Multiple sequence alignment - TraesCS6D01G145000

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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 TraesCS6D01G145000 chr6D 100.000 2243 0 0 1 2243 115332051 115329809 0.000000e+00 4143.0
1 TraesCS6D01G145000 chr6D 89.474 95 10 0 2149 2243 370023638 370023732 1.090000e-23 121.0
2 TraesCS6D01G145000 chr6B 88.332 1637 90 36 1 1567 204662129 204660524 0.000000e+00 1871.0
3 TraesCS6D01G145000 chr6B 88.208 424 38 6 1641 2054 204660041 204659620 1.550000e-136 496.0
4 TraesCS6D01G145000 chr6B 91.176 102 9 0 2049 2150 219879345 219879446 3.000000e-29 139.0
5 TraesCS6D01G145000 chr6B 88.889 54 6 0 123 176 127312308 127312255 1.440000e-07 67.6
6 TraesCS6D01G145000 chr6A 92.765 1313 48 7 1 1269 143753807 143752498 0.000000e+00 1855.0
7 TraesCS6D01G145000 chr6A 88.673 309 29 3 1262 1567 143751928 143751623 2.720000e-99 372.0
8 TraesCS6D01G145000 chr6A 92.857 98 7 0 2053 2150 11165152 11165055 2.320000e-30 143.0
9 TraesCS6D01G145000 chr6A 89.474 95 10 0 2149 2243 155858433 155858527 1.090000e-23 121.0
10 TraesCS6D01G145000 chr4B 92.701 137 10 0 1 137 606310540 606310404 4.890000e-47 198.0
11 TraesCS6D01G145000 chr5D 92.929 99 7 0 2053 2151 565043188 565043090 6.460000e-31 145.0
12 TraesCS6D01G145000 chr5D 91.837 98 8 0 2053 2150 266749452 266749355 1.080000e-28 137.0
13 TraesCS6D01G145000 chr5D 88.235 51 6 0 126 176 108560223 108560173 6.690000e-06 62.1
14 TraesCS6D01G145000 chr3D 92.079 101 8 0 2053 2153 613073356 613073456 2.320000e-30 143.0
15 TraesCS6D01G145000 chr3D 88.421 95 11 0 2149 2243 308557509 308557415 5.060000e-22 115.0
16 TraesCS6D01G145000 chr7A 90.476 105 10 0 2053 2157 203965835 203965939 3.000000e-29 139.0
17 TraesCS6D01G145000 chr7A 93.023 43 3 0 126 168 660173383 660173425 1.860000e-06 63.9
18 TraesCS6D01G145000 chr2B 90.476 105 10 0 2046 2150 669438700 669438804 3.000000e-29 139.0
19 TraesCS6D01G145000 chr2B 97.368 38 1 0 79 116 11146085 11146122 5.170000e-07 65.8
20 TraesCS6D01G145000 chr2A 91.176 102 9 0 2049 2150 416627574 416627473 3.000000e-29 139.0
21 TraesCS6D01G145000 chr2A 88.679 53 6 0 124 176 78811450 78811502 5.170000e-07 65.8
22 TraesCS6D01G145000 chr2A 85.185 54 8 0 123 176 753260803 753260856 3.110000e-04 56.5
23 TraesCS6D01G145000 chr3A 90.385 104 10 0 2047 2150 287684680 287684783 1.080000e-28 137.0
24 TraesCS6D01G145000 chr7D 88.421 95 11 0 2149 2243 382029062 382028968 5.060000e-22 115.0
25 TraesCS6D01G145000 chr7B 88.421 95 11 0 2149 2243 716785741 716785835 5.060000e-22 115.0
26 TraesCS6D01G145000 chr7B 88.421 95 11 0 2149 2243 742947604 742947510 5.060000e-22 115.0
27 TraesCS6D01G145000 chr7B 89.583 48 4 1 123 169 708918118 708918071 2.410000e-05 60.2
28 TraesCS6D01G145000 chr4D 88.421 95 11 0 2149 2243 123351256 123351350 5.060000e-22 115.0
29 TraesCS6D01G145000 chr4D 88.462 52 6 0 125 176 268071174 268071225 1.860000e-06 63.9
30 TraesCS6D01G145000 chr2D 88.660 97 7 3 2149 2243 291679604 291679510 5.060000e-22 115.0
31 TraesCS6D01G145000 chr1D 88.421 95 11 0 2149 2243 269425630 269425536 5.060000e-22 115.0


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 TraesCS6D01G145000 chr6D 115329809 115332051 2242 True 4143.0 4143 100.000 1 2243 1 chr6D.!!$R1 2242
1 TraesCS6D01G145000 chr6B 204659620 204662129 2509 True 1183.5 1871 88.270 1 2054 2 chr6B.!!$R2 2053
2 TraesCS6D01G145000 chr6A 143751623 143753807 2184 True 1113.5 1855 90.719 1 1567 2 chr6A.!!$R2 1566

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
217 240 0.320073 TTGCGACAAGTAGTTCGGGG 60.32 55.0 0.0 0.0 0.0 5.73 F
580 647 0.809636 TATTGTGTGCATCCTCGCCG 60.81 55.0 0.0 0.0 0.0 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1173 1272 0.250295 CTTTCCTTGTCGTCCCTGCA 60.250 55.0 0.0 0.0 0.00 4.41 R
1662 2752 0.321653 AAAGTGTGGAGTGCCGATCC 60.322 55.0 0.0 0.0 36.79 3.36 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
25 26 6.690194 AGGAAAGATATTGATTGCACACTC 57.310 37.500 0.00 0.00 0.00 3.51
138 139 8.773033 TTAGGTAGAATATACTCCCTTCGTTT 57.227 34.615 0.00 0.00 29.32 3.60
180 181 9.226606 TGATTTAATACAAAGTTGTACTCCCTG 57.773 33.333 6.05 0.00 45.47 4.45
217 240 0.320073 TTGCGACAAGTAGTTCGGGG 60.320 55.000 0.00 0.00 0.00 5.73
270 294 3.118408 CGGACACTTATTTGGATGGAGGA 60.118 47.826 0.00 0.00 0.00 3.71
390 434 3.621268 GGTATAAGCATGTTGAACGCTCA 59.379 43.478 0.00 0.00 34.11 4.26
403 447 3.252944 TGAACGCTCATCATTGAAGCAAA 59.747 39.130 10.19 0.00 0.00 3.68
462 506 1.838077 AGTTGGATCTACCCCTTTCGG 59.162 52.381 0.00 0.00 38.00 4.30
