Locus 2658

Sequence ID	2R_DroMel_CAF1
Location	9,384,029 – 9,384,132
Length	103
Max. P	0.954666

overview

Window 1

Location	9,384,029 – 9,384,132
Length	103
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	80.20
Mean single sequence MFE	-33.92
Consensus MFE	-28.20
Energy contribution	-29.23
Covariance contribution	1.03
Combinations/Pair	1.04
Mean z-score	-2.26
Structure conservation index	0.83
SVM decision value	1.33
SVM RNA-class probability	0.943319
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9384029 103 + 20766785
UCCGUUGCAGAUUCAAUUUGCUGAUUGAUUUACCUUGAUGAUGGGACCCUGUCCACUCAUAUAUGGGGGCAAGUUGGAGCUGCCGCCAUUGUGGGC---AUGGGGU
((((((((((..((((((....))))))......))).))))))).((((((((((......((((.((((.((....)))))).)))).))))))---).))).. ( -37.50)
>DroPse_CAF1 5749 85 + 1
-------------CAGUU-----UUUGAUUUACCUUGAUGAUGGGACCCUGUCCACUCAUAUAUGGCGGCAAGUUGGAGCUGCCGCCAUUGUGGGC---AUGGGGU
-------------.....-----.........(((.......))).((((((((((......(((((((((.((....))))))))))).))))))---).))).. ( -35.20)
>DroEre_CAF1 6286 102 + 1
UCUGUUGCAGAUGCUAU-UGCUGAUUGAUUUACCUUGAUGAUGGGACCCUGUCCACUCAUAUAUGGGGGCAAGUUGGAGCUGCCGCCAUUGUGGGC---AUGGGGU
((.(((((((......)-))).))).))....(((.......))).((((((((((......((((.((((.((....)))))).)))).))))))---).))).. ( -33.30)
>DroWil_CAF1 8304 92 + 1
UUG------------GUUUUUU--GUGAUUUACCUUUAUGAUGGGACCCUGUCCACUCAUAUAUGGCGGCAAGUUGCCGCUGCCGCCAUUUUGGCCAGAAUUGGGU
(((------------(((....--............(((((..((((...))))..))))).(((((((((.((....)))))))))))...))))))........ ( -28.40)
>DroAna_CAF1 5853 103 + 1
UUGAUUUCCCUUGAGAUUGGCUGUUUGAUUUACCUUGAUGAUGGGACCCUGUCCACUCAUGUAUGGCGGCAAGUUGGAGCUGCCGCCAUUCUGGGC---AUUGGGU
(..(((((....)))))..).............((..(((...((((...)))).((((.(.(((((((((.((....))))))))))).))))))---))..)). ( -33.90)
>DroPer_CAF1 7665 85 + 1
-------------CAGUU-----UUUGAUUUACCUUGAUGAUGGGACCCUGUCCACUCAUAUAUGGCGGCAAGUUGGAGCUGCCGCCAUUGUGGGC---AUGGGGU
-------------.....-----.........(((.......))).((((((((((......(((((((((.((....))))))))))).))))))---).))).. ( -35.20)
>consensus
U____________CAAUUUGCU_UUUGAUUUACCUUGAUGAUGGGACCCUGUCCACUCAUAUAUGGCGGCAAGUUGGAGCUGCCGCCAUUGUGGGC___AUGGGGU
................................(((.......)))(((((((...((((((.(((((((((.((....)))))))))))))))))....))))))) (-28.20 = -29.23 +   1.03)

alignment

secondary structure

dotplot

Window 2

Location	9,384,029 – 9,384,132
Length	103
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	80.20
Mean single sequence MFE	-26.63
Consensus MFE	-22.25
Energy contribution	-22.58
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.45
Structure conservation index	0.84
SVM decision value	1.45
SVM RNA-class probability	0.954666
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9384029 103 - 20766785
ACCCCAU---GCCCACAAUGGCGGCAGCUCCAACUUGCCCCCAUAUAUGAGUGGACAGGGUCCCAUCAUCAAGGUAAAUCAAUCAGCAAAUUGAAUCUGCAACGGA
...((.(---(((....((((.(((((.......))))).))))..((((..((((...))))..))))...))))..(((((......))))).........)). ( -23.80)
>DroPse_CAF1 5749 85 - 1
ACCCCAU---GCCCACAAUGGCGGCAGCUCCAACUUGCCGCCAUAUAUGAGUGGACAGGGUCCCAUCAUCAAGGUAAAUCAAA-----AACUG-------------
......(---(((....((((((((((.......))))))))))..((((..((((...))))..))))...)))).......-----.....------------- ( -26.10)
>DroEre_CAF1 6286 102 - 1
ACCCCAU---GCCCACAAUGGCGGCAGCUCCAACUUGCCCCCAUAUAUGAGUGGACAGGGUCCCAUCAUCAAGGUAAAUCAAUCAGCA-AUAGCAUCUGCAACAGA
......(---(((....((((.(((((.......))))).))))..((((..((((...))))..))))...)))).........(((-........)))...... ( -22.10)
>DroWil_CAF1 8304 92 - 1
ACCCAAUUCUGGCCAAAAUGGCGGCAGCGGCAACUUGCCGCCAUAUAUGAGUGGACAGGGUCCCAUCAUAAAGGUAAAUCAC--AAAAAAC------------CAA
...........(((...((((((((((.(....))))))))))).(((((..((((...))))..)))))..))).......--.......------------... ( -31.40)
>DroAna_CAF1 5853 103 - 1
ACCCAAU---GCCCAGAAUGGCGGCAGCUCCAACUUGCCGCCAUACAUGAGUGGACAGGGUCCCAUCAUCAAGGUAAAUCAAACAGCCAAUCUCAAGGGAAAUCAA
.(((...---.....(.((((((((((.......)))))))))).).((((.((((...)))).........(((..........)))...)))).)))....... ( -30.30)
>DroPer_CAF1 7665 85 - 1
ACCCCAU---GCCCACAAUGGCGGCAGCUCCAACUUGCCGCCAUAUAUGAGUGGACAGGGUCCCAUCAUCAAGGUAAAUCAAA-----AACUG-------------
......(---(((....((((((((((.......))))))))))..((((..((((...))))..))))...)))).......-----.....------------- ( -26.10)
>consensus
ACCCCAU___GCCCACAAUGGCGGCAGCUCCAACUUGCCGCCAUAUAUGAGUGGACAGGGUCCCAUCAUCAAGGUAAAUCAAA_AGCAAACUG____________A
(((..............((((((((((.......))))))))))..((((..((((...))))..))))...)))............................... (-22.25 = -22.58 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:33 2006