Locus 3722

Sequence ID 3R_DroMel_CAF1
Location 10,111,506 – 10,111,603
Length 97
Max. P 0.614482
window5964

overview

Window 4

Location 10,111,506 – 10,111,603
Length 97
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.37
Mean single sequence MFE -20.23
Consensus MFE -10.30
Energy contribution -10.80
Covariance contribution 0.50
Combinations/Pair 1.33
Mean z-score -1.60
Structure conservation index 0.51
SVM decision value 0.16
SVM RNA-class probability 0.614482
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10111506 97 + 27905053
CAAAAUAGAA-------------CA--AAACUAA--AUCAAAAAUGCUACCAUCUGCUGCUAGUC------GCACUCAACGAGGUCCCACUGUAGACAUAAAUCGCAGCGUGGGCCAUAA
..........-------------..--.......--.((......((........))(((.....------)))......))((((((.((((.((......)))))).).))))).... ( -16.60)
>DroSec_CAF1 20961 92 + 1
CAAAUUAAAA-------------AA-UAAACUAA--AUCAAAAAUGCUACCAUCUGCUGCUAGUC------GCACUCAACGAGGCCCCACUGUAGACAUAAAUCGCAG------CCAUAA
..........-------------..-........--...................(((((((((.------((.(((...)))))...))))..((......))))))------)..... ( -11.50)
>DroSim_CAF1 17142 98 + 1
CAAAUUAAAA-------------AA-AAAACUAA--AUCAAAAAUGCUACCAUCUGCUGCUAGUC------GCACUCAACGAGACCCCACUGUAGACAUAAAUCGCAGCGUGGGCCAUAA
..........-------------..-........--.......(((...((((..(((((..(((------.(.......).))).........((......)))))))))))..))).. ( -14.20)
>DroEre_CAF1 21049 95 + 1
AAAAACA----------------AAAAGAAGUAA--GUAAAAAAUGCUAC-AACUGGUGCUAGUC------GCACUCAACGAGGCCCCACUGUAGACAUAAAUCGCAGCGUGGGCCAUAA
.......----------------...((..(((.--(((.....))))))-..))(((((.....------)))))......((((((.((((.((......)))))).).))))).... ( -24.00)
>DroYak_CAF1 21135 96 + 1
CAAAAAAAAA-------------AAAAAAAGU----GUCUAAAAUUCUAC-GUCUGUUGCUAGUC------GCACUCAACGAGGCCCCACUGUAGACAUAAAUCGCAGCGUGGGCUAUAA
..........-------------.........----.............(-((.((.(((.....------)))..))))).((((((.((((.((......)))))).).))))).... ( -18.50)
>DroAna_CAF1 24173 118 + 1
CAAAACAAUAGUAUUAGAAAGCAAUA-GGAGUAGCUGGCUGAC-AGCUAUCUUAUUUGACUAAUCUAUAUGCUACAUAGCGAGGCCUCACUGUAGAUGGCAAUCUCGGCGUGGGCCAUAA
.......((((.(((((....(((((-(((.((((((.....)-)))))))))).))).))))))))).((((....)))).((((((.(((.((((....))))))).).))))).... ( -36.60)
>consensus
CAAAAUAAAA_____________AA_AAAACUAA__AUCAAAAAUGCUACCAUCUGCUGCUAGUC______GCACUCAACGAGGCCCCACUGUAGACAUAAAUCGCAGCGUGGGCCAUAA
..................................................................................((((((.((((.((......)))))).).))))).... (-10.30 = -10.80 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:24 2006