Multiple sequence alignment - TraesCS6D01G082600

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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 TraesCS6D01G082600 chr6D 100.000 3851 0 0 1 3851 47807244 47803394 0.000000e+00 7112
1 TraesCS6D01G082600 chr6B 87.386 2188 149 71 1 2115 123737245 123739378 0.000000e+00 2394
2 TraesCS6D01G082600 chr6B 93.175 674 30 8 2193 2864 123745944 123746603 0.000000e+00 976
3 TraesCS6D01G082600 chr6A 89.420 1673 113 32 218 1854 67371543 67373187 0.000000e+00 2050
4 TraesCS6D01G082600 chr6A 86.814 1130 78 34 1900 2991 67373198 67374294 0.000000e+00 1195
5 TraesCS6D01G082600 chr6A 83.065 248 9 8 1 220 67371102 67371344 1.090000e-45 195
6 TraesCS6D01G082600 chr3D 97.388 804 8 1 3061 3851 535665249 535664446 0.000000e+00 1356
7 TraesCS6D01G082600 chr1D 97.139 804 10 1 3061 3851 383682458 383681655 0.000000e+00 1345
8 TraesCS6D01G082600 chr1D 96.517 804 14 2 3061 3851 485912235 485913037 0.000000e+00 1317
9 TraesCS6D01G082600 chr4D 96.891 804 12 1 3061 3851 129485200 129486003 0.000000e+00 1334
10 TraesCS6D01G082600 chr4D 96.891 804 12 1 3061 3851 502967484 502966681 0.000000e+00 1334
11 TraesCS6D01G082600 chr4D 96.393 804 15 2 3061 3851 459390397 459391199 0.000000e+00 1312
12 TraesCS6D01G082600 chr4D 95.528 805 22 2 3061 3851 488446843 488446039 0.000000e+00 1275
13 TraesCS6D01G082600 chr2D 96.887 803 11 2 3062 3851 486388037 486387236 0.000000e+00 1332
14 TraesCS6D01G082600 chr5D 96.766 804 12 2 3061 3851 46646865 46646063 0.000000e+00 1328
15 TraesCS6D01G082600 chr5D 96.638 803 13 2 3062 3851 133279789 133278988 0.000000e+00 1321
16 TraesCS6D01G082600 chr5D 96.182 812 16 3 3053 3851 324706488 324707297 0.000000e+00 1314
17 TraesCS6D01G082600 chr5D 88.642 405 46 0 2453 2857 369306047 369305643 9.610000e-136 494
18 TraesCS6D01G082600 chr7D 96.059 812 18 2 3053 3851 268983723 268982913 0.000000e+00 1310
19 TraesCS6D01G082600 chr5B 92.680 806 44 3 3060 3851 405507730 405506926 0.000000e+00 1147
20 TraesCS6D01G082600 chr5B 89.074 421 43 3 2451 2868 437925758 437925338 1.590000e-143 520
21 TraesCS6D01G082600 chr5B 86.957 299 31 6 987 1284 437926752 437926461 2.870000e-86 329
22 TraesCS6D01G082600 chr5A 90.558 466 36 5 987 1451 471709470 471709012 9.150000e-171 610
23 TraesCS6D01G082600 chr5A 88.221 399 46 1 2453 2851 471708234 471707837 3.480000e-130 475
24 TraesCS6D01G082600 chr3A 75.394 317 64 10 2451 2763 740882708 740883014 1.440000e-29 141


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 TraesCS6D01G082600 chr6D 47803394 47807244 3850 True 7112.000000 7112 100.0000 1 3851 1 chr6D.!!$R1 3850
1 TraesCS6D01G082600 chr6B 123737245 123739378 2133 False 2394.000000 2394 87.3860 1 2115 1 chr6B.!!$F1 2114
2 TraesCS6D01G082600 chr6B 123745944 123746603 659 False 976.000000 976 93.1750 2193 2864 1 chr6B.!!$F2 671
3 TraesCS6D01G082600 chr6A 67371102 67374294 3192 False 1146.666667 2050 86.4330 1 2991 3 chr6A.!!$F1 2990
4 TraesCS6D01G082600 chr3D 535664446 535665249 803 True 1356.000000 1356 97.3880 3061 3851 1 chr3D.!!$R1 790
5 TraesCS6D01G082600 chr1D 383681655 383682458 803 True 1345.000000 1345 97.1390 3061 3851 1 chr1D.!!$R1 790
6 TraesCS6D01G082600 chr1D 485912235 485913037 802 False 1317.000000 1317 96.5170 3061 3851 1 chr1D.!!$F1 790
7 TraesCS6D01G082600 chr4D 129485200 129486003 803 False 1334.000000 1334 96.8910 3061 3851 1 chr4D.!!$F1 790
8 TraesCS6D01G082600 chr4D 502966681 502967484 803 True 1334.000000 1334 96.8910 3061 3851 1 chr4D.!!$R2 790
9 TraesCS6D01G082600 chr4D 459390397 459391199 802 False 1312.000000 1312 96.3930 3061 3851 1 chr4D.!!$F2 790
10 TraesCS6D01G082600 chr4D 488446039 488446843 804 True 1275.000000 1275 95.5280 3061 3851 1 chr4D.!!$R1 790
11 TraesCS6D01G082600 chr2D 486387236 486388037 801 True 1332.000000 1332 96.8870 3062 3851 1 chr2D.!!$R1 789
12 TraesCS6D01G082600 chr5D 46646063 46646865 802 True 1328.000000 1328 96.7660 3061 3851 1 chr5D.!!$R1 790
13 TraesCS6D01G082600 chr5D 133278988 133279789 801 True 1321.000000 1321 96.6380 3062 3851 1 chr5D.!!$R2 789
14 TraesCS6D01G082600 chr5D 324706488 324707297 809 False 1314.000000 1314 96.1820 3053 3851 1 chr5D.!!$F1 798
