Multiple sequence alignment - TraesCS5B01G169700

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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 TraesCS5B01G169700 chr5B 100.000 2603 0 0 1 2603 314282233 314284835 0.000000e+00 4807.0
1 TraesCS5B01G169700 chr5B 85.751 386 48 5 1 382 314189581 314189199 4.030000e-108 401.0
2 TraesCS5B01G169700 chr5B 85.714 287 31 7 980 1265 307396351 307396074 7.040000e-76 294.0
3 TraesCS5B01G169700 chr5B 80.989 263 48 2 1332 1593 307396073 307395812 9.440000e-50 207.0
4 TraesCS5B01G169700 chr5D 89.284 1885 112 46 1 1849 276927098 276928928 0.000000e+00 2279.0
5 TraesCS5B01G169700 chr5D 87.542 297 25 10 991 1284 270259064 270258777 1.490000e-87 333.0
6 TraesCS5B01G169700 chr5D 81.679 262 48 0 1332 1593 270258783 270258522 4.360000e-53 219.0
7 TraesCS5B01G169700 chr5A 88.270 1185 100 21 1 1182 365603579 365604727 0.000000e+00 1382.0
8 TraesCS5B01G169700 chr5A 93.377 453 24 3 1180 1632 365610011 365610457 0.000000e+00 665.0
9 TraesCS5B01G169700 chr5A 81.321 878 101 21 1707 2552 365651104 365651950 0.000000e+00 654.0
10 TraesCS5B01G169700 chr5A 86.348 293 30 7 980 1271 359743161 359742878 6.990000e-81 311.0
11 TraesCS5B01G169700 chr5A 80.377 265 52 0 1329 1593 359742865 359742601 4.390000e-48 202.0
12 TraesCS5B01G169700 chr7A 84.746 236 29 3 1019 1253 689277974 689278203 2.010000e-56 230.0
13 TraesCS5B01G169700 chr6B 81.522 92 13 4 305 394 681074925 681074836 3.590000e-09 73.1


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 TraesCS5B01G169700 chr5B 314282233 314284835 2602 False 4807.0 4807 100.0000 1 2603 1 chr5B.!!$F1 2602
1 TraesCS5B01G169700 chr5B 307395812 307396351 539 True 250.5 294 83.3515 980 1593 2 chr5B.!!$R2 613
2 TraesCS5B01G169700 chr5D 276927098 276928928 1830 False 2279.0 2279 89.2840 1 1849 1 chr5D.!!$F1 1848
3 TraesCS5B01G169700 chr5D 270258522 270259064 542 True 276.0 333 84.6105 991 1593 2 chr5D.!!$R1 602
4 TraesCS5B01G169700 chr5A 365603579 365604727 1148 False 1382.0 1382 88.2700 1 1182 1 chr5A.!!$F1 1181
5 TraesCS5B01G169700 chr5A 365651104 365651950 846 False 654.0 654 81.3210 1707 2552 1 chr5A.!!$F3 845
6 TraesCS5B01G169700 chr5A 359742601 359743161 560 True 256.5 311 83.3625 980 1593 2 chr5A.!!$R1 613

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
302 311 0.178998 GCCCATGTGATCAGCCATCT 60.179 55.0 0.0 0.0 31.92 2.9 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2273 2361 0.179032 ACATCGTGGCACCTTTGTCA 60.179 50.0 12.86 0.0 33.92 3.58 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
134 136 3.193479 GGAAAGGTGGAAGCGATGAAATT 59.807 43.478 0.00 0.00 40.95 1.82
147 149 5.814705 AGCGATGAAATTGAAACCAACAAAA 59.185 32.000 0.00 0.00 0.00 2.44
153 155 7.108847 TGAAATTGAAACCAACAAAACTCCAT 58.891 30.769 0.00 0.00 0.00 3.41
159 161 8.257830 TGAAACCAACAAAACTCCATTTTAAC 57.742 30.769 0.00 0.00 38.50 2.01
166 168 9.672086 CAACAAAACTCCATTTTAACGATAGAA 57.328 29.630 0.00 0.00 38.50 2.10
204 206 1.450025 AGTTTTAAGGGCAGCGCTAC 58.550 50.000 10.99 3.45 0.00 3.58
216 218 3.991051 CGCTACCCATCGGCCGAT 61.991 66.667 34.60 34.60 34.81 4.18
217 219 2.632544 CGCTACCCATCGGCCGATA 61.633 63.158 38.48 23.00 32.93 2.92
270 272 3.627577 ACCATTGGATGAACACGCTAATC 59.372 43.478 10.37 0.00 0.00 1.75
288 297 1.809619 CGTCGTTCGATGTGCCCAT 60.810 57.895 6.30 0.00 42.86 4.00
302 311 0.178998 GCCCATGTGATCAGCCATCT 60.179 55.000 0.00 0.00 31.92 2.90
306 315 3.552875 CCATGTGATCAGCCATCTCTTT 58.447 45.455 0.00 0.00 31.92 2.52
307 316 3.315470 CCATGTGATCAGCCATCTCTTTG 59.685 47.826 0.00 0.00 31.92 2.77
365 374 7.333921 ACAGATTTCTTGTTGCACAAAATTTCA 59.666 29.630 0.00 0.00 37.69 2.69
403 412 6.971602 TGTTGCAGAAATTTTCCGTAACATA 58.028 32.000 18.94 4.45 37.62 2.29
410 419 7.693951 CAGAAATTTTCCGTAACATAGCTCTTG 59.306 37.037 5.52 0.00 0.00 3.02
433 442 8.909708 TTGTTACAGAAATTTCTCACAACAAG 57.090 30.769 27.66 16.25 35.99 3.16
