Locus 5459

Sequence ID 3R_DroMel_CAF1
Location 14,424,104 – 14,424,200
Length 96
Max. P 0.687605
window8883

overview

Window 3

Location 14,424,104 – 14,424,200
Length 96
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 79.60
Mean single sequence MFE -27.60
Consensus MFE -12.73
Energy contribution -11.98
Covariance contribution -0.75
Combinations/Pair 1.41
Mean z-score -2.42
Structure conservation index 0.46
SVM decision value 0.32
SVM RNA-class probability 0.687605
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14424104 96 - 27905053
UAUAUUACAGUUGCCAUUCUUGUUUCCUCGAGCCAAGC---CACUGGCUCUGC--GUCCC----AACCAGCUCCAAUCAA------UAGAAAUCCCCGAGGCAGCCACAAC
.........((((((......(((((...((((((...---...)))))).((--.....----.....)).........------..)))))......))))))...... ( -21.70)
>DroSec_CAF1 202461 96 - 1
UAUAUUACAGUUGCCAUUCUUGUUACCUCGAGCCAAGC---CACUGGCUCUGC--GUCCC----AACCAGCUCCAAUCAA------UAGGAAUCCCCGAGGCAGCCACAAC
.........(((((((((((((((.....((((((...---...)))))).((--.....----.....)).......))------)))))))......))))))...... ( -24.50)
>DroSim_CAF1 194374 96 - 1
UAUAUUACAGUUGCCAUUCUUGUUUCCUCGAGCCAAGC---CACUGGCUCUGC--GUCCC----AACCAGCUCCAAUCAA------UAGAAAUACCCGAGGCAGCCACAAC
.........((((((.....((((((...((((((...---...)))))).((--.....----.....)).........------..)))))).....))))))...... ( -22.90)
>DroEre_CAF1 210888 99 - 1
UAUAUUACAGUUGCCAUUCUGGUUUCCACGAGCCAAGCUGGCACUGGCAGUGC--GUCCC----AACCAGCUCCAAUCAA------UAGGAAUCCCCUAGGCAGCCACAAC
.........((((((....((((((....))))))((((((....(((.....--)))..----..))))))........------((((.....))))))))))...... ( -28.20)
>DroYak_CAF1 210817 96 - 1
UAUAUUACAGUUGUCAUUCUUGUUUCCCCGAGCCAAGC---CACUGGCACUGC--GUCCC----AACCAGCUCCACUCAA------UAGGAGUCCCCGAGGCAGCCACAAC
.........(((((.................((((...---...)))).((((--.((..----.....(((((......------..)))))....)).))))..))))) ( -22.00)
>DroPer_CAF1 235951 108 - 1
UACCUUACAGCUGCCUGCCUUGUGCCGUUUAACCAAGC---GGCGGGUCCAGCAGGUCCUGCAGGACCCAUCCCAGACAAUGGCAAGAGGCACAGUCGAGGCAACAGCAAC
.........((((..((((((..(((((((....))))---)))((((((.((((...)))).))))))......(((..((.(....).))..))))))))).))))... ( -46.30)
>consensus
UAUAUUACAGUUGCCAUUCUUGUUUCCUCGAGCCAAGC___CACUGGCUCUGC__GUCCC____AACCAGCUCCAAUCAA______UAGGAAUCCCCGAGGCAGCCACAAC
.........((((((......(((((.....((((.........)))).......((........)).....................)))))......))))))...... (-12.73 = -11.98 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:13 2006