Locus 2137

Sequence ID	2R_DroMel_CAF1
Location	7,973,803 – 7,973,931
Length	128
Max. P	0.833064

overview

Window 0

Location	7,973,803 – 7,973,907
Length	104
Sequences	3
Columns	116
Reading direction	forward
Mean pairwise identity	85.55
Mean single sequence MFE	-25.13
Consensus MFE	-19.92
Energy contribution	-20.37
Covariance contribution	0.45
Combinations/Pair	1.04
Mean z-score	-2.27
Structure conservation index	0.79
SVM decision value	0.72
SVM RNA-class probability	0.833064
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7973803 104 + 20766785
UUUCCAUGUGUCCAUGAGGCCAUUCCUCAUGUUCCUAGCCACUUUUCGUGGACU------------UUUUCAACGACAAUAUAUAUAGCAGUUUUUGCUUGCAAAUGCAAUAUGUA
........(((((((((((.....))))))).....((((((.....)))).))------------........)))).(((((((.(((...((((....))))))).))))))) ( -25.40)
>DroSec_CAF1 10115 114 + 1
UUUCCCUCUGUGCAUGAGGCCAUUCCUCAUGUUCCCAACCACUUUUCGUGGAUUACUCAUCUCUGGUUGUUAACAACAAUA--UACAGCAGUUUUUGCUAGCAAAUGCAAUAUGUA
.....((((((((((((((.....))))))))......((((.....))))..............((((....))))....--.)))).))...((((........))))...... ( -25.00)
>DroSim_CAF1 10138 114 + 1
UUUCCCUCUGUGCAUGAGGCCAUUCCUCAUGUUCCCAACCACUUUUCGUGGAUUACUCAUCUCUGGUUGUUAACAACAAUA--UACAGCAGUUUUUGCUAGCAAAUGCAAUAUGUA
.....((((((((((((((.....))))))))......((((.....))))..............((((....))))....--.)))).))...((((........))))...... ( -25.00)
>consensus
UUUCCCUCUGUGCAUGAGGCCAUUCCUCAUGUUCCCAACCACUUUUCGUGGAUUACUCAUCUCUGGUUGUUAACAACAAUA__UACAGCAGUUUUUGCUAGCAAAUGCAAUAUGUA
.........(..(((((((.....)))))))..)....((((.....))))..............((((....))))..........(((....((((........))))..))). (-19.92 = -20.37 +   0.45)

alignment

secondary structure

dotplot

Window 1

Location	7,973,839 – 7,973,931
Length	92
Sequences	3
Columns	104
Reading direction	reverse
Mean pairwise identity	85.16
Mean single sequence MFE	-17.33
Consensus MFE	-15.47
Energy contribution	-15.37
Covariance contribution	-0.11
Combinations/Pair	1.08
Mean z-score	-1.26
Structure conservation index	0.89
SVM decision value	0.13
SVM RNA-class probability	0.598616
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7973839 92 - 20766785
AUAAUAAUAUAACAUGGAUAAUGAUACAUAUUGCAUUUGCAAGCAAAAACUGCUAUAUAUAUUGUCGUUGAAAA------------AGUCCACGAAAAGUGGCU
..................((((((((.(((((((....)))((((.....))))....))))))))))))....------------((.((((.....)))))) ( -16.80)
>DroSec_CAF1 10151 102 - 1
AUAAUAAUAUAAUAUGGAUAAUAAUACAUAUUGCAUUUGCUAGCAAAAACUGCUGUA--UAUUGUUGUUAACAACCAGAGAUGAGUAAUCCACGAAAAGUGGUU
((((((((((((((((..........)))))))....(((.((((.....)))))))--))))))))).....................((((.....)))).. ( -17.60)
>DroSim_CAF1 10174 102 - 1
AUAAUAAUAUAAUAUGGAUAAUAAUACAUAUUGCAUUUGCUAGCAAAAACUGCUGUA--UAUUGUUGUUAACAACCAGAGAUGAGUAAUCCACGAAAAGUGGUU
((((((((((((((((..........)))))))....(((.((((.....)))))))--))))))))).....................((((.....)))).. ( -17.60)
>consensus
AUAAUAAUAUAAUAUGGAUAAUAAUACAUAUUGCAUUUGCUAGCAAAAACUGCUGUA__UAUUGUUGUUAACAACCAGAGAUGAGUAAUCCACGAAAAGUGGUU
................((((((((((..(((.(((((((....))))...))).)))..))))))))))....................((((.....)))).. (-15.47 = -15.37 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:17 2006