Locus 8910

Sequence ID	3R_DroMel_CAF1
Location	23,906,881 – 23,906,975
Length	94
Max. P	0.999743

overview

Window 2

Location	23,906,881 – 23,906,975
Length	94
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	92.35
Mean single sequence MFE	-27.14
Consensus MFE	-22.66
Energy contribution	-22.90
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.53
Structure conservation index	0.83
SVM decision value	0.66
SVM RNA-class probability	0.814910
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23906881 94 + 27905053
UCUGGCCAUU-UGGUCCCAUAAUGGCCAUUGGGCUGACCAGACUUCAAUUAUUUGUGUCUGGCCCACGACGCCCACGGAUUGAAAAUGGGAAAUU
..((((((((-((....)).)))))))).(((((....(((((..(((....))).)))))))))).....((((...........))))..... ( -31.20)
>DroSec_CAF1 107442 89 + 1
UCUGGCCAUU-UGGUCCCAUAAUGGCCAUUGGGCUGACCAGACUCCAAUUAUUUGUGUCUGGCCCACGACGCCCACGGAUUGAAAAUGGG-----
..((((((((-((....)).)))))))).(((((((.((((((..(((....))).))))))..))....)))))...............----- ( -30.40)
>DroSim_CAF1 110135 91 + 1
UCUGGCCAUU-UGGUCCCAUAAUAGCCAUUGGGCUGACCAGACUCCAAUUAUUUGUGUCUGGCCCACGACGCCCACGGAUUGAAAAUGGGAA---
....(((...-.)))(((((.....((..(((((((.((((((..(((....))).))))))..))....))))).)).......)))))..--- ( -27.30)
>DroEre_CAF1 111496 94 + 1
UCUGGCUAUU-UGGUCCCAUAAUGGCCAUUGGACUGACCAGACUCCAAUUAUUUGUGUCUGCCCCACGACGCCCACGGAUUGAAAAUGGAAAAUU
..((((((((-((....)).)))))))).........(((.....(((((....(((((........))))).....)))))....)))...... ( -22.30)
>DroYak_CAF1 115109 95 + 1
UUUGGCUAUUUUGGUCCCAUAAUGGCCAUUGCACUGACCAGACUCCAAUUAUUUGUGUCUGCCCCACGACGCCCACGGAUUGAAAAUGCGAAAUU
..((((((((.((....)).))))))))(((((((....))....(((((....(((((........))))).....)))))....))))).... ( -24.50)
>consensus
UCUGGCCAUU_UGGUCCCAUAAUGGCCAUUGGGCUGACCAGACUCCAAUUAUUUGUGUCUGGCCCACGACGCCCACGGAUUGAAAAUGGGAAAUU
..((((((((.((....)).)))))))).........(((.....(((((....(((((........))))).....)))))....)))...... (-22.66 = -22.90 +   0.24)

alignment

secondary structure

dotplot

Window 3

Location	23,906,881 – 23,906,975
Length	94
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	92.35
Mean single sequence MFE	-30.44
Consensus MFE	-29.64
Energy contribution	-30.32
Covariance contribution	0.68
Combinations/Pair	1.08
Mean z-score	-2.14
Structure conservation index	0.97
SVM decision value	3.99
SVM RNA-class probability	0.999743
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23906881 94 - 27905053
AAUUUCCCAUUUUCAAUCCGUGGGCGUCGUGGGCCAGACACAAAUAAUUGAAGUCUGGUCAGCCCAAUGGCCAUUAUGGGACCA-AAUGGCCAGA
....................(((((......((((((((.(((....)))..)))))))).))))).((((((((.((....))-)))))))).. ( -34.90)
>DroSec_CAF1 107442 89 - 1
-----CCCAUUUUCAAUCCGUGGGCGUCGUGGGCCAGACACAAAUAAUUGGAGUCUGGUCAGCCCAAUGGCCAUUAUGGGACCA-AAUGGCCAGA
-----...............(((((......((((((((.(((....)))..)))))))).))))).((((((((.((....))-)))))))).. ( -36.40)
>DroSim_CAF1 110135 91 - 1
---UUCCCAUUUUCAAUCCGUGGGCGUCGUGGGCCAGACACAAAUAAUUGGAGUCUGGUCAGCCCAAUGGCUAUUAUGGGACCA-AAUGGCCAGA
---.................(((((......((((((((.(((....)))..)))))))).))))).((((((((.((....))-)))))))).. ( -34.10)
>DroEre_CAF1 111496 94 - 1
AAUUUUCCAUUUUCAAUCCGUGGGCGUCGUGGGGCAGACACAAAUAAUUGGAGUCUGGUCAGUCCAAUGGCCAUUAUGGGACCA-AAUAGCCAGA
....((((((.......((((((((......((.(((((.(((....)))..))))).)).)))).)))).....))))))...-.......... ( -23.20)
>DroYak_CAF1 115109 95 - 1
AAUUUCGCAUUUUCAAUCCGUGGGCGUCGUGGGGCAGACACAAAUAAUUGGAGUCUGGUCAGUGCAAUGGCCAUUAUGGGACCAAAAUAGCCAAA
......(((((..((...((....))...))((.(((((.(((....)))..))))).)))))))..((((.(((.((....)).))).)))).. ( -23.60)
>consensus
AAUUUCCCAUUUUCAAUCCGUGGGCGUCGUGGGCCAGACACAAAUAAUUGGAGUCUGGUCAGCCCAAUGGCCAUUAUGGGACCA_AAUGGCCAGA
....................(((((......((((((((.(((....)))..)))))))).))))).((((((((.((....)).)))))))).. (-29.64 = -30.32 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:32 2006