Multiple sequence alignment - TraesCS4A01G186800

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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 TraesCS4A01G186800 chr4A 100.000 2291 0 0 1 2291 465791657 465789367 0.000000e+00 4231.0
1 TraesCS4A01G186800 chr4A 90.556 180 14 2 1657 1834 16179068 16178890 3.800000e-58 235.0
2 TraesCS4A01G186800 chr2A 97.305 705 15 2 1 705 131680636 131681336 0.000000e+00 1194.0
3 TraesCS4A01G186800 chr2A 92.135 178 13 1 1658 1834 695979761 695979938 1.360000e-62 250.0
4 TraesCS4A01G186800 chr5A 96.657 688 19 4 1 687 544220146 544220830 0.000000e+00 1140.0
5 TraesCS4A01G186800 chr5A 83.206 393 57 6 70 456 643581346 643581735 3.620000e-93 351.0
6 TraesCS4A01G186800 chr5A 92.265 181 13 1 1656 1835 669909878 669909698 2.920000e-64 255.0
7 TraesCS4A01G186800 chr5A 90.860 186 15 2 1651 1834 692396417 692396602 4.890000e-62 248.0
8 TraesCS4A01G186800 chr5A 87.342 79 8 1 695 771 550498801 550498723 3.130000e-14 89.8
9 TraesCS4A01G186800 chr4D 90.239 502 30 7 1160 1646 111140407 111140904 2.480000e-179 638.0
10 TraesCS4A01G186800 chr4D 86.170 376 21 11 772 1136 111139900 111140255 5.970000e-101 377.0
11 TraesCS4A01G186800 chr4D 90.079 252 16 4 1833 2082 111140911 111141155 3.670000e-83 318.0
12 TraesCS4A01G186800 chr4D 91.176 136 2 5 2121 2253 111141711 111141839 2.340000e-40 176.0
13 TraesCS4A01G186800 chr4B 89.225 529 22 10 1160 1657 172321234 172321758 1.490000e-176 628.0
14 TraesCS4A01G186800 chr4B 86.026 458 27 17 1833 2274 172321749 172322185 7.460000e-125 457.0
15 TraesCS4A01G186800 chr4B 86.923 390 25 5 772 1136 172320711 172321099 4.550000e-112 414.0
16 TraesCS4A01G186800 chr7D 86.232 414 40 8 51 455 630308321 630307916 1.260000e-117 433.0
17 TraesCS4A01G186800 chr1D 87.966 349 35 6 70 415 460152051 460152395 2.740000e-109 405.0
18 TraesCS4A01G186800 chr2D 85.496 393 48 5 70 454 547148218 547148609 3.550000e-108 401.0
19 TraesCS4A01G186800 chr2D 83.081 396 55 9 70 459 649653029 649653418 1.300000e-92 350.0
20 TraesCS4A01G186800 chr2D 86.250 80 7 4 1217 1296 312026893 312026968 1.460000e-12 84.2
21 TraesCS4A01G186800 chr6A 84.422 398 50 8 70 459 39171385 39170992 4.620000e-102 381.0
22 TraesCS4A01G186800 chr6A 92.179 179 13 1 1658 1835 145746240 145746062 3.780000e-63 252.0
23 TraesCS4A01G186800 chr6A 90.110 182 17 1 1658 1838 587974490 587974671 3.800000e-58 235.0
24 TraesCS4A01G186800 chr1B 84.343 396 48 9 70 455 262523012 262523403 2.150000e-100 375.0
25 TraesCS4A01G186800 chr3A 92.179 179 12 2 1658 1834 1673717 1673539 3.780000e-63 252.0
26 TraesCS4A01G186800 chr1A 92.179 179 12 2 1657 1834 471710027 471710204 3.780000e-63 252.0
27 TraesCS4A01G186800 chr7A 91.061 179 14 2 1658 1834 549353689 549353511 8.180000e-60 241.0
28 TraesCS4A01G186800 chr7A 94.286 35 2 0 665 699 539555174 539555140 1.000000e-03 54.7
29 TraesCS4A01G186800 chr5B 90.441 136 7 4 458 593 232640615 232640744 8.410000e-40 174.0
30 TraesCS4A01G186800 chr5B 89.706 136 8 4 458 593 232642109 232642238 3.910000e-38 169.0
31 TraesCS4A01G186800 chr5B 90.826 109 9 1 593 701 232640799 232640906 6.600000e-31 145.0
32 TraesCS4A01G186800 chr5B 95.918 49 2 0 1 49 232640573 232640621 1.890000e-11 80.5
33 TraesCS4A01G186800 chr2B 88.000 75 6 3 1217 1291 379880968 379880897 4.060000e-13 86.1
34 TraesCS4A01G186800 chr7B 92.105 38 3 0 665 702 87014724 87014687 1.000000e-03 54.7
35 TraesCS4A01G186800 chr7B 94.286 35 2 0 665 699 728080859 728080893 1.000000e-03 54.7


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G186800 chr4A 465789367 465791657 2290 True 4231.000000 4231 100.000000 1 2291 1 chr4A.!!$R2 2290
1 TraesCS4A01G186800 chr2A 131680636 131681336 700 False 1194.000000 1194 97.305000 1 705 1 chr2A.!!$F1 704
2 TraesCS4A01G186800 chr5A 544220146 544220830 684 False 1140.000000 1140 96.657000 1 687 1 chr5A.!!$F1 686
3 TraesCS4A01G186800 chr4D 111139900 111141839 1939 False 377.250000 638 89.416000 772 2253 4 chr4D.!!$F1 1481
4 TraesCS4A01G186800 chr4B 172320711 172322185 1474 False 499.666667 628 87.391333 772 2274 3 chr4B.!!$F1 1502

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
639 641 1.66056 GCGCACAGGGCAGAAATCAT 61.661 55.0 0.3 0.0 45.17 2.45 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2193 2926 0.028505 CCATCATTGCTTCGCCTTCG 59.971 55.0 0.0 0.0 0.0 3.79 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
307 308 5.446143 TTTTGTACAGGTCGCATTTCAAT 57.554 34.783 0.00 0.00 0.00 2.57
362 363 9.019656 ACATATAACATCCTTGTTTACTTGCAA 57.980 29.630 0.00 0.00 43.57 4.08
514 516 3.714798 AGTCAAGACTGAACAAACCCCTA 59.285 43.478 1.20 0.00 40.75 3.53
