Locus 6197

Sequence ID 3L_DroMel_CAF1
Location 16,425,316 – 16,425,418
Length 102
Max. P 0.580319
window9950

overview

Window 0

Location 16,425,316 – 16,425,418
Length 102
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.46
Mean single sequence MFE -21.28
Consensus MFE -9.81
Energy contribution -11.03
Covariance contribution 1.22
Combinations/Pair 1.08
Mean z-score -2.02
Structure conservation index 0.46
SVM decision value 0.09
SVM RNA-class probability 0.580319
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16425316 102 - 23771897
UUA------AGC-----CCAUCAGUGCCAUU--AUUCCAAUCCAUCCUGGGUAG-----CAAUAAAAACUGAAACUUUUCACUCACUCUGGCUGGCUGCUAACCAUAUCUAACAGCUGAU
...------(((-----(....((((...((--(((.(.((((.....)))).)-----.)))))....((((....))))..))))..))))(((((.((........)).)))))... ( -18.30)
>DroSec_CAF1 37707 103 - 1
UCA------AGC-----CCAUCAUUGCCACUUUUUUACCACCCAUCCUAGGUAG-----CAAUAAAAACUGAAACUUUUCACUCACUCU-GCUGGCUGCUAACCAUAUCUAGCAGCUGAU
...------(((-----.....(((((.((((................)))).)-----))))......((((....))))........-)))((((((((........))))))))... ( -19.79)
>DroSim_CAF1 37944 103 - 1
UUA------AGC-----CCAUCAUUGCCACUUUUUUACCACCCAUCCUGGGUAG-----CAAUAAAAACUGAAACUUUUCACUCACUCU-GCUGGCUGCUAACCAUAUCUAGCAGCUGAU
...------(((-----.....(((((............((((.....)))).)-----))))......((((....))))........-)))((((((((........))))))))... ( -20.72)
>DroEre_CAF1 39661 100 - 1
UUA------AAU-----CCAUCAGUGCCAUU---UUCCAAGCCAUCCUGGGUAG-----CAAUAAAAACUGAAACUUUUCACUCACUCU-GCUGGCUGCUAACCAUAUCUAGCAGCUGAU
...------...-----..(((((((((...---......(((......)))((-----((........((((....)))).......)-))))))(((((........))))))))))) ( -20.66)
>DroYak_CAF1 39503 100 - 1
UUA------GAU-----CCAUCAGUGCCGCU---UUCCCACCCAUCAUGGGUAG-----CAAUAAAAACUGAAACUUUUCACUCACUCU-GCUGGCUGCUAACCAUAUCUAGCAGCUGAU
...------...-----..(((((((((...---.....((((.....))))((-----((........((((....)))).......)-))))))(((((........))))))))))) ( -23.86)
>DroPer_CAF1 47743 113 - 1
UUUAAAGGCAGCCUCUUCUGCCAUAACCACU------CGCCCGAUCCAAGGUACAGAUGAGAUGGAAAUCCAACCUCUUCCCUCAGUGA-UCUUUCAGCUAACGAUCUCUAGCAGCUGAU
......(((((......))))).....((((------.(((........)))...((.(((.(((....)))..))).))....)))).-....((((((.............)))))). ( -24.32)
>consensus
UUA______AGC_____CCAUCAGUGCCACU___UUCCCACCCAUCCUGGGUAG_____CAAUAAAAACUGAAACUUUUCACUCACUCU_GCUGGCUGCUAACCAUAUCUAGCAGCUGAU
.......................................((((.....)))).........................................((((((((........))))))))... ( -9.81 = -11.03 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:32 2006