Multiple sequence alignment - TraesCS6A01G055000

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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 TraesCS6A01G055000 chr6A 100.000 2312 0 0 1 2312 28640046 28642357 0.000000e+00 4270.0
1 TraesCS6A01G055000 chr6A 82.473 1375 120 58 764 2084 31264692 31263385 0.000000e+00 1092.0
2 TraesCS6A01G055000 chr6A 89.371 875 52 20 766 1631 28666738 28665896 0.000000e+00 1062.0
3 TraesCS6A01G055000 chr6A 88.627 721 65 10 1 709 28667551 28666836 0.000000e+00 861.0
4 TraesCS6A01G055000 chr6A 88.848 547 45 12 764 1310 33547884 33548414 0.000000e+00 658.0
5 TraesCS6A01G055000 chr6A 90.283 494 29 13 764 1244 28773777 28773290 1.510000e-176 628.0
6 TraesCS6A01G055000 chrUn 84.894 1410 121 41 764 2114 103772349 103770973 0.000000e+00 1339.0
7 TraesCS6A01G055000 chrUn 86.534 906 81 19 764 1644 103670366 103671255 0.000000e+00 959.0
8 TraesCS6A01G055000 chr6B 86.510 934 71 30 766 1657 55651471 55650551 0.000000e+00 976.0
9 TraesCS6A01G055000 chr6B 87.840 773 65 17 761 1532 55436315 55437059 0.000000e+00 880.0
10 TraesCS6A01G055000 chr6B 84.323 893 96 30 764 1629 55695492 55694617 0.000000e+00 833.0
11 TraesCS6A01G055000 chr6B 85.467 750 64 29 764 1500 54663170 54662453 0.000000e+00 739.0
12 TraesCS6A01G055000 chr6B 83.333 726 56 31 1 683 55652328 55651625 5.460000e-171 610.0
13 TraesCS6A01G055000 chr6B 84.922 577 49 22 745 1319 55121610 55122150 1.210000e-152 549.0
14 TraesCS6A01G055000 chr7A 82.080 904 101 36 773 1632 628524918 628524032 0.000000e+00 715.0
15 TraesCS6A01G055000 chr7B 83.162 778 87 34 773 1515 589740772 589740004 0.000000e+00 671.0
16 TraesCS6A01G055000 chr6D 87.547 530 39 17 985 1496 29756988 29757508 2.560000e-164 588.0
17 TraesCS6A01G055000 chr5D 86.462 554 43 21 772 1315 436824307 436823776 1.540000e-161 579.0
18 TraesCS6A01G055000 chr5B 94.545 55 3 0 1442 1496 22518882 22518936 4.090000e-13 86.1


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 TraesCS6A01G055000 chr6A 28640046 28642357 2311 False 4270.0 4270 100.0000 1 2312 1 chr6A.!!$F1 2311
1 TraesCS6A01G055000 chr6A 31263385 31264692 1307 True 1092.0 1092 82.4730 764 2084 1 chr6A.!!$R2 1320
2 TraesCS6A01G055000 chr6A 28665896 28667551 1655 True 961.5 1062 88.9990 1 1631 2 chr6A.!!$R3 1630
3 TraesCS6A01G055000 chr6A 33547884 33548414 530 False 658.0 658 88.8480 764 1310 1 chr6A.!!$F2 546
4 TraesCS6A01G055000 chrUn 103770973 103772349 1376 True 1339.0 1339 84.8940 764 2114 1 chrUn.!!$R1 1350
5 TraesCS6A01G055000 chrUn 103670366 103671255 889 False 959.0 959 86.5340 764 1644 1 chrUn.!!$F1 880
6 TraesCS6A01G055000 chr6B 55436315 55437059 744 False 880.0 880 87.8400 761 1532 1 chr6B.!!$F2 771
7 TraesCS6A01G055000 chr6B 55694617 55695492 875 True 833.0 833 84.3230 764 1629 1 chr6B.!!$R2 865
8 TraesCS6A01G055000 chr6B 55650551 55652328 1777 True 793.0 976 84.9215 1 1657 2 chr6B.!!$R3 1656
9 TraesCS6A01G055000 chr6B 54662453 54663170 717 True 739.0 739 85.4670 764 1500 1 chr6B.!!$R1 736
10 TraesCS6A01G055000 chr6B 55121610 55122150 540 False 549.0 549 84.9220 745 1319 1 chr6B.!!$F1 574
11 TraesCS6A01G055000 chr7A 628524032 628524918 886 True 715.0 715 82.0800 773 1632 1 chr7A.!!$R1 859
12 TraesCS6A01G055000 chr7B 589740004 589740772 768 True 671.0 671 83.1620 773 1515 1 chr7B.!!$R1 742
13 TraesCS6A01G055000 chr6D 29756988 29757508 520 False 588.0 588 87.5470 985 1496 1 chr6D.!!$F1 511
14 TraesCS6A01G055000 chr5D 436823776 436824307 531 True 579.0 579 86.4620 772 1315 1 chr5D.!!$R1 543

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
711 789 0.310854 CGGGTTCGAAGCTGCTTTTT 59.689 50.0 25.05 0.0 39.0 1.94 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1711 1988 0.033504 GAACTGGAGAAGGCACACGA 59.966 55.0 0.0 0.0 0.0 4.35 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 9.311916 TGAGAAAAATTGTTTTACTGTTGATGG 57.688 29.630 0.00 0.00 37.07 3.51
48 49 6.352516 TGTTTTACTGTTGATGGGCAAAAAT 58.647 32.000 0.00 0.00 38.44 1.82
131 132 3.132160 TCGTGTGCCGAAAATCTAACAA 58.868 40.909 0.00 0.00 44.03 2.83
132 133 3.749088 TCGTGTGCCGAAAATCTAACAAT 59.251 39.130 0.00 0.00 44.03 2.71
139 140 4.804108 CCGAAAATCTAACAATGCAACCA 58.196 39.130 0.00 0.00 0.00 3.67
145 146 1.806542 CTAACAATGCAACCAGAGCGT 59.193 47.619 0.00 0.00 33.85 5.07
322 324 8.398665 GGGAGCAGATATTAGTTTTTGTGTTAG 58.601 37.037 0.00 0.00 0.00 2.34
415 418 7.704472 TCGCATGAATTTAAATTTGGTCCATAC 59.296 33.333 14.45 7.14 0.00 2.39
573 612 4.242475 CAGGAAAAATAAACCCGAAAGCC 58.758 43.478 0.00 0.00 0.00 4.35
577 616 4.783764 AAAATAAACCCGAAAGCCTCAG 57.216 40.909 0.00 0.00 0.00 3.35
597 637 6.981559 CCTCAGAAAACCCGTTGAAATAAAAA 59.018 34.615 0.00 0.00 0.00 1.94
598 638 7.169140 CCTCAGAAAACCCGTTGAAATAAAAAG 59.831 37.037 0.00 0.00 0.00 2.27
