.00 0.00 4.73
2452 3127 0.321653 ACCACAACTTCCTCCGCATC 60.322 55.000 0.00 0.00 0.00 3.91
2453 3128 1.026718 CCACAACTTCCTCCGCATCC 61.027 60.000 0.00 0.00 0.00 3.51
2454 3129 0.321564 CACAACTTCCTCCGCATCCA 60.322 55.000 0.00 0.00 0.00 3.41
2455 3130 0.321653 ACAACTTCCTCCGCATCCAC 60.322 55.000 0.00 0.00 0.00 4.02
2456 3131 1.026718 CAACTTCCTCCGCATCCACC 61.027 60.000 0.00 0.00 0.00 4.61
2457 3132 2.190578 CTTCCTCCGCATCCACCC 59.809 66.667 0.00 0.00 0.00 4.61
2458 3133 2.285368 TTCCTCCGCATCCACCCT 60.285 61.111 0.00 0.00 0.00 4.34
2459 3134 2.317149 CTTCCTCCGCATCCACCCTC 62.317 65.000 0.00 0.00 0.00 4.30
2460 3135 4.227134 CCTCCGCATCCACCCTCG 62.227 72.222 0.00 0.00 0.00 4.63
2461 3136 4.899239 CTCCGCATCCACCCTCGC 62.899 72.222 0.00 0.00 0.00 5.03
2463 3138 4.776322 CCGCATCCACCCTCGCAA 62.776 66.667 0.00 0.00 0.00 4.85
2464 3139 3.499737 CGCATCCACCCTCGCAAC 61.500 66.667 0.00 0.00 0.00 4.17
2465 3140 3.134127 GCATCCACCCTCGCAACC 61.134 66.667 0.00 0.00 0.00 3.77
2466 3141 2.350895 CATCCACCCTCGCAACCA 59.649 61.111 0.00 0.00 0.00 3.67
2467 3142 1.303236 CATCCACCCTCGCAACCAA 60.303 57.895 0.00 0.00 0.00 3.67
2468 3143 1.303317 ATCCACCCTCGCAACCAAC 60.303 57.895 0.00 0.00 0.00 3.77
2469 3144 2.063015 ATCCACCCTCGCAACCAACA 62.063 55.000 0.00 0.00 0.00 3.33
2470 3145 1.603455 CCACCCTCGCAACCAACAT 60.603 57.895 0.00 0.00 0.00 2.71
2471 3146 1.580942 CACCCTCGCAACCAACATG 59.419 57.895 0.00 0.00 0.00 3.21
2472 3147 0.888736 CACCCTCGCAACCAACATGA 60.889 55.000 0.00 0.00 0.00 3.07
2473 3148 0.606401 ACCCTCGCAACCAACATGAG 60.606 55.000 0.00 0.00 0.00 2.90
2474 3149 1.503542 CCTCGCAACCAACATGAGC 59.496 57.895 0.00 0.00 0.00 4.26
2476 3151 2.502510 CGCAACCAACATGAGCGC 60.503 61.111 0.00 0.00 41.95 5.92
2477 3152 2.126346 GCAACCAACATGAGCGCC 60.126 61.111 2.29 0.00 0.00 6.53
2478 3153 2.629656 GCAACCAACATGAGCGCCT 61.630 57.895 2.29 0.00 0.00 5.52
2479 3154 1.959085 CAACCAACATGAGCGCCTT 59.041 52.632 2.29 0.00 0.00 4.35
2480 3155 0.387622 CAACCAACATGAGCGCCTTG 60.388 55.000 2.29 7.00 0.00 3.61
2481 3156 0.537143 AACCAACATGAGCGCCTTGA 60.537 50.000 2.29 0.00 0.00 3.02
2482 3157 0.322816 ACCAACATGAGCGCCTTGAT 60.323 50.000 2.29 0.00 0.00 2.57
2483 3158 0.813184 CCAACATGAGCGCCTTGATT 59.187 50.000 2.29 0.00 0.00 2.57
2484 3159 2.016318 CCAACATGAGCGCCTTGATTA 58.984 47.619 2.29 0.00 0.00 1.75
2485 3160 2.223340 CCAACATGAGCGCCTTGATTAC 60.223 50.000 2.29 0.00 0.00 1.89
2486 3161 2.679837 CAACATGAGCGCCTTGATTACT 59.320 45.455 2.29 0.00 0.00 2.24
2487 3162 3.819564 ACATGAGCGCCTTGATTACTA 57.180 42.857 2.29 0.00 0.00 1.82
