Multiple sequence alignment - TraesCS2B01G137700

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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 TraesCS2B01G137700 chr2B 100.000 1456 0 0 1 1456 104582647 104581192 0.000000e+00 2689.0
1 TraesCS2B01G137700 chr2B 100.000 1293 0 0 1826 3118 104580822 104579530 0.000000e+00 2388.0
2 TraesCS2B01G137700 chr2D 91.619 1217 54 19 1918 3118 66868365 66869549 0.000000e+00 1639.0
3 TraesCS2B01G137700 chr2D 89.816 1031 47 18 317 1326 66866698 66867691 0.000000e+00 1269.0
4 TraesCS2B01G137700 chr2D 91.667 120 8 1 9 128 66865994 66866111 6.920000e-37 165.0
5 TraesCS2B01G137700 chr2D 96.875 32 1 0 149 180 66866403 66866434 2.000000e-03 54.7
6 TraesCS2B01G137700 chr2A 89.984 1228 81 22 1917 3118 67980766 67979555 0.000000e+00 1548.0
7 TraesCS2B01G137700 chr2A 92.128 1029 45 8 348 1353 67982444 67981429 0.000000e+00 1419.0
8 TraesCS2B01G137700 chr2A 92.508 307 9 7 2816 3118 67714080 67713784 7.990000e-116 427.0
9 TraesCS2B01G137700 chr2A 89.474 38 4 0 1358 1395 67981466 67981429 7.300000e-02 49.1
10 TraesCS2B01G137700 chr4A 92.029 414 21 9 2517 2924 509595716 509595309 3.490000e-159 571.0
11 TraesCS2B01G137700 chr4A 92.754 69 5 0 3039 3107 509595275 509595207 1.980000e-17 100.0
12 TraesCS2B01G137700 chr5D 76.565 623 102 26 1851 2450 450179656 450180257 5.050000e-78 302.0
13 TraesCS2B01G137700 chr5D 84.545 110 17 0 1337 1446 450179717 450179826 3.290000e-20 110.0
14 TraesCS2B01G137700 chr5A 76.106 565 85 30 1839 2383 569469303 569469837 1.860000e-62 250.0
15 TraesCS2B01G137700 chr5B 81.132 106 18 2 1342 1446 550211335 550211439 1.990000e-12 84.2


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 TraesCS2B01G137700 chr2B 104579530 104582647 3117 True 2538.500000 2689 100.000000 1 3118 2 chr2B.!!$R1 3117
1 TraesCS2B01G137700 chr2D 66865994 66869549 3555 False 781.925000 1639 92.494250 9 3118 4 chr2D.!!$F1 3109
2 TraesCS2B01G137700 chr2A 67979555 67982444 2889 True 1005.366667 1548 90.528667 348 3118 3 chr2A.!!$R2 2770
3 TraesCS2B01G137700 chr4A 509595207 509595716 509 True 335.500000 571 92.391500 2517 3107 2 chr4A.!!$R1 590
4 TraesCS2B01G137700 chr5D 450179656 450180257 601 False 206.000000 302 80.555000 1337 2450 2 chr5D.!!$F1 1113
5 TraesCS2B01G137700 chr5A 569469303 569469837 534 False 250.000000 250 76.106000 1839 2383 1 chr5A.!!$F1 544

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
49 50 0.103937 CGCAAGCCCCACAAAAAGAA 59.896 50.0 0.0 0.0 0.0 2.52 F
1359 1793 0.038166 TGCCCAAACCTGAGCCTAAG 59.962 55.0 0.0 0.0 0.0 2.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1829 2263 0.035056 TTGGCTTAGGCTCTGGCTTC 60.035 55.0 7.43 0.0 39.7 3.86 R
2456 3096 0.532115 GGTGCGCCCATGAAAGAAAT 59.468 50.0 4.45 0.0 0.0 2.17 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 3.754955 CATTATCACAGCTGCAGTGTTG 58.245 45.455 21.99 13.70 38.16 3.33
49 50 0.103937 CGCAAGCCCCACAAAAAGAA 59.896 50.000 0.00 0.00 0.00 2.52
50 51 1.869342 CGCAAGCCCCACAAAAAGAAG 60.869 52.381 0.00 0.00 0.00 2.85
59 60 4.024977 CCCCACAAAAAGAAGAAAAATGCG 60.025 41.667 0.00 0.00 0.00 4.73
63 64 4.815846 ACAAAAAGAAGAAAAATGCGGCAT 59.184 33.333 10.23 10.23 0.00 4.40
115 116 6.646240 GCTTGGAAGAATATCAACAAAAGCAA 59.354 34.615 0.00 0.00 37.01 3.91
130 131 2.768492 GCAATTCTGCCTGCCTCCG 61.768 63.158 0.00 0.00 43.26 4.63
132 133 1.377725 AATTCTGCCTGCCTCCGTG 60.378 57.895 0.00 0.00 0.00 4.94
133 134 3.984193 ATTCTGCCTGCCTCCGTGC 62.984 63.158 0.00 0.00 0.00 5.34
138 139 4.162690 CCTGCCTCCGTGCCTACC 62.163 72.222 0.00 0.00 0.00 3.18
141 142 4.162690 GCCTCCGTGCCTACCTGG 62.163 72.222 0.00 0.00 39.35 4.45
176 448 6.072728 TGACTTTTAACCGGTCAATCAATCAG 60.073 38.462 8.04 0.00 37.10 2.90
188 527 6.091713 GGTCAATCAATCAGCCAATTTCAAAG 59.908 38.462 0.00 0.00 0.00 2.77
189 528 5.640357 TCAATCAATCAGCCAATTTCAAAGC 59.360 36.000 0.00 0.00 0.00 3.51
201 540 0.881118 TTCAAAGCTGCCGATGGTTC 59.119 50.000 0.00 0.00 0.00 3.62
219 561 1.153901 CGACAGGTACGGTGCGATT 60.154 57.895 0.00 0.00 36.51 3.34
229 571 2.321060 GTGCGATTGCCGACGATG 59.679 61.111 1.50 0.00 41.78 3.84
230 572 2.889988 TGCGATTGCCGACGATGG 60.890 61.111 1.50 0.00 41.78 3.51
