Locus 257

Sequence ID 3R_DroMel_CAF1
Location 996,622 – 996,727
Length 105
Max. P 0.757399
window446 window447

overview

Window 6

Location 996,622 – 996,727
Length 105
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 82.06
Mean single sequence MFE -33.04
Consensus MFE -23.01
Energy contribution -24.58
Covariance contribution 1.57
Combinations/Pair 1.18
Mean z-score -1.86
Structure conservation index 0.70
SVM decision value 0.39
SVM RNA-class probability 0.715444
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 996622 105 + 27905053
UCUGCUGAACUGUGAAGCUGGGAAAAGGAUAGGCGGCGGAGGAGACUGGGCUAAUCACUUUUUGAUUUAUUCGCCAUGGCCGCCGCAUCCUGAAACUUUUCCCCA
...(((.........))).((((((((..((((((((((((....)).(((.(((((.....))))).....)))....)))))))...)))...)))))))).. ( -37.20)
>DroSec_CAF1 41468 97 + 1
--------GCUGUGAAGCUGGGAAAAGGAUAGGCGGCGGAGAAGACUGGGCUAAUCACUUUUUGAUUUAUUCGCCAUGGCCGCCGCAUCCUGAAACUUUUCCCCA
--------(((....))).((((((((..((((((((((.........(((.(((((.....))))).....)))....)))))))...)))...)))))))).. ( -34.02)
>DroSim_CAF1 43858 97 + 1
--------GCUGUGAAGCUGGGAAAAGGAUAGGCGGCGGAGGAGACUGGGCUAAUCACUUUUUGAUUUAUUCGCCAUGGCCGCCGCAUCCUGAAACUUUUCCCCA
--------(((....))).((((((((..((((((((((((....)).(((.(((((.....))))).....)))....)))))))...)))...)))))))).. ( -38.00)
>DroEre_CAF1 43734 97 + 1
--------GCUGUGAGGCUGGCAAAGGGAUAGGCGGCACAGGAGACUGGGCUAAUCACUUUUUGAUUUAUUCGCCGUGGCUGCCGCAUCCUGAAACUUUUCCCCA
--------(((........)))...(((((.((((((.(((....)))(((.(((((.....))))).....)))...))))))..))))).............. ( -32.30)
>DroYak_CAF1 46058 94 + 1
-----------GUGAAGGUGGGAAAAGGAUAGGCGGAAGAGGAGACUGGGCUAAUCACUUUUUGAUUUAUUCGCCAUGGCCGCCGCUGCCUAAAACUUUUCCCCA
-----------......(.((((((((..(((((((...((....)).(((.(((((.....))))).....((....)).))).)))))))...))))))))). ( -33.90)
>DroAna_CAF1 41367 83 + 1
--------GU-GG-GUGGUGGAGAAAGGACCACC---------GACCGGGCUAAUCACUUUUUGAUUUAUUUCCCAUAGC---CGCGUCCUGAAACUUUUACCCA
--------.(-((-(((((((........)))))---------(((..(((((((((.....))))..........))))---)..)))...........))))) ( -22.80)
>consensus
________GCUGUGAAGCUGGGAAAAGGAUAGGCGGCGGAGGAGACUGGGCUAAUCACUUUUUGAUUUAUUCGCCAUGGCCGCCGCAUCCUGAAACUUUUCCCCA
...................((((((((..((((((((((((....)).(((.(((((.....))))).....)))....))))))...))))...)))))))).. (-23.01 = -24.58 +   1.57)

alignment

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secondary structure

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dotplot

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Window 7

Location 996,622 – 996,727
Length 105
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 82.06
Mean single sequence MFE -30.17
Consensus MFE -21.96
Energy contribution -23.31
Covariance contribution 1.35
Combinations/Pair 1.15
Mean z-score -1.88
Structure conservation index 0.73
SVM decision value 0.49
SVM RNA-class probability 0.757399
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 996622 105 - 27905053
UGGGGAAAAGUUUCAGGAUGCGGCGGCCAUGGCGAAUAAAUCAAAAAGUGAUUAGCCCAGUCUCCUCCGCCGCCUAUCCUUUUCCCAGCUUCACAGUUCAGCAGA
(((((((.......((((((.((((((...((.((...(((((.....))))).......)).))...)))))))))))))))))))(((.........)))... ( -33.01)
>DroSec_CAF1 41468 97 - 1
UGGGGAAAAGUUUCAGGAUGCGGCGGCCAUGGCGAAUAAAUCAAAAAGUGAUUAGCCCAGUCUUCUCCGCCGCCUAUCCUUUUCCCAGCUUCACAGC--------
(((((((.......((((((((((((....(((.....(((((.....)))))......)))....)))))))..))))))))))))(((....)))-------- ( -32.01)
>DroSim_CAF1 43858 97 - 1
UGGGGAAAAGUUUCAGGAUGCGGCGGCCAUGGCGAAUAAAUCAAAAAGUGAUUAGCCCAGUCUCCUCCGCCGCCUAUCCUUUUCCCAGCUUCACAGC--------
(((((((.......((((((.((((((...((.((...(((((.....))))).......)).))...)))))))))))))))))))(((....)))-------- ( -32.11)
>DroEre_CAF1 43734 97 - 1
UGGGGAAAAGUUUCAGGAUGCGGCAGCCACGGCGAAUAAAUCAAAAAGUGAUUAGCCCAGUCUCCUGUGCCGCCUAUCCCUUUGCCAGCCUCACAGC--------
(((((....((....((((((((((.....(((.....(((((.....))))).)))(((....)))))))))..))))....))...)))))....-------- ( -27.50)
>DroYak_CAF1 46058 94 - 1
UGGGGAAAAGUUUUAGGCAGCGGCGGCCAUGGCGAAUAAAUCAAAAAGUGAUUAGCCCAGUCUCCUCUUCCGCCUAUCCUUUUCCCACCUUCAC-----------
..((((((((...(((((((.((.(((...(((.....(((((.....))))).)))..))).)).))...)))))..))))))))........----------- ( -31.00)
>DroAna_CAF1 41367 83 - 1
UGGGUAAAAGUUUCAGGACGCG---GCUAUGGGAAAUAAAUCAAAAAGUGAUUAGCCCGGUC---------GGUGGUCCUUUCUCCACCAC-CC-AC--------
(((((..........(..((.(---((((..........((((.....)))))))))))..)---------(((((........)))))))-))-).-------- ( -25.40)
>consensus
UGGGGAAAAGUUUCAGGAUGCGGCGGCCAUGGCGAAUAAAUCAAAAAGUGAUUAGCCCAGUCUCCUCCGCCGCCUAUCCUUUUCCCAGCUUCACAGC________
(((((((.......((((((((((((....(((.....(((((.....)))))......)))....)))))))..)))))))))))).................. (-21.96 = -23.31 +   1.35)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:48 2006