Locus 2456

Sequence ID	3R_DroMel_CAF1
Location	6,790,984 – 6,791,104
Length	120
Max. P	0.985539

overview

Window 1

Location	6,790,984 – 6,791,104
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.58
Mean single sequence MFE	-35.89
Consensus MFE	-31.88
Energy contribution	-31.96
Covariance contribution	0.08
Combinations/Pair	1.15
Mean z-score	-1.49
Structure conservation index	0.89
SVM decision value	1.13
SVM RNA-class probability	0.919107
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6790984 120 + 27905053
CGGCCAGAGGCCACCGGAGUGGGUGGAUAAGCUGCAGGUAAAAUCAGGUGGGUGGGCUCAAUUAGAAAGGUAAUGGUUCUGCAGCAAAAGGGGCCUCACUAAACGUGCUGAGAAAUGAAU
((((..(((((((((......)))......((((((((....((((..((((....)))).............))))))))))))......))))))((.....)))))).......... ( -34.56)
>DroSec_CAF1 49684 120 + 1
CGGCCAGAGGCCACCCGAGUGGGUGGAUAAGCUGCAGGUAAAAUGAGGUGGGUGGACUCAAUUAGAAAGGUAAUGGGUCUGCAGCAAAAAGGGCCUCACUAAACGUUCUGAGAAAUGAUU
.((((.....((((((....))))))....((((((((.....((((.........))))((((......))))...))))))))......))))........((((......))))... ( -35.80)
>DroSim_CAF1 54692 120 + 1
CGGCCAGAGGCCACCCGAGUGGGUGGAUAAGCUGCAGGUAAAAUCAGGUGGGUGGACUCAAUUAGAAAGGUAAUGGGUCUGCAGCAAAAGGGGCCUCACUAAACGUGCUGAGAAAUGAUU
((((..((((((((((....))))......(((((.......(((.....)))(((((((.(((......)))))))))))))))......))))))((.....)))))).......... ( -37.30)
>DroEre_CAF1 34855 120 + 1
CGGCCAGGGGCCAAAGGAGUGGGUGGAUAAGCUGCAGGUAAAACCAGGUGGGUGGACUCAAUUAGGAAGGUAAUGGGUCUGCAGCAAGAGGGGCCUCACUAAACGUACUGAGAAAUGAAU
.((((...)))).....((((.((......(((((.......(((.....)))(((((((.(((......)))))))))))))))..(((....))).....)).))))........... ( -33.90)
>DroYak_CAF1 47475 120 + 1
CGGCCAGAGGCUACCGGAGUGGGUGGAUAAGCUGCAGGUGAAACCAGGUGGGUGGACCCAAUUAGAAAGGUAAUGGGUCUGCAGCAGAAGGGGCCUCACUAAACGUGCUGAGAAAUGAUU
((((..(((((((((......)))......(((((.......(((.....)))(((((((.(((......)))))))))))))))......))))))((.....)))))).......... ( -37.90)
>consensus
CGGCCAGAGGCCACCGGAGUGGGUGGAUAAGCUGCAGGUAAAAUCAGGUGGGUGGACUCAAUUAGAAAGGUAAUGGGUCUGCAGCAAAAGGGGCCUCACUAAACGUGCUGAGAAAUGAUU
.((((.....(((((......)))))....(((((.......(((.....)))(((((((.(((......)))))))))))))))......))))......................... (-31.88 = -31.96 +   0.08)

alignment

secondary structure

dotplot

Window 2

Location	6,790,984 – 6,791,104
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.58
Mean single sequence MFE	-29.86
Consensus MFE	-24.38
Energy contribution	-24.98
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.34
Structure conservation index	0.82
SVM decision value	2.01
SVM RNA-class probability	0.985539
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6790984 120 - 27905053
AUUCAUUUCUCAGCACGUUUAGUGAGGCCCCUUUUGCUGCAGAACCAUUACCUUUCUAAUUGAGCCCACCCACCUGAUUUUACCUGCAGCUUAUCCACCCACUCCGGUGGCCUCUGGCCG
.............(((.....))).((((......(((((((...........(((.....)))..((......)).......)))))))....(((((......))))).....)))). ( -28.30)
>DroSec_CAF1 49684 120 - 1
AAUCAUUUCUCAGAACGUUUAGUGAGGCCCUUUUUGCUGCAGACCCAUUACCUUUCUAAUUGAGUCCACCCACCUCAUUUUACCUGCAGCUUAUCCACCCACUCGGGUGGCCUCUGGCCG
..(((((...(.....)...)))))((((......(((((((....((((......))))((((.........))))......)))))))....((((((....)))))).....)))). ( -33.10)
>DroSim_CAF1 54692 120 - 1
AAUCAUUUCUCAGCACGUUUAGUGAGGCCCCUUUUGCUGCAGACCCAUUACCUUUCUAAUUGAGUCCACCCACCUGAUUUUACCUGCAGCUUAUCCACCCACUCGGGUGGCCUCUGGCCG
.............(((.....))).((((......(((((((...........(((.....)))..((......)).......)))))))....((((((....)))))).....)))). ( -32.10)
>DroEre_CAF1 34855 120 - 1
AUUCAUUUCUCAGUACGUUUAGUGAGGCCCCUCUUGCUGCAGACCCAUUACCUUCCUAAUUGAGUCCACCCACCUGGUUUUACCUGCAGCUUAUCCACCCACUCCUUUGGCCCCUGGCCG
....................((((.((........(((((((....((((......))))((((.(((......))).)))).))))))).......)))))).....((((...)))). ( -24.46)
>DroYak_CAF1 47475 120 - 1
AAUCAUUUCUCAGCACGUUUAGUGAGGCCCCUUCUGCUGCAGACCCAUUACCUUUCUAAUUGGGUCCACCCACCUGGUUUCACCUGCAGCUUAUCCACCCACUCCGGUAGCCUCUGGCCG
.............(((.....))).((((......((((((((((((.............)))))).........((.....))))))))......(((......))).......)))). ( -31.32)
>consensus
AAUCAUUUCUCAGCACGUUUAGUGAGGCCCCUUUUGCUGCAGACCCAUUACCUUUCUAAUUGAGUCCACCCACCUGAUUUUACCUGCAGCUUAUCCACCCACUCCGGUGGCCUCUGGCCG
..(((((...(.....)...)))))((((......(((((((.........................................)))))))....(((((......))))).....)))). (-24.38 = -24.98 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:46 2006