Locus 4571

Sequence ID	X_DroMel_CAF1
Location	11,996,229 – 11,996,386
Length	157
Max. P	0.567346

overview

Window 5

Location	11,996,229 – 11,996,346
Length	117
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	93.55
Mean single sequence MFE	-26.33
Consensus MFE	-22.48
Energy contribution	-22.60
Covariance contribution	0.12
Combinations/Pair	1.12
Mean z-score	-1.25
Structure conservation index	0.85
SVM decision value	0.07
SVM RNA-class probability	0.567346
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11996229 117 - 22224390
ACAUUUAAAUGACAGCUUUAACCAACUUU--UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGCCGGCAUUUUCGACUCCGUUGGUCCCGUUUGCUUUUUGGC
.............(((....((((((...--...((((.((((......)))).))))..((((...((((((....)))))).....))))....)))))).......)))....... ( -26.20)
>DroSec_CAF1 35179 117 - 1
ACAUUUAAAUGACAGCUUUAACCAACUUU--UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGCCGGCAUUUUCGACUCCGUUGGUCCCGUUUGCUUUUUGGC
.............(((....((((((...--...((((.((((......)))).))))..((((...((((((....)))))).....))))....)))))).......)))....... ( -26.20)
>DroSim_CAF1 36246 117 - 1
ACAUUUAAAUGACAGCUUUAACCAACUUU--UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGCCGGCAUUUUCGACUCCGUUGGUCCCGUUUGCUUUUUGGC
.............(((....((((((...--...((((.((((......)))).))))..((((...((((((....)))))).....))))....)))))).......)))....... ( -26.20)
>DroEre_CAF1 34104 117 - 1
ACAUUUAAAUGACAGCUUUAACCAACUUU--UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGCCGGAAUUUUCGACUCCGCUGGUACCGUUUGGUUUUUGGC
.((.(((((((.((((.............--...((((.((((......)))).))))..((((.((((((((....))))))))...))))....))))....)))))))....)).. ( -30.20)
>DroYak_CAF1 35238 118 - 1
ACAUUUUAAUGGCAGUUUUAACCGACUUUUUUUUGCUGCUAGUGUCACAAUUUUUGGCUCUUGAUUUCCGGCAACACUGCCGGCAUUUUCGACUCCGUUG-UACCCGUUUGUUUUUGGC
.........(((((((..................))))))).....(((((....((...((((...((((((....)))))).....))))..))))))-)..(((........))). ( -22.87)
>consensus
ACAUUUAAAUGACAGCUUUAACCAACUUU__UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGCCGGCAUUUUCGACUCCGUUGGUCCCGUUUGCUUUUUGGC
....................((((((........((((.((((......)))).))))..((((...((((((....)))))).....))))....))))))................. (-22.48 = -22.60 +   0.12)

alignment

secondary structure

dotplot

Window 6

Location	11,996,268 – 11,996,386
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.84
Mean single sequence MFE	-21.45
Consensus MFE	-18.35
Energy contribution	-19.19
Covariance contribution	0.84
Combinations/Pair	1.13
Mean z-score	-1.23
Structure conservation index	0.86
SVM decision value	0.02
SVM RNA-class probability	0.544106
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11996268 118 - 22224390
UAAAUUAAACGAGAAACAAAAAUGCGAGAAUAUUUUGCAUACAUUUAAAUGACAGCUUUAACCAACUUU--UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGC
.........(((((..(((((((((((((...))))))..(((((....((.((((.............--...)))))))))))....)))))))..)))))......(....)..... ( -23.59)
>DroSec_CAF1 35218 118 - 1
UAAAUUAAACGAGAAACAAAAAUGCGAGAAUAUUUUGCAUACAUUUAAAUGACAGCUUUAACCAACUUU--UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGC
.........(((((..(((((((((((((...))))))..(((((....((.((((.............--...)))))))))))....)))))))..)))))......(....)..... ( -23.59)
>DroSim_CAF1 36285 118 - 1
UAAAUUAAACGAGAAACAAAAAUGCGAGAAUAUUUUGCAUACAUUUAAAUGACAGCUUUAACCAACUUU--UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGC
.........(((((..(((((((((((((...))))))..(((((....((.((((.............--...)))))))))))....)))))))..)))))......(....)..... ( -23.59)
>DroEre_CAF1 34143 116 - 1
UAAAUUAUACA--AAACAAAAAUGCGAGAAUAUUUCGCAUACAUUUAAAUGACAGCUUUAACCAACUUU--UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGC
...........--...(((((((((((((...))))))..(((((....((.((((.............--...)))))))))))....))))))).............(....)..... ( -16.59)
>DroYak_CAF1 35276 118 - 1
UAAAAUAUACG--AAACAAAAAUGCGAGAAUAUUUGGCAUACAUUUUAAUGGCAGUUUUAACCGACUUUUUUUUGCUGCUAGUGUCACAAUUUUUGGCUCUUGAUUUCCGGCAACACUGC
..........(--((((((....((.((((....((((((.........(((((((..................)))))))))))))....)))).))..))).)))).(....)..... ( -19.87)
>consensus
UAAAUUAAACGAGAAACAAAAAUGCGAGAAUAUUUUGCAUACAUUUAAAUGACAGCUUUAACCAACUUU__UUCGCUGCAAAUGUCACAAUUUUUGGCUCUCGAUUUCCGGCAACACUGC
.........(((((..(((((((((((((...))))))..(((((....((.((((..................)))))))))))....)))))))..)))))......(....)..... (-18.35 = -19.19 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:26 2006