Multiple sequence alignment - TraesCS6D01G043100

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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 TraesCS6D01G043100 chr6D 100.000 2225 0 0 1 2225 17867572 17865348 0.000000e+00 4109
1 TraesCS6D01G043100 chr6D 98.467 261 4 0 1963 2223 97195977 97195717 5.600000e-126 460
2 TraesCS6D01G043100 chr4A 94.498 1145 61 2 821 1964 147977518 147978661 0.000000e+00 1764
3 TraesCS6D01G043100 chr4A 93.164 1141 76 2 821 1960 147990800 147991939 0.000000e+00 1674
4 TraesCS6D01G043100 chr3A 93.908 1149 62 5 821 1968 404460109 404458968 0.000000e+00 1727
5 TraesCS6D01G043100 chr3A 91.703 1145 60 20 821 1964 404468487 404467377 0.000000e+00 1555
6 TraesCS6D01G043100 chr3A 93.684 665 37 5 1303 1964 537116715 537116053 0.000000e+00 990
7 TraesCS6D01G043100 chr7A 93.407 1092 65 4 872 1962 66124548 66123463 0.000000e+00 1611
8 TraesCS6D01G043100 chr7A 98.467 261 4 0 1963 2223 232865890 232866150 5.600000e-126 460
9 TraesCS6D01G043100 chr2D 99.512 820 4 0 1 820 606504920 606504101 0.000000e+00 1493
10 TraesCS6D01G043100 chr2D 92.935 821 14 10 1 820 181285931 181285154 0.000000e+00 1155
11 TraesCS6D01G043100 chr2D 90.616 341 24 3 853 1192 198616134 198615801 1.570000e-121 446
12 TraesCS6D01G043100 chr2D 89.736 341 27 3 853 1192 198601208 198600875 1.580000e-116 429
13 TraesCS6D01G043100 chr3D 98.659 820 10 1 1 820 171326631 171327449 0.000000e+00 1452
14 TraesCS6D01G043100 chr3D 97.613 838 3 5 1 821 609965543 609964706 0.000000e+00 1421
15 TraesCS6D01G043100 chr3D 92.698 315 17 1 853 1167 123152860 123152552 1.210000e-122 449
16 TraesCS6D01G043100 chr3D 90.323 341 25 6 853 1192 123146918 123146585 7.290000e-120 440
17 TraesCS6D01G043100 chr3D 90.476 294 26 2 1155 1446 77989402 77989695 9.640000e-104 387
18 TraesCS6D01G043100 chr3D 89.761 293 29 1 1154 1445 78078312 78078604 7.500000e-100 374
19 TraesCS6D01G043100 chr7D 97.929 821 7 2 1 821 105674841 105674031 0.000000e+00 1413
20 TraesCS6D01G043100 chr7D 96.707 820 10 4 1 820 562226308 562227110 0.000000e+00 1349
21 TraesCS6D01G043100 chr7D 94.634 820 21 15 1 820 94461179 94461975 0.000000e+00 1249
22 TraesCS6D01G043100 chrUn 94.612 761 40 1 1203 1962 257349800 257350560 0.000000e+00 1177
23 TraesCS6D01G043100 chrUn 94.612 761 40 1 1203 1962 332695996 332695236 0.000000e+00 1177
24 TraesCS6D01G043100 chr5A 92.561 820 33 18 1 820 439395589 439396380 0.000000e+00 1151
25 TraesCS6D01G043100 chr5A 94.118 663 36 3 1303 1962 119179933 119179271 0.000000e+00 1005
26 TraesCS6D01G043100 chr5A 93.534 665 39 4 1303 1964 119193788 119193125 0.000000e+00 987
27 TraesCS6D01G043100 chr1D 94.652 748 16 15 73 820 261725838 261725115 0.000000e+00 1138
28 TraesCS6D01G043100 chr1D 98.193 498 7 1 1 498 11303051 11302556 0.000000e+00 869
29 TraesCS6D01G043100 chr1D 97.251 291 7 1 530 820 11302568 11302279 1.990000e-135 492
30 TraesCS6D01G043100 chr1D 98.467 261 4 0 1963 2223 262835179 262834919 5.600000e-126 460
31 TraesCS6D01G043100 chr1D 98.084 261 5 0 1963 2223 105102536 105102796 2.600000e-124 455
32 TraesCS6D01G043100 chr1D 98.084 261 5 0 1963 2223 128615899 128616159 2.600000e-124 455
33 TraesCS6D01G043100 chr4D 89.423 832 66 16 1 819 288356212 288357034 0.000000e+00 1029
34 TraesCS6D01G043100 chr4D 98.092 262 4 1 1963 2223 17243193 17243454 2.600000e-124 455
35 TraesCS6D01G043100 chr4D 98.084 261 5 0 1963 2223 493421585 493421325 2.600000e-124 455
36 TraesCS6D01G043100 chr1B 90.087 807 50 15 26 821 31153707 31152920 0.000000e+00 1020
37 TraesCS6D01G043100 chr5D 94.961 635 14 8 186 820 502614606 502613990 0.000000e+00 979
38 TraesCS6D01G043100 chr7B 86.022 744 77 19 90 820 394077459 394078188 0.000000e+00 773
39 TraesCS6D01G043100 chr3B 86.254 662 59 17 4 646 564784309 564783661 0.000000e+00 689
40 TraesCS6D01G043100 chr1A 98.084 261 5 0 1963 2223 295930826 295930566 2.600000e-124 455
41 TraesCS6D01G043100 chr4B 88.764 356 34 5 1873 2223 159512406 159512760 4.390000e-117 431


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 TraesCS6D01G043100 chr6D 17865348 17867572 2224 True 4109.0 4109 100.000 1 2225 1 chr6D.!!$R1 2224
1 TraesCS6D01G043100 chr4A 147977518 147978661 1143 False 1764.0 1764 94.498 821 1964 1 chr4A.!!$F1 1143
2 TraesCS6D01G043100 chr4A 147990800 147991939 1139 False 1674.0 1674 93.164 821 1960 1 chr4A.!!$F2 1139
3 TraesCS6D01G043100 chr3A 404458968 404460109 1141 True 1727.0 1727 93.908 821 1968 1 chr3A.!!$R1 1147
4 TraesCS6D01G043100 chr3A 404467377 404468487 1110 True 1555.0 1555 91.703 821 1964 1 chr3A.!!$R2 1143
5 TraesCS6D01G043100 chr3A 537116053 537116715 662 True 990.0 990 93.684 1303 1964 1 chr3A.!!$R3 661
6 TraesCS6D01G043100 chr7A 66123463 66124548 1085 True 1611.0 1611 93.407 872 1962 1 chr7A.!!$R1 1090
