Multiple sequence alignment - TraesCS5A01G118000

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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 TraesCS5A01G118000 chr5A 100.000 2204 0 0 1 2204 241757621 241755418 0.000000e+00 4071.0
1 TraesCS5A01G118000 chr5A 96.077 1912 57 7 1 1901 241765089 241763185 0.000000e+00 3099.0
2 TraesCS5A01G118000 chr5A 91.383 499 32 8 1 493 45615870 45616363 0.000000e+00 673.0
3 TraesCS5A01G118000 chr5A 91.598 488 27 10 13 493 104498520 104498040 0.000000e+00 662.0
4 TraesCS5A01G118000 chr5A 90.782 499 36 7 1 493 361250852 361251346 0.000000e+00 658.0
5 TraesCS5A01G118000 chr5A 90.581 499 35 9 1 493 45623791 45624283 0.000000e+00 651.0
6 TraesCS5A01G118000 chr7A 95.318 1431 60 7 474 1900 104325844 104324417 0.000000e+00 2265.0
7 TraesCS5A01G118000 chr7A 93.654 1434 66 14 473 1901 104340598 104339185 0.000000e+00 2121.0
8 TraesCS5A01G118000 chr7A 96.048 1240 45 4 664 1901 586293467 586294704 0.000000e+00 2015.0
9 TraesCS5A01G118000 chr7A 90.669 986 67 12 919 1900 200364420 200363456 0.000000e+00 1288.0
10 TraesCS5A01G118000 chr7A 96.178 785 29 1 1004 1788 586301147 586301930 0.000000e+00 1282.0
11 TraesCS5A01G118000 chr7A 92.380 853 59 5 655 1505 104347442 104346594 0.000000e+00 1210.0
12 TraesCS5A01G118000 chr7A 92.857 574 31 9 1333 1901 200472848 200472280 0.000000e+00 824.0
13 TraesCS5A01G118000 chr7A 91.200 500 28 13 452 944 586300656 586301146 0.000000e+00 665.0
14 TraesCS5A01G118000 chr7A 86.538 416 52 4 920 1335 200476968 200476557 2.580000e-124 455.0
15 TraesCS5A01G118000 chr7A 90.508 295 24 3 1910 2204 296561003 296561293 9.540000e-104 387.0
16 TraesCS5A01G118000 chr7A 86.275 306 32 8 1901 2204 414961363 414961660 7.590000e-85 324.0
17 TraesCS5A01G118000 chr7A 86.047 301 36 6 1905 2203 140075208 140074912 3.530000e-83 318.0
18 TraesCS5A01G118000 chr4A 92.284 972 70 5 933 1900 326014056 326013086 0.000000e+00 1375.0
19 TraesCS5A01G118000 chr4A 90.161 498 40 7 1 493 488375041 488375534 6.640000e-180 640.0
20 TraesCS5A01G118000 chr1A 95.151 763 34 3 1143 1904 252020712 252021472 0.000000e+00 1201.0
21 TraesCS5A01G118000 chr1A 90.217 644 49 8 488 1128 251997016 251997648 0.000000e+00 828.0
22 TraesCS5A01G118000 chr1A 91.152 486 33 8 14 493 262017352 262016871 0.000000e+00 651.0
23 TraesCS5A01G118000 chr1A 87.437 199 16 7 660 858 44445056 44444867 1.020000e-53 220.0
24 TraesCS5A01G118000 chr6A 91.772 474 31 6 24 493 325639575 325639106 0.000000e+00 652.0
25 TraesCS5A01G118000 chr6A 90.180 499 39 8 1 493 351492463 351492957 1.840000e-180 641.0
26 TraesCS5A01G118000 chr6A 89.109 303 28 4 1902 2203 166877344 166877046 2.670000e-99 372.0
27 TraesCS5A01G118000 chr6A 88.809 277 26 4 1903 2178 166895364 166895092 3.510000e-88 335.0
28 TraesCS5A01G118000 chr6A 88.530 279 26 4 1928 2204 408257563 408257289 1.260000e-87 333.0
29 TraesCS5A01G118000 chr3A 92.742 248 18 0 1957 2204 309547010 309547257 2.080000e-95 359.0
30 TraesCS5A01G118000 chr3A 85.621 306 34 8 1901 2204 333423153 333422856 1.640000e-81 313.0
31 TraesCS5A01G118000 chr3A 78.896 308 54 11 1901 2204 311227180 311226880 4.800000e-47 198.0
32 TraesCS5A01G118000 chr3A 77.124 306 59 9 1901 2202 311235093 311234795 1.350000e-37 167.0
33 TraesCS5A01G118000 chr2A 86.842 304 35 3 1902 2204 144129275 144129574 3.510000e-88 335.0
34 TraesCS5A01G118000 chr2A 84.337 83 7 5 593 673 210054011 210054089 2.350000e-10 76.8


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 TraesCS5A01G118000 chr5A 241755418 241757621 2203 True 4071.0 4071 100.0000 1 2204 1 chr5A.!!$R2 2203
1 TraesCS5A01G118000 chr5A 241763185 241765089 1904 True 3099.0 3099 96.0770 1 1901 1 chr5A.!!$R3 1900
2 TraesCS5A01G118000 chr7A 104324417 104325844 1427 True 2265.0 2265 95.3180 474 1900 1 chr7A.!!$R1 1426
3 TraesCS5A01G118000 chr7A 104339185 104340598 1413 True 2121.0 2121 93.6540 473 1901 1 chr7A.!!$R2 1428
4 TraesCS5A01G118000 chr7A 586293467 586294704 1237 False 2015.0 2015 96.0480 664 1901 1 chr7A.!!$F3 1237
5 TraesCS5A01G118000 chr7A 200363456 200364420 964 True 1288.0 1288 90.6690 919 1900 1 chr7A.!!$R5 981
