Locus 8593

Sequence ID	X_DroMel_CAF1
Location	21,318,297 – 21,318,447
Length	150
Max. P	0.848547

overview

Window 9

Location	21,318,297 – 21,318,416
Length	119
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	83.83
Mean single sequence MFE	-44.17
Consensus MFE	-36.20
Energy contribution	-36.20
Covariance contribution	-0.00
Combinations/Pair	1.22
Mean z-score	-1.69
Structure conservation index	0.82
SVM decision value	0.47
SVM RNA-class probability	0.750750
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21318297 119 - 22224390
CACUCGUCAUGUUGCUGGCGCCGCAGCAGCAUGUCGCCGGCAGCAGCAACAAUGUUGCCGGCCGUGUGAA-AAGCCUCGUCCAAUUGGCUCACUGGGGCUUUCCCGACUUCCCGACUUCC
(((.((.((((((((((......)))))))))).)((((((((((.......)))))))))).).))).(-(((((((((((....))...)).)))))))).................. ( -50.00)
>DroSec_CAF1 65086 119 - 1
CACUCGGCAUGUUGCUGGCGCCGCAGCAACAUGUCCCCGACAGCAGCAACAAUGUUGCCGGCCGUGUGGA-AAGCCUCGUCCAAUUGGCUCACUGGGGCUUUCCCGACUUCCCGACUUCC
.....((((((((((((......)))))))))))).......((((((....))))))(((...((.(((-(((((((((((....))...)).)))))))))))).....)))...... ( -47.20)
>DroEre_CAF1 57211 112 - 1
CACUCGGCAUGUUGCUGGCCUCGCAGCAGCAUGUGCCCGGCGUCAGCAACAAUGUUGCCGGCCGUGUGGAAAAGCCUCGUCCAAUUGGCUCACUGGGACUUU--------CACGACUUCC
...((((((((((((((......))))))))))).(((((((.(((((....))))).))((((..((((.........))))..))))...))))).....--------..)))..... ( -41.30)
>DroYak_CAF1 60867 111 - 1
CUUGUUGCAUGUUGCUGGCGCCGUAGCAGCAUGUUCCCAGUGGCGGCAACAAUGUUGCUGGCCGUGCGAAAAAGCCUCGUCCAAUUGGCUCACUUGGGCUU---------CCCGACUUCC
...((((((((((((((......))))))))))..(((((((((((((((...))))))((.((.((......))..)).)).....)).))).))))...---------..)))).... ( -38.20)
>consensus
CACUCGGCAUGUUGCUGGCGCCGCAGCAGCAUGUCCCCGGCAGCAGCAACAAUGUUGCCGGCCGUGUGAA_AAGCCUCGUCCAAUUGGCUCACUGGGGCUUU________CCCGACUUCC
(((.(((((((((((((......))))))))))...(((((((((.......)))))))))))).)))...(((((((((((....))...)).)))))))................... (-36.20 = -36.20 +  -0.00)

alignment

secondary structure

dotplot

Window 0

Location	21,318,337 – 21,318,447
Length	110
Sequences	4
Columns	113
Reading direction	reverse
Mean pairwise identity	78.77
Mean single sequence MFE	-44.41
Consensus MFE	-34.56
Energy contribution	-34.88
Covariance contribution	0.31
Combinations/Pair	1.29
Mean z-score	-1.74
Structure conservation index	0.78
SVM decision value	0.78
SVM RNA-class probability	0.848547
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21318337 110 - 22224390
U--UGCGUGUUGCGCGCUGCAAGUUGCAUGUUGCACUCGUCAUGUUGCUGGCGCCGCAGCAGCAUGUCGCCGGCAGCAGCAACAAUGUUGCCGGCCGUGUGAA-AAGCCUCGU
(--((((((.....))).))))(..((...(..(((..(.((((((((((......)))))))))).)((((((((((.......)))))))))).)))..).-..))..).. ( -50.60)
>DroSec_CAF1 65126 110 - 1
U--GGCGUGUUGCGCGCUGCAAGUUGCAUGUUGCACUCGGCAUGUUGCUGGCGCCGCAGCAACAUGUCCCCGACAGCAGCAACAAUGUUGCCGGCCGUGUGGA-AAGCCUCGU
.--(((...(..((((((((((((((..((((((..((((((((((((((......))))))))))...))))..)))))).)))).))).))).))))..).-..))).... ( -49.00)
>DroEre_CAF1 57243 104 - 1
C--UGCGUGUUUCGUGUUGCAU-------GUUGCACUCGGCAUGUUGCUGGCCUCGCAGCAGCAUGUGCCCGGCGUCAGCAACAAUGUUGCCGGCCGUGUGGAAAAGCCUCGU
.--.((((((........))))-------))..(((.(((((((((((((......))))))))))...((((((.((.......)).))))))))).)))............ ( -38.30)
>DroYak_CAF1 60898 106 - 1
CGUUAAAUGUUGCAUGCUGCAU-------GCUGCUUGUUGCAUGUUGCUGGCGCCGUAGCAGCAUGUUCCCAGUGGCGGCAACAAUGUUGCUGGCCGUGCGAAAAAGCCUCGU
((.......(((((((..((..-------((..((.(..(((((((((((......)))))))))))..).))..))((((((...)))))).)))))))))........)). ( -39.76)
>consensus
C__UGCGUGUUGCGCGCUGCAA_______GUUGCACUCGGCAUGUUGCUGGCGCCGCAGCAGCAUGUCCCCGGCAGCAGCAACAAUGUUGCCGGCCGUGUGAA_AAGCCUCGU
....((...(((((((..((((........))))....((((((((((((......)))))))))))).(((((((((.......))))))))).)))))))....))..... (-34.56 = -34.88 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:01 2006