Locus 6890

Sequence ID 2L_DroMel_CAF1
Location 19,254,858 – 19,254,955
Length 97
Max. P 0.691776
window10984 window10985

overview

Window 4

Location 19,254,858 – 19,254,955
Length 97
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 84.79
Mean single sequence MFE -30.98
Consensus MFE -23.18
Energy contribution -24.49
Covariance contribution 1.31
Combinations/Pair 1.17
Mean z-score -1.51
Structure conservation index 0.75
SVM decision value 0.10
SVM RNA-class probability 0.581216
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19254858 97 + 22407834
AUUGCAAUGGAUUUGGGCAAGGGGU-UGGGGUAGUAUUUGAUAGCUUUCUGUGGACUUUCCUCCCCCAAACCCCUUCACGCACUGCUGCCUAAUGGCC
........((..(((((((((((((-(((((.((...((.((((....)))).)).....)).)))).))))))))...((...)).))))))...)) ( -31.30)
>DroSim_CAF1 2029 97 + 1
AUUGCAAUGGAUUUCGGCAAGGGGU-UGGGGUAGUUUUUGAUAGCUUGCUGUGGACUUUCCUCCCCCAAACCCCUGCACACACUGCUGCCUAAUGGCC
...(((.((.......(((.(((((-(((((.((...((.((((....)))).)).....)).)))).)))))))))...)).))).(((....))). ( -33.70)
>DroEre_CAF1 3013 83 + 1
AUUGCAAUGGAUUUGGGUAAGGGGUUUGGGGUAGUUUUUGAUAGCUUUCUGUGGA---------------CUCCUGCACACACUGCUGCCUAAUGGCC
........((..(((((((((((((..(.((.((((......))))..)).)..)---------------)))))(((.....))))))))))...)) ( -24.40)
>DroYak_CAF1 2065 97 + 1
AUUGCAAUGGAUUUGGGUAAGGGGU-UGGGGAAGUUUUCGAUAGCUUUCUGUGGACUUCCCCCCCUGGGACUCCUGCACACACUGCUGCCUAAUGGCC
...(((.((.....((((..((((.-.(((((((((..(((......)).)..)))))))))))))...)).))......)).))).(((....))). ( -34.50)
>consensus
AUUGCAAUGGAUUUGGGCAAGGGGU_UGGGGUAGUUUUUGAUAGCUUUCUGUGGACUUUCCUCCCCCAAACCCCUGCACACACUGCUGCCUAAUGGCC
........((..(((((((((((((.(((((......((.((((....)))).))........))))).))))))(((.....))))))))))...)) (-23.18 = -24.49 +   1.31)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 19,254,858 – 19,254,955
Length 97
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 84.79
Mean single sequence MFE -29.35
Consensus MFE -17.90
Energy contribution -20.77
Covariance contribution 2.87
Combinations/Pair 1.08
Mean z-score -2.19
Structure conservation index 0.61
SVM decision value 0.33
SVM RNA-class probability 0.691776
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19254858 97 - 22407834
GGCCAUUAGGCAGCAGUGCGUGAAGGGGUUUGGGGGAGGAAAGUCCACAGAAAGCUAUCAAAUACUACCCCA-ACCCCUUGCCCAAAUCCAUUGCAAU
.(((....))).((((((..((((((((((.((((..((.....))...((......))........)))))-)))))))...))....))))))... ( -33.90)
>DroSim_CAF1 2029 97 - 1
GGCCAUUAGGCAGCAGUGUGUGCAGGGGUUUGGGGGAGGAAAGUCCACAGCAAGCUAUCAAAAACUACCCCA-ACCCCUUGCCGAAAUCCAUUGCAAU
.(((....))).((((((((.(((((((.((((((..((.....))..((....))...........)))))-).))))))))).....))))))... ( -37.10)
>DroEre_CAF1 3013 83 - 1
GGCCAUUAGGCAGCAGUGUGUGCAGGAG---------------UCCACAGAAAGCUAUCAAAAACUACCCCAAACCCCUUACCCAAAUCCAUUGCAAU
.(((....))).((((((((((......---------------..))))((......))..............................))))))... ( -13.30)
>DroYak_CAF1 2065 97 - 1
GGCCAUUAGGCAGCAGUGUGUGCAGGAGUCCCAGGGGGGGAAGUCCACAGAAAGCUAUCGAAAACUUCCCCA-ACCCCUUACCCAAAUCCAUUGCAAU
.(((....))).((((((..(...((.((...((((((((((((.....((......))....)))))))..-.))))).))))..)..))))))... ( -33.10)
>consensus
GGCCAUUAGGCAGCAGUGUGUGCAGGAGUUUGGGGGAGGAAAGUCCACAGAAAGCUAUCAAAAACUACCCCA_ACCCCUUACCCAAAUCCAUUGCAAU
.(((....))).((((((.(((.((((((.(((((.((..........................)).))))).))))))))).......))))))... (-17.90 = -20.77 +   2.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:12 2006