257 622 2.582498 GCTCGCCGTACGCAGAAT 60.582 61.111 10.49 0.00 43.23 2.40
258 623 2.577785 GCTCGCCGTACGCAGAATC 61.578 63.158 10.49 2.62 43.23 2.52
259 624 2.277692 TCGCCGTACGCAGAATCG 60.278 61.111 10.49 5.91 43.23 3.34
261 626 2.883730 GCCGTACGCAGAATCGCA 60.884 61.111 10.49 0.00 37.47 5.10
262 627 2.860628 GCCGTACGCAGAATCGCAG 61.861 63.158 10.49 0.00 37.47 5.18
264 629 1.516386 CGTACGCAGAATCGCAGGT 60.516 57.895 0.52 0.00 0.00 4.00
265 630 1.076533 CGTACGCAGAATCGCAGGTT 61.077 55.000 0.52 0.00 0.00 3.50
269 636 3.173668 ACGCAGAATCGCAGGTTTATA 57.826 42.857 0.00 0.00 0.00 0.98
280 647 2.609737 GCAGGTTTATAGATCGACCGGG 60.610 54.545 6.32 0.00 37.26 5.73
301 668 2.794282 GCACGCATGAACAGTCAAACAA 60.794 45.455 0.00 0.00 37.30 2.83
303 670 2.421775 ACGCATGAACAGTCAAACAACA 59.578 40.909 0.00 0.00 37.30 3.33
306 673 3.734597 GCATGAACAGTCAAACAACAGCA 60.735 43.478 0.00 0.00 37.30 4.41
307 674 3.763097 TGAACAGTCAAACAACAGCAG 57.237 42.857 0.00 0.00 0.00 4.24
308 675 2.159393 TGAACAGTCAAACAACAGCAGC 60.159 45.455 0.00 0.00 0.00 5.25
309 676 1.462616 ACAGTCAAACAACAGCAGCA 58.537 45.000 0.00 0.00 0.00 4.41
310 677 1.818060 ACAGTCAAACAACAGCAGCAA 59.182 42.857 0.00 0.00 0.00 3.91
311 678 2.159338 ACAGTCAAACAACAGCAGCAAG 60.159 45.455 0.00 0.00 0.00 4.01
312 679 1.202336 AGTCAAACAACAGCAGCAAGC 60.202 47.619 0.00 0.00 46.19 4.01
345 744 2.743928 GGCGACCACAGCTTGAGG 60.744 66.667 0.00 0.00 34.11 3.86
346 745 3.426568 GCGACCACAGCTTGAGGC 61.427 66.667 0.00 0.00 42.19 4.70
350 749 1.228367 ACCACAGCTTGAGGCCTTG 60.228 57.895 6.77 2.52 43.05 3.61
360 759 3.416156 CTTGAGGCCTTGAGCTTACTTT 58.584 45.455 6.77 0.00 43.05 2.66
368 768 3.364366 CCTTGAGCTTACTTTTGTGCGAG 60.364 47.826 0.00 0.00 0.00 5.03
433 836 1.291184 CGGCGCAGTTGAGTTGATGA 61.291 55.000 10.83 0.00 0.00 2.92
434 837 1.089920 GGCGCAGTTGAGTTGATGAT 58.910 50.000 10.83 0.00 0.00 2.45
435 838 1.202110 GGCGCAGTTGAGTTGATGATG 60.202 52.381 10.83 0.00 0.00 3.07
436 839 1.792993 GCGCAGTTGAGTTGATGATGC 60.793 52.381 0.30 0.00 0.00 3.91
437 840 1.202110 CGCAGTTGAGTTGATGATGCC 60.202 52.381 0.00 0.00 0.00 4.40
438 841 2.089980 GCAGTTGAGTTGATGATGCCT 58.910 47.619 0.00 0.00 0.00 4.75
439 842 2.490903 GCAGTTGAGTTGATGATGCCTT 59.509 45.455 0.00 0.00 0.00 4.35
440 843 3.672511 GCAGTTGAGTTGATGATGCCTTG 60.673 47.826 0.00 0.00 0.00 3.61
513 916 0.244994 CAGCTGCCTAGAACAGTCGT 59.755 55.000 0.00 0.00 37.47 4.34
702 1108 6.238814 GGTCTCTTCTCATTACTAGTACTGCC 60.239 46.154 13.89 4.93 0.00 4.85
783 1197 4.242586 TCCACCCGGAGACCCACA 62.243 66.667 0.73 0.00 35.91 4.17
855 1269 0.685660 GGTCCCTCCGCCCTATAAAG 59.314 60.000 0.00 0.00 0.00 1.85
935 1349 4.408921 CACCCCATCCACTTTATCTCAGTA 59.591 45.833 0.00 0.00 0.00 2.74
951 1365 5.571285 TCTCAGTAGAGAGGTTTAGAAGCA 58.429 41.667 0.00 0.00 45.73 3.91
988 1410 0.459934 CAAGAGCTGCGAGAAGGAGG 60.460 60.000 0.00 0.00 38.88 4.30
989 1411 0.613292 AAGAGCTGCGAGAAGGAGGA 60.613 55.000 0.00 0.00 38.88 3.71
990 1412 1.037030 AGAGCTGCGAGAAGGAGGAG 61.037 60.000 0.00 0.00 38.88 3.69
991 1413 2.202864 GCTGCGAGAAGGAGGAGC 60.203 66.667 0.00 0.00 43.98 4.70
992 1414 2.103934 CTGCGAGAAGGAGGAGCG 59.896 66.667 0.00 0.00 34.34 5.03
993 1415 3.423162 CTGCGAGAAGGAGGAGCGG 62.423 68.421 0.00 0.00 34.34 5.52
1041 1463 3.138798 GTGCTCCTCGTCGGGCTA 61.139 66.667 0.00 0.00 32.24 3.93
1104 1526 2.103934 CTCGCTGAGAAGCTCCCG 59.896 66.667 0.00 0.00 0.00 5.14
1251 1685 0.257039 AGCCTATGCCCAAACCTGAG 59.743 55.000 0.00 0.00 38.69 3.35
1317 1751 1.330655 TGCCAAAGCCCGAACCAAAA 61.331 50.000 0.00 0.00 38.69 2.44
1333 1767 0.105504 AAAACCTGAGCCCAAGCCTT 60.106 50.000 0.00 0.00 41.25 4.35
1353 1787 1.750399 CCCGATGCCCAAACCTGAG 60.750 63.158 0.00 0.00 0.00 3.35
1354 1788 2.409870 CCGATGCCCAAACCTGAGC 61.410 63.158 0.00 0.00 0.00 4.26
1355 1789 2.409870 CGATGCCCAAACCTGAGCC 61.410 63.158 0.00 0.00 0.00 4.70
1356 1790 1.000396 GATGCCCAAACCTGAGCCT 60.000 57.895 0.00 0.00 0.00 4.58
1357 1791 0.255890 GATGCCCAAACCTGAGCCTA 59.744 55.000 0.00 0.00 0.00 3.93
1358 1792 0.704076 ATGCCCAAACCTGAGCCTAA 59.296 50.000 0.00 0.00 0.00 2.69
1359 1793 0.038166 TGCCCAAACCTGAGCCTAAG 59.962 55.000 0.00 0.00 0.00 2.18
1360 1794 1.315981 GCCCAAACCTGAGCCTAAGC 61.316 60.000 0.00 0.00 40.32 3.09
