Locus 3870

Sequence ID 3R_DroMel_CAF1
Location 10,529,628 – 10,529,743
Length 115
Max. P 0.998765
window6200

overview

Window 0

Location 10,529,628 – 10,529,743
Length 115
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 91.13
Mean single sequence MFE -30.98
Consensus MFE -29.60
Energy contribution -29.20
Covariance contribution -0.40
Combinations/Pair 1.06
Mean z-score -2.00
Structure conservation index 0.96
SVM decision value 3.22
SVM RNA-class probability 0.998765
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10529628 115 + 27905053
CAGAAUAUACACAGAUACAGAUAAAUAAAUCUGCGCCAUAUGCGAUAGAUAGCCAGGGGCAGUGCGUUUCAGAGUUGUAAAUCGCUUUAUGGCAUGCAGUUCAACGAACGAUAUA
..((((...........(((((......))))).((((((.(((((..((((((.(..((.....))..).).)))))..)))))..)))))).....))))............. ( -30.80)
>DroSec_CAF1 4917 115 + 1
CAGAAUAUACACAGAUACAGAUAAAUAAAUCUGCGCCAUAUGCGAUAGAUAGCCAGGGGCAGUGCGUUUCAGCGUUGUAAAUCGCUUUAUGGCAUGCAGUUCAACGAACGAUAUA
..((((...........(((((......))))).((((((.(((((..((((((.(..((.....))..).).)))))..)))))..)))))).....))))............. ( -30.80)
>DroSim_CAF1 3467 115 + 1
CAGAAUAUACACAGAUACAGAUAAAUAAAUCUGCGCCAUAUGUGAUAGAUAGCCGGGGGCAGUGCGUUUCAGCGUUGUAAAUCGCUUUAUGGCAUGCAGUUCAACGAACGAUAUA
..((((...........(((((......))))).((((((.(((((..((((((.(..((.....))..).).)))))..)))))..)))))).....))))............. ( -29.60)
>DroEre_CAF1 4626 102 + 1
---------UUCAGAUACAGAUA----AAUCUGCGCCAUAUGCGAUAGAUAGCCAGAGGCAGUGCGUUUCGGUGUUGUAAAUCGCUCUAUGGCAUGCAGUUCAACGAACGAUACA
---------..(((((.......----.))))).((((((.(((((..((((((.(((((.....))))).).)))))..)))))..)))))).....((((...))))...... ( -29.60)
>DroYak_CAF1 3639 115 + 1
CCGAAUAAACGCAGAUACAGAUAAAUAAAUCUGCGCCAUAUGCGAUAGAUAGCCAGAGGCAGUGCGUUUCAGCGUUGUAAAUCGCUUUAUGGCAUGCAGUUCAACGAACGAUAUA
..((((....((((((............))))))((((((.(((((..((((((.(((((.....))))).).)))))..)))))..)))))).....))))............. ( -34.10)
>consensus
CAGAAUAUACACAGAUACAGAUAAAUAAAUCUGCGCCAUAUGCGAUAGAUAGCCAGGGGCAGUGCGUUUCAGCGUUGUAAAUCGCUUUAUGGCAUGCAGUUCAACGAACGAUAUA
.................(((((......))))).((((((.(((((..((((((.(((((.....))))).).)))))..)))))..)))))).....((((...))))...... (-29.60 = -29.20 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:06 2006