Multiple sequence alignment - TraesCS5D01G403100

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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 TraesCS5D01G403100 chr5D 100.000 4667 0 0 1 4667 469062338 469057672 0.000000e+00 8619.0
1 TraesCS5D01G403100 chr5D 77.536 276 50 7 1971 2234 553483738 553484013 6.250000e-34 156.0
2 TraesCS5D01G403100 chr5D 76.512 281 41 18 1970 2237 553506912 553507180 3.790000e-26 130.0
3 TraesCS5D01G403100 chr5B 89.859 2347 134 48 2377 4667 575781092 575778794 0.000000e+00 2920.0
4 TraesCS5D01G403100 chr5B 87.114 1490 97 40 1 1449 575783448 575782013 0.000000e+00 1600.0
5 TraesCS5D01G403100 chr5B 89.097 853 44 19 1542 2379 575781958 575781140 0.000000e+00 1014.0
6 TraesCS5D01G403100 chr5B 78.571 378 58 13 1941 2304 697244956 697244588 1.310000e-55 228.0
7 TraesCS5D01G403100 chr5B 77.713 341 42 23 4286 4603 635465116 635465445 1.330000e-40 178.0
8 TraesCS5D01G403100 chr5B 83.529 170 22 4 2141 2304 697568095 697567926 2.250000e-33 154.0
9 TraesCS5D01G403100 chr5B 76.144 306 47 19 1970 2263 697186789 697186498 2.260000e-28 137.0
10 TraesCS5D01G403100 chr5B 89.286 84 6 3 1450 1530 575782094 575782011 8.260000e-18 102.0
11 TraesCS5D01G403100 chr5B 81.667 120 12 5 2190 2299 697610158 697610039 1.790000e-14 91.6
12 TraesCS5D01G403100 chr5A 88.255 2086 137 49 344 2375 589223062 589221031 0.000000e+00 2396.0
13 TraesCS5D01G403100 chr5A 93.830 1491 74 9 2383 3864 589220988 589219507 0.000000e+00 2228.0
14 TraesCS5D01G403100 chr5A 91.310 817 44 16 3868 4667 589219473 589218667 0.000000e+00 1090.0
15 TraesCS5D01G403100 chr5A 93.421 304 14 3 1 301 589223684 589223384 3.310000e-121 446.0
16 TraesCS5D01G403100 chr4D 78.372 393 52 21 4214 4598 37521131 37520764 1.690000e-54 224.0
17 TraesCS5D01G403100 chr4D 80.488 246 34 12 4299 4535 44758838 44758598 4.800000e-40 176.0
18 TraesCS5D01G403100 chr4D 88.235 85 10 0 4299 4383 423407575 423407659 8.260000e-18 102.0
19 TraesCS5D01G403100 chr6D 83.105 219 28 8 4300 4509 409339589 409339371 1.710000e-44 191.0
20 TraesCS5D01G403100 chr2A 80.072 276 33 14 4338 4600 764908659 764908925 7.970000e-43 185.0
21 TraesCS5D01G403100 chr2D 81.034 174 24 7 4381 4552 645734405 645734239 3.790000e-26 130.0
22 TraesCS5D01G403100 chr1D 76.543 243 42 12 4300 4535 443463490 443463724 8.200000e-23 119.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS5D01G403100 chr5D 469057672 469062338 4666 True 8619 8619 100.000 1 4667 1 chr5D.!!$R1 4666
1 TraesCS5D01G403100 chr5B 575778794 575783448 4654 True 1409 2920 88.839 1 4667 4 chr5B.!!$R5 4666
2 TraesCS5D01G403100 chr5A 589218667 589223684 5017 True 1540 2396 91.704 1 4667 4 chr5A.!!$R1 4666

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
809 1147 0.250727 CCGTCCAAAGCTCCCAAGAA 60.251 55.0 0.0 0.0 0.0 2.52 F
1351 1706 0.459759 GCCTCCCGTTACCTTTCTCG 60.460 60.0 0.0 0.0 0.0 4.04 F
1769 2173 0.396435 TGGGTTGCGATCACAGAGTT 59.604 50.0 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1739 2130 0.109781 CGCAACCCAACTTCCATTCG 60.110 55.0 0.00 0.00 0.00 3.34 R
2343 2753 2.639347 TCTGGCCCCATCATACAGTATG 59.361 50.0 13.75 13.75 46.00 2.39 R
3752 4219 0.179018 AGGGCTTTCAACAGCGTCTT 60.179 50.0 0.00 0.00 41.12 3.01 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 1.571919 GAGTGGGACATGCGTATGAC 58.428 55.000 20.86 13.83 44.52 3.06
64 65 7.165485 ACTAATGTGGTGCTATACTTTGTTCA 58.835 34.615 0.00 0.00 0.00 3.18
113 114 9.705290 AAAACTGCCATTTTATAACCTGTTTAG 57.295 29.630 0.00 0.00 29.93 1.85
114 115 8.417273 AACTGCCATTTTATAACCTGTTTAGT 57.583 30.769 0.00 0.00 0.00 2.24
140 141 4.709397 ACTTGTGTTGTTTCCAATCCTTCA 59.291 37.500 0.00 0.00 32.11 3.02
152 153 5.818887 TCCAATCCTTCACTCATGATGAAA 58.181 37.500 16.29 7.75 35.70 2.69