15 TraesCS6D01G082600 chr7D 268982913 268983723 810 True 1310.000000 1310 96.0590 3053 3851 1 chr7D.!!$R1 798
16 TraesCS6D01G082600 chr5B 405506926 405507730 804 True 1147.000000 1147 92.6800 3060 3851 1 chr5B.!!$R1 791
17 TraesCS6D01G082600 chr5B 437925338 437926752 1414 True 424.500000 520 88.0155 987 2868 2 chr5B.!!$R2 1881
18 TraesCS6D01G082600 chr5A 471707837 471709470 1633 True 542.500000 610 89.3895 987 2851 2 chr5A.!!$R1 1864

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
685 948 0.036765 CGATCCTCACCCCACGAAAA 60.037 55.0 0.0 0.0 0.0 2.29 F
1570 1851 0.179121 TTACTATGTCCGTGCTGGCG 60.179 55.0 0.0 0.0 37.8 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2248 2655 0.539669 TGGACTGAGACGAAGCTGGA 60.540 55.0 0.0 0.0 0.0 3.86 R
2866 3307 0.168788 CAGCCCACGTACAATGCAAG 59.831 55.0 0.0 0.0 0.0 4.01 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
53 55 1.067071 CCTCGGATTATTAGCCCGTCC 60.067 57.143 0.00 0.00 43.40 4.79
86 92 3.959975 GGAAAGGCACGCACGCAA 61.960 61.111 0.00 0.00 0.00 4.85
88 94 3.879351 GAAAGGCACGCACGCAAGG 62.879 63.158 0.00 0.00 46.39 3.61
130 136 4.619140 GATTGATGCGCGCCTGCC 62.619 66.667 30.77 15.03 38.08 4.85
162 190 6.612247 ACAATGGCATTATAAATCGACGAA 57.388 33.333 13.23 0.00 0.00 3.85
167 195 4.748102 GGCATTATAAATCGACGAACTCCA 59.252 41.667 0.00 0.00 0.00 3.86
171 199 7.530861 GCATTATAAATCGACGAACTCCATTTC 59.469 37.037 0.00 0.00 0.00 2.17
224 460 7.162082 ACCATCTCGTCATCCTAATAATTTCC 58.838 38.462 0.00 0.00 0.00 3.13
226 462 8.531982 CCATCTCGTCATCCTAATAATTTCCTA 58.468 37.037 0.00 0.00 0.00 2.94
281 527 4.500499 AATGCTGCACCTCTTCTCTATT 57.500 40.909 3.57 0.00 0.00 1.73
298 544 0.881118 ATTTGCTCACGGCGTTGATT 59.119 45.000 11.19 0.00 45.43 2.57
405 654 6.545666 TGTGAGTGTGGCTTATTTATATTGGG 59.454 38.462 0.00 0.00 0.00 4.12
478 727 2.558313 GAGCTTCGCCAAGTGTGC 59.442 61.111 0.00 0.00 31.45 4.57
480 729 1.580845 GAGCTTCGCCAAGTGTGCAT 61.581 55.000 0.00 0.00 31.45 3.96
481 730 1.443194 GCTTCGCCAAGTGTGCATG 60.443 57.895 0.00 0.00 31.45 4.06
482 731 1.855213 GCTTCGCCAAGTGTGCATGA 61.855 55.000 0.00 0.00 31.45 3.07
483 732 0.806868 CTTCGCCAAGTGTGCATGAT 59.193 50.000 0.00 0.00 0.00 2.45
484 733 0.804364 TTCGCCAAGTGTGCATGATC 59.196 50.000 0.00 0.00 0.00 2.92
485 734 1.026182 TCGCCAAGTGTGCATGATCC 61.026 55.000 0.00 0.00 0.00 3.36
487 736 1.996786 GCCAAGTGTGCATGATCCGG 61.997 60.000 0.00 0.00 0.00 5.14
488 737 1.378882 CCAAGTGTGCATGATCCGGG 61.379 60.000 0.00 0.00 0.00 5.73
489 738 1.077501 AAGTGTGCATGATCCGGGG 60.078 57.895 0.00 0.00 0.00 5.73
490 739 1.852157 AAGTGTGCATGATCCGGGGT 61.852 55.000 0.00 0.00 0.00 4.95
492 741 0.107410 GTGTGCATGATCCGGGGTTA 60.107 55.000 0.00 0.00 0.00 2.85
493 742 0.107410 TGTGCATGATCCGGGGTTAC 60.107 55.000 0.00 0.00 0.00 2.50
494 743 0.180406 GTGCATGATCCGGGGTTACT 59.820 55.000 0.00 0.00 0.00 2.24
495 744 1.414919 GTGCATGATCCGGGGTTACTA 59.585 52.381 0.00 0.00 0.00 1.82
496 745 1.414919 TGCATGATCCGGGGTTACTAC 59.585 52.381 0.00 0.00 0.00 2.73
503 752 0.680618 CCGGGGTTACTACACACACA 59.319 55.000 0.00 0.00 0.00 3.72
561 822 3.512033 TTTCCACGTCTTTTTGTTGGG 57.488 42.857 0.00 0.00 0.00 4.12
562 823 2.421751 TCCACGTCTTTTTGTTGGGA 57.578 45.000 0.00 0.00 0.00 4.37
565 826 3.119424 TCCACGTCTTTTTGTTGGGAAAC 60.119 43.478 0.00 0.00 0.00 2.78
566 827 2.849473 CACGTCTTTTTGTTGGGAAACG 59.151 45.455 0.00 0.00 0.00 3.60
567 828 2.159352 ACGTCTTTTTGTTGGGAAACGG 60.159 45.455 0.00 0.00 0.00 4.44
568 829 2.097791 CGTCTTTTTGTTGGGAAACGGA 59.902 45.455 0.00 0.00 0.00 4.69
569 830 3.243267 CGTCTTTTTGTTGGGAAACGGAT 60.243 43.478 0.00 0.00 0.00 4.18
588 850 3.818586 TTTTTCCGATACGCCGTCT 57.181 47.368 0.00 0.00 0.00 4.18
635 898 0.396695 TCCCCGGCTACTTCCACTAG 60.397 60.000 0.00 0.00 0.00 2.57
640 903 1.760192 GGCTACTTCCACTAGGACGA 58.240 55.000 0.00 0.00 45.73 4.20
641 904 2.308690 GGCTACTTCCACTAGGACGAT 58.691 52.381 0.00 0.00 45.73 3.73
643 906 2.688958 GCTACTTCCACTAGGACGATGT 59.311 50.000 0.00 0.00 45.73 3.06
647 910 4.084287 ACTTCCACTAGGACGATGTACAA 58.916 43.478 0.00 0.00 45.73 2.41
650 913 2.451132 CACTAGGACGATGTACAAGCG 58.549 52.381 16.82 16.82 0.00 4.68
