Locus 6581

Sequence ID 3R_DroMel_CAF1
Location 17,329,344 – 17,329,513
Length 169
Max. P 0.943235
window10709 window10710

overview

Window 9

Location 17,329,344 – 17,329,442
Length 98
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 90.24
Mean single sequence MFE -32.54
Consensus MFE -25.24
Energy contribution -24.72
Covariance contribution -0.52
Combinations/Pair 1.11
Mean z-score -1.45
Structure conservation index 0.78
SVM decision value -0.01
SVM RNA-class probability 0.526931
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17329344 98 + 27905053
CCGAUAGGGUUCGGAUCCUAUAACUCAUAAUAUUCGGGCCUUUUUCGGCCUUGUGAUGUGGAAAAGCUGCUUAGGAGCAGCGC------AGCCCGGCAAUCUGA
((((.(((((((((((..(((.....)))..)))))))))))..))))..((((..((.((....((((((....))))))..------..))))))))..... ( -31.40)
>DroSec_CAF1 5417 98 + 1
CCGAUAGGGUUCGGAUCCUAUAACUCAUAAUAUUCGGGCCUUUUUCGGUCCUGUGAUGUGGAAAAGCUGCUUAGGAGCUGCGC------AGCUCGGCAAGCGGA
((((.(((((((((((..(((.....)))..)))))))))))..))))..((((..(((.((...(((((.(((...))).))------))))).))).)))). ( -34.10)
>DroSim_CAF1 10977 98 + 1
CCGAUAGGGUUCGGAUCCUAUAACUCAUAAUAUUCGGGCCUUUUUCGGUCCUGUGAUGUGGAAAAGCUGCUUAGGAGCUGCGC------AGCUCGGGAAGCGGA
((((.(((((((((((..(((.....)))..)))))))))))..))))(((........)))....((((((..(((((....------)))))...)))))). ( -35.10)
>DroEre_CAF1 10581 104 + 1
CCGAUAGGAUUCGGAUCCUAUAACUCAUAACAUUCGGGCCUUUUUCGGCCAUGUGAUGUGGAAAAGCUGCUUAGGAGCUGCUCUUCCUCAGUCCGGCAAUCUGA
((((((((((....))))))).........(((...((((......))))..))).((.((((.(((.(((....))).))).)))).))...)))........ ( -32.60)
>DroYak_CAF1 9089 98 + 1
CCGAUAGGACUCGAAUCCUAUAACUCAUAACAUUCGGGCCUUUUUCGGCCAUGUGAUGUGGAAAAGCUGCUUAGGAGCUGCGC------CGUUCGGCAAUCUGA
...((((((......))))))...(((((.(((...((((......))))..))).)))))....((.(((....))).))((------(....)))....... ( -29.50)
>consensus
CCGAUAGGGUUCGGAUCCUAUAACUCAUAAUAUUCGGGCCUUUUUCGGCCAUGUGAUGUGGAAAAGCUGCUUAGGAGCUGCGC______AGCUCGGCAAUCUGA
((((((((((....)))))))...(((((.(((...((((......))))..))).)))))....((.(((....))).))............)))........ (-25.24 = -24.72 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 17,329,423 – 17,329,513
Length 90
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 71.21
Mean single sequence MFE -24.40
Consensus MFE -8.26
Energy contribution -8.10
Covariance contribution -0.16
Combinations/Pair 1.14
Mean z-score -2.08
Structure conservation index 0.34
SVM decision value 1.33
SVM RNA-class probability 0.943235
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17329423 90 - 27905053
AUAACUAAAAUGAAGAAAAAG-GCC-AAACAGCUAACCAGAACCACUGGGCGGAUGUCGGCCAUAAAAGCCCG----------------UCAGAUUGCCGGGCUGCGC
....................(-(((-..(((.((..((((.....))))..)).))).)))).....((((((----------------.(.....).)))))).... ( -27.80)
>DroPse_CAF1 13001 101 - 1
AUAACUAAAAAUAAAAAUAAA-G---AAAGAACAAACCAGAA-CACUGGGCGGAUGUUGGCCAUAAAAGCCCUGCUCAGGUUCUGGCCAUCAGAUUGGCG--CGGCAU
.....................-.---...........(((((-(.((((((((.....(((.......)))))))))))))))))((((......)))).--...... ( -29.50)
>DroSec_CAF1 5496 91 - 1
AUAACUAAAAUGAAGAAAAAG-GCCCAAACAGCUAACCAGAACCACUGGGCGGAUGUCGGCCAUAAAAGCCCG----------------UCCGCUUGCCGAGCUGCGC
.....................-.......(((((..((((.....))))(((((((..(((.......)))))----------------)))))......)))))... ( -25.90)
>DroSim_CAF1 11056 90 - 1
AUAACUAAAAUGAAGAAAAAG-GCC-AAAAAGCUAACCAGAACCACUGGGCGGAUGUCGGCCAUAAAAGCCCG----------------UCCGCUUCCCGAGCUGCGC
.....................-((.-....((((..((((.....))))(((((((..(((.......)))))----------------)))))......)))))).. ( -23.50)
>DroAna_CAF1 10182 81 - 1
AUAACUAAAAAAAAGCAAGAGAGGC-UCAAUGCCAUGCCGAUGCUAUGGGCGGAUGUUGGCCAUAAAAGCUCAGA--------------UCAGAUU------------
.............(((......(((-.((((..(.((((.((...)).)))))..)))))))......)))....--------------.......------------ ( -15.30)
>consensus
AUAACUAAAAUGAAGAAAAAG_GCC_AAAAAGCUAACCAGAACCACUGGGCGGAUGUCGGCCAUAAAAGCCCG________________UCAGAUUGCCG_GCUGCGC
...............................................((((..(((.....)))....)))).................................... ( -8.26 =  -8.10 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:01 2006