Multiple sequence alignment - TraesCS4D01G223900

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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 TraesCS4D01G223900 chr4D 100.000 2396 0 0 1 2396 380530905 380533300 0.000000e+00 4425
1 TraesCS4D01G223900 chr4B 88.831 1352 58 39 516 1810 468000792 468002107 0.000000e+00 1574
2 TraesCS4D01G223900 chr4B 90.179 560 25 14 1846 2396 468002106 468002644 0.000000e+00 702
3 TraesCS4D01G223900 chr4A 89.333 1275 52 43 533 1751 83312974 83311728 0.000000e+00 1524
4 TraesCS4D01G223900 chr4A 89.877 652 40 18 1756 2396 83311701 83311065 0.000000e+00 815
5 TraesCS4D01G223900 chr4A 91.282 390 28 4 108 494 83313685 83313299 5.870000e-146 527


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 TraesCS4D01G223900 chr4D 380530905 380533300 2395 False 4425.000000 4425 100.000 1 2396 1 chr4D.!!$F1 2395
1 TraesCS4D01G223900 chr4B 468000792 468002644 1852 False 1138.000000 1574 89.505 516 2396 2 chr4B.!!$F1 1880
2 TraesCS4D01G223900 chr4A 83311065 83313685 2620 True 955.333333 1524 90.164 108 2396 3 chr4A.!!$R1 2288

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
95 96 0.036732 CTTGCTACAAGCCAGGGACA 59.963 55.0 0.0 0.0 41.51 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1690 2080 0.684535 TCGACAGAGGACATGGCAAA 59.315 50.0 0.0 0.0 0.0 3.68 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 3.933861 AGTCTTCCCTTCACACAAAGT 57.066 42.857 0.00 0.00 0.00 2.66
22 23 4.236527 AGTCTTCCCTTCACACAAAGTT 57.763 40.909 0.00 0.00 0.00 2.66
23 24 3.947834 AGTCTTCCCTTCACACAAAGTTG 59.052 43.478 0.00 0.00 0.00 3.16
24 25 2.687935 TCTTCCCTTCACACAAAGTTGC 59.312 45.455 0.00 0.00 0.00 4.17
25 26 1.021202 TCCCTTCACACAAAGTTGCG 58.979 50.000 0.00 0.00 0.00 4.85
26 27 0.594796 CCCTTCACACAAAGTTGCGC 60.595 55.000 0.00 0.00 0.00 6.09
27 28 0.929824 CCTTCACACAAAGTTGCGCG 60.930 55.000 0.00 0.00 0.00 6.86
28 29 1.531522 CTTCACACAAAGTTGCGCGC 61.532 55.000 27.26 27.26 0.00 6.86
29 30 1.987704 TTCACACAAAGTTGCGCGCT 61.988 50.000 33.29 9.55 0.00 5.92
30 31 2.005537 CACACAAAGTTGCGCGCTC 61.006 57.895 33.29 23.83 0.00 5.03
31 32 2.792543 CACAAAGTTGCGCGCTCG 60.793 61.111 33.29 15.57 39.07 5.03
49 50 4.200283 CACCGCTCGCTCCTCCTC 62.200 72.222 0.00 0.00 0.00 3.71
50 51 4.434354 ACCGCTCGCTCCTCCTCT 62.434 66.667 0.00 0.00 0.00 3.69
51 52 3.898509 CCGCTCGCTCCTCCTCTG 61.899 72.222 0.00 0.00 0.00 3.35
52 53 4.567385 CGCTCGCTCCTCCTCTGC 62.567 72.222 0.00 0.00 0.00 4.26
53 54 4.219999 GCTCGCTCCTCCTCTGCC 62.220 72.222 0.00 0.00 0.00 4.85
54 55 2.441901 CTCGCTCCTCCTCTGCCT 60.442 66.667 0.00 0.00 0.00 4.75
55 56 2.441164 TCGCTCCTCCTCTGCCTC 60.441 66.667 0.00 0.00 0.00 4.70
56 57 2.441901 CGCTCCTCCTCTGCCTCT 60.442 66.667 0.00 0.00 0.00 3.69
57 58 1.152860 CGCTCCTCCTCTGCCTCTA 60.153 63.158 0.00 0.00 0.00 2.43
58 59 1.172180 CGCTCCTCCTCTGCCTCTAG 61.172 65.000 0.00 0.00 0.00 2.43
59 60 0.184933 GCTCCTCCTCTGCCTCTAGA 59.815 60.000 0.00 0.00 0.00 2.43
60 61 1.981256 CTCCTCCTCTGCCTCTAGAC 58.019 60.000 0.00 0.00 0.00 2.59
61 62 0.553819 TCCTCCTCTGCCTCTAGACC 59.446 60.000 0.00 0.00 0.00 3.85
62 63 0.260230 CCTCCTCTGCCTCTAGACCA 59.740 60.000 0.00 0.00 0.00 4.02
63 64 1.342474 CCTCCTCTGCCTCTAGACCAA 60.342 57.143 0.00 0.00 0.00 3.67
64 65 2.676748 CTCCTCTGCCTCTAGACCAAT 58.323 52.381 0.00 0.00 0.00 3.16
65 66 2.627699 CTCCTCTGCCTCTAGACCAATC 59.372 54.545 0.00 0.00 0.00 2.67
66 67 2.023984 TCCTCTGCCTCTAGACCAATCA 60.024 50.000 0.00 0.00 0.00 2.57
67 68 2.971330 CCTCTGCCTCTAGACCAATCAT 59.029 50.000 0.00 0.00 0.00 2.45
68 69 3.006752 CCTCTGCCTCTAGACCAATCATC 59.993 52.174 0.00 0.00 0.00 2.92
69 70 3.640498 CTCTGCCTCTAGACCAATCATCA 59.360 47.826 0.00 0.00 0.00 3.07
70 71 3.386078 TCTGCCTCTAGACCAATCATCAC 59.614 47.826 0.00 0.00 0.00 3.06
