Multiple sequence alignment - TraesCS6D01G093900

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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 TraesCS6D01G093900 chr6D 100.000 2411 0 0 1 2411 58459181 58456771 0.000000e+00 4453.0
1 TraesCS6D01G093900 chr6D 78.458 441 76 12 342 772 68648879 68648448 1.100000e-68 270.0
2 TraesCS6D01G093900 chr6D 82.375 261 42 3 2112 2369 159599853 159600112 8.670000e-55 224.0
3 TraesCS6D01G093900 chr6D 93.056 72 5 0 682 753 58528552 58528481 3.280000e-19 106.0
4 TraesCS6D01G093900 chr6B 92.691 1423 81 9 179 1593 131929067 131927660 0.000000e+00 2030.0
5 TraesCS6D01G093900 chr6B 93.323 674 30 3 1752 2411 131159680 131159008 0.000000e+00 981.0
6 TraesCS6D01G093900 chr6B 91.733 629 40 1 644 1260 131169720 131169092 0.000000e+00 863.0
7 TraesCS6D01G093900 chr6B 93.472 337 22 0 1257 1593 131168935 131168599 3.580000e-138 501.0
8 TraesCS6D01G093900 chr6B 95.270 296 14 0 1595 1890 131927532 131927237 1.010000e-128 470.0
9 TraesCS6D01G093900 chr6B 88.235 357 29 6 1070 1426 131148990 131148647 4.800000e-112 414.0
10 TraesCS6D01G093900 chr6B 93.293 164 10 1 1595 1758 131168472 131168310 8.610000e-60 241.0
11 TraesCS6D01G093900 chr6B 92.373 118 9 0 957 1074 131157827 131157710 4.120000e-38 169.0
12 TraesCS6D01G093900 chr6A 90.986 1176 51 19 94 1239 73678622 73677472 0.000000e+00 1533.0
13 TraesCS6D01G093900 chr6A 96.636 327 9 1 2087 2411 73677473 73677147 2.110000e-150 542.0
14 TraesCS6D01G093900 chr6A 77.474 586 118 12 690 1265 73818923 73819504 2.970000e-89 339.0
15 TraesCS6D01G093900 chr6A 82.028 217 33 4 692 902 73653971 73653755 1.900000e-41 180.0
16 TraesCS6D01G093900 chr6A 100.000 45 0 0 1750 1794 73669215 73669259 1.540000e-12 84.2
17 TraesCS6D01G093900 chr1A 80.195 308 50 6 2115 2411 275733584 275733891 1.120000e-53 220.0
18 TraesCS6D01G093900 chr4D 80.443 271 49 3 2102 2369 236929634 236929365 1.130000e-48 204.0
19 TraesCS6D01G093900 chr1B 86.364 66 7 2 1529 1593 12706248 12706184 1.200000e-08 71.3


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 TraesCS6D01G093900 chr6D 58456771 58459181 2410 True 4453.0 4453 100.000000 1 2411 1 chr6D.!!$R1 2410
1 TraesCS6D01G093900 chr6B 131927237 131929067 1830 True 1250.0 2030 93.980500 179 1890 2 chr6B.!!$R4 1711
2 TraesCS6D01G093900 chr6B 131157710 131159680 1970 True 575.0 981 92.848000 957 2411 2 chr6B.!!$R2 1454
3 TraesCS6D01G093900 chr6B 131168310 131169720 1410 True 535.0 863 92.832667 644 1758 3 chr6B.!!$R3 1114
4 TraesCS6D01G093900 chr6A 73677147 73678622 1475 True 1037.5 1533 93.811000 94 2411 2 chr6A.!!$R2 2317
5 TraesCS6D01G093900 chr6A 73818923 73819504 581 False 339.0 339 77.474000 690 1265 1 chr6A.!!$F2 575

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
150 155 0.322098 TGTTGGGCTGTTGTATCCCG 60.322 55.0 0.0 0.0 42.98 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1974 3158 0.102663 GCTCACTAGTAGGAACCGCC 59.897 60.0 1.45 0.0 0.0 6.13 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
17 18 4.472702 GGACGTCGACAACTAGGC 57.527 61.111 17.16 0.00 0.00 3.93
19 20 0.456312 GGACGTCGACAACTAGGCTG 60.456 60.000 17.16 0.00 0.00 4.85
20 21 1.071567 GACGTCGACAACTAGGCTGC 61.072 60.000 17.16 0.00 0.00 5.25
21 22 1.213013 CGTCGACAACTAGGCTGCT 59.787 57.895 17.16 0.00 0.00 4.24
24 25 1.473278 GTCGACAACTAGGCTGCTAGT 59.527 52.381 11.55 2.91 41.46 2.57
26 27 2.943690 TCGACAACTAGGCTGCTAGTAG 59.056 50.000 3.05 3.05 39.04 2.57
28 29 3.025262 GACAACTAGGCTGCTAGTAGGT 58.975 50.000 10.06 11.43 39.04 3.08
29 30 3.025262 ACAACTAGGCTGCTAGTAGGTC 58.975 50.000 10.06 0.00 39.04 3.85
36 37 3.875865 TGCTAGTAGGTCGCAGAGA 57.124 52.632 0.00 0.00 36.95 3.10
148 153 0.802494 CGTGTTGGGCTGTTGTATCC 59.198 55.000 0.00 0.00 0.00 2.59
150 155 0.322098 TGTTGGGCTGTTGTATCCCG 60.322 55.000 0.00 0.00 42.98 5.14
151 156 1.029947 GTTGGGCTGTTGTATCCCGG 61.030 60.000 0.00 0.00 42.98 5.73
152 157 2.192175 GGGCTGTTGTATCCCGGG 59.808 66.667 16.85 16.85 0.00 5.73
167 178 2.751688 GGGCCCAGTACGAAACCA 59.248 61.111 19.95 0.00 0.00 3.67
200 211 5.023533 TGGAGATCGATTCCCTACAAAAG 57.976 43.478 18.17 0.00 33.62 2.27
