Multiple sequence alignment - TraesCS5D01G164600

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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 TraesCS5D01G164600 chr5D 100.000 3340 0 0 1 3340 255990636 255987297 0.000000e+00 6168.0
1 TraesCS5D01G164600 chr5B 87.288 2887 158 90 548 3320 289798350 289795559 0.000000e+00 3105.0
2 TraesCS5D01G164600 chr5B 84.964 552 73 7 1 550 289799130 289798587 4.870000e-153 551.0
3 TraesCS5D01G164600 chr5A 84.087 3117 243 121 1 3023 340271168 340268211 0.000000e+00 2774.0
4 TraesCS5D01G164600 chr5A 90.604 149 14 0 3192 3340 340268080 340267932 7.310000e-47 198.0
5 TraesCS5D01G164600 chr4D 86.818 440 55 3 1 439 476307890 476308327 3.870000e-134 488.0
6 TraesCS5D01G164600 chr2B 86.682 443 55 4 1 442 452910627 452910188 3.870000e-134 488.0
7 TraesCS5D01G164600 chr2B 86.230 443 58 3 1 442 175454153 175454593 8.380000e-131 477.0
8 TraesCS5D01G164600 chr2B 86.230 443 58 3 1 442 792464684 792464244 8.380000e-131 477.0
9 TraesCS5D01G164600 chr1B 86.682 443 56 3 1 442 643025402 643024962 3.870000e-134 488.0
10 TraesCS5D01G164600 chr7D 86.728 437 55 3 7 442 560908155 560907721 1.800000e-132 483.0
11 TraesCS5D01G164600 chr4B 86.230 443 58 3 1 442 655052936 655053376 8.380000e-131 477.0
12 TraesCS5D01G164600 chr4B 91.935 62 5 0 1281 1342 482978530 482978469 1.650000e-13 87.9
13 TraesCS5D01G164600 chr3B 86.230 443 58 3 1 442 465345289 465345729 8.380000e-131 477.0
14 TraesCS5D01G164600 chr3B 96.078 51 2 0 1145 1195 627613306 627613256 2.140000e-12 84.2
15 TraesCS5D01G164600 chr6A 83.735 332 51 3 1028 1357 187272319 187271989 9.000000e-81 311.0
16 TraesCS5D01G164600 chr6B 84.112 321 47 4 1039 1357 245985742 245985424 1.160000e-79 307.0
17 TraesCS5D01G164600 chr4A 77.660 188 31 9 1162 1342 74588647 74588464 1.640000e-18 104.0
18 TraesCS5D01G164600 chr3D 96.078 51 2 0 1145 1195 471970283 471970233 2.140000e-12 84.2
19 TraesCS5D01G164600 chr3A 94.118 51 3 0 1145 1195 614574215 614574165 9.940000e-11 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 TraesCS5D01G164600 chr5D 255987297 255990636 3339 True 6168 6168 100.0000 1 3340 1 chr5D.!!$R1 3339
1 TraesCS5D01G164600 chr5B 289795559 289799130 3571 True 1828 3105 86.1260 1 3320 2 chr5B.!!$R1 3319
2 TraesCS5D01G164600 chr5A 340267932 340271168 3236 True 1486 2774 87.3455 1 3340 2 chr5A.!!$R1 3339

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
71 72 0.031449 AAAACATGTGCGGGGTTTCG 59.969 50.0 0.0 0.0 33.91 3.46 F
252 253 0.035317 GCATATCGGTGATGGAGGCA 59.965 55.0 0.0 0.0 0.00 4.75 F
888 1153 0.041833 CCCTCTGTCTCCTTCCTCCA 59.958 60.0 0.0 0.0 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1782 2099 0.250234 GTACAGGCACATGAGCAGGA 59.750 55.0 17.11 2.59 35.83 3.86 R
2034 2361 0.314302 CTGCTTCTTGCTTGCTTGCT 59.686 50.0 3.47 0.00 43.37 3.91 R
2822 3235 0.169009 CTAGCTGCCGTTTCAAAGCC 59.831 55.0 0.00 0.00 36.28 4.35 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 2.420547 GGAGCAGATGCAGATTGTGGTA 60.421 50.000 7.68 0.00 45.16 3.25
57 58 9.676195 CATTGTCAACATATGTAAGACAAAACA 57.324 29.630 35.42 24.57 46.36 2.83
71 72 0.031449 AAAACATGTGCGGGGTTTCG 59.969 50.000 0.00 0.00 33.91 3.46
125 126 0.535335 GGCGTCTTAGTCATGGTGGA 59.465 55.000 0.00 0.00 0.00 4.02
175 176 2.989253 GGAGTTGCCCCGGTTTGG 60.989 66.667 0.00 0.00 37.55 3.28
193 194 1.339610 TGGTTCTTTCAACGGCAATGG 59.660 47.619 0.00 0.00 0.00 3.16
250 251 2.146342 GTTGCATATCGGTGATGGAGG 58.854 52.381 0.00 0.00 0.00 4.30
252 253 0.035317 GCATATCGGTGATGGAGGCA 59.965 55.000 0.00 0.00 0.00 4.75
262 263 0.802607 GATGGAGGCACGTCGAGTTC 60.803 60.000 0.00 0.00 0.00 3.01
277 278 0.471211 AGTTCGGGTGAGGAGGTGAA 60.471 55.000 0.00 0.00 0.00 3.18
