Multiple sequence alignment - TraesCS2B01G429900

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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 TraesCS2B01G429900 chr2B 100.000 3446 0 0 1 3446 617529418 617525973 0.000000e+00 6364.0
1 TraesCS2B01G429900 chr2B 94.881 293 15 0 3136 3428 137050115 137049823 3.130000e-125 459.0
2 TraesCS2B01G429900 chr2B 94.539 293 16 0 3136 3428 137648701 137648409 1.460000e-123 453.0
3 TraesCS2B01G429900 chr2B 87.339 387 38 8 2606 2986 594061282 594061663 1.900000e-117 433.0
4 TraesCS2B01G429900 chr2B 79.882 338 59 7 1249 1580 617141906 617142240 4.440000e-59 239.0
5 TraesCS2B01G429900 chr2B 79.487 117 20 4 1719 1833 726226407 726226521 2.850000e-11 80.5
6 TraesCS2B01G429900 chr2B 81.319 91 14 3 150 238 198661458 198661369 1.720000e-08 71.3
7 TraesCS2B01G429900 chr2B 97.561 41 1 0 2192 2232 203903234 203903194 1.720000e-08 71.3
8 TraesCS2B01G429900 chr2A 95.942 2612 100 5 1 2607 668925589 668928199 0.000000e+00 4231.0
9 TraesCS2B01G429900 chr2A 97.300 1778 47 1 831 2607 669106008 669104231 0.000000e+00 3016.0
10 TraesCS2B01G429900 chr2A 92.885 773 50 4 1 769 669106899 669106128 0.000000e+00 1118.0
11 TraesCS2B01G429900 chr2A 81.277 689 106 8 820 1485 668920488 668921176 1.410000e-148 536.0
12 TraesCS2B01G429900 chr2A 80.599 701 113 8 820 1497 669112002 669111302 1.420000e-143 520.0
13 TraesCS2B01G429900 chr2A 88.235 272 28 3 2985 3255 773800252 773800520 4.290000e-84 322.0
14 TraesCS2B01G429900 chr2A 79.337 392 36 22 415 792 668919454 668919814 2.070000e-57 233.0
15 TraesCS2B01G429900 chr2A 78.412 403 42 22 415 803 669113036 669112665 1.610000e-53 220.0
16 TraesCS2B01G429900 chr2A 78.614 332 62 8 1254 1580 669109761 669109434 9.690000e-51 211.0
17 TraesCS2B01G429900 chr2A 78.235 340 62 10 1249 1580 668530943 668530608 1.250000e-49 207.0
18 TraesCS2B01G429900 chr2A 77.151 372 68 15 1220 1580 668922691 668923056 2.100000e-47 200.0
19 TraesCS2B01G429900 chr2A 87.805 164 16 3 267 426 669113253 669113090 4.540000e-44 189.0
20 TraesCS2B01G429900 chr2A 85.833 120 11 4 162 280 669114007 669113893 4.670000e-24 122.0
21 TraesCS2B01G429900 chr2A 85.000 120 12 4 162 280 668918483 668918597 2.170000e-22 117.0
22 TraesCS2B01G429900 chr2A 97.143 35 0 1 3413 3446 668928198 668928232 1.340000e-04 58.4
23 TraesCS2B01G429900 chr2A 97.143 35 0 1 3413 3446 669104232 669104198 1.340000e-04 58.4
24 TraesCS2B01G429900 chr2D 96.182 2567 87 6 50 2607 523311109 523308545 0.000000e+00 4187.0
25 TraesCS2B01G429900 chr2D 80.544 699 95 21 820 1497 523361094 523360416 1.850000e-137 499.0
26 TraesCS2B01G429900 chr2D 89.802 353 31 5 162 513 523393549 523393201 6.780000e-122 448.0
27 TraesCS2B01G429900 chr2D 92.442 172 13 0 1 172 523393770 523393599 2.660000e-61 246.0
28 TraesCS2B01G429900 chr2D 79.518 332 59 8 1254 1580 523358875 523358548 9.620000e-56 228.0
29 TraesCS2B01G429900 chr2D 77.286 339 67 9 1249 1580 523161953 523162288 1.260000e-44 191.0
30 TraesCS2B01G429900 chr2D 95.604 91 4 0 705 795 523361480 523361390 2.770000e-31 147.0
31 TraesCS2B01G429900 chr2D 98.077 52 1 0 1 52 523312450 523312399 1.320000e-14 91.6
32 TraesCS2B01G429900 chr2D 89.855 69 5 2 308 376 523393095 523393029 1.700000e-13 87.9
33 TraesCS2B01G429900 chr2D 100.000 34 0 0 3413 3446 523308546 523308513 2.870000e-06 63.9
34 TraesCS2B01G429900 chr5B 90.457 503 37 7 2646 3140 600722202 600722701 0.000000e+00 652.0
35 TraesCS2B01G429900 chr5B 95.987 299 8 3 2692 2986 563347724 563347426 1.860000e-132 483.0
36 TraesCS2B01G429900 chr3B 90.275 473 40 4 2611 3077 422317356 422316884 6.320000e-172 614.0
37 TraesCS2B01G429900 chr3B 96.786 280 9 0 3136 3415 654254622 654254343 5.210000e-128 468.0
38 TraesCS2B01G429900 chr3D 84.892 556 52 16 2611 3140 40258421 40257872 1.820000e-147 532.0
39 TraesCS2B01G429900 chr1B 95.593 295 12 1 2695 2988 273739417 273739711 4.030000e-129 472.0
40 TraesCS2B01G429900 chr1B 87.500 384 37 8 2609 2986 496876137 496875759 1.900000e-117 433.0
41 TraesCS2B01G429900 chr1B 98.718 156 2 0 2985 3140 142886984 142887139 9.420000e-71 278.0
42 TraesCS2B01G429900 chr6D 96.466 283 10 0 3136 3418 444200201 444199919 5.210000e-128 468.0
43 TraesCS2B01G429900 chr6D 96.113 283 11 0 3136 3418 44667182 44666900 2.420000e-126 462.0
44 TraesCS2B01G429900 chr6D 96.429 280 10 0 3136 3415 99599141 99599420 2.420000e-126 462.0
45 TraesCS2B01G429900 chr6D 96.429 280 10 0 3136 3415 429516672 429516951 2.420000e-126 462.0
46 TraesCS2B01G429900 chr4B 95.286 297 9 4 2694 2986 401129590 401129885 1.870000e-127 466.0
47 TraesCS2B01G429900 chr1D 95.548 292 11 2 3127 3418 171768544 171768255 1.870000e-127 466.0
48 TraesCS2B01G429900 chr5D 93.709 302 15 3 3123 3421 432046553 432046253 1.890000e-122 449.0
49 TraesCS2B01G429900 chr5D 90.598 117 9 1 2608 2722 129507285 129507169 1.660000e-33 154.0
