Locus 5198

Sequence ID 3R_DroMel_CAF1
Location 13,619,545 – 13,619,649
Length 104
Max. P 0.987092
window8484

overview

Window 4

Location 13,619,545 – 13,619,649
Length 104
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 93.24
Mean single sequence MFE -13.63
Consensus MFE -12.53
Energy contribution -12.29
Covariance contribution -0.24
Combinations/Pair 1.05
Mean z-score -1.68
Structure conservation index 0.92
SVM decision value 2.07
SVM RNA-class probability 0.987092
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13619545 104 - 27905053
CACCGAAAAAAAAAAUCCACAA-AA--AAAAGUAAUUUGGAUCCCAGCAAAAAAUGAAGCAUGGCAAAAGAAAAGGUUAAUAAUUCGUGCCAAUAAUGCUCUCGAAA
...(((........(((((...-..--..........)))))...............(((((((((...(((...........))).)))))....)))).)))... ( -13.66)
>DroSec_CAF1 68515 101 - 1
CACCGAAAA---AAAUCCACAA-AA--AAAAGCAAUUUGGAUCCCAGCAAAAAAUGAAGCAUGGCAAAAGAAAAGGUUAAUAAUUCGUGCCAAUAAUGCUCUCGAAA
...(((...---..(((((...-..--..........)))))...............(((((((((...(((...........))).)))))....)))).)))... ( -13.66)
>DroSim_CAF1 62136 104 - 1
CACCGAAAAA--AAAUUCACAA-AAAAAAAAGCAAUUUGGAUCCCAGCAAAAAAUGAAGCAUGGCAAAAGAAAAGGUUAAUAAUUCGUGCCAAUAAUGCUCUCGAAA
..........--...(((....-........((....(((...))))).......(((((((((((...(((...........))).)))))....)))).))))). ( -13.10)
>DroEre_CAF1 59791 100 - 1
CACCAAAA----AAAUCCAAAA-AA--AAAAGCAAUUUGGAUCGCAACAAAAAAUGAAGCAUGGCAAAAGAAAAGGUUAAUAAUUCGUGCCAAUAAUGCUCUCGAAA
........----..(((((((.-..--........)))))))............((((((((((((...(((...........))).)))))....)))).)))... ( -15.50)
>DroYak_CAF1 61626 101 - 1
CACCAAAA----AAAUCAAAAAAAA--AAAAGCAAUUUGGAUCCCAACAAAAAAUGAAGCAUGGCAUAAGAAAAGGUUAAUAAUUCGUGCCAAUAAUGCUCUCGAAA
..(((((.----.............--........)))))..............(((((((((((((..(((...........)))))))))....)))).)))... ( -12.25)
>consensus
CACCGAAAA___AAAUCCACAA_AA__AAAAGCAAUUUGGAUCCCAGCAAAAAAUGAAGCAUGGCAAAAGAAAAGGUUAAUAAUUCGUGCCAAUAAUGCUCUCGAAA
..(((((............................)))))..............((((((((((((...(((...........))).)))))....)))).)))... (-12.53 = -12.29 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:51 2006