Locus 7878

Sequence ID	3L_DroMel_CAF1
Location	21,030,050 – 21,030,170
Length	120
Max. P	0.884071

overview

Window 1

Location	21,030,050 – 21,030,170
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-36.03
Consensus MFE	-33.23
Energy contribution	-33.90
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.35
Structure conservation index	0.92
SVM decision value	0.93
SVM RNA-class probability	0.884071
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21030050 120 + 23771897
AAUGCCUGGAAAUUGAGUCUGGCAUUGCGGCCUUAAAUCAGUUUCCUCCCCAGCUGAACUGACAUUUAGAGUUUUGCUGAAAAAAUGGCAACGAGAGCCCAAGCUCAACGCUUAAAUAGG
..((((.(((((((((....(((......))).....)))))))))....((((.(((((.........))))).)))).......))))....((((....)))).............. ( -36.00)
>DroSec_CAF1 85066 120 + 1
AAUGCCUGGAAAUUGAGUCUGGCAUUGCGGCCUUAAAUCAGUUUCCUCCCCAGCUGAACUGACAUUUAGAGUUUUGCUGAAAAAAUGGCAACGAGAGCCCAAGCUCAACGCUUAAAUAGG
..((((.(((((((((....(((......))).....)))))))))....((((.(((((.........))))).)))).......))))....((((....)))).............. ( -36.00)
>DroEre_CAF1 6738 120 + 1
AAUGCCUGGAAAUUGAGUCUGGCAUUGCGGCCUUAAAUCAGUUUCCUCCCCAGCUGAACUGACAUUUAGAGUUUUGCUGGAAAAAUGGCAACGAGAUCCCAAACUCAACGCUUAAAUAGG
..((((.(((((((((....(((......))).....)))))))))...(((((.(((((.........))))).)))))......))))..(((........))).............. ( -36.10)
>consensus
AAUGCCUGGAAAUUGAGUCUGGCAUUGCGGCCUUAAAUCAGUUUCCUCCCCAGCUGAACUGACAUUUAGAGUUUUGCUGAAAAAAUGGCAACGAGAGCCCAAGCUCAACGCUUAAAUAGG
..((((.(((((((((....(((......))).....)))))))))....((((.(((((.........))))).)))).......))))....((((....)))).............. (-33.23 = -33.90 +   0.67)

alignment

secondary structure

dotplot

Window 2

Location	21,030,050 – 21,030,170
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-35.80
Consensus MFE	-33.31
Energy contribution	-33.20
Covariance contribution	-0.11
Combinations/Pair	1.06
Mean z-score	-1.95
Structure conservation index	0.93
SVM decision value	0.48
SVM RNA-class probability	0.753750
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21030050 120 - 23771897
CCUAUUUAAGCGUUGAGCUUGGGCUCUCGUUGCCAUUUUUUCAGCAAAACUCUAAAUGUCAGUUCAGCUGGGGAGGAAACUGAUUUAAGGCCGCAAUGCCAGACUCAAUUUCCAGGCAUU
........((((..((((....)))).))))(((...((..((((..((((.........))))..))))..))(((((.(((.((..(((......))).)).))).))))).)))... ( -35.50)
>DroSec_CAF1 85066 120 - 1
CCUAUUUAAGCGUUGAGCUUGGGCUCUCGUUGCCAUUUUUUCAGCAAAACUCUAAAUGUCAGUUCAGCUGGGGAGGAAACUGAUUUAAGGCCGCAAUGCCAGACUCAAUUUCCAGGCAUU
........((((..((((....)))).))))(((...((..((((..((((.........))))..))))..))(((((.(((.((..(((......))).)).))).))))).)))... ( -35.50)
>DroEre_CAF1 6738 120 - 1
CCUAUUUAAGCGUUGAGUUUGGGAUCUCGUUGCCAUUUUUCCAGCAAAACUCUAAAUGUCAGUUCAGCUGGGGAGGAAACUGAUUUAAGGCCGCAAUGCCAGACUCAAUUUCCAGGCAUU
.........(((((((((((((.((..((..(((...(..(((((..((((.........))))..)))))..)(....)........)))))..)).)))))))))))......))... ( -36.40)
>consensus
CCUAUUUAAGCGUUGAGCUUGGGCUCUCGUUGCCAUUUUUUCAGCAAAACUCUAAAUGUCAGUUCAGCUGGGGAGGAAACUGAUUUAAGGCCGCAAUGCCAGACUCAAUUUCCAGGCAUU
........((((..((((....)))).))))(((...((((((((..((((.........))))..))))))))(((((.(((.((..(((......))).)).))).))))).)))... (-33.31 = -33.20 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:18 2006