Locus 6559

Sequence ID	X_DroMel_CAF1
Location	16,408,742 – 16,408,834
Length	92
Max. P	0.965818

overview

Window 9

Location	16,408,742 – 16,408,834
Length	92
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	81.22
Mean single sequence MFE	-23.52
Consensus MFE	-18.92
Energy contribution	-19.36
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-2.22
Structure conservation index	0.80
SVM decision value	1.59
SVM RNA-class probability	0.965818
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16408742 92 + 22224390
GUUCGUUGUUCCUGAUGCCAAUUAAUUAUAAUAAUUAAGUUAGAAAUGCGUUGCGACUGAGCAACAGUAACAGCGGCAACACAAAACACAC-G------------------------
....(((((..(((.(((...(((((((...)))))))...........(((((......))))).))).)))..)))))...........-.------------------------ ( -20.80)
>DroSec_CAF1 29485 91 + 1
GU-CGUUGUUCCUGCUGCCAAUUAAUUAUAAUAAUUAAGUUAGAAAUGCGUUGCGACUGAGCAACAGUAACAGCGGCAACACAAAACACAC-A------------------------
((-(((((((.((((......(((((((...))))))).........))(((((......))))))).)))))))))..............-.------------------------ ( -22.66)
>DroSim_CAF1 26413 92 + 1
GU-CGUUGUUCCUGCUGCCAAUUAAUUAUAAUAAUUAAGUUAGAAAUGCGUUGCGACUGAGCAACAGUAACAGCGGCAACACAAAACACACCA------------------------
((-(((((((.((((......(((((((...))))))).........))(((((......))))))).)))))))))................------------------------ ( -22.66)
>DroYak_CAF1 27507 89 + 1
GU-GGUUGUUCCUGCCGCCAAUUAAUUAUAAUAAUUAAGUUAGAAAUGCGUUGCGACUGAGCAACAGUAACAGCGGCAACACACAACA--G-G------------------------
..-.(((((...((((((...(((((((...)))))))........((((((((......))))).)))...))))))....))))).--.-.------------------------ ( -24.90)
>DroAna_CAF1 30630 113 + 1
UU-AGUUGUUCUU---GCCAAUUAAUUAUAAUAAUUAAGUUCGAAAUGCGUUGCGACUAAGCAACAGUAACAGCGGCAACAACAAUUAUGCCAUCAAUGGAAAGCGGCCAGGAACCA
..-....((((((---(((..(((((((...))))))).........(((((((......))))).........((((..........))))...........)))).))))))).. ( -26.60)
>consensus
GU_CGUUGUUCCUGCUGCCAAUUAAUUAUAAUAAUUAAGUUAGAAAUGCGUUGCGACUGAGCAACAGUAACAGCGGCAACACAAAACACAC_A________________________
....(((((..(((.(((...(((((((...)))))))...........(((((......))))).))).)))..)))))..................................... (-18.92 = -19.36 +   0.44)

alignment

secondary structure

dotplot

Window 0

Location	16,408,742 – 16,408,834
Length	92
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	81.22
Mean single sequence MFE	-24.58
Consensus MFE	-17.60
Energy contribution	-18.92
Covariance contribution	1.32
Combinations/Pair	1.07
Mean z-score	-1.88
Structure conservation index	0.72
SVM decision value	0.68
SVM RNA-class probability	0.821709
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16408742 92 - 22224390
------------------------C-GUGUGUUUUGUGUUGCCGCUGUUACUGUUGCUCAGUCGCAACGCAUUUCUAACUUAAUUAUUAUAAUUAAUUGGCAUCAGGAACAACGAAC
------------------------(-((.(((((((((((((.((((...........)))).)))))))....((((.(((((((...))))))))))).....)))))))))... ( -22.40)
>DroSec_CAF1 29485 91 - 1
------------------------U-GUGUGUUUUGUGUUGCCGCUGUUACUGUUGCUCAGUCGCAACGCAUUUCUAACUUAAUUAUUAUAAUUAAUUGGCAGCAGGAACAACG-AC
------------------------.-((.((((((.((((((((((((.((((.....)))).)))..)).........(((((((...)))))))..))))))))))))))).-.. ( -23.60)
>DroSim_CAF1 26413 92 - 1
------------------------UGGUGUGUUUUGUGUUGCCGCUGUUACUGUUGCUCAGUCGCAACGCAUUUCUAACUUAAUUAUUAUAAUUAAUUGGCAGCAGGAACAACG-AC
------------------------..((.((((((.((((((((((((.((((.....)))).)))..)).........(((((((...)))))))..))))))))))))))).-.. ( -23.60)
>DroYak_CAF1 27507 89 - 1
------------------------C-C--UGUUGUGUGUUGCCGCUGUUACUGUUGCUCAGUCGCAACGCAUUUCUAACUUAAUUAUUAUAAUUAAUUGGCGGCAGGAACAACC-AC
------------------------(-(--(((((((((((((.((((...........)))).)))))))..........((((((.......)))))))))))))).......-.. ( -27.10)
>DroAna_CAF1 30630 113 - 1
UGGUUCCUGGCCGCUUUCCAUUGAUGGCAUAAUUGUUGUUGCCGCUGUUACUGUUGCUUAGUCGCAACGCAUUUCGAACUUAAUUAUUAUAAUUAAUUGGC---AAGAACAACU-AA
.(((.....)))(((.((....)).)))....(((((.(((((.........(((((......)))))...........(((((((...)))))))..)))---)).)))))..-.. ( -26.20)
>consensus
________________________U_GUGUGUUUUGUGUUGCCGCUGUUACUGUUGCUCAGUCGCAACGCAUUUCUAACUUAAUUAUUAUAAUUAAUUGGCAGCAGGAACAACG_AC
.............................((((((.((((((((((((.((((.....)))).)))..)).........(((((((...)))))))..)))))))))))))...... (-17.60 = -18.92 +   1.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:51 2006