Locus 8602

Sequence ID X_DroMel_CAF1
Location 21,371,134 – 21,371,239
Length 105
Max. P 0.653271
window14142

overview

Window 2

Location 21,371,134 – 21,371,239
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.22
Mean single sequence MFE -20.46
Consensus MFE -15.77
Energy contribution -15.53
Covariance contribution -0.25
Combinations/Pair 1.06
Mean z-score -1.60
Structure conservation index 0.77
SVM decision value 0.25
SVM RNA-class probability 0.653271
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21371134 105 - 22224390
-UUCCUUCUCCGCACUUUUUUUUUCU--------CCAACUUCUGCUCCUUUUCCCCG------ACAUCCUGUUAUCGCCAUCGCCCAUUGUCAGGCUAAUUCAUGUGUCGGCUGCAGGAU
-.........................--------.....((((((.........(((------((((...((((..(((...((.....))..)))))))....)))))))..)))))). ( -17.80)
>DroSec_CAF1 15379 101 - 1
CUUCCUUCUCCGCGCUC-----UUCU--------CCAACUUCUGCUCCUUUUCCCCG------ACAUCCUGUUAUCGCCAUCGCCCAUUGUCAGGCUAAUUCAUGUGUCGGCUGCAGGAU
.................-----....--------.....((((((.........(((------((((...((((..(((...((.....))..)))))))....)))))))..)))))). ( -17.80)
>DroEre_CAF1 7975 115 - 1
CUUCCUUCUCCGCAUUU-----UUCUCUGCUCCUGUGACUUCUGCUCCUUUUCCUCGACGUCGACAUCCUGUUAUCGCCAUCGCCCAUUGUCAGGCUAAUUCAUGUGUCGACUGCAGGAU
...........(((...-----.....)))(((((((((....).))............((((((((...((((..(((...((.....))..)))))))....)))))))).)))))). ( -23.00)
>DroYak_CAF1 7307 101 - 1
CUUCCUUCGCCGCAUUU-----UUCU--------ACAACUUCUGCUCCUUUUCCUCG------ACAUCCUGUUAUCGCCAUGGCCCAUUGUCGGGCUAAUUCAUGUGUCGACUGCAGGAU
...........(((...-----....--------........)))............------..(((((((..((((((((((((......)))).....)))).).)))..))))))) ( -23.26)
>consensus
CUUCCUUCUCCGCACUU_____UUCU________CCAACUUCUGCUCCUUUUCCCCG______ACAUCCUGUUAUCGCCAUCGCCCAUUGUCAGGCUAAUUCAUGUGUCGACUGCAGGAU
.................................................................(((((((..(((.(((.(((........)))........))).)))..))))))) (-15.77 = -15.53 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:13 2006