280 281 2.663196 GGGTGAGGAGGTGAACCG 59.337 66.667 0.00 0.00 42.08 4.44
309 312 0.955428 TTCTCGGGTGATTGCTGTGC 60.955 55.000 0.00 0.00 0.00 4.57
333 336 3.051210 TGGAGACAGGTGACAGCG 58.949 61.111 0.00 0.00 35.01 5.18
347 350 1.160329 ACAGCGTTGGTGTCAAGCTC 61.160 55.000 3.74 0.00 40.38 4.09
351 354 1.581934 CGTTGGTGTCAAGCTCAGAA 58.418 50.000 0.00 0.00 32.92 3.02
353 356 2.354510 CGTTGGTGTCAAGCTCAGAAAA 59.645 45.455 0.00 0.00 32.92 2.29
388 392 2.131972 TCAGTTTTGTCATGTCGGTCG 58.868 47.619 0.00 0.00 0.00 4.79
392 396 3.492011 AGTTTTGTCATGTCGGTCGTTAC 59.508 43.478 0.00 0.00 0.00 2.50
434 438 5.571784 TTAGGATACGAATGAGACACGTT 57.428 39.130 0.00 0.00 46.39 3.99
442 446 4.753107 ACGAATGAGACACGTTTTACCATT 59.247 37.500 0.00 0.00 36.91 3.16
522 528 0.167908 TCGTCGTGCATGCATTTTCC 59.832 50.000 25.64 9.55 0.00 3.13
554 808 6.997239 AAAACCGAATAGTCAGGTATTTCC 57.003 37.500 7.04 0.00 37.26 3.13
620 878 3.567579 TTGCTTGCCTCCTTCCCCG 62.568 63.158 0.00 0.00 0.00 5.73
646 904 0.828022 TCCATCCGTCCATACCACAC 59.172 55.000 0.00 0.00 0.00 3.82
647 905 0.529773 CCATCCGTCCATACCACACG 60.530 60.000 0.00 0.00 0.00 4.49
648 906 0.174845 CATCCGTCCATACCACACGT 59.825 55.000 0.00 0.00 0.00 4.49
650 908 1.097232 TCCGTCCATACCACACGTAG 58.903 55.000 0.00 0.00 0.00 3.51
651 909 0.101759 CCGTCCATACCACACGTAGG 59.898 60.000 4.77 4.77 0.00 3.18
652 910 1.097232 CGTCCATACCACACGTAGGA 58.903 55.000 12.70 0.00 29.98 2.94
655 913 3.282021 GTCCATACCACACGTAGGAGTA 58.718 50.000 12.70 1.78 29.98 2.59
656 914 3.314635 GTCCATACCACACGTAGGAGTAG 59.685 52.174 12.70 0.00 29.98 2.57
657 915 2.621998 CCATACCACACGTAGGAGTAGG 59.378 54.545 12.70 3.16 29.98 3.18
658 916 3.548770 CATACCACACGTAGGAGTAGGA 58.451 50.000 12.70 0.00 29.98 2.94
659 917 2.125773 ACCACACGTAGGAGTAGGAG 57.874 55.000 12.70 0.00 0.00 3.69
660 918 1.353694 ACCACACGTAGGAGTAGGAGT 59.646 52.381 12.70 0.00 0.00 3.85
661 919 2.015587 CCACACGTAGGAGTAGGAGTC 58.984 57.143 0.00 0.00 0.00 3.36
662 920 1.664659 CACACGTAGGAGTAGGAGTCG 59.335 57.143 0.00 0.00 0.00 4.18
663 921 1.297664 CACGTAGGAGTAGGAGTCGG 58.702 60.000 0.00 0.00 0.00 4.79
866 1131 4.779733 TCCGCTCCCCCTCACTCC 62.780 72.222 0.00 0.00 0.00 3.85
888 1153 0.041833 CCCTCTGTCTCCTTCCTCCA 59.958 60.000 0.00 0.00 0.00 3.86
890 1155 1.551099 CCTCTGTCTCCTTCCTCCACA 60.551 57.143 0.00 0.00 0.00 4.17
891 1156 1.548269 CTCTGTCTCCTTCCTCCACAC 59.452 57.143 0.00 0.00 0.00 3.82
892 1157 0.610687 CTGTCTCCTTCCTCCACACC 59.389 60.000 0.00 0.00 0.00 4.16
893 1158 0.836400 TGTCTCCTTCCTCCACACCC 60.836 60.000 0.00 0.00 0.00 4.61
894 1159 1.229529 TCTCCTTCCTCCACACCCC 60.230 63.158 0.00 0.00 0.00 4.95
895 1160 1.538876 CTCCTTCCTCCACACCCCA 60.539 63.158 0.00 0.00 0.00 4.96
896 1161 0.916358 CTCCTTCCTCCACACCCCAT 60.916 60.000 0.00 0.00 0.00 4.00
897 1162 0.914417 TCCTTCCTCCACACCCCATC 60.914 60.000 0.00 0.00 0.00 3.51
898 1163 1.609783 CTTCCTCCACACCCCATCC 59.390 63.158 0.00 0.00 0.00 3.51
907 1172 2.008723 CACCCCATCCCATCCCACT 61.009 63.158 0.00 0.00 0.00 4.00
914 1179 0.045623 ATCCCATCCCACTACCACCA 59.954 55.000 0.00 0.00 0.00 4.17
917 1182 0.255890 CCATCCCACTACCACCAAGG 59.744 60.000 0.00 0.00 45.67 3.61
918 1183 0.255890 CATCCCACTACCACCAAGGG 59.744 60.000 0.00 0.00 43.89 3.95
928 1193 5.373812 CTACCACCAAGGGAGTTGATTAT 57.626 43.478 0.00 0.00 44.13 1.28
948 1256 2.014857 TCAGATCGGTAACCTCACTCG 58.985 52.381 0.00 0.00 0.00 4.18
968 1276 2.465210 CTACTCGTAGCGGTTACCAC 57.535 55.000 1.13 0.00 0.00 4.16
969 1277 1.739466 CTACTCGTAGCGGTTACCACA 59.261 52.381 1.13 0.00 0.00 4.17
970 1278 0.242017 ACTCGTAGCGGTTACCACAC 59.758 55.000 1.13 0.00 0.00 3.82
971 1279 0.241749 CTCGTAGCGGTTACCACACA 59.758 55.000 1.13 0.00 0.00 3.72
972 1280 0.889994 TCGTAGCGGTTACCACACAT 59.110 50.000 1.13 0.00 0.00 3.21
