Locus 434

Sequence ID 3L_DroMel_CAF1
Location 1,268,500 – 1,268,651
Length 151
Max. P 0.624786
window631 window632

overview

Window 1

Location 1,268,500 – 1,268,611
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.75
Mean single sequence MFE -37.71
Consensus MFE -26.43
Energy contribution -26.85
Covariance contribution 0.42
Combinations/Pair 1.16
Mean z-score -0.96
Structure conservation index 0.70
SVM decision value 0.08
SVM RNA-class probability 0.574637
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1268500 111 + 23771897
CUCCACGAAUCACCGCC------GGG---GGGCAGCUGCUCAUCCGCCUCCGUUAUCAACGGCAGCGGCGCCUCGCGCAUCUUCCAGAUACUCUACCGCAACGAGGAGGUUCCGCUGCGC
..............(.(------(((---((((....)))).)))).)..(((.....)))(((((((.(((((....(((.....))).(((.........)))))))).))))))).. ( -36.80)
>DroVir_CAF1 25929 103 + 1
--------AG---UGCC------GGGCAUCGGCAGCUGCACAUCCGCAUCCAUAAUCAAUGGCAGCGGCGCCUCGCGUAUAUUCCAGAUACUCUAUCGCAACGAGGAGGUGCCGCUGCGC
--------..---((((------(.....)))))(((((......))).............(((((((((((((.(((.......((.....))......)))..))))))))))))))) ( -40.82)
>DroGri_CAF1 36314 103 + 1
--------AA---CGCU------GGGCAGCGGCAGUUGUACAUCCGCAUCCAUUAUAAAUGGCAGUGGCGCCUCACGCAUAUUUCAGAUACUCUACCGGAACGAGGAGGUGCCACUGCGC
--------..---.(((------(((..((((..(.....)..)))).)))).........(((((((((((((.....((((...))))(((.........)))))))))))))))))) ( -36.60)
>DroWil_CAF1 34595 108 + 1
---------UCAUCGUCAGGACUGCC---AGGUAGCUGUACAUCCGCCUCUAUUAUCAAUGGUAGCGGCGCCUCACGUAUCUUUCAGAUACUCUAUCGCAACGAGGAAGUGCCCCUUCGU
---------....((..(((.((((.---..))))..((((.((((((.((((((....)))))).)))((.....(((((.....)))))......)).....))).)))).))).)). ( -27.10)
>DroMoj_CAF1 27107 103 + 1
--------CG---UGCC------GGGCAUUGGCAGCUGCACAUCCGCCACCAUAAUCAAUGGCAGCGGCGCCUCACGCAUCUUUCAGAUACUCUAUCGCAACGAGGAGGUGCCGCUGCGC
--------.(---((.(------(((...((((....)).)))))).)))...........(((((((((((((....(((.....))).(((.........)))))))))))))))).. ( -41.20)
>DroAna_CAF1 24141 111 + 1
CUGGGCGGGUCCUCCCU------GCC---GGGCAGCUGCUCAUCCGCCUCGGUUAUCAACGGGAGCGGCGCCUCGCGCAUCUUUCAGAUACUCUACCGCAACGAGGAGGUUCCGCUGCGC
...(((((..((((((.------(((---((((.(((((((..(((.............))))))))))))).)).))(((.....))).............).)))))..))))).... ( -43.72)
>consensus
________AU___CGCC______GGG___CGGCAGCUGCACAUCCGCCUCCAUUAUCAAUGGCAGCGGCGCCUCACGCAUCUUUCAGAUACUCUACCGCAACGAGGAGGUGCCGCUGCGC
...............................(((((.........((..((((.....))))..))((((((((....(((.....))).(((.........)))))))))))))))).. (-26.43 = -26.85 +   0.42)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 1,268,531 – 1,268,651
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.11
Mean single sequence MFE -40.45
Consensus MFE -31.12
Energy contribution -31.93
Covariance contribution 0.81
Combinations/Pair 1.24
Mean z-score -1.84
Structure conservation index 0.77
SVM decision value 0.19
SVM RNA-class probability 0.624786
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1268531 120 + 23771897
CAUCCGCCUCCGUUAUCAACGGCAGCGGCGCCUCGCGCAUCUUCCAGAUACUCUACCGCAACGAGGAGGUUCCGCUGCGCGACAUCAUCCACUUCAGGAGCCAUCUGCUAGGUGAGUGCA
((..(((((.(((.....)))(((((((.(((((....(((.....))).(((.........)))))))).)))))))(((......(((......)))......))).)))))..)).. ( -39.30)
>DroVir_CAF1 25952 120 + 1
CAUCCGCAUCCAUAAUCAAUGGCAGCGGCGCCUCGCGUAUAUUCCAGAUACUCUAUCGCAACGAGGAGGUGCCGCUGCGCGAUGUCAUACACUUUCGCAGUCAUCUGUUGGGUGAGUAGA
((((.((...(((.....)))(((((((((((((.(((.......((.....))......)))..))))))))))))))))))).....(((((..((((....)))).)))))...... ( -44.42)
>DroPse_CAF1 31109 110 + 1
----------CGUAAUCAAUGGAAGCGGCGCCUCGCGUAUCUUUCAGAUACUCUACCGCAACGAGGAGGUGCCCCUGCGCGAUGUCAUCCACUUUCGCAGCCAUUUACUGGGUGAGUGGC
----------...........(.((.((((((((..(((((.....))))).....((...))..)))))))).)).)((((.((.....))..)))).(((((((((...))))))))) ( -35.10)
>DroGri_CAF1 36337 120 + 1
CAUCCGCAUCCAUUAUAAAUGGCAGUGGCGCCUCACGCAUAUUUCAGAUACUCUACCGGAACGAGGAGGUGCCACUGCGCGAUGUCAUCCACUUUCGCAGUCAUCUGCUGGGUGAGUAAA
((((.((...(((.....)))(((((((((((((.....((((...))))(((.........))))))))))))))))))))))(((((((.....((((....)))))))))))..... ( -45.60)
>DroWil_CAF1 34623 120 + 1
CAUCCGCCUCUAUUAUCAAUGGUAGCGGCGCCUCACGUAUCUUUCAGAUACUCUAUCGCAACGAGGAAGUGCCCCUUCGUGAUGUCAUACACUUUCGCAGCCAUUUGCUAGGUGAGUACA
....((((.((((((....)))))).)))).((((((((((.....)))))......((((.((((........))))((((.((.....))..))))......))))...))))).... ( -31.70)
>DroMoj_CAF1 27130 120 + 1
CAUCCGCCACCAUAAUCAAUGGCAGCGGCGCCUCACGCAUCUUUCAGAUACUCUAUCGCAACGAGGAGGUGCCGCUGCGCGAUGUCAUACACUUCCGCAGCCAUCUGCUGGGUGAGUAUU
((((.((...(((.....)))(((((((((((((....(((.....))).(((.........))))))))))))))))))))))......(((..(.((((.....)))).)..)))... ( -46.60)
>consensus
CAUCCGCCUCCAUAAUCAAUGGCAGCGGCGCCUCACGCAUCUUUCAGAUACUCUACCGCAACGAGGAGGUGCCGCUGCGCGAUGUCAUACACUUUCGCAGCCAUCUGCUGGGUGAGUACA
....(((...(((.....)))(((((((((((((....(((.....))).(((.........)))))))))))))))))))........(((((..((((....)))).)))))...... (-31.12 = -31.93 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:43 2006