Locus 80

Sequence ID 2R_DroMel_CAF1
Location 1,334,010 – 1,334,170
Length 160
Max. P 0.974704
window162 window163 window164 window165

overview

Window 2

Location 1,334,010 – 1,334,130
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 98.67
Mean single sequence MFE -30.26
Consensus MFE -29.06
Energy contribution -29.10
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.17
Structure conservation index 0.96
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1334010 120 + 20766785
CGUGGCUAGCUCGUUUGUUACGUUACUCGCUUAUGCGUGUACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAG
.(((((((((......)))).(((((.(((....))).)).((((..((.....))...))))..)))....)))))....((((((.....))))))(((......))).......... ( -30.60)
>DroSec_CAF1 52540 120 + 1
CGUGGCUAGCUCAUUUGUUACGUUACUCGCUUAUGCGUGUACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAG
.(((((((((......)))).(((((.(((....))).)).((((..((.....))...))))..)))....)))))....((((((.....))))))(((......))).......... ( -30.60)
>DroSim_CAF1 30695 120 + 1
CGUGGCUAGCUCGUUUGUUACCUUACUCGCUUAUGCGUGUACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAG
.(((((((((......))))........((....))((((.((((..((.....))...))))...))))..)))))....((((((.....))))))(((......))).......... ( -30.10)
>DroEre_CAF1 34034 120 + 1
CGUGGCCAGCUCGUUUGUUACGUUACUCGCUUAUGCGUGUACGGCUCGUAAAUAACAACGUCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAG
.(((((......(((..(((((.(((.(((....))).))).....)))))..)))...(((...)))....)))))....((((((.....))))))(((......))).......... ( -29.40)
>DroYak_CAF1 19887 120 + 1
CGUGGCUAGCUCGUUUGUUACGUUACUCGCUUAUGCGUGUACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAG
.(((((((((......)))).(((((.(((....))).)).((((..((.....))...))))..)))....)))))....((((((.....))))))(((......))).......... ( -30.60)
>consensus
CGUGGCUAGCUCGUUUGUUACGUUACUCGCUUAUGCGUGUACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAG
.(((((((((......))))........((....))((((.((((..((.....))...))))...))))..)))))....((((((.....))))))(((......))).......... (-29.06 = -29.10 +   0.04) 

alignment

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secondary structure

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Window 3

Location 1,334,010 – 1,334,130
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.67
Mean single sequence MFE -33.76
Consensus MFE -33.48
Energy contribution -33.52
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.64
Structure conservation index 0.99
SVM decision value 1.74
SVM RNA-class probability 0.974704
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1334010 120 - 20766785
CUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGUACACGCAUAAGCGAGUAACGUAACAAACGAGCUAGCCACG
..(((....)))..........((((((.....))))))....(((((((((((...((((.((((.....))))))))...)))))).(((..((..........))..))).))))). ( -35.20)
>DroSec_CAF1 52540 120 - 1
CUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGUACACGCAUAAGCGAGUAACGUAACAAAUGAGCUAGCCACG
..(((....)))..........((((((.....))))))....(((((((((((...((((.((((.....))))))))...)))))).(((..((..........))..))).))))). ( -33.70)
>DroSim_CAF1 30695 120 - 1
CUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGUACACGCAUAAGCGAGUAAGGUAACAAACGAGCUAGCCACG
..(((....)))..........((((((.....))))))....(((((((((((...((((.((((.....))))))))...)))))).(((..((..(....)..))..))).))))). ( -36.00)
>DroEre_CAF1 34034 120 - 1
CUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGACGUUGUUAUUUACGAGCCGUACACGCAUAAGCGAGUAACGUAACAAACGAGCUGGCCACG
..((......((((((((((((((((((.....)))))...((((((((...(((...)))..))))))))...)))(((((.(((....))).)).)))))))))..))))..)).... ( -28.70)
>DroYak_CAF1 19887 120 - 1
CUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGUACACGCAUAAGCGAGUAACGUAACAAACGAGCUAGCCACG
..(((....)))..........((((((.....))))))....(((((((((((...((((.((((.....))))))))...)))))).(((..((..........))..))).))))). ( -35.20)
>consensus
CUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGUACACGCAUAAGCGAGUAACGUAACAAACGAGCUAGCCACG
..(((....)))..........((((((.....))))))....(((((((((((...((((.((((.....))))))))...)))))).(((..((..........))..))).))))). (-33.48 = -33.52 +   0.04) 

