Multiple sequence alignment - TraesCS6D01G191100

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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 TraesCS6D01G191100 chr6D 100.000 4193 0 0 1 4193 263943291 263939099 0.000000e+00 7744.0
1 TraesCS6D01G191100 chr6D 96.063 254 10 0 3939 4192 36257361 36257614 8.390000e-112 414.0
2 TraesCS6D01G191100 chr6D 86.131 137 11 3 3751 3879 221843010 221843146 1.570000e-29 141.0
3 TraesCS6D01G191100 chr6D 82.353 153 16 5 3735 3879 344175911 344175762 5.690000e-24 122.0
4 TraesCS6D01G191100 chr6D 83.217 143 12 10 268 401 23349935 23350074 2.050000e-23 121.0
5 TraesCS6D01G191100 chr6B 94.335 3513 124 25 478 3936 404992316 404988825 0.000000e+00 5315.0
6 TraesCS6D01G191100 chr6B 90.133 375 34 3 6 377 404992777 404992403 6.300000e-133 484.0
7 TraesCS6D01G191100 chr6A 94.176 2026 86 16 303 2321 371724134 371726134 0.000000e+00 3059.0
8 TraesCS6D01G191100 chr6A 92.011 1477 80 14 2382 3821 371726135 371727610 0.000000e+00 2039.0
9 TraesCS6D01G191100 chr6A 96.903 226 6 1 1 226 371723906 371724130 1.100000e-100 377.0
10 TraesCS6D01G191100 chr6A 90.909 44 2 2 676 719 57736855 57736814 1.630000e-04 58.4
11 TraesCS6D01G191100 chr3D 98.062 258 5 0 3936 4193 594931681 594931938 2.300000e-122 449.0
12 TraesCS6D01G191100 chr3D 97.255 255 7 0 3939 4193 457651971 457651717 2.320000e-117 433.0
13 TraesCS6D01G191100 chr3D 88.750 80 7 2 2333 2411 64483288 64483366 3.450000e-16 97.1
14 TraesCS6D01G191100 chr3D 100.000 28 0 0 676 703 347291862 347291835 8.000000e-03 52.8
15 TraesCS6D01G191100 chr7D 97.328 262 7 0 3930 4191 400210352 400210613 2.970000e-121 446.0
16 TraesCS6D01G191100 chr7D 96.124 258 9 1 3936 4192 264968194 264967937 1.800000e-113 420.0
17 TraesCS6D01G191100 chr7D 94.444 36 1 1 676 711 630478425 630478391 2.000000e-03 54.7
18 TraesCS6D01G191100 chr7A 96.139 259 8 2 3936 4193 217771692 217771949 5.010000e-114 422.0
19 TraesCS6D01G191100 chr7A 97.222 36 0 1 676 711 726428787 726428753 4.530000e-05 60.2
20 TraesCS6D01G191100 chr2A 95.935 246 10 0 3948 4193 670071943 670072188 2.350000e-107 399.0
21 TraesCS6D01G191100 chr2A 92.969 256 18 0 3936 4191 608774815 608774560 1.420000e-99 374.0
22 TraesCS6D01G191100 chr2A 86.093 151 13 3 3737 3879 330080223 330080073 5.610000e-34 156.0
23 TraesCS6D01G191100 chr2A 88.710 124 10 4 251 373 178085338 178085218 9.390000e-32 148.0
24 TraesCS6D01G191100 chr2A 85.714 133 15 4 3736 3868 734531273 734531145 2.030000e-28 137.0
25 TraesCS6D01G191100 chr3A 96.186 236 9 0 3956 4191 566077260 566077495 1.830000e-103 387.0
26 TraesCS6D01G191100 chr3A 82.192 146 22 4 261 403 182999187 182999043 5.690000e-24 122.0
27 TraesCS6D01G191100 chr3A 80.838 167 21 4 3729 3884 414818042 414818208 2.050000e-23 121.0
28 TraesCS6D01G191100 chr2D 82.963 270 30 3 6 259 233394552 233394821 3.260000e-56 230.0
29 TraesCS6D01G191100 chr2D 86.290 124 14 3 251 373 171447930 171448051 9.460000e-27 132.0
30 TraesCS6D01G191100 chr2D 82.468 154 21 4 3734 3881 421794837 421794684 3.400000e-26 130.0
31 TraesCS6D01G191100 chr2D 91.549 71 6 0 2329 2399 61023779 61023709 9.590000e-17 99.0
32 TraesCS6D01G191100 chr2D 91.549 71 6 0 2329 2399 78530076 78530006 9.590000e-17 99.0
33 TraesCS6D01G191100 chr5D 87.013 154 11 4 3735 3879 175300057 175299904 9.330000e-37 165.0
34 TraesCS6D01G191100 chr5D 88.235 119 8 6 261 375 438924898 438925014 2.030000e-28 137.0
35 TraesCS6D01G191100 chr3B 82.530 166 18 4 3730 3884 404830312 404830477 7.310000e-28 135.0
36 TraesCS6D01G191100 chr3B 84.483 116 9 6 3734 3841 507132189 507132303 5.730000e-19 106.0
37 TraesCS6D01G191100 chr3B 80.435 138 19 3 3734 3863 728923028 728922891 9.590000e-17 99.0
38 TraesCS6D01G191100 chr3B 91.304 46 4 0 3926 3971 485895128 485895083 3.500000e-06 63.9
39 TraesCS6D01G191100 chr4B 87.288 118 13 2 262 378 252174645 252174529 2.630000e-27 134.0
40 TraesCS6D01G191100 chr1D 85.039 127 13 6 251 374 384169374 384169497 1.580000e-24 124.0
41 TraesCS6D01G191100 chr1D 87.736 106 12 1 3781 3885 414167172 414167067 5.690000e-24 122.0
42 TraesCS6D01G191100 chr1D 95.455 44 1 1 477 520 453331337 453331379 7.520000e-08 69.4
43 TraesCS6D01G191100 chr1B 84.000 125 9 6 2277 2399 332084694 332084809 4.430000e-20 110.0
44 TraesCS6D01G191100 chr1A 94.366 71 4 0 2329 2399 307036809 307036739 4.430000e-20 110.0
