Locus 3377

Sequence ID X_DroMel_CAF1
Location 8,996,725 – 8,996,845
Length 120
Max. P 0.704722
window5530

overview

Window 0

Location 8,996,725 – 8,996,845
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.70
Mean single sequence MFE -56.90
Consensus MFE -41.83
Energy contribution -45.83
Covariance contribution 4.00
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.74
SVM decision value 0.36
SVM RNA-class probability 0.704722
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8996725 120 - 22224390
UGCCGCUGGCGGAGCUACUCCCCCAGCUACUGCGGCCUCGCCCAGCGGUGCUCCUCCAGCUGGUCCAGGUGGUGCUCCUGGUCCCGCUCCUGCCCCGGGCGUGGGAUACACUCCGGCUCC
.((((((((.(((((..........((..(((.(((...))))))..))))))).))))).((.(((((.......)))))((((((.((((...)))).))))))......)))))... ( -54.80)
>DroSec_CAF1 8497 117 - 1
UGCCGGUGGCGGCGCUACUCCCCCAGCUACGGCGGCCUCGCCCAGCGUUGCUCCUCCAGCUG---CCGGUGGUGCUCCUGGUCCCGCUCCUGCCCCGGGCGUGGGAUACACUCCGGCUCC
.(((((.((.(((((((((....(((((..((.(((..(((...)))..))).))..)))))---..)))))))))))..(((((((.((((...)))).))))))).....)))))... ( -54.30)
>DroEre_CAF1 8654 114 - 1
UGAAGGGGGCGGAGG---UCCACCAGUUACUGCUGCCUCGCCCAGCGGUGCUCCUCCAGCUG---CCGGAGGUGCUCCUGGUCCCGCUCCUGCACCGGGAGUGGGAUACACACCGCCUCC
....((((((((...---....((((..(((((((.......)))))))((.(((((.....---..))))).))..))))(((((((((((...)))))))))))......)))))))) ( -60.30)
>DroYak_CAF1 10251 114 - 1
UGCCGGGGGCGGAGC---UCCCCCAGCUACUGCUGCCUCGCCCAGCGGUGCUCCUCCAGCUG---CCGGAGGUGCUCCUGGUCCCGCUCCUGCCCCGGCAGUGGGAUACACUCCGCCUCC
....((((((((((.---....((((..(((((((.......)))))))((.(((((.....---..))))).))..))))(((((((((......)).)))))))....)))))))))) ( -58.20)
>consensus
UGCCGGGGGCGGAGC___UCCCCCAGCUACUGCGGCCUCGCCCAGCGGUGCUCCUCCAGCUG___CCGGAGGUGCUCCUGGUCCCGCUCCUGCCCCGGGAGUGGGAUACACUCCGCCUCC
....((((((((((........((((..(((((((.......)))))))((.(((((..........))))).))..))))(((((((((((...)))))))))))....)))))))))) (-41.83 = -45.83 +   4.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:53 2006