Locus 6123

Sequence ID	X_DroMel_CAF1
Location	15,686,769 – 15,686,863
Length	94
Max. P	0.993045

overview

Window 7

Location	15,686,769 – 15,686,863
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	84.41
Mean single sequence MFE	-21.42
Consensus MFE	-10.87
Energy contribution	-11.03
Covariance contribution	0.16
Combinations/Pair	1.15
Mean z-score	-2.96
Structure conservation index	0.51
SVM decision value	0.48
SVM RNA-class probability	0.752771
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15686769 94 + 22224390
UUGAAUUUUUCUCAAUUUUAUAUCAAUGCCUUUGUACACACACAUACGCAUAUGCAUAUAUGCAUAUGUACGUAUGUAUGUGCUUGUGUAGUUG
((((.......))))...................((((((((((((((((((((((....)))))))))......)))))))..)))))).... ( -23.70)
>DroSec_CAF1 2444 86 + 1
UUGAAUUUUUCUCAAUUUUAUAUCAAUGCCUUUGUACACACACAUACGCAUAUG--------CAUAUGUACGUAUGUAUGUGUUUGUGUAGUUG
((((.......))))...................((((((.(((((..((((((--------........))))))..))))).)))))).... ( -19.60)
>DroSim_CAF1 2319 86 + 1
UUGAAUUUUUCUCAAUUUUAUAUCAAUGCCUUUGUACACACACAUACGCAUAUG--------CAUAUGUACGUAUGUAUGUGUUUGUGUAGUUG
((((.......))))...................((((((.(((((..((((((--------........))))))..))))).)))))).... ( -19.60)
>DroEre_CAF1 3776 83 + 1
UUGAAUUUUUCUCAAUUUUAUUUCAAUGCCUUUGUAAAUACACAUAUGCAUAUGCA----------CGUAUGUAUGUAUGU-CGUGUGUAGUUG
(((((................)))))...........((((((((((((((((...----------.....))))))))))-.))))))..... ( -16.19)
>DroYak_CAF1 2322 84 + 1
UUGAAUUUUUCUCAACUUUAAUUCAAUGCCUUUGUACAUACACACAUGCAUAUGUA----------CGUUUGCAUGUGUGUGCGUGUGCAGUUG
(((((((............))))))).....(((((((((((((((((((.((...----------.)).)))))))))))..))))))))... ( -28.00)
>consensus
UUGAAUUUUUCUCAAUUUUAUAUCAAUGCCUUUGUACACACACAUACGCAUAUG_A______CAUAUGUACGUAUGUAUGUGCUUGUGUAGUUG
((((.......))))...................((((((..((((..((((((................))))))..))))..)))))).... (-10.87 = -11.03 +   0.16)

alignment

secondary structure

dotplot

Window 8

Location	15,686,769 – 15,686,863
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	84.41
Mean single sequence MFE	-20.22
Consensus MFE	-13.64
Energy contribution	-15.68
Covariance contribution	2.04
Combinations/Pair	1.26
Mean z-score	-3.61
Structure conservation index	0.67
SVM decision value	2.37
SVM RNA-class probability	0.993045
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15686769 94 - 22224390
CAACUACACAAGCACAUACAUACGUACAUAUGCAUAUAUGCAUAUGCGUAUGUGUGUGUACAAAGGCAUUGAUAUAAAAUUGAGAAAAAUUCAA
...........(((((((((((((..((((((((....)))))))))))))))))))))................................... ( -28.20)
>DroSec_CAF1 2444 86 - 1
CAACUACACAAACACAUACAUACGUACAUAUG--------CAUAUGCGUAUGUGUGUGUACAAAGGCAUUGAUAUAAAAUUGAGAAAAAUUCAA
...........(((((((((((((((.((...--------.)).)))))))))))))))................................... ( -20.40)
>DroSim_CAF1 2319 86 - 1
CAACUACACAAACACAUACAUACGUACAUAUG--------CAUAUGCGUAUGUGUGUGUACAAAGGCAUUGAUAUAAAAUUGAGAAAAAUUCAA
...........(((((((((((((((.((...--------.)).)))))))))))))))................................... ( -20.40)
>DroEre_CAF1 3776 83 - 1
CAACUACACACG-ACAUACAUACAUACG----------UGCAUAUGCAUAUGUGUAUUUACAAAGGCAUUGAAAUAAAAUUGAGAAAAAUUCAA
............-......(((((((..----------(((....)))..)))))))..................................... ( -10.60)
>DroYak_CAF1 2322 84 - 1
CAACUGCACACGCACACACAUGCAAACG----------UACAUAUGCAUGUGUGUAUGUACAAAGGCAUUGAAUUAAAGUUGAGAAAAAUUCAA
(((((((....))(((((((((((....----------......)))))))))))((((......))))........)))))............ ( -21.50)
>consensus
CAACUACACAAGCACAUACAUACGUACAUAUG______U_CAUAUGCGUAUGUGUGUGUACAAAGGCAUUGAUAUAAAAUUGAGAAAAAUUCAA
...........(((((((((((((..((((((........)))))))))))))))))))................................... (-13.64 = -15.68 +   2.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:52 2006