Locus 2591

Sequence ID 3R_DroMel_CAF1
Location 7,004,868 – 7,004,966
Length 98
Max. P 0.777687
window4221 window4222

overview

Window 1

Location 7,004,868 – 7,004,966
Length 98
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 81.49
Mean single sequence MFE -33.03
Consensus MFE -18.76
Energy contribution -19.73
Covariance contribution 0.98
Combinations/Pair 1.23
Mean z-score -2.53
Structure conservation index 0.57
SVM decision value 0.55
SVM RNA-class probability 0.777687
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7004868 98 + 27905053
CAUUUUUAUUGGCCAUUUGGCAAAGGCGUCGUGGC-AAACUUUGUCCC-UUAUUCUUGGCGUUGGU-----GUUUGCCCGCUGCUCUUGGCCAAUACUCAAGUGG
(((((.(((((((((...((((...(((....(((-((((.....(((-........)).).....-----))))))))))))))..)))))))))...))))). ( -33.70)
>DroPse_CAF1 4945 100 + 1
CAUUUUUAUUGGCCAUUUGGCAACGAAGCACUGGUGAAACUUUUUCUU-CCACUGC---CGCUGCCACAGCCACUG-CCACUGCUCUUGGCCAAUACUCAAGUGG
(((((.(((((((((..(((((.....(((.(((.(((.....)))..-))).)))---.((((...))))...))-))).......)))))))))...))))). ( -30.80)
>DroSec_CAF1 3926 100 + 1
CAUUUUUAUUGGCCAUUUGGCAAAGGCGUCGUGGC-AAACUUUUUCCC-UUAUUCUUGGCGUUGGU---GUGUUUGCCCGCUGCUCUUGGCCAAUACUCAAGUGG
(((((.(((((((((...((((...(((....(((-((((.((..(((-........)).)..)).---..))))))))))))))..)))))))))...))))). ( -33.00)
>DroEre_CAF1 3919 98 + 1
CAUUUUUAUUGGCCAUUUGGCAAAGGCGUCGUGGC-AAACUUUGUCCC-UCAUUGUUGGCGUUGGU-----UUUUGCCCGCUGCUCUUGGCCAAUAAUCAAGUGG
(((((((((((((((...((((...(((....(((-(((..(((.(((-........)).).))).-----.)))))))))))))..))))))))))..))))). ( -31.50)
>DroYak_CAF1 4090 98 + 1
CAUUUUUAUUGGCCAUUUGGCAGAGGCGUCGUGGC-AAACUUUGUCCC-UCAUUGUUGGCGUUGGU-----GUUUGUCCGCUGCUCUUGGCCAAUAAUCAAGUGG
(((((((((((((((...(((((......((.(((-((((.....(((-........)).).....-----))))))))))))))..))))))))))..))))). ( -33.30)
>DroAna_CAF1 3680 97 + 1
CAUUUUUAUUGGCCAUUUGGCAACGACGCUGAGGG-AAACUUUGCGCCAGCAUUGUGGGAGUUGCU-----GCU--GCCACUGGACUUGGCCAAUACUCAAGUGG
(((((.(((((((((.(((....)))(((.((((.-...)))))))(((.....((((.(((....-----)))--.)))))))...)))))))))...))))). ( -35.90)
>consensus
CAUUUUUAUUGGCCAUUUGGCAAAGGCGUCGUGGC_AAACUUUGUCCC_UCAUUGUUGGCGUUGGU_____GUUUGCCCGCUGCUCUUGGCCAAUACUCAAGUGG
(((((.(((((((((...(((((((..((....))....)))))))...........((((..(((.........))))))).....)))))))))...))))). (-18.76 = -19.73 +   0.98)

alignment

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secondary structure

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dotplot

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Window 2

Location 7,004,868 – 7,004,966
Length 98
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 81.49
Mean single sequence MFE -29.56
Consensus MFE -16.10
Energy contribution -15.86
Covariance contribution -0.25
Combinations/Pair 1.25
Mean z-score -2.59
Structure conservation index 0.54
SVM decision value 0.49
SVM RNA-class probability 0.756125
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7004868 98 - 27905053
CCACUUGAGUAUUGGCCAAGAGCAGCGGGCAAAC-----ACCAACGCCAAGAAUAA-GGGACAAAGUUU-GCCACGACGCCUUUGCCAAAUGGCCAAUAAAAAUG
.........(((((((((((.((..(((((((((-----.....(.((........-))).....))))-))).))..))))........)))))))))...... ( -27.70)
>DroPse_CAF1 4945 100 - 1
CCACUUGAGUAUUGGCCAAGAGCAGUGG-CAGUGGCUGUGGCAGCG---GCAGUGG-AAGAAAAAGUUUCACCAGUGCUUCGUUGCCAAAUGGCCAAUAAAAAUG
.........(((((((((...(((((..-.....)))))(((((((---(((.(((-..(((.....))).))).)))..)))))))...)))))))))...... ( -38.30)
>DroSec_CAF1 3926 100 - 1
CCACUUGAGUAUUGGCCAAGAGCAGCGGGCAAACAC---ACCAACGCCAAGAAUAA-GGGAAAAAGUUU-GCCACGACGCCUUUGCCAAAUGGCCAAUAAAAAUG
.........(((((((((((.((..(((((((((..---.((..............-))......))))-))).))..))))........)))))))))...... ( -26.64)
>DroEre_CAF1 3919 98 - 1
CCACUUGAUUAUUGGCCAAGAGCAGCGGGCAAAA-----ACCAACGCCAACAAUGA-GGGACAAAGUUU-GCCACGACGCCUUUGCCAAAUGGCCAAUAAAAAUG
........((((((((((((.((..((((((((.-----.....(.((........-)))......)))-))).))..))))........))))))))))..... ( -26.70)
>DroYak_CAF1 4090 98 - 1
CCACUUGAUUAUUGGCCAAGAGCAGCGGACAAAC-----ACCAACGCCAACAAUGA-GGGACAAAGUUU-GCCACGACGCCUCUGCCAAAUGGCCAAUAAAAAUG
........((((((((((...((((.((.(((((-----.....(.((........-))).....))))-)........)).))))....))))))))))..... ( -24.50)
>DroAna_CAF1 3680 97 - 1
CCACUUGAGUAUUGGCCAAGUCCAGUGGC--AGC-----AGCAACUCCCACAAUGCUGGCGCAAAGUUU-CCCUCAGCGUCGUUGCCAAAUGGCCAAUAAAAAUG
.........(((((((((.......((((--(((-----((((..........))))(((((..((...-..))..))))))))))))..)))))))))...... ( -33.50)
>consensus
CCACUUGAGUAUUGGCCAAGAGCAGCGGGCAAAC_____ACCAACGCCAACAAUGA_GGGACAAAGUUU_GCCACGACGCCUUUGCCAAAUGGCCAAUAAAAAUG
.........(((((((((...((((.((............((................)).....(((.......))).)).))))....)))))))))...... (-16.10 = -15.86 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:01 2006