Multiple sequence alignment - TraesCS7D01G441900

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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 TraesCS7D01G441900 chr7D 100.000 2339 0 0 1 2339 561194177 561196515 0.000000e+00 4320.0
1 TraesCS7D01G441900 chr7D 82.740 365 48 10 1940 2301 601209774 601210126 6.280000e-81 311.0
2 TraesCS7D01G441900 chr7D 82.466 365 49 10 1940 2301 601169317 601169669 2.920000e-79 305.0
3 TraesCS7D01G441900 chr5D 95.775 1633 43 5 731 2339 489101058 489099428 0.000000e+00 2610.0
4 TraesCS7D01G441900 chr5D 93.617 141 6 2 593 733 300954989 300955126 8.470000e-50 207.0
5 TraesCS7D01G441900 chr5D 100.000 45 0 0 517 561 3137688 3137732 1.490000e-12 84.2
6 TraesCS7D01G441900 chr7A 97.299 1296 33 2 731 2025 658137703 658136409 0.000000e+00 2198.0
7 TraesCS7D01G441900 chr7A 97.941 680 14 0 731 1410 576957614 576958293 0.000000e+00 1179.0
8 TraesCS7D01G441900 chr7A 96.581 585 19 1 1442 2026 576958287 576958870 0.000000e+00 968.0
9 TraesCS7D01G441900 chr7A 89.504 705 61 6 1062 1759 60439379 60440077 0.000000e+00 880.0
10 TraesCS7D01G441900 chr7A 92.216 334 12 4 2018 2339 576959636 576959967 5.890000e-126 460.0
11 TraesCS7D01G441900 chr7A 91.642 335 12 7 2018 2339 658135645 658135314 1.270000e-122 449.0
12 TraesCS7D01G441900 chr3A 96.593 1086 33 4 731 1815 355265243 355264161 0.000000e+00 1797.0
13 TraesCS7D01G441900 chr3A 96.000 900 32 4 731 1627 54459498 54458600 0.000000e+00 1459.0
14 TraesCS7D01G441900 chr3A 89.407 708 62 7 1062 1762 297589556 297588855 0.000000e+00 880.0
15 TraesCS7D01G441900 chr3A 92.678 478 21 3 1874 2339 355264148 355263673 0.000000e+00 676.0
16 TraesCS7D01G441900 chr3A 91.423 478 19 4 1874 2339 54451273 54450806 9.120000e-179 636.0
17 TraesCS7D01G441900 chr4B 92.166 1251 90 6 1055 2301 272039326 272040572 0.000000e+00 1760.0
18 TraesCS7D01G441900 chr4B 93.841 276 15 2 731 1005 272038961 272039235 4.650000e-112 414.0
19 TraesCS7D01G441900 chr4B 100.000 45 0 0 517 561 495539967 495539923 1.490000e-12 84.2
20 TraesCS7D01G441900 chr4B 97.917 48 0 1 1007 1054 272039277 272039231 5.360000e-12 82.4
21 TraesCS7D01G441900 chr4B 100.000 41 0 0 375 415 209175104 209175064 2.490000e-10 76.8
22 TraesCS7D01G441900 chr6A 89.563 709 60 7 1062 1762 516896958 516896256 0.000000e+00 887.0
23 TraesCS7D01G441900 chr6A 89.548 708 61 7 1062 1762 555001435 555000734 0.000000e+00 885.0
24 TraesCS7D01G441900 chr1B 98.623 363 5 0 731 1093 198558180 198558542 0.000000e+00 643.0
25 TraesCS7D01G441900 chr6B 98.662 299 4 0 731 1029 480666339 480666637 4.430000e-147 531.0
26 TraesCS7D01G441900 chr5B 94.700 283 9 5 1 280 511017412 511017691 3.570000e-118 435.0
27 TraesCS7D01G441900 chr5B 95.167 269 9 4 1 267 277977573 277977307 2.780000e-114 422.0
28 TraesCS7D01G441900 chr5B 92.949 156 10 1 563 718 511017812 511017966 2.340000e-55 226.0
29 TraesCS7D01G441900 chr5B 100.000 45 0 0 517 561 713079416 713079372 1.490000e-12 84.2
30 TraesCS7D01G441900 chr5B 100.000 41 0 0 375 415 326935200 326935240 2.490000e-10 76.8
31 TraesCS7D01G441900 chr5B 100.000 41 0 0 375 415 713071750 713071710 2.490000e-10 76.8
32 TraesCS7D01G441900 chr4D 95.000 280 8 4 1 280 162092311 162092038 3.570000e-118 435.0
33 TraesCS7D01G441900 chr4D 94.306 281 12 4 1 280 47657973 47657696 5.970000e-116 427.0
34 TraesCS7D01G441900 chr4D 95.513 156 6 1 563 718 162091917 162091763 4.990000e-62 248.0
35 TraesCS7D01G441900 chr4D 92.357 157 8 2 563 719 47657575 47657423 1.090000e-53 220.0
36 TraesCS7D01G441900 chr4D 100.000 45 0 0 517 561 135033156 135033112 1.490000e-12 84.2
37 TraesCS7D01G441900 chr4D 100.000 45 0 0 517 561 241188893 241188849 1.490000e-12 84.2
38 TraesCS7D01G441900 chr4D 100.000 41 0 0 375 415 135014259 135014299 2.490000e-10 76.8
39 TraesCS7D01G441900 chr2B 94.681 282 11 4 1 280 114655853 114656132 3.570000e-118 435.0
40 TraesCS7D01G441900 chr2B 91.824 159 10 3 563 719 114656242 114656399 3.910000e-53 219.0
41 TraesCS7D01G441900 chr4A 94.306 281 10 6 1 280 741965208 741965483 2.150000e-115 425.0
42 TraesCS7D01G441900 chr4A 94.268 157 9 0 563 719 741965604 741965760 8.350000e-60 241.0
43 TraesCS7D01G441900 chr4A 90.476 147 14 0 563 709 120199440 120199294 6.600000e-46 195.0
44 TraesCS7D01G441900 chr4A 88.136 59 6 1 276 333 120199499 120199441 4.170000e-08 69.4
45 TraesCS7D01G441900 chr4A 97.143 35 0 1 276 309 741965545 741965579 9.030000e-05 58.4
46 TraesCS7D01G441900 chrUn 95.167 269 9 4 1 267 66725723 66725457 2.780000e-114 422.0
47 TraesCS7D01G441900 chrUn 95.167 269 9 4 1 267 66727842 66727576 2.780000e-114 422.0
48 TraesCS7D01G441900 chrUn 100.000 45 0 0 517 561 223704128 223704084 1.490000e-12 84.2
49 TraesCS7D01G441900 chrUn 100.000 41 0 0 375 415 393080991 393081031 2.490000e-10 76.8
50 TraesCS7D01G441900 chr3B 93.907 279 12 5 1 279 532211623 532211350 1.290000e-112 416.0
51 TraesCS7D01G441900 chr3B 93.056 144 8 2 563 704 532211231 532211088 2.360000e-50 209.0
52 TraesCS7D01G441900 chr3B 97.143 35 1 0 279 313 532211284 532211250 2.510000e-05 60.2