232 263 4.352600 AAATCTTCGCTGAGATGCAAAG 57.647 40.909 0.00 0.00 36.53 2.77
278 309 9.175312 TCTTCTGTAGTGAATATCTTACTCGTT 57.825 33.333 0.00 0.00 0.00 3.85
392 720 1.135083 CGGTGCCGTAGATGAAACTCT 60.135 52.381 1.93 0.00 34.35 3.24
396 724 1.929836 GCCGTAGATGAAACTCTGCAG 59.070 52.381 7.63 7.63 0.00 4.41
410 738 2.980233 GCAGCGTGTCCCAAAGCT 60.980 61.111 0.00 0.00 41.07 3.74
450 778 7.090173 TGATTCCGTTCCTTGAAAATGAAATC 58.910 34.615 0.00 0.00 32.31 2.17
507 838 3.132925 TCCGGGTACAACTTTCTTTTCG 58.867 45.455 0.00 0.00 0.00 3.46
615 946 1.407258 TGCCCGGTCAGAAAACAAAAG 59.593 47.619 0.00 0.00 0.00 2.27
618 949 3.429684 GCCCGGTCAGAAAACAAAAGAAA 60.430 43.478 0.00 0.00 0.00 2.52
732 1068 9.654663 ATTACAGTAGAACACAAAGAGTATTCC 57.345 33.333 0.00 0.00 34.12 3.01
733 1069 6.465084 ACAGTAGAACACAAAGAGTATTCCC 58.535 40.000 0.00 0.00 34.12 3.97
735 1071 7.453752 ACAGTAGAACACAAAGAGTATTCCCTA 59.546 37.037 0.00 0.00 34.12 3.53
736 1072 7.760340 CAGTAGAACACAAAGAGTATTCCCTAC 59.240 40.741 0.00 0.00 34.12 3.18
737 1073 6.681729 AGAACACAAAGAGTATTCCCTACA 57.318 37.500 0.00 0.00 34.12 2.74
738 1074 7.074653 AGAACACAAAGAGTATTCCCTACAA 57.925 36.000 0.00 0.00 34.12 2.41
741 1077 7.074653 ACACAAAGAGTATTCCCTACAAAGA 57.925 36.000 0.00 0.00 32.34 2.52
807 1145 2.335712 GCCGTCCAAAGCTCCCAAG 61.336 63.158 0.00 0.00 0.00 3.61
809 1147 0.250727 CCGTCCAAAGCTCCCAAGAA 60.251 55.000 0.00 0.00 0.00 2.52
868 1213 0.733729 CGTCTCTTCCTTCCGATCGT 59.266 55.000 15.09 0.00 0.00 3.73
961 1306 1.229853 ACCTGACCGAATTCCCCCT 60.230 57.895 0.00 0.00 0.00 4.79
962 1307 1.272554 ACCTGACCGAATTCCCCCTC 61.273 60.000 0.00 0.00 0.00 4.30
1345 1700 1.753463 CTCTCGCCTCCCGTTACCT 60.753 63.158 0.00 0.00 38.35 3.08
1349 1704 0.901580 TCGCCTCCCGTTACCTTTCT 60.902 55.000 0.00 0.00 38.35 2.52
1351 1706 0.459759 GCCTCCCGTTACCTTTCTCG 60.460 60.000 0.00 0.00 0.00 4.04
1366 1721 1.464734 TCTCGACTCTGGTTGCTAGG 58.535 55.000 0.00 0.00 0.00 3.02
1412 1769 7.786178 TGCATAAATGATGTGGAGTAACTAC 57.214 36.000 0.00 0.00 37.90 2.73
1422 1805 5.779922 TGTGGAGTAACTACTGCTAGTTTG 58.220 41.667 9.44 0.00 43.92 2.93
1440 1823 6.910536 AGTTTGTTGTGACTTCTTCTAGTG 57.089 37.500 0.00 0.00 0.00 2.74
1442 1825 5.353394 TTGTTGTGACTTCTTCTAGTGGT 57.647 39.130 0.00 0.00 0.00 4.16
1443 1826 5.353394 TGTTGTGACTTCTTCTAGTGGTT 57.647 39.130 0.00 0.00 0.00 3.67
1450 1833 5.304614 TGACTTCTTCTAGTGGTTGCTAGTT 59.695 40.000 0.00 0.00 39.44 2.24
1451 1834 6.176014 ACTTCTTCTAGTGGTTGCTAGTTT 57.824 37.500 0.00 0.00 39.44 2.66
1452 1835 6.592870 ACTTCTTCTAGTGGTTGCTAGTTTT 58.407 36.000 0.00 0.00 39.44 2.43
1453 1836 7.054751 ACTTCTTCTAGTGGTTGCTAGTTTTT 58.945 34.615 0.00 0.00 39.44 1.94
1480 1863 9.752961 TTGGTGAATTCTTATGCATAAATGATG 57.247 29.630 19.32 8.24 38.73 3.07
1482 1865 9.188588 GGTGAATTCTTATGCATAAATGATGTG 57.811 33.333 19.32 6.90 37.90 3.21
1483 1866 9.188588 GTGAATTCTTATGCATAAATGATGTGG 57.811 33.333 19.32 6.22 37.90 4.17
1484 1867 9.134055 TGAATTCTTATGCATAAATGATGTGGA 57.866 29.630 19.32 8.35 37.90 4.02
1487 1870 9.797642 ATTCTTATGCATAAATGATGTGGAGTA 57.202 29.630 19.32 0.00 37.90 2.59
1488 1871 9.625747 TTCTTATGCATAAATGATGTGGAGTAA 57.374 29.630 19.32 0.00 37.90 2.24
1489 1872 9.056005 TCTTATGCATAAATGATGTGGAGTAAC 57.944 33.333 19.32 0.00 37.90 2.50
1490 1873 8.978874 TTATGCATAAATGATGTGGAGTAACT 57.021 30.769 16.78 0.00 37.90 2.24
1492 1875 8.613060 ATGCATAAATGATGTGGAGTAACTAG 57.387 34.615 0.00 0.00 37.90 2.57
1493 1876 7.564793 TGCATAAATGATGTGGAGTAACTAGT 58.435 34.615 0.00 0.00 37.90 2.57
1495 1878 7.519008 GCATAAATGATGTGGAGTAACTAGTGC 60.519 40.741 0.00 0.00 37.90 4.40
1497 1880 6.791867 AATGATGTGGAGTAACTAGTGCTA 57.208 37.500 0.00 0.00 0.00 3.49
1498 1881 5.836821 TGATGTGGAGTAACTAGTGCTAG 57.163 43.478 0.00 4.80 39.04 3.42
