Locus 1421

Sequence ID 3R_DroMel_CAF1
Location 4,115,252 – 4,115,352
Length 100
Max. P 0.544098
window2368

overview

Window 8

Location 4,115,252 – 4,115,352
Length 100
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 79.20
Mean single sequence MFE -25.38
Consensus MFE -13.66
Energy contribution -14.05
Covariance contribution 0.39
Combinations/Pair 1.27
Mean z-score -1.82
Structure conservation index 0.54
SVM decision value 0.02
SVM RNA-class probability 0.544098
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4115252 100 + 27905053
---------------ACUUUAAAAAGGCUUCACUGUGCCUGCAAAUAUGCUGAUAGCUGUACCAGAUCGACUGCAGCAGCUGUAAAAUCAAUCAAAAACUUGUCAAAUAAAUGUC
---------------.........((((........))))(((....)))..((((((((..(((.....)))..))))))))................................ ( -19.50)
>DroSec_CAF1 14059 100 + 1
---------------ACUUUAUAAAGGCUUCACUGUGCCUGCAAAUAUGCUGAUAGCUGCACCAGAUCGGCUGCAGCAGCUGUAAAAUCAAUCAAAAACUUGUCAAAUAAAUGUC
---------------.........((((........))))(((..(((..(((((((((((((.....)).))))))...((......))..........))))).)))..))). ( -21.60)
>DroSim_CAF1 11055 100 + 1
---------------ACUUUAUAAAGGCUUCACUGUGCCUGCAAAUAUGCUGAUAGCUGCACCAGAUCGGCUGCAGCAGCUGUAAAAUCAAUCAAAAACUUGUCAAAUAAAUGUC
---------------.........((((........))))(((..(((..(((((((((((((.....)).))))))...((......))..........))))).)))..))). ( -21.60)
>DroEre_CAF1 16205 115 + 1
UUUCAAAAGACGUUGGAUUUAGAAAGGCUUCACUGUCCCUGCGAAUAUGCAGAUAGCUGCACCAGAUCGGCUGCAGCAGCUGUAAAAUCAAUCAAAAACUUGUCAAAUAAAUGUC
........(((((.((((...(((....)))...))))..))((.(.(((((...((((((((.....)).))))))..))))).).))............)))........... ( -27.50)
>DroYak_CAF1 11621 112 + 1
UUUUAAAUGACG---AACUUAGGUAGGCUUCACUGUGCCUGCGAAUAUGCAGAUAGCUGCACCAGAUCGGGUGCAGCAGCUGUAAAAUCAAUCAAAAACUUGUCAAAUAAAUGUC
.......(((((---(......((((((........))))))((.(.(((((...((((((((......))))))))..))))).).))..........)))))).......... ( -38.30)
>DroAna_CAF1 24860 106 + 1
-UUUGAAAGCUGUCGG-----GACAUGUUCCACUGUACUU---CAUAUGGAGAUGAGUUCUCCAGUUCUUUUGGAGCAGCUGUAAAAUCAAUCAAAAAGUUGUCAAAUAAAUGUC
-(((((.(((((..((-----((....))))......(((---((..((((((.....)))))).......)))))))))).......((((......)))))))))........ ( -23.80)
>consensus
_______________ACUUUAGAAAGGCUUCACUGUGCCUGCAAAUAUGCAGAUAGCUGCACCAGAUCGGCUGCAGCAGCUGUAAAAUCAAUCAAAAACUUGUCAAAUAAAUGUC
........................((((........))))............((((((((..(((.....)))..))))))))................................ (-13.66 = -14.05 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:07 2006