Locus 9569

Sequence ID 3R_DroMel_CAF1
Location 25,277,117 – 25,277,236
Length 119
Max. P 0.953316
window15300 window15301

overview

Window 0

Location 25,277,117 – 25,277,236
Length 119
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 83.84
Mean single sequence MFE -20.73
Consensus MFE -17.36
Energy contribution -17.86
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -2.18
Structure conservation index 0.84
SVM decision value 1.43
SVM RNA-class probability 0.953316
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25277117 119 + 27905053
ACAAUUUAUCUUUGUCUGCUCAUUUUGCGCUUGCACAAAUCCAGAGAAAGAACAGAAAAAAGAAAAAAAAAACCAGGAAAAGCCAGCCCAAAGAGAGCAGCAAAUAUUUUUCAAUAAAA
..........((((.((((((.(((((.(((.((.....(((.................................)))...)).))).))))).))))))))))............... ( -21.91)
>DroSec_CAF1 134018 110 + 1
ACAAUUUAUCUUUGUCUGCUCAUUUUGCGCUUGCACAAAUCCAGAGAAAGAAGUG---------GAAAAAAACCAGGAAAAGCCAGCCCAAAGAGAGCAGCAAAUAUUUUUCAAUAAAA
..........((((.((((((.(((((.(((.((.....(((...........((---------(.......))))))...)).))).))))).))))))))))............... ( -23.30)
>DroEre_CAF1 151359 107 + 1
UCUAUUUAUCUGUGUCUGCUCAUUUUGCGCUUUCGCAAAUCCAAAAAAAGCAUAA------------AAAACCCAGGAAAAGGCAACCCAAAGAGAGCAGCAAAUAUUUUUCAAUAAAA
............((.((((((..((((((....))))))................------------........((....(....))).....))))))))................. ( -17.40)
>DroYak_CAF1 139287 110 + 1
ACUAUUUAUCUUUGUCUGCUCAUUUUGCGCUUUCGCAAAUCCAGAAAAAACCGAC---------AAAAUAAACCGAAAGAAGGCAGCCCAAAGAGAGCAGCAAAUAUUUUUCAAUAAAA
..........((((.((((((.(((((.((((((.........))))........---------.........(....)......)).))))).))))))))))............... ( -20.30)
>consensus
ACAAUUUAUCUUUGUCUGCUCAUUUUGCGCUUGCACAAAUCCAGAAAAAGAAGAG_________AAAAAAAACCAGGAAAAGCCAGCCCAAAGAGAGCAGCAAAUAUUUUUCAAUAAAA
..........((((.((((((.(((((.(((.((.....(((.................................)))...)).))).))))).))))))))))............... (-17.36 = -17.86 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 25,277,117 – 25,277,236
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 83.84
Mean single sequence MFE -26.73
Consensus MFE -21.57
Energy contribution -21.76
Covariance contribution 0.19
Combinations/Pair 1.12
Mean z-score -2.03
Structure conservation index 0.81
SVM decision value 1.07
SVM RNA-class probability 0.909800
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25277117 119 - 27905053
UUUUAUUGAAAAAUAUUUGCUGCUCUCUUUGGGCUGGCUUUUCCUGGUUUUUUUUUUCUUUUUUCUGUUCUUUCUCUGGAUUUGUGCAAGCGCAAAAUGAGCAGACAAAGAUAAAUUGU
...((((....))))((((((((((..((((.(((.((...(((.................................))).....)).))).))))..)))))).)))).......... ( -26.81)
>DroSec_CAF1 134018 110 - 1
UUUUAUUGAAAAAUAUUUGCUGCUCUCUUUGGGCUGGCUUUUCCUGGUUUUUUUC---------CACUUCUUUCUCUGGAUUUGUGCAAGCGCAAAAUGAGCAGACAAAGAUAAAUUGU
...((((....))))((((((((((..((((.(((.((...((((((.......)---------))...........))).....)).))).))))..)))))).)))).......... ( -28.10)
>DroEre_CAF1 151359 107 - 1
UUUUAUUGAAAAAUAUUUGCUGCUCUCUUUGGGUUGCCUUUUCCUGGGUUUU------------UUAUGCUUUUUUUGGAUUUGCGAAAGCGCAAAAUGAGCAGACACAGAUAAAUAGA
.............((((((((((((..((((....((((......))))...------------...................((....)).))))..))))))...))))))...... ( -23.50)
>DroYak_CAF1 139287 110 - 1
UUUUAUUGAAAAAUAUUUGCUGCUCUCUUUGGGCUGCCUUCUUUCGGUUUAUUUU---------GUCGGUUUUUUCUGGAUUUGCGAAAGCGCAAAAUGAGCAGACAAAGAUAAAUAGU
...((((....))))((((((((((..((((.((((((.......)))....(((---------((..((((.....))))..)))))))).))))..)))))).)))).......... ( -28.50)
>consensus
UUUUAUUGAAAAAUAUUUGCUGCUCUCUUUGGGCUGCCUUUUCCUGGUUUUUUUU_________CUCUGCUUUCUCUGGAUUUGCGAAAGCGCAAAAUGAGCAGACAAAGAUAAAUAGU
...((((....))))((((((((((..((((.(((.((...(((.................................))).....)).))).))))..)))))).)))).......... (-21.57 = -21.76 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:21 2006