Locus 5916

Sequence ID 2R_DroMel_CAF1
Location 18,661,639 – 18,661,756
Length 117
Max. P 0.689558
window9495

overview

Window 5

Location 18,661,639 – 18,661,756
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.61
Mean single sequence MFE -37.68
Consensus MFE -23.30
Energy contribution -24.67
Covariance contribution 1.37
Combinations/Pair 1.24
Mean z-score -1.58
Structure conservation index 0.62
SVM decision value 0.33
SVM RNA-class probability 0.689558
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18661639 117 - 20766785
UCGGCUUUGGCCAGAGUUAUGUGAUAAAGGCUCUGCCGAGGCCUCCGGCAAAUCGAUUUCGGUCUGGCGAAAUCUUAAGGCCGAGAAUUCAGGAAGAGACAGCCAGCCUUUGCCU---UU
..(((((((((.(((((..(......)..))))))))))))))...((((((..(....)((.((((((((.((((......)))).))).(.......).))))))))))))).---.. ( -44.20)
>DroSec_CAF1 25176 113 - 1
UCGGCUUUGGCCUGAGUUAUGUGAUAAAGGCUCUGCAGAGGCCUCCGGCAAAUCGAUUUCGGUCUGGCGAAAUUUUAGGGCCGAGAAUUCAGGAAGAGGCA----GCCUUUGCCU---UU
...(((((..((((((((.........((((((....)).)))).((((.....(((((((......))))))).....))))..))))))))..))))).----..........---.. ( -37.10)
>DroSim_CAF1 25640 113 - 1
UCGGCUUUGGCCUGAGUUAUGUGAUAAAGGCUCUGCAGAGGCCUCCGGCAAAUCGAUUUCGGUCUGGCGAAAUUUUAAGGCCGAGAAUUCAGGAAGAGGCA----GCCUUUGCCU---UU
...(((((..((((((((.........((((((....)).)))).((((.....(((((((......))))))).....))))..))))))))..))))).----..........---.. ( -37.10)
>DroEre_CAF1 25054 112 - 1
UUGGCUUUGGCCUGAGUUAUGUGAUAAAGGCUUUGCCGAGGCCUCCGGCA-AUCGAAUUCGGCCUGGCGAAAUUUUAAGCCCGAGAAUUCCGGAACAGGCA----GCCUUUGCCU---UU
..(((((((((..((((..(......)..)))).)))))))))...((((-(.((....))(((((((..........))(((.(....))))..))))).----....))))).---.. ( -38.80)
>DroYak_CAF1 25558 113 - 1
UCGGCUUUGGCCUGAGUUAUGUGAUAAAGGCUUUGUCGAGGCCUCCGGCAAAUCGAAUUCGGCCUGGCGAAAUUUUAAGCCCGAGAAUUCCGGAAGAGGCG----GCCUUUGCCU---UU
..(((...((((.(((((...((....(((((...((((.(((...)))...))))....)))))(((..........)))))..)))))(....)....)----)))...))).---.. ( -36.90)
>DroPer_CAF1 29322 94 - 1
--------GGCC-------UGUGACGAAGGGUUACCAAAGGCCUUCAUCAAAUCGAU-UCGGUUUGAUGAAAUUUUAGAG------AUUCACAAAGGCUGA----GUGUCUGCGCAAAGG
--------((((-------((((((.....)))))...)))))((((((((((((..-.))))))))))))....((((.------(((((.......)))----)).))))........ ( -32.00)
>consensus
UCGGCUUUGGCCUGAGUUAUGUGAUAAAGGCUCUGCAGAGGCCUCCGGCAAAUCGAUUUCGGUCUGGCGAAAUUUUAAGGCCGAGAAUUCAGGAAGAGGCA____GCCUUUGCCU___UU
(((((((.(((((((((..(......)..)))).....)))))..((.((.((((....)))).)).)).......))).)))).......((.((((((.....)))))).))...... (-23.30 = -24.67 +   1.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:01 2006