Locus 2671

Sequence ID	3L_DroMel_CAF1
Location	7,424,291 – 7,424,395
Length	104
Max. P	0.923501

overview

Window 1

Location	7,424,291 – 7,424,395
Length	104
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	77.86
Mean single sequence MFE	-31.67
Consensus MFE	-15.35
Energy contribution	-15.67
Covariance contribution	0.32
Combinations/Pair	1.23
Mean z-score	-1.95
Structure conservation index	0.48
SVM decision value	0.05
SVM RNA-class probability	0.556287
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7424291 104 + 23771897
--AGCAUCAGCAACCGUUGCUGCAGCCGUUGACUCUGGCAUUGUCCCCACAGCAACCGCAGCCUCAUCAGGCGGCAACGCCACUACAAUUGCACAGCCAAUUGAUG
--..((((((.....((((.((((((.((((.((.(((........))).)))))).))..........((((....))))........))))))))...)))))) ( -32.50)
>DroVir_CAF1 84986 88 + 1
ACAGCAAUUGGGCUGCCUGCUGCAGCCGUUGACUUUGGCAUUGUCCCCACAGCAACCGCAGC------------------CGCUACAAUUGCAUAGCCAAAUGAUG
...(((((((((((((.(((((..((((.......))))..((....)))))))...)))))------------------)....))))))).............. ( -28.60)
>DroPse_CAF1 72458 106 + 1
ACAACAAUUGGGAUGUCUGCUGCAACCAUUGACGCUGGCAUUGUCCCCACAGCAGCCGCAGCCUCAUCAGGCGGCAACGCCGCUUCAGUUGCACAGCCAAUUGAUG
....(((((((.....(((.((((((...(((.((.(((.(((((......((....)).((((....))))))))).))))).)))))))))))))))))))... ( -38.50)
>DroGri_CAF1 68055 88 + 1
ACAACAGUUGAGCUGCCUGCUGCAGCCGUUGACUUUGGCAUUGUCCCCACAGCAACCGCAGU------------------CGCUACAAUUGCAGAGCCAACUGAUG
....((((((.(((.....(((((((((.......))))(((((..(.((.((....)).))------------------.)..)))))))))))))))))))... ( -26.20)
>DroMoj_CAF1 79712 88 + 1
GCAACAAUUGGGCUGCCUGCUGCAGCCAUUGACUUUGGCAUUGUCCCCACAGCAACCGCAGC------------------CGCUACAAUUGCACAGCCAAAUGAUG
....((.(((((((((.(((((..((((.......))))..((....)))))))...)))))------------------)((.......)).....))).))... ( -25.70)
>DroPer_CAF1 73073 106 + 1
ACAACAAUUGGGAUGUCUGCUGCAACCAUUGACGCUGGCAUUGUCCCCACAGCAGCCGCAGCCUCAUCAGGCGGCAACGCCGCUUCAGUUGCACAGCCAAUUGAUG
....(((((((.....(((.((((((...(((.((.(((.(((((......((....)).((((....))))))))).))))).)))))))))))))))))))... ( -38.50)
>consensus
ACAACAAUUGGGAUGCCUGCUGCAGCCAUUGACUCUGGCAUUGUCCCCACAGCAACCGCAGC__________________CGCUACAAUUGCACAGCCAAUUGAUG
....((((((........(((((.((((.......)))).((((.......))))..)))))........(((....))).....))))))............... (-15.35 = -15.67 +   0.32)

alignment

secondary structure

dotplot

Window 2

Location	7,424,291 – 7,424,395
Length	104
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	77.86
Mean single sequence MFE	-37.18
Consensus MFE	-25.51
Energy contribution	-26.32
Covariance contribution	0.81
Combinations/Pair	1.21
Mean z-score	-1.82
Structure conservation index	0.69
SVM decision value	1.16
SVM RNA-class probability	0.923501
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7424291 104 - 23771897
CAUCAAUUGGCUGUGCAAUUGUAGUGGCGUUGCCGCCUGAUGAGGCUGCGGUUGCUGUGGGGACAAUGCCAGAGUCAACGGCUGCAGCAACGGUUGCUGAUGCU--
(((((..((((..(((.((....)).)))..))))..))))).(((.((.(((((((((....)...(((.........))).)))))))).)).)))......-- ( -38.50)
>DroVir_CAF1 84986 88 - 1
CAUCAUUUGGCUAUGCAAUUGUAGCG------------------GCUGCGGUUGCUGUGGGGACAAUGCCAAAGUCAACGGCUGCAGCAGGCAGCCCAAUUGCUGU
((.((.((((((((......)))))(------------------(((((.(((((..((....))..(((.........))).)))))..))))))))).)).)). ( -32.90)
>DroPse_CAF1 72458 106 - 1
CAUCAAUUGGCUGUGCAACUGAAGCGGCGUUGCCGCCUGAUGAGGCUGCGGCUGCUGUGGGGACAAUGCCAGCGUCAAUGGUUGCAGCAGACAUCCCAAUUGUUGU
((.(((((((((((((((((((.(((((((((((((((....))))..(.((....)).))).))))))).)).))...))))))).))).....))))))).)). ( -42.40)
>DroGri_CAF1 68055 88 - 1
CAUCAGUUGGCUCUGCAAUUGUAGCG------------------ACUGCGGUUGCUGUGGGGACAAUGCCAAAGUCAACGGCUGCAGCAGGCAGCUCAACUGUUGU
((.(((((((((((((...(((((((------------------(((..(((.....((....))..)))..))))....))))))))))..))).)))))).)). ( -34.00)
>DroMoj_CAF1 79712 88 - 1
CAUCAUUUGGCUGUGCAAUUGUAGCG------------------GCUGCGGUUGCUGUGGGGACAAUGCCAAAGUCAAUGGCUGCAGCAGGCAGCCCAAUUGUUGC
.........((...(((((((....(------------------(((((.(((((..((....))..((((.......)))).)))))..))))))))))))).)) ( -32.90)
>DroPer_CAF1 73073 106 - 1
CAUCAAUUGGCUGUGCAACUGAAGCGGCGUUGCCGCCUGAUGAGGCUGCGGCUGCUGUGGGGACAAUGCCAGCGUCAAUGGUUGCAGCAGACAUCCCAAUUGUUGU
((.(((((((((((((((((((.(((((((((((((((....))))..(.((....)).))).))))))).)).))...))))))).))).....))))))).)). ( -42.40)
>consensus
CAUCAAUUGGCUGUGCAAUUGUAGCG__________________GCUGCGGUUGCUGUGGGGACAAUGCCAAAGUCAACGGCUGCAGCAGGCAGCCCAAUUGUUGU
......(((((...(((((((((((..((((.......))))..)))))))))))..((....))..)))))...........(((((((.........))))))) (-25.51 = -26.32 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:57 2006