1361 1795 0.681243 CCCAAACCTGAGCCTAAGCC 60.681 60.000 0.00 0.00 41.25 4.35
1362 1796 0.329596 CCAAACCTGAGCCTAAGCCT 59.670 55.000 0.00 0.00 41.25 4.58
1363 1797 1.457346 CAAACCTGAGCCTAAGCCTG 58.543 55.000 0.00 0.00 41.25 4.85
1364 1798 1.003580 CAAACCTGAGCCTAAGCCTGA 59.996 52.381 0.00 0.00 41.25 3.86
1365 1799 0.908198 AACCTGAGCCTAAGCCTGAG 59.092 55.000 0.00 0.00 41.25 3.35
1366 1800 1.145819 CCTGAGCCTAAGCCTGAGC 59.854 63.158 0.00 0.00 41.25 4.26
1367 1801 1.145819 CTGAGCCTAAGCCTGAGCC 59.854 63.158 0.00 0.00 41.25 4.70
1368 1802 2.322638 CTGAGCCTAAGCCTGAGCCC 62.323 65.000 0.00 0.00 41.25 5.19
1369 1803 2.285668 AGCCTAAGCCTGAGCCCA 60.286 61.111 0.00 0.00 41.25 5.36
1370 1804 1.915078 GAGCCTAAGCCTGAGCCCAA 61.915 60.000 0.00 0.00 41.25 4.12
1371 1805 1.452833 GCCTAAGCCTGAGCCCAAG 60.453 63.158 0.00 0.00 41.25 3.61
1372 1806 1.452833 CCTAAGCCTGAGCCCAAGC 60.453 63.158 0.00 0.00 41.25 4.01
1373 1807 1.452833 CTAAGCCTGAGCCCAAGCC 60.453 63.158 0.00 0.00 41.25 4.35
1374 1808 2.900671 CTAAGCCTGAGCCCAAGCCC 62.901 65.000 0.00 0.00 41.25 5.19
1377 1811 4.479993 CCTGAGCCCAAGCCCGAG 62.480 72.222 0.00 0.00 41.25 4.63
1382 1816 3.878667 GCCCAAGCCCGAGCCTAT 61.879 66.667 0.00 0.00 41.25 2.57
1393 1827 0.734889 CGAGCCTATGCCAAAACCTG 59.265 55.000 0.00 0.00 38.69 4.00
1399 1833 2.896685 CCTATGCCAAAACCTGAACCAA 59.103 45.455 0.00 0.00 0.00 3.67
1405 1839 2.483538 CCAAAACCTGAACCAAAGCCAG 60.484 50.000 0.00 0.00 0.00 4.85
1406 1840 2.430332 CAAAACCTGAACCAAAGCCAGA 59.570 45.455 0.00 0.00 0.00 3.86
1413 1847 0.829182 AACCAAAGCCAGAGCCCAAG 60.829 55.000 0.00 0.00 41.25 3.61
1416 1850 3.893961 AAAGCCAGAGCCCAAGCCC 62.894 63.158 0.00 0.00 41.25 5.19
1424 1858 3.878667 GCCCAAGCCCGAGCCTAT 61.879 66.667 0.00 0.00 41.25 2.57
1429 1863 2.679342 AAGCCCGAGCCTATGCCAA 61.679 57.895 0.00 0.00 41.25 4.52
1434 1868 0.394352 CCGAGCCTATGCCAAAACCT 60.394 55.000 0.00 0.00 38.69 3.50
1435 1869 0.734889 CGAGCCTATGCCAAAACCTG 59.265 55.000 0.00 0.00 38.69 4.00
1437 1871 2.446435 GAGCCTATGCCAAAACCTGAA 58.554 47.619 0.00 0.00 38.69 3.02
1440 1874 2.524306 CCTATGCCAAAACCTGAACCA 58.476 47.619 0.00 0.00 0.00 3.67
1442 1876 3.323403 CCTATGCCAAAACCTGAACCAAA 59.677 43.478 0.00 0.00 0.00 3.28
1446 1880 1.202639 CCAAAACCTGAACCAAAGCCC 60.203 52.381 0.00 0.00 0.00 5.19
1447 1881 0.750249 AAAACCTGAACCAAAGCCCG 59.250 50.000 0.00 0.00 0.00 6.13
1453 1887 3.860930 GAACCAAAGCCCGAGCCCA 62.861 63.158 0.00 0.00 41.25 5.36
1853 2470 0.394762 CAGAGCCTAAGCCAATGCCA 60.395 55.000 0.00 0.00 41.25 4.92
1859 2476 0.179129 CTAAGCCAATGCCAAAGCCG 60.179 55.000 0.00 0.00 38.69 5.52
1900 2517 2.751436 TGAGCCGATGCCAAAGCC 60.751 61.111 0.00 0.00 38.69 4.35
1901 2518 3.521796 GAGCCGATGCCAAAGCCC 61.522 66.667 0.00 0.00 38.69 5.19
1904 2521 3.204827 CCGATGCCAAAGCCCGAG 61.205 66.667 0.00 0.00 38.69 4.63
1905 2522 3.880846 CGATGCCAAAGCCCGAGC 61.881 66.667 0.00 0.00 38.69 5.03
1906 2523 3.521796 GATGCCAAAGCCCGAGCC 61.522 66.667 0.00 0.00 41.25 4.70
1910 2527 3.064324 CCAAAGCCCGAGCCCAAG 61.064 66.667 0.00 0.00 41.25 3.61
1911 2528 3.752339 CAAAGCCCGAGCCCAAGC 61.752 66.667 0.00 0.00 41.25 4.01
1915 2532 3.878667 GCCCGAGCCCAAGCCTAT 61.879 66.667 0.00 0.00 41.25 2.57
1916 2533 2.111878 CCCGAGCCCAAGCCTATG 59.888 66.667 0.00 0.00 41.25 2.23
1917 2534 2.592861 CCGAGCCCAAGCCTATGC 60.593 66.667 0.00 0.00 41.25 3.14
1918 2535 2.592861 CGAGCCCAAGCCTATGCC 60.593 66.667 0.00 0.00 41.25 4.40
1919 2536 2.592861 GAGCCCAAGCCTATGCCG 60.593 66.667 0.00 0.00 41.25 5.69
1920 2537 3.089874 AGCCCAAGCCTATGCCGA 61.090 61.111 0.00 0.00 41.25 5.54
1921 2538 2.124320 GCCCAAGCCTATGCCGAA 60.124 61.111 0.00 0.00 38.69 4.30
1922 2539 2.189499 GCCCAAGCCTATGCCGAAG 61.189 63.158 0.00 0.00 38.69 3.79
1923 2540 2.189499 CCCAAGCCTATGCCGAAGC 61.189 63.158 0.00 0.00 38.69 3.86
1924 2541 2.189499 CCAAGCCTATGCCGAAGCC 61.189 63.158 0.00 0.00 38.69 4.35
1925 2542 1.451927 CAAGCCTATGCCGAAGCCA 60.452 57.895 0.00 0.00 38.69 4.75
1926 2543 1.153086 AAGCCTATGCCGAAGCCAG 60.153 57.895 0.00 0.00 38.69 4.85
1927 2544 1.626356 AAGCCTATGCCGAAGCCAGA 61.626 55.000 0.00 0.00 38.69 3.86
1928 2545 1.596477 GCCTATGCCGAAGCCAGAG 60.596 63.158 0.00 0.00 38.69 3.35
