Multiple sequence alignment - TraesCS5A01G045300

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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 TraesCS5A01G045300 chr5A 100.000 6378 0 0 1 6378 41301789 41308166 0.000000e+00 11779.0
1 TraesCS5A01G045300 chr5A 97.297 74 2 0 1 74 464194225 464194298 6.710000e-25 126.0
2 TraesCS5A01G045300 chr5A 93.827 81 3 1 1 79 566644160 566644080 3.120000e-23 121.0
3 TraesCS5A01G045300 chr5D 94.567 4804 146 42 70 4825 52053638 52058374 0.000000e+00 7319.0
4 TraesCS5A01G045300 chr5D 93.448 1572 56 19 4826 6378 52058405 52059948 0.000000e+00 2289.0
5 TraesCS5A01G045300 chr5D 92.857 168 11 1 4573 4740 6260085 6260251 6.390000e-60 243.0
6 TraesCS5A01G045300 chr5D 97.297 74 2 0 1 74 419437783 419437710 6.710000e-25 126.0
7 TraesCS5A01G045300 chr5B 93.614 2803 97 33 518 3295 55179032 55181777 0.000000e+00 4109.0
8 TraesCS5A01G045300 chr5B 92.962 1563 52 27 4845 6378 55184076 55185609 0.000000e+00 2224.0
9 TraesCS5A01G045300 chr5B 94.621 1041 40 5 3785 4825 55182994 55184018 0.000000e+00 1598.0
10 TraesCS5A01G045300 chr5B 97.217 503 14 0 3281 3783 55182330 55182832 0.000000e+00 852.0
11 TraesCS5A01G045300 chr5B 89.724 399 15 9 127 509 55178242 55178630 2.670000e-133 486.0
12 TraesCS5A01G045300 chr2A 89.815 108 9 2 4586 4692 162274856 162274750 3.100000e-28 137.0
13 TraesCS5A01G045300 chr7A 96.203 79 3 0 1 79 37892316 37892394 5.190000e-26 130.0
14 TraesCS5A01G045300 chr1A 95.122 82 2 2 1 80 567629939 567629858 1.870000e-25 128.0
15 TraesCS5A01G045300 chr2B 97.297 74 2 0 1 74 698502577 698502650 6.710000e-25 126.0
16 TraesCS5A01G045300 chr7B 97.260 73 2 0 1 73 491171070 491170998 2.410000e-24 124.0
17 TraesCS5A01G045300 chr6A 95.000 80 3 1 1 80 451606211 451606289 2.410000e-24 124.0
18 TraesCS5A01G045300 chr1D 94.937 79 4 0 1 79 209564462 209564384 2.410000e-24 124.0
19 TraesCS5A01G045300 chr6B 94.118 51 3 0 977 1027 145900615 145900665 1.910000e-10 78.7


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 TraesCS5A01G045300 chr5A 41301789 41308166 6377 False 11779.0 11779 100.0000 1 6378 1 chr5A.!!$F1 6377
1 TraesCS5A01G045300 chr5D 52053638 52059948 6310 False 4804.0 7319 94.0075 70 6378 2 chr5D.!!$F2 6308
2 TraesCS5A01G045300 chr5B 55178242 55185609 7367 False 1853.8 4109 93.6276 127 6378 5 chr5B.!!$F1 6251

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
70 71 0.253160 TCCCCACTATGACCAGCCTT 60.253 55.000 0.00 0.0 0.00 4.35 F
895 1332 0.318699 GGAAAGTTGGTTCTTGCGGC 60.319 55.000 0.00 0.0 0.00 6.53 F
974 1411 0.392998 CCCCGGAGTTGACCAATCTG 60.393 60.000 0.73 0.0 0.00 2.90 F
975 1412 0.392998 CCCGGAGTTGACCAATCTGG 60.393 60.000 0.73 0.0 45.02 3.86 F
2165 2616 2.224744 TGGTCATGCAGGTTGTATGTGT 60.225 45.455 0.00 0.0 40.62 3.72 F
2807 3258 1.597742 TCAGTCAGCTTTTGAGGCAC 58.402 50.000 0.00 0.0 36.21 5.01 F
3251 3702 3.031736 TGCTACCCCTCAACAGATACTC 58.968 50.000 0.00 0.0 0.00 2.59 F
4066 5244 0.523072 CCGATGTTGGGTTTGAGCAG 59.477 55.000 0.00 0.0 0.00 4.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1343 1780 0.323178 CCAAAGCAGCAGGTGAGGAT 60.323 55.000 3.02 0.0 0.00 3.24 R
1921 2372 0.535780 CAGCTCCCTGAAACAGTGCA 60.536 55.000 0.00 0.0 41.77 4.57 R
2301 2752 1.419012 TCCCTCATATCCTTGCAGCAG 59.581 52.381 0.00 0.0 0.00 4.24 R
2402 2853 1.528129 GTTCACTTTCAGGAGCAGGG 58.472 55.000 0.00 0.0 0.00 4.45 R
3368 4386 1.072505 TCCAAAACAGGAGGGTCGC 59.927 57.895 0.00 0.0 32.77 5.19 R
3903 5081 5.104193 AGTGCCAGGATTCAGAAGATTATGT 60.104 40.000 0.00 0.0 0.00 2.29 R
5036 6264 2.161609 CACCGCAACATCCTTTCCTTAC 59.838 50.000 0.00 0.0 0.00 2.34 R
5668 6899 0.950555 GCACTGATGGAGTTCGCACA 60.951 55.000 0.00 0.0 29.75 4.57 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
28 29 8.414778 AGGTATTAACTTAGACTAGTGTCATGC 58.585 37.037 0.00 0.00 45.20 4.06
29 30 8.195436 GGTATTAACTTAGACTAGTGTCATGCA 58.805 37.037 0.00 0.00 45.20 3.96
30 31 9.751542 GTATTAACTTAGACTAGTGTCATGCAT 57.248 33.333 0.00 0.00 45.20 3.96
