Locus 3664

Sequence ID 2R_DroMel_CAF1
Location 12,163,674 – 12,163,776
Length 102
Max. P 0.732836
window5962

overview

Window 2

Location 12,163,674 – 12,163,776
Length 102
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 70.88
Mean single sequence MFE -20.94
Consensus MFE -13.00
Energy contribution -15.50
Covariance contribution 2.50
Combinations/Pair 1.33
Mean z-score -1.49
Structure conservation index 0.62
SVM decision value 0.43
SVM RNA-class probability 0.732836
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12163674 102 + 20766785
AAACCAGUGAUGGGGGGGCUAGUACUUAGAUAGAAAAC------AAUGCCAA----------UAUACUUGGUAAAAUGAAAUGUGCUUGAAAUAUAUGGCAUAUAAAUCUAAUUUAAU
...(((....)))............((((((.......------..((((((----------.....)))))).......(((((((..........)))))))..))))))...... ( -19.10)
>DroSim_CAF1 20181 115 + 1
AAACCAGUGAUGG---GGCUAGUACUUAGAUAGAAAACCAAAGAAAGGCCAAAAGAGUGGCGUAUACUUUGUAAAAAGUAAUGUGCUGGAAAUAUAUGGCAUAUAAAUCUAAUUUAAU
...(((....)))---.........((((((................((((......))))...((((((....))))))((((((((........))))))))..))))))...... ( -23.50)
>DroEre_CAF1 25471 102 + 1
AAGCCAGUGAUGG---G-UUAUUACCUAGAUAGAAAGC------AAGGCCAAAGGAGUGGCAUAUACUUAG-AGAACAUAAUGUGCUGGAAAUAAACUGCACGUACAUU-----UAAU
..((......(((---(-(....)))))........))------...((((......))))..........-........((((((.(........).)))))).....-----.... ( -18.44)
>DroYak_CAF1 25979 98 + 1
AAGCCAGUGAUGG---GACUAGUACUUAGGUAGCAAAC------AAGGCCAAAGGAGUGGCAA-----------ACCAUAAUGUGCGGGAAAUAUACUGCAUAUAAAUCUGAAAUAAU
...(((....)))---.........((((((.......------...((((......))))..-----------......((((((((........))))))))..))))))...... ( -22.70)
>consensus
AAACCAGUGAUGG___GGCUAGUACUUAGAUAGAAAAC______AAGGCCAAAGGAGUGGCAUAUACUU_G_AAAACAUAAUGUGCUGGAAAUAUACGGCAUAUAAAUCUAAUUUAAU
...(((....)))............((((((................((((......))))...................((((((((........))))))))..))))))...... (-13.00 = -15.50 +   2.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:16 2006