Multiple sequence alignment - TraesCS1B01G379400

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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 TraesCS1B01G379400 chr1B 100.000 2264 0 0 1 2264 612423574 612425837 0.000000e+00 4181.0
1 TraesCS1B01G379400 chr1B 94.649 598 31 1 1 598 504248679 504248083 0.000000e+00 926.0
2 TraesCS1B01G379400 chr1B 95.349 43 2 0 2026 2068 612425834 612425792 4.040000e-08 69.4
3 TraesCS1B01G379400 chr2B 93.039 1494 82 10 594 2068 430231868 430230378 0.000000e+00 2163.0
4 TraesCS1B01G379400 chr2B 92.944 1488 93 9 594 2076 215847763 215849243 0.000000e+00 2156.0
5 TraesCS1B01G379400 chr2B 84.672 137 17 3 2131 2264 430230414 430230549 1.410000e-27 134.0
6 TraesCS1B01G379400 chr2B 97.143 35 1 0 2034 2068 430230538 430230504 2.430000e-05 60.2
7 TraesCS1B01G379400 chr5B 93.578 1308 82 2 594 1900 387878726 387880032 0.000000e+00 1949.0
8 TraesCS1B01G379400 chr1D 89.943 1402 120 11 594 1991 446419901 446421285 0.000000e+00 1788.0
9 TraesCS1B01G379400 chr1D 94.983 598 29 1 1 598 446418575 446419171 0.000000e+00 937.0
10 TraesCS1B01G379400 chrUn 88.180 1489 149 20 594 2068 10399767 10401242 0.000000e+00 1749.0
11 TraesCS1B01G379400 chr6D 91.250 1280 95 11 594 1863 377212799 377214071 0.000000e+00 1727.0
12 TraesCS1B01G379400 chr6D 80.132 151 22 5 2113 2261 377214333 377214189 3.080000e-19 106.0
13 TraesCS1B01G379400 chr6D 86.364 66 9 0 2195 2260 62143207 62143142 3.120000e-09 73.1
14 TraesCS1B01G379400 chr6D 94.595 37 1 1 2226 2261 377214154 377214118 3.140000e-04 56.5
15 TraesCS1B01G379400 chr3D 89.109 1414 121 13 594 1993 310406688 310408082 0.000000e+00 1727.0
16 TraesCS1B01G379400 chr3D 80.882 68 13 0 1908 1975 310408062 310407995 1.000000e-03 54.7
17 TraesCS1B01G379400 chr2D 87.617 1502 147 26 594 2076 619854225 619855706 0.000000e+00 1707.0
18 TraesCS1B01G379400 chr4D 88.547 1397 137 16 594 1977 470196044 470194658 0.000000e+00 1672.0
19 TraesCS1B01G379400 chr4D 94.649 598 30 2 1 598 450519500 450520095 0.000000e+00 926.0
20 TraesCS1B01G379400 chr4D 94.649 598 31 1 1 598 470197371 470196775 0.000000e+00 926.0
21 TraesCS1B01G379400 chr4D 88.060 67 8 0 2195 2261 122190264 122190330 1.860000e-11 80.5
22 TraesCS1B01G379400 chr4D 86.567 67 9 0 2195 2261 470194658 470194724 8.670000e-10 75.0
23 TraesCS1B01G379400 chr4D 85.714 70 6 4 2194 2261 495818510 495818443 1.120000e-08 71.3
24 TraesCS1B01G379400 chr4D 91.489 47 4 0 2215 2261 450522955 450522909 5.220000e-07 65.8
25 TraesCS1B01G379400 chr6B 95.447 593 26 1 1 593 238177687 238178278 0.000000e+00 944.0
26 TraesCS1B01G379400 chr6B 94.649 598 31 1 1 598 710883551 710884147 0.000000e+00 926.0
27 TraesCS1B01G379400 chr6B 94.491 599 31 2 1 598 281224113 281223516 0.000000e+00 922.0
28 TraesCS1B01G379400 chr6B 83.099 71 10 2 2192 2261 126306730 126306799 1.880000e-06 63.9
29 TraesCS1B01G379400 chr7D 95.151 598 28 1 1 598 573000973 573001569 0.000000e+00 942.0
30 TraesCS1B01G379400 chr7D 88.060 67 8 0 2195 2261 610728476 610728542 1.860000e-11 80.5
31 TraesCS1B01G379400 chr7D 78.030 132 22 4 2132 2261 528563226 528563100 2.410000e-10 76.8
32 TraesCS1B01G379400 chr5D 94.816 598 30 1 1 598 348340510 348341106 0.000000e+00 931.0
33 TraesCS1B01G379400 chr5A 88.235 68 8 0 2194 2261 690041087 690041020 5.180000e-12 82.4
34 TraesCS1B01G379400 chr5A 78.358 134 19 5 2131 2261 599243304 599243178 6.700000e-11 78.7


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 TraesCS1B01G379400 chr1B 612423574 612425837 2263 False 4181.0 4181 100.000 1 2264 1 chr1B.!!$F1 2263
1 TraesCS1B01G379400 chr1B 504248083 504248679 596 True 926.0 926 94.649 1 598 1 chr1B.!!$R1 597
2 TraesCS1B01G379400 chr2B 215847763 215849243 1480 False 2156.0 2156 92.944 594 2076 1 chr2B.!!$F1 1482
3 TraesCS1B01G379400 chr2B 430230378 430231868 1490 True 1111.6 2163 95.091 594 2068 2 chr2B.!!$R1 1474
4 TraesCS1B01G379400 chr5B 387878726 387880032 1306 False 1949.0 1949 93.578 594 1900 1 chr5B.!!$F1 1306
5 TraesCS1B01G379400 chr1D 446418575 446421285 2710 False 1362.5 1788 92.463 1 1991 2 chr1D.!!$F1 1990
6 TraesCS1B01G379400 chrUn 10399767 10401242 1475 False 1749.0 1749 88.180 594 2068 1 chrUn.!!$F1 1474
7 TraesCS1B01G379400 chr6D 377212799 377214071 1272 False 1727.0 1727 91.250 594 1863 1 chr6D.!!$F1 1269
