Locus 5192

Sequence ID	X_DroMel_CAF1
Location	13,555,118 – 13,555,273
Length	155
Max. P	0.715428

overview

Window 8

Location	13,555,118 – 13,555,237
Length	119
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	81.39
Mean single sequence MFE	-40.64
Consensus MFE	-30.55
Energy contribution	-31.25
Covariance contribution	0.70
Combinations/Pair	1.21
Mean z-score	-1.18
Structure conservation index	0.75
SVM decision value	-0.03
SVM RNA-class probability	0.520254
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13555118 119 + 22224390
CUCGAUGUUGUAAGAGCAGGGCGGCGGUGGGGGCGUCAUAUCGGCAUCACCGCCACCCAAACCCAUCGAGCAGAGCACAUUUCCAUCCACAUCCUCGAUGGUCACGUUGGACUUCUCCU
(((((((.(((....)))(((.(((((((..(.((......)).)..))))))).))).....)))))))..(((..((...(((((.........)))))......))..)))..... ( -42.40)
>DroPse_CAF1 10559 113 + 1
CUCAAUGUUGUAGCAGCAGGGCGGCGGCGGGGCCACAGAGUCCGAACUGCCACCGCCCAGGCCCAUGGAGCAGAGGACAUUCCCGUCGACAUCCUCAAUGGUUACAUUCGU------CU
....(((.((((((....((((((.((((((((......))))....)))).))))))..(((....).)).(((((...((.....))..)))))....))))))..)))------.. ( -39.00)
>DroSec_CAF1 10056 119 + 1
CUCGAUGUUGUAAGAGCAGGGCGGUGGUGGGGGCGUCAUAUCGGCAUCACCGCCACCCAAACCCAUCGAGCAGAGCACAUUUCCAUCCACAUCCUCGAUGGUGACGUUGGACUUUUCCU
.((((((((.........(((.(((((((..(.((......)).)..))))))).)))....((((((((..((.................)))))))))).))))))))......... ( -41.93)
>DroEre_CAF1 10008 119 + 1
CUCGAUGUUGUAAGAGCAGGGUGGCGGAGGCGGCGUCAAAUCGGCAUCCCCGCCACCCAAACCCAUCGAGCAGAGCACAUUUCCAUCCACAUCCUCGAUGGUCACAUUGGACUUCUCCU
.(((((((..........(((((((((.((.(.((......)).)..)))))))))))....((((((((..((.................))))))))))..)))))))......... ( -42.03)
>DroYak_CAF1 9891 119 + 1
CUCGAUGUUGUAAGAGCAGGGCGGCGGUGGCGGCGUCAUAUCGGCAUCACCGCCACCCAAACCCAUCGAACAGAGCACAUUACCAUCCACAUCCUCGAUGGUCACAUUCGAUUUCUCCU
.((((((.(((....)))(((.(((((((..(.((......)).)..))))))).))).....))))))...(((......((((((.........))))))....))).......... ( -39.50)
>DroPer_CAF1 10343 113 + 1
CUCAAUGUUGUAGCAGCAGGGCGGCGGCGGGGCCACAGAGUCCGAACUGCCACCGCCCAGGCCCAUGGAGCAGAGGACAUUCCCGUCGACAUCCUCAAUGGUUACAUUCGU------CU
....(((.((((((....((((((.((((((((......))))....)))).))))))..(((....).)).(((((...((.....))..)))))....))))))..)))------.. ( -39.00)
>consensus
CUCGAUGUUGUAAGAGCAGGGCGGCGGUGGGGGCGUCAAAUCGGCAUCACCGCCACCCAAACCCAUCGAGCAGAGCACAUUUCCAUCCACAUCCUCGAUGGUCACAUUCGACUUCUCCU
...(((((..........(((.((((((((.(.((......)).).)))))))).)))....((((((((..((.................))))))))))..)))))........... (-30.55 = -31.25 +   0.70)

alignment

secondary structure

dotplot

Window 9

Location	13,555,157 – 13,555,273
Length	116
Sequences	6
Columns	116
Reading direction	forward
Mean pairwise identity	79.86
Mean single sequence MFE	-26.02
Consensus MFE	-12.45
Energy contribution	-14.11
Covariance contribution	1.67
Combinations/Pair	1.10
Mean z-score	-2.42
Structure conservation index	0.48
SVM decision value	0.39
SVM RNA-class probability	0.715428
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13555157 116 + 22224390
AUCGGCAUCACCGCCACCCAAACCCAUCGAGCAGAGCACAUUUCCAUCCACAUCCUCGAUGGUCACGUUGGACUUCUCCUUGUCCAGAUCCAAGUCCCGAUCAAUCUCCUUCAUCU
...(((......)))........((((((((..((.................))))))))))......(((((........)))))((((........)))).............. ( -25.13)
>DroPse_CAF1 10598 104 + 1
GUCCGAACUGCCACCGCCCAGGCCCAUGGAGCAGAGGACAUUCCCGUCGACAUCCUCAAUGGUUACAUUCGU------CUUGUCUAAAUC---AUCCAG---GAUCUCUAUCGGCU
((((...((((..((((....))....)).)))).))))....(((..((.(((((..(((((((((.....------..)))...))))---))..))---))).))...))).. ( -28.30)
>DroSec_CAF1 10095 116 + 1
AUCGGCAUCACCGCCACCCAAACCCAUCGAGCAGAGCACAUUUCCAUCCACAUCCUCGAUGGUGACGUUGGACUUUUCCUUGUCCAGAUCCAAAUCCCGAUCAAUUUCCUUCAUCU
...(((......)))........((((((((..((.................))))))))))(((...(((((........)))))((((........))))........)))... ( -25.53)
>DroSim_CAF1 5010 116 + 1
AUCGGCAUCACCGCCACCCAAACCCAUCGAGCAGAGCACAUUUCCAUCUACAUCCUCGAUGGUGACGUUGGACUUCUCCUUGUCCAAAUCCAAAUCCCGAUCAAUCUCCUUCAUCU
(((((..................((((((((.(((...........))).....))))))))((...((((((........))))))...))....)))))............... ( -24.20)
>DroEre_CAF1 10047 116 + 1
AUCGGCAUCCCCGCCACCCAAACCCAUCGAGCAGAGCACAUUUCCAUCCACAUCCUCGAUGGUCACAUUGGACUUCUCCUUGUCCAGAUCCAAAUCCCGGUCAAUCUCCUUCAUCU
...(((......)))(((.....((((((((..((.................)))))))))).....((((((........))))))...........)))............... ( -24.63)
>DroPer_CAF1 10382 104 + 1
GUCCGAACUGCCACCGCCCAGGCCCAUGGAGCAGAGGACAUUCCCGUCGACAUCCUCAAUGGUUACAUUCGU------CUUGUCUAAAUC---AUCCAG---GAUCUCUAUCGGCU
((((...((((..((((....))....)).)))).))))....(((..((.(((((..(((((((((.....------..)))...))))---))..))---))).))...))).. ( -28.30)
>consensus
AUCGGCAUCACCGCCACCCAAACCCAUCGAGCAGAGCACAUUUCCAUCCACAUCCUCGAUGGUCACAUUGGACUUCUCCUUGUCCAAAUCCAAAUCCCGAUCAAUCUCCUUCAUCU
.((((..................((((((((..((.................)))))))))).....((((((........)))))).........))))................ (-12.45 = -14.11 +   1.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:58 2006