580 647 0.809636 TATTGTGTGCATCCTCGCCG 60.810 55.000 0.00 0.00 0.00 6.46
818 914 1.881973 CAACAAGTAGTGGCACAGCAT 59.118 47.619 21.41 0.74 41.80 3.79
963 1059 4.785453 GCAGGAAGCAGGGTCCGG 62.785 72.222 0.00 0.00 44.79 5.14
1053 1152 4.137872 GTAGTGCAGGCCGCCGTA 62.138 66.667 15.40 5.73 41.33 4.02
1093 1192 2.101415 TCCACGATGTCTAAGCCATCAG 59.899 50.000 0.00 0.00 38.90 2.90
1361 2042 8.926715 AGAAAAACCATTTCTAAGTTGTTGTC 57.073 30.769 1.78 0.00 37.03 3.18
1390 2071 9.367444 TGTTAAAGCTAGCTTACAGAATACTTC 57.633 33.333 29.52 10.66 34.84 3.01
1428 2109 6.183360 TGTCTTGTCAATTTGAACATCGACAA 60.183 34.615 18.52 0.00 40.12 3.18
1471 2152 4.098044 TGAAGGCTTTGTCTAGGAGTATCG 59.902 45.833 0.00 0.00 34.37 2.92
1478 2159 7.255381 GGCTTTGTCTAGGAGTATCGTATTACA 60.255 40.741 0.00 0.00 34.64 2.41
1481 2162 9.836864 TTTGTCTAGGAGTATCGTATTACAGTA 57.163 33.333 0.00 0.00 34.75 2.74
1493 2174 5.481732 GTATTACAGTACGATCGCATGTG 57.518 43.478 23.06 15.17 0.00 3.21
1536 2217 1.261619 CGCGAGGTAGATCCAATTTGC 59.738 52.381 0.00 0.00 39.02 3.68
1538 2219 2.682856 GCGAGGTAGATCCAATTTGCAA 59.317 45.455 0.00 0.00 39.02 4.08
1541 2222 4.396166 CGAGGTAGATCCAATTTGCAAGTT 59.604 41.667 0.65 0.65 39.02 2.66
1559 2240 7.140705 TGCAAGTTGATATTGAACTTTGTCTG 58.859 34.615 7.16 3.40 40.83 3.51
1567 2248 8.886719 TGATATTGAACTTTGTCTGACATCATC 58.113 33.333 11.86 7.58 0.00 2.92
1568 2249 9.107177 GATATTGAACTTTGTCTGACATCATCT 57.893 33.333 11.86 5.83 0.00 2.90
1569 2250 6.549912 TTGAACTTTGTCTGACATCATCTG 57.450 37.500 11.86 1.75 0.00 2.90
1571 2252 5.930569 TGAACTTTGTCTGACATCATCTGAG 59.069 40.000 11.86 4.39 36.08 3.35
1572 2253 5.480642 ACTTTGTCTGACATCATCTGAGT 57.519 39.130 11.86 4.94 36.08 3.41
1573 2254 5.236282 ACTTTGTCTGACATCATCTGAGTG 58.764 41.667 11.86 0.00 36.08 3.51
1577 2258 4.082354 TGTCTGACATCATCTGAGTGTCTG 60.082 45.833 6.36 15.74 42.03 3.51
1578 2259 4.082300 GTCTGACATCATCTGAGTGTCTGT 60.082 45.833 16.41 4.53 42.03 3.41
1579 2260 4.082354 TCTGACATCATCTGAGTGTCTGTG 60.082 45.833 16.41 9.95 42.03 3.66
1580 2261 3.828451 TGACATCATCTGAGTGTCTGTGA 59.172 43.478 16.41 1.09 42.03 3.58
1586 2267 3.448093 TCTGAGTGTCTGTGAGAGGAT 57.552 47.619 0.00 0.00 0.00 3.24
1587 2268 3.351740 TCTGAGTGTCTGTGAGAGGATC 58.648 50.000 0.00 0.00 0.00 3.36
1588 2269 3.087781 CTGAGTGTCTGTGAGAGGATCA 58.912 50.000 0.00 0.00 37.82 2.92
1589 2270 3.700539 CTGAGTGTCTGTGAGAGGATCAT 59.299 47.826 0.00 0.00 40.92 2.45
1590 2271 3.698539 TGAGTGTCTGTGAGAGGATCATC 59.301 47.826 0.00 0.00 40.92 2.92
1591 2272 3.953612 GAGTGTCTGTGAGAGGATCATCT 59.046 47.826 10.17 10.17 40.92 2.90
1595 2276 2.023598 TCTGTGAGAGGATCATCTGGGT 60.024 50.000 15.84 0.00 40.92 4.51
1596 2277 2.102757 CTGTGAGAGGATCATCTGGGTG 59.897 54.545 15.84 0.00 40.92 4.61
1597 2278 2.292455 TGTGAGAGGATCATCTGGGTGA 60.292 50.000 15.84 0.00 40.92 4.02
1598 2279 2.768527 GTGAGAGGATCATCTGGGTGAA 59.231 50.000 15.84 0.00 40.92 3.18
1599 2280 3.198635 GTGAGAGGATCATCTGGGTGAAA 59.801 47.826 15.84 0.00 40.92 2.69
1600 2281 3.845992 TGAGAGGATCATCTGGGTGAAAA 59.154 43.478 15.84 0.00 37.82 2.29
1601 2282 4.289410 TGAGAGGATCATCTGGGTGAAAAA 59.711 41.667 15.84 0.00 37.82 1.94
1677 2767 2.659063 CCAGGATCGGCACTCCACA 61.659 63.158 5.26 0.00 35.08 4.17
1680 2770 1.194781 AGGATCGGCACTCCACACTT 61.195 55.000 5.26 0.00 35.08 3.16
1682 2772 0.798776 GATCGGCACTCCACACTTTG 59.201 55.000 0.00 0.00 0.00 2.77
1755 2853 2.558359 CGACAATTTTTCAAGGAGGCCT 59.442 45.455 3.86 3.86 33.87 5.19
1772 2870 2.693074 GGCCTGGTTCTTTTTCTTGTCA 59.307 45.455 0.00 0.00 0.00 3.58
1781 2879 7.280205 TGGTTCTTTTTCTTGTCAGTCTAAGTC 59.720 37.037 0.00 0.00 0.00 3.01
1782 2880 7.338462 GTTCTTTTTCTTGTCAGTCTAAGTCG 58.662 38.462 0.00 0.00 0.00 4.18
1793 2891 5.401674 GTCAGTCTAAGTCGTTTTGTGGTAG 59.598 44.000 0.00 0.00 0.00 3.18
1798 2896 0.589708 GTCGTTTTGTGGTAGGGTGC 59.410 55.000 0.00 0.00 0.00 5.01
1817 2915 5.221185 GGGTGCGACTACACATCTATTTCTA 60.221 44.000 0.00 0.00 42.55 2.10
1851 2949 2.180276 TCTGCTTTGTAGGAGGGTCTC 58.820 52.381 0.00 0.00 40.04 3.36
1882 2980 6.040209 TCTTGCATCAATTTGGCTATGTTT 57.960 33.333 0.00 0.00 0.00 2.83
1910 3009 6.966637 ATATATGAAATGAGGAGGAAGCCT 57.033 37.500 0.00 0.00 42.17 4.58
1949 3049 4.098960 GGATTGCAAGATTGACCACATGAT 59.901 41.667 4.94 0.00 0.00 2.45
1964 3064 4.439700 CCACATGATAGAGCAAAAGCAAGG 60.440 45.833 0.00 0.00 0.00 3.61
1965 3065 4.157289 CACATGATAGAGCAAAAGCAAGGT 59.843 41.667 0.00 0.00 0.00 3.50
1983 3083 1.534175 GGTCGCTGATCTAACTCACCG 60.534 57.143 0.00 0.00 0.00 4.94
