Multiple sequence alignment - TraesCS1D01G014700

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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 TraesCS1D01G014700 chr1D 100.000 3467 0 0 1 3467 7067810 7064344 0.000000e+00 6403.0
1 TraesCS1D01G014700 chr1D 82.685 3061 444 53 2 3022 7868863 7871877 0.000000e+00 2638.0
2 TraesCS1D01G014700 chr1D 85.191 2566 336 25 1 2539 7058701 7056153 0.000000e+00 2593.0
3 TraesCS1D01G014700 chr1D 85.090 2562 348 23 1 2545 7422437 7419893 0.000000e+00 2584.0
4 TraesCS1D01G014700 chr1D 83.606 2568 376 30 1 2544 7384387 7381841 0.000000e+00 2368.0
5 TraesCS1D01G014700 chr1D 80.810 1902 277 43 1238 3103 7468446 7466597 0.000000e+00 1410.0
6 TraesCS1D01G014700 chr1D 84.066 182 23 3 2613 2790 7218682 7218503 1.650000e-38 171.0
7 TraesCS1D01G014700 chr1A 85.976 2567 324 21 2 2539 8632914 8630355 0.000000e+00 2713.0
8 TraesCS1D01G014700 chr1A 84.091 2860 392 38 2 2829 9543811 9546639 0.000000e+00 2702.0
9 TraesCS1D01G014700 chr1A 84.626 748 99 11 1961 2697 9343160 9343902 0.000000e+00 730.0
10 TraesCS1D01G014700 chr1A 84.330 351 39 10 2865 3209 9547240 9547580 2.580000e-86 329.0
11 TraesCS1D01G014700 chr1B 84.183 2510 356 24 2 2499 10014980 10017460 0.000000e+00 2398.0
12 TraesCS1D01G014700 chr1B 83.815 2558 377 22 5 2545 9550344 9547807 0.000000e+00 2396.0
13 TraesCS1D01G014700 chr1B 83.288 2567 365 40 1 2539 9692874 9690344 0.000000e+00 2305.0
14 TraesCS1D01G014700 chr1B 83.571 2386 349 28 2 2370 10060332 10062691 0.000000e+00 2194.0
15 TraesCS1D01G014700 chr1B 84.564 1950 271 15 634 2563 9704463 9702524 0.000000e+00 1906.0
16 TraesCS1D01G014700 chr1B 81.342 1624 222 38 1295 2880 9607682 9606102 0.000000e+00 1245.0
17 TraesCS1D01G014700 chr1B 100.000 32 0 0 3435 3466 10065560 10065591 3.740000e-05 60.2
18 TraesCS1D01G014700 chr4B 82.787 2591 384 25 1 2560 4991021 4993580 0.000000e+00 2257.0


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 TraesCS1D01G014700 chr1D 7064344 7067810 3466 True 6403.0 6403 100.0000 1 3467 1 chr1D.!!$R2 3466
1 TraesCS1D01G014700 chr1D 7868863 7871877 3014 False 2638.0 2638 82.6850 2 3022 1 chr1D.!!$F1 3020
2 TraesCS1D01G014700 chr1D 7056153 7058701 2548 True 2593.0 2593 85.1910 1 2539 1 chr1D.!!$R1 2538
3 TraesCS1D01G014700 chr1D 7419893 7422437 2544 True 2584.0 2584 85.0900 1 2545 1 chr1D.!!$R5 2544
4 TraesCS1D01G014700 chr1D 7381841 7384387 2546 True 2368.0 2368 83.6060 1 2544 1 chr1D.!!$R4 2543
5 TraesCS1D01G014700 chr1D 7466597 7468446 1849 True 1410.0 1410 80.8100 1238 3103 1 chr1D.!!$R6 1865
6 TraesCS1D01G014700 chr1A 8630355 8632914 2559 True 2713.0 2713 85.9760 2 2539 1 chr1A.!!$R1 2537
7 TraesCS1D01G014700 chr1A 9543811 9547580 3769 False 1515.5 2702 84.2105 2 3209 2 chr1A.!!$F2 3207
8 TraesCS1D01G014700 chr1A 9343160 9343902 742 False 730.0 730 84.6260 1961 2697 1 chr1A.!!$F1 736
9 TraesCS1D01G014700 chr1B 10014980 10017460 2480 False 2398.0 2398 84.1830 2 2499 1 chr1B.!!$F1 2497
10 TraesCS1D01G014700 chr1B 9547807 9550344 2537 True 2396.0 2396 83.8150 5 2545 1 chr1B.!!$R1 2540
11 TraesCS1D01G014700 chr1B 9690344 9692874 2530 True 2305.0 2305 83.2880 1 2539 1 chr1B.!!$R3 2538
12 TraesCS1D01G014700 chr1B 9702524 9704463 1939 True 1906.0 1906 84.5640 634 2563 1 chr1B.!!$R4 1929
13 TraesCS1D01G014700 chr1B 9606102 9607682 1580 True 1245.0 1245 81.3420 1295 2880 1 chr1B.!!$R2 1585
14 TraesCS1D01G014700 chr1B 10060332 10065591 5259 False 1127.1 2194 91.7855 2 3466 2 chr1B.!!$F2 3464
15 TraesCS1D01G014700 chr4B 4991021 4993580 2559 False 2257.0 2257 82.7870 1 2560 1 chr4B.!!$F1 2559

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
318 319 0.108804 AGTTGATACGGTGGCTGACG 60.109 55.0 0.0 0.0 0.00 4.35 F
934 959 0.310854 CAAACCACCAACTTCCGCTC 59.689 55.0 0.0 0.0 0.00 5.03 F
1822 1890 0.531974 GTGTGTCAAAGCCACTCCGA 60.532 55.0 0.0 0.0 33.92 4.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1176 1204 0.179000 CAAGCTCGGCCAAGTATCCT 59.821 55.0 2.24 0.0 0.0 3.24 R
1958 2026 0.461516 CAGCACCTCATCGTCAGCAT 60.462 55.0 0.00 0.0 0.0 3.79 R
3415 4149 0.038744 CCCCTGAAGTTCACCATGCT 59.961 55.0 0.08 0.0 0.0 3.79 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
