Multiple sequence alignment - TraesCS4A01G199100

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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 TraesCS4A01G199100 chr4A 100.000 2753 0 0 1 2753 485710243 485707491 0.000000e+00 5084.0
1 TraesCS4A01G199100 chr4A 88.636 176 8 1 2141 2316 485691986 485691823 1.290000e-48 204.0
2 TraesCS4A01G199100 chr4D 94.158 1472 60 15 552 2004 94696226 94697690 0.000000e+00 2218.0
3 TraesCS4A01G199100 chr4B 92.033 1456 66 22 553 2004 134046356 134047765 0.000000e+00 2001.0
4 TraesCS4A01G199100 chr7A 91.694 614 48 2 2141 2753 110847198 110846587 0.000000e+00 848.0
5 TraesCS4A01G199100 chr7A 89.944 179 11 4 2141 2316 110831643 110831469 9.920000e-55 224.0
6 TraesCS4A01G199100 chr3B 89.935 616 54 6 2141 2753 803857367 803856757 0.000000e+00 787.0
7 TraesCS4A01G199100 chr3B 86.755 453 60 0 2301 2753 57344855 57345307 3.160000e-139 505.0
8 TraesCS4A01G199100 chr6D 89.792 529 54 0 3 531 356796192 356796720 0.000000e+00 678.0
9 TraesCS4A01G199100 chr6D 96.970 33 1 0 1424 1456 382551005 382551037 3.830000e-04 56.5
10 TraesCS4A01G199100 chrUn 88.104 538 59 5 1 536 3382227 3381693 3.870000e-178 634.0
11 TraesCS4A01G199100 chrUn 83.205 518 79 7 2243 2753 280179809 280180325 4.150000e-128 468.0
12 TraesCS4A01G199100 chr1B 88.104 538 59 5 1 536 48009904 48009370 3.870000e-178 634.0
13 TraesCS4A01G199100 chr1A 89.936 467 38 3 1 467 11826006 11825549 6.560000e-166 593.0
14 TraesCS4A01G199100 chr1A 84.952 525 74 5 10 532 59822182 59821661 6.750000e-146 527.0
15 TraesCS4A01G199100 chr7B 86.534 453 61 0 2301 2753 68685838 68686290 1.470000e-137 499.0
16 TraesCS4A01G199100 chr7B 85.507 69 10 0 2072 2140 711698181 711698249 3.800000e-09 73.1
17 TraesCS4A01G199100 chr6B 86.313 453 62 0 2301 2753 704661182 704661634 6.850000e-136 494.0
18 TraesCS4A01G199100 chr6B 96.970 33 1 0 1424 1456 572090998 572091030 3.830000e-04 56.5
19 TraesCS4A01G199100 chr7D 83.398 518 79 7 2241 2753 614258238 614257723 8.920000e-130 473.0
20 TraesCS4A01G199100 chr2A 84.664 476 70 3 2281 2753 65811813 65811338 3.210000e-129 472.0
21 TraesCS4A01G199100 chr1D 83.205 518 80 7 2241 2753 62702971 62702456 4.150000e-128 468.0
22 TraesCS4A01G199100 chr2D 86.957 69 9 0 2072 2140 249398400 249398468 8.170000e-11 78.7
23 TraesCS4A01G199100 chr5A 91.667 48 4 0 1687 1734 637622017 637622064 1.770000e-07 67.6
24 TraesCS4A01G199100 chr5D 89.796 49 5 0 1687 1735 509964864 509964912 2.290000e-06 63.9
25 TraesCS4A01G199100 chr5B 89.796 49 5 0 1687 1735 640884735 640884783 2.290000e-06 63.9
26 TraesCS4A01G199100 chr6A 100.000 28 0 0 1429 1456 524332106 524332133 5.000000e-03 52.8


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4A01G199100 chr4A 485707491 485710243 2752 True 5084 5084 100.000 1 2753 1 chr4A.!!$R2 2752
1 TraesCS4A01G199100 chr4D 94696226 94697690 1464 False 2218 2218 94.158 552 2004 1 chr4D.!!$F1 1452
2 TraesCS4A01G199100 chr4B 134046356 134047765 1409 False 2001 2001 92.033 553 2004 1 chr4B.!!$F1 1451
3 TraesCS4A01G199100 chr7A 110846587 110847198 611 True 848 848 91.694 2141 2753 1 chr7A.!!$R2 612
4 TraesCS4A01G199100 chr3B 803856757 803857367 610 True 787 787 89.935 2141 2753 1 chr3B.!!$R1 612
5 TraesCS4A01G199100 chr6D 356796192 356796720 528 False 678 678 89.792 3 531 1 chr6D.!!$F1 528
6 TraesCS4A01G199100 chrUn 3381693 3382227 534 True 634 634 88.104 1 536 1 chrUn.!!$R1 535
7 TraesCS4A01G199100 chrUn 280179809 280180325 516 False 468 468 83.205 2243 2753 1 chrUn.!!$F1 510
8 TraesCS4A01G199100 chr1B 48009370 48009904 534 True 634 634 88.104 1 536 1 chr1B.!!$R1 535
9 TraesCS4A01G199100 chr1A 59821661 59822182 521 True 527 527 84.952 10 532 1 chr1A.!!$R2 522
10 TraesCS4A01G199100 chr7D 614257723 614258238 515 True 473 473 83.398 2241 2753 1 chr7D.!!$R1 512
11 TraesCS4A01G199100 chr1D 62702456 62702971 515 True 468 468 83.205 2241 2753 1 chr1D.!!$R1 512

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