490 499 0.772124 TTGGGAGGCTGAAAGAGGGT 60.772 55.000 0.00 0.00 34.07 4.34
506 515 6.478512 AAGAGGGTTGTTTTGCAATAAGAA 57.521 33.333 0.00 0.02 39.55 2.52
518 527 4.635961 GCAATAAGAAGCTTGTTGCAAC 57.364 40.909 26.11 22.83 43.18 4.17
521 530 5.284079 CAATAAGAAGCTTGTTGCAACTGT 58.716 37.500 28.61 10.42 45.94 3.55
578 587 2.431601 GCGCGTCAGTCTGCTTCT 60.432 61.111 8.43 0.00 0.00 2.85
627 636 1.270305 CGGACATGGGCGTGATAATCT 60.270 52.381 0.00 0.00 0.00 2.40
701 710 7.725251 TGGCCAATTTTGATCAGGTAAATATC 58.275 34.615 0.61 0.00 0.00 1.63
716 725 9.799106 CAGGTAAATATCCCATACTCTTGAATT 57.201 33.333 0.00 0.00 0.00 2.17
845 886 3.439129 TGATTGTGATCGAGTACGTGTCT 59.561 43.478 0.00 0.00 40.69 3.41
888 929 2.833631 CGTCTCCGGCCCTTTTATAT 57.166 50.000 0.00 0.00 0.00 0.86
889 930 3.947910 CGTCTCCGGCCCTTTTATATA 57.052 47.619 0.00 0.00 0.00 0.86
890 931 4.261578 CGTCTCCGGCCCTTTTATATAA 57.738 45.455 0.00 0.00 0.00 0.98
1338 1401 5.412526 ACGACGACAATAACAACAACAAT 57.587 34.783 0.00 0.00 0.00 2.71
1548 1611 4.364860 TCAAGATCGAAAACGACTTCACA 58.635 39.130 0.00 0.00 0.00 3.58
1581 1644 2.437413 GAGGCCGTCAGAAAGGAAAAT 58.563 47.619 0.00 0.00 0.00 1.82
1604 1667 1.275291 CTGGGCCTTCAACGAGTAGAA 59.725 52.381 4.53 0.00 0.00 2.10
1616 1679 4.474226 ACGAGTAGAAACGTTTACGAGT 57.526 40.909 14.65 11.52 43.02 4.18
1617 1680 4.848757 ACGAGTAGAAACGTTTACGAGTT 58.151 39.130 14.65 2.73 43.02 3.01
1618 1681 5.273944 ACGAGTAGAAACGTTTACGAGTTT 58.726 37.500 14.65 0.00 42.50 2.66
1619 1682 5.743872 ACGAGTAGAAACGTTTACGAGTTTT 59.256 36.000 14.65 0.00 40.24 2.43
1620 1683 6.910433 ACGAGTAGAAACGTTTACGAGTTTTA 59.090 34.615 14.65 0.50 40.24 1.52
1621 1684 7.112148 ACGAGTAGAAACGTTTACGAGTTTTAG 59.888 37.037 14.65 1.94 40.24 1.85
1622 1685 7.098503 AGTAGAAACGTTTACGAGTTTTAGC 57.901 36.000 14.65 0.00 40.24 3.09
1625 1688 7.330720 AGAAACGTTTACGAGTTTTAGCTAG 57.669 36.000 14.65 0.00 40.24 3.42
1626 1689 6.920210 AGAAACGTTTACGAGTTTTAGCTAGT 59.080 34.615 14.65 0.00 40.24 2.57
1627 1690 6.443876 AACGTTTACGAGTTTTAGCTAGTG 57.556 37.500 9.53 0.00 43.02 2.74
1628 1691 5.523369 ACGTTTACGAGTTTTAGCTAGTGT 58.477 37.500 9.53 0.00 43.02 3.55
1629 1692 6.668323 ACGTTTACGAGTTTTAGCTAGTGTA 58.332 36.000 9.53 0.00 43.02 2.90
1630 1693 6.578919 ACGTTTACGAGTTTTAGCTAGTGTAC 59.421 38.462 9.53 0.00 43.02 2.90
1631 1694 6.798959 CGTTTACGAGTTTTAGCTAGTGTACT 59.201 38.462 0.00 0.00 43.02 2.73
1632 1695 7.006920 CGTTTACGAGTTTTAGCTAGTGTACTC 59.993 40.741 12.76 12.76 43.02 2.59
1633 1696 5.954296 ACGAGTTTTAGCTAGTGTACTCA 57.046 39.130 18.46 0.00 33.40 3.41
1634 1697 5.697826 ACGAGTTTTAGCTAGTGTACTCAC 58.302 41.667 18.46 0.00 44.15 3.51
1648 1711 3.650942 TGTACTCACTTGGGGTTTCATCT 59.349 43.478 0.00 0.00 0.00 2.90
1653 1716 2.364970 CACTTGGGGTTTCATCTTTGCA 59.635 45.455 0.00 0.00 0.00 4.08
1663 1726 5.166398 GTTTCATCTTTGCAGCTGCTTAAT 58.834 37.500 36.61 21.91 42.66 1.40
1664 1727 5.395682 TTCATCTTTGCAGCTGCTTAATT 57.604 34.783 36.61 17.69 42.66 1.40
1665 1728 6.513806 TTCATCTTTGCAGCTGCTTAATTA 57.486 33.333 36.61 20.85 42.66 1.40
1666 1729 6.513806 TCATCTTTGCAGCTGCTTAATTAA 57.486 33.333 36.61 20.31 42.66 1.40
1667 1730 7.104043 TCATCTTTGCAGCTGCTTAATTAAT 57.896 32.000 36.61 19.88 42.66 1.40
1668 1731 7.549839 TCATCTTTGCAGCTGCTTAATTAATT 58.450 30.769 36.61 11.87 42.66 1.40
1669 1732 8.036575 TCATCTTTGCAGCTGCTTAATTAATTT 58.963 29.630 36.61 10.53 42.66 1.82
1670 1733 7.585286 TCTTTGCAGCTGCTTAATTAATTTG 57.415 32.000 36.61 17.16 42.66 2.32
1682 1745 8.790674 TGCTTAATTAATTTGTTAATTCGTCGC 58.209 29.630 5.91 8.40 37.95 5.19
1683 1746 8.257166 GCTTAATTAATTTGTTAATTCGTCGCC 58.743 33.333 5.91 0.00 37.95 5.54
1702 1765 4.333372 TCGCCTTTCTTGTTTACGAGTTTT 59.667 37.500 0.00 0.00 0.00 2.43
1712 1775 6.758593 TGTTTACGAGTTTTAGCTAGTGTG 57.241 37.500 0.00 0.00 0.00 3.82
1725 1788 3.891366 AGCTAGTGTGCTTGGTTTTTGAT 59.109 39.130 0.00 0.00 40.93 2.57
1726 1789 4.342092 AGCTAGTGTGCTTGGTTTTTGATT 59.658 37.500 0.00 0.00 40.93 2.57