599 639 7.773149 TCAGAAAACCCGTTGAAATAAAAAGA 58.227 30.769 0.00 0.00 0.00 2.52
600 640 7.918562 TCAGAAAACCCGTTGAAATAAAAAGAG 59.081 33.333 0.00 0.00 0.00 2.85
601 641 6.700081 AGAAAACCCGTTGAAATAAAAAGAGC 59.300 34.615 0.00 0.00 0.00 4.09
602 642 5.784578 AACCCGTTGAAATAAAAAGAGCT 57.215 34.783 0.00 0.00 0.00 4.09
604 644 4.217767 ACCCGTTGAAATAAAAAGAGCTCC 59.782 41.667 10.93 0.00 0.00 4.70
605 645 4.217550 CCCGTTGAAATAAAAAGAGCTCCA 59.782 41.667 10.93 0.00 0.00 3.86
667 707 5.619607 CAGTCATTTAACGGAACTGTTTTCG 59.380 40.000 13.08 13.08 33.32 3.46
709 787 0.818040 AACGGGTTCGAAGCTGCTTT 60.818 50.000 30.75 18.44 40.11 3.51
710 788 0.818040 ACGGGTTCGAAGCTGCTTTT 60.818 50.000 30.75 12.80 40.11 2.27
711 789 0.310854 CGGGTTCGAAGCTGCTTTTT 59.689 50.000 25.05 0.00 39.00 1.94
735 813 2.028925 CCCAAAACAGCGGGCAAC 59.971 61.111 0.00 0.00 35.09 4.17
752 860 1.002468 CAACGCCAACCAGTGAGAAAG 60.002 52.381 0.00 0.00 0.00 2.62
877 1001 2.243774 ATCGCTCCCTTCTCCTCCCA 62.244 60.000 0.00 0.00 0.00 4.37
879 1003 1.306568 GCTCCCTTCTCCTCCCAGT 60.307 63.158 0.00 0.00 0.00 4.00
880 1004 0.912006 GCTCCCTTCTCCTCCCAGTT 60.912 60.000 0.00 0.00 0.00 3.16
958 1109 3.964875 CCGCAGCAACACCCACAC 61.965 66.667 0.00 0.00 0.00 3.82
959 1110 2.901840 CGCAGCAACACCCACACT 60.902 61.111 0.00 0.00 0.00 3.55
1474 1718 1.597742 AGGATGGAATGGAAATCGCG 58.402 50.000 0.00 0.00 0.00 5.87
1550 1824 2.640826 AGTCGTTCCCCATTTCCAAGTA 59.359 45.455 0.00 0.00 0.00 2.24
1584 1860 4.989279 ATTTTCTGTCCCCAAATCGATG 57.011 40.909 0.00 0.00 0.00 3.84
1605 1881 1.008079 GTTGGCTTCAGTGTGCAGC 60.008 57.895 11.58 7.83 0.00 5.25
1657 1934 1.411977 CAACTGTCAAATGCCCACCAA 59.588 47.619 0.00 0.00 0.00 3.67
1658 1935 1.331214 ACTGTCAAATGCCCACCAAG 58.669 50.000 0.00 0.00 0.00 3.61
1659 1936 1.331214 CTGTCAAATGCCCACCAAGT 58.669 50.000 0.00 0.00 0.00 3.16
1660 1937 1.270550 CTGTCAAATGCCCACCAAGTC 59.729 52.381 0.00 0.00 0.00 3.01
1661 1938 0.603065 GTCAAATGCCCACCAAGTCC 59.397 55.000 0.00 0.00 0.00 3.85
1662 1939 0.187117 TCAAATGCCCACCAAGTCCA 59.813 50.000 0.00 0.00 0.00 4.02
1663 1940 1.203162 TCAAATGCCCACCAAGTCCAT 60.203 47.619 0.00 0.00 0.00 3.41
1664 1941 1.066716 CAAATGCCCACCAAGTCCATG 60.067 52.381 0.00 0.00 0.00 3.66
1665 1942 0.114954 AATGCCCACCAAGTCCATGT 59.885 50.000 0.00 0.00 0.00 3.21
1666 1943 0.612732 ATGCCCACCAAGTCCATGTG 60.613 55.000 0.00 0.00 0.00 3.21
1667 1944 2.639327 GCCCACCAAGTCCATGTGC 61.639 63.158 0.00 0.00 0.00 4.57
1668 1945 1.075482 CCCACCAAGTCCATGTGCT 59.925 57.895 0.00 0.00 0.00 4.40
1670 1947 1.331214 CCACCAAGTCCATGTGCTTT 58.669 50.000 0.00 0.00 0.00 3.51
1671 1948 1.270550 CCACCAAGTCCATGTGCTTTC 59.729 52.381 0.00 0.00 0.00 2.62
1672 1949 2.233271 CACCAAGTCCATGTGCTTTCT 58.767 47.619 0.00 0.00 0.00 2.52
1673 1950 2.624838 CACCAAGTCCATGTGCTTTCTT 59.375 45.455 0.00 0.00 0.00 2.52
1674 1951 2.887152 ACCAAGTCCATGTGCTTTCTTC 59.113 45.455 0.00 0.00 0.00 2.87
1675 1952 2.886523 CCAAGTCCATGTGCTTTCTTCA 59.113 45.455 0.00 0.00 0.00 3.02
1676 1953 3.508793 CCAAGTCCATGTGCTTTCTTCAT 59.491 43.478 0.00 0.00 0.00 2.57
1677 1954 4.482386 CAAGTCCATGTGCTTTCTTCATG 58.518 43.478 0.00 0.00 38.72 3.07
1678 1955 3.759581 AGTCCATGTGCTTTCTTCATGT 58.240 40.909 0.00 0.00 37.73 3.21
1679 1956 4.910195 AGTCCATGTGCTTTCTTCATGTA 58.090 39.130 0.00 0.00 37.73 2.29
1687 1964 5.931724 TGTGCTTTCTTCATGTAGATTCGAA 59.068 36.000 0.00 0.00 0.00 3.71
1709 1986 6.094603 CGAAACTCAGATGAAAATCCCTGAAT 59.905 38.462 0.00 0.00 35.52 2.57
1711 1988 9.129532 GAAACTCAGATGAAAATCCCTGAATAT 57.870 33.333 0.00 0.00 35.52 1.28
1719 1997 2.550830 ATCCCTGAATATCGTGTGCC 57.449 50.000 0.00 0.00 0.00 5.01
1727 2005 2.898729 ATATCGTGTGCCTTCTCCAG 57.101 50.000 0.00 0.00 0.00 3.86
1738 2016 1.407989 CCTTCTCCAGTTCCATGGCTC 60.408 57.143 6.96 2.10 40.41 4.70
1760 2045 8.557029 GGCTCTTAATACATTATTAACTTGCGT 58.443 33.333 0.00 0.00 36.12 5.24
1773 2058 2.154462 ACTTGCGTTCTCCCAATTGAG 58.846 47.619 7.12 0.00 0.00 3.02
1774 2059 2.224523 ACTTGCGTTCTCCCAATTGAGA 60.225 45.455 7.12 0.00 39.58 3.27
1784 2069 6.042638 TCTCCCAATTGAGACTAGTTTCAG 57.957 41.667 15.02 5.40 36.48 3.02
1805 2091 3.530067 GGGATGTGCTGCCCATTC 58.470 61.111 0.00 0.00 44.07 2.67
1806 2092 2.129785 GGGATGTGCTGCCCATTCC 61.130 63.158 6.67 6.67 44.07 3.01
1810 2096 0.260816 ATGTGCTGCCCATTCCAGAT 59.739 50.000 0.00 0.00 32.03 2.90
1826 2112 1.403679 CAGATCCGAGTGTCTGACCTC 59.596 57.143 5.17 10.16 43.50 3.85
1896 2187 4.794169 TGGTTGCTTTCGAAAATAGAAGC 58.206 39.130 12.41 10.93 0.00 3.86
1927 2218 5.708697 TCTGATGCATCTTTGAACTGTGATT 59.291 36.000 26.32 0.00 0.00 2.57
1929 2220 7.065443 TCTGATGCATCTTTGAACTGTGATTAG 59.935 37.037 26.32 10.18 0.00 1.73
1950 2241 0.694771 AGGCAGCTGATTTCTGTGGA 59.305 50.000 20.43 0.00 34.21 4.02