519 521 3.655777 AGACTGAACAAACCCCTATCCAA 59.344 43.478 0.00 0.00 0.00 3.53
639 641 1.660560 GCGCACAGGGCAGAAATCAT 61.661 55.000 0.30 0.00 45.17 2.45
640 642 1.667236 CGCACAGGGCAGAAATCATA 58.333 50.000 0.00 0.00 45.17 2.15
705 707 4.137543 GCACCAAAGAGGATTTCCGATAT 58.862 43.478 0.00 0.00 41.22 1.63
706 708 5.305585 GCACCAAAGAGGATTTCCGATATA 58.694 41.667 0.00 0.00 41.22 0.86
707 709 5.940470 GCACCAAAGAGGATTTCCGATATAT 59.060 40.000 0.00 0.00 41.22 0.86
708 710 6.092807 GCACCAAAGAGGATTTCCGATATATC 59.907 42.308 2.34 2.34 41.22 1.63
709 711 7.161404 CACCAAAGAGGATTTCCGATATATCA 58.839 38.462 13.11 0.00 41.22 2.15
710 712 7.826252 CACCAAAGAGGATTTCCGATATATCAT 59.174 37.037 13.11 0.00 41.22 2.45
711 713 8.043710 ACCAAAGAGGATTTCCGATATATCATC 58.956 37.037 13.11 7.67 41.22 2.92
712 714 8.263640 CCAAAGAGGATTTCCGATATATCATCT 58.736 37.037 13.11 0.00 40.10 2.90
713 715 9.311916 CAAAGAGGATTTCCGATATATCATCTC 57.688 37.037 13.11 7.76 38.17 2.75
714 716 8.601047 AAGAGGATTTCCGATATATCATCTCA 57.399 34.615 13.11 0.00 38.17 3.27
715 717 8.780616 AGAGGATTTCCGATATATCATCTCAT 57.219 34.615 13.11 0.18 35.26 2.90
716 718 9.211410 AGAGGATTTCCGATATATCATCTCATT 57.789 33.333 13.11 0.00 35.26 2.57
717 719 9.829507 GAGGATTTCCGATATATCATCTCATTT 57.170 33.333 13.11 0.00 42.08 2.32
753 755 8.950007 TTTTATTCCTACAATGTTTCTTCCCT 57.050 30.769 0.00 0.00 0.00 4.20
756 758 9.847224 TTATTCCTACAATGTTTCTTCCCTATC 57.153 33.333 0.00 0.00 0.00 2.08
757 759 6.884472 TCCTACAATGTTTCTTCCCTATCA 57.116 37.500 0.00 0.00 0.00 2.15
758 760 7.265599 TCCTACAATGTTTCTTCCCTATCAA 57.734 36.000 0.00 0.00 0.00 2.57
759 761 7.110155 TCCTACAATGTTTCTTCCCTATCAAC 58.890 38.462 0.00 0.00 0.00 3.18
760 762 6.318900 CCTACAATGTTTCTTCCCTATCAACC 59.681 42.308 0.00 0.00 0.00 3.77
761 763 5.640147 ACAATGTTTCTTCCCTATCAACCA 58.360 37.500 0.00 0.00 0.00 3.67
762 764 6.074648 ACAATGTTTCTTCCCTATCAACCAA 58.925 36.000 0.00 0.00 0.00 3.67
763 765 6.553100 ACAATGTTTCTTCCCTATCAACCAAA 59.447 34.615 0.00 0.00 0.00 3.28
764 766 6.840780 ATGTTTCTTCCCTATCAACCAAAG 57.159 37.500 0.00 0.00 0.00 2.77
765 767 5.947663 TGTTTCTTCCCTATCAACCAAAGA 58.052 37.500 0.00 0.00 0.00 2.52
766 768 6.369629 TGTTTCTTCCCTATCAACCAAAGAA 58.630 36.000 0.00 0.00 32.54 2.52
767 769 6.490040 TGTTTCTTCCCTATCAACCAAAGAAG 59.510 38.462 0.00 0.00 35.06 2.85
768 770 5.179452 TCTTCCCTATCAACCAAAGAAGG 57.821 43.478 0.00 0.00 32.15 3.46
769 771 3.366052 TCCCTATCAACCAAAGAAGGC 57.634 47.619 0.00 0.00 0.00 4.35
770 772 2.025321 TCCCTATCAACCAAAGAAGGCC 60.025 50.000 0.00 0.00 0.00 5.19
803 805 2.198406 TGAAAACGTCAGTCACCGAAG 58.802 47.619 0.00 0.00 0.00 3.79
891 904 3.009115 TTCTTCCCCTGCCCTCCG 61.009 66.667 0.00 0.00 0.00 4.63
912 925 2.260869 CCAAGTCCCAACGCCACAG 61.261 63.158 0.00 0.00 0.00 3.66
954 967 6.071108 CCATAAATCCAACCAACACATAACCA 60.071 38.462 0.00 0.00 0.00 3.67
1024 1057 2.278596 CATCACCTCGGCCGTACG 60.279 66.667 27.15 15.80 0.00 3.67
1036 1069 2.580867 CGTACGCCTCTCTGCTGC 60.581 66.667 0.52 0.00 0.00 5.25
1048 1087 1.883544 CTGCTGCTGCCATCTCTCG 60.884 63.158 13.47 0.00 38.71 4.04
1065 1104 2.766400 CGTCCTGCTCCTCCTCGTC 61.766 68.421 0.00 0.00 0.00 4.20
1066 1105 2.438614 TCCTGCTCCTCCTCGTCG 60.439 66.667 0.00 0.00 0.00 5.12
1067 1106 4.200283 CCTGCTCCTCCTCGTCGC 62.200 72.222 0.00 0.00 0.00 5.19
1211 1378 3.555967 CGAAGGGGGAGATGGAGG 58.444 66.667 0.00 0.00 0.00 4.30
1357 1543 9.227777 TGATCAATATGGAGATTTTATCAGCAG 57.772 33.333 0.00 0.00 0.00 4.24
1365 1551 3.445096 AGATTTTATCAGCAGTTGGGCAC 59.555 43.478 0.00 0.00 35.83 5.01
1425 1612 9.145865 GTATATAAGCTGGTAGAGAAATCTTGC 57.854 37.037 0.00 0.00 0.00 4.01
1442 1630 3.565482 TCTTGCTGAGTTGTTTGTGATCC 59.435 43.478 0.00 0.00 0.00 3.36
1500 1688 7.497925 AAGAACACAGGAAAGAATCTTGTAC 57.502 36.000 0.00 0.00 45.71 2.90
1544 1732 2.107950 TGCTACTGTTGTGTATGGGC 57.892 50.000 0.00 0.00 0.00 5.36
1550 1738 0.322008 TGTTGTGTATGGGCGATGCA 60.322 50.000 0.00 0.00 0.00 3.96
1551 1739 1.024271 GTTGTGTATGGGCGATGCAT 58.976 50.000 0.00 0.00 0.00 3.96
1579 1767 9.691362 TTATTTGCTCAACTTTGGAAATCTAAC 57.309 29.630 0.00 0.00 0.00 2.34
1580 1768 6.959639 TTGCTCAACTTTGGAAATCTAACT 57.040 33.333 0.00 0.00 0.00 2.24
1595 1783 1.833630 CTAACTGCCATGTCCCTCTCA 59.166 52.381 0.00 0.00 0.00 3.27
1611 1799 3.583806 CTCTCAATCGCTGACCCATATC 58.416 50.000 0.00 0.00 0.00 1.63
1638 1832 2.290464 AGCTCTCGCTCGTACTACATT 58.710 47.619 0.00 0.00 45.15 2.71
1657 1856 2.480224 TTACGTACATGCGTAGGAGC 57.520 50.000 0.00 0.00 46.08 4.70
1691 1890 4.539235 AAAAATGAAGGGCGGGCT 57.461 50.000 0.26 0.00 0.00 5.19
