Multiple sequence alignment - TraesCS4D01G198800

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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 TraesCS4D01G198800 chr4D 100.000 2171 0 0 1 2171 345415586 345413416 0.000000e+00 4010
1 TraesCS4D01G198800 chr4A 85.944 1743 91 65 1 1641 120143416 120145106 0.000000e+00 1720
2 TraesCS4D01G198800 chr4A 81.212 330 33 14 1755 2069 120145385 120145700 2.790000e-59 239
3 TraesCS4D01G198800 chr4B 82.301 1695 113 83 1 1591 427068484 427066873 0.000000e+00 1295
4 TraesCS4D01G198800 chr4B 82.407 216 18 5 1758 1967 427066559 427066358 1.030000e-38 171
5 TraesCS4D01G198800 chr4B 86.957 115 9 4 1951 2059 427066339 427066225 8.140000e-25 124
6 TraesCS4D01G198800 chr4B 89.011 91 10 0 1658 1748 427066706 427066616 1.760000e-21 113


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 TraesCS4D01G198800 chr4D 345413416 345415586 2170 True 4010.00 4010 100.000 1 2171 1 chr4D.!!$R1 2170
1 TraesCS4D01G198800 chr4A 120143416 120145700 2284 False 979.50 1720 83.578 1 2069 2 chr4A.!!$F1 2068
2 TraesCS4D01G198800 chr4B 427066225 427068484 2259 True 425.75 1295 85.169 1 2059 4 chr4B.!!$R1 2058

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
949 1029 0.172352 CCTTCACACGCTCCTCTCTC 59.828 60.0 0.0 0.0 0.0 3.2 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2148 2595 0.038892 CTGTGCACCTGAACCATTGC 60.039 55.0 15.69 0.0 35.45 3.56 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
93 96 0.796927 GAGCGAAGACTTTTTCCCCG 59.203 55.000 0.00 0.00 0.00 5.73
223 227 2.694043 GCTGTATTTTAGTTCGCTGCG 58.306 47.619 17.25 17.25 0.00 5.18
274 283 6.624423 CAGGTTATCATATTTTATGCCCTGC 58.376 40.000 0.00 0.00 30.46 4.85
413 431 8.753175 GTTTAGTGCTTAAACTATATCCACTCG 58.247 37.037 13.66 0.00 44.99 4.18
445 463 2.755650 CAGACAGTGGCGTAGTTTTCT 58.244 47.619 0.00 0.00 0.00 2.52
446 464 3.859627 GCAGACAGTGGCGTAGTTTTCTA 60.860 47.826 0.00 0.00 0.00 2.10
447 465 3.673809 CAGACAGTGGCGTAGTTTTCTAC 59.326 47.826 0.00 0.00 46.56 2.59
487 505 3.938963 GAGTGTTGAACTTCAGAACCACA 59.061 43.478 0.00 3.65 40.07 4.17
522 562 4.081030 CTGCAGCGAGCCAACACG 62.081 66.667 0.00 0.00 44.83 4.49
532 572 1.133407 GAGCCAACACGAAACACCAAA 59.867 47.619 0.00 0.00 0.00 3.28
534 574 2.028930 AGCCAACACGAAACACCAAAAA 60.029 40.909 0.00 0.00 0.00 1.94
579 629 3.334691 TGCTTGCTGGTGAGTTATGTAC 58.665 45.455 0.00 0.00 0.00 2.90
580 630 2.678336 GCTTGCTGGTGAGTTATGTACC 59.322 50.000 0.00 0.00 35.05 3.34
691 745 3.939592 GGTAGCGTATCCAGAAAGCTTTT 59.060 43.478 14.05 0.00 39.14 2.27
692 746 4.201822 GGTAGCGTATCCAGAAAGCTTTTG 60.202 45.833 14.05 12.73 39.14 2.44
711 768 1.296715 CCCCAGGCAGTACAGTCAC 59.703 63.158 0.00 0.00 0.00 3.67
792 868 2.263077 CAGAAGATGGAGTTCGAACCG 58.737 52.381 24.22 0.61 0.00 4.44
793 869 1.893801 AGAAGATGGAGTTCGAACCGT 59.106 47.619 24.22 11.85 0.00 4.83
794 870 1.993370 GAAGATGGAGTTCGAACCGTG 59.007 52.381 24.22 0.00 0.00 4.94
795 871 1.254026 AGATGGAGTTCGAACCGTGA 58.746 50.000 24.22 6.99 0.00 4.35
796 872 1.616865 AGATGGAGTTCGAACCGTGAA 59.383 47.619 24.22 6.92 0.00 3.18
797 873 1.993370 GATGGAGTTCGAACCGTGAAG 59.007 52.381 24.22 0.00 0.00 3.02
799 875 0.669625 GGAGTTCGAACCGTGAAGGG 60.670 60.000 24.22 0.00 46.96 3.95
800 876 1.289800 GAGTTCGAACCGTGAAGGGC 61.290 60.000 24.22 0.00 46.96 5.19
801 877 1.595929 GTTCGAACCGTGAAGGGCA 60.596 57.895 17.68 0.00 46.96 5.36
802 878 1.301401 TTCGAACCGTGAAGGGCAG 60.301 57.895 0.00 0.00 46.96 4.85
803 879 2.725203 TTCGAACCGTGAAGGGCAGG 62.725 60.000 0.00 0.00 46.96 4.85
841 917 1.303643 GGAACCTTGGCCCTCACTG 60.304 63.158 0.00 0.00 0.00 3.66
866 946 3.675467 CAGTTCGCCTGGCTATAAAAC 57.325 47.619 17.92 12.23 37.54 2.43
870 950 1.092921 CGCCTGGCTATAAAACGGCA 61.093 55.000 17.92 0.00 37.39 5.69
875 955 2.901249 TGGCTATAAAACGGCAGAGAC 58.099 47.619 0.00 0.00 0.00 3.36
876 956 2.500098 TGGCTATAAAACGGCAGAGACT 59.500 45.455 0.00 0.00 0.00 3.24
