Locus 134

Sequence ID 3R_DroMel_CAF1
Location 726,993 – 727,123
Length 130
Max. P 0.705839
window216 window217

overview

Window 6

Location 726,993 – 727,097
Length 104
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.85
Mean single sequence MFE -28.45
Consensus MFE -26.45
Energy contribution -25.78
Covariance contribution -0.67
Combinations/Pair 1.12
Mean z-score -1.21
Structure conservation index 0.93
SVM decision value 0.36
SVM RNA-class probability 0.705839
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 726993 104 - 27905053
------AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAAGGCAGGCAAAUUGAAAUCAAUGAAAAUGCUGUAUUUCU----------
------....(((((.(((.((....((((((...((((((((((.((((...))))....))))).))))).))))))..((((....))))......))))).)))))---------- ( -29.30)
>DroPse_CAF1 143922 120 - 1
GGGGGCCGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCAAAUUGAAAUCAAUGAAAAUGCUGUAUUCCUCUGACUAAAG
.......((..(((..(((.((....((((((...((((((((((.((((...))))....))))).))))).))))))..((((....))))......)))))....)))..))..... ( -30.70)
>DroSec_CAF1 138909 104 - 1
------AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAAGGCGGGCAAAUUGAAAUCAAUGAAAGUGCUGUAUUUCU----------
------....(((((.(((.((....((((((...((((((((((.((((...))))....))))).))))).))))))..((((....))))......))))).)))))---------- ( -28.50)
>DroEre_CAF1 136834 104 - 1
------AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGUGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCAAAUUGAAAUCAAUGAAAAUGCUGUAUUUCU----------
------..((((.(((((((((....)).........)))))))..)))).....(((((((((((((........)))..((((....))))......)))))))))).---------- ( -25.40)
>DroAna_CAF1 138582 104 - 1
------AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCAAAUUGAAAUCAAUGAAAAUGCUGUAUUCCU----------
------....((((((((((......((((((...((((((((((.((((...))))....))))).))))).))))))..((((....))))....))).))).)))).---------- ( -26.90)
>DroPer_CAF1 144139 120 - 1
GGGGGCCAUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCAAAUUGAAAUCAAUGAAAAUGCUGUAUUCCUCUGACUAAAG
(((((.....(....)(((.((....((((((...((((((((((.((((...))))....))))).))))).))))))..((((....))))......)))))..)))))......... ( -29.90)
>consensus
______AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCAAAUUGAAAUCAAUGAAAAUGCUGUAUUCCU__________
..........((((((((((......((((((...((((((((((.((((...))))....))))).))))).))))))..((((....))))....))).))).))))........... (-26.45 = -25.78 +  -0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 727,023 – 727,123
Length 100
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 81.05
Mean single sequence MFE -32.33
Consensus MFE -24.32
Energy contribution -24.10
Covariance contribution -0.22
Combinations/Pair 1.18
Mean z-score -1.21
Structure conservation index 0.75
SVM decision value 0.06
SVM RNA-class probability 0.566197
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 727023 100 - 27905053
--GGUCGCAUGAAUG-GCUGGGGCCCCAG---------------AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAAGGCAGGCA
--....(((((....-.((((....))))---------------...((....)))))))....((((((...((((((((((.((((...))))....))))).))))).)))))). ( -36.60)
>DroPse_CAF1 143962 118 - 1
AUGGGGGUACGAGUGAGCAUGGGGUACGGACGGGGGGUGGGGGCCGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCA
.((.(..(((((((.((((((..((.(.(((((..........))))).)..)).))))))...)))))))..((((((((((.((((...))))....))))).)))))).)).... ( -36.20)
>DroSim_CAF1 141132 100 - 1
--GGUCGCAUGAAUG-GCUGGGGACACAG---------------AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAAGGCGGGCA
--....(((((....-.(((......)))---------------...((....)))))))....((((((...((((((((((.((((...))))....))))).))))).)))))). ( -32.20)
>DroEre_CAF1 136864 97 - 1
--GGUCGCAUGAAUG-GCUGGG---CCAG---------------AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGUGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCA
--....(((((..((-((...)---))).---------------...((....)))))))....((((((...((((((((((.((((...))))....))))).))))).)))))). ( -30.10)
>DroAna_CAF1 138612 98 - 1
--GGGUG-GUGGAUG-GA-GGGCAGAUGG---------------AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCA
--.....-.......-..-.((((..((.---------------.........))..))))...((((((...((((((((((.((((...))))....))))).))))).)))))). ( -23.90)
>DroPer_CAF1 144179 117 - 1
AUGG-GGUACGAGUGAGCAUGGGGUACGGACGGGGGGUGGGGGCCAUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCA
.((.-(.(((((((.((((((.((..(..((.....))..)..))..((....))))))))...)))))))..((((((((((.((((...))))....))))).)))))).)).... ( -35.00)
>consensus
__GGUCGCAUGAAUG_GCUGGGGACACAG_______________AGUUGGAGACACAUGCUAUGGCUUGUAAAUUGUGCGUCGGUCAGAAAUUGAAAUAUGGCGUCGCAACGCAGGCA
......(((((.........(.....)....................((....)))))))....((((((...((((((((((.((((...))))....))))).))))).)))))). (-24.32 = -24.10 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:02 2006