Locus 6264

Sequence ID 3L_DroMel_CAF1
Location 16,687,989 – 16,688,106
Length 117
Max. P 0.813027
window10050

overview

Window 0

Location 16,687,989 – 16,688,106
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.47
Mean single sequence MFE -45.88
Consensus MFE -31.85
Energy contribution -30.13
Covariance contribution -1.72
Combinations/Pair 1.47
Mean z-score -1.62
Structure conservation index 0.69
SVM decision value 0.65
SVM RNA-class probability 0.813027
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16687989 117 - 23771897
UU---GCCGAAACUGGACCCGCCGGCGUGGAAUUGCAACUGGAGGCGGUACCUGCUGGCGCCGGCGGCGGAGAGCUCUGAUUAAAAUCUGACUCAAAUCCAUCGUCAAAAUUGAACUUGG
((---((((...((((...((((((((.((.(((((........))))).)))))))))))))))))))).(((.((.(((....))).)))))....(((...(((....)))...))) ( -40.20)
>DroVir_CAF1 7669 120 - 1
UGCUGGCCGAGAUGAGUCCAGCGGGCGUGGAAUUGCAGCUGGACGCGGUGCCAGCGGGCGCUGGCGGUGGCGAGCUCUGAUUGAAGUCCGAUUCGAAGCCAUCGUCGAAAUUGAAUUUGG
.((((((.....((.(((((((..(((......))).))))))).))..))))))......((((((((((....((.(((((.....))))).)).))))))))))............. ( -49.10)
>DroGri_CAF1 9597 120 - 1
UGCUGGCCGAGAUCAGGCCAGCUGGUGUCGAAUUGCAACUGGAGGCGGUGCCAGCUGGUGCUGGCGGCGGCGAGCUUUGAUUAAAGUCCGACUCAAAGCCGUCGUCGAAAUUGAAUUUAC
.((..((.(....)..(((((((((..(((..((.......))..)))..)))))))))))..))(((((((.(((((((............)))))))))))))).............. ( -52.20)
>DroWil_CAF1 29034 120 - 1
UGCUGACUGAGACUAGACCGGCUGGUGUGGAAUUACAACUGGAUGCGGUGCCAGCCGGUGCUGGUGGUGGUGAACUUUGAUUGAAAUCUGAUUCAAAACCAUCAUCGAAAUUGAAUUUUC
....((.(((.((((((((((((((..(.(.(((.......))).).)..))))))))).)))))(((..((((.((.(((....))).))))))..))).)))))((((......)))) ( -39.10)
>DroMoj_CAF1 7711 120 - 1
UGCUGGUCGAAAUGUGUCCAGCUGGCGUGGAGUUGCAGCUGGAUGCAGUGCCUGCUGGCGCUGGAGGUGGCGAGCUCUGAUUGAAAUCCGACUCAAAGCCAUCAUCGAAAUUGAAUUUUG
......((((...(((((((((((.((......)))))))))))))((((((....))))))...(((((((((.((.(((....))).)))))...)))))).))))............ ( -45.90)
>DroAna_CAF1 7153 117 - 1
UG---CCGGAGACUUGGCCAGCCGGCGUGGAGGUGCAGCUGGAUGCAGUGCCUGCCGGAGCUGGCGGCGGGGAGCUCUGAUUGAAGUCGGACUCGAAACCGUCGUCGAAAUUGAACUUGG
..---(((....)(((((..((((((.((((((..(.((.....)).)..))).)))..))))))(((((.(((.((((((....)))))))))....))))))))))..........)) ( -48.80)
>consensus
UGCUGGCCGAGACUAGACCAGCUGGCGUGGAAUUGCAACUGGAUGCGGUGCCAGCUGGCGCUGGCGGCGGCGAGCUCUGAUUGAAAUCCGACUCAAAGCCAUCGUCGAAAUUGAAUUUGG
.................((((...(((......)))..))))....((((((....))))))((((((((((((.((.(((....))).)))))...))))))))).............. (-31.85 = -30.13 +  -1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:12 2006