877 957 3.124560 GGCTATAAAACGGCAGAGACTC 58.875 50.000 0.00 0.00 0.00 3.36
878 958 3.181474 GGCTATAAAACGGCAGAGACTCT 60.181 47.826 0.00 0.00 0.00 3.24
948 1028 0.251386 TCCTTCACACGCTCCTCTCT 60.251 55.000 0.00 0.00 0.00 3.10
949 1029 0.172352 CCTTCACACGCTCCTCTCTC 59.828 60.000 0.00 0.00 0.00 3.20
950 1030 0.179176 CTTCACACGCTCCTCTCTCG 60.179 60.000 0.00 0.00 0.00 4.04
951 1031 0.605589 TTCACACGCTCCTCTCTCGA 60.606 55.000 0.00 0.00 0.00 4.04
952 1032 1.135731 CACACGCTCCTCTCTCGAC 59.864 63.158 0.00 0.00 0.00 4.20
953 1033 2.041686 ACACGCTCCTCTCTCGACC 61.042 63.158 0.00 0.00 0.00 4.79
954 1034 2.438795 ACGCTCCTCTCTCGACCC 60.439 66.667 0.00 0.00 0.00 4.46
955 1035 2.124487 CGCTCCTCTCTCGACCCT 60.124 66.667 0.00 0.00 0.00 4.34
956 1036 1.751162 CGCTCCTCTCTCGACCCTT 60.751 63.158 0.00 0.00 0.00 3.95
1087 1182 3.394836 GCCTCTTCCCGTGCCTCT 61.395 66.667 0.00 0.00 0.00 3.69
1088 1183 2.960688 GCCTCTTCCCGTGCCTCTT 61.961 63.158 0.00 0.00 0.00 2.85
1095 1190 3.121030 CCGTGCCTCTTCCGCAAG 61.121 66.667 0.00 0.00 38.13 4.01
1178 1294 4.096003 CGGTGGTTGATCCGGCCT 62.096 66.667 0.00 0.00 42.61 5.19
1181 1297 4.424711 TGGTTGATCCGGCCTGGC 62.425 66.667 11.05 11.05 39.52 4.85
1217 1346 3.014110 GGGGAAGGAGAGGGATGGATATA 59.986 52.174 0.00 0.00 0.00 0.86
1263 1426 0.095417 GAATTGCTGCGGTCGTTCTC 59.905 55.000 0.00 0.00 0.00 2.87
1279 1442 1.438651 TCTCTTGGAACGCGAAATGG 58.561 50.000 15.93 0.00 0.00 3.16
1286 1449 4.733542 ACGCGAAATGGGGGTGGG 62.734 66.667 15.93 0.00 34.15 4.61
1292 1455 1.675720 GAAATGGGGGTGGGCGATTG 61.676 60.000 0.00 0.00 0.00 2.67
1298 1461 4.815108 GGTGGGCGATTGGGGGTC 62.815 72.222 0.00 0.00 0.00 4.46
1312 1476 3.384532 GGTCGGGGTCGCTGGTAA 61.385 66.667 0.00 0.00 36.13 2.85
1375 1540 3.055021 TGGCTGTATGGAATTCCGTTGTA 60.055 43.478 24.06 9.20 39.43 2.41
1435 1604 2.811431 TCGCAGTGATTTGGATCGTTTT 59.189 40.909 0.00 0.00 34.91 2.43
1441 1615 3.254657 GTGATTTGGATCGTTTTGGTGGA 59.745 43.478 0.00 0.00 34.91 4.02
1455 1629 6.321717 GTTTTGGTGGATGTATGTATGTGTG 58.678 40.000 0.00 0.00 0.00 3.82
1462 1639 8.755028 GGTGGATGTATGTATGTGTGGTATATA 58.245 37.037 0.00 0.00 0.00 0.86
1486 1663 6.870769 ACTACTGTACGTAATTGCCATTAGT 58.129 36.000 0.00 2.37 0.00 2.24
1510 1687 9.739276 AGTTGGTGAACTTATCATGAATTTCTA 57.261 29.630 0.00 0.00 39.56 2.10
1527 1704 7.173218 TGAATTTCTAGCCTTTCTAGTGTTGTG 59.827 37.037 0.00 0.00 44.10 3.33
1528 1705 3.926616 TCTAGCCTTTCTAGTGTTGTGC 58.073 45.455 0.00 0.00 44.10 4.57
1538 1719 0.740149 AGTGTTGTGCATGGTGTGTG 59.260 50.000 0.00 0.00 0.00 3.82
1546 1727 2.034879 CATGGTGTGTGCTCCGGTC 61.035 63.158 0.00 0.00 0.00 4.79
1579 1760 2.662006 TTCTTCTCTGCATCTCCGTG 57.338 50.000 0.00 0.00 0.00 4.94
1583 1764 3.068064 TCTGCATCTCCGTGGCGA 61.068 61.111 0.00 0.00 0.00 5.54
1592 1773 0.999406 CTCCGTGGCGAAGTACATTG 59.001 55.000 0.00 0.00 0.00 2.82
1594 1775 0.719465 CCGTGGCGAAGTACATTGAC 59.281 55.000 0.00 0.00 0.00 3.18
1595 1776 1.671850 CCGTGGCGAAGTACATTGACT 60.672 52.381 0.00 0.00 0.00 3.41
1596 1777 1.390123 CGTGGCGAAGTACATTGACTG 59.610 52.381 0.00 0.00 0.00 3.51
1597 1778 2.683968 GTGGCGAAGTACATTGACTGA 58.316 47.619 0.00 0.00 0.00 3.41
1598 1779 2.412089 GTGGCGAAGTACATTGACTGAC 59.588 50.000 0.00 0.00 0.00 3.51
1608 1789 3.813443 ACATTGACTGACTGAACAAGCT 58.187 40.909 0.00 0.00 0.00 3.74
1616 1797 0.037790 ACTGAACAAGCTCGCTCTCC 60.038 55.000 0.00 0.00 0.00 3.71
1641 1822 0.678684 TCCGTCGCAGAGTACATGGA 60.679 55.000 0.00 0.00 36.95 3.41
1642 1823 0.385751 CCGTCGCAGAGTACATGGAT 59.614 55.000 0.00 0.00 36.95 3.41
1643 1824 1.202417 CCGTCGCAGAGTACATGGATT 60.202 52.381 0.00 0.00 36.95 3.01
1644 1825 1.854743 CGTCGCAGAGTACATGGATTG 59.145 52.381 0.00 0.00 36.95 2.67
1645 1826 2.479560 CGTCGCAGAGTACATGGATTGA 60.480 50.000 0.00 0.00 36.95 2.57
1646 1827 3.521560 GTCGCAGAGTACATGGATTGAA 58.478 45.455 0.00 0.00 36.95 2.69
1649 1830 3.308053 CGCAGAGTACATGGATTGAACAG 59.692 47.826 0.00 0.00 0.00 3.16