1991 3091 3.384789 TGATCTAACTCACCGGGATCTTG 59.615 47.826 6.32 0.00 35.30 3.02
1993 3093 3.024547 TCTAACTCACCGGGATCTTGAG 58.975 50.000 15.46 15.46 42.17 3.02
1994 3094 1.938585 AACTCACCGGGATCTTGAGA 58.061 50.000 22.01 0.14 39.36 3.27
2000 3100 4.030913 TCACCGGGATCTTGAGACTTTAT 58.969 43.478 6.32 0.00 0.00 1.40
2014 3114 3.370061 AGACTTTATGTTAAACTCGGCGC 59.630 43.478 0.00 0.00 0.00 6.53
2015 3115 2.417586 ACTTTATGTTAAACTCGGCGCC 59.582 45.455 19.07 19.07 0.00 6.53
2019 3119 1.240256 TGTTAAACTCGGCGCCAAAT 58.760 45.000 28.98 7.48 0.00 2.32
2022 3122 1.524848 TAAACTCGGCGCCAAATCAA 58.475 45.000 28.98 4.06 0.00 2.57
2056 3156 8.986477 AAACATCATTGGCTAAACAATTACTC 57.014 30.769 0.00 0.00 38.94 2.59
2057 3157 7.100458 ACATCATTGGCTAAACAATTACTCC 57.900 36.000 0.00 0.00 38.94 3.85
2058 3158 6.096846 ACATCATTGGCTAAACAATTACTCCC 59.903 38.462 0.00 0.00 38.94 4.30
2059 3159 5.826643 TCATTGGCTAAACAATTACTCCCT 58.173 37.500 0.00 0.00 38.94 4.20
2060 3160 5.885912 TCATTGGCTAAACAATTACTCCCTC 59.114 40.000 0.00 0.00 38.94 4.30
2061 3161 4.230745 TGGCTAAACAATTACTCCCTCC 57.769 45.455 0.00 0.00 0.00 4.30
2062 3162 3.203716 GGCTAAACAATTACTCCCTCCG 58.796 50.000 0.00 0.00 0.00 4.63
2063 3163 3.370209 GGCTAAACAATTACTCCCTCCGT 60.370 47.826 0.00 0.00 0.00 4.69
2064 3164 3.869832 GCTAAACAATTACTCCCTCCGTC 59.130 47.826 0.00 0.00 0.00 4.79
2065 3165 3.345508 AAACAATTACTCCCTCCGTCC 57.654 47.619 0.00 0.00 0.00 4.79
2066 3166 1.201424 ACAATTACTCCCTCCGTCCC 58.799 55.000 0.00 0.00 0.00 4.46
2067 3167 1.200519 CAATTACTCCCTCCGTCCCA 58.799 55.000 0.00 0.00 0.00 4.37
2068 3168 1.557832 CAATTACTCCCTCCGTCCCAA 59.442 52.381 0.00 0.00 0.00 4.12
2069 3169 1.961133 ATTACTCCCTCCGTCCCAAA 58.039 50.000 0.00 0.00 0.00 3.28
2070 3170 1.732117 TTACTCCCTCCGTCCCAAAA 58.268 50.000 0.00 0.00 0.00 2.44
2071 3171 1.961133 TACTCCCTCCGTCCCAAAAT 58.039 50.000 0.00 0.00 0.00 1.82
2072 3172 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
2073 3173 2.271777 ACTCCCTCCGTCCCAAAATAA 58.728 47.619 0.00 0.00 0.00 1.40
2074 3174 2.238898 ACTCCCTCCGTCCCAAAATAAG 59.761 50.000 0.00 0.00 0.00 1.73
2075 3175 2.238898 CTCCCTCCGTCCCAAAATAAGT 59.761 50.000 0.00 0.00 0.00 2.24
2076 3176 2.026636 TCCCTCCGTCCCAAAATAAGTG 60.027 50.000 0.00 0.00 0.00 3.16
2077 3177 2.026636 CCCTCCGTCCCAAAATAAGTGA 60.027 50.000 0.00 0.00 0.00 3.41
2078 3178 3.007635 CCTCCGTCCCAAAATAAGTGAC 58.992 50.000 0.00 0.00 0.00 3.67
2079 3179 3.307480 CCTCCGTCCCAAAATAAGTGACT 60.307 47.826 0.00 0.00 0.00 3.41
2080 3180 3.933332 CTCCGTCCCAAAATAAGTGACTC 59.067 47.826 0.00 0.00 0.00 3.36
2081 3181 3.325425 TCCGTCCCAAAATAAGTGACTCA 59.675 43.478 0.00 0.00 0.00 3.41
2082 3182 4.069304 CCGTCCCAAAATAAGTGACTCAA 58.931 43.478 0.00 0.00 0.00 3.02
2083 3183 4.517453 CCGTCCCAAAATAAGTGACTCAAA 59.483 41.667 0.00 0.00 0.00 2.69
2084 3184 5.449304 CGTCCCAAAATAAGTGACTCAAAC 58.551 41.667 0.00 0.00 0.00 2.93
2085 3185 5.238650 CGTCCCAAAATAAGTGACTCAAACT 59.761 40.000 0.00 0.00 0.00 2.66
2086 3186 6.238648 CGTCCCAAAATAAGTGACTCAAACTT 60.239 38.462 0.00 0.00 40.82 2.66
2087 3187 6.918022 GTCCCAAAATAAGTGACTCAAACTTG 59.082 38.462 0.00 0.00 38.32 3.16
2088 3188 6.605594 TCCCAAAATAAGTGACTCAAACTTGT 59.394 34.615 0.00 0.00 38.32 3.16
2089 3189 7.776030 TCCCAAAATAAGTGACTCAAACTTGTA 59.224 33.333 0.00 0.00 38.32 2.41
2090 3190 7.860872 CCCAAAATAAGTGACTCAAACTTGTAC 59.139 37.037 0.00 0.00 38.32 2.90
2091 3191 8.621286 CCAAAATAAGTGACTCAAACTTGTACT 58.379 33.333 0.00 0.00 38.32 2.73
2094 3194 8.535690 AATAAGTGACTCAAACTTGTACTAGC 57.464 34.615 4.10 0.00 38.32 3.42
2095 3195 5.793030 AGTGACTCAAACTTGTACTAGCT 57.207 39.130 4.10 0.00 0.00 3.32
2096 3196 6.163135 AGTGACTCAAACTTGTACTAGCTT 57.837 37.500 4.10 0.00 0.00 3.74
2097 3197 6.583562 AGTGACTCAAACTTGTACTAGCTTT 58.416 36.000 4.10 2.45 0.00 3.51
2098 3198 7.723324 AGTGACTCAAACTTGTACTAGCTTTA 58.277 34.615 4.10 0.00 0.00 1.85
2099 3199 7.652507 AGTGACTCAAACTTGTACTAGCTTTAC 59.347 37.037 4.10 0.00 0.00 2.01
2100 3200 7.652507 GTGACTCAAACTTGTACTAGCTTTACT 59.347 37.037 4.10 0.00 0.00 2.24
2101 3201 8.853126 TGACTCAAACTTGTACTAGCTTTACTA 58.147 33.333 4.10 0.00 0.00 1.82
2102 3202 9.127006 GACTCAAACTTGTACTAGCTTTACTAC 57.873 37.037 4.10 0.00 0.00 2.73
2103 3203 8.636213 ACTCAAACTTGTACTAGCTTTACTACA 58.364 33.333 4.10 0.00 0.00 2.74
2104 3204 9.472361 CTCAAACTTGTACTAGCTTTACTACAA 57.528 33.333 4.10 0.00 0.00 2.41
2105 3205 9.820725 TCAAACTTGTACTAGCTTTACTACAAA 57.179 29.630 4.10 0.00 30.63 2.83
2107 3207 9.828039 AAACTTGTACTAGCTTTACTACAAAGT 57.172 29.630 4.10 0.00 39.91 2.66