53 TraesCS7D01G441900 chr5A 90.541 222 17 4 787 1005 513371118 513370898 8.180000e-75 291.0
54 TraesCS7D01G441900 chr2D 94.268 157 8 1 563 719 278370526 278370681 3.000000e-59 239.0
55 TraesCS7D01G441900 chr2D 94.194 155 9 0 563 717 551422138 551421984 1.080000e-58 237.0
56 TraesCS7D01G441900 chr2A 94.118 102 6 0 415 516 53949799 53949900 3.110000e-34 156.0
57 TraesCS7D01G441900 chr2A 88.136 59 6 1 276 333 452783103 452783045 4.170000e-08 69.4
58 TraesCS7D01G441900 chr6D 94.118 102 5 1 415 516 405015437 405015337 1.120000e-33 154.0
59 TraesCS7D01G441900 chr6D 100.000 45 0 0 517 561 430484560 430484604 1.490000e-12 84.2
60 TraesCS7D01G441900 chr3D 79.085 153 23 6 1891 2035 566485406 566485557 1.910000e-16 97.1
61 TraesCS7D01G441900 chr3D 100.000 41 0 0 375 415 154713945 154713905 2.490000e-10 76.8
62 TraesCS7D01G441900 chr1D 100.000 45 0 0 517 561 141341735 141341691 1.490000e-12 84.2
63 TraesCS7D01G441900 chr1D 100.000 41 0 0 375 415 141335771 141335811 2.490000e-10 76.8
64 TraesCS7D01G441900 chr1D 100.000 41 0 0 375 415 185753946 185753906 2.490000e-10 76.8
65 TraesCS7D01G441900 chr1A 100.000 45 0 0 517 561 278503633 278503677 1.490000e-12 84.2
66 TraesCS7D01G441900 chr7B 100.000 41 0 0 375 415 584637762 584637802 2.490000e-10 76.8


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G441900 chr7D 561194177 561196515 2338 False 4320.000000 4320 100.000000 1 2339 1 chr7D.!!$F1 2338
1 TraesCS7D01G441900 chr5D 489099428 489101058 1630 True 2610.000000 2610 95.775000 731 2339 1 chr5D.!!$R1 1608
2 TraesCS7D01G441900 chr7A 658135314 658137703 2389 True 1323.500000 2198 94.470500 731 2339 2 chr7A.!!$R1 1608
3 TraesCS7D01G441900 chr7A 60439379 60440077 698 False 880.000000 880 89.504000 1062 1759 1 chr7A.!!$F1 697
4 TraesCS7D01G441900 chr7A 576957614 576959967 2353 False 869.000000 1179 95.579333 731 2339 3 chr7A.!!$F2 1608
5 TraesCS7D01G441900 chr3A 54458600 54459498 898 True 1459.000000 1459 96.000000 731 1627 1 chr3A.!!$R2 896
6 TraesCS7D01G441900 chr3A 355263673 355265243 1570 True 1236.500000 1797 94.635500 731 2339 2 chr3A.!!$R4 1608
7 TraesCS7D01G441900 chr3A 297588855 297589556 701 True 880.000000 880 89.407000 1062 1762 1 chr3A.!!$R3 700
8 TraesCS7D01G441900 chr4B 272038961 272040572 1611 False 1087.000000 1760 93.003500 731 2301 2 chr4B.!!$F1 1570
9 TraesCS7D01G441900 chr6A 516896256 516896958 702 True 887.000000 887 89.563000 1062 1762 1 chr6A.!!$R1 700
10 TraesCS7D01G441900 chr6A 555000734 555001435 701 True 885.000000 885 89.548000 1062 1762 1 chr6A.!!$R2 700
11 TraesCS7D01G441900 chr5B 511017412 511017966 554 False 330.500000 435 93.824500 1 718 2 chr5B.!!$F2 717
12 TraesCS7D01G441900 chr4D 162091763 162092311 548 True 341.500000 435 95.256500 1 718 2 chr4D.!!$R4 717
13 TraesCS7D01G441900 chr4D 47657423 47657973 550 True 323.500000 427 93.331500 1 719 2 chr4D.!!$R3 718
14 TraesCS7D01G441900 chr2B 114655853 114656399 546 False 327.000000 435 93.252500 1 719 2 chr2B.!!$F1 718
15 TraesCS7D01G441900 chr4A 741965208 741965760 552 False 241.466667 425 95.239000 1 719 3 chr4A.!!$F1 718
16 TraesCS7D01G441900 chrUn 66725457 66727842 2385 True 422.000000 422 95.167000 1 267 2 chrUn.!!$R2 266
17 TraesCS7D01G441900 chr3B 532211088 532211623 535 True 228.400000 416 94.702000 1 704 3 chr3B.!!$R1 703

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
353 1768 0.102481 GAGGCCGAAGCTACGATCAA 59.898 55.0 0.0 0.0 39.73 2.57 F
354 1769 0.103208 AGGCCGAAGCTACGATCAAG 59.897 55.0 0.0 0.0 39.73 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1172 2660 2.305635 TGCTCCTTCATGCTAAGTGGAA 59.694 45.455 0.0 0.0 0.00 3.53 R
1462 2961 3.072476 AGGCAGAACCACTAAAAGCACTA 59.928 43.478 0.0 0.0 43.14 2.74 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
315 1730 3.660111 GTCGGGTGCTTGTGTGGC 61.660 66.667 0.00 0.00 0.00 5.01
334 1749 2.319844 GCTTTTGATAATGGGAGGGGG 58.680 52.381 0.00 0.00 0.00 5.40
335 1750 2.091333 GCTTTTGATAATGGGAGGGGGA 60.091 50.000 0.00 0.00 0.00 4.81
336 1751 3.837355 CTTTTGATAATGGGAGGGGGAG 58.163 50.000 0.00 0.00 0.00 4.30
337 1752 1.833187 TTGATAATGGGAGGGGGAGG 58.167 55.000 0.00 0.00 0.00 4.30
338 1753 0.772124 TGATAATGGGAGGGGGAGGC 60.772 60.000 0.00 0.00 0.00 4.70
339 1754 1.466186 ATAATGGGAGGGGGAGGCC 60.466 63.158 0.00 0.00 0.00 5.19
346 1761 4.089757 AGGGGGAGGCCGAAGCTA 62.090 66.667 0.00 0.00 39.73 3.32
347 1762 3.862991 GGGGGAGGCCGAAGCTAC 61.863 72.222 0.00 0.00 39.73 3.58
348 1763 4.222847 GGGGAGGCCGAAGCTACG 62.223 72.222 0.00 0.00 39.73 3.51
349 1764 3.145551 GGGAGGCCGAAGCTACGA 61.146 66.667 0.00 0.00 39.73 3.43
350 1765 2.499827 GGGAGGCCGAAGCTACGAT 61.500 63.158 0.00 0.00 39.73 3.73
351 1766 1.007154 GGAGGCCGAAGCTACGATC 60.007 63.158 0.00 0.00 39.73 3.69
352 1767 1.734137 GAGGCCGAAGCTACGATCA 59.266 57.895 0.00 0.00 39.73 2.92
353 1768 0.102481 GAGGCCGAAGCTACGATCAA 59.898 55.000 0.00 0.00 39.73 2.57
354 1769 0.103208 AGGCCGAAGCTACGATCAAG 59.897 55.000 0.00 0.00 39.73 3.02
355 1770 1.491505 GGCCGAAGCTACGATCAAGC 61.492 60.000 8.65 8.65 39.73 4.01
362 1777 2.880963 GCTACGATCAAGCTCCTCTT 57.119 50.000 9.30 0.00 37.01 2.85