50 TraesCS2B01G429900 chr6B 87.173 382 39 8 2609 2986 120475039 120474664 3.180000e-115 425.0
51 TraesCS2B01G429900 chr6B 89.600 125 8 2 2608 2727 571739396 571739520 1.660000e-33 154.0
52 TraesCS2B01G429900 chr7D 85.511 352 45 6 2695 3041 457224883 457224533 2.530000e-96 363.0
53 TraesCS2B01G429900 chr7D 98.077 156 3 0 2985 3140 133333136 133332981 4.380000e-69 272.0
54 TraesCS2B01G429900 chr7B 85.756 344 30 11 2695 3031 567210705 567211036 2.550000e-91 346.0
55 TraesCS2B01G429900 chr1A 93.617 188 7 1 2958 3140 398664684 398664497 3.390000e-70 276.0
56 TraesCS2B01G429900 chr1A 85.944 249 34 1 2991 3238 576317215 576316967 7.330000e-67 265.0
57 TraesCS2B01G429900 chr1A 88.696 115 6 4 2611 2723 398664955 398664846 2.160000e-27 134.0
58 TraesCS2B01G429900 chr7A 81.602 337 43 18 2695 3019 661841335 661841664 9.490000e-66 261.0
59 TraesCS2B01G429900 chr4D 84.615 247 33 3 2985 3226 77910942 77911188 1.240000e-59 241.0


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 TraesCS2B01G429900 chr2B 617525973 617529418 3445 True 6364.000000 6364 100.000000 1 3446 1 chr2B.!!$R5 3445
1 TraesCS2B01G429900 chr2A 668918483 668928232 9749 False 895.900000 4231 85.975000 1 3446 6 chr2A.!!$F2 3445
2 TraesCS2B01G429900 chr2A 669104198 669114007 9809 True 681.800000 3016 87.323875 1 3446 8 chr2A.!!$R2 3445
3 TraesCS2B01G429900 chr2D 523308513 523312450 3937 True 1447.500000 4187 98.086333 1 3446 3 chr2D.!!$R1 3445
4 TraesCS2B01G429900 chr2D 523358548 523361480 2932 True 291.333333 499 85.222000 705 1580 3 chr2D.!!$R2 875
5 TraesCS2B01G429900 chr2D 523393029 523393770 741 True 260.633333 448 90.699667 1 513 3 chr2D.!!$R3 512
6 TraesCS2B01G429900 chr3D 40257872 40258421 549 True 532.000000 532 84.892000 2611 3140 1 chr3D.!!$R1 529

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
533 9029 0.538287 GTTTGCTGGCTCCCTCTTGT 60.538 55.0 0.00 0.00 0.00 3.16 F
2134 10953 0.601057 TGTTGGCGACAGATCTTCGA 59.399 50.0 22.89 7.61 44.54 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2376 11195 0.593128 CAAGAAGGGACCAAGCAACG 59.407 55.0 0.00 0.0 0.00 4.10 R
3353 12198 0.109597 CTTGGGACTCGCAAACATGC 60.110 55.0 9.59 0.0 35.96 4.06 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
34 7144 3.702045 CCTTATCCTGAACTCTTCGGTCT 59.298 47.826 0.00 0.00 34.15 3.85
67 8470 1.287815 CCACTCTTCGGTGTACGCA 59.712 57.895 8.97 0.00 43.86 5.24
103 8506 1.841302 CTTCAGCCCACTAGCCACCA 61.841 60.000 0.00 0.00 0.00 4.17
111 8514 3.688414 GCCCACTAGCCACCAAAGATTAT 60.688 47.826 0.00 0.00 0.00 1.28
116 8519 5.888161 CACTAGCCACCAAAGATTATCCTTT 59.112 40.000 0.00 0.00 36.87 3.11
138 8541 0.686789 CCCAGATCGGCATGTATCCA 59.313 55.000 0.00 0.00 0.00 3.41
176 8639 3.031417 GCCCTCTTCGGCCTAAGCA 62.031 63.158 12.14 1.22 43.66 3.91
200 8663 2.892852 GCTGGCAGGGCATATATTTGAA 59.107 45.455 17.64 0.00 0.00 2.69
310 8774 3.604875 ACACTCCTTTATACACACCCG 57.395 47.619 0.00 0.00 0.00 5.28
375 8839 3.006940 TGTCATGCATTAAACGACCTCC 58.993 45.455 10.59 0.00 0.00 4.30
381 8845 3.055458 TGCATTAAACGACCTCCTGATGA 60.055 43.478 0.00 0.00 0.00 2.92
390 8854 3.133003 CGACCTCCTGATGAAATGTAGGT 59.867 47.826 0.00 0.00 38.55 3.08
434 8903 6.875972 TTTTGCTTATATTTAAAGGGCCCA 57.124 33.333 27.56 1.75 0.00 5.36
467 8937 7.219917 CCGAACAACGAATGCAAATACAAATAT 59.780 33.333 0.00 0.00 45.77 1.28
533 9029 0.538287 GTTTGCTGGCTCCCTCTTGT 60.538 55.000 0.00 0.00 0.00 3.16
596 9097 2.123425 CTCTACTGGGCCGGGCTA 60.123 66.667 28.80 22.13 0.00 3.93
604 9105 2.444256 GGGCCGGGCTAAGACAGAT 61.444 63.158 28.80 0.00 0.00 2.90
792 9295 2.124695 GCGGAGGCGAAGGGAAAT 60.125 61.111 0.00 0.00 0.00 2.17
801 9345 0.750850 CGAAGGGAAATAGAGGCGGA 59.249 55.000 0.00 0.00 0.00 5.54
979 9753 1.901833 GGGATGAGGTGGCAAAATTGT 59.098 47.619 0.00 0.00 0.00 2.71
1051 9825 3.293311 TTAATATCTACTGTCGCGCCC 57.707 47.619 0.00 0.00 0.00 6.13
1112 9886 5.617751 GCAAAGATGCGAGTGAGTAAACATT 60.618 40.000 0.00 0.00 43.83 2.71
1295 10095 3.540617 TGCACTTCACACACAGTACAAT 58.459 40.909 0.00 0.00 0.00 2.71
1358 10158 9.851686 TCTGCAAATATACTCCATTAAAGTCAT 57.148 29.630 0.00 0.00 0.00 3.06
1371 10171 9.640952 TCCATTAAAGTCATAGAAATAAAGGGG 57.359 33.333 0.00 0.00 0.00 4.79
1476 10278 1.522668 TGCGTCAAAGGAATGACTGG 58.477 50.000 5.96 0.00 45.98 4.00
1487 10289 3.776969 AGGAATGACTGGCAGATACTCAA 59.223 43.478 23.66 0.00 0.00 3.02
1532 10334 7.411486 TTTTCTGTTTTATGTTTCTGGTCCA 57.589 32.000 0.00 0.00 0.00 4.02
1661 10464 2.631160 TCTCCTGAAAAACTTCCGCA 57.369 45.000 0.00 0.00 0.00 5.69
1811 10623 7.232534 TGACATTAAACTCAAAGTAAAGGGCAT 59.767 33.333 0.00 0.00 0.00 4.40
1892 10704 3.118261 GCCATTCTGTTGGATGACTCCTA 60.118 47.826 4.03 0.00 42.59 2.94
2110 10929 6.833933 AGATGGTTACTTTGAAGGTGAAGTTT 59.166 34.615 0.00 0.00 37.32 2.66
2111 10930 6.844097 TGGTTACTTTGAAGGTGAAGTTTT 57.156 33.333 0.00 0.00 37.32 2.43