8 TraesCS1B01G379400 chr3D 310406688 310408082 1394 False 1727.0 1727 89.109 594 1993 1 chr3D.!!$F1 1399
9 TraesCS1B01G379400 chr2D 619854225 619855706 1481 False 1707.0 1707 87.617 594 2076 1 chr2D.!!$F1 1482
10 TraesCS1B01G379400 chr4D 470194658 470197371 2713 True 1299.0 1672 91.598 1 1977 2 chr4D.!!$R3 1976
11 TraesCS1B01G379400 chr4D 450519500 450520095 595 False 926.0 926 94.649 1 598 1 chr4D.!!$F2 597
12 TraesCS1B01G379400 chr6B 238177687 238178278 591 False 944.0 944 95.447 1 593 1 chr6B.!!$F2 592
13 TraesCS1B01G379400 chr6B 710883551 710884147 596 False 926.0 926 94.649 1 598 1 chr6B.!!$F3 597
14 TraesCS1B01G379400 chr6B 281223516 281224113 597 True 922.0 922 94.491 1 598 1 chr6B.!!$R1 597
15 TraesCS1B01G379400 chr7D 573000973 573001569 596 False 942.0 942 95.151 1 598 1 chr7D.!!$F1 597
16 TraesCS1B01G379400 chr5D 348340510 348341106 596 False 931.0 931 94.816 1 598 1 chr5D.!!$F1 597

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
196 198 0.114954 AAGGGCACATTGATGGTGGT 59.885 50.0 0.0 0.0 36.76 4.16 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2149 2919 0.034477 AAACGAAGGGCCTATGGTGG 60.034 55.0 6.41 0.0 0.0 4.61 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
40 41 3.005554 CAGTCATTGCTCATCGAAACCT 58.994 45.455 0.00 0.00 0.00 3.50
54 55 0.904394 AAACCTGGGAATGCGCCATT 60.904 50.000 4.18 4.70 36.72 3.16
196 198 0.114954 AAGGGCACATTGATGGTGGT 59.885 50.000 0.00 0.00 36.76 4.16
199 201 0.527565 GGCACATTGATGGTGGTGAC 59.472 55.000 0.00 0.00 36.76 3.67
255 257 0.539438 ATTTGCCTTGGTGCCTTCGA 60.539 50.000 0.00 0.00 0.00 3.71
314 316 5.193679 GTGAGAACCAAGGTTATAGGCAAT 58.806 41.667 4.14 0.00 38.60 3.56
431 433 4.053295 GCATGAGACACTTTGTTGCAAAT 58.947 39.130 0.00 0.00 32.38 2.32
512 514 5.412904 TGCATTCAACACCGACATATACAAA 59.587 36.000 0.00 0.00 0.00 2.83
656 1396 2.701951 AGAAACCTAGAACCAACACGGA 59.298 45.455 0.00 0.00 38.63 4.69
668 1408 3.199677 CCAACACGGACACTAGTCAAAA 58.800 45.455 0.00 0.00 46.80 2.44
673 1413 1.191647 CGGACACTAGTCAAAACACGC 59.808 52.381 0.00 0.00 46.80 5.34
724 1464 1.677637 GCCGTGGAGGAAGGACTAGG 61.678 65.000 0.00 0.00 45.00 3.02
732 1472 1.079658 AGGAAGGACTAGGCTTGGAGT 59.920 52.381 0.00 0.00 0.00 3.85
797 1537 1.433879 CGTGGAGGAAGGACTAGCG 59.566 63.158 0.00 0.00 0.00 4.26
834 1575 1.202651 CCATGGATCCGGTGGTTCTAC 60.203 57.143 22.04 0.00 0.00 2.59
911 1652 8.050778 TGGTTGAAATAATGTGAATGGTACTC 57.949 34.615 0.00 0.00 0.00 2.59
1059 1811 0.537143 ACCAAGAAGACATGCCGCAA 60.537 50.000 0.00 0.00 0.00 4.85
1111 1863 6.432472 GGTGAAGGAGAAAGATGTGAAGATTT 59.568 38.462 0.00 0.00 0.00 2.17
1113 1865 7.173907 GTGAAGGAGAAAGATGTGAAGATTTCA 59.826 37.037 0.00 0.00 34.77 2.69
1136 1888 3.321682 CCATGTTGGTGTGGAGATGTTTT 59.678 43.478 0.00 0.00 37.72 2.43
1318 2071 8.296713 GTCAACACTAACATCCATTTTGTATGT 58.703 33.333 0.00 0.00 35.40 2.29
1517 2270 1.919600 GAGGAGAGGGCATGCCAAGT 61.920 60.000 36.56 21.32 37.98 3.16
1595 2348 2.187946 GGAGGATGAGGCACGTGG 59.812 66.667 18.88 0.00 0.00 4.94
1626 2380 4.447762 GGGAAATGGCCCTGTATTACTCAT 60.448 45.833 0.00 0.00 45.12 2.90
1686 2440 5.221581 GGATGAAGCCATGCCAAATTTATCT 60.222 40.000 0.00 0.00 35.39 1.98
1729 2487 5.220557 CAAGAATGCATATGTCGTGAACA 57.779 39.130 0.00 0.00 43.51 3.18
1747 2505 5.914635 GTGAACATGTCGTGAATGAATTTGT 59.085 36.000 0.00 0.00 0.00 2.83
1783 2541 2.382882 TGGTGTGGAGATGTTTGCAAA 58.617 42.857 8.05 8.05 0.00 3.68
1820 2578 8.898761 TGAACTTTAGTTTGTCAGCAATTTCTA 58.101 29.630 0.00 0.00 38.56 2.10
1891 2660 4.718940 ACAAAGGACAACTCTGTTTTGG 57.281 40.909 7.13 0.00 37.49 3.28
1910 2680 2.290705 TGGTCTGTTTTAGCTTAGCCCC 60.291 50.000 0.00 0.00 0.00 5.80
1911 2681 2.366533 GTCTGTTTTAGCTTAGCCCCC 58.633 52.381 0.00 0.00 0.00 5.40
1925 2695 3.327404 CCCCCTACCGCCACAAGT 61.327 66.667 0.00 0.00 0.00 3.16
1926 2696 2.267961 CCCCTACCGCCACAAGTC 59.732 66.667 0.00 0.00 0.00 3.01
1927 2697 2.267961 CCCTACCGCCACAAGTCC 59.732 66.667 0.00 0.00 0.00 3.85
1928 2698 2.291043 CCCTACCGCCACAAGTCCT 61.291 63.158 0.00 0.00 0.00 3.85
1929 2699 1.079127 CCTACCGCCACAAGTCCTG 60.079 63.158 0.00 0.00 0.00 3.86
1930 2700 1.541310 CCTACCGCCACAAGTCCTGA 61.541 60.000 0.00 0.00 0.00 3.86
1931 2701 0.389948 CTACCGCCACAAGTCCTGAC 60.390 60.000 0.00 0.00 0.00 3.51
1932 2702 2.149803 TACCGCCACAAGTCCTGACG 62.150 60.000 0.00 0.00 36.20 4.35