201 212 4.141711 TGGAGATCGATTCCCTACAAAAGG 60.142 45.833 18.17 0.00 46.09 3.11
234 253 3.312828 GAGATCAATTCGTGGAGATCGG 58.687 50.000 0.00 0.00 41.24 4.18
288 313 5.003804 TCCTCGATTTCTTTTTCTGGGAAG 58.996 41.667 0.00 0.00 0.00 3.46
290 315 4.398319 TCGATTTCTTTTTCTGGGAAGCT 58.602 39.130 0.00 0.00 0.00 3.74
293 318 5.048434 CGATTTCTTTTTCTGGGAAGCTCTT 60.048 40.000 0.00 0.00 0.00 2.85
601 634 0.914644 CTGCCTCCAGGATCCTGAAA 59.085 55.000 38.37 25.30 46.30 2.69
602 635 1.493871 CTGCCTCCAGGATCCTGAAAT 59.506 52.381 38.37 3.63 46.30 2.17
617 650 2.228582 CTGAAATGCCATCGACCAACAA 59.771 45.455 0.00 0.00 0.00 2.83
687 720 3.132084 GGCACCAGCAGCTTTGTT 58.868 55.556 0.00 0.00 44.61 2.83
735 768 0.463474 GCCTCAAGGATGACTGCCTC 60.463 60.000 0.00 0.00 37.39 4.70
876 921 0.394565 AGGCAGACCTCACTGTCAAC 59.605 55.000 0.00 0.00 46.34 3.18
960 1005 3.102097 GCACAACTATGCGGCTCC 58.898 61.111 0.00 0.00 35.50 4.70
1219 2117 1.980765 TCACTTTGGATCTGGCTGAGT 59.019 47.619 0.00 0.00 0.00 3.41
1282 2340 1.271054 TGGCAAGAGACTTTGAGAGGC 60.271 52.381 0.00 0.00 0.00 4.70
1301 2359 3.437049 AGGCTGCGAGACATAAAAAGAAC 59.563 43.478 0.00 0.00 0.00 3.01
1305 2363 3.678072 TGCGAGACATAAAAAGAACCGAG 59.322 43.478 0.00 0.00 0.00 4.63
1332 2390 4.836125 TGAGCAATTGAAGAAGAACCAC 57.164 40.909 10.34 0.00 0.00 4.16
1365 2423 5.172232 CGTGTGTGATATTCTCGATGAAGTC 59.828 44.000 0.00 0.00 38.18 3.01
1371 2429 7.436376 TGTGATATTCTCGATGAAGTCATTGAC 59.564 37.037 8.82 8.82 40.76 3.18
1382 2440 6.940831 TGAAGTCATTGACAAACTGAATCA 57.059 33.333 18.57 6.92 34.60 2.57
1388 2446 3.988379 TGACAAACTGAATCAACAGGC 57.012 42.857 0.00 0.00 41.59 4.85
1401 2459 7.592938 TGAATCAACAGGCTGTAATTACTTTG 58.407 34.615 22.37 12.77 0.00 2.77
1405 2463 4.010349 ACAGGCTGTAATTACTTTGCCTC 58.990 43.478 29.64 15.77 41.87 4.70
1418 2476 0.674581 TTGCCTCCGTGATCTGCAAG 60.675 55.000 0.00 0.00 37.04 4.01
1434 2492 4.991056 TCTGCAAGAAGTGACACTACAATC 59.009 41.667 8.91 2.58 42.31 2.67
1438 2496 6.138761 GCAAGAAGTGACACTACAATCTTTG 58.861 40.000 14.76 12.05 30.93 2.77
1529 2587 5.044846 CCTTTCCTATTCCCTCTCTTCCAAA 60.045 44.000 0.00 0.00 0.00 3.28
1541 2599 6.266330 CCCTCTCTTCCAAAATTCTTGAAGTT 59.734 38.462 9.35 0.00 0.00 2.66
1593 2651 3.826729 AGTTTGGCCAAGTCTATTGGAAC 59.173 43.478 19.48 9.82 42.06 3.62
1661 2845 4.202461 ACTCCATGGCTAAAGACAAACTCA 60.202 41.667 6.96 0.00 36.16 3.41
1745 2929 5.768317 TGCCTTTCTTTGTACATTAAGCAC 58.232 37.500 0.00 0.00 0.00 4.40
1773 2957 9.462174 CATGCAAACTTAAGTGACAAATTCTAA 57.538 29.630 9.34 0.00 0.00 2.10
1821 3005 2.671888 GACTTTAGAGGCGGTTTGCTAC 59.328 50.000 0.00 0.00 45.43 3.58
1823 3007 2.088950 TTAGAGGCGGTTTGCTACAC 57.911 50.000 0.00 0.00 45.43 2.90
1859 3043 5.047660 GGTCTCACTTACCATATCTAGCCAG 60.048 48.000 0.00 0.00 36.96 4.85
1861 3045 3.255888 TCACTTACCATATCTAGCCAGCG 59.744 47.826 0.00 0.00 0.00 5.18
1886 3070 6.757010 GGTCGCTAATACTCATAATACCATGG 59.243 42.308 11.19 11.19 0.00 3.66
1890 3074 2.859165 ACTCATAATACCATGGCCGG 57.141 50.000 13.04 0.00 0.00 6.13
1891 3075 2.054799 ACTCATAATACCATGGCCGGT 58.945 47.619 13.04 7.53 43.46 5.28
1892 3076 2.441750 ACTCATAATACCATGGCCGGTT 59.558 45.455 13.04 4.21 40.67 4.44
1893 3077 3.117663 ACTCATAATACCATGGCCGGTTT 60.118 43.478 13.04 5.34 40.67 3.27
1894 3078 3.482436 TCATAATACCATGGCCGGTTTC 58.518 45.455 13.04 0.00 40.67 2.78
1895 3079 3.137544 TCATAATACCATGGCCGGTTTCT 59.862 43.478 13.04 0.00 40.67 2.52
1896 3080 4.348461 TCATAATACCATGGCCGGTTTCTA 59.652 41.667 13.04 0.00 40.67 2.10
1897 3081 2.632987 ATACCATGGCCGGTTTCTAC 57.367 50.000 13.04 0.00 40.67 2.59
1898 3082 1.277579 TACCATGGCCGGTTTCTACA 58.722 50.000 13.04 0.00 40.67 2.74
1899 3083 0.322187 ACCATGGCCGGTTTCTACAC 60.322 55.000 13.04 0.00 34.91 2.90
1900 3084 0.322098 CCATGGCCGGTTTCTACACA 60.322 55.000 1.90 0.00 0.00 3.72
1901 3085 1.086696 CATGGCCGGTTTCTACACAG 58.913 55.000 1.90 0.00 0.00 3.66
1902 3086 0.690762 ATGGCCGGTTTCTACACAGT 59.309 50.000 1.90 0.00 0.00 3.55
1903 3087 0.034337 TGGCCGGTTTCTACACAGTC 59.966 55.000 1.90 0.00 0.00 3.51