6 TraesCS5A01G118000 chr7A 104346594 104347442 848 True 1210.0 1210 92.3800 655 1505 1 chr7A.!!$R3 850
7 TraesCS5A01G118000 chr7A 586300656 586301930 1274 False 973.5 1282 93.6890 452 1788 2 chr7A.!!$F4 1336
8 TraesCS5A01G118000 chr7A 200472280 200476968 4688 True 639.5 824 89.6975 920 1901 2 chr7A.!!$R6 981
9 TraesCS5A01G118000 chr4A 326013086 326014056 970 True 1375.0 1375 92.2840 933 1900 1 chr4A.!!$R1 967
10 TraesCS5A01G118000 chr1A 252020712 252021472 760 False 1201.0 1201 95.1510 1143 1904 1 chr1A.!!$F2 761
11 TraesCS5A01G118000 chr1A 251997016 251997648 632 False 828.0 828 90.2170 488 1128 1 chr1A.!!$F1 640

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
473 475 1.136252 CGCACACACACTATGCAGAAC 60.136 52.381 0.0 0.0 39.39 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2162 5914 0.033366 AAAACATGTGCCGGGCTTTC 59.967 50.0 21.46 11.09 0.0 2.62 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
38 39 1.539827 GGAAGGTTGCGTGTTTGCTAT 59.460 47.619 0.00 0.00 35.36 2.97
67 68 1.816863 ATGTGGCGGACGAACAGACT 61.817 55.000 0.00 0.00 0.00 3.24
95 96 1.536149 GGATTCGTCTCGTCGTTCTG 58.464 55.000 0.00 0.00 0.00 3.02
109 110 3.248602 GTCGTTCTGAGCAACTTTCATGT 59.751 43.478 0.00 0.00 0.00 3.21
110 111 3.494626 TCGTTCTGAGCAACTTTCATGTC 59.505 43.478 0.00 0.00 0.00 3.06
371 373 6.865520 AGTAGTACTAATCTAAGCCAGGGAT 58.134 40.000 3.61 0.00 0.00 3.85
473 475 1.136252 CGCACACACACTATGCAGAAC 60.136 52.381 0.00 0.00 39.39 3.01
474 476 1.872952 GCACACACACTATGCAGAACA 59.127 47.619 0.00 0.00 39.23 3.18
475 477 2.349817 GCACACACACTATGCAGAACAC 60.350 50.000 0.00 0.00 39.23 3.32
476 478 2.871633 CACACACACTATGCAGAACACA 59.128 45.455 0.00 0.00 0.00 3.72
480 482 3.133691 CACACTATGCAGAACACACACT 58.866 45.455 0.00 0.00 0.00 3.55
484 486 1.220529 ATGCAGAACACACACTCACG 58.779 50.000 0.00 0.00 0.00 4.35
486 488 1.559814 CAGAACACACACTCACGCG 59.440 57.895 3.53 3.53 0.00 6.01
821 845 3.391382 GAGGACGTGGTCAGGGGG 61.391 72.222 0.00 0.00 33.68 5.40
945 979 1.646447 ACCAGAGGAGGGATCACTACA 59.354 52.381 10.61 0.00 0.00 2.74
976 1010 2.932130 GATGAGCTCGAGGGGGTTGC 62.932 65.000 15.58 0.00 0.00 4.17
1128 1162 0.329596 GCCTGGACAACTCCTCCAAT 59.670 55.000 0.00 0.00 37.36 3.16
1169 1203 1.490693 GGCTATGGCGATGACACACG 61.491 60.000 0.00 0.00 39.81 4.49
1331 5077 2.270850 GGCCATCAAGCCGTGGTA 59.729 61.111 0.00 0.00 44.57 3.25
1603 5351 7.790823 ATGTTTCAAGTCAAAAGGGAAAATG 57.209 32.000 0.00 0.00 0.00 2.32
1889 5641 5.163468 GGAGATCACTGTAGCAAGATTCTCA 60.163 44.000 0.00 0.00 0.00 3.27
1902 5654 5.183904 GCAAGATTCTCAGGGTGTTACAATT 59.816 40.000 0.00 0.00 0.00 2.32
1903 5655 6.374333 GCAAGATTCTCAGGGTGTTACAATTA 59.626 38.462 0.00 0.00 0.00 1.40
1904 5656 7.414540 GCAAGATTCTCAGGGTGTTACAATTAG 60.415 40.741 0.00 0.00 0.00 1.73
1905 5657 6.653989 AGATTCTCAGGGTGTTACAATTAGG 58.346 40.000 0.00 0.00 0.00 2.69
1906 5658 4.837093 TCTCAGGGTGTTACAATTAGGG 57.163 45.455 0.00 0.00 0.00 3.53
1907 5659 4.172807 TCTCAGGGTGTTACAATTAGGGT 58.827 43.478 0.00 0.00 0.00 4.34
1908 5660 5.343715 TCTCAGGGTGTTACAATTAGGGTA 58.656 41.667 0.00 0.00 0.00 3.69
1909 5661 5.424252 TCTCAGGGTGTTACAATTAGGGTAG 59.576 44.000 0.00 0.00 0.00 3.18
1910 5662 4.472108 TCAGGGTGTTACAATTAGGGTAGG 59.528 45.833 0.00 0.00 0.00 3.18
1911 5663 3.784202 AGGGTGTTACAATTAGGGTAGGG 59.216 47.826 0.00 0.00 0.00 3.53
1912 5664 3.548770 GGTGTTACAATTAGGGTAGGGC 58.451 50.000 0.00 0.00 0.00 5.19
1913 5665 3.201487 GGTGTTACAATTAGGGTAGGGCT 59.799 47.826 0.00 0.00 0.00 5.19
1914 5666 4.409901 GGTGTTACAATTAGGGTAGGGCTA 59.590 45.833 0.00 0.00 0.00 3.93
1915 5667 5.072736 GGTGTTACAATTAGGGTAGGGCTAT 59.927 44.000 0.00 0.00 0.00 2.97
1916 5668 6.228995 GTGTTACAATTAGGGTAGGGCTATC 58.771 44.000 0.00 0.00 0.00 2.08
1917 5669 6.042897 GTGTTACAATTAGGGTAGGGCTATCT 59.957 42.308 0.00 0.00 0.00 1.98
1918 5670 6.269307 TGTTACAATTAGGGTAGGGCTATCTC 59.731 42.308 0.00 0.00 0.00 2.75
1919 5671 3.833070 ACAATTAGGGTAGGGCTATCTCG 59.167 47.826 0.00 0.00 0.00 4.04
1920 5672 3.829728 ATTAGGGTAGGGCTATCTCGT 57.170 47.619 0.00 0.00 0.00 4.18
