Locus 7289

Sequence ID 3R_DroMel_CAF1
Location 19,237,616 – 19,237,747
Length 131
Max. P 0.756795
window11789 window11790

overview

Window 9

Location 19,237,616 – 19,237,709
Length 93
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 88.30
Mean single sequence MFE -34.07
Consensus MFE -27.16
Energy contribution -27.63
Covariance contribution 0.47
Combinations/Pair 1.15
Mean z-score -2.54
Structure conservation index 0.80
SVM decision value 0.49
SVM RNA-class probability 0.756795
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19237616 93 - 27905053
CUUGACUCCAGCUCGAUUUUCGAGGACCUCGAUCGUUACUGCUGGCAACAGCAGCCGGUCAC---AACCAGCGCCAGCAAUGGUGGAUCCGCCAGC
..........(((((.....)))(((((..(((((...((((((....)))))).)))))..---.......((((....)))))).))))).... ( -32.40)
>DroSec_CAF1 33315 93 - 1
CUUGACUCCAACUCGAUUUUCGAGGACCUCGAUCGCUACUGCUGGCAACAGCAGUCGGUCAC---AACUAGCACCAGCAAUGGUGGAUCCGCCAGC
.(((.......((((.....))))......(((((..(((((((....)))))))))))).)---))...((....))..(((((....))))).. ( -33.40)
>DroSim_CAF1 33624 93 - 1
CUCGACUCCAACUCGAUUUUCGAGGACCUCGAUCGCUACUGCUGGCAACAGCAGCCGGUCAC---AACCAGCGCCAGCAAUGGUGGAUCUGCCAGC
...........((((.....))))......(((((((.((((((....))))))..(((...---.))))))((((....)))).))))....... ( -32.60)
>DroEre_CAF1 34304 93 - 1
CUUGACUCCAACUCGAUAUUCGAGGACCUCGAUCGCUACUGCUGGCAACAGCAGUCGGUCAC---AAGCAGCGCCAGUAAUGGCGCAUCCGCCAGC
((((.......((((.....))))......(((((..(((((((....)))))))))))).)---)))..((((((....)))))).......... ( -40.90)
>DroYak_CAF1 34882 93 - 1
CUGGACUCCAGCUCGAUAUUCGAGGACCUCGAUCGCUACUGCUGGCAACAGCAGCCGGUCAC---AACCAGCGCCAGUAAUGGUGGAUCCGCCAGC
((((.......((((.....))))......(((((((.((((((....))))))..(((...---.))))))((((....)))).))))..)))). ( -36.50)
>DroAna_CAF1 34138 96 - 1
CUCGACUCCAGCUCUUUCUUCGAGGAUCUGGAUCGCUACUGCUGGCAACAGCAAACUGUAACUGCACCCACUGCCAGUAAUGGAGGAACCACCAGC
...((.(((((.(((((....))))).)))))))(((..(((((....)))))..((((.((((((.....)).)))).)))).((.....))))) ( -28.60)
>consensus
CUUGACUCCAACUCGAUUUUCGAGGACCUCGAUCGCUACUGCUGGCAACAGCAGCCGGUCAC___AACCAGCGCCAGCAAUGGUGGAUCCGCCAGC
...........((((.....))))......(((((...((((((....)))))).)))))...........(((((....)))))........... (-27.16 = -27.63 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 19,237,636 – 19,237,747
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.59
Mean single sequence MFE -37.04
Consensus MFE -28.52
Energy contribution -28.27
Covariance contribution -0.25
Combinations/Pair 1.20
Mean z-score -1.54
Structure conservation index 0.77
SVM decision value 0.37
SVM RNA-class probability 0.707436
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19237636 111 - 27905053
--CUUUGCAGUUUUGGCACCAGGACAAGGACAACAGUCGCCUUGACUCCAGCUCGAUUUUCGAGGACCUCGAUCGUUACUGCUGGCAACAGCAGCCGGUCAC---AACCAGCGCCA----
--...........((((....((((((((.(.......))))))..)))..((((.....))))......(((((...((((((....)))))).)))))..---.......))))---- ( -36.40)
>DroVir_CAF1 53906 115 - 1
--UUUUGCAGUUCUGGCAUCAGGACAAGGAUAACAGCCGCCUUGACUCCAGCUCUAUCUUCGAGGACCUUGAUCGAUACUGCUGGCAGCAGCAGCCGAUCAC---AGCCAGCGCUACGAC
--..(((.(((.(((((.((.((((((((..........)))))..)))..(((.......)))))...((((((...((((((....)))))).)))))).---.))))).))).))). ( -37.80)
>DroPse_CAF1 46978 111 - 1
--CCUUUCAGUUCUGGAACCAGGACAAGGACAGCAGUCGCCUCGAUUCUACCUCCAUAUUCGAGGACCUCGAUCGUUACUGCUGGCAACAGCAGCCGGUCAC---UGCCAACGCUG----
--((((...((((((....))))))))))...(((((..((((((..............)))))).....(((((...((((((....)))))).)))))))---)))........---- ( -42.54)
>DroGri_CAF1 47450 115 - 1
--UUUCACAGUUCUGGCACCAGGACAAGGACAGCAGCCGCCUUGACUCCAGCUCCAUAUUUGAGGACCUCGAUCGAUACUGUUGGCAGCAGCAGCCGAUCAC---AGCCAGCGCCACGAC
--.......((.(((((....((((((((.(.......))))))..)))((.(((........))).)).(((((...((((((....)))))).)))))..---.))))).))...... ( -33.40)
>DroMoj_CAF1 46279 115 - 1
--UUUGAUAGUUUUGGCAUCAGGACAAGGACAGCAGCCGCCUGGACUCGAGCUCGAUUUUCGAGGACCUCGAUCGCUACUGCUGGCAGCAGCAGCCGAUCAC---AGCCAGCGCCACGAC
--.......((.(((((.(((((....((.(....))).)))))....(((((((.....))))...)))(((((...((((((....)))))).)))))..---.))))).))...... ( -37.30)
>DroAna_CAF1 34158 116 - 1
UAAUUUUCAGUUCUGGCACCAGGACAAGGACAACAGCCGCCUCGACUCCAGCUCUUUCUUCGAGGAUCUGGAUCGCUACUGCUGGCAACAGCAAACUGUAACUGCACCCACUGCCA----
.........((((((....))))))..((.((.((((.(...(((.(((((.(((((....))))).))))))))...).))))(((((((....))))...)))......)))).---- ( -34.80)
>consensus
__UUUUACAGUUCUGGCACCAGGACAAGGACAACAGCCGCCUUGACUCCAGCUCCAUAUUCGAGGACCUCGAUCGAUACUGCUGGCAACAGCAGCCGAUCAC___AGCCAGCGCCA____
.........((((((....))))))..((..........((((((..............)))))).....(((((...((((((....)))))).))))).......))........... (-28.52 = -28.27 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:11 2006