Locus 4543

Sequence ID 2L_DroMel_CAF1
Location 13,023,109 – 13,023,201
Length 92
Max. P 0.901801
window7159 window7160

overview

Window 9

Location 13,023,109 – 13,023,201
Length 92
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 79.15
Mean single sequence MFE -21.07
Consensus MFE -7.93
Energy contribution -10.04
Covariance contribution 2.11
Combinations/Pair 1.07
Mean z-score -3.18
Structure conservation index 0.38
SVM decision value 1.02
SVM RNA-class probability 0.901801
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13023109 92 + 22407834
-GGGUGUG--UGUUAGUGACAAUAGAAAUCCCAAAACAG----GUGCCUAAAACGAAUCCCCAACUCCACUAACGCAUACCCAAAAAAAAAUAUGGA-AA
-(((((((--((((((((....(((..(((........)----))..)))....(......).....)))))))))))))))...............-.. ( -26.10)
>DroPse_CAF1 3875 92 + 1
GGAGUGUG--UGUUAGUGACAAAAUAUAACCAUUAAUCGGUGUGUGCCUAAAACAAUUCCCAACCUC----AACAGAAACCCGAAAAAAAA--UAAACUA
(((((.((--(.((((..(((.......(((.......))).)))..)))).)))))))).......----....................--....... ( -12.60)
>DroSec_CAF1 4646 90 + 1
-GGGUGUG--UGUUAGUGACAAUAGAAAUCCUAAAACAG----GUGCCUAAAACGAUUUCCCAACUCCACUAACGCAUACCCCAAAAAAAA--UGGA-AA
-(((((((--((((((((......((((((.......((----....)).....)))))).......))))))))))))))).........--....-.. ( -28.22)
>DroEre_CAF1 4697 89 + 1
-GGGUGUG--UGUUAGUGACAAUAGAAAUCCUAAAACAG----GUGCCUAAAACGAAUCCCCAACUCCACUAACGCAUACCCCAAAAAAAA--GGAA--A
-(((((((--((((((((....(((....(((.....))----)...)))....(......).....))))))))))))))).........--....--. ( -25.80)
>DroYak_CAF1 3405 92 + 1
-GGGUGUGUUUGUUAGUGACAAUAGAAAUCCUAAAACAG----GUGCCUAAAACGAAUCCCCAACUCCACUAACGCAUACCCCAAAAAAAA--GGAA-AA
-((((((((..(((((((....(((....(((.....))----)...)))....(......).....))))))))))))))).........--....-.. ( -21.10)
>DroPer_CAF1 3891 91 + 1
GGAGUGUG--UGUUAGUGACAAAAUAUAACCAUUAAUCGGUGUGUGCCUAAAACAAUUCCCAACCUC----AACAGAAACCCGAAA-AAAA--UAAACUA
(((((.((--(.((((..(((.......(((.......))).)))..)))).)))))))).......----...............-....--....... ( -12.60)
>consensus
_GGGUGUG__UGUUAGUGACAAUAGAAAUCCUAAAACAG____GUGCCUAAAACGAAUCCCCAACUCCACUAACGCAUACCCCAAAAAAAA__UGAA_AA
.(((((((..((((((((.................................................))))))))))))))).................. ( -7.93 = -10.04 +   2.11)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,023,109 – 13,023,201
Length 92
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 79.15
Mean single sequence MFE -22.05
Consensus MFE -12.56
Energy contribution -14.98
Covariance contribution 2.42
Combinations/Pair 1.19
Mean z-score -1.62
Structure conservation index 0.57
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13023109 92 - 22407834
UU-UCCAUAUUUUUUUUUGGGUAUGCGUUAGUGGAGUUGGGGAUUCGUUUUAGGCAC----CUGUUUUGGGAUUUCUAUUGUCACUAACA--CACACCC-
..-...............((((.((.((((((((...(((..((((....(((....----))).....))))..)))...)))))))).--)).))))- ( -28.30)
>DroPse_CAF1 3875 92 - 1
UAGUUUA--UUUUUUUUCGGGUUUCUGUU----GAGGUUGGGAAUUGUUUUAGGCACACACCGAUUAAUGGUUAUAUUUUGUCACUAACA--CACACUCC
..(((((--..(..((((.((..((....----))..)).))))..)...))))).......(((.((((....))))..))).......--........ ( -10.20)
>DroSec_CAF1 4646 90 - 1
UU-UCCA--UUUUUUUUGGGGUAUGCGUUAGUGGAGUUGGGAAAUCGUUUUAGGCAC----CUGUUUUAGGAUUUCUAUUGUCACUAACA--CACACCC-
..-....--.........((((.((.((((((((.....(((((((.(..(((....----)))....).)))))))....)))))))).--)).))))- ( -28.00)
>DroEre_CAF1 4697 89 - 1
U--UUCC--UUUUUUUUGGGGUAUGCGUUAGUGGAGUUGGGGAUUCGUUUUAGGCAC----CUGUUUUAGGAUUUCUAUUGUCACUAACA--CACACCC-
.--....--.........((((.((.((((((((...(((..((((....(((....----))).....))))..)))...)))))))).--)).))))- ( -29.40)
>DroYak_CAF1 3405 92 - 1
UU-UUCC--UUUUUUUUGGGGUAUGCGUUAGUGGAGUUGGGGAUUCGUUUUAGGCAC----CUGUUUUAGGAUUUCUAUUGUCACUAACAAACACACCC-
..-....--.........((((.((.((((((((...(((..((((....(((....----))).....))))..)))...))))))))...)).))))- ( -26.30)
>DroPer_CAF1 3891 91 - 1
UAGUUUA--UUUU-UUUCGGGUUUCUGUU----GAGGUUGGGAAUUGUUUUAGGCACACACCGAUUAAUGGUUAUAUUUUGUCACUAACA--CACACUCC
.......--....-((((.((..((....----))..)).)))).((((...((((...((((.....)))).......))))...))))--........ ( -10.10)
>consensus
UU_UUCA__UUUUUUUUGGGGUAUGCGUUAGUGGAGUUGGGGAAUCGUUUUAGGCAC____CUGUUUUAGGAUUUCUAUUGUCACUAACA__CACACCC_
..................((((.((.((((((((...(((((((((....(((........))).....)))))))))...))))))))...)).)))). (-12.56 = -14.98 +   2.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:37 2006