Locus 4972

Sequence ID	X_DroMel_CAF1
Location	12,971,952 – 12,972,062
Length	110
Max. P	0.999933

overview

Window 7

Location	12,971,952 – 12,972,062
Length	110
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	72.10
Mean single sequence MFE	-31.09
Consensus MFE	-11.12
Energy contribution	-13.80
Covariance contribution	2.68
Combinations/Pair	1.30
Mean z-score	-3.78
Structure conservation index	0.36
SVM decision value	4.65
SVM RNA-class probability	0.999933
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12971952 110 + 22224390
UGAA---ACAACAACAAUUAUCCCAACGCUUGCAACAUU--UUCGUUCGAAUUCCUCCAUUCCCAUUCCUGCUAUUUCAACUGGAAAGCUGG--AAUUGGAAUGGGAC---UGGAAGCAA
....---.......................(((......--(((....)))....((((.(((((((((....((((((.((....)).)))--))).))))))))).---)))).))). ( -31.20)
>DroSim_CAF1 6958 86 + 1
UGAA---ACAACAACAAUUAUCCCAAUGCUUGCAACAUU--UUCGUUCGAAU------------------------UCAACUGGAAAGCAGG--AAUUGGAAUGGGAC---UGGAAGCAA
....---...................(((((.((....(--..(((((.(((------------------------((..((....))...)--)))).)))))..).---)).))))). ( -21.60)
>DroEre_CAF1 6186 110 + 1
CGAA---ACAACAACAAUUAUUCCAACGAUUGCAACAUU--UUCGUUCGAAUUCCUCCAUUCCCAUUCCUGCUCUUUCAGCUGGAAGCCUGG--AAUUCGAAUGGGAU---UGGAAGCAA
....---......................((((..((.(--..((((((((((((..........((((.(((.....))).))))....))--))))))))))..).---))...)))) ( -30.34)
>DroYak_CAF1 6548 108 + 1
CGAAAAAACAACAACAAUUAUUCCAACGCUUGCAACAUU--UUCAUUCGAAUUCCUCCAU------UCCUGCUACUUCAGCUGGAAACCUGG--AAUUCGAAUGGGAUU--UGGAAGCAA
...........................((((.(((...(--..((((((((((((....(------(((.(((.....))).))))....))--))))))))))..).)--)).)))).. ( -36.50)
>DroAna_CAF1 9252 111 + 1
AACA---ACAACAACAAUUGUUCCAUCUCUUGCAACAUAUCUCGGUUCGCAUUCCUCCAAUCCC------GUUGUUUCGACUGGAUUUUUGGGGAGAGUGAAUGGGAAUAUUGCAGGUGA
...(---((((......)))))...((.((((((..((((..(.((((((.((((((.(((((.------((((...)))).)))))...)))))).)))))).)..)))))))))).)) ( -35.80)
>consensus
CGAA___ACAACAACAAUUAUUCCAACGCUUGCAACAUU__UUCGUUCGAAUUCCUCCAUUCCC__UCCUGCUAUUUCAACUGGAAACCUGG__AAUUCGAAUGGGAC___UGGAAGCAA
...........................((((.((.......((((((((((((...(((.......(((.(((.....))).)))....)))..)))))))))))).....)).)))).. (-11.12 = -13.80 +   2.68)

alignment

secondary structure

dotplot

Window 8

Location	12,971,952 – 12,972,062
Length	110
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	72.10
Mean single sequence MFE	-28.38
Consensus MFE	-5.09
Energy contribution	-7.45
Covariance contribution	2.36
Combinations/Pair	1.29
Mean z-score	-1.61
Structure conservation index	0.18
SVM decision value	0.14
SVM RNA-class probability	0.602349
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12971952 110 - 22224390
UUGCUUCCA---GUCCCAUUCCAAUU--CCAGCUUUCCAGUUGAAAUAGCAGGAAUGGGAAUGGAGGAAUUCGAACGAA--AAUGUUGCAAGCGUUGGGAUAAUUGUUGUUGU---UUCA
...((((((---.(((((((((.(((--.(((((....))))).)))....))))))))).))))))..(((....)))--(((((.....)))))(..(((((....)))))---..). ( -34.70)
>DroSim_CAF1 6958 86 - 1
UUGCUUCCA---GUCCCAUUCCAAUU--CCUGCUUUCCAGUUGA------------------------AUUCGAACGAA--AAUGUUGCAAGCAUUGGGAUAAUUGUUGUUGU---UUCA
.........---(((((.(((.((((--(..(((....))).))------------------------))).)))....--(((((.....))))))))))............---.... ( -14.90)
>DroEre_CAF1 6186 110 - 1
UUGCUUCCA---AUCCCAUUCGAAUU--CCAGGCUUCCAGCUGAAAGAGCAGGAAUGGGAAUGGAGGAAUUCGAACGAA--AAUGUUGCAAUCGUUGGAAUAAUUGUUGUUGU---UUCG
...((((((---.((((((((...((--(..(((.....)))....)))...)))))))).)))))).((((.(((((.--..........))))).))))............---.... ( -32.40)
>DroYak_CAF1 6548 108 - 1
UUGCUUCCA--AAUCCCAUUCGAAUU--CCAGGUUUCCAGCUGAAGUAGCAGGA------AUGGAGGAAUUCGAAUGAA--AAUGUUGCAAGCGUUGGAAUAAUUGUUGUUGUUUUUUCG
..((((.((--(....((((((((((--((....((((.((((...)))).)))------)....))))))))))))..--....))).))))(..((((((((....))))))))..). ( -34.60)
>DroAna_CAF1 9252 111 - 1
UCACCUGCAAUAUUCCCAUUCACUCUCCCCAAAAAUCCAGUCGAAACAAC------GGGAUUGGAGGAAUGCGAACCGAGAUAUGUUGCAAGAGAUGGAACAAUUGUUGUUGU---UGUU
((.(.(((((((((((..(((.(..((((((...((((.((.......))------.))))))).)))..).)))..).)).)))))))).).))...((((((....)))))---)... ( -25.30)
>consensus
UUGCUUCCA___AUCCCAUUCCAAUU__CCAGCUUUCCAGUUGAAAUAGCAGGA__GGGAAUGGAGGAAUUCGAACGAA__AAUGUUGCAAGCGUUGGAAUAAUUGUUGUUGU___UUCA
...((((((....((((............(((........))).............)))).))))))......(((((.....((((.((.....)).))))....)))))......... ( -5.09 =  -7.45 +   2.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:19 2006