Multiple sequence alignment - TraesCS6A01G222200

Loading Multiple Alignment...

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 TraesCS6A01G222200 chr6A 100.000 2531 0 0 1 2531 415097272 415099802 0.000000e+00 4674.0
1 TraesCS6A01G222200 chr6A 82.877 146 9 7 2014 2158 607391733 607391863 1.590000e-22 117.0
2 TraesCS6A01G222200 chr6A 94.118 68 3 1 2465 2531 187971535 187971468 4.450000e-18 102.0
3 TraesCS6A01G222200 chr6A 82.192 73 10 3 2461 2531 503718138 503718209 2.720000e-05 60.2
4 TraesCS6A01G222200 chr6D 93.780 1640 59 14 1 1626 301806190 301804580 0.000000e+00 2423.0
5 TraesCS6A01G222200 chr6D 93.289 596 26 6 1668 2261 301804582 301803999 0.000000e+00 867.0
6 TraesCS6A01G222200 chr6B 93.760 1250 53 8 372 1612 466966532 466967765 0.000000e+00 1853.0
7 TraesCS6A01G222200 chr6B 85.077 717 50 21 1659 2359 466967773 466968448 0.000000e+00 678.0
8 TraesCS6A01G222200 chr6B 92.011 363 17 8 1 363 466966092 466966442 1.350000e-137 499.0
9 TraesCS6A01G222200 chr4D 93.151 219 11 2 1941 2158 307813148 307813363 4.060000e-83 318.0
10 TraesCS6A01G222200 chr4D 95.522 67 3 0 2465 2531 386533152 386533086 9.570000e-20 108.0
11 TraesCS6A01G222200 chr2A 90.230 174 16 1 1986 2158 12176256 12176429 2.530000e-55 226.0
12 TraesCS6A01G222200 chr2A 89.091 165 17 1 1995 2158 47512026 47511862 1.190000e-48 204.0
13 TraesCS6A01G222200 chr2A 85.965 57 8 0 2465 2521 3901442 3901386 7.560000e-06 62.1
14 TraesCS6A01G222200 chr5A 89.080 174 18 1 1986 2158 293863141 293863314 5.480000e-52 215.0
15 TraesCS6A01G222200 chr3B 88.485 165 16 2 1995 2158 450356863 450356701 1.990000e-46 196.0
16 TraesCS6A01G222200 chr3A 92.771 83 4 1 2451 2531 424720969 424721051 4.420000e-23 119.0
17 TraesCS6A01G222200 chr7A 97.015 67 2 0 2465 2531 83364750 83364816 2.060000e-21 113.0
18 TraesCS6A01G222200 chr7A 83.824 68 9 2 2465 2531 401611339 401611273 2.100000e-06 63.9
19 TraesCS6A01G222200 chrUn 82.857 70 6 5 2465 2531 32319197 32319263 9.780000e-05 58.4
20 TraesCS6A01G222200 chr4B 83.607 61 9 1 2462 2521 278428402 278428342 3.520000e-04 56.5
21 TraesCS6A01G222200 chr4B 100.000 28 0 0 2450 2477 207668820 207668793 5.000000e-03 52.8
22 TraesCS6A01G222200 chr4A 100.000 28 0 0 2450 2477 289725109 289725082 5.000000e-03 52.8


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 TraesCS6A01G222200 chr6A 415097272 415099802 2530 False 4674 4674 100.000000 1 2531 1 chr6A.!!$F1 2530
1 TraesCS6A01G222200 chr6D 301803999 301806190 2191 True 1645 2423 93.534500 1 2261 2 chr6D.!!$R1 2260
2 TraesCS6A01G222200 chr6B 466966092 466968448 2356 False 1010 1853 90.282667 1 2359 3 chr6B.!!$F1 2358

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
805 894 0.67996 AACGGCCTTATCCACTTGCC 60.68 55.0 0.0 0.0 38.74 4.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2365 2484 0.036765 ACACGGGCACATTACATCGT 60.037 50.0 0.0 0.0 0.0 3.73 R

All possible primers

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

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 46 2.730715 GCATCCGCTCTAGTCGATCATC 60.731 54.545 8.34 0.00 34.30 2.92
41 47 2.256117 TCCGCTCTAGTCGATCATCA 57.744 50.000 8.34 0.00 0.00 3.07
42 48 2.572290 TCCGCTCTAGTCGATCATCAA 58.428 47.619 8.34 0.00 0.00 2.57
43 49 2.550180 TCCGCTCTAGTCGATCATCAAG 59.450 50.000 8.34 0.00 0.00 3.02
46 52 3.049206 GCTCTAGTCGATCATCAAGCAC 58.951 50.000 0.00 0.00 0.00 4.40
145 153 3.569916 GGCATCGATTGACGCTCTA 57.430 52.632 0.29 0.00 42.26 2.43
148 156 2.410053 GGCATCGATTGACGCTCTAATC 59.590 50.000 0.29 0.00 42.26 1.75
155 163 1.067582 GACGCTCTAATCCGTGGGG 59.932 63.158 0.00 0.00 37.87 4.96
233 241 1.467342 ACGAGCCTTAAATTTGTCGCC 59.533 47.619 0.00 0.00 0.00 5.54
302 310 4.111916 CACATGTACGTCTATGTGCATCA 58.888 43.478 23.55 0.00 45.09 3.07
338 346 2.092838 GCAATTCTACGGATATCGCTGC 59.907 50.000 0.00 0.00 43.89 5.25
341 349 1.324383 TCTACGGATATCGCTGCCAA 58.676 50.000 0.00 0.00 43.89 4.52
368 376 5.972973 CGGATGTTACTAACACGTATGCTTA 59.027 40.000 3.67 0.00 45.50 3.09
435 524 3.152341 GGCCAACTTCCATATGGAGATG 58.848 50.000 23.35 20.87 46.36 2.90
506 595 7.530426 ACAAATTGCCAAGAAACTCTTCTAT 57.470 32.000 0.00 0.00 41.23 1.98
507 596 8.635765 ACAAATTGCCAAGAAACTCTTCTATA 57.364 30.769 0.00 0.00 41.23 1.31
508 597 9.077885 ACAAATTGCCAAGAAACTCTTCTATAA 57.922 29.630 0.00 0.00 41.23 0.98
547 636 3.487574 GCACGGATAAGACTTTCTGATCG 59.512 47.826 11.05 0.00 35.57 3.69
