Locus 3144

Sequence ID 2R_DroMel_CAF1
Location 10,741,137 – 10,741,228
Length 91
Max. P 0.995727
window5179 window5180

overview

Window 9

Location 10,741,137 – 10,741,228
Length 91
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 70.43
Mean single sequence MFE -28.82
Consensus MFE -14.80
Energy contribution -13.70
Covariance contribution -1.10
Combinations/Pair 1.47
Mean z-score -2.55
Structure conservation index 0.51
SVM decision value 2.44
SVM RNA-class probability 0.993925
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10741137 91 + 20766785
UUCUUGGGACCAACGGCAACUUUUCGUGGCUUGUGCCA----------CGGGGUCUCUCACUCUCUC---UUGGCC-CCCUUCCCAUGUGCCCCUCCAUCAUAGC
......(((.....((((.......(((((....))))----------)((((((............---..))))-)).........))))..)))........ ( -27.24)
>DroSim_CAF1 7826 95 + 1
UUCUUGGGGCCAACGGCAACUUUUCGUGGCUUGUGCCA----------CGGGGUCUCUCUCUCUCUCUCUUUGGCCCCCCUUUCCAUAAGCCCCUCCAUCAUAGC
.....(((((....((.........(((((....))))----------)((((((.................)))))).....))....)))))........... ( -30.73)
>DroAna_CAF1 7860 96 + 1
UUCUUGGGGCCAACGGCAACUUUUCGUGGCUUGUGCCGGAGCUCCAAACCGAAUCUACCUUCC--------UGCCU-CCAACCCCAUUUACCCGGGGAUCGCAGC
...(((((((...(((((.((......))....)))))..)))))))...............(--------(((..-....((((........))))...)))). ( -28.50)
>consensus
UUCUUGGGGCCAACGGCAACUUUUCGUGGCUUGUGCCA__________CGGGGUCUCUCUCUCUCUC___UUGGCC_CCCUUCCCAUAUGCCCCUCCAUCAUAGC
....(((((.....(((.........((((....))))...........(((........)))..........))).....)))))................... (-14.80 = -13.70 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,741,137 – 10,741,228
Length 91
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 70.43
Mean single sequence MFE -32.97
Consensus MFE -19.46
Energy contribution -18.25
Covariance contribution -1.21
Combinations/Pair 1.31
Mean z-score -2.08
Structure conservation index 0.59
SVM decision value 2.61
SVM RNA-class probability 0.995727
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10741137 91 - 20766785
GCUAUGAUGGAGGGGCACAUGGGAAGGG-GGCCAA---GAGAGAGUGAGAGACCCCG----------UGGCACAAGCCACGAAAAGUUGCCGUUGGUCCCAAGAA
...........(((((..((((.(((((-(.(((.---.......)).)...))))(----------((((....)))))......)).))))..)))))..... ( -30.90)
>DroSim_CAF1 7826 95 - 1
GCUAUGAUGGAGGGGCUUAUGGAAAGGGGGGCCAAAGAGAGAGAGAGAGAGACCCCG----------UGGCACAAGCCACGAAAAGUUGCCGUUGGCCCCAAGAA
...........((((((.((((...((((.......................))))(----------((((....))))).........)))).))))))..... ( -34.10)
>DroAna_CAF1 7860 96 - 1
GCUGCGAUCCCCGGGUAAAUGGGGUUGG-AGGCA--------GGAAGGUAGAUUCGGUUUGGAGCUCCGGCACAAGCCACGAAAAGUUGCCGUUGGCCCCAAGAA
......(((....)))...((((((..(-.((((--------((((......)))((((((..((....)).))))))........))))).)..)))))).... ( -33.90)
>consensus
GCUAUGAUGGAGGGGCAAAUGGGAAGGG_GGCCAA___GAGAGAGAGAGAGACCCCG__________UGGCACAAGCCACGAAAAGUUGCCGUUGGCCCCAAGAA
...........(((((..((((...(((.(......................))))............(((....)))...........))))..)))))..... (-19.46 = -18.25 +  -1.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:31 2006