Locus 5322

Sequence ID 3L_DroMel_CAF1
Location 14,688,481 – 14,688,635
Length 154
Max. P 0.941711
window8414 window8415

overview

Window 4

Location 14,688,481 – 14,688,595
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.73
Mean single sequence MFE -33.54
Consensus MFE -26.98
Energy contribution -26.66
Covariance contribution -0.32
Combinations/Pair 1.14
Mean z-score -1.45
Structure conservation index 0.80
SVM decision value 0.16
SVM RNA-class probability 0.613573
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14688481 114 + 23771897
AGUUCGGUAGUCGCAGAAGCAGAA------CAACAGGAACAGCUAGGGGAAAAAUGCUGGAGCUGAGUGGUUGGGAAAUGGGAGAAAAUCUCCAGCUUCGGUUCGAGCAUCAACAUUUUU
.((((((.....((.(((((....------((((.....(((((..((........))..)))))....)))).......((((.....)))).))))).))))))))............ ( -32.20)
>DroSec_CAF1 37255 113 + 1
AGUUCGGUAGUCCCAGAAGCAGAA------CAACAGGAACAGCUAGGGGAA-AAUGCUGGAGCUGAGUGCCUGGGAAAUGGGGGAAAAUCUCCAGAUUCGGUUCGAGCAUCAACAUUUUU
.(((.(((..((((...(((....------...........)))..)))).-...(((.(((((((((.((((.....))))(((.....)))..))))))))).)))))))))...... ( -31.56)
>DroSim_CAF1 38405 113 + 1
AGUUCGGUAGUCCCAGAAGCAGAA------CAACAGGAACAGCUAGGGGAA-AAUGCUGGAGCUGAGUGCCUGGGAAAUGGGGGAAAAUCUCCAGCUUCGGUUCGAGCAUCAACAUUUUU
.((((((....((..(((((....------...((((..(((((..((...-....))..)))))....)))).....(((((......)))))))))))).))))))............ ( -34.30)
>DroEre_CAF1 37207 117 + 1
AGUUCGGCAGUCCCAGAAGCAGAACAGGAACAACAGGAACAGCUAGGGGAA-AAUGCUGGAGCCGAGUGCCUGGGAAAUGG--GAAAAUCUCCAGCUUCGGUUCGAACAUCAACAUUUUU
.((((((((.((((...(((.....................)))..)))).-..)))).((((((((.((...(((.((..--....)).))).))))))))))))))............ ( -34.90)
>DroYak_CAF1 38088 111 + 1
AGUUCGCUAGUCCCAGAAGCAGAA------CAACAGGAACAGCUAUGGGAA-AGUGCUGGAGCCGAGUGCCUGGGAAAUGG--GAAAAUCUCCAGCUUCGGUUCGAGCAUCAACAUUUUU
.(((......(((((..(((....------...........))).))))).-.(((((.((((((((.((...(((.((..--....)).))).)))))))))).))))).)))...... ( -34.76)
>consensus
AGUUCGGUAGUCCCAGAAGCAGAA______CAACAGGAACAGCUAGGGGAA_AAUGCUGGAGCUGAGUGCCUGGGAAAUGGG_GAAAAUCUCCAGCUUCGGUUCGAGCAUCAACAUUUUU
.((((((((.((((...(((.....................)))..))))....)))).((((((((...((((((............)).)))).))))))))))))............ (-26.98 = -26.66 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,688,515 – 14,688,635
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.97
Mean single sequence MFE -33.78
Consensus MFE -32.34
Energy contribution -32.18
Covariance contribution -0.16
Combinations/Pair 1.08
Mean z-score -1.39
Structure conservation index 0.96
SVM decision value 1.32
SVM RNA-class probability 0.941711
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14688515 120 + 23771897
AGCUAGGGGAAAAAUGCUGGAGCUGAGUGGUUGGGAAAUGGGAGAAAAUCUCCAGCUUCGGUUCGAGCAUCAACAUUUUUGGCAGCAAAUAAAAUUUGCUUGUGUUUUCGAGAGAUUUUC
.((((((((....(((((.(((((((..((((((((............)).))))))))))))).))))).....))))))))(((((((...))))))).......((....))..... ( -35.10)
>DroSec_CAF1 37289 119 + 1
AGCUAGGGGAA-AAUGCUGGAGCUGAGUGCCUGGGAAAUGGGGGAAAAUCUCCAGAUUCGGUUCGAGCAUCAACAUUUUUGGCAGCAAAUAAAAUUUGCUUGUGUUUUCGAGAGAUUUUC
.((((((((..-.(((((.(((((((((.((((.....))))(((.....)))..))))))))).))))).....))))))))(((((((...))))))).......((....))..... ( -34.60)
>DroSim_CAF1 38439 119 + 1
AGCUAGGGGAA-AAUGCUGGAGCUGAGUGCCUGGGAAAUGGGGGAAAAUCUCCAGCUUCGGUUCGAGCAUCAACAUUUUUGGCAGCAAAUAAAAUUUGCUUGUGUUUUCGAGAGAUUUUC
.((((((((..-.(((((.((((((((.((........(((((......))))))))))))))).))))).....))))))))(((((((...))))))).......((....))..... ( -34.30)
>DroEre_CAF1 37247 117 + 1
AGCUAGGGGAA-AAUGCUGGAGCCGAGUGCCUGGGAAAUGG--GAAAAUCUCCAGCUUCGGUUCGAACAUCAACAUUUUUGGCAGCAAAUAAAAUUUGCUUGUGUUUUCGAGAGAUUUUC
.((((((((..-.(((.(.((((((((.((...(((.((..--....)).))).)))))))))).).))).....))))))))(((((((...))))))).......((....))..... ( -29.80)
>DroYak_CAF1 38122 117 + 1
AGCUAUGGGAA-AGUGCUGGAGCCGAGUGCCUGGGAAAUGG--GAAAAUCUCCAGCUUCGGUUCGAGCAUCAACAUUUUUGGCAGCAAAUAAAAUUUGCUUGUGUUUUCGAGAGAUUUUC
.(((.(.((((-((((((.((((((((.((...(((.((..--....)).))).)))))))))).))))).....))))).).)))....(((((((.((((......))))))))))). ( -35.10)
>consensus
AGCUAGGGGAA_AAUGCUGGAGCUGAGUGCCUGGGAAAUGGG_GAAAAUCUCCAGCUUCGGUUCGAGCAUCAACAUUUUUGGCAGCAAAUAAAAUUUGCUUGUGUUUUCGAGAGAUUUUC
.((((((((....(((((.((((((((...((((((............)).)))).)))))))).))))).....))))))))(((((((...))))))).......((....))..... (-32.34 = -32.18 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:18 2006