2108 3208 9.828039 AACTTGTACTAGCTTTACTACAAAGTT 57.172 29.630 4.10 3.91 37.15 2.66
2118 3218 9.828039 AGCTTTACTACAAAGTTAGTACAAGTT 57.172 29.630 0.00 0.00 37.15 2.66
2124 3224 9.310716 ACTACAAAGTTAGTACAAGTTTGAGTC 57.689 33.333 27.03 0.00 40.96 3.36
2125 3225 9.309516 CTACAAAGTTAGTACAAGTTTGAGTCA 57.690 33.333 27.03 16.16 40.96 3.41
2126 3226 7.971455 ACAAAGTTAGTACAAGTTTGAGTCAC 58.029 34.615 27.03 0.00 40.96 3.67
2127 3227 7.822822 ACAAAGTTAGTACAAGTTTGAGTCACT 59.177 33.333 27.03 13.05 40.96 3.41
2128 3228 8.665685 CAAAGTTAGTACAAGTTTGAGTCACTT 58.334 33.333 21.39 0.00 40.96 3.16
2129 3229 9.880157 AAAGTTAGTACAAGTTTGAGTCACTTA 57.120 29.630 0.00 0.00 32.48 2.24
2135 3235 9.391006 AGTACAAGTTTGAGTCACTTATTTTGA 57.609 29.630 0.00 0.00 32.48 2.69
2136 3236 9.997482 GTACAAGTTTGAGTCACTTATTTTGAA 57.003 29.630 0.00 0.00 32.48 2.69
2138 3238 9.353999 ACAAGTTTGAGTCACTTATTTTGAAAC 57.646 29.630 0.00 0.00 32.48 2.78
2139 3239 8.523464 CAAGTTTGAGTCACTTATTTTGAAACG 58.477 33.333 0.00 0.00 32.48 3.60
2140 3240 7.193595 AGTTTGAGTCACTTATTTTGAAACGG 58.806 34.615 0.00 0.00 0.00 4.44
2141 3241 6.928979 TTGAGTCACTTATTTTGAAACGGA 57.071 33.333 0.00 0.00 0.00 4.69
2142 3242 7.504924 TTGAGTCACTTATTTTGAAACGGAT 57.495 32.000 0.00 0.00 0.00 4.18
2143 3243 6.898041 TGAGTCACTTATTTTGAAACGGATG 58.102 36.000 0.00 0.00 0.00 3.51
2144 3244 6.072728 TGAGTCACTTATTTTGAAACGGATGG 60.073 38.462 0.00 0.00 0.00 3.51
2145 3245 6.001460 AGTCACTTATTTTGAAACGGATGGA 58.999 36.000 0.00 0.00 0.00 3.41
2146 3246 6.149474 AGTCACTTATTTTGAAACGGATGGAG 59.851 38.462 0.00 0.00 0.00 3.86
2147 3247 6.001460 TCACTTATTTTGAAACGGATGGAGT 58.999 36.000 0.00 0.00 0.00 3.85
2148 3248 7.118680 GTCACTTATTTTGAAACGGATGGAGTA 59.881 37.037 0.00 0.00 0.00 2.59
2149 3249 7.827236 TCACTTATTTTGAAACGGATGGAGTAT 59.173 33.333 0.00 0.00 0.00 2.12
2150 3250 8.458843 CACTTATTTTGAAACGGATGGAGTATT 58.541 33.333 0.00 0.00 0.00 1.89
2151 3251 9.020731 ACTTATTTTGAAACGGATGGAGTATTT 57.979 29.630 0.00 0.00 0.00 1.40
2152 3252 9.289303 CTTATTTTGAAACGGATGGAGTATTTG 57.711 33.333 0.00 0.00 0.00 2.32
2153 3253 5.637006 TTTGAAACGGATGGAGTATTTGG 57.363 39.130 0.00 0.00 0.00 3.28
2154 3254 4.295141 TGAAACGGATGGAGTATTTGGT 57.705 40.909 0.00 0.00 0.00 3.67
2155 3255 4.658063 TGAAACGGATGGAGTATTTGGTT 58.342 39.130 0.00 0.00 0.00 3.67
2156 3256 5.806818 TGAAACGGATGGAGTATTTGGTTA 58.193 37.500 0.00 0.00 0.00 2.85
2157 3257 6.419791 TGAAACGGATGGAGTATTTGGTTAT 58.580 36.000 0.00 0.00 0.00 1.89
2158 3258 6.317642 TGAAACGGATGGAGTATTTGGTTATG 59.682 38.462 0.00 0.00 0.00 1.90
2159 3259 4.134563 ACGGATGGAGTATTTGGTTATGC 58.865 43.478 0.00 0.00 0.00 3.14
2160 3260 3.502211 CGGATGGAGTATTTGGTTATGCC 59.498 47.826 0.00 0.00 37.90 4.40
2178 3278 2.375173 CCATTTTGGGCTTTGCTCTC 57.625 50.000 0.00 0.00 32.67 3.20
2179 3279 1.619827 CCATTTTGGGCTTTGCTCTCA 59.380 47.619 0.00 0.00 32.67 3.27
2180 3280 2.611224 CCATTTTGGGCTTTGCTCTCAC 60.611 50.000 0.00 0.00 32.67 3.51
2181 3281 2.071778 TTTTGGGCTTTGCTCTCACT 57.928 45.000 0.00 0.00 0.00 3.41
2182 3282 1.321474 TTTGGGCTTTGCTCTCACTG 58.679 50.000 0.00 0.00 0.00 3.66
2183 3283 0.473755 TTGGGCTTTGCTCTCACTGA 59.526 50.000 0.00 0.00 0.00 3.41
2184 3284 0.473755 TGGGCTTTGCTCTCACTGAA 59.526 50.000 0.00 0.00 0.00 3.02
2185 3285 1.163554 GGGCTTTGCTCTCACTGAAG 58.836 55.000 0.00 0.00 0.00 3.02
2186 3286 0.520847 GGCTTTGCTCTCACTGAAGC 59.479 55.000 0.00 0.00 41.37 3.86
2187 3287 1.521580 GCTTTGCTCTCACTGAAGCT 58.478 50.000 11.87 0.00 39.56 3.74
2188 3288 2.613977 GGCTTTGCTCTCACTGAAGCTA 60.614 50.000 6.38 4.85 41.70 3.32
2189 3289 3.269178 GCTTTGCTCTCACTGAAGCTAT 58.731 45.455 11.87 0.00 39.56 2.97
2190 3290 3.688673 GCTTTGCTCTCACTGAAGCTATT 59.311 43.478 11.87 0.00 39.56 1.73
2191 3291 4.437121 GCTTTGCTCTCACTGAAGCTATTG 60.437 45.833 11.87 0.00 39.56 1.90
2192 3292 2.625737 TGCTCTCACTGAAGCTATTGC 58.374 47.619 11.87 0.00 40.05 3.56
2193 3293 2.027837 TGCTCTCACTGAAGCTATTGCA 60.028 45.455 1.12 0.00 42.74 4.08
2194 3294 3.204526 GCTCTCACTGAAGCTATTGCAT 58.795 45.455 1.12 0.00 42.74 3.96
2195 3295 3.626670 GCTCTCACTGAAGCTATTGCATT 59.373 43.478 1.12 0.00 42.74 3.56
2196 3296 4.496010 GCTCTCACTGAAGCTATTGCATTG 60.496 45.833 1.12 0.00 42.74 2.82
2197 3297 4.582869 TCTCACTGAAGCTATTGCATTGT 58.417 39.130 1.12 0.00 42.74 2.71
2198 3298 5.005740 TCTCACTGAAGCTATTGCATTGTT 58.994 37.500 1.12 0.00 42.74 2.83
2199 3299 5.474532 TCTCACTGAAGCTATTGCATTGTTT 59.525 36.000 1.12 0.00 42.74 2.83
2200 3300 5.463286 TCACTGAAGCTATTGCATTGTTTG 58.537 37.500 1.12 0.00 42.74 2.93