7 TraesCS6D01G043100 chr2D 606504101 606504920 819 True 1493.0 1493 99.512 1 820 1 chr2D.!!$R4 819
8 TraesCS6D01G043100 chr2D 181285154 181285931 777 True 1155.0 1155 92.935 1 820 1 chr2D.!!$R1 819
9 TraesCS6D01G043100 chr3D 171326631 171327449 818 False 1452.0 1452 98.659 1 820 1 chr3D.!!$F3 819
10 TraesCS6D01G043100 chr3D 609964706 609965543 837 True 1421.0 1421 97.613 1 821 1 chr3D.!!$R3 820
11 TraesCS6D01G043100 chr7D 105674031 105674841 810 True 1413.0 1413 97.929 1 821 1 chr7D.!!$R1 820
12 TraesCS6D01G043100 chr7D 562226308 562227110 802 False 1349.0 1349 96.707 1 820 1 chr7D.!!$F2 819
13 TraesCS6D01G043100 chr7D 94461179 94461975 796 False 1249.0 1249 94.634 1 820 1 chr7D.!!$F1 819
14 TraesCS6D01G043100 chrUn 257349800 257350560 760 False 1177.0 1177 94.612 1203 1962 1 chrUn.!!$F1 759
15 TraesCS6D01G043100 chrUn 332695236 332695996 760 True 1177.0 1177 94.612 1203 1962 1 chrUn.!!$R1 759
16 TraesCS6D01G043100 chr5A 439395589 439396380 791 False 1151.0 1151 92.561 1 820 1 chr5A.!!$F1 819
17 TraesCS6D01G043100 chr5A 119179271 119179933 662 True 1005.0 1005 94.118 1303 1962 1 chr5A.!!$R1 659
18 TraesCS6D01G043100 chr5A 119193125 119193788 663 True 987.0 987 93.534 1303 1964 1 chr5A.!!$R2 661
19 TraesCS6D01G043100 chr1D 261725115 261725838 723 True 1138.0 1138 94.652 73 820 1 chr1D.!!$R1 747
20 TraesCS6D01G043100 chr1D 11302279 11303051 772 True 680.5 869 97.722 1 820 2 chr1D.!!$R3 819
21 TraesCS6D01G043100 chr4D 288356212 288357034 822 False 1029.0 1029 89.423 1 819 1 chr4D.!!$F2 818
22 TraesCS6D01G043100 chr1B 31152920 31153707 787 True 1020.0 1020 90.087 26 821 1 chr1B.!!$R1 795
23 TraesCS6D01G043100 chr5D 502613990 502614606 616 True 979.0 979 94.961 186 820 1 chr5D.!!$R1 634
24 TraesCS6D01G043100 chr7B 394077459 394078188 729 False 773.0 773 86.022 90 820 1 chr7B.!!$F1 730
25 TraesCS6D01G043100 chr3B 564783661 564784309 648 True 689.0 689 86.254 4 646 1 chr3B.!!$R1 642

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
621 792 0.095245 CGTCTAACGCCGTCTAACGA 59.905 55.0 11.26 0.0 38.24 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2062 2241 0.399075 TTTCCGAGGTTTGGAGTCCC 59.601 55.0 6.74 0.0 36.72 4.46 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
404 417 1.757118 GAGCTCATGTACTGCCTGGTA 59.243 52.381 9.40 0.00 0.00 3.25
621 792 0.095245 CGTCTAACGCCGTCTAACGA 59.905 55.000 11.26 0.00 38.24 3.85
825 997 6.073167 TGGTTTTATGCAATTTACTCGTCGAA 60.073 34.615 0.00 0.00 0.00 3.71
898 1070 0.099436 GCAAAGTAGCATCGGCAAGG 59.901 55.000 0.00 0.00 44.61 3.61
911 1083 3.429141 CAAGGAGCAGCAGCACGG 61.429 66.667 3.17 0.00 45.49 4.94
946 1118 2.751913 CGCGTACAGGAGAGCTCGT 61.752 63.158 8.37 2.43 0.00 4.18
983 1155 0.800012 GGCTACGGCAACAAATCGAA 59.200 50.000 0.00 0.00 40.87 3.71
1028 1200 2.680352 TCACTGCGAGGGAGGTCC 60.680 66.667 0.00 0.00 0.00 4.46
1077 1249 2.202756 GTGGTGGAGATCGACGGC 60.203 66.667 0.00 0.00 0.00 5.68
1163 1335 0.811616 CTGGAGGTTGTAGGCGATGC 60.812 60.000 0.00 0.00 0.00 3.91
1165 1337 0.811616 GGAGGTTGTAGGCGATGCAG 60.812 60.000 0.00 0.00 0.00 4.41
1170 1342 2.009774 GTTGTAGGCGATGCAGATGTT 58.990 47.619 0.00 0.00 0.00 2.71
1186 1358 0.901827 TGTTGGCGATGAAGCTCCTA 59.098 50.000 0.00 0.00 37.29 2.94
1198 1370 1.698506 AGCTCCTAGTCATCTTCCCG 58.301 55.000 0.00 0.00 0.00 5.14
1200 1372 1.611491 GCTCCTAGTCATCTTCCCGAG 59.389 57.143 0.00 0.00 0.00 4.63
1206 1378 4.207281 CATCTTCCCGAGCGCCGA 62.207 66.667 17.96 0.06 41.76 5.54
1440 1614 0.477597 ATGAACAGGGGAAGGGGACA 60.478 55.000 0.00 0.00 0.00 4.02
1446 1620 4.048470 GGGAAGGGGACAGGGTGC 62.048 72.222 0.00 0.00 0.00 5.01
1449 1623 1.002011 GAAGGGGACAGGGTGCTTC 60.002 63.158 0.00 0.00 0.00 3.86
1734 1911 6.258947 GTCACTTCTTTAGTCACAAAAGAGCT 59.741 38.462 0.00 0.00 42.30 4.09
1836 2013 7.862512 TTTGCAGGTTTGAGAAATTTGAATT 57.137 28.000 0.00 0.00 0.00 2.17
1917 2094 0.529773 GTAATCGCGATGACCTGGCA 60.530 55.000 23.83 0.00 0.00 4.92
1919 2096 2.520465 AATCGCGATGACCTGGCACA 62.520 55.000 24.47 0.00 0.00 4.57
1929 2108 5.277490 CGATGACCTGGCACAATTAACATAG 60.277 44.000 0.00 0.00 38.70 2.23
1965 2144 2.983907 TTATCCGGGCGTCACAATAA 57.016 45.000 0.00 0.00 0.00 1.40
1968 2147 1.219664 CCGGGCGTCACAATAAGGA 59.780 57.895 0.00 0.00 0.00 3.36
1969 2148 0.810031 CCGGGCGTCACAATAAGGAG 60.810 60.000 0.00 0.00 0.00 3.69
1970 2149 0.174845 CGGGCGTCACAATAAGGAGA 59.825 55.000 0.00 0.00 0.00 3.71
1971 2150 1.202533 CGGGCGTCACAATAAGGAGAT 60.203 52.381 0.00 0.00 0.00 2.75
1972 2151 2.213499 GGGCGTCACAATAAGGAGATG 58.787 52.381 0.00 0.00 0.00 2.90
1973 2152 1.599542 GGCGTCACAATAAGGAGATGC 59.400 52.381 0.00 0.00 41.14 3.91
1974 2153 2.279741 GCGTCACAATAAGGAGATGCA 58.720 47.619 0.00 0.00 41.42 3.96
1975 2154 2.677836 GCGTCACAATAAGGAGATGCAA 59.322 45.455 0.00 0.00 41.42 4.08
1976 2155 3.313526 GCGTCACAATAAGGAGATGCAAT 59.686 43.478 0.00 0.00 41.42 3.56