1728 1791 3.795877 AGTGTGCTTGGTTTTTGATTGG 58.204 40.909 0.00 0.00 0.00 3.16
1746 1809 5.830457 TGATTGGTGGAAACTTTGTGTATCA 59.170 36.000 0.00 0.00 0.00 2.15
1808 1873 8.908786 TTGAAATCTGAGTCTGAGTTTTGTAT 57.091 30.769 12.99 0.00 0.00 2.29
1849 1914 9.255304 GTTTGTTTGAGTTGGATAGCAATTTTA 57.745 29.630 0.00 0.00 0.00 1.52
1874 1945 6.259550 ACATAAGTCTGAGTTTCCAATTGC 57.740 37.500 2.62 0.00 0.00 3.56
1957 2028 1.303282 CTCCAAACCCTAGCCCACC 59.697 63.158 0.00 0.00 0.00 4.61
1959 2030 2.750237 CAAACCCTAGCCCACCGC 60.750 66.667 0.00 0.00 37.98 5.68
1978 2049 1.764054 CGGCCCCTCTCCTGATCTT 60.764 63.158 0.00 0.00 0.00 2.40
1980 2051 0.985490 GGCCCCTCTCCTGATCTTGT 60.985 60.000 0.00 0.00 0.00 3.16
1981 2052 0.467804 GCCCCTCTCCTGATCTTGTC 59.532 60.000 0.00 0.00 0.00 3.18
1998 2069 3.945434 CGCCACCATGATGCGCTC 61.945 66.667 9.73 4.27 41.95 5.03
2038 2112 5.476599 ACACTAGATCTAAGATGGCTAGCTG 59.523 44.000 15.72 1.23 33.57 4.24
2054 2128 1.558756 AGCTGCTAGCAATGTCTTCCT 59.441 47.619 19.86 2.42 45.56 3.36
2055 2129 1.939255 GCTGCTAGCAATGTCTTCCTC 59.061 52.381 19.86 0.00 41.89 3.71
2066 2140 4.608948 ATGTCTTCCTCGTTCTCTTGTT 57.391 40.909 0.00 0.00 0.00 2.83
2076 2150 2.351738 CGTTCTCTTGTTGGATTTGGGC 60.352 50.000 0.00 0.00 0.00 5.36
2077 2151 2.893489 GTTCTCTTGTTGGATTTGGGCT 59.107 45.455 0.00 0.00 0.00 5.19
2078 2152 2.795329 TCTCTTGTTGGATTTGGGCTC 58.205 47.619 0.00 0.00 0.00 4.70
2079 2153 1.470098 CTCTTGTTGGATTTGGGCTCG 59.530 52.381 0.00 0.00 0.00 5.03
2080 2154 1.202879 TCTTGTTGGATTTGGGCTCGT 60.203 47.619 0.00 0.00 0.00 4.18
2081 2155 1.613437 CTTGTTGGATTTGGGCTCGTT 59.387 47.619 0.00 0.00 0.00 3.85
2082 2156 0.958091 TGTTGGATTTGGGCTCGTTG 59.042 50.000 0.00 0.00 0.00 4.10
2083 2157 0.958822 GTTGGATTTGGGCTCGTTGT 59.041 50.000 0.00 0.00 0.00 3.32
2084 2158 0.958091 TTGGATTTGGGCTCGTTGTG 59.042 50.000 0.00 0.00 0.00 3.33
2085 2159 0.893270 TGGATTTGGGCTCGTTGTGG 60.893 55.000 0.00 0.00 0.00 4.17
2086 2160 1.212751 GATTTGGGCTCGTTGTGGC 59.787 57.895 0.00 0.00 0.00 5.01
2087 2161 1.228552 ATTTGGGCTCGTTGTGGCT 60.229 52.632 0.00 0.00 0.00 4.75
2088 2162 0.827507 ATTTGGGCTCGTTGTGGCTT 60.828 50.000 0.00 0.00 0.00 4.35
2089 2163 0.179015 TTTGGGCTCGTTGTGGCTTA 60.179 50.000 0.00 0.00 0.00 3.09
2090 2164 0.605319 TTGGGCTCGTTGTGGCTTAG 60.605 55.000 0.00 0.00 0.00 2.18
2094 2168 1.352156 GCTCGTTGTGGCTTAGGTCG 61.352 60.000 0.00 0.00 0.00 4.79
2101 2175 1.143183 TGGCTTAGGTCGCGGAATC 59.857 57.895 6.13 0.00 0.00 2.52
2113 2187 1.902556 CGGAATCCGGGTGGTAGTT 59.097 57.895 14.91 0.00 44.15 2.24
2114 2188 1.113788 CGGAATCCGGGTGGTAGTTA 58.886 55.000 14.91 0.00 44.15 2.24
2115 2189 1.202452 CGGAATCCGGGTGGTAGTTAC 60.202 57.143 14.91 0.00 44.15 2.50
2121 2195 0.319083 CGGGTGGTAGTTACACAGCA 59.681 55.000 0.00 0.00 40.54 4.41
2124 2198 1.439679 GTGGTAGTTACACAGCAGGC 58.560 55.000 0.00 0.00 38.67 4.85
2129 2203 2.031919 TTACACAGCAGGCGGTGG 59.968 61.111 24.31 9.96 45.16 4.61
2143 2217 1.320344 CGGTGGGGTTCTCGAGATCA 61.320 60.000 17.44 9.76 0.00 2.92
2163 2251 0.744281 AAGAAACCCTTGCCACAACG 59.256 50.000 0.00 0.00 32.92 4.10
2167 2255 1.805428 AACCCTTGCCACAACGATGC 61.805 55.000 0.00 0.00 0.00 3.91
2169 2257 2.267351 CCTTGCCACAACGATGCCA 61.267 57.895 0.00 0.00 0.00 4.92
2170 2258 1.597797 CCTTGCCACAACGATGCCAT 61.598 55.000 0.00 0.00 0.00 4.40
2173 2261 3.067480 GCCACAACGATGCCATGGG 62.067 63.158 15.13 0.00 0.00 4.00
2200 2288 2.124942 CCTCCTTGGAGGCTTCGC 60.125 66.667 21.32 0.00 38.35 4.70
2204 2292 1.743252 CCTTGGAGGCTTCGCTCAC 60.743 63.158 0.00 0.00 0.00 3.51
2210 2298 0.595310 GAGGCTTCGCTCACGTATCC 60.595 60.000 0.00 0.00 41.18 2.59
2229 2317 0.194587 CTATCCCACCCATCCTCCCT 59.805 60.000 0.00 0.00 0.00 4.20
2246 2334 4.823989 CCTCCCTTGCATATAGGTGAAAAG 59.176 45.833 2.31 0.00 0.00 2.27
2250 2338 4.883585 CCTTGCATATAGGTGAAAAGCTGA 59.116 41.667 0.00 0.00 0.00 4.26
2254 2342 6.620678 TGCATATAGGTGAAAAGCTGAAAAC 58.379 36.000 0.00 0.00 0.00 2.43