1522 1905 5.418310 TTTTTGCGACTTTTCCAGTAGAG 57.582 39.130 0.00 0.00 35.01 2.43
1523 1906 2.743636 TGCGACTTTTCCAGTAGAGG 57.256 50.000 0.00 0.00 35.01 3.69
1524 1907 1.337823 TGCGACTTTTCCAGTAGAGGC 60.338 52.381 0.00 0.00 35.01 4.70
1525 1908 1.066787 GCGACTTTTCCAGTAGAGGCT 60.067 52.381 0.00 0.00 35.01 4.58
1526 1909 2.165845 GCGACTTTTCCAGTAGAGGCTA 59.834 50.000 0.00 0.00 35.01 3.93
1527 1910 3.735514 GCGACTTTTCCAGTAGAGGCTAG 60.736 52.174 0.00 0.00 35.01 3.42
1528 1911 3.735514 CGACTTTTCCAGTAGAGGCTAGC 60.736 52.174 6.04 6.04 35.01 3.42
1529 1912 3.173965 ACTTTTCCAGTAGAGGCTAGCA 58.826 45.455 18.24 0.00 31.97 3.49
1530 1913 3.055747 ACTTTTCCAGTAGAGGCTAGCAC 60.056 47.826 18.24 10.01 31.97 4.40
1531 1914 1.486211 TTCCAGTAGAGGCTAGCACC 58.514 55.000 18.24 7.29 0.00 5.01
1532 1915 0.752009 TCCAGTAGAGGCTAGCACCG 60.752 60.000 18.24 0.00 33.69 4.94
1533 1916 1.736586 CAGTAGAGGCTAGCACCGG 59.263 63.158 18.24 0.00 33.69 5.28
1534 1917 2.128507 AGTAGAGGCTAGCACCGGC 61.129 63.158 18.24 3.40 41.61 6.13
1535 1918 2.043349 TAGAGGCTAGCACCGGCA 60.043 61.111 18.24 0.00 44.61 5.69
1536 1919 1.684391 TAGAGGCTAGCACCGGCAA 60.684 57.895 18.24 0.00 44.61 4.52
1537 1920 1.676678 TAGAGGCTAGCACCGGCAAG 61.677 60.000 18.24 0.00 44.61 4.01
1538 1921 3.316573 GAGGCTAGCACCGGCAAGT 62.317 63.158 18.24 0.00 44.61 3.16
1539 1922 2.359975 GGCTAGCACCGGCAAGTT 60.360 61.111 18.24 0.00 44.61 2.66
1540 1923 1.078708 GGCTAGCACCGGCAAGTTA 60.079 57.895 18.24 0.00 44.61 2.24
1643 2026 4.341806 TGTTTGTGTTTGATTGAGGAGCAT 59.658 37.500 0.00 0.00 0.00 3.79
1647 2030 6.198650 TGTGTTTGATTGAGGAGCATAATG 57.801 37.500 0.00 0.00 0.00 1.90
1669 2060 6.938698 TGATTGGGTACAAGTTAGGTAGAA 57.061 37.500 0.00 0.00 40.49 2.10
1739 2130 5.918011 TGTTATTTCAACTTGGCAATCGAAC 59.082 36.000 0.00 0.00 0.00 3.95
1757 2148 0.958822 ACGAATGGAAGTTGGGTTGC 59.041 50.000 0.00 0.00 0.00 4.17
1769 2173 0.396435 TGGGTTGCGATCACAGAGTT 59.604 50.000 0.00 0.00 0.00 3.01
1770 2174 1.621317 TGGGTTGCGATCACAGAGTTA 59.379 47.619 0.00 0.00 0.00 2.24
1776 2180 1.599542 GCGATCACAGAGTTAATGGGC 59.400 52.381 0.00 0.00 0.00 5.36
1777 2181 2.743183 GCGATCACAGAGTTAATGGGCT 60.743 50.000 0.00 0.00 0.00 5.19
1784 2188 3.826729 ACAGAGTTAATGGGCTGGTTTTC 59.173 43.478 0.00 0.00 32.82 2.29
1785 2189 3.826157 CAGAGTTAATGGGCTGGTTTTCA 59.174 43.478 0.00 0.00 0.00 2.69
1808 2216 7.007116 TCATCTGGTAATGATGAGCTAGTAGT 58.993 38.462 0.00 0.00 43.47 2.73
1830 2239 1.139853 AGCTCTGGTAGGTATTGCTGC 59.860 52.381 0.00 0.00 32.98 5.25
1835 2244 3.263170 TCTGGTAGGTATTGCTGCTCAAA 59.737 43.478 0.00 0.00 38.34 2.69
1854 2263 6.251376 GCTCAAAACTACAAACAACTTGAGTG 59.749 38.462 9.81 0.00 40.13 3.51
1863 2272 2.034124 ACAACTTGAGTGCAATTGGCT 58.966 42.857 7.72 0.00 45.15 4.75
1899 2308 3.814625 TGGTTGCTTGAGTACACATTGA 58.185 40.909 0.00 0.00 0.00 2.57
1902 2311 2.778299 TGCTTGAGTACACATTGACCC 58.222 47.619 0.00 0.00 0.00 4.46
1903 2312 2.084546 GCTTGAGTACACATTGACCCC 58.915 52.381 0.00 0.00 0.00 4.95
1941 2350 9.599866 TCAGATTTCAGGTATATGTGTTTACTG 57.400 33.333 0.00 0.00 0.00 2.74
1942 2351 9.383519 CAGATTTCAGGTATATGTGTTTACTGT 57.616 33.333 0.00 0.00 0.00 3.55
1943 2352 9.959721 AGATTTCAGGTATATGTGTTTACTGTT 57.040 29.630 0.00 0.00 0.00 3.16
1954 2363 6.230849 TGTGTTTACTGTTTAGTAATGCCG 57.769 37.500 1.21 0.00 45.93 5.69
1971 2380 1.949465 CCGCTGTTCTATGGGGTAAC 58.051 55.000 0.00 0.00 0.00 2.50
2002 2411 3.123157 ACTCCTGCTCATATGCATGTC 57.877 47.619 10.16 0.00 42.48 3.06
2035 2445 8.903820 ACCTATTTCATCTTTAGTAACATTGCC 58.096 33.333 0.00 0.00 0.00 4.52
2238 2648 3.055819 TGAAGCCAGTGGTTATGAGTCTC 60.056 47.826 11.74 0.00 30.94 3.36
2328 2738 1.001815 CCATGGTGCGACGTTTCTTTT 60.002 47.619 2.57 0.00 0.00 2.27
