Locus 6104

Sequence ID	2L_DroMel_CAF1
Location	17,106,043 – 17,106,150
Length	107
Max. P	0.998932

overview

Window 4

Location	17,106,043 – 17,106,150
Length	107
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	98.13
Mean single sequence MFE	-42.94
Consensus MFE	-40.86
Energy contribution	-41.46
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.03
Structure conservation index	0.95
SVM decision value	2.71
SVM RNA-class probability	0.996515
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17106043 107 + 22407834
UCUGCCAGUUUGAUAGCCGCUCCGUGUCAAUGCAAACAAUGCAGUGGAUAACACCGCGCAGGAGCAGGGGGCGUGGCCGGAAAGCCGGAAAGGGGGCGGUGGCAGGA
((((((.........((((((((.((((..((((.....))))...))))...((((((...........))))))((((....))))....)))))))))))))). ( -44.10)
>DroSec_CAF1 69952 107 + 1
UCUGCCAGUUUGAUAGCCGCUCCGUGUCAAUGCAAACAAUGCAGUGGAUAACACCGCGCAGGAGCAGGGGGCGUGGCCGGAAAGCCGGAAAGGGGGCGGUGGCAGGA
((((((.........((((((((.((((..((((.....))))...))))...((((((...........))))))((((....))))....)))))))))))))). ( -44.10)
>DroSim_CAF1 66393 107 + 1
UCUGCCAGUUUGAUAGCCGCUCCGUGUCAAUGCAAACAAUGCAGUGGAUAACACCGCGCAGGAGCAGGGGGCGUGGCCGGAAAGCCGGAAAGGGGGCGGUGGCAGGA
((((((.........((((((((.((((..((((.....))))...))))...((((((...........))))))((((....))))....)))))))))))))). ( -44.10)
>DroEre_CAF1 71292 106 + 1
UCUGCCAGUUUGAUAGCCGCUCCGUGUCAAUGCAAACAAUGCAGUGGAUAACAGCGCGCAGGAGCAGG-GGCGUGGCCGGAAAGCCGGAAAGGGGGCGGUGGCAGGA
((((((.........((((((((.((((..((((.....))))...))))...((((.(........)-.))))..((((....))))....)))))))))))))). ( -41.70)
>DroYak_CAF1 71521 107 + 1
UCUGCCAGUUUGAUAGCCGCUCCGUGUCAAUGCAAACAAUGCAGUGGAUAACACCGCACAGGAGCAGGGGGCGUGGCCGGAAAACCGGAAAGGGGGCGGGGGCAGGA
((((((..........(((((((..(((..(((...(..(((.(((.....))).)))..)..)))...)))....((((....))))....))))))).)))))). ( -40.70)
>consensus
UCUGCCAGUUUGAUAGCCGCUCCGUGUCAAUGCAAACAAUGCAGUGGAUAACACCGCGCAGGAGCAGGGGGCGUGGCCGGAAAGCCGGAAAGGGGGCGGUGGCAGGA
((((((.........((((((((.((((..((((.....))))...))))...((((((...........))))))((((....))))....)))))))))))))). (-40.86 = -41.46 +   0.60)

alignment

secondary structure

dotplot

Window 5

Location	17,106,043 – 17,106,150
Length	107
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	98.13
Mean single sequence MFE	-36.68
Consensus MFE	-35.56
Energy contribution	-35.60
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-2.20
Structure conservation index	0.97
SVM decision value	3.29
SVM RNA-class probability	0.998932
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17106043 107 - 22407834
UCCUGCCACCGCCCCCUUUCCGGCUUUCCGGCCACGCCCCCUGCUCCUGCGCGGUGUUAUCCACUGCAUUGUUUGCAUUGACACGGAGCGGCUAUCAAACUGGCAGA
..((((((.............((((....))))..(((....(((((...((((((.....))))))..((((......)))).))))))))........)))))). ( -37.70)
>DroSec_CAF1 69952 107 - 1
UCCUGCCACCGCCCCCUUUCCGGCUUUCCGGCCACGCCCCCUGCUCCUGCGCGGUGUUAUCCACUGCAUUGUUUGCAUUGACACGGAGCGGCUAUCAAACUGGCAGA
..((((((.............((((....))))..(((....(((((...((((((.....))))))..((((......)))).))))))))........)))))). ( -37.70)
>DroSim_CAF1 66393 107 - 1
UCCUGCCACCGCCCCCUUUCCGGCUUUCCGGCCACGCCCCCUGCUCCUGCGCGGUGUUAUCCACUGCAUUGUUUGCAUUGACACGGAGCGGCUAUCAAACUGGCAGA
..((((((.............((((....))))..(((....(((((...((((((.....))))))..((((......)))).))))))))........)))))). ( -37.70)
>DroEre_CAF1 71292 106 - 1
UCCUGCCACCGCCCCCUUUCCGGCUUUCCGGCCACGCC-CCUGCUCCUGCGCGCUGUUAUCCACUGCAUUGUUUGCAUUGACACGGAGCGGCUAUCAAACUGGCAGA
..((((((..(((........))).....((((.....-...((....))((.((((....((.((((.....)))).))..)))).)))))).......)))))). ( -32.60)
>DroYak_CAF1 71521 107 - 1
UCCUGCCCCCGCCCCCUUUCCGGUUUUCCGGCCACGCCCCCUGCUCCUGUGCGGUGUUAUCCACUGCAUUGUUUGCAUUGACACGGAGCGGCUAUCAAACUGGCAGA
..(((((............((((....))))....(((....(((((.((((((((.....))))))))((((......)))).)))))))).........))))). ( -37.70)
>consensus
UCCUGCCACCGCCCCCUUUCCGGCUUUCCGGCCACGCCCCCUGCUCCUGCGCGGUGUUAUCCACUGCAUUGUUUGCAUUGACACGGAGCGGCUAUCAAACUGGCAGA
..(((((..............((((....))))..(((....(((((...((((((.....))))))..((((......)))).)))))))).........))))). (-35.56 = -35.60 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:39 2006