Locus 7581

Sequence ID X_DroMel_CAF1
Location 18,864,879 – 18,864,979
Length 100
Max. P 0.997020
window12443 window12444

overview

Window 3

Location 18,864,879 – 18,864,979
Length 100
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 76.92
Mean single sequence MFE -35.04
Consensus MFE -11.08
Energy contribution -13.60
Covariance contribution 2.52
Combinations/Pair 1.07
Mean z-score -2.87
Structure conservation index 0.32
SVM decision value 2.78
SVM RNA-class probability 0.997020
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18864879 100 + 22224390
UGCACAAACAAAACCGAACAC-CAGCACAAUUAAA-CACACAC----ACACACGCAC-----GCGAACGG-ACACUUGUGUGGGUGUGUGUAAUUGUGG-GUGGCUGUGGGUG
..................(((-(..((((.(((..-((((.((----((((((.(((-----((((....-....))))))).))))))))...)))).-.))).)))))))) ( -37.50)
>DroSec_CAF1 101490 96 + 1
UGCACAAACAAAACCGAACAC-CAGCACAAUUAAA-CACA--------CACACGCAC-----GCGAACGG-ACACUUGUGUGGGUGUGUGUAAUUGUGG-GUGGCUGUGGGUG
............(((.(.(((-(..(((((((...-.(((--------(((((.(((-----((((....-....))))))).))))))))))))))))-)))....).))). ( -37.30)
>DroSim_CAF1 96575 96 + 1
UGCACAAACAAAACCGAACAC-CAGCACAAUUAAA-CACA--------CACACGCAC-----GCGAACGG-ACACUUGUGUGGGUGUGUGUAAUUGUGG-GUGGCUGUGGGUG
............(((.(.(((-(..(((((((...-.(((--------(((((.(((-----((((....-....))))))).))))))))))))))))-)))....).))). ( -37.30)
>DroEre_CAF1 102242 96 + 1
UGCACAAACAAAACCGAACAC-CAGCACAAUUAAA-CACA--------CACACGCAC-----GCGAACGG-ACACUUCUGUGAGUGUGUGUAAUUGUGG-GCGGCGGUGGGCG
..............((..(((-(.((.........-((((--------...((((((-----((..((((-(....)))))..))))))))...)))).-...))))))..)) ( -31.12)
>DroPer_CAF1 143201 105 + 1
UACACAAACAAAACCGAACCCUCGGCCCAUUUAAGGCAUCCAUGCACACACCCAGAUGCAACACAGGUGGGGCACGAGUAUGC--------GAGUGUGGGGUAUGUGUGAGUG
((((((.((....((((....))))(((.......(((....)))((((.((((..((.....))..))))(((......)))--------..))))))))).)))))).... ( -32.00)
>consensus
UGCACAAACAAAACCGAACAC_CAGCACAAUUAAA_CACA________CACACGCAC_____GCGAACGG_ACACUUGUGUGGGUGUGUGUAAUUGUGG_GUGGCUGUGGGUG
.............(((..(((((..((((((((...............(((((((........(....)...(((....))).))))))))))))))))))))....)))... (-11.08 = -13.60 +   2.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,864,879 – 18,864,979
Length 100
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 76.92
Mean single sequence MFE -33.32
Consensus MFE -10.38
Energy contribution -11.62
Covariance contribution 1.24
Combinations/Pair 1.18
Mean z-score -2.26
Structure conservation index 0.31
SVM decision value 1.36
SVM RNA-class probability 0.946578
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18864879 100 - 22224390
CACCCACAGCCAC-CCACAAUUACACACACCCACACAAGUGU-CCGUUCGC-----GUGCGUGUGU----GUGUGUG-UUUAAUUGUGCUG-GUGUUCGGUUUUGUUUGUGCA
.(((....((((.-.((((((((.((((((.((((((...(.-.((....)-----)..).)))))----).)))))-).)))))))).))-))....)))............ ( -36.60)
>DroSec_CAF1 101490 96 - 1
CACCCACAGCCAC-CCACAAUUACACACACCCACACAAGUGU-CCGUUCGC-----GUGCGUGUG--------UGUG-UUUAAUUGUGCUG-GUGUUCGGUUUUGUUUGUGCA
.(((....((((.-.((((((((.((((((.(((.((.(((.-.....)))-----.)).))).)--------))))-).)))))))).))-))....)))............ ( -33.00)
>DroSim_CAF1 96575 96 - 1
CACCCACAGCCAC-CCACAAUUACACACACCCACACAAGUGU-CCGUUCGC-----GUGCGUGUG--------UGUG-UUUAAUUGUGCUG-GUGUUCGGUUUUGUUUGUGCA
.(((....((((.-.((((((((.((((((.(((.((.(((.-.....)))-----.)).))).)--------))))-).)))))))).))-))....)))............ ( -33.00)
>DroEre_CAF1 102242 96 - 1
CGCCCACCGCCGC-CCACAAUUACACACACUCACAGAAGUGU-CCGUUCGC-----GUGCGUGUG--------UGUG-UUUAAUUGUGCUG-GUGUUCGGUUUUGUUUGUGCA
.....((((.(((-(((((((((.((((((.(((....(((.-.....)))-----....))).)--------))))-).))))))))..)-)))..))))............ ( -33.10)
>DroPer_CAF1 143201 105 - 1
CACUCACACAUACCCCACACUC--------GCAUACUCGUGCCCCACCUGUGUUGCAUCUGGGUGUGUGCAUGGAUGCCUUAAAUGGGCCGAGGGUUCGGUUUUGUUUGUGUA
(((..(((...(((..((.(((--------(.....(((((((.(((((...........))))).).))))))..((((.....)))))))).))..)))..)))..))).. ( -30.90)
>consensus
CACCCACAGCCAC_CCACAAUUACACACACCCACACAAGUGU_CCGUUCGC_____GUGCGUGUG________UGUG_UUUAAUUGUGCUG_GUGUUCGGUUUUGUUUGUGCA
....(((((.((...((((......(((((.(((....(((.......))).....))).)))))........))))....(((((..(.....)..))))).)).))))).. (-10.38 = -11.62 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:33 2006