2488 3163 3.722147 ACATGAGCGCCTTGATTACTAG 58.278 45.455 2.29 0.00 0.00 2.57
2489 3164 3.133003 ACATGAGCGCCTTGATTACTAGT 59.867 43.478 2.29 0.00 0.00 2.57
2490 3165 3.438297 TGAGCGCCTTGATTACTAGTC 57.562 47.619 2.29 0.00 0.00 2.59
2491 3166 2.100916 TGAGCGCCTTGATTACTAGTCC 59.899 50.000 2.29 0.00 0.00 3.85
2492 3167 2.362717 GAGCGCCTTGATTACTAGTCCT 59.637 50.000 2.29 0.00 0.00 3.85
2493 3168 2.362717 AGCGCCTTGATTACTAGTCCTC 59.637 50.000 2.29 0.00 0.00 3.71
2494 3169 2.546162 GCGCCTTGATTACTAGTCCTCC 60.546 54.545 0.00 0.00 0.00 4.30
2495 3170 2.693591 CGCCTTGATTACTAGTCCTCCA 59.306 50.000 0.00 0.00 0.00 3.86
2496 3171 3.491104 CGCCTTGATTACTAGTCCTCCAC 60.491 52.174 0.00 0.00 0.00 4.02
2497 3172 3.707102 GCCTTGATTACTAGTCCTCCACT 59.293 47.826 0.00 0.00 39.41 4.00
2498 3173 4.162509 GCCTTGATTACTAGTCCTCCACTT 59.837 45.833 0.00 0.00 36.43 3.16
2499 3174 5.682730 GCCTTGATTACTAGTCCTCCACTTC 60.683 48.000 0.00 0.00 36.43 3.01
2500 3175 5.163395 CCTTGATTACTAGTCCTCCACTTCC 60.163 48.000 0.00 0.00 36.43 3.46
2501 3176 4.942944 TGATTACTAGTCCTCCACTTCCA 58.057 43.478 0.00 0.00 36.43 3.53
2502 3177 4.710375 TGATTACTAGTCCTCCACTTCCAC 59.290 45.833 0.00 0.00 36.43 4.02
2503 3178 1.939980 ACTAGTCCTCCACTTCCACC 58.060 55.000 0.00 0.00 36.43 4.61
2504 3179 1.433592 ACTAGTCCTCCACTTCCACCT 59.566 52.381 0.00 0.00 36.43 4.00
2505 3180 2.158143 ACTAGTCCTCCACTTCCACCTT 60.158 50.000 0.00 0.00 36.43 3.50
2506 3181 1.821088 AGTCCTCCACTTCCACCTTT 58.179 50.000 0.00 0.00 26.56 3.11
2507 3182 1.421646 AGTCCTCCACTTCCACCTTTG 59.578 52.381 0.00 0.00 26.56 2.77
2508 3183 0.110486 TCCTCCACTTCCACCTTTGC 59.890 55.000 0.00 0.00 0.00 3.68
2509 3184 1.237285 CCTCCACTTCCACCTTTGCG 61.237 60.000 0.00 0.00 0.00 4.85
2510 3185 1.856265 CTCCACTTCCACCTTTGCGC 61.856 60.000 0.00 0.00 0.00 6.09
2511 3186 2.644992 CACTTCCACCTTTGCGCC 59.355 61.111 4.18 0.00 0.00 6.53
2512 3187 2.192861 CACTTCCACCTTTGCGCCA 61.193 57.895 4.18 0.00 0.00 5.69
2513 3188 1.898574 ACTTCCACCTTTGCGCCAG 60.899 57.895 4.18 0.00 0.00 4.85
2514 3189 3.273080 CTTCCACCTTTGCGCCAGC 62.273 63.158 4.18 0.00 45.41 4.85
2524 3199 3.512516 GCGCCAGCATCCAGTTCC 61.513 66.667 0.00 0.00 44.35 3.62
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.537300 TCGCCTCTAGCAAATTAATCTCT 57.463 39.130 0.00 0.00 44.04 3.10
21 22 8.397906 TGCACTAGCTTGTTTCAAATGTATATC 58.602 33.333 0.00 0.00 42.74 1.63
22 23 8.279970 TGCACTAGCTTGTTTCAAATGTATAT 57.720 30.769 0.00 0.00 42.74 0.86
23 24 7.680442 TGCACTAGCTTGTTTCAAATGTATA 57.320 32.000 0.00 0.00 42.74 1.47