2257 2345 7.067008 GCATATAGGTGAAAAGCTGAAAACCTA 59.933 37.037 16.62 16.62 42.73 3.08
2259 2347 3.570125 AGGTGAAAAGCTGAAAACCTAGC 59.430 43.478 9.12 0.00 36.28 3.42
2276 2364 1.376553 GCTCCAGCTTGGGTCTGAC 60.377 63.158 0.00 0.00 38.32 3.51
2278 2366 0.397941 CTCCAGCTTGGGTCTGACAA 59.602 55.000 10.38 0.00 38.32 3.18
2279 2367 0.843309 TCCAGCTTGGGTCTGACAAA 59.157 50.000 10.38 2.78 38.32 2.83
2288 2376 1.507141 GGTCTGACAAAGGTGCCACG 61.507 60.000 10.38 0.00 0.00 4.94
2294 2382 1.227999 ACAAAGGTGCCACGATGTCG 61.228 55.000 0.11 0.11 46.33 4.35
2310 2398 1.870402 TGTCGTTACGTCGTACTTGGA 59.130 47.619 4.17 0.00 0.00 3.53
2312 2400 2.096218 GTCGTTACGTCGTACTTGGACT 60.096 50.000 4.17 0.00 32.24 3.85
2313 2401 2.096268 TCGTTACGTCGTACTTGGACTG 60.096 50.000 4.17 0.00 32.24 3.51
2314 2402 1.981533 GTTACGTCGTACTTGGACTGC 59.018 52.381 4.17 0.00 32.24 4.40
2315 2403 1.237533 TACGTCGTACTTGGACTGCA 58.762 50.000 0.00 0.00 32.24 4.41
2316 2404 0.318445 ACGTCGTACTTGGACTGCAC 60.318 55.000 0.00 0.00 32.24 4.57
2317 2405 0.318360 CGTCGTACTTGGACTGCACA 60.318 55.000 0.00 0.00 32.24 4.57
2318 2406 1.860676 GTCGTACTTGGACTGCACAA 58.139 50.000 0.00 0.00 0.00 3.33
2348 2436 0.802494 GATTGCACGGGTGGTAGTTG 59.198 55.000 0.43 0.00 0.00 3.16
2358 2446 2.618045 GGGTGGTAGTTGAGTTGGGATG 60.618 54.545 0.00 0.00 0.00 3.51
2368 2456 2.283101 TTGGGATGTGCTGGTGGC 60.283 61.111 0.00 0.00 42.22 5.01
2380 2468 2.348605 CTGGTGGCGGGTTTGTTGTG 62.349 60.000 0.00 0.00 0.00 3.33
2381 2469 2.415426 GTGGCGGGTTTGTTGTGG 59.585 61.111 0.00 0.00 0.00 4.17
2387 2475 0.744281 CGGGTTTGTTGTGGAGCTTT 59.256 50.000 0.00 0.00 0.00 3.51
2392 2480 3.630312 GGTTTGTTGTGGAGCTTTGACTA 59.370 43.478 0.00 0.00 0.00 2.59
2407 2495 5.447818 GCTTTGACTATGTTATGTGGCAGTC 60.448 44.000 0.00 0.00 34.39 3.51
2409 2497 3.118408 TGACTATGTTATGTGGCAGTCCC 60.118 47.826 0.00 0.00 33.15 4.46
2412 2500 1.298667 GTTATGTGGCAGTCCCGGT 59.701 57.895 0.00 0.00 35.87 5.28
2413 2501 1.024579 GTTATGTGGCAGTCCCGGTG 61.025 60.000 0.00 0.00 35.87 4.94
2437 2529 1.200484 GACACTCGTGTTCCTCTCCTC 59.800 57.143 3.97 0.00 45.05 3.71
2445 2540 0.035915 GTTCCTCTCCTCAGGCCAAC 60.036 60.000 5.01 0.00 32.91 3.77
2449 2544 0.617413 CTCTCCTCAGGCCAACATGT 59.383 55.000 5.01 0.00 0.00 3.21
2451 2546 0.393537 CTCCTCAGGCCAACATGTCC 60.394 60.000 5.01 0.00 0.00 4.02
2452 2547 1.133181 TCCTCAGGCCAACATGTCCA 61.133 55.000 5.01 0.00 0.00 4.02
2453 2548 0.962356 CCTCAGGCCAACATGTCCAC 60.962 60.000 5.01 0.00 0.00 4.02
2454 2549 0.250858 CTCAGGCCAACATGTCCACA 60.251 55.000 5.01 0.00 0.00 4.17
2455 2550 0.405198 TCAGGCCAACATGTCCACAT 59.595 50.000 5.01 0.00 36.96 3.21
2456 2551 0.813184 CAGGCCAACATGTCCACATC 59.187 55.000 5.01 0.00 33.61 3.06
2467 2562 1.078497 TCCACATCGCATCGCCTTT 60.078 52.632 0.00 0.00 0.00 3.11
2468 2563 0.176910 TCCACATCGCATCGCCTTTA 59.823 50.000 0.00 0.00 0.00 1.85
2473 2568 1.157870 ATCGCATCGCCTTTAACCCG 61.158 55.000 0.00 0.00 0.00 5.28
2479 2574 0.393267 TCGCCTTTAACCCGGGATTG 60.393 55.000 32.02 11.96 0.00 2.67
2480 2575 0.678684 CGCCTTTAACCCGGGATTGT 60.679 55.000 32.02 11.88 0.00 2.71
2481 2576 1.407162 CGCCTTTAACCCGGGATTGTA 60.407 52.381 32.02 10.76 0.00 2.41
2525 2620 1.542472 TGGCGTTGTCGACTTATCTCA 59.458 47.619 17.92 5.63 46.49 3.27
2527 2622 3.187700 GGCGTTGTCGACTTATCTCATT 58.812 45.455 17.92 0.00 42.52 2.57
2534 2629 6.753107 TGTCGACTTATCTCATTGTGTCTA 57.247 37.500 17.92 0.00 0.00 2.59
2552 2647 8.279970 TGTGTCTATTTGGATTATGTTTCCTG 57.720 34.615 0.00 0.00 34.17 3.86
2553 2648 7.888021 TGTGTCTATTTGGATTATGTTTCCTGT 59.112 33.333 0.00 0.00 34.17 4.00
2554 2649 8.739972 GTGTCTATTTGGATTATGTTTCCTGTT 58.260 33.333 0.00 0.00 34.17 3.16
2555 2650 8.739039 TGTCTATTTGGATTATGTTTCCTGTTG 58.261 33.333 0.00 0.00 34.17 3.33
2556 2651 8.190784 GTCTATTTGGATTATGTTTCCTGTTGG 58.809 37.037 0.00 0.00 34.17 3.77
2557 2652 5.736951 TTTGGATTATGTTTCCTGTTGGG 57.263 39.130 0.00 0.00 34.17 4.12