973 1281 1.135315 TCGTAGCGGTTACCACACATC 60.135 52.381 1.13 0.00 0.00 3.06
974 1282 1.274596 GTAGCGGTTACCACACATCG 58.725 55.000 1.13 0.00 0.00 3.84
975 1283 1.135315 GTAGCGGTTACCACACATCGA 60.135 52.381 1.13 0.00 0.00 3.59
976 1284 0.535335 AGCGGTTACCACACATCGAT 59.465 50.000 1.13 0.00 0.00 3.59
980 1288 2.190981 GGTTACCACACATCGATCGAC 58.809 52.381 22.06 3.71 0.00 4.20
1023 1331 4.074526 GCGTGCAGAGCAGGAGGA 62.075 66.667 14.96 0.00 45.68 3.71
1024 1332 2.183811 CGTGCAGAGCAGGAGGAG 59.816 66.667 5.84 0.00 45.68 3.69
1025 1333 2.583520 GTGCAGAGCAGGAGGAGG 59.416 66.667 0.00 0.00 40.08 4.30
1026 1334 3.397439 TGCAGAGCAGGAGGAGGC 61.397 66.667 0.00 0.00 33.32 4.70
1375 1683 0.838608 GTACTCCTCCTCCTCCTCGA 59.161 60.000 0.00 0.00 0.00 4.04
1376 1684 0.838608 TACTCCTCCTCCTCCTCGAC 59.161 60.000 0.00 0.00 0.00 4.20
1377 1685 1.208844 ACTCCTCCTCCTCCTCGACA 61.209 60.000 0.00 0.00 0.00 4.35
1378 1686 0.184933 CTCCTCCTCCTCCTCGACAT 59.815 60.000 0.00 0.00 0.00 3.06
1379 1687 0.183971 TCCTCCTCCTCCTCGACATC 59.816 60.000 0.00 0.00 0.00 3.06
1380 1688 1.169661 CCTCCTCCTCCTCGACATCG 61.170 65.000 0.00 0.00 41.45 3.84
1381 1689 1.152943 TCCTCCTCCTCGACATCGG 60.153 63.158 0.73 0.00 40.29 4.18
1382 1690 2.725008 CTCCTCCTCGACATCGGC 59.275 66.667 0.73 0.00 40.29 5.54
1383 1691 2.833582 TCCTCCTCGACATCGGCC 60.834 66.667 0.73 0.00 40.29 6.13
1384 1692 2.835431 CCTCCTCGACATCGGCCT 60.835 66.667 0.00 0.00 40.29 5.19
1385 1693 2.725008 CTCCTCGACATCGGCCTC 59.275 66.667 0.00 0.00 40.29 4.70
1386 1694 3.187699 CTCCTCGACATCGGCCTCG 62.188 68.421 0.00 2.93 40.29 4.63
1392 1700 3.445518 GACATCGGCCTCGGCATCA 62.446 63.158 10.51 0.00 44.11 3.07
1431 1742 1.129809 CATGGCAAACGACGACGAC 59.870 57.895 15.32 0.00 42.66 4.34
1710 2027 2.826287 TCGCTCTCGCTCTCCCTG 60.826 66.667 0.00 0.00 35.26 4.45
1719 2036 2.040278 CTCTCCCTGTCCCTGCCT 59.960 66.667 0.00 0.00 0.00 4.75
1782 2099 1.000521 CATGTCCATGCCACCACCT 60.001 57.895 0.00 0.00 31.39 4.00
1786 2103 2.044650 CCATGCCACCACCTCCTG 60.045 66.667 0.00 0.00 0.00 3.86
1790 2107 3.640407 GCCACCACCTCCTGCTCA 61.640 66.667 0.00 0.00 0.00 4.26
1793 2110 1.681666 CACCACCTCCTGCTCATGT 59.318 57.895 0.00 0.00 0.00 3.21
1794 2111 0.675837 CACCACCTCCTGCTCATGTG 60.676 60.000 0.00 0.00 0.00 3.21
2034 2361 0.901827 TGGCCAAGATCGAGTAGCAA 59.098 50.000 0.61 0.00 0.00 3.91
2044 2371 0.179205 CGAGTAGCAAGCAAGCAAGC 60.179 55.000 3.19 0.00 36.85 4.01
2046 2373 1.267806 GAGTAGCAAGCAAGCAAGCAA 59.732 47.619 10.52 0.00 36.85 3.91
2047 2374 1.268899 AGTAGCAAGCAAGCAAGCAAG 59.731 47.619 10.52 0.00 36.85 4.01
2049 2376 0.748450 AGCAAGCAAGCAAGCAAGAA 59.252 45.000 10.52 0.00 36.85 2.52
2050 2377 1.137513 GCAAGCAAGCAAGCAAGAAG 58.862 50.000 3.19 0.00 36.85 2.85
2051 2378 1.137513 CAAGCAAGCAAGCAAGAAGC 58.862 50.000 3.19 0.00 46.19 3.86
2082 2418 2.036992 AGTCTGTCTGCTCCACTCAAAG 59.963 50.000 0.00 0.00 0.00 2.77
2101 2437 8.248945 ACTCAAAGAGCCAATGAATTAATCAAG 58.751 33.333 0.00 0.00 35.80 3.02
2102 2438 7.549839 TCAAAGAGCCAATGAATTAATCAAGG 58.450 34.615 0.00 0.00 42.54 3.61
2103 2439 6.475596 AAGAGCCAATGAATTAATCAAGGG 57.524 37.500 0.00 0.00 42.54 3.95
2104 2440 5.769835 AGAGCCAATGAATTAATCAAGGGA 58.230 37.500 0.00 0.00 42.54 4.20
2143 2484 2.260869 GCAGAGGCGGCAAGTGAAA 61.261 57.895 13.08 0.00 0.00 2.69
2144 2485 1.589716 GCAGAGGCGGCAAGTGAAAT 61.590 55.000 13.08 0.00 0.00 2.17
2146 2487 0.036732 AGAGGCGGCAAGTGAAATGA 59.963 50.000 13.08 0.00 0.00 2.57
2151 2493 1.135575 GCGGCAAGTGAAATGAAGAGG 60.136 52.381 0.00 0.00 0.00 3.69
2157 2499 4.940046 GCAAGTGAAATGAAGAGGAGATGA 59.060 41.667 0.00 0.00 0.00 2.92
2211 2553 3.968649 TGCCCGACAATAATTCCCTAGTA 59.031 43.478 0.00 0.00 0.00 1.82
2212 2554 4.409574 TGCCCGACAATAATTCCCTAGTAA 59.590 41.667 0.00 0.00 0.00 2.24