1921 5673 2.875094 TAGGGTAGGGCTATCTCGTC 57.125 55.000 0.00 0.00 0.00 4.20
1922 5674 0.112801 AGGGTAGGGCTATCTCGTCC 59.887 60.000 0.00 0.00 0.00 4.79
1923 5675 0.899253 GGGTAGGGCTATCTCGTCCC 60.899 65.000 0.00 0.00 40.36 4.46
1985 5737 8.638873 AGTTAGGAAGTCCAATTAACAAAAAGG 58.361 33.333 0.00 0.00 38.89 3.11
1986 5738 8.635328 GTTAGGAAGTCCAATTAACAAAAAGGA 58.365 33.333 0.00 0.00 38.89 3.36
1987 5739 7.290110 AGGAAGTCCAATTAACAAAAAGGAG 57.710 36.000 0.00 0.00 38.89 3.69
1988 5740 7.066781 AGGAAGTCCAATTAACAAAAAGGAGA 58.933 34.615 0.00 0.00 38.89 3.71
1989 5741 7.730332 AGGAAGTCCAATTAACAAAAAGGAGAT 59.270 33.333 0.00 0.00 38.89 2.75
1990 5742 7.814587 GGAAGTCCAATTAACAAAAAGGAGATG 59.185 37.037 0.00 0.00 35.64 2.90
1991 5743 7.839680 AGTCCAATTAACAAAAAGGAGATGT 57.160 32.000 0.00 0.00 0.00 3.06
1992 5744 8.250143 AGTCCAATTAACAAAAAGGAGATGTT 57.750 30.769 0.00 0.00 40.22 2.71
1993 5745 8.704668 AGTCCAATTAACAAAAAGGAGATGTTT 58.295 29.630 0.00 0.00 38.22 2.83
1994 5746 9.325198 GTCCAATTAACAAAAAGGAGATGTTTT 57.675 29.630 0.00 0.00 38.22 2.43
1995 5747 9.323985 TCCAATTAACAAAAAGGAGATGTTTTG 57.676 29.630 7.19 7.19 45.82 2.44
2004 5756 9.533253 CAAAAAGGAGATGTTTTGTAGATGTTT 57.467 29.630 0.00 0.00 39.04 2.83
2005 5757 9.533253 AAAAAGGAGATGTTTTGTAGATGTTTG 57.467 29.630 0.00 0.00 0.00 2.93
2006 5758 6.824305 AGGAGATGTTTTGTAGATGTTTGG 57.176 37.500 0.00 0.00 0.00 3.28
2007 5759 5.711976 AGGAGATGTTTTGTAGATGTTTGGG 59.288 40.000 0.00 0.00 0.00 4.12
2008 5760 5.476945 GGAGATGTTTTGTAGATGTTTGGGT 59.523 40.000 0.00 0.00 0.00 4.51
2009 5761 6.657541 GGAGATGTTTTGTAGATGTTTGGGTA 59.342 38.462 0.00 0.00 0.00 3.69
2010 5762 7.339466 GGAGATGTTTTGTAGATGTTTGGGTAT 59.661 37.037 0.00 0.00 0.00 2.73
2011 5763 8.055279 AGATGTTTTGTAGATGTTTGGGTATG 57.945 34.615 0.00 0.00 0.00 2.39
2012 5764 7.888021 AGATGTTTTGTAGATGTTTGGGTATGA 59.112 33.333 0.00 0.00 0.00 2.15
2013 5765 8.593945 ATGTTTTGTAGATGTTTGGGTATGAT 57.406 30.769 0.00 0.00 0.00 2.45
2014 5766 8.050778 TGTTTTGTAGATGTTTGGGTATGATC 57.949 34.615 0.00 0.00 0.00 2.92
2015 5767 7.122055 TGTTTTGTAGATGTTTGGGTATGATCC 59.878 37.037 0.00 0.00 0.00 3.36
2016 5768 4.956085 TGTAGATGTTTGGGTATGATCCG 58.044 43.478 0.00 0.00 0.00 4.18
2017 5769 3.492102 AGATGTTTGGGTATGATCCGG 57.508 47.619 0.00 0.00 0.00 5.14
2018 5770 3.045634 AGATGTTTGGGTATGATCCGGA 58.954 45.455 6.61 6.61 0.00 5.14
2019 5771 2.702592 TGTTTGGGTATGATCCGGAC 57.297 50.000 6.12 0.90 0.00 4.79
2020 5772 1.210967 TGTTTGGGTATGATCCGGACC 59.789 52.381 6.12 2.75 0.00 4.46
2024 5776 3.700198 GGTATGATCCGGACCCAAC 57.300 57.895 6.12 2.95 0.00 3.77
2025 5777 0.249741 GGTATGATCCGGACCCAACG 60.250 60.000 6.12 0.00 0.00 4.10
2042 5794 3.300765 GGTGACGACTGTCCGGGT 61.301 66.667 0.00 0.00 44.86 5.28
2043 5795 2.732658 GTGACGACTGTCCGGGTT 59.267 61.111 0.00 0.00 44.86 4.11
2044 5796 1.663702 GTGACGACTGTCCGGGTTG 60.664 63.158 0.00 0.00 44.86 3.77
2045 5797 2.048503 GACGACTGTCCGGGTTGG 60.049 66.667 0.00 0.00 39.30 3.77
2046 5798 3.584868 GACGACTGTCCGGGTTGGG 62.585 68.421 0.00 0.00 39.30 4.12
2047 5799 3.622826 CGACTGTCCGGGTTGGGT 61.623 66.667 0.00 0.00 38.76 4.51
2048 5800 2.833957 GACTGTCCGGGTTGGGTT 59.166 61.111 0.00 0.00 38.76 4.11
2049 5801 1.302271 GACTGTCCGGGTTGGGTTC 60.302 63.158 0.00 0.00 38.76 3.62
2050 5802 2.047213 GACTGTCCGGGTTGGGTTCA 62.047 60.000 0.00 0.00 38.76 3.18
2051 5803 1.302511 CTGTCCGGGTTGGGTTCAG 60.303 63.158 0.00 0.00 38.76 3.02
2052 5804 2.033602 GTCCGGGTTGGGTTCAGG 59.966 66.667 0.00 0.00 38.76 3.86
2053 5805 2.122324 TCCGGGTTGGGTTCAGGA 60.122 61.111 0.00 0.00 38.76 3.86
2054 5806 2.033602 CCGGGTTGGGTTCAGGAC 59.966 66.667 0.00 0.00 0.00 3.85
2055 5807 2.824880 CCGGGTTGGGTTCAGGACA 61.825 63.158 0.00 0.00 0.00 4.02
2056 5808 1.149627 CGGGTTGGGTTCAGGACAA 59.850 57.895 0.00 0.00 0.00 3.18
2057 5809 0.251165 CGGGTTGGGTTCAGGACAAT 60.251 55.000 0.00 0.00 0.00 2.71
2058 5810 1.821666 CGGGTTGGGTTCAGGACAATT 60.822 52.381 0.00 0.00 0.00 2.32
2059 5811 2.325484 GGGTTGGGTTCAGGACAATTT 58.675 47.619 0.00 0.00 0.00 1.82
2060 5812 2.703536 GGGTTGGGTTCAGGACAATTTT 59.296 45.455 0.00 0.00 0.00 1.82
2061 5813 3.244078 GGGTTGGGTTCAGGACAATTTTC 60.244 47.826 0.00 0.00 0.00 2.29