2212 3312 3.852286 GCATTGTTTGCCTCATTGATGA 58.148 40.909 0.00 0.00 46.15 2.92
2213 3313 4.247258 GCATTGTTTGCCTCATTGATGAA 58.753 39.130 0.00 0.00 46.15 2.57
2214 3314 4.873827 GCATTGTTTGCCTCATTGATGAAT 59.126 37.500 0.00 0.00 46.15 2.57
2215 3315 5.353123 GCATTGTTTGCCTCATTGATGAATT 59.647 36.000 0.00 0.00 46.15 2.17
2216 3316 6.456449 GCATTGTTTGCCTCATTGATGAATTC 60.456 38.462 0.00 0.00 46.15 2.17
2217 3317 5.988310 TGTTTGCCTCATTGATGAATTCT 57.012 34.783 7.05 0.00 36.18 2.40
2218 3318 6.349243 TGTTTGCCTCATTGATGAATTCTT 57.651 33.333 7.05 0.00 36.18 2.52
2219 3319 6.761312 TGTTTGCCTCATTGATGAATTCTTT 58.239 32.000 7.05 0.00 36.18 2.52
2220 3320 6.647481 TGTTTGCCTCATTGATGAATTCTTTG 59.353 34.615 7.05 0.00 36.18 2.77
2221 3321 5.333299 TGCCTCATTGATGAATTCTTTGG 57.667 39.130 7.05 0.00 36.18 3.28
2222 3322 4.773674 TGCCTCATTGATGAATTCTTTGGT 59.226 37.500 7.05 0.00 36.18 3.67
2223 3323 5.105635 TGCCTCATTGATGAATTCTTTGGTC 60.106 40.000 7.05 0.00 36.18 4.02
2224 3324 5.126707 GCCTCATTGATGAATTCTTTGGTCT 59.873 40.000 7.05 0.00 36.18 3.85
2225 3325 6.350780 GCCTCATTGATGAATTCTTTGGTCTT 60.351 38.462 7.05 0.00 36.18 3.01
2226 3326 7.148018 GCCTCATTGATGAATTCTTTGGTCTTA 60.148 37.037 7.05 0.00 36.18 2.10
2227 3327 8.910944 CCTCATTGATGAATTCTTTGGTCTTAT 58.089 33.333 7.05 0.00 36.18 1.73
2228 3328 9.947669 CTCATTGATGAATTCTTTGGTCTTATC 57.052 33.333 7.05 0.00 36.18 1.75
2229 3329 8.906867 TCATTGATGAATTCTTTGGTCTTATCC 58.093 33.333 7.05 0.00 33.08 2.59
2230 3330 6.925610 TGATGAATTCTTTGGTCTTATCCG 57.074 37.500 7.05 0.00 0.00 4.18
2231 3331 6.414732 TGATGAATTCTTTGGTCTTATCCGT 58.585 36.000 7.05 0.00 0.00 4.69
2232 3332 6.884295 TGATGAATTCTTTGGTCTTATCCGTT 59.116 34.615 7.05 0.00 0.00 4.44
2233 3333 7.393234 TGATGAATTCTTTGGTCTTATCCGTTT 59.607 33.333 7.05 0.00 0.00 3.60
2234 3334 7.519032 TGAATTCTTTGGTCTTATCCGTTTT 57.481 32.000 7.05 0.00 0.00 2.43
2235 3335 7.590279 TGAATTCTTTGGTCTTATCCGTTTTC 58.410 34.615 7.05 0.00 0.00 2.29
2236 3336 5.952526 TTCTTTGGTCTTATCCGTTTTCC 57.047 39.130 0.00 0.00 0.00 3.13
2237 3337 3.998341 TCTTTGGTCTTATCCGTTTTCCG 59.002 43.478 0.00 0.00 0.00 4.30
2238 3338 3.681593 TTGGTCTTATCCGTTTTCCGA 57.318 42.857 0.00 0.00 39.56 4.55
2239 3339 3.899052 TGGTCTTATCCGTTTTCCGAT 57.101 42.857 0.00 0.00 39.56 4.18
2240 3340 3.788937 TGGTCTTATCCGTTTTCCGATC 58.211 45.455 0.00 0.00 39.56 3.69
2241 3341 2.793232 GGTCTTATCCGTTTTCCGATCG 59.207 50.000 8.51 8.51 39.56 3.69
2242 3342 2.218075 GTCTTATCCGTTTTCCGATCGC 59.782 50.000 10.32 0.00 39.56 4.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
180 181 3.174375 GCAATCCATTTCTTCGACAAGC 58.826 45.455 0.00 0.00 0.00 4.01
217 240 0.036294 AAAGTTAGCACTCCCTCCGC 60.036 55.000 0.00 0.00 30.45 5.54
375 419 2.838386 ATGATGAGCGTTCAACATGC 57.162 45.000 21.14 3.94 42.93 4.06
403 447 7.944729 ATTCATGTCAATTTAGCAACCTAGT 57.055 32.000 0.00 0.00 0.00 2.57
580 647 3.646637 AGGCCCATATACCAGTCTAACAC 59.353 47.826 0.00 0.00 0.00 3.32
717 813 2.357952 AGAGGTGCCAAACGTTTCTTTC 59.642 45.455 11.37 3.80 0.00 2.62
818 914 3.320826 TCGCTACTTAAGGCATGAGCATA 59.679 43.478 7.53 0.00 44.61 3.14
963 1059 1.795286 CAGTTCACTTCTTCGACCAGC 59.205 52.381 0.00 0.00 0.00 4.85
1173 1272 0.250295 CTTTCCTTGTCGTCCCTGCA 60.250 55.000 0.00 0.00 0.00 4.41
1185 1284 1.909302 TCATCCTTCTCCGCTTTCCTT 59.091 47.619 0.00 0.00 0.00 3.36
1361 2042 9.974750 GTATTCTGTAAGCTAGCTTTAACAAAG 57.025 33.333 33.50 19.90 41.46 2.77
1402 2083 5.848036 GTCGATGTTCAAATTGACAAGACAG 59.152 40.000 19.13 5.97 39.73 3.51
1417 2098 5.258685 TCATTGTACGTTTGTCGATGTTC 57.741 39.130 0.00 0.00 42.86 3.18
1471 2152 4.381863 CCACATGCGATCGTACTGTAATAC 59.618 45.833 17.81 0.00 0.00 1.89
1478 2159 1.337071 CCTACCACATGCGATCGTACT 59.663 52.381 17.81 0.00 0.00 2.73
1481 2162 1.327690 ACCCTACCACATGCGATCGT 61.328 55.000 17.81 0.00 0.00 3.73
1493 2174 1.703513 AGGACCTTCACAAACCCTACC 59.296 52.381 0.00 0.00 0.00 3.18
1536 2217 8.344831 TGTCAGACAAAGTTCAATATCAACTTG 58.655 33.333 0.00 9.23 42.14 3.16
1538 2219 8.627208 ATGTCAGACAAAGTTCAATATCAACT 57.373 30.769 7.50 0.00 35.51 3.16
1541 2222 8.797350 ATGATGTCAGACAAAGTTCAATATCA 57.203 30.769 7.50 3.03 0.00 2.15
1559 2240 4.157472 TCTCACAGACACTCAGATGATGTC 59.843 45.833 13.16 13.16 42.54 3.06
1567 2248 3.087781 TGATCCTCTCACAGACACTCAG 58.912 50.000 0.00 0.00 0.00 3.35
1568 2249 3.160679 TGATCCTCTCACAGACACTCA 57.839 47.619 0.00 0.00 0.00 3.41
1569 2250 3.953612 AGATGATCCTCTCACAGACACTC 59.046 47.826 0.00 0.00 36.48 3.51
1571 2252 3.181477 CCAGATGATCCTCTCACAGACAC 60.181 52.174 0.00 0.00 36.48 3.67
