Locus 7718

Sequence ID	2L_DroMel_CAF1
Location	21,827,949 – 21,828,075
Length	126
Max. P	0.987770

overview

Window 1

Location	21,827,949 – 21,828,062
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	98.41
Mean single sequence MFE	-30.81
Consensus MFE	-28.28
Energy contribution	-28.68
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.97
Structure conservation index	0.92
SVM decision value	2.04
SVM RNA-class probability	0.986359
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21827949 113 + 22407834
AAUGGAUCAUUAUCCGCGCACGAAUACUAAAAUAAAACCAAAGGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCC
...((((....))))...........................(((((.((.(((...)))..))....)))))..(((((((((((.(((......)))..)))))).))))) ( -31.20)
>DroSec_CAF1 68486 113 + 1
AAUGGAUCAUUAUCCGGGCACGAAUACUAAAAUAAAACCAAAGGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCC
...((((....))))((....................))...(((((.((.(((...)))..))....)))))..(((((((((((.(((......)))..)))))).))))) ( -31.65)
>DroSim_CAF1 62099 113 + 1
AAUGGAUCAUUAUCCGGGCACGAAUACUAAAAUAAAACCAAAGGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCC
...((((....))))((....................))...(((((.((.(((...)))..))....)))))..(((((((((((.(((......)))..)))))).))))) ( -31.65)
>DroEre_CAF1 76382 113 + 1
AAUGGAUCAUUAUCCGGGCACGAAUACUAAAAUAAACCCAAAAGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAUAUGGGAGAUGCC
...((((....))))(((..................)))....((((.((.(((...)))..))....))))...(((((((((((((((......))).))))))).))))) ( -31.57)
>DroYak_CAF1 66024 113 + 1
AAUGGAUCAUUAUCCGGGCACGAAUACUAAAAUAAAACCAAAAGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCC
..(((((....)))))(((..(....)................(((.....(((...)))...)))....)))..(((((((((((.(((......)))..)))))).))))) ( -28.00)
>consensus
AAUGGAUCAUUAUCCGGGCACGAAUACUAAAAUAAAACCAAAGGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCC
..(((((....)))))..........................(((((.((.(((...)))..))....)))))..(((((((((((.(((......)))..)))))).))))) (-28.28 = -28.68 +   0.40)

alignment

secondary structure

dotplot

Window 2

Location	21,827,984 – 21,828,075
Length	91
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	92.80
Mean single sequence MFE	-30.10
Consensus MFE	-25.52
Energy contribution	-26.72
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-2.06
Structure conservation index	0.85
SVM decision value	2.09
SVM RNA-class probability	0.987770
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21827984 91 + 22407834
AACCA--AAGGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCCAUAGGUCCAGGCC---
.(((.--..(((((.((.(((...)))..))....)))))..(((((((((((.(((......)))..)))))).)))))...))).......--- ( -32.70)
>DroSec_CAF1 68521 91 + 1
AACCA--AAGGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCCAUAGGUCCAGGCC---
.(((.--..(((((.((.(((...)))..))....)))))..(((((((((((.(((......)))..)))))).)))))...))).......--- ( -32.70)
>DroSim_CAF1 62134 91 + 1
AACCA--AAGGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCCAUAGGUCCAGGCC---
.(((.--..(((((.((.(((...)))..))....)))))..(((((((((((.(((......)))..)))))).)))))...))).......--- ( -32.70)
>DroYak_CAF1 66059 94 + 1
AACCA--AAAGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCCAUAGGUCCAGGCCAAC
.....--...((((.((.(((...)))..))....))))...(((((((((((.(((......)))..)))))).)))))...(((....)))... ( -29.60)
>DroAna_CAF1 66326 93 + 1
GGAGAAAGACGCGAAACAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGGGAGAUGGGAGAUGCCACAAGUCCAGGCC---
((.....((((((.....(((...)))...))).........(((((((((((...((......))..)))))).)))))....)))....))--- ( -22.80)
>consensus
AACCA__AAGGCGAAGCAGAUACAAUCGAGCGCAAUCGCCACGGCAUUCCCAUAGGUUACACGGCCAGAUGGGAGAUGCCAUAGGUCCAGGCC___
.........(((((.((.(((...)))..))....)))))..(((((((((((.(((......)))..)))))).)))))...(((....)))... (-25.52 = -26.72 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:27 2006