Locus 4435

Sequence ID 2R_DroMel_CAF1
Location 14,576,418 – 14,576,525
Length 107
Max. P 0.690247
window7088 window7089

overview

Window 8

Location 14,576,418 – 14,576,525
Length 107
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 83.28
Mean single sequence MFE -33.62
Consensus MFE -22.84
Energy contribution -24.28
Covariance contribution 1.45
Combinations/Pair 1.12
Mean z-score -2.34
Structure conservation index 0.68
SVM decision value 0.33
SVM RNA-class probability 0.690247
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14576418 107 + 20766785
AGUGUGUGCCAUAGUAUGUGCAAGUGUACUGGCUGCACAUACAUAGACAUUAAAUGGGGCACAUAAUGUGCCGG--GAGUCAGGAAUCGAGAAUCAGAAUUCAGGCUUC
.((((((((..(((((..(....)..)))))...))))))))...............(((((.....))))).(--(((((.(((.((........)).))).)))))) ( -35.10)
>DroSec_CAF1 208780 107 + 1
AGUGUGUGCCAUAGUAUGUGCGAGUGUACUGGCUGCACAUACAUAGACAUUAAAUGGGGCACAUAAUGUGCUGG--UAGUCAGGAAUCGAGAAUCAGGAUUCAGGCUUC
..((((((((...((((((((.(((......))))))))))).....(((...))).))))))))....(((.(--.((((..((........))..))))).)))... ( -32.40)
>DroSim_CAF1 210247 107 + 1
AGUGUGUGCCAUAGUAUGUGCGAGUGUACUGGCUGCACAUACAUAGACAUUAAAUGGGGCACAUAAUGUGCUGG--GAGUCAGGAAUCGAGAAUCAGGAUUCAGGCUUC
..((((((((...((((((((.(((......))))))))))).....(((...))).))))))))....(((..--(((((..((........))..))))).)))... ( -36.10)
>DroEre_CAF1 215551 105 + 1
AGUGUGUGCCAUAGUAUGUGCUAGUGUACUGGGUGCACAUACAUAGACAUUAAAUGGGGCACAUAAUGUGCCGG--GAGUCAGGAAUCGAGAAUCAGGAAUCAGGAC--
.(((((..((.(((((..(....)..)))))))..))))).................(((((.....)))))..--..(((..((.((.........)).))..)))-- ( -31.40)
>DroYak_CAF1 222713 109 + 1
AGUGUGUGCCAUAGUAUGUGCUAGUGUACUGGGUGCACAUACAUAGACAUUAAAUGGGGCACAUAAUGUGCCGGAGAAAUCAGGAAUCGAGAAUCAGGAAUCAGUACUA
.(((((..((.(((((..(....)..)))))))..)))))...(((((.........(((((.....))))).((....))......................)).))) ( -30.50)
>DroAna_CAF1 247302 95 + 1
AGUGGGUGUUGUACUGUGUGUG------------GCACAUACACUGGCAUUAAAUGGGGCACAUAAUGUGCUGC--GAGUCAGGAGUCACUACCCAGUACCCGGCACCC
...(((((((((((((.(((((------------((.......(((((......((.(((((.....))))).)--).)))))..))))).)).))))))..))))))) ( -36.20)
>consensus
AGUGUGUGCCAUAGUAUGUGCGAGUGUACUGGCUGCACAUACAUAGACAUUAAAUGGGGCACAUAAUGUGCCGG__GAGUCAGGAAUCGAGAAUCAGGAUUCAGGACUC
.((((((((..(((((..(....)..)))))...))))))))...............(((((.....)))))...........(((((.........)))))....... (-22.84 = -24.28 +   1.45)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,576,418 – 14,576,525
Length 107
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 83.28
Mean single sequence MFE -26.12
Consensus MFE -17.03
Energy contribution -17.95
Covariance contribution 0.92
Combinations/Pair 1.14
Mean z-score -2.10
Structure conservation index 0.65
SVM decision value 0.08
SVM RNA-class probability 0.573814
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14576418 107 - 20766785
GAAGCCUGAAUUCUGAUUCUCGAUUCCUGACUC--CCGGCACAUUAUGUGCCCCAUUUAAUGUCUAUGUAUGUGCAGCCAGUACACUUGCACAUACUAUGGCACACACU
(((....((((....))))....))).......--..(((((.....)))))........((((...((((((((((.........))))))))))...))))...... ( -27.20)
>DroSec_CAF1 208780 107 - 1
GAAGCCUGAAUCCUGAUUCUCGAUUCCUGACUA--CCAGCACAUUAUGUGCCCCAUUUAAUGUCUAUGUAUGUGCAGCCAGUACACUCGCACAUACUAUGGCACACACU
(((....((((....))))....))).......--...((((.....)))).........((((...((((((((((........)).))))))))...))))...... ( -23.90)
>DroSim_CAF1 210247 107 - 1
GAAGCCUGAAUCCUGAUUCUCGAUUCCUGACUC--CCAGCACAUUAUGUGCCCCAUUUAAUGUCUAUGUAUGUGCAGCCAGUACACUCGCACAUACUAUGGCACACACU
(((....((((....))))....))).......--...((((.....)))).........((((...((((((((((........)).))))))))...))))...... ( -23.90)
>DroEre_CAF1 215551 105 - 1
--GUCCUGAUUCCUGAUUCUCGAUUCCUGACUC--CCGGCACAUUAUGUGCCCCAUUUAAUGUCUAUGUAUGUGCACCCAGUACACUAGCACAUACUAUGGCACACACU
--(((..((.((.........)).))..)))..--..(((((.....)))))........((((...((((((((.............))))))))...))))...... ( -25.72)
>DroYak_CAF1 222713 109 - 1
UAGUACUGAUUCCUGAUUCUCGAUUCCUGAUUUCUCCGGCACAUUAUGUGCCCCAUUUAAUGUCUAUGUAUGUGCACCCAGUACACUAGCACAUACUAUGGCACACACU
.....................................(((((.....)))))........((((...((((((((.............))))))))...))))...... ( -23.22)
>DroAna_CAF1 247302 95 - 1
GGGUGCCGGGUACUGGGUAGUGACUCCUGACUC--GCAGCACAUUAUGUGCCCCAUUUAAUGCCAGUGUAUGUGC------------CACACACAGUACAACACCCACU
(((((....((((((((((((((........))--)).((((.....)))).........)))).((((......------------.)))).))))))..)))))... ( -32.80)
>consensus
GAAGCCUGAAUCCUGAUUCUCGAUUCCUGACUC__CCAGCACAUUAUGUGCCCCAUUUAAUGUCUAUGUAUGUGCAGCCAGUACACUCGCACAUACUAUGGCACACACU
.......(((((.........)))))............((((.....)))).........((((...((((((((.............))))))))...))))...... (-17.03 = -17.95 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:34 2006