Locus 2304

Sequence ID 2L_DroMel_CAF1
Location 6,232,665 – 6,232,776
Length 111
Max. P 0.987187
window3701 window3702

overview

Window 1

Location 6,232,665 – 6,232,776
Length 111
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 96.95
Mean single sequence MFE -38.86
Consensus MFE -35.88
Energy contribution -36.08
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.78
Structure conservation index 0.92
SVM decision value 2.07
SVM RNA-class probability 0.987187
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6232665 111 + 22407834
CCAAUACUCCACUAAUUGCUAGGCUUAAUAGGCAUUAAAAGCAAAUGCCCGGCAGCAGCAACAACGGCGCCCGUGUCCUGGGACAGGACAAUGCCCAGCUGGGCCA-GCGCU
...............(((((..(((.....((((((.......)))))).)))...)))))....(((((...(((((((...)))))))..((((....))))..-))))) ( -36.60)
>DroSec_CAF1 69215 111 + 1
CCAAUACUUCACUAAUUGCUAGGCUUAAUAGGCAUUAAAAGCAAAUGCCCGGCAGCGGCAACAACGGUGCCCGUGUCCUGGGACAGGACAAUGCCCAGCUGGGCCC-GCGCU
...............(((((..(((.....)))......)))))..(((((((.(.((((...((((...))))((((((...))))))..))))).)))))))..-..... ( -37.40)
>DroSim_CAF1 82335 112 + 1
CCAAUACUUCACUAAUUGCUAGGCUUAAUAGGCAUUAAAAGCAAAUGCCCGGCAGCGGCAACAACGGCGCCCGUGUCCUGGGACAGGACAAUGCCCAGCUGGGCCCUGCGCU
.................((...(((.....))).......(((...(((((((.(.((((...((((...))))((((((...))))))..))))).)))))))..))))). ( -39.00)
>DroEre_CAF1 66733 111 + 1
CCAAUACUUCACUAAUUGCUAGGCUUAAUAGGCAUUAAAAGCAAAUGCCCGGCAGCGGCAACAACGGCGGCCGUGUCCUGGGACAGGACAAUGCCCAGCUGGGCCG-GCGGU
..............((((((.((((((...((((((.......)))))).(((((((((..(....)..)))))((((((...))))))..))))....)))))))-))))) ( -41.30)
>DroYak_CAF1 80779 111 + 1
CCAAUACUUCACUAAUUGCUAGGCUUAAUAGGCAUUAAAAGCAAAUGCCCGGCAGCGGCAACAACGGCGCCCGUGUCCUGGGACAGGACAAUGCCCAGCUGGGCCA-GCGGU
..............((((((.((((.....((((((.......))))))...(((((....)...((.((...(((((((...)))))))..)))).)))))))))-))))) ( -40.00)
>consensus
CCAAUACUUCACUAAUUGCUAGGCUUAAUAGGCAUUAAAAGCAAAUGCCCGGCAGCGGCAACAACGGCGCCCGUGUCCUGGGACAGGACAAUGCCCAGCUGGGCCA_GCGCU
...............(((((..(((.....)))......)))))..(((((((.(.((((...((((...))))((((((...))))))..))))).)))))))........ (-35.88 = -36.08 +   0.20)

alignment

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secondary structure

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dotplot

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Window 2

Location 6,232,665 – 6,232,776
Length 111
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 96.95
Mean single sequence MFE -41.60
Consensus MFE -35.90
Energy contribution -36.30
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.86
SVM decision value 0.06
SVM RNA-class probability 0.565322
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6232665 111 - 22407834
AGCGC-UGGCCCAGCUGGGCAUUGUCCUGUCCCAGGACACGGGCGCCGUUGUUGCUGCUGCCGGGCAUUUGCUUUUAAUGCCUAUUAAGCCUAGCAAUUAGUGGAGUAUUGG
..(((-(((....(((((((..(((((((...)))))))..(((((.((....)).)).)))(((((((.......))))))).....)))))))..))))))......... ( -42.20)
>DroSec_CAF1 69215 111 - 1
AGCGC-GGGCCCAGCUGGGCAUUGUCCUGUCCCAGGACACGGGCACCGUUGUUGCCGCUGCCGGGCAUUUGCUUUUAAUGCCUAUUAAGCCUAGCAAUUAGUGAAGUAUUGG
.((((-((((((....))))..(((((((((....)))).))))))))).(((((.(((...(((((((.......)))))))....)))...)))))..)).......... ( -40.60)
>DroSim_CAF1 82335 112 - 1
AGCGCAGGGCCCAGCUGGGCAUUGUCCUGUCCCAGGACACGGGCGCCGUUGUUGCCGCUGCCGGGCAUUUGCUUUUAAUGCCUAUUAAGCCUAGCAAUUAGUGAAGUAUUGG
..(((.(....).(((((((..(((((((...)))))))..(((((.((....)).)).)))(((((((.......))))))).....))))))).....)))......... ( -40.50)
>DroEre_CAF1 66733 111 - 1
ACCGC-CGGCCCAGCUGGGCAUUGUCCUGUCCCAGGACACGGCCGCCGUUGUUGCCGCUGCCGGGCAUUUGCUUUUAAUGCCUAUUAAGCCUAGCAAUUAGUGAAGUAUUGG
.((((-((((((....))))..(((((((...)))))))))))(((....(((((.(((...(((((((.......)))))))....)))...)))))..))).......)) ( -42.60)
>DroYak_CAF1 80779 111 - 1
ACCGC-UGGCCCAGCUGGGCAUUGUCCUGUCCCAGGACACGGGCGCCGUUGUUGCCGCUGCCGGGCAUUUGCUUUUAAUGCCUAUUAAGCCUAGCAAUUAGUGAAGUAUUGG
..(((-(((....(((((((..(((((((...)))))))..(((((.((....)).)).)))(((((((.......))))))).....)))))))..))))))......... ( -42.10)
>consensus
AGCGC_GGGCCCAGCUGGGCAUUGUCCUGUCCCAGGACACGGGCGCCGUUGUUGCCGCUGCCGGGCAUUUGCUUUUAAUGCCUAUUAAGCCUAGCAAUUAGUGAAGUAUUGG
.............(((((((..(((((((...)))))))..(((((.((....)).)).)))(((((((.......))))))).....)))))))................. (-35.90 = -36.30 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:34 2006