1933 2703 2.338620 CGCCACAAGTCCTGACGA 59.661 61.111 0.00 0.00 36.20 4.20
1934 2704 1.079819 CGCCACAAGTCCTGACGAT 60.080 57.895 0.00 0.00 36.20 3.73
1935 2705 0.172578 CGCCACAAGTCCTGACGATA 59.827 55.000 0.00 0.00 36.20 2.92
1936 2706 1.641577 GCCACAAGTCCTGACGATAC 58.358 55.000 0.00 0.00 36.20 2.24
1937 2707 1.909376 CCACAAGTCCTGACGATACG 58.091 55.000 0.00 0.00 36.20 3.06
1938 2708 1.469251 CCACAAGTCCTGACGATACGG 60.469 57.143 0.00 0.00 36.20 4.02
1939 2709 1.201647 CACAAGTCCTGACGATACGGT 59.798 52.381 0.00 0.00 36.20 4.83
1940 2710 1.201647 ACAAGTCCTGACGATACGGTG 59.798 52.381 0.00 0.00 36.20 4.94
1941 2711 0.172803 AAGTCCTGACGATACGGTGC 59.827 55.000 0.00 0.00 36.20 5.01
1942 2712 0.680280 AGTCCTGACGATACGGTGCT 60.680 55.000 0.00 0.00 36.20 4.40
1943 2713 0.172803 GTCCTGACGATACGGTGCTT 59.827 55.000 0.00 0.00 0.00 3.91
1944 2714 0.172578 TCCTGACGATACGGTGCTTG 59.827 55.000 0.00 0.00 0.00 4.01
1945 2715 0.172578 CCTGACGATACGGTGCTTGA 59.827 55.000 0.00 0.00 0.00 3.02
1946 2716 1.202417 CCTGACGATACGGTGCTTGAT 60.202 52.381 0.00 0.00 0.00 2.57
1947 2717 2.120232 CTGACGATACGGTGCTTGATC 58.880 52.381 0.00 0.00 0.00 2.92
1948 2718 1.202371 TGACGATACGGTGCTTGATCC 60.202 52.381 0.00 0.00 0.00 3.36
1949 2719 1.067212 GACGATACGGTGCTTGATCCT 59.933 52.381 0.00 0.00 0.00 3.24
1950 2720 2.292569 GACGATACGGTGCTTGATCCTA 59.707 50.000 0.00 0.00 0.00 2.94
1951 2721 2.034305 ACGATACGGTGCTTGATCCTAC 59.966 50.000 0.00 0.00 0.00 3.18
1952 2722 2.607282 CGATACGGTGCTTGATCCTACC 60.607 54.545 0.00 0.00 0.00 3.18
1954 2724 4.126524 GGTGCTTGATCCTACCGC 57.873 61.111 0.00 0.00 0.00 5.68
1955 2725 1.523938 GGTGCTTGATCCTACCGCC 60.524 63.158 0.00 0.00 0.00 6.13
1956 2726 1.220749 GTGCTTGATCCTACCGCCA 59.779 57.895 0.00 0.00 0.00 5.69
1957 2727 0.811616 GTGCTTGATCCTACCGCCAG 60.812 60.000 0.00 0.00 0.00 4.85
1958 2728 1.227674 GCTTGATCCTACCGCCAGG 60.228 63.158 0.00 0.00 45.13 4.45
1959 2729 1.447643 CTTGATCCTACCGCCAGGG 59.552 63.158 1.15 0.00 43.47 4.45
1960 2730 2.666596 CTTGATCCTACCGCCAGGGC 62.667 65.000 0.00 0.00 43.47 5.19
1961 2731 3.942439 GATCCTACCGCCAGGGCC 61.942 72.222 4.42 0.00 43.47 5.80
1962 2732 4.499116 ATCCTACCGCCAGGGCCT 62.499 66.667 0.00 0.00 43.47 5.19
1965 2735 4.473520 CTACCGCCAGGGCCTGTG 62.474 72.222 30.68 22.39 43.47 3.66
1971 2741 2.933287 CCAGGGCCTGTGGTGGTA 60.933 66.667 30.68 0.00 0.00 3.25
1972 2742 2.671070 CAGGGCCTGTGGTGGTAG 59.329 66.667 25.74 0.00 0.00 3.18
1973 2743 2.610859 AGGGCCTGTGGTGGTAGG 60.611 66.667 4.50 0.00 37.14 3.18
1974 2744 3.728373 GGGCCTGTGGTGGTAGGG 61.728 72.222 0.84 0.00 34.58 3.53
1975 2745 3.728373 GGCCTGTGGTGGTAGGGG 61.728 72.222 0.00 0.00 34.58 4.79
1976 2746 3.728373 GCCTGTGGTGGTAGGGGG 61.728 72.222 0.00 0.00 34.58 5.40
1995 2765 2.408333 GCAAACCTGCTGTGACTGT 58.592 52.632 0.00 0.00 45.74 3.55
1996 2766 1.593196 GCAAACCTGCTGTGACTGTA 58.407 50.000 0.00 0.00 45.74 2.74
1997 2767 1.946768 GCAAACCTGCTGTGACTGTAA 59.053 47.619 0.00 0.00 45.74 2.41
1998 2768 2.357637 GCAAACCTGCTGTGACTGTAAA 59.642 45.455 0.00 0.00 45.74 2.01
1999 2769 3.181491 GCAAACCTGCTGTGACTGTAAAA 60.181 43.478 0.00 0.00 45.74 1.52
2000 2770 4.351192 CAAACCTGCTGTGACTGTAAAAC 58.649 43.478 0.00 0.00 0.00 2.43
2001 2771 3.275617 ACCTGCTGTGACTGTAAAACA 57.724 42.857 0.00 0.00 0.00 2.83
2002 2772 3.616219 ACCTGCTGTGACTGTAAAACAA 58.384 40.909 0.00 0.00 0.00 2.83
2003 2773 3.627577 ACCTGCTGTGACTGTAAAACAAG 59.372 43.478 0.00 0.00 0.00 3.16
2004 2774 3.876914 CCTGCTGTGACTGTAAAACAAGA 59.123 43.478 0.00 0.00 0.00 3.02
2005 2775 4.024556 CCTGCTGTGACTGTAAAACAAGAG 60.025 45.833 0.00 0.00 0.00 2.85
2006 2776 3.876914 TGCTGTGACTGTAAAACAAGAGG 59.123 43.478 0.00 0.00 0.00 3.69
2007 2777 3.304057 GCTGTGACTGTAAAACAAGAGGC 60.304 47.826 0.00 0.00 0.00 4.70
2008 2778 2.869801 TGTGACTGTAAAACAAGAGGCG 59.130 45.455 0.00 0.00 0.00 5.52
2009 2779 2.870411 GTGACTGTAAAACAAGAGGCGT 59.130 45.455 0.00 0.00 0.00 5.68
2010 2780 3.311596 GTGACTGTAAAACAAGAGGCGTT 59.688 43.478 0.00 0.00 0.00 4.84
2011 2781 3.311322 TGACTGTAAAACAAGAGGCGTTG 59.689 43.478 1.60 1.60 0.00 4.10
2012 2782 2.616842 ACTGTAAAACAAGAGGCGTTGG 59.383 45.455 7.43 0.00 0.00 3.77
2013 2783 2.616842 CTGTAAAACAAGAGGCGTTGGT 59.383 45.455 7.43 0.00 0.00 3.67
2014 2784 2.356382 TGTAAAACAAGAGGCGTTGGTG 59.644 45.455 7.43 0.00 0.00 4.17