1951 2242 1.284198 AGGCAGCTGATTTCTGTGGAT 59.716 47.619 20.43 0.00 34.21 3.41
1962 2253 7.307870 GCTGATTTCTGTGGATGAACATAGATC 60.308 40.741 0.00 0.00 38.21 2.75
1972 2263 8.200792 GTGGATGAACATAGATCTTTGAGTACT 58.799 37.037 18.61 0.00 0.00 2.73
2004 2300 7.539712 TCTTTTTAATCGTGATAAGGAGCAG 57.460 36.000 0.00 0.00 0.00 4.24
2007 2303 8.780846 TTTTTAATCGTGATAAGGAGCAGTTA 57.219 30.769 0.00 0.00 0.00 2.24
2015 2311 6.961554 CGTGATAAGGAGCAGTTATTTTGTTC 59.038 38.462 0.00 0.00 0.00 3.18
2016 2312 7.360861 CGTGATAAGGAGCAGTTATTTTGTTCA 60.361 37.037 0.00 0.00 0.00 3.18
2020 2326 4.762251 AGGAGCAGTTATTTTGTTCAGGTC 59.238 41.667 0.00 0.00 0.00 3.85
2036 2342 2.093816 CAGGTCTGAGCTGAATGCAGTA 60.094 50.000 27.98 0.00 45.98 2.74
2037 2343 2.770802 AGGTCTGAGCTGAATGCAGTAT 59.229 45.455 8.83 0.00 45.94 2.12
2061 2367 6.484288 TGAAGTTGGAATACATGAACTGGAT 58.516 36.000 0.00 0.00 0.00 3.41
2084 2390 3.057104 TGGAGCTCAAGATGCAAACATTG 60.057 43.478 17.19 0.00 36.35 2.82
2085 2391 3.057033 GGAGCTCAAGATGCAAACATTGT 60.057 43.478 17.19 0.00 36.35 2.71
2096 2402 8.510243 AGATGCAAACATTGTATACTGAATGA 57.490 30.769 18.08 1.61 36.07 2.57
2114 2420 6.487828 TGAATGATGAGATTTCAGGTTTCCT 58.512 36.000 0.00 0.00 36.61 3.36
2128 2434 3.758554 AGGTTTCCTGGAATGATCAAACG 59.241 43.478 10.45 0.00 29.57 3.60
2129 2435 3.756434 GGTTTCCTGGAATGATCAAACGA 59.244 43.478 10.45 0.00 0.00 3.85
2130 2436 4.142600 GGTTTCCTGGAATGATCAAACGAG 60.143 45.833 10.45 3.65 0.00 4.18
2131 2437 3.981071 TCCTGGAATGATCAAACGAGT 57.019 42.857 0.00 0.00 0.00 4.18
2132 2438 5.414789 TTCCTGGAATGATCAAACGAGTA 57.585 39.130 4.68 0.00 0.00 2.59
2133 2439 5.614324 TCCTGGAATGATCAAACGAGTAT 57.386 39.130 0.00 0.00 0.00 2.12
2134 2440 5.359756 TCCTGGAATGATCAAACGAGTATG 58.640 41.667 0.00 0.00 0.00 2.39
2135 2441 5.128663 TCCTGGAATGATCAAACGAGTATGA 59.871 40.000 0.00 0.00 0.00 2.15
2136 2442 5.994054 CCTGGAATGATCAAACGAGTATGAT 59.006 40.000 0.00 0.00 38.93 2.45
2137 2443 6.073385 CCTGGAATGATCAAACGAGTATGATG 60.073 42.308 0.00 0.00 36.45 3.07
2138 2444 6.581712 TGGAATGATCAAACGAGTATGATGA 58.418 36.000 0.00 0.00 36.45 2.92
2139 2445 7.219322 TGGAATGATCAAACGAGTATGATGAT 58.781 34.615 0.00 0.00 36.45 2.45
2140 2446 7.172019 TGGAATGATCAAACGAGTATGATGATG 59.828 37.037 0.00 0.00 36.45 3.07
2141 2447 7.172190 GGAATGATCAAACGAGTATGATGATGT 59.828 37.037 0.00 0.00 36.45 3.06
2142 2448 9.196552 GAATGATCAAACGAGTATGATGATGTA 57.803 33.333 0.00 0.00 36.45 2.29
2143 2449 9.716531 AATGATCAAACGAGTATGATGATGTAT 57.283 29.630 0.00 0.00 36.45 2.29
2144 2450 8.524870 TGATCAAACGAGTATGATGATGTATG 57.475 34.615 0.00 0.00 36.45 2.39
2145 2451 8.359642 TGATCAAACGAGTATGATGATGTATGA 58.640 33.333 0.00 0.00 36.45 2.15
2146 2452 9.196552 GATCAAACGAGTATGATGATGTATGAA 57.803 33.333 0.00 0.00 36.45 2.57
2147 2453 8.352752 TCAAACGAGTATGATGATGTATGAAC 57.647 34.615 0.00 0.00 0.00 3.18
2148 2454 7.978975 TCAAACGAGTATGATGATGTATGAACA 59.021 33.333 0.00 0.00 40.69 3.18
2149 2455 7.936950 AACGAGTATGATGATGTATGAACAG 57.063 36.000 0.00 0.00 39.49 3.16
2150 2456 5.923114 ACGAGTATGATGATGTATGAACAGC 59.077 40.000 0.00 0.00 42.47 4.40
2151 2457 6.155136 CGAGTATGATGATGTATGAACAGCT 58.845 40.000 0.00 0.00 42.60 4.24
2152 2458 7.040409 ACGAGTATGATGATGTATGAACAGCTA 60.040 37.037 0.00 0.00 42.60 3.32
2153 2459 7.484324 CGAGTATGATGATGTATGAACAGCTAG 59.516 40.741 0.00 0.00 42.60 3.42
2154 2460 8.187913 AGTATGATGATGTATGAACAGCTAGT 57.812 34.615 0.00 0.00 42.60 2.57
2155 2461 8.646004 AGTATGATGATGTATGAACAGCTAGTT 58.354 33.333 1.82 1.82 42.60 2.24
2156 2462 9.914131 GTATGATGATGTATGAACAGCTAGTTA 57.086 33.333 2.17 0.00 42.60 2.24
2158 2464 8.011844 TGATGATGTATGAACAGCTAGTTAGT 57.988 34.615 2.17 0.00 42.60 2.24
2159 2465 9.131791 TGATGATGTATGAACAGCTAGTTAGTA 57.868 33.333 2.17 0.00 42.60 1.82
2169 2475 9.419297 TGAACAGCTAGTTAGTATTTACAACTG 57.581 33.333 12.07 0.00 41.51 3.16
2170 2476 8.773404 AACAGCTAGTTAGTATTTACAACTGG 57.227 34.615 12.07 10.87 39.09 4.00
2171 2477 8.130671 ACAGCTAGTTAGTATTTACAACTGGA 57.869 34.615 14.44 1.46 32.85 3.86
2172 2478 8.251721 ACAGCTAGTTAGTATTTACAACTGGAG 58.748 37.037 14.44 10.54 32.85 3.86
2173 2479 8.467598 CAGCTAGTTAGTATTTACAACTGGAGA 58.532 37.037 14.44 0.79 32.85 3.71
2174 2480 9.032624 AGCTAGTTAGTATTTACAACTGGAGAA 57.967 33.333 14.44 0.00 32.85 2.87
2175 2481 9.085250 GCTAGTTAGTATTTACAACTGGAGAAC 57.915 37.037 14.44 0.00 32.85 3.01
2185 2491 2.962882 CTGGAGAACAGTCCGGAGA 58.037 57.895 3.06 0.00 44.92 3.71
2186 2492 1.257743 CTGGAGAACAGTCCGGAGAA 58.742 55.000 3.06 0.00 44.92 2.87
2187 2493 1.618837 CTGGAGAACAGTCCGGAGAAA 59.381 52.381 3.06 0.00 44.92 2.52
2188 2494 2.234908 CTGGAGAACAGTCCGGAGAAAT 59.765 50.000 3.06 0.00 44.92 2.17
2189 2495 2.028112 TGGAGAACAGTCCGGAGAAATG 60.028 50.000 3.06 4.17 39.81 2.32
