Multiple sequence alignment - TraesCS7B01G215000

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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 TraesCS7B01G215000 chr7B 100.000 2609 0 0 1 2609 394401489 394404097 0.000000e+00 4819.0
1 TraesCS7B01G215000 chr7B 89.286 308 31 2 2303 2609 130747242 130746936 4.070000e-103 385.0
2 TraesCS7B01G215000 chr7B 92.754 138 8 2 1467 1603 394402724 394402860 5.700000e-47 198.0
3 TraesCS7B01G215000 chr7B 92.754 138 8 2 1236 1372 394402955 394403091 5.700000e-47 198.0
4 TraesCS7B01G215000 chr7B 85.714 182 22 3 1981 2159 38968105 38967925 3.430000e-44 189.0
5 TraesCS7B01G215000 chr7B 90.071 141 14 0 1982 2122 4094919 4095059 1.590000e-42 183.0
6 TraesCS7B01G215000 chr7B 90.071 141 13 1 1982 2122 25880294 25880433 5.740000e-42 182.0
7 TraesCS7B01G215000 chr7D 94.299 1491 58 18 506 1982 394830586 394832063 0.000000e+00 2257.0
8 TraesCS7B01G215000 chr7D 93.801 371 23 0 1 371 394830125 394830495 2.270000e-155 558.0
9 TraesCS7B01G215000 chr7D 88.636 308 33 2 2303 2609 166514228 166513922 8.820000e-100 374.0
10 TraesCS7B01G215000 chr7D 92.969 128 9 0 1245 1372 394831556 394831683 1.230000e-43 187.0
11 TraesCS7B01G215000 chr7A 93.288 1460 60 23 451 1882 448099508 448100957 0.000000e+00 2119.0
12 TraesCS7B01G215000 chr7A 88.403 457 31 12 1 457 448097843 448098277 4.940000e-147 531.0
13 TraesCS7B01G215000 chr7A 89.073 302 31 2 2309 2609 167904594 167904294 8.820000e-100 374.0
14 TraesCS7B01G215000 chr7A 87.937 315 36 2 2292 2605 448101456 448101769 1.140000e-98 370.0
15 TraesCS7B01G215000 chr7A 92.754 138 8 2 1467 1603 448100305 448100441 5.700000e-47 198.0
16 TraesCS7B01G215000 chr7A 92.754 138 8 2 1236 1372 448100536 448100672 5.700000e-47 198.0
17 TraesCS7B01G215000 chr2A 91.061 179 14 2 1982 2159 504067978 504067801 9.330000e-60 241.0
18 TraesCS7B01G215000 chr1B 85.714 182 23 2 1981 2159 664809533 664809714 3.430000e-44 189.0
19 TraesCS7B01G215000 chr1D 91.241 137 11 1 1982 2118 191375258 191375393 4.430000e-43 185.0
20 TraesCS7B01G215000 chr1D 89.781 137 11 2 1982 2118 191375452 191375585 3.450000e-39 172.0
21 TraesCS7B01G215000 chr2B 90.714 140 10 2 1979 2118 798332448 798332584 1.590000e-42 183.0
22 TraesCS7B01G215000 chr5B 83.607 183 23 3 1980 2159 680284523 680284345 5.780000e-37 165.0
23 TraesCS7B01G215000 chr4B 92.000 75 4 2 2086 2159 28298788 28298715 1.280000e-18 104.0
24 TraesCS7B01G215000 chr4A 90.141 71 7 0 2089 2159 584699983 584700053 2.760000e-15 93.5
25 TraesCS7B01G215000 chr3D 96.364 55 2 0 2104 2158 609825182 609825128 9.940000e-15 91.6
26 TraesCS7B01G215000 chr5A 83.099 71 10 2 2087 2156 598273240 598273309 2.170000e-06 63.9
27 TraesCS7B01G215000 chr3B 100.000 29 0 0 2379 2407 734436820 734436792 1.000000e-03 54.7


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 TraesCS7B01G215000 chr7B 394401489 394404097 2608 False 1738.333333 4819 95.169333 1 2609 3 chr7B.!!$F3 2608
1 TraesCS7B01G215000 chr7D 394830125 394832063 1938 False 1000.666667 2257 93.689667 1 1982 3 chr7D.!!$F1 1981
2 TraesCS7B01G215000 chr7A 448097843 448101769 3926 False 683.200000 2119 91.027200 1 2605 5 chr7A.!!$F1 2604

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
972 2229 0.60864 TTTCTTGCGAGGGAGAGGTC 59.391 55.0 0.0 0.0 0.0 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2276 3891 0.105039 CGAGGACTTCTATGGGTGGC 59.895 60.0 0.0 0.0 0.0 5.01 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
54 55 2.309162 AGCCTGAGTGAGGTCTACTACA 59.691 50.000 0.00 0.00 44.97 2.74
290 295 8.919145 TCATAAACTTTTGAATTGGTACCAACT 58.081 29.630 29.35 19.99 38.88 3.16
314 319 5.465532 TTGGATGTTGCATATGTGTTGTT 57.534 34.783 4.29 0.00 0.00 2.83
324 329 4.990426 GCATATGTGTTGTTTGCTTCCTTT 59.010 37.500 4.29 0.00 0.00 3.11
356 361 4.562082 ACATAAGCGCTTACAGTGTTACA 58.438 39.130 30.92 8.25 0.00 2.41
365 370 5.164215 CGCTTACAGTGTTACAGAGTTTACG 60.164 44.000 0.00 0.00 0.00 3.18
387 392 4.152625 CGGCACAGCTTAGCGCAC 62.153 66.667 11.47 0.00 42.61 5.34
389 394 3.804193 GCACAGCTTAGCGCACCC 61.804 66.667 11.47 0.00 42.61 4.61
404 409 4.227134 CCCTCCCATCGCTCACCG 62.227 72.222 0.00 0.00 38.61 4.94
426 431 1.137404 GCGTTGCCTGCCAATACAG 59.863 57.895 0.00 0.00 35.55 2.74
441 446 0.991920 TACAGAGGCAAGGGGGAAAG 59.008 55.000 0.00 0.00 0.00 2.62
448 453 2.856988 AAGGGGGAAAGCGGTGGA 60.857 61.111 0.00 0.00 0.00 4.02
450 455 3.647771 GGGGGAAAGCGGTGGACT 61.648 66.667 0.00 0.00 0.00 3.85
596 1848 3.305950 CCAGATGATCTCCGATCTTGTCC 60.306 52.174 0.00 0.00 0.00 4.02