71 72 3.106827 TGCCTCTAGACCAATCATCACA 58.893 45.455 0.00 0.00 0.00 3.58
72 73 3.519107 TGCCTCTAGACCAATCATCACAA 59.481 43.478 0.00 0.00 0.00 3.33
73 74 3.873952 GCCTCTAGACCAATCATCACAAC 59.126 47.826 0.00 0.00 0.00 3.32
74 75 4.446371 CCTCTAGACCAATCATCACAACC 58.554 47.826 0.00 0.00 0.00 3.77
75 76 4.115516 CTCTAGACCAATCATCACAACCG 58.884 47.826 0.00 0.00 0.00 4.44
76 77 1.453155 AGACCAATCATCACAACCGC 58.547 50.000 0.00 0.00 0.00 5.68
77 78 1.003580 AGACCAATCATCACAACCGCT 59.996 47.619 0.00 0.00 0.00 5.52
78 79 1.812571 GACCAATCATCACAACCGCTT 59.187 47.619 0.00 0.00 0.00 4.68
79 80 1.541147 ACCAATCATCACAACCGCTTG 59.459 47.619 0.00 0.00 0.00 4.01
80 81 1.621107 CAATCATCACAACCGCTTGC 58.379 50.000 0.00 0.00 0.00 4.01
81 82 1.200716 CAATCATCACAACCGCTTGCT 59.799 47.619 0.00 0.00 0.00 3.91
82 83 2.401583 ATCATCACAACCGCTTGCTA 57.598 45.000 0.00 0.00 0.00 3.49
83 84 1.438651 TCATCACAACCGCTTGCTAC 58.561 50.000 0.00 0.00 0.00 3.58
84 85 1.155889 CATCACAACCGCTTGCTACA 58.844 50.000 0.00 0.00 0.00 2.74
85 86 1.535028 CATCACAACCGCTTGCTACAA 59.465 47.619 0.00 0.00 0.00 2.41
86 87 1.225855 TCACAACCGCTTGCTACAAG 58.774 50.000 2.95 2.95 0.00 3.16
87 88 0.385974 CACAACCGCTTGCTACAAGC 60.386 55.000 19.76 19.76 42.82 4.01
88 89 1.210155 CAACCGCTTGCTACAAGCC 59.790 57.895 22.69 8.65 41.51 4.35
89 90 1.228124 AACCGCTTGCTACAAGCCA 60.228 52.632 22.69 0.00 41.51 4.75
90 91 1.237285 AACCGCTTGCTACAAGCCAG 61.237 55.000 22.69 17.42 41.51 4.85
91 92 2.401766 CCGCTTGCTACAAGCCAGG 61.402 63.158 22.69 16.37 41.51 4.45
92 93 2.401766 CGCTTGCTACAAGCCAGGG 61.402 63.158 22.69 9.45 41.51 4.45
93 94 1.002134 GCTTGCTACAAGCCAGGGA 60.002 57.895 19.16 0.00 41.51 4.20
94 95 1.308783 GCTTGCTACAAGCCAGGGAC 61.309 60.000 19.16 0.00 41.51 4.46
95 96 0.036732 CTTGCTACAAGCCAGGGACA 59.963 55.000 0.00 0.00 41.51 4.02
96 97 0.476338 TTGCTACAAGCCAGGGACAA 59.524 50.000 0.00 0.00 41.51 3.18
97 98 0.036732 TGCTACAAGCCAGGGACAAG 59.963 55.000 0.00 0.00 41.51 3.16
98 99 0.678048 GCTACAAGCCAGGGACAAGG 60.678 60.000 0.00 0.00 34.48 3.61
99 100 0.693049 CTACAAGCCAGGGACAAGGT 59.307 55.000 0.00 0.00 0.00 3.50
100 101 0.400213 TACAAGCCAGGGACAAGGTG 59.600 55.000 0.00 0.00 0.00 4.00
101 102 1.151450 CAAGCCAGGGACAAGGTGT 59.849 57.895 0.00 0.00 0.00 4.16
102 103 1.151450 AAGCCAGGGACAAGGTGTG 59.849 57.895 0.00 0.00 0.00 3.82
103 104 2.983725 AAGCCAGGGACAAGGTGTGC 62.984 60.000 0.00 0.00 38.03 4.57
104 105 2.515398 CCAGGGACAAGGTGTGCA 59.485 61.111 2.28 0.00 40.73 4.57
105 106 1.601759 CCAGGGACAAGGTGTGCAG 60.602 63.158 2.28 0.00 40.73 4.41
106 107 2.113986 AGGGACAAGGTGTGCAGC 59.886 61.111 2.28 0.00 40.73 5.25
121 122 1.871126 GCAGCTGCAAAGGAGGGAAC 61.871 60.000 33.36 0.00 41.59 3.62
146 147 1.550130 TTACAAGGTGCTAGGCGGCT 61.550 55.000 18.33 18.33 0.00 5.52
216 217 0.099436 GGTTGTGAGCGGCAATCATC 59.901 55.000 1.45 0.00 0.00 2.92
247 248 1.071542 ACCATGGTGATGTTGTGACGA 59.928 47.619 18.99 0.00 0.00 4.20
254 255 2.344441 GTGATGTTGTGACGATACGGTG 59.656 50.000 0.00 0.00 0.00 4.94
257 258 0.989890 GTTGTGACGATACGGTGAGC 59.010 55.000 0.00 0.00 0.00 4.26
261 262 1.003116 GTGACGATACGGTGAGCGTAT 60.003 52.381 26.94 26.94 37.07 3.06
270 271 0.301687 GGTGAGCGTATGTGCATTCG 59.698 55.000 6.80 6.80 37.31 3.34
273 274 0.301687 GAGCGTATGTGCATTCGGTG 59.698 55.000 17.62 0.00 41.14 4.94
287 288 0.389296 TCGGTGCTACGACAACATGG 60.389 55.000 0.00 0.00 38.06 3.66
328 329 2.897271 TACACAATCTGGGCCACAAT 57.103 45.000 0.00 0.00 0.00 2.71
329 330 2.014010 ACACAATCTGGGCCACAATT 57.986 45.000 0.00 2.42 0.00 2.32
371 375 2.032681 GGCGGCCAGTCTCACTTT 59.967 61.111 15.62 0.00 0.00 2.66
379 383 1.002544 CCAGTCTCACTTTCCCTCACC 59.997 57.143 0.00 0.00 0.00 4.02
382 386 3.049344 AGTCTCACTTTCCCTCACCTTT 58.951 45.455 0.00 0.00 0.00 3.11