2134 10953 0.601057 TGTTGGCGACAGATCTTCGA 59.399 50.000 22.89 7.61 44.54 3.71
2261 11080 3.525537 GAAAGCTCGAAGTCATCATCCA 58.474 45.455 0.00 0.00 0.00 3.41
2339 11158 3.756434 CAGGAAAGCAAAATAAGTCGGGA 59.244 43.478 0.00 0.00 0.00 5.14
2448 11267 4.383552 GGATGTATGGATGATGACTAGGCC 60.384 50.000 0.00 0.00 0.00 5.19
2601 11420 6.996509 TGTCTACTACACCCTTCGTTTTTAT 58.003 36.000 0.00 0.00 31.43 1.40
2626 11445 2.119495 ACTAAGGCTGGTCATAGTGGG 58.881 52.381 0.00 0.00 0.00 4.61
2644 11465 9.273016 CATAGTGGGGAGTAACTTATAAATGTG 57.727 37.037 0.00 0.00 0.00 3.21
2673 11494 9.881529 GCATATGACACTAGTCTAAGTTACTAC 57.118 37.037 6.97 0.00 45.20 2.73
2690 11511 9.938280 AAGTTACTACATTCATAGTGCAAAGTA 57.062 29.630 0.00 0.00 36.09 2.24
2722 11549 3.693807 TCCGTCTAGGTGTGTAAGTCAT 58.306 45.455 0.00 0.00 41.99 3.06
2728 11555 8.965480 CCGTCTAGGTGTGTAAGTCATCTTACA 61.965 44.444 14.25 14.25 46.55 2.41
2762 11590 2.422127 CCCAAAATACTAAGGCACGGTG 59.578 50.000 3.15 3.15 0.00 4.94
2771 11599 1.616159 AAGGCACGGTGCATTAACTT 58.384 45.000 28.94 20.49 46.19 2.66
2773 11601 2.814097 AAGGCACGGTGCATTAACTTCT 60.814 45.455 28.94 13.90 46.19 2.85
2790 11618 5.736486 ACTTCTTCCTCGTTTCTTGTTTC 57.264 39.130 0.00 0.00 0.00 2.78
2791 11619 5.429130 ACTTCTTCCTCGTTTCTTGTTTCT 58.571 37.500 0.00 0.00 0.00 2.52
2793 11621 5.986004 TCTTCCTCGTTTCTTGTTTCTTC 57.014 39.130 0.00 0.00 0.00 2.87
2814 11642 8.948631 TCTTCACATATCAACCAATAAGAGAC 57.051 34.615 0.00 0.00 0.00 3.36
2815 11643 8.539544 TCTTCACATATCAACCAATAAGAGACA 58.460 33.333 0.00 0.00 0.00 3.41
2816 11644 9.166173 CTTCACATATCAACCAATAAGAGACAA 57.834 33.333 0.00 0.00 0.00 3.18
2820 11648 4.301072 TCAACCAATAAGAGACAAGGGG 57.699 45.455 0.00 0.00 0.00 4.79
2821 11649 3.655777 TCAACCAATAAGAGACAAGGGGT 59.344 43.478 0.00 0.00 0.00 4.95
2856 11684 5.758296 TCAATGACTTGAGACTACCAAACAC 59.242 40.000 0.00 0.00 36.46 3.32
2865 11693 2.143122 ACTACCAAACACGACATGCAG 58.857 47.619 0.00 0.00 0.00 4.41
2875 11703 2.157668 CACGACATGCAGTGGTTAGTTC 59.842 50.000 11.93 0.00 37.03 3.01
2879 11707 4.669965 CGACATGCAGTGGTTAGTTCATTG 60.670 45.833 0.00 0.00 0.00 2.82
2929 11757 6.148811 TGAACATTAATGTCTCTCGTTTTCCC 59.851 38.462 21.02 0.00 40.80 3.97
2933 11761 2.011122 TGTCTCTCGTTTTCCCCTCT 57.989 50.000 0.00 0.00 0.00 3.69
2940 11771 1.491332 TCGTTTTCCCCTCTTTGGTCA 59.509 47.619 0.00 0.00 0.00 4.02
2952 11783 1.658686 TTTGGTCACGGTGCACAACC 61.659 55.000 20.43 18.91 46.60 3.77
2965 11796 5.001232 GGTGCACAACCTAAGATGACTTAA 58.999 41.667 20.43 0.00 46.55 1.85
2966 11797 5.648092 GGTGCACAACCTAAGATGACTTAAT 59.352 40.000 20.43 0.00 46.55 1.40
2977 11808 7.228906 CCTAAGATGACTTAATCACCTAGACGA 59.771 40.741 0.00 0.00 41.24 4.20
2988 11819 3.776969 TCACCTAGACGAAGGGAGTAGTA 59.223 47.826 7.86 0.00 41.32 1.82
2989 11820 4.128643 CACCTAGACGAAGGGAGTAGTAG 58.871 52.174 7.86 0.00 41.32 2.57
2990 11821 3.779738 ACCTAGACGAAGGGAGTAGTAGT 59.220 47.826 7.86 0.00 41.32 2.73
2991 11822 4.965532 ACCTAGACGAAGGGAGTAGTAGTA 59.034 45.833 7.86 0.00 41.32 1.82
2992 11823 5.070313 ACCTAGACGAAGGGAGTAGTAGTAG 59.930 48.000 7.86 0.00 41.32 2.57
2993 11824 5.070313 CCTAGACGAAGGGAGTAGTAGTAGT 59.930 48.000 0.00 0.00 32.55 2.73
3002 11833 7.069877 AGGGAGTAGTAGTAGTGTCATAGAG 57.930 44.000 0.00 0.00 0.00 2.43
3003 11834 6.043474 AGGGAGTAGTAGTAGTGTCATAGAGG 59.957 46.154 0.00 0.00 0.00 3.69
3094 11939 8.372459 TGTTACCACTTCTCATTAACTACATGT 58.628 33.333 2.69 2.69 0.00 3.21
3103 11948 8.648557 TCTCATTAACTACATGTCACATAAGC 57.351 34.615 0.00 0.00 0.00 3.09
3106 11951 8.664798 TCATTAACTACATGTCACATAAGCAAC 58.335 33.333 0.00 0.00 0.00 4.17
3114 11959 7.086376 ACATGTCACATAAGCAACAATTTCTC 58.914 34.615 0.00 0.00 0.00 2.87
3116 11961 5.088739 GTCACATAAGCAACAATTTCTCGG 58.911 41.667 0.00 0.00 0.00 4.63
3118 11963 5.122239 TCACATAAGCAACAATTTCTCGGAG 59.878 40.000 0.00 0.00 0.00 4.63
3133 11978 1.475280 TCGGAGTGCGCTATGTTACTT 59.525 47.619 9.73 0.00 0.00 2.24
3134 11979 1.588404 CGGAGTGCGCTATGTTACTTG 59.412 52.381 9.73 0.00 0.00 3.16
3140 11985 3.001330 GTGCGCTATGTTACTTGCTAAGG 59.999 47.826 9.73 0.00 0.00 2.69
3141 11986 2.032808 GCGCTATGTTACTTGCTAAGGC 60.033 50.000 0.00 0.00 39.26 4.35
3142 11987 3.458189 CGCTATGTTACTTGCTAAGGCT 58.542 45.455 0.00 0.00 39.59 4.58
3143 11988 3.246226 CGCTATGTTACTTGCTAAGGCTG 59.754 47.826 0.00 0.00 39.59 4.85
3144 11989 3.561725 GCTATGTTACTTGCTAAGGCTGG 59.438 47.826 0.00 0.00 39.59 4.85
3145 11990 3.721087 ATGTTACTTGCTAAGGCTGGT 57.279 42.857 0.00 0.00 39.59 4.00
3146 11991 3.053831 TGTTACTTGCTAAGGCTGGTC 57.946 47.619 0.00 0.00 39.59 4.02
3147 11992 2.370519 TGTTACTTGCTAAGGCTGGTCA 59.629 45.455 0.00 0.00 39.59 4.02
3148 11993 3.009033 TGTTACTTGCTAAGGCTGGTCAT 59.991 43.478 0.00 0.00 39.59 3.06
3150 11995 3.550437 ACTTGCTAAGGCTGGTCATAG 57.450 47.619 0.00 0.00 39.59 2.23
3151 11996 2.840651 ACTTGCTAAGGCTGGTCATAGT 59.159 45.455 0.00 0.00 39.59 2.12
