Multiple sequence alignment - TraesCS6A01G119400

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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 TraesCS6A01G119400 chr6A 100.000 2579 0 0 1 2579 91294205 91291627 0.000000e+00 4763.0
1 TraesCS6A01G119400 chr6A 97.727 44 1 0 1907 1950 91292214 91292171 2.750000e-10 76.8
2 TraesCS6A01G119400 chr6A 97.727 44 1 0 1992 2035 91292299 91292256 2.750000e-10 76.8
3 TraesCS6A01G119400 chr6D 95.216 1923 74 12 1 1911 75012654 75010738 0.000000e+00 3025.0
4 TraesCS6A01G119400 chr6D 97.917 432 9 0 1964 2395 75010741 75010310 0.000000e+00 749.0
5 TraesCS6A01G119400 chr6D 97.727 44 1 0 1907 1950 75010713 75010670 2.750000e-10 76.8
6 TraesCS6A01G119400 chr6B 94.610 1911 86 11 16 1913 148693038 148691132 0.000000e+00 2942.0
7 TraesCS6A01G119400 chr6B 98.652 445 6 0 1951 2395 148691142 148690698 0.000000e+00 789.0
8 TraesCS6A01G119400 chr6B 97.727 44 1 0 1907 1950 148691101 148691058 2.750000e-10 76.8
9 TraesCS6A01G119400 chr7D 98.621 145 2 0 2435 2579 473864976 473864832 9.160000e-65 257.0
10 TraesCS6A01G119400 chr5A 97.931 145 3 0 2435 2579 117380949 117380805 4.260000e-63 252.0
11 TraesCS6A01G119400 chr5A 97.931 145 3 0 2435 2579 174592690 174592834 4.260000e-63 252.0
12 TraesCS6A01G119400 chr5A 98.592 142 2 0 2435 2576 220956800 220956941 4.260000e-63 252.0
13 TraesCS6A01G119400 chr5A 97.931 145 3 0 2435 2579 548239403 548239547 4.260000e-63 252.0
14 TraesCS6A01G119400 chr7A 97.241 145 4 0 2435 2579 379913871 379913727 1.980000e-61 246.0
15 TraesCS6A01G119400 chr2D 92.414 145 11 0 2435 2579 539020264 539020120 9.350000e-50 207.0
16 TraesCS6A01G119400 chr4B 91.724 145 12 0 2435 2579 193984376 193984232 4.350000e-48 202.0
17 TraesCS6A01G119400 chr2A 91.724 145 12 0 2435 2579 235299163 235299019 4.350000e-48 202.0


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 TraesCS6A01G119400 chr6A 91291627 91294205 2578 True 1638.866667 4763 98.484667 1 2579 3 chr6A.!!$R1 2578
1 TraesCS6A01G119400 chr6D 75010310 75012654 2344 True 1283.600000 3025 96.953333 1 2395 3 chr6D.!!$R1 2394
2 TraesCS6A01G119400 chr6B 148690698 148693038 2340 True 1269.266667 2942 96.996333 16 2395 3 chr6B.!!$R1 2379

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
959 973 0.467384 CCTTCGGCATCCTCTCATGT 59.533 55.0 0.0 0.0 0.0 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2519 2534 0.03601 CCTCCTTGATGCCGTGAACT 60.036 55.0 0.0 0.0 0.0 3.01 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 3.057736 CCTTCAACATTTGTCCTCTGCAG 60.058 47.826 7.63 7.63 0.00 4.41
65 66 3.307762 GGGTGTCTTGCTCTAATGGTTCT 60.308 47.826 0.00 0.00 0.00 3.01
72 73 7.550551 TGTCTTGCTCTAATGGTTCTTGATTAG 59.449 37.037 0.00 0.00 34.66 1.73
194 208 3.686691 GCCCAAAGTTCAGAGCCATATCT 60.687 47.826 0.00 0.00 0.00 1.98
346 360 5.593679 TTTAGCTCTACATGTGGAGGTAC 57.406 43.478 36.21 22.62 46.03 3.34
656 670 3.244579 TGACATATGACGACTACTCGACG 59.755 47.826 10.38 0.00 43.06 5.12
680 694 0.752054 GTGGATGAGAGGCTCTCCTG 59.248 60.000 35.01 0.00 44.46 3.86
692 706 2.619074 GGCTCTCCTGTTTTAGCATGGT 60.619 50.000 1.62 1.62 36.68 3.55
746 760 9.742144 GTCCTATAGAATGACCTCTTAGATACA 57.258 37.037 0.00 0.00 0.00 2.29
777 791 5.549742 TTTCAATTGTTTTGCAGGGATCT 57.450 34.783 5.13 0.00 0.00 2.75
783 797 3.091545 TGTTTTGCAGGGATCTCCAATC 58.908 45.455 0.00 0.00 38.24 2.67
819 833 3.254892 GGACAACATCGAGAGTTCCTTC 58.745 50.000 3.30 1.89 0.00 3.46
825 839 2.287977 TCGAGAGTTCCTTCAGGACA 57.712 50.000 0.00 0.00 45.39 4.02
826 840 2.594131 TCGAGAGTTCCTTCAGGACAA 58.406 47.619 0.00 0.00 45.39 3.18
846 860 5.132502 ACAACATTCAATGGAGTCAGACAA 58.867 37.500 1.58 0.00 33.60 3.18
959 973 0.467384 CCTTCGGCATCCTCTCATGT 59.533 55.000 0.00 0.00 0.00 3.21
962 976 0.749049 TCGGCATCCTCTCATGTCTG 59.251 55.000 0.00 0.00 0.00 3.51
1026 1040 2.121291 TGGATAGCATCGTGGCAAAA 57.879 45.000 0.00 0.00 35.83 2.44
1029 1043 2.163412 GGATAGCATCGTGGCAAAACAA 59.837 45.455 0.00 0.00 35.83 2.83
1046 1060 5.652994 AAACAAGTTTGCTACAGGTTCAA 57.347 34.783 0.00 0.00 0.00 2.69
1065 1079 5.195001 TCAATGATCACGATCGTTCCATA 57.805 39.130 20.14 4.72 43.16 2.74
1067 1081 5.863935 TCAATGATCACGATCGTTCCATATC 59.136 40.000 20.14 15.66 43.16 1.63
1074 1088 4.323602 CACGATCGTTCCATATCATTACCG 59.676 45.833 20.14 0.00 0.00 4.02
1122 1136 5.889853 ACTCATAATGGCACAGATGTCAAAT 59.110 36.000 0.00 0.00 45.49 2.32
1126 1140 7.557358 TCATAATGGCACAGATGTCAAATTACT 59.443 33.333 0.00 0.00 45.49 2.24
