Multiple sequence alignment - TraesCS2A01G314400

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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 TraesCS2A01G314400 chr2A 100.000 4220 0 0 1 4220 539323695 539327914 0.000000e+00 7793.0
1 TraesCS2A01G314400 chr2B 94.397 1160 40 2 2117 3276 476411992 476410858 0.000000e+00 1759.0
2 TraesCS2A01G314400 chr2B 94.329 1111 42 11 793 1887 476416462 476415357 0.000000e+00 1683.0
3 TraesCS2A01G314400 chr2B 82.896 801 110 21 1 791 602180135 602180918 0.000000e+00 695.0
4 TraesCS2A01G314400 chr2B 88.832 591 24 16 3636 4220 476408602 476408048 0.000000e+00 688.0
5 TraesCS2A01G314400 chr2B 87.584 298 13 6 3274 3570 476410835 476410561 1.460000e-84 324.0
6 TraesCS2A01G314400 chr2B 96.319 163 5 1 1966 2128 476415361 476415200 2.500000e-67 267.0
7 TraesCS2A01G314400 chr2B 80.660 212 37 4 1 210 769107283 769107074 1.210000e-35 161.0
8 TraesCS2A01G314400 chr2B 95.789 95 3 1 1874 1968 650285642 650285735 7.310000e-33 152.0
9 TraesCS2A01G314400 chr2D 92.086 1112 64 9 786 1887 402260094 402261191 0.000000e+00 1544.0
10 TraesCS2A01G314400 chr2D 87.488 1079 88 20 1968 3028 402261189 402262238 0.000000e+00 1201.0
11 TraesCS2A01G314400 chr2D 82.973 787 119 11 1 778 560966769 560967549 0.000000e+00 697.0
12 TraesCS2A01G314400 chr2D 82.244 811 117 19 1 794 512464971 512465771 0.000000e+00 675.0
13 TraesCS2A01G314400 chr2D 84.504 484 33 19 3750 4220 402262863 402263317 1.390000e-119 440.0
14 TraesCS2A01G314400 chr2D 85.158 411 30 16 3070 3457 402262234 402262636 3.960000e-105 392.0
15 TraesCS2A01G314400 chr5B 84.684 790 107 11 7 790 692746300 692745519 0.000000e+00 776.0
16 TraesCS2A01G314400 chr5B 90.991 111 7 3 1860 1968 549551835 549551944 3.400000e-31 147.0
17 TraesCS2A01G314400 chr7D 84.010 788 105 10 19 788 141353295 141354079 0.000000e+00 737.0
18 TraesCS2A01G314400 chr7B 83.505 776 119 7 2 769 657607568 657606794 0.000000e+00 715.0
19 TraesCS2A01G314400 chr5D 83.011 724 99 15 80 786 466589490 466590206 5.950000e-178 634.0
20 TraesCS2A01G314400 chr5D 83.284 682 99 11 112 790 548532024 548531355 7.750000e-172 614.0
21 TraesCS2A01G314400 chr5D 98.876 89 1 0 1882 1970 446918169 446918257 4.370000e-35 159.0
22 TraesCS2A01G314400 chr5D 92.157 102 5 3 1875 1976 513975055 513975153 1.580000e-29 141.0
23 TraesCS2A01G314400 chr5D 100.000 43 0 0 3580 3622 492288232 492288274 3.500000e-11 80.5
24 TraesCS2A01G314400 chr5D 100.000 43 0 0 3580 3622 528755095 528755053 3.500000e-11 80.5
25 TraesCS2A01G314400 chr3B 81.095 767 125 12 4 756 790189899 790190659 2.810000e-166 595.0
26 TraesCS2A01G314400 chr3B 91.589 107 6 3 1863 1968 389045489 389045593 1.220000e-30 145.0
27 TraesCS2A01G314400 chr7A 98.889 90 0 1 1880 1968 581850903 581850992 4.370000e-35 159.0
28 TraesCS2A01G314400 chr3A 96.809 94 2 1 1876 1968 22230728 22230635 5.650000e-34 156.0
29 TraesCS2A01G314400 chr6B 93.204 103 4 2 1880 1982 76149745 76149844 9.450000e-32 148.0
30 TraesCS2A01G314400 chr6B 94.643 56 2 1 3580 3634 84926436 84926381 7.520000e-13 86.1
31 TraesCS2A01G314400 chr1B 89.474 114 8 3 1867 1979 598882701 598882811 1.580000e-29 141.0
32 TraesCS2A01G314400 chr6D 100.000 43 0 0 3580 3622 458390134 458390176 3.500000e-11 80.5
33 TraesCS2A01G314400 chr4D 100.000 43 0 0 3580 3622 32014343 32014385 3.500000e-11 80.5
34 TraesCS2A01G314400 chr4D 97.826 46 1 0 3577 3622 35614805 35614760 3.500000e-11 80.5
35 TraesCS2A01G314400 chr3D 100.000 43 0 0 3581 3623 331672429 331672471 3.500000e-11 80.5
36 TraesCS2A01G314400 chr1D 100.000 43 0 0 3580 3622 141215336 141215294 3.500000e-11 80.5
37 TraesCS2A01G314400 chr1A 96.000 50 1 1 3580 3628 27217230 27217279 3.500000e-11 80.5


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 TraesCS2A01G314400 chr2A 539323695 539327914 4219 False 7793.00 7793 100.0000 1 4220 1 chr2A.!!$F1 4219
1 TraesCS2A01G314400 chr2B 476408048 476416462 8414 True 944.20 1759 92.2922 793 4220 5 chr2B.!!$R2 3427
