Locus 4870

Sequence ID	2L_DroMel_CAF1
Location	13,867,125 – 13,867,312
Length	187
Max. P	0.944222

overview

Window 3

Location	13,867,125 – 13,867,234
Length	109
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	95.05
Mean single sequence MFE	-26.24
Consensus MFE	-23.00
Energy contribution	-23.40
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.64
Structure conservation index	0.88
SVM decision value	1.34
SVM RNA-class probability	0.944222
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13867125 109 + 22407834
CCUUAUGCCCAAUUAUAUCAAAUCGAUCGUCACAGAUCAUCAAAUCGAUCUAAGCCAAUUACACAGGCAGCUGAUUGAGUCUGGGCGAUUGUGACUGUCUCGUAAAUCU
......(((((.............((((......))))......((((((...(((.........)))....))))))...)))))((((...((......)).)))). ( -25.50)
>DroSec_CAF1 11193 109 + 1
CCUUAUGCCCAAUUAUAUCAAAUCGAUCGUCACAGAUCAUCAAAUCGAUCUAAGCCAAUUACACAGGAAGCUGAUUGAGUUUGGGCGAUUGCGACUGUCUCGUAAAUCU
......((((((............((((......))))......((((((....((.........)).....))))))..))))))((((((((.....)))).)))). ( -26.60)
>DroSim_CAF1 12704 109 + 1
CCUUAUGCCCAAUUAUAUCAAAUCGAUCGUCACAGAUCAUCAAAUCGAUCUAAGCCAAUUACACAGGCAGCUGAUUGAGUCUGGGCGAUUGUGACUGUCUCGUAAAUCU
......(((((.............((((......))))......((((((...(((.........)))....))))))...)))))((((...((......)).)))). ( -25.50)
>DroEre_CAF1 11493 109 + 1
CCCUUUGCCCACUUACAUCAGAUCGAUCGUCACAGAUCAUCAAAUCGAUCUAAGCCAAUUACACAGGCAGCUGAUUGAGUCUGAGCGAUUGUGACUGUCUCGUAAAUCA
...(((((...((......))...(((.(((((((.((.(((..((((((...(((.........)))....))))))...)))..))))))))).)))..)))))... ( -25.10)
>DroYak_CAF1 12860 109 + 1
CCCUUUGCCCAACUCUAUCAAAUCGAUCGUCACAGAUCAUCAAAUCGAUCUAAGCCAAUUACACAGGCAGCUGAUUGAGUUUGGGCGAUUGUGACUGUCUCGUAAAUCU
......(((((((((.((((....((((......))))...............(((.........)))...)))).))).))))))((((...((......)).)))). ( -28.50)
>consensus
CCUUAUGCCCAAUUAUAUCAAAUCGAUCGUCACAGAUCAUCAAAUCGAUCUAAGCCAAUUACACAGGCAGCUGAUUGAGUCUGGGCGAUUGUGACUGUCUCGUAAAUCU
......(((((.............((((......))))......((((((...(((.........)))....))))))...)))))((((...((......)).)))). (-23.00 = -23.40 +   0.40)

alignment

secondary structure

dotplot

Window 4

Location	13,867,194 – 13,867,312
Length	118
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.02
Mean single sequence MFE	-40.02
Consensus MFE	-25.87
Energy contribution	-29.32
Covariance contribution	3.45
Combinations/Pair	1.12
Mean z-score	-2.20
Structure conservation index	0.65
SVM decision value	0.46
SVM RNA-class probability	0.746486
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13867194 118 + 22407834
GCUGAUUGAGUCUGGGCGAUUGUGACUGUCUCGUAAAUCUGCGAA--GAAGGUGUGAGCUGAGGGACAAAAGCCCAGACGCAUUUAAGCUAAUUUGUUCUGACGUCGCCUGCGACGUGAC
(((...((.((((((((..((((..((.(((((((....)))).)--)).(((....))).))..))))..)))))))).))....)))............((((((....))))))... ( -41.90)
>DroSec_CAF1 11262 118 + 1
GCUGAUUGAGUUUGGGCGAUUGCGACUGUCUCGUAAAUCUGCGAA--GAAGGUGUGAGCUGAGAGACAAAAGCCCAGACGCAUUUAAGCUAAUUUGUUCUGACGUCGCCUGCGACGUGAC
(((...((.(((((((((....)...((((((.....(((....)--)).(((....)))..))))))...)))))))).))....)))............((((((....))))))... ( -36.90)
>DroSim_CAF1 12773 118 + 1
GCUGAUUGAGUCUGGGCGAUUGUGACUGUCUCGUAAAUCUGCGAA--GAAGGUGUGAGCCGAGGGACAAAAGCCCAGACGCAUUUAAGCUAAUUUGUUCUGACGUCGCCUGCGACGUGAC
(((...((.((((((((..((((..((.(((((((....)))).)--)).(((....))).))..))))..)))))))).))....)))............((((((....))))))... ( -44.50)
>DroEre_CAF1 11562 118 + 1
GCUGAUUGAGUCUGAGCGAUUGUGACUGUCUCGUAAAUCAGAAGA--GGAGGUGCGAGAUCAGGGACAAAAGUCCAGACACAUUUAAGCUAAUUUGUUCUGACGUCGCCUGCGACGUGAC
(((...((.(((((..(..((((..((((((((((..((......--.))..))))))).)))..))))..)..))))).))....)))............((((((....))))))... ( -43.60)
>DroYak_CAF1 12929 118 + 1
GCUGAUUGAGUUUGGGCGAUUGUGACUGUCUCGUAAAUCUGGGAA--GAAGGUGUGAGAUCAGGGACAAAAGCCCAGACGCAUUUAAGCUAAUUUGUUCUGACGUCGCCAGCGACGUGAC
(((...((.((((((((..((((..((((((((...((((.....--..)))).))))).)))..))))..)))))))).))....)))............((((((....))))))... ( -44.90)
>DroAna_CAF1 10307 93 + 1
GCUGA----------------------GGCUCAUAACUCUGGGCUGGAAAGGUGUGAGAUGAAGGACAAAAGCCCGGCC-AACUUAAGCUAAUUUGUUCUGACA----CUCACACGUUGC
.((..----------------------((((((......))))))....))(((((((.((.(((((((((((..((..-..))...)))..))))))))..))----)))))))..... ( -28.30)
>consensus
GCUGAUUGAGUCUGGGCGAUUGUGACUGUCUCGUAAAUCUGCGAA__GAAGGUGUGAGAUGAGGGACAAAAGCCCAGACGCAUUUAAGCUAAUUUGUUCUGACGUCGCCUGCGACGUGAC
(((...((.((((((((..((((..((..((((...((((.........)))).))))...))..))))..)))))))).))....)))............((((((....))))))... (-25.87 = -29.32 +   3.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:46 2006