Locus 7842

Sequence ID 3R_DroMel_CAF1
Location 20,993,984 – 20,994,098
Length 114
Max. P 0.768678
window12641

overview

Window 1

Location 20,993,984 – 20,994,098
Length 114
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 76.93
Mean single sequence MFE -34.23
Consensus MFE -19.26
Energy contribution -19.85
Covariance contribution 0.59
Combinations/Pair 1.12
Mean z-score -1.79
Structure conservation index 0.56
SVM decision value 0.52
SVM RNA-class probability 0.768678
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20993984 114 + 27905053
UACGGGGUCCCGCGACUCGGAAGUCCAAAAAGGACACUGAGCGAAAAGUGGGACACCUUCU-U-GUGGUCAGUUUAAACAGAGUUCUAAAUCGUAUAAGAAGGUCAAGU---AAUCAUA
(((..((((((((..(((((..((((.....)))).)))))......)))))))(((((((-(-(((..(.((((((((...))).))))).)))))))))))))..))---)...... ( -36.20)
>DroSec_CAF1 34623 117 + 1
UACGGGGUCCCGCGACUCGGAAGUCCAAAAAGGACACUGAGCGAAAAGUGGGACACCCUCU-U-GUGGUCAGUUAAAACAGUCUUCUAAAUCUUAUAAGAAAGUCGAGUAUUAAUCAUA
...((((((((((..(((((..((((.....)))).)))))......))))))).)))...-(-(((((.(((....((..((((.((.....)).))))..)).....))).)))))) ( -33.90)
>DroSim_CAF1 29958 117 + 1
UACGGGGUCCCGCGACUCGGAAGUCCAAAAAGGACACUGAGCGAAAAGUGGGGCACCUUCU-U-GCGGUCAGUUUAAGCAGUGUUCUAAGUCAUAUAAGAAAGUCGAGUAUUAAUCAAA
..(((....))).((((..(((((((.....))))(((((.((..(((.((....))..))-)-.)).)))))..........)))..))))........................... ( -30.10)
>DroEre_CAF1 36601 114 + 1
UACGGGGUCCCGCGACUCGGAAGUCCAAAAAGGACACUGCGCGAAAAGUGGGACACCUUCU-G-GGGGCCAGCUUGGACAGUGUUCUAGAACUCCCAAAAAUGCCGAGU---GAUCAUG
...((((((((((...((((..((((.....))))....).)))...))))))).)))..(-(-((((....((.((((...)))).))..))))))........((..---..))... ( -37.00)
>DroYak_CAF1 36241 114 + 1
UACGGGGUCCCGCGACUCGGAAGUCCAAAAAGGACACUGCGCGAAAAGUGGGACACCUUCU-U-GGGCUCAGCUCAAGCAGAGAUCUAAAAGUCAUAAGAAGUUCAGGA---AAUCAUU
...((.(((((((...((((..((((.....))))....).)))...))))))).))((((-(-((((((.((....))...(((......)))....).)))))))))---)...... ( -37.00)
>DroAna_CAF1 35398 104 + 1
UGCAGGGUCCCGCGACUCGGAAGUCCAAAAAGGACACCGCGCAAAAAG--GGACCACGUCUUUGGGGAUCAACUGAGAAA----------AAUUUUAGGAUAUUCAGGU---AUCUGUC
.(((((((((((((...(((..((((.....)))).))))))....((--((((...)))))).))))))..((((((..----------..))))))...........---..)))). ( -31.20)
>consensus
UACGGGGUCCCGCGACUCGGAAGUCCAAAAAGGACACUGAGCGAAAAGUGGGACACCUUCU_U_GGGGUCAGCUUAAACAGUGUUCUAAAACUUAUAAGAAAGUCAAGU___AAUCAUA
...((((((((((...(((...((((.....))))......)))...))))))).)))............................................................. (-19.26 = -19.85 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:10 2006