Locus 7733

Sequence ID	3L_DroMel_CAF1
Location	20,631,357 – 20,631,469
Length	112
Max. P	0.993015

overview

Window 2

Location	20,631,357 – 20,631,469
Length	112
Sequences	4
Columns	113
Reading direction	forward
Mean pairwise identity	85.78
Mean single sequence MFE	-28.85
Consensus MFE	-23.60
Energy contribution	-23.85
Covariance contribution	0.25
Combinations/Pair	1.19
Mean z-score	-1.89
Structure conservation index	0.82
SVM decision value	0.82
SVM RNA-class probability	0.858672
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20631357 112 + 23771897
AAAUUGUCGAGCAGCCGAUGGUUAUAACCCGAGCCAAACAAGAGCACCCGAAUUCCACCCAUCCAUCCACCCAUCCGCAAU-UUUUUAAGCGGAAAAGGGAUAAAACGGCUGC
..........(((((((.(((((........))))).................................(((.(((((...-.......)))))...)))......))))))) ( -29.30)
>DroSec_CAF1 4659 112 + 1
AAAUUGUCGAGCAGCCGAUGGUUAUAACCCGAGCCAAACAAGAGCACCCGAAUUCCACCCAUCCAUCCACCCAUCCGCAAU-UUUUUAAGCGGAAAAGGGAUAAAACGGCUGC
..........(((((((.(((((........))))).................................(((.(((((...-.......)))))...)))......))))))) ( -29.30)
>DroSim_CAF1 6271 112 + 1
AAAUUGUCGAGCAGCCGAUGGUUAUAACCCGAGCCAAACAAGAGCACCCGAAUUCCACCCAUCCGUCCACCCAUCCGCAAU-UUUUUAAGCGGAAAAGGGAUAAAACGGCUGC
..........(((((((.(((((........)))))............................((((.....(((((...-.......)))))....))))....))))))) ( -29.60)
>DroAna_CAF1 4291 101 + 1
AAA--GUCGAGCAGCCGAUGGCCAUAACCCGAGCCAAUGCAGAGCACCU----------CACCCAUCCGCUCAUGCCCACUUUUUUUAAGUGGAAAAAGGAUGAAAUGGUUCC
...--((((......))))...........((((((.....(((...))----------)...(((((((....))((((((.....)))))).....)))))...)))))). ( -27.20)
>consensus
AAAUUGUCGAGCAGCCGAUGGUUAUAACCCGAGCCAAACAAGAGCACCCGAAUUCCACCCAUCCAUCCACCCAUCCGCAAU_UUUUUAAGCGGAAAAGGGAUAAAACGGCUGC
..........(((((((.(((((........)))))............................((((.....(((((...........)))))....))))....))))))) (-23.60 = -23.85 +   0.25)

alignment

secondary structure

dotplot

Window 3

Location	20,631,357 – 20,631,469
Length	112
Sequences	4
Columns	113
Reading direction	reverse
Mean pairwise identity	85.78
Mean single sequence MFE	-42.60
Consensus MFE	-33.28
Energy contribution	-35.52
Covariance contribution	2.25
Combinations/Pair	1.12
Mean z-score	-3.23
Structure conservation index	0.78
SVM decision value	2.37
SVM RNA-class probability	0.993015
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20631357 112 - 23771897
GCAGCCGUUUUAUCCCUUUUCCGCUUAAAAA-AUUGCGGAUGGGUGGAUGGAUGGGUGGAAUUCGGGUGCUCUUGUUUGGCUCGGGUUAUAACCAUCGGCUGCUCGACAAUUU
((((((....(((((((..(((((.......-...)))))..)).)))))(((((....(((((((((((....))...)))))))))....))))))))))).......... ( -46.40)
>DroSec_CAF1 4659 112 - 1
GCAGCCGUUUUAUCCCUUUUCCGCUUAAAAA-AUUGCGGAUGGGUGGAUGGAUGGGUGGAAUUCGGGUGCUCUUGUUUGGCUCGGGUUAUAACCAUCGGCUGCUCGACAAUUU
((((((....(((((((..(((((.......-...)))))..)).)))))(((((....(((((((((((....))...)))))))))....))))))))))).......... ( -46.40)
>DroSim_CAF1 6271 112 - 1
GCAGCCGUUUUAUCCCUUUUCCGCUUAAAAA-AUUGCGGAUGGGUGGACGGAUGGGUGGAAUUCGGGUGCUCUUGUUUGGCUCGGGUUAUAACCAUCGGCUGCUCGACAAUUU
((((((((((...(((...(((((.......-...))))).))).)))).(((((....(((((((((((....))...)))))))))....))))))))))).......... ( -45.80)
>DroAna_CAF1 4291 101 - 1
GGAACCAUUUCAUCCUUUUUCCACUUAAAAAAAGUGGGCAUGAGCGGAUGGGUG----------AGGUGCUCUGCAUUGGCUCGGGUUAUGGCCAUCGGCUGCUCGAC--UUU
(((..((((((((((.....((((((.....))))))((....))....)))))----------))))).)))((....))((((((...((((...)))))))))).--... ( -31.80)
>consensus
GCAGCCGUUUUAUCCCUUUUCCGCUUAAAAA_AUUGCGGAUGGGUGGAUGGAUGGGUGGAAUUCGGGUGCUCUUGUUUGGCUCGGGUUAUAACCAUCGGCUGCUCGACAAUUU
((((((....(((((((..(((((...........)))))..)).)))))(((((....(((((((((.(........))))))))))....))))))))))).......... (-33.28 = -35.52 +   2.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:27 2006