Locus 5746

Sequence ID 3L_DroMel_CAF1
Location 15,619,955 – 15,620,115
Length 160
Max. P 0.824415
window9111 window9112

overview

Window 1

Location 15,619,955 – 15,620,075
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.08
Mean single sequence MFE -48.12
Consensus MFE -31.44
Energy contribution -32.60
Covariance contribution 1.16
Combinations/Pair 1.21
Mean z-score -2.16
Structure conservation index 0.65
SVM decision value 0.69
SVM RNA-class probability 0.824415
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15619955 120 + 23771897
CGGGAUUCCAGCCUUGUGGGCAUUGUGGAUCGAAUCCGCAUUCUGCAUUGUUGGGAAUGACAGGUCCUGGUCUGCAAGGUCCGGGAAAUGUGGGAGGCCAAGGACCGCCGGGAUUCCAAC
.((((((((.((..((..((...(((((((...))))))).))..))((.((((...(.(((..((((((.((....)).))))))..))).)....)))).))..)).))))))))... ( -47.20)
>DroSec_CAF1 42855 120 + 1
CGGGAUUCCAGCCUUGUGGGCAUUGUGGAUCGAAUCCGCAUUCUGCAUUGUUGGGAAUGACAGGUCCUGGUCCGGAAGGUCCGGGAAAUGGGGAAAAACAAGGACCGCCAGGAUUCCAAC
.(((((((((((..((..((...(((((((...))))))).))..))..))))((.....((..((((((.((....)).))))))..))((............)).)).)))))))... ( -47.50)
>DroSim_CAF1 43209 120 + 1
CGGGAUUCCAGCCUUGUGGGCAUUGUGGAUCGAAUCCGCAUUCUGCAUUGUUGGGAAUAACAGGUCCUGGUCCGGAAGGUCCGGGAAAUGGGGGAAAACACGGACCGCCAGGAUUCCAAC
.(((((((((((..((..((...(((((((...))))))).))..))..)))))..........((((((.((....)).))))))..(((.((..........)).))).))))))... ( -47.80)
>DroEre_CAF1 43374 120 + 1
CCGCACCGCAGCCUGGCGGGCAAUUUGGAUCAAAUCUGUUGUUUGGAUUGUUGGGAAUGACAGGUCCGGGGCCGAAAGGUCCGGGGUAUGUGGGUAUCCUAGGACCGUCAGGAUUCCAAC
..((.((((......))))))((((..((.(((.....)))))..))))(((((((.((((.(((((.(((((....)))))(((((((....))))))).)))))))))...))))))) ( -54.30)
>DroYak_CAF1 46095 120 + 1
CGGCACUCCAGCCUUGCGGGCAGUCUGGAUCAAAUCCGUUUUCUCCGUUGUUCGGAAUGAUAGGUCCGAGACCGAAAGGUCCGGGAUUUGUGGGUAUCCAAGGACCGUCGAGAUUCCAAC
((((..(((.(((.....)))....(((((...((((......((((.....))))...((((((((..((((....))))..))))))))))))))))).)))..)))).......... ( -43.80)
>consensus
CGGGAUUCCAGCCUUGUGGGCAUUGUGGAUCGAAUCCGCAUUCUGCAUUGUUGGGAAUGACAGGUCCUGGUCCGAAAGGUCCGGGAAAUGUGGGAAACCAAGGACCGCCAGGAUUCCAAC
........((((..((((((...(((((((...))))))).))))))..))))(((((..((..((((((.((....)).))))))..)).((...........))......)))))... (-31.44 = -32.60 +   1.16)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,619,995 – 15,620,115
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.67
Mean single sequence MFE -47.92
Consensus MFE -35.94
Energy contribution -35.82
Covariance contribution -0.12
Combinations/Pair 1.25
Mean z-score -1.80
Structure conservation index 0.75
SVM decision value 0.42
SVM RNA-class probability 0.727816
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15619995 120 + 23771897
UUCUGCAUUGUUGGGAAUGACAGGUCCUGGUCUGCAAGGUCCGGGAAAUGUGGGAGGCCAAGGACCGCCGGGAUUCCAACCUGGUGGAUUCCACGAGACACACCCGCAGGGCGUUCGAGA
.(((((....((((...(.(((..((((((.((....)).))))))..))).)....))))(((((((((((.......))))))))..))).............))))).......... ( -43.20)
>DroSec_CAF1 42895 120 + 1
UUCUGCAUUGUUGGGAAUGACAGGUCCUGGUCCGGAAGGUCCGGGAAAUGGGGAAAAACAAGGACCGCCAGGAUUCCAACCUGGUGGAUUCCACGAGACACAGCCGCAGGGCGUUCGAGA
((((.(((((((......)))...((((((.((....)).)))))))))).))))......(((((((((((.......))))))))..))).((((.....(((....))).))))... ( -48.50)
>DroSim_CAF1 43249 120 + 1
UUCUGCAUUGUUGGGAAUAACAGGUCCUGGUCCGGAAGGUCCGGGAAAUGGGGGAAAACACGGACCGCCAGGAUUCCAACCUGGUGGAUUCCACGAGACACAGCCGCAGGGCGUUCGAGA
((((.((((((((....))))...((((((.((....)).)))))))))).))))......(((((((((((.......))))))))..))).((((.....(((....))).))))... ( -48.70)
>DroEre_CAF1 43414 120 + 1
GUUUGGAUUGUUGGGAAUGACAGGUCCGGGGCCGAAAGGUCCGGGGUAUGUGGGUAUCCUAGGACCGUCAGGAUUCCAACCUGGUGGGUUCCACGCGGCACAUCCGCAGGGCCUUCGAGG
.........(((((((.((((.(((((.(((((....)))))(((((((....))))))).)))))))))...)))))))((.(.((((((...((((.....)))).)))))).).)). ( -55.80)
>DroYak_CAF1 46135 120 + 1
UUCUCCGUUGUUCGGAAUGAUAGGUCCGAGACCGAAAGGUCCGGGAUUUGUGGGUAUCCAAGGACCGUCGAGAUUCCAACCUGGUGGAUUCCACGAUGCACAUCCGCAGGGCUUUCGAGG
...((((.....))))......((((((.((((....))))).((((........))))..))))).((((((..((......((((...))))..(((......)))))..)))))).. ( -43.40)
>consensus
UUCUGCAUUGUUGGGAAUGACAGGUCCUGGUCCGAAAGGUCCGGGAAAUGUGGGAAACCAAGGACCGCCAGGAUUCCAACCUGGUGGAUUCCACGAGACACAGCCGCAGGGCGUUCGAGA
.(((((..((((.(((((..((..((((((.((....)).))))))..))..............((((((((.......)))))))))))))....)))).....))))).......... (-35.94 = -35.82 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:36 2006