Locus 589

Sequence ID	3L_DroMel_CAF1
Location	1,697,561 – 1,697,672
Length	111
Max. P	0.903967

overview

Window 8

Location	1,697,561 – 1,697,672
Length	111
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	75.48
Mean single sequence MFE	-47.12
Consensus MFE	-16.83
Energy contribution	-16.78
Covariance contribution	-0.05
Combinations/Pair	1.55
Mean z-score	-2.56
Structure conservation index	0.36
SVM decision value	1.03
SVM RNA-class probability	0.903967
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1697561 111 + 23771897
UGCCUGCUGCCUGCCCCUUGGGAUUCUGCCCC-AGCAGG-CAAG--AG--CGGG--CUCCAGGAACACCCCCUGCUGGGAGUCCAAUGCGGAUGUCUUCCCCCGCCCAUGUGGCAACAU
((((.(((((((((....((((.......)))-))))))-)...--))--)(((--(..((((.......))))..((((((((.....))))....))))..))))....)))).... ( -44.60)
>DroVir_CAF1 74919 111 + 1
UGCCAGCUGCCUGCCCCUGGGCAUAUUGCCCA---CGGG-UGGG--GGCAGCAG--CUCCAAGCCGACGCCCUGCUGGGAGUCCAAUGCGGACAUCUUUCCGCGACCCUGCGGCAACAU
((((.(((((((.(((((((((.....)))))---.)))-.).)--)))))).(--(........(((.(((....))).)))...((((((......)))))).....)))))).... ( -57.50)
>DroPse_CAF1 66630 111 + 1
UGCCUGCUGCCUGCCGCUGGGAAUCCUCCCGC-AGGCGG-CUCG--AA--GCGG--CUCCCGGCACACUCCAUGCUGGGAAUCCAACGCCGACGUCUUUCCCCGUCCCUGCGGCAAUAU
((((.(((((((((....((((....))))))-))))))-)...--..--((((--(((((((((.......)))))))).......)))((((........))))...)))))).... ( -50.41)
>DroWil_CAF1 72829 114 + 1
UGCCUGCUGCCUGCCACUGGGUAUACUCCCACCAGCUGGACGUG-GGU--CCAG--CUCUAGACAUACUCCCUGCUGGGAGUCCAAUGCCGAUGUUUUUCCGCGUCCAUGUGGCAAUAU
...........((((((((((......)))).....((((((((-((.--..((--(....(.(((((((((....))))))...))).)...)))..)))))))))).)))))).... ( -43.80)
>DroAna_CAF1 57762 114 + 1
CACCUGCUGCUUGCCUUUGGGUAUCCUGCCUC-AACAGG-CUAGG-AA--UGGGUCCUCCAGAAACACCCCCUGUUGGGAGUCCAAUGCAGACGUCUUUCCCCGACCUUGCGGCAACAU
....((((((..(...(((((..((((((((.-...)))-).)))-).--((((..((((...((((.....)))).))))))))...............))))).)..)))))).... ( -36.00)
>DroPer_CAF1 66779 111 + 1
UGCCUGCUGCCUGCCGCUGGGAAUCCUCCCGC-AGGCGG-CUCG--AA--GCGG--CUCCCGGCACACUCCAUGCUGGGAAUCCAACGCCGACGUCUUUCCCCGUCCCUGCGGCAAUAU
((((.(((((((((....((((....))))))-))))))-)...--..--((((--(((((((((.......)))))))).......)))((((........))))...)))))).... ( -50.41)
>consensus
UGCCUGCUGCCUGCCCCUGGGAAUCCUCCCCC_AGCAGG_CUAG__AA__GCGG__CUCCAGGCACACUCCCUGCUGGGAGUCCAAUGCCGACGUCUUUCCCCGUCCCUGCGGCAACAU
...........((((.(.((((......(((.....))).................((((.((((.......)))).)))).......................)))).).)))).... (-16.83 = -16.78 +  -0.05)

