Multiple sequence alignment - TraesCS6B01G183100

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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 TraesCS6B01G183100 chr6B 100.000 2243 0 0 1 2243 204662092 204659850 0.000000e+00 4143.0
1 TraesCS6B01G183100 chr6B 95.238 42 2 0 187 228 503547981 503548022 1.440000e-07 67.6
2 TraesCS6B01G183100 chr6B 92.857 42 3 0 187 228 210275515 210275474 6.690000e-06 62.1
3 TraesCS6B01G183100 chr6D 88.409 1596 85 35 4 1569 115332010 115330485 0.000000e+00 1831.0
4 TraesCS6B01G183100 chr6D 92.157 51 3 1 133 182 169931009 169931059 1.110000e-08 71.3
5 TraesCS6B01G183100 chr6A 84.916 895 54 30 4 871 143753766 143752926 0.000000e+00 830.0
6 TraesCS6B01G183100 chr6A 90.572 647 27 15 653 1269 143753140 143752498 0.000000e+00 826.0
7 TraesCS6B01G183100 chr6A 88.000 425 38 6 1639 2051 143751082 143750659 7.200000e-135 490.0
8 TraesCS6B01G183100 chr6A 88.669 353 33 4 1262 1611 143751928 143751580 7.410000e-115 424.0
9 TraesCS6B01G183100 chr2B 82.379 227 35 4 262 484 774718657 774718432 2.270000e-45 193.0
10 TraesCS6B01G183100 chr2B 94.595 37 2 0 41 77 11146085 11146121 8.650000e-05 58.4
11 TraesCS6B01G183100 chr4B 93.750 96 6 0 4 99 606310499 606310404 6.460000e-31 145.0
12 TraesCS6B01G183100 chr4B 92.857 42 3 0 187 228 454040416 454040457 6.690000e-06 62.1
13 TraesCS6B01G183100 chr7D 76.214 206 31 14 261 463 563530716 563530526 2.370000e-15 93.5
14 TraesCS6B01G183100 chr7D 88.462 52 4 2 88 138 635997945 635997895 6.690000e-06 62.1
15 TraesCS6B01G183100 chr2A 95.238 42 2 0 187 228 275932320 275932279 1.440000e-07 67.6
16 TraesCS6B01G183100 chr7B 88.235 51 6 0 88 138 47612793 47612743 6.690000e-06 62.1
17 TraesCS6B01G183100 chr7B 96.875 32 0 1 197 228 747593651 747593681 4.000000e-03 52.8
18 TraesCS6B01G183100 chr1D 85.000 60 8 1 201 259 413584562 413584621 2.410000e-05 60.2


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 TraesCS6B01G183100 chr6B 204659850 204662092 2242 True 4143.0 4143 100.00000 1 2243 1 chr6B.!!$R1 2242
1 TraesCS6B01G183100 chr6D 115330485 115332010 1525 True 1831.0 1831 88.40900 4 1569 1 chr6D.!!$R1 1565
2 TraesCS6B01G183100 chr6A 143750659 143753766 3107 True 642.5 830 88.03925 4 2051 4 chr6A.!!$R1 2047

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
211 213 0.115745 AGTTTGGGACGGAGGGAGTA 59.884 55.0 0.0 0.0 0.0 2.59 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1725 2849 0.032515 TCTACCCTCAGCGGAATCCA 60.033 55.0 0.0 0.0 33.16 3.41 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
35 36 7.464178 CGTGGTTAGCACTGAAGTTGATATTAC 60.464 40.741 12.77 0.00 0.00 1.89
42 43 8.630917 AGCACTGAAGTTGATATTACGTAGTAT 58.369 33.333 10.08 10.08 45.21 2.12
77 78 8.305441 CATATGTGCAATGCATGTTCATATTT 57.695 30.769 19.74 5.52 41.91 1.40
82 83 6.019640 GTGCAATGCATGTTCATATTTGGTAC 60.020 38.462 12.38 0.00 41.91 3.34
113 114 6.264518 ACTCCATCCGTTCAAAAATAAGTGTT 59.735 34.615 0.00 0.00 0.00 3.32
115 116 6.039941 TCCATCCGTTCAAAAATAAGTGTTGT 59.960 34.615 0.00 0.00 0.00 3.32
143 144 9.668497 GATTTAATACAAAGTTGTACTCCCTCT 57.332 33.333 6.05 0.00 45.47 3.69
159 161 3.581332 TCCCTCTGTCCGAATTACTTGTT 59.419 43.478 0.00 0.00 0.00 2.83
162 164 4.994852 CCTCTGTCCGAATTACTTGTTGAA 59.005 41.667 0.00 0.00 0.00 2.69
163 165 5.120830 CCTCTGTCCGAATTACTTGTTGAAG 59.879 44.000 0.00 0.00 35.07 3.02
164 166 5.849510 TCTGTCCGAATTACTTGTTGAAGA 58.150 37.500 0.00 0.00 32.98 2.87
165 167 6.285224 TCTGTCCGAATTACTTGTTGAAGAA 58.715 36.000 0.00 0.00 32.98 2.52
166 168 6.764085 TCTGTCCGAATTACTTGTTGAAGAAA 59.236 34.615 0.00 0.00 32.98 2.52
167 169 7.444183 TCTGTCCGAATTACTTGTTGAAGAAAT 59.556 33.333 0.00 0.00 32.98 2.17
168 170 7.359595 TGTCCGAATTACTTGTTGAAGAAATG 58.640 34.615 0.00 0.00 32.98 2.32
169 171 6.801862 GTCCGAATTACTTGTTGAAGAAATGG 59.198 38.462 0.00 0.00 32.98 3.16
170 172 6.712998 TCCGAATTACTTGTTGAAGAAATGGA 59.287 34.615 0.00 0.00 32.98 3.41
171 173 7.393234 TCCGAATTACTTGTTGAAGAAATGGAT 59.607 33.333 0.00 0.00 32.98 3.41
185 187 6.661304 AGAAATGGATAGAAATGGATTGCC 57.339 37.500 0.00 0.00 0.00 4.52
211 213 0.115745 AGTTTGGGACGGAGGGAGTA 59.884 55.000 0.00 0.00 0.00 2.59
223 225 4.460731 ACGGAGGGAGTACTAACTTTGTAC 59.539 45.833 0.00 5.63 40.19 2.90
244 246 8.836268 TGTACTAAATCACGGACACTTATTTT 57.164 30.769 0.00 0.00 0.00 1.82
294 296 9.798885 GGATATTTGATAGAATATTAATCGCGC 57.201 33.333 0.00 0.00 33.50 6.86