2329 2739 2.224549 CCATGGTGCGACGTTTCTTTTA 59.775 45.455 2.57 0.00 0.00 1.52
2330 2740 3.223157 CATGGTGCGACGTTTCTTTTAC 58.777 45.455 0.00 0.00 0.00 2.01
2331 2741 2.277969 TGGTGCGACGTTTCTTTTACA 58.722 42.857 0.00 0.00 0.00 2.41
2336 2746 3.810941 TGCGACGTTTCTTTTACATTCCT 59.189 39.130 0.00 0.00 0.00 3.36
2343 2753 7.858583 ACGTTTCTTTTACATTCCTAGTTCAC 58.141 34.615 0.00 0.00 0.00 3.18
2375 2785 3.094484 TGGGGCCAGATTTTTCGTAAT 57.906 42.857 4.39 0.00 0.00 1.89
2379 2789 6.366340 TGGGGCCAGATTTTTCGTAATTATA 58.634 36.000 4.39 0.00 0.00 0.98
2453 2912 9.747898 TTAACTATTTATCAGGTTCACCATGTT 57.252 29.630 0.00 0.00 38.89 2.71
2467 2926 8.573035 GGTTCACCATGTTCTTTTATTACAAGA 58.427 33.333 0.00 0.00 35.64 3.02
2517 2976 3.664107 TGGAGTGTGTATTGCAAGTCTC 58.336 45.455 4.94 6.11 0.00 3.36
2548 3007 2.860136 TCTGTTGATGCTAAATCTCGCG 59.140 45.455 0.00 0.00 0.00 5.87
2564 3023 0.249489 CGCGGGGTCTTATCTCTTGG 60.249 60.000 0.00 0.00 0.00 3.61
2567 3026 2.093128 GCGGGGTCTTATCTCTTGGAAA 60.093 50.000 0.00 0.00 0.00 3.13
2689 3148 3.063997 CAGGTGGATGTTTGAACGATAGC 59.936 47.826 0.00 0.00 42.67 2.97
2836 3297 2.381961 GGGAAATGGGGCCTATGGATTA 59.618 50.000 1.97 0.00 0.00 1.75
2856 3317 6.096846 GGATTATCCACAAATTGGTGCTTACT 59.903 38.462 7.52 0.00 46.97 2.24
2991 3452 8.564509 TTGATGATCATCATTGTGTACTCAAA 57.435 30.769 33.23 14.83 46.12 2.69
3216 3681 1.905894 TGCAGGCTGTATAACCTCACA 59.094 47.619 17.16 0.00 32.56 3.58
3355 3821 2.072298 CTTCAGCTTGTACACTGGAGC 58.928 52.381 12.19 10.64 32.89 4.70
3542 4009 4.026804 CGTTCCACGCTGTATGACTTATTC 60.027 45.833 0.00 0.00 33.65 1.75
3634 4101 8.257306 CCCTAACAAGCAACAACCATTATAATT 58.743 33.333 0.00 0.00 0.00 1.40
3686 4153 4.654091 CACACCTGATTTGTGTCCTTTT 57.346 40.909 0.00 0.00 44.77 2.27
3730 4197 2.441001 AGAATGGAAGCCATACCTCAGG 59.559 50.000 0.00 0.00 44.40 3.86
3750 4217 2.092807 GGTACCCAATTACCCATCACGT 60.093 50.000 0.00 0.00 36.26 4.49
3752 4219 1.631388 ACCCAATTACCCATCACGTCA 59.369 47.619 0.00 0.00 0.00 4.35
3790 4264 4.345837 GCCCTAACTGGTGGTACATGTATA 59.654 45.833 9.18 0.00 44.52 1.47
3830 4304 1.032014 TGTTTTGTTCTGGCAGCTCC 58.968 50.000 10.34 0.04 0.00 4.70
3831 4305 1.032014 GTTTTGTTCTGGCAGCTCCA 58.968 50.000 10.34 2.96 44.18 3.86
3849 4323 2.762887 TCCATTGAATCTCTCTCGCTGT 59.237 45.455 0.00 0.00 0.00 4.40
3861 4335 5.350914 TCTCTCTCGCTGTTAGTGTTACTAC 59.649 44.000 0.00 0.00 28.93 2.73
3864 4338 6.534436 TCTCTCGCTGTTAGTGTTACTACTAG 59.466 42.308 0.00 0.00 34.84 2.57
3865 4339 5.583854 TCTCGCTGTTAGTGTTACTACTAGG 59.416 44.000 0.00 0.00 34.84 3.02
3866 4340 4.637534 TCGCTGTTAGTGTTACTACTAGGG 59.362 45.833 0.00 0.00 34.84 3.53
3867 4341 4.201990 CGCTGTTAGTGTTACTACTAGGGG 60.202 50.000 0.00 0.00 34.84 4.79
3868 4342 4.099113 GCTGTTAGTGTTACTACTAGGGGG 59.901 50.000 0.00 0.00 34.84 5.40
3869 4343 5.513233 CTGTTAGTGTTACTACTAGGGGGA 58.487 45.833 0.00 0.00 34.84 4.81
3870 4344 5.902760 TGTTAGTGTTACTACTAGGGGGAA 58.097 41.667 0.00 0.00 34.84 3.97
3872 4346 4.689014 AGTGTTACTACTAGGGGGAAGT 57.311 45.455 0.00 0.00 0.00 3.01
3874 4348 4.776308 AGTGTTACTACTAGGGGGAAGTTG 59.224 45.833 0.00 0.00 0.00 3.16
3875 4349 4.774200 GTGTTACTACTAGGGGGAAGTTGA 59.226 45.833 0.00 0.00 0.00 3.18
3881 4384 1.834263 CTAGGGGGAAGTTGAGAGTGG 59.166 57.143 0.00 0.00 0.00 4.00
3887 4390 2.573915 GGGAAGTTGAGAGTGGGATTCT 59.426 50.000 0.00 0.00 0.00 2.40
4005 4518 6.289064 AGTTATTTATTACGGCTTGGAGGAG 58.711 40.000 0.00 0.00 0.00 3.69
4045 4558 4.004314 CTGAAGTTCCGTGAGAGAGACTA 58.996 47.826 0.00 0.00 0.00 2.59
4091 4606 1.963338 GACAGGCAGCGCTTCAACT 60.963 57.895 7.50 0.00 0.00 3.16
4092 4607 0.670546 GACAGGCAGCGCTTCAACTA 60.671 55.000 7.50 0.00 0.00 2.24
4105 4622 4.310769 GCTTCAACTAGCTGAAACAGAGA 58.689 43.478 9.72 0.00 38.15 3.10
4106 4623 4.388469 GCTTCAACTAGCTGAAACAGAGAG 59.612 45.833 9.72 0.00 38.15 3.20
