Locus 6437

Sequence ID 2R_DroMel_CAF1
Location 20,102,745 – 20,102,845
Length 100
Max. P 0.995064
window10268 window10269

overview

Window 8

Location 20,102,745 – 20,102,845
Length 100
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 74.76
Mean single sequence MFE -24.14
Consensus MFE -14.90
Energy contribution -14.09
Covariance contribution -0.81
Combinations/Pair 1.24
Mean z-score -2.42
Structure conservation index 0.62
SVM decision value 2.54
SVM RNA-class probability 0.995064
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20102745 100 + 20766785
UUUUUGAGGAACCUUUAUUGGAAUUACAAGGGGCUAUAUAUUAUU--AAUA--UGCUAUAUUU-------CCUUGAGUAAUUCUUUAAGAGAAUUCAAUUAUGAAUCUCUG
.....(((....)))....((((((((..((((..(((((.(((.--...)--)).)))))..-------))))..))))))))...(((((.((((....))))))))). ( -22.30)
>DroSec_CAF1 3138 97 + 1
UUUUUGAGGAAUC--UAUUGGAAUUGCAAGGGGCUCUUUAUUGAU--ACUU--UGCUG-AUUC-------CCUUGAGCAAUUCUUAAAGAGAAUUCAAUUAUGAAUCUCUG
...(((((((.((--....((((((((((((...((......)).--.)))--))).)-))))-------)...))....)))))))(((((.((((....))))))))). ( -25.10)
>DroSim_CAF1 4484 99 + 1
UUUUUGAGGAAUCUUUAUUGGAAUUACAAGGGGCUAUUUAUUAUU--ACUC--UGCUG-AUUC-------CCUUAAGUAAUUCUUUAAGAGAAUUCAAUUAUGAAUCUCUG
....((((((((.((((..(((((((..((((.............--.)))--)..))-))))-------)..))))..))))))))(((((.((((....))))))))). ( -23.44)
>DroEre_CAF1 5514 105 + 1
----UUAGGUAGCUUCAUUGGAGUUACAAAGGGCUAUU-AUGGUUUUCAGAAAGACUG-AGACAACCAAAUCUUGAGUAACUCCCUAAUAGAAUUCAAUGAUGAACCUCUG
----..((((....(((((((((((((..(((..(...-.((((((((((.....)))-)))..)))))..)))..))))))))......(....))))))...))))... ( -25.70)
>consensus
UUUUUGAGGAAUCUUUAUUGGAAUUACAAGGGGCUAUUUAUUAUU__AAUA__UGCUG_AUUC_______CCUUGAGUAAUUCUUUAAGAGAAUUCAAUUAUGAAUCUCUG
...................((((((((..((((.....................................))))..))))))))...(((((.((((....))))))))). (-14.90 = -14.09 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 20,102,745 – 20,102,845
Length 100
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 74.76
Mean single sequence MFE -20.24
Consensus MFE -11.13
Energy contribution -10.25
Covariance contribution -0.88
Combinations/Pair 1.21
Mean z-score -2.52
Structure conservation index 0.55
SVM decision value 2.15
SVM RNA-class probability 0.989147
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20102745 100 - 20766785
CAGAGAUUCAUAAUUGAAUUCUCUUAAAGAAUUACUCAAGG-------AAAUAUAGCA--UAUU--AAUAAUAUAUAGCCCCUUGUAAUUCCAAUAAAGGUUCCUCAAAAA
.(((((((((....)))).)))))....(((((((....((-------..(((((..(--(...--.))..)))))..))....))))))).................... ( -17.20)
>DroSec_CAF1 3138 97 - 1
CAGAGAUUCAUAAUUGAAUUCUCUUUAAGAAUUGCUCAAGG-------GAAU-CAGCA--AAGU--AUCAAUAAAGAGCCCCUUGCAAUUCCAAUA--GAUUCCUCAAAAA
.(((((((((....)))).)))))....(((((((..((((-------(..(-(....--....--.........))..)))))))))))).....--............. ( -21.43)
>DroSim_CAF1 4484 99 - 1
CAGAGAUUCAUAAUUGAAUUCUCUUAAAGAAUUACUUAAGG-------GAAU-CAGCA--GAGU--AAUAAUAAAUAGCCCCUUGUAAUUCCAAUAAAGAUUCCUCAAAAA
.(((((((((....)))).)))))....(((((((..((((-------(...-.....--....--.............)))))))))))).................... ( -17.21)
>DroEre_CAF1 5514 105 - 1
CAGAGGUUCAUCAUUGAAUUCUAUUAGGGAGUUACUCAAGAUUUGGUUGUCU-CAGUCUUUCUGAAAACCAU-AAUAGCCCUUUGUAACUCCAAUGAAGCUACCUAA----
...((((.(.((((((....)......((((((((.....((((((((...(-(((.....)))).))))).-)))........))))))))))))).)..))))..---- ( -25.12)
>consensus
CAGAGAUUCAUAAUUGAAUUCUCUUAAAGAAUUACUCAAGG_______GAAU_CAGCA__UAGU__AACAAUAAAUAGCCCCUUGUAAUUCCAAUAAAGAUUCCUCAAAAA
.(((((((((....)))).)))))....(((((((..(((.........................................)))))))))).................... (-11.13 = -10.25 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:00 2006