423 427 5.588648 CGAACCTTAAGCCTGAATTATTGGA 59.411 40.000 0.00 0.00 0.00 3.53
433 437 5.373222 CCTGAATTATTGGACCGTGGAATA 58.627 41.667 0.00 0.00 0.00 1.75
436 440 7.663905 CCTGAATTATTGGACCGTGGAATAATA 59.336 37.037 7.57 0.00 33.23 0.98
443 447 4.468510 TGGACCGTGGAATAATACTTGTCT 59.531 41.667 0.00 0.00 0.00 3.41
469 473 2.968737 TGGACAGTCCAGAGAGCTC 58.031 57.895 19.21 5.27 42.67 4.09
471 475 1.662438 GGACAGTCCAGAGAGCTCCG 61.662 65.000 15.43 0.00 36.28 4.63
481 485 3.380142 CAGAGAGCTCCGCTTTTAGATC 58.620 50.000 10.93 0.00 39.88 2.75
491 495 3.304794 CCGCTTTTAGATCCCGACTAGAG 60.305 52.174 0.00 0.00 0.00 2.43
494 498 5.181622 CGCTTTTAGATCCCGACTAGAGTAT 59.818 44.000 0.00 0.00 0.00 2.12
495 499 6.614160 GCTTTTAGATCCCGACTAGAGTATC 58.386 44.000 0.00 0.00 0.00 2.24
505 509 3.424861 CGACTAGAGTATCGGACAGTACG 59.575 52.174 0.00 0.00 42.67 3.67
506 510 4.367450 GACTAGAGTATCGGACAGTACGT 58.633 47.826 4.74 0.00 42.67 3.57
509 513 4.399004 AGAGTATCGGACAGTACGTACT 57.601 45.455 22.45 22.45 42.67 2.73
510 514 4.764172 AGAGTATCGGACAGTACGTACTT 58.236 43.478 25.35 16.26 42.67 2.24
511 515 4.569966 AGAGTATCGGACAGTACGTACTTG 59.430 45.833 25.35 20.88 42.67 3.16
512 516 2.556534 ATCGGACAGTACGTACTTGC 57.443 50.000 25.35 18.59 33.46 4.01
513 517 1.237533 TCGGACAGTACGTACTTGCA 58.762 50.000 25.35 5.60 33.46 4.08
514 518 1.069022 TCGGACAGTACGTACTTGCAC 60.069 52.381 25.35 15.39 33.46 4.57
531 821 2.821378 TGCACCTTCACCTCATCAATTG 59.179 45.455 0.00 0.00 0.00 2.32
539 829 6.407412 CCTTCACCTCATCAATTGCTACTCTA 60.407 42.308 0.00 0.00 0.00 2.43
563 853 7.870509 ACACATATCAGCATCACAAGTTATT 57.129 32.000 0.00 0.00 0.00 1.40
564 854 8.284945 ACACATATCAGCATCACAAGTTATTT 57.715 30.769 0.00 0.00 0.00 1.40
565 855 8.186163 ACACATATCAGCATCACAAGTTATTTG 58.814 33.333 0.00 0.00 42.68 2.32
566 856 7.166970 CACATATCAGCATCACAAGTTATTTGC 59.833 37.037 0.00 0.00 40.59 3.68
567 857 4.439305 TCAGCATCACAAGTTATTTGCC 57.561 40.909 0.00 0.00 40.59 4.52
568 858 3.825585 TCAGCATCACAAGTTATTTGCCA 59.174 39.130 0.00 0.00 40.59 4.92
569 859 4.280425 TCAGCATCACAAGTTATTTGCCAA 59.720 37.500 0.00 0.00 40.59 4.52
570 860 4.624024 CAGCATCACAAGTTATTTGCCAAG 59.376 41.667 0.00 0.00 40.59 3.61
571 861 4.523943 AGCATCACAAGTTATTTGCCAAGA 59.476 37.500 0.00 0.00 40.59 3.02
576 866 6.738114 TCACAAGTTATTTGCCAAGAAAGAG 58.262 36.000 0.00 0.00 40.59 2.85
580 870 7.449704 ACAAGTTATTTGCCAAGAAAGAGAGAT 59.550 33.333 0.00 0.00 40.59 2.75
628 918 6.656314 TCATGTTACACGTAAAGCTAATGG 57.344 37.500 0.00 0.00 0.00 3.16
643 933 3.497640 GCTAATGGTGATAGCTCTGCTTG 59.502 47.826 0.00 0.00 41.98 4.01
981 1326 4.426112 GCAAGGCAAGGAAGCGGC 62.426 66.667 0.00 0.00 34.64 6.53
1359 1704 2.752238 CTCCTCGTCCTCGCCAGT 60.752 66.667 0.00 0.00 36.96 4.00
1455 1800 8.623030 TGTACGTGTATGTGTGTATGTATGTAT 58.377 33.333 0.00 0.00 0.00 2.29
1456 1801 7.924103 ACGTGTATGTGTGTATGTATGTATG 57.076 36.000 0.00 0.00 0.00 2.39
1457 1802 7.485810 ACGTGTATGTGTGTATGTATGTATGT 58.514 34.615 0.00 0.00 0.00 2.29
1479 1824 4.618912 GTGATTCCATCGTATCGATCTGTG 59.381 45.833 0.00 0.00 45.19 3.66
1556 1908 2.041620 TGCCTTGCTTTTCCTCCTGTAT 59.958 45.455 0.00 0.00 0.00 2.29
1557 1909 3.265737 TGCCTTGCTTTTCCTCCTGTATA 59.734 43.478 0.00 0.00 0.00 1.47
1558 1910 4.079787 TGCCTTGCTTTTCCTCCTGTATAT 60.080 41.667 0.00 0.00 0.00 0.86
1559 1911 5.131977 TGCCTTGCTTTTCCTCCTGTATATA 59.868 40.000 0.00 0.00 0.00 0.86
1560 1912 5.703130 GCCTTGCTTTTCCTCCTGTATATAG 59.297 44.000 0.00 0.00 0.00 1.31
1561 1913 6.464465 GCCTTGCTTTTCCTCCTGTATATAGA 60.464 42.308 0.00 0.00 0.00 1.98
1562 1914 6.931840 CCTTGCTTTTCCTCCTGTATATAGAC 59.068 42.308 0.00 0.00 0.00 2.59
1624 1986 2.229302 GTGTCACTCCTCTGTACTGGTC 59.771 54.545 0.00 0.00 0.00 4.02
1683 2073 8.561738 TGTGGGAAAATTTACTCTATTCTGTC 57.438 34.615 0.00 0.00 0.00 3.51
