Locus 7260

Sequence ID 3L_DroMel_CAF1
Location 19,426,490 – 19,426,597
Length 107
Max. P 0.577982
window11804

overview

Window 4

Location 19,426,490 – 19,426,597
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.40
Mean single sequence MFE -28.05
Consensus MFE -16.56
Energy contribution -16.75
Covariance contribution 0.19
Combinations/Pair 1.08
Mean z-score -1.91
Structure conservation index 0.59
SVM decision value 0.09
SVM RNA-class probability 0.577982
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19426490 107 + 23771897
UCCAUUGGCAUC-GGCAGCGCC--------AUCUCAGUC---GCACAUCUCGCAUCUCAUCCACCGCCGGGCCAUGUAAAUUGCUCUGGCAAACAAAUCACGUAUA-CGCACACUGGCCG
.....((((...-(((...)))--------.........---((.......))............))))((((((((...((((....))))........((....-)).))).))))). ( -24.10)
>DroPse_CAF1 32911 115 + 1
UCCAUUGGCAUCUCCCAUCGCCAUCAGCCCAUCGCUGUGAUGCCACAUCUCUCAUC-CAUCCAUUGCCGGGGCAUGUAAAUUGCUCUGGCAAACAAAUCACGUACUCCGUAUACCA----
.....(((((((............((((.....)))).)))))))...........-......(((((((((((.......))))))))))).......(((.....)))......---- ( -31.72)
>DroEre_CAF1 61674 107 + 1
UCCAUUGGCAUC-GGCAGCGCC--------AUCUCUGUC---CUACAUCUCCCAUCUCAUCCAUCGCCGGGGCAUGUAAAUUGCUCUGGCAAACAAAUCACGUAUA-CGCACACUGGCCG
.(((.((((...-(((((....--------....)))))---.......................(((((((((.......)))))))))................-.)).)).)))... ( -27.30)
>DroYak_CAF1 105288 107 + 1
UCCAUUGACAUC-GGCAGCGCC--------AUCUCUGUC---GUACAUCUCGCAUCUCAUCCAUCGCCGGGGCAUGUAAAUUGCUCUGGCAAACAAAUCACGUAUA-CGCACACUGCACG
......((...(-(((((....--------....)))))---)....))..(((...........(((((((((.......)))))))))..........((....-)).....)))... ( -25.60)
>DroAna_CAF1 59737 108 + 1
UCCAUUGGCAUCUGGCAGCGCC--------AUCUCUGUC---CCGCAUCUCACAUCUCAUCCAUCGCCAGGGCAUGUAAAUUGCUCUGGCAAACAAAUCACGUAUA-CCUACACUGAGAG
......((((..((((...)))--------)....))))---............(((((......(((((((((.......)))))))))...........(((..-..)))..))))). ( -28.20)
>DroPer_CAF1 32942 115 + 1
UCCAUUGGCAUCUCCCAUCGCCAUCAGCCCAUCGCUGUGGUGCCACAUCUCUCAUC-CAUCCAUUGCCGGGGCAUGUAAAUUGCUCUGGCAAACAAAUCACGUACUCCGUAUACCA----
.....((((..........((((.((((.....))))))))))))...........-......(((((((((((.......))))))))))).......(((.....)))......---- ( -31.40)
>consensus
UCCAUUGGCAUC_GGCAGCGCC________AUCUCUGUC___CCACAUCUCGCAUCUCAUCCAUCGCCGGGGCAUGUAAAUUGCUCUGGCAAACAAAUCACGUAUA_CGCACACUG__CG
......(((..........)))...........................................(((((((((.......))))))))).............................. (-16.56 = -16.75 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:28 2006