363 1778 3.172229 GCTACGATCAAGCTCCTCTTT 57.828 47.619 9.30 0.00 37.01 2.52
364 1779 3.120041 GCTACGATCAAGCTCCTCTTTC 58.880 50.000 9.30 0.00 37.01 2.62
365 1780 3.181480 GCTACGATCAAGCTCCTCTTTCT 60.181 47.826 9.30 0.00 37.01 2.52
366 1781 4.036971 GCTACGATCAAGCTCCTCTTTCTA 59.963 45.833 9.30 0.00 37.01 2.10
367 1782 5.450688 GCTACGATCAAGCTCCTCTTTCTAA 60.451 44.000 9.30 0.00 37.01 2.10
368 1783 4.749976 ACGATCAAGCTCCTCTTTCTAAC 58.250 43.478 0.00 0.00 31.27 2.34
369 1784 4.220821 ACGATCAAGCTCCTCTTTCTAACA 59.779 41.667 0.00 0.00 31.27 2.41
370 1785 5.171476 CGATCAAGCTCCTCTTTCTAACAA 58.829 41.667 0.00 0.00 31.27 2.83
371 1786 5.814705 CGATCAAGCTCCTCTTTCTAACAAT 59.185 40.000 0.00 0.00 31.27 2.71
372 1787 6.238049 CGATCAAGCTCCTCTTTCTAACAATG 60.238 42.308 0.00 0.00 31.27 2.82
373 1788 6.114187 TCAAGCTCCTCTTTCTAACAATGA 57.886 37.500 0.00 0.00 31.27 2.57
374 1789 5.934625 TCAAGCTCCTCTTTCTAACAATGAC 59.065 40.000 0.00 0.00 31.27 3.06
375 1790 5.753721 AGCTCCTCTTTCTAACAATGACT 57.246 39.130 0.00 0.00 0.00 3.41
376 1791 6.120507 AGCTCCTCTTTCTAACAATGACTT 57.879 37.500 0.00 0.00 0.00 3.01
377 1792 7.246171 AGCTCCTCTTTCTAACAATGACTTA 57.754 36.000 0.00 0.00 0.00 2.24
378 1793 7.100409 AGCTCCTCTTTCTAACAATGACTTAC 58.900 38.462 0.00 0.00 0.00 2.34
379 1794 6.874134 GCTCCTCTTTCTAACAATGACTTACA 59.126 38.462 0.00 0.00 0.00 2.41
380 1795 7.064016 GCTCCTCTTTCTAACAATGACTTACAG 59.936 40.741 0.00 0.00 0.00 2.74
381 1796 6.874134 TCCTCTTTCTAACAATGACTTACAGC 59.126 38.462 0.00 0.00 0.00 4.40
382 1797 6.876257 CCTCTTTCTAACAATGACTTACAGCT 59.124 38.462 0.00 0.00 0.00 4.24
383 1798 7.389053 CCTCTTTCTAACAATGACTTACAGCTT 59.611 37.037 0.00 0.00 0.00 3.74
384 1799 8.087982 TCTTTCTAACAATGACTTACAGCTTG 57.912 34.615 0.00 0.00 0.00 4.01
385 1800 5.862924 TCTAACAATGACTTACAGCTTGC 57.137 39.130 0.00 0.00 0.00 4.01
386 1801 5.304778 TCTAACAATGACTTACAGCTTGCA 58.695 37.500 0.00 0.00 0.00 4.08
387 1802 5.939883 TCTAACAATGACTTACAGCTTGCAT 59.060 36.000 0.00 0.00 0.00 3.96
388 1803 5.458041 AACAATGACTTACAGCTTGCATT 57.542 34.783 0.00 0.00 0.00 3.56
389 1804 5.051891 ACAATGACTTACAGCTTGCATTC 57.948 39.130 0.00 0.00 0.00 2.67
390 1805 4.093514 CAATGACTTACAGCTTGCATTCG 58.906 43.478 0.00 0.00 0.00 3.34
391 1806 3.038788 TGACTTACAGCTTGCATTCGA 57.961 42.857 0.00 0.00 0.00 3.71
392 1807 3.599343 TGACTTACAGCTTGCATTCGAT 58.401 40.909 0.00 0.00 0.00 3.59
393 1808 3.371898 TGACTTACAGCTTGCATTCGATG 59.628 43.478 0.00 0.00 0.00 3.84
403 1818 2.694065 CATTCGATGCATCCACCGT 58.306 52.632 20.87 0.29 0.00 4.83
404 1819 1.864565 CATTCGATGCATCCACCGTA 58.135 50.000 20.87 4.26 0.00 4.02
405 1820 1.526887 CATTCGATGCATCCACCGTAC 59.473 52.381 20.87 0.00 0.00 3.67
406 1821 0.821517 TTCGATGCATCCACCGTACT 59.178 50.000 20.87 0.00 0.00 2.73
407 1822 1.682740 TCGATGCATCCACCGTACTA 58.317 50.000 20.87 0.00 0.00 1.82
408 1823 2.025898 TCGATGCATCCACCGTACTAA 58.974 47.619 20.87 0.00 0.00 2.24
409 1824 2.034179 TCGATGCATCCACCGTACTAAG 59.966 50.000 20.87 2.48 0.00 2.18
410 1825 2.034179 CGATGCATCCACCGTACTAAGA 59.966 50.000 20.87 0.00 0.00 2.10
411 1826 3.643763 GATGCATCCACCGTACTAAGAG 58.356 50.000 16.23 0.00 0.00 2.85
412 1827 1.136305 TGCATCCACCGTACTAAGAGC 59.864 52.381 0.00 0.00 0.00 4.09
413 1828 1.409427 GCATCCACCGTACTAAGAGCT 59.591 52.381 0.00 0.00 0.00 4.09
414 1829 2.544069 GCATCCACCGTACTAAGAGCTC 60.544 54.545 5.27 5.27 0.00 4.09
415 1830 2.803030 TCCACCGTACTAAGAGCTCT 57.197 50.000 11.45 11.45 0.00 4.09
416 1831 3.083122 TCCACCGTACTAAGAGCTCTT 57.917 47.619 30.63 30.63 39.85 2.85
417 1832 2.753452 TCCACCGTACTAAGAGCTCTTG 59.247 50.000 34.26 25.48 37.40 3.02
418 1833 2.531206 CACCGTACTAAGAGCTCTTGC 58.469 52.381 34.26 20.81 37.40 4.01
419 1834 2.094700 CACCGTACTAAGAGCTCTTGCA 60.095 50.000 34.26 17.68 42.74 4.08
420 1835 2.761208 ACCGTACTAAGAGCTCTTGCAT 59.239 45.455 34.26 22.23 42.74 3.96
421 1836 3.195825 ACCGTACTAAGAGCTCTTGCATT 59.804 43.478 34.26 19.12 42.74 3.56
422 1837 3.553511 CCGTACTAAGAGCTCTTGCATTG 59.446 47.826 34.26 21.40 42.74 2.82
423 1838 3.553511 CGTACTAAGAGCTCTTGCATTGG 59.446 47.826 34.26 15.64 42.74 3.16
424 1839 3.710209 ACTAAGAGCTCTTGCATTGGT 57.290 42.857 34.26 16.29 42.74 3.67
425 1840 3.341823 ACTAAGAGCTCTTGCATTGGTG 58.658 45.455 34.26 17.00 42.74 4.17
426 1841 2.574006 AAGAGCTCTTGCATTGGTGA 57.426 45.000 27.96 0.00 42.74 4.02
427 1842 1.818642 AGAGCTCTTGCATTGGTGAC 58.181 50.000 11.45 0.00 42.74 3.67
428 1843 0.807496 GAGCTCTTGCATTGGTGACC 59.193 55.000 6.43 0.00 42.74 4.02
429 1844 0.403271 AGCTCTTGCATTGGTGACCT 59.597 50.000 2.11 0.00 42.74 3.85
430 1845 0.524862 GCTCTTGCATTGGTGACCTG 59.475 55.000 2.11 0.00 39.41 4.00
431 1846 1.171308 CTCTTGCATTGGTGACCTGG 58.829 55.000 2.11 0.00 0.00 4.45
432 1847 0.895100 TCTTGCATTGGTGACCTGGC 60.895 55.000 2.11 4.44 0.00 4.85
433 1848 1.880819 CTTGCATTGGTGACCTGGCC 61.881 60.000 2.11 0.00 0.00 5.36
434 1849 2.283101 GCATTGGTGACCTGGCCA 60.283 61.111 4.71 4.71 0.00 5.36
435 1850 2.345760 GCATTGGTGACCTGGCCAG 61.346 63.158 26.87 26.87 36.00 4.85
436 1851 1.379916 CATTGGTGACCTGGCCAGA 59.620 57.895 34.91 11.99 36.00 3.86
