Locus 8071

Sequence ID	X_DroMel_CAF1
Location	20,099,771 – 20,099,903
Length	132
Max. P	0.998054

overview

Window 5

Location	20,099,771 – 20,099,863
Length	92
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	83.02
Mean single sequence MFE	-25.55
Consensus MFE	-19.05
Energy contribution	-18.67
Covariance contribution	-0.37
Combinations/Pair	1.10
Mean z-score	-3.48
Structure conservation index	0.75
SVM decision value	2.99
SVM RNA-class probability	0.998054
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20099771 92 + 22224390
----------------------UGUUUUG-UUUCGUGUUCAUCGCUUAAGCUGCUUUAAAUUUAUUGGUUUGCACAGUUUAAGCGAUUUUCGUUUUGUAUUUUCCAUUUG-----CAGAC
----------------------.......-..........(((((((((((((...((((((....))))))..)))))))))))))......((((((.........))-----)))). ( -21.00)
>DroSec_CAF1 10008 92 + 1
----------------------UGUUUUG-UUUCGUGUUCAUCGCUUAAGCUGCUUUAAAUUUAUUGGUUUGCACAGUUUAAGCGAUUUUCGUUUUGUAUUUUCCAUUUG-----CAGAC
----------------------.......-..........(((((((((((((...((((((....))))))..)))))))))))))......((((((.........))-----)))). ( -21.00)
>DroEre_CAF1 7396 92 + 1
----------------------UGUUUUG-UUUCGUGUUCAUCGCUUAAGCUGCUUUAAAUUUAUUGGUUUGCACAGUUUAAGCGAUUUUCGUUUUGUAUUUUCCAUUUG-----CAGAC
----------------------.......-..........(((((((((((((...((((((....))))))..)))))))))))))......((((((.........))-----)))). ( -21.00)
>DroAna_CAF1 5068 120 + 1
CGCCCCGGGCCAAGUGCAAUUUUUUAUUGUUUUUGCGCUCGUCGCUUAAGCUGCUUUAAAUUUAUUGGUUUGCACAGUUUAAGCGAUUUUCGUUUUGUAUUUUCCAUUUGGCCUGAAAAC
.....(((((((((((((((.....)))).....(((...(((((((((((((...((((((....))))))..)))))))))))))...)))...........)))))))))))..... ( -39.20)
>consensus
______________________UGUUUUG_UUUCGUGUUCAUCGCUUAAGCUGCUUUAAAUUUAUUGGUUUGCACAGUUUAAGCGAUUUUCGUUUUGUAUUUUCCAUUUG_____CAGAC
...................................((...(((((((((((((...((((((....))))))..)))))))))))))...))............................ (-19.05 = -18.67 +  -0.37)

alignment

secondary structure

dotplot

Window 6

Location	20,099,771 – 20,099,863
Length	92
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	83.02
Mean single sequence MFE	-18.55
Consensus MFE	-13.90
Energy contribution	-14.15
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-2.70
Structure conservation index	0.75
SVM decision value	2.12
SVM RNA-class probability	0.988532
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20099771 92 - 22224390
GUCUG-----CAAAUGGAAAAUACAAAACGAAAAUCGCUUAAACUGUGCAAACCAAUAAAUUUAAAGCAGCUUAAGCGAUGAACACGAAA-CAAAACA----------------------
.(((.-----.....)))..........((...(((((((((.((((..(((........)))...)))).))))))))).....))...-.......---------------------- ( -15.20)
>DroSec_CAF1 10008 92 - 1
GUCUG-----CAAAUGGAAAAUACAAAACGAAAAUCGCUUAAACUGUGCAAACCAAUAAAUUUAAAGCAGCUUAAGCGAUGAACACGAAA-CAAAACA----------------------
.(((.-----.....)))..........((...(((((((((.((((..(((........)))...)))).))))))))).....))...-.......---------------------- ( -15.20)
>DroEre_CAF1 7396 92 - 1
GUCUG-----CAAAUGGAAAAUACAAAACGAAAAUCGCUUAAACUGUGCAAACCAAUAAAUUUAAAGCAGCUUAAGCGAUGAACACGAAA-CAAAACA----------------------
.(((.-----.....)))..........((...(((((((((.((((..(((........)))...)))).))))))))).....))...-.......---------------------- ( -15.20)
>DroAna_CAF1 5068 120 - 1
GUUUUCAGGCCAAAUGGAAAAUACAAAACGAAAAUCGCUUAAACUGUGCAAACCAAUAAAUUUAAAGCAGCUUAAGCGACGAGCGCAAAAACAAUAAAAAAUUGCACUUGGCCCGGGGCG
........(((...(((.................((((((((.((((..(((........)))...)))).))))))))((((.((((.............)))).))))..))).))). ( -28.62)
>consensus
GUCUG_____CAAAUGGAAAAUACAAAACGAAAAUCGCUUAAACUGUGCAAACCAAUAAAUUUAAAGCAGCUUAAGCGAUGAACACGAAA_CAAAACA______________________
.............................(...(((((((((.((((..(((........)))...)))).)))))))))...).................................... (-13.90 = -14.15 +   0.25)

alignment

secondary structure

dotplot

Window 7

Location	20,099,788 – 20,099,903
Length	115
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	76.06
Mean single sequence MFE	-26.23
Consensus MFE	-18.62
Energy contribution	-18.40
Covariance contribution	-0.22
Combinations/Pair	1.05
Mean z-score	-2.01
Structure conservation index	0.71
SVM decision value	2.06
SVM RNA-class probability	0.986873
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20099788 115 + 22224390
AUCGCUUAAGCUGCUUUAAAUUUAUUGGUUUGCACAGUUUAAGCGAUUUUCGUUUUGUAUUUUCCAUUUG-----CAGACUCGCUGGUCAGCCCAAACAGCACACUAUUGCGUUUCUUCC
(((((((((((((...((((((....))))))..)))))))))))))...(((((((((.........))-----))))...((((...........))))........)))........ ( -26.90)
>DroEre_CAF1 7413 115 + 1
AUCGCUUAAGCUGCUUUAAAUUUAUUGGUUUGCACAGUUUAAGCGAUUUUCGUUUUGUAUUUUCCAUUUG-----CAGACUCGCUGGCCAGCCGAACCAGAGCACUACUGCUCCCUUUCC
(((((((((((((...((((((....))))))..))))))))))))).((((.((((((.........))-----))))...(((....)))))))...(((((....)))))....... ( -30.70)
>DroAna_CAF1 5108 100 + 1
GUCGCUUAAGCUGCUUUAAAUUUAUUGGUUUGCACAGUUUAAGCGAUUUUCGUUUUGUAUUUUCCAUUUGGCCUGAAAACCCACUCCCCAUCCCGGC-AGA-------------------
(((((((((((((...((((((....))))))..))))))))))))).......................(((.....................)))-...------------------- ( -21.10)
>consensus
AUCGCUUAAGCUGCUUUAAAUUUAUUGGUUUGCACAGUUUAAGCGAUUUUCGUUUUGUAUUUUCCAUUUG_____CAGACUCGCUGGCCAGCCCAACCAGA_CACUA_UGC_____UUCC
(((((((((((((...((((((....))))))..)))))))))))))......................................................................... (-18.62 = -18.40 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:44 2006