Locus 6974

Sequence ID 3R_DroMel_CAF1
Location 18,388,974 – 18,389,080
Length 106
Max. P 0.919810
window11308 window11309

overview

Window 8

Location 18,388,974 – 18,389,080
Length 106
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 82.55
Mean single sequence MFE -13.03
Consensus MFE -8.85
Energy contribution -9.48
Covariance contribution 0.62
Combinations/Pair 1.08
Mean z-score -1.52
Structure conservation index 0.68
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18388974 106 + 27905053
UUGCUAAUAACAAACAGAAACUAACAUUCUAUCAAAUGAGAAUAU--AUUCUACAUAUACGUAUGUGUACCCUAAUGAUACUUUCAUUUUCUCUCAAUUAAUAGCUUU
..((((.(((.....((((.......))))......(((((....--....(((((((....)))))))....(((((.....)))))...))))).))).))))... ( -15.80)
>DroSec_CAF1 8586 89 + 1
UUGCUAAUAACAAACAGAAACCAACAUUCUAUCAAAUGAGAAUAU--AUUC-----------------UUCCUAAUGAUACUUUCAUUUUCUCUCAAUUAAUAGCUUU
..((((.(((.....((((......(((((........)))))..--....-----------------.....(((((.....))))))))).....))).))))... (  -9.70)
>DroEre_CAF1 10594 108 + 1
UUGCAAAUAACAAACAGAAAUCGGCAUUCUAUCAAGUGAGAAUAUAUAUAUUUUAUAUACGUACAUGUACCCUAAUGAUACUUUCAUUUUCUCUCAAUUAAUAGCUUU
..((...........((((.......)))).....(.(((((((((((.....)))))).((((((........))).))).......))))).)........))... ( -12.20)
>DroYak_CAF1 9514 106 + 1
UUGCUUAUAGCAAACAGAAACUAGAAUUCUAUCAAGUGAGAAUAU--AUUCUUUAUAUACGUACACGUACCCUAAUGAUACUUUCAUUUUCUCUCAAUUAAUAGCUUC
((((.....))))...............((((.((.(((((....--..........((((....))))....(((((.....)))))...))))).)).)))).... ( -14.40)
>consensus
UUGCUAAUAACAAACAGAAACCAACAUUCUAUCAAAUGAGAAUAU__AUUCUUUAUAUACGUACAUGUACCCUAAUGAUACUUUCAUUUUCUCUCAAUUAAUAGCUUU
..((((.(((.....((((.......))))......(((((................((((....))))....(((((.....)))))...))))).))).))))... ( -8.85 =  -9.48 +   0.62)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,388,974 – 18,389,080
Length 106
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 82.55
Mean single sequence MFE -21.45
Consensus MFE -17.39
Energy contribution -18.20
Covariance contribution 0.81
Combinations/Pair 1.10
Mean z-score -2.02
Structure conservation index 0.81
SVM decision value 1.13
SVM RNA-class probability 0.919810
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18388974 106 - 27905053
AAAGCUAUUAAUUGAGAGAAAAUGAAAGUAUCAUUAGGGUACACAUACGUAUAUGUAGAAU--AUAUUCUCAUUUGAUAGAAUGUUAGUUUCUGUUUGUUAUUAGCAA
....(((((((.((((((.........(((((.....)))))(((((....))))).....--...)))))).)))))))..(((((((..(.....)..))))))). ( -24.40)
>DroSec_CAF1 8586 89 - 1
AAAGCUAUUAAUUGAGAGAAAAUGAAAGUAUCAUUAGGAA-----------------GAAU--AUAUUCUCAUUUGAUAGAAUGUUGGUUUCUGUUUGUUAUUAGCAA
...((((.((((.((.(((((..((...(((((...((((-----------------....--...))))....))))).....))..))))).)).)))).)))).. ( -17.40)
>DroEre_CAF1 10594 108 - 1
AAAGCUAUUAAUUGAGAGAAAAUGAAAGUAUCAUUAGGGUACAUGUACGUAUAUAAAAUAUAUAUAUUCUCACUUGAUAGAAUGCCGAUUUCUGUUUGUUAUUUGCAA
....(((((((.((((((.........(((((.....)))))......(((((((...))))))).)))))).)))))))..(((.(((..(.....)..))).))). ( -22.30)
>DroYak_CAF1 9514 106 - 1
GAAGCUAUUAAUUGAGAGAAAAUGAAAGUAUCAUUAGGGUACGUGUACGUAUAUAAAGAAU--AUAUUCUCACUUGAUAGAAUUCUAGUUUCUGUUUGCUAUAAGCAA
(((.(((((((.((((((..(((((.....)))))...(((((....))))).........--...)))))).)))))))..)))..........((((.....)))) ( -21.70)
>consensus
AAAGCUAUUAAUUGAGAGAAAAUGAAAGUAUCAUUAGGGUACAUGUACGUAUAUAAAGAAU__AUAUUCUCACUUGAUAGAAUGCUAGUUUCUGUUUGUUAUUAGCAA
....(((((((.((((((..(((((.....)))))...((((......))))..............)))))).)))))))..(((((((..(.....)..))))))). (-17.39 = -18.20 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:35 2006