Locus 2645

Sequence ID	2R_DroMel_CAF1
Location	9,333,022 – 9,333,173
Length	151
Max. P	0.919625

overview

Window 5

Location	9,333,022 – 9,333,139
Length	117
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	71.37
Mean single sequence MFE	-39.53
Consensus MFE	-15.40
Energy contribution	-16.18
Covariance contribution	0.78
Combinations/Pair	1.48
Mean z-score	-2.17
Structure conservation index	0.39
SVM decision value	1.13
SVM RNA-class probability	0.919625
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9333022 117 - 20766785
GGUGAUCCGGAUGCGGCUCCGGCGGCGGU---GGCUCCGUGUCGUUGGAGUCACCAUACAUAUCCGCAUAGUGGCUGGACACACCGGGCGCCCACUGCAACAGUUGUACAAUAUACCACA
((((....((((((.((....)).))(((---(((((((......))))))))))......))))(((..(((.((((.....)))).)))....)))...............))))... ( -45.50)
>DroVir_CAF1 4231 102 - 1
CUGGCUCCGG------CUCC------------GGUUCUGUGCCAUUCACAUCCAUAUACACAUCAUUGUAAUGGGCCGUUACGCCGGGCGCCAGUCGCAUCAGUUGUACAAUAUACCACA
((((((((((------(..(------------(((..((((.....)))).((((.((((......))))))))))))....)))))).)))))........((.(((.....))).)). ( -32.20)
>DroPse_CAF1 3707 102 - 1
GGUGCUCUGG------CUCC------------GGCUCAGUGCCGUUCAUGUCGCUGUACAUUUCAGCGUAGUGGGCGGACACCCCGGGCGCCAGUUGCAUCAGUUGCACAAUAUACCACA
(((((.((((------((((------------((....(((((((((((..(((((.......)))))..)))))))).))).))))).)))))..)))))................... ( -46.60)
>DroWil_CAF1 4478 99 - 1
CAUGCUCUGG------CUCC------------GGUUCGGUGCCAUUCAUAUCAAGAUACAUUUCACUAUAG---GCCGACACUCCGGGUGUCCAAUGCACUAGUUGCACAAUAUACCACA
..(((..(((------(.((------------(...))).))))....................((((...---((.(((((.....)))))....))..)))).)))............ ( -20.50)
>DroAna_CAF1 3336 108 - 1
GGUGUUCUG------------GCGGCGGUCUCGGCUCGGUGCCGUUCAGGUCGCCGUGCAUAUCGGCAAAAUGGGCGGACACUCCGGGCGCCCAUUGCAUCAGUUGCACAAUAUACCACA
(((((..((------------((((((..((((((.....))))...))..))))))(((.....(((..(((((((..(.....)..))))))))))......))).))..)))))... ( -49.00)
>DroPer_CAF1 3682 102 - 1
GGUGCUCUGG------CUCC------------GGCUCAAUGCCGUUCAUGUCGCUGUACAUUUCAGCGUAGUGGGCGGACACCCCGGGCGCCAGUUGCAUCAGUUGCACAAUAUACCACA
(((((.((((------((((------------((.......((((((((..(((((.......)))))..)))))))).....))))).)))))..)))))................... ( -43.40)
>consensus
GGUGCUCUGG______CUCC____________GGCUCAGUGCCGUUCAUGUCGCUAUACAUAUCAGCAUAGUGGGCGGACACCCCGGGCGCCAAUUGCAUCAGUUGCACAAUAUACCACA
(((((.((((......................(((.....)))..........((((.(((.........))).)))).....)))))))))...((((.....))))............ (-15.40 = -16.18 +   0.78)

alignment

secondary structure

dotplot

Window 6

Location	9,333,062 – 9,333,173
Length	111
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	86.02
Mean single sequence MFE	-50.28
Consensus MFE	-38.67
Energy contribution	-39.62
Covariance contribution	0.95
Combinations/Pair	1.21
Mean z-score	-2.26
Structure conservation index	0.77
SVM decision value	0.18
SVM RNA-class probability	0.619901
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9333062 111 - 20766785
U---CCUUCUUCCCAUGCCCAUUGCCGUUGCGAGCAUGGUGAUCCGGAUGCGGCUCCGGCGGCGGU---GGCUCCGUGUCGUUGGAGUCACCAUACAUAUCCGCAUAGUGGCUGGAC
.---........(((.((((...(((((((.((((.(((....)))......)))))))))))(((---(((((((......))))))))))...............).)))))).. ( -47.10)
>DroSec_CAF1 3353 111 - 1
U---CCUUCUUCCCAUGCCCAUUGCCGUUGCGGGCAUGGUGCUCCGGAUGCGGCUCCGGCGGCGGU---GGCUCCGUGUCAUUGGAGUCGCCGUACAUGUCCGCAUAGUGGCUGGAC
.---........(((.(((.((((....((((((((((...(.(((((......))))).)(((((---(((((((......)))))))))))).)))))))))))))))))))).. ( -55.60)
>DroSim_CAF1 3377 111 - 1
U---CCUUCUUCCCAUGCCCAUUGCCGUUGCGGGCAUGGUGCUCCGGAUGCGGCUCCGGCGGCGGU---GGCUCCGUGUCAUUGGAGUCGCCGUACAUGUCCGCAUAGUGGCUGGAC
.---........(((.(((.((((....((((((((((...(.(((((......))))).)(((((---(((((((......)))))))))))).)))))))))))))))))))).. ( -55.60)
>DroEre_CAF1 3459 111 - 1
U---CCUUCUUCCCAUGCCCAUUGCCGUUGCGGGCAUGGUGCUCCGGAUGCGGCUCUGGCGGCGGU---GGCUCCGUGUCGUUGGAGUCGCCGUACAUGUCCGCAUAGUGGCUGGAC
(---((......((((((((...((....)))))))))).((..(..((((((...((...(((((---(((((((......)))))))))))).))...)))))).)..)).))). ( -53.70)
>DroYak_CAF1 6123 111 - 1
U---CCUUCUUCCCAUGCCCAUUGCCGUUGCGGCCAUGGUGCUCCGGAUGCGGCUCCGGCGGCGGU---GGCUCCGUGUCGUUGGAGUCGCCGUACAUGUCCGCAUAGUGGCUGGAC
.---........(((.(((.((((....(((((.((((...(.(((((......))))).)(((((---(((((((......)))))))))))).)))).))))))))))))))).. ( -51.20)
>DroAna_CAF1 3376 105 - 1
UUUUUCUUCUUCCCAUUCCCAUGGCCAUUCCUUUCAUGGUGUUCUG------------GCGGCGGUCUCGGCUCGGUGCCGUUCAGGUCGCCGUGCAUAUCGGCAAAAUGGGCGGAC
..........(((....(((((.(((...((......)).......------------((((((..((((((.....))))...))..)))))).......)))...))))).))). ( -38.50)
>consensus
U___CCUUCUUCCCAUGCCCAUUGCCGUUGCGGGCAUGGUGCUCCGGAUGCGGCUCCGGCGGCGGU___GGCUCCGUGUCGUUGGAGUCGCCGUACAUGUCCGCAUAGUGGCUGGAC
............(((.(((.((((....((((((((((..((((((((......))))).)))(((...(((((((......))))))))))...)))))))))))))))))))).. (-38.67 = -39.62 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:17 2006