1929 2546 1.596477 CCTATGCCGAAGCCAGAGC 60.596 63.158 0.00 0.00 38.69 4.09
1930 2547 1.596477 CTATGCCGAAGCCAGAGCC 60.596 63.158 0.00 0.00 41.25 4.70
1931 2548 3.106986 TATGCCGAAGCCAGAGCCC 62.107 63.158 0.00 0.00 41.25 5.19
1933 2550 4.722700 GCCGAAGCCAGAGCCCAA 62.723 66.667 0.00 0.00 41.25 4.12
1934 2551 2.034066 CCGAAGCCAGAGCCCAAA 59.966 61.111 0.00 0.00 41.25 3.28
1935 2552 2.335712 CCGAAGCCAGAGCCCAAAC 61.336 63.158 0.00 0.00 41.25 2.93
1936 2553 2.335712 CGAAGCCAGAGCCCAAACC 61.336 63.158 0.00 0.00 41.25 3.27
1937 2554 1.228552 GAAGCCAGAGCCCAAACCA 60.229 57.895 0.00 0.00 41.25 3.67
1938 2555 1.228675 AAGCCAGAGCCCAAACCAG 60.229 57.895 0.00 0.00 41.25 4.00
1939 2556 1.719063 AAGCCAGAGCCCAAACCAGA 61.719 55.000 0.00 0.00 41.25 3.86
1940 2557 1.676967 GCCAGAGCCCAAACCAGAG 60.677 63.158 0.00 0.00 0.00 3.35
1941 2558 1.676967 CCAGAGCCCAAACCAGAGC 60.677 63.158 0.00 0.00 0.00 4.09
1942 2559 1.676967 CAGAGCCCAAACCAGAGCC 60.677 63.158 0.00 0.00 0.00 4.70
1943 2560 2.747855 GAGCCCAAACCAGAGCCG 60.748 66.667 0.00 0.00 0.00 5.52
1944 2561 3.249189 AGCCCAAACCAGAGCCGA 61.249 61.111 0.00 0.00 0.00 5.54
1945 2562 2.044946 GCCCAAACCAGAGCCGAT 60.045 61.111 0.00 0.00 0.00 4.18
1946 2563 2.409870 GCCCAAACCAGAGCCGATG 61.410 63.158 0.00 0.00 0.00 3.84
1947 2564 2.409870 CCCAAACCAGAGCCGATGC 61.410 63.158 0.00 0.00 37.95 3.91
1948 2565 2.409870 CCAAACCAGAGCCGATGCC 61.410 63.158 0.00 0.00 38.69 4.40
1949 2566 1.675310 CAAACCAGAGCCGATGCCA 60.675 57.895 0.00 0.00 38.69 4.92
1950 2567 1.074775 AAACCAGAGCCGATGCCAA 59.925 52.632 0.00 0.00 38.69 4.52
1951 2568 0.539438 AAACCAGAGCCGATGCCAAA 60.539 50.000 0.00 0.00 38.69 3.28
1952 2569 0.962356 AACCAGAGCCGATGCCAAAG 60.962 55.000 0.00 0.00 38.69 2.77
1953 2570 2.768492 CCAGAGCCGATGCCAAAGC 61.768 63.158 0.00 0.00 38.69 3.51
1994 2611 3.350219 TTGCCTAAACCAGAGCCTAAG 57.650 47.619 0.00 0.00 0.00 2.18
1995 2612 1.065418 TGCCTAAACCAGAGCCTAAGC 60.065 52.381 0.00 0.00 40.32 3.09
1996 2613 1.747552 GCCTAAACCAGAGCCTAAGCC 60.748 57.143 0.00 0.00 41.25 4.35
1997 2614 1.134068 CCTAAACCAGAGCCTAAGCCC 60.134 57.143 0.00 0.00 41.25 5.19
1998 2615 0.539986 TAAACCAGAGCCTAAGCCCG 59.460 55.000 0.00 0.00 41.25 6.13
2069 2686 1.228124 CAAGCCTGAACCCGAACCA 60.228 57.895 0.00 0.00 0.00 3.67
2182 2800 2.591715 GAGCCACGGTGTGCTGTT 60.592 61.111 22.86 5.50 31.34 3.16
2183 2801 2.124320 AGCCACGGTGTGCTGTTT 60.124 55.556 18.94 0.82 31.34 2.83
2184 2802 2.117941 GAGCCACGGTGTGCTGTTTC 62.118 60.000 22.86 9.63 31.34 2.78
2185 2803 2.186826 GCCACGGTGTGCTGTTTCT 61.187 57.895 7.45 0.00 31.34 2.52
2186 2804 0.882927 GCCACGGTGTGCTGTTTCTA 60.883 55.000 7.45 0.00 31.34 2.10
2187 2805 1.148310 CCACGGTGTGCTGTTTCTAG 58.852 55.000 7.45 0.00 31.34 2.43
2188 2806 1.270094 CCACGGTGTGCTGTTTCTAGA 60.270 52.381 7.45 0.00 31.34 2.43
2255 2887 7.707624 TGATGCATCTTTTTGTATTCCTTCT 57.292 32.000 26.32 0.00 0.00 2.85
2256 2888 8.806429 TGATGCATCTTTTTGTATTCCTTCTA 57.194 30.769 26.32 0.00 0.00 2.10
2258 2890 9.674824 GATGCATCTTTTTGTATTCCTTCTATG 57.325 33.333 19.70 0.00 0.00 2.23
2402 3039 8.257830 TGTATCTACACATGTTTTTATTCGCA 57.742 30.769 0.00 0.00 0.00 5.10
2405 3042 6.550843 TCTACACATGTTTTTATTCGCATGG 58.449 36.000 0.00 1.02 41.94 3.66
2407 3044 5.777802 ACACATGTTTTTATTCGCATGGAA 58.222 33.333 0.00 0.00 41.94 3.53
2408 3045 6.219473 ACACATGTTTTTATTCGCATGGAAA 58.781 32.000 0.00 0.00 41.94 3.13
2410 3047 7.008859 CACATGTTTTTATTCGCATGGAAAAC 58.991 34.615 0.00 11.65 41.94 2.43
2412 3049 6.517914 TGTTTTTATTCGCATGGAAAACAC 57.482 33.333 15.01 0.00 42.12 3.32
2414 3051 6.703607 TGTTTTTATTCGCATGGAAAACACAT 59.296 30.769 15.01 0.00 42.12 3.21
2450 3090 5.438761 ACTGCAGTCTATGTTGTTTTTCC 57.561 39.130 15.25 0.00 0.00 3.13
2453 3093 5.830912 TGCAGTCTATGTTGTTTTTCCTTG 58.169 37.500 0.00 0.00 0.00 3.61
2454 3094 5.359576 TGCAGTCTATGTTGTTTTTCCTTGT 59.640 36.000 0.00 0.00 0.00 3.16
2455 3095 5.687285 GCAGTCTATGTTGTTTTTCCTTGTG 59.313 40.000 0.00 0.00 0.00 3.33
2456 3096 6.459573 GCAGTCTATGTTGTTTTTCCTTGTGA 60.460 38.462 0.00 0.00 0.00 3.58
2459 3099 8.695456 AGTCTATGTTGTTTTTCCTTGTGATTT 58.305 29.630 0.00 0.00 0.00 2.17
2460 3100 8.968242 GTCTATGTTGTTTTTCCTTGTGATTTC 58.032 33.333 0.00 0.00 0.00 2.17