24 25 6.573664 TGCACTAGCTTGTTTCAAATGTAT 57.426 33.333 0.00 0.00 42.74 2.29
25 26 6.349280 GGATGCACTAGCTTGTTTCAAATGTA 60.349 38.462 0.00 0.00 42.74 2.29
27 28 4.860907 GGATGCACTAGCTTGTTTCAAATG 59.139 41.667 0.00 0.00 42.74 2.32
30 31 3.503363 CAGGATGCACTAGCTTGTTTCAA 59.497 43.478 0.00 0.00 42.74 2.69
71 78 1.269726 ACAGCAACCAAAAATCCTGCG 60.270 47.619 0.00 0.00 38.07 5.18
75 82 2.545106 CTGCAACAGCAACCAAAAATCC 59.455 45.455 0.00 0.00 37.91 3.01
113 120 4.341935 GCAACAAAAGAAATGGCAAACAC 58.658 39.130 0.00 0.00 0.00 3.32
121 129 5.504392 GCAAAGAAGGCAACAAAAGAAATG 58.496 37.500 0.00 0.00 41.41 2.32
136 144 3.784338 TGAGCACAAAAAGGCAAAGAAG 58.216 40.909 0.00 0.00 0.00 2.85
166 175 5.332743 TCTTTCCCATGCTTATTTTGTCCT 58.667 37.500 0.00 0.00 0.00 3.85
169 178 6.670695 AACTCTTTCCCATGCTTATTTTGT 57.329 33.333 0.00 0.00 0.00 2.83
170 179 8.306761 AGTTAACTCTTTCCCATGCTTATTTTG 58.693 33.333 1.12 0.00 0.00 2.44
266 297 2.922740 TGGTGTACCACTTCCTTCAC 57.077 50.000 0.00 0.00 42.01 3.18
364 401 2.831526 AGAGAGAGAGGCAGAAGAAACC 59.168 50.000 0.00 0.00 0.00 3.27
404 447 8.372521 CCAAATTAAAAATAGTGCAACATCGTC 58.627 33.333 0.00 0.00 41.43 4.20
437 484 6.267496 TCTAACAATCTCGATCTTGTGACA 57.733 37.500 12.01 0.00 35.82 3.58
440 487 5.332130 CGCATCTAACAATCTCGATCTTGTG 60.332 44.000 12.01 3.45 35.82 3.33
594 645 6.980593 TGGATAATTTCTCCACACACAAAAG 58.019 36.000 5.55 0.00 37.87 2.27
628 681 2.348998 CAGAGACTGTGCCACCCC 59.651 66.667 0.00 0.00 0.00 4.95
673 726 6.983474 AAAAACCCAGAAAGAAATGTTGTG 57.017 33.333 0.00 0.00 0.00 3.33
699 752 7.440523 ACATAGATGAGGACAAAAAGAACAC 57.559 36.000 0.00 0.00 0.00 3.32
798 1332 5.171339 AGATCAGAGGTATGCACACTTTT 57.829 39.130 0.00 0.00 0.00 2.27
875 1409 4.331108 TCGTAGATCTCAGCTGCTGATAT 58.669 43.478 30.50 27.51 39.92 1.63
876 1410 3.744660 TCGTAGATCTCAGCTGCTGATA 58.255 45.455 30.50 24.24 39.92 2.15
877 1411 2.580962 TCGTAGATCTCAGCTGCTGAT 58.419 47.619 30.50 18.42 39.92 2.90
878 1412 2.044123 TCGTAGATCTCAGCTGCTGA 57.956 50.000 28.77 28.77 38.25 4.26
1210 1744 9.358872 GAAAGAAATGGGAAATTAGCTAAAGTG 57.641 33.333 10.85 0.00 0.00 3.16
1261 1799 5.649395 AGGTGACCATGCAATATATATGTGC 59.351 40.000 3.63 16.54 38.78 4.57
1269 1807 3.071457 TCGATGAGGTGACCATGCAATAT 59.929 43.478 3.63 0.00 0.00 1.28
1270 1808 2.433970 TCGATGAGGTGACCATGCAATA 59.566 45.455 3.63 0.00 0.00 1.90
1271 1809 1.210234 TCGATGAGGTGACCATGCAAT 59.790 47.619 3.63 0.00 0.00 3.56
1272 1810 0.612744 TCGATGAGGTGACCATGCAA 59.387 50.000 3.63 0.00 0.00 4.08
1374 1912 3.777106 TTATCATCATCAGACAGCCCC 57.223 47.619 0.00 0.00 0.00 5.80