33 34 9.750125 TTAACTTAGACTAGTGTCATGCATATG 57.250 33.333 0.00 0.00 45.20 1.78
34 35 7.588497 ACTTAGACTAGTGTCATGCATATGA 57.412 36.000 6.97 0.00 45.20 2.15
52 53 9.582431 TGCATATGACACTAGTTTAAGTTACTC 57.418 33.333 6.97 0.00 0.00 2.59
53 54 9.032420 GCATATGACACTAGTTTAAGTTACTCC 57.968 37.037 6.97 0.00 0.00 3.85
54 55 9.530633 CATATGACACTAGTTTAAGTTACTCCC 57.469 37.037 0.00 0.00 0.00 4.30
55 56 6.350629 TGACACTAGTTTAAGTTACTCCCC 57.649 41.667 0.00 0.00 0.00 4.81
56 57 5.840149 TGACACTAGTTTAAGTTACTCCCCA 59.160 40.000 0.00 0.00 0.00 4.96
57 58 6.106648 ACACTAGTTTAAGTTACTCCCCAC 57.893 41.667 0.00 0.00 0.00 4.61
58 59 5.842874 ACACTAGTTTAAGTTACTCCCCACT 59.157 40.000 0.00 0.00 0.00 4.00
59 60 7.012607 ACACTAGTTTAAGTTACTCCCCACTA 58.987 38.462 0.00 0.00 0.00 2.74
60 61 7.677319 ACACTAGTTTAAGTTACTCCCCACTAT 59.323 37.037 0.00 0.00 0.00 2.12
61 62 7.980099 CACTAGTTTAAGTTACTCCCCACTATG 59.020 40.741 0.00 0.00 0.00 2.23
62 63 7.897565 ACTAGTTTAAGTTACTCCCCACTATGA 59.102 37.037 0.00 0.00 0.00 2.15
63 64 6.944096 AGTTTAAGTTACTCCCCACTATGAC 58.056 40.000 0.00 0.00 0.00 3.06
64 65 5.945144 TTAAGTTACTCCCCACTATGACC 57.055 43.478 0.00 0.00 0.00 4.02
65 66 3.484953 AGTTACTCCCCACTATGACCA 57.515 47.619 0.00 0.00 0.00 4.02
66 67 3.375699 AGTTACTCCCCACTATGACCAG 58.624 50.000 0.00 0.00 0.00 4.00
67 68 1.789523 TACTCCCCACTATGACCAGC 58.210 55.000 0.00 0.00 0.00 4.85
68 69 0.983378 ACTCCCCACTATGACCAGCC 60.983 60.000 0.00 0.00 0.00 4.85
69 70 0.692419 CTCCCCACTATGACCAGCCT 60.692 60.000 0.00 0.00 0.00 4.58
70 71 0.253160 TCCCCACTATGACCAGCCTT 60.253 55.000 0.00 0.00 0.00 4.35
71 72 1.009060 TCCCCACTATGACCAGCCTTA 59.991 52.381 0.00 0.00 0.00 2.69
72 73 1.417890 CCCCACTATGACCAGCCTTAG 59.582 57.143 0.00 0.00 0.00 2.18
73 74 2.398588 CCCACTATGACCAGCCTTAGA 58.601 52.381 0.00 0.00 0.00 2.10
74 75 2.975489 CCCACTATGACCAGCCTTAGAT 59.025 50.000 0.00 0.00 0.00 1.98
75 76 3.007398 CCCACTATGACCAGCCTTAGATC 59.993 52.174 0.00 0.00 0.00 2.75
76 77 3.900601 CCACTATGACCAGCCTTAGATCT 59.099 47.826 0.00 0.00 0.00 2.75
77 78 5.080337 CCACTATGACCAGCCTTAGATCTA 58.920 45.833 0.00 0.00 0.00 1.98
78 79 5.184864 CCACTATGACCAGCCTTAGATCTAG 59.815 48.000 2.02 0.00 0.00 2.43
79 80 5.772672 CACTATGACCAGCCTTAGATCTAGT 59.227 44.000 2.02 0.00 0.00 2.57
80 81 6.943146 CACTATGACCAGCCTTAGATCTAGTA 59.057 42.308 2.02 0.00 0.00 1.82
81 82 7.120579 CACTATGACCAGCCTTAGATCTAGTAG 59.879 44.444 2.02 0.00 0.00 2.57
172 174 9.127277 TGCCATAAAACCATTAATTAGTACTCC 57.873 33.333 0.00 0.00 0.00 3.85
201 203 5.046087 ACATCCACAGTCATCATCTTCTCAA 60.046 40.000 0.00 0.00 0.00 3.02
202 204 5.488262 TCCACAGTCATCATCTTCTCAAA 57.512 39.130 0.00 0.00 0.00 2.69
203 205 6.058553 TCCACAGTCATCATCTTCTCAAAT 57.941 37.500 0.00 0.00 0.00 2.32
204 206 6.111382 TCCACAGTCATCATCTTCTCAAATC 58.889 40.000 0.00 0.00 0.00 2.17
205 207 5.878669 CCACAGTCATCATCTTCTCAAATCA 59.121 40.000 0.00 0.00 0.00 2.57
206 208 6.373495 CCACAGTCATCATCTTCTCAAATCAA 59.627 38.462 0.00 0.00 0.00 2.57
236 241 4.232091 ACCACTCACTTCCCTCTCTAAAA 58.768 43.478 0.00 0.00 0.00 1.52
249 254 1.925847 CTCTAAAAGCTGAGCAGAGCG 59.074 52.381 7.39 0.00 44.24 5.03
315 331 2.996734 CCACCACAACCCCATGCC 60.997 66.667 0.00 0.00 0.00 4.40
367 397 2.050918 CTCTCCTCCCAACCCTAATCC 58.949 57.143 0.00 0.00 0.00 3.01
509 539 2.203337 CACCACCACCACCACCAG 60.203 66.667 0.00 0.00 0.00 4.00
510 540 2.694616 ACCACCACCACCACCAGT 60.695 61.111 0.00 0.00 0.00 4.00
515 560 1.296715 CCACCACCACCAGTAGAGC 59.703 63.158 0.00 0.00 0.00 4.09
516 561 1.480212 CCACCACCACCAGTAGAGCA 61.480 60.000 0.00 0.00 0.00 4.26
522 567 1.896465 ACCACCAGTAGAGCAAGAGAC 59.104 52.381 0.00 0.00 0.00 3.36
523 568 1.135257 CCACCAGTAGAGCAAGAGACG 60.135 57.143 0.00 0.00 0.00 4.18
527 948 1.099689 AGTAGAGCAAGAGACGGAGC 58.900 55.000 0.00 0.00 0.00 4.70
767 1201 1.219393 GCCTCATATAGCTCCGGGC 59.781 63.158 0.00 3.80 42.19 6.13
786 1220 1.421410 CCTCGATCCGCTGGTTTTCG 61.421 60.000 0.00 9.23 0.00 3.46