66 67 1.377202 GGATTGCAAGCACGGAGGA 60.377 57.895 17.68 0.00 0.00 3.71
89 90 2.079158 CGCTGCCAAGATGAAGAAGAA 58.921 47.619 0.00 0.00 0.00 2.52
188 189 0.462759 AGGAAGCAGGATTACGCAGC 60.463 55.000 0.00 0.00 0.00 5.25
246 247 2.828933 GACAAGTCGAGGTCAAGCC 58.171 57.895 6.87 0.00 34.22 4.35
318 319 0.108804 AGTTGATACGGTGGCTGACG 60.109 55.000 0.00 0.00 0.00 4.35
337 353 2.672996 GCAGTGGCGGTGGTGATT 60.673 61.111 0.00 0.00 0.00 2.57
449 465 2.294791 TGAAATTGGATTTTGACGCCGT 59.705 40.909 0.00 0.00 31.47 5.68
462 478 4.992511 GCCGTGGCGTGGGTAACA 62.993 66.667 0.00 0.00 39.74 2.41
504 520 5.825151 TCTCGAAGATCTGCTGAAGAAGATA 59.175 40.000 0.49 0.00 40.48 1.98
527 543 3.257561 CGAGTTCGGCATCGCAGG 61.258 66.667 0.00 0.00 36.13 4.85
528 544 2.184322 GAGTTCGGCATCGCAGGA 59.816 61.111 0.00 0.00 36.13 3.86
529 545 1.447838 GAGTTCGGCATCGCAGGAA 60.448 57.895 0.00 0.00 36.13 3.36
552 568 6.401047 AATATTGCCAATGTTGAGATGAGG 57.599 37.500 0.00 0.00 0.00 3.86
553 569 1.466856 TGCCAATGTTGAGATGAGGC 58.533 50.000 0.00 0.00 40.93 4.70
571 587 2.119009 CGCCTAGCAGAGTCCATCA 58.881 57.895 0.00 0.00 0.00 3.07
577 593 2.936919 AGCAGAGTCCATCAACAACA 57.063 45.000 0.00 0.00 0.00 3.33
579 595 3.759581 AGCAGAGTCCATCAACAACAAT 58.240 40.909 0.00 0.00 0.00 2.71
653 669 2.158957 TGTGGTCGGAGATAAGGAATGC 60.159 50.000 0.00 0.00 40.67 3.56
684 703 1.406539 TCTAACTGTACCGGCCGATTC 59.593 52.381 30.73 8.40 0.00 2.52
685 704 1.135527 CTAACTGTACCGGCCGATTCA 59.864 52.381 30.73 14.07 0.00 2.57
730 749 2.884639 GTGTCATTGTTGGCAACTAGGT 59.115 45.455 28.71 10.97 39.65 3.08
741 766 3.198872 GGCAACTAGGTAGTCTGCAATC 58.801 50.000 18.01 5.64 39.66 2.67
765 790 1.282875 GGAACCGCTGCAAGAACAC 59.717 57.895 0.00 0.00 34.07 3.32
848 873 0.679002 GAGCTGCAGGAATTGGCTCA 60.679 55.000 17.12 0.00 45.79 4.26
886 911 1.133790 GTCAAGGCTTGCCTATTGCTG 59.866 52.381 22.31 9.08 42.00 4.41
912 937 4.845580 ATTGGCCGCCTGCTCTCG 62.846 66.667 11.61 0.00 40.92 4.04
921 946 1.597854 CCTGCTCTCGTGCAAACCA 60.598 57.895 0.00 0.00 42.83 3.67
934 959 0.310854 CAAACCACCAACTTCCGCTC 59.689 55.000 0.00 0.00 0.00 5.03
955 980 2.505407 CAATGGGAGGATGTGTACAGGA 59.495 50.000 0.00 0.00 0.00 3.86
956 981 2.335681 TGGGAGGATGTGTACAGGAA 57.664 50.000 0.00 0.00 0.00 3.36
990 1015 1.203237 TGGCGAAAGATCTGATCCCA 58.797 50.000 13.83 10.62 0.00 4.37
1018 1043 6.126796 TGTTCATATGATCCTAAAGGTCAGCA 60.127 38.462 6.17 0.00 36.34 4.41
1086 1111 7.560991 TGTGCATTATCCCAAGAAGATTATGTT 59.439 33.333 0.00 0.00 34.68 2.71
1087 1112 7.864379 GTGCATTATCCCAAGAAGATTATGTTG 59.136 37.037 0.00 0.00 34.68 3.33
1176 1204 1.425066 ACATTGGAGGAAGTGGCAGAA 59.575 47.619 0.00 0.00 0.00 3.02
1234 1262 4.225942 TGCAGGTAGTGAAGAGGAATCATT 59.774 41.667 0.00 0.00 0.00 2.57
1235 1263 5.189180 GCAGGTAGTGAAGAGGAATCATTT 58.811 41.667 0.00 0.00 0.00 2.32
1338 1382 2.092538 AGTTTATGATGGCTCTGCTGCT 60.093 45.455 0.00 0.00 0.00 4.24
1371 1415 2.279918 GTTGAGGGTGCACGTCGT 60.280 61.111 11.45 0.00 36.79 4.34
1410 1454 0.591170 ACGTTGAACAATTGAGCCGG 59.409 50.000 13.59 0.00 0.00 6.13
1439 1483 2.919856 ACAGCTCCGTGCACTCCT 60.920 61.111 16.19 2.50 45.94 3.69
1440 1484 2.125753 CAGCTCCGTGCACTCCTC 60.126 66.667 16.19 1.62 45.94 3.71
1588 1632 4.965119 AATCTGCGTTATTTGGGTCTTC 57.035 40.909 0.00 0.00 0.00 2.87
1596 1640 2.667473 ATTTGGGTCTTCGAGGTACG 57.333 50.000 0.00 0.00 44.09 3.67
1686 1730 6.434028 ACTCTAAGCTGACATATTTGCCAAAA 59.566 34.615 0.00 0.00 0.00 2.44
1761 1829 4.672801 GCATTCGAAATTGGAGTCAAGGTC 60.673 45.833 0.00 0.00 36.19 3.85
1769 1837 3.199442 TGGAGTCAAGGTCCCTAATGA 57.801 47.619 0.00 0.00 32.49 2.57
1779 1847 5.975988 AGGTCCCTAATGACATACAACAT 57.024 39.130 0.00 0.00 36.97 2.71
1821 1889 0.532862 AGTGTGTCAAAGCCACTCCG 60.533 55.000 0.00 0.00 34.44 4.63
1822 1890 0.531974 GTGTGTCAAAGCCACTCCGA 60.532 55.000 0.00 0.00 33.92 4.55
1871 1939 2.935201 CAGAGCTAAGGTCATTCAGTGC 59.065 50.000 0.00 0.00 31.89 4.40
1876 1944 2.789409 AAGGTCATTCAGTGCCTACC 57.211 50.000 0.00 0.00 34.56 3.18
1877 1945 1.958288 AGGTCATTCAGTGCCTACCT 58.042 50.000 0.00 0.00 34.10 3.08
1886 1954 0.889306 AGTGCCTACCTCGTGAGAAC 59.111 55.000 0.00 0.00 41.32 3.01