408 410 5.347342 TGAACGTTTGTCATTGAAGCAATT 58.653 33.333 0.46 0.00 31.05 2.32
413 415 5.164061 CGTTTGTCATTGAAGCAATTTAGGC 60.164 40.000 0.00 0.00 31.05 3.93
414 416 4.454728 TGTCATTGAAGCAATTTAGGCC 57.545 40.909 0.00 0.00 31.05 5.19
419 421 2.288666 TGAAGCAATTTAGGCCGCTAG 58.711 47.619 0.00 0.00 33.45 3.42
438 440 6.082338 CGCTAGATTGACATGAATTAATGGC 58.918 40.000 7.72 4.60 36.00 4.40
463 465 5.279056 CGAGAATAGTTGGATCTACCCCTTC 60.279 48.000 0.00 0.00 38.00 3.46
466 468 1.007963 AGTTGGATCTACCCCTTCCGA 59.992 52.381 0.00 0.00 38.00 4.55
488 490 9.806203 TCCGATGTTTATATATTGGTATTACCG 57.194 33.333 8.32 0.00 42.58 4.02
489 491 9.590451 CCGATGTTTATATATTGGTATTACCGT 57.410 33.333 8.32 2.55 42.58 4.83
544 546 7.584847 ACACGTTAAACATGTTTATCTCGTTTG 59.415 33.333 30.64 26.04 36.35 2.93
601 606 2.785679 GTTTATTGTGTGCATCCTCGC 58.214 47.619 0.00 0.00 0.00 5.03
645 650 1.414181 CTGGCTTATCATGACCGAGGT 59.586 52.381 0.00 0.00 0.00 3.85
651 656 5.057149 GCTTATCATGACCGAGGTAACAAT 58.943 41.667 0.00 0.00 41.41 2.71
731 762 7.931578 ATACAAACGTGAATAGAAATGGGAA 57.068 32.000 0.00 0.00 0.00 3.97
744 775 4.293368 AGAAATGGGAAAGTGGATTCTCCT 59.707 41.667 0.00 0.00 37.46 3.69
841 872 1.235724 GGCCAACAAGTAGTGACACC 58.764 55.000 0.00 0.00 0.00 4.16
882 940 2.351706 AGCGAGGTAAAACAAACCCA 57.648 45.000 0.00 0.00 37.77 4.51
891 949 4.587262 GGTAAAACAAACCCAGTGGAATCT 59.413 41.667 11.95 0.00 34.81 2.40
893 951 3.312736 AACAAACCCAGTGGAATCTGT 57.687 42.857 11.95 5.55 34.02 3.41
926 984 2.000429 ACCGCCTATACGTTTCACAC 58.000 50.000 0.00 0.00 0.00 3.82
1050 1111 2.765807 AGGATAGTGCAGGCCGCT 60.766 61.111 18.14 8.81 43.06 5.52
1297 1935 8.933807 GGTAGTTGTTTGAATAACTAAGTCTCC 58.066 37.037 12.64 7.53 41.93 3.71
1298 1936 7.653767 AGTTGTTTGAATAACTAAGTCTCCG 57.346 36.000 4.35 0.00 38.37 4.63
1301 1939 8.553696 GTTGTTTGAATAACTAAGTCTCCGAAA 58.446 33.333 0.00 0.00 0.00 3.46
1302 1940 8.080083 TGTTTGAATAACTAAGTCTCCGAAAC 57.920 34.615 0.00 0.00 0.00 2.78
1431 2072 4.127233 TGTCAATTTCAACATCGACACG 57.873 40.909 0.00 0.00 0.00 4.49
1435 2076 0.231024 TTTCAACATCGACACGCGTG 59.769 50.000 35.99 35.99 41.80 5.34
1437 2078 3.762992 AACATCGACACGCGTGCG 61.763 61.111 37.35 35.47 46.03 5.34
1476 2117 6.658188 AGGCTTTGTCTAGGAGTATCATAC 57.342 41.667 0.00 0.00 36.25 2.39
1485 2126 7.160726 GTCTAGGAGTATCATACTACCGTTCT 58.839 42.308 3.09 0.00 40.66 3.01
1502 2143 3.576648 GTTCTATCGCATGTAGTAGGGC 58.423 50.000 0.00 0.00 0.00 5.19
1508 2149 1.668419 GCATGTAGTAGGGCTTGTGG 58.332 55.000 0.00 0.00 0.00 4.17
1594 2235 1.047002 ATCTTGATGAGGAGGCCGAG 58.953 55.000 0.00 0.00 0.00 4.63
1596 2237 2.037620 CTTGATGAGGAGGCCGAGGG 62.038 65.000 0.00 0.00 0.00 4.30
1634 2758 9.709600 TTTCGAAAAATAAAATCTTTGTTTGGC 57.290 25.926 8.44 0.00 0.00 4.52
1635 2759 8.655651 TCGAAAAATAAAATCTTTGTTTGGCT 57.344 26.923 0.00 0.00 0.00 4.75
1636 2760 8.547069 TCGAAAAATAAAATCTTTGTTTGGCTG 58.453 29.630 0.00 0.00 0.00 4.85
1637 2761 8.547069 CGAAAAATAAAATCTTTGTTTGGCTGA 58.453 29.630 0.00 0.00 0.00 4.26
1643 2767 5.640189 AATCTTTGTTTGGCTGAGATGAG 57.360 39.130 0.00 0.00 0.00 2.90
1647 2771 4.890158 TTGTTTGGCTGAGATGAGAGTA 57.110 40.909 0.00 0.00 0.00 2.59
1674 2798 5.132897 TGTATTTTGGGAACACATCAAGC 57.867 39.130 0.00 0.00 42.67 4.01
1679 2803 1.075212 TGGGAACACATCAAGCCATCA 59.925 47.619 0.00 0.00 33.40 3.07
1695 2819 2.094258 CCATCAAGTGAATGAACGACCG 59.906 50.000 0.00 0.00 32.06 4.79
1697 2821 0.865111 CAAGTGAATGAACGACCGCA 59.135 50.000 0.00 0.00 0.00 5.69
1698 2822 1.136252 CAAGTGAATGAACGACCGCAG 60.136 52.381 0.00 0.00 0.00 5.18
1711 2835 2.280389 CGCAGCGACCATAGGCAT 60.280 61.111 9.98 0.00 0.00 4.40
1721 2845 1.598962 CATAGGCATGGTCGGGCAG 60.599 63.158 0.00 0.00 0.00 4.85
1725 2849 4.722700 GCATGGTCGGGCAGTGGT 62.723 66.667 0.00 0.00 0.00 4.16
1726 2850 2.747460 CATGGTCGGGCAGTGGTG 60.747 66.667 0.00 0.00 0.00 4.17
1740 2864 2.190578 GGTGGATTCCGCTGAGGG 59.809 66.667 15.60 0.00 41.52 4.30
1741 2865 2.670148 GGTGGATTCCGCTGAGGGT 61.670 63.158 15.60 0.00 41.52 4.34
1750 2874 2.202946 GCTGAGGGTAGAAGCGGC 60.203 66.667 0.00 0.00 0.00 6.53
1781 2905 1.860484 GACGACGAGGAAGGGACGTT 61.860 60.000 0.00 0.00 40.29 3.99
1815 2939 1.973281 CAAGGGCGGCAGTGACAAT 60.973 57.895 12.47 0.00 0.00 2.71
1883 3018 3.818773 GGTTTTCTTGGTCTTCCGAATGA 59.181 43.478 0.00 0.00 36.30 2.57
1885 3020 5.392057 GGTTTTCTTGGTCTTCCGAATGATC 60.392 44.000 0.00 0.00 36.30 2.92