895 1332 0.318699 GGAAAGTTGGTTCTTGCGGC 60.319 55.000 0.00 0.00 0.00 6.53
971 1408 2.355115 GCCCCGGAGTTGACCAAT 59.645 61.111 0.73 0.00 0.00 3.16
972 1409 1.749258 GCCCCGGAGTTGACCAATC 60.749 63.158 0.73 0.00 0.00 2.67
973 1410 1.991230 CCCCGGAGTTGACCAATCT 59.009 57.895 0.73 0.00 0.00 2.40
974 1411 0.392998 CCCCGGAGTTGACCAATCTG 60.393 60.000 0.73 0.00 0.00 2.90
975 1412 0.392998 CCCGGAGTTGACCAATCTGG 60.393 60.000 0.73 0.00 45.02 3.86
1182 1619 4.869440 CTCCTGCTCGAGGCGCTG 62.869 72.222 15.58 4.80 45.43 5.18
1339 1776 2.419673 CTGGTTCGTGCTGCAAATCATA 59.580 45.455 2.77 0.00 0.00 2.15
1340 1777 2.816672 TGGTTCGTGCTGCAAATCATAA 59.183 40.909 2.77 0.00 0.00 1.90
1341 1778 3.443329 TGGTTCGTGCTGCAAATCATAAT 59.557 39.130 2.77 0.00 0.00 1.28
1342 1779 4.037690 GGTTCGTGCTGCAAATCATAATC 58.962 43.478 2.77 0.00 0.00 1.75
1343 1780 4.438608 GGTTCGTGCTGCAAATCATAATCA 60.439 41.667 2.77 0.00 0.00 2.57
1344 1781 5.276270 GTTCGTGCTGCAAATCATAATCAT 58.724 37.500 2.77 0.00 0.00 2.45
1348 1785 5.458891 GTGCTGCAAATCATAATCATCCTC 58.541 41.667 2.77 0.00 0.00 3.71
1349 1786 5.009310 GTGCTGCAAATCATAATCATCCTCA 59.991 40.000 2.77 0.00 0.00 3.86
1350 1787 5.009310 TGCTGCAAATCATAATCATCCTCAC 59.991 40.000 0.00 0.00 0.00 3.51
1351 1788 5.564259 GCTGCAAATCATAATCATCCTCACC 60.564 44.000 0.00 0.00 0.00 4.02
1403 1844 6.942532 TTACTGGATAAGGATTTGTCATGC 57.057 37.500 0.00 0.00 0.00 4.06
1441 1882 3.130869 TGATTGTGGATTGCATGTTAGGC 59.869 43.478 0.00 0.00 0.00 3.93
1468 1909 9.098355 TGCATCTTTACTAAAGTAGCATAGTTG 57.902 33.333 18.35 3.38 41.03 3.16
1513 1960 7.272978 AGTAGAACGCCATTAAACTATCACAT 58.727 34.615 0.00 0.00 0.00 3.21
1518 1965 6.728200 ACGCCATTAAACTATCACATGATTG 58.272 36.000 0.00 0.68 36.05 2.67
1527 1974 6.387041 ACTATCACATGATTGATTGGCTTG 57.613 37.500 9.80 0.00 37.42 4.01
1539 1986 5.756195 TGATTGGCTTGATGTATTACTGC 57.244 39.130 0.00 0.00 0.00 4.40
1568 2018 7.279536 AGTGTAATCTGATGTCATGCTTTAGTG 59.720 37.037 0.00 0.00 0.00 2.74
1609 2059 8.684386 TCTAGATTCTATCTGTCCACTGTTAG 57.316 38.462 0.00 0.00 40.51 2.34
1626 2076 5.293569 ACTGTTAGAGACGTTTGGAAGTTTG 59.706 40.000 0.00 0.00 0.00 2.93
1689 2140 3.261580 TGCACCACTGAATCAGTAATCG 58.738 45.455 16.28 3.54 43.43 3.34
1797 2248 8.927411 TGTCTCTTGTTCCATCATCATCTAATA 58.073 33.333 0.00 0.00 0.00 0.98
1828 2279 8.572855 ACTTACTTAATTAGTACGACCTCTGT 57.427 34.615 0.00 0.00 39.05 3.41
1829 2280 9.672673 ACTTACTTAATTAGTACGACCTCTGTA 57.327 33.333 0.00 0.00 39.05 2.74
1832 2283 7.994194 ACTTAATTAGTACGACCTCTGTAAGG 58.006 38.462 0.00 0.00 42.81 2.69
1848 2299 7.299246 TCTGTAAGGTAGTAACTTCTGCTTT 57.701 36.000 3.03 0.00 0.00 3.51
1882 2333 5.319043 ACAAGTTTCCCATGTAAGAAGGA 57.681 39.130 0.00 0.00 0.00 3.36
1883 2334 5.892348 ACAAGTTTCCCATGTAAGAAGGAT 58.108 37.500 0.00 0.00 0.00 3.24
1916 2367 9.994432 GAAGAGGTTATGTTATCTGATTGTTTG 57.006 33.333 0.00 0.00 0.00 2.93
1921 2372 8.686334 GGTTATGTTATCTGATTGTTTGATGGT 58.314 33.333 0.00 0.00 0.00 3.55
2002 2453 6.472887 CCTTCTTATTGTAGGACTGTTTGGA 58.527 40.000 0.00 0.00 35.50 3.53
2005 2456 9.667107 CTTCTTATTGTAGGACTGTTTGGAATA 57.333 33.333 0.00 0.00 0.00 1.75
2165 2616 2.224744 TGGTCATGCAGGTTGTATGTGT 60.225 45.455 0.00 0.00 40.62 3.72
2301 2752 6.005583 TGACAAATGATCTTCTGAACAAGC 57.994 37.500 0.00 0.00 0.00 4.01
2402 2853 2.325583 TTCGTGGCTGTGAATATCCC 57.674 50.000 0.00 0.00 0.00 3.85
2471 2922 1.741770 CGCAGCACCTACCCAAGAC 60.742 63.158 0.00 0.00 0.00 3.01
2563 3014 7.159201 AGATGAAGAGGATAATGGATGGTTT 57.841 36.000 0.00 0.00 0.00 3.27
2656 3107 7.730364 ACAGAAAACTGGTAATAGACAACAG 57.270 36.000 0.00 0.00 35.40 3.16
2807 3258 1.597742 TCAGTCAGCTTTTGAGGCAC 58.402 50.000 0.00 0.00 36.21 5.01
3003 3454 4.630644 ACAGCTGAGGAAAGAAGAATCA 57.369 40.909 23.35 0.00 0.00 2.57
3118 3569 7.697352 TTTGCACATGATCTTGTTAAGTTTG 57.303 32.000 11.33 0.95 0.00 2.93
3143 3594 3.706698 GCACACAATGCGATCTCTAGTA 58.293 45.455 0.00 0.00 46.55 1.82
3251 3702 3.031736 TGCTACCCCTCAACAGATACTC 58.968 50.000 0.00 0.00 0.00 2.59