2213 2555 5.104444 TGCCCGACAATAATTCCCTAGTAAA 60.104 40.000 0.00 0.00 0.00 2.01
2250 2596 4.806952 TTTTTCTTCCCTTCCTTCCTCA 57.193 40.909 0.00 0.00 0.00 3.86
2258 2604 2.376855 CCCTTCCTTCCTCAAAGTTCCT 59.623 50.000 0.00 0.00 32.69 3.36
2269 2618 4.238514 CTCAAAGTTCCTTCGAAGATCGT 58.761 43.478 26.61 10.97 41.35 3.73
2270 2619 4.235360 TCAAAGTTCCTTCGAAGATCGTC 58.765 43.478 26.61 11.26 41.35 4.20
2271 2620 2.943449 AGTTCCTTCGAAGATCGTCC 57.057 50.000 26.61 7.75 41.35 4.79
2272 2621 1.132643 AGTTCCTTCGAAGATCGTCCG 59.867 52.381 26.61 7.82 41.35 4.79
2273 2622 1.131883 GTTCCTTCGAAGATCGTCCGA 59.868 52.381 26.61 10.13 41.35 4.55
2274 2623 1.676746 TCCTTCGAAGATCGTCCGAT 58.323 50.000 26.61 1.12 41.35 4.18
2286 2635 3.159353 TCGTCCGATCGATTCATGTTT 57.841 42.857 18.66 0.00 34.85 2.83
2287 2636 3.113322 TCGTCCGATCGATTCATGTTTC 58.887 45.455 18.66 0.00 34.85 2.78
2288 2637 2.218759 CGTCCGATCGATTCATGTTTCC 59.781 50.000 18.66 0.00 0.00 3.13
2321 2678 1.977412 CGAGACGAGACGAAGAAAACC 59.023 52.381 0.00 0.00 0.00 3.27
2353 2710 2.097466 CGTGGCAAATAAACTAGGCAGG 59.903 50.000 0.00 0.00 37.22 4.85
2363 2720 4.739356 TAGGCAGGGCAGGGCAGA 62.739 66.667 4.16 0.00 0.00 4.26
2390 2747 2.868839 GCAAACATGTTGCTTGCTGGAT 60.869 45.455 21.17 0.00 43.77 3.41
2391 2748 2.991190 CAAACATGTTGCTTGCTGGATC 59.009 45.455 12.82 0.00 0.00 3.36
2392 2749 0.806868 ACATGTTGCTTGCTGGATCG 59.193 50.000 0.00 0.00 0.00 3.69
2393 2750 0.524816 CATGTTGCTTGCTGGATCGC 60.525 55.000 0.00 0.00 0.00 4.58
2395 2752 1.300971 TGTTGCTTGCTGGATCGCTC 61.301 55.000 0.00 0.00 0.00 5.03
2404 2761 3.289797 TGGATCGCTCCAGAGTTCT 57.710 52.632 3.28 0.00 46.95 3.01
2450 2807 3.004752 AGAAATGAAACGAGATGGGGG 57.995 47.619 0.00 0.00 0.00 5.40
2469 2831 1.281899 GAAATGAGAGGCCGAGTTCG 58.718 55.000 0.00 0.00 39.44 3.95
2489 2851 2.133553 GTGGATCGATCACATCTGCTG 58.866 52.381 25.93 0.00 35.39 4.41
2495 2857 2.004733 CGATCACATCTGCTGCTTCAA 58.995 47.619 0.00 0.00 0.00 2.69
2504 2867 6.965500 CACATCTGCTGCTTCAATTTTACTAG 59.035 38.462 0.00 0.00 0.00 2.57
2505 2868 6.656693 ACATCTGCTGCTTCAATTTTACTAGT 59.343 34.615 0.00 0.00 0.00 2.57
2529 2893 6.734104 AACTACTCTACATAGTCGTTTCGT 57.266 37.500 0.00 0.00 33.08 3.85
2591 2955 1.802508 GCTGTTTTGTGGTTGGAGTGC 60.803 52.381 0.00 0.00 0.00 4.40
2618 2982 2.069430 GGGAGCAGAGGGAGAAGGG 61.069 68.421 0.00 0.00 0.00 3.95
2647 3011 2.415983 ATTATGGTGGGAGGGATCGA 57.584 50.000 0.00 0.00 0.00 3.59
2648 3012 2.415983 TTATGGTGGGAGGGATCGAT 57.584 50.000 0.00 0.00 0.00 3.59
2649 3013 1.938585 TATGGTGGGAGGGATCGATC 58.061 55.000 17.36 17.36 0.00 3.69
2650 3014 1.188219 ATGGTGGGAGGGATCGATCG 61.188 60.000 18.81 9.36 0.00 3.69
2739 3117 8.848474 TCCTTTCAAGTTTATTTACTGAGGAG 57.152 34.615 0.00 0.00 0.00 3.69
2740 3118 7.883311 TCCTTTCAAGTTTATTTACTGAGGAGG 59.117 37.037 0.00 0.00 0.00 4.30
2741 3119 7.883311 CCTTTCAAGTTTATTTACTGAGGAGGA 59.117 37.037 0.00 0.00 0.00 3.71
2746 3124 9.401058 CAAGTTTATTTACTGAGGAGGATTGAT 57.599 33.333 0.00 0.00 0.00 2.57
2779 3188 2.363172 TGGGCGATTGATGGACGGA 61.363 57.895 0.00 0.00 0.00 4.69
2780 3189 1.887707 GGGCGATTGATGGACGGAC 60.888 63.158 0.00 0.00 0.00 4.79
2781 3190 1.887707 GGCGATTGATGGACGGACC 60.888 63.158 0.00 0.00 39.54 4.46
2782 3191 2.237751 GCGATTGATGGACGGACCG 61.238 63.158 13.61 13.61 42.61 4.79
2806 3215 1.302949 CGTGTGGGGATGGGAATGT 59.697 57.895 0.00 0.00 0.00 2.71
2807 3216 1.031571 CGTGTGGGGATGGGAATGTG 61.032 60.000 0.00 0.00 0.00 3.21
2808 3217 0.331278 GTGTGGGGATGGGAATGTGA 59.669 55.000 0.00 0.00 0.00 3.58
2809 3218 1.079796 TGTGGGGATGGGAATGTGAA 58.920 50.000 0.00 0.00 0.00 3.18
2810 3219 1.645391 TGTGGGGATGGGAATGTGAAT 59.355 47.619 0.00 0.00 0.00 2.57
2811 3220 2.034124 GTGGGGATGGGAATGTGAATG 58.966 52.381 0.00 0.00 0.00 2.67