1892 3027 2.348666 GTCTTCCGAATGATCAACACCG 59.651 50.000 0.00 0.96 0.00 4.94
1921 3056 3.328931 TCTTCTGCTCCTCAACCAAAGAT 59.671 43.478 0.00 0.00 0.00 2.40
1948 3083 5.538053 TCAGATGATCCTCTCATAGACAACC 59.462 44.000 0.00 0.00 44.83 3.77
1961 3096 3.737559 AGACAACCTGGGCAAATCATA 57.262 42.857 0.00 0.00 0.00 2.15
1965 3100 5.047092 AGACAACCTGGGCAAATCATAAAAG 60.047 40.000 0.00 0.00 0.00 2.27
1982 3117 7.939782 TCATAAAAGCATTGAGTTCAGTTTCA 58.060 30.769 0.00 0.00 0.00 2.69
1983 3118 8.077991 TCATAAAAGCATTGAGTTCAGTTTCAG 58.922 33.333 0.00 0.00 0.00 3.02
1984 3119 4.843220 AAGCATTGAGTTCAGTTTCAGG 57.157 40.909 0.00 0.00 0.00 3.86
1994 3129 4.130118 GTTCAGTTTCAGGAAGAAGAGCA 58.870 43.478 0.00 0.00 37.57 4.26
2013 3148 4.532834 AGCACCCAAACTTTGAGTCTAAA 58.467 39.130 2.87 0.00 0.00 1.85
2016 3151 5.505819 GCACCCAAACTTTGAGTCTAAAGAC 60.506 44.000 16.84 1.72 45.08 3.01
2033 3168 8.954350 GTCTAAAGACTACTACCATGAGTACAA 58.046 37.037 2.81 0.00 41.65 2.41
2040 3175 8.410673 ACTACTACCATGAGTACAATCCATAG 57.589 38.462 0.00 0.00 0.00 2.23
2045 3180 6.773638 ACCATGAGTACAATCCATAGGAATC 58.226 40.000 0.00 0.00 34.34 2.52
2046 3181 5.871524 CCATGAGTACAATCCATAGGAATCG 59.128 44.000 0.00 0.00 34.34 3.34
2047 3182 6.459066 CATGAGTACAATCCATAGGAATCGT 58.541 40.000 0.00 0.00 34.34 3.73
2048 3183 7.309805 CCATGAGTACAATCCATAGGAATCGTA 60.310 40.741 0.00 0.00 34.34 3.43
2049 3184 6.978338 TGAGTACAATCCATAGGAATCGTAC 58.022 40.000 11.80 11.80 36.14 3.67
2050 3185 6.548251 TGAGTACAATCCATAGGAATCGTACA 59.452 38.462 17.64 4.03 37.24 2.90
2051 3186 7.232737 TGAGTACAATCCATAGGAATCGTACAT 59.767 37.037 17.64 8.68 37.24 2.29
2052 3187 7.378966 AGTACAATCCATAGGAATCGTACATG 58.621 38.462 17.64 0.00 37.24 3.21
2053 3188 6.419484 ACAATCCATAGGAATCGTACATGA 57.581 37.500 0.00 0.00 34.34 3.07
2054 3189 6.459066 ACAATCCATAGGAATCGTACATGAG 58.541 40.000 0.00 0.00 34.34 2.90
2055 3190 4.521130 TCCATAGGAATCGTACATGAGC 57.479 45.455 0.00 0.00 0.00 4.26
2056 3191 3.895041 TCCATAGGAATCGTACATGAGCA 59.105 43.478 0.00 0.00 0.00 4.26
2057 3192 4.021981 TCCATAGGAATCGTACATGAGCAG 60.022 45.833 0.00 0.00 0.00 4.24
2058 3193 2.231215 AGGAATCGTACATGAGCAGC 57.769 50.000 0.00 0.00 0.00 5.25
2059 3194 0.855349 GGAATCGTACATGAGCAGCG 59.145 55.000 0.00 0.00 0.00 5.18
2060 3195 0.855349 GAATCGTACATGAGCAGCGG 59.145 55.000 0.00 0.00 0.00 5.52
2061 3196 1.154205 AATCGTACATGAGCAGCGGC 61.154 55.000 0.00 0.00 41.61 6.53
2062 3197 2.296814 ATCGTACATGAGCAGCGGCA 62.297 55.000 12.44 0.00 44.61 5.69
2063 3198 2.100031 CGTACATGAGCAGCGGCAA 61.100 57.895 12.44 0.00 44.61 4.52
2064 3199 1.431488 CGTACATGAGCAGCGGCAAT 61.431 55.000 12.44 0.99 44.61 3.56
2065 3200 0.305922 GTACATGAGCAGCGGCAATC 59.694 55.000 12.44 0.88 44.61 2.67
2066 3201 0.815213 TACATGAGCAGCGGCAATCC 60.815 55.000 12.44 0.00 44.61 3.01
2067 3202 1.822613 CATGAGCAGCGGCAATCCT 60.823 57.895 12.44 0.00 44.61 3.24
2068 3203 1.822613 ATGAGCAGCGGCAATCCTG 60.823 57.895 12.44 0.00 44.61 3.86
2069 3204 3.207669 GAGCAGCGGCAATCCTGG 61.208 66.667 12.44 0.00 44.61 4.45
2070 3205 3.687321 GAGCAGCGGCAATCCTGGA 62.687 63.158 12.44 0.00 44.61 3.86
2071 3206 3.512516 GCAGCGGCAATCCTGGAC 61.513 66.667 3.18 0.00 40.72 4.02
2072 3207 2.046023 CAGCGGCAATCCTGGACA 60.046 61.111 0.00 0.00 0.00 4.02
2073 3208 1.452651 CAGCGGCAATCCTGGACAT 60.453 57.895 0.00 0.00 0.00 3.06
2074 3209 1.452651 AGCGGCAATCCTGGACATG 60.453 57.895 0.00 2.45 0.00 3.21
2075 3210 1.451927 GCGGCAATCCTGGACATGA 60.452 57.895 13.83 0.00 0.00 3.07
2076 3211 0.820891 GCGGCAATCCTGGACATGAT 60.821 55.000 13.83 0.00 0.00 2.45
2077 3212 1.233019 CGGCAATCCTGGACATGATC 58.767 55.000 13.83 5.63 0.00 2.92
2078 3213 1.233019 GGCAATCCTGGACATGATCG 58.767 55.000 13.83 0.00 0.00 3.69
2079 3214 1.233019 GCAATCCTGGACATGATCGG 58.767 55.000 13.83 0.00 0.00 4.18
2080 3215 1.233019 CAATCCTGGACATGATCGGC 58.767 55.000 0.00 0.00 0.00 5.54
2081 3216 0.109342 AATCCTGGACATGATCGGCC 59.891 55.000 0.00 0.00 0.00 6.13
2082 3217 1.772819 ATCCTGGACATGATCGGCCC 61.773 60.000 0.00 0.00 0.00 5.80
2083 3218 2.446848 CCTGGACATGATCGGCCCT 61.447 63.158 0.00 0.00 0.00 5.19
2084 3219 1.070445 CTGGACATGATCGGCCCTC 59.930 63.158 0.00 0.00 0.00 4.30
2085 3220 2.388890 CTGGACATGATCGGCCCTCC 62.389 65.000 0.00 0.00 0.00 4.30
2086 3221 2.443394 GGACATGATCGGCCCTCCA 61.443 63.158 0.00 0.00 0.00 3.86
2087 3222 1.227674 GACATGATCGGCCCTCCAC 60.228 63.158 0.00 0.00 0.00 4.02
