Multiple sequence alignment - TraesCS5D01G328200

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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 TraesCS5D01G328200 chr5D 100.000 4438 0 0 1 4438 420869376 420873813 0.000000e+00 8196.0
1 TraesCS5D01G328200 chr5D 88.889 153 15 2 176 327 420869460 420869611 2.110000e-43 187.0
2 TraesCS5D01G328200 chr5D 88.889 153 15 2 85 236 420869551 420869702 2.110000e-43 187.0
3 TraesCS5D01G328200 chr5B 93.868 1794 77 18 2028 3803 506950165 506951943 0.000000e+00 2673.0
4 TraesCS5D01G328200 chr5B 90.385 1404 77 30 601 1966 506948784 506950167 0.000000e+00 1792.0
5 TraesCS5D01G328200 chr5B 91.457 597 50 1 1 596 506945786 506946382 0.000000e+00 819.0
6 TraesCS5D01G328200 chr5B 91.704 446 18 11 3993 4438 506952110 506952536 6.350000e-168 601.0
7 TraesCS5D01G328200 chr5B 84.456 386 50 8 2061 2440 50344871 50344490 5.420000e-99 372.0
8 TraesCS5D01G328200 chr5B 84.314 153 22 2 85 236 506945961 506946112 9.950000e-32 148.0
9 TraesCS5D01G328200 chr5A 93.566 1803 86 18 2028 3803 534243318 534245117 0.000000e+00 2660.0
10 TraesCS5D01G328200 chr5A 87.165 1418 105 34 586 1966 534241943 534243320 0.000000e+00 1539.0
11 TraesCS5D01G328200 chr5A 90.726 496 43 3 1 493 534241388 534241883 0.000000e+00 658.0
12 TraesCS5D01G328200 chr5A 87.521 609 27 19 3854 4438 534245110 534245693 0.000000e+00 658.0
13 TraesCS5D01G328200 chr5A 91.549 71 5 1 525 594 534241858 534241928 3.650000e-16 97.1
14 TraesCS5D01G328200 chrUn 93.638 1556 80 7 1702 3249 52774921 52773377 0.000000e+00 2307.0
15 TraesCS5D01G328200 chrUn 93.638 1556 80 7 1702 3249 258404128 258405672 0.000000e+00 2307.0
16 TraesCS5D01G328200 chrUn 100.000 43 0 0 1810 1852 40167902 40167860 3.680000e-11 80.5
17 TraesCS5D01G328200 chrUn 100.000 43 0 0 1810 1852 297514881 297514839 3.680000e-11 80.5
18 TraesCS5D01G328200 chr6D 93.923 1333 66 7 1925 3249 299212510 299213835 0.000000e+00 1999.0
19 TraesCS5D01G328200 chr6D 100.000 43 0 0 1810 1852 38471725 38471767 3.680000e-11 80.5
20 TraesCS5D01G328200 chr6A 93.773 1333 65 9 1925 3249 212307822 212309144 0.000000e+00 1986.0
21 TraesCS5D01G328200 chr6A 93.220 59 3 1 4105 4162 517525437 517525495 7.910000e-13 86.1
22 TraesCS5D01G328200 chr6A 100.000 43 0 0 1810 1852 68528199 68528241 3.680000e-11 80.5
23 TraesCS5D01G328200 chr4D 93.623 1333 70 7 1925 3249 69350616 69349291 0.000000e+00 1977.0
24 TraesCS5D01G328200 chr2D 92.423 1333 64 8 1925 3249 476480401 476479098 0.000000e+00 1868.0
25 TraesCS5D01G328200 chr7A 92.491 546 36 4 3163 3704 169760732 169761276 0.000000e+00 776.0
26 TraesCS5D01G328200 chr3B 91.773 547 35 5 3163 3704 218228804 218228263 0.000000e+00 752.0
27 TraesCS5D01G328200 chr3B 91.773 547 35 4 3163 3704 219749706 219749165 0.000000e+00 752.0
28 TraesCS5D01G328200 chr3B 90.842 546 40 5 3163 3704 58466247 58466786 0.000000e+00 723.0
29 TraesCS5D01G328200 chr3B 97.414 116 3 0 2973 3088 58466134 58466249 9.740000e-47 198.0
30 TraesCS5D01G328200 chr1D 93.603 469 25 3 1702 2165 76794947 76795415 0.000000e+00 695.0
31 TraesCS5D01G328200 chr6B 94.915 59 2 1 4105 4162 562098590 562098648 1.700000e-14 91.6
32 TraesCS5D01G328200 chr7B 94.545 55 1 2 4109 4162 162340226 162340173 2.840000e-12 84.2
33 TraesCS5D01G328200 chr4B 91.525 59 3 2 4105 4162 49740393 49740336 3.680000e-11 80.5


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 TraesCS5D01G328200 chr5D 420869376 420873813 4437 False 8196.00 8196 100.0000 1 4438 1 chr5D.!!$F1 4437
1 TraesCS5D01G328200 chr5B 506945786 506952536 6750 False 1206.60 2673 90.3456 1 4438 5 chr5B.!!$F1 4437
2 TraesCS5D01G328200 chr5A 534241388 534245693 4305 False 1122.42 2660 90.1054 1 4438 5 chr5A.!!$F1 4437
3 TraesCS5D01G328200 chrUn 52773377 52774921 1544 True 2307.00 2307 93.6380 1702 3249 1 chrUn.!!$R2 1547
4 TraesCS5D01G328200 chrUn 258404128 258405672 1544 False 2307.00 2307 93.6380 1702 3249 1 chrUn.!!$F1 1547
5 TraesCS5D01G328200 chr6D 299212510 299213835 1325 False 1999.00 1999 93.9230 1925 3249 1 chr6D.!!$F2 1324
