Locus 6762

Sequence ID	2L_DroMel_CAF1
Location	18,901,521 – 18,901,650
Length	129
Max. P	0.924246

overview

Window 8

Location	18,901,521 – 18,901,629
Length	108
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	79.35
Mean single sequence MFE	-20.65
Consensus MFE	-16.60
Energy contribution	-16.43
Covariance contribution	-0.17
Combinations/Pair	1.19
Mean z-score	-1.88
Structure conservation index	0.80
SVM decision value	1.16
SVM RNA-class probability	0.924246
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18901521 108 + 22407834
-UCAUUCACAUCCACAUCAAGAUGGCGUCGCUUUCAUUGCACACAAAAGUGUAAAAUGUUUACGCUUCGCUGGGGCUUCCUCCCGCUCCUCCCGCUUCUUCCAUCCUUC
-...................(((((((..((...((((..((((....))))..)))).....))..))).(((((........)))))............)))).... ( -23.10)
>DroPse_CAF1 22698 92 + 1
----UCCCCAUCAACAUAAAGAUGGCGUCGCUUUCAUUGCACACAAAAGUGUAAAAUGUUUACGCUUCGCUUAGGUUUCCUUUUGCCGCUU-------UUCCU------
----....((((........))))(((..((...((((..((((....))))..)))).....))..)))...(((........)))....-------.....------ ( -18.20)
>DroSim_CAF1 25900 105 + 1
-CCAUUCACAUCCACAUCAAGAUGGCGUCGCCUUCAUUGCACACAAAAGUGUAAAAUGUUUACGCUUCGCUGGGGCUUCCUCCCGCUCCUCC---AUCUUCCUUUCUUC
-.................(((((((((..((...((((..((((....))))..)))).....))..))).(((((........)))))..)---)))))......... ( -25.00)
>DroYak_CAF1 25516 106 + 1
CACAUCCACAUCCACAUCAAGAUGGCGUCGCUUUCAUUGCACACAAAAGUGUAAAAUGUUUACGCUUCGCUGGGGCUUCCUCCCGCUCGUCC---UGCUUCCUUCCUUC
........((((........))))(((..((...((((..((((....))))..)))).....))..))).((((.....))))((......---.))........... ( -20.40)
>DroAna_CAF1 13631 88 + 1
-ACAUCCAUAUCCCCAUCAAGAUGGCGUCGCUUUCAUUGCACACAAAAGUGUAAAAUGUUUACGCUUCACUUGGGCUUCCUUUAGCCU--------------------C
-................((((..(((((......((((..((((....))))..))))...)))))...))))((((......)))).--------------------. ( -20.60)
>DroPer_CAF1 24606 92 + 1
----UCCCCAUCAACAUAAAGAUGGCGUCGCUUUCAUUGCACACAAAAGUGUAAAAUGUUUACGCUUCGCUUAGGUUUCCUUUUGCUGCUU-------UUCCU------
----...(((((........))))).............(((.....((((((((.....)))))))).((..(((...)))...)))))..-------.....------ ( -16.60)
>consensus
__CAUCCACAUCCACAUCAAGAUGGCGUCGCUUUCAUUGCACACAAAAGUGUAAAAUGUUUACGCUUCGCUGGGGCUUCCUCCCGCUCCUC_______UUCCU_____C
........((((........))))(((..((...((((..((((....))))..)))).....))..)))..((((........))))..................... (-16.60 = -16.43 +  -0.17)

alignment

secondary structure

dotplot

Window 9

Location	18,901,558 – 18,901,650
Length	92
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	71.82
Mean single sequence MFE	-16.86
Consensus MFE	-11.38
Energy contribution	-10.74
Covariance contribution	-0.64
Combinations/Pair	1.21
Mean z-score	-1.13
Structure conservation index	0.67
SVM decision value	0.02
SVM RNA-class probability	0.543904
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18901558 92 + 22407834
GCACACAAAAGUGUAAAAUGUUUACGCUUCGCUGGGGCUUCCUCCCGCUCCUCCCGCUUCUUCCAUCCUUCCU---------GCCUUUAGCUUUCCCGCUG
(((.....((((((((.....)))))))).((.(((((........)))))....))...............)---------))...((((......)))) ( -18.30)
>DroSim_CAF1 25937 89 + 1
GCACACAAAAGUGUAAAAUGUUUACGCUUCGCUGGGGCUUCCUCCCGCUCCUCC---AUCUUCCUUUCUUCCU---------UCCUUUGGCUUUCCCGCUG
((......((((((((.....)))))))).(..(((((........)))))..)---................---------...............)).. ( -15.70)
>DroEre_CAF1 24958 90 + 1
GCACACAAAAGUGUAAAAUGUUUACGCUUCGCUGGGGCUUCCUCCCGCUCGUCC---UUCUUCCUUCCCUCC-CGCUGCCCAUCCUCUGGCUUU-------
((......((((((((.....)))))))).((.((((....)))).))......---...............-.)).(((........)))...------- ( -17.50)
>DroYak_CAF1 25554 91 + 1
GCACACAAAAGUGUAAAAUGUUUACGCUUCGCUGGGGCUUCCUCCCGCUCGUCC---UGCUUCCUUCCUUCCUCACUGCCCAUCCUUUGGCCUU-------
(((.((..((((((((.....)))))))).((.((((....)))).))..))..---))).................(((........)))...------- ( -17.40)
>DroAna_CAF1 13668 72 + 1
GCACACAAAAGUGUAAAAUGUUUACGCUUCACUUGGGCUUCCUUUAGCCU--------------------CCC---------CCCUUUGUCCGGCCGGCCA
((..((((((((((((.....)))))))).....(((((......)))))--------------------...---------....))))...))...... ( -15.40)
>consensus
GCACACAAAAGUGUAAAAUGUUUACGCUUCGCUGGGGCUUCCUCCCGCUCCUCC___UUCUUCCUUCCUUCCU_________UCCUUUGGCUUUCC_GC__
((......((((((((.....))))))))....((((.....))))))..................................................... (-11.38 = -10.74 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:23 2006