Locus 7225

Sequence ID	3R_DroMel_CAF1
Location	19,033,976 – 19,034,069
Length	93
Max. P	0.971285

overview

Window 1

Location	19,033,976 – 19,034,069
Length	93
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	76.19
Mean single sequence MFE	-29.84
Consensus MFE	-13.37
Energy contribution	-13.82
Covariance contribution	0.45
Combinations/Pair	1.11
Mean z-score	-2.64
Structure conservation index	0.45
SVM decision value	1.67
SVM RNA-class probability	0.971285
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19033976 93 + 27905053
AUCAUGUUUCGUUCAUUUUUCAAAAGAAAAAUGUUGCAUGCGA-GGCGACG-CG-----AC--GCGCGGUGGCUGCUACUUUUACUGCCACUGCCACCGCCU------
....((((((((.((((((((....))))))))......))))-))))..(-((-----..--(.((((((((.............)))))))))..)))..------ ( -32.42)
>DroVir_CAF1 69481 79 + 1
AUCAUGUUUCGUUCAUUUUUCAAAAGAAAAAUGUUGCAUGCGA------CG--------------GCG---GCAGCUACUUUUACUGCCACUGGCUGUGCCA------
..(((((......((((((((....))))))))..)))))...------.(--------------(((---.((((((.............)))))))))).------ ( -22.72)
>DroPse_CAF1 44103 92 + 1
AUCAUGUUUCGUUCAUUUUUCAAAAGAAAAAUGUUGCAUGC------GACG-CG-----AC--ACGCGGUGGCAGUGGCAGUGGCGGCUGCUGCUGCUGCUU--ACAG
..(((((......((((((((....))))))))..))))).------..((-((-----..--.))))(..((((..(((((....)))))..))))..)..--.... ( -36.50)
>DroGri_CAF1 57697 80 + 1
AUCAUGUUUCGUUCAUUUUUCAAAAGAAAAAUGUUGCAUGCGA------CG--------------G--GCGGCAGCUACUUUUACUGCCACUGGCUGUGCCA------
..(((((......((((((((....))))))))..)))))...------..--------------(--(((.((((((.............)))))))))).------ ( -22.42)
>DroWil_CAF1 65428 102 + 1
AUCAUGUUUCGUUCAUUUUUCAAAAGAAAAAUGUUGCAUGCGACGGCGGCGGCGGCAAAACAGCGGCAGCGGCUGCUACUUUUACUGCCACUGGCAGUGCCA------
..(((((......((((((((....))))))))..)))))....(((((((((.((............)).))))))......((((((...))))))))).------ ( -35.90)
>DroMoj_CAF1 50609 85 + 1
AUCAUGUUUCGUUCAUUUUUCAAAAGAAAAAUGUUGCAUGCGA------CG--------------GCGGUGGCAGCUACUUUUACUGCCACUGACUGUGCCCCAG---
..(((((......((((((((....))))))))..)))))..(------((--------------((((((((((.........))))))))).)))).......--- ( -29.10)
>consensus
AUCAUGUUUCGUUCAUUUUUCAAAAGAAAAAUGUUGCAUGCGA______CG______________GCGGUGGCAGCUACUUUUACUGCCACUGGCUGUGCCA______
..(((((......((((((((....))))))))..)))))..........................(((.(((.............))).)))............... (-13.37 = -13.82 +   0.45)

alignment

secondary structure

dotplot

Window 2

Location	19,033,976 – 19,034,069
Length	93
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	76.19
Mean single sequence MFE	-27.83
Consensus MFE	-11.79
Energy contribution	-12.68
Covariance contribution	0.89
Combinations/Pair	1.05
Mean z-score	-2.36
Structure conservation index	0.42
SVM decision value	0.90
SVM RNA-class probability	0.878162
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19033976 93 - 27905053
------AGGCGGUGGCAGUGGCAGUAAAAGUAGCAGCCACCGCGC--GU-----CG-CGUCGCC-UCGCAUGCAACAUUUUUCUUUUGAAAAAUGAACGAAACAUGAU
------..((((((((.((.((.......)).)).))))))))((--((-----.(-((.....-.)))))))..((((((((....))))))))............. ( -35.20)
>DroVir_CAF1 69481 79 - 1
------UGGCACAGCCAGUGGCAGUAAAAGUAGCUGC---CGC--------------CG------UCGCAUGCAACAUUUUUCUUUUGAAAAAUGAACGAAACAUGAU
------((((...))))((((((((.......)))))---)))--------------..------...((((...((((((((....)))))))).......)))).. ( -24.00)
>DroPse_CAF1 44103 92 - 1
CUGU--AAGCAGCAGCAGCAGCCGCCACUGCCACUGCCACCGCGU--GU-----CG-CGUC------GCAUGCAACAUUUUUCUUUUGAAAAAUGAACGAAACAUGAU
.(((--(.((.((((..((((......))))..))))...((((.--..-----))-))..------)).)))).((((((((....))))))))............. ( -27.20)
>DroGri_CAF1 57697 80 - 1
------UGGCACAGCCAGUGGCAGUAAAAGUAGCUGCCGC--C--------------CG------UCGCAUGCAACAUUUUUCUUUUGAAAAAUGAACGAAACAUGAU
------((((...))))((((((((.......))))))))--.--------------..------...((((...((((((((....)))))))).......)))).. ( -24.00)
>DroWil_CAF1 65428 102 - 1
------UGGCACUGCCAGUGGCAGUAAAAGUAGCAGCCGCUGCCGCUGUUUUGCCGCCGCCGCCGUCGCAUGCAACAUUUUUCUUUUGAAAAAUGAACGAAACAUGAU
------..((((.((..(((((.((((((.((((.((....)).)))))))))).))))).)).)).))......((((((((....))))))))............. ( -32.30)
>DroMoj_CAF1 50609 85 - 1
---CUGGGGCACAGUCAGUGGCAGUAAAAGUAGCUGCCACCGC--------------CG------UCGCAUGCAACAUUUUUCUUUUGAAAAAUGAACGAAACAUGAU
---.((.(((...((..((((((((.......)))))))).))--------------.)------)).)).....((((((((....))))))))............. ( -24.30)
>consensus
______UGGCACAGCCAGUGGCAGUAAAAGUAGCUGCCACCGC______________CG______UCGCAUGCAACAUUUUUCUUUUGAAAAAUGAACGAAACAUGAU
.................(((((.((.......)).)))))............................((((...((((((((....)))))))).......)))).. (-11.79 = -12.68 +   0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:37 2006