340 341 0.687354 TGCTTCTCCTTCGCCTTCTT 59.313 50.0 0.0 0.0 0.0 2.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2047 2081 0.031721 CCACGAAGTCCCTATACCGC 59.968 60.0 0.0 0.0 41.61 5.68 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
32 33 0.846015 CCTCATGATGTAGCCCCCAA 59.154 55.000 0.00 0.00 0.00 4.12
59 60 1.066929 TGCATCGCTTTCTCTAGCACA 60.067 47.619 0.00 0.00 41.28 4.57
63 64 4.784710 GCATCGCTTTCTCTAGCACAATTC 60.785 45.833 0.00 0.00 41.28 2.17
77 78 0.883833 CAATTCTGTTCAGCGGCCTT 59.116 50.000 0.00 0.00 0.00 4.35
143 144 3.715495 CAAGATCTGATCTGGGTCTTCG 58.285 50.000 20.20 0.00 40.13 3.79
146 147 4.222336 AGATCTGATCTGGGTCTTCGAAT 58.778 43.478 18.93 0.00 38.44 3.34
161 162 3.306917 TCGAATACGAAACCTTCTGCA 57.693 42.857 0.00 0.00 45.74 4.41
212 213 3.271729 CCTAGCTGAGAGACTTGACGTA 58.728 50.000 0.00 0.00 0.00 3.57
228 229 1.067582 GTAGGATCCGGCGTCTTGG 59.932 63.158 5.98 0.00 0.00 3.61
312 313 4.010224 TAGCCTTTGCCGCCGTCA 62.010 61.111 0.00 0.00 38.69 4.35
340 341 0.687354 TGCTTCTCCTTCGCCTTCTT 59.313 50.000 0.00 0.00 0.00 2.52
359 360 2.818132 GCCATAGCTCTGCTCCGT 59.182 61.111 0.00 0.00 40.44 4.69
373 374 2.066340 TCCGTGGTGGAGAATGCTT 58.934 52.632 0.00 0.00 43.74 3.91
422 423 3.458163 CGCCCCGGAGCACTTCTA 61.458 66.667 9.26 0.00 0.00 2.10
463 464 1.829222 CAGAAACCCTAACCCTAGCGA 59.171 52.381 0.00 0.00 0.00 4.93
472 473 2.154567 AACCCTAGCGATGGTAGACA 57.845 50.000 4.69 0.00 35.90 3.41
498 499 2.100631 CGCGATCGCCTTTCCAGTT 61.101 57.895 32.63 0.00 37.98 3.16
517 518 2.407428 GCCCCTTAGCGTTTCAGCC 61.407 63.158 0.00 0.00 38.01 4.85
518 519 2.106683 CCCCTTAGCGTTTCAGCCG 61.107 63.158 0.00 0.00 38.01 5.52
540 541 3.636231 TGGACCCTCCCACTTGCG 61.636 66.667 0.00 0.00 35.03 4.85
545 546 4.335647 CCTCCCACTTGCGCCACT 62.336 66.667 4.18 0.00 0.00 4.00
546 547 2.743928 CTCCCACTTGCGCCACTC 60.744 66.667 4.18 0.00 0.00 3.51
547 548 3.241530 TCCCACTTGCGCCACTCT 61.242 61.111 4.18 0.00 0.00 3.24
548 549 2.281761 CCCACTTGCGCCACTCTT 60.282 61.111 4.18 0.00 0.00 2.85
549 550 1.003839 CCCACTTGCGCCACTCTTA 60.004 57.895 4.18 0.00 0.00 2.10
550 551 1.298859 CCCACTTGCGCCACTCTTAC 61.299 60.000 4.18 0.00 0.00 2.34
573 574 1.462670 GCTGAGCCGAGTTTTTGAGAG 59.537 52.381 0.00 0.00 0.00 3.20
587 588 1.191489 TGAGAGCGGAACATGGACCA 61.191 55.000 0.00 0.00 0.00 4.02
598 599 2.646930 ACATGGACCATCTACGACGTA 58.353 47.619 3.21 7.60 0.00 3.57
615 616 2.784505 CGTAGTACGAACGTGCCATAA 58.215 47.619 17.85 0.00 46.05 1.90
661 671 2.978452 GATGGCTCCGTGGATCGTGG 62.978 65.000 0.00 0.00 37.94 4.94
676 686 7.255625 CGTGGATCGTGGATCTGGAATATATAT 60.256 40.741 5.67 0.00 38.91 0.86
822 833 2.220133 CCAACAGTCGTACAAGAAACCG 59.780 50.000 0.00 0.00 0.00 4.44
921 932 5.813157 GCTCCTCTGTCTTATCCAAACTAAC 59.187 44.000 0.00 0.00 0.00 2.34
952 972 4.137116 TCCTGGTCCAATCTTAATCGTG 57.863 45.455 0.00 0.00 0.00 4.35
969 989 4.137849 TCGTGAGAAACTGTGTACGTAG 57.862 45.455 0.00 0.00 37.03 3.51
970 990 3.561310 TCGTGAGAAACTGTGTACGTAGT 59.439 43.478 0.00 0.00 41.23 2.73
1061 1081 1.026718 GCGTTCACTCCTCCCCAATG 61.027 60.000 0.00 0.00 0.00 2.82
1230 1251 1.136690 CTAACGACAAGCTTGTGCGA 58.863 50.000 35.87 23.42 42.43 5.10
1250 1271 4.179579 GGCAACGATGGCGGCTTC 62.180 66.667 11.43 12.96 42.73 3.86
1596 1619 4.643387 GCGTGGGTGAGCAAGGGT 62.643 66.667 0.00 0.00 0.00 4.34
1613 1636 1.235724 GGTGGGTACAAGAAGTGCAC 58.764 55.000 9.40 9.40 36.70 4.57
1631 1654 4.636435 CGTGTCGCCCAAGGGGTT 62.636 66.667 7.36 0.00 46.51 4.11
1759 1782 3.187700 GTCACCGTGTACTGATGATTCC 58.812 50.000 0.00 0.00 0.00 3.01
1760 1783 2.159296 TCACCGTGTACTGATGATTCCG 60.159 50.000 0.00 0.00 0.00 4.30
1766 1789 2.098607 TGTACTGATGATTCCGTCGTCC 59.901 50.000 0.00 0.00 41.35 4.79
1767 1790 1.475403 ACTGATGATTCCGTCGTCCT 58.525 50.000 0.00 0.00 41.35 3.85
1772 1795 0.896479 TGATTCCGTCGTCCTCCACA 60.896 55.000 0.00 0.00 0.00 4.17
1804 1827 0.878523 CGAGTGGCGTTGACCTTGAA 60.879 55.000 0.00 0.00 34.64 2.69
1808 1841 0.878523 TGGCGTTGACCTTGAAGTCG 60.879 55.000 0.00 0.00 39.77 4.18
1809 1842 1.204312 GCGTTGACCTTGAAGTCGC 59.796 57.895 0.00 0.00 39.77 5.19