2 TraesCS2A01G314400 chr2B 602180135 602180918 783 False 695.00 695 82.8960 1 791 1 chr2B.!!$F1 790
3 TraesCS2A01G314400 chr2D 402260094 402263317 3223 False 894.25 1544 87.3090 786 4220 4 chr2D.!!$F3 3434
4 TraesCS2A01G314400 chr2D 560966769 560967549 780 False 697.00 697 82.9730 1 778 1 chr2D.!!$F2 777
5 TraesCS2A01G314400 chr2D 512464971 512465771 800 False 675.00 675 82.2440 1 794 1 chr2D.!!$F1 793
6 TraesCS2A01G314400 chr5B 692745519 692746300 781 True 776.00 776 84.6840 7 790 1 chr5B.!!$R1 783
7 TraesCS2A01G314400 chr7D 141353295 141354079 784 False 737.00 737 84.0100 19 788 1 chr7D.!!$F1 769
8 TraesCS2A01G314400 chr7B 657606794 657607568 774 True 715.00 715 83.5050 2 769 1 chr7B.!!$R1 767
9 TraesCS2A01G314400 chr5D 466589490 466590206 716 False 634.00 634 83.0110 80 786 1 chr5D.!!$F2 706
10 TraesCS2A01G314400 chr5D 548531355 548532024 669 True 614.00 614 83.2840 112 790 1 chr5D.!!$R2 678
11 TraesCS2A01G314400 chr3B 790189899 790190659 760 False 595.00 595 81.0950 4 756 1 chr3B.!!$F2 752

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
331 348 0.322816 GGGCTTCAACATGGAGCAGA 60.323 55.0 12.42 0.0 0.00 4.26 F
353 370 0.391263 GAGGCGGAGTTTTCCATCGT 60.391 55.0 0.00 0.0 44.26 3.73 F
355 372 0.672401 GGCGGAGTTTTCCATCGTCA 60.672 55.0 0.00 0.0 44.26 4.35 F
1739 1798 1.244697 GGCACGTCTCTCTGGTGAGA 61.245 60.0 0.00 0.0 46.13 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1856 1918 2.100605 AAACTGGCATCTCTTCCGTC 57.899 50.000 0.00 0.0 0.0 4.79 R
1961 2024 3.006003 GCAAGCAGATACCTAGTACTCCC 59.994 52.174 0.00 0.0 0.0 4.30 R
1962 2025 3.892588 AGCAAGCAGATACCTAGTACTCC 59.107 47.826 0.00 0.0 0.0 3.85 R
3625 8557 0.105039 CGAGGCATGTACTCCCTTCC 59.895 60.000 12.11 0.0 0.0 3.46 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
76 77 3.699894 CTCTGCCCACGCTCTGGT 61.700 66.667 0.00 0.00 38.60 4.00
92 93 2.291043 GGTGGTCCGTCATGGTCCT 61.291 63.158 0.48 0.00 45.34 3.85
93 94 0.974010 GGTGGTCCGTCATGGTCCTA 60.974 60.000 0.48 0.00 45.34 2.94
102 103 3.134804 CCGTCATGGTCCTAAGGAAGATT 59.865 47.826 0.00 0.00 31.38 2.40
152 153 0.534412 CTCACCGAGATCCAGCAAGT 59.466 55.000 0.00 0.00 0.00 3.16
279 292 1.220749 GTTGGCTCCGATGTAGGCA 59.779 57.895 0.00 0.00 46.60 4.75
287 300 0.757188 CCGATGTAGGCAGAGGAGGT 60.757 60.000 0.00 0.00 0.00 3.85
331 348 0.322816 GGGCTTCAACATGGAGCAGA 60.323 55.000 12.42 0.00 0.00 4.26
345 362 2.657237 CAGACGGAGGCGGAGTTT 59.343 61.111 0.00 0.00 0.00 2.66
353 370 0.391263 GAGGCGGAGTTTTCCATCGT 60.391 55.000 0.00 0.00 44.26 3.73
355 372 0.672401 GGCGGAGTTTTCCATCGTCA 60.672 55.000 0.00 0.00 44.26 4.35
372 389 2.415491 CGTCAAGTCCAACGAGATAGCA 60.415 50.000 0.00 0.00 41.29 3.49
373 390 3.735208 CGTCAAGTCCAACGAGATAGCAT 60.735 47.826 0.00 0.00 41.29 3.79
376 393 4.645136 TCAAGTCCAACGAGATAGCATAGT 59.355 41.667 0.00 0.00 0.00 2.12
552 584 4.189188 CTGCAGCTGCCGCCAATC 62.189 66.667 34.64 6.50 41.18 2.67
601 633 3.065510 CGACATCTCCGACAATGAGTAGT 59.934 47.826 0.00 0.00 0.00 2.73
719 755 2.280119 GCGTGTCTGGTCACTGCA 60.280 61.111 0.00 0.00 37.58 4.41
782 823 3.230976 TGACATATCCGGCTGTAGATGT 58.769 45.455 0.00 0.00 0.00 3.06
788 829 6.041637 ACATATCCGGCTGTAGATGTTCTTAA 59.958 38.462 0.00 0.00 0.00 1.85
818 860 1.717032 AGGCAAAGGGGAAAAAGACC 58.283 50.000 0.00 0.00 0.00 3.85
832 874 4.895224 AAAAGACCTTTTTGTCCTCGTC 57.105 40.909 2.15 0.00 39.52 4.20
928 971 1.745115 CGCTCATTCGGCCTTTCCA 60.745 57.895 0.00 0.00 34.01 3.53
1317 1365 7.254455 CGTACTGGAAATAATTTACTCTGCTGG 60.254 40.741 0.00 0.00 0.00 4.85
1425 1473 1.268032 GCCAATTTGCGATAGTGGTCG 60.268 52.381 0.00 0.00 44.14 4.79
1647 1704 5.940470 ACCAGTCACAAAATATCTCAACCTC 59.060 40.000 0.00 0.00 0.00 3.85
1699 1758 6.807708 ATTCACGTATCGTTTATGTGAGAC 57.192 37.500 16.80 0.00 42.32 3.36
1726 1785 5.880332 AGAAGTGATTACATATTTGGCACGT 59.120 36.000 0.00 0.00 0.00 4.49
1739 1798 1.244697 GGCACGTCTCTCTGGTGAGA 61.245 60.000 0.00 0.00 46.13 3.27
1861 1923 7.162761 TGATTGGTATTAGTTTTTCTGACGGA 58.837 34.615 0.00 0.00 0.00 4.69
