Locus 1237

Sequence ID X_DroMel_CAF1
Location 3,689,163 – 3,689,264
Length 101
Max. P 0.919099
window1991

overview

Window 1

Location 3,689,163 – 3,689,264
Length 101
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 75.65
Mean single sequence MFE -22.16
Consensus MFE -15.34
Energy contribution -15.40
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.83
Structure conservation index 0.69
SVM decision value 1.13
SVM RNA-class probability 0.919099
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3689163 101 - 22224390
UUGCUUUAGA------UGCCAUCCAGAUUAUAGAG--UAACCAAA-AAAAAAUCCAAAUCUGGAGUAUGCAUAUACCAUACAUAUGUACAUAUAUAUUUGGAGGGCAAAC
..........------((((.(((((((((((..(--((......-......((((....))))(((((.......))))).....))).)))).))))))).))))... ( -24.20)
>DroSim_CAF1 25607 90 - 1
UUGCUUUAGA------UGCCAUCCAGAUUAUAGAG--UACCCGAA----AAAUCCAAAUCUGGAGUAUGCAUAUAC--------CAUACAUAUGUACUUGGAGGGCAAAC
(((((((..(------(((..((((((((...((.--........----...))..))))))))....))))...(--------(((((....)))..)))))))))).. ( -21.50)
>DroEre_CAF1 27807 94 - 1
UUGCUUUAGAUGCCAUCGCCAUCCAGAUUGUAGAG--UACCCGA-----AAAUCCAAAUCUGGAGUAUGCAUAUAU-AG--------GUUUGUUUAUUUGGAGGGCAAAC
(((((((...(((.(((........))).)))...--...((((-----(.(..((((((((..(((....))).)-))--------)))))..).)))))))))))).. ( -20.60)
>DroYak_CAF1 23191 95 - 1
UUGCUUUACGAGUAGAUGCCAUCCAGAUUAUAGAGUGUACCCGAAUCCCAAAUCCAAAUCUGGAGUAUGCAUAUAC-A--------------UAAAUUUGGAGGGCAAAC
((((((...)))))).((((.(((((((((((..(((((((((.................))).)))))).)))).-.--------------...))))))).))))... ( -22.33)
>consensus
UUGCUUUAGA______UGCCAUCCAGAUUAUAGAG__UACCCGAA____AAAUCCAAAUCUGGAGUAUGCAUAUAC_A_________ACAUAUAUAUUUGGAGGGCAAAC
.................(((.(((((((........................((((....))))((((....))))...................))))))).))).... (-15.34 = -15.40 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:41 2006