Locus 4513

Sequence ID 2R_DroMel_CAF1
Location 14,811,757 – 14,811,858
Length 101
Max. P 0.500000
window7231

overview

Window 1

Location 14,811,757 – 14,811,858
Length 101
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 82.90
Mean single sequence MFE -27.22
Consensus MFE -16.82
Energy contribution -16.18
Covariance contribution -0.64
Combinations/Pair 1.14
Mean z-score -1.75
Structure conservation index 0.62
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14811757 101 + 20766785
AGCGAGG---GGGAAAACCGAAAGGCAGAC------GAAGCUGGCAAACAAAACGUAGCAAUCUAAAGAGCACAGAAAACGAAUUUUCAUUGCCUUCCCAUCGACCCCUU---------
...((((---((.....((....))....(------((.(..(((((.......((.((..((....)))))).(((((....))))).)))))....).))).))))))--------- ( -25.40)
>DroSec_CAF1 13561 107 + 1
AGUGGGGGAGGGGAAAAACGAAAGGCAGAC------GAAGCUGCCAAACAAAACGUAGCAAUCUAAAAAGCACAGAAAACGACUUUUCAUUGCCUUCCCAUCGACCCCUUCCC------
....(((((((((........(((((((..------...(((((..........)))))...............(((((....))))).)))))))........)))))))))------ ( -32.99)
>DroSim_CAF1 7815 106 + 1
AGUGGGGGAGGGGAA-AACGAAAGGCAGAC------GAAGCUGGCAAACAAAACGUAGCAAUCUAAAGAGCACAGAAAACGAAUUUUCAUUGCCUUCCCAUCGACCCCUUCUC------
....(((((((((..-..(....).....(------((.(..(((((.......((.((..((....)))))).(((((....))))).)))))....).))).)))))))))------ ( -28.10)
>DroEre_CAF1 6407 111 + 1
AGA-------GGGAAAA-UGAGAGGCAAACAAGGGGGAAGCUGGCAAACAAAACGUAGCAAUCUUAAGAGCACAGAAAACGAAUUUUCAUUGCCUUGCCAUCGACCCCUCGGCAACCCC
.((-------(((....-(((..(((((......((....))(((((.......((.((..((....)))))).(((((....))))).)))))))))).)))..)))))(....)... ( -26.70)
>DroYak_CAF1 7722 102 + 1
AGU-------GGGAAAACUGAGAGGCAGAC------GUAGCUGGCAAACAAAACGUAGCAAUCUUAAGAGCAAAGAAAAUGAAUUUUCAUUGCCUUCCCAUCGACCCCUUCGCGA----
.((-------(((((...(((((.((..((------((...((.....))..)))).))..)))))...((((.(((((....))))).)))).)))))))..............---- ( -22.90)
>consensus
AGUG_GG___GGGAAAAACGAAAGGCAGAC______GAAGCUGGCAAACAAAACGUAGCAAUCUAAAGAGCACAGAAAACGAAUUUUCAUUGCCUUCCCAUCGACCCCUUCGC______
..........(((.....((((((((((...........((((............))))...............(((((....))))).)))))))....)))..)))........... (-16.82 = -16.18 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:49 2006