2190 2496 2.028020 GGAGAACAGTCCGGAGAAATGT 60.028 50.000 3.06 4.91 0.00 2.71
2191 2497 3.557264 GGAGAACAGTCCGGAGAAATGTT 60.557 47.826 18.90 18.90 0.00 2.71
2192 2498 3.403038 AGAACAGTCCGGAGAAATGTTG 58.597 45.455 22.13 8.97 0.00 3.33
2193 2499 3.071023 AGAACAGTCCGGAGAAATGTTGA 59.929 43.478 22.13 0.00 0.00 3.18
2194 2500 3.045601 ACAGTCCGGAGAAATGTTGAG 57.954 47.619 3.06 0.00 0.00 3.02
2195 2501 2.632996 ACAGTCCGGAGAAATGTTGAGA 59.367 45.455 3.06 0.00 0.00 3.27
2196 2502 3.261897 ACAGTCCGGAGAAATGTTGAGAT 59.738 43.478 3.06 0.00 0.00 2.75
2197 2503 4.256920 CAGTCCGGAGAAATGTTGAGATT 58.743 43.478 3.06 0.00 0.00 2.40
2198 2504 4.093998 CAGTCCGGAGAAATGTTGAGATTG 59.906 45.833 3.06 0.00 0.00 2.67
2199 2505 3.375299 GTCCGGAGAAATGTTGAGATTGG 59.625 47.826 3.06 0.00 0.00 3.16
2200 2506 2.684881 CCGGAGAAATGTTGAGATTGGG 59.315 50.000 0.00 0.00 0.00 4.12
2201 2507 2.098117 CGGAGAAATGTTGAGATTGGGC 59.902 50.000 0.00 0.00 0.00 5.36
2202 2508 3.359950 GGAGAAATGTTGAGATTGGGCT 58.640 45.455 0.00 0.00 0.00 5.19
2203 2509 4.526970 GGAGAAATGTTGAGATTGGGCTA 58.473 43.478 0.00 0.00 0.00 3.93
2204 2510 5.136105 GGAGAAATGTTGAGATTGGGCTAT 58.864 41.667 0.00 0.00 0.00 2.97
2205 2511 5.595952 GGAGAAATGTTGAGATTGGGCTATT 59.404 40.000 0.00 0.00 0.00 1.73
2206 2512 6.097412 GGAGAAATGTTGAGATTGGGCTATTT 59.903 38.462 0.00 0.00 0.00 1.40
2207 2513 7.364144 GGAGAAATGTTGAGATTGGGCTATTTT 60.364 37.037 0.00 0.00 0.00 1.82
2208 2514 7.910584 AGAAATGTTGAGATTGGGCTATTTTT 58.089 30.769 0.00 0.00 0.00 1.94
2209 2515 8.037166 AGAAATGTTGAGATTGGGCTATTTTTC 58.963 33.333 0.00 0.00 0.00 2.29
2210 2516 6.855763 ATGTTGAGATTGGGCTATTTTTCA 57.144 33.333 0.00 0.00 0.00 2.69
2211 2517 6.024552 TGTTGAGATTGGGCTATTTTTCAC 57.975 37.500 0.00 0.00 0.00 3.18
2212 2518 4.963276 TGAGATTGGGCTATTTTTCACG 57.037 40.909 0.00 0.00 0.00 4.35
2213 2519 4.584874 TGAGATTGGGCTATTTTTCACGA 58.415 39.130 0.00 0.00 0.00 4.35
2214 2520 5.192927 TGAGATTGGGCTATTTTTCACGAT 58.807 37.500 0.00 0.00 0.00 3.73
2215 2521 5.066375 TGAGATTGGGCTATTTTTCACGATG 59.934 40.000 0.00 0.00 0.00 3.84
2216 2522 4.339247 AGATTGGGCTATTTTTCACGATGG 59.661 41.667 0.00 0.00 0.00 3.51
2217 2523 1.748493 TGGGCTATTTTTCACGATGGC 59.252 47.619 0.00 0.00 0.00 4.40
2218 2524 1.748493 GGGCTATTTTTCACGATGGCA 59.252 47.619 0.00 0.00 32.12 4.92
2219 2525 2.479560 GGGCTATTTTTCACGATGGCAC 60.480 50.000 0.00 0.00 32.12 5.01
2233 2539 4.962836 GCACAGTGGCAGCACCCT 62.963 66.667 1.84 0.00 37.83 4.34
2234 2540 2.203394 CACAGTGGCAGCACCCTT 60.203 61.111 0.00 0.00 37.83 3.95
2235 2541 2.203394 ACAGTGGCAGCACCCTTG 60.203 61.111 0.00 0.00 37.83 3.61
2236 2542 2.203394 CAGTGGCAGCACCCTTGT 60.203 61.111 0.00 0.00 37.83 3.16
2237 2543 1.073025 CAGTGGCAGCACCCTTGTA 59.927 57.895 0.00 0.00 37.83 2.41
2238 2544 1.073199 AGTGGCAGCACCCTTGTAC 59.927 57.895 0.00 0.00 37.83 2.90
2239 2545 1.228124 GTGGCAGCACCCTTGTACA 60.228 57.895 0.00 0.00 37.83 2.90
2240 2546 0.609131 GTGGCAGCACCCTTGTACAT 60.609 55.000 0.00 0.00 37.83 2.29
2241 2547 0.112218 TGGCAGCACCCTTGTACATT 59.888 50.000 0.00 0.00 37.83 2.71
2242 2548 1.256812 GGCAGCACCCTTGTACATTT 58.743 50.000 0.00 0.00 0.00 2.32
2243 2549 1.618343 GGCAGCACCCTTGTACATTTT 59.382 47.619 0.00 0.00 0.00 1.82
2244 2550 2.610232 GGCAGCACCCTTGTACATTTTG 60.610 50.000 0.00 0.00 0.00 2.44
2245 2551 2.676076 CAGCACCCTTGTACATTTTGC 58.324 47.619 0.00 3.81 0.00 3.68
2246 2552 2.035704 CAGCACCCTTGTACATTTTGCA 59.964 45.455 16.84 0.00 0.00 4.08
2247 2553 2.697751 AGCACCCTTGTACATTTTGCAA 59.302 40.909 16.84 0.00 0.00 4.08
2248 2554 2.799978 GCACCCTTGTACATTTTGCAAC 59.200 45.455 0.00 0.00 0.00 4.17
2249 2555 3.492482 GCACCCTTGTACATTTTGCAACT 60.492 43.478 0.00 0.00 0.00 3.16
2250 2556 4.298332 CACCCTTGTACATTTTGCAACTC 58.702 43.478 0.00 0.00 0.00 3.01
2251 2557 3.320826 ACCCTTGTACATTTTGCAACTCC 59.679 43.478 0.00 0.00 0.00 3.85
2252 2558 3.320541 CCCTTGTACATTTTGCAACTCCA 59.679 43.478 0.00 0.00 0.00 3.86
2253 2559 4.549458 CCTTGTACATTTTGCAACTCCAG 58.451 43.478 0.00 0.00 0.00 3.86
2254 2560 4.037923 CCTTGTACATTTTGCAACTCCAGT 59.962 41.667 0.00 0.00 0.00 4.00
2255 2561 5.240623 CCTTGTACATTTTGCAACTCCAGTA 59.759 40.000 0.00 0.00 0.00 2.74
2256 2562 5.682943 TGTACATTTTGCAACTCCAGTAC 57.317 39.130 0.00 8.97 33.20 2.73
2257 2563 4.517453 TGTACATTTTGCAACTCCAGTACC 59.483 41.667 17.13 6.76 31.97 3.34
2258 2564 3.832527 ACATTTTGCAACTCCAGTACCT 58.167 40.909 0.00 0.00 0.00 3.08
2259 2565 4.215109 ACATTTTGCAACTCCAGTACCTT 58.785 39.130 0.00 0.00 0.00 3.50
2260 2566 4.649218 ACATTTTGCAACTCCAGTACCTTT 59.351 37.500 0.00 0.00 0.00 3.11
2261 2567 5.830991 ACATTTTGCAACTCCAGTACCTTTA 59.169 36.000 0.00 0.00 0.00 1.85
2262 2568 6.016276 ACATTTTGCAACTCCAGTACCTTTAG 60.016 38.462 0.00 0.00 0.00 1.85
