Locus 5908

Sequence ID	X_DroMel_CAF1
Location	15,233,170 – 15,233,300
Length	130
Max. P	0.785383

overview

Window 9

Location	15,233,170 – 15,233,288
Length	118
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	79.93
Mean single sequence MFE	-23.99
Consensus MFE	-15.87
Energy contribution	-15.98
Covariance contribution	0.11
Combinations/Pair	1.14
Mean z-score	-1.33
Structure conservation index	0.66
SVM decision value	0.07
SVM RNA-class probability	0.568363
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15233170 118 + 22224390
GCCUGUGCGUAAUUGAACUAUUAUAUCUAGGAUAAAUACAACAUCUGUCAUCGAAUCGCAGAUGAGCCAAAACGUGGGCACAGAUUGCUAGCCAAAAAUAUUUGCAGCAGCAAGUACA
..(((((((((.(((..(((.......)))..))).)))..(((((((.........)))))))..(((.....))))))))).(((((.((((((....))))..)))))))..... ( -29.20)
>DroVir_CAF1 70551 112 + 1
GCCUGUGCGUAAUUGAACUAUUAUAUCUAAGAUAAAUACAACAUCUGUCAUUGAAUCGCAGAUGAGCCAAAAGGUAGGCACAGAUUGCUGUCA--GCCAAAUUGCAA----AAGUUCA
..(((((((((((......))))).................(((((((.........))))))).(((....)))..)))))).((((.....--........))))----....... ( -22.62)
>DroGri_CAF1 71941 101 + 1
GCCUGUGCGUAAUUGAACUAUUAUAUCUAAGAUAAAUACAACAUCUGUAAUUGAAUCGCAGAUGAGCCAAAAGGUAGGCACAGAUUGCUGUCGGUAUUAA----U-------------
(((((((((((((......))))).................(((((((.........))))))).(((....)))..)))))(((....)))))).....----.------------- ( -21.30)
>DroWil_CAF1 79347 115 + 1
UCCUGUGCGUAAUUGAACUAUUAUAUCUAAGAUAAAUACAACAUCUGUUAUUGAAUCGCAGACAAGCCAAAAUGUAGGCACAGAUUGCUGUAAAUCAAAA---GCAGAAAUAUAUACA
....(((..((............((((...)))).........((((((.((((.(..(((.((((((........))).....))))))..).)))).)---)))))..))..))). ( -20.50)
>DroMoj_CAF1 79193 111 + 1
GCCAGUACGUAAUUGAACUAUUAUAUCUAAGAUAAAUACAACAUCUGUCAGUGAAUCGCAGAUGAGCCAGAAGGUAGGCACAGAUUGCUGUCAUUGGUAAAAUGUAA----AAAU---
((((((((((((((...........................(((((((.(.....).))))))).(((........)))...)))))).)).)))))).........----....--- ( -23.30)
>DroAna_CAF1 55473 113 + 1
GCCUGUGCGUAAUUGAACUAUUAUAUCUAAGAUAAAUACAACAUCUGUCAUUGAAUCGCAGAUGAGCCAGAAUGUGGGUACAGCUUGCUGUGAACACAAAUU--U---AGAAUGUAUA
...((((((((((......))))).((((((..........(((((((.........)))))))........((((..(((((....)))))..))))..))--)---)))..))))) ( -27.00)
>consensus
GCCUGUGCGUAAUUGAACUAUUAUAUCUAAGAUAAAUACAACAUCUGUCAUUGAAUCGCAGAUGAGCCAAAAGGUAGGCACAGAUUGCUGUCAAUAAAAA_U_GCA_____AAGUACA
..((((((.((.(((........((((...)))).......(((((((.........)))))))...)))....)).))))))................................... (-15.87 = -15.98 +   0.11)

alignment

secondary structure

dotplot

Window 0

Location	15,233,210 – 15,233,300
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	79.04
Mean single sequence MFE	-19.84
Consensus MFE	-11.35
Energy contribution	-10.93
Covariance contribution	-0.41
Combinations/Pair	1.29
Mean z-score	-1.98
Structure conservation index	0.57
SVM decision value	0.57
SVM RNA-class probability	0.785383
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15233210 90 + 22224390
ACAUCUGUCAUCGAAUCGCAGAUGAGCCAAAACGUGGGCACAGAUUGCUAGCCAAAAAUAUUUGCAGCAGCAAGUACACAGAGCAAAAUG
...(((((((((........)))))(((........))).))))(((((.........(((((((....))))))).....))))).... ( -22.54)
>DroSec_CAF1 53564 89 + 1
ACAUCUGUCAUCGAAUCGCAGAUGAGCCAAAACGUGGGCACAGAUUGCUAGCCAAAAAUAAU-GCAGCAGCAAGUACACAGAGCAAAAUG
...(((((((((........)))))(((........))).))))(((((............(-((....))).........))))).... ( -18.40)
>DroEre_CAF1 54699 86 + 1
ACAUCUGUCAUCGAAUCGCAGAUGAGCCAAAACGUGGGCACAGAUUGCUAGCCAAAAAUAAU-GC---GGCAAGUACACGGAGCAAAAUG
.(((((((.........))))))).((.....((((((((.....)))).(((.........-..---))).....))))..))...... ( -20.50)
>DroWil_CAF1 79387 83 + 1
ACAUCUGUUAUUGAAUCGCAGACAAGCCAAAAUGUAGGCACAGAUUGCUGUAAAUCAAAA---GCAGAAAUAUAUACACACA-CAAU---
...((((((.((((.(..(((.((((((........))).....))))))..).)))).)---)))))..............-....--- ( -18.70)
>DroYak_CAF1 53397 86 + 1
ACAUCUGUCAUCGAAUCGCAGAUGAGCCAAAACGUGGGCACAGAUUGCUAGCCAAAAAUAAU-GC---AGUAAAUACACAGAGCAAAAUG
...(((((((((........)))))(((........))).))))(((((.((..........-))---.((....))....))))).... ( -16.70)
>DroAna_CAF1 55513 84 + 1
ACAUCUGUCAUUGAAUCGCAGAUGAGCCAGAAUGUGGGUACAGCUUGCUGUGAACACAAAUU--U---AGAAUGUAUAU-UAGUGACAUU
.....(((((((((...((......)).....((((..(((((....)))))..))))....--.---..........)-)))))))).. ( -22.20)
>consensus
ACAUCUGUCAUCGAAUCGCAGAUGAGCCAAAACGUGGGCACAGAUUGCUAGCCAAAAAUAAU_GC___AGCAAGUACACAGAGCAAAAUG
...(((((((((........)))))(((........))).))))(((((................................))))).... (-11.35 = -10.93 +  -0.41)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:21 2006