45 TraesCS6D01G191100 chr1A 88.060 67 7 1 3927 3992 352017661 352017727 1.250000e-10 78.7
46 TraesCS6D01G191100 chr5B 78.363 171 28 6 3720 3881 616955009 616955179 7.420000e-18 102.0
47 TraesCS6D01G191100 chr5B 91.667 60 4 1 3935 3993 546559825 546559766 9.660000e-12 82.4
48 TraesCS6D01G191100 chr2B 91.549 71 6 0 2329 2399 121669461 121669391 9.590000e-17 99.0
49 TraesCS6D01G191100 chr2B 78.472 144 25 3 3734 3871 22314705 22314562 5.770000e-14 89.8
50 TraesCS6D01G191100 chr2B 88.235 68 6 2 3927 3993 186927008 186927074 3.480000e-11 80.5
51 TraesCS6D01G191100 chr5A 83.486 109 10 6 412 516 448643481 448643585 1.240000e-15 95.3
52 TraesCS6D01G191100 chr5A 82.407 108 13 5 412 516 448644325 448644429 5.770000e-14 89.8
53 TraesCS6D01G191100 chr4A 84.211 95 13 1 2307 2399 16470310 16470404 1.610000e-14 91.6
54 TraesCS6D01G191100 chr4D 83.696 92 13 1 2310 2399 450202795 450202704 7.470000e-13 86.1


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 TraesCS6D01G191100 chr6D 263939099 263943291 4192 True 7744.0 7744 100.000000 1 4193 1 chr6D.!!$R1 4192
1 TraesCS6D01G191100 chr6B 404988825 404992777 3952 True 2899.5 5315 92.234000 6 3936 2 chr6B.!!$R1 3930
2 TraesCS6D01G191100 chr6A 371723906 371727610 3704 False 1825.0 3059 94.363333 1 3821 3 chr6A.!!$F1 3820

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
834 870 2.034812 GCCCATCTACGTCGAGAGATTT 59.965 50.0 0.00 0.0 45.19 2.17 F
1248 1293 0.108585 ATCCTTGGTGTGTTCTGCGT 59.891 50.0 0.00 0.0 0.00 5.24 F
2015 2077 0.038709 AGTTGCTCGAGTGCTCAGTC 60.039 55.0 15.13 0.0 0.00 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1641 1703 1.109609 AACGACGGACCTCCTATTCC 58.890 55.000 0.00 0.0 0.00 3.01 R
2794 2858 1.611491 GCCCACGAAATTCTTTCACCA 59.389 47.619 0.00 0.0 39.63 4.17 R
3938 4040 0.177141 AACGCACGGGCATATGTACT 59.823 50.000 11.77 0.0 41.24 2.73 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 80 5.107026 TGCTTTGCATGCAATTTGTGAATAC 60.107 36.000 32.27 11.89 37.51 1.89
160 161 6.312918 CGATAAGCATTACTTGTGTAGGTGTT 59.687 38.462 0.00 0.00 39.58 3.32
207 208 9.658799 CAATTCTAGTACTCCCATAATACCATG 57.341 37.037 0.00 0.00 0.00 3.66
226 227 5.009310 ACCATGTTGATTGATCATTGATCCG 59.991 40.000 21.08 2.18 38.20 4.18
231 232 6.375174 TGTTGATTGATCATTGATCCGTCTTT 59.625 34.615 21.08 2.92 38.20 2.52
234 235 8.681486 TGATTGATCATTGATCCGTCTTTAAT 57.319 30.769 21.08 13.01 38.20 1.40
269 270 2.230130 TTTGGATTGGGGTTAGGCTG 57.770 50.000 0.00 0.00 0.00 4.85
291 292 7.389053 GGCTGATACCATGTAAAAGGAATAGAG 59.611 40.741 0.00 0.00 0.00 2.43
355 356 8.250143 TGTGGGCATATATATAGGAGTACATG 57.750 38.462 8.56 0.00 0.00 3.21
387 391 7.837202 TGGAGTACAAGATAAAACATAACGG 57.163 36.000 0.00 0.00 0.00 4.44
410 414 6.159988 GGATCATAGTCTATCCTTCCAAACG 58.840 44.000 0.00 0.00 38.92 3.60
552 587 7.014711 TGGCACAAACCATTTTCTAAACTATGA 59.985 33.333 0.00 0.00 33.75 2.15
574 609 6.851609 TGAGAACAATTTTTACGCTGCATAT 58.148 32.000 0.00 0.00 0.00 1.78
617 652 6.417191 ACGTATATTTGAAATGCGTGAACT 57.583 33.333 13.16 0.00 42.73 3.01
629 664 4.364415 TGCGTGAACTTGTTTTAAAGCT 57.636 36.364 3.62 0.00 0.00 3.74
834 870 2.034812 GCCCATCTACGTCGAGAGATTT 59.965 50.000 0.00 0.00 45.19 2.17
1054 1093 2.292521 ACTTACATCCTCCTCCTGCTGA 60.293 50.000 0.00 0.00 0.00 4.26
1248 1293 0.108585 ATCCTTGGTGTGTTCTGCGT 59.891 50.000 0.00 0.00 0.00 5.24
1295 1340 6.612741 AGGTAGTTAGTCTCTCCGGATTTAT 58.387 40.000 3.57 0.00 0.00 1.40
1388 1433 2.497273 GTGCATTTTAGGGCCACATTCT 59.503 45.455 6.18 0.00 0.00 2.40
1424 1469 8.337532 CAAGCGATTGTATGAATTATCAGTTCA 58.662 33.333 4.96 0.00 39.39 3.18
1454 1499 9.950306 AGCATAGGATAGGAAGATCTGTTATAT 57.050 33.333 0.00 0.00 0.00 0.86
1499 1559 3.898123 AGCATCGTTGTCCTATCCTATGT 59.102 43.478 0.00 0.00 0.00 2.29
1508 1568 9.760077 CGTTGTCCTATCCTATGTTTTACTAAT 57.240 33.333 0.00 0.00 0.00 1.73
1553 1613 5.377358 CGATCACAAGACAGATGAACAAAC 58.623 41.667 0.00 0.00 0.00 2.93
1632 1692 6.223120 GTTTTACATTGAATGGGTGCTTCTT 58.777 36.000 10.27 0.00 33.60 2.52
1633 1693 3.947910 ACATTGAATGGGTGCTTCTTG 57.052 42.857 10.27 0.00 33.60 3.02
1641 1703 5.183713 TGAATGGGTGCTTCTTGTTAAGATG 59.816 40.000 0.00 0.00 37.38 2.90
1653 1715 7.125792 TCTTGTTAAGATGGAATAGGAGGTC 57.874 40.000 0.00 0.00 31.20 3.85
1686 1748 2.225343 TGGTTGAATGAGGAAATGGGCT 60.225 45.455 0.00 0.00 0.00 5.19