alignment

secondary structure

dotplot

Window 9

Location	1,697,561 – 1,697,672
Length	111
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	75.48
Mean single sequence MFE	-50.70
Consensus MFE	-21.76
Energy contribution	-20.43
Covariance contribution	-1.33
Combinations/Pair	1.62
Mean z-score	-2.10
Structure conservation index	0.43
SVM decision value	0.46
SVM RNA-class probability	0.746707
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1697561 111 - 23771897
AUGUUGCCACAUGGGCGGGGGAAGACAUCCGCAUUGGACUCCCAGCAGGGGGUGUUCCUGGAG--CCCG--CU--CUUG-CCUGCU-GGGGCAGAAUCCCAAGGGGCAGGCAGCAGGCA
....((((....((((..(((((.((..((((..(((....))))).))..)).)))))...)--)))(--((--((((-(((..(-((((.....)))))..))))))).))).)))) ( -53.20)
>DroVir_CAF1 74919 111 - 1
AUGUUGCCGCAGGGUCGCGGAAAGAUGUCCGCAUUGGACUCCCAGCAGGGCGUCGGCUUGGAG--CUGCUGCC--CCCA-CCCG---UGGGCAAUAUGCCCAGGGGCAGGCAGCUGGCA
....((((.(..(((((((((......)))))....(((.(((....))).)))))))..)((--((((((((--((..-....---(((((.....))))))))))).)))))))))) ( -58.40)
>DroPse_CAF1 66630 111 - 1
AUAUUGCCGCAGGGACGGGGAAAGACGUCGGCGUUGGAUUCCCAGCAUGGAGUGUGCCGGGAG--CCGC--UU--CGAG-CCGCCU-GCGGGAGGAUUCCCAGCGGCAGGCAGCAGGCA
...((((((((((((((........))))((((((((....))))).(((((((.((.....)--))))--))--)).)-)).)))-))(((......)))...)))))((.....)). ( -50.40)
>DroWil_CAF1 72829 114 - 1
AUAUUGCCACAUGGACGCGGAAAAACAUCGGCAUUGGACUCCCAGCAGGGAGUAUGUCUAGAG--CUGG--ACC-CACGUCCAGCUGGUGGGAGUAUACCCAGUGGCAGGCAGCAGGCA
...(((((((.(((((((.((......)).)).....((((((....))))))..))))).((--((((--((.-...))))))))..((((......)))))))))))((.....)). ( -49.80)
>DroAna_CAF1 57762 114 - 1
AUGUUGCCGCAAGGUCGGGGAAAGACGUCUGCAUUGGACUCCCAACAGGGGGUGUUUCUGGAGGACCCA--UU-CCUAG-CCUGUU-GAGGCAGGAUACCCAAAGGCAAGCAGCAGGUG
.(((((((....)(((.(((......((((.((..(.((((((....)))))).)...))..))))...--.(-(((.(-(((...-.))))))))..)))...)))..)))))).... ( -42.00)
>DroPer_CAF1 66779 111 - 1
AUAUUGCCGCAGGGACGGGGAAAGACGUCGGCGUUGGAUUCCCAGCAUGGAGUGUGCCGGGAG--CCGC--UU--CGAG-CCGCCU-GCGGGAGGAUUCCCAGCGGCAGGCAGCAGGCA
...((((((((((((((........))))((((((((....))))).(((((((.((.....)--))))--))--)).)-)).)))-))(((......)))...)))))((.....)). ( -50.40)
>consensus
AUAUUGCCGCAGGGACGGGGAAAGACGUCGGCAUUGGACUCCCAGCAGGGAGUGUGCCUGGAG__CCGC__UU__CGAG_CCGGCU_GCGGCAGGAUACCCAGCGGCAGGCAGCAGGCA
...(((((.(.((((..(((.....((.......)).((((((....))))))............)))............(((.....)))......)))).).)))))((.....)). (-21.76 = -20.43 +  -1.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:02 2006