1156 1170 5.669164 GGGTTTTAATCCCAAAGCACATA 57.331 39.130 6.24 0.00 44.05 2.29
1212 1226 2.505819 ACATTACCAGGTGCTCTTAGGG 59.494 50.000 0.76 0.00 0.00 3.53
1244 1258 5.768980 ATGGATCTGTCTCAGGAAGAAAA 57.231 39.130 0.00 0.00 35.21 2.29
1264 1278 6.698766 AGAAAATGTTGACATCAGCTTGAAAC 59.301 34.615 0.00 0.00 35.10 2.78
1267 1281 4.198530 TGTTGACATCAGCTTGAAACAGA 58.801 39.130 7.09 0.00 0.00 3.41
1332 1346 2.408704 CGAGCTCGAAAAGTGGTTACTG 59.591 50.000 32.06 0.00 43.02 2.74
1383 1397 4.776837 TCAGTCCCGGTTAGTATAACCAAA 59.223 41.667 16.69 1.35 40.28 3.28
1394 1408 8.718734 GGTTAGTATAACCAAACTCTTCAACAG 58.281 37.037 12.74 0.00 40.03 3.16
1395 1409 9.269453 GTTAGTATAACCAAACTCTTCAACAGT 57.731 33.333 0.00 0.00 0.00 3.55
1437 1451 8.820153 AGATTCTTCATAAAGGCAGAGAAAAT 57.180 30.769 0.00 0.00 33.03 1.82
1442 1456 8.517878 TCTTCATAAAGGCAGAGAAAATTTCAG 58.482 33.333 8.55 0.00 33.03 3.02
1448 1462 3.930848 GGCAGAGAAAATTTCAGCATTGG 59.069 43.478 8.55 0.00 0.00 3.16
1460 1474 6.528537 TTTCAGCATTGGCAATATTACTGT 57.471 33.333 13.23 0.00 44.61 3.55
1462 1476 5.893687 TCAGCATTGGCAATATTACTGTTG 58.106 37.500 13.23 9.37 44.61 3.33
1465 1479 4.741676 GCATTGGCAATATTACTGTTGAGC 59.258 41.667 13.23 3.76 40.72 4.26
1475 1489 2.166821 ACTGTTGAGCTGCTGAAGAG 57.833 50.000 21.09 21.09 0.00 2.85
1479 1493 3.393800 TGTTGAGCTGCTGAAGAGTAAC 58.606 45.455 7.01 0.00 0.00 2.50
1492 1506 8.935844 TGCTGAAGAGTAACTGTAAAACATATG 58.064 33.333 0.00 0.00 0.00 1.78
1526 1540 5.042463 TCCATATTGGGAATAGCGAACAA 57.958 39.130 0.00 0.00 38.32 2.83
1530 1544 7.069331 TCCATATTGGGAATAGCGAACAAAATT 59.931 33.333 0.00 0.00 38.32 1.82
1537 1551 7.040340 TGGGAATAGCGAACAAAATTAACTTGA 60.040 33.333 6.21 0.00 0.00 3.02
1539 1553 8.234546 GGAATAGCGAACAAAATTAACTTGAGA 58.765 33.333 6.21 0.00 0.00 3.27
1581 1595 3.055458 AGAAGAAGAACAGGCTCTAAGGC 60.055 47.826 0.00 0.00 41.73 4.35
1707 1721 1.795768 TGTGCTTCTACCTCGCTTTG 58.204 50.000 0.00 0.00 0.00 2.77
1902 1917 3.005155 GTCATTCAGAAATATGGGCCAGC 59.995 47.826 13.78 0.00 0.00 4.85
1903 1918 3.117398 TCATTCAGAAATATGGGCCAGCT 60.117 43.478 13.78 0.00 0.00 4.24
1904 1919 3.386932 TTCAGAAATATGGGCCAGCTT 57.613 42.857 13.78 4.81 0.00 3.74
1905 1920 3.386932 TCAGAAATATGGGCCAGCTTT 57.613 42.857 13.78 13.94 0.00 3.51
1906 1921 4.518278 TCAGAAATATGGGCCAGCTTTA 57.482 40.909 13.78 0.00 0.00 1.85
1907 1922 5.065613 TCAGAAATATGGGCCAGCTTTAT 57.934 39.130 13.78 8.59 0.00 1.40
1908 1923 6.199557 TCAGAAATATGGGCCAGCTTTATA 57.800 37.500 13.78 0.00 0.00 0.98
1909 1924 6.240894 TCAGAAATATGGGCCAGCTTTATAG 58.759 40.000 13.78 7.52 0.00 1.31
1910 1925 6.006449 CAGAAATATGGGCCAGCTTTATAGT 58.994 40.000 13.78 0.00 0.00 2.12
1911 1926 6.006449 AGAAATATGGGCCAGCTTTATAGTG 58.994 40.000 13.78 0.00 0.00 2.74
1912 1927 5.324832 AATATGGGCCAGCTTTATAGTGT 57.675 39.130 13.78 0.00 0.00 3.55
1913 1928 2.710096 TGGGCCAGCTTTATAGTGTC 57.290 50.000 0.00 0.00 0.00 3.67
1914 1929 2.196595 TGGGCCAGCTTTATAGTGTCT 58.803 47.619 0.00 0.00 0.00 3.41
1915 1930 2.170607 TGGGCCAGCTTTATAGTGTCTC 59.829 50.000 0.00 0.00 0.00 3.36
1916 1931 2.474816 GGCCAGCTTTATAGTGTCTCG 58.525 52.381 0.00 0.00 0.00 4.04
1917 1932 2.100916 GGCCAGCTTTATAGTGTCTCGA 59.899 50.000 0.00 0.00 0.00 4.04
1918 1933 3.243907 GGCCAGCTTTATAGTGTCTCGAT 60.244 47.826 0.00 0.00 0.00 3.59
1919 1934 4.022242 GGCCAGCTTTATAGTGTCTCGATA 60.022 45.833 0.00 0.00 0.00 2.92
1920 1935 5.336849 GGCCAGCTTTATAGTGTCTCGATAT 60.337 44.000 0.00 0.00 0.00 1.63
1921 1936 5.802956 GCCAGCTTTATAGTGTCTCGATATC 59.197 44.000 0.00 0.00 0.00 1.63
1922 1937 6.349777 GCCAGCTTTATAGTGTCTCGATATCT 60.350 42.308 0.34 0.00 0.00 1.98
1923 1938 7.026562 CCAGCTTTATAGTGTCTCGATATCTG 58.973 42.308 0.34 0.00 0.00 2.90
1924 1939 7.308891 CCAGCTTTATAGTGTCTCGATATCTGT 60.309 40.741 0.34 0.00 0.00 3.41
1925 1940 7.748683 CAGCTTTATAGTGTCTCGATATCTGTC 59.251 40.741 0.34 0.00 0.00 3.51
1926 1941 7.663905 AGCTTTATAGTGTCTCGATATCTGTCT 59.336 37.037 0.34 0.00 0.00 3.41
1927 1942 7.748683 GCTTTATAGTGTCTCGATATCTGTCTG 59.251 40.741 0.34 0.00 0.00 3.51
1928 1943 8.678593 TTTATAGTGTCTCGATATCTGTCTGT 57.321 34.615 0.34 0.00 0.00 3.41
1929 1944 9.774413 TTTATAGTGTCTCGATATCTGTCTGTA 57.226 33.333 0.34 0.00 0.00 2.74
1930 1945 7.899178 ATAGTGTCTCGATATCTGTCTGTAG 57.101 40.000 0.34 0.00 0.00 2.74
1931 1946 5.676552 AGTGTCTCGATATCTGTCTGTAGT 58.323 41.667 0.34 0.00 0.00 2.73
1932 1947 5.525745 AGTGTCTCGATATCTGTCTGTAGTG 59.474 44.000 0.34 0.00 0.00 2.74
