Locus 7199

Sequence ID	3L_DroMel_CAF1
Location	19,315,118 – 19,315,217
Length	99
Max. P	0.989881

overview

Window 2

Location	19,315,118 – 19,315,217
Length	99
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	66.54
Mean single sequence MFE	-33.98
Consensus MFE	-16.48
Energy contribution	-16.81
Covariance contribution	0.34
Combinations/Pair	1.27
Mean z-score	-2.33
Structure conservation index	0.48
SVM decision value	2.19
SVM RNA-class probability	0.989881
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19315118 99 + 23771897
-----------------CUUGGUUGUGAUGCCAAACGCAGCCGGAAGGUAGGCUACGGUUUUUAUUGCU---CUUCCGGCGGCGAAGAUAAA-AUGUUGCCUACUUUUAGGCUGCUGCAA
-----------------.(((((......)))))..((((((.((((((((((.((((((((..(((((---.....)))))..)))))...-.))).)))))))))).))))))..... ( -40.80)
>DroPse_CAF1 85753 110 + 1
UUUAUUCGAGCUUAAUACUUAGGAGUGG--C---UUACAUCCCGAAAGUAUGCCACACUUCUCAUUGGAGCCAUGCUGUUUUUGA--GUAAA-CCAUUGCCUACUUUUCGGAGGC-ACA-
((((((((((...((((....((.((((--(---.(((.........))).))))).((((.....))))))....)))))))))--)))))-....(((((.((....))))))-)..- ( -25.80)
>DroSec_CAF1 148888 99 + 1
-----------------CUUGGUUGUGAUGCCAAACGCAGCCGGAAGGUAGGCUACGGUUUUUAUUGCU---CUGCCGGCGGCGAAGCUAAA-GCGUUGCCUACUUUUAGGCUGCUGCAA
-----------------.(((((......)))))..((((((.((((((((((.(((.(((.....(((---.((((...)))).))).)))-.))).)))))))))).))))))..... ( -45.70)
>DroSim_CAF1 165554 99 + 1
-----------------AUUGAUUGUGAUGCCAAACGCAGCCGGAAGGUAGGCUACGGUUUUUAUUGGU---CUGCCGGCGGCGAAGCUAAA-GUGUUGCCUACUUUUAGGCUGCUGCAA
-----------------...........(((.....((((((.((((((((((.(((.(((...((.(.---(((....)))).))...)))-.))).)))))))))).)))))).))). ( -37.40)
>DroEre_CAF1 148622 98 + 1
-----------------CUUCGUUGUGAUGCCCAAGACAGCCCAAAGGUAGGCUACUGUUUCGAUUGGU---CUGCCGUCGGCGAGCAUAAA-GUAUUGCCUACUUUUAGGCAGC-GCAA
-----------------.....(((((.((((.((((.........(((((((((..........))))---)))))((.(((((((.....-)).))))).)))))).)))).)-)))) ( -30.30)
>DroAna_CAF1 131515 87 + 1
-----------------UUUCGUUGUGAUAGCAAACGAAGCCUAAAGGUAGGCAACUGUUUUCGUU--------------GGCAAAGCUACAGGAAUUGCAUAUUUUCCGGCUG--GCGA
-----------------.((((((((....)).))))))(((((....)))))........((((.--------------.((.........((((.........)))).))..--)))) ( -23.90)
>consensus
_________________CUUGGUUGUGAUGCCAAACGCAGCCGGAAGGUAGGCUACGGUUUUUAUUGGU___CUGCCGGCGGCGAAGCUAAA_GUAUUGCCUACUUUUAGGCUGC_GCAA
.....................................(((((.((((((((((.............................................)))))))))).)))))...... (-16.48 = -16.81 +   0.34)

alignment

secondary structure

dotplot

Window 3

Location	19,315,118 – 19,315,217
Length	99
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	66.54
Mean single sequence MFE	-27.25
Consensus MFE	-14.22
Energy contribution	-14.70
Covariance contribution	0.47
Combinations/Pair	1.19
Mean z-score	-1.62
Structure conservation index	0.52
SVM decision value	0.83
SVM RNA-class probability	0.862614
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19315118 99 - 23771897
UUGCAGCAGCCUAAAAGUAGGCAACAU-UUUAUCUUCGCCGCCGGAAG---AGCAAUAAAAACCGUAGCCUACCUUCCGGCUGCGUUUGGCAUCACAACCAAG-----------------
.....((((((..((.((((((.((.(-(((((((((.......))))---)....)))))...)).)))))).))..))))))..((((........)))).----------------- ( -29.60)
>DroPse_CAF1 85753 110 - 1
-UGU-GCCUCCGAAAAGUAGGCAAUGG-UUUAC--UCAAAAACAGCAUGGCUCCAAUGAGAAGUGUGGCAUACUUUCGGGAUGUAA---G--CCACUCCUAAGUAUUAAGCUCGAAUAAA
-(((-(((.......(((((((....)-)))))--)........((((..(((....)))..))))))))))..((((((...(((---.--..(((....))).)))..)))))).... ( -26.10)
>DroSec_CAF1 148888 99 - 1
UUGCAGCAGCCUAAAAGUAGGCAACGC-UUUAGCUUCGCCGCCGGCAG---AGCAAUAAAAACCGUAGCCUACCUUCCGGCUGCGUUUGGCAUCACAACCAAG-----------------
.....((((((..((.((((((.(((.-(((((((..(((...)))..---)))..))))...))).)))))).))..))))))..((((........)))).----------------- ( -35.80)
>DroSim_CAF1 165554 99 - 1
UUGCAGCAGCCUAAAAGUAGGCAACAC-UUUAGCUUCGCCGCCGGCAG---ACCAAUAAAAACCGUAGCCUACCUUCCGGCUGCGUUUGGCAUCACAAUCAAU-----------------
.(((.((((((..((.((((((.((..-....((......)).((...---.))..........)).)))))).))..)))))).....)))...........----------------- ( -28.50)
>DroEre_CAF1 148622 98 - 1
UUGC-GCUGCCUAAAAGUAGGCAAUAC-UUUAUGCUCGCCGACGGCAG---ACCAAUCGAAACAGUAGCCUACCUUUGGGCUGUCUUGGGCAUCACAACGAAG-----------------
.(((-.(.(((((((.((((((..(((-(...(((.((....)))))(---(....)).....)))))))))).)))))))......).)))...........----------------- ( -26.90)
>DroAna_CAF1 131515 87 - 1
UCGC--CAGCCGGAAAAUAUGCAAUUCCUGUAGCUUUGCC--------------AACGAAAACAGUUGCCUACCUUUAGGCUUCGUUUGCUAUCACAACGAAA-----------------
((((--..((.((((.........)))).)).))...((.--------------((((((.......(((((....))))))))))).)).........))..----------------- ( -16.61)
>consensus
UUGC_GCAGCCUAAAAGUAGGCAACAC_UUUAGCUUCGCCGCCGGCAG___ACCAAUAAAAACCGUAGCCUACCUUCCGGCUGCGUUUGGCAUCACAACCAAG_________________
.....((((((..((.((((((.((.......................................)).)))))).))..)))))).................................... (-14.22 = -14.70 +   0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:39 2006