612 1865 7.701078 CGATCTTGTCCTTTCTTAGACGAATAA 59.299 37.037 0.00 0.00 35.71 1.40
651 1904 4.816126 ACCATAGGGCATTCTAGAGTACA 58.184 43.478 0.00 0.00 37.90 2.90
687 1941 4.169508 CGCGAGATATCTCAATTTCCGAT 58.830 43.478 27.97 0.00 43.00 4.18
696 1950 9.823098 GATATCTCAATTTCCGATTCATTTCAG 57.177 33.333 0.00 0.00 0.00 3.02
700 1954 3.848272 TTTCCGATTCATTTCAGCACC 57.152 42.857 0.00 0.00 0.00 5.01
701 1955 1.750193 TCCGATTCATTTCAGCACCC 58.250 50.000 0.00 0.00 0.00 4.61
707 1961 4.681781 CGATTCATTTCAGCACCCTCTACT 60.682 45.833 0.00 0.00 0.00 2.57
709 1963 2.501723 TCATTTCAGCACCCTCTACTCC 59.498 50.000 0.00 0.00 0.00 3.85
746 2000 7.552459 TCATCAAAGTCTCCATGTAAATCGTA 58.448 34.615 0.00 0.00 0.00 3.43
757 2011 2.171027 TGTAAATCGTATGGTCCCCACC 59.829 50.000 0.00 0.00 44.10 4.61
767 2021 3.691342 TCCCCACCTCGTTGCTCG 61.691 66.667 0.00 0.00 41.41 5.03
862 2116 3.384789 AGATAAGCTAGCCACATCGTTCA 59.615 43.478 12.13 0.00 0.00 3.18
873 2127 4.631813 GCCACATCGTTCATTCTAGAAACT 59.368 41.667 9.71 0.00 0.00 2.66
898 2154 2.094675 GAGGGCATTGCATTACACACT 58.905 47.619 11.39 0.00 0.00 3.55
900 2156 1.202177 GGGCATTGCATTACACACTCG 60.202 52.381 11.39 0.00 0.00 4.18
912 2168 2.661537 CACTCGCGCACCTCACAA 60.662 61.111 8.75 0.00 0.00 3.33
970 2227 0.898320 TCTTTCTTGCGAGGGAGAGG 59.102 55.000 0.00 0.00 0.00 3.69
971 2228 0.610687 CTTTCTTGCGAGGGAGAGGT 59.389 55.000 0.00 0.00 0.00 3.85
972 2229 0.608640 TTTCTTGCGAGGGAGAGGTC 59.391 55.000 0.00 0.00 0.00 3.85
1076 2338 4.736896 GCCTTCCTCGCCGTCGTT 62.737 66.667 0.00 0.00 36.96 3.85
1716 2984 1.227556 GAACGTGGTGTGAGTGCCT 60.228 57.895 0.00 0.00 0.00 4.75
1799 3067 3.833545 TCTCTTCTGCTACGTTCAGTC 57.166 47.619 14.51 0.00 33.48 3.51
1822 3090 4.143030 CCAATGTTCTCTTCTGCTACGTTG 60.143 45.833 0.00 0.00 36.16 4.10
1840 3109 0.896923 TGCATGCTGGATTGGGTTTC 59.103 50.000 20.33 0.00 0.00 2.78
1855 3124 3.850173 TGGGTTTCTAGGGCAACTCTAAT 59.150 43.478 0.00 0.00 0.00 1.73
1895 3393 3.636153 GAGGATCCTTAGCCAAGTGTT 57.364 47.619 17.42 0.00 31.71 3.32
1922 3531 2.396590 TACTTCAGATTTGGCCGGTC 57.603 50.000 0.00 0.00 0.00 4.79
1924 3533 1.369091 CTTCAGATTTGGCCGGTCCG 61.369 60.000 2.12 3.60 37.80 4.79
1976 3591 5.920273 ACTTTTCTGGTTTATGCATTTCGTG 59.080 36.000 3.54 0.00 0.00 4.35
1982 3597 4.165779 GGTTTATGCATTTCGTGGAACAG 58.834 43.478 3.54 0.00 41.80 3.16
1983 3598 4.320935 GGTTTATGCATTTCGTGGAACAGT 60.321 41.667 3.54 0.00 41.80 3.55
1984 3599 5.106475 GGTTTATGCATTTCGTGGAACAGTA 60.106 40.000 3.54 0.00 41.80 2.74
1985 3600 6.375377 GTTTATGCATTTCGTGGAACAGTAA 58.625 36.000 3.54 0.00 41.80 2.24
1986 3601 6.751514 TTATGCATTTCGTGGAACAGTAAT 57.248 33.333 3.54 0.00 41.80 1.89
1987 3602 4.418013 TGCATTTCGTGGAACAGTAATG 57.582 40.909 0.00 0.00 41.80 1.90
1988 3603 3.171277 GCATTTCGTGGAACAGTAATGC 58.829 45.455 0.00 0.00 41.87 3.56
1989 3604 3.119849 GCATTTCGTGGAACAGTAATGCT 60.120 43.478 0.00 0.00 43.30 3.79
1990 3605 4.094294 GCATTTCGTGGAACAGTAATGCTA 59.906 41.667 0.00 0.00 43.30 3.49
1991 3606 5.560148 CATTTCGTGGAACAGTAATGCTAC 58.440 41.667 0.00 0.00 41.80 3.58
1992 3607 3.945981 TCGTGGAACAGTAATGCTACA 57.054 42.857 0.00 0.00 41.80 2.74
1993 3608 3.581755 TCGTGGAACAGTAATGCTACAC 58.418 45.455 0.00 0.00 41.80 2.90
1994 3609 2.344441 CGTGGAACAGTAATGCTACACG 59.656 50.000 15.88 15.88 41.80 4.49
1995 3610 3.323243 GTGGAACAGTAATGCTACACGT 58.677 45.455 0.00 0.00 41.80 4.49
1996 3611 4.487948 GTGGAACAGTAATGCTACACGTA 58.512 43.478 0.00 0.00 41.80 3.57
1997 3612 4.325472 GTGGAACAGTAATGCTACACGTAC 59.675 45.833 0.00 0.00 41.80 3.67
1998 3613 4.022155 TGGAACAGTAATGCTACACGTACA 60.022 41.667 0.00 0.00 0.00 2.90
1999 3614 4.925054 GGAACAGTAATGCTACACGTACAA 59.075 41.667 0.00 0.00 0.00 2.41
2000 3615 5.406175 GGAACAGTAATGCTACACGTACAAA 59.594 40.000 0.00 0.00 0.00 2.83
2001 3616 6.091713 GGAACAGTAATGCTACACGTACAAAT 59.908 38.462 0.00 0.00 0.00 2.32
2002 3617 6.403333 ACAGTAATGCTACACGTACAAATG 57.597 37.500 0.00 0.00 0.00 2.32
2003 3618 6.160684 ACAGTAATGCTACACGTACAAATGA 58.839 36.000 0.00 0.00 0.00 2.57
2004 3619 6.310467 ACAGTAATGCTACACGTACAAATGAG 59.690 38.462 0.00 0.00 0.00 2.90
2005 3620 6.310467 CAGTAATGCTACACGTACAAATGAGT 59.690 38.462 0.00 0.00 0.00 3.41
2006 3621 6.872020 AGTAATGCTACACGTACAAATGAGTT 59.128 34.615 0.00 0.00 0.00 3.01
2007 3622 8.030692 AGTAATGCTACACGTACAAATGAGTTA 58.969 33.333 0.00 0.00 0.00 2.24
2008 3623 6.642683 ATGCTACACGTACAAATGAGTTAC 57.357 37.500 0.00 0.00 0.00 2.50
2009 3624 4.618067 TGCTACACGTACAAATGAGTTACG 59.382 41.667 0.00 0.00 39.69 3.18
2010 3625 4.030977 GCTACACGTACAAATGAGTTACGG 59.969 45.833 5.48 0.00 38.32 4.02
