Locus 1448

Sequence ID	X_DroMel_CAF1
Location	4,369,952 – 4,370,107
Length	155
Max. P	0.943641

overview

Window 8

Location	4,369,952 – 4,370,048
Length	96
Sequences	4
Columns	96
Reading direction	forward
Mean pairwise identity	96.01
Mean single sequence MFE	-19.59
Consensus MFE	-18.40
Energy contribution	-18.21
Covariance contribution	-0.19
Combinations/Pair	1.09
Mean z-score	-1.59
Structure conservation index	0.94
SVM decision value	0.32
SVM RNA-class probability	0.688657
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4369952 96 + 22224390
GUUAUCUGUUUUUGCACAUAUUCUUUAGCUUUGGCUGCUGAUUCUACGGCUUUUGCUGCUUCUUUCCGCACUUUGCAGUCAAGCCACAUAAUUACA
..(((.(((....))).))).((..((((....))))..))......(((((..(((((...............))))).)))))........... ( -18.46)
>DroSec_CAF1 155331 96 + 1
GUUAUCUGUUUUUGCACAUAUUCUUUAGCUUUGGCUGCUGAUUCUACGGCUUCUGCUGCUUCUUUCCGCACUUUGCAGUCAAGCCACAUAAUUACA
..(((.(((....))).))).((..((((....))))..))......((((((((((((........)))....))))..)))))........... ( -18.50)
>DroEre_CAF1 165997 96 + 1
GUUAUCUGUUUUUGCACAUAUUCUUCAGCUUUGGCUGGUGAUUUUACGGCUUCUGCUGCUUCUUUCCGCACUUUGCAGUCGAGCCACAUAAUUACA
..(((.(((....))).))).....((((....))))((((((....((((((((((((........)))....))))..)))))....)))))). ( -23.50)
>DroYak_CAF1 157626 96 + 1
GUUAUCUGUUUUUGCACAUAUUCUUCAGCUUUGUCUGGUGAUUCAACGGCUUCUGCUGCUUCUUUCCGCACUUUGCAGUCAAGCCACAUAAUUACA
..(((.(((....))).))).....(((......)))((((((....((((((((((((........)))....))))..)))))....)))))). ( -17.90)
>consensus
GUUAUCUGUUUUUGCACAUAUUCUUCAGCUUUGGCUGCUGAUUCUACGGCUUCUGCUGCUUCUUUCCGCACUUUGCAGUCAAGCCACAUAAUUACA
..(((.(((....))).))).((..((((....))))..))......(((((..(((((...............))))).)))))........... (-18.40 = -18.21 +  -0.19)

alignment

secondary structure

dotplot

Window 9

Location	4,370,015 – 4,370,107
Length	92
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	72.61
Mean single sequence MFE	-29.76
Consensus MFE	-16.44
Energy contribution	-17.04
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.97
Structure conservation index	0.55
SVM decision value	1.34
SVM RNA-class probability	0.943641
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4370015 92 - 22224390
---CUUCCUCAUUUGCACCCACAUGCACAUGUGGCUGGUGGAGUAGGUGG------------UCCUCUUGUUGCUGUAAUUAUGUGGCUUGACUGCAAAGUGCGGAA
---..(((.((((((((.(((((((.(((.(..((.((.(((.(....).------------))).)).))..))))...)))))))......))).))))).))). ( -28.60)
>DroSec_CAF1 155394 104 - 1
---CUCCCUCAUUUGCACCCACUUGCACAUGUGGGUGGUGGAGUAGGUGGUGGGGCUGGUGCUCCUCUUGUUGCUGUAAUUAUGUGGCUUGACUGCAAAGUGCGGAA
---...((.(((((.(((((((........))))))).....((((.....(((((....)))))((..((..(.........)..))..)))))).))))).)).. ( -36.20)
>DroSim_CAF1 142884 104 - 1
---CUCCCUCAUUUGCACCCACUUGCACAUGUGGGUUGAGGGGUAGGUGGUGGGGCUGGUGCUCCUCUUGUUGCUGUAAUUAUGUGGCUGNNNNNNNNNNNNNNNNN
---.(((((((.....((((((........))))))))))))).....((.(((((....))))).))....((..((....))..))................... ( -31.70)
>DroEre_CAF1 166060 80 - 1
---CUCUCCCAUUUUCACCCACUUACACAUGUGGGUGG------------------------UCCUCUUGUUGCUGUAAUUAUGUGGCUCGACUGCAAAGUGCGGAA
---...((((((((((((((((........)))))))(------------------------(..((..((..(.........)..))..))..)))))))).))). ( -25.70)
>DroYak_CAF1 157689 83 - 1
CCUCUCUCCCAUUUUCACCCACUUACACAUGUGGGUGG------------------------UCCUCUUGUUGCUGUAAUUAUGUGGCUUGACUGCAAAGUGCGGAA
......((((((((((((((((........)))))))(------------------------(..((..((..(.........)..))..))..)))))))).))). ( -26.60)
>consensus
___CUCCCUCAUUUGCACCCACUUGCACAUGUGGGUGG_GG_GUAGGUGG____________UCCUCUUGUUGCUGUAAUUAUGUGGCUUGACUGCAAAGUGCGGAA
...............(((((((........)))))))...................................((..((....))..))....((((.....)))).. (-16.44 = -17.04 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:40 2006