Locus 10135

Sequence ID 3R_DroMel_CAF1
Location 27,190,384 – 27,190,486
Length 102
Max. P 0.996641
window16133 window16134

overview

Window 3

Location 27,190,384 – 27,190,486
Length 102
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 92.23
Mean single sequence MFE -20.68
Consensus MFE -18.40
Energy contribution -18.57
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.68
Structure conservation index 0.89
SVM decision value 2.73
SVM RNA-class probability 0.996641
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27190384 102 + 27905053
AUGGGAAUAAAA------AUAUGAAAUUGCCAAUUGAUUUAUUGGCAGAAAACAUUUUUCCAUGUCAAAUAGUGCGGAAAAUGUACAAAGUG-AGAAACAAA-GGGAAAC
(((((((.....------..(((...((((((((......))))))))....))).))))))).(((....(((((.....)))))....))-)........-....... ( -19.30)
>DroSec_CAF1 3978 102 + 1
AUGGGCAUAAAA------AUAUGAAAUUGCCAAUUGAUUUAUUGGCAGAAAACAUUUUUCCAUGUCAAAUAGUGCGGAAAAUGUACAAAGUG-AGAAACAAA-GGGAAAC
...(((((..((------(.(((...((((((((......))))))))....))).)))..))))).....(((((.....)))))......-.........-....... ( -19.90)
>DroSim_CAF1 3739 102 + 1
AUGGGCAUAAAA------AUAUGAAAUUGCCAAUUGAUUUAUUGGCAGAAAACAUUUUUCCAUGUCAAAUAGUGCGGAAAAUGUACAAAGUG-AGAAACAAA-GGGAAAC
...(((((..((------(.(((...((((((((......))))))))....))).)))..))))).....(((((.....)))))......-.........-....... ( -19.90)
>DroEre_CAF1 5575 102 + 1
AUGGUCAUAAAA------AUAUGAAAUUGCCAAUUGAUUUAUUGGCAGAAAACAUUUUUCCAUGUCAAAUAGUGCGGAAAACGUACAAAGUG-AGAAACAAA-GGGAAAC
....(((((...------.)))))..((((((((......)))))))).......((((((..........(((((.....)))))...((.-....))...-)))))). ( -23.70)
>DroYak_CAF1 4137 108 + 1
AGGGCCAUAAAAAUAGAAAUAUGAAAUUGCCAAUUGAUUUAUUGGCAGAAAACAUUUUUCCAUGUCAAAUAGUGCGGAAAAUGUACAAAGUG-AGUAACAAA-GGGAAAC
....((......(((....)))....((((((((......))))))))...((((((((((((........))).)))))))))........-.........-))..... ( -21.20)
>DroAna_CAF1 3924 104 + 1
AAGAGGUAAAAA------AUAUGAAAUUGCCAAUUGAUUUAUUGGCAGAAAACAUUUUUCCAUGUCAAAUAGUGCGGAAAAUGUAAAAAAAGCUGAAACAAAAGAAAAAC
....(((.....------........((((((((......))))))))...((((((((((((........))).))))))))).......)))................ ( -20.10)
>consensus
AUGGGCAUAAAA______AUAUGAAAUUGCCAAUUGAUUUAUUGGCAGAAAACAUUUUUCCAUGUCAAAUAGUGCGGAAAAUGUACAAAGUG_AGAAACAAA_GGGAAAC
..........................((((((((......))))))))...((((((((((((........))).))))))))).......................... (-18.40 = -18.57 +   0.17)

alignment

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secondary structure

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dotplot

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Window 4

Location 27,190,384 – 27,190,486
Length 102
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 92.23
Mean single sequence MFE -15.59
Consensus MFE -13.07
Energy contribution -12.93
Covariance contribution -0.14
Combinations/Pair 1.06
Mean z-score -1.81
Structure conservation index 0.84
SVM decision value 0.25
SVM RNA-class probability 0.652902
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27190384 102 - 27905053
GUUUCCC-UUUGUUUCU-CACUUUGUACAUUUUCCGCACUAUUUGACAUGGAAAAAUGUUUUCUGCCAAUAAAUCAAUUGGCAAUUUCAUAU------UUUUAUUCCCAU
.(((((.-..((((...-.....(((.........)))......)))).))))).(((.....(((((((......)))))))....)))..------............ ( -13.64)
>DroSec_CAF1 3978 102 - 1
GUUUCCC-UUUGUUUCU-CACUUUGUACAUUUUCCGCACUAUUUGACAUGGAAAAAUGUUUUCUGCCAAUAAAUCAAUUGGCAAUUUCAUAU------UUUUAUGCCCAU
.......-.........-............................((((((((.(((.....(((((((......)))))))....))).)------)))))))..... ( -15.30)
>DroSim_CAF1 3739 102 - 1
GUUUCCC-UUUGUUUCU-CACUUUGUACAUUUUCCGCACUAUUUGACAUGGAAAAAUGUUUUCUGCCAAUAAAUCAAUUGGCAAUUUCAUAU------UUUUAUGCCCAU
.......-.........-............................((((((((.(((.....(((((((......)))))))....))).)------)))))))..... ( -15.30)
>DroEre_CAF1 5575 102 - 1
GUUUCCC-UUUGUUUCU-CACUUUGUACGUUUUCCGCACUAUUUGACAUGGAAAAAUGUUUUCUGCCAAUAAAUCAAUUGGCAAUUUCAUAU------UUUUAUGACCAU
.......-........(-((....((.((.....)).))....)))((((((((.(((.....(((((((......)))))))....))).)------)))))))..... ( -17.20)
>DroYak_CAF1 4137 108 - 1
GUUUCCC-UUUGUUACU-CACUUUGUACAUUUUCCGCACUAUUUGACAUGGAAAAAUGUUUUCUGCCAAUAAAUCAAUUGGCAAUUUCAUAUUUCUAUUUUUAUGGCCCU
.......-..(((.((.-......))))).........((((..((.(((((((.(((.....(((((((......)))))))....))).)))))))))..)))).... ( -17.80)
>DroAna_CAF1 3924 104 - 1
GUUUUUCUUUUGUUUCAGCUUUUUUUACAUUUUCCGCACUAUUUGACAUGGAAAAAUGUUUUCUGCCAAUAAAUCAAUUGGCAAUUUCAUAU------UUUUUACCUCUU
((((((((..((((...((................)).......)))).))))))))......(((((((......))))))).........------............ ( -14.29)
>consensus
GUUUCCC_UUUGUUUCU_CACUUUGUACAUUUUCCGCACUAUUUGACAUGGAAAAAUGUUUUCUGCCAAUAAAUCAAUUGGCAAUUUCAUAU______UUUUAUGCCCAU
..........................((((((((((............))).)))))))....(((((((......)))))))........................... (-13.07 = -12.93 +  -0.14)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:40 2006