2263 2569 4.967084 TTGCAACTCCAGTACCTTTAGA 57.033 40.909 0.00 0.00 0.00 2.10
2264 2570 4.267349 TGCAACTCCAGTACCTTTAGAC 57.733 45.455 0.00 0.00 0.00 2.59
2265 2571 3.644265 TGCAACTCCAGTACCTTTAGACA 59.356 43.478 0.00 0.00 0.00 3.41
2266 2572 4.286032 TGCAACTCCAGTACCTTTAGACAT 59.714 41.667 0.00 0.00 0.00 3.06
2267 2573 5.221843 TGCAACTCCAGTACCTTTAGACATT 60.222 40.000 0.00 0.00 0.00 2.71
2268 2574 6.014070 TGCAACTCCAGTACCTTTAGACATTA 60.014 38.462 0.00 0.00 0.00 1.90
2269 2575 6.877322 GCAACTCCAGTACCTTTAGACATTAA 59.123 38.462 0.00 0.00 0.00 1.40
2270 2576 7.148457 GCAACTCCAGTACCTTTAGACATTAAC 60.148 40.741 0.00 0.00 0.00 2.01
2271 2577 7.549147 ACTCCAGTACCTTTAGACATTAACA 57.451 36.000 0.00 0.00 0.00 2.41
2272 2578 7.970102 ACTCCAGTACCTTTAGACATTAACAA 58.030 34.615 0.00 0.00 0.00 2.83
2273 2579 8.434392 ACTCCAGTACCTTTAGACATTAACAAA 58.566 33.333 0.00 0.00 0.00 2.83
2274 2580 8.842358 TCCAGTACCTTTAGACATTAACAAAG 57.158 34.615 0.00 0.00 0.00 2.77
2275 2581 8.653191 TCCAGTACCTTTAGACATTAACAAAGA 58.347 33.333 0.00 0.00 31.11 2.52
2276 2582 9.449719 CCAGTACCTTTAGACATTAACAAAGAT 57.550 33.333 0.00 0.00 31.11 2.40
2288 2594 9.844790 GACATTAACAAAGATGATTCATTGTCA 57.155 29.630 13.52 3.29 41.55 3.58
2294 2600 9.811995 AACAAAGATGATTCATTGTCATATTGG 57.188 29.630 0.00 7.34 41.55 3.16
2295 2601 7.924412 ACAAAGATGATTCATTGTCATATTGGC 59.076 33.333 0.00 0.00 38.98 4.52
2296 2602 7.591421 AAGATGATTCATTGTCATATTGGCA 57.409 32.000 0.00 0.00 36.48 4.92
2297 2603 7.591421 AGATGATTCATTGTCATATTGGCAA 57.409 32.000 0.68 0.68 46.79 4.52
2298 2604 7.431249 AGATGATTCATTGTCATATTGGCAAC 58.569 34.615 0.00 0.00 45.47 4.17
2299 2605 6.527057 TGATTCATTGTCATATTGGCAACA 57.473 33.333 0.00 0.00 45.47 3.33
2300 2606 7.732025 ATGATTCATTGTCATATTGGCAACAT 58.268 30.769 0.00 0.00 45.47 2.71
2301 2607 8.862085 ATGATTCATTGTCATATTGGCAACATA 58.138 29.630 0.00 0.00 45.47 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 8.764287 CCCATCAACAGTAAAACAATTTTTCTC 58.236 33.333 0.00 0.00 36.32 2.87
79 80 4.155826 TCTCCAAATATGTTCGTTTGCCAG 59.844 41.667 0.00 0.00 34.75 4.85
117 118 4.804108 TGGTTGCATTGTTAGATTTTCGG 58.196 39.130 0.00 0.00 0.00 4.30
131 132 2.283298 CATCTTACGCTCTGGTTGCAT 58.717 47.619 0.00 0.00 0.00 3.96
132 133 1.675714 CCATCTTACGCTCTGGTTGCA 60.676 52.381 0.00 0.00 0.00 4.08
139 140 1.473965 CCATGCACCATCTTACGCTCT 60.474 52.381 0.00 0.00 0.00 4.09
145 146 2.764010 ACTCGTACCATGCACCATCTTA 59.236 45.455 0.00 0.00 0.00 2.10
295 297 6.245408 ACACAAAAACTAATATCTGCTCCCA 58.755 36.000 0.00 0.00 0.00 4.37
387 390 6.931281 TGGACCAAATTTAAATTCATGCGAAA 59.069 30.769 13.68 0.00 34.01 3.46
391 394 7.491048 ACGTATGGACCAAATTTAAATTCATGC 59.509 33.333 13.68 13.37 0.00 4.06
415 418 8.499162 TGGCAATTTTCCATACATTTTAAAACG 58.501 29.630 1.97 0.00 0.00 3.60
529 558 7.339721 TCCTGTGTTTGTTTATTGGTTTGTCTA 59.660 33.333 0.00 0.00 0.00 2.59
564 603 0.881796 GGTTTTCTGAGGCTTTCGGG 59.118 55.000 0.00 0.00 32.69 5.14
573 612 7.918562 TCTTTTTATTTCAACGGGTTTTCTGAG 59.081 33.333 0.00 0.00 0.00 3.35
577 616 6.700081 AGCTCTTTTTATTTCAACGGGTTTTC 59.300 34.615 0.00 0.00 0.00 2.29
618 658 9.241919 TGGCTCATGTAAAGATTCTATTTCAAA 57.758 29.630 0.00 0.00 0.00 2.69
622 662 8.049117 TGACTGGCTCATGTAAAGATTCTATTT 58.951 33.333 0.00 0.00 0.00 1.40
689 767 0.034337 AAGCAGCTTCGAACCCGTTA 59.966 50.000 0.21 0.00 37.05 3.18
709 787 0.179070 GCTGTTTTGGGCCCGAAAAA 60.179 50.000 34.62 29.23 31.84 1.94
710 788 1.443828 GCTGTTTTGGGCCCGAAAA 59.556 52.632 34.62 27.14 31.84 2.29
711 789 2.851071 CGCTGTTTTGGGCCCGAAA 61.851 57.895 30.45 30.45 0.00 3.46
712 790 3.291383 CGCTGTTTTGGGCCCGAA 61.291 61.111 21.60 21.60 0.00 4.30
733 811 1.308998 CTTTCTCACTGGTTGGCGTT 58.691 50.000 0.00 0.00 0.00 4.84
735 813 1.165907 TGCTTTCTCACTGGTTGGCG 61.166 55.000 0.00 0.00 0.00 5.69
737 845 1.334869 GTGTGCTTTCTCACTGGTTGG 59.665 52.381 0.00 0.00 37.81 3.77
877 1001 5.298347 GGATTTATAGCTGCGAGGTTAACT 58.702 41.667 5.42 0.00 0.00 2.24
879 1003 4.504340 GGGGATTTATAGCTGCGAGGTTAA 60.504 45.833 0.00 0.00 0.00 2.01
880 1004 3.007614 GGGGATTTATAGCTGCGAGGTTA 59.992 47.826 0.00 0.00 0.00 2.85
951 1102 1.348036 GGCTTCTCTGTAAGTGTGGGT 59.652 52.381 0.00 0.00 33.76 4.51
952 1103 1.347707 TGGCTTCTCTGTAAGTGTGGG 59.652 52.381 0.00 0.00 33.76 4.61
957 1108 3.677424 GCGAGATTGGCTTCTCTGTAAGT 60.677 47.826 13.59 0.00 40.03 2.24
958 1109 2.863137 GCGAGATTGGCTTCTCTGTAAG 59.137 50.000 13.59 0.00 40.03 2.34
959 1110 2.418746 GGCGAGATTGGCTTCTCTGTAA 60.419 50.000 13.59 0.00 40.03 2.41
1550 1824 4.631813 GGACAGAAAATTACAGCGACAGAT 59.368 41.667 0.00 0.00 0.00 2.90
1584 1860 1.360192 GCACACTGAAGCCAACACC 59.640 57.895 0.00 0.00 0.00 4.16
1605 1881 0.460987 GCAGGGATGGTTCGACTCTG 60.461 60.000 0.00 0.00 0.00 3.35
1657 1934 3.759581 ACATGAAGAAAGCACATGGACT 58.240 40.909 0.00 0.00 43.55 3.85
