Locus 2706

Sequence ID	3L_DroMel_CAF1
Location	7,544,080 – 7,544,174
Length	94
Max. P	0.937083

overview

Window 9

Location	7,544,080 – 7,544,174
Length	94
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.67
Mean single sequence MFE	-28.70
Consensus MFE	-19.68
Energy contribution	-19.18
Covariance contribution	-0.50
Combinations/Pair	1.08
Mean z-score	-1.35
Structure conservation index	0.69
SVM decision value	0.24
SVM RNA-class probability	0.649974
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7544080 94 + 23771897
-------------------------GUGGGGGCUGUCGCUUAAAAUUGUGCGCAUAACUUGGAACAUGAAAAGUUACUUAGAGUCGGAG-UUUGCGGGGCCUUUAAUUAAAAGCGACAGG
-------------------------.......(((((((((..((((((.((((.(((((.((...(((........)))...)).)))-)))))).).....)))))..))))))))). ( -27.10)
>DroPse_CAF1 7376 120 + 1
AGCAGCAGAGCGGCAGAGCAGUGUUGGUGGUGCUGUCGCUUAAAAUUGUACGCAUAGCUUGAAACAUGAAAAGUUACUUAGAGUCUGAGCUUUGCGGGGCCUUUAAUUAAAAGCGACAGG
..(((((..((......))..)))))......(((((((((..(((((..((((.(((((((....(((........)))...)).))))).)))).......)))))..))))))))). ( -34.70)
>DroGri_CAF1 7873 91 + 1
----------------------UGUGCUGCUGCUGUCGCUUAAAAUUGUGCGCAUAACUUAAAACAUGAAAAGUUACUUAGAGUCGC-------GGGGGCCUUUAAUUAAAAGCGACAGG
----------------------..........(((((((((..(((((...((.((((((..........))))))((..(.....)-------..))))...)))))..))))))))). ( -20.00)
>DroYak_CAF1 13503 94 + 1
-------------------------GUGGGGGCUGUCGCUUAAAAUUGUGCGCAUAACUUGGAACAUGAAAAGUUACUUAGAGUCGGAG-UUUGCGGGGCCUUUAAUUAAAAGCGACAGG
-------------------------.......(((((((((..((((((.((((.(((((.((...(((........)))...)).)))-)))))).).....)))))..))))))))). ( -27.10)
>DroAna_CAF1 5314 96 + 1
---------------------UG--UUGGGGGCUGUCGCUUAAAAUUGUGCGCAUAACUUGGAACAUGAAAAGUUACUUAGAGUCGGAG-UUAGCGGGGCCUUUAAUUAAAAGCGACAGG
---------------------..--.......(((((((((..(((((.((.(.((((((.((...(((........)))...)).)))-)))...).))...)))))..))))))))). ( -28.60)
>DroPer_CAF1 7423 120 + 1
AGCAGCAGAGCGGCAGAGCAGUGUUGGUGGUGCUGUCGCUUAAAAUUGUACGCAUAGCUUGAAACAUGAAAAGUUACUUAGAGUCUGAGCUUUGCGGGGCCUUUAAUUAAAAGCGACAGG
..(((((..((......))..)))))......(((((((((..(((((..((((.(((((((....(((........)))...)).))))).)))).......)))))..))))))))). ( -34.70)
>consensus
______________________G__GUGGGGGCUGUCGCUUAAAAUUGUGCGCAUAACUUGAAACAUGAAAAGUUACUUAGAGUCGGAG_UUUGCGGGGCCUUUAAUUAAAAGCGACAGG
................................(((((((((..(((((...((.((((((..........)))))).......((.(.......).))))...)))))..))))))))). (-19.68 = -19.18 +  -0.50)

alignment

secondary structure

dotplot

Window 0

Location	7,544,080 – 7,544,174
Length	94
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.67
Mean single sequence MFE	-22.75
Consensus MFE	-16.70
Energy contribution	-17.03
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.19
Structure conservation index	0.73
SVM decision value	1.26
SVM RNA-class probability	0.937083
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7544080 94 - 23771897
CCUGUCGCUUUUAAUUAAAGGCCCCGCAAA-CUCCGACUCUAAGUAACUUUUCAUGUUCCAAGUUAUGCGCACAAUUUUAAGCGACAGCCCCCAC-------------------------
.(((((((((..((((....((...(((((-((..(((...(((.....)))...)))...)))).)))))..))))..))))))))).......------------------------- ( -20.30)
>DroPse_CAF1 7376 120 - 1
CCUGUCGCUUUUAAUUAAAGGCCCCGCAAAGCUCAGACUCUAAGUAACUUUUCAUGUUUCAAGCUAUGCGUACAAUUUUAAGCGACAGCACCACCAACACUGCUCUGCCGCUCUGCUGCU
.(((((((((..((((...(....)(((.((((.((((...(((.....)))...))))..)))).)))....))))..)))))))))......((.((..((......))..)).)).. ( -26.30)
>DroGri_CAF1 7873 91 - 1
CCUGUCGCUUUUAAUUAAAGGCCCCC-------GCGACUCUAAGUAACUUUUCAUGUUUUAAGUUAUGCGCACAAUUUUAAGCGACAGCAGCAGCACA----------------------
.(((((((((..((((...((...))-------(((.......(((((((..........))))))).)))..))))..)))))))))..........---------------------- ( -22.60)
>DroYak_CAF1 13503 94 - 1
CCUGUCGCUUUUAAUUAAAGGCCCCGCAAA-CUCCGACUCUAAGUAACUUUUCAUGUUCCAAGUUAUGCGCACAAUUUUAAGCGACAGCCCCCAC-------------------------
.(((((((((..((((....((...(((((-((..(((...(((.....)))...)))...)))).)))))..))))..))))))))).......------------------------- ( -20.30)
>DroAna_CAF1 5314 96 - 1
CCUGUCGCUUUUAAUUAAAGGCCCCGCUAA-CUCCGACUCUAAGUAACUUUUCAUGUUCCAAGUUAUGCGCACAAUUUUAAGCGACAGCCCCCAA--CA---------------------
.(((((((((..((((....((...(((((-((..(((...(((.....)))...)))...))))).))))..))))..))))))))).......--..--------------------- ( -20.70)
>DroPer_CAF1 7423 120 - 1
CCUGUCGCUUUUAAUUAAAGGCCCCGCAAAGCUCAGACUCUAAGUAACUUUUCAUGUUUCAAGCUAUGCGUACAAUUUUAAGCGACAGCACCACCAACACUGCUCUGCCGCUCUGCUGCU
.(((((((((..((((...(....)(((.((((.((((...(((.....)))...))))..)))).)))....))))..)))))))))......((.((..((......))..)).)).. ( -26.30)
>consensus
CCUGUCGCUUUUAAUUAAAGGCCCCGCAAA_CUCCGACUCUAAGUAACUUUUCAUGUUCCAAGUUAUGCGCACAAUUUUAAGCGACAGCACCAAC__C______________________
.(((((((((..((((...(....)..................(((((((..........)))))))......))))..)))))))))................................ (-16.70 = -17.03 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:52 2006