Multiple sequence alignment - TraesCS1A01G399900

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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 TraesCS1A01G399900 chr1A 100.000 3008 0 0 1 3008 564115969 564118976 0.000000e+00 5555.0
1 TraesCS1A01G399900 chr1A 81.044 728 83 27 2315 3001 564140395 564141108 2.050000e-146 529.0
2 TraesCS1A01G399900 chr1A 86.275 102 14 0 1782 1883 564142793 564142894 8.810000e-21 111.0
3 TraesCS1A01G399900 chr1D 88.938 2260 113 43 1 2152 470521189 470523419 0.000000e+00 2662.0
4 TraesCS1A01G399900 chr1D 83.156 659 75 24 2315 2954 470544896 470545537 1.210000e-158 569.0
5 TraesCS1A01G399900 chr1D 86.770 514 50 9 2315 2814 470531702 470532211 9.420000e-155 556.0
6 TraesCS1A01G399900 chr1D 87.132 272 28 3 994 1261 470530191 470530459 4.870000e-78 302.0
7 TraesCS1A01G399900 chr1D 81.761 318 25 9 96 403 460596028 460596322 5.010000e-58 235.0
8 TraesCS1A01G399900 chr1D 92.810 153 11 0 1297 1449 470539981 470540133 3.900000e-54 222.0
9 TraesCS1A01G399900 chr1D 84.817 191 18 5 1408 1598 460596690 460596869 6.620000e-42 182.0
10 TraesCS1A01G399900 chr1D 92.126 127 10 0 1491 1617 470530623 470530749 2.380000e-41 180.0
11 TraesCS1A01G399900 chr1D 77.736 265 23 8 2068 2310 470535893 470536143 2.430000e-26 130.0
12 TraesCS1A01G399900 chr1B 90.698 860 37 19 1257 2077 653235629 653236484 0.000000e+00 1105.0
13 TraesCS1A01G399900 chr1B 87.324 923 44 31 16 877 653234331 653235241 0.000000e+00 989.0
14 TraesCS1A01G399900 chr1B 83.161 677 78 24 2315 2964 653835837 653835170 1.200000e-163 586.0
15 TraesCS1A01G399900 chr1B 84.311 631 53 20 994 1617 653263930 653264521 2.600000e-160 575.0
16 TraesCS1A01G399900 chr1B 84.179 335 30 13 873 1196 653235297 653235619 1.350000e-78 303.0
17 TraesCS1A01G399900 chr1B 77.821 514 89 13 2315 2814 653487077 653487579 8.150000e-76 294.0
18 TraesCS1A01G399900 chr1B 76.052 618 108 18 2315 2906 653323315 653323918 4.910000e-73 285.0
19 TraesCS1A01G399900 chr1B 82.877 292 46 2 995 1286 469173594 469173881 2.970000e-65 259.0
20 TraesCS1A01G399900 chr1B 82.540 252 23 14 1004 1236 653312277 653312526 5.080000e-48 202.0
21 TraesCS1A01G399900 chr1B 86.755 151 7 6 254 403 683107610 683107748 4.010000e-34 156.0
22 TraesCS1A01G399900 chr1B 82.927 123 9 6 804 926 653312143 653312253 1.910000e-17 100.0
23 TraesCS1A01G399900 chr1B 97.143 35 1 0 2969 3003 653834772 653834738 3.240000e-05 60.2
24 TraesCS1A01G399900 chr1B 97.143 35 1 0 2969 3003 653834801 653834767 3.240000e-05 60.2
25 TraesCS1A01G399900 chr1B 97.143 35 1 0 2969 3003 653834830 653834796 3.240000e-05 60.2
26 TraesCS1A01G399900 chr1B 94.444 36 2 0 183 218 683107561 683107596 4.190000e-04 56.5
27 TraesCS1A01G399900 chr6D 84.318 440 59 7 992 1426 85688168 85688602 3.590000e-114 422.0
28 TraesCS1A01G399900 chr7D 83.878 459 54 8 990 1432 561004491 561004945 1.290000e-113 420.0
29 TraesCS1A01G399900 chr7B 83.614 415 51 9 1030 1432 608904514 608904923 1.020000e-99 374.0
30 TraesCS1A01G399900 chr3B 81.416 452 62 15 995 1432 672672156 672672599 1.720000e-92 350.0
31 TraesCS1A01G399900 chr7A 87.302 63 7 1 1106 1168 645092354 645092415 1.500000e-08 71.3


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 TraesCS1A01G399900 chr1A 564115969 564118976 3007 False 5555.0 5555 100.000000 1 3008 1 chr1A.!!$F1 3007
1 TraesCS1A01G399900 chr1A 564140395 564142894 2499 False 320.0 529 83.659500 1782 3001 2 chr1A.!!$F2 1219
2 TraesCS1A01G399900 chr1D 470521189 470523419 2230 False 2662.0 2662 88.938000 1 2152 1 chr1D.!!$F1 2151
3 TraesCS1A01G399900 chr1D 470544896 470545537 641 False 569.0 569 83.156000 2315 2954 1 chr1D.!!$F2 639
4 TraesCS1A01G399900 chr1D 470530191 470540133 9942 False 278.0 556 87.314800 994 2814 5 chr1D.!!$F4 1820
5 TraesCS1A01G399900 chr1D 460596028 460596869 841 False 208.5 235 83.289000 96 1598 2 chr1D.!!$F3 1502
6 TraesCS1A01G399900 chr1B 653234331 653236484 2153 False 799.0 1105 87.400333 16 2077 3 chr1B.!!$F5 2061
