Locus 5202

Sequence ID	2L_DroMel_CAF1
Location	14,714,768 – 14,714,904
Length	136
Max. P	0.946180

overview

Window 9

Location	14,714,768 – 14,714,872
Length	104
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	97.38
Mean single sequence MFE	-26.78
Consensus MFE	-25.54
Energy contribution	-25.54
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.28
Structure conservation index	0.95
SVM decision value	0.63
SVM RNA-class probability	0.806581
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14714768 104 + 22407834
CGCAUUUUCAUUUCGCCUUGUAAUGACUUCAUCCCGGCUUCAGAGUCUUUGGGGUUUUGGUUC--UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG-----UAGU
.(((....................((((..(((((((((....))))...)))))...)))).--((((((((..((((....))))..))))))))...))-----)... ( -26.30)
>DroSec_CAF1 71824 104 + 1
CGCAUUUUCAUUUCGCCUUGUAAUGACUUCAUCCCGGCUUCAGAGUCUUUGGGGUUUUGGUUC--UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG-----UAGU
.(((....................((((..(((((((((....))))...)))))...)))).--((((((((..((((....))))..))))))))...))-----)... ( -26.30)
>DroSim_CAF1 71774 104 + 1
CGCAUUUUCAUUUCGCCUUGUAAUGACUUCAUCCCGGCUUCAGAGUCUUUGGGGUUUUGGUUC--UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG-----UAGU
.(((....................((((..(((((((((....))))...)))))...)))).--((((((((..((((....))))..))))))))...))-----)... ( -26.30)
>DroEre_CAF1 71379 106 + 1
CGCAUUUUCAUUUCGCCUUGUAAUGACUUCAUCCCGGCUUCAGAGUCUUUGGGGUUUUGGUUCUUUGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG-----UAGU
.(((....................((((..(((((((((....))))...)))))...))))...((((((((..((((....))))..))))))))...))-----)... ( -26.40)
>DroYak_CAF1 70871 109 + 1
CGCAUUUUCAUUUCGCCUUGUAAUGACUUCAUCCCGGCUUCAGAGUCUUUGGGGUUUUGGUUC--UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUGUCCCGUAGU
..............(((..(..(((....)))..))))........((.(((((....((...--((((((((..((((....))))..)))))))).))..))))).)). ( -28.60)
>consensus
CGCAUUUUCAUUUCGCCUUGUAAUGACUUCAUCCCGGCUUCAGAGUCUUUGGGGUUUUGGUUC__UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG_____UAGU
........................((((..(((((((((....))))...)))))...))))...((((((((..((((....))))..)))))))).............. (-25.54 = -25.54 +  -0.00)

alignment

secondary structure

dotplot

Window 0

Location	14,714,803 – 14,714,904
Length	101
Sequences	5
Columns	115
Reading direction	forward
Mean pairwise identity	94.00
Mean single sequence MFE	-31.90
Consensus MFE	-28.28
Energy contribution	-28.12
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.57
Structure conservation index	0.89
SVM decision value	1.36
SVM RNA-class probability	0.946180
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14714803 101 + 22407834
GGCUUCAGAGUCUUUGGGGUUUUGGUUC--UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG-----UAGUUGCCUGUCUGACAAAACA-ACGCCAGUCAG------CUA
(((.(((((..(.....)..)))))...--((((((((..((((....))))..)))))))).....-----.....))).(.(((((......-......)))))------).. ( -28.90)
>DroSec_CAF1 71859 101 + 1
GGCUUCAGAGUCUUUGGGGUUUUGGUUC--UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG-----UAGUUGCCUGUCUGACAAAACA-ACGCCAGUCAG------CUA
(((.(((((..(.....)..)))))...--((((((((..((((....))))..)))))))).....-----.....))).(.(((((......-......)))))------).. ( -28.90)
>DroSim_CAF1 71809 101 + 1
GGCUUCAGAGUCUUUGGGGUUUUGGUUC--UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG-----UAGUUGCCUGUCUGACAAAACA-ACGCCAGUCAG------CUA
(((.(((((..(.....)..)))))...--((((((((..((((....))))..)))))))).....-----.....))).(.(((((......-......)))))------).. ( -28.90)
>DroEre_CAF1 71414 104 + 1
GGCUUCAGAGUCUUUGGGGUUUUGGUUCUUUGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG-----UAGUUGCCUGUCUGGCAAAACAAACGCCAGUCAG------CUA
(((.(((((..(.....)..))))).....((((((((..((((....))))..)))))))).....-----.....)))((.(((((.........))))).)).------... ( -33.80)
>DroYak_CAF1 70906 112 + 1
GGCUUCAGAGUCUUUGGGGUUUUGGUUC--UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUGUCCCGUAGUUGCCAGUCUGACAAAACA-ACGCCAGUCAGCGUUGGCUA
(((.(((((.(((.(((((....((...--((((((((..((((....))))..)))))))).))..))))).)).....).))))).....((-((((......))))))))). ( -39.00)
>consensus
GGCUUCAGAGUCUUUGGGGUUUUGGUUC__UGGUUUUGUUAUUGGAGACAAUUUCGAAGCCAUCCUG_____UAGUUGCCUGUCUGACAAAACA_ACGCCAGUCAG______CUA
(((.(((((..(.....)..))))).....((((((((..((((....))))..))))))))...............)))...(((((.............)))))......... (-28.28 = -28.12 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:30 2006