Locus 6459

Sequence ID 3L_DroMel_CAF1
Location 17,235,454 – 17,235,603
Length 149
Max. P 0.994328
window10387 window10388

overview

Window 7

Location 17,235,454 – 17,235,569
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.09
Mean single sequence MFE -27.90
Consensus MFE -25.00
Energy contribution -24.84
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -1.60
Structure conservation index 0.90
SVM decision value 1.15
SVM RNA-class probability 0.922278
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17235454 115 + 23771897
GGUUCUUAAAUUGUUUUAUUUUUCCCCAGCCAUCCUCCUUUAUUAUUUAGCGUGGUUCGUCCUGUGCACUGUGUGGACAUUAUG-----UGGCCAGGACCUCCUGCCAUAUGUUUACUCA
((((...((((......))))......))))..................(((..(......)..)))...(.((((((((...(-----((((.(((....)))))))))))))))).). ( -25.80)
>DroSec_CAF1 119469 115 + 1
GGUUCUUAAAUUGUUUUAUUUUUCCCCAGCCAUCCUCCUUUAUUAUUUAGCGCGGUUCGUCCUGUGCACUGUGUGGACAUUAUG-----UGGCCAGGACCUCCUGCCAUAUGUUUACUCA
((((...((((......))))......))))..................((((((......))))))...(.((((((((...(-----((((.(((....)))))))))))))))).). ( -28.70)
>DroSim_CAF1 113293 115 + 1
GGUUCUUAAAUUGUUUUAUUUUUCCCCAGCCAUCCUCCUUUAUUAUUUAGCGCGGUUCGUCCUGUGCACUGUGUGGACAUUAUG-----UGGCCAGGACCUCCUGCCAUAUGUUUACUCA
((((...((((......))))......))))..................((((((......))))))...(.((((((((...(-----((((.(((....)))))))))))))))).). ( -28.70)
>DroEre_CAF1 122859 120 + 1
GGUUCUUAAAUUGUUUUAUUUUUCCCCAGCCAACCUCCUUUAUUAUUUAGCGCGGUUCGUCCUGUGCACAGUGUGGACAUUAUGUGGUGUGGCCAGGACCUCCUGCCAUAUGUUUACUCA
((((...((((......))))......))))..................((((((......))))))...(.((((((((........(((((.(((....)))))))))))))))).). ( -27.40)
>DroYak_CAF1 125788 115 + 1
GGUUCUUAAAUUGUUUUAUUUUUCCCCAGCCAUCCUCCUUUAUUAUUUAGCGCGGUUCGUCCUGUGCACAGUGUGGACAUUAUG-----UGGCCAGGACCUCCUGCCAUAUGUUUACUCA
((((...((((......))))......))))..................((((((......))))))...(.((((((((...(-----((((.(((....)))))))))))))))).). ( -28.90)
>consensus
GGUUCUUAAAUUGUUUUAUUUUUCCCCAGCCAUCCUCCUUUAUUAUUUAGCGCGGUUCGUCCUGUGCACUGUGUGGACAUUAUG_____UGGCCAGGACCUCCUGCCAUAUGUUUACUCA
((((...((((......))))......))))..................((((((......))))))...(.((((((((.........((((.(((....))))))).)))))))).). (-25.00 = -24.84 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,235,494 – 17,235,603
Length 109
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.36
Mean single sequence MFE -40.38
Consensus MFE -34.90
Energy contribution -34.90
Covariance contribution -0.00
Combinations/Pair 1.06
Mean z-score -2.14
Structure conservation index 0.86
SVM decision value 2.47
SVM RNA-class probability 0.994328
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17235494 109 + 23771897
UAUUAUUUAGCGUGGUUCGUCCUGUGCACUGUGUGGACAUUAUG-----UGGCCAGGACCUCCUGCCAUAUGUUUACUCAGUAUUUGUGUGGGU-----GGCUCGACGG-GGCGCUCUUU
.........(((..(......)..)))((((.((((((((...(-----((((.(((....)))))))))))))))).))))........((((-----(.((.....)-).)))))... ( -38.20)
>DroSec_CAF1 119509 109 + 1
UAUUAUUUAGCGCGGUUCGUCCUGUGCACUGUGUGGACAUUAUG-----UGGCCAGGACCUCCUGCCAUAUGUUUACUCAGUAUUUGUGUGGGU-----GGCUCGACGG-GGCGCUCUUU
.........((((((......))))))((((.((((((((...(-----((((.(((....)))))))))))))))).))))........((((-----(.((.....)-).)))))... ( -41.10)
>DroSim_CAF1 113333 109 + 1
UAUUAUUUAGCGCGGUUCGUCCUGUGCACUGUGUGGACAUUAUG-----UGGCCAGGACCUCCUGCCAUAUGUUUACUCAGUAUUUGUGUGGGU-----GGCUCGACGG-GGCGCUCUUU
.........((((((......))))))((((.((((((((...(-----((((.(((....)))))))))))))))).))))........((((-----(.((.....)-).)))))... ( -41.10)
>DroEre_CAF1 122899 114 + 1
UAUUAUUUAGCGCGGUUCGUCCUGUGCACAGUGUGGACAUUAUGUGGUGUGGCCAGGACCUCCUGCCAUAUGUUUACUCAGCAUUUGUGUGGGC-----GGCUCGACGG-GGCGCUCUUU
........((.(((.((((((((((.(((.(.((((((((........(((((.(((....)))))))))))))))).).((....))))).))-----))...)))))-).))).)).. ( -39.40)
>DroYak_CAF1 125828 115 + 1
UAUUAUUUAGCGCGGUUCGUCCUGUGCACAGUGUGGACAUUAUG-----UGGCCAGGACCUCCUGCCAUAUGUUUACUCAGUAUUUGUGUGGGCGCUUCGGCUCGACGGGGGCGCUCUUU
.........((((((......))))))...(.((((((((...(-----((((.(((....)))))))))))))))).)...........(((((((((.(.....).)))))))))... ( -42.10)
>consensus
UAUUAUUUAGCGCGGUUCGUCCUGUGCACUGUGUGGACAUUAUG_____UGGCCAGGACCUCCUGCCAUAUGUUUACUCAGUAUUUGUGUGGGU_____GGCUCGACGG_GGCGCUCUUU
........(((((...(((((..(..(((((.((((((((.........((((.(((....))))))).)))))))).)))....))..)((((......)))))))))..))))).... (-34.90 = -34.90 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:41 2006