Multiple sequence alignment - TraesCS3A01G329400

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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 TraesCS3A01G329400 chr3A 100.000 6182 0 0 1 6182 574466794 574460613 0.000000e+00 11417.0
1 TraesCS3A01G329400 chr3D 94.680 5752 179 57 184 5866 435686112 435680419 0.000000e+00 8809.0
2 TraesCS3A01G329400 chr3B 92.892 3531 164 28 2026 5515 571765815 571762331 0.000000e+00 5049.0
3 TraesCS3A01G329400 chr3B 88.406 1725 79 57 339 2016 571767516 571765866 0.000000e+00 1965.0
4 TraesCS3A01G329400 chr3B 90.374 561 40 7 5623 6181 571761995 571761447 0.000000e+00 725.0
5 TraesCS3A01G329400 chr3B 89.831 177 11 6 5506 5678 571762206 571762033 2.900000e-53 220.0
6 TraesCS3A01G329400 chr3B 93.333 45 2 1 5690 5734 571762036 571761993 1.440000e-06 65.8
7 TraesCS3A01G329400 chr2A 97.020 302 8 1 3971 4272 443757967 443757667 1.990000e-139 507.0
8 TraesCS3A01G329400 chr6A 96.689 302 10 0 3971 4272 149041865 149041564 2.570000e-138 503.0
9 TraesCS3A01G329400 chr6A 96.875 192 6 0 4081 4272 149035704 149035895 7.730000e-84 322.0
10 TraesCS3A01G329400 chr7A 100.000 181 0 0 1 181 148644145 148643965 9.930000e-88 335.0
11 TraesCS3A01G329400 chr7A 97.872 188 4 0 1 188 576841134 576840947 5.980000e-85 326.0
12 TraesCS3A01G329400 chr5B 100.000 181 0 0 1 181 182432308 182432128 9.930000e-88 335.0
13 TraesCS3A01G329400 chr5B 99.451 182 1 0 1 182 194175621 194175440 1.280000e-86 331.0
14 TraesCS3A01G329400 chr1B 100.000 181 0 0 1 181 338294521 338294341 9.930000e-88 335.0
15 TraesCS3A01G329400 chr2B 97.927 193 3 1 1 193 769533915 769533724 3.570000e-87 333.0
16 TraesCS3A01G329400 chr7B 99.451 182 1 0 1 182 15608069 15608250 1.280000e-86 331.0
17 TraesCS3A01G329400 chr7B 100.000 136 0 0 2604 2739 162843418 162843283 1.030000e-62 252.0
18 TraesCS3A01G329400 chr7B 97.619 84 2 0 2440 2523 162843499 162843416 1.800000e-30 145.0
19 TraesCS3A01G329400 chr7B 98.684 76 1 0 2271 2346 162843572 162843497 1.080000e-27 135.0
20 TraesCS3A01G329400 chr7B 98.182 55 1 0 3229 3283 162842960 162842906 5.100000e-16 97.1
21 TraesCS3A01G329400 chr7B 98.000 50 1 0 3032 3081 162843282 162843233 3.070000e-13 87.9
22 TraesCS3A01G329400 chr4A 99.451 182 1 0 1 182 58834812 58834993 1.280000e-86 331.0
23 TraesCS3A01G329400 chr6B 98.919 185 1 1 1 185 6673486 6673303 4.620000e-86 329.0
24 TraesCS3A01G329400 chr5D 82.143 84 11 3 6024 6103 528987947 528988030 1.110000e-07 69.4


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 TraesCS3A01G329400 chr3A 574460613 574466794 6181 True 11417.00 11417 100.0000 1 6182 1 chr3A.!!$R1 6181
1 TraesCS3A01G329400 chr3D 435680419 435686112 5693 True 8809.00 8809 94.6800 184 5866 1 chr3D.!!$R1 5682
2 TraesCS3A01G329400 chr3B 571761447 571767516 6069 True 1604.96 5049 90.9672 339 6181 5 chr3B.!!$R1 5842

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
181 182 0.535797 GCACGGGCCTTCTACTAGTT 59.464 55.000 0.00 0.0 0.00 2.24 F
1445 1500 0.602638 TCGCATGCTTTCTCACCGTT 60.603 50.000 17.13 0.0 0.00 4.44 F
1859 1914 0.860533 TCGTTAACAAGCGAAACGGG 59.139 50.000 6.39 0.0 44.51 5.28 F
2557 2661 1.000274 GATTTCTTTGGCACGGCACTT 60.000 47.619 0.00 0.0 0.00 3.16 F
2900 3010 1.055040 CAATTGGTTGCAAAGGGGGA 58.945 50.000 0.00 0.0 0.00 4.81 F
4463 4583 1.260538 TTGCTCCTCCGCATCTGTCT 61.261 55.000 0.00 0.0 40.04 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1859 1914 0.661483 GAACAAGCAAAGCTGGCGAC 60.661 55.000 5.11 0.0 39.62 5.19 R
2254 2358 0.107312 CCATCTGTCAGGAAGCCCAG 60.107 60.000 0.00 0.0 33.88 4.45 R
3391 3511 3.828451 ACAGAAGCATACACCTGCAAAAT 59.172 39.130 0.00 0.0 44.77 1.82 R
3853 3973 7.763528 TGTTTTGATGTTTATATGCCCATTGAC 59.236 33.333 0.00 0.0 0.00 3.18 R
4770 4898 3.602483 GGCAAATCTGTGGCATTCAAAT 58.398 40.909 0.00 0.0 43.33 2.32 R