437 1852 0.251297 CATTGGTGACCTGGCCAGAA 60.251 55.000 34.91 19.16 36.00 3.02
438 1853 0.251341 ATTGGTGACCTGGCCAGAAC 60.251 55.000 34.91 25.73 36.00 3.01
439 1854 1.640593 TTGGTGACCTGGCCAGAACA 61.641 55.000 34.91 27.22 36.00 3.18
440 1855 1.600916 GGTGACCTGGCCAGAACAC 60.601 63.158 33.74 33.74 35.39 3.32
441 1856 1.600916 GTGACCTGGCCAGAACACC 60.601 63.158 34.91 20.18 32.58 4.16
442 1857 1.770110 TGACCTGGCCAGAACACCT 60.770 57.895 34.91 8.46 0.00 4.00
443 1858 0.472925 TGACCTGGCCAGAACACCTA 60.473 55.000 34.91 9.79 0.00 3.08
444 1859 0.912486 GACCTGGCCAGAACACCTAT 59.088 55.000 34.91 8.28 0.00 2.57
445 1860 1.282157 GACCTGGCCAGAACACCTATT 59.718 52.381 34.91 5.95 0.00 1.73
446 1861 1.282157 ACCTGGCCAGAACACCTATTC 59.718 52.381 34.91 0.00 0.00 1.75
447 1862 1.408822 CCTGGCCAGAACACCTATTCC 60.409 57.143 34.91 0.00 0.00 3.01
448 1863 1.281867 CTGGCCAGAACACCTATTCCA 59.718 52.381 29.88 0.00 0.00 3.53
449 1864 1.281867 TGGCCAGAACACCTATTCCAG 59.718 52.381 0.00 0.00 0.00 3.86
450 1865 1.383523 GCCAGAACACCTATTCCAGC 58.616 55.000 0.00 0.00 0.00 4.85
451 1866 1.340017 GCCAGAACACCTATTCCAGCA 60.340 52.381 0.00 0.00 30.94 4.41
452 1867 2.879756 GCCAGAACACCTATTCCAGCAA 60.880 50.000 0.00 0.00 30.94 3.91
453 1868 2.749621 CCAGAACACCTATTCCAGCAAC 59.250 50.000 0.00 0.00 0.00 4.17
454 1869 3.560025 CCAGAACACCTATTCCAGCAACT 60.560 47.826 0.00 0.00 0.00 3.16
455 1870 3.438087 CAGAACACCTATTCCAGCAACTG 59.562 47.826 0.00 0.00 0.00 3.16
467 1882 4.164822 CCAGCAACTGGTTCTAATTGTG 57.835 45.455 5.43 0.00 45.82 3.33
468 1883 3.568538 CAGCAACTGGTTCTAATTGTGC 58.431 45.455 0.00 0.00 0.00 4.57
469 1884 2.558359 AGCAACTGGTTCTAATTGTGCC 59.442 45.455 0.00 0.00 0.00 5.01
470 1885 2.558359 GCAACTGGTTCTAATTGTGCCT 59.442 45.455 0.00 0.00 0.00 4.75
471 1886 3.612479 GCAACTGGTTCTAATTGTGCCTG 60.612 47.826 0.00 0.00 0.00 4.85
472 1887 3.788227 ACTGGTTCTAATTGTGCCTGA 57.212 42.857 0.00 0.00 0.00 3.86
473 1888 4.098914 ACTGGTTCTAATTGTGCCTGAA 57.901 40.909 0.00 0.00 0.00 3.02
474 1889 4.666512 ACTGGTTCTAATTGTGCCTGAAT 58.333 39.130 0.00 0.00 0.00 2.57
475 1890 5.079643 ACTGGTTCTAATTGTGCCTGAATT 58.920 37.500 0.00 0.00 0.00 2.17
476 1891 5.539955 ACTGGTTCTAATTGTGCCTGAATTT 59.460 36.000 0.00 0.00 0.00 1.82
477 1892 6.719370 ACTGGTTCTAATTGTGCCTGAATTTA 59.281 34.615 0.00 0.00 0.00 1.40
478 1893 7.232534 ACTGGTTCTAATTGTGCCTGAATTTAA 59.767 33.333 0.00 0.00 0.00 1.52
479 1894 7.601856 TGGTTCTAATTGTGCCTGAATTTAAG 58.398 34.615 0.00 0.00 0.00 1.85
480 1895 7.035612 GGTTCTAATTGTGCCTGAATTTAAGG 58.964 38.462 0.00 0.00 37.91 2.69
481 1896 7.093945 GGTTCTAATTGTGCCTGAATTTAAGGA 60.094 37.037 3.73 0.00 36.91 3.36
482 1897 7.630242 TCTAATTGTGCCTGAATTTAAGGAG 57.370 36.000 3.73 0.00 36.91 3.69
483 1898 4.725790 ATTGTGCCTGAATTTAAGGAGC 57.274 40.909 3.73 0.00 36.91 4.70
484 1899 2.446435 TGTGCCTGAATTTAAGGAGCC 58.554 47.619 3.73 0.00 36.91 4.70
485 1900 2.041620 TGTGCCTGAATTTAAGGAGCCT 59.958 45.455 3.73 0.00 36.91 4.58
486 1901 2.424956 GTGCCTGAATTTAAGGAGCCTG 59.575 50.000 3.73 0.00 36.91 4.85
487 1902 2.308570 TGCCTGAATTTAAGGAGCCTGA 59.691 45.455 3.73 0.00 36.91 3.86
488 1903 3.053395 TGCCTGAATTTAAGGAGCCTGAT 60.053 43.478 3.73 0.00 36.91 2.90
489 1904 3.567585 GCCTGAATTTAAGGAGCCTGATC 59.432 47.826 3.73 0.00 36.91 2.92
490 1905 4.140536 CCTGAATTTAAGGAGCCTGATCC 58.859 47.826 0.00 0.00 36.91 3.36
491 1906 4.385643 CCTGAATTTAAGGAGCCTGATCCA 60.386 45.833 4.01 0.00 42.26 3.41
492 1907 4.785301 TGAATTTAAGGAGCCTGATCCAG 58.215 43.478 4.01 0.00 42.26 3.86
493 1908 4.228210 TGAATTTAAGGAGCCTGATCCAGT 59.772 41.667 4.01 0.00 42.26 4.00
494 1909 3.634397 TTTAAGGAGCCTGATCCAGTG 57.366 47.619 4.01 0.00 42.26 3.66
495 1910 1.500474 TAAGGAGCCTGATCCAGTGG 58.500 55.000 1.40 1.40 42.26 4.00
496 1911 1.919600 AAGGAGCCTGATCCAGTGGC 61.920 60.000 3.51 7.71 46.42 5.01
499 1914 4.783621 GCCTGATCCAGTGGCGCA 62.784 66.667 10.83 3.87 37.11 6.09
500 1915 2.821366 CCTGATCCAGTGGCGCAC 60.821 66.667 10.83 5.73 34.10 5.34
501 1916 2.046988 CTGATCCAGTGGCGCACA 60.047 61.111 10.83 1.22 36.74 4.57
509 1924 3.047280 GTGGCGCACACCGATTGA 61.047 61.111 10.83 0.00 44.49 2.57
510 1925 2.281139 TGGCGCACACCGATTGAA 60.281 55.556 10.83 0.00 40.02 2.69
511 1926 2.324330 TGGCGCACACCGATTGAAG 61.324 57.895 10.83 0.00 40.02 3.02
512 1927 2.480555 GCGCACACCGATTGAAGG 59.519 61.111 0.30 0.00 40.02 3.46
513 1928 2.032634 GCGCACACCGATTGAAGGA 61.033 57.895 0.30 0.00 40.02 3.36
514 1929 1.573829 GCGCACACCGATTGAAGGAA 61.574 55.000 0.30 0.00 40.02 3.36
515 1930 0.871722 CGCACACCGATTGAAGGAAA 59.128 50.000 0.00 0.00 40.02 3.13
516 1931 1.468520 CGCACACCGATTGAAGGAAAT 59.531 47.619 0.00 0.00 40.02 2.17
517 1932 2.728846 CGCACACCGATTGAAGGAAATG 60.729 50.000 0.00 0.00 40.02 2.32
518 1933 2.415893 GCACACCGATTGAAGGAAATGG 60.416 50.000 0.00 0.00 0.00 3.16
519 1934 2.164219 CACACCGATTGAAGGAAATGGG 59.836 50.000 0.00 0.00 40.28 4.00
520 1935 2.225017 ACACCGATTGAAGGAAATGGGT 60.225 45.455 0.00 0.00 46.10 4.51
521 1936 2.423538 CACCGATTGAAGGAAATGGGTC 59.576 50.000 1.18 0.00 44.14 4.46
522 1937 2.024414 CCGATTGAAGGAAATGGGTCC 58.976 52.381 0.00 0.00 38.03 4.46