2465 3109 7.875041 TGTTGTTTTTCCTTGTGATTTCTTTCA 59.125 29.630 0.00 0.00 0.00 2.69
2492 3138 1.426598 CACCCTCCATGCCCATATTCT 59.573 52.381 0.00 0.00 0.00 2.40
2501 3147 1.922447 TGCCCATATTCTTCCACTGGT 59.078 47.619 0.00 0.00 0.00 4.00
2508 3154 3.771577 ATTCTTCCACTGGTTCGTCTT 57.228 42.857 0.00 0.00 0.00 3.01
2512 3160 1.699730 TCCACTGGTTCGTCTTGAGA 58.300 50.000 0.00 0.00 0.00 3.27
2513 3161 1.613925 TCCACTGGTTCGTCTTGAGAG 59.386 52.381 0.00 0.00 0.00 3.20
2514 3162 1.423395 CACTGGTTCGTCTTGAGAGC 58.577 55.000 0.00 0.00 0.00 4.09
2527 3175 4.730521 GTCTTGAGAGCGTGTTTTTCAAAG 59.269 41.667 0.00 0.00 0.00 2.77
2529 3177 5.296780 TCTTGAGAGCGTGTTTTTCAAAGAT 59.703 36.000 0.00 0.00 0.00 2.40
2571 3220 7.012894 TGTGTGGTTTCTAGTTAAATTCACCAG 59.987 37.037 0.00 0.00 30.82 4.00
2766 3421 0.966179 AAAATCCCGCTTTCCACACC 59.034 50.000 0.00 0.00 0.00 4.16
2899 3591 3.997021 ACTGCTTAGATTTCACCTTGACG 59.003 43.478 0.00 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.437741 TCAACACTGCAGCTGTGATAATG 59.562 43.478 32.39 23.68 36.91 1.90
1 2 3.678289 TCAACACTGCAGCTGTGATAAT 58.322 40.909 32.39 15.91 36.91 1.28
2 3 3.124578 TCAACACTGCAGCTGTGATAA 57.875 42.857 32.39 16.85 36.91 1.75
3 4 2.837532 TCAACACTGCAGCTGTGATA 57.162 45.000 32.39 17.15 36.91 2.15
5 6 1.202675 TGATCAACACTGCAGCTGTGA 60.203 47.619 32.39 14.56 36.91 3.58
6 7 1.232119 TGATCAACACTGCAGCTGTG 58.768 50.000 26.18 26.18 38.85 3.66
7 8 1.605710 GTTGATCAACACTGCAGCTGT 59.394 47.619 29.43 14.42 40.84 4.40
12 13 1.840630 CGGCGTTGATCAACACTGCA 61.841 55.000 32.06 0.00 41.20 4.41
21 22 4.179579 GGGCTTGCGGCGTTGATC 62.180 66.667 9.37 0.00 42.94 2.92
44 45 4.255833 TCATGCCGCATTTTTCTTCTTT 57.744 36.364 2.16 0.00 0.00 2.52
49 50 3.578688 GTCTTTCATGCCGCATTTTTCT 58.421 40.909 2.16 0.00 0.00 2.52
50 51 2.342354 CGTCTTTCATGCCGCATTTTTC 59.658 45.455 2.16 0.00 0.00 2.29
59 60 1.266718 TGAACAAGCGTCTTTCATGCC 59.733 47.619 0.00 0.00 37.82 4.40
95 96 8.378421 GCAGAATTGCTTTTGTTGATATTCTTC 58.622 33.333 0.00 0.00 46.95 2.87
115 116 2.270205 CACGGAGGCAGGCAGAAT 59.730 61.111 0.00 0.00 0.00 2.40
141 142 2.432841 TTAAAAGTCACGCACGCGGC 62.433 55.000 16.70 10.52 44.69 6.53
142 143 0.720173 GTTAAAAGTCACGCACGCGG 60.720 55.000 16.70 5.03 44.69 6.46
143 144 0.720173 GGTTAAAAGTCACGCACGCG 60.720 55.000 10.36 10.36 46.03 6.01
176 448 0.038343 TCGGCAGCTTTGAAATTGGC 60.038 50.000 0.00 6.19 0.00 4.52
201 540 1.153901 AATCGCACCGTACCTGTCG 60.154 57.895 0.00 0.00 0.00 4.35
252 617 5.343593 GTCGATCTATAAACCTGCGATTCTG 59.656 44.000 0.00 0.00 0.00 3.02
254 619 4.621886 GGTCGATCTATAAACCTGCGATTC 59.378 45.833 0.00 0.00 0.00 2.52
257 622 2.031420 CGGTCGATCTATAAACCTGCGA 60.031 50.000 0.00 0.00 0.00 5.10
258 623 2.316792 CGGTCGATCTATAAACCTGCG 58.683 52.381 0.00 0.00 0.00 5.18
259 624 2.609737 CCCGGTCGATCTATAAACCTGC 60.610 54.545 0.00 0.00 0.00 4.85
261 626 1.617357 GCCCGGTCGATCTATAAACCT 59.383 52.381 0.00 0.00 0.00 3.50
262 627 1.342174 TGCCCGGTCGATCTATAAACC 59.658 52.381 0.00 0.00 0.00 3.27
264 629 1.001048 CGTGCCCGGTCGATCTATAAA 60.001 52.381 0.00 0.00 0.00 1.40
265 630 0.594602 CGTGCCCGGTCGATCTATAA 59.405 55.000 0.00 0.00 0.00 0.98
280 647 1.268488 TGTTTGACTGTTCATGCGTGC 60.268 47.619 0.00 0.00 0.00 5.34
306 673 0.389166 GCAGACACGACTAGCTTGCT 60.389 55.000 0.00 0.00 0.00 3.91
307 674 1.355066 GGCAGACACGACTAGCTTGC 61.355 60.000 0.00 0.00 0.00 4.01
308 675 0.244994 AGGCAGACACGACTAGCTTG 59.755 55.000 0.00 0.00 0.00 4.01
309 676 0.244994 CAGGCAGACACGACTAGCTT 59.755 55.000 0.00 0.00 0.00 3.74
310 677 1.599606 CCAGGCAGACACGACTAGCT 61.600 60.000 0.00 0.00 0.00 3.32
311 678 1.153745 CCAGGCAGACACGACTAGC 60.154 63.158 0.00 0.00 0.00 3.42
312 679 1.153745 GCCAGGCAGACACGACTAG 60.154 63.158 6.55 0.00 0.00 2.57
313 680 2.970639 GCCAGGCAGACACGACTA 59.029 61.111 6.55 0.00 0.00 2.59
315 682 4.357947 TCGCCAGGCAGACACGAC 62.358 66.667 13.30 0.00 0.00 4.34
320 719 4.314440 TGTGGTCGCCAGGCAGAC 62.314 66.667 21.49 21.49 32.34 3.51
345 744 2.666026 GCACAAAAGTAAGCTCAAGGC 58.334 47.619 0.00 0.00 42.19 4.35
346 745 2.548057 TCGCACAAAAGTAAGCTCAAGG 59.452 45.455 0.00 0.00 0.00 3.61
350 749 4.468095 TTTCTCGCACAAAAGTAAGCTC 57.532 40.909 0.00 0.00 0.00 4.09
360 759 2.938451 CCTGCATAGATTTCTCGCACAA 59.062 45.455 0.00 0.00 32.99 3.33