2011 3626 4.241590 ACACGTACAAATGAGTTACGGA 57.758 40.909 5.48 0.00 38.32 4.69
2012 3627 4.232221 ACACGTACAAATGAGTTACGGAG 58.768 43.478 5.48 0.77 38.32 4.63
2014 3629 4.682860 CACGTACAAATGAGTTACGGAGTT 59.317 41.667 5.48 0.00 37.78 3.01
2015 3630 5.176223 CACGTACAAATGAGTTACGGAGTTT 59.824 40.000 5.48 0.00 37.78 2.66
2016 3631 5.754890 ACGTACAAATGAGTTACGGAGTTTT 59.245 36.000 5.48 0.00 37.78 2.43
2017 3632 6.922957 ACGTACAAATGAGTTACGGAGTTTTA 59.077 34.615 5.48 0.00 37.78 1.52
2018 3633 7.096065 ACGTACAAATGAGTTACGGAGTTTTAC 60.096 37.037 5.48 0.00 37.78 2.01
2019 3634 7.096106 CGTACAAATGAGTTACGGAGTTTTACA 60.096 37.037 0.00 0.00 37.78 2.41
2020 3635 7.556733 ACAAATGAGTTACGGAGTTTTACAA 57.443 32.000 0.00 0.00 37.78 2.41
2021 3636 7.987649 ACAAATGAGTTACGGAGTTTTACAAA 58.012 30.769 0.00 0.00 37.78 2.83
2022 3637 8.126700 ACAAATGAGTTACGGAGTTTTACAAAG 58.873 33.333 0.00 0.00 37.78 2.77
2023 3638 8.339714 CAAATGAGTTACGGAGTTTTACAAAGA 58.660 33.333 0.00 0.00 37.78 2.52
2024 3639 8.441312 AATGAGTTACGGAGTTTTACAAAGAA 57.559 30.769 0.00 0.00 37.78 2.52
2025 3640 7.846644 TGAGTTACGGAGTTTTACAAAGAAA 57.153 32.000 0.00 0.00 37.78 2.52
2026 3641 7.912383 TGAGTTACGGAGTTTTACAAAGAAAG 58.088 34.615 0.00 0.00 37.78 2.62
2027 3642 7.550196 TGAGTTACGGAGTTTTACAAAGAAAGT 59.450 33.333 0.00 0.00 37.78 2.66
2028 3643 8.272545 AGTTACGGAGTTTTACAAAGAAAGTT 57.727 30.769 0.00 0.00 37.78 2.66
2029 3644 9.382275 AGTTACGGAGTTTTACAAAGAAAGTTA 57.618 29.630 0.00 0.00 37.78 2.24
2030 3645 9.986833 GTTACGGAGTTTTACAAAGAAAGTTAA 57.013 29.630 0.00 0.00 37.78 2.01
2041 3656 9.974980 TTACAAAGAAAGTTAATTTGATGGGTC 57.025 29.630 15.81 0.00 37.37 4.46
2042 3657 8.017418 ACAAAGAAAGTTAATTTGATGGGTCA 57.983 30.769 15.81 0.00 37.37 4.02
2043 3658 8.482128 ACAAAGAAAGTTAATTTGATGGGTCAA 58.518 29.630 15.81 0.00 42.41 3.18
2044 3659 9.492973 CAAAGAAAGTTAATTTGATGGGTCAAT 57.507 29.630 6.81 0.00 43.49 2.57
2047 3662 9.753674 AGAAAGTTAATTTGATGGGTCAATAGA 57.246 29.630 0.00 0.00 43.49 1.98
2051 3666 9.799106 AGTTAATTTGATGGGTCAATAGATAGG 57.201 33.333 0.00 0.00 43.49 2.57
2052 3667 9.014297 GTTAATTTGATGGGTCAATAGATAGGG 57.986 37.037 0.00 0.00 43.49 3.53
2053 3668 7.406620 AATTTGATGGGTCAATAGATAGGGA 57.593 36.000 0.00 0.00 43.49 4.20
2054 3669 6.439636 TTTGATGGGTCAATAGATAGGGAG 57.560 41.667 0.00 0.00 43.49 4.30
2055 3670 4.429505 TGATGGGTCAATAGATAGGGAGG 58.570 47.826 0.00 0.00 0.00 4.30
2056 3671 2.621070 TGGGTCAATAGATAGGGAGGC 58.379 52.381 0.00 0.00 0.00 4.70
2057 3672 1.550976 GGGTCAATAGATAGGGAGGCG 59.449 57.143 0.00 0.00 0.00 5.52
2058 3673 1.550976 GGTCAATAGATAGGGAGGCGG 59.449 57.143 0.00 0.00 0.00 6.13
2059 3674 2.249139 GTCAATAGATAGGGAGGCGGT 58.751 52.381 0.00 0.00 0.00 5.68
2060 3675 2.231721 GTCAATAGATAGGGAGGCGGTC 59.768 54.545 0.00 0.00 0.00 4.79
2061 3676 1.550976 CAATAGATAGGGAGGCGGTCC 59.449 57.143 0.00 0.00 46.10 4.46
2073 3688 2.606519 CGGTCCACCCCTCCTGAA 60.607 66.667 0.00 0.00 0.00 3.02
2074 3689 2.221299 CGGTCCACCCCTCCTGAAA 61.221 63.158 0.00 0.00 0.00 2.69
2075 3690 1.774894 CGGTCCACCCCTCCTGAAAA 61.775 60.000 0.00 0.00 0.00 2.29
2076 3691 0.704664 GGTCCACCCCTCCTGAAAAT 59.295 55.000 0.00 0.00 0.00 1.82
2077 3692 1.341089 GGTCCACCCCTCCTGAAAATC 60.341 57.143 0.00 0.00 0.00 2.17
2078 3693 1.354368 GTCCACCCCTCCTGAAAATCA 59.646 52.381 0.00 0.00 0.00 2.57
2079 3694 1.635487 TCCACCCCTCCTGAAAATCAG 59.365 52.381 0.32 0.32 43.91 2.90
2090 3705 4.698583 CTGAAAATCAGGAGGAAGCAAG 57.301 45.455 0.00 0.00 40.71 4.01
2091 3706 4.077822 CTGAAAATCAGGAGGAAGCAAGT 58.922 43.478 0.00 0.00 40.71 3.16
2092 3707 4.473444 TGAAAATCAGGAGGAAGCAAGTT 58.527 39.130 0.00 0.00 0.00 2.66
2093 3708 4.895297 TGAAAATCAGGAGGAAGCAAGTTT 59.105 37.500 0.00 0.00 0.00 2.66
2094 3709 4.861102 AAATCAGGAGGAAGCAAGTTTG 57.139 40.909 0.00 0.00 0.00 2.93
2095 3710 3.515602 ATCAGGAGGAAGCAAGTTTGT 57.484 42.857 0.00 0.00 0.00 2.83
2096 3711 2.575532 TCAGGAGGAAGCAAGTTTGTG 58.424 47.619 0.00 0.00 0.00 3.33
2097 3712 2.172505 TCAGGAGGAAGCAAGTTTGTGA 59.827 45.455 0.00 0.00 0.00 3.58
2098 3713 3.152341 CAGGAGGAAGCAAGTTTGTGAT 58.848 45.455 0.00 0.00 0.00 3.06
2099 3714 3.571401 CAGGAGGAAGCAAGTTTGTGATT 59.429 43.478 0.00 0.00 0.00 2.57
2100 3715 3.571401 AGGAGGAAGCAAGTTTGTGATTG 59.429 43.478 0.00 0.00 0.00 2.67
2101 3716 3.305608 GGAGGAAGCAAGTTTGTGATTGG 60.306 47.826 0.00 0.00 0.00 3.16
2102 3717 3.299503 AGGAAGCAAGTTTGTGATTGGT 58.700 40.909 0.00 0.00 38.70 3.67
2103 3718 3.706086 AGGAAGCAAGTTTGTGATTGGTT 59.294 39.130 2.35 2.35 46.54 3.67
2104 3719 4.892934 AGGAAGCAAGTTTGTGATTGGTTA 59.107 37.500 2.71 0.00 44.59 2.85
