Locus 470

Sequence ID 3L_DroMel_CAF1
Location 1,341,650 – 1,341,779
Length 129
Max. P 0.951431
window694 window695

overview

Window 4

Location 1,341,650 – 1,341,761
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.18
Mean single sequence MFE -27.46
Consensus MFE -24.40
Energy contribution -24.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.61
Structure conservation index 0.89
SVM decision value 1.41
SVM RNA-class probability 0.951431
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1341650 111 + 23771897
------CAC---AAGCACACAUGGGCUAUCAACUCAAUCGCAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUC
------.((---((((........))).....((((.(((((((((((..((.(......)))..)))))))))))..((((.(((((........)))))))))....))))...))). ( -26.30)
>DroSec_CAF1 13844 113 + 1
----CACAC---UAGCACACAUGGGCUAUCAACUCAAUCGCAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUC
----.....---((((........))))....((((.(((((((((((..((.(......)))..)))))))))))..((((.(((((........)))))))))....))))....... ( -27.20)
>DroSim_CAF1 13894 116 + 1
----CACACUACUAGCACACAUGGGCUAUCAACUCAAUCGCAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUC
----........((((........))))....((((.(((((((((((..((.(......)))..)))))))))))..((((.(((((........)))))))))....))))....... ( -27.20)
>DroEre_CAF1 14230 114 + 1
---ACAGAC---AAACACACAUGGGCUAUCAACUCAAUCGCAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUC
---...(((---(((......(((....))).((((.(((((((((((..((.(......)))..)))))))))))..((((.(((((........)))))))))....)))).)))))) ( -28.30)
>DroYak_CAF1 14934 117 + 1
CACACAGAC---AAACACACAUGGGCUAUCAACUCAAUCGCAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUC
......(((---(((......(((....))).((((.(((((((((((..((.(......)))..)))))))))))..((((.(((((........)))))))))....)))).)))))) ( -28.30)
>consensus
____CACAC___AAGCACACAUGGGCUAUCAACUCAAUCGCAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUC
................................((((.(((((((((((..((.(......)))..)))))))))))..((((.(((((........)))))))))....))))....... (-24.40 = -24.40 +   0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 1,341,681 – 1,341,779
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.09
Mean single sequence MFE -30.46
Consensus MFE -22.78
Energy contribution -24.78
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.75
SVM decision value -0.03
SVM RNA-class probability 0.517160
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1341681 98 + 23771897
CAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUCGCCGACUG----------------------CUCUGCCCUG
.....((....((((..((((((((.....(((....))).(((((.......)))))((((.......)))).......))))).))----------------------).)))))).. ( -23.80)
>DroSec_CAF1 13877 113 + 1
CAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUCGCCGACUGCGA--GCGACUCCACUGCUCUGCUCU-----G
.....(((.((((..((((((((((.....(((....))).(((((.......)))))((((.......)))).......))))).)))))--)))).))).............-----. ( -29.80)
>DroSim_CAF1 13930 118 + 1
CAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUCGCCGACUGCGA--GCGACUCCACUGCUCUGCUCUGCCCUG
.....(((.((((..((((((((((.....(((....))).(((((.......)))))((((.......)))).......))))).)))))--)))).)))...((........)).... ( -30.40)
>DroEre_CAF1 14264 104 + 1
CAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUCGCCGACUGCGACUGCGACUCCUCU----------------
.....(((.((((((((((((((((.....(((....))).(((((.......)))))((((.......)))).......))))).))))))))))).)))...---------------- ( -39.00)
>DroYak_CAF1 14971 112 + 1
CAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUCGCCGACUGCGA--GCGACUCCUCA-CUCUCCUCC-----G
.....(((.((((..((((((((((.....(((....))).(((((.......)))))((((.......)))).......))))).)))))--)))).)))...-.........-----. ( -29.30)
>consensus
CAAACGGAAUCGCAGUUGCAUCGGCUCUGUUUGUGAACAACUCGAAUUACCAUUUCGAUUCAGUUUUAAUGAGAUUUGUCGCCGACUGCGA__GCGACUCCACU_CUCU_CUCU_____G
.....(((.((((..((((((((((..((((....))))..(((((.......)))))((((.......)))).......))))).)))))..)))).)))................... (-22.78 = -24.78 +   2.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:45 2006