1887 1955 0.601558 GTGCCTACCTCGTGAGAACA 59.398 55.000 0.00 0.00 41.32 3.18
1919 1987 3.193263 CTGACTTGAGCAACGCTATCAT 58.807 45.455 0.00 0.00 39.88 2.45
1946 2014 2.234661 TGAGCCATCTTGTTCATCTCGT 59.765 45.455 0.00 0.00 0.00 4.18
1948 2016 3.786635 AGCCATCTTGTTCATCTCGTAC 58.213 45.455 0.00 0.00 0.00 3.67
1954 2022 5.447624 TCTTGTTCATCTCGTACTTGTCA 57.552 39.130 0.00 0.00 0.00 3.58
1958 2026 4.277423 TGTTCATCTCGTACTTGTCACTGA 59.723 41.667 0.00 0.00 0.00 3.41
1959 2027 5.048013 TGTTCATCTCGTACTTGTCACTGAT 60.048 40.000 0.00 0.00 0.00 2.90
1965 2036 2.663602 CGTACTTGTCACTGATGCTGAC 59.336 50.000 0.00 0.00 38.86 3.51
2132 2204 6.885918 TCATTCTCCAGTATTGATGAGCAAAA 59.114 34.615 0.00 0.00 40.48 2.44
2147 2219 4.462483 TGAGCAAAACTTTTCCTGTCTGTT 59.538 37.500 0.00 0.00 0.00 3.16
2163 2235 4.574421 TGTCTGTTTGTGTTACATGGTCTG 59.426 41.667 0.00 0.00 0.00 3.51
2165 2237 3.550820 TGTTTGTGTTACATGGTCTGCT 58.449 40.909 0.00 0.00 0.00 4.24
2202 2274 2.568612 GCCTTTGAAGGGAAGCGC 59.431 61.111 11.53 0.00 46.56 5.92
2248 2320 4.703897 TCCGAAACTTAAGCATCTATGGG 58.296 43.478 1.29 0.00 0.00 4.00
2265 2337 3.192922 GTATGGGGCGCGACACAC 61.193 66.667 25.00 2.97 0.00 3.82
2319 2391 2.029365 GCAAAACCTCGTCGAGCTATTC 59.971 50.000 17.02 0.40 0.00 1.75
2344 2416 2.217510 AGACTGTCCCGAGCTAAAGA 57.782 50.000 3.76 0.00 0.00 2.52
2474 2547 8.644318 AATGCAGCAAAGATTTAATGAAGATC 57.356 30.769 0.00 0.00 0.00 2.75
2521 2595 4.510340 TGAACTAACGCAGAAAGGACTTTC 59.490 41.667 15.19 15.19 46.85 2.62
2553 2627 3.288092 AGGTGATACATCGTCACTGCTA 58.712 45.455 6.27 0.00 44.15 3.49
2560 2634 1.995484 CATCGTCACTGCTACAAGGTG 59.005 52.381 0.00 0.00 0.00 4.00
2562 2636 1.411246 TCGTCACTGCTACAAGGTGTT 59.589 47.619 0.00 0.00 33.30 3.32
2565 2639 3.202906 GTCACTGCTACAAGGTGTTTGA 58.797 45.455 0.00 0.00 39.21 2.69
2566 2640 3.625764 GTCACTGCTACAAGGTGTTTGAA 59.374 43.478 0.00 0.00 39.21 2.69
2569 2643 4.036734 CACTGCTACAAGGTGTTTGAATGT 59.963 41.667 0.00 0.00 39.21 2.71
2572 2646 5.587289 TGCTACAAGGTGTTTGAATGTTTC 58.413 37.500 0.00 0.00 39.21 2.78
2656 2745 9.476928 AGAATTAAACAACTAGTAGCTCCTAGA 57.523 33.333 19.28 0.00 38.24 2.43
2661 2750 4.399934 ACAACTAGTAGCTCCTAGAAGTGC 59.600 45.833 19.28 0.00 38.24 4.40
2681 2771 2.902484 GCGAATTTGTTACGAGCTTGTG 59.098 45.455 17.36 0.00 0.00 3.33
2706 2796 9.896645 TGAACTAAATCTAGCATGATCTTTCTT 57.103 29.630 0.00 0.00 0.00 2.52
2726 2816 2.601804 TCATGTTGGTGTGTATCGTCG 58.398 47.619 0.00 0.00 0.00 5.12
2736 2826 1.009900 GTATCGTCGCCTGACTCCG 60.010 63.158 0.00 0.00 43.21 4.63
2768 2858 4.543689 ACTGGTAGGGTCGATCATAGAAA 58.456 43.478 0.00 0.00 0.00 2.52
2769 2859 4.341520 ACTGGTAGGGTCGATCATAGAAAC 59.658 45.833 0.00 0.00 0.00 2.78
2829 2932 5.358298 AGTTTGTCGAAGTAAAAGGATGC 57.642 39.130 0.00 0.00 0.00 3.91
2832 2935 2.991190 TGTCGAAGTAAAAGGATGCGTC 59.009 45.455 0.00 0.00 0.00 5.19
2833 2936 3.251571 GTCGAAGTAAAAGGATGCGTCT 58.748 45.455 5.77 0.00 0.00 4.18
2836 2939 4.151689 TCGAAGTAAAAGGATGCGTCTTTG 59.848 41.667 3.78 0.00 34.99 2.77
2837 2940 4.084013 CGAAGTAAAAGGATGCGTCTTTGT 60.084 41.667 3.78 1.06 34.99 2.83
2838 2941 5.560183 CGAAGTAAAAGGATGCGTCTTTGTT 60.560 40.000 3.78 4.24 34.99 2.83
2839 2942 6.347079 CGAAGTAAAAGGATGCGTCTTTGTTA 60.347 38.462 3.78 3.39 34.99 2.41
2840 2943 6.870971 AGTAAAAGGATGCGTCTTTGTTAA 57.129 33.333 3.78 0.00 34.99 2.01
2841 2944 6.665465 AGTAAAAGGATGCGTCTTTGTTAAC 58.335 36.000 3.78 0.00 34.99 2.01
2853 2956 7.078228 GCGTCTTTGTTAACTCAATCTTTCAT 58.922 34.615 7.22 0.00 0.00 2.57
2854 2957 8.227791 GCGTCTTTGTTAACTCAATCTTTCATA 58.772 33.333 7.22 0.00 0.00 2.15
2855 2958 9.746711 CGTCTTTGTTAACTCAATCTTTCATAG 57.253 33.333 7.22 0.00 0.00 2.23
2897 3603 7.872483 CCTAAATTAGGCAGCTTTTGAAAAGAA 59.128 33.333 20.91 5.85 39.48 2.52
2910 3616 8.819974 GCTTTTGAAAAGAAACAGATTCATTCA 58.180 29.630 20.91 7.27 40.93 2.57
2912 3618 9.874205 TTTTGAAAAGAAACAGATTCATTCACT 57.126 25.926 9.69 0.00 41.65 3.41
2963 3675 2.894731 TCACTCCCTTGACTGACTGAT 58.105 47.619 0.00 0.00 0.00 2.90
2991 3703 3.860641 TGCAATCGTTAGCAGATTCTCA 58.139 40.909 0.00 0.00 36.30 3.27
3036 3754 4.812626 TCTCCTTGTTACCACGAGTTTTTC 59.187 41.667 0.00 0.00 32.86 2.29
