Locus 6583

Sequence ID 3L_DroMel_CAF1
Location 17,445,435 – 17,445,576
Length 141
Max. P 0.977157
window10720 window10721 window10722

overview

Window 0

Location 17,445,435 – 17,445,536
Length 101
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 78.18
Mean single sequence MFE -26.64
Consensus MFE -14.79
Energy contribution -14.71
Covariance contribution -0.08
Combinations/Pair 1.24
Mean z-score -2.45
Structure conservation index 0.56
SVM decision value 1.79
SVM RNA-class probability 0.977157
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17445435 101 - 23771897
GAAAACACAAGUAGGUACAGGAAUAUGUUGUGAAUCGU--------AUUCUUGUGUGUACAUUGUGGUUUCACUGGGUUUUGUGGUCAGCUUAAAUUAGCAU--------AU--AUGUG
((((.((((((((..((((((((((((........)))--------)))))))))..))).))))).)))).................(((......)))..--------..--..... ( -28.40)
>DroSec_CAF1 4686 110 - 1
GAAAACACAAGUAGGUACAGGAAUAGGUUGUGAAUCAU--------AUUCUUGUGUGUACAUUGUGGUUCCAUUGGGUUUUGUGGUCAGCUUAAAUUAGCACUAGUUGUUAUAA-AAUA
.....((((((((..(((((((((((((.....))).)--------)))))))))..))).)))))..........(((((((((.(((((............)))))))))))-))). ( -28.50)
>DroSim_CAF1 5165 102 - 1
GAAAACACAAGUAGGUACAGGAAUAGGUUGUGAAUCAU--------AUUCUUGUGUGUACAU-GUGGUUCCAUUGGGUUUUGUGGUCAGCUUAAAUUAGCAU--------AUACAUAUG
.....((((.(((..(((((((((((((.....))).)--------)))))))))..))).)-)))...((((........))))...(((......)))..--------......... ( -25.00)
>DroEre_CAF1 3776 100 - 1
AAAAACACAGGUAACUACAGGAAUAUGUUGUGAUUCGUACCCAUGUAUUCCUGUAUGUACAUUGUGUUUUCAAUGGGUUUUCUGGUCAGUUUAAAUUAUC-------------------
.((((((((((((..(((((((((((((.(((.....)))..)))))))))))))..))).)))))))))..............................------------------- ( -25.50)
>DroYak_CAF1 3768 92 - 1
GGAAACACAAGUAACUACAGGAAUAUGUUGUGAAUCGU--------AUUGCUGUGUGUACAUUGUGUUUUCAAUGGGUUUUCUGGUCAGUUUAAAUUAUC-------------------
(((((((((((((..(((((.((((((........)))--------))).)))))..))).)))))))))).............................------------------- ( -25.80)
>consensus
GAAAACACAAGUAGGUACAGGAAUAUGUUGUGAAUCGU________AUUCUUGUGUGUACAUUGUGGUUUCAAUGGGUUUUGUGGUCAGCUUAAAUUAGCA_________AU_____U_
.....((((((((..(((((((((......................)))))))))..))).)))))...((((........)))).................................. (-14.79 = -14.71 +  -0.08)