1692 1891 1.974543 AAAAATGAAGGGCGGGCTG 59.025 52.632 0.26 0.00 0.00 4.85
1693 1892 0.541764 AAAAATGAAGGGCGGGCTGA 60.542 50.000 0.00 0.00 0.00 4.26
1694 1893 0.967380 AAAATGAAGGGCGGGCTGAG 60.967 55.000 0.00 0.00 0.00 3.35
1695 1894 4.496336 ATGAAGGGCGGGCTGAGC 62.496 66.667 0.00 0.00 0.00 4.26
1706 1905 4.025858 GCTGAGCTGCCTGGGTCA 62.026 66.667 0.00 0.00 40.71 4.02
1707 1906 2.046507 CTGAGCTGCCTGGGTCAC 60.047 66.667 0.00 0.00 38.55 3.67
1708 1907 3.947132 CTGAGCTGCCTGGGTCACG 62.947 68.421 0.00 0.00 38.55 4.35
1712 1911 2.594303 CTGCCTGGGTCACGCAAA 60.594 61.111 0.00 0.00 30.85 3.68
1713 1912 1.973281 CTGCCTGGGTCACGCAAAT 60.973 57.895 0.00 0.00 30.85 2.32
1714 1913 0.676466 CTGCCTGGGTCACGCAAATA 60.676 55.000 0.00 0.00 30.85 1.40
1715 1914 0.034574 TGCCTGGGTCACGCAAATAT 60.035 50.000 0.00 0.00 0.00 1.28
1716 1915 0.381801 GCCTGGGTCACGCAAATATG 59.618 55.000 0.00 0.00 0.00 1.78
1717 1916 1.750193 CCTGGGTCACGCAAATATGT 58.250 50.000 0.00 0.00 0.00 2.29
1718 1917 1.401552 CCTGGGTCACGCAAATATGTG 59.598 52.381 0.00 0.00 42.84 3.21
1728 1927 3.446799 CGCAAATATGTGTTGGATTGGG 58.553 45.455 0.00 0.00 32.29 4.12
1729 1928 3.197265 GCAAATATGTGTTGGATTGGGC 58.803 45.455 0.00 0.00 0.00 5.36
1730 1929 3.795877 CAAATATGTGTTGGATTGGGCC 58.204 45.455 0.00 0.00 0.00 5.80
1731 1930 3.403228 AATATGTGTTGGATTGGGCCT 57.597 42.857 4.53 0.00 0.00 5.19
1732 1931 4.534647 AATATGTGTTGGATTGGGCCTA 57.465 40.909 4.53 0.00 0.00 3.93
1733 1932 2.143876 ATGTGTTGGATTGGGCCTAC 57.856 50.000 4.53 0.00 34.79 3.18
1734 1933 0.774276 TGTGTTGGATTGGGCCTACA 59.226 50.000 4.53 0.00 40.50 2.74
1735 1934 1.145945 TGTGTTGGATTGGGCCTACAA 59.854 47.619 4.53 0.00 43.42 2.41
1736 1935 1.818674 GTGTTGGATTGGGCCTACAAG 59.181 52.381 4.53 0.00 43.42 3.16
1737 1936 1.272425 TGTTGGATTGGGCCTACAAGG 60.272 52.381 4.53 0.00 39.98 3.61
1738 1937 1.005450 GTTGGATTGGGCCTACAAGGA 59.995 52.381 4.53 0.00 37.67 3.36
1739 1938 0.918983 TGGATTGGGCCTACAAGGAG 59.081 55.000 4.53 0.00 37.67 3.69
1740 1939 0.919710 GGATTGGGCCTACAAGGAGT 59.080 55.000 4.53 0.00 37.67 3.85
1741 1940 1.285078 GGATTGGGCCTACAAGGAGTT 59.715 52.381 4.53 0.00 37.67 3.01
1742 1941 2.369394 GATTGGGCCTACAAGGAGTTG 58.631 52.381 4.53 0.00 37.67 3.16
1743 1942 0.404040 TTGGGCCTACAAGGAGTTGG 59.596 55.000 4.53 0.00 44.70 3.77
1744 1943 0.474854 TGGGCCTACAAGGAGTTGGA 60.475 55.000 4.53 0.00 44.69 3.53
1745 1944 3.553109 GGCCTACAAGGAGTTGGAC 57.447 57.895 0.00 0.00 44.69 4.02
1746 1945 0.984995 GGCCTACAAGGAGTTGGACT 59.015 55.000 0.00 0.00 46.34 3.85
1747 1946 1.339151 GGCCTACAAGGAGTTGGACTG 60.339 57.143 0.00 0.00 46.34 3.51
1748 1947 1.339151 GCCTACAAGGAGTTGGACTGG 60.339 57.143 0.00 0.00 44.69 4.00
1749 1948 2.257207 CCTACAAGGAGTTGGACTGGA 58.743 52.381 0.00 0.00 44.69 3.86
1750 1949 2.637872 CCTACAAGGAGTTGGACTGGAA 59.362 50.000 0.00 0.00 44.69 3.53
1751 1950 2.640316 ACAAGGAGTTGGACTGGAAC 57.360 50.000 0.00 0.00 38.07 3.62
1752 1951 2.127708 ACAAGGAGTTGGACTGGAACT 58.872 47.619 0.00 0.00 38.07 3.01
1753 1952 2.509964 ACAAGGAGTTGGACTGGAACTT 59.490 45.455 0.00 0.00 38.07 2.66
1754 1953 3.714798 ACAAGGAGTTGGACTGGAACTTA 59.285 43.478 0.00 0.00 38.07 2.24
1755 1954 4.165372 ACAAGGAGTTGGACTGGAACTTAA 59.835 41.667 0.00 0.00 38.07 1.85
1756 1955 5.130350 CAAGGAGTTGGACTGGAACTTAAA 58.870 41.667 0.00 0.00 33.71 1.52
1757 1956 5.382664 AGGAGTTGGACTGGAACTTAAAA 57.617 39.130 0.00 0.00 33.71 1.52
1758 1957 5.131067 AGGAGTTGGACTGGAACTTAAAAC 58.869 41.667 0.00 0.00 33.71 2.43
1759 1958 5.104067 AGGAGTTGGACTGGAACTTAAAACT 60.104 40.000 0.00 0.00 33.71 2.66
1760 1959 6.100714 AGGAGTTGGACTGGAACTTAAAACTA 59.899 38.462 0.00 0.00 33.71 2.24
1761 1960 6.427242 GGAGTTGGACTGGAACTTAAAACTAG 59.573 42.308 0.00 0.00 33.71 2.57
1762 1961 6.896883 AGTTGGACTGGAACTTAAAACTAGT 58.103 36.000 0.00 0.00 28.94 2.57
1763 1962 8.026396 AGTTGGACTGGAACTTAAAACTAGTA 57.974 34.615 0.00 0.00 28.94 1.82
1764 1963 8.148999 AGTTGGACTGGAACTTAAAACTAGTAG 58.851 37.037 0.00 0.00 28.94 2.57
1765 1964 7.607615 TGGACTGGAACTTAAAACTAGTAGT 57.392 36.000 0.00 0.00 0.00 2.73
1766 1965 8.710749 TGGACTGGAACTTAAAACTAGTAGTA 57.289 34.615 2.50 0.00 0.00 1.82
1767 1966 8.800332 TGGACTGGAACTTAAAACTAGTAGTAG 58.200 37.037 2.50 2.87 0.00 2.57
1768 1967 9.018582 GGACTGGAACTTAAAACTAGTAGTAGA 57.981 37.037 11.68 0.00 0.00 2.59
1786 1985 9.338622 AGTAGTAGAAACAAATTTTACAGTGCT 57.661 29.630 0.00 0.00 0.00 4.40
1787 1986 9.382244 GTAGTAGAAACAAATTTTACAGTGCTG 57.618 33.333 0.00 0.00 0.00 4.41
1788 1987 7.425606 AGTAGAAACAAATTTTACAGTGCTGG 58.574 34.615 4.11 0.00 34.19 4.85
1789 1988 6.463995 AGAAACAAATTTTACAGTGCTGGA 57.536 33.333 4.11 0.00 34.19 3.86