3037 3755 3.878699 TCCTTGTTACCACGAGTTTTTCC 59.121 43.478 0.00 0.00 32.86 3.13
3053 3771 0.695924 TTCCCTGCCTTGGATCGAAA 59.304 50.000 0.00 0.00 0.00 3.46
3103 3821 2.679837 TCGAATTCTTGAAGGCAGATGC 59.320 45.455 3.52 0.00 41.14 3.91
3118 3836 3.766068 AGATGCATATCTGGGTGACTG 57.234 47.619 0.00 0.00 42.04 3.51
3128 3846 4.299586 TCTGGGTGACTGCAATGATTTA 57.700 40.909 0.00 0.00 0.00 1.40
3130 3848 4.883585 TCTGGGTGACTGCAATGATTTATC 59.116 41.667 0.00 0.00 0.00 1.75
3144 3862 9.251792 GCAATGATTTATCATCTGCAAACAATA 57.748 29.630 21.50 0.00 46.22 1.90
3153 3871 7.945033 TCATCTGCAAACAATAAAAAGAACC 57.055 32.000 0.00 0.00 0.00 3.62
3175 3893 4.681978 GTCGGCGGACTTGGCAGT 62.682 66.667 16.52 0.00 40.15 4.40
3176 3894 4.680237 TCGGCGGACTTGGCAGTG 62.680 66.667 7.21 0.00 31.22 3.66
3177 3895 4.988598 CGGCGGACTTGGCAGTGT 62.989 66.667 0.00 0.00 31.22 3.55
3178 3896 3.357079 GGCGGACTTGGCAGTGTG 61.357 66.667 0.02 0.00 31.22 3.82
3179 3897 4.030452 GCGGACTTGGCAGTGTGC 62.030 66.667 0.02 2.55 44.08 4.57
3193 3911 2.353889 CAGTGTGCAGTCCATTATGCTC 59.646 50.000 0.00 0.00 42.98 4.26
3219 3937 3.254892 GGAGAACATGACGTCTTCTTCC 58.745 50.000 17.92 15.02 0.00 3.46
3221 3939 4.499183 GAGAACATGACGTCTTCTTCCAT 58.501 43.478 17.92 0.00 0.00 3.41
3225 3943 6.758886 AGAACATGACGTCTTCTTCCATATTC 59.241 38.462 17.92 5.65 0.00 1.75
3230 3948 4.688021 ACGTCTTCTTCCATATTCTGCTC 58.312 43.478 0.00 0.00 0.00 4.26
3239 3959 7.341030 TCTTCCATATTCTGCTCTGAAATGAA 58.659 34.615 0.00 0.00 0.00 2.57
3262 3982 2.680312 TCTGCTCATCAGTTAGTGGC 57.320 50.000 0.00 0.00 43.32 5.01
3264 3984 2.093816 TCTGCTCATCAGTTAGTGGCAG 60.094 50.000 8.91 8.91 44.51 4.85
3266 3986 2.038952 TGCTCATCAGTTAGTGGCAGTT 59.961 45.455 0.00 0.00 0.00 3.16
3268 3988 3.126000 GCTCATCAGTTAGTGGCAGTTTC 59.874 47.826 0.00 0.00 0.00 2.78
3270 3990 4.318332 TCATCAGTTAGTGGCAGTTTCTG 58.682 43.478 15.54 15.54 34.12 3.02
3274 3994 2.618709 AGTTAGTGGCAGTTTCTGTTGC 59.381 45.455 0.00 0.00 39.56 4.17
3283 4003 2.102578 AGTTTCTGTTGCCACAAGCTT 58.897 42.857 0.00 0.00 44.23 3.74
3286 4006 2.057137 TCTGTTGCCACAAGCTTCTT 57.943 45.000 0.00 0.00 44.23 2.52
3287 4007 1.949525 TCTGTTGCCACAAGCTTCTTC 59.050 47.619 0.00 0.00 44.23 2.87
3293 4013 1.251251 CCACAAGCTTCTTCCTTGGG 58.749 55.000 0.00 1.70 42.98 4.12
3295 4023 0.185901 ACAAGCTTCTTCCTTGGGCA 59.814 50.000 0.00 0.00 42.98 5.36
3306 4034 1.288127 CTTGGGCACAAGCTTCAGC 59.712 57.895 17.29 10.44 46.67 4.26
3307 4035 2.467946 CTTGGGCACAAGCTTCAGCG 62.468 60.000 17.29 0.00 46.67 5.18
3316 4044 3.571119 GCTTCAGCGTGTCTGCAT 58.429 55.556 0.00 0.00 42.56 3.96
3319 4047 1.737029 GCTTCAGCGTGTCTGCATCTA 60.737 52.381 0.00 0.00 42.56 1.98
3321 4049 2.284263 TCAGCGTGTCTGCATCTAAG 57.716 50.000 0.00 0.00 42.56 2.18
3322 4050 0.649475 CAGCGTGTCTGCATCTAAGC 59.351 55.000 0.00 0.00 35.78 3.09
3323 4051 0.247460 AGCGTGTCTGCATCTAAGCA 59.753 50.000 0.00 0.00 43.35 3.91
3324 4052 0.371645 GCGTGTCTGCATCTAAGCAC 59.628 55.000 0.00 0.00 40.11 4.40
3325 4053 0.642291 CGTGTCTGCATCTAAGCACG 59.358 55.000 0.00 0.00 40.11 5.34
3326 4054 1.732405 CGTGTCTGCATCTAAGCACGA 60.732 52.381 14.85 0.00 42.46 4.35
3327 4055 2.337583 GTGTCTGCATCTAAGCACGAA 58.662 47.619 0.00 0.00 40.11 3.85
3328 4056 2.932614 GTGTCTGCATCTAAGCACGAAT 59.067 45.455 0.00 0.00 40.11 3.34
3329 4057 2.931969 TGTCTGCATCTAAGCACGAATG 59.068 45.455 0.00 0.00 40.11 2.67
3349 4077 1.753930 CAATGCATGCCTGTACCTGA 58.246 50.000 16.68 0.00 0.00 3.86
3365 4098 3.818180 ACCTGATGCTGATCCATCTTTC 58.182 45.455 11.69 0.00 41.65 2.62
3366 4099 3.201487 ACCTGATGCTGATCCATCTTTCA 59.799 43.478 11.69 0.00 41.65 2.69
3367 4100 3.815962 CCTGATGCTGATCCATCTTTCAG 59.184 47.826 11.69 6.90 41.65 3.02
3369 4102 2.048444 TGCTGATCCATCTTTCAGGC 57.952 50.000 2.48 0.00 39.79 4.85
3371 4104 2.220313 GCTGATCCATCTTTCAGGCTC 58.780 52.381 2.48 0.00 39.79 4.70
3377 4110 2.015587 CCATCTTTCAGGCTCTTCAGC 58.984 52.381 0.00 0.00 46.06 4.26
3378 4111 2.355920 CCATCTTTCAGGCTCTTCAGCT 60.356 50.000 0.00 0.00 46.03 4.24
3388 4122 1.877258 GCTCTTCAGCTTGTGACTGCT 60.877 52.381 0.00 0.00 43.09 4.24
3405 4139 2.199291 GCTGATGGCACTTGTAATGC 57.801 50.000 0.00 0.00 42.62 3.56
3407 4141 2.733227 GCTGATGGCACTTGTAATGCAC 60.733 50.000 0.00 0.00 45.27 4.57