2088 3223 2.280389 CATGATCGGCCCTCCACG 60.280 66.667 0.00 0.00 0.00 4.94
2089 3224 4.241555 ATGATCGGCCCTCCACGC 62.242 66.667 0.00 0.00 0.00 5.34
2091 3226 4.593864 GATCGGCCCTCCACGCTC 62.594 72.222 0.00 0.00 0.00 5.03
2095 3230 3.706373 GGCCCTCCACGCTCTCAA 61.706 66.667 0.00 0.00 0.00 3.02
2096 3231 2.125350 GCCCTCCACGCTCTCAAG 60.125 66.667 0.00 0.00 0.00 3.02
2097 3232 2.125350 CCCTCCACGCTCTCAAGC 60.125 66.667 0.00 0.00 45.56 4.01
2106 3241 3.396767 CTCTCAAGCAGGAGGGCA 58.603 61.111 5.00 0.00 35.58 5.36
2107 3242 1.221293 CTCTCAAGCAGGAGGGCAG 59.779 63.158 5.00 0.00 35.58 4.85
2108 3243 2.254737 CTCTCAAGCAGGAGGGCAGG 62.255 65.000 5.00 0.00 35.58 4.85
2109 3244 3.333219 TCAAGCAGGAGGGCAGGG 61.333 66.667 0.00 0.00 35.83 4.45
2110 3245 4.437587 CAAGCAGGAGGGCAGGGG 62.438 72.222 0.00 0.00 35.83 4.79
2127 3262 1.682257 GGGCCTCCCTGATGATAGC 59.318 63.158 0.84 0.00 41.34 2.97
2128 3263 0.839853 GGGCCTCCCTGATGATAGCT 60.840 60.000 0.84 0.00 41.34 3.32
2129 3264 1.063183 GGCCTCCCTGATGATAGCTT 58.937 55.000 0.00 0.00 0.00 3.74
2130 3265 1.271271 GGCCTCCCTGATGATAGCTTG 60.271 57.143 0.00 0.00 0.00 4.01
2131 3266 1.271271 GCCTCCCTGATGATAGCTTGG 60.271 57.143 0.00 0.00 0.00 3.61
2132 3267 2.053244 CCTCCCTGATGATAGCTTGGT 58.947 52.381 0.00 0.00 0.00 3.67
2133 3268 2.224475 CCTCCCTGATGATAGCTTGGTG 60.224 54.545 0.00 0.00 0.00 4.17
2134 3269 2.437281 CTCCCTGATGATAGCTTGGTGT 59.563 50.000 0.00 0.00 0.00 4.16
2135 3270 2.171237 TCCCTGATGATAGCTTGGTGTG 59.829 50.000 0.00 0.00 0.00 3.82
2136 3271 2.171237 CCCTGATGATAGCTTGGTGTGA 59.829 50.000 0.00 0.00 0.00 3.58
2137 3272 3.464907 CCTGATGATAGCTTGGTGTGAG 58.535 50.000 0.00 0.00 0.00 3.51
2138 3273 2.871022 CTGATGATAGCTTGGTGTGAGC 59.129 50.000 0.00 0.00 40.43 4.26
2139 3274 1.863454 GATGATAGCTTGGTGTGAGCG 59.137 52.381 0.00 0.00 44.71 5.03
2140 3275 0.894835 TGATAGCTTGGTGTGAGCGA 59.105 50.000 0.00 0.00 44.71 4.93
2141 3276 1.482182 TGATAGCTTGGTGTGAGCGAT 59.518 47.619 0.00 0.00 44.71 4.58
2142 3277 1.863454 GATAGCTTGGTGTGAGCGATG 59.137 52.381 0.00 0.00 44.71 3.84
2143 3278 0.894835 TAGCTTGGTGTGAGCGATGA 59.105 50.000 0.00 0.00 44.71 2.92
2144 3279 0.035317 AGCTTGGTGTGAGCGATGAA 59.965 50.000 0.00 0.00 44.71 2.57
2145 3280 1.089920 GCTTGGTGTGAGCGATGAAT 58.910 50.000 0.00 0.00 0.00 2.57
2146 3281 1.063174 GCTTGGTGTGAGCGATGAATC 59.937 52.381 0.00 0.00 0.00 2.52
2156 3291 4.345337 GATGAATCGAGGTCCGGC 57.655 61.111 0.00 0.00 39.14 6.13
2157 3292 1.661821 GATGAATCGAGGTCCGGCG 60.662 63.158 0.00 0.00 39.14 6.46
2158 3293 2.071844 GATGAATCGAGGTCCGGCGA 62.072 60.000 9.30 11.44 41.14 5.54
2161 3296 3.217231 ATCGAGGTCCGGCGATTT 58.783 55.556 9.30 0.00 44.00 2.17
2162 3297 1.520666 ATCGAGGTCCGGCGATTTT 59.479 52.632 9.30 0.00 44.00 1.82
2163 3298 0.107848 ATCGAGGTCCGGCGATTTTT 60.108 50.000 9.30 0.00 44.00 1.94
2164 3299 0.738412 TCGAGGTCCGGCGATTTTTC 60.738 55.000 9.30 0.00 39.14 2.29
2165 3300 1.017177 CGAGGTCCGGCGATTTTTCA 61.017 55.000 9.30 0.00 33.91 2.69
2166 3301 1.161843 GAGGTCCGGCGATTTTTCAA 58.838 50.000 9.30 0.00 0.00 2.69
2167 3302 1.130561 GAGGTCCGGCGATTTTTCAAG 59.869 52.381 9.30 0.00 0.00 3.02
2168 3303 0.170339 GGTCCGGCGATTTTTCAAGG 59.830 55.000 9.30 0.00 0.00 3.61
2169 3304 1.161843 GTCCGGCGATTTTTCAAGGA 58.838 50.000 9.30 0.00 0.00 3.36
2170 3305 1.130561 GTCCGGCGATTTTTCAAGGAG 59.869 52.381 9.30 0.00 0.00 3.69
2171 3306 0.451783 CCGGCGATTTTTCAAGGAGG 59.548 55.000 9.30 0.00 0.00 4.30
2172 3307 0.179163 CGGCGATTTTTCAAGGAGGC 60.179 55.000 0.00 0.00 0.00 4.70
2173 3308 0.173481 GGCGATTTTTCAAGGAGGCC 59.827 55.000 0.00 0.00 0.00 5.19
2174 3309 0.173481 GCGATTTTTCAAGGAGGCCC 59.827 55.000 0.00 0.00 0.00 5.80
2175 3310 0.451783 CGATTTTTCAAGGAGGCCCG 59.548 55.000 0.00 0.00 37.58 6.13
2176 3311 0.817654 GATTTTTCAAGGAGGCCCGG 59.182 55.000 0.00 0.00 37.58 5.73
2177 3312 0.114364 ATTTTTCAAGGAGGCCCGGT 59.886 50.000 0.00 0.00 37.58 5.28
2178 3313 0.105913 TTTTTCAAGGAGGCCCGGTT 60.106 50.000 0.00 0.00 37.58 4.44
2179 3314 0.538746 TTTTCAAGGAGGCCCGGTTC 60.539 55.000 0.00 0.00 37.58 3.62
2180 3315 1.423794 TTTCAAGGAGGCCCGGTTCT 61.424 55.000 0.00 0.00 37.58 3.01
2181 3316 1.423794 TTCAAGGAGGCCCGGTTCTT 61.424 55.000 0.00 0.00 37.58 2.52
2182 3317 1.074951 CAAGGAGGCCCGGTTCTTT 59.925 57.895 0.00 0.00 37.58 2.52
2183 3318 0.539669 CAAGGAGGCCCGGTTCTTTT 60.540 55.000 0.00 0.00 37.58 2.27
