Locus 7270

Sequence ID	X_DroMel_CAF1
Location	18,111,151 – 18,111,268
Length	117
Max. P	0.882534

overview

Window 7

Location	18,111,151 – 18,111,268
Length	117
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	93.53
Mean single sequence MFE	-41.88
Consensus MFE	-35.34
Energy contribution	-35.27
Covariance contribution	-0.06
Combinations/Pair	1.09
Mean z-score	-2.12
Structure conservation index	0.84
SVM decision value	0.92
SVM RNA-class probability	0.882534
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18111151 117 + 22224390
CCAGCGGCAAGAAAUCGACAGCGCUGUUGACUUCGACUUCGAUCGAAUCGGAAUCAAAUCAUAGCAGACAGUCGAAGGCAGCGCGUCGACACUUAACGCGAUAG---UUCGUCCAGCCGC
...((((((((...(((((.(((((((...(((((((((((((...))))))......((......))..)))))))))))))))))))..)))...((((...---.))))...))))) ( -44.30)
>DroSec_CAF1 19621 117 + 1
CCAGCGGCGAAAAAUCGACAGCGCUGUUGACUUCGACUCCGAUCGAAUCGGAAUCAAAUCAUAGCAGACAGUCGAAGGCAGCGCGUCGACACUUAACGCGAUAG---UUCCUCCAGCUGC
...(((((......(((((.(((((((...(((((((((((((...))))))......((......))..))))))))))))))))))).....(((......)---))......))))) ( -41.80)
>DroEre_CAF1 17436 117 + 1
CCAGCGGCGAGAAAUCGACAGCGCCGUUGACUUCGACUGCGAUCGGAUCGGAAUCAAAUCAUAGCAGUCAGUCGAAGGUAGCGCGUCGACAGUUAACGCGAUAG---UUCCUCCAGCCGC
...((((((((...(((((.(((((.((((((..(((((((((..(((....)))..)))...)))))))))))).))).))..))))).....(((......)---)).)))..))))) ( -41.80)
>DroYak_CAF1 19486 120 + 1
CCAGCGGCGAGAAAUCGACAGCGCCGUUGACUUCGACUUCGAUCGGAUCGGAAUCAAAUCAUAGCAGACAGUCGAAGGCAGCGCGUCGACACUUAACGCGAUAGUUGUUCCUCCAGUCGC
...(((((((....))(((((((((.((((((((..((..(((..(((....)))..)))..))..)).)))))).)))..(((((..(...)..)))))...))))))......))))) ( -39.60)
>consensus
CCAGCGGCGAGAAAUCGACAGCGCCGUUGACUUCGACUUCGAUCGAAUCGGAAUCAAAUCAUAGCAGACAGUCGAAGGCAGCGCGUCGACACUUAACGCGAUAG___UUCCUCCAGCCGC
...(((((......(((((.(((((((...((((((((.((((...))))((......)).........))))))))))))))))))))..........((.......)).....))))) (-35.34 = -35.27 +  -0.06)

alignment

secondary structure

dotplot

Window 8

Location	18,111,151 – 18,111,268
Length	117
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	93.53
Mean single sequence MFE	-43.90
Consensus MFE	-38.26
Energy contribution	-38.82
Covariance contribution	0.56
Combinations/Pair	1.07
Mean z-score	-1.64
Structure conservation index	0.87
SVM decision value	0.38
SVM RNA-class probability	0.714142
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18111151 117 - 22224390
GCGGCUGGACGAA---CUAUCGCGUUAAGUGUCGACGCGCUGCCUUCGACUGUCUGCUAUGAUUUGAUUCCGAUUCGAUCGAAGUCGAAGUCAACAGCGCUGUCGAUUUCUUGCCGCUGG
(((((..((((..---......))))(((.((((((((((((.(((((((((((......)))((((((.......))))))))))))))....)))))).))))))..))))))))... ( -46.20)
>DroSec_CAF1 19621 117 - 1
GCAGCUGGAGGAA---CUAUCGCGUUAAGUGUCGACGCGCUGCCUUCGACUGUCUGCUAUGAUUUGAUUCCGAUUCGAUCGGAGUCGAAGUCAACAGCGCUGUCGAUUUUUCGCCGCUGG
.((((.((.((((---....(((.....)))(((((((((((.....(((((((......)))(((((((((((...)))))))))))))))..)))))).)))))..)))).)))))). ( -45.40)
>DroEre_CAF1 17436 117 - 1
GCGGCUGGAGGAA---CUAUCGCGUUAACUGUCGACGCGCUACCUUCGACUGACUGCUAUGAUUUGAUUCCGAUCCGAUCGCAGUCGAAGUCAACGGCGCUGUCGAUUUCUCGCCGCUGG
(((((.((((.((---(......)))....(((((((((((..(((((((((.......(((((.(((....))).)))))))))))))).....))))).)))))))))).)))))... ( -44.41)
>DroYak_CAF1 19486 120 - 1
GCGACUGGAGGAACAACUAUCGCGUUAAGUGUCGACGCGCUGCCUUCGACUGUCUGCUAUGAUUUGAUUCCGAUCCGAUCGAAGUCGAAGUCAACGGCGCUGUCGAUUUCUCGCCGCUGG
(((....((((((.......(((.....)))(((((((((((.(((((((((((......)))((((((.......))))))))))))))....)))))).)))))))))))..)))... ( -39.60)
>consensus
GCGGCUGGAGGAA___CUAUCGCGUUAAGUGUCGACGCGCUGCCUUCGACUGUCUGCUAUGAUUUGAUUCCGAUCCGAUCGAAGUCGAAGUCAACAGCGCUGUCGAUUUCUCGCCGCUGG
(((((.(((((.........(((.....)))(((((((((((.((((((((........(((((.(((....))).))))).))))))))....)))))).)))))))))).)))))... (-38.26 = -38.82 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:44 2006