Locus 10148

Sequence ID	3R_DroMel_CAF1
Location	27,248,610 – 27,248,707
Length	97
Max. P	0.973000

overview

Window 0

Location	27,248,610 – 27,248,707
Length	97
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	72.52
Mean single sequence MFE	-26.52
Consensus MFE	-12.35
Energy contribution	-13.32
Covariance contribution	0.96
Combinations/Pair	1.38
Mean z-score	-2.27
Structure conservation index	0.47
SVM decision value	1.70
SVM RNA-class probability	0.973000
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27248610 97 + 27905053
---------------AAUAGAAACCAUUUUCGUGCAAUUGUUUUGCAUGAGUAGUGGUUGCAAUU--GUGGCUGGUAAAACCACCAGU-AUCAUACUUUUUAAGUACGAAAAUCA
---------------....(.((((((((((((((((.....))))))))).))))))).)....--...((((((......))))))-.((.((((.....)))).))...... ( -28.50)
>DroSec_CAF1 21803 93 + 1
---------------AAUAGAAACCAUUUUCGUGCUAUUGUUUUGCAUGAGUAGUGGCUGCCAUU--GUGGCUGGUAAAACCACCAAC-----CACUUUUUGAGUACGAAAAUCA
---------------..........(((((((((((..........(((.((((...))))))).--((((.((((......)))).)-----)))......))))))))))).. ( -25.00)
>DroSim_CAF1 21907 97 + 1
---------------AAUAGAAACCAUUUUCGUGCUAUUGUUUUGCAUGAGUAGUGGUUGCCAUU--GUGGCUGGUAAAACCACCAGU-AUCAUACUUUUUGAGUACGAAAAUCA
---------------....((((((((((((((((.........))))))).)))))))....((--(((((((((......))))))-.(((.......))).)))))...)). ( -26.10)
>DroEre_CAF1 22002 97 + 1
---------------AACAGAAACCAUUUUCCUGCAAUUGCUUUGCAUCAGUAGUGGUUGCCAUU--GUGGCUAGUAAAACUACCAGU-AUCAUACUUUUUGAGUACGAAAAUUA
---------------.((((.(((((((....(((((.....))))).....)))))))....))--))((.(((.....)))))...-.((.(((((...))))).))...... ( -18.40)
>DroYak_CAF1 22541 95 + 1
---------------AACAGAAACCAUUUUCGUGCUAUUGUUUUGCAUCAGCAGUGGUUGCCAUU--GCGGCUGUUAGAACAUUCAGU-AUCAUCCUAUUUGAGUACAAAAAU--
---------------....((((....))))((((...(((((((((.(.(((((((...)))))--)).).)).)))))))......-.(((.......)))))))......-- ( -20.40)
>DroPer_CAF1 28302 110 + 1
GCUUAUUGUUUUGUCAACAGAGUCU-UCUCUGUGGCAGUGCGAUACAGUGGCAGUCAUGGCCAUAAGGAGGCUAAUGAAACCAUCAGCCACCAUAGAAAUUGGCCACGAAA----
...((((((.((((((.(((((...-.))))))))))).))))))..(((((..((((((((....)).((((.(((....))).)))).)))).)).....)))))....---- ( -40.70)
>consensus
_______________AACAGAAACCAUUUUCGUGCUAUUGUUUUGCAUGAGUAGUGGUUGCCAUU__GUGGCUGGUAAAACCACCAGU_AUCAUACUUUUUGAGUACGAAAAUCA
.........................((((((((((((((((((.....)))))))...............((((((......))))))..............))))))))))).. (-12.35 = -13.32 +   0.96)

alignment

secondary structure

dotplot

Window 1

Location	27,248,610 – 27,248,707
Length	97
Sequences	6
Columns	115
Reading direction	reverse
Mean pairwise identity	72.52
Mean single sequence MFE	-23.98
Consensus MFE	-11.12
Energy contribution	-11.57
Covariance contribution	0.45
Combinations/Pair	1.50
Mean z-score	-2.00
Structure conservation index	0.46
SVM decision value	0.98
SVM RNA-class probability	0.893939
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27248610 97 - 27905053
UGAUUUUCGUACUUAAAAAGUAUGAU-ACUGGUGGUUUUACCAGCCAC--AAUUGCAACCACUACUCAUGCAAAACAAUUGCACGAAAAUGGUUUCUAUU---------------
......(((((((.....))))))).-....((((((.....))))))--....(.(((((....((.(((((.....))))).))...))))).)....--------------- ( -21.70)
>DroSec_CAF1 21803 93 - 1
UGAUUUUCGUACUCAAAAAGUG-----GUUGGUGGUUUUACCAGCCAC--AAUGGCAGCCACUACUCAUGCAAAACAAUAGCACGAAAAUGGUUUCUAUU---------------
...................(((-----(((((((....))))))))))--(((((.(((((....((.(((.........))).))...))))).)))))--------------- ( -25.70)
>DroSim_CAF1 21907 97 - 1
UGAUUUUCGUACUCAAAAAGUAUGAU-ACUGGUGGUUUUACCAGCCAC--AAUGGCAACCACUACUCAUGCAAAACAAUAGCACGAAAAUGGUUUCUAUU---------------
..((((((((.((......((((((.-..((((((((......(((..--...))))))))))).))))))........)).))))))))..........--------------- ( -24.64)
>DroEre_CAF1 22002 97 - 1
UAAUUUUCGUACUCAAAAAGUAUGAU-ACUGGUAGUUUUACUAGCCAC--AAUGGCAACCACUACUGAUGCAAAGCAAUUGCAGGAAAAUGGUUUCUGUU---------------
......(((((((.....))))))).-.((((((....))))))....--(((((.(((((.......(((((.....)))))......))))).)))))--------------- ( -20.42)
>DroYak_CAF1 22541 95 - 1
--AUUUUUGUACUCAAAUAGGAUGAU-ACUGAAUGUUCUAACAGCCGC--AAUGGCAACCACUGCUGAUGCAAAACAAUAGCACGAAAAUGGUUUCUGUU---------------
--..(((((((.(((..((((((...-.......))))))......((--(.(((...))).)))))))))))))....((((.((((....))))))))--------------- ( -15.60)
>DroPer_CAF1 28302 110 - 1
----UUUCGUGGCCAAUUUCUAUGGUGGCUGAUGGUUUCAUUAGCCUCCUUAUGGCCAUGACUGCCACUGUAUCGCACUGCCACAGAGA-AGACUCUGUUGACAAAACAAUAAGC
----..(((((((((.....((.((.((((((((....)))))))).)).))))))))))).(((.........))).(((.((((((.-...)))))).).))........... ( -35.80)
>consensus
UGAUUUUCGUACUCAAAAAGUAUGAU_ACUGGUGGUUUUACCAGCCAC__AAUGGCAACCACUACUCAUGCAAAACAAUAGCACGAAAAUGGUUUCUAUU_______________
......(((((((.....)))))))...((((((....))))))......(((((.(((((.......(((.........)))......))))).)))))............... (-11.12 = -11.57 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:49:55 2006