766 855 2.582052 AGCAATCCAAAACGTCAAGGA 58.418 42.857 5.44 5.44 34.12 3.36
803 892 4.202010 CCATAAAACGGCCTTATCCACTTG 60.202 45.833 0.00 0.00 0.00 3.16
805 894 0.679960 AACGGCCTTATCCACTTGCC 60.680 55.000 0.00 0.00 38.74 4.52
829 918 1.273606 CTTTCTGCTCTCGTCCTTCCA 59.726 52.381 0.00 0.00 0.00 3.53
1252 1350 2.434359 GGAAGACGAAGCCGGTGG 60.434 66.667 1.90 0.00 40.78 4.61
1253 1351 2.654877 GAAGACGAAGCCGGTGGA 59.345 61.111 1.90 0.00 40.78 4.02
1254 1352 1.737008 GAAGACGAAGCCGGTGGAC 60.737 63.158 1.90 0.00 40.78 4.02
1255 1353 2.430382 GAAGACGAAGCCGGTGGACA 62.430 60.000 1.90 0.00 40.78 4.02
1256 1354 2.432628 GACGAAGCCGGTGGACAG 60.433 66.667 1.90 0.00 40.78 3.51
1257 1355 3.934391 GACGAAGCCGGTGGACAGG 62.934 68.421 1.90 0.00 40.78 4.00
1258 1356 4.760047 CGAAGCCGGTGGACAGGG 62.760 72.222 1.90 0.00 0.00 4.45
1328 1426 1.214305 TGGTCCAAGATCCTTGGGGG 61.214 60.000 21.51 1.41 39.96 5.40
1329 1427 1.076705 GTCCAAGATCCTTGGGGGC 60.077 63.158 21.51 11.19 39.96 5.80
1531 1629 4.410400 CGGGGTTCCAGGCCTGAC 62.410 72.222 34.91 24.03 0.00 3.51
1532 1630 4.410400 GGGGTTCCAGGCCTGACG 62.410 72.222 34.91 18.52 0.00 4.35
1591 1689 5.296780 AGCTGTTTTCTTTTGACAGATCGAA 59.703 36.000 6.89 0.00 42.54 3.71
1608 1706 3.902150 TCGAATCGGATAAAGCTAGCTG 58.098 45.455 20.16 4.39 0.00 4.24
1619 1717 2.202866 GCTAGCTGCTACTCCCACA 58.797 57.895 7.70 0.00 38.95 4.17
1622 1720 1.827969 CTAGCTGCTACTCCCACAAGT 59.172 52.381 5.02 0.00 0.00 3.16
1623 1721 1.059913 AGCTGCTACTCCCACAAGTT 58.940 50.000 0.00 0.00 0.00 2.66
1625 1723 1.813513 CTGCTACTCCCACAAGTTGG 58.186 55.000 7.96 0.00 46.47 3.77
1632 1730 4.850193 CCACAAGTTGGGCCATCT 57.150 55.556 7.26 9.69 42.54 2.90
1633 1731 3.976704 CCACAAGTTGGGCCATCTA 57.023 52.632 17.19 0.00 42.54 1.98
1634 1732 2.442236 CCACAAGTTGGGCCATCTAT 57.558 50.000 17.19 6.52 42.54 1.98
1635 1733 2.738743 CCACAAGTTGGGCCATCTATT 58.261 47.619 17.19 4.95 42.54 1.73
1636 1734 3.099141 CCACAAGTTGGGCCATCTATTT 58.901 45.455 17.19 0.00 42.54 1.40
1637 1735 3.515104 CCACAAGTTGGGCCATCTATTTT 59.485 43.478 17.19 0.00 42.54 1.82
1638 1736 4.709397 CCACAAGTTGGGCCATCTATTTTA 59.291 41.667 17.19 0.00 42.54 1.52
1639 1737 5.163519 CCACAAGTTGGGCCATCTATTTTAG 60.164 44.000 17.19 6.56 42.54 1.85
1640 1738 5.652014 CACAAGTTGGGCCATCTATTTTAGA 59.348 40.000 17.19 0.00 39.50 2.10
1641 1739 6.152661 CACAAGTTGGGCCATCTATTTTAGAA 59.847 38.462 17.19 0.00 38.50 2.10
1642 1740 6.897413 ACAAGTTGGGCCATCTATTTTAGAAT 59.103 34.615 17.19 0.00 38.50 2.40
1643 1741 6.966534 AGTTGGGCCATCTATTTTAGAATG 57.033 37.500 15.44 0.00 38.50 2.67
1644 1742 5.835280 AGTTGGGCCATCTATTTTAGAATGG 59.165 40.000 15.44 0.00 38.50 3.16
1645 1743 5.661503 TGGGCCATCTATTTTAGAATGGA 57.338 39.130 0.00 0.00 38.50 3.41
1646 1744 5.634118 TGGGCCATCTATTTTAGAATGGAG 58.366 41.667 0.00 0.00 36.39 3.86
1647 1745 5.012893 GGGCCATCTATTTTAGAATGGAGG 58.987 45.833 4.39 0.00 36.39 4.30
1654 1752 7.304497 TCTATTTTAGAATGGAGGGAGTAGC 57.696 40.000 0.00 0.00 30.37 3.58
1655 1753 7.076446 TCTATTTTAGAATGGAGGGAGTAGCT 58.924 38.462 0.00 0.00 30.37 3.32
1656 1754 5.615925 TTTTAGAATGGAGGGAGTAGCTC 57.384 43.478 0.00 0.00 0.00 4.09
1657 1755 1.698506 AGAATGGAGGGAGTAGCTCG 58.301 55.000 0.00 0.00 0.00 5.03
1658 1756 1.063567 AGAATGGAGGGAGTAGCTCGT 60.064 52.381 0.00 0.00 0.00 4.18
1659 1757 2.175069 AGAATGGAGGGAGTAGCTCGTA 59.825 50.000 0.00 0.00 0.00 3.43
1660 1758 2.279935 ATGGAGGGAGTAGCTCGTAG 57.720 55.000 0.00 0.00 0.00 3.51
1661 1759 1.210538 TGGAGGGAGTAGCTCGTAGA 58.789 55.000 0.00 0.00 0.00 2.59
1662 1760 1.562942 TGGAGGGAGTAGCTCGTAGAA 59.437 52.381 0.00 0.00 34.09 2.10
1663 1761 2.223745 GGAGGGAGTAGCTCGTAGAAG 58.776 57.143 0.00 0.00 34.09 2.85
1664 1762 2.421811 GGAGGGAGTAGCTCGTAGAAGT 60.422 54.545 0.00 0.00 34.09 3.01
1665 1763 3.281158 GAGGGAGTAGCTCGTAGAAGTT 58.719 50.000 0.00 0.00 34.09 2.66
1666 1764 3.018149 AGGGAGTAGCTCGTAGAAGTTG 58.982 50.000 0.00 0.00 34.09 3.16
1672 1770 4.763793 AGTAGCTCGTAGAAGTTGTGGTTA 59.236 41.667 0.00 0.00 34.09 2.85
1715 1813 1.501604 GGGGTAGAGAGAGGAGTGGAT 59.498 57.143 0.00 0.00 0.00 3.41
1716 1814 2.593026 GGGTAGAGAGAGGAGTGGATG 58.407 57.143 0.00 0.00 0.00 3.51
1721 1819 1.682854 GAGAGAGGAGTGGATGCTGAG 59.317 57.143 0.00 0.00 0.00 3.35
1786 1884 2.482296 TTCCGGAGAGAACGCGGAAC 62.482 60.000 12.47 0.51 37.53 3.62