3368 4386 8.687824 ATTTCTTAAACAAGGTGATTTATGCG 57.312 30.769 0.00 0.00 0.00 4.73
3628 4646 3.084786 AGGGCATTTGTTAACTGAGAGC 58.915 45.455 7.22 4.84 0.00 4.09
3967 5145 5.941948 ATTTGGTAGAAAACTCAACGAGG 57.058 39.130 0.00 0.00 33.35 4.63
4058 5236 2.671070 CTGAGGCCGATGTTGGGT 59.329 61.111 0.00 0.00 0.00 4.51
4066 5244 0.523072 CCGATGTTGGGTTTGAGCAG 59.477 55.000 0.00 0.00 0.00 4.24
4174 5352 6.151817 GGATGCTCAAAGTACCTTGAATTTCT 59.848 38.462 8.23 0.00 34.96 2.52
4190 5368 9.558396 CTTGAATTTCTAGCTTATCTCAATCCT 57.442 33.333 0.00 0.00 0.00 3.24
4243 5421 4.507710 TCTGCTGAATACAAGACATCACC 58.492 43.478 0.00 0.00 0.00 4.02
4714 5900 1.153369 CCGAGTGTACAGCCCCATG 60.153 63.158 0.00 0.00 0.00 3.66
4720 5906 4.718961 GAGTGTACAGCCCCATGATAATT 58.281 43.478 0.00 0.00 0.00 1.40
5036 6264 4.337274 TGCTGACATGCCATTTTCTGATAG 59.663 41.667 0.00 0.00 0.00 2.08
5192 6421 1.375268 GCGGATAGGATGCCTCAGC 60.375 63.158 0.00 0.00 34.61 4.26
5197 6426 1.824230 GATAGGATGCCTCAGCGATCT 59.176 52.381 0.00 0.00 44.31 2.75
5200 6429 0.599728 GGATGCCTCAGCGATCTCAC 60.600 60.000 0.00 0.00 44.31 3.51
5242 6471 2.203771 GGACGCCGAGATGATCCCT 61.204 63.158 0.00 0.00 0.00 4.20
5455 6684 5.188948 GGGAAAAAGGCAATAATACAAGGGT 59.811 40.000 0.00 0.00 0.00 4.34
5561 6791 8.753497 AAGGAACTCTTAAATGAAAAGACAGT 57.247 30.769 0.00 0.00 38.49 3.55
5563 6793 7.993183 AGGAACTCTTAAATGAAAAGACAGTGA 59.007 33.333 0.00 0.00 0.00 3.41
5564 6794 8.621286 GGAACTCTTAAATGAAAAGACAGTGAA 58.379 33.333 0.00 0.00 0.00 3.18
5565 6795 9.439537 GAACTCTTAAATGAAAAGACAGTGAAC 57.560 33.333 0.00 0.00 0.00 3.18
5566 6796 7.931275 ACTCTTAAATGAAAAGACAGTGAACC 58.069 34.615 0.00 0.00 0.00 3.62
5567 6797 7.775561 ACTCTTAAATGAAAAGACAGTGAACCT 59.224 33.333 0.00 0.00 0.00 3.50
5569 6799 7.773224 TCTTAAATGAAAAGACAGTGAACCTGA 59.227 33.333 0.00 0.00 44.49 3.86
5570 6800 5.757850 AATGAAAAGACAGTGAACCTGAC 57.242 39.130 0.00 0.00 44.49 3.51
5571 6801 4.487714 TGAAAAGACAGTGAACCTGACT 57.512 40.909 0.00 0.00 46.10 3.41
5572 6802 4.191544 TGAAAAGACAGTGAACCTGACTG 58.808 43.478 0.00 0.00 43.89 3.51
5573 6803 4.081142 TGAAAAGACAGTGAACCTGACTGA 60.081 41.667 6.90 0.00 43.89 3.41
5574 6804 3.742433 AAGACAGTGAACCTGACTGAG 57.258 47.619 6.90 0.00 43.89 3.35
5601 6831 6.739112 ACTGTTGAAATTAGTTTTCTCTGCC 58.261 36.000 0.42 0.00 43.50 4.85
5602 6832 6.321181 ACTGTTGAAATTAGTTTTCTCTGCCA 59.679 34.615 0.42 0.00 43.50 4.92
5614 6844 2.751436 CTGCCATGGGTTCCCACG 60.751 66.667 15.13 4.69 39.13 4.94
5625 6855 1.602377 GGTTCCCACGAGTTGTTTCAG 59.398 52.381 0.00 0.00 0.00 3.02
5668 6899 1.245732 AACACGAGTAGCTCTTCGGT 58.754 50.000 19.86 13.33 0.00 4.69
5689 6920 0.250252 TGCGAACTCCATCAGTGCAA 60.250 50.000 0.00 0.00 32.46 4.08
5697 6928 1.764723 TCCATCAGTGCAAGGATCGAT 59.235 47.619 0.00 0.00 0.00 3.59
5771 7002 3.365767 GCTGCTCTTTCTGAAACATCACC 60.366 47.826 0.00 0.00 0.00 4.02
5808 7039 2.694628 TGTTCATGGAAGCAGCAAGTTT 59.305 40.909 0.00 0.00 0.00 2.66
5838 7071 3.110705 TCATTCTGGAGAAGAGAAGGGG 58.889 50.000 0.00 0.00 37.48 4.79
5839 7072 1.958288 TTCTGGAGAAGAGAAGGGGG 58.042 55.000 0.00 0.00 35.91 5.40
5867 7100 4.082517 GGAAGAAACCTGAAAAGAGATGGC 60.083 45.833 0.00 0.00 0.00 4.40
5951 7184 8.257602 TGCTCTGTAACATTATACCCTGATAA 57.742 34.615 0.00 0.00 0.00 1.75
6031 7265 0.989164 CGCGCTCTGTAACATTTCGA 59.011 50.000 5.56 0.00 0.00 3.71
6036 7270 2.906354 CTCTGTAACATTTCGAGGGGG 58.094 52.381 0.00 0.00 0.00 5.40
6068 7303 4.425772 TCTTGTCCTGGATTGTCTCCTAA 58.574 43.478 0.00 0.00 45.21 2.69
6072 7307 6.485830 TGTCCTGGATTGTCTCCTAATTAG 57.514 41.667 5.43 5.43 45.21 1.73
6073 7308 5.964477 TGTCCTGGATTGTCTCCTAATTAGT 59.036 40.000 11.50 0.00 45.21 2.24
6075 7310 7.069578 TGTCCTGGATTGTCTCCTAATTAGTAC 59.930 40.741 11.50 7.20 45.21 2.73
6077 7312 8.508601 TCCTGGATTGTCTCCTAATTAGTACTA 58.491 37.037 11.50 0.00 45.21 1.82
6078 7313 9.315363 CCTGGATTGTCTCCTAATTAGTACTAT 57.685 37.037 11.50 8.54 45.21 2.12
6107 7342 4.469657 TGCTGGTTAATCTGTTTTCCTGT 58.530 39.130 0.00 0.00 0.00 4.00