1434 1972 2.260869 CCTCACTGGTTTGGGCACG 61.261 63.158 0.00 0.00 0.00 5.34
1525 2079 1.595311 TGTATTCCTCCATGGCTGGT 58.405 50.000 18.89 7.45 43.61 4.00
1619 2189 1.065709 ACGCCCGACCTTTAACATGAT 60.066 47.619 0.00 0.00 0.00 2.45
1769 2364 3.435327 ACGTACTGTGCACCAAATGTATG 59.565 43.478 15.69 15.40 0.00 2.39
1770 2365 3.670625 ACGTACTGTGCACCAAATGTAT 58.329 40.909 15.69 0.00 0.00 2.29
1771 2366 3.114668 ACGTACTGTGCACCAAATGTA 57.885 42.857 15.69 6.98 0.00 2.29
1773 2368 2.159894 CGTACGTACTGTGCACCAAATG 60.160 50.000 22.55 7.20 31.89 2.32
1774 2369 2.063266 CGTACGTACTGTGCACCAAAT 58.937 47.619 22.55 0.00 31.89 2.32
1775 2370 1.202394 ACGTACGTACTGTGCACCAAA 60.202 47.619 21.41 0.00 31.89 3.28
1812 2430 4.928661 ATAATTACGCATCGAGCCAATC 57.071 40.909 0.00 0.00 41.38 2.67
1842 2460 3.459145 TCCGAAACTTTGTTGATCGACA 58.541 40.909 11.98 11.98 35.65 4.35
1850 2468 1.459592 CGCTCGATCCGAAACTTTGTT 59.540 47.619 0.00 0.00 34.74 2.83
1924 2545 0.320771 ATCGCTGGCGTGTCTTTCTT 60.321 50.000 14.55 0.00 40.74 2.52
1925 2546 1.016130 CATCGCTGGCGTGTCTTTCT 61.016 55.000 14.55 0.00 40.74 2.52
1926 2547 1.421485 CATCGCTGGCGTGTCTTTC 59.579 57.895 14.55 0.00 40.74 2.62
1927 2548 2.034879 CCATCGCTGGCGTGTCTTT 61.035 57.895 14.55 0.00 40.74 2.52
1950 2571 7.490000 AGAGAATAGAAACAAACGATATCGGT 58.510 34.615 27.58 20.39 43.60 4.69
1951 2572 7.863375 AGAGAGAATAGAAACAAACGATATCGG 59.137 37.037 27.58 13.40 44.95 4.18
1992 2613 2.993264 GTGGCTGGCCTTGTGCAT 60.993 61.111 13.05 0.00 43.89 3.96
2000 2621 3.798511 GGGAGTAGGTGGCTGGCC 61.799 72.222 4.43 4.43 0.00 5.36
2014 2635 1.538047 GGTGCGTATATAGGACGGGA 58.462 55.000 6.62 0.00 40.66 5.14
2116 2737 7.264221 AGAAATATGCTCCTATATGCGAAGAG 58.736 38.462 0.00 0.00 0.00 2.85
2129 2750 6.317857 GCGGATTCAAATAGAAATATGCTCC 58.682 40.000 0.00 0.00 40.22 4.70
2130 2751 6.072508 TGGCGGATTCAAATAGAAATATGCTC 60.073 38.462 0.00 0.00 40.22 4.26
2131 2752 5.769662 TGGCGGATTCAAATAGAAATATGCT 59.230 36.000 0.00 0.00 40.22 3.79
2138 2804 3.130340 GGCTTTGGCGGATTCAAATAGAA 59.870 43.478 0.00 0.00 38.98 2.10
2164 2830 3.516981 AGTGACAAGATGGATCGTCAG 57.483 47.619 0.00 0.00 38.96 3.51
2165 2831 3.368427 GGAAGTGACAAGATGGATCGTCA 60.368 47.826 0.00 0.00 36.09 4.35
2187 2854 4.375706 GCGTTTTTCTCAGTACGTACCTTG 60.376 45.833 21.80 14.53 36.45 3.61
2189 2856 3.311966 GCGTTTTTCTCAGTACGTACCT 58.688 45.455 21.80 6.95 36.45 3.08
2254 2929 4.832266 AGACGATTGCTAGGATTCATCTCT 59.168 41.667 6.90 1.23 0.00 3.10
2309 2984 3.681593 AGGGCTGCGTGAGTTTATTTAA 58.318 40.909 0.00 0.00 0.00 1.52
