Locus 5555

Sequence ID 2R_DroMel_CAF1
Location 17,738,509 – 17,738,608
Length 99
Max. P 0.710976
window8906

overview

Window 6

Location 17,738,509 – 17,738,608
Length 99
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 78.48
Mean single sequence MFE -28.80
Consensus MFE -14.21
Energy contribution -14.77
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.13
Structure conservation index 0.49
SVM decision value 0.38
SVM RNA-class probability 0.710976
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17738509 99 - 20766785
GGGAGGAGCGGGAGCAGCCGUCG-G-------------UCUGUUAAUUACAACUUAAAUUGACAGC-AAAAAUUGGA-CUGGAAAAUUGUGGGUUUU-CCAUGCGGUCGGCAUAUU
.......((....)).(((((((-(-------------.(((((((((........))))))))))-..........-.((((((((.....)))))-)))..))).))))..... ( -28.80)
>DroVir_CAF1 7698 95 - 1
-------ACUGGAGCCGCCGACG-GCUC---------GACUGUUAAUUACAACUUAAAUUGACAGC-AA-AAUUGGC-UAGCUAAAUUGUGGGUUUU-CCAUGCGGUCGGCAUAUU
-------.........((((((.-((..---------(.(((((((((........))))))))))-..-...(((.-.((((........))))..-))).)).))))))..... ( -30.00)
>DroGri_CAF1 8003 103 - 1
--------GUGGAGCAAGCGUCG-GCUCUUGGCUCUCUGCUGUUAAUUACAACUUAAAUUGACAGC-AA-AAUUGGA-AAGCAAAAUUGUGGGUUUU-CCAUGCGGUCGGCAUAUU
--------..(((((.(((....-)))....))))).(((((((((((........))))))))))-).-....(((-((((..........)))))-))((((.....))))... ( -31.10)
>DroEre_CAF1 6275 85 - 1
--------------GAGCCUUCG-G-------------UCUGUUAAUUACAACUUAAAUUGACAGC-AAAAAUUGGA-CUGGAAAAUUGUGGGUUUU-CCAUGCGGUCGGCAUAUU
--------------..(((....-(-------------.(((((((((........))))))))))-........((-(((((((((.....)))))-))....)))))))..... ( -22.40)
>DroWil_CAF1 9060 88 - 1
-----------G--ACGUCGUCGGG-------------GCUGUUAAUUACAACUUAAAUUGACAGCCAAAAAUUGGA-CCGGAAAAUUGUGGGUUUU-CCAUGCGGUCGGCAUAUU
-----------.--..(((((((.(-------------((((((((((........)))))))))))..........-..(((((((.....)))))-))...))).))))..... ( -29.60)
>DroMoj_CAF1 8467 96 - 1
-------UCU-CAGCAGCCGACG-GCUC---------GCCUGUUAAUUACAACUUAAAUUGACAGC-AA-AAUUGGCCUGGCUAAAUUGUGGGUUUUAGCAUGCGGUCGGCAUAUU
-------...-.....((((((.-((..---------((.((((((((........))))))))))-..-..........((((((........))))))..)).))))))..... ( -30.90)
>consensus
________CU_GAGCAGCCGUCG_G_____________GCUGUUAAUUACAACUUAAAUUGACAGC_AA_AAUUGGA_CAGCAAAAUUGUGGGUUUU_CCAUGCGGUCGGCAUAUU
................((((.(.................(((((((((........))))))))).......................((((......))))...).))))..... (-14.21 = -14.77 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:34 2006