Locus 5370

Sequence ID	2R_DroMel_CAF1
Location	17,348,195 – 17,348,299
Length	104
Max. P	0.906752

overview

Window 5

Location	17,348,195 – 17,348,299
Length	104
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	81.34
Mean single sequence MFE	-22.28
Consensus MFE	-15.58
Energy contribution	-15.92
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.51
Structure conservation index	0.70
SVM decision value	1.01
SVM RNA-class probability	0.899481
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17348195 104 + 20766785
CGCUUCCUCCACUUAACCCUCCGGCCC----AAGUUUUCUAUGUCAGGUACAGACUCUCUCCGUCUGAACCCUGACCCAGAUUAACCGCCCUGCCCCUCGAGGCACCC
......................(((..----..(((.(((..((((((..(((((.......)))))...))))))..)))..))).))).((((......))))... ( -25.90)
>DroSec_CAF1 64086 95 + 1
CGCUUCCUCCACUUAGCCCUCCGGCCC----AAGUUUUCUAUGUCAGGUACAGACUC--UCCGUCUGAACCCUGACCCAGAUUAGCCGCCAUGCUCCCCAA-------
..............(((....((((..----......(((..((((((..(((((..--...)))))...))))))..)))...))))....)))......------- ( -23.80)
>DroSim_CAF1 66526 95 + 1
CGCUUCCUCCACUUAACCCUCCGGCCC----AAGUUUUCUAUGUCAGGUACAGACUC--UCCGUCUGAACCCUGACCCAGAUUAACCGCCAUGCCCCCCAA-------
......................(((..----..(((.(((..((((((..(((((..--...)))))...))))))..)))..))).)))...........------- ( -22.60)
>DroEre_CAF1 62669 100 + 1
UGCUUCCUCCACUUAACCCUCCAGCCC----GAGUUUUCUAUGUCAGGUACAGACUU--UCCGUCUGAACCCUGACCCAGAUUAACCGCCCGGCCCCUCGAGGCCC--
.......................((((----(((...(((..((((((..(((((..--...)))))...))))))..)))....((....))...)))).)))..-- ( -28.10)
>DroYak_CAF1 43906 102 + 1
CGCUUCCUCCACUUAACCCUCCAGCCC----AAGUUUUCUAUGUCAGGUACAGACUU--UCCGUCUGAACCCUGACCCAGAUUAACCGCCAUGCCCCUCGAGGCCCCU
.(((((.....................----..(((.(((..((((((..(((((..--...)))))...))))))..)))..))).((...)).....))))).... ( -23.10)
>DroAna_CAF1 57126 91 + 1
---UUCCUCGAUUUUCCUCUCCAGCCCUCCAAACUUUUCUAUGUCAGGUGCAAUCUU--UGAGCCUGAACCCUGACCCAGAUACCCCGAC-----CCCCAG-------
---....(((.................................((((((.((.....--)).))))))...(((...)))......))).-----......------- ( -10.20)
>consensus
CGCUUCCUCCACUUAACCCUCCAGCCC____AAGUUUUCUAUGUCAGGUACAGACUC__UCCGUCUGAACCCUGACCCAGAUUAACCGCCAUGCCCCCCAA_______
.....................................(((..((((((..(((((.......)))))...))))))..)))........................... (-15.58 = -15.92 +   0.33)

alignment

secondary structure

dotplot

Window 6

Location	17,348,195 – 17,348,299
Length	104
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	81.34
Mean single sequence MFE	-32.88
Consensus MFE	-24.71
Energy contribution	-24.68
Covariance contribution	-0.03
Combinations/Pair	1.21
Mean z-score	-2.38
Structure conservation index	0.75
SVM decision value	1.05
SVM RNA-class probability	0.906752
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17348195 104 - 20766785
GGGUGCCUCGAGGGGCAGGGCGGUUAAUCUGGGUCAGGGUUCAGACGGAGAGAGUCUGUACCUGACAUAGAAAACUU----GGGCCGGAGGGUUAAGUGGAGGAAGCG
...(((((....)))))..((......((((.((((((...(((((.......)))))..)))))).))))..((((----((.((...)).)))))).......)). ( -37.40)
>DroSec_CAF1 64086 95 - 1
-------UUGGGGAGCAUGGCGGCUAAUCUGGGUCAGGGUUCAGACGGA--GAGUCUGUACCUGACAUAGAAAACUU----GGGCCGGAGGGCUAAGUGGAGGAAGCG
-------............((..((..((((.((((((...(((((...--..)))))..)))))).))))..((((----((.((...)).))))))...))..)). ( -34.10)
>DroSim_CAF1 66526 95 - 1
-------UUGGGGGGCAUGGCGGUUAAUCUGGGUCAGGGUUCAGACGGA--GAGUCUGUACCUGACAUAGAAAACUU----GGGCCGGAGGGUUAAGUGGAGGAAGCG
-------............((......((((.((((((...(((((...--..)))))..)))))).))))..((((----((.((...)).)))))).......)). ( -30.20)
>DroEre_CAF1 62669 100 - 1
--GGGCCUCGAGGGGCCGGGCGGUUAAUCUGGGUCAGGGUUCAGACGGA--AAGUCUGUACCUGACAUAGAAAACUC----GGGCUGGAGGGUUAAGUGGAGGAAGCA
--.((((.((((.((((....))))..((((.((((((...(((((...--..)))))..)))))).))))...)))----)))))...................... ( -38.30)
>DroYak_CAF1 43906 102 - 1
AGGGGCCUCGAGGGGCAUGGCGGUUAAUCUGGGUCAGGGUUCAGACGGA--AAGUCUGUACCUGACAUAGAAAACUU----GGGCUGGAGGGUUAAGUGGAGGAAGCG
....((((....))))...((......((((.((((((...(((((...--..)))))..)))))).))))..((((----((.(.....).)))))).......)). ( -35.40)
>DroAna_CAF1 57126 91 - 1
-------CUGGGG-----GUCGGGGUAUCUGGGUCAGGGUUCAGGCUCA--AAGAUUGCACCUGACAUAGAAAAGUUUGGAGGGCUGGAGAGGAAAAUCGAGGAA---
-------(((...-----(((((((((((((((((........))))).--.))).))).)))))).)))..............((.((........)).))...--- ( -21.90)
>consensus
_______UCGAGGGGCAUGGCGGUUAAUCUGGGUCAGGGUUCAGACGGA__AAGUCUGUACCUGACAUAGAAAACUU____GGGCCGGAGGGUUAAGUGGAGGAAGCG
..............((...........((((.((((((...(((((.......)))))..)))))).))))...(((.....((((....)))).....)))...)). (-24.71 = -24.68 +  -0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:15 2006