Locus 8100

Sequence ID	3L_DroMel_CAF1
Location	21,318,773 – 21,318,980
Length	207
Max. P	0.999315

overview

Window 0

Location	21,318,773 – 21,318,883
Length	110
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	93.77
Mean single sequence MFE	-22.50
Consensus MFE	-20.64
Energy contribution	-20.28
Covariance contribution	-0.36
Combinations/Pair	1.17
Mean z-score	-2.20
Structure conservation index	0.92
SVM decision value	3.51
SVM RNA-class probability	0.999315
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21318773 110 - 23771897
UAAC-AACAAAUCAAUACUAAUUUGAUUAUUGUUCUGGCCAAAAUGCCGAAGGAUAUUUUUGGUAAUUGAACACUUUAGUUUAUUGCCAGCACGCUAAACUCCCAUUCAAU
....-....((((((.......))))))...((.(((((.....((((((((.....))))))))..(((((......)))))..))))).)).................. ( -20.80)
>DroSec_CAF1 21925 111 - 1
UAACCAACAAAUCAAUACUAAUUUGAUUAUUGUUCUGGCCAAAAUGCCGAAGGAUAUUUUUGGUAAUUGAACACUUUAGUUUAUUGCCAGCACGAUAAACUCCCAUUCAAU
..(((((..((((((.......))))))(((.(((.(((......)))))).)))....))))).((((((......(((((((((......)))))))))....)))))) ( -24.10)
>DroSim_CAF1 21971 111 - 1
UAACCAACAAAUCAAUACUAAUUUGAUUAUUGUUCUGGCCAAAAUGCCGAAGGAUAUUUUUGGUAAUUGAACACUUUAGUUUAUUGCCAGCACGAUAAACUCCCAUUCAAU
..(((((..((((((.......))))))(((.(((.(((......)))))).)))....))))).((((((......(((((((((......)))))))))....)))))) ( -24.10)
>DroEre_CAF1 23838 110 - 1
UAAC-AAUAAAUCAAUACUAAUUCGAUUAUUGUUUUGGCCAAAAUGCCGAAGGAUAUUUUUGGUAAUUGAACACUUUAGUUUAUUGUCAGCAUAAUAAACUCCUAUUCAAU
....-......((((((((((...(((...(.(((((((......))))))).).))).))))).))))).......((((((((((....)))))))))).......... ( -19.90)
>DroYak_CAF1 48089 110 - 1
UAAC-AAGAAAUCAAUACUAAUUUGAUUAUUGUUCUGGCCAAAAGGCCGAAGGAAAUCUUUGGUAAUUGAACACUUUAGUUUAUUGUCAGCAUGAUAAUCUCGCACUCAAU
....-..((..((((((((((...((((.((.(((.((((....))))))).)))))).))))).)))))........((..((((((.....))))))...))..))... ( -23.60)
>consensus
UAAC_AACAAAUCAAUACUAAUUUGAUUAUUGUUCUGGCCAAAAUGCCGAAGGAUAUUUUUGGUAAUUGAACACUUUAGUUUAUUGCCAGCACGAUAAACUCCCAUUCAAU
...........((((.......))))(((((((.(((((.....((((((((.....))))))))..(((((......)))))..))))).)))))))............. (-20.64 = -20.28 +  -0.36)

alignment

secondary structure

dotplot

Window 1

Location	21,318,883 – 21,318,980
Length	97
Sequences	4
Columns	99
Reading direction	forward
Mean pairwise identity	88.89
Mean single sequence MFE	-21.68
Consensus MFE	-15.95
Energy contribution	-17.45
Covariance contribution	1.50
Combinations/Pair	1.12
Mean z-score	-1.81
Structure conservation index	0.74
SVM decision value	0.35
SVM RNA-class probability	0.702317
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21318883 97 + 23771897
GCUUAUUGGCUUUUAUGUUGUGACAUAUGUAUGUAAAUUUGUUUGCUAAAACAACGAAACCAAAUUUGAGAUAAUUGAGUUUUGUG--CAUAUGAGAGC
........((((((((((.((.((((....)))).....(((((....)))))(((((((..((((......))))..))))))))--))))))))))) ( -19.50)
>DroSec_CAF1 22036 93 + 1
GCUUAUUGGCUUUCAUGUUGUGACAUAU----AUAAAUGUGUUUGCUAAAACAACGAAACCAAAUUUGAGAUAAUUGAGUUUGCUG--CAUAUGAGAGC
........((((((((((((((((((((----....))))))).......))))).....((((((..(.....)..))))))...--...)))))))) ( -21.31)
>DroSim_CAF1 22082 95 + 1
GCUUAUUGGCUUUCAUGUUGUGACAUAU----AUAAAUUUGUUUGCUAAAAAAACGAAACCAAAUUUGAGAUAAUUGAGUUUGGUGCGCAUAUGAGAGC
........((((((((((.(((.(....----.....(((((((.......)))))))((((((((..(.....)..)))))))))))))))))))))) ( -28.30)
>DroYak_CAF1 48199 93 + 1
GCUUAUUGGCUUUCAUUUUCCAACAUAU----AUAAACUUGUUGCGUAAAACAACGAAACCAAAUUUGGGAUAAUUGAGUUUUGUG--CAUAUGAGAGC
........((((((((....(((((...----.......))))).........(((((((..((((......))))..))))))).--...)))))))) ( -17.60)
>consensus
GCUUAUUGGCUUUCAUGUUGUGACAUAU____AUAAAUUUGUUUGCUAAAACAACGAAACCAAAUUUGAGAUAAUUGAGUUUGGUG__CAUAUGAGAGC
........((((((((((...................(((((((.......)))))))((((((((..(.....)..))))))))....)))))))))) (-15.95 = -17.45 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:19 2006