1572 2253 3.029570 CCAGATGATCCTCTCACAGACA 58.970 50.000 0.00 0.00 36.48 3.41
1573 2254 2.364970 CCCAGATGATCCTCTCACAGAC 59.635 54.545 0.00 0.00 36.48 3.51
1577 2258 2.392662 TCACCCAGATGATCCTCTCAC 58.607 52.381 0.00 0.00 36.48 3.51
1578 2259 2.854736 TCACCCAGATGATCCTCTCA 57.145 50.000 0.00 0.00 38.53 3.27
1579 2260 4.494091 TTTTCACCCAGATGATCCTCTC 57.506 45.455 0.00 0.00 0.00 3.20
1580 2261 4.934797 TTTTTCACCCAGATGATCCTCT 57.065 40.909 0.00 0.00 0.00 3.69
1614 2295 9.747898 ACTCAATTGGTAAATATCAACTTGGTA 57.252 29.630 5.42 0.00 0.00 3.25
1616 2297 8.739039 TCACTCAATTGGTAAATATCAACTTGG 58.261 33.333 5.42 0.00 0.00 3.61
1617 2298 9.778993 CTCACTCAATTGGTAAATATCAACTTG 57.221 33.333 5.42 0.00 0.00 3.16
1620 2301 7.761409 TGCTCACTCAATTGGTAAATATCAAC 58.239 34.615 5.42 0.00 0.00 3.18
1622 2303 6.038603 GCTGCTCACTCAATTGGTAAATATCA 59.961 38.462 5.42 0.00 0.00 2.15
1623 2304 6.433766 GCTGCTCACTCAATTGGTAAATATC 58.566 40.000 5.42 0.00 0.00 1.63
1624 2305 5.008019 CGCTGCTCACTCAATTGGTAAATAT 59.992 40.000 5.42 0.00 0.00 1.28
1626 2307 3.127548 CGCTGCTCACTCAATTGGTAAAT 59.872 43.478 5.42 0.00 0.00 1.40
1630 2311 0.957395 CCGCTGCTCACTCAATTGGT 60.957 55.000 5.42 0.00 0.00 3.67
1631 2312 1.798735 CCGCTGCTCACTCAATTGG 59.201 57.895 5.42 0.00 0.00 3.16
1633 2314 0.890542 TTGCCGCTGCTCACTCAATT 60.891 50.000 0.70 0.00 38.71 2.32
1634 2315 0.679002 ATTGCCGCTGCTCACTCAAT 60.679 50.000 0.70 0.00 38.71 2.57
1635 2316 1.300971 GATTGCCGCTGCTCACTCAA 61.301 55.000 0.70 0.00 38.71 3.02
1636 2317 1.742880 GATTGCCGCTGCTCACTCA 60.743 57.895 0.70 0.00 38.71 3.41
1637 2318 2.467826 GGATTGCCGCTGCTCACTC 61.468 63.158 0.70 0.00 38.71 3.51
1638 2319 2.437359 GGATTGCCGCTGCTCACT 60.437 61.111 0.70 0.00 38.71 3.41
1659 2749 2.187946 GTGGAGTGCCGATCCTGG 59.812 66.667 0.00 0.00 37.74 4.45
1662 2752 0.321653 AAAGTGTGGAGTGCCGATCC 60.322 55.000 0.00 0.00 36.79 3.36
1677 2767 3.984732 GGCCCCCTGCTCCAAAGT 61.985 66.667 0.00 0.00 40.92 2.66
1699 2797 1.654105 GCTCACACCAAACTATCGTCG 59.346 52.381 0.00 0.00 0.00 5.12
1702 2800 3.684305 TCATTGCTCACACCAAACTATCG 59.316 43.478 0.00 0.00 0.00 2.92
1708 2806 3.145286 TCGATTCATTGCTCACACCAAA 58.855 40.909 0.00 0.00 0.00 3.28
1736 2834 2.634453 CCAGGCCTCCTTGAAAAATTGT 59.366 45.455 0.00 0.00 0.00 2.71
1738 2836 2.976440 ACCAGGCCTCCTTGAAAAATT 58.024 42.857 0.00 0.00 0.00 1.82
1755 2853 7.110155 ACTTAGACTGACAAGAAAAAGAACCA 58.890 34.615 0.00 0.00 0.00 3.67
1772 2870 4.262335 CCCTACCACAAAACGACTTAGACT 60.262 45.833 0.00 0.00 0.00 3.24
1781 2879 0.881159 TCGCACCCTACCACAAAACG 60.881 55.000 0.00 0.00 0.00 3.60
1782 2880 0.589708 GTCGCACCCTACCACAAAAC 59.410 55.000 0.00 0.00 0.00 2.43
1793 2891 3.454371 AATAGATGTGTAGTCGCACCC 57.546 47.619 0.00 0.00 38.52 4.61
1843 2941 4.589908 TGCAAGAAAATAAGGAGACCCTC 58.410 43.478 0.00 0.00 43.48 4.30
1851 2949 6.596497 AGCCAAATTGATGCAAGAAAATAAGG 59.404 34.615 0.00 0.00 0.00 2.69
1852 2950 7.605410 AGCCAAATTGATGCAAGAAAATAAG 57.395 32.000 0.00 0.00 0.00 1.73
1860 2958 6.103997 AGAAACATAGCCAAATTGATGCAAG 58.896 36.000 0.00 0.00 0.00 4.01
1882 2980 9.950496 GCTTCCTCCTCATTTCATATATAAAGA 57.050 33.333 0.00 0.00 0.00 2.52
1916 3015 6.205658 GTCAATCTTGCAATCCTAGGATTACC 59.794 42.308 31.98 25.18 42.30 2.85
1949 3049 1.270839 AGCGACCTTGCTTTTGCTCTA 60.271 47.619 0.00 0.00 44.46 2.43
1983 3083 8.794335 AGTTTAACATAAAGTCTCAAGATCCC 57.206 34.615 0.00 0.00 0.00 3.85
1991 3091 4.492085 GCGCCGAGTTTAACATAAAGTCTC 60.492 45.833 0.00 4.26 0.00 3.36
1993 3093 3.484721 GGCGCCGAGTTTAACATAAAGTC 60.485 47.826 12.58 7.36 0.00 3.01
1994 3094 2.417586 GGCGCCGAGTTTAACATAAAGT 59.582 45.455 12.58 0.00 0.00 2.66
2000 3100 1.198178 GATTTGGCGCCGAGTTTAACA 59.802 47.619 23.90 2.62 0.00 2.41
2019 3119 8.674263 AGCCAATGATGTTTAAACAAAATTGA 57.326 26.923 34.03 16.40 42.41 2.57
2054 3154 2.238898 ACTTATTTTGGGACGGAGGGAG 59.761 50.000 0.00 0.00 0.00 4.30
2055 3155 2.026636 CACTTATTTTGGGACGGAGGGA 60.027 50.000 0.00 0.00 0.00 4.20
2056 3156 2.026636 TCACTTATTTTGGGACGGAGGG 60.027 50.000 0.00 0.00 0.00 4.30
2057 3157 3.007635 GTCACTTATTTTGGGACGGAGG 58.992 50.000 0.00 0.00 0.00 4.30
2058 3158 3.933332 GAGTCACTTATTTTGGGACGGAG 59.067 47.826 0.00 0.00 33.84 4.63
2059 3159 3.325425 TGAGTCACTTATTTTGGGACGGA 59.675 43.478 0.00 0.00 33.84 4.69
2060 3160 3.670625 TGAGTCACTTATTTTGGGACGG 58.329 45.455 0.00 0.00 33.84 4.79
2061 3161 5.238650 AGTTTGAGTCACTTATTTTGGGACG 59.761 40.000 0.00 0.00 33.84 4.79
2062 3162 6.635030 AGTTTGAGTCACTTATTTTGGGAC 57.365 37.500 0.00 0.00 0.00 4.46
