Locus 121

Sequence ID	3L_DroMel_CAF1
Location	397,795 – 397,948
Length	153
Max. P	0.811785

overview

Window 1

Location	397,795 – 397,908
Length	113
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	85.34
Mean single sequence MFE	-29.10
Consensus MFE	-21.46
Energy contribution	-21.90
Covariance contribution	0.44
Combinations/Pair	1.16
Mean z-score	-1.77
Structure conservation index	0.74
SVM decision value	0.46
SVM RNA-class probability	0.743537
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 397795 113 - 23771897
CAUGCAAGGUGGUUAAAUAUACUUGGUGCGUUGUCCCUAAGGAUCGAAGCAAAAUGGGGAUAAGGAUGUUACCUUCUCUUCAUUUAUAUCAUGGAAAAAGGAUUUUGUACAGA------
..((((((((................(((.((((((....))).))).)))(((((((((.((((......)))).)))))))))................))))))))....------ ( -24.70)
>DroSec_CAF1 44779 113 - 1
CAUGCAAGAUGGGUAAAUAAACUUGGUGCUUUGUCUCUAAGGAUCGAGGGGAAAUGGGGAUAAGGAUGUUACCUUCUCUUCAUUUAUAUAAUGGAAAAAGGAUUUUGUAUAGA------
.(((((((((...........((((((.(((.......))).))))))...(((((((((.((((......)))).)))))))))................)))))))))...------ ( -27.90)
>DroSim_CAF1 47486 113 - 1
CAUGCAAGAUGGGUAAAUAAACUUGGUGCUUUGUCUCUAAAGAUCGAGGGGAAAUGGGGAUAAGGAUGUUACCUUCUCUUCAUUUCUAUAAUGGAAAAAGGAUUUUGUAUAGA------
.(((((((((...........((((((.(((((....))))))))))).(((((((((((.((((......)))).)))))))))))..............)))))))))...------ ( -31.70)
>DroYak_CAF1 48975 114 - 1
CAUGCAAGAUGGGUAAAUAAACUUGGUGCUUUUUCUCUGGGGAUCGAGGGGAUACGGGGAUACGGAUGUUACCGUGUCUUCAUCUAAAUCAUAGAAAAAGGAUUUUGU-----CUUCAU
.(((.(((((((((......))))(((.((((((((.(((.....((((((((((((..(((....)))..)))))))))).))....))).)))))))).)))..))-----)))))) ( -32.10)
>consensus
CAUGCAAGAUGGGUAAAUAAACUUGGUGCUUUGUCUCUAAGGAUCGAGGGGAAAUGGGGAUAAGGAUGUUACCUUCUCUUCAUUUAUAUAAUGGAAAAAGGAUUUUGUAUAGA______
..((((((((...........((((((.(((((....)))))))))))...(((((((((.((((......)))).)))))))))................)))))))).......... (-21.46 = -21.90 +   0.44)

alignment

secondary structure

dotplot

Window 2

Location	397,828 – 397,948
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.42
Mean single sequence MFE	-35.02
Consensus MFE	-29.82
Energy contribution	-30.14
Covariance contribution	0.32
Combinations/Pair	1.23
Mean z-score	-1.59
Structure conservation index	0.85
SVM decision value	0.65
SVM RNA-class probability	0.811785
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 397828 120 - 23771897
GCCAUCAAUCAAAUAUUGCAAUUGGCCACUGGACACUGGCCAUGCAAGGUGGUUAAAUAUACUUGGUGCGUUGUCCCUAAGGAUCGAAGCAAAAUGGGGAUAAGGAUGUUACCUUCUCUU
.((((.(((((....(((((..((((((........)))))))))))..)))))............(((.((((((....))).))).)))..))))(((.((((......)))).))). ( -32.90)
>DroSec_CAF1 44812 120 - 1
GCCAUCAAUCAAAAAUUGCAAUUGGCCACUGGACAGUGGCCAUGCAAGAUGGGUAAAUAAACUUGGUGCUUUGUCUCUAAGGAUCGAGGGGAAAUGGGGAUAAGGAUGUUACCUUCUCUU
.(((((.........(((((..((((((((....)))))))))))))))))).........((((((.(((.......))).))))))(((((..((..(((....)))..))))))).. ( -38.40)
>DroSim_CAF1 47519 120 - 1
GCCAUCAAUCAAAAAUUGCAAUUGGCCAUUGGACAGUGGCCAUGCAAGAUGGGUAAAUAAACUUGGUGCUUUGUCUCUAAAGAUCGAGGGGAAAUGGGGAUAAGGAUGUUACCUUCUCUU
.(((((.........(((((..((((((((....)))))))))))))))))).........((((((.(((((....)))))))))))(((((..((..(((....)))..))))))).. ( -35.40)
>DroEre_CAF1 48084 119 - 1
GUCAUCAAUCAAAUAUUGCAAUUGGCUACUGGACGCUGGCCAUGCAAG-UGGGUAAAUAAAGUGGGUGGUGUGUCUCUAGGGAUCGGAAGGAUAUGGGGAUAAGGAUGUUACCUUGUGUU
........(((....(((((..((((((........))))))))))).-)))...((((....((((((..((((((((....((....))...)))))))....)..))))))..)))) ( -28.60)
>DroYak_CAF1 49009 120 - 1
GUCAUCAAUCAAAUAUUGCAAUUGGCUACUGGACAGUGGCCAUGCAAGAUGGGUAAAUAAACUUGGUGCUUUUUCUCUGGGGAUCGAGGGGAUACGGGGAUACGGAUGUUACCGUGUCUU
.(((((.........(((((..((((((((....)))))))))))))))))).........((((((.(((.......))).))))))(((((((((..(((....)))..))))))))) ( -39.80)
>consensus
GCCAUCAAUCAAAUAUUGCAAUUGGCCACUGGACAGUGGCCAUGCAAGAUGGGUAAAUAAACUUGGUGCUUUGUCUCUAAGGAUCGAGGGGAAAUGGGGAUAAGGAUGUUACCUUCUCUU
.(((((.........(((((..((((((((....))))))))))))))))))............(((((((((((((((....((....))...)))))))))))....))))....... (-29.82 = -30.14 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:01 2006