Locus 3848

Sequence ID 3L_DroMel_CAF1
Location 11,151,827 – 11,151,925
Length 98
Max. P 0.516721
window5994

overview

Window 4

Location 11,151,827 – 11,151,925
Length 98
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 79.23
Mean single sequence MFE -24.06
Consensus MFE -18.16
Energy contribution -18.72
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -1.31
Structure conservation index 0.75
SVM decision value -0.03
SVM RNA-class probability 0.516721
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11151827 98 - 23771897
AAUGCCCCUGGGAAAAUGCAAUCACCUGCGACAGCCAGGACCUCCA-ACUGCCGUCUGCAGGAUUCGUGCGAGGUCAGGGUCUGAACCACAUCAACAAU
........(((.....((((......)))).(((((..((((((((-.((((.....))))......)).))))))..)).)))..))).......... ( -28.30)
>DroSec_CAF1 12513 78 - 1
AAUCCC-------------AAUCC-------CAGCCAGGACCUCCA-ACGGCCGUCAGCUGGAUUCGUGCGAGGUCAGGGUCUGAACCACAUCAACAAU
......-------------.....-------(((((..((((((((-.((((.....))))......)).))))))..)).)))............... ( -22.30)
>DroSim_CAF1 13292 78 - 1
AAUCCC-------------AAUCC-------CAGCCAGGACCUCCA-ACGGCCGUCAGCAGGAUUCGUGCGAGGUCAGGGUCUGAACCACAUCAACAAU
......-------------.....-------(((((..((((((((-.((.((.......))...)))).))))))..)).)))............... ( -22.00)
>DroEre_CAF1 12842 97 - 1
AAUACC-CUAAGCAAAUUCAAUCACCUGCGGAACCCAGGACCUCCA-ACUGCCGUCUGCAGGAUUCGUGCGAGGUCAGGGUCUGAACCACAUCAACAAU
...(((-((................(((.(....))))((((((((-.((((.....))))......)).))))))))))).................. ( -24.50)
>DroYak_CAF1 13145 85 - 1
AUU--------------CAAAUCAGCUGCGACACCCAGGACCUCCAAACUGCCGUCUGCAGGAUUCAUGCGAGGUCAGGGUCUGAGCCACAUCAACAAU
...--------------.......(((..(((.((...((((((((..((((.....))))......)).)))))).)))))..)))............ ( -23.20)
>consensus
AAUCCC_____________AAUCA_CUGCG_CAGCCAGGACCUCCA_ACUGCCGUCUGCAGGAUUCGUGCGAGGUCAGGGUCUGAACCACAUCAACAAU
...............................(((((..((((((((..((((.....))))......)).))))))..)).)))............... (-18.16 = -18.72 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:18 2006