Locus 6019

Sequence ID 3L_DroMel_CAF1
Location 16,056,086 – 16,056,191
Length 105
Max. P 0.772119
window9631 window9632

overview

Window 1

Location 16,056,086 – 16,056,179
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 87.67
Mean single sequence MFE -26.28
Consensus MFE -23.55
Energy contribution -23.13
Covariance contribution -0.41
Combinations/Pair 1.43
Mean z-score -1.57
Structure conservation index 0.90
SVM decision value 0.53
SVM RNA-class probability 0.772119
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16056086 93 - 23771897
ACCUUUUUCAUGACCGUUUGGUAGGCGGUUAUGUAGCUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAACUUCUCCAUCCUG
........((((((((((.....))))))))))..((((..((.....))((((((......))))))...))))(((......)))...... ( -31.00)
>DroSec_CAF1 6116 93 - 1
ACCUUUUUCAUGACCGUUUGGUAGGCGGUUAUAUAGCUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAACUUCUCCAUCCUG
.............(((((.((..((((((......((((((((.....))))))))......))))))..)))))))................ ( -29.40)
>DroEre_CAF1 5195 93 - 1
ACCUUUUUCAUGACCGUUUGGUAGGCGGUUAUGUAGCUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAACUUCUCCAUCCUG
........((((((((((.....))))))))))..((((..((.....))((((((......))))))...))))(((......)))...... ( -31.00)
>DroWil_CAF1 2438 93 - 1
ACCUUUUUCAUUACUGUUUGAUAUGCCGUUAUAUAGCUAUUACCCUCUGCAGCAGCCUCUCUGCUUCCUUUUAAUGGGAAUUUUUCCAUUCCU
........(((((((((.((((.....)))).))))..............(((((.....)))))......)))))(((((......))))). ( -12.80)
>DroYak_CAF1 5116 93 - 1
ACCUUUUUCAUGACUGUUUGGUAGGCGGUUAUGUAGUUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAACUUCUCCAUCCUG
........((((((((((.....))))))))))............(((((((((((......)))))).....)))))............... ( -26.80)
>DroAna_CAF1 4147 89 - 1
ACCUUUUUCAUCACUGUUUGGUAGGCGGUUAUGUAGUUGUUGCCCUCGGCGGCCGCCUCUCGACUGCCCUUCAGCGGAAACUUCUCCAU----
.............(((((.((..(((((((..(..((.((((((...)))))).))..)..)))))))..)))))))............---- ( -26.70)
>consensus
ACCUUUUUCAUGACCGUUUGGUAGGCGGUUAUGUAGCUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAACUUCUCCAUCCUG
.............(((((.((..((((((......((((((((.....))))))))......))))))..)))))))................ (-23.55 = -23.13 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,056,099 – 16,056,191
Length 92
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 84.91
Mean single sequence MFE -30.65
Consensus MFE -23.55
Energy contribution -23.59
Covariance contribution 0.03
Combinations/Pair 1.37
Mean z-score -1.81
Structure conservation index 0.77
SVM decision value 0.02
SVM RNA-class probability 0.544837
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16056099 92 - 23771897
-----UUAUGGUGGGCUACCUUUUUCAUGACCGUUUGGUAGGCGGUUAUGUAGCUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAA
-----.......((((.((......((((((((((.....)))))))))).....)).))))(((((((((((......)))))).....))))).. ( -38.20)
>DroSec_CAF1 6129 92 - 1
-----UUAUGGUGAGCUACCUUUUUCAUGACCGUUUGGUAGGCGGUUAUAUAGCUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAA
-----((((((.(((....)))..))))))(((((.((..((((((......((((((((.....))))))))......))))))..)))))))... ( -32.20)
>DroSim_CAF1 4643 92 - 1
-----UUAUGGUGAGCUACCUUUUUCAUGACCGUUUGGUAGGCGGUUAUGUAGCUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAA
-----....((..((((((.......(((((((((.....))))))))))))))..)..)).(((((((((((......)))))).....))))).. ( -34.81)
>DroWil_CAF1 2451 92 - 1
-----AUUUGAUGGCUUACCUUUUUCAUUACUGUUUGAUAUGCCGUUAUAUAGCUAUUACCCUCUGCAGCAGCCUCUCUGCUUCCUUUUAAUGGGAA
-----...(((((((.........(((........)))...)))))))....((...........))(((((.....)))))((((......)))). ( -16.00)
>DroYak_CAF1 5129 92 - 1
-----UUAUGGUGGGCUACCUUUUUCAUGACUGUUUGGUAGGCGGUUAUGUAGUUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAA
-----.......((((.((..((..((((((((((.....)))))))))).))..)).))))(((((((((((......)))))).....))))).. ( -36.00)
>DroAna_CAF1 4156 96 - 1
AUCACUUAUGACUC-GUACCUUUUUCAUCACUGUUUGGUAGGCGGUUAUGUAGUUGUUGCCCUCGGCGGCCGCCUCUCGACUGCCCUUCAGCGGAAA
..............-...............(((((.((..(((((((..(..((.((((((...)))))).))..)..)))))))..)))))))... ( -26.70)
>consensus
_____UUAUGGUGGGCUACCUUUUUCAUGACCGUUUGGUAGGCGGUUAUGUAGCUGUUGCCCUCCGCGGCGGCCUCCCUGCUGCCCUUCAGCGGAAA
.....((((((.............))))))(((((.((..((((((......((((((((.....))))))))......))))))..)))))))... (-23.55 = -23.59 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:01 2006