5780 6153 0.687354 GGAACAGAAGAGGTGGCTCA 59.313 55.000 0.00 0.0 0.00 4.26 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
20 21 3.684103 TTTTGTGAATCGCGTGTCTTT 57.316 38.095 5.77 0.00 0.00 2.52
21 22 2.941891 TTGTGAATCGCGTGTCTTTC 57.058 45.000 5.77 3.96 0.00 2.62
22 23 2.148916 TGTGAATCGCGTGTCTTTCT 57.851 45.000 5.77 0.00 0.00 2.52
23 24 3.291809 TGTGAATCGCGTGTCTTTCTA 57.708 42.857 5.77 0.00 0.00 2.10
24 25 3.845178 TGTGAATCGCGTGTCTTTCTAT 58.155 40.909 5.77 0.00 0.00 1.98
25 26 3.612423 TGTGAATCGCGTGTCTTTCTATG 59.388 43.478 5.77 0.00 0.00 2.23
26 27 3.612860 GTGAATCGCGTGTCTTTCTATGT 59.387 43.478 5.77 0.00 0.00 2.29
27 28 4.796830 GTGAATCGCGTGTCTTTCTATGTA 59.203 41.667 5.77 0.00 0.00 2.29
28 29 5.459107 GTGAATCGCGTGTCTTTCTATGTAT 59.541 40.000 5.77 0.00 0.00 2.29
29 30 6.635641 GTGAATCGCGTGTCTTTCTATGTATA 59.364 38.462 5.77 0.00 0.00 1.47
30 31 6.635641 TGAATCGCGTGTCTTTCTATGTATAC 59.364 38.462 5.77 0.00 0.00 1.47
31 32 5.488645 TCGCGTGTCTTTCTATGTATACA 57.511 39.130 8.27 8.27 0.00 2.29
32 33 6.068473 TCGCGTGTCTTTCTATGTATACAT 57.932 37.500 21.57 21.57 40.22 2.29
33 34 6.500910 TCGCGTGTCTTTCTATGTATACATT 58.499 36.000 22.90 8.14 37.76 2.71
34 35 7.641760 TCGCGTGTCTTTCTATGTATACATTA 58.358 34.615 22.90 9.71 37.76 1.90
35 36 8.294577 TCGCGTGTCTTTCTATGTATACATTAT 58.705 33.333 22.90 3.15 37.76 1.28
36 37 8.576281 CGCGTGTCTTTCTATGTATACATTATC 58.424 37.037 22.90 8.28 37.76 1.75
37 38 8.576281 GCGTGTCTTTCTATGTATACATTATCG 58.424 37.037 22.90 14.42 37.76 2.92
38 39 9.821662 CGTGTCTTTCTATGTATACATTATCGA 57.178 33.333 22.90 11.86 37.76 3.59
77 78 8.956533 TCGAAGAATATTTTGTGTGATATGGA 57.043 30.769 0.00 0.00 0.00 3.41
78 79 9.559732 TCGAAGAATATTTTGTGTGATATGGAT 57.440 29.630 0.00 0.00 0.00 3.41
111 112 8.889849 ATGTTTACACGTAAAACTTGATATGC 57.110 30.769 20.17 0.00 36.86 3.14
112 113 7.862648 TGTTTACACGTAAAACTTGATATGCA 58.137 30.769 20.17 0.00 36.86 3.96
113 114 8.508062 TGTTTACACGTAAAACTTGATATGCAT 58.492 29.630 20.17 3.79 36.86 3.96
114 115 9.337091 GTTTACACGTAAAACTTGATATGCATT 57.663 29.630 3.54 0.00 36.86 3.56
118 119 8.673711 ACACGTAAAACTTGATATGCATTATGT 58.326 29.630 3.54 0.00 0.00 2.29
119 120 9.502145 CACGTAAAACTTGATATGCATTATGTT 57.498 29.630 3.54 4.34 0.00 2.71
134 135 7.525759 TGCATTATGTTTATATATGCACACGG 58.474 34.615 0.00 0.00 38.44 4.94
135 136 7.174080 TGCATTATGTTTATATATGCACACGGT 59.826 33.333 0.00 0.00 38.44 4.83
136 137 8.661257 GCATTATGTTTATATATGCACACGGTA 58.339 33.333 0.00 0.00 34.12 4.02
151 152 8.008902 TGCACACGGTAAAAATATTTAAAAGC 57.991 30.769 0.01 0.00 32.98 3.51
152 153 7.116519 TGCACACGGTAAAAATATTTAAAAGCC 59.883 33.333 0.01 0.06 32.98 4.35
153 154 7.412129 GCACACGGTAAAAATATTTAAAAGCCC 60.412 37.037 0.01 0.00 32.98 5.19
154 155 6.807720 ACACGGTAAAAATATTTAAAAGCCCG 59.192 34.615 0.01 9.80 39.57 6.13
155 156 6.807720 CACGGTAAAAATATTTAAAAGCCCGT 59.192 34.615 15.52 15.52 43.69 5.28
156 157 6.807720 ACGGTAAAAATATTTAAAAGCCCGTG 59.192 34.615 18.32 3.78 42.45 4.94
157 158 6.253942 CGGTAAAAATATTTAAAAGCCCGTGG 59.746 38.462 0.01 0.00 33.96 4.94
158 159 6.036300 GGTAAAAATATTTAAAAGCCCGTGGC 59.964 38.462 0.01 6.80 39.70 5.01
159 160 6.590677 GTAAAAATATTTAAAAGCCCGTGGCA 59.409 34.615 15.92 0.00 40.84 4.92
160 161 7.117956 GTAAAAATATTTAAAAGCCCGTGGCAA 59.882 33.333 15.92 3.08 40.84 4.52
175 176 2.047655 CAACGCACGGGCCTTCTA 60.048 61.111 2.82 0.00 36.38 2.10
176 177 2.047560 AACGCACGGGCCTTCTAC 60.048 61.111 2.82 0.00 36.38 2.59
177 178 2.580601 AACGCACGGGCCTTCTACT 61.581 57.895 2.82 0.00 36.38 2.57
178 179 1.252904 AACGCACGGGCCTTCTACTA 61.253 55.000 2.82 0.00 36.38 1.82
179 180 1.065928 CGCACGGGCCTTCTACTAG 59.934 63.158 2.82 0.00 36.38 2.57
180 181 1.664321 CGCACGGGCCTTCTACTAGT 61.664 60.000 2.82 0.00 36.38 2.57
181 182 0.535797 GCACGGGCCTTCTACTAGTT 59.464 55.000 0.00 0.00 0.00 2.24
182 183 1.739371 GCACGGGCCTTCTACTAGTTG 60.739 57.143 0.00 0.00 0.00 3.16