1888 1951 3.278574 TGCCAGTTTATGCATGTACTCC 58.721 45.455 10.16 6.40 31.31 3.85
1889 1952 2.618709 GCCAGTTTATGCATGTACTCCC 59.381 50.000 10.16 2.25 0.00 4.30
1890 1953 3.685550 GCCAGTTTATGCATGTACTCCCT 60.686 47.826 10.16 0.00 0.00 4.20
1891 1954 4.130118 CCAGTTTATGCATGTACTCCCTC 58.870 47.826 10.16 0.00 0.00 4.30
1892 1955 4.130118 CAGTTTATGCATGTACTCCCTCC 58.870 47.826 10.16 0.00 0.00 4.30
1893 1956 3.131396 GTTTATGCATGTACTCCCTCCG 58.869 50.000 10.16 0.00 0.00 4.63
1894 1957 2.082140 TATGCATGTACTCCCTCCGT 57.918 50.000 10.16 0.00 0.00 4.69
1895 1958 2.082140 ATGCATGTACTCCCTCCGTA 57.918 50.000 0.00 0.00 0.00 4.02
1896 1959 1.855295 TGCATGTACTCCCTCCGTAA 58.145 50.000 0.00 0.00 0.00 3.18
1897 1960 2.181125 TGCATGTACTCCCTCCGTAAA 58.819 47.619 0.00 0.00 0.00 2.01
1898 1961 2.093869 TGCATGTACTCCCTCCGTAAAC 60.094 50.000 0.00 0.00 0.00 2.01
1899 1962 2.093869 GCATGTACTCCCTCCGTAAACA 60.094 50.000 0.00 0.00 0.00 2.83
1900 1963 3.618019 GCATGTACTCCCTCCGTAAACAA 60.618 47.826 0.00 0.00 0.00 2.83
1901 1964 4.571919 CATGTACTCCCTCCGTAAACAAA 58.428 43.478 0.00 0.00 0.00 2.83
1902 1965 4.895668 TGTACTCCCTCCGTAAACAAAT 57.104 40.909 0.00 0.00 0.00 2.32
1903 1966 5.999205 TGTACTCCCTCCGTAAACAAATA 57.001 39.130 0.00 0.00 0.00 1.40
1904 1967 6.549433 TGTACTCCCTCCGTAAACAAATAT 57.451 37.500 0.00 0.00 0.00 1.28
1905 1968 7.658525 TGTACTCCCTCCGTAAACAAATATA 57.341 36.000 0.00 0.00 0.00 0.86
1906 1969 8.076910 TGTACTCCCTCCGTAAACAAATATAA 57.923 34.615 0.00 0.00 0.00 0.98
1907 1970 8.199449 TGTACTCCCTCCGTAAACAAATATAAG 58.801 37.037 0.00 0.00 0.00 1.73
1908 1971 7.427989 ACTCCCTCCGTAAACAAATATAAGA 57.572 36.000 0.00 0.00 0.00 2.10
1909 1972 7.498443 ACTCCCTCCGTAAACAAATATAAGAG 58.502 38.462 0.00 0.00 0.00 2.85
1910 1973 6.285990 TCCCTCCGTAAACAAATATAAGAGC 58.714 40.000 0.00 0.00 0.00 4.09
1911 1974 6.053005 CCCTCCGTAAACAAATATAAGAGCA 58.947 40.000 0.00 0.00 0.00 4.26
1912 1975 6.710744 CCCTCCGTAAACAAATATAAGAGCAT 59.289 38.462 0.00 0.00 0.00 3.79
1913 1976 7.228706 CCCTCCGTAAACAAATATAAGAGCATT 59.771 37.037 0.00 0.00 0.00 3.56
1914 1977 8.621286 CCTCCGTAAACAAATATAAGAGCATTT 58.379 33.333 0.00 0.00 0.00 2.32
1944 2007 7.393841 ACTACTTTAGTGATCTAAACGCTCT 57.606 36.000 0.00 0.00 40.05 4.09
1945 2008 7.828712 ACTACTTTAGTGATCTAAACGCTCTT 58.171 34.615 0.00 0.00 40.05 2.85
1946 2009 8.954350 ACTACTTTAGTGATCTAAACGCTCTTA 58.046 33.333 0.00 0.00 40.05 2.10
1947 2010 9.953697 CTACTTTAGTGATCTAAACGCTCTTAT 57.046 33.333 0.00 0.00 40.05 1.73
1962 2025 8.649973 AACGCTCTTATATTTCTTTACAGAGG 57.350 34.615 0.00 0.00 0.00 3.69
1963 2026 7.210873 ACGCTCTTATATTTCTTTACAGAGGG 58.789 38.462 8.36 8.36 42.53 4.30
1964 2027 7.069578 ACGCTCTTATATTTCTTTACAGAGGGA 59.930 37.037 14.96 0.00 40.49 4.20
2002 2072 3.623703 TGCTTGATGTGAATGTAGGCAT 58.376 40.909 0.00 0.00 36.80 4.40
2302 5592 0.890683 GATGTTCTTGGGCAGTTGGG 59.109 55.000 0.00 0.00 0.00 4.12
2303 5593 0.482446 ATGTTCTTGGGCAGTTGGGA 59.518 50.000 0.00 0.00 0.00 4.37
2318 5608 5.594317 GCAGTTGGGATATTTAAGGACACAT 59.406 40.000 0.00 0.00 0.00 3.21
2355 5645 3.861886 GCATTAGTTTGCAACAGCCATGT 60.862 43.478 0.00 0.00 42.31 3.21
2365 5655 3.065233 GCAACAGCCATGTCGAAATATGA 59.935 43.478 7.03 0.00 39.29 2.15
2406 5696 3.971245 ATTTTGGGCCGCTAAATTGAA 57.029 38.095 0.00 0.00 0.00 2.69
2535 5827 4.460034 TGTGCTGCATTTCTTCACATGTAT 59.540 37.500 5.27 0.00 33.33 2.29
2536 5828 5.647225 TGTGCTGCATTTCTTCACATGTATA 59.353 36.000 5.27 0.00 33.33 1.47
2537 5829 6.319405 TGTGCTGCATTTCTTCACATGTATAT 59.681 34.615 5.27 0.00 33.33 0.86
2538 5830 7.498570 TGTGCTGCATTTCTTCACATGTATATA 59.501 33.333 5.27 0.00 33.33 0.86
2685 5977 0.688487 ACCAGTTTAGGTAGCCGCAA 59.312 50.000 0.00 0.00 40.98 4.85
2931 6224 0.462759 GGTTTGATCTGAGGCTCGGG 60.463 60.000 22.67 11.78 0.00 5.14
2998 6291 7.502226 TCTGAGTCAACACCAAAATATTCTTGT 59.498 33.333 0.00 0.00 0.00 3.16
3049 6342 5.824904 ATGTATCAAAAGCCTGCTAACAG 57.175 39.130 0.00 0.00 44.05 3.16
3059 6352 1.234821 CTGCTAACAGGGCGTTTTCA 58.765 50.000 0.00 0.00 40.48 2.69
