Locus 2016

Sequence ID 2L_DroMel_CAF1
Location 5,461,982 – 5,462,090
Length 108
Max. P 0.655601
window3244

overview

Window 4

Location 5,461,982 – 5,462,090
Length 108
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 79.17
Mean single sequence MFE -46.67
Consensus MFE -28.21
Energy contribution -28.52
Covariance contribution 0.31
Combinations/Pair 1.23
Mean z-score -1.65
Structure conservation index 0.60
SVM decision value 0.26
SVM RNA-class probability 0.655601
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5461982 108 - 22407834
GAGGACUCCCGACUGGAG---GCAUCUUCGCGAGCCAUGAUGGCGGCGAUGGAAAAGUCCGUCGCUGAGCCGGCGGCACUUUUGCUAGCCGUUGUUGUUGU---C--UGUCCAC-UG
..((((...((((....(---((.((.....)))))..((..(((((...(.((((((((((((......)))))).)))))).)..)))))..)))))).---.--.))))..-.. ( -44.40)
>DroPse_CAF1 97457 109 - 1
GAGGACUCCCGACUGGAGGAGGUUUCCUCGCGGGCCAUUAUCGCUGCAAUGGAGAAAUCCGUUGCCGAGCCGGCGGCACUUUUGCUGCCCGUCGUGGCAGU---C--G--CCAC-AG
((((((((((.....).))))...)))))((((((.....(((..((((((((....))))))))))))))(((((((....)))))))))).(((((...---.--)--))))-.. ( -51.90)
>DroGri_CAF1 127443 108 - 1
GAGGACUCGCGACUGGAG---GCAUCCUCGCGUGCCAUGAUUGCCGCUAUGGAGAAAUCCGUUGCGGAGCCGGCGGCACUUUUGCUAUUGGCUGUUGUUGU---U--UGUGUUG-UG
..((.(.(((((..(((.---...)))))))).))).......((((.(((((....))))).))))((((((..(((....)))..))))))........---.--.......-.. ( -41.20)
>DroWil_CAF1 123450 114 - 1
GAGGACUCCCGACUGGAG---GCAUCCUCGCGUGCCAUUAUGGCUGCUAUGGAGAAAUCCGUUGCCGAGCCGGCGGCACUUUUGCUGCCCGUUUGUGUUGUGGUCGCUGUGGAUGUG
.....((((.....))))---((((((.((((.(((((.((((((((.(((((....))))).))..))))(((((((....))))))).......)).)))))))).).)))))). ( -50.90)
>DroAna_CAF1 87241 102 - 1
GAGGACUCCCGACUGGAA---GCAUCCUCCCGGGCCAUGAUCGCCGCAAUGGAGAAGUCUGUUGCCGAGCCGGCGGCACUUUUGCUCGCCGGCGUUGUUGU---U--------G-UG
((.(((.((((...(((.---...)))...))))......(((..((((((((....)))))))))))((((((((((....))).)))))))))).))..---.--------.-.. ( -39.40)
>DroPer_CAF1 98148 109 - 1
GAGGACUCCCGACUGGAGGAGGUUUCCUCGCGGGCCAUUAUCGCCGCAAUGGAGAAAUCCGUUGCCGAGCCGGCGGCACUUUUGCUGCCCGUCGUGGCAGU---U--G--CCAC-AG
((((((((((.....).))))...)))))((((((.....(((..((((((((....))))))))))))))(((((((....)))))))))).(((((...---.--)--))))-.. ( -52.20)
>consensus
GAGGACUCCCGACUGGAG___GCAUCCUCGCGGGCCAUGAUCGCCGCAAUGGAGAAAUCCGUUGCCGAGCCGGCGGCACUUUUGCUGCCCGUCGUUGUUGU___C__U__CCAC_UG
(((((((((.....))))......)))))(((.(((....(((..((((((((....)))))))))))...)))((((....))))...)))......................... (-28.21 = -28.52 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:10 2006