Locus 6346

Sequence ID 2L_DroMel_CAF1
Location 17,726,394 – 17,726,484
Length 90
Max. P 0.703671
window10145

overview

Window 5

Location 17,726,394 – 17,726,484
Length 90
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 76.05
Mean single sequence MFE -20.57
Consensus MFE -12.95
Energy contribution -13.73
Covariance contribution 0.78
Combinations/Pair 1.16
Mean z-score -1.39
Structure conservation index 0.63
SVM decision value 0.36
SVM RNA-class probability 0.703671
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17726394 90 + 22407834
AUUUUCCGCGAACAAUUUGUAUUUGCAAUGUGAAAACAAAAUGGCCACUG--AACACGGCCAAUCCGCAGGACA------------UUUCC-------C-CAAUCUGUCCCC-------
.......(((.....(((((.((..(...)..)).))))).(((((....--.....)))))...))).(((((------------.....-------.-.....)))))..------- ( -21.20)
>DroSec_CAF1 26635 90 + 1
AUUUUCCGCGAACAAUUUGUAUUUGCAAUGUGAAAACAAAAUGGCCACUG--AACACGGCCAAUCCGCAGGACU------------UUCCC-------C-CAAUCUGUCCCG-------
.......(((.....(((((.((..(...)..)).))))).(((((....--.....)))))...))).((((.------------.....-------.-......))))..------- ( -20.62)
>DroEre_CAF1 36481 90 + 1
AUUUUCCGCGAACAAUUUGUAUUUGCAAUGUGAAAACAAAAUGGCCACUG--AACACGGCCAAUCCGCAGGACU------------UUCCC-------C-CACUCUGCCCCC-------
....((((((.....(((((.((..(...)..)).))))).(((((....--.....)))))...))).)))..------------.....-------.-............------- ( -19.00)
>DroWil_CAF1 26004 87 + 1
-----UAGCGAACAAUUUGUAUUUGCAAUGUGAAAACAAAAUGGUUAUAGGUAACACACCCGA--------ACA------------UUCCC-------CUCACUCCCUCUCAUACCAUC
-----.((.((.((.(((((.((..(...)..)).))))).))(((...(((.....)))..)--------)).------------.....-------.)).))............... (  -9.30)
>DroYak_CAF1 28906 90 + 1
AUUUUCCGCGAACAAUUUGUAUUUGCAAUGUGAAAACAAAAUGGCCACUG--AACACGGCCAAUCCGCAGGACU------------UUCCC-------C-CAAUCUGCCCCC-------
....((((((.....(((((.((..(...)..)).))))).(((((....--.....)))))...))).)))..------------.....-------.-............------- ( -19.00)
>DroAna_CAF1 35975 109 + 1
AAUUUCCACGAACAAUUUGUAUUUGCGAUGUGGAAACAAAAUGGCCACUG--AACACGGCCAAUCCGCAGGAUGGUGAUGGUGGCCUCCUCCUGGUGGC-CAGGCAGCCCCC-------
....(((((((.....))))...((((...((....))...(((((....--.....)))))...))))))).(((.....(((((.((....)).)))-))....)))...------- ( -34.30)
>consensus
AUUUUCCGCGAACAAUUUGUAUUUGCAAUGUGAAAACAAAAUGGCCACUG__AACACGGCCAAUCCGCAGGACU____________UUCCC_______C_CAAUCUGCCCCC_______
....((((((.....(((((.((..(...)..)).))))).(((((...........)))))...))).)))............................................... (-12.95 = -13.73 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:53 2006