Locus 2173

Sequence ID 2L_DroMel_CAF1
Location 5,872,358 – 5,872,454
Length 96
Max. P 0.993419
window3509 window3510

overview

Window 9

Location 5,872,358 – 5,872,454
Length 96
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 72.93
Mean single sequence MFE -26.00
Consensus MFE -14.94
Energy contribution -16.00
Covariance contribution 1.06
Combinations/Pair 1.20
Mean z-score -1.35
Structure conservation index 0.57
SVM decision value 0.02
SVM RNA-class probability 0.542705
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5872358 96 + 22407834
CAGUUCUU-----CUACUUGUG-CUGAACAGAAUCCGAGAUGUGGCCAAAUUAGGUCCAACU-UAGCCAGUUAAUGGAUUCUGUUCG-AGUUGUGCGACUACUC
.(((..((-----.(((....(-((((((((((((((..(..((((.....((((.....))-))))))..)..)))))))))))).-))).))).))..))). ( -27.80)
>DroSec_CAF1 62314 101 + 1
CAGGUCUUCUCAUCUACUUGUG-CUGAACAGAAUCCGAGAUUGGGCCAAAUUAGGUCCAACU-UAGCCAGUUAAUGGAUUCUGUCCG-AAUUGUGCGACUUCGC
..((((..(.((......)).)-..))((((((((((...(((((((......))))))).(-(((....)))))))))))))))).-......(((....))) ( -27.00)
>DroSim_CAF1 63168 101 + 1
CAGGUCUUCUCAUCUACUUGUG-CUGAACAGAAUCCGAGAUUGGGCCAAAUUAGGUCCAACU-UAGCCAGUUAAUGGAUUCUGUCCG-AAUUGAGCGACUACGC
..((((..((((((..(....)-..))((((((((((...(((((((......))))))).(-(((....))))))))))))))...-...)))).)))).... ( -29.10)
>DroEre_CAF1 86378 81 + 1
CAGGUCUU-----CAGCUUGUG-CUGAACAGAAUCCGAGAUUGGGCCAAAUUAGGUUCAACU-UAGCCAGUUAAUGGAUUCUGUCCG-A---------------
..((...(-----((((....)-))))((((((((((...(((((((......))))))).(-(((....)))))))))))))))).-.--------------- ( -28.10)
>DroYak_CAF1 87697 81 + 1
CAGGUCUU-----CUACUGCUG-CUGAACAGAAUCCGAGAUUGGGCCAAAUUAGGUUCAGCU-CAGCCAGUUAAUGGUUUCUGUACG-A---------------
(((.....-----...)))...-.((.((((((...(((.(((((((......)))))))))-).((((.....)))))))))).))-.--------------- ( -22.60)
>DroAna_CAF1 60404 91 + 1
--GGUCUU-----------GGGCCAGGCCAGAAUCCGAGUUUCAGGCAAAUGGAGUUCAAAUGUGGCCUUCUAAUGGCUUCGCUCCGCAAAUGUACUACAAUAC
--((..(.-----------.((((((((((.(....((..((((......))))..))...).)))))......)))))..)..)).................. ( -21.40)
>consensus
CAGGUCUU_____CUACUUGUG_CUGAACAGAAUCCGAGAUUGGGCCAAAUUAGGUCCAACU_UAGCCAGUUAAUGGAUUCUGUCCG_AAUUGUGCGACUAC_C
.........................(.((((((((((.....(((((......)))))((((......))))..)))))))))).).................. (-14.94 = -16.00 +   1.06)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,872,358 – 5,872,454
Length 96
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 72.93
Mean single sequence MFE -28.19
Consensus MFE -19.15
Energy contribution -20.04
Covariance contribution 0.89
Combinations/Pair 1.29
Mean z-score -2.36
Structure conservation index 0.68
SVM decision value 2.40
SVM RNA-class probability 0.993419
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5872358 96 - 22407834
GAGUAGUCGCACAACU-CGAACAGAAUCCAUUAACUGGCUA-AGUUGGACCUAAUUUGGCCACAUCUCGGAUUCUGUUCAG-CACAAGUAG-----AAGAACUG
((((.(.....).)))-)(((((((((((......((((((-(((((....)))))))))))......)))))))))))..-.........-----........ ( -34.20)
>DroSec_CAF1 62314 101 - 1
GCGAAGUCGCACAAUU-CGGACAGAAUCCAUUAACUGGCUA-AGUUGGACCUAAUUUGGCCCAAUCUCGGAUUCUGUUCAG-CACAAGUAGAUGAGAAGACCUG
(((....)))....((-((((((((((((.......(((((-(((((....)))))))))).......))))))))))).(-(....))......)))...... ( -32.64)
>DroSim_CAF1 63168 101 - 1
GCGUAGUCGCUCAAUU-CGGACAGAAUCCAUUAACUGGCUA-AGUUGGACCUAAUUUGGCCCAAUCUCGGAUUCUGUUCAG-CACAAGUAGAUGAGAAGACCUG
.....(((.((((...-.(((((((((((.......(((((-(((((....)))))))))).......))))))))))).(-(....))...))))..)))... ( -33.94)
>DroEre_CAF1 86378 81 - 1
---------------U-CGGACAGAAUCCAUUAACUGGCUA-AGUUGAACCUAAUUUGGCCCAAUCUCGGAUUCUGUUCAG-CACAAGCUG-----AAGACCUG
---------------.-.(((((((((((.......(((((-(((((....)))))))))).......)))))))))((((-(....))))-----)...)).. ( -31.34)
>DroYak_CAF1 87697 81 - 1
---------------U-CGUACAGAAACCAUUAACUGGCUG-AGCUGAACCUAAUUUGGCCCAAUCUCGGAUUCUGUUCAG-CAGCAGUAG-----AAGACCUG
---------------.-.................((.((((-.(((((((..(((((((.......)))))))..))))))-)..))))..-----.))..... ( -18.70)
>DroAna_CAF1 60404 91 - 1
GUAUUGUAGUACAUUUGCGGAGCGAAGCCAUUAGAAGGCCACAUUUGAACUCCAUUUGCCUGAAACUCGGAUUCUGGCCUGGCCC-----------AAGACC--
((.((((((.....)))))).))...((((......(((((.((((((....((......))....))))))..)))))))))..-----------......-- ( -18.30)
>consensus
G_GUAGUCGCACAAUU_CGGACAGAAUCCAUUAACUGGCUA_AGUUGAACCUAAUUUGGCCCAAUCUCGGAUUCUGUUCAG_CACAAGUAG_____AAGACCUG
..................(((((((((((.......(((((.(((((....)))))))))).......)))))))))))......................... (-19.15 = -20.04 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:26 2006