2184 3319 0.187606 AAGGAGGCCCGGTTCTTTTT 59.812 50.000 0.00 0.00 37.58 1.94
2185 3320 0.251209 AGGAGGCCCGGTTCTTTTTC 60.251 55.000 0.00 0.00 37.58 2.29
2186 3321 0.251209 GGAGGCCCGGTTCTTTTTCT 60.251 55.000 0.00 0.00 0.00 2.52
2187 3322 1.617322 GAGGCCCGGTTCTTTTTCTT 58.383 50.000 0.00 0.00 0.00 2.52
2188 3323 1.269723 GAGGCCCGGTTCTTTTTCTTG 59.730 52.381 0.00 0.00 0.00 3.02
2189 3324 1.037493 GGCCCGGTTCTTTTTCTTGT 58.963 50.000 0.00 0.00 0.00 3.16
2190 3325 1.000607 GGCCCGGTTCTTTTTCTTGTC 60.001 52.381 0.00 0.00 0.00 3.18
2191 3326 1.334689 GCCCGGTTCTTTTTCTTGTCG 60.335 52.381 0.00 0.00 0.00 4.35
2192 3327 1.265905 CCCGGTTCTTTTTCTTGTCGG 59.734 52.381 0.00 0.00 36.43 4.79
2193 3328 1.944709 CCGGTTCTTTTTCTTGTCGGT 59.055 47.619 0.00 0.00 0.00 4.69
2194 3329 2.032290 CCGGTTCTTTTTCTTGTCGGTC 60.032 50.000 0.00 0.00 0.00 4.79
2195 3330 2.870411 CGGTTCTTTTTCTTGTCGGTCT 59.130 45.455 0.00 0.00 0.00 3.85
2196 3331 4.053295 CGGTTCTTTTTCTTGTCGGTCTA 58.947 43.478 0.00 0.00 0.00 2.59
2197 3332 4.508861 CGGTTCTTTTTCTTGTCGGTCTAA 59.491 41.667 0.00 0.00 0.00 2.10
2198 3333 5.333111 CGGTTCTTTTTCTTGTCGGTCTAAG 60.333 44.000 0.00 0.00 0.00 2.18
2199 3334 5.526479 GGTTCTTTTTCTTGTCGGTCTAAGT 59.474 40.000 0.00 0.00 0.00 2.24
2200 3335 6.037940 GGTTCTTTTTCTTGTCGGTCTAAGTT 59.962 38.462 0.00 0.00 0.00 2.66
2201 3336 7.414873 GGTTCTTTTTCTTGTCGGTCTAAGTTT 60.415 37.037 0.00 0.00 0.00 2.66
2202 3337 7.619964 TCTTTTTCTTGTCGGTCTAAGTTTT 57.380 32.000 0.00 0.00 0.00 2.43
2203 3338 8.047413 TCTTTTTCTTGTCGGTCTAAGTTTTT 57.953 30.769 0.00 0.00 0.00 1.94
2221 3356 2.695127 TTTTGTGGTACGGTGTGACT 57.305 45.000 0.00 0.00 0.00 3.41
2222 3357 3.815856 TTTTGTGGTACGGTGTGACTA 57.184 42.857 0.00 0.00 0.00 2.59
2223 3358 2.798976 TTGTGGTACGGTGTGACTAC 57.201 50.000 0.00 0.00 0.00 2.73
2224 3359 1.689984 TGTGGTACGGTGTGACTACA 58.310 50.000 0.00 0.00 35.03 2.74
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
77 78 5.599242 TGAACGGATGGAGTATATTGTACCA 59.401 40.000 0.00 0.00 35.09 3.25
93 94 7.484975 TCAACAACACTTATTTTTGAACGGAT 58.515 30.769 0.00 0.00 0.00 4.18
95 96 7.692908 ATCAACAACACTTATTTTTGAACGG 57.307 32.000 0.00 0.00 0.00 4.44
115 116 9.802039 AGGGAGTACAACTTTGTATTAAATCAA 57.198 29.630 5.16 0.00 44.59 2.57
143 144 6.928979 TTTCTTCAACAAGTAATTCGGACA 57.071 33.333 0.00 0.00 0.00 4.02
159 161 7.201938 GGCAATCCATTTCTATCCATTTCTTCA 60.202 37.037 0.00 0.00 0.00 3.02
162 164 6.041296 GTGGCAATCCATTTCTATCCATTTCT 59.959 38.462 0.00 0.00 45.62 2.52
163 165 6.183360 TGTGGCAATCCATTTCTATCCATTTC 60.183 38.462 0.00 0.00 45.62 2.17
164 166 5.662208 TGTGGCAATCCATTTCTATCCATTT 59.338 36.000 0.00 0.00 45.62 2.32
165 167 5.210430 TGTGGCAATCCATTTCTATCCATT 58.790 37.500 0.00 0.00 45.62 3.16
166 168 4.806892 TGTGGCAATCCATTTCTATCCAT 58.193 39.130 0.00 0.00 45.62 3.41
167 169 4.248174 TGTGGCAATCCATTTCTATCCA 57.752 40.909 0.00 0.00 45.62 3.41
168 170 4.646492 ACTTGTGGCAATCCATTTCTATCC 59.354 41.667 0.00 0.00 45.62 2.59
169 171 5.841957 ACTTGTGGCAATCCATTTCTATC 57.158 39.130 0.00 0.00 45.62 2.08
170 172 6.426587 ACTACTTGTGGCAATCCATTTCTAT 58.573 36.000 0.00 0.00 45.62 1.98
171 173 5.815581 ACTACTTGTGGCAATCCATTTCTA 58.184 37.500 0.00 0.00 45.62 2.10
185 187 2.413837 CTCCGTCCCAAACTACTTGTG 58.586 52.381 0.00 0.00 32.65 3.33
196 198 1.002069 TTAGTACTCCCTCCGTCCCA 58.998 55.000 0.00 0.00 0.00 4.37
211 213 7.383300 GTGTCCGTGATTTAGTACAAAGTTAGT 59.617 37.037 0.00 0.00 0.00 2.24
223 225 7.372451 TCCAAAATAAGTGTCCGTGATTTAG 57.628 36.000 0.00 0.00 0.00 1.85
372 374 7.030165 TGACAAACGTTCAACATGTTTAACAT 58.970 30.769 26.81 15.24 41.88 2.71
373 375 6.379386 TGACAAACGTTCAACATGTTTAACA 58.621 32.000 26.81 0.00 41.88 2.41
374 376 6.856494 TGACAAACGTTCAACATGTTTAAC 57.144 33.333 20.79 20.79 41.88 2.01
375 377 7.755373 TCAATGACAAACGTTCAACATGTTTAA 59.245 29.630 8.77 4.51 41.88 1.52
376 378 7.251281 TCAATGACAAACGTTCAACATGTTTA 58.749 30.769 8.77 0.00 41.88 2.01
377 379 6.096036 TCAATGACAAACGTTCAACATGTTT 58.904 32.000 8.77 0.00 44.20 2.83
378 380 5.645624 TCAATGACAAACGTTCAACATGTT 58.354 33.333 4.92 4.92 36.02 2.71
391 393 5.237048 GGCCTAAATTGCTTCAATGACAAA 58.763 37.500 0.00 0.00 34.04 2.83
393 395 3.119531 CGGCCTAAATTGCTTCAATGACA 60.120 43.478 0.00 0.00 34.04 3.58
408 410 2.698274 TCATGTCAATCTAGCGGCCTAA 59.302 45.455 0.00 0.00 0.00 2.69
413 415 6.605849 CCATTAATTCATGTCAATCTAGCGG 58.394 40.000 0.00 0.00 0.00 5.52