1684 2074 7.333423 TGTGGGAAAATTTACTCTATTCTGTCG 59.667 37.037 0.00 0.00 0.00 4.35
1685 2075 7.548075 GTGGGAAAATTTACTCTATTCTGTCGA 59.452 37.037 0.00 0.00 0.00 4.20
1686 2076 8.098286 TGGGAAAATTTACTCTATTCTGTCGAA 58.902 33.333 0.00 0.00 0.00 3.71
1687 2077 8.943002 GGGAAAATTTACTCTATTCTGTCGAAA 58.057 33.333 0.00 0.00 31.91 3.46
1695 2085 7.484035 ACTCTATTCTGTCGAAATATTTGCC 57.516 36.000 5.17 0.00 31.91 4.52
1696 2086 7.047891 ACTCTATTCTGTCGAAATATTTGCCA 58.952 34.615 5.17 0.00 31.91 4.92
1697 2087 7.716998 ACTCTATTCTGTCGAAATATTTGCCAT 59.283 33.333 5.17 0.00 31.91 4.40
1698 2088 7.864686 TCTATTCTGTCGAAATATTTGCCATG 58.135 34.615 5.17 0.00 31.91 3.66
1699 2089 5.895636 TTCTGTCGAAATATTTGCCATGT 57.104 34.783 5.17 0.00 0.00 3.21
1700 2090 5.484173 TCTGTCGAAATATTTGCCATGTC 57.516 39.130 5.17 0.00 0.00 3.06
1701 2091 4.335315 TCTGTCGAAATATTTGCCATGTCC 59.665 41.667 5.17 0.00 0.00 4.02
1702 2092 4.269183 TGTCGAAATATTTGCCATGTCCT 58.731 39.130 5.17 0.00 0.00 3.85
1703 2093 4.335315 TGTCGAAATATTTGCCATGTCCTC 59.665 41.667 5.17 0.00 0.00 3.71
1704 2094 4.576463 GTCGAAATATTTGCCATGTCCTCT 59.424 41.667 5.17 0.00 0.00 3.69
1705 2095 4.576053 TCGAAATATTTGCCATGTCCTCTG 59.424 41.667 5.17 0.00 0.00 3.35
1706 2096 4.336433 CGAAATATTTGCCATGTCCTCTGT 59.664 41.667 5.17 0.00 0.00 3.41
1817 2229 4.184629 GCACAAAGGAAGATACGATCAGT 58.815 43.478 0.00 0.00 0.00 3.41
1844 2256 3.700961 CGGGTAGATGAAACGCGG 58.299 61.111 12.47 0.00 46.01 6.46
1895 2308 0.527565 GCGGGCAATCATGACACTTT 59.472 50.000 0.00 0.00 35.69 2.66
1905 2318 5.597813 ATCATGACACTTTGTTCGTTCTC 57.402 39.130 0.00 0.00 0.00 2.87
1984 2397 3.982241 GGTGCTTGCTGGTGGTGC 61.982 66.667 0.00 0.00 0.00 5.01
1985 2398 2.908940 GTGCTTGCTGGTGGTGCT 60.909 61.111 0.00 0.00 0.00 4.40
1986 2399 1.600636 GTGCTTGCTGGTGGTGCTA 60.601 57.895 0.00 0.00 0.00 3.49
1987 2400 1.600636 TGCTTGCTGGTGGTGCTAC 60.601 57.895 0.00 0.00 0.00 3.58
1988 2401 1.302832 GCTTGCTGGTGGTGCTACT 60.303 57.895 0.00 0.00 0.00 2.57
2012 2433 0.741221 GAAGGAAGATTGCCGACGCT 60.741 55.000 0.00 0.00 35.36 5.07
2115 2536 5.716228 TGCATGATCCACAGAAACCTTATTT 59.284 36.000 0.00 0.00 0.00 1.40
2207 2633 4.214383 CGAACGGCGCTGCATCAG 62.214 66.667 18.15 7.93 34.12 2.90
2209 2635 3.372676 GAACGGCGCTGCATCAGTG 62.373 63.158 18.15 3.23 43.89 3.66
2210 2636 4.687215 ACGGCGCTGCATCAGTGT 62.687 61.111 18.15 0.00 43.09 3.55
2212 2638 2.956987 GGCGCTGCATCAGTGTTT 59.043 55.556 7.64 0.00 43.09 2.83
2213 2639 1.634757 CGGCGCTGCATCAGTGTTTA 61.635 55.000 7.64 0.00 43.09 2.01
2214 2640 0.734889 GGCGCTGCATCAGTGTTTAT 59.265 50.000 7.64 0.00 43.09 1.40
2215 2641 1.532505 GGCGCTGCATCAGTGTTTATG 60.533 52.381 7.64 0.00 43.09 1.90
2216 2642 1.131126 GCGCTGCATCAGTGTTTATGT 59.869 47.619 0.00 0.00 43.09 2.29
2217 2643 2.414559 GCGCTGCATCAGTGTTTATGTT 60.415 45.455 0.00 0.00 43.09 2.71
2218 2644 3.181511 GCGCTGCATCAGTGTTTATGTTA 60.182 43.478 0.00 0.00 43.09 2.41
2219 2645 4.671508 GCGCTGCATCAGTGTTTATGTTAA 60.672 41.667 0.00 0.00 43.09 2.01
2220 2646 5.572211 CGCTGCATCAGTGTTTATGTTAAT 58.428 37.500 0.00 0.00 37.23 1.40
2221 2647 6.029607 CGCTGCATCAGTGTTTATGTTAATT 58.970 36.000 0.00 0.00 37.23 1.40
2222 2648 7.186128 CGCTGCATCAGTGTTTATGTTAATTA 58.814 34.615 0.00 0.00 37.23 1.40
2248 2674 0.698818 ACGCTTTTGAAGAGGGGGAT 59.301 50.000 4.88 0.00 32.10 3.85
2258 2684 7.954666 TTTGAAGAGGGGGATAAAATTACTG 57.045 36.000 0.00 0.00 0.00 2.74
2286 2712 1.298788 CGGTGCGTTTGTTGTTCCC 60.299 57.895 0.00 0.00 0.00 3.97
2287 2713 1.066752 GGTGCGTTTGTTGTTCCCC 59.933 57.895 0.00 0.00 0.00 4.81
2288 2714 1.066752 GTGCGTTTGTTGTTCCCCC 59.933 57.895 0.00 0.00 0.00 5.40
2340 2771 9.695884 CAAGAAATTAAAGTAAGCGAATCTCTC 57.304 33.333 0.00 0.00 0.00 3.20