alignment

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secondary structure

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Window 4

Location 1,334,050 – 1,334,170
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 99.00
Mean single sequence MFE -23.60
Consensus MFE -22.92
Energy contribution -22.76
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.61
Structure conservation index 0.97
SVM decision value 1.40
SVM RNA-class probability 0.950361
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1334050 120 + 20766785
ACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAGCAGGUCGACAUUAUUAUCACACACACGAUAAACUAAGAGA
.((((..((.....))...))))..(((...(((.......((((((.....))))))(((......))).........))).))).......(((((........)))))......... ( -23.30)
>DroSec_CAF1 52580 120 + 1
ACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAGCAGGUCGCCAUUAUUAUCACACACACGAUAAACUAAGAGA
..(((.(((........))).....(((...(((.......((((((.....))))))(((......))).........))).))))))....(((((........)))))......... ( -23.40)
>DroSim_CAF1 30735 120 + 1
ACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAGCAGGUCGCCAUUAUUAUCACACACACGAUAAACUAAGAGA
..(((.(((........))).....(((...(((.......((((((.....))))))(((......))).........))).))))))....(((((........)))))......... ( -23.40)
>DroEre_CAF1 34074 120 + 1
ACGGCUCGUAAAUAACAACGUCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAGCAGGUCGACAUUAUUAUCACACACACGAUAAACUAAGAGA
....(((............(((((...(...(((.......((((((.....))))))(((......)))......)))...).)))))....(((((........))))).....))). ( -24.00)
>DroYak_CAF1 19927 120 + 1
ACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAGCAGGUCGUCAUUAUUAUCACACACACGAUAAACUAAGAGA
.((((..((.....))...))))..(((((.(((.......((((((.....))))))(((......))).........))).)).)))....(((((........)))))......... ( -23.90)
>consensus
ACGGCUCGUAAAUAACAACGCCGAAGACACAUGCCACUUUAUGUCAAUUAUUUUGACAGCUAACAAGAGCAAAUAUGCAGCAGGUCGACAUUAUUAUCACACACACGAUAAACUAAGAGA
.((((..((.....))...))))..(((...(((.......((((((.....))))))(((......))).........))).))).......(((((........)))))......... (-22.92 = -22.76 +  -0.16) 

alignment

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secondary structure

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dotplot

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Window 5

Location 1,334,050 – 1,334,170
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 99.00
Mean single sequence MFE -30.84
Consensus MFE -29.10
Energy contribution -29.42
Covariance contribution 0.32
Combinations/Pair 1.03
Mean z-score -1.34
Structure conservation index 0.94
SVM decision value 0.32
SVM RNA-class probability 0.687524
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1334050 120 - 20766785
UCUCUUAGUUUAUCGUGUGUGUGAUAAUAAUGUCGACCUGCUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGU
.............((.((.((((((((((((((((((.(((..(......(((......)))((((((.....))))))....)..))).).....)))))))))))).))))).)))). ( -31.20)
>DroSec_CAF1 52580 120 - 1
UCUCUUAGUUUAUCGUGUGUGUGAUAAUAAUGGCGACCUGCUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGU
............(((((...((((((((..(((.(((((((..(......(((......)))((((((.....))))))....)..))).).))).)))..)))))))).)))))..... ( -30.10)
>DroSim_CAF1 30735 120 - 1
UCUCUUAGUUUAUCGUGUGUGUGAUAAUAAUGGCGACCUGCUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGU
............(((((...((((((((..(((.(((((((..(......(((......)))((((((.....))))))....)..))).).))).)))..)))))))).)))))..... ( -30.10)
>DroEre_CAF1 34074 120 - 1
UCUCUUAGUUUAUCGUGUGUGUGAUAAUAAUGUCGACCUGCUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGACGUUGUUAUUUACGAGCCGU
.............((.((.((((((((((((((((((.(((..(......(((......)))((((((.....))))))....)..))).).....)))))))))))).))))).)))). ( -31.80)
>DroYak_CAF1 19927 120 - 1
UCUCUUAGUUUAUCGUGUGUGUGAUAAUAAUGACGACCUGCUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGU
............(((((...((((((((..(((.(((((((..(......(((......)))((((((.....))))))....)..))).).))).)))..)))))))).)))))..... ( -31.00)
>consensus
UCUCUUAGUUUAUCGUGUGUGUGAUAAUAAUGGCGACCUGCUGCAUAUUUGCUCUUGUUAGCUGUCAAAAUAAUUGACAUAAAGUGGCAUGUGUCUUCGGCGUUGUUAUUUACGAGCCGU
............(((((...((((((((..(((.(((((((..(......(((......)))((((((.....))))))....)..))).).))).)))..)))))))).)))))..... (-29.10 = -29.42 +   0.32) 

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 09:26:10 2006