1846 1946 2.288763 GCAAGGGATAGAGCAGCTACTC 60.289 54.545 5.76 5.76 36.91 2.59
1847 1947 2.298729 CAAGGGATAGAGCAGCTACTCC 59.701 54.545 10.48 1.57 37.39 3.85
1848 1948 1.786441 AGGGATAGAGCAGCTACTCCT 59.214 52.381 10.48 0.00 37.39 3.69
1849 1949 2.990284 AGGGATAGAGCAGCTACTCCTA 59.010 50.000 10.48 3.38 37.39 2.94
1850 1950 3.086282 GGGATAGAGCAGCTACTCCTAC 58.914 54.545 10.48 0.00 37.39 3.18
1851 1951 3.245122 GGGATAGAGCAGCTACTCCTACT 60.245 52.174 10.48 0.00 37.39 2.57
1867 1967 5.187967 ACTCCTACTGCTAATTGTGCTTACT 59.812 40.000 6.78 0.00 0.00 2.24
1916 2024 1.946768 TCAGTGGGCGACTTTTTCTTG 59.053 47.619 0.00 0.00 29.75 3.02
1923 2031 2.879026 GGCGACTTTTTCTTGGAGAGTT 59.121 45.455 0.00 0.00 0.00 3.01
1982 2090 2.231215 TTGCCAAATTTCACCAACCG 57.769 45.000 0.00 0.00 0.00 4.44
1985 2093 1.496934 CCAAATTTCACCAACCGCAC 58.503 50.000 0.00 0.00 0.00 5.34
1986 2094 1.202463 CCAAATTTCACCAACCGCACA 60.202 47.619 0.00 0.00 0.00 4.57
1987 2095 2.126467 CAAATTTCACCAACCGCACAG 58.874 47.619 0.00 0.00 0.00 3.66
2010 2118 3.971032 AGCGAATATGCCAAAAGCTAC 57.029 42.857 0.00 0.00 44.23 3.58
2066 2179 5.178623 CGGTTGTTACACTATCAGCAAGAAA 59.821 40.000 0.00 0.00 0.00 2.52
2100 2215 0.251354 AGTCACGCCAATGATGCTCT 59.749 50.000 0.00 0.00 0.00 4.09
2101 2216 0.654683 GTCACGCCAATGATGCTCTC 59.345 55.000 0.00 0.00 0.00 3.20
2102 2217 0.807275 TCACGCCAATGATGCTCTCG 60.807 55.000 0.00 0.00 0.00 4.04
2103 2218 1.086067 CACGCCAATGATGCTCTCGT 61.086 55.000 0.00 0.00 0.00 4.18
2104 2219 0.459899 ACGCCAATGATGCTCTCGTA 59.540 50.000 0.00 0.00 0.00 3.43
2105 2220 1.069204 ACGCCAATGATGCTCTCGTAT 59.931 47.619 0.00 0.00 0.00 3.06
2165 2280 6.400568 GTTATTGCCCTGTACTACAACAGTA 58.599 40.000 3.56 0.00 44.45 2.74
2185 2300 4.876107 AGTACAATGGATGGATTGTCGTTC 59.124 41.667 0.00 0.00 43.88 3.95
2188 2303 0.988063 TGGATGGATTGTCGTTCCCA 59.012 50.000 0.00 0.00 31.87 4.37
2189 2304 1.352687 TGGATGGATTGTCGTTCCCAA 59.647 47.619 0.00 0.00 31.87 4.12
2218 2333 2.693591 ACCAGTGGACCGTGTATATCTG 59.306 50.000 18.40 0.00 0.00 2.90
2246 2364 2.456010 CACGTACAAAACTGCCAAACC 58.544 47.619 0.00 0.00 0.00 3.27
2266 2384 7.490079 CCAAACCAAAAACTAAAGTAACAGTCC 59.510 37.037 0.00 0.00 0.00 3.85
2275 2393 7.229581 ACTAAAGTAACAGTCCTAAGGTCAG 57.770 40.000 0.00 0.00 0.00 3.51
2280 2398 2.972348 ACAGTCCTAAGGTCAGGTCAA 58.028 47.619 0.00 0.00 36.99 3.18
2281 2399 2.900546 ACAGTCCTAAGGTCAGGTCAAG 59.099 50.000 0.00 0.00 36.99 3.02
2282 2400 2.900546 CAGTCCTAAGGTCAGGTCAAGT 59.099 50.000 0.00 0.00 36.99 3.16
2283 2401 3.325135 CAGTCCTAAGGTCAGGTCAAGTT 59.675 47.826 0.00 0.00 36.99 2.66
2291 2410 2.952310 GGTCAGGTCAAGTTTTTCAGCT 59.048 45.455 0.00 0.00 0.00 4.24
2334 2453 1.275291 CGTGCCTTCTTCTACCTTCCA 59.725 52.381 0.00 0.00 0.00 3.53
2346 2465 2.166907 ACCTTCCATCATCTCCTCGT 57.833 50.000 0.00 0.00 0.00 4.18
2352 2471 1.758514 ATCATCTCCTCGTGGCGGT 60.759 57.895 0.00 0.00 0.00 5.68
2355 2474 0.389391 CATCTCCTCGTGGCGGTTAT 59.611 55.000 0.00 0.00 0.00 1.89
2359 2478 0.899720 TCCTCGTGGCGGTTATTTCT 59.100 50.000 0.00 0.00 0.00 2.52
2360 2479 1.006832 CCTCGTGGCGGTTATTTCTG 58.993 55.000 0.00 0.00 0.00 3.02
2361 2480 1.674817 CCTCGTGGCGGTTATTTCTGT 60.675 52.381 0.00 0.00 0.00 3.41
2362 2481 1.659098 CTCGTGGCGGTTATTTCTGTC 59.341 52.381 0.00 0.00 0.00 3.51
2363 2482 0.368907 CGTGGCGGTTATTTCTGTCG 59.631 55.000 0.00 0.00 0.00 4.35
2364 2483 0.096454 GTGGCGGTTATTTCTGTCGC 59.904 55.000 0.00 0.00 44.80 5.19
2365 2484 0.320858 TGGCGGTTATTTCTGTCGCA 60.321 50.000 8.22 0.00 46.95 5.10
2366 2485 0.096454 GGCGGTTATTTCTGTCGCAC 59.904 55.000 8.22 0.00 46.95 5.34
2367 2486 0.247145 GCGGTTATTTCTGTCGCACG 60.247 55.000 0.00 0.00 44.87 5.34
2368 2487 1.342555 CGGTTATTTCTGTCGCACGA 58.657 50.000 0.00 0.00 0.00 4.35
2369 2488 1.924524 CGGTTATTTCTGTCGCACGAT 59.075 47.619 0.00 0.00 0.00 3.73
2370 2489 2.285026 CGGTTATTTCTGTCGCACGATG 60.285 50.000 0.00 0.00 0.00 3.84
2371 2490 2.671396 GGTTATTTCTGTCGCACGATGT 59.329 45.455 0.00 0.00 0.00 3.06
2372 2491 3.861113 GGTTATTTCTGTCGCACGATGTA 59.139 43.478 0.00 0.00 0.00 2.29
2373 2492 4.327898 GGTTATTTCTGTCGCACGATGTAA 59.672 41.667 0.00 0.00 0.00 2.41
2374 2493 5.006358 GGTTATTTCTGTCGCACGATGTAAT 59.994 40.000 0.00 1.90 0.00 1.89
2375 2494 3.989705 TTTCTGTCGCACGATGTAATG 57.010 42.857 0.00 0.00 0.00 1.90
2376 2495 2.647529 TCTGTCGCACGATGTAATGT 57.352 45.000 0.00 0.00 0.00 2.71
2377 2496 2.258755 TCTGTCGCACGATGTAATGTG 58.741 47.619 0.00 0.00 39.10 3.21
