Locus 6483

Sequence ID 3L_DroMel_CAF1
Location 17,253,138 – 17,253,258
Length 120
Max. P 0.924195
window10454 window10455

overview

Window 4

Location 17,253,138 – 17,253,258
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.08
Mean single sequence MFE -35.82
Consensus MFE -33.02
Energy contribution -33.02
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.45
Structure conservation index 0.92
SVM decision value 1.16
SVM RNA-class probability 0.924195
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17253138 120 + 23771897
UCUGGAGACGCUUUAAGUUGCUUAAGAAGAAUCUUAUGCAGAGGGAUUUUGGUGGUUUCCGCAUGCAUUGAAUUGCAGAUUCUCGGGACUGUUUUAAAUGCAGCCCACGCAAACAGAAUC
((((((((((((..((.((((.(((((....))))).)))).....))..))).))))))((.((((......)))).......(((.((((.......)))))))..))....)))... ( -33.90)
>DroSec_CAF1 136942 120 + 1
UCUGGAGACGCUUUAAGUUGCUUAAGAGGCAUCUUAUGCAGAGGGAUUUCGGUGGUUUCCGCUUGCAUUGAAUUGCAGAUUCUCGGGACUGUUUUAAAUGCAGCCCACGCAAACAGAAUC
((((((((.(((((...........))))).)))).(((...((((..(((((((...)))))((((......)))))).))))(((.((((.......)))))))..)))..))))... ( -36.20)
>DroSim_CAF1 131784 117 + 1
UCUGGAGACGCUUUAAGUUGCUUAAGAGG-AUCUUAUGCAGAGGGAUUUCGGUGGUUUCCGCAUGCAUUGAAUUGCAGAUUCUCGGGACUGUUUUAAAUGCAGCCCACGCAAC--AAAUC
...(....).......(((((....((((-((((.((((.(.(..(((.....)))..))))))(((......)))))))))))(((.((((.......)))))))..)))))--..... ( -37.40)
>DroEre_CAF1 140097 120 + 1
UGUGGAGACGCUUUAAGUUGCUUAAGAGGAAUCUUAUGCAGAGGGAUUUCGGUGGUUUCCGCAUGCAUUGAAUUGCAGAUUCUUGGGACUGUUUUAAAUGCAGCCCACGCAAACAGAAUC
((((((((((((..((.((((.(((((....))))).)))).....))..))).)))))))))((((......))))((((((((((.((((.......)))))))).......)))))) ( -38.41)
>DroYak_CAF1 143893 120 + 1
UCGGGAGACGCUUUAAGUUGCUUAAGAGGAAUCUUAUGCAGAGGGAUUUCGGUGGUUUCCGCAUGCAUUGAAUUGCAGAUUCUCGGGACUGUUUUAAAUGCAGCCCACGCAAACAGAAUC
...(((((((((..((.((((.(((((....))))).)))).....))..))).))))))((.((((......)))).......(((.((((.......)))))))..)).......... ( -33.20)
>consensus
UCUGGAGACGCUUUAAGUUGCUUAAGAGGAAUCUUAUGCAGAGGGAUUUCGGUGGUUUCCGCAUGCAUUGAAUUGCAGAUUCUCGGGACUGUUUUAAAUGCAGCCCACGCAAACAGAAUC
...(((((((((..((.((((.(((((....))))).)))).....))..))).))))))((.((((......)))).......(((.((((.......)))))))..)).......... (-33.02 = -33.02 +  -0.00)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 17,253,138 – 17,253,258
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.08
Mean single sequence MFE -29.99
Consensus MFE -24.80
Energy contribution -25.24
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.67
Structure conservation index 0.83
SVM decision value 0.53
SVM RNA-class probability 0.771214
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17253138 120 - 23771897
GAUUCUGUUUGCGUGGGCUGCAUUUAAAACAGUCCCGAGAAUCUGCAAUUCAAUGCAUGCGGAAACCACCAAAAUCCCUCUGCAUAAGAUUCUUCUUAAGCAACUUAAAGCGUCUCCAGA
...((((...((((((((((.........)))))).(((((((((((......)))(((((((...............))))))).))))))))...............))))...)))) ( -30.66)
>DroSec_CAF1 136942 120 - 1
GAUUCUGUUUGCGUGGGCUGCAUUUAAAACAGUCCCGAGAAUCUGCAAUUCAAUGCAAGCGGAAACCACCGAAAUCCCUCUGCAUAAGAUGCCUCUUAAGCAACUUAAAGCGUCUCCAGA
..((((((((((((((((((.........))))))...((((.....)))).))))))))))))..............((((....((((((...(((((...))))).)))))).)))) ( -32.50)
>DroSim_CAF1 131784 117 - 1
GAUUU--GUUGCGUGGGCUGCAUUUAAAACAGUCCCGAGAAUCUGCAAUUCAAUGCAUGCGGAAACCACCGAAAUCCCUCUGCAUAAGAU-CCUCUUAAGCAACUUAAAGCGUCUCCAGA
.....--((((((.((((((.........)))))))(((.(((((((......)))(((((((...............))))))).))))-.)))....)))))................ ( -29.86)
>DroEre_CAF1 140097 120 - 1
GAUUCUGUUUGCGUGGGCUGCAUUUAAAACAGUCCCAAGAAUCUGCAAUUCAAUGCAUGCGGAAACCACCGAAAUCCCUCUGCAUAAGAUUCCUCUUAAGCAACUUAAAGCGUCUCCACA
(((.((..(((((.((((((.........)))))))..(((((((((......)))(((((((...............))))))).)))))).......)))).....)).)))...... ( -27.86)
>DroYak_CAF1 143893 120 - 1
GAUUCUGUUUGCGUGGGCUGCAUUUAAAACAGUCCCGAGAAUCUGCAAUUCAAUGCAUGCGGAAACCACCGAAAUCCCUCUGCAUAAGAUUCCUCUUAAGCAACUUAAAGCGUCUCCCGA
(((.((..(((((.((((((.........)))))))(((((((((((......)))(((((((...............))))))).))))).)))....)))).....)).)))...... ( -29.06)
>consensus
GAUUCUGUUUGCGUGGGCUGCAUUUAAAACAGUCCCGAGAAUCUGCAAUUCAAUGCAUGCGGAAACCACCGAAAUCCCUCUGCAUAAGAUUCCUCUUAAGCAACUUAAAGCGUCUCCAGA
..((((((.(((((((((((.........))))))...((((.....)))).))))).))))))................(((.(((((....))))).))).................. (-24.80 = -25.24 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:46 2006