2822 3235 0.684153 ATGTGAATGGCGGAAAGGGG 60.684 55.000 0.00 0.00 0.00 4.79
2882 3303 3.242936 ACGCAACGCAAAGTGAAGTTATT 60.243 39.130 0.00 0.00 0.00 1.40
2883 3304 3.357823 CGCAACGCAAAGTGAAGTTATTC 59.642 43.478 0.00 0.00 35.87 1.75
2913 3338 3.386078 ACAACTCACATGACTGACTGACT 59.614 43.478 0.00 0.00 0.00 3.41
2915 3340 3.225940 ACTCACATGACTGACTGACTGA 58.774 45.455 0.00 0.00 0.00 3.41
2916 3341 3.255395 ACTCACATGACTGACTGACTGAG 59.745 47.826 0.00 0.05 0.00 3.35
2917 3342 2.029560 TCACATGACTGACTGACTGAGC 60.030 50.000 0.00 0.00 0.00 4.26
2918 3343 1.966354 ACATGACTGACTGACTGAGCA 59.034 47.619 0.00 0.00 0.00 4.26
3035 3469 4.555709 GTGTCCACGCCCACCACA 62.556 66.667 0.00 0.00 0.00 4.17
3038 3472 3.936203 TCCACGCCCACCACACTC 61.936 66.667 0.00 0.00 0.00 3.51
3039 3473 3.941188 CCACGCCCACCACACTCT 61.941 66.667 0.00 0.00 0.00 3.24
3040 3474 2.111043 CACGCCCACCACACTCTT 59.889 61.111 0.00 0.00 0.00 2.85
3042 3476 2.358737 CGCCCACCACACTCTTCC 60.359 66.667 0.00 0.00 0.00 3.46
3043 3477 2.836154 GCCCACCACACTCTTCCA 59.164 61.111 0.00 0.00 0.00 3.53
3045 3479 1.073199 CCCACCACACTCTTCCACC 59.927 63.158 0.00 0.00 0.00 4.61
3046 3480 1.418908 CCCACCACACTCTTCCACCT 61.419 60.000 0.00 0.00 0.00 4.00
3047 3481 0.035458 CCACCACACTCTTCCACCTC 59.965 60.000 0.00 0.00 0.00 3.85
3075 3521 3.488721 GGAATTATCAACAGCAGCAGCAG 60.489 47.826 3.17 0.00 45.49 4.24
3076 3522 0.806868 TTATCAACAGCAGCAGCAGC 59.193 50.000 3.17 0.46 45.49 5.25
3077 3523 0.321830 TATCAACAGCAGCAGCAGCA 60.322 50.000 12.92 0.00 45.49 4.41
3078 3524 1.176619 ATCAACAGCAGCAGCAGCAA 61.177 50.000 12.92 0.00 45.49 3.91
3079 3525 1.371758 CAACAGCAGCAGCAGCAAG 60.372 57.895 12.92 6.63 45.49 4.01
3095 3548 4.175516 CAGCAAGCAAACTCAACAGAAAA 58.824 39.130 0.00 0.00 0.00 2.29
3120 3573 2.143122 GCACTCAACGACCAGATGAAA 58.857 47.619 0.00 0.00 31.05 2.69
3160 3630 2.034812 GGAGTATCTGAACCCTAGCACG 59.965 54.545 0.00 0.00 33.73 5.34
3289 3794 4.327357 CGTTCGCATCCACCATCTATATTC 59.673 45.833 0.00 0.00 0.00 1.75
3326 3831 4.268359 ACAGTGGCCAGTAGTAGTAGTAC 58.732 47.826 14.17 7.01 0.00 2.73
3329 3834 5.759273 CAGTGGCCAGTAGTAGTAGTACTAG 59.241 48.000 14.17 10.91 41.53 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 7.628769 TGTCTTACATATGTTGACAATGCAT 57.371 32.000 27.37 0.00 37.36 3.96
57 58 2.671619 CCACGAAACCCCGCACAT 60.672 61.111 0.00 0.00 0.00 3.21
71 72 0.323725 ACCTGCCATCCATCAACCAC 60.324 55.000 0.00 0.00 0.00 4.16
160 161 1.830847 GAACCAAACCGGGGCAACT 60.831 57.895 6.32 0.00 40.22 3.16
167 168 1.268845 CCGTTGAAAGAACCAAACCGG 60.269 52.381 0.00 0.00 42.50 5.28
175 176 1.000274 AGCCATTGCCGTTGAAAGAAC 60.000 47.619 0.00 0.00 38.69 3.01
218 219 3.489785 CGATATGCAACTTTACGGACCTC 59.510 47.826 0.00 0.00 0.00 3.85
226 227 5.029807 TCCATCACCGATATGCAACTTTA 57.970 39.130 0.00 0.00 0.00 1.85
250 251 3.103911 CACCCGAACTCGACGTGC 61.104 66.667 0.00 0.00 43.02 5.34
252 253 2.623915 CCTCACCCGAACTCGACGT 61.624 63.158 0.00 0.00 43.02 4.34
262 263 2.663196 GGTTCACCTCCTCACCCG 59.337 66.667 0.00 0.00 0.00 5.28
293 294 1.672030 CAGCACAGCAATCACCCGA 60.672 57.895 0.00 0.00 0.00 5.14
294 295 2.693762 CCAGCACAGCAATCACCCG 61.694 63.158 0.00 0.00 0.00 5.28
295 296 1.604593 ACCAGCACAGCAATCACCC 60.605 57.895 0.00 0.00 0.00 4.61
296 297 1.582968 CACCAGCACAGCAATCACC 59.417 57.895 0.00 0.00 0.00 4.02
297 298 1.080974 GCACCAGCACAGCAATCAC 60.081 57.895 0.00 0.00 41.58 3.06
309 312 1.004080 CACCTGTCTCCAGCACCAG 60.004 63.158 0.00 0.00 37.38 4.00
331 334 0.880278 TCTGAGCTTGACACCAACGC 60.880 55.000 0.00 0.00 0.00 4.84
333 336 3.378427 ACTTTTCTGAGCTTGACACCAAC 59.622 43.478 0.00 0.00 0.00 3.77
351 354 9.705290 ACAAAACTGAAAAGACAACATAACTTT 57.295 25.926 0.00 0.00 35.74 2.66
353 356 8.519526 TGACAAAACTGAAAAGACAACATAACT 58.480 29.630 0.00 0.00 0.00 2.24
