Locus 134

Sequence ID	4_DroMel_CAF1
Location	899,973 – 900,064
Length	91
Max. P	0.998530

overview

Window 4

Location	899,973 – 900,064
Length	91
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	72.32
Mean single sequence MFE	-14.42
Consensus MFE	-5.06
Energy contribution	-6.38
Covariance contribution	1.32
Combinations/Pair	1.11
Mean z-score	-2.70
Structure conservation index	0.35
SVM decision value	3.13
SVM RNA-class probability	0.998530
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 899973 91 + 1281640
-AAAGAUACAUCAACUUGCAUUGAAACAGUGUAC---AUUAUGUAUGU------ACAUAUGCCCUAACUAAAACA-------UACAUACAUACAAUCAUGUAAAUGUC
-.....(((((.....(((((((...))))))).---....(((((((------(..((((............))-------))..))))))))...)))))...... ( -16.30)
>DroSec_CAF1 8426 94 + 1
AAAAGAUACACCAACUUGCAUUGAAACAGUGUAC---UAUAUGUAUGUUUUAAUAUGUAUGCUUUAGCAAAAACA-------UACA----UACAAAAAUGUAAAUAAC
......((((......(((((((...))))))).---..((((((((((((........(((....)))))))))-------))))----))......))))...... ( -18.40)
>DroSim_CAF1 10532 94 + 1
AAAAGAUACACCAACUUGCAUUGAAACAGUGUAC---UAUAUGUAUGUUUUAAUAUGUAUGCUUUAGCAAAAACA-------UACA----UACAAAAAUGUAAAUAAC
......((((......(((((((...))))))).---..((((((((((((........(((....)))))))))-------))))----))......))))...... ( -18.40)
>DroEre_CAF1 13543 89 + 1
--AAAAUACACCAACUUGCAUUGAAACAGUGUAG---AACAUGU----------ACAUAUGCUUUUACAAAAACAAAAAACAUACA----UACAUUAAUGUUUACGAG
--..............(((((((...)))))))(---(((((((----------(..((((.((((.........)))).))))..----))))....)))))..... ( -10.40)
>DroYak_CAF1 10824 86 + 1
--AAACUACACCAACUUGCAUUAAAACAGAGUAGAAGAAUAUGU----------ACAUAUGCU-UCACAAAAACAAAA-----ACA----UACAUAAAUGUUUACAAA
--............................((.((((.((((..----------..)))).))-))))........((-----(((----(......))))))..... (  -8.60)
>consensus
_AAAGAUACACCAACUUGCAUUGAAACAGUGUAC___AAUAUGUAUGU______ACAUAUGCUUUAACAAAAACA_______UACA____UACAAAAAUGUAAAUAAC
......((((......(((((((...))))))).....((((((((......))))))))......................................))))...... ( -5.06 =  -6.38 +   1.32)

alignment

secondary structure

dotplot

Window 5

Location	899,973 – 900,064
Length	91
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	72.32
Mean single sequence MFE	-19.69
Consensus MFE	-5.36
Energy contribution	-6.96
Covariance contribution	1.60
Combinations/Pair	1.17
Mean z-score	-2.53
Structure conservation index	0.27
SVM decision value	2.62
SVM RNA-class probability	0.995845
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 899973 91 - 1281640
GACAUUUACAUGAUUGUAUGUAUGUA-------UGUUUUAGUUAGGGCAUAUGU------ACAUACAUAAU---GUACACUGUUUCAAUGCAAGUUGAUGUAUCUUU-
((((..(((((...((((((((((((-------((((((....)))))))))))------)))))))..))---)))...))))(((((....))))).........- ( -26.90)
>DroSec_CAF1 8426 94 - 1
GUUAUUUACAUUUUUGUA----UGUA-------UGUUUUUGCUAAAGCAUACAUAUUAAAACAUACAUAUA---GUACACUGUUUCAAUGCAAGUUGGUGUAUCUUUU
..............((((----((((-------(((((((((....)))........))))))))))))))---((((((((.............))))))))..... ( -20.12)
>DroSim_CAF1 10532 94 - 1
GUUAUUUACAUUUUUGUA----UGUA-------UGUUUUUGCUAAAGCAUACAUAUUAAAACAUACAUAUA---GUACACUGUUUCAAUGCAAGUUGGUGUAUCUUUU
..............((((----((((-------(((((((((....)))........))))))))))))))---((((((((.............))))))))..... ( -20.12)
>DroEre_CAF1 13543 89 - 1
CUCGUAAACAUUAAUGUA----UGUAUGUUUUUUGUUUUUGUAAAAGCAUAUGU----------ACAUGUU---CUACACUGUUUCAAUGCAAGUUGGUGUAUUUU--
.......(((((((((((----(((((((((((.........))))))))))))----------)).....---......(((......))).)))))))).....-- ( -18.70)
>DroYak_CAF1 10824 86 - 1
UUUGUAAACAUUUAUGUA----UGU-----UUUUGUUUUUGUGA-AGCAUAUGU----------ACAUAUUCUUCUACUCUGUUUUAAUGCAAGUUGGUGUAGUUU--
.......((((.((((((----(((-----...((((((...))-)))).))))----------))))).....(.(((.(((......)))))).))))).....-- ( -12.60)
>consensus
GUUAUUUACAUUUUUGUA____UGUA_______UGUUUUUGUUAAAGCAUAUGU______ACAUACAUAUU___GUACACUGUUUCAAUGCAAGUUGGUGUAUCUUU_
.......(((((.(((((...............((((((....))))))(((((((......)))))))...................)))))...)))))....... ( -5.36 =  -6.96 +   1.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:16 2006