4107 4624 4.527509 TCAACTAGCTGAAACAGAGAGG 57.472 45.455 0.00 0.00 32.44 3.69
4108 4625 3.898123 TCAACTAGCTGAAACAGAGAGGT 59.102 43.478 0.00 0.00 32.44 3.85
4109 4626 4.021894 TCAACTAGCTGAAACAGAGAGGTC 60.022 45.833 0.00 0.00 32.44 3.85
4110 4627 3.501349 ACTAGCTGAAACAGAGAGGTCA 58.499 45.455 0.00 0.00 32.44 4.02
4111 4628 4.093011 ACTAGCTGAAACAGAGAGGTCAT 58.907 43.478 0.00 0.00 32.44 3.06
4113 4630 3.672808 AGCTGAAACAGAGAGGTCATTG 58.327 45.455 2.81 0.00 32.44 2.82
4117 4634 5.221126 GCTGAAACAGAGAGGTCATTGTTTT 60.221 40.000 11.03 0.00 42.09 2.43
4118 4635 6.681368 GCTGAAACAGAGAGGTCATTGTTTTT 60.681 38.462 11.03 0.00 42.09 1.94
4158 4675 2.038837 GGTTAGCTGCGTTCACCCC 61.039 63.158 0.00 0.00 0.00 4.95
4232 4749 1.646189 GACATGGAGTTTCTCGGCTC 58.354 55.000 0.00 0.00 0.00 4.70
4242 4759 0.320771 TTCTCGGCTCTGGCTCAAAC 60.321 55.000 0.00 0.00 38.73 2.93
4266 4783 2.161609 GCCCAGATGAACAGTAAAACGG 59.838 50.000 0.00 0.00 0.00 4.44
4371 4899 5.790495 GCTTGAAATCACATTCGTGTAAGTC 59.210 40.000 0.00 0.00 44.02 3.01
4372 4900 6.565811 GCTTGAAATCACATTCGTGTAAGTCA 60.566 38.462 0.00 0.00 44.02 3.41
4423 4955 8.547967 AGATGCTACTTTCGAAAGTATTTTGA 57.452 30.769 37.66 23.75 46.87 2.69
4434 4968 6.748198 TCGAAAGTATTTTGAAGCGTTGTTTT 59.252 30.769 0.00 0.00 45.09 2.43
4493 5029 4.043750 TGAAAATTTGCAAGCACTCGAAG 58.956 39.130 0.00 0.00 0.00 3.79
4566 5102 6.012658 TCTGAATTTACTGTTCATGCCAAC 57.987 37.500 0.00 0.00 35.26 3.77
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 4.028131 TGTCCCACTCCTATCGTACAAAT 58.972 43.478 0.00 0.00 0.00 2.32
20 21 0.464036 TCATACGCATGTCCCACTCC 59.536 55.000 0.00 0.00 33.57 3.85
40 41 7.414098 GGTGAACAAAGTATAGCACCACATTAG 60.414 40.741 0.00 0.00 43.87 1.73
64 65 4.345859 TGACGGTAACTCTGAAAATGGT 57.654 40.909 0.00 0.00 0.00 3.55
140 141 6.487828 TGGAGAGGAAAATTTCATCATGAGT 58.512 36.000 20.28 1.45 42.56 3.41
152 153 4.256920 CTCAACGTCATGGAGAGGAAAAT 58.743 43.478 0.00 0.00 36.06 1.82
278 309 4.764823 CCCTATGCAAAAGTGTACTCCAAA 59.235 41.667 0.00 0.00 0.00 3.28
381 709 1.270518 ACACGCTGCAGAGTTTCATCT 60.271 47.619 21.27 0.00 0.00 2.90
392 720 3.286751 GCTTTGGGACACGCTGCA 61.287 61.111 0.00 0.00 39.29 4.41
396 724 1.576421 CAGAAGCTTTGGGACACGC 59.424 57.895 0.00 0.00 39.29 5.34
410 738 3.628942 CGGAATCATGGATGAAAGCAGAA 59.371 43.478 0.00 0.00 40.69 3.02
450 778 4.982295 TCACTACGCGGATATCATCTTTTG 59.018 41.667 12.47 0.00 0.00 2.44
476 806 0.531657 TGTACCCGGAATGTACGTGG 59.468 55.000 0.73 0.00 41.13 4.94
484 814 4.214758 CGAAAAGAAAGTTGTACCCGGAAT 59.785 41.667 0.73 0.00 0.00 3.01
487 817 3.132925 TCGAAAAGAAAGTTGTACCCGG 58.867 45.455 0.00 0.00 0.00 5.73
507 838 6.922957 AGAATGCTTCTTTAGAGATGACGATC 59.077 38.462 0.00 0.00 36.36 3.69
615 946 7.552458 TCCTTTTCCAATTTTGCTTTCTTTC 57.448 32.000 0.00 0.00 0.00 2.62
618 949 5.059161 GCTCCTTTTCCAATTTTGCTTTCT 58.941 37.500 0.00 0.00 0.00 2.52
727 1063 9.191479 TCTTTGTGTTTTTCTTTGTAGGGAATA 57.809 29.630 0.00 0.00 0.00 1.75
731 1067 5.748630 GCTCTTTGTGTTTTTCTTTGTAGGG 59.251 40.000 0.00 0.00 0.00 3.53
732 1068 6.329496 TGCTCTTTGTGTTTTTCTTTGTAGG 58.671 36.000 0.00 0.00 0.00 3.18
733 1069 7.009540 CCTTGCTCTTTGTGTTTTTCTTTGTAG 59.990 37.037 0.00 0.00 0.00 2.74
735 1071 5.639082 CCTTGCTCTTTGTGTTTTTCTTTGT 59.361 36.000 0.00 0.00 0.00 2.83
736 1072 5.868801 TCCTTGCTCTTTGTGTTTTTCTTTG 59.131 36.000 0.00 0.00 0.00 2.77
737 1073 6.036577 TCCTTGCTCTTTGTGTTTTTCTTT 57.963 33.333 0.00 0.00 0.00 2.52
738 1074 5.659440 TCCTTGCTCTTTGTGTTTTTCTT 57.341 34.783 0.00 0.00 0.00 2.52
741 1077 4.081476 AGCTTCCTTGCTCTTTGTGTTTTT 60.081 37.500 0.00 0.00 39.34 1.94
764 1102 0.029834 GCGAACCGATCCGCTACTTA 59.970 55.000 6.80 0.00 46.96 2.24
868 1213 2.592512 AGTAGGATGAAGGAGAGGGGAA 59.407 50.000 0.00 0.00 0.00 3.97
