Locus 5563

Sequence ID	3L_DroMel_CAF1
Location	15,253,154 – 15,253,306
Length	152
Max. P	0.831021

overview

Window 8

Location	15,253,154 – 15,253,249
Length	95
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	86.35
Mean single sequence MFE	-25.68
Consensus MFE	-18.92
Energy contribution	-18.76
Covariance contribution	-0.16
Combinations/Pair	1.23
Mean z-score	-2.05
Structure conservation index	0.74
SVM decision value	0.71
SVM RNA-class probability	0.831021
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15253154 95 - 23771897
AAUACUUUCGUAUUCGGCU--GCUACUCCUUGGCUGCCU-----UCUGCUGCUUU-UCCUGCU---------UUUGCUGAAUGCCGAAAGGAAAGCAAUUUUCCAGCAAUAU
(((((....))))).(((.--((((.....)))).))).-----..(((((....-...((((---------(((((.....))(....))))))))......))))).... ( -24.42)
>DroSec_CAF1 142345 95 - 1
AAUACUUUCGUAUUCGGCU--GCUACUCCUUGGCUGCCU-----UCUGCUGCUUU-UCCUGCU---------CUUGCUGAAUGCCGAAAGGAAAGCAAUUUUCCAGCAAUAU
....((((((((((((((.--((........(((.((..-----...)).)))..-....)).---------...)))))))).))))))....((.........))..... ( -23.94)
>DroSim_CAF1 150556 95 - 1
AAUACUUUCGUAUUCGGCU--GCUACUCCUUGGCUGCCU-----UCUGCUGCUUU-UCCUGCU---------UUUGCUGAAUGCCGAAAGGAAAGCAAUUUUCCAGCAAUAU
(((((....))))).(((.--((((.....)))).))).-----..(((((....-...((((---------(((((.....))(....))))))))......))))).... ( -24.42)
>DroEre_CAF1 142670 104 - 1
AAUACUUUCGCAUUCGGCU--GCUACUCCUUGGCUGCCU-----UCUGCUGCUCU-UCCUGCUCUUCCUGCUUUUGCUGAAUGCCGAAAGGAAAGCAAUUUUCCAGCAAUAU
...............(((.--((((.....)))).))).-----..(((((....-...((((.(((((..(((.((.....)).))))))))))))......))))).... ( -25.52)
>DroAna_CAF1 134528 103 - 1
AAUACUUUCGGGCUUGGCUGUGCUGCUCCUUGGUUUUCUCAGCUUUGGCAGCUUUCUGGUGCC---------UUUCCUGAAUGCCGAAAGGAAAGCAAUUUUCCAGCAAUAU
...........(((.((...((((..((((((((....((((....((((.(.....).))))---------....))))..)))..))))).)))).....)))))..... ( -30.10)
>consensus
AAUACUUUCGUAUUCGGCU__GCUACUCCUUGGCUGCCU_____UCUGCUGCUUU_UCCUGCU_________UUUGCUGAAUGCCGAAAGGAAAGCAAUUUUCCAGCAAUAU
....((((((((((((((...((((.....))))................((........)).............)))))))).))))))....((.........))..... (-18.92 = -18.76 +  -0.16)

alignment

secondary structure

dotplot

Window 9

Location	15,253,212 – 15,253,306
Length	94
Sequences	4
Columns	109
Reading direction	forward
Mean pairwise identity	85.85
Mean single sequence MFE	-25.16
Consensus MFE	-17.39
Energy contribution	-17.20
Covariance contribution	-0.19
Combinations/Pair	1.05
Mean z-score	-1.46
Structure conservation index	0.69
SVM decision value	-0.02
SVM RNA-class probability	0.523642
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15253212 94 + 23771897
AGGCAGCCAAGGAGUAGCAGCCGAAUACGAAAGUAUUGUUAACCAACAAUAACAACAACACAAAGGGGGAUGGG------------UGCGGCAGGGGGUG---GCUAUA
.(((.(((.....((.(((.((.(((((....)))))(((..((....................))..))))).------------))).))....))).---)))... ( -24.45)
>DroSec_CAF1 142403 97 + 1
AGGCAGCCAAGGAGUAGCAGCCGAAUACGAAAGUAUUGUUAACCAACAAUAACAACAACACAAAGGGGGAUGUC------------UGCGGCAGGGGGUGGCGGCUAUA
.(((.((((..(.((((((.((.(((((....)))))((((........))))..............)).)).)------------)))..)......)))).)))... ( -24.30)
>DroSim_CAF1 150614 97 + 1
AGGCAGCCAAGGAGUAGCAGCCGAAUACGAAAGUAUUGUUAACCAACAAUAACAACAACACAAAGGGGGAUGGC------------UGCGGCAGGGGGUGGCGGCUAUA
.(((.((((....((.((((((.(((((....)))))(((..((....................))..))))))------------))).))......)))).)))... ( -31.35)
>DroEre_CAF1 142737 100 + 1
AGGCAGCCAAGGAGUAGCAGCCGAAUGCGAAAGUAUUGUUAACCAACAAUAACAACGACACAAAGGGGGAUGAGGUGGGAAAAUCGGGCGGCGGGGGGUG---------
..((.(((...((....(.(((.(((((....)))))(((..((....................))..)))..)))..)....)).))).))........--------- ( -20.55)
>consensus
AGGCAGCCAAGGAGUAGCAGCCGAAUACGAAAGUAUUGUUAACCAACAAUAACAACAACACAAAGGGGGAUGGC____________UGCGGCAGGGGGUG___GCUAUA
...((.((..(......).(((((((((....)))))(((..((....................))..))).................))))...)).))......... (-17.39 = -17.20 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:28 2006