Locus 4802

Sequence ID	3L_DroMel_CAF1
Location	13,430,972 – 13,431,126
Length	154
Max. P	0.952500

overview

Window 7

Location	13,430,972 – 13,431,092
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.25
Mean single sequence MFE	-38.40
Consensus MFE	-29.96
Energy contribution	-30.24
Covariance contribution	0.28
Combinations/Pair	1.18
Mean z-score	-1.94
Structure conservation index	0.78
SVM decision value	0.90
SVM RNA-class probability	0.877025
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13430972 120 + 23771897
CAUAGAAGGAGCUCCUUACCAGAGCCUCCACUUCCGCCUCGAUUGGCUGUGCAUUUUCCUGGACGCGACGUGUGUUCAGGAAAAAUCCAGUCUCUCCGUAGACUGAAAAUGUUUCAUGCA
.......(((((((.......))).))))......(((......)))..(((((((((((((((((.....)))))))))))))...((((((......))))))...........)))) ( -41.30)
>DroSec_CAF1 28139 120 + 1
CAUAGAAGGAGCUCCUUACCAGAGCCUCCACUUCCGCCUCGAUUGACUGUGCAUUUUCCUGGACGCGACGUGUGUUCAGGAAAAAUUCGGUCUCUCCAUAGACUGCAAAUGAUCCCAGUU
.......(((((((.......))).))))...........((..(((((....(((((((((((((.....)))))))))))))...)))))..))....(((((..........))))) ( -35.60)
>DroSim_CAF1 30007 120 + 1
CAUAGAAGGAACUCCUUACCAGAGCCUCCACUUCCGGCUCGAUUGGCUGUGCAUUUUCCUGGACGCGACGUGUGUUUAGGAAAAAUCCAGUCUCUCCAUAGACUGCAAAUGAUCCAAGUU
(((((((((....)))).((((((((.........)))))...))))))))..(((((((((((((.....)))))))))))))...((((((......))))))............... ( -37.60)
>DroEre_CAF1 29179 120 + 1
CAUAGAAGGAGCUCCUUACCAGAGCCUCCACCUCCGCCUCGACUUGCUGUGGAUUUUCCUGGACGCGGCCUGUGUUCAGGAAAAAUCCAGUCUCUCCAUAGACUGCAAAUGGUCCAUGUG
.......(((((((.......))).)))).....(((...(((((((...((((((((((((((((.....))))))))).)))))))(((((......))))))))...))))...))) ( -41.30)
>DroYak_CAF1 28386 120 + 1
CAUAGAAGGAGCUCCUUACCAGAGCCUCCACCUCGGCCUCAACUUGCUGCGGAUUUUCCUGGACGCGGCGUGUGCUCAGGAAAAAACCCGUCUCUCCAUAGACUGCAAAGGGUGCAUGUU
.......(((((((.......))).)))).((.((((........)))).)).((((((((..(((.....)))..)))))))).((((((((......))))......))))....... ( -36.20)
>consensus
CAUAGAAGGAGCUCCUUACCAGAGCCUCCACUUCCGCCUCGAUUGGCUGUGCAUUUUCCUGGACGCGACGUGUGUUCAGGAAAAAUCCAGUCUCUCCAUAGACUGCAAAUGAUCCAUGUU
.......(((((((.......))).))))...........(((((..(((...(((((((((((((.....)))))))))))))....(((((......))))))))..)))))...... (-29.96 = -30.24 +   0.28)

alignment

secondary structure

dotplot

Window 8

Location	13,431,012 – 13,431,126
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	81.71
Mean single sequence MFE	-34.18
Consensus MFE	-22.88
Energy contribution	-22.84
Covariance contribution	-0.04
Combinations/Pair	1.14
Mean z-score	-2.42
Structure conservation index	0.67
SVM decision value	1.42
SVM RNA-class probability	0.952500
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13431012 114 + 23771897
GAUUGGCUGUGCAUUUUCCUGGACGCGACGUGUGUUCAGGAAAAAUCCAGUCUCUCCGUAGACUGAAAAUGUUUCAUGCA----UUUAAGUUCUUGAGUA--UUUAUUUAUGUACCGCCU
....(((.((((((((((((((((((.....)))))))))))))...((((((......)))))).((((((.....)))----))).............--........))))).))). ( -38.40)
>DroSec_CAF1 28179 118 + 1
GAUUGACUGUGCAUUUUCCUGGACGCGACGUGUGUUCAGGAAAAAUUCGGUCUCUCCAUAGACUGCAAAUGAUCCCAGUUUAUCUUUAAGUUAUUGAGUA--UUUACUUAUGUACCGCCU
(((.(((((....(((((((((((((.....)))))))))))))...((((((......))))))..........))))).))).....((...(((((.--...)))))...))..... ( -32.60)
>DroSim_CAF1 30047 118 + 1
GAUUGGCUGUGCAUUUUCCUGGACGCGACGUGUGUUUAGGAAAAAUCCAGUCUCUCCAUAGACUGCAAAUGAUCCAAGUUUUUCUCUAAGUUCUUAAGUA--UUUAUUUAUGUAUCACCU
....((..((((((((((((((((((.....)))))))))))))...((((((......))))))...................................--........)))))..)). ( -27.40)
>DroEre_CAF1 29219 118 + 1
GACUUGCUGUGGAUUUUCCUGGACGCGGCCUGUGUUCAGGAAAAAUCCAGUCUCUCCAUAGACUGCAAAUGGUCCAUGUGUUUCUUUAGAUUCUUGAGUAAAUCUAUUAAUG--GCGCCU
(((((((...((((((((((((((((.....))))))))).)))))))(((((......))))))))...))))...(((((....((((((........)))))).....)--)))).. ( -38.20)
>DroYak_CAF1 28426 116 + 1
AACUUGCUGCGGAUUUUCCUGGACGCGGCGUGUGCUCAGGAAAAAACCCGUCUCUCCAUAGACUGCAAAGGGUGCAUGUUUUUCUUUAGGUUCUUGAGUACAUUUAUUUAC----UGACU
.....((((((..(......)..))))))((((((((((((....(((.((((......))))((((.....))))............)))))))))))))))........----..... ( -34.30)
>consensus
GAUUGGCUGUGCAUUUUCCUGGACGCGACGUGUGUUCAGGAAAAAUCCAGUCUCUCCAUAGACUGCAAAUGAUCCAUGUUUUUCUUUAAGUUCUUGAGUA__UUUAUUUAUGUACCGCCU
.....(((.....(((((((((((((.....)))))))))))))...((((((......))))))...............................)))..................... (-22.88 = -22.84 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:47 2006