1328 1683 0.901580 AAAGGTAACGGGAGGCGAGA 60.902 55.000 0.00 0.00 46.39 4.04
1335 1690 1.815003 GAGTCGAGAAAGGTAACGGGA 59.185 52.381 0.00 0.00 46.39 5.14
1338 1693 2.228343 ACCAGAGTCGAGAAAGGTAACG 59.772 50.000 0.00 0.00 46.39 3.18
1345 1700 2.231478 CCTAGCAACCAGAGTCGAGAAA 59.769 50.000 0.00 0.00 0.00 2.52
1349 1704 1.629043 AACCTAGCAACCAGAGTCGA 58.371 50.000 0.00 0.00 0.00 4.20
1412 1769 5.525378 AGAAGAAGTCACAACAAACTAGCAG 59.475 40.000 0.00 0.00 0.00 4.24
1422 1805 4.024809 GCAACCACTAGAAGAAGTCACAAC 60.025 45.833 0.00 0.00 0.00 3.32
1455 1838 8.916062 ACATCATTTATGCATAAGAATTCACCA 58.084 29.630 18.13 2.03 39.39 4.17
1459 1842 9.622004 CTCCACATCATTTATGCATAAGAATTC 57.378 33.333 18.13 0.00 39.39 2.17
1460 1843 9.139734 ACTCCACATCATTTATGCATAAGAATT 57.860 29.630 18.13 4.16 39.39 2.17
1462 1845 9.625747 TTACTCCACATCATTTATGCATAAGAA 57.374 29.630 18.13 6.29 39.39 2.52
1463 1846 9.056005 GTTACTCCACATCATTTATGCATAAGA 57.944 33.333 18.13 13.76 39.39 2.10
1464 1847 9.060347 AGTTACTCCACATCATTTATGCATAAG 57.940 33.333 18.13 9.00 39.39 1.73
1465 1848 8.978874 AGTTACTCCACATCATTTATGCATAA 57.021 30.769 15.21 15.21 39.39 1.90
1467 1850 8.213679 ACTAGTTACTCCACATCATTTATGCAT 58.786 33.333 3.79 3.79 39.39 3.96
1468 1851 7.495606 CACTAGTTACTCCACATCATTTATGCA 59.504 37.037 0.00 0.00 39.39 3.96
1469 1852 7.519008 GCACTAGTTACTCCACATCATTTATGC 60.519 40.741 0.00 0.00 39.39 3.14
1470 1853 7.712639 AGCACTAGTTACTCCACATCATTTATG 59.287 37.037 0.00 0.00 41.74 1.90
1471 1854 7.796054 AGCACTAGTTACTCCACATCATTTAT 58.204 34.615 0.00 0.00 0.00 1.40
1474 1857 5.683876 AGCACTAGTTACTCCACATCATT 57.316 39.130 0.00 0.00 0.00 2.57
1475 1858 5.894393 ACTAGCACTAGTTACTCCACATCAT 59.106 40.000 4.47 0.00 43.35 2.45
1477 1860 5.838531 ACTAGCACTAGTTACTCCACATC 57.161 43.478 4.47 0.00 43.35 3.06
1500 1883 4.274950 CCTCTACTGGAAAAGTCGCAAAAA 59.725 41.667 0.00 0.00 40.56 1.94
1502 1885 3.399330 CCTCTACTGGAAAAGTCGCAAA 58.601 45.455 0.00 0.00 40.56 3.68
1503 1886 2.870435 GCCTCTACTGGAAAAGTCGCAA 60.870 50.000 0.00 0.00 40.56 4.85
1504 1887 1.337823 GCCTCTACTGGAAAAGTCGCA 60.338 52.381 0.00 0.00 40.56 5.10
1505 1888 1.066787 AGCCTCTACTGGAAAAGTCGC 60.067 52.381 0.00 0.00 40.56 5.19
1506 1889 3.735514 GCTAGCCTCTACTGGAAAAGTCG 60.736 52.174 2.29 0.00 40.56 4.18
1507 1890 3.195825 TGCTAGCCTCTACTGGAAAAGTC 59.804 47.826 13.29 0.00 40.56 3.01
1508 1891 3.055747 GTGCTAGCCTCTACTGGAAAAGT 60.056 47.826 13.29 0.00 43.40 2.66
1509 1892 3.526534 GTGCTAGCCTCTACTGGAAAAG 58.473 50.000 13.29 0.00 0.00 2.27
1510 1893 2.236395 GGTGCTAGCCTCTACTGGAAAA 59.764 50.000 13.29 0.00 0.00 2.29
1511 1894 1.831736 GGTGCTAGCCTCTACTGGAAA 59.168 52.381 13.29 0.00 0.00 3.13
1512 1895 1.486211 GGTGCTAGCCTCTACTGGAA 58.514 55.000 13.29 0.00 0.00 3.53
1513 1896 0.752009 CGGTGCTAGCCTCTACTGGA 60.752 60.000 13.29 0.00 0.00 3.86
1514 1897 1.736586 CGGTGCTAGCCTCTACTGG 59.263 63.158 13.29 0.00 0.00 4.00
1515 1898 1.736586 CCGGTGCTAGCCTCTACTG 59.263 63.158 13.29 8.50 0.00 2.74
1516 1899 2.128507 GCCGGTGCTAGCCTCTACT 61.129 63.158 13.29 0.00 33.53 2.57
1517 1900 1.956629 TTGCCGGTGCTAGCCTCTAC 61.957 60.000 13.29 3.02 38.71 2.59
1518 1901 1.676678 CTTGCCGGTGCTAGCCTCTA 61.677 60.000 13.29 0.00 38.71 2.43
1519 1902 3.003173 TTGCCGGTGCTAGCCTCT 61.003 61.111 13.29 0.00 38.71 3.69
1520 1903 2.512515 CTTGCCGGTGCTAGCCTC 60.513 66.667 13.29 5.33 38.71 4.70
1521 1904 1.550130 TAACTTGCCGGTGCTAGCCT 61.550 55.000 13.29 0.00 43.07 4.58
1522 1905 1.078708 TAACTTGCCGGTGCTAGCC 60.079 57.895 13.29 3.27 43.07 3.93
1523 1906 0.672401 TGTAACTTGCCGGTGCTAGC 60.672 55.000 8.10 8.10 43.07 3.42
1524 1907 1.732259 CTTGTAACTTGCCGGTGCTAG 59.268 52.381 1.90 0.00 44.54 3.42
1525 1908 1.609580 CCTTGTAACTTGCCGGTGCTA 60.610 52.381 1.90 0.00 38.71 3.49
