Locus 7483

Sequence ID 3L_DroMel_CAF1
Location 20,077,344 – 20,077,452
Length 108
Max. P 0.938773
window12165 window12166

overview

Window 5

Location 20,077,344 – 20,077,452
Length 108
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 87.02
Mean single sequence MFE -29.65
Consensus MFE -22.61
Energy contribution -23.18
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -1.89
Structure conservation index 0.76
SVM decision value 0.65
SVM RNA-class probability 0.811630
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20077344 108 + 23771897
UUCUUGAGUGUUUAAUGCACUCGGAAAAUG-CCGUCAAUGGAUUGGAGUUUUCCAACGAAGGAAACUCAUAAAGGUGCUCGGUGAGUCGUACUUUUCCCAAGGUACUUU
(((((((((((.....))))))(((((((.-(((((....)).))).))))))).....)))))((((((..((...))..)))))).(((((((....)))))))... ( -32.10)
>DroSec_CAF1 15203 99 + 1
UUCUUGAGUGUUUAAUGCACUCGGAAAAUA-CCGUCAUUGGAUUGGAGUUUCCCAACGAAGGAGACUCAUAAAGGUGCUCGGUGAGUCGUACUUUUCCCA---------
.....((((((.....))))))((((((((-(((.((((......((((((((.......)))))))).....))))..)))))........))))))..--------- ( -31.40)
>DroSim_CAF1 13769 99 + 1
UUCUUGAGUGUUUAAUGCACUCGGAAAAUA-CCGUCAAUGGAUUGGAGUUUCCCAACGAAGGAGACUCAUAAAGGUGCUCGGUGAGUCGAACUUUUCCCA---------
.....((((((.....))))))((((((((-(((((....)))..((((((((.......)))))))).....)))).((((....))))..))))))..--------- ( -29.50)
>DroYak_CAF1 16896 99 + 1
GUCUUGAGUGUUUAAUGCACUUAGAAAAUAACCGUCAAUGGCUUGAAGUUUCCCAUCGA-CGAGACUCAUAAAGGUGCACGGUGAGUCGUACAUUACUCA---------
.(((.((((((.....))))))))).......((((.((((...........)))).))-)).(((((((...(.....).)))))))............--------- ( -25.60)
>consensus
UUCUUGAGUGUUUAAUGCACUCGGAAAAUA_CCGUCAAUGGAUUGGAGUUUCCCAACGAAGGAGACUCAUAAAGGUGCUCGGUGAGUCGUACUUUUCCCA_________
.....((((((.....))))))(((((....((.((.((((...........)))).)).)).(((((((...(.....).))))))).....)))))........... (-22.61 = -23.18 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 20,077,344 – 20,077,452
Length 108
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 87.02
Mean single sequence MFE -28.16
Consensus MFE -21.01
Energy contribution -22.07
Covariance contribution 1.06
Combinations/Pair 1.10
Mean z-score -2.46
Structure conservation index 0.75
SVM decision value 1.27
SVM RNA-class probability 0.938773
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20077344 108 - 23771897
AAAGUACCUUGGGAAAAGUACGACUCACCGAGCACCUUUAUGAGUUUCCUUCGUUGGAAAACUCCAAUCCAUUGACGG-CAUUUUCCGAGUGCAUUAAACACUCAAGAA
...((((.((((((((.....((((((..(((...)))..)))))).((.(((.((((.........)))).))).))-..))))))))))))................ ( -24.20)
>DroSec_CAF1 15203 99 - 1
---------UGGGAAAAGUACGACUCACCGAGCACCUUUAUGAGUCUCCUUCGUUGGGAAACUCCAAUCCAAUGACGG-UAUUUUCCGAGUGCAUUAAACACUCAAGAA
---------..((((((....((((((..(((...)))..)))))).((.((((((((.........)))))))).))-..))))))(((((.......)))))..... ( -29.30)
>DroSim_CAF1 13769 99 - 1
---------UGGGAAAAGUUCGACUCACCGAGCACCUUUAUGAGUCUCCUUCGUUGGGAAACUCCAAUCCAUUGACGG-UAUUUUCCGAGUGCAUUAAACACUCAAGAA
---------..(((((((((((......)))))(((.....((((.((((.....)))).))))(((....)))..))-).))))))(((((.......)))))..... ( -28.80)
>DroYak_CAF1 16896 99 - 1
---------UGAGUAAUGUACGACUCACCGUGCACCUUUAUGAGUCUCG-UCGAUGGGAAACUUCAAGCCAUUGACGGUUAUUUUCUAAGUGCAUUAAACACUCAAGAC
---------((((((((((((((((((.............))))))(((-(((((((...........))))))))))...........)))))))....))))).... ( -30.32)
>consensus
_________UGGGAAAAGUACGACUCACCGAGCACCUUUAUGAGUCUCCUUCGUUGGGAAACUCCAAUCCAUUGACGG_UAUUUUCCGAGUGCAUUAAACACUCAAGAA
...........((((((....((((((..(((...)))..)))))).((.(((((((...........))))))).))...))))))(((((.......)))))..... (-21.01 = -22.07 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:20 2006