Locus 2519

Sequence ID	3R_DroMel_CAF1
Location	6,863,777 – 6,863,872
Length	95
Max. P	0.970328

overview

Window 2

Location	6,863,777 – 6,863,872
Length	95
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	87.57
Mean single sequence MFE	-35.42
Consensus MFE	-28.30
Energy contribution	-27.92
Covariance contribution	-0.39
Combinations/Pair	1.18
Mean z-score	-3.82
Structure conservation index	0.80
SVM decision value	1.66
SVM RNA-class probability	0.970328
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6863777 95 + 27905053
UCCCUUUUGGCCCGUU------GGUGUUGAUGCGCAGUGUUGGCAGCUGCCAACAUGGCGCCUUUCUGCCAACACUUUAGCCAUAUA----------CAAACACUAACACA
..((....))...(((------((((((.(((.(((((((((((((.((((.....)))).....)))))))))))...)))))...----------..)))))))))... ( -37.30)
>DroSec_CAF1 18044 95 + 1
UCCCUUUUGGCCCGUU------GGUGUUGAUGCGCAGUGUUGGCAGCUGCCAACAUGGCGCCUUUGUACCAACACUUUAGCCAUAUA----------CAAACACUAACACA
.......((((..(((------((((..((.((((.((((((((....)))))))).)))).))..)))))))......))))....----------.............. ( -35.10)
>DroSim_CAF1 18247 94 + 1
UCCCUUUUGGCCCGUU------GGUGUUGAUGCGCAGUGUUGGCAGCUGCCAACAUGGCGCCUUUGUGCCAACACUUUAGCCAUAUA----------CAAACACUAACAC-
..((....))...(((------((((((.(((.((((((((((((((.(((.....))))).....))))))))))...)))))...----------..)))))))))..- ( -36.00)
>DroEre_CAF1 18738 95 + 1
UCCCUUUUGGCCCGUU------GGUGUUGAUGCGCAGUGUUGGCAGCUGCCAACAUGGCGCCUUUGUGCCAACACUUUAGCCACAUA----------CAAACACUAACACA
..((....))...(((------((((((.(((.((((((((((((((.(((.....))))).....))))))))))...))..))).----------..)))))))))... ( -35.60)
>DroYak_CAF1 18347 105 + 1
UCCCUUUUGGCCCGGU------GGUGUUGAUGCGCAGUGUUGGCAGCUGCCAACAUGGCGCCUUUGUGCCAACACUUUAGCCACAUACAGUAUAGUACAAACACCAACACA
..((....))...(.(------((((((...((((.((((((((....)))))))).))))...(((((....(((.((......)).)))...)))))))))))).)... ( -35.00)
>DroAna_CAF1 16706 97 + 1
UCCCU-UUGGCCUGUUGUUGAUGGUGUUGAUGUGCAGUGUUGGCAGCUGCCAACUCGGCGCUUUUGUGCUAACACUUCUGCCACCCA----------CA-ACAAUAACA--
.....-......((((((((..((((..((.(((..(.((((((....)))))).)(((((....)))))..))).))...))))..----------))-))))))...-- ( -33.50)
>consensus
UCCCUUUUGGCCCGUU______GGUGUUGAUGCGCAGUGUUGGCAGCUGCCAACAUGGCGCCUUUGUGCCAACACUUUAGCCACAUA__________CAAACACUAACACA
.......((((...........((((..((.((((.((((((((....)))))))).)))).))..)))).........))))............................ (-28.30 = -27.92 +  -0.39)

alignment

secondary structure

dotplot

Window 3

Location	6,863,777 – 6,863,872
Length	95
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	87.57
Mean single sequence MFE	-33.56
Consensus MFE	-26.27
Energy contribution	-26.94
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.29
Structure conservation index	0.78
SVM decision value	0.13
SVM RNA-class probability	0.598426
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6863777 95 - 27905053
UGUGUUAGUGUUUG----------UAUAUGGCUAAAGUGUUGGCAGAAAGGCGCCAUGUUGGCAGCUGCCAACACUGCGCAUCAACACC------AACGGGCCAAAAGGGA
..............----------....(((((....((((((.......((((..(((((((....)))))))..)))).......))------)))))))))....... ( -32.64)
>DroSec_CAF1 18044 95 - 1
UGUGUUAGUGUUUG----------UAUAUGGCUAAAGUGUUGGUACAAAGGCGCCAUGUUGGCAGCUGCCAACACUGCGCAUCAACACC------AACGGGCCAAAAGGGA
..............----------....(((((....(((((((......((((..(((((((....)))))))..))))......)))------)))))))))....... ( -34.30)
>DroSim_CAF1 18247 94 - 1
-GUGUUAGUGUUUG----------UAUAUGGCUAAAGUGUUGGCACAAAGGCGCCAUGUUGGCAGCUGCCAACACUGCGCAUCAACACC------AACGGGCCAAAAGGGA
-.............----------....(((((....((((((.......((((..(((((((....)))))))..)))).......))------)))))))))....... ( -32.64)
>DroEre_CAF1 18738 95 - 1
UGUGUUAGUGUUUG----------UAUGUGGCUAAAGUGUUGGCACAAAGGCGCCAUGUUGGCAGCUGCCAACACUGCGCAUCAACACC------AACGGGCCAAAAGGGA
..((((.(((((.(----------.(((((.....((((((((((.....(((((.....))).)))))))))))).))))))))))).------))))..((....)).. ( -33.20)
>DroYak_CAF1 18347 105 - 1
UGUGUUGGUGUUUGUACUAUACUGUAUGUGGCUAAAGUGUUGGCACAAAGGCGCCAUGUUGGCAGCUGCCAACACUGCGCAUCAACACC------ACCGGGCCAAAAGGGA
.((((((((((..((((......))))...((...((((((((((.....(((((.....))).)))))))))))))))))))))))).------.((.........)).. ( -38.10)
>DroAna_CAF1 16706 97 - 1
--UGUUAUUGU-UG----------UGGGUGGCAGAAGUGUUAGCACAAAAGCGCCGAGUUGGCAGCUGCCAACACUGCACAUCAACACCAUCAACAACAGGCCAA-AGGGA
--.....((((-((----------(.((((((....(((....)))....))((.(.((((((....)))))).).)).......))))....))))))).((..-..)). ( -30.50)
>consensus
UGUGUUAGUGUUUG__________UAUAUGGCUAAAGUGUUGGCACAAAGGCGCCAUGUUGGCAGCUGCCAACACUGCGCAUCAACACC______AACGGGCCAAAAGGGA
............................(((((...(((((((.......((((..(((((((....)))))))..)))).)))))))...........)))))....... (-26.27 = -26.94 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:25 2006