2558 2653 4.666412 TGGATTATGTTTCCTGTTGGGA 57.334 40.909 0.00 0.00 43.41 4.37
2569 2664 4.460948 TCCTGTTGGGAACGTAGTAATC 57.539 45.455 0.00 0.00 45.00 1.75
2570 2665 4.091549 TCCTGTTGGGAACGTAGTAATCT 58.908 43.478 0.00 0.00 45.00 2.40
2571 2666 4.159135 TCCTGTTGGGAACGTAGTAATCTC 59.841 45.833 0.00 0.00 45.00 2.75
2572 2667 4.081862 CCTGTTGGGAACGTAGTAATCTCA 60.082 45.833 0.00 0.00 45.00 3.27
2573 2668 5.471556 TGTTGGGAACGTAGTAATCTCAA 57.528 39.130 0.00 0.00 45.00 3.02
2574 2669 5.856156 TGTTGGGAACGTAGTAATCTCAAA 58.144 37.500 1.17 0.00 45.00 2.69
2575 2670 6.289834 TGTTGGGAACGTAGTAATCTCAAAA 58.710 36.000 1.17 0.00 45.00 2.44
2576 2671 6.766944 TGTTGGGAACGTAGTAATCTCAAAAA 59.233 34.615 1.17 0.00 45.00 1.94
2593 2688 2.325509 AAAAATTCCTACACGCACGC 57.674 45.000 0.00 0.00 0.00 5.34
2594 2689 1.231221 AAAATTCCTACACGCACGCA 58.769 45.000 0.00 0.00 0.00 5.24
2595 2690 1.231221 AAATTCCTACACGCACGCAA 58.769 45.000 0.00 0.00 0.00 4.85
2597 2692 0.037697 ATTCCTACACGCACGCAAGA 60.038 50.000 0.00 0.00 43.62 3.02
2598 2693 0.037697 TTCCTACACGCACGCAAGAT 60.038 50.000 0.00 0.00 43.62 2.40
2599 2694 0.457853 TCCTACACGCACGCAAGATC 60.458 55.000 0.00 0.00 43.62 2.75
2600 2695 0.735978 CCTACACGCACGCAAGATCA 60.736 55.000 0.00 0.00 43.62 2.92
2601 2696 1.280982 CTACACGCACGCAAGATCAT 58.719 50.000 0.00 0.00 43.62 2.45
2602 2697 0.998669 TACACGCACGCAAGATCATG 59.001 50.000 0.00 0.00 43.62 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 8.027189 GTGATAACCCTCATTTTTCTAAACCAC 58.973 37.037 0.00 0.00 0.00 4.16
45 46 7.726291 TGTGATAACCCTCATTTTTCTAAACCA 59.274 33.333 0.00 0.00 0.00 3.67
86 87 6.114187 TCAATATATGCCCTTCTCATCGTT 57.886 37.500 0.00 0.00 0.00 3.85
134 136 7.063544 CGTTAAAATGGAGTTTTGTTGGTTTCA 59.936 33.333 0.00 0.00 40.17 2.69
204 206 6.503589 TTTAATTATTTATCGGCCGATGGG 57.496 37.500 43.28 9.81 36.17 4.00
270 272 1.809619 ATGGGCACATCGAACGACG 60.810 57.895 0.00 0.00 44.09 5.12
288 297 2.290450 TGCAAAGAGATGGCTGATCACA 60.290 45.455 0.00 0.00 32.86 3.58
302 311 4.923893 CAACATGACTCTTGTTGCAAAGA 58.076 39.130 19.39 0.00 45.10 2.52
403 412 6.767902 TGTGAGAAATTTCTGTAACAAGAGCT 59.232 34.615 25.12 0.00 37.73 4.09
410 419 7.644157 GTCCTTGTTGTGAGAAATTTCTGTAAC 59.356 37.037 25.12 22.41 37.73 2.50
470 479 0.405585 CCCTCTTTCAGCCTCCCAAA 59.594 55.000 0.00 0.00 0.00 3.28
471 480 0.772124 ACCCTCTTTCAGCCTCCCAA 60.772 55.000 0.00 0.00 0.00 4.12
472 481 0.772124 AACCCTCTTTCAGCCTCCCA 60.772 55.000 0.00 0.00 0.00 4.37
473 482 0.322906 CAACCCTCTTTCAGCCTCCC 60.323 60.000 0.00 0.00 0.00 4.30
485 494 4.686091 GCTTCTTATTGCAAAACAACCCTC 59.314 41.667 1.71 0.00 42.27 4.30
490 499 6.456718 GCAACAAGCTTCTTATTGCAAAACAA 60.457 34.615 20.95 0.00 44.01 2.83
506 515 3.796504 GCATGTTACAGTTGCAACAAGCT 60.797 43.478 30.11 7.83 42.83 3.74
518 527 1.715519 GCAACAAAGCGCATGTTACAG 59.284 47.619 24.95 16.65 38.90 2.74
521 530 2.498807 TTGCAACAAAGCGCATGTTA 57.501 40.000 24.95 12.56 38.90 2.41
627 636 0.464036 ACGATTAGAATCAGCCGGCA 59.536 50.000 31.54 9.64 35.11 5.69
701 710 5.116084 TCTGGGAAATTCAAGAGTATGGG 57.884 43.478 0.00 0.00 0.00 4.00
716 725 1.751351 CGCTCATGACTACTCTGGGAA 59.249 52.381 0.00 0.00 0.00 3.97
779 788 2.917971 GTGTTTTGATCCGACTCTCTCG 59.082 50.000 0.00 0.00 42.54 4.04
780 789 2.917971 CGTGTTTTGATCCGACTCTCTC 59.082 50.000 0.00 0.00 0.00 3.20
781 790 2.557056 TCGTGTTTTGATCCGACTCTCT 59.443 45.455 0.00 0.00 0.00 3.10
782 791 2.942710 TCGTGTTTTGATCCGACTCTC 58.057 47.619 0.00 0.00 0.00 3.20
783 792 3.005472 TCTTCGTGTTTTGATCCGACTCT 59.995 43.478 0.00 0.00 0.00 3.24
845 886 1.127397 CGAACGTACGTAGCAGAGACA 59.873 52.381 23.12 0.00 0.00 3.41
884 925 4.919168 GCAATCGTACGTGCACCTTATATA 59.081 41.667 21.76 0.00 40.58 0.86
886 927 3.117794 GCAATCGTACGTGCACCTTATA 58.882 45.455 21.76 0.00 40.58 0.98
887 928 1.931172 GCAATCGTACGTGCACCTTAT 59.069 47.619 21.76 1.40 40.58 1.73
888 929 1.352114 GCAATCGTACGTGCACCTTA 58.648 50.000 21.76 0.00 40.58 2.69
