Locus 4968

Sequence ID	3L_DroMel_CAF1
Location	13,723,474 – 13,723,564
Length	90
Max. P	0.799264

overview

Window 8

Location	13,723,474 – 13,723,564
Length	90
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	82.48
Mean single sequence MFE	-27.62
Consensus MFE	-15.01
Energy contribution	-16.45
Covariance contribution	1.44
Combinations/Pair	1.05
Mean z-score	-3.02
Structure conservation index	0.54
SVM decision value	0.51
SVM RNA-class probability	0.765357
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13723474 90 + 23771897
AUGUCGGUGGUGCUUUUGUUGCUGUGAUGCAUCGUGUGCAUAUAUUAAAUGCCACUAAGGCAACACACCCACACCCGCACUAACAGGC---AC
.((((..((((((...(((.(.((((.(((...(((.((((.......)))))))....))).)))).).)))...))))))...)))---). ( -30.00)
>DroPse_CAF1 122401 86 + 1
UUG---CUGCUGCUACCGCUGC----AUGCAUCAUGUGCAUAUAUUAAAUGCCACUAAGGCAACACUUGCAUACGCACACGCACAGCCUCUAU
.((---((((.((....)).))----).)))...(((((..........((((.....)))).....(((....)))...)))))........ ( -23.10)
>DroSec_CAF1 130431 90 + 1
AUGUCGGUGGUGCUUUUGUUGCUGUGAUGCAUCGUGUGCAUAUAUUAAAUGCCACUAAGGCAACACACCCACACCCGCACUAACAGGC---AC
.((((..((((((...(((.(.((((.(((...(((.((((.......)))))))....))).)))).).)))...))))))...)))---). ( -30.00)
>DroSim_CAF1 141219 90 + 1
AUGUCGGUGGUGCUUUUGUUGCUGUGAUGCAUCGUGUGCAUAUAUUAAAUGCCACUAAGGCAACACACCCACACCCGCACUAACAGGC---AA
.((((..((((((...(((.(.((((.(((...(((.((((.......)))))))....))).)))).).)))...))))))...)))---). ( -30.30)
>DroEre_CAF1 137070 88 + 1
AUGUCGGUGGUGCUUUUGUUGCUGUGAUGCAUCGUGUGCAUAUAUUAAAUGCCACUAAGGCAACACACA--CACCCGCACUAACAGGC---AU
(((((..((((((...(((.(.((((.(((...(((.((((.......)))))))....))).))))))--))...))))))...)))---)) ( -29.20)
>DroPer_CAF1 123766 86 + 1
UUG---CUGCUGCUACCGCUGC----AUGCAUCAUGUGCAUAUAUUAAAUGCCACUAAGGCAACACUUGCAUACGCACACGCACAGCCUCUAU
.((---((((.((....)).))----).)))...(((((..........((((.....)))).....(((....)))...)))))........ ( -23.10)
>consensus
AUGUCGGUGGUGCUUUUGUUGCUGUGAUGCAUCGUGUGCAUAUAUUAAAUGCCACUAAGGCAACACACCCACACCCGCACUAACAGGC___AU
.(((.((((((((...((.(((......))).))...))))........((((.....)))).........)))).))).............. (-15.01 = -16.45 +   1.44)

alignment

secondary structure

dotplot

Window 9

Location	13,723,474 – 13,723,564
Length	90
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	82.48
Mean single sequence MFE	-30.62
Consensus MFE	-18.86
Energy contribution	-19.53
Covariance contribution	0.67
Combinations/Pair	1.13
Mean z-score	-2.78
Structure conservation index	0.62
SVM decision value	0.61
SVM RNA-class probability	0.799264
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13723474 90 - 23771897
GU---GCCUGUUAGUGCGGGUGUGGGUGUGUUGCCUUAGUGGCAUUUAAUAUAUGCACACGAUGCAUCACAGCAACAAAAGCACCACCGACAU
..---((((((....))))))((.((((.((.((....(((((((.......)))).)))(.(((......))).)....)))))))).)).. ( -29.40)
>DroPse_CAF1 122401 86 - 1
AUAGAGGCUGUGCGUGUGCGUAUGCAAGUGUUGCCUUAGUGGCAUUUAAUAUAUGCACAUGAUGCAU----GCAGCGGUAGCAGCAG---CAA
......(((((.((((((((((((.((((((..(....)..))))))..)))))))))))).(((.(----((....))))))))))---).. ( -34.50)
>DroSec_CAF1 130431 90 - 1
GU---GCCUGUUAGUGCGGGUGUGGGUGUGUUGCCUUAGUGGCAUUUAAUAUAUGCACACGAUGCAUCACAGCAACAAAAGCACCACCGACAU
..---((((((....))))))((.((((.((.((....(((((((.......)))).)))(.(((......))).)....)))))))).)).. ( -29.40)
>DroSim_CAF1 141219 90 - 1
UU---GCCUGUUAGUGCGGGUGUGGGUGUGUUGCCUUAGUGGCAUUUAAUAUAUGCACACGAUGCAUCACAGCAACAAAAGCACCACCGACAU
..---((((((....))))))((.((((.((.((....(((((((.......)))).)))(.(((......))).)....)))))))).)).. ( -29.40)
>DroEre_CAF1 137070 88 - 1
AU---GCCUGUUAGUGCGGGUG--UGUGUGUUGCCUUAGUGGCAUUUAAUAUAUGCACACGAUGCAUCACAGCAACAAAAGCACCACCGACAU
..---((((((....))))))(--(((.((((((....(((((((.......)))).)))((....))...))))))...))))......... ( -26.50)
>DroPer_CAF1 123766 86 - 1
AUAGAGGCUGUGCGUGUGCGUAUGCAAGUGUUGCCUUAGUGGCAUUUAAUAUAUGCACAUGAUGCAU----GCAGCGGUAGCAGCAG---CAA
......(((((.((((((((((((.((((((..(....)..))))))..)))))))))))).(((.(----((....))))))))))---).. ( -34.50)
>consensus
AU___GCCUGUUAGUGCGGGUGUGGGUGUGUUGCCUUAGUGGCAUUUAAUAUAUGCACACGAUGCAUCACAGCAACAAAAGCACCACCGACAU
.............((((..(((((.((((((((((.....))))....)))))).)))))(.(((......))).)....))))......... (-18.86 = -19.53 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:09 2006