Locus 4092

Sequence ID 2L_DroMel_CAF1
Location 11,780,298 – 11,780,402
Length 104
Max. P 0.661251
window6448

overview

Window 8

Location 11,780,298 – 11,780,402
Length 104
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.76
Mean single sequence MFE -33.02
Consensus MFE -16.15
Energy contribution -17.04
Covariance contribution 0.89
Combinations/Pair 1.17
Mean z-score -1.93
Structure conservation index 0.49
SVM decision value 0.27
SVM RNA-class probability 0.661251
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11780298 104 - 22407834
GGCCAACGUUAAGCGGCAGAAAC-UGGCCAAAAAAGGAAAUGGGCAUGCGGGG---------ACCGGAGAUGCAGAU------GCAAUGCAAUGGCAAUUGUCGCUCAUUGGCCGAAAUG
((((((.(...((((((((....-((.(((..........))).))((((...---------.)......((((...------....))))...))).))))))))).))))))...... ( -31.60)
>DroSec_CAF1 38233 103 - 1
GGCCAACGUUAAGUGGCAGAAAC-UGGCCAAA-AAGGAAAUGGGCAUGCGGGG---------ACCGGCGAUGCAGAU------GCAAUGCAAUGGCAAUUGUCGCUCAUUGGCCGAAAUG
((((..(.((...((((......-..))))..-)).).(((((((..(.(...---------.))((((((((...(------((...)))...)).)))))))))))))))))...... ( -34.00)
>DroSim_CAF1 37328 103 - 1
GGCCAACGUUAAGCGGCAGAAAC-UGGCCAAA-AAGGAAAUGGGCAUGCGGGG---------AGCGGCGAUGCAGAU------GCAAUGCAAUGGCAAUUGUCGCUCAUUGGCCGAAAUG
((((((.......(.(((....(-((.((...-..))...)))...))).).(---------(((((((((((...(------((...)))...)).)))))))))).))))))...... ( -37.10)
>DroEre_CAF1 48570 102 - 1
GGCCAACGUUAAGCGCCAGAAAC-UGGCGAA--AAGGAAACGGCCAUGCGGGA---------ACCGGAAAAGCAGAC------GCAAUGCAAUGGCAAUUGUCGCUCAUUGGCCGAAAUG
((((((.(...((((((((...)-))))((.--..(....).(((((.(((..---------.))).....(((...------....))).))))).....)))))).))))))...... ( -33.60)
>DroYak_CAF1 39920 117 - 1
GGCCAACGUUAAGCGGCAGAAAG-UGGCCAA--AAGCAAACGGGUAUGCGGGGAUACUGGAAAACGGAGAUGCAGAUGCAGUUGCAGUGCAAUGGCAAUUGUCGCUCAUUGGCCGAAAUG
((((((.(...((((((((....-..((((.--.......(.(((((......))))).)..........((((..(((....))).)))).))))..))))))))).))))))...... ( -37.60)
>DroAna_CAF1 39779 85 - 1
GACCCA----AAGAGCCAGAACUGCGGCCGG--AAGAAGACGA---------------------CGACGAUGGCGAG----UUG----GUAGCGACAAUUGUCGCUUAUUGGCCGAAAUG
......----....((((......((..((.--.......)).---------------------))....))))(.(----(..----((((((((....))))).)))..)))...... ( -24.20)
>consensus
GGCCAACGUUAAGCGGCAGAAAC_UGGCCAA__AAGGAAACGGGCAUGCGGGG_________ACCGGAGAUGCAGAU______GCAAUGCAAUGGCAAUUGUCGCUCAUUGGCCGAAAUG
((((((.....((((((((.......((((..........((......................))....((((.............)))).))))..))))))))..))))))...... (-16.15 = -17.04 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:08 2006