Locus 2457

Sequence ID	X_DroMel_CAF1
Location	6,571,077 – 6,571,217
Length	140
Max. P	0.999879

overview

Window 0

Location	6,571,077 – 6,571,177
Length	100
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	97.21
Mean single sequence MFE	-27.50
Consensus MFE	-27.80
Energy contribution	-27.48
Covariance contribution	-0.32
Combinations/Pair	1.06
Mean z-score	-2.38
Structure conservation index	1.01
SVM decision value	4.35
SVM RNA-class probability	0.999879
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6571077 100 + 22224390
GUAGCGCCAUAAAAACGCACUCGCUUCCAGUUUUGCUGUUUA-ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAAUUAAAGCAGCGCAACUGGAA
...(((.........))).......(((((((.((((((((.-.....((......)).((((((((((....))).))))))))))))))).))))))). ( -27.50)
>DroSec_CAF1 15988 100 + 1
GUAGCGCCAUAAAAACGCACUCGCUUCCAGUUUUGCUGUUUA-ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAGUUAAAGCAGCGCAACUGGAA
...(((.........))).......(((((((.((((((((.-.....((......)).((((((((((....))).))))))))))))))).))))))). ( -27.50)
>DroSim_CAF1 26533 100 + 1
GUAGCGCCAUAAAAACGCACUCGCUUCCAGUUUUGCUGUUUA-ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAAUUAAAGCAGCGCAACUGGAA
...(((.........))).......(((((((.((((((((.-.....((......)).((((((((((....))).))))))))))))))).))))))). ( -27.50)
>DroEre_CAF1 15680 100 + 1
UUAGCGCCAUAAAAACGCACUUGUUUCCAGUUUUGCUGUUUA-ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAAUUAAAGCAGCGCAACUGGAA
...(((.........)))......((((((((.((((((((.-.....((......)).((((((((((....))).))))))))))))))).)))))))) ( -27.60)
>DroYak_CAF1 25549 101 + 1
UUAGCGCCAUAAAAACGCACUCGUUUCCAGUUUUGCUGUUUAAACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAGGCGCAAUUAAAGCAGCGCAACUGGAA
...(((.........)))......((((((((.((((((((.......((......)).(((((((((......)).))))))))))))))).)))))))) ( -27.40)
>consensus
GUAGCGCCAUAAAAACGCACUCGCUUCCAGUUUUGCUGUUUA_ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAAUUAAAGCAGCGCAACUGGAA
...(((.........)))......((((((((.((((((((.......((......)).((((((((((....))).))))))))))))))).)))))))) (-27.80 = -27.48 +  -0.32)

alignment

secondary structure

dotplot

Window 1

Location	6,571,077 – 6,571,177
Length	100
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	97.21
Mean single sequence MFE	-28.68
Consensus MFE	-25.32
Energy contribution	-25.16
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.38
Structure conservation index	0.88
SVM decision value	2.71
SVM RNA-class probability	0.996536
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6571077 100 - 22224390
UUCCAGUUGCGCUGCUUUAAUUGCGCUUGAAAAAGACAAUCAUUCUAAUGCGACUUGU-UAAACAGCAAAACUGGAAGCGAGUGCGUUUUUAUGGCGCUAC
((((((((..((((.((((((..(((..(((...........)))....)))....))-))))))))..))))))))......(((((.....)))))... ( -28.80)
>DroSec_CAF1 15988 100 - 1
UUCCAGUUGCGCUGCUUUAACUGCGCUUGAAAAAGACAAUCAUUCUAAUGCGACUUGU-UAAACAGCAAAACUGGAAGCGAGUGCGUUUUUAUGGCGCUAC
((((((((..((((.((((((..(((..(((...........)))....)))....))-))))))))..))))))))......(((((.....)))))... ( -30.30)
>DroSim_CAF1 26533 100 - 1
UUCCAGUUGCGCUGCUUUAAUUGCGCUUGAAAAAGACAAUCAUUCUAAUGCGACUUGU-UAAACAGCAAAACUGGAAGCGAGUGCGUUUUUAUGGCGCUAC
((((((((..((((.((((((..(((..(((...........)))....)))....))-))))))))..))))))))......(((((.....)))))... ( -28.80)
>DroEre_CAF1 15680 100 - 1
UUCCAGUUGCGCUGCUUUAAUUGCGCUUGAAAAAGACAAUCAUUCUAAUGCGACUUGU-UAAACAGCAAAACUGGAAACAAGUGCGUUUUUAUGGCGCUAA
((((((((..((((.((((((..(((..(((...........)))....)))....))-))))))))..))))))))......(((((.....)))))... ( -28.80)
>DroYak_CAF1 25549 101 - 1
UUCCAGUUGCGCUGCUUUAAUUGCGCCUGAAAAAGACAAUCAUUCUAAUGCGACUUGUUUAAACAGCAAAACUGGAAACGAGUGCGUUUUUAUGGCGCUAA
...(((.....)))........((((((((((((((.......)))..(((.((((((((...(((.....))).))))))))))))))))).)))))... ( -26.70)
>consensus
UUCCAGUUGCGCUGCUUUAAUUGCGCUUGAAAAAGACAAUCAUUCUAAUGCGACUUGU_UAAACAGCAAAACUGGAAGCGAGUGCGUUUUUAUGGCGCUAC
((((((((..((((.((((((..(((..(((...........)))....)))....)).))))))))..))))))))......(((((.....)))))... (-25.32 = -25.16 +  -0.16)

