Locus 3776

Sequence ID	3L_DroMel_CAF1
Location	10,910,567 – 10,910,659
Length	92
Max. P	0.964047

overview

Window 7

Location	10,910,567 – 10,910,659
Length	92
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	80.08
Mean single sequence MFE	-31.47
Consensus MFE	-21.47
Energy contribution	-21.42
Covariance contribution	-0.05
Combinations/Pair	1.05
Mean z-score	-2.98
Structure conservation index	0.68
SVM decision value	1.56
SVM RNA-class probability	0.964047
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10910567 92 + 23771897
--UUGCU----GCGGCCAACUUAAUUUUAGCGGCAAUCAAGCAAUAACAAGCUGCAACAUGCCGUGUUGCACGAUUGCCUUUGACUCCG----------------CUGUUACAG
--.((..----(((((...((.......)).(((((((.(((........)))(((((((...)))))))..))))))).........)----------------))))..)). ( -27.00)
>DroVir_CAF1 33696 96 + 1
--CUGCGGCCAAUAGCCAACUUAAUUUUAGCGGCAAUCAAGCAAUAACAAGCUGCAACAUGCCGUGUUGCACGAUUGCCUUUAACUCGA----------------CUCUGGCCG
--...((((((...((.............))(((((((.(((........)))(((((((...)))))))..)))))))..........----------------...)))))) ( -31.62)
>DroPse_CAF1 45843 91 + 1
CGCCG-CGCU-UCGGCCAACUUAAUUUUAGCGGCAAUCAAGCAAUAACAAGCUGCAACAUGCCGUGUUGCACGAUUGCCUUUGACUCUG----------------AGUC-----
.((((-....-.))))..(((((...((((.(((((((.(((........)))(((((((...)))))))..))))))).))))...))----------------))).----- ( -30.10)
>DroGri_CAF1 30741 112 + 1
--CUGCGGCCAAUAGCCAACUUAAUUUUAGCGGCAAUCAAGCAAUAACAAGCUGCAACAUGCCGUGUUGCACGAUUGCCUUUGACUCGAAGUGGCUUGGCCGCGGCUCUGACGA
--(((((((((..(((((.(((....((((.(((((((.(((........)))(((((((...)))))))..))))))).))))....)))))))))))))))))......... ( -49.60)
>DroEre_CAF1 41953 92 + 1
--CU---GCU-GCAGCCAACUUAAUUUUAGCGGCAAUCAAGCAAUAACAAGCUGCAACAUGCCGUGUUGCACGAUUGCCUUUGACUCCG----------------CUGCAACAU
--.(---(.(-(((((...((.......)).(((((((.(((........)))(((((((...)))))))..))))))).........)----------------))))).)). ( -30.30)
>DroMoj_CAF1 41823 96 + 1
--CUGCGACCAAUAGCCAACUUAAUUUUAGCGGCAAUCAAGCAAUAACAAGCUGCAACAUGCCGUGUUGCACGAUUGCGUUUAACUCGA----------------CUCUGUCCA
--..(.(((.......................((((((.(((........)))(((((((...)))))))..))))))(((......))----------------)...)))). ( -20.20)
>consensus
__CUGCGGCC_ACAGCCAACUUAAUUUUAGCGGCAAUCAAGCAAUAACAAGCUGCAACAUGCCGUGUUGCACGAUUGCCUUUGACUCGA________________CUCUGACAA
..........................((((.(((((((.(((........)))(((((((...)))))))..))))))).)))).............................. (-21.47 = -21.42 +  -0.05)

alignment

secondary structure

dotplot

Window 8

Location	10,910,567 – 10,910,659
Length	92
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	80.08
Mean single sequence MFE	-34.49
Consensus MFE	-23.25
Energy contribution	-23.42
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-2.67
Structure conservation index	0.67
SVM decision value	1.39
SVM RNA-class probability	0.949372
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10910567 92 - 23771897
CUGUAACAG----------------CGGAGUCAAAGGCAAUCGUGCAACACGGCAUGUUGCAGCUUGUUAUUGCUUGAUUGCCGCUAAAAUUAAGUUGGCCGC----AGCAA--
........(----------------((........(((((((((((((((.....)))))))((........)).))))))))(((((.......))))))))----.....-- ( -28.80)
>DroVir_CAF1 33696 96 - 1
CGGCCAGAG----------------UCGAGUUAAAGGCAAUCGUGCAACACGGCAUGUUGCAGCUUGUUAUUGCUUGAUUGCCGCUAAAAUUAAGUUGGCUAUUGGCCGCAG--
(((((((((----------------((((.((((.(((((((((((((((.....)))))))((........)).)))))))).......)))).)))))).)))))))...-- ( -39.70)
>DroPse_CAF1 45843 91 - 1
-----GACU----------------CAGAGUCAAAGGCAAUCGUGCAACACGGCAUGUUGCAGCUUGUUAUUGCUUGAUUGCCGCUAAAAUUAAGUUGGCCGA-AGCG-CGGCG
-----(((.----------------....)))...(((((((((((((((.....)))))))((........)).))))))))...............((((.-....-)))). ( -30.10)
>DroGri_CAF1 30741 112 - 1
UCGUCAGAGCCGCGGCCAAGCCACUUCGAGUCAAAGGCAAUCGUGCAACACGGCAUGUUGCAGCUUGUUAUUGCUUGAUUGCCGCUAAAAUUAAGUUGGCUAUUGGCCGCAG--
...........(((((((((((((((.........(((((((((((((((.....)))))))((........)).)))))))).........))).)))))..)))))))..-- ( -44.97)
>DroEre_CAF1 41953 92 - 1
AUGUUGCAG----------------CGGAGUCAAAGGCAAUCGUGCAACACGGCAUGUUGCAGCUUGUUAUUGCUUGAUUGCCGCUAAAAUUAAGUUGGCUGC-AGC---AG--
.((((((((----------------(.........(((((((((((((((.....)))))))((........)).))))))))(((.......)))..)))))-)))---).-- ( -36.30)
>DroMoj_CAF1 41823 96 - 1
UGGACAGAG----------------UCGAGUUAAACGCAAUCGUGCAACACGGCAUGUUGCAGCUUGUUAUUGCUUGAUUGCCGCUAAAAUUAAGUUGGCUAUUGGUCGCAG--
(((((..((----------------((((.((((..((((((((((((((.....)))))))((........)).)))))))........)))).))))))....))).)).-- ( -27.10)
>consensus
CGGUCAGAG________________CCGAGUCAAAGGCAAUCGUGCAACACGGCAUGUUGCAGCUUGUUAUUGCUUGAUUGCCGCUAAAAUUAAGUUGGCUAU_GGCCGCAG__
...................................(((((((((((((((.....)))))))((........)).))))))))(((((.......))))).............. (-23.25 = -23.42 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:21 2006