889 930 1.296056 GGCAATCGTACGTGCACCTT 61.296 55.000 26.00 0.40 42.74 3.50
890 931 1.740296 GGCAATCGTACGTGCACCT 60.740 57.895 26.00 1.77 42.74 4.00
969 1011 3.180891 TGCTCGATCTCTTCTCTCGTA 57.819 47.619 0.00 0.00 34.19 3.43
1265 1328 4.953868 TGTTGGTGTCGTCGGCGG 62.954 66.667 10.62 0.00 38.89 6.13
1266 1329 2.938823 CTTGTTGGTGTCGTCGGCG 61.939 63.158 1.15 1.15 39.92 6.46
1267 1330 2.935955 CTTGTTGGTGTCGTCGGC 59.064 61.111 0.00 0.00 0.00 5.54
1268 1331 1.885388 TGCTTGTTGGTGTCGTCGG 60.885 57.895 0.00 0.00 0.00 4.79
1269 1332 1.275657 GTGCTTGTTGGTGTCGTCG 59.724 57.895 0.00 0.00 0.00 5.12
1270 1333 1.275657 CGTGCTTGTTGGTGTCGTC 59.724 57.895 0.00 0.00 0.00 4.20
1548 1611 1.307430 GGCCTCCTCCTCCTCCTTT 60.307 63.158 0.00 0.00 0.00 3.11
1581 1644 3.551496 CTCGTTGAAGGCCCAGGCA 62.551 63.158 11.50 0.00 44.11 4.75
1604 1667 5.979517 ACACTAGCTAAAACTCGTAAACGTT 59.020 36.000 0.00 0.00 40.80 3.99
1609 1672 7.301054 GTGAGTACACTAGCTAAAACTCGTAA 58.699 38.462 14.65 1.95 42.99 3.18
1610 1673 6.835914 GTGAGTACACTAGCTAAAACTCGTA 58.164 40.000 14.65 1.84 42.99 3.43
1611 1674 5.697826 GTGAGTACACTAGCTAAAACTCGT 58.302 41.667 14.65 0.00 42.99 4.18
1625 1688 3.202829 TGAAACCCCAAGTGAGTACAC 57.797 47.619 0.00 0.00 46.24 2.90
1626 1689 3.650942 AGATGAAACCCCAAGTGAGTACA 59.349 43.478 0.00 0.00 0.00 2.90
1627 1690 4.287766 AGATGAAACCCCAAGTGAGTAC 57.712 45.455 0.00 0.00 0.00 2.73
1628 1691 4.993705 AAGATGAAACCCCAAGTGAGTA 57.006 40.909 0.00 0.00 0.00 2.59
1629 1692 3.884037 AAGATGAAACCCCAAGTGAGT 57.116 42.857 0.00 0.00 0.00 3.41
1630 1693 3.305608 GCAAAGATGAAACCCCAAGTGAG 60.306 47.826 0.00 0.00 0.00 3.51
1631 1694 2.627699 GCAAAGATGAAACCCCAAGTGA 59.372 45.455 0.00 0.00 0.00 3.41
1632 1695 2.364970 TGCAAAGATGAAACCCCAAGTG 59.635 45.455 0.00 0.00 0.00 3.16
1633 1696 2.629617 CTGCAAAGATGAAACCCCAAGT 59.370 45.455 0.00 0.00 0.00 3.16
1634 1697 2.611224 GCTGCAAAGATGAAACCCCAAG 60.611 50.000 0.00 0.00 0.00 3.61
1635 1698 1.344114 GCTGCAAAGATGAAACCCCAA 59.656 47.619 0.00 0.00 0.00 4.12
1636 1699 0.968405 GCTGCAAAGATGAAACCCCA 59.032 50.000 0.00 0.00 0.00 4.96
1637 1700 1.067354 CAGCTGCAAAGATGAAACCCC 60.067 52.381 0.00 0.00 0.00 4.95
1638 1701 1.670967 GCAGCTGCAAAGATGAAACCC 60.671 52.381 33.36 0.00 41.59 4.11
1639 1702 1.271656 AGCAGCTGCAAAGATGAAACC 59.728 47.619 38.24 6.24 45.16 3.27
1640 1703 2.719426 AGCAGCTGCAAAGATGAAAC 57.281 45.000 38.24 6.46 45.16 2.78
1648 1711 7.727331 AACAAATTAATTAAGCAGCTGCAAA 57.273 28.000 38.24 30.21 45.16 3.68
1653 1716 9.855021 ACGAATTAACAAATTAATTAAGCAGCT 57.145 25.926 0.01 0.00 46.43 4.24
1663 1726 7.586747 AGAAAGGCGACGAATTAACAAATTAA 58.413 30.769 0.00 0.00 34.78 1.40
1664 1727 7.136289 AGAAAGGCGACGAATTAACAAATTA 57.864 32.000 0.00 0.00 0.00 1.40
1665 1728 6.009115 AGAAAGGCGACGAATTAACAAATT 57.991 33.333 0.00 0.00 0.00 1.82
1666 1729 5.622770 AGAAAGGCGACGAATTAACAAAT 57.377 34.783 0.00 0.00 0.00 2.32
1667 1730 5.209240 CAAGAAAGGCGACGAATTAACAAA 58.791 37.500 0.00 0.00 0.00 2.83
1668 1731 4.273969 ACAAGAAAGGCGACGAATTAACAA 59.726 37.500 0.00 0.00 0.00 2.83
1669 1732 3.810941 ACAAGAAAGGCGACGAATTAACA 59.189 39.130 0.00 0.00 0.00 2.41
1670 1733 4.400036 ACAAGAAAGGCGACGAATTAAC 57.600 40.909 0.00 0.00 0.00 2.01
1682 1745 6.956047 AGCTAAAACTCGTAAACAAGAAAGG 58.044 36.000 0.00 0.00 0.00 3.11
1683 1746 8.762426 ACTAGCTAAAACTCGTAAACAAGAAAG 58.238 33.333 0.00 0.00 0.00 2.62
1702 1765 4.456535 TCAAAAACCAAGCACACTAGCTA 58.543 39.130 0.00 0.00 45.89 3.32
1712 1775 3.467374 TCCACCAATCAAAAACCAAGC 57.533 42.857 0.00 0.00 0.00 4.01
1725 1788 5.441500 TCTGATACACAAAGTTTCCACCAA 58.558 37.500 0.00 0.00 0.00 3.67
1726 1789 5.042463 TCTGATACACAAAGTTTCCACCA 57.958 39.130 0.00 0.00 0.00 4.17
1818 1883 6.127479 TGCTATCCAACTCAAACAAACAAACT 60.127 34.615 0.00 0.00 0.00 2.66
1849 1914 7.014615 AGCAATTGGAAACTCAGACTTATGTTT 59.985 33.333 7.72 0.00 35.64 2.83
1936 2007 2.124695 GGCTAGGGTTTGGAGCCG 60.125 66.667 0.00 0.00 45.94 5.52
