Locus 2258

Sequence ID 2L_DroMel_CAF1
Location 6,138,375 – 6,138,517
Length 142
Max. P 0.939819
window3621 window3622

overview

Window 1

Location 6,138,375 – 6,138,483
Length 108
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 89.96
Mean single sequence MFE -29.31
Consensus MFE -20.10
Energy contribution -21.74
Covariance contribution 1.64
Combinations/Pair 1.15
Mean z-score -2.27
Structure conservation index 0.69
SVM decision value 0.11
SVM RNA-class probability 0.589722
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6138375 108 + 22407834
GCAUAUUUGUGUUUGAAUGCACGCG--------UGUGUGUUGGAUUGUAAACGUAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUAUUCGAGUGCUUACUGUACUUGAAGCUUA
((((((.(((((......))))).)--------)))))....(((((((((((((.(((..........))).)))))))).))))).(((((((((.....)))))))))..... ( -31.00)
>DroSec_CAF1 7182 112 + 1
GCAUAUUUGUGUUUGAAUGCACAUGUGUG----UGUGUGUUGGGUUGUAAACGUAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUAUUCGAGUGCUUACUGUACUUGAAGCUUA
((((((.(((((......))))).)))))----)......(((((((((((((((.(((..........))).))))))))).......((((((((.....)))))))))))))) ( -29.80)
>DroSim_CAF1 7371 116 + 1
GCAUAUUUGUGUUUGAAUGCACAUGUGUGUGUGUGUGUGUUGGGUUGUAAACGUAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUAUUCGAGUGCUUACUGUACUUGAAGCUUA
((((((.(((((......))))).))))))((((.((.(((((((((...........)))))))))))...)))).......(((..(((((((((.....)))))))))))).. ( -30.00)
>DroEre_CAF1 8986 106 + 1
--GUAUUUGUGUCUGAGUGCAC----GUG----UGUGUGUCGGCCUGAAAACGCAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUGUUCGAGUGCUUACUGUACUUGAAGCUUA
--..........((((.(((((----...----.))))))))).(((((((((((.(((..........))).))))))).))))...(((((((((.....)))))))))..... ( -27.30)
>DroYak_CAF1 7754 112 + 1
GCAUAUUUGUGUUUGAAUGCACUUGUGUG----UGUGUGUCGGCUUGUUAACGUAAUUAAAUUUAACCAAAAAUGCGUUUAUCAGUUGUUCGAGUGCUUACUGUACUUGAAGCUUA
((((((..((((......))))..)))))----)......(((((.((.((((((..................)))))).)).)))))(((((((((.....)))))))))..... ( -28.47)
>consensus
GCAUAUUUGUGUUUGAAUGCACAUGUGUG____UGUGUGUUGGCUUGUAAACGUAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUAUUCGAGUGCUUACUGUACUUGAAGCUUA
((((.((((.((.((((((((((((........)))))))(((((((......)))))))))))))))))).)))).......(((..(((((((((.....)))))))))))).. (-20.10 = -21.74 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 6,138,407 – 6,138,517
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 95.27
Mean single sequence MFE -22.41
Consensus MFE -19.66
Energy contribution -19.74
Covariance contribution 0.08
Combinations/Pair 1.12
Mean z-score -1.62
Structure conservation index 0.88
SVM decision value 1.28
SVM RNA-class probability 0.939819
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6138407 110 + 22407834
UGGAUUGUAAACGUAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUAUUCGAGUGCUUACUGUACUUGAAGCUUAAAGUCAAUUAAUAUUCAAUGGAAAUUUCCGAUAC
..(((((((((((((.(((..........))).)))))))).))))).(((((((((.....))))))))).......................((((....)))).... ( -22.90)
>DroSec_CAF1 7218 110 + 1
UGGGUUGUAAACGUAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUAUUCGAGUGCUUACUGUACUUGAAGCUUAAAGUCAAUUAAUAUUCAAUUGAAAUUUUCGAUAC
(((((((((((((((.(((..........))).))))))))).......((((((((.....))))))))))))))...((((((.......))))))............ ( -21.50)
>DroSim_CAF1 7411 110 + 1
UGGGUUGUAAACGUAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUAUUCGAGUGCUUACUGUACUUGAAGCUUAAAGUCAAUUAAUAUUCAAUUGAAAUUUCCGAUAC
.((((((((((((((.(((..........))).)))))))).)))...(((((((((.....)))))))))........((((((.......))))))....)))..... ( -21.60)
>DroEre_CAF1 9016 110 + 1
CGGCCUGAAAACGCAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUGUUCGAGUGCUUACUGUACUUGAAGCUUAAAGUCAAUUAAUAUUCAAUUGAAAUAUCCGAUAC
(((.(((((((((((.(((..........))).))))))).))))...(((((((((.....)))))))))........((((((.......)))))).....))).... ( -25.90)
>DroYak_CAF1 7790 110 + 1
CGGCUUGUUAACGUAAUUAAAUUUAACCAAAAAUGCGUUUAUCAGUUGUUCGAGUGCUUACUGUACUUGAAGCUUAAAGUCAAUUAAUAUUCAAUUGAAAUUUCCGAUAC
(((((.((.((((((..................)))))).)).)))))(((((((((.....)))))))))........((((((.......))))))............ ( -20.17)
>consensus
UGGCUUGUAAACGUAAUUUAAUUUAACCAAAAAUGCGUUUAUCAGUUAUUCGAGUGCUUACUGUACUUGAAGCUUAAAGUCAAUUAAUAUUCAAUUGAAAUUUCCGAUAC
(((.(((((((((((.(((..........))).)))))))).)))...(((((((((.....)))))))))........((((((.......)))))).....))).... (-19.66 = -19.74 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:18 2006