Locus 2402

Sequence ID 2L_DroMel_CAF1
Location 6,548,608 – 6,548,722
Length 114
Max. P 0.994978
window3868 window3869

overview

Window 8

Location 6,548,608 – 6,548,722
Length 114
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 74.16
Mean single sequence MFE -22.28
Consensus MFE -4.34
Energy contribution -4.94
Covariance contribution 0.60
Combinations/Pair 1.14
Mean z-score -1.64
Structure conservation index 0.19
SVM decision value 0.31
SVM RNA-class probability 0.684689
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6548608 114 + 22407834
UCACUUUGAGUUGCAAUCGAUGAAGUUAUAAAGUAGUCUAUUAUUGAUUUUCCAACCCAAUCCAUGGCAUUUGCCUAUCAACCUGCCCAACU-----ACUCCAUCGAUUGCCUUCAAUU
.....(((((..((((((((((.(((......((((.......(((......)))..........(((....))).......))))......-----))).)))))))))).))))).. ( -27.10)
>DroSec_CAF1 20602 114 + 1
UCACUUCGAGUUGCAAUCGAUGAAAGUAUAAAGUAGUCAGUUAUUGAGUUCCCAACCCAAUCCAUGGCAUUUGCCUAUCAACCUGCCCAACU-----ACUCCAUCGAUUGCUUUCAUUU
.......(((..((((((((((..((((....((((......((((.((.....)).))))....(((....))).......)))).....)-----))).)))))))))).))).... ( -26.30)
>DroSim_CAF1 22521 114 + 1
UCACUUCGAGUUGAUAUCGAUGAAAGCAUAAAGUAGUCUCUUAUUGAUUUCCCAACCCAACCAAUGAUAUUUGCCUAUCAACCUGCCCAACU-----ACUCCAUCGAUUGCCUUCAAUU
........((((((.(((((((.........((((((......(((......))).........(((((......))))).........)))-----))).))))))).....)))))) ( -15.60)
>DroEre_CAF1 21204 96 + 1
GUGCUUCGAC----------UGAAGGUAGAAAGUAGU-------------CCAAGCCCAUCCCAUGGGAUUUGCCUAUCAACCUGUCCAACUCCCGUACUGCGUCGAUUGCCUUCAAUU
..........----------(((((((((...(((((-------------.............((((((.(((..((......))..))).))))))))))).....)))))))))... ( -21.41)
>DroYak_CAF1 21659 109 + 1
UUUCUGUGAC----------UGAAAGCAUAAAGUAGUCGUUUAUUGAUUUCCAAGCCCAAAGCAUUGGACUUGUCUAUCAACCUGUCCAAAUCCGGCACUCCAUCGAUUGCCUUCAAUU
....((.(((----------.((..((.....))..)).....(((((...((((.((((....)))).))))...)))))...))))).....((((.((....)).))))....... ( -21.00)
>consensus
UCACUUCGAGUUG__AUCGAUGAAAGUAUAAAGUAGUCU_UUAUUGAUUUCCCAACCCAACCCAUGGCAUUUGCCUAUCAACCUGCCCAACU_____ACUCCAUCGAUUGCCUUCAAUU
....................((((((((............................(((.....)))...(((.....)))...........................))))))))... ( -4.34 =  -4.94 +   0.60)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,548,608 – 6,548,722
Length 114
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 74.16
Mean single sequence MFE -32.22
Consensus MFE -7.43
Energy contribution -7.27
Covariance contribution -0.16
Combinations/Pair 1.21
Mean z-score -2.52
Structure conservation index 0.23
SVM decision value 2.53
SVM RNA-class probability 0.994978
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6548608 114 - 22407834
AAUUGAAGGCAAUCGAUGGAGU-----AGUUGGGCAGGUUGAUAGGCAAAUGCCAUGGAUUGGGUUGGAAAAUCAAUAAUAGACUACUUUAUAACUUCAUCGAUUGCAACUCAAAGUGA
..((((..((((((((((((((-----.((..((.(((((.((.(((....))))).)))..((((....)))).........)).))..)).))))))))))))))...))))..... ( -36.40)
>DroSec_CAF1 20602 114 - 1
AAAUGAAAGCAAUCGAUGGAGU-----AGUUGGGCAGGUUGAUAGGCAAAUGCCAUGGAUUGGGUUGGGAACUCAAUAACUGACUACUUUAUACUUUCAUCGAUUGCAACUCGAAGUGA
........((((((((((((((-----(((..(...........(((....)))....(((((((.....)))))))..)..)))))))........))))))))))............ ( -36.50)
>DroSim_CAF1 22521 114 - 1
AAUUGAAGGCAAUCGAUGGAGU-----AGUUGGGCAGGUUGAUAGGCAAAUAUCAUUGGUUGGGUUGGGAAAUCAAUAAGAGACUACUUUAUGCUUUCAUCGAUAUCAACUCGAAGUGA
...((((((((.....((((((-----((((...(..((((((...(((...(((.....))).)))....))))))..).))))))))))))))))))((((.......))))..... ( -27.60)
>DroEre_CAF1 21204 96 - 1
AAUUGAAGGCAAUCGACGCAGUACGGGAGUUGGACAGGUUGAUAGGCAAAUCCCAUGGGAUGGGCUUGG-------------ACUACUUUCUACCUUCA----------GUCGAAGCAC
........((..(((((........((((.((((.((((...(((((..((((....))))..))))).-------------...)))))))).)))).----------))))).)).. ( -28.30)
>DroYak_CAF1 21659 109 - 1
AAUUGAAGGCAAUCGAUGGAGUGCCGGAUUUGGACAGGUUGAUAGACAAGUCCAAUGCUUUGGGCUUGGAAAUCAAUAAACGACUACUUUAUGCUUUCA----------GUCACAGAAA
.((((((((((.....((((((((((....)))....((((((...(((((((((....)))))))))...)))))).......)))))))))))))))----------))........ ( -32.30)
>consensus
AAUUGAAGGCAAUCGAUGGAGU_____AGUUGGGCAGGUUGAUAGGCAAAUCCCAUGGAUUGGGUUGGGAAAUCAAUAA_AGACUACUUUAUACUUUCAUCGAU__CAACUCGAAGUGA
...(((((((((((......................)))))...........(((.....)))..............................)))))).................... ( -7.43 =  -7.27 +  -0.16)

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 10:27:13 2006