Locus 7871

Sequence ID	3R_DroMel_CAF1
Location	21,073,235 – 21,073,330
Length	95
Max. P	0.973041

overview

Window 2

Location	21,073,235 – 21,073,330
Length	95
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	85.68
Mean single sequence MFE	-28.28
Consensus MFE	-21.90
Energy contribution	-22.10
Covariance contribution	0.20
Combinations/Pair	1.24
Mean z-score	-2.49
Structure conservation index	0.77
SVM decision value	1.70
SVM RNA-class probability	0.973041
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21073235 95 + 27905053
UAAAUAAUGCUGAACAGCUGGGCGAUGGCAACUCUGCUGCUCACGCUUUCCAAUACUGGAGUGUGUGUUGCUUGAGUUCAAAAUUUAUU-CUGACU
..(((((...(((((.....((((..(....)..))))((.(((((.(((((....))))).)))))..))....)))))....)))))-...... ( -25.20)
>DroSec_CAF1 26419 96 + 1
UAAAUAAUGCUGAACAGCUGAGCGAUGGCAACUCUGCUGCGCACGCUUUCCAAUACUGGAGUGUGUGCUGUUUGCGUUCAAAAUUUAUUCCUGUUU
.....(((((.(((((((...(((.(((((....))))))))((((.(((((....))))).)))))))))))))))).................. ( -30.50)
>DroSim_CAF1 25742 96 + 1
UAAAUAAUGCUGAACAGCUGAGCGAUGGCAACUCUGCUGCGCACGCUUUCCAAUACUGGAGUGUGUGCUGUUCGCGUUCAAAAUUUAUUCCUGUUU
.....(((((.(((((((...(((.(((((....))))))))((((.(((((....))))).)))))))))))))))).................. ( -32.60)
>DroEre_CAF1 27286 94 + 1
UAAAUAAUGCUGAACAGCUGAGCGGUGGCAACCCUACCGCGCACACUAUCCAACACUGGAAUGUGUGUUUUUUGAGUUCAAAAUUUCUG-CAAA-U
.......((((((((......(((((((.....)))))))((((((..((((....))))..)))))).......)))))........)-))..-. ( -28.70)
>DroYak_CAF1 26642 95 + 1
UAAAUAAUGCUGAACAGCUGAGCGGUGGCAACCCUACCGCGCACUCUACCCAACACUGGAACCUGUGCUUUUCGAGUUCAAAAUUUAUG-CUAACU
..........(((((......(((((((.....)))))))((((.....(((....))).....)))).......))))).........-...... ( -24.40)
>consensus
UAAAUAAUGCUGAACAGCUGAGCGAUGGCAACUCUGCUGCGCACGCUUUCCAAUACUGGAGUGUGUGCUGUUUGAGUUCAAAAUUUAUU_CUGACU
........(((....)))(((((((.(....))).((.((((((((..((((....)))))))))))).))....)))))................ (-21.90 = -22.10 +   0.20)

alignment

secondary structure

dotplot

Window 3

Location	21,073,235 – 21,073,330
Length	95
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	85.68
Mean single sequence MFE	-26.32
Consensus MFE	-17.22
Energy contribution	-17.22
Covariance contribution	0.00
Combinations/Pair	1.17
Mean z-score	-1.93
Structure conservation index	0.65
SVM decision value	0.08
SVM RNA-class probability	0.575203
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21073235 95 - 27905053
AGUCAG-AAUAAAUUUUGAACUCAAGCAACACACACUCCAGUAUUGGAAAGCGUGAGCAGCAGAGUUGCCAUCGCCCAGCUGUUCAGCAUUAUUUA
.....(-(((((...((((((...(((.........(((......)))..(((((.(((((...))))))).)))...)))))))))..)))))). ( -21.80)
>DroSec_CAF1 26419 96 - 1
AAACAGGAAUAAAUUUUGAACGCAAACAGCACACACUCCAGUAUUGGAAAGCGUGCGCAGCAGAGUUGCCAUCGCUCAGCUGUUCAGCAUUAUUUA
...(((((.....)))))...((.((((((......(((......))).((((((.(((((...))))))).))))..))))))..))........ ( -24.50)
>DroSim_CAF1 25742 96 - 1
AAACAGGAAUAAAUUUUGAACGCGAACAGCACACACUCCAGUAUUGGAAAGCGUGCGCAGCAGAGUUGCCAUCGCUCAGCUGUUCAGCAUUAUUUA
...(((((.....)))))...(((((((((......(((......))).((((((.(((((...))))))).))))..))))))).))........ ( -28.40)
>DroEre_CAF1 27286 94 - 1
A-UUUG-CAGAAAUUUUGAACUCAAAAAACACACAUUCCAGUGUUGGAUAGUGUGCGCGGUAGGGUUGCCACCGCUCAGCUGUUCAGCAUUAUUUA
.-....-......(((((....)))))............(((((((((((((.((.(((((.((....))))))).)))))))))))))))..... ( -29.10)
>DroYak_CAF1 26642 95 - 1
AGUUAG-CAUAAAUUUUGAACUCGAAAAGCACAGGUUCCAGUGUUGGGUAGAGUGCGCGGUAGGGUUGCCACCGCUCAGCUGUUCAGCAUUAUUUA
......-..........((((..(.......)..)))).(((((((..(((..((.(((((.((....))))))).)).)))..)))))))..... ( -27.80)
>consensus
AAUCAG_AAUAAAUUUUGAACUCAAACAGCACACACUCCAGUAUUGGAAAGCGUGCGCAGCAGAGUUGCCAUCGCUCAGCUGUUCAGCAUUAUUUA
...........(((.((((((.......((((.(..(((......)))..).))))..(((.((((.......)))).))))))))).)))..... (-17.22 = -17.22 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:51 2006