Locus 9779

Sequence ID	3R_DroMel_CAF1
Location	25,944,025 – 25,944,164
Length	139
Max. P	0.774083

overview

Window 0

Location	25,944,025 – 25,944,139
Length	114
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	79.10
Mean single sequence MFE	-33.36
Consensus MFE	-15.53
Energy contribution	-17.37
Covariance contribution	1.84
Combinations/Pair	1.14
Mean z-score	-2.43
Structure conservation index	0.47
SVM decision value	0.54
SVM RNA-class probability	0.774083
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25944025 114 + 27905053
-AAAGAGAAUCCAAUUAGACGGCUUUAAAGGCGCAGAGUCCUGCCAAGCCAGCUCAGCAGAACAUUGGGGA-AAUGGUGAAAUCCGCCAUAAAGUCGGCC-CAAAGCUGCUGUCUAA
-.............(((((((((((...((((.....).)))...))))).....(((((....(((((((-.((((((.....))))))....))..))-)))..))))))))))) ( -36.30)
>DroSec_CAF1 78082 115 + 1
AAAAGAGAAUCCAAUUAGGCGGCUUUAAAGGCGCAGAGUCCUGCCAAGCCAGCUCAGCAUAACACUGGGGA-AAUGGCGAAAUCCGCCAUAAAGUCGGCC-CAAAGCUGCUGUCUGA
..............(((((((((......(((((((....))))...)))(((((((.......)))(((.-.((((((.....))))))........))-)..))))))))))))) ( -36.20)
>DroSim_CAF1 71700 115 + 1
AAAAGAGAAUCCAAUUAGGCGGCUUUAAAGGCGCAGAGUCCUGCCAAGCCAGCUCAGCAUAACACUGGGGA-AAUGGCGAAAUCCGCCAUAAAGUCGGCC-CAAAGCUGCCGUCUAA
.................(((((((((....(.((((....)))))..(((..(((((.......)))))..-.((((((.....))))))......))).-.)))))))))...... ( -38.30)
>DroEre_CAF1 78914 106 + 1
AAAGGAGAAUCCAAUUAGGCGGCUUUAAAGGCUCCGAGUCCUGCAAAGCCAACUCAGCAGAA---------CACUGGGGAAAUCCGCC-CAAAGUCGGCC-CAAAGCUGCUCUCUAA
...(((((..........((((((((...((..((((((.((((..((....))..)))).)---------)..((((........))-))...)))).)-)))))))))))))).. ( -31.20)
>DroYak_CAF1 80038 116 + 1
AAAAGAGAAUCCAAUUAGGCGGCUUUAAAGGCGCAGAGUCCUGCAAAGCCAACUCAGCAGAACAGCAGAAACACUGGGCAAAUCCGCCAUAAAGUCGGCC-CAAAGCUCCUCUCUAA
...(((((.........((((((((((..(((((((....))))...(((...((....)).(((........))))))......))).))))))).)))-.........))))).. ( -32.47)
>DroAna_CAF1 70585 97 + 1
AAGCAAAAAUCCAAUUAGUCGGCUUUAAACG---ACGGGCCUGCA----CAGCUCAGCAGAAUGCCAAG---------GAAAUCCUCCAUAAAGUCGAAGGAAAAGCUGC----AAG
..(((....(((......(((((((((....---...(((((((.----.......))))...)))..(---------((.....))).))))))))).))).....)))----... ( -25.70)
>consensus
AAAAGAGAAUCCAAUUAGGCGGCUUUAAAGGCGCAGAGUCCUGCAAAGCCAGCUCAGCAGAACACUGGGGA_AAUGGCGAAAUCCGCCAUAAAGUCGGCC_CAAAGCUGCUGUCUAA
.................(((((((((...(((.....((.((((..((....))..)))).))............((......))............)))..)))))))))...... (-15.53 = -17.37 +   1.84)

alignment

secondary structure

dotplot

Window 1

Location	25,944,061 – 25,944,164
Length	103
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	78.74
Mean single sequence MFE	-32.82
Consensus MFE	-19.47
Energy contribution	-21.50
Covariance contribution	2.03
Combinations/Pair	1.05
Mean z-score	-1.57
Structure conservation index	0.59
SVM decision value	0.10
SVM RNA-class probability	0.582763
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25944061 103 - 27905053
UCCGCCGCUCCAUCACUUUGAUGUCUUAGACAGCAGCUUUG-GGCCGACUUUAUGGCGGAUUUCACCAUU-UCCCCAAUGUUCUGCUGAGCUGGCUUGGCAGGAC
(((((((..(((((.....)))(.(((((.(((.(((.(((-(((((......))))(((..........-))))))).)))))))))))).))..)))).))). ( -32.00)
>DroSec_CAF1 78119 103 - 1
UCCGCCGCUCCAUCACUUUGAUGUCUCAGACAGCAGCUUUG-GGCCGACUUUAUGGCGGAUUUCGCCAUU-UCCCCAGUGUUAUGCUGAGCUGGCUUGGCAGGAC
(((((((..(((.(..(((((....)))))(((((((.(((-((..((....((((((.....)))))).-))))))).))..))))).).)))..)))).))). ( -35.30)
>DroSim_CAF1 71737 103 - 1
UCCGCCGCUCCAUCACUUUGAUGUCUUAGACGGCAGCUUUG-GGCCGACUUUAUGGCGGAUUUCGCCAUU-UCCCCAGUGUUAUGCUGAGCUGGCUUGGCAGGAC
(((((((((.((((.....))))....)).))))(((.(((-((..((....((((((.....)))))).-))))))).))).(((..((....))..)))))). ( -37.00)
>DroEre_CAF1 78951 94 - 1
UCCGCCGCUCCAUCACUUUGAUGUCUUAGAGAGCAGCUUUG-GGCCGACUUUG-GGCGGAUUUCCCCAGUG---------UUCUGCUGAGUUGGCUUUGCAGGAC
(((...((((((((.....)))).......)))).((...(-(((((((((..-((((((...........---------.)))))))))))))))).)).))). ( -33.01)
>DroYak_CAF1 80075 104 - 1
UCCGCCGCUCCAUCACUUUGAUGUCUUAGAGAGGAGCUUUG-GGCCGACUUUAUGGCGGAUUUGCCCAGUGUUUCUGCUGUUCUGCUGAGUUGGCUUUGCAGGAC
(((((.(((((.((.((..(....)..)).)))))))...(-(((((((((...((((((......((((......)))).)))))))))))))))).)).))). ( -37.10)
>DroAna_CAF1 70619 82 - 1
UCCGCCGUC------CUUUGAUAUCCUU----GCAGCUUUUCCUUCGACUUUAUGGAGGAUUUC---------CUUGGCAUUCUGCUGAGCUG----UGCAGGCC
...((((((------....)))......----(((((((.(((((((......)))))))....---------...(((.....)))))))))----)...))). ( -22.50)
>consensus
UCCGCCGCUCCAUCACUUUGAUGUCUUAGACAGCAGCUUUG_GGCCGACUUUAUGGCGGAUUUCCCCAUU_UCCCCAGUGUUCUGCUGAGCUGGCUUGGCAGGAC
((((((....((((.....))))............((......)).........))))))...................(((((((..((....))..))))))) (-19.47 = -21.50 +   2.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:42:01 2006