352 355 8.918202 AGACAACAAGGTAATTAATTGAGTGA 57.082 30.769 11.05 0.00 0.00 3.41
372 375 3.384146 TGAACTTGCATGTGTTGTCCAAT 59.616 39.130 5.94 0.00 0.00 3.16
392 405 9.903682 GTCCAATCAGATGTGGATATATTTTTG 57.096 33.333 14.04 0.00 45.50 2.44
403 417 5.827797 TGGATATATTTTTGACAGTGAGGGC 59.172 40.000 0.00 0.00 0.00 5.19
423 437 2.476854 GCGAGTTTTCTAGCATTGGCAG 60.477 50.000 0.00 0.00 45.56 4.85
689 709 5.061920 AGTCTTGTACAAATCGGACTCTC 57.938 43.478 17.84 0.00 29.52 3.20
690 710 4.082136 AGTCTTGTACAAATCGGACTCTCC 60.082 45.833 17.84 0.00 29.52 3.71
691 711 3.194968 TCTTGTACAAATCGGACTCTCCC 59.805 47.826 10.03 0.00 31.13 4.30
838 863 4.341235 ACCAAACTCTTCTTGCCTTAAACC 59.659 41.667 0.00 0.00 0.00 3.27
839 864 4.584743 CCAAACTCTTCTTGCCTTAAACCT 59.415 41.667 0.00 0.00 0.00 3.50
840 865 5.069119 CCAAACTCTTCTTGCCTTAAACCTT 59.931 40.000 0.00 0.00 0.00 3.50
841 866 6.406961 CCAAACTCTTCTTGCCTTAAACCTTT 60.407 38.462 0.00 0.00 0.00 3.11
842 867 6.791867 AACTCTTCTTGCCTTAAACCTTTT 57.208 33.333 0.00 0.00 0.00 2.27
843 868 7.891498 AACTCTTCTTGCCTTAAACCTTTTA 57.109 32.000 0.00 0.00 0.00 1.52
844 869 7.891498 ACTCTTCTTGCCTTAAACCTTTTAA 57.109 32.000 0.00 0.00 0.00 1.52
845 870 8.478775 ACTCTTCTTGCCTTAAACCTTTTAAT 57.521 30.769 0.00 0.00 0.00 1.40
871 896 7.562454 TCTTTCATCATCAGGGCTGAAAATTAT 59.438 33.333 0.00 0.00 43.58 1.28
908 941 6.207691 TCCACTTCTTTTCTTGTTTTCTGG 57.792 37.500 0.00 0.00 0.00 3.86
933 966 3.822735 TGGAGAATTTGCTGGTTTCTCTG 59.177 43.478 10.65 0.00 43.09 3.35
988 1021 1.080501 ATATCGCGCCACTGATCCG 60.081 57.895 0.00 0.00 0.00 4.18
990 1033 2.677573 TATCGCGCCACTGATCCGTG 62.678 60.000 10.10 10.10 34.71 4.94
1094 1137 4.263572 CCCGGTCACCAGCCACAA 62.264 66.667 0.00 0.00 0.00 3.33
1298 1353 0.998945 CCTCCTCCTCCTCCTCTCCT 60.999 65.000 0.00 0.00 0.00 3.69
1328 1383 1.609320 GGTCAGCAGGAAGTTCTGGAC 60.609 57.143 2.25 4.10 35.43 4.02
1422 1477 1.614996 TCTTTCCTGCCAATTTCGCA 58.385 45.000 0.00 0.00 34.41 5.10
1445 1500 0.602638 TCGCATGCTTTCTCACCGTT 60.603 50.000 17.13 0.00 0.00 4.44
1459 1514 1.801178 CACCGTTCCTTCTTCTTGCTC 59.199 52.381 0.00 0.00 0.00 4.26
1469 1524 2.190488 CTTCTTGCTCGCCCTCCCTT 62.190 60.000 0.00 0.00 0.00 3.95
1649 1704 6.655425 GTCTTTACACCTTCTTTCTGCCTTAT 59.345 38.462 0.00 0.00 0.00 1.73
1650 1705 7.175119 GTCTTTACACCTTCTTTCTGCCTTATT 59.825 37.037 0.00 0.00 0.00 1.40
1738 1793 1.238625 TTCCATTGCGTTTCCGGGAC 61.239 55.000 0.00 0.00 33.68 4.46
1775 1830 5.533533 TTTGTACGTAATTTGGGATCGTG 57.466 39.130 0.00 0.00 36.24 4.35
1783 1838 2.920724 TTTGGGATCGTGTGTCTGAA 57.079 45.000 0.00 0.00 0.00 3.02
1799 1854 6.264970 TGTGTCTGAATGGATTTGTTTGATGA 59.735 34.615 0.00 0.00 0.00 2.92
1859 1914 0.860533 TCGTTAACAAGCGAAACGGG 59.139 50.000 6.39 0.00 44.51 5.28
1871 1926 2.458006 GAAACGGGTCGCCAGCTTTG 62.458 60.000 0.00 0.00 0.00 2.77
1894 1949 4.765339 GCTTGTTCAAGGTAACCCTGTTAT 59.235 41.667 13.35 0.00 41.56 1.89
1895 1950 5.335661 GCTTGTTCAAGGTAACCCTGTTATG 60.336 44.000 13.35 0.00 41.56 1.90
1896 1951 5.313280 TGTTCAAGGTAACCCTGTTATGT 57.687 39.130 0.00 0.00 41.56 2.29
1898 1953 6.839454 TGTTCAAGGTAACCCTGTTATGTTA 58.161 36.000 0.00 0.00 41.56 2.41
1899 1954 7.288560 TGTTCAAGGTAACCCTGTTATGTTAA 58.711 34.615 0.00 0.00 41.56 2.01
1901 1956 8.456471 GTTCAAGGTAACCCTGTTATGTTAATC 58.544 37.037 0.00 0.00 41.56 1.75
1902 1957 7.924541 TCAAGGTAACCCTGTTATGTTAATCT 58.075 34.615 0.00 0.00 41.56 2.40
1903 1958 8.387813 TCAAGGTAACCCTGTTATGTTAATCTT 58.612 33.333 0.00 0.00 41.56 2.40
1904 1959 9.675464 CAAGGTAACCCTGTTATGTTAATCTTA 57.325 33.333 0.00 0.00 41.56 2.10
1954 2009 2.219674 GCAAGCGATATCCTGACGAAAG 59.780 50.000 0.00 0.00 0.00 2.62
1966 2021 4.069304 CCTGACGAAAGGGACATAAAACA 58.931 43.478 0.00 0.00 33.28 2.83
1970 2025 5.765677 TGACGAAAGGGACATAAAACAATCA 59.234 36.000 0.00 0.00 0.00 2.57
1976 2031 9.710900 GAAAGGGACATAAAACAATCAGAAAAT 57.289 29.630 0.00 0.00 0.00 1.82