7 TraesCS1A01G399900 chr1B 653263930 653264521 591 False 575.0 575 84.311000 994 1617 1 chr1B.!!$F2 623
8 TraesCS1A01G399900 chr1B 653487077 653487579 502 False 294.0 294 77.821000 2315 2814 1 chr1B.!!$F4 499
9 TraesCS1A01G399900 chr1B 653323315 653323918 603 False 285.0 285 76.052000 2315 2906 1 chr1B.!!$F3 591

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
973 1169 0.887836 TGCTTGCTCTGTTCCTGCTG 60.888 55.0 0.0 0.0 0.0 4.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2398 2970 0.03601 CAGTGGCTCTACTTGGGGTG 60.036 60.0 0.0 0.0 0.0 4.61 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
51 52 2.819608 GGTGTCAAGAAGCAAAGCCATA 59.180 45.455 0.00 0.00 0.00 2.74
52 53 3.366374 GGTGTCAAGAAGCAAAGCCATAC 60.366 47.826 0.00 0.00 0.00 2.39
53 54 2.483877 TGTCAAGAAGCAAAGCCATACG 59.516 45.455 0.00 0.00 0.00 3.06
54 55 2.484264 GTCAAGAAGCAAAGCCATACGT 59.516 45.455 0.00 0.00 0.00 3.57
55 56 2.742053 TCAAGAAGCAAAGCCATACGTC 59.258 45.455 0.00 0.00 0.00 4.34
56 57 1.359848 AGAAGCAAAGCCATACGTCG 58.640 50.000 0.00 0.00 0.00 5.12
57 58 1.076332 GAAGCAAAGCCATACGTCGT 58.924 50.000 2.21 2.21 0.00 4.34
62 64 1.593006 CAAAGCCATACGTCGTCCATC 59.407 52.381 0.00 0.00 0.00 3.51
81 94 8.863049 CGTCCATCCAGAAAAATTAAAATGAAG 58.137 33.333 0.00 0.00 0.00 3.02
130 146 2.485426 GCACAAACAAGAGCAGCAGATA 59.515 45.455 0.00 0.00 0.00 1.98
155 171 1.086634 GCTCCGAGTTGTGCTGATCC 61.087 60.000 0.00 0.00 0.00 3.36
169 185 4.094590 GTGCTGATCCTGATCAAAAGACAG 59.905 45.833 10.78 4.77 46.10 3.51
219 235 0.954452 CAGTTGAACAAGACCCAGCC 59.046 55.000 0.00 0.00 0.00 4.85
421 465 4.603535 AAAGCACGCCCAGCCCTT 62.604 61.111 0.00 0.00 0.00 3.95
428 472 1.227674 CGCCCAGCCCTTCTCATAC 60.228 63.158 0.00 0.00 0.00 2.39
515 577 2.223876 CCCAAATCATTTCATCCGGCTG 60.224 50.000 0.00 0.00 0.00 4.85
531 595 2.365617 CGGCTGGCTAAAGGAGAGATAA 59.634 50.000 0.00 0.00 0.00 1.75
581 661 4.578105 CCAAGTTATCCTCTTGCATTCCTC 59.422 45.833 0.00 0.00 40.35 3.71
590 670 2.816087 TCTTGCATTCCTCAACTTGCTC 59.184 45.455 0.00 0.00 36.10 4.26
594 675 1.021390 ATTCCTCAACTTGCTCGCCG 61.021 55.000 0.00 0.00 0.00 6.46
624 705 2.034066 CCCCCGCAAGCTTCTTCA 59.966 61.111 0.00 0.00 0.00 3.02
718 818 5.273944 CCAGGTTTCTTTTTCTCTTGTTCG 58.726 41.667 0.00 0.00 0.00 3.95
796 905 4.161754 GGTTTAGTAGCATGAGGTGGTAGT 59.838 45.833 0.00 0.00 44.42 2.73
797 906 5.109903 GTTTAGTAGCATGAGGTGGTAGTG 58.890 45.833 0.00 0.00 42.72 2.74
831 941 1.552792 AGACTAGAAGCTTGCCCTGTC 59.447 52.381 2.10 5.20 0.00 3.51
881 1059 1.501337 ATACGTAGGCGCGTCGATCA 61.501 55.000 22.12 11.12 44.55 2.92
917 1095 3.079578 TGATCTTTTGCTGCTCAAGAGG 58.920 45.455 15.87 0.57 37.46 3.69
918 1096 2.645838 TCTTTTGCTGCTCAAGAGGT 57.354 45.000 0.00 0.00 37.46 3.85
919 1097 2.936202 TCTTTTGCTGCTCAAGAGGTT 58.064 42.857 0.00 0.00 37.46 3.50
920 1098 2.880890 TCTTTTGCTGCTCAAGAGGTTC 59.119 45.455 0.00 0.00 37.46 3.62
921 1099 2.346766 TTTGCTGCTCAAGAGGTTCA 57.653 45.000 0.00 0.00 35.84 3.18
924 1102 1.141657 TGCTGCTCAAGAGGTTCAGTT 59.858 47.619 0.00 0.00 0.00 3.16
952 1148 5.316167 TGCTTGCTCTTTATCTTCTTGGAA 58.684 37.500 0.00 0.00 0.00 3.53
973 1169 0.887836 TGCTTGCTCTGTTCCTGCTG 60.888 55.000 0.00 0.00 0.00 4.41
991 1187 3.137533 GCTGAGGGCAGATTTGATAGAC 58.862 50.000 0.00 0.00 45.17 2.59
1143 1343 3.016736 CGTTCAGCCATTGGAGGTAAAT 58.983 45.455 6.95 0.00 0.00 1.40
1215 1419 6.721208 TCTTTCCATGCTCCTATGAAACTTTT 59.279 34.615 0.00 0.00 0.00 2.27
1286 1490 5.308825 ACAGAAAACTTACACTGGGATGAG 58.691 41.667 0.00 0.00 35.08 2.90
1315 1519 1.670949 TTTTGCAGCTGACGCCCAAA 61.671 50.000 20.43 14.70 36.62 3.28
1618 1822 2.722201 CCTCAGGCCCGACAGGTAC 61.722 68.421 0.00 0.00 38.26 3.34
1620 1824 3.066190 CAGGCCCGACAGGTACGA 61.066 66.667 0.00 0.00 38.26 3.43
1622 1826 2.125793 GGCCCGACAGGTACGAAC 60.126 66.667 0.00 0.00 38.26 3.95
1623 1827 2.652530 GCCCGACAGGTACGAACA 59.347 61.111 0.00 0.00 38.26 3.18
1625 1829 0.457035 GCCCGACAGGTACGAACATA 59.543 55.000 0.00 0.00 38.26 2.29