2062 5814 3.386402 GGTTGGGTTCAGGACAATTTTCA 59.614 43.478 0.00 0.00 0.00 2.69
2063 5815 4.501400 GGTTGGGTTCAGGACAATTTTCAG 60.501 45.833 0.00 0.00 0.00 3.02
2064 5816 4.177537 TGGGTTCAGGACAATTTTCAGA 57.822 40.909 0.00 0.00 0.00 3.27
2065 5817 3.888930 TGGGTTCAGGACAATTTTCAGAC 59.111 43.478 0.00 0.00 0.00 3.51
2066 5818 3.058224 GGGTTCAGGACAATTTTCAGACG 60.058 47.826 0.00 0.00 0.00 4.18
2067 5819 3.555518 GTTCAGGACAATTTTCAGACGC 58.444 45.455 0.00 0.00 0.00 5.19
2068 5820 1.798223 TCAGGACAATTTTCAGACGCG 59.202 47.619 3.53 3.53 0.00 6.01
2069 5821 0.517316 AGGACAATTTTCAGACGCGC 59.483 50.000 5.73 0.00 0.00 6.86
2070 5822 0.237235 GGACAATTTTCAGACGCGCA 59.763 50.000 5.73 0.00 0.00 6.09
2071 5823 1.318251 GACAATTTTCAGACGCGCAC 58.682 50.000 5.73 0.00 0.00 5.34
2072 5824 0.944386 ACAATTTTCAGACGCGCACT 59.056 45.000 5.73 2.63 0.00 4.40
2073 5825 1.069906 ACAATTTTCAGACGCGCACTC 60.070 47.619 5.73 0.08 0.00 3.51
2074 5826 0.163788 AATTTTCAGACGCGCACTCG 59.836 50.000 5.73 1.80 39.07 4.18
2075 5827 0.666274 ATTTTCAGACGCGCACTCGA 60.666 50.000 5.73 4.18 38.10 4.04
2076 5828 1.275471 TTTTCAGACGCGCACTCGAG 61.275 55.000 11.84 11.84 41.34 4.04
2077 5829 3.610791 TTCAGACGCGCACTCGAGG 62.611 63.158 18.41 6.97 39.86 4.63
2091 5843 4.208632 GAGGGGTTCGATGCACTG 57.791 61.111 0.00 0.00 0.00 3.66
2092 5844 1.296715 GAGGGGTTCGATGCACTGT 59.703 57.895 0.00 0.00 0.00 3.55
2093 5845 1.003355 AGGGGTTCGATGCACTGTG 60.003 57.895 2.76 2.76 0.00 3.66
2094 5846 2.690778 GGGGTTCGATGCACTGTGC 61.691 63.158 25.15 25.15 45.29 4.57
2103 5855 2.674380 GCACTGTGCAAGGAGGGG 60.674 66.667 26.70 0.00 44.26 4.79
2104 5856 2.839098 CACTGTGCAAGGAGGGGT 59.161 61.111 0.00 0.00 0.00 4.95
2105 5857 1.151450 CACTGTGCAAGGAGGGGTT 59.849 57.895 0.00 0.00 0.00 4.11
2106 5858 0.468029 CACTGTGCAAGGAGGGGTTT 60.468 55.000 0.00 0.00 0.00 3.27
2107 5859 0.178990 ACTGTGCAAGGAGGGGTTTC 60.179 55.000 0.00 0.00 0.00 2.78
2108 5860 1.228124 TGTGCAAGGAGGGGTTTCG 60.228 57.895 0.00 0.00 0.00 3.46
2109 5861 1.971695 GTGCAAGGAGGGGTTTCGG 60.972 63.158 0.00 0.00 0.00 4.30
2110 5862 2.361230 GCAAGGAGGGGTTTCGGG 60.361 66.667 0.00 0.00 0.00 5.14
2111 5863 2.355115 CAAGGAGGGGTTTCGGGG 59.645 66.667 0.00 0.00 0.00 5.73
2112 5864 3.658422 AAGGAGGGGTTTCGGGGC 61.658 66.667 0.00 0.00 0.00 5.80
2115 5867 4.426313 GAGGGGTTTCGGGGCCTG 62.426 72.222 5.83 5.83 0.00 4.85
2126 5878 4.796495 GGGCCTGGCGGTTGGTAG 62.796 72.222 13.40 0.00 0.00 3.18
2130 5882 4.077184 CTGGCGGTTGGTAGCGGA 62.077 66.667 0.00 0.00 44.99 5.54
2131 5883 4.382320 TGGCGGTTGGTAGCGGAC 62.382 66.667 0.00 0.00 44.99 4.79
2132 5884 4.078516 GGCGGTTGGTAGCGGACT 62.079 66.667 0.00 0.00 44.99 3.85
2133 5885 2.813908 GCGGTTGGTAGCGGACTG 60.814 66.667 0.00 3.46 44.99 3.51
2134 5886 2.654877 CGGTTGGTAGCGGACTGT 59.345 61.111 0.00 0.00 41.36 3.55
2135 5887 1.736645 CGGTTGGTAGCGGACTGTG 60.737 63.158 0.00 0.00 41.36 3.66
2136 5888 1.370064 GGTTGGTAGCGGACTGTGT 59.630 57.895 0.00 0.00 0.00 3.72
2137 5889 0.604578 GGTTGGTAGCGGACTGTGTA 59.395 55.000 0.00 0.00 0.00 2.90
2138 5890 1.403780 GGTTGGTAGCGGACTGTGTAG 60.404 57.143 0.00 0.00 0.00 2.74
2139 5891 1.542915 GTTGGTAGCGGACTGTGTAGA 59.457 52.381 0.00 0.00 0.00 2.59
2140 5892 2.139323 TGGTAGCGGACTGTGTAGAT 57.861 50.000 0.00 0.00 0.00 1.98
2141 5893 1.749063 TGGTAGCGGACTGTGTAGATG 59.251 52.381 0.00 0.00 0.00 2.90
2142 5894 1.067212 GGTAGCGGACTGTGTAGATGG 59.933 57.143 0.00 0.00 0.00 3.51
2143 5895 1.749634 GTAGCGGACTGTGTAGATGGT 59.250 52.381 0.00 0.00 0.00 3.55
2144 5896 0.818296 AGCGGACTGTGTAGATGGTC 59.182 55.000 0.00 0.00 0.00 4.02
2145 5897 0.818296 GCGGACTGTGTAGATGGTCT 59.182 55.000 0.00 0.00 0.00 3.85
2146 5898 2.022195 GCGGACTGTGTAGATGGTCTA 58.978 52.381 0.00 0.00 0.00 2.59
2147 5899 2.033550 GCGGACTGTGTAGATGGTCTAG 59.966 54.545 0.00 0.00 28.01 2.43
2148 5900 2.619177 CGGACTGTGTAGATGGTCTAGG 59.381 54.545 0.00 0.00 28.01 3.02
2149 5901 2.959707 GGACTGTGTAGATGGTCTAGGG 59.040 54.545 0.00 0.00 28.01 3.53
2150 5902 3.372784 GGACTGTGTAGATGGTCTAGGGA 60.373 52.174 0.00 0.00 28.01 4.20
2151 5903 3.886505 GACTGTGTAGATGGTCTAGGGAG 59.113 52.174 0.00 0.00 28.01 4.30
