Locus 4045

Sequence ID	X_DroMel_CAF1
Location	10,718,727 – 10,718,853
Length	126
Max. P	0.605335

overview

Window 8

Location	10,718,727 – 10,718,819
Length	92
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	79.86
Mean single sequence MFE	-31.90
Consensus MFE	-17.93
Energy contribution	-17.77
Covariance contribution	-0.17
Combinations/Pair	1.29
Mean z-score	-1.79
Structure conservation index	0.56
SVM decision value	0.04
SVM RNA-class probability	0.553685
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10718727 92 + 22224390
CCUUCGUU---UGCGACUCU--UGCUGCGU---CGUUACUCACACGAUGUAUAUACUGGGUGGCCUUUUUGGCUCCACCAUCCACGAAUUUCGUGGGCAU
...(((..---..)))....--((((((((---(((.......)))))))).....((((..(((.....)))..).))).(((((.....)))))))). ( -29.00)
>DroSec_CAF1 7573 95 + 1
UCUUCGAC---UGUCGCUCU--UGCUGCGUCGUCGUUACUCACACGAUGUAUGUACUGGGUGGCCUUUUUGGCUCCGCCAUCCACGAAUUUCGUGGGCAU
........---.(((((((.--(((((((((((.((.....)))))))))).)))..))))))).....((((...))))((((((.....))))))... ( -32.00)
>DroSim_CAF1 7593 95 + 1
CCUUCGAC---UGUCGCUCU--UGCUGCGUCGUCGUUACUCACACGAUGUAUGUACUGGGUGGCCUUUUUGGCGCCGCCGUCCACGAAUUUUGUGGGCAU
........---.(((((((.--(((((((((((.((.....)))))))))).)))..)))))))......(((...)))((((((((...)))))))).. ( -33.10)
>DroEre_CAF1 2840 92 + 1
CCAUCGCU---UAGAGCUCU--UGCUGCUU---CGUUACUCACACGAUGAAUGUACUGGGUGGCCUUUUUGGCUCCGCCGUCCACGAAUUUCGUGGGCAU
....((((---((((((...--.)))((((---((((........)))))).)).)))))))(((.....)))......(((((((.....))))))).. ( -30.60)
>DroYak_CAF1 7338 97 + 1
CCUUCGGUUAUUAGGGCUCUCAUGCUGCGU---CGUUACUCACACGAUGAAUGUACUGGGUGGCCUUUUUGGCUCCGCCGUCCACGAAUUUCGUGGGCAU
.....(((((..(((((((((((((..(((---(((.......))))))...))).)))).))))))..))))).....(((((((.....))))))).. ( -36.90)
>DroPer_CAF1 4545 89 + 1
CGUGUGUG---UGUGGCACA--UCG---G---GGGAUACUCACGCGAUGGAUGUACUGUGUGGCCUUCUUGGGUCCGCCAUCCACAAAGGCUGUGGGUCC
((((((.(---(((..(...--...---.---)..)))).))))))..((((.(((.....((((((..(((((.....)))))..))))))))).)))) ( -29.80)
>consensus
CCUUCGAU___UGUGGCUCU__UGCUGCGU___CGUUACUCACACGAUGUAUGUACUGGGUGGCCUUUUUGGCUCCGCCAUCCACGAAUUUCGUGGGCAU
..........................................................(((((((.....))..)))))(((((((.....))))))).. (-17.93 = -17.77 +  -0.17)

alignment

secondary structure

dotplot

Window 9

Location	10,718,745 – 10,718,853
Length	108
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	80.58
Mean single sequence MFE	-42.28
Consensus MFE	-22.94
Energy contribution	-22.75
Covariance contribution	-0.19
Combinations/Pair	1.26
Mean z-score	-2.07
Structure conservation index	0.54
SVM decision value	0.15
SVM RNA-class probability	0.605335
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10718745 108 + 22224390
GCUGCGU---CGUUACUCACACGAUGUAUAUACUGGGUGGCCUUUUUGGCUCCACCAUCCACGAAUUUCGUGGGCAUUUGCGUCGCCUUCACUCGCUGAUGCAGUCCAUCG
(((((((---(...........((((((.....((((..(((.....)))..).)))((((((.....))))))....))))))((........)).))))))))...... ( -36.70)
>DroPse_CAF1 4573 105 + 1
CG---G---GGGAUACUCACGCGAUGGAUGUACUGUGUGGCCUUCUUGGGUCCGCCAUCCACAAAGGCUGUGGGUCCUUGCGGCGCCUUUGCCAGUCGCUGCAGUCCCUCG
((---(---(((((((((((((..((((((....(((.(((((....)))))))))))))).....)).))))))...(((((((.((.....)).))))))))))))))) ( -46.70)
>DroSec_CAF1 7591 111 + 1
GCUGCGUCGUCGUUACUCACACGAUGUAUGUACUGGGUGGCCUUUUUGGCUCCGCCAUCCACGAAUUUCGUGGGCAUCUGCGCCGCCUUCACUCGCUGAUGCAGUCCAUCG
(((((((((((((.......)))))((..((...(((((((.....((((...)))).(((((.....)))))((....)))))))))..))..)).))))))))...... ( -41.50)
>DroSim_CAF1 7611 111 + 1
GCUGCGUCGUCGUUACUCACACGAUGUAUGUACUGGGUGGCCUUUUUGGCGCCGCCGUCCACGAAUUUUGUGGGCAUCUGCGCCGCCUUCACUCGCUGAUGCAGUCCAUCG
(((((((((((((.......)))))((..((...(((((((......(((...)))((((((((...))))))))......)))))))..))..)).))))))))...... ( -42.10)
>DroEre_CAF1 2858 108 + 1
GCUGCUU---CGUUACUCACACGAUGAAUGUACUGGGUGGCCUUUUUGGCUCCGCCGUCCACGAAUUUCGUGGGCAUAUGCGCCGCCUUCACUCGUUGAUGCAGUCCAUCG
(((((..---.((.....)).((((((.((....(((((((......(((...)))(((((((.....)))))))......))))))).)).))))))..)))))...... ( -40.00)
>DroPer_CAF1 4563 105 + 1
CG---G---GGGAUACUCACGCGAUGGAUGUACUGUGUGGCCUUCUUGGGUCCGCCAUCCACAAAGGCUGUGGGUCCUUGCGGCGCCUUUGCCAGUCGCUGUAGUCCCUCG
((---(---(((((...((.((((((((((....(((.(((((....))))))))))))).....(((...((((((....)).))))..))).)))))))..)))))))) ( -46.70)
>consensus
GCUGCGU___CGUUACUCACACGAUGUAUGUACUGGGUGGCCUUUUUGGCUCCGCCAUCCACGAAUUUCGUGGGCAUUUGCGCCGCCUUCACUCGCUGAUGCAGUCCAUCG
.....................(((((.........(((((((.....))..)))))(((((((.....)))))))..(((((.((.(.......).)).)))))..))))) (-22.94 = -22.75 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:01 2006