673 936 2.187946 CCACCCACTGCGATCCTC 59.812 66.667 0.00 0.00 0.00 3.71
685 948 0.036765 CGATCCTCACCCCACGAAAA 60.037 55.000 0.00 0.00 0.00 2.29
688 951 0.765135 TCCTCACCCCACGAAAAGGA 60.765 55.000 0.00 0.00 0.00 3.36
726 990 3.319904 GTGTGCACACGACTCACC 58.680 61.111 32.41 9.15 37.10 4.02
768 1035 1.270094 CCTCGTGCCAGTACAAAGTGA 60.270 52.381 0.00 0.00 0.00 3.41
793 1063 1.379977 TACTCTGCCCCACGAGAGG 60.380 63.158 0.00 0.00 40.16 3.69
852 1124 1.359848 GGCAATATGATCTACCCGCG 58.640 55.000 0.00 0.00 0.00 6.46
1499 1780 1.571460 CAACAAGCGCAGGTGAGTC 59.429 57.895 11.47 0.00 39.47 3.36
1566 1847 6.932960 ACTTTACTTTTTACTATGTCCGTGCT 59.067 34.615 0.00 0.00 0.00 4.40
1570 1851 0.179121 TTACTATGTCCGTGCTGGCG 60.179 55.000 0.00 0.00 37.80 5.69
1617 1945 2.670905 GGCGTTGGGTTAAATGCAAATC 59.329 45.455 0.00 0.00 42.68 2.17
1632 1960 2.221981 GCAAATCTGCGTCCTATGCTAC 59.778 50.000 0.00 0.00 39.20 3.58
1640 1968 2.603560 GCGTCCTATGCTACTGTTTGTC 59.396 50.000 0.00 0.00 0.00 3.18
1655 1983 6.339730 ACTGTTTGTCATGAAGAAATTTGCA 58.660 32.000 0.00 0.00 0.00 4.08
1656 1984 6.256321 ACTGTTTGTCATGAAGAAATTTGCAC 59.744 34.615 0.00 0.00 0.00 4.57
1657 1985 5.523188 TGTTTGTCATGAAGAAATTTGCACC 59.477 36.000 0.00 0.00 0.00 5.01
1692 2020 6.106648 TCCTGATGATCTTGATGACATACC 57.893 41.667 0.00 0.00 0.00 2.73
1708 2110 9.254133 GATGACATACCTAATGATCATAATCCG 57.746 37.037 9.04 0.00 36.91 4.18
1714 2116 7.004555 ACCTAATGATCATAATCCGCTGTTA 57.995 36.000 9.04 0.00 0.00 2.41
1796 2202 3.067106 TCAACAAGCAGCTGTAAGTAGC 58.933 45.455 16.64 0.00 44.01 3.58
1819 2225 2.035632 AGCCTCCGGATTCAGTCTTAG 58.964 52.381 3.57 0.00 0.00 2.18
1824 2230 4.870991 CCTCCGGATTCAGTCTTAGTTTTC 59.129 45.833 3.57 0.00 0.00 2.29
1854 2260 2.371841 TGTGACAGTCAGGCTACCAAAT 59.628 45.455 2.53 0.00 0.00 2.32
2070 2477 1.432657 GGAGTCGCCGGTAAGAGAC 59.567 63.158 1.90 5.71 0.00 3.36
2072 2479 0.524862 GAGTCGCCGGTAAGAGACAA 59.475 55.000 1.90 0.00 36.18 3.18
2073 2480 0.526662 AGTCGCCGGTAAGAGACAAG 59.473 55.000 1.90 0.00 36.18 3.16
2074 2481 0.243095 GTCGCCGGTAAGAGACAAGT 59.757 55.000 1.90 0.00 34.09 3.16
2075 2482 0.242825 TCGCCGGTAAGAGACAAGTG 59.757 55.000 1.90 0.00 0.00 3.16
2078 2485 1.263356 CCGGTAAGAGACAAGTGGGA 58.737 55.000 0.00 0.00 0.00 4.37
2081 2488 3.068307 CCGGTAAGAGACAAGTGGGATAG 59.932 52.174 0.00 0.00 0.00 2.08
2088 2495 1.136500 GACAAGTGGGATAGGACGTCC 59.864 57.143 27.67 27.67 34.92 4.79
2099 2506 1.546961 AGGACGTCCTTGAATCGTCT 58.453 50.000 31.69 5.48 46.09 4.18
2104 2511 5.187699 GACGTCCTTGAATCGTCTAAAAC 57.812 43.478 3.51 0.00 46.54 2.43
2115 2522 6.764085 TGAATCGTCTAAAACTTTGACTTCCA 59.236 34.615 0.00 0.00 0.00 3.53
2116 2523 7.444183 TGAATCGTCTAAAACTTTGACTTCCAT 59.556 33.333 0.00 0.00 0.00 3.41
2117 2524 6.780706 TCGTCTAAAACTTTGACTTCCATC 57.219 37.500 0.00 0.00 0.00 3.51
2118 2525 6.522054 TCGTCTAAAACTTTGACTTCCATCT 58.478 36.000 0.00 0.00 0.00 2.90
2119 2526 6.990349 TCGTCTAAAACTTTGACTTCCATCTT 59.010 34.615 0.00 0.00 0.00 2.40
2120 2527 7.170998 TCGTCTAAAACTTTGACTTCCATCTTC 59.829 37.037 0.00 0.00 0.00 2.87
2121 2528 7.571428 CGTCTAAAACTTTGACTTCCATCTTCC 60.571 40.741 0.00 0.00 0.00 3.46
2123 2530 6.983906 AAAACTTTGACTTCCATCTTCCAT 57.016 33.333 0.00 0.00 0.00 3.41
2124 2531 5.972107 AACTTTGACTTCCATCTTCCATG 57.028 39.130 0.00 0.00 0.00 3.66
2165 2572 2.894765 TCATGTCTCGACCACTGGTTTA 59.105 45.455 1.13 0.00 35.25 2.01
2169 2576 3.504906 TGTCTCGACCACTGGTTTAGTAG 59.495 47.826 1.13 0.00 37.60 2.57
2170 2577 3.087031 TCTCGACCACTGGTTTAGTAGG 58.913 50.000 1.13 0.00 37.60 3.18
2171 2578 3.087031 CTCGACCACTGGTTTAGTAGGA 58.913 50.000 1.13 0.00 37.60 2.94
2172 2579 3.700038 CTCGACCACTGGTTTAGTAGGAT 59.300 47.826 1.13 0.00 37.60 3.24
2174 2581 5.263599 TCGACCACTGGTTTAGTAGGATTA 58.736 41.667 1.13 0.00 37.60 1.75
2175 2582 5.359009 TCGACCACTGGTTTAGTAGGATTAG 59.641 44.000 1.13 0.00 37.60 1.73
2177 2584 6.319658 CGACCACTGGTTTAGTAGGATTAGTA 59.680 42.308 1.13 0.00 37.60 1.82
2178 2585 7.468357 CGACCACTGGTTTAGTAGGATTAGTAG 60.468 44.444 1.13 0.00 37.60 2.57
2179 2586 6.097981 ACCACTGGTTTAGTAGGATTAGTAGC 59.902 42.308 0.00 0.00 37.60 3.58
2182 2589 7.012704 CACTGGTTTAGTAGGATTAGTAGCGTA 59.987 40.741 0.00 0.00 37.60 4.42
