Locus 8194

Sequence ID	X_DroMel_CAF1
Location	20,363,757 – 20,363,862
Length	105
Max. P	0.967089

overview

Window 8

Location	20,363,757 – 20,363,862
Length	105
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	75.61
Mean single sequence MFE	-27.47
Consensus MFE	-13.45
Energy contribution	-15.82
Covariance contribution	2.36
Combinations/Pair	1.05
Mean z-score	-2.10
Structure conservation index	0.49
SVM decision value	0.89
SVM RNA-class probability	0.876356
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20363757 105 + 22224390
AUCUCCCACUAGAACCCACUAGAACCCAUGCCACUUCGGCCAUGGCAACCCAAAGGGUCAUGGCAAAUCUAUAAAUUCGCAGCAUAAUUUGCAGCUGCCGCGGCA
........((((......))))......((((......((((((((..((....))))))))))..............(((((..........)))))...)))) ( -29.50)
>DroPse_CAF1 32694 79 + 1
--CUCCAACUUGGUCGC------------------UGGACCAUGGCAACCCAUAGGGACAUAGAGGAUCUAUAAAUUCACAGCAUAAUUGGCAGCUGCU------
--(((((((.(((((..------------------..))))).)((..(((...)))..((((.....)))).........))....)))).)).....------ ( -16.20)
>DroSec_CAF1 11141 105 + 1
AUCUCCCACUAGAACCCACUAGAACCCCUGCCACUUCGGCCAUGGAAACCCAAAGGGUCAUGGCAAAUCUAUAAAUUCGCAGCAUAAUUUGCAGCUGCCGCGGGA
........((((......))))....(((((.......((((((...((((...))))))))))..............(((((..........))))).))))). ( -31.10)
>DroSim_CAF1 11589 105 + 1
AUCUCCCACUAGAACCCACUAGAACCCAUGCCACUUCGGCCAUGGCAACCCAAAGGGUCAUGGCAAAUCUAUAAAUUCGCAGCAUAAUUUGCAGCUGCCGCGGGA
...((((.((((......)))).......((.......((((((((..((....))))))))))..............(((((..........))))).)))))) ( -31.10)
>DroEre_CAF1 10525 95 + 1
AUCUCCCACUA----------GAACCCCUGCCACUUUGGCCAUGGCAACCCAAAGGGUCGUGGCAAAUCUAUAAAUUCGCAGCAUAAUUUGCAGCUGCGGCGGGA
...........----------.....((((((......((((((((..((....))))))))))..............(((((..........))))))))))). ( -33.50)
>DroPer_CAF1 32830 84 + 1
GUCUCUCACUUGGUCCC------------------UGGACCAUGGCAACCCAUAGGGACAUAGAGGAUCUAUAAAUUCACAGCAUAAUUGGCAGCUGCUG---GA
((((((.....((((..------------------..))))((((....))))))))))((((.....))))...((((((((..........)))).))---)) ( -23.40)
>consensus
AUCUCCCACUAGAACCC____GAACCC_UGCCACUUCGGCCAUGGCAACCCAAAGGGUCAUGGCAAAUCUAUAAAUUCGCAGCAUAAUUUGCAGCUGCCGCGGGA
...((((...............................((((((...((((...))))))))))..............(((((..........)))))...)))) (-13.45 = -15.82 +   2.36)

alignment

secondary structure

dotplot

Window 9

Location	20,363,757 – 20,363,862
Length	105
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	75.61
Mean single sequence MFE	-34.43
Consensus MFE	-19.06
Energy contribution	-21.12
Covariance contribution	2.06
Combinations/Pair	1.10
Mean z-score	-2.25
Structure conservation index	0.55
SVM decision value	1.61
SVM RNA-class probability	0.967089
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20363757 105 - 22224390
UGCCGCGGCAGCUGCAAAUUAUGCUGCGAAUUUAUAGAUUUGCCAUGACCCUUUGGGUUGCCAUGGCCGAAGUGGCAUGGGUUCUAGUGGGUUCUAGUGGGAGAU
..((((.(((((..........)))))(((((((((((....(((((.((((((((.(......).)))))).)))))))..))).))))))))..))))..... ( -38.90)
>DroPse_CAF1 32694 79 - 1
------AGCAGCUGCCAAUUAUGCUGUGAAUUUAUAGAUCCUCUAUGUCCCUAUGGGUUGCCAUGGUCCA------------------GCGACCAAGUUGGAG--
------.(((((..........))))).....(((((.....)))))...((((((....))))))((((------------------((......)))))).-- ( -22.90)
>DroSec_CAF1 11141 105 - 1
UCCCGCGGCAGCUGCAAAUUAUGCUGCGAAUUUAUAGAUUUGCCAUGACCCUUUGGGUUUCCAUGGCCGAAGUGGCAGGGGUUCUAGUGGGUUCUAGUGGGAGAU
((((((.(((((..........)))))(((((((((((...(((.((.((((((((.(......).)))))).))))..)))))).))))))))..))))))... ( -40.30)
>DroSim_CAF1 11589 105 - 1
UCCCGCGGCAGCUGCAAAUUAUGCUGCGAAUUUAUAGAUUUGCCAUGACCCUUUGGGUUGCCAUGGCCGAAGUGGCAUGGGUUCUAGUGGGUUCUAGUGGGAGAU
((((((.(((((..........)))))(((((((((((....(((((.((((((((.(......).)))))).)))))))..))).))))))))..))))))... ( -43.40)
>DroEre_CAF1 10525 95 - 1
UCCCGCCGCAGCUGCAAAUUAUGCUGCGAAUUUAUAGAUUUGCCACGACCCUUUGGGUUGCCAUGGCCAAAGUGGCAGGGGUUC----------UAGUGGGAGAU
((((((((((((..........))))))......(((((((((((((((((...)))))((....))....))))))))...))----------))))))))... ( -40.00)
>DroPer_CAF1 32830 84 - 1
UC---CAGCAGCUGCCAAUUAUGCUGUGAAUUUAUAGAUCCUCUAUGUCCCUAUGGGUUGCCAUGGUCCA------------------GGGACCAAGUGAGAGAC
((---(((((...........))))).))...........((((..((((((((((....)))).....)------------------)))))......)))).. ( -21.10)
>consensus
UCCCGCGGCAGCUGCAAAUUAUGCUGCGAAUUUAUAGAUUUGCCAUGACCCUUUGGGUUGCCAUGGCCGAAGUGGCA_GGGUUC____GGGUUCUAGUGGGAGAU
((((((.(((((..........)))))..............((((((((((...))))...)))))).............................))))))... (-19.06 = -21.12 +   2.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:10 2006