Locus 2102

Sequence ID	3R_DroMel_CAF1
Location	5,987,709 – 5,987,902
Length	193
Max. P	0.837244

overview

Window 7

Location	5,987,709 – 5,987,806
Length	97
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	83.17
Mean single sequence MFE	-37.65
Consensus MFE	-28.29
Energy contribution	-29.65
Covariance contribution	1.36
Combinations/Pair	1.03
Mean z-score	-2.11
Structure conservation index	0.75
SVM decision value	0.49
SVM RNA-class probability	0.758312
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5987709 97 - 27905053
ACA------------GCUGCAACCAGUUGCAUCCAGUGCCGAUCUUCUGGCCGGCGGAGAUCAGUUCUCCAAUUCGACGAUGAAAUCGGAGGACGCCAUCAACGGCAGU------
.((------------((((....))))))..(((...((((..(....)..))))(((((.....)))))..(((((........)))))))).(((......)))...------ ( -32.30)
>DroVir_CAF1 1 112 - 1
GAACACAACGACCGCGCUCCCGGCUGUUGCUUCCAGCGCCGAUUUACUCGCCGGCGGCGAACCAGUGACCAAUUCAACCACUAAAUCCGAGGAUGCCACCCCAGGAAGUUGA---
.....((((..(((((((...(((....)))...))))).............((.(((.....((((...........))))..(((....)))))).))...))..)))).--- ( -30.20)
>DroSec_CAF1 1 100 - 1
ACA------------GCUGCAACCAGUUGCAUCCAGUGCCGAUCUUCUGGCCGGCGGAGAUCAGUUCUCCAAUUCGACGAUGAAGUCGGAGGACGCCAUCAACGGCAGUUGA---
.((------------(((((.....((.((.(((...((((..(....)..))))(((((.....)))))..((((((......))))))))).)).)).....))))))).--- ( -41.20)
>DroSim_CAF1 1 100 - 1
ACA------------GCUGCAACCAGUCGCAUCCAGUGCCGAUCUUCUGGCCGGCGGAGAUCAGUUCUCCAAUUCGACGAUGAAGUCGGAGGACGCCAUCAACGGCAGUUGA---
.((------------(((((.....((.((.(((...((((..(....)..))))(((((.....)))))..((((((......))))))))).)).)).....))))))).--- ( -41.20)
>DroEre_CAF1 41 103 - 1
ACA------------GCUGCAACCAGUUGCAUCCAGUGCCGAUCUUCUGGCGGGCGGAGAUCAAUUCUCCAAUUCGACGAUGAAGUCGGAGGACGCCAUCAACGGCAGUUGAAGG
.((------------(((((((....))))).....(((((......(((((..((((((.....)))))..((((((......)))))))..)))))....))))))))).... ( -40.00)
>DroYak_CAF1 1 100 - 1
GCA------------GCUGCAACCAGUUGCAUCCAGUGCCGAUCUUCUGGCCGGCGGAGAUCAAUUCUCCAAUUCGACGAUGAAGUCGGAGGACGCCAUCAACGGCAGUUGA---
(((------------((((....))))))).(((...((((..(....)..))))(((((.....)))))..((((((......))))))))).(((......)))......--- ( -41.00)
>consensus
ACA____________GCUGCAACCAGUUGCAUCCAGUGCCGAUCUUCUGGCCGGCGGAGAUCAAUUCUCCAAUUCGACGAUGAAGUCGGAGGACGCCAUCAACGGCAGUUGA___
...............(((((.....((.((.(((...((((.((....)).))))(((((.....)))))..((((((......))))))))).)).)).....)))))...... (-28.29 = -29.65 +   1.36)

alignment

secondary structure

dotplot

Window 8

Location	5,987,806 – 5,987,902
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	86.39
Mean single sequence MFE	-38.88
Consensus MFE	-33.25
Energy contribution	-33.70
Covariance contribution	0.45
Combinations/Pair	1.19
Mean z-score	-2.01
Structure conservation index	0.86
SVM decision value	0.74
SVM RNA-class probability	0.837244
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5987806 96 + 27905053
GCCUGUUGCACUGCCACGUUCACUGGGACCAUUGGCACCAUCGGCACAGCCGUGGCUUCCAUUCCCGGAGCGGUGCUAAUAGUUCUGGCCAGAUUC
(((.((.((...)).)).......(((((.(((((((((..((((...))))..(((.((......)))))))))))))).))))))))....... ( -33.80)
>DroSec_CAF1 101 96 + 1
GCCUGCUGCACCGCCACGUUCACUGGGACCAUUGGCACCAUCGGCACAGCCGUGGCUUCCAUUCCCGGAGCGGUGCUAAUGGUUCUGGCCAGAUUC
(((.((......))..........(((((((((((((((..((((...))))..(((.((......)))))))))))))))))))))))....... ( -40.00)
>DroSim_CAF1 101 96 + 1
GCCUGUUGCACCGCCACGUUCACUGGGACCAUUGGCACCAUCGGCACAGCCGUGGCUUCCAUUCCGGGAGCGGUGCUAAUGGUUCUGGCCAGAUUC
(((.((.((...)).)).......(((((((((((((((..((((...))))..((((((.....))))))))))))))))))))))))....... ( -44.30)
>DroEre_CAF1 144 96 + 1
GCCGCUUGCACAGCCACAUUUACUGGGACUAUGGGCACCAUCGGCACAGCCGUGGCUUCCAUUCCCGGAGCGGUGCUUAUGGUUCUGGCCAGAUUC
((((((.....)))..........(((((((((((((((..((((...))))..(((.((......)))))))))))))))))))))))....... ( -38.70)
>DroYak_CAF1 101 96 + 1
GCCUGUUGCACUGCCACGUUCACUGGGACCAUUGGCACCAACGGCACAGCCGUGGCCUCCAUUCCGGGAGCGGUGCUAAUGGUUCUGGCCAGAUUC
(((.((.((...)).)).......(((((((((((((((.(((((...))))).((..((.....))..))))))))))))))))))))....... ( -42.90)
>DroAna_CAF1 86 96 + 1
GCUUGGGGCACUGGAAUAGCCACUGGGAUAACUGGAACCAAGGGCACGGCCGAAGCAUCCACUCCUGGGGCCGUGCUUAUAGUCCUGGCCAGAUUU
..(((((((.........))).(..((((...((....)).((((((((((..((.........))..))))))))))...))))..))))).... ( -33.60)
>consensus
GCCUGUUGCACUGCCACGUUCACUGGGACCAUUGGCACCAUCGGCACAGCCGUGGCUUCCAUUCCCGGAGCGGUGCUAAUGGUUCUGGCCAGAUUC
((.....)).............(..((((((((((((((..((((...))))..((.(((......)))))))))))))))))))..)........ (-33.25 = -33.70 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:28 2006