2015 2785 0.744281 AAAACAAGAGGCGTTGGTGG 59.256 50.000 7.43 0.00 0.00 4.61
2016 2786 0.395173 AAACAAGAGGCGTTGGTGGT 60.395 50.000 7.43 0.00 0.00 4.16
2017 2787 0.470766 AACAAGAGGCGTTGGTGGTA 59.529 50.000 7.43 0.00 0.00 3.25
2018 2788 0.470766 ACAAGAGGCGTTGGTGGTAA 59.529 50.000 7.43 0.00 0.00 2.85
2019 2789 1.156736 CAAGAGGCGTTGGTGGTAAG 58.843 55.000 0.00 0.00 0.00 2.34
2020 2790 0.036306 AAGAGGCGTTGGTGGTAAGG 59.964 55.000 0.00 0.00 0.00 2.69
2021 2791 1.376812 GAGGCGTTGGTGGTAAGGG 60.377 63.158 0.00 0.00 0.00 3.95
2022 2792 2.360726 GGCGTTGGTGGTAAGGGG 60.361 66.667 0.00 0.00 0.00 4.79
2023 2793 2.360726 GCGTTGGTGGTAAGGGGG 60.361 66.667 0.00 0.00 0.00 5.40
2064 2834 1.972660 GCGGTAGGGTGCTTGATCCT 61.973 60.000 0.00 0.00 39.30 3.24
2065 2835 1.410004 CGGTAGGGTGCTTGATCCTA 58.590 55.000 0.00 0.00 36.20 2.94
2068 2838 2.868964 TAGGGTGCTTGATCCTACCT 57.131 50.000 0.00 0.00 36.20 3.08
2069 2839 2.868964 AGGGTGCTTGATCCTACCTA 57.131 50.000 0.00 0.00 30.78 3.08
2070 2840 2.399580 AGGGTGCTTGATCCTACCTAC 58.600 52.381 0.00 0.00 30.78 3.18
2071 2841 1.416772 GGGTGCTTGATCCTACCTACC 59.583 57.143 0.00 0.00 33.71 3.18
2072 2842 1.068741 GGTGCTTGATCCTACCTACCG 59.931 57.143 0.00 0.00 0.00 4.02
2073 2843 0.750850 TGCTTGATCCTACCTACCGC 59.249 55.000 0.00 0.00 0.00 5.68
2074 2844 0.033642 GCTTGATCCTACCTACCGCC 59.966 60.000 0.00 0.00 0.00 6.13
2075 2845 1.410004 CTTGATCCTACCTACCGCCA 58.590 55.000 0.00 0.00 0.00 5.69
2076 2846 1.971357 CTTGATCCTACCTACCGCCAT 59.029 52.381 0.00 0.00 0.00 4.40
2077 2847 2.984435 TGATCCTACCTACCGCCATA 57.016 50.000 0.00 0.00 0.00 2.74
2078 2848 2.803956 TGATCCTACCTACCGCCATAG 58.196 52.381 0.00 0.00 0.00 2.23
2079 2849 2.100989 GATCCTACCTACCGCCATAGG 58.899 57.143 6.41 6.41 46.41 2.57
2080 2850 0.541296 TCCTACCTACCGCCATAGGC 60.541 60.000 7.68 0.00 45.08 3.93
2092 2862 3.520290 GCCATAGGCCCTTTGTTTTAC 57.480 47.619 0.00 0.00 44.06 2.01
2093 2863 2.167693 GCCATAGGCCCTTTGTTTTACC 59.832 50.000 0.00 0.00 44.06 2.85
2094 2864 2.425668 CCATAGGCCCTTTGTTTTACCG 59.574 50.000 0.00 0.00 0.00 4.02
2095 2865 2.955342 TAGGCCCTTTGTTTTACCGT 57.045 45.000 0.00 0.00 0.00 4.83
2096 2866 2.076207 AGGCCCTTTGTTTTACCGTT 57.924 45.000 0.00 0.00 0.00 4.44
2097 2867 3.226682 AGGCCCTTTGTTTTACCGTTA 57.773 42.857 0.00 0.00 0.00 3.18
2098 2868 2.886523 AGGCCCTTTGTTTTACCGTTAC 59.113 45.455 0.00 0.00 0.00 2.50
2099 2869 2.622470 GGCCCTTTGTTTTACCGTTACA 59.378 45.455 0.00 0.00 0.00 2.41
2100 2870 3.304861 GGCCCTTTGTTTTACCGTTACAG 60.305 47.826 0.00 0.00 0.00 2.74
2101 2871 3.854414 GCCCTTTGTTTTACCGTTACAGC 60.854 47.826 0.00 0.00 0.00 4.40
2102 2872 3.315749 CCCTTTGTTTTACCGTTACAGCA 59.684 43.478 0.00 0.00 0.00 4.41
2103 2873 4.533222 CCTTTGTTTTACCGTTACAGCAG 58.467 43.478 0.00 0.00 0.00 4.24
2104 2874 3.612472 TTGTTTTACCGTTACAGCAGC 57.388 42.857 0.00 0.00 0.00 5.25
2105 2875 1.874872 TGTTTTACCGTTACAGCAGCC 59.125 47.619 0.00 0.00 0.00 4.85
2106 2876 1.198408 GTTTTACCGTTACAGCAGCCC 59.802 52.381 0.00 0.00 0.00 5.19
2107 2877 0.321830 TTTACCGTTACAGCAGCCCC 60.322 55.000 0.00 0.00 0.00 5.80
2108 2878 2.187896 TTACCGTTACAGCAGCCCCC 62.188 60.000 0.00 0.00 0.00 5.40
2141 2911 2.365635 AGGCACTGGCGGTAGGAT 60.366 61.111 0.00 0.00 42.47 3.24
2142 2912 2.203070 GGCACTGGCGGTAGGATG 60.203 66.667 0.00 0.00 42.47 3.51
2143 2913 2.203070 GCACTGGCGGTAGGATGG 60.203 66.667 0.00 0.00 0.00 3.51
2144 2914 2.203070 CACTGGCGGTAGGATGGC 60.203 66.667 0.00 0.00 0.00 4.40
2146 2916 4.256180 CTGGCGGTAGGATGGCCC 62.256 72.222 0.00 0.00 46.31 5.80
2148 2918 2.525877 GGCGGTAGGATGGCCCTA 60.526 66.667 0.00 0.00 45.48 3.53
2158 2928 4.411164 TGGCCCTACCACCATAGG 57.589 61.111 0.00 0.00 46.36 2.57
2159 2929 2.076184 TGGCCCTACCACCATAGGC 61.076 63.158 0.00 0.00 46.36 3.93
2160 2930 2.830514 GGCCCTACCACCATAGGCC 61.831 68.421 2.04 2.04 40.56 5.19
2161 2931 2.830514 GCCCTACCACCATAGGCCC 61.831 68.421 0.00 0.00 40.56 5.80
2162 2932 1.073706 CCCTACCACCATAGGCCCT 60.074 63.158 0.00 0.00 40.56 5.19
2163 2933 0.697854 CCCTACCACCATAGGCCCTT 60.698 60.000 0.00 0.00 40.56 3.95
2164 2934 0.765510 CCTACCACCATAGGCCCTTC 59.234 60.000 0.00 0.00 35.54 3.46
2165 2935 0.393077 CTACCACCATAGGCCCTTCG 59.607 60.000 0.00 0.00 0.00 3.79
2166 2936 0.325860 TACCACCATAGGCCCTTCGT 60.326 55.000 0.00 0.00 0.00 3.85
2167 2937 1.205460 ACCACCATAGGCCCTTCGTT 61.205 55.000 0.00 0.00 0.00 3.85