2002 2059 5.648178 TCTTATAAACTGTACAGCCGACA 57.352 39.130 22.90 4.37 0.00 4.35
2016 2073 8.027189 TGTACAGCCGACAATATTCAGATATAC 58.973 37.037 0.00 0.00 0.00 1.47
2017 2074 7.233389 ACAGCCGACAATATTCAGATATACT 57.767 36.000 0.00 0.00 0.00 2.12
2018 2075 7.316640 ACAGCCGACAATATTCAGATATACTC 58.683 38.462 0.00 0.00 0.00 2.59
2019 2076 6.754209 CAGCCGACAATATTCAGATATACTCC 59.246 42.308 0.00 0.00 0.00 3.85
2020 2077 6.437477 AGCCGACAATATTCAGATATACTCCA 59.563 38.462 0.00 0.00 0.00 3.86
2021 2078 7.039011 AGCCGACAATATTCAGATATACTCCAA 60.039 37.037 0.00 0.00 0.00 3.53
2023 2080 8.926710 CCGACAATATTCAGATATACTCCAAAC 58.073 37.037 0.00 0.00 0.00 2.93
2024 2081 9.698309 CGACAATATTCAGATATACTCCAAACT 57.302 33.333 0.00 0.00 0.00 2.66
2042 2140 5.641209 CCAAACTCAGAGTATCCAAACTCAG 59.359 44.000 2.64 0.00 46.89 3.35
2161 2265 3.153130 TGGATTTTCCGACAAGCAATCA 58.847 40.909 0.00 0.00 40.17 2.57
2198 2302 5.736358 GGACAATGTACGTTCTACTAACTCG 59.264 44.000 0.00 0.00 0.00 4.18
2209 2313 6.686253 CGTTCTACTAACTCGGTTTCATACTC 59.314 42.308 0.00 0.00 0.00 2.59
2211 2315 7.081526 TCTACTAACTCGGTTTCATACTCAC 57.918 40.000 0.00 0.00 0.00 3.51
2220 2324 4.508124 CGGTTTCATACTCACTTATCCTGC 59.492 45.833 0.00 0.00 0.00 4.85
2235 2339 3.593442 TCCTGCCCCCAAAACTATATG 57.407 47.619 0.00 0.00 0.00 1.78
2242 2346 4.580580 GCCCCCAAAACTATATGACTTCTG 59.419 45.833 0.00 0.00 0.00 3.02
2254 2358 7.875041 ACTATATGACTTCTGATGTATTGGCAC 59.125 37.037 0.00 0.00 0.00 5.01
2256 2360 4.256110 TGACTTCTGATGTATTGGCACTG 58.744 43.478 0.00 0.00 0.00 3.66
2313 2417 2.455565 AATGCGGCTAGGGGCAGAT 61.456 57.895 0.00 0.00 43.27 2.90
2350 2454 1.406539 GTTGCATGAAGGGCAGGTATG 59.593 52.381 0.00 0.00 43.05 2.39
2360 2464 1.282157 GGGCAGGTATGGAGTCACTTT 59.718 52.381 0.00 0.00 0.00 2.66
2405 2509 8.007405 ACTTGTTATCTTTGTGCCTTACTTTT 57.993 30.769 0.00 0.00 0.00 2.27
2460 2564 1.975680 AGTGGACCTACACAATCGGTT 59.024 47.619 0.00 0.00 43.72 4.44
2472 2576 2.028020 ACAATCGGTTGGTCTTCTCTCC 60.028 50.000 13.99 0.00 39.70 3.71
2557 2661 1.000274 GATTTCTTTGGCACGGCACTT 60.000 47.619 0.00 0.00 0.00 3.16
2900 3010 1.055040 CAATTGGTTGCAAAGGGGGA 58.945 50.000 0.00 0.00 0.00 4.81
3540 3660 2.395619 ACACCCCTAGAATTCCTACGG 58.604 52.381 0.65 0.00 0.00 4.02
3632 3752 8.712363 CCCGTTCATTTACTATAATCATGTCAG 58.288 37.037 0.00 0.00 0.00 3.51
3853 3973 5.685511 CCGTGTTTACTTTGTTTCAAGATGG 59.314 40.000 0.00 0.00 0.00 3.51
3937 4057 2.158325 TCTGATTGTTTGGAAAGGGGCT 60.158 45.455 0.00 0.00 0.00 5.19
4043 4163 1.900486 AGCAGTAAAGGTAGAGGCGTT 59.100 47.619 0.00 0.00 0.00 4.84
4212 4332 2.341846 TCCACAACCACCAAAGTCTC 57.658 50.000 0.00 0.00 0.00 3.36
4385 4505 4.477975 GTCGGTGCCGGTCTCTCG 62.478 72.222 10.94 0.67 40.25 4.04
4463 4583 1.260538 TTGCTCCTCCGCATCTGTCT 61.261 55.000 0.00 0.00 40.04 3.41
4504 4624 2.749044 CGCACCTTGCTCCATGCT 60.749 61.111 0.00 0.00 42.25 3.79
4635 4755 5.446860 AGGTCGATAATCAGGTCAGTCTAA 58.553 41.667 0.00 0.00 0.00 2.10
4770 4898 6.995511 AACTTACAACTTTGTACTTCTGCA 57.004 33.333 1.18 0.00 42.84 4.41
4880 5008 2.056577 GAGTGAGTACGAAAACCACCG 58.943 52.381 0.00 0.00 0.00 4.94
4979 5107 2.290323 GGTGGCTGAGAAGGAGCTTTTA 60.290 50.000 0.00 0.00 36.63 1.52
5160 5288 0.252197 AGTACATTTCCGCCACTCCC 59.748 55.000 0.00 0.00 0.00 4.30
5305 5433 0.983378 GAAGGGCTGAGCTAGGGGAA 60.983 60.000 3.72 0.00 0.00 3.97
5306 5434 1.275421 AAGGGCTGAGCTAGGGGAAC 61.275 60.000 3.72 0.00 0.00 3.62
5363 5491 0.038166 TGGTGTTTCATCTCCCCTGC 59.962 55.000 0.00 0.00 0.00 4.85
5446 5581 2.839486 TGATTCGTTCAACTCTGGCT 57.161 45.000 0.00 0.00 0.00 4.75
5452 5587 1.802069 GTTCAACTCTGGCTGACTCC 58.198 55.000 0.00 0.00 0.00 3.85
5486 5626 2.094286 CCTCTAGAGTGGTCTTGCACTG 60.094 54.545 18.42 0.00 33.84 3.66
5540 5814 6.960468 GCCCTTTGCTATTTCAGATTAGTAC 58.040 40.000 0.00 0.00 36.87 2.73
5725 6097 5.263599 ACATGGAGTCAAAGGCATGATAAA 58.736 37.500 11.76 0.00 0.00 1.40
