Locus 6176

Sequence ID X_DroMel_CAF1
Location 15,745,953 – 15,746,069
Length 116
Max. P 0.778232
window10063

overview

Window 3

Location 15,745,953 – 15,746,069
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 51.97
Mean single sequence MFE -34.67
Consensus MFE -15.09
Energy contribution -13.67
Covariance contribution -1.43
Combinations/Pair 1.50
Mean z-score -1.45
Structure conservation index 0.44
SVM decision value 0.55
SVM RNA-class probability 0.778232
Prediction RNA
WARNING Mean pairwise identity too low.

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15745953 116 + 22224390
C-AGCGCUACUACGUUACGUGCCUAUGAGUGGGCGAGUUUGUGUACAUGUCUGGACAUGUAUUUGACAGCCUUUCCCUUUUGGCCAUUGGUAUGCUUCGUGUGGCUCUGUAAGUAU---U
(-((.(((((.(((...((((((.(((.(((((.(((.((((((((((((....))))))))...)))).))).))).....))))).))))))...)))))))).))).......---. ( -40.80)
>DroYak_CAF1 4885 120 + 1
CCACCGCUACUACGUUACGUGCCUAUGAGUGGGCGAGUUUGUGUACAUGUCUGGACAUGUAUUUGACAGCCUUUCCCUUUUGGCCAUUGGUAUGCUUCGUGUGGCUCUGUAAGUAUUAUU
.....(((((.(((...((((((.(((.(((((.(((.((((((((((((....))))))))...)))).))).))).....))))).))))))...))))))))............... ( -37.50)
>DroPer_CAF1 106669 116 + 1
G-AAAAUAACGCUAUGUAGAACUUAUAAGGGGGCCUUCCACGAAUUUCAGAGUCGUAUAGACUGGGCCACAAUAAUCAACGCCACAUACUGAAAAUGGGCGGAGAGCACGGAGCCG---G
.-........(((.(((.(..(((.......(((((.....(.....)..((((.....)))))))))...........((((.(((.......))))))))))..)))).)))..---. ( -25.70)
>consensus
C_AACGCUACUACGUUACGUGCCUAUGAGUGGGCGAGUUUGUGUACAUGUCUGGACAUGUAUUUGACAGCCUUUCCCUUUUGGCCAUUGGUAUGCUUCGUGUGGCUCUGUAAGUAU___U
.....(((((...........((.......))(((((((...((((((((....))))))))..)))...............((.....)).....)))))))))............... (-15.09 = -13.67 +  -1.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:28 2006