Locus 3742

Sequence ID 3L_DroMel_CAF1
Location 10,832,792 – 10,832,901
Length 109
Max. P 0.983101
window5843

overview

Window 3

Location 10,832,792 – 10,832,901
Length 109
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 90.83
Mean single sequence MFE -35.36
Consensus MFE -33.34
Energy contribution -33.34
Covariance contribution -0.00
Combinations/Pair 1.07
Mean z-score -1.65
Structure conservation index 0.94
SVM decision value 1.93
SVM RNA-class probability 0.983101
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10832792 109 + 23771897
AAGAGACAGCAACAAGCCGGAGGAGGGAGAUAGCGUUCCACAGCUGC---UGCUGUCGCUUCUUCUUCUUCUUCACGUGGUGCACCUGUCCCAGCCAAAAAAA-AACCGCUAC
..(.(((((......(((.(((((((((((.((((....(((((...---.)))))))))...)))))))))))....)))....))))).)(((........-....))).. ( -35.90)
>DroSec_CAF1 41796 106 + 1
GAGAGACAGCAACAAGCCGGAGGAGGGAGAUAGCGUUCCACAGCUGC---UGCUGUCGCUUCUUCUUCUUCUUCACGUGGUGCACCUGUCCCAGCCAAAA----AACAGCUGC
....(((((......(((.(((((((((((.((((....(((((...---.)))))))))...)))))))))))....)))....))))).((((.....----....)))). ( -38.00)
>DroSim_CAF1 45659 106 + 1
AAGAGACAGCAACAAGCCGGAGGAGGGAGAUAGCGUUCCACAGCUGC---UGCUGUCGCUUCUUCUUCUUCUUCACGUGGUGCACCUGUCCCAGCCAAAA----AACAGCUGC
....(((((......(((.(((((((((((.((((....(((((...---.)))))))))...)))))))))))....)))....))))).((((.....----....)))). ( -38.00)
>DroEre_CAF1 43410 108 + 1
AAGAGACAGCAACAAGCCGGAGGAGAGAGAUAGCGUUCCACAGCUGCUGCUGCUGUCGCUUCUUCCUCUUCUUCACGUGGUACACCUGUCCCAGCCAAAAAAA-----ACAGC
..(.(((((......((((((((((((.((.((((...((((((....)))).)).))))...)))))))))))....)))....))))).)...........-----..... ( -32.30)
>DroYak_CAF1 43090 113 + 1
AAGAGACAGCAACAAGCCGGGGGAGAGAGAUAGCGUUCCACAGCUGCUGCUGCUGUCGCUUCUUCCUCUUCUUCACGUGGUGCACCUGUCCCAGCCAAAAAAAAAAGAACAGC
..(.(((((......((((((((((((.((.((((...((((((....)))).)).))))...)))))))))))....)))....))))).)..................... ( -32.60)
>consensus
AAGAGACAGCAACAAGCCGGAGGAGGGAGAUAGCGUUCCACAGCUGC___UGCUGUCGCUUCUUCUUCUUCUUCACGUGGUGCACCUGUCCCAGCCAAAAAAA_AACAGCUGC
..(.(((((......(((((((((((((((.((((....(((((.......)))))))))))))))))))))......)))....))))).)..................... (-33.34 = -33.34 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:38 2006