1650 1831 3.624861 GCAGAGTACATGGATTGAACAGG 59.375 47.826 0.00 0.00 0.00 4.00
1651 1832 4.623886 GCAGAGTACATGGATTGAACAGGA 60.624 45.833 0.00 0.00 0.00 3.86
1652 1833 5.114780 CAGAGTACATGGATTGAACAGGAG 58.885 45.833 0.00 0.00 0.00 3.69
1653 1834 3.873952 GAGTACATGGATTGAACAGGAGC 59.126 47.826 0.00 0.00 0.00 4.70
1654 1835 1.742761 ACATGGATTGAACAGGAGCG 58.257 50.000 0.00 0.00 0.00 5.03
1655 1836 0.379669 CATGGATTGAACAGGAGCGC 59.620 55.000 0.00 0.00 0.00 5.92
1656 1837 0.254178 ATGGATTGAACAGGAGCGCT 59.746 50.000 11.27 11.27 0.00 5.92
1696 2025 2.645567 CAGACCGTCAGCGTCAGT 59.354 61.111 0.40 0.00 36.15 3.41
1707 2036 0.179094 AGCGTCAGTGTTCAACCGAA 60.179 50.000 0.00 0.00 0.00 4.30
1711 2040 2.800544 CGTCAGTGTTCAACCGAAGAAT 59.199 45.455 0.00 0.00 0.00 2.40
1724 2053 3.181489 ACCGAAGAATAACTACTCCTGCG 60.181 47.826 0.00 0.00 0.00 5.18
1730 2059 3.543680 ATAACTACTCCTGCGTTGCAT 57.456 42.857 0.00 0.00 38.13 3.96
1731 2060 2.185004 AACTACTCCTGCGTTGCATT 57.815 45.000 0.00 0.00 38.13 3.56
1733 2062 1.270839 ACTACTCCTGCGTTGCATTGT 60.271 47.619 0.00 0.00 38.13 2.71
1756 2132 1.687494 GACTGCGTTCGATGCTGACC 61.687 60.000 19.20 9.70 33.88 4.02
1796 2172 2.202932 CACAATCTCCCCCGCTCG 60.203 66.667 0.00 0.00 0.00 5.03
1821 2203 2.031163 AGGCAACGACACCTCAGC 59.969 61.111 0.00 0.00 46.39 4.26
1822 2204 2.280797 GGCAACGACACCTCAGCA 60.281 61.111 0.00 0.00 0.00 4.41
1823 2205 1.672356 GGCAACGACACCTCAGCAT 60.672 57.895 0.00 0.00 0.00 3.79
1824 2206 1.499056 GCAACGACACCTCAGCATG 59.501 57.895 0.00 0.00 37.54 4.06
1826 2208 1.071299 AACGACACCTCAGCATGCA 59.929 52.632 21.98 0.00 34.76 3.96
1828 2210 1.668793 CGACACCTCAGCATGCACA 60.669 57.895 21.98 4.25 34.76 4.57
1829 2211 1.632948 CGACACCTCAGCATGCACAG 61.633 60.000 21.98 14.41 34.76 3.66
1830 2212 0.604780 GACACCTCAGCATGCACAGT 60.605 55.000 21.98 8.66 34.76 3.55
1831 2213 0.887836 ACACCTCAGCATGCACAGTG 60.888 55.000 21.98 21.57 34.76 3.66
1857 2239 0.460109 TGCGGATGAACATCGAGGTG 60.460 55.000 2.27 0.00 38.69 4.00
1940 2342 3.367190 CGCCATCAACATCATCCACAAAA 60.367 43.478 0.00 0.00 0.00 2.44
1982 2423 2.991250 GCAGAGGCTCTTTTGGTATCA 58.009 47.619 15.90 0.00 36.96 2.15
1990 2432 3.679389 CTCTTTTGGTATCACAGTGGCT 58.321 45.455 0.00 0.00 0.00 4.75
2034 2477 0.811281 GGGATTTCGCTCTTTGGTGG 59.189 55.000 0.00 0.00 0.00 4.61
2056 2503 4.801221 CGGCGCGCTTTTGAGCTC 62.801 66.667 32.29 6.82 43.20 4.09
2059 2506 1.582168 GCGCGCTTTTGAGCTCATC 60.582 57.895 26.67 6.49 43.20 2.92
2069 2516 1.315981 TGAGCTCATCTCGGCGAGTT 61.316 55.000 33.31 24.25 44.86 3.01
2070 2517 0.179124 GAGCTCATCTCGGCGAGTTT 60.179 55.000 33.31 20.69 31.20 2.66
2071 2518 1.065701 GAGCTCATCTCGGCGAGTTTA 59.934 52.381 33.31 17.50 31.20 2.01
2072 2519 1.066303 AGCTCATCTCGGCGAGTTTAG 59.934 52.381 33.31 25.79 0.00 1.85
2073 2520 1.202313 GCTCATCTCGGCGAGTTTAGT 60.202 52.381 33.31 14.58 0.00 2.24
2074 2521 2.033049 GCTCATCTCGGCGAGTTTAGTA 59.967 50.000 33.31 15.99 0.00 1.82
2075 2522 3.850374 GCTCATCTCGGCGAGTTTAGTAG 60.850 52.174 33.31 22.45 0.00 2.57
2076 2523 3.276857 TCATCTCGGCGAGTTTAGTAGT 58.723 45.455 33.31 10.10 0.00 2.73
2077 2524 4.445453 TCATCTCGGCGAGTTTAGTAGTA 58.555 43.478 33.31 13.76 0.00 1.82
2078 2525 4.510711 TCATCTCGGCGAGTTTAGTAGTAG 59.489 45.833 33.31 12.90 0.00 2.57
2079 2526 3.866651 TCTCGGCGAGTTTAGTAGTAGT 58.133 45.455 33.31 0.00 0.00 2.73
2080 2527 5.011090 TCTCGGCGAGTTTAGTAGTAGTA 57.989 43.478 33.31 9.30 0.00 1.82
2081 2528 5.046529 TCTCGGCGAGTTTAGTAGTAGTAG 58.953 45.833 33.31 6.06 0.00 2.57
2082 2529 3.557595 TCGGCGAGTTTAGTAGTAGTAGC 59.442 47.826 4.99 0.00 0.00 3.58
2083 2530 3.310774 CGGCGAGTTTAGTAGTAGTAGCA 59.689 47.826 0.00 0.00 0.00 3.49
2084 2531 4.596097 GGCGAGTTTAGTAGTAGTAGCAC 58.404 47.826 0.00 0.00 0.00 4.40
2085 2532 4.095483 GGCGAGTTTAGTAGTAGTAGCACA 59.905 45.833 0.00 0.00 0.00 4.57
2086 2533 5.392380 GGCGAGTTTAGTAGTAGTAGCACAA 60.392 44.000 0.00 0.00 0.00 3.33
2087 2534 5.738225 GCGAGTTTAGTAGTAGTAGCACAAG 59.262 44.000 0.00 0.00 0.00 3.16
