Locus 6498

Sequence ID	3L_DroMel_CAF1
Location	17,261,207 – 17,261,323
Length	116
Max. P	0.994594

overview

Window 1

Location	17,261,207 – 17,261,323
Length	116
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.79
Mean single sequence MFE	-34.43
Consensus MFE	-31.22
Energy contribution	-31.22
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.94
Structure conservation index	0.91
SVM decision value	2.49
SVM RNA-class probability	0.994594
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17261207 116 + 23771897
GCCACGCGAAAUGCCCACAAUGGCAGCAUAGGGGUUAAG----GGGAGCGAGCAUAAACAGAAAACUCAUUAAAAUCAUAAAAUGCAUUUAUGACAGCCUUGUUUGCACUGCGGGGCAAU
(((.((((...((((......))))(((..((((((...----......(((.............))).......(((((((.....))))))).))))))...)))..)))).)))... ( -30.72)
>DroSec_CAF1 144809 116 + 1
GCCGCGCGAAAUGCCCACAAUGGCAGCAUAGGGGUUAAG----GGGAGCGAGCAUAAACAGAAAACUCAUUAAAAUCAUAAAAUGCAUUUAUGACAGCCUUGUUUGCACUGCGGGGCAAU
(((.((((...((((......))))(((..((((((...----......(((.............))).......(((((((.....))))))).))))))...)))..)))).)))... ( -32.82)
>DroSim_CAF1 139700 116 + 1
GCCGCGCGAAAUGCCCACAAUGGCAGCAUAGGGGUUAAG----GGGAGCGAGCAUAAACAGAAAACUCAUUAAAAUCAUAAAAUGCAUUUAUGACAGCCUUGUUUGCACUGCGGGGCAAU
(((.((((...((((......))))(((..((((((...----......(((.............))).......(((((((.....))))))).))))))...)))..)))).)))... ( -32.82)
>DroEre_CAF1 147871 120 + 1
GCCGCGCGAAAUGCCCACAAUGCCAGCAUAGGGGUUAAGGUGGGGGGGCGAGCAUAAACAGAAAACUCAUUAAAAUCAUAAAAUGCAUUUAUGACAGCCUUGUUUGCACUGCGGGGCAAU
(((.(((......(((((...(((........)))....)))))((.(((((((......((....)).......(((((((.....)))))))......))))))).))))).)))... ( -37.60)
>DroYak_CAF1 152148 120 + 1
GCCGCGCGAAAUGCCCACAAUGCCAACAUAGGGGUUAAAGGGGGGGUGCGAGCAUAAACAGAAAACUCAUUAAAAUCAUAAAAUGCAUUUAUGACAGCCUUGUUUGCACUGCGGGGCAAU
(((.(((......(((.....(((........))).....))).((((((((((......((....)).......(((((((.....)))))))......))))))))))))).)))... ( -38.20)
>consensus
GCCGCGCGAAAUGCCCACAAUGGCAGCAUAGGGGUUAAG____GGGAGCGAGCAUAAACAGAAAACUCAUUAAAAUCAUAAAAUGCAUUUAUGACAGCCUUGUUUGCACUGCGGGGCAAU
(((.(((.....((((.(.(((....))).))))).........((.(((((((......((....)).......(((((((.....)))))))......))))))).))))).)))... (-31.22 = -31.22 +   0.00)

alignment

secondary structure

dotplot

Window 2

Location	17,261,207 – 17,261,323
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.79
Mean single sequence MFE	-31.74
Consensus MFE	-28.22
Energy contribution	-28.62
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.52
Structure conservation index	0.89
SVM decision value	1.08
SVM RNA-class probability	0.911336
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17261207 116 - 23771897
AUUGCCCCGCAGUGCAAACAAGGCUGUCAUAAAUGCAUUUUAUGAUUUUAAUGAGUUUUCUGUUUAUGCUCGCUCCC----CUUAACCCCUAUGCUGCCAUUGUGGGCAUUUCGCGUGGC
...(((.((((((((..(((((((.((((((((.....))))))))......((((...........))))......----...............))).))))..)))))..))).))) ( -31.30)
>DroSec_CAF1 144809 116 - 1
AUUGCCCCGCAGUGCAAACAAGGCUGUCAUAAAUGCAUUUUAUGAUUUUAAUGAGUUUUCUGUUUAUGCUCGCUCCC----CUUAACCCCUAUGCUGCCAUUGUGGGCAUUUCGCGCGGC
...(((.((((((((..(((((((.((((((((.....))))))))......((((...........))))......----...............))).))))..)))))..))).))) ( -31.30)
>DroSim_CAF1 139700 116 - 1
AUUGCCCCGCAGUGCAAACAAGGCUGUCAUAAAUGCAUUUUAUGAUUUUAAUGAGUUUUCUGUUUAUGCUCGCUCCC----CUUAACCCCUAUGCUGCCAUUGUGGGCAUUUCGCGCGGC
...(((.((((((((..(((((((.((((((((.....))))))))......((((...........))))......----...............))).))))..)))))..))).))) ( -31.30)
>DroEre_CAF1 147871 120 - 1
AUUGCCCCGCAGUGCAAACAAGGCUGUCAUAAAUGCAUUUUAUGAUUUUAAUGAGUUUUCUGUUUAUGCUCGCCCCCCCACCUUAACCCCUAUGCUGGCAUUGUGGGCAUUUCGCGCGGC
...(((.((((((((......(((.((((((((.....))))))))......((((...........)))))))...((((.......((......))....)))))))))..))).))) ( -31.20)
>DroYak_CAF1 152148 120 - 1
AUUGCCCCGCAGUGCAAACAAGGCUGUCAUAAAUGCAUUUUAUGAUUUUAAUGAGUUUUCUGUUUAUGCUCGCACCCCCCCUUUAACCCCUAUGUUGGCAUUGUGGGCAUUUCGCGCGGC
...((((((((((((.(((((((..((((((((.....))))))))......((((...........)))).................))).)))).)))))))))((.....))..))) ( -33.60)
>consensus
AUUGCCCCGCAGUGCAAACAAGGCUGUCAUAAAUGCAUUUUAUGAUUUUAAUGAGUUUUCUGUUUAUGCUCGCUCCC____CUUAACCCCUAUGCUGCCAUUGUGGGCAUUUCGCGCGGC
...(((.((((((((..(((((((.((((((((.....))))))))......((((...........)))).........................))).))))..)))))..))).))) (-28.22 = -28.62 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:31 2006