Locus 4820

Sequence ID	2R_DroMel_CAF1
Location	15,824,325 – 15,824,438
Length	113
Max. P	0.983680

overview

Window 9

Location	15,824,325 – 15,824,429
Length	104
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	91.05
Mean single sequence MFE	-33.18
Consensus MFE	-28.14
Energy contribution	-28.39
Covariance contribution	0.25
Combinations/Pair	1.09
Mean z-score	-2.94
Structure conservation index	0.85
SVM decision value	1.95
SVM RNA-class probability	0.983680
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15824325 104 - 20766785
AAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGGAACAGGCGAUAAAAGACAUUGACAACGCAGCUGCAACUUAGAGUUCCGAACCUAU
..((((((((((..(((.(((((..((---....))....((....((......))..))..................))))).))).))))).)))))........ ( -31.80)
>DroSec_CAF1 13541 104 - 1
AAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGGAACAGGCGAUAAAAGACACUGACAACGCAGCUGCAACUUAGAGUUCCGAACCGUU
..((((((((((..(((.(((((..((---....))....((....((......))..))..................))))).))).))))).)))))........ ( -31.80)
>DroSim_CAF1 16950 104 - 1
AAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGGAACAGGCGAUAAAAGACACUGACAACGCAGCUGCAACUUAGAGUUCCGAACCGUU
..((((((((((..(((.(((((..((---....))....((....((......))..))..................))))).))).))))).)))))........ ( -31.80)
>DroEre_CAF1 9288 104 - 1
AAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGAAACAGGCGAUAAAAGACACUGACAACGCAGCUGCAACUUAGAGUUCCGAACCGUU
..((((((((((..(((.(((((..((---....))....((....((......))..))..................))))).))).))))).)))))........ ( -31.80)
>DroYak_CAF1 16840 104 - 1
AAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGAAACAGGCGAUAAAAGACAGUGACAACGCAGCUGCAACUUAGAGUUCCGAACCGUU
..((((((((((..((((((((((.((---....))....((....((......))..)).....)).))))))))..((....))..))))).)))))........ ( -34.00)
>DroAna_CAF1 4531 107 - 1
AAGGAGCCUAAGGAUGUCGCUGCAACGUCCGGAGGGGACGAGACGAUCACUAAGCGGGAGUUAAAAGACACUGACAAUGCAGCUGCAACUUAGAGUUCCGAAUUUUU
..((((((((((..(((.((((((.(((((.....))))).............((((..(((....))).))).)..)))))).))).))))).)))))........ ( -37.90)
>consensus
AAGGAGCCUAAGGAUGUCGCUGCUACG___GAAACGGAAACGAAGAUGGAGAAACAGGCGAUAAAAGACACUGACAACGCAGCUGCAACUUAGAGUUCCGAACCGUU
..((((((((((..(((.(((((...........((....))............(((.............))).....))))).))).))))).)))))........ (-28.14 = -28.39 +   0.25)

alignment

secondary structure

dotplot

Window 0

Location	15,824,334 – 15,824,438
Length	104
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	91.39
Mean single sequence MFE	-27.98
Consensus MFE	-22.93
Energy contribution	-23.19
Covariance contribution	0.25
Combinations/Pair	1.09
Mean z-score	-1.93
Structure conservation index	0.82
SVM decision value	0.08
SVM RNA-class probability	0.572941
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15824334 104 - 20766785
UGACAGUUAAAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGGAACAGGCGAUAAAAGACAUUGACAACGCAGCUGCAACUUAGAGUUC
............(((((((((..(((.(((((..((---....))....((....((......))..))..................))))).))).))))).)))) ( -26.60)
>DroSec_CAF1 13550 101 - 1
---CAGUUAAAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGGAACAGGCGAUAAAAGACACUGACAACGCAGCUGCAACUUAGAGUUC
---.........(((((((((..(((.(((((..((---....))....((....((......))..))..................))))).))).))))).)))) ( -26.60)
>DroSim_CAF1 16959 101 - 1
---CAGUUAAAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGGAACAGGCGAUAAAAGACACUGACAACGCAGCUGCAACUUAGAGUUC
---.........(((((((((..(((.(((((..((---....))....((....((......))..))..................))))).))).))))).)))) ( -26.60)
>DroEre_CAF1 9297 101 - 1
---CAGUUAAAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGAAACAGGCGAUAAAAGACACUGACAACGCAGCUGCAACUUAGAGUUC
---.........(((((((((..(((.(((((..((---....))....((....((......))..))..................))))).))).))))).)))) ( -26.60)
>DroYak_CAF1 16849 101 - 1
---CAGUUAAAGGAGCCUAAGGAUGUCGCUGCUACG---GAAACGGAAACGAAGAUGGAGAAACAGGCGAUAAAAGACAGUGACAACGCAGCUGCAACUUAGAGUUC
---.........(((((((((..((((((((((.((---....))....((....((......))..)).....)).))))))))..((....))..))))).)))) ( -28.80)
>DroAna_CAF1 4540 104 - 1
---CAGUUAAAGGAGCCUAAGGAUGUCGCUGCAACGUCCGGAGGGGACGAGACGAUCACUAAGCGGGAGUUAAAAGACACUGACAAUGCAGCUGCAACUUAGAGUUC
---.........(((((((((..(((.((((((.(((((.....))))).............((((..(((....))).))).)..)))))).))).))))).)))) ( -32.70)
>consensus
___CAGUUAAAGGAGCCUAAGGAUGUCGCUGCUACG___GAAACGGAAACGAAGAUGGAGAAACAGGCGAUAAAAGACACUGACAACGCAGCUGCAACUUAGAGUUC
............(((((((((..(((.(((((...........((....))............(((.............))).....))))).))).))))).)))) (-22.93 = -23.19 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:59 2006