2361 2792 1.604378 CCCGGAAGTGCATCCTCTT 59.396 57.895 0.73 0.00 37.34 2.85
2365 2797 1.467920 GGAAGTGCATCCTCTTTGGG 58.532 55.000 0.00 0.00 36.50 4.12
2367 2799 2.357569 GGAAGTGCATCCTCTTTGGGAT 60.358 50.000 0.00 0.00 46.02 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.123227 CAACTTTGTGTGAAGGGAAGACTA 58.877 41.667 0.00 0.00 0.00 2.59
1 2 3.933861 ACTTTGTGTGAAGGGAAGACT 57.066 42.857 0.00 0.00 0.00 3.24
2 3 3.489229 GCAACTTTGTGTGAAGGGAAGAC 60.489 47.826 0.00 0.00 0.00 3.01
3 4 2.687935 GCAACTTTGTGTGAAGGGAAGA 59.312 45.455 0.00 0.00 0.00 2.87
4 5 2.541588 CGCAACTTTGTGTGAAGGGAAG 60.542 50.000 0.00 0.00 34.14 3.46
5 6 1.403679 CGCAACTTTGTGTGAAGGGAA 59.596 47.619 0.00 0.00 34.14 3.97
6 7 1.021202 CGCAACTTTGTGTGAAGGGA 58.979 50.000 0.00 0.00 34.14 4.20
7 8 0.594796 GCGCAACTTTGTGTGAAGGG 60.595 55.000 0.30 0.00 40.65 3.95
8 9 2.872028 GCGCAACTTTGTGTGAAGG 58.128 52.632 0.30 0.00 40.65 3.46
13 14 2.327940 GAGCGCGCAACTTTGTGT 59.672 55.556 35.10 8.99 40.65 3.72
14 15 2.792543 CGAGCGCGCAACTTTGTG 60.793 61.111 35.10 9.13 41.43 3.33
32 33 4.200283 GAGGAGGAGCGAGCGGTG 62.200 72.222 0.00 0.00 0.00 4.94
33 34 4.434354 AGAGGAGGAGCGAGCGGT 62.434 66.667 0.00 0.00 0.00 5.68
34 35 3.898509 CAGAGGAGGAGCGAGCGG 61.899 72.222 0.00 0.00 0.00 5.52
35 36 4.567385 GCAGAGGAGGAGCGAGCG 62.567 72.222 0.00 0.00 0.00 5.03
36 37 4.219999 GGCAGAGGAGGAGCGAGC 62.220 72.222 0.00 0.00 0.00 5.03
37 38 2.441901 AGGCAGAGGAGGAGCGAG 60.442 66.667 0.00 0.00 0.00 5.03
38 39 1.636769 TAGAGGCAGAGGAGGAGCGA 61.637 60.000 0.00 0.00 0.00 4.93
39 40 1.152860 TAGAGGCAGAGGAGGAGCG 60.153 63.158 0.00 0.00 0.00 5.03
40 41 0.184933 TCTAGAGGCAGAGGAGGAGC 59.815 60.000 0.00 0.00 0.00 4.70
41 42 1.478654 GGTCTAGAGGCAGAGGAGGAG 60.479 61.905 0.00 0.00 0.00 3.69
42 43 0.553819 GGTCTAGAGGCAGAGGAGGA 59.446 60.000 0.00 0.00 0.00 3.71
43 44 0.260230 TGGTCTAGAGGCAGAGGAGG 59.740 60.000 0.00 0.00 0.00 4.30
44 45 2.151502 TTGGTCTAGAGGCAGAGGAG 57.848 55.000 0.00 0.00 0.00 3.69
45 46 2.023984 TGATTGGTCTAGAGGCAGAGGA 60.024 50.000 0.00 0.00 0.00 3.71
46 47 2.392662 TGATTGGTCTAGAGGCAGAGG 58.607 52.381 0.00 0.00 0.00 3.69
47 48 3.640498 TGATGATTGGTCTAGAGGCAGAG 59.360 47.826 0.00 0.00 0.00 3.35
48 49 3.386078 GTGATGATTGGTCTAGAGGCAGA 59.614 47.826 0.00 0.00 0.00 4.26
49 50 3.133542 TGTGATGATTGGTCTAGAGGCAG 59.866 47.826 0.00 0.00 0.00 4.85
50 51 3.106827 TGTGATGATTGGTCTAGAGGCA 58.893 45.455 0.00 0.00 0.00 4.75
51 52 3.827008 TGTGATGATTGGTCTAGAGGC 57.173 47.619 0.00 0.00 0.00 4.70
52 53 4.446371 GGTTGTGATGATTGGTCTAGAGG 58.554 47.826 0.00 0.00 0.00 3.69
53 54 4.115516 CGGTTGTGATGATTGGTCTAGAG 58.884 47.826 0.00 0.00 0.00 2.43
54 55 3.678806 GCGGTTGTGATGATTGGTCTAGA 60.679 47.826 0.00 0.00 0.00 2.43
55 56 2.609459 GCGGTTGTGATGATTGGTCTAG 59.391 50.000 0.00 0.00 0.00 2.43
56 57 2.236146 AGCGGTTGTGATGATTGGTCTA 59.764 45.455 0.00 0.00 0.00 2.59
57 58 1.003580 AGCGGTTGTGATGATTGGTCT 59.996 47.619 0.00 0.00 0.00 3.85
58 59 1.453155 AGCGGTTGTGATGATTGGTC 58.547 50.000 0.00 0.00 0.00 4.02
59 60 1.541147 CAAGCGGTTGTGATGATTGGT 59.459 47.619 18.96 0.00 0.00 3.67
60 61 1.733389 GCAAGCGGTTGTGATGATTGG 60.733 52.381 26.49 0.00 35.92 3.16
61 62 1.200716 AGCAAGCGGTTGTGATGATTG 59.799 47.619 26.49 0.91 35.92 2.67
62 63 1.538047 AGCAAGCGGTTGTGATGATT 58.462 45.000 26.49 3.66 35.92 2.57
63 64 2.009774 GTAGCAAGCGGTTGTGATGAT 58.990 47.619 26.49 4.19 35.92 2.45
64 65 1.270571 TGTAGCAAGCGGTTGTGATGA 60.271 47.619 26.49 6.66 35.92 2.92
65 66 1.155889 TGTAGCAAGCGGTTGTGATG 58.844 50.000 26.49 3.97 35.92 3.07
66 67 1.806542 CTTGTAGCAAGCGGTTGTGAT 59.193 47.619 26.49 15.98 35.92 3.06
67 68 1.225855 CTTGTAGCAAGCGGTTGTGA 58.774 50.000 26.49 13.33 35.92 3.58
68 69 0.385974 GCTTGTAGCAAGCGGTTGTG 60.386 55.000 26.49 5.54 41.89 3.33
