Locus 918

Sequence ID 3L_DroMel_CAF1
Location 2,777,165 – 2,777,255
Length 90
Max. P 0.595662
window1413 window1414

overview

Window 3

Location 2,777,165 – 2,777,255
Length 90
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 75.03
Mean single sequence MFE -37.62
Consensus MFE -18.62
Energy contribution -17.57
Covariance contribution -1.05
Combinations/Pair 1.29
Mean z-score -1.73
Structure conservation index 0.49
SVM decision value 0.08
SVM RNA-class probability 0.571689
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2777165 90 + 23771897
UUG------UUGUGG---------UGGCACC---AC------UGGCGGAUCGACCGAGUGGUUGAUGGUCGUGUGCUGUCCUGGCUGGUGUUGCUGCAACUGCAGCUGCAACUG
..(------(((..(---------..(((((---((------((((((..((((((.........))))))....)))))..)).))))))..)..))))(((....))).... ( -37.60)
>DroSec_CAF1 22480 90 + 1
UUG------UUGUGG---------UUGCACC---AC------UGGCGGAUCGACCGAGUGGUUGAUGGUCGUGUGCUGUCCUGGCUGGUGUUGCUGCAACUGCAGCUGCAACUG
...------....((---------(((((.(---((------..((..(((((((....)))))))((.((.....)).))..))..)))..(((((....)))))))))))). ( -36.10)
>DroEre_CAF1 24105 90 + 1
UUG------UUGUGG---------UGGCACC---AC------CGGCGGAUCCACCGAGUGGUUGAUGGUCGUGUGCUGUCCUGGCUGGUGUUGCUGCAACUGCAGCUGCAACUG
..(------(((..(---------..(((((---((------(((.((...((((((.((.....)).))).)))...)))))).))))))..)..))))(((....))).... ( -37.60)
>DroWil_CAF1 12201 106 + 1
GCG--GUGGUCCUGGCCCAGCUCCUGGCACUGGUAC------UGGCUGCUGUUCUGCAUGACUGAUAGUUGUGUGCUGUCCUGGUUGAUGUUGUUGCAACUGCAAUUGCGACUG
(((--(..(((..(..((((.........))))..)------.)))..))))...((((((((((((((.....))))))..)))).)))).(((((((......))))))).. ( -32.50)
>DroYak_CAF1 21743 99 + 1
UUGUUGUUGUUGUGG---------UGGCACC---ACCA-C--UGGCGGAUCCACCGAGUGGCUGAUGGUCGUGUGCUGUCCUGGCUGGUGUUGCUGCAACUGCAGCUGCAACUG
..(((((.((((..(---------..(((((---((((-.--.(((((...((((((.((.....)).))).)))))))).))).))))))..)..)))).)))))........ ( -42.60)
>DroMoj_CAF1 12798 83 + 1
G-A------UGGU---------------G---------GCUGGGGCGGCUGCUCCGCAUGGCUGAUGGUCAUGUGCUGUCCUGGCUGAUGUUGCUGCAGCUGCAGCUGCAACUG
.-.------.(((---------------(---------((..(((((((......(((((((.....))))))))))))))..)))..(((.(((((....))))).)))))). ( -39.30)
>consensus
UUG______UUGUGG_________UGGCACC___AC______UGGCGGAUCCACCGAGUGGCUGAUGGUCGUGUGCUGUCCUGGCUGGUGUUGCUGCAACUGCAGCUGCAACUG
.............................................(((.....)))...((((((((((.....))))))..))))..(((.(((((....))))).))).... (-18.62 = -17.57 +  -1.05)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 2,777,165 – 2,777,255
Length 90
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 75.03
Mean single sequence MFE -27.30
Consensus MFE -14.09
Energy contribution -14.45
Covariance contribution 0.36
Combinations/Pair 1.35
Mean z-score -1.68
Structure conservation index 0.52
SVM decision value 0.13
SVM RNA-class probability 0.595662
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2777165 90 - 23771897
CAGUUGCAGCUGCAGUUGCAGCAACACCAGCCAGGACAGCACACGACCAUCAACCACUCGGUCGAUCCGCCA------GU---GGUGCCA---------CCACAA------CAA
..((((..(((((....)))))..(((((((.......))...(((((...........)))))........------.)---))))...---------...)))------).. ( -26.20)
>DroSec_CAF1 22480 90 - 1
CAGUUGCAGCUGCAGUUGCAGCAACACCAGCCAGGACAGCACACGACCAUCAACCACUCGGUCGAUCCGCCA------GU---GGUGCAA---------CCACAA------CAA
..(((((.(((((....)))))....((.....)).................((((((.(((......))))------))---)))))))---------).....------... ( -27.40)
>DroEre_CAF1 24105 90 - 1
CAGUUGCAGCUGCAGUUGCAGCAACACCAGCCAGGACAGCACACGACCAUCAACCACUCGGUGGAUCCGCCG------GU---GGUGCCA---------CCACAA------CAA
..((((..(((((....)))))...........((...((....(.....).(((((.(((((....)))))------))---)))))..---------)).)))------).. ( -31.10)
>DroWil_CAF1 12201 106 - 1
CAGUCGCAAUUGCAGUUGCAACAACAUCAACCAGGACAGCACACAACUAUCAGUCAUGCAGAACAGCAGCCA------GUACCAGUGCCAGGAGCUGGGCCAGGACCAC--CGC
..((.(((((....))))).))........((.((.((((................(((......))).((.------(((....)))..)).))))..)).)).....--... ( -21.50)
>DroYak_CAF1 21743 99 - 1
CAGUUGCAGCUGCAGUUGCAGCAACACCAGCCAGGACAGCACACGACCAUCAGCCACUCGGUGGAUCCGCCA--G-UGGU---GGUGCCA---------CCACAACAACAACAA
..((((..(((((....)))))...........((...((((..(.....).((((((.((((....)))))--)-))))---.))))..---------)).))))........ ( -34.20)
>DroMoj_CAF1 12798 83 - 1
CAGUUGCAGCUGCAGCUGCAGCAACAUCAGCCAGGACAGCACAUGACCAUCAGCCAUGCGGAGCAGCCGCCCCAGC---------C---------------ACCA------U-C
..((((((((....))))))))...........((...((.((((.........)))).((.((....)).)).))---------.---------------.)).------.-. ( -23.40)
>consensus
CAGUUGCAGCUGCAGUUGCAGCAACACCAGCCAGGACAGCACACGACCAUCAACCACUCGGUGGAUCCGCCA______GU___GGUGCCA_________CCACAA______CAA
..((((((((....))))))))..((((.....((...........))..........(((.....)))..............))))........................... (-14.09 = -14.45 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:25 2006