Locus 5955

Sequence ID 2L_DroMel_CAF1
Location 16,776,279 – 16,776,384
Length 105
Max. P 0.995730
window9461

overview

Window 1

Location 16,776,279 – 16,776,384
Length 105
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 76.33
Mean single sequence MFE -27.40
Consensus MFE -14.41
Energy contribution -15.32
Covariance contribution 0.91
Combinations/Pair 1.30
Mean z-score -3.13
Structure conservation index 0.53
SVM decision value 2.61
SVM RNA-class probability 0.995730
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16776279 105 + 22407834
ACCGCUUA-AGCAUAAGCAAAAAA-AGAAAAAAUGAAAAAAUGAAUGAACCUACGCC---GUCUGAAUGAGUUUCCCCAGA--AGCUC-CCAGAACAGUGUUGGUUCCGCUUA
...(((((-....)))))......-.....................(((((.((((.---.((((...(((((((....))--)))))-.))))...)))).)))))...... ( -27.30)
>DroGri_CAF1 6328 103 + 1
AUCGCUUUCGCUUUAAGCAUAAAA-ACAAU---CUAC-AAAUU-AUGAGC-UGAUCGGUAGUGGGA--GUAUUUCCUUAAAAAAACUCUCCCGAUCAGUUUG-UAAAUGCUUA
...((....))..(((((((....-.....---....-...((-(..(((-(((((((....((((--((.(((......))).))))))))))))))))..-)))))))))) ( -30.09)
>DroSec_CAF1 5897 102 + 1
ACCGCUUA-AGCAUAAGCAAAAAA----AAAAAAGAUAAAAUGAAUGAAUCUACGCC---GUCUGAAUGAGUUUCCCCAGA--AGCUC-CCAGAACAGUGUUGGUUCCGCUUA
...(((((-....)))))......----..................(((((.((((.---.((((...(((((((....))--)))))-.))))...)))).)))))...... ( -24.70)
>DroSim_CAF1 6701 106 + 1
ACCGCUUA-AGCAUAUGCAAAAAAAAGAAAAAAAGAAAAAAUGAAUGAACCUACGCC---GUCUGAAUGAGUUUCCCCAGA--AGCUC-CCAGAACAGUGUUGGUUCCGCUUA
...((...-.((....))............................(((((.((((.---.((((...(((((((....))--)))))-.))))...)))).))))).))... ( -26.20)
>DroEre_CAF1 5923 99 + 1
ACCGCUUA-AGCAUAAGCAAAAAA-AGAAA------GAAAAUGAUUGAACCUCCGCC---GUCUGAUUGAGCUUCCCCCGA--AGCUC-CCAGAACAGUGUAGGUUCCGCUUA
...(((((-....)))))......-.....------..........((((((.(((.---.((((...(((((((....))--)))))-.))))...))).))))))...... ( -29.50)
>DroYak_CAF1 5873 95 + 1
ACCGCUUA-AGCAUAGGCCAAAAA-A----------AAAAAUGAAUGAACCUCCGCC---GUCUGAAUGAGUUUCCCCAGA--AGCUC-CCAGAACAGUGUGGGUUCCGCUUA
...(((((-....)))))......-.----------..........(((((..(((.---.((((...(((((((....))--)))))-.))))...)))..)))))...... ( -26.60)
>consensus
ACCGCUUA_AGCAUAAGCAAAAAA_AGAAA____GAAAAAAUGAAUGAACCUACGCC___GUCUGAAUGAGUUUCCCCAGA__AGCUC_CCAGAACAGUGUUGGUUCCGCUUA
...(((((.....)))))............................(((((.((((.....((((...(((((..........)))))..))))...)))).)))))...... (-14.41 = -15.32 +   0.91)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:24 2006