1626 1830 1.068127 GCCCGACAGGTACGAACATAT 59.932 52.381 0.00 0.00 38.26 1.78
1627 1831 2.482490 GCCCGACAGGTACGAACATATT 60.482 50.000 0.00 0.00 38.26 1.28
1638 1842 5.107989 GGTACGAACATATTGTCACGCATAG 60.108 44.000 0.00 0.00 34.98 2.23
1643 1847 6.144563 CGAACATATTGTCACGCATAGATTCT 59.855 38.462 0.00 0.00 0.00 2.40
1644 1848 6.775939 ACATATTGTCACGCATAGATTCTG 57.224 37.500 0.00 0.00 0.00 3.02
1662 1889 7.775120 AGATTCTGTCAGAAATTTGTGTGTTT 58.225 30.769 18.93 0.00 37.82 2.83
1665 1892 5.004922 TGTCAGAAATTTGTGTGTTTCCC 57.995 39.130 14.36 0.00 35.46 3.97
1713 1972 3.249189 TTCAGGGGCGTGAAGGCT 61.249 61.111 0.00 0.00 45.89 4.58
1815 2074 2.437359 ACGTACCGGGAGAGGACG 60.437 66.667 6.32 8.02 39.19 4.79
1930 2189 4.722700 GGCAAGAAGAGGCGGCCA 62.723 66.667 23.09 0.00 44.01 5.36
2028 2302 2.681976 GCATGGCGATATATGGGAGCTT 60.682 50.000 0.00 0.00 0.00 3.74
2029 2303 3.201290 CATGGCGATATATGGGAGCTTC 58.799 50.000 0.00 0.00 0.00 3.86
2030 2304 1.204704 TGGCGATATATGGGAGCTTCG 59.795 52.381 0.00 0.00 0.00 3.79
2031 2305 1.281899 GCGATATATGGGAGCTTCGC 58.718 55.000 9.14 9.14 43.98 4.70
2033 2307 2.675317 GCGATATATGGGAGCTTCGCTT 60.675 50.000 15.78 6.05 46.03 4.68
2036 2310 0.109342 ATATGGGAGCTTCGCTTGGG 59.891 55.000 0.00 0.00 39.88 4.12
2037 2311 2.608970 TATGGGAGCTTCGCTTGGGC 62.609 60.000 0.00 0.00 39.88 5.36
2038 2312 4.722700 GGGAGCTTCGCTTGGGCA 62.723 66.667 0.00 0.00 39.88 5.36
2129 2432 6.862209 ACAGCTTTTCAGTGAGAGTAGATAG 58.138 40.000 0.00 0.00 0.00 2.08
2134 2437 9.377312 GCTTTTCAGTGAGAGTAGATAGAAAAT 57.623 33.333 0.00 0.00 34.47 1.82
2146 2449 7.653647 AGTAGATAGAAAATAACTCTCGCTGG 58.346 38.462 0.00 0.00 0.00 4.85
2152 2455 1.945387 ATAACTCTCGCTGGTGCATG 58.055 50.000 0.00 0.00 39.64 4.06
2153 2456 0.894835 TAACTCTCGCTGGTGCATGA 59.105 50.000 0.00 0.00 39.64 3.07
2154 2457 0.251354 AACTCTCGCTGGTGCATGAT 59.749 50.000 0.00 0.00 39.64 2.45
2155 2458 0.179089 ACTCTCGCTGGTGCATGATC 60.179 55.000 0.00 0.00 39.64 2.92
2156 2459 0.179092 CTCTCGCTGGTGCATGATCA 60.179 55.000 0.00 0.00 39.64 2.92
2159 2462 1.674441 CTCGCTGGTGCATGATCAATT 59.326 47.619 0.00 0.00 39.64 2.32
2164 2467 4.357142 GCTGGTGCATGATCAATTAACAG 58.643 43.478 13.93 13.93 39.41 3.16
2180 2483 9.851686 TCAATTAACAGGAGATTTATATGCAGT 57.148 29.630 0.00 0.00 0.00 4.40
2185 2488 7.136822 ACAGGAGATTTATATGCAGTACCAA 57.863 36.000 0.00 0.00 0.00 3.67
2188 2491 9.896645 CAGGAGATTTATATGCAGTACCAATAT 57.103 33.333 0.00 0.00 0.00 1.28
2189 2492 9.896645 AGGAGATTTATATGCAGTACCAATATG 57.103 33.333 0.00 0.00 0.00 1.78
2190 2493 9.890629 GGAGATTTATATGCAGTACCAATATGA 57.109 33.333 0.00 0.00 0.00 2.15
2196 2499 9.875691 TTATATGCAGTACCAATATGATGAGAC 57.124 33.333 0.00 0.00 0.00 3.36
2197 2500 5.612725 TGCAGTACCAATATGATGAGACA 57.387 39.130 0.00 0.00 0.00 3.41
2198 2501 6.178607 TGCAGTACCAATATGATGAGACAT 57.821 37.500 0.00 0.00 0.00 3.06
2199 2502 6.594744 TGCAGTACCAATATGATGAGACATT 58.405 36.000 0.00 0.00 0.00 2.71
2201 2504 6.148480 GCAGTACCAATATGATGAGACATTCC 59.852 42.308 0.00 0.00 0.00 3.01
2202 2505 7.219322 CAGTACCAATATGATGAGACATTCCA 58.781 38.462 0.00 0.00 0.00 3.53
2203 2506 7.387122 CAGTACCAATATGATGAGACATTCCAG 59.613 40.741 0.00 0.00 0.00 3.86
2204 2507 5.628130 ACCAATATGATGAGACATTCCAGG 58.372 41.667 0.00 0.00 0.00 4.45
2205 2508 5.370584 ACCAATATGATGAGACATTCCAGGA 59.629 40.000 0.00 0.00 0.00 3.86
2206 2509 6.126390 ACCAATATGATGAGACATTCCAGGAA 60.126 38.462 3.72 3.72 0.00 3.36
2208 2511 3.634397 TGATGAGACATTCCAGGAACC 57.366 47.619 3.18 0.00 0.00 3.62
2209 2512 2.912295 TGATGAGACATTCCAGGAACCA 59.088 45.455 3.18 0.00 0.00 3.67
2210 2513 2.859165 TGAGACATTCCAGGAACCAC 57.141 50.000 3.18 0.00 0.00 4.16
2211 2514 2.054021 TGAGACATTCCAGGAACCACA 58.946 47.619 3.18 0.00 0.00 4.17
2214 2517 3.424703 AGACATTCCAGGAACCACAATG 58.575 45.455 3.18 0.00 0.00 2.82
2215 2518 3.074390 AGACATTCCAGGAACCACAATGA 59.926 43.478 3.18 0.00 0.00 2.57
2216 2519 3.157087 ACATTCCAGGAACCACAATGAC 58.843 45.455 3.18 0.00 0.00 3.06