2063 3163 6.605594 ACAAGTTTGAGTCACTTATTTTGGGA 59.394 34.615 0.00 0.00 32.48 4.37
2064 3164 6.805713 ACAAGTTTGAGTCACTTATTTTGGG 58.194 36.000 0.00 0.00 32.48 4.12
2065 3165 8.621286 AGTACAAGTTTGAGTCACTTATTTTGG 58.379 33.333 0.00 0.00 32.48 3.28
2068 3168 8.989980 GCTAGTACAAGTTTGAGTCACTTATTT 58.010 33.333 0.00 0.00 32.48 1.40
2069 3169 8.368668 AGCTAGTACAAGTTTGAGTCACTTATT 58.631 33.333 0.00 0.00 32.48 1.40
2070 3170 7.897864 AGCTAGTACAAGTTTGAGTCACTTAT 58.102 34.615 0.00 0.00 32.48 1.73
2071 3171 7.286215 AGCTAGTACAAGTTTGAGTCACTTA 57.714 36.000 0.00 0.00 32.48 2.24
2072 3172 6.163135 AGCTAGTACAAGTTTGAGTCACTT 57.837 37.500 0.00 0.00 34.67 3.16
2073 3173 5.793030 AGCTAGTACAAGTTTGAGTCACT 57.207 39.130 0.00 0.00 0.00 3.41
2074 3174 6.846325 AAAGCTAGTACAAGTTTGAGTCAC 57.154 37.500 0.00 0.00 0.00 3.67
2075 3175 7.723324 AGTAAAGCTAGTACAAGTTTGAGTCA 58.277 34.615 9.50 0.00 0.00 3.41
2076 3176 9.127006 GTAGTAAAGCTAGTACAAGTTTGAGTC 57.873 37.037 9.50 0.00 35.02 3.36
2077 3177 8.636213 TGTAGTAAAGCTAGTACAAGTTTGAGT 58.364 33.333 9.50 0.00 39.80 3.41
2078 3178 9.472361 TTGTAGTAAAGCTAGTACAAGTTTGAG 57.528 33.333 11.33 0.00 43.96 3.02
2079 3179 9.820725 TTTGTAGTAAAGCTAGTACAAGTTTGA 57.179 29.630 13.88 1.20 46.91 2.69
2081 3181 9.828039 ACTTTGTAGTAAAGCTAGTACAAGTTT 57.172 29.630 13.88 4.00 46.91 2.66
2082 3182 9.828039 AACTTTGTAGTAAAGCTAGTACAAGTT 57.172 29.630 13.88 15.36 46.91 2.66
2092 3192 9.828039 AACTTGTACTAACTTTGTAGTAAAGCT 57.172 29.630 0.00 0.00 38.10 3.74
2098 3198 9.310716 GACTCAAACTTGTACTAACTTTGTAGT 57.689 33.333 0.00 4.06 37.98 2.73
2099 3199 9.309516 TGACTCAAACTTGTACTAACTTTGTAG 57.690 33.333 0.00 1.48 0.00 2.74
2100 3200 9.090692 GTGACTCAAACTTGTACTAACTTTGTA 57.909 33.333 0.00 0.00 0.00 2.41
2101 3201 7.822822 AGTGACTCAAACTTGTACTAACTTTGT 59.177 33.333 0.00 0.00 0.00 2.83
2102 3202 8.197988 AGTGACTCAAACTTGTACTAACTTTG 57.802 34.615 0.00 0.00 0.00 2.77
2103 3203 8.788325 AAGTGACTCAAACTTGTACTAACTTT 57.212 30.769 0.00 0.00 36.52 2.66
2109 3209 9.391006 TCAAAATAAGTGACTCAAACTTGTACT 57.609 29.630 0.00 0.00 38.32 2.73
2110 3210 9.997482 TTCAAAATAAGTGACTCAAACTTGTAC 57.003 29.630 0.00 0.00 38.32 2.90
2112 3212 9.353999 GTTTCAAAATAAGTGACTCAAACTTGT 57.646 29.630 0.00 0.00 38.32 3.16
2113 3213 8.523464 CGTTTCAAAATAAGTGACTCAAACTTG 58.477 33.333 0.00 0.00 38.32 3.16
2114 3214 7.700656 CCGTTTCAAAATAAGTGACTCAAACTT 59.299 33.333 0.00 0.00 40.82 2.66
2115 3215 7.066525 TCCGTTTCAAAATAAGTGACTCAAACT 59.933 33.333 0.00 0.00 0.00 2.66
2116 3216 7.190871 TCCGTTTCAAAATAAGTGACTCAAAC 58.809 34.615 0.00 0.00 0.00 2.93
2117 3217 7.323049 TCCGTTTCAAAATAAGTGACTCAAA 57.677 32.000 0.00 0.00 0.00 2.69
2118 3218 6.928979 TCCGTTTCAAAATAAGTGACTCAA 57.071 33.333 0.00 0.00 0.00 3.02
2119 3219 6.072728 CCATCCGTTTCAAAATAAGTGACTCA 60.073 38.462 0.00 0.00 0.00 3.41
2120 3220 6.148811 TCCATCCGTTTCAAAATAAGTGACTC 59.851 38.462 0.00 0.00 0.00 3.36
2121 3221 6.001460 TCCATCCGTTTCAAAATAAGTGACT 58.999 36.000 0.00 0.00 0.00 3.41
2122 3222 6.072673 ACTCCATCCGTTTCAAAATAAGTGAC 60.073 38.462 0.00 0.00 0.00 3.67
2123 3223 6.001460 ACTCCATCCGTTTCAAAATAAGTGA 58.999 36.000 0.00 0.00 0.00 3.41
2124 3224 6.254281 ACTCCATCCGTTTCAAAATAAGTG 57.746 37.500 0.00 0.00 0.00 3.16
2125 3225 8.575649 AATACTCCATCCGTTTCAAAATAAGT 57.424 30.769 0.00 0.00 0.00 2.24
2126 3226 9.289303 CAAATACTCCATCCGTTTCAAAATAAG 57.711 33.333 0.00 0.00 0.00 1.73
2127 3227 8.247562 CCAAATACTCCATCCGTTTCAAAATAA 58.752 33.333 0.00 0.00 0.00 1.40
2128 3228 7.394923 ACCAAATACTCCATCCGTTTCAAAATA 59.605 33.333 0.00 0.00 0.00 1.40
2129 3229 6.210584 ACCAAATACTCCATCCGTTTCAAAAT 59.789 34.615 0.00 0.00 0.00 1.82
2130 3230 5.536916 ACCAAATACTCCATCCGTTTCAAAA 59.463 36.000 0.00 0.00 0.00 2.44
2131 3231 5.074115 ACCAAATACTCCATCCGTTTCAAA 58.926 37.500 0.00 0.00 0.00 2.69
2132 3232 4.658063 ACCAAATACTCCATCCGTTTCAA 58.342 39.130 0.00 0.00 0.00 2.69
2133 3233 4.295141 ACCAAATACTCCATCCGTTTCA 57.705 40.909 0.00 0.00 0.00 2.69
2134 3234 6.725246 CATAACCAAATACTCCATCCGTTTC 58.275 40.000 0.00 0.00 0.00 2.78
2135 3235 5.067283 GCATAACCAAATACTCCATCCGTTT 59.933 40.000 0.00 0.00 0.00 3.60
2136 3236 4.578928 GCATAACCAAATACTCCATCCGTT 59.421 41.667 0.00 0.00 0.00 4.44
2137 3237 4.134563 GCATAACCAAATACTCCATCCGT 58.865 43.478 0.00 0.00 0.00 4.69
2138 3238 3.502211 GGCATAACCAAATACTCCATCCG 59.498 47.826 0.00 0.00 38.86 4.18
2159 3259 1.619827 TGAGAGCAAAGCCCAAAATGG 59.380 47.619 0.00 0.00 37.25 3.16
2160 3260 2.298163 AGTGAGAGCAAAGCCCAAAATG 59.702 45.455 0.00 0.00 0.00 2.32
