Locus 7006

Sequence ID	X_DroMel_CAF1
Location	17,550,598 – 17,550,697
Length	99
Max. P	0.988567

overview

Window 8

Location	17,550,598 – 17,550,697
Length	99
Sequences	4
Columns	101
Reading direction	forward
Mean pairwise identity	77.52
Mean single sequence MFE	-30.38
Consensus MFE	-14.69
Energy contribution	-13.88
Covariance contribution	-0.81
Combinations/Pair	1.35
Mean z-score	-2.42
Structure conservation index	0.48
SVM decision value	0.45
SVM RNA-class probability	0.742982
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17550598 99 + 22224390
UAUAUAUAUACAGAUGUCUGCGCAUAUAACACGGAUAUAGAGACACAUAGAGACUUACUAUACUCGUAUAUGCAUCUGGGUCGGGCG--GGUCACCGCCCA
..........((((((....)((((((...(((..(((((.................)))))..))))))))))))))....(((((--(....)))))). ( -30.33)
>DroSim_CAF1 1563 99 + 1
CAUAUAUACACAGAUGUCUGGGCAUAUAACACGGCUAUAGAGGCACAUAGAGACUUACUAUACUCGUAUAUGCAUCUGGGUCGGUCG--GGUCACCGCCCA
..........(((....))).((((((...(((..(((((((((.......).))).)))))..)))))))))....(((.((((..--....))))))). ( -26.30)
>DroEre_CAF1 7150 96 + 1
UAUAUGUGUACAGAUGUCUGGGCACAUAACGCGGAUAU----GCGCAUAGAGACUUA-UGUAGAUAUAUAUGCAUCUGGGUCGGGCGGGGGUCACCGCCCA
..((((((..(((....)))..))))))..(((.....----.))).....((((((-((((........)))))..)))))((((((......)))))). ( -38.00)
>DroAna_CAF1 6878 86 + 1
-CUAUAUAAACAGAUGUCUGGGCCUAUAUCC---AUAC----ACCCGUAG-----UUCUCUGUUUUUAUAUGCAUCUGGGUCGGGCG--GGUCACCGCCCA
-.........(((((((..(((..(((....---))).----.))).(((-----....))).........)))))))....(((((--(....)))))). ( -26.90)
>consensus
UAUAUAUAUACAGAUGUCUGGGCAUAUAACACGGAUAU____ACACAUAGAGACUUACUAUACUCGUAUAUGCAUCUGGGUCGGGCG__GGUCACCGCCCA
..(((((((.(((....)))..........................((((.......))))....))))))).....(((.(((..........)))))). (-14.69 = -13.88 +  -0.81)

alignment

secondary structure

dotplot

Window 9

Location	17,550,598 – 17,550,697
Length	99
Sequences	4
Columns	101
Reading direction	reverse
Mean pairwise identity	77.52
Mean single sequence MFE	-30.60
Consensus MFE	-17.17
Energy contribution	-17.36
Covariance contribution	0.19
Combinations/Pair	1.12
Mean z-score	-2.73
Structure conservation index	0.56
SVM decision value	2.13
SVM RNA-class probability	0.988567
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17550598 99 - 22224390
UGGGCGGUGACC--CGCCCGACCCAGAUGCAUAUACGAGUAUAGUAAGUCUCUAUGUGUCUCUAUAUCCGUGUUAUAUGCGCAGACAUCUGUAUAUAUAUA
.((((((....)--))))).....(((.(((((((.(((..........)))))))))).)))..........((((((..(((....)))..)))))).. ( -31.40)
>DroSim_CAF1 1563 99 - 1
UGGGCGGUGACC--CGACCGACCCAGAUGCAUAUACGAGUAUAGUAAGUCUCUAUGUGCCUCUAUAGCCGUGUUAUAUGCCCAGACAUCUGUGUAUAUAUG
.(((((((....--..)))).)))(((.(((((((.(((..........)))))))))).)))..........(((((((.(((....))).))))))).. ( -31.90)
>DroEre_CAF1 7150 96 - 1
UGGGCGGUGACCCCCGCCCGACCCAGAUGCAUAUAUAUCUACA-UAAGUCUCUAUGCGC----AUAUCCGCGUUAUGUGCCCAGACAUCUGUACACAUAUA
.((((((......))))))(((..(((((......)))))...-...))).....((((----......))))((((((..(((....)))..)))))).. ( -29.40)
>DroAna_CAF1 6878 86 - 1
UGGGCGGUGACC--CGCCCGACCCAGAUGCAUAUAAAAACAGAGAA-----CUACGGGU----GUAU---GGAUAUAGGCCCAGACAUCUGUUUAUAUAG-
.((((((....)--)))))............((((.(((((((...-----((..((((----.(((---....))).))))))...))))))).)))).- ( -29.70)
>consensus
UGGGCGGUGACC__CGCCCGACCCAGAUGCAUAUACAAGUAUAGUAAGUCUCUAUGUGC____AUAUCCGUGUUAUAUGCCCAGACAUCUGUAUAUAUAUA
(((((((((.....)).))).))))...(((((((.................)))))))..............((((((..(((....)))..)))))).. (-17.17 = -17.36 +   0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:56 2006