Locus 2797

Sequence ID	X_DroMel_CAF1
Location	7,483,687 – 7,483,833
Length	146
Max. P	0.999312

overview

Window 1

Location	7,483,687 – 7,483,794
Length	107
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.41
Mean single sequence MFE	-26.42
Consensus MFE	-26.26
Energy contribution	-26.30
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-2.02
Structure conservation index	0.99
SVM decision value	3.50
SVM RNA-class probability	0.999312
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7483687 107 + 22224390
-------------ACAGCCCAUCGAAAUUUAACCCACUAAGCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAA
-------------................................((((((((....((((((((.(((..(.....)...((......))))).))))))))..))))))))....... ( -27.50)
>DroSec_CAF1 16769 107 + 1
-------------ACAGUCCAUCGAAAUUUAACCCACUAAGCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAA
-------------................................((((((((....((((((((.(((..(.....)...((......))))).))))))))..))))))))....... ( -27.50)
>DroSim_CAF1 18451 107 + 1
-------------ACAGCCCAUCGAAAUUUAACCCACUAAGCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAA
-------------................................((((((((....((((((((.(((..(.....)...((......))))).))))))))..))))))))....... ( -27.50)
>DroEre_CAF1 17782 119 + 1
ACACCCGCACG-ACCCAGCCAUCGAAAUUUAACCCACUAAGCUCUGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAA
.........((-(........)))....................(((((((((....((((((((.(((..(.....)...((......))))).))))))))..)))))))))...... ( -28.90)
>DroYak_CAF1 20098 120 + 1
CCACCCGCCCGCAACAACCCAUCGAAAUUUAACCCACUAAGCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUCCAUUUUGCCAGUAACAAAA
.............................................((((((((....((.(((((.(((..(.....)...((......))))).))))).))..))))))))....... ( -20.70)
>consensus
_____________ACAGCCCAUCGAAAUUUAACCCACUAAGCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAA
.............................................((((((((....((((((((.(((..(.....)...((......))))).))))))))..))))))))....... (-26.26 = -26.30 +   0.04)

alignment

secondary structure

dotplot

Window 2

Location	7,483,714 – 7,483,833
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.04
Mean single sequence MFE	-27.38
Consensus MFE	-26.26
Energy contribution	-26.30
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-1.44
Structure conservation index	0.96
SVM decision value	1.52
SVM RNA-class probability	0.960853
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7483714 119 + 22224390
GCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAACUGUCGUCCUUUUCCCGAUUU-CCCGCCUUGAUUUUCUCC
((...((((((((....((((((((.(((..(.....)...((......))))).))))))))..)))))))).........((((.........))))..-...))............. ( -29.20)
>DroSec_CAF1 16796 119 + 1
GCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAACUGUCGUCCUUUUCCCGAUUU-CCCGCCUUGAUUUUCUCC
((...((((((((....((((((((.(((..(.....)...((......))))).))))))))..)))))))).........((((.........))))..-...))............. ( -29.20)
>DroSim_CAF1 18478 119 + 1
GCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAACUGUCGUCCUUUUCCCGAUUU-CCCGCCUUGAUUUUCUCC
((...((((((((....((((((((.(((..(.....)...((......))))).))))))))..)))))))).........((((.........))))..-...))............. ( -29.20)
>DroEre_CAF1 17821 101 + 1
GCUCUGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAACUGUCGUCCUUUUCCCAAUUU-------------------
....(((((((((....((((((((.(((..(.....)...((......))))).))))))))..)))))))))...........................------------------- ( -28.00)
>DroYak_CAF1 20138 120 + 1
GCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUCCAUUUUGCCAGUAACAAAACUGUCGUCCUUUUCCCGAUUUUCCCCCCUUGAUUUUCUCC
.....((((((((....((.(((((.(((..(.....)...((......))))).))))).))..)))))))).........((((.........))))..................... ( -21.30)
>consensus
GCUCCGCUGGCAGCACUUGAAACAAAAGCAACUCUUUGGCAGCUGACACGCGCUGUUGUUUCAUUUUGCCAGCAACAAAACUGUCGUCCUUUUCCCGAUUU_CCCGCCUUGAUUUUCUCC
.....((((((((....((((((((.(((..(.....)...((......))))).))))))))..))))))))............................................... (-26.26 = -26.30 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:38 2006