Locus 9581

Sequence ID	3R_DroMel_CAF1
Location	25,304,830 – 25,304,923
Length	93
Max. P	0.999931

overview

Window 6

Location	25,304,830 – 25,304,923
Length	93
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	94.51
Mean single sequence MFE	-27.87
Consensus MFE	-26.86
Energy contribution	-26.74
Covariance contribution	-0.12
Combinations/Pair	1.09
Mean z-score	-2.44
Structure conservation index	0.96
SVM decision value	4.63
SVM RNA-class probability	0.999931
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25304830 93 + 27905053
GUAAGCAAUGACUACUGUACGAAAGUGGGAAGGGCAACUGACUUUUUACGACUGGCAGUAAAAAUGUGCCAGUUGUUAUCAAACAGCUGAUGA
....((..(..(((((.......)))))..)..))..(((.......((((((((((.........)))))))))).......)))....... ( -25.44)
>DroSec_CAF1 161628 93 + 1
GUAAGCAAUGACUACUGUACGAAAGUGGGAAGGGCAACUGGCUUUUUACGACUGGCAGUAAAAACGUGCCAGUUGUUAUCAAACAGCUGAUGC
....((..(..(((((.......)))))..)..))....((((.(((((((((((((((....)).))))))))))....))).))))..... ( -28.30)
>DroSim_CAF1 162531 93 + 1
GUAAGCAAUGACUACUGUACGAAAGUGGGAAGGGCAACUGGCUUUUUACGACUGGCAGUAAAAACGUGCCAGUUGUUAUCAAACAGCUGAUGC
....((..(..(((((.......)))))..)..))....((((.(((((((((((((((....)).))))))))))....))).))))..... ( -28.30)
>DroEre_CAF1 181578 92 + 1
-CAAGCAAUGGCCACUGUAGAAAAGUGGGAAGGGCAACUGGCUUUUUACGACUGGCAGCAAAAACGUGCCAGUUGUUAUCAAACAGCUGAUGA
-..(((.....(((((.......)))))(((((((.....)))))))((((((((((.(......))))))))))).........)))..... ( -29.20)
>DroYak_CAF1 168177 92 + 1
-UAAGCAAUGGCUACUGUAGCAAAGUGGGAAGGGCAACUGGCUUUUUACGACUGGCAGUAAAAACGUGCCAGUUGUUAUCAAACAGCUGAUGA
-..(((....((((...))))...((..((..(((((((((((((((((........)))))))...)))))))))).))..)).)))..... ( -28.10)
>consensus
GUAAGCAAUGACUACUGUACGAAAGUGGGAAGGGCAACUGGCUUUUUACGACUGGCAGUAAAAACGUGCCAGUUGUUAUCAAACAGCUGAUGA
....((..(..(((((.......)))))..)..))..(((.......((((((((((((....)).)))))))))).......)))....... (-26.86 = -26.74 +  -0.12)

alignment

secondary structure

dotplot

Window 7

Location	25,304,830 – 25,304,923
Length	93
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	94.51
Mean single sequence MFE	-21.88
Consensus MFE	-18.90
Energy contribution	-19.06
Covariance contribution	0.16
Combinations/Pair	1.13
Mean z-score	-1.81
Structure conservation index	0.86
SVM decision value	1.68
SVM RNA-class probability	0.971653
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25304830 93 - 27905053
UCAUCAGCUGUUUGAUAACAACUGGCACAUUUUUACUGCCAGUCGUAAAAAGUCAGUUGCCCUUCCCACUUUCGUACAGUAGUCAUUGCUUAC
.....(((....((((.((.(((((((.........))))))).(((.(((((..(........)..)))))..))).)).))))..)))... ( -18.20)
>DroSec_CAF1 161628 93 - 1
GCAUCAGCUGUUUGAUAACAACUGGCACGUUUUUACUGCCAGUCGUAAAAAGCCAGUUGCCCUUCCCACUUUCGUACAGUAGUCAUUGCUUAC
(((.(.(((((.(((...((((((((...(((((((........)))))))))))))))............))).))))).)....))).... ( -23.36)
>DroSim_CAF1 162531 93 - 1
GCAUCAGCUGUUUGAUAACAACUGGCACGUUUUUACUGCCAGUCGUAAAAAGCCAGUUGCCCUUCCCACUUUCGUACAGUAGUCAUUGCUUAC
(((.(.(((((.(((...((((((((...(((((((........)))))))))))))))............))).))))).)....))).... ( -23.36)
>DroEre_CAF1 181578 92 - 1
UCAUCAGCUGUUUGAUAACAACUGGCACGUUUUUGCUGCCAGUCGUAAAAAGCCAGUUGCCCUUCCCACUUUUCUACAGUGGCCAUUGCUUG-
....(((((((((....((.(((((((.((....))))))))).))...))).))))))......(((((.......)))))..........- ( -24.00)
>DroYak_CAF1 168177 92 - 1
UCAUCAGCUGUUUGAUAACAACUGGCACGUUUUUACUGCCAGUCGUAAAAAGCCAGUUGCCCUUCCCACUUUGCUACAGUAGCCAUUGCUUA-
....(((((((((....((.(((((((.((....))))))))).))...))).)))))).............((((...)))).........- ( -20.50)
>consensus
UCAUCAGCUGUUUGAUAACAACUGGCACGUUUUUACUGCCAGUCGUAAAAAGCCAGUUGCCCUUCCCACUUUCGUACAGUAGUCAUUGCUUAC
......(((((.(((...((((((((...(((((((........)))))))))))))))............))).)))))............. (-18.90 = -19.06 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:35 2006