Multiple sequence alignment - TraesCS7A01G064500

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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 TraesCS7A01G064500 chr7A 100.000 3436 0 0 1 3436 32295559 32292124 0.000000e+00 6346
1 TraesCS7A01G064500 chr7A 96.623 1984 55 10 1 1978 32037244 32035267 0.000000e+00 3282
2 TraesCS7A01G064500 chr7A 83.990 1243 112 45 2107 3286 32035264 32034046 0.000000e+00 1112
3 TraesCS7A01G064500 chr7A 91.612 608 42 7 2101 2705 32197290 32196689 0.000000e+00 832
4 TraesCS7A01G064500 chr7A 85.879 694 55 21 248 913 32129255 32128577 0.000000e+00 699
5 TraesCS7A01G064500 chr7A 81.716 536 51 24 2679 3183 32196370 32195851 1.490000e-108 403
6 TraesCS7A01G064500 chr7A 83.372 427 50 13 123 544 32009436 32009846 3.240000e-100 375
7 TraesCS7A01G064500 chr7A 90.265 226 20 2 1466 1689 32027140 32026915 9.330000e-76 294
8 TraesCS7A01G064500 chr7A 90.265 226 20 2 1466 1689 32303058 32302833 9.330000e-76 294
9 TraesCS7A01G064500 chr7D 97.195 1961 44 6 24 1979 31960798 31958844 0.000000e+00 3306
10 TraesCS7A01G064500 chr7D 98.485 1188 16 2 2101 3286 31958844 31957657 0.000000e+00 2093
11 TraesCS7A01G064500 chr7D 92.857 1022 40 11 2 1017 32004527 32003533 0.000000e+00 1452
12 TraesCS7A01G064500 chr7D 84.507 426 51 11 123 544 31943093 31943507 1.150000e-109 407
13 TraesCS7A01G064500 chr7D 82.766 441 56 16 2145 2568 32002925 32002488 3.240000e-100 375
14 TraesCS7A01G064500 chr7D 90.265 226 20 2 1466 1689 31950224 31949999 9.330000e-76 294
15 TraesCS7A01G064500 chrUn 90.850 2011 134 25 2 1977 298011927 298009932 0.000000e+00 2649
16 TraesCS7A01G064500 chrUn 89.225 1587 126 19 1 1561 238523524 238521957 0.000000e+00 1941
17 TraesCS7A01G064500 chrUn 89.225 1587 126 19 1 1561 238537633 238536066 0.000000e+00 1941
18 TraesCS7A01G064500 chrUn 89.225 1587 126 19 1 1561 271022405 271020838 0.000000e+00 1941
19 TraesCS7A01G064500 chrUn 89.225 1587 126 19 1 1561 278812475 278814042 0.000000e+00 1941
20 TraesCS7A01G064500 chrUn 88.952 1575 127 19 17 1562 176753947 176755503 0.000000e+00 1901
21 TraesCS7A01G064500 chrUn 87.528 890 84 12 2101 2967 298009933 298009048 0.000000e+00 1003
22 TraesCS7A01G064500 chr3B 89.587 1575 117 17 17 1562 713874002 713872446 0.000000e+00 1956
23 TraesCS7A01G064500 chr4A 82.283 762 83 24 2567 3286 695993727 695994478 2.270000e-171 612
24 TraesCS7A01G064500 chr4A 89.474 475 29 14 2101 2557 695993197 695993668 6.390000e-162 580
25 TraesCS7A01G064500 chr4A 83.529 425 56 11 125 544 696010992 696010577 5.380000e-103 385
26 TraesCS7A01G064500 chr4A 90.265 226 20 2 1466 1689 696003992 696004217 9.330000e-76 294
27 TraesCS7A01G064500 chr4A 89.308 159 14 3 1944 2102 21847452 21847607 2.710000e-46 196
28 TraesCS7A01G064500 chr6B 95.918 147 5 1 3281 3426 458154663 458154517 1.590000e-58 237
29 TraesCS7A01G064500 chr1A 95.139 144 6 1 3285 3427 315487538 315487395 3.450000e-55 226
30 TraesCS7A01G064500 chr1A 96.899 129 4 0 1975 2103 3261591 3261719 2.080000e-52 217
31 TraesCS7A01G064500 chr1B 97.674 129 3 0 1974 2102 308586663 308586791 4.460000e-54 222
32 TraesCS7A01G064500 chr1B 92.715 151 9 2 1976 2125 626227005 626226856 2.080000e-52 217
33 TraesCS7A01G064500 chr1B 93.151 146 9 1 3283 3427 614426706 614426851 2.690000e-51 213
34 TraesCS7A01G064500 chr2D 94.444 144 7 1 3285 3427 472236347 472236490 1.610000e-53 220
35 TraesCS7A01G064500 chr5A 96.899 129 4 0 1975 2103 60444278 60444406 2.080000e-52 217
36 TraesCS7A01G064500 chr5A 88.811 143 15 1 3285 3426 530008074 530008216 1.270000e-39 174
37 TraesCS7A01G064500 chr1D 94.326 141 8 0 1965 2105 60223754 60223614 2.080000e-52 217
38 TraesCS7A01G064500 chr6D 93.197 147 9 1 3282 3427 204432529 204432383 7.470000e-52 215
39 TraesCS7A01G064500 chr7B 93.750 144 6 2 1973 2115 89668135 89667994 2.690000e-51 213
40 TraesCS7A01G064500 chr4D 94.891 137 6 1 1971 2106 306860271 306860407 2.690000e-51 213
41 TraesCS7A01G064500 chr5B 94.286 140 5 3 1976 2113 551414255 551414393 9.660000e-51 211
42 TraesCS7A01G064500 chr3A 85.315 143 11 3 3285 3426 739533504 739533637 4.620000e-29 139


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 TraesCS7A01G064500 chr7A 32292124 32295559 3435 True 6346.0 6346 100.0000 1 3436 1 chr7A.!!$R3 3435
