Locus 6671

Sequence ID 3R_DroMel_CAF1
Location 17,548,737 – 17,548,851
Length 114
Max. P 0.521473
window10848

overview

Window 8

Location 17,548,737 – 17,548,851
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.35
Mean single sequence MFE -30.97
Consensus MFE -20.58
Energy contribution -20.38
Covariance contribution -0.19
Combinations/Pair 1.08
Mean z-score -2.92
Structure conservation index 0.66
SVM decision value -0.02
SVM RNA-class probability 0.521473
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17548737 114 - 27905053
CAGCUAC-----UAGUAGCAACAACAGCAAACUGCGGCAAUUGCGUAAAUGAUGUUCUAAUACAACAUCAAUUACAAUGGCAAGCGGC-CAUGGCCGAAACGGUAAUUAUGUAGUCAGCC
..((((.-----...)))).......((..((((((..((((((((((.(((((((.......))))))).)))).........((((-....)))).....)))))).))))))..)). ( -35.40)
>DroPse_CAF1 70402 114 - 1
CAGCAAC------AGCAACAACUACAAGUAACUGUGGCAAUUGCGUAAAUGAUGUUCUAAUACAACAUCAAUUACAAUGGCAAGCGGCCCAUGGCCAAAACGGUAAUGAUGUAGUCAGCC
..((...------.))....((((((.((.(((((.((..((((((((.(((((((.......))))))).))))....))))))((((...))))...))))).))..))))))..... ( -30.60)
>DroWil_CAF1 65140 99 - 1
----------------UACGACUGCUACAAACUGUGGCAAUUGCGUAAAUGAUGUUCUAAUACAACAUCAAUUACAAUGGCAAGCGGCCCAUGGCCA-AACGGUAAUGAUGUAGCU----
----------------.......((((((......(((..((((((((.(((((((.......))))))).))))....))))...)))(((.(((.-...))).))).)))))).---- ( -30.10)
>DroYak_CAF1 55235 114 - 1
GAGCUAC-----UACUAGCAACAACAUCAAACUGCGGCAAUUGCGUAAAUGAUGUUCUAAUAUAACAUCAAUUACAAUGGCAAGCGGC-CAUGGCCAAAACGGUAAUUAUGUAGUCAGCC
..(((((-----(((..(((............)))(((......((((.(((((((.......))))))).)))).(((((.....))-))).)))..............))))).))). ( -31.20)
>DroAna_CAF1 57717 115 - 1
GAGAAAC-----CAGCAGCAACAAGAACUAACUGUGGCAAUUGCGUAAAUGAUGUUCUAAUACAACAUCAAUUACAAUGGCAAGCGGCCCAUGGCCAAAACAGUAAUGAUGUAGUCAGCC
.......-----..((((.............))))(((......((((.(((((((.......))))))).))))..((((....((((...))))....((....)).....))))))) ( -26.22)
>DroPer_CAF1 74248 120 - 1
CAGCAACAGCAACAGCAACAACUACAAGUAACUGUGGCAAUUGCGUAAAUGAUGUUCUAAUACAACAUCAAUUACAAUGGCAAGCGGCCCAUGGCCAAAACGGUAAUGAUGUAGUCAGCC
..((....((....))....((((((.((.(((((.((..((((((((.(((((((.......))))))).))))....))))))((((...))))...))))).))..))))))..)). ( -32.30)
>consensus
CAGCAAC______AGCAACAACAACAACAAACUGUGGCAAUUGCGUAAAUGAUGUUCUAAUACAACAUCAAUUACAAUGGCAAGCGGCCCAUGGCCAAAACGGUAAUGAUGUAGUCAGCC
..............................((((((((......((((.(((((((.......))))))).)))).(((((.....)).))).))))...))))................ (-20.58 = -20.38 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:12 2006