Locus 2369

Sequence ID 2L_DroMel_CAF1
Location 6,412,988 – 6,413,083
Length 95
Max. P 0.888635
window3817 window3818

overview

Window 7

Location 6,412,988 – 6,413,083
Length 95
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 91.10
Mean single sequence MFE -31.45
Consensus MFE -23.75
Energy contribution -23.94
Covariance contribution 0.19
Combinations/Pair 1.08
Mean z-score -2.75
Structure conservation index 0.76
SVM decision value 0.95
SVM RNA-class probability 0.888635
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6412988 95 + 22407834
AACGGCCGCUGGUUGCCACAAAACAAUGUGCCACAGGC-GGGCUUCCCGCCCAAGUGGGUGCUUACUGCAACCAAAUACGUAAACAGUAAAUACUA
.(((.....(((((((((((......))))((((.(((-(((...))))))...)))).........)))))))....)))............... ( -31.20)
>DroSec_CAF1 41227 92 + 1
AACGCCCGCUGGUUGCCACAAAACAAUGUGCCACGGGCAGGGCUUC----CCAAGUGGGUGGUUACUGCAACCAAAUCCGUAAACAGUAAACACUA
..((((((((((..((((((......)))(((...)))..)))...----)).)))))))).((((((..((.......))...))))))...... ( -27.80)
>DroSim_CAF1 41725 95 + 1
AACGCCCGCUGGUUGCCACAAAACAAUGUGCCACGGGC-GGGCUUCCCGCCCAAGUGGGUAGUUACUGCAACCAAAUCCGAAAACAGUAAACACUA
...(((((((.((.((.(((......))))).))((((-(((...))))))).)))))))..((((((................))))))...... ( -33.69)
>DroYak_CAF1 49567 95 + 1
AACGCCCGCUGGUUGCCACAAAACAAUGUGCCACAGGC-GGGCUUCUCGCCCAAGUGGGUGGUUACUGCAACUAGAUCUGUAAACAGUAAACACCA
...(((((((.((.((.(((......))))).)).)))-))))...((((((....))))))((((((..((.......))...))))))...... ( -33.10)
>consensus
AACGCCCGCUGGUUGCCACAAAACAAUGUGCCACAGGC_GGGCUUCCCGCCCAAGUGGGUGGUUACUGCAACCAAAUCCGUAAACAGUAAACACUA
...(((((((.((.((.(((......))))).)).))).))))..............((((.((((((................)))))).)))). (-23.75 = -23.94 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 6,412,988 – 6,413,083
Length 95
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 91.10
Mean single sequence MFE -34.28
Consensus MFE -26.39
Energy contribution -27.08
Covariance contribution 0.69
Combinations/Pair 1.11
Mean z-score -2.03
Structure conservation index 0.77
SVM decision value 0.54
SVM RNA-class probability 0.776503
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6412988 95 - 22407834
UAGUAUUUACUGUUUACGUAUUUGGUUGCAGUAAGCACCCACUUGGGCGGGAAGCCC-GCCUGUGGCACAUUGUUUUGUGGCAACCAGCGGCCGUU
((((....))))....(((...(((((((.........((((..(((((((...)))-))))))))((((......))))))))))))))...... ( -34.60)
>DroSec_CAF1 41227 92 - 1
UAGUGUUUACUGUUUACGGAUUUGGUUGCAGUAACCACCCACUUGG----GAAGCCCUGCCCGUGGCACAUUGUUUUGUGGCAACCAGCGGGCGUU
...((.(((((((..((.......)).))))))).))(((....))----)..((((.((...((.((((......)))).))....))))))... ( -29.80)
>DroSim_CAF1 41725 95 - 1
UAGUGUUUACUGUUUUCGGAUUUGGUUGCAGUAACUACCCACUUGGGCGGGAAGCCC-GCCCGUGGCACAUUGUUUUGUGGCAACCAGCGGGCGUU
....((((.(((....)))..((((((((.........((((..(((((((...)))-))))))))((((......)))))))))))).))))... ( -36.40)
>DroYak_CAF1 49567 95 - 1
UGGUGUUUACUGUUUACAGAUCUAGUUGCAGUAACCACCCACUUGGGCGAGAAGCCC-GCCUGUGGCACAUUGUUUUGUGGCAACCAGCGGGCGUU
.((((.(((((((..((.......)).))))))).)))).....((((.....))))-((((((((((((......))))....))).)))))... ( -36.30)
>consensus
UAGUGUUUACUGUUUACGGAUUUGGUUGCAGUAACCACCCACUUGGGCGGGAAGCCC_GCCCGUGGCACAUUGUUUUGUGGCAACCAGCGGGCGUU
..(((.(((((((...((....))...))))))).)))......((((.....)))).((((((((((((......))))....))).)))))... (-26.39 = -27.08 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:24 2006