Locus 2504

Sequence ID	X_DroMel_CAF1
Location	6,653,399 – 6,653,500
Length	101
Max. P	0.611337

overview

Window 3

Location	6,653,399 – 6,653,500
Length	101
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	82.58
Mean single sequence MFE	-37.31
Consensus MFE	-22.68
Energy contribution	-22.54
Covariance contribution	-0.14
Combinations/Pair	1.19
Mean z-score	-1.95
Structure conservation index	0.61
SVM decision value	-0.05
SVM RNA-class probability	0.509968
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6653399 101 + 22224390
CUCCUCCUCCGGUGGACUGGACAACCAUUCGGCCAGUGGCAGCCACUCGCCACCGAAGCCCAUGCCGCGCACAUCGCGCAGCAAUUCCCUUCCGGAGGCCA-------
.....((((((((.((.(((....))).))(((.(((((...))))).))))))((((....(((.((((.....)))).))).....)))).)))))...------- ( -40.40)
>DroVir_CAF1 2551 108 + 1
CUCCUCCUCGGCGGCACUGGACACCAAUUCGCCCAGCGGCAGCCAUUCGCCGCCAAAGCCAAUGCCGCGCACCUCGCGCAACAAUUCGCUGCCCGAAGCGGUCAAUCC
..((.(.((((((((...((......(((.((...(((((........)))))....)).))).))((((.....))))........)))).)))).).))....... ( -33.80)
>DroGri_CAF1 2971 107 + 1
CUCCUCCUCGGCGGCGCUGGACACCAAUUCGGCCAGUGGCAGUCACUCGCCGCCCAAGCCCAUGCCGCGCACUUCGCGCAAUAAUUCGCUGCCGGAGGCAACAA-GCU
..(((((..(((((((((((..........(((.((((.....)))).)))((....))))).)).((((.....))))........)))))))))))......-... ( -41.40)
>DroSec_CAF1 2211 101 + 1
CUCCUCCUCCGGUGGACUGGACAACCAUUCAGCCAGUGGCAGCCACUCGCCACCGAAGCCCAUGCCGCGCACCUCGCGCAACAAUUCCCUGCCGGAGGCCA-------
.....(((((((..((((((.(.........))))))((((.....(((....)))......))))((((.....)))).........)..)))))))...------- ( -37.20)
>DroEre_CAF1 2196 101 + 1
CUCCUCGUCCGGUGGACUGGACAACCAUUCGGCCAGUGGCAGCCACUCCCCACCGAAGCCCAUGCCGCGCACUUCGCGCAACAAUUCCCUACCGGAGGCUA-------
.....(.((((((((...((.......(((((..(((((...))))).....))))).......))((((.....)))).........)))))))).)...------- ( -34.34)
>DroMoj_CAF1 2361 108 + 1
CUCCUCAUCGGCUGCACUGGACACCAAUUCGCCAAGCGGCAGCCACUCGCCGCCGAAGCCGAUGCCGCGCACCUCGCGCAACAAUUCGCUGCCGGAGUCAACAACGCC
((((.((((((((.(..(((.(........)))).(((((........))))).).))))))))..((((.....))))..............))))........... ( -36.70)
>consensus
CUCCUCCUCCGCUGCACUGGACAACAAUUCGGCCAGUGGCAGCCACUCGCCACCGAAGCCCAUGCCGCGCACCUCGCGCAACAAUUCCCUGCCGGAGGCAA_______
.......((((..((...((.......((((....(((((........))))))))).......))((((.....))))........))...))))............ (-22.68 = -22.54 +  -0.14)

alignment

secondary structure

dotplot

Window 4

Location	6,653,399 – 6,653,500
Length	101
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	82.58
Mean single sequence MFE	-48.52
Consensus MFE	-33.87
Energy contribution	-34.23
Covariance contribution	0.36
Combinations/Pair	1.27
Mean z-score	-1.70
Structure conservation index	0.70
SVM decision value	0.16
SVM RNA-class probability	0.611337
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6653399 101 - 22224390
-------UGGCCUCCGGAAGGGAAUUGCUGCGCGAUGUGCGCGGCAUGGGCUUCGGUGGCGAGUGGCUGCCACUGGCCGAAUGGUUGUCCAGUCCACCGGAGGAGGAG
-------...(((((((...(((..((((((((.....))))))))(((((.(((.((((.(((((...))))).))))..)))..))))).))).)))))))..... ( -52.90)
>DroVir_CAF1 2551 108 - 1
GGAUUGACCGCUUCGGGCAGCGAAUUGUUGCGCGAGGUGCGCGGCAUUGGCUUUGGCGGCGAAUGGCUGCCGCUGGGCGAAUUGGUGUCCAGUGCCGCCGAGGAGGAG
.......((((((((.(((((.....))))).))))))(.(((((.........((((((.....))))))((((((((......))))))))))))))..))..... ( -51.40)
>DroGri_CAF1 2971 107 - 1
AGC-UUGUUGCCUCCGGCAGCGAAUUAUUGCGCGAAGUGCGCGGCAUGGGCUUGGGCGGCGAGUGACUGCCACUGGCCGAAUUGGUGUCCAGCGCCGCCGAGGAGGAG
...-......((((((((...........((((.....))))(((.((((((..(.((((.((((.....)))).))))..)..).)))))..))))))..))))).. ( -47.90)
>DroSec_CAF1 2211 101 - 1
-------UGGCCUCCGGCAGGGAAUUGUUGCGCGAGGUGCGCGGCAUGGGCUUCGGUGGCGAGUGGCUGCCACUGGCUGAAUGGUUGUCCAGUCCACCGGAGGAGGAG
-------...(((((((...(((..((((((((.....))))))))(((((.(((..(((.(((((...))))).)))...)))..))))).))).)))))))..... ( -48.40)
>DroEre_CAF1 2196 101 - 1
-------UAGCCUCCGGUAGGGAAUUGUUGCGCGAAGUGCGCGGCAUGGGCUUCGGUGGGGAGUGGCUGCCACUGGCCGAAUGGUUGUCCAGUCCACCGGACGAGGAG
-------...((((((((.(((...((((((((.....))))))))(((((((((((.((..((....))..)).)))))).....))))).)))))))))...)).. ( -42.80)
>DroMoj_CAF1 2361 108 - 1
GGCGUUGUUGACUCCGGCAGCGAAUUGUUGCGCGAGGUGCGCGGCAUCGGCUUCGGCGGCGAGUGGCUGCCGCUUGGCGAAUUGGUGUCCAGUGCAGCCGAUGAGGAG
..((((((((....))))))))....(((((((.....)))))))(((((((..((((((.....))))))((((((((......)).)))).)))))))))...... ( -47.70)
>consensus
_______UGGCCUCCGGCAGCGAAUUGUUGCGCGAGGUGCGCGGCAUGGGCUUCGGCGGCGAGUGGCUGCCACUGGCCGAAUGGGUGUCCAGUCCACCCGAGGAGGAG
..........((((((...(((...((((((((.....))))))))(((((.....((((.((((.....)))).)))).......))))).)))..))))))..... (-33.87 = -34.23 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:25 2006