1904 3088 0.320697 GGCCGGTTTCTACACAGTCT 59.679 55.000 1.90 0.00 0.00 3.24
1905 3089 1.672145 GGCCGGTTTCTACACAGTCTC 60.672 57.143 1.90 0.00 0.00 3.36
1906 3090 1.672145 GCCGGTTTCTACACAGTCTCC 60.672 57.143 1.90 0.00 0.00 3.71
1907 3091 1.616865 CCGGTTTCTACACAGTCTCCA 59.383 52.381 0.00 0.00 0.00 3.86
1908 3092 2.036733 CCGGTTTCTACACAGTCTCCAA 59.963 50.000 0.00 0.00 0.00 3.53
1909 3093 3.306780 CCGGTTTCTACACAGTCTCCAAT 60.307 47.826 0.00 0.00 0.00 3.16
1910 3094 4.081862 CCGGTTTCTACACAGTCTCCAATA 60.082 45.833 0.00 0.00 0.00 1.90
1911 3095 5.475719 CGGTTTCTACACAGTCTCCAATAA 58.524 41.667 0.00 0.00 0.00 1.40
1912 3096 5.347907 CGGTTTCTACACAGTCTCCAATAAC 59.652 44.000 0.00 0.00 0.00 1.89
1913 3097 6.228258 GGTTTCTACACAGTCTCCAATAACA 58.772 40.000 0.00 0.00 0.00 2.41
1914 3098 6.879458 GGTTTCTACACAGTCTCCAATAACAT 59.121 38.462 0.00 0.00 0.00 2.71
1915 3099 7.064728 GGTTTCTACACAGTCTCCAATAACATC 59.935 40.741 0.00 0.00 0.00 3.06
1916 3100 7.482169 TTCTACACAGTCTCCAATAACATCT 57.518 36.000 0.00 0.00 0.00 2.90
1917 3101 8.589701 TTCTACACAGTCTCCAATAACATCTA 57.410 34.615 0.00 0.00 0.00 1.98
1918 3102 8.768501 TCTACACAGTCTCCAATAACATCTAT 57.231 34.615 0.00 0.00 0.00 1.98
1919 3103 8.851145 TCTACACAGTCTCCAATAACATCTATC 58.149 37.037 0.00 0.00 0.00 2.08
1920 3104 7.667575 ACACAGTCTCCAATAACATCTATCT 57.332 36.000 0.00 0.00 0.00 1.98
1921 3105 7.721402 ACACAGTCTCCAATAACATCTATCTC 58.279 38.462 0.00 0.00 0.00 2.75
1922 3106 6.860539 CACAGTCTCCAATAACATCTATCTCG 59.139 42.308 0.00 0.00 0.00 4.04
1923 3107 6.015856 ACAGTCTCCAATAACATCTATCTCGG 60.016 42.308 0.00 0.00 0.00 4.63
1924 3108 5.478679 AGTCTCCAATAACATCTATCTCGGG 59.521 44.000 0.00 0.00 0.00 5.14
1925 3109 4.772624 TCTCCAATAACATCTATCTCGGGG 59.227 45.833 0.00 0.00 0.00 5.73
1926 3110 3.838317 TCCAATAACATCTATCTCGGGGG 59.162 47.826 0.00 0.00 0.00 5.40
1927 3111 3.583086 CCAATAACATCTATCTCGGGGGT 59.417 47.826 0.00 0.00 0.00 4.95
1928 3112 4.041691 CCAATAACATCTATCTCGGGGGTT 59.958 45.833 0.00 0.00 0.00 4.11
1929 3113 5.456186 CCAATAACATCTATCTCGGGGGTTT 60.456 44.000 0.00 0.00 0.00 3.27
1930 3114 6.239772 CCAATAACATCTATCTCGGGGGTTTA 60.240 42.308 0.00 0.00 0.00 2.01
1931 3115 4.957684 AACATCTATCTCGGGGGTTTAG 57.042 45.455 0.00 0.00 0.00 1.85
1932 3116 4.194678 ACATCTATCTCGGGGGTTTAGA 57.805 45.455 0.00 0.00 0.00 2.10
1933 3117 3.896272 ACATCTATCTCGGGGGTTTAGAC 59.104 47.826 0.00 0.00 0.00 2.59
1934 3118 3.967467 TCTATCTCGGGGGTTTAGACT 57.033 47.619 0.00 0.00 0.00 3.24
1935 3119 5.163012 ACATCTATCTCGGGGGTTTAGACTA 60.163 44.000 0.00 0.00 0.00 2.59
1936 3120 5.595814 TCTATCTCGGGGGTTTAGACTAT 57.404 43.478 0.00 0.00 0.00 2.12
1937 3121 5.961897 TCTATCTCGGGGGTTTAGACTATT 58.038 41.667 0.00 0.00 0.00 1.73
1938 3122 6.008960 TCTATCTCGGGGGTTTAGACTATTC 58.991 44.000 0.00 0.00 0.00 1.75
1939 3123 2.954318 TCTCGGGGGTTTAGACTATTCG 59.046 50.000 0.00 0.00 0.00 3.34
1940 3124 2.034124 TCGGGGGTTTAGACTATTCGG 58.966 52.381 0.00 0.00 0.00 4.30
1941 3125 1.539712 CGGGGGTTTAGACTATTCGGC 60.540 57.143 0.00 0.00 0.00 5.54
1942 3126 1.767088 GGGGGTTTAGACTATTCGGCT 59.233 52.381 0.00 0.00 0.00 5.52
1943 3127 2.484947 GGGGGTTTAGACTATTCGGCTG 60.485 54.545 0.00 0.00 0.00 4.85
1944 3128 2.433239 GGGGTTTAGACTATTCGGCTGA 59.567 50.000 0.00 0.00 0.00 4.26
1945 3129 3.118519 GGGGTTTAGACTATTCGGCTGAA 60.119 47.826 11.11 11.11 38.76 3.02
1946 3130 4.120589 GGGTTTAGACTATTCGGCTGAAG 58.879 47.826 14.43 3.25 37.57 3.02
1947 3131 4.142004 GGGTTTAGACTATTCGGCTGAAGA 60.142 45.833 14.43 8.38 37.57 2.87
1948 3132 5.416947 GGTTTAGACTATTCGGCTGAAGAA 58.583 41.667 14.43 3.62 37.57 2.52
1949 3133 5.291371 GGTTTAGACTATTCGGCTGAAGAAC 59.709 44.000 14.43 6.41 37.57 3.01
1950 3134 3.528597 AGACTATTCGGCTGAAGAACC 57.471 47.619 14.43 3.83 37.57 3.62
1957 3141 3.551259 GGCTGAAGAACCGATTGGA 57.449 52.632 5.81 0.00 39.21 3.53
1958 3142 1.821216 GGCTGAAGAACCGATTGGAA 58.179 50.000 5.81 0.00 39.21 3.53
1959 3143 2.369394 GGCTGAAGAACCGATTGGAAT 58.631 47.619 5.81 0.00 39.21 3.01
1960 3144 3.541632 GGCTGAAGAACCGATTGGAATA 58.458 45.455 5.81 0.00 39.21 1.75
1961 3145 3.312697 GGCTGAAGAACCGATTGGAATAC 59.687 47.826 5.81 0.00 39.21 1.89