6112 7347 6.358178 TGGTTAATCTGTTTTCCTGTGTGTA 58.642 36.000 0.00 0.00 0.00 2.90
6180 7415 3.016736 TGCACTCTATTTTTAGGCTGGC 58.983 45.455 0.00 0.00 0.00 4.85
6200 7435 6.553953 TGGCTATGGTTATTTGTCTGTCTA 57.446 37.500 0.00 0.00 0.00 2.59
6201 7436 6.582636 TGGCTATGGTTATTTGTCTGTCTAG 58.417 40.000 0.00 0.00 0.00 2.43
6202 7437 6.382859 TGGCTATGGTTATTTGTCTGTCTAGA 59.617 38.462 0.00 0.00 0.00 2.43
6203 7438 6.926272 GGCTATGGTTATTTGTCTGTCTAGAG 59.074 42.308 0.00 0.00 32.48 2.43
6205 7440 6.875972 ATGGTTATTTGTCTGTCTAGAGGT 57.124 37.500 0.00 0.00 32.48 3.85
6206 7441 6.681729 TGGTTATTTGTCTGTCTAGAGGTT 57.318 37.500 0.00 0.00 32.48 3.50
6208 7443 8.375493 TGGTTATTTGTCTGTCTAGAGGTTAT 57.625 34.615 0.00 0.00 32.48 1.89
6209 7444 8.822805 TGGTTATTTGTCTGTCTAGAGGTTATT 58.177 33.333 0.00 0.00 32.48 1.40
6210 7445 9.668497 GGTTATTTGTCTGTCTAGAGGTTATTT 57.332 33.333 0.00 0.00 32.48 1.40
6215 7450 9.720769 TTTGTCTGTCTAGAGGTTATTTTTAGG 57.279 33.333 0.00 0.00 32.48 2.69
6216 7451 7.328737 TGTCTGTCTAGAGGTTATTTTTAGGC 58.671 38.462 0.00 0.00 32.48 3.93
6217 7452 7.180408 TGTCTGTCTAGAGGTTATTTTTAGGCT 59.820 37.037 0.00 0.00 32.48 4.58
6319 7567 3.840666 TCCTCTTCTGGAATAGCACTGTT 59.159 43.478 0.00 0.00 32.39 3.16
6320 7568 5.023452 TCCTCTTCTGGAATAGCACTGTTA 58.977 41.667 0.00 0.00 32.39 2.41
6343 7593 1.377725 ATCTTGAGCCCACGCCAAG 60.378 57.895 0.00 0.00 41.16 3.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 9.751542 ATGCATGACACTAGTCTAAGTTAATAC 57.248 33.333 0.00 0.00 45.20 1.89
8 9 9.131791 TCATATGCATGACACTAGTCTAAGTTA 57.868 33.333 10.16 0.00 45.20 2.24
9 10 8.011844 TCATATGCATGACACTAGTCTAAGTT 57.988 34.615 10.16 0.00 45.20 2.66
10 11 7.588497 TCATATGCATGACACTAGTCTAAGT 57.412 36.000 10.16 0.00 45.20 2.24
26 27 9.582431 GAGTAACTTAAACTAGTGTCATATGCA 57.418 33.333 0.00 0.00 0.00 3.96
27 28 9.032420 GGAGTAACTTAAACTAGTGTCATATGC 57.968 37.037 0.00 0.00 0.00 3.14
28 29 9.530633 GGGAGTAACTTAAACTAGTGTCATATG 57.469 37.037 0.00 0.00 0.00 1.78
29 30 8.702819 GGGGAGTAACTTAAACTAGTGTCATAT 58.297 37.037 0.00 0.00 0.00 1.78
30 31 7.675195 TGGGGAGTAACTTAAACTAGTGTCATA 59.325 37.037 0.00 0.00 0.00 2.15
31 32 6.499350 TGGGGAGTAACTTAAACTAGTGTCAT 59.501 38.462 0.00 0.00 0.00 3.06
32 33 5.840149 TGGGGAGTAACTTAAACTAGTGTCA 59.160 40.000 0.00 0.00 0.00 3.58
33 34 6.014755 AGTGGGGAGTAACTTAAACTAGTGTC 60.015 42.308 0.00 0.00 0.00 3.67
34 35 5.842874 AGTGGGGAGTAACTTAAACTAGTGT 59.157 40.000 0.00 0.00 0.00 3.55
35 36 6.356186 AGTGGGGAGTAACTTAAACTAGTG 57.644 41.667 0.00 0.00 0.00 2.74
36 37 7.897565 TCATAGTGGGGAGTAACTTAAACTAGT 59.102 37.037 0.00 0.00 0.00 2.57
37 38 8.196103 GTCATAGTGGGGAGTAACTTAAACTAG 58.804 40.741 0.00 0.00 0.00 2.57
38 39 7.124750 GGTCATAGTGGGGAGTAACTTAAACTA 59.875 40.741 0.00 0.00 0.00 2.24
39 40 6.070366 GGTCATAGTGGGGAGTAACTTAAACT 60.070 42.308 0.00 0.00 0.00 2.66
40 41 6.111382 GGTCATAGTGGGGAGTAACTTAAAC 58.889 44.000 0.00 0.00 0.00 2.01
41 42 5.786457 TGGTCATAGTGGGGAGTAACTTAAA 59.214 40.000 0.00 0.00 0.00 1.52
42 43 5.343715 TGGTCATAGTGGGGAGTAACTTAA 58.656 41.667 0.00 0.00 0.00 1.85
43 44 4.950361 TGGTCATAGTGGGGAGTAACTTA 58.050 43.478 0.00 0.00 0.00 2.24
44 45 3.775316 CTGGTCATAGTGGGGAGTAACTT 59.225 47.826 0.00 0.00 0.00 2.66
45 46 3.375699 CTGGTCATAGTGGGGAGTAACT 58.624 50.000 0.00 0.00 0.00 2.24
46 47 2.158943 GCTGGTCATAGTGGGGAGTAAC 60.159 54.545 0.00 0.00 0.00 2.50
47 48 2.116238 GCTGGTCATAGTGGGGAGTAA 58.884 52.381 0.00 0.00 0.00 2.24
48 49 1.691482 GGCTGGTCATAGTGGGGAGTA 60.691 57.143 0.00 0.00 0.00 2.59
49 50 0.983378 GGCTGGTCATAGTGGGGAGT 60.983 60.000 0.00 0.00 0.00 3.85
50 51 0.692419 AGGCTGGTCATAGTGGGGAG 60.692 60.000 0.00 0.00 0.00 4.30
51 52 0.253160 AAGGCTGGTCATAGTGGGGA 60.253 55.000 0.00 0.00 0.00 4.81
52 53 1.417890 CTAAGGCTGGTCATAGTGGGG 59.582 57.143 0.00 0.00 0.00 4.96
53 54 2.398588 TCTAAGGCTGGTCATAGTGGG 58.601 52.381 0.00 0.00 0.00 4.61
54 55 3.900601 AGATCTAAGGCTGGTCATAGTGG 59.099 47.826 0.00 0.00 0.00 4.00