3060 6353 1.606668 CTGCTAACAGGGCGTTTTCAA 59.393 47.619 0.00 0.00 40.48 2.69
3061 6354 1.335496 TGCTAACAGGGCGTTTTCAAC 59.665 47.619 0.00 0.00 39.14 3.18
3062 6355 1.607148 GCTAACAGGGCGTTTTCAACT 59.393 47.619 0.00 0.00 39.14 3.16
3063 6356 2.034179 GCTAACAGGGCGTTTTCAACTT 59.966 45.455 0.00 0.00 39.14 2.66
3064 6357 2.577449 AACAGGGCGTTTTCAACTTG 57.423 45.000 0.00 0.00 32.35 3.16
3065 6358 1.470051 ACAGGGCGTTTTCAACTTGT 58.530 45.000 0.00 0.00 0.00 3.16
3066 6359 1.134175 ACAGGGCGTTTTCAACTTGTG 59.866 47.619 0.00 0.00 0.00 3.33
3067 6360 0.744281 AGGGCGTTTTCAACTTGTGG 59.256 50.000 0.00 0.00 0.00 4.17
3068 6361 0.741915 GGGCGTTTTCAACTTGTGGA 59.258 50.000 0.00 0.00 0.00 4.02
3209 6502 0.179000 ACCCAATCAGATCGGTGCTC 59.821 55.000 1.95 0.00 0.00 4.26
3247 6540 1.580845 GCACACCTGGACAGTGATGC 61.581 60.000 17.94 7.83 35.33 3.91
3269 6563 1.130561 GTTATGGTCACGAAGCAAGGC 59.869 52.381 0.00 0.00 39.21 4.35
3405 6724 3.060339 CCGTTTTGCAGCATTCTTGTTTC 60.060 43.478 0.00 0.00 0.00 2.78
3406 6725 3.798337 CGTTTTGCAGCATTCTTGTTTCT 59.202 39.130 0.00 0.00 0.00 2.52
3429 6748 2.698855 AGCATAATGAACGGTGCTCT 57.301 45.000 0.00 0.00 43.97 4.09
3457 6776 3.389221 CTTGTGGTTGGCACATAAAACC 58.611 45.455 0.00 0.00 43.07 3.27
3458 6777 1.689273 TGTGGTTGGCACATAAAACCC 59.311 47.619 1.55 0.00 42.26 4.11
3513 6861 8.515695 TCTTGCTCATTAGATTTCACATTCAT 57.484 30.769 0.00 0.00 0.00 2.57
3524 6872 8.579850 AGATTTCACATTCATAGCAACCTAAA 57.420 30.769 0.00 0.00 0.00 1.85
3525 6873 9.023962 AGATTTCACATTCATAGCAACCTAAAA 57.976 29.630 0.00 0.00 0.00 1.52
3573 8505 1.427809 CTGGGCTACATCTGATGGGA 58.572 55.000 20.83 8.23 33.60 4.37
3574 8506 1.347050 CTGGGCTACATCTGATGGGAG 59.653 57.143 20.83 17.14 33.60 4.30
3583 8515 0.339859 TCTGATGGGAGGCTGGTACT 59.660 55.000 0.00 0.00 0.00 2.73
3584 8516 0.755686 CTGATGGGAGGCTGGTACTC 59.244 60.000 0.00 0.00 0.00 2.59
3589 8521 3.957919 GAGGCTGGTACTCCCTCC 58.042 66.667 12.90 0.69 39.29 4.30
3590 8522 2.042843 AGGCTGGTACTCCCTCCG 60.043 66.667 0.00 0.00 33.46 4.63
3594 8526 1.957765 GCTGGTACTCCCTCCGTTCC 61.958 65.000 0.00 0.00 0.00 3.62
3596 8528 0.042131 TGGTACTCCCTCCGTTCCAT 59.958 55.000 0.00 0.00 28.53 3.41
3597 8529 1.288633 TGGTACTCCCTCCGTTCCATA 59.711 52.381 0.00 0.00 28.53 2.74
3599 8531 2.970640 GGTACTCCCTCCGTTCCATATT 59.029 50.000 0.00 0.00 0.00 1.28
3600 8532 4.154942 GGTACTCCCTCCGTTCCATATTA 58.845 47.826 0.00 0.00 0.00 0.98
3601 8533 4.021632 GGTACTCCCTCCGTTCCATATTAC 60.022 50.000 0.00 0.00 0.00 1.89
3603 8535 4.296056 ACTCCCTCCGTTCCATATTACTT 58.704 43.478 0.00 0.00 0.00 2.24
3604 8536 4.101119 ACTCCCTCCGTTCCATATTACTTG 59.899 45.833 0.00 0.00 0.00 3.16
3605 8537 4.035112 TCCCTCCGTTCCATATTACTTGT 58.965 43.478 0.00 0.00 0.00 3.16
3606 8538 4.100498 TCCCTCCGTTCCATATTACTTGTC 59.900 45.833 0.00 0.00 0.00 3.18
3607 8539 4.049186 CCTCCGTTCCATATTACTTGTCG 58.951 47.826 0.00 0.00 0.00 4.35
3609 8541 3.131577 TCCGTTCCATATTACTTGTCGCT 59.868 43.478 0.00 0.00 0.00 4.93
3610 8542 3.245284 CCGTTCCATATTACTTGTCGCTG 59.755 47.826 0.00 0.00 0.00 5.18
3611 8543 4.109766 CGTTCCATATTACTTGTCGCTGA 58.890 43.478 0.00 0.00 0.00 4.26
3612 8544 4.745125 CGTTCCATATTACTTGTCGCTGAT 59.255 41.667 0.00 0.00 0.00 2.90
3613 8545 5.234329 CGTTCCATATTACTTGTCGCTGATT 59.766 40.000 0.00 0.00 0.00 2.57
3614 8546 6.238103 CGTTCCATATTACTTGTCGCTGATTT 60.238 38.462 0.00 0.00 0.00 2.17
3615 8547 7.042992 CGTTCCATATTACTTGTCGCTGATTTA 60.043 37.037 0.00 0.00 0.00 1.40
3617 8549 7.497595 TCCATATTACTTGTCGCTGATTTAGT 58.502 34.615 0.00 0.00 0.00 2.24
3618 8550 8.635328 TCCATATTACTTGTCGCTGATTTAGTA 58.365 33.333 0.00 0.00 0.00 1.82
3621 8553 9.811995 ATATTACTTGTCGCTGATTTAGTACAA 57.188 29.630 0.00 0.00 34.99 2.41
3622 8554 8.718102 ATTACTTGTCGCTGATTTAGTACAAT 57.282 30.769 0.00 0.00 35.40 2.71
3623 8555 9.811995 ATTACTTGTCGCTGATTTAGTACAATA 57.188 29.630 0.00 0.00 35.40 1.90
3624 8556 9.811995 TTACTTGTCGCTGATTTAGTACAATAT 57.188 29.630 0.00 0.00 35.40 1.28
3625 8557 8.131455 ACTTGTCGCTGATTTAGTACAATATG 57.869 34.615 0.00 0.00 35.40 1.78
