Locus 2867

Sequence ID 3L_DroMel_CAF1
Location 8,197,762 – 8,197,856
Length 94
Max. P 0.836958
window4479 window4480

overview

Window 9

Location 8,197,762 – 8,197,856
Length 94
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 92.00
Mean single sequence MFE -27.55
Consensus MFE -22.29
Energy contribution -22.85
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -1.59
Structure conservation index 0.81
SVM decision value 0.14
SVM RNA-class probability 0.601458
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8197762 94 + 23771897
AUGAAGUGCUCGGCUGAACACUUUAGUGAGCAGAUUUCUCAAGAACAUUUUGUUAAUGAAUUCGGGUCGAGGGUG---UGUAUCC-UUGGCUCGGAUU
..((((((((((.((((.....))))))))))..))))(((..(((.....)))..)))(((((((((((((((.---...))))-))))))))))). ( -32.40)
>DroSec_CAF1 25398 93 + 1
AUGAAGUGCUCGGCUGAACACUUUAGUGUGCAGAUUUCUCAAGAACAUUUUGUUAAUGAAUUCGGGUCGAGGGUG---UGUAUC--UUGGCUCGGAUU
(..(((((.((..(((.((((....)))).))).........)).)))))..).....((((((((((((((...---....))--)))))))))))) ( -26.70)
>DroSim_CAF1 23267 96 + 1
AUGAAGUGCUCGGCUGAACACUUUAGUGAGCAGAUUUCUCAAGAACAUUUUGUUAAUGAAUUCGGGUCGAGGGUGUGGUGUAUC--UUGGCUCGGAUU
..((((((((((.((((.....))))))))))..))))(((..(((.....)))..)))(((((((((((((..........))--))))))))))). ( -27.50)
>DroEre_CAF1 28685 95 + 1
AUGAAGUGCUCGGCUGAACACUUUAGUGAGCGGAUUUCUCAAGAACAUUUUGCUAAUGAAUUCGGGUGGUGGGUG---UUUUUUCGGGGGCUCGGAUU
.(((((((.((....)).))))))).(((((...(..(..((((((((.(..(((.((....))..)))..))))---)))))..)..)))))).... ( -23.60)
>consensus
AUGAAGUGCUCGGCUGAACACUUUAGUGAGCAGAUUUCUCAAGAACAUUUUGUUAAUGAAUUCGGGUCGAGGGUG___UGUAUC__UUGGCUCGGAUU
.(((((((.((....)).)))))))...((((((.(((....)))...))))))....(((((((((((((((((.....))))).)))))))))))) (-22.29 = -22.85 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 8,197,762 – 8,197,856
Length 94
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 92.00
Mean single sequence MFE -17.93
Consensus MFE -15.04
Energy contribution -15.35
Covariance contribution 0.31
Combinations/Pair 1.05
Mean z-score -1.88
Structure conservation index 0.84
SVM decision value 0.74
SVM RNA-class probability 0.836958
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8197762 94 - 23771897
AAUCCGAGCCAA-GGAUACA---CACCCUCGACCCGAAUUCAUUAACAAAAUGUUCUUGAGAAAUCUGCUCACUAAAGUGUUCAGCCGAGCACUUCAU
.....(((((.(-((.....---...))).).......((((..(((.....)))..))))......))))....((((((((....))))))))... ( -19.90)
>DroSec_CAF1 25398 93 - 1
AAUCCGAGCCAA--GAUACA---CACCCUCGACCCGAAUUCAUUAACAAAAUGUUCUUGAGAAAUCUGCACACUAAAGUGUUCAGCCGAGCACUUCAU
.......((..(--(((...---.....(((...))).((((..(((.....)))..))))..))))))......((((((((....))))))))... ( -15.20)
>DroSim_CAF1 23267 96 - 1
AAUCCGAGCCAA--GAUACACCACACCCUCGACCCGAAUUCAUUAACAAAAUGUUCUUGAGAAAUCUGCUCACUAAAGUGUUCAGCCGAGCACUUCAU
.....((((..(--(((...........(((...))).((((..(((.....)))..))))..))))))))....((((((((....))))))))... ( -19.80)
>DroEre_CAF1 28685 95 - 1
AAUCCGAGCCCCCGAAAAAA---CACCCACCACCCGAAUUCAUUAGCAAAAUGUUCUUGAGAAAUCCGCUCACUAAAGUGUUCAGCCGAGCACUUCAU
.....((((...((......---...........))..((((..(((.....)))..))))......))))....((((((((....))))))))... ( -16.83)
>consensus
AAUCCGAGCCAA__GAUACA___CACCCUCGACCCGAAUUCAUUAACAAAAUGUUCUUGAGAAAUCUGCUCACUAAAGUGUUCAGCCGAGCACUUCAU
.....((((...................((.....)).((((..(((.....)))..))))......))))....((((((((....))))))))... (-15.04 = -15.35 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:45 2006