1977 2156 4.201950 GCGTCACAATAAGGAGATGCAATT 60.202 41.667 0.00 0.00 41.42 2.32
1978 2157 5.505286 CGTCACAATAAGGAGATGCAATTC 58.495 41.667 0.00 0.00 0.00 2.17
1979 2158 5.295292 CGTCACAATAAGGAGATGCAATTCT 59.705 40.000 0.00 0.00 0.00 2.40
1980 2159 6.479990 CGTCACAATAAGGAGATGCAATTCTA 59.520 38.462 0.00 0.00 0.00 2.10
1981 2160 7.172190 CGTCACAATAAGGAGATGCAATTCTAT 59.828 37.037 0.00 0.00 0.00 1.98
1982 2161 8.288208 GTCACAATAAGGAGATGCAATTCTATG 58.712 37.037 0.00 0.00 0.00 2.23
1983 2162 8.212995 TCACAATAAGGAGATGCAATTCTATGA 58.787 33.333 0.00 0.00 0.00 2.15
1984 2163 9.011095 CACAATAAGGAGATGCAATTCTATGAT 57.989 33.333 0.00 0.00 0.00 2.45
1985 2164 9.584008 ACAATAAGGAGATGCAATTCTATGATT 57.416 29.630 0.00 0.00 0.00 2.57
1989 2168 8.985315 AAGGAGATGCAATTCTATGATTAACA 57.015 30.769 0.00 0.00 0.00 2.41
1990 2169 9.584008 AAGGAGATGCAATTCTATGATTAACAT 57.416 29.630 0.00 0.00 42.39 2.71
1991 2170 9.228949 AGGAGATGCAATTCTATGATTAACATC 57.771 33.333 0.00 0.00 40.07 3.06
1992 2171 9.006839 GGAGATGCAATTCTATGATTAACATCA 57.993 33.333 0.00 0.00 43.85 3.07
2005 2184 8.681486 ATGATTAACATCATACTTAGCAAGCA 57.319 30.769 0.00 0.00 46.66 3.91
2006 2185 8.681486 TGATTAACATCATACTTAGCAAGCAT 57.319 30.769 0.00 0.00 34.22 3.79
2007 2186 9.123902 TGATTAACATCATACTTAGCAAGCATT 57.876 29.630 0.00 0.00 34.22 3.56
2008 2187 9.956720 GATTAACATCATACTTAGCAAGCATTT 57.043 29.630 0.00 0.00 0.00 2.32
2012 2191 7.409697 ACATCATACTTAGCAAGCATTTTACG 58.590 34.615 0.00 0.00 0.00 3.18
2013 2192 7.279981 ACATCATACTTAGCAAGCATTTTACGA 59.720 33.333 0.00 0.00 0.00 3.43
2014 2193 7.603963 TCATACTTAGCAAGCATTTTACGAA 57.396 32.000 0.00 0.00 0.00 3.85
2015 2194 8.035165 TCATACTTAGCAAGCATTTTACGAAA 57.965 30.769 0.00 0.00 0.00 3.46
2016 2195 8.508062 TCATACTTAGCAAGCATTTTACGAAAA 58.492 29.630 0.00 0.00 34.41 2.29
2017 2196 8.788813 CATACTTAGCAAGCATTTTACGAAAAG 58.211 33.333 0.00 0.00 33.22 2.27
2018 2197 5.629435 ACTTAGCAAGCATTTTACGAAAAGC 59.371 36.000 0.00 0.00 39.18 3.51
2019 2198 3.976169 AGCAAGCATTTTACGAAAAGCA 58.024 36.364 0.00 0.00 40.82 3.91
2020 2199 3.735746 AGCAAGCATTTTACGAAAAGCAC 59.264 39.130 0.00 0.00 40.82 4.40
2021 2200 3.121025 GCAAGCATTTTACGAAAAGCACC 60.121 43.478 0.00 0.00 40.82 5.01
2022 2201 4.047822 CAAGCATTTTACGAAAAGCACCA 58.952 39.130 0.00 0.00 40.82 4.17
2023 2202 4.519540 AGCATTTTACGAAAAGCACCAT 57.480 36.364 0.00 0.00 40.82 3.55
2024 2203 4.236935 AGCATTTTACGAAAAGCACCATG 58.763 39.130 0.00 0.00 40.82 3.66
2025 2204 4.022416 AGCATTTTACGAAAAGCACCATGA 60.022 37.500 0.00 0.00 40.82 3.07
2026 2205 4.683781 GCATTTTACGAAAAGCACCATGAA 59.316 37.500 0.00 0.00 38.84 2.57
2027 2206 5.348451 GCATTTTACGAAAAGCACCATGAAT 59.652 36.000 0.00 0.00 38.84 2.57
2028 2207 6.529829 GCATTTTACGAAAAGCACCATGAATA 59.470 34.615 0.00 0.00 38.84 1.75
2029 2208 7.062839 GCATTTTACGAAAAGCACCATGAATAA 59.937 33.333 0.00 0.00 38.84 1.40
2030 2209 9.086336 CATTTTACGAAAAGCACCATGAATAAT 57.914 29.630 0.00 0.00 33.22 1.28
2033 2212 9.729023 TTTACGAAAAGCACCATGAATAATATG 57.271 29.630 0.00 0.00 0.00 1.78
2034 2213 7.333528 ACGAAAAGCACCATGAATAATATGT 57.666 32.000 0.00 0.00 0.00 2.29
2035 2214 7.195646 ACGAAAAGCACCATGAATAATATGTG 58.804 34.615 0.00 0.00 0.00 3.21
2036 2215 7.066887 ACGAAAAGCACCATGAATAATATGTGA 59.933 33.333 0.00 0.00 0.00 3.58
2037 2216 7.914871 CGAAAAGCACCATGAATAATATGTGAA 59.085 33.333 0.00 0.00 0.00 3.18
2038 2217 8.931385 AAAAGCACCATGAATAATATGTGAAC 57.069 30.769 0.00 0.00 0.00 3.18
2039 2218 6.639632 AGCACCATGAATAATATGTGAACC 57.360 37.500 0.00 0.00 0.00 3.62
2040 2219 6.128486 AGCACCATGAATAATATGTGAACCA 58.872 36.000 0.00 0.00 0.00 3.67
2041 2220 6.039717 AGCACCATGAATAATATGTGAACCAC 59.960 38.462 0.00 0.00 34.56 4.16
2042 2221 6.735694 GCACCATGAATAATATGTGAACCACC 60.736 42.308 0.00 0.00 32.73 4.61
2043 2222 6.320926 CACCATGAATAATATGTGAACCACCA 59.679 38.462 0.00 0.00 32.73 4.17
2044 2223 7.014518 CACCATGAATAATATGTGAACCACCAT 59.985 37.037 0.00 0.00 32.73 3.55
2045 2224 7.231317 ACCATGAATAATATGTGAACCACCATC 59.769 37.037 0.00 0.00 32.73 3.51
2046 2225 7.231115 CCATGAATAATATGTGAACCACCATCA 59.769 37.037 0.00 0.00 32.73 3.07
2047 2226 7.806409 TGAATAATATGTGAACCACCATCAG 57.194 36.000 0.00 0.00 32.73 2.90
2048 2227 7.345691 TGAATAATATGTGAACCACCATCAGT 58.654 34.615 0.00 0.00 32.73 3.41
2049 2228 7.498900 TGAATAATATGTGAACCACCATCAGTC 59.501 37.037 0.00 0.00 32.73 3.51
2050 2229 4.842531 ATATGTGAACCACCATCAGTCA 57.157 40.909 0.00 0.00 32.73 3.41
2051 2230 3.726557 ATGTGAACCACCATCAGTCAT 57.273 42.857 0.00 0.00 32.73 3.06
2052 2231 3.507162 TGTGAACCACCATCAGTCATT 57.493 42.857 0.00 0.00 32.73 2.57
2053 2232 4.632327 TGTGAACCACCATCAGTCATTA 57.368 40.909 0.00 0.00 32.73 1.90
2054 2233 4.979335 TGTGAACCACCATCAGTCATTAA 58.021 39.130 0.00 0.00 32.73 1.40
2055 2234 5.380900 TGTGAACCACCATCAGTCATTAAA 58.619 37.500 0.00 0.00 32.73 1.52