6 TraesCS5D01G328200 chr6A 212307822 212309144 1322 False 1986.00 1986 93.7730 1925 3249 1 chr6A.!!$F2 1324
7 TraesCS5D01G328200 chr4D 69349291 69350616 1325 True 1977.00 1977 93.6230 1925 3249 1 chr4D.!!$R1 1324
8 TraesCS5D01G328200 chr2D 476479098 476480401 1303 True 1868.00 1868 92.4230 1925 3249 1 chr2D.!!$R1 1324
9 TraesCS5D01G328200 chr7A 169760732 169761276 544 False 776.00 776 92.4910 3163 3704 1 chr7A.!!$F1 541
10 TraesCS5D01G328200 chr3B 218228263 218228804 541 True 752.00 752 91.7730 3163 3704 1 chr3B.!!$R1 541
11 TraesCS5D01G328200 chr3B 219749165 219749706 541 True 752.00 752 91.7730 3163 3704 1 chr3B.!!$R2 541
12 TraesCS5D01G328200 chr3B 58466134 58466786 652 False 460.50 723 94.1280 2973 3704 2 chr3B.!!$F1 731

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
100 101 0.590195 CCTGTTGCAGCTCTGTCAAC 59.410 55.000 20.10 20.10 42.39 3.18 F
1098 3517 0.249197 GCTTCATCCGGGTACGTACC 60.249 60.000 32.59 32.59 45.71 3.34 F
2046 4521 0.959372 ATGCTGGAGTCTGCTGTTGC 60.959 55.000 9.36 0.00 38.45 4.17 F
2047 4522 1.302351 GCTGGAGTCTGCTGTTGCT 60.302 57.895 0.40 0.00 40.48 3.91 F
2463 4945 1.472878 GGATACGACTCACTCACAGCA 59.527 52.381 0.00 0.00 0.00 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1922 4397 0.034767 ACGGACGAGATGGACTGGTA 60.035 55.000 0.00 0.0 37.67 3.25 R
2926 5414 0.398318 GAAATAGGAGGCGCTGGGAT 59.602 55.000 7.64 0.0 0.00 3.85 R
2928 5416 0.533755 CTGAAATAGGAGGCGCTGGG 60.534 60.000 7.64 0.0 0.00 4.45 R
3236 5726 0.598065 GCGGCAATCCAAAAGTGTCT 59.402 50.000 0.00 0.0 0.00 3.41 R
4350 6908 1.134401 CAAAAGCGGCAGGGAGATCTA 60.134 52.381 1.45 0.0 0.00 1.98 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
63 64 4.090057 GCTCCGCCGAACAACAGC 62.090 66.667 0.00 0.00 0.00 4.40
100 101 0.590195 CCTGTTGCAGCTCTGTCAAC 59.410 55.000 20.10 20.10 42.39 3.18
207 208 2.094752 GCCAAAACGATGGTTGTAGCAT 60.095 45.455 0.00 0.00 42.75 3.79
211 212 0.618458 ACGATGGTTGTAGCATGGGT 59.382 50.000 0.00 0.00 36.31 4.51
214 215 0.618458 ATGGTTGTAGCATGGGTCGT 59.382 50.000 0.00 0.00 34.64 4.34
243 245 0.824109 CAGCTCCCCTAATGACGACA 59.176 55.000 0.00 0.00 0.00 4.35
245 247 0.824759 GCTCCCCTAATGACGACAGT 59.175 55.000 0.00 0.00 0.00 3.55
259 261 2.205074 CGACAGTTGTAGCATGGATCC 58.795 52.381 4.20 4.20 0.00 3.36
284 286 1.661509 GTTGCAGCTCCGCCAAAAC 60.662 57.895 0.00 0.00 0.00 2.43
345 347 2.660944 CGGCGATCGTACACAATGT 58.339 52.632 17.81 0.00 0.00 2.71
361 363 2.125269 GTTCATAGCACGGGCCGT 60.125 61.111 28.83 28.83 42.56 5.68
377 379 3.423154 GTCGCCGGTTCCAGCTTG 61.423 66.667 1.90 0.00 0.00 4.01
407 409 2.338620 CAGCTCCACCAACGACGA 59.661 61.111 0.00 0.00 0.00 4.20
465 467 4.160635 GCGGTCGCAACATTCCCG 62.161 66.667 10.67 0.00 41.49 5.14
481 484 3.103911 CGACGTCGGTTCCAGCAC 61.104 66.667 29.70 0.00 35.37 4.40
651 3055 2.124411 CCCTCCGGATAAGGAAGGAAA 58.876 52.381 3.57 0.00 43.14 3.13
878 3295 4.227134 CCCAGATCCGACGGCCAG 62.227 72.222 9.66 0.00 0.00 4.85
1096 3515 1.727511 CCGCTTCATCCGGGTACGTA 61.728 60.000 0.00 0.00 41.99 3.57
1098 3517 0.249197 GCTTCATCCGGGTACGTACC 60.249 60.000 32.59 32.59 45.71 3.34
1141 3578 3.732219 GCCGTTTTTACTTGCTTGGTAAC 59.268 43.478 0.00 0.00 0.00 2.50
1184 3632 9.971744 CTAATTCTTGTTTTGTTTCTTGTTTGG 57.028 29.630 0.00 0.00 0.00 3.28
1324 3772 3.634730 TCTTGATTTCGCGTTCGATTC 57.365 42.857 5.77 0.00 45.04 2.52
1331 3779 1.736645 CGCGTTCGATTCTGGTGGT 60.737 57.895 0.00 0.00 38.10 4.16
1332 3780 1.289109 CGCGTTCGATTCTGGTGGTT 61.289 55.000 0.00 0.00 38.10 3.67
1337 3785 4.735578 GCGTTCGATTCTGGTGGTTAGATA 60.736 45.833 0.00 0.00 0.00 1.98
1338 3786 5.345702 CGTTCGATTCTGGTGGTTAGATAA 58.654 41.667 0.00 0.00 0.00 1.75
1340 3788 6.570692 GTTCGATTCTGGTGGTTAGATAAGA 58.429 40.000 0.00 0.00 0.00 2.10
1346 3798 7.437713 TTCTGGTGGTTAGATAAGATCATGT 57.562 36.000 0.00 0.00 0.00 3.21
1353 3805 9.988815 GTGGTTAGATAAGATCATGTATGAAGT 57.011 33.333 0.00 0.00 40.69 3.01
1354 3806 9.987272 TGGTTAGATAAGATCATGTATGAAGTG 57.013 33.333 0.00 0.00 40.69 3.16
1375 3830 9.289303 GAAGTGCGATATTTAACAATGTTTCAT 57.711 29.630 3.17 0.00 0.00 2.57