3153 11998 1.486310 TGCTAAGGCTGGTCATAGTGG 59.514 52.381 0.00 0.00 39.59 4.00
3155 12000 1.417890 CTAAGGCTGGTCATAGTGGGG 59.582 57.143 0.00 0.00 0.00 4.96
3158 12003 0.983378 GGCTGGTCATAGTGGGGAGT 60.983 60.000 0.00 0.00 0.00 3.85
3160 12005 2.116238 GCTGGTCATAGTGGGGAGTAA 58.884 52.381 0.00 0.00 0.00 2.24
3161 12006 2.158943 GCTGGTCATAGTGGGGAGTAAC 60.159 54.545 0.00 0.00 0.00 2.50
3162 12007 3.375699 CTGGTCATAGTGGGGAGTAACT 58.624 50.000 0.00 0.00 0.00 2.24
3163 12008 3.775316 CTGGTCATAGTGGGGAGTAACTT 59.225 47.826 0.00 0.00 0.00 2.66
3164 12009 4.950361 TGGTCATAGTGGGGAGTAACTTA 58.050 43.478 0.00 0.00 0.00 2.24
3165 12010 4.960469 TGGTCATAGTGGGGAGTAACTTAG 59.040 45.833 0.00 0.00 0.00 2.18
3166 12011 5.206587 GGTCATAGTGGGGAGTAACTTAGA 58.793 45.833 0.00 0.00 0.00 2.10
3167 12012 5.068855 GGTCATAGTGGGGAGTAACTTAGAC 59.931 48.000 0.00 0.00 32.58 2.59
3169 12014 7.059156 GTCATAGTGGGGAGTAACTTAGACTA 58.941 42.308 0.00 0.00 31.58 2.59
3170 12015 7.229106 GTCATAGTGGGGAGTAACTTAGACTAG 59.771 44.444 0.00 0.00 31.58 2.57
3172 12017 6.649041 AGTGGGGAGTAACTTAGACTAGTA 57.351 41.667 0.00 0.00 0.00 1.82
3173 12018 7.037342 AGTGGGGAGTAACTTAGACTAGTAA 57.963 40.000 0.00 0.00 0.00 2.24
3174 12019 6.889177 AGTGGGGAGTAACTTAGACTAGTAAC 59.111 42.308 0.00 0.00 0.00 2.50
3175 12020 6.660949 GTGGGGAGTAACTTAGACTAGTAACA 59.339 42.308 0.00 0.00 0.00 2.41
3176 12021 7.341512 GTGGGGAGTAACTTAGACTAGTAACAT 59.658 40.741 0.00 0.00 0.00 2.71
3177 12022 7.341256 TGGGGAGTAACTTAGACTAGTAACATG 59.659 40.741 0.00 0.00 0.00 3.21
3178 12023 7.201835 GGGAGTAACTTAGACTAGTAACATGC 58.798 42.308 0.00 0.00 0.00 4.06
3179 12024 7.147949 GGGAGTAACTTAGACTAGTAACATGCA 60.148 40.741 0.00 0.00 0.00 3.96
3180 12025 8.414778 GGAGTAACTTAGACTAGTAACATGCAT 58.585 37.037 0.00 0.00 0.00 3.96
3215 12060 9.809395 AGTCTATGTTATTACCTCTATAGTGCA 57.191 33.333 0.00 0.00 0.00 4.57
3247 12092 9.688091 TCATAGATTAGTATCATAGGTGGTCTC 57.312 37.037 0.00 0.00 32.95 3.36
3250 12095 8.964533 AGATTAGTATCATAGGTGGTCTCATT 57.035 34.615 0.00 0.00 32.95 2.57
3251 12096 9.386122 AGATTAGTATCATAGGTGGTCTCATTT 57.614 33.333 0.00 0.00 32.95 2.32
3256 12101 7.880195 AGTATCATAGGTGGTCTCATTTATTGC 59.120 37.037 0.00 0.00 0.00 3.56
3259 12104 4.255510 AGGTGGTCTCATTTATTGCCAT 57.744 40.909 0.00 0.00 0.00 4.40
3262 12107 3.130869 GTGGTCTCATTTATTGCCATGCA 59.869 43.478 0.00 0.00 36.47 3.96
3264 12109 5.009911 GTGGTCTCATTTATTGCCATGCATA 59.990 40.000 0.00 0.00 38.76 3.14
3265 12110 5.597594 TGGTCTCATTTATTGCCATGCATAA 59.402 36.000 0.00 0.00 38.76 1.90
3266 12111 5.922544 GGTCTCATTTATTGCCATGCATAAC 59.077 40.000 0.00 0.00 38.76 1.89
3267 12112 6.461370 GGTCTCATTTATTGCCATGCATAACA 60.461 38.462 0.00 0.00 38.76 2.41
3268 12113 6.418819 GTCTCATTTATTGCCATGCATAACAC 59.581 38.462 0.00 0.00 38.76 3.32
3270 12115 6.818233 TCATTTATTGCCATGCATAACACAT 58.182 32.000 0.00 0.86 38.76 3.21
3271 12116 7.949434 TCATTTATTGCCATGCATAACACATA 58.051 30.769 0.00 0.00 38.76 2.29
3272 12117 8.083462 TCATTTATTGCCATGCATAACACATAG 58.917 33.333 0.00 0.00 38.76 2.23
3273 12118 6.957920 TTATTGCCATGCATAACACATAGT 57.042 33.333 0.00 0.00 38.76 2.12
3274 12119 8.457238 TTTATTGCCATGCATAACACATAGTA 57.543 30.769 0.00 0.00 38.76 1.82
3275 12120 6.564709 ATTGCCATGCATAACACATAGTAG 57.435 37.500 0.00 0.00 38.76 2.57
3276 12121 3.814842 TGCCATGCATAACACATAGTAGC 59.185 43.478 0.00 0.00 31.71 3.58
3277 12122 3.814842 GCCATGCATAACACATAGTAGCA 59.185 43.478 0.00 0.00 37.15 3.49
3278 12123 4.456911 GCCATGCATAACACATAGTAGCAT 59.543 41.667 0.00 0.00 41.22 3.79
3279 12124 5.391310 GCCATGCATAACACATAGTAGCATC 60.391 44.000 0.00 0.00 39.67 3.91
3280 12125 5.702209 CCATGCATAACACATAGTAGCATCA 59.298 40.000 0.00 0.00 39.67 3.07
3281 12126 6.347969 CCATGCATAACACATAGTAGCATCAC 60.348 42.308 0.00 0.00 39.67 3.06
3283 12128 6.290605 TGCATAACACATAGTAGCATCACAT 58.709 36.000 0.00 0.00 30.77 3.21
3284 12129 6.767423 TGCATAACACATAGTAGCATCACATT 59.233 34.615 0.00 0.00 30.77 2.71
3285 12130 7.282901 TGCATAACACATAGTAGCATCACATTT 59.717 33.333 0.00 0.00 30.77 2.32
3297 12142 8.988934 AGTAGCATCACATTTATTATGTTACGG 58.011 33.333 0.00 0.00 39.53 4.02
3298 12143 7.801716 AGCATCACATTTATTATGTTACGGT 57.198 32.000 0.00 0.00 0.00 4.83
3299 12144 8.896320 AGCATCACATTTATTATGTTACGGTA 57.104 30.769 0.00 0.00 0.00 4.02
3314 12159 8.930846 ATGTTACGGTATCTACCTATGTTACT 57.069 34.615 4.93 0.00 44.25 2.24
3320 12165 9.454859 ACGGTATCTACCTATGTTACTATAACC 57.545 37.037 4.93 0.00 44.25 2.85
3321 12166 9.453572 CGGTATCTACCTATGTTACTATAACCA 57.546 37.037 4.93 0.00 44.25 3.67
3329 12174 9.523168 ACCTATGTTACTATAACCATCTCTCTC 57.477 37.037 0.00 0.00 0.00 3.20
3342 12187 8.457238 AACCATCTCTCTCTTATTTAATTGCC 57.543 34.615 0.00 0.00 0.00 4.52
3343 12188 7.810260 ACCATCTCTCTCTTATTTAATTGCCT 58.190 34.615 0.00 0.00 0.00 4.75
3344 12189 7.718753 ACCATCTCTCTCTTATTTAATTGCCTG 59.281 37.037 0.00 0.00 0.00 4.85