2218 2521 1.144691 TCCAGGAACCACAATGACCA 58.855 50.000 0.00 0.00 0.00 4.02
2219 2522 1.710244 TCCAGGAACCACAATGACCAT 59.290 47.619 0.00 0.00 0.00 3.55
2221 2524 3.527253 TCCAGGAACCACAATGACCATAT 59.473 43.478 0.00 0.00 0.00 1.78
2222 2525 4.724293 TCCAGGAACCACAATGACCATATA 59.276 41.667 0.00 0.00 0.00 0.86
2223 2526 5.372363 TCCAGGAACCACAATGACCATATAT 59.628 40.000 0.00 0.00 0.00 0.86
2224 2527 6.560687 TCCAGGAACCACAATGACCATATATA 59.439 38.462 0.00 0.00 0.00 0.86
2226 2529 7.453393 CAGGAACCACAATGACCATATATAGT 58.547 38.462 0.00 0.00 0.00 2.12
2227 2530 7.939039 CAGGAACCACAATGACCATATATAGTT 59.061 37.037 0.00 0.00 0.00 2.24
2228 2531 8.502738 AGGAACCACAATGACCATATATAGTTT 58.497 33.333 0.00 0.00 0.00 2.66
2229 2532 8.567948 GGAACCACAATGACCATATATAGTTTG 58.432 37.037 0.00 0.00 0.00 2.93
2232 2535 7.013274 ACCACAATGACCATATATAGTTTGCAC 59.987 37.037 0.00 0.00 0.00 4.57
2234 2537 8.623903 CACAATGACCATATATAGTTTGCACTT 58.376 33.333 0.00 0.00 34.06 3.16
2235 2538 8.840321 ACAATGACCATATATAGTTTGCACTTC 58.160 33.333 0.00 0.00 34.06 3.01
2236 2539 7.986085 ATGACCATATATAGTTTGCACTTCC 57.014 36.000 0.00 0.00 34.06 3.46
2238 2541 5.631119 ACCATATATAGTTTGCACTTCCCC 58.369 41.667 0.00 0.00 34.06 4.81
2239 2542 5.133660 ACCATATATAGTTTGCACTTCCCCA 59.866 40.000 0.00 0.00 34.06 4.96
2240 2543 6.068010 CCATATATAGTTTGCACTTCCCCAA 58.932 40.000 0.00 0.00 34.06 4.12
2241 2544 6.549364 CCATATATAGTTTGCACTTCCCCAAA 59.451 38.462 0.00 0.00 34.06 3.28
2242 2545 7.233348 CCATATATAGTTTGCACTTCCCCAAAT 59.767 37.037 0.00 0.00 33.96 2.32
2243 2546 9.295825 CATATATAGTTTGCACTTCCCCAAATA 57.704 33.333 0.00 0.00 33.96 1.40
2244 2547 5.914898 ATAGTTTGCACTTCCCCAAATAC 57.085 39.130 0.00 0.00 33.96 1.89
2247 2550 2.969821 TGCACTTCCCCAAATACACT 57.030 45.000 0.00 0.00 0.00 3.55
2248 2551 2.513753 TGCACTTCCCCAAATACACTG 58.486 47.619 0.00 0.00 0.00 3.66
2249 2552 2.107378 TGCACTTCCCCAAATACACTGA 59.893 45.455 0.00 0.00 0.00 3.41
2250 2553 2.488153 GCACTTCCCCAAATACACTGAC 59.512 50.000 0.00 0.00 0.00 3.51
2254 2557 3.149005 TCCCCAAATACACTGACCAAC 57.851 47.619 0.00 0.00 0.00 3.77
2267 2570 3.968649 CTGACCAACAGTGACCAAAATG 58.031 45.455 0.00 0.00 41.30 2.32
2268 2571 3.625853 TGACCAACAGTGACCAAAATGA 58.374 40.909 0.00 0.00 0.00 2.57
2271 2574 5.128499 TGACCAACAGTGACCAAAATGAATT 59.872 36.000 0.00 0.00 0.00 2.17
2272 2575 5.600696 ACCAACAGTGACCAAAATGAATTC 58.399 37.500 0.00 0.00 0.00 2.17
2273 2576 4.990426 CCAACAGTGACCAAAATGAATTCC 59.010 41.667 2.27 0.00 0.00 3.01
2274 2577 4.503741 ACAGTGACCAAAATGAATTCCG 57.496 40.909 2.27 0.00 0.00 4.30
2275 2578 3.244976 CAGTGACCAAAATGAATTCCGC 58.755 45.455 2.27 0.00 0.00 5.54
2278 2581 1.470890 GACCAAAATGAATTCCGCGGA 59.529 47.619 27.28 27.28 0.00 5.54
2279 2582 1.201414 ACCAAAATGAATTCCGCGGAC 59.799 47.619 31.19 18.00 0.00 4.79
2280 2583 1.201181 CCAAAATGAATTCCGCGGACA 59.799 47.619 31.19 23.65 0.00 4.02
2281 2584 2.352225 CCAAAATGAATTCCGCGGACAA 60.352 45.455 31.19 16.06 0.00 3.18
2282 2585 2.916716 CAAAATGAATTCCGCGGACAAG 59.083 45.455 31.19 10.63 0.00 3.16
2283 2586 1.821216 AATGAATTCCGCGGACAAGT 58.179 45.000 31.19 14.63 0.00 3.16
2285 2588 1.153353 TGAATTCCGCGGACAAGTTC 58.847 50.000 31.19 26.43 0.00 3.01
2286 2589 1.153353 GAATTCCGCGGACAAGTTCA 58.847 50.000 31.19 12.41 0.00 3.18
2287 2590 1.128692 GAATTCCGCGGACAAGTTCAG 59.871 52.381 31.19 0.00 0.00 3.02
2288 2591 1.298859 ATTCCGCGGACAAGTTCAGC 61.299 55.000 31.19 0.00 41.66 4.26
2291 2594 2.853914 GCGGACAAGTTCAGCGAC 59.146 61.111 0.00 0.00 35.60 5.19
2292 2595 2.668280 GCGGACAAGTTCAGCGACC 61.668 63.158 0.00 0.00 35.60 4.79
2293 2596 2.027625 CGGACAAGTTCAGCGACCC 61.028 63.158 0.00 0.00 0.00 4.46
2294 2597 1.070786 GGACAAGTTCAGCGACCCA 59.929 57.895 0.00 0.00 0.00 4.51
2295 2598 0.951040 GGACAAGTTCAGCGACCCAG 60.951 60.000 0.00 0.00 0.00 4.45
2297 2600 2.032681 AAGTTCAGCGACCCAGGC 59.967 61.111 0.00 0.00 0.00 4.85
2298 2601 2.818169 AAGTTCAGCGACCCAGGCA 61.818 57.895 0.00 0.00 0.00 4.75
