Locus 1064

Sequence ID 2R_DroMel_CAF1
Location 4,330,991 – 4,331,150
Length 159
Max. P 0.965889
window1877 window1878

overview

Window 7

Location 4,330,991 – 4,331,110
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 76.49
Mean single sequence MFE -38.40
Consensus MFE -24.86
Energy contribution -24.53
Covariance contribution -0.33
Combinations/Pair 1.12
Mean z-score -2.05
Structure conservation index 0.65
SVM decision value 1.59
SVM RNA-class probability 0.965889
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4330991 119 + 20766785
AGUAGAUGGGCCG-UUUCAAGUGGGUGGUUAACAAGGACGGAAUGCUGCAUUCUUGGAGCAUUCCUUCCCAGUCCCCAGGCCCCAGCCUCCCAGCCACCCAGCAAUUCCAACUGCUGUUU
(((((.((((..(-(......(((((((((.....(((.((((((((.((....)).)))))))).)))........((((....))))...)))))))))))...)))).))))).... ( -46.70)
>DroEre_CAF1 9332 95 + 1
AGCAGAUGGGCCG-CUUGAAGUGGGUGGCUAACAAGGACGGAAUGCCGCAUUCUUGGCGCAUUCCUUCC-----------------------CGCC-CCUCGCAGUUCCAACUGCUGUUU
(((((.(((((((-(((.....))))))).(((..(((.(((((((.((.......))))))))).)))-----------------------.((.-....)).)))))).))))).... ( -37.70)
>DroYak_CAF1 10407 97 + 1
AGUAGACGGGCCCUUUUGAAGUGGGUGGCUAACAAGGACGGAAUGCUGCAUUCUUGGCGCAUUCCUCGC-----------------------AGCCCCCUCGCAAUUCCAACUGCUGUUU
(((((..(((.....(((....(((.((((.....(((.(((((((.((.......))))))))))).)-----------------------)))))))...))).)))..))))).... ( -30.80)
>consensus
AGUAGAUGGGCCG_UUUGAAGUGGGUGGCUAACAAGGACGGAAUGCUGCAUUCUUGGCGCAUUCCUUCC_______________________AGCC_CCUCGCAAUUCCAACUGCUGUUU
(((((...(((((.((......)).))))).....(((.(((((((..((....))..)))))))............................((......))...)))..))))).... (-24.86 = -24.53 +  -0.33)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,331,030 – 4,331,150
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.71
Mean single sequence MFE -27.97
Consensus MFE -20.13
Energy contribution -20.13
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.72
SVM decision value 0.39
SVM RNA-class probability 0.718029
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4331030 120 + 20766785
GAAUGCUGCAUUCUUGGAGCAUUCCUUCCCAGUCCCCAGGCCCCAGCCUCCCAGCCACCCAGCAAUUCCAACUGCUGUUUCUGUUUCUGCAUCGGCGGCCAUUCAACCUGGGCCUUCAUC
(((((((.((....)).)))))))...(((((.....((((....))))....(((.(((((((........)))))....(((....)))..)).)))........)))))........ ( -36.50)
>DroEre_CAF1 9371 96 + 1
GAAUGCCGCAUUCUUGGCGCAUUCCUUCC-----------------------CGCC-CCUCGCAGUUCCAACUGCUGUUUCUGUUUCUGCAUCGGCGGCCAUUCAACCUGGGCCUUCAUC
((((((.((.......)))))))).....-----------------------.(((-....(((((....)))))......(((....)))..)))((((..........))))...... ( -25.80)
>DroYak_CAF1 10447 97 + 1
GAAUGCUGCAUUCUUGGCGCAUUCCUCGC-----------------------AGCCCCCUCGCAAUUCCAACUGCUGUUUCUGUUUCUGCAUCGGCGGCCAUUCAACCUGGGCCUUCAUC
((((((.((.......)))))))).....-----------------------.(((.....(((........)))......(((....)))..)))((((..........))))...... ( -21.60)
>consensus
GAAUGCUGCAUUCUUGGCGCAUUCCUUCC_______________________AGCC_CCUCGCAAUUCCAACUGCUGUUUCUGUUUCUGCAUCGGCGGCCAUUCAACCUGGGCCUUCAUC
((((((..((....))..)))))).............................(((.....(((........)))......(((....)))..)))((((..........))))...... (-20.13 = -20.13 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:29 2006