2382 2501 2.762360 CACGATGTAATGTGCCCGT 58.238 52.632 0.00 0.00 0.00 5.28
2383 2502 0.373370 CACGATGTAATGTGCCCGTG 59.627 55.000 0.00 0.00 40.70 4.94
2384 2503 0.036765 ACGATGTAATGTGCCCGTGT 60.037 50.000 0.00 0.00 0.00 4.49
2385 2504 1.205179 ACGATGTAATGTGCCCGTGTA 59.795 47.619 0.00 0.00 0.00 2.90
2386 2505 2.272678 CGATGTAATGTGCCCGTGTAA 58.727 47.619 0.00 0.00 0.00 2.41
2387 2506 2.869801 CGATGTAATGTGCCCGTGTAAT 59.130 45.455 0.00 0.00 0.00 1.89
2388 2507 3.311322 CGATGTAATGTGCCCGTGTAATT 59.689 43.478 0.00 0.00 0.00 1.40
2389 2508 4.508492 CGATGTAATGTGCCCGTGTAATTA 59.492 41.667 0.00 0.00 0.00 1.40
2390 2509 5.178623 CGATGTAATGTGCCCGTGTAATTAT 59.821 40.000 0.00 0.00 0.00 1.28
2391 2510 5.743026 TGTAATGTGCCCGTGTAATTATG 57.257 39.130 0.00 0.00 0.00 1.90
2392 2511 5.186942 TGTAATGTGCCCGTGTAATTATGT 58.813 37.500 0.00 0.00 0.00 2.29
2393 2512 5.648526 TGTAATGTGCCCGTGTAATTATGTT 59.351 36.000 0.00 0.00 0.00 2.71
2394 2513 4.893424 ATGTGCCCGTGTAATTATGTTC 57.107 40.909 0.00 0.00 0.00 3.18
2395 2514 3.011119 TGTGCCCGTGTAATTATGTTCC 58.989 45.455 0.00 0.00 0.00 3.62
2396 2515 3.011119 GTGCCCGTGTAATTATGTTCCA 58.989 45.455 0.00 0.00 0.00 3.53
2397 2516 3.011119 TGCCCGTGTAATTATGTTCCAC 58.989 45.455 0.00 0.00 0.00 4.02
2398 2517 2.356695 GCCCGTGTAATTATGTTCCACC 59.643 50.000 0.00 0.00 0.00 4.61
2399 2518 2.946990 CCCGTGTAATTATGTTCCACCC 59.053 50.000 0.00 0.00 0.00 4.61
2400 2519 3.371166 CCCGTGTAATTATGTTCCACCCT 60.371 47.826 0.00 0.00 0.00 4.34
2401 2520 4.141665 CCCGTGTAATTATGTTCCACCCTA 60.142 45.833 0.00 0.00 0.00 3.53
2402 2521 5.430007 CCGTGTAATTATGTTCCACCCTAA 58.570 41.667 0.00 0.00 0.00 2.69
2403 2522 5.881443 CCGTGTAATTATGTTCCACCCTAAA 59.119 40.000 0.00 0.00 0.00 1.85
2404 2523 6.374894 CCGTGTAATTATGTTCCACCCTAAAA 59.625 38.462 0.00 0.00 0.00 1.52
2405 2524 7.094291 CCGTGTAATTATGTTCCACCCTAAAAA 60.094 37.037 0.00 0.00 0.00 1.94
2436 2555 3.636282 AAGTTTGTTCCACGTTATGCC 57.364 42.857 0.00 0.00 0.00 4.40
2437 2556 1.883926 AGTTTGTTCCACGTTATGCCC 59.116 47.619 0.00 0.00 0.00 5.36
2438 2557 1.883926 GTTTGTTCCACGTTATGCCCT 59.116 47.619 0.00 0.00 0.00 5.19
2439 2558 1.529226 TTGTTCCACGTTATGCCCTG 58.471 50.000 0.00 0.00 0.00 4.45
2440 2559 0.687920 TGTTCCACGTTATGCCCTGA 59.312 50.000 0.00 0.00 0.00 3.86
2441 2560 1.084289 GTTCCACGTTATGCCCTGAC 58.916 55.000 0.00 0.00 0.00 3.51
2442 2561 0.981183 TTCCACGTTATGCCCTGACT 59.019 50.000 0.00 0.00 0.00 3.41
2443 2562 0.535335 TCCACGTTATGCCCTGACTC 59.465 55.000 0.00 0.00 0.00 3.36
2444 2563 0.462047 CCACGTTATGCCCTGACTCC 60.462 60.000 0.00 0.00 0.00 3.85
2445 2564 0.537188 CACGTTATGCCCTGACTCCT 59.463 55.000 0.00 0.00 0.00 3.69
2446 2565 1.066143 CACGTTATGCCCTGACTCCTT 60.066 52.381 0.00 0.00 0.00 3.36
2447 2566 1.628846 ACGTTATGCCCTGACTCCTTT 59.371 47.619 0.00 0.00 0.00 3.11
2448 2567 2.009774 CGTTATGCCCTGACTCCTTTG 58.990 52.381 0.00 0.00 0.00 2.77
2449 2568 1.745653 GTTATGCCCTGACTCCTTTGC 59.254 52.381 0.00 0.00 0.00 3.68
2450 2569 0.991146 TATGCCCTGACTCCTTTGCA 59.009 50.000 0.00 0.00 0.00 4.08
2451 2570 0.333993 ATGCCCTGACTCCTTTGCAT 59.666 50.000 0.00 0.00 34.81 3.96
2452 2571 0.991146 TGCCCTGACTCCTTTGCATA 59.009 50.000 0.00 0.00 0.00 3.14
2453 2572 1.565759 TGCCCTGACTCCTTTGCATAT 59.434 47.619 0.00 0.00 0.00 1.78
2454 2573 2.225467 GCCCTGACTCCTTTGCATATC 58.775 52.381 0.00 0.00 0.00 1.63
2455 2574 2.158696 GCCCTGACTCCTTTGCATATCT 60.159 50.000 0.00 0.00 0.00 1.98
2456 2575 3.686691 GCCCTGACTCCTTTGCATATCTT 60.687 47.826 0.00 0.00 0.00 2.40
2457 2576 4.530875 CCCTGACTCCTTTGCATATCTTT 58.469 43.478 0.00 0.00 0.00 2.52
2458 2577 4.578105 CCCTGACTCCTTTGCATATCTTTC 59.422 45.833 0.00 0.00 0.00 2.62
2459 2578 4.578105 CCTGACTCCTTTGCATATCTTTCC 59.422 45.833 0.00 0.00 0.00 3.13
2460 2579 4.526970 TGACTCCTTTGCATATCTTTCCC 58.473 43.478 0.00 0.00 0.00 3.97
2461 2580 4.228210 TGACTCCTTTGCATATCTTTCCCT 59.772 41.667 0.00 0.00 0.00 4.20
2462 2581 5.428457 TGACTCCTTTGCATATCTTTCCCTA 59.572 40.000 0.00 0.00 0.00 3.53
2463 2582 6.069673 TGACTCCTTTGCATATCTTTCCCTAA 60.070 38.462 0.00 0.00 0.00 2.69
2464 2583 6.915786 ACTCCTTTGCATATCTTTCCCTAAT 58.084 36.000 0.00 0.00 0.00 1.73
2465 2584 8.045720 ACTCCTTTGCATATCTTTCCCTAATA 57.954 34.615 0.00 0.00 0.00 0.98
2466 2585 8.502738 ACTCCTTTGCATATCTTTCCCTAATAA 58.497 33.333 0.00 0.00 0.00 1.40