2299 2602 2.045926 GTTCAGCGACCCAGGCAT 60.046 61.111 0.00 0.00 0.00 4.40
2300 2603 1.675641 GTTCAGCGACCCAGGCATT 60.676 57.895 0.00 0.00 0.00 3.56
2303 2606 0.326595 TCAGCGACCCAGGCATTTTA 59.673 50.000 0.00 0.00 0.00 1.52
2305 2608 0.328258 AGCGACCCAGGCATTTTACT 59.672 50.000 0.00 0.00 0.00 2.24
2306 2609 0.733150 GCGACCCAGGCATTTTACTC 59.267 55.000 0.00 0.00 0.00 2.59
2307 2610 1.679032 GCGACCCAGGCATTTTACTCT 60.679 52.381 0.00 0.00 0.00 3.24
2310 2613 4.451900 CGACCCAGGCATTTTACTCTAAT 58.548 43.478 0.00 0.00 0.00 1.73
2311 2614 5.607477 CGACCCAGGCATTTTACTCTAATA 58.393 41.667 0.00 0.00 0.00 0.98
2312 2615 6.053005 CGACCCAGGCATTTTACTCTAATAA 58.947 40.000 0.00 0.00 0.00 1.40
2379 2951 4.455606 CTTTGACTTGTCAAGGTCCTCTT 58.544 43.478 16.85 0.00 35.79 2.85
2398 2970 5.163814 CCTCTTCTTTCATGAAACGATGACC 60.164 44.000 16.91 0.00 31.92 4.02
2419 2991 1.448540 CCCAAGTAGAGCCACTGCG 60.449 63.158 0.00 0.00 44.33 5.18
2440 3012 4.712763 CGAGAGAAGTTACATGTTTTGGC 58.287 43.478 2.30 0.00 0.00 4.52
2445 3017 5.079643 AGAAGTTACATGTTTTGGCTCCAT 58.920 37.500 2.30 0.00 0.00 3.41
2456 3028 1.890979 GGCTCCATGGATGAGTGCG 60.891 63.158 16.63 2.35 0.00 5.34
2574 3152 0.750546 ACCGACATCCTCCGATCGAA 60.751 55.000 18.66 0.00 0.00 3.71
2692 3270 0.036732 TAGCCTTCCACCACAAGCAG 59.963 55.000 0.00 0.00 0.00 4.24
2693 3271 1.228245 GCCTTCCACCACAAGCAGA 60.228 57.895 0.00 0.00 0.00 4.26
2694 3272 0.610232 GCCTTCCACCACAAGCAGAT 60.610 55.000 0.00 0.00 0.00 2.90
2737 3327 0.809241 CTGGCTTCGCTGGAGATCAC 60.809 60.000 0.00 0.00 0.00 3.06
2789 3388 2.475466 GCGACCGACGAGGGATACA 61.475 63.158 0.00 0.00 46.96 2.29
2814 3413 0.652592 GAACGACATGATTCCTGCGG 59.347 55.000 0.00 0.00 0.00 5.69
2815 3414 1.369091 AACGACATGATTCCTGCGGC 61.369 55.000 0.00 0.00 0.00 6.53
2839 3466 1.359459 CGGGCTAGAACTTTGGCGAC 61.359 60.000 0.00 0.00 0.00 5.19
2955 3609 4.796495 GGGGTTTCGGCAGGCGAT 62.796 66.667 21.13 0.00 0.00 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 1.819928 TCATACACACATGCCCACAC 58.180 50.000 0.00 0.00 0.00 3.82
14 15 3.439825 TGACACCATTCATACACACATGC 59.560 43.478 0.00 0.00 0.00 4.06
51 52 2.536761 TTTTTCTGGATGGACGACGT 57.463 45.000 0.00 0.00 0.00 4.34
52 53 5.539582 TTAATTTTTCTGGATGGACGACG 57.460 39.130 0.00 0.00 0.00 5.12
53 54 8.026607 TCATTTTAATTTTTCTGGATGGACGAC 58.973 33.333 0.00 0.00 0.00 4.34
54 55 8.116651 TCATTTTAATTTTTCTGGATGGACGA 57.883 30.769 0.00 0.00 0.00 4.20
55 56 8.755696 TTCATTTTAATTTTTCTGGATGGACG 57.244 30.769 0.00 0.00 0.00 4.79
56 57 9.927668 TCTTCATTTTAATTTTTCTGGATGGAC 57.072 29.630 0.00 0.00 0.00 4.02
57 58 9.927668 GTCTTCATTTTAATTTTTCTGGATGGA 57.072 29.630 0.00 0.00 0.00 3.41
119 135 2.035530 AGCAAAGGTATCTGCTGCTC 57.964 50.000 6.97 0.00 46.97 4.26
130 146 1.166531 GCACAACTCGGAGCAAAGGT 61.167 55.000 4.58 0.00 0.00 3.50
155 171 6.814506 AAGTTGATCCTGTCTTTTGATCAG 57.185 37.500 0.00 0.00 43.98 2.90
169 185 4.441792 AGTTTGTTTGGCAAAGTTGATCC 58.558 39.130 13.94 0.00 45.58 3.36
211 227 3.769739 AATTTGGAAAAAGGCTGGGTC 57.230 42.857 0.00 0.00 0.00 4.46
421 465 5.488919 GGATGGAATAAGATGGGGTATGAGA 59.511 44.000 0.00 0.00 0.00 3.27
428 472 4.347607 GAATGGGATGGAATAAGATGGGG 58.652 47.826 0.00 0.00 0.00 4.96
515 577 5.510009 GCTACCACTTATCTCTCCTTTAGCC 60.510 48.000 0.00 0.00 0.00 3.93
531 595 2.231529 CGTCCTATGCTAGCTACCACT 58.768 52.381 17.23 0.00 0.00 4.00
581 661 1.021390 AGAATCCGGCGAGCAAGTTG 61.021 55.000 9.30 0.00 0.00 3.16
590 670 1.356624 GGAATGCAAGAATCCGGCG 59.643 57.895 0.00 0.00 0.00 6.46
594 675 1.738346 GCGGGGGAATGCAAGAATCC 61.738 60.000 0.00 0.00 0.00 3.01
678 765 2.416431 CCTGGCTGAGCTTAAACAATGC 60.416 50.000 3.72 0.00 0.00 3.56
718 818 4.580580 CCCTCACCTTAAATACCAGCATTC 59.419 45.833 0.00 0.00 0.00 2.67
796 905 0.998928 AGTCTCTGCTCTCTCTCCCA 59.001 55.000 0.00 0.00 0.00 4.37
797 906 2.438021 TCTAGTCTCTGCTCTCTCTCCC 59.562 54.545 0.00 0.00 0.00 4.30
831 941 3.212685 GGCAGAAGGAGAAGATGAATGG 58.787 50.000 0.00 0.00 0.00 3.16
881 1059 5.712152 AAAGATCAAACCGAAGCAAGATT 57.288 34.783 0.00 0.00 0.00 2.40