1 TraesCS7A01G064500 chr7A 32034046 32037244 3198 True 2197.0 3282 90.3065 1 3286 2 chr7A.!!$R5 3285
2 TraesCS7A01G064500 chr7A 32128577 32129255 678 True 699.0 699 85.8790 248 913 1 chr7A.!!$R2 665
3 TraesCS7A01G064500 chr7A 32195851 32197290 1439 True 617.5 832 86.6640 2101 3183 2 chr7A.!!$R6 1082
4 TraesCS7A01G064500 chr7D 31957657 31960798 3141 True 2699.5 3306 97.8400 24 3286 2 chr7D.!!$R2 3262
5 TraesCS7A01G064500 chr7D 32002488 32004527 2039 True 913.5 1452 87.8115 2 2568 2 chr7D.!!$R3 2566
6 TraesCS7A01G064500 chrUn 238521957 238523524 1567 True 1941.0 1941 89.2250 1 1561 1 chrUn.!!$R1 1560
7 TraesCS7A01G064500 chrUn 238536066 238537633 1567 True 1941.0 1941 89.2250 1 1561 1 chrUn.!!$R2 1560
8 TraesCS7A01G064500 chrUn 271020838 271022405 1567 True 1941.0 1941 89.2250 1 1561 1 chrUn.!!$R3 1560
9 TraesCS7A01G064500 chrUn 278812475 278814042 1567 False 1941.0 1941 89.2250 1 1561 1 chrUn.!!$F2 1560
10 TraesCS7A01G064500 chrUn 176753947 176755503 1556 False 1901.0 1901 88.9520 17 1562 1 chrUn.!!$F1 1545
11 TraesCS7A01G064500 chrUn 298009048 298011927 2879 True 1826.0 2649 89.1890 2 2967 2 chrUn.!!$R4 2965
12 TraesCS7A01G064500 chr3B 713872446 713874002 1556 True 1956.0 1956 89.5870 17 1562 1 chr3B.!!$R1 1545
13 TraesCS7A01G064500 chr4A 695993197 695994478 1281 False 596.0 612 85.8785 2101 3286 2 chr4A.!!$F3 1185

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
798 836 8.178313 ACTATCGGTATGTTGATATGTTCTGA 57.822 34.615 0.0 0.0 0.0 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2718 3197 0.631212 ATGGGGGACAATCCAGGTTC 59.369 55.0 0.0 0.0 38.64 3.62 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
282 287 8.574251 ACAGAATTACCATAAACATGCAGTAA 57.426 30.769 0.00 0.00 0.00 2.24
798 836 8.178313 ACTATCGGTATGTTGATATGTTCTGA 57.822 34.615 0.00 0.00 0.00 3.27
1154 1193 6.318900 GGAAATACCCTTACATGGTTCTTCTG 59.681 42.308 0.00 0.00 37.31 3.02
1224 1263 3.776969 TCAGAGAATATGTTGAGTGGGCT 59.223 43.478 0.00 0.00 0.00 5.19
1484 1526 3.682718 CGCTTTCAGGATGGTAAGATGGT 60.683 47.826 0.00 0.00 36.16 3.55
1930 1991 9.338622 ACTTAACTACTAATCACTTGTGCTTTT 57.661 29.630 0.00 0.00 0.00 2.27
1978 2039 1.283905 GGTTGCCCACACCCTAATACT 59.716 52.381 0.00 0.00 0.00 2.12
1979 2040 2.640184 GTTGCCCACACCCTAATACTC 58.360 52.381 0.00 0.00 0.00 2.59
1980 2041 1.209621 TGCCCACACCCTAATACTCC 58.790 55.000 0.00 0.00 0.00 3.85
1981 2042 0.472898 GCCCACACCCTAATACTCCC 59.527 60.000 0.00 0.00 0.00 4.30
1982 2043 1.975196 GCCCACACCCTAATACTCCCT 60.975 57.143 0.00 0.00 0.00 4.20
1983 2044 2.047830 CCCACACCCTAATACTCCCTC 58.952 57.143 0.00 0.00 0.00 4.30
1984 2045 2.047830 CCACACCCTAATACTCCCTCC 58.952 57.143 0.00 0.00 0.00 4.30
1985 2046 1.687123 CACACCCTAATACTCCCTCCG 59.313 57.143 0.00 0.00 0.00 4.63
1986 2047 1.290130 ACACCCTAATACTCCCTCCGT 59.710 52.381 0.00 0.00 0.00 4.69
1987 2048 1.962100 CACCCTAATACTCCCTCCGTC 59.038 57.143 0.00 0.00 0.00 4.79
1988 2049 1.133231 ACCCTAATACTCCCTCCGTCC 60.133 57.143 0.00 0.00 0.00 4.79
1989 2050 1.245732 CCTAATACTCCCTCCGTCCG 58.754 60.000 0.00 0.00 0.00 4.79
1990 2051 1.202855 CCTAATACTCCCTCCGTCCGA 60.203 57.143 0.00 0.00 0.00 4.55
1991 2052 2.579873 CTAATACTCCCTCCGTCCGAA 58.420 52.381 0.00 0.00 0.00 4.30
1992 2053 1.856629 AATACTCCCTCCGTCCGAAA 58.143 50.000 0.00 0.00 0.00 3.46
1993 2054 1.856629 ATACTCCCTCCGTCCGAAAA 58.143 50.000 0.00 0.00 0.00 2.29
1994 2055 1.856629 TACTCCCTCCGTCCGAAAAT 58.143 50.000 0.00 0.00 0.00 1.82
1995 2056 1.856629 ACTCCCTCCGTCCGAAAATA 58.143 50.000 0.00 0.00 0.00 1.40
1996 2057 1.479730 ACTCCCTCCGTCCGAAAATAC 59.520 52.381 0.00 0.00 0.00 1.89
1997 2058 1.755380 CTCCCTCCGTCCGAAAATACT 59.245 52.381 0.00 0.00 0.00 2.12
1998 2059 2.167900 CTCCCTCCGTCCGAAAATACTT 59.832 50.000 0.00 0.00 0.00 2.24
1999 2060 2.093869 TCCCTCCGTCCGAAAATACTTG 60.094 50.000 0.00 0.00 0.00 3.16
2000 2061 2.354403 CCCTCCGTCCGAAAATACTTGT 60.354 50.000 0.00 0.00 0.00 3.16
2001 2062 2.928116 CCTCCGTCCGAAAATACTTGTC 59.072 50.000 0.00 0.00 0.00 3.18
2002 2063 3.581755 CTCCGTCCGAAAATACTTGTCA 58.418 45.455 0.00 0.00 0.00 3.58
2003 2064 4.181578 CTCCGTCCGAAAATACTTGTCAT 58.818 43.478 0.00 0.00 0.00 3.06
