Locus 838

Sequence ID	2L_DroMel_CAF1
Location	2,390,250 – 2,390,407
Length	157
Max. P	0.821763

overview

Window 1

Location	2,390,250 – 2,390,370
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.75
Mean single sequence MFE	-32.70
Consensus MFE	-27.88
Energy contribution	-26.04
Covariance contribution	-1.84
Combinations/Pair	1.30
Mean z-score	-1.47
Structure conservation index	0.85
SVM decision value	0.01
SVM RNA-class probability	0.536244
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2390250 120 - 22407834
AUAGCUCCGGAAUAUCUGGAGGUAUAUGUCGUGGAAGUCUGAUGGGUGCAGAUUCAAUGGAGUCCGAACUUAACUCAGAAUCUAGUGGGGAGCUUUUAGAUAAUAAUGAAUUGAUUGCAA
(((.((((((.....)))))).))).(((.((.((..((((((((((.(.(((((....))))).).)))))..)))))((((((.((....)).)))))).........)).)).))). ( -32.30)
>DroSec_CAF1 8253 120 - 1
AUGGCUCCGGAAUCUCUGGAGAUAUAUGUCUUGGAAGUCUGAUGAGUGCAGAUUCAUUGGAGUCCGAACUUAACUCAGAAUCUAGUGGGGAGCUUUUAGAUAACAAUAAAUUGGUAGCGA
...(((((((....(((((((((....)))))(((..((..((((((....))))))..)).)))..........))))((((((.((....)).)))))).........)))).))).. ( -32.90)
>DroSim_CAF1 8934 120 - 1
AUAGCUCCGGAAUCUCUGGAGAUAUAUGUCUUGGAAGUCUGAUGAGUGCAGAUUUAUUGGAGUCCGAACUUAACUCACAAUCUAGUGGGGAGCUUUUAGAUAACAAUGAAUUGGUAGCGA
(((.((((((.....)))))).)))...(((..(....)..).)).(((.(((((((((..(((..((.....(((((......))))).....))..)))..))))))))).))).... ( -30.50)
>DroEre_CAF1 9167 120 - 1
AUAGCUCCGGAAUCUAUGGAGGUAUAUGUCGUGGGAGCCGGAUGAGUGCAGAUUCAAUGGAAUCGGAACUCAAUUCUGAUUUUAGUUCGGAGCUUUUAGAUAUUAGUGAAGUGAUCGCGA
(((.(((((.......))))).)))(((((.(((((((....(((((...(((((....)))))...)))))..(((((.......)))))))))))))))))..((((.....)))).. ( -35.40)
>DroYak_CAF1 9005 120 - 1
AUAGCUCCGGAAUCUCUGGAGAUAUAUCUCGUGGGAACCGAAUGAGUGCAGAUUCAAUGGAAUCGGAACUCAAUUCUGAUUUUAGUGGGGAGUUUUCAGAUAAUUGUGUAAGGAACUCGA
(((.((((((.....)))))).)))..((((..(((((.((((((((...(((((....)))))...)))).)))).).))))..))))(((((((...(((....)))..))))))).. ( -32.40)
>consensus
AUAGCUCCGGAAUCUCUGGAGAUAUAUGUCGUGGAAGUCUGAUGAGUGCAGAUUCAAUGGAGUCCGAACUUAACUCAGAAUCUAGUGGGGAGCUUUUAGAUAAUAAUGAAUUGAUAGCGA
(((.((((((.....)))))).))).((((.((((((((((((((((...(((((....)))))...)))))..))))..(((.....)))))))))))))).................. (-27.88 = -26.04 +  -1.84)

alignment

secondary structure

dotplot

Window 2

Location	2,390,290 – 2,390,407
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	77.92
Mean single sequence MFE	-31.98
Consensus MFE	-21.00
Energy contribution	-20.16
Covariance contribution	-0.84
Combinations/Pair	1.26
Mean z-score	-1.79
Structure conservation index	0.66
SVM decision value	0.68
SVM RNA-class probability	0.821763
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2390290 117 - 22407834
AUUUGUGAUAA---GAAUAAGCCUAGUGGAGUACAGCUAGAUAGCUCCGGAAUAUCUGGAGGUAUAUGUCGUGGAAGUCUGAUGGGUGCAGAUUCAAUGGAGUCCGAACUUAACUCAGAA
.((..(((((.---........(((((........)))))(((.((((((.....)))))).))).)))))..))..((((((((((.(.(((((....))))).).)))))..))))). ( -35.60)
>DroSec_CAF1 8293 120 - 1
GUUUGUAAAGCAGGUGAUAAACAUAGUGGAGUACAGCUAGAUGGCUCCGGAAUCUCUGGAGAUAUAUGUCUUGGAAGUCUGAUGAGUGCAGAUUCAUUGGAGUCCGAACUUAACUCAGAA
((((((..........))))))......((((.......((((.((((((.....)))))).....))))(((((..((..((((((....))))))..)).))))).....)))).... ( -31.80)
>DroSim_CAF1 8974 120 - 1
GUUUGUAAAACAGUUGAUAAACAUAAUGGAGUACAGGUAGAUAGCUCCGGAAUCUCUGGAGAUAUAUGUCUUGGAAGUCUGAUGAGUGCAGAUUUAUUGGAGUCCGAACUUAACUCACAA
((((((..........))))))....((((((..((((.((((.((((((.....)))))).....))))(((((..((..((((((....))))))..)).))))))))).)))).)). ( -32.60)
>DroEre_CAF1 9207 108 - 1
CUUCAUAACACAGACGAUAAAC------------ACCUGGAUAGCUCCGGAAUCUAUGGAGGUAUAUGUCGUGGGAGCCGGAUGAGUGCAGAUUCAAUGGAAUCGGAACUCAAUUCUGAU
..........((((........------------...........(((((..(((((((.........)))))))..)))))(((((...(((((....)))))...)))))..)))).. ( -29.00)
>DroYak_CAF1 9045 117 - 1
GC---UAAAAUAGAUGAUAAACAUGGUGGAGUAAACCUAGAUAGCUCCGGAAUCUCUGGAGAUAUAUCUCGUGGGAACCGAAUGAGUGCAGAUUCAAUGGAAUCGGAACUCAAUUCUGAU
..---.....((((.........((((........((.(((((.((((((.....))))))...)))))...))..))))..(((((...(((((....)))))...)))))..)))).. ( -30.90)
>consensus
GUUUGUAAAACAGAUGAUAAACAUAGUGGAGUACAGCUAGAUAGCUCCGGAAUCUCUGGAGAUAUAUGUCGUGGAAGUCUGAUGAGUGCAGAUUCAAUGGAGUCCGAACUUAACUCAGAA
........................................(((.((((((.....)))))).))).............(((((((((...(((((....)))))...)))))..)))).. (-21.00 = -20.16 +  -0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:49 2006