1693 1755 1.146774 TGAGGAAATGGGCTTGAACCA 59.853 47.619 0.00 0.00 43.22 3.67
1737 1799 8.392612 GGCAAACATTTCAAAATTATCTGATGG 58.607 33.333 0.00 0.00 0.00 3.51
2015 2077 0.038709 AGTTGCTCGAGTGCTCAGTC 60.039 55.000 15.13 0.00 0.00 3.51
2120 2182 5.221722 GGAGGCATACTTCTCCATTGATACA 60.222 44.000 4.66 0.00 46.54 2.29
2155 2217 1.135024 CACCCATTGCTGGTGTTATGC 60.135 52.381 1.27 0.00 46.62 3.14
2505 2568 8.565896 TTCACAGTTTGATTACTGATATGCTT 57.434 30.769 10.46 0.00 46.72 3.91
2699 2763 4.670765 AGCAAGTTTGGATTCCATCTCTT 58.329 39.130 6.15 8.62 31.53 2.85
2739 2803 7.552459 TCAAAAGATCGTCCAGTATTACATGA 58.448 34.615 0.00 0.00 0.00 3.07
2749 2813 5.189736 TCCAGTATTACATGATATGGCCTCC 59.810 44.000 3.32 0.00 33.60 4.30
2762 2826 0.625849 GGCCTCCTGGGATCTTGAAA 59.374 55.000 0.00 0.00 37.23 2.69
2818 2882 3.643159 GAAAGAATTTCGTGGGCAGTT 57.357 42.857 0.00 0.00 46.13 3.16
2988 3054 8.947055 AGAAAATTAGATTTGTTTGTGCAGTT 57.053 26.923 0.00 0.00 31.77 3.16
3035 3101 2.110011 AGATTGGTGCTGGGGTTAAACT 59.890 45.455 0.00 0.00 0.00 2.66
3036 3102 3.332485 AGATTGGTGCTGGGGTTAAACTA 59.668 43.478 0.00 0.00 0.00 2.24
3281 3347 3.639561 TGCCGCTCTGTGGTTATATTCTA 59.360 43.478 0.00 0.00 35.34 2.10
3429 3500 8.940768 TCTTAATGCAGTTTTTACTTTTGCTT 57.059 26.923 0.00 0.00 35.85 3.91
3462 3533 8.320396 TGTATATACCGTCAGAGTATTCAGAC 57.680 38.462 10.38 1.24 36.72 3.51
3499 3570 4.939439 AGGTTATTCCGCAAACGTCTTTAT 59.061 37.500 0.00 0.00 41.99 1.40
3524 3595 4.460505 ACGCTTAACTATTTCGTGCAAAC 58.539 39.130 0.00 0.00 31.74 2.93
3534 3605 1.511850 TCGTGCAAACTCTGTCCATG 58.488 50.000 0.00 0.00 0.00 3.66
3555 3626 9.183368 TCCATGTATTATAAGCACAATGTTGAA 57.817 29.630 6.75 0.00 0.00 2.69
3559 3630 9.838975 TGTATTATAAGCACAATGTTGAAAGTG 57.161 29.630 0.00 0.00 35.19 3.16
3640 3715 8.818622 ATATAGTACCAGAGTTGTACACTTGA 57.181 34.615 0.00 0.00 40.79 3.02
3723 3815 7.331934 TCATCAAAGAACTAATCCTTCGACAAG 59.668 37.037 0.00 0.00 0.00 3.16
3852 3952 7.873719 TCTGATTCACAAAAAGGTTAGAACA 57.126 32.000 0.00 0.00 0.00 3.18
3917 4019 3.947196 CACACCCAGATGCAAAGCTATAA 59.053 43.478 0.00 0.00 0.00 0.98
3924 4026 6.865205 CCCAGATGCAAAGCTATAATTTTAGC 59.135 38.462 17.28 17.28 44.03 3.09
3930 4032 7.041107 TGCAAAGCTATAATTTTAGCCTTTGG 58.959 34.615 28.16 17.88 44.64 3.28
3936 4038 8.687242 AGCTATAATTTTAGCCTTTGGAAAGAC 58.313 33.333 20.22 0.00 44.64 3.01
3937 4039 8.687242 GCTATAATTTTAGCCTTTGGAAAGACT 58.313 33.333 14.87 0.00 38.93 3.24
3940 4042 9.755122 ATAATTTTAGCCTTTGGAAAGACTAGT 57.245 29.630 0.00 0.00 38.28 2.57
3942 4044 7.974482 TTTTAGCCTTTGGAAAGACTAGTAC 57.026 36.000 0.00 0.00 38.28 2.73
3943 4045 6.675413 TTAGCCTTTGGAAAGACTAGTACA 57.325 37.500 0.00 0.00 38.28 2.90
3944 4046 5.763876 AGCCTTTGGAAAGACTAGTACAT 57.236 39.130 0.00 0.00 38.28 2.29
3945 4047 6.869206 AGCCTTTGGAAAGACTAGTACATA 57.131 37.500 0.00 0.00 38.28 2.29
3946 4048 7.439108 AGCCTTTGGAAAGACTAGTACATAT 57.561 36.000 0.00 0.00 38.28 1.78
3947 4049 7.275920 AGCCTTTGGAAAGACTAGTACATATG 58.724 38.462 0.00 0.00 38.28 1.78
3948 4050 6.017852 GCCTTTGGAAAGACTAGTACATATGC 60.018 42.308 1.58 0.00 38.28 3.14
3949 4051 6.483640 CCTTTGGAAAGACTAGTACATATGCC 59.516 42.308 1.58 0.00 38.28 4.40
3950 4052 5.546621 TGGAAAGACTAGTACATATGCCC 57.453 43.478 1.58 0.00 0.00 5.36
3951 4053 4.038763 TGGAAAGACTAGTACATATGCCCG 59.961 45.833 1.58 0.00 0.00 6.13
3952 4054 4.038883 GGAAAGACTAGTACATATGCCCGT 59.961 45.833 1.58 0.00 0.00 5.28
3953 4055 4.585955 AAGACTAGTACATATGCCCGTG 57.414 45.455 1.58 0.00 0.00 4.94
3954 4056 2.296471 AGACTAGTACATATGCCCGTGC 59.704 50.000 1.58 0.00 38.26 5.34
3955 4057 1.000607 ACTAGTACATATGCCCGTGCG 60.001 52.381 1.58 0.00 41.78 5.34
3956 4058 1.000607 CTAGTACATATGCCCGTGCGT 60.001 52.381 1.58 0.00 41.78 5.24
3957 4059 0.177141 AGTACATATGCCCGTGCGTT 59.823 50.000 1.58 0.00 41.78 4.84
3958 4060 0.303493 GTACATATGCCCGTGCGTTG 59.697 55.000 1.58 0.00 41.78 4.10
3959 4061 1.433053 TACATATGCCCGTGCGTTGC 61.433 55.000 1.58 0.00 41.78 4.17
3960 4062 2.437537 ATATGCCCGTGCGTTGCA 60.438 55.556 8.11 8.11 41.78 4.08
3961 4063 2.043405 ATATGCCCGTGCGTTGCAA 61.043 52.632 0.00 0.00 41.47 4.08
3962 4064 2.265073 ATATGCCCGTGCGTTGCAAC 62.265 55.000 19.89 19.89 41.47 4.17
3994 4096 9.801873 AAAAATTGAGAAAATCTTCTTCACGAA 57.198 25.926 0.00 0.00 42.19 3.85
3995 4097 9.801873 AAAATTGAGAAAATCTTCTTCACGAAA 57.198 25.926 0.00 0.00 42.19 3.46