2152 5904 3.226777 CTGTGTAGATGGTCTAGGGAGG 58.773 54.545 0.00 0.00 28.01 4.30
2153 5905 2.856864 TGTGTAGATGGTCTAGGGAGGA 59.143 50.000 0.00 0.00 28.01 3.71
2154 5906 3.271225 TGTGTAGATGGTCTAGGGAGGAA 59.729 47.826 0.00 0.00 28.01 3.36
2155 5907 4.264668 TGTGTAGATGGTCTAGGGAGGAAA 60.265 45.833 0.00 0.00 28.01 3.13
2156 5908 4.342665 GTGTAGATGGTCTAGGGAGGAAAG 59.657 50.000 0.00 0.00 28.01 2.62
2157 5909 4.232122 TGTAGATGGTCTAGGGAGGAAAGA 59.768 45.833 0.00 0.00 28.01 2.52
2158 5910 3.922375 AGATGGTCTAGGGAGGAAAGAG 58.078 50.000 0.00 0.00 0.00 2.85
2159 5911 3.533907 AGATGGTCTAGGGAGGAAAGAGA 59.466 47.826 0.00 0.00 0.00 3.10
2160 5912 3.390175 TGGTCTAGGGAGGAAAGAGAG 57.610 52.381 0.00 0.00 0.00 3.20
2161 5913 2.023888 TGGTCTAGGGAGGAAAGAGAGG 60.024 54.545 0.00 0.00 0.00 3.69
2162 5914 2.673258 GTCTAGGGAGGAAAGAGAGGG 58.327 57.143 0.00 0.00 0.00 4.30
2163 5915 2.245287 GTCTAGGGAGGAAAGAGAGGGA 59.755 54.545 0.00 0.00 0.00 4.20
2164 5916 2.933825 TCTAGGGAGGAAAGAGAGGGAA 59.066 50.000 0.00 0.00 0.00 3.97
2165 5917 2.743131 AGGGAGGAAAGAGAGGGAAA 57.257 50.000 0.00 0.00 0.00 3.13
2166 5918 2.556766 AGGGAGGAAAGAGAGGGAAAG 58.443 52.381 0.00 0.00 0.00 2.62
2167 5919 1.065053 GGGAGGAAAGAGAGGGAAAGC 60.065 57.143 0.00 0.00 0.00 3.51
2168 5920 1.065053 GGAGGAAAGAGAGGGAAAGCC 60.065 57.143 0.00 0.00 0.00 4.35
2177 5929 3.451894 GGGAAAGCCCGGCACATG 61.452 66.667 13.15 0.00 46.48 3.21
2178 5930 2.676471 GGAAAGCCCGGCACATGT 60.676 61.111 13.15 0.00 0.00 3.21
2179 5931 2.275380 GGAAAGCCCGGCACATGTT 61.275 57.895 13.15 0.00 0.00 2.71
2180 5932 1.665442 GAAAGCCCGGCACATGTTT 59.335 52.632 13.15 2.44 0.00 2.83
2181 5933 0.033366 GAAAGCCCGGCACATGTTTT 59.967 50.000 13.15 1.64 0.00 2.43
2182 5934 0.033366 AAAGCCCGGCACATGTTTTC 59.967 50.000 13.15 0.00 0.00 2.29
2183 5935 2.126502 GCCCGGCACATGTTTTCG 60.127 61.111 3.91 0.05 0.00 3.46
2184 5936 2.566010 CCCGGCACATGTTTTCGG 59.434 61.111 18.85 18.85 40.32 4.30
2185 5937 1.969064 CCCGGCACATGTTTTCGGA 60.969 57.895 24.36 0.00 42.94 4.55
2186 5938 1.312371 CCCGGCACATGTTTTCGGAT 61.312 55.000 24.36 0.00 42.94 4.18
2187 5939 1.374560 CCGGCACATGTTTTCGGATA 58.625 50.000 20.33 0.00 42.94 2.59
2188 5940 1.063469 CCGGCACATGTTTTCGGATAC 59.937 52.381 20.33 0.00 42.94 2.24
2189 5941 1.063469 CGGCACATGTTTTCGGATACC 59.937 52.381 0.00 0.00 0.00 2.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 68 1.596220 CGAGACGAATCCGAATACGCA 60.596 52.381 0.00 0.00 39.50 5.24
95 96 9.899226 AAAATACTTTAGACATGAAAGTTGCTC 57.101 29.630 14.17 0.00 43.03 4.26
109 110 9.542462 CCATAACTCGGATGAAAATACTTTAGA 57.458 33.333 0.00 0.00 0.00 2.10
110 111 9.542462 TCCATAACTCGGATGAAAATACTTTAG 57.458 33.333 0.00 0.00 0.00 1.85
277 278 8.436778 AGGCCCTTTTAAATAAGTTGATTTGTT 58.563 29.630 0.00 0.00 31.51 2.83
281 282 8.658840 TGTAGGCCCTTTTAAATAAGTTGATT 57.341 30.769 0.00 0.00 0.00 2.57
410 412 0.744057 TCCTGTGTGTGTGTGTGCAG 60.744 55.000 0.00 0.00 0.00 4.41
413 415 0.744057 TGCTCCTGTGTGTGTGTGTG 60.744 55.000 0.00 0.00 0.00 3.82
414 416 0.744414 GTGCTCCTGTGTGTGTGTGT 60.744 55.000 0.00 0.00 0.00 3.72
445 447 0.461163 AGTGTGTGTGCGTGCAGTTA 60.461 50.000 0.00 0.00 0.00 2.24
473 475 3.261216 TGTGCGCGTGAGTGTGTG 61.261 61.111 8.43 0.00 45.15 3.82
474 476 3.261951 GTGTGCGCGTGAGTGTGT 61.262 61.111 8.43 0.00 45.15 3.72
475 477 3.261216 TGTGTGCGCGTGAGTGTG 61.261 61.111 8.43 0.00 45.15 3.82
476 478 3.261951 GTGTGTGCGCGTGAGTGT 61.262 61.111 8.43 0.00 45.15 3.55
480 482 3.559344 GTGTGTGTGTGCGCGTGA 61.559 61.111 8.43 0.00 0.00 4.35
484 486 1.275657 GTAGTGTGTGTGTGTGCGC 59.724 57.895 0.00 0.00 0.00 6.09
486 488 1.062002 GTGTGTAGTGTGTGTGTGTGC 59.938 52.381 0.00 0.00 0.00 4.57
576 599 1.228367 CTGGTTTGCCTGCTCCTGT 60.228 57.895 0.00 0.00 35.27 4.00
913 947 3.117851 CCTCCTCTGGTTTCCCCTATTTC 60.118 52.174 0.00 0.00 0.00 2.17
937 971 1.475403 CACGACCTCCCTGTAGTGAT 58.525 55.000 0.00 0.00 42.34 3.06
945 979 2.060980 GCTCATCCACGACCTCCCT 61.061 63.158 0.00 0.00 0.00 4.20
1128 1162 3.066190 CCTGCGTAGTCCCCGACA 61.066 66.667 0.00 0.00 34.60 4.35
1169 1203 1.638467 GAGATCGCGATGTGGTTGC 59.362 57.895 29.09 10.14 0.00 4.17