55 56 5.772672 ACTAGATCTAAGGCTGGTCATAGTG 59.227 44.000 3.57 0.00 0.00 2.74
56 57 5.959512 ACTAGATCTAAGGCTGGTCATAGT 58.040 41.667 3.57 0.00 0.00 2.12
57 58 6.094881 GCTACTAGATCTAAGGCTGGTCATAG 59.905 46.154 3.57 0.00 0.00 2.23
58 59 5.946972 GCTACTAGATCTAAGGCTGGTCATA 59.053 44.000 3.57 0.00 0.00 2.15
59 60 4.770010 GCTACTAGATCTAAGGCTGGTCAT 59.230 45.833 3.57 0.00 0.00 3.06
60 61 4.145807 GCTACTAGATCTAAGGCTGGTCA 58.854 47.826 3.57 0.00 0.00 4.02
61 62 4.145807 TGCTACTAGATCTAAGGCTGGTC 58.854 47.826 16.72 0.00 0.00 4.02
62 63 4.186077 TGCTACTAGATCTAAGGCTGGT 57.814 45.455 16.72 8.37 0.00 4.00
63 64 4.769488 TGATGCTACTAGATCTAAGGCTGG 59.231 45.833 16.72 3.73 0.00 4.85
64 65 5.973899 TGATGCTACTAGATCTAAGGCTG 57.026 43.478 16.72 4.31 0.00 4.85
65 66 8.657387 TTAATGATGCTACTAGATCTAAGGCT 57.343 34.615 16.72 0.00 0.00 4.58
66 67 9.883142 AATTAATGATGCTACTAGATCTAAGGC 57.117 33.333 3.57 8.72 0.00 4.35
164 166 6.157471 TGACTGTGGATGTAGTAGGAGTACTA 59.843 42.308 0.00 0.00 40.23 1.82
166 168 5.191426 TGACTGTGGATGTAGTAGGAGTAC 58.809 45.833 0.00 0.00 0.00 2.73
169 171 4.889995 TGATGACTGTGGATGTAGTAGGAG 59.110 45.833 0.00 0.00 0.00 3.69
170 172 4.867086 TGATGACTGTGGATGTAGTAGGA 58.133 43.478 0.00 0.00 0.00 2.94
171 173 5.538053 AGATGATGACTGTGGATGTAGTAGG 59.462 44.000 0.00 0.00 0.00 3.18
172 174 6.647334 AGATGATGACTGTGGATGTAGTAG 57.353 41.667 0.00 0.00 0.00 2.57
201 203 7.093771 GGGAAGTGAGTGGTTTCATATTTGATT 60.094 37.037 0.00 0.00 0.00 2.57
202 204 6.378280 GGGAAGTGAGTGGTTTCATATTTGAT 59.622 38.462 0.00 0.00 0.00 2.57
203 205 5.710099 GGGAAGTGAGTGGTTTCATATTTGA 59.290 40.000 0.00 0.00 0.00 2.69
204 206 5.711976 AGGGAAGTGAGTGGTTTCATATTTG 59.288 40.000 0.00 0.00 0.00 2.32
205 207 5.892348 AGGGAAGTGAGTGGTTTCATATTT 58.108 37.500 0.00 0.00 0.00 1.40
206 208 5.251700 AGAGGGAAGTGAGTGGTTTCATATT 59.748 40.000 0.00 0.00 0.00 1.28
211 216 2.635427 AGAGAGGGAAGTGAGTGGTTTC 59.365 50.000 0.00 0.00 0.00 2.78
215 220 4.826556 CTTTTAGAGAGGGAAGTGAGTGG 58.173 47.826 0.00 0.00 0.00 4.00
236 241 4.146075 GCTCCGCTCTGCTCAGCT 62.146 66.667 0.00 0.00 37.25 4.24
249 254 1.774856 AGAGAGAGAGAGGGTAGCTCC 59.225 57.143 0.00 0.00 32.82 4.70
259 264 2.650322 AGTGGGTGGTTAGAGAGAGAGA 59.350 50.000 0.00 0.00 0.00 3.10
263 268 2.557676 CCAGAGTGGGTGGTTAGAGAGA 60.558 54.545 0.00 0.00 32.67 3.10
315 331 1.065491 TGTCGATGGAAATGGTGGAGG 60.065 52.381 0.00 0.00 0.00 4.30
509 539 0.248296 CGCTCCGTCTCTTGCTCTAC 60.248 60.000 0.00 0.00 0.00 2.59
510 540 1.994507 GCGCTCCGTCTCTTGCTCTA 61.995 60.000 0.00 0.00 0.00 2.43
751 1185 0.820871 GAGGCCCGGAGCTATATGAG 59.179 60.000 0.73 0.00 43.05 2.90
767 1201 1.421410 CGAAAACCAGCGGATCGAGG 61.421 60.000 1.50 0.00 0.00 4.63
800 1234 2.240162 GAAGTCATCCGGAACCGCCT 62.240 60.000 9.01 0.00 38.24 5.52
809 1243 0.807667 CCGGCTCAAGAAGTCATCCG 60.808 60.000 0.00 0.00 35.60 4.18
917 1354 2.267642 CCGATTGGAACCGAGCCA 59.732 61.111 0.00 0.00 37.49 4.75
920 1357 1.906105 TTCCCCCGATTGGAACCGAG 61.906 60.000 0.00 0.00 36.97 4.63
955 1392 0.392998 CAGATTGGTCAACTCCGGGG 60.393 60.000 0.00 0.00 0.00 5.73
1339 1776 0.917533 AGCAGCAGGTGAGGATGATT 59.082 50.000 3.02 0.00 0.00 2.57
1340 1777 0.917533 AAGCAGCAGGTGAGGATGAT 59.082 50.000 3.02 0.00 0.00 2.45
1341 1778 0.694771 AAAGCAGCAGGTGAGGATGA 59.305 50.000 3.02 0.00 0.00 2.92
1342 1779 0.809385 CAAAGCAGCAGGTGAGGATG 59.191 55.000 3.02 0.00 0.00 3.51
1343 1780 0.323178 CCAAAGCAGCAGGTGAGGAT 60.323 55.000 3.02 0.00 0.00 3.24
1344 1781 1.073722 CCAAAGCAGCAGGTGAGGA 59.926 57.895 3.02 0.00 0.00 3.71
1441 1882 8.879342 ACTATGCTACTTTAGTAAAGATGCAG 57.121 34.615 30.24 24.66 45.15 4.41
1468 1909 9.649167 TTCTACTTTACCAGCAATTACTACTTC 57.351 33.333 0.00 0.00 0.00 3.01
1513 1960 7.469043 GCAGTAATACATCAAGCCAATCAATCA 60.469 37.037 0.00 0.00 0.00 2.57
1518 1965 4.823989 AGGCAGTAATACATCAAGCCAATC 59.176 41.667 0.00 0.00 42.90 2.67
1527 1974 8.577296 TCAGATTACACTAGGCAGTAATACATC 58.423 37.037 13.87 6.44 40.09 3.06
1539 1986 5.851720 AGCATGACATCAGATTACACTAGG 58.148 41.667 0.00 0.00 0.00 3.02