2310 2985 3.343941 AGGGCTGCGTGAGTTTATTTA 57.656 42.857 0.00 0.00 0.00 1.40
2311 2986 2.200373 AGGGCTGCGTGAGTTTATTT 57.800 45.000 0.00 0.00 0.00 1.40
2312 2987 2.629051 GTAGGGCTGCGTGAGTTTATT 58.371 47.619 0.00 0.00 0.00 1.40
2313 2988 1.470979 CGTAGGGCTGCGTGAGTTTAT 60.471 52.381 0.00 0.00 34.04 1.40
2363 3038 4.671831 TGAGAGGGAGAGGTATGATGATC 58.328 47.826 0.00 0.00 0.00 2.92
2371 3046 1.063942 TGCGATTGAGAGGGAGAGGTA 60.064 52.381 0.00 0.00 0.00 3.08
2372 3047 0.324738 TGCGATTGAGAGGGAGAGGT 60.325 55.000 0.00 0.00 0.00 3.85
2373 3048 1.000731 GATGCGATTGAGAGGGAGAGG 59.999 57.143 0.00 0.00 0.00 3.69
2374 3049 1.962807 AGATGCGATTGAGAGGGAGAG 59.037 52.381 0.00 0.00 0.00 3.20
2375 3050 2.079170 AGATGCGATTGAGAGGGAGA 57.921 50.000 0.00 0.00 0.00 3.71
2376 3051 2.352617 GCTAGATGCGATTGAGAGGGAG 60.353 54.545 0.00 0.00 0.00 4.30
2377 3052 1.615883 GCTAGATGCGATTGAGAGGGA 59.384 52.381 0.00 0.00 0.00 4.20
2378 3053 1.337635 GGCTAGATGCGATTGAGAGGG 60.338 57.143 0.00 0.00 44.05 4.30
2379 3054 1.617850 AGGCTAGATGCGATTGAGAGG 59.382 52.381 0.00 0.00 44.05 3.69
2380 3055 3.005684 AGAAGGCTAGATGCGATTGAGAG 59.994 47.826 0.00 0.00 44.05 3.20
2381 3056 2.961741 AGAAGGCTAGATGCGATTGAGA 59.038 45.455 0.00 0.00 44.05 3.27
2382 3057 3.383620 AGAAGGCTAGATGCGATTGAG 57.616 47.619 0.00 0.00 44.05 3.02
2383 3058 3.827008 AAGAAGGCTAGATGCGATTGA 57.173 42.857 0.00 0.00 44.05 2.57
2384 3059 4.626042 AGTAAGAAGGCTAGATGCGATTG 58.374 43.478 0.00 0.00 44.05 2.67
2385 3060 4.946478 AGTAAGAAGGCTAGATGCGATT 57.054 40.909 0.00 0.00 44.05 3.34
2386 3061 5.317808 TCTAGTAAGAAGGCTAGATGCGAT 58.682 41.667 0.00 0.00 44.05 4.58
2387 3062 4.715713 TCTAGTAAGAAGGCTAGATGCGA 58.284 43.478 0.00 0.00 44.05 5.10
2388 3063 4.757657 TCTCTAGTAAGAAGGCTAGATGCG 59.242 45.833 0.00 0.00 41.68 4.73
2389 3064 6.642707 TTCTCTAGTAAGAAGGCTAGATGC 57.357 41.667 0.00 0.00 41.68 3.91
2390 3065 7.923878 GGTTTTCTCTAGTAAGAAGGCTAGATG 59.076 40.741 0.00 0.00 41.68 2.90
2391 3066 7.620094 TGGTTTTCTCTAGTAAGAAGGCTAGAT 59.380 37.037 0.00 0.00 41.68 1.98
2392 3067 6.952358 TGGTTTTCTCTAGTAAGAAGGCTAGA 59.048 38.462 0.00 0.00 40.72 2.43
2393 3068 7.171630 TGGTTTTCTCTAGTAAGAAGGCTAG 57.828 40.000 0.00 0.00 36.66 3.42
2394 3069 7.549147 TTGGTTTTCTCTAGTAAGAAGGCTA 57.451 36.000 0.00 0.00 36.66 3.93
2395 3070 6.435292 TTGGTTTTCTCTAGTAAGAAGGCT 57.565 37.500 0.00 0.00 36.66 4.58
2396 3071 7.106890 AGATTGGTTTTCTCTAGTAAGAAGGC 58.893 38.462 0.00 0.00 36.66 4.35
2397 3072 9.810545 CTAGATTGGTTTTCTCTAGTAAGAAGG 57.189 37.037 0.00 0.00 36.66 3.46