523 1938 2.024414 CGATTGAAGGAAATGGGTCCC 58.976 52.381 0.00 0.00 38.59 4.46
524 1939 2.024414 GATTGAAGGAAATGGGTCCCG 58.976 52.381 2.65 0.00 38.59 5.14
525 1940 1.068948 TTGAAGGAAATGGGTCCCGA 58.931 50.000 2.65 0.00 38.59 5.14
526 1941 1.068948 TGAAGGAAATGGGTCCCGAA 58.931 50.000 2.65 0.00 38.59 4.30
527 1942 1.271707 TGAAGGAAATGGGTCCCGAAC 60.272 52.381 2.65 0.00 38.59 3.95
528 1943 1.004394 GAAGGAAATGGGTCCCGAACT 59.996 52.381 2.65 0.00 38.59 3.01
529 1944 0.618981 AGGAAATGGGTCCCGAACTC 59.381 55.000 2.65 0.00 38.59 3.01
530 1945 0.393944 GGAAATGGGTCCCGAACTCC 60.394 60.000 2.65 2.95 0.00 3.85
531 1946 0.326927 GAAATGGGTCCCGAACTCCA 59.673 55.000 2.65 0.00 34.15 3.86
532 1947 0.999712 AAATGGGTCCCGAACTCCAT 59.000 50.000 2.65 0.00 39.32 3.41
533 1948 1.887797 AATGGGTCCCGAACTCCATA 58.112 50.000 2.65 0.00 37.72 2.74
534 1949 2.118403 ATGGGTCCCGAACTCCATAT 57.882 50.000 2.65 0.00 37.24 1.78
535 1950 1.128200 TGGGTCCCGAACTCCATATG 58.872 55.000 2.65 0.00 0.00 1.78
536 1951 0.396811 GGGTCCCGAACTCCATATGG 59.603 60.000 16.25 16.25 0.00 2.74
537 1952 0.396811 GGTCCCGAACTCCATATGGG 59.603 60.000 21.78 14.30 41.43 4.00
538 1953 0.396811 GTCCCGAACTCCATATGGGG 59.603 60.000 20.77 20.77 42.91 4.96
539 1954 0.266453 TCCCGAACTCCATATGGGGA 59.734 55.000 28.98 18.56 40.81 4.81
540 1955 1.136828 CCCGAACTCCATATGGGGAA 58.863 55.000 28.98 4.95 38.16 3.97
541 1956 1.072331 CCCGAACTCCATATGGGGAAG 59.928 57.143 28.98 17.14 38.16 3.46
542 1957 1.072331 CCGAACTCCATATGGGGAAGG 59.928 57.143 28.98 21.46 38.16 3.46
543 1958 2.047061 CGAACTCCATATGGGGAAGGA 58.953 52.381 28.98 3.35 38.16 3.36
544 1959 2.438021 CGAACTCCATATGGGGAAGGAA 59.562 50.000 28.98 2.56 38.16 3.36
545 1960 3.744530 CGAACTCCATATGGGGAAGGAAC 60.745 52.174 28.98 10.62 38.16 3.62
546 1961 1.768870 ACTCCATATGGGGAAGGAACG 59.231 52.381 28.98 5.26 38.16 3.95
547 1962 1.768870 CTCCATATGGGGAAGGAACGT 59.231 52.381 17.53 0.00 38.16 3.99
548 1963 2.172717 CTCCATATGGGGAAGGAACGTT 59.827 50.000 17.53 0.00 38.16 3.99
549 1964 2.092646 TCCATATGGGGAAGGAACGTTG 60.093 50.000 21.78 0.00 37.22 4.10
550 1965 2.356741 CCATATGGGGAAGGAACGTTGT 60.357 50.000 14.52 0.00 0.00 3.32
551 1966 3.352648 CATATGGGGAAGGAACGTTGTT 58.647 45.455 5.00 0.00 0.00 2.83
552 1967 1.616159 ATGGGGAAGGAACGTTGTTG 58.384 50.000 5.00 0.00 0.00 3.33
553 1968 0.256464 TGGGGAAGGAACGTTGTTGT 59.744 50.000 5.00 0.00 0.00 3.32
554 1969 1.341187 TGGGGAAGGAACGTTGTTGTT 60.341 47.619 5.00 0.00 34.02 2.83
555 1970 1.752498 GGGGAAGGAACGTTGTTGTTT 59.248 47.619 5.00 0.00 30.75 2.83
556 1971 2.480587 GGGGAAGGAACGTTGTTGTTTG 60.481 50.000 5.00 0.00 30.75 2.93
557 1972 2.190161 GGAAGGAACGTTGTTGTTTGC 58.810 47.619 5.00 0.00 30.75 3.68
558 1973 1.843753 GAAGGAACGTTGTTGTTTGCG 59.156 47.619 5.00 0.00 30.75 4.85
559 1974 1.088306 AGGAACGTTGTTGTTTGCGA 58.912 45.000 5.00 0.00 30.75 5.10
560 1975 1.063469 AGGAACGTTGTTGTTTGCGAG 59.937 47.619 5.00 0.00 30.75 5.03
561 1976 1.062880 GGAACGTTGTTGTTTGCGAGA 59.937 47.619 5.00 0.00 30.75 4.04
587 2002 1.464608 CTGTACATGAACGCAACCAGG 59.535 52.381 0.00 0.00 0.00 4.45
665 2081 1.906574 TCTTGCCAACTTCGAGGGTAT 59.093 47.619 0.00 0.00 0.00 2.73
1134 2621 4.837860 TGTTGCTCCAATTTATCAACCCTT 59.162 37.500 0.00 0.00 36.97 3.95
1399 2894 4.022589 GCATCCAAATGGTGATGTATCCAG 60.023 45.833 0.00 0.00 40.37 3.86
1673 3172 2.428890 AGGAGCAAGAACTACAGGATCG 59.571 50.000 0.00 0.00 0.00 3.69
1677 3176 2.599082 GCAAGAACTACAGGATCGAACG 59.401 50.000 0.00 0.00 0.00 3.95
2095 4377 9.295214 CATTCAGTACAGTTACATAAGACTCAG 57.705 37.037 0.00 0.00 0.00 3.35
2204 4486 5.596845 TGCTTTTTGTATCTGTTTTGTCCC 58.403 37.500 0.00 0.00 0.00 4.46
2257 4539 9.545611 GTACGTTTCGACCAAATAATATTTTGT 57.454 29.630 0.00 2.59 35.30 2.83
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
272 282 1.372683 GGCACAACTCTCCAGCTCA 59.627 57.895 0.00 0.00 0.00 4.26
273 283 1.376553 GGGCACAACTCTCCAGCTC 60.377 63.158 0.00 0.00 0.00 4.09
274 284 0.545309 TAGGGCACAACTCTCCAGCT 60.545 55.000 0.00 0.00 0.00 4.24
275 285 0.107945 CTAGGGCACAACTCTCCAGC 60.108 60.000 0.00 0.00 0.00 4.85
276 286 0.107945 GCTAGGGCACAACTCTCCAG 60.108 60.000 0.00 0.00 38.54 3.86
315 1730 3.437052 CCTCCCCCTCCCATTATCAAAAG 60.437 52.174 0.00 0.00 0.00 2.27
334 1749 0.102481 TTGATCGTAGCTTCGGCCTC 59.898 55.000 13.03 8.12 43.01 4.70
335 1750 0.103208 CTTGATCGTAGCTTCGGCCT 59.897 55.000 13.03 0.00 43.01 5.19
336 1751 1.491505 GCTTGATCGTAGCTTCGGCC 61.492 60.000 13.03 5.73 43.01 6.13
337 1752 0.528684 AGCTTGATCGTAGCTTCGGC 60.529 55.000 13.03 7.77 46.42 5.54
338 1753 3.650409 AGCTTGATCGTAGCTTCGG 57.350 52.632 13.03 0.00 46.42 4.30
343 1758 2.880963 AAGAGGAGCTTGATCGTAGC 57.119 50.000 10.73 10.73 38.93 3.58
344 1759 4.647424 AGAAAGAGGAGCTTGATCGTAG 57.353 45.455 0.00 0.00 36.80 3.51
345 1760 5.417894 TGTTAGAAAGAGGAGCTTGATCGTA 59.582 40.000 0.00 0.00 36.80 3.43
346 1761 4.220821 TGTTAGAAAGAGGAGCTTGATCGT 59.779 41.667 0.00 0.00 36.80 3.73
347 1762 4.748892 TGTTAGAAAGAGGAGCTTGATCG 58.251 43.478 0.00 0.00 36.80 3.69
348 1763 6.820656 TCATTGTTAGAAAGAGGAGCTTGATC 59.179 38.462 0.00 0.00 36.80 2.92