alignment

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secondary structure

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Window 1

Location 17,445,465 – 17,445,576
Length 111
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 85.29
Mean single sequence MFE -29.38
Consensus MFE -17.37
Energy contribution -18.01
Covariance contribution 0.64
Combinations/Pair 1.18
Mean z-score -2.53
Structure conservation index 0.59
SVM decision value 0.33
SVM RNA-class probability 0.689902
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17445465 111 + 23771897
AACCCAGUGAAACCACAAUGUACACACAAGAAU--------ACGAUUCACAACAUAUUCCUGUACCUACUUGUGUUUUCAUUGGACUUCUUGGUCGAAUGCGAAAUUUUCUUGGAGUGA
...(((((((((.(((((.(((...(((.((((--------(.(........).))))).)))...)))))))).)))))))))(((((..(((((....))).....))..))))).. ( -28.10)
>DroSec_CAF1 4725 111 + 1
AACCCAAUGGAACCACAAUGUACACACAAGAAU--------AUGAUUCACAACCUAUUCCUGUACCUACUUGUGUUUUCAUUGGCGUUCUUGGUCGAACGCGAAAUUUUCUUGGACUGA
..((((((((((.(((((.(((...(((.((((--------(.(........).))))).)))...)))))))).))))))))((((((......))))))...........))..... ( -29.50)
>DroSim_CAF1 5197 110 + 1
AACCCAAUGGAACCAC-AUGUACACACAAGAAU--------AUGAUUCACAACCUAUUCCUGUACCUACUUGUGUUUUCAUUGGCGUUCUUGGUCGAACGCGAAAUUUUCUUGGACUGA
..((((((((((.(((-(.(((...(((.((((--------(.(........).))))).)))...))).)))).))))))))((((((......))))))...........))..... ( -29.20)
>DroEre_CAF1 3797 119 + 1
AACCCAUUGAAAACACAAUGUACAUACAGGAAUACAUGGGUACGAAUCACAACAUAUUCCUGUAGUUACCUGUGUUUUUAUUGGAGUUCUUGGUCGAAUGCGAAAUUGCCUUGGAGUGG
...(((.((((((((((..(((..((((((((((..(((((....))).))...))))))))))..))).)))))))))).)))(.(((..((.(((........)))))..))).).. ( -34.40)
>DroYak_CAF1 3789 111 + 1
AACCCAUUGAAAACACAAUGUACACACAGCAAU--------ACGAUUCACAACAUAUUCCUGUAGUUACUUGUGUUUCCAUUAGAGUUCCUGGUCGAAUGCGACAUCGCCUUGGAUUGG
.......((.((((((((.(((.((((((.(((--------(.(........).)))).)))).))))))))))))).)).........(..(((.((.(((....))).)).)))..) ( -25.70)
>consensus
AACCCAAUGAAACCACAAUGUACACACAAGAAU________ACGAUUCACAACAUAUUCCUGUACCUACUUGUGUUUUCAUUGGAGUUCUUGGUCGAAUGCGAAAUUUUCUUGGACUGA
...(((((((((.(((((.(((...(((.((((......................)))).)))...)))))))).))))))))).((((..(((((....))).....))..))))... (-17.37 = -18.01 +   0.64)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,445,465 – 17,445,576
Length 111
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 85.29
Mean single sequence MFE -33.98
Consensus MFE -19.95
Energy contribution -20.15
Covariance contribution 0.20
Combinations/Pair 1.18
Mean z-score -3.06
Structure conservation index 0.59
SVM decision value 0.85
SVM RNA-class probability 0.866286
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17445465 111 - 23771897
UCACUCCAAGAAAAUUUCGCAUUCGACCAAGAAGUCCAAUGAAAACACAAGUAGGUACAGGAAUAUGUUGUGAAUCGU--------AUUCUUGUGUGUACAUUGUGGUUUCACUGGGUU
.....................(((......))).((((.(((((.((((((((..((((((((((((........)))--------)))))))))..))).))))).))))).)))).. ( -32.20)
>DroSec_CAF1 4725 111 - 1
UCAGUCCAAGAAAAUUUCGCGUUCGACCAAGAACGCCAAUGAAAACACAAGUAGGUACAGGAAUAGGUUGUGAAUCAU--------AUUCUUGUGUGUACAUUGUGGUUCCAUUGGGUU
.....((...........((((((......))))))(((((....((((((((..(((((((((((((.....))).)--------)))))))))..))).)))))....))))))).. ( -34.90)
>DroSim_CAF1 5197 110 - 1
UCAGUCCAAGAAAAUUUCGCGUUCGACCAAGAACGCCAAUGAAAACACAAGUAGGUACAGGAAUAGGUUGUGAAUCAU--------AUUCUUGUGUGUACAU-GUGGUUCCAUUGGGUU
.....((...........((((((......))))))(((((....((((.(((..(((((((((((((.....))).)--------)))))))))..))).)-)))....))))))).. ( -34.60)
>DroEre_CAF1 3797 119 - 1
CCACUCCAAGGCAAUUUCGCAUUCGACCAAGAACUCCAAUAAAAACACAGGUAACUACAGGAAUAUGUUGUGAUUCGUACCCAUGUAUUCCUGUAUGUACAUUGUGUUUUCAAUGGGUU
..........((......))...........(((.(((.(.((((((((((((..(((((((((((((.(((.....)))..)))))))))))))..))).))))))))).).)))))) ( -31.30)
>DroYak_CAF1 3789 111 - 1
CCAAUCCAAGGCGAUGUCGCAUUCGACCAGGAACUCUAAUGGAAACACAAGUAACUACAGGAAUAUGUUGUGAAUCGU--------AUUGCUGUGUGUACAUUGUGUUUUCAAUGGGUU
..((((((.(((((........))).))...........((((((((((((((..(((((.((((((........)))--------))).)))))..))).))))))))))).)))))) ( -36.90)
>consensus
UCACUCCAAGAAAAUUUCGCAUUCGACCAAGAACUCCAAUGAAAACACAAGUAGGUACAGGAAUAUGUUGUGAAUCGU________AUUCUUGUGUGUACAUUGUGGUUUCAAUGGGUU
.....................(((......)))..(((.(((((.((((((((..(((((((((......................)))))))))..))).))))).))))).)))... (-19.95 = -20.15 +   0.20)

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 12:25:01 2006