415 419 5.005107 GGTAAAACGTGTCTCATTCGTATCC 59.995 44.000 0.00 0.00 36.80 2.59
522 528 6.404293 CCTGACTATTCGGTTTTTAATGGGTG 60.404 42.308 0.00 0.00 0.00 4.61
620 878 1.645710 ATGGACGGATGGATAGGGAC 58.354 55.000 0.00 0.00 0.00 4.46
646 904 1.540797 CCTCCGACTCCTACTCCTACG 60.541 61.905 0.00 0.00 0.00 3.51
647 905 1.767681 TCCTCCGACTCCTACTCCTAC 59.232 57.143 0.00 0.00 0.00 3.18
648 906 2.048601 CTCCTCCGACTCCTACTCCTA 58.951 57.143 0.00 0.00 0.00 2.94
650 908 0.820482 GCTCCTCCGACTCCTACTCC 60.820 65.000 0.00 0.00 0.00 3.85
651 909 0.107116 TGCTCCTCCGACTCCTACTC 60.107 60.000 0.00 0.00 0.00 2.59
652 910 0.106918 CTGCTCCTCCGACTCCTACT 60.107 60.000 0.00 0.00 0.00 2.57
655 913 2.043450 CCTGCTCCTCCGACTCCT 60.043 66.667 0.00 0.00 0.00 3.69
656 914 2.043852 TCCTGCTCCTCCGACTCC 60.044 66.667 0.00 0.00 0.00 3.85
657 915 1.077357 TCTCCTGCTCCTCCGACTC 60.077 63.158 0.00 0.00 0.00 3.36
658 916 1.077068 CTCTCCTGCTCCTCCGACT 60.077 63.158 0.00 0.00 0.00 4.18
659 917 1.379309 ACTCTCCTGCTCCTCCGAC 60.379 63.158 0.00 0.00 0.00 4.79
660 918 1.077357 GACTCTCCTGCTCCTCCGA 60.077 63.158 0.00 0.00 0.00 4.55
661 919 0.754957 ATGACTCTCCTGCTCCTCCG 60.755 60.000 0.00 0.00 0.00 4.63
662 920 1.494960 AATGACTCTCCTGCTCCTCC 58.505 55.000 0.00 0.00 0.00 4.30
663 921 2.419851 CCAAATGACTCTCCTGCTCCTC 60.420 54.545 0.00 0.00 0.00 3.71
866 1131 0.338120 AGGAAGGAGACAGAGGGGAG 59.662 60.000 0.00 0.00 0.00 4.30
888 1153 2.129397 TGGGATGGGATGGGGTGT 59.871 61.111 0.00 0.00 0.00 4.16
890 1155 0.697854 GTAGTGGGATGGGATGGGGT 60.698 60.000 0.00 0.00 0.00 4.95
891 1156 1.427072 GGTAGTGGGATGGGATGGGG 61.427 65.000 0.00 0.00 0.00 4.96
892 1157 0.697511 TGGTAGTGGGATGGGATGGG 60.698 60.000 0.00 0.00 0.00 4.00
893 1158 0.474184 GTGGTAGTGGGATGGGATGG 59.526 60.000 0.00 0.00 0.00 3.51
894 1159 0.474184 GGTGGTAGTGGGATGGGATG 59.526 60.000 0.00 0.00 0.00 3.51
895 1160 0.045623 TGGTGGTAGTGGGATGGGAT 59.954 55.000 0.00 0.00 0.00 3.85
896 1161 0.178858 TTGGTGGTAGTGGGATGGGA 60.179 55.000 0.00 0.00 0.00 4.37
897 1162 0.255890 CTTGGTGGTAGTGGGATGGG 59.744 60.000 0.00 0.00 0.00 4.00
898 1163 0.255890 CCTTGGTGGTAGTGGGATGG 59.744 60.000 0.00 0.00 0.00 3.51
907 1172 4.785914 TGATAATCAACTCCCTTGGTGGTA 59.214 41.667 0.00 0.00 0.00 3.25
914 1179 4.656112 ACCGATCTGATAATCAACTCCCTT 59.344 41.667 0.00 0.00 0.00 3.95
917 1182 5.927115 GGTTACCGATCTGATAATCAACTCC 59.073 44.000 0.00 0.00 0.00 3.85
918 1183 6.750148 AGGTTACCGATCTGATAATCAACTC 58.250 40.000 0.00 0.00 0.00 3.01
922 1187 5.833667 AGTGAGGTTACCGATCTGATAATCA 59.166 40.000 0.00 0.00 0.00 2.57
928 1193 2.014857 CGAGTGAGGTTACCGATCTGA 58.985 52.381 0.00 0.00 0.00 3.27
965 1273 0.592500 CTCGGTCGATCGATGTGTGG 60.593 60.000 22.83 4.65 38.55 4.17
966 1274 0.592500 CCTCGGTCGATCGATGTGTG 60.593 60.000 22.83 9.33 38.55 3.82
967 1275 0.746923 TCCTCGGTCGATCGATGTGT 60.747 55.000 22.83 0.00 38.55 3.72
968 1276 0.593618 ATCCTCGGTCGATCGATGTG 59.406 55.000 22.83 16.40 38.55 3.21
969 1277 0.875728 GATCCTCGGTCGATCGATGT 59.124 55.000 22.83 10.44 38.55 3.06
970 1278 1.160989 AGATCCTCGGTCGATCGATG 58.839 55.000 22.83 19.15 40.91 3.84
971 1279 2.348660 GTAGATCCTCGGTCGATCGAT 58.651 52.381 22.83 6.84 40.91 3.59
972 1280 1.607509 GGTAGATCCTCGGTCGATCGA 60.608 57.143 21.21 21.21 40.91 3.59
973 1281 0.797542 GGTAGATCCTCGGTCGATCG 59.202 60.000 12.98 12.98 40.91 3.69
974 1282 0.797542 CGGTAGATCCTCGGTCGATC 59.202 60.000 0.00 0.00 37.07 3.69
975 1283 0.605860 CCGGTAGATCCTCGGTCGAT 60.606 60.000 9.87 0.00 39.04 3.59
976 1284 1.227764 CCGGTAGATCCTCGGTCGA 60.228 63.158 9.87 0.00 39.04 4.20
980 1288 3.671411 CCGCCGGTAGATCCTCGG 61.671 72.222 1.90 12.78 45.84 4.63
1037 1345 2.573609 CTTGATCCGGTCCACGTCCC 62.574 65.000 0.00 0.00 42.24 4.46