2004 2065 4.178540 TCCGTCCGAAAATACTTGTCATC 58.821 43.478 0.00 0.00 0.00 2.92
2005 2066 3.930229 CCGTCCGAAAATACTTGTCATCA 59.070 43.478 0.00 0.00 0.00 3.07
2006 2067 4.390603 CCGTCCGAAAATACTTGTCATCAA 59.609 41.667 0.00 0.00 0.00 2.57
2007 2068 5.106869 CCGTCCGAAAATACTTGTCATCAAA 60.107 40.000 0.00 0.00 32.87 2.69
2008 2069 6.367421 CGTCCGAAAATACTTGTCATCAAAA 58.633 36.000 0.00 0.00 32.87 2.44
2009 2070 7.021196 CGTCCGAAAATACTTGTCATCAAAAT 58.979 34.615 0.00 0.00 32.87 1.82
2010 2071 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
2011 2072 7.273381 GTCCGAAAATACTTGTCATCAAAATGG 59.727 37.037 0.00 0.00 33.42 3.16
2012 2073 7.175816 TCCGAAAATACTTGTCATCAAAATGGA 59.824 33.333 0.00 0.00 33.42 3.41
2013 2074 7.975616 CCGAAAATACTTGTCATCAAAATGGAT 59.024 33.333 0.00 0.00 33.42 3.41
2021 2082 8.096414 ACTTGTCATCAAAATGGATAAAAAGGG 58.904 33.333 0.00 0.00 33.42 3.95
2022 2083 7.789202 TGTCATCAAAATGGATAAAAAGGGA 57.211 32.000 0.00 0.00 33.42 4.20
2023 2084 8.378115 TGTCATCAAAATGGATAAAAAGGGAT 57.622 30.769 0.00 0.00 33.42 3.85
2024 2085 8.259411 TGTCATCAAAATGGATAAAAAGGGATG 58.741 33.333 0.00 0.00 33.42 3.51
2025 2086 8.260114 GTCATCAAAATGGATAAAAAGGGATGT 58.740 33.333 0.00 0.00 33.42 3.06
2026 2087 9.486123 TCATCAAAATGGATAAAAAGGGATGTA 57.514 29.630 0.00 0.00 33.42 2.29
2029 2090 9.713684 TCAAAATGGATAAAAAGGGATGTATCT 57.286 29.630 0.00 0.00 0.00 1.98
2030 2091 9.971922 CAAAATGGATAAAAAGGGATGTATCTC 57.028 33.333 0.00 0.00 0.00 2.75
2031 2092 7.986085 AATGGATAAAAAGGGATGTATCTCG 57.014 36.000 0.00 0.00 30.86 4.04
2032 2093 6.740944 TGGATAAAAAGGGATGTATCTCGA 57.259 37.500 0.00 0.00 30.86 4.04
2033 2094 7.131907 TGGATAAAAAGGGATGTATCTCGAA 57.868 36.000 0.00 0.00 30.86 3.71
2034 2095 6.990349 TGGATAAAAAGGGATGTATCTCGAAC 59.010 38.462 0.00 0.00 30.86 3.95
2035 2096 7.147549 TGGATAAAAAGGGATGTATCTCGAACT 60.148 37.037 0.00 0.00 30.86 3.01
2036 2097 8.365647 GGATAAAAAGGGATGTATCTCGAACTA 58.634 37.037 0.00 0.00 30.86 2.24
2037 2098 9.760077 GATAAAAAGGGATGTATCTCGAACTAA 57.240 33.333 0.00 0.00 30.86 2.24
2039 2100 8.857694 AAAAAGGGATGTATCTCGAACTAAAA 57.142 30.769 0.00 0.00 30.86 1.52
2040 2101 9.462606 AAAAAGGGATGTATCTCGAACTAAAAT 57.537 29.630 0.00 0.00 30.86 1.82
2042 2103 9.543783 AAAGGGATGTATCTCGAACTAAAATAC 57.456 33.333 0.00 0.00 30.86 1.89
2043 2104 7.368833 AGGGATGTATCTCGAACTAAAATACG 58.631 38.462 0.00 0.00 30.86 3.06
2044 2105 7.014038 AGGGATGTATCTCGAACTAAAATACGT 59.986 37.037 0.00 0.00 30.86 3.57
2045 2106 7.325579 GGGATGTATCTCGAACTAAAATACGTC 59.674 40.741 0.00 0.00 37.78 4.34
2046 2107 8.074972 GGATGTATCTCGAACTAAAATACGTCT 58.925 37.037 0.00 0.00 38.23 4.18
2049 2110 9.317936 TGTATCTCGAACTAAAATACGTCTAGA 57.682 33.333 0.00 0.00 0.00 2.43
2053 2114 9.317936 TCTCGAACTAAAATACGTCTAGATACA 57.682 33.333 0.00 0.00 0.00 2.29
2059 2120 9.796180 ACTAAAATACGTCTAGATACATCTCCT 57.204 33.333 0.00 0.00 38.32 3.69
2066 2127 8.113173 ACGTCTAGATACATCTCCTTTTATCC 57.887 38.462 0.00 0.00 38.32 2.59
2067 2128 7.724506 ACGTCTAGATACATCTCCTTTTATCCA 59.275 37.037 0.00 0.00 38.32 3.41
2068 2129 8.744652 CGTCTAGATACATCTCCTTTTATCCAT 58.255 37.037 0.00 0.00 38.32 3.41
2073 2134 9.359653 AGATACATCTCCTTTTATCCATTTTGG 57.640 33.333 0.00 0.00 32.96 3.28
2074 2135 9.136323 GATACATCTCCTTTTATCCATTTTGGT 57.864 33.333 0.00 0.00 39.03 3.67
2075 2136 7.174107 ACATCTCCTTTTATCCATTTTGGTG 57.826 36.000 0.00 0.00 39.03 4.17
2076 2137 6.953520 ACATCTCCTTTTATCCATTTTGGTGA 59.046 34.615 0.00 0.00 39.03 4.02
2077 2138 6.834168 TCTCCTTTTATCCATTTTGGTGAC 57.166 37.500 0.00 0.00 39.03 3.67
2078 2139 6.310941 TCTCCTTTTATCCATTTTGGTGACA 58.689 36.000 0.00 0.00 39.03 3.58
2092 2153 3.659786 TGGTGACAAGTATTTCCAGACG 58.340 45.455 0.00 0.00 37.44 4.18
2093 2154 3.000727 GGTGACAAGTATTTCCAGACGG 58.999 50.000 0.00 0.00 0.00 4.79
2094 2155 3.306502 GGTGACAAGTATTTCCAGACGGA 60.307 47.826 0.00 0.00 40.60 4.69
2095 2156 3.927142 GTGACAAGTATTTCCAGACGGAG 59.073 47.826 0.00 0.00 44.10 4.63
2096 2157 3.056107 TGACAAGTATTTCCAGACGGAGG 60.056 47.826 0.00 0.00 44.10 4.30
2097 2158 2.236395 ACAAGTATTTCCAGACGGAGGG 59.764 50.000 0.00 0.00 44.10 4.30
2098 2159 2.500098 CAAGTATTTCCAGACGGAGGGA 59.500 50.000 0.00 0.00 44.10 4.20
