Locus 4434

Sequence ID	3R_DroMel_CAF1
Location	11,707,126 – 11,707,228
Length	102
Max. P	0.811058

overview

Window 7

Location	11,707,126 – 11,707,228
Length	102
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	84.54
Mean single sequence MFE	-36.27
Consensus MFE	-24.73
Energy contribution	-26.15
Covariance contribution	1.42
Combinations/Pair	1.29
Mean z-score	-2.87
Structure conservation index	0.68
SVM decision value	0.28
SVM RNA-class probability	0.666132
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11707126 102 + 27905053
AGUUAAUGAGGUUUACAGUUUGCUCCUCGCUG----AAAUUGCGAACGGUUGCAUGCAGCU-------GGAACUUUUGUUGCCACAACAUGGCAGCUCGGAGCACAAAGUAAU
............((((..(.((((((((((..----.....)))).((((((....)))))-------)........(((((((.....)))))))..)))))).)..)))). ( -33.70)
>DroPse_CAF1 49248 109 + 1
AGUUAAUGAGGUUUACAGUGCUCUCUCCUCAGCUCCAUGCUGCCGGCAGUUGCAUGUAGUUCUGUGUGGAUAAUUUUGUUGCCACAACACGACGGUCUGGAACUCAAAA----
......((((...((((.(((...((((.((((.....))))..)).))..)))))))(((.(((((((.((((...)))))))).))).))).........))))...---- ( -27.90)
>DroSec_CAF1 44474 102 + 1
AGUUAAUGAGGUUUACAGUGUGCUCCUCGCUG----AAAUUGCGAAAGGUUGCAUGCAGCU-------GGAACUUUUGUUGCCACAACAUGGCAGCUCGGAGCACAAAGUGAU
............((((..((((((((..((((----....(((((....)))))..)))).-------.........(((((((.....)))))))..))))))))..)))). ( -38.30)
>DroSim_CAF1 46120 102 + 1
AGUUAAUGAGGUUUACAGUGUGCUCCUCGCUG----AAAUUGCGAACGGUUGCAUGCAGCU-------GGAACUUUUGUUGCCACAACAUGGCAGCUCGGAGCACAAUGUAAU
............(((((.((((((((((((..----.....)))).((((((....)))))-------)........(((((((.....)))))))..)))))))).))))). ( -40.90)
>DroEre_CAF1 44423 102 + 1
AGUUAAUGAGGUUUACAGUGCGCUCCUCGCUG----AAAUUGUGAGCGGUUGCAUGCAGCU-------GGAACUUUUGUUGCCACAACAUGGCAGCUCGGAGCACAAAGUAAU
............((((..((.(((((((((..----.....)))).((((((....)))))-------)........(((((((.....)))))))..))))).))..)))). ( -33.60)
>DroYak_CAF1 44714 102 + 1
AGUUAAUGAGGUUUACAGUGUGCUCCUCGCUG----AAAUUGCGAGCGGUUGCAUGCAGCU-------GCAACUUUUGUUGCCACAACAUGGCAGCUCGGAGCACAAAGUAAU
............((((..((((((((((((..----.....))))(((((((....)))))-------)).......(((((((.....)))))))..))))))))..)))). ( -43.20)
>consensus
AGUUAAUGAGGUUUACAGUGUGCUCCUCGCUG____AAAUUGCGAACGGUUGCAUGCAGCU_______GGAACUUUUGUUGCCACAACAUGGCAGCUCGGAGCACAAAGUAAU
............((((..((((((((..((((.....(((((....))))).....)))).................(((((((.....)))))))..))))))))..)))). (-24.73 = -26.15 +   1.42)

alignment

secondary structure

dotplot

Window 8

Location	11,707,126 – 11,707,228
Length	102
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	84.54
Mean single sequence MFE	-33.18
Consensus MFE	-23.70
Energy contribution	-24.73
Covariance contribution	1.03
Combinations/Pair	1.25
Mean z-score	-3.18
Structure conservation index	0.71
SVM decision value	0.65
SVM RNA-class probability	0.811058
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11707126 102 - 27905053
AUUACUUUGUGCUCCGAGCUGCCAUGUUGUGGCAACAAAAGUUCC-------AGCUGCAUGCAACCGUUCGCAAUUU----CAGCGAGGAGCAAACUGUAAACCUCAUUAACU
.((((....((((((..(((((...((((..((.......))..)-------))).))).))......((((.....----..))))))))))....))))............ ( -30.00)
>DroPse_CAF1 49248 109 - 1
----UUUUGAGUUCCAGACCGUCGUGUUGUGGCAACAAAAUUAUCCACACAGAACUACAUGCAACUGCCGGCAGCAUGGAGCUGAGGAGAGAGCACUGUAAACCUCAUUAACU
----.....(((((((..(.(((((((.((((............))))))).........((....)))))).)..)))))))(((((.((....)).)...))))....... ( -24.00)
>DroSec_CAF1 44474 102 - 1
AUCACUUUGUGCUCCGAGCUGCCAUGUUGUGGCAACAAAAGUUCC-------AGCUGCAUGCAACCUUUCGCAAUUU----CAGCGAGGAGCACACUGUAAACCUCAUUAACU
...((..((((((((..(((((...((((..((.......))..)-------))).))).))......((((.....----..))))))))))))..)).............. ( -32.30)
>DroSim_CAF1 46120 102 - 1
AUUACAUUGUGCUCCGAGCUGCCAUGUUGUGGCAACAAAAGUUCC-------AGCUGCAUGCAACCGUUCGCAAUUU----CAGCGAGGAGCACACUGUAAACCUCAUUAACU
.(((((.((((((((..(((((...((((..((.......))..)-------))).))).))......((((.....----..)))))))))))).)))))............ ( -35.90)
>DroEre_CAF1 44423 102 - 1
AUUACUUUGUGCUCCGAGCUGCCAUGUUGUGGCAACAAAAGUUCC-------AGCUGCAUGCAACCGCUCACAAUUU----CAGCGAGGAGCGCACUGUAAACCUCAUUAACU
.((((..((((((((..((((....(((((((((((....)))..-------.((.....))....)).))))))..----))))..))))))))..))))............ ( -36.20)
>DroYak_CAF1 44714 102 - 1
AUUACUUUGUGCUCCGAGCUGCCAUGUUGUGGCAACAAAAGUUGC-------AGCUGCAUGCAACCGCUCGCAAUUU----CAGCGAGGAGCACACUGUAAACCUCAUUAACU
.((((..((((((((((((((((((...))))))......(((((-------(......)))))).))))((.....----..))..))))))))..))))............ ( -40.70)
>consensus
AUUACUUUGUGCUCCGAGCUGCCAUGUUGUGGCAACAAAAGUUCC_______AGCUGCAUGCAACCGCUCGCAAUUU____CAGCGAGGAGCACACUGUAAACCUCAUUAACU
.((((..((((((((..((((....((((((....).................((.....))........)))))......))))..))))))))..))))............ (-23.70 = -24.73 +   1.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:10 2006