Locus 1154

Sequence ID	2L_DroMel_CAF1
Location	3,153,467 – 3,153,597
Length	130
Max. P	0.626454

overview

Window 8

Location	3,153,467 – 3,153,562
Length	95
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	91.21
Mean single sequence MFE	-31.99
Consensus MFE	-23.12
Energy contribution	-22.88
Covariance contribution	-0.24
Combinations/Pair	1.12
Mean z-score	-2.01
Structure conservation index	0.72
SVM decision value	0.19
SVM RNA-class probability	0.626454
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3153467 95 + 22407834
UGCACACUAAUUUGUUUGCAGUGCAUGGCCUUUGGUGGUGUUGGAGGUGGCGUCAAC-CCACAG------CCACAAUCAAACUGUAAACACCCCACCGCAAC
(((.........((((((((((((((.(((...))).))))(((..((((.(....)-))))..------))).......)))))))))).......))).. ( -28.99)
>DroSec_CAF1 9044 96 + 1
UGCACACUAAUUUGUUUGCAGUGCAUGCCCUUUGGUGGUGGUGGAGGUGGCGUCAACCCCACAG------CCACAAUCAAACUGUAAACACCCCACCGCAAC
(((.........((((((((((.((.......))(((((.((((.(((.......))))))).)------))))......)))))))))).......))).. ( -30.59)
>DroSim_CAF1 10156 95 + 1
UGCACACUAAUUUGUUUGCAGUGCACGGCCUUUGGUGGUGGUGGAGGUGGCGUCAAC-CCACAG------CCACAAUCAAACUGUAAACACCCCACCGCAAC
(((.........((((((((((.(((.(((...))).)))((((..((((.(....)-))))..------))))......)))))))))).......))).. ( -33.29)
>DroEre_CAF1 8390 95 + 1
UGCACACCGAUUUGUUUGCAGUGCAUGGCCUUUGGUGGUGGAGGUGGUGGCGUCAGC-CCACAG------UCACAAUCGAACUGUAAACACCCCACUGCAAC
((((((((((...((((((...))).)))..))))))((((.(((((.(((....))-))((((------((......).)))))...)))))))))))).. ( -34.20)
>DroYak_CAF1 11479 101 + 1
UGCACACCGAUUUGUUUGCAGUGCAUGGCCUUUGAUGGUGGAGGUGGUGGCGUCAAC-CCACAGUCACAGUCACAAUCAAACUGUAAACACCCCACCGCAAC
(((((..(((.....)))..)))))......(((.((((((.((((((((.(....)-))))....(((((.........)))))...))))))))))))). ( -32.90)
>consensus
UGCACACUAAUUUGUUUGCAGUGCAUGGCCUUUGGUGGUGGUGGAGGUGGCGUCAAC_CCACAG______CCACAAUCAAACUGUAAACACCCCACCGCAAC
(((((..(((.....)))..))))).........(((((((.((.(((((.(....).))))..........(((.......)))...).)))))))))... (-23.12 = -22.88 +  -0.24)

alignment

secondary structure

dotplot

Window 9

Location	3,153,497 – 3,153,597
Length	100
Sequences	5
Columns	112
Reading direction	forward
Mean pairwise identity	86.71
Mean single sequence MFE	-30.12
Consensus MFE	-21.70
Energy contribution	-22.54
Covariance contribution	0.84
Combinations/Pair	1.12
Mean z-score	-1.67
Structure conservation index	0.72
SVM decision value	0.07
SVM RNA-class probability	0.570647
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3153497 100 + 22407834
UUUGGUGGUGUUGGAGGUGGCGUCAAC-CCACAG------CCACAAUCAAACUGUAAACACCCCACCGCAACCACAA-----CAAAAAUGAAGGGAACGUAGUUUCAGGGGA
..(((.((((((((..((((.(....)-))))..------))(((.......))).)))))))))((.(........-----((....))...(((((...))))).).)). ( -24.40)
>DroSec_CAF1 9074 106 + 1
UUUGGUGGUGGUGGAGGUGGCGUCAACCCCACAG------CCACAAUCAAACUGUAAACACCCCACCGCAACCACAAAAAAAAAAAAAUGAAGGGAAGGGACUUUCAGGGGA
..((((.(((((((.((((((............)------))(((.......)))....)))))))))).))))..............((((((.......))))))..... ( -30.90)
>DroSim_CAF1 10186 103 + 1
UUUGGUGGUGGUGGAGGUGGCGUCAAC-CCACAG------CCACAAUCAAACUGUAAACACCCCACCGCAACCACAAAAA--CAAAAAUGAAGGGAAGGGACUUUCAGGGGA
..((((.(((((((.((((((......-.....)------))(((.......)))....)))))))))).))))......--......((((((.......))))))..... ( -31.00)
>DroEre_CAF1 8420 99 + 1
UUUGGUGGUGGAGGUGGUGGCGUCAGC-CCACAG------UCACAAUCGAACUGUAAACACCCCACUGCAACCACAAC-----AAAAAUGG-GGGAGGGGACUUUCAGGGGA
....(..((((.(((((.(((....))-))((((------((......).)))))...))))))))..)..((....(-----(....)).-(..((....))..).))... ( -34.40)
>DroYak_CAF1 11509 107 + 1
UUUGAUGGUGGAGGUGGUGGCGUCAAC-CCACAGUCACAGUCACAAUCAAACUGUAAACACCCCACCGCAACCACAACA---CAAAAAUGG-GGAAAGGGACUGCCAGGGGA
.(((.((((((.((((((((.(....)-))))....(((((.........)))))...)))))))))))))((.(..((---......)).-.)...((.....)).))... ( -29.90)
>consensus
UUUGGUGGUGGUGGAGGUGGCGUCAAC_CCACAG______CCACAAUCAAACUGUAAACACCCCACCGCAACCACAAAA___CAAAAAUGAAGGGAAGGGACUUUCAGGGGA
..((((.(((((((.((((..((.......))..........(((.......)))...))))))))))).))))..............((((((.......))))))..... (-21.70 = -22.54 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:56 2006