2467 2586 9.525826 CTCCTTTGCATATCTTTCCCTAATAAT 57.474 33.333 0.00 0.00 0.00 1.28
2497 2616 5.835911 CAGATATTGCTTCTGGTCATACG 57.164 43.478 0.00 0.00 37.53 3.06
2498 2617 5.292765 CAGATATTGCTTCTGGTCATACGT 58.707 41.667 0.00 0.00 37.53 3.57
2499 2618 5.403766 CAGATATTGCTTCTGGTCATACGTC 59.596 44.000 0.00 0.00 37.53 4.34
2500 2619 3.610040 ATTGCTTCTGGTCATACGTCA 57.390 42.857 0.00 0.00 0.00 4.35
2501 2620 3.610040 TTGCTTCTGGTCATACGTCAT 57.390 42.857 0.00 0.00 0.00 3.06
2502 2621 3.610040 TGCTTCTGGTCATACGTCATT 57.390 42.857 0.00 0.00 0.00 2.57
2503 2622 3.521560 TGCTTCTGGTCATACGTCATTC 58.478 45.455 0.00 0.00 0.00 2.67
2504 2623 3.056179 TGCTTCTGGTCATACGTCATTCA 60.056 43.478 0.00 0.00 0.00 2.57
2505 2624 3.932710 GCTTCTGGTCATACGTCATTCAA 59.067 43.478 0.00 0.00 0.00 2.69
2506 2625 4.391830 GCTTCTGGTCATACGTCATTCAAA 59.608 41.667 0.00 0.00 0.00 2.69
2507 2626 5.065218 GCTTCTGGTCATACGTCATTCAAAT 59.935 40.000 0.00 0.00 0.00 2.32
2508 2627 6.403636 GCTTCTGGTCATACGTCATTCAAATT 60.404 38.462 0.00 0.00 0.00 1.82
2509 2628 7.201609 GCTTCTGGTCATACGTCATTCAAATTA 60.202 37.037 0.00 0.00 0.00 1.40
2510 2629 7.534085 TCTGGTCATACGTCATTCAAATTAC 57.466 36.000 0.00 0.00 0.00 1.89
2511 2630 6.537301 TCTGGTCATACGTCATTCAAATTACC 59.463 38.462 0.00 0.00 0.00 2.85
2512 2631 5.587043 TGGTCATACGTCATTCAAATTACCC 59.413 40.000 0.00 0.00 0.00 3.69
2513 2632 5.820947 GGTCATACGTCATTCAAATTACCCT 59.179 40.000 0.00 0.00 0.00 4.34
2514 2633 6.317893 GGTCATACGTCATTCAAATTACCCTT 59.682 38.462 0.00 0.00 0.00 3.95
2515 2634 7.186804 GTCATACGTCATTCAAATTACCCTTG 58.813 38.462 0.00 0.00 0.00 3.61
2516 2635 7.065324 GTCATACGTCATTCAAATTACCCTTGA 59.935 37.037 0.00 0.00 0.00 3.02
2517 2636 7.608376 TCATACGTCATTCAAATTACCCTTGAA 59.392 33.333 0.00 0.87 44.55 2.69
2518 2637 6.254281 ACGTCATTCAAATTACCCTTGAAG 57.746 37.500 4.53 0.00 43.89 3.02
2519 2638 5.768164 ACGTCATTCAAATTACCCTTGAAGT 59.232 36.000 4.53 0.00 43.89 3.01
2520 2639 6.264518 ACGTCATTCAAATTACCCTTGAAGTT 59.735 34.615 4.53 0.00 43.89 2.66
2521 2640 7.446013 ACGTCATTCAAATTACCCTTGAAGTTA 59.554 33.333 4.53 0.00 43.89 2.24
2522 2641 7.962918 CGTCATTCAAATTACCCTTGAAGTTAG 59.037 37.037 4.53 0.00 43.89 2.34
2523 2642 7.755373 GTCATTCAAATTACCCTTGAAGTTAGC 59.245 37.037 4.53 0.00 43.89 3.09
2524 2643 5.873179 TCAAATTACCCTTGAAGTTAGCG 57.127 39.130 0.00 0.00 29.93 4.26
2525 2644 5.553123 TCAAATTACCCTTGAAGTTAGCGA 58.447 37.500 0.00 0.00 29.93 4.93
2526 2645 5.998981 TCAAATTACCCTTGAAGTTAGCGAA 59.001 36.000 0.00 0.00 29.93 4.70
2527 2646 6.487331 TCAAATTACCCTTGAAGTTAGCGAAA 59.513 34.615 0.00 0.00 29.93 3.46
2528 2647 6.887626 AATTACCCTTGAAGTTAGCGAAAA 57.112 33.333 0.00 0.00 0.00 2.29
2529 2648 7.462571 AATTACCCTTGAAGTTAGCGAAAAT 57.537 32.000 0.00 0.00 0.00 1.82
2530 2649 6.887626 TTACCCTTGAAGTTAGCGAAAATT 57.112 33.333 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
145 153 1.076014 GTCCCAAACCCCACGGATT 59.924 57.895 0.00 0.00 0.00 3.01
155 163 1.899617 CCATGCATGGGTCCCAAAC 59.100 57.895 34.31 10.73 44.31 2.93
233 241 0.662619 TTGCACACCAGCTTTTCTCG 59.337 50.000 0.00 0.00 34.99 4.04
324 332 1.872237 GCTTTGGCAGCGATATCCGTA 60.872 52.381 0.00 0.00 39.29 4.02
326 334 1.571460 GCTTTGGCAGCGATATCCG 59.429 57.895 0.00 0.00 39.29 4.18
338 346 3.181524 CGTGTTAGTAACATCCGCTTTGG 60.182 47.826 18.35 0.00 44.35 3.28
341 349 3.308438 ACGTGTTAGTAACATCCGCTT 57.692 42.857 18.35 1.92 44.35 4.68
368 376 6.065976 TCATCCTGGTTGACATCTTTACAT 57.934 37.500 3.33 0.00 0.00 2.29
435 524 5.511729 GCGATTAATAGCAAGTGTTTGTTCC 59.488 40.000 14.80 0.00 36.65 3.62
476 565 5.594926 AGTTTCTTGGCAATTTGTTCTCTG 58.405 37.500 0.00 0.00 0.00 3.35
506 595 2.680429 CGCGCCCGGAAACTAATTA 58.320 52.632 0.73 0.00 0.00 1.40
507 596 3.493213 CGCGCCCGGAAACTAATT 58.507 55.556 0.73 0.00 0.00 1.40
547 636 1.394917 CGCAGCAATTCAGTCCTACAC 59.605 52.381 0.00 0.00 0.00 2.90
588 677 1.861982 AACGTAGTGGGCCTAGTGAT 58.138 50.000 6.72 0.00 45.00 3.06
701 790 3.933048 CTGCCAGCTGGGTCCCAAG 62.933 68.421 33.46 12.59 39.65 3.61
730 819 5.714806 TGGATTGCTACGTGGATGATATCTA 59.285 40.000 1.81 0.00 0.00 1.98
829 918 2.038952 TGCGCTGGGATTTATATGAGCT 59.961 45.455 9.73 0.00 0.00 4.09
1038 1136 3.116531 GGCGCGAAGTGGTGGTAC 61.117 66.667 12.10 0.00 39.19 3.34
1157 1255 1.079057 GGTTGTTCGGCCTCCTCTC 60.079 63.158 0.00 0.00 0.00 3.20
1328 1426 4.468689 GGTGCCCCTGGTACTCGC 62.469 72.222 1.42 0.00 38.37 5.03