2099 2160 2.389715 AGTATTTCCAGACGGAGGGAG 58.610 52.381 0.00 0.00 44.10 4.30
2231 2295 1.202580 CCTCGTATCTGCTTGGGGAAG 60.203 57.143 0.00 0.00 0.00 3.46
2355 2419 4.289934 TGTTTACCCTCCACATGGATAACA 59.710 41.667 0.00 5.17 44.46 2.41
2717 3196 4.342378 TCAGTGAGCATACCAGGAGTATTC 59.658 45.833 0.00 0.00 39.79 1.75
2718 3197 3.319405 AGTGAGCATACCAGGAGTATTCG 59.681 47.826 0.00 0.00 39.79 3.34
2748 3237 3.586470 TGTCCCCCATATTAATGCGTT 57.414 42.857 0.00 0.00 0.00 4.84
2891 3410 4.202451 TGTCTCCATCAATTCCACAACTCA 60.202 41.667 0.00 0.00 0.00 3.41
2892 3411 4.761739 GTCTCCATCAATTCCACAACTCAA 59.238 41.667 0.00 0.00 0.00 3.02
3027 3564 7.321153 TCTAAACTACAGATAACCAGAGCAAC 58.679 38.462 0.00 0.00 0.00 4.17
3118 3656 6.369615 GTCTATGCAAAGACAATGCCATTTTT 59.630 34.615 0.00 0.00 44.41 1.94
3185 3723 9.733556 TCAATACTACACAATACCAACAAAGAT 57.266 29.630 0.00 0.00 0.00 2.40
3246 3787 0.253044 CACCCCTGTGGACACCTATG 59.747 60.000 0.00 0.00 38.90 2.23
3286 3827 3.451526 GTTACGGAAATCGGGACTAAGG 58.548 50.000 0.00 0.00 44.45 2.69
3287 3828 0.828677 ACGGAAATCGGGACTAAGGG 59.171 55.000 0.00 0.00 44.45 3.95
3288 3829 0.532196 CGGAAATCGGGACTAAGGGC 60.532 60.000 0.00 0.00 34.75 5.19
3289 3830 0.179026 GGAAATCGGGACTAAGGGCC 60.179 60.000 0.00 0.00 0.00 5.80
3290 3831 0.837940 GAAATCGGGACTAAGGGCCT 59.162 55.000 0.00 0.00 0.00 5.19
3291 3832 0.546598 AAATCGGGACTAAGGGCCTG 59.453 55.000 6.92 0.00 0.00 4.85
3292 3833 0.620700 AATCGGGACTAAGGGCCTGT 60.621 55.000 6.92 0.00 32.28 4.00
3293 3834 0.620700 ATCGGGACTAAGGGCCTGTT 60.621 55.000 6.92 0.00 32.28 3.16
3294 3835 1.221021 CGGGACTAAGGGCCTGTTC 59.779 63.158 6.92 0.00 0.00 3.18
3295 3836 1.221021 GGGACTAAGGGCCTGTTCG 59.779 63.158 6.92 0.00 0.00 3.95
3296 3837 1.221021 GGACTAAGGGCCTGTTCGG 59.779 63.158 6.92 0.00 0.00 4.30
3297 3838 1.262640 GGACTAAGGGCCTGTTCGGA 61.263 60.000 6.92 0.00 33.16 4.55
3298 3839 0.175989 GACTAAGGGCCTGTTCGGAG 59.824 60.000 6.92 0.31 33.16 4.63
3299 3840 1.265454 ACTAAGGGCCTGTTCGGAGG 61.265 60.000 6.92 0.00 36.03 4.30
3300 3841 1.972660 CTAAGGGCCTGTTCGGAGGG 61.973 65.000 6.92 0.00 33.17 4.30
3301 3842 2.465010 TAAGGGCCTGTTCGGAGGGA 62.465 60.000 6.92 0.00 33.17 4.20
3302 3843 4.097361 GGGCCTGTTCGGAGGGAC 62.097 72.222 0.84 0.00 33.17 4.46
3314 3855 2.203788 AGGGACTCCGCTCCACAA 60.204 61.111 0.00 0.00 38.33 3.33
3315 3856 2.047179 GGGACTCCGCTCCACAAC 60.047 66.667 0.00 0.00 30.97 3.32
3316 3857 2.584391 GGGACTCCGCTCCACAACT 61.584 63.158 0.00 0.00 30.97 3.16
3317 3858 1.079750 GGACTCCGCTCCACAACTC 60.080 63.158 0.00 0.00 0.00 3.01
3318 3859 1.079750 GACTCCGCTCCACAACTCC 60.080 63.158 0.00 0.00 0.00 3.85
3319 3860 1.816863 GACTCCGCTCCACAACTCCA 61.817 60.000 0.00 0.00 0.00 3.86
3320 3861 1.374758 CTCCGCTCCACAACTCCAC 60.375 63.158 0.00 0.00 0.00 4.02
3321 3862 1.821061 CTCCGCTCCACAACTCCACT 61.821 60.000 0.00 0.00 0.00 4.00
3322 3863 1.071471 CCGCTCCACAACTCCACTT 59.929 57.895 0.00 0.00 0.00 3.16
3323 3864 1.230635 CCGCTCCACAACTCCACTTG 61.231 60.000 0.00 0.00 0.00 3.16
3324 3865 0.532862 CGCTCCACAACTCCACTTGT 60.533 55.000 0.00 0.00 34.56 3.16
3333 3874 3.986054 TCCACTTGTGGAGCAGGT 58.014 55.556 17.57 0.00 37.96 4.00
3336 3877 3.986054 ACTTGTGGAGCAGGTGGA 58.014 55.556 0.00 0.00 35.98 4.02
3337 3878 1.757306 ACTTGTGGAGCAGGTGGAG 59.243 57.895 0.00 0.00 35.98 3.86
3338 3879 1.673665 CTTGTGGAGCAGGTGGAGC 60.674 63.158 0.00 0.00 0.00 4.70
3339 3880 3.196207 TTGTGGAGCAGGTGGAGCC 62.196 63.158 0.00 0.00 37.58 4.70
3340 3881 4.767255 GTGGAGCAGGTGGAGCCG 62.767 72.222 0.00 0.00 43.70 5.52
3342 3883 4.459089 GGAGCAGGTGGAGCCGAC 62.459 72.222 0.00 0.00 43.70 4.79
3343 3884 4.459089 GAGCAGGTGGAGCCGACC 62.459 72.222 0.00 0.00 43.70 4.79
3348 3889 4.754667 GGTGGAGCCGACCCGAAC 62.755 72.222 0.00 0.00 0.00 3.95
3361 3902 2.466867 CCGAACGGGAAACTCCATG 58.533 57.895 5.25 0.00 38.64 3.66
3362 3903 1.024579 CCGAACGGGAAACTCCATGG 61.025 60.000 4.97 4.97 38.64 3.66
3363 3904 0.036765 CGAACGGGAAACTCCATGGA 60.037 55.000 15.27 15.27 38.64 3.41
3364 3905 1.739067 GAACGGGAAACTCCATGGAG 58.261 55.000 35.55 35.55 46.91 3.86
3374 3915 4.415150 CCATGGAGTGGGCAGCGT 62.415 66.667 5.56 0.00 44.79 5.07
3375 3916 3.129502 CATGGAGTGGGCAGCGTG 61.130 66.667 0.00 0.00 0.00 5.34
