Locus 7124

Sequence ID 3L_DroMel_CAF1
Location 19,172,686 – 19,172,845
Length 159
Max. P 0.610102
window11560 window11561

overview

Window 0

Location 19,172,686 – 19,172,805
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.25
Mean single sequence MFE -40.13
Consensus MFE -27.64
Energy contribution -28.12
Covariance contribution 0.48
Combinations/Pair 1.07
Mean z-score -1.98
Structure conservation index 0.69
SVM decision value -0.00
SVM RNA-class probability 0.532446
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19172686 119 + 23771897
UCAUCGCUGACAUCACUAACGCUUCUGGGAGUUUUGGCUCAGAAGAGAAAAGG-GUUGAGGGGUGUAGAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCGCCUUGUUGUCAUGUUUCAG
.((((.((.(.(((.......((((((((........)))))))).......)-))).)).))))....((..((((((((((...(((((......)))))...))))))))))..)). ( -39.44)
>DroSec_CAF1 2633 118 + 1
UCAUCGCUGACAUCACUAACGCUUCUGGGAGUUUUGGCCCACAAGC-AAAAGG-GUUGGGGGGUGUAGAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCGUCUUGUUGUCAUGUUUCAG
.((((....(((((.(((((((((.((((........)))).))))-......-)))))..))))).))))..((((((((((...(((((......)))).)..))))))))))..... ( -39.00)
>DroSim_CAF1 5564 118 + 1
UCAUCGCUGACAUCACUAACGCUUCUGGGAGUUUUGGCCCACAAGC-AAAAGG-GUUGGGGGGUGUAUAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCGCCUUGUUGUCAUGUUUCAG
.....((..(((((.(((((((((.((((........)))).))))-......-)))))..)))))....)).((((((((((...(((((......)))))...))))))))))..... ( -40.70)
>DroEre_CAF1 5263 119 + 1
UCAUCGCUGACAUCACUAACGCUUCUGGGAGUUUUGGCCCCCAAGC-GAGUGGGGGAGGAGCGGGGAGAAGCCACAUGGCAACUCUGUGCAUAAUUUUGCGCCUUGUUGUCAUGUUUCAG
......((((..........((((((....(((((..((((((...-...)))))).)))))....)))))).((((((((((...(((((......)))))...)))))))))).)))) ( -46.80)
>DroYak_CAF1 7183 109 + 1
UCAUCGCUGACAUCACUAACGCUUCUGGGAGUUUUG-CCCCCAAGC-GAAUGGU---------GGGAGAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCUCCUUGUUGUCAUGUUUCAG
.....((.....((((((.((((..((((.(.....-).)))))))-)..))))---------)).....)).((((((((((...(.(((......))).)...))))))))))..... ( -34.70)
>consensus
UCAUCGCUGACAUCACUAACGCUUCUGGGAGUUUUGGCCCACAAGC_AAAAGG_GUUGGGGGGUGUAGAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCGCCUUGUUGUCAUGUUUCAG
......((((..........((((.((((........)))).))))...........................((((((((((...(((((......)))))...)))))))))).)))) (-27.64 = -28.12 +   0.48)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,172,726 – 19,172,845
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.91
Mean single sequence MFE -40.78
Consensus MFE -27.00
Energy contribution -26.72
Covariance contribution -0.28
Combinations/Pair 1.11
Mean z-score -2.25
Structure conservation index 0.66
SVM decision value 0.16
SVM RNA-class probability 0.610102
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19172726 119 + 23771897
AGAAGAGAAAAGG-GUUGAGGGGUGUAGAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCGCCUUGUUGUCAUGUUUCAGGACUCCUCUGCAGGAUCCUUGCGCUCAUUUGUGUGUGUGU
....(((..((((-((((((((((.(.((....((((((((((...(((((......)))))...)))))))))).)).).))))))).....)))))))...))).............. ( -43.40)
>DroSec_CAF1 2673 118 + 1
ACAAGC-AAAAGG-GUUGGGGGGUGUAGAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCGUCUUGUUGUCAUGUUUCAGGACUCCUCUGCAGGAUCCUUGUGCUCAUUUGUGUGUGUGU
(((.((-(((.((-((.(((((((.(.((....((((((((((...(((((......)))).)..)))))))))).)).).))))))).(((((...))))))))).))))).))).... ( -40.10)
>DroSim_CAF1 5604 118 + 1
ACAAGC-AAAAGG-GUUGGGGGGUGUAUAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCGCCUUGUUGUCAUGUUUCAGGACUCCUCUGCAGGAUCCUUGUGCUCAUUUGUGUGUGUGU
(((.((-(((.((-((..(((((.((...((..((((((((((...(((((......)))))...))))))))))..))..)).)))))(((((...))))))))).))))).))).... ( -42.70)
>DroEre_CAF1 5303 117 + 1
CCAAGC-GAGUGGGGGAGGAGCGGGGAGAAGCCACAUGGCAACUCUGUGCAUAAUUUUGCGCCUUGUUGUCAUGUUUCAGGACUCC--UGCAGGAUUCUUCUGCUCAUUUGUGUGUGUGU
.((.((-((((((((((((((((((.((...((((((((((((...(((((......)))))...))))))))))....)).))))--))).....)))))).))))))))).))..... ( -46.00)
>DroYak_CAF1 7222 110 + 1
CCAAGC-GAAUGGU---------GGGAGAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCUCCUUGUUGUCAUGUUUCAGGACUCCUCUGCAGGAUCCUUGUGCUCAUUUAUGUGUGUGU
.((.((-(...(((---------(((.((....((((((((((...(.(((......))).)...)))))))))).))((((.((((....))))))))....))))))....))).)). ( -31.70)
>consensus
ACAAGC_AAAAGG_GUUGGGGGGUGUAGAUGCCACAUGGCAACUCUGUGCAUAAUUUUGCGCCUUGUUGUCAUGUUUCAGGACUCCUCUGCAGGAUCCUUGUGCUCAUUUGUGUGUGUGU
.................................((((((((((...(((((......)))))...))))))))))...((((.(((......)))))))..(((.(((....))).))). (-27.00 = -26.72 +  -0.28)

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 12:38:32 2006