1790 1989 6.507023 AGAAACAAATTTTACAGTGCTGGAG 58.493 36.000 4.11 0.00 34.19 3.86
1791 1990 6.321181 AGAAACAAATTTTACAGTGCTGGAGA 59.679 34.615 4.11 0.00 34.19 3.71
1792 1991 5.695851 ACAAATTTTACAGTGCTGGAGAG 57.304 39.130 4.11 0.00 34.19 3.20
1793 1992 4.520492 ACAAATTTTACAGTGCTGGAGAGG 59.480 41.667 4.11 0.00 34.19 3.69
1794 1993 4.373156 AATTTTACAGTGCTGGAGAGGT 57.627 40.909 4.11 0.00 34.19 3.85
1795 1994 2.839486 TTTACAGTGCTGGAGAGGTG 57.161 50.000 4.11 0.00 34.19 4.00
1796 1995 1.717032 TTACAGTGCTGGAGAGGTGT 58.283 50.000 4.11 0.00 34.19 4.16
1797 1996 1.717032 TACAGTGCTGGAGAGGTGTT 58.283 50.000 4.11 0.00 34.19 3.32
1798 1997 0.839946 ACAGTGCTGGAGAGGTGTTT 59.160 50.000 4.11 0.00 34.19 2.83
1799 1998 1.233019 CAGTGCTGGAGAGGTGTTTG 58.767 55.000 0.00 0.00 0.00 2.93
1800 1999 1.131638 AGTGCTGGAGAGGTGTTTGA 58.868 50.000 0.00 0.00 0.00 2.69
1801 2000 1.071385 AGTGCTGGAGAGGTGTTTGAG 59.929 52.381 0.00 0.00 0.00 3.02
1802 2001 0.250467 TGCTGGAGAGGTGTTTGAGC 60.250 55.000 0.00 0.00 0.00 4.26
1803 2002 0.957888 GCTGGAGAGGTGTTTGAGCC 60.958 60.000 0.00 0.00 0.00 4.70
1804 2003 0.689623 CTGGAGAGGTGTTTGAGCCT 59.310 55.000 0.00 0.00 37.91 4.58
1805 2004 0.397941 TGGAGAGGTGTTTGAGCCTG 59.602 55.000 0.00 0.00 34.81 4.85
1806 2005 0.398318 GGAGAGGTGTTTGAGCCTGT 59.602 55.000 0.00 0.00 34.81 4.00
1807 2006 1.202818 GGAGAGGTGTTTGAGCCTGTT 60.203 52.381 0.00 0.00 34.81 3.16
1808 2007 2.038557 GGAGAGGTGTTTGAGCCTGTTA 59.961 50.000 0.00 0.00 34.81 2.41
1809 2008 3.496160 GGAGAGGTGTTTGAGCCTGTTAA 60.496 47.826 0.00 0.00 34.81 2.01
1810 2009 4.134563 GAGAGGTGTTTGAGCCTGTTAAA 58.865 43.478 0.00 0.00 34.81 1.52
1811 2010 4.137543 AGAGGTGTTTGAGCCTGTTAAAG 58.862 43.478 0.00 0.00 34.81 1.85
1812 2011 2.623416 AGGTGTTTGAGCCTGTTAAAGC 59.377 45.455 0.00 0.00 33.13 3.51
1813 2012 2.288213 GGTGTTTGAGCCTGTTAAAGCC 60.288 50.000 0.00 0.00 0.00 4.35
1814 2013 1.960689 TGTTTGAGCCTGTTAAAGCCC 59.039 47.619 0.00 0.00 0.00 5.19
1815 2014 1.272490 GTTTGAGCCTGTTAAAGCCCC 59.728 52.381 0.00 0.00 0.00 5.80
1816 2015 0.777446 TTGAGCCTGTTAAAGCCCCT 59.223 50.000 0.00 0.00 0.00 4.79
1817 2016 0.328258 TGAGCCTGTTAAAGCCCCTC 59.672 55.000 0.00 0.00 0.00 4.30
1818 2017 0.328258 GAGCCTGTTAAAGCCCCTCA 59.672 55.000 0.00 0.00 0.00 3.86
1819 2018 0.329596 AGCCTGTTAAAGCCCCTCAG 59.670 55.000 0.00 0.00 0.00 3.35
1820 2019 0.038310 GCCTGTTAAAGCCCCTCAGT 59.962 55.000 0.00 0.00 0.00 3.41
1821 2020 1.280998 GCCTGTTAAAGCCCCTCAGTA 59.719 52.381 0.00 0.00 0.00 2.74
1822 2021 2.681097 GCCTGTTAAAGCCCCTCAGTAG 60.681 54.545 0.00 0.00 0.00 2.57
1823 2022 2.838202 CCTGTTAAAGCCCCTCAGTAGA 59.162 50.000 0.00 0.00 0.00 2.59
1824 2023 3.263425 CCTGTTAAAGCCCCTCAGTAGAA 59.737 47.826 0.00 0.00 0.00 2.10
1825 2024 4.080299 CCTGTTAAAGCCCCTCAGTAGAAT 60.080 45.833 0.00 0.00 0.00 2.40
1826 2025 5.099042 TGTTAAAGCCCCTCAGTAGAATC 57.901 43.478 0.00 0.00 0.00 2.52
1827 2026 2.990066 AAAGCCCCTCAGTAGAATCG 57.010 50.000 0.00 0.00 0.00 3.34
1828 2027 0.466124 AAGCCCCTCAGTAGAATCGC 59.534 55.000 0.00 0.00 0.00 4.58
1829 2028 1.069935 GCCCCTCAGTAGAATCGCC 59.930 63.158 0.00 0.00 0.00 5.54
1830 2029 1.749033 CCCCTCAGTAGAATCGCCC 59.251 63.158 0.00 0.00 0.00 6.13
1831 2030 1.749033 CCCTCAGTAGAATCGCCCC 59.251 63.158 0.00 0.00 0.00 5.80
1832 2031 0.760945 CCCTCAGTAGAATCGCCCCT 60.761 60.000 0.00 0.00 0.00 4.79
1833 2032 0.390860 CCTCAGTAGAATCGCCCCTG 59.609 60.000 0.00 0.00 0.00 4.45
1834 2033 0.249657 CTCAGTAGAATCGCCCCTGC 60.250 60.000 0.00 0.00 0.00 4.85
1835 2034 1.227674 CAGTAGAATCGCCCCTGCC 60.228 63.158 0.00 0.00 0.00 4.85
1836 2035 1.383248 AGTAGAATCGCCCCTGCCT 60.383 57.895 0.00 0.00 0.00 4.75
1837 2036 0.105658 AGTAGAATCGCCCCTGCCTA 60.106 55.000 0.00 0.00 0.00 3.93
1838 2037 0.318762 GTAGAATCGCCCCTGCCTAG 59.681 60.000 0.00 0.00 0.00 3.02
1839 2038 0.832135 TAGAATCGCCCCTGCCTAGG 60.832 60.000 3.67 3.67 44.18 3.02
1893 2096 1.882352 GCAGTTCAGACCACGGGATTT 60.882 52.381 0.00 0.00 0.00 2.17
1906 2109 4.124238 CACGGGATTTGATTATGGTACGT 58.876 43.478 0.00 0.00 0.00 3.57
1907 2110 4.025229 CACGGGATTTGATTATGGTACGTG 60.025 45.833 0.00 0.00 41.21 4.49
1908 2111 3.059188 CGGGATTTGATTATGGTACGTGC 60.059 47.826 0.00 0.00 0.00 5.34
1909 2112 3.880490 GGGATTTGATTATGGTACGTGCA 59.120 43.478 5.86 0.00 0.00 4.57
1910 2113 4.024048 GGGATTTGATTATGGTACGTGCAG 60.024 45.833 5.86 0.00 0.00 4.41
2035 2239 2.109799 CCTACGCAGATGGGCAGG 59.890 66.667 2.10 2.10 35.57 4.85
2057 2261 0.034059 CAACCGAGTGCAGGTCTTCT 59.966 55.000 0.00 0.00 41.95 2.85
2058 2262 0.759346 AACCGAGTGCAGGTCTTCTT 59.241 50.000 0.00 0.00 41.95 2.52
2059 2263 0.318762 ACCGAGTGCAGGTCTTCTTC 59.681 55.000 0.00 0.00 37.44 2.87
