Locus 3618

Sequence ID 2L_DroMel_CAF1
Location 10,553,546 – 10,553,642
Length 96
Max. P 0.986683
window5710 window5711

overview

Window 0

Location 10,553,546 – 10,553,642
Length 96
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 75.99
Mean single sequence MFE -16.08
Consensus MFE -7.79
Energy contribution -9.32
Covariance contribution 1.53
Combinations/Pair 1.06
Mean z-score -2.72
Structure conservation index 0.48
SVM decision value 2.05
SVM RNA-class probability 0.986683
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10553546 96 + 22407834
GCGACAAACAAAGAAUUUCAGCACGCAAACAAAA------AAAAAAAAAAAACUUAAUGAAAAUCCAAUGUGGAAAUUAAAU-AAUGUUCUUUGUUUGCCAAU
..(.((((((((((((((((..............------.................))))).(((.....)))........-....))))))))))).)... ( -15.48)
>DroPse_CAF1 44047 92 + 1
G----------AAAAUUCCCACAGCCGAAUAAAAUGUUUAAAGCGAAAAAUCCCUAAUGAGAAUCCAAUGG-AAAAUUACAUCAAAAUUCUUUGUUUAAACAC
.----------...((((........))))....((((((((.((((...((......))((((...(((.-.......)))....)))))))))))))))). (  -7.60)
>DroSec_CAF1 41335 93 + 1
GCGACAAACAAAGAAUUUCAGCACGCAAACACAA------AAAAA---AAAACUUAAUGAAAAUCCAAUGUGGAAAUUAAAU-AAUGUUCUUUGUUUGCCAAU
..(.((((((((((((((((..............------.....---.........))))).(((.....)))........-....))))))))))).)... ( -15.59)
>DroSim_CAF1 40982 96 + 1
GCGACAAACAAAGAAUUUCAACACGCAAACAAAA------AAAAAAGAAAAACUUAAUGAAAAUCCAAUGUGGAAAUUAAAU-AAUGUUCUUUGUUUGCCAAU
..(.((((((((((((..................------....(((.....)))........(((.....)))........-...)))))))))))).)... ( -15.10)
>DroEre_CAF1 42003 85 + 1
GCGACAAACAAAGAAUUUCAGCACGCAACCA-----------------AAAACUUAAUGAAAAUCCAAUGUGGAAAUUAAAU-AAAGUUCUUUGUUUGCGAAU
.((.((((((((((((((..(....).....-----------------...............(((.....)))........-.))))))))))))))))... ( -18.10)
>DroYak_CAF1 43313 85 + 1
GCGGCAAACAAAGAAUGGCAACACGCAGCCA-----------------AAAACUUAAUGAAAAUCCAAUGUGGAAAUGAAAU-AAAGUUCUUUGUUUGCGAAU
...((((((((((((((((........))).-----------------...............(((.....)))........-...))))))))))))).... ( -24.60)
>consensus
GCGACAAACAAAGAAUUUCAACACGCAAACAAAA______AAAAA___AAAACUUAAUGAAAAUCCAAUGUGGAAAUUAAAU_AAAGUUCUUUGUUUGCCAAU
....((((((((((((....................................(.....)....(((.....)))............))))))))))))..... ( -7.79 =  -9.32 +   1.53)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,553,546 – 10,553,642
Length 96
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 75.99
Mean single sequence MFE -19.79
Consensus MFE -8.96
Energy contribution -10.96
Covariance contribution 2.00
Combinations/Pair 1.17
Mean z-score -2.63
Structure conservation index 0.45
SVM decision value 1.73
SVM RNA-class probability 0.974301
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10553546 96 - 22407834
AUUGGCAAACAAAGAACAUU-AUUUAAUUUCCACAUUGGAUUUUCAUUAAGUUUUUUUUUUUU------UUUUGUUUGCGUGCUGAAAUUCUUUGUUUGUCGC
...(((((((((((((....-(((((((.(((.....))).....)))))))..........(------(((.((......)).))))))))))))))))).. ( -20.20)
>DroPse_CAF1 44047 92 - 1
GUGUUUAAACAAAGAAUUUUGAUGUAAUUUU-CCAUUGGAUUCUCAUUAGGGAUUUUUCGCUUUAAACAUUUUAUUCGGCUGUGGGAAUUUU----------C
((((((((((.(((((((((((((......(-((...)))....))))).)))))))).).)))))))))...((((........))))...----------. ( -13.80)
>DroSec_CAF1 41335 93 - 1
AUUGGCAAACAAAGAACAUU-AUUUAAUUUCCACAUUGGAUUUUCAUUAAGUUUU---UUUUU------UUGUGUUUGCGUGCUGAAAUUCUUUGUUUGUCGC
...(((((((((((((....-(((((((.(((.....))).....)))))))...---..(((------(.(..(....)..).))))))))))))))))).. ( -20.30)
>DroSim_CAF1 40982 96 - 1
AUUGGCAAACAAAGAACAUU-AUUUAAUUUCCACAUUGGAUUUUCAUUAAGUUUUUCUUUUUU------UUUUGUUUGCGUGUUGAAAUUCUUUGUUUGUCGC
...(((((((((((((....-........(((.....))).(((((....((...........------........))....)))))))))))))))))).. ( -20.51)
>DroEre_CAF1 42003 85 - 1
AUUCGCAAACAAAGAACUUU-AUUUAAUUUCCACAUUGGAUUUUCAUUAAGUUUU-----------------UGGUUGCGUGCUGAAAUUCUUUGUUUGUCGC
...(((((((((((((....-(((((((.(((.....))).....)))))))(((-----------------..((.....))..)))))))))))))).)). ( -20.10)
>DroYak_CAF1 43313 85 - 1
AUUCGCAAACAAAGAACUUU-AUUUCAUUUCCACAUUGGAUUUUCAUUAAGUUUU-----------------UGGCUGCGUGUUGCCAUUCUUUGUUUGCCGC
....(((((((((((((((.-........(((.....)))........))))...-----------------((((........)))).)))))))))))... ( -23.83)
>consensus
AUUGGCAAACAAAGAACAUU_AUUUAAUUUCCACAUUGGAUUUUCAUUAAGUUUU___UUUUU______UUUUGUUUGCGUGCUGAAAUUCUUUGUUUGUCGC
....((((((((((((.............(((.....))).(((((.((.((.........................)).)).)))))))))))))))))... ( -8.96 = -10.96 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:00 2006