2183 2590 7.228308 ACTGGTTTAGTAGGATTAGTAGCGTAG 59.772 40.741 0.00 0.00 38.04 3.51
2184 2591 7.282585 TGGTTTAGTAGGATTAGTAGCGTAGA 58.717 38.462 0.00 0.00 0.00 2.59
2185 2592 7.775093 TGGTTTAGTAGGATTAGTAGCGTAGAA 59.225 37.037 0.00 0.00 0.00 2.10
2186 2593 8.791675 GGTTTAGTAGGATTAGTAGCGTAGAAT 58.208 37.037 0.00 0.00 0.00 2.40
2189 2596 7.820578 AGTAGGATTAGTAGCGTAGAATTGT 57.179 36.000 0.00 0.00 0.00 2.71
2229 2636 5.564259 GCAAGCATCAATCAACTCTGAAACT 60.564 40.000 0.00 0.00 34.49 2.66
2237 2644 4.077300 TCAACTCTGAAACTGACATGCT 57.923 40.909 0.00 0.00 0.00 3.79
2245 2652 5.011023 TCTGAAACTGACATGCTCTAGTTCA 59.989 40.000 0.00 0.00 32.61 3.18
2248 2655 7.559486 TGAAACTGACATGCTCTAGTTCATAT 58.441 34.615 0.00 0.00 32.61 1.78
2310 2717 2.426522 CTCGTTCCAGCCTTTGAATCA 58.573 47.619 0.00 0.00 0.00 2.57
2324 2741 2.004733 TGAATCAACAGATGCTCGCAG 58.995 47.619 0.00 0.00 0.00 5.18
2332 2749 1.143620 GATGCTCGCAGCTTCCTCT 59.856 57.895 0.00 0.00 42.97 3.69
2333 2750 0.461693 GATGCTCGCAGCTTCCTCTT 60.462 55.000 0.00 0.00 42.97 2.85
2334 2751 0.035630 ATGCTCGCAGCTTCCTCTTT 60.036 50.000 9.12 0.00 42.97 2.52
2340 2757 1.355066 GCAGCTTCCTCTTTCGTCCG 61.355 60.000 0.00 0.00 0.00 4.79
2342 2759 0.244178 AGCTTCCTCTTTCGTCCGTC 59.756 55.000 0.00 0.00 0.00 4.79
2376 2799 4.333649 TCAATCAGCATTTCAGATTCCGTC 59.666 41.667 0.00 0.00 29.74 4.79
2377 2800 3.333029 TCAGCATTTCAGATTCCGTCA 57.667 42.857 0.00 0.00 0.00 4.35
2432 2857 7.565323 AATCAATCTTGAATCTTCCTACAGC 57.435 36.000 0.00 0.00 41.13 4.40
2433 2858 6.053632 TCAATCTTGAATCTTCCTACAGCA 57.946 37.500 0.00 0.00 33.55 4.41
2859 3300 1.524482 GGACACCTGAGCCTGATCC 59.476 63.158 0.00 0.00 0.00 3.36
2864 3305 0.252421 ACCTGAGCCTGATCCTGTGA 60.252 55.000 0.00 0.00 0.00 3.58
2866 3307 1.406614 CCTGAGCCTGATCCTGTGAAC 60.407 57.143 0.00 0.00 0.00 3.18
2867 3308 1.554160 CTGAGCCTGATCCTGTGAACT 59.446 52.381 0.00 0.00 0.00 3.01
2868 3309 1.980765 TGAGCCTGATCCTGTGAACTT 59.019 47.619 0.00 0.00 0.00 2.66
2869 3310 2.289882 TGAGCCTGATCCTGTGAACTTG 60.290 50.000 0.00 0.00 0.00 3.16
2870 3311 0.807496 GCCTGATCCTGTGAACTTGC 59.193 55.000 0.00 0.00 0.00 4.01
2871 3312 1.883638 GCCTGATCCTGTGAACTTGCA 60.884 52.381 0.00 0.00 0.00 4.08
2872 3313 2.719739 CCTGATCCTGTGAACTTGCAT 58.280 47.619 0.00 0.00 0.00 3.96
2873 3314 3.087031 CCTGATCCTGTGAACTTGCATT 58.913 45.455 0.00 0.00 0.00 3.56
2874 3315 3.119602 CCTGATCCTGTGAACTTGCATTG 60.120 47.826 0.00 0.00 0.00 2.82
2875 3316 3.489355 TGATCCTGTGAACTTGCATTGT 58.511 40.909 0.00 0.00 0.00 2.71
2876 3317 4.650734 TGATCCTGTGAACTTGCATTGTA 58.349 39.130 0.00 0.00 0.00 2.41
2877 3318 4.455533 TGATCCTGTGAACTTGCATTGTAC 59.544 41.667 0.00 0.00 0.00 2.90
2878 3319 2.805671 TCCTGTGAACTTGCATTGTACG 59.194 45.455 0.00 0.00 0.00 3.67
2879 3320 2.548057 CCTGTGAACTTGCATTGTACGT 59.452 45.455 0.00 0.00 0.00 3.57
2889 3330 0.521291 CATTGTACGTGGGCTGGTTG 59.479 55.000 0.00 0.00 0.00 3.77
2893 3334 1.071814 TACGTGGGCTGGTTGGTTC 59.928 57.895 0.00 0.00 0.00 3.62
2896 3337 0.322098 CGTGGGCTGGTTGGTTCATA 60.322 55.000 0.00 0.00 0.00 2.15
2897 3338 1.463674 GTGGGCTGGTTGGTTCATAG 58.536 55.000 0.00 0.00 0.00 2.23
2898 3339 1.072266 TGGGCTGGTTGGTTCATAGT 58.928 50.000 0.00 0.00 0.00 2.12
2899 3340 2.026636 GTGGGCTGGTTGGTTCATAGTA 60.027 50.000 0.00 0.00 0.00 1.82
2900 3341 2.238646 TGGGCTGGTTGGTTCATAGTAG 59.761 50.000 0.00 0.00 0.00 2.57
2902 3343 3.453353 GGGCTGGTTGGTTCATAGTAGTA 59.547 47.826 0.00 0.00 0.00 1.82
2903 3344 4.439968 GGCTGGTTGGTTCATAGTAGTAC 58.560 47.826 0.00 0.00 0.00 2.73
2904 3345 4.161754 GGCTGGTTGGTTCATAGTAGTACT 59.838 45.833 8.14 8.14 0.00 2.73
2905 3346 5.349809 GCTGGTTGGTTCATAGTAGTACTC 58.650 45.833 5.96 0.00 0.00 2.59
2923 3383 9.134055 GTAGTACTCCTATTTCATAGTGGAAGT 57.866 37.037 0.00 0.00 0.00 3.01
2928 3388 9.884814 ACTCCTATTTCATAGTGGAAGTATACT 57.115 33.333 0.00 0.00 29.53 2.12
2937 3397 7.563924 TCATAGTGGAAGTATACTGGTAGCTTT 59.436 37.037 6.06 0.00 29.53 3.51
2991 3453 6.758416 TGCTGTGATAAGAGCTGTTTACATAG 59.242 38.462 0.00 10.88 36.11 2.23
2992 3454 6.980978 GCTGTGATAAGAGCTGTTTACATAGA 59.019 38.462 20.67 0.00 32.12 1.98
