Locus 3147

Sequence ID	3L_DroMel_CAF1
Location	9,153,245 – 9,153,373
Length	128
Max. P	0.663046

overview

Window 8

Location	9,153,245 – 9,153,346
Length	101
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	82.64
Mean single sequence MFE	-36.23
Consensus MFE	-23.11
Energy contribution	-24.03
Covariance contribution	0.92
Combinations/Pair	1.09
Mean z-score	-2.22
Structure conservation index	0.64
SVM decision value	0.27
SVM RNA-class probability	0.663046
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9153245 101 + 23771897
-GUGAGUUUU--GCCAGCCGCGUUCGUCCGUUACAUUUUCUCCGCUGAGCGUUUGAAAACCGUUUGGCAGGACAGCCAGUUGGCUAGCAGUCAGUUGGCCAGCU
-....(((((--(((((.((..((((..((((.((..........))))))..))))...)).))))))))))....(((((((((((.....))))))))))) ( -38.20)
>DroPse_CAF1 9112 96 + 1
------UAUG--GCCUGCCGUUUUCGUCCGUCACAUUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGCCAGGCAGUUGGCUAGCAGUCUGUUGGCCAGCU
------..((--((((((((((((((..(((((............))).))..))))))).....)))))))))...(((((((((((.....))))))))))) ( -43.50)
>DroWil_CAF1 2600 88 + 1
---UCACUUG--GCCCGCUUUUUCCGUCCGUUACAUUUUCUCAGUUGAGCGUUUGAACACCGUUUGGCAGGACCG--AGUUGUC---------GUUGGACAGCU
---....(((--(((.(((.....((...(((.((..(.(((....))).)..)))))..))...))).)).)))--)((((((---------....)))))). ( -21.20)
>DroYak_CAF1 21839 101 + 1
-GUGAGUUUU--GCCAGCCGCGUUCGUCCGUUACAUUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGACAGCCAGUUGGCUAGCAGUCAGUUGGCCAGCU
-....(((((--(((((.((..((((..((((.((..........))))))..))))...)).))))))))))....(((((((((((.....))))))))))) ( -38.20)
>DroAna_CAF1 8862 104 + 1
AGUGAGUUUUUCGCCAGCCGCUUGCGUCCGUUACAUUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGACAUCCACUGGGCUAGCAGUCAGUUGGCCAGCU
............((((((.(.((((((((..............((..((((.........))))..)).((....))...))))..)))).).))))))..... ( -29.80)
>DroPer_CAF1 9116 96 + 1
------UCUG--GCCUGCCGUUUUCGUCCGUCACAUUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGCCAGGCAGUUGGCUAGCAGUCUGUUGGCCAGCU
------((((--((((((((((((((..(((((............))).))..))))))).....))))))))))).(((((((((((.....))))))))))) ( -46.50)
>consensus
___GAGUUUG__GCCAGCCGCUUUCGUCCGUUACAUUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGACAGCCAGUUGGCUAGCAGUCAGUUGGCCAGCU
.........................(((((...........).((..((((.........))))..)).))))....(((((((((((.....))))))))))) (-23.11 = -24.03 +   0.92)

alignment

secondary structure

dotplot

Window 9

Location	9,153,277 – 9,153,373
Length	96
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	84.02
Mean single sequence MFE	-38.98
Consensus MFE	-26.92
Energy contribution	-27.58
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.16
Structure conservation index	0.69
SVM decision value	0.08
SVM RNA-class probability	0.572745
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9153277 96 + 23771897
UUUUCUCCGCUGAGCGUUUGAAAACCGUUUGGCAGGACAGCCAGUUGGCUAGCAGUCAGUUGGCCAGCUAGGAGCCG------AG-----CAGUCCUUGCAGGACGA
(((((..(((...)))...)))))..(((((((.((....))(((((((((((.....)))))))))))....))))------))-----).((((.....)))).. ( -38.80)
>DroPse_CAF1 9139 107 + 1
UUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGCCAGGCAGUUGGCUAGCAGUCUGUUGGCCAGCUAGGAGCCAAAGCCGAGCGUGCCAGGCUUUGCAGACACA
....(((....))).(((((......((((((((.((..((((((((((((((.....))))))))))).(....)...)))..)).))))))))....)))))... ( -45.80)
>DroEre_CAF1 20618 96 + 1
UUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGACAGCCAGUUGGCUAGCAGUCAGUUGGCCAGCUAGGAGCCG------AG-----CAGGCCUUGCAGGACGA
(((((...((...))....))))).((((..(((((....(((((((((((((.....))))))))))).)).(((.------..-----..))))))))..)))). ( -37.50)
>DroYak_CAF1 21871 96 + 1
UUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGACAGCCAGUUGGCUAGCAGUCAGUUGGCCAGCUAGGAGCCG------AG-----CAGGCCUUGCAGGACGA
(((((...((...))....))))).((((..(((((....(((((((((((((.....))))))))))).)).(((.------..-----..))))))))..)))). ( -37.50)
>DroAna_CAF1 8897 85 + 1
UUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGACAUCCACUGGGCUAGCAGUCAGUUGGCCAGCUAGGAGCCG------AG-----CCGAGC-----------
(((((...((...))....)))))..(((((((.((...(((....(((((((.....))))))).....))).)).------.)-----))))))----------- ( -28.50)
>DroPer_CAF1 9143 107 + 1
UUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGCCAGGCAGUUGGCUAGCAGUCUGUUGGCCAGCUAGGAGCCAAAGCCGAGCGUGCCAGGCUUUGCAGACACA
....(((....))).(((((......((((((((.((..((((((((((((((.....))))))))))).(....)...)))..)).))))))))....)))))... ( -45.80)
>consensus
UUUUCUCAGCUGAGCGUUUGAAAACCGUUUGGCAGGACAGCCAGUUGGCUAGCAGUCAGUUGGCCAGCUAGGAGCCG______AG_____CAGGCCUUGCAGGACGA
........((..((((.........))))..)).((....(((((((((((((.....))))))))))).))..))............................... (-26.92 = -27.58 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:43 2006