1568 2018 5.931441 ATCTAGAAATGGCATAAACGAGC 57.069 39.130 0.00 0.00 0.00 5.03
1609 2059 3.203716 AGACCAAACTTCCAAACGTCTC 58.796 45.455 0.00 0.00 0.00 3.36
1667 2117 3.684305 CGATTACTGATTCAGTGGTGCAA 59.316 43.478 26.01 14.00 45.01 4.08
1823 2274 6.518208 AGCAGAAGTTACTACCTTACAGAG 57.482 41.667 0.00 0.00 0.00 3.35
1824 2275 6.912951 AAGCAGAAGTTACTACCTTACAGA 57.087 37.500 0.00 0.00 0.00 3.41
1825 2276 7.152645 TGAAAGCAGAAGTTACTACCTTACAG 58.847 38.462 0.00 0.00 0.00 2.74
1826 2277 7.058023 TGAAAGCAGAAGTTACTACCTTACA 57.942 36.000 0.00 0.00 0.00 2.41
1827 2278 7.656542 ACTTGAAAGCAGAAGTTACTACCTTAC 59.343 37.037 0.00 0.00 0.00 2.34
1828 2279 7.732996 ACTTGAAAGCAGAAGTTACTACCTTA 58.267 34.615 0.00 0.00 0.00 2.69
1829 2280 6.592870 ACTTGAAAGCAGAAGTTACTACCTT 58.407 36.000 0.00 0.00 0.00 3.50
1830 2281 6.176014 ACTTGAAAGCAGAAGTTACTACCT 57.824 37.500 0.00 0.00 0.00 3.08
1831 2282 7.117956 CCTTACTTGAAAGCAGAAGTTACTACC 59.882 40.741 0.00 0.00 34.28 3.18
1832 2283 7.871463 TCCTTACTTGAAAGCAGAAGTTACTAC 59.129 37.037 0.00 0.00 34.28 2.73
1833 2284 7.959175 TCCTTACTTGAAAGCAGAAGTTACTA 58.041 34.615 0.00 0.00 34.28 1.82
1834 2285 6.827727 TCCTTACTTGAAAGCAGAAGTTACT 58.172 36.000 0.00 0.00 34.28 2.24
1848 2299 6.442541 TGGGAAACTTGTATCCTTACTTGA 57.557 37.500 0.00 0.00 35.95 3.02
1916 2367 0.883833 CCCTGAAACAGTGCACCATC 59.116 55.000 14.63 7.50 0.00 3.51
1921 2372 0.535780 CAGCTCCCTGAAACAGTGCA 60.536 55.000 0.00 0.00 41.77 4.57
2005 2456 7.693132 AGTAGCCATACATCCACATAATCATT 58.307 34.615 0.00 0.00 34.07 2.57
2165 2616 5.347342 ACAAATCGTGCATGTTTCAAAGAA 58.653 33.333 5.68 0.00 0.00 2.52
2301 2752 1.419012 TCCCTCATATCCTTGCAGCAG 59.581 52.381 0.00 0.00 0.00 4.24
2402 2853 1.528129 GTTCACTTTCAGGAGCAGGG 58.472 55.000 0.00 0.00 0.00 4.45
2471 2922 3.612860 GCTCCTTCTGTACATGTAACACG 59.387 47.826 7.25 3.67 0.00 4.49
2563 3014 5.514169 TGCCCAAAACATCATAATAGGTCA 58.486 37.500 0.00 0.00 0.00 4.02
2656 3107 4.494855 GGATGATCGTTCAGCTTAAAGTGC 60.495 45.833 11.20 0.00 38.35 4.40
2698 3149 2.622942 GACAGACAAAATGCACCAGGAA 59.377 45.455 0.00 0.00 0.00 3.36
2807 3258 4.056050 GTTGGCATATACTCCCAAGTACG 58.944 47.826 0.00 0.00 40.74 3.67
2828 3279 4.065789 CTCTACGAAAGAAAGCCCAAAGT 58.934 43.478 0.00 0.00 32.46 2.66
3003 3454 2.234661 TGATCTCTGAGTCATTTGCCGT 59.765 45.455 4.32 0.00 0.00 5.68
3143 3594 2.893424 ACAAAGGGGAATGTGCAGAAT 58.107 42.857 0.00 0.00 0.00 2.40
3299 4317 8.928270 AAGATAACTAACTGAATTCCGTAGTG 57.072 34.615 2.71 0.22 0.00 2.74
3304 4322 9.751542 ATACAGAAGATAACTAACTGAATTCCG 57.248 33.333 2.27 0.00 35.91 4.30
3368 4386 1.072505 TCCAAAACAGGAGGGTCGC 59.927 57.895 0.00 0.00 32.77 5.19
3903 5081 5.104193 AGTGCCAGGATTCAGAAGATTATGT 60.104 40.000 0.00 0.00 0.00 2.29
4058 5236 5.693104 GCTCAAATGAACAAATCTGCTCAAA 59.307 36.000 0.00 0.00 31.60 2.69
4066 5244 7.327032 GGTTCTTACAGCTCAAATGAACAAATC 59.673 37.037 14.82 0.00 35.45 2.17
4174 5352 9.601810 TTAGAATACCAGGATTGAGATAAGCTA 57.398 33.333 0.00 0.00 0.00 3.32
4190 5368 8.458843 GCTTAAGCAATTCACTTTAGAATACCA 58.541 33.333 22.59 0.00 37.24 3.25
4243 5421 6.709643 CATGCTTTAAGTTAGTGATTCCTCG 58.290 40.000 0.00 0.00 0.00 4.63
4714 5900 9.914923 GTTTTCTTTTGGACAAACACAATTATC 57.085 29.630 0.00 0.00 31.60 1.75
4720 5906 8.930760 CAATAAGTTTTCTTTTGGACAAACACA 58.069 29.630 0.00 0.00 40.91 3.72
4813 5999 8.023021 ACTAAATTCAGCCAGTATACTCATGA 57.977 34.615 1.26 4.87 0.00 3.07
5036 6264 2.161609 CACCGCAACATCCTTTCCTTAC 59.838 50.000 0.00 0.00 0.00 2.34
5192 6421 3.304123 GGATACCGAGAACTGTGAGATCG 60.304 52.174 0.00 0.00 0.00 3.69
5242 6471 2.807967 CCACAGCTCAAATTCGTCTTCA 59.192 45.455 0.00 0.00 0.00 3.02
5560 6790 2.101582 ACAGTCACTCAGTCAGGTTCAC 59.898 50.000 0.00 0.00 0.00 3.18
5561 6791 2.388735 ACAGTCACTCAGTCAGGTTCA 58.611 47.619 0.00 0.00 0.00 3.18
5563 6793 2.766263 TCAACAGTCACTCAGTCAGGTT 59.234 45.455 0.00 0.00 0.00 3.50
5564 6794 2.388735 TCAACAGTCACTCAGTCAGGT 58.611 47.619 0.00 0.00 0.00 4.00