1962 3146 4.192317 GCTGAAGAACCGATTGGAATACT 58.808 43.478 5.81 0.00 39.21 2.12
1963 3147 4.636206 GCTGAAGAACCGATTGGAATACTT 59.364 41.667 5.81 5.35 39.21 2.24
1964 3148 5.447818 GCTGAAGAACCGATTGGAATACTTG 60.448 44.000 5.81 0.00 39.21 3.16
1965 3149 5.800296 TGAAGAACCGATTGGAATACTTGA 58.200 37.500 5.81 0.00 39.21 3.02
1966 3150 5.874810 TGAAGAACCGATTGGAATACTTGAG 59.125 40.000 5.81 0.00 39.21 3.02
1967 3151 5.422214 AGAACCGATTGGAATACTTGAGT 57.578 39.130 5.81 0.00 39.21 3.41
1968 3152 5.805728 AGAACCGATTGGAATACTTGAGTT 58.194 37.500 5.81 0.00 39.21 3.01
1969 3153 5.643777 AGAACCGATTGGAATACTTGAGTTG 59.356 40.000 5.81 0.00 39.21 3.16
1970 3154 4.906618 ACCGATTGGAATACTTGAGTTGT 58.093 39.130 5.81 0.00 39.21 3.32
1971 3155 5.313712 ACCGATTGGAATACTTGAGTTGTT 58.686 37.500 5.81 0.00 39.21 2.83
1972 3156 5.768164 ACCGATTGGAATACTTGAGTTGTTT 59.232 36.000 5.81 0.00 39.21 2.83
1973 3157 6.938030 ACCGATTGGAATACTTGAGTTGTTTA 59.062 34.615 5.81 0.00 39.21 2.01
1974 3158 7.119262 ACCGATTGGAATACTTGAGTTGTTTAG 59.881 37.037 5.81 0.00 39.21 1.85
1975 3159 7.414098 CCGATTGGAATACTTGAGTTGTTTAGG 60.414 40.741 0.00 0.00 37.49 2.69
1976 3160 6.569179 TTGGAATACTTGAGTTGTTTAGGC 57.431 37.500 0.00 0.00 0.00 3.93
1977 3161 4.693566 TGGAATACTTGAGTTGTTTAGGCG 59.306 41.667 0.00 0.00 0.00 5.52
1978 3162 4.094442 GGAATACTTGAGTTGTTTAGGCGG 59.906 45.833 0.00 0.00 0.00 6.13
1979 3163 2.632987 ACTTGAGTTGTTTAGGCGGT 57.367 45.000 0.00 0.00 0.00 5.68
1980 3164 2.927028 ACTTGAGTTGTTTAGGCGGTT 58.073 42.857 0.00 0.00 0.00 4.44
1981 3165 2.876550 ACTTGAGTTGTTTAGGCGGTTC 59.123 45.455 0.00 0.00 0.00 3.62
1982 3166 1.886886 TGAGTTGTTTAGGCGGTTCC 58.113 50.000 0.00 0.00 0.00 3.62
1984 3168 2.633967 TGAGTTGTTTAGGCGGTTCCTA 59.366 45.455 0.00 0.00 45.41 2.94
1985 3169 2.998670 GAGTTGTTTAGGCGGTTCCTAC 59.001 50.000 0.00 0.00 46.80 3.18
1986 3170 2.636403 AGTTGTTTAGGCGGTTCCTACT 59.364 45.455 0.00 0.00 46.80 2.57
1987 3171 3.834231 AGTTGTTTAGGCGGTTCCTACTA 59.166 43.478 0.00 0.00 46.80 1.82
1988 3172 4.081807 AGTTGTTTAGGCGGTTCCTACTAG 60.082 45.833 0.00 0.00 46.80 2.57
1989 3173 3.434309 TGTTTAGGCGGTTCCTACTAGT 58.566 45.455 0.00 0.00 46.80 2.57
1990 3174 3.194116 TGTTTAGGCGGTTCCTACTAGTG 59.806 47.826 5.39 0.00 46.80 2.74
1991 3175 3.370840 TTAGGCGGTTCCTACTAGTGA 57.629 47.619 5.39 0.00 46.80 3.41
1992 3176 1.765230 AGGCGGTTCCTACTAGTGAG 58.235 55.000 5.39 0.00 45.41 3.51
1993 3177 0.102663 GGCGGTTCCTACTAGTGAGC 59.897 60.000 5.39 0.00 0.00 4.26
1994 3178 1.104630 GCGGTTCCTACTAGTGAGCT 58.895 55.000 5.39 0.00 0.00 4.09
1995 3179 1.202313 GCGGTTCCTACTAGTGAGCTG 60.202 57.143 5.39 3.66 0.00 4.24
1996 3180 1.202313 CGGTTCCTACTAGTGAGCTGC 60.202 57.143 5.39 0.00 0.00 5.25
1997 3181 1.825474 GGTTCCTACTAGTGAGCTGCA 59.175 52.381 5.39 0.00 0.00 4.41
1998 3182 2.432510 GGTTCCTACTAGTGAGCTGCAT 59.567 50.000 5.39 0.00 0.00 3.96
1999 3183 3.637229 GGTTCCTACTAGTGAGCTGCATA 59.363 47.826 5.39 0.00 0.00 3.14
2000 3184 4.099573 GGTTCCTACTAGTGAGCTGCATAA 59.900 45.833 5.39 0.00 0.00 1.90
2001 3185 5.395324 GGTTCCTACTAGTGAGCTGCATAAA 60.395 44.000 5.39 0.00 0.00 1.40
2002 3186 6.284459 GTTCCTACTAGTGAGCTGCATAAAT 58.716 40.000 5.39 0.00 0.00 1.40
2003 3187 6.485830 TCCTACTAGTGAGCTGCATAAATT 57.514 37.500 5.39 0.00 0.00 1.82
2004 3188 7.597288 TCCTACTAGTGAGCTGCATAAATTA 57.403 36.000 5.39 0.00 0.00 1.40
2005 3189 8.195165 TCCTACTAGTGAGCTGCATAAATTAT 57.805 34.615 5.39 0.00 0.00 1.28
2006 3190 9.309224 TCCTACTAGTGAGCTGCATAAATTATA 57.691 33.333 5.39 0.00 0.00 0.98
2013 3197 9.948964 AGTGAGCTGCATAAATTATATATCACA 57.051 29.630 1.02 0.00 35.73 3.58
2045 3229 7.643528 ACACATATTATAAGTCTCGCATGTG 57.356 36.000 0.00 0.00 44.66 3.21
2046 3230 7.210174 ACACATATTATAAGTCTCGCATGTGT 58.790 34.615 6.09 10.35 46.19 3.72
2047 3231 8.076714 CACATATTATAAGTCTCGCATGTGTT 57.923 34.615 6.09 0.00 38.01 3.32
2048 3232 8.551205 CACATATTATAAGTCTCGCATGTGTTT 58.449 33.333 6.09 0.49 38.01 2.83
2049 3233 8.765219 ACATATTATAAGTCTCGCATGTGTTTC 58.235 33.333 6.09 0.00 0.00 2.78
2050 3234 8.764287 CATATTATAAGTCTCGCATGTGTTTCA 58.236 33.333 6.09 0.00 0.00 2.69
