Locus 7704

Sequence ID 3R_DroMel_CAF1
Location 20,698,239 – 20,698,355
Length 116
Max. P 0.788083
window12426 window12427

overview

Window 6

Location 20,698,239 – 20,698,355
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.38
Mean single sequence MFE -25.77
Consensus MFE -15.41
Energy contribution -14.97
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -1.95
Structure conservation index 0.60
SVM decision value 0.58
SVM RNA-class probability 0.788083
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20698239 116 + 27905053
CGAUAAGGCAUCUUCAUUCUGUCUGUGUACUUGCAAGUUCAGAAUGACU-UGCUUGUUGAUUAGAUUA-AAUAGUAUGCAGAGUUGUGGGAAAUACCCCACUAUAA--CAAUGUCAAUCA
.(((..(((((..........((((((((((.(((((((......))))-)))...(((((...))))-)..))))))))))((((((((......)))))...))--).))))).))). ( -31.00)
>DroSim_CAF1 1 97 + 1
--------------------GUCUAUGUACUUGCAAGUUCAGAAUGACU-UGCUUGUUGAUUAGAUUAAAAUAGUAUGCAGCGUUGUGGGAACUACCCCACUAUAA--CAAUGUCAAUCA
--------------------(((((...((..(((((((......))))-)))..))....)))))...........(((..((((((((......)))))...))--)..)))...... ( -23.00)
>DroYak_CAF1 1 96 + 1
-----------------------UAUAUAUUUGCAAGUUCAGAAUGACUUUGCUUGCUGAUUAGAUUA-AGGUGUAUGCAGCGUAGUGGGAACUACUCCACUAUAACACAAUGUCAAUCA
-----------------------.........((((((..((.....))..)))))).((((.(((..-..((((.......((((((((......)))))))).))))...))))))). ( -23.30)
>consensus
____________________GUCUAUGUACUUGCAAGUUCAGAAUGACU_UGCUUGUUGAUUAGAUUA_AAUAGUAUGCAGCGUUGUGGGAACUACCCCACUAUAA__CAAUGUCAAUCA
................................((((((..((.....))..))))))(((((.(((........((((.......(((((......))))))))).......)))))))) (-15.41 = -14.97 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,698,239 – 20,698,355
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.38
Mean single sequence MFE -22.97
Consensus MFE -13.53
Energy contribution -13.86
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.59
SVM decision value 0.07
SVM RNA-class probability 0.567416
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20698239 116 - 27905053
UGAUUGACAUUG--UUAUAGUGGGGUAUUUCCCACAACUCUGCAUACUAUU-UAAUCUAAUCAACAAGCA-AGUCAUUCUGAACUUGCAAGUACACAGACAGAAUGAAGAUGCCUUAUCG
.(((.(.((((.--((((.((((((....))))))...((((..(((((((-......)))......(((-((((.....).)))))).))))..))))....)))).)))).)..))). ( -25.90)
>DroSim_CAF1 1 97 - 1
UGAUUGACAUUG--UUAUAGUGGGGUAGUUCCCACAACGCUGCAUACUAUUUUAAUCUAAUCAACAAGCA-AGUCAUUCUGAACUUGCAAGUACAUAGAC--------------------
((((((..((((--..((((((..(((((.........))))).))))))..)))).))))))....(((-((((.....).))))))............-------------------- ( -22.00)
>DroYak_CAF1 1 96 - 1
UGAUUGACAUUGUGUUAUAGUGGAGUAGUUCCCACUACGCUGCAUACACCU-UAAUCUAAUCAGCAAGCAAAGUCAUUCUGAACUUGCAAAUAUAUA-----------------------
.((((((....((((....(..(.(((((....))))).)..)..)))).)-)))))......(((((...((.....))...))))).........----------------------- ( -21.00)
>consensus
UGAUUGACAUUG__UUAUAGUGGGGUAGUUCCCACAACGCUGCAUACUAUU_UAAUCUAAUCAACAAGCA_AGUCAUUCUGAACUUGCAAGUACAUAGAC____________________
.((.((((...........((((((....)))))).....(((........................)))..)))).))......................................... (-13.53 = -13.86 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:32 2006