69 70 1.515521 GGCTTGTAGCAAGCGGTTGT 61.516 55.000 26.49 16.23 44.75 3.32
70 71 1.210155 GGCTTGTAGCAAGCGGTTG 59.790 57.895 22.57 22.57 44.75 3.77
71 72 1.228124 TGGCTTGTAGCAAGCGGTT 60.228 52.632 22.35 0.00 44.75 4.44
72 73 1.672356 CTGGCTTGTAGCAAGCGGT 60.672 57.895 22.35 0.00 44.75 5.68
73 74 2.401766 CCTGGCTTGTAGCAAGCGG 61.402 63.158 22.35 16.71 41.00 5.52
74 75 2.401766 CCCTGGCTTGTAGCAAGCG 61.402 63.158 22.35 12.66 41.00 4.68
75 76 1.002134 TCCCTGGCTTGTAGCAAGC 60.002 57.895 21.49 21.49 41.00 4.01
76 77 0.036732 TGTCCCTGGCTTGTAGCAAG 59.963 55.000 4.65 4.65 44.75 4.01
77 78 0.476338 TTGTCCCTGGCTTGTAGCAA 59.524 50.000 0.67 0.00 44.75 3.91
78 79 0.036732 CTTGTCCCTGGCTTGTAGCA 59.963 55.000 0.67 0.00 44.75 3.49
79 80 0.678048 CCTTGTCCCTGGCTTGTAGC 60.678 60.000 0.00 0.00 41.46 3.58
80 81 0.693049 ACCTTGTCCCTGGCTTGTAG 59.307 55.000 0.00 0.00 0.00 2.74
81 82 0.400213 CACCTTGTCCCTGGCTTGTA 59.600 55.000 0.00 0.00 0.00 2.41
82 83 1.151450 CACCTTGTCCCTGGCTTGT 59.849 57.895 0.00 0.00 0.00 3.16
83 84 1.151450 ACACCTTGTCCCTGGCTTG 59.849 57.895 0.00 0.00 0.00 4.01
84 85 1.151450 CACACCTTGTCCCTGGCTT 59.849 57.895 0.00 0.00 0.00 4.35
85 86 2.839098 CACACCTTGTCCCTGGCT 59.161 61.111 0.00 0.00 0.00 4.75
86 87 2.985847 GCACACCTTGTCCCTGGC 60.986 66.667 0.00 0.00 0.00 4.85
87 88 1.601759 CTGCACACCTTGTCCCTGG 60.602 63.158 0.00 0.00 0.00 4.45
88 89 2.263741 GCTGCACACCTTGTCCCTG 61.264 63.158 0.00 0.00 0.00 4.45
89 90 2.113986 GCTGCACACCTTGTCCCT 59.886 61.111 0.00 0.00 0.00 4.20
90 91 2.113986 AGCTGCACACCTTGTCCC 59.886 61.111 1.02 0.00 0.00 4.46
91 92 2.912624 GCAGCTGCACACCTTGTCC 61.913 63.158 33.36 0.00 41.59 4.02
92 93 2.641559 GCAGCTGCACACCTTGTC 59.358 61.111 33.36 0.00 41.59 3.18
102 103 1.604593 TTCCCTCCTTTGCAGCTGC 60.605 57.895 31.89 31.89 42.50 5.25
103 104 1.580845 CGTTCCCTCCTTTGCAGCTG 61.581 60.000 10.11 10.11 0.00 4.24
104 105 1.302832 CGTTCCCTCCTTTGCAGCT 60.303 57.895 0.00 0.00 0.00 4.24
105 106 0.889186 TTCGTTCCCTCCTTTGCAGC 60.889 55.000 0.00 0.00 0.00 5.25
106 107 1.470098 CATTCGTTCCCTCCTTTGCAG 59.530 52.381 0.00 0.00 0.00 4.41
121 122 2.351726 GCCTAGCACCTTGTAACATTCG 59.648 50.000 0.00 0.00 0.00 3.34
162 163 1.165284 TGCAGCATCGACTTGCAACA 61.165 50.000 15.41 9.17 44.13 3.33
164 165 4.061949 TGCAGCATCGACTTGCAA 57.938 50.000 15.41 0.00 44.13 4.08
204 205 0.399454 AGCATAGGATGATTGCCGCT 59.601 50.000 0.00 0.00 37.07 5.52
216 217 1.105167 CACCATGGTGGCAGCATAGG 61.105 60.000 33.56 29.62 42.67 2.57
254 255 0.301687 CACCGAATGCACATACGCTC 59.698 55.000 0.00 0.00 0.00 5.03
270 271 1.076332 GACCATGTTGTCGTAGCACC 58.924 55.000 0.00 0.00 0.00 5.01
273 274 1.067142 TCCAGACCATGTTGTCGTAGC 60.067 52.381 0.00 0.00 40.26 3.58
278 279 2.966050 GTCTCTCCAGACCATGTTGTC 58.034 52.381 0.00 0.00 43.14 3.18
328 329 3.751175 CCGGATCTTCTAAAGCAACACAA 59.249 43.478 0.00 0.00 0.00 3.33
329 330 3.334691 CCGGATCTTCTAAAGCAACACA 58.665 45.455 0.00 0.00 0.00 3.72
359 360 1.002544 GGTGAGGGAAAGTGAGACTGG 59.997 57.143 0.00 0.00 0.00 4.00
371 375 2.653543 TTAGGCCTAAAGGTGAGGGA 57.346 50.000 23.21 0.00 37.57 4.20
402 406 5.201243 GGTCCAATAATTCAGGCTTAAGGT 58.799 41.667 4.29 0.00 0.00 3.50
423 427 6.786967 AGTAGACAAGTATTATTCCACGGT 57.213 37.500 0.00 0.00 0.00 4.83
433 437 7.680730 ACTGTCCATTCAAGTAGACAAGTATT 58.319 34.615 0.00 0.00 38.68 1.89
436 440 5.511545 GGACTGTCCATTCAAGTAGACAAGT 60.512 44.000 21.70 0.00 38.68 3.16
469 473 2.621998 TCTAGTCGGGATCTAAAAGCGG 59.378 50.000 0.00 0.00 0.00 5.52
471 475 4.922471 ACTCTAGTCGGGATCTAAAAGC 57.078 45.455 0.00 0.00 0.00 3.51
491 495 3.181507 TGCAAGTACGTACTGTCCGATAC 60.182 47.826 28.00 7.48 36.50 2.24
494 498 1.069022 GTGCAAGTACGTACTGTCCGA 60.069 52.381 28.00 8.75 36.50 4.55
495 499 1.334054 GTGCAAGTACGTACTGTCCG 58.666 55.000 28.00 17.23 36.50 4.79
