Locus 2415

Sequence ID	2R_DroMel_CAF1
Location	8,687,521 – 8,687,613
Length	92
Max. P	0.968009

overview

Window 8

Location	8,687,521 – 8,687,613
Length	92
Sequences	4
Columns	97
Reading direction	forward
Mean pairwise identity	86.11
Mean single sequence MFE	-28.28
Consensus MFE	-21.80
Energy contribution	-22.73
Covariance contribution	0.94
Combinations/Pair	1.07
Mean z-score	-2.56
Structure conservation index	0.77
SVM decision value	1.62
SVM RNA-class probability	0.968009
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8687521 92 + 20766785
---UCCCCGGAUGUACAAUACAUACAUCAAUA--CAUAGAUGUGUGCAUAGUUAGAUGUACAUCAGGUAACCCAAGGUUGGCGCCGGCUUUAUGCGC
---...(((((((((((((.((((((((....--....)))))))).)).......)))))))).(.(((((...))))).)..))).......... ( -25.71)
>DroSec_CAF1 107 95 + 1
CCCUCCACCGAUGUACAAUACAUACAUCAAUA--CAUAGAUGUGUGCAUAGUUAGAUGUACAUCGGGUAACCCAAGGUUAGCGCCGGCUUUAUGCGC
.......((((((((((((.((((((((....--....)))))))).)).......)))))))))).(((((...)))))((((.........)))) ( -29.81)
>DroSim_CAF1 107 95 + 1
CCCACCACCGAUGUACAAUACAUACAUCAAUA--CAUAGAUGUGUGCAUAGUUAGAUGUACAUCGGGUAACCCAAGGUUGGCGCCGGCUUUAUGCGC
.......((((((((((((.((((((((....--....)))))))).)).......)))))))))).......(((((((....)))))))...... ( -29.31)
>DroYak_CAF1 107 90 + 1
CCCUCCACGGAUGUACA-UACAUAAAUGUAUAAAAAUGUAU--GUACAU----GUAUGUACAUCAGGUAACCCAAGGUUGGCGCCGGCUUUAUGCGC
.......((((((((((-(((((..(((((((....)))))--))..))----))))))))))).(.(((((...))))).)..))((.....)).. ( -28.30)
>consensus
CCCUCCACCGAUGUACAAUACAUACAUCAAUA__CAUAGAUGUGUGCAUAGUUAGAUGUACAUCAGGUAACCCAAGGUUGGCGCCGGCUUUAUGCGC
.......((((((((((((.((((((((..........)))))))).)).......)))))))))).(((((...)))))((((.........)))) (-21.80 = -22.73 +   0.94)

alignment

secondary structure

dotplot

Window 9

Location	8,687,521 – 8,687,613
Length	92
Sequences	4
Columns	97
Reading direction	reverse
Mean pairwise identity	86.11
Mean single sequence MFE	-30.54
Consensus MFE	-21.55
Energy contribution	-22.86
Covariance contribution	1.31
Combinations/Pair	1.03
Mean z-score	-2.69
Structure conservation index	0.71
SVM decision value	1.36
SVM RNA-class probability	0.946612
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8687521 92 - 20766785
GCGCAUAAAGCCGGCGCCAACCUUGGGUUACCUGAUGUACAUCUAACUAUGCACACAUCUAUG--UAUUGAUGUAUGUAUUGUACAUCCGGGGA---
((((.........))))...(((((((((((...(((((((((.....(((((........))--))).)))))))))...))).)))))))).--- ( -28.60)
>DroSec_CAF1 107 95 - 1
GCGCAUAAAGCCGGCGCUAACCUUGGGUUACCCGAUGUACAUCUAACUAUGCACACAUCUAUG--UAUUGAUGUAUGUAUUGUACAUCGGUGGAGGG
((((.........))))...((((.(.....((((((((((.......(((((.(((((....--....))))).)))))))))))))))).)))). ( -32.51)
>DroSim_CAF1 107 95 - 1
GCGCAUAAAGCCGGCGCCAACCUUGGGUUACCCGAUGUACAUCUAACUAUGCACACAUCUAUG--UAUUGAUGUAUGUAUUGUACAUCGGUGGUGGG
..........(((.((((......(((...)))((((((((.......(((((.(((((....--....))))).))))))))))))))))).))). ( -33.41)
>DroYak_CAF1 107 90 - 1
GCGCAUAAAGCCGGCGCCAACCUUGGGUUACCUGAUGUACAUAC----AUGUAC--AUACAUUUUUAUACAUUUAUGUA-UGUACAUCCGUGGAGGG
((((.........))))...((((((....)).(((((((((((----(((...--.................))))))-))))))))....)))). ( -27.65)
>consensus
GCGCAUAAAGCCGGCGCCAACCUUGGGUUACCCGAUGUACAUCUAACUAUGCACACAUCUAUG__UAUUGAUGUAUGUAUUGUACAUCCGUGGAGGG
((((.........)))).((((...)))).(((((((((((.......(((((.(((((..........))))).))))))))))))))).)..... (-21.55 = -22.86 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:35 2006