1380 3835 7.097047 GCGATATTTAACAATGTTTCATCACCG 60.097 37.037 3.17 2.47 0.00 4.94
1387 3842 7.857734 AACAATGTTTCATCACCGTGATATA 57.142 32.000 13.71 2.95 34.28 0.86
1402 3857 6.317893 ACCGTGATATAAACTGACCAAATTCC 59.682 38.462 0.00 0.00 0.00 3.01
1410 3865 6.478512 AAACTGACCAAATTCCTGCTTTTA 57.521 33.333 0.00 0.00 0.00 1.52
1411 3866 6.670695 AACTGACCAAATTCCTGCTTTTAT 57.329 33.333 0.00 0.00 0.00 1.40
1414 3869 7.154656 ACTGACCAAATTCCTGCTTTTATTTC 58.845 34.615 0.00 0.00 0.00 2.17
1415 3870 6.155827 TGACCAAATTCCTGCTTTTATTTCG 58.844 36.000 0.00 0.00 0.00 3.46
1417 3872 5.011635 ACCAAATTCCTGCTTTTATTTCGGT 59.988 36.000 0.00 0.00 0.00 4.69
1433 3888 2.078392 TCGGTTAAACCTCGGCAAATC 58.922 47.619 0.00 0.00 35.66 2.17
1457 3915 3.777478 TGGCAAACATAGTAGTACGCTC 58.223 45.455 0.00 0.00 0.00 5.03
1477 3935 4.686972 CTCTAATCTCGCCAATCTGTTCA 58.313 43.478 0.00 0.00 0.00 3.18
1512 3976 9.962783 CATTACTATTTACTAGTGTGTCTACCC 57.037 37.037 5.39 0.00 40.94 3.69
1513 3977 9.933240 ATTACTATTTACTAGTGTGTCTACCCT 57.067 33.333 5.39 0.00 40.94 4.34
1515 3979 8.744568 ACTATTTACTAGTGTGTCTACCCTAC 57.255 38.462 5.39 0.00 39.28 3.18
1516 3980 8.331740 ACTATTTACTAGTGTGTCTACCCTACA 58.668 37.037 5.39 0.00 39.28 2.74
1523 3987 4.000988 GTGTGTCTACCCTACACCAAATG 58.999 47.826 4.09 0.00 45.33 2.32
1550 4016 8.322091 CCAACCTATATATAGCCTAAGCAACTT 58.678 37.037 13.49 0.00 43.56 2.66
1559 4025 5.948992 AGCCTAAGCAACTTAAGTTCTTG 57.051 39.130 26.35 17.14 43.56 3.02
1598 4068 5.313712 ACATATTTCGGTCCTGTTTTCTGT 58.686 37.500 0.00 0.00 0.00 3.41
1631 4102 2.034179 CCATGTCCGCGTAAGACTGATA 59.966 50.000 13.80 0.00 43.02 2.15
1638 4113 3.604198 CCGCGTAAGACTGATATTCATCG 59.396 47.826 4.92 0.00 43.02 3.84
1648 4123 5.352284 ACTGATATTCATCGTGTGTTCCTC 58.648 41.667 0.00 0.00 33.51 3.71
1649 4124 5.105351 ACTGATATTCATCGTGTGTTCCTCA 60.105 40.000 0.00 0.00 33.51 3.86
1658 4133 4.250464 TCGTGTGTTCCTCAATGGTTATC 58.750 43.478 0.00 0.00 37.07 1.75
1659 4134 3.374058 CGTGTGTTCCTCAATGGTTATCC 59.626 47.826 0.00 0.00 37.07 2.59
1922 4397 6.819146 GCAGTATGTACCTTTTCTTTAGCTCT 59.181 38.462 0.00 0.00 39.31 4.09
1932 4407 6.374417 TTTTCTTTAGCTCTACCAGTCCAT 57.626 37.500 0.00 0.00 0.00 3.41
1938 4413 1.335496 GCTCTACCAGTCCATCTCGTC 59.665 57.143 0.00 0.00 0.00 4.20
1973 4448 4.452455 GCCTGATTCTGTTATGGATTACCG 59.548 45.833 0.00 0.00 39.42 4.02
2011 4486 9.912634 AAGTTGATGTACTTTATTGAATTGGTG 57.087 29.630 0.00 0.00 34.81 4.17
2014 4489 8.628630 TGATGTACTTTATTGAATTGGTGTCA 57.371 30.769 0.00 0.00 0.00 3.58
2046 4521 0.959372 ATGCTGGAGTCTGCTGTTGC 60.959 55.000 9.36 0.00 38.45 4.17
2047 4522 1.302351 GCTGGAGTCTGCTGTTGCT 60.302 57.895 0.40 0.00 40.48 3.91
2107 4586 4.162320 ACTCTTATCGCCCTTTCATTCAGA 59.838 41.667 0.00 0.00 0.00 3.27
2272 4751 8.877864 TTCATAGGGATTTAAAGTGTGACAAT 57.122 30.769 0.00 0.00 0.00 2.71
2350 4829 4.272261 ACATTTTTGCATCAACGGAAAACC 59.728 37.500 0.00 0.00 36.15 3.27
2452 4934 9.275398 CTGTAGATTACTCTTAAGGATACGACT 57.725 37.037 1.85 0.00 35.47 4.18
2463 4945 1.472878 GGATACGACTCACTCACAGCA 59.527 52.381 0.00 0.00 0.00 4.41
2476 4958 6.954944 TCACTCACAGCATACTTTGTTTTAC 58.045 36.000 0.00 0.00 0.00 2.01
2856 5344 4.526970 TCATAGAAATCTGTTTGGCTCCC 58.473 43.478 0.00 0.00 0.00 4.30
2926 5414 3.308402 CCAGAAAGACAAGCCTATCCCAA 60.308 47.826 0.00 0.00 0.00 4.12
2928 5416 4.578105 CAGAAAGACAAGCCTATCCCAATC 59.422 45.833 0.00 0.00 0.00 2.67
2931 5419 1.494721 GACAAGCCTATCCCAATCCCA 59.505 52.381 0.00 0.00 0.00 4.37
2960 5448 3.777522 CCTATTTCAGTCTCCCTGGTCTT 59.222 47.826 0.00 0.00 41.83 3.01
3236 5726 2.265367 TCTGTGGCTCTGGAAATGGTA 58.735 47.619 0.00 0.00 0.00 3.25
3438 5932 0.977395 ATTGGCCGTCCTAGGATAGC 59.023 55.000 21.92 21.92 37.37 2.97
3516 6012 0.250640 CTTGCTTCAGCCTCTGGTGT 60.251 55.000 0.00 0.00 40.84 4.16
3574 6070 2.034053 ACACGGCATTTTTCGTTGATGT 59.966 40.909 0.00 0.00 37.53 3.06
3588 6084 5.927030 TCGTTGATGTTGATGAAAGTTAGC 58.073 37.500 0.00 0.00 0.00 3.09
3595 6091 5.175127 TGTTGATGAAAGTTAGCGCAGATA 58.825 37.500 11.47 0.00 0.00 1.98
