Locus 240

Sequence ID 2L_DroMel_CAF1
Location 709,435 – 709,563
Length 128
Max. P 0.997895
window384 window385

overview

Window 4

Location 709,435 – 709,549
Length 114
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 93.14
Mean single sequence MFE -26.14
Consensus MFE -24.90
Energy contribution -25.10
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.95
SVM decision value 2.96
SVM RNA-class probability 0.997895
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 709435 114 + 22407834
AGAUCUAAGAUCCGUUGGAAAUGACGGAGUGAACGGAGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAUGCUUGCACAGCGAAAAAUA-AGUUAA-AGCAAAGA
...(((....((((((......))))))((.(((...........((((((.((..(.(((.((.......))...))).)..)).))))))........-.)))..-.))..))) ( -24.25)
>DroSec_CAF1 88465 114 + 1
AGAUCUGAGAUCCGUUGGAAAUGACGGAGCGAACGGAGCAUGAGGGCUGUGGGAAUGACCAGUGGAUAAAACAAAAUGGAUGCUUGCACAGCGAAAAAUA-AGUUAA-AACAAAGA
.(.((((.(.((((((......)))))).)...)))).)......((((((.((..(.(((.((.......))...))).)..)).))))))........-......-........ ( -26.70)
>DroSim_CAF1 93460 114 + 1
AGAUCUGAGAUCCGUUGGAGAUGACGGAGCGAACGGAGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAUUCUUGCACAGCGAAAAAUA-AGUUAA-AGCAAAGA
.(.((((.(.((((((......)))))).)...)))).)......(((((((((((..(((.((.......))...))))))))..))))))........-......-........ ( -26.50)
>DroEre_CAF1 97828 115 + 1
AGAUCUGAGAUCCGUUGGAAAUGACGGAGUGAACGGAGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAAGCUUGCACAGCGAAAAAAAGAGUUUA-AGCAAAGA
.(.((((...((((((......)))))).....)))).)......((((((.((.(..(((.((.......))...)))..).)).))))))...............-........ ( -25.90)
>DroYak_CAF1 93933 114 + 1
AGAUCUGAGAUCCGUUCGAAAUGACGGAGUGGACGGAGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAAGCUUGCACAGCGAAAAAAAG--UUACUGCCAAAGA
...(((....((((((......)))))).(((.((((((......((((((.((.(..(((.((.......))...)))..).)).))))))........)--)).)))))).))) ( -27.34)
>consensus
AGAUCUGAGAUCCGUUGGAAAUGACGGAGUGAACGGAGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAUGCUUGCACAGCGAAAAAUA_AGUUAA_AGCAAAGA
.(.((((...((((((......)))))).....)))).)......((((((.((....(((.((.......))...)))....)).))))))........................ (-24.90 = -25.10 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 709,471 – 709,563
Length 92
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 85.32
Mean single sequence MFE -23.84
Consensus MFE -19.02
Energy contribution -19.90
Covariance contribution 0.88
Combinations/Pair 1.05
Mean z-score -2.34
Structure conservation index 0.80
SVM decision value 1.63
SVM RNA-class probability 0.968970
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 709471 92 + 22407834
AGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAUGCUUGCACAGCGAAAAAUA-AGUUAA-AGCAAAGAAUCCUAGUGCCUCA-------------
.((((.(((((((((.((..(.(((.((.......))...))).)..)).))))))........-.((...-.)).......))).))))....------------- ( -23.60)
>DroSec_CAF1 88501 90 + 1
AGCAUGAGGGCUGUGGGAAUGACCAGUGGAUAAAACAAAAUGGAUGCUUGCACAGCGAAAAAUA-AGUUAA-AACAAAGAAUCCUAGUGCCU---------------
.((((.(((((((((.((..(.(((.((.......))...))).)..)).))))))........-.((...-.)).......))).))))..--------------- ( -23.00)
>DroSim_CAF1 93496 92 + 1
AGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAUUCUUGCACAGCGAAAAAUA-AGUUAA-AGCAAAGAAUCCUAGUGCCUCA-------------
.((((.((((((((((((((..(((.((.......))...))))))))..))))))........-.((...-.)).......))).))))....------------- ( -23.40)
>DroEre_CAF1 97864 106 + 1
AGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAAGCUUGCACAGCGAAAAAAAGAGUUUA-AGCAAAGAAUCCUACUGCCCCAAUGCCUCAAGGCA
....((.((((.((((((....(((.((.......))...)))..(((((.((.............)).))-)))......)))))).)))))).((((....)))) ( -31.72)
>DroYak_CAF1 93969 86 + 1
AGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAAGCUUGCACAGCGAAAAAAAG--UUACUGCCAAAGAAUCCUAGU-------------------
......(((((((((.((.(..(((.((.......))...)))..).)).)))))).........--...((.....))...)))...------------------- ( -17.50)
>consensus
AGCAUGAGGGCUGUGGGAAUGACCAGUGGAUGAAACAAAAUGGAUGCUUGCACAGCGAAAAAUA_AGUUAA_AGCAAAGAAUCCUAGUGCCUCA_____________
.((((.(((((((((.((....(((.((.......))...)))....)).))))))..........((.....)).......))).))))................. (-19.02 = -19.90 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:57 2006