1810 1843 1.222115 GCGTTGACCTTGAAGTCGCT 61.222 55.000 0.00 0.00 39.77 4.93
1811 1844 1.217882 CGTTGACCTTGAAGTCGCTT 58.782 50.000 0.00 0.00 39.77 4.68
1812 1845 2.400399 CGTTGACCTTGAAGTCGCTTA 58.600 47.619 0.00 0.00 39.77 3.09
1813 1846 2.993899 CGTTGACCTTGAAGTCGCTTAT 59.006 45.455 0.00 0.00 39.77 1.73
1814 1847 3.060895 CGTTGACCTTGAAGTCGCTTATC 59.939 47.826 0.00 0.00 39.77 1.75
1815 1848 2.876091 TGACCTTGAAGTCGCTTATCG 58.124 47.619 0.00 0.00 39.77 2.92
1816 1849 2.230508 TGACCTTGAAGTCGCTTATCGT 59.769 45.455 0.00 0.00 39.77 3.73
1817 1850 2.853003 GACCTTGAAGTCGCTTATCGTC 59.147 50.000 0.00 0.00 39.67 4.20
1818 1851 2.194271 CCTTGAAGTCGCTTATCGTCC 58.806 52.381 0.00 0.00 39.67 4.79
1819 1852 2.159226 CCTTGAAGTCGCTTATCGTCCT 60.159 50.000 0.00 0.00 39.67 3.85
1830 1863 2.946172 TATCGTCCTGCGTCCGGCTA 62.946 60.000 0.00 0.00 44.05 3.93
1860 1893 1.937278 TTTGTGTGTGCTTGCATTGG 58.063 45.000 0.00 0.00 0.00 3.16
1888 1921 0.726827 AGTTTGGCGTATGCATCACG 59.273 50.000 18.38 18.38 45.35 4.35
1921 1954 7.091443 AGTAAACCAGATGTTTTCTCTCGTAG 58.909 38.462 0.00 0.00 44.80 3.51
2004 2038 8.329203 ACTAAGCTCATTTAAAAGGAAGTCTG 57.671 34.615 0.00 0.00 0.00 3.51
2005 2039 8.157476 ACTAAGCTCATTTAAAAGGAAGTCTGA 58.843 33.333 0.00 0.00 0.00 3.27
2006 2040 9.171877 CTAAGCTCATTTAAAAGGAAGTCTGAT 57.828 33.333 0.00 0.00 0.00 2.90
2007 2041 7.622893 AGCTCATTTAAAAGGAAGTCTGATC 57.377 36.000 0.00 0.00 0.00 2.92
2008 2042 6.314896 AGCTCATTTAAAAGGAAGTCTGATCG 59.685 38.462 0.00 0.00 0.00 3.69
2009 2043 6.313905 GCTCATTTAAAAGGAAGTCTGATCGA 59.686 38.462 0.00 0.00 0.00 3.59
2010 2044 7.596749 TCATTTAAAAGGAAGTCTGATCGAC 57.403 36.000 8.94 8.94 43.17 4.20
2011 2045 6.594159 TCATTTAAAAGGAAGTCTGATCGACC 59.406 38.462 12.17 0.00 43.91 4.79
2012 2046 5.477607 TTAAAAGGAAGTCTGATCGACCA 57.522 39.130 12.17 0.00 43.91 4.02
2013 2047 3.601443 AAAGGAAGTCTGATCGACCAG 57.399 47.619 0.00 0.00 43.91 4.00
2014 2048 2.516227 AGGAAGTCTGATCGACCAGA 57.484 50.000 5.02 5.02 43.91 3.86
2015 2049 3.025322 AGGAAGTCTGATCGACCAGAT 57.975 47.619 13.87 0.00 44.09 2.90
2031 2065 1.433121 AGATCATCTGAAGGGGCTCC 58.567 55.000 0.00 0.00 0.00 4.70
2032 2066 0.034616 GATCATCTGAAGGGGCTCCG 59.965 60.000 0.00 0.00 38.33 4.63
2033 2067 1.414061 ATCATCTGAAGGGGCTCCGG 61.414 60.000 0.00 0.00 38.33 5.14
2034 2068 2.041265 ATCTGAAGGGGCTCCGGT 59.959 61.111 0.00 0.00 38.33 5.28
2035 2069 2.370445 ATCTGAAGGGGCTCCGGTG 61.370 63.158 0.00 0.00 38.33 4.94
2036 2070 4.785453 CTGAAGGGGCTCCGGTGC 62.785 72.222 20.16 20.16 38.33 5.01
2038 2072 4.785453 GAAGGGGCTCCGGTGCAG 62.785 72.222 28.14 7.59 38.33 4.41
2052 2086 4.735132 GCAGACGTGGCAGCGGTA 62.735 66.667 12.66 0.00 35.98 4.02
2053 2087 2.184322 CAGACGTGGCAGCGGTAT 59.816 61.111 12.66 0.00 35.98 2.73
2054 2088 1.435925 CAGACGTGGCAGCGGTATA 59.564 57.895 12.66 0.00 35.98 1.47
2055 2089 0.595053 CAGACGTGGCAGCGGTATAG 60.595 60.000 12.66 0.00 35.98 1.31
2056 2090 1.299926 GACGTGGCAGCGGTATAGG 60.300 63.158 12.66 0.00 35.98 2.57
2057 2091 2.029073 CGTGGCAGCGGTATAGGG 59.971 66.667 0.00 0.00 0.00 3.53
2058 2092 2.495409 CGTGGCAGCGGTATAGGGA 61.495 63.158 0.00 0.00 0.00 4.20
2059 2093 1.069258 GTGGCAGCGGTATAGGGAC 59.931 63.158 0.00 0.00 0.00 4.46
2060 2094 1.075525 TGGCAGCGGTATAGGGACT 60.076 57.895 0.00 0.00 46.37 3.85
2061 2095 0.689745 TGGCAGCGGTATAGGGACTT 60.690 55.000 0.00 0.00 41.75 3.01
2062 2096 0.033642 GGCAGCGGTATAGGGACTTC 59.966 60.000 0.00 0.00 41.75 3.01
2063 2097 0.318784 GCAGCGGTATAGGGACTTCG 60.319 60.000 0.00 0.00 41.75 3.79
2064 2098 1.030457 CAGCGGTATAGGGACTTCGT 58.970 55.000 0.00 0.00 41.75 3.85
2065 2099 1.030457 AGCGGTATAGGGACTTCGTG 58.970 55.000 0.00 0.00 41.75 4.35
2066 2100 0.031721 GCGGTATAGGGACTTCGTGG 59.968 60.000 0.00 0.00 41.75 4.94
2067 2101 1.683943 CGGTATAGGGACTTCGTGGA 58.316 55.000 0.00 0.00 41.75 4.02
2068 2102 1.607628 CGGTATAGGGACTTCGTGGAG 59.392 57.143 0.00 0.00 41.75 3.86
2069 2103 2.747467 CGGTATAGGGACTTCGTGGAGA 60.747 54.545 0.00 0.00 41.75 3.71
2070 2104 2.622470 GGTATAGGGACTTCGTGGAGAC 59.378 54.545 0.00 0.00 41.75 3.36