5565 6795 3.459232 TTCAACAGTCACTCAGTCAGG 57.541 47.619 0.00 0.00 0.00 3.86
5566 6796 5.998454 AATTTCAACAGTCACTCAGTCAG 57.002 39.130 0.00 0.00 0.00 3.51
5567 6797 6.582636 ACTAATTTCAACAGTCACTCAGTCA 58.417 36.000 0.00 0.00 0.00 3.41
5568 6798 7.484035 AACTAATTTCAACAGTCACTCAGTC 57.516 36.000 0.00 0.00 0.00 3.51
5569 6799 7.865706 AAACTAATTTCAACAGTCACTCAGT 57.134 32.000 0.00 0.00 0.00 3.41
5570 6800 8.773762 GAAAACTAATTTCAACAGTCACTCAG 57.226 34.615 0.00 0.00 45.58 3.35
5614 6844 4.513318 CCTGGTCTTTCTCTGAAACAACTC 59.487 45.833 0.00 0.00 0.00 3.01
5625 6855 1.280421 ACTCCATGCCTGGTCTTTCTC 59.720 52.381 7.98 0.00 43.61 2.87
5668 6899 0.950555 GCACTGATGGAGTTCGCACA 60.951 55.000 0.00 0.00 29.75 4.57
5689 6920 4.122776 CCATTCTTTTCGTCATCGATCCT 58.877 43.478 0.00 0.00 45.65 3.24
5697 6928 3.138304 CAGGTCACCATTCTTTTCGTCA 58.862 45.455 0.00 0.00 0.00 4.35
5808 7039 4.040829 TCTTCTCCAGAATGAGCTTCACAA 59.959 41.667 0.00 0.00 39.69 3.33
5838 7071 6.321435 TCTCTTTTCAGGTTTCTTCCTTTTCC 59.679 38.462 0.00 0.00 35.37 3.13
5839 7072 7.334844 TCTCTTTTCAGGTTTCTTCCTTTTC 57.665 36.000 0.00 0.00 35.37 2.29
5867 7100 1.882912 TACACAGCAGCCAGTTTCTG 58.117 50.000 0.00 0.00 34.79 3.02
5916 7149 2.959030 TGTTACAGAGCAGTGAGTGAGT 59.041 45.455 0.00 0.00 0.00 3.41
5917 7150 3.650070 TGTTACAGAGCAGTGAGTGAG 57.350 47.619 0.00 0.00 0.00 3.51
5918 7151 4.607293 AATGTTACAGAGCAGTGAGTGA 57.393 40.909 0.00 0.00 0.00 3.41
5919 7152 6.477033 GGTATAATGTTACAGAGCAGTGAGTG 59.523 42.308 0.00 0.00 0.00 3.51
5920 7153 6.407074 GGGTATAATGTTACAGAGCAGTGAGT 60.407 42.308 0.00 0.00 0.00 3.41
6031 7265 3.974642 GGACAAGATCACTATTACCCCCT 59.025 47.826 0.00 0.00 0.00 4.79
6036 7270 7.275920 ACAATCCAGGACAAGATCACTATTAC 58.724 38.462 0.00 0.00 0.00 1.89
6073 7308 9.899661 ACAGATTAACCAGCAACATAAATAGTA 57.100 29.630 0.00 0.00 0.00 1.82
6077 7312 9.423061 GAAAACAGATTAACCAGCAACATAAAT 57.577 29.630 0.00 0.00 0.00 1.40
6078 7313 7.870445 GGAAAACAGATTAACCAGCAACATAAA 59.130 33.333 0.00 0.00 0.00 1.40
6080 7315 6.719370 AGGAAAACAGATTAACCAGCAACATA 59.281 34.615 0.00 0.00 0.00 2.29
6081 7316 5.539955 AGGAAAACAGATTAACCAGCAACAT 59.460 36.000 0.00 0.00 0.00 2.71
6107 7342 3.003585 CACTTGCAGCAAATCAGTACACA 59.996 43.478 9.65 0.00 0.00 3.72
6112 7347 2.292569 CACTCACTTGCAGCAAATCAGT 59.707 45.455 9.65 0.00 0.00 3.41
6180 7415 8.012957 ACCTCTAGACAGACAAATAACCATAG 57.987 38.462 0.00 0.00 0.00 2.23
6200 7435 6.327386 TGATCCAGCCTAAAAATAACCTCT 57.673 37.500 0.00 0.00 0.00 3.69
6201 7436 5.532779 CCTGATCCAGCCTAAAAATAACCTC 59.467 44.000 0.00 0.00 0.00 3.85
6202 7437 5.449553 CCTGATCCAGCCTAAAAATAACCT 58.550 41.667 0.00 0.00 0.00 3.50
6203 7438 4.038042 GCCTGATCCAGCCTAAAAATAACC 59.962 45.833 0.00 0.00 0.00 2.85
6205 7440 5.129368 AGCCTGATCCAGCCTAAAAATAA 57.871 39.130 0.70 0.00 0.00 1.40
6206 7441 4.796110 AGCCTGATCCAGCCTAAAAATA 57.204 40.909 0.70 0.00 0.00 1.40
6208 7443 4.464008 CATAGCCTGATCCAGCCTAAAAA 58.536 43.478 0.70 0.00 25.51 1.94
6209 7444 3.181440 CCATAGCCTGATCCAGCCTAAAA 60.181 47.826 0.70 0.00 25.51 1.52
6210 7445 2.373169 CCATAGCCTGATCCAGCCTAAA 59.627 50.000 0.70 0.00 25.51 1.85
6211 7446 1.980765 CCATAGCCTGATCCAGCCTAA 59.019 52.381 0.70 0.00 25.51 2.69
6212 7447 1.132721 ACCATAGCCTGATCCAGCCTA 60.133 52.381 0.70 0.00 0.00 3.93
6213 7448 0.401105 ACCATAGCCTGATCCAGCCT 60.401 55.000 0.70 0.00 0.00 4.58
6214 7449 0.475906 AACCATAGCCTGATCCAGCC 59.524 55.000 0.70 0.00 0.00 4.85
6215 7450 2.355010 AAACCATAGCCTGATCCAGC 57.645 50.000 0.00 0.00 0.00 4.85
6216 7451 3.881688 CTGAAAACCATAGCCTGATCCAG 59.118 47.826 0.00 0.00 0.00 3.86
6217 7452 3.266772 ACTGAAAACCATAGCCTGATCCA 59.733 43.478 0.00 0.00 0.00 3.41
6319 7567 1.070134 GCGTGGGCTCAAGATGGTATA 59.930 52.381 2.76 0.00 35.83 1.47
6320 7568 0.179045 GCGTGGGCTCAAGATGGTAT 60.179 55.000 2.76 0.00 35.83 2.73
6343 7593 6.769822 ACATTCATAGATGACACATTCTTCCC 59.230 38.462 0.00 0.00 36.36 3.97


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

AutoCloner maintained by Alex Coulton.