1933 1948 5.294799 GTGTCTCGATATCTGTCTGTAGTGT 59.705 44.000 0.34 0.00 0.00 3.55
1934 1949 5.880887 TGTCTCGATATCTGTCTGTAGTGTT 59.119 40.000 0.34 0.00 0.00 3.32
1935 1950 6.374613 TGTCTCGATATCTGTCTGTAGTGTTT 59.625 38.462 0.34 0.00 0.00 2.83
1936 1951 7.551617 TGTCTCGATATCTGTCTGTAGTGTTTA 59.448 37.037 0.34 0.00 0.00 2.01
1937 1952 8.396390 GTCTCGATATCTGTCTGTAGTGTTTAA 58.604 37.037 0.34 0.00 0.00 1.52
1938 1953 8.396390 TCTCGATATCTGTCTGTAGTGTTTAAC 58.604 37.037 0.34 0.00 0.00 2.01
1939 1954 8.047413 TCGATATCTGTCTGTAGTGTTTAACA 57.953 34.615 0.34 0.00 0.00 2.41
1940 1955 8.517056 TCGATATCTGTCTGTAGTGTTTAACAA 58.483 33.333 0.00 0.00 0.00 2.83
1941 1956 9.302345 CGATATCTGTCTGTAGTGTTTAACAAT 57.698 33.333 3.05 3.05 0.00 2.71
1944 1959 7.709269 TCTGTCTGTAGTGTTTAACAATCAC 57.291 36.000 0.07 0.04 0.00 3.06
1945 1960 7.497595 TCTGTCTGTAGTGTTTAACAATCACT 58.502 34.615 0.07 0.00 43.46 3.41
1946 1961 7.438160 TCTGTCTGTAGTGTTTAACAATCACTG 59.562 37.037 0.07 3.91 41.57 3.66
1947 1962 7.045416 TGTCTGTAGTGTTTAACAATCACTGT 58.955 34.615 0.07 0.00 41.57 3.55
1948 1963 7.011016 TGTCTGTAGTGTTTAACAATCACTGTG 59.989 37.037 0.07 0.17 41.57 3.66
1949 1964 6.018262 TCTGTAGTGTTTAACAATCACTGTGC 60.018 38.462 0.07 4.61 41.57 4.57
2045 2060 4.824537 ACAACCACTGTGCAAATGTATACA 59.175 37.500 8.27 8.27 36.69 2.29
2219 2234 6.607198 GGATTGTTCCAAATAAGATTCCTGGA 59.393 38.462 0.00 0.00 42.12 3.86
2222 2237 4.170468 TCCAAATAAGATTCCTGGAGGC 57.830 45.455 0.00 0.00 32.42 4.70
2270 2285 2.166459 CACGATCTTGTTCCTAGAGCCA 59.834 50.000 0.00 0.00 0.00 4.75
2409 2424 6.509418 TTGCTAAACAACTCTCACAAAGTT 57.491 33.333 0.00 0.00 37.44 2.66
2410 2425 6.509418 TGCTAAACAACTCTCACAAAGTTT 57.491 33.333 0.00 0.00 34.79 2.66
2411 2426 6.919721 TGCTAAACAACTCTCACAAAGTTTT 58.080 32.000 0.00 0.00 34.79 2.43
2412 2427 7.375053 TGCTAAACAACTCTCACAAAGTTTTT 58.625 30.769 0.00 0.00 34.79 1.94
2413 2428 7.328249 TGCTAAACAACTCTCACAAAGTTTTTG 59.672 33.333 0.00 0.00 34.79 2.44
2414 2429 7.328493 GCTAAACAACTCTCACAAAGTTTTTGT 59.672 33.333 1.55 1.55 34.79 2.83
2415 2430 9.191995 CTAAACAACTCTCACAAAGTTTTTGTT 57.808 29.630 4.55 6.52 34.79 2.83
2416 2431 7.406799 AACAACTCTCACAAAGTTTTTGTTG 57.593 32.000 10.14 6.46 34.79 3.33
2417 2432 6.512297 ACAACTCTCACAAAGTTTTTGTTGT 58.488 32.000 4.55 0.00 40.02 3.32
2418 2433 7.653647 ACAACTCTCACAAAGTTTTTGTTGTA 58.346 30.769 4.55 0.00 42.03 2.41
2419 2434 7.807907 ACAACTCTCACAAAGTTTTTGTTGTAG 59.192 33.333 4.55 5.33 42.03 2.74
2420 2435 6.852664 ACTCTCACAAAGTTTTTGTTGTAGG 58.147 36.000 4.55 0.00 35.81 3.18
2421 2436 6.433093 ACTCTCACAAAGTTTTTGTTGTAGGT 59.567 34.615 4.55 0.00 35.81 3.08
2422 2437 7.039993 ACTCTCACAAAGTTTTTGTTGTAGGTT 60.040 33.333 4.55 0.00 35.81 3.50
2423 2438 7.087639 TCTCACAAAGTTTTTGTTGTAGGTTG 58.912 34.615 4.55 0.00 35.81 3.77
2424 2439 6.159988 TCACAAAGTTTTTGTTGTAGGTTGG 58.840 36.000 4.55 0.00 35.81 3.77
2425 2440 5.350091 CACAAAGTTTTTGTTGTAGGTTGGG 59.650 40.000 4.55 0.00 35.81 4.12
2426 2441 5.246429 ACAAAGTTTTTGTTGTAGGTTGGGA 59.754 36.000 1.55 0.00 36.22 4.37
2427 2442 5.592104 AAGTTTTTGTTGTAGGTTGGGAG 57.408 39.130 0.00 0.00 0.00 4.30
2428 2443 4.862371 AGTTTTTGTTGTAGGTTGGGAGA 58.138 39.130 0.00 0.00 0.00 3.71
2429 2444 5.454966 AGTTTTTGTTGTAGGTTGGGAGAT 58.545 37.500 0.00 0.00 0.00 2.75
2430 2445 5.897250 AGTTTTTGTTGTAGGTTGGGAGATT 59.103 36.000 0.00 0.00 0.00 2.40
2431 2446 6.382859 AGTTTTTGTTGTAGGTTGGGAGATTT 59.617 34.615 0.00 0.00 0.00 2.17
2432 2447 6.800072 TTTTGTTGTAGGTTGGGAGATTTT 57.200 33.333 0.00 0.00 0.00 1.82
2433 2448 6.399639 TTTGTTGTAGGTTGGGAGATTTTC 57.600 37.500 0.00 0.00 0.00 2.29
2434 2449 4.403734 TGTTGTAGGTTGGGAGATTTTCC 58.596 43.478 0.00 0.00 46.00 3.13
2441 2456 4.609995 GGAGATTTTCCCGCGACA 57.390 55.556 8.23 0.00 40.37 4.35
2442 2457 2.087344 GGAGATTTTCCCGCGACAC 58.913 57.895 8.23 0.00 40.37 3.67
2443 2458 0.391263 GGAGATTTTCCCGCGACACT 60.391 55.000 8.23 0.00 40.37 3.55
2444 2459 1.439679 GAGATTTTCCCGCGACACTT 58.560 50.000 8.23 0.00 0.00 3.16
2445 2460 1.393883 GAGATTTTCCCGCGACACTTC 59.606 52.381 8.23 0.00 0.00 3.01
2446 2461 1.002087 AGATTTTCCCGCGACACTTCT 59.998 47.619 8.23 0.00 0.00 2.85
2447 2462 1.804748 GATTTTCCCGCGACACTTCTT 59.195 47.619 8.23 0.00 0.00 2.52
2448 2463 2.529780 TTTTCCCGCGACACTTCTTA 57.470 45.000 8.23 0.00 0.00 2.10
2449 2464 1.787012 TTTCCCGCGACACTTCTTAC 58.213 50.000 8.23 0.00 0.00 2.34
2450 2465 0.037975 TTCCCGCGACACTTCTTACC 60.038 55.000 8.23 0.00 0.00 2.85