1658 1935 4.937620 TCTACATGAAGAAAGCACATGGAC 59.062 41.667 0.00 0.00 43.55 4.02
1659 1936 5.164620 TCTACATGAAGAAAGCACATGGA 57.835 39.130 0.00 0.00 43.55 3.41
1660 1937 6.446781 AATCTACATGAAGAAAGCACATGG 57.553 37.500 0.00 0.00 43.55 3.66
1661 1938 6.036408 TCGAATCTACATGAAGAAAGCACATG 59.964 38.462 0.00 0.00 44.42 3.21
1662 1939 6.108687 TCGAATCTACATGAAGAAAGCACAT 58.891 36.000 0.00 0.00 0.00 3.21
1663 1940 5.478407 TCGAATCTACATGAAGAAAGCACA 58.522 37.500 0.00 0.00 0.00 4.57
1664 1941 6.408858 TTCGAATCTACATGAAGAAAGCAC 57.591 37.500 0.00 0.00 0.00 4.40
1665 1942 6.650807 AGTTTCGAATCTACATGAAGAAAGCA 59.349 34.615 6.96 0.00 32.05 3.91
1666 1943 7.066374 AGTTTCGAATCTACATGAAGAAAGC 57.934 36.000 6.96 0.00 32.05 3.51
1667 1944 8.244494 TGAGTTTCGAATCTACATGAAGAAAG 57.756 34.615 8.69 0.00 32.05 2.62
1668 1945 8.088365 TCTGAGTTTCGAATCTACATGAAGAAA 58.912 33.333 8.69 0.00 0.00 2.52
1670 1947 7.158099 TCTGAGTTTCGAATCTACATGAAGA 57.842 36.000 8.69 3.81 0.00 2.87
1671 1948 7.704047 TCATCTGAGTTTCGAATCTACATGAAG 59.296 37.037 8.69 3.50 0.00 3.02
1672 1949 7.547227 TCATCTGAGTTTCGAATCTACATGAA 58.453 34.615 8.69 1.37 0.00 2.57
1673 1950 7.100458 TCATCTGAGTTTCGAATCTACATGA 57.900 36.000 8.69 12.32 0.00 3.07
1674 1951 7.761651 TTCATCTGAGTTTCGAATCTACATG 57.238 36.000 8.69 10.58 0.00 3.21
1675 1952 8.777865 TTTTCATCTGAGTTTCGAATCTACAT 57.222 30.769 8.69 0.00 0.00 2.29
1676 1953 8.777865 ATTTTCATCTGAGTTTCGAATCTACA 57.222 30.769 8.69 8.03 0.00 2.74
1677 1954 8.331742 GGATTTTCATCTGAGTTTCGAATCTAC 58.668 37.037 8.69 0.00 0.00 2.59
1678 1955 7.495934 GGGATTTTCATCTGAGTTTCGAATCTA 59.504 37.037 8.69 0.00 0.00 1.98
1679 1956 6.317391 GGGATTTTCATCTGAGTTTCGAATCT 59.683 38.462 8.46 8.46 0.00 2.40
1687 1964 7.443575 CGATATTCAGGGATTTTCATCTGAGTT 59.556 37.037 0.00 0.00 37.52 3.01
1709 1986 1.557099 ACTGGAGAAGGCACACGATA 58.443 50.000 0.00 0.00 0.00 2.92
1711 1988 0.033504 GAACTGGAGAAGGCACACGA 59.966 55.000 0.00 0.00 0.00 4.35
1719 1997 1.558756 AGAGCCATGGAACTGGAGAAG 59.441 52.381 18.40 0.00 38.69 2.85
1758 2043 4.457834 ACTAGTCTCAATTGGGAGAACG 57.542 45.455 8.69 0.36 44.98 3.95
1760 2045 6.270000 TCTGAAACTAGTCTCAATTGGGAGAA 59.730 38.462 8.69 0.00 44.98 2.87
1764 2049 6.150140 CCTTTCTGAAACTAGTCTCAATTGGG 59.850 42.308 5.42 1.15 0.00 4.12
1773 2058 4.393371 GCACATCCCTTTCTGAAACTAGTC 59.607 45.833 0.00 0.00 0.00 2.59
1774 2059 4.042187 AGCACATCCCTTTCTGAAACTAGT 59.958 41.667 0.00 0.00 0.00 2.57
1784 2069 0.685458 ATGGGCAGCACATCCCTTTC 60.685 55.000 3.53 0.00 43.04 2.62
1805 2091 0.457851 GGTCAGACACTCGGATCTGG 59.542 60.000 2.17 0.00 42.25 3.86
1806 2092 1.403679 GAGGTCAGACACTCGGATCTG 59.596 57.143 2.17 0.00 43.16 2.90
1810 2096 0.959553 GTTGAGGTCAGACACTCGGA 59.040 55.000 2.17 0.00 36.53 4.55
1826 2112 4.852134 TCCCATCACAGTTCAAATGTTG 57.148 40.909 0.00 0.00 0.00 3.33
1876 2167 5.565638 GTCAGCTTCTATTTTCGAAAGCAAC 59.434 40.000 17.03 11.57 0.00 4.17
1880 2171 5.862924 TGGTCAGCTTCTATTTTCGAAAG 57.137 39.130 10.98 0.00 0.00 2.62
1896 2187 4.196971 TCAAAGATGCATCAGATGGTCAG 58.803 43.478 27.81 7.58 0.00 3.51
1927 2218 2.093288 CACAGAAATCAGCTGCCTCCTA 60.093 50.000 9.47 0.00 36.86 2.94
1929 2220 1.093159 CACAGAAATCAGCTGCCTCC 58.907 55.000 9.47 0.00 36.86 4.30
1951 2242 9.462606 TGACTAGTACTCAAAGATCTATGTTCA 57.537 33.333 0.00 0.00 0.00 3.18
1989 2283 6.170506 ACAAAATAACTGCTCCTTATCACGA 58.829 36.000 0.00 0.00 0.00 4.35
2004 2300 5.470098 TCAGCTCAGACCTGAACAAAATAAC 59.530 40.000 1.08 0.00 39.39 1.89
2007 2303 4.090761 TCAGCTCAGACCTGAACAAAAT 57.909 40.909 1.08 0.00 39.39 1.82
2015 2311 1.338864 ACTGCATTCAGCTCAGACCTG 60.339 52.381 6.38 0.00 44.10 4.00
2016 2312 0.982704 ACTGCATTCAGCTCAGACCT 59.017 50.000 6.38 0.00 44.10 3.85
2020 2326 4.190001 ACTTCATACTGCATTCAGCTCAG 58.810 43.478 0.00 0.00 44.10 3.35
2036 2342 6.484288 TCCAGTTCATGTATTCCAACTTCAT 58.516 36.000 0.00 0.00 0.00 2.57
2037 2343 5.875224 TCCAGTTCATGTATTCCAACTTCA 58.125 37.500 0.00 0.00 0.00 3.02
2061 2367 2.585330 TGTTTGCATCTTGAGCTCCAA 58.415 42.857 12.15 3.91 0.00 3.53
2084 2390 9.553064 AACCTGAAATCTCATCATTCAGTATAC 57.447 33.333 12.24 0.00 45.39 1.47
2114 2420 6.581712 TCATCATACTCGTTTGATCATTCCA 58.418 36.000 0.00 0.00 30.62 3.53
2115 2421 7.172190 ACATCATCATACTCGTTTGATCATTCC 59.828 37.037 0.00 0.00 30.62 3.01
2116 2422 8.081208 ACATCATCATACTCGTTTGATCATTC 57.919 34.615 0.00 0.00 30.62 2.67
2117 2423 9.716531 ATACATCATCATACTCGTTTGATCATT 57.283 29.630 0.00 0.00 30.62 2.57
2118 2424 9.148104 CATACATCATCATACTCGTTTGATCAT 57.852 33.333 0.00 0.00 30.62 2.45
2119 2425 8.359642 TCATACATCATCATACTCGTTTGATCA 58.640 33.333 0.00 0.00 30.62 2.92
2120 2426 8.748380 TCATACATCATCATACTCGTTTGATC 57.252 34.615 0.87 0.00 30.62 2.92