3996 4098 9.455847 AAATTGAGAAAATCTTCTTCACGAAAG 57.544 29.630 0.00 0.00 42.19 2.62
3997 4099 7.786178 TTGAGAAAATCTTCTTCACGAAAGA 57.214 32.000 0.00 0.00 42.19 2.52
4016 4118 9.810545 ACGAAAGAAATTTAAGGAAAATGAACA 57.189 25.926 0.00 0.00 37.85 3.18
4037 4139 9.993454 TGAACAAATTTGATGGATATTTGAACA 57.007 25.926 24.64 0.11 40.14 3.18
4042 4144 8.477984 AATTTGATGGATATTTGAACAAACCG 57.522 30.769 2.03 0.00 32.51 4.44
4043 4145 5.574891 TGATGGATATTTGAACAAACCGG 57.425 39.130 0.00 0.00 32.51 5.28
4044 4146 5.257262 TGATGGATATTTGAACAAACCGGA 58.743 37.500 9.46 0.00 32.51 5.14
4045 4147 5.712446 TGATGGATATTTGAACAAACCGGAA 59.288 36.000 9.46 0.00 32.51 4.30
4046 4148 6.209589 TGATGGATATTTGAACAAACCGGAAA 59.790 34.615 9.46 0.00 32.51 3.13
4047 4149 6.019779 TGGATATTTGAACAAACCGGAAAG 57.980 37.500 9.46 0.00 32.51 2.62
4048 4150 5.536916 TGGATATTTGAACAAACCGGAAAGT 59.463 36.000 9.46 0.00 32.51 2.66
4049 4151 6.715718 TGGATATTTGAACAAACCGGAAAGTA 59.284 34.615 9.46 0.00 32.51 2.24
4050 4152 7.394923 TGGATATTTGAACAAACCGGAAAGTAT 59.605 33.333 9.46 0.00 32.51 2.12
4051 4153 8.248253 GGATATTTGAACAAACCGGAAAGTATT 58.752 33.333 9.46 0.00 32.51 1.89
4052 4154 9.285770 GATATTTGAACAAACCGGAAAGTATTC 57.714 33.333 9.46 4.72 32.51 1.75
4053 4155 4.735662 TGAACAAACCGGAAAGTATTCG 57.264 40.909 9.46 0.00 36.36 3.34
4054 4156 4.128643 TGAACAAACCGGAAAGTATTCGT 58.871 39.130 9.46 0.00 36.36 3.85
4055 4157 4.575645 TGAACAAACCGGAAAGTATTCGTT 59.424 37.500 9.46 0.00 36.36 3.85
4056 4158 4.737353 ACAAACCGGAAAGTATTCGTTC 57.263 40.909 9.46 0.00 36.36 3.95
4057 4159 4.128643 ACAAACCGGAAAGTATTCGTTCA 58.871 39.130 9.46 0.00 36.36 3.18
4058 4160 4.758165 ACAAACCGGAAAGTATTCGTTCAT 59.242 37.500 9.46 0.00 36.36 2.57
4059 4161 5.933463 ACAAACCGGAAAGTATTCGTTCATA 59.067 36.000 9.46 0.00 36.36 2.15
4060 4162 6.128472 ACAAACCGGAAAGTATTCGTTCATAC 60.128 38.462 9.46 0.00 36.36 2.39
4061 4163 5.334724 ACCGGAAAGTATTCGTTCATACT 57.665 39.130 9.46 0.00 41.02 2.12
4063 4165 5.579511 ACCGGAAAGTATTCGTTCATACTTG 59.420 40.000 9.46 7.65 45.41 3.16
4064 4166 5.808540 CCGGAAAGTATTCGTTCATACTTGA 59.191 40.000 0.00 0.00 45.41 3.02
4065 4167 6.311935 CCGGAAAGTATTCGTTCATACTTGAA 59.688 38.462 0.00 0.00 45.41 2.69
4066 4168 7.011109 CCGGAAAGTATTCGTTCATACTTGAAT 59.989 37.037 0.00 0.00 45.41 2.57
4067 4169 9.027129 CGGAAAGTATTCGTTCATACTTGAATA 57.973 33.333 14.15 0.00 45.41 1.75
4093 4195 7.892778 TTTTTATTAAACCCGGATGCTTTTC 57.107 32.000 0.73 0.00 0.00 2.29
4094 4196 6.591750 TTTATTAAACCCGGATGCTTTTCA 57.408 33.333 0.73 0.00 0.00 2.69
4095 4197 6.783708 TTATTAAACCCGGATGCTTTTCAT 57.216 33.333 0.73 0.00 38.32 2.57
4096 4198 7.883391 TTATTAAACCCGGATGCTTTTCATA 57.117 32.000 0.73 0.00 35.05 2.15
4097 4199 6.976934 ATTAAACCCGGATGCTTTTCATAT 57.023 33.333 0.73 0.00 35.05 1.78
4098 4200 9.575868 TTATTAAACCCGGATGCTTTTCATATA 57.424 29.630 0.73 0.00 35.05 0.86
4099 4201 7.504924 TTAAACCCGGATGCTTTTCATATAG 57.495 36.000 0.73 0.00 35.05 1.31
4100 4202 4.974645 ACCCGGATGCTTTTCATATAGA 57.025 40.909 0.73 0.00 35.05 1.98
4101 4203 5.304686 ACCCGGATGCTTTTCATATAGAA 57.695 39.130 0.73 0.00 35.05 2.10
4102 4204 5.063880 ACCCGGATGCTTTTCATATAGAAC 58.936 41.667 0.73 0.00 35.56 3.01
4103 4205 4.152402 CCCGGATGCTTTTCATATAGAACG 59.848 45.833 0.73 0.00 35.56 3.95
4104 4206 4.152402 CCGGATGCTTTTCATATAGAACGG 59.848 45.833 0.00 0.00 35.56 4.44
4105 4207 4.377431 CGGATGCTTTTCATATAGAACGGC 60.377 45.833 0.00 0.00 35.56 5.68
4106 4208 4.515191 GGATGCTTTTCATATAGAACGGCA 59.485 41.667 0.00 0.00 43.31 5.69
4107 4209 4.875544 TGCTTTTCATATAGAACGGCAC 57.124 40.909 0.00 0.00 38.31 5.01
4108 4210 4.257731 TGCTTTTCATATAGAACGGCACA 58.742 39.130 0.00 0.00 38.31 4.57
4109 4211 4.697828 TGCTTTTCATATAGAACGGCACAA 59.302 37.500 0.00 0.00 38.31 3.33
4110 4212 5.182190 TGCTTTTCATATAGAACGGCACAAA 59.818 36.000 0.00 0.00 38.31 2.83
4111 4213 5.739161 GCTTTTCATATAGAACGGCACAAAG 59.261 40.000 0.00 0.00 35.56 2.77
4112 4214 6.622896 GCTTTTCATATAGAACGGCACAAAGT 60.623 38.462 0.00 0.00 35.56 2.66
4113 4215 7.413657 GCTTTTCATATAGAACGGCACAAAGTA 60.414 37.037 0.00 0.00 35.56 2.24
4114 4216 7.908827 TTTCATATAGAACGGCACAAAGTAA 57.091 32.000 0.00 0.00 35.56 2.24
4115 4217 8.500753 TTTCATATAGAACGGCACAAAGTAAT 57.499 30.769 0.00 0.00 35.56 1.89
4116 4218 8.500753 TTCATATAGAACGGCACAAAGTAATT 57.499 30.769 0.00 0.00 0.00 1.40