438 841 2.669569 GCCTCAGCTTGACGGCAA 60.670 61.111 2.36 2.36 39.14 4.52
783 1197 3.461773 CCCGATCGACCAGTGCCT 61.462 66.667 18.66 0.00 0.00 4.75
839 1253 1.375326 GGCTTTATAGGGCGGAGGG 59.625 63.158 0.00 0.00 0.00 4.30
855 1269 0.610232 GAGATGGCATATGGGGTGGC 60.610 60.000 0.00 0.00 41.99 5.01
935 1349 4.562552 GCTTCACTGCTTCTAAACCTCTCT 60.563 45.833 0.00 0.00 0.00 3.10
951 1365 0.749091 TGCTGCACTTGTGCTTCACT 60.749 50.000 23.53 0.00 35.11 3.41
1251 1685 2.681064 TCTGGCTTTGGCATGGGC 60.681 61.111 0.00 6.79 40.87 5.36
1317 1751 1.685820 GTAAGGCTTGGGCTCAGGT 59.314 57.895 10.69 0.00 37.50 4.00
1333 1767 1.202099 TCAGGTTTGGGCATCGGGTA 61.202 55.000 0.00 0.00 0.00 3.69
1353 1787 1.452833 CTTGGGCTCAGGCTTAGGC 60.453 63.158 13.43 13.43 38.73 3.93
1354 1788 1.452833 GCTTGGGCTCAGGCTTAGG 60.453 63.158 14.43 0.00 41.96 2.69
1355 1789 1.452833 GGCTTGGGCTCAGGCTTAG 60.453 63.158 21.16 0.00 44.26 2.18
1356 1790 2.677228 GGCTTGGGCTCAGGCTTA 59.323 61.111 21.16 0.00 44.26 3.09
1357 1791 4.372999 GGGCTTGGGCTCAGGCTT 62.373 66.667 21.16 0.00 44.26 4.35
1360 1794 4.479993 CTCGGGCTTGGGCTCAGG 62.480 72.222 0.00 0.00 39.29 3.86
1365 1799 3.878667 ATAGGCTCGGGCTTGGGC 61.879 66.667 7.48 0.00 39.70 5.36
1366 1800 2.111878 CATAGGCTCGGGCTTGGG 59.888 66.667 7.48 0.00 39.70 4.12
1367 1801 2.592861 GCATAGGCTCGGGCTTGG 60.593 66.667 7.48 0.00 39.70 3.61
1368 1802 2.592861 GGCATAGGCTCGGGCTTG 60.593 66.667 7.48 3.95 39.70 4.01
1369 1803 2.210144 TTTGGCATAGGCTCGGGCTT 62.210 55.000 7.48 0.21 39.70 4.35
1370 1804 2.210144 TTTTGGCATAGGCTCGGGCT 62.210 55.000 7.48 6.19 42.39 5.19
1371 1805 1.752694 TTTTGGCATAGGCTCGGGC 60.753 57.895 0.00 0.00 40.87 6.13
1372 1806 1.384222 GGTTTTGGCATAGGCTCGGG 61.384 60.000 0.00 0.00 40.87 5.14
1373 1807 0.394352 AGGTTTTGGCATAGGCTCGG 60.394 55.000 0.00 0.00 40.87 4.63
1374 1808 0.734889 CAGGTTTTGGCATAGGCTCG 59.265 55.000 0.00 0.00 40.87 5.03
1375 1809 2.128771 TCAGGTTTTGGCATAGGCTC 57.871 50.000 0.00 0.00 40.87 4.70
1376 1810 2.171003 GTTCAGGTTTTGGCATAGGCT 58.829 47.619 0.00 0.00 40.87 4.58
1377 1811 1.204704 GGTTCAGGTTTTGGCATAGGC 59.795 52.381 0.00 0.00 40.13 3.93
1378 1812 2.524306 TGGTTCAGGTTTTGGCATAGG 58.476 47.619 0.00 0.00 0.00 2.57
1379 1813 4.559153 CTTTGGTTCAGGTTTTGGCATAG 58.441 43.478 0.00 0.00 0.00 2.23
1380 1814 3.244044 GCTTTGGTTCAGGTTTTGGCATA 60.244 43.478 0.00 0.00 0.00 3.14
1381 1815 2.485302 GCTTTGGTTCAGGTTTTGGCAT 60.485 45.455 0.00 0.00 0.00 4.40
1382 1816 1.134551 GCTTTGGTTCAGGTTTTGGCA 60.135 47.619 0.00 0.00 0.00 4.92
1393 1827 0.827507 TTGGGCTCTGGCTTTGGTTC 60.828 55.000 0.00 0.00 38.73 3.62
1399 1833 4.372999 GGGCTTGGGCTCTGGCTT 62.373 66.667 4.06 0.00 35.73 4.35
1413 1847 1.752694 TTTTGGCATAGGCTCGGGC 60.753 57.895 0.00 0.00 40.87 6.13
1416 1850 0.734889 CAGGTTTTGGCATAGGCTCG 59.265 55.000 0.00 0.00 40.87 5.03
1417 1851 2.128771 TCAGGTTTTGGCATAGGCTC 57.871 50.000 0.00 0.00 40.87 4.70
1418 1852 2.171003 GTTCAGGTTTTGGCATAGGCT 58.829 47.619 0.00 0.00 40.87 4.58
1422 1856 3.244044 GCTTTGGTTCAGGTTTTGGCATA 60.244 43.478 0.00 0.00 0.00 3.14
1424 1858 1.134551 GCTTTGGTTCAGGTTTTGGCA 60.135 47.619 0.00 0.00 0.00 4.92
1429 1863 0.106419 TCGGGCTTTGGTTCAGGTTT 60.106 50.000 0.00 0.00 0.00 3.27
1434 1868 2.282180 GGCTCGGGCTTTGGTTCA 60.282 61.111 7.48 0.00 38.73 3.18
1435 1869 3.062466 GGGCTCGGGCTTTGGTTC 61.062 66.667 7.48 0.00 38.73 3.62
1437 1871 3.868200 CTTGGGCTCGGGCTTTGGT 62.868 63.158 7.48 0.00 38.73 3.67
1825 2259 1.863267 CTTAGGCTCTGGCTTCATCG 58.137 55.000 0.00 0.00 39.70 3.84
1826 2260 1.592064 GCTTAGGCTCTGGCTTCATC 58.408 55.000 0.00 0.00 39.70 2.92
1827 2261 0.182299 GGCTTAGGCTCTGGCTTCAT 59.818 55.000 0.00 0.00 39.70 2.57
1828 2262 1.200760 TGGCTTAGGCTCTGGCTTCA 61.201 55.000 7.43 0.00 39.70 3.02
1829 2263 0.035056 TTGGCTTAGGCTCTGGCTTC 60.035 55.000 7.43 0.00 39.70 3.86
1830 2264 0.627986 ATTGGCTTAGGCTCTGGCTT 59.372 50.000 7.43 0.00 39.70 4.35
1831 2265 0.106819 CATTGGCTTAGGCTCTGGCT 60.107 55.000 7.43 0.00 42.39 4.75
1832 2266 1.732417 GCATTGGCTTAGGCTCTGGC 61.732 60.000 7.43 0.00 38.73 4.85
1833 2267 1.105759 GGCATTGGCTTAGGCTCTGG 61.106 60.000 7.43 0.00 40.87 3.86
1834 2268 0.394762 TGGCATTGGCTTAGGCTCTG 60.395 55.000 11.84 5.65 40.87 3.35