2451 2466 0.896940 TCCCGCGACACTTCTTACCT 60.897 55.000 8.23 0.00 0.00 3.08
2452 2467 0.458025 CCCGCGACACTTCTTACCTC 60.458 60.000 8.23 0.00 0.00 3.85
2453 2468 0.458025 CCGCGACACTTCTTACCTCC 60.458 60.000 8.23 0.00 0.00 4.30
2454 2469 0.526662 CGCGACACTTCTTACCTCCT 59.473 55.000 0.00 0.00 0.00 3.69
2455 2470 1.732732 CGCGACACTTCTTACCTCCTG 60.733 57.143 0.00 0.00 0.00 3.86
2456 2471 1.404315 GCGACACTTCTTACCTCCTGG 60.404 57.143 0.00 0.00 39.83 4.45
2457 2472 2.168496 CGACACTTCTTACCTCCTGGA 58.832 52.381 0.00 0.00 37.04 3.86
2458 2473 2.761208 CGACACTTCTTACCTCCTGGAT 59.239 50.000 0.00 0.00 37.04 3.41
2459 2474 3.429547 CGACACTTCTTACCTCCTGGATG 60.430 52.174 0.00 0.00 37.04 3.51
2460 2475 3.769844 GACACTTCTTACCTCCTGGATGA 59.230 47.826 5.95 0.00 37.04 2.92
2461 2476 4.366267 ACACTTCTTACCTCCTGGATGAT 58.634 43.478 5.95 0.00 37.04 2.45
2462 2477 4.407296 ACACTTCTTACCTCCTGGATGATC 59.593 45.833 5.95 0.00 37.04 2.92
2463 2478 4.653341 CACTTCTTACCTCCTGGATGATCT 59.347 45.833 5.95 0.00 37.04 2.75
2464 2479 4.653341 ACTTCTTACCTCCTGGATGATCTG 59.347 45.833 5.95 0.00 37.04 2.90
2465 2480 3.581101 TCTTACCTCCTGGATGATCTGG 58.419 50.000 5.95 0.92 37.04 3.86
2466 2481 3.207549 TCTTACCTCCTGGATGATCTGGA 59.792 47.826 5.95 7.31 37.04 3.86
2467 2482 2.575921 ACCTCCTGGATGATCTGGAA 57.424 50.000 5.95 0.00 34.96 3.53
2468 2483 2.406559 ACCTCCTGGATGATCTGGAAG 58.593 52.381 5.95 5.90 34.96 3.46
2469 2484 1.072015 CCTCCTGGATGATCTGGAAGC 59.928 57.143 0.00 0.00 34.96 3.86
2470 2485 1.767088 CTCCTGGATGATCTGGAAGCA 59.233 52.381 0.00 0.00 34.96 3.91
2471 2486 1.487976 TCCTGGATGATCTGGAAGCAC 59.512 52.381 0.00 0.00 32.87 4.40
2472 2487 1.476471 CCTGGATGATCTGGAAGCACC 60.476 57.143 0.00 0.00 39.54 5.01
2474 2489 1.065199 TGGATGATCTGGAAGCACCAC 60.065 52.381 0.00 0.00 44.64 4.16
2475 2490 1.065199 GGATGATCTGGAAGCACCACA 60.065 52.381 0.00 0.00 44.64 4.17
2476 2491 2.618816 GGATGATCTGGAAGCACCACAA 60.619 50.000 0.00 0.00 44.64 3.33
2477 2492 1.896220 TGATCTGGAAGCACCACAAC 58.104 50.000 0.00 0.00 44.64 3.32
2478 2493 0.798776 GATCTGGAAGCACCACAACG 59.201 55.000 0.00 0.00 44.64 4.10
2479 2494 0.396435 ATCTGGAAGCACCACAACGA 59.604 50.000 0.00 0.00 44.64 3.85
2480 2495 0.396435 TCTGGAAGCACCACAACGAT 59.604 50.000 0.00 0.00 44.64 3.73
2481 2496 1.202758 TCTGGAAGCACCACAACGATT 60.203 47.619 0.00 0.00 44.64 3.34
2482 2497 0.950836 TGGAAGCACCACAACGATTG 59.049 50.000 0.00 0.00 44.64 2.67
2483 2498 0.387239 GGAAGCACCACAACGATTGC 60.387 55.000 0.00 0.00 38.79 3.56
2484 2499 0.725784 GAAGCACCACAACGATTGCG 60.726 55.000 0.00 0.00 40.04 4.85
2501 2516 2.167918 GTCTTCAACGACGCACGC 59.832 61.111 0.00 0.00 46.94 5.34
2502 2517 3.033764 TCTTCAACGACGCACGCC 61.034 61.111 0.00 0.00 46.94 5.68
2503 2518 4.072088 CTTCAACGACGCACGCCC 62.072 66.667 0.00 0.00 46.94 6.13
2504 2519 4.595538 TTCAACGACGCACGCCCT 62.596 61.111 0.00 0.00 46.94 5.19
2505 2520 4.595538 TCAACGACGCACGCCCTT 62.596 61.111 0.00 0.00 46.94 3.95
2506 2521 4.072088 CAACGACGCACGCCCTTC 62.072 66.667 0.00 0.00 46.94 3.46
2510 2525 3.195698 GACGCACGCCCTTCCATC 61.196 66.667 0.00 0.00 0.00 3.51
2511 2526 4.778143 ACGCACGCCCTTCCATCC 62.778 66.667 0.00 0.00 0.00 3.51
2514 2529 3.781307 CACGCCCTTCCATCCGGA 61.781 66.667 6.61 6.61 40.60 5.14
2515 2530 3.782443 ACGCCCTTCCATCCGGAC 61.782 66.667 6.12 0.00 42.67 4.79
2516 2531 4.891727 CGCCCTTCCATCCGGACG 62.892 72.222 6.12 0.00 42.67 4.79
2518 2533 3.470888 CCCTTCCATCCGGACGCT 61.471 66.667 6.12 0.00 42.67 5.07
2519 2534 2.131709 CCCTTCCATCCGGACGCTA 61.132 63.158 6.12 0.00 42.67 4.26
2520 2535 1.364171 CCTTCCATCCGGACGCTAG 59.636 63.158 6.12 2.02 42.67 3.42
2521 2536 1.392710 CCTTCCATCCGGACGCTAGT 61.393 60.000 6.12 0.00 42.67 2.57
2522 2537 0.460311 CTTCCATCCGGACGCTAGTT 59.540 55.000 6.12 0.00 42.67 2.24
2523 2538 0.458669 TTCCATCCGGACGCTAGTTC 59.541 55.000 6.12 0.00 42.67 3.01
2524 2539 0.681887 TCCATCCGGACGCTAGTTCA 60.682 55.000 6.12 0.00 35.91 3.18
2525 2540 0.527817 CCATCCGGACGCTAGTTCAC 60.528 60.000 6.12 0.00 0.00 3.18
2526 2541 0.866061 CATCCGGACGCTAGTTCACG 60.866 60.000 6.12 0.00 0.00 4.35
2527 2542 2.001361 ATCCGGACGCTAGTTCACGG 62.001 60.000 6.12 10.47 40.93 4.94
2528 2543 2.879462 CGGACGCTAGTTCACGGC 60.879 66.667 0.00 0.00 36.28 5.68
2529 2544 2.260434 GGACGCTAGTTCACGGCA 59.740 61.111 0.00 0.00 39.73 5.69
2530 2545 1.153628 GGACGCTAGTTCACGGCAT 60.154 57.895 0.00 0.00 39.73 4.40
2531 2546 1.146358 GGACGCTAGTTCACGGCATC 61.146 60.000 0.00 0.00 39.73 3.91