3644 6145 3.933332 CAGTTGGAAGTAGTTCGAATCCC 59.067 47.826 10.47 3.69 33.53 3.85
3649 6150 5.243207 TGGAAGTAGTTCGAATCCCTTTTC 58.757 41.667 11.30 6.83 32.92 2.29
3686 6188 5.608449 TGTGTTCAATCCAATTTGAATGCA 58.392 33.333 0.00 0.00 44.80 3.96
3734 6236 6.585695 AAGTCATGAACTTGAATCTGCATT 57.414 33.333 0.00 0.00 46.61 3.56
3753 6265 2.345244 CGTGCTCAGCCTCTGGTT 59.655 61.111 0.00 0.00 31.51 3.67
3779 6291 5.499139 TTCTTGTCACTCATTTTGTCACC 57.501 39.130 0.00 0.00 0.00 4.02
3789 6303 5.221803 ACTCATTTTGTCACCATGTCTCTCT 60.222 40.000 0.00 0.00 0.00 3.10
3790 6304 5.240891 TCATTTTGTCACCATGTCTCTCTC 58.759 41.667 0.00 0.00 0.00 3.20
3792 6306 3.949842 TTGTCACCATGTCTCTCTCAG 57.050 47.619 0.00 0.00 0.00 3.35
3793 6307 3.160679 TGTCACCATGTCTCTCTCAGA 57.839 47.619 0.00 0.00 0.00 3.27
3794 6308 3.500343 TGTCACCATGTCTCTCTCAGAA 58.500 45.455 0.00 0.00 30.72 3.02
3795 6309 3.509184 TGTCACCATGTCTCTCTCAGAAG 59.491 47.826 0.00 0.00 30.72 2.85
3796 6310 3.509575 GTCACCATGTCTCTCTCAGAAGT 59.490 47.826 0.00 0.00 30.72 3.01
3797 6311 4.021544 GTCACCATGTCTCTCTCAGAAGTT 60.022 45.833 0.00 0.00 30.72 2.66
3798 6312 4.590647 TCACCATGTCTCTCTCAGAAGTTT 59.409 41.667 0.00 0.00 30.72 2.66
3799 6313 5.775195 TCACCATGTCTCTCTCAGAAGTTTA 59.225 40.000 0.00 0.00 30.72 2.01
3800 6314 6.267699 TCACCATGTCTCTCTCAGAAGTTTAA 59.732 38.462 0.00 0.00 30.72 1.52
3801 6315 6.931281 CACCATGTCTCTCTCAGAAGTTTAAA 59.069 38.462 0.00 0.00 30.72 1.52
3802 6316 7.605691 CACCATGTCTCTCTCAGAAGTTTAAAT 59.394 37.037 0.00 0.00 30.72 1.40
3803 6317 7.821846 ACCATGTCTCTCTCAGAAGTTTAAATC 59.178 37.037 0.00 0.00 30.72 2.17
3804 6318 7.009999 CCATGTCTCTCTCAGAAGTTTAAATCG 59.990 40.741 0.00 0.00 30.72 3.34
3805 6319 6.982852 TGTCTCTCTCAGAAGTTTAAATCGT 58.017 36.000 0.00 0.00 30.72 3.73
3806 6320 6.863645 TGTCTCTCTCAGAAGTTTAAATCGTG 59.136 38.462 0.00 0.00 30.72 4.35
3807 6321 6.864165 GTCTCTCTCAGAAGTTTAAATCGTGT 59.136 38.462 0.00 0.00 30.72 4.49
3808 6322 7.382759 GTCTCTCTCAGAAGTTTAAATCGTGTT 59.617 37.037 0.00 0.00 30.72 3.32
3809 6323 8.573885 TCTCTCTCAGAAGTTTAAATCGTGTTA 58.426 33.333 0.00 0.00 0.00 2.41
3810 6324 9.193133 CTCTCTCAGAAGTTTAAATCGTGTTAA 57.807 33.333 0.00 0.00 0.00 2.01
3811 6325 9.537192 TCTCTCAGAAGTTTAAATCGTGTTAAA 57.463 29.630 0.00 3.08 31.97 1.52
3812 6326 9.582223 CTCTCAGAAGTTTAAATCGTGTTAAAC 57.418 33.333 19.68 19.68 46.99 2.01
3829 6343 8.350238 GTGTTAAACGAGGGAAGATAGATAAC 57.650 38.462 0.00 0.00 0.00 1.89
3830 6344 7.977853 GTGTTAAACGAGGGAAGATAGATAACA 59.022 37.037 0.00 0.00 0.00 2.41
3831 6345 8.533657 TGTTAAACGAGGGAAGATAGATAACAA 58.466 33.333 0.00 0.00 29.54 2.83
3832 6346 9.543783 GTTAAACGAGGGAAGATAGATAACAAT 57.456 33.333 0.00 0.00 0.00 2.71
3835 6349 8.438676 AACGAGGGAAGATAGATAACAATTTG 57.561 34.615 0.00 0.00 0.00 2.32
3836 6350 6.483640 ACGAGGGAAGATAGATAACAATTTGC 59.516 38.462 0.00 0.00 0.00 3.68
3837 6351 6.708054 CGAGGGAAGATAGATAACAATTTGCT 59.292 38.462 0.00 0.00 0.00 3.91
3838 6352 7.872993 CGAGGGAAGATAGATAACAATTTGCTA 59.127 37.037 0.00 0.00 0.00 3.49
3839 6353 9.732130 GAGGGAAGATAGATAACAATTTGCTAT 57.268 33.333 0.00 0.00 0.00 2.97
3840 6354 9.732130 AGGGAAGATAGATAACAATTTGCTATC 57.268 33.333 10.51 10.51 38.32 2.08
3841 6355 9.507329 GGGAAGATAGATAACAATTTGCTATCA 57.493 33.333 17.66 7.87 39.72 2.15
3850 6364 9.884465 GATAACAATTTGCTATCACTAACATCC 57.116 33.333 12.73 0.00 28.65 3.51
3851 6365 7.701539 AACAATTTGCTATCACTAACATCCA 57.298 32.000 0.00 0.00 0.00 3.41
3852 6366 7.325660 ACAATTTGCTATCACTAACATCCAG 57.674 36.000 0.00 0.00 0.00 3.86
3880 6394 8.624367 TCAAATATAGAGAACCGAAAACCAAA 57.376 30.769 0.00 0.00 0.00 3.28
3881 6395 9.069082 TCAAATATAGAGAACCGAAAACCAAAA 57.931 29.630 0.00 0.00 0.00 2.44
3882 6396 9.685828 CAAATATAGAGAACCGAAAACCAAAAA 57.314 29.630 0.00 0.00 0.00 1.94
3890 6404 7.548967 AGAACCGAAAACCAAAAAGTTTATCA 58.451 30.769 0.00 0.00 39.00 2.15
3945 6459 9.401058 CTATACCAAAGGAGATCAAACATTCTT 57.599 33.333 0.00 0.00 0.00 2.52
3958 6472 5.602145 TCAAACATTCTTCCACCCAGAAAAT 59.398 36.000 0.00 0.00 33.94 1.82
3965 6479 1.501170 TCCACCCAGAAAATCCAACCA 59.499 47.619 0.00 0.00 0.00 3.67
