Locus 7824

Sequence ID	3L_DroMel_CAF1
Location	20,939,245 – 20,939,337
Length	92
Max. P	0.672323

overview

Window 6

Location	20,939,245 – 20,939,337
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	92.50
Mean single sequence MFE	-35.00
Consensus MFE	-27.72
Energy contribution	-28.32
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.52
Structure conservation index	0.79
SVM decision value	0.18
SVM RNA-class probability	0.622223
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20939245 92 + 23771897
CACCUGCUCCUGCUAAAGCUGGCGCAUUGAGGGAAGCUGGACCCAAGGGAACCGCUGUUGCAGAUGGAGCUGCUCCCAUCGAUGAAGGAGCA
.....((((((((((....)))).(((((((((((((.(..((....))..).)))...((((......)))))))).)))))).)))))). ( -38.10)
>DroSec_CAF1 195534 92 + 1
CACCUGCUCCUGCUAAAGCUGGAGCAUUGAGGGAAGCUGGACCCAAGGGAACCGCUGUUGCAGAUGGAGCUGCGCCCAUGGAUGAAGGAGCA
..((((((((.((....)).))))).....(((.(((.(..((....))..).)))...((((......)))).)))........))).... ( -32.00)
>DroSim_CAF1 192463 92 + 1
CACCUGCUCCUGCUAAAGCUGGAGCAUUGAGGGAAGCUGGACCCAAGGGAACCGCUGUUGCAGAUGGAGCUGCGCCCAUGGAUGAAGGAGCA
..((((((((.((....)).))))).....(((.(((.(..((....))..).)))...((((......)))).)))........))).... ( -32.00)
>DroEre_CAF1 196664 92 + 1
CUCCUGCUCCUGCUCCAACUGGAGCAUUGAGGGAAGCUGGACCCAAGGGAACCGCUGUUGCAGAUGGAGCAGCGCCCAUUGAUGGAGGAGCA
.....(((((((((((....)))))((..((((........)))..(((...(((((((.(....).)))))))))).)..))..)))))). ( -40.20)
>DroYak_CAF1 201727 86 + 1
CUCCUGCUCCUGC------UGGAGCAUUGAGGGAAGCUGGACCCAAGGGAACCGCUGUUGCAGAUGGAGCUGCGCCCAUUGCUGGAGGAGCA
((((((((((...------.))))))....(((.(((.(..((....))..).)))...((((......)))).)))......))))..... ( -32.70)
>consensus
CACCUGCUCCUGCUAAAGCUGGAGCAUUGAGGGAAGCUGGACCCAAGGGAACCGCUGUUGCAGAUGGAGCUGCGCCCAUGGAUGAAGGAGCA
.....(((((((((........))).....(((.(((.(..((....))..).)))...((((......)))).)))........)))))). (-27.72 = -28.32 +   0.60)

alignment

secondary structure

dotplot

Window 7

Location	20,939,245 – 20,939,337
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	92.50
Mean single sequence MFE	-31.86
Consensus MFE	-26.30
Energy contribution	-26.70
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.42
Structure conservation index	0.83
SVM decision value	0.29
SVM RNA-class probability	0.672323
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20939245 92 - 23771897
UGCUCCUUCAUCGAUGGGAGCAGCUCCAUCUGCAACAGCGGUUCCCUUGGGUCCAGCUUCCCUCAAUGCGCCAGCUUUAGCAGGAGCAGGUG
(((((((........)))))))(((((...(((...((((((......(((........))).......))).)))...))))))))..... ( -32.22)
>DroSec_CAF1 195534 92 - 1
UGCUCCUUCAUCCAUGGGCGCAGCUCCAUCUGCAACAGCGGUUCCCUUGGGUCCAGCUUCCCUCAAUGCUCCAGCUUUAGCAGGAGCAGGUG
(((((((.......(((((((((......))))...(((((..((....)).)).))).........)).)))((....))))))))).... ( -29.80)
>DroSim_CAF1 192463 92 - 1
UGCUCCUUCAUCCAUGGGCGCAGCUCCAUCUGCAACAGCGGUUCCCUUGGGUCCAGCUUCCCUCAAUGCUCCAGCUUUAGCAGGAGCAGGUG
(((((((.......(((((((((......))))...(((((..((....)).)).))).........)).)))((....))))))))).... ( -29.80)
>DroEre_CAF1 196664 92 - 1
UGCUCCUCCAUCAAUGGGCGCUGCUCCAUCUGCAACAGCGGUUCCCUUGGGUCCAGCUUCCCUCAAUGCUCCAGUUGGAGCAGGAGCAGGAG
((((((.........(((.((((.((((.((((....))))......))))..))))..)))....((((((....)))))))))))).... ( -36.70)
>DroYak_CAF1 201727 86 - 1
UGCUCCUCCAGCAAUGGGCGCAGCUCCAUCUGCAACAGCGGUUCCCUUGGGUCCAGCUUCCCUCAAUGCUCCA------GCAGGAGCAGGAG
.....(((((((..(((((.(((......((((....)))).....))).))))))))........((((((.------...)))))))))) ( -30.80)
>consensus
UGCUCCUUCAUCAAUGGGCGCAGCUCCAUCUGCAACAGCGGUUCCCUUGGGUCCAGCUUCCCUCAAUGCUCCAGCUUUAGCAGGAGCAGGUG
(((((((.......(((((((((......))))...(((((..((....)).)).))).........)).)))........))))))).... (-26.30 = -26.70 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:56 2006