Locus 6210

Sequence ID 2L_DroMel_CAF1
Location 17,301,676 – 17,301,767
Length 91
Max. P 0.626783
window9924 window9925

overview

Window 4

Location 17,301,676 – 17,301,767
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 95.97
Mean single sequence MFE -22.07
Consensus MFE -19.09
Energy contribution -19.15
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -1.76
Structure conservation index 0.86
SVM decision value 0.18
SVM RNA-class probability 0.621345
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17301676 91 + 22407834
AGAGGCAAAGAUUCACGCAUGGCUUCGGAUUGUGUCAAGUGCAAAGCAAACAAAACUUCAGCCAGCGACCCAAAAAGGGGCAAAUCAAUUU
.((.((.........(((.(((((..(..((((......(((...))).))))..)...)))))))).(((.....)))))...))..... ( -22.50)
>DroSec_CAF1 152288 91 + 1
AGAGGCAUAGAUUCACGCAUGGCUUCGGAGUAUGUCAAGUGCAAAGCAAACAAAACUUCAGCCAGCGACCCAAAAAGGGGCAAAUCAAUUU
.((.((.........(((.(((((..(((((.(((....(((...))).)))..))))))))))))).(((.....)))))...))..... ( -24.90)
>DroSim_CAF1 146220 91 + 1
AGGGGCAUAGAUUCACGCAUGGCUUCGGAUUGUGUCAAGUGCAAAGCAAACAAAACUUCAGCCAGCGACCCAAAAAGGGGCAAAUCAAUUU
.((.((.........(((.(((((..(..((((......(((...))).))))..)...)))))))).(((.....)))))...))..... ( -21.60)
>DroYak_CAF1 142940 90 + 1
AGAGGCAAAGAUUCACGCAUGGCUUCGGAUUGUGUCAAGUGCAAAACAAACAAAACUUCAGCCAGCAACCCAA-AAGGGGCAAAUCAAUUU
.((.((..........((.(((((..(..((((.....((.....))..))))..)...)))))))..(((..-..)))))...))..... ( -19.30)
>consensus
AGAGGCAAAGAUUCACGCAUGGCUUCGGAUUGUGUCAAGUGCAAAGCAAACAAAACUUCAGCCAGCGACCCAAAAAGGGGCAAAUCAAUUU
.((.((.........(((.(((((..((....(((....((.....)).)))...))..)))))))).(((.....)))))...))..... (-19.09 = -19.15 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 17,301,676 – 17,301,767
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 95.97
Mean single sequence MFE -23.70
Consensus MFE -22.29
Energy contribution -22.35
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -1.52
Structure conservation index 0.94
SVM decision value 0.19
SVM RNA-class probability 0.626783
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17301676 91 - 22407834
AAAUUGAUUUGCCCCUUUUUGGGUCGCUGGCUGAAGUUUUGUUUGCUUUGCACUUGACACAAUCCGAAGCCAUGCGUGAAUCUUUGCCUCU
.....((((..((((.....)))..(((((((...(((.(((((((...)))...)))).)))....))))).)))..))))......... ( -23.30)
>DroSec_CAF1 152288 91 - 1
AAAUUGAUUUGCCCCUUUUUGGGUCGCUGGCUGAAGUUUUGUUUGCUUUGCACUUGACAUACUCCGAAGCCAUGCGUGAAUCUAUGCCUCU
.....((((..((((.....)))..(((((((..(((..(((((((...)))...)))).)))....))))).)))..))))......... ( -24.00)
>DroSim_CAF1 146220 91 - 1
AAAUUGAUUUGCCCCUUUUUGGGUCGCUGGCUGAAGUUUUGUUUGCUUUGCACUUGACACAAUCCGAAGCCAUGCGUGAAUCUAUGCCCCU
.....((((..((((.....)))..(((((((...(((.(((((((...)))...)))).)))....))))).)))..))))......... ( -23.30)
>DroYak_CAF1 142940 90 - 1
AAAUUGAUUUGCCCCUU-UUGGGUUGCUGGCUGAAGUUUUGUUUGUUUUGCACUUGACACAAUCCGAAGCCAUGCGUGAAUCUUUGCCUCU
.....((((..((((..-..)))..(((((((...(..((((..(((........)))))))..)..))))).)))..))))......... ( -24.20)
>consensus
AAAUUGAUUUGCCCCUUUUUGGGUCGCUGGCUGAAGUUUUGUUUGCUUUGCACUUGACACAAUCCGAAGCCAUGCGUGAAUCUAUGCCUCU
.....((((..((((.....)))..(((((((...(((.(((((((...)))...)))).)))....))))).)))..))))......... (-22.29 = -22.35 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:19 2006