1331 5077 2.765279 TGGCACACATCCATGGCT 59.235 55.556 6.96 0.00 41.74 4.75
1835 5587 2.545526 GTGGCCATGTCATCGTGATTAG 59.454 50.000 9.72 0.00 32.78 1.73
1889 5641 3.784202 CCCTACCCTAATTGTAACACCCT 59.216 47.826 0.00 0.00 0.00 4.34
1902 5654 1.353694 GGACGAGATAGCCCTACCCTA 59.646 57.143 0.00 0.00 0.00 3.53
1903 5655 0.112801 GGACGAGATAGCCCTACCCT 59.887 60.000 0.00 0.00 0.00 4.34
1904 5656 0.899253 GGGACGAGATAGCCCTACCC 60.899 65.000 0.00 0.00 38.85 3.69
1905 5657 2.656049 GGGACGAGATAGCCCTACC 58.344 63.158 0.00 0.00 38.85 3.18
1959 5711 8.638873 CCTTTTTGTTAATTGGACTTCCTAACT 58.361 33.333 0.00 0.00 36.82 2.24
1960 5712 8.635328 TCCTTTTTGTTAATTGGACTTCCTAAC 58.365 33.333 0.00 0.00 36.82 2.34
1961 5713 8.770010 TCCTTTTTGTTAATTGGACTTCCTAA 57.230 30.769 0.00 0.00 36.82 2.69
1962 5714 8.221944 TCTCCTTTTTGTTAATTGGACTTCCTA 58.778 33.333 0.00 0.00 36.82 2.94
1963 5715 7.066781 TCTCCTTTTTGTTAATTGGACTTCCT 58.933 34.615 0.00 0.00 36.82 3.36
1964 5716 7.284919 TCTCCTTTTTGTTAATTGGACTTCC 57.715 36.000 0.00 0.00 0.00 3.46
1965 5717 8.360390 ACATCTCCTTTTTGTTAATTGGACTTC 58.640 33.333 0.00 0.00 0.00 3.01
1966 5718 8.250143 ACATCTCCTTTTTGTTAATTGGACTT 57.750 30.769 0.00 0.00 0.00 3.01
1967 5719 7.839680 ACATCTCCTTTTTGTTAATTGGACT 57.160 32.000 0.00 0.00 0.00 3.85
1968 5720 8.887036 AAACATCTCCTTTTTGTTAATTGGAC 57.113 30.769 0.00 0.00 33.44 4.02
1969 5721 9.323985 CAAAACATCTCCTTTTTGTTAATTGGA 57.676 29.630 0.00 0.00 37.74 3.53
1978 5730 9.533253 AAACATCTACAAAACATCTCCTTTTTG 57.467 29.630 5.47 5.47 44.70 2.44
1979 5731 9.533253 CAAACATCTACAAAACATCTCCTTTTT 57.467 29.630 0.00 0.00 0.00 1.94
1980 5732 8.143835 CCAAACATCTACAAAACATCTCCTTTT 58.856 33.333 0.00 0.00 0.00 2.27
1981 5733 7.255942 CCCAAACATCTACAAAACATCTCCTTT 60.256 37.037 0.00 0.00 0.00 3.11
1982 5734 6.209391 CCCAAACATCTACAAAACATCTCCTT 59.791 38.462 0.00 0.00 0.00 3.36
1983 5735 5.711976 CCCAAACATCTACAAAACATCTCCT 59.288 40.000 0.00 0.00 0.00 3.69
1984 5736 5.476945 ACCCAAACATCTACAAAACATCTCC 59.523 40.000 0.00 0.00 0.00 3.71
1985 5737 6.575162 ACCCAAACATCTACAAAACATCTC 57.425 37.500 0.00 0.00 0.00 2.75
1986 5738 7.888021 TCATACCCAAACATCTACAAAACATCT 59.112 33.333 0.00 0.00 0.00 2.90
1987 5739 8.050778 TCATACCCAAACATCTACAAAACATC 57.949 34.615 0.00 0.00 0.00 3.06
1988 5740 8.593945 ATCATACCCAAACATCTACAAAACAT 57.406 30.769 0.00 0.00 0.00 2.71
1989 5741 7.122055 GGATCATACCCAAACATCTACAAAACA 59.878 37.037 0.00 0.00 0.00 2.83
1990 5742 7.480810 GGATCATACCCAAACATCTACAAAAC 58.519 38.462 0.00 0.00 0.00 2.43
1991 5743 6.317642 CGGATCATACCCAAACATCTACAAAA 59.682 38.462 0.00 0.00 0.00 2.44
1992 5744 5.820423 CGGATCATACCCAAACATCTACAAA 59.180 40.000 0.00 0.00 0.00 2.83
1993 5745 5.364778 CGGATCATACCCAAACATCTACAA 58.635 41.667 0.00 0.00 0.00 2.41
1994 5746 4.202315 CCGGATCATACCCAAACATCTACA 60.202 45.833 0.00 0.00 0.00 2.74
1995 5747 4.039973 TCCGGATCATACCCAAACATCTAC 59.960 45.833 0.00 0.00 0.00 2.59
1996 5748 4.039973 GTCCGGATCATACCCAAACATCTA 59.960 45.833 7.81 0.00 0.00 1.98
1997 5749 3.045634 TCCGGATCATACCCAAACATCT 58.954 45.455 0.00 0.00 0.00 2.90
1998 5750 3.139077 GTCCGGATCATACCCAAACATC 58.861 50.000 7.81 0.00 0.00 3.06
1999 5751 2.158667 GGTCCGGATCATACCCAAACAT 60.159 50.000 10.69 0.00 0.00 2.71
2000 5752 1.210967 GGTCCGGATCATACCCAAACA 59.789 52.381 10.69 0.00 0.00 2.83
2001 5753 1.963172 GGTCCGGATCATACCCAAAC 58.037 55.000 10.69 0.00 0.00 2.93
2006 5758 0.249741 CGTTGGGTCCGGATCATACC 60.250 60.000 18.43 9.07 0.00 2.73
2007 5759 2.910440 ACCGTTGGGTCCGGATCATAC 61.910 57.143 18.43 12.44 46.01 2.39
2008 5760 0.688418 ACCGTTGGGTCCGGATCATA 60.688 55.000 18.43 1.25 46.01 2.15
2009 5761 1.993391 ACCGTTGGGTCCGGATCAT 60.993 57.895 18.43 0.00 46.01 2.45
2010 5762 2.605295 ACCGTTGGGTCCGGATCA 60.605 61.111 18.43 11.70 46.01 2.92
2011 5763 2.125269 CACCGTTGGGTCCGGATC 60.125 66.667 7.81 6.88 46.01 3.36
2012 5764 2.605295 TCACCGTTGGGTCCGGAT 60.605 61.111 7.81 0.00 46.01 4.18
2013 5765 3.618750 GTCACCGTTGGGTCCGGA 61.619 66.667 0.00 0.00 46.01 5.14
2015 5767 3.980989 TCGTCACCGTTGGGTCCG 61.981 66.667 0.00 0.00 46.01 4.79