5730 6102 6.318648 TGGAGTCAAAGGCATGATAAACATAC 59.681 38.462 0.00 0.00 37.46 2.39
5749 6121 8.918202 AACATACTTTTCTAGTCAAACCATGA 57.082 30.769 0.00 0.00 38.33 3.07
5765 6138 7.181305 TCAAACCATGACACCCTACTTAATCTA 59.819 37.037 0.00 0.00 31.50 1.98
5780 6153 7.261829 ACTTAATCTATAGCTCGAACGAGTT 57.738 36.000 22.03 19.23 43.70 3.01
5805 6178 3.244596 GCCACCTCTTCTGTTCCTTACTT 60.245 47.826 0.00 0.00 0.00 2.24
5821 6194 0.402504 ACTTGCATTGTCCCCCGTAA 59.597 50.000 0.00 0.00 0.00 3.18
5825 6198 1.841277 TGCATTGTCCCCCGTAATAGT 59.159 47.619 0.00 0.00 0.00 2.12
5828 6201 1.851304 TTGTCCCCCGTAATAGTCGT 58.149 50.000 0.00 0.00 0.00 4.34
5869 6242 3.388913 CCTCCCCTTCTCTCCATTAACT 58.611 50.000 0.00 0.00 0.00 2.24
5874 6247 5.131142 TCCCCTTCTCTCCATTAACTCAATC 59.869 44.000 0.00 0.00 0.00 2.67
5952 6325 7.170658 TCAATTAAAATCAAAACTTCCCTTGCG 59.829 33.333 0.00 0.00 0.00 4.85
5960 6333 1.374947 CTTCCCTTGCGTTCTCCCA 59.625 57.895 0.00 0.00 0.00 4.37
5961 6334 0.035056 CTTCCCTTGCGTTCTCCCAT 60.035 55.000 0.00 0.00 0.00 4.00
5973 6346 3.288092 GTTCTCCCATCCATACCCAAAC 58.712 50.000 0.00 0.00 0.00 2.93
5979 6352 4.233053 TCCCATCCATACCCAAACCAAATA 59.767 41.667 0.00 0.00 0.00 1.40
5985 6358 5.248705 TCCATACCCAAACCAAATAAAACCC 59.751 40.000 0.00 0.00 0.00 4.11
5988 6361 3.786450 ACCCAAACCAAATAAAACCCCAA 59.214 39.130 0.00 0.00 0.00 4.12
6000 6373 8.769891 CAAATAAAACCCCAACTACATCAAAAC 58.230 33.333 0.00 0.00 0.00 2.43
6009 6382 5.691754 CCAACTACATCAAAACTTTCCTTGC 59.308 40.000 0.00 0.00 0.00 4.01
6018 6391 7.176589 TCAAAACTTTCCTTGCTTTTCCTTA 57.823 32.000 0.00 0.00 0.00 2.69
6020 6393 5.531122 AACTTTCCTTGCTTTTCCTTACC 57.469 39.130 0.00 0.00 0.00 2.85
6022 6395 2.194201 TCCTTGCTTTTCCTTACCCG 57.806 50.000 0.00 0.00 0.00 5.28
6047 6420 7.273381 CGTAACCAAATCAAATCAAATCTCACC 59.727 37.037 0.00 0.00 0.00 4.02
6055 6428 5.010922 TCAAATCAAATCTCACCCAAACCTG 59.989 40.000 0.00 0.00 0.00 4.00
6064 6437 5.313712 TCTCACCCAAACCTGAACTAAATC 58.686 41.667 0.00 0.00 0.00 2.17
6077 6450 9.416284 ACCTGAACTAAATCAAAACTTTCCTTA 57.584 29.630 0.00 0.00 0.00 2.69
6142 6517 7.490962 AATATGATGGTTGTAATGTACACGG 57.509 36.000 0.00 0.00 38.63 4.94
6150 6525 1.987770 GTAATGTACACGGTGGACACG 59.012 52.381 27.44 0.00 45.23 4.49
6167 6542 2.552315 ACACGGATTGATGTTGAACCAC 59.448 45.455 0.00 0.00 0.00 4.16
6168 6543 2.551887 CACGGATTGATGTTGAACCACA 59.448 45.455 0.00 0.00 0.00 4.17
6181 6556 8.806429 ATGTTGAACCACAAGAATATGTATGA 57.194 30.769 0.00 0.00 39.30 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.311322 AGAAAGACACGCGATTCACAAAA 59.689 39.130 15.93 0.00 0.00 2.44
1 2 2.869801 AGAAAGACACGCGATTCACAAA 59.130 40.909 15.93 0.00 0.00 2.83
2 3 2.479837 AGAAAGACACGCGATTCACAA 58.520 42.857 15.93 0.00 0.00 3.33
3 4 2.148916 AGAAAGACACGCGATTCACA 57.851 45.000 15.93 0.00 0.00 3.58
4 5 3.612860 ACATAGAAAGACACGCGATTCAC 59.387 43.478 15.93 4.51 0.00 3.18
5 6 3.845178 ACATAGAAAGACACGCGATTCA 58.155 40.909 15.93 1.40 0.00 2.57
6 7 6.635641 TGTATACATAGAAAGACACGCGATTC 59.364 38.462 15.93 8.55 0.00 2.52
7 8 6.500910 TGTATACATAGAAAGACACGCGATT 58.499 36.000 15.93 0.00 0.00 3.34
8 9 6.068473 TGTATACATAGAAAGACACGCGAT 57.932 37.500 15.93 0.00 0.00 4.58
9 10 5.488645 TGTATACATAGAAAGACACGCGA 57.511 39.130 15.93 0.00 0.00 5.87
10 11 6.749216 AATGTATACATAGAAAGACACGCG 57.251 37.500 18.56 3.53 35.10 6.01
11 12 8.576281 CGATAATGTATACATAGAAAGACACGC 58.424 37.037 18.56 0.00 35.10 5.34
12 13 9.821662 TCGATAATGTATACATAGAAAGACACG 57.178 33.333 18.56 12.95 35.10 4.49
51 52 9.559732 TCCATATCACACAAAATATTCTTCGAT 57.440 29.630 0.00 0.00 0.00 3.59
52 53 8.956533 TCCATATCACACAAAATATTCTTCGA 57.043 30.769 0.00 0.00 0.00 3.71
85 86 9.976255 GCATATCAAGTTTTACGTGTAAACATA 57.024 29.630 22.13 14.71 35.05 2.29
86 87 8.508062 TGCATATCAAGTTTTACGTGTAAACAT 58.492 29.630 22.13 12.77 35.05 2.71