1526 1909 0.889186 CCTTGTAACTTGCCGGTGCT 60.889 55.000 1.90 0.00 38.71 4.40
1527 1910 0.887387 TCCTTGTAACTTGCCGGTGC 60.887 55.000 1.90 0.00 38.26 5.01
1528 1911 1.535462 CTTCCTTGTAACTTGCCGGTG 59.465 52.381 1.90 0.00 0.00 4.94
1529 1912 1.544759 CCTTCCTTGTAACTTGCCGGT 60.545 52.381 1.90 0.00 0.00 5.28
1530 1913 1.165270 CCTTCCTTGTAACTTGCCGG 58.835 55.000 0.00 0.00 0.00 6.13
1531 1914 1.892209 ACCTTCCTTGTAACTTGCCG 58.108 50.000 0.00 0.00 0.00 5.69
1532 1915 4.139038 TGTAACCTTCCTTGTAACTTGCC 58.861 43.478 0.00 0.00 0.00 4.52
1533 1916 4.320275 GCTGTAACCTTCCTTGTAACTTGC 60.320 45.833 0.00 0.00 0.00 4.01
1534 1917 5.063880 AGCTGTAACCTTCCTTGTAACTTG 58.936 41.667 0.00 0.00 0.00 3.16
1535 1918 5.306114 AGCTGTAACCTTCCTTGTAACTT 57.694 39.130 0.00 0.00 0.00 2.66
1536 1919 4.976540 AGCTGTAACCTTCCTTGTAACT 57.023 40.909 0.00 0.00 0.00 2.24
1537 1920 4.624452 CGTAGCTGTAACCTTCCTTGTAAC 59.376 45.833 0.00 0.00 0.00 2.50
1538 1921 4.322198 CCGTAGCTGTAACCTTCCTTGTAA 60.322 45.833 0.00 0.00 0.00 2.41
1539 1922 3.194116 CCGTAGCTGTAACCTTCCTTGTA 59.806 47.826 0.00 0.00 0.00 2.41
1540 1923 2.028385 CCGTAGCTGTAACCTTCCTTGT 60.028 50.000 0.00 0.00 0.00 3.16
1643 2026 8.612486 TCTACCTAACTTGTACCCAATCATTA 57.388 34.615 0.00 0.00 0.00 1.90
1647 2030 8.803397 AAATTCTACCTAACTTGTACCCAATC 57.197 34.615 0.00 0.00 0.00 2.67
1690 2081 9.187455 CAAAAGGTAAACCAATATGTACACAAC 57.813 33.333 0.00 0.00 38.89 3.32
1702 2093 9.945904 AAGTTGAAATAACAAAAGGTAAACCAA 57.054 25.926 1.26 0.00 38.89 3.67
1719 2110 3.252215 TCGTTCGATTGCCAAGTTGAAAT 59.748 39.130 3.87 4.00 0.00 2.17
1739 2130 0.109781 CGCAACCCAACTTCCATTCG 60.110 55.000 0.00 0.00 0.00 3.34
1757 2148 2.868583 CAGCCCATTAACTCTGTGATCG 59.131 50.000 0.00 0.00 0.00 3.69
1769 2173 3.245586 ACCAGATGAAAACCAGCCCATTA 60.246 43.478 0.00 0.00 0.00 1.90
1770 2174 2.181975 CCAGATGAAAACCAGCCCATT 58.818 47.619 0.00 0.00 0.00 3.16
1784 2188 7.225784 ACTACTAGCTCATCATTACCAGATG 57.774 40.000 0.00 0.00 43.25 2.90
1785 2189 8.941995 TTACTACTAGCTCATCATTACCAGAT 57.058 34.615 0.00 0.00 0.00 2.90
1805 2213 5.302059 CAGCAATACCTACCAGAGCTTACTA 59.698 44.000 0.00 0.00 0.00 1.82
1808 2216 3.181465 GCAGCAATACCTACCAGAGCTTA 60.181 47.826 0.00 0.00 0.00 3.09
1830 2239 6.251376 GCACTCAAGTTGTTTGTAGTTTTGAG 59.749 38.462 2.11 9.14 43.32 3.02
1835 2244 5.637006 TTGCACTCAAGTTGTTTGTAGTT 57.363 34.783 2.11 0.00 38.01 2.24
1854 2263 4.783764 AACTAGTAACCAAGCCAATTGC 57.216 40.909 0.00 0.00 37.60 3.56
1863 2272 5.043737 AGCAACCAGAAACTAGTAACCAA 57.956 39.130 0.00 0.00 0.00 3.67
1899 2308 2.893424 TCTGAAACTAGTAACCGGGGT 58.107 47.619 6.32 0.00 0.00 4.95
1902 2311 5.581085 CCTGAAATCTGAAACTAGTAACCGG 59.419 44.000 0.00 0.00 0.00 5.28
1903 2312 6.164176 ACCTGAAATCTGAAACTAGTAACCG 58.836 40.000 0.00 0.00 0.00 4.44
1941 2350 5.277345 CCATAGAACAGCGGCATTACTAAAC 60.277 44.000 1.45 0.00 0.00 2.01
1942 2351 4.814234 CCATAGAACAGCGGCATTACTAAA 59.186 41.667 1.45 0.00 0.00 1.85
1943 2352 4.377021 CCATAGAACAGCGGCATTACTAA 58.623 43.478 1.45 0.00 0.00 2.24
1944 2353 3.244078 CCCATAGAACAGCGGCATTACTA 60.244 47.826 1.45 1.27 0.00 1.82
1945 2354 2.485479 CCCATAGAACAGCGGCATTACT 60.485 50.000 1.45 0.00 0.00 2.24
1946 2355 1.873591 CCCATAGAACAGCGGCATTAC 59.126 52.381 1.45 0.00 0.00 1.89
1947 2356 1.202758 CCCCATAGAACAGCGGCATTA 60.203 52.381 1.45 0.00 0.00 1.90
1954 2363 3.906720 TCAGTTACCCCATAGAACAGC 57.093 47.619 0.00 0.00 0.00 4.40
2238 2648 4.159879 AGAGATAACAAAGGTACGTCCCAG 59.840 45.833 0.00 0.00 36.75 4.45
2343 2753 2.639347 TCTGGCCCCATCATACAGTATG 59.361 50.000 13.75 13.75 46.00 2.39
2347 2757 2.965671 AATCTGGCCCCATCATACAG 57.034 50.000 0.00 0.00 0.00 2.74
2487 2946 7.643569 TGCAATACACACTCCATTATGAAAT 57.356 32.000 0.00 0.00 0.00 2.17