2532 2547 0.457853 GACGCTAGTTCACGGCATCA 60.458 55.000 0.00 0.00 37.24 3.07
2533 2548 0.037697 ACGCTAGTTCACGGCATCAA 60.038 50.000 0.00 0.00 0.00 2.57
2534 2549 0.647410 CGCTAGTTCACGGCATCAAG 59.353 55.000 0.00 0.00 0.00 3.02
2535 2550 1.009829 GCTAGTTCACGGCATCAAGG 58.990 55.000 0.00 0.00 0.00 3.61
2536 2551 1.405526 GCTAGTTCACGGCATCAAGGA 60.406 52.381 0.00 0.00 0.00 3.36
2537 2552 2.544685 CTAGTTCACGGCATCAAGGAG 58.455 52.381 0.00 0.00 0.00 3.69
2538 2553 0.036010 AGTTCACGGCATCAAGGAGG 60.036 55.000 0.00 0.00 0.00 4.30
2539 2554 0.036388 GTTCACGGCATCAAGGAGGA 60.036 55.000 0.00 0.00 0.00 3.71
2540 2555 0.250234 TTCACGGCATCAAGGAGGAG 59.750 55.000 0.00 0.00 0.00 3.69
2541 2556 1.153289 CACGGCATCAAGGAGGAGG 60.153 63.158 0.00 0.00 0.00 4.30
2542 2557 2.203126 CGGCATCAAGGAGGAGGC 60.203 66.667 0.00 0.00 43.42 4.70
2544 2559 3.001514 GCATCAAGGAGGAGGCCA 58.998 61.111 5.01 0.00 38.57 5.36
2545 2560 1.304282 GCATCAAGGAGGAGGCCAA 59.696 57.895 5.01 0.00 38.57 4.52
2546 2561 0.323725 GCATCAAGGAGGAGGCCAAA 60.324 55.000 5.01 0.00 38.57 3.28
2547 2562 1.467920 CATCAAGGAGGAGGCCAAAC 58.532 55.000 5.01 0.00 0.00 2.93
2548 2563 1.005215 CATCAAGGAGGAGGCCAAACT 59.995 52.381 5.01 0.00 0.00 2.66
2549 2564 1.149101 TCAAGGAGGAGGCCAAACTT 58.851 50.000 5.01 0.00 0.00 2.66
2550 2565 1.499007 TCAAGGAGGAGGCCAAACTTT 59.501 47.619 5.01 0.00 0.00 2.66
2551 2566 1.615392 CAAGGAGGAGGCCAAACTTTG 59.385 52.381 5.01 2.65 0.00 2.77
2561 2576 2.336341 CAAACTTTGGGCTACGGCA 58.664 52.632 0.00 0.00 40.87 5.69
2562 2577 0.240945 CAAACTTTGGGCTACGGCAG 59.759 55.000 0.00 0.00 40.87 4.85
2563 2578 0.893727 AAACTTTGGGCTACGGCAGG 60.894 55.000 0.00 0.00 40.87 4.85
2577 2592 4.383861 CAGGCGCTGCTGGACTCA 62.384 66.667 7.64 0.00 0.00 3.41
2578 2593 4.079850 AGGCGCTGCTGGACTCAG 62.080 66.667 7.64 0.00 43.64 3.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
34 35 3.196685 AGAGCAAGACACCCTATCAAGAC 59.803 47.826 0.00 0.00 0.00 3.01
65 66 7.287061 TCTTTGTTTTCTCCCACTCTAATCAA 58.713 34.615 0.00 0.00 0.00 2.57
72 73 3.632145 TGCTTCTTTGTTTTCTCCCACTC 59.368 43.478 0.00 0.00 0.00 3.51
74 75 4.202151 ACATGCTTCTTTGTTTTCTCCCAC 60.202 41.667 0.00 0.00 0.00 4.61
77 78 5.444663 AGACATGCTTCTTTGTTTTCTCC 57.555 39.130 0.00 0.00 0.00 3.71
174 182 4.201990 GCAAGATATGGCTCTGAACTTTGG 60.202 45.833 0.00 0.00 0.00 3.28
194 208 6.541907 TGAGTCAATGCCCTATATATTGCAA 58.458 36.000 0.00 0.00 37.27 4.08
346 360 9.487790 AGACAAGAGATAAGAGAAAACTTTGAG 57.512 33.333 0.00 0.00 0.00 3.02
420 434 8.721019 ATCTTTTGCAACTCAATTTCTTTTGA 57.279 26.923 0.00 0.00 34.12 2.69
656 670 1.280421 AGAGCCTCTCATCCACCAAAC 59.720 52.381 0.00 0.00 32.06 2.93
692 706 6.154534 TCAAGAGCTAATAGACAACCTAGCAA 59.845 38.462 3.07 0.00 39.39 3.91
746 760 8.077386 CCTGCAAAACAATTGAAATTAAAGCAT 58.923 29.630 13.59 0.00 0.00 3.79
777 791 8.698973 TGTCCAAGTAAACATTAAAGATTGGA 57.301 30.769 0.00 0.00 41.87 3.53
783 797 8.286800 TCGATGTTGTCCAAGTAAACATTAAAG 58.713 33.333 2.15 0.00 42.90 1.85
819 833 4.074259 TGACTCCATTGAATGTTGTCCTG 58.926 43.478 18.30 0.00 32.98 3.86
825 839 7.170965 AGTATTGTCTGACTCCATTGAATGTT 58.829 34.615 9.51 0.00 0.00 2.71
826 840 6.715280 AGTATTGTCTGACTCCATTGAATGT 58.285 36.000 9.51 0.00 0.00 2.71
846 860 8.331740 TCTCTTTGGAGGATCAATTTGAAGTAT 58.668 33.333 2.68 0.00 39.86 2.12
959 973 4.037327 GTGCATATACTGACTCTGAGCAGA 59.963 45.833 25.37 14.73 36.07 4.26
962 976 4.582701 AGTGCATATACTGACTCTGAGC 57.417 45.455 4.19 0.00 0.00 4.26
1026 1040 4.887071 TCATTGAACCTGTAGCAAACTTGT 59.113 37.500 0.00 0.00 0.00 3.16
1029 1043 5.182001 GTGATCATTGAACCTGTAGCAAACT 59.818 40.000 0.00 0.00 0.00 2.66
1046 1060 5.391312 TGATATGGAACGATCGTGATCAT 57.609 39.130 23.51 24.04 37.69 2.45
1065 1079 6.540438 TTCTGTAACTCCTTCGGTAATGAT 57.460 37.500 0.00 0.00 0.00 2.45
1067 1081 6.395629 TCTTTCTGTAACTCCTTCGGTAATG 58.604 40.000 0.00 0.00 0.00 1.90
1074 1088 4.893829 ACCCTCTTTCTGTAACTCCTTC 57.106 45.455 0.00 0.00 0.00 3.46
1084 1098 6.051717 CCATTATGAGTGTACCCTCTTTCTG 58.948 44.000 6.90 2.48 32.50 3.02
1085 1099 5.396884 GCCATTATGAGTGTACCCTCTTTCT 60.397 44.000 6.90 0.00 32.50 2.52
1086 1100 4.816925 GCCATTATGAGTGTACCCTCTTTC 59.183 45.833 6.90 0.00 32.50 2.62
1154 1168 3.559069 TCTCCGACGGTTATCTGGTTAT 58.441 45.455 14.79 0.00 0.00 1.89
1156 1170 1.843368 TCTCCGACGGTTATCTGGTT 58.157 50.000 14.79 0.00 0.00 3.67
1212 1226 6.817641 CCTGAGACAGATCCATATTAGCAATC 59.182 42.308 0.00 0.00 32.44 2.67