414 416 6.082338 GCCATTAATTCATGTCAATCTAGCG 58.918 40.000 0.00 0.00 0.00 4.26
419 421 5.239306 TCTCGGCCATTAATTCATGTCAATC 59.761 40.000 2.24 0.00 0.00 2.67
438 440 3.258622 GGGGTAGATCCAACTATTCTCGG 59.741 52.174 0.00 0.00 38.11 4.63
463 465 9.590451 ACGGTAATACCAATATATAAACATCGG 57.410 33.333 10.40 0.00 38.47 4.18
581 586 2.477863 GGCGAGGATGCACACAATAAAC 60.478 50.000 0.00 0.00 36.28 2.01
601 606 5.165961 CCCATATACCAGTCTAACATGGG 57.834 47.826 0.00 2.51 43.73 4.00
708 739 7.446013 ACTTTCCCATTTCTATTCACGTTTGTA 59.554 33.333 0.00 0.00 0.00 2.41
709 740 6.264518 ACTTTCCCATTTCTATTCACGTTTGT 59.735 34.615 0.00 0.00 0.00 2.83
744 775 4.178956 AGAGGTGCCAAAGGTTTCTTTA 57.821 40.909 0.00 0.00 40.92 1.85
753 784 3.288809 GCAAGTTAAGAGGTGCCAAAG 57.711 47.619 0.00 0.00 0.00 2.77
855 886 6.836954 GGTTTGTTTTACCTCGCTACTTAAGC 60.837 42.308 1.29 0.00 39.03 3.09
882 940 8.643324 GTTAATGGAGATACTACAGATTCCACT 58.357 37.037 0.00 0.00 37.52 4.00
891 949 4.220724 AGGCGGTTAATGGAGATACTACA 58.779 43.478 0.00 0.00 0.00 2.74
893 951 6.317140 CGTATAGGCGGTTAATGGAGATACTA 59.683 42.308 0.00 0.00 0.00 1.82
926 984 6.038603 TCCTGCCAGAAATTCAGAAATTATCG 59.961 38.462 0.00 0.00 33.93 2.92
977 1035 2.600769 ACCTCGCCGGTCAGTTCT 60.601 61.111 1.90 0.00 44.93 3.01
1178 1239 2.196382 CTCCGCTTTCCTCGTCGTCA 62.196 60.000 0.00 0.00 0.00 4.35
1431 2072 1.913403 CAAAAAGGAATCATCGCACGC 59.087 47.619 0.00 0.00 0.00 5.34
1476 2117 4.485024 ACTACATGCGATAGAACGGTAG 57.515 45.455 0.00 0.00 39.76 3.18
1485 2126 2.963101 ACAAGCCCTACTACATGCGATA 59.037 45.455 0.00 0.00 0.00 2.92
1502 2143 1.374758 GCGACAGGACCTCCACAAG 60.375 63.158 0.00 0.00 38.89 3.16
1508 2149 1.716826 CTACCTCGCGACAGGACCTC 61.717 65.000 20.15 0.00 36.96 3.85
1540 2181 5.344933 TGTGAGACAAAGTTCAATATCGACG 59.655 40.000 0.00 0.00 0.00 5.12
1570 2211 4.103153 TCGGCCTCCTCATCAAGATTATTT 59.897 41.667 0.00 0.00 0.00 1.40
1579 2220 2.444706 CCCTCGGCCTCCTCATCA 60.445 66.667 0.00 0.00 0.00 3.07
1580 2221 3.934962 GCCCTCGGCCTCCTCATC 61.935 72.222 0.00 0.00 44.06 2.92
1611 2252 8.547069 TCAGCCAAACAAAGATTTTATTTTTCG 58.453 29.630 0.00 0.00 0.00 3.46
1617 2741 8.125978 TCATCTCAGCCAAACAAAGATTTTAT 57.874 30.769 0.00 0.00 0.00 1.40
1618 2742 7.448161 TCTCATCTCAGCCAAACAAAGATTTTA 59.552 33.333 0.00 0.00 0.00 1.52
1626 2750 3.777106 ACTCTCATCTCAGCCAAACAA 57.223 42.857 0.00 0.00 0.00 2.83
1627 2751 5.426689 AATACTCTCATCTCAGCCAAACA 57.573 39.130 0.00 0.00 0.00 2.83
1628 2752 7.497249 ACATTAATACTCTCATCTCAGCCAAAC 59.503 37.037 0.00 0.00 0.00 2.93
1629 2753 7.568349 ACATTAATACTCTCATCTCAGCCAAA 58.432 34.615 0.00 0.00 0.00 3.28
1630 2754 7.129457 ACATTAATACTCTCATCTCAGCCAA 57.871 36.000 0.00 0.00 0.00 4.52
1631 2755 6.737720 ACATTAATACTCTCATCTCAGCCA 57.262 37.500 0.00 0.00 0.00 4.75
1632 2756 9.717942 AAATACATTAATACTCTCATCTCAGCC 57.282 33.333 0.00 0.00 0.00 4.85
1647 2771 9.874205 CTTGATGTGTTCCCAAAATACATTAAT 57.126 29.630 5.69 0.00 32.58 1.40
1661 2785 2.821969 ACTTGATGGCTTGATGTGTTCC 59.178 45.455 0.00 0.00 0.00 3.62
1674 2798 2.094258 CGGTCGTTCATTCACTTGATGG 59.906 50.000 0.00 0.00 0.00 3.51
1679 2803 1.148310 CTGCGGTCGTTCATTCACTT 58.852 50.000 0.00 0.00 0.00 3.16
1695 2819 3.337619 CATGCCTATGGTCGCTGC 58.662 61.111 0.00 0.00 0.00 5.25
1714 2838 2.668632 GAATCCACCACTGCCCGA 59.331 61.111 0.00 0.00 0.00 5.14
1721 2845 1.450312 CCTCAGCGGAATCCACCAC 60.450 63.158 0.00 0.00 33.16 4.16
1725 2849 0.032515 TCTACCCTCAGCGGAATCCA 60.033 55.000 0.00 0.00 33.16 3.41
1726 2850 1.069358 CTTCTACCCTCAGCGGAATCC 59.931 57.143 0.00 0.00 33.16 3.01
1750 2874 4.477975 GTCGTCTCGTCCCTGCCG 62.478 72.222 0.00 0.00 0.00 5.69
1765 2889 1.135460 CACTAACGTCCCTTCCTCGTC 60.135 57.143 0.00 0.00 36.80 4.20
1781 2905 0.107703 CTTGCAGGATTCCGCCACTA 60.108 55.000 14.21 0.00 0.00 2.74
1815 2939 1.627864 TCTCCGTGATGTCCTTGACA 58.372 50.000 0.00 0.00 46.90 3.58
1854 2989 1.683385 AGACCAAGAAAACCAGCAAGC 59.317 47.619 0.00 0.00 0.00 4.01
1866 3001 4.253685 GTTGATCATTCGGAAGACCAAGA 58.746 43.478 0.00 0.00 41.84 3.02
1883 3018 3.748048 CAGAAGATTGTGACGGTGTTGAT 59.252 43.478 0.00 0.00 0.00 2.57
1885 3020 2.349817 GCAGAAGATTGTGACGGTGTTG 60.350 50.000 0.00 0.00 0.00 3.33
1892 3027 3.325293 TGAGGAGCAGAAGATTGTGAC 57.675 47.619 0.00 0.00 0.00 3.67
1921 3056 4.766373 GTCTATGAGAGGATCATCTGAGCA 59.234 45.833 15.84 7.17 46.01 4.26
1948 3083 5.421277 TCAATGCTTTTATGATTTGCCCAG 58.579 37.500 0.00 0.00 0.00 4.45