2051 3235 7.792374 ATTATAAGTCTCGCATGTGTTTCAT 57.208 32.000 6.09 0.00 37.22 2.57
2052 3236 5.725110 ATAAGTCTCGCATGTGTTTCATC 57.275 39.130 6.09 0.00 34.09 2.92
2053 3237 3.044235 AGTCTCGCATGTGTTTCATCA 57.956 42.857 6.09 0.00 34.09 3.07
2054 3238 3.402110 AGTCTCGCATGTGTTTCATCAA 58.598 40.909 6.09 0.00 34.09 2.57
2055 3239 3.814842 AGTCTCGCATGTGTTTCATCAAA 59.185 39.130 6.09 0.00 34.09 2.69
2056 3240 4.275689 AGTCTCGCATGTGTTTCATCAAAA 59.724 37.500 6.09 0.00 34.09 2.44
2057 3241 5.048504 AGTCTCGCATGTGTTTCATCAAAAT 60.049 36.000 6.09 0.00 34.09 1.82
2058 3242 6.149308 AGTCTCGCATGTGTTTCATCAAAATA 59.851 34.615 6.09 0.00 34.09 1.40
2059 3243 6.801377 GTCTCGCATGTGTTTCATCAAAATAA 59.199 34.615 6.09 0.00 34.09 1.40
2060 3244 7.485913 GTCTCGCATGTGTTTCATCAAAATAAT 59.514 33.333 6.09 0.00 34.09 1.28
2061 3245 8.028354 TCTCGCATGTGTTTCATCAAAATAATT 58.972 29.630 6.09 0.00 34.09 1.40
2062 3246 7.951287 TCGCATGTGTTTCATCAAAATAATTG 58.049 30.769 6.09 0.00 34.09 2.32
2063 3247 7.811713 TCGCATGTGTTTCATCAAAATAATTGA 59.188 29.630 6.09 0.00 34.09 2.57
2064 3248 7.894247 CGCATGTGTTTCATCAAAATAATTGAC 59.106 33.333 0.00 0.00 34.09 3.18
2065 3249 8.170553 GCATGTGTTTCATCAAAATAATTGACC 58.829 33.333 0.00 0.00 34.09 4.02
2066 3250 9.205719 CATGTGTTTCATCAAAATAATTGACCA 57.794 29.630 0.00 0.00 34.09 4.02
2067 3251 8.586570 TGTGTTTCATCAAAATAATTGACCAC 57.413 30.769 0.00 0.00 0.00 4.16
2068 3252 8.420222 TGTGTTTCATCAAAATAATTGACCACT 58.580 29.630 0.00 0.00 0.00 4.00
2069 3253 8.702438 GTGTTTCATCAAAATAATTGACCACTG 58.298 33.333 0.00 0.00 0.00 3.66
2070 3254 8.637099 TGTTTCATCAAAATAATTGACCACTGA 58.363 29.630 0.00 0.00 0.00 3.41
2071 3255 9.643693 GTTTCATCAAAATAATTGACCACTGAT 57.356 29.630 0.00 0.00 0.00 2.90
2074 3258 9.642327 TCATCAAAATAATTGACCACTGATTTG 57.358 29.630 0.00 0.00 0.00 2.32
2075 3259 8.875803 CATCAAAATAATTGACCACTGATTTGG 58.124 33.333 0.00 0.00 43.04 3.28
2119 3303 5.072600 ACAAGTCACAAAAGGGTATACTCCA 59.927 40.000 0.00 0.00 0.00 3.86
2177 3361 3.937814 TGGACGTGATGCAATCTTAACT 58.062 40.909 0.00 0.00 45.81 2.24
2225 3409 1.448540 ATCAAGCAACGGGAGCTCG 60.449 57.895 7.83 0.00 42.53 5.03
2253 3437 0.458669 GCTCCATGAAACCATGCCTG 59.541 55.000 0.00 0.00 39.96 4.85
2254 3438 1.956636 GCTCCATGAAACCATGCCTGA 60.957 52.381 0.00 0.00 39.96 3.86
2303 3487 0.541863 CGAGGACCTTGGCTAATGGT 59.458 55.000 0.00 4.11 36.70 3.55
2334 3520 4.864334 CCTGGCTCCGTCCATGCC 62.864 72.222 0.00 0.00 46.26 4.40
2338 3524 2.512515 GCTCCGTCCATGCCACTC 60.513 66.667 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.456312 CAGCCTAGTTGTCGACGTCC 60.456 60.000 10.58 0.72 0.00 4.79
1 2 1.071567 GCAGCCTAGTTGTCGACGTC 61.072 60.000 11.62 5.18 0.00 4.34
4 5 2.196295 CTAGCAGCCTAGTTGTCGAC 57.804 55.000 9.11 9.11 36.99 4.20
12 13 0.594110 GCGACCTACTAGCAGCCTAG 59.406 60.000 0.00 0.00 45.35 3.02
13 14 0.106868 TGCGACCTACTAGCAGCCTA 60.107 55.000 0.00 0.00 35.81 3.93
15 16 3.207354 TGCGACCTACTAGCAGCC 58.793 61.111 0.00 0.00 35.81 4.85
19 20 0.305313 CGTCTCTGCGACCTACTAGC 59.695 60.000 0.00 0.00 39.56 3.42
20 21 0.305313 GCGTCTCTGCGACCTACTAG 59.695 60.000 0.00 0.00 39.56 2.57
21 22 2.391469 GCGTCTCTGCGACCTACTA 58.609 57.895 0.00 0.00 39.56 1.82
148 153 2.435410 GTTTCGTACTGGGCCCGG 60.435 66.667 30.26 30.26 0.00 5.73
150 155 1.673337 GTGGTTTCGTACTGGGCCC 60.673 63.158 17.59 17.59 0.00 5.80
151 156 1.673337 GGTGGTTTCGTACTGGGCC 60.673 63.158 0.00 0.00 0.00 5.80
152 157 0.535553 TTGGTGGTTTCGTACTGGGC 60.536 55.000 0.00 0.00 0.00 5.36
219 238 1.831736 AGGAACCGATCTCCACGAATT 59.168 47.619 2.60 0.00 35.20 2.17
221 240 1.263356 AAGGAACCGATCTCCACGAA 58.737 50.000 2.60 0.00 35.20 3.85
222 241 2.133281 TAAGGAACCGATCTCCACGA 57.867 50.000 2.60 0.00 35.20 4.35
252 277 6.767456 AGAAATCGAGGAGCATATCAATCTT 58.233 36.000 0.00 0.00 0.00 2.40
257 282 7.011763 CAGAAAAAGAAATCGAGGAGCATATCA 59.988 37.037 0.00 0.00 0.00 2.15
266 291 4.379918 GCTTCCCAGAAAAAGAAATCGAGG 60.380 45.833 0.00 0.00 0.00 4.63
288 313 1.334243 GGCATGATCAAGAGCAAGAGC 59.666 52.381 16.67 0.00 42.56 4.09
290 315 1.660167 CGGCATGATCAAGAGCAAGA 58.340 50.000 16.67 0.00 0.00 3.02
