Locus 2249

Sequence ID	2R_DroMel_CAF1
Location	8,287,988 – 8,288,086
Length	98
Max. P	0.914389

overview

Window 0

Location	8,287,988 – 8,288,086
Length	98
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	91.24
Mean single sequence MFE	-37.42
Consensus MFE	-29.32
Energy contribution	-29.16
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.04
Structure conservation index	0.78
SVM decision value	1.10
SVM RNA-class probability	0.914389
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8287988 98 + 20766785
-ACCGACCUGG---CAGCUGACUGACUGUCGGGAAUGCGAAAUCCAGAAUUCAGAGUCCUGGUGCCGAGAGUCGUUAUCCUCGGCCGCAUUGCUUUUUAGCG
-.....(((((---((((.....).))))))))((((((....((((.((.....)).)))).((((((.(.......)))))))))))))(((....))). ( -35.30)
>DroSec_CAF1 13484 101 + 1
-AACGACCUGGCGGCAGCUGACUGACUGUCGGGAAUGCGGAAUCCAGAAUUCAGAGUCCUGGUGCCGAGAGUCGUUAUCCUCGGCCGCAUUGCUUUUUAGCG
-.....(((((((((((....))).))))))))((((((....((((.((.....)).)))).((((((.(.......)))))))))))))(((....))). ( -38.10)
>DroSim_CAF1 9334 101 + 1
-AACGACCUGGCGGCAGCUGACUGACUGUCGGGAAUGCGGAAUCCAGAAUUCAGAGUCCUGGUGCCGAGAGUCGUUAUCCUCGGCCGCAUUGCUUUUUAGCG
-.....(((((((((((....))).))))))))((((((....((((.((.....)).)))).((((((.(.......)))))))))))))(((....))). ( -38.10)
>DroEre_CAF1 9783 95 + 1
UACCAACCUGG---CAGC----UGACUGUCGGGAAUGCGGAAUCCAGAAUUCAGAGUCCUGGAGCCGAGAGUCGUUAUCCUCGGCCGCAUUGCUUUUUAGCA
......(((((---(((.----...))))))))((((((...(((((.((.....)).)))))((((((.(.......)))))))))))))(((....))). ( -37.50)
>DroYak_CAF1 9860 95 + 1
UACCAACCUGG---CAGC----UGACUGUCGGGGAUGCGGAAUCCAGUAUUCAAAGUCCUGGAGCCGAGAGUCGUUAUCCUCGGCCGCAUUGCUUUUUAGCA
......(((((---(((.----...))))))))((((((...(((((.((.....)).)))))((((((.(.......)))))))))))))(((....))). ( -38.10)
>consensus
_ACCGACCUGG___CAGCUGACUGACUGUCGGGAAUGCGGAAUCCAGAAUUCAGAGUCCUGGUGCCGAGAGUCGUUAUCCUCGGCCGCAUUGCUUUUUAGCG
......(((((...(((........))))))))((((((....((((.((.....)).)))).((((((.(.......)))))))))))))(((....))). (-29.32 = -29.16 +  -0.16)

alignment

secondary structure

dotplot

Window 1

Location	8,287,988 – 8,288,086
Length	98
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	91.24
Mean single sequence MFE	-33.36
Consensus MFE	-28.86
Energy contribution	-29.82
Covariance contribution	0.96
Combinations/Pair	1.03
Mean z-score	-1.59
Structure conservation index	0.87
SVM decision value	1.09
SVM RNA-class probability	0.913416
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8287988 98 - 20766785
CGCUAAAAAGCAAUGCGGCCGAGGAUAACGACUCUCGGCACCAGGACUCUGAAUUCUGGAUUUCGCAUUCCCGACAGUCAGUCAGCUG---CCAGGUCGGU-
.(((....)))(((((((((((((........))))))).((((((.......))))))....)))))).(((((...(((....)))---....))))).- ( -37.20)
>DroSec_CAF1 13484 101 - 1
CGCUAAAAAGCAAUGCGGCCGAGGAUAACGACUCUCGGCACCAGGACUCUGAAUUCUGGAUUCCGCAUUCCCGACAGUCAGUCAGCUGCCGCCAGGUCGUU-
.(((....)))(((((((((((((........))))))).((((((.......))))))....))))))...(((.....)))(((.(((....))).)))- ( -33.70)
>DroSim_CAF1 9334 101 - 1
CGCUAAAAAGCAAUGCGGCCGAGGAUAACGACUCUCGGCACCAGGACUCUGAAUUCUGGAUUCCGCAUUCCCGACAGUCAGUCAGCUGCCGCCAGGUCGUU-
.(((....)))(((((((((((((........))))))).((((((.......))))))....))))))...(((.....)))(((.(((....))).)))- ( -33.70)
>DroEre_CAF1 9783 95 - 1
UGCUAAAAAGCAAUGCGGCCGAGGAUAACGACUCUCGGCUCCAGGACUCUGAAUUCUGGAUUCCGCAUUCCCGACAGUCA----GCUG---CCAGGUUGGUA
((((((.....(((((((((((((........)))))))(((((((.......)))))))...))))))((.(.(((...----.)))---.).)))))))) ( -32.00)
>DroYak_CAF1 9860 95 - 1
UGCUAAAAAGCAAUGCGGCCGAGGAUAACGACUCUCGGCUCCAGGACUUUGAAUACUGGAUUCCGCAUCCCCGACAGUCA----GCUG---CCAGGUUGGUA
((((....))))((((((((((((........)))))))(((((...........)))))...)))))..(((((.((..----...)---)...))))).. ( -30.20)
>consensus
CGCUAAAAAGCAAUGCGGCCGAGGAUAACGACUCUCGGCACCAGGACUCUGAAUUCUGGAUUCCGCAUUCCCGACAGUCAGUCAGCUG___CCAGGUCGGU_
.(((....)))(((((((((((((........))))))).((((((.......))))))....)))))).(((((...(((....))).......))))).. (-28.86 = -29.82 +   0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:51 2006