Locus 183

Sequence ID	X_DroMel_CAF1
Location	645,257 – 645,365
Length	108
Max. P	0.796032

overview

Window 8

Location	645,257 – 645,365
Length	108
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	80.39
Mean single sequence MFE	-33.27
Consensus MFE	-24.86
Energy contribution	-26.42
Covariance contribution	1.56
Combinations/Pair	1.19
Mean z-score	-1.14
Structure conservation index	0.75
SVM decision value	0.07
SVM RNA-class probability	0.568002
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 645257 108 + 22224390
GGUGGAUCAACACGUCCAGCUGGACGCUGCUGUUUAGGAAGAAGUUUAUGUCGCAGCCUGGGCUGCCGAAGAAGCUGUUUUGGAAAUCCACCUG-------GAAUUGCAUAGA--GC
(((((((((.(((((((....))))).)).))(((((((...(((((...(((((((....)))).)))..))))).))))))).)))))))..-------............--.. ( -37.30)
>DroVir_CAF1 5129 104 + 1
UGUGAAUCAGCACGUCCAGCUGAACGCUGCUGUUGAGAAAGAAAUUGAUAUCGCAGCCGGGACUACCAAAGAAGCUGUUCUGAAAGUCCACCUG-------CAAGCAAACG------
.(((..(((((.......))))).)))((((...((..((....))....))((((...(((((.....((((....))))...)))))..)))-------).))))....------ ( -26.50)
>DroGri_CAF1 5093 117 + 1
GAUGGAUCAGCACGUCCAGCUGUACGCUGCUGUUCAGAAAGAAGUUGAUAUCGCAGCCGGGACUGCCAAAGAAACUGUUCUGAAAGUCCACCUGUGGACCAGAAAAACAAAAAUCAU
(((....((((((((.(....).))).)))))(((((((...((((......((((......))))......)))).))))))).(((((....))))).............))).. ( -31.70)
>DroMoj_CAF1 5584 105 + 1
UGUGCAUGAGCACGUCCAGCUGGACGCUGCUGUUGAGAAAGAAGUUGAUGUCGCAGCCGGGACUGCCAAAGAAACUGUUCUGAAAGUCCACCUA-------GAAGAAGAAG-----U
.((((....))))((((....))))(((((.((..(........)..))...)))))..(((((.....((((....))))...))))).....-------..........-----. ( -28.30)
>DroAna_CAF1 3509 108 + 1
GGUGGAUGAGCACGUCCAGCUGGACGCUGCUGUUCAGGAAGAAGUUGAUGUCGCAGCCCGGACUGCCAAAGAAGCUGUUCUGAAAGUCCACCUA-------CAGGGACAAGGA--UU
(((((((.(((((((((....))))).)))).(((((((...((((..(...((((......))))...)..)))).))))))).)))))))..-------............--.. ( -40.20)
>DroPer_CAF1 14933 108 + 1
GGUGGAUGAGCACAUCCAGCUGGACGCUGCUGUUCAGAAAGAAGUUGAUGUCGCAUCCGGGACUCCCGAAAAAGCUGUUCUGAAAGUCCACCUG-------CAAGCGGGAAGG--AU
(.((((((....)))))).)(((((.......(((((((...((((((((...))))((((...))))....)))).))))))).)))))((((-------....))))....--.. ( -35.60)
>consensus
GGUGGAUCAGCACGUCCAGCUGGACGCUGCUGUUCAGAAAGAAGUUGAUGUCGCAGCCGGGACUGCCAAAGAAGCUGUUCUGAAAGUCCACCUG_______CAAGAACAAAGA___U
(((((((.(((((((((....))))).)))).(((((((...((((......((((......))))......)))).))))))).)))))))......................... (-24.86 = -26.42 +   1.56)

alignment

secondary structure

dotplot

Window 9

Location	645,257 – 645,365
Length	108
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	80.39
Mean single sequence MFE	-32.95
Consensus MFE	-22.70
Energy contribution	-22.82
Covariance contribution	0.12
Combinations/Pair	1.35
Mean z-score	-1.74
Structure conservation index	0.69
SVM decision value	0.60
SVM RNA-class probability	0.796032
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 645257 108 - 22224390
GC--UCUAUGCAAUUC-------CAGGUGGAUUUCCAAAACAGCUUCUUCGGCAGCCCAGGCUGCGACAUAAACUUCUUCCUAAACAGCAGCGUCCAGCUGGACGUGUUGAUCCACC
((--.....)).....-------..(((((((...................(((((....)))))....................(((((.(((((....))))))))))))))))) ( -35.30)
>DroVir_CAF1 5129 104 - 1
------CGUUUGCUUG-------CAGGUGGACUUUCAGAACAGCUUCUUUGGUAGUCCCGGCUGCGAUAUCAAUUUCUUUCUCAACAGCAGCGUUCAGCUGGACGUGCUGAUUCACA
------.......(((-------(((.((((((.(((((........))))).))).))).))))))..................(((((.(((((....))))))))))....... ( -31.10)
>DroGri_CAF1 5093 117 - 1
AUGAUUUUUGUUUUUCUGGUCCACAGGUGGACUUUCAGAACAGUUUCUUUGGCAGUCCCGGCUGCGAUAUCAACUUCUUUCUGAACAGCAGCGUACAGCUGGACGUGCUGAUCCAUC
..((((..((((...((((((((....))))).(((((((.((((....(.(((((....))))).)....))))...))))))))))((((.....))))))))....)))).... ( -33.90)
>DroMoj_CAF1 5584 105 - 1
A-----CUUCUUCUUC-------UAGGUGGACUUUCAGAACAGUUUCUUUGGCAGUCCCGGCUGCGACAUCAACUUCUUUCUCAACAGCAGCGUCCAGCUGGACGUGCUCAUGCACA
.-----........((-------(((.(((((...((((........))))(((((....)))))...........................))))).))))).((((....)))). ( -30.00)
>DroAna_CAF1 3509 108 - 1
AA--UCCUUGUCCCUG-------UAGGUGGACUUUCAGAACAGCUUCUUUGGCAGUCCGGGCUGCGACAUCAACUUCUUCCUGAACAGCAGCGUCCAGCUGGACGUGCUCAUCCACC
..--............-------..((((((..(((((..(((.....)))(((((....)))))...............))))).((((.(((((....)))))))))..)))))) ( -33.10)
>DroPer_CAF1 14933 108 - 1
AU--CCUUCCCGCUUG-------CAGGUGGACUUUCAGAACAGCUUUUUCGGGAGUCCCGGAUGCGACAUCAACUUCUUUCUGAACAGCAGCGUCCAGCUGGAUGUGCUCAUCCACC
..--............-------..((((((..(((((((..((...((((((...)))))).))(....).......))))))).((((.(((((....)))))))))..)))))) ( -34.30)
>consensus
A___UCCUUGUGCUUC_______CAGGUGGACUUUCAGAACAGCUUCUUUGGCAGUCCCGGCUGCGACAUCAACUUCUUUCUGAACAGCAGCGUCCAGCUGGACGUGCUCAUCCACC
.........................((((((....................(((((....))))).....................((((.(((((....)))))))))..)))))) (-22.70 = -22.82 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:22 2006