2398 3073 9.308318 GCTAGATTGGTTTTCTCTAGTAAGAAG 57.692 37.037 0.00 0.00 40.29 2.85
2399 3074 8.258708 GGCTAGATTGGTTTTCTCTAGTAAGAA 58.741 37.037 0.00 0.00 40.29 2.52
2400 3075 7.399191 TGGCTAGATTGGTTTTCTCTAGTAAGA 59.601 37.037 0.00 0.00 40.29 2.10
2401 3076 7.556844 TGGCTAGATTGGTTTTCTCTAGTAAG 58.443 38.462 0.00 0.00 40.29 2.34
2402 3077 7.364762 CCTGGCTAGATTGGTTTTCTCTAGTAA 60.365 40.741 0.00 0.00 40.29 2.24
2403 3078 6.098409 CCTGGCTAGATTGGTTTTCTCTAGTA 59.902 42.308 0.00 0.00 40.29 1.82
2404 3079 5.104735 CCTGGCTAGATTGGTTTTCTCTAGT 60.105 44.000 0.00 0.00 40.29 2.57
2405 3080 5.129485 TCCTGGCTAGATTGGTTTTCTCTAG 59.871 44.000 0.00 0.00 40.84 2.43
2406 3081 5.030147 TCCTGGCTAGATTGGTTTTCTCTA 58.970 41.667 0.00 0.00 0.00 2.43
2407 3082 3.846588 TCCTGGCTAGATTGGTTTTCTCT 59.153 43.478 0.00 0.00 0.00 3.10
2408 3083 4.222124 TCCTGGCTAGATTGGTTTTCTC 57.778 45.455 0.00 0.00 0.00 2.87
2409 3084 4.336280 GTTCCTGGCTAGATTGGTTTTCT 58.664 43.478 0.00 0.00 0.00 2.52
2410 3085 3.444034 GGTTCCTGGCTAGATTGGTTTTC 59.556 47.826 0.00 0.00 0.00 2.29
2411 3086 3.181423 TGGTTCCTGGCTAGATTGGTTTT 60.181 43.478 0.00 0.00 0.00 2.43
2412 3087 2.378547 TGGTTCCTGGCTAGATTGGTTT 59.621 45.455 0.00 0.00 0.00 3.27
2413 3088 1.992557 TGGTTCCTGGCTAGATTGGTT 59.007 47.619 0.00 0.00 0.00 3.67
2414 3089 1.282157 GTGGTTCCTGGCTAGATTGGT 59.718 52.381 0.00 0.00 0.00 3.67
2415 3090 1.408822 GGTGGTTCCTGGCTAGATTGG 60.409 57.143 0.00 0.00 0.00 3.16
2416 3091 1.281867 TGGTGGTTCCTGGCTAGATTG 59.718 52.381 0.00 0.00 37.07 2.67
2417 3092 1.282157 GTGGTGGTTCCTGGCTAGATT 59.718 52.381 0.00 0.00 37.07 2.40
2418 3093 0.912486 GTGGTGGTTCCTGGCTAGAT 59.088 55.000 0.00 0.00 37.07 1.98
2419 3094 0.472925 TGTGGTGGTTCCTGGCTAGA 60.473 55.000 0.00 0.00 37.07 2.43
2420 3095 0.400213 TTGTGGTGGTTCCTGGCTAG 59.600 55.000 0.00 0.00 37.07 3.42
2421 3096 0.109723 GTTGTGGTGGTTCCTGGCTA 59.890 55.000 0.00 0.00 37.07 3.93
2422 3097 1.152756 GTTGTGGTGGTTCCTGGCT 60.153 57.895 0.00 0.00 37.07 4.75
2423 3098 0.755327 AAGTTGTGGTGGTTCCTGGC 60.755 55.000 0.00 0.00 37.07 4.85
2424 3099 1.318576 GAAGTTGTGGTGGTTCCTGG 58.681 55.000 0.00 0.00 37.07 4.45
2425 3100 1.133792 AGGAAGTTGTGGTGGTTCCTG 60.134 52.381 1.66 0.00 45.77 3.86
2426 3101 1.222567 AGGAAGTTGTGGTGGTTCCT 58.777 50.000 0.00 0.00 43.31 3.36
2427 3102 1.605753 GAGGAAGTTGTGGTGGTTCC 58.394 55.000 0.00 0.00 39.08 3.62
2428 3103 1.605753 GGAGGAAGTTGTGGTGGTTC 58.394 55.000 0.00 0.00 0.00 3.62
2429 3104 0.179029 CGGAGGAAGTTGTGGTGGTT 60.179 55.000 0.00 0.00 0.00 3.67