1961 3096 5.360714 TCCTGAAACTGAACTCAATGCTTTT 59.639 36.000 0.00 0.00 0.00 2.27
1965 3100 4.516698 TCTTCCTGAAACTGAACTCAATGC 59.483 41.667 0.00 0.00 0.00 3.56
1982 3117 1.777272 AGTTTGGGTGCTCTTCTTCCT 59.223 47.619 0.00 0.00 0.00 3.36
1983 3118 2.278332 AGTTTGGGTGCTCTTCTTCC 57.722 50.000 0.00 0.00 0.00 3.46
1984 3119 3.632145 TCAAAGTTTGGGTGCTCTTCTTC 59.368 43.478 15.47 0.00 0.00 2.87
2013 3148 6.432581 TGGATTGTACTCATGGTAGTAGTCT 58.567 40.000 0.00 0.00 32.69 3.24
2016 3151 7.670140 TCCTATGGATTGTACTCATGGTAGTAG 59.330 40.741 0.00 0.00 32.69 2.57
2025 3160 6.548251 TGTACGATTCCTATGGATTGTACTCA 59.452 38.462 14.57 0.00 34.70 3.41
2033 3168 4.528206 TGCTCATGTACGATTCCTATGGAT 59.472 41.667 0.00 0.00 0.00 3.41
2040 3175 0.855349 CGCTGCTCATGTACGATTCC 59.145 55.000 0.00 0.00 0.00 3.01
2045 3180 1.431488 ATTGCCGCTGCTCATGTACG 61.431 55.000 0.70 0.00 38.71 3.67
2046 3181 0.305922 GATTGCCGCTGCTCATGTAC 59.694 55.000 0.70 0.00 38.71 2.90
2047 3182 0.815213 GGATTGCCGCTGCTCATGTA 60.815 55.000 0.70 0.00 38.71 2.29
2048 3183 2.117156 GGATTGCCGCTGCTCATGT 61.117 57.895 0.70 0.00 38.71 3.21
2049 3184 1.822613 AGGATTGCCGCTGCTCATG 60.823 57.895 0.70 0.00 39.96 3.07
2050 3185 1.822613 CAGGATTGCCGCTGCTCAT 60.823 57.895 0.70 0.00 39.96 2.90
2051 3186 2.437180 CAGGATTGCCGCTGCTCA 60.437 61.111 0.70 0.00 39.96 4.26
2052 3187 3.207669 CCAGGATTGCCGCTGCTC 61.208 66.667 0.70 0.00 39.96 4.26
2053 3188 3.720601 TCCAGGATTGCCGCTGCT 61.721 61.111 0.70 0.00 39.96 4.24
2054 3189 3.512516 GTCCAGGATTGCCGCTGC 61.513 66.667 0.00 0.00 39.96 5.25
2055 3190 1.452651 ATGTCCAGGATTGCCGCTG 60.453 57.895 0.00 0.00 39.96 5.18
2056 3191 1.452651 CATGTCCAGGATTGCCGCT 60.453 57.895 0.00 0.00 39.96 5.52
2057 3192 0.820891 ATCATGTCCAGGATTGCCGC 60.821 55.000 0.00 0.00 39.96 6.53
2058 3193 1.233019 GATCATGTCCAGGATTGCCG 58.767 55.000 0.00 0.00 39.96 5.69
2059 3194 1.233019 CGATCATGTCCAGGATTGCC 58.767 55.000 0.00 0.00 31.30 4.52
2060 3195 1.233019 CCGATCATGTCCAGGATTGC 58.767 55.000 0.00 0.00 33.02 3.56
2061 3196 1.233019 GCCGATCATGTCCAGGATTG 58.767 55.000 0.00 2.83 31.30 2.67
2062 3197 0.109342 GGCCGATCATGTCCAGGATT 59.891 55.000 0.00 0.00 31.30 3.01
2063 3198 1.757306 GGCCGATCATGTCCAGGAT 59.243 57.895 0.00 0.00 34.17 3.24
2064 3199 2.443394 GGGCCGATCATGTCCAGGA 61.443 63.158 0.00 0.00 0.00 3.86
2065 3200 2.111878 GGGCCGATCATGTCCAGG 59.888 66.667 0.00 0.00 0.00 4.45
2066 3201 1.070445 GAGGGCCGATCATGTCCAG 59.930 63.158 0.00 0.00 0.00 3.86
2067 3202 2.443394 GGAGGGCCGATCATGTCCA 61.443 63.158 8.68 0.00 0.00 4.02
2068 3203 2.427753 GGAGGGCCGATCATGTCC 59.572 66.667 8.68 0.00 0.00 4.02
2069 3204 1.227674 GTGGAGGGCCGATCATGTC 60.228 63.158 8.68 0.00 36.79 3.06
2070 3205 2.911143 GTGGAGGGCCGATCATGT 59.089 61.111 8.68 0.00 36.79 3.21
2071 3206 2.280389 CGTGGAGGGCCGATCATG 60.280 66.667 8.68 0.00 36.79 3.07
2072 3207 4.241555 GCGTGGAGGGCCGATCAT 62.242 66.667 8.68 0.00 36.79 2.45
2074 3209 4.593864 GAGCGTGGAGGGCCGATC 62.594 72.222 0.00 0.00 36.79 3.69
2078 3213 3.672295 CTTGAGAGCGTGGAGGGCC 62.672 68.421 0.00 0.00 0.00 5.80
2079 3214 2.125350 CTTGAGAGCGTGGAGGGC 60.125 66.667 0.00 0.00 0.00 5.19
2080 3215 2.125350 GCTTGAGAGCGTGGAGGG 60.125 66.667 0.00 0.00 39.48 4.30
2089 3224 1.221293 CTGCCCTCCTGCTTGAGAG 59.779 63.158 4.84 0.00 34.11 3.20
2090 3225 2.296365 CCTGCCCTCCTGCTTGAGA 61.296 63.158 4.84 0.00 34.11 3.27
2091 3226 2.271497 CCTGCCCTCCTGCTTGAG 59.729 66.667 0.00 0.00 0.00 3.02
2092 3227 3.333219 CCCTGCCCTCCTGCTTGA 61.333 66.667 0.00 0.00 0.00 3.02
2093 3228 4.437587 CCCCTGCCCTCCTGCTTG 62.438 72.222 0.00 0.00 0.00 4.01
2109 3244 0.839853 AGCTATCATCAGGGAGGCCC 60.840 60.000 0.00 0.00 45.90 5.80
2110 3245 1.063183 AAGCTATCATCAGGGAGGCC 58.937 55.000 0.00 0.00 0.00 5.19
2111 3246 1.271271 CCAAGCTATCATCAGGGAGGC 60.271 57.143 0.00 0.00 0.00 4.70
2112 3247 2.053244 ACCAAGCTATCATCAGGGAGG 58.947 52.381 0.00 0.00 0.00 4.30
2113 3248 2.437281 ACACCAAGCTATCATCAGGGAG 59.563 50.000 0.00 0.00 0.00 4.30
2114 3249 2.171237 CACACCAAGCTATCATCAGGGA 59.829 50.000 0.00 0.00 0.00 4.20
2115 3250 2.171237 TCACACCAAGCTATCATCAGGG 59.829 50.000 0.00 0.00 0.00 4.45
2116 3251 3.464907 CTCACACCAAGCTATCATCAGG 58.535 50.000 0.00 0.00 0.00 3.86
2117 3252 2.871022 GCTCACACCAAGCTATCATCAG 59.129 50.000 0.00 0.00 36.80 2.90
2118 3253 2.739609 CGCTCACACCAAGCTATCATCA 60.740 50.000 0.00 0.00 37.62 3.07