293 318 1.820906 GCCGGCATGATCAAGAGCA 60.821 57.895 24.80 0.00 0.00 4.26
471 502 1.567504 CGTTTGGGTAGTAGGCGATG 58.432 55.000 0.00 0.00 0.00 3.84
601 634 3.959535 AAATTTGTTGGTCGATGGCAT 57.040 38.095 0.00 0.00 0.00 4.40
602 635 5.398603 AATAAATTTGTTGGTCGATGGCA 57.601 34.783 0.00 0.00 0.00 4.92
706 739 4.003788 CTTGAGGCACCCGGACGT 62.004 66.667 0.73 0.00 0.00 4.34
735 768 0.110688 CAACGGTGCACTTGATCACG 60.111 55.000 17.98 12.16 34.20 4.35
876 921 2.080286 AACTCTTGGACGAACCGATG 57.920 50.000 0.00 0.00 42.61 3.84
959 1004 3.474600 CTCTACCTGCTTTCCATCATGG 58.525 50.000 0.00 0.00 39.43 3.66
960 1005 2.877168 GCTCTACCTGCTTTCCATCATG 59.123 50.000 0.00 0.00 0.00 3.07
1219 2117 2.147958 GAGCCGTTGACAATTGTACCA 58.852 47.619 11.95 3.23 0.00 3.25
1282 2340 3.678072 TCGGTTCTTTTTATGTCTCGCAG 59.322 43.478 0.00 0.00 0.00 5.18
1301 2359 2.368439 TCAATTGCTCAAATCCCTCGG 58.632 47.619 0.00 0.00 0.00 4.63
1305 2363 5.649782 TCTTCTTCAATTGCTCAAATCCC 57.350 39.130 0.00 0.00 0.00 3.85
1365 2423 4.682860 GCCTGTTGATTCAGTTTGTCAATG 59.317 41.667 0.00 0.00 34.71 2.82
1371 2429 3.996150 ACAGCCTGTTGATTCAGTTTG 57.004 42.857 0.00 0.00 34.02 2.93
1382 2440 4.407365 AGGCAAAGTAATTACAGCCTGTT 58.593 39.130 31.44 18.02 44.11 3.16
1388 2446 4.250464 TCACGGAGGCAAAGTAATTACAG 58.750 43.478 17.65 8.12 0.00 2.74
1401 2459 0.391661 TTCTTGCAGATCACGGAGGC 60.392 55.000 0.00 0.00 0.00 4.70
1405 2463 1.728971 GTCACTTCTTGCAGATCACGG 59.271 52.381 0.00 0.00 0.00 4.94
1418 2476 7.653713 TCTTCTCAAAGATTGTAGTGTCACTTC 59.346 37.037 11.54 6.74 36.59 3.01
1434 2492 6.229733 ACTTCTCACCAATCTCTTCTCAAAG 58.770 40.000 0.00 0.00 0.00 2.77
1438 2496 5.659440 AGACTTCTCACCAATCTCTTCTC 57.341 43.478 0.00 0.00 0.00 2.87
1451 2509 8.853077 ATGAATGTGTTGAAATAGACTTCTCA 57.147 30.769 0.00 0.00 0.00 3.27
1493 2551 7.959152 AGGGAATAGGAAAGGAAAACCAAATTA 59.041 33.333 0.00 0.00 0.00 1.40
1496 2554 5.722290 AGGGAATAGGAAAGGAAAACCAAA 58.278 37.500 0.00 0.00 0.00 3.28
1511 2569 7.831193 TCAAGAATTTTGGAAGAGAGGGAATAG 59.169 37.037 2.07 0.00 0.00 1.73
1529 2587 7.736893 AGGGCGTATCTATAACTTCAAGAATT 58.263 34.615 0.00 0.00 0.00 2.17
1541 2599 6.964807 TGTTTGACTTAGGGCGTATCTATA 57.035 37.500 0.00 0.00 0.00 1.31
1593 2651 2.496070 TGTCAATCAGGTACTCCTTCCG 59.504 50.000 0.00 0.00 43.07 4.30
1721 2905 6.040391 AGTGCTTAATGTACAAAGAAAGGCAA 59.960 34.615 10.81 0.00 33.54 4.52
1722 2906 5.534654 AGTGCTTAATGTACAAAGAAAGGCA 59.465 36.000 10.81 7.53 33.54 4.75
1745 2929 7.864379 AGAATTTGTCACTTAAGTTTGCATGAG 59.136 33.333 5.07 0.00 0.00 2.90
1763 2947 7.398024 ACTAGTGCTTCATCCTTAGAATTTGT 58.602 34.615 0.00 0.00 0.00 2.83
1773 2957 5.381184 TCTCTCTACTAGTGCTTCATCCT 57.619 43.478 5.39 0.00 0.00 3.24
1821 3005 2.743928 GACCGCCCAGAAGCTGTG 60.744 66.667 0.00 0.00 29.64 3.66
1823 3007 2.125350 GAGACCGCCCAGAAGCTG 60.125 66.667 0.00 0.00 0.00 4.24
1831 3015 1.117150 TATGGTAAGTGAGACCGCCC 58.883 55.000 0.00 0.00 40.09 6.13
1859 3043 4.797349 GGTATTATGAGTATTAGCGACCGC 59.203 45.833 6.25 6.25 42.33 5.68
1861 3045 6.757010 CCATGGTATTATGAGTATTAGCGACC 59.243 42.308 2.57 0.00 0.00 4.79
1886 3070 1.672145 GGAGACTGTGTAGAAACCGGC 60.672 57.143 0.00 0.00 0.00 6.13
1890 3074 7.819900 AGATGTTATTGGAGACTGTGTAGAAAC 59.180 37.037 0.00 0.00 0.00 2.78
1891 3075 7.907389 AGATGTTATTGGAGACTGTGTAGAAA 58.093 34.615 0.00 0.00 0.00 2.52
1892 3076 7.482169 AGATGTTATTGGAGACTGTGTAGAA 57.518 36.000 0.00 0.00 0.00 2.10
1893 3077 8.768501 ATAGATGTTATTGGAGACTGTGTAGA 57.231 34.615 0.00 0.00 0.00 2.59
1894 3078 8.855110 AGATAGATGTTATTGGAGACTGTGTAG 58.145 37.037 0.00 0.00 0.00 2.74
1895 3079 8.768501 AGATAGATGTTATTGGAGACTGTGTA 57.231 34.615 0.00 0.00 0.00 2.90
1896 3080 7.469318 CGAGATAGATGTTATTGGAGACTGTGT 60.469 40.741 0.00 0.00 0.00 3.72
1897 3081 6.860539 CGAGATAGATGTTATTGGAGACTGTG 59.139 42.308 0.00 0.00 0.00 3.66
1898 3082 6.015856 CCGAGATAGATGTTATTGGAGACTGT 60.016 42.308 0.00 0.00 0.00 3.55
1899 3083 6.385843 CCGAGATAGATGTTATTGGAGACTG 58.614 44.000 0.00 0.00 0.00 3.51
1900 3084 5.478679 CCCGAGATAGATGTTATTGGAGACT 59.521 44.000 0.00 0.00 0.00 3.24
1901 3085 5.336849 CCCCGAGATAGATGTTATTGGAGAC 60.337 48.000 0.00 0.00 0.00 3.36