2430 3105 1.450211 CGGAGGAAGTTGTGGTGGT 59.550 57.895 0.00 0.00 0.00 4.16
2431 3106 1.966451 GCGGAGGAAGTTGTGGTGG 60.966 63.158 0.00 0.00 0.00 4.61
2432 3107 0.606401 ATGCGGAGGAAGTTGTGGTG 60.606 55.000 0.00 0.00 0.00 4.17
2433 3108 0.321653 GATGCGGAGGAAGTTGTGGT 60.322 55.000 0.00 0.00 0.00 4.16
2434 3109 1.026718 GGATGCGGAGGAAGTTGTGG 61.027 60.000 0.00 0.00 0.00 4.17
2435 3110 0.321564 TGGATGCGGAGGAAGTTGTG 60.322 55.000 0.00 0.00 0.00 3.33
2436 3111 0.321653 GTGGATGCGGAGGAAGTTGT 60.322 55.000 0.00 0.00 0.00 3.32
2437 3112 1.026718 GGTGGATGCGGAGGAAGTTG 61.027 60.000 0.00 0.00 0.00 3.16
2438 3113 1.299976 GGTGGATGCGGAGGAAGTT 59.700 57.895 0.00 0.00 0.00 2.66
2439 3114 2.670148 GGGTGGATGCGGAGGAAGT 61.670 63.158 0.00 0.00 0.00 3.01
2440 3115 2.190578 GGGTGGATGCGGAGGAAG 59.809 66.667 0.00 0.00 0.00 3.46
2441 3116 2.285368 AGGGTGGATGCGGAGGAA 60.285 61.111 0.00 0.00 0.00 3.36
2442 3117 2.764128 GAGGGTGGATGCGGAGGA 60.764 66.667 0.00 0.00 0.00 3.71
2443 3118 4.227134 CGAGGGTGGATGCGGAGG 62.227 72.222 0.00 0.00 0.00 4.30
2444 3119 4.899239 GCGAGGGTGGATGCGGAG 62.899 72.222 0.00 0.00 0.00 4.63
2446 3121 4.776322 TTGCGAGGGTGGATGCGG 62.776 66.667 0.00 0.00 0.00 5.69
2447 3122 3.499737 GTTGCGAGGGTGGATGCG 61.500 66.667 0.00 0.00 0.00 4.73
2448 3123 3.134127 GGTTGCGAGGGTGGATGC 61.134 66.667 0.00 0.00 0.00 3.91
2449 3124 1.303236 TTGGTTGCGAGGGTGGATG 60.303 57.895 0.00 0.00 0.00 3.51
2450 3125 1.303317 GTTGGTTGCGAGGGTGGAT 60.303 57.895 0.00 0.00 0.00 3.41
2451 3126 2.063015 ATGTTGGTTGCGAGGGTGGA 62.063 55.000 0.00 0.00 0.00 4.02
2452 3127 1.603455 ATGTTGGTTGCGAGGGTGG 60.603 57.895 0.00 0.00 0.00 4.61
2453 3128 0.888736 TCATGTTGGTTGCGAGGGTG 60.889 55.000 0.00 0.00 0.00 4.61
2454 3129 0.606401 CTCATGTTGGTTGCGAGGGT 60.606 55.000 0.00 0.00 0.00 4.34
2455 3130 1.926511 GCTCATGTTGGTTGCGAGGG 61.927 60.000 0.00 0.00 0.00 4.30
2456 3131 1.503542 GCTCATGTTGGTTGCGAGG 59.496 57.895 0.00 0.00 0.00 4.63
2460 3135 2.126346 GGCGCTCATGTTGGTTGC 60.126 61.111 7.64 0.00 0.00 4.17
2461 3136 0.387622 CAAGGCGCTCATGTTGGTTG 60.388 55.000 7.64 0.00 0.00 3.77
2462 3137 0.537143 TCAAGGCGCTCATGTTGGTT 60.537 50.000 7.64 0.00 0.00 3.67
2463 3138 0.322816 ATCAAGGCGCTCATGTTGGT 60.323 50.000 7.64 0.00 0.00 3.67
2464 3139 0.813184 AATCAAGGCGCTCATGTTGG 59.187 50.000 7.64 0.00 0.00 3.77
2465 3140 2.679837 AGTAATCAAGGCGCTCATGTTG 59.320 45.455 7.64 4.07 0.00 3.33
2466 3141 2.991250 AGTAATCAAGGCGCTCATGTT 58.009 42.857 7.64 0.00 0.00 2.71
2467 3142 2.698855 AGTAATCAAGGCGCTCATGT 57.301 45.000 7.64 0.00 0.00 3.21