3966 6480 2.111613 TCCACCCAGAAAATCCAACCAT 59.888 45.455 0.00 0.00 0.00 3.55
3967 6481 2.234414 CCACCCAGAAAATCCAACCATG 59.766 50.000 0.00 0.00 0.00 3.66
3968 6482 3.164268 CACCCAGAAAATCCAACCATGA 58.836 45.455 0.00 0.00 0.00 3.07
3969 6483 3.577848 CACCCAGAAAATCCAACCATGAA 59.422 43.478 0.00 0.00 0.00 2.57
3991 6512 5.280654 AGTGAGTTTACGGGTCAAAAGTA 57.719 39.130 0.00 0.00 0.00 2.24
4011 6569 7.838771 AAGTACCTCCGTTCACAAATATAAC 57.161 36.000 0.00 0.00 0.00 1.89
4026 6584 6.486657 ACAAATATAACATGTTCCCTCCGATG 59.513 38.462 15.85 7.94 0.00 3.84
4030 6588 2.467880 ACATGTTCCCTCCGATGTACT 58.532 47.619 0.00 0.00 0.00 2.73
4031 6589 2.168521 ACATGTTCCCTCCGATGTACTG 59.831 50.000 0.00 0.00 0.00 2.74
4032 6590 1.933021 TGTTCCCTCCGATGTACTGT 58.067 50.000 0.00 0.00 0.00 3.55
4033 6591 3.090210 TGTTCCCTCCGATGTACTGTA 57.910 47.619 0.00 0.00 0.00 2.74
4050 6608 9.830975 ATGTACTGTATATTAATTGACACAGCA 57.169 29.630 13.79 8.46 37.50 4.41
4062 6620 4.717233 TGACACAGCAGACAATGTTTTT 57.283 36.364 0.00 0.00 0.00 1.94
4089 6647 8.692710 ACATTCTAGAGACCGTGTCAATTAATA 58.307 33.333 0.00 0.00 34.60 0.98
4104 6662 5.785423 TCAATTAATATGGATCCGAGGGAGT 59.215 40.000 7.39 0.00 34.05 3.85
4111 6669 3.985127 TGGATCCGAGGGAGTAACTTTA 58.015 45.455 7.39 0.00 34.05 1.85
4117 6675 5.266788 TCCGAGGGAGTAACTTTATTCTGA 58.733 41.667 0.00 0.00 0.00 3.27
4118 6676 5.718130 TCCGAGGGAGTAACTTTATTCTGAA 59.282 40.000 0.00 0.00 0.00 3.02
4119 6677 6.383147 TCCGAGGGAGTAACTTTATTCTGAAT 59.617 38.462 8.14 8.14 0.00 2.57
4120 6678 6.702282 CCGAGGGAGTAACTTTATTCTGAATC 59.298 42.308 6.10 0.00 0.00 2.52
4121 6679 7.265673 CGAGGGAGTAACTTTATTCTGAATCA 58.734 38.462 6.10 0.00 0.00 2.57
4122 6680 7.436673 CGAGGGAGTAACTTTATTCTGAATCAG 59.563 40.741 6.10 3.38 0.00 2.90
4123 6681 8.380742 AGGGAGTAACTTTATTCTGAATCAGA 57.619 34.615 9.18 9.18 38.87 3.27
4124 6682 8.997734 AGGGAGTAACTTTATTCTGAATCAGAT 58.002 33.333 14.31 7.05 40.39 2.90
4125 6683 9.050601 GGGAGTAACTTTATTCTGAATCAGATG 57.949 37.037 14.31 5.24 40.39 2.90
4126 6684 9.606631 GGAGTAACTTTATTCTGAATCAGATGT 57.393 33.333 14.31 8.63 40.39 3.06
4141 6699 7.438160 TGAATCAGATGTATATGGACACGTTTC 59.562 37.037 0.00 0.00 30.52 2.78
4171 6729 8.918658 GTGTTTGTTCACTCTTTATATACGACA 58.081 33.333 0.00 0.00 35.68 4.35
4189 6747 6.165659 ACGACAATTACTTGTGCTATCAAC 57.834 37.500 2.81 0.00 45.57 3.18
4193 6751 7.133891 ACAATTACTTGTGCTATCAACACTC 57.866 36.000 0.00 0.00 43.92 3.51
4194 6752 6.149474 ACAATTACTTGTGCTATCAACACTCC 59.851 38.462 0.00 0.00 43.92 3.85
4292 6850 2.116238 TGGACCTCCTTGCTACCATAC 58.884 52.381 0.00 0.00 36.82 2.39
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
207 208 2.260434 GCAACTAGCGACGACCCA 59.740 61.111 0.00 0.00 0.00 4.51
243 245 0.469917 CGGGGATCCATGCTACAACT 59.530 55.000 15.23 0.00 0.00 3.16
245 247 1.148273 GCGGGGATCCATGCTACAA 59.852 57.895 15.23 0.00 0.00 2.41
284 286 0.462047 GACCCCTGCTACAACCATCG 60.462 60.000 0.00 0.00 0.00 3.84
341 343 1.095228 CGGCCCGTGCTATGAACATT 61.095 55.000 0.00 0.00 37.74 2.71
343 345 2.125310 CGGCCCGTGCTATGAACA 60.125 61.111 0.00 0.00 37.74 3.18
345 347 2.185867 GACGGCCCGTGCTATGAA 59.814 61.111 16.53 0.00 41.37 2.57
465 467 3.103911 CGTGCTGGAACCGACGTC 61.104 66.667 5.18 5.18 0.00 4.34
498 501 0.400670 GAGGAGGCAAGGAGGGGTAT 60.401 60.000 0.00 0.00 0.00 2.73
651 3055 2.355115 GCCCACCCAACCGATTCT 59.645 61.111 0.00 0.00 0.00 2.40
1096 3515 1.977544 CTCGACGAGGACAAGGGGT 60.978 63.158 17.27 0.00 0.00 4.95
1098 3517 1.213013 CACTCGACGAGGACAAGGG 59.787 63.158 27.39 2.39 33.35 3.95
1141 3578 6.648192 AGAATTAGACATCCAAGGAACAGAG 58.352 40.000 0.00 0.00 0.00 3.35
1288 3736 7.411912 CGAAATCAAGATCTAGACGAGCAAAAA 60.412 37.037 0.00 0.00 0.00 1.94
1289 3737 6.035005 CGAAATCAAGATCTAGACGAGCAAAA 59.965 38.462 0.00 0.00 0.00 2.44
1290 3738 5.516696 CGAAATCAAGATCTAGACGAGCAAA 59.483 40.000 0.00 0.00 0.00 3.68
1324 3772 8.588472 TCATACATGATCTTATCTAACCACCAG 58.412 37.037 0.00 0.00 0.00 4.00
1331 3779 8.576442 TCGCACTTCATACATGATCTTATCTAA 58.424 33.333 0.00 0.00 36.56 2.10
1332 3780 8.110860 TCGCACTTCATACATGATCTTATCTA 57.889 34.615 0.00 0.00 36.56 1.98
