Locus 6869

Sequence ID	X_DroMel_CAF1
Location	17,147,137 – 17,147,250
Length	113
Max. P	0.840575

overview

Window 0

Location	17,147,137 – 17,147,250
Length	113
Sequences	4
Columns	114
Reading direction	forward
Mean pairwise identity	84.79
Mean single sequence MFE	-35.67
Consensus MFE	-27.45
Energy contribution	-28.82
Covariance contribution	1.37
Combinations/Pair	1.13
Mean z-score	-1.52
Structure conservation index	0.77
SVM decision value	0.12
SVM RNA-class probability	0.593508
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17147137 113 + 22224390
UGUUAGUCCACAGGAAUGAGGUGGUAGGAACCCCCAGUGGUAUACA-GCCCCCUCUUGGAUAGCCACCCCCCCCCUGAGACCCAUUCACUUGCACAUUAGGCAGCAAAUUGACA
.(((((((..((((...(.((((((.((.....))...(((.....-))).((....))...)))))).)...)))).)))........((((..........))))..)))). ( -25.20)
>DroSec_CAF1 10195 112 + 1
UGUUAGUCCAGGGGAAUGAGGGGGUAGGAACCCUCAGUGGUAUACU-GCCCCCUCUUGGAAAACCACCCC-CCCCUGAGACCCAUUCACUUGCACAUUAGGCAGCAAAUUGACA
.(((((((((((((...((((((((((..(((......)))...))-)))))))).(((....)))....-)))))).)))........((((..........))))..)))). ( -44.50)
>DroSim_CAF1 11296 111 + 1
UGUUAGUCCAGGGGAAUGAGGGGGUAUGAACCCUCAGUGGUAUACU-GCCCCCUCUUGGAUAACCACCCC--CCCUGAGACCCAUUCACUUGCACAUUAGGCAGCAAAUUGACA
.(((((((((((((...(((((((((((.(((......))).)).)-)))))))).(((....)))...)--))))).)))........((((..........))))..)))). ( -40.90)
>DroEre_CAF1 10898 101 + 1
UGUUAGUCCGGGG-GUUGAGGGGGUAGGA---------GGUAGGAGGCCCCCCUCGUGGAUACCCGCCC---CUCUGAGAUCCAUUCACUUGCACAUUAGGCAGCAAAUUGACA
.((((((....((-(((.((((((...((---------((..((...))..))))((((....))))))---))))..)))))......((((..........)))))))))). ( -32.10)
>consensus
UGUUAGUCCAGGGGAAUGAGGGGGUAGGAACCCUCAGUGGUAUACU_GCCCCCUCUUGGAUAACCACCCC__CCCUGAGACCCAUUCACUUGCACAUUAGGCAGCAAAUUGACA
.(((((((((((((...((((((((....(((......)))......)))))))).(((....))).....)))))).)))........((((..........))))..)))). (-27.45 = -28.82 +   1.37)

alignment

secondary structure

dotplot

Window 1

Location	17,147,137 – 17,147,250
Length	113
Sequences	4
Columns	114
Reading direction	reverse
Mean pairwise identity	84.79
Mean single sequence MFE	-40.96
Consensus MFE	-29.09
Energy contribution	-31.28
Covariance contribution	2.19
Combinations/Pair	1.03
Mean z-score	-2.02
Structure conservation index	0.71
SVM decision value	0.75
SVM RNA-class probability	0.840575
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17147137 113 - 22224390
UGUCAAUUUGCUGCCUAAUGUGCAAGUGAAUGGGUCUCAGGGGGGGGGUGGCUAUCCAAGAGGGGGC-UGUAUACCACUGGGGGUUCCUACCACCUCAUUCCUGUGGACUAACA
.....(((..(((((....).)).))..))).(((((((((.(((((((((..((((....((((..-......)).))..))))..))))).))))...)))).))))).... ( -39.50)
>DroSec_CAF1 10195 112 - 1
UGUCAAUUUGCUGCCUAAUGUGCAAGUGAAUGGGUCUCAGGGG-GGGGUGGUUUUCCAAGAGGGGGC-AGUAUACCACUGAGGGUUCCUACCCCCUCAUUCCCCUGGACUAACA
.....(((..(((((....).)).))..))).((((.((((((-((..(((....))).(((((((.-((...(((......)))..)).))))))).)))))))))))).... ( -46.60)
>DroSim_CAF1 11296 111 - 1
UGUCAAUUUGCUGCCUAAUGUGCAAGUGAAUGGGUCUCAGGG--GGGGUGGUUAUCCAAGAGGGGGC-AGUAUACCACUGAGGGUUCAUACCCCCUCAUUCCCCUGGACUAACA
.....(((..(((((....).)).))..))).((((.(((((--(((.(((....))).(((((((.-.....(((......))).....))))))).)))))))))))).... ( -44.80)
>DroEre_CAF1 10898 101 - 1
UGUCAAUUUGCUGCCUAAUGUGCAAGUGAAUGGAUCUCAGAG---GGGCGGGUAUCCACGAGGGGGGCCUCCUACC---------UCCUACCCCCUCAAC-CCCCGGACUAACA
.(((.(((..(((((....).)).))..)))..........(---(((.((....))..(((((((..........---------.....)))))))...-)))).)))..... ( -32.96)
>consensus
UGUCAAUUUGCUGCCUAAUGUGCAAGUGAAUGGGUCUCAGGG__GGGGUGGUUAUCCAAGAGGGGGC_AGUAUACCACUGAGGGUUCCUACCCCCUCAUUCCCCUGGACUAACA
.....(((..(((((....).)).))..))).((((.((((((..(((......)))..(((((((.......(((......))).....)))))))...)))))))))).... (-29.09 = -31.28 +   2.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:50 2006