2088 2535 6.622462 GCGAGTTTAGTAGTAGTAGCACAAGT 60.622 42.308 0.00 0.00 0.00 3.16
2089 2536 7.303998 CGAGTTTAGTAGTAGTAGCACAAGTT 58.696 38.462 0.00 0.00 0.00 2.66
2090 2537 7.270793 CGAGTTTAGTAGTAGTAGCACAAGTTG 59.729 40.741 0.00 0.00 0.00 3.16
2091 2538 8.174733 AGTTTAGTAGTAGTAGCACAAGTTGA 57.825 34.615 10.54 0.00 0.00 3.18
2092 2539 8.804204 AGTTTAGTAGTAGTAGCACAAGTTGAT 58.196 33.333 10.54 0.00 0.00 2.57
2093 2540 9.074443 GTTTAGTAGTAGTAGCACAAGTTGATC 57.926 37.037 10.54 0.37 0.00 2.92
2094 2541 6.835819 AGTAGTAGTAGCACAAGTTGATCA 57.164 37.500 10.54 0.00 0.00 2.92
2095 2542 7.411486 AGTAGTAGTAGCACAAGTTGATCAT 57.589 36.000 10.54 0.00 0.00 2.45
2096 2543 7.484975 AGTAGTAGTAGCACAAGTTGATCATC 58.515 38.462 10.54 0.00 0.00 2.92
2097 2544 5.344066 AGTAGTAGCACAAGTTGATCATCG 58.656 41.667 10.54 0.00 0.00 3.84
2098 2545 4.193826 AGTAGCACAAGTTGATCATCGT 57.806 40.909 10.54 0.00 0.00 3.73
2099 2546 4.569943 AGTAGCACAAGTTGATCATCGTT 58.430 39.130 10.54 0.00 0.00 3.85
2100 2547 5.720202 AGTAGCACAAGTTGATCATCGTTA 58.280 37.500 10.54 0.00 0.00 3.18
2101 2548 5.807520 AGTAGCACAAGTTGATCATCGTTAG 59.192 40.000 10.54 0.00 0.00 2.34
2102 2549 3.372206 AGCACAAGTTGATCATCGTTAGC 59.628 43.478 10.54 0.97 0.00 3.09
2103 2550 3.372206 GCACAAGTTGATCATCGTTAGCT 59.628 43.478 10.54 0.00 0.00 3.32
2104 2551 4.566759 GCACAAGTTGATCATCGTTAGCTA 59.433 41.667 10.54 0.00 0.00 3.32
2105 2552 5.500931 GCACAAGTTGATCATCGTTAGCTAC 60.501 44.000 10.54 0.00 0.00 3.58
2106 2553 5.576774 CACAAGTTGATCATCGTTAGCTACA 59.423 40.000 10.54 0.00 0.00 2.74
2107 2554 6.090763 CACAAGTTGATCATCGTTAGCTACAA 59.909 38.462 10.54 0.00 0.00 2.41
2108 2555 6.311445 ACAAGTTGATCATCGTTAGCTACAAG 59.689 38.462 10.54 0.00 0.00 3.16
2109 2556 5.967088 AGTTGATCATCGTTAGCTACAAGT 58.033 37.500 0.00 0.00 0.00 3.16
2110 2557 6.037098 AGTTGATCATCGTTAGCTACAAGTC 58.963 40.000 0.00 0.00 0.00 3.01
2111 2558 5.576447 TGATCATCGTTAGCTACAAGTCA 57.424 39.130 0.00 0.00 0.00 3.41
2112 2559 5.961272 TGATCATCGTTAGCTACAAGTCAA 58.039 37.500 0.00 0.00 0.00 3.18
2113 2560 6.036470 TGATCATCGTTAGCTACAAGTCAAG 58.964 40.000 0.00 0.00 0.00 3.02
2114 2561 4.744570 TCATCGTTAGCTACAAGTCAAGG 58.255 43.478 0.00 0.00 0.00 3.61
2115 2562 4.461431 TCATCGTTAGCTACAAGTCAAGGA 59.539 41.667 0.00 0.00 0.00 3.36
2116 2563 5.127194 TCATCGTTAGCTACAAGTCAAGGAT 59.873 40.000 0.00 0.00 0.00 3.24
2117 2564 4.995124 TCGTTAGCTACAAGTCAAGGATC 58.005 43.478 0.00 0.00 0.00 3.36
2118 2565 4.461431 TCGTTAGCTACAAGTCAAGGATCA 59.539 41.667 0.00 0.00 0.00 2.92
2119 2566 5.127194 TCGTTAGCTACAAGTCAAGGATCAT 59.873 40.000 0.00 0.00 0.00 2.45
2120 2567 5.233050 CGTTAGCTACAAGTCAAGGATCATG 59.767 44.000 0.00 0.00 0.00 3.07
2121 2568 6.341316 GTTAGCTACAAGTCAAGGATCATGA 58.659 40.000 0.00 0.00 0.00 3.07
2122 2569 4.764172 AGCTACAAGTCAAGGATCATGAC 58.236 43.478 18.32 18.32 45.94 3.06
2129 2576 2.941720 GTCAAGGATCATGACTGAAGCC 59.058 50.000 18.57 0.00 43.03 4.35
2130 2577 1.938577 CAAGGATCATGACTGAAGCCG 59.061 52.381 0.00 0.00 35.91 5.52
2131 2578 0.179062 AGGATCATGACTGAAGCCGC 60.179 55.000 0.00 0.00 35.91 6.53
2132 2579 1.493950 GGATCATGACTGAAGCCGCG 61.494 60.000 0.00 0.00 34.37 6.46
2133 2580 2.098842 GATCATGACTGAAGCCGCGC 62.099 60.000 0.00 0.00 34.37 6.86
2134 2581 2.584261 ATCATGACTGAAGCCGCGCT 62.584 55.000 5.56 0.00 42.56 5.92
2135 2582 1.519234 CATGACTGAAGCCGCGCTA 60.519 57.895 5.56 0.00 38.25 4.26
2136 2583 1.083806 CATGACTGAAGCCGCGCTAA 61.084 55.000 5.56 0.00 38.25 3.09
2137 2584 0.179073 ATGACTGAAGCCGCGCTAAT 60.179 50.000 5.56 0.00 38.25 1.73
2138 2585 0.806102 TGACTGAAGCCGCGCTAATC 60.806 55.000 5.56 0.00 38.25 1.75
2139 2586 0.806102 GACTGAAGCCGCGCTAATCA 60.806 55.000 5.56 3.83 38.25 2.57
2140 2587 0.179073 ACTGAAGCCGCGCTAATCAT 60.179 50.000 5.56 0.00 38.25 2.45
2141 2588 0.234106 CTGAAGCCGCGCTAATCATG 59.766 55.000 5.56 0.00 38.25 3.07
2142 2589 1.082496 GAAGCCGCGCTAATCATGC 60.082 57.895 5.56 0.00 38.25 4.06
