Locus 6864

Sequence ID	3L_DroMel_CAF1
Location	18,438,583 – 18,438,692
Length	109
Max. P	0.710804

overview

Window 2

Location	18,438,583 – 18,438,692
Length	109
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	89.42
Mean single sequence MFE	-20.60
Consensus MFE	-14.80
Energy contribution	-16.20
Covariance contribution	1.40
Combinations/Pair	1.00
Mean z-score	-1.72
Structure conservation index	0.72
SVM decision value	-0.00
SVM RNA-class probability	0.532456
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18438583 109 + 23771897
AACCACUUCAACCGAUUUUCUCUUGCGUUUCCCAAUGAAUACUUAAUAUUCCUCUUUUCGGAUAGAAAGCAAAAGCCGAAAAGGAAAAUCGGAAAAUCGGAAAAUCGGU
..........(((((((((((......(((((....(((((.....))))).(((((((((..............)))))))))......)))))...))))))))))) ( -28.44)
>DroSec_CAF1 79947 102 + 1
AACAACUUCAACCGCUUUUCUCUUGCGUUUCCCAAUGAAUAAUUAAUAUCCCUCUUUUCGGAUAGAAAUCAAAAGCCGAAAAGGAAAAUCCGA-------AAAAUCGGU
..........((((.(((((.....((((....))))...............(((((((((..............))))))))).......))-------)))..)))) ( -15.44)
>DroSim_CAF1 72715 102 + 1
AACCACUUCAACCGAUUUUCUCUUGCGUUUCCCAAUGAAUACUUAAUAUCCCUCUUUUCGGAUAGAAAGCAAAAGCCGAAAAGGAAAAUCCGA-------AAAAUCGGU
..........(((((((((.((((((.((((....(((....))).(((((........)))))))))))))..........((.....))))-------))))))))) ( -19.50)
>DroEre_CAF1 77766 100 + 1
AACCACUUCAACCGAUUCUCUCUUGCGUUUCCCAAUGAAUACUUAACAUCCCUCUUUUCGGAUAGAAGGCAAAAGCCGAA-AGGAAAAUCGGAAAAU--------CGGU
..........(((((((.(((......(((((...............((((........))))....(((....)))...-.)))))...))).)))--------)))) ( -21.70)
>DroYak_CAF1 79696 109 + 1
AACCACUUCAACCGAUUCCCUCUUGCGUUUCCCAAUGAAUACUUAAUAUCCCUCUUUUCGGAUAGAAAGCAAAAGCCGAAAAGGAAAAUCGGAAAAUCUGAAAACCGGU
.(((.......((..(((.((.((((.((((....(((....))).(((((........))))))))))))).))..)))..))....((((.....)))).....))) ( -17.90)
>consensus
AACCACUUCAACCGAUUUUCUCUUGCGUUUCCCAAUGAAUACUUAAUAUCCCUCUUUUCGGAUAGAAAGCAAAAGCCGAAAAGGAAAAUCGGAAAAU___AAAAUCGGU
...........(((((((((.....((((....))))................((((((((..............)))))))))))))))))................. (-14.80 = -16.20 +   1.40)

alignment

secondary structure

dotplot

Window 3

Location	18,438,583 – 18,438,692
Length	109
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	89.42
Mean single sequence MFE	-28.70
Consensus MFE	-20.94
Energy contribution	-21.86
Covariance contribution	0.92
Combinations/Pair	1.14
Mean z-score	-1.94
Structure conservation index	0.73
SVM decision value	0.37
SVM RNA-class probability	0.710804
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18438583 109 - 23771897
ACCGAUUUUCCGAUUUUCCGAUUUUCCUUUUCGGCUUUUGCUUUCUAUCCGAAAAGAGGAAUAUUAAGUAUUCAUUGGGAAACGCAAGAGAAAAUCGGUUGAAGUGGUU
((((((((((...(((((((((....((((((((..............))))))))..((((((...)))))))))))))))(....).)))))))))).......... ( -31.54)
>DroSec_CAF1 79947 102 - 1
ACCGAUUUU-------UCGGAUUUUCCUUUUCGGCUUUUGAUUUCUAUCCGAAAAGAGGGAUAUUAAUUAUUCAUUGGGAAACGCAAGAGAAAAGCGGUUGAAGUUGUU
.((((....-------))))......((((.(.((((((((((..(((((........)))))..)))).(((.((((....).)))))))))))).)..))))..... ( -24.40)
>DroSim_CAF1 72715 102 - 1
ACCGAUUUU-------UCGGAUUUUCCUUUUCGGCUUUUGCUUUCUAUCCGAAAAGAGGGAUAUUAAGUAUUCAUUGGGAAACGCAAGAGAAAAUCGGUUGAAGUGGUU
.((((....-------)))).....((.((((((((..(((((..(((((........)))))..)))))(((.((((....).)))..)))....)))))))).)).. ( -27.50)
>DroEre_CAF1 77766 100 - 1
ACCG--------AUUUUCCGAUUUUCCU-UUCGGCUUUUGCCUUCUAUCCGAAAAGAGGGAUGUUAAGUAUUCAUUGGGAAACGCAAGAGAGAAUCGGUUGAAGUGGUU
((((--------.(((.(((((((((((-(.((((((...((((((........)))))).....)))).(((.....))).)).))).)))))))))..))).)))). ( -29.40)
>DroYak_CAF1 79696 109 - 1
ACCGGUUUUCAGAUUUUCCGAUUUUCCUUUUCGGCUUUUGCUUUCUAUCCGAAAAGAGGGAUAUUAAGUAUUCAUUGGGAAACGCAAGAGGGAAUCGGUUGAAGUGGUU
(((((((..(...(((((((((....((((((((..............))))))))..((((((...)))))))))))))))(....).)..))))))).......... ( -30.64)
>consensus
ACCGAUUUU___AUUUUCCGAUUUUCCUUUUCGGCUUUUGCUUUCUAUCCGAAAAGAGGGAUAUUAAGUAUUCAUUGGGAAACGCAAGAGAAAAUCGGUUGAAGUGGUU
(((((((((...........((((..((((((((..............))))))))..))))........(((.((((....).))))))))))))))).......... (-20.94 = -21.86 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:39 2006