2056 2235 6.009589 TGTGAACCACCATCAGTCATTAAAT 58.990 36.000 0.00 0.00 32.73 1.40
2057 2236 7.171653 TGTGAACCACCATCAGTCATTAAATA 58.828 34.615 0.00 0.00 32.73 1.40
2058 2237 7.833682 TGTGAACCACCATCAGTCATTAAATAT 59.166 33.333 0.00 0.00 32.73 1.28
2059 2238 8.345565 GTGAACCACCATCAGTCATTAAATATC 58.654 37.037 0.00 0.00 0.00 1.63
2060 2239 8.274322 TGAACCACCATCAGTCATTAAATATCT 58.726 33.333 0.00 0.00 0.00 1.98
2061 2240 9.778741 GAACCACCATCAGTCATTAAATATCTA 57.221 33.333 0.00 0.00 0.00 1.98
2062 2241 9.784531 AACCACCATCAGTCATTAAATATCTAG 57.215 33.333 0.00 0.00 0.00 2.43
2063 2242 8.378565 ACCACCATCAGTCATTAAATATCTAGG 58.621 37.037 0.00 0.00 0.00 3.02
2064 2243 7.826252 CCACCATCAGTCATTAAATATCTAGGG 59.174 40.741 0.00 0.00 0.00 3.53
2065 2244 8.597167 CACCATCAGTCATTAAATATCTAGGGA 58.403 37.037 0.00 0.00 0.00 4.20
2066 2245 8.598041 ACCATCAGTCATTAAATATCTAGGGAC 58.402 37.037 0.00 0.00 0.00 4.46
2067 2246 8.820831 CCATCAGTCATTAAATATCTAGGGACT 58.179 37.037 0.00 0.00 46.37 3.85
2068 2247 9.868277 CATCAGTCATTAAATATCTAGGGACTC 57.132 37.037 0.00 0.00 41.75 3.36
2069 2248 8.423906 TCAGTCATTAAATATCTAGGGACTCC 57.576 38.462 0.00 0.00 41.75 3.85
2070 2249 8.010697 TCAGTCATTAAATATCTAGGGACTCCA 58.989 37.037 0.00 0.00 41.75 3.86
2071 2250 8.651389 CAGTCATTAAATATCTAGGGACTCCAA 58.349 37.037 0.00 0.00 41.75 3.53
2072 2251 9.225682 AGTCATTAAATATCTAGGGACTCCAAA 57.774 33.333 0.00 0.00 41.75 3.28
2073 2252 9.274206 GTCATTAAATATCTAGGGACTCCAAAC 57.726 37.037 0.00 0.00 41.75 2.93
2074 2253 8.437575 TCATTAAATATCTAGGGACTCCAAACC 58.562 37.037 0.00 0.00 41.75 3.27
2075 2254 8.440771 CATTAAATATCTAGGGACTCCAAACCT 58.559 37.037 0.00 0.00 41.75 3.50
2076 2255 6.502074 AAATATCTAGGGACTCCAAACCTC 57.498 41.667 0.00 0.00 41.75 3.85
2077 2256 1.848652 TCTAGGGACTCCAAACCTCG 58.151 55.000 0.00 0.00 41.75 4.63
2078 2257 0.824759 CTAGGGACTCCAAACCTCGG 59.175 60.000 0.00 0.00 41.75 4.63
2079 2258 0.410663 TAGGGACTCCAAACCTCGGA 59.589 55.000 0.00 0.00 41.75 4.55
2080 2259 0.473117 AGGGACTCCAAACCTCGGAA 60.473 55.000 0.00 0.00 34.83 4.30
2081 2260 0.399075 GGGACTCCAAACCTCGGAAA 59.601 55.000 0.00 0.00 30.33 3.13
2082 2261 1.202842 GGGACTCCAAACCTCGGAAAA 60.203 52.381 0.00 0.00 30.33 2.29
2083 2262 2.578786 GGACTCCAAACCTCGGAAAAA 58.421 47.619 0.00 0.00 30.33 1.94
2084 2263 3.154710 GGACTCCAAACCTCGGAAAAAT 58.845 45.455 0.00 0.00 30.33 1.82
2085 2264 4.329392 GGACTCCAAACCTCGGAAAAATA 58.671 43.478 0.00 0.00 30.33 1.40
2086 2265 4.763279 GGACTCCAAACCTCGGAAAAATAA 59.237 41.667 0.00 0.00 30.33 1.40
2087 2266 5.417894 GGACTCCAAACCTCGGAAAAATAAT 59.582 40.000 0.00 0.00 30.33 1.28
2088 2267 6.071560 GGACTCCAAACCTCGGAAAAATAATT 60.072 38.462 0.00 0.00 30.33 1.40
2089 2268 7.297936 ACTCCAAACCTCGGAAAAATAATTT 57.702 32.000 0.00 0.00 30.33 1.82
2090 2269 7.375834 ACTCCAAACCTCGGAAAAATAATTTC 58.624 34.615 0.00 0.00 30.33 2.17
2091 2270 7.232737 ACTCCAAACCTCGGAAAAATAATTTCT 59.767 33.333 1.47 0.00 30.33 2.52
2092 2271 7.958088 TCCAAACCTCGGAAAAATAATTTCTT 58.042 30.769 1.47 0.00 0.00 2.52
2093 2272 8.425703 TCCAAACCTCGGAAAAATAATTTCTTT 58.574 29.630 1.47 0.00 0.00 2.52
2094 2273 9.699703 CCAAACCTCGGAAAAATAATTTCTTTA 57.300 29.630 1.47 0.00 0.00 1.85
2097 2276 8.981724 ACCTCGGAAAAATAATTTCTTTAAGC 57.018 30.769 1.47 0.00 0.00 3.09
2098 2277 8.581578 ACCTCGGAAAAATAATTTCTTTAAGCA 58.418 29.630 1.47 0.00 0.00 3.91
2099 2278 9.586435 CCTCGGAAAAATAATTTCTTTAAGCAT 57.414 29.630 1.47 0.00 0.00 3.79
2113 2292 9.959721 TTTCTTTAAGCATCTTAATAGAGGTGT 57.040 29.630 0.52 0.00 34.71 4.16
2114 2293 9.959721 TTCTTTAAGCATCTTAATAGAGGTGTT 57.040 29.630 0.52 0.00 34.71 3.32
2120 2299 9.717942 AAGCATCTTAATAGAGGTGTTATGATC 57.282 33.333 0.00 0.00 34.71 2.92
2121 2300 8.874156 AGCATCTTAATAGAGGTGTTATGATCA 58.126 33.333 0.00 0.00 34.71 2.92
2122 2301 9.149225 GCATCTTAATAGAGGTGTTATGATCAG 57.851 37.037 0.09 0.00 34.71 2.90
2123 2302 9.149225 CATCTTAATAGAGGTGTTATGATCAGC 57.851 37.037 0.09 0.00 32.92 4.26
2124 2303 8.250143 TCTTAATAGAGGTGTTATGATCAGCA 57.750 34.615 0.09 0.00 36.02 4.41
2125 2304 8.144478 TCTTAATAGAGGTGTTATGATCAGCAC 58.856 37.037 15.36 15.36 36.02 4.40
2126 2305 6.491714 AATAGAGGTGTTATGATCAGCACT 57.508 37.500 20.04 11.04 37.76 4.40
2127 2306 7.603180 AATAGAGGTGTTATGATCAGCACTA 57.397 36.000 20.04 8.31 39.34 2.74
2128 2307 5.269505 AGAGGTGTTATGATCAGCACTAC 57.730 43.478 20.04 15.62 33.93 2.73
2129 2308 4.959210 AGAGGTGTTATGATCAGCACTACT 59.041 41.667 20.04 16.88 33.93 2.57
2130 2309 6.129874 AGAGGTGTTATGATCAGCACTACTA 58.870 40.000 20.04 0.00 33.93 1.82
2131 2310 6.264292 AGAGGTGTTATGATCAGCACTACTAG 59.736 42.308 20.04 0.00 33.93 2.57
2132 2311 5.894393 AGGTGTTATGATCAGCACTACTAGT 59.106 40.000 20.04 0.00 36.02 2.57
2133 2312 6.381420 AGGTGTTATGATCAGCACTACTAGTT 59.619 38.462 20.04 0.00 36.02 2.24