349 1764 6.597280 GTCATTGTTAGAAAGAGGAGCTTGAT 59.403 38.462 0.00 0.00 36.80 2.57
350 1765 5.934625 GTCATTGTTAGAAAGAGGAGCTTGA 59.065 40.000 0.00 0.00 36.80 3.02
351 1766 5.936956 AGTCATTGTTAGAAAGAGGAGCTTG 59.063 40.000 0.00 0.00 36.80 4.01
352 1767 6.120507 AGTCATTGTTAGAAAGAGGAGCTT 57.879 37.500 0.00 0.00 38.88 3.74
353 1768 5.753721 AGTCATTGTTAGAAAGAGGAGCT 57.246 39.130 0.00 0.00 0.00 4.09
354 1769 6.874134 TGTAAGTCATTGTTAGAAAGAGGAGC 59.126 38.462 0.00 0.00 0.00 4.70
355 1770 7.064016 GCTGTAAGTCATTGTTAGAAAGAGGAG 59.936 40.741 0.00 0.00 35.30 3.69
356 1771 6.874134 GCTGTAAGTCATTGTTAGAAAGAGGA 59.126 38.462 0.00 0.00 35.30 3.71
357 1772 6.876257 AGCTGTAAGTCATTGTTAGAAAGAGG 59.124 38.462 0.00 0.00 35.30 3.69
358 1773 7.897575 AGCTGTAAGTCATTGTTAGAAAGAG 57.102 36.000 0.00 0.00 35.30 2.85
359 1774 7.307989 GCAAGCTGTAAGTCATTGTTAGAAAGA 60.308 37.037 0.00 0.00 35.30 2.52
360 1775 6.798959 GCAAGCTGTAAGTCATTGTTAGAAAG 59.201 38.462 0.00 0.00 35.30 2.62
361 1776 6.262049 TGCAAGCTGTAAGTCATTGTTAGAAA 59.738 34.615 0.00 0.00 35.30 2.52
362 1777 5.762711 TGCAAGCTGTAAGTCATTGTTAGAA 59.237 36.000 0.00 0.00 35.30 2.10
363 1778 5.304778 TGCAAGCTGTAAGTCATTGTTAGA 58.695 37.500 0.00 0.00 35.30 2.10
364 1779 5.611796 TGCAAGCTGTAAGTCATTGTTAG 57.388 39.130 0.00 0.00 35.30 2.34
365 1780 6.573664 AATGCAAGCTGTAAGTCATTGTTA 57.426 33.333 0.00 0.00 35.30 2.41
366 1781 5.458041 AATGCAAGCTGTAAGTCATTGTT 57.542 34.783 0.00 0.00 35.30 2.83
367 1782 4.378770 CGAATGCAAGCTGTAAGTCATTGT 60.379 41.667 0.00 0.00 35.30 2.71
368 1783 4.093514 CGAATGCAAGCTGTAAGTCATTG 58.906 43.478 0.00 0.00 35.30 2.82
369 1784 4.002982 TCGAATGCAAGCTGTAAGTCATT 58.997 39.130 0.00 0.00 35.30 2.57
370 1785 3.599343 TCGAATGCAAGCTGTAAGTCAT 58.401 40.909 0.00 0.00 35.30 3.06
371 1786 3.038788 TCGAATGCAAGCTGTAAGTCA 57.961 42.857 0.00 0.00 35.30 3.41
372 1787 3.933031 CATCGAATGCAAGCTGTAAGTC 58.067 45.455 0.00 0.00 35.30 3.01
385 1800 1.526887 GTACGGTGGATGCATCGAATG 59.473 52.381 27.39 13.95 32.29 2.67
386 1801 1.412710 AGTACGGTGGATGCATCGAAT 59.587 47.619 27.39 7.60 32.29 3.34
387 1802 0.821517 AGTACGGTGGATGCATCGAA 59.178 50.000 27.39 8.55 32.29 3.71
388 1803 1.682740 TAGTACGGTGGATGCATCGA 58.317 50.000 27.39 14.21 32.29 3.59
389 1804 2.034179 TCTTAGTACGGTGGATGCATCG 59.966 50.000 19.05 19.05 34.41 3.84
390 1805 3.643763 CTCTTAGTACGGTGGATGCATC 58.356 50.000 18.81 18.81 0.00 3.91
391 1806 2.224066 GCTCTTAGTACGGTGGATGCAT 60.224 50.000 0.00 0.00 0.00 3.96
392 1807 1.136305 GCTCTTAGTACGGTGGATGCA 59.864 52.381 0.00 0.00 0.00 3.96
393 1808 1.409427 AGCTCTTAGTACGGTGGATGC 59.591 52.381 0.00 0.00 0.00 3.91
394 1809 2.952978 AGAGCTCTTAGTACGGTGGATG 59.047 50.000 11.45 0.00 0.00 3.51
395 1810 3.300239 AGAGCTCTTAGTACGGTGGAT 57.700 47.619 11.45 0.00 0.00 3.41
396 1811 2.753452 CAAGAGCTCTTAGTACGGTGGA 59.247 50.000 28.02 0.00 34.28 4.02
397 1812 2.735762 GCAAGAGCTCTTAGTACGGTGG 60.736 54.545 28.02 13.61 37.91 4.61
398 1813 2.094700 TGCAAGAGCTCTTAGTACGGTG 60.095 50.000 28.02 15.23 42.74 4.94
399 1814 2.168496 TGCAAGAGCTCTTAGTACGGT 58.832 47.619 28.02 1.04 42.74 4.83
400 1815 2.941453 TGCAAGAGCTCTTAGTACGG 57.059 50.000 28.02 15.71 42.74 4.02
401 1816 3.553511 CCAATGCAAGAGCTCTTAGTACG 59.446 47.826 28.02 16.42 42.74 3.67
402 1817 4.331168 CACCAATGCAAGAGCTCTTAGTAC 59.669 45.833 28.02 17.48 42.74 2.73
403 1818 4.222810 TCACCAATGCAAGAGCTCTTAGTA 59.777 41.667 28.02 20.42 42.74 1.82
404 1819 3.008375 TCACCAATGCAAGAGCTCTTAGT 59.992 43.478 28.02 10.97 42.74 2.24
405 1820 3.373439 GTCACCAATGCAAGAGCTCTTAG 59.627 47.826 28.02 21.44 42.74 2.18
406 1821 3.338249 GTCACCAATGCAAGAGCTCTTA 58.662 45.455 28.02 14.85 42.74 2.10
407 1822 2.157738 GTCACCAATGCAAGAGCTCTT 58.842 47.619 23.49 23.49 42.74 2.85
408 1823 1.612726 GGTCACCAATGCAAGAGCTCT 60.613 52.381 11.45 11.45 42.74 4.09
409 1824 0.807496 GGTCACCAATGCAAGAGCTC 59.193 55.000 5.27 5.27 42.74 4.09
410 1825 0.403271 AGGTCACCAATGCAAGAGCT 59.597 50.000 0.00 0.00 42.74 4.09
411 1826 0.524862 CAGGTCACCAATGCAAGAGC 59.475 55.000 0.00 0.00 42.57 4.09
412 1827 1.171308 CCAGGTCACCAATGCAAGAG 58.829 55.000 0.00 0.00 0.00 2.85
413 1828 0.895100 GCCAGGTCACCAATGCAAGA 60.895 55.000 0.00 0.00 0.00 3.02
414 1829 1.588082 GCCAGGTCACCAATGCAAG 59.412 57.895 0.00 0.00 0.00 4.01
415 1830 1.907807 GGCCAGGTCACCAATGCAA 60.908 57.895 0.00 0.00 0.00 4.08
416 1831 2.283101 GGCCAGGTCACCAATGCA 60.283 61.111 0.00 0.00 0.00 3.96
417 1832 2.283101 TGGCCAGGTCACCAATGC 60.283 61.111 0.00 0.00 31.46 3.56
418 1833 0.251297 TTCTGGCCAGGTCACCAATG 60.251 55.000 32.23 3.70 34.96 2.82
419 1834 0.251341 GTTCTGGCCAGGTCACCAAT 60.251 55.000 32.23 0.00 34.96 3.16
420 1835 1.150536 GTTCTGGCCAGGTCACCAA 59.849 57.895 32.23 15.37 34.96 3.67
421 1836 2.075566 TGTTCTGGCCAGGTCACCA 61.076 57.895 32.23 17.76 0.00 4.17
422 1837 1.600916 GTGTTCTGGCCAGGTCACC 60.601 63.158 31.91 21.48 31.63 4.02
423 1838 1.600916 GGTGTTCTGGCCAGGTCAC 60.601 63.158 33.04 33.04 34.44 3.67
424 1839 0.472925 TAGGTGTTCTGGCCAGGTCA 60.473 55.000 32.23 25.75 0.00 4.02
425 1840 0.912486 ATAGGTGTTCTGGCCAGGTC 59.088 55.000 32.23 23.62 0.00 3.85
