Locus 731

Sequence ID	3L_DroMel_CAF1
Location	2,212,850 – 2,212,967
Length	117
Max. P	0.757132

overview

Window 0

Location	2,212,850 – 2,212,967
Length	117
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.68
Mean single sequence MFE	-30.38
Consensus MFE	-15.15
Energy contribution	-15.27
Covariance contribution	0.11
Combinations/Pair	1.05
Mean z-score	-2.05
Structure conservation index	0.50
SVM decision value	-0.02
SVM RNA-class probability	0.521402
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2212850 117 + 23771897
AGAGGCACAUCCUG--GCCCAUCCUGUGGCAGCCCCGGCACCUGCUGCAUCUCAAAACAAAGGCCAUUUAUUUAGAAUGGC-AGCGCAAAGCGGAAGCGCCAAGAAAAUAGACAACACCA
.........((.((--((......(((((((((...(....).)))))..............(((((((.....)))))))-..))))..((....)))))).))............... ( -31.40)
>DroVir_CAF1 288866 110 + 1
AGAAG------C---CACACAUCCUGUGGCAUGCCCGGCACCUGCUGCAUUUCCAAACAAAAGCCAUUUAUUUAGAAUGGCAAGCACAAAGCGGAAGCAGCAAGAAAAUAGGCAACAUG-
....(------(---((((.....)))))).((((.......((((((..((((........(((((((.....)))))))..((.....))))))))))))........)))).....- ( -38.76)
>DroPse_CAF1 312392 113 + 1
UGUCGUACAUCCUG-------UCCUGUGGCAGGCCCGGCACCUGCUGCAUUCCCAAACAAAGGCCAUUUAUUUAGAAUGCCAAGCGCAAAACGGAAGCGCCAAGAAAACAGACUACAACA
.((.(((....(((-------(..((..(((((.......)))))..))(((.........(((.((((.....)))))))..((((.........))))...))).))))..))).)). ( -27.80)
>DroGri_CAF1 257364 111 + 1
CGACG------CUG--CCACAUCCUGUGGCAUACCCGGCACCUGCUGCGCCUCGAAACAAAAGCCAUUUAUUUAGAAUGGCAAGCACAAAGCGGAAACACCAAGAAAAUAGACAACAUG-
(((.(------(((--((((.....))))))....((((....)))).)).)))........(((((((.....)))))))..((.....))(....).....................- ( -30.30)
>DroWil_CAF1 340660 111 + 1
AGAGG------CUG--CUACAUCCUGUGGCAUACCCGGCACCUGCUGCAUUUCAAAACAAAAGGCAUUUAUUUAGAAUGGCGAGCGCAAAACGGAAGUAGCAAGAAAAUAGACAACAAU-
.....------.((--((((.(((.((.((.....((((....))))...............(.(((((.....))))).)....))...))))).)))))).................- ( -24.60)
>DroMoj_CAF1 276460 107 + 1
AGACG------CUGUCCCACAUCCUGUGUCAUGCCCGGCACCUGCUGCAUUUCAAAACAAAAGCCAUUUAUUUAGAAUGGCAGGCGCAAAACGGAAGCAGCAACAACGUAGAC-------
..(((------.(((..........(((((......))))).((((((.((((.........(((((((.....))))))).(........)))))))))))))).)))....------- ( -29.40)
>consensus
AGACG______CUG__CCACAUCCUGUGGCAUGCCCGGCACCUGCUGCAUUUCAAAACAAAAGCCAUUUAUUUAGAAUGGCAAGCGCAAAACGGAAGCACCAAGAAAAUAGACAACAAC_
.....................(((((((.(.....((((....))))...............(((((((.....)))))))..)))))....)))......................... (-15.15 = -15.27 +   0.11)

alignment

secondary structure

dotplot

Window 1

Location	2,212,850 – 2,212,967
Length	117
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.68
Mean single sequence MFE	-37.97
Consensus MFE	-20.74
Energy contribution	-21.05
Covariance contribution	0.31
Combinations/Pair	1.16
Mean z-score	-2.14
Structure conservation index	0.55
SVM decision value	0.49
SVM RNA-class probability	0.757132
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2212850 117 - 23771897
UGGUGUUGUCUAUUUUCUUGGCGCUUCCGCUUUGCGCU-GCCAUUCUAAAUAAAUGGCCUUUGUUUUGAGAUGCAGCAGGUGCCGGGGCUGCCACAGGAUGGGC--CAGGAUGUGCCUCU
.((..(.........(((((((.(.(((.......(((-((..(((.(((((((.....))))))).)))..))))).(((((....)).)))...))).).))--))))).)..))... ( -38.90)
>DroVir_CAF1 288866 110 - 1
-CAUGUUGCCUAUUUUCUUGCUGCUUCCGCUUUGUGCUUGCCAUUCUAAAUAAAUGGCUUUUGUUUGGAAAUGCAGCAGGUGCCGGGCAUGCCACAGGAUGUGUG---G------CUUCU
-.....(((((.....((((((((((((((.....))..((((((.......))))))........))))..))))))))....))))).((((((.....))))---)------).... ( -41.00)
>DroPse_CAF1 312392 113 - 1
UGUUGUAGUCUGUUUUCUUGGCGCUUCCGUUUUGCGCUUGGCAUUCUAAAUAAAUGGCCUUUGUUUGGGAAUGCAGCAGGUGCCGGGCCUGCCACAGGA-------CAGGAUGUACGACA
.((((((.((((((((..(((((..((((....(((((((((((((((((((((.....))))))).)))))))..)))))))))))..))))).))))-------))))...)))))). ( -44.50)
>DroGri_CAF1 257364 111 - 1
-CAUGUUGUCUAUUUUCUUGGUGUUUCCGCUUUGUGCUUGCCAUUCUAAAUAAAUGGCUUUUGUUUCGAGGCGCAGCAGGUGCCGGGUAUGCCACAGGAUGUGG--CAG------CGUCG
-.((((((.((((.((((((((((.((((...(.((((((((..((.(((((((.....))))))).)))))).)))).)...)))).)))))).)))).))))--)))------))).. ( -37.90)
>DroWil_CAF1 340660 111 - 1
-AUUGUUGUCUAUUUUCUUGCUACUUCCGUUUUGCGCUCGCCAUUCUAAAUAAAUGCCUUUUGUUUUGAAAUGCAGCAGGUGCCGGGUAUGCCACAGGAUGUAG--CAG------CCUCU
-................(((((((.(((.....((((..(((((((.(((((((.....))))))).).))))..))..))))..((....))...))).))))--)))------..... ( -28.20)
>DroMoj_CAF1 276460 107 - 1
-------GUCUACGUUGUUGCUGCUUCCGUUUUGCGCCUGCCAUUCUAAAUAAAUGGCUUUUGUUUUGAAAUGCAGCAGGUGCCGGGCAUGACACAGGAUGUGGGACAG------CGUCU
-------....((((((((.(..(.((((((..(((((((((((((.(((((((.....))))))).).))))..))))))))..))).((...))))).)..))))))------))).. ( -37.30)
>consensus
_CAUGUUGUCUAUUUUCUUGCUGCUUCCGCUUUGCGCUUGCCAUUCUAAAUAAAUGGCUUUUGUUUUGAAAUGCAGCAGGUGCCGGGCAUGCCACAGGAUGUGG__CAG______CGUCU
...............(((((..((.((((....(((((((((((((.(((((((.....))))))).))).))..))))))))))))...))..)))))..................... (-20.74 = -21.05 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:41 2006