3345 12190 7.308469 CCATCTCTCTCTTATTTAATTGCCTGC 60.308 40.741 0.00 0.00 0.00 4.85
3346 12191 6.058183 TCTCTCTCTTATTTAATTGCCTGCC 58.942 40.000 0.00 0.00 0.00 4.85
3347 12192 5.754782 TCTCTCTTATTTAATTGCCTGCCA 58.245 37.500 0.00 0.00 0.00 4.92
3348 12193 5.590259 TCTCTCTTATTTAATTGCCTGCCAC 59.410 40.000 0.00 0.00 0.00 5.01
3349 12194 5.260424 TCTCTTATTTAATTGCCTGCCACA 58.740 37.500 0.00 0.00 0.00 4.17
3350 12195 5.893255 TCTCTTATTTAATTGCCTGCCACAT 59.107 36.000 0.00 0.00 0.00 3.21
3351 12196 7.059788 TCTCTTATTTAATTGCCTGCCACATA 58.940 34.615 0.00 0.00 0.00 2.29
3352 12197 7.559533 TCTCTTATTTAATTGCCTGCCACATAA 59.440 33.333 0.00 0.00 0.00 1.90
3353 12198 7.715657 TCTTATTTAATTGCCTGCCACATAAG 58.284 34.615 0.00 0.00 0.00 1.73
3354 12199 3.799281 TTAATTGCCTGCCACATAAGC 57.201 42.857 0.00 0.00 0.00 3.09
3355 12200 1.559368 AATTGCCTGCCACATAAGCA 58.441 45.000 0.00 0.00 38.82 3.91
3356 12201 1.784358 ATTGCCTGCCACATAAGCAT 58.216 45.000 0.00 0.00 40.04 3.79
3357 12202 0.818938 TTGCCTGCCACATAAGCATG 59.181 50.000 0.00 0.00 40.04 4.06
3358 12203 0.323633 TGCCTGCCACATAAGCATGT 60.324 50.000 0.00 0.00 46.58 3.21
3360 12205 1.205417 GCCTGCCACATAAGCATGTTT 59.795 47.619 0.00 0.00 42.98 2.83
3361 12206 2.883574 CCTGCCACATAAGCATGTTTG 58.116 47.619 4.89 0.00 42.98 2.93
3370 12215 3.667087 GCATGTTTGCGAGTCCCA 58.333 55.556 0.00 0.00 39.49 4.37
3371 12216 1.956043 GCATGTTTGCGAGTCCCAA 59.044 52.632 0.00 0.00 39.49 4.12
3372 12217 0.109597 GCATGTTTGCGAGTCCCAAG 60.110 55.000 0.00 0.00 39.49 3.61
3381 12441 0.249447 CGAGTCCCAAGCGCATGATA 60.249 55.000 15.31 0.00 0.00 2.15
3392 12452 5.466728 CCAAGCGCATGATACTACTTATGTT 59.533 40.000 15.31 0.00 0.00 2.71
3393 12453 6.645003 CCAAGCGCATGATACTACTTATGTTA 59.355 38.462 15.31 0.00 0.00 2.41
3394 12454 7.359264 CCAAGCGCATGATACTACTTATGTTAC 60.359 40.741 15.31 0.00 0.00 2.50
3396 12456 5.347907 GCGCATGATACTACTTATGTTACCC 59.652 44.000 0.30 0.00 0.00 3.69
3397 12457 6.452242 CGCATGATACTACTTATGTTACCCA 58.548 40.000 0.00 0.00 0.00 4.51
3398 12458 6.365247 CGCATGATACTACTTATGTTACCCAC 59.635 42.308 0.00 0.00 0.00 4.61
3399 12459 7.214381 GCATGATACTACTTATGTTACCCACA 58.786 38.462 0.00 0.00 40.71 4.17
3400 12460 7.170998 GCATGATACTACTTATGTTACCCACAC 59.829 40.741 0.00 0.00 38.61 3.82
3402 12462 9.650714 ATGATACTACTTATGTTACCCACACTA 57.349 33.333 0.00 0.00 38.61 2.74
3403 12463 9.650714 TGATACTACTTATGTTACCCACACTAT 57.349 33.333 0.00 0.00 38.61 2.12
3404 12464 9.909644 GATACTACTTATGTTACCCACACTATG 57.090 37.037 0.00 0.00 38.61 2.23
3405 12465 7.966339 ACTACTTATGTTACCCACACTATGA 57.034 36.000 0.00 0.00 38.61 2.15
3406 12466 7.779073 ACTACTTATGTTACCCACACTATGAC 58.221 38.462 0.00 0.00 38.61 3.06
3407 12467 6.869206 ACTTATGTTACCCACACTATGACT 57.131 37.500 0.00 0.00 38.61 3.41
3408 12468 7.966339 ACTTATGTTACCCACACTATGACTA 57.034 36.000 0.00 0.00 38.61 2.59
3409 12469 8.008513 ACTTATGTTACCCACACTATGACTAG 57.991 38.462 0.00 0.00 38.61 2.57
3411 12471 5.909621 TGTTACCCACACTATGACTAGTC 57.090 43.478 16.32 16.32 35.99 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 7144 0.107410 AGTGGTCTTCGCCAACACAA 60.107 50.000 0.00 0.00 40.68 3.33
103 8506 4.608170 TCTGGGCCAAAGGATAATCTTT 57.392 40.909 8.04 0.00 37.44 2.52
111 8514 2.998097 CCGATCTGGGCCAAAGGA 59.002 61.111 8.04 1.13 0.00 3.36
134 8537 2.606587 GGTCCTGTGTGGGCTGGAT 61.607 63.158 0.00 0.00 41.10 3.41
138 8541 1.779061 ATTTCGGTCCTGTGTGGGCT 61.779 55.000 0.00 0.00 41.10 5.19
176 8639 1.078955 ATATATGCCCTGCCAGCCTT 58.921 50.000 0.00 0.00 0.00 4.35
273 8737 5.843421 AGGAGTGTAGAGCCTATCAAATGAT 59.157 40.000 1.01 1.01 38.51 2.45
278 8742 7.783119 TGTATAAAGGAGTGTAGAGCCTATCAA 59.217 37.037 0.00 0.00 0.00 2.57
285 8749 5.349809 GGTGTGTATAAAGGAGTGTAGAGC 58.650 45.833 0.00 0.00 0.00 4.09
310 8774 5.562890 GCTTGTTTTCCTGACAATGAGTACC 60.563 44.000 0.00 0.00 36.51 3.34
375 8839 7.687941 AGTTTGGTTACCTACATTTCATCAG 57.312 36.000 2.07 0.00 0.00 2.90
381 8845 6.773685 TGCAACTAGTTTGGTTACCTACATTT 59.226 34.615 5.07 0.00 35.51 2.32
434 8903 0.320771 ATTCGTTGTTCGGCTCAGCT 60.321 50.000 0.00 0.00 40.32 4.24
467 8937 1.134848 GGCTTGTTGTTTGCCTTGTGA 60.135 47.619 0.00 0.00 43.05 3.58
521 9015 1.153549 CGTGCTACAAGAGGGAGCC 60.154 63.158 0.00 0.00 35.24 4.70
549 9050 1.669115 CACTTCCAGCCAGTCCACG 60.669 63.158 0.00 0.00 0.00 4.94
645 9148 3.695830 TGTCTTGCTTAGGGTTTCGAT 57.304 42.857 0.00 0.00 0.00 3.59
763 9266 3.764466 CTCCGCTTCCAGCTCCGT 61.764 66.667 0.00 0.00 39.60 4.69
792 9295 0.040646 TCACCTTTCCTCCGCCTCTA 59.959 55.000 0.00 0.00 0.00 2.43
801 9345 2.697751 CTCGATGATCCTCACCTTTCCT 59.302 50.000 0.00 0.00 0.00 3.36
979 9753 2.023015 TCCCCTCAGCTTCCTCAATCTA 60.023 50.000 0.00 0.00 0.00 1.98
1112 9886 6.360370 ACTAAGGTACAATGAGCAGAGAAA 57.640 37.500 0.00 0.00 0.00 2.52
1295 10095 1.220749 GCATAAGAGGTGCGGTCCA 59.779 57.895 0.00 0.00 32.29 4.02