1375 1683 3.451556 CTGATGCCGAGGCCGATGT 62.452 63.158 12.05 0.00 41.09 3.06
1376 1684 2.664185 CTGATGCCGAGGCCGATG 60.664 66.667 12.05 0.00 41.09 3.84
1377 1685 4.615815 GCTGATGCCGAGGCCGAT 62.616 66.667 12.05 0.00 41.09 4.18
1379 1687 4.923942 ATGCTGATGCCGAGGCCG 62.924 66.667 12.05 0.00 41.09 6.13
1380 1688 2.976903 GATGCTGATGCCGAGGCC 60.977 66.667 12.05 0.00 41.09 5.19
1381 1689 3.344215 CGATGCTGATGCCGAGGC 61.344 66.667 7.26 7.26 42.35 4.70
1382 1690 3.344215 GCGATGCTGATGCCGAGG 61.344 66.667 0.00 0.00 38.71 4.63
1383 1691 3.344215 GGCGATGCTGATGCCGAG 61.344 66.667 0.00 0.00 39.30 4.63
1407 1715 3.418913 TCGTTTGCCATGGCGTCG 61.419 61.111 30.87 29.82 45.51 5.12
1509 1820 2.640302 GCTGGAGTCGCTGAGGTCA 61.640 63.158 0.00 0.00 0.00 4.02
1710 2027 2.988839 ATCCAAGCCAGGCAGGGAC 61.989 63.158 22.70 0.00 36.25 4.46
1756 2073 3.896133 CATGGACATGGGCTGCGC 61.896 66.667 10.06 10.06 35.24 6.09
1764 2081 1.000521 AGGTGGTGGCATGGACATG 60.001 57.895 7.91 7.91 41.60 3.21
1782 2099 0.250234 GTACAGGCACATGAGCAGGA 59.750 55.000 17.11 2.59 35.83 3.86
1786 2103 2.093216 GCTGTACAGGCACATGAGC 58.907 57.895 23.95 6.57 0.00 4.26
2034 2361 0.314302 CTGCTTCTTGCTTGCTTGCT 59.686 50.000 3.47 0.00 43.37 3.91
2044 2371 3.933955 CAGACTCATCTTCCTGCTTCTTG 59.066 47.826 0.00 0.00 30.42 3.02
2046 2373 3.172339 ACAGACTCATCTTCCTGCTTCT 58.828 45.455 0.00 0.00 30.42 2.85
2047 2374 3.195396 AGACAGACTCATCTTCCTGCTTC 59.805 47.826 0.00 0.00 30.42 3.86
2049 2376 2.496871 CAGACAGACTCATCTTCCTGCT 59.503 50.000 0.00 0.00 30.42 4.24
2050 2377 2.891112 CAGACAGACTCATCTTCCTGC 58.109 52.381 0.00 0.00 30.42 4.85
2051 2378 2.496871 AGCAGACAGACTCATCTTCCTG 59.503 50.000 0.00 0.00 35.99 3.86
2052 2379 2.760092 GAGCAGACAGACTCATCTTCCT 59.240 50.000 0.00 0.00 30.42 3.36
2082 2418 5.506317 CGTCCCTTGATTAATTCATTGGCTC 60.506 44.000 0.00 0.00 33.34 4.70
2101 2437 0.317519 CGTTTGTTTCTTGGCGTCCC 60.318 55.000 0.00 0.00 0.00 4.46
2102 2438 0.317519 CCGTTTGTTTCTTGGCGTCC 60.318 55.000 0.00 0.00 0.00 4.79
2103 2439 0.658897 TCCGTTTGTTTCTTGGCGTC 59.341 50.000 0.00 0.00 0.00 5.19
2104 2440 1.064952 CTTCCGTTTGTTTCTTGGCGT 59.935 47.619 0.00 0.00 0.00 5.68
2143 2484 3.740764 GCTTCGCTTCATCTCCTCTTCAT 60.741 47.826 0.00 0.00 0.00 2.57
2144 2485 2.417924 GCTTCGCTTCATCTCCTCTTCA 60.418 50.000 0.00 0.00 0.00 3.02
2146 2487 1.830477 AGCTTCGCTTCATCTCCTCTT 59.170 47.619 0.00 0.00 33.89 2.85
2151 2493 1.486644 GCCGAGCTTCGCTTCATCTC 61.487 60.000 0.00 0.00 39.88 2.75
2175 2517 2.603560 GTCGGGCAAGAAGATCTAAACG 59.396 50.000 0.00 0.00 0.00 3.60
2234 2576 3.797559 ACTTTGAGGAAGGAAGGGAAG 57.202 47.619 0.00 0.00 39.79 3.46
2258 2604 1.292992 TCGATCGGACGATCTTCGAA 58.707 50.000 26.18 0.00 46.36 3.71
2269 2618 2.159156 ACGGAAACATGAATCGATCGGA 60.159 45.455 16.41 2.25 0.00 4.55
2270 2619 2.201732 ACGGAAACATGAATCGATCGG 58.798 47.619 16.41 0.00 0.00 4.18
2271 2620 3.551890 AGAACGGAAACATGAATCGATCG 59.448 43.478 9.36 9.36 0.00 3.69
2272 2621 5.063438 TGAAGAACGGAAACATGAATCGATC 59.937 40.000 0.00 2.52 0.00 3.69
2273 2622 4.935205 TGAAGAACGGAAACATGAATCGAT 59.065 37.500 0.00 0.00 0.00 3.59
2274 2623 4.311606 TGAAGAACGGAAACATGAATCGA 58.688 39.130 0.00 0.00 0.00 3.59
2275 2624 4.388773 TCTGAAGAACGGAAACATGAATCG 59.611 41.667 0.00 0.18 0.00 3.34
2276 2625 5.639506 TCTCTGAAGAACGGAAACATGAATC 59.360 40.000 0.00 0.00 33.09 2.52
2286 2635 1.805345 GTCTCGTCTCTGAAGAACGGA 59.195 52.381 12.05 7.82 31.93 4.69
2287 2636 1.464355 CGTCTCGTCTCTGAAGAACGG 60.464 57.143 12.05 6.36 31.93 4.44
2288 2637 1.459975 TCGTCTCGTCTCTGAAGAACG 59.540 52.381 8.02 8.02 31.93 3.95
2321 2678 3.964221 TTGCCACGCTAGCGACGAG 62.964 63.158 41.33 25.52 42.83 4.18
2353 2710 2.594013 GCTATGCTCTGCCCTGCC 60.594 66.667 0.00 0.00 0.00 4.85
