Locus 8214

Sequence ID	X_DroMel_CAF1
Location	20,416,933 – 20,417,024
Length	91
Max. P	0.996797

overview

Window 7

Location	20,416,933 – 20,417,024
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	98.90
Mean single sequence MFE	-15.90
Consensus MFE	-15.90
Energy contribution	-15.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.00
Structure conservation index	1.00
SVM decision value	2.75
SVM RNA-class probability	0.996797
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20416933 91 + 22224390
AAAAUGCCACAGCUCAUGGGUUGACUUUUGGCCAACGAACAAAAGAAAAAAAUUAACACUGAACUGAAGAAAAGGCACGAAAAAAUACCGU
....((((.(((((....))))).((((((.........))))))............................)))).............. ( -15.90)
>DroSec_CAF1 6320 91 + 1
AAAAUGCCACAGCUCAUGGGUUGACUUUUGGCCAACGAACAAAAGAAAAAAAUUAACACUGAACUGAAGAAAAGGCACGAAAAAAUACCGU
....((((.(((((....))))).((((((.........))))))............................)))).............. ( -15.90)
>DroSim_CAF1 2719 91 + 1
AAAAUGCCACAGCUCAUGGGUUGACUUUUGGCCAACGAACAAAAGAAAAAAAUUAACACUGAACUGAAGAAAAGGCACGAAAAAAUACCGU
....((((.(((((....))))).((((((.........))))))............................)))).............. ( -15.90)
>DroEre_CAF1 5610 90 + 1
AAAAUGCCACAGCUCAUGGGUUGACUUUUGGCCAACGAACAAAAGAAA-AAAUUAACACUGAACUGAAGAAAAGGCACGAAAAAAUAACGU
....((((.(((((....))))).((((((.........))))))...-........................)))).............. ( -15.90)
>DroYak_CAF1 2390 91 + 1
AAAAUGCCACAGCUCAUGGGUUGACUUUUGGCCAACGAACAAAAGAAAAAAAUUAACACUGAACUGAAGAAAAGGCACGAAAAAAUAACGU
....((((.(((((....))))).((((((.........))))))............................)))).............. ( -15.90)
>consensus
AAAAUGCCACAGCUCAUGGGUUGACUUUUGGCCAACGAACAAAAGAAAAAAAUUAACACUGAACUGAAGAAAAGGCACGAAAAAAUACCGU
....((((.(((((....))))).((((((.........))))))............................)))).............. (-15.90 = -15.90 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	20,416,933 – 20,417,024
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	98.90
Mean single sequence MFE	-17.12
Consensus MFE	-16.80
Energy contribution	-16.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.37
Structure conservation index	0.98
SVM decision value	0.69
SVM RNA-class probability	0.823583
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20416933 91 - 22224390
ACGGUAUUUUUUCGUGCCUUUUCUUCAGUUCAGUGUUAAUUUUUUUCUUUUGUUCGUUGGCCAAAAGUCAACCCAUGAGCUGUGGCAUUUU
.............(((((.......(((((((..(((.((((((..((..(....)..))..)))))).)))...))))))).)))))... ( -17.20)
>DroSec_CAF1 6320 91 - 1
ACGGUAUUUUUUCGUGCCUUUUCUUCAGUUCAGUGUUAAUUUUUUUCUUUUGUUCGUUGGCCAAAAGUCAACCCAUGAGCUGUGGCAUUUU
.............(((((.......(((((((..(((.((((((..((..(....)..))..)))))).)))...))))))).)))))... ( -17.20)
>DroSim_CAF1 2719 91 - 1
ACGGUAUUUUUUCGUGCCUUUUCUUCAGUUCAGUGUUAAUUUUUUUCUUUUGUUCGUUGGCCAAAAGUCAACCCAUGAGCUGUGGCAUUUU
.............(((((.......(((((((..(((.((((((..((..(....)..))..)))))).)))...))))))).)))))... ( -17.20)
>DroEre_CAF1 5610 90 - 1
ACGUUAUUUUUUCGUGCCUUUUCUUCAGUUCAGUGUUAAUUU-UUUCUUUUGUUCGUUGGCCAAAAGUCAACCCAUGAGCUGUGGCAUUUU
.............(((((.......(((((((((....))..-............((((((.....))))))...))))))).)))))... ( -16.80)
>DroYak_CAF1 2390 91 - 1
ACGUUAUUUUUUCGUGCCUUUUCUUCAGUUCAGUGUUAAUUUUUUUCUUUUGUUCGUUGGCCAAAAGUCAACCCAUGAGCUGUGGCAUUUU
.............(((((.......(((((((..(((.((((((..((..(....)..))..)))))).)))...))))))).)))))... ( -17.20)
>consensus
ACGGUAUUUUUUCGUGCCUUUUCUUCAGUUCAGUGUUAAUUUUUUUCUUUUGUUCGUUGGCCAAAAGUCAACCCAUGAGCUGUGGCAUUUU
.............(((((.......(((((((((....))...............((((((.....))))))...))))))).)))))... (-16.80 = -16.80 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:35 2006