917 1095 2.615912 AGAGCAAGCAACTGAACTGAAC 59.384 45.455 0.00 0.00 0.00 3.18
918 1096 2.923121 AGAGCAAGCAACTGAACTGAA 58.077 42.857 0.00 0.00 0.00 3.02
919 1097 2.627515 AGAGCAAGCAACTGAACTGA 57.372 45.000 0.00 0.00 0.00 3.41
920 1098 3.705043 AAAGAGCAAGCAACTGAACTG 57.295 42.857 0.00 0.00 0.00 3.16
921 1099 5.312079 AGATAAAGAGCAAGCAACTGAACT 58.688 37.500 0.00 0.00 0.00 3.01
924 1102 5.555017 AGAAGATAAAGAGCAAGCAACTGA 58.445 37.500 0.00 0.00 0.00 3.41
952 1148 0.888285 GCAGGAACAGAGCAAGCACT 60.888 55.000 0.00 0.00 0.00 4.40
973 1169 3.563390 GCTTGTCTATCAAATCTGCCCTC 59.437 47.826 0.00 0.00 35.48 4.30
1041 1241 1.072806 AGCAAGAGAATCACACAGCCA 59.927 47.619 0.00 0.00 37.82 4.75
1143 1343 7.147966 GGGGAGAGAAAACTTGACAACTTTTTA 60.148 37.037 6.90 0.00 0.00 1.52
1215 1419 5.005094 TGACACATTCAGATTCTTGCATCA 58.995 37.500 0.00 0.00 0.00 3.07
1618 1822 5.829233 ATCTATGCGTGACAATATGTTCG 57.171 39.130 0.00 5.24 33.62 3.95
1620 1824 6.763135 ACAGAATCTATGCGTGACAATATGTT 59.237 34.615 0.00 0.00 0.00 2.71
1622 1826 6.421801 TGACAGAATCTATGCGTGACAATATG 59.578 38.462 0.00 0.00 0.00 1.78
1623 1827 6.515832 TGACAGAATCTATGCGTGACAATAT 58.484 36.000 0.00 0.00 0.00 1.28
1625 1829 4.758688 TGACAGAATCTATGCGTGACAAT 58.241 39.130 0.00 0.00 0.00 2.71
1626 1830 4.082245 TCTGACAGAATCTATGCGTGACAA 60.082 41.667 1.64 0.00 0.00 3.18
1627 1831 3.443681 TCTGACAGAATCTATGCGTGACA 59.556 43.478 1.64 0.00 0.00 3.58
1638 1842 7.168135 GGAAACACACAAATTTCTGACAGAATC 59.832 37.037 18.38 8.30 33.67 2.52
1643 1847 4.439426 CGGGAAACACACAAATTTCTGACA 60.439 41.667 0.01 0.00 35.55 3.58
1644 1848 4.041723 CGGGAAACACACAAATTTCTGAC 58.958 43.478 0.01 0.00 35.55 3.51
1662 1889 2.105821 ACAAACCTTCATTCAGTCGGGA 59.894 45.455 0.00 0.00 0.00 5.14
1665 1892 4.214119 ACATCACAAACCTTCATTCAGTCG 59.786 41.667 0.00 0.00 0.00 4.18
1713 1972 2.282674 AGGTACCACACGCTCCGA 60.283 61.111 15.94 0.00 0.00 4.55
1714 1973 2.126071 CAGGTACCACACGCTCCG 60.126 66.667 15.94 0.00 0.00 4.63
1877 2136 0.397816 CCTGTCCTGGAGGAGGTAGG 60.398 65.000 11.97 1.31 46.49 3.18
1906 2165 1.517832 CCTCTTCTTGCCGGACGAT 59.482 57.895 5.05 0.00 0.00 3.73
2028 2302 2.775856 TTGCGTTTTGCCCAAGCGA 61.776 52.632 6.22 0.00 45.60 4.93
2029 2303 2.279120 TTGCGTTTTGCCCAAGCG 60.279 55.556 0.00 0.00 45.60 4.68
2030 2304 1.520342 TGTTGCGTTTTGCCCAAGC 60.520 52.632 0.00 0.00 45.60 4.01
2031 2305 1.151172 GGTGTTGCGTTTTGCCCAAG 61.151 55.000 0.00 0.00 45.60 3.61
2033 2307 2.496817 GGTGTTGCGTTTTGCCCA 59.503 55.556 0.00 0.00 45.60 5.36
2036 2310 0.775861 GAATCGGTGTTGCGTTTTGC 59.224 50.000 0.00 0.00 46.70 3.68
2037 2311 2.043411 CAGAATCGGTGTTGCGTTTTG 58.957 47.619 0.00 0.00 0.00 2.44
2038 2312 1.673920 ACAGAATCGGTGTTGCGTTTT 59.326 42.857 0.00 0.00 0.00 2.43
2129 2432 2.742053 TGCACCAGCGAGAGTTATTTTC 59.258 45.455 0.00 0.00 46.23 2.29
2134 2437 0.894835 TCATGCACCAGCGAGAGTTA 59.105 50.000 0.00 0.00 46.23 2.24
2146 2449 6.630444 ATCTCCTGTTAATTGATCATGCAC 57.370 37.500 0.00 0.00 0.00 4.57
2154 2457 9.851686 ACTGCATATAAATCTCCTGTTAATTGA 57.148 29.630 0.00 0.00 0.00 2.57
2159 2462 8.257602 TGGTACTGCATATAAATCTCCTGTTA 57.742 34.615 0.00 0.00 0.00 2.41
2164 2467 9.890629 TCATATTGGTACTGCATATAAATCTCC 57.109 33.333 0.00 0.00 0.00 3.71
2176 2479 6.148480 GGAATGTCTCATCATATTGGTACTGC 59.852 42.308 0.00 0.00 0.00 4.40
2177 2480 7.219322 TGGAATGTCTCATCATATTGGTACTG 58.781 38.462 0.00 0.00 0.00 2.74
2178 2481 7.379059 TGGAATGTCTCATCATATTGGTACT 57.621 36.000 0.00 0.00 0.00 2.73
2179 2482 6.652481 CCTGGAATGTCTCATCATATTGGTAC 59.348 42.308 0.00 0.00 0.00 3.34
2180 2483 6.558394 TCCTGGAATGTCTCATCATATTGGTA 59.442 38.462 0.00 0.00 0.00 3.25
2182 2485 5.872963 TCCTGGAATGTCTCATCATATTGG 58.127 41.667 0.00 0.00 0.00 3.16
2185 2488 5.370584 TGGTTCCTGGAATGTCTCATCATAT 59.629 40.000 13.07 0.00 0.00 1.78
2188 2491 2.912295 TGGTTCCTGGAATGTCTCATCA 59.088 45.455 13.07 0.00 0.00 3.07
2189 2492 3.274288 GTGGTTCCTGGAATGTCTCATC 58.726 50.000 13.07 0.00 0.00 2.92