2517 2976 9.282247 GATTTAGCATCAACAGAAAACACATAG 57.718 33.333 0.00 0.00 0.00 2.23
2548 3007 5.755849 TCAATTTCCAAGAGATAAGACCCC 58.244 41.667 0.00 0.00 0.00 4.95
2567 3026 8.416329 GCCCAAAACTCATTTCATAGTATCAAT 58.584 33.333 0.00 0.00 0.00 2.57
2578 3037 3.255642 TGTAGCAGCCCAAAACTCATTTC 59.744 43.478 0.00 0.00 0.00 2.17
2689 3148 6.291377 TCCCTAGCTATAAGCATGACAAAAG 58.709 40.000 0.00 0.00 45.56 2.27
2856 3317 4.574674 AACAATCAAGCCATAGACTCCA 57.425 40.909 0.00 0.00 0.00 3.86
3125 3586 6.486253 ACAATATGAGCTGCGGTATTATTG 57.514 37.500 15.49 15.49 0.00 1.90
3135 3600 7.387397 AGAATAAGCTAGAACAATATGAGCTGC 59.613 37.037 0.00 0.00 42.56 5.25
3309 3774 7.284820 AGATAGGAGTACAGAAAGAGAGGTAC 58.715 42.308 0.00 0.00 37.08 3.34
3355 3821 4.023193 AGGAACAAGAAGGCACATAAAACG 60.023 41.667 0.00 0.00 0.00 3.60
3448 3915 6.202379 CGTCTTTCATCTCGGAGTAGTATACA 59.798 42.308 5.50 0.00 46.26 2.29
3542 4009 2.415168 ACTCCGTGCAAATTCACATACG 59.585 45.455 0.00 0.00 36.80 3.06
3656 4123 4.514816 CACAAATCAGGTGTGTGTGTATCA 59.485 41.667 0.00 0.00 41.22 2.15
3686 4153 1.355381 AGGTGCCCAACAGATGATGAA 59.645 47.619 0.00 0.00 0.00 2.57
3714 4181 1.416772 GGTACCTGAGGTATGGCTTCC 59.583 57.143 15.42 6.30 40.54 3.46
3715 4182 2.912690 GGTACCTGAGGTATGGCTTC 57.087 55.000 15.42 0.18 40.54 3.86
3730 4197 3.200483 GACGTGATGGGTAATTGGGTAC 58.800 50.000 0.00 0.00 0.00 3.34
3750 4217 0.944386 GGCTTTCAACAGCGTCTTGA 59.056 50.000 0.00 0.00 41.12 3.02
3752 4219 0.179018 AGGGCTTTCAACAGCGTCTT 60.179 50.000 0.00 0.00 41.12 3.01
3790 4264 6.001449 ACATAGGGCAAGTTATGTGTACAT 57.999 37.500 0.00 2.75 38.65 2.29
3796 4270 6.493458 AGAACAAAACATAGGGCAAGTTATGT 59.507 34.615 0.00 0.00 41.07 2.29
3830 4304 5.231779 CACTAACAGCGAGAGAGATTCAATG 59.768 44.000 0.00 0.00 0.00 2.82
3831 4305 5.105554 ACACTAACAGCGAGAGAGATTCAAT 60.106 40.000 0.00 0.00 0.00 2.57
3849 4323 6.157862 ACTTCCCCCTAGTAGTAACACTAA 57.842 41.667 0.00 0.00 31.62 2.24
3861 4335 1.834263 CCACTCTCAACTTCCCCCTAG 59.166 57.143 0.00 0.00 0.00 3.02
3864 4338 0.840722 TCCCACTCTCAACTTCCCCC 60.841 60.000 0.00 0.00 0.00 5.40
3865 4339 1.290134 ATCCCACTCTCAACTTCCCC 58.710 55.000 0.00 0.00 0.00 4.81
3866 4340 2.573915 AGAATCCCACTCTCAACTTCCC 59.426 50.000 0.00 0.00 0.00 3.97
3867 4341 3.990959 AGAATCCCACTCTCAACTTCC 57.009 47.619 0.00 0.00 0.00 3.46
3868 4342 4.682050 GCCTAGAATCCCACTCTCAACTTC 60.682 50.000 0.00 0.00 0.00 3.01
3869 4343 3.198853 GCCTAGAATCCCACTCTCAACTT 59.801 47.826 0.00 0.00 0.00 2.66
3870 4344 2.769095 GCCTAGAATCCCACTCTCAACT 59.231 50.000 0.00 0.00 0.00 3.16
3872 4346 2.768527 CTGCCTAGAATCCCACTCTCAA 59.231 50.000 0.00 0.00 0.00 3.02
3874 4348 2.393646 ACTGCCTAGAATCCCACTCTC 58.606 52.381 0.00 0.00 0.00 3.20
3875 4349 2.559381 ACTGCCTAGAATCCCACTCT 57.441 50.000 0.00 0.00 0.00 3.24
4045 4558 2.628178 TGAACTCATGTCACCTTCGTCT 59.372 45.455 0.00 0.00 0.00 4.18
4091 4606 4.284490 ACAATGACCTCTCTGTTTCAGCTA 59.716 41.667 0.00 0.00 0.00 3.32
4092 4607 3.072184 ACAATGACCTCTCTGTTTCAGCT 59.928 43.478 0.00 0.00 0.00 4.24
4117 4634 6.449041 ACCAATGGACTCTAACCCCTAATAAA 59.551 38.462 6.16 0.00 0.00 1.40
4118 4635 5.974370 ACCAATGGACTCTAACCCCTAATAA 59.026 40.000 6.16 0.00 0.00 1.40
4120 4637 4.380791 ACCAATGGACTCTAACCCCTAAT 58.619 43.478 6.16 0.00 0.00 1.73
4134 4651 1.271108 TGAACGCAGCTAACCAATGGA 60.271 47.619 6.16 0.00 0.00 3.41
4242 4759 2.672961 TTACTGTTCATCTGGGCTCG 57.327 50.000 0.00 0.00 0.00 5.03
4450 4984 6.321848 TCATCATCATATCACATTTGTGGC 57.678 37.500 10.60 0.00 45.65 5.01
4493 5029 3.988819 TGTGGGCAAACTTAAGAAATGC 58.011 40.909 10.09 14.93 36.31 3.56
4544 5080 5.771469 TGTTGGCATGAACAGTAAATTCAG 58.229 37.500 0.00 0.00 39.36 3.02


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

AutoCloner maintained by Alex Coulton.