Locus 9651

Sequence ID 3R_DroMel_CAF1
Location 25,519,791 – 25,519,885
Length 94
Max. P 0.844410
window15428

overview

Window 8

Location 25,519,791 – 25,519,885
Length 94
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 77.46
Mean single sequence MFE -30.02
Consensus MFE -15.36
Energy contribution -18.28
Covariance contribution 2.92
Combinations/Pair 1.21
Mean z-score -2.14
Structure conservation index 0.51
SVM decision value 0.76
SVM RNA-class probability 0.844410
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25519791 94 + 27905053
GCAGCCGCUUAAGAAGCCAUUCACGCCUGGCCAUCUCAAGAAGAGGUCUUGAGAGUCU-UGGGGGAGGGCAGGUUAAAAGCGCGUUAAGAAAAAU
..((((((((..(((....)))..(((((.((.((((((((.....)))))))).(((-....))))).)))))...))))).)))......... ( -30.80)
>DroPse_CAF1 904 78 + 1
--------CAAGGAGGU-CCUUCCGCCUGGCCACAUGCCCGAGAGGGCUUCAGAGUCGAGC-G-----GAA--AAAAGAACGCGUUAAGAAAAUU
--------...((....-))((((((.(((((....((((....))))....).)))).))-)-----)))--...................... ( -24.80)
>DroSec_CAF1 3660 95 + 1
GCAGCCGCUUAAGAAGCCAUUCACGCCUGGCCUUCUCGAGAAGAGGUCUUAAGAAUCUUUGGGGGAGGACAGGUUAAAAGCGCGUUAAGAAAAAU
..((((((((..(((....)))..(((((.(((((((..(((((..((....)).))))).))))))).)))))...))))).)))......... ( -31.50)
>DroSim_CAF1 3659 95 + 1
GCAGCCGCUUAAGAAGCCAUUCACGCCUGGCCUUCUCGAGAAGAGGUCUUAAGAAUCUUUGGGGGAGGGCAGGUUAAAAGCGCGUUAAGAAAAAU
..((((((((..(((....)))..(((((.(((((((..(((((..((....)).))))).))))))).)))))...))))).)))......... ( -34.00)
>DroEre_CAF1 3700 94 + 1
GCAGCCGCUUGAAAAGC-CUUUACGCCUGGCCUUCUCGAGAAGAGGUCUUCAGAAUCGUUCGCGGAGUGCAGGCUAAAAGCGCGUUAAGAAAAAU
.......(((((...((-.((((.(((((..((((.((((..((..((....)).)).)))).))))..))))))))).))...)))))...... ( -27.00)
>DroYak_CAF1 3862 95 + 1
GCAGCCGCUUUAAAAGCCCUUUACGCCUGGCCUUCUCGAGAAGAGUUCUUCAGCAUCUUUGGGGAAGGGCAGGUUAAAAGCGCGUUAAGAAAAAU
..(((((((((.(((....)))..(((((.(((((((..(((((((......)).))))).))))))).)))))..)))))).)))......... ( -32.00)
>consensus
GCAGCCGCUUAAGAAGCCAUUCACGCCUGGCCUUCUCGAGAAGAGGUCUUCAGAAUCUUUGGGGGAGGGCAGGUUAAAAGCGCGUUAAGAAAAAU
..((((((((..(((....)))..(((((.(((((((..(((((...........))))).))))))).)))))...))))).)))......... (-15.36 = -18.28 +   2.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:39:09 2006