1244 1258 4.823442 TCTGTTTCAAGCTGATGTCAACAT 59.177 37.500 0.00 0.00 39.70 2.71
1264 1278 4.754114 CAGAACAAAGAAGAGAAGGGTCTG 59.246 45.833 0.00 0.00 32.80 3.51
1267 1281 3.137360 AGCAGAACAAAGAAGAGAAGGGT 59.863 43.478 0.00 0.00 0.00 4.34
1332 1346 6.515272 TCCAACTTCTTTGCCAAGATATTC 57.485 37.500 0.37 0.00 38.89 1.75
1383 1397 2.745152 CGTTCCCCAACTGTTGAAGAGT 60.745 50.000 21.49 0.00 0.00 3.24
1394 1408 0.955919 CTTGGAGAGCGTTCCCCAAC 60.956 60.000 11.20 0.00 36.35 3.77
1395 1409 1.125093 TCTTGGAGAGCGTTCCCCAA 61.125 55.000 14.31 14.31 36.35 4.12
1411 1425 8.641498 TTTTCTCTGCCTTTATGAAGAATCTT 57.359 30.769 0.00 0.00 34.71 2.40
1437 1451 6.528537 ACAGTAATATTGCCAATGCTGAAA 57.471 33.333 15.06 0.00 38.71 2.69
1442 1456 4.741676 GCTCAACAGTAATATTGCCAATGC 59.258 41.667 0.00 0.00 38.26 3.56
1448 1462 4.333649 TCAGCAGCTCAACAGTAATATTGC 59.666 41.667 0.00 0.00 0.00 3.56
1460 1474 3.070159 ACAGTTACTCTTCAGCAGCTCAA 59.930 43.478 0.00 0.00 0.00 3.02
1462 1476 3.311486 ACAGTTACTCTTCAGCAGCTC 57.689 47.619 0.00 0.00 0.00 4.09
1465 1479 6.844696 TGTTTTACAGTTACTCTTCAGCAG 57.155 37.500 0.00 0.00 0.00 4.24
1492 1506 8.585471 ATTCCCAATATGGAACATACATCATC 57.415 34.615 0.00 0.00 46.76 2.92
1508 1522 8.962679 AGTTAATTTTGTTCGCTATTCCCAATA 58.037 29.630 0.00 0.00 0.00 1.90
1509 1523 7.836842 AGTTAATTTTGTTCGCTATTCCCAAT 58.163 30.769 0.00 0.00 0.00 3.16
1512 1526 7.309920 TCAAGTTAATTTTGTTCGCTATTCCC 58.690 34.615 0.00 0.00 0.00 3.97
1707 1721 6.512415 GCTTTGTAACATCTATGATGACCTGC 60.512 42.308 13.63 5.61 0.00 4.85
1902 1917 8.779303 ACAGACAGATATCGAGACACTATAAAG 58.221 37.037 0.00 0.00 0.00 1.85
1903 1918 8.678593 ACAGACAGATATCGAGACACTATAAA 57.321 34.615 0.00 0.00 0.00 1.40
1904 1919 9.425577 CTACAGACAGATATCGAGACACTATAA 57.574 37.037 0.00 0.00 0.00 0.98
1905 1920 8.586744 ACTACAGACAGATATCGAGACACTATA 58.413 37.037 0.00 0.00 0.00 1.31
1906 1921 7.386573 CACTACAGACAGATATCGAGACACTAT 59.613 40.741 0.00 0.00 0.00 2.12
1907 1922 6.702282 CACTACAGACAGATATCGAGACACTA 59.298 42.308 0.00 0.00 0.00 2.74
1908 1923 5.525745 CACTACAGACAGATATCGAGACACT 59.474 44.000 0.00 0.00 0.00 3.55
1909 1924 5.294799 ACACTACAGACAGATATCGAGACAC 59.705 44.000 0.00 0.00 0.00 3.67
1910 1925 5.429130 ACACTACAGACAGATATCGAGACA 58.571 41.667 0.00 0.00 0.00 3.41
1911 1926 5.994887 ACACTACAGACAGATATCGAGAC 57.005 43.478 0.00 0.00 0.00 3.36
1912 1927 8.396390 GTTAAACACTACAGACAGATATCGAGA 58.604 37.037 0.00 0.00 0.00 4.04
1913 1928 8.182227 TGTTAAACACTACAGACAGATATCGAG 58.818 37.037 0.00 0.00 0.00 4.04
1914 1929 8.047413 TGTTAAACACTACAGACAGATATCGA 57.953 34.615 0.00 0.00 0.00 3.59
1915 1930 8.683550 TTGTTAAACACTACAGACAGATATCG 57.316 34.615 0.00 0.00 0.00 2.92
1918 1933 9.419297 GTGATTGTTAAACACTACAGACAGATA 57.581 33.333 0.00 0.00 0.00 1.98
1919 1934 8.150945 AGTGATTGTTAAACACTACAGACAGAT 58.849 33.333 0.00 0.00 42.01 2.90
1920 1935 7.438160 CAGTGATTGTTAAACACTACAGACAGA 59.562 37.037 4.50 0.00 41.93 3.41
1921 1936 7.224753 ACAGTGATTGTTAAACACTACAGACAG 59.775 37.037 0.00 0.00 41.93 3.51
1922 1937 7.011016 CACAGTGATTGTTAAACACTACAGACA 59.989 37.037 0.00 0.00 41.93 3.41
1923 1938 7.345192 CACAGTGATTGTTAAACACTACAGAC 58.655 38.462 0.00 0.00 41.93 3.51
1924 1939 6.018262 GCACAGTGATTGTTAAACACTACAGA 60.018 38.462 4.15 0.00 41.93 3.41
1925 1940 6.136071 GCACAGTGATTGTTAAACACTACAG 58.864 40.000 4.15 0.75 41.93 2.74
1926 1941 5.008217 GGCACAGTGATTGTTAAACACTACA 59.992 40.000 4.15 0.00 41.93 2.74
1927 1942 5.238650 AGGCACAGTGATTGTTAAACACTAC 59.761 40.000 4.15 0.00 41.93 2.73
1928 1943 5.373222 AGGCACAGTGATTGTTAAACACTA 58.627 37.500 4.15 0.00 41.93 2.74
1929 1944 4.207165 AGGCACAGTGATTGTTAAACACT 58.793 39.130 4.15 0.00 44.15 3.55
1930 1945 4.568152 AGGCACAGTGATTGTTAAACAC 57.432 40.909 4.15 0.00 38.16 3.32
1931 1946 5.590530 AAAGGCACAGTGATTGTTAAACA 57.409 34.783 4.15 0.00 38.16 2.83
1932 1947 8.512138 ACTATAAAGGCACAGTGATTGTTAAAC 58.488 33.333 4.15 0.00 38.16 2.01
1933 1948 8.511321 CACTATAAAGGCACAGTGATTGTTAAA 58.489 33.333 4.15 0.00 40.67 1.52
1934 1949 7.663905 ACACTATAAAGGCACAGTGATTGTTAA 59.336 33.333 4.15 0.00 40.67 2.01
1935 1950 7.165485 ACACTATAAAGGCACAGTGATTGTTA 58.835 34.615 4.15 0.00 40.67 2.41
1936 1951 6.003950 ACACTATAAAGGCACAGTGATTGTT 58.996 36.000 4.15 0.00 40.67 2.83
1937 1952 5.560724 ACACTATAAAGGCACAGTGATTGT 58.439 37.500 4.15 0.00 40.67 2.71
1938 1953 6.818644 AGTACACTATAAAGGCACAGTGATTG 59.181 38.462 4.15 0.00 40.67 2.67
1939 1954 6.947464 AGTACACTATAAAGGCACAGTGATT 58.053 36.000 4.15 0.00 40.67 2.57
