Locus 5047

Sequence ID	2L_DroMel_CAF1
Location	14,479,032 – 14,479,143
Length	111
Max. P	0.686784

overview

Window 5

Location	14,479,032 – 14,479,143
Length	111
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	94.30
Mean single sequence MFE	-37.60
Consensus MFE	-29.87
Energy contribution	-29.87
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.63
Structure conservation index	0.79
SVM decision value	0.32
SVM RNA-class probability	0.686784
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14479032 111 + 22407834
CUAACGAUUUGGGUGGUUG---------GUUGAUGGGAUGAUGGGAAUGACCAUCGCAGCACAUCACAGAUUUGUGGUGUUAAUUUGCUGUGAAAUGUUGACUGACCAGAGACCAGUGAC
........((((.((((..---------((..((.....(((((......)))))((((((((((((......)))))))......))))).....))..))..))))....)))).... ( -38.00)
>DroSec_CAF1 3614 111 + 1
CUAACGAUUUGGGUGGUUG---------GUUGAUGGGAUGAUGGGAAUGACCAUCGCAGCACAUCACAGAUUUGUGGUGUUAAUUUGCUGUGAAAUGUUGACUGACCAGAGACCAGUGAC
........((((.((((..---------((..((.....(((((......)))))((((((((((((......)))))))......))))).....))..))..))))....)))).... ( -38.00)
>DroEre_CAF1 5056 120 + 1
CUAACGAUUUGGGUGGUUGAUGGGAUGGGUUGAUGGGAUGAUGGGAAUGGCCAUCGCAGCACAUCACAGAUUUGUGGUGUUAAUUUGCUGUGAAAUGUUGACUGACCAGAGACCAGUGAC
...........(.(((((..(((....(((..((.....(((((......)))))((((((((((((......)))))))......))))).....))..)))..)))..))))).)... ( -36.80)
>consensus
CUAACGAUUUGGGUGGUUG_________GUUGAUGGGAUGAUGGGAAUGACCAUCGCAGCACAUCACAGAUUUGUGGUGUUAAUUUGCUGUGAAAUGUUGACUGACCAGAGACCAGUGAC
........((((.((((((.........((..((.....(((((......)))))((((((((((((......)))))))......))))).....))..))))))))....)))).... (-29.87 = -29.87 +  -0.00)

alignment

secondary structure

dotplot

Window 6

Location	14,479,032 – 14,479,143
Length	111
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	94.30
Mean single sequence MFE	-21.24
Consensus MFE	-20.20
Energy contribution	-20.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.49
Structure conservation index	0.95
SVM decision value	0.04
SVM RNA-class probability	0.553019
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14479032 111 - 22407834
GUCACUGGUCUCUGGUCAGUCAACAUUUCACAGCAAAUUAACACCACAAAUCUGUGAUGUGCUGCGAUGGUCAUUCCCAUCAUCCCAUCAAC---------CAACCACCCAAAUCGUUAG
.....((((...((((..(.((.(((.((((((..................)))))).))).)))(((((......))))).........))---------))))))............. ( -21.47)
>DroSec_CAF1 3614 111 - 1
GUCACUGGUCUCUGGUCAGUCAACAUUUCACAGCAAAUUAACACCACAAAUCUGUGAUGUGCUGCGAUGGUCAUUCCCAUCAUCCCAUCAAC---------CAACCACCCAAAUCGUUAG
.....((((...((((..(.((.(((.((((((..................)))))).))).)))(((((......))))).........))---------))))))............. ( -21.47)
>DroEre_CAF1 5056 120 - 1
GUCACUGGUCUCUGGUCAGUCAACAUUUCACAGCAAAUUAACACCACAAAUCUGUGAUGUGCUGCGAUGGCCAUUCCCAUCAUCCCAUCAACCCAUCCCAUCAACCACCCAAAUCGUUAG
.....((((...(((...(.((.(((.((((((..................)))))).))).)))(((((......)))))................)))...))))............. ( -20.77)
>consensus
GUCACUGGUCUCUGGUCAGUCAACAUUUCACAGCAAAUUAACACCACAAAUCUGUGAUGUGCUGCGAUGGUCAUUCCCAUCAUCCCAUCAAC_________CAACCACCCAAAUCGUUAG
...((((..(...)..)))).(((......((((......(((.((((....)))).))))))).(((((......)))))..................................))).. (-20.20 = -20.20 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:31 2006