Locus 4593

Sequence ID X_DroMel_CAF1
Location 12,028,942 – 12,029,096
Length 154
Max. P 0.960238
window7554 window7555

overview

Window 4

Location 12,028,942 – 12,029,039
Length 97
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 92.01
Mean single sequence MFE -35.67
Consensus MFE -29.88
Energy contribution -30.24
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.76
Structure conservation index 0.84
SVM decision value 0.17
SVM RNA-class probability 0.616880
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12028942 97 - 22224390
GUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAUUGAAUUGCACACUGC-------UGACGUUCGCGGUGCUGCCAUCGCAGUGCUGUCAAAGUACAG
(((((((((....)))))(((((((..((......))....((...(((((((((-------........)))))).)))..))))))))).......)))).. ( -35.50)
>DroSec_CAF1 61156 97 - 1
GUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAUUGAAUUGCACACUGC-------UGACGUUCGCGGUGCUGCCAUCGCAGUGCUGUCAAAGUACAG
(((((((((....)))))(((((((..((......))....((...(((((((((-------........)))))).)))..))))))))).......)))).. ( -35.50)
>DroSim_CAF1 59756 97 - 1
GUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAUUGAAUUGCACACUGC-------UGACGUUCGCGGUGCUGCCAUCGCAGUGCUGUCAAAGUACAG
(((((((((....)))))(((((((..((......))....((...(((((((((-------........)))))).)))..))))))))).......)))).. ( -35.50)
>DroEre_CAF1 58817 104 - 1
GUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAUUGAAUUGCACACUGCUGACUGCUGACGGUCGCGGUGCUGCCAUCGCAGUGCUGUCCAAGUACAG
(((((((((....)))))(((((((..((......))....((...(((((((((.(((((....))))))))))).)))..))))))))).......)))).. ( -41.90)
>DroYak_CAF1 60891 97 - 1
GUAUCGGCCAUUGGGCCGGCGCUGCCAACUUGAUUGUAACUGAAUUGCACACUGC-------UGACGUUCGCGGUGCUGCCAUCGCAGUGCUGUCAAAGUACAG
(((((((((....)))))(((((((..((......))....((...(((((((((-------........)))))).)))..))))))))).......)))).. ( -35.40)
>DroAna_CAF1 1965 90 - 1
GUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAUUGAAUUGCACACUGC-------UGACGUUCGCGGAGCUGCUAUU-CGGUG------GGGUACAG
(((((((((....))))....(..((.((......))....((((.((((.((((-------........)))).).))).)))-)))..------)))))).. ( -30.20)
>consensus
GUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAUUGAAUUGCACACUGC_______UGACGUUCGCGGUGCUGCCAUCGCAGUGCUGUCAAAGUACAG
(((((((((....)))))(((((((..((......)).........(((((((((...............)))))).)))....))))))).......)))).. (-29.88 = -30.24 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 12,028,999 – 12,029,096
Length 97
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 87.58
Mean single sequence MFE -37.04
Consensus MFE -27.12
Energy contribution -27.76
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -2.73
Structure conservation index 0.73
SVM decision value 1.51
SVM RNA-class probability 0.960238
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12028999 97 - 22224390
GCGGAAAAGCGGUGGGCGGU-GGA----------AUGGGUGGUGUAAUAUCAGAGAGGAUGUACCAUUGUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAU
((......))(((.((((((-(..----------...((((((...(((((......)))))))))))...((((((....))))))))))))).))).......... ( -33.90)
>DroSec_CAF1 61213 107 - 1
GCGGAAAAGCGGUGGGCGGU-GGGUGGUCGGGCUAUGGGUGGUGUAAUAUCAGAGAGGAUGUACCAUUGUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAU
..((...((((.(((.(...-.(((((((((......((((((...(((((......)))))))))))...))))))))).).))).)))).)).............. ( -36.20)
>DroSim_CAF1 59813 100 - 1
GCGGAAAAGCGGUGGGCGGU-GGGCGGUGA-------GGUGGUGUAAUAUCAGAGAGGAUGUACCAUUGUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAU
..((...((((.(((.((((-((.(((((.-------.(((((...(((((......))))))))))..))))).))))).).))).)))).)).............. ( -39.30)
>DroEre_CAF1 58881 93 - 1
GCGGAAAAGCGGUGGGCGGGU---------------GGCUGGUAUAAUGUCAGAGAGGAUGUACCAUUGUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAU
..((...((((.(((.(..((---------------(((((((((((((.((.......))...)))))))))))))))..).))).)))).)).............. ( -39.50)
>DroYak_CAF1 60948 101 - 1
GCGGAAAAGCGCUGGGGGGUUGGGUGAU-------UGGGUGGUAUAAUAUCAGAGAGGAUGUACCAUUGUAUCGGCCAUUGGGCCGGCGCUGCCAACUUGAUUGUAAC
..((...((((((((.....(((.((((-------..(((((((((...((...))...)))))))))..)))).))).....)))))))).)).............. ( -36.30)
>consensus
GCGGAAAAGCGGUGGGCGGU_GGG_G_U_______UGGGUGGUGUAAUAUCAGAGAGGAUGUACCAUUGUAUCGGCCAUUAGGCCGGCGCUGCCAACUUGAUUGUAAU
((......))(((.((((((.................((((((...(((((......)))))))))))...((((((....)))))).)))))).))).......... (-27.12 = -27.76 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:00 2006