2071 2105 1.777941 ATAGGGACTTCGTGGAGACC 58.222 55.000 0.00 0.00 41.75 3.85
2072 2106 0.702902 TAGGGACTTCGTGGAGACCT 59.297 55.000 0.00 0.00 41.75 3.85
2073 2107 0.178929 AGGGACTTCGTGGAGACCTT 60.179 55.000 0.00 0.00 27.25 3.50
2074 2108 0.037232 GGGACTTCGTGGAGACCTTG 60.037 60.000 0.00 0.00 32.95 3.61
2075 2109 0.670854 GGACTTCGTGGAGACCTTGC 60.671 60.000 0.00 0.00 0.00 4.01
2076 2110 0.318762 GACTTCGTGGAGACCTTGCT 59.681 55.000 0.00 0.00 0.00 3.91
2077 2111 0.759346 ACTTCGTGGAGACCTTGCTT 59.241 50.000 0.00 0.00 0.00 3.91
2078 2112 1.151668 CTTCGTGGAGACCTTGCTTG 58.848 55.000 0.00 0.00 0.00 4.01
2079 2113 0.250295 TTCGTGGAGACCTTGCTTGG 60.250 55.000 0.00 0.00 0.00 3.61
2080 2114 1.118965 TCGTGGAGACCTTGCTTGGA 61.119 55.000 2.67 0.00 0.00 3.53
2081 2115 0.951040 CGTGGAGACCTTGCTTGGAC 60.951 60.000 2.67 0.00 0.00 4.02
2082 2116 0.951040 GTGGAGACCTTGCTTGGACG 60.951 60.000 2.67 0.00 0.00 4.79
2083 2117 2.035442 GGAGACCTTGCTTGGACGC 61.035 63.158 2.67 0.00 0.00 5.19
2084 2118 1.004440 GAGACCTTGCTTGGACGCT 60.004 57.895 2.67 0.00 0.00 5.07
2085 2119 0.603975 GAGACCTTGCTTGGACGCTT 60.604 55.000 2.67 0.00 0.00 4.68
2086 2120 0.179018 AGACCTTGCTTGGACGCTTT 60.179 50.000 2.67 0.00 0.00 3.51
2087 2121 0.040067 GACCTTGCTTGGACGCTTTG 60.040 55.000 2.67 0.00 0.00 2.77
2088 2122 1.286880 CCTTGCTTGGACGCTTTGG 59.713 57.895 0.00 0.00 0.00 3.28
2089 2123 1.172180 CCTTGCTTGGACGCTTTGGA 61.172 55.000 0.00 0.00 0.00 3.53
2090 2124 0.040067 CTTGCTTGGACGCTTTGGAC 60.040 55.000 0.00 0.00 0.00 4.02
2091 2125 1.781025 TTGCTTGGACGCTTTGGACG 61.781 55.000 0.00 0.00 0.00 4.79
2092 2126 2.966309 GCTTGGACGCTTTGGACGG 61.966 63.158 0.00 0.00 34.00 4.79
2093 2127 1.597027 CTTGGACGCTTTGGACGGT 60.597 57.895 0.00 0.00 34.00 4.83
2094 2128 1.153127 TTGGACGCTTTGGACGGTT 60.153 52.632 0.00 0.00 34.00 4.44
2095 2129 1.161563 TTGGACGCTTTGGACGGTTC 61.162 55.000 0.00 0.00 34.00 3.62
2096 2130 2.664436 GGACGCTTTGGACGGTTCG 61.664 63.158 0.00 0.00 34.00 3.95
2097 2131 3.291167 GACGCTTTGGACGGTTCGC 62.291 63.158 0.00 0.00 34.00 4.70
2098 2132 3.342627 CGCTTTGGACGGTTCGCA 61.343 61.111 0.00 0.00 0.00 5.10
2099 2133 2.887889 CGCTTTGGACGGTTCGCAA 61.888 57.895 0.00 0.00 0.00 4.85
2100 2134 1.579429 GCTTTGGACGGTTCGCAAT 59.421 52.632 0.00 0.00 0.00 3.56
2101 2135 0.800012 GCTTTGGACGGTTCGCAATA 59.200 50.000 0.00 0.00 0.00 1.90
2102 2136 1.198178 GCTTTGGACGGTTCGCAATAA 59.802 47.619 0.00 0.00 0.00 1.40
2103 2137 2.727916 GCTTTGGACGGTTCGCAATAAG 60.728 50.000 0.00 0.00 0.00 1.73
2104 2138 0.800012 TTGGACGGTTCGCAATAAGC 59.200 50.000 0.00 0.00 40.87 3.09
2105 2139 0.036765 TGGACGGTTCGCAATAAGCT 60.037 50.000 0.00 0.00 42.61 3.74
2106 2140 1.084289 GGACGGTTCGCAATAAGCTT 58.916 50.000 3.48 3.48 42.61 3.74
2107 2141 1.202031 GGACGGTTCGCAATAAGCTTG 60.202 52.381 9.86 0.00 42.61 4.01
2108 2142 1.463444 GACGGTTCGCAATAAGCTTGT 59.537 47.619 9.86 0.00 42.61 3.16
2109 2143 1.196808 ACGGTTCGCAATAAGCTTGTG 59.803 47.619 9.86 8.40 42.61 3.33
2110 2144 1.463056 CGGTTCGCAATAAGCTTGTGA 59.537 47.619 9.86 2.15 42.61 3.58
2111 2145 2.095853 CGGTTCGCAATAAGCTTGTGAT 59.904 45.455 9.86 0.00 42.61 3.06
2112 2146 3.685058 GGTTCGCAATAAGCTTGTGATC 58.315 45.455 9.86 4.69 42.61 2.92
2113 2147 3.487544 GGTTCGCAATAAGCTTGTGATCC 60.488 47.826 9.86 10.17 42.61 3.36
2114 2148 2.984562 TCGCAATAAGCTTGTGATCCA 58.015 42.857 9.86 0.00 42.61 3.41
2115 2149 2.938451 TCGCAATAAGCTTGTGATCCAG 59.062 45.455 9.86 0.00 42.61 3.86
2116 2150 2.540361 CGCAATAAGCTTGTGATCCAGC 60.540 50.000 9.86 1.18 42.61 4.85
2117 2151 2.424601 GCAATAAGCTTGTGATCCAGCA 59.575 45.455 9.86 0.00 41.15 4.41
2118 2152 3.733077 GCAATAAGCTTGTGATCCAGCAC 60.733 47.826 9.86 0.00 41.15 4.40
2119 2153 2.857186 TAAGCTTGTGATCCAGCACA 57.143 45.000 9.86 0.00 46.26 4.57
2123 2157 4.324471 TGTGATCCAGCACATGCC 57.676 55.556 0.00 0.00 43.35 4.40
2124 2158 1.687014 TGTGATCCAGCACATGCCT 59.313 52.632 0.00 0.00 43.35 4.75
2125 2159 0.393402 TGTGATCCAGCACATGCCTC 60.393 55.000 0.00 0.00 43.35 4.70
2126 2160 0.107312 GTGATCCAGCACATGCCTCT 60.107 55.000 0.00 0.00 43.38 3.69
