Locus 1375

Sequence ID 3R_DroMel_CAF1
Location 4,009,351 – 4,009,466
Length 115
Max. P 0.822997
window2265

overview

Window 5

Location 4,009,351 – 4,009,466
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 94.47
Mean single sequence MFE -28.53
Consensus MFE -27.27
Energy contribution -27.65
Covariance contribution 0.38
Combinations/Pair 1.07
Mean z-score -1.62
Structure conservation index 0.96
SVM decision value 0.69
SVM RNA-class probability 0.822997
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4009351 115 - 27905053
CAGGCAGACGUGACAAUCCAUCCAUUUUUAAAGCCCAUAAGUAGACAUGACUGGGGGAAUCUUAUCGU-GAAGCCCAAAAACCCAUUGAGAUUUCCCUAGCAUUCCACGUUGUCCC----
..(((((.((((....................((......)).((.(((.((((((((((((((..((-(.............)))))))))))))))))))))))))))))))..---- ( -29.62)
>DroSec_CAF1 15030 115 - 1
CAGGCAGACGUGACAAUCCAUCCAUUUUUAAGGCCCAUAAGUAGACAUGACUGAGGGAAUCUUAUCGU-GAAGCCCAAAAACCCAUUGAGAUUUCCCUAGCAUUCCACGCUGUCCC----
..(((((.((((.........((........))..........((.(((.(((.((((((((((..((-(.............))))))))))))).)))))))))))))))))..---- ( -26.62)
>DroSim_CAF1 15615 115 - 1
CAGGCAGACGUGACAAUCCAUCCAUUUUUAAGGCCCAUAAGUAGACAUGACUGGGGGAAUCUUAUCGU-GAAGCCCAAAAACCCAUUGAGAUUUCCCUAGCAUUCCACGCUGUCCC----
..(((((.((((.........((........))..........((.(((.((((((((((((((..((-(.............)))))))))))))))))))))))))))))))..---- ( -33.12)
>DroYak_CAF1 15127 120 - 1
CAGGCAGACGUGACAAUCCAUCCAUUUUUCAGGCCCAUAAGUAGACAUGACUGGGGAAAUCUUAUCGCCGAAGCCCAAAAACCCAUUCAGAUUUCCCUAACAUUCCACGCUGUCCCCAAA
..(((((.((((.........((........))..........((.(((..(((((((((((..........................))))))))))).))))))))))))))...... ( -24.77)
>consensus
CAGGCAGACGUGACAAUCCAUCCAUUUUUAAGGCCCAUAAGUAGACAUGACUGGGGGAAUCUUAUCGU_GAAGCCCAAAAACCCAUUGAGAUUUCCCUAGCAUUCCACGCUGUCCC____
..(((((.((((....................((......)).((.(((.((((((((((((((......................))))))))))))))))))))))))))))...... (-27.27 = -27.65 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:27 2006