3408 4142 2.751259 CTGATGGCACTTGTAATGCACT 59.249 45.455 0.00 0.00 45.27 4.40
3411 4145 4.949238 TGATGGCACTTGTAATGCACTTAT 59.051 37.500 0.00 0.00 45.27 1.73
3414 4148 5.249420 TGGCACTTGTAATGCACTTATGTA 58.751 37.500 0.00 0.00 45.27 2.29
3415 4149 5.707764 TGGCACTTGTAATGCACTTATGTAA 59.292 36.000 0.00 0.00 45.27 2.41
3416 4150 6.128035 TGGCACTTGTAATGCACTTATGTAAG 60.128 38.462 0.00 0.00 45.27 2.34
3417 4151 5.739161 GCACTTGTAATGCACTTATGTAAGC 59.261 40.000 0.00 0.00 42.88 3.09
3420 4154 7.430211 CACTTGTAATGCACTTATGTAAGCATG 59.570 37.037 7.16 0.00 46.10 4.06
3421 4155 6.375945 TGTAATGCACTTATGTAAGCATGG 57.624 37.500 7.16 0.00 46.10 3.66
3423 4157 4.906065 ATGCACTTATGTAAGCATGGTG 57.094 40.909 0.00 0.00 45.19 4.17
3425 4159 4.331108 TGCACTTATGTAAGCATGGTGAA 58.669 39.130 0.00 6.15 39.80 3.18
3426 4160 4.155826 TGCACTTATGTAAGCATGGTGAAC 59.844 41.667 0.00 0.56 39.80 3.18
3427 4161 4.396166 GCACTTATGTAAGCATGGTGAACT 59.604 41.667 0.00 0.00 39.80 3.01
3428 4162 5.106157 GCACTTATGTAAGCATGGTGAACTT 60.106 40.000 0.00 1.49 39.80 2.66
3429 4163 6.546395 CACTTATGTAAGCATGGTGAACTTC 58.454 40.000 0.00 0.00 39.80 3.01
3430 4164 6.149308 CACTTATGTAAGCATGGTGAACTTCA 59.851 38.462 0.00 0.00 39.80 3.02
3431 4165 6.372659 ACTTATGTAAGCATGGTGAACTTCAG 59.627 38.462 0.00 2.78 36.79 3.02
3432 4166 3.411446 TGTAAGCATGGTGAACTTCAGG 58.589 45.455 0.00 0.00 0.00 3.86
3433 4167 1.915141 AAGCATGGTGAACTTCAGGG 58.085 50.000 0.00 0.00 0.00 4.45
3466 6605 9.069082 AGTACTTCGCAATCTACAAGTATCTAT 57.931 33.333 0.00 0.00 34.63 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
51 52 1.298157 CGAATCCTCCGTGCTTGCAA 61.298 55.000 0.00 0.00 0.00 4.08
66 67 2.408271 TCTTCATCTTGGCAGCGAAT 57.592 45.000 0.00 0.00 0.00 3.34
89 90 3.698040 CCAGGTTTTGATATGCTTGAGCT 59.302 43.478 4.44 0.00 42.66 4.09
195 196 2.666526 GCAGATCCGCCGATTCCC 60.667 66.667 0.00 0.00 0.00 3.97
246 247 0.679002 CATCCCTGGTGAAGTGCAGG 60.679 60.000 0.00 0.00 34.74 4.85
322 335 1.134401 CAGATAATCACCACCGCCACT 60.134 52.381 0.00 0.00 0.00 4.00
337 353 1.134580 GCTGTTGCTCTGCTCCAGATA 60.135 52.381 11.19 0.00 39.92 1.98
426 442 2.993220 GGCGTCAAAATCCAATTTCACC 59.007 45.455 0.00 0.00 0.00 4.02
449 465 1.070105 GACACTGTTACCCACGCCA 59.930 57.895 0.00 0.00 0.00 5.69
462 478 5.004448 TCGAGATTGTAACTCTCTGACACT 58.996 41.667 0.00 0.00 37.57 3.55
527 543 6.921857 CCTCATCTCAACATTGGCAATATTTC 59.078 38.462 13.23 0.00 0.00 2.17
528 544 6.684613 GCCTCATCTCAACATTGGCAATATTT 60.685 38.462 13.23 6.42 38.79 1.40
529 545 5.221382 GCCTCATCTCAACATTGGCAATATT 60.221 40.000 13.23 4.91 38.79 1.28
552 568 1.300542 GATGGACTCTGCTAGGCGC 60.301 63.158 0.00 0.00 31.76 6.53
553 569 0.461548 TTGATGGACTCTGCTAGGCG 59.538 55.000 0.00 0.00 31.76 5.52
571 587 9.797556 GTACTTTTTACCTTGAAGATTGTTGTT 57.202 29.630 0.00 0.00 0.00 2.83
579 595 7.996644 ACCAAGATGTACTTTTTACCTTGAAGA 59.003 33.333 0.00 0.00 36.61 2.87
653 669 4.097589 CGGTACAGTTAGAAGTAGGGAAGG 59.902 50.000 0.00 0.00 0.00 3.46
660 676 1.745087 CGGCCGGTACAGTTAGAAGTA 59.255 52.381 20.10 0.00 0.00 2.24
684 703 8.188799 ACTTCATGCTTTCTTGATGTGATAATG 58.811 33.333 0.00 0.00 35.16 1.90
685 704 8.188799 CACTTCATGCTTTCTTGATGTGATAAT 58.811 33.333 15.60 0.00 45.26 1.28
730 749 3.559171 GGTTCCAAGTGGATTGCAGACTA 60.559 47.826 0.00 0.00 44.98 2.59
741 766 2.133742 CTTGCAGCGGTTCCAAGTGG 62.134 60.000 13.74 0.00 33.17 4.00
848 873 6.507023 CCTTGACACTTTGCTATGAACTTTT 58.493 36.000 0.00 0.00 0.00 2.27
886 911 3.190160 GCGGCCAATGCATGCAAC 61.190 61.111 26.68 14.18 39.42 4.17
912 937 0.248866 CGGAAGTTGGTGGTTTGCAC 60.249 55.000 0.00 0.00 0.00 4.57
921 946 0.609131 CCCATTGAGCGGAAGTTGGT 60.609 55.000 0.00 0.00 0.00 3.67
934 959 2.505407 TCCTGTACACATCCTCCCATTG 59.495 50.000 0.00 0.00 0.00 2.82
955 980 2.036992 TCGCCAACTGCAAATCCAAATT 59.963 40.909 0.00 0.00 41.33 1.82
956 981 1.617850 TCGCCAACTGCAAATCCAAAT 59.382 42.857 0.00 0.00 41.33 2.32
982 1007 6.070136 AGGATCATATGAACATCTGGGATCAG 60.070 42.308 9.99 0.00 42.21 2.90
990 1015 8.267620 TGACCTTTAGGATCATATGAACATCT 57.732 34.615 9.99 7.46 38.94 2.90
1018 1043 6.414732 TCAAATCATACGAAAGGTCTTCCAT 58.585 36.000 0.00 0.00 35.89 3.41
