Locus 2886

Sequence ID	2L_DroMel_CAF1
Location	8,284,495 – 8,284,589
Length	94
Max. P	0.877287

overview

Window 4

Location	8,284,495 – 8,284,589
Length	94
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	91.47
Mean single sequence MFE	-15.79
Consensus MFE	-11.65
Energy contribution	-11.69
Covariance contribution	0.04
Combinations/Pair	1.06
Mean z-score	-2.14
Structure conservation index	0.74
SVM decision value	0.53
SVM RNA-class probability	0.769928
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8284495 94 + 22407834
AUAUAGUUCUGCUCCAAUUCAUUCUAAUUAAAUUCCACCACAAAUGCGGAAGUUCGUUUUCGUUUUCAACAAAC-------AAGAAACAUUUCGAGCA-ACA
.........(((((..................((((.(.......).))))....(((((.((((.....))))-------..))))).....)))))-... ( -12.10)
>DroSec_CAF1 62298 101 + 1
AUAUAGUUCUGCUCCAAUUCAUUCUAAUUAAAUUCCACCACGAACACGGAAGUUCGUUUUCGUUUUCAACAAACAAGAAACAAGAAACACUUCGAGCA-ACA
.........(((((.......((((..............((((((......))))))....((((.....)))).))))....(((....))))))))-... ( -15.50)
>DroSim_CAF1 65681 101 + 1
AUAUAGUUCUGCUCCAAUUCAUUCUAAUUAAAUUCCACCACGAACACGGAAGUUCGUUUUCGUUUUCAACAAACGAGAAACAAGAAACACUUCGAGCA-ACA
.........(((((.......((((..............((((((......))))))((((((((.....))))))))....)))).......)))))-... ( -19.94)
>DroEre_CAF1 64989 95 + 1
AUAUAGUUCUGCUCCAAUUCAUUCUAAUUAAAUUCCACCACGAACACGGAAGUUCGUUUUCGUUUUCAACACAU-------AAGAAACACUCCGAGCAAACA
.....(((.(((((.........................((((((......))))))....(((((........-------..))))).....)))))))). ( -15.70)
>DroYak_CAF1 66544 95 + 1
AUAUAGUUCUGCUCCAAUUCAUUCUAAUUAAAUUCCACCACGAACACGGAAGUUCGUUUUCGUUUUCAACAACU-------AAGAAACACUCCGAGCAAACA
.....(((.(((((.........................((((((......))))))....(((((........-------..))))).....)))))))). ( -15.70)
>consensus
AUAUAGUUCUGCUCCAAUUCAUUCUAAUUAAAUUCCACCACGAACACGGAAGUUCGUUUUCGUUUUCAACAAAC_______AAGAAACACUUCGAGCA_ACA
.........(((((.........................((((((......))))))....(((((.................))))).....))))).... (-11.65 = -11.69 +   0.04)

alignment

secondary structure

dotplot

Window 5

Location	8,284,495 – 8,284,589
Length	94
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	91.47
Mean single sequence MFE	-24.16
Consensus MFE	-19.48
Energy contribution	-19.28
Covariance contribution	-0.20
Combinations/Pair	1.08
Mean z-score	-1.77
Structure conservation index	0.81
SVM decision value	0.90
SVM RNA-class probability	0.877287
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8284495 94 - 22407834
UGU-UGCUCGAAAUGUUUCUU-------GUUUGUUGAAAACGAAAACGAACUUCCGCAUUUGUGGUGGAAUUUAAUUAGAAUGAAUUGGAGCAGAACUAUAU
..(-(((((.((....((((.-------(((((((.........)))))))((((((.......)))))).......))))....)).))))))........ ( -21.90)
>DroSec_CAF1 62298 101 - 1
UGU-UGCUCGAAGUGUUUCUUGUUUCUUGUUUGUUGAAAACGAAAACGAACUUCCGUGUUCGUGGUGGAAUUUAAUUAGAAUGAAUUGGAGCAGAACUAUAU
..(-(((((.((....((((.(((((((((((.....))))))..((((((......))))))...)))))......))))....)).))))))........ ( -23.60)
>DroSim_CAF1 65681 101 - 1
UGU-UGCUCGAAGUGUUUCUUGUUUCUCGUUUGUUGAAAACGAAAACGAACUUCCGUGUUCGUGGUGGAAUUUAAUUAGAAUGAAUUGGAGCAGAACUAUAU
..(-(((((.((....((((.(((((((((((.....))))))..((((((......))))))...)))))......))))....)).))))))........ ( -25.70)
>DroEre_CAF1 64989 95 - 1
UGUUUGCUCGGAGUGUUUCUU-------AUGUGUUGAAAACGAAAACGAACUUCCGUGUUCGUGGUGGAAUUUAAUUAGAAUGAAUUGGAGCAGAACUAUAU
..(((((((.((....((((.-------....((((((..(.(..((((((......))))))..).)..)))))).))))....)).)))))))....... ( -24.80)
>DroYak_CAF1 66544 95 - 1
UGUUUGCUCGGAGUGUUUCUU-------AGUUGUUGAAAACGAAAACGAACUUCCGUGUUCGUGGUGGAAUUUAAUUAGAAUGAAUUGGAGCAGAACUAUAU
..(((((((.((....((((.-------....((((((..(.(..((((((......))))))..).)..)))))).))))....)).)))))))....... ( -24.80)
>consensus
UGU_UGCUCGAAGUGUUUCUU_______GUUUGUUGAAAACGAAAACGAACUUCCGUGUUCGUGGUGGAAUUUAAUUAGAAUGAAUUGGAGCAGAACUAUAU
....(((((.((....((((............((((((..(.(..((((((......))))))..).)..)))))).))))....)).)))))......... (-19.48 = -19.28 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:44 2006