2112 2326 2.882876 CTGTACAGGACGGACGGG 59.117 66.667 15.49 0.00 36.40 5.28
2169 2897 6.038714 AGACAGTCAAAAACTCAATCTTGACC 59.961 38.462 2.66 0.00 45.67 4.02
2193 2926 3.338249 TCAAGACTTGATGGTAGCAAGC 58.662 45.455 13.99 0.00 45.00 4.01
2194 2927 2.015736 AGACTTGATGGTAGCAAGCG 57.984 50.000 0.00 0.00 45.00 4.68
2195 2928 1.550524 AGACTTGATGGTAGCAAGCGA 59.449 47.619 0.00 0.00 45.00 4.93
2196 2929 2.028112 AGACTTGATGGTAGCAAGCGAA 60.028 45.455 0.00 0.00 45.00 4.70
2197 2930 2.349886 GACTTGATGGTAGCAAGCGAAG 59.650 50.000 0.00 1.73 45.00 3.79
2274 3010 1.478510 GCTAGCTAGCTTGAGACCACA 59.521 52.381 33.71 4.19 45.62 4.17
2275 3011 2.737039 GCTAGCTAGCTTGAGACCACAC 60.737 54.545 33.71 4.59 45.62 3.82
2276 3012 0.244994 AGCTAGCTTGAGACCACACG 59.755 55.000 12.68 0.00 0.00 4.49
2277 3013 0.038159 GCTAGCTTGAGACCACACGT 60.038 55.000 7.70 0.00 0.00 4.49
2278 3014 1.201647 GCTAGCTTGAGACCACACGTA 59.798 52.381 7.70 0.00 0.00 3.57
2279 3015 2.864968 CTAGCTTGAGACCACACGTAC 58.135 52.381 0.00 0.00 0.00 3.67
2280 3016 0.039437 AGCTTGAGACCACACGTACG 60.039 55.000 15.01 15.01 0.00 3.67
2281 3017 0.318445 GCTTGAGACCACACGTACGT 60.318 55.000 16.72 16.72 0.00 3.57
2282 3018 1.069022 GCTTGAGACCACACGTACGTA 60.069 52.381 22.34 0.00 0.00 3.57
2283 3019 2.578495 CTTGAGACCACACGTACGTAC 58.422 52.381 22.34 15.90 0.00 3.67
2284 3020 0.874390 TGAGACCACACGTACGTACC 59.126 55.000 22.34 8.40 0.00 3.34
2285 3021 0.874390 GAGACCACACGTACGTACCA 59.126 55.000 22.34 0.00 0.00 3.25
2286 3022 1.266718 GAGACCACACGTACGTACCAA 59.733 52.381 22.34 0.00 0.00 3.67
2287 3023 1.001378 AGACCACACGTACGTACCAAC 60.001 52.381 22.34 12.53 0.00 3.77
2288 3024 0.031994 ACCACACGTACGTACCAACC 59.968 55.000 22.34 0.00 0.00 3.77
2289 3025 0.314935 CCACACGTACGTACCAACCT 59.685 55.000 22.34 0.00 0.00 3.50
2290 3026 1.269726 CCACACGTACGTACCAACCTT 60.270 52.381 22.34 0.00 0.00 3.50
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
514 516 4.591321 TGGGCTAGAAAAGATGTTGGAT 57.409 40.909 0.00 0.00 0.00 3.41
519 521 4.851639 ACTGATGGGCTAGAAAAGATGT 57.148 40.909 0.00 0.00 0.00 3.06
727 729 9.374711 AGGGAAGAAACATTGTAGGAATAAAAA 57.625 29.630 0.00 0.00 0.00 1.94
728 730 8.950007 AGGGAAGAAACATTGTAGGAATAAAA 57.050 30.769 0.00 0.00 0.00 1.52
730 732 9.847224 GATAGGGAAGAAACATTGTAGGAATAA 57.153 33.333 0.00 0.00 0.00 1.40
731 733 8.998814 TGATAGGGAAGAAACATTGTAGGAATA 58.001 33.333 0.00 0.00 0.00 1.75
732 734 7.872138 TGATAGGGAAGAAACATTGTAGGAAT 58.128 34.615 0.00 0.00 0.00 3.01
733 735 7.265599 TGATAGGGAAGAAACATTGTAGGAA 57.734 36.000 0.00 0.00 0.00 3.36
734 736 6.884472 TGATAGGGAAGAAACATTGTAGGA 57.116 37.500 0.00 0.00 0.00 2.94
735 737 6.318900 GGTTGATAGGGAAGAAACATTGTAGG 59.681 42.308 0.00 0.00 0.00 3.18
736 738 6.884295 TGGTTGATAGGGAAGAAACATTGTAG 59.116 38.462 0.00 0.00 0.00 2.74
737 739 6.785076 TGGTTGATAGGGAAGAAACATTGTA 58.215 36.000 0.00 0.00 0.00 2.41
738 740 5.640147 TGGTTGATAGGGAAGAAACATTGT 58.360 37.500 0.00 0.00 0.00 2.71
739 741 6.588719 TTGGTTGATAGGGAAGAAACATTG 57.411 37.500 0.00 0.00 0.00 2.82
740 742 7.010160 TCTTTGGTTGATAGGGAAGAAACATT 58.990 34.615 0.00 0.00 0.00 2.71
741 743 6.552008 TCTTTGGTTGATAGGGAAGAAACAT 58.448 36.000 0.00 0.00 0.00 2.71
742 744 5.947663 TCTTTGGTTGATAGGGAAGAAACA 58.052 37.500 0.00 0.00 0.00 2.83
743 745 6.071896 CCTTCTTTGGTTGATAGGGAAGAAAC 60.072 42.308 0.00 0.00 34.05 2.78
744 746 6.010219 CCTTCTTTGGTTGATAGGGAAGAAA 58.990 40.000 0.00 0.00 34.05 2.52
745 747 5.570320 CCTTCTTTGGTTGATAGGGAAGAA 58.430 41.667 0.00 0.00 32.96 2.52
746 748 4.567747 GCCTTCTTTGGTTGATAGGGAAGA 60.568 45.833 0.00 0.00 32.96 2.87
747 749 3.696548 GCCTTCTTTGGTTGATAGGGAAG 59.303 47.826 0.00 0.00 0.00 3.46
748 750 3.563479 GGCCTTCTTTGGTTGATAGGGAA 60.563 47.826 0.00 0.00 0.00 3.97
749 751 2.025321 GGCCTTCTTTGGTTGATAGGGA 60.025 50.000 0.00 0.00 0.00 4.20
750 752 2.379005 GGCCTTCTTTGGTTGATAGGG 58.621 52.381 0.00 0.00 0.00 3.53
751 753 2.291540 TGGGCCTTCTTTGGTTGATAGG 60.292 50.000 4.53 0.00 0.00 2.57
752 754 3.085952 TGGGCCTTCTTTGGTTGATAG 57.914 47.619 4.53 0.00 0.00 2.08
753 755 3.756082 ATGGGCCTTCTTTGGTTGATA 57.244 42.857 4.53 0.00 0.00 2.15
754 756 2.568509 CAATGGGCCTTCTTTGGTTGAT 59.431 45.455 4.53 0.00 0.00 2.57
755 757 1.969923 CAATGGGCCTTCTTTGGTTGA 59.030 47.619 4.53 0.00 0.00 3.18
756 758 1.608801 GCAATGGGCCTTCTTTGGTTG 60.609 52.381 4.53 0.00 36.11 3.77
757 759 0.686789 GCAATGGGCCTTCTTTGGTT 59.313 50.000 4.53 0.00 36.11 3.67
758 760 0.471591 TGCAATGGGCCTTCTTTGGT 60.472 50.000 4.53 0.00 43.89 3.67
759 761 0.248289 CTGCAATGGGCCTTCTTTGG 59.752 55.000 4.53 0.00 43.89 3.28
760 762 0.390735 GCTGCAATGGGCCTTCTTTG 60.391 55.000 4.53 2.91 43.89 2.77