3376 3917 4.415150 ATGGAGTGGGCAGCGTGG 62.415 66.667 0.00 0.00 0.00 4.94
3378 3919 4.767255 GGAGTGGGCAGCGTGGAG 62.767 72.222 0.00 0.00 0.00 3.86
3396 3937 3.826754 CGGAGCGAGCTACAGGCA 61.827 66.667 8.17 0.00 44.79 4.75
3397 3938 2.105930 GGAGCGAGCTACAGGCAG 59.894 66.667 1.81 0.00 44.79 4.85
3398 3939 2.418910 GGAGCGAGCTACAGGCAGA 61.419 63.158 1.81 0.00 44.79 4.26
3399 3940 1.513158 GAGCGAGCTACAGGCAGAA 59.487 57.895 0.00 0.00 44.79 3.02
3400 3941 0.103937 GAGCGAGCTACAGGCAGAAT 59.896 55.000 0.00 0.00 44.79 2.40
3401 3942 0.539051 AGCGAGCTACAGGCAGAATT 59.461 50.000 0.00 0.00 44.79 2.17
3402 3943 0.933796 GCGAGCTACAGGCAGAATTC 59.066 55.000 0.00 0.00 44.79 2.17
3403 3944 1.472376 GCGAGCTACAGGCAGAATTCT 60.472 52.381 0.88 0.88 44.79 2.40
3404 3945 2.468831 CGAGCTACAGGCAGAATTCTC 58.531 52.381 4.57 0.75 44.79 2.87
3405 3946 2.468831 GAGCTACAGGCAGAATTCTCG 58.531 52.381 4.57 2.87 44.79 4.04
3406 3947 1.137872 AGCTACAGGCAGAATTCTCGG 59.862 52.381 4.57 0.00 44.79 4.63
3407 3948 1.137086 GCTACAGGCAGAATTCTCGGA 59.863 52.381 4.57 0.00 41.35 4.55
3408 3949 2.801342 GCTACAGGCAGAATTCTCGGAG 60.801 54.545 4.57 0.00 41.35 4.63
3409 3950 0.107945 ACAGGCAGAATTCTCGGAGC 60.108 55.000 4.57 5.96 0.00 4.70
3410 3951 1.142748 AGGCAGAATTCTCGGAGCG 59.857 57.895 4.57 0.00 0.00 5.03
3411 3952 1.141881 GGCAGAATTCTCGGAGCGA 59.858 57.895 4.57 0.00 0.00 4.93
3420 3961 2.970639 TCGGAGCGAGGAAAGTGG 59.029 61.111 0.00 0.00 0.00 4.00
3421 3962 2.815647 CGGAGCGAGGAAAGTGGC 60.816 66.667 0.00 0.00 0.00 5.01
3422 3963 2.815647 GGAGCGAGGAAAGTGGCG 60.816 66.667 0.00 0.00 0.00 5.69
3425 3966 3.491652 GCGAGGAAAGTGGCGCTC 61.492 66.667 7.64 0.45 45.41 5.03
3426 3967 2.815647 CGAGGAAAGTGGCGCTCC 60.816 66.667 7.64 5.83 0.00 4.70
3427 3968 2.665603 GAGGAAAGTGGCGCTCCT 59.334 61.111 14.45 14.45 42.44 3.69
3428 3969 1.743252 GAGGAAAGTGGCGCTCCTG 60.743 63.158 18.87 0.00 39.76 3.86
3429 3970 2.172483 GAGGAAAGTGGCGCTCCTGA 62.172 60.000 18.87 0.00 39.76 3.86
3430 3971 1.302511 GGAAAGTGGCGCTCCTGAA 60.303 57.895 7.64 0.00 0.00 3.02
3431 3972 0.889186 GGAAAGTGGCGCTCCTGAAA 60.889 55.000 7.64 0.00 0.00 2.69
3432 3973 0.951558 GAAAGTGGCGCTCCTGAAAA 59.048 50.000 7.64 0.00 0.00 2.29
3433 3974 1.541588 GAAAGTGGCGCTCCTGAAAAT 59.458 47.619 7.64 0.00 0.00 1.82
3434 3975 0.883833 AAGTGGCGCTCCTGAAAATG 59.116 50.000 7.64 0.00 0.00 2.32
3435 3976 0.962356 AGTGGCGCTCCTGAAAATGG 60.962 55.000 7.64 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
798 836 7.661847 CCCGATATAAGATACCTTTTCAGCTTT 59.338 37.037 0.00 0.00 33.94 3.51
1154 1193 1.009829 CGGGTTCTTACAGAGCATGC 58.990 55.000 10.51 10.51 0.00 4.06
1224 1263 4.842531 TTCCATGCTGGTATCTTCTTGA 57.157 40.909 2.68 0.00 39.03 3.02
1484 1526 7.478322 GTTTGGTAGTACGTCATCTTCATCTA 58.522 38.462 0.00 0.00 0.00 1.98
1930 1991 4.806330 CTGTTAGTTGCCGTTCTCTTCTA 58.194 43.478 0.00 0.00 0.00 2.10
1978 2039 1.856629 AGTATTTTCGGACGGAGGGA 58.143 50.000 0.00 0.00 0.00 4.20
1979 2040 2.277084 CAAGTATTTTCGGACGGAGGG 58.723 52.381 0.00 0.00 0.00 4.30
1980 2041 2.928116 GACAAGTATTTTCGGACGGAGG 59.072 50.000 0.00 0.00 0.00 4.30
1981 2042 3.581755 TGACAAGTATTTTCGGACGGAG 58.418 45.455 0.00 0.00 0.00 4.63
1982 2043 3.663995 TGACAAGTATTTTCGGACGGA 57.336 42.857 0.00 0.00 0.00 4.69
1983 2044 3.930229 TGATGACAAGTATTTTCGGACGG 59.070 43.478 0.00 0.00 0.00 4.79
1984 2045 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
1985 2046 7.273381 CCATTTTGATGACAAGTATTTTCGGAC 59.727 37.037 0.00 0.00 37.32 4.79
1986 2047 7.175816 TCCATTTTGATGACAAGTATTTTCGGA 59.824 33.333 0.00 0.00 37.32 4.55
1987 2048 7.312154 TCCATTTTGATGACAAGTATTTTCGG 58.688 34.615 0.00 0.00 37.32 4.30
1988 2049 8.915871 ATCCATTTTGATGACAAGTATTTTCG 57.084 30.769 0.00 0.00 37.32 3.46
1995 2056 8.096414 CCCTTTTTATCCATTTTGATGACAAGT 58.904 33.333 0.00 0.00 37.32 3.16
1996 2057 8.313292 TCCCTTTTTATCCATTTTGATGACAAG 58.687 33.333 0.00 0.00 37.32 3.16
1997 2058 8.200024 TCCCTTTTTATCCATTTTGATGACAA 57.800 30.769 0.00 0.00 0.00 3.18
1998 2059 7.789202 TCCCTTTTTATCCATTTTGATGACA 57.211 32.000 0.00 0.00 0.00 3.58
1999 2060 8.260114 ACATCCCTTTTTATCCATTTTGATGAC 58.740 33.333 0.00 0.00 32.39 3.06
2000 2061 8.378115 ACATCCCTTTTTATCCATTTTGATGA 57.622 30.769 0.00 0.00 32.39 2.92
