Locus 3657

Sequence ID	3L_DroMel_CAF1
Location	10,715,263 – 10,715,358
Length	95
Max. P	0.975643

overview

Window 1

Location	10,715,263 – 10,715,358
Length	95
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	96.08
Mean single sequence MFE	-30.14
Consensus MFE	-27.86
Energy contribution	-27.14
Covariance contribution	-0.72
Combinations/Pair	1.15
Mean z-score	-1.46
Structure conservation index	0.92
SVM decision value	1.23
SVM RNA-class probability	0.933572
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10715263 95 + 23771897
GCUCUGCGUCGCAUUUAUU-----GUACUUAUUGUUGUUGCAAGCCGGUGGUUGGCCUGUGGACAAUUCGGCUUUUGUACACAGGGCGUAUGAGUGAUGC
.....(((((((.......-----.((((..((((....))))...))))...(.((((((.((((........)))).)))))).)......))))))) ( -28.90)
>DroSec_CAF1 49429 95 + 1
GCUCUGCGUCGCAUUUAUU-----GUAUUUAUUGUUGUUGCAAGCCGGUGGUUGGCCUGUGGACAAUUCGGCUUUUGUACACAGGGCGUAUGAGCGAUGC
(((((((((((((.....)-----))........((((((((((((((..(((.(....).)))...))))))..)))).)))))))))).))))..... ( -31.10)
>DroSim_CAF1 51230 95 + 1
GCUCUGCGUCGCAUUUAUU-----GUAUUUAUUGUUGUUGCAAGCCGGUGGUUGGCCUGUGGACAAUUCGGCUUUUGUACACAGGGCGUAUGAGUGAUGC
(((((((((((((.....)-----))........((((((((((((((..(((.(....).)))...))))))..)))).)))))))))).))))..... ( -28.70)
>DroEre_CAF1 53774 95 + 1
GCUCUGCGUCGCAUUUAUU-----GUAUUUAUUGUUGUUGCAAGCCGGUGGUUGGCCUGUGGGCAAUUCGGCUUUUGUAUACAGGGCGUAUGAGUGAUGC
(((((((((((((.....)-----)).....((((...((((((((((..((((.((...)).))))))))))..)))).)))))))))).))))..... ( -30.70)
>DroYak_CAF1 63283 100 + 1
GCUCUGCGUCGCAUUUAUUGUGUUGUAUUUAUUGUUGUUGCAAGCCGGUGGUUGGCCUGUGGGCAAUUCGGCUUUUGUACACAGGGCGUAUGAGUGAUGC
((((((((((((..((((((..(((((...........)))))..))))))...))(((((..(((........)))..))))))))))).))))..... ( -31.30)
>consensus
GCUCUGCGUCGCAUUUAUU_____GUAUUUAUUGUUGUUGCAAGCCGGUGGUUGGCCUGUGGACAAUUCGGCUUUUGUACACAGGGCGUAUGAGUGAUGC
.....(((((((.............((((..((((....))))...))))...(.((((((.((((........)))).)))))).)......))))))) (-27.86 = -27.14 +  -0.72)

alignment

secondary structure

dotplot

Window 2

Location	10,715,263 – 10,715,358
Length	95
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	96.08
Mean single sequence MFE	-19.72
Consensus MFE	-18.01
Energy contribution	-17.97
Covariance contribution	-0.04
Combinations/Pair	1.05
Mean z-score	-1.66
Structure conservation index	0.91
SVM decision value	1.75
SVM RNA-class probability	0.975643
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10715263 95 - 23771897
GCAUCACUCAUACGCCCUGUGUACAAAAGCCGAAUUGUCCACAGGCCAACCACCGGCUUGCAACAACAAUAAGUAC-----AAUAAAUGCGACGCAGAGC
......(((....(.((((((.((((........)))).)))))).)........(((((((..............-----......))))).)).))). ( -19.55)
>DroSec_CAF1 49429 95 - 1
GCAUCGCUCAUACGCCCUGUGUACAAAAGCCGAAUUGUCCACAGGCCAACCACCGGCUUGCAACAACAAUAAAUAC-----AAUAAAUGCGACGCAGAGC
.....((((....(.((((((.((((........)))).)))))).)........(((((((..............-----......))))).)).)))) ( -22.35)
>DroSim_CAF1 51230 95 - 1
GCAUCACUCAUACGCCCUGUGUACAAAAGCCGAAUUGUCCACAGGCCAACCACCGGCUUGCAACAACAAUAAAUAC-----AAUAAAUGCGACGCAGAGC
......(((....(.((((((.((((........)))).)))))).)........(((((((..............-----......))))).)).))). ( -19.55)
>DroEre_CAF1 53774 95 - 1
GCAUCACUCAUACGCCCUGUAUACAAAAGCCGAAUUGCCCACAGGCCAACCACCGGCUUGCAACAACAAUAAAUAC-----AAUAAAUGCGACGCAGAGC
.............((.((((......((((((....(((....))).......))))))(((..............-----......)))...)))).)) ( -16.85)
>DroYak_CAF1 63283 100 - 1
GCAUCACUCAUACGCCCUGUGUACAAAAGCCGAAUUGCCCACAGGCCAACCACCGGCUUGCAACAACAAUAAAUACAACACAAUAAAUGCGACGCAGAGC
.............((.((((((.(..((((((....(((....))).......))))))(((.........................)))))))))).)) ( -20.31)
>consensus
GCAUCACUCAUACGCCCUGUGUACAAAAGCCGAAUUGUCCACAGGCCAACCACCGGCUUGCAACAACAAUAAAUAC_____AAUAAAUGCGACGCAGAGC
.............((.((((((.(..((((((....(((....))).......))))))(((.........................)))))))))).)) (-18.01 = -17.97 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:23 2006