Locus 925

Sequence ID 2R_DroMel_CAF1
Location 4,065,523 – 4,065,683
Length 160
Max. P 0.944027
window1635 window1636

overview

Window 5

Location 4,065,523 – 4,065,643
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.69
Mean single sequence MFE -36.50
Consensus MFE -30.42
Energy contribution -31.42
Covariance contribution 1.00
Combinations/Pair 1.21
Mean z-score -2.13
Structure conservation index 0.83
SVM decision value 1.28
SVM RNA-class probability 0.939654
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4065523 120 - 20766785
ACAUUGAGCUGUAGGACGAUGCGUUUUAAUGCGGGAAAAUUGCAUUUAUCCGCGUUGUUUUAGCCGCUUUGAUUAAUCUUUAGUUUGCACCACUGUCGGCUAAAGCGGCAAAAGCAUUCG
.......(((.((((((((((((..(.(((((((.....))))))).)..))))))))))))(((((...((....))((((((..(((....)))..)))))))))))...)))..... ( -40.20)
>DroSec_CAF1 48118 120 - 1
GCAUUGAGCUGUAAGACGAUGCGCCUUAAUGCGGGAAAAUUGCAUUUAUCCGCAUUGUUUUAGCCGCUUUGAUUAAUCUUUAGUUUGCAACGCUGUCGGCUAAAACGGCAAAAGCGUUCG
.....((((..((((((((((((....(((((((.....)))))))....))))))))))))((((....((....))((((((..(((....)))..)))))).))))......)))). ( -37.50)
>DroSim_CAF1 55711 120 - 1
GCAUUGAGCUGUAAGACGAUGCGCCUUAAUGCGGGAAAAUUGCAUUUAUCCGCAUUGUUUUAGCCGCUUUGAUUAAUCUUUAGUUUGCAGCGCUGUCGGCUAAAGUGGAAAAAGUGUUCG
.....((((..((((((((((((....(((((((.....)))))))....))))))))))))...(((((..((...(((((((..(((....)))..)))))))..)).))))))))). ( -38.50)
>DroEre_CAF1 49418 116 - 1
GAAUAGAGCUGUAAGUCAAUGCGCUUUAA-GCGAGAAACUUGCAUUUAUCCGCGUUGUUUAAGCCAUUUUAAUGUAUCUUUAGCUUGCAGCACUGUUGGCUC---CAGCAAAAGCGUUUG
.(((((.((((((((((((((((....((-(((((...))))).))....))))))).......(((....)))........))))))))).))))).(((.---.......)))..... ( -29.80)
>consensus
GCAUUGAGCUGUAAGACGAUGCGCCUUAAUGCGGGAAAAUUGCAUUUAUCCGCAUUGUUUUAGCCGCUUUGAUUAAUCUUUAGUUUGCAGCACUGUCGGCUAAAGCGGCAAAAGCGUUCG
.....((((..((((((((((((....(((((((.....)))))))....))))))))))))...(((((.......(((((((..(((....)))..))))))).....))))))))). (-30.42 = -31.42 +   1.00) 

alignment

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secondary structure

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dotplot

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Window 6

Location 4,065,563 – 4,065,683
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 71.86
Mean single sequence MFE -30.59
Consensus MFE -17.82
Energy contribution -19.46
Covariance contribution 1.64
Combinations/Pair 1.25
Mean z-score -1.90
Structure conservation index 0.58
SVM decision value 1.34
SVM RNA-class probability 0.944027
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4065563 120 - 20766785
UGUCCGUCCCAUGGUGCCCAAUGGCCACCAAAUCCAGAUCACAUUGAGCUGUAGGACGAUGCGUUUUAAUGCGGGAAAAUUGCAUUUAUCCGCGUUGUUUUAGCCGCUUUGAUUAAUCUU
...........(((((((....)).)))))......(((((....((((.(((((((((((((..(.(((((((.....))))))).)..))))))))))).)).)))))))))...... ( -36.30)
>DroSec_CAF1 48158 116 - 1
UGU----CCCAUGGUGGCCAAUGGCCAUCAAAUCCAGAUCGCAUUGAGCUGUAAGACGAUGCGCCUUAAUGCGGGAAAAUUGCAUUUAUCCGCAUUGUUUUAGCCGCUUUGAUUAAUCUU
...----....((((((((...))))))))......(((((....((((.(((((((((((((....(((((((.....)))))))....))))))))))).)).)))))))))...... ( -39.30)
>DroSim_CAF1 55751 116 - 1
UGU----CCCAUGGUGGCCAAUGGCCAUCAAAUCCAGAUCGCAUUGAGCUGUAAGACGAUGCGCCUUAAUGCGGGAAAAUUGCAUUUAUCCGCAUUGUUUUAGCCGCUUUGAUUAAUCUU
...----....((((((((...))))))))......(((((....((((.(((((((((((((....(((((((.....)))))))....))))))))))).)).)))))))))...... ( -39.30)
>DroEre_CAF1 49455 96 - 1
-----------------------GGCACUAGAACCAAAUCGAAUAGAGCUGUAAGUCAAUGCGCUUUAA-GCGAGAAACUUGCAUUUAUCCGCGUUGUUUAAGCCAUUUUAAUGUAUCUU
-----------------------(((............(((..((((((.(((......))))))))).-.))).((((.(((........)))..))))..)))............... ( -19.40)
>DroYak_CAF1 52257 99 - 1
CGU----GCCA-------CAGUGGCCAUUAAGUCAUGAUCAAUUUGAACUGUAAGGCGGUGUGCUUUAAUACCAAAAACUUACAUUUAUUCCCAUAGUUUUAGCCAUUUU----------
...----...(-------(((((((......)))....((.....)))))))..((((((((......))))).((((((...............)))))).))).....---------- ( -18.66)
>consensus
UGU____CCCAUGGUG_CCAAUGGCCAUCAAAUCCAGAUCGCAUUGAGCUGUAAGACGAUGCGCUUUAAUGCGGGAAAAUUGCAUUUAUCCGCAUUGUUUUAGCCGCUUUGAUUAAUCUU
.....................((((.........(((.((.....)).)))((((((((((((....(((((((.....)))))))....)))))))))))))))).............. (-17.82 = -19.46 +   1.64) 

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:35 2006