1902 3086 4.772624 CCCCGAGATAGATGTTATTGGAGA 59.227 45.833 0.00 0.00 0.00 3.71
1903 3087 4.081420 CCCCCGAGATAGATGTTATTGGAG 60.081 50.000 0.00 0.00 0.00 3.86
1904 3088 3.838317 CCCCCGAGATAGATGTTATTGGA 59.162 47.826 0.00 0.00 0.00 3.53
1905 3089 3.583086 ACCCCCGAGATAGATGTTATTGG 59.417 47.826 0.00 0.00 0.00 3.16
1906 3090 4.891992 ACCCCCGAGATAGATGTTATTG 57.108 45.455 0.00 0.00 0.00 1.90
1907 3091 5.906772 AAACCCCCGAGATAGATGTTATT 57.093 39.130 0.00 0.00 0.00 1.40
1908 3092 6.210984 GTCTAAACCCCCGAGATAGATGTTAT 59.789 42.308 0.00 0.00 0.00 1.89
1909 3093 5.537674 GTCTAAACCCCCGAGATAGATGTTA 59.462 44.000 0.00 0.00 0.00 2.41
1910 3094 4.344390 GTCTAAACCCCCGAGATAGATGTT 59.656 45.833 0.00 0.00 0.00 2.71
1911 3095 3.896272 GTCTAAACCCCCGAGATAGATGT 59.104 47.826 0.00 0.00 0.00 3.06
1912 3096 4.153411 AGTCTAAACCCCCGAGATAGATG 58.847 47.826 0.00 0.00 0.00 2.90
1913 3097 4.472690 AGTCTAAACCCCCGAGATAGAT 57.527 45.455 0.00 0.00 0.00 1.98
1914 3098 3.967467 AGTCTAAACCCCCGAGATAGA 57.033 47.619 0.00 0.00 0.00 1.98
1915 3099 5.106237 CGAATAGTCTAAACCCCCGAGATAG 60.106 48.000 0.00 0.00 0.00 2.08
1916 3100 4.763793 CGAATAGTCTAAACCCCCGAGATA 59.236 45.833 0.00 0.00 0.00 1.98
1917 3101 3.573110 CGAATAGTCTAAACCCCCGAGAT 59.427 47.826 0.00 0.00 0.00 2.75
1918 3102 2.954318 CGAATAGTCTAAACCCCCGAGA 59.046 50.000 0.00 0.00 0.00 4.04
1919 3103 2.035576 CCGAATAGTCTAAACCCCCGAG 59.964 54.545 0.00 0.00 0.00 4.63
1920 3104 2.034124 CCGAATAGTCTAAACCCCCGA 58.966 52.381 0.00 0.00 0.00 5.14
1921 3105 1.539712 GCCGAATAGTCTAAACCCCCG 60.540 57.143 0.00 0.00 0.00 5.73
1922 3106 1.767088 AGCCGAATAGTCTAAACCCCC 59.233 52.381 0.00 0.00 0.00 5.40
1923 3107 2.433239 TCAGCCGAATAGTCTAAACCCC 59.567 50.000 0.00 0.00 0.00 4.95
1924 3108 3.814005 TCAGCCGAATAGTCTAAACCC 57.186 47.619 0.00 0.00 0.00 4.11
1925 3109 5.007385 TCTTCAGCCGAATAGTCTAAACC 57.993 43.478 0.00 0.00 0.00 3.27
1926 3110 5.291371 GGTTCTTCAGCCGAATAGTCTAAAC 59.709 44.000 0.00 0.00 0.00 2.01
1927 3111 5.416947 GGTTCTTCAGCCGAATAGTCTAAA 58.583 41.667 0.00 0.00 0.00 1.85
1928 3112 5.007385 GGTTCTTCAGCCGAATAGTCTAA 57.993 43.478 0.00 0.00 0.00 2.10
1929 3113 4.650754 GGTTCTTCAGCCGAATAGTCTA 57.349 45.455 0.00 0.00 0.00 2.59
1930 3114 3.528597 GGTTCTTCAGCCGAATAGTCT 57.471 47.619 0.00 0.00 0.00 3.24
1939 3123 1.821216 TTCCAATCGGTTCTTCAGCC 58.179 50.000 0.00 0.00 0.00 4.85
1940 3124 4.192317 AGTATTCCAATCGGTTCTTCAGC 58.808 43.478 0.00 0.00 0.00 4.26
1941 3125 5.874810 TCAAGTATTCCAATCGGTTCTTCAG 59.125 40.000 0.00 0.00 0.00 3.02
1942 3126 5.800296 TCAAGTATTCCAATCGGTTCTTCA 58.200 37.500 0.00 0.00 0.00 3.02
1943 3127 5.875359 ACTCAAGTATTCCAATCGGTTCTTC 59.125 40.000 0.00 0.00 0.00 2.87
1944 3128 5.805728 ACTCAAGTATTCCAATCGGTTCTT 58.194 37.500 0.00 0.00 0.00 2.52
1945 3129 5.422214 ACTCAAGTATTCCAATCGGTTCT 57.578 39.130 0.00 0.00 0.00 3.01
1946 3130 5.411669 ACAACTCAAGTATTCCAATCGGTTC 59.588 40.000 0.00 0.00 0.00 3.62
1947 3131 5.313712 ACAACTCAAGTATTCCAATCGGTT 58.686 37.500 0.00 0.00 0.00 4.44
1948 3132 4.906618 ACAACTCAAGTATTCCAATCGGT 58.093 39.130 0.00 0.00 0.00 4.69
1949 3133 5.880054 AACAACTCAAGTATTCCAATCGG 57.120 39.130 0.00 0.00 0.00 4.18
1950 3134 7.464358 CCTAAACAACTCAAGTATTCCAATCG 58.536 38.462 0.00 0.00 0.00 3.34
1951 3135 7.251281 GCCTAAACAACTCAAGTATTCCAATC 58.749 38.462 0.00 0.00 0.00 2.67
1952 3136 6.128007 CGCCTAAACAACTCAAGTATTCCAAT 60.128 38.462 0.00 0.00 0.00 3.16
1953 3137 5.180492 CGCCTAAACAACTCAAGTATTCCAA 59.820 40.000 0.00 0.00 0.00 3.53
1954 3138 4.693566 CGCCTAAACAACTCAAGTATTCCA 59.306 41.667 0.00 0.00 0.00 3.53
1955 3139 4.094442 CCGCCTAAACAACTCAAGTATTCC 59.906 45.833 0.00 0.00 0.00 3.01
1956 3140 4.694037 ACCGCCTAAACAACTCAAGTATTC 59.306 41.667 0.00 0.00 0.00 1.75
1957 3141 4.648651 ACCGCCTAAACAACTCAAGTATT 58.351 39.130 0.00 0.00 0.00 1.89
1958 3142 4.281898 ACCGCCTAAACAACTCAAGTAT 57.718 40.909 0.00 0.00 0.00 2.12
1959 3143 3.756933 ACCGCCTAAACAACTCAAGTA 57.243 42.857 0.00 0.00 0.00 2.24
1960 3144 2.632987 ACCGCCTAAACAACTCAAGT 57.367 45.000 0.00 0.00 0.00 3.16
1961 3145 2.225727 GGAACCGCCTAAACAACTCAAG 59.774 50.000 0.00 0.00 0.00 3.02
