Locus 8192

Sequence ID	X_DroMel_CAF1
Location	20,354,932 – 20,355,051
Length	119
Max. P	0.721928

overview

Window 5

Location	20,354,932 – 20,355,024
Length	92
Sequences	4
Columns	96
Reading direction	reverse
Mean pairwise identity	84.91
Mean single sequence MFE	-19.17
Consensus MFE	-14.95
Energy contribution	-15.82
Covariance contribution	0.88
Combinations/Pair	1.12
Mean z-score	-1.67
Structure conservation index	0.78
SVM decision value	0.38
SVM RNA-class probability	0.714064
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20354932 92 - 22224390
UUUUCCAAUUCCAUUUCCACGCCUG----CAAUUGCGAUUGCGAUUGCGAUUGCAGCUGCUGAUGCCGCCAUUUUAUCUAAUUGCGUUGCACCCAA
.................((.(((((----((((((((((....)))))))))))))..)))).((((((.(((......))).)))..)))..... ( -24.00)
>DroSec_CAF1 2340 96 - 1
UUUUCCAAUUCCAUUUCCACGCCUUUCCACGCCUGCAAUUGCGAUUGCGAUUGCAGCUGCUGAUGCCGCCAUUUUAUCUAAUUGCGUUGCACCCAA
...........................((.((((((((((((....))))))))))..)))).((((((.(((......))).)))..)))..... ( -20.80)
>DroSim_CAF1 2333 90 - 1
UUUUCCAAUUCCAUUUCCACGCCUUUCCACGCCUGCAAUUGC------GAUUGCAGCUGCUGAUGCCGCCAUUUUAUCUAAUUGCGUUGCACCCAA
..............................((.((((((((.------(((....((.((....)).))......)))))))))))..))...... ( -14.30)
>DroEre_CAF1 2324 83 - 1
UUUCCC------AUUUCCACGCCCCUCCACGCCUGCAGUUGC------GCUUGCAGCUGCUGAUGCCGCCAUUUUAUCUAAUUGCGUUGC-CCCAA
......------........((........((..((((((((------....))))))))....))(((.(((......))).)))..))-..... ( -17.60)
>consensus
UUUUCCAAUUCCAUUUCCACGCCUUUCCACGCCUGCAAUUGC______GAUUGCAGCUGCUGAUGCCGCCAUUUUAUCUAAUUGCGUUGCACCCAA
..................((((...........(((((((((....)))))))))((.((....)).))..............))))......... (-14.95 = -15.82 +   0.88)

alignment

secondary structure

dotplot

Window 6

Location	20,354,955 – 20,355,051
Length	96
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	78.09
Mean single sequence MFE	-20.56
Consensus MFE	-11.82
Energy contribution	-12.42
Covariance contribution	0.60
Combinations/Pair	1.15
Mean z-score	-1.86
Structure conservation index	0.57
SVM decision value	0.40
SVM RNA-class probability	0.721928
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20354955 96 - 22224390
UCCAUUUCCCCGUUUGCCAUUUCCACAUUUUCCAAUUCCAUUUCCA-CGCCUG----CAAUUGCGAUUGCGAUUGCGAUUGCAGCUGCUGAUGCCGCCAUU
......................................((((..((-.((.((----((((((((((....))))))))))))))))..))))........ ( -20.70)
>DroSec_CAF1 2363 100 - 1
UCCAUUUCCCCGUUUGCCAUUUCCACAUUUUCCAAUUCCAUUUCCA-CGCCUUUCCACGCCUGCAAUUGCGAUUGCGAUUGCAGCUGCUGAUGCCGCCAUU
..........((((.((.............................-.((........))((((((((((....))))))))))..)).))))........ ( -17.10)
>DroSim_CAF1 2356 94 - 1
UCCAUUUCCCCGUUUGCCAUUUCCACAUUUUCCAAUUCCAUUUCCA-CGCCUUUCCACGCCUGCAAUUGC------GAUUGCAGCUGCUGAUGCCGCCAUU
..........((((.((.............................-.((........))(((((((...------.)))))))..)).))))........ ( -10.40)
>DroEre_CAF1 2346 88 - 1
UCCAUUUCCCCGUUUGCCAUUUCCACAUUUCCC------AUUUCCA-CGCCCCUCCACGCCUGCAGUUGC------GCUUGCAGCUGCUGAUGCCGCCAUU
.................................------.......-...........((..((((((((------....))))))))....))....... ( -13.90)
>DroAna_CAF1 18323 91 - 1
UCCAUUUCCACAGC-GGCAUGUCUGCAGU-------GCCGUUGCCGUUGCCGUUGCA--AUUGCGAUUGCGAUUGCGAUUGCAGCUGCUGAUGCCGCCAUU
............((-((((..((.(((((-------((.(((((.(((((.(((((.--...))))).))))).))))).))).)))).)))))))).... ( -40.70)
>consensus
UCCAUUUCCCCGUUUGCCAUUUCCACAUUUUCCAAUUCCAUUUCCA_CGCCUUUCCACGCCUGCAAUUGCGAUUGCGAUUGCAGCUGCUGAUGCCGCCAUU
.............................................................(((((((((....)))))))))((.((....)).)).... (-11.82 = -12.42 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:08 2006