2168 2938 0.034477 CCACCATAGGCCCTTCGTTT 60.034 55.000 0.00 0.00 0.00 3.60
2169 2939 1.615919 CCACCATAGGCCCTTCGTTTT 60.616 52.381 0.00 0.00 0.00 2.43
2170 2940 2.356330 CCACCATAGGCCCTTCGTTTTA 60.356 50.000 0.00 0.00 0.00 1.52
2171 2941 2.681344 CACCATAGGCCCTTCGTTTTAC 59.319 50.000 0.00 0.00 0.00 2.01
2172 2942 2.294979 CCATAGGCCCTTCGTTTTACC 58.705 52.381 0.00 0.00 0.00 2.85
2173 2943 1.937899 CATAGGCCCTTCGTTTTACCG 59.062 52.381 0.00 0.00 0.00 4.02
2174 2944 0.975887 TAGGCCCTTCGTTTTACCGT 59.024 50.000 0.00 0.00 0.00 4.83
2175 2945 0.109153 AGGCCCTTCGTTTTACCGTT 59.891 50.000 0.00 0.00 0.00 4.44
2176 2946 1.347378 AGGCCCTTCGTTTTACCGTTA 59.653 47.619 0.00 0.00 0.00 3.18
2177 2947 1.464608 GGCCCTTCGTTTTACCGTTAC 59.535 52.381 0.00 0.00 0.00 2.50
2178 2948 2.142319 GCCCTTCGTTTTACCGTTACA 58.858 47.619 0.00 0.00 0.00 2.41
2179 2949 2.158254 GCCCTTCGTTTTACCGTTACAG 59.842 50.000 0.00 0.00 0.00 2.74
2180 2950 2.158254 CCCTTCGTTTTACCGTTACAGC 59.842 50.000 0.00 0.00 0.00 4.40
2181 2951 2.801679 CCTTCGTTTTACCGTTACAGCA 59.198 45.455 0.00 0.00 0.00 4.41
2182 2952 3.120786 CCTTCGTTTTACCGTTACAGCAG 60.121 47.826 0.00 0.00 0.00 4.24
2183 2953 2.406130 TCGTTTTACCGTTACAGCAGG 58.594 47.619 0.00 0.00 0.00 4.85
2184 2954 2.137523 CGTTTTACCGTTACAGCAGGT 58.862 47.619 0.00 0.00 41.73 4.00
2185 2955 2.545106 CGTTTTACCGTTACAGCAGGTT 59.455 45.455 0.00 0.00 39.31 3.50
2186 2956 3.002553 CGTTTTACCGTTACAGCAGGTTT 59.997 43.478 0.00 0.00 39.31 3.27
2187 2957 4.284485 GTTTTACCGTTACAGCAGGTTTG 58.716 43.478 0.00 0.00 39.31 2.93
2211 2981 4.875713 CCCCCTACCGCCACATGC 62.876 72.222 0.00 0.00 0.00 4.06
2212 2982 4.108299 CCCCTACCGCCACATGCA 62.108 66.667 0.00 0.00 41.33 3.96
2213 2983 2.514592 CCCTACCGCCACATGCAG 60.515 66.667 0.00 0.00 41.33 4.41
2214 2984 2.268920 CCTACCGCCACATGCAGT 59.731 61.111 0.00 0.00 41.33 4.40
2222 2992 3.489731 CACATGCAGTGGCGGTAG 58.510 61.111 8.03 0.00 44.69 3.18
2223 2993 2.108514 CACATGCAGTGGCGGTAGG 61.109 63.158 8.03 0.00 44.69 3.18
2224 2994 2.290287 ACATGCAGTGGCGGTAGGA 61.290 57.895 0.00 0.00 45.35 2.94
2225 2995 1.146930 CATGCAGTGGCGGTAGGAT 59.853 57.895 0.00 0.00 45.35 3.24
2226 2996 0.882042 CATGCAGTGGCGGTAGGATC 60.882 60.000 0.00 0.00 45.35 3.36
2227 2997 1.337384 ATGCAGTGGCGGTAGGATCA 61.337 55.000 0.00 0.00 45.35 2.92
2228 2998 1.220749 GCAGTGGCGGTAGGATCAA 59.779 57.895 0.00 0.00 0.00 2.57
2229 2999 0.811616 GCAGTGGCGGTAGGATCAAG 60.812 60.000 0.00 0.00 0.00 3.02
2230 3000 0.811616 CAGTGGCGGTAGGATCAAGC 60.812 60.000 0.00 0.00 0.00 4.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 2.358957 CCAGGTTTCGATGAGCAATGA 58.641 47.619 0.00 0.00 0.00 2.57
40 41 2.759149 CCCAATGGCGCATTCCCA 60.759 61.111 10.83 0.00 31.05 4.37
54 55 2.863346 CGTCGGTTGACTCCACCCA 61.863 63.158 0.00 0.00 43.21 4.51
196 198 0.400213 ATTTGAAGAGTGGGCCGTCA 59.600 50.000 8.31 0.00 0.00 4.35
199 201 1.755179 ATCATTTGAAGAGTGGGCCG 58.245 50.000 0.00 0.00 0.00 6.13
255 257 3.879295 CACTCCCAATTATCATCGTGCTT 59.121 43.478 0.00 0.00 0.00 3.91
314 316 7.254932 CGATCTGATATAATGCATACCTCTCGA 60.255 40.741 0.00 0.00 0.00 4.04
431 433 1.543802 CTCTTGCATGCCCGGTAAAAA 59.456 47.619 16.68 0.00 0.00 1.94
459 461 3.636764 ACAAGGGTAAGGTCTTTGCAAAG 59.363 43.478 29.53 29.53 37.36 2.77
512 514 6.174720 TGAGGAGTTTATCATATCGGCTTT 57.825 37.500 0.00 0.00 0.00 3.51
656 1396 1.930567 ACGCGTGTTTTGACTAGTGT 58.069 45.000 12.93 0.00 0.00 3.55
668 1408 0.747283 CTAGTCCTCCCTACGCGTGT 60.747 60.000 24.59 6.91 0.00 4.49
673 1413 1.033574 CAAGGCTAGTCCTCCCTACG 58.966 60.000 6.23 0.00 46.94 3.51
797 1537 4.717313 GCCACGACCCCCTCCAAC 62.717 72.222 0.00 0.00 0.00 3.77
943 1692 8.846943 AATGAACACACTGATATGTAAACAGA 57.153 30.769 0.00 0.00 35.85 3.41
1059 1811 2.554032 CAAAGATGCGTTCTCCCACTTT 59.446 45.455 0.00 0.00 31.78 2.66
1136 1888 2.441375 TCAATGGACACCTTCACCTTGA 59.559 45.455 0.00 0.00 0.00 3.02
1318 2071 1.618837 GCATAGAGGAGGCGGTGAATA 59.381 52.381 0.00 0.00 0.00 1.75
1320 2073 0.975556 TGCATAGAGGAGGCGGTGAA 60.976 55.000 0.00 0.00 37.80 3.18
1517 2270 1.544093 CCTCCTCACAAGCAAGCTTCA 60.544 52.381 3.97 0.00 33.42 3.02
1528 2281 0.906756 CTTGCCCTCTCCTCCTCACA 60.907 60.000 0.00 0.00 0.00 3.58
1595 2348 1.617018 GGGCCATTTCCCCTTCTTGC 61.617 60.000 4.39 0.00 40.51 4.01
1615 2369 6.598753 GCGAAGGCTTTAATGAGTAATACA 57.401 37.500 0.00 0.00 35.83 2.29