3627 8559 6.811954 TGTCGCTGATTTAGTACAATATGGA 58.188 36.000 0.00 0.00 0.00 3.41
3629 8561 7.438160 TGTCGCTGATTTAGTACAATATGGAAG 59.562 37.037 0.00 0.00 0.00 3.46
3630 8562 6.929049 TCGCTGATTTAGTACAATATGGAAGG 59.071 38.462 0.00 0.00 0.00 3.46
3631 8563 6.147821 CGCTGATTTAGTACAATATGGAAGGG 59.852 42.308 0.00 0.00 0.00 3.95
3632 8564 7.224297 GCTGATTTAGTACAATATGGAAGGGA 58.776 38.462 0.00 0.00 0.00 4.20
3634 8566 8.331931 TGATTTAGTACAATATGGAAGGGAGT 57.668 34.615 0.00 0.00 0.00 3.85
3635 8567 9.442062 TGATTTAGTACAATATGGAAGGGAGTA 57.558 33.333 0.00 0.00 0.00 2.59
3637 8569 8.612486 TTTAGTACAATATGGAAGGGAGTACA 57.388 34.615 0.00 0.00 34.41 2.90
3638 8570 8.792830 TTAGTACAATATGGAAGGGAGTACAT 57.207 34.615 0.00 0.00 34.41 2.29
3690 8950 2.526432 ACGAGGTGAGATGTAAGGTGT 58.474 47.619 0.00 0.00 0.00 4.16
3712 8972 1.072806 ACAGCAGAACAAGATCAGGCA 59.927 47.619 0.00 0.00 0.00 4.75
3729 8989 0.598065 GCAAGTCAAAACGCTGGGAT 59.402 50.000 0.00 0.00 0.00 3.85
3892 9157 7.232188 AGCTTCATCCTGATAATGATGACAAT 58.768 34.615 0.00 0.00 45.13 2.71
3939 9204 4.641954 GCTCGTTGTTGTAGTCATCAATG 58.358 43.478 0.00 0.00 39.59 2.82
4005 9270 3.252554 TCCTTTGTAAACCTGCCCAAT 57.747 42.857 0.00 0.00 0.00 3.16
4022 9287 3.573967 CCCAATAAGGCAAGAACAGTGTT 59.426 43.478 8.61 8.61 35.39 3.32
4068 9333 4.535781 TGTTATGATACAAGCATGCCCTT 58.464 39.130 15.66 0.00 0.00 3.95
4082 9347 5.250543 AGCATGCCCTTATACACCATATACA 59.749 40.000 15.66 0.00 0.00 2.29
4083 9348 6.069440 AGCATGCCCTTATACACCATATACAT 60.069 38.462 15.66 0.00 0.00 2.29
4132 9397 4.959560 TGTACACACCCTTAAGCTTGTA 57.040 40.909 9.86 0.00 0.00 2.41
4144 9409 6.756542 CCCTTAAGCTTGTATATTTTGCCAAC 59.243 38.462 9.86 0.00 0.00 3.77
4148 9413 6.588719 AGCTTGTATATTTTGCCAACTCAA 57.411 33.333 0.00 0.00 0.00 3.02
4179 9444 3.320256 TGCATCTAGTATCTGCAGACTGG 59.680 47.826 20.97 15.22 40.75 4.00
4184 9453 5.941788 TCTAGTATCTGCAGACTGGTATCA 58.058 41.667 20.97 0.00 0.00 2.15
4188 9457 6.109359 AGTATCTGCAGACTGGTATCAAAAC 58.891 40.000 20.97 0.00 0.00 2.43
4189 9458 4.350368 TCTGCAGACTGGTATCAAAACA 57.650 40.909 13.74 0.00 0.00 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 79 1.481871 TCCTTAGGACCATGACGGAC 58.518 55.000 0.00 0.00 38.63 4.79
92 93 7.431249 CATTGCGTAGTAGGTAATCTTCCTTA 58.569 38.462 3.54 0.00 36.60 2.69
93 94 5.927281 TTGCGTAGTAGGTAATCTTCCTT 57.073 39.130 0.00 0.00 36.60 3.36
102 103 2.223409 CGTGAGCATTGCGTAGTAGGTA 60.223 50.000 2.38 0.00 0.00 3.08
134 135 0.247460 CACTTGCTGGATCTCGGTGA 59.753 55.000 0.00 0.00 0.00 4.02
152 153 1.377202 GCTTGTCTTGCCCGGATCA 60.377 57.895 0.73 0.00 0.00 2.92
231 235 0.912486 CTTCCCCCGACTGATCCTTT 59.088 55.000 0.00 0.00 0.00 3.11
232 236 0.042731 TCTTCCCCCGACTGATCCTT 59.957 55.000 0.00 0.00 0.00 3.36
237 241 1.000486 CTCCTCTTCCCCCGACTGA 60.000 63.158 0.00 0.00 0.00 3.41
274 287 1.381872 GCTCCACCTCCTCTGCCTA 60.382 63.158 0.00 0.00 0.00 3.93
279 292 1.152030 TGGTTGCTCCACCTCCTCT 60.152 57.895 2.55 0.00 41.93 3.69
287 300 2.033141 GCTGCTCTGGTTGCTCCA 59.967 61.111 0.00 1.68 45.01 3.86
310 327 3.056313 GCTCCATGTTGAAGCCCGC 62.056 63.158 0.00 0.00 0.00 6.13
331 348 1.838073 ATGGAAAACTCCGCCTCCGT 61.838 55.000 0.00 0.00 0.00 4.69
345 362 1.341852 TCGTTGGACTTGACGATGGAA 59.658 47.619 0.00 0.00 42.67 3.53
353 370 4.645136 ACTATGCTATCTCGTTGGACTTGA 59.355 41.667 0.00 0.00 0.00 3.02
355 372 5.278561 GCTACTATGCTATCTCGTTGGACTT 60.279 44.000 0.00 0.00 0.00 3.01
369 386 0.689623 GGATGGCCTGCTACTATGCT 59.310 55.000 3.32 0.00 0.00 3.79
372 389 1.194781 CCGGGATGGCCTGCTACTAT 61.195 60.000 3.32 0.00 39.39 2.12
373 390 1.837051 CCGGGATGGCCTGCTACTA 60.837 63.158 3.32 0.00 39.39 1.82
376 393 2.844362 CTCCGGGATGGCCTGCTA 60.844 66.667 3.32 0.00 39.39 3.49
601 633 4.093408 GTGTGTACTACGTCGATCACCTAA 59.907 45.833 0.00 0.00 0.00 2.69
621 653 4.217754 ACATGCAAACGAAATAACGTGT 57.782 36.364 0.00 0.00 45.83 4.49
622 654 5.553692 AAACATGCAAACGAAATAACGTG 57.446 34.783 0.00 0.00 45.83 4.49
624 656 6.406820 ACAAAAACATGCAAACGAAATAACG 58.593 32.000 0.00 0.00 39.31 3.18