2190 2493 2.644299 TGTGGTTCCTGGAATGTCTCAT 59.356 45.455 13.07 0.00 0.00 2.90
2192 2495 2.859165 TGTGGTTCCTGGAATGTCTC 57.141 50.000 13.07 7.31 0.00 3.36
2193 2496 3.074390 TCATTGTGGTTCCTGGAATGTCT 59.926 43.478 13.07 0.00 0.00 3.41
2195 2498 3.157087 GTCATTGTGGTTCCTGGAATGT 58.843 45.455 13.07 0.00 0.00 2.71
2196 2499 2.493278 GGTCATTGTGGTTCCTGGAATG 59.507 50.000 13.07 5.79 0.00 2.67
2197 2500 2.109834 TGGTCATTGTGGTTCCTGGAAT 59.890 45.455 13.07 0.00 0.00 3.01
2198 2501 1.496857 TGGTCATTGTGGTTCCTGGAA 59.503 47.619 4.68 4.68 0.00 3.53
2199 2502 1.144691 TGGTCATTGTGGTTCCTGGA 58.855 50.000 0.00 0.00 0.00 3.86
2201 2504 7.453393 ACTATATATGGTCATTGTGGTTCCTG 58.547 38.462 0.00 0.00 0.00 3.86
2202 2505 7.633018 ACTATATATGGTCATTGTGGTTCCT 57.367 36.000 0.00 0.00 0.00 3.36
2203 2506 8.567948 CAAACTATATATGGTCATTGTGGTTCC 58.432 37.037 1.78 0.00 0.00 3.62
2204 2507 8.076178 GCAAACTATATATGGTCATTGTGGTTC 58.924 37.037 12.53 0.00 0.00 3.62
2205 2508 7.559533 TGCAAACTATATATGGTCATTGTGGTT 59.440 33.333 12.53 0.00 0.00 3.67
2206 2509 7.013274 GTGCAAACTATATATGGTCATTGTGGT 59.987 37.037 12.53 0.00 0.00 4.16
2208 2511 8.158169 AGTGCAAACTATATATGGTCATTGTG 57.842 34.615 12.53 4.85 0.00 3.33
2209 2512 8.752005 AAGTGCAAACTATATATGGTCATTGT 57.248 30.769 12.53 0.00 0.00 2.71
2210 2513 8.292448 GGAAGTGCAAACTATATATGGTCATTG 58.708 37.037 1.78 5.85 0.00 2.82
2211 2514 7.448469 GGGAAGTGCAAACTATATATGGTCATT 59.552 37.037 1.78 0.00 0.00 2.57
2214 2517 5.705905 GGGGAAGTGCAAACTATATATGGTC 59.294 44.000 1.78 0.00 0.00 4.02
2215 2518 5.133660 TGGGGAAGTGCAAACTATATATGGT 59.866 40.000 0.00 0.00 0.00 3.55
2216 2519 5.630121 TGGGGAAGTGCAAACTATATATGG 58.370 41.667 0.00 0.00 0.00 2.74
2218 2521 9.297037 GTATTTGGGGAAGTGCAAACTATATAT 57.703 33.333 0.00 0.00 0.00 0.86
2219 2522 8.275758 TGTATTTGGGGAAGTGCAAACTATATA 58.724 33.333 0.00 0.00 0.00 0.86
2221 2524 6.376018 GTGTATTTGGGGAAGTGCAAACTATA 59.624 38.462 0.00 0.00 0.00 1.31
2222 2525 5.185056 GTGTATTTGGGGAAGTGCAAACTAT 59.815 40.000 0.00 0.00 0.00 2.12
2223 2526 4.521256 GTGTATTTGGGGAAGTGCAAACTA 59.479 41.667 0.00 0.00 0.00 2.24
2224 2527 3.320826 GTGTATTTGGGGAAGTGCAAACT 59.679 43.478 0.00 0.00 0.00 2.66
2226 2529 3.320541 CAGTGTATTTGGGGAAGTGCAAA 59.679 43.478 0.00 0.00 0.00 3.68
2227 2530 2.890311 CAGTGTATTTGGGGAAGTGCAA 59.110 45.455 0.00 0.00 0.00 4.08
2228 2531 2.107378 TCAGTGTATTTGGGGAAGTGCA 59.893 45.455 0.00 0.00 0.00 4.57
2229 2532 2.488153 GTCAGTGTATTTGGGGAAGTGC 59.512 50.000 0.00 0.00 0.00 4.40
2232 2535 3.433306 TGGTCAGTGTATTTGGGGAAG 57.567 47.619 0.00 0.00 0.00 3.46
2234 2537 2.443632 TGTTGGTCAGTGTATTTGGGGA 59.556 45.455 0.00 0.00 0.00 4.81
2235 2538 2.819608 CTGTTGGTCAGTGTATTTGGGG 59.180 50.000 0.00 0.00 39.17 4.96
2247 2550 3.625853 TCATTTTGGTCACTGTTGGTCA 58.374 40.909 0.00 0.00 0.00 4.02
2248 2551 4.647424 TTCATTTTGGTCACTGTTGGTC 57.353 40.909 0.00 0.00 0.00 4.02
2249 2552 5.453198 GGAATTCATTTTGGTCACTGTTGGT 60.453 40.000 7.93 0.00 0.00 3.67
2250 2553 4.990426 GGAATTCATTTTGGTCACTGTTGG 59.010 41.667 7.93 0.00 0.00 3.77
2254 2557 3.244976 GCGGAATTCATTTTGGTCACTG 58.755 45.455 7.93 0.00 0.00 3.66
2256 2559 2.250188 CGCGGAATTCATTTTGGTCAC 58.750 47.619 7.93 0.00 0.00 3.67
2257 2560 1.201181 CCGCGGAATTCATTTTGGTCA 59.799 47.619 24.07 0.00 0.00 4.02
2258 2561 1.470890 TCCGCGGAATTCATTTTGGTC 59.529 47.619 28.99 0.00 0.00 4.02
2259 2562 1.201414 GTCCGCGGAATTCATTTTGGT 59.799 47.619 32.93 0.00 0.00 3.67
2260 2563 1.201181 TGTCCGCGGAATTCATTTTGG 59.799 47.619 32.93 0.00 0.00 3.28
2261 2564 2.627863 TGTCCGCGGAATTCATTTTG 57.372 45.000 32.93 0.00 0.00 2.44
2263 2566 2.159382 ACTTGTCCGCGGAATTCATTT 58.841 42.857 32.93 10.65 0.00 2.32
2266 2569 1.153353 GAACTTGTCCGCGGAATTCA 58.847 50.000 32.93 21.69 0.00 2.57
2267 2570 1.128692 CTGAACTTGTCCGCGGAATTC 59.871 52.381 32.93 27.66 0.00 2.17
2268 2571 1.156736 CTGAACTTGTCCGCGGAATT 58.843 50.000 32.93 21.34 0.00 2.17
2271 2574 2.357034 GCTGAACTTGTCCGCGGA 60.357 61.111 27.28 27.28 0.00 5.54