4117 4219 9.602568 TTCATATAGAACGGCACAAAGTAATTA 57.397 29.630 0.00 0.00 0.00 1.40
4118 4220 9.772973 TCATATAGAACGGCACAAAGTAATTAT 57.227 29.630 0.00 0.00 0.00 1.28
4124 4226 8.188139 AGAACGGCACAAAGTAATTATATTTGG 58.812 33.333 20.97 14.48 38.06 3.28
4125 4227 7.633193 ACGGCACAAAGTAATTATATTTGGA 57.367 32.000 20.97 0.00 38.06 3.53
4126 4228 8.232913 ACGGCACAAAGTAATTATATTTGGAT 57.767 30.769 20.97 7.01 38.06 3.41
4127 4229 9.344772 ACGGCACAAAGTAATTATATTTGGATA 57.655 29.630 20.97 0.00 38.06 2.59
4158 4260 9.359653 TGAACTAAACTGTACTCTAAACCTAGT 57.640 33.333 0.00 0.00 0.00 2.57
4159 4261 9.838975 GAACTAAACTGTACTCTAAACCTAGTC 57.161 37.037 0.00 0.00 0.00 2.59
4160 4262 8.347004 ACTAAACTGTACTCTAAACCTAGTCC 57.653 38.462 0.00 0.00 0.00 3.85
4161 4263 7.946776 ACTAAACTGTACTCTAAACCTAGTCCA 59.053 37.037 0.00 0.00 0.00 4.02
4162 4264 7.607615 AAACTGTACTCTAAACCTAGTCCAA 57.392 36.000 0.00 0.00 0.00 3.53
4163 4265 7.607615 AACTGTACTCTAAACCTAGTCCAAA 57.392 36.000 0.00 0.00 0.00 3.28
4164 4266 7.793948 ACTGTACTCTAAACCTAGTCCAAAT 57.206 36.000 0.00 0.00 0.00 2.32
4165 4267 7.612677 ACTGTACTCTAAACCTAGTCCAAATG 58.387 38.462 0.00 0.00 0.00 2.32
4166 4268 7.453752 ACTGTACTCTAAACCTAGTCCAAATGA 59.546 37.037 0.00 0.00 0.00 2.57
4167 4269 7.609056 TGTACTCTAAACCTAGTCCAAATGAC 58.391 38.462 0.00 0.00 44.82 3.06
4168 4270 6.051179 ACTCTAAACCTAGTCCAAATGACC 57.949 41.667 0.00 0.00 45.68 4.02
4169 4271 5.080969 TCTAAACCTAGTCCAAATGACCG 57.919 43.478 0.00 0.00 45.68 4.79
4170 4272 2.109425 AACCTAGTCCAAATGACCGC 57.891 50.000 0.00 0.00 45.68 5.68
4171 4273 0.252197 ACCTAGTCCAAATGACCGCC 59.748 55.000 0.00 0.00 45.68 6.13
4172 4274 0.251916 CCTAGTCCAAATGACCGCCA 59.748 55.000 0.00 0.00 45.68 5.69
4173 4275 1.339631 CCTAGTCCAAATGACCGCCAA 60.340 52.381 0.00 0.00 45.68 4.52
4174 4276 1.737793 CTAGTCCAAATGACCGCCAAC 59.262 52.381 0.00 0.00 45.68 3.77
4175 4277 0.179004 AGTCCAAATGACCGCCAACA 60.179 50.000 0.00 0.00 45.68 3.33
4176 4278 0.039527 GTCCAAATGACCGCCAACAC 60.040 55.000 0.00 0.00 38.09 3.32
4177 4279 0.466372 TCCAAATGACCGCCAACACA 60.466 50.000 0.00 0.00 0.00 3.72
4178 4280 0.318614 CCAAATGACCGCCAACACAC 60.319 55.000 0.00 0.00 0.00 3.82
4179 4281 0.660005 CAAATGACCGCCAACACACG 60.660 55.000 0.00 0.00 0.00 4.49
4180 4282 1.098712 AAATGACCGCCAACACACGT 61.099 50.000 0.00 0.00 0.00 4.49
4181 4283 1.098712 AATGACCGCCAACACACGTT 61.099 50.000 0.00 0.00 35.01 3.99
4182 4284 1.503818 ATGACCGCCAACACACGTTC 61.504 55.000 0.00 0.00 31.13 3.95
4183 4285 1.885850 GACCGCCAACACACGTTCT 60.886 57.895 0.00 0.00 31.13 3.01
4184 4286 1.433837 GACCGCCAACACACGTTCTT 61.434 55.000 0.00 0.00 31.13 2.52
4185 4287 1.278637 CCGCCAACACACGTTCTTC 59.721 57.895 0.00 0.00 31.13 2.87
4186 4288 1.278637 CGCCAACACACGTTCTTCC 59.721 57.895 0.00 0.00 31.13 3.46
4187 4289 1.433053 CGCCAACACACGTTCTTCCA 61.433 55.000 0.00 0.00 31.13 3.53
4188 4290 0.951558 GCCAACACACGTTCTTCCAT 59.048 50.000 0.00 0.00 31.13 3.41
4189 4291 1.336755 GCCAACACACGTTCTTCCATT 59.663 47.619 0.00 0.00 31.13 3.16
4190 4292 2.223711 GCCAACACACGTTCTTCCATTT 60.224 45.455 0.00 0.00 31.13 2.32
4191 4293 3.628017 CCAACACACGTTCTTCCATTTC 58.372 45.455 0.00 0.00 31.13 2.17
4192 4294 3.550030 CCAACACACGTTCTTCCATTTCC 60.550 47.826 0.00 0.00 31.13 3.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 5.997746 TGGAACTCACACAAGGAAGATAAAG 59.002 40.000 0.00 0.00 0.00 1.85
16 17 5.482163 TGATATCACTTGGAACTCACACA 57.518 39.130 0.00 0.00 0.00 3.72
160 161 3.013921 GGTGCCGGATCTTGTCAATTTA 58.986 45.455 5.05 0.00 0.00 1.40
207 208 5.998454 AGACGGATCAATGATCAATCAAC 57.002 39.130 22.93 5.39 40.50 3.18
231 232 9.432982 AATCCAAATTTACCTTGCCTGATATTA 57.567 29.630 0.00 0.00 0.00 0.98
234 235 6.098124 CCAATCCAAATTTACCTTGCCTGATA 59.902 38.462 0.00 0.00 0.00 2.15
269 270 8.097662 CCCTCTCTATTCCTTTTACATGGTATC 58.902 40.741 0.00 0.00 0.00 2.24
291 292 8.697507 ACAATCAATAATCTTACCAATCCCTC 57.302 34.615 0.00 0.00 0.00 4.30
386 390 6.159988 CGTTTGGAAGGATAGACTATGATCC 58.840 44.000 0.00 5.45 41.81 3.36
387 391 6.750148 ACGTTTGGAAGGATAGACTATGATC 58.250 40.000 0.00 0.00 0.00 2.92
528 563 8.296713 TCTCATAGTTTAGAAAATGGTTTGTGC 58.703 33.333 0.00 0.00 0.00 4.57
552 587 8.532977 AAAATATGCAGCGTAAAAATTGTTCT 57.467 26.923 0.00 0.00 0.00 3.01
834 870 0.657312 CAAGTCAACAAGCACTGCGA 59.343 50.000 0.00 0.00 0.00 5.10
