Locus 2171

Sequence ID 2L_DroMel_CAF1
Location 5,865,115 – 5,865,208
Length 93
Max. P 0.801806
window3504 window3505

overview

Window 4

Location 5,865,115 – 5,865,208
Length 93
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 78.36
Mean single sequence MFE -20.89
Consensus MFE -13.19
Energy contribution -14.12
Covariance contribution 0.92
Combinations/Pair 1.30
Mean z-score -1.68
Structure conservation index 0.63
SVM decision value 0.62
SVM RNA-class probability 0.801806
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5865115 93 + 22407834
UUUUUGCCAAAUGUAAUUAAUGAAAUUGACUUGCAAAAGUCAAUUAAGUUGACCG--UUUUAAUGGCAAAUUGUUUAUU----GGCAGUGGC--CCUUUCG
..(((((((((((...(((((..(((((((((....)))))))))..))))).))--))....))))))).........----(((....))--)...... ( -23.30)
>DroSec_CAF1 55084 91 + 1
--UUUGCCAAAUGUAAUUAAUGAAAUUGACUUGCAAAAGUCAAUUAAGUUGACCG--UUUUAAUGGCAAAGUGUUUAUU----GGCAGAGGC--CCUUUCG
--((((((((......(((((..(((((((((....)))))))))..)))))(((--(....))))...........))----))))))...--....... ( -23.30)
>DroSim_CAF1 55873 91 + 1
--UUUGCCAAAUGUAAUUAAUGAAAUUGACUUGCAAAAGUCAAUUAAGUUGACCG--UUUUAAUGGCAAAUUGUUUAUU----GGCAGAGGC--CCUUUCG
--((((((((......(((((..(((((((((....)))))))))..)))))(((--(....))))...........))----))))))...--....... ( -23.30)
>DroEre_CAF1 79201 93 + 1
UUUUUGCCAAAUGUAAUUAAUGAAAUUGACUUGCAAAAGUCAAUUAAGUCGACCG--UUUUAAUGGCAAAUUGUUUAUC----GGUAAAGGC--CCUUUUG
..(((((((((((...(..((..(((((((((....)))))))))..))..).))--))....))))))).........----(((....))--)...... ( -19.20)
>DroYak_CAF1 80288 96 + 1
-UUUUGCCAAAUGUAAUUAAUGAAAUUGACUUGCAAAAGUCAAUUAAGUCAACCG--UUUUAAUGGCAAAUUGUUUAUUGCCUGGCAGAGGC--CCUUUUC
-((((((((...........((((((((((((....)))))))))...)))....--.......(((((........)))))))))))))..--....... ( -24.40)
>DroAna_CAF1 53939 81 + 1
-AUUUG------------AAUGAAACUCACUUAUUCCAGUCGGUGGAAUUAAAUUUUUUCUAAUGGGC--UUGGAU-CU----GGCAGACUCUUCCCUUUG
-.....------------...((((.......((((((.....)))))).......))))....(((.--..(..(-(.----....))..)..))).... ( -11.84)
>consensus
_UUUUGCCAAAUGUAAUUAAUGAAAUUGACUUGCAAAAGUCAAUUAAGUUGACCG__UUUUAAUGGCAAAUUGUUUAUU____GGCAGAGGC__CCUUUCG
..((((((........(((((..(((((((((....)))))))))..)))))(((........))).................))))))............ (-13.19 = -14.12 +   0.92)

alignment

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secondary structure

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dotplot

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Window 5

Location 5,865,115 – 5,865,208
Length 93
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 78.36
Mean single sequence MFE -19.39
Consensus MFE -8.50
Energy contribution -9.62
Covariance contribution 1.11
Combinations/Pair 1.12
Mean z-score -2.43
Structure conservation index 0.44
SVM decision value 0.56
SVM RNA-class probability 0.780866
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5865115 93 - 22407834
CGAAAGG--GCCACUGCC----AAUAAACAAUUUGCCAUUAAAA--CGGUCAACUUAAUUGACUUUUGCAAGUCAAUUUCAUUAAUUACAUUUGGCAAAAA
(....)(--((....)))----.........(((((((......--..........(((((((((....)))))))))..............))))))).. ( -20.21)
>DroSec_CAF1 55084 91 - 1
CGAAAGG--GCCUCUGCC----AAUAAACACUUUGCCAUUAAAA--CGGUCAACUUAAUUGACUUUUGCAAGUCAAUUUCAUUAAUUACAUUUGGCAAA--
(....)(--((....)))----..........((((((......--..........(((((((((....)))))))))..............)))))).-- ( -19.21)
>DroSim_CAF1 55873 91 - 1
CGAAAGG--GCCUCUGCC----AAUAAACAAUUUGCCAUUAAAA--CGGUCAACUUAAUUGACUUUUGCAAGUCAAUUUCAUUAAUUACAUUUGGCAAA--
(....)(--((....)))----.........(((((((......--..........(((((((((....)))))))))..............)))))))-- ( -19.41)
>DroEre_CAF1 79201 93 - 1
CAAAAGG--GCCUUUACC----GAUAAACAAUUUGCCAUUAAAA--CGGUCGACUUAAUUGACUUUUGCAAGUCAAUUUCAUUAAUUACAUUUGGCAAAAA
.....((--.......))----.........(((((((......--..........(((((((((....)))))))))..............))))))).. ( -17.41)
>DroYak_CAF1 80288 96 - 1
GAAAAGG--GCCUCUGCCAGGCAAUAAACAAUUUGCCAUUAAAA--CGGUUGACUUAAUUGACUUUUGCAAGUCAAUUUCAUUAAUUACAUUUGGCAAAA-
.......--.....((((((((((........))))).......--.((((((...(((((((((....)))))))))...)))))).....)))))...- ( -24.30)
>DroAna_CAF1 53939 81 - 1
CAAAGGGAAGAGUCUGCC----AG-AUCCAA--GCCCAUUAGAAAAAAUUUAAUUCCACCGACUGGAAUAAGUGAGUUUCAUU------------CAAAU-
....(((..(..((....----.)-)..)..--.)))....((((..(((((.(((((.....))))))))))...))))...------------.....- ( -15.80)
>consensus
CAAAAGG__GCCUCUGCC____AAUAAACAAUUUGCCAUUAAAA__CGGUCAACUUAAUUGACUUUUGCAAGUCAAUUUCAUUAAUUACAUUUGGCAAAA_
...............................(((((((.........(.....)..((((((((......))))))))..............))))))).. ( -8.50 =  -9.62 +   1.11)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:22 2006