2105 3720 5.010012 AGGAAGCAAGTTTGTGATTGGTTAG 59.990 40.000 2.71 0.00 44.59 2.34
2106 3721 5.221244 GGAAGCAAGTTTGTGATTGGTTAGT 60.221 40.000 2.71 0.00 44.59 2.24
2107 3722 6.016610 GGAAGCAAGTTTGTGATTGGTTAGTA 60.017 38.462 2.71 0.00 44.59 1.82
2108 3723 6.560253 AGCAAGTTTGTGATTGGTTAGTAG 57.440 37.500 0.00 0.00 33.59 2.57
2109 3724 6.296026 AGCAAGTTTGTGATTGGTTAGTAGA 58.704 36.000 0.00 0.00 33.59 2.59
2110 3725 6.942576 AGCAAGTTTGTGATTGGTTAGTAGAT 59.057 34.615 0.00 0.00 33.59 1.98
2111 3726 7.023575 GCAAGTTTGTGATTGGTTAGTAGATG 58.976 38.462 0.00 0.00 0.00 2.90
2112 3727 7.094805 GCAAGTTTGTGATTGGTTAGTAGATGA 60.095 37.037 0.00 0.00 0.00 2.92
2113 3728 8.783093 CAAGTTTGTGATTGGTTAGTAGATGAA 58.217 33.333 0.00 0.00 0.00 2.57
2114 3729 8.918202 AGTTTGTGATTGGTTAGTAGATGAAA 57.082 30.769 0.00 0.00 0.00 2.69
2115 3730 9.349713 AGTTTGTGATTGGTTAGTAGATGAAAA 57.650 29.630 0.00 0.00 0.00 2.29
2116 3731 9.959749 GTTTGTGATTGGTTAGTAGATGAAAAA 57.040 29.630 0.00 0.00 0.00 1.94
2142 3757 9.445786 AAGTTCGTAAACTCATGTATTTGTTTG 57.554 29.630 7.06 0.00 45.07 2.93
2143 3758 8.617809 AGTTCGTAAACTCATGTATTTGTTTGT 58.382 29.630 7.06 0.00 42.10 2.83
2144 3759 9.866936 GTTCGTAAACTCATGTATTTGTTTGTA 57.133 29.630 7.06 0.00 34.88 2.41
2147 3762 9.820229 CGTAAACTCATGTATTTGTTTGTATGT 57.180 29.630 7.06 0.00 34.88 2.29
2186 3801 3.549467 CACCGTCATGTGTGTCCG 58.451 61.111 0.00 0.00 0.00 4.79
2187 3802 2.357034 ACCGTCATGTGTGTCCGC 60.357 61.111 0.00 0.00 0.00 5.54
2189 3804 3.478394 CGTCATGTGTGTCCGCGG 61.478 66.667 22.12 22.12 0.00 6.46
2203 3818 3.945434 GCGGCGATGCTGACCATG 61.945 66.667 12.98 0.00 37.02 3.66
2204 3819 3.945434 CGGCGATGCTGACCATGC 61.945 66.667 0.00 0.00 37.02 4.06
2205 3820 3.589881 GGCGATGCTGACCATGCC 61.590 66.667 0.00 0.00 39.32 4.40
2206 3821 3.945434 GCGATGCTGACCATGCCG 61.945 66.667 0.00 0.00 33.29 5.69
2208 3823 1.815003 CGATGCTGACCATGCCGAA 60.815 57.895 0.00 0.00 33.29 4.30
2209 3824 1.368345 CGATGCTGACCATGCCGAAA 61.368 55.000 0.00 0.00 33.29 3.46
2210 3825 0.810648 GATGCTGACCATGCCGAAAA 59.189 50.000 0.00 0.00 33.29 2.29
2212 3827 1.154225 GCTGACCATGCCGAAAACG 60.154 57.895 0.00 0.00 0.00 3.60
2213 3828 1.154225 CTGACCATGCCGAAAACGC 60.154 57.895 0.00 0.00 0.00 4.84
2214 3829 2.178273 GACCATGCCGAAAACGCC 59.822 61.111 0.00 0.00 0.00 5.68
2234 3849 4.794439 CGTCCGCCATCGTGCTCA 62.794 66.667 0.00 0.00 0.00 4.26
2235 3850 2.202932 GTCCGCCATCGTGCTCAT 60.203 61.111 0.00 0.00 0.00 2.90
2236 3851 2.202919 TCCGCCATCGTGCTCATG 60.203 61.111 0.00 0.00 0.00 3.07
2237 3852 3.945434 CCGCCATCGTGCTCATGC 61.945 66.667 0.00 0.00 40.20 4.06
2238 3853 2.893895 CGCCATCGTGCTCATGCT 60.894 61.111 0.00 0.00 40.48 3.79
2239 3854 2.879070 CGCCATCGTGCTCATGCTC 61.879 63.158 0.00 0.00 40.48 4.26
2245 3860 3.260483 GTGCTCATGCTCGGCGAG 61.260 66.667 31.40 31.40 40.48 5.03
2246 3861 4.519437 TGCTCATGCTCGGCGAGG 62.519 66.667 35.03 20.44 40.48 4.63
2247 3862 4.212913 GCTCATGCTCGGCGAGGA 62.213 66.667 35.03 33.81 33.93 3.71
2248 3863 2.733301 CTCATGCTCGGCGAGGAT 59.267 61.111 33.83 33.83 41.26 3.24
2251 3866 2.839632 ATGCTCGGCGAGGATGGA 60.840 61.111 37.36 16.43 39.20 3.41
2252 3867 2.865598 ATGCTCGGCGAGGATGGAG 61.866 63.158 37.36 14.04 39.20 3.86
2253 3868 4.292178 GCTCGGCGAGGATGGAGG 62.292 72.222 35.03 11.46 0.00 4.30
2254 3869 3.610669 CTCGGCGAGGATGGAGGG 61.611 72.222 28.52 0.25 0.00 4.30
2257 3872 4.247380 GGCGAGGATGGAGGGCTG 62.247 72.222 0.00 0.00 0.00 4.85
2258 3873 4.925861 GCGAGGATGGAGGGCTGC 62.926 72.222 0.00 0.00 0.00 5.25
2259 3874 4.598894 CGAGGATGGAGGGCTGCG 62.599 72.222 0.00 0.00 0.00 5.18
2260 3875 3.474570 GAGGATGGAGGGCTGCGT 61.475 66.667 0.00 0.00 0.00 5.24
2261 3876 3.011517 AGGATGGAGGGCTGCGTT 61.012 61.111 0.00 0.00 0.00 4.84
2262 3877 2.825836 GGATGGAGGGCTGCGTTG 60.826 66.667 0.00 0.00 0.00 4.10
2263 3878 2.825836 GATGGAGGGCTGCGTTGG 60.826 66.667 0.00 0.00 0.00 3.77
2264 3879 4.431131 ATGGAGGGCTGCGTTGGG 62.431 66.667 0.00 0.00 0.00 4.12
2271 3886 4.025401 GCTGCGTTGGGGTCGTTG 62.025 66.667 0.00 0.00 0.00 4.10
2272 3887 2.590575 CTGCGTTGGGGTCGTTGT 60.591 61.111 0.00 0.00 0.00 3.32
2273 3888 1.301087 CTGCGTTGGGGTCGTTGTA 60.301 57.895 0.00 0.00 0.00 2.41
2274 3889 1.289109 CTGCGTTGGGGTCGTTGTAG 61.289 60.000 0.00 0.00 0.00 2.74
2275 3890 2.030958 GCGTTGGGGTCGTTGTAGG 61.031 63.158 0.00 0.00 0.00 3.18
2276 3891 1.375013 CGTTGGGGTCGTTGTAGGG 60.375 63.158 0.00 0.00 0.00 3.53
2277 3892 1.673337 GTTGGGGTCGTTGTAGGGC 60.673 63.158 0.00 0.00 0.00 5.19
2278 3893 2.897762 TTGGGGTCGTTGTAGGGCC 61.898 63.158 0.00 0.00 0.00 5.80
2279 3894 3.324108 GGGGTCGTTGTAGGGCCA 61.324 66.667 6.18 0.00 0.00 5.36