1358 10158 5.600749 ACTCAGGAGTCCCCTTTATTTCTA 58.399 41.667 5.25 0.00 44.85 2.10
1371 10171 1.609320 GGCCACTTCAACTCAGGAGTC 60.609 57.143 0.00 0.00 41.58 3.36
1395 10197 1.447945 CAACCATGCCATACACACGA 58.552 50.000 0.00 0.00 0.00 4.35
1476 10278 3.640967 AGACCTCTGGATTGAGTATCTGC 59.359 47.826 0.00 0.00 34.92 4.26
1532 10334 9.661563 AAATGCATCTGTTCATAACAAATCAAT 57.338 25.926 0.00 0.00 41.61 2.57
1811 10623 6.705302 AGCACTCTATCTTTTGACTTCATCA 58.295 36.000 0.00 0.00 34.65 3.07
1892 10704 2.289547 GCACACCGTAACACAATTCTGT 59.710 45.455 0.00 0.00 35.63 3.41
2110 10929 2.571212 AGATCTGTCGCCAACACAAAA 58.429 42.857 0.00 0.00 33.24 2.44
2111 10930 2.254546 AGATCTGTCGCCAACACAAA 57.745 45.000 0.00 0.00 33.24 2.83
2134 10953 3.005554 CCTCATCTTCATGTTTCAGCGT 58.994 45.455 0.00 0.00 0.00 5.07
2261 11080 2.610438 ACCATTTGAAGACAGGGCAT 57.390 45.000 0.00 0.00 0.00 4.40
2339 11158 7.310921 CCTTATAGGAGGCAAGATCACATATGT 60.311 40.741 1.41 1.41 37.67 2.29
2376 11195 0.593128 CAAGAAGGGACCAAGCAACG 59.407 55.000 0.00 0.00 0.00 4.10
2473 11292 5.254339 GCTGACAGCTTTAAATGGCTAAT 57.746 39.130 20.41 0.00 38.45 1.73
2601 11420 6.895756 CCCACTATGACCAGCCTTAGTATATA 59.104 42.308 0.00 0.00 0.00 0.86
2605 11424 3.305720 CCCACTATGACCAGCCTTAGTA 58.694 50.000 0.00 0.00 0.00 1.82
2606 11425 2.119495 CCCACTATGACCAGCCTTAGT 58.881 52.381 0.00 0.00 0.00 2.24
2607 11426 1.417890 CCCCACTATGACCAGCCTTAG 59.582 57.143 0.00 0.00 0.00 2.18
2608 11427 1.009060 TCCCCACTATGACCAGCCTTA 59.991 52.381 0.00 0.00 0.00 2.69
2609 11428 0.253160 TCCCCACTATGACCAGCCTT 60.253 55.000 0.00 0.00 0.00 4.35
2644 11465 9.400638 GTAACTTAGACTAGTGTCATATGCATC 57.599 37.037 0.19 0.00 45.20 3.91
2673 11494 8.338259 GGAGTATGTTACTTTGCACTATGAATG 58.662 37.037 0.00 0.00 39.59 2.67
2674 11495 7.499232 GGGAGTATGTTACTTTGCACTATGAAT 59.501 37.037 0.00 0.00 39.59 2.57
2676 11497 6.156256 AGGGAGTATGTTACTTTGCACTATGA 59.844 38.462 0.00 0.00 39.59 2.15
2690 11511 2.244252 ACCTAGACGGAGGGAGTATGTT 59.756 50.000 5.42 0.00 41.36 2.71
2748 11576 3.055675 AGTTAATGCACCGTGCCTTAGTA 60.056 43.478 20.67 3.35 44.23 1.82
2752 11580 1.539827 GAAGTTAATGCACCGTGCCTT 59.460 47.619 20.67 18.52 44.23 4.35
2762 11590 5.864628 AGAAACGAGGAAGAAGTTAATGC 57.135 39.130 0.00 0.00 0.00 3.56
2771 11599 5.293569 GTGAAGAAACAAGAAACGAGGAAGA 59.706 40.000 0.00 0.00 0.00 2.87
2773 11601 4.938832 TGTGAAGAAACAAGAAACGAGGAA 59.061 37.500 0.00 0.00 0.00 3.36
2790 11618 8.722480 TGTCTCTTATTGGTTGATATGTGAAG 57.278 34.615 0.00 0.00 0.00 3.02
2791 11619 9.166173 CTTGTCTCTTATTGGTTGATATGTGAA 57.834 33.333 0.00 0.00 0.00 3.18
2793 11621 7.012704 CCCTTGTCTCTTATTGGTTGATATGTG 59.987 40.741 0.00 0.00 0.00 3.21
2814 11642 0.037975 GAAAGCATGCACACCCCTTG 60.038 55.000 21.98 0.00 0.00 3.61
2815 11643 0.469705 TGAAAGCATGCACACCCCTT 60.470 50.000 21.98 0.00 0.00 3.95
2816 11644 0.469705 TTGAAAGCATGCACACCCCT 60.470 50.000 21.98 0.00 0.00 4.79
2820 11648 3.293311 AGTCATTGAAAGCATGCACAC 57.707 42.857 21.98 10.57 0.00 3.82
2821 11649 3.318557 TCAAGTCATTGAAAGCATGCACA 59.681 39.130 21.98 13.87 42.47 4.57
2856 11684 2.412870 TGAACTAACCACTGCATGTCG 58.587 47.619 0.00 0.00 0.00 4.35
2903 11731 7.237173 GGAAAACGAGAGACATTAATGTTCAG 58.763 38.462 21.63 17.73 41.95 3.02
2905 11733 6.403309 GGGGAAAACGAGAGACATTAATGTTC 60.403 42.308 21.63 18.55 41.95 3.18
2906 11734 5.414765 GGGGAAAACGAGAGACATTAATGTT 59.585 40.000 21.63 11.84 41.95 2.71
2914 11742 2.011122 AGAGGGGAAAACGAGAGACA 57.989 50.000 0.00 0.00 0.00 3.41
2915 11743 3.067833 CAAAGAGGGGAAAACGAGAGAC 58.932 50.000 0.00 0.00 0.00 3.36
2917 11745 2.224548 ACCAAAGAGGGGAAAACGAGAG 60.225 50.000 0.00 0.00 43.89 3.20
2929 11757 1.227823 TGCACCGTGACCAAAGAGG 60.228 57.895 1.65 0.00 45.67 3.69
2933 11761 1.658686 GGTTGTGCACCGTGACCAAA 61.659 55.000 15.69 0.00 35.12 3.28
2940 11771 7.249927 TAAGTCATCTTAGGTTGTGCACCGT 62.250 44.000 15.69 3.89 41.54 4.83
2952 11783 8.155821 TCGTCTAGGTGATTAAGTCATCTTAG 57.844 38.462 6.14 3.84 46.20 2.18
2965 11796 2.830651 ACTCCCTTCGTCTAGGTGAT 57.169 50.000 0.00 0.00 33.17 3.06
2966 11797 2.575279 ACTACTCCCTTCGTCTAGGTGA 59.425 50.000 0.00 0.00 33.17 4.02
2977 11808 7.420446 CCTCTATGACACTACTACTACTCCCTT 60.420 44.444 0.00 0.00 0.00 3.95
2988 11819 8.824756 TTAATGAAGTCCTCTATGACACTACT 57.175 34.615 0.00 0.00 37.73 2.57
2992 11823 8.983724 GCTAATTAATGAAGTCCTCTATGACAC 58.016 37.037 0.00 0.00 37.73 3.67
2993 11824 8.928448 AGCTAATTAATGAAGTCCTCTATGACA 58.072 33.333 0.00 0.00 37.73 3.58
3002 11833 8.950208 AGTCTACAAGCTAATTAATGAAGTCC 57.050 34.615 0.00 0.00 0.00 3.85
3003 11834 9.587772 TGAGTCTACAAGCTAATTAATGAAGTC 57.412 33.333 0.00 0.00 0.00 3.01
3024 11855 3.124297 CGCTTTCCAAGACAAGATGAGTC 59.876 47.826 0.00 0.00 36.26 3.36
3034 11865 3.682858 TGTAACATAGCGCTTTCCAAGAC 59.317 43.478 18.68 6.42 0.00 3.01
3074 11905 7.889589 TGTGACATGTAGTTAATGAGAAGTG 57.110 36.000 0.00 0.00 0.00 3.16