761 763 1.880819 CGCTGCAATGGGCCTTCTTT 61.881 55.000 4.53 0.00 43.89 2.52
762 764 2.345760 CGCTGCAATGGGCCTTCTT 61.346 57.895 4.53 0.00 43.89 2.52
763 765 2.753043 CGCTGCAATGGGCCTTCT 60.753 61.111 4.53 0.00 43.89 2.85
764 766 2.158561 AAACGCTGCAATGGGCCTTC 62.159 55.000 4.53 0.00 43.89 3.46
765 767 2.209315 AAACGCTGCAATGGGCCTT 61.209 52.632 4.53 0.00 43.89 4.35
766 768 2.601367 AAACGCTGCAATGGGCCT 60.601 55.556 4.53 0.00 43.89 5.19
767 769 2.432972 CAAACGCTGCAATGGGCC 60.433 61.111 0.00 0.00 43.89 5.80
768 770 0.599728 TTTCAAACGCTGCAATGGGC 60.600 50.000 0.00 0.00 45.13 5.36
769 771 1.526464 GTTTTCAAACGCTGCAATGGG 59.474 47.619 0.00 0.00 0.00 4.00
770 772 2.928295 GTTTTCAAACGCTGCAATGG 57.072 45.000 0.00 0.00 0.00 3.16
822 826 5.050972 GCATAAATGTAGCTAGGTTGACGTC 60.051 44.000 9.11 9.11 0.00 4.34
891 904 2.671963 GGCGTTGGGACTTGGGAC 60.672 66.667 0.00 0.00 0.00 4.46
912 925 2.671963 GGGGTGTTGGTTCGGAGC 60.672 66.667 0.00 0.00 0.00 4.70
954 967 4.647611 TCTTCGTTTGAGAGAGAGAGAGT 58.352 43.478 0.00 0.00 0.00 3.24
1024 1057 3.700831 ATGGCAGCAGCAGAGAGGC 62.701 63.158 2.65 0.00 44.61 4.70
1036 1069 1.227205 GCAGGACGAGAGATGGCAG 60.227 63.158 0.00 0.00 0.00 4.85
1048 1087 2.766400 CGACGAGGAGGAGCAGGAC 61.766 68.421 0.00 0.00 0.00 3.85
1169 1336 2.436646 CGCCGCAACCTTCATCCT 60.437 61.111 0.00 0.00 0.00 3.24
1195 1362 2.812619 CGCCTCCATCTCCCCCTTC 61.813 68.421 0.00 0.00 0.00 3.46
1211 1378 2.207590 TCATCAAGCACTCATCATCGC 58.792 47.619 0.00 0.00 0.00 4.58
1376 1563 1.067706 TCGAGTACCCGATTCGCAAAA 60.068 47.619 0.00 0.00 37.22 2.44
1378 1565 0.742505 ATCGAGTACCCGATTCGCAA 59.257 50.000 6.44 0.00 45.87 4.85
1385 1572 5.942236 AGCTTATATACAATCGAGTACCCGA 59.058 40.000 0.72 0.72 43.16 5.14
1386 1573 6.028368 CAGCTTATATACAATCGAGTACCCG 58.972 44.000 0.00 0.00 0.00 5.28
1425 1612 2.096069 CAGCGGATCACAAACAACTCAG 60.096 50.000 0.00 0.00 0.00 3.35
1500 1688 5.818136 ATCATTATTGTTCAAGGGTGACG 57.182 39.130 0.00 0.00 31.90 4.35
1544 1732 7.096353 CCAAAGTTGAGCAAATAATATGCATCG 60.096 37.037 0.19 0.00 46.22 3.84
1579 1767 1.809271 CGATTGAGAGGGACATGGCAG 60.809 57.143 0.00 0.00 0.00 4.85
1580 1768 0.178767 CGATTGAGAGGGACATGGCA 59.821 55.000 0.00 0.00 0.00 4.92
1595 1783 2.373169 ACATGGATATGGGTCAGCGATT 59.627 45.455 0.00 0.00 38.66 3.34
1638 1832 1.744522 TGCTCCTACGCATGTACGTAA 59.255 47.619 0.00 0.00 46.90 3.18
1674 1873 0.541764 TCAGCCCGCCCTTCATTTTT 60.542 50.000 0.00 0.00 0.00 1.94
1675 1874 0.967380 CTCAGCCCGCCCTTCATTTT 60.967 55.000 0.00 0.00 0.00 1.82
1676 1875 1.379044 CTCAGCCCGCCCTTCATTT 60.379 57.895 0.00 0.00 0.00 2.32
1677 1876 2.273449 CTCAGCCCGCCCTTCATT 59.727 61.111 0.00 0.00 0.00 2.57
1678 1877 4.496336 GCTCAGCCCGCCCTTCAT 62.496 66.667 0.00 0.00 0.00 2.57
1689 1888 4.025858 TGACCCAGGCAGCTCAGC 62.026 66.667 0.00 0.00 0.00 4.26
1690 1889 2.046507 GTGACCCAGGCAGCTCAG 60.047 66.667 0.00 0.00 0.00 3.35
1691 1890 4.007644 CGTGACCCAGGCAGCTCA 62.008 66.667 0.00 0.00 0.00 4.26
1697 1896 0.381801 CATATTTGCGTGACCCAGGC 59.618 55.000 4.86 4.86 44.21 4.85
1698 1897 1.401552 CACATATTTGCGTGACCCAGG 59.598 52.381 0.00 0.00 35.02 4.45
1699 1898 2.083774 ACACATATTTGCGTGACCCAG 58.916 47.619 0.00 0.00 36.91 4.45
1700 1899 2.192664 ACACATATTTGCGTGACCCA 57.807 45.000 0.00 0.00 36.91 4.51
1701 1900 2.415357 CCAACACATATTTGCGTGACCC 60.415 50.000 0.00 0.00 36.91 4.46
1702 1901 2.486203 TCCAACACATATTTGCGTGACC 59.514 45.455 0.00 0.00 36.91 4.02
1703 1902 3.822594 TCCAACACATATTTGCGTGAC 57.177 42.857 0.00 0.00 36.91 3.67
1704 1903 4.380339 CCAATCCAACACATATTTGCGTGA 60.380 41.667 0.00 0.00 36.91 4.35
1705 1904 3.858812 CCAATCCAACACATATTTGCGTG 59.141 43.478 0.00 0.00 39.10 5.34
1706 1905 3.119173 CCCAATCCAACACATATTTGCGT 60.119 43.478 0.00 0.00 0.00 5.24
1707 1906 3.446799 CCCAATCCAACACATATTTGCG 58.553 45.455 0.00 0.00 0.00 4.85
1708 1907 3.197265 GCCCAATCCAACACATATTTGC 58.803 45.455 0.00 0.00 0.00 3.68
1709 1908 3.451902 AGGCCCAATCCAACACATATTTG 59.548 43.478 0.00 0.00 0.00 2.32
1710 1909 3.723325 AGGCCCAATCCAACACATATTT 58.277 40.909 0.00 0.00 0.00 1.40
1711 1910 3.403228 AGGCCCAATCCAACACATATT 57.597 42.857 0.00 0.00 0.00 1.28
1712 1911 3.204158 TGTAGGCCCAATCCAACACATAT 59.796 43.478 0.00 0.00 0.00 1.78
1713 1912 2.578480 TGTAGGCCCAATCCAACACATA 59.422 45.455 0.00 0.00 0.00 2.29
1714 1913 1.357420 TGTAGGCCCAATCCAACACAT 59.643 47.619 0.00 0.00 0.00 3.21
1715 1914 0.774276 TGTAGGCCCAATCCAACACA 59.226 50.000 0.00 0.00 0.00 3.72
1716 1915 1.818674 CTTGTAGGCCCAATCCAACAC 59.181 52.381 0.00 0.00 0.00 3.32
1717 1916 1.272425 CCTTGTAGGCCCAATCCAACA 60.272 52.381 0.00 0.00 0.00 3.33