2993 3455 7.655328 GCTGTGATAAGAGCTGTTTACATAGAT 59.345 37.037 20.67 2.66 32.12 1.98
2994 3456 9.539825 CTGTGATAAGAGCTGTTTACATAGATT 57.460 33.333 15.42 0.00 0.00 2.40
3008 3470 9.577003 GTTTACATAGATTAGTAAATTTCGCCG 57.423 33.333 0.00 0.00 40.88 6.46
3009 3471 9.531942 TTTACATAGATTAGTAAATTTCGCCGA 57.468 29.630 0.00 0.00 35.83 5.54
3010 3472 7.639162 ACATAGATTAGTAAATTTCGCCGAG 57.361 36.000 0.00 0.00 0.00 4.63
3011 3473 7.208080 ACATAGATTAGTAAATTTCGCCGAGT 58.792 34.615 0.00 0.00 0.00 4.18
3012 3474 7.381678 ACATAGATTAGTAAATTTCGCCGAGTC 59.618 37.037 0.00 0.00 0.00 3.36
3013 3475 5.903810 AGATTAGTAAATTTCGCCGAGTCT 58.096 37.500 0.00 0.00 0.00 3.24
3014 3476 5.978322 AGATTAGTAAATTTCGCCGAGTCTC 59.022 40.000 0.00 0.00 0.00 3.36
3015 3477 3.870633 AGTAAATTTCGCCGAGTCTCT 57.129 42.857 0.00 0.00 0.00 3.10
3016 3478 4.189639 AGTAAATTTCGCCGAGTCTCTT 57.810 40.909 0.00 0.00 0.00 2.85
3017 3479 5.320549 AGTAAATTTCGCCGAGTCTCTTA 57.679 39.130 0.00 0.00 0.00 2.10
3018 3480 5.717119 AGTAAATTTCGCCGAGTCTCTTAA 58.283 37.500 0.00 0.00 0.00 1.85
3019 3481 6.161381 AGTAAATTTCGCCGAGTCTCTTAAA 58.839 36.000 0.00 0.00 0.00 1.52
3020 3482 6.817140 AGTAAATTTCGCCGAGTCTCTTAAAT 59.183 34.615 0.00 0.00 0.00 1.40
3021 3483 7.977853 AGTAAATTTCGCCGAGTCTCTTAAATA 59.022 33.333 0.00 0.00 0.00 1.40
3022 3484 6.585389 AATTTCGCCGAGTCTCTTAAATAC 57.415 37.500 0.00 0.00 0.00 1.89
3023 3485 4.707030 TTCGCCGAGTCTCTTAAATACA 57.293 40.909 0.00 0.00 0.00 2.29
3024 3486 4.288670 TCGCCGAGTCTCTTAAATACAG 57.711 45.455 0.00 0.00 0.00 2.74
3025 3487 3.066342 TCGCCGAGTCTCTTAAATACAGG 59.934 47.826 0.00 0.00 0.00 4.00
3026 3488 3.124560 GCCGAGTCTCTTAAATACAGGC 58.875 50.000 0.00 0.00 34.00 4.85
3027 3489 3.372954 CCGAGTCTCTTAAATACAGGCG 58.627 50.000 0.00 0.00 0.00 5.52
3028 3490 3.066342 CCGAGTCTCTTAAATACAGGCGA 59.934 47.826 0.00 0.00 0.00 5.54
3029 3491 4.439700 CCGAGTCTCTTAAATACAGGCGAA 60.440 45.833 0.00 0.00 0.00 4.70
3030 3492 5.100259 CGAGTCTCTTAAATACAGGCGAAA 58.900 41.667 0.00 0.00 0.00 3.46
3031 3493 5.575606 CGAGTCTCTTAAATACAGGCGAAAA 59.424 40.000 0.00 0.00 0.00 2.29
3032 3494 6.453922 CGAGTCTCTTAAATACAGGCGAAAAC 60.454 42.308 0.00 0.00 0.00 2.43
3033 3495 6.228258 AGTCTCTTAAATACAGGCGAAAACA 58.772 36.000 0.00 0.00 0.00 2.83
3034 3496 6.147328 AGTCTCTTAAATACAGGCGAAAACAC 59.853 38.462 0.00 0.00 0.00 3.32
3035 3497 5.119588 TCTCTTAAATACAGGCGAAAACACG 59.880 40.000 0.00 0.00 0.00 4.49
3047 3509 4.238129 CGAAAACACGCAACAAAATTGT 57.762 36.364 0.00 0.00 44.72 2.71
3048 3510 4.012111 CGAAAACACGCAACAAAATTGTG 58.988 39.130 0.00 0.00 41.31 3.33
3049 3511 4.201532 CGAAAACACGCAACAAAATTGTGA 60.202 37.500 1.62 0.00 41.31 3.58
3050 3512 5.597813 AAAACACGCAACAAAATTGTGAA 57.402 30.435 1.62 0.00 41.31 3.18
3051 3513 5.597813 AAACACGCAACAAAATTGTGAAA 57.402 30.435 1.62 0.00 41.31 2.69
3052 3514 5.793026 AACACGCAACAAAATTGTGAAAT 57.207 30.435 1.62 0.00 41.31 2.17
3053 3515 5.793026 ACACGCAACAAAATTGTGAAATT 57.207 30.435 1.62 0.00 41.31 1.82
3054 3516 6.893958 ACACGCAACAAAATTGTGAAATTA 57.106 29.167 1.62 0.00 41.31 1.40
3055 3517 7.475771 ACACGCAACAAAATTGTGAAATTAT 57.524 28.000 1.62 0.00 41.31 1.28
3056 3518 7.563270 ACACGCAACAAAATTGTGAAATTATC 58.437 30.769 1.62 0.00 41.31 1.75
3057 3519 6.727095 CACGCAACAAAATTGTGAAATTATCG 59.273 34.615 1.62 0.00 41.31 2.92
3058 3520 6.419413 ACGCAACAAAATTGTGAAATTATCGT 59.581 30.769 1.62 0.00 41.31 3.73
3523 3986 3.443681 CCGTTCCACCAGAGCATAAAATT 59.556 43.478 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.873591 ACGTCAGGACAAGCAATCAAC 59.126 47.619 0.00 0.00 0.00 3.18
82 88 2.430244 CTGCTTGCTTGCCTTGCG 60.430 61.111 0.00 0.00 0.00 4.85
83 89 2.737376 GCTGCTTGCTTGCCTTGC 60.737 61.111 0.00 0.00 38.95 4.01
84 90 1.663702 GTGCTGCTTGCTTGCCTTG 60.664 57.895 0.00 0.00 43.37 3.61
85 91 1.469335 ATGTGCTGCTTGCTTGCCTT 61.469 50.000 0.00 0.00 43.37 4.35
86 92 1.874345 GATGTGCTGCTTGCTTGCCT 61.874 55.000 0.00 0.00 43.37 4.75
87 93 1.445582 GATGTGCTGCTTGCTTGCC 60.446 57.895 0.00 2.61 43.37 4.52
88 94 1.445582 GGATGTGCTGCTTGCTTGC 60.446 57.895 0.00 0.00 43.37 4.01
89 95 1.154093 CGGATGTGCTGCTTGCTTG 60.154 57.895 0.00 0.00 43.37 4.01
90 96 0.890542 TTCGGATGTGCTGCTTGCTT 60.891 50.000 0.00 0.00 43.37 3.91