2387 2744 2.682155 AAAGAACTCTGGAGCGATCC 57.318 50.000 14.17 14.17 0.00 3.36
2450 2807 1.281899 CGAACTCGGCCTCTCATTTC 58.718 55.000 0.00 0.00 35.37 2.17
2469 2831 2.133553 CAGCAGATGTGATCGATCCAC 58.866 52.381 22.31 18.81 35.23 4.02
2504 2867 7.680062 ACGAAACGACTATGTAGAGTAGTTAC 58.320 38.462 5.76 0.00 42.31 2.50
2505 2868 7.834068 ACGAAACGACTATGTAGAGTAGTTA 57.166 36.000 5.76 0.00 42.31 2.24
2529 2893 4.202377 TGCACCTACTACTAGCACCAAAAA 60.202 41.667 0.00 0.00 0.00 1.94
2591 2955 1.001641 CTCTGCTCCCCAAACCAGG 60.002 63.158 0.00 0.00 0.00 4.45
2618 2982 1.064952 CCCACCATAATTCCGTTTCGC 59.935 52.381 0.00 0.00 0.00 4.70
2647 3011 1.528824 CCCATTCTCCACTGCCGAT 59.471 57.895 0.00 0.00 0.00 4.18
2648 3012 2.989639 CCCATTCTCCACTGCCGA 59.010 61.111 0.00 0.00 0.00 5.54
2649 3013 2.825836 GCCCATTCTCCACTGCCG 60.826 66.667 0.00 0.00 0.00 5.69
2650 3014 2.825836 CGCCCATTCTCCACTGCC 60.826 66.667 0.00 0.00 0.00 4.85
2739 3117 7.605449 CCCACATGTCCAAATAATATCAATCC 58.395 38.462 0.00 0.00 0.00 3.01
2740 3118 7.092716 GCCCACATGTCCAAATAATATCAATC 58.907 38.462 0.00 0.00 0.00 2.67
2741 3119 6.294675 CGCCCACATGTCCAAATAATATCAAT 60.295 38.462 0.00 0.00 0.00 2.57
2746 3124 4.157849 TCGCCCACATGTCCAAATAATA 57.842 40.909 0.00 0.00 0.00 0.98
2749 3127 2.687425 CAATCGCCCACATGTCCAAATA 59.313 45.455 0.00 0.00 0.00 1.40
2782 3191 4.489771 CATCCCCACACGCCCTCC 62.490 72.222 0.00 0.00 0.00 4.30
2806 3215 2.358619 CCCCCTTTCCGCCATTCA 59.641 61.111 0.00 0.00 0.00 2.57
2807 3216 3.147595 GCCCCCTTTCCGCCATTC 61.148 66.667 0.00 0.00 0.00 2.67
2808 3217 2.746947 AAAGCCCCCTTTCCGCCATT 62.747 55.000 0.00 0.00 36.59 3.16
2809 3218 3.238197 AAAGCCCCCTTTCCGCCAT 62.238 57.895 0.00 0.00 36.59 4.40
2810 3219 3.909651 AAAGCCCCCTTTCCGCCA 61.910 61.111 0.00 0.00 36.59 5.69
2811 3220 3.381983 CAAAGCCCCCTTTCCGCC 61.382 66.667 0.00 0.00 39.20 6.13
2822 3235 0.169009 CTAGCTGCCGTTTCAAAGCC 59.831 55.000 0.00 0.00 36.28 4.35
2882 3303 2.360801 TCATGTGAGTTGTGTCGTCTGA 59.639 45.455 0.00 0.00 0.00 3.27
2883 3304 2.472861 GTCATGTGAGTTGTGTCGTCTG 59.527 50.000 0.00 0.00 0.00 3.51
2913 3338 2.754552 GGGACAATAATGCAAGTGCTCA 59.245 45.455 4.69 0.00 42.66 4.26
2915 3340 2.756760 CTGGGACAATAATGCAAGTGCT 59.243 45.455 4.69 0.00 39.36 4.40
2916 3341 2.754552 TCTGGGACAATAATGCAAGTGC 59.245 45.455 0.00 0.00 38.70 4.40
2917 3342 5.183713 TCTTTCTGGGACAATAATGCAAGTG 59.816 40.000 0.00 0.00 38.70 3.16
2918 3343 5.183904 GTCTTTCTGGGACAATAATGCAAGT 59.816 40.000 0.00 0.00 38.70 3.16
3030 3464 0.104934 AGGAGGTGGAAGAGTGTGGT 60.105 55.000 0.00 0.00 0.00 4.16
3035 3469 1.150135 TCCAGAAGGAGGTGGAAGAGT 59.850 52.381 0.00 0.00 40.01 3.24
3040 3474 4.370776 TGATAATTCCAGAAGGAGGTGGA 58.629 43.478 0.00 0.00 46.74 4.02
3042 3476 5.500234 TGTTGATAATTCCAGAAGGAGGTG 58.500 41.667 0.00 0.00 46.74 4.00
3043 3477 5.749462 CTGTTGATAATTCCAGAAGGAGGT 58.251 41.667 0.00 0.00 46.74 3.85
3045 3479 5.188434 TGCTGTTGATAATTCCAGAAGGAG 58.812 41.667 0.00 0.00 46.74 3.69
3046 3480 5.178096 TGCTGTTGATAATTCCAGAAGGA 57.822 39.130 0.00 0.00 43.93 3.36
3047 3481 4.201990 GCTGCTGTTGATAATTCCAGAAGG 60.202 45.833 0.00 0.00 32.20 3.46
3095 3548 2.639065 TCTGGTCGTTGAGTGCTTTTT 58.361 42.857 0.00 0.00 0.00 1.94
3100 3553 1.795768 TTCATCTGGTCGTTGAGTGC 58.204 50.000 0.00 0.00 0.00 4.40
3101 3554 4.452114 TCAATTTCATCTGGTCGTTGAGTG 59.548 41.667 0.00 0.00 0.00 3.51
3138 3608 3.031736 GTGCTAGGGTTCAGATACTCCA 58.968 50.000 0.00 0.00 0.00 3.86
3152 3622 1.741770 GTTGTGCCTCCGTGCTAGG 60.742 63.158 0.00 0.00 37.17 3.02
3160 3630 6.223120 AGAAATAAATGTTTGTTGTGCCTCC 58.777 36.000 0.00 0.00 0.00 4.30
3195 3700 4.165565 TCTCCTCAGCTGAATTCATCCAAT 59.834 41.667 18.85 0.00 0.00 3.16
3289 3794 0.672401 ACTGTTTCGGGGTGCATACG 60.672 55.000 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.