Locus 4742

Sequence ID	X_DroMel_CAF1
Location	12,320,781 – 12,320,883
Length	102
Max. P	0.999938

overview

Window 8

Location	12,320,781 – 12,320,883
Length	102
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	96.09
Mean single sequence MFE	-37.84
Consensus MFE	-35.72
Energy contribution	-35.96
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-2.70
Structure conservation index	0.94
SVM decision value	4.54
SVM RNA-class probability	0.999917
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12320781 102 + 22224390
CUUUU-UUUGAUUCUAAGCGGCUGCGACGCCGACAGAGGCUCAGUUCGUUGUCCGGUUCCUAUUUCUGUCGACUUCGCUGCCGGCGUCGCUGAUAAUACCAUA
.....-............((((.((((.(.(((((((((......(((.....)))......))))))))).).)))).)))).................... ( -27.50)
>DroSec_CAF1 22954 102 + 1
CUUUU-AUCGAUUCUAAGCGGCUGCGACGCCGGCAGAGGCUCAGUUCGUUGUCCGGUUCCUAUUUCUGCCGACUUCGCUGCCGGCGUCGCAGAUAAUACCAUA
.....-...............(((((((((((((((.(((..........)))((((..........))))......)))))))))))))))........... ( -39.40)
>DroSim_CAF1 23422 102 + 1
CUUUU-UUCGAUUCUAAGCGGCUGCGACGCCGGCAGAGGCUCAGUUCGUUGUCCGGUUCCUAUUUCUGCCGACUUCGCUGCCGGCGUCGCAGAUAAUACCAUA
.....-...............(((((((((((((((.(((..........)))((((..........))))......)))))))))))))))........... ( -39.40)
>DroEre_CAF1 22889 100 + 1
CUUU--UUCGAUUCUA-GCGGCUGCGACGCCGGCAGAGGCUCAGUUCGUUGUCCGGUUCCUAUUUCUGCCGACUUCGCUGCCGGCGUCGCAGCUUAUACCAUA
....--..........-..(((((((((((((((((.(((..........)))((((..........))))......)))))))))))))))))......... ( -43.50)
>DroYak_CAF1 22700 103 + 1
CUUUUUUUCGAUUCUAAGCGGCUGCGACGCCGGCAGAGGCUCAGUUCGUUGUCCGGUUCCUAUUUCUGCCGACUUCGCUGCCGGCGUCGCAGAUAAUACCAUA
.....................(((((((((((((((.(((..........)))((((..........))))......)))))))))))))))........... ( -39.40)
>consensus
CUUUU_UUCGAUUCUAAGCGGCUGCGACGCCGGCAGAGGCUCAGUUCGUUGUCCGGUUCCUAUUUCUGCCGACUUCGCUGCCGGCGUCGCAGAUAAUACCAUA
.....................(((((((((((((((.(((..........)))((((..........))))......)))))))))))))))........... (-35.72 = -35.96 +   0.24)

alignment

secondary structure

dotplot

Window 9

Location	12,320,781 – 12,320,883
Length	102
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	96.09
Mean single sequence MFE	-37.24
Consensus MFE	-35.66
Energy contribution	-35.74
Covariance contribution	0.08
Combinations/Pair	1.07
Mean z-score	-2.67
Structure conservation index	0.96
SVM decision value	4.69
SVM RNA-class probability	0.999938
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12320781 102 - 22224390
UAUGGUAUUAUCAGCGACGCCGGCAGCGAAGUCGACAGAAAUAGGAACCGGACAACGAACUGAGCCUCUGUCGGCGUCGCAGCCGCUUAGAAUCAAA-AAAAG
..((((.(((..((((....)(((.((((.(((((((((....((...(((........)))..))))))))))).)))).))))))))).))))..-..... ( -32.10)
>DroSec_CAF1 22954 102 - 1
UAUGGUAUUAUCUGCGACGCCGGCAGCGAAGUCGGCAGAAAUAGGAACCGGACAACGAACUGAGCCUCUGCCGGCGUCGCAGCCGCUUAGAAUCGAU-AAAAG
..((((.(((.(((((((((((((((((....))........(((...(((........)))..)))))))))))))))))).....))).))))..-..... ( -37.40)
>DroSim_CAF1 23422 102 - 1
UAUGGUAUUAUCUGCGACGCCGGCAGCGAAGUCGGCAGAAAUAGGAACCGGACAACGAACUGAGCCUCUGCCGGCGUCGCAGCCGCUUAGAAUCGAA-AAAAG
..((((.(((.(((((((((((((((((....))........(((...(((........)))..)))))))))))))))))).....))).))))..-..... ( -37.40)
>DroEre_CAF1 22889 100 - 1
UAUGGUAUAAGCUGCGACGCCGGCAGCGAAGUCGGCAGAAAUAGGAACCGGACAACGAACUGAGCCUCUGCCGGCGUCGCAGCCGC-UAGAAUCGAA--AAAG
..((((....((((((((((((((((((....))........(((...(((........)))..))))))))))))))))))).))-))........--.... ( -41.90)
>DroYak_CAF1 22700 103 - 1
UAUGGUAUUAUCUGCGACGCCGGCAGCGAAGUCGGCAGAAAUAGGAACCGGACAACGAACUGAGCCUCUGCCGGCGUCGCAGCCGCUUAGAAUCGAAAAAAAG
..((((.(((.(((((((((((((((((....))........(((...(((........)))..)))))))))))))))))).....))).))))........ ( -37.40)
>consensus
UAUGGUAUUAUCUGCGACGCCGGCAGCGAAGUCGGCAGAAAUAGGAACCGGACAACGAACUGAGCCUCUGCCGGCGUCGCAGCCGCUUAGAAUCGAA_AAAAG
..((((.(((.(((((((((((((((((....))........(((...(((........)))..)))))))))))))))))).....))).))))........ (-35.66 = -35.74 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:17 2006