734 770 4.735132 CCTCAAACGCCCGCTCGA 62.735 66.667 1.63 0.00 0.00 4.04
782 823 1.543871 GCCTTCCCCGTGTGTTAAGAA 60.544 52.381 0.00 0.00 0.00 2.52
788 829 1.528309 CTTTGCCTTCCCCGTGTGT 60.528 57.895 0.00 0.00 0.00 3.72
818 860 0.512952 CAGCGGACGAGGACAAAAAG 59.487 55.000 0.00 0.00 0.00 2.27
832 874 0.570734 CGCGTTTCTGTATACAGCGG 59.429 55.000 25.31 15.25 43.46 5.52
1050 1098 3.060000 AGCGTCGTCGGTCCATCA 61.060 61.111 0.00 0.00 44.62 3.07
1317 1365 2.647297 GCAAGGAGGCAGCAACAC 59.353 61.111 0.00 0.00 0.00 3.32
1425 1473 2.408050 CACAGCACAGAGAGTACCAAC 58.592 52.381 0.00 0.00 0.00 3.77
1518 1575 4.455877 AGAACTACCTTTGCCTCAAAATCG 59.544 41.667 0.00 0.00 32.75 3.34
1647 1704 5.361857 AGATTGAATTAAGCATGGAACCTGG 59.638 40.000 0.00 0.00 0.00 4.45
1699 1758 6.974622 GTGCCAAATATGTAATCACTTCTTGG 59.025 38.462 0.00 0.00 32.94 3.61
1811 1873 9.414295 CATCAAAATGCATAATTAGTACATGGG 57.586 33.333 0.00 0.00 0.00 4.00
1856 1918 2.100605 AAACTGGCATCTCTTCCGTC 57.899 50.000 0.00 0.00 0.00 4.79
1882 1945 8.416329 TCTTATATTTGTTTACGGAGGGAGTAC 58.584 37.037 0.00 0.00 0.00 2.73
1883 1946 8.537728 TCTTATATTTGTTTACGGAGGGAGTA 57.462 34.615 0.00 0.00 0.00 2.59
1884 1947 7.427989 TCTTATATTTGTTTACGGAGGGAGT 57.572 36.000 0.00 0.00 0.00 3.85
1885 1948 6.424207 GCTCTTATATTTGTTTACGGAGGGAG 59.576 42.308 0.00 0.00 0.00 4.30
1886 1949 6.126997 TGCTCTTATATTTGTTTACGGAGGGA 60.127 38.462 0.00 0.00 0.00 4.20
1887 1950 6.053005 TGCTCTTATATTTGTTTACGGAGGG 58.947 40.000 0.00 0.00 0.00 4.30
1888 1951 7.730364 ATGCTCTTATATTTGTTTACGGAGG 57.270 36.000 0.00 0.00 0.00 4.30
1920 1983 7.393841 AGAGCGTTTAGATCACTAAAGTAGT 57.606 36.000 0.00 0.00 45.42 2.73
1921 1984 9.953697 ATAAGAGCGTTTAGATCACTAAAGTAG 57.046 33.333 0.00 0.00 45.42 2.57
1936 1999 9.099454 CCTCTGTAAAGAAATATAAGAGCGTTT 57.901 33.333 0.00 0.00 0.00 3.60
1937 2000 7.711339 CCCTCTGTAAAGAAATATAAGAGCGTT 59.289 37.037 0.00 0.00 0.00 4.84
1938 2001 7.069578 TCCCTCTGTAAAGAAATATAAGAGCGT 59.930 37.037 0.00 0.00 0.00 5.07
1939 2002 7.434492 TCCCTCTGTAAAGAAATATAAGAGCG 58.566 38.462 0.00 0.00 0.00 5.03
1940 2003 8.425703 ACTCCCTCTGTAAAGAAATATAAGAGC 58.574 37.037 0.00 0.00 0.00 4.09
1946 2009 9.369672 CCTAGTACTCCCTCTGTAAAGAAATAT 57.630 37.037 0.00 0.00 0.00 1.28
1947 2010 8.342270 ACCTAGTACTCCCTCTGTAAAGAAATA 58.658 37.037 0.00 0.00 0.00 1.40
1948 2011 7.190501 ACCTAGTACTCCCTCTGTAAAGAAAT 58.809 38.462 0.00 0.00 0.00 2.17
1949 2012 6.559429 ACCTAGTACTCCCTCTGTAAAGAAA 58.441 40.000 0.00 0.00 0.00 2.52
1950 2013 6.150034 ACCTAGTACTCCCTCTGTAAAGAA 57.850 41.667 0.00 0.00 0.00 2.52
1951 2014 5.793034 ACCTAGTACTCCCTCTGTAAAGA 57.207 43.478 0.00 0.00 0.00 2.52
1952 2015 7.446013 CAGATACCTAGTACTCCCTCTGTAAAG 59.554 44.444 0.00 0.00 0.00 1.85
1953 2016 7.288560 CAGATACCTAGTACTCCCTCTGTAAA 58.711 42.308 0.00 0.00 0.00 2.01
1954 2017 6.690975 GCAGATACCTAGTACTCCCTCTGTAA 60.691 46.154 0.00 0.00 33.21 2.41
1955 2018 5.221884 GCAGATACCTAGTACTCCCTCTGTA 60.222 48.000 0.00 0.00 33.21 2.74
1956 2019 4.446600 GCAGATACCTAGTACTCCCTCTGT 60.447 50.000 0.00 0.00 33.21 3.41
1957 2020 4.076394 GCAGATACCTAGTACTCCCTCTG 58.924 52.174 0.00 7.47 33.67 3.35
1958 2021 3.984770 AGCAGATACCTAGTACTCCCTCT 59.015 47.826 0.00 0.00 0.00 3.69
1959 2022 4.376225 AGCAGATACCTAGTACTCCCTC 57.624 50.000 0.00 0.00 0.00 4.30
1960 2023 4.475345 CAAGCAGATACCTAGTACTCCCT 58.525 47.826 0.00 0.00 0.00 4.20
1961 2024 3.006003 GCAAGCAGATACCTAGTACTCCC 59.994 52.174 0.00 0.00 0.00 4.30
1962 2025 3.892588 AGCAAGCAGATACCTAGTACTCC 59.107 47.826 0.00 0.00 0.00 3.85
1963 2026 5.067936 TCAAGCAAGCAGATACCTAGTACTC 59.932 44.000 0.00 0.00 0.00 2.59
1964 2027 4.956700 TCAAGCAAGCAGATACCTAGTACT 59.043 41.667 0.00 0.00 0.00 2.73
2071 2142 6.422701 CAGAACCGTCACAGAAGTACATAAAA 59.577 38.462 0.00 0.00 0.00 1.52
2089 2160 5.006358 CCTTAACATTCCGTTATCAGAACCG 59.994 44.000 0.00 0.00 39.81 4.44
2302 5592 7.702348 GGCAGTGAAAATGTGTCCTTAAATATC 59.298 37.037 0.00 0.00 32.28 1.63
2303 5593 7.547227 GGCAGTGAAAATGTGTCCTTAAATAT 58.453 34.615 0.00 0.00 32.28 1.28