2143 2590 1.775039 GAAGCCGCGCTAATCATGCA 61.775 55.000 5.56 0.00 38.25 3.96
2144 2591 1.375853 AAGCCGCGCTAATCATGCAA 61.376 50.000 5.56 0.00 38.25 4.08
2145 2592 1.063972 GCCGCGCTAATCATGCAAA 59.936 52.632 5.56 0.00 0.00 3.68
2146 2593 0.525242 GCCGCGCTAATCATGCAAAA 60.525 50.000 5.56 0.00 0.00 2.44
2147 2594 1.906757 CCGCGCTAATCATGCAAAAA 58.093 45.000 5.56 0.00 0.00 1.94
2148 2595 1.847999 CCGCGCTAATCATGCAAAAAG 59.152 47.619 5.56 0.00 0.00 2.27
2149 2596 1.253545 CGCGCTAATCATGCAAAAAGC 59.746 47.619 5.56 0.00 45.96 3.51
2161 2608 2.837498 GCAAAAAGCAATGGTTCAGGT 58.163 42.857 0.00 0.00 44.79 4.00
2162 2609 2.545106 GCAAAAAGCAATGGTTCAGGTG 59.455 45.455 0.00 0.00 44.79 4.00
2163 2610 2.531522 AAAAGCAATGGTTCAGGTGC 57.468 45.000 0.00 0.00 37.26 5.01
2164 2611 1.412079 AAAGCAATGGTTCAGGTGCA 58.588 45.000 0.00 0.00 39.50 4.57
2165 2612 0.675633 AAGCAATGGTTCAGGTGCAC 59.324 50.000 8.80 8.80 39.50 4.57
2166 2613 0.467844 AGCAATGGTTCAGGTGCACA 60.468 50.000 20.43 0.00 39.50 4.57
2167 2614 0.038892 GCAATGGTTCAGGTGCACAG 60.039 55.000 20.43 10.79 36.97 3.66
2168 2615 1.608055 CAATGGTTCAGGTGCACAGA 58.392 50.000 20.43 13.17 0.00 3.41
2169 2616 1.267806 CAATGGTTCAGGTGCACAGAC 59.732 52.381 20.43 10.53 0.00 3.51
2170 2617 0.250901 ATGGTTCAGGTGCACAGACC 60.251 55.000 20.43 18.87 36.09 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 2.360165 CTGGAATCTAAGGCAATGCACC 59.640 50.000 7.79 0.00 0.00 5.01
51 54 4.009675 TCTCGGGATGGACAAATTTTCTG 58.990 43.478 0.00 0.00 0.00 3.02
93 96 5.527582 ACCAACCTTATATTCTGTTCGCATC 59.472 40.000 0.00 0.00 0.00 3.91
223 227 4.616181 AAAGCCGTACAATAATGCACTC 57.384 40.909 0.00 0.00 0.00 3.51
274 283 2.049248 ATTGCAAGCGCCCAAACG 60.049 55.556 2.29 0.00 37.32 3.60
283 292 1.324740 TGGCCATGGAGATTGCAAGC 61.325 55.000 18.40 6.58 0.00 4.01
388 406 7.437267 GCGAGTGGATATAGTTTAAGCACTAAA 59.563 37.037 0.00 0.00 32.90 1.85
445 463 5.048013 CACTCCAGCTGGAATGATATACGTA 60.048 44.000 35.29 9.95 43.66 3.57
446 464 3.898123 ACTCCAGCTGGAATGATATACGT 59.102 43.478 34.30 22.26 44.91 3.57
447 465 4.240888 CACTCCAGCTGGAATGATATACG 58.759 47.826 35.29 22.16 43.66 3.06
448 466 5.220710 ACACTCCAGCTGGAATGATATAC 57.779 43.478 42.23 0.00 43.66 1.47
487 505 5.566230 GCTGCAGGATTCTGTCTGAAAAATT 60.566 40.000 17.12 0.00 42.78 1.82
711 768 2.370281 ACCTTGCGATGTCACTGTAG 57.630 50.000 0.00 0.00 0.00 2.74
724 781 1.016653 GGCTCGAGTCTGAACCTTGC 61.017 60.000 15.13 0.00 0.00 4.01
792 868 4.357279 AGCTGCCCTGCCCTTCAC 62.357 66.667 0.00 0.00 0.00 3.18
793 869 4.355720 CAGCTGCCCTGCCCTTCA 62.356 66.667 0.00 0.00 34.21 3.02
800 876 3.064987 GATGCAAGCAGCTGCCCTG 62.065 63.158 34.39 29.85 45.94 4.45
801 877 2.754658 GATGCAAGCAGCTGCCCT 60.755 61.111 34.39 19.88 45.94 5.19
802 878 3.834799 GGATGCAAGCAGCTGCCC 61.835 66.667 34.39 22.92 45.94 5.36
803 879 3.834799 GGGATGCAAGCAGCTGCC 61.835 66.667 34.39 20.05 45.94 4.85
804 880 2.558554 CTTGGGATGCAAGCAGCTGC 62.559 60.000 31.53 31.53 45.94 5.25
805 881 1.511305 CTTGGGATGCAAGCAGCTG 59.489 57.895 10.11 10.11 45.94 4.24
806 882 1.681327 CCTTGGGATGCAAGCAGCT 60.681 57.895 10.32 0.00 45.94 4.24
807 883 1.252904 TTCCTTGGGATGCAAGCAGC 61.253 55.000 0.94 0.94 45.96 5.25
808 884 0.529378 GTTCCTTGGGATGCAAGCAG 59.471 55.000 0.00 0.00 0.00 4.24
851 931 1.092921 TGCCGTTTTATAGCCAGGCG 61.093 55.000 5.55 0.00 46.85 5.52
854 934 2.866762 GTCTCTGCCGTTTTATAGCCAG 59.133 50.000 0.00 0.00 0.00 4.85
870 950 0.885196 GGAGTGAACGCAGAGTCTCT 59.115 55.000 0.00 0.00 0.00 3.10
871 951 0.109039 GGGAGTGAACGCAGAGTCTC 60.109 60.000 0.00 0.00 0.00 3.36
872 952 1.536943 GGGGAGTGAACGCAGAGTCT 61.537 60.000 0.00 0.00 0.00 3.24
874 954 1.534235 AGGGGAGTGAACGCAGAGT 60.534 57.895 0.00 0.00 0.00 3.24
875 955 1.216710 GAGGGGAGTGAACGCAGAG 59.783 63.158 0.00 0.00 0.00 3.35
876 956 1.533033 TGAGGGGAGTGAACGCAGA 60.533 57.895 0.00 0.00 0.00 4.26
877 957 1.374758 GTGAGGGGAGTGAACGCAG 60.375 63.158 0.00 0.00 0.00 5.18
