Locus 4457

Sequence ID	X_DroMel_CAF1
Location	11,797,171 – 11,797,266
Length	95
Max. P	0.925693

overview

Window 3

Location	11,797,171 – 11,797,266
Length	95
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	78.31
Mean single sequence MFE	-20.42
Consensus MFE	-12.92
Energy contribution	-12.47
Covariance contribution	-0.44
Combinations/Pair	1.06
Mean z-score	-2.06
Structure conservation index	0.63
SVM decision value	1.17
SVM RNA-class probability	0.925693
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11797171 95 + 22224390
UUGGCAA-----CUGACUUUACGAUACAAAUCAUUAAAUAUUCCCAGACUAAUGCGGAAUAUUUAAGGACU--UAUCGUUUGUGAAAUGAUAUAUCUCUAUU
..(....-----)(.((...((((((....((.(((((((((((((......)).))))))))))).))..--))))))..)).)................. ( -19.60)
>DroVir_CAF1 3254 92 + 1
UUGGCGAAAAUAGCGACUUGACGAUACCAAUCGUUAAAUAUUCA-------UCACUGAAUAUUUAAGGACUAU---CGUGGGUAUUAUAAAAAAUCUCUACU
...((.......)).((((.((((((....((.(((((((((((-------....))))))))))).)).)))---)))))))................... ( -19.70)
>DroGri_CAF1 2514 92 + 1
UUGGCAACAAUGGUGACUUGACGAUACCAAUCGUUAAAUAUUCA-------AAACUGAAUAUUUAAGGACUAU---CGUGAAUAUUAUGAUAAAUCUCUACU
(((....)))(((((.(.....).))))).((.(((((((((((-------....))))))))))).)).(((---(((((...)))))))).......... ( -21.90)
>DroSec_CAF1 992 97 + 1
UUGGCAA-----CUGACUUAACGAUACAGAUCGUUAAAUAUUCCAAAACUAAUGCGGAAUAUUUAAGGACUAUCAUCGUGUGUGAAAUGAUAUAUCUCUAUU
..(....-----)(.((...(((((..((.((.(((((((((((...........))))))))))).))))...)))))..)).)................. ( -19.60)
>DroSim_CAF1 987 94 + 1
UUGGCAA-----CUGACUUAACGAUACAGAUCGUUAAAUAUUCCAAAACUAAUGCGGAAUAUUUAAGGACUAU---CGUGUGUGAAAUGAUAUAUCUCUAUU
..(....-----)(.((...(((((..((.((.(((((((((((...........))))))))))).))))))---)))..)).)................. ( -19.50)
>DroEre_CAF1 997 94 + 1
UUGGCAA-----CUGACUUUACGAUAAAAAUCGUUAAAUAUUCCAAGACUACUGGGGAAUAUUUAAGGACUAU---CGUGUGUGAAAUGAUACACCUCUAUU
..(....-----).......((((((....((.(((((((((((.((....))..))))))))))).)).)))---)))(((((......)))))....... ( -22.20)
>consensus
UUGGCAA_____CUGACUUAACGAUACAAAUCGUUAAAUAUUCCAA_ACUAAUGCGGAAUAUUUAAGGACUAU___CGUGUGUGAAAUGAUAUAUCUCUAUU
....................(((.......((.(((((((((((...........))))))))))).)).......)))....................... (-12.92 = -12.47 +  -0.44)

alignment

secondary structure

dotplot

Window 4

Location	11,797,171 – 11,797,266
Length	95
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	78.31
Mean single sequence MFE	-20.23
Consensus MFE	-12.98
Energy contribution	-12.87
Covariance contribution	-0.11
Combinations/Pair	1.06
Mean z-score	-2.01
Structure conservation index	0.64
SVM decision value	1.14
SVM RNA-class probability	0.921595
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11797171 95 - 22224390
AAUAGAGAUAUAUCAUUUCACAAACGAUA--AGUCCUUAAAUAUUCCGCAUUAGUCUGGGAAUAUUUAAUGAUUUGUAUCGUAAAGUCAG-----UUGCCAA
....(((((.....)))))....((((((--.(((.(((((((((((.((......))))))))))))).)))...))))))........-----....... ( -22.20)
>DroVir_CAF1 3254 92 - 1
AGUAGAGAUUUUUUAUAAUACCCACG---AUAGUCCUUAAAUAUUCAGUGA-------UGAAUAUUUAACGAUUGGUAUCGUCAAGUCGCUAUUUUCGCCAA
(((((.(((((...(..(((((....---..((((.(((((((((((....-------))))))))))).)))))))))..).))))).)))))........ ( -22.60)
>DroGri_CAF1 2514 92 - 1
AGUAGAGAUUUAUCAUAAUAUUCACG---AUAGUCCUUAAAUAUUCAGUUU-------UGAAUAUUUAACGAUUGGUAUCGUCAAGUCACCAUUGUUGCCAA
.(((((......)).........(((---((((((.((((((((((.....-------.)))))))))).))))(((..(.....)..)))))))))))... ( -15.80)
>DroSec_CAF1 992 97 - 1
AAUAGAGAUAUAUCAUUUCACACACGAUGAUAGUCCUUAAAUAUUCCGCAUUAGUUUUGGAAUAUUUAACGAUCUGUAUCGUUAAGUCAG-----UUGCCAA
....(((((.....)))))....(((((.((((((.((((((((((((.........)))))))))))).)).)))))))))........-----....... ( -21.00)
>DroSim_CAF1 987 94 - 1
AAUAGAGAUAUAUCAUUUCACACACG---AUAGUCCUUAAAUAUUCCGCAUUAGUUUUGGAAUAUUUAACGAUCUGUAUCGUUAAGUCAG-----UUGCCAA
....(((((.....)))))....(((---((((((.((((((((((((.........)))))))))))).)))...))))))........-----....... ( -19.10)
>DroEre_CAF1 997 94 - 1
AAUAGAGGUGUAUCAUUUCACACACG---AUAGUCCUUAAAUAUUCCCCAGUAGUCUUGGAAUAUUUAACGAUUUUUAUCGUAAAGUCAG-----UUGCCAA
....((((((...))))))....(((---((((((.(((((((((((..((....)).))))))))))).)))...))))))........-----....... ( -20.70)
>consensus
AAUAGAGAUAUAUCAUUUCACACACG___AUAGUCCUUAAAUAUUCCGCAUUAGU_UUGGAAUAUUUAACGAUUUGUAUCGUAAAGUCAG_____UUGCCAA
.......................(((.....((((.(((((((((((...........))))))))))).)))).....))).................... (-12.98 = -12.87 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:31 2006