2280 3895 2.046604 GGGTCGTTGTAGGGCCAC 60.047 66.667 6.18 2.35 0.00 5.01
2281 3896 2.046604 GGTCGTTGTAGGGCCACC 60.047 66.667 6.18 0.00 0.00 4.61
2282 3897 2.046604 GTCGTTGTAGGGCCACCC 60.047 66.667 6.18 0.00 45.90 4.61
2297 3912 0.105039 CACCCATAGAAGTCCTCGGC 59.895 60.000 0.00 0.00 0.00 5.54
2317 3932 1.815421 ATCGCCCATGCACGTCTTC 60.815 57.895 0.00 0.00 37.32 2.87
2320 3935 1.220749 GCCCATGCACGTCTTCCTA 59.779 57.895 0.00 0.00 37.47 2.94
2326 3941 2.571757 CACGTCTTCCTAGCCGCA 59.428 61.111 0.00 0.00 0.00 5.69
2376 3991 3.323136 CGTGATGTAGCCGCGCTC 61.323 66.667 5.56 0.00 40.44 5.03
2386 4001 4.849329 CCGCGCTCCGTGTACCTC 62.849 72.222 5.56 0.00 35.46 3.85
2406 4021 0.388134 GTCGACTACGCTTGCTTCCA 60.388 55.000 8.70 0.00 39.58 3.53
2423 4038 3.501911 ACACCAAGCCCAGCCACT 61.502 61.111 0.00 0.00 0.00 4.00
2447 4062 1.815421 CCCTTCGGCACATTCCTCG 60.815 63.158 0.00 0.00 0.00 4.63
2498 4114 3.260483 GCTCCATGACGAGCGCAG 61.260 66.667 11.47 5.62 45.39 5.18
2522 4138 1.210155 GTTTCATGACGTGGCTGCC 59.790 57.895 12.87 12.87 0.00 4.85
2544 4160 3.702048 CGGTCCGGGCTCAGGAAA 61.702 66.667 5.77 0.00 39.84 3.13
2549 4165 0.325671 TCCGGGCTCAGGAAAGAGAT 60.326 55.000 0.00 0.00 37.87 2.75
2579 4195 3.134127 GGCGCACCACTTCATCCC 61.134 66.667 10.83 0.00 35.26 3.85
2583 4199 2.819595 CACCACTTCATCCCGCCG 60.820 66.667 0.00 0.00 0.00 6.46
2588 4204 2.279252 CTTCATCCCGCCGTACCG 60.279 66.667 0.00 0.00 0.00 4.02
2600 4216 1.217244 CGTACCGGAACTTGGGAGG 59.783 63.158 9.46 0.00 0.00 4.30
2602 4218 2.295602 TACCGGAACTTGGGAGGCC 61.296 63.158 9.46 0.00 0.00 5.19
2603 4219 2.758852 TACCGGAACTTGGGAGGCCT 62.759 60.000 9.46 3.86 0.00 5.19
2604 4220 2.269241 CGGAACTTGGGAGGCCTC 59.731 66.667 25.59 25.59 0.00 4.70
2605 4221 2.592993 CGGAACTTGGGAGGCCTCA 61.593 63.158 33.29 12.97 0.00 3.86
2606 4222 1.002011 GGAACTTGGGAGGCCTCAC 60.002 63.158 33.29 31.36 0.00 3.51
2607 4223 1.376037 GAACTTGGGAGGCCTCACG 60.376 63.158 33.29 20.80 35.27 4.35
2608 4224 3.553095 AACTTGGGAGGCCTCACGC 62.553 63.158 33.29 17.66 35.27 5.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 4.391830 CCGAGCTGCAACTTCTTTATTGTA 59.608 41.667 1.02 0.00 0.00 2.41
22 23 3.306595 CTCAGGCTCCGAGCTGCAA 62.307 63.158 19.68 3.23 41.99 4.08
54 55 0.966920 ACTTTCGACATCTCCACGGT 59.033 50.000 0.00 0.00 0.00 4.83
126 127 2.222027 GGGAATATCCTGCGTTTCCAG 58.778 52.381 3.25 0.00 39.52 3.86
290 295 5.851720 ACAACACATATGCAACATCCAAAA 58.148 33.333 1.58 0.00 0.00 2.44
314 319 3.576078 TTCCTGAGACAAAGGAAGCAA 57.424 42.857 0.75 0.00 46.56 3.91
324 329 1.550524 AGCGCTTATGTTCCTGAGACA 59.449 47.619 2.64 0.00 0.00 3.41
356 361 0.386478 GTGCCGACGACGTAAACTCT 60.386 55.000 0.00 0.00 37.88 3.24
365 370 2.445438 GCTAAGCTGTGCCGACGAC 61.445 63.158 0.00 0.00 0.00 4.34
387 392 4.227134 CGGTGAGCGATGGGAGGG 62.227 72.222 0.00 0.00 0.00 4.30
408 413 1.137404 CTGTATTGGCAGGCAACGC 59.863 57.895 12.39 8.36 46.39 4.84
426 431 2.751837 CGCTTTCCCCCTTGCCTC 60.752 66.667 0.00 0.00 0.00 4.70
435 440 2.359975 CCAGTCCACCGCTTTCCC 60.360 66.667 0.00 0.00 0.00 3.97
441 446 4.643387 ACAAGCCCAGTCCACCGC 62.643 66.667 0.00 0.00 0.00 5.68
448 453 2.594592 GCCGACAACAAGCCCAGT 60.595 61.111 0.00 0.00 0.00 4.00
450 455 2.661840 TAACGCCGACAACAAGCCCA 62.662 55.000 0.00 0.00 0.00 5.36
498 1739 3.257561 CATCTTCGTGCTCCGCGG 61.258 66.667 22.12 22.12 37.97 6.46
499 1740 1.805539 TTCATCTTCGTGCTCCGCG 60.806 57.895 0.00 0.00 38.82 6.46
530 1771 4.141855 ACGGCGATTTCAGTTAAAAGTG 57.858 40.909 16.62 0.00 0.00 3.16
596 1848 8.738554 CGACAAGATCTTATTCGTCTAAGAAAG 58.261 37.037 22.07 4.31 40.23 2.62
612 1865 4.553330 ATGGTACCAAACGACAAGATCT 57.447 40.909 20.76 0.00 0.00 2.75
651 1904 6.768861 AGATATCTCGCGCTAGGAATATAAGT 59.231 38.462 9.28 0.00 0.00 2.24
664 1917 2.091277 CGGAAATTGAGATATCTCGCGC 59.909 50.000 24.27 13.13 45.72 6.86
687 1941 3.055094 GGAGTAGAGGGTGCTGAAATGAA 60.055 47.826 0.00 0.00 0.00 2.57
696 1950 0.537653 GGAAGTGGAGTAGAGGGTGC 59.462 60.000 0.00 0.00 0.00 5.01
700 1954 3.374042 TGAGAGGAAGTGGAGTAGAGG 57.626 52.381 0.00 0.00 0.00 3.69
701 1955 4.531854 TGATGAGAGGAAGTGGAGTAGAG 58.468 47.826 0.00 0.00 0.00 2.43
707 1961 4.533707 ACTTTGATGATGAGAGGAAGTGGA 59.466 41.667 0.00 0.00 0.00 4.02
709 1963 5.732633 AGACTTTGATGATGAGAGGAAGTG 58.267 41.667 0.00 0.00 0.00 3.16
862 2116 2.774809 GCCCTCCCTGAGTTTCTAGAAT 59.225 50.000 5.89 0.00 0.00 2.40
873 2127 0.925558 TAATGCAATGCCCTCCCTGA 59.074 50.000 1.53 0.00 0.00 3.86
898 2154 2.964925 GTGTTGTGAGGTGCGCGA 60.965 61.111 12.10 0.00 0.00 5.87
900 2156 3.660111 GGGTGTTGTGAGGTGCGC 61.660 66.667 0.00 0.00 0.00 6.09