1337 3785 8.613060 AAATATCGCACTTCATACATGATCTT 57.387 30.769 0.00 0.00 36.56 2.40
1338 3786 9.710900 TTAAATATCGCACTTCATACATGATCT 57.289 29.630 0.00 0.00 36.56 2.75
1340 3788 9.271828 TGTTAAATATCGCACTTCATACATGAT 57.728 29.630 0.00 0.00 36.56 2.45
1353 3805 7.700234 GGTGATGAAACATTGTTAAATATCGCA 59.300 33.333 19.14 8.77 0.00 5.10
1354 3806 7.097047 CGGTGATGAAACATTGTTAAATATCGC 60.097 37.037 1.76 10.16 0.00 4.58
1375 3830 5.408880 TTGGTCAGTTTATATCACGGTGA 57.591 39.130 14.01 14.01 0.00 4.02
1380 3835 7.067494 AGCAGGAATTTGGTCAGTTTATATCAC 59.933 37.037 0.00 0.00 0.00 3.06
1387 3842 5.357742 AAAAGCAGGAATTTGGTCAGTTT 57.642 34.783 0.00 0.00 0.00 2.66
1402 3857 5.793457 CGAGGTTTAACCGAAATAAAAGCAG 59.207 40.000 8.63 0.00 44.90 4.24
1410 3865 2.188062 TGCCGAGGTTTAACCGAAAT 57.812 45.000 8.63 0.00 44.90 2.17
1411 3866 1.964552 TTGCCGAGGTTTAACCGAAA 58.035 45.000 8.63 0.00 44.90 3.46
1414 3869 1.131693 GGATTTGCCGAGGTTTAACCG 59.868 52.381 8.63 0.00 44.90 4.44
1415 3870 2.164338 TGGATTTGCCGAGGTTTAACC 58.836 47.619 5.91 5.91 40.66 2.85
1417 3872 2.757868 CCATGGATTTGCCGAGGTTTAA 59.242 45.455 5.56 0.00 40.66 1.52
1433 3888 3.247648 GCGTACTACTATGTTTGCCATGG 59.752 47.826 7.63 7.63 37.99 3.66
1457 3915 4.183865 TGTGAACAGATTGGCGAGATTAG 58.816 43.478 0.00 0.00 0.00 1.73
1477 3935 8.830580 CACTAGTAAATAGTAATGCAGCAATGT 58.169 33.333 0.00 0.00 43.13 2.71
1512 3976 9.383519 CTATATATAGGTTGGCATTTGGTGTAG 57.616 37.037 11.40 0.00 0.00 2.74
1513 3977 7.827236 GCTATATATAGGTTGGCATTTGGTGTA 59.173 37.037 19.19 0.00 0.00 2.90
1514 3978 6.659242 GCTATATATAGGTTGGCATTTGGTGT 59.341 38.462 19.19 0.00 0.00 4.16
1515 3979 6.095440 GGCTATATATAGGTTGGCATTTGGTG 59.905 42.308 19.19 0.00 0.00 4.17
1516 3980 6.011628 AGGCTATATATAGGTTGGCATTTGGT 60.012 38.462 19.19 0.00 0.00 3.67
1523 3987 6.235231 TGCTTAGGCTATATATAGGTTGGC 57.765 41.667 19.19 8.19 39.59 4.52
1569 4035 7.754851 AAACAGGACCGAAATATGTAAAGTT 57.245 32.000 0.00 0.00 0.00 2.66
1570 4036 7.664318 AGAAAACAGGACCGAAATATGTAAAGT 59.336 33.333 0.00 0.00 0.00 2.66
1571 4037 7.962918 CAGAAAACAGGACCGAAATATGTAAAG 59.037 37.037 0.00 0.00 0.00 1.85
1587 4057 6.856895 GGATAAATTCCAGACAGAAAACAGG 58.143 40.000 0.00 0.00 44.74 4.00
1612 4082 4.037565 TGAATATCAGTCTTACGCGGACAT 59.962 41.667 12.47 1.74 36.29 3.06
1615 4086 4.612939 CGATGAATATCAGTCTTACGCGGA 60.613 45.833 12.47 0.00 32.67 5.54
1619 4090 5.971792 ACACACGATGAATATCAGTCTTACG 59.028 40.000 0.00 0.00 32.67 3.18
1631 4102 3.691118 CCATTGAGGAACACACGATGAAT 59.309 43.478 0.00 0.00 41.22 2.57
1638 4113 4.396166 CAGGATAACCATTGAGGAACACAC 59.604 45.833 0.00 0.00 41.22 3.82
1648 4123 4.147321 AGCTATTGGCAGGATAACCATTG 58.853 43.478 0.00 0.00 44.79 2.82
1649 4124 4.459852 AGCTATTGGCAGGATAACCATT 57.540 40.909 0.00 0.00 44.79 3.16
1658 4133 1.312815 GCCTTGTAGCTATTGGCAGG 58.687 55.000 21.77 13.09 44.79 4.85
1659 4134 1.133976 AGGCCTTGTAGCTATTGGCAG 60.134 52.381 25.36 8.16 44.85 4.85
1746 4221 1.736681 GTTGTGCCATCTTCTCTGAGC 59.263 52.381 0.00 0.00 0.00 4.26
1922 4397 0.034767 ACGGACGAGATGGACTGGTA 60.035 55.000 0.00 0.00 37.67 3.25
1932 4407 2.756760 AGGCAAAGTATTACGGACGAGA 59.243 45.455 0.00 0.00 0.00 4.04
1938 4413 4.876107 ACAGAATCAGGCAAAGTATTACGG 59.124 41.667 0.00 0.00 0.00 4.02
2046 4521 8.817100 GTGGTTAAATTTCAAACTTTCTCCAAG 58.183 33.333 0.00 0.00 38.64 3.61
2047 4522 8.314751 TGTGGTTAAATTTCAAACTTTCTCCAA 58.685 29.630 0.00 0.00 0.00 3.53
2107 4586 9.953565 ATTCCAAATTTCAATGATCAGAATGTT 57.046 25.926 0.09 0.00 37.40 2.71
2272 4751 8.371699 TGTCCATCATGACCGTTTATGAATATA 58.628 33.333 0.00 0.00 36.93 0.86
2350 4829 5.056480 TGTCACACACCTTTGATACTTCTG 58.944 41.667 0.00 0.00 0.00 3.02
2452 4934 6.292649 CGTAAAACAAAGTATGCTGTGAGTGA 60.293 38.462 8.12 0.00 34.11 3.41
2476 4958 6.136541 AGCCTTCCTAAAAATGCTATTTCG 57.863 37.500 0.00 0.00 29.74 3.46
2513 4995 5.170021 GTGCCTGCATTTTGATGACATAAA 58.830 37.500 0.00 0.00 0.00 1.40
2856 5344 1.923316 GCACAAAGTCTTTCAGCTGCG 60.923 52.381 9.47 0.00 0.00 5.18
2926 5414 0.398318 GAAATAGGAGGCGCTGGGAT 59.602 55.000 7.64 0.00 0.00 3.85