2127 2161 0.622136 TGATCCAGCACATGCCTCTT 59.378 50.000 0.00 0.00 43.38 2.85
2128 2162 1.307097 GATCCAGCACATGCCTCTTC 58.693 55.000 0.00 0.00 43.38 2.87
2129 2163 0.106819 ATCCAGCACATGCCTCTTCC 60.107 55.000 0.00 0.00 43.38 3.46
2130 2164 1.001764 CCAGCACATGCCTCTTCCA 60.002 57.895 0.00 0.00 43.38 3.53
2131 2165 1.310933 CCAGCACATGCCTCTTCCAC 61.311 60.000 0.00 0.00 43.38 4.02
2132 2166 1.376424 AGCACATGCCTCTTCCACG 60.376 57.895 0.00 0.00 43.38 4.94
2133 2167 1.672356 GCACATGCCTCTTCCACGT 60.672 57.895 0.00 0.00 34.31 4.49
2134 2168 1.915614 GCACATGCCTCTTCCACGTG 61.916 60.000 9.08 9.08 34.31 4.49
2135 2169 1.672356 ACATGCCTCTTCCACGTGC 60.672 57.895 10.91 0.00 0.00 5.34
2136 2170 1.376424 CATGCCTCTTCCACGTGCT 60.376 57.895 10.91 0.00 0.00 4.40
2137 2171 0.108186 CATGCCTCTTCCACGTGCTA 60.108 55.000 10.91 0.00 0.00 3.49
2138 2172 0.108138 ATGCCTCTTCCACGTGCTAC 60.108 55.000 10.91 0.00 0.00 3.58
2139 2173 1.185618 TGCCTCTTCCACGTGCTACT 61.186 55.000 10.91 0.00 0.00 2.57
2151 2185 4.150098 CCACGTGCTACTTGTAAGAAGTTC 59.850 45.833 10.91 0.00 0.00 3.01
2152 2186 3.979495 ACGTGCTACTTGTAAGAAGTTCG 59.021 43.478 0.00 0.00 0.00 3.95
2167 2202 3.863142 AGTTCGTGGTATAAGCGTTCT 57.137 42.857 0.00 0.00 0.00 3.01
2272 2314 2.588464 AGACACGGGAGAAGAGAGAA 57.412 50.000 0.00 0.00 0.00 2.87
2274 2316 3.436243 AGACACGGGAGAAGAGAGAATT 58.564 45.455 0.00 0.00 0.00 2.17
2289 2331 5.942826 AGAGAGAATTGGGTTGTTGAGATTC 59.057 40.000 0.00 0.00 0.00 2.52
2406 2451 3.555586 GCTTTTGTGAACCCATCAGCAAT 60.556 43.478 0.00 0.00 39.19 3.56
2472 2517 2.422597 CACCCTCTCACGCACAAAATA 58.577 47.619 0.00 0.00 0.00 1.40
2502 2547 8.006298 TCAATTTCAATGTGTTTGGTTCTACT 57.994 30.769 0.00 0.00 35.92 2.57
2519 2564 8.768397 TGGTTCTACTATGAAACACTGGATTAT 58.232 33.333 0.00 0.00 38.56 1.28
2567 2612 8.049117 AGTTATCACACCATAAACATGAGACAT 58.951 33.333 0.00 0.00 0.00 3.06
2574 2619 7.147312 CACCATAAACATGAGACATGTTGTTT 58.853 34.615 24.13 22.97 40.94 2.83
2588 2633 6.521162 ACATGTTGTTTCTTAATTCCCAACC 58.479 36.000 0.00 0.00 33.12 3.77
2602 2647 2.307686 TCCCAACCCCTTGAGTAATGAC 59.692 50.000 0.00 0.00 0.00 3.06
2674 2719 3.746045 TCTGTACTTGACCTTGACACC 57.254 47.619 0.00 0.00 0.00 4.16
2687 2732 1.178276 TGACACCGTGGCTTGTTTTT 58.822 45.000 5.82 0.00 0.00 1.94
2726 2771 5.828299 AAGATTCGAACCAAAGAACACAA 57.172 34.783 0.00 0.00 0.00 3.33
2735 2780 5.675684 ACCAAAGAACACAACAAATCCTT 57.324 34.783 0.00 0.00 0.00 3.36
2746 2791 6.016777 ACACAACAAATCCTTCAGTTGATCTC 60.017 38.462 10.68 0.00 42.87 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 1.451028 GAAAGCGATGCAGAGGGCT 60.451 57.895 0.00 0.00 45.15 5.19
59 60 0.883833 CAAGGCCGCTGAACAGAATT 59.116 50.000 5.97 0.00 0.00 2.17
63 64 3.741476 GCCAAGGCCGCTGAACAG 61.741 66.667 9.29 0.00 34.56 3.16
77 78 1.303317 GGGGAAAGCTTTCTCGCCA 60.303 57.895 32.28 0.00 42.67 5.69
143 144 5.803020 AAGATGCAGAAGGTTTCGTATTC 57.197 39.130 0.00 0.00 34.02 1.75
146 147 5.815740 GGATAAAGATGCAGAAGGTTTCGTA 59.184 40.000 0.00 0.00 34.02 3.43
158 159 6.321181 GGATGGTACTTTTGGATAAAGATGCA 59.679 38.462 4.42 0.00 0.00 3.96
161 162 7.226059 AGGGATGGTACTTTTGGATAAAGAT 57.774 36.000 4.42 0.00 0.00 2.40
212 213 2.291043 AACCAAGACGCCGGATCCT 61.291 57.895 5.05 0.00 0.00 3.24
228 229 3.047877 CAAGTCCCCGGTCGCAAC 61.048 66.667 0.00 0.00 0.00 4.17
233 234 1.687297 GATCCTCCAAGTCCCCGGTC 61.687 65.000 0.00 0.00 0.00 4.79
312 313 1.068352 AAGGAGAAGCAAGGTGGGGT 61.068 55.000 0.00 0.00 0.00 4.95
320 321 0.687354 AGAAGGCGAAGGAGAAGCAA 59.313 50.000 0.00 0.00 0.00 3.91
340 341 2.849964 CGGAGCAGAGCTATGGCGA 61.850 63.158 10.92 0.00 39.88 5.54
369 370 2.280797 GCACGGACTGGTGAAGCA 60.281 61.111 0.00 0.00 40.38 3.91
373 374 2.425592 CTTGGCACGGACTGGTGA 59.574 61.111 0.00 0.00 40.38 4.02
418 419 0.606604 GGGGCGGCGAGAATATAGAA 59.393 55.000 12.98 0.00 0.00 2.10
419 420 1.255667 GGGGGCGGCGAGAATATAGA 61.256 60.000 12.98 0.00 0.00 1.98
422 423 4.003788 CGGGGGCGGCGAGAATAT 62.004 66.667 12.98 0.00 0.00 1.28
463 464 1.511305 CGTGGCGACTGTCTACCAT 59.489 57.895 18.55 0.00 34.04 3.55
