Locus 1236

Sequence ID 3L_DroMel_CAF1
Location 3,519,342 – 3,519,443
Length 101
Max. P 0.715646
window1938

overview

Window 8

Location 3,519,342 – 3,519,443
Length 101
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 78.63
Mean single sequence MFE -19.48
Consensus MFE -10.82
Energy contribution -11.07
Covariance contribution 0.25
Combinations/Pair 1.17
Mean z-score -1.89
Structure conservation index 0.56
SVM decision value 0.39
SVM RNA-class probability 0.715646
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3519342 101 + 23771897
UUUAACUUUGUGCGGCGGCGAUUAAAUUUCCAAGUUCUUGGACUCCAACUCAUCCCGCCUUUGUGCCCCAUUC---CG------GCCCCCUCUGCC------ACCGCCCCAUUUUC
...........((((.((((........(((((....)))))..............(((...(((...)))..---.)------))......))))------.))))......... ( -22.30)
>DroSec_CAF1 49784 101 + 1
UUUAACUUUGUGCGGCGGCGAUUAAAUUUCCAAGUUCUUGGACUCCAACUCAUCCCGCCGUUGUGCCCCAUUC---CG------GCCCCCUCUGCC------ACCACCCCAUUUUC
.........(..((((((((........(((((....))))).............))))))))..).......---.(------((.......)))------.............. ( -23.00)
>DroSim_CAF1 50456 105 + 1
UUUAACUUUGUGCGGCGGCGAUUAAAUUUCCAAGUUCUUGGACUCCAACUCAUCCCGCCUUUGUUCCCCAUUC---CGGUCG--GCCCCCUCUGCC------ACCACCCCAUUUUC
.............(((((.(((......(((((....))))).........))))))))..............---.(((.(--((.......)))------)))........... ( -22.76)
>DroEre_CAF1 66022 107 + 1
UUUAACUUUGUGCGGUGGCGAUUAAAUUUCCAAGUUCUUGGACUCCAACUCAUCCCGCCUUUGUGCCCCAUUC---CU------GCCCCCUCUGCCCACUCUGCCACCCGAUUUUC
..........((.(((((((........(((((....)))))..............((....(((...)))..---..------))...............)))))))))...... ( -17.40)
>DroYak_CAF1 52116 87 + 1
UUUAACUUUGUGCGGCGGCGAUUAAAUUUCCAAGUUCUUGGACUCCAACUCAUACCGCCUUGCUGCCCCCCCA---CC------GCCCCCU--------------------UUUCC
...........(((((((((........(((((....))))).............))))..))))).......---..------.......--------------------..... ( -15.20)
>DroAna_CAF1 63965 106 + 1
UUUAACUUUGUGAGGCAGCGAUUAAAUUUCCAAGUUCUUGGACUCCAGCUCUGCC---UUUUAUUCCACACACACACGCUCCACACACCAUAUACC------A-CACACCAUACAC
........((((.((.((((........(((((....))))).....((...)).---..................)))))).)))).........------.-............ ( -16.20)
>consensus
UUUAACUUUGUGCGGCGGCGAUUAAAUUUCCAAGUUCUUGGACUCCAACUCAUCCCGCCUUUGUGCCCCAUUC___CG______GCCCCCUCUGCC______ACCACCCCAUUUUC
.............(((((.((.......(((((....))))).......))...)))))......................................................... (-10.82 = -11.07 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:45 2006