2121 2427 8.982685 GTTCATACATCATCATACTCGTTTGAT 58.017 33.333 0.00 0.00 32.71 2.57
2122 2428 7.978975 TGTTCATACATCATCATACTCGTTTGA 59.021 33.333 0.00 0.00 0.00 2.69
2123 2429 8.130307 TGTTCATACATCATCATACTCGTTTG 57.870 34.615 0.00 0.00 0.00 2.93
2124 2430 7.042456 GCTGTTCATACATCATCATACTCGTTT 60.042 37.037 0.00 0.00 32.86 3.60
2125 2431 6.422100 GCTGTTCATACATCATCATACTCGTT 59.578 38.462 0.00 0.00 32.86 3.85
2126 2432 5.923114 GCTGTTCATACATCATCATACTCGT 59.077 40.000 0.00 0.00 32.86 4.18
2127 2433 6.155136 AGCTGTTCATACATCATCATACTCG 58.845 40.000 0.00 0.00 32.86 4.18
2128 2434 8.303156 ACTAGCTGTTCATACATCATCATACTC 58.697 37.037 0.00 0.00 32.86 2.59
2129 2435 8.187913 ACTAGCTGTTCATACATCATCATACT 57.812 34.615 0.00 0.00 32.86 2.12
2130 2436 8.824159 AACTAGCTGTTCATACATCATCATAC 57.176 34.615 0.00 0.00 32.63 2.39
2132 2438 8.646004 ACTAACTAGCTGTTCATACATCATCAT 58.354 33.333 0.00 0.00 39.89 2.45
2133 2439 8.011844 ACTAACTAGCTGTTCATACATCATCA 57.988 34.615 0.00 0.00 39.89 3.07
2143 2449 9.419297 CAGTTGTAAATACTAACTAGCTGTTCA 57.581 33.333 0.00 0.00 39.89 3.18
2144 2450 8.870879 CCAGTTGTAAATACTAACTAGCTGTTC 58.129 37.037 0.00 0.00 39.89 3.18
2145 2451 8.591072 TCCAGTTGTAAATACTAACTAGCTGTT 58.409 33.333 0.00 1.32 42.31 3.16
2146 2452 8.130671 TCCAGTTGTAAATACTAACTAGCTGT 57.869 34.615 0.00 0.00 33.63 4.40
2147 2453 8.467598 TCTCCAGTTGTAAATACTAACTAGCTG 58.532 37.037 0.00 0.00 33.63 4.24
2148 2454 8.591114 TCTCCAGTTGTAAATACTAACTAGCT 57.409 34.615 0.00 0.00 33.63 3.32
2149 2455 9.085250 GTTCTCCAGTTGTAAATACTAACTAGC 57.915 37.037 0.00 0.00 33.63 3.42
2168 2474 1.712056 TTTCTCCGGACTGTTCTCCA 58.288 50.000 0.00 0.00 0.00 3.86
2169 2475 2.028020 ACATTTCTCCGGACTGTTCTCC 60.028 50.000 0.00 0.00 0.00 3.71
2170 2476 3.320673 ACATTTCTCCGGACTGTTCTC 57.679 47.619 0.00 0.00 0.00 2.87
2171 2477 3.071023 TCAACATTTCTCCGGACTGTTCT 59.929 43.478 0.00 0.00 30.14 3.01
2172 2478 3.399330 TCAACATTTCTCCGGACTGTTC 58.601 45.455 0.00 0.00 30.14 3.18
2173 2479 3.071023 TCTCAACATTTCTCCGGACTGTT 59.929 43.478 0.00 5.59 31.68 3.16
2174 2480 2.632996 TCTCAACATTTCTCCGGACTGT 59.367 45.455 0.00 0.00 0.00 3.55
2175 2481 3.319137 TCTCAACATTTCTCCGGACTG 57.681 47.619 0.00 0.00 0.00 3.51
2176 2482 4.256920 CAATCTCAACATTTCTCCGGACT 58.743 43.478 0.00 0.00 0.00 3.85
2177 2483 3.375299 CCAATCTCAACATTTCTCCGGAC 59.625 47.826 0.00 0.00 0.00 4.79
2178 2484 3.609853 CCAATCTCAACATTTCTCCGGA 58.390 45.455 2.93 2.93 0.00 5.14
2179 2485 2.684881 CCCAATCTCAACATTTCTCCGG 59.315 50.000 0.00 0.00 0.00 5.14
2180 2486 2.098117 GCCCAATCTCAACATTTCTCCG 59.902 50.000 0.00 0.00 0.00 4.63
2181 2487 3.359950 AGCCCAATCTCAACATTTCTCC 58.640 45.455 0.00 0.00 0.00 3.71
2182 2488 6.705863 AATAGCCCAATCTCAACATTTCTC 57.294 37.500 0.00 0.00 0.00 2.87
2183 2489 7.486407 AAAATAGCCCAATCTCAACATTTCT 57.514 32.000 0.00 0.00 0.00 2.52
2184 2490 7.818930 TGAAAAATAGCCCAATCTCAACATTTC 59.181 33.333 0.00 0.00 0.00 2.17
2185 2491 7.603784 GTGAAAAATAGCCCAATCTCAACATTT 59.396 33.333 0.00 0.00 0.00 2.32
2186 2492 7.099120 GTGAAAAATAGCCCAATCTCAACATT 58.901 34.615 0.00 0.00 0.00 2.71
2187 2493 6.625740 CGTGAAAAATAGCCCAATCTCAACAT 60.626 38.462 0.00 0.00 0.00 2.71
2188 2494 5.335583 CGTGAAAAATAGCCCAATCTCAACA 60.336 40.000 0.00 0.00 0.00 3.33
2189 2495 5.095490 CGTGAAAAATAGCCCAATCTCAAC 58.905 41.667 0.00 0.00 0.00 3.18
2190 2496 5.007034 TCGTGAAAAATAGCCCAATCTCAA 58.993 37.500 0.00 0.00 0.00 3.02
2191 2497 4.584874 TCGTGAAAAATAGCCCAATCTCA 58.415 39.130 0.00 0.00 0.00 3.27
2192 2498 5.506317 CCATCGTGAAAAATAGCCCAATCTC 60.506 44.000 0.00 0.00 0.00 2.75
2193 2499 4.339247 CCATCGTGAAAAATAGCCCAATCT 59.661 41.667 0.00 0.00 0.00 2.40
2194 2500 4.610945 CCATCGTGAAAAATAGCCCAATC 58.389 43.478 0.00 0.00 0.00 2.67
2195 2501 3.181476 GCCATCGTGAAAAATAGCCCAAT 60.181 43.478 0.00 0.00 0.00 3.16
2196 2502 2.165437 GCCATCGTGAAAAATAGCCCAA 59.835 45.455 0.00 0.00 0.00 4.12
2197 2503 1.748493 GCCATCGTGAAAAATAGCCCA 59.252 47.619 0.00 0.00 0.00 5.36
2198 2504 1.748493 TGCCATCGTGAAAAATAGCCC 59.252 47.619 0.00 0.00 0.00 5.19
2199 2505 2.163412 TGTGCCATCGTGAAAAATAGCC 59.837 45.455 0.00 0.00 0.00 3.93
2200 2506 3.119849 ACTGTGCCATCGTGAAAAATAGC 60.120 43.478 0.00 0.00 0.00 2.97
2201 2507 4.406069 CACTGTGCCATCGTGAAAAATAG 58.594 43.478 0.00 0.00 0.00 1.73
2202 2508 3.190327 CCACTGTGCCATCGTGAAAAATA 59.810 43.478 1.29 0.00 0.00 1.40
2203 2509 2.030007 CCACTGTGCCATCGTGAAAAAT 60.030 45.455 1.29 0.00 0.00 1.82
2204 2510 1.336440 CCACTGTGCCATCGTGAAAAA 59.664 47.619 1.29 0.00 0.00 1.94
2205 2511 0.950836 CCACTGTGCCATCGTGAAAA 59.049 50.000 1.29 0.00 0.00 2.29
2206 2512 1.514678 GCCACTGTGCCATCGTGAAA 61.515 55.000 1.29 0.00 0.00 2.69
2207 2513 1.965930 GCCACTGTGCCATCGTGAA 60.966 57.895 1.29 0.00 0.00 3.18
2208 2514 2.358615 GCCACTGTGCCATCGTGA 60.359 61.111 1.29 0.00 0.00 4.35