2003 2064 9.713684 AGATACATCCCTTTTTATCCATTTTGA 57.286 29.630 0.00 0.00 0.00 2.69
2004 2065 9.971922 GAGATACATCCCTTTTTATCCATTTTG 57.028 33.333 0.00 0.00 0.00 2.44
2005 2066 8.850156 CGAGATACATCCCTTTTTATCCATTTT 58.150 33.333 0.00 0.00 0.00 1.82
2006 2067 8.217799 TCGAGATACATCCCTTTTTATCCATTT 58.782 33.333 0.00 0.00 0.00 2.32
2007 2068 7.745717 TCGAGATACATCCCTTTTTATCCATT 58.254 34.615 0.00 0.00 0.00 3.16
2008 2069 7.316393 TCGAGATACATCCCTTTTTATCCAT 57.684 36.000 0.00 0.00 0.00 3.41
2009 2070 6.740944 TCGAGATACATCCCTTTTTATCCA 57.259 37.500 0.00 0.00 0.00 3.41
2010 2071 7.217906 AGTTCGAGATACATCCCTTTTTATCC 58.782 38.462 0.00 0.00 0.00 2.59
2011 2072 9.760077 TTAGTTCGAGATACATCCCTTTTTATC 57.240 33.333 0.00 0.00 0.00 1.75
2013 2074 9.947433 TTTTAGTTCGAGATACATCCCTTTTTA 57.053 29.630 0.00 0.00 0.00 1.52
2014 2075 8.857694 TTTTAGTTCGAGATACATCCCTTTTT 57.142 30.769 0.00 0.00 0.00 1.94
2016 2077 9.543783 GTATTTTAGTTCGAGATACATCCCTTT 57.456 33.333 0.00 0.00 0.00 3.11
2017 2078 7.866393 CGTATTTTAGTTCGAGATACATCCCTT 59.134 37.037 0.00 0.00 0.00 3.95
2018 2079 7.014038 ACGTATTTTAGTTCGAGATACATCCCT 59.986 37.037 0.00 0.00 0.00 4.20
2019 2080 7.144000 ACGTATTTTAGTTCGAGATACATCCC 58.856 38.462 0.00 0.00 0.00 3.85
2020 2081 8.074972 AGACGTATTTTAGTTCGAGATACATCC 58.925 37.037 0.00 0.00 0.00 3.51
2023 2084 9.317936 TCTAGACGTATTTTAGTTCGAGATACA 57.682 33.333 0.00 0.00 0.00 2.29
2027 2088 9.317936 TGTATCTAGACGTATTTTAGTTCGAGA 57.682 33.333 0.00 0.00 0.00 4.04
2033 2094 9.796180 AGGAGATGTATCTAGACGTATTTTAGT 57.204 33.333 0.00 0.00 37.25 2.24
2040 2101 9.228949 GGATAAAAGGAGATGTATCTAGACGTA 57.771 37.037 0.00 0.00 37.25 3.57
2041 2102 7.724506 TGGATAAAAGGAGATGTATCTAGACGT 59.275 37.037 0.00 0.00 37.25 4.34
2042 2103 8.112016 TGGATAAAAGGAGATGTATCTAGACG 57.888 38.462 0.00 0.00 37.25 4.18
2047 2108 9.359653 CCAAAATGGATAAAAGGAGATGTATCT 57.640 33.333 0.00 0.00 40.96 1.98
2048 2109 9.136323 ACCAAAATGGATAAAAGGAGATGTATC 57.864 33.333 2.85 0.00 40.96 2.24
2049 2110 8.917088 CACCAAAATGGATAAAAGGAGATGTAT 58.083 33.333 2.85 0.00 40.96 2.29
2050 2111 8.112822 TCACCAAAATGGATAAAAGGAGATGTA 58.887 33.333 2.85 0.00 40.96 2.29
2051 2112 6.953520 TCACCAAAATGGATAAAAGGAGATGT 59.046 34.615 2.85 0.00 40.96 3.06
2052 2113 7.093814 TGTCACCAAAATGGATAAAAGGAGATG 60.094 37.037 2.85 0.00 40.96 2.90
2053 2114 6.953520 TGTCACCAAAATGGATAAAAGGAGAT 59.046 34.615 2.85 0.00 40.96 2.75
2054 2115 6.310941 TGTCACCAAAATGGATAAAAGGAGA 58.689 36.000 2.85 0.00 40.96 3.71
2055 2116 6.588719 TGTCACCAAAATGGATAAAAGGAG 57.411 37.500 2.85 0.00 40.96 3.69
2056 2117 6.553100 ACTTGTCACCAAAATGGATAAAAGGA 59.447 34.615 2.85 0.00 40.96 3.36
2057 2118 6.758254 ACTTGTCACCAAAATGGATAAAAGG 58.242 36.000 2.85 0.00 40.96 3.11
2058 2119 9.927668 AATACTTGTCACCAAAATGGATAAAAG 57.072 29.630 2.85 4.20 40.96 2.27
2060 2121 9.921637 GAAATACTTGTCACCAAAATGGATAAA 57.078 29.630 2.85 0.00 40.96 1.40
2061 2122 8.527810 GGAAATACTTGTCACCAAAATGGATAA 58.472 33.333 2.85 0.00 40.96 1.75
2062 2123 7.671819 TGGAAATACTTGTCACCAAAATGGATA 59.328 33.333 2.85 0.00 40.96 2.59
2063 2124 6.496565 TGGAAATACTTGTCACCAAAATGGAT 59.503 34.615 2.85 0.00 40.96 3.41
2064 2125 5.835819 TGGAAATACTTGTCACCAAAATGGA 59.164 36.000 2.85 0.00 40.96 3.41
2065 2126 6.015519 TCTGGAAATACTTGTCACCAAAATGG 60.016 38.462 0.00 0.00 45.02 3.16
2066 2127 6.863126 GTCTGGAAATACTTGTCACCAAAATG 59.137 38.462 0.00 0.00 0.00 2.32
2067 2128 6.293955 CGTCTGGAAATACTTGTCACCAAAAT 60.294 38.462 0.00 0.00 0.00 1.82
2068 2129 5.008217 CGTCTGGAAATACTTGTCACCAAAA 59.992 40.000 0.00 0.00 0.00 2.44
2069 2130 4.513692 CGTCTGGAAATACTTGTCACCAAA 59.486 41.667 0.00 0.00 0.00 3.28
2070 2131 4.062293 CGTCTGGAAATACTTGTCACCAA 58.938 43.478 0.00 0.00 0.00 3.67
2071 2132 3.556213 CCGTCTGGAAATACTTGTCACCA 60.556 47.826 0.00 0.00 37.49 4.17
2072 2133 3.000727 CCGTCTGGAAATACTTGTCACC 58.999 50.000 0.00 0.00 37.49 4.02
2073 2134 3.921677 TCCGTCTGGAAATACTTGTCAC 58.078 45.455 0.00 0.00 42.85 3.67
2074 2135 3.056107 CCTCCGTCTGGAAATACTTGTCA 60.056 47.826 0.00 0.00 45.87 3.58
2075 2136 3.522553 CCTCCGTCTGGAAATACTTGTC 58.477 50.000 0.00 0.00 45.87 3.18
2076 2137 2.236395 CCCTCCGTCTGGAAATACTTGT 59.764 50.000 0.00 0.00 45.87 3.16