878 958 1.480212 ATGTGAGGGGAGTGAACGCA 61.480 55.000 0.00 0.00 0.00 5.24
882 962 1.191489 TGCGATGTGAGGGGAGTGAA 61.191 55.000 0.00 0.00 0.00 3.18
948 1028 1.267121 CCAGGAAGAAGAAGGGTCGA 58.733 55.000 0.00 0.00 0.00 4.20
949 1029 0.391793 GCCAGGAAGAAGAAGGGTCG 60.392 60.000 0.00 0.00 0.00 4.79
950 1030 0.988063 AGCCAGGAAGAAGAAGGGTC 59.012 55.000 0.00 0.00 0.00 4.46
951 1031 1.450360 AAGCCAGGAAGAAGAAGGGT 58.550 50.000 0.00 0.00 0.00 4.34
952 1032 2.441410 GAAAGCCAGGAAGAAGAAGGG 58.559 52.381 0.00 0.00 0.00 3.95
953 1033 2.079925 CGAAAGCCAGGAAGAAGAAGG 58.920 52.381 0.00 0.00 0.00 3.46
954 1034 2.079925 CCGAAAGCCAGGAAGAAGAAG 58.920 52.381 0.00 0.00 0.00 2.85
955 1035 1.697432 TCCGAAAGCCAGGAAGAAGAA 59.303 47.619 0.00 0.00 32.86 2.52
956 1036 1.276421 CTCCGAAAGCCAGGAAGAAGA 59.724 52.381 0.00 0.00 35.90 2.87
1056 1151 0.877649 AGAGGCACGCGAATATGCTG 60.878 55.000 15.93 0.00 41.74 4.41
1098 1193 3.689002 CTTGCCCTCCTTCCGCTCC 62.689 68.421 0.00 0.00 0.00 4.70
1125 1235 2.435938 CCGCTGCCGCCTTCTTTA 60.436 61.111 0.00 0.00 0.00 1.85
1217 1346 9.682465 TTGATTCTTTTCTTCAGAGATCATCAT 57.318 29.630 0.00 0.00 0.00 2.45
1263 1426 1.506262 CCCCATTTCGCGTTCCAAG 59.494 57.895 5.77 0.00 0.00 3.61
1274 1437 1.685421 CAATCGCCCACCCCCATTT 60.685 57.895 0.00 0.00 0.00 2.32
1275 1438 2.043046 CAATCGCCCACCCCCATT 60.043 61.111 0.00 0.00 0.00 3.16
1295 1458 3.366739 CTTACCAGCGACCCCGACC 62.367 68.421 0.00 0.00 38.22 4.79
1297 1460 2.497792 TACCTTACCAGCGACCCCGA 62.498 60.000 0.00 0.00 38.22 5.14
1298 1461 2.012902 CTACCTTACCAGCGACCCCG 62.013 65.000 0.00 0.00 39.16 5.73
1302 1466 1.683418 CCCCCTACCTTACCAGCGAC 61.683 65.000 0.00 0.00 0.00 5.19
1312 1476 1.229853 CCTCCAACACCCCCTACCT 60.230 63.158 0.00 0.00 0.00 3.08
1375 1540 1.080569 CGCCAAAAGCTGCGGAATT 60.081 52.632 8.19 0.00 46.65 2.17
1393 1561 1.641577 GCTACGGACTCCACATGTTC 58.358 55.000 0.00 0.00 0.00 3.18
1435 1604 3.521531 ACCACACATACATACATCCACCA 59.478 43.478 0.00 0.00 0.00 4.17
1455 1629 8.514594 TGGCAATTACGTACAGTAGTATATACC 58.485 37.037 9.32 0.00 36.56 2.73
1462 1639 6.870769 ACTAATGGCAATTACGTACAGTAGT 58.129 36.000 14.00 14.00 37.90 2.73
1484 1661 8.641498 AGAAATTCATGATAAGTTCACCAACT 57.359 30.769 9.53 0.00 45.43 3.16
1485 1662 9.994432 CTAGAAATTCATGATAAGTTCACCAAC 57.006 33.333 9.53 0.00 36.24 3.77
1486 1663 8.677300 GCTAGAAATTCATGATAAGTTCACCAA 58.323 33.333 9.53 0.00 36.24 3.67
1489 1666 8.443953 AGGCTAGAAATTCATGATAAGTTCAC 57.556 34.615 9.53 0.65 36.24 3.18
1510 1687 2.638480 TGCACAACACTAGAAAGGCT 57.362 45.000 0.00 0.00 0.00 4.58
1519 1696 0.740149 CACACACCATGCACAACACT 59.260 50.000 0.00 0.00 0.00 3.55
1527 1704 3.434319 CCGGAGCACACACCATGC 61.434 66.667 0.00 0.00 43.74 4.06
1528 1705 2.032528 ACCGGAGCACACACCATG 59.967 61.111 9.46 0.00 0.00 3.66
1538 1719 1.739562 CAAGTGCAGAGACCGGAGC 60.740 63.158 9.46 4.43 0.00 4.70
1546 1727 5.617308 GCAGAGAAGAAATTCAAGTGCAGAG 60.617 44.000 0.00 0.00 0.00 3.35
1579 1760 2.668457 CAGTCAGTCAATGTACTTCGCC 59.332 50.000 0.00 0.00 0.00 5.54
1583 1764 5.237344 GCTTGTTCAGTCAGTCAATGTACTT 59.763 40.000 0.00 0.00 0.00 2.24
1592 1773 0.787183 GCGAGCTTGTTCAGTCAGTC 59.213 55.000 2.14 0.00 0.00 3.51
1594 1775 1.066914 GAGCGAGCTTGTTCAGTCAG 58.933 55.000 12.62 0.00 0.00 3.51
1595 1776 0.676184 AGAGCGAGCTTGTTCAGTCA 59.324 50.000 18.89 0.00 0.00 3.41
1596 1777 1.345410 GAGAGCGAGCTTGTTCAGTC 58.655 55.000 18.89 6.02 0.00 3.51
1597 1778 0.037790 GGAGAGCGAGCTTGTTCAGT 60.038 55.000 18.89 0.03 0.00 3.41
1598 1779 1.075425 CGGAGAGCGAGCTTGTTCAG 61.075 60.000 18.89 7.00 0.00 3.02
1616 1797 2.048312 TACTCTGCGACGGAGATGCG 62.048 60.000 19.78 10.75 39.05 4.73
1641 1822 0.392193 CCTGAGCGCTCCTGTTCAAT 60.392 55.000 33.23 0.00 0.00 2.57
1642 1823 1.004560 CCTGAGCGCTCCTGTTCAA 60.005 57.895 33.23 12.91 0.00 2.69
1643 1824 2.659016 CCTGAGCGCTCCTGTTCA 59.341 61.111 33.23 14.54 0.00 3.18
1644 1825 2.817396 GCCTGAGCGCTCCTGTTC 60.817 66.667 33.23 14.59 0.00 3.18