1329 1427 3.000819 TGGTGCCCCTGGTACTCG 61.001 66.667 1.42 0.00 38.37 4.18
1515 1613 4.410400 CGTCAGGCCTGGAACCCC 62.410 72.222 32.23 12.20 0.00 4.95
1616 1714 4.806640 AAAATAGATGGCCCAACTTGTG 57.193 40.909 0.00 0.00 0.00 3.33
1617 1715 5.826643 TCTAAAATAGATGGCCCAACTTGT 58.173 37.500 0.00 0.00 0.00 3.16
1619 1717 6.324770 CCATTCTAAAATAGATGGCCCAACTT 59.675 38.462 0.00 0.00 34.22 2.66
1622 1720 6.024563 TCCATTCTAAAATAGATGGCCCAA 57.975 37.500 0.00 0.00 35.39 4.12
1623 1721 5.458069 CCTCCATTCTAAAATAGATGGCCCA 60.458 44.000 0.00 0.00 35.39 5.36
1625 1723 5.012893 CCCTCCATTCTAAAATAGATGGCC 58.987 45.833 0.00 0.00 35.39 5.36
1626 1724 5.880901 TCCCTCCATTCTAAAATAGATGGC 58.119 41.667 0.00 0.00 35.39 4.40
1627 1725 7.084268 ACTCCCTCCATTCTAAAATAGATGG 57.916 40.000 0.00 0.00 36.07 3.51
1628 1726 7.821846 GCTACTCCCTCCATTCTAAAATAGATG 59.178 40.741 0.00 0.00 34.22 2.90
1629 1727 7.737149 AGCTACTCCCTCCATTCTAAAATAGAT 59.263 37.037 0.00 0.00 34.22 1.98
1630 1728 7.076446 AGCTACTCCCTCCATTCTAAAATAGA 58.924 38.462 0.00 0.00 0.00 1.98
1631 1729 7.309770 AGCTACTCCCTCCATTCTAAAATAG 57.690 40.000 0.00 0.00 0.00 1.73
1632 1730 6.015350 CGAGCTACTCCCTCCATTCTAAAATA 60.015 42.308 0.00 0.00 0.00 1.40
1633 1731 5.221541 CGAGCTACTCCCTCCATTCTAAAAT 60.222 44.000 0.00 0.00 0.00 1.82
1634 1732 4.099573 CGAGCTACTCCCTCCATTCTAAAA 59.900 45.833 0.00 0.00 0.00 1.52
1635 1733 3.637229 CGAGCTACTCCCTCCATTCTAAA 59.363 47.826 0.00 0.00 0.00 1.85
1636 1734 3.223435 CGAGCTACTCCCTCCATTCTAA 58.777 50.000 0.00 0.00 0.00 2.10
1637 1735 2.175069 ACGAGCTACTCCCTCCATTCTA 59.825 50.000 0.00 0.00 0.00 2.10
1638 1736 1.063567 ACGAGCTACTCCCTCCATTCT 60.064 52.381 0.00 0.00 0.00 2.40
1639 1737 1.404843 ACGAGCTACTCCCTCCATTC 58.595 55.000 0.00 0.00 0.00 2.67
1640 1738 2.175069 TCTACGAGCTACTCCCTCCATT 59.825 50.000 0.00 0.00 0.00 3.16
1641 1739 1.775459 TCTACGAGCTACTCCCTCCAT 59.225 52.381 0.00 0.00 0.00 3.41
1642 1740 1.210538 TCTACGAGCTACTCCCTCCA 58.789 55.000 0.00 0.00 0.00 3.86
1643 1741 2.223745 CTTCTACGAGCTACTCCCTCC 58.776 57.143 0.00 0.00 0.00 4.30
1644 1742 2.921821 ACTTCTACGAGCTACTCCCTC 58.078 52.381 0.00 0.00 0.00 4.30
1645 1743 3.018149 CAACTTCTACGAGCTACTCCCT 58.982 50.000 0.00 0.00 0.00 4.20
1646 1744 2.754002 ACAACTTCTACGAGCTACTCCC 59.246 50.000 0.00 0.00 0.00 4.30
1647 1745 3.427773 CCACAACTTCTACGAGCTACTCC 60.428 52.174 0.00 0.00 0.00 3.85
1648 1746 3.190953 ACCACAACTTCTACGAGCTACTC 59.809 47.826 0.00 0.00 0.00 2.59
1649 1747 3.155501 ACCACAACTTCTACGAGCTACT 58.844 45.455 0.00 0.00 0.00 2.57
1650 1748 3.572604 ACCACAACTTCTACGAGCTAC 57.427 47.619 0.00 0.00 0.00 3.58
1651 1749 5.909621 ATAACCACAACTTCTACGAGCTA 57.090 39.130 0.00 0.00 0.00 3.32
1652 1750 4.803098 ATAACCACAACTTCTACGAGCT 57.197 40.909 0.00 0.00 0.00 4.09
1653 1751 5.857822 AAATAACCACAACTTCTACGAGC 57.142 39.130 0.00 0.00 0.00 5.03
1654 1752 7.042321 TGTCAAAATAACCACAACTTCTACGAG 60.042 37.037 0.00 0.00 0.00 4.18
1655 1753 6.762187 TGTCAAAATAACCACAACTTCTACGA 59.238 34.615 0.00 0.00 0.00 3.43
1656 1754 6.950545 TGTCAAAATAACCACAACTTCTACG 58.049 36.000 0.00 0.00 0.00 3.51
1657 1755 8.149973 TCTGTCAAAATAACCACAACTTCTAC 57.850 34.615 0.00 0.00 0.00 2.59
1658 1756 7.041372 GCTCTGTCAAAATAACCACAACTTCTA 60.041 37.037 0.00 0.00 0.00 2.10
1659 1757 6.238759 GCTCTGTCAAAATAACCACAACTTCT 60.239 38.462 0.00 0.00 0.00 2.85
1660 1758 5.915196 GCTCTGTCAAAATAACCACAACTTC 59.085 40.000 0.00 0.00 0.00 3.01
1661 1759 5.594317 AGCTCTGTCAAAATAACCACAACTT 59.406 36.000 0.00 0.00 0.00 2.66
1662 1760 5.133221 AGCTCTGTCAAAATAACCACAACT 58.867 37.500 0.00 0.00 0.00 3.16
1663 1761 5.438761 AGCTCTGTCAAAATAACCACAAC 57.561 39.130 0.00 0.00 0.00 3.32
1664 1762 6.272318 CAAAGCTCTGTCAAAATAACCACAA 58.728 36.000 0.00 0.00 0.00 3.33
1665 1763 5.221224 CCAAAGCTCTGTCAAAATAACCACA 60.221 40.000 0.00 0.00 0.00 4.17
1666 1764 5.222631 CCAAAGCTCTGTCAAAATAACCAC 58.777 41.667 0.00 0.00 0.00 4.16
1672 1770 2.560105 GAGGCCAAAGCTCTGTCAAAAT 59.440 45.455 5.01 0.00 39.73 1.82
1715 1813 3.262660 AGAACAATGATCACTCCTCAGCA 59.737 43.478 0.00 0.00 0.00 4.41
1716 1814 3.871485 AGAACAATGATCACTCCTCAGC 58.129 45.455 0.00 0.00 0.00 4.26
1721 1819 5.352569 ACAATCGAAGAACAATGATCACTCC 59.647 40.000 0.00 0.00 43.58 3.85
1786 1884 0.516877 TTGCGCAGGATCAGAAAACG 59.483 50.000 11.31 0.00 0.00 3.60
1846 1946 4.034510 GCAGTAAGCACAATTAGCAGTAGG 59.965 45.833 5.04 0.00 44.79 3.18