1940 1955 6.546428 AGTACACTATAAAGGCACAGTGAT 57.454 37.500 4.15 0.00 40.67 3.06
1941 1956 5.995565 AGTACACTATAAAGGCACAGTGA 57.004 39.130 4.15 0.00 40.67 3.41
1942 1957 6.864342 ACTAGTACACTATAAAGGCACAGTG 58.136 40.000 0.00 0.00 43.21 3.66
1943 1958 8.585471 TTACTAGTACACTATAAAGGCACAGT 57.415 34.615 0.91 0.00 0.00 3.55
1944 1959 8.684520 ACTTACTAGTACACTATAAAGGCACAG 58.315 37.037 0.91 0.00 31.21 3.66
1945 1960 8.464404 CACTTACTAGTACACTATAAAGGCACA 58.536 37.037 0.91 0.00 31.96 4.57
1946 1961 8.465201 ACACTTACTAGTACACTATAAAGGCAC 58.535 37.037 0.91 0.00 31.96 5.01
1947 1962 8.585471 ACACTTACTAGTACACTATAAAGGCA 57.415 34.615 0.91 0.00 31.96 4.75
1948 1963 9.513727 GAACACTTACTAGTACACTATAAAGGC 57.486 37.037 0.91 0.00 31.96 4.35
2210 2225 2.239907 ACTAACCAAGCCTCCAGGAATC 59.760 50.000 0.00 0.00 37.39 2.52
2219 2234 2.887151 ATTGCAGACTAACCAAGCCT 57.113 45.000 0.00 0.00 0.00 4.58
2222 2237 3.871006 TCGCATATTGCAGACTAACCAAG 59.129 43.478 0.00 0.00 45.36 3.61
2270 2285 3.713826 TTCCTAGCATTTCGAGGGTTT 57.286 42.857 0.00 0.00 38.05 3.27
2395 2410 7.039993 ACCTACAACAAAAACTTTGTGAGAGTT 60.040 33.333 5.58 0.00 38.92 3.01
2396 2411 6.433093 ACCTACAACAAAAACTTTGTGAGAGT 59.567 34.615 5.58 5.66 36.61 3.24
2397 2412 6.852664 ACCTACAACAAAAACTTTGTGAGAG 58.147 36.000 5.58 3.88 36.61 3.20
2398 2413 6.827586 ACCTACAACAAAAACTTTGTGAGA 57.172 33.333 5.58 0.00 36.61 3.27
2399 2414 6.310224 CCAACCTACAACAAAAACTTTGTGAG 59.690 38.462 5.58 4.90 36.61 3.51
2400 2415 6.159988 CCAACCTACAACAAAAACTTTGTGA 58.840 36.000 5.58 0.00 36.61 3.58
2401 2416 5.350091 CCCAACCTACAACAAAAACTTTGTG 59.650 40.000 5.58 0.00 36.61 3.33
2402 2417 5.246429 TCCCAACCTACAACAAAAACTTTGT 59.754 36.000 0.00 0.00 39.31 2.83
2403 2418 5.725362 TCCCAACCTACAACAAAAACTTTG 58.275 37.500 0.00 0.00 0.00 2.77
2404 2419 5.717654 TCTCCCAACCTACAACAAAAACTTT 59.282 36.000 0.00 0.00 0.00 2.66
2405 2420 5.265989 TCTCCCAACCTACAACAAAAACTT 58.734 37.500 0.00 0.00 0.00 2.66
2406 2421 4.862371 TCTCCCAACCTACAACAAAAACT 58.138 39.130 0.00 0.00 0.00 2.66
2407 2422 5.784578 ATCTCCCAACCTACAACAAAAAC 57.215 39.130 0.00 0.00 0.00 2.43
2408 2423 6.800072 AAATCTCCCAACCTACAACAAAAA 57.200 33.333 0.00 0.00 0.00 1.94
2409 2424 6.183360 GGAAAATCTCCCAACCTACAACAAAA 60.183 38.462 0.00 0.00 38.44 2.44
2410 2425 5.303333 GGAAAATCTCCCAACCTACAACAAA 59.697 40.000 0.00 0.00 38.44 2.83
2411 2426 4.830600 GGAAAATCTCCCAACCTACAACAA 59.169 41.667 0.00 0.00 38.44 2.83
2412 2427 4.403734 GGAAAATCTCCCAACCTACAACA 58.596 43.478 0.00 0.00 38.44 3.33
2424 2439 0.391263 AGTGTCGCGGGAAAATCTCC 60.391 55.000 6.13 0.00 44.54 3.71
2425 2440 1.393883 GAAGTGTCGCGGGAAAATCTC 59.606 52.381 6.13 0.00 0.00 2.75
2426 2441 1.002087 AGAAGTGTCGCGGGAAAATCT 59.998 47.619 6.13 3.55 0.00 2.40
2427 2442 1.439679 AGAAGTGTCGCGGGAAAATC 58.560 50.000 6.13 1.01 0.00 2.17
2428 2443 1.892209 AAGAAGTGTCGCGGGAAAAT 58.108 45.000 6.13 0.00 0.00 1.82
2429 2444 2.137523 GTAAGAAGTGTCGCGGGAAAA 58.862 47.619 6.13 0.00 0.00 2.29
2430 2445 1.606224 GGTAAGAAGTGTCGCGGGAAA 60.606 52.381 6.13 0.00 0.00 3.13
2431 2446 0.037975 GGTAAGAAGTGTCGCGGGAA 60.038 55.000 6.13 0.00 0.00 3.97
2432 2447 0.896940 AGGTAAGAAGTGTCGCGGGA 60.897 55.000 6.13 0.00 0.00 5.14
2433 2448 0.458025 GAGGTAAGAAGTGTCGCGGG 60.458 60.000 6.13 0.00 0.00 6.13
2434 2449 0.458025 GGAGGTAAGAAGTGTCGCGG 60.458 60.000 6.13 0.00 0.00 6.46
2435 2450 0.526662 AGGAGGTAAGAAGTGTCGCG 59.473 55.000 0.00 0.00 0.00 5.87
2436 2451 1.404315 CCAGGAGGTAAGAAGTGTCGC 60.404 57.143 0.00 0.00 0.00 5.19
2437 2452 2.168496 TCCAGGAGGTAAGAAGTGTCG 58.832 52.381 0.00 0.00 35.89 4.35
2438 2453 3.769844 TCATCCAGGAGGTAAGAAGTGTC 59.230 47.826 0.00 0.00 35.89 3.67
2439 2454 3.791320 TCATCCAGGAGGTAAGAAGTGT 58.209 45.455 0.00 0.00 35.89 3.55
2440 2455 4.653341 AGATCATCCAGGAGGTAAGAAGTG 59.347 45.833 0.00 0.00 35.89 3.16
2441 2456 4.653341 CAGATCATCCAGGAGGTAAGAAGT 59.347 45.833 0.00 0.00 35.89 3.01
2442 2457 4.040217 CCAGATCATCCAGGAGGTAAGAAG 59.960 50.000 0.00 0.00 35.89 2.85
2443 2458 3.969976 CCAGATCATCCAGGAGGTAAGAA 59.030 47.826 0.00 0.00 35.89 2.52
2444 2459 3.207549 TCCAGATCATCCAGGAGGTAAGA 59.792 47.826 0.00 0.00 35.89 2.10
2445 2460 3.581101 TCCAGATCATCCAGGAGGTAAG 58.419 50.000 0.00 0.00 35.89 2.34
2446 2461 3.706389 TCCAGATCATCCAGGAGGTAA 57.294 47.619 0.00 0.00 35.89 2.85
2447 2462 3.581101 CTTCCAGATCATCCAGGAGGTA 58.419 50.000 0.00 0.00 35.89 3.08
2448 2463 2.406559 CTTCCAGATCATCCAGGAGGT 58.593 52.381 0.00 0.00 35.89 3.85