2016 5768 2.356673 GTCGTCACCGTTGGGTCC 60.357 66.667 0.00 0.00 46.01 4.46
2017 5769 1.663702 CAGTCGTCACCGTTGGGTC 60.664 63.158 0.00 0.00 46.01 4.46
2019 5771 1.663702 GACAGTCGTCACCGTTGGG 60.664 63.158 0.00 0.00 42.13 4.12
2020 5772 1.663702 GGACAGTCGTCACCGTTGG 60.664 63.158 0.00 0.00 44.54 3.77
2021 5773 2.014554 CGGACAGTCGTCACCGTTG 61.015 63.158 0.00 0.00 44.54 4.10
2022 5774 2.333938 CGGACAGTCGTCACCGTT 59.666 61.111 0.00 0.00 44.54 4.44
2023 5775 3.667282 CCGGACAGTCGTCACCGT 61.667 66.667 0.00 0.00 44.54 4.83
2024 5776 4.415332 CCCGGACAGTCGTCACCG 62.415 72.222 0.73 0.00 44.54 4.94
2025 5777 2.864471 AACCCGGACAGTCGTCACC 61.864 63.158 0.73 0.00 44.54 4.02
2026 5778 1.663702 CAACCCGGACAGTCGTCAC 60.664 63.158 0.73 0.00 44.54 3.67
2027 5779 2.732016 CAACCCGGACAGTCGTCA 59.268 61.111 0.73 0.00 44.54 4.35
2028 5780 2.048503 CCAACCCGGACAGTCGTC 60.049 66.667 0.73 0.00 41.80 4.20
2029 5781 3.622826 CCCAACCCGGACAGTCGT 61.623 66.667 0.73 0.00 36.56 4.34
2030 5782 3.173167 AACCCAACCCGGACAGTCG 62.173 63.158 0.73 0.00 36.56 4.18
2031 5783 1.302271 GAACCCAACCCGGACAGTC 60.302 63.158 0.73 0.00 36.56 3.51
2032 5784 2.052047 CTGAACCCAACCCGGACAGT 62.052 60.000 0.73 0.00 36.56 3.55
2033 5785 1.302511 CTGAACCCAACCCGGACAG 60.303 63.158 0.73 0.00 36.56 3.51
2034 5786 2.824880 CCTGAACCCAACCCGGACA 61.825 63.158 0.73 0.00 36.56 4.02
2035 5787 2.033602 CCTGAACCCAACCCGGAC 59.966 66.667 0.73 0.00 36.56 4.79
2036 5788 2.122324 TCCTGAACCCAACCCGGA 60.122 61.111 0.73 0.00 36.56 5.14
2037 5789 2.033602 GTCCTGAACCCAACCCGG 59.966 66.667 0.00 0.00 0.00 5.73
2038 5790 0.251165 ATTGTCCTGAACCCAACCCG 60.251 55.000 0.00 0.00 0.00 5.28
2039 5791 2.009681 AATTGTCCTGAACCCAACCC 57.990 50.000 0.00 0.00 0.00 4.11
2040 5792 3.386402 TGAAAATTGTCCTGAACCCAACC 59.614 43.478 0.00 0.00 0.00 3.77
2041 5793 4.340950 TCTGAAAATTGTCCTGAACCCAAC 59.659 41.667 0.00 0.00 0.00 3.77
2042 5794 4.340950 GTCTGAAAATTGTCCTGAACCCAA 59.659 41.667 0.00 0.00 0.00 4.12
2043 5795 3.888930 GTCTGAAAATTGTCCTGAACCCA 59.111 43.478 0.00 0.00 0.00 4.51
2044 5796 3.058224 CGTCTGAAAATTGTCCTGAACCC 60.058 47.826 0.00 0.00 0.00 4.11
2045 5797 3.609409 GCGTCTGAAAATTGTCCTGAACC 60.609 47.826 0.00 0.00 0.00 3.62
2046 5798 3.555518 GCGTCTGAAAATTGTCCTGAAC 58.444 45.455 0.00 0.00 0.00 3.18
2047 5799 2.223144 CGCGTCTGAAAATTGTCCTGAA 59.777 45.455 0.00 0.00 0.00 3.02
2048 5800 1.798223 CGCGTCTGAAAATTGTCCTGA 59.202 47.619 0.00 0.00 0.00 3.86
2049 5801 1.725931 GCGCGTCTGAAAATTGTCCTG 60.726 52.381 8.43 0.00 0.00 3.86
2050 5802 0.517316 GCGCGTCTGAAAATTGTCCT 59.483 50.000 8.43 0.00 0.00 3.85
2051 5803 0.237235 TGCGCGTCTGAAAATTGTCC 59.763 50.000 8.43 0.00 0.00 4.02
2052 5804 1.069906 AGTGCGCGTCTGAAAATTGTC 60.070 47.619 8.43 0.00 0.00 3.18
2053 5805 0.944386 AGTGCGCGTCTGAAAATTGT 59.056 45.000 8.43 0.00 0.00 2.71
2054 5806 1.595609 GAGTGCGCGTCTGAAAATTG 58.404 50.000 8.43 0.00 0.00 2.32
2055 5807 0.163788 CGAGTGCGCGTCTGAAAATT 59.836 50.000 8.43 0.00 0.00 1.82
2056 5808 0.666274 TCGAGTGCGCGTCTGAAAAT 60.666 50.000 8.43 0.00 37.46 1.82
2057 5809 1.275471 CTCGAGTGCGCGTCTGAAAA 61.275 55.000 8.43 0.00 37.46 2.29
2058 5810 1.729484 CTCGAGTGCGCGTCTGAAA 60.729 57.895 8.43 0.00 37.46 2.69
2059 5811 2.126850 CTCGAGTGCGCGTCTGAA 60.127 61.111 8.43 0.00 37.46 3.02
2060 5812 4.103103 CCTCGAGTGCGCGTCTGA 62.103 66.667 12.31 6.76 37.46 3.27
2074 5826 1.021390 CACAGTGCATCGAACCCCTC 61.021 60.000 0.00 0.00 0.00 4.30
2075 5827 1.003355 CACAGTGCATCGAACCCCT 60.003 57.895 0.00 0.00 0.00 4.79
2076 5828 2.690778 GCACAGTGCATCGAACCCC 61.691 63.158 21.22 0.00 44.26 4.95
2077 5829 2.870372 GCACAGTGCATCGAACCC 59.130 61.111 21.22 0.00 44.26 4.11
2086 5838 2.674380 CCCCTCCTTGCACAGTGC 60.674 66.667 19.37 19.37 45.29 4.40
2087 5839 0.468029 AAACCCCTCCTTGCACAGTG 60.468 55.000 0.00 0.00 0.00 3.66
2088 5840 0.178990 GAAACCCCTCCTTGCACAGT 60.179 55.000 0.00 0.00 0.00 3.55
2089 5841 1.237285 CGAAACCCCTCCTTGCACAG 61.237 60.000 0.00 0.00 0.00 3.66
2090 5842 1.228124 CGAAACCCCTCCTTGCACA 60.228 57.895 0.00 0.00 0.00 4.57
2091 5843 1.971695 CCGAAACCCCTCCTTGCAC 60.972 63.158 0.00 0.00 0.00 4.57
2092 5844 2.434331 CCGAAACCCCTCCTTGCA 59.566 61.111 0.00 0.00 0.00 4.08
