Locus 52

Sequence ID 2R_DroMel_CAF1
Location 1,308,119 – 1,308,258
Length 139
Max. P 0.933746
window101 window102

overview

Window 1

Location 1,308,119 – 1,308,239
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 97.92
Mean single sequence MFE -29.65
Consensus MFE -27.10
Energy contribution -27.60
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -3.00
Structure conservation index 0.91
SVM decision value 1.23
SVM RNA-class probability 0.933746
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1308119 120 + 20766785
UAAAUGCCAUUACUAUUUUGUAAACAUUGCGACAGAGUGAGUGGCCAAAAUUGUUAACUUACAAGGUCGUGAAAAUCCAUAAAAAAUGGGAAACAUUCGCGUACAAAAAACAAUGGCUGC
.....((((((....(((((((..(.(..((((...((((((...((....))...))))))...))))..)...(((((.....)))))........)..)))))))...))))))... ( -31.10)
>DroSec_CAF1 26525 120 + 1
UAAAUGCCAUUACUAUUUGGUAAACAUUGCGACAGAGUGAGUGGCCAAAAUUGUUAACUUACAAGGUCGUGAAAAUACACAAAAAACGGGAAACAUUCGCGUACAAAAAACAAUGGCUGC
.....((((((....(((((((....(..((((...((((((...((....))...))))))...))))..)...))).))))..(((.((.....)).))).........))))))... ( -29.20)
>DroSim_CAF1 5520 120 + 1
UAAAUGCCAUUACUAUUUGGUAAACAUUGCGACAGAGUGAGUGGCCAAAAUUGUUAACUUACAAGGUCGUGAAAAUACACAAAAAACGGGAAACAUUCGCGUACAAAAAACAAUGGCUGC
.....((((((....(((((((....(..((((...((((((...((....))...))))))...))))..)...))).))))..(((.((.....)).))).........))))))... ( -29.20)
>DroEre_CAF1 9332 120 + 1
UAAAUGCCAUUACUAUUUUGUAAACAUUGCGACAGAGUGAGUGGCCAAAAUUGUUAACUUACAAGGUCGUGAAAAUACAUAAAAAAUGGGAAACAUUCGCGUACAAAAAACAAUGGCUGC
.....((((((....(((((((..(.(..((((...((((((...((....))...))))))...))))..)................(....)....)..)))))))...))))))... ( -29.10)
>consensus
UAAAUGCCAUUACUAUUUGGUAAACAUUGCGACAGAGUGAGUGGCCAAAAUUGUUAACUUACAAGGUCGUGAAAAUACACAAAAAACGGGAAACAUUCGCGUACAAAAAACAAUGGCUGC
.....((((((....(((((((..(.(..((((...((((((...((....))...))))))...))))..)................(....)....)..)))))))...))))))... (-27.10 = -27.60 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,308,159 – 1,308,258
Length 99
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 94.54
Mean single sequence MFE -20.07
Consensus MFE -17.50
Energy contribution -17.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.76
Structure conservation index 0.87
SVM decision value 1.08
SVM RNA-class probability 0.912656
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1308159 99 + 20766785
GUGGCCAAAAUUGUUAACUUACAAGGUCGUGAAAAUCCAUAAAAAAUGGGAAACAUUCGCGUACAAAAAACAAUGGCUGCGAAACCAACACACAGACAA
(..((((...((((......)))).((((((((..(((((.....))))).....)))))).)).........))))..)................... ( -22.00)
>DroSec_CAF1 26565 95 + 1
GUGGCCAAAAUUGUUAACUUACAAGGUCGUGAAAAUACACAAAAAACGGGAAACAUUCGCGUACAAAAAACAAUGGCUGC--AGCCAAC--ACAGACAA
(..((((...((((......)))).((((((((......(.......)(....).)))))).)).........))))..)--.......--........ ( -19.10)
>DroSim_CAF1 5560 95 + 1
GUGGCCAAAAUUGUUAACUUACAAGGUCGUGAAAAUACACAAAAAACGGGAAACAUUCGCGUACAAAAAACAAUGGCUGC--AACCAAC--ACAGACAA
(..((((...((((......)))).((((((((......(.......)(....).)))))).)).........))))..)--.......--........ ( -19.10)
>consensus
GUGGCCAAAAUUGUUAACUUACAAGGUCGUGAAAAUACACAAAAAACGGGAAACAUUCGCGUACAAAAAACAAUGGCUGC__AACCAAC__ACAGACAA
(..((((...((((......)))).((((((((....(.........)(....).)))))).)).........))))..)................... (-17.50 = -17.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:56 2006