Locus 8231

Sequence ID	3L_DroMel_CAF1
Location	21,635,016 – 21,635,156
Length	140
Max. P	0.825902

overview

Window 2

Location	21,635,016 – 21,635,133
Length	117
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	94.46
Mean single sequence MFE	-32.58
Consensus MFE	-29.68
Energy contribution	-29.35
Covariance contribution	-0.33
Combinations/Pair	1.16
Mean z-score	-1.29
Structure conservation index	0.91
SVM decision value	0.70
SVM RNA-class probability	0.825902
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21635016 117 - 23771897
CACUCACUGGCAC---UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAUAAACUAAACGACAGCUAACGGCGUUGACGCCAAGGAAUGA
(((.(((......---..))).)))...((.(((((.(((((..((((((...........))))))..)))))..............((((.((.....))))))..))))).)).... ( -32.20)
>DroSec_CAF1 11774 117 - 1
CACUCACUGGCAC---UUAUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAUAAACUAAACGACAGCUAACGGCGUUGACGCCAAGGAAUGA
...((((..((((---....))))))))((.(((((.(((((..((((((...........))))))..)))))..............((((.((.....))))))..))))).)).... ( -32.20)
>DroSim_CAF1 11884 117 - 1
CACUCACUGGCAC---UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAUAAACUAAACGACAGCUAACGGCGUUGACGCCAAGGAAUGA
(((.(((......---..))).)))...((.(((((.(((((..((((((...........))))))..)))))..............((((.((.....))))))..))))).)).... ( -32.20)
>DroEre_CAF1 10550 117 - 1
CAUUCACUGCCAC---UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAUAAACUAAACGACAGCUAACGGCGUUGACGCCAAGGAAUGA
(((((.(((((((---........))))).((((((.(((((..((((((...........))))))..))))).........(.....)...))))))((((....)))).))))))). ( -35.30)
>DroYak_CAF1 20883 117 - 1
CAUUCACUGGCAC---UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAUAAACUAAACGACAGCUAACGGCGUUGACGCCAAGGAAUGA
(((((..((((((---......))...(((((((((.(((((..((((((...........))))))..))))).........(.....)...)))))))))......))))..))))). ( -35.20)
>DroAna_CAF1 10053 120 - 1
AACAUAUAUGGAGUGAGUGUCUGUGUGGUCGUUGGCAGUAAGCAGUUCGGCACAUAAUUCACUGAGCAAUUUGCAACAAUAAACUAAACGACAGCUAACGGCGUUGACGCCAAGGAAUGG
..(((.......((.((((((.((.((((.((((...(((((..((((((...........))))))..)))))..))))..)))).)))))).)).))((((....)))).....))). ( -28.40)
>consensus
CACUCACUGGCAC___UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAUAAACUAAACGACAGCUAACGGCGUUGACGCCAAGGAAUGA
....(((..((((.....))))..))).((.(((((.(((((..((((((...........))))))..)))))..............((((.((.....))))))..))))).)).... (-29.68 = -29.35 +  -0.33)

alignment

secondary structure

dotplot

Window 3

Location	21,635,056 – 21,635,156
Length	100
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	87.44
Mean single sequence MFE	-27.56
Consensus MFE	-22.18
Energy contribution	-22.07
Covariance contribution	-0.11
Combinations/Pair	1.12
Mean z-score	-1.99
Structure conservation index	0.80
SVM decision value	0.12
SVM RNA-class probability	0.592208
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21635056 100 - 23771897
CCUGCCAAGCCUUUAAA-----------CAU------ACACACUCACUGGCAC---UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAU
..(((((((((.....(-----------(((------(((((...........---.))))))))))))..))))))(((((..((((((...........))))))..)))))...... ( -29.10)
>DroSec_CAF1 11814 100 - 1
CCUGCCAAGCCUUUAAA-----------CAU------ACACACUCACUGGCAC---UUAUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAU
..(((((((((......-----------...------((((((..........---....)))))))))..))))))(((((..((((((...........))))))..)))))...... ( -25.44)
>DroSim_CAF1 11924 100 - 1
CCUGCCAAGCCUUUAAA-----------CAU------ACACACUCACUGGCAC---UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAU
..(((((((((.....(-----------(((------(((((...........---.))))))))))))..))))))(((((..((((((...........))))))..)))))...... ( -29.10)
>DroEre_CAF1 10590 106 - 1
CCUGCCAAGCCUUUAAA-----------CAUACUCGUACACAUUCACUGCCAC---UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAU
..(((((((((.....(-----------(((((..((.((.......))..))---..))))))..)))..))))))(((((..((((((...........))))))..)))))...... ( -26.70)
>DroYak_CAF1 20923 100 - 1
CCUGCCAAGCCUUCAAA-----------UAU------ACACAUUCACUGGCAC---UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAU
..(((((((((.....(-----------(((------(((((...........---.))))))))))))..))))))(((((..((((((...........))))))..)))))...... ( -28.10)
>DroAna_CAF1 10093 114 - 1
CCUGCCAAGCCCUCGAAAUCAAAAACCACAU------ACAAACAUAUAUGGAGUGAGUGUCUGUGUGGUCGUUGGCAGUAAGCAGUUCGGCACAUAAUUCACUGAGCAAUUUGCAACAAU
.(((((((......(....)....(((((((------(((..(((.......)))..)))..)))))))..)))))))...(((((((((...........))))))....)))...... ( -26.90)
>consensus
CCUGCCAAGCCUUUAAA___________CAU______ACACACUCACUGGCAC___UUGUGUGUGUGGUCGUUGGCAGCAAGCAGUUCGGCACAUAAUUCACUGAACAAUUUGCAACAAU
..(((((((((..........................((((((...............))))))..)))..))))))(((((..((((((...........))))))..)))))...... (-22.18 = -22.07 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:02 2006