498 499 1.674322 GCTGAAACGCTAAGGGGCA 60.674 57.895 0.00 0.00 0.00 5.36
533 534 1.626654 CGGTAAGAGTGGCGCAAGTG 61.627 60.000 10.83 0.00 41.68 3.16
536 537 2.047655 CCGGTAAGAGTGGCGCAA 60.048 61.111 10.83 0.00 0.00 4.85
537 538 4.752879 GCCGGTAAGAGTGGCGCA 62.753 66.667 10.83 0.00 39.30 6.09
541 542 1.153549 GCTCAGCCGGTAAGAGTGG 60.154 63.158 17.26 0.00 0.00 4.00
542 543 1.153549 GGCTCAGCCGGTAAGAGTG 60.154 63.158 0.00 1.96 39.62 3.51
543 544 3.300013 GGCTCAGCCGGTAAGAGT 58.700 61.111 0.00 0.00 39.62 3.24
573 574 1.583054 GTAGATGGTCCATGTTCCGC 58.417 55.000 9.76 0.00 0.00 5.54
587 588 3.825498 CGTTCGTACTACGTCGTAGAT 57.175 47.619 33.27 21.03 43.14 1.98
598 599 2.029649 ACACTTATGGCACGTTCGTACT 60.030 45.455 0.00 0.00 0.00 2.73
600 601 2.728690 ACACTTATGGCACGTTCGTA 57.271 45.000 0.00 0.00 0.00 3.43
661 671 8.486210 TGCCACCAAGTATATATATTCCAGATC 58.514 37.037 0.00 0.00 0.00 2.75
676 686 1.292223 GTCGAGCTGCCACCAAGTA 59.708 57.895 0.00 0.00 0.00 2.24
741 752 2.025155 AGTCAGACTTGTGTGTCGTCT 58.975 47.619 0.00 0.00 41.47 4.18
822 833 0.822121 AACCTGTCTGCGGGGTTTTC 60.822 55.000 0.00 0.00 45.50 2.29
921 932 4.768968 AGATTGGACCAGGAAATGAACTTG 59.231 41.667 0.00 0.00 0.00 3.16
952 972 2.985139 GCCACTACGTACACAGTTTCTC 59.015 50.000 0.00 0.00 0.00 2.87
969 989 2.298593 GACGAGCTTATTCGGCCAC 58.701 57.895 2.24 0.00 42.76 5.01
970 990 4.827481 GACGAGCTTATTCGGCCA 57.173 55.556 2.24 0.00 42.76 5.36
1061 1081 2.262423 AGTTGAGAACTGGAACTGCC 57.738 50.000 0.00 0.00 41.01 4.85
1250 1271 2.768492 GCTGCATTGCCTCTTCCCG 61.768 63.158 6.12 0.00 0.00 5.14
1746 1769 2.358267 AGGACGACGGAATCATCAGTAC 59.642 50.000 0.00 0.00 33.93 2.73
1759 1782 2.102357 CGGATGTGGAGGACGACG 59.898 66.667 0.00 0.00 0.00 5.12
1760 1783 2.050350 TCCGGATGTGGAGGACGAC 61.050 63.158 0.00 0.00 33.05 4.34
1767 1790 1.522092 GATGCACTCCGGATGTGGA 59.478 57.895 25.52 24.33 39.87 4.02
1772 1795 1.439228 CACTCGATGCACTCCGGAT 59.561 57.895 3.57 0.00 0.00 4.18
1815 1848 4.874977 GCTAGCCGGACGCAGGAC 62.875 72.222 5.05 0.00 41.38 3.85
1830 1863 2.540769 GCACACACAAATTACACACGCT 60.541 45.455 0.00 0.00 0.00 5.07
1860 1893 3.758300 CATACGCCAAACTCACAAATCC 58.242 45.455 0.00 0.00 0.00 3.01
2004 2038 3.305950 CCCTTCAGATGATCTGGTCGATC 60.306 52.174 21.27 0.00 44.39 3.69
2005 2039 2.632028 CCCTTCAGATGATCTGGTCGAT 59.368 50.000 21.27 0.00 44.39 3.59
2006 2040 2.034878 CCCTTCAGATGATCTGGTCGA 58.965 52.381 21.27 0.00 44.39 4.20
2007 2041 1.069823 CCCCTTCAGATGATCTGGTCG 59.930 57.143 21.27 10.26 44.39 4.79
2008 2042 1.202746 GCCCCTTCAGATGATCTGGTC 60.203 57.143 21.27 2.52 44.39 4.02
2009 2043 0.842635 GCCCCTTCAGATGATCTGGT 59.157 55.000 21.27 0.00 44.39 4.00
2010 2044 1.072015 GAGCCCCTTCAGATGATCTGG 59.928 57.143 21.27 6.98 44.39 3.86
2011 2045 1.072015 GGAGCCCCTTCAGATGATCTG 59.928 57.143 16.15 16.15 45.59 2.90
2012 2046 1.433121 GGAGCCCCTTCAGATGATCT 58.567 55.000 0.00 0.00 0.00 2.75
2013 2047 0.034616 CGGAGCCCCTTCAGATGATC 59.965 60.000 0.00 0.00 0.00 2.92
2014 2048 1.414061 CCGGAGCCCCTTCAGATGAT 61.414 60.000 0.00 0.00 0.00 2.45
2015 2049 2.066393 CCGGAGCCCCTTCAGATGA 61.066 63.158 0.00 0.00 0.00 2.92
2016 2050 2.370445 ACCGGAGCCCCTTCAGATG 61.370 63.158 9.46 0.00 0.00 2.90
2017 2051 2.041265 ACCGGAGCCCCTTCAGAT 59.959 61.111 9.46 0.00 0.00 2.90
2018 2052 3.003173 CACCGGAGCCCCTTCAGA 61.003 66.667 9.46 0.00 0.00 3.27
2019 2053 4.785453 GCACCGGAGCCCCTTCAG 62.785 72.222 13.51 0.00 0.00 3.02
2021 2055 4.785453 CTGCACCGGAGCCCCTTC 62.785 72.222 21.62 0.00 0.00 3.46
2035 2069 2.622903 TATACCGCTGCCACGTCTGC 62.623 60.000 0.00 0.00 0.00 4.26
2036 2070 0.595053 CTATACCGCTGCCACGTCTG 60.595 60.000 0.00 0.00 0.00 3.51
2037 2071 1.734137 CTATACCGCTGCCACGTCT 59.266 57.895 0.00 0.00 0.00 4.18
2038 2072 1.299926 CCTATACCGCTGCCACGTC 60.300 63.158 0.00 0.00 0.00 4.34
2039 2073 2.792947 CCCTATACCGCTGCCACGT 61.793 63.158 0.00 0.00 0.00 4.49
2040 2074 2.029073 CCCTATACCGCTGCCACG 59.971 66.667 0.00 0.00 0.00 4.94
2041 2075 1.069258 GTCCCTATACCGCTGCCAC 59.931 63.158 0.00 0.00 0.00 5.01