1054 1093 2.211353 GCGGTTAGCGAGAAGAAGAT 57.789 50.000 8.35 0.00 35.41 2.40
1172 1217 4.994852 AGCGACATAACTAAAAAGCTCACA 59.005 37.500 0.00 0.00 0.00 3.58
1248 1293 3.880490 ACACAACAATTCCAGCGACTAAA 59.120 39.130 0.00 0.00 0.00 1.85
1331 1376 2.787473 TATGAACCACCTTCCAGCAG 57.213 50.000 0.00 0.00 0.00 4.24
1388 1433 2.989909 ACAATCGCTTGTCATGGATGA 58.010 42.857 0.00 0.00 41.86 2.92
1424 1469 7.188381 ACAGATCTTCCTATCCTATGCTGTAT 58.812 38.462 0.00 0.00 31.81 2.29
1454 1499 9.579768 TGCTTCTAACCGTAAAATATAACGTTA 57.420 29.630 11.02 11.02 37.40 3.18
1455 1500 8.477984 TGCTTCTAACCGTAAAATATAACGTT 57.522 30.769 5.88 5.88 37.40 3.99
1456 1501 8.652810 ATGCTTCTAACCGTAAAATATAACGT 57.347 30.769 4.96 0.00 37.40 3.99
1458 1503 8.758715 ACGATGCTTCTAACCGTAAAATATAAC 58.241 33.333 0.00 0.00 0.00 1.89
1499 1559 5.064558 TGCCAAGAACCGACATTAGTAAAA 58.935 37.500 0.00 0.00 0.00 1.52
1508 1568 1.879380 CAGAAATGCCAAGAACCGACA 59.121 47.619 0.00 0.00 0.00 4.35
1553 1613 9.552114 CAAAGCTATTGATTTCACAGAAAGTAG 57.448 33.333 0.00 0.96 28.28 2.57
1632 1692 4.344102 CGGACCTCCTATTCCATCTTAACA 59.656 45.833 0.00 0.00 0.00 2.41
1633 1693 4.344390 ACGGACCTCCTATTCCATCTTAAC 59.656 45.833 0.00 0.00 0.00 2.01
1641 1703 1.109609 AACGACGGACCTCCTATTCC 58.890 55.000 0.00 0.00 0.00 3.01
1653 1715 3.930229 TCATTCAACCAAGATAACGACGG 59.070 43.478 0.00 0.00 0.00 4.79
1772 1834 1.967779 ACACATACCCCTTTTGGTTGC 59.032 47.619 0.00 0.00 39.91 4.17
2120 2182 5.423886 CAATGGGTGTTTACCTGTGTTTTT 58.576 37.500 0.00 0.00 46.66 1.94
2155 2217 4.618912 CAGTTGAGACATAACTCACACTCG 59.381 45.833 0.00 0.00 44.94 4.18
2218 2280 3.441572 GCTCAATCTGGTAAGTGCACATT 59.558 43.478 21.04 12.66 0.00 2.71
2464 2526 6.627395 ACTGTGAAATCATACCGACAAAAA 57.373 33.333 0.00 0.00 0.00 1.94
2505 2568 2.972348 AGGCCTGGATAATCGTAAGGA 58.028 47.619 3.11 0.00 38.47 3.36
2699 2763 6.695713 CGATCTTTTGAAGACGTCCATGTATA 59.304 38.462 13.01 0.00 41.01 1.47
2739 2803 1.991070 CAAGATCCCAGGAGGCCATAT 59.009 52.381 5.01 0.00 34.51 1.78
2749 2813 7.458409 TCTCTGAAAATTTTCAAGATCCCAG 57.542 36.000 28.49 17.05 45.61 4.45
2762 2826 6.423776 TTCTTTTGCCCATCTCTGAAAATT 57.576 33.333 0.00 0.00 0.00 1.82
2794 2858 1.611491 GCCCACGAAATTCTTTCACCA 59.389 47.619 0.00 0.00 39.63 4.17
2818 2882 2.642311 TGCTGTAAGAACCATTCCTCCA 59.358 45.455 0.00 0.00 34.07 3.86
2943 3009 6.378710 TTCTCTCCACATCTCACTTATACG 57.621 41.667 0.00 0.00 0.00 3.06
2988 3054 2.633967 AGCCATGACAGGAAATTGCAAA 59.366 40.909 1.71 0.00 0.00 3.68
3307 3373 1.759445 CAGGATAGGGAGGACACAGTG 59.241 57.143 0.00 0.00 0.00 3.66
3429 3500 7.677892 ACTCTGACGGTATATACAGATACTCA 58.322 38.462 18.32 10.73 38.43 3.41
3462 3533 4.574013 GGAATAACCTCTGCAGAGTTCATG 59.426 45.833 35.47 24.36 40.48 3.07
3468 3539 1.576356 GCGGAATAACCTCTGCAGAG 58.424 55.000 32.84 32.84 45.47 3.35
3499 3570 3.741856 TGCACGAAATAGTTAAGCGTCAA 59.258 39.130 0.00 0.00 32.27 3.18
3524 3595 8.501580 CATTGTGCTTATAATACATGGACAGAG 58.498 37.037 0.00 0.00 31.29 3.35
3617 3692 7.178628 ACATCAAGTGTACAACTCTGGTACTAT 59.821 37.037 0.00 0.00 41.27 2.12
3638 3713 7.064966 GTCTGATTGATGAACACATACACATCA 59.935 37.037 0.00 0.00 44.40 3.07
3639 3714 7.064966 TGTCTGATTGATGAACACATACACATC 59.935 37.037 0.00 0.00 39.35 3.06
3640 3715 6.880529 TGTCTGATTGATGAACACATACACAT 59.119 34.615 0.00 0.00 0.00 3.21
3660 3752 4.619760 GCATTGTCATTGTGTCATTGTCTG 59.380 41.667 0.00 0.00 0.00 3.51
3723 3815 2.092323 GGAGGGAGTACCATTTTGTGC 58.908 52.381 0.00 0.00 43.89 4.57
3830 3930 8.463930 AGATGTTCTAACCTTTTTGTGAATCA 57.536 30.769 0.00 0.00 0.00 2.57
3863 3963 5.419471 GCGATATACTACTCCCTCCTTTCAT 59.581 44.000 0.00 0.00 0.00 2.57
3868 3968 2.305343 ACGCGATATACTACTCCCTCCT 59.695 50.000 15.93 0.00 0.00 3.69
3924 4026 6.483640 GGCATATGTACTAGTCTTTCCAAAGG 59.516 42.308 0.00 0.00 36.67 3.11
3930 4032 4.982916 CACGGGCATATGTACTAGTCTTTC 59.017 45.833 0.00 0.00 0.00 2.62
3936 4038 1.000607 ACGCACGGGCATATGTACTAG 60.001 52.381 11.77 0.00 41.24 2.57
3937 4039 1.034356 ACGCACGGGCATATGTACTA 58.966 50.000 11.77 0.00 41.24 1.82
3938 4040 0.177141 AACGCACGGGCATATGTACT 59.823 50.000 11.77 0.00 41.24 2.73
3939 4041 0.303493 CAACGCACGGGCATATGTAC 59.697 55.000 11.77 0.00 41.24 2.90
3940 4042 1.433053 GCAACGCACGGGCATATGTA 61.433 55.000 11.77 0.00 41.24 2.29
3941 4043 2.760159 GCAACGCACGGGCATATGT 61.760 57.895 11.77 0.00 41.24 2.29