2468 3143 3.722147 ACTAGTAATCAAGGCGCTCATG 58.278 45.455 7.64 4.17 0.00 3.07
2469 3144 3.243907 GGACTAGTAATCAAGGCGCTCAT 60.244 47.826 7.64 0.00 0.00 2.90
2470 3145 2.100916 GGACTAGTAATCAAGGCGCTCA 59.899 50.000 7.64 0.00 0.00 4.26
2471 3146 2.362717 AGGACTAGTAATCAAGGCGCTC 59.637 50.000 7.64 0.00 0.00 5.03
2472 3147 2.362717 GAGGACTAGTAATCAAGGCGCT 59.637 50.000 7.64 0.00 0.00 5.92
2473 3148 2.546162 GGAGGACTAGTAATCAAGGCGC 60.546 54.545 0.00 0.00 0.00 6.53
2474 3149 2.693591 TGGAGGACTAGTAATCAAGGCG 59.306 50.000 0.00 0.00 0.00 5.52
2475 3150 3.707102 AGTGGAGGACTAGTAATCAAGGC 59.293 47.826 0.00 0.00 30.86 4.35
2476 3151 5.163395 GGAAGTGGAGGACTAGTAATCAAGG 60.163 48.000 0.00 0.00 33.09 3.61
2477 3152 5.422331 TGGAAGTGGAGGACTAGTAATCAAG 59.578 44.000 0.00 0.00 33.09 3.02
2478 3153 5.187186 GTGGAAGTGGAGGACTAGTAATCAA 59.813 44.000 0.00 0.00 33.09 2.57
2479 3154 4.710375 GTGGAAGTGGAGGACTAGTAATCA 59.290 45.833 0.00 0.00 33.09 2.57
2480 3155 4.099727 GGTGGAAGTGGAGGACTAGTAATC 59.900 50.000 0.00 0.00 33.09 1.75
2481 3156 4.031611 GGTGGAAGTGGAGGACTAGTAAT 58.968 47.826 0.00 0.00 33.09 1.89
2482 3157 3.077088 AGGTGGAAGTGGAGGACTAGTAA 59.923 47.826 0.00 0.00 33.09 2.24
2483 3158 2.653366 AGGTGGAAGTGGAGGACTAGTA 59.347 50.000 0.00 0.00 33.09 1.82
2484 3159 1.433592 AGGTGGAAGTGGAGGACTAGT 59.566 52.381 0.00 0.00 33.09 2.57
2485 3160 2.239681 AGGTGGAAGTGGAGGACTAG 57.760 55.000 0.00 0.00 33.09 2.57
2486 3161 2.637872 CAAAGGTGGAAGTGGAGGACTA 59.362 50.000 0.00 0.00 33.09 2.59
2487 3162 1.421646 CAAAGGTGGAAGTGGAGGACT 59.578 52.381 0.00 0.00 35.94 3.85
2488 3163 1.897560 CAAAGGTGGAAGTGGAGGAC 58.102 55.000 0.00 0.00 0.00 3.85
2489 3164 0.110486 GCAAAGGTGGAAGTGGAGGA 59.890 55.000 0.00 0.00 0.00 3.71
2490 3165 1.237285 CGCAAAGGTGGAAGTGGAGG 61.237 60.000 0.00 0.00 0.00 4.30
2491 3166 1.856265 GCGCAAAGGTGGAAGTGGAG 61.856 60.000 0.30 0.00 0.00 3.86
2492 3167 1.896660 GCGCAAAGGTGGAAGTGGA 60.897 57.895 0.30 0.00 0.00 4.02
2493 3168 2.644992 GCGCAAAGGTGGAAGTGG 59.355 61.111 0.30 0.00 0.00 4.00
2494 3169 2.133742 CTGGCGCAAAGGTGGAAGTG 62.134 60.000 10.83 0.00 0.00 3.16
2495 3170 1.898574 CTGGCGCAAAGGTGGAAGT 60.899 57.895 10.83 0.00 0.00 3.01
2496 3171 2.956987 CTGGCGCAAAGGTGGAAG 59.043 61.111 10.83 0.00 0.00 3.46
2497 3172 3.294493 GCTGGCGCAAAGGTGGAA 61.294 61.111 10.83 0.00 35.78 3.53
2498 3173 4.577677 TGCTGGCGCAAAGGTGGA 62.578 61.111 10.83 0.00 44.62 4.02
2507 3182 3.512516 GGAACTGGATGCTGGCGC 61.513 66.667 0.00 0.00 0.00 6.53


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

AutoCloner maintained by Alex Coulton.