2042 2076 0.689745 AAGTCCCTATACCGCTGCCA 60.690 55.000 0.00 0.00 0.00 4.92
2043 2077 0.033642 GAAGTCCCTATACCGCTGCC 59.966 60.000 0.00 0.00 0.00 4.85
2044 2078 0.318784 CGAAGTCCCTATACCGCTGC 60.319 60.000 0.00 0.00 0.00 5.25
2045 2079 1.030457 ACGAAGTCCCTATACCGCTG 58.970 55.000 0.00 0.00 29.74 5.18
2046 2080 1.030457 CACGAAGTCCCTATACCGCT 58.970 55.000 0.00 0.00 41.61 5.52
2047 2081 0.031721 CCACGAAGTCCCTATACCGC 59.968 60.000 0.00 0.00 41.61 5.68
2048 2082 1.607628 CTCCACGAAGTCCCTATACCG 59.392 57.143 0.00 0.00 41.61 4.02
2049 2083 2.622470 GTCTCCACGAAGTCCCTATACC 59.378 54.545 0.00 0.00 41.61 2.73
2050 2084 2.622470 GGTCTCCACGAAGTCCCTATAC 59.378 54.545 0.00 0.00 41.61 1.47
2051 2085 2.512896 AGGTCTCCACGAAGTCCCTATA 59.487 50.000 0.00 0.00 41.61 1.31
2052 2086 1.288335 AGGTCTCCACGAAGTCCCTAT 59.712 52.381 0.00 0.00 41.61 2.57
2053 2087 0.702902 AGGTCTCCACGAAGTCCCTA 59.297 55.000 0.00 0.00 41.61 3.53
2054 2088 0.178929 AAGGTCTCCACGAAGTCCCT 60.179 55.000 0.00 0.00 41.61 4.20
2055 2089 0.037232 CAAGGTCTCCACGAAGTCCC 60.037 60.000 0.00 0.00 41.61 4.46
2056 2090 0.670854 GCAAGGTCTCCACGAAGTCC 60.671 60.000 0.00 0.00 41.61 3.85
2057 2091 0.318762 AGCAAGGTCTCCACGAAGTC 59.681 55.000 0.00 0.00 41.61 3.01
2059 2093 1.151668 CAAGCAAGGTCTCCACGAAG 58.848 55.000 0.00 0.00 0.00 3.79
2060 2094 0.250295 CCAAGCAAGGTCTCCACGAA 60.250 55.000 0.00 0.00 0.00 3.85
2061 2095 1.118965 TCCAAGCAAGGTCTCCACGA 61.119 55.000 0.00 0.00 0.00 4.35
2062 2096 0.951040 GTCCAAGCAAGGTCTCCACG 60.951 60.000 0.00 0.00 0.00 4.94
2063 2097 0.951040 CGTCCAAGCAAGGTCTCCAC 60.951 60.000 0.00 0.00 0.00 4.02
2064 2098 1.371183 CGTCCAAGCAAGGTCTCCA 59.629 57.895 0.00 0.00 0.00 3.86
2065 2099 2.035442 GCGTCCAAGCAAGGTCTCC 61.035 63.158 0.00 0.00 37.05 3.71
2066 2100 0.603975 AAGCGTCCAAGCAAGGTCTC 60.604 55.000 0.00 0.00 40.15 3.36
2067 2101 0.179018 AAAGCGTCCAAGCAAGGTCT 60.179 50.000 0.00 0.00 40.15 3.85
2068 2102 0.040067 CAAAGCGTCCAAGCAAGGTC 60.040 55.000 0.00 0.00 40.15 3.85
2069 2103 1.455383 CCAAAGCGTCCAAGCAAGGT 61.455 55.000 0.00 0.00 40.15 3.50
2070 2104 1.172180 TCCAAAGCGTCCAAGCAAGG 61.172 55.000 0.00 0.00 40.15 3.61
2071 2105 0.040067 GTCCAAAGCGTCCAAGCAAG 60.040 55.000 0.00 0.00 40.15 4.01
2072 2106 1.781025 CGTCCAAAGCGTCCAAGCAA 61.781 55.000 0.00 0.00 40.15 3.91
2073 2107 2.250939 CGTCCAAAGCGTCCAAGCA 61.251 57.895 0.00 0.00 40.15 3.91
2074 2108 2.556287 CGTCCAAAGCGTCCAAGC 59.444 61.111 0.00 0.00 37.41 4.01
2075 2109 1.164041 AACCGTCCAAAGCGTCCAAG 61.164 55.000 0.00 0.00 0.00 3.61
2076 2110 1.153127 AACCGTCCAAAGCGTCCAA 60.153 52.632 0.00 0.00 0.00 3.53
2077 2111 1.595929 GAACCGTCCAAAGCGTCCA 60.596 57.895 0.00 0.00 0.00 4.02
2078 2112 2.664436 CGAACCGTCCAAAGCGTCC 61.664 63.158 0.00 0.00 0.00 4.79
2079 2113 2.851104 CGAACCGTCCAAAGCGTC 59.149 61.111 0.00 0.00 0.00 5.19
2080 2114 3.343421 GCGAACCGTCCAAAGCGT 61.343 61.111 0.00 0.00 0.00 5.07
2081 2115 2.182614 ATTGCGAACCGTCCAAAGCG 62.183 55.000 0.00 0.00 0.00 4.68
2082 2116 0.800012 TATTGCGAACCGTCCAAAGC 59.200 50.000 0.00 0.00 0.00 3.51
2083 2117 2.727916 GCTTATTGCGAACCGTCCAAAG 60.728 50.000 0.00 0.00 0.00 2.77
2084 2118 1.198178 GCTTATTGCGAACCGTCCAAA 59.802 47.619 0.00 0.00 0.00 3.28
2085 2119 0.800012 GCTTATTGCGAACCGTCCAA 59.200 50.000 0.00 0.00 0.00 3.53
2086 2120 2.462503 GCTTATTGCGAACCGTCCA 58.537 52.632 0.00 0.00 0.00 4.02
2095 2129 6.999953 GTGCTGGATCACAAGCTTATTGCG 63.000 50.000 0.00 0.00 40.59 4.85
2096 2130 2.424601 TGCTGGATCACAAGCTTATTGC 59.575 45.455 0.00 0.00 43.29 3.56
2097 2131 3.441222 TGTGCTGGATCACAAGCTTATTG 59.559 43.478 0.00 0.00 43.27 1.90
2098 2132 3.689347 TGTGCTGGATCACAAGCTTATT 58.311 40.909 0.00 0.00 43.27 1.40
2099 2133 3.354948 TGTGCTGGATCACAAGCTTAT 57.645 42.857 0.00 0.00 43.27 1.73
2100 2134 2.857186 TGTGCTGGATCACAAGCTTA 57.143 45.000 0.00 0.00 43.27 3.09
2101 2135 3.731716 TGTGCTGGATCACAAGCTT 57.268 47.368 13.44 0.00 43.27 3.74
2107 2141 0.107312 AGAGGCATGTGCTGGATCAC 60.107 55.000 4.84 0.00 41.70 3.06
