Locus 7886

Sequence ID	X_DroMel_CAF1
Location	19,658,674 – 19,658,804
Length	130
Max. P	0.760948

overview

Window 5

Location	19,658,674 – 19,658,764
Length	90
Sequences	3
Columns	102
Reading direction	forward
Mean pairwise identity	84.88
Mean single sequence MFE	-30.27
Consensus MFE	-27.33
Energy contribution	-27.00
Covariance contribution	-0.33
Combinations/Pair	1.12
Mean z-score	-1.28
Structure conservation index	0.90
SVM decision value	0.31
SVM RNA-class probability	0.683369
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19658674 90 + 22224390
GGGUU--UUCCGGAAAAGCGGGA----------CCGUUGCAUGCCAACCAGCCAAGCACCAGGACACUUGGCACUGCCCCCCAUUCCAGGACAAUCUGUCCA
(((..--(((((......)))))----------.....(((((((((....((........))....)))))).)))..)))......((((.....)))). ( -28.00)
>DroEre_CAF1 44809 86 + 1
GGGUU--UCCCGGAAAAGCGGGA----------CCGUUGCAUGCCA-CCAGCUAACCACCCGGACACUUGGCACUGCC-CC--UCCCAGGACAAUCUGUCCA
(((..--(((((......)))))----------.....((((((((-..((....((....))...))))))).))).-..--.))).((((.....)))). ( -27.30)
>DroYak_CAF1 45046 99 + 1
GGGUUUUUCCCGGAAAAGCGGGAAAGCGGGAAGGCGUUGCAUGCCA-CCAGCUAACCACCCGGACACUUGGCACUGCCCCC--UCCCAGGACAAUCUGUCCA
(((.((((((((......)))))))).(((..((((.(((..((..-...))...((....)).......))).)))))))--.))).((((.....)))). ( -35.50)
>consensus
GGGUU__UCCCGGAAAAGCGGGA__________CCGUUGCAUGCCA_CCAGCUAACCACCCGGACACUUGGCACUGCCCCC__UCCCAGGACAAUCUGUCCA
(((..(((((((......))))))).............((((((((.....((........)).....))))).))).......))).((((.....)))). (-27.33 = -27.00 +  -0.33)

alignment

secondary structure

dotplot

Window 6

Location	19,658,702 – 19,658,804
Length	102
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	81.79
Mean single sequence MFE	-38.48
Consensus MFE	-26.81
Energy contribution	-28.12
Covariance contribution	1.31
Combinations/Pair	1.06
Mean z-score	-1.82
Structure conservation index	0.70
SVM decision value	0.50
SVM RNA-class probability	0.760948
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19658702 102 - 22224390
CGGCCAGGCUUACGUGCUUACACUUAUUACCAUGAUAAGGUGGACAGAUUGUCCUGGAAUGGGG---------GGCAG--------UGCCAAGUGUCCUGGUGCUUGGCUGGU-UGGCAU
(((((((((....(((....))).....((((.((((...(((....((((((((.......))---------)))))--------).)))..)))).)))))))))))))..-...... ( -38.20)
>DroEre_CAF1 44837 98 - 1
CGGCCAGGCUUACGUGCUUACAGUUAUUACCAUGAUAAGGUGGACAGAUUGUCCUGGGA--GG----------GGCAG--------UGCCAAGUGUCCGGGUGGUUAGCUGG--UGGCAU
..(((((((......)))).(((((((((((..((((...(((....((((((((....--))----------)))))--------).)))..))))..))))).)))))).--.))).. ( -36.90)
>DroYak_CAF1 45086 99 - 1
CGGCCAGGCUUACGUGCUUACAGUUAUUACCAUGAUAAGGUGGACAGAUUGUCCUGGGA--GGG---------GGCAG--------UGCCAAGUGUCCGGGUGGUUAGCUGG--UGGCAU
..(((((((......)))).(((((((((((..((((...(((....((((((((....--.))---------)))))--------).)))..))))..))))).)))))).--.))).. ( -36.40)
>DroAna_CAF1 47811 117 - 1
UGGCCAGGCUUACAUGCUUACAGUUAUUACCAUGAUAAGGUGGACAGAUUGCCAAUAGA--GGGGAGUGGGAGGACAGGCGCGUCCUGGCUAGUGUCCUGGUAG-UGGCUGGUGUGGCAU
..(((((((......)))).(((((((((((.......((..(.....)..)).....(--(((.(.(((.(((((......)))))..))).).)))))))))-))))))....))).. ( -42.40)
>consensus
CGGCCAGGCUUACGUGCUUACAGUUAUUACCAUGAUAAGGUGGACAGAUUGUCCUGGGA__GGG_________GGCAG________UGCCAAGUGUCCGGGUGGUUAGCUGG__UGGCAU
..(((((((......)))).((((((((((((.((((....((((.....))))...................((((.........))))...)))).)))))).))))))....))).. (-26.81 = -28.12 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:58 2006