Locus 3402

Sequence ID 3L_DroMel_CAF1
Location 9,981,574 – 9,981,666
Length 92
Max. P 0.552338
window5320

overview

Window 0

Location 9,981,574 – 9,981,666
Length 92
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 77.19
Mean single sequence MFE -18.74
Consensus MFE -11.74
Energy contribution -11.72
Covariance contribution -0.03
Combinations/Pair 1.14
Mean z-score -1.30
Structure conservation index 0.63
SVM decision value 0.04
SVM RNA-class probability 0.552338
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9981574 92 + 23771897
--------------------AG----CAAAUCGACAGCC-UACAUAAAAGCGCAAUUUGCGCAAUUCCAACGUCAAGUUCCAU-UUGAUUACAGCACGUUGACGAGGACAUACGCACU
--------------------.(----(...(((.((((.-.........((((.....)))).........(((((((...))-)))))........)))).)))(......)))... ( -17.70)
>DroVir_CAF1 35784 89 + 1
---------------------A----CAAUUCGACAGCC-UACAUAAAAGCGCAAUUUGCGCCAUUAU-GCGUCGAGUUCCAU-UUGAUUACAACACGAUGACAUGAACAA-CGCACA
---------------------.----..........((.-.........((((.....))))..((((-((((((.(((....-........))).))))).)))))....-.))... ( -17.60)
>DroPse_CAF1 37910 92 + 1
--------------------AA----CAAAUCGACAGCC-UACAUAAAAGCGCAAUUUGCGCAAUUCCAACGUCAAAUUCCAU-UUGAUUACAACACGUUGACGAGGACACACGCAUC
--------------------..----..........((.-.........((((.....))))...(((..((((((.......-(((....)))....)))))).))).....))... ( -16.60)
>DroWil_CAF1 55019 118 + 1
UUUCGUUCCUCUAUCUGGCUACCAUUUGUAUCGACAGGCAAACAUAAAAGCGCAAUUUGCGCAAUUCUGCCAUCAAGUUCCAUUUUGAUUACAACACGUUGACAAGGACACACGCAUU
....((((((.....(((...)))......(((((.((((.........((((.....)))).....))))((((((......))))))........)))))..)))).))....... ( -22.54)
>DroMoj_CAF1 33795 90 + 1
--------------------CU----CCAUUCGACAGCC-UACAUAAAAGCGCAAUUUGCGCCAUUAU-GCGUCGAGUUCCAU-UUGAUUAGAACACGAUGACACGAACGA-CGCACU
--------------------..----...((((......-..(((((..((((.....))))..))))-)(((((.((((.(.-.....).)))).)))))...))))...-...... ( -21.40)
>DroPer_CAF1 37657 92 + 1
--------------------AA----CAAAUCGACAGCC-UACAUAAAAGCGCAAUUUGCGCAAUUCCAACGUCAAAUUCCAU-UUGAUUACAACACGUUGACGAGGACACACGCAUC
--------------------..----..........((.-.........((((.....))))...(((..((((((.......-(((....)))....)))))).))).....))... ( -16.60)
>consensus
____________________AA____CAAAUCGACAGCC_UACAUAAAAGCGCAAUUUGCGCAAUUCCAACGUCAAGUUCCAU_UUGAUUACAACACGUUGACAAGGACACACGCACU
..............................(((((..............((((.....)))).........(((((........)))))........)))))................ (-11.74 = -11.72 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:18 2006