1747 2505 9.083422 TCTCCACACCAAATTTAATACAAATGA 57.917 29.630 0.00 0.00 0.00 2.57
1758 2516 4.141756 TGCAAACATCTCCACACCAAATTT 60.142 37.500 0.00 0.00 0.00 1.82
1783 2541 8.225603 ACAAACTAAAGTTCATTCATGACACT 57.774 30.769 0.00 0.00 37.25 3.55
1820 2578 5.250982 TCACAGAAATTGCAGACAGATCAT 58.749 37.500 0.00 0.00 0.00 2.45
1825 2583 5.526115 ACAATTCACAGAAATTGCAGACAG 58.474 37.500 8.78 0.00 46.09 3.51
1891 2660 2.366533 GGGGGCTAAGCTAAAACAGAC 58.633 52.381 0.00 0.00 0.00 3.51
1910 2680 2.267961 GGACTTGTGGCGGTAGGG 59.732 66.667 0.00 0.00 0.00 3.53
1911 2681 1.079127 CAGGACTTGTGGCGGTAGG 60.079 63.158 0.00 0.00 0.00 3.18
1912 2682 0.389948 GTCAGGACTTGTGGCGGTAG 60.390 60.000 0.00 0.00 0.00 3.18
1913 2683 1.669440 GTCAGGACTTGTGGCGGTA 59.331 57.895 0.00 0.00 0.00 4.02
1914 2684 2.426023 GTCAGGACTTGTGGCGGT 59.574 61.111 0.00 0.00 0.00 5.68
1915 2685 2.507110 ATCGTCAGGACTTGTGGCGG 62.507 60.000 0.00 0.00 0.00 6.13
1916 2686 0.172578 TATCGTCAGGACTTGTGGCG 59.827 55.000 0.00 0.00 0.00 5.69
1917 2687 1.641577 GTATCGTCAGGACTTGTGGC 58.358 55.000 0.00 0.00 0.00 5.01
1918 2688 1.469251 CCGTATCGTCAGGACTTGTGG 60.469 57.143 0.00 0.00 0.00 4.17
1919 2689 1.201647 ACCGTATCGTCAGGACTTGTG 59.798 52.381 0.00 0.00 0.00 3.33
1920 2690 1.201647 CACCGTATCGTCAGGACTTGT 59.798 52.381 0.00 0.00 0.00 3.16
1921 2691 1.909376 CACCGTATCGTCAGGACTTG 58.091 55.000 0.00 0.00 0.00 3.16
1922 2692 0.172803 GCACCGTATCGTCAGGACTT 59.827 55.000 0.00 0.00 0.00 3.01
1923 2693 0.680280 AGCACCGTATCGTCAGGACT 60.680 55.000 0.00 0.00 0.00 3.85
1924 2694 0.172803 AAGCACCGTATCGTCAGGAC 59.827 55.000 0.00 0.00 0.00 3.85
1925 2695 0.172578 CAAGCACCGTATCGTCAGGA 59.827 55.000 0.00 0.00 0.00 3.86
1926 2696 0.172578 TCAAGCACCGTATCGTCAGG 59.827 55.000 0.00 0.00 0.00 3.86
1927 2697 2.120232 GATCAAGCACCGTATCGTCAG 58.880 52.381 0.00 0.00 0.00 3.51
1928 2698 1.202371 GGATCAAGCACCGTATCGTCA 60.202 52.381 0.00 0.00 0.00 4.35
1929 2699 1.067212 AGGATCAAGCACCGTATCGTC 59.933 52.381 0.00 0.00 0.00 4.20
1930 2700 1.112113 AGGATCAAGCACCGTATCGT 58.888 50.000 0.00 0.00 0.00 3.73
1931 2701 2.607282 GGTAGGATCAAGCACCGTATCG 60.607 54.545 0.00 0.00 0.00 2.92
1932 2702 2.607282 CGGTAGGATCAAGCACCGTATC 60.607 54.545 14.81 0.00 46.81 2.24
1933 2703 1.340248 CGGTAGGATCAAGCACCGTAT 59.660 52.381 14.81 0.00 46.81 3.06
1934 2704 0.742505 CGGTAGGATCAAGCACCGTA 59.257 55.000 14.81 0.00 46.81 4.02
1935 2705 1.515954 CGGTAGGATCAAGCACCGT 59.484 57.895 14.81 0.00 46.81 4.83
1936 2706 4.420143 CGGTAGGATCAAGCACCG 57.580 61.111 10.84 10.84 46.85 4.94
1937 2707 1.523938 GGCGGTAGGATCAAGCACC 60.524 63.158 0.00 0.00 0.00 5.01
1938 2708 0.811616 CTGGCGGTAGGATCAAGCAC 60.812 60.000 0.00 0.00 0.00 4.40
1939 2709 1.522092 CTGGCGGTAGGATCAAGCA 59.478 57.895 0.00 0.00 0.00 3.91
1940 2710 1.227674 CCTGGCGGTAGGATCAAGC 60.228 63.158 0.00 0.00 40.42 4.01
1941 2711 1.447643 CCCTGGCGGTAGGATCAAG 59.552 63.158 0.00 0.00 40.42 3.02
1942 2712 2.742116 GCCCTGGCGGTAGGATCAA 61.742 63.158 0.00 0.00 40.42 2.57
1943 2713 3.161450 GCCCTGGCGGTAGGATCA 61.161 66.667 0.00 0.00 40.42 2.92
1944 2714 3.942439 GGCCCTGGCGGTAGGATC 61.942 72.222 1.37 0.00 40.42 3.36
1945 2715 4.499116 AGGCCCTGGCGGTAGGAT 62.499 66.667 0.00 0.00 40.42 3.24
1948 2718 4.473520 CACAGGCCCTGGCGGTAG 62.474 72.222 16.70 0.00 43.06 3.18
1954 2724 2.933287 TACCACCACAGGCCCTGG 60.933 66.667 16.70 14.48 35.51 4.45
1955 2725 2.671070 CTACCACCACAGGCCCTG 59.329 66.667 9.83 9.83 37.52 4.45
1956 2726 2.610859 CCTACCACCACAGGCCCT 60.611 66.667 0.00 0.00 0.00 5.19
1957 2727 3.728373 CCCTACCACCACAGGCCC 61.728 72.222 0.00 0.00 0.00 5.80
1958 2728 3.728373 CCCCTACCACCACAGGCC 61.728 72.222 0.00 0.00 0.00 5.19
1959 2729 3.728373 CCCCCTACCACCACAGGC 61.728 72.222 0.00 0.00 0.00 4.85
1978 2748 4.142491 TGTTTTACAGTCACAGCAGGTTTG 60.142 41.667 0.00 0.00 0.00 2.93
1979 2749 4.013728 TGTTTTACAGTCACAGCAGGTTT 58.986 39.130 0.00 0.00 0.00 3.27
1980 2750 3.616219 TGTTTTACAGTCACAGCAGGTT 58.384 40.909 0.00 0.00 0.00 3.50
1981 2751 3.275617 TGTTTTACAGTCACAGCAGGT 57.724 42.857 0.00 0.00 0.00 4.00
1982 2752 3.876914 TCTTGTTTTACAGTCACAGCAGG 59.123 43.478 0.00 0.00 0.00 4.85
1983 2753 4.024556 CCTCTTGTTTTACAGTCACAGCAG 60.025 45.833 0.00 0.00 0.00 4.24
1984 2754 3.876914 CCTCTTGTTTTACAGTCACAGCA 59.123 43.478 0.00 0.00 0.00 4.41
1985 2755 3.304057 GCCTCTTGTTTTACAGTCACAGC 60.304 47.826 0.00 0.00 0.00 4.40
