Locus 2880

Sequence ID 2R_DroMel_CAF1
Location 9,954,570 – 9,954,662
Length 92
Max. P 0.870861
window4758

overview

Window 8

Location 9,954,570 – 9,954,662
Length 92
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 75.43
Mean single sequence MFE -35.78
Consensus MFE -22.02
Energy contribution -22.77
Covariance contribution 0.75
Combinations/Pair 1.08
Mean z-score -1.66
Structure conservation index 0.62
SVM decision value 0.87
SVM RNA-class probability 0.870861
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9954570 92 + 20766785
AAU------GC---CUCCCCAGCUGCUCAGUGGUGCCCUCUACACACGCUUAGUAGCCGUUUGGGAGCU-GGAAAAGUGGCAAGCGUUGGGGUA---UU--------UGGCGG---
..(------((---(.(((((((((((.(((((((.......))).)))).))))))((((((...(((-.....)))..)))))).)))))..---..--------.)))).--- ( -37.30)
>DroPse_CAF1 25601 92 + 1
CAUUCUGCCAC---CUCCCUUGCUGCUCAGCGGUGCCCUCUACACACGCUUAGUAGCCGUUUGGGAGCU-GGAAAAGUGGCAAGCAUUGGGGCA---CA-----------------
.....((((((---(((((..((((((.(((((((.......))).)))).)))))).....)))))..-......)))))).((......)).---..----------------- ( -34.50)
>DroGri_CAF1 36052 88 + 1
-----------CCUUUUGCUCGCUGCU-AGCCUUGCUCUCUACACACGCUUAGUAGCCAUUUGGGAGCUUGGAAAAGUGGCAAGCGGCGGGUUUUGUUC---------G-------
-----------......((((((((((-.(((..((((((.......(((....))).....))))))((....))..))).)))))))))).......---------.------- ( -31.90)
>DroYak_CAF1 13087 92 + 1
AAU------GC---CUCCCCAGCUGCUCAGUGGUGCCCUCUACACACGCUUAGUAGCCGUUUGGGAGCU-GGAAAAGUGGCAAGCGUCGGGGUA---UU--------UGGCGG---
..(------((---(.((((.((((((.(((((((.......))).)))).))))))((((((...(((-.....)))..))))))..))))..---..--------.)))).--- ( -36.70)
>DroAna_CAF1 10309 105 + 1
AUU-UC---GC---CUCCCAAGCUGCUCACUGGUGCCCUCUACACACGCUUAGUAGCCGUUUGGGAGCU-GGAAAAGUGGCAAGCGUUGGGGUA---UUGGGGCAUGUGGCGGGCG
...-.(---((---((.(((...(((.(.(..(((((((..((....(((....))).(((((...(((-.....)))..))))))).))))))---)..)))))..))).))))) ( -39.80)
>DroPer_CAF1 25414 92 + 1
CAUUCUGCCAC---CUCCCUUGCUGCUCAGCGGUGCCCUCUACACACGCUUAGUAGCCGUUUGGGAGCU-GGAAAAGUGGCAAGCAUUGGGGCA---CA-----------------
.....((((((---(((((..((((((.(((((((.......))).)))).)))))).....)))))..-......)))))).((......)).---..----------------- ( -34.50)
>consensus
AAU______GC___CUCCCUAGCUGCUCAGCGGUGCCCUCUACACACGCUUAGUAGCCGUUUGGGAGCU_GGAAAAGUGGCAAGCGUUGGGGUA___UU_________G_______
................((((.((((((.(((((((.......))).)))).)))))).(((((...(((......)))..)))))...))))........................ (-22.02 = -22.77 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:49 2006