2077 2138 2.500098 TCCCTCCGTCTGGAAATACTTG 59.500 50.000 0.00 0.00 45.87 3.16
2078 2139 2.766828 CTCCCTCCGTCTGGAAATACTT 59.233 50.000 0.00 0.00 45.87 2.24
2079 2140 2.292323 ACTCCCTCCGTCTGGAAATACT 60.292 50.000 0.00 0.00 45.87 2.12
2080 2141 2.108970 ACTCCCTCCGTCTGGAAATAC 58.891 52.381 0.00 0.00 45.87 1.89
2081 2142 2.544844 ACTCCCTCCGTCTGGAAATA 57.455 50.000 0.00 0.00 45.87 1.40
2082 2143 2.544844 TACTCCCTCCGTCTGGAAAT 57.455 50.000 0.00 0.00 45.87 2.17
2083 2144 2.544844 ATACTCCCTCCGTCTGGAAA 57.455 50.000 0.00 0.00 45.87 3.13
2084 2145 3.203710 TCTTATACTCCCTCCGTCTGGAA 59.796 47.826 0.00 0.00 45.87 3.53
2085 2146 2.781757 TCTTATACTCCCTCCGTCTGGA 59.218 50.000 0.00 0.00 43.88 3.86
2086 2147 3.225177 TCTTATACTCCCTCCGTCTGG 57.775 52.381 0.00 0.00 0.00 3.86
2087 2148 4.645588 ACTTTCTTATACTCCCTCCGTCTG 59.354 45.833 0.00 0.00 0.00 3.51
2088 2149 4.869451 ACTTTCTTATACTCCCTCCGTCT 58.131 43.478 0.00 0.00 0.00 4.18
2089 2150 5.349809 CAACTTTCTTATACTCCCTCCGTC 58.650 45.833 0.00 0.00 0.00 4.79
2090 2151 4.382793 GCAACTTTCTTATACTCCCTCCGT 60.383 45.833 0.00 0.00 0.00 4.69
2091 2152 4.120589 GCAACTTTCTTATACTCCCTCCG 58.879 47.826 0.00 0.00 0.00 4.63
2092 2153 5.099042 TGCAACTTTCTTATACTCCCTCC 57.901 43.478 0.00 0.00 0.00 4.30
2093 2154 5.529060 CCATGCAACTTTCTTATACTCCCTC 59.471 44.000 0.00 0.00 0.00 4.30
2094 2155 5.440610 CCATGCAACTTTCTTATACTCCCT 58.559 41.667 0.00 0.00 0.00 4.20
2095 2156 4.036852 GCCATGCAACTTTCTTATACTCCC 59.963 45.833 0.00 0.00 0.00 4.30
2096 2157 4.884164 AGCCATGCAACTTTCTTATACTCC 59.116 41.667 0.00 0.00 0.00 3.85
2097 2158 6.442513 AAGCCATGCAACTTTCTTATACTC 57.557 37.500 0.00 0.00 0.00 2.59
2098 2159 7.938140 TTAAGCCATGCAACTTTCTTATACT 57.062 32.000 5.46 0.00 0.00 2.12
2099 2160 8.980143 TTTTAAGCCATGCAACTTTCTTATAC 57.020 30.769 5.46 0.00 0.00 1.47
2231 2295 6.441093 TTCATCTGTCTGTATGCAAATTCC 57.559 37.500 0.00 0.00 0.00 3.01
2355 2419 4.385310 GGGGTACACAAATAGATGAAGGCT 60.385 45.833 0.00 0.00 0.00 4.58
2717 3196 1.077716 GGGGGACAATCCAGGTTCG 60.078 63.158 0.00 0.00 38.64 3.95
2718 3197 0.631212 ATGGGGGACAATCCAGGTTC 59.369 55.000 0.00 0.00 38.64 3.62
2748 3237 6.440647 ACTTAGATCCATCTGTTGGTACTTCA 59.559 38.462 4.76 0.00 46.52 3.02
2836 3325 5.699458 GGTGAGACCAAAACTATTTCTCGAA 59.301 40.000 0.00 0.00 38.42 3.71
3027 3564 9.950496 ACTGTGGCTAGAATAATTAATATCCAG 57.050 33.333 0.00 0.00 0.00 3.86
3050 3587 9.981114 AAAGAAATAAAATAGTTGGGTTGACTG 57.019 29.630 0.00 0.00 0.00 3.51
3118 3656 5.860182 GCTCGTATACGCACCAATAGATAAA 59.140 40.000 20.42 0.00 39.60 1.40
3133 3671 0.101759 TGGCGTCCTTGCTCGTATAC 59.898 55.000 0.00 0.00 34.52 1.47
3185 3723 4.968719 TCATTTTACAGAGGGAGGCTGATA 59.031 41.667 0.00 0.00 36.86 2.15
3263 3804 1.269012 AGTCCCGATTTCCGTAACCA 58.731 50.000 0.00 0.00 36.31 3.67
3286 3827 3.003763 AGTCCCTCCGAACAGGCC 61.004 66.667 0.00 0.00 40.77 5.19
3287 3828 2.579738 GAGTCCCTCCGAACAGGC 59.420 66.667 0.00 0.00 40.77 4.85
3288 3829 3.300013 GGAGTCCCTCCGAACAGG 58.700 66.667 0.00 0.00 41.08 4.00
3295 3836 3.462678 GTGGAGCGGAGTCCCTCC 61.463 72.222 27.58 27.58 46.44 4.30
3296 3837 2.283529 TTGTGGAGCGGAGTCCCTC 61.284 63.158 15.66 15.66 35.49 4.30
3297 3838 2.203788 TTGTGGAGCGGAGTCCCT 60.204 61.111 2.80 1.32 35.49 4.20
3298 3839 2.047179 GTTGTGGAGCGGAGTCCC 60.047 66.667 2.80 0.00 35.49 4.46
3299 3840 1.079750 GAGTTGTGGAGCGGAGTCC 60.080 63.158 0.00 0.00 37.10 3.85
3300 3841 1.079750 GGAGTTGTGGAGCGGAGTC 60.080 63.158 0.00 0.00 0.00 3.36
3301 3842 1.837051 TGGAGTTGTGGAGCGGAGT 60.837 57.895 0.00 0.00 0.00 3.85
3302 3843 1.374758 GTGGAGTTGTGGAGCGGAG 60.375 63.158 0.00 0.00 0.00 4.63
3303 3844 1.407656 AAGTGGAGTTGTGGAGCGGA 61.408 55.000 0.00 0.00 0.00 5.54
3304 3845 1.071471 AAGTGGAGTTGTGGAGCGG 59.929 57.895 0.00 0.00 0.00 5.52
3305 3846 0.532862 ACAAGTGGAGTTGTGGAGCG 60.533 55.000 0.00 0.00 39.25 5.03
3306 3847 3.403936 ACAAGTGGAGTTGTGGAGC 57.596 52.632 0.00 0.00 39.25 4.70
3318 3859 0.604780 CTCCACCTGCTCCACAAGTG 60.605 60.000 0.00 0.00 39.94 3.16
3319 3860 1.757306 CTCCACCTGCTCCACAAGT 59.243 57.895 0.00 0.00 0.00 3.16
3320 3861 1.673665 GCTCCACCTGCTCCACAAG 60.674 63.158 0.00 0.00 0.00 3.16
3321 3862 2.431683 GCTCCACCTGCTCCACAA 59.568 61.111 0.00 0.00 0.00 3.33