2134 2313 6.477033 GGTGTTATGATCAGCACTACTAGTTG 59.523 42.308 20.04 0.59 34.09 3.16
2135 2314 6.477033 GTGTTATGATCAGCACTACTAGTTGG 59.523 42.308 16.02 0.00 0.00 3.77
2136 2315 6.379988 TGTTATGATCAGCACTACTAGTTGGA 59.620 38.462 0.00 0.00 0.00 3.53
2137 2316 5.939764 ATGATCAGCACTACTAGTTGGAA 57.060 39.130 0.00 0.00 0.00 3.53
2138 2317 5.939764 TGATCAGCACTACTAGTTGGAAT 57.060 39.130 0.00 0.00 0.00 3.01
2139 2318 7.603180 ATGATCAGCACTACTAGTTGGAATA 57.397 36.000 0.00 0.00 0.00 1.75
2140 2319 7.043961 TGATCAGCACTACTAGTTGGAATAG 57.956 40.000 0.00 0.00 0.00 1.73
2141 2320 5.263968 TCAGCACTACTAGTTGGAATAGC 57.736 43.478 0.00 0.63 0.00 2.97
2142 2321 4.956700 TCAGCACTACTAGTTGGAATAGCT 59.043 41.667 0.00 2.97 0.00 3.32
2143 2322 5.422331 TCAGCACTACTAGTTGGAATAGCTT 59.578 40.000 0.00 0.00 0.00 3.74
2144 2323 5.751028 CAGCACTACTAGTTGGAATAGCTTC 59.249 44.000 0.00 0.00 0.00 3.86
2145 2324 5.659079 AGCACTACTAGTTGGAATAGCTTCT 59.341 40.000 0.00 0.00 0.00 2.85
2146 2325 6.834451 AGCACTACTAGTTGGAATAGCTTCTA 59.166 38.462 0.00 0.00 0.00 2.10
2147 2326 6.919115 GCACTACTAGTTGGAATAGCTTCTAC 59.081 42.308 0.00 0.00 0.00 2.59
2148 2327 7.427214 CACTACTAGTTGGAATAGCTTCTACC 58.573 42.308 0.00 0.00 0.00 3.18
2149 2328 5.873146 ACTAGTTGGAATAGCTTCTACCC 57.127 43.478 0.00 0.00 0.00 3.69
2150 2329 5.278061 ACTAGTTGGAATAGCTTCTACCCA 58.722 41.667 0.00 0.00 0.00 4.51
2151 2330 4.489306 AGTTGGAATAGCTTCTACCCAC 57.511 45.455 0.00 0.00 0.00 4.61
2152 2331 4.104831 AGTTGGAATAGCTTCTACCCACT 58.895 43.478 0.00 0.00 0.00 4.00
2153 2332 4.536489 AGTTGGAATAGCTTCTACCCACTT 59.464 41.667 0.00 0.00 0.00 3.16
2154 2333 5.724854 AGTTGGAATAGCTTCTACCCACTTA 59.275 40.000 0.00 0.00 0.00 2.24
2155 2334 5.871396 TGGAATAGCTTCTACCCACTTAG 57.129 43.478 0.00 0.00 0.00 2.18
2156 2335 5.278061 TGGAATAGCTTCTACCCACTTAGT 58.722 41.667 0.00 0.00 0.00 2.24
2157 2336 6.437755 TGGAATAGCTTCTACCCACTTAGTA 58.562 40.000 0.00 0.00 0.00 1.82
2158 2337 6.899075 TGGAATAGCTTCTACCCACTTAGTAA 59.101 38.462 0.00 0.00 0.00 2.24
2159 2338 7.147776 TGGAATAGCTTCTACCCACTTAGTAAC 60.148 40.741 0.00 0.00 0.00 2.50
2160 2339 6.728089 ATAGCTTCTACCCACTTAGTAACC 57.272 41.667 0.00 0.00 0.00 2.85
2161 2340 4.685807 AGCTTCTACCCACTTAGTAACCT 58.314 43.478 0.00 0.00 0.00 3.50
2162 2341 5.835582 AGCTTCTACCCACTTAGTAACCTA 58.164 41.667 0.00 0.00 0.00 3.08
2163 2342 6.259123 AGCTTCTACCCACTTAGTAACCTAA 58.741 40.000 0.00 0.00 0.00 2.69
2164 2343 6.901857 AGCTTCTACCCACTTAGTAACCTAAT 59.098 38.462 0.00 0.00 32.82 1.73
2165 2344 7.069702 AGCTTCTACCCACTTAGTAACCTAATC 59.930 40.741 0.00 0.00 32.82 1.75
2166 2345 7.147776 GCTTCTACCCACTTAGTAACCTAATCA 60.148 40.741 0.00 0.00 32.82 2.57
2167 2346 8.669055 TTCTACCCACTTAGTAACCTAATCAA 57.331 34.615 0.00 0.00 32.82 2.57
2168 2347 8.071177 TCTACCCACTTAGTAACCTAATCAAC 57.929 38.462 0.00 0.00 32.82 3.18
2169 2348 6.691255 ACCCACTTAGTAACCTAATCAACA 57.309 37.500 0.00 0.00 32.82 3.33
2170 2349 7.266905 ACCCACTTAGTAACCTAATCAACAT 57.733 36.000 0.00 0.00 32.82 2.71
2171 2350 7.336396 ACCCACTTAGTAACCTAATCAACATC 58.664 38.462 0.00 0.00 32.82 3.06
2172 2351 7.037873 ACCCACTTAGTAACCTAATCAACATCA 60.038 37.037 0.00 0.00 32.82 3.07
2173 2352 7.827236 CCCACTTAGTAACCTAATCAACATCAA 59.173 37.037 0.00 0.00 32.82 2.57
2174 2353 8.665685 CCACTTAGTAACCTAATCAACATCAAC 58.334 37.037 0.00 0.00 32.82 3.18
2175 2354 9.436957 CACTTAGTAACCTAATCAACATCAACT 57.563 33.333 0.00 0.00 32.82 3.16
2204 2383 6.688073 ATGTGTATACCCATTAGAGGAAGG 57.312 41.667 0.00 0.00 0.00 3.46
2205 2384 5.784023 TGTGTATACCCATTAGAGGAAGGA 58.216 41.667 0.00 0.00 0.00 3.36
2206 2385 6.206787 TGTGTATACCCATTAGAGGAAGGAA 58.793 40.000 0.00 0.00 0.00 3.36
2207 2386 6.674861 TGTGTATACCCATTAGAGGAAGGAAA 59.325 38.462 0.00 0.00 0.00 3.13
2208 2387 7.183112 TGTGTATACCCATTAGAGGAAGGAAAA 59.817 37.037 0.00 0.00 0.00 2.29
2209 2388 7.715686 GTGTATACCCATTAGAGGAAGGAAAAG 59.284 40.741 0.00 0.00 0.00 2.27
2210 2389 4.592997 ACCCATTAGAGGAAGGAAAAGG 57.407 45.455 0.00 0.00 0.00 3.11
2211 2390 3.923425 ACCCATTAGAGGAAGGAAAAGGT 59.077 43.478 0.00 0.00 0.00 3.50
2212 2391 4.018324 ACCCATTAGAGGAAGGAAAAGGTC 60.018 45.833 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
946 1118 2.355837 GCCGTTCTCGAGCACACA 60.356 61.111 15.47 0.00 39.71 3.72
999 1171 2.887568 CAGTGAGCCGCGTCCATC 60.888 66.667 4.92 0.00 0.00 3.51
1028 1200 2.432628 GGTTCCGAGCACGTCCAG 60.433 66.667 2.18 0.00 37.88 3.86
1163 1335 1.329906 GAGCTTCATCGCCAACATCTG 59.670 52.381 0.00 0.00 0.00 2.90
1165 1337 0.659957 GGAGCTTCATCGCCAACATC 59.340 55.000 0.00 0.00 0.00 3.06
1170 1342 0.747255 GACTAGGAGCTTCATCGCCA 59.253 55.000 0.00 0.00 0.00 5.69
1186 1358 2.496817 GCGCTCGGGAAGATGACT 59.503 61.111 0.00 0.00 0.00 3.41
1419 1593 1.380380 CCCCTTCCCCTGTTCATGC 60.380 63.158 0.00 0.00 0.00 4.06
1420 1594 0.034089 GTCCCCTTCCCCTGTTCATG 60.034 60.000 0.00 0.00 0.00 3.07