1962 3146 2.223745 GGAACCGCCTAAACAACTCAA 58.776 47.619 0.00 0.00 0.00 3.02
1963 3147 1.886886 GGAACCGCCTAAACAACTCA 58.113 50.000 0.00 0.00 0.00 3.41
1974 3158 0.102663 GCTCACTAGTAGGAACCGCC 59.897 60.000 1.45 0.00 0.00 6.13
1975 3159 1.104630 AGCTCACTAGTAGGAACCGC 58.895 55.000 1.45 0.00 0.00 5.68
1976 3160 1.202313 GCAGCTCACTAGTAGGAACCG 60.202 57.143 1.45 0.00 0.00 4.44
1977 3161 1.825474 TGCAGCTCACTAGTAGGAACC 59.175 52.381 1.45 0.00 0.00 3.62
1978 3162 3.810310 ATGCAGCTCACTAGTAGGAAC 57.190 47.619 1.45 0.00 0.00 3.62
1979 3163 5.932619 TTTATGCAGCTCACTAGTAGGAA 57.067 39.130 1.45 0.00 0.00 3.36
1980 3164 6.485830 AATTTATGCAGCTCACTAGTAGGA 57.514 37.500 1.45 0.00 0.00 2.94
1987 3171 9.948964 TGTGATATATAATTTATGCAGCTCACT 57.051 29.630 0.00 0.00 31.74 3.41
2019 3203 9.358872 CACATGCGAGACTTATAATATGTGTAT 57.641 33.333 0.00 0.00 39.30 2.29
2020 3204 8.742554 CACATGCGAGACTTATAATATGTGTA 57.257 34.615 0.00 0.00 39.30 2.90
2021 3205 7.643528 CACATGCGAGACTTATAATATGTGT 57.356 36.000 0.00 0.00 39.30 3.72
2022 3206 7.643528 ACACATGCGAGACTTATAATATGTG 57.356 36.000 0.00 0.00 45.69 3.21
2023 3207 8.662781 AAACACATGCGAGACTTATAATATGT 57.337 30.769 0.00 0.00 0.00 2.29
2024 3208 8.764287 TGAAACACATGCGAGACTTATAATATG 58.236 33.333 0.00 0.00 0.00 1.78
2025 3209 8.887036 TGAAACACATGCGAGACTTATAATAT 57.113 30.769 0.00 0.00 0.00 1.28
2026 3210 8.887036 ATGAAACACATGCGAGACTTATAATA 57.113 30.769 0.00 0.00 37.87 0.98
2027 3211 7.495606 TGATGAAACACATGCGAGACTTATAAT 59.504 33.333 0.00 0.00 39.56 1.28
2028 3212 6.816140 TGATGAAACACATGCGAGACTTATAA 59.184 34.615 0.00 0.00 39.56 0.98
2029 3213 6.337356 TGATGAAACACATGCGAGACTTATA 58.663 36.000 0.00 0.00 39.56 0.98
2030 3214 5.178061 TGATGAAACACATGCGAGACTTAT 58.822 37.500 0.00 0.00 39.56 1.73
2031 3215 4.565022 TGATGAAACACATGCGAGACTTA 58.435 39.130 0.00 0.00 39.56 2.24
2032 3216 3.402110 TGATGAAACACATGCGAGACTT 58.598 40.909 0.00 0.00 39.56 3.01
2033 3217 3.044235 TGATGAAACACATGCGAGACT 57.956 42.857 0.00 0.00 39.56 3.24
2034 3218 3.811722 TTGATGAAACACATGCGAGAC 57.188 42.857 0.00 0.00 39.56 3.36
2035 3219 4.827304 TTTTGATGAAACACATGCGAGA 57.173 36.364 0.00 0.00 39.56 4.04
2036 3220 7.745022 ATTATTTTGATGAAACACATGCGAG 57.255 32.000 0.00 0.00 39.56 5.03
2037 3221 7.811713 TCAATTATTTTGATGAAACACATGCGA 59.188 29.630 0.00 0.00 39.56 5.10
2038 3222 7.894247 GTCAATTATTTTGATGAAACACATGCG 59.106 33.333 0.00 0.00 39.56 4.73
2039 3223 8.170553 GGTCAATTATTTTGATGAAACACATGC 58.829 33.333 0.00 0.00 39.56 4.06
2040 3224 9.205719 TGGTCAATTATTTTGATGAAACACATG 57.794 29.630 0.00 0.00 39.56 3.21
2041 3225 9.206870 GTGGTCAATTATTTTGATGAAACACAT 57.793 29.630 0.00 0.00 42.47 3.21
2042 3226 8.420222 AGTGGTCAATTATTTTGATGAAACACA 58.580 29.630 0.00 0.00 35.82 3.72
2043 3227 8.702438 CAGTGGTCAATTATTTTGATGAAACAC 58.298 33.333 0.00 0.00 34.65 3.32
2044 3228 8.637099 TCAGTGGTCAATTATTTTGATGAAACA 58.363 29.630 0.00 0.00 0.00 2.83
2045 3229 9.643693 ATCAGTGGTCAATTATTTTGATGAAAC 57.356 29.630 0.00 0.00 0.00 2.78
2048 3232 9.642327 CAAATCAGTGGTCAATTATTTTGATGA 57.358 29.630 0.00 0.00 0.00 2.92
2049 3233 8.875803 CCAAATCAGTGGTCAATTATTTTGATG 58.124 33.333 0.00 0.00 33.63 3.07
2084 3268 9.449719 CCCTTTTGTGACTTGTAACTAATAGAT 57.550 33.333 0.00 0.00 0.00 1.98
2085 3269 8.434392 ACCCTTTTGTGACTTGTAACTAATAGA 58.566 33.333 0.00 0.00 0.00 1.98
2086 3270 8.617290 ACCCTTTTGTGACTTGTAACTAATAG 57.383 34.615 0.00 0.00 0.00 1.73
2138 3322 1.607628 CCATCTACTAAGGGGACGACG 59.392 57.143 0.00 0.00 0.00 5.12
2225 3409 0.464373 TTTCATGGAGCCAGATCCGC 60.464 55.000 0.00 0.00 42.77 5.54
2253 3437 4.935352 AAGTAGATCAGCTGAGGATGTC 57.065 45.455 22.96 14.02 0.00 3.06
2254 3438 4.469227 ACAAAGTAGATCAGCTGAGGATGT 59.531 41.667 22.96 15.39 0.00 3.06
2303 3487 1.672030 CCAGGCTGACAACGATGCA 60.672 57.895 17.94 0.00 0.00 3.96
2334 3520 4.872691 GGTGAGTGACATCAATAAGGAGTG 59.127 45.833 0.00 0.00 0.00 3.51
2338 3524 3.618594 CGTGGTGAGTGACATCAATAAGG 59.381 47.826 0.00 0.00 41.58 2.69


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

AutoCloner maintained by Alex Coulton.