Locus 4553

Sequence ID 2L_DroMel_CAF1
Location 13,048,223 – 13,048,318
Length 95
Max. P 0.622929
window7175

overview

Window 5

Location 13,048,223 – 13,048,318
Length 95
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 76.58
Mean single sequence MFE -15.13
Consensus MFE -1.77
Energy contribution -1.81
Covariance contribution 0.04
Combinations/Pair 1.25
Mean z-score -1.51
Structure conservation index 0.12
SVM decision value 0.18
SVM RNA-class probability 0.622929
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13048223 95 + 22407834
AG-CCGGAAAAGAA-AAACUGUCGUAAGAAUGGCGC---AGUGA-----UGGUACAGUAAUAGCCAAGAUAAUAGAUAAUAAAUGUAUAAAAUACAUAAUUGAAG------
.(-(((........-......((....)).)))).(---(((..-----((((.........))))................((((((...)))))).))))...------ ( -11.86)
>DroSec_CAF1 29873 93 + 1
AGACAGGAAAAGAA-AAACUGUCAUAAGAAUGGUGC---CU--------GGGUACAGUGAUAGCCAAGACAAUAUAUAAUAAAUGUAUAAAAUACAUCAUUAAAG------
.(((((........-...))))).....(((((((.---.(--------((.((......)).)))......((((((.....)))))).....)))))))....------ ( -16.70)
>DroSim_CAF1 25441 94 + 1
AGACCGGAAAAGAAAAAACUGUCAUAAGAAUGGUGC---CU--------GGGUACAGUGAUAGCCAAGAUAAUAGAUAUUAAAAGUAUAAAAUACAUAAUUAAAG------
.(((.(............).))).......((((.(---((--------(....))).)...))))..................((((...))))..........------ (  -9.90)
>DroEre_CAF1 29305 98 + 1
AG-CAGGUAAAGAA-AAACUGUCAUAAGAAUGGCAGGGUGAUGGUACUGGAGUACAGUGAUAGCCAAGAUAAUAGCUGAUAA--------AAUACAUAACUAAAGGGU---
..-(((.((.....-...(((((((....)))))))(((.....(((((.....)))))...))).......)).)))....--------..................--- ( -21.10)
>DroYak_CAF1 29073 103 + 1
AG-CCGGAAAAGAA-AAACUGUCAUAAGAAUGGAGC---CUCGG---UUGGGUACAGUAAGAGCCAAGAUAAUAGAUAAUAAAAGUAGAAAAUACAAAAUUAACGGCUAGU
((-(((........-..((((((((....)))..((---((...---..)))))))))..........................(((.....)))........)))))... ( -16.10)
>consensus
AG_CCGGAAAAGAA_AAACUGUCAUAAGAAUGGCGC___CU_G______GGGUACAGUGAUAGCCAAGAUAAUAGAUAAUAAAAGUAUAAAAUACAUAAUUAAAG______
..............................((((............................))))............................................. ( -1.77 =  -1.81 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:52 2006