1440 1614 2.845345 CCCAACCCAGAAGCACCCT 61.845 63.158 0.00 0.00 0.00 4.34
1446 1620 2.677875 GCAGGCCCAACCCAGAAG 60.678 66.667 0.00 0.00 40.58 2.85
1449 1623 4.290622 AGTGCAGGCCCAACCCAG 62.291 66.667 0.00 0.00 40.58 4.45
1472 1646 2.085343 ATGCACACTTGGGCCTCCTT 62.085 55.000 4.53 0.00 45.73 3.36
1761 1938 5.563592 TCCATATCCAATTATGGTGCTGAG 58.436 41.667 9.64 0.00 45.93 3.35
1791 1968 7.550551 TGCAAAATAAAATGTTCAAAGTGTGGA 59.449 29.630 0.00 0.00 0.00 4.02
1929 2108 7.118825 GCCCGGATAATTAAACTACAGTAATCC 59.881 40.741 0.73 0.00 0.00 3.01
1965 2144 9.228949 GATGTTAATCATAGAATTGCATCTCCT 57.771 33.333 0.00 0.00 36.83 3.69
1981 2160 8.681486 ATGCTTGCTAAGTATGATGTTAATCA 57.319 30.769 0.00 0.00 46.71 2.57
1982 2161 9.956720 AAATGCTTGCTAAGTATGATGTTAATC 57.043 29.630 0.00 0.00 33.92 1.75
1986 2165 7.910162 CGTAAAATGCTTGCTAAGTATGATGTT 59.090 33.333 0.00 0.00 33.92 2.71
1987 2166 7.279981 TCGTAAAATGCTTGCTAAGTATGATGT 59.720 33.333 0.00 0.00 33.92 3.06
1988 2167 7.630026 TCGTAAAATGCTTGCTAAGTATGATG 58.370 34.615 0.00 0.00 33.92 3.07
1989 2168 7.786178 TCGTAAAATGCTTGCTAAGTATGAT 57.214 32.000 0.00 0.00 33.92 2.45
1990 2169 7.603963 TTCGTAAAATGCTTGCTAAGTATGA 57.396 32.000 0.00 0.00 33.92 2.15
1991 2170 8.667987 TTTTCGTAAAATGCTTGCTAAGTATG 57.332 30.769 0.00 0.00 33.92 2.39
1992 2171 7.484959 GCTTTTCGTAAAATGCTTGCTAAGTAT 59.515 33.333 0.00 0.00 40.53 2.12
1993 2172 6.799925 GCTTTTCGTAAAATGCTTGCTAAGTA 59.200 34.615 0.00 0.00 40.53 2.24
1994 2173 5.629435 GCTTTTCGTAAAATGCTTGCTAAGT 59.371 36.000 0.00 0.00 40.53 2.24
1995 2174 5.629020 TGCTTTTCGTAAAATGCTTGCTAAG 59.371 36.000 9.30 0.00 42.81 2.18
1996 2175 5.401079 GTGCTTTTCGTAAAATGCTTGCTAA 59.599 36.000 9.30 0.00 42.81 3.09
1997 2176 4.915085 GTGCTTTTCGTAAAATGCTTGCTA 59.085 37.500 9.30 0.00 42.81 3.49
1998 2177 3.735746 GTGCTTTTCGTAAAATGCTTGCT 59.264 39.130 9.30 0.00 42.81 3.91
1999 2178 3.121025 GGTGCTTTTCGTAAAATGCTTGC 60.121 43.478 9.30 0.00 42.81 4.01
2000 2179 4.047822 TGGTGCTTTTCGTAAAATGCTTG 58.952 39.130 9.30 0.00 42.81 4.01
2001 2180 4.314740 TGGTGCTTTTCGTAAAATGCTT 57.685 36.364 9.30 0.00 42.81 3.91
2002 2181 4.022416 TCATGGTGCTTTTCGTAAAATGCT 60.022 37.500 9.30 0.00 42.81 3.79
2003 2182 4.233789 TCATGGTGCTTTTCGTAAAATGC 58.766 39.130 0.00 2.78 42.74 3.56
2004 2183 6.949578 ATTCATGGTGCTTTTCGTAAAATG 57.050 33.333 0.00 0.00 0.00 2.32
2007 2186 9.729023 CATATTATTCATGGTGCTTTTCGTAAA 57.271 29.630 0.00 0.00 0.00 2.01
2008 2187 8.898761 ACATATTATTCATGGTGCTTTTCGTAA 58.101 29.630 0.00 0.00 0.00 3.18
2009 2188 8.341903 CACATATTATTCATGGTGCTTTTCGTA 58.658 33.333 0.00 0.00 0.00 3.43
2010 2189 7.066887 TCACATATTATTCATGGTGCTTTTCGT 59.933 33.333 0.00 0.00 0.00 3.85
2011 2190 7.416817 TCACATATTATTCATGGTGCTTTTCG 58.583 34.615 0.00 0.00 0.00 3.46
2012 2191 9.023967 GTTCACATATTATTCATGGTGCTTTTC 57.976 33.333 0.00 0.00 0.00 2.29
2013 2192 7.981225 GGTTCACATATTATTCATGGTGCTTTT 59.019 33.333 0.00 0.00 0.00 2.27
2014 2193 7.123997 TGGTTCACATATTATTCATGGTGCTTT 59.876 33.333 0.00 0.00 0.00 3.51
2015 2194 6.606796 TGGTTCACATATTATTCATGGTGCTT 59.393 34.615 0.00 0.00 0.00 3.91
2016 2195 6.039717 GTGGTTCACATATTATTCATGGTGCT 59.960 38.462 0.00 0.00 34.08 4.40
2017 2196 6.208644 GTGGTTCACATATTATTCATGGTGC 58.791 40.000 0.00 0.00 34.08 5.01
2018 2197 6.320926 TGGTGGTTCACATATTATTCATGGTG 59.679 38.462 0.00 0.00 35.86 4.17
2019 2198 6.430864 TGGTGGTTCACATATTATTCATGGT 58.569 36.000 0.00 0.00 35.86 3.55
2020 2199 6.957920 TGGTGGTTCACATATTATTCATGG 57.042 37.500 0.00 0.00 35.86 3.66
2021 2200 8.168790 TGATGGTGGTTCACATATTATTCATG 57.831 34.615 0.38 0.00 35.86 3.07
2022 2201 8.000709 ACTGATGGTGGTTCACATATTATTCAT 58.999 33.333 0.38 0.00 35.86 2.57
2023 2202 7.345691 ACTGATGGTGGTTCACATATTATTCA 58.654 34.615 0.38 0.00 35.86 2.57
2024 2203 7.498900 TGACTGATGGTGGTTCACATATTATTC 59.501 37.037 0.38 0.00 35.86 1.75
2025 2204 7.345691 TGACTGATGGTGGTTCACATATTATT 58.654 34.615 0.38 0.00 35.86 1.40
2026 2205 6.899089 TGACTGATGGTGGTTCACATATTAT 58.101 36.000 0.38 0.00 35.86 1.28
2027 2206 6.306643 TGACTGATGGTGGTTCACATATTA 57.693 37.500 0.38 0.00 35.86 0.98
2028 2207 5.178096 TGACTGATGGTGGTTCACATATT 57.822 39.130 0.38 0.00 35.86 1.28
2029 2208 4.842531 TGACTGATGGTGGTTCACATAT 57.157 40.909 0.38 0.00 35.86 1.78
2030 2209 4.842531 ATGACTGATGGTGGTTCACATA 57.157 40.909 0.38 0.00 35.86 2.29
2031 2210 3.726557 ATGACTGATGGTGGTTCACAT 57.273 42.857 0.38 0.00 35.86 3.21
2032 2211 3.507162 AATGACTGATGGTGGTTCACA 57.493 42.857 0.38 0.00 35.86 3.58
2033 2212 5.957842 TTTAATGACTGATGGTGGTTCAC 57.042 39.130 0.00 0.00 0.00 3.18
2034 2213 8.274322 AGATATTTAATGACTGATGGTGGTTCA 58.726 33.333 0.00 0.00 0.00 3.18
2035 2214 8.682936 AGATATTTAATGACTGATGGTGGTTC 57.317 34.615 0.00 0.00 0.00 3.62
2036 2215 9.784531 CTAGATATTTAATGACTGATGGTGGTT 57.215 33.333 0.00 0.00 0.00 3.67