497 501 2.719426 AGGTGCAAGTACGTACTGTC 57.281 50.000 28.00 21.21 36.50 3.51
499 503 2.729882 GTGAAGGTGCAAGTACGTACTG 59.270 50.000 28.00 21.08 36.50 2.74
500 504 2.288640 GGTGAAGGTGCAAGTACGTACT 60.289 50.000 22.45 22.45 38.39 2.73
502 506 1.965643 AGGTGAAGGTGCAAGTACGTA 59.034 47.619 0.00 0.00 0.00 3.57
505 509 2.543777 TGAGGTGAAGGTGCAAGTAC 57.456 50.000 0.00 0.00 0.00 2.73
506 510 2.637382 TGATGAGGTGAAGGTGCAAGTA 59.363 45.455 0.00 0.00 0.00 2.24
509 513 2.655090 TTGATGAGGTGAAGGTGCAA 57.345 45.000 0.00 0.00 0.00 4.08
510 514 2.821378 CAATTGATGAGGTGAAGGTGCA 59.179 45.455 0.00 0.00 0.00 4.57
511 515 2.416431 GCAATTGATGAGGTGAAGGTGC 60.416 50.000 10.34 0.00 0.00 5.01
512 516 3.087031 AGCAATTGATGAGGTGAAGGTG 58.913 45.455 10.34 0.00 0.00 4.00
513 517 3.446442 AGCAATTGATGAGGTGAAGGT 57.554 42.857 10.34 0.00 0.00 3.50
514 518 4.521146 AGTAGCAATTGATGAGGTGAAGG 58.479 43.478 10.34 0.00 0.00 3.46
531 821 5.861251 GTGATGCTGATATGTGTAGAGTAGC 59.139 44.000 0.00 0.00 0.00 3.58
539 829 7.870509 AATAACTTGTGATGCTGATATGTGT 57.129 32.000 0.00 0.00 0.00 3.72
563 853 6.481313 CGATGATAATCTCTCTTTCTTGGCAA 59.519 38.462 0.00 0.00 0.00 4.52
564 854 5.987953 CGATGATAATCTCTCTTTCTTGGCA 59.012 40.000 0.00 0.00 0.00 4.92
565 855 5.988561 ACGATGATAATCTCTCTTTCTTGGC 59.011 40.000 0.00 0.00 0.00 4.52
566 856 6.983307 ACACGATGATAATCTCTCTTTCTTGG 59.017 38.462 0.00 0.00 0.00 3.61
567 857 8.417780 AACACGATGATAATCTCTCTTTCTTG 57.582 34.615 0.00 0.00 0.00 3.02
568 858 7.708752 GGAACACGATGATAATCTCTCTTTCTT 59.291 37.037 0.00 0.00 0.00 2.52
569 859 7.206687 GGAACACGATGATAATCTCTCTTTCT 58.793 38.462 0.00 0.00 0.00 2.52
570 860 6.422400 GGGAACACGATGATAATCTCTCTTTC 59.578 42.308 0.00 0.00 0.00 2.62
571 861 6.127054 TGGGAACACGATGATAATCTCTCTTT 60.127 38.462 0.00 0.00 33.40 2.52
576 866 5.584649 TGTTTGGGAACACGATGATAATCTC 59.415 40.000 0.00 0.00 40.71 2.75
610 900 6.477688 GCTATCACCATTAGCTTTACGTGTAA 59.522 38.462 0.00 0.00 39.18 2.41
628 918 1.325943 GTTCGCAAGCAGAGCTATCAC 59.674 52.381 0.00 0.00 38.25 3.06
772 1063 7.719633 GGCTAAATTATTCATTCACCTAGACCA 59.280 37.037 0.00 0.00 0.00 4.02
963 1308 4.107051 CCGCTTCCTTGCCTTGCG 62.107 66.667 0.00 0.00 45.22 4.85
1020 1365 4.988716 AGCACCGACGACTCCCCA 62.989 66.667 0.00 0.00 0.00 4.96
1065 1410 1.062428 AGGATCAGGATCACCGGGTAA 60.062 52.381 6.32 0.00 41.83 2.85
1200 1545 1.005156 GATCCAGCGGATGAGGAGC 60.005 63.158 13.68 0.00 43.27 4.70
1455 1800 4.278419 ACAGATCGATACGATGGAATCACA 59.722 41.667 11.26 0.00 47.00 3.58
1456 1801 4.618912 CACAGATCGATACGATGGAATCAC 59.381 45.833 11.26 0.00 47.00 3.06
1457 1802 4.321230 CCACAGATCGATACGATGGAATCA 60.321 45.833 11.26 0.00 47.00 2.57
1479 1824 5.590259 AGCAACAATCATTCATAGGTGTACC 59.410 40.000 0.00 0.00 0.00 3.34
1556 1908 8.675504 GCTAGCAGAATATAACCTTCGTCTATA 58.324 37.037 10.63 0.00 0.00 1.31
1557 1909 7.394923 AGCTAGCAGAATATAACCTTCGTCTAT 59.605 37.037 18.83 0.00 0.00 1.98
1558 1910 6.715718 AGCTAGCAGAATATAACCTTCGTCTA 59.284 38.462 18.83 0.00 0.00 2.59
1559 1911 5.536916 AGCTAGCAGAATATAACCTTCGTCT 59.463 40.000 18.83 0.00 0.00 4.18
1560 1912 5.631512 CAGCTAGCAGAATATAACCTTCGTC 59.368 44.000 18.83 0.00 0.00 4.20
1561 1913 5.302059 TCAGCTAGCAGAATATAACCTTCGT 59.698 40.000 18.83 0.00 0.00 3.85
1562 1914 5.773575 TCAGCTAGCAGAATATAACCTTCG 58.226 41.667 18.83 0.00 0.00 3.79
1624 1986 7.026631 TGATTCAGTAAAACACAGAACAAGG 57.973 36.000 0.00 0.00 35.71 3.61
1683 2073 4.336433 ACAGAGGACATGGCAAATATTTCG 59.664 41.667 0.00 0.00 0.00 3.46
1684 2074 5.504665 CGACAGAGGACATGGCAAATATTTC 60.505 44.000 0.00 0.00 0.00 2.17
1685 2075 4.336433 CGACAGAGGACATGGCAAATATTT 59.664 41.667 0.00 0.00 0.00 1.40
1686 2076 3.879295 CGACAGAGGACATGGCAAATATT 59.121 43.478 0.00 0.00 0.00 1.28
