Locus 5432

Sequence ID	3L_DroMel_CAF1
Location	14,890,648 – 14,890,751
Length	103
Max. P	0.835481

overview

Window 7

Location	14,890,648 – 14,890,751
Length	103
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	80.49
Mean single sequence MFE	-27.98
Consensus MFE	-5.10
Energy contribution	-7.02
Covariance contribution	1.92
Combinations/Pair	1.13
Mean z-score	-2.45
Structure conservation index	0.18
SVM decision value	0.73
SVM RNA-class probability	0.835481
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14890648 103 + 23771897
AAACUGUUUGCAAAAUGAAUUUAUUAGUUAUGAGAUCA------CAAGGUCUGUGAAAGGCUCUUAAGACAACUAUCUGC-CAUAUAGGCUGUUCAACUUAAUUGCACAC----
.....((.(((((..(((((......(((.((((((((------((.....))))).....))))).)))........((-(.....))).)))))......))))).))---- ( -18.30)
>DroSec_CAF1 72593 105 + 1
AAACGGUUUGCAAAUUGAAUUAAUUAGUUAUGAGAUCACGCCCACAAGGGCUGUGAAAGGCUCUGAAGACAAC----UGC-CAAAUAGGCUGUUCAACUUAAUUGCACAC----
.....((.(((((.((((........(((..(((.((((((((....)))).))))....)))....)))(((----.((-(.....))).)))....))))))))).))---- ( -25.70)
>DroSim_CAF1 68590 105 + 1
AAACGGUUUGCAAAUUGAAUUAAUUAGUUAUGAGAUCACGCCCACAAGGGCUGUGAAAGGCUCUGAAGACAAC----UGC-CAAAUAGGCUGUUCAACUUAAUUGCACAC----
.....((.(((((.((((........(((..(((.((((((((....)))).))))....)))....)))(((----.((-(.....))).)))....))))))))).))---- ( -25.70)
>DroEre_CAF1 69203 105 + 1
AAACUGUGUGCAAAAUGAAUCAGUUAG---UGAGAUAACACUCACAAGU-----GCAUGGCUAUUGAGACAAC-AUCUGCCCAAGUGGGCUGUUCAACCUAAUUGCACACCAGU
..(((((((((((..((..(((((..(---((((......))))).(((-----.....))))))))..))..-....((((....))))............))))))).)))) ( -30.50)
>DroYak_CAF1 65126 110 + 1
AAACUGUGUGCAAAAUGAAUUAAUUAGUUAUGAGAUAGCACUCACAAGUGCUGUGCAUGACUAUUAAGACAACUGUCUGCACAAGUAGGCUGUUCAACUUAAGUGCACAC----
.....(((((((............((((((((..((((((((....)))))))).))))))))(((((..(((.((((((....)))))).)))...))))).)))))))---- ( -39.70)
>consensus
AAACUGUUUGCAAAAUGAAUUAAUUAGUUAUGAGAUCACACCCACAAGGGCUGUGAAAGGCUCUUAAGACAAC__UCUGC_CAAAUAGGCUGUUCAACUUAAUUGCACAC____
.....((.(((((.............(((.(((((.......((((.....))))......))))).)))...............((((........)))).))))).)).... ( -5.10 =  -7.02 +   1.92)

alignment

secondary structure

dotplot

Window 8

Location	14,890,648 – 14,890,751
Length	103
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	80.49
Mean single sequence MFE	-28.90
Consensus MFE	-9.22
Energy contribution	-10.74
Covariance contribution	1.52
Combinations/Pair	1.12
Mean z-score	-2.46
Structure conservation index	0.32
SVM decision value	0.67
SVM RNA-class probability	0.818205
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14890648 103 - 23771897
----GUGUGCAAUUAAGUUGAACAGCCUAUAUG-GCAGAUAGUUGUCUUAAGAGCCUUUCACAGACCUUG------UGAUCUCAUAACUAAUAAAUUCAUUUUGCAAACAGUUU
----((.(((((......((((..(((.....)-))...(((((((.....(((....((((((...)))------))).)))))))))).....))))..))))).))..... ( -21.90)
>DroSec_CAF1 72593 105 - 1
----GUGUGCAAUUAAGUUGAACAGCCUAUUUG-GCA----GUUGUCUUCAGAGCCUUUCACAGCCCUUGUGGGCGUGAUCUCAUAACUAAUUAAUUCAAUUUGCAAACCGUUU
----((.(((((....((((((..(((.....)-))(----(((((.....(((....((((.((((....)))))))).)))))))))......))))))))))).))..... ( -30.10)
>DroSim_CAF1 68590 105 - 1
----GUGUGCAAUUAAGUUGAACAGCCUAUUUG-GCA----GUUGUCUUCAGAGCCUUUCACAGCCCUUGUGGGCGUGAUCUCAUAACUAAUUAAUUCAAUUUGCAAACCGUUU
----((.(((((....((((((..(((.....)-))(----(((((.....(((....((((.((((....)))))))).)))))))))......))))))))))).))..... ( -30.10)
>DroEre_CAF1 69203 105 - 1
ACUGGUGUGCAAUUAGGUUGAACAGCCCACUUGGGCAGAU-GUUGUCUCAAUAGCCAUGC-----ACUUGUGAGUGUUAUCUCA---CUAACUGAUUCAUUUUGCACACAGUUU
((((.(((((((...(((((....((((....))))((((-...))))...)))))....-----....(((((......))))---).............))))))))))).. ( -32.00)
>DroYak_CAF1 65126 110 - 1
----GUGUGCACUUAAGUUGAACAGCCUACUUGUGCAGACAGUUGUCUUAAUAGUCAUGCACAGCACUUGUGAGUGCUAUCUCAUAACUAAUUAAUUCAUUUUGCACACAGUUU
----(((((((....((((((...........((((((((.((((...)))).))).)))))((((((....)))))).............)))))).....)))))))..... ( -30.40)
>consensus
____GUGUGCAAUUAAGUUGAACAGCCUAUUUG_GCAGA__GUUGUCUUAAGAGCCUUUCACAGCCCUUGUGAGCGUGAUCUCAUAACUAAUUAAUUCAUUUUGCAAACAGUUU
....((.(((((...(((((((((((...............))))).....................(((((((......)))))))....))))))....))))).))..... ( -9.22 = -10.74 +   1.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:14 2006