1645 1826 3.317571 AGCCTGAGCGCTCCTGTT 61.318 61.111 33.23 19.39 46.67 3.16
1646 1827 4.079850 CAGCCTGAGCGCTCCTGT 62.080 66.667 33.23 13.50 46.67 4.00
1650 1831 3.797546 GTTGCAGCCTGAGCGCTC 61.798 66.667 30.42 30.42 46.67 5.03
1651 1832 3.914579 ATGTTGCAGCCTGAGCGCT 62.915 57.895 11.27 11.27 46.67 5.92
1652 1833 3.392595 GATGTTGCAGCCTGAGCGC 62.393 63.158 0.00 0.00 46.67 5.92
1653 1834 2.758089 GGATGTTGCAGCCTGAGCG 61.758 63.158 0.00 0.00 46.67 5.03
1654 1835 2.758089 CGGATGTTGCAGCCTGAGC 61.758 63.158 0.00 0.00 37.84 4.26
1655 1836 1.364626 GACGGATGTTGCAGCCTGAG 61.365 60.000 0.00 0.00 37.84 3.35
1656 1837 1.375908 GACGGATGTTGCAGCCTGA 60.376 57.895 0.00 0.00 37.84 3.86
1666 1995 2.348888 GGTCTGGGACGACGGATGT 61.349 63.158 0.00 0.00 33.92 3.06
1696 2025 6.014840 AGGAGTAGTTATTCTTCGGTTGAACA 60.015 38.462 0.00 0.00 0.00 3.18
1707 2036 3.056107 TGCAACGCAGGAGTAGTTATTCT 60.056 43.478 0.00 0.00 33.32 2.40
1711 2040 3.000041 CAATGCAACGCAGGAGTAGTTA 59.000 45.455 0.00 0.00 43.65 2.24
1724 2053 1.393539 ACGCAGTCGATACAATGCAAC 59.606 47.619 0.00 0.00 29.74 4.17
1730 2059 2.182014 CATCGAACGCAGTCGATACAA 58.818 47.619 18.11 0.00 45.00 2.41
1731 2060 1.822581 CATCGAACGCAGTCGATACA 58.177 50.000 18.11 0.00 45.00 2.29
1733 2062 0.380733 AGCATCGAACGCAGTCGATA 59.619 50.000 18.11 0.00 45.00 2.92
1748 2077 3.687321 AATCAGCGCCGGTCAGCAT 62.687 57.895 18.09 4.20 35.48 3.79
1749 2078 4.393155 AATCAGCGCCGGTCAGCA 62.393 61.111 18.09 2.21 35.48 4.41
1751 2080 3.197790 CCAATCAGCGCCGGTCAG 61.198 66.667 2.29 0.00 0.00 3.51
1838 2220 0.460109 CACCTCGATGTTCATCCGCA 60.460 55.000 7.14 0.00 0.00 5.69
1842 2224 1.482593 ACCTCCACCTCGATGTTCATC 59.517 52.381 3.01 3.01 0.00 2.92
1843 2225 1.208052 CACCTCCACCTCGATGTTCAT 59.792 52.381 0.00 0.00 0.00 2.57
1845 2227 0.741221 GCACCTCCACCTCGATGTTC 60.741 60.000 0.00 0.00 0.00 3.18
1911 2293 2.688526 GATGTTGATGGCGGCATGGC 62.689 60.000 30.87 16.36 45.12 4.40
1940 2342 5.472137 TGCTTTCTAGGTTTTCGTTAGCAAT 59.528 36.000 0.00 0.00 33.63 3.56
1982 2423 4.101448 GCCGGGATCAGCCACTGT 62.101 66.667 2.18 0.00 38.95 3.55
1990 2432 0.179234 TGCTTTATTCGCCGGGATCA 59.821 50.000 2.18 0.00 0.00 2.92
2017 2459 3.702478 GCCACCAAAGAGCGAAATC 57.298 52.632 0.00 0.00 0.00 2.17
2056 2503 3.694535 ACTACTAAACTCGCCGAGATG 57.305 47.619 22.80 9.64 33.32 2.90
2059 2506 4.318689 GCTACTACTACTAAACTCGCCGAG 60.319 50.000 13.52 13.52 35.52 4.63
2069 2516 8.344446 TGATCAACTTGTGCTACTACTACTAA 57.656 34.615 0.00 0.00 0.00 2.24
2070 2517 7.933215 TGATCAACTTGTGCTACTACTACTA 57.067 36.000 0.00 0.00 0.00 1.82
2071 2518 6.835819 TGATCAACTTGTGCTACTACTACT 57.164 37.500 0.00 0.00 0.00 2.57
2072 2519 6.415280 CGATGATCAACTTGTGCTACTACTAC 59.585 42.308 0.00 0.00 0.00 2.73
2073 2520 6.095021 ACGATGATCAACTTGTGCTACTACTA 59.905 38.462 0.00 0.00 0.00 1.82
2074 2521 5.105716 ACGATGATCAACTTGTGCTACTACT 60.106 40.000 0.00 0.00 0.00 2.57
2075 2522 5.103000 ACGATGATCAACTTGTGCTACTAC 58.897 41.667 0.00 0.00 0.00 2.73
2076 2523 5.324784 ACGATGATCAACTTGTGCTACTA 57.675 39.130 0.00 0.00 0.00 1.82
2077 2524 4.193826 ACGATGATCAACTTGTGCTACT 57.806 40.909 0.00 0.00 0.00 2.57
2078 2525 4.928661 AACGATGATCAACTTGTGCTAC 57.071 40.909 0.00 0.00 0.00 3.58
2079 2526 4.566759 GCTAACGATGATCAACTTGTGCTA 59.433 41.667 0.00 0.00 0.00 3.49
2080 2527 3.372206 GCTAACGATGATCAACTTGTGCT 59.628 43.478 0.00 0.00 0.00 4.40
2081 2528 3.372206 AGCTAACGATGATCAACTTGTGC 59.628 43.478 0.00 1.19 0.00 4.57
2082 2529 5.576774 TGTAGCTAACGATGATCAACTTGTG 59.423 40.000 0.00 0.00 0.00 3.33
2083 2530 5.720202 TGTAGCTAACGATGATCAACTTGT 58.280 37.500 0.00 0.00 0.00 3.16
2084 2531 6.311445 ACTTGTAGCTAACGATGATCAACTTG 59.689 38.462 0.00 0.00 0.00 3.16
2085 2532 6.398918 ACTTGTAGCTAACGATGATCAACTT 58.601 36.000 0.00 0.00 0.00 2.66
2086 2533 5.967088 ACTTGTAGCTAACGATGATCAACT 58.033 37.500 0.00 0.00 0.00 3.16
2087 2534 5.805486 TGACTTGTAGCTAACGATGATCAAC 59.195 40.000 0.00 0.00 0.00 3.18