2355 5645 3.120792 GTGGCTAAGCGTCATATTTCGA 58.879 45.455 1.19 0.00 0.00 3.71
2365 5655 2.040544 GGCATGTGTGGCTAAGCGT 61.041 57.895 0.00 0.00 46.64 5.07
2396 5686 3.920412 CCCAGAAACGCTTTCAATTTAGC 59.080 43.478 11.33 0.00 42.10 3.09
2402 5692 1.770294 AACCCCAGAAACGCTTTCAA 58.230 45.000 11.33 0.00 42.10 2.69
2406 5696 3.025262 TGTTAAAACCCCAGAAACGCTT 58.975 40.909 0.00 0.00 0.00 4.68
2504 5796 1.881973 GAAATGCAGCACAGTCTTCCA 59.118 47.619 0.00 0.00 0.00 3.53
2537 5829 9.391006 GGTGTTGAAGTTTTATCCTGATGTATA 57.609 33.333 0.00 0.00 0.00 1.47
2538 5830 7.888021 TGGTGTTGAAGTTTTATCCTGATGTAT 59.112 33.333 0.00 0.00 0.00 2.29
2552 5844 3.432046 CCAAGGCAAATGGTGTTGAAGTT 60.432 43.478 0.00 0.00 33.08 2.66
2557 5849 2.917172 GCCAAGGCAAATGGTGTTG 58.083 52.632 6.14 0.00 40.23 3.33
2579 5871 4.927425 TCAAGTAACGGTAAAGCTGACATC 59.073 41.667 0.00 0.00 0.00 3.06
2685 5977 6.581712 AGCTTTTACAAATTTGACCATGTGT 58.418 32.000 24.64 2.76 0.00 3.72
2725 6018 7.336931 GTGAATGAACTCTAGAAAAAGGGCATA 59.663 37.037 0.00 0.00 0.00 3.14
2931 6224 4.708726 AAGCACATATTCAGCTTTCCAC 57.291 40.909 0.00 0.00 45.57 4.02
2998 6291 1.150827 CTGCTTGCAACGATGTCTCA 58.849 50.000 0.00 0.00 0.00 3.27
3056 6349 5.883115 TGAATTGTAGTGTCCACAAGTTGAA 59.117 36.000 10.54 0.00 39.15 2.69
3057 6350 5.432645 TGAATTGTAGTGTCCACAAGTTGA 58.567 37.500 10.54 0.00 39.15 3.18
3058 6351 5.749596 TGAATTGTAGTGTCCACAAGTTG 57.250 39.130 0.00 0.00 39.15 3.16
3059 6352 5.885912 AGTTGAATTGTAGTGTCCACAAGTT 59.114 36.000 0.00 0.00 39.15 2.66
3060 6353 5.437060 AGTTGAATTGTAGTGTCCACAAGT 58.563 37.500 0.00 0.00 39.15 3.16
3061 6354 6.183360 ACAAGTTGAATTGTAGTGTCCACAAG 60.183 38.462 10.54 0.00 41.53 3.16
3062 6355 5.650266 ACAAGTTGAATTGTAGTGTCCACAA 59.350 36.000 10.54 0.00 41.53 3.33
3063 6356 5.189928 ACAAGTTGAATTGTAGTGTCCACA 58.810 37.500 10.54 0.00 41.53 4.17
3064 6357 5.751243 ACAAGTTGAATTGTAGTGTCCAC 57.249 39.130 10.54 0.00 41.53 4.02
3065 6358 6.767524 AAACAAGTTGAATTGTAGTGTCCA 57.232 33.333 10.54 0.00 42.49 4.02
3066 6359 9.744468 ATAAAAACAAGTTGAATTGTAGTGTCC 57.256 29.630 10.54 0.00 42.49 4.02
3209 6502 2.768527 TGCTTCTCATCCTAGGAGGTTG 59.231 50.000 22.23 13.40 36.61 3.77
3247 6540 2.416547 CCTTGCTTCGTGACCATAACAG 59.583 50.000 0.00 0.00 0.00 3.16
3258 6551 1.679032 GGGATTACTGCCTTGCTTCGT 60.679 52.381 0.00 0.00 0.00 3.85
3269 6563 5.943416 TGAGTAAACAACCATGGGATTACTG 59.057 40.000 25.49 13.31 36.02 2.74
3366 6685 3.553828 ACGGTCCAGAGAAACTCAAAA 57.446 42.857 0.00 0.00 32.06 2.44
3367 6686 3.553828 AACGGTCCAGAGAAACTCAAA 57.446 42.857 0.00 0.00 32.06 2.69
3368 6687 3.553828 AAACGGTCCAGAGAAACTCAA 57.446 42.857 0.00 0.00 32.06 3.02
3369 6688 3.202906 CAAAACGGTCCAGAGAAACTCA 58.797 45.455 0.00 0.00 32.06 3.41
3405 6724 4.122776 AGCACCGTTCATTATGCTCTTAG 58.877 43.478 0.00 0.00 45.11 2.18
3406 6725 4.137116 AGCACCGTTCATTATGCTCTTA 57.863 40.909 0.00 0.00 45.11 2.10
3429 6748 1.143620 GCCAACCACAAGCAGCAAA 59.856 52.632 0.00 0.00 0.00 3.68
3457 6776 2.686915 GAGCATGAACTCTGAAATGGGG 59.313 50.000 0.00 0.00 33.69 4.96
3458 6777 3.618351 AGAGCATGAACTCTGAAATGGG 58.382 45.455 0.00 0.00 45.36 4.00
3513 6861 8.453238 TGTTGAATGTAACTTTTAGGTTGCTA 57.547 30.769 0.00 0.00 33.94 3.49
3524 6872 5.767665 TGCCACTGTATGTTGAATGTAACTT 59.232 36.000 0.00 0.00 0.00 2.66
3525 6873 5.312895 TGCCACTGTATGTTGAATGTAACT 58.687 37.500 0.00 0.00 0.00 2.24
3543 6891 0.392595 GTAGCCCAGGTTACTGCCAC 60.393 60.000 3.64 0.00 43.53 5.01
3573 8505 2.042843 CGGAGGGAGTACCAGCCT 60.043 66.667 0.00 0.00 43.89 4.58
3574 8506 1.957765 GAACGGAGGGAGTACCAGCC 61.958 65.000 0.00 0.00 43.89 4.85
3583 8515 4.035112 ACAAGTAATATGGAACGGAGGGA 58.965 43.478 0.00 0.00 0.00 4.20
3584 8516 4.377897 GACAAGTAATATGGAACGGAGGG 58.622 47.826 0.00 0.00 0.00 4.30
3585 8517 4.049186 CGACAAGTAATATGGAACGGAGG 58.951 47.826 0.00 0.00 0.00 4.30
3588 8520 3.245284 CAGCGACAAGTAATATGGAACGG 59.755 47.826 0.00 0.00 0.00 4.44
3589 8521 4.109766 TCAGCGACAAGTAATATGGAACG 58.890 43.478 0.00 0.00 0.00 3.95