1086 1111 5.454755 CCTCACTGTCCTTTTCCTCTTTACA 60.455 44.000 0.00 0.00 0.00 2.41
1087 1112 4.998033 CCTCACTGTCCTTTTCCTCTTTAC 59.002 45.833 0.00 0.00 0.00 2.01
1176 1204 0.179000 CAAGCTCGGCCAAGTATCCT 59.821 55.000 2.24 0.00 0.00 3.24
1234 1262 2.798283 GACAATGTTTCAGTCGTCCGAA 59.202 45.455 0.00 0.00 0.00 4.30
1235 1263 2.400399 GACAATGTTTCAGTCGTCCGA 58.600 47.619 0.00 0.00 0.00 4.55
1338 1382 2.237143 CTCAACAGAGAATGCCCCAGTA 59.763 50.000 0.00 0.00 0.00 2.74
1393 1437 1.880027 AGACCGGCTCAATTGTTCAAC 59.120 47.619 0.00 0.00 0.00 3.18
1410 1454 1.510480 GGAGCTGTGTTGCACCAGAC 61.510 60.000 10.55 0.00 42.09 3.51
1439 1483 7.683437 ATATCGATACACCTCTCAAATACGA 57.317 36.000 7.41 0.00 0.00 3.43
1440 1484 8.021396 TCAATATCGATACACCTCTCAAATACG 58.979 37.037 7.41 0.00 0.00 3.06
1454 1498 6.148480 AGGCTTCAGCAAATCAATATCGATAC 59.852 38.462 7.41 0.00 44.36 2.24
1588 1632 1.597445 GCTTTCGATCTCCGTACCTCG 60.597 57.143 0.00 0.00 39.75 4.63
1596 1640 0.813210 CAGGCAGGCTTTCGATCTCC 60.813 60.000 0.00 0.00 0.00 3.71
1686 1730 8.062065 TCAACTTCTGAGGTTTTACAACATTT 57.938 30.769 2.04 0.00 34.15 2.32
1731 1778 2.166050 TCCAATTTCGAATGCACCATGG 59.834 45.455 11.19 11.19 0.00 3.66
1761 1829 6.773976 ACCAAATGTTGTATGTCATTAGGG 57.226 37.500 0.00 0.00 36.06 3.53
1769 1837 4.700213 GCAGTCCTACCAAATGTTGTATGT 59.300 41.667 0.00 0.00 0.00 2.29
1779 1847 2.180159 GAGCCCGCAGTCCTACCAAA 62.180 60.000 0.00 0.00 0.00 3.28
1821 1889 2.612212 TGCAACTTCACGGAGAAACTTC 59.388 45.455 0.00 0.00 35.40 3.01
1822 1890 2.614057 CTGCAACTTCACGGAGAAACTT 59.386 45.455 0.00 0.00 35.40 2.66
1861 1929 1.204704 CACGAGGTAGGCACTGAATGA 59.795 52.381 0.00 0.00 41.52 2.57
1871 1939 2.557056 TGTTCTGTTCTCACGAGGTAGG 59.443 50.000 0.00 0.00 0.00 3.18
1876 1944 3.304257 CAGAGTGTTCTGTTCTCACGAG 58.696 50.000 0.00 0.00 44.74 4.18
1877 1945 3.355626 CAGAGTGTTCTGTTCTCACGA 57.644 47.619 0.00 0.00 44.74 4.35
1887 1955 2.547642 GCTCAAGTCAGCAGAGTGTTCT 60.548 50.000 0.00 0.00 39.43 3.01
1919 1987 5.713389 AGATGAACAAGATGGCTCATTTTGA 59.287 36.000 18.71 4.25 37.92 2.69
1946 2014 2.556622 TCGTCAGCATCAGTGACAAGTA 59.443 45.455 0.00 0.00 43.90 2.24
1948 2016 2.070262 TCGTCAGCATCAGTGACAAG 57.930 50.000 0.00 0.00 43.90 3.16
1954 2022 1.134877 CACCTCATCGTCAGCATCAGT 60.135 52.381 0.00 0.00 0.00 3.41
1958 2026 0.461516 CAGCACCTCATCGTCAGCAT 60.462 55.000 0.00 0.00 0.00 3.79
1959 2027 1.079612 CAGCACCTCATCGTCAGCA 60.080 57.895 0.00 0.00 0.00 4.41
1965 2036 2.125229 AGCTGCAGCACCTCATCG 60.125 61.111 38.24 0.00 45.16 3.84
2054 2126 5.302568 TGTGACCAAAAAGAGAAATGCTGAT 59.697 36.000 0.00 0.00 0.00 2.90
2069 2141 4.650972 AGGCTATTAAGGTGTGACCAAA 57.349 40.909 0.00 0.00 41.95 3.28
2103 2175 6.313411 GCTCATCAATACTGGAGAATGATAGC 59.687 42.308 0.00 0.00 0.00 2.97
2106 2178 6.183810 TGCTCATCAATACTGGAGAATGAT 57.816 37.500 0.00 0.00 0.00 2.45
2107 2179 5.619132 TGCTCATCAATACTGGAGAATGA 57.381 39.130 0.00 0.00 0.00 2.57
2132 2204 5.708230 TGTAACACAAACAGACAGGAAAAGT 59.292 36.000 0.00 0.00 0.00 2.66
2147 2219 3.769739 AGAGCAGACCATGTAACACAA 57.230 42.857 0.00 0.00 0.00 3.33
2163 2235 3.434984 CCTTCAGTAGCACAAGAAAGAGC 59.565 47.826 0.00 0.00 0.00 4.09
2165 2237 3.403038 GCCTTCAGTAGCACAAGAAAGA 58.597 45.455 0.00 0.00 0.00 2.52
2202 2274 2.817258 TGACCCTGCGTAAAAATCCAAG 59.183 45.455 0.00 0.00 0.00 3.61
2248 2320 3.192922 GTGTGTCGCGCCCCATAC 61.193 66.667 0.00 3.25 0.00 2.39
2265 2337 3.370953 CCTCTATTCCCACTTGGTTGAGG 60.371 52.174 0.00 0.00 34.07 3.86
2319 2391 2.028130 AGCTCGGGACAGTCTATGAAG 58.972 52.381 0.00 0.00 0.00 3.02
2344 2416 5.888161 GGTGTTTGATACCATCAGGAAGAAT 59.112 40.000 0.00 0.00 40.94 2.40
2427 2499 3.950395 TCATCTGAATCTCTCTTCTGCGA 59.050 43.478 0.00 0.00 0.00 5.10
2474 2547 4.943705 ACTGTAACATTCCTTATGTGGCTG 59.056 41.667 0.00 0.00 46.75 4.85
2521 2595 4.923871 CGATGTATCACCTAATCCTTTCCG 59.076 45.833 0.00 0.00 0.00 4.30
2553 2627 4.956075 AGAGGAAACATTCAAACACCTTGT 59.044 37.500 0.00 0.00 36.34 3.16
2560 2634 8.406297 ACAAAAGAGTAGAGGAAACATTCAAAC 58.594 33.333 0.00 0.00 0.00 2.93
2562 2636 7.468631 GCACAAAAGAGTAGAGGAAACATTCAA 60.469 37.037 0.00 0.00 0.00 2.69
2565 2639 5.827797 TGCACAAAAGAGTAGAGGAAACATT 59.172 36.000 0.00 0.00 0.00 2.71