2088 2535 5.961272 TGACTTGTAGCTAACGATGATCAA 58.039 37.500 0.00 0.00 0.00 2.57
2089 2536 5.576447 TGACTTGTAGCTAACGATGATCA 57.424 39.130 0.00 0.00 0.00 2.92
2090 2537 5.460419 CCTTGACTTGTAGCTAACGATGATC 59.540 44.000 0.00 0.00 0.00 2.92
2091 2538 5.127194 TCCTTGACTTGTAGCTAACGATGAT 59.873 40.000 0.00 0.00 0.00 2.45
2092 2539 4.461431 TCCTTGACTTGTAGCTAACGATGA 59.539 41.667 0.00 0.00 0.00 2.92
2093 2540 4.744570 TCCTTGACTTGTAGCTAACGATG 58.255 43.478 0.00 0.00 0.00 3.84
2094 2541 5.127194 TGATCCTTGACTTGTAGCTAACGAT 59.873 40.000 0.00 0.00 0.00 3.73
2095 2542 4.461431 TGATCCTTGACTTGTAGCTAACGA 59.539 41.667 0.00 0.00 0.00 3.85
2096 2543 4.744570 TGATCCTTGACTTGTAGCTAACG 58.255 43.478 0.00 0.00 0.00 3.18
2097 2544 6.256757 GTCATGATCCTTGACTTGTAGCTAAC 59.743 42.308 15.21 0.00 40.26 2.34
2098 2545 6.341316 GTCATGATCCTTGACTTGTAGCTAA 58.659 40.000 15.21 0.00 40.26 3.09
2099 2546 5.907207 GTCATGATCCTTGACTTGTAGCTA 58.093 41.667 15.21 0.00 40.26 3.32
2100 2547 4.764172 GTCATGATCCTTGACTTGTAGCT 58.236 43.478 15.21 0.00 40.26 3.32
2108 2555 2.941720 GGCTTCAGTCATGATCCTTGAC 59.058 50.000 14.85 14.85 43.05 3.18
2109 2556 2.419159 CGGCTTCAGTCATGATCCTTGA 60.419 50.000 0.00 0.00 34.73 3.02
2110 2557 1.938577 CGGCTTCAGTCATGATCCTTG 59.061 52.381 0.00 0.00 34.73 3.61
2111 2558 1.745141 GCGGCTTCAGTCATGATCCTT 60.745 52.381 0.00 0.00 34.73 3.36
2112 2559 0.179062 GCGGCTTCAGTCATGATCCT 60.179 55.000 0.00 0.00 34.73 3.24
2113 2560 1.493950 CGCGGCTTCAGTCATGATCC 61.494 60.000 0.00 0.00 34.73 3.36
2114 2561 1.930100 CGCGGCTTCAGTCATGATC 59.070 57.895 0.00 0.00 34.73 2.92
2115 2562 2.176273 GCGCGGCTTCAGTCATGAT 61.176 57.895 8.83 0.00 34.73 2.45
2116 2563 1.944234 TAGCGCGGCTTCAGTCATGA 61.944 55.000 8.83 0.00 40.44 3.07
2117 2564 1.083806 TTAGCGCGGCTTCAGTCATG 61.084 55.000 8.83 0.00 40.44 3.07
2118 2565 0.179073 ATTAGCGCGGCTTCAGTCAT 60.179 50.000 8.83 0.00 40.44 3.06
2119 2566 0.806102 GATTAGCGCGGCTTCAGTCA 60.806 55.000 8.83 0.00 40.44 3.41
2120 2567 0.806102 TGATTAGCGCGGCTTCAGTC 60.806 55.000 8.83 0.00 40.44 3.51
2121 2568 0.179073 ATGATTAGCGCGGCTTCAGT 60.179 50.000 8.83 0.00 40.44 3.41
2122 2569 0.234106 CATGATTAGCGCGGCTTCAG 59.766 55.000 8.83 0.00 40.44 3.02
2123 2570 1.775039 GCATGATTAGCGCGGCTTCA 61.775 55.000 8.83 7.75 40.44 3.02
2124 2571 1.082496 GCATGATTAGCGCGGCTTC 60.082 57.895 8.83 1.85 40.44 3.86
2125 2572 1.375853 TTGCATGATTAGCGCGGCTT 61.376 50.000 8.83 0.00 40.44 4.35
2126 2573 1.375853 TTTGCATGATTAGCGCGGCT 61.376 50.000 8.83 8.38 43.41 5.52
2127 2574 0.525242 TTTTGCATGATTAGCGCGGC 60.525 50.000 8.83 0.00 33.85 6.53
2128 2575 1.847999 CTTTTTGCATGATTAGCGCGG 59.152 47.619 8.83 0.00 33.85 6.46
2129 2576 1.253545 GCTTTTTGCATGATTAGCGCG 59.746 47.619 0.00 0.00 42.31 6.86
2130 2577 2.984879 GCTTTTTGCATGATTAGCGC 57.015 45.000 0.00 0.00 42.31 5.92
2141 2588 2.545106 CACCTGAACCATTGCTTTTTGC 59.455 45.455 0.00 0.00 43.25 3.68
2142 2589 2.545106 GCACCTGAACCATTGCTTTTTG 59.455 45.455 0.00 0.00 32.00 2.44
2143 2590 2.170187 TGCACCTGAACCATTGCTTTTT 59.830 40.909 0.00 0.00 35.91 1.94
2144 2591 1.761784 TGCACCTGAACCATTGCTTTT 59.238 42.857 0.00 0.00 35.91 2.27
2145 2592 1.069049 GTGCACCTGAACCATTGCTTT 59.931 47.619 5.22 0.00 35.91 3.51
2146 2593 0.675633 GTGCACCTGAACCATTGCTT 59.324 50.000 5.22 0.00 35.91 3.91
2147 2594 0.467844 TGTGCACCTGAACCATTGCT 60.468 50.000 15.69 0.00 35.91 3.91
2148 2595 0.038892 CTGTGCACCTGAACCATTGC 60.039 55.000 15.69 0.00 35.45 3.56
2149 2596 1.267806 GTCTGTGCACCTGAACCATTG 59.732 52.381 15.69 0.00 0.00 2.82
2150 2597 1.609208 GTCTGTGCACCTGAACCATT 58.391 50.000 15.69 0.00 0.00 3.16
2151 2598 0.250901 GGTCTGTGCACCTGAACCAT 60.251 55.000 15.69 0.00 33.08 3.55
2152 2599 1.148273 GGTCTGTGCACCTGAACCA 59.852 57.895 15.69 0.00 33.08 3.67
2153 2600 4.065110 GGTCTGTGCACCTGAACC 57.935 61.111 15.69 12.34 33.08 3.62


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

AutoCloner maintained by Alex Coulton.