1847 1947 5.149054 GCAGTAAGCACAATTAGCAGTAG 57.851 43.478 5.04 0.00 44.79 2.57
1867 1967 4.321156 CCCTCGACAAATCATTTTTCTGCA 60.321 41.667 0.00 0.00 0.00 4.41
1872 1972 5.016173 TCATCCCCTCGACAAATCATTTTT 58.984 37.500 0.00 0.00 0.00 1.94
1916 2024 3.619038 CGCAGATAAGGACAAAACTCTCC 59.381 47.826 0.00 0.00 0.00 3.71
1923 2031 2.984562 TGATGCGCAGATAAGGACAAA 58.015 42.857 18.32 0.00 0.00 2.83
1982 2090 1.939934 TGGCATATTCGCTTACTGTGC 59.060 47.619 0.00 0.00 0.00 4.57
1985 2093 4.037690 GCTTTTGGCATATTCGCTTACTG 58.962 43.478 0.00 0.00 41.35 2.74
1986 2094 3.947834 AGCTTTTGGCATATTCGCTTACT 59.052 39.130 0.00 0.00 44.79 2.24
1987 2095 4.292977 AGCTTTTGGCATATTCGCTTAC 57.707 40.909 0.00 0.00 44.79 2.34
2066 2179 1.539827 GTGACTTTTTGGCCAGCGTAT 59.460 47.619 5.11 0.00 0.00 3.06
2100 2215 2.607635 GCCAGAAATTTCGCTGATACGA 59.392 45.455 12.42 0.00 41.04 3.43
2101 2216 2.286418 GGCCAGAAATTTCGCTGATACG 60.286 50.000 12.42 0.00 34.06 3.06
2102 2217 2.286418 CGGCCAGAAATTTCGCTGATAC 60.286 50.000 17.30 4.75 34.06 2.24
2103 2218 1.939934 CGGCCAGAAATTTCGCTGATA 59.060 47.619 17.30 0.00 34.06 2.15
2104 2219 0.734889 CGGCCAGAAATTTCGCTGAT 59.265 50.000 17.30 0.00 34.06 2.90
2105 2220 1.305219 CCGGCCAGAAATTTCGCTGA 61.305 55.000 21.60 0.00 34.06 4.26
2168 2283 1.563879 TGGGAACGACAATCCATCCAT 59.436 47.619 0.00 0.00 38.80 3.41
2218 2333 1.597578 TTTTGTACGTGGCCCCGAC 60.598 57.895 16.61 8.89 0.00 4.79
2246 2364 9.117183 ACCTTAGGACTGTTACTTTAGTTTTTG 57.883 33.333 4.77 0.00 0.00 2.44
2266 2384 5.278022 GCTGAAAAACTTGACCTGACCTTAG 60.278 44.000 0.00 0.00 0.00 2.18
2275 2393 7.631717 AATCCTATAGCTGAAAAACTTGACC 57.368 36.000 0.00 0.00 0.00 4.02
2291 2410 6.042781 ACGGGAGCTGTTTGATTAATCCTATA 59.957 38.462 12.90 0.00 0.00 1.31
2304 2423 1.600916 GAAGGCACGGGAGCTGTTT 60.601 57.895 0.00 0.00 34.17 2.83
2308 2427 0.614979 TAGAAGAAGGCACGGGAGCT 60.615 55.000 0.00 0.00 34.17 4.09
2334 2453 1.330655 AACCGCCACGAGGAGATGAT 61.331 55.000 1.86 0.00 36.74 2.45
2346 2465 0.320858 TGCGACAGAAATAACCGCCA 60.321 50.000 0.00 0.00 44.55 5.69
2352 2471 5.579119 ACATTACATCGTGCGACAGAAATAA 59.421 36.000 0.00 0.00 0.00 1.40
2355 2474 3.122780 CACATTACATCGTGCGACAGAAA 59.877 43.478 0.00 0.00 0.00 2.52
2364 2483 0.373370 CACGGGCACATTACATCGTG 59.627 55.000 0.00 0.00 41.09 4.35
2365 2484 0.036765 ACACGGGCACATTACATCGT 60.037 50.000 0.00 0.00 0.00 3.73
2366 2485 1.929230 TACACGGGCACATTACATCG 58.071 50.000 0.00 0.00 0.00 3.84
2367 2486 4.893424 AATTACACGGGCACATTACATC 57.107 40.909 0.00 0.00 0.00 3.06
2368 2487 5.825679 ACATAATTACACGGGCACATTACAT 59.174 36.000 0.00 0.00 0.00 2.29
2369 2488 5.186942 ACATAATTACACGGGCACATTACA 58.813 37.500 0.00 0.00 0.00 2.41
2370 2489 5.744666 ACATAATTACACGGGCACATTAC 57.255 39.130 0.00 0.00 0.00 1.89
2371 2490 5.297278 GGAACATAATTACACGGGCACATTA 59.703 40.000 0.00 0.00 0.00 1.90
2372 2491 4.097286 GGAACATAATTACACGGGCACATT 59.903 41.667 0.00 0.00 0.00 2.71
2373 2492 3.630312 GGAACATAATTACACGGGCACAT 59.370 43.478 0.00 0.00 0.00 3.21
2374 2493 3.011119 GGAACATAATTACACGGGCACA 58.989 45.455 0.00 0.00 0.00 4.57
2375 2494 3.011119 TGGAACATAATTACACGGGCAC 58.989 45.455 0.00 0.00 0.00 5.01
2376 2495 3.011119 GTGGAACATAATTACACGGGCA 58.989 45.455 0.00 0.00 44.52 5.36
2377 2496 2.356695 GGTGGAACATAATTACACGGGC 59.643 50.000 0.00 0.00 44.52 6.13
2378 2497 2.946990 GGGTGGAACATAATTACACGGG 59.053 50.000 0.00 0.00 44.52 5.28
2379 2498 3.881220 AGGGTGGAACATAATTACACGG 58.119 45.455 0.00 0.00 44.52 4.94
2380 2499 6.988622 TTTAGGGTGGAACATAATTACACG 57.011 37.500 0.00 0.00 44.52 4.49
2410 2529 8.780249 GGCATAACGTGGAACAAACTTATATAT 58.220 33.333 0.00 0.00 44.16 0.86
2411 2530 7.227116 GGGCATAACGTGGAACAAACTTATATA 59.773 37.037 0.00 0.00 44.16 0.86
2412 2531 6.038936 GGGCATAACGTGGAACAAACTTATAT 59.961 38.462 0.00 0.00 44.16 0.86
2413 2532 5.354792 GGGCATAACGTGGAACAAACTTATA 59.645 40.000 0.00 0.00 44.16 0.98
2414 2533 4.157105 GGGCATAACGTGGAACAAACTTAT 59.843 41.667 0.00 0.00 44.16 1.73
2415 2534 3.502979 GGGCATAACGTGGAACAAACTTA 59.497 43.478 0.00 0.00 44.16 2.24
2416 2535 2.295070 GGGCATAACGTGGAACAAACTT 59.705 45.455 0.00 0.00 44.16 2.66
2417 2536 1.883926 GGGCATAACGTGGAACAAACT 59.116 47.619 0.00 0.00 44.16 2.66
2418 2537 1.883926 AGGGCATAACGTGGAACAAAC 59.116 47.619 0.00 0.00 44.16 2.93
2419 2538 1.883275 CAGGGCATAACGTGGAACAAA 59.117 47.619 0.00 0.00 44.16 2.83