2037 2216 8.378565 CCTAGATATTTAATGACTGATGGTGGT 58.621 37.037 0.00 0.00 0.00 4.16
2038 2217 7.826252 CCCTAGATATTTAATGACTGATGGTGG 59.174 40.741 0.00 0.00 0.00 4.61
2039 2218 8.597167 TCCCTAGATATTTAATGACTGATGGTG 58.403 37.037 0.00 0.00 0.00 4.17
2040 2219 8.598041 GTCCCTAGATATTTAATGACTGATGGT 58.402 37.037 0.00 0.00 0.00 3.55
2041 2220 8.820831 AGTCCCTAGATATTTAATGACTGATGG 58.179 37.037 0.00 0.00 31.12 3.51
2042 2221 9.868277 GAGTCCCTAGATATTTAATGACTGATG 57.132 37.037 8.33 0.00 32.37 3.07
2043 2222 9.041354 GGAGTCCCTAGATATTTAATGACTGAT 57.959 37.037 0.00 0.00 32.37 2.90
2044 2223 8.010697 TGGAGTCCCTAGATATTTAATGACTGA 58.989 37.037 6.74 0.00 32.37 3.41
2045 2224 8.195165 TGGAGTCCCTAGATATTTAATGACTG 57.805 38.462 6.74 0.00 32.37 3.51
2046 2225 8.798975 TTGGAGTCCCTAGATATTTAATGACT 57.201 34.615 6.74 4.81 34.73 3.41
2047 2226 9.274206 GTTTGGAGTCCCTAGATATTTAATGAC 57.726 37.037 6.74 0.00 0.00 3.06
2048 2227 8.437575 GGTTTGGAGTCCCTAGATATTTAATGA 58.562 37.037 6.74 0.00 0.00 2.57
2049 2228 8.440771 AGGTTTGGAGTCCCTAGATATTTAATG 58.559 37.037 6.74 0.00 0.00 1.90
2050 2229 8.582891 AGGTTTGGAGTCCCTAGATATTTAAT 57.417 34.615 6.74 0.00 0.00 1.40
2051 2230 7.201974 CGAGGTTTGGAGTCCCTAGATATTTAA 60.202 40.741 6.74 0.00 0.00 1.52
2052 2231 6.267014 CGAGGTTTGGAGTCCCTAGATATTTA 59.733 42.308 6.74 0.00 0.00 1.40
2053 2232 5.070580 CGAGGTTTGGAGTCCCTAGATATTT 59.929 44.000 6.74 0.00 0.00 1.40
2054 2233 4.589374 CGAGGTTTGGAGTCCCTAGATATT 59.411 45.833 6.74 0.00 0.00 1.28
2055 2234 4.153411 CGAGGTTTGGAGTCCCTAGATAT 58.847 47.826 6.74 0.00 0.00 1.63
2056 2235 3.563223 CGAGGTTTGGAGTCCCTAGATA 58.437 50.000 6.74 0.00 0.00 1.98
2057 2236 2.389715 CGAGGTTTGGAGTCCCTAGAT 58.610 52.381 6.74 0.00 0.00 1.98
2058 2237 1.618888 CCGAGGTTTGGAGTCCCTAGA 60.619 57.143 6.74 0.00 0.00 2.43
2059 2238 0.824759 CCGAGGTTTGGAGTCCCTAG 59.175 60.000 6.74 0.00 0.00 3.02
2060 2239 0.410663 TCCGAGGTTTGGAGTCCCTA 59.589 55.000 6.74 0.00 0.00 3.53
2061 2240 0.473117 TTCCGAGGTTTGGAGTCCCT 60.473 55.000 6.74 0.00 36.72 4.20
2062 2241 0.399075 TTTCCGAGGTTTGGAGTCCC 59.601 55.000 6.74 0.00 36.72 4.46
2063 2242 2.265589 TTTTCCGAGGTTTGGAGTCC 57.734 50.000 0.73 0.73 36.72 3.85
2064 2243 5.952526 TTATTTTTCCGAGGTTTGGAGTC 57.047 39.130 0.00 0.00 36.72 3.36
2065 2244 6.911250 AATTATTTTTCCGAGGTTTGGAGT 57.089 33.333 0.00 0.00 36.72 3.85
2066 2245 7.602753 AGAAATTATTTTTCCGAGGTTTGGAG 58.397 34.615 0.00 0.00 36.72 3.86
2067 2246 7.533289 AGAAATTATTTTTCCGAGGTTTGGA 57.467 32.000 0.00 0.00 0.00 3.53
2068 2247 8.601845 AAAGAAATTATTTTTCCGAGGTTTGG 57.398 30.769 0.00 0.00 0.00 3.28
2071 2250 9.419297 GCTTAAAGAAATTATTTTTCCGAGGTT 57.581 29.630 0.00 0.00 0.00 3.50
2072 2251 8.581578 TGCTTAAAGAAATTATTTTTCCGAGGT 58.418 29.630 0.00 0.00 0.00 3.85
2073 2252 8.980143 TGCTTAAAGAAATTATTTTTCCGAGG 57.020 30.769 0.00 0.00 0.00 4.63
2087 2266 9.959721 ACACCTCTATTAAGATGCTTAAAGAAA 57.040 29.630 4.00 0.00 0.00 2.52
2088 2267 9.959721 AACACCTCTATTAAGATGCTTAAAGAA 57.040 29.630 4.00 0.00 0.00 2.52
2094 2273 9.717942 GATCATAACACCTCTATTAAGATGCTT 57.282 33.333 0.00 0.00 0.00 3.91
2095 2274 8.874156 TGATCATAACACCTCTATTAAGATGCT 58.126 33.333 0.00 0.00 0.00 3.79
2096 2275 9.149225 CTGATCATAACACCTCTATTAAGATGC 57.851 37.037 0.00 0.00 0.00 3.91
2097 2276 9.149225 GCTGATCATAACACCTCTATTAAGATG 57.851 37.037 0.00 0.00 0.00 2.90
2098 2277 8.874156 TGCTGATCATAACACCTCTATTAAGAT 58.126 33.333 0.00 0.00 0.00 2.40
2099 2278 8.144478 GTGCTGATCATAACACCTCTATTAAGA 58.856 37.037 10.90 0.00 0.00 2.10
2100 2279 8.147058 AGTGCTGATCATAACACCTCTATTAAG 58.853 37.037 15.98 0.00 33.46 1.85
2101 2280 8.023021 AGTGCTGATCATAACACCTCTATTAA 57.977 34.615 15.98 0.00 33.46 1.40
2102 2281 7.603180 AGTGCTGATCATAACACCTCTATTA 57.397 36.000 15.98 0.00 33.46 0.98
2103 2282 6.491714 AGTGCTGATCATAACACCTCTATT 57.508 37.500 15.98 0.00 33.46 1.73
2104 2283 6.780031 AGTAGTGCTGATCATAACACCTCTAT 59.220 38.462 15.98 4.66 33.46 1.98
2105 2284 6.129874 AGTAGTGCTGATCATAACACCTCTA 58.870 40.000 15.98 4.47 33.46 2.43
2106 2285 4.959210 AGTAGTGCTGATCATAACACCTCT 59.041 41.667 15.98 12.65 33.46 3.69
2107 2286 5.269505 AGTAGTGCTGATCATAACACCTC 57.730 43.478 15.98 11.20 33.46 3.85
2108 2287 5.894393 ACTAGTAGTGCTGATCATAACACCT 59.106 40.000 15.98 11.29 33.46 4.00
2109 2288 6.150396 ACTAGTAGTGCTGATCATAACACC 57.850 41.667 15.98 6.14 33.46 4.16
2110 2289 6.477033 CCAACTAGTAGTGCTGATCATAACAC 59.523 42.308 2.90 13.14 0.00 3.32
2111 2290 6.379988 TCCAACTAGTAGTGCTGATCATAACA 59.620 38.462 2.90 0.00 0.00 2.41
2112 2291 6.806751 TCCAACTAGTAGTGCTGATCATAAC 58.193 40.000 2.90 0.00 0.00 1.89
2113 2292 7.418337 TTCCAACTAGTAGTGCTGATCATAA 57.582 36.000 2.90 0.00 0.00 1.90
2114 2293 7.603180 ATTCCAACTAGTAGTGCTGATCATA 57.397 36.000 2.90 0.00 0.00 2.15
2115 2294 5.939764 TTCCAACTAGTAGTGCTGATCAT 57.060 39.130 2.90 0.00 0.00 2.45