3078 11923 8.257306 TGCTTATGTGACATGTAGTTAATGAGA 58.743 33.333 8.61 0.00 0.00 3.27
3094 11939 5.000591 TCCGAGAAATTGTTGCTTATGTGA 58.999 37.500 0.00 0.00 0.00 3.58
3103 11948 1.725931 GCGCACTCCGAGAAATTGTTG 60.726 52.381 0.30 0.00 40.02 3.33
3106 11951 1.640428 TAGCGCACTCCGAGAAATTG 58.360 50.000 11.47 0.00 40.02 2.32
3114 11959 1.588404 CAAGTAACATAGCGCACTCCG 59.412 52.381 11.47 0.00 40.75 4.63
3116 11961 2.271800 AGCAAGTAACATAGCGCACTC 58.728 47.619 11.47 0.00 0.00 3.51
3118 11963 3.001330 CCTTAGCAAGTAACATAGCGCAC 59.999 47.826 11.47 0.00 0.00 5.34
3133 11978 1.486310 CCACTATGACCAGCCTTAGCA 59.514 52.381 0.00 0.00 43.56 3.49
3134 11979 1.202698 CCCACTATGACCAGCCTTAGC 60.203 57.143 0.00 0.00 40.32 3.09
3140 11985 1.789523 TACTCCCCACTATGACCAGC 58.210 55.000 0.00 0.00 0.00 4.85
3141 11986 3.375699 AGTTACTCCCCACTATGACCAG 58.624 50.000 0.00 0.00 0.00 4.00
3142 11987 3.484953 AGTTACTCCCCACTATGACCA 57.515 47.619 0.00 0.00 0.00 4.02
3143 11988 5.068855 GTCTAAGTTACTCCCCACTATGACC 59.931 48.000 0.00 0.00 0.00 4.02
3144 11989 5.892686 AGTCTAAGTTACTCCCCACTATGAC 59.107 44.000 0.00 0.00 0.00 3.06
3145 11990 6.088541 AGTCTAAGTTACTCCCCACTATGA 57.911 41.667 0.00 0.00 0.00 2.15
3146 11991 7.061688 ACTAGTCTAAGTTACTCCCCACTATG 58.938 42.308 0.00 0.00 0.00 2.23
3147 11992 7.223472 ACTAGTCTAAGTTACTCCCCACTAT 57.777 40.000 0.00 0.00 0.00 2.12
3148 11993 6.649041 ACTAGTCTAAGTTACTCCCCACTA 57.351 41.667 0.00 0.00 0.00 2.74
3150 11995 6.660949 TGTTACTAGTCTAAGTTACTCCCCAC 59.339 42.308 0.00 0.00 31.82 4.61
3151 11996 6.793478 TGTTACTAGTCTAAGTTACTCCCCA 58.207 40.000 0.00 0.00 31.82 4.96
3153 11998 7.147949 TGCATGTTACTAGTCTAAGTTACTCCC 60.148 40.741 0.00 0.00 31.82 4.30
3189 12034 9.809395 TGCACTATAGAGGTAATAACATAGACT 57.191 33.333 6.78 0.00 0.00 3.24
3221 12066 9.688091 GAGACCACCTATGATACTAATCTATGA 57.312 37.037 0.00 0.00 32.93 2.15
3222 12067 9.467796 TGAGACCACCTATGATACTAATCTATG 57.532 37.037 0.00 0.00 32.93 2.23
3225 12070 8.964533 AATGAGACCACCTATGATACTAATCT 57.035 34.615 0.00 0.00 32.93 2.40
3230 12075 7.880195 GCAATAAATGAGACCACCTATGATACT 59.120 37.037 0.00 0.00 0.00 2.12
3231 12076 7.119846 GGCAATAAATGAGACCACCTATGATAC 59.880 40.741 0.00 0.00 0.00 2.24
3232 12077 7.168219 GGCAATAAATGAGACCACCTATGATA 58.832 38.462 0.00 0.00 0.00 2.15
3234 12079 5.104151 TGGCAATAAATGAGACCACCTATGA 60.104 40.000 0.00 0.00 0.00 2.15
3236 12081 5.387113 TGGCAATAAATGAGACCACCTAT 57.613 39.130 0.00 0.00 0.00 2.57
3237 12082 4.853468 TGGCAATAAATGAGACCACCTA 57.147 40.909 0.00 0.00 0.00 3.08
3238 12083 3.737559 TGGCAATAAATGAGACCACCT 57.262 42.857 0.00 0.00 0.00 4.00
3240 12085 3.130869 TGCATGGCAATAAATGAGACCAC 59.869 43.478 0.00 0.00 34.76 4.16
3241 12086 3.363627 TGCATGGCAATAAATGAGACCA 58.636 40.909 0.00 0.00 34.76 4.02
3242 12087 4.595762 ATGCATGGCAATAAATGAGACC 57.404 40.909 0.00 0.00 43.62 3.85
3243 12088 6.418819 GTGTTATGCATGGCAATAAATGAGAC 59.581 38.462 10.16 0.00 43.62 3.36
3244 12089 6.096564 TGTGTTATGCATGGCAATAAATGAGA 59.903 34.615 10.16 0.00 43.62 3.27
3245 12090 6.274579 TGTGTTATGCATGGCAATAAATGAG 58.725 36.000 10.16 0.00 43.62 2.90
3246 12091 6.218108 TGTGTTATGCATGGCAATAAATGA 57.782 33.333 10.16 0.00 43.62 2.57
3247 12092 7.868922 ACTATGTGTTATGCATGGCAATAAATG 59.131 33.333 10.16 0.00 43.62 2.32
3250 12095 6.957920 ACTATGTGTTATGCATGGCAATAA 57.042 33.333 10.16 0.00 43.62 1.40
3251 12096 6.149308 GCTACTATGTGTTATGCATGGCAATA 59.851 38.462 10.16 7.82 43.62 1.90
3253 12098 4.275689 GCTACTATGTGTTATGCATGGCAA 59.724 41.667 10.16 0.00 43.62 4.52
3254 12099 3.814842 GCTACTATGTGTTATGCATGGCA 59.185 43.478 10.16 5.14 44.86 4.92
3255 12100 3.814842 TGCTACTATGTGTTATGCATGGC 59.185 43.478 10.16 2.21 0.00 4.40
3256 12101 5.702209 TGATGCTACTATGTGTTATGCATGG 59.298 40.000 10.16 0.00 38.21 3.66
3259 12104 5.669477 TGTGATGCTACTATGTGTTATGCA 58.331 37.500 0.00 0.00 34.61 3.96
3271 12116 8.988934 CCGTAACATAATAAATGTGATGCTACT 58.011 33.333 0.00 0.00 31.80 2.57
3272 12117 8.770828 ACCGTAACATAATAAATGTGATGCTAC 58.229 33.333 0.00 0.00 31.80 3.58
3273 12118 8.896320 ACCGTAACATAATAAATGTGATGCTA 57.104 30.769 0.00 0.00 31.80 3.49
3274 12119 7.801716 ACCGTAACATAATAAATGTGATGCT 57.198 32.000 0.00 0.00 31.80 3.79
3275 12120 9.755064 GATACCGTAACATAATAAATGTGATGC 57.245 33.333 0.00 0.00 31.80 3.91
3304 12149 9.747898 AGAGAGAGATGGTTATAGTAACATAGG 57.252 37.037 2.68 0.00 0.00 2.57
3316 12161 9.561069 GGCAATTAAATAAGAGAGAGATGGTTA 57.439 33.333 0.00 0.00 0.00 2.85
3317 12162 8.277918 AGGCAATTAAATAAGAGAGAGATGGTT 58.722 33.333 0.00 0.00 0.00 3.67
3318 12163 7.718753 CAGGCAATTAAATAAGAGAGAGATGGT 59.281 37.037 0.00 0.00 0.00 3.55
3320 12165 7.308469 GGCAGGCAATTAAATAAGAGAGAGATG 60.308 40.741 0.00 0.00 0.00 2.90
3321 12166 6.714356 GGCAGGCAATTAAATAAGAGAGAGAT 59.286 38.462 0.00 0.00 0.00 2.75
3322 12167 6.058183 GGCAGGCAATTAAATAAGAGAGAGA 58.942 40.000 0.00 0.00 0.00 3.10