3942 4044 2.024588 GCAACGCACGGGCATATG 59.975 61.111 11.77 6.17 41.24 1.78
3943 4045 2.043405 TTGCAACGCACGGGCATAT 61.043 52.632 11.77 0.00 38.71 1.78
3944 4046 2.669910 TTGCAACGCACGGGCATA 60.670 55.556 11.77 0.00 38.71 3.14
3945 4047 4.341502 GTTGCAACGCACGGGCAT 62.342 61.111 14.90 0.00 38.71 4.40
3968 4070 9.801873 TTCGTGAAGAAGATTTTCTCAATTTTT 57.198 25.926 0.00 0.00 42.80 1.94
3969 4071 9.801873 TTTCGTGAAGAAGATTTTCTCAATTTT 57.198 25.926 0.00 0.00 42.80 1.82
3970 4072 9.455847 CTTTCGTGAAGAAGATTTTCTCAATTT 57.544 29.630 0.00 0.00 42.80 1.82
3971 4073 8.840321 TCTTTCGTGAAGAAGATTTTCTCAATT 58.160 29.630 0.00 0.00 42.80 2.32
3972 4074 8.383318 TCTTTCGTGAAGAAGATTTTCTCAAT 57.617 30.769 0.00 0.00 42.80 2.57
3973 4075 7.786178 TCTTTCGTGAAGAAGATTTTCTCAA 57.214 32.000 0.00 0.00 42.80 3.02
3974 4076 7.786178 TTCTTTCGTGAAGAAGATTTTCTCA 57.214 32.000 11.02 0.00 46.69 3.27
3990 4092 9.810545 TGTTCATTTTCCTTAAATTTCTTTCGT 57.189 25.926 0.00 0.00 34.19 3.85
4011 4113 9.993454 TGTTCAAATATCCATCAAATTTGTTCA 57.007 25.926 17.47 0.00 40.10 3.18
4016 4118 8.934825 CGGTTTGTTCAAATATCCATCAAATTT 58.065 29.630 1.33 0.00 0.00 1.82
4017 4119 7.548780 CCGGTTTGTTCAAATATCCATCAAATT 59.451 33.333 0.00 0.00 0.00 1.82
4018 4120 7.041107 CCGGTTTGTTCAAATATCCATCAAAT 58.959 34.615 0.00 0.00 0.00 2.32
4019 4121 6.209589 TCCGGTTTGTTCAAATATCCATCAAA 59.790 34.615 0.00 0.00 0.00 2.69
4020 4122 5.712446 TCCGGTTTGTTCAAATATCCATCAA 59.288 36.000 0.00 0.00 0.00 2.57
4021 4123 5.257262 TCCGGTTTGTTCAAATATCCATCA 58.743 37.500 0.00 0.00 0.00 3.07
4022 4124 5.828299 TCCGGTTTGTTCAAATATCCATC 57.172 39.130 0.00 0.00 0.00 3.51
4023 4125 6.210584 ACTTTCCGGTTTGTTCAAATATCCAT 59.789 34.615 0.00 0.00 0.00 3.41
4024 4126 5.536916 ACTTTCCGGTTTGTTCAAATATCCA 59.463 36.000 0.00 0.00 0.00 3.41
4025 4127 6.020971 ACTTTCCGGTTTGTTCAAATATCC 57.979 37.500 0.00 0.00 0.00 2.59
4026 4128 9.285770 GAATACTTTCCGGTTTGTTCAAATATC 57.714 33.333 0.00 0.00 0.00 1.63
4027 4129 7.966204 CGAATACTTTCCGGTTTGTTCAAATAT 59.034 33.333 0.00 0.00 0.00 1.28
4028 4130 7.041235 ACGAATACTTTCCGGTTTGTTCAAATA 60.041 33.333 0.00 0.00 0.00 1.40
4029 4131 6.146898 CGAATACTTTCCGGTTTGTTCAAAT 58.853 36.000 0.00 0.00 0.00 2.32
4030 4132 5.066246 ACGAATACTTTCCGGTTTGTTCAAA 59.934 36.000 0.00 0.00 0.00 2.69
4031 4133 4.575645 ACGAATACTTTCCGGTTTGTTCAA 59.424 37.500 0.00 0.00 0.00 2.69
4032 4134 4.128643 ACGAATACTTTCCGGTTTGTTCA 58.871 39.130 0.00 0.00 0.00 3.18
4033 4135 4.737353 ACGAATACTTTCCGGTTTGTTC 57.263 40.909 0.00 0.00 0.00 3.18
4034 4136 4.575645 TGAACGAATACTTTCCGGTTTGTT 59.424 37.500 0.00 3.24 32.41 2.83
4035 4137 4.128643 TGAACGAATACTTTCCGGTTTGT 58.871 39.130 0.00 0.99 0.00 2.83
4036 4138 4.735662 TGAACGAATACTTTCCGGTTTG 57.264 40.909 0.00 0.00 0.00 2.93
4037 4139 6.168389 AGTATGAACGAATACTTTCCGGTTT 58.832 36.000 0.00 0.00 39.80 3.27
4038 4140 5.727434 AGTATGAACGAATACTTTCCGGTT 58.273 37.500 0.00 0.00 39.80 4.44
4039 4141 5.334724 AGTATGAACGAATACTTTCCGGT 57.665 39.130 0.00 0.00 39.80 5.28
4040 4142 5.808540 TCAAGTATGAACGAATACTTTCCGG 59.191 40.000 15.40 0.00 46.44 5.14
4041 4143 6.880822 TCAAGTATGAACGAATACTTTCCG 57.119 37.500 15.40 8.71 46.44 4.30
4069 4171 7.442656 TGAAAAGCATCCGGGTTTAATAAAAA 58.557 30.769 0.00 0.00 45.93 1.94
4070 4172 6.994221 TGAAAAGCATCCGGGTTTAATAAAA 58.006 32.000 0.00 0.00 45.93 1.52
4071 4173 6.591750 TGAAAAGCATCCGGGTTTAATAAA 57.408 33.333 0.00 0.00 45.93 1.40
4072 4174 6.783708 ATGAAAAGCATCCGGGTTTAATAA 57.216 33.333 0.00 0.00 45.93 1.40
4073 4175 9.226606 CTATATGAAAAGCATCCGGGTTTAATA 57.773 33.333 0.00 0.00 45.93 0.98
4074 4176 6.976934 ATATGAAAAGCATCCGGGTTTAAT 57.023 33.333 0.00 0.00 45.93 1.40
4075 4177 7.284074 TCTATATGAAAAGCATCCGGGTTTAA 58.716 34.615 0.00 0.00 45.93 1.52
4076 4178 6.833041 TCTATATGAAAAGCATCCGGGTTTA 58.167 36.000 0.00 0.00 45.93 2.01
4078 4180 5.304686 TCTATATGAAAAGCATCCGGGTT 57.695 39.130 0.00 0.00 38.44 4.11
4079 4181 4.974645 TCTATATGAAAAGCATCCGGGT 57.025 40.909 0.00 0.00 38.44 5.28
4080 4182 4.152402 CGTTCTATATGAAAAGCATCCGGG 59.848 45.833 0.00 0.00 38.44 5.73
4081 4183 4.152402 CCGTTCTATATGAAAAGCATCCGG 59.848 45.833 0.00 0.00 38.44 5.14
4082 4184 4.377431 GCCGTTCTATATGAAAAGCATCCG 60.377 45.833 0.00 0.00 38.44 4.18
4083 4185 4.515191 TGCCGTTCTATATGAAAAGCATCC 59.485 41.667 0.00 0.00 38.92 3.51
4084 4186 5.007626 TGTGCCGTTCTATATGAAAAGCATC 59.992 40.000 12.13 8.94 42.78 3.91
