Locus 7204

Sequence ID 3L_DroMel_CAF1
Location 19,344,797 – 19,344,901
Length 104
Max. P 0.769597
window11700

overview

Window 0

Location 19,344,797 – 19,344,901
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 70.02
Mean single sequence MFE -27.10
Consensus MFE -13.72
Energy contribution -13.64
Covariance contribution -0.08
Combinations/Pair 1.38
Mean z-score -1.73
Structure conservation index 0.51
SVM decision value 0.53
SVM RNA-class probability 0.769597
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19344797 104 + 23771897
AUCCAACUAUUUAUUUUGUACAGCUUA-------AAUA----CAAUUACACUUACCCUCUGCGAGCGUAUGAAAGCCGCUGCGGC-CGG-AAAAUGCAGCGGCAGGA---AAAACUAGAU
.(((.........(((..(((.((((.-------....----....................)))))))..)))(((((((((..-...-....))))))))).)))---.......... ( -28.11)
>DroSec_CAF1 178417 88 + 1
AUCCUCCUAUUUAUUUUGUAGAGCU---------------------------UACCCUCUGUGAGCGUAUGAAAGCCGCUGCUGC-CGG-AAAAUGCAGCGGCAGGA---AAAACUAGAU
....((((.....(((..((..(((---------------------------(((.....)))))).))..)))((((((((...-...-.....))))))))))))---.......... ( -31.30)
>DroSim_CAF1 195006 107 + 1
AUCCUCCUAUUUAUUUUGUAGAGCUUU-------AAUA----CAAUUACACUUACCCUUUGCGAGCGUAUGAAAGCCGCUGCUGC-CGG-AAAAUGCAGCGGCAGGACUAAAAACUAGAU
....((((............(.(((((-------.(((----(..(..((.........))..)..)))).))))))((((((((-...-.....))))))))))))............. ( -26.20)
>DroEre_CAF1 178076 101 + 1
GAUCCCCUCUUAAUU--GAAG-CCCCU-------AAUG----GAAUUACACUUACCCUCUGCGAGCGUAUGAAAGCCGCUGCUGC-CGG-AAAAUGCAGCGGCAGGA---AAAACUAGAU
..(((..........--....-..((.-------...)----)...(((.((..(.....)..)).))).....((((((((...-...-.....)))))))).)))---.......... ( -23.20)
>DroAna_CAF1 158614 106 + 1
--------AUU--UUUUCUAGAAAAUUAGGUCACAAUAGCGCCAAGUGCAUUUUCCUCCUUCAAGGGUAU-ACAGCUGAUGUUGCUCGGAAAAGUGCAAUGUCAGGA---AAAACUAGAG
--------...--...(((((.................((((...)))).((((((.(((....)))...-.....(((((((((.(......).))))))))))))---))).))))). ( -26.70)
>consensus
AUCCUCCUAUUUAUUUUGUAGAGCUUU_______AAUA____CAAUUACACUUACCCUCUGCGAGCGUAUGAAAGCCGCUGCUGC_CGG_AAAAUGCAGCGGCAGGA___AAAACUAGAU
..........................................................................((((((((.............))))))))................. (-13.72 = -13.64 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:46 2006