2161 3261 2.298163 CAGTGAGAGCAAAGCCCAAAAT 59.702 45.455 0.00 0.00 0.00 1.82
2162 3262 1.682854 CAGTGAGAGCAAAGCCCAAAA 59.317 47.619 0.00 0.00 0.00 2.44
2163 3263 1.133823 TCAGTGAGAGCAAAGCCCAAA 60.134 47.619 0.00 0.00 0.00 3.28
2164 3264 0.473755 TCAGTGAGAGCAAAGCCCAA 59.526 50.000 0.00 0.00 0.00 4.12
2165 3265 0.473755 TTCAGTGAGAGCAAAGCCCA 59.526 50.000 0.00 0.00 0.00 5.36
2166 3266 1.163554 CTTCAGTGAGAGCAAAGCCC 58.836 55.000 0.00 0.00 0.00 5.19
2167 3267 0.520847 GCTTCAGTGAGAGCAAAGCC 59.479 55.000 17.22 0.00 37.06 4.35
2168 3268 1.521580 AGCTTCAGTGAGAGCAAAGC 58.478 50.000 21.50 14.40 42.00 3.51
2169 3269 4.437121 GCAATAGCTTCAGTGAGAGCAAAG 60.437 45.833 21.50 6.51 37.91 2.77
2170 3270 3.438087 GCAATAGCTTCAGTGAGAGCAAA 59.562 43.478 21.50 13.43 37.91 3.68
2171 3271 3.005554 GCAATAGCTTCAGTGAGAGCAA 58.994 45.455 21.50 0.00 37.91 3.91
2172 3272 2.027837 TGCAATAGCTTCAGTGAGAGCA 60.028 45.455 21.50 11.03 42.74 4.26
2173 3273 2.625737 TGCAATAGCTTCAGTGAGAGC 58.374 47.619 15.38 15.38 42.74 4.09
2174 3274 4.634883 ACAATGCAATAGCTTCAGTGAGAG 59.365 41.667 0.00 0.00 42.74 3.20
2175 3275 4.582869 ACAATGCAATAGCTTCAGTGAGA 58.417 39.130 0.00 0.00 42.74 3.27
2176 3276 4.959596 ACAATGCAATAGCTTCAGTGAG 57.040 40.909 0.00 0.00 42.74 3.51
2177 3277 5.463286 CAAACAATGCAATAGCTTCAGTGA 58.537 37.500 0.00 0.00 42.74 3.41
2178 3278 5.756950 CAAACAATGCAATAGCTTCAGTG 57.243 39.130 0.00 0.00 42.74 3.66
2187 3287 7.794240 TTCATCAATGAGGCAAACAATGCAATA 60.794 33.333 2.58 0.00 45.43 1.90
2188 3288 7.020881 TTCATCAATGAGGCAAACAATGCAAT 61.021 34.615 2.58 0.00 45.43 3.56
2189 3289 5.742255 TTCATCAATGAGGCAAACAATGCAA 60.742 36.000 2.58 0.00 45.43 4.08
2190 3290 4.262506 TTCATCAATGAGGCAAACAATGCA 60.263 37.500 2.58 0.00 45.43 3.96
2191 3291 4.247258 TTCATCAATGAGGCAAACAATGC 58.753 39.130 0.00 0.00 42.68 3.56
2192 3292 6.816640 AGAATTCATCAATGAGGCAAACAATG 59.183 34.615 8.44 0.00 38.19 2.82
2193 3293 6.942976 AGAATTCATCAATGAGGCAAACAAT 58.057 32.000 8.44 0.00 38.19 2.71
2194 3294 6.349243 AGAATTCATCAATGAGGCAAACAA 57.651 33.333 8.44 0.00 38.19 2.83
2195 3295 5.988310 AGAATTCATCAATGAGGCAAACA 57.012 34.783 8.44 0.00 38.19 2.83
2196 3296 6.091713 CCAAAGAATTCATCAATGAGGCAAAC 59.908 38.462 8.44 0.00 38.19 2.93
2197 3297 6.167685 CCAAAGAATTCATCAATGAGGCAAA 58.832 36.000 8.44 0.00 38.19 3.68
2198 3298 5.246656 ACCAAAGAATTCATCAATGAGGCAA 59.753 36.000 8.44 0.00 38.19 4.52
2199 3299 4.773674 ACCAAAGAATTCATCAATGAGGCA 59.226 37.500 8.44 0.00 38.19 4.75
2200 3300 5.126707 AGACCAAAGAATTCATCAATGAGGC 59.873 40.000 8.44 0.00 38.19 4.70
2201 3301 6.770746 AGACCAAAGAATTCATCAATGAGG 57.229 37.500 8.44 0.00 38.19 3.86
2202 3302 9.947669 GATAAGACCAAAGAATTCATCAATGAG 57.052 33.333 8.44 0.00 38.19 2.90
2203 3303 8.906867 GGATAAGACCAAAGAATTCATCAATGA 58.093 33.333 8.44 0.00 34.44 2.57
2204 3304 7.859377 CGGATAAGACCAAAGAATTCATCAATG 59.141 37.037 8.44 0.00 0.00 2.82
2205 3305 7.557719 ACGGATAAGACCAAAGAATTCATCAAT 59.442 33.333 8.44 0.00 0.00 2.57
2206 3306 6.884295 ACGGATAAGACCAAAGAATTCATCAA 59.116 34.615 8.44 0.00 0.00 2.57
2207 3307 6.414732 ACGGATAAGACCAAAGAATTCATCA 58.585 36.000 8.44 0.00 0.00 3.07
2208 3308 6.927294 ACGGATAAGACCAAAGAATTCATC 57.073 37.500 8.44 0.00 0.00 2.92
2209 3309 7.703058 AAACGGATAAGACCAAAGAATTCAT 57.297 32.000 8.44 0.00 0.00 2.57
2210 3310 7.308951 GGAAAACGGATAAGACCAAAGAATTCA 60.309 37.037 8.44 0.00 0.00 2.57
2211 3311 7.027760 GGAAAACGGATAAGACCAAAGAATTC 58.972 38.462 0.00 0.00 0.00 2.17
2212 3312 6.349033 CGGAAAACGGATAAGACCAAAGAATT 60.349 38.462 0.00 0.00 39.42 2.17
2213 3313 5.123344 CGGAAAACGGATAAGACCAAAGAAT 59.877 40.000 0.00 0.00 39.42 2.40
2214 3314 4.453136 CGGAAAACGGATAAGACCAAAGAA 59.547 41.667 0.00 0.00 39.42 2.52
2215 3315 3.998341 CGGAAAACGGATAAGACCAAAGA 59.002 43.478 0.00 0.00 39.42 2.52
2216 3316 3.998341 TCGGAAAACGGATAAGACCAAAG 59.002 43.478 0.00 0.00 44.45 2.77
2217 3317 4.005487 TCGGAAAACGGATAAGACCAAA 57.995 40.909 0.00 0.00 44.45 3.28
2218 3318 3.681593 TCGGAAAACGGATAAGACCAA 57.318 42.857 0.00 0.00 44.45 3.67
2219 3319 3.735820 CGATCGGAAAACGGATAAGACCA 60.736 47.826 7.38 0.00 44.45 4.02
2220 3320 2.793232 CGATCGGAAAACGGATAAGACC 59.207 50.000 7.38 0.00 44.45 3.85
2221 3321 2.218075 GCGATCGGAAAACGGATAAGAC 59.782 50.000 18.30 0.00 44.45 3.01
2222 3322 2.466846 GCGATCGGAAAACGGATAAGA 58.533 47.619 18.30 0.00 44.45 2.10
2223 3323 2.924432 GCGATCGGAAAACGGATAAG 57.076 50.000 18.30 0.00 44.45 1.73


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

AutoCloner maintained by Alex Coulton.