Locus 5991

Sequence ID	X_DroMel_CAF1
Location	15,394,850 – 15,395,050
Length	200
Max. P	0.802019

overview

Window 4

Location	15,394,850 – 15,394,970
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	83.65
Mean single sequence MFE	-26.14
Consensus MFE	-20.27
Energy contribution	-21.90
Covariance contribution	1.63
Combinations/Pair	1.08
Mean z-score	-1.53
Structure conservation index	0.78
SVM decision value	0.11
SVM RNA-class probability	0.590269
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15394850 120 - 22224390
AACAAGCCCAAAAAAAAAAAAAAAAAAACAACAAAAUAGGGACUCCCGUCCCAAGGAACCGGAUACCAAGGAUAAUUGCCAGGCCAUCAGGUGGGCUCACAUUUUUUGGGUUGCGCCAAA
....(((((((((((.......................(((((....)))))...((.((.........))......(((..(((....))).)))))...)))))))))))........ ( -30.30)
>DroSec_CAF1 41247 110 - 1
AACAAGCCCCAAAAAAAA----AAAA------AAAAUAGGGACUACCGUUCAAAGGAACCGGAUGCCAAGGAUAAUUGCCAGGCCAUCAGGUGGGCUCACAUUUUUUGGGUUGCGCCAAA
.....(((((((((((..----....------......(((.(((((((((....))))..((((((..((.......)).)).)))).))))).)))...)))))))))..))...... ( -27.06)
>DroEre_CAF1 32159 97 - 1
AACAAGCCCCGAA--AAA---------------------GGACUGCCGUUCAAAGGAACCGGAUACCAAGGAUAAUUGCCAGGCCAUCAGGUGGGCUCACAUUUUUUGGGUUGCGCCAAA
.....((((((((--(((---------------------((....((((((....))).)))...))..........(((..(((....))).))).....)))))))))..))...... ( -26.20)
>DroYak_CAF1 23865 99 - 1
AACAAGCCCCAAAAAAAA---------------------GGACUCUCGCACAAAGGAACCGGAUACCAAGGAUAAUUGCCAGGCCAUCAGGUGGGCUAACAUUUUUUGGGUUGCGCCAAA
.....(((((((((((..---------------------((..(((........))).)).................(((..(((....))).))).....)))))))))..))...... ( -21.00)
>consensus
AACAAGCCCCAAAAAAAA_____________________GGACUCCCGUUCAAAGGAACCGGAUACCAAGGAUAAUUGCCAGGCCAUCAGGUGGGCUCACAUUUUUUGGGUUGCGCCAAA
.....(((((((((((.......................((..(((.((((....)))).)))..))..........(((..(((....))).))).....)))))))))..))...... (-20.27 = -21.90 +   1.63)

alignment

secondary structure

dotplot

Window 5

Location	15,394,930 – 15,395,050
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	85.13
Mean single sequence MFE	-30.20
Consensus MFE	-27.00
Energy contribution	-27.12
Covariance contribution	0.12
Combinations/Pair	1.08
Mean z-score	-1.64
Structure conservation index	0.89
SVM decision value	0.62
SVM RNA-class probability	0.802019
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15394930 120 - 22224390
CGCUUGUGGUUUAAUUUUUCAUGCUAAUGAAGGGGGCAUGUUAAUUGUUUGUGUUGCAUUCGCCGCCUGGCAGGUGGCCAAACAAGCCCAAAAAAAAAAAAAAAAAAACAACAAAAUAGG
...((((.((((...(((((((....)))))))((((.((((....(..((.....))..)((((((.....))))))..)))).))))................)))).))))...... ( -31.50)
>DroSec_CAF1 41327 110 - 1
CGCUUGUGGGUUAAUUUUUCAUGCUAAUGAAGGGGGCAUGUUAAUUGUUUGUGUUGCAUUCGCCGCCUAGCAGGUGGCCAAACAAGCCCCAAAAAAAA----AAAA------AAAAUAGG
..(((((.........((((((....))))))(((((.((((....(..((.....))..)((((((.....))))))..)))).)))))........----....------...))))) ( -31.10)
>DroEre_CAF1 32239 97 - 1
CGCUUGUGGGUUAAUUUGUCAUGCUAAUGAAGGGGGCAUGUUAAUUGUUUGUGUUGCAUUCGCCGCCUGGCAGGUGGCCAAACAAGCCCCGAA--AAA---------------------G
...(((.(((((...(((.((((((.........)))))).))).((((((.((..(....(((....)))..)..)))))))))))))))).--...---------------------. ( -29.20)
>DroYak_CAF1 23945 99 - 1
CGCUUGUGGGUUAAUUUUUCAUGCUAAUGAAGGGGGCAUGUUAAUUGUUUGUGUUGCAUUUGCCGCCUGGCAGGUGGUCAAACAAGCCCCAAAAAAAA---------------------G
...(((.(((((...((..((((((.........))))))..)).((((((.....((((((((....))))))))..))))))))))))))......---------------------. ( -29.00)
>consensus
CGCUUGUGGGUUAAUUUUUCAUGCUAAUGAAGGGGGCAUGUUAAUUGUUUGUGUUGCAUUCGCCGCCUGGCAGGUGGCCAAACAAGCCCCAAAAAAAA_____________________G
................((((((....))))))(((((.((((....(..((.....))..)((((((.....))))))..)))).))))).............................. (-27.00 = -27.12 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:37 2006