2274 2577 2.668280 GGTCGCTGAACTTGTCCGC 61.668 63.158 0.00 0.00 33.39 5.54
2275 2578 2.027625 GGGTCGCTGAACTTGTCCG 61.028 63.158 0.00 0.00 0.00 4.79
2278 2581 1.071471 CCTGGGTCGCTGAACTTGT 59.929 57.895 0.00 0.00 0.00 3.16
2279 2582 2.328099 GCCTGGGTCGCTGAACTTG 61.328 63.158 0.00 0.00 0.00 3.16
2280 2583 2.032681 GCCTGGGTCGCTGAACTT 59.967 61.111 0.00 0.00 0.00 2.66
2281 2584 2.129555 AATGCCTGGGTCGCTGAACT 62.130 55.000 0.00 0.00 0.00 3.01
2282 2585 1.244019 AAATGCCTGGGTCGCTGAAC 61.244 55.000 0.00 0.00 0.00 3.18
2283 2586 0.539438 AAAATGCCTGGGTCGCTGAA 60.539 50.000 0.00 0.00 0.00 3.02
2285 2588 0.451783 GTAAAATGCCTGGGTCGCTG 59.548 55.000 0.00 0.00 0.00 5.18
2286 2589 0.328258 AGTAAAATGCCTGGGTCGCT 59.672 50.000 0.00 0.00 0.00 4.93
2287 2590 0.733150 GAGTAAAATGCCTGGGTCGC 59.267 55.000 0.00 0.00 0.00 5.19
2288 2591 2.403252 AGAGTAAAATGCCTGGGTCG 57.597 50.000 0.00 0.00 0.00 4.79
2289 2592 7.012421 CACTTATTAGAGTAAAATGCCTGGGTC 59.988 40.741 0.00 0.00 0.00 4.46
2290 2593 6.828785 CACTTATTAGAGTAAAATGCCTGGGT 59.171 38.462 0.00 0.00 0.00 4.51
2291 2594 7.054124 TCACTTATTAGAGTAAAATGCCTGGG 58.946 38.462 0.00 0.00 0.00 4.45
2292 2595 8.506168 TTCACTTATTAGAGTAAAATGCCTGG 57.494 34.615 0.00 0.00 0.00 4.45
2300 2603 9.146984 CGGTGTGATTTCACTTATTAGAGTAAA 57.853 33.333 11.67 0.00 46.55 2.01
2303 2606 6.070995 TCCGGTGTGATTTCACTTATTAGAGT 60.071 38.462 11.67 0.00 46.55 3.24
2305 2608 6.288941 TCCGGTGTGATTTCACTTATTAGA 57.711 37.500 11.67 0.00 46.55 2.10
2306 2609 6.017934 CCATCCGGTGTGATTTCACTTATTAG 60.018 42.308 11.67 0.00 46.55 1.73
2307 2610 5.820423 CCATCCGGTGTGATTTCACTTATTA 59.180 40.000 11.67 0.00 46.55 0.98
2310 2613 3.008594 ACCATCCGGTGTGATTTCACTTA 59.991 43.478 11.67 0.00 46.79 2.24
2311 2614 2.224769 ACCATCCGGTGTGATTTCACTT 60.225 45.455 11.67 0.00 46.79 3.16
2312 2615 1.351017 ACCATCCGGTGTGATTTCACT 59.649 47.619 11.67 0.00 46.79 3.41
2379 2951 3.751175 GGTGGTCATCGTTTCATGAAAGA 59.249 43.478 21.05 18.68 34.50 2.52
2398 2970 0.036010 CAGTGGCTCTACTTGGGGTG 60.036 60.000 0.00 0.00 0.00 4.61
2419 2991 5.106515 GGAGCCAAAACATGTAACTTCTCTC 60.107 44.000 0.00 0.69 0.00 3.20
2428 3000 3.448093 TCCATGGAGCCAAAACATGTA 57.552 42.857 11.44 0.00 40.16 2.29
2440 3012 0.463204 ACTCGCACTCATCCATGGAG 59.537 55.000 21.33 12.25 38.36 3.86
2445 3017 1.941209 GCAAGAACTCGCACTCATCCA 60.941 52.381 0.00 0.00 0.00 3.41
2456 3028 3.206150 TGAGGTTGACAAGCAAGAACTC 58.794 45.455 18.93 7.49 37.12 3.01
2634 3212 2.295885 GCCCAATGGAGAGACAATCAG 58.704 52.381 0.00 0.00 0.00 2.90
2692 3270 2.411904 GCAGCTGCTACTATCACCATC 58.588 52.381 31.33 0.00 38.21 3.51
2693 3271 1.071385 GGCAGCTGCTACTATCACCAT 59.929 52.381 35.82 0.00 41.70 3.55
2694 3272 0.465705 GGCAGCTGCTACTATCACCA 59.534 55.000 35.82 0.00 41.70 4.17
2724 3305 3.838271 GGCCGTGATCTCCAGCGA 61.838 66.667 0.00 0.00 0.00 4.93
2773 3366 1.732308 GGTGTATCCCTCGTCGGTC 59.268 63.158 0.00 0.00 0.00 4.79
2782 3381 2.584143 CGTTCGCCGGTGTATCCC 60.584 66.667 16.01 0.00 0.00 3.85
2789 3388 1.079405 AATCATGTCGTTCGCCGGT 60.079 52.632 1.90 0.00 37.11 5.28
2828 3455 2.251642 GCTCCACGTCGCCAAAGTT 61.252 57.895 0.00 0.00 0.00 2.66
2874 3501 4.722700 CAACGCCACCCTCCCCTG 62.723 72.222 0.00 0.00 0.00 4.45
2875 3502 4.974438 TCAACGCCACCCTCCCCT 62.974 66.667 0.00 0.00 0.00 4.79
2876 3503 4.410400 CTCAACGCCACCCTCCCC 62.410 72.222 0.00 0.00 0.00 4.81
2877 3504 3.637273 ACTCAACGCCACCCTCCC 61.637 66.667 0.00 0.00 0.00 4.30
2878 3505 2.358737 CACTCAACGCCACCCTCC 60.359 66.667 0.00 0.00 0.00 4.30
2879 3506 2.358737 CCACTCAACGCCACCCTC 60.359 66.667 0.00 0.00 0.00 4.30
2880 3507 3.953775 CCCACTCAACGCCACCCT 61.954 66.667 0.00 0.00 0.00 4.34
2900 3540 3.474570 CCAAGAGGCCTCTCCCCG 61.475 72.222 35.18 22.06 40.83 5.73
2935 3589 4.035102 GCCTGCCGAAACCCCTCT 62.035 66.667 0.00 0.00 0.00 3.69
2972 3636 4.052229 CCTCGCCGTCGACCACTT 62.052 66.667 10.58 0.00 40.21 3.16


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

AutoCloner maintained by Alex Coulton.