Locus 7663

Sequence ID	X_DroMel_CAF1
Location	19,087,913 – 19,088,044
Length	131
Max. P	0.713049

overview

Window 8

Location	19,087,913 – 19,088,011
Length	98
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	75.97
Mean single sequence MFE	-41.55
Consensus MFE	-23.55
Energy contribution	-22.58
Covariance contribution	-0.97
Combinations/Pair	1.33
Mean z-score	-1.65
Structure conservation index	0.57
SVM decision value	0.38
SVM RNA-class probability	0.713049
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19087913 98 - 22224390
AGCAGUGCAGCAGCAGCUCUGGUGGCAGCCGGCAUCCAGGCUGGACCAGUUUUGGCUAAAAAGAGUGGCUC---------AUCUGCCCAAGGAGCUUCAGCGGCACU
...(((((.((.(.((((((...((((((((((......))))).(((.((((.......)))).)))...---------..)))))...)))))).).)).))))) ( -40.20)
>DroPse_CAF1 4530 104 - 1
AGCAGUGCAGCAGCGGCCCUGGUAGCGGCUGGCAUCCAAGCCGGCCCAGUUCUGGCCAAAAAGAGCAGCGGCAGCGGUGGCUCCGGCUCUG---GCAGAGUGCCGCU
(((((.((.(.(((.((((((...(((((((((......)))))))..(((((........))))).))..))).))).))).).)).))(---((.....)))))) ( -46.70)
>DroSec_CAF1 4270 89 - 1
AGCAGUGCAGCAGCAGCUCUGGUCGCAGCCGGCAUCCAGGCUGGACCAGUUUUGGCUAAAAAGAGCGGCUC---------AUCUG---------CUUCAGCGGCACU
...(((((.(((((....((((((.(((((........))))))))))).....))).....((((((...---------..)))---------)))..)).))))) ( -39.00)
>DroSim_CAF1 4000 89 - 1
AGCAGUGCAGCAGCAGCUCUGGUCGCAGCCGGCAUCCAGGCUGGACCAGUUUUGGCUAAAAAGAGCGGCUC---------AUCUG---------CUUCAGCGGCACU
...(((((.(((((....((((((.(((((........))))))))))).....))).....((((((...---------..)))---------)))..)).))))) ( -39.00)
>DroYak_CAF1 4462 98 - 1
AGCAGUGCAGCAGCAGCUCUGGUGGCCGCCGGCAUCCAGGCUGGACCAGUUUUCGCCAAAAAGAGCGGCCC---------AUCUGCCCAAGGAGCUACGACGGCACU
...(((((.(..(.((((((((((((((((((...)).(((.(((......)))))).....).)))))).---------....)))...)))))).)..).))))) ( -35.20)
>DroPer_CAF1 4519 104 - 1
AGCAGUGCAGCAGCGGCCCUGGUGGCGGCUGGCAUCCAAGCCGGCCCAGUUCUGGCCAAAAAGAGCAGCGGCAGCGGUGGCUCCGGCUCUG---GCAGAGUGCCGCU
.((......))((((((((((.(((((((((((......)))))))((....))))))...(((((..(((.(((....))))))))))).---.))).).)))))) ( -49.20)
>consensus
AGCAGUGCAGCAGCAGCUCUGGUGGCAGCCGGCAUCCAGGCUGGACCAGUUUUGGCCAAAAAGAGCGGCUC_________AUCUG_C___G___CUACAGCGGCACU
...(((((.((..(((..((((...(((((........)))))..))))..)))((........)).................................)).))))) (-23.55 = -22.58 +  -0.97)

alignment

secondary structure

dotplot

Window 9

Location	19,087,944 – 19,088,044
Length	100
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	85.80
Mean single sequence MFE	-44.73
Consensus MFE	-35.94
Energy contribution	-34.63
Covariance contribution	-1.30
Combinations/Pair	1.29
Mean z-score	-1.65
Structure conservation index	0.80
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19087944 100 - 22224390
-------GGAGGCGCAUCCCUCGCUCCCUGCGAGCUGUACAGCAGUGCAGCAGCAGCUCUGGUGGCAGCCGGCAUCCAGGCUGGACCAGUUUUGGCUAAAAAGAGUG
-------.((((......))))((((...((..(((((((....))))))).))(((((((((..(((((........))))).)))))....)))).....)))). ( -40.20)
>DroPse_CAF1 4567 107 - 1
UGCAGGUGGUGGUGCGACCCUUGCACCCUGUGAGCUGUACAGCAGUGCAGCAGCGGCCCUGGUAGCGGCUGGCAUCCAAGCCGGCCCAGUUCUGGCCAAAAAGAGCA
..((((.(..(((((((...)))))))((((..(((((((....))))))).)))))))))...(.(((((((......)))))))).(((((........))))). ( -47.50)
>DroSec_CAF1 4292 100 - 1
-------GGCGGCGCAUCCCUCGCUCCCUGCGAGCUGUACAGCAGUGCAGCAGCAGCUCUGGUCGCAGCCGGCAUCCAGGCUGGACCAGUUUUGGCUAAAAAGAGCG
-------((.((((.......)))).))(((..(((((((....))))))).)))(((((((((.(((((........)))))))))(((....)))....))))). ( -44.50)
>DroSim_CAF1 4022 100 - 1
-------GGAGGCGCAUCCCUCGCUCCCUGCGAGCUGUACAGCAGUGCAGCAGCAGCUCUGGUCGCAGCCGGCAUCCAGGCUGGACCAGUUUUGGCUAAAAAGAGCG
-------.((((......))))((((...((..(((((((....))))))).))((((((((((.(((((........)))))))))))....)))).....)))). ( -47.50)
>DroYak_CAF1 4493 100 - 1
-------GGUGGCGCAUCCCUCGCUCCCUGCGAGCUGUACAGCAGUGCAGCAGCAGCUCUGGUGGCCGCCGGCAUCCAGGCUGGACCAGUUUUCGCCAAAAAGAGCG
-------((..(((.......)))..))(((..(((((((....))))))).)))(((((..((((..(((((......)))))....(....)))))...))))). ( -41.60)
>DroPer_CAF1 4556 107 - 1
UGGAGGUGGUGGUGCGACCCUAGCACCCUGUGAGCUGUACAGCAGUGCAGCAGCGGCCCUGGUGGCGGCUGGCAUCCAAGCCGGCCCAGUUCUGGCCAAAAAGAGCA
.....(..(.(((((.......))))))..)..(((((((....))))))).((.((....)).))(((((((......)))))))..(((((........))))). ( -47.10)
>consensus
_______GGUGGCGCAUCCCUCGCUCCCUGCGAGCUGUACAGCAGUGCAGCAGCAGCUCUGGUGGCAGCCGGCAUCCAGGCUGGACCAGUUUUGGCCAAAAAGAGCG
...........((((.....((((.....))))(((((((....))))))).))((((((((...(((((........)))))..))))....)))).......)). (-35.94 = -34.63 +  -1.30)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:37 2006