2209 2515 2.669229 TGCCACTGTGCCATCGTG 60.669 61.111 1.29 0.00 0.00 4.35
2210 2516 2.359107 CTGCCACTGTGCCATCGT 60.359 61.111 1.29 0.00 0.00 3.73
2211 2517 3.807538 GCTGCCACTGTGCCATCG 61.808 66.667 1.29 0.00 0.00 3.84
2212 2518 2.674033 TGCTGCCACTGTGCCATC 60.674 61.111 1.29 0.00 0.00 3.51
2213 2519 2.987547 GTGCTGCCACTGTGCCAT 60.988 61.111 1.29 0.00 38.93 4.40
2216 2522 4.962836 AGGGTGCTGCCACTGTGC 62.963 66.667 1.29 0.00 41.75 4.57
2217 2523 2.203394 AAGGGTGCTGCCACTGTG 60.203 61.111 0.00 0.00 41.75 3.66
2218 2524 1.705002 TACAAGGGTGCTGCCACTGT 61.705 55.000 0.00 5.22 41.75 3.55
2219 2525 1.073025 TACAAGGGTGCTGCCACTG 59.927 57.895 0.00 0.10 41.75 3.66
2220 2526 1.073199 GTACAAGGGTGCTGCCACT 59.927 57.895 0.00 0.00 41.75 4.00
2221 2527 0.609131 ATGTACAAGGGTGCTGCCAC 60.609 55.000 0.00 0.00 41.32 5.01
2222 2528 0.112218 AATGTACAAGGGTGCTGCCA 59.888 50.000 0.00 0.00 39.65 4.92
2223 2529 1.256812 AAATGTACAAGGGTGCTGCC 58.743 50.000 0.00 0.00 0.00 4.85
2224 2530 2.676076 CAAAATGTACAAGGGTGCTGC 58.324 47.619 0.00 0.00 0.00 5.25
2225 2531 2.035704 TGCAAAATGTACAAGGGTGCTG 59.964 45.455 18.86 5.40 0.00 4.41
2226 2532 2.315176 TGCAAAATGTACAAGGGTGCT 58.685 42.857 18.86 0.00 0.00 4.40
2227 2533 2.799978 GTTGCAAAATGTACAAGGGTGC 59.200 45.455 0.00 8.34 0.00 5.01
2228 2534 4.298332 GAGTTGCAAAATGTACAAGGGTG 58.702 43.478 0.00 0.00 0.00 4.61
2229 2535 3.320826 GGAGTTGCAAAATGTACAAGGGT 59.679 43.478 0.00 0.00 0.00 4.34
2230 2536 3.320541 TGGAGTTGCAAAATGTACAAGGG 59.679 43.478 0.00 0.00 0.00 3.95
2231 2537 4.037923 ACTGGAGTTGCAAAATGTACAAGG 59.962 41.667 0.00 0.00 0.00 3.61
2232 2538 5.186996 ACTGGAGTTGCAAAATGTACAAG 57.813 39.130 0.00 0.00 0.00 3.16
2233 2539 5.009210 GGTACTGGAGTTGCAAAATGTACAA 59.991 40.000 20.47 0.00 33.05 2.41
2234 2540 4.517453 GGTACTGGAGTTGCAAAATGTACA 59.483 41.667 20.47 0.00 33.05 2.90
2235 2541 4.760204 AGGTACTGGAGTTGCAAAATGTAC 59.240 41.667 0.00 10.22 37.18 2.90
2236 2542 4.980573 AGGTACTGGAGTTGCAAAATGTA 58.019 39.130 0.00 0.00 37.18 2.29
2237 2543 3.832527 AGGTACTGGAGTTGCAAAATGT 58.167 40.909 0.00 0.00 37.18 2.71
2238 2544 4.853924 AAGGTACTGGAGTTGCAAAATG 57.146 40.909 0.00 0.00 40.86 2.32
2239 2545 6.206829 GTCTAAAGGTACTGGAGTTGCAAAAT 59.793 38.462 0.00 0.00 40.86 1.82
2240 2546 5.529800 GTCTAAAGGTACTGGAGTTGCAAAA 59.470 40.000 0.00 0.00 40.86 2.44
2241 2547 5.061179 GTCTAAAGGTACTGGAGTTGCAAA 58.939 41.667 0.00 0.00 40.86 3.68
2242 2548 4.101898 TGTCTAAAGGTACTGGAGTTGCAA 59.898 41.667 0.00 0.00 40.86 4.08
2243 2549 3.644265 TGTCTAAAGGTACTGGAGTTGCA 59.356 43.478 0.00 0.00 40.86 4.08
2244 2550 4.267349 TGTCTAAAGGTACTGGAGTTGC 57.733 45.455 0.00 0.00 40.86 4.17
2245 2551 7.876068 TGTTAATGTCTAAAGGTACTGGAGTTG 59.124 37.037 0.00 0.00 40.86 3.16
2246 2552 7.970102 TGTTAATGTCTAAAGGTACTGGAGTT 58.030 34.615 0.00 0.00 40.86 3.01
2247 2553 7.549147 TGTTAATGTCTAAAGGTACTGGAGT 57.451 36.000 0.00 0.00 40.86 3.85
2248 2554 8.842358 TTTGTTAATGTCTAAAGGTACTGGAG 57.158 34.615 0.00 0.00 40.86 3.86
2249 2555 8.653191 TCTTTGTTAATGTCTAAAGGTACTGGA 58.347 33.333 0.00 0.00 40.86 3.86
2250 2556 8.842358 TCTTTGTTAATGTCTAAAGGTACTGG 57.158 34.615 0.00 0.00 40.86 4.00
2270 2576 7.923878 TGCCAATATGACAATGAATCATCTTTG 59.076 33.333 0.00 0.00 43.05 2.77
2271 2577 8.014070 TGCCAATATGACAATGAATCATCTTT 57.986 30.769 0.00 0.00 37.89 2.52
2272 2578 7.591421 TGCCAATATGACAATGAATCATCTT 57.409 32.000 0.00 0.00 37.89 2.40
2273 2579 7.068962 TGTTGCCAATATGACAATGAATCATCT 59.931 33.333 0.00 0.00 37.89 2.90
2274 2580 7.204604 TGTTGCCAATATGACAATGAATCATC 58.795 34.615 0.00 0.00 37.89 2.92
2275 2581 7.114866 TGTTGCCAATATGACAATGAATCAT 57.885 32.000 0.00 0.00 40.02 2.45
2276 2582 6.527057 TGTTGCCAATATGACAATGAATCA 57.473 33.333 0.00 0.00 0.00 2.57
2277 2583 9.350357 GATATGTTGCCAATATGACAATGAATC 57.650 33.333 0.00 0.00 0.00 2.52
2278 2584 8.862085 TGATATGTTGCCAATATGACAATGAAT 58.138 29.630 0.00 0.00 0.00 2.57
2279 2585 8.235359 TGATATGTTGCCAATATGACAATGAA 57.765 30.769 0.00 0.00 0.00 2.57
2280 2586 7.820578 TGATATGTTGCCAATATGACAATGA 57.179 32.000 0.00 0.00 0.00 2.57
2281 2587 8.520351 AGATGATATGTTGCCAATATGACAATG 58.480 33.333 0.00 0.00 0.00 2.82
2282 2588 8.520351 CAGATGATATGTTGCCAATATGACAAT 58.480 33.333 0.00 0.00 0.00 2.71
2283 2589 7.040271 CCAGATGATATGTTGCCAATATGACAA 60.040 37.037 0.00 0.00 0.00 3.18
2284 2590 6.431852 CCAGATGATATGTTGCCAATATGACA 59.568 38.462 0.00 0.00 0.00 3.58
2285 2591 6.656270 TCCAGATGATATGTTGCCAATATGAC 59.344 38.462 0.00 0.00 0.00 3.06
2286 2592 6.781943 TCCAGATGATATGTTGCCAATATGA 58.218 36.000 0.00 0.00 0.00 2.15
2287 2593 7.457024 TTCCAGATGATATGTTGCCAATATG 57.543 36.000 0.00 0.00 0.00 1.78


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

AutoCloner maintained by Alex Coulton.