2449 2464 1.072015 GCTTCCAGATCATCCAGGAGG 59.928 57.143 0.00 0.00 0.00 4.30
2450 2465 1.767088 TGCTTCCAGATCATCCAGGAG 59.233 52.381 0.00 0.00 0.00 3.69
2451 2466 1.487976 GTGCTTCCAGATCATCCAGGA 59.512 52.381 0.00 0.00 0.00 3.86
2452 2467 1.476471 GGTGCTTCCAGATCATCCAGG 60.476 57.143 0.00 0.00 35.97 4.45
2453 2468 1.211212 TGGTGCTTCCAGATCATCCAG 59.789 52.381 0.00 0.00 41.93 3.86
2454 2469 1.288188 TGGTGCTTCCAGATCATCCA 58.712 50.000 0.00 0.00 41.93 3.41
2463 2478 0.950836 CAATCGTTGTGGTGCTTCCA 59.049 50.000 0.00 0.00 45.01 3.53
2464 2479 0.387239 GCAATCGTTGTGGTGCTTCC 60.387 55.000 0.00 0.00 34.13 3.46
2465 2480 0.725784 CGCAATCGTTGTGGTGCTTC 60.726 55.000 0.00 0.00 37.51 3.86
2466 2481 1.282570 CGCAATCGTTGTGGTGCTT 59.717 52.632 0.00 0.00 37.51 3.91
2467 2482 2.945984 CGCAATCGTTGTGGTGCT 59.054 55.556 0.00 0.00 37.51 4.40
2484 2499 2.167918 GCGTGCGTCGTTGAAGAC 59.832 61.111 0.00 0.00 42.13 3.01
2485 2500 3.033764 GGCGTGCGTCGTTGAAGA 61.034 61.111 0.00 0.00 42.13 2.87
2486 2501 4.072088 GGGCGTGCGTCGTTGAAG 62.072 66.667 0.00 0.00 42.13 3.02
2487 2502 4.595538 AGGGCGTGCGTCGTTGAA 62.596 61.111 0.00 0.00 42.13 2.69
2488 2503 4.595538 AAGGGCGTGCGTCGTTGA 62.596 61.111 3.35 0.00 42.13 3.18
2489 2504 4.072088 GAAGGGCGTGCGTCGTTG 62.072 66.667 8.82 0.00 42.13 4.10
2493 2508 3.195698 GATGGAAGGGCGTGCGTC 61.196 66.667 0.00 0.00 0.00 5.19
2494 2509 4.778143 GGATGGAAGGGCGTGCGT 62.778 66.667 0.00 0.00 0.00 5.24
2497 2512 3.781307 TCCGGATGGAAGGGCGTG 61.781 66.667 0.00 0.00 42.85 5.34
2505 2520 0.681887 TGAACTAGCGTCCGGATGGA 60.682 55.000 24.85 2.03 43.88 3.41
2506 2521 0.527817 GTGAACTAGCGTCCGGATGG 60.528 60.000 24.85 13.14 0.00 3.51
2507 2522 0.866061 CGTGAACTAGCGTCCGGATG 60.866 60.000 19.87 19.87 0.00 3.51
2508 2523 1.432251 CGTGAACTAGCGTCCGGAT 59.568 57.895 7.81 0.00 0.00 4.18
2509 2524 2.693762 CCGTGAACTAGCGTCCGGA 61.694 63.158 0.00 0.00 37.66 5.14
2510 2525 2.202570 CCGTGAACTAGCGTCCGG 60.203 66.667 0.00 0.00 0.00 5.14
2511 2526 2.879462 GCCGTGAACTAGCGTCCG 60.879 66.667 0.00 0.00 0.00 4.79
2512 2527 1.146358 GATGCCGTGAACTAGCGTCC 61.146 60.000 0.00 0.00 36.70 4.79
2513 2528 0.457853 TGATGCCGTGAACTAGCGTC 60.458 55.000 7.31 7.31 41.82 5.19
2514 2529 0.037697 TTGATGCCGTGAACTAGCGT 60.038 50.000 0.00 0.00 0.00 5.07
2515 2530 0.647410 CTTGATGCCGTGAACTAGCG 59.353 55.000 0.00 0.00 0.00 4.26
2516 2531 1.009829 CCTTGATGCCGTGAACTAGC 58.990 55.000 0.00 0.00 0.00 3.42
2517 2532 2.544685 CTCCTTGATGCCGTGAACTAG 58.455 52.381 0.00 0.00 0.00 2.57
2518 2533 1.207089 CCTCCTTGATGCCGTGAACTA 59.793 52.381 0.00 0.00 0.00 2.24
2519 2534 0.036010 CCTCCTTGATGCCGTGAACT 60.036 55.000 0.00 0.00 0.00 3.01
2520 2535 0.036388 TCCTCCTTGATGCCGTGAAC 60.036 55.000 0.00 0.00 0.00 3.18
2521 2536 0.250234 CTCCTCCTTGATGCCGTGAA 59.750 55.000 0.00 0.00 0.00 3.18
2522 2537 1.617018 CCTCCTCCTTGATGCCGTGA 61.617 60.000 0.00 0.00 0.00 4.35
2523 2538 1.153289 CCTCCTCCTTGATGCCGTG 60.153 63.158 0.00 0.00 0.00 4.94
2524 2539 3.036429 GCCTCCTCCTTGATGCCGT 62.036 63.158 0.00 0.00 0.00 5.68
2525 2540 2.203126 GCCTCCTCCTTGATGCCG 60.203 66.667 0.00 0.00 0.00 5.69
2526 2541 2.194326 GGCCTCCTCCTTGATGCC 59.806 66.667 0.00 0.00 38.58 4.40
2527 2542 0.323725 TTTGGCCTCCTCCTTGATGC 60.324 55.000 3.32 0.00 0.00 3.91
2528 2543 1.005215 AGTTTGGCCTCCTCCTTGATG 59.995 52.381 3.32 0.00 0.00 3.07
2529 2544 1.376649 AGTTTGGCCTCCTCCTTGAT 58.623 50.000 3.32 0.00 0.00 2.57
2530 2545 1.149101 AAGTTTGGCCTCCTCCTTGA 58.851 50.000 3.32 0.00 0.00 3.02
2531 2546 1.615392 CAAAGTTTGGCCTCCTCCTTG 59.385 52.381 3.32 0.00 0.00 3.61
2532 2547 1.481242 CCAAAGTTTGGCCTCCTCCTT 60.481 52.381 21.39 0.00 45.17 3.36
2533 2548 0.113190 CCAAAGTTTGGCCTCCTCCT 59.887 55.000 21.39 0.00 45.17 3.69
2534 2549 2.658548 CCAAAGTTTGGCCTCCTCC 58.341 57.895 21.39 0.00 45.17 4.30
2543 2558 0.240945 CTGCCGTAGCCCAAAGTTTG 59.759 55.000 8.73 8.73 38.69 2.93
2544 2559 0.893727 CCTGCCGTAGCCCAAAGTTT 60.894 55.000 0.00 0.00 38.69 2.66
2545 2560 1.303317 CCTGCCGTAGCCCAAAGTT 60.303 57.895 0.00 0.00 38.69 2.66
2546 2561 2.351276 CCTGCCGTAGCCCAAAGT 59.649 61.111 0.00 0.00 38.69 2.66
2547 2562 3.134127 GCCTGCCGTAGCCCAAAG 61.134 66.667 0.00 0.00 38.69 2.77
2560 2575 4.383861 TGAGTCCAGCAGCGCCTG 62.384 66.667 2.29 5.03 34.12 4.85
2561 2576 4.079850 CTGAGTCCAGCAGCGCCT 62.080 66.667 2.29 0.00 33.07 5.52


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

AutoCloner maintained by Alex Coulton.