2093 5845 2.361230 CCCGAAACCCCTCCTTGC 60.361 66.667 0.00 0.00 0.00 4.01
2094 5846 2.355115 CCCCGAAACCCCTCCTTG 59.645 66.667 0.00 0.00 0.00 3.61
2095 5847 3.658422 GCCCCGAAACCCCTCCTT 61.658 66.667 0.00 0.00 0.00 3.36
2098 5850 4.426313 CAGGCCCCGAAACCCCTC 62.426 72.222 0.00 0.00 0.00 4.30
2109 5861 4.796495 CTACCAACCGCCAGGCCC 62.796 72.222 5.63 0.00 42.76 5.80
2113 5865 4.077184 TCCGCTACCAACCGCCAG 62.077 66.667 0.00 0.00 0.00 4.85
2114 5866 4.382320 GTCCGCTACCAACCGCCA 62.382 66.667 0.00 0.00 0.00 5.69
2115 5867 4.078516 AGTCCGCTACCAACCGCC 62.079 66.667 0.00 0.00 0.00 6.13
2116 5868 2.813908 CAGTCCGCTACCAACCGC 60.814 66.667 0.00 0.00 0.00 5.68
2117 5869 1.736645 CACAGTCCGCTACCAACCG 60.737 63.158 0.00 0.00 0.00 4.44
2118 5870 0.604578 TACACAGTCCGCTACCAACC 59.395 55.000 0.00 0.00 0.00 3.77
2119 5871 1.542915 TCTACACAGTCCGCTACCAAC 59.457 52.381 0.00 0.00 0.00 3.77
2120 5872 1.913778 TCTACACAGTCCGCTACCAA 58.086 50.000 0.00 0.00 0.00 3.67
2121 5873 1.749063 CATCTACACAGTCCGCTACCA 59.251 52.381 0.00 0.00 0.00 3.25
2122 5874 1.067212 CCATCTACACAGTCCGCTACC 59.933 57.143 0.00 0.00 0.00 3.18
2123 5875 1.749634 ACCATCTACACAGTCCGCTAC 59.250 52.381 0.00 0.00 0.00 3.58
2124 5876 2.022195 GACCATCTACACAGTCCGCTA 58.978 52.381 0.00 0.00 0.00 4.26
2125 5877 0.818296 GACCATCTACACAGTCCGCT 59.182 55.000 0.00 0.00 0.00 5.52
2126 5878 0.818296 AGACCATCTACACAGTCCGC 59.182 55.000 0.00 0.00 0.00 5.54
2127 5879 2.619177 CCTAGACCATCTACACAGTCCG 59.381 54.545 0.00 0.00 0.00 4.79
2128 5880 2.959707 CCCTAGACCATCTACACAGTCC 59.040 54.545 0.00 0.00 0.00 3.85
2129 5881 3.886505 CTCCCTAGACCATCTACACAGTC 59.113 52.174 0.00 0.00 0.00 3.51
2130 5882 3.373220 CCTCCCTAGACCATCTACACAGT 60.373 52.174 0.00 0.00 0.00 3.55
2131 5883 3.117474 TCCTCCCTAGACCATCTACACAG 60.117 52.174 0.00 0.00 0.00 3.66
2132 5884 2.856864 TCCTCCCTAGACCATCTACACA 59.143 50.000 0.00 0.00 0.00 3.72
2133 5885 3.596940 TCCTCCCTAGACCATCTACAC 57.403 52.381 0.00 0.00 0.00 2.90
2134 5886 4.232122 TCTTTCCTCCCTAGACCATCTACA 59.768 45.833 0.00 0.00 0.00 2.74
2135 5887 4.805744 TCTTTCCTCCCTAGACCATCTAC 58.194 47.826 0.00 0.00 0.00 2.59
2136 5888 4.732443 TCTCTTTCCTCCCTAGACCATCTA 59.268 45.833 0.00 0.00 0.00 1.98
2137 5889 3.533907 TCTCTTTCCTCCCTAGACCATCT 59.466 47.826 0.00 0.00 0.00 2.90
2138 5890 3.895041 CTCTCTTTCCTCCCTAGACCATC 59.105 52.174 0.00 0.00 0.00 3.51
2139 5891 3.374762 CCTCTCTTTCCTCCCTAGACCAT 60.375 52.174 0.00 0.00 0.00 3.55
2140 5892 2.023888 CCTCTCTTTCCTCCCTAGACCA 60.024 54.545 0.00 0.00 0.00 4.02
2141 5893 2.673258 CCTCTCTTTCCTCCCTAGACC 58.327 57.143 0.00 0.00 0.00 3.85
2142 5894 2.245287 TCCCTCTCTTTCCTCCCTAGAC 59.755 54.545 0.00 0.00 0.00 2.59
2143 5895 2.585912 TCCCTCTCTTTCCTCCCTAGA 58.414 52.381 0.00 0.00 0.00 2.43
2144 5896 3.406512 TTCCCTCTCTTTCCTCCCTAG 57.593 52.381 0.00 0.00 0.00 3.02
2145 5897 3.725634 CTTTCCCTCTCTTTCCTCCCTA 58.274 50.000 0.00 0.00 0.00 3.53
2146 5898 2.556766 CTTTCCCTCTCTTTCCTCCCT 58.443 52.381 0.00 0.00 0.00 4.20
2147 5899 1.065053 GCTTTCCCTCTCTTTCCTCCC 60.065 57.143 0.00 0.00 0.00 4.30
2148 5900 1.065053 GGCTTTCCCTCTCTTTCCTCC 60.065 57.143 0.00 0.00 0.00 4.30
2149 5901 2.411628 GGCTTTCCCTCTCTTTCCTC 57.588 55.000 0.00 0.00 0.00 3.71
2161 5913 1.815817 AAACATGTGCCGGGCTTTCC 61.816 55.000 21.46 6.12 0.00 3.13
2162 5914 0.033366 AAAACATGTGCCGGGCTTTC 59.967 50.000 21.46 11.09 0.00 2.62
2163 5915 0.033366 GAAAACATGTGCCGGGCTTT 59.967 50.000 21.46 10.93 0.00 3.51
2164 5916 1.665442 GAAAACATGTGCCGGGCTT 59.335 52.632 21.46 3.60 0.00 4.35
2165 5917 2.625823 CGAAAACATGTGCCGGGCT 61.626 57.895 21.46 0.00 0.00 5.19
2166 5918 2.126502 CGAAAACATGTGCCGGGC 60.127 61.111 13.32 13.32 0.00 6.13
2167 5919 1.312371 ATCCGAAAACATGTGCCGGG 61.312 55.000 24.30 14.16 40.48 5.73
2168 5920 1.063469 GTATCCGAAAACATGTGCCGG 59.937 52.381 20.99 20.99 41.36 6.13
2169 5921 1.063469 GGTATCCGAAAACATGTGCCG 59.937 52.381 0.00 3.37 0.00 5.69
2170 5922 2.844122 GGTATCCGAAAACATGTGCC 57.156 50.000 0.00 0.00 0.00 5.01


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

AutoCloner maintained by Alex Coulton.