3590 8522 6.604735 AATCAGCGACAAGTAATATGGAAC 57.395 37.500 0.00 0.00 0.00 3.62
3594 8526 9.244799 TGTACTAAATCAGCGACAAGTAATATG 57.755 33.333 0.00 0.00 0.00 1.78
3596 8528 9.811995 ATTGTACTAAATCAGCGACAAGTAATA 57.188 29.630 0.00 0.00 37.03 0.98
3597 8529 8.718102 ATTGTACTAAATCAGCGACAAGTAAT 57.282 30.769 0.00 0.00 37.03 1.89
3599 8531 9.244799 CATATTGTACTAAATCAGCGACAAGTA 57.755 33.333 0.00 0.00 37.03 2.24
3600 8532 7.224753 CCATATTGTACTAAATCAGCGACAAGT 59.775 37.037 0.00 0.00 37.03 3.16
3601 8533 7.438160 TCCATATTGTACTAAATCAGCGACAAG 59.562 37.037 0.00 0.00 37.03 3.16
3603 8535 6.811954 TCCATATTGTACTAAATCAGCGACA 58.188 36.000 0.00 0.00 0.00 4.35
3604 8536 7.095607 CCTTCCATATTGTACTAAATCAGCGAC 60.096 40.741 0.00 0.00 0.00 5.19
3605 8537 6.929049 CCTTCCATATTGTACTAAATCAGCGA 59.071 38.462 0.00 0.00 0.00 4.93
3606 8538 6.147821 CCCTTCCATATTGTACTAAATCAGCG 59.852 42.308 0.00 0.00 0.00 5.18
3607 8539 7.224297 TCCCTTCCATATTGTACTAAATCAGC 58.776 38.462 0.00 0.00 0.00 4.26
3609 8541 8.331931 ACTCCCTTCCATATTGTACTAAATCA 57.668 34.615 0.00 0.00 0.00 2.57
3610 8542 9.708092 GTACTCCCTTCCATATTGTACTAAATC 57.292 37.037 0.00 0.00 0.00 2.17
3611 8543 9.220906 TGTACTCCCTTCCATATTGTACTAAAT 57.779 33.333 0.00 0.00 32.60 1.40
3612 8544 8.612486 TGTACTCCCTTCCATATTGTACTAAA 57.388 34.615 0.00 0.00 32.60 1.85
3613 8545 8.647796 CATGTACTCCCTTCCATATTGTACTAA 58.352 37.037 0.00 0.00 32.60 2.24
3614 8546 7.256190 GCATGTACTCCCTTCCATATTGTACTA 60.256 40.741 0.00 0.00 32.60 1.82
3615 8547 6.464465 GCATGTACTCCCTTCCATATTGTACT 60.464 42.308 0.00 0.00 32.60 2.73
3617 8549 5.221843 GGCATGTACTCCCTTCCATATTGTA 60.222 44.000 0.00 0.00 0.00 2.41
3618 8550 4.446311 GGCATGTACTCCCTTCCATATTGT 60.446 45.833 0.00 0.00 0.00 2.71
3621 8553 3.584848 GAGGCATGTACTCCCTTCCATAT 59.415 47.826 7.96 0.00 0.00 1.78
3622 8554 2.972713 GAGGCATGTACTCCCTTCCATA 59.027 50.000 7.96 0.00 0.00 2.74
3623 8555 1.771255 GAGGCATGTACTCCCTTCCAT 59.229 52.381 7.96 0.00 0.00 3.41
3624 8556 1.204146 GAGGCATGTACTCCCTTCCA 58.796 55.000 7.96 0.00 0.00 3.53
3625 8557 0.105039 CGAGGCATGTACTCCCTTCC 59.895 60.000 12.11 0.00 0.00 3.46
3627 8559 1.264749 TGCGAGGCATGTACTCCCTT 61.265 55.000 12.11 0.00 31.71 3.95
3629 8561 2.900273 TGCGAGGCATGTACTCCC 59.100 61.111 12.11 5.85 31.71 4.30
3638 8570 1.269723 CGTATCCTTCTATGCGAGGCA 59.730 52.381 0.00 0.00 44.86 4.75
3657 8917 4.106029 TCACCTCGTTTCCTTTCTATCG 57.894 45.455 0.00 0.00 0.00 2.92
3690 8950 3.244526 TGCCTGATCTTGTTCTGCTGTTA 60.245 43.478 0.00 0.00 0.00 2.41
3712 8972 2.812011 GTGTATCCCAGCGTTTTGACTT 59.188 45.455 0.00 0.00 0.00 3.01
3780 9041 8.341903 CACCGTTAAGATAATACATCATTGCAA 58.658 33.333 0.00 0.00 0.00 4.08
3892 9157 3.700538 AGAGCAAATGAATTACTGGCCA 58.299 40.909 4.71 4.71 0.00 5.36
3939 9204 3.766591 TCTGGAAGGATGTTGAGAGACTC 59.233 47.826 0.00 0.00 0.00 3.36
4005 9270 6.653320 CCATTACTAACACTGTTCTTGCCTTA 59.347 38.462 0.00 0.00 0.00 2.69
4042 9307 5.242393 GGGCATGCTTGTATCATAACATTCT 59.758 40.000 18.92 0.00 0.00 2.40
4043 9308 5.242393 AGGGCATGCTTGTATCATAACATTC 59.758 40.000 18.92 0.00 0.00 2.67
4045 9310 4.733165 AGGGCATGCTTGTATCATAACAT 58.267 39.130 18.92 0.00 0.00 2.71
4046 9311 4.169059 AGGGCATGCTTGTATCATAACA 57.831 40.909 18.92 0.00 0.00 2.41
4047 9312 6.824305 ATAAGGGCATGCTTGTATCATAAC 57.176 37.500 18.92 0.00 0.00 1.89
4082 9347 9.248291 GTATGTTCAATGTTTGTCTTTGTTGAT 57.752 29.630 0.00 0.00 34.27 2.57
4083 9348 8.465999 AGTATGTTCAATGTTTGTCTTTGTTGA 58.534 29.630 0.00 0.00 34.27 3.18
4101 9366 7.224167 GCTTAAGGGTGTGTACATAGTATGTTC 59.776 40.741 20.52 15.80 41.63 3.18
4102 9367 7.046033 GCTTAAGGGTGTGTACATAGTATGTT 58.954 38.462 20.52 5.88 41.63 2.71
4132 9397 7.690952 AATTGCAATTGAGTTGGCAAAATAT 57.309 28.000 23.54 0.00 37.37 1.28
4184 9453 5.163754 GCGCAATAGAACCTCTGTATGTTTT 60.164 40.000 0.30 0.00 0.00 2.43
4188 9457 2.472861 CGCGCAATAGAACCTCTGTATG 59.527 50.000 8.75 0.00 0.00 2.39
4189 9458 2.743938 CGCGCAATAGAACCTCTGTAT 58.256 47.619 8.75 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.