912 2168 0.776080 AAAGGTGGATGGAGGGGTGT 60.776 55.000 0.00 0.00 0.00 4.16
970 2227 2.743928 CCCTGGTTGCTCGCTGAC 60.744 66.667 0.00 0.00 0.00 3.51
971 2228 2.922503 TCCCTGGTTGCTCGCTGA 60.923 61.111 0.00 0.00 0.00 4.26
972 2229 2.435586 CTCCCTGGTTGCTCGCTG 60.436 66.667 0.00 0.00 0.00 5.18
1359 2621 0.744874 CCTTCTCGGACCGCATCTTA 59.255 55.000 9.66 0.00 33.16 2.10
1545 2807 2.092753 CAGGATGTTGTAGAGCACCCAT 60.093 50.000 0.00 0.00 0.00 4.00
1716 2984 5.982356 ACAAGATTAGAGAGTATGCAAGCA 58.018 37.500 0.00 0.00 0.00 3.91
1799 3067 3.589988 ACGTAGCAGAAGAGAACATTGG 58.410 45.455 0.00 0.00 0.00 3.16
1822 3090 1.188863 AGAAACCCAATCCAGCATGC 58.811 50.000 10.51 10.51 31.97 4.06
1840 3109 5.163258 ACAGGATTGATTAGAGTTGCCCTAG 60.163 44.000 0.00 0.00 0.00 3.02
1855 3124 9.408648 GATCCTCCTTTATTTTTACAGGATTGA 57.591 33.333 0.00 0.00 39.02 2.57
1933 3542 9.269453 AGAAAAGTAACTCCGTTATATATTGCC 57.731 33.333 0.00 0.00 30.49 4.52
1951 3560 7.081349 CACGAAATGCATAAACCAGAAAAGTA 58.919 34.615 0.00 0.00 0.00 2.24
1953 3562 5.345741 CCACGAAATGCATAAACCAGAAAAG 59.654 40.000 0.00 0.00 0.00 2.27
1958 3573 4.165779 GTTCCACGAAATGCATAAACCAG 58.834 43.478 0.00 0.00 0.00 4.00
1960 3575 4.165779 CTGTTCCACGAAATGCATAAACC 58.834 43.478 0.00 0.00 0.00 3.27
1976 3591 4.487948 TGTACGTGTAGCATTACTGTTCC 58.512 43.478 0.00 0.00 0.00 3.62
1982 3597 6.642683 ACTCATTTGTACGTGTAGCATTAC 57.357 37.500 0.00 0.00 0.00 1.89
1983 3598 7.008538 CGTAACTCATTTGTACGTGTAGCATTA 59.991 37.037 0.00 0.00 0.00 1.90
1984 3599 6.183360 CGTAACTCATTTGTACGTGTAGCATT 60.183 38.462 0.00 0.00 0.00 3.56
1985 3600 5.287752 CGTAACTCATTTGTACGTGTAGCAT 59.712 40.000 0.00 0.00 0.00 3.79
1986 3601 4.618067 CGTAACTCATTTGTACGTGTAGCA 59.382 41.667 0.00 0.00 0.00 3.49
1987 3602 4.030977 CCGTAACTCATTTGTACGTGTAGC 59.969 45.833 0.00 0.00 32.90 3.58
1988 3603 5.393124 TCCGTAACTCATTTGTACGTGTAG 58.607 41.667 0.00 0.00 32.90 2.74
1989 3604 5.048782 ACTCCGTAACTCATTTGTACGTGTA 60.049 40.000 0.00 0.00 32.90 2.90
1990 3605 4.232221 CTCCGTAACTCATTTGTACGTGT 58.768 43.478 0.00 0.00 32.90 4.49
1991 3606 4.232221 ACTCCGTAACTCATTTGTACGTG 58.768 43.478 0.00 0.00 32.90 4.49
1992 3607 4.510038 ACTCCGTAACTCATTTGTACGT 57.490 40.909 0.00 0.00 32.90 3.57
1993 3608 5.834239 AAACTCCGTAACTCATTTGTACG 57.166 39.130 0.00 0.00 0.00 3.67
1994 3609 8.075593 TGTAAAACTCCGTAACTCATTTGTAC 57.924 34.615 0.00 0.00 0.00 2.90
1995 3610 8.659925 TTGTAAAACTCCGTAACTCATTTGTA 57.340 30.769 0.00 0.00 0.00 2.41
1996 3611 7.556733 TTGTAAAACTCCGTAACTCATTTGT 57.443 32.000 0.00 0.00 0.00 2.83
1997 3612 8.339714 TCTTTGTAAAACTCCGTAACTCATTTG 58.660 33.333 0.00 0.00 0.00 2.32
1998 3613 8.441312 TCTTTGTAAAACTCCGTAACTCATTT 57.559 30.769 0.00 0.00 0.00 2.32
1999 3614 8.441312 TTCTTTGTAAAACTCCGTAACTCATT 57.559 30.769 0.00 0.00 0.00 2.57
2000 3615 8.441312 TTTCTTTGTAAAACTCCGTAACTCAT 57.559 30.769 0.00 0.00 0.00 2.90
2001 3616 7.550196 ACTTTCTTTGTAAAACTCCGTAACTCA 59.450 33.333 0.00 0.00 0.00 3.41
2002 3617 7.913423 ACTTTCTTTGTAAAACTCCGTAACTC 58.087 34.615 0.00 0.00 0.00 3.01
2003 3618 7.854557 ACTTTCTTTGTAAAACTCCGTAACT 57.145 32.000 0.00 0.00 0.00 2.24
2004 3619 9.986833 TTAACTTTCTTTGTAAAACTCCGTAAC 57.013 29.630 0.00 0.00 0.00 2.50
2015 3630 9.974980 GACCCATCAAATTAACTTTCTTTGTAA 57.025 29.630 0.00 0.00 32.89 2.41
2016 3631 9.137459 TGACCCATCAAATTAACTTTCTTTGTA 57.863 29.630 0.00 0.00 32.89 2.41
2017 3632 8.017418 TGACCCATCAAATTAACTTTCTTTGT 57.983 30.769 0.00 0.00 32.89 2.83
2018 3633 8.885494 TTGACCCATCAAATTAACTTTCTTTG 57.115 30.769 0.00 0.00 41.99 2.77
2033 3648 4.429505 CCTCCCTATCTATTGACCCATCA 58.570 47.826 0.00 0.00 0.00 3.07
2034 3649 3.198853 GCCTCCCTATCTATTGACCCATC 59.801 52.174 0.00 0.00 0.00 3.51
2035 3650 3.185455 GCCTCCCTATCTATTGACCCAT 58.815 50.000 0.00 0.00 0.00 4.00
2036 3651 2.621070 GCCTCCCTATCTATTGACCCA 58.379 52.381 0.00 0.00 0.00 4.51
2037 3652 1.550976 CGCCTCCCTATCTATTGACCC 59.449 57.143 0.00 0.00 0.00 4.46
2038 3653 1.550976 CCGCCTCCCTATCTATTGACC 59.449 57.143 0.00 0.00 0.00 4.02
2039 3654 2.231721 GACCGCCTCCCTATCTATTGAC 59.768 54.545 0.00 0.00 0.00 3.18
2040 3655 2.526432 GACCGCCTCCCTATCTATTGA 58.474 52.381 0.00 0.00 0.00 2.57
2041 3656 1.550976 GGACCGCCTCCCTATCTATTG 59.449 57.143 0.00 0.00 31.83 1.90
2042 3657 1.149288 TGGACCGCCTCCCTATCTATT 59.851 52.381 0.00 0.00 38.49 1.73
2043 3658 0.784495 TGGACCGCCTCCCTATCTAT 59.216 55.000 0.00 0.00 38.49 1.98
2044 3659 0.178970 GTGGACCGCCTCCCTATCTA 60.179 60.000 0.00 0.00 38.49 1.98
2045 3660 1.457831 GTGGACCGCCTCCCTATCT 60.458 63.158 0.00 0.00 38.49 1.98
