Locus 452

Sequence ID	2L_DroMel_CAF1
Location	1,335,514 – 1,335,651
Length	137
Max. P	0.701435

overview

Window 1

Location	1,335,514 – 1,335,615
Length	101
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.19
Mean single sequence MFE	-23.37
Consensus MFE	-14.95
Energy contribution	-15.45
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.62
Structure conservation index	0.64
SVM decision value	0.12
SVM RNA-class probability	0.592528
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1335514 101 - 22407834
CACAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUCUGCUGCGGAUGCCAUCAAUAACUUUGGCAGCAUAUUUGACUUCCUACCC--GGUUUU-----------------U
...(((((.((((.........(((((((((....))))))))).((((((((...))..(((.....)))))))))..............)))--).))))-----------------) ( -21.20)
>DroEre_CAF1 106084 101 - 1
CACAAAAAAUGGGAAAACAUUAAACAGAUUUGAGCAAAUUUGUUUUGGUGCGGGUGCCAUCAAUAACUUUGGCAGCAUAUUUGACUUGCAGCCC--AGUUGU-----------------U
.((((....((((...((...((((((((((....))))))))))..))((((((((((..........))))..((....))))))))..)))--).))))-----------------. ( -27.30)
>DroWil_CAF1 129185 120 - 1
GAAAAUAAAUGGGAAAACAUUAAACAGAUUUAAGUAAAUUUGUUUUGCUGCGUGUGCCAUCAAUAACUUUGGCAGCAUAUUUGACUUGCCAACCCCAGUGAGUACACCAUUCUGCCCUUG
..........(((........((((((((((....))))))))))...((.((((((..(((......(((((((((....)).).))))))......))))))))))).....)))... ( -27.40)
>DroYak_CAF1 96567 92 - 1
CACAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUUUGGUGCGGGUGCCAUCAAUAACUUUGGCAGCAUAUUUGACAUCCCAC----------------------------
.........(((((...((((((((((((((....))))))).)))))))..(.(((((..........))))).)..........))))).---------------------------- ( -23.30)
>DroAna_CAF1 119548 103 - 1
GACAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUUUGGUGCGUAUGCCAUCAAUAACUUUGGCAGCAUAUUUGACUUGUUACCCUCGGUUUC-----------------C
..........(((..((((..((((((((((....))))))))))..((((...(((((..........)))))))))........)))).)))........-----------------. ( -20.20)
>DroPer_CAF1 141779 99 - 1
AGAAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUUUGGUGCGUGUGCCAUCAAUAACAUUGGCAGCAUAUUUGACUUUCCACC----GCUUC-----------------C
.........((((((..((((((((((((((....))))))).))))))).((((((((..........))))).))).......))))))..----.....-----------------. ( -20.80)
>consensus
CACAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUUUGGUGCGGGUGCCAUCAAUAACUUUGGCAGCAUAUUUGACUUGCCACCC___GUUUC_________________C
.......((((......))))((((((((((....))))))))))..((((...(((((..........))))))))).......................................... (-14.95 = -15.45 +   0.50)

alignment

secondary structure

dotplot

Window 2

Location	1,335,535 – 1,335,651
Length	116
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.97
Mean single sequence MFE	-26.88
Consensus MFE	-14.95
Energy contribution	-15.45
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-1.81
Structure conservation index	0.56
SVM decision value	0.35
SVM RNA-class probability	0.701435
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1335535 116 - 22407834
AA-AGCGGUAGCUGGGGAUG--AAUCCAGUUAA-GGACGGCACAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUCUGCUGCGGAUGCCAUCAAUAACUUUGGCAGCAUAU
..-.((..((((((((....--..)))))))).-.(.(((((.....((((......)))).(((((((((....))))))))).))))))...(((((..........))))))).... ( -29.70)
>DroEre_CAF1 106105 116 - 1
AAAAGCGGUGGCUGGGAUUG---GGGCGGCUAA-GGGCGGCACAAAAAAUGGGAAAACAUUAAACAGAUUUGAGCAAAUUUGUUUUGGUGCGGGUGCCAUCAAUAACUUUGGCAGCAUAU
....((.((.(..(..((((---(((((((...-..)).((((....((((......))))((((((((((....))))))))))..))))...)))).)))))..)..).)).)).... ( -31.40)
>DroWil_CAF1 129225 104 - 1
---AGCAA-AGCUUGGCAAC--AAU----UUU------UGGAAAAUAAAUGGGAAAACAUUAAACAGAUUUAAGUAAAUUUGUUUUGCUGCGUGUGCCAUCAAUAACUUUGGCAGCAUAU
---..(((-((.(((....)--)).----)))------)).......((((......))))((((((((((....))))))))))((((((..((..........))....))))))... ( -22.00)
>DroYak_CAF1 96579 107 - 1
AAAAGCGGUGA------------AGCCGGUUAA-GGGCGGCACAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUUUGGUGCGGGUGCCAUCAAUAACUUUGGCAGCAUAU
.......(((.------------.((((((((.-.(..(((((....((((......))))((((((((((....))))))))))........)))))..)..)))))..)))..))).. ( -28.30)
>DroAna_CAF1 119571 103 - 1
-----------CUGGAGA-----A-GCAGUUAAAGGGGCGGACAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUUUGGUGCGUAUGCCAUCAAUAACUUUGGCAGCAUAU
-----------.......-----.-((.(((((((.((((.((....((((......))))((((((((((....))))))))))......)).))))........))))))).)).... ( -21.90)
>DroPer_CAF1 141798 117 - 1
AAAUGUUGU--GUGGGGAGGGAAAACCAGUUAA-GGGCGCAGAAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUUUGGUGCGUGUGCCAUCAAUAACAUUGGCAGCAUAU
..(((((((--.......((.....)).((((.-.((((((......((((......))))((((((((((....)))))))))).......)))))).....))))....))))))).. ( -28.00)
>consensus
AA_AGCGGU_GCUGGGGA_G___AGCCAGUUAA_GGGCGGCACAAAAAAUGGGAAAACAUUAAACAGAUUUAAGCAAAUUUGUUUUGGUGCGGGUGCCAUCAAUAACUUUGGCAGCAUAU
...............................................((((......))))((((((((((....))))))))))..((((...(((((..........))))))))).. (-14.95 = -15.45 +   0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:34 2006