1986 2756 3.059597 CGCCTCTTGTTTTACAGTCACAG 60.060 47.826 0.00 0.00 0.00 3.66
1987 2757 2.869801 CGCCTCTTGTTTTACAGTCACA 59.130 45.455 0.00 0.00 0.00 3.58
1988 2758 2.870411 ACGCCTCTTGTTTTACAGTCAC 59.130 45.455 0.00 0.00 0.00 3.67
1989 2759 3.188159 ACGCCTCTTGTTTTACAGTCA 57.812 42.857 0.00 0.00 0.00 3.41
1990 2760 3.303791 CCAACGCCTCTTGTTTTACAGTC 60.304 47.826 0.00 0.00 0.00 3.51
1991 2761 2.616842 CCAACGCCTCTTGTTTTACAGT 59.383 45.455 0.00 0.00 0.00 3.55
1992 2762 2.616842 ACCAACGCCTCTTGTTTTACAG 59.383 45.455 0.00 0.00 0.00 2.74
1993 2763 2.356382 CACCAACGCCTCTTGTTTTACA 59.644 45.455 0.00 0.00 0.00 2.41
1994 2764 2.287368 CCACCAACGCCTCTTGTTTTAC 60.287 50.000 0.00 0.00 0.00 2.01
1995 2765 1.950909 CCACCAACGCCTCTTGTTTTA 59.049 47.619 0.00 0.00 0.00 1.52
1996 2766 0.744281 CCACCAACGCCTCTTGTTTT 59.256 50.000 0.00 0.00 0.00 2.43
1997 2767 0.395173 ACCACCAACGCCTCTTGTTT 60.395 50.000 0.00 0.00 0.00 2.83
1998 2768 0.470766 TACCACCAACGCCTCTTGTT 59.529 50.000 0.00 0.00 0.00 2.83
1999 2769 0.470766 TTACCACCAACGCCTCTTGT 59.529 50.000 0.00 0.00 0.00 3.16
2000 2770 1.156736 CTTACCACCAACGCCTCTTG 58.843 55.000 0.00 0.00 0.00 3.02
2001 2771 0.036306 CCTTACCACCAACGCCTCTT 59.964 55.000 0.00 0.00 0.00 2.85
2002 2772 1.677552 CCTTACCACCAACGCCTCT 59.322 57.895 0.00 0.00 0.00 3.69
2003 2773 1.376812 CCCTTACCACCAACGCCTC 60.377 63.158 0.00 0.00 0.00 4.70
2004 2774 2.754375 CCCTTACCACCAACGCCT 59.246 61.111 0.00 0.00 0.00 5.52
2005 2775 2.360726 CCCCTTACCACCAACGCC 60.361 66.667 0.00 0.00 0.00 5.68
2006 2776 2.360726 CCCCCTTACCACCAACGC 60.361 66.667 0.00 0.00 0.00 4.84
2007 2777 1.002990 GTCCCCCTTACCACCAACG 60.003 63.158 0.00 0.00 0.00 4.10
2008 2778 1.381463 GGTCCCCCTTACCACCAAC 59.619 63.158 0.00 0.00 36.96 3.77
2009 2779 1.853565 GGGTCCCCCTTACCACCAA 60.854 63.158 0.00 0.00 41.34 3.67
2010 2780 2.204182 GGGTCCCCCTTACCACCA 60.204 66.667 0.00 0.00 41.34 4.17
2019 2789 0.690077 CTGTGGTAGTAGGGTCCCCC 60.690 65.000 3.51 0.00 45.90 5.40
2020 2790 0.690077 CCTGTGGTAGTAGGGTCCCC 60.690 65.000 3.51 0.00 0.00 4.81
2021 2791 1.335882 GCCTGTGGTAGTAGGGTCCC 61.336 65.000 0.00 0.00 34.58 4.46
2022 2792 1.335882 GGCCTGTGGTAGTAGGGTCC 61.336 65.000 0.00 0.00 34.58 4.46
2023 2793 1.335882 GGGCCTGTGGTAGTAGGGTC 61.336 65.000 0.84 0.00 34.58 4.46
2073 2843 2.425668 CGGTAAAACAAAGGGCCTATGG 59.574 50.000 6.41 1.28 0.00 2.74
2074 2844 3.086282 ACGGTAAAACAAAGGGCCTATG 58.914 45.455 6.41 1.63 0.00 2.23
2075 2845 3.444792 ACGGTAAAACAAAGGGCCTAT 57.555 42.857 6.41 0.00 0.00 2.57
2076 2846 2.955342 ACGGTAAAACAAAGGGCCTA 57.045 45.000 6.41 0.00 0.00 3.93
2077 2847 2.076207 AACGGTAAAACAAAGGGCCT 57.924 45.000 0.00 0.00 0.00 5.19
2078 2848 2.622470 TGTAACGGTAAAACAAAGGGCC 59.378 45.455 0.00 0.00 0.00 5.80
2079 2849 3.854414 GCTGTAACGGTAAAACAAAGGGC 60.854 47.826 0.00 0.00 0.00 5.19
2080 2850 3.315749 TGCTGTAACGGTAAAACAAAGGG 59.684 43.478 0.00 0.00 0.00 3.95
2081 2851 4.533222 CTGCTGTAACGGTAAAACAAAGG 58.467 43.478 0.00 0.00 0.00 3.11
2082 2852 3.972502 GCTGCTGTAACGGTAAAACAAAG 59.027 43.478 0.00 0.00 0.00 2.77
2083 2853 3.243134 GGCTGCTGTAACGGTAAAACAAA 60.243 43.478 0.00 0.00 0.00 2.83
2084 2854 2.291190 GGCTGCTGTAACGGTAAAACAA 59.709 45.455 0.00 0.00 0.00 2.83
2085 2855 1.874872 GGCTGCTGTAACGGTAAAACA 59.125 47.619 0.00 0.00 0.00 2.83
2086 2856 1.198408 GGGCTGCTGTAACGGTAAAAC 59.802 52.381 0.00 0.00 0.00 2.43
2087 2857 1.525941 GGGCTGCTGTAACGGTAAAA 58.474 50.000 0.00 0.00 0.00 1.52
2088 2858 0.321830 GGGGCTGCTGTAACGGTAAA 60.322 55.000 0.00 0.00 0.00 2.01
2089 2859 1.297364 GGGGCTGCTGTAACGGTAA 59.703 57.895 0.00 0.00 0.00 2.85
2090 2860 2.662070 GGGGGCTGCTGTAACGGTA 61.662 63.158 0.00 0.00 0.00 4.02
2091 2861 4.029809 GGGGGCTGCTGTAACGGT 62.030 66.667 0.00 0.00 0.00 4.83
2120 2890 3.958147 CTACCGCCAGTGCCTGTGG 62.958 68.421 8.30 8.30 38.21 4.17
2121 2891 2.434884 CTACCGCCAGTGCCTGTG 60.435 66.667 2.18 0.00 0.00 3.66
2122 2892 3.706373 CCTACCGCCAGTGCCTGT 61.706 66.667 2.18 0.00 0.00 4.00
2123 2893 2.735772 ATCCTACCGCCAGTGCCTG 61.736 63.158 0.00 0.00 0.00 4.85
2124 2894 2.365635 ATCCTACCGCCAGTGCCT 60.366 61.111 0.00 0.00 0.00 4.75
2125 2895 2.203070 CATCCTACCGCCAGTGCC 60.203 66.667 0.00 0.00 0.00 5.01
2126 2896 2.203070 CCATCCTACCGCCAGTGC 60.203 66.667 0.00 0.00 0.00 4.40
2127 2897 2.203070 GCCATCCTACCGCCAGTG 60.203 66.667 0.00 0.00 0.00 3.66