1687 2077 3.134623 TCGACAGAGGACATGGCAAATAT 59.865 43.478 0.00 0.00 0.00 1.28
1688 2078 2.499693 TCGACAGAGGACATGGCAAATA 59.500 45.455 0.00 0.00 0.00 1.40
1689 2079 1.278985 TCGACAGAGGACATGGCAAAT 59.721 47.619 0.00 0.00 0.00 2.32
1690 2080 0.684535 TCGACAGAGGACATGGCAAA 59.315 50.000 0.00 0.00 0.00 3.68
1691 2081 0.684535 TTCGACAGAGGACATGGCAA 59.315 50.000 0.00 0.00 0.00 4.52
1692 2082 0.684535 TTTCGACAGAGGACATGGCA 59.315 50.000 0.00 0.00 0.00 4.92
1693 2083 2.029838 ATTTCGACAGAGGACATGGC 57.970 50.000 0.00 0.00 0.00 4.40
1694 2084 5.504665 GCAAATATTTCGACAGAGGACATGG 60.505 44.000 0.00 0.00 0.00 3.66
1695 2085 5.504665 GGCAAATATTTCGACAGAGGACATG 60.505 44.000 0.00 0.00 0.00 3.21
1696 2086 4.576463 GGCAAATATTTCGACAGAGGACAT 59.424 41.667 0.00 0.00 0.00 3.06
1697 2087 3.938963 GGCAAATATTTCGACAGAGGACA 59.061 43.478 0.00 0.00 0.00 4.02
1698 2088 3.938963 TGGCAAATATTTCGACAGAGGAC 59.061 43.478 0.00 0.00 0.00 3.85
1699 2089 4.214986 TGGCAAATATTTCGACAGAGGA 57.785 40.909 0.00 0.00 0.00 3.71
1700 2090 4.336433 ACATGGCAAATATTTCGACAGAGG 59.664 41.667 0.00 0.86 0.00 3.69
1701 2091 5.490139 ACATGGCAAATATTTCGACAGAG 57.510 39.130 0.00 3.28 0.00 3.35
1702 2092 4.335315 GGACATGGCAAATATTTCGACAGA 59.665 41.667 0.00 0.00 0.00 3.41
1703 2093 4.336433 AGGACATGGCAAATATTTCGACAG 59.664 41.667 0.00 1.09 0.00 3.51
1704 2094 4.269183 AGGACATGGCAAATATTTCGACA 58.731 39.130 0.00 3.38 0.00 4.35
1705 2095 4.900635 AGGACATGGCAAATATTTCGAC 57.099 40.909 0.00 0.00 0.00 4.20
1706 2096 4.035091 CGAAGGACATGGCAAATATTTCGA 59.965 41.667 16.52 0.00 37.63 3.71
1817 2229 1.305802 ATCTACCCGCTGTGTCCCA 60.306 57.895 0.00 0.00 0.00 4.37
1844 2256 4.975631 TCTCCAGTCTATGCTCCTACTAC 58.024 47.826 0.00 0.00 0.00 2.73
1895 2308 5.587388 AAGGGATAATACGAGAACGAACA 57.413 39.130 0.00 0.00 42.66 3.18
1905 2318 1.455786 CGCTCGCAAAGGGATAATACG 59.544 52.381 0.00 0.00 40.30 3.06
1984 2397 4.261825 CGGCAATCTTCCTTCCTAGAGTAG 60.262 50.000 0.00 0.00 0.00 2.57
1985 2398 3.637229 CGGCAATCTTCCTTCCTAGAGTA 59.363 47.826 0.00 0.00 0.00 2.59
1986 2399 2.432510 CGGCAATCTTCCTTCCTAGAGT 59.567 50.000 0.00 0.00 0.00 3.24
1987 2400 2.695666 TCGGCAATCTTCCTTCCTAGAG 59.304 50.000 0.00 0.00 0.00 2.43
1988 2401 2.431057 GTCGGCAATCTTCCTTCCTAGA 59.569 50.000 0.00 0.00 0.00 2.43
2012 2433 0.767998 TGCCCATGTTGGTCACAGTA 59.232 50.000 0.00 0.00 39.40 2.74
2115 2536 2.231716 TCGGGATCTTTCTCCTGTCA 57.768 50.000 0.00 0.00 41.67 3.58
2172 2598 5.350365 CCGTTCGAAGATGATGGAAAAGTAA 59.650 40.000 0.00 0.00 35.04 2.24
2217 2643 9.321562 CCTCTTCAAAAGCGTACCTTATAATTA 57.678 33.333 0.00 0.00 32.20 1.40
2218 2644 7.282450 CCCTCTTCAAAAGCGTACCTTATAATT 59.718 37.037 0.00 0.00 32.20 1.40
2219 2645 6.766467 CCCTCTTCAAAAGCGTACCTTATAAT 59.234 38.462 0.00 0.00 32.20 1.28
2220 2646 6.110707 CCCTCTTCAAAAGCGTACCTTATAA 58.889 40.000 0.00 0.00 32.20 0.98
2221 2647 5.395990 CCCCTCTTCAAAAGCGTACCTTATA 60.396 44.000 0.00 0.00 32.20 0.98
2222 2648 4.514401 CCCTCTTCAAAAGCGTACCTTAT 58.486 43.478 0.00 0.00 32.20 1.73
2228 2654 1.354101 TCCCCCTCTTCAAAAGCGTA 58.646 50.000 0.00 0.00 0.00 4.42
2229 2655 0.698818 ATCCCCCTCTTCAAAAGCGT 59.301 50.000 0.00 0.00 0.00 5.07
2230 2656 2.710096 TATCCCCCTCTTCAAAAGCG 57.290 50.000 0.00 0.00 0.00 4.68
2275 2701 2.315176 CTGTCATGGGGGAACAACAAA 58.685 47.619 0.00 0.00 0.00 2.83
2286 2712 2.436646 GGCCGACACTGTCATGGG 60.437 66.667 9.84 3.92 32.09 4.00
2287 2713 2.034879 GTGGCCGACACTGTCATGG 61.035 63.158 9.84 4.59 46.72 3.66
2288 2714 3.566261 GTGGCCGACACTGTCATG 58.434 61.111 9.84 1.17 46.72 3.07
2306 2732 7.481798 CGCTTACTTTAATTTCTTGCGATCTTT 59.518 33.333 0.00 0.00 42.87 2.52
2361 2792 0.255604 ATGCATCGTGTCCATCCCAA 59.744 50.000 0.00 0.00 0.00 4.12


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

AutoCloner maintained by Alex Coulton.