2928 5416 0.533755 CTGAAATAGGAGGCGCTGGG 60.534 60.000 7.64 0.00 0.00 4.45
2931 5419 1.410882 GAGACTGAAATAGGAGGCGCT 59.589 52.381 7.64 0.00 0.00 5.92
2960 5448 2.353704 CGCCCATCTTTAGTCACACTCA 60.354 50.000 0.00 0.00 0.00 3.41
2993 5481 4.524802 TCACCCTTCCATAGCATGAAAT 57.475 40.909 0.00 0.00 0.00 2.17
3236 5726 0.598065 GCGGCAATCCAAAAGTGTCT 59.402 50.000 0.00 0.00 0.00 3.41
3338 5828 2.612095 GAACCACAACCACCCGTCCA 62.612 60.000 0.00 0.00 0.00 4.02
3516 6012 3.305709 GGCGCTGTAATATGAGCCA 57.694 52.632 7.64 0.00 46.09 4.75
3574 6070 7.210174 AGTATATCTGCGCTAACTTTCATCAA 58.790 34.615 9.73 0.00 0.00 2.57
3588 6084 9.578439 TCAATCAATGAATCTAGTATATCTGCG 57.422 33.333 0.00 0.00 34.30 5.18
3618 6114 6.183360 GGATTCGAACTACTTCCAACTGATTG 60.183 42.308 0.00 0.00 35.40 2.67
3649 6150 9.311916 TGGATTGAACACAACAATTTAAAGAAG 57.688 29.630 0.00 0.00 37.96 2.85
3710 6212 5.618056 TGCAGATTCAAGTTCATGACTTC 57.382 39.130 0.00 0.00 45.40 3.01
3713 6215 4.561606 GCAATGCAGATTCAAGTTCATGAC 59.438 41.667 0.00 0.00 0.00 3.06
3731 6233 1.744368 AGAGGCTGAGCACGCAATG 60.744 57.895 6.82 0.00 0.00 2.82
3732 6234 1.744368 CAGAGGCTGAGCACGCAAT 60.744 57.895 6.82 0.00 32.44 3.56
3733 6235 2.357881 CAGAGGCTGAGCACGCAA 60.358 61.111 6.82 0.00 32.44 4.85
3734 6236 4.383861 CCAGAGGCTGAGCACGCA 62.384 66.667 6.82 0.00 32.44 5.24
3740 6242 3.902881 AGAATACAACCAGAGGCTGAG 57.097 47.619 0.00 0.00 32.44 3.35
3741 6243 3.327757 ACAAGAATACAACCAGAGGCTGA 59.672 43.478 0.00 0.00 32.44 4.26
3744 6246 3.437049 GTGACAAGAATACAACCAGAGGC 59.563 47.826 0.00 0.00 0.00 4.70
3745 6247 4.899502 AGTGACAAGAATACAACCAGAGG 58.100 43.478 0.00 0.00 0.00 3.69
3746 6248 5.541845 TGAGTGACAAGAATACAACCAGAG 58.458 41.667 0.00 0.00 0.00 3.35
3747 6249 5.545063 TGAGTGACAAGAATACAACCAGA 57.455 39.130 0.00 0.00 0.00 3.86
3753 6265 7.255104 GGTGACAAAATGAGTGACAAGAATACA 60.255 37.037 0.00 0.00 0.00 2.29
3779 6291 7.543868 ACGATTTAAACTTCTGAGAGAGACATG 59.456 37.037 0.00 0.00 0.00 3.21
3804 6318 7.977853 TGTTATCTATCTTCCCTCGTTTAACAC 59.022 37.037 0.00 0.00 0.00 3.32
3805 6319 8.070034 TGTTATCTATCTTCCCTCGTTTAACA 57.930 34.615 0.00 0.00 0.00 2.41
3806 6320 8.937634 TTGTTATCTATCTTCCCTCGTTTAAC 57.062 34.615 0.00 0.00 0.00 2.01
3809 6323 8.893727 CAAATTGTTATCTATCTTCCCTCGTTT 58.106 33.333 0.00 0.00 0.00 3.60
3810 6324 7.012421 GCAAATTGTTATCTATCTTCCCTCGTT 59.988 37.037 0.00 0.00 0.00 3.85
3811 6325 6.483640 GCAAATTGTTATCTATCTTCCCTCGT 59.516 38.462 0.00 0.00 0.00 4.18
3812 6326 6.708054 AGCAAATTGTTATCTATCTTCCCTCG 59.292 38.462 0.00 0.00 0.00 4.63
3813 6327 9.732130 ATAGCAAATTGTTATCTATCTTCCCTC 57.268 33.333 0.00 0.00 0.00 4.30
3814 6328 9.732130 GATAGCAAATTGTTATCTATCTTCCCT 57.268 33.333 18.49 0.00 37.52 4.20
3815 6329 9.507329 TGATAGCAAATTGTTATCTATCTTCCC 57.493 33.333 23.56 3.08 40.04 3.97
3824 6338 9.884465 GGATGTTAGTGATAGCAAATTGTTATC 57.116 33.333 18.81 18.81 39.87 1.75
3825 6339 9.407380 TGGATGTTAGTGATAGCAAATTGTTAT 57.593 29.630 1.96 1.96 0.00 1.89
3826 6340 8.800370 TGGATGTTAGTGATAGCAAATTGTTA 57.200 30.769 0.00 0.00 0.00 2.41
3827 6341 7.629222 GCTGGATGTTAGTGATAGCAAATTGTT 60.629 37.037 0.00 0.00 0.00 2.83
3828 6342 6.183360 GCTGGATGTTAGTGATAGCAAATTGT 60.183 38.462 0.00 0.00 0.00 2.71
3829 6343 6.039047 AGCTGGATGTTAGTGATAGCAAATTG 59.961 38.462 0.00 0.00 32.42 2.32
3830 6344 6.125029 AGCTGGATGTTAGTGATAGCAAATT 58.875 36.000 0.00 0.00 32.42 1.82
3831 6345 5.688807 AGCTGGATGTTAGTGATAGCAAAT 58.311 37.500 0.00 0.00 32.42 2.32
3832 6346 5.102953 AGCTGGATGTTAGTGATAGCAAA 57.897 39.130 0.00 0.00 32.42 3.68
3833 6347 4.760530 AGCTGGATGTTAGTGATAGCAA 57.239 40.909 0.00 0.00 32.42 3.91
3834 6348 4.162131 TGAAGCTGGATGTTAGTGATAGCA 59.838 41.667 0.00 0.00 32.42 3.49
3835 6349 4.697514 TGAAGCTGGATGTTAGTGATAGC 58.302 43.478 0.00 0.00 0.00 2.97
3836 6350 7.798596 ATTTGAAGCTGGATGTTAGTGATAG 57.201 36.000 0.00 0.00 0.00 2.08
3838 6352 9.499479 CTATATTTGAAGCTGGATGTTAGTGAT 57.501 33.333 0.00 0.00 0.00 3.06
3839 6353 8.704668 TCTATATTTGAAGCTGGATGTTAGTGA 58.295 33.333 0.00 0.00 0.00 3.41