157 183 6.879188 TTTGTTTTTGAAATGGAGTTCGTC 57.121 33.333 0.00 0.00 0.00 4.20
281 527 1.866237 GAATCAACGCCGTGAGCAA 59.134 52.632 0.00 0.00 44.04 3.91
298 544 2.991190 GCGTCTCCATTAACAAACTCGA 59.009 45.455 0.00 0.00 0.00 4.04
351 597 5.050363 TGCTTAAGATTGATAAATCCGACGC 60.050 40.000 6.67 0.00 0.00 5.19
478 727 2.432874 TGTGTAGTAACCCCGGATCATG 59.567 50.000 0.73 0.00 0.00 3.07
480 729 1.826720 GTGTGTAGTAACCCCGGATCA 59.173 52.381 0.73 0.00 0.00 2.92
481 730 1.826720 TGTGTGTAGTAACCCCGGATC 59.173 52.381 0.73 0.00 0.00 3.36
482 731 1.551883 GTGTGTGTAGTAACCCCGGAT 59.448 52.381 0.73 0.00 0.00 4.18
483 732 0.968405 GTGTGTGTAGTAACCCCGGA 59.032 55.000 0.73 0.00 0.00 5.14
484 733 0.680618 TGTGTGTGTAGTAACCCCGG 59.319 55.000 0.00 0.00 0.00 5.73
485 734 1.938016 GCTGTGTGTGTAGTAACCCCG 60.938 57.143 0.00 0.00 0.00 5.73
487 736 2.140717 GTGCTGTGTGTGTAGTAACCC 58.859 52.381 0.00 0.00 0.00 4.11
488 737 2.800544 CTGTGCTGTGTGTGTAGTAACC 59.199 50.000 0.00 0.00 0.00 2.85
489 738 2.800544 CCTGTGCTGTGTGTGTAGTAAC 59.199 50.000 0.00 0.00 0.00 2.50
490 739 2.432874 ACCTGTGCTGTGTGTGTAGTAA 59.567 45.455 0.00 0.00 0.00 2.24
492 741 0.830648 ACCTGTGCTGTGTGTGTAGT 59.169 50.000 0.00 0.00 0.00 2.73
493 742 1.502231 GACCTGTGCTGTGTGTGTAG 58.498 55.000 0.00 0.00 0.00 2.74
494 743 0.105964 GGACCTGTGCTGTGTGTGTA 59.894 55.000 0.00 0.00 0.00 2.90
495 744 1.153168 GGACCTGTGCTGTGTGTGT 60.153 57.895 0.00 0.00 0.00 3.72
496 745 0.747644 TTGGACCTGTGCTGTGTGTG 60.748 55.000 0.00 0.00 0.00 3.82
503 752 4.335647 CGGCCTTGGACCTGTGCT 62.336 66.667 0.00 0.00 0.00 4.40
588 850 2.824041 GGGCGGTAGTACGACGGA 60.824 66.667 16.07 0.00 44.54 4.69
620 883 0.381089 CGTCCTAGTGGAAGTAGCCG 59.619 60.000 0.00 0.00 45.18 5.52
622 885 2.688958 ACATCGTCCTAGTGGAAGTAGC 59.311 50.000 0.00 0.00 45.18 3.58
635 898 1.447140 TGGCGCTTGTACATCGTCC 60.447 57.895 16.50 16.60 0.00 4.79
640 903 1.072332 TGGTGTGGCGCTTGTACAT 59.928 52.632 7.64 0.00 0.00 2.29
641 904 1.890041 GTGGTGTGGCGCTTGTACA 60.890 57.895 7.64 5.27 0.00 2.90
643 906 2.281208 GGTGGTGTGGCGCTTGTA 60.281 61.111 7.64 0.00 0.00 2.41
673 936 1.165270 GTCATCCTTTTCGTGGGGTG 58.835 55.000 0.00 0.00 35.20 4.61
685 948 1.990060 CCGACAGGTGGGTCATCCT 60.990 63.158 0.00 0.00 37.66 3.24
688 951 4.082523 CGCCGACAGGTGGGTCAT 62.083 66.667 2.40 0.00 44.11 3.06
709 973 1.227263 AGGTGAGTCGTGTGCACAC 60.227 57.895 35.04 35.04 43.15 3.82
710 974 1.227234 CAGGTGAGTCGTGTGCACA 60.227 57.895 17.42 17.42 34.33 4.57
733 997 1.825474 ACGAGGATTCACGAGACCATT 59.175 47.619 0.00 0.00 0.00 3.16
743 1007 1.262417 TGTACTGGCACGAGGATTCA 58.738 50.000 0.00 0.00 0.00 2.57
893 1165 1.278413 GAGGGAGGGGATTTATACCGC 59.722 57.143 0.00 0.00 40.04 5.68
1026 1298 0.689412 GGAACAGGAGGAGGAGGAGG 60.689 65.000 0.00 0.00 0.00 4.30
1027 1299 0.338120 AGGAACAGGAGGAGGAGGAG 59.662 60.000 0.00 0.00 0.00 3.69
1028 1300 0.336737 GAGGAACAGGAGGAGGAGGA 59.663 60.000 0.00 0.00 0.00 3.71
1294 1572 3.136123 GTGCATCATGGCGGTGCT 61.136 61.111 12.21 0.00 39.52 4.40
1591 1902 1.254975 ATTTAACCCAACGCCCAGCC 61.255 55.000 0.00 0.00 0.00 4.85
1617 1945 2.586258 AACAGTAGCATAGGACGCAG 57.414 50.000 0.00 0.00 0.00 5.18
1628 1956 7.358683 GCAAATTTCTTCATGACAAACAGTAGC 60.359 37.037 0.00 0.00 0.00 3.58
1632 1960 6.292488 GGTGCAAATTTCTTCATGACAAACAG 60.292 38.462 0.00 0.00 0.00 3.16
1692 2020 8.310406 TGTTAACAGCGGATTATGATCATTAG 57.690 34.615 14.65 2.70 33.77 1.73
1708 2110 3.161866 TCCCCTGGAAATTGTTAACAGC 58.838 45.455 8.56 0.38 0.00 4.40
1714 2116 1.928868 CAGCTCCCCTGGAAATTGTT 58.071 50.000 0.00 0.00 37.93 2.83
1819 2225 5.633182 TGACTGTCACAAAGCAAAAGAAAAC 59.367 36.000 6.36 0.00 0.00 2.43
1824 2230 3.699067 CCTGACTGTCACAAAGCAAAAG 58.301 45.455 6.36 0.00 0.00 2.27
2070 2477 1.486211 AGGACGTCCTATCCCACTTG 58.514 55.000 35.59 0.00 46.48 3.16
2088 2495 7.798982 GGAAGTCAAAGTTTTAGACGATTCAAG 59.201 37.037 0.00 0.00 37.36 3.02
2099 2506 7.723616 TCATGGAAGATGGAAGTCAAAGTTTTA 59.276 33.333 0.00 0.00 0.00 1.52
2104 2511 5.494724 TCTCATGGAAGATGGAAGTCAAAG 58.505 41.667 0.00 0.00 0.00 2.77
2118 2525 6.490241 TGCAGATATCTTCTTCTCATGGAA 57.510 37.500 1.33 0.00 29.93 3.53
2119 2526 6.497606 AGATGCAGATATCTTCTTCTCATGGA 59.502 38.462 12.89 0.00 33.74 3.41
