Locus 6867

Sequence ID	3R_DroMel_CAF1
Location	18,170,195 – 18,170,314
Length	119
Max. P	0.999250

overview

Window 7

Location	18,170,195 – 18,170,288
Length	93
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	85.67
Mean single sequence MFE	-24.63
Consensus MFE	-19.59
Energy contribution	-19.90
Covariance contribution	0.31
Combinations/Pair	1.14
Mean z-score	-3.01
Structure conservation index	0.80
SVM decision value	1.02
SVM RNA-class probability	0.901919
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18170195 93 + 27905053
CGCCC-CC-------------AAAAUCCCAGACUCCAGUGCCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUG
.(((.-..-------------..........((....))(((((.......))))).))).........(((((((.(((((......))))).)))))))...... ( -24.90)
>DroSec_CAF1 198423 93 + 1
CACCC-CC-------------CAAAUCCCAGACUCCAGUGCCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUG
.....-..-------------......((((.(.((((.(........).)))))))))..........(((((((.(((((......))))).)))))))...... ( -23.30)
>DroSim_CAF1 206269 94 + 1
CGCCCCCC-------------CAAAUCCCAGACUCCAGUGCCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUG
.(((....-------------..........((....))(((((.......))))).))).........(((((((.(((((......))))).)))))))...... ( -24.90)
>DroEre_CAF1 214283 92 + 1
CGCCC-CC--------------AAAUCCCAGACUCCAGUGCCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUG
.(((.-..--------------.........((....))(((((.......))))).))).........(((((((.(((((......))))).)))))))...... ( -24.90)
>DroYak_CAF1 208790 106 + 1
CGCCA-CCACCCCCUCCCCCAAAAAUCCCAGACUCUAGUGCCCAUAACCCUUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUG
.((((-.........................((....))(((((.......))))))))).........(((((((.(((((......))))).)))))))...... ( -27.10)
>DroAna_CAF1 194414 84 + 1
AAGC-----------------AGAGUCCUAGCCC--A----CCUCCACCCUCCGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUG
....-----------------.((....(((((.--.----((..........))..)))))....)).(((((((.(((((......))))).)))))))...... ( -22.70)
>consensus
CGCCC_CC_____________AAAAUCCCAGACUCCAGUGCCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUG
...........................((((.(.((((............)))))))))..........(((((((.(((((......))))).)))))))...... (-19.59 = -19.90 +   0.31)

alignment

secondary structure

dotplot

Window 8

Location	18,170,221 – 18,170,314
Length	93
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	94.35
Mean single sequence MFE	-23.03
Consensus MFE	-20.98
Energy contribution	-21.48
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.68
Structure conservation index	0.91
SVM decision value	3.46
SVM RNA-class probability	0.999250
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18170221 93 + 27905053
CCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUGUAAAAUAUUGUGCAACC--AU--AUAGCUC-
((((.......))))..(((((.......(((((((.(((((......))))).)))))))....((((........))))...--..--.))))).- ( -23.00)
>DroSec_CAF1 198449 95 + 1
CCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUGUAAAAUAUUGUGCAGCCACAU--AUAGCUC-
((((.......)))).(((((........(((((((.(((((......))))).))))))).....(((........))))))))...--.......- ( -24.20)
>DroSim_CAF1 206296 95 + 1
CCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUGUAAAAUAUUGUGCAGCCACAU--AUAGCUC-
((((.......)))).(((((........(((((((.(((((......))))).))))))).....(((........))))))))...--.......- ( -24.20)
>DroEre_CAF1 214308 93 + 1
CCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUGUAAAAUAUUGUGCAACC--AU--AUAGCUC-
((((.......))))..(((((.......(((((((.(((((......))))).)))))))....((((........))))...--..--.))))).- ( -23.00)
>DroYak_CAF1 208829 93 + 1
CCCAUAACCCUUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUGUAAAAUAUUGUGCAACC--AU--AUAGCUC-
((((.......))))..(((((.......(((((((.(((((......))))).)))))))....((((........))))...--..--.))))).- ( -23.80)
>DroAna_CAF1 194432 97 + 1
-CCUCCACCCUCCGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUGUAAAAUAUUGUGCAACCAUAUACAUAGCUCC
-............((..(((((.......(((((((.(((((......))))).)))))))....((((........))))..........))))))) ( -20.00)
>consensus
CCCAUAACCCCUGGGCUGGCUAAAAAUCAUAUGCAUCACGUGAUUAAACGCGUCAUGCAUGAAAAUGUAAAAUAUUGUGCAACC__AU__AUAGCUC_
((((.......))))..(((((.......(((((((.(((((......))))).)))))))....((((........))))..........))))).. (-20.98 = -21.48 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:57 2006