Locus 6353

Sequence ID	X_DroMel_CAF1
Location	16,004,965 – 16,005,076
Length	111
Max. P	0.980429

overview

Window 7

Location	16,004,965 – 16,005,076
Length	111
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.92
Mean single sequence MFE	-21.85
Consensus MFE	-20.60
Energy contribution	-20.32
Covariance contribution	-0.28
Combinations/Pair	1.07
Mean z-score	-1.55
Structure conservation index	0.94
SVM decision value	1.86
SVM RNA-class probability	0.980429
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16004965 111 + 22224390
---------UGCAACUGUAUCUGUGCGCAACACCGUGUGCAAUUGCCUGAAAACAACAAAAGACAAGCAGAGCACAAUACCUAAUUGUUAAGUAUCAACAAAGUAUAAAUCUAAGAUGCA
---------.......(((((((((((((........)))..((((.((..............)).)))).)))).((((....(((((.......))))).)))).......)))))). ( -19.14)
>DroSec_CAF1 72866 110 + 1
---------UGCAUCUGUAUCUGCGCGCUACACCGUGUGCAAUUGCCUCAAAACAACAAAAGACA-GCAGAGCACAAUACCUAAUUGUUAAGUAUCAACAAAGUAUAAAUCUAAGAUGCA
---------.((((((((.(((((((((........))))..(((........))).........-)))))..)).((((....(((((.......))))).)))).......)))))). ( -23.90)
>DroSim_CAF1 67496 110 + 1
---------UGCAUCUGUAUCUGCGCGCUACACCGUGUGCAAUUGCCUCAAAACAACAAAAGACA-GCAGAGCACAAUACCUAAUUGUUAAGUAUCAACAAAGUAUAAAUCUAAGAUGCA
---------.((((((((.(((((((((........))))..(((........))).........-)))))..)).((((....(((((.......))))).)))).......)))))). ( -23.90)
>DroEre_CAF1 71994 119 + 1
AUCUGUAUCUGUAUCUGUAUCUGUGCGCCACACCGUGUGCAAUUGCCUCAAAACAACAAAAGACA-GCAGAGCACAAUACCUAAUUGUUAAGUAUCAACAAAGUAUAAAUCUAAGAUGCA
..........((((((((((.((((((((((...))).))..((((.((............))..-)))).)))))))))....(((((.......)))))............)))))). ( -21.80)
>DroYak_CAF1 57166 116 + 1
---UAUGUCUGUAUCUGUAUCUGUGCGCAACACCGUGUGCAAUUGCCUCAAAACAACAAAAGACA-GCAGAGCACAAUACCUAAUUGUUAAGUAUCAACAAAGUAUAAAUCUAAGAUGCA
---.......((((((((((.((((((((........)))..((((.((............))..-)))).)))))))))....(((((.......)))))............)))))). ( -20.50)
>consensus
_________UGCAUCUGUAUCUGUGCGCAACACCGUGUGCAAUUGCCUCAAAACAACAAAAGACA_GCAGAGCACAAUACCUAAUUGUUAAGUAUCAACAAAGUAUAAAUCUAAGAUGCA
..........((((((((.(((((((((........))))..(((........)))..........)))))..)).((((....(((((.......))))).)))).......)))))). (-20.60 = -20.32 +  -0.28)

alignment

secondary structure

dotplot

Window 8

Location	16,004,965 – 16,005,076
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.92
Mean single sequence MFE	-27.67
Consensus MFE	-24.88
Energy contribution	-25.56
Covariance contribution	0.68
Combinations/Pair	1.06
Mean z-score	-1.23
Structure conservation index	0.90
SVM decision value	0.37
SVM RNA-class probability	0.709976
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16004965 111 - 22224390
UGCAUCUUAGAUUUAUACUUUGUUGAUACUUAACAAUUAGGUAUUGUGCUCUGCUUGUCUUUUGUUGUUUUCAGGCAAUUGCACACGGUGUUGCGCACAGAUACAGUUGCA---------
.(((.((...((((((((((.((((........)))).))))))(((((..((((((..............))))))...)))))..(((.....)))))))..)).))).--------- ( -24.74)
>DroSec_CAF1 72866 110 - 1
UGCAUCUUAGAUUUAUACUUUGUUGAUACUUAACAAUUAGGUAUUGUGCUCUGC-UGUCUUUUGUUGUUUUGAGGCAAUUGCACACGGUGUAGCGCGCAGAUACAGAUGCA---------
.((((((...((((((((((.((((........)))).)))))).(((((..((-(((.....((((((....)))))).....)))))..)))))..))))..)))))).--------- ( -31.00)
>DroSim_CAF1 67496 110 - 1
UGCAUCUUAGAUUUAUACUUUGUUGAUACUUAACAAUUAGGUAUUGUGCUCUGC-UGUCUUUUGUUGUUUUGAGGCAAUUGCACACGGUGUAGCGCGCAGAUACAGAUGCA---------
.((((((...((((((((((.((((........)))).)))))).(((((..((-(((.....((((((....)))))).....)))))..)))))..))))..)))))).--------- ( -31.00)
>DroEre_CAF1 71994 119 - 1
UGCAUCUUAGAUUUAUACUUUGUUGAUACUUAACAAUUAGGUAUUGUGCUCUGC-UGUCUUUUGUUGUUUUGAGGCAAUUGCACACGGUGUGGCGCACAGAUACAGAUACAGAUACAGAU
((.((((...((((.((.(((((.((((((((.....))))))))(((((..((-(((.....((((((....)))))).....)))))..)))))))))))).))))..)))).))... ( -27.30)
>DroYak_CAF1 57166 116 - 1
UGCAUCUUAGAUUUAUACUUUGUUGAUACUUAACAAUUAGGUAUUGUGCUCUGC-UGUCUUUUGUUGUUUUGAGGCAAUUGCACACGGUGUUGCGCACAGAUACAGAUACAGACAUA---
((.((((...((((((((((.((((........)))).))))))(((((..(((-(((.....((((((....)))))).....))))))..))))).))))..)))).))......--- ( -24.30)
>consensus
UGCAUCUUAGAUUUAUACUUUGUUGAUACUUAACAAUUAGGUAUUGUGCUCUGC_UGUCUUUUGUUGUUUUGAGGCAAUUGCACACGGUGUAGCGCACAGAUACAGAUGCA_________
(((((((........(((((.((((........)))).)))))((((((.((((.((((..(((((.......)))))..).)))....)))).))))))....)))))))......... (-24.88 = -25.56 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:32 2006