Locus 1620

Sequence ID 3L_DroMel_CAF1
Location 4,746,617 – 4,746,725
Length 108
Max. P 0.564870
window2504

overview

Window 4

Location 4,746,617 – 4,746,725
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.17
Mean single sequence MFE -43.88
Consensus MFE -31.81
Energy contribution -32.57
Covariance contribution 0.76
Combinations/Pair 1.15
Mean z-score -1.64
Structure conservation index 0.72
SVM decision value 0.06
SVM RNA-class probability 0.564870
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4746617 108 - 23771897
AUCAGAUCAUAGGGAUUGACAUGGCAGCGGAGUAUGGAUCGCCGGCUGUU---AGCCCUCGAGGCU---------AGGCCGCUGCUCUGCAGCAGGGAUUCAUUAUCCUCCAUGAGCCAG
.((((.((.....))))))..((((...((((.(((((((.((((((..(---((((.....))))---------)))))(((((...))))).)))))))))....))))....)))). ( -41.80)
>DroPse_CAF1 19982 120 - 1
AUCAGGUCGUAGGGAUUGACGUUGCAACGAAGGAUGGAGCGGCGACUGCUGCCGGCGCUGGAGGCUCUGCCUUGGAGACCGCUGCUCUGCAGCAGUGCAUCGUUGUCCUCCAUUAGCCAG
....(((.((((...(((.((((.((.(....).)).)))).))))))).)))(((..((((((((((.....))))..(((((((....))))))).........))))))...))).. ( -44.50)
>DroSec_CAF1 6852 108 - 1
AUCAGGUCAUAGGGAUUGACAUGGCAGCGGAGUAUGGAUCGCCGGCUGUU---AGCCCUCGAGGCU---------AGGCCGCUGCUAUGCAGCAGGGAUUCAUUAUCCUCCAUGAGCCAA
.....((((.......)))).((((...((((.(((((((.((((((..(---((((.....))))---------)))))(((((...))))).)))))))))....))))....)))). ( -44.20)
>DroSim_CAF1 7414 108 - 1
AUCAGGUCAUAGGGAUUGACAUGGCAGCGGAGUAUGGAUCGCCGGCUGUU---AGCCCUCGAGGCU---------AGGCCGCUGCUCUGCAGCAGGGAUUCAUUAUCCUCCAUGAGCCAA
.....((((.......)))).((((...((((.(((((((.((((((..(---((((.....))))---------)))))(((((...))))).)))))))))....))))....)))). ( -44.20)
>DroYak_CAF1 5668 108 - 1
AUCAGGUCAUAGGGAUUGACAUGGCAGCGGAGUAUGGAUCGCCGGCUGGU---AGCCCUCGUGGCU---------AGGCCGCUGCUCUGGAGCAGCGAUUCAUUAUCCUCCAUGAGCCAG
.....((((.......)))).((((...((((.(((((((...((((..(---((((.....))))---------)))))((((((....)))))))))))))....))))....)))). ( -44.70)
>consensus
AUCAGGUCAUAGGGAUUGACAUGGCAGCGGAGUAUGGAUCGCCGGCUGUU___AGCCCUCGAGGCU_________AGGCCGCUGCUCUGCAGCAGGGAUUCAUUAUCCUCCAUGAGCCAG
.....((((.......)))).((((...((((.(((((((.((((((......((((.....))))..........))))(((((...))))).)))))))))....))))....)))). (-31.81 = -32.57 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:03 2006