Locus 3235

Sequence ID	X_DroMel_CAF1
Location	8,553,261 – 8,553,373
Length	112
Max. P	0.964075

overview

Window 3

Location	8,553,261 – 8,553,373
Length	112
Sequences	3
Columns	117
Reading direction	forward
Mean pairwise identity	92.35
Mean single sequence MFE	-25.60
Consensus MFE	-23.62
Energy contribution	-23.62
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.63
Structure conservation index	0.92
SVM decision value	1.56
SVM RNA-class probability	0.964075
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8553261 112 + 22224390
AUCGCAUAAUUCAAAAUUCAUUUCGAAGGCGCACAAAAGGCGCCCAUGGAAUUAAAAUGGAAAUGGAAUUGGAAUUGGAAUCCAAGCCA-----GCGACCACAUAAUAAUACAUAUU
.((((...........((((((((...(((((.......)))))(((.........)))))))))))..(((..((((...)))).)))-----))))................... ( -26.50)
>DroSec_CAF1 13952 106 + 1
AUCGCAUAAUUCAAAAUUCAUUUCGAAGGCGCACAAAAGGCGCCCAUGGAAUUAAAAUGGAAAUGGAAU------UGGAAUCCAAGCCA-----GCGACCACAUAAUAAUACAUAUU
.((((.((((((....(((.....)))(((((.......)))))....))))))...(((...((((..------.....))))..)))-----))))................... ( -25.20)
>DroEre_CAF1 14737 111 + 1
AUCGCAUAAUUCAAAAUUCACUUGGAAGGCGCACAAAAGGCGCCCAUGGAAUUAAAAUGGAAAUGGAAU------UGGAAUCCAAGCCAGCGCAGCGACCACAUAAUAAUACAUAUU
.((((.((((((....(((.....)))(((((.......)))))....))))))...(((...((((..------.....))))..))).....))))................... ( -25.10)
>consensus
AUCGCAUAAUUCAAAAUUCAUUUCGAAGGCGCACAAAAGGCGCCCAUGGAAUUAAAAUGGAAAUGGAAU______UGGAAUCCAAGCCA_____GCGACCACAUAAUAAUACAUAUU
.((((.((((((....(((.....)))(((((.......)))))....))))))...(((...((((.............))))..))).....))))................... (-23.62 = -23.62 +  -0.00)

alignment

secondary structure

dotplot

Window 4

Location	8,553,261 – 8,553,373
Length	112
Sequences	3
Columns	117
Reading direction	reverse
Mean pairwise identity	92.35
Mean single sequence MFE	-26.60
Consensus MFE	-23.65
Energy contribution	-23.65
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.76
Structure conservation index	0.89
SVM decision value	0.12
SVM RNA-class probability	0.593167
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8553261 112 - 22224390
AAUAUGUAUUAUUAUGUGGUCGC-----UGGCUUGGAUUCCAAUUCCAAUUCCAUUUCCAUUUUAAUUCCAUGGGCGCCUUUUGUGCGCCUUCGAAAUGAAUUUUGAAUUAUGCGAU
..((((((....))))))(((((-----(((.(((((.......)))))..))).(((...((((.(((...(((((((....).))))))..))).))))....)))....))))) ( -27.40)
>DroSec_CAF1 13952 106 - 1
AAUAUGUAUUAUUAUGUGGUCGC-----UGGCUUGGAUUCCA------AUUCCAUUUCCAUUUUAAUUCCAUGGGCGCCUUUUGUGCGCCUUCGAAAUGAAUUUUGAAUUAUGCGAU
..((((((....))))))(((((-----(((..((((.....------..))))...))).((((.(((...(((((((....).))))))..))).))))...........))))) ( -26.60)
>DroEre_CAF1 14737 111 - 1
AAUAUGUAUUAUUAUGUGGUCGCUGCGCUGGCUUGGAUUCCA------AUUCCAUUUCCAUUUUAAUUCCAUGGGCGCCUUUUGUGCGCCUUCCAAGUGAAUUUUGAAUUAUGCGAU
....(((((.(((......(((((....(((..((((.....------..))))...)))............(((((((....).))))))....)))))......))).))))).. ( -25.80)
>consensus
AAUAUGUAUUAUUAUGUGGUCGC_____UGGCUUGGAUUCCA______AUUCCAUUUCCAUUUUAAUUCCAUGGGCGCCUUUUGUGCGCCUUCGAAAUGAAUUUUGAAUUAUGCGAU
..((((((....))))))(((((.....(((..((((.............))))...)))((..(((((...(((((((....).)))))).......)))))..)).....))))) (-23.65 = -23.65 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:34 2006