Locus 4627

Sequence ID 3R_DroMel_CAF1
Location 12,175,474 – 12,175,572
Length 98
Max. P 0.746716
window7605

overview

Window 5

Location 12,175,474 – 12,175,572
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 81.43
Mean single sequence MFE -20.55
Consensus MFE -14.56
Energy contribution -15.12
Covariance contribution 0.56
Combinations/Pair 1.21
Mean z-score -1.75
Structure conservation index 0.71
SVM decision value 0.46
SVM RNA-class probability 0.746716
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12175474 98 + 27905053
CCUUCAAAAAGUUCUGCAAAGCGCAGAAAAACAAGGAACACAGAUUCGUGAGUAGCCGGCAAACAAGUGCCGCCCCCUCUCCCUCACUUCCUAUUCUC
...........((((((.....)))))).....(((((....((...(.(((..(.(((((......))))).)..))).)..))..)))))...... ( -22.70)
>DroPse_CAF1 1985 81 + 1
AAUUCAAGAAGUUCUGCAAGACACAAAAGAACAAGGAGCACAGAUUCGUGAGUAGCCGGCAAACAAUGUUCU--------------CUUCCGC---CU
..........(((((............)))))..((..(((......))).....))(((............--------------.....))---). ( -10.93)
>DroSec_CAF1 243 97 + 1
UCUUCAAAAAGUUCUGUAAAACGCAGAAAAACAAGGAACACAGAUUCGUGAGUAGCCGGCAAACAAGUGCCGCC-CCUCACCCACACUUCCUAUUCUU
...........((((((.....)))))).....(((((.........(((((..((.((((......)))))).-.)))))......)))))...... ( -23.76)
>DroSim_CAF1 243 98 + 1
CCUUCAAAAAGUUCUGCAAAGCGCAGAAAAACAAGGAACACAGAUUCGUGAGUAGCCGGCAAACAAGUGCCGCCCCCUCUCCCUCACUCCUUAUUCUU
...........((((((.....))))))....(((((..((......))(((..(.(((((......))))).)..)))........)))))...... ( -22.50)
>DroEre_CAF1 238 95 + 1
CCUUUAAAAAAUUCUGCAAAACGCAGAAAAAUAAGGAACACAGAUUCGUGAGUAGCCGGCAAACAAGUGCCGCCCCUCUGUCCCCACUUCCUC---UU
...........((((((.....)))))).....(((((....(((....(((..((.((((......))))))..))).))).....))))).---.. ( -23.80)
>DroYak_CAF1 240 97 + 1
CCUUCAAAAAGUUCUGCAAAACGCAGAAAAAUAAGGAGCACAGAUUCGUGAGUAGCCGGCAAACAAGUGCCGCCCCCCU-UCCCCACUUCCUCUUCUU
...........((((((.....)))))).....((((((((......)))......(((((......))))).......-.......)))))...... ( -19.60)
>consensus
CCUUCAAAAAGUUCUGCAAAACGCAGAAAAACAAGGAACACAGAUUCGUGAGUAGCCGGCAAACAAGUGCCGCCCCCUC_CCCCCACUUCCUAUUCUU
...........((((((.....)))))).....((((((((......)))......(((((......)))))...............)))))...... (-14.56 = -15.12 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:00 2006