Locus 39

Sequence ID	2R_DroMel_CAF1
Location	1,256,507 – 1,256,638
Length	131
Max. P	0.999561

overview

Window 0

Location	1,256,507 – 1,256,603
Length	96
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	94.42
Mean single sequence MFE	-27.00
Consensus MFE	-23.98
Energy contribution	-24.58
Covariance contribution	0.60
Combinations/Pair	1.07
Mean z-score	-2.58
Structure conservation index	0.89
SVM decision value	3.72
SVM RNA-class probability	0.999561
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1256507 96 - 20766785
AGUUGCAGUCGGAGUUACAGUGGCAGUUGAGGC--UGCAAUUGUUGUUCUGAUUUCCAUUUACAAUUCCUUUGUGUUUGUAGGCUGUAUUUGUUGAUU
...((((((((((((((.((..(((((((....--..)))))))..)).)))))))((..(((((.....)))))..))..))))))).......... ( -28.50)
>DroSec_CAF1 8197 96 - 1
AGUUGCAGUCGGAGUUACAGUGGCAGUUGCGGC--UGCAAUUGUUGUUCUGAUUUCCAUUUACAAUUCCUUUGUGUUUGUAGGCUGUAUUUGUUGAUU
...((((((((((((((.((..((((((((...--.))))))))..)).)))))))((..(((((.....)))))..))..))))))).......... ( -31.50)
>DroSim_CAF1 14008 96 - 1
AGUUGCAGUCGGAGUUACAGUGGCAGUUGAGGC--UGCAAUUGUUGUUCUGAUUUCCAUUUACAAUUCCUUUGUGUUUGUAGGCUGUAUUUGUUGAUU
...((((((((((((((.((..(((((((....--..)))))))..)).)))))))((..(((((.....)))))..))..))))))).......... ( -28.50)
>DroEre_CAF1 12336 96 - 1
AGUUGCAGUUGGAGUUACAGUGGCAGUUGAGGC--UGCAAUUGUUGUUCUGAUUUCCAUUUACAAUUCCUUUGUGUUUGUGGGCUGUAUUUGUUGAUU
...((((((.((((..(((((.(((((....))--))).)))))..)))).....((((.(((((.....)))))...)))))))))).......... ( -27.60)
>DroYak_CAF1 11688 97 - 1
AGUUGCAC-UGGAGGUACAGUGGCAGUUGAGGCUUUGCAAUUGUUGUGCUGAUUUUCAUUAACAAUUCCUUUGUGUUUGUAGGUUGUAUUUGUCGAUU
.....(((-((......)))))((((........))))(((((..((((.(((((.((...((((.....))))...)).)))))))))....))))) ( -18.90)
>consensus
AGUUGCAGUCGGAGUUACAGUGGCAGUUGAGGC__UGCAAUUGUUGUUCUGAUUUCCAUUUACAAUUCCUUUGUGUUUGUAGGCUGUAUUUGUUGAUU
...((((((((((((((.((..(((((((........)))))))..)).)))))))((..(((((.....)))))..))..))))))).......... (-23.98 = -24.58 +   0.60)

alignment

secondary structure

dotplot

Window 1

Location	1,256,545 – 1,256,638
Length	93
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	94.67
Mean single sequence MFE	-31.60
Consensus MFE	-26.84
Energy contribution	-27.48
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-2.80
Structure conservation index	0.85
SVM decision value	3.19
SVM RNA-class probability	0.998704
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1256545 93 - 20766785
UUGCGAUUGCGUUUGGGCUGAGUGUACAUUGUUGCAGUUGCAGUCGGAGUUACAGUGGCAGUUGAGGC--UGCAAUUGUUGUUCUGAUUUCCAUU
.((((((((((..((..(.....)..))....))))))))))(((((((..(((((.(((((....))--))).)))))..)))))))....... ( -34.20)
>DroSec_CAF1 8235 93 - 1
UUGCGAUUGCGUUUGGGCCGAGUGUACAUUGUUGCAGUUGCAGUCGGAGUUACAGUGGCAGUUGCGGC--UGCAAUUGUUGUUCUGAUUUCCAUU
.((((((((((..((..(.....)..))....))))))))))(((((((..(((((.(((((....))--))).)))))..)))))))....... ( -33.00)
>DroSim_CAF1 14046 93 - 1
UUGCGAUUGCGUUUGGGCCGAGUGUACAUUGUUGCAGUUGCAGUCGGAGUUACAGUGGCAGUUGAGGC--UGCAAUUGUUGUUCUGAUUUCCAUU
.((((((((((..((..(.....)..))....))))))))))(((((((..(((((.(((((....))--))).)))))..)))))))....... ( -33.00)
>DroEre_CAF1 12374 93 - 1
UUGCGAUUGCGUUCGGGCUGAGUGUACAUUGUUGCAGUUGCAGUUGGAGUUACAGUGGCAGUUGAGGC--UGCAAUUGUUGUUCUGAUUUCCAUU
.((((((((((.....((.....)).......))))))))))((..(((..(((((.(((((....))--))).)))))..)))..))....... ( -30.00)
>DroYak_CAF1 11726 94 - 1
UUGCGAUUGCGUUCGGGCUGAGUGUACAUUGUUGCAGUUGCAC-UGGAGGUACAGUGGCAGUUGAGGCUUUGCAAUUGUUGUGCUGAUUUUCAUU
.((((((((((.....((.....)).......)))))))))).-(((((((.((((((((((((........))))))))..))))))))))).. ( -27.80)
>consensus
UUGCGAUUGCGUUUGGGCUGAGUGUACAUUGUUGCAGUUGCAGUCGGAGUUACAGUGGCAGUUGAGGC__UGCAAUUGUUGUUCUGAUUUCCAUU
.((((((((((..((..(.....)..))....))))))))))...(((((((.((..(((((((........)))))))..)).))))))).... (-26.84 = -27.48 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:22 2006