1959 2030 3.237741 GATCAGGAGAGGGGCCGG 61.238 72.222 0.00 0.00 0.00 6.13
1998 2069 2.582498 GTTCCGACGGGATGCTCG 60.582 66.667 15.25 0.00 43.41 5.03
2006 2077 3.875727 TCTTAGATCTAGTGTTCCGACGG 59.124 47.826 7.84 7.84 0.00 4.79
2038 2112 2.301577 ACGAGGAAGACATTGCTAGC 57.698 50.000 8.10 8.10 37.20 3.42
2046 2120 3.492656 CCAACAAGAGAACGAGGAAGACA 60.493 47.826 0.00 0.00 0.00 3.41
2054 2128 3.146066 CCCAAATCCAACAAGAGAACGA 58.854 45.455 0.00 0.00 0.00 3.85
2055 2129 2.351738 GCCCAAATCCAACAAGAGAACG 60.352 50.000 0.00 0.00 0.00 3.95
2066 2140 0.893270 CCACAACGAGCCCAAATCCA 60.893 55.000 0.00 0.00 0.00 3.41
2076 2150 1.352156 GCGACCTAAGCCACAACGAG 61.352 60.000 0.00 0.00 0.00 4.18
2077 2151 1.373748 GCGACCTAAGCCACAACGA 60.374 57.895 0.00 0.00 0.00 3.85
2078 2152 2.726691 CGCGACCTAAGCCACAACG 61.727 63.158 0.00 0.00 0.00 4.10
2079 2153 2.388232 CCGCGACCTAAGCCACAAC 61.388 63.158 8.23 0.00 0.00 3.32
2080 2154 2.047655 CCGCGACCTAAGCCACAA 60.048 61.111 8.23 0.00 0.00 3.33
2081 2155 1.895020 ATTCCGCGACCTAAGCCACA 61.895 55.000 8.23 0.00 0.00 4.17
2082 2156 1.152383 GATTCCGCGACCTAAGCCAC 61.152 60.000 8.23 0.00 0.00 5.01
2083 2157 1.143183 GATTCCGCGACCTAAGCCA 59.857 57.895 8.23 0.00 0.00 4.75
2084 2158 1.594564 GGATTCCGCGACCTAAGCC 60.595 63.158 8.23 4.74 0.00 4.35
2085 2159 1.949631 CGGATTCCGCGACCTAAGC 60.950 63.158 12.95 0.00 41.17 3.09
2086 2160 1.299926 CCGGATTCCGCGACCTAAG 60.300 63.158 19.80 0.00 46.86 2.18
2087 2161 2.788640 CCCGGATTCCGCGACCTAA 61.789 63.158 19.80 0.00 46.86 2.69
2088 2162 3.221389 CCCGGATTCCGCGACCTA 61.221 66.667 19.80 0.00 46.86 3.08
2094 2168 2.108362 CTACCACCCGGATTCCGC 59.892 66.667 19.80 0.00 46.86 5.54
2101 2175 0.390735 GCTGTGTAACTACCACCCGG 60.391 60.000 0.00 0.00 38.04 5.73
2103 2177 1.338769 CCTGCTGTGTAACTACCACCC 60.339 57.143 0.00 0.00 38.04 4.61
2110 2184 1.301716 CACCGCCTGCTGTGTAACT 60.302 57.895 5.63 0.00 38.04 2.24
2113 2187 4.015406 CCCACCGCCTGCTGTGTA 62.015 66.667 11.81 0.00 30.77 2.90
2124 2198 1.320344 TGATCTCGAGAACCCCACCG 61.320 60.000 20.91 0.00 0.00 4.94
2129 2203 3.685272 GGTTTCTTTGATCTCGAGAACCC 59.315 47.826 20.91 12.09 0.00 4.11
2143 2217 1.136110 CGTTGTGGCAAGGGTTTCTTT 59.864 47.619 0.00 0.00 32.41 2.52
2176 2264 3.003173 CTCCAAGGAGGTGGGCGA 61.003 66.667 8.28 0.00 39.34 5.54
2200 2288 1.893801 GGGTGGGATAGGATACGTGAG 59.106 57.143 0.00 0.00 46.39 3.51
2204 2292 1.831736 GGATGGGTGGGATAGGATACG 59.168 57.143 0.00 0.00 46.39 3.06
2210 2298 0.194587 AGGGAGGATGGGTGGGATAG 59.805 60.000 0.00 0.00 0.00 2.08
2229 2317 6.832520 TTTCAGCTTTTCACCTATATGCAA 57.167 33.333 0.00 0.00 0.00 4.08
2246 2334 1.090728 GCTGGAGCTAGGTTTTCAGC 58.909 55.000 21.24 21.24 40.30 4.26
2259 2347 0.397941 TTGTCAGACCCAAGCTGGAG 59.602 55.000 0.00 0.00 40.96 3.86
2263 2351 0.846693 ACCTTTGTCAGACCCAAGCT 59.153 50.000 0.00 0.00 0.00 3.74
2273 2361 0.179032 ACATCGTGGCACCTTTGTCA 60.179 50.000 12.86 0.00 33.92 3.58
2276 2364 1.497278 CGACATCGTGGCACCTTTG 59.503 57.895 12.86 9.59 34.11 2.77
2288 2376 2.842485 CCAAGTACGACGTAACGACATC 59.158 50.000 9.72 0.00 37.03 3.06
2294 2382 1.981533 GCAGTCCAAGTACGACGTAAC 59.018 52.381 9.72 3.98 35.33 2.50
2297 2385 0.318445 GTGCAGTCCAAGTACGACGT 60.318 55.000 5.52 5.52 35.33 4.34
2299 2387 1.792949 CTTGTGCAGTCCAAGTACGAC 59.207 52.381 7.25 0.00 35.63 4.34
2300 2388 2.148916 CTTGTGCAGTCCAAGTACGA 57.851 50.000 7.25 0.00 35.63 3.43
2305 2393 1.873591 GTACCACTTGTGCAGTCCAAG 59.126 52.381 12.60 12.60 43.87 3.61
2306 2394 1.488812 AGTACCACTTGTGCAGTCCAA 59.511 47.619 0.00 0.00 30.92 3.53
2307 2395 1.128200 AGTACCACTTGTGCAGTCCA 58.872 50.000 0.00 0.00 30.92 4.02
2308 2396 2.256117 AAGTACCACTTGTGCAGTCC 57.744 50.000 0.00 0.00 37.00 3.85
2317 2405 2.151202 CGTGCAATCCAAGTACCACTT 58.849 47.619 0.00 0.00 39.39 3.16
2318 2406 1.610624 CCGTGCAATCCAAGTACCACT 60.611 52.381 0.00 0.00 0.00 4.00
2319 2407 0.802494 CCGTGCAATCCAAGTACCAC 59.198 55.000 0.00 0.00 0.00 4.16
