Locus 5083

Sequence ID 3R_DroMel_CAF1
Location 13,411,576 – 13,411,688
Length 112
Max. P 0.500000
window8285

overview

Window 5

Location 13,411,576 – 13,411,688
Length 112
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 80.39
Mean single sequence MFE -25.05
Consensus MFE -15.56
Energy contribution -16.96
Covariance contribution 1.40
Combinations/Pair 1.26
Mean z-score -1.64
Structure conservation index 0.62
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13411576 112 - 27905053
UCAGCGCCAAACAGCAAGUGCUGCGCGGAUUUGUCAUUCUCUCCGCAGUGCAUCUUAUGCACUAUCCAA-AAUGCACUAAAAUAAAUUAUUCGAAAUCAAGAUGCAUUUCCAC
.((((((..........)))))).(((((............)))))((((((((((.((((........-..))))................(....)))))))))))..... ( -25.50)
>DroSec_CAF1 37683 113 - 1
UCAGCGCCAAACAGCAAGUGCUGCGCGGAUUUGUCAUUCUGUCCGCAGUGCAUCUUCUGCACUAUCCAAAAAUGCACUAAGAGAAAUUAUUUGAUAUUAGGAUGCAUUUCCCC
.((((((..........)))))).((((((..........))))))((((((.....))))))......(((((((((((....((....))....))))..))))))).... ( -29.10)
>DroSim_CAF1 40043 113 - 1
UCAGCGCCAAACAGCAAGUGCUGCGCGGAUUUGUCAUUCUGUCCGCAGUGCAUCUUAUGCACUAUCCAAAAAUGCACUAAGAGAAAUUAUUUGAUAUUAAGAUGCAUUUCCUC
.((((((..........)))))).((((((..........))))))(((((((((((((((...........))))....((....)).........)))))))))))..... ( -29.40)
>DroEre_CAF1 38304 103 - 1
UCAGCGCCAAACGGCAAGUGCUCCGCGAAUUUGUCACUCUACCUGUGG---------UACACUGCCCAA-AUGUCAUCAAACGAAUUUAACCGAAUGCAAGAUACAUUUCCCA
...(((((....))).((((..(((((................)))))---------..))))))..((-((((.(((......((((....))))....))))))))).... ( -17.89)
>DroYak_CAF1 42391 112 - 1
UCAGCGCCAAACAGCAAGUGCUCCGCGGAUUUGUCAUUCUACCCGCAGAGCACAUUCUGCACUAUCCAA-AUUGCACUAAACAAAAUUAUUCGAAAUCGAGACACAUUUCCCA
...((((......))..((((((.((((..............)))).)))))).....)).........-...................((((....))))............ ( -23.34)
>consensus
UCAGCGCCAAACAGCAAGUGCUGCGCGGAUUUGUCAUUCUAUCCGCAGUGCAUCUUAUGCACUAUCCAA_AAUGCACUAAAAGAAAUUAUUCGAAAUCAAGAUGCAUUUCCCC
...((........)).(((((...((((((..........))))))((((((.....))))))..........)))))................................... (-15.56 = -16.96 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:44 2006