2566 2640 5.376625 TGCACAAAAGAGTAGAGGAAACAT 58.623 37.500 0.00 0.00 0.00 2.71
2569 2643 5.376625 ACATGCACAAAAGAGTAGAGGAAA 58.623 37.500 0.00 0.00 0.00 3.13
2572 2646 5.120830 GTGTACATGCACAAAAGAGTAGAGG 59.879 44.000 0.00 0.00 39.07 3.69
2608 2696 9.823647 ATTCTGCTAATATATGATAAGGTTCGG 57.176 33.333 0.00 0.00 0.00 4.30
2656 2745 2.806244 AGCTCGTAACAAATTCGCACTT 59.194 40.909 0.00 0.00 0.00 3.16
2661 2750 4.383774 TCACAAGCTCGTAACAAATTCG 57.616 40.909 0.00 0.00 0.00 3.34
2706 2796 2.601804 CGACGATACACACCAACATGA 58.398 47.619 0.00 0.00 0.00 3.07
2713 2803 0.801067 GTCAGGCGACGATACACACC 60.801 60.000 0.00 0.00 31.07 4.16
2714 2804 2.650163 GTCAGGCGACGATACACAC 58.350 57.895 0.00 0.00 31.07 3.82
2726 2816 0.680280 TCTGTCCTACGGAGTCAGGC 60.680 60.000 14.39 0.00 43.93 4.85
2736 2826 2.759535 GACCCTACCAGTTCTGTCCTAC 59.240 54.545 0.00 0.00 0.00 3.18
2768 2858 4.005650 CCTGCATGATCAGTTACTTGTGT 58.994 43.478 0.09 0.00 32.32 3.72
2769 2859 4.256110 TCCTGCATGATCAGTTACTTGTG 58.744 43.478 0.09 0.00 32.32 3.33
2829 2932 9.746711 CTATGAAAGATTGAGTTAACAAAGACG 57.253 33.333 8.61 0.00 33.44 4.18
2882 3588 7.760131 TGAATCTGTTTCTTTTCAAAAGCTG 57.240 32.000 4.87 0.00 35.23 4.24
2919 3625 9.745018 TGAAGGAATCTCTTTCTGTTCATAATT 57.255 29.630 1.00 0.00 34.81 1.40
2920 3626 9.171877 GTGAAGGAATCTCTTTCTGTTCATAAT 57.828 33.333 1.00 0.00 38.43 1.28
2927 3639 4.019771 GGGAGTGAAGGAATCTCTTTCTGT 60.020 45.833 1.00 0.00 34.09 3.41
2963 3675 5.369685 TCTGCTAACGATTGCAAATTCAA 57.630 34.783 1.71 0.00 38.81 2.69
2976 3688 4.237724 TGACAGTTGAGAATCTGCTAACG 58.762 43.478 0.00 0.00 35.37 3.18
2977 3689 4.629200 CCTGACAGTTGAGAATCTGCTAAC 59.371 45.833 0.93 0.00 35.37 2.34
2981 3693 1.736681 GCCTGACAGTTGAGAATCTGC 59.263 52.381 0.93 0.00 35.37 4.26
2991 3703 0.471617 ACTGAGCTTGCCTGACAGTT 59.528 50.000 0.93 0.00 38.41 3.16
3036 3754 1.406539 CATTTTCGATCCAAGGCAGGG 59.593 52.381 0.00 0.00 0.00 4.45
3037 3755 1.406539 CCATTTTCGATCCAAGGCAGG 59.593 52.381 0.00 0.00 0.00 4.85
3053 3771 3.019564 GCTGACCTTCTTACATGCCATT 58.980 45.455 0.00 0.00 0.00 3.16
3103 3821 3.812262 TCATTGCAGTCACCCAGATATG 58.188 45.455 0.00 0.00 0.00 1.78
3110 3828 5.533903 AGATGATAAATCATTGCAGTCACCC 59.466 40.000 6.89 0.00 46.84 4.61
3111 3829 6.436261 CAGATGATAAATCATTGCAGTCACC 58.564 40.000 6.89 0.00 46.84 4.02
3118 3836 7.528481 TTGTTTGCAGATGATAAATCATTGC 57.472 32.000 20.87 20.87 46.84 3.56
3128 3846 7.329226 CGGTTCTTTTTATTGTTTGCAGATGAT 59.671 33.333 0.00 0.00 0.00 2.45
3130 3848 6.420604 ACGGTTCTTTTTATTGTTTGCAGATG 59.579 34.615 0.00 0.00 0.00 2.90
3171 3889 1.202222 GCATAATGGACTGCACACTGC 60.202 52.381 0.00 0.00 45.29 4.40
3172 3890 2.353889 GAGCATAATGGACTGCACACTG 59.646 50.000 0.00 0.00 40.88 3.66
3173 3891 2.026915 TGAGCATAATGGACTGCACACT 60.027 45.455 0.00 0.00 40.88 3.55
3174 3892 2.358957 TGAGCATAATGGACTGCACAC 58.641 47.619 0.00 0.00 40.88 3.82
3175 3893 2.785540 TGAGCATAATGGACTGCACA 57.214 45.000 0.00 0.00 40.88 4.57
3176 3894 2.357009 CCTTGAGCATAATGGACTGCAC 59.643 50.000 0.00 0.00 40.88 4.57
3177 3895 2.646930 CCTTGAGCATAATGGACTGCA 58.353 47.619 0.00 0.00 40.88 4.41
3178 3896 1.952296 CCCTTGAGCATAATGGACTGC 59.048 52.381 0.00 0.00 38.69 4.40
3179 3897 2.173356 TCCCCTTGAGCATAATGGACTG 59.827 50.000 0.00 0.00 0.00 3.51
3180 3898 2.441001 CTCCCCTTGAGCATAATGGACT 59.559 50.000 0.00 0.00 33.47 3.85
3181 3899 2.439507 TCTCCCCTTGAGCATAATGGAC 59.560 50.000 0.00 0.00 41.18 4.02
3183 3901 3.217626 GTTCTCCCCTTGAGCATAATGG 58.782 50.000 0.00 0.00 41.18 3.16
3184 3902 3.889815 TGTTCTCCCCTTGAGCATAATG 58.110 45.455 0.00 0.00 41.18 1.90
3185 3903 4.166725 TCATGTTCTCCCCTTGAGCATAAT 59.833 41.667 0.00 0.00 41.18 1.28
3186 3904 3.523157 TCATGTTCTCCCCTTGAGCATAA 59.477 43.478 0.00 0.00 41.18 1.90
3187 3905 3.114606 TCATGTTCTCCCCTTGAGCATA 58.885 45.455 0.00 0.00 41.18 3.14
3188 3906 1.918262 TCATGTTCTCCCCTTGAGCAT 59.082 47.619 0.00 0.00 41.18 3.79
3189 3907 1.003580 GTCATGTTCTCCCCTTGAGCA 59.996 52.381 0.00 0.00 41.18 4.26
3193 3911 1.276421 AGACGTCATGTTCTCCCCTTG 59.724 52.381 19.50 0.00 0.00 3.61
3221 3939 8.781196 GCAGAATATTCATTTCAGAGCAGAATA 58.219 33.333 17.56 0.00 36.12 1.75
