Locus 5174

Sequence ID 3L_DroMel_CAF1
Location 14,243,121 – 14,243,239
Length 118
Max. P 0.794274
window8192

overview

Window 2

Location 14,243,121 – 14,243,239
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.33
Mean single sequence MFE -38.17
Consensus MFE -30.69
Energy contribution -30.62
Covariance contribution -0.08
Combinations/Pair 1.22
Mean z-score -2.16
Structure conservation index 0.80
SVM decision value 0.60
SVM RNA-class probability 0.794274
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14243121 118 + 23771897
ACAGUCCUUUUUCUUGGCCUUUUCUUGCCCCGAAUCCAUUAUGCAAAGGCUG--CGGUGCGGGGUAGGAAAAUCUGUUUUCCAUCUGAAAGGAAACUGAGUGGAAAGCCAGCAGUCAUAA
..............((((.(((((((((((((...((.....((....))..--.))..))))))))))))).((((((((((.((...((....)).))))))))).)))..))))... ( -39.00)
>DroSec_CAF1 73761 118 + 1
ACAGUCCUUUUUCUUGGCCUUUUCCUGCCCCGAAUCCAUUAUGCAAAGGCUG--UGGUGCGGGGUGGGAAAAUCUGUUUUCCUUCUGAAAGGAAACUGAGUGGAAAGCCAGCAGUCAUAA
..............((((.((((((..(((((...((((...((....)).)--)))..)))))..)))))).(((((((((..((...((....)).)).)))))).)))..))))... ( -42.90)
>DroSim_CAF1 73843 118 + 1
ACAGUCCUUUUUCUUGGCCUUUUCUUGCCCCGAAUCCAUUAUGCAAAGGCUG--UGGUGCGGGGUAGGAAAAUCUGUUUUCCUUCUGAAAGGAAACUGAGUGGAAAGCCAGCAGUCAUAA
..............((((.(((((((((((((...((((...((....)).)--)))..))))))))))))).(((((((((..((...((....)).)).)))))).)))..))))... ( -41.40)
>DroEre_CAF1 72817 118 + 1
ACAGCCCUUUUUCUUGGCCUUUUCUUGCCCCGAAUCCAUUAUGCAAAGGCUU--CGGUGCGUGGAAGGAAAAUCUGUUUUCCUUCUGAAAGGAAACUGAGUGGAAAGCCAGCAGUCAUAA
...(((.........)))((((((..((.(((((.((..........)).))--))).))..((((((((((....))))))))))))))))..((((..(((....))).))))..... ( -34.90)
>DroYak_CAF1 76241 119 + 1
ACAGCCCUU-UUCUUGGCCUUUUCUUGCCCCGAAUCUAUUAUGCUGAGGCUGCGCGGUGCGGGGCAGGAAAAUCUGUUUUCCUUCUGAAAGGAAACUGAGUGGAAAGCCAGCAGUCAUAA
...(((...-.....))).(((((((((((((....(((..(((.......)))..)))))))))))))))).(((((((((..((...((....)).)).)))))).)))......... ( -39.50)
>DroAna_CAF1 71317 94 + 1
----UCCUUGGCCUUGGCCUUUUCUUGCCCGGAAA----------------------AGCGGGCCAGGAAAAUCUGUUCUCGGCUGGCGAUGAAACCGAGUGGAAAGCCAGCAGUCAUAA
----.....(((....)))((((((((((((....----------------------..)))).))))))))..........((((((.......((....))...))))))........ ( -31.30)
>consensus
ACAGUCCUUUUUCUUGGCCUUUUCUUGCCCCGAAUCCAUUAUGCAAAGGCUG__CGGUGCGGGGUAGGAAAAUCUGUUUUCCUUCUGAAAGGAAACUGAGUGGAAAGCCAGCAGUCAUAA
.............(((((.(((((((((((((...((.....((....)).....))..)))))))))))))((..((((((((....)))))....)))..))..)))))......... (-30.69 = -30.62 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:46 2006