Locus 5427

Sequence ID 3R_DroMel_CAF1
Location 14,322,138 – 14,322,249
Length 111
Max. P 0.965518
window8832 window8833

overview

Window 2

Location 14,322,138 – 14,322,249
Length 111
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 77.58
Mean single sequence MFE -21.92
Consensus MFE -12.22
Energy contribution -13.00
Covariance contribution 0.78
Combinations/Pair 1.06
Mean z-score -2.74
Structure conservation index 0.56
SVM decision value 1.58
SVM RNA-class probability 0.965518
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14322138 111 + 27905053
AAUAGCUAAGUCAACCCUUAAGUGGAAAC--GUAAGCCAAGUUAGCUGAGGAAACUAUCCAAAAAGUUAAUAAAUGAGCUAAUAUAGAGCAUAAACAAAGCUAAGUAAAGUAA
..(((((...(((...((((.((....))--.))))....(((((((..(((.....)))....)))))))...)))(((.......)))........))))).......... ( -19.00)
>DroSec_CAF1 101229 104 + 1
AAUAGUUAAGUCAACCCUUAAGUGGGAACAACUUAGCCAAGUUAGCUGAGGGAAUCUUCCAAAAAGUGAAUAAAUGAGAU---------UCCAAACAAAGCUAAGUAAGUUAU
....(((((((...(((......)))....)))))))..(.((((((...((((((((.................)))))---------)))......)))))).)....... ( -25.13)
>DroSim_CAF1 96059 98 + 1
AAUAGCUAAGUCAACCCUUAAGUGGGAAUAAGUUAGCCAAGUUAGCUGAAGGAAUCUUCCAAAAAGUUAAUUAAU---------------UCAAACAAAGCUAAUUAAGCUAU
.((((((.......(((......)))....(((((((..((((((((...(((....)))....))))))))...---------------.........))))))).)))))) ( -21.64)
>consensus
AAUAGCUAAGUCAACCCUUAAGUGGGAACAAGUUAGCCAAGUUAGCUGAGGGAAUCUUCCAAAAAGUUAAUAAAUGAG_U__________ACAAACAAAGCUAAGUAAGCUAU
..(((((.......(((......)))..............(((((((...(((....)))....)))))))...........................))))).......... (-12.22 = -13.00 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,322,138 – 14,322,249
Length 111
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 77.58
Mean single sequence MFE -21.10
Consensus MFE -11.57
Energy contribution -11.47
Covariance contribution -0.11
Combinations/Pair 1.11
Mean z-score -2.12
Structure conservation index 0.55
SVM decision value 0.17
SVM RNA-class probability 0.617169
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14322138 111 - 27905053
UUACUUUACUUAGCUUUGUUUAUGCUCUAUAUUAGCUCAUUUAUUAACUUUUUGGAUAGUUUCCUCAGCUAACUUGGCUUAC--GUUUCCACUUAAGGGUUGACUUAGCUAUU
..........(((((..(((...(((((...((((((.....((((.((....)).))))......))))))..(((.....--....)))....))))).)))..))))).. ( -19.30)
>DroSec_CAF1 101229 104 - 1
AUAACUUACUUAGCUUUGUUUGGA---------AUCUCAUUUAUUCACUUUUUGGAAGAUUCCCUCAGCUAACUUGGCUAAGUUGUUCCCACUUAAGGGUUGACUUAACUAUU
.........((((((..(...(((---------((((......((((.....))))))))))))..))))))..(((.(((((((..(((......))).))))))).))).. ( -22.30)
>DroSim_CAF1 96059 98 - 1
AUAGCUUAAUUAGCUUUGUUUGA---------------AUUAAUUAACUUUUUGGAAGAUUCCUUCAGCUAACUUGGCUAACUUAUUCCCACUUAAGGGUUGACUUAGCUAUU
.((((((((((((.(((....))---------------))))))))........((((....)))))))))...(((((((.(((..(((......))).))).))))))).. ( -21.70)
>consensus
AUAACUUACUUAGCUUUGUUUGA__________A_CUCAUUUAUUAACUUUUUGGAAGAUUCCCUCAGCUAACUUGGCUAACUUGUUCCCACUUAAGGGUUGACUUAGCUAUU
..........(((((..(((.................................(((....)))...((((.....))))........(((......)))..)))..))))).. (-11.57 = -11.47 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:26 2006