426 1841 1.282157 GAATAGGTGTTCTGGCCAGGT 59.718 52.381 32.23 12.51 0.00 4.00
427 1842 1.408822 GGAATAGGTGTTCTGGCCAGG 60.409 57.143 32.23 14.13 0.00 4.45
428 1843 1.281867 TGGAATAGGTGTTCTGGCCAG 59.718 52.381 27.87 27.87 0.00 4.85
429 1844 1.281867 CTGGAATAGGTGTTCTGGCCA 59.718 52.381 4.71 4.71 0.00 5.36
430 1845 2.019156 GCTGGAATAGGTGTTCTGGCC 61.019 57.143 0.00 0.00 0.00 5.36
431 1846 1.340017 TGCTGGAATAGGTGTTCTGGC 60.340 52.381 0.00 0.00 0.00 4.85
432 1847 2.749621 GTTGCTGGAATAGGTGTTCTGG 59.250 50.000 0.00 0.00 0.00 3.86
433 1848 3.438087 CAGTTGCTGGAATAGGTGTTCTG 59.562 47.826 0.00 0.00 0.00 3.02
434 1849 3.679389 CAGTTGCTGGAATAGGTGTTCT 58.321 45.455 0.00 0.00 0.00 3.01
447 1862 3.568538 GCACAATTAGAACCAGTTGCTG 58.431 45.455 0.00 0.00 0.00 4.41
448 1863 2.558359 GGCACAATTAGAACCAGTTGCT 59.442 45.455 0.00 0.00 0.00 3.91
449 1864 2.558359 AGGCACAATTAGAACCAGTTGC 59.442 45.455 0.00 0.00 0.00 4.17
450 1865 3.820467 TCAGGCACAATTAGAACCAGTTG 59.180 43.478 0.00 0.00 0.00 3.16
451 1866 4.098914 TCAGGCACAATTAGAACCAGTT 57.901 40.909 0.00 0.00 0.00 3.16
452 1867 3.788227 TCAGGCACAATTAGAACCAGT 57.212 42.857 0.00 0.00 0.00 4.00
453 1868 5.649782 AATTCAGGCACAATTAGAACCAG 57.350 39.130 0.00 0.00 0.00 4.00
454 1869 7.309744 CCTTAAATTCAGGCACAATTAGAACCA 60.310 37.037 0.00 0.00 0.00 3.67
455 1870 7.035612 CCTTAAATTCAGGCACAATTAGAACC 58.964 38.462 0.00 0.00 0.00 3.62
456 1871 7.826690 TCCTTAAATTCAGGCACAATTAGAAC 58.173 34.615 0.00 0.00 0.00 3.01
457 1872 7.362920 GCTCCTTAAATTCAGGCACAATTAGAA 60.363 37.037 0.00 0.00 0.00 2.10
458 1873 6.095440 GCTCCTTAAATTCAGGCACAATTAGA 59.905 38.462 0.00 0.00 0.00 2.10
459 1874 6.268566 GCTCCTTAAATTCAGGCACAATTAG 58.731 40.000 0.00 0.00 0.00 1.73
460 1875 5.127031 GGCTCCTTAAATTCAGGCACAATTA 59.873 40.000 0.00 0.00 0.00 1.40
461 1876 4.081476 GGCTCCTTAAATTCAGGCACAATT 60.081 41.667 0.00 0.00 0.00 2.32
462 1877 3.448660 GGCTCCTTAAATTCAGGCACAAT 59.551 43.478 0.00 0.00 0.00 2.71
463 1878 2.825532 GGCTCCTTAAATTCAGGCACAA 59.174 45.455 0.00 0.00 0.00 3.33
464 1879 2.041620 AGGCTCCTTAAATTCAGGCACA 59.958 45.455 0.00 0.00 33.93 4.57
465 1880 2.424956 CAGGCTCCTTAAATTCAGGCAC 59.575 50.000 0.00 0.00 33.93 5.01
466 1881 2.308570 TCAGGCTCCTTAAATTCAGGCA 59.691 45.455 0.00 0.00 33.93 4.75
467 1882 3.004752 TCAGGCTCCTTAAATTCAGGC 57.995 47.619 0.00 0.00 0.00 4.85
468 1883 4.140536 GGATCAGGCTCCTTAAATTCAGG 58.859 47.826 0.00 0.00 32.18 3.86
469 1884 4.785301 TGGATCAGGCTCCTTAAATTCAG 58.215 43.478 0.00 0.00 36.20 3.02
470 1885 4.228210 ACTGGATCAGGCTCCTTAAATTCA 59.772 41.667 0.00 0.00 35.51 2.57
471 1886 4.578105 CACTGGATCAGGCTCCTTAAATTC 59.422 45.833 0.00 0.00 35.51 2.17
472 1887 4.530875 CACTGGATCAGGCTCCTTAAATT 58.469 43.478 0.00 0.00 35.51 1.82
473 1888 3.117738 CCACTGGATCAGGCTCCTTAAAT 60.118 47.826 0.00 0.00 35.51 1.40
474 1889 2.239654 CCACTGGATCAGGCTCCTTAAA 59.760 50.000 0.00 0.00 35.51 1.52
475 1890 1.839994 CCACTGGATCAGGCTCCTTAA 59.160 52.381 0.00 0.00 35.51 1.85
476 1891 1.500474 CCACTGGATCAGGCTCCTTA 58.500 55.000 0.00 0.00 35.51 2.69
477 1892 1.919600 GCCACTGGATCAGGCTCCTT 61.920 60.000 0.00 0.00 44.92 3.36
478 1893 2.373707 GCCACTGGATCAGGCTCCT 61.374 63.158 0.00 0.00 44.92 3.69
479 1894 2.191641 GCCACTGGATCAGGCTCC 59.808 66.667 0.00 0.00 44.92 4.70
480 1895 2.202987 CGCCACTGGATCAGGCTC 60.203 66.667 13.49 0.00 46.14 4.70
481 1896 4.479993 GCGCCACTGGATCAGGCT 62.480 66.667 13.49 0.00 46.14 4.58
482 1897 4.783621 TGCGCCACTGGATCAGGC 62.784 66.667 4.18 7.43 44.89 4.85
483 1898 2.821366 GTGCGCCACTGGATCAGG 60.821 66.667 4.18 0.00 35.51 3.86
484 1899 2.046988 TGTGCGCCACTGGATCAG 60.047 61.111 4.18 0.00 35.11 2.90
485 1900 2.358615 GTGTGCGCCACTGGATCA 60.359 61.111 18.16 0.00 41.11 2.92
486 1901 3.127533 GGTGTGCGCCACTGGATC 61.128 66.667 22.54 7.43 43.94 3.36
491 1906 3.049674 CAATCGGTGTGCGCCACT 61.050 61.111 22.54 6.29 43.94 4.00
492 1907 2.513065 CTTCAATCGGTGTGCGCCAC 62.513 60.000 17.46 17.46 43.74 5.01
493 1908 2.281139 TTCAATCGGTGTGCGCCA 60.281 55.556 4.18 0.00 0.00 5.69
494 1909 2.480555 CTTCAATCGGTGTGCGCC 59.519 61.111 4.18 0.00 0.00 6.53
495 1910 1.573829 TTCCTTCAATCGGTGTGCGC 61.574 55.000 0.00 0.00 0.00 6.09
496 1911 0.871722 TTTCCTTCAATCGGTGTGCG 59.128 50.000 0.00 0.00 0.00 5.34
497 1912 2.415893 CCATTTCCTTCAATCGGTGTGC 60.416 50.000 0.00 0.00 0.00 4.57
498 1913 2.164219 CCCATTTCCTTCAATCGGTGTG 59.836 50.000 0.00 0.00 0.00 3.82
499 1914 2.225017 ACCCATTTCCTTCAATCGGTGT 60.225 45.455 0.00 0.00 27.46 4.16
500 1915 2.423538 GACCCATTTCCTTCAATCGGTG 59.576 50.000 0.00 0.00 28.61 4.94
501 1916 2.620627 GGACCCATTTCCTTCAATCGGT 60.621 50.000 0.00 0.00 30.91 4.69
502 1917 2.024414 GGACCCATTTCCTTCAATCGG 58.976 52.381 0.00 0.00 32.24 4.18
503 1918 2.024414 GGGACCCATTTCCTTCAATCG 58.976 52.381 5.33 0.00 35.76 3.34
504 1919 2.024414 CGGGACCCATTTCCTTCAATC 58.976 52.381 12.15 0.00 35.76 2.67
505 1920 1.638589 TCGGGACCCATTTCCTTCAAT 59.361 47.619 12.15 0.00 35.76 2.57
506 1921 1.068948 TCGGGACCCATTTCCTTCAA 58.931 50.000 12.15 0.00 35.76 2.69
507 1922 1.068948 TTCGGGACCCATTTCCTTCA 58.931 50.000 12.15 0.00 35.76 3.02
