Locus 768

Sequence ID 2R_DroMel_CAF1
Location 3,717,369 – 3,717,459
Length 90
Max. P 0.859990
window1340 window1341

overview

Window 0

Location 3,717,369 – 3,717,459
Length 90
Sequences 6
Columns 90
Reading direction forward
Mean pairwise identity 77.26
Mean single sequence MFE -41.00
Consensus MFE -25.58
Energy contribution -26.83
Covariance contribution 1.25
Combinations/Pair 1.21
Mean z-score -1.74
Structure conservation index 0.62
SVM decision value 0.82
SVM RNA-class probability 0.859990
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3717369 90 + 20766785
GGAGGCGCAUCUGCUGCUCCAGAGCAGGUCUGGCCCGCGUGGCGGGCCAGCUGGGCUGGGCCAGGGAACCUGUACCAAUGCUGAGCAGCG
(((......)))(((((((.(((((.((.(((((((((...)))))))))))..)))((..((((...))))..))....))))))))). ( -46.50)
>DroSec_CAF1 600 90 + 1
GGAGUCGCAUCUGCUGCUCCAGAGCAGUUCUGCCCUGGACGUUGGUCCUCCUGGGCUGGGCCAGGGAACCUGUACCAAUGCUGAGCAGCG
(((......)))(((((((...((((.....((((.((((....))))....))))(((..((((...))))..))).))))))))))). ( -39.10)
>DroSim_CAF1 600 90 + 1
GGAGGCGCAUCUGCUGCUCCAGAGCAGUUCUGCCCUGGACGUUGGUCCUCCUGGGCUGGGCCAGGGAACAUGUACCAAUGCUGAGCAGCG
...((..(((..((((((....))))))....((((((.(.(..((((....))))..))))))))...)))..))...(((....))). ( -36.50)
>DroEre_CAF1 579 90 + 1
GGAGGCGAACCUGCUGGUCCACAGCGGGUCUGGCUCGGACGUUGGACCUCCGUGGCUGGGCCAGGGAACCUGUUCCAAUGCUGAGCAGCG
....((((.(((((((.....)))))))))..((((((.(((((((.((((.((((...)))).)))....).))))))))))))).)). ( -44.70)
>DroYak_CAF1 600 90 + 1
GGAGGCGAAUCUGCUGCUCCAGAGCUUGUCUGGCCCGGAUGCUGGACCUCCUUGGCUGGGCCAGGGAACCUGUUCCAAUGCUGAGCAGCG
(((......)))(((((((...(((....(((((((((.....((....))....)))))))))((((....))))...)))))))))). ( -41.30)
>DroAna_CAF1 30487 81 + 1
GCA---------CCUGUUCAGGAUCAGGCCUGGCCUGGAUAGUGCGUCUGCCGGGCUUGGCCCAGGUCUCGGAACCGAUGCUGAGGAGUG
...---------.((.(((((.(((.((((.(((((((.(((.....)))))))))).))))..(((......)))))).))))).)).. ( -37.90)
>consensus
GGAGGCGCAUCUGCUGCUCCAGAGCAGGUCUGGCCCGGACGUUGGACCUCCUGGGCUGGGCCAGGGAACCUGUACCAAUGCUGAGCAGCG
............(((((((...((((...(((((((((.....((....))....)))))))))((........))..))))))))))). (-25.58 = -26.83 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 3,717,369 – 3,717,459
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 77.26
Mean single sequence MFE -36.22
Consensus MFE -20.03
Energy contribution -21.15
Covariance contribution 1.12
Combinations/Pair 1.17
Mean z-score -1.70
Structure conservation index 0.55
SVM decision value 0.21
SVM RNA-class probability 0.636095
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3717369 90 - 20766785
CGCUGCUCAGCAUUGGUACAGGUUCCCUGGCCCAGCCCAGCUGGCCCGCCACGCGGGCCAGACCUGCUCUGGAGCAGCAGAUGCGCCUCC
.(((((((((((((((..((((...))))..)))).....(((((((((...)))))))))...))))...)))))))............ ( -44.80)
>DroSec_CAF1 600 90 - 1
CGCUGCUCAGCAUUGGUACAGGUUCCCUGGCCCAGCCCAGGAGGACCAACGUCCAGGGCAGAACUGCUCUGGAGCAGCAGAUGCGACUCC
.(((((((............((((((((((......))))).)))))......(((((((....))))))))))))))............ ( -40.90)
>DroSim_CAF1 600 90 - 1
CGCUGCUCAGCAUUGGUACAUGUUCCCUGGCCCAGCCCAGGAGGACCAACGUCCAGGGCAGAACUGCUCUGGAGCAGCAGAUGCGCCUCC
.(((((((.((.(((((.....(..(((((......)))))..)))))).)).(((((((....))))))))))))))............ ( -37.00)
>DroEre_CAF1 579 90 - 1
CGCUGCUCAGCAUUGGAACAGGUUCCCUGGCCCAGCCACGGAGGUCCAACGUCCGAGCCAGACCCGCUGUGGACCAGCAGGUUCGCCUCC
.((.((((.((.(((((.....((((.((((...)))).)))).))))).))..))))..((((.((((.....)))).)))).)).... ( -31.00)
>DroYak_CAF1 600 90 - 1
CGCUGCUCAGCAUUGGAACAGGUUCCCUGGCCCAGCCAAGGAGGUCCAGCAUCCGGGCCAGACAAGCUCUGGAGCAGCAGAUUCGCCUCC
.((((((((((...((((....))))(((((((.((...((....)).))....)))))))....)))...)))))))............ ( -36.00)
>DroAna_CAF1 30487 81 - 1
CACUCCUCAGCAUCGGUUCCGAGACCUGGGCCAAGCCCGGCAGACGCACUAUCCAGGCCAGGCCUGAUCCUGAACAGG---------UGC
((((..((((.(((((((....)))).(((((..(((.((.((.....))..)).)))..)))))))).))))...))---------)). ( -27.60)
>consensus
CGCUGCUCAGCAUUGGUACAGGUUCCCUGGCCCAGCCCAGGAGGACCAACAUCCAGGCCAGACCUGCUCUGGAGCAGCAGAUGCGCCUCC
.((((((((((..(((..(((.....)))..)))(.((.(((.(.....).))).)).)......)))...)))))))............ (-20.03 = -21.15 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:44 2006