Locus 7552

Sequence ID 2L_DroMel_CAF1
Location 20,932,531 – 20,932,676
Length 145
Max. P 0.791329
window12141 window12142

overview

Window 1

Location 20,932,531 – 20,932,642
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.73
Mean single sequence MFE -19.15
Consensus MFE -14.84
Energy contribution -14.60
Covariance contribution -0.24
Combinations/Pair 1.07
Mean z-score -1.64
Structure conservation index 0.78
SVM decision value 0.23
SVM RNA-class probability 0.643748
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20932531 111 + 22407834
UCCGAAAUCUUCCCCCAUUUCCGAACCCAAUCCCC-C--------AUUGCGGGCUACCAUUGAAGCCCAAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAAUGGUGAUUCCUUU
((.(((((........))))).))...........-.--------.....(((((........)))))...............((((((((((............))))))))))..... ( -18.20)
>DroSec_CAF1 18968 91 + 1
UCCGAAAUCUUCCC--------------------C-C--------AUUGCGGGCUACCAUUGAAGCCCAAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAAUGGUGAUUCCUUU
..............--------------------.-.--------.....(((((........)))))...............((((((((((............))))))))))..... ( -16.10)
>DroSim_CAF1 17182 111 + 1
UCCGAAAUCUUCCCCCAUUUCCGAACCCAAUCCCC-C--------AUUGCGGGCUACCAUUGAAGCCCAAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAAUGGUGAUUCCUUU
((.(((((........))))).))...........-.--------.....(((((........)))))...............((((((((((............))))))))))..... ( -18.20)
>DroEre_CAF1 16379 104 + 1
UCCCAAAUCUUCCC-CAUUUCCGAGC------CCC-C--------AUUGUGGGCUACCAUUGAAGCCCCAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAGUGGUGAUUCCUCU
.....((((.....-........(((------((.-.--------.....)))))((((((((((...((((.(((.............))).))))....))))))))))))))..... ( -19.62)
>DroYak_CAF1 17122 113 + 1
UCCGAAGUCUUUCC-CAUUUUCCAUU------UCCACAAUGGGGGGUUGUGGGCUACCAUUGAAGCCCAAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAGUGGUGAUUCCUUU
...(((......((-(((..(((...------(((.....))))))..))))).(((((((((((..(((((.(((.............))))))))....))))))))))).))).... ( -23.62)
>consensus
UCCGAAAUCUUCCC_CAUUUCCGAAC______CCC_C________AUUGCGGGCUACCAUUGAAGCCCAAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAAUGGUGAUUCCUUU
..................................................(((((........)))))...............((((((((((............))))))))))..... (-14.84 = -14.60 +  -0.24)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 20,932,567 – 20,932,676
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 85.47
Mean single sequence MFE -20.98
Consensus MFE -18.21
Energy contribution -18.77
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -1.68
Structure conservation index 0.87
SVM decision value 0.59
SVM RNA-class probability 0.791329
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20932567 109 + 22407834
AUUGCGGGCUACCAUUGAAGCCCAAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAAUGGUGAUUCCUUUGCUACUCCUCACCUUCUGUCCCAGUCUCAGCAUC
..((((((((........))))).......(((.....((((((((((............))))))))))....)))...........................))).. ( -22.00)
>DroSec_CAF1 18984 109 + 1
AUUGCGGGCUACCAUUGAAGCCCAAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAAUGGUGAUUCCUUUGCUACUCCUCGCCUUCUGUCCCUGAAUCAGCAUC
..((((((((........))))).......(((.....((((((((((............))))))))))....)))...........................))).. ( -22.00)
>DroSim_CAF1 17218 109 + 1
AUUGCGGGCUACCAUUGAAGCCCAAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAAUGGUGAUUCCUUUGCUACUCCUCGCCUUCUGUCCCUGUCUCAGCAUC
..((((((((........))))).......(((.....((((((((((............))))))))))....)))...........................))).. ( -22.00)
>DroEre_CAF1 16408 88 + 1
AUUGUGGGCUACCAUUGAAGCCCCAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAGUGGUGAUUCCUCUGCUGCCCGUC---CU------------------C
.....(((((((((((((((...((((.(((.............))).))))....)))))))))))...........))))...---..------------------. ( -17.92)
>consensus
AUUGCGGGCUACCAUUGAAGCCCAAAAUACGCACACUCAAUCAUCGUUUUUGUCUUUUUUAAUGGUGAUUCCUUUGCUACUCCUCGCCUUCUGUCCCUGUCUCAGCAUC
..((((((((........))))).......(((.....((((((((((............))))))))))....)))...........................))).. (-18.21 = -18.77 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:41 2006