2119 3254 1.863454 CGCTCACACCAAGCTATCATC 59.137 52.381 0.00 0.00 37.62 2.92
2120 3255 1.482182 TCGCTCACACCAAGCTATCAT 59.518 47.619 0.00 0.00 37.62 2.45
2121 3256 0.894835 TCGCTCACACCAAGCTATCA 59.105 50.000 0.00 0.00 37.62 2.15
2122 3257 1.863454 CATCGCTCACACCAAGCTATC 59.137 52.381 0.00 0.00 37.62 2.08
2123 3258 1.482182 TCATCGCTCACACCAAGCTAT 59.518 47.619 0.00 0.00 37.62 2.97
2124 3259 0.894835 TCATCGCTCACACCAAGCTA 59.105 50.000 0.00 0.00 37.62 3.32
2125 3260 0.035317 TTCATCGCTCACACCAAGCT 59.965 50.000 0.00 0.00 37.62 3.74
2126 3261 1.063174 GATTCATCGCTCACACCAAGC 59.937 52.381 0.00 0.00 36.38 4.01
2127 3262 1.325640 CGATTCATCGCTCACACCAAG 59.674 52.381 0.00 0.00 43.84 3.61
2128 3263 1.358877 CGATTCATCGCTCACACCAA 58.641 50.000 0.00 0.00 43.84 3.67
2129 3264 3.049227 CGATTCATCGCTCACACCA 57.951 52.632 0.00 0.00 43.84 4.17
2139 3274 1.661821 CGCCGGACCTCGATTCATC 60.662 63.158 5.05 0.00 42.43 2.92
2140 3275 1.464376 ATCGCCGGACCTCGATTCAT 61.464 55.000 5.05 0.00 42.03 2.57
2141 3276 2.125326 ATCGCCGGACCTCGATTCA 61.125 57.895 5.05 0.00 42.03 2.57
2142 3277 2.728817 ATCGCCGGACCTCGATTC 59.271 61.111 5.05 0.00 42.03 2.52
2143 3278 3.217231 AATCGCCGGACCTCGATT 58.783 55.556 18.09 18.09 46.62 3.34
2144 3279 0.107848 AAAAATCGCCGGACCTCGAT 60.108 50.000 5.05 7.35 46.03 3.59
2145 3280 0.738412 GAAAAATCGCCGGACCTCGA 60.738 55.000 5.05 4.62 42.43 4.04
2146 3281 1.017177 TGAAAAATCGCCGGACCTCG 61.017 55.000 5.05 0.00 38.88 4.63
2147 3282 1.130561 CTTGAAAAATCGCCGGACCTC 59.869 52.381 5.05 0.00 0.00 3.85
2148 3283 1.165270 CTTGAAAAATCGCCGGACCT 58.835 50.000 5.05 0.00 0.00 3.85
2149 3284 0.170339 CCTTGAAAAATCGCCGGACC 59.830 55.000 5.05 0.00 0.00 4.46
2150 3285 1.130561 CTCCTTGAAAAATCGCCGGAC 59.869 52.381 5.05 0.00 0.00 4.79
2151 3286 1.448985 CTCCTTGAAAAATCGCCGGA 58.551 50.000 5.05 0.00 0.00 5.14
2152 3287 0.451783 CCTCCTTGAAAAATCGCCGG 59.548 55.000 0.00 0.00 0.00 6.13
2153 3288 0.179163 GCCTCCTTGAAAAATCGCCG 60.179 55.000 0.00 0.00 0.00 6.46
2154 3289 0.173481 GGCCTCCTTGAAAAATCGCC 59.827 55.000 0.00 0.00 0.00 5.54
2155 3290 0.173481 GGGCCTCCTTGAAAAATCGC 59.827 55.000 0.84 0.00 0.00 4.58
2156 3291 0.451783 CGGGCCTCCTTGAAAAATCG 59.548 55.000 0.84 0.00 0.00 3.34
2157 3292 0.817654 CCGGGCCTCCTTGAAAAATC 59.182 55.000 0.84 0.00 0.00 2.17
2158 3293 0.114364 ACCGGGCCTCCTTGAAAAAT 59.886 50.000 6.32 0.00 0.00 1.82
2159 3294 0.105913 AACCGGGCCTCCTTGAAAAA 60.106 50.000 6.32 0.00 0.00 1.94
2160 3295 0.538746 GAACCGGGCCTCCTTGAAAA 60.539 55.000 6.32 0.00 0.00 2.29
2161 3296 1.074248 GAACCGGGCCTCCTTGAAA 59.926 57.895 6.32 0.00 0.00 2.69
2162 3297 1.423794 AAGAACCGGGCCTCCTTGAA 61.424 55.000 6.32 0.00 0.00 2.69
2163 3298 1.423794 AAAGAACCGGGCCTCCTTGA 61.424 55.000 6.32 0.00 0.00 3.02
2164 3299 0.539669 AAAAGAACCGGGCCTCCTTG 60.540 55.000 6.32 0.00 0.00 3.61
2165 3300 0.187606 AAAAAGAACCGGGCCTCCTT 59.812 50.000 6.32 0.00 0.00 3.36
2166 3301 0.251209 GAAAAAGAACCGGGCCTCCT 60.251 55.000 6.32 0.00 0.00 3.69
2167 3302 0.251209 AGAAAAAGAACCGGGCCTCC 60.251 55.000 6.32 0.00 0.00 4.30
2168 3303 1.269723 CAAGAAAAAGAACCGGGCCTC 59.730 52.381 6.32 0.00 0.00 4.70
2169 3304 1.328279 CAAGAAAAAGAACCGGGCCT 58.672 50.000 6.32 0.00 0.00 5.19
2170 3305 1.000607 GACAAGAAAAAGAACCGGGCC 60.001 52.381 6.32 0.00 0.00 5.80
2171 3306 1.334689 CGACAAGAAAAAGAACCGGGC 60.335 52.381 6.32 0.00 0.00 6.13
2172 3307 1.265905 CCGACAAGAAAAAGAACCGGG 59.734 52.381 6.32 0.00 32.84 5.73
2173 3308 1.944709 ACCGACAAGAAAAAGAACCGG 59.055 47.619 0.00 0.00 41.24 5.28
2174 3309 2.870411 AGACCGACAAGAAAAAGAACCG 59.130 45.455 0.00 0.00 0.00 4.44
2175 3310 5.526479 ACTTAGACCGACAAGAAAAAGAACC 59.474 40.000 0.00 0.00 0.00 3.62
2176 3311 6.600246 ACTTAGACCGACAAGAAAAAGAAC 57.400 37.500 0.00 0.00 0.00 3.01
2177 3312 7.619964 AAACTTAGACCGACAAGAAAAAGAA 57.380 32.000 0.00 0.00 0.00 2.52
2178 3313 7.619964 AAAACTTAGACCGACAAGAAAAAGA 57.380 32.000 0.00 0.00 0.00 2.52
2201 3336 2.988570 AGTCACACCGTACCACAAAAA 58.011 42.857 0.00 0.00 0.00 1.94
2202 3337 2.695127 AGTCACACCGTACCACAAAA 57.305 45.000 0.00 0.00 0.00 2.44
2203 3338 2.429971 TGTAGTCACACCGTACCACAAA 59.570 45.455 0.00 0.00 0.00 2.83
2204 3339 2.030371 TGTAGTCACACCGTACCACAA 58.970 47.619 0.00 0.00 0.00 3.33
2205 3340 1.689984 TGTAGTCACACCGTACCACA 58.310 50.000 0.00 0.00 0.00 4.17


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

AutoCloner maintained by Alex Coulton.