2420 2539 1.072489 TCAGGGCATAACGTGGAACAA 59.928 47.619 0.00 0.00 44.16 2.83
2421 2540 0.687920 TCAGGGCATAACGTGGAACA 59.312 50.000 0.00 0.00 35.74 3.18
2422 2541 1.084289 GTCAGGGCATAACGTGGAAC 58.916 55.000 0.00 0.00 0.00 3.62
2423 2542 0.981183 AGTCAGGGCATAACGTGGAA 59.019 50.000 0.00 0.00 0.00 3.53
2424 2543 0.535335 GAGTCAGGGCATAACGTGGA 59.465 55.000 0.00 0.00 0.00 4.02
2425 2544 0.462047 GGAGTCAGGGCATAACGTGG 60.462 60.000 0.00 0.00 0.00 4.94
2426 2545 0.537188 AGGAGTCAGGGCATAACGTG 59.463 55.000 0.00 0.00 0.00 4.49
2427 2546 1.276622 AAGGAGTCAGGGCATAACGT 58.723 50.000 0.00 0.00 0.00 3.99
2428 2547 2.009774 CAAAGGAGTCAGGGCATAACG 58.990 52.381 0.00 0.00 0.00 3.18
2429 2548 1.745653 GCAAAGGAGTCAGGGCATAAC 59.254 52.381 0.00 0.00 0.00 1.89
2430 2549 1.354031 TGCAAAGGAGTCAGGGCATAA 59.646 47.619 0.00 0.00 0.00 1.90
2431 2550 0.991146 TGCAAAGGAGTCAGGGCATA 59.009 50.000 0.00 0.00 0.00 3.14
2432 2551 0.333993 ATGCAAAGGAGTCAGGGCAT 59.666 50.000 0.00 5.34 37.17 4.40
2433 2552 0.991146 TATGCAAAGGAGTCAGGGCA 59.009 50.000 0.00 0.00 35.54 5.36
2434 2553 2.158696 AGATATGCAAAGGAGTCAGGGC 60.159 50.000 0.00 0.00 0.00 5.19
2435 2554 3.853355 AGATATGCAAAGGAGTCAGGG 57.147 47.619 0.00 0.00 0.00 4.45
2436 2555 4.578105 GGAAAGATATGCAAAGGAGTCAGG 59.422 45.833 0.00 0.00 0.00 3.86
2437 2556 4.578105 GGGAAAGATATGCAAAGGAGTCAG 59.422 45.833 0.00 0.00 0.00 3.51
2438 2557 4.228210 AGGGAAAGATATGCAAAGGAGTCA 59.772 41.667 0.00 0.00 0.00 3.41
2439 2558 4.786425 AGGGAAAGATATGCAAAGGAGTC 58.214 43.478 0.00 0.00 0.00 3.36
2440 2559 4.870021 AGGGAAAGATATGCAAAGGAGT 57.130 40.909 0.00 0.00 0.00 3.85
2441 2560 8.924511 TTATTAGGGAAAGATATGCAAAGGAG 57.075 34.615 0.00 0.00 0.00 3.69
2475 2594 5.292765 ACGTATGACCAGAAGCAATATCTG 58.707 41.667 0.00 0.00 43.15 2.90
2476 2595 5.069119 TGACGTATGACCAGAAGCAATATCT 59.931 40.000 0.00 0.00 0.00 1.98
2477 2596 5.289595 TGACGTATGACCAGAAGCAATATC 58.710 41.667 0.00 0.00 0.00 1.63
2478 2597 5.276461 TGACGTATGACCAGAAGCAATAT 57.724 39.130 0.00 0.00 0.00 1.28
2479 2598 4.729227 TGACGTATGACCAGAAGCAATA 57.271 40.909 0.00 0.00 0.00 1.90
2480 2599 3.610040 TGACGTATGACCAGAAGCAAT 57.390 42.857 0.00 0.00 0.00 3.56
2481 2600 3.610040 ATGACGTATGACCAGAAGCAA 57.390 42.857 0.00 0.00 0.00 3.91
2482 2601 3.056179 TGAATGACGTATGACCAGAAGCA 60.056 43.478 0.00 0.00 0.00 3.91
2483 2602 3.521560 TGAATGACGTATGACCAGAAGC 58.478 45.455 0.00 0.00 0.00 3.86
2484 2603 6.668541 ATTTGAATGACGTATGACCAGAAG 57.331 37.500 0.00 0.00 0.00 2.85
2485 2604 7.065324 GGTAATTTGAATGACGTATGACCAGAA 59.935 37.037 0.00 0.00 0.00 3.02
2486 2605 6.537301 GGTAATTTGAATGACGTATGACCAGA 59.463 38.462 0.00 0.00 0.00 3.86
2487 2606 6.238374 GGGTAATTTGAATGACGTATGACCAG 60.238 42.308 0.00 0.00 0.00 4.00
2488 2607 5.587043 GGGTAATTTGAATGACGTATGACCA 59.413 40.000 0.00 0.00 0.00 4.02
2489 2608 5.820947 AGGGTAATTTGAATGACGTATGACC 59.179 40.000 0.00 0.00 0.00 4.02
2490 2609 6.920569 AGGGTAATTTGAATGACGTATGAC 57.079 37.500 0.00 0.00 0.00 3.06
2491 2610 7.106890 TCAAGGGTAATTTGAATGACGTATGA 58.893 34.615 0.00 0.00 31.98 2.15
2492 2611 7.315247 TCAAGGGTAATTTGAATGACGTATG 57.685 36.000 0.00 0.00 31.98 2.39
2493 2612 7.610305 ACTTCAAGGGTAATTTGAATGACGTAT 59.390 33.333 0.00 0.00 41.98 3.06
2494 2613 6.938030 ACTTCAAGGGTAATTTGAATGACGTA 59.062 34.615 0.00 0.00 41.98 3.57
2495 2614 5.768164 ACTTCAAGGGTAATTTGAATGACGT 59.232 36.000 0.00 0.00 41.98 4.34
2496 2615 6.254281 ACTTCAAGGGTAATTTGAATGACG 57.746 37.500 1.40 0.00 41.98 4.35
2497 2616 7.755373 GCTAACTTCAAGGGTAATTTGAATGAC 59.245 37.037 1.40 0.00 41.98 3.06
2498 2617 7.361713 CGCTAACTTCAAGGGTAATTTGAATGA 60.362 37.037 1.40 0.00 41.98 2.57
2499 2618 6.747280 CGCTAACTTCAAGGGTAATTTGAATG 59.253 38.462 1.40 0.29 41.98 2.67
2500 2619 6.657541 TCGCTAACTTCAAGGGTAATTTGAAT 59.342 34.615 1.40 0.00 41.98 2.57
2501 2620 5.998981 TCGCTAACTTCAAGGGTAATTTGAA 59.001 36.000 0.00 1.11 41.00 2.69
2502 2621 5.553123 TCGCTAACTTCAAGGGTAATTTGA 58.447 37.500 0.00 0.00 33.00 2.69
2503 2622 5.873179 TCGCTAACTTCAAGGGTAATTTG 57.127 39.130 0.00 0.00 0.00 2.32
2504 2623 6.887626 TTTCGCTAACTTCAAGGGTAATTT 57.112 33.333 0.00 0.00 0.00 1.82
2505 2624 6.887626 TTTTCGCTAACTTCAAGGGTAATT 57.112 33.333 0.00 0.00 0.00 1.40
2506 2625 7.462571 AATTTTCGCTAACTTCAAGGGTAAT 57.537 32.000 0.00 0.00 0.00 1.89
2507 2626 6.887626 AATTTTCGCTAACTTCAAGGGTAA 57.112 33.333 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.