Locus 1713

Sequence ID 3R_DroMel_CAF1
Location 4,915,636 – 4,915,733
Length 97
Max. P 0.630879
window2823

overview

Window 3

Location 4,915,636 – 4,915,733
Length 97
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 78.36
Mean single sequence MFE -19.03
Consensus MFE -12.11
Energy contribution -12.67
Covariance contribution 0.56
Combinations/Pair 1.29
Mean z-score -1.41
Structure conservation index 0.64
SVM decision value 0.20
SVM RNA-class probability 0.630879
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4915636 97 + 27905053
GCAGGUGUUUGCUCAUA--U-AUAGUGACAGACACCUAAUGAAUUAUUGGUUAUUUUCUGCCCCCAUUUUAUUUCCUAAUCGCAGGCAAGCUCAACGCUC
(((((((((((.((((.--.-...)))))))))))))((((((.....(((........))).....))))))........)).....(((.....))). ( -22.80)
>DroSec_CAF1 23284 99 + 1
GCAGGUGUUUGCUCAUAUAU-AUAGUGACAGACACCUAAUGAAUUAUUGGUUAUUUUCUGCCCCCAUUUUAUUUCCUAAUCGCAGGCAAGCUCAACACCC
(((((((((((.((((....-...)))))))))))))((((((.....(((........))).....))))))........))................. ( -21.30)
>DroSim_CAF1 23311 99 + 1
GCAGGUGUUUGCUCAUAUAU-AUAGUGACAGACACCUAAUGAAUUAUUGGUUAUUUUCUGCCCCCAUUUUAUUUCCUAAUCGCAGGCAAGCUCAACACCC
(((((((((((.((((....-...)))))))))))))((((((.....(((........))).....))))))........))................. ( -21.30)
>DroEre_CAF1 22357 96 + 1
GCAGGUGUUUGCUCAUAUGU----GUGACAGAAACCUAAUGAAUUAUUGGUUAUUUUCUGCCCCCAUUUUAUUUCCUAAUCGCAGGCAACCUCAACACCC
(.((((((((((((((....----))))((((((.((((((...))))))....)))))).....................)))))).)))))....... ( -18.30)
>DroWil_CAF1 23489 78 + 1
CCAGGUGUUUGUUCAUA----ACAAAAAAGGGCACACUAUAAAUUAUUACUUUUAUUUUGUU---------------ACUACCAUACAGUUUC---ACCC
...((((.((((...((----(((((((((((.................))))).)))))))---------------).......))))...)---))). ( -10.73)
>DroYak_CAF1 23491 99 + 1
GCAGGUGUUUGCCCAUAUACGAUAGUGACAGACACCUAAUGAAUUAUUGGUUAUU-UCUGUCCCCAUUUUAUUUCCUAAUCACAGGCAACCUCAGCGCCC
(((((((((((..(((........))).)))))))))...........((((...-(((((....................))))).))))...)).... ( -19.75)
>consensus
GCAGGUGUUUGCUCAUAUAU_AUAGUGACAGACACCUAAUGAAUUAUUGGUUAUUUUCUGCCCCCAUUUUAUUUCCUAAUCGCAGGCAAGCUCAACACCC
..(((((((((.((((........))))))))))))).....................((((......................))))............ (-12.11 = -12.67 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:33 2006