2120 2527 6.703319 AGATGCAGATATCTTCTTCTCATGG 58.297 40.000 12.89 0.00 33.74 3.66
2121 2528 7.379750 TGAGATGCAGATATCTTCTTCTCATG 58.620 38.462 29.99 11.03 41.57 3.07
2123 2530 6.973460 TGAGATGCAGATATCTTCTTCTCA 57.027 37.500 29.99 29.99 42.93 3.27
2124 2531 7.380536 ACATGAGATGCAGATATCTTCTTCTC 58.619 38.462 27.04 27.04 39.25 2.87
2134 2541 3.254411 GGTCGAGACATGAGATGCAGATA 59.746 47.826 0.00 0.00 0.00 1.98
2165 2572 7.820578 ACAATTCTACGCTACTAATCCTACT 57.179 36.000 0.00 0.00 0.00 2.57
2169 2576 7.273815 GCATCTACAATTCTACGCTACTAATCC 59.726 40.741 0.00 0.00 0.00 3.01
2170 2577 8.024285 AGCATCTACAATTCTACGCTACTAATC 58.976 37.037 0.00 0.00 0.00 1.75
2171 2578 7.887381 AGCATCTACAATTCTACGCTACTAAT 58.113 34.615 0.00 0.00 0.00 1.73
2172 2579 7.273320 AGCATCTACAATTCTACGCTACTAA 57.727 36.000 0.00 0.00 0.00 2.24
2174 2581 5.776173 AGCATCTACAATTCTACGCTACT 57.224 39.130 0.00 0.00 0.00 2.57
2175 2582 5.332656 GCAAGCATCTACAATTCTACGCTAC 60.333 44.000 0.00 0.00 0.00 3.58
2177 2584 3.557595 GCAAGCATCTACAATTCTACGCT 59.442 43.478 0.00 0.00 0.00 5.07
2178 2585 3.309682 TGCAAGCATCTACAATTCTACGC 59.690 43.478 0.00 0.00 0.00 4.42
2179 2586 5.063944 ACTTGCAAGCATCTACAATTCTACG 59.936 40.000 26.27 0.00 0.00 3.51
2182 2589 5.706916 CAACTTGCAAGCATCTACAATTCT 58.293 37.500 26.27 0.00 0.00 2.40
2183 2590 4.325472 GCAACTTGCAAGCATCTACAATTC 59.675 41.667 26.27 1.44 44.26 2.17
2184 2591 4.240096 GCAACTTGCAAGCATCTACAATT 58.760 39.130 26.27 6.84 44.26 2.32
2185 2592 3.841643 GCAACTTGCAAGCATCTACAAT 58.158 40.909 26.27 0.04 44.26 2.71
2186 2593 3.287312 GCAACTTGCAAGCATCTACAA 57.713 42.857 26.27 0.00 44.26 2.41
2187 2594 2.995466 GCAACTTGCAAGCATCTACA 57.005 45.000 26.27 0.00 44.26 2.74
2209 2616 5.049198 TGTCAGTTTCAGAGTTGATTGATGC 60.049 40.000 0.00 0.00 32.27 3.91
2229 2636 5.510349 GCTGGATATGAACTAGAGCATGTCA 60.510 44.000 19.32 11.29 35.23 3.58
2237 2644 5.133941 AGACGAAGCTGGATATGAACTAGA 58.866 41.667 0.00 0.00 0.00 2.43
2245 2652 2.625790 GGACTGAGACGAAGCTGGATAT 59.374 50.000 0.00 0.00 0.00 1.63
2248 2655 0.539669 TGGACTGAGACGAAGCTGGA 60.540 55.000 0.00 0.00 0.00 3.86
2310 2717 1.023513 GGAAGCTGCGAGCATCTGTT 61.024 55.000 2.01 0.00 45.56 3.16
2324 2741 1.071567 CGACGGACGAAAGAGGAAGC 61.072 60.000 0.00 0.00 45.77 3.86
2340 2757 1.986378 CTGATTGAAGTGGACGTCGAC 59.014 52.381 21.56 21.56 0.00 4.20
2342 2759 0.716108 GCTGATTGAAGTGGACGTCG 59.284 55.000 9.92 0.00 0.00 5.12
2345 2762 3.189080 TGAAATGCTGATTGAAGTGGACG 59.811 43.478 0.00 0.00 0.00 4.79
2432 2857 2.927477 GCAATGCCAATGTTGATCAGTG 59.073 45.455 0.00 9.39 41.14 3.66
2433 2858 2.563620 TGCAATGCCAATGTTGATCAGT 59.436 40.909 1.53 0.00 0.00 3.41
2851 3292 0.807496 GCAAGTTCACAGGATCAGGC 59.193 55.000 0.00 0.00 0.00 4.85
2859 3300 3.544651 CACGTACAATGCAAGTTCACAG 58.455 45.455 0.00 0.00 0.00 3.66
2864 3305 0.596082 GCCCACGTACAATGCAAGTT 59.404 50.000 0.00 0.00 0.00 2.66
2866 3307 0.168788 CAGCCCACGTACAATGCAAG 59.831 55.000 0.00 0.00 0.00 4.01
2867 3308 1.240641 CCAGCCCACGTACAATGCAA 61.241 55.000 0.00 0.00 0.00 4.08
2868 3309 1.673993 CCAGCCCACGTACAATGCA 60.674 57.895 0.00 0.00 0.00 3.96
2869 3310 1.241315 AACCAGCCCACGTACAATGC 61.241 55.000 0.00 0.00 0.00 3.56
2870 3311 0.521291 CAACCAGCCCACGTACAATG 59.479 55.000 0.00 0.00 0.00 2.82
2871 3312 0.608035 CCAACCAGCCCACGTACAAT 60.608 55.000 0.00 0.00 0.00 2.71
2872 3313 1.228003 CCAACCAGCCCACGTACAA 60.228 57.895 0.00 0.00 0.00 2.41
2873 3314 1.985460 AACCAACCAGCCCACGTACA 61.985 55.000 0.00 0.00 0.00 2.90
2874 3315 1.228033 AACCAACCAGCCCACGTAC 60.228 57.895 0.00 0.00 0.00 3.67
2875 3316 1.071814 GAACCAACCAGCCCACGTA 59.928 57.895 0.00 0.00 0.00 3.57
2876 3317 2.203294 GAACCAACCAGCCCACGT 60.203 61.111 0.00 0.00 0.00 4.49
2877 3318 0.322098 TATGAACCAACCAGCCCACG 60.322 55.000 0.00 0.00 0.00 4.94
2878 3319 1.271926 ACTATGAACCAACCAGCCCAC 60.272 52.381 0.00 0.00 0.00 4.61
2879 3320 1.072266 ACTATGAACCAACCAGCCCA 58.928 50.000 0.00 0.00 0.00 5.36
2919 3379 9.694137 CCTACATTAAAGCTACCAGTATACTTC 57.306 37.037 1.56 0.00 0.00 3.01
2923 3383 7.850935 AGCCTACATTAAAGCTACCAGTATA 57.149 36.000 0.00 0.00 32.73 1.47
2928 3388 5.763204 GCAATAGCCTACATTAAAGCTACCA 59.237 40.000 0.00 0.00 40.41 3.25