2320 2408 0.322098 CCCGTGCAATCCAAGTACCA 60.322 55.000 0.00 0.00 0.00 3.25
2321 2409 0.322187 ACCCGTGCAATCCAAGTACC 60.322 55.000 0.00 0.00 0.00 3.34
2322 2410 0.802494 CACCCGTGCAATCCAAGTAC 59.198 55.000 0.00 0.00 0.00 2.73
2348 2436 0.962356 CCACCAGCACATCCCAACTC 60.962 60.000 0.00 0.00 0.00 3.01
2358 2446 3.977244 CAAACCCGCCACCAGCAC 61.977 66.667 0.00 0.00 44.04 4.40
2368 2456 0.744281 AAAGCTCCACAACAAACCCG 59.256 50.000 0.00 0.00 0.00 5.28
2380 2468 4.035675 GCCACATAACATAGTCAAAGCTCC 59.964 45.833 0.00 0.00 0.00 4.70
2381 2469 4.635765 TGCCACATAACATAGTCAAAGCTC 59.364 41.667 0.00 0.00 0.00 4.09
2387 2475 3.118408 GGGACTGCCACATAACATAGTCA 60.118 47.826 0.00 0.00 37.01 3.41
2392 2480 0.107214 CCGGGACTGCCACATAACAT 60.107 55.000 0.00 0.00 35.15 2.71
2412 2500 2.028484 GAACACGAGTGTCGCCCA 59.972 61.111 9.48 0.00 45.12 5.36
2413 2501 2.737376 GGAACACGAGTGTCGCCC 60.737 66.667 9.48 7.78 45.12 6.13
2417 2505 1.200484 GAGGAGAGGAACACGAGTGTC 59.800 57.143 9.48 3.73 44.13 3.67
2419 2507 1.201181 CTGAGGAGAGGAACACGAGTG 59.799 57.143 1.13 1.13 0.00 3.51
2420 2508 1.540267 CTGAGGAGAGGAACACGAGT 58.460 55.000 0.00 0.00 0.00 4.18
2421 2509 0.814457 CCTGAGGAGAGGAACACGAG 59.186 60.000 0.00 0.00 34.69 4.18
2422 2510 1.251527 GCCTGAGGAGAGGAACACGA 61.252 60.000 0.65 0.00 34.69 4.35
2424 2512 1.194781 TGGCCTGAGGAGAGGAACAC 61.195 60.000 0.65 0.00 34.69 3.32
2445 2540 1.277739 GCGATGCGATGTGGACATG 59.722 57.895 0.00 0.00 36.57 3.21
2449 2544 0.176910 TAAAGGCGATGCGATGTGGA 59.823 50.000 0.00 0.00 0.00 4.02
2451 2546 1.268032 GGTTAAAGGCGATGCGATGTG 60.268 52.381 0.00 0.00 0.00 3.21
2452 2547 1.014352 GGTTAAAGGCGATGCGATGT 58.986 50.000 0.00 0.00 0.00 3.06
2453 2548 0.307760 GGGTTAAAGGCGATGCGATG 59.692 55.000 0.00 0.00 0.00 3.84
2454 2549 1.157870 CGGGTTAAAGGCGATGCGAT 61.158 55.000 0.00 0.00 0.00 4.58
2455 2550 1.812093 CGGGTTAAAGGCGATGCGA 60.812 57.895 0.00 0.00 0.00 5.10
2456 2551 2.707039 CGGGTTAAAGGCGATGCG 59.293 61.111 0.00 0.00 0.00 4.73
2467 2562 1.910671 ACTTGCTACAATCCCGGGTTA 59.089 47.619 22.86 1.03 0.00 2.85
2468 2563 0.696501 ACTTGCTACAATCCCGGGTT 59.303 50.000 22.86 9.98 0.00 4.11
2473 2568 0.252197 ACCGGACTTGCTACAATCCC 59.748 55.000 9.46 0.00 0.00 3.85
2479 2574 2.074576 GGAAGAAACCGGACTTGCTAC 58.925 52.381 9.46 0.00 33.04 3.58
2480 2575 2.467566 GGAAGAAACCGGACTTGCTA 57.532 50.000 9.46 0.00 33.04 3.49
2481 2576 3.324207 GGAAGAAACCGGACTTGCT 57.676 52.632 9.46 0.00 33.04 3.91
2512 2607 8.535592 CAAATAGACACAATGAGATAAGTCGAC 58.464 37.037 7.70 7.70 0.00 4.20
2514 2609 7.706607 TCCAAATAGACACAATGAGATAAGTCG 59.293 37.037 0.00 0.00 0.00 4.18
2525 2620 9.479549 AGGAAACATAATCCAAATAGACACAAT 57.520 29.630 0.00 0.00 39.55 2.71
2527 2622 7.888021 ACAGGAAACATAATCCAAATAGACACA 59.112 33.333 0.00 0.00 39.55 3.72
2534 2629 6.022315 TCCCAACAGGAAACATAATCCAAAT 58.978 36.000 0.00 0.00 43.78 2.32
2552 2647 6.790285 TTTTGAGATTACTACGTTCCCAAC 57.210 37.500 0.00 0.00 0.00 3.77
2574 2669 1.604755 TGCGTGCGTGTAGGAATTTTT 59.395 42.857 0.00 0.00 0.00 1.94
2575 2670 1.231221 TGCGTGCGTGTAGGAATTTT 58.769 45.000 0.00 0.00 0.00 1.82
2576 2671 1.196808 CTTGCGTGCGTGTAGGAATTT 59.803 47.619 0.00 0.00 0.00 1.82
2577 2672 0.796312 CTTGCGTGCGTGTAGGAATT 59.204 50.000 0.00 0.00 0.00 2.17
2578 2673 0.037697 TCTTGCGTGCGTGTAGGAAT 60.038 50.000 0.00 0.00 0.00 3.01
2579 2674 0.037697 ATCTTGCGTGCGTGTAGGAA 60.038 50.000 0.00 0.00 0.00 3.36
2580 2675 0.457853 GATCTTGCGTGCGTGTAGGA 60.458 55.000 0.00 0.00 0.00 2.94
2581 2676 0.735978 TGATCTTGCGTGCGTGTAGG 60.736 55.000 0.00 0.00 0.00 3.18
2582 2677 1.005662 CATGATCTTGCGTGCGTGTAG 60.006 52.381 0.00 0.00 0.00 2.74
2583 2678 0.998669 CATGATCTTGCGTGCGTGTA 59.001 50.000 0.00 0.00 0.00 2.90
2584 2679 1.789751 CATGATCTTGCGTGCGTGT 59.210 52.632 0.00 0.00 0.00 4.49
2585 2680 4.657077 CATGATCTTGCGTGCGTG 57.343 55.556 0.00 0.00 0.00 5.34


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

AutoCloner maintained by Alex Coulton.