87 88 7.862648 TGCATATCAAGTTTTACGTGTAAACA 58.137 30.769 22.13 8.91 35.05 2.83
88 89 8.889849 ATGCATATCAAGTTTTACGTGTAAAC 57.110 30.769 16.02 16.02 35.05 2.01
92 93 8.673711 ACATAATGCATATCAAGTTTTACGTGT 58.326 29.630 0.00 0.00 0.00 4.49
93 94 9.502145 AACATAATGCATATCAAGTTTTACGTG 57.498 29.630 0.00 0.00 0.00 4.49
108 109 8.183536 CCGTGTGCATATATAAACATAATGCAT 58.816 33.333 11.02 0.00 43.91 3.96
109 110 7.174080 ACCGTGTGCATATATAAACATAATGCA 59.826 33.333 4.30 4.30 40.64 3.96
110 111 7.526608 ACCGTGTGCATATATAAACATAATGC 58.473 34.615 0.00 0.00 0.00 3.56
125 126 8.652463 GCTTTTAAATATTTTTACCGTGTGCAT 58.348 29.630 5.91 0.00 0.00 3.96
126 127 7.116519 GGCTTTTAAATATTTTTACCGTGTGCA 59.883 33.333 5.91 0.00 0.00 4.57
127 128 7.412129 GGGCTTTTAAATATTTTTACCGTGTGC 60.412 37.037 5.91 0.27 0.00 4.57
128 129 7.201367 CGGGCTTTTAAATATTTTTACCGTGTG 60.201 37.037 5.91 0.00 31.97 3.82
129 130 6.807720 CGGGCTTTTAAATATTTTTACCGTGT 59.192 34.615 5.91 0.00 31.97 4.49
130 131 6.807720 ACGGGCTTTTAAATATTTTTACCGTG 59.192 34.615 20.70 10.32 40.62 4.94
131 132 6.807720 CACGGGCTTTTAAATATTTTTACCGT 59.192 34.615 18.03 18.03 41.77 4.83
132 133 6.253942 CCACGGGCTTTTAAATATTTTTACCG 59.746 38.462 5.91 13.44 37.68 4.02
133 134 6.036300 GCCACGGGCTTTTAAATATTTTTACC 59.964 38.462 5.91 2.02 46.69 2.85
134 135 6.996106 GCCACGGGCTTTTAAATATTTTTAC 58.004 36.000 5.91 0.00 46.69 2.01
158 159 2.047655 TAGAAGGCCCGTGCGTTG 60.048 61.111 1.72 0.00 45.01 4.10
160 161 1.664321 CTAGTAGAAGGCCCGTGCGT 61.664 60.000 0.00 0.00 38.85 5.24
161 162 1.065928 CTAGTAGAAGGCCCGTGCG 59.934 63.158 0.00 0.00 38.85 5.34
162 163 0.535797 AACTAGTAGAAGGCCCGTGC 59.464 55.000 3.59 0.00 0.00 5.34
163 164 1.549170 ACAACTAGTAGAAGGCCCGTG 59.451 52.381 3.59 0.00 0.00 4.94
164 165 1.934410 ACAACTAGTAGAAGGCCCGT 58.066 50.000 3.59 0.00 0.00 5.28
165 166 2.496470 AGAACAACTAGTAGAAGGCCCG 59.504 50.000 3.59 0.00 0.00 6.13
166 167 5.265350 CTAGAACAACTAGTAGAAGGCCC 57.735 47.826 3.59 0.00 42.44 5.80
275 276 5.240623 TCTGAACAGTCTCTCTCTCAACTTC 59.759 44.000 1.73 0.00 0.00 3.01
278 279 5.643379 ATCTGAACAGTCTCTCTCTCAAC 57.357 43.478 1.73 0.00 0.00 3.18
330 333 9.965824 AAGTTCACTCAATTAATTACCTTGTTG 57.034 29.630 0.00 6.18 0.00 3.33
352 355 3.384146 TGATTGGACAACACATGCAAGTT 59.616 39.130 0.00 0.00 0.00 2.66
372 375 9.112725 CACTGTCAAAAATATATCCACATCTGA 57.887 33.333 0.00 0.00 0.00 3.27
392 405 1.149148 GAAAACTCGCCCTCACTGTC 58.851 55.000 0.00 0.00 0.00 3.51
403 417 3.002791 TCTGCCAATGCTAGAAAACTCG 58.997 45.455 0.00 0.00 38.71 4.18
489 507 6.042093 TCCTCCAAGATCTATACCATGTGAAC 59.958 42.308 0.00 0.00 0.00 3.18
613 632 7.762610 TCTACTCCTATTTGTATGCCTACCTA 58.237 38.462 0.00 0.00 0.00 3.08
614 633 6.621394 TCTACTCCTATTTGTATGCCTACCT 58.379 40.000 0.00 0.00 0.00 3.08
838 863 7.067859 TCAGCCCTGATGATGAAAGATTAAAAG 59.932 37.037 0.00 0.00 34.14 2.27
839 864 6.891361 TCAGCCCTGATGATGAAAGATTAAAA 59.109 34.615 0.00 0.00 34.14 1.52
840 865 6.425735 TCAGCCCTGATGATGAAAGATTAAA 58.574 36.000 0.00 0.00 34.14 1.52
841 866 6.005066 TCAGCCCTGATGATGAAAGATTAA 57.995 37.500 0.00 0.00 34.14 1.40
842 867 5.635278 TCAGCCCTGATGATGAAAGATTA 57.365 39.130 0.00 0.00 34.14 1.75
843 868 4.515028 TCAGCCCTGATGATGAAAGATT 57.485 40.909 0.00 0.00 34.14 2.40
844 869 4.515028 TTCAGCCCTGATGATGAAAGAT 57.485 40.909 0.00 0.00 39.64 2.40
845 870 4.305539 TTTCAGCCCTGATGATGAAAGA 57.694 40.909 0.00 0.00 39.64 2.52
908 941 3.319122 AGAAACCAGCAAATTCTCCACAC 59.681 43.478 0.00 0.00 0.00 3.82
933 966 2.434702 AGATCACGTCCCTGATTAACCC 59.565 50.000 0.00 0.00 30.62 4.11
988 1021 0.588252 GTGCACATGTCAGACACCAC 59.412 55.000 13.17 7.46 0.00 4.16
990 1033 0.870393 CTGTGCACATGTCAGACACC 59.130 55.000 22.00 0.00 0.00 4.16
1285 1340 2.520741 GGCGAGGAGAGGAGGAGG 60.521 72.222 0.00 0.00 0.00 4.30
1286 1341 2.904866 CGGCGAGGAGAGGAGGAG 60.905 72.222 0.00 0.00 0.00 3.69
1422 1477 1.537202 GGTGAGAAAGCATGCGAAACT 59.463 47.619 13.01 10.49 0.00 2.66
