Locus 3024

Sequence ID X_DroMel_CAF1
Location 8,084,007 – 8,084,127
Length 120
Max. P 0.963065
window4951 window4952

overview

Window 1

Location 8,084,007 – 8,084,127
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 84.96
Mean single sequence MFE -32.33
Consensus MFE -26.84
Energy contribution -26.73
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.77
Structure conservation index 0.83
SVM decision value 1.55
SVM RNA-class probability 0.963065
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8084007 120 + 22224390
UUGUUGUUCGAUUAAUCGAUUUCGGGAAUGCCACAGAGGAAAUGGUGAUGCUGAAAUCAGUGAUUUCAAAAACCAUAUUGCUUCUUGUGGCACUUCCGUUUUCCUCUUUUUUUUUACCAC
.......((((....))))...(((((.(((((((((((..(((((.....(((((((...)))))))...)))))....)))).))))))).)))))...................... ( -34.90)
>DroSec_CAF1 969 119 + 1
UUGUUGUUCGAUUAACCGAUUUCGGGAAUGCCACAGAGGAAUUGGUGAUCCUGAGAUCAGUGAUUUCUAAAACCCAAUUGCUUCUUGUGGCACUUCCGUUUUCCUU-UUUUUUUUACCAC
..((((......)))).((...(((((.(((((((((((((((((.(.....((((((...)))))).....))))))).)))).))))))).)))))...))...-............. ( -34.90)
>DroEre_CAF1 963 110 + 1
UUGCUGUUCGAUGAACCGAUUUCGGGAAUGCCACAGAGGA-CUGGUAA--CUGAAAUCAGUGAUUUUUA-AACCCAAGUGCUUCUUGUGUCAUUUCCGCUCU---U---UUUUUUACCAC
..((...(((......)))....(((((((.(((((((((-((((...--..((((((...))))))..-...)).))).)))).)))).)))))))))...---.---........... ( -27.20)
>consensus
UUGUUGUUCGAUUAACCGAUUUCGGGAAUGCCACAGAGGAAAUGGUGAU_CUGAAAUCAGUGAUUUCUAAAACCCAAUUGCUUCUUGUGGCACUUCCGUUUUCCUU_UUUUUUUUACCAC
.......(((......)))...(((((.(((((((((((....(((......((((((...))))))....)))......)))).))))))).)))))...................... (-26.84 = -26.73 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 8,084,007 – 8,084,127
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.96
Mean single sequence MFE -28.57
Consensus MFE -23.79
Energy contribution -25.35
Covariance contribution 1.56
Combinations/Pair 1.11
Mean z-score -2.18
Structure conservation index 0.83
SVM decision value 0.89
SVM RNA-class probability 0.874821
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8084007 120 - 22224390
GUGGUAAAAAAAAAGAGGAAAACGGAAGUGCCACAAGAAGCAAUAUGGUUUUUGAAAUCACUGAUUUCAGCAUCACCAUUUCCUCUGUGGCAUUCCCGAAAUCGAUUAAUCGAACAACAA
((.((.................(((.(((((((((.((.(....(((((..((((((((...))))))))....)))))..).))))))))))).)))...((((....)))))).)).. ( -32.40)
>DroSec_CAF1 969 119 - 1
GUGGUAAAAAAAA-AAGGAAAACGGAAGUGCCACAAGAAGCAAUUGGGUUUUAGAAAUCACUGAUCUCAGGAUCACCAAUUCCUCUGUGGCAUUCCCGAAAUCGGUUAAUCGAACAACAA
((.((........-........(((.(((((((((.((.(.((((((......(....)..(((((....)))))))))))).))))))))))).)))...((((....)))))).)).. ( -32.30)
>DroEre_CAF1 963 110 - 1
GUGGUAAAAAA---A---AGAGCGGAAAUGACACAAGAAGCACUUGGGUU-UAAAAAUCACUGAUUUCAG--UUACCAG-UCCUCUGUGGCAUUCCCGAAAUCGGUUCAUCGAACAGCAA
...((......---.---.((.(((.((((.((((.((.(.(((.((...-........((((....)))--)..))))-)).)))))).)))).)))...)).((((...)))).)).. ( -21.02)
>consensus
GUGGUAAAAAAAA_AAGGAAAACGGAAGUGCCACAAGAAGCAAUUGGGUUUUAGAAAUCACUGAUUUCAG_AUCACCAAUUCCUCUGUGGCAUUCCCGAAAUCGGUUAAUCGAACAACAA
((.((.................(((.(((((((((.((.(.((((((......((((((...)))))).......))))))).))))))))))).)))...((((....)))))).)).. (-23.79 = -25.35 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:12 2006