2046 3661 2.508751 GGTGGACCGCCTCCCTATC 61.509 68.421 17.39 0.00 41.12 2.08
2047 3662 2.446036 GGTGGACCGCCTCCCTAT 60.446 66.667 17.39 0.00 41.12 2.57
2056 3671 1.774894 TTTTCAGGAGGGGTGGACCG 61.775 60.000 0.00 0.00 41.60 4.79
2057 3672 0.704664 ATTTTCAGGAGGGGTGGACC 59.295 55.000 0.00 0.00 39.11 4.46
2058 3673 1.354368 TGATTTTCAGGAGGGGTGGAC 59.646 52.381 0.00 0.00 0.00 4.02
2059 3674 1.635487 CTGATTTTCAGGAGGGGTGGA 59.365 52.381 0.00 0.00 40.71 4.02
2060 3675 2.134789 CTGATTTTCAGGAGGGGTGG 57.865 55.000 0.00 0.00 40.71 4.61
2069 3684 4.077822 ACTTGCTTCCTCCTGATTTTCAG 58.922 43.478 0.00 0.00 43.91 3.02
2070 3685 4.104383 ACTTGCTTCCTCCTGATTTTCA 57.896 40.909 0.00 0.00 0.00 2.69
2071 3686 5.221322 ACAAACTTGCTTCCTCCTGATTTTC 60.221 40.000 0.00 0.00 0.00 2.29
2072 3687 4.651045 ACAAACTTGCTTCCTCCTGATTTT 59.349 37.500 0.00 0.00 0.00 1.82
2073 3688 4.038402 CACAAACTTGCTTCCTCCTGATTT 59.962 41.667 0.00 0.00 0.00 2.17
2074 3689 3.571401 CACAAACTTGCTTCCTCCTGATT 59.429 43.478 0.00 0.00 0.00 2.57
2075 3690 3.152341 CACAAACTTGCTTCCTCCTGAT 58.848 45.455 0.00 0.00 0.00 2.90
2076 3691 2.172505 TCACAAACTTGCTTCCTCCTGA 59.827 45.455 0.00 0.00 0.00 3.86
2077 3692 2.575532 TCACAAACTTGCTTCCTCCTG 58.424 47.619 0.00 0.00 0.00 3.86
2078 3693 3.515602 ATCACAAACTTGCTTCCTCCT 57.484 42.857 0.00 0.00 0.00 3.69
2079 3694 3.305608 CCAATCACAAACTTGCTTCCTCC 60.306 47.826 0.00 0.00 0.00 4.30
2080 3695 3.319122 ACCAATCACAAACTTGCTTCCTC 59.681 43.478 0.00 0.00 0.00 3.71
2081 3696 3.299503 ACCAATCACAAACTTGCTTCCT 58.700 40.909 0.00 0.00 0.00 3.36
2082 3697 3.733443 ACCAATCACAAACTTGCTTCC 57.267 42.857 0.00 0.00 0.00 3.46
2083 3698 5.831997 ACTAACCAATCACAAACTTGCTTC 58.168 37.500 0.00 0.00 0.00 3.86
2084 3699 5.852282 ACTAACCAATCACAAACTTGCTT 57.148 34.783 0.00 0.00 0.00 3.91
2085 3700 6.296026 TCTACTAACCAATCACAAACTTGCT 58.704 36.000 0.00 0.00 0.00 3.91
2086 3701 6.554334 TCTACTAACCAATCACAAACTTGC 57.446 37.500 0.00 0.00 0.00 4.01
2087 3702 8.322906 TCATCTACTAACCAATCACAAACTTG 57.677 34.615 0.00 0.00 0.00 3.16
2088 3703 8.918202 TTCATCTACTAACCAATCACAAACTT 57.082 30.769 0.00 0.00 0.00 2.66
2089 3704 8.918202 TTTCATCTACTAACCAATCACAAACT 57.082 30.769 0.00 0.00 0.00 2.66
2090 3705 9.959749 TTTTTCATCTACTAACCAATCACAAAC 57.040 29.630 0.00 0.00 0.00 2.93
2116 3731 9.445786 CAAACAAATACATGAGTTTACGAACTT 57.554 29.630 0.00 0.00 45.88 2.66
2118 3733 8.776680 ACAAACAAATACATGAGTTTACGAAC 57.223 30.769 0.00 0.00 33.30 3.95
2121 3736 9.820229 ACATACAAACAAATACATGAGTTTACG 57.180 29.630 0.00 0.00 33.30 3.18
2157 3772 1.735386 TGACGGTGTTCCACGAAAAA 58.265 45.000 0.00 0.00 34.83 1.94
2158 3773 1.600013 CATGACGGTGTTCCACGAAAA 59.400 47.619 0.00 0.00 34.83 2.29
2159 3774 1.222300 CATGACGGTGTTCCACGAAA 58.778 50.000 0.00 0.00 34.83 3.46
2160 3775 0.105224 ACATGACGGTGTTCCACGAA 59.895 50.000 0.00 0.00 34.83 3.85
2161 3776 0.598942 CACATGACGGTGTTCCACGA 60.599 55.000 0.00 0.00 34.83 4.35
2162 3777 1.859398 CACATGACGGTGTTCCACG 59.141 57.895 0.00 0.00 34.83 4.94
2169 3784 2.667318 GCGGACACACATGACGGTG 61.667 63.158 0.00 7.53 44.35 4.94
2170 3785 2.357034 GCGGACACACATGACGGT 60.357 61.111 0.00 0.00 32.82 4.83
2171 3786 3.478394 CGCGGACACACATGACGG 61.478 66.667 0.00 0.00 32.82 4.79
2186 3801 3.945434 CATGGTCAGCATCGCCGC 61.945 66.667 0.00 0.00 0.00 6.53
2187 3802 3.945434 GCATGGTCAGCATCGCCG 61.945 66.667 0.00 0.00 0.00 6.46
2189 3804 3.945434 CGGCATGGTCAGCATCGC 61.945 66.667 0.00 0.00 0.00 4.58
2192 3807 0.527565 GTTTTCGGCATGGTCAGCAT 59.472 50.000 0.00 0.00 0.00 3.79
2195 3810 1.154225 GCGTTTTCGGCATGGTCAG 60.154 57.895 0.00 0.00 44.29 3.51
2218 3833 2.202932 ATGAGCACGATGGCGGAC 60.203 61.111 0.00 0.00 43.17 4.79
2221 3836 2.879070 GAGCATGAGCACGATGGCG 61.879 63.158 0.00 0.00 45.49 5.69
2222 3837 3.020627 GAGCATGAGCACGATGGC 58.979 61.111 0.00 0.00 45.49 4.40
2228 3843 3.260483 CTCGCCGAGCATGAGCAC 61.260 66.667 0.00 0.00 45.49 4.40
2229 3844 4.519437 CCTCGCCGAGCATGAGCA 62.519 66.667 9.01 0.00 45.49 4.26
2230 3845 3.512223 ATCCTCGCCGAGCATGAGC 62.512 63.158 9.01 0.00 42.56 4.26
2231 3846 1.664017 CATCCTCGCCGAGCATGAG 60.664 63.158 12.68 0.00 29.96 2.90
2232 3847 2.418777 CATCCTCGCCGAGCATGA 59.581 61.111 12.68 2.97 29.96 3.07
2233 3848 2.664185 CCATCCTCGCCGAGCATG 60.664 66.667 11.08 11.08 28.42 4.06
2234 3849 2.839632 TCCATCCTCGCCGAGCAT 60.840 61.111 9.01 0.00 0.00 3.79
2235 3850 3.531207 CTCCATCCTCGCCGAGCA 61.531 66.667 9.01 0.00 0.00 4.26
2236 3851 4.292178 CCTCCATCCTCGCCGAGC 62.292 72.222 9.01 0.00 0.00 5.03
2237 3852 3.610669 CCCTCCATCCTCGCCGAG 61.611 72.222 7.25 7.25 0.00 4.63
2240 3855 4.247380 CAGCCCTCCATCCTCGCC 62.247 72.222 0.00 0.00 0.00 5.54