3840 6354 8.893219 TCTATATTTGAAGCTGGATGTTAGTG 57.107 34.615 0.00 0.00 0.00 2.74
3841 6355 8.928448 TCTCTATATTTGAAGCTGGATGTTAGT 58.072 33.333 0.00 0.00 0.00 2.24
3842 6356 9.770097 TTCTCTATATTTGAAGCTGGATGTTAG 57.230 33.333 0.00 0.00 0.00 2.34
3843 6357 9.547753 GTTCTCTATATTTGAAGCTGGATGTTA 57.452 33.333 0.00 0.00 0.00 2.41
3844 6358 7.500559 GGTTCTCTATATTTGAAGCTGGATGTT 59.499 37.037 0.00 0.00 35.92 2.71
3845 6359 6.995091 GGTTCTCTATATTTGAAGCTGGATGT 59.005 38.462 0.00 0.00 35.92 3.06
3846 6360 6.146837 CGGTTCTCTATATTTGAAGCTGGATG 59.853 42.308 0.00 0.00 36.44 3.51
3847 6361 6.042093 TCGGTTCTCTATATTTGAAGCTGGAT 59.958 38.462 0.00 0.00 36.44 3.41
3848 6362 5.362717 TCGGTTCTCTATATTTGAAGCTGGA 59.637 40.000 0.00 0.00 36.44 3.86
3849 6363 5.601662 TCGGTTCTCTATATTTGAAGCTGG 58.398 41.667 0.00 0.00 36.44 4.85
3850 6364 7.539712 TTTCGGTTCTCTATATTTGAAGCTG 57.460 36.000 0.00 0.00 36.44 4.24
3851 6365 7.065923 GGTTTTCGGTTCTCTATATTTGAAGCT 59.934 37.037 0.00 0.00 36.44 3.74
3852 6366 7.148306 TGGTTTTCGGTTCTCTATATTTGAAGC 60.148 37.037 0.00 0.00 35.60 3.86
3881 6395 9.685276 TGATTCTATGTTGATGGTGATAAACTT 57.315 29.630 0.00 0.00 0.00 2.66
3882 6396 9.685276 TTGATTCTATGTTGATGGTGATAAACT 57.315 29.630 0.00 0.00 0.00 2.66
3945 6459 1.501170 TGGTTGGATTTTCTGGGTGGA 59.499 47.619 0.00 0.00 0.00 4.02
3958 6472 4.062293 CGTAAACTCACTTCATGGTTGGA 58.938 43.478 0.00 0.00 0.00 3.53
3965 6479 4.345859 TTGACCCGTAAACTCACTTCAT 57.654 40.909 0.00 0.00 0.00 2.57
3966 6480 3.823281 TTGACCCGTAAACTCACTTCA 57.177 42.857 0.00 0.00 0.00 3.02
3967 6481 4.573607 ACTTTTGACCCGTAAACTCACTTC 59.426 41.667 0.00 0.00 0.00 3.01
3968 6482 4.520179 ACTTTTGACCCGTAAACTCACTT 58.480 39.130 0.00 0.00 0.00 3.16
3969 6483 4.146745 ACTTTTGACCCGTAAACTCACT 57.853 40.909 0.00 0.00 0.00 3.41
3991 6512 6.177610 ACATGTTATATTTGTGAACGGAGGT 58.822 36.000 0.00 0.00 0.00 3.85
4011 6569 2.168521 ACAGTACATCGGAGGGAACATG 59.831 50.000 0.00 0.00 0.00 3.21
4026 6584 9.529325 TCTGCTGTGTCAATTAATATACAGTAC 57.471 33.333 13.49 0.00 38.17 2.73
4030 6588 8.785329 TTGTCTGCTGTGTCAATTAATATACA 57.215 30.769 0.00 0.00 0.00 2.29
4031 6589 9.655769 CATTGTCTGCTGTGTCAATTAATATAC 57.344 33.333 0.00 0.00 0.00 1.47
4032 6590 9.394767 ACATTGTCTGCTGTGTCAATTAATATA 57.605 29.630 0.00 0.00 0.00 0.86
4033 6591 8.284945 ACATTGTCTGCTGTGTCAATTAATAT 57.715 30.769 0.00 0.00 0.00 1.28
4050 6608 9.220767 GGTCTCTAGAATGTAAAAACATTGTCT 57.779 33.333 8.39 3.75 40.08 3.41
4062 6620 6.525578 AATTGACACGGTCTCTAGAATGTA 57.474 37.500 0.00 0.00 33.15 2.29
4089 6647 2.777459 AGTTACTCCCTCGGATCCAT 57.223 50.000 13.41 0.00 0.00 3.41
4111 6669 7.816513 CGTGTCCATATACATCTGATTCAGAAT 59.183 37.037 19.73 13.37 44.04 2.40
4117 6675 7.272244 TGAAACGTGTCCATATACATCTGATT 58.728 34.615 2.58 0.00 0.00 2.57
4118 6676 6.816136 TGAAACGTGTCCATATACATCTGAT 58.184 36.000 2.58 0.00 0.00 2.90
4119 6677 6.127451 ACTGAAACGTGTCCATATACATCTGA 60.127 38.462 2.58 0.00 0.00 3.27
4120 6678 6.019559 CACTGAAACGTGTCCATATACATCTG 60.020 42.308 2.58 0.00 0.00 2.90
4121 6679 6.042777 CACTGAAACGTGTCCATATACATCT 58.957 40.000 2.58 0.00 0.00 2.90
4122 6680 5.810587 ACACTGAAACGTGTCCATATACATC 59.189 40.000 2.58 0.00 44.32 3.06
4123 6681 5.580691 CACACTGAAACGTGTCCATATACAT 59.419 40.000 2.58 0.00 45.74 2.29
4124 6682 4.926832 CACACTGAAACGTGTCCATATACA 59.073 41.667 2.58 0.00 45.74 2.29
4125 6683 4.927425 ACACACTGAAACGTGTCCATATAC 59.073 41.667 2.58 0.00 45.74 1.47
4126 6684 5.142061 ACACACTGAAACGTGTCCATATA 57.858 39.130 2.58 0.00 45.74 0.86
4127 6685 4.002906 ACACACTGAAACGTGTCCATAT 57.997 40.909 2.58 0.00 45.74 1.78
4128 6686 3.462483 ACACACTGAAACGTGTCCATA 57.538 42.857 2.58 0.00 45.74 2.74
4131 6689 2.160813 ACAAACACACTGAAACGTGTCC 59.839 45.455 2.58 0.00 45.74 4.02
4171 6729 6.476378 AGGAGTGTTGATAGCACAAGTAATT 58.524 36.000 0.00 0.00 39.17 1.40
4292 6850 5.139435 TCATCTATCTATGCTCGGTTTGG 57.861 43.478 0.00 0.00 0.00 3.28
4350 6908 1.134401 CAAAAGCGGCAGGGAGATCTA 60.134 52.381 1.45 0.00 0.00 1.98


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

AutoCloner maintained by Alex Coulton.