Locus 5423

Sequence ID	2L_DroMel_CAF1
Location	15,456,882 – 15,456,979
Length	97
Max. P	0.988899

overview

Window 9

Location	15,456,882 – 15,456,979
Length	97
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	90.08
Mean single sequence MFE	-38.16
Consensus MFE	-32.22
Energy contribution	-32.86
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-2.17
Structure conservation index	0.84
SVM decision value	2.14
SVM RNA-class probability	0.988899
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15456882 97 + 22407834
UGACUCGAUUUAGAGGUCCGCUUGGGGCGGCAAGUGAUUUGAUUGC-UGGCCAUUGCCCGGGGUCGGGUUGCGGAUAGGAUUCGGGUUGGGAUU------GAGU
.(((((((.((....((((((...((.((((((.........))))-)).))...(((((....))))).))))))..)).)))))))......------.... ( -38.30)
>DroSec_CAF1 194967 97 + 1
UGACUCGAUUUAGAGGUCCGCUUGGGGCGGCAAGUGAUUUGAUUGC-UGGCCAUUGCCCGGGGUCGGGUGGCGGAUAGGAUUCGGGUUGGGAUU------GAGU
.(((((((.((....(((((((..((.((((((.........))))-)).))...(((((....))))))))))))..)).)))))))......------.... ( -39.60)
>DroSim_CAF1 200925 97 + 1
UGACUCGAUUUAGAGGUCCGCUUGGGGCGGCAAGUGAUUUGAUUGC-UGGCCAUUGCCCGGGGUCGGGUGGCGGAUAGGAUUCGGGUUGGGAUU------GAGU
.(((((((.((....(((((((..((.((((((.........))))-)).))...(((((....))))))))))))..)).)))))))......------.... ( -39.60)
>DroYak_CAF1 202616 92 + 1
UGACUCGAUUUAGAGGUCCGCUUGGGGCGGCAAGUGAUUUGAUUGC-UGGCCAUUGCCCGGGGUCGGGUGCCGGAUAGGAUUCGGGUUGGGGU-----------
.(((((((.((....((((((...((.((((((.........))))-)).))...(((((....)))))).)))))..)).))))))).....----------- ( -35.10)
>DroAna_CAF1 204331 104 + 1
UGACUCGUUUUAGCGCUCAGCUUGGGGCGGCAAGUGAUUUGAUUGCCCGGCCAUUGCCCGGGGACGGGUUGCGGAUCGGAUUCGGGUUGGGAUUCGGACUGGAC
...((.((((.....(((((((((((((((((((...)))).))))))((((...(((((....)))))...)).)).....)))))))))....)))).)).. ( -38.20)
>consensus
UGACUCGAUUUAGAGGUCCGCUUGGGGCGGCAAGUGAUUUGAUUGC_UGGCCAUUGCCCGGGGUCGGGUGGCGGAUAGGAUUCGGGUUGGGAUU______GAGU
.(((((((.((....((((((...((.((((((.........)))).)).))...(((((....))))).))))))..)).)))))))................ (-32.22 = -32.86 +   0.64)

alignment

secondary structure

dotplot

Window 0

Location	15,456,882 – 15,456,979
Length	97
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	90.08
Mean single sequence MFE	-20.68
Consensus MFE	-17.48
Energy contribution	-18.08
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.31
Structure conservation index	0.85
SVM decision value	0.06
SVM RNA-class probability	0.561820
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15456882 97 - 22407834
ACUC------AAUCCCAACCCGAAUCCUAUCCGCAACCCGACCCCGGGCAAUGGCCA-GCAAUCAAAUCACUUGCCGCCCCAAGCGGACCUCUAAAUCGAGUCA
((((------..((.......))......(((((..((((....))))....(((..-((((.........)))).)))....)))))..........)))).. ( -22.20)
>DroSec_CAF1 194967 97 - 1
ACUC------AAUCCCAACCCGAAUCCUAUCCGCCACCCGACCCCGGGCAAUGGCCA-GCAAUCAAAUCACUUGCCGCCCCAAGCGGACCUCUAAAUCGAGUCA
((((------..((.......))......(((((..((((....))))....(((..-((((.........)))).)))....)))))..........)))).. ( -21.30)
>DroSim_CAF1 200925 97 - 1
ACUC------AAUCCCAACCCGAAUCCUAUCCGCCACCCGACCCCGGGCAAUGGCCA-GCAAUCAAAUCACUUGCCGCCCCAAGCGGACCUCUAAAUCGAGUCA
((((------..((.......))......(((((..((((....))))....(((..-((((.........)))).)))....)))))..........)))).. ( -21.30)
>DroYak_CAF1 202616 92 - 1
-----------ACCCCAACCCGAAUCCUAUCCGGCACCCGACCCCGGGCAAUGGCCA-GCAAUCAAAUCACUUGCCGCCCCAAGCGGACCUCUAAAUCGAGUCA
-----------......((.(((.........(((.((((....)))).....))).-................((((.....)))).........))).)).. ( -19.10)
>DroAna_CAF1 204331 104 - 1
GUCCAGUCCGAAUCCCAACCCGAAUCCGAUCCGCAACCCGUCCCCGGGCAAUGGCCGGGCAAUCAAAUCACUUGCCGCCCCAAGCUGAGCGCUAAAACGAGUCA
(..((((.......(((...((....))........((((....))))...)))..((((...(((.....)))..))))...))))..).............. ( -19.50)
>consensus
ACUC______AAUCCCAACCCGAAUCCUAUCCGCCACCCGACCCCGGGCAAUGGCCA_GCAAUCAAAUCACUUGCCGCCCCAAGCGGACCUCUAAAUCGAGUCA
.....................((......(((((..((((....))))....(((...((((.........)))).)))....))))).(((......))))). (-17.48 = -18.08 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:48 2006