1835 2269 0.332632 TTGGCATTGGCTTAGGCTCT 59.667 50.000 11.84 0.00 40.87 4.09
1836 2270 1.135721 CTTTGGCATTGGCTTAGGCTC 59.864 52.381 11.84 0.00 40.87 4.70
1837 2271 1.188863 CTTTGGCATTGGCTTAGGCT 58.811 50.000 11.84 0.00 40.87 4.58
1838 2272 0.460811 GCTTTGGCATTGGCTTAGGC 60.461 55.000 11.84 0.00 40.87 3.93
1839 2273 0.176449 GGCTTTGGCATTGGCTTAGG 59.824 55.000 11.84 1.78 40.87 2.69
1840 2274 0.179129 CGGCTTTGGCATTGGCTTAG 60.179 55.000 11.84 9.30 40.87 2.18
1841 2275 1.603236 CCGGCTTTGGCATTGGCTTA 61.603 55.000 11.84 0.00 40.87 3.09
1842 2276 2.658422 CGGCTTTGGCATTGGCTT 59.342 55.556 11.84 0.00 40.87 4.35
1853 2470 2.671963 GGCTTCGGTTCCGGCTTT 60.672 61.111 11.37 0.00 0.00 3.51
1859 2476 2.436824 GGCTCTGGCTTCGGTTCC 60.437 66.667 0.00 0.00 38.73 3.62
1900 2517 2.592861 GCATAGGCTTGGGCTCGG 60.593 66.667 0.00 0.00 39.70 4.63
1901 2518 2.592861 GGCATAGGCTTGGGCTCG 60.593 66.667 0.00 0.00 39.70 5.03
1902 2519 2.592861 CGGCATAGGCTTGGGCTC 60.593 66.667 0.00 0.00 39.70 4.70
1903 2520 2.615227 CTTCGGCATAGGCTTGGGCT 62.615 60.000 0.00 0.00 42.39 5.19
1904 2521 2.124320 TTCGGCATAGGCTTGGGC 60.124 61.111 0.00 0.00 40.87 5.36
1905 2522 2.189499 GCTTCGGCATAGGCTTGGG 61.189 63.158 0.00 0.00 41.33 4.12
1906 2523 2.189499 GGCTTCGGCATAGGCTTGG 61.189 63.158 0.00 0.00 43.96 3.61
1907 2524 1.442526 CTGGCTTCGGCATAGGCTTG 61.443 60.000 0.00 0.00 43.96 4.01
1908 2525 1.153086 CTGGCTTCGGCATAGGCTT 60.153 57.895 0.00 0.00 43.96 4.35
1909 2526 2.037620 CTCTGGCTTCGGCATAGGCT 62.038 60.000 0.00 0.00 43.96 4.58
1910 2527 1.596477 CTCTGGCTTCGGCATAGGC 60.596 63.158 0.00 0.00 43.96 3.93
1911 2528 1.596477 GCTCTGGCTTCGGCATAGG 60.596 63.158 5.27 0.00 43.96 2.57
1912 2529 1.596477 GGCTCTGGCTTCGGCATAG 60.596 63.158 0.00 0.00 43.96 2.23
1913 2530 2.505982 GGCTCTGGCTTCGGCATA 59.494 61.111 0.00 0.00 43.96 3.14
1914 2531 4.496336 GGGCTCTGGCTTCGGCAT 62.496 66.667 0.00 0.00 43.96 4.40
1916 2533 4.722700 TTGGGCTCTGGCTTCGGC 62.723 66.667 0.00 0.00 38.73 5.54
1917 2534 2.034066 TTTGGGCTCTGGCTTCGG 59.966 61.111 0.00 0.00 38.73 4.30
1918 2535 2.335712 GGTTTGGGCTCTGGCTTCG 61.336 63.158 0.00 0.00 38.73 3.79
1919 2536 1.228552 TGGTTTGGGCTCTGGCTTC 60.229 57.895 0.00 0.00 38.73 3.86
1920 2537 1.228675 CTGGTTTGGGCTCTGGCTT 60.229 57.895 0.00 0.00 38.73 4.35
1921 2538 2.134630 CTCTGGTTTGGGCTCTGGCT 62.135 60.000 0.00 0.00 38.73 4.75
1922 2539 1.676967 CTCTGGTTTGGGCTCTGGC 60.677 63.158 0.00 0.00 37.82 4.85
1923 2540 1.676967 GCTCTGGTTTGGGCTCTGG 60.677 63.158 0.00 0.00 0.00 3.86
1924 2541 1.676967 GGCTCTGGTTTGGGCTCTG 60.677 63.158 0.00 0.00 0.00 3.35
1925 2542 2.759795 GGCTCTGGTTTGGGCTCT 59.240 61.111 0.00 0.00 0.00 4.09
1926 2543 2.543067 ATCGGCTCTGGTTTGGGCTC 62.543 60.000 0.00 0.00 0.00 4.70
1927 2544 2.606587 ATCGGCTCTGGTTTGGGCT 61.607 57.895 0.00 0.00 0.00 5.19
1928 2545 2.044946 ATCGGCTCTGGTTTGGGC 60.045 61.111 0.00 0.00 0.00 5.36
1929 2546 2.409870 GCATCGGCTCTGGTTTGGG 61.410 63.158 0.00 0.00 36.96 4.12
1930 2547 2.409870 GGCATCGGCTCTGGTTTGG 61.410 63.158 0.00 0.00 40.87 3.28
1931 2548 1.243342 TTGGCATCGGCTCTGGTTTG 61.243 55.000 0.00 0.00 40.87 2.93
1932 2549 0.539438 TTTGGCATCGGCTCTGGTTT 60.539 50.000 0.00 0.00 40.87 3.27
1933 2550 0.962356 CTTTGGCATCGGCTCTGGTT 60.962 55.000 0.00 0.00 40.87 3.67
1934 2551 1.377725 CTTTGGCATCGGCTCTGGT 60.378 57.895 0.00 0.00 40.87 4.00
1935 2552 2.768492 GCTTTGGCATCGGCTCTGG 61.768 63.158 0.00 0.00 40.87 3.86
1936 2553 2.768492 GGCTTTGGCATCGGCTCTG 61.768 63.158 0.00 0.00 40.87 3.35
1937 2554 2.439156 GGCTTTGGCATCGGCTCT 60.439 61.111 0.00 0.00 40.87 4.09
1938 2555 2.751436 TGGCTTTGGCATCGGCTC 60.751 61.111 10.56 1.80 40.87 4.70
1939 2556 2.753043 CTGGCTTTGGCATCGGCT 60.753 61.111 10.56 0.00 40.87 5.52
1940 2557 2.751436 TCTGGCTTTGGCATCGGC 60.751 61.111 0.00 0.00 40.87 5.54
1941 2558 2.768492 GCTCTGGCTTTGGCATCGG 61.768 63.158 0.00 0.00 40.87 4.18
1942 2559 2.768492 GGCTCTGGCTTTGGCATCG 61.768 63.158 0.00 0.00 40.87 3.84
1943 2560 0.107017 TAGGCTCTGGCTTTGGCATC 60.107 55.000 0.00 0.00 39.70 3.91
1944 2561 0.332632 TTAGGCTCTGGCTTTGGCAT 59.667 50.000 0.00 0.00 39.70 4.40
1945 2562 0.322816 CTTAGGCTCTGGCTTTGGCA 60.323 55.000 0.00 0.00 39.70 4.92