1445 1500 1.194781 AGGGCGAGCAAGAAGAAGGA 61.195 55.000 0.00 0.00 0.00 3.36
1469 1524 3.731728 GGCTCCCCACATCTGCCA 61.732 66.667 0.00 0.00 42.79 4.92
1567 1622 2.028112 AGACGGAGAAATTACAGCAGCA 60.028 45.455 0.00 0.00 0.00 4.41
1568 1623 2.349886 CAGACGGAGAAATTACAGCAGC 59.650 50.000 0.00 0.00 0.00 5.25
1569 1624 2.349886 GCAGACGGAGAAATTACAGCAG 59.650 50.000 0.00 0.00 0.00 4.24
1738 1793 3.601586 CGTACAAAATGCGCTCCTATTCG 60.602 47.826 9.73 1.21 0.00 3.34
1775 1830 6.583806 GTCATCAAACAAATCCATTCAGACAC 59.416 38.462 0.00 0.00 0.00 3.67
1783 1838 7.470935 TTGATCTGTCATCAAACAAATCCAT 57.529 32.000 0.00 0.00 35.35 3.41
1799 1854 4.357918 AGTAGCACCAGTTTTGATCTGT 57.642 40.909 0.00 0.00 0.00 3.41
1859 1914 0.661483 GAACAAGCAAAGCTGGCGAC 60.661 55.000 5.11 0.00 39.62 5.19
1894 1949 9.899661 AGCAAACATGGTACTATAAGATTAACA 57.100 29.630 0.00 0.00 0.00 2.41
1898 1953 8.275040 AGGAAGCAAACATGGTACTATAAGATT 58.725 33.333 0.00 0.00 0.00 2.40
1899 1954 7.806180 AGGAAGCAAACATGGTACTATAAGAT 58.194 34.615 0.00 0.00 0.00 2.40
1901 1956 7.552687 TGAAGGAAGCAAACATGGTACTATAAG 59.447 37.037 0.00 0.00 0.00 1.73
1902 1957 7.398829 TGAAGGAAGCAAACATGGTACTATAA 58.601 34.615 0.00 0.00 0.00 0.98
1903 1958 6.953101 TGAAGGAAGCAAACATGGTACTATA 58.047 36.000 0.00 0.00 0.00 1.31
1904 1959 5.815581 TGAAGGAAGCAAACATGGTACTAT 58.184 37.500 0.00 0.00 0.00 2.12
1911 1966 4.491676 CCATTCTGAAGGAAGCAAACATG 58.508 43.478 3.24 0.00 37.36 3.21
1918 1973 1.135170 GCTTGCCATTCTGAAGGAAGC 60.135 52.381 16.09 16.09 37.36 3.86
1976 2031 8.252417 TGTCGGCTGTACAGTTTATAAGAAATA 58.748 33.333 23.44 2.47 0.00 1.40
1989 2044 4.682787 TCTGAATATTGTCGGCTGTACAG 58.317 43.478 18.93 18.93 0.00 2.74
1996 2051 6.631016 TGGAGTATATCTGAATATTGTCGGC 58.369 40.000 0.00 0.00 30.59 5.54
1998 2053 9.698309 AGTTTGGAGTATATCTGAATATTGTCG 57.302 33.333 0.00 0.00 30.59 4.35
2016 2073 5.799213 AGTTTGGATACTCTGAGTTTGGAG 58.201 41.667 16.53 0.00 35.86 3.86
2017 2074 5.306937 TGAGTTTGGATACTCTGAGTTTGGA 59.693 40.000 16.53 0.00 43.92 3.53
2018 2075 5.551233 TGAGTTTGGATACTCTGAGTTTGG 58.449 41.667 16.53 0.00 43.92 3.28
2019 2076 6.459066 TCTGAGTTTGGATACTCTGAGTTTG 58.541 40.000 16.53 0.00 43.67 2.93
2020 2077 6.672266 TCTGAGTTTGGATACTCTGAGTTT 57.328 37.500 16.53 8.16 43.67 2.66
2021 2078 6.672266 TTCTGAGTTTGGATACTCTGAGTT 57.328 37.500 16.53 3.99 46.70 3.01
2023 2080 8.690884 TCTATTTCTGAGTTTGGATACTCTGAG 58.309 37.037 2.45 2.45 46.70 3.35
2024 2081 8.595362 TCTATTTCTGAGTTTGGATACTCTGA 57.405 34.615 8.64 8.64 45.51 3.27
2059 2162 8.579682 AACAAACAGCAAATTCATAAGAACTC 57.420 30.769 0.00 0.00 36.39 3.01
2078 2181 4.083003 TCCGCCATCATCTTTGTAACAAAC 60.083 41.667 0.00 0.00 0.00 2.93
2161 2265 5.181245 CGTACATTGTCCAATTGAAGAACCT 59.819 40.000 7.12 0.00 0.00 3.50
2198 2302 4.816925 GGCAGGATAAGTGAGTATGAAACC 59.183 45.833 0.00 0.00 0.00 3.27
2209 2313 1.824852 GTTTTGGGGGCAGGATAAGTG 59.175 52.381 0.00 0.00 0.00 3.16
2211 2315 2.532250 AGTTTTGGGGGCAGGATAAG 57.468 50.000 0.00 0.00 0.00 1.73
2220 2324 6.001449 TCAGAAGTCATATAGTTTTGGGGG 57.999 41.667 0.00 0.00 0.00 5.40
2235 2339 3.624861 CCAGTGCCAATACATCAGAAGTC 59.375 47.826 0.00 0.00 0.00 3.01
2242 2346 1.678101 GAAGCCCAGTGCCAATACATC 59.322 52.381 0.00 0.00 42.71 3.06
2254 2358 0.107312 CCATCTGTCAGGAAGCCCAG 60.107 60.000 0.00 0.00 33.88 4.45
2256 2360 1.452833 GCCATCTGTCAGGAAGCCC 60.453 63.158 0.00 0.00 0.00 5.19
2313 2417 2.863739 CAACGACTGAAGACGATAGCA 58.136 47.619 9.07 0.00 42.67 3.49
2350 2454 6.582672 GCACTAAAGCAAATAAAAGTGACTCC 59.417 38.462 4.56 0.00 37.18 3.85
2405 2509 9.953565 AGTAGTAGTTTGGCAATAACTCAATAA 57.046 29.630 7.80 0.00 37.12 1.40
2416 2520 5.652891 TGAAAAACCAGTAGTAGTTTGGCAA 59.347 36.000 0.00 0.00 36.36 4.52
2460 2564 3.076182 AGAAGGTGTAGGAGAGAAGACCA 59.924 47.826 0.00 0.00 31.57 4.02
2472 2576 1.804748 GTTTCCGCCAAGAAGGTGTAG 59.195 52.381 0.00 0.00 46.87 2.74