1718 1917 1.005450 TCCTTGTAGGCCCAATCCAAC 59.995 52.381 0.00 0.00 34.61 3.77
1719 1918 1.284785 CTCCTTGTAGGCCCAATCCAA 59.715 52.381 0.00 0.00 34.61 3.53
1720 1919 0.918983 CTCCTTGTAGGCCCAATCCA 59.081 55.000 0.00 0.00 34.61 3.41
1721 1920 0.919710 ACTCCTTGTAGGCCCAATCC 59.080 55.000 0.00 0.00 34.61 3.01
1722 1921 2.369394 CAACTCCTTGTAGGCCCAATC 58.631 52.381 0.00 0.00 34.61 2.67
1723 1922 1.005924 CCAACTCCTTGTAGGCCCAAT 59.994 52.381 0.00 0.00 34.61 3.16
1724 1923 0.404040 CCAACTCCTTGTAGGCCCAA 59.596 55.000 0.00 0.00 34.61 4.12
1725 1924 0.474854 TCCAACTCCTTGTAGGCCCA 60.475 55.000 0.00 0.00 34.61 5.36
1726 1925 0.035343 GTCCAACTCCTTGTAGGCCC 60.035 60.000 0.00 0.00 34.61 5.80
1727 1926 0.984995 AGTCCAACTCCTTGTAGGCC 59.015 55.000 0.00 0.00 34.61 5.19
1728 1927 1.339151 CCAGTCCAACTCCTTGTAGGC 60.339 57.143 0.00 0.00 34.61 3.93
1729 1928 2.257207 TCCAGTCCAACTCCTTGTAGG 58.743 52.381 0.00 0.00 36.46 3.18
1730 1929 3.325135 AGTTCCAGTCCAACTCCTTGTAG 59.675 47.826 0.00 0.00 27.00 2.74
1731 1930 3.314693 AGTTCCAGTCCAACTCCTTGTA 58.685 45.455 0.00 0.00 27.00 2.41
1732 1931 2.127708 AGTTCCAGTCCAACTCCTTGT 58.872 47.619 0.00 0.00 27.00 3.16
1733 1932 2.938956 AGTTCCAGTCCAACTCCTTG 57.061 50.000 0.00 0.00 27.00 3.61
1734 1933 5.382664 TTTAAGTTCCAGTCCAACTCCTT 57.617 39.130 0.00 0.00 32.71 3.36
1735 1934 5.104067 AGTTTTAAGTTCCAGTCCAACTCCT 60.104 40.000 0.00 0.00 32.71 3.69
1736 1935 5.131067 AGTTTTAAGTTCCAGTCCAACTCC 58.869 41.667 0.00 0.00 32.71 3.85
1737 1936 6.990939 ACTAGTTTTAAGTTCCAGTCCAACTC 59.009 38.462 0.00 0.00 32.71 3.01
1738 1937 6.896883 ACTAGTTTTAAGTTCCAGTCCAACT 58.103 36.000 0.00 0.00 35.51 3.16
1739 1938 7.930325 ACTACTAGTTTTAAGTTCCAGTCCAAC 59.070 37.037 0.00 0.00 0.00 3.77
1740 1939 8.026396 ACTACTAGTTTTAAGTTCCAGTCCAA 57.974 34.615 0.00 0.00 0.00 3.53
1741 1940 7.607615 ACTACTAGTTTTAAGTTCCAGTCCA 57.392 36.000 0.00 0.00 0.00 4.02
1742 1941 9.018582 TCTACTACTAGTTTTAAGTTCCAGTCC 57.981 37.037 0.00 0.00 0.00 3.85
1760 1959 9.338622 AGCACTGTAAAATTTGTTTCTACTACT 57.661 29.630 0.00 0.00 0.00 2.57
1761 1960 9.382244 CAGCACTGTAAAATTTGTTTCTACTAC 57.618 33.333 0.00 0.00 0.00 2.73
1762 1961 8.564574 CCAGCACTGTAAAATTTGTTTCTACTA 58.435 33.333 0.00 0.00 0.00 1.82
1763 1962 7.284489 TCCAGCACTGTAAAATTTGTTTCTACT 59.716 33.333 0.00 0.00 0.00 2.57
1764 1963 7.422399 TCCAGCACTGTAAAATTTGTTTCTAC 58.578 34.615 0.00 0.00 0.00 2.59
1765 1964 7.500892 TCTCCAGCACTGTAAAATTTGTTTCTA 59.499 33.333 0.00 0.00 0.00 2.10
1766 1965 6.321181 TCTCCAGCACTGTAAAATTTGTTTCT 59.679 34.615 0.00 0.00 0.00 2.52
1767 1966 6.503524 TCTCCAGCACTGTAAAATTTGTTTC 58.496 36.000 0.00 0.00 0.00 2.78
1768 1967 6.461509 CCTCTCCAGCACTGTAAAATTTGTTT 60.462 38.462 0.00 0.00 0.00 2.83
1769 1968 5.010012 CCTCTCCAGCACTGTAAAATTTGTT 59.990 40.000 0.00 0.00 0.00 2.83
1770 1969 4.520492 CCTCTCCAGCACTGTAAAATTTGT 59.480 41.667 0.00 0.00 0.00 2.83
1771 1970 4.520492 ACCTCTCCAGCACTGTAAAATTTG 59.480 41.667 0.00 0.00 0.00 2.32
1772 1971 4.520492 CACCTCTCCAGCACTGTAAAATTT 59.480 41.667 0.00 0.00 0.00 1.82
1773 1972 4.074970 CACCTCTCCAGCACTGTAAAATT 58.925 43.478 0.00 0.00 0.00 1.82
1774 1973 3.073062 ACACCTCTCCAGCACTGTAAAAT 59.927 43.478 0.00 0.00 0.00 1.82
1775 1974 2.438021 ACACCTCTCCAGCACTGTAAAA 59.562 45.455 0.00 0.00 0.00 1.52
1776 1975 2.047061 ACACCTCTCCAGCACTGTAAA 58.953 47.619 0.00 0.00 0.00 2.01
1777 1976 1.717032 ACACCTCTCCAGCACTGTAA 58.283 50.000 0.00 0.00 0.00 2.41
1778 1977 1.717032 AACACCTCTCCAGCACTGTA 58.283 50.000 0.00 0.00 0.00 2.74
1779 1978 0.839946 AAACACCTCTCCAGCACTGT 59.160 50.000 0.00 0.00 0.00 3.55
1780 1979 1.202687 TCAAACACCTCTCCAGCACTG 60.203 52.381 0.00 0.00 0.00 3.66
1781 1980 1.071385 CTCAAACACCTCTCCAGCACT 59.929 52.381 0.00 0.00 0.00 4.40
1782 1981 1.517242 CTCAAACACCTCTCCAGCAC 58.483 55.000 0.00 0.00 0.00 4.40
1783 1982 0.250467 GCTCAAACACCTCTCCAGCA 60.250 55.000 0.00 0.00 0.00 4.41
1784 1983 0.957888 GGCTCAAACACCTCTCCAGC 60.958 60.000 0.00 0.00 0.00 4.85
1785 1984 0.689623 AGGCTCAAACACCTCTCCAG 59.310 55.000 0.00 0.00 0.00 3.86
1786 1985 0.397941 CAGGCTCAAACACCTCTCCA 59.602 55.000 0.00 0.00 32.56 3.86
1787 1986 0.398318 ACAGGCTCAAACACCTCTCC 59.602 55.000 0.00 0.00 32.56 3.71
1788 1987 2.262423 AACAGGCTCAAACACCTCTC 57.738 50.000 0.00 0.00 32.56 3.20
1789 1988 3.857157 TTAACAGGCTCAAACACCTCT 57.143 42.857 0.00 0.00 32.56 3.69
1790 1989 3.304726 GCTTTAACAGGCTCAAACACCTC 60.305 47.826 0.00 0.00 32.56 3.85
1791 1990 2.623416 GCTTTAACAGGCTCAAACACCT 59.377 45.455 0.00 0.00 36.45 4.00
1792 1991 2.288213 GGCTTTAACAGGCTCAAACACC 60.288 50.000 0.00 0.00 45.03 4.16
