Locus 7850

Sequence ID 3L_DroMel_CAF1
Location 20,996,147 – 20,996,278
Length 131
Max. P 0.962688
window12780 window12781

overview

Window 0

Location 20,996,147 – 20,996,252
Length 105
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 90.54
Mean single sequence MFE -23.60
Consensus MFE -17.94
Energy contribution -19.25
Covariance contribution 1.31
Combinations/Pair 1.12
Mean z-score -1.86
Structure conservation index 0.76
SVM decision value 0.38
SVM RNA-class probability 0.711063
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20996147 105 - 23771897
CUGUCUCUGGUUUUUGUGUUUCGUCAUAUGGAGUGUACAUAC---UUGUAUACAUACGUACCAUAUACCA-CCAUAAGAACCGAACGAACCGAAUGAAUCGAGUAAAAA
.(((.((.((((((((((....((.((((((.(((((((...---.))))))).......))))))))..-.))))))))))))))).(((((.....))).))..... ( -23.80)
>DroSec_CAF1 13745 106 - 1
CUGUCUCUGGUUUUUGUGUUUCGUCAUAUGAAGUAUACAUAC---UCGUGUACAUACGUACCAUACACCAUCCAUAAGAACCGAACGAACCGAAUGAAUCGAGUAAAAA
.(((.((.((((((((((.(((((...)))))((((((....---..))))))...................))))))))))))))).(((((.....))).))..... ( -20.30)
>DroSim_CAF1 21171 106 - 1
CUGUCUCUGGUUUUUGUGUUUCGUCAUAUGGAGUACACAUAC---UCGUGUACAUACGUACCAUAUACCAUCCAUAAGAACCGAACGAACCGAAUGAAUCGAGUAAAAA
.(((.((.((((((((((..(.((.((((((.((((((....---..)))))).......)))))))).)..))))))))))))))).(((((.....))).))..... ( -26.00)
>DroYak_CAF1 19853 104 - 1
CUGUCUCUGGUUUUUGUGUUUCGUCAUAUGGAAUAUAUGUACAUA-----UACAUUCGCACCAUAUACCAUCCAUAAGAACCAAACGAACCGAAUGAAUCGAGUAAAAA
.......(((((((((((..(.((.((((((.....(((((....-----))))).....)))))))).)..))))))))))).....(((((.....))).))..... ( -24.30)
>consensus
CUGUCUCUGGUUUUUGUGUUUCGUCAUAUGGAGUAUACAUAC___UCGUGUACAUACGUACCAUAUACCAUCCAUAAGAACCGAACGAACCGAAUGAAUCGAGUAAAAA
.......(((((((((((..(.((.((((((.((((..((((.....))))..))))...)))))))).)..))))))))))).....(((((.....))).))..... (-17.94 = -19.25 +   1.31)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,996,186 – 20,996,278
Length 92
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 75.61
Mean single sequence MFE -19.74
Consensus MFE -9.00
Energy contribution -9.68
Covariance contribution 0.68
Combinations/Pair 1.07
Mean z-score -2.25
Structure conservation index 0.46
SVM decision value 1.54
SVM RNA-class probability 0.962688
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20996186 92 - 23771897
UGUUACAAUUGUGACAACACUU--GCCACUGUCUCUGGUUUUUGUGUUUCGUCAUAUGGAGUGUACAUAC---UUGUAUACAUACGUACCAUAUACC
((.(((...(((((((((((..--((((.......))))....)))))..))))))....(((((((...---.)))))))....))).))...... ( -23.00)
>DroSec_CAF1 13785 92 - 1
UGUUACAAUUGUGACAACACUU--GCCACUGUCUCUGGUUUUUGUGUUUCGUCAUAUGAAGUAUACAUAC---UCGUGUACAUACGUACCAUACACC
((.(((...(((((((((((..--((((.......))))....)))))..))))))....((((((....---..))))))....))).))...... ( -21.50)
>DroSim_CAF1 21211 92 - 1
UGUUACAAUUGUGACAACACUU--GCCACUGUCUCUGGUUUUUGUGUUUCGUCAUAUGGAGUACACAUAC---UCGUGUACAUACGUACCAUAUACC
((.(((...(((((((((((..--((((.......))))....)))))..))))))....((((((....---..))))))....))).))...... ( -23.40)
>DroYak_CAF1 19893 90 - 1
UGUUACAAUUGUGACAACACUU--GCCACUGUCUCUGGUUUUUGUGUUUCGUCAUAUGGAAUAUAUGUACAUA-----UACAUUCGCACCAUAUACC
.(((((....)))))(((((..--((((.......))))....)))))..((.((((((.....(((((....-----))))).....)))))))). ( -20.20)
>DroAna_CAF1 11590 74 - 1
UGUUACAAUUGUGACAACACUUUGGCAACUGUCUCUUGACCAUAAAGUUGGAAAAAAAAAAUACAUA-----------------------AUAUAUU
((((((....)))))).........((((((((....))).....))))).................-----------------------....... ( -10.60)
>consensus
UGUUACAAUUGUGACAACACUU__GCCACUGUCUCUGGUUUUUGUGUUUCGUCAUAUGGAGUAUACAUAC___U_GU_UACAUACGUACCAUAUACC
.(((((....)))))(((((....((((.......))))....)))))................................................. ( -9.00 =  -9.68 +   0.68)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:37 2006