508 1923 1.004394 AGTTCGGGACCCATTTCCTTC 59.996 52.381 12.15 0.00 35.76 3.46
509 1924 1.004394 GAGTTCGGGACCCATTTCCTT 59.996 52.381 12.15 0.00 35.76 3.36
510 1925 0.618981 GAGTTCGGGACCCATTTCCT 59.381 55.000 12.15 0.00 35.76 3.36
511 1926 0.393944 GGAGTTCGGGACCCATTTCC 60.394 60.000 12.15 7.90 34.52 3.13
512 1927 0.326927 TGGAGTTCGGGACCCATTTC 59.673 55.000 12.15 2.08 0.00 2.17
513 1928 0.999712 ATGGAGTTCGGGACCCATTT 59.000 50.000 12.15 0.00 36.50 2.32
514 1929 1.887797 TATGGAGTTCGGGACCCATT 58.112 50.000 12.15 0.00 38.99 3.16
515 1930 1.699634 CATATGGAGTTCGGGACCCAT 59.300 52.381 12.15 12.31 40.34 4.00
516 1931 1.128200 CATATGGAGTTCGGGACCCA 58.872 55.000 12.15 0.00 34.47 4.51
517 1932 0.396811 CCATATGGAGTTCGGGACCC 59.603 60.000 17.49 0.00 37.39 4.46
518 1933 0.396811 CCCATATGGAGTTCGGGACC 59.603 60.000 24.00 0.00 39.44 4.46
519 1934 0.396811 CCCCATATGGAGTTCGGGAC 59.603 60.000 24.00 0.00 39.44 4.46
520 1935 0.266453 TCCCCATATGGAGTTCGGGA 59.734 55.000 24.00 16.26 39.44 5.14
521 1936 1.072331 CTTCCCCATATGGAGTTCGGG 59.928 57.143 24.00 14.16 35.37 5.14
522 1937 1.072331 CCTTCCCCATATGGAGTTCGG 59.928 57.143 24.00 14.89 35.37 4.30
523 1938 2.047061 TCCTTCCCCATATGGAGTTCG 58.953 52.381 24.00 5.64 35.37 3.95
524 1939 3.744530 CGTTCCTTCCCCATATGGAGTTC 60.745 52.174 24.00 4.70 35.37 3.01
525 1940 2.172717 CGTTCCTTCCCCATATGGAGTT 59.827 50.000 24.00 0.00 35.37 3.01
526 1941 1.768870 CGTTCCTTCCCCATATGGAGT 59.231 52.381 24.00 0.00 35.37 3.85
527 1942 1.768870 ACGTTCCTTCCCCATATGGAG 59.231 52.381 24.00 10.59 35.37 3.86
528 1943 1.887797 ACGTTCCTTCCCCATATGGA 58.112 50.000 24.00 0.41 37.39 3.41
529 1944 2.297701 CAACGTTCCTTCCCCATATGG 58.702 52.381 15.41 15.41 0.00 2.74
530 1945 2.999331 ACAACGTTCCTTCCCCATATG 58.001 47.619 0.00 0.00 0.00 1.78
531 1946 3.245122 ACAACAACGTTCCTTCCCCATAT 60.245 43.478 0.00 0.00 0.00 1.78
532 1947 2.106857 ACAACAACGTTCCTTCCCCATA 59.893 45.455 0.00 0.00 0.00 2.74
533 1948 1.133606 ACAACAACGTTCCTTCCCCAT 60.134 47.619 0.00 0.00 0.00 4.00
534 1949 0.256464 ACAACAACGTTCCTTCCCCA 59.744 50.000 0.00 0.00 0.00 4.96
535 1950 1.395635 AACAACAACGTTCCTTCCCC 58.604 50.000 0.00 0.00 0.00 4.81
536 1951 2.804647 CAAACAACAACGTTCCTTCCC 58.195 47.619 0.00 0.00 0.00 3.97
537 1952 2.190161 GCAAACAACAACGTTCCTTCC 58.810 47.619 0.00 0.00 0.00 3.46
538 1953 1.843753 CGCAAACAACAACGTTCCTTC 59.156 47.619 0.00 0.00 0.00 3.46
539 1954 1.469308 TCGCAAACAACAACGTTCCTT 59.531 42.857 0.00 0.00 0.00 3.36
540 1955 1.063469 CTCGCAAACAACAACGTTCCT 59.937 47.619 0.00 0.00 0.00 3.36
541 1956 1.062880 TCTCGCAAACAACAACGTTCC 59.937 47.619 0.00 0.00 0.00 3.62
542 1957 2.098870 GTCTCGCAAACAACAACGTTC 58.901 47.619 0.00 0.00 0.00 3.95
543 1958 1.202098 GGTCTCGCAAACAACAACGTT 60.202 47.619 0.00 0.00 0.00 3.99
544 1959 0.375803 GGTCTCGCAAACAACAACGT 59.624 50.000 0.00 0.00 0.00 3.99
545 1960 0.655733 AGGTCTCGCAAACAACAACG 59.344 50.000 0.00 0.00 0.00 4.10
546 1961 2.349532 GCTAGGTCTCGCAAACAACAAC 60.350 50.000 0.00 0.00 0.00 3.32
547 1962 1.871039 GCTAGGTCTCGCAAACAACAA 59.129 47.619 0.00 0.00 0.00 2.83
548 1963 1.070134 AGCTAGGTCTCGCAAACAACA 59.930 47.619 0.00 0.00 0.00 3.33
549 1964 1.461127 CAGCTAGGTCTCGCAAACAAC 59.539 52.381 0.00 0.00 0.00 3.32
550 1965 1.070134 ACAGCTAGGTCTCGCAAACAA 59.930 47.619 0.00 0.00 0.00 2.83
551 1966 0.679505 ACAGCTAGGTCTCGCAAACA 59.320 50.000 0.00 0.00 0.00 2.83
552 1967 2.260481 GTACAGCTAGGTCTCGCAAAC 58.740 52.381 0.00 0.00 0.00 2.93
553 1968 1.890489 TGTACAGCTAGGTCTCGCAAA 59.110 47.619 0.00 0.00 0.00 3.68
554 1969 1.541379 TGTACAGCTAGGTCTCGCAA 58.459 50.000 0.00 0.00 0.00 4.85
555 1970 1.405463 CATGTACAGCTAGGTCTCGCA 59.595 52.381 0.33 0.00 0.00 5.10
556 1971 1.676529 TCATGTACAGCTAGGTCTCGC 59.323 52.381 0.33 0.00 0.00 5.03
557 1972 3.696898 GTTCATGTACAGCTAGGTCTCG 58.303 50.000 0.33 0.00 0.00 4.04
558 1973 3.696898 CGTTCATGTACAGCTAGGTCTC 58.303 50.000 0.33 0.00 0.00 3.36
559 1974 2.159226 GCGTTCATGTACAGCTAGGTCT 60.159 50.000 0.33 0.00 0.00 3.85
560 1975 2.194271 GCGTTCATGTACAGCTAGGTC 58.806 52.381 0.33 0.00 0.00 3.85
561 1976 1.548719 TGCGTTCATGTACAGCTAGGT 59.451 47.619 15.79 0.00 0.00 3.08
587 2002 4.496840 CGATTCGTTTTTATTAGGTGGCCC 60.497 45.833 0.00 0.00 0.00 5.80
1134 2621 9.411801 CCGAGTATATTTGTACTACTACGACTA 57.588 37.037 0.00 0.00 35.14 2.59
1172 2660 2.305635 TGCTCCTTCATGCTAAGTGGAA 59.694 45.455 0.00 0.00 0.00 3.53
1369 2864 3.972133 TCACCATTTGGATGCTCTGAAT 58.028 40.909 3.01 0.00 38.94 2.57
1399 2894 8.549338 AAAGTTGAGCTAAATCCTAACTACAC 57.451 34.615 0.00 0.00 0.00 2.90
1462 2961 3.072476 AGGCAGAACCACTAAAAGCACTA 59.928 43.478 0.00 0.00 43.14 2.74
1673 3172 6.546972 ACTTCTTCCTCAGATTTTTCGTTC 57.453 37.500 0.00 0.00 0.00 3.95
1677 3176 7.935520 ACTGAAACTTCTTCCTCAGATTTTTC 58.064 34.615 5.01 0.00 38.91 2.29
2095 4377 9.409312 TGTACATGACATGATTTGAAAAATCAC 57.591 29.630 22.19 6.30 39.22 3.06
2137 4419 7.944729 ACACAACATAAGAATAGAATTGCCT 57.055 32.000 0.00 0.00 0.00 4.75
2281 4563 8.579850 ACCATTAAATATGATGGCGTTATCAT 57.420 30.769 16.82 16.82 44.53 2.45


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

AutoCloner maintained by Alex Coulton.