Locus 142

Sequence ID	3L_DroMel_CAF1
Location	435,774 – 435,864
Length	90
Max. P	0.996590

overview

Window 0

Location	435,774 – 435,864
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	94.33
Mean single sequence MFE	-19.03
Consensus MFE	-15.92
Energy contribution	-15.96
Covariance contribution	0.04
Combinations/Pair	1.15
Mean z-score	-1.68
Structure conservation index	0.84
SVM decision value	0.98
SVM RNA-class probability	0.893476
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 435774 90 + 23771897
AAGAAGUUGUAGACAAGCCAGGCAGACAGACAAACAAAUUAAGUCUGAAUGCUGUCAGCUUAAGAAGGCGAAGUACAAGAUCUUGAGAAA
((((..(((((((((.((.(..(((((...............)))))..))))))).((((....))))....)))))..))))...... ( -21.26)
>DroSec_CAF1 16847 90 + 1
AAGAAGUUGUAGACAAGUCAGGCAGACAGACAAACAAAUUAAGUCUGAAUGCUGUCAGCUUAAGAAGUCGAAGUACAAGAUCUUGAGGAA
((((..((((((((((((..((((..(((((...........)))))..))))....)))).....)))....)))))..))))...... ( -18.60)
>DroSim_CAF1 17069 90 + 1
AAGAAGUUGUAGACAAGUCAGGCAGACAGACAAACAAAUUAAGUCUGAAUGCUGUCAGCUUAAGAAGUCGAAGUACAAGAUCUUGAGGAA
((((..((((((((((((..((((..(((((...........)))))..))))....)))).....)))....)))))..))))...... ( -18.60)
>DroEre_CAF1 18836 90 + 1
AAGAAGUUGUAGGCAAGUCAGGCCGACAGACAAACAAAUUAAGUCUGAAUGUUGUCAGCUUAGGAAGUCAAAGUACCAGAUCUUGAGGGA
..((..((.(((((..(((.....))).(((((....(((.......))).))))).))))).))..))......((.........)).. ( -16.70)
>DroYak_CAF1 17372 89 + 1
AAGAAGUUGUAGACAAGUCAGGCAGACAGACAAACAAAUUAAGUCUGAAUGCUGUCAGCUUAAGAAGUCGAAGUACGAGAUCUUG-GAGA
...((((((..((....)).((((..(((((...........)))))..))))..))))))((((..(((.....)))..)))).-.... ( -20.00)
>consensus
AAGAAGUUGUAGACAAGUCAGGCAGACAGACAAACAAAUUAAGUCUGAAUGCUGUCAGCUUAAGAAGUCGAAGUACAAGAUCUUGAGGAA
((((..((((((((((((..(((((.(((((...........)))))....))))).)))).....)))....)))))..))))...... (-15.92 = -15.96 +   0.04)

alignment

secondary structure

dotplot

Window 1

Location	435,774 – 435,864
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	94.33
Mean single sequence MFE	-20.06
Consensus MFE	-16.32
Energy contribution	-17.40
Covariance contribution	1.08
Combinations/Pair	1.04
Mean z-score	-3.10
Structure conservation index	0.81
SVM decision value	2.72
SVM RNA-class probability	0.996590
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 435774 90 - 23771897
UUUCUCAAGAUCUUGUACUUCGCCUUCUUAAGCUGACAGCAUUCAGACUUAAUUUGUUUGUCUGUCUGCCUGGCUUGUCUACAACUUCUU
......((((..(((((....(((.......((.(((((((..((((.....))))..)).))))).))..))).....)))))..)))) ( -21.20)
>DroSec_CAF1 16847 90 - 1
UUCCUCAAGAUCUUGUACUUCGACUUCUUAAGCUGACAGCAUUCAGACUUAAUUUGUUUGUCUGUCUGCCUGACUUGUCUACAACUUCUU
......((((..(((((....(((...(((.((.(((((((..((((.....))))..)).))))).)).)))...))))))))..)))) ( -22.00)
>DroSim_CAF1 17069 90 - 1
UUCCUCAAGAUCUUGUACUUCGACUUCUUAAGCUGACAGCAUUCAGACUUAAUUUGUUUGUCUGUCUGCCUGACUUGUCUACAACUUCUU
......((((..(((((....(((...(((.((.(((((((..((((.....))))..)).))))).)).)))...))))))))..)))) ( -22.00)
>DroEre_CAF1 18836 90 - 1
UCCCUCAAGAUCUGGUACUUUGACUUCCUAAGCUGACAACAUUCAGACUUAAUUUGUUUGUCUGUCGGCCUGACUUGCCUACAACUUCUU
.....((((.((.((...........))...((((((((((..((((.....))))..))).)))))))..))))))............. ( -16.90)
>DroYak_CAF1 17372 89 - 1
UCUC-CAAGAUCUCGUACUUCGACUUCUUAAGCUGACAGCAUUCAGACUUAAUUUGUUUGUCUGUCUGCCUGACUUGUCUACAACUUCUU
....-.((((..(((.....)))..))))..((.(((((((..((((.....))))..)).))))).))..................... ( -18.20)
>consensus
UUCCUCAAGAUCUUGUACUUCGACUUCUUAAGCUGACAGCAUUCAGACUUAAUUUGUUUGUCUGUCUGCCUGACUUGUCUACAACUUCUU
......((((..(((((....(((...(((.((.(((((((..((((.....))))..)).))))).)).)))...))))))))..)))) (-16.32 = -17.40 +   1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:40 2006