2241 3856 4.925861 GCAGCCCTCCATCCTCGC 62.926 72.222 0.00 0.00 0.00 5.03
2242 3857 4.598894 CGCAGCCCTCCATCCTCG 62.599 72.222 0.00 0.00 0.00 4.63
2243 3858 3.036429 AACGCAGCCCTCCATCCTC 62.036 63.158 0.00 0.00 0.00 3.71
2244 3859 3.011517 AACGCAGCCCTCCATCCT 61.012 61.111 0.00 0.00 0.00 3.24
2245 3860 2.825836 CAACGCAGCCCTCCATCC 60.826 66.667 0.00 0.00 0.00 3.51
2246 3861 2.825836 CCAACGCAGCCCTCCATC 60.826 66.667 0.00 0.00 0.00 3.51
2247 3862 4.431131 CCCAACGCAGCCCTCCAT 62.431 66.667 0.00 0.00 0.00 3.41
2254 3869 4.025401 CAACGACCCCAACGCAGC 62.025 66.667 0.00 0.00 0.00 5.25
2255 3870 1.289109 CTACAACGACCCCAACGCAG 61.289 60.000 0.00 0.00 0.00 5.18
2256 3871 1.301087 CTACAACGACCCCAACGCA 60.301 57.895 0.00 0.00 0.00 5.24
2257 3872 2.030958 CCTACAACGACCCCAACGC 61.031 63.158 0.00 0.00 0.00 4.84
2258 3873 1.375013 CCCTACAACGACCCCAACG 60.375 63.158 0.00 0.00 0.00 4.10
2259 3874 1.673337 GCCCTACAACGACCCCAAC 60.673 63.158 0.00 0.00 0.00 3.77
2260 3875 2.751688 GCCCTACAACGACCCCAA 59.248 61.111 0.00 0.00 0.00 4.12
2261 3876 3.324108 GGCCCTACAACGACCCCA 61.324 66.667 0.00 0.00 0.00 4.96
2262 3877 3.324108 TGGCCCTACAACGACCCC 61.324 66.667 0.00 0.00 0.00 4.95
2263 3878 2.046604 GTGGCCCTACAACGACCC 60.047 66.667 0.00 0.00 0.00 4.46
2264 3879 2.046604 GGTGGCCCTACAACGACC 60.047 66.667 0.00 0.00 0.00 4.79
2265 3880 2.046604 GGGTGGCCCTACAACGAC 60.047 66.667 0.00 0.00 41.34 4.34
2266 3881 0.618107 TATGGGTGGCCCTACAACGA 60.618 55.000 0.00 0.00 45.70 3.85
2267 3882 0.179056 CTATGGGTGGCCCTACAACG 60.179 60.000 0.00 0.00 45.70 4.10
2268 3883 1.209621 TCTATGGGTGGCCCTACAAC 58.790 55.000 0.00 0.00 45.70 3.32
2269 3884 1.843851 CTTCTATGGGTGGCCCTACAA 59.156 52.381 0.00 0.00 45.70 2.41
2270 3885 1.274184 ACTTCTATGGGTGGCCCTACA 60.274 52.381 0.00 0.00 45.70 2.74
2271 3886 1.416772 GACTTCTATGGGTGGCCCTAC 59.583 57.143 0.00 0.00 45.70 3.18
2272 3887 1.694693 GGACTTCTATGGGTGGCCCTA 60.695 57.143 0.00 0.00 45.70 3.53
2273 3888 0.988678 GGACTTCTATGGGTGGCCCT 60.989 60.000 0.00 0.00 45.70 5.19
2274 3889 0.988678 AGGACTTCTATGGGTGGCCC 60.989 60.000 0.00 0.00 45.71 5.80
2275 3890 0.470341 GAGGACTTCTATGGGTGGCC 59.530 60.000 0.00 0.00 0.00 5.36
2276 3891 0.105039 CGAGGACTTCTATGGGTGGC 59.895 60.000 0.00 0.00 0.00 5.01
2277 3892 0.753262 CCGAGGACTTCTATGGGTGG 59.247 60.000 0.00 0.00 0.00 4.61
2278 3893 0.105039 GCCGAGGACTTCTATGGGTG 59.895 60.000 0.00 0.00 0.00 4.61
2279 3894 1.049289 GGCCGAGGACTTCTATGGGT 61.049 60.000 0.00 0.00 0.00 4.51
2280 3895 1.048724 TGGCCGAGGACTTCTATGGG 61.049 60.000 0.00 0.00 0.00 4.00
2281 3896 1.001406 GATGGCCGAGGACTTCTATGG 59.999 57.143 0.00 0.00 0.00 2.74
2282 3897 1.336332 CGATGGCCGAGGACTTCTATG 60.336 57.143 8.90 0.00 41.76 2.23
2283 3898 0.962489 CGATGGCCGAGGACTTCTAT 59.038 55.000 8.90 0.00 41.76 1.98
2284 3899 1.735376 GCGATGGCCGAGGACTTCTA 61.735 60.000 8.90 0.00 41.76 2.10
2285 3900 3.082579 GCGATGGCCGAGGACTTCT 62.083 63.158 8.90 0.00 41.76 2.85
2286 3901 2.586357 GCGATGGCCGAGGACTTC 60.586 66.667 0.00 0.00 41.76 3.01
2297 3912 3.576356 GACGTGCATGGGCGATGG 61.576 66.667 11.36 0.00 45.35 3.51
2312 3927 0.466124 AGGAATGCGGCTAGGAAGAC 59.534 55.000 0.00 0.00 0.00 3.01
2317 3932 2.592861 GGCAGGAATGCGGCTAGG 60.593 66.667 0.00 0.00 35.24 3.02
2339 3954 2.652530 GTACAGAACCACCGCGGA 59.347 61.111 35.90 1.64 38.63 5.54
2353 3968 0.594284 GCGGCTACATCACGAGGTAC 60.594 60.000 0.00 0.00 0.00 3.34
2360 3975 2.962253 GGAGCGCGGCTACATCAC 60.962 66.667 8.83 0.00 39.71 3.06
2361 3976 4.569023 CGGAGCGCGGCTACATCA 62.569 66.667 8.83 0.00 39.98 3.07
2366 3981 4.183686 GTACACGGAGCGCGGCTA 62.184 66.667 8.83 0.00 39.88 3.93
2398 4013 1.832167 GGGCTTGGTGTGGAAGCAA 60.832 57.895 0.00 0.00 46.43 3.91
2406 4021 3.501911 AGTGGCTGGGCTTGGTGT 61.502 61.111 0.00 0.00 0.00 4.16
2447 4062 2.253758 TGACAAGCTTGGCGTGCTC 61.254 57.895 29.18 16.88 41.40 4.26
2491 4107 4.135493 GAAACGGACGCTGCGCTC 62.135 66.667 23.51 17.58 33.30 5.03
2500 4116 0.949105 AGCCACGTCATGAAACGGAC 60.949 55.000 11.16 1.17 46.72 4.79
2529 4145 1.219393 CTCTTTCCTGAGCCCGGAC 59.781 63.158 0.73 0.00 0.00 4.79
2539 4155 1.280421 GGACAGGCACATCTCTTTCCT 59.720 52.381 0.00 0.00 29.71 3.36
2544 4160 2.362369 CGGGGACAGGCACATCTCT 61.362 63.158 0.00 0.00 0.00 3.10
2583 4199 1.078637 GCCTCCCAAGTTCCGGTAC 60.079 63.158 2.44 2.44 0.00 3.34
2588 4204 1.002011 GTGAGGCCTCCCAAGTTCC 60.002 63.158 29.95 2.48 0.00 3.62
2589 4205 1.376037 CGTGAGGCCTCCCAAGTTC 60.376 63.158 29.95 3.61 0.00 3.01


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

AutoCloner maintained by Alex Coulton.