Locus 5797

Sequence ID	3L_DroMel_CAF1
Location	15,681,097 – 15,681,203
Length	106
Max. P	0.940539

overview

Window 7

Location	15,681,097 – 15,681,203
Length	106
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.95
Mean single sequence MFE	-32.30
Consensus MFE	-27.50
Energy contribution	-26.46
Covariance contribution	-1.05
Combinations/Pair	1.36
Mean z-score	-2.52
Structure conservation index	0.85
SVM decision value	1.31
SVM RNA-class probability	0.940539
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15681097 106 + 23771897
GGAA---AAAAAACCCCAAAGUCGGGCUAACAAGUGCAAAUUUGUUUGCUGCAUCGAGCUGA----------GCACA-AAUUUCUCAACCUUGGCUCCGUGCUCGCCUUGUUUGCCCUAC
....---................((((.((((((.(((((....))))).((((.((((..(----------(....-...........))..)))).))))....)))))).))))... ( -32.66)
>DroSec_CAF1 40578 102 + 1
-------AAAAAAACCCAAAGUCGGGCUAACAAGUGCAAAUUUGUUUGCUGCAUCGAGCUGA----------GCACA-AAUUUCUCAACCUUGGCUCCGUGCUCGCCUUGUUUGCCCCAC
-------.............((.((((.((((((.(((((....))))).((((.((((..(----------(....-...........))..)))).))))....)))))).)))).)) ( -32.46)
>DroSim_CAF1 40675 102 + 1
-------AAAAAAACCCAAAGUCGGGCUAACAAGUGCAAAUUUGUUUGCUGCAUCGAGCUGA----------GCACA-AAUUUCUCAACCUUGGCUCCGUGCUCGCCUUGUUUGCCCCAC
-------.............((.((((.((((((.(((((....))))).((((.((((..(----------(....-...........))..)))).))))....)))))).)))).)) ( -32.46)
>DroEre_CAF1 39863 107 + 1
AAAACCGAAAAAAGCC--AAGUCGGGCUGGCAAGUGCAAAUUUGUUUGCUGCAUCGAGCCGG----------GCACA-AAUUUCUCAACCUUGGCUCCGUGCUCGACUUGUUUGCCCCAC
................--..((.((((..(((((((((((....))))).....((((((((----------((.((-(...........))))).))).)))))))))))..)))).)) ( -36.40)
>DroYak_CAF1 41206 109 + 1
GUGAGGUAAAAAAACCCAAAGUCAGGCUAACAAGUGCAAAUUUGUUUGCUGCAUCGAGCUGA----------GCACA-AAUUUCUCAACCUUGGCUCCGUGCUCGCCUUGUUUGCCCCGC
.((.(((......)))))......(((.((((((.(((((....))))).((((.((((..(----------(....-...........))..)))).))))....)))))).))).... ( -31.56)
>DroAna_CAF1 99258 104 + 1
----------------CAAAGUUAAGCCAACAAGUGCAAAUUUGUUUGCUGCAUUGAGCAGAGAAGAGCAGGGCACAAAAUUUCUCAACCUUGGCUUCGUGUUCGCCUUGUUUGCUUCCU
----------------.......((((.((((((.((.....(((.....)))..(((((..((((..(((((...............))))).)))).))))))))))))).))))... ( -28.26)
>consensus
_______AAAAAAACCCAAAGUCGGGCUAACAAGUGCAAAUUUGUUUGCUGCAUCGAGCUGA__________GCACA_AAUUUCUCAACCUUGGCUCCGUGCUCGCCUUGUUUGCCCCAC
....................((.((((.((((((.(((((....))))).((((.(((((((............................))))))).))))....)))))).)))).)) (-27.50 = -26.46 +  -1.05)

alignment

secondary structure

dotplot

Window 8

Location	15,681,097 – 15,681,203
Length	106
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.95
Mean single sequence MFE	-35.42
Consensus MFE	-24.87
Energy contribution	-25.40
Covariance contribution	0.53
Combinations/Pair	1.11
Mean z-score	-2.27
Structure conservation index	0.70
SVM decision value	0.46
SVM RNA-class probability	0.746344
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15681097 106 - 23771897
GUAGGGCAAACAAGGCGAGCACGGAGCCAAGGUUGAGAAAUU-UGUGC----------UCAGCUCGAUGCAGCAAACAAAUUUGCACUUGUUAGCCCGACUUUGGGGUUUUUU---UUCC
((.((((.((((((.(((((...((((((((.........))-)).))----------)).))))).....(((((....))))).)))))).)))).))...((((......---)))) ( -36.80)
>DroSec_CAF1 40578 102 - 1
GUGGGGCAAACAAGGCGAGCACGGAGCCAAGGUUGAGAAAUU-UGUGC----------UCAGCUCGAUGCAGCAAACAAAUUUGCACUUGUUAGCCCGACUUUGGGUUUUUUU-------
((.((((.((((((.(((((...((((((((.........))-)).))----------)).))))).....(((((....))))).)))))).)))).)).............------- ( -37.90)
>DroSim_CAF1 40675 102 - 1
GUGGGGCAAACAAGGCGAGCACGGAGCCAAGGUUGAGAAAUU-UGUGC----------UCAGCUCGAUGCAGCAAACAAAUUUGCACUUGUUAGCCCGACUUUGGGUUUUUUU-------
((.((((.((((((.(((((...((((((((.........))-)).))----------)).))))).....(((((....))))).)))))).)))).)).............------- ( -37.90)
>DroEre_CAF1 39863 107 - 1
GUGGGGCAAACAAGUCGAGCACGGAGCCAAGGUUGAGAAAUU-UGUGC----------CCGGCUCGAUGCAGCAAACAAAUUUGCACUUGCCAGCCCGACUU--GGCUUUUUUCGGUUUU
((.((((...((((((((((.(((.((((((.........))-)).))----------)))))))))....(((((....))))).))))...)))).))..--................ ( -36.40)
>DroYak_CAF1 41206 109 - 1
GCGGGGCAAACAAGGCGAGCACGGAGCCAAGGUUGAGAAAUU-UGUGC----------UCAGCUCGAUGCAGCAAACAAAUUUGCACUUGUUAGCCUGACUUUGGGUUUUUUUACCUCAC
...((((.((((((.(((((...((((((((.........))-)).))----------)).))))).....(((((....))))).)))))).))))......((((......))))... ( -35.70)
>DroAna_CAF1 99258 104 - 1
AGGAAGCAAACAAGGCGAACACGAAGCCAAGGUUGAGAAAUUUUGUGCCCUGCUCUUCUCUGCUCAAUGCAGCAAACAAAUUUGCACUUGUUGGCUUAACUUUG----------------
...((((.(((((((((((...((((.((.(((.((....))....))).))..)))).((((.....))))........))))).)))))).)))).......---------------- ( -27.80)
>consensus
GUGGGGCAAACAAGGCGAGCACGGAGCCAAGGUUGAGAAAUU_UGUGC__________UCAGCUCGAUGCAGCAAACAAAUUUGCACUUGUUAGCCCGACUUUGGGUUUUUUU_______
((.((((.((((((.(((((....(((....)))((....))...................))))).....(((((....))))).)))))).)))).)).................... (-24.87 = -25.40 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:09 2006