2929 3389 6.242508 GCAATAGCCTACATTAAAGCTACC 57.757 41.667 0.00 0.00 40.41 3.18
2991 3453 5.978322 AGAGACTCGGCGAAATTTACTAATC 59.022 40.000 12.13 0.00 0.00 1.75
2992 3454 5.903810 AGAGACTCGGCGAAATTTACTAAT 58.096 37.500 12.13 0.00 0.00 1.73
2993 3455 5.320549 AGAGACTCGGCGAAATTTACTAA 57.679 39.130 12.13 0.00 0.00 2.24
2994 3456 4.978083 AGAGACTCGGCGAAATTTACTA 57.022 40.909 12.13 0.00 0.00 1.82
2995 3457 3.870633 AGAGACTCGGCGAAATTTACT 57.129 42.857 12.13 4.06 0.00 2.24
2996 3458 6.399204 TTTAAGAGACTCGGCGAAATTTAC 57.601 37.500 12.13 0.75 0.00 2.01
2997 3459 7.760794 TGTATTTAAGAGACTCGGCGAAATTTA 59.239 33.333 12.13 3.20 0.00 1.40
2998 3460 6.592607 TGTATTTAAGAGACTCGGCGAAATTT 59.407 34.615 12.13 4.18 0.00 1.82
2999 3461 6.103997 TGTATTTAAGAGACTCGGCGAAATT 58.896 36.000 12.13 4.12 0.00 1.82
3000 3462 5.657474 TGTATTTAAGAGACTCGGCGAAAT 58.343 37.500 12.13 7.72 0.00 2.17
3001 3463 5.063180 TGTATTTAAGAGACTCGGCGAAA 57.937 39.130 12.13 0.00 0.00 3.46
3002 3464 4.439700 CCTGTATTTAAGAGACTCGGCGAA 60.440 45.833 12.13 0.00 0.00 4.70
3003 3465 3.066342 CCTGTATTTAAGAGACTCGGCGA 59.934 47.826 10.14 10.14 0.00 5.54
3004 3466 3.372954 CCTGTATTTAAGAGACTCGGCG 58.627 50.000 0.00 0.00 0.00 6.46
3005 3467 3.124560 GCCTGTATTTAAGAGACTCGGC 58.875 50.000 0.00 0.00 0.00 5.54
3006 3468 3.066342 TCGCCTGTATTTAAGAGACTCGG 59.934 47.826 0.00 0.00 0.00 4.63
3007 3469 4.288670 TCGCCTGTATTTAAGAGACTCG 57.711 45.455 0.00 0.00 0.00 4.18
3008 3470 6.367969 TGTTTTCGCCTGTATTTAAGAGACTC 59.632 38.462 0.00 0.00 0.00 3.36
3009 3471 6.147328 GTGTTTTCGCCTGTATTTAAGAGACT 59.853 38.462 0.00 0.00 0.00 3.24
3010 3472 6.304882 GTGTTTTCGCCTGTATTTAAGAGAC 58.695 40.000 0.00 0.00 0.00 3.36
3011 3473 5.119588 CGTGTTTTCGCCTGTATTTAAGAGA 59.880 40.000 0.00 0.00 0.00 3.10
3012 3474 5.313623 CGTGTTTTCGCCTGTATTTAAGAG 58.686 41.667 0.00 0.00 0.00 2.85
3013 3475 5.272167 CGTGTTTTCGCCTGTATTTAAGA 57.728 39.130 0.00 0.00 0.00 2.10
3024 3486 6.466878 ACAATTTTGTTGCGTGTTTTCGCC 62.467 41.667 8.51 0.00 43.63 5.54
3025 3487 3.482760 ACAATTTTGTTGCGTGTTTTCGC 60.483 39.130 4.12 4.12 43.31 4.70
3026 3488 4.012111 CACAATTTTGTTGCGTGTTTTCG 58.988 39.130 0.00 0.00 39.91 3.46
3027 3489 5.196809 TCACAATTTTGTTGCGTGTTTTC 57.803 34.783 0.00 0.00 39.91 2.29
3028 3490 5.597813 TTCACAATTTTGTTGCGTGTTTT 57.402 30.435 0.00 0.00 39.91 2.43
3029 3491 5.597813 TTTCACAATTTTGTTGCGTGTTT 57.402 30.435 0.00 0.00 39.91 2.83
3030 3492 5.793026 ATTTCACAATTTTGTTGCGTGTT 57.207 30.435 0.00 0.00 39.91 3.32
3031 3493 5.793026 AATTTCACAATTTTGTTGCGTGT 57.207 30.435 0.00 0.00 39.91 4.49
3032 3494 6.727095 CGATAATTTCACAATTTTGTTGCGTG 59.273 34.615 0.00 0.00 39.91 5.34
3033 3495 6.419413 ACGATAATTTCACAATTTTGTTGCGT 59.581 30.769 0.00 0.00 39.91 5.24
3034 3496 6.806246 ACGATAATTTCACAATTTTGTTGCG 58.194 32.000 0.00 0.00 39.91 4.85
3035 3497 8.986039 AAACGATAATTTCACAATTTTGTTGC 57.014 26.923 0.00 0.00 39.91 4.17
3047 3509 9.512435 GCACTCTACTAGTAAACGATAATTTCA 57.488 33.333 3.76 0.00 35.76 2.69
3048 3510 8.966194 GGCACTCTACTAGTAAACGATAATTTC 58.034 37.037 3.76 0.00 35.76 2.17
3049 3511 7.924947 GGGCACTCTACTAGTAAACGATAATTT 59.075 37.037 3.76 0.00 35.76 1.82
3050 3512 7.432059 GGGCACTCTACTAGTAAACGATAATT 58.568 38.462 3.76 0.00 35.76 1.40
3051 3513 6.293845 CGGGCACTCTACTAGTAAACGATAAT 60.294 42.308 3.76 0.00 35.76 1.28
3052 3514 5.008019 CGGGCACTCTACTAGTAAACGATAA 59.992 44.000 3.76 0.00 35.76 1.75
3053 3515 4.512944 CGGGCACTCTACTAGTAAACGATA 59.487 45.833 3.76 0.00 35.76 2.92
3054 3516 3.314635 CGGGCACTCTACTAGTAAACGAT 59.685 47.826 3.76 0.00 35.76 3.73
3055 3517 2.679837 CGGGCACTCTACTAGTAAACGA 59.320 50.000 3.76 0.00 35.76 3.85
3056 3518 2.421424 ACGGGCACTCTACTAGTAAACG 59.579 50.000 3.76 4.05 35.76 3.60
3057 3519 3.767278 CACGGGCACTCTACTAGTAAAC 58.233 50.000 3.76 0.00 35.76 2.01
3058 3520 2.165030 GCACGGGCACTCTACTAGTAAA 59.835 50.000 3.77 0.00 40.72 2.01
3223 3686 3.937814 TCGCTCAGTTTGTTACATGGAT 58.062 40.909 0.00 0.00 0.00 3.41
3523 3986 9.267084 GGAATTTGTCTGGCTATTTTGTTTTTA 57.733 29.630 0.00 0.00 0.00 1.52


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

AutoCloner maintained by Alex Coulton.