2128 2898 3.480133 GGCCATCCTACCGCCAGT 61.480 66.667 0.00 0.00 42.52 4.00
2129 2899 4.256180 GGGCCATCCTACCGCCAG 62.256 72.222 4.39 0.00 44.90 4.85
2130 2900 3.398365 TAGGGCCATCCTACCGCCA 62.398 63.158 6.18 0.00 45.98 5.69
2131 2901 2.525877 TAGGGCCATCCTACCGCC 60.526 66.667 6.18 0.00 45.98 6.13
2141 2911 2.076184 GCCTATGGTGGTAGGGCCA 61.076 63.158 6.18 0.00 46.95 5.36
2142 2912 2.836888 GCCTATGGTGGTAGGGCC 59.163 66.667 0.00 0.00 41.32 5.80
2144 2914 0.697854 AAGGGCCTATGGTGGTAGGG 60.698 60.000 6.41 0.00 41.32 3.53
2145 2915 0.765510 GAAGGGCCTATGGTGGTAGG 59.234 60.000 6.41 0.00 43.42 3.18
2146 2916 0.393077 CGAAGGGCCTATGGTGGTAG 59.607 60.000 6.41 0.00 0.00 3.18
2147 2917 0.325860 ACGAAGGGCCTATGGTGGTA 60.326 55.000 6.41 0.00 0.00 3.25
2148 2918 1.205460 AACGAAGGGCCTATGGTGGT 61.205 55.000 6.41 0.00 0.00 4.16
2149 2919 0.034477 AAACGAAGGGCCTATGGTGG 60.034 55.000 6.41 0.00 0.00 4.61
2150 2920 1.834188 AAAACGAAGGGCCTATGGTG 58.166 50.000 6.41 0.00 0.00 4.17
2151 2921 2.356432 GGTAAAACGAAGGGCCTATGGT 60.356 50.000 6.41 1.69 0.00 3.55
2152 2922 2.294979 GGTAAAACGAAGGGCCTATGG 58.705 52.381 6.41 0.93 0.00 2.74
2153 2923 1.937899 CGGTAAAACGAAGGGCCTATG 59.062 52.381 6.41 4.66 35.47 2.23
2154 2924 1.556451 ACGGTAAAACGAAGGGCCTAT 59.444 47.619 6.41 0.00 37.61 2.57
2155 2925 0.975887 ACGGTAAAACGAAGGGCCTA 59.024 50.000 6.41 0.00 37.61 3.93
2156 2926 0.109153 AACGGTAAAACGAAGGGCCT 59.891 50.000 0.00 0.00 37.61 5.19
2157 2927 1.464608 GTAACGGTAAAACGAAGGGCC 59.535 52.381 0.00 0.00 37.61 5.80
2158 2928 2.142319 TGTAACGGTAAAACGAAGGGC 58.858 47.619 0.00 0.00 37.61 5.19
2159 2929 2.158254 GCTGTAACGGTAAAACGAAGGG 59.842 50.000 0.00 0.00 37.61 3.95
2160 2930 2.801679 TGCTGTAACGGTAAAACGAAGG 59.198 45.455 0.00 0.00 37.61 3.46
2161 2931 3.120786 CCTGCTGTAACGGTAAAACGAAG 60.121 47.826 0.00 0.00 37.61 3.79
2162 2932 2.801679 CCTGCTGTAACGGTAAAACGAA 59.198 45.455 0.00 0.00 37.61 3.85
2163 2933 2.224018 ACCTGCTGTAACGGTAAAACGA 60.224 45.455 0.00 0.00 37.61 3.85
2164 2934 2.137523 ACCTGCTGTAACGGTAAAACG 58.862 47.619 0.00 0.00 40.31 3.60
2165 2935 4.284485 CAAACCTGCTGTAACGGTAAAAC 58.716 43.478 0.00 0.00 0.00 2.43
2166 2936 3.243134 GCAAACCTGCTGTAACGGTAAAA 60.243 43.478 0.00 0.00 45.74 1.52
2167 2937 2.291190 GCAAACCTGCTGTAACGGTAAA 59.709 45.455 0.00 0.00 45.74 2.01
2168 2938 1.874872 GCAAACCTGCTGTAACGGTAA 59.125 47.619 0.00 0.00 45.74 2.85
2169 2939 1.515081 GCAAACCTGCTGTAACGGTA 58.485 50.000 0.00 0.00 45.74 4.02
2170 2940 2.327228 GCAAACCTGCTGTAACGGT 58.673 52.632 0.00 0.00 45.74 4.83
2194 2964 4.875713 GCATGTGGCGGTAGGGGG 62.876 72.222 0.00 0.00 0.00 5.40
2205 2975 2.108514 CCTACCGCCACTGCATGTG 61.109 63.158 8.73 8.73 45.80 3.21
2206 2976 1.626356 ATCCTACCGCCACTGCATGT 61.626 55.000 0.00 0.00 37.32 3.21
2207 2977 0.882042 GATCCTACCGCCACTGCATG 60.882 60.000 0.00 0.00 37.32 4.06
2208 2978 1.337384 TGATCCTACCGCCACTGCAT 61.337 55.000 0.00 0.00 37.32 3.96
2209 2979 1.549243 TTGATCCTACCGCCACTGCA 61.549 55.000 0.00 0.00 37.32 4.41
2210 2980 0.811616 CTTGATCCTACCGCCACTGC 60.812 60.000 0.00 0.00 0.00 4.40
2211 2981 0.811616 GCTTGATCCTACCGCCACTG 60.812 60.000 0.00 0.00 0.00 3.66
2212 2982 1.264749 TGCTTGATCCTACCGCCACT 61.265 55.000 0.00 0.00 0.00 4.00
2213 2983 1.090052 GTGCTTGATCCTACCGCCAC 61.090 60.000 0.00 0.00 0.00 5.01
2214 2984 1.220749 GTGCTTGATCCTACCGCCA 59.779 57.895 0.00 0.00 0.00 5.69
2215 2985 1.523938 GGTGCTTGATCCTACCGCC 60.524 63.158 0.00 0.00 0.00 6.13
2216 2986 1.523938 GGGTGCTTGATCCTACCGC 60.524 63.158 0.00 0.00 34.01 5.68
2217 2987 1.410004 TAGGGTGCTTGATCCTACCG 58.590 55.000 0.00 0.00 36.20 4.02
2220 2990 1.410004 CGGTAGGGTGCTTGATCCTA 58.590 55.000 0.00 0.00 36.20 2.94
2221 2991 1.972660 GCGGTAGGGTGCTTGATCCT 61.973 60.000 0.00 0.00 39.30 3.24
2222 2992 1.523938 GCGGTAGGGTGCTTGATCC 60.524 63.158 0.00 0.00 0.00 3.36
2223 2993 1.523938 GGCGGTAGGGTGCTTGATC 60.524 63.158 0.00 0.00 0.00 2.92
2224 2994 2.257409 CTGGCGGTAGGGTGCTTGAT 62.257 60.000 0.00 0.00 0.00 2.57
2225 2995 2.925706 TGGCGGTAGGGTGCTTGA 60.926 61.111 0.00 0.00 0.00 3.02
2226 2996 2.436646 CTGGCGGTAGGGTGCTTG 60.437 66.667 0.00 0.00 0.00 4.01
2227 2997 3.717294 CCTGGCGGTAGGGTGCTT 61.717 66.667 0.00 0.00 34.06 3.91


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

AutoCloner maintained by Alex Coulton.