1793 1992 3.013276 GGCTTTAACAGGCTCAAACAC 57.987 47.619 0.00 0.00 45.03 3.32
1802 2001 2.838202 TCTACTGAGGGGCTTTAACAGG 59.162 50.000 0.00 0.00 33.57 4.00
1803 2002 4.553330 TTCTACTGAGGGGCTTTAACAG 57.447 45.455 0.00 0.00 35.14 3.16
1804 2003 4.382685 CGATTCTACTGAGGGGCTTTAACA 60.383 45.833 0.00 0.00 0.00 2.41
1805 2004 4.120589 CGATTCTACTGAGGGGCTTTAAC 58.879 47.826 0.00 0.00 0.00 2.01
1806 2005 3.431766 GCGATTCTACTGAGGGGCTTTAA 60.432 47.826 0.00 0.00 0.00 1.52
1807 2006 2.102588 GCGATTCTACTGAGGGGCTTTA 59.897 50.000 0.00 0.00 0.00 1.85
1808 2007 1.134371 GCGATTCTACTGAGGGGCTTT 60.134 52.381 0.00 0.00 0.00 3.51
1809 2008 0.466124 GCGATTCTACTGAGGGGCTT 59.534 55.000 0.00 0.00 0.00 4.35
1810 2009 1.403687 GGCGATTCTACTGAGGGGCT 61.404 60.000 0.00 0.00 0.00 5.19
1811 2010 1.069935 GGCGATTCTACTGAGGGGC 59.930 63.158 0.00 0.00 0.00 5.80
1812 2011 1.749033 GGGCGATTCTACTGAGGGG 59.251 63.158 0.00 0.00 0.00 4.79
1813 2012 0.760945 AGGGGCGATTCTACTGAGGG 60.761 60.000 0.00 0.00 0.00 4.30
1814 2013 0.390860 CAGGGGCGATTCTACTGAGG 59.609 60.000 0.00 0.00 0.00 3.86
1815 2014 0.249657 GCAGGGGCGATTCTACTGAG 60.250 60.000 0.00 0.00 0.00 3.35
1816 2015 1.686325 GGCAGGGGCGATTCTACTGA 61.686 60.000 0.00 0.00 42.47 3.41
1817 2016 1.227674 GGCAGGGGCGATTCTACTG 60.228 63.158 0.00 0.00 42.47 2.74
1818 2017 0.105658 TAGGCAGGGGCGATTCTACT 60.106 55.000 0.00 0.00 42.47 2.57
1819 2018 0.318762 CTAGGCAGGGGCGATTCTAC 59.681 60.000 0.00 0.00 42.47 2.59
1820 2019 0.832135 CCTAGGCAGGGGCGATTCTA 60.832 60.000 0.00 0.00 42.47 2.10
1821 2020 2.143419 CCTAGGCAGGGGCGATTCT 61.143 63.158 0.00 0.00 42.47 2.40
1822 2021 2.105806 CTCCTAGGCAGGGGCGATTC 62.106 65.000 2.96 0.00 42.87 2.52
1823 2022 2.040884 TCCTAGGCAGGGGCGATT 60.041 61.111 2.96 0.00 42.87 3.34
1824 2023 2.525381 CTCCTAGGCAGGGGCGAT 60.525 66.667 2.96 0.00 42.87 4.58
1829 2028 1.559682 TGCTTTTACTCCTAGGCAGGG 59.440 52.381 2.96 0.00 42.87 4.45
1830 2029 2.911484 CTGCTTTTACTCCTAGGCAGG 58.089 52.381 2.96 0.00 42.05 4.85
1832 2031 3.197116 GGTACTGCTTTTACTCCTAGGCA 59.803 47.826 2.96 0.00 0.00 4.75
1833 2032 3.737355 CGGTACTGCTTTTACTCCTAGGC 60.737 52.174 2.96 0.00 0.00 3.93
1834 2033 3.698040 TCGGTACTGCTTTTACTCCTAGG 59.302 47.826 0.82 0.82 0.00 3.02
1835 2034 4.978083 TCGGTACTGCTTTTACTCCTAG 57.022 45.455 0.00 0.00 0.00 3.02
1836 2035 4.441079 GCATCGGTACTGCTTTTACTCCTA 60.441 45.833 0.00 0.00 36.68 2.94
1837 2036 3.679083 GCATCGGTACTGCTTTTACTCCT 60.679 47.826 0.00 0.00 36.68 3.69
1838 2037 2.608090 GCATCGGTACTGCTTTTACTCC 59.392 50.000 0.00 0.00 36.68 3.85
1839 2038 3.927552 GCATCGGTACTGCTTTTACTC 57.072 47.619 0.00 0.00 36.68 2.59
1847 2046 3.234386 GTTCAAAAAGCATCGGTACTGC 58.766 45.455 0.00 0.00 39.97 4.40
1850 2049 2.095919 AGCGTTCAAAAAGCATCGGTAC 60.096 45.455 0.77 0.00 0.00 3.34
1860 2063 3.119673 TCTGAACTGCAAGCGTTCAAAAA 60.120 39.130 22.49 13.90 46.95 1.94
1861 2064 2.421775 TCTGAACTGCAAGCGTTCAAAA 59.578 40.909 22.49 15.47 46.95 2.44
1862 2065 2.013400 TCTGAACTGCAAGCGTTCAAA 58.987 42.857 22.49 13.80 46.95 2.69
1893 2096 1.804746 CGCCTGCACGTACCATAATCA 60.805 52.381 0.00 0.00 0.00 2.57
1906 2109 1.271325 TGATTTCTTTCTCCGCCTGCA 60.271 47.619 0.00 0.00 0.00 4.41
1907 2110 1.453155 TGATTTCTTTCTCCGCCTGC 58.547 50.000 0.00 0.00 0.00 4.85
1908 2111 3.012518 ACATGATTTCTTTCTCCGCCTG 58.987 45.455 0.00 0.00 0.00 4.85
1909 2112 3.356529 ACATGATTTCTTTCTCCGCCT 57.643 42.857 0.00 0.00 0.00 5.52
1910 2113 3.440173 TCAACATGATTTCTTTCTCCGCC 59.560 43.478 0.00 0.00 0.00 6.13
1972 2176 2.599578 ACGCTACACCCACTCCGT 60.600 61.111 0.00 0.00 0.00 4.69
1996 2200 1.509787 CGGTCACGTACGTACACCG 60.510 63.158 36.69 36.69 42.96 4.94
2035 2239 1.668151 GACCTGCACTCGGTTGGTC 60.668 63.158 3.57 3.57 40.05 4.02
2108 2322 4.697756 CCGGTCACATGTGCCCGT 62.698 66.667 37.37 0.00 0.00 5.28
2109 2323 4.697756 ACCGGTCACATGTGCCCG 62.698 66.667 35.06 35.06 0.00 6.13
2110 2324 3.055719 CACCGGTCACATGTGCCC 61.056 66.667 21.38 18.70 0.00 5.36
2111 2325 3.055719 CCACCGGTCACATGTGCC 61.056 66.667 21.38 21.85 0.00 5.01
2112 2326 3.055719 CCCACCGGTCACATGTGC 61.056 66.667 21.38 15.29 0.00 4.57
2192 2925 0.590732 CATCATTGCTTCGCCTTCGC 60.591 55.000 0.00 0.00 35.26 4.70
2193 2926 0.028505 CCATCATTGCTTCGCCTTCG 59.971 55.000 0.00 0.00 0.00 3.79
2194 2927 1.382522 TCCATCATTGCTTCGCCTTC 58.617 50.000 0.00 0.00 0.00 3.46
2195 2928 1.679680 CATCCATCATTGCTTCGCCTT 59.320 47.619 0.00 0.00 0.00 4.35
2196 2929 1.315690 CATCCATCATTGCTTCGCCT 58.684 50.000 0.00 0.00 0.00 5.52
2197 2930 0.313043 CCATCCATCATTGCTTCGCC 59.687 55.000 0.00 0.00 0.00 5.54


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

AutoCloner maintained by Alex Coulton.