3322 3863 3.640407 GGCTCCACCTGCTCCACA 61.640 66.667 0.00 0.00 34.51 4.17
3323 3864 4.767255 CGGCTCCACCTGCTCCAC 62.767 72.222 0.00 0.00 35.61 4.02
3325 3866 4.459089 GTCGGCTCCACCTGCTCC 62.459 72.222 0.00 0.00 35.61 4.70
3326 3867 4.459089 GGTCGGCTCCACCTGCTC 62.459 72.222 0.00 0.00 35.61 4.26
3331 3872 4.754667 GTTCGGGTCGGCTCCACC 62.755 72.222 0.00 0.00 0.00 4.61
3337 3878 4.685467 TTTCCCGTTCGGGTCGGC 62.685 66.667 26.30 0.00 45.71 5.54
3338 3879 2.739671 GTTTCCCGTTCGGGTCGG 60.740 66.667 26.30 6.53 45.43 4.79
3339 3880 1.735559 GAGTTTCCCGTTCGGGTCG 60.736 63.158 26.30 5.06 45.43 4.79
3340 3881 1.375140 GGAGTTTCCCGTTCGGGTC 60.375 63.158 26.30 17.37 45.43 4.46
3341 3882 1.486145 ATGGAGTTTCCCGTTCGGGT 61.486 55.000 26.30 10.18 45.43 5.28
3342 3883 1.024579 CATGGAGTTTCCCGTTCGGG 61.025 60.000 22.57 22.57 46.57 5.14
3343 3884 1.024579 CCATGGAGTTTCCCGTTCGG 61.025 60.000 5.56 4.08 35.03 4.30
3344 3885 0.036765 TCCATGGAGTTTCCCGTTCG 60.037 55.000 11.44 0.00 35.03 3.95
3345 3886 1.739067 CTCCATGGAGTTTCCCGTTC 58.261 55.000 30.55 0.00 35.03 3.95
3346 3887 3.957288 CTCCATGGAGTTTCCCGTT 57.043 52.632 30.55 0.00 35.03 4.44
3358 3899 3.129502 CACGCTGCCCACTCCATG 61.130 66.667 0.00 0.00 0.00 3.66
3359 3900 4.415150 CCACGCTGCCCACTCCAT 62.415 66.667 0.00 0.00 0.00 3.41
3361 3902 4.767255 CTCCACGCTGCCCACTCC 62.767 72.222 0.00 0.00 0.00 3.85
3373 3914 3.518998 TAGCTCGCTCCGCTCCAC 61.519 66.667 0.00 0.00 38.86 4.02
3374 3915 3.518998 GTAGCTCGCTCCGCTCCA 61.519 66.667 0.00 0.00 38.86 3.86
3375 3916 3.477224 CTGTAGCTCGCTCCGCTCC 62.477 68.421 0.00 0.00 38.86 4.70
3376 3917 2.025441 CTGTAGCTCGCTCCGCTC 59.975 66.667 0.00 0.00 38.86 5.03
3377 3918 3.522731 CCTGTAGCTCGCTCCGCT 61.523 66.667 0.00 0.00 41.35 5.52
3379 3920 3.764810 CTGCCTGTAGCTCGCTCCG 62.765 68.421 0.00 0.00 44.23 4.63
3380 3921 1.949847 TTCTGCCTGTAGCTCGCTCC 61.950 60.000 0.00 0.00 44.23 4.70
3381 3922 0.103937 ATTCTGCCTGTAGCTCGCTC 59.896 55.000 0.00 0.00 44.23 5.03
3382 3923 0.539051 AATTCTGCCTGTAGCTCGCT 59.461 50.000 0.00 0.00 44.23 4.93
3383 3924 0.933796 GAATTCTGCCTGTAGCTCGC 59.066 55.000 0.00 0.00 44.23 5.03
3384 3925 2.468831 GAGAATTCTGCCTGTAGCTCG 58.531 52.381 14.00 0.00 44.23 5.03
3385 3926 2.468831 CGAGAATTCTGCCTGTAGCTC 58.531 52.381 14.00 0.00 44.23 4.09
3386 3927 1.137872 CCGAGAATTCTGCCTGTAGCT 59.862 52.381 14.00 0.00 44.23 3.32
3387 3928 1.137086 TCCGAGAATTCTGCCTGTAGC 59.863 52.381 14.00 0.00 44.14 3.58
3388 3929 2.801342 GCTCCGAGAATTCTGCCTGTAG 60.801 54.545 14.00 2.96 0.00 2.74
3389 3930 1.137086 GCTCCGAGAATTCTGCCTGTA 59.863 52.381 14.00 0.00 0.00 2.74
3390 3931 0.107945 GCTCCGAGAATTCTGCCTGT 60.108 55.000 14.00 0.00 0.00 4.00
3391 3932 1.150567 CGCTCCGAGAATTCTGCCTG 61.151 60.000 14.00 1.92 0.00 4.85
3392 3933 1.142748 CGCTCCGAGAATTCTGCCT 59.857 57.895 14.00 0.00 0.00 4.75
3393 3934 1.141881 TCGCTCCGAGAATTCTGCC 59.858 57.895 14.00 0.00 0.00 4.85
3394 3935 4.814900 TCGCTCCGAGAATTCTGC 57.185 55.556 14.00 9.05 0.00 4.26
3403 3944 2.970639 CCACTTTCCTCGCTCCGA 59.029 61.111 0.00 0.00 0.00 4.55
3404 3945 2.815647 GCCACTTTCCTCGCTCCG 60.816 66.667 0.00 0.00 0.00 4.63
3405 3946 2.815647 CGCCACTTTCCTCGCTCC 60.816 66.667 0.00 0.00 0.00 4.70
3406 3947 3.491652 GCGCCACTTTCCTCGCTC 61.492 66.667 0.00 0.00 43.70 5.03
3408 3949 3.491652 GAGCGCCACTTTCCTCGC 61.492 66.667 2.29 0.00 46.95 5.03
3409 3950 2.815647 GGAGCGCCACTTTCCTCG 60.816 66.667 2.29 0.00 0.00 4.63
3410 3951 1.743252 CAGGAGCGCCACTTTCCTC 60.743 63.158 11.91 0.00 39.28 3.71
3411 3952 1.768684 TTCAGGAGCGCCACTTTCCT 61.769 55.000 9.88 9.22 41.97 3.36
3412 3953 0.889186 TTTCAGGAGCGCCACTTTCC 60.889 55.000 9.88 3.64 36.29 3.13
3413 3954 0.951558 TTTTCAGGAGCGCCACTTTC 59.048 50.000 9.88 0.00 36.29 2.62
3414 3955 1.270550 CATTTTCAGGAGCGCCACTTT 59.729 47.619 9.88 0.00 36.29 2.66
3415 3956 0.883833 CATTTTCAGGAGCGCCACTT 59.116 50.000 9.88 0.00 36.29 3.16
3416 3957 0.962356 CCATTTTCAGGAGCGCCACT 60.962 55.000 9.88 0.00 36.29 4.00
3417 3958 1.508088 CCATTTTCAGGAGCGCCAC 59.492 57.895 9.88 0.00 36.29 5.01
3418 3959 4.001248 CCATTTTCAGGAGCGCCA 57.999 55.556 9.88 0.00 36.29 5.69


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

AutoCloner maintained by Alex Coulton.