alignment

secondary structure

dotplot

Window 2

Location	6,571,098 – 6,571,217
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.15
Mean single sequence MFE	-33.50
Consensus MFE	-32.42
Energy contribution	-32.34
Covariance contribution	-0.08
Combinations/Pair	1.08
Mean z-score	-1.33
Structure conservation index	0.97
SVM decision value	0.96
SVM RNA-class probability	0.889508
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6571098 119 + 22224390
CGCUUCCAGUUUUGCUGUUUA-ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAAUUAAAGCAGCGCAACUGGAAAAACUGCGUGUGAAUGGAAUACCCCGGACUUGAAAUGGUC
(((((((((((.((((((((.-.....((......)).((((((((((....))).))))))))))))))).)))))))).....)))......(((......)))((((......)))) ( -30.90)
>DroSec_CAF1 16009 119 + 1
CGCUUCCAGUUUUGCUGUUUA-ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAGUUAAAGCAGCGCAACUGGAAAAACUGCGUGUGAAUGGAAUACCCCGGACUUGACGUGGUC
...((((((((.((((((((.-.....((......)).((((((((((....))).))))))))))))))).))))))))..((..(((..(..(((......)))..)...)))..)). ( -34.60)
>DroSim_CAF1 26554 119 + 1
CGCUUCCAGUUUUGCUGUUUA-ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAAUUAAAGCAGCGCAACUGGAAAAACUGCGUGUGAAUGGAAUACCCCGGACUUGACGUGGUC
...((((((((.((((((((.-.....((......)).((((((((((....))).))))))))))))))).))))))))..((..(((..(..(((......)))..)...)))..)). ( -34.60)
>DroEre_CAF1 15701 119 + 1
UGUUUCCAGUUUUGCUGUUUA-ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAAUUAAAGCAGCGCAACUGGAAAAACUGCGUGUGAAUGGAAUACCCCGGACUUGAUGUGGUC
..(((((((((.((((((((.-.....((......)).((((((((((....))).))))))))))))))).))))))))).((..(((..(..(((......)))..)...)))..)). ( -33.80)
>DroYak_CAF1 25570 120 + 1
CGUUUCCAGUUUUGCUGUUUAAACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAGGCGCAAUUAAAGCAGCGCAACUGGAAAAACUGCGUGUGAAUGGAAUACCCCGGACUUGAUGUGGUC
..(((((((((.((((((((.......((......)).(((((((((......)).))))))))))))))).))))))))).((..(((..(..(((......)))..)...)))..)). ( -33.60)
>consensus
CGCUUCCAGUUUUGCUGUUUA_ACAAGUCGCAUUAGAAUGAUUGUCUUUUUCAAGCGCAAUUAAAGCAGCGCAACUGGAAAAACUGCGUGUGAAUGGAAUACCCCGGACUUGACGUGGUC
...((((((((.((((((((.......((......)).((((((((((....))).))))))))))))))).))))))))..(((((((..(..(((......)))..)...))))))). (-32.42 = -32.34 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:11 2006