4085 4187 4.881273 TGTGCCGTTCTATATGAAAAGCAT 59.119 37.500 12.13 0.00 42.78 3.79
4086 4188 4.257731 TGTGCCGTTCTATATGAAAAGCA 58.742 39.130 0.00 0.00 40.44 3.91
4087 4189 4.875544 TGTGCCGTTCTATATGAAAAGC 57.124 40.909 0.00 0.00 36.30 3.51
4088 4190 6.842163 ACTTTGTGCCGTTCTATATGAAAAG 58.158 36.000 0.00 0.00 36.30 2.27
4089 4191 6.811253 ACTTTGTGCCGTTCTATATGAAAA 57.189 33.333 0.00 0.00 36.30 2.29
4090 4192 7.908827 TTACTTTGTGCCGTTCTATATGAAA 57.091 32.000 0.00 0.00 36.30 2.69
4091 4193 8.500753 AATTACTTTGTGCCGTTCTATATGAA 57.499 30.769 0.00 0.00 0.00 2.57
4092 4194 9.772973 ATAATTACTTTGTGCCGTTCTATATGA 57.227 29.630 0.00 0.00 0.00 2.15
4098 4200 8.188139 CCAAATATAATTACTTTGTGCCGTTCT 58.812 33.333 15.77 0.00 0.00 3.01
4099 4201 8.185505 TCCAAATATAATTACTTTGTGCCGTTC 58.814 33.333 15.77 0.00 0.00 3.95
4100 4202 8.057536 TCCAAATATAATTACTTTGTGCCGTT 57.942 30.769 15.77 0.00 0.00 4.44
4101 4203 7.633193 TCCAAATATAATTACTTTGTGCCGT 57.367 32.000 15.77 0.00 0.00 5.68
4132 4234 9.359653 ACTAGGTTTAGAGTACAGTTTAGTTCA 57.640 33.333 0.00 0.00 0.00 3.18
4133 4235 9.838975 GACTAGGTTTAGAGTACAGTTTAGTTC 57.161 37.037 0.00 0.00 0.00 3.01
4134 4236 8.801299 GGACTAGGTTTAGAGTACAGTTTAGTT 58.199 37.037 0.00 0.00 0.00 2.24
4135 4237 7.946776 TGGACTAGGTTTAGAGTACAGTTTAGT 59.053 37.037 0.00 0.00 31.34 2.24
4136 4238 8.345724 TGGACTAGGTTTAGAGTACAGTTTAG 57.654 38.462 0.00 0.00 31.34 1.85
4137 4239 8.710749 TTGGACTAGGTTTAGAGTACAGTTTA 57.289 34.615 0.00 0.00 37.80 2.01
4138 4240 7.607615 TTGGACTAGGTTTAGAGTACAGTTT 57.392 36.000 0.00 0.00 37.80 2.66
4139 4241 7.607615 TTTGGACTAGGTTTAGAGTACAGTT 57.392 36.000 0.00 0.00 37.80 3.16
4140 4242 7.453752 TCATTTGGACTAGGTTTAGAGTACAGT 59.546 37.037 0.00 0.00 37.80 3.55
4141 4243 7.760340 GTCATTTGGACTAGGTTTAGAGTACAG 59.240 40.741 0.00 0.00 43.46 2.74
4142 4244 7.310237 GGTCATTTGGACTAGGTTTAGAGTACA 60.310 40.741 0.00 0.00 46.16 2.90
4143 4245 7.040494 GGTCATTTGGACTAGGTTTAGAGTAC 58.960 42.308 0.00 0.00 46.16 2.73
4144 4246 6.127535 CGGTCATTTGGACTAGGTTTAGAGTA 60.128 42.308 0.00 0.00 46.16 2.59
4145 4247 5.337330 CGGTCATTTGGACTAGGTTTAGAGT 60.337 44.000 0.00 0.00 46.16 3.24
4146 4248 5.109903 CGGTCATTTGGACTAGGTTTAGAG 58.890 45.833 0.00 0.00 46.16 2.43
4147 4249 4.622220 GCGGTCATTTGGACTAGGTTTAGA 60.622 45.833 0.00 0.00 46.16 2.10
4148 4250 3.621715 GCGGTCATTTGGACTAGGTTTAG 59.378 47.826 0.00 0.00 46.16 1.85
4149 4251 3.602483 GCGGTCATTTGGACTAGGTTTA 58.398 45.455 0.00 0.00 46.16 2.01
4150 4252 2.433436 GCGGTCATTTGGACTAGGTTT 58.567 47.619 0.00 0.00 46.16 3.27
4151 4253 1.339727 GGCGGTCATTTGGACTAGGTT 60.340 52.381 0.00 0.00 46.16 3.50
4152 4254 0.252197 GGCGGTCATTTGGACTAGGT 59.748 55.000 0.00 0.00 46.16 3.08
4153 4255 0.251916 TGGCGGTCATTTGGACTAGG 59.748 55.000 0.00 0.00 46.16 3.02
4154 4256 1.737793 GTTGGCGGTCATTTGGACTAG 59.262 52.381 0.00 0.00 46.16 2.57
4155 4257 1.072489 TGTTGGCGGTCATTTGGACTA 59.928 47.619 0.00 0.00 46.16 2.59
4156 4258 0.179004 TGTTGGCGGTCATTTGGACT 60.179 50.000 0.00 0.00 46.16 3.85
4157 4259 0.039527 GTGTTGGCGGTCATTTGGAC 60.040 55.000 0.00 0.00 46.20 4.02
4158 4260 0.466372 TGTGTTGGCGGTCATTTGGA 60.466 50.000 0.00 0.00 0.00 3.53
4159 4261 0.318614 GTGTGTTGGCGGTCATTTGG 60.319 55.000 0.00 0.00 0.00 3.28
4160 4262 0.660005 CGTGTGTTGGCGGTCATTTG 60.660 55.000 0.00 0.00 0.00 2.32
4161 4263 1.098712 ACGTGTGTTGGCGGTCATTT 61.099 50.000 0.00 0.00 0.00 2.32
4162 4264 1.098712 AACGTGTGTTGGCGGTCATT 61.099 50.000 0.00 0.00 36.81 2.57
4163 4265 1.503818 GAACGTGTGTTGGCGGTCAT 61.504 55.000 0.00 0.00 43.49 3.06
4164 4266 2.125065 AACGTGTGTTGGCGGTCA 60.125 55.556 0.00 0.00 36.81 4.02
4165 4267 1.433837 AAGAACGTGTGTTGGCGGTC 61.434 55.000 0.00 0.00 44.25 4.79
4166 4268 1.433837 GAAGAACGTGTGTTGGCGGT 61.434 55.000 0.00 0.00 38.78 5.68
4167 4269 1.278637 GAAGAACGTGTGTTGGCGG 59.721 57.895 0.00 0.00 38.78 6.13
4168 4270 1.278637 GGAAGAACGTGTGTTGGCG 59.721 57.895 0.00 0.00 38.78 5.69
4169 4271 0.951558 ATGGAAGAACGTGTGTTGGC 59.048 50.000 0.00 0.00 38.78 4.52
4170 4272 3.550030 GGAAATGGAAGAACGTGTGTTGG 60.550 47.826 0.00 0.00 38.78 3.77
4171 4273 3.628017 GGAAATGGAAGAACGTGTGTTG 58.372 45.455 0.00 0.00 38.78 3.33
4172 4274 3.982576 GGAAATGGAAGAACGTGTGTT 57.017 42.857 0.00 0.00 42.23 3.32


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

AutoCloner maintained by Alex Coulton.