2108 2142 0.622136 AAGAGGCATGTGCTGGATCA 59.378 50.000 4.84 0.00 41.70 2.92
2109 2143 1.307097 GAAGAGGCATGTGCTGGATC 58.693 55.000 4.84 0.00 41.70 3.36
2110 2144 0.106819 GGAAGAGGCATGTGCTGGAT 60.107 55.000 4.84 0.00 41.70 3.41
2111 2145 1.300963 GGAAGAGGCATGTGCTGGA 59.699 57.895 4.84 0.00 41.70 3.86
2112 2146 1.001764 TGGAAGAGGCATGTGCTGG 60.002 57.895 4.84 0.00 41.70 4.85
2113 2147 1.642037 CGTGGAAGAGGCATGTGCTG 61.642 60.000 4.84 0.00 41.70 4.41
2114 2148 1.376424 CGTGGAAGAGGCATGTGCT 60.376 57.895 4.84 0.00 41.70 4.40
2115 2149 1.672356 ACGTGGAAGAGGCATGTGC 60.672 57.895 0.00 0.00 41.14 4.57
2116 2150 1.915614 GCACGTGGAAGAGGCATGTG 61.916 60.000 18.88 0.00 38.47 3.21
2117 2151 1.672356 GCACGTGGAAGAGGCATGT 60.672 57.895 18.88 0.00 0.00 3.21
2118 2152 0.108186 TAGCACGTGGAAGAGGCATG 60.108 55.000 18.88 0.00 0.00 4.06
2119 2153 0.108138 GTAGCACGTGGAAGAGGCAT 60.108 55.000 18.88 0.00 0.00 4.40
2120 2154 1.185618 AGTAGCACGTGGAAGAGGCA 61.186 55.000 18.88 0.00 0.00 4.75
2121 2155 0.037232 AAGTAGCACGTGGAAGAGGC 60.037 55.000 18.88 0.00 0.00 4.70
2122 2156 1.000955 ACAAGTAGCACGTGGAAGAGG 59.999 52.381 18.88 0.00 31.79 3.69
2123 2157 2.440539 ACAAGTAGCACGTGGAAGAG 57.559 50.000 18.88 0.00 31.79 2.85
2124 2158 3.909430 CTTACAAGTAGCACGTGGAAGA 58.091 45.455 18.88 0.00 46.89 2.87
2125 2159 3.909430 TCTTACAAGTAGCACGTGGAAG 58.091 45.455 18.88 15.72 45.82 3.46
2126 2160 4.202182 ACTTCTTACAAGTAGCACGTGGAA 60.202 41.667 18.88 7.00 31.79 3.53
2127 2161 3.319972 ACTTCTTACAAGTAGCACGTGGA 59.680 43.478 18.88 0.00 31.79 4.02
2128 2162 3.650139 ACTTCTTACAAGTAGCACGTGG 58.350 45.455 18.88 1.25 31.79 4.94
2129 2163 4.143597 CGAACTTCTTACAAGTAGCACGTG 60.144 45.833 12.28 12.28 33.76 4.49
2130 2164 3.979495 CGAACTTCTTACAAGTAGCACGT 59.021 43.478 0.00 0.00 0.00 4.49
2131 2165 3.979495 ACGAACTTCTTACAAGTAGCACG 59.021 43.478 0.00 10.74 34.42 5.34
2132 2166 4.150098 CCACGAACTTCTTACAAGTAGCAC 59.850 45.833 0.00 0.00 0.00 4.40
2133 2167 4.202182 ACCACGAACTTCTTACAAGTAGCA 60.202 41.667 0.00 0.00 0.00 3.49
2134 2168 4.304939 ACCACGAACTTCTTACAAGTAGC 58.695 43.478 0.00 0.00 0.00 3.58
2135 2169 9.286946 CTTATACCACGAACTTCTTACAAGTAG 57.713 37.037 0.00 0.00 0.00 2.57
2136 2170 7.756722 GCTTATACCACGAACTTCTTACAAGTA 59.243 37.037 0.00 0.00 0.00 2.24
2137 2171 6.589139 GCTTATACCACGAACTTCTTACAAGT 59.411 38.462 0.00 0.00 0.00 3.16
2138 2172 6.237490 CGCTTATACCACGAACTTCTTACAAG 60.237 42.308 0.00 0.00 0.00 3.16
2139 2173 5.574055 CGCTTATACCACGAACTTCTTACAA 59.426 40.000 0.00 0.00 0.00 2.41
2151 2185 3.242248 GCAGTAAGAACGCTTATACCACG 59.758 47.826 0.00 0.00 38.74 4.94
2152 2186 3.554731 GGCAGTAAGAACGCTTATACCAC 59.445 47.826 0.00 0.00 38.74 4.16
2218 2253 8.190326 TCTTGTAATCTCTCTTGTACTCCAAA 57.810 34.615 0.00 0.00 31.20 3.28
2256 2291 2.419297 CCCAATTCTCTCTTCTCCCGTG 60.419 54.545 0.00 0.00 0.00 4.94
2272 2314 4.387026 TCTGGAATCTCAACAACCCAAT 57.613 40.909 0.00 0.00 0.00 3.16
2274 2316 5.715439 ATATCTGGAATCTCAACAACCCA 57.285 39.130 0.00 0.00 0.00 4.51
2289 2331 7.644551 GTGTTAGAGTTTGAGTCGTATATCTGG 59.355 40.741 0.00 0.00 0.00 3.86
2406 2451 8.434589 AAGGTTTATTCCATCCAAAGATCAAA 57.565 30.769 0.00 0.00 0.00 2.69
2447 2492 4.767255 GCGTGAGAGGGTGGCAGG 62.767 72.222 0.00 0.00 0.00 4.85
2472 2517 9.786105 GAACCAAACACATTGAAATTGATTTTT 57.214 25.926 0.00 0.00 41.85 1.94
2502 2547 8.539117 TCTCTCTGATAATCCAGTGTTTCATA 57.461 34.615 0.00 0.00 35.71 2.15
2519 2564 1.133325 GGGAGCCACCTATCTCTCTGA 60.133 57.143 0.00 0.00 38.98 3.27
2567 2612 4.345547 GGGGTTGGGAATTAAGAAACAACA 59.654 41.667 14.01 0.00 39.77 3.33
2574 2619 3.660669 ACTCAAGGGGTTGGGAATTAAGA 59.339 43.478 0.00 0.00 0.00 2.10
2602 2647 6.369059 ACTGCTGAAATTATTTCGATGGAG 57.631 37.500 12.30 15.30 42.55 3.86
2609 2654 7.490402 AGCTAATGCAACTGCTGAAATTATTTC 59.510 33.333 10.47 10.47 42.74 2.17
2707 2752 4.974368 TGTTGTGTTCTTTGGTTCGAAT 57.026 36.364 0.00 0.00 0.00 3.34
2726 2771 5.222007 ACAGGAGATCAACTGAAGGATTTGT 60.222 40.000 19.62 0.00 38.09 2.83


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

AutoCloner maintained by Alex Coulton.