1946 2563 1.661498 GCTTAGGCTCTGGCTTTGGC 61.661 60.000 0.00 0.00 39.70 4.52
1947 2564 1.034292 GGCTTAGGCTCTGGCTTTGG 61.034 60.000 0.00 0.00 39.70 3.28
1948 2565 1.034292 GGGCTTAGGCTCTGGCTTTG 61.034 60.000 5.62 0.00 39.70 2.77
1949 2566 1.304617 GGGCTTAGGCTCTGGCTTT 59.695 57.895 5.62 0.00 39.70 3.51
1950 2567 3.002371 GGGCTTAGGCTCTGGCTT 58.998 61.111 5.62 0.00 39.70 4.35
1951 2568 3.474570 CGGGCTTAGGCTCTGGCT 61.475 66.667 5.62 0.00 42.39 4.75
1952 2569 3.031417 TTCGGGCTTAGGCTCTGGC 62.031 63.158 5.62 0.00 36.65 4.85
1953 2570 1.153349 GTTCGGGCTTAGGCTCTGG 60.153 63.158 5.62 0.00 36.65 3.86
1994 2611 0.172578 GTTTAGGCATTGGTTCGGGC 59.827 55.000 0.00 0.00 0.00 6.13
1995 2612 0.815095 GGTTTAGGCATTGGTTCGGG 59.185 55.000 0.00 0.00 0.00 5.14
1996 2613 1.472480 CTGGTTTAGGCATTGGTTCGG 59.528 52.381 0.00 0.00 0.00 4.30
1997 2614 2.420022 CTCTGGTTTAGGCATTGGTTCG 59.580 50.000 0.00 0.00 0.00 3.95
1998 2615 2.164422 GCTCTGGTTTAGGCATTGGTTC 59.836 50.000 0.00 0.00 0.00 3.62
2069 2686 2.759795 GGAGGTGGCTCTGGCTTT 59.240 61.111 0.00 0.00 38.73 3.51
2173 2790 9.587772 TTATTCTAGAATCTAGAAACAGCACAC 57.412 33.333 29.57 0.00 37.15 3.82
2180 2798 7.921745 ACGCCACTTATTCTAGAATCTAGAAAC 59.078 37.037 29.57 15.28 37.15 2.78
2182 2800 7.584122 ACGCCACTTATTCTAGAATCTAGAA 57.416 36.000 28.49 28.49 37.87 2.10
2183 2801 7.937942 ACTACGCCACTTATTCTAGAATCTAGA 59.062 37.037 21.17 15.47 32.50 2.43
2184 2802 8.101654 ACTACGCCACTTATTCTAGAATCTAG 57.898 38.462 21.17 19.77 32.50 2.43
2185 2803 9.736414 ATACTACGCCACTTATTCTAGAATCTA 57.264 33.333 21.17 10.10 32.50 1.98
2186 2804 6.963083 ACTACGCCACTTATTCTAGAATCT 57.037 37.500 21.17 2.37 32.50 2.40
2187 2805 7.969508 GGATACTACGCCACTTATTCTAGAATC 59.030 40.741 21.17 5.48 32.50 2.52
2188 2806 7.361885 CGGATACTACGCCACTTATTCTAGAAT 60.362 40.741 21.28 21.28 34.93 2.40
2255 2887 4.850680 ACTAAAAGGAATGGCGGAACATA 58.149 39.130 0.00 0.00 0.00 2.29
2256 2888 3.697166 ACTAAAAGGAATGGCGGAACAT 58.303 40.909 0.00 0.00 0.00 2.71
2258 2890 4.217767 AGAAACTAAAAGGAATGGCGGAAC 59.782 41.667 0.00 0.00 0.00 3.62
2391 3028 7.721286 AATGTGTTTTCCATGCGAATAAAAA 57.279 28.000 0.00 0.00 0.00 1.94
2401 3038 5.277442 GCTGGACAAAAATGTGTTTTCCATG 60.277 40.000 0.00 0.00 36.55 3.66
2402 3039 4.815846 GCTGGACAAAAATGTGTTTTCCAT 59.184 37.500 0.00 0.00 36.55 3.41
2405 3042 3.245048 CCGCTGGACAAAAATGTGTTTTC 59.755 43.478 0.00 0.00 36.55 2.29
2407 3044 2.428890 TCCGCTGGACAAAAATGTGTTT 59.571 40.909 0.00 0.00 0.00 2.83
2408 3045 2.028130 TCCGCTGGACAAAAATGTGTT 58.972 42.857 0.00 0.00 0.00 3.32
2450 3090 3.504863 CGCCCATGAAAGAAATCACAAG 58.495 45.455 0.00 0.00 30.82 3.16
2453 3093 1.202114 TGCGCCCATGAAAGAAATCAC 59.798 47.619 4.18 0.00 30.82 3.06
2454 3094 1.202114 GTGCGCCCATGAAAGAAATCA 59.798 47.619 4.18 0.00 0.00 2.57
2455 3095 1.469767 GGTGCGCCCATGAAAGAAATC 60.470 52.381 4.45 0.00 0.00 2.17
2456 3096 0.532115 GGTGCGCCCATGAAAGAAAT 59.468 50.000 4.45 0.00 0.00 2.17
2478 3122 2.889045 CAGTGGAAGAATATGGGCATGG 59.111 50.000 0.00 0.00 0.00 3.66
2486 3132 5.046591 TCAAGACGAACCAGTGGAAGAATAT 60.047 40.000 18.40 0.00 0.00 1.28
2492 3138 2.035961 CTCTCAAGACGAACCAGTGGAA 59.964 50.000 18.40 0.00 0.00 3.53
2501 3147 2.218953 AAACACGCTCTCAAGACGAA 57.781 45.000 0.00 0.00 0.00 3.85
2508 3154 4.574421 TCATCTTTGAAAAACACGCTCTCA 59.426 37.500 0.00 0.00 0.00 3.27
2512 3160 3.550842 GGCTCATCTTTGAAAAACACGCT 60.551 43.478 0.00 0.00 0.00 5.07
2513 3161 2.726241 GGCTCATCTTTGAAAAACACGC 59.274 45.455 0.00 0.00 0.00 5.34
2514 3162 3.308530 GGGCTCATCTTTGAAAAACACG 58.691 45.455 0.00 0.00 0.00 4.49
2527 3175 2.017049 ACAAGCATTTACGGGCTCATC 58.983 47.619 0.00 0.00 40.01 2.92
2529 3177 1.164411 CACAAGCATTTACGGGCTCA 58.836 50.000 0.00 0.00 40.01 4.26
2571 3220 3.281240 CCATCACCTGTTGCTGGC 58.719 61.111 0.00 0.00 34.72 4.85
2629 3278 6.347061 AGATAGGATTCTTGGGGAATTTGT 57.653 37.500 0.00 0.00 43.90 2.83
2789 3444 9.787435 TGGAACCGCAGATATATTTTAGTATTT 57.213 29.630 0.00 0.00 0.00 1.40
2790 3445 9.959721 ATGGAACCGCAGATATATTTTAGTATT 57.040 29.630 0.00 0.00 0.00 1.89
2899 3591 3.754188 ATCACTCTGAAAAATGCGCTC 57.246 42.857 9.73 0.00 0.00 5.03


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

AutoCloner maintained by Alex Coulton.