3225 3943 6.260271 TGAGCAGAATATTCATTTCAGAGCAG 59.740 38.462 17.56 0.00 0.00 4.24
3270 3990 1.322442 AGGAAGAAGCTTGTGGCAAC 58.678 50.000 2.10 0.00 44.79 4.17
3274 3994 1.251251 CCCAAGGAAGAAGCTTGTGG 58.749 55.000 2.10 0.00 0.00 4.17
3275 3995 0.600057 GCCCAAGGAAGAAGCTTGTG 59.400 55.000 2.10 0.00 0.00 3.33
3276 3996 0.185901 TGCCCAAGGAAGAAGCTTGT 59.814 50.000 2.10 0.00 0.00 3.16
3277 3997 0.600057 GTGCCCAAGGAAGAAGCTTG 59.400 55.000 2.10 0.00 0.00 4.01
3278 3998 0.185901 TGTGCCCAAGGAAGAAGCTT 59.814 50.000 0.00 0.00 0.00 3.74
3283 4003 0.185901 AAGCTTGTGCCCAAGGAAGA 59.814 50.000 11.05 0.00 46.72 2.87
3286 4006 0.538057 CTGAAGCTTGTGCCCAAGGA 60.538 55.000 11.05 0.00 46.72 3.36
3287 4007 1.962144 CTGAAGCTTGTGCCCAAGG 59.038 57.895 11.05 0.00 46.72 3.61
3306 4034 0.642291 CGTGCTTAGATGCAGACACG 59.358 55.000 10.16 10.16 44.20 4.49
3307 4035 1.996292 TCGTGCTTAGATGCAGACAC 58.004 50.000 0.00 0.00 44.20 3.67
3310 4038 1.935873 GCATTCGTGCTTAGATGCAGA 59.064 47.619 0.00 0.00 44.20 4.26
3311 4039 1.667212 TGCATTCGTGCTTAGATGCAG 59.333 47.619 12.19 0.00 44.20 4.41
3312 4040 1.736612 TGCATTCGTGCTTAGATGCA 58.263 45.000 12.19 12.19 41.91 3.96
3316 4044 2.083002 TGCATTGCATTCGTGCTTAGA 58.917 42.857 7.38 0.00 39.52 2.10
3330 4058 1.753930 TCAGGTACAGGCATGCATTG 58.246 50.000 21.36 18.82 0.00 2.82
3331 4059 2.304092 CATCAGGTACAGGCATGCATT 58.696 47.619 21.36 3.77 0.00 3.56
3332 4060 1.977056 CATCAGGTACAGGCATGCAT 58.023 50.000 21.36 10.32 0.00 3.96
3334 4062 0.465097 AGCATCAGGTACAGGCATGC 60.465 55.000 9.90 9.90 40.20 4.06
3337 4065 1.139654 GATCAGCATCAGGTACAGGCA 59.860 52.381 0.00 0.00 0.00 4.75
3339 4067 1.764723 TGGATCAGCATCAGGTACAGG 59.235 52.381 0.00 0.00 0.00 4.00
3340 4068 3.324268 AGATGGATCAGCATCAGGTACAG 59.676 47.826 12.67 0.00 0.00 2.74
3343 4071 4.409901 TGAAAGATGGATCAGCATCAGGTA 59.590 41.667 12.67 0.00 0.00 3.08
3344 4072 3.201487 TGAAAGATGGATCAGCATCAGGT 59.799 43.478 12.67 0.32 0.00 4.00
3345 4073 3.815962 CTGAAAGATGGATCAGCATCAGG 59.184 47.826 12.67 0.00 36.92 3.86
3346 4074 3.815962 CCTGAAAGATGGATCAGCATCAG 59.184 47.826 12.67 9.12 41.36 2.90
3347 4075 3.816994 CCTGAAAGATGGATCAGCATCA 58.183 45.455 12.67 1.31 41.36 3.07
3349 4077 2.175069 AGCCTGAAAGATGGATCAGCAT 59.825 45.455 0.00 0.00 41.36 3.79
3369 4102 2.166821 AGCAGTCACAAGCTGAAGAG 57.833 50.000 0.00 0.00 40.13 2.85
3388 4122 2.794103 AGTGCATTACAAGTGCCATCA 58.206 42.857 0.00 0.00 41.83 3.07
3390 4124 4.706476 ACATAAGTGCATTACAAGTGCCAT 59.294 37.500 0.00 0.00 41.83 4.40
3404 4138 4.396166 AGTTCACCATGCTTACATAAGTGC 59.604 41.667 0.83 0.00 38.61 4.40
3405 4139 6.149308 TGAAGTTCACCATGCTTACATAAGTG 59.851 38.462 0.08 0.00 39.44 3.16
3407 4141 6.183360 CCTGAAGTTCACCATGCTTACATAAG 60.183 42.308 0.08 0.00 33.67 1.73
3408 4142 5.647658 CCTGAAGTTCACCATGCTTACATAA 59.352 40.000 0.08 0.00 33.67 1.90
3411 4145 3.411446 CCTGAAGTTCACCATGCTTACA 58.589 45.455 0.08 0.00 0.00 2.41
3414 4148 1.548582 CCCCTGAAGTTCACCATGCTT 60.549 52.381 0.08 0.00 0.00 3.91
3415 4149 0.038744 CCCCTGAAGTTCACCATGCT 59.961 55.000 0.08 0.00 0.00 3.79
3416 4150 0.251341 ACCCCTGAAGTTCACCATGC 60.251 55.000 0.08 0.00 0.00 4.06
3417 4151 3.433306 TTACCCCTGAAGTTCACCATG 57.567 47.619 0.08 0.00 0.00 3.66
3420 4154 3.009143 ACTGATTACCCCTGAAGTTCACC 59.991 47.826 0.08 0.00 0.00 4.02
3421 4155 4.287766 ACTGATTACCCCTGAAGTTCAC 57.712 45.455 0.08 0.00 0.00 3.18
3423 4157 5.678955 AGTACTGATTACCCCTGAAGTTC 57.321 43.478 0.00 0.00 0.00 3.01
3425 4159 4.159879 CGAAGTACTGATTACCCCTGAAGT 59.840 45.833 0.00 0.00 0.00 3.01
3426 4160 4.683832 CGAAGTACTGATTACCCCTGAAG 58.316 47.826 0.00 0.00 0.00 3.02
3427 4161 3.118884 GCGAAGTACTGATTACCCCTGAA 60.119 47.826 0.00 0.00 0.00 3.02
3428 4162 2.429610 GCGAAGTACTGATTACCCCTGA 59.570 50.000 0.00 0.00 0.00 3.86
3429 4163 2.167693 TGCGAAGTACTGATTACCCCTG 59.832 50.000 0.00 0.00 0.00 4.45
3430 4164 2.463752 TGCGAAGTACTGATTACCCCT 58.536 47.619 0.00 0.00 0.00 4.79
3431 4165 2.973694 TGCGAAGTACTGATTACCCC 57.026 50.000 0.00 0.00 0.00 4.95
3432 4166 4.694339 AGATTGCGAAGTACTGATTACCC 58.306 43.478 0.00 0.00 0.00 3.69
3433 4167 6.270815 TGTAGATTGCGAAGTACTGATTACC 58.729 40.000 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.