Locus 1260

Sequence ID 3L_DroMel_CAF1
Location 3,647,035 – 3,647,125
Length 90
Max. P 0.874948
window1972

overview

Window 2

Location 3,647,035 – 3,647,125
Length 90
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 75.22
Mean single sequence MFE -21.42
Consensus MFE -11.35
Energy contribution -11.35
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.53
SVM decision value 0.89
SVM RNA-class probability 0.874948
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3647035 90 + 23771897
----AACAAAAUGUUUAUAAUGCUGCUAAAAGCAUGUUU------GUAUCU-CGCAGAUACAAAUCGCAGAUCGCCAAUC-CGAAAGCCAA--AUGCCGCACUU----
----................(((.((.....((..((((------(((((.-....))))))))).))...(((......-))).......--..)).)))...---- ( -16.80)
>DroVir_CAF1 44094 97 + 1
GCGAGACAAAAUGUUUAUAAUGCUGCUAAAAGCAUGUCAGUACGAGUAUCU-CGCAGAUACAAAUCAGAAAGCGGC---C-CGCAAGCAAA--GUGGGCCACGA----
((((((.(...(((.....(((((......)))))......)))..).)))-))).(((....))).....(.(((---(-(((.......--))))))).)..---- ( -31.10)
>DroGri_CAF1 18264 98 + 1
GCGAGACAAAAUGUUUAUAAUGCUGCUAAAAGCAUGUCAGUACGAGUAUCU-CGCAGAUACAAAUCAGAAAGCGGC---CGCUCAAGCAAA--GUGGGCCACGA----
((((((.(...(((.....(((((......)))))......)))..).)))-))).(((....))).....(.(((---((((.......)--)).)))).)..---- ( -24.80)
>DroWil_CAF1 48507 94 + 1
----AACAAAAUGUUUAUAAUGCUGCUAAAAGCAUGUCC------GUAUCGGUCCAGAUACAAAUCAGAAAACUGAAAAC-AGAAAGCCGA--AAGUGG-AUUCUGUC
----...............(((((......)))))....------(((((......)))))...((((....))))..((-((((..((..--..).).-.)))))). ( -20.60)
>DroYak_CAF1 22396 90 + 1
----AACAAAAUGUUUAUAAUGCUGCUAAAAGCAUGUUU------GUAUCU-CGCAGAUACAAAUCGCAGAUCGCCAAUC-CGCAAGCCAA--AUGCCGCACUU----
----................(((.((.....((..((((------(((((.-....))))))))).((.(((.....)))-.))..))...--..)).)))...---- ( -19.00)
>DroAna_CAF1 39320 92 + 1
----AACAAAAUGUUUAUAAUGCUGCUAAAAGCAUGUUU------GUAUCU-UGCAGAUACAAAUCGCAGAUCGCAAAUC-CGAAAGCCAAAAAUGCCGAAACU----
----........((((...(((((......)))))((((------(((((.-....))))))))).((((((.....)))-(....).......)))..)))).---- ( -16.20)
>consensus
____AACAAAAUGUUUAUAAUGCUGCUAAAAGCAUGUCU______GUAUCU_CGCAGAUACAAAUCACAAAUCGCCAAUC_CGAAAGCCAA__AUGCCGCACUU____
............((((...(((((......)))))..........(((((......))))).......................)))).................... (-11.35 = -11.35 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:17 2006