3323 12168 5.824624 TGGCAGGCAATTAAATAAGAGAGAG 59.175 40.000 0.00 0.00 0.00 3.20
3324 12169 5.590259 GTGGCAGGCAATTAAATAAGAGAGA 59.410 40.000 0.00 0.00 0.00 3.10
3326 12171 5.260424 TGTGGCAGGCAATTAAATAAGAGA 58.740 37.500 0.00 0.00 0.00 3.10
3327 12172 5.581126 TGTGGCAGGCAATTAAATAAGAG 57.419 39.130 0.00 0.00 0.00 2.85
3328 12173 7.652524 TTATGTGGCAGGCAATTAAATAAGA 57.347 32.000 0.00 0.00 0.00 2.10
3329 12174 6.421801 GCTTATGTGGCAGGCAATTAAATAAG 59.578 38.462 0.00 8.76 0.00 1.73
3331 12176 5.362143 TGCTTATGTGGCAGGCAATTAAATA 59.638 36.000 0.00 0.00 34.56 1.40
3332 12177 4.161942 TGCTTATGTGGCAGGCAATTAAAT 59.838 37.500 0.00 0.00 34.56 1.40
3333 12178 3.513119 TGCTTATGTGGCAGGCAATTAAA 59.487 39.130 0.00 0.00 34.56 1.52
3335 12180 2.732763 TGCTTATGTGGCAGGCAATTA 58.267 42.857 0.00 0.00 34.56 1.40
3337 12182 1.411246 CATGCTTATGTGGCAGGCAAT 59.589 47.619 0.00 0.00 43.15 3.56
3338 12183 0.818938 CATGCTTATGTGGCAGGCAA 59.181 50.000 0.00 0.00 43.15 4.52
3341 12186 2.883574 CAAACATGCTTATGTGGCAGG 58.116 47.619 0.00 0.00 45.30 4.85
3342 12187 2.264813 GCAAACATGCTTATGTGGCAG 58.735 47.619 10.53 0.00 43.15 4.85
3343 12188 1.402588 CGCAAACATGCTTATGTGGCA 60.403 47.619 13.85 0.00 44.05 4.92
3344 12189 1.135431 TCGCAAACATGCTTATGTGGC 60.135 47.619 0.00 0.00 34.56 5.01
3345 12190 2.162208 ACTCGCAAACATGCTTATGTGG 59.838 45.455 0.00 0.00 34.56 4.17
3346 12191 3.419915 GACTCGCAAACATGCTTATGTG 58.580 45.455 0.00 0.00 34.56 3.21
3347 12192 2.420022 GGACTCGCAAACATGCTTATGT 59.580 45.455 0.00 0.00 36.10 2.29
3348 12193 2.223340 GGGACTCGCAAACATGCTTATG 60.223 50.000 0.00 0.00 0.00 1.90
3349 12194 2.017049 GGGACTCGCAAACATGCTTAT 58.983 47.619 0.00 0.00 0.00 1.73
3350 12195 1.271108 TGGGACTCGCAAACATGCTTA 60.271 47.619 0.00 0.00 0.00 3.09
3351 12196 0.537143 TGGGACTCGCAAACATGCTT 60.537 50.000 0.00 0.00 0.00 3.91
3352 12197 0.537143 TTGGGACTCGCAAACATGCT 60.537 50.000 6.08 0.00 33.52 3.79
3353 12198 0.109597 CTTGGGACTCGCAAACATGC 60.110 55.000 9.59 0.00 35.96 4.06
3354 12199 0.109597 GCTTGGGACTCGCAAACATG 60.110 55.000 9.59 0.00 35.96 3.21
3355 12200 1.577328 CGCTTGGGACTCGCAAACAT 61.577 55.000 9.59 0.00 35.96 2.71
3356 12201 2.250939 CGCTTGGGACTCGCAAACA 61.251 57.895 9.59 0.00 35.96 2.83
3357 12202 2.556287 CGCTTGGGACTCGCAAAC 59.444 61.111 9.59 4.85 35.96 2.93
3363 12208 1.202580 AGTATCATGCGCTTGGGACTC 60.203 52.381 21.59 9.28 0.00 3.36
3365 12210 2.135933 GTAGTATCATGCGCTTGGGAC 58.864 52.381 21.59 18.29 0.00 4.46
3366 12211 2.039418 AGTAGTATCATGCGCTTGGGA 58.961 47.619 21.59 8.23 0.00 4.37
3367 12212 2.533266 AGTAGTATCATGCGCTTGGG 57.467 50.000 21.59 2.81 0.00 4.12
3368 12213 4.991056 ACATAAGTAGTATCATGCGCTTGG 59.009 41.667 21.59 5.36 0.00 3.61
3369 12214 6.530913 AACATAAGTAGTATCATGCGCTTG 57.469 37.500 16.66 16.66 0.00 4.01
3370 12215 6.645415 GGTAACATAAGTAGTATCATGCGCTT 59.355 38.462 9.73 0.00 0.00 4.68
3371 12216 6.157211 GGTAACATAAGTAGTATCATGCGCT 58.843 40.000 9.73 0.00 0.00 5.92
3372 12217 5.347907 GGGTAACATAAGTAGTATCATGCGC 59.652 44.000 0.00 0.00 39.74 6.09
3375 12220 8.421784 AGTGTGGGTAACATAAGTAGTATCATG 58.578 37.037 0.00 0.00 41.97 3.07
3376 12221 8.548880 AGTGTGGGTAACATAAGTAGTATCAT 57.451 34.615 0.00 0.00 41.97 2.45
3377 12222 7.966339 AGTGTGGGTAACATAAGTAGTATCA 57.034 36.000 0.00 0.00 41.97 2.15
3378 12223 9.909644 CATAGTGTGGGTAACATAAGTAGTATC 57.090 37.037 0.00 0.00 41.97 2.24
3381 12441 7.618512 AGTCATAGTGTGGGTAACATAAGTAGT 59.381 37.037 0.00 0.00 41.97 2.73
3392 12452 7.092533 ACTCTTAGACTAGTCATAGTGTGGGTA 60.093 40.741 24.44 1.61 42.46 3.69
3393 12453 6.075949 TCTTAGACTAGTCATAGTGTGGGT 57.924 41.667 24.44 2.59 42.46 4.51
3394 12454 6.123651 ACTCTTAGACTAGTCATAGTGTGGG 58.876 44.000 24.44 9.39 42.46 4.61
3396 12456 9.347934 CAAAACTCTTAGACTAGTCATAGTGTG 57.652 37.037 24.44 16.37 42.46 3.82
3397 12457 8.524487 CCAAAACTCTTAGACTAGTCATAGTGT 58.476 37.037 24.44 20.83 42.46 3.55
3398 12458 7.489757 GCCAAAACTCTTAGACTAGTCATAGTG 59.510 40.741 24.44 20.29 42.46 2.74
3399 12459 7.178628 TGCCAAAACTCTTAGACTAGTCATAGT 59.821 37.037 24.44 16.96 45.16 2.12
3400 12460 7.548097 TGCCAAAACTCTTAGACTAGTCATAG 58.452 38.462 24.44 18.97 34.96 2.23
3402 12462 6.360370 TGCCAAAACTCTTAGACTAGTCAT 57.640 37.500 24.44 12.01 0.00 3.06
3403 12463 5.801531 TGCCAAAACTCTTAGACTAGTCA 57.198 39.130 24.44 8.16 0.00 3.41
3404 12464 7.100409 AGAATGCCAAAACTCTTAGACTAGTC 58.900 38.462 15.41 15.41 0.00 2.59
3405 12465 7.010339 AGAATGCCAAAACTCTTAGACTAGT 57.990 36.000 0.00 0.00 0.00 2.57
3406 12466 9.606631 ATTAGAATGCCAAAACTCTTAGACTAG 57.393 33.333 0.00 0.00 0.00 2.57
3407 12467 9.959721 AATTAGAATGCCAAAACTCTTAGACTA 57.040 29.630 0.00 0.00 0.00 2.59
3408 12468 8.870075 AATTAGAATGCCAAAACTCTTAGACT 57.130 30.769 0.00 0.00 0.00 3.24


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

AutoCloner maintained by Alex Coulton.