Locus 4058

Sequence ID X_DroMel_CAF1
Location 10,756,085 – 10,756,238
Length 153
Max. P 0.966068
window6669 window6670

overview

Window 9

Location 10,756,085 – 10,756,204
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.75
Mean single sequence MFE -27.58
Consensus MFE -22.55
Energy contribution -22.05
Covariance contribution -0.50
Combinations/Pair 1.29
Mean z-score -1.66
Structure conservation index 0.82
SVM decision value 1.59
SVM RNA-class probability 0.966068
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10756085 119 + 22224390
ACCGCAAUAUGCCAUCAUUGCCACUCUCACCUCGA-CACUCGUAUCGAUCCUGAGCGGCCCUCGAGUUGCGUUUAAAUUUCAAUUUGCUGCCACAUAAGCGACACUUGAGUGCGCCGCUU
...(((((........)))))..........((((-........))))....(((((((((((((((..((((((.....((......)).....))))))..))))))).).))))))) ( -31.30)
>DroVir_CAF1 3331 91 + 1
---------------UU-------U------UUUG-CCUUUGCAUCGAUCCUAAGCGGCCCUCAAGCUGCGUUUAAAUUUCAAUUUUCUGCCACAUGAGCGUCACUUGAGUGCGCCGCUU
---------------..-------.------..((-(....)))........((((((((((((((..(((((((.....((......)).....)))))))..)))))).).))))))) ( -27.50)
>DroEre_CAF1 4758 114 + 1
ACCA-----UGCCAUCAUUGCCACUCUCACCUCGA-CACUCGUAUCGAUCCUGAGCGGCCCUCGAGUUGCGUUUAAAUUUCAAUUUGCUGCCACAUAAGCGACACUUGAGUGCGCCGCUU
....-----......................((((-........))))....(((((((((((((((..((((((.....((......)).....))))))..))))))).).))))))) ( -28.00)
>DroWil_CAF1 2808 102 + 1
--------------UAGAUGGCACCUU---CUUGA-GACACAUAUCGAUCCUGAGCGCUACUCAAGCAGCGUUUAAAUUUCAAUUUGCUGCCACAUAAACGUCACUUGAGUGCACUGCUU
--------------.....(((.....---.((((-........)))).....((.((.(((((((..(((((((.....((......)).....)))))))..))))))))).))))). ( -22.60)
>DroYak_CAF1 6255 119 + 1
ACCAUAAUAUGCCAUCAUUGCCACUCUCACCUCGA-CACUCGUAUCGAUCCUGAGCGGCCCUCGAGUUGCGUUUAAAUUUCAAUUUGCUGCCACAUAAGCGACACUCGAGUGCGCCGCUU
...............................((((-........))))....(((((((((((((((..((((((.....((......)).....))))))..))))))).).))))))) ( -30.10)
>DroAna_CAF1 3548 117 + 1
CGCCUCGAAUGUCCUCAUCAUCA---UCACCUCACCCACUCGUAUCGAUCCUGAGCAGCCCUCGAGCUGCGUUUAAAUUUCAAUUUGCUGCCACAUAAGCGACACUUGAGUGCGCCGCUU
((((((((.((((....(((..(---((..................)))..)))(((((......)))))................(((........))))))).))))).)))...... ( -25.97)
>consensus
ACC______UGCCAUCAUUGCCACUCUCACCUCGA_CACUCGUAUCGAUCCUGAGCGGCCCUCGAGCUGCGUUUAAAUUUCAAUUUGCUGCCACAUAAGCGACACUUGAGUGCGCCGCUU
....................................................((((((((((((((.((((((((.....((......)).....)))))).)))))))).).))))))) (-22.55 = -22.05 +  -0.50)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 10,756,124 – 10,756,238
Length 114
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 75.77
Mean single sequence MFE -25.67
Consensus MFE -19.93
Energy contribution -19.13
Covariance contribution -0.80
Combinations/Pair 1.33
Mean z-score -1.40
Structure conservation index 0.78
SVM decision value 1.24
SVM RNA-class probability 0.934577
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10756124 114 + 22224390
CGUAUCGAUCCUGAGCGGCCCUCGAGUUGCGUUUAAAUUUCAAUUUGCUGCCACAUAAGCGACACUUGAGUGCGCCGCUUUUU-UGCUUAUCUACUUCGCCCCGCCUCUGAUGUC
..(((((.....(((((((((((((((..((((((.....((......)).....))))))..))))))).).)))))))...-.((...........))........))))).. ( -27.20)
>DroGri_CAF1 3724 92 + 1
UGCAUCGAACCUAAGCGGCACUCAAGCAGCGUUUAAAUUUCAAUUUUCUGACACAUGAGCGUCACUUGAGUGCGCCGCUU-UU-UGCUUAUCUA---------------------
.(((........((((((((((((((..(((((((....(((......)))....)))))))..)))))))..)))))))-..-))).......--------------------- ( -30.00)
>DroEre_CAF1 4792 104 + 1
CGUAUCGAUCCUGAGCGGCCCUCGAGUUGCGUUUAAAUUUCAAUUUGCUGCCACAUAAGCGACACUUGAGUGCGCCGCUU-UU-UGCUUAUCUACUUCGGCCCUCC---------
.(..((((....(((((((((((((((..((((((.....((......)).....))))))..))))))).).)))))))-..-............))))..)...--------- ( -27.47)
>DroWil_CAF1 2830 109 + 1
CAUAUCGAUCCUGAGCGCUACUCAAGCAGCGUUUAAAUUUCAAUUUGCUGCCACAUAAACGUCACUUGAGUGCACUGCUUUUU-UCUUUUUUUGUGUUUGCC----AGUGUUA-C
......((..(((.((...(((((((..(((((((.....((......)).....)))))))..)))))))((((........-.........))))..)))----))..)).-. ( -23.03)
>DroMoj_CAF1 2468 97 + 1
UGCAUCGAUUCUAAGCGGCCCUCGAGCUGCGUUUAAAUUUCAAUUUUCUGCCACAUGAGCGUCACUUGAGUGCGCCUCUUUUU-UGCUUAUCUGCCAU-----------------
.(((........(((.((((((((((..(((((((.....((......)).....)))))))..)))))).).))).)))...-)))...........----------------- ( -22.30)
>DroAna_CAF1 3585 106 + 1
CGUAUCGAUCCUGAGCAGCCCUCGAGCUGCGUUUAAAUUUCAAUUUGCUGCCACAUAAGCGACACUUGAGUGCGCCGCUUUUUGCGCUUAUAUAU---------CCUCCGACAUC
.((...(((..(((((.((.((((((.((((((((.....((......)).....)))))).)))))))).))...((.....)))))))...))---------).....))... ( -24.00)
>consensus
CGUAUCGAUCCUGAGCGGCCCUCGAGCUGCGUUUAAAUUUCAAUUUGCUGCCACAUAAGCGACACUUGAGUGCGCCGCUUUUU_UGCUUAUCUAC_U__________________
.(((........(((((((.((((((...((((((.....((......)).....))))))...))))))...)))))))....)))............................ (-19.93 = -19.13 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:19 2006