2116 2295 5.939764 ATTCCAACTAGTAGTGCTGATCA 57.060 39.130 2.90 0.00 0.00 2.92
2117 2296 5.923684 GCTATTCCAACTAGTAGTGCTGATC 59.076 44.000 2.90 0.00 0.00 2.92
2118 2297 5.600484 AGCTATTCCAACTAGTAGTGCTGAT 59.400 40.000 2.90 0.00 0.00 2.90
2119 2298 4.956700 AGCTATTCCAACTAGTAGTGCTGA 59.043 41.667 2.90 0.00 0.00 4.26
2120 2299 5.269505 AGCTATTCCAACTAGTAGTGCTG 57.730 43.478 2.90 0.00 0.00 4.41
2121 2300 5.659079 AGAAGCTATTCCAACTAGTAGTGCT 59.341 40.000 2.90 3.45 35.94 4.40
2122 2301 5.908341 AGAAGCTATTCCAACTAGTAGTGC 58.092 41.667 2.90 0.97 35.94 4.40
2123 2302 7.427214 GGTAGAAGCTATTCCAACTAGTAGTG 58.573 42.308 2.90 0.00 35.94 2.74
2124 2303 6.550481 GGGTAGAAGCTATTCCAACTAGTAGT 59.450 42.308 0.00 0.00 35.94 2.73
2125 2304 6.550108 TGGGTAGAAGCTATTCCAACTAGTAG 59.450 42.308 0.00 0.00 35.94 2.57
2126 2305 6.323225 GTGGGTAGAAGCTATTCCAACTAGTA 59.677 42.308 0.00 0.00 35.94 1.82
2127 2306 5.128991 GTGGGTAGAAGCTATTCCAACTAGT 59.871 44.000 0.00 0.00 35.94 2.57
2128 2307 5.364157 AGTGGGTAGAAGCTATTCCAACTAG 59.636 44.000 3.47 0.00 35.94 2.57
2129 2308 5.278061 AGTGGGTAGAAGCTATTCCAACTA 58.722 41.667 3.47 0.00 35.94 2.24
2130 2309 4.104831 AGTGGGTAGAAGCTATTCCAACT 58.895 43.478 0.00 0.00 35.94 3.16
2131 2310 4.489306 AGTGGGTAGAAGCTATTCCAAC 57.511 45.455 0.00 0.00 35.94 3.77
2132 2311 5.724854 ACTAAGTGGGTAGAAGCTATTCCAA 59.275 40.000 0.00 0.00 35.94 3.53
2133 2312 5.278061 ACTAAGTGGGTAGAAGCTATTCCA 58.722 41.667 0.00 0.00 35.94 3.53
2134 2313 5.873146 ACTAAGTGGGTAGAAGCTATTCC 57.127 43.478 0.00 0.00 35.94 3.01
2135 2314 7.069702 AGGTTACTAAGTGGGTAGAAGCTATTC 59.930 40.741 0.00 0.00 35.52 1.75
2136 2315 6.901857 AGGTTACTAAGTGGGTAGAAGCTATT 59.098 38.462 0.00 0.00 0.00 1.73
2137 2316 6.442091 AGGTTACTAAGTGGGTAGAAGCTAT 58.558 40.000 0.00 0.00 0.00 2.97
2138 2317 5.835582 AGGTTACTAAGTGGGTAGAAGCTA 58.164 41.667 0.00 0.00 0.00 3.32
2139 2318 4.685807 AGGTTACTAAGTGGGTAGAAGCT 58.314 43.478 0.00 0.00 0.00 3.74
2140 2319 6.535963 TTAGGTTACTAAGTGGGTAGAAGC 57.464 41.667 0.00 0.00 34.35 3.86
2141 2320 8.302515 TGATTAGGTTACTAAGTGGGTAGAAG 57.697 38.462 0.00 0.00 42.13 2.85
2142 2321 8.534496 GTTGATTAGGTTACTAAGTGGGTAGAA 58.466 37.037 0.00 0.00 42.13 2.10
2143 2322 7.675195 TGTTGATTAGGTTACTAAGTGGGTAGA 59.325 37.037 0.00 0.00 42.13 2.59
2144 2323 7.844009 TGTTGATTAGGTTACTAAGTGGGTAG 58.156 38.462 0.00 0.00 42.13 3.18
2145 2324 7.795534 TGTTGATTAGGTTACTAAGTGGGTA 57.204 36.000 0.00 0.00 42.13 3.69
2146 2325 6.691255 TGTTGATTAGGTTACTAAGTGGGT 57.309 37.500 0.00 0.00 42.13 4.51
2147 2326 7.335627 TGATGTTGATTAGGTTACTAAGTGGG 58.664 38.462 0.00 0.00 42.13 4.61
2148 2327 8.665685 GTTGATGTTGATTAGGTTACTAAGTGG 58.334 37.037 0.00 0.00 42.13 4.00
2149 2328 9.436957 AGTTGATGTTGATTAGGTTACTAAGTG 57.563 33.333 0.00 0.00 42.13 3.16
2178 2357 8.826765 CCTTCCTCTAATGGGTATACACATATT 58.173 37.037 20.79 9.90 39.47 1.28
2179 2358 8.184249 TCCTTCCTCTAATGGGTATACACATAT 58.816 37.037 20.79 13.07 39.47 1.78
2180 2359 7.541074 TCCTTCCTCTAATGGGTATACACATA 58.459 38.462 20.79 5.02 39.47 2.29
2181 2360 6.390504 TCCTTCCTCTAATGGGTATACACAT 58.609 40.000 15.09 15.09 42.84 3.21
2182 2361 5.784023 TCCTTCCTCTAATGGGTATACACA 58.216 41.667 10.92 10.92 0.00 3.72
2183 2362 6.742559 TTCCTTCCTCTAATGGGTATACAC 57.257 41.667 5.01 0.62 0.00 2.90
2184 2363 7.147373 CCTTTTCCTTCCTCTAATGGGTATACA 60.147 40.741 5.01 0.00 0.00 2.29
2185 2364 7.147355 ACCTTTTCCTTCCTCTAATGGGTATAC 60.147 40.741 0.00 0.00 0.00 1.47
2186 2365 6.912561 ACCTTTTCCTTCCTCTAATGGGTATA 59.087 38.462 0.00 0.00 0.00 1.47
2187 2366 5.736616 ACCTTTTCCTTCCTCTAATGGGTAT 59.263 40.000 0.00 0.00 0.00 2.73
2188 2367 5.105853 ACCTTTTCCTTCCTCTAATGGGTA 58.894 41.667 0.00 0.00 0.00 3.69
2189 2368 3.923425 ACCTTTTCCTTCCTCTAATGGGT 59.077 43.478 0.00 0.00 0.00 4.51
2190 2369 4.527944 GACCTTTTCCTTCCTCTAATGGG 58.472 47.826 0.00 0.00 0.00 4.00
2191 2370 4.527944 GGACCTTTTCCTTCCTCTAATGG 58.472 47.826 0.00 0.00 41.95 3.16
2192 2371 4.018415 TGGGACCTTTTCCTTCCTCTAATG 60.018 45.833 0.00 0.00 45.09 1.90
2193 2372 4.183916 TGGGACCTTTTCCTTCCTCTAAT 58.816 43.478 0.00 0.00 45.09 1.73
2194 2373 3.604787 TGGGACCTTTTCCTTCCTCTAA 58.395 45.455 0.00 0.00 45.09 2.10
2195 2374 3.285290 TGGGACCTTTTCCTTCCTCTA 57.715 47.619 0.00 0.00 45.09 2.43
2196 2375 2.133858 TGGGACCTTTTCCTTCCTCT 57.866 50.000 0.00 0.00 45.09 3.69
2197 2376 4.797912 ATATGGGACCTTTTCCTTCCTC 57.202 45.455 0.00 0.00 45.09 3.71
2198 2377 6.465894 CGATTATATGGGACCTTTTCCTTCCT 60.466 42.308 0.00 0.00 45.09 3.36
2199 2378 5.705905 CGATTATATGGGACCTTTTCCTTCC 59.294 44.000 0.00 0.00 45.09 3.46
2200 2379 6.531021 TCGATTATATGGGACCTTTTCCTTC 58.469 40.000 0.00 0.00 45.09 3.46
2201 2380 6.509523 TCGATTATATGGGACCTTTTCCTT 57.490 37.500 0.00 0.00 45.09 3.36


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

AutoCloner maintained by Alex Coulton.