2589 2693 7.504924 TGTAGTCCACCTAATGAAAACAAAG 57.495 36.000 0.00 0.00 0.00 2.77
2900 3010 7.119553 ACATGTTTTGTTTGAGCTTGATTGTTT 59.880 29.630 0.00 0.00 33.74 2.83
3064 3174 6.480524 TCGTCATTAGACCACAAATTGAAG 57.519 37.500 0.00 0.00 41.87 3.02
3178 3288 5.711506 TGACTATGAATGCCACTTCAACAAT 59.288 36.000 0.00 0.00 38.55 2.71
3391 3511 3.828451 ACAGAAGCATACACCTGCAAAAT 59.172 39.130 0.00 0.00 44.77 1.82
3540 3660 8.194769 TGTATTTCAAGACAAACCTCCTTTTTC 58.805 33.333 0.00 0.00 0.00 2.29
3853 3973 7.763528 TGTTTTGATGTTTATATGCCCATTGAC 59.236 33.333 0.00 0.00 0.00 3.18
3976 4096 8.023706 GGAAAGGCTGAACAGAGTTAATTTTAG 58.976 37.037 5.97 0.00 0.00 1.85
4212 4332 9.667107 TGGAAATACTAATTACAGAACAGAAGG 57.333 33.333 0.00 0.00 0.00 3.46
4635 4755 6.318900 GCCTGTAATAAACTAGCAATGGAACT 59.681 38.462 0.00 0.00 0.00 3.01
4770 4898 3.602483 GGCAAATCTGTGGCATTCAAAT 58.398 40.909 0.00 0.00 43.33 2.32
4940 5068 1.376942 CTCCAGCTCCAAGCACCTG 60.377 63.158 1.29 0.00 45.56 4.00
4979 5107 2.308570 TGACCATGGCAATACCTTGAGT 59.691 45.455 13.04 0.00 44.61 3.41
5172 5300 1.743772 GCCAGTGACATCTACGGCATT 60.744 52.381 0.00 0.00 37.53 3.56
5177 5305 1.645034 CAAGGCCAGTGACATCTACG 58.355 55.000 5.01 0.00 0.00 3.51
5305 5433 2.563798 TTCCTCGTAACGGGCGTGT 61.564 57.895 0.00 0.00 0.00 4.49
5306 5434 2.090524 GTTCCTCGTAACGGGCGTG 61.091 63.158 0.00 0.00 0.00 5.34
5363 5491 1.935873 CTGTGGTCGGCATATGACAAG 59.064 52.381 9.77 0.00 38.10 3.16
5486 5626 5.561679 ACCTCAAACAGTTTTAGAGATCCC 58.438 41.667 12.82 0.00 0.00 3.85
5749 6121 6.540995 TCGAGCTATAGATTAAGTAGGGTGT 58.459 40.000 3.21 0.00 0.00 4.16
5765 6138 2.196295 GCTCAACTCGTTCGAGCTAT 57.804 50.000 19.90 6.13 46.86 2.97
5780 6153 0.687354 GGAACAGAAGAGGTGGCTCA 59.313 55.000 0.00 0.00 0.00 4.26
5805 6178 1.841277 ACTATTACGGGGGACAATGCA 59.159 47.619 0.00 0.00 0.00 3.96
5821 6194 5.043903 CGAAATCACATTCCAGACGACTAT 58.956 41.667 0.00 0.00 0.00 2.12
5825 6198 3.250744 GACGAAATCACATTCCAGACGA 58.749 45.455 0.00 0.00 0.00 4.20
5828 6201 2.355716 GGGGACGAAATCACATTCCAGA 60.356 50.000 0.00 0.00 28.96 3.86
5931 6304 5.523438 ACGCAAGGGAAGTTTTGATTTTA 57.477 34.783 0.00 0.00 46.39 1.52
5936 6309 2.616842 GAGAACGCAAGGGAAGTTTTGA 59.383 45.455 0.00 0.00 46.39 2.69
5945 6318 1.452108 GGATGGGAGAACGCAAGGG 60.452 63.158 0.00 0.00 41.96 3.95
5952 6325 3.288092 GTTTGGGTATGGATGGGAGAAC 58.712 50.000 0.00 0.00 0.00 3.01
5960 6333 6.069905 GGGTTTTATTTGGTTTGGGTATGGAT 60.070 38.462 0.00 0.00 0.00 3.41
5961 6334 5.248705 GGGTTTTATTTGGTTTGGGTATGGA 59.751 40.000 0.00 0.00 0.00 3.41
5973 6346 6.597832 TGATGTAGTTGGGGTTTTATTTGG 57.402 37.500 0.00 0.00 0.00 3.28
5979 6352 6.553953 AAGTTTTGATGTAGTTGGGGTTTT 57.446 33.333 0.00 0.00 0.00 2.43
5985 6358 5.691754 GCAAGGAAAGTTTTGATGTAGTTGG 59.308 40.000 0.00 0.00 0.00 3.77
5988 6361 6.715347 AAGCAAGGAAAGTTTTGATGTAGT 57.285 33.333 0.00 0.00 0.00 2.73
6000 6373 3.057526 CGGGTAAGGAAAAGCAAGGAAAG 60.058 47.826 0.00 0.00 0.00 2.62
6009 6382 5.474189 TGATTTGGTTACGGGTAAGGAAAAG 59.526 40.000 0.00 0.00 0.00 2.27
6018 6391 5.793030 TTTGATTTGATTTGGTTACGGGT 57.207 34.783 0.00 0.00 0.00 5.28
6020 6393 7.273381 GTGAGATTTGATTTGATTTGGTTACGG 59.727 37.037 0.00 0.00 0.00 4.02
6022 6395 7.545615 GGGTGAGATTTGATTTGATTTGGTTAC 59.454 37.037 0.00 0.00 0.00 2.50
6047 6420 8.716646 AAAGTTTTGATTTAGTTCAGGTTTGG 57.283 30.769 0.00 0.00 0.00 3.28
6064 6437 4.647399 TGTGGGAAGGTAAGGAAAGTTTTG 59.353 41.667 0.00 0.00 0.00 2.44
6077 6450 4.927267 TGATTTGAGTATGTGGGAAGGT 57.073 40.909 0.00 0.00 0.00 3.50
6134 6509 1.180456 ATCCGTGTCCACCGTGTACA 61.180 55.000 0.00 0.00 0.00 2.90
6142 6517 2.422597 TCAACATCAATCCGTGTCCAC 58.577 47.619 0.00 0.00 0.00 4.02
6150 6525 5.452078 TTCTTGTGGTTCAACATCAATCC 57.548 39.130 0.00 0.00 32.18 3.01


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

AutoCloner maintained by Alex Coulton.