Locus 113

Sequence ID	2L_DroMel_CAF1
Location	372,747 – 372,867
Length	120
Max. P	0.964424

overview

Window 7

Location	372,747 – 372,867
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.83
Mean single sequence MFE	-31.88
Consensus MFE	-27.88
Energy contribution	-27.68
Covariance contribution	-0.20
Combinations/Pair	1.08
Mean z-score	-1.70
Structure conservation index	0.87
SVM decision value	1.57
SVM RNA-class probability	0.964424
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 372747 120 + 22407834
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUCCCGACUUUCGGACCUGGCAUCCUCUUGAAGAUCUGCCUCCGAGGUAACCCCAGCCCAUCUAUUUAAUUACCAAUAUAUGUUG
..((((((((((..((....))..)))).((..((((.(((.....)))....((((...((.....))..))))...))))..))..)))))).......................... ( -31.00)
>DroSec_CAF1 40408 119 + 1
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUCCCGACUUUCGGACCUGGCAUCCUCUUGAAGAUCUGCCUCCGAGGUAACCCCAGCCCAUCUAUUUAA-UACCAAUAUAUGUUG
..((((((((((..((....))..)))).((..((((.(((.....)))....((((...((.....))..))))...))))..))..))))))..........-............... ( -31.00)
>DroSim_CAF1 41078 120 + 1
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUCCCGACUUUCGGACCUGGCAUCCUCUUGAAGAUCUGCCUCCGAGGUAACCCCAGCCCAUCUAUUUAAUUACCAAUAUAUGUUG
..((((((((((..((....))..)))).((..((((.(((.....)))....((((...((.....))..))))...))))..))..)))))).......................... ( -31.00)
>DroEre_CAF1 46972 120 + 1
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUGCCGACUUUCGGACUCGGCGUCCUCUCGAAGAUCUCCCUCCGAGGCAAGCUCAGCCCAUCCAUUUAAUUACCAAUAUAUGUUG
..((((((((((..((....))..))))....((.(((((.......((((.....))))..(((.((......)).)))))))))).)))))).......................... ( -33.60)
>DroYak_CAF1 41643 120 + 1
UCGGGCUGUUGAUGAACUCAUUUGUCAACGUCGCCUUGCCGACUUUCGGACGCGGCCUCCUCCCGAAGAUCUCCCUCUGAGGUAACCUCAGCCCAUCCAUUUAAUUACCAAUAUAUGUUG
(((((..(((((..((....))..)))))(((((....(((.....)))..))))).....)))))..........((((((...))))))............................. ( -32.80)
>consensus
UCGGGCUGUUGAUGAACUCAUUUGUCAAUGUCGCCUUCCCGACUUUCGGACCUGGCAUCCUCUUGAAGAUCUGCCUCCGAGGUAACCCCAGCCCAUCUAUUUAAUUACCAAUAUAUGUUG
..((((((((((..((....))..))))....(((...(((.....)))....)))....(((((.((......)).)))))......)))))).......................... (-27.88 = -27.68 +  -0.20)

alignment

secondary structure

dotplot

Window 8

Location	372,747 – 372,867
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.83
Mean single sequence MFE	-35.52
Consensus MFE	-32.14
Energy contribution	-32.66
Covariance contribution	0.52
Combinations/Pair	1.07
Mean z-score	-1.31
Structure conservation index	0.90
SVM decision value	0.68
SVM RNA-class probability	0.820612
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 372747 120 - 22407834
CAACAUAUAUUGGUAAUUAAAUAGAUGGGCUGGGGUUACCUCGGAGGCAGAUCUUCAAGAGGAUGCCAGGUCCGAAAGUCGGGAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
.........................(((((((..((((((((.((((.....))))..)))).((((...((((.....))))..))))....))))...(((.....))).))))))). ( -34.00)
>DroSec_CAF1 40408 119 - 1
CAACAUAUAUUGGUA-UUAAAUAGAUGGGCUGGGGUUACCUCGGAGGCAGAUCUUCAAGAGGAUGCCAGGUCCGAAAGUCGGGAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
...............-.........(((((((..((((((((.((((.....))))..)))).((((...((((.....))))..))))....))))...(((.....))).))))))). ( -34.00)
>DroSim_CAF1 41078 120 - 1
CAACAUAUAUUGGUAAUUAAAUAGAUGGGCUGGGGUUACCUCGGAGGCAGAUCUUCAAGAGGAUGCCAGGUCCGAAAGUCGGGAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
.........................(((((((..((((((((.((((.....))))..)))).((((...((((.....))))..))))....))))...(((.....))).))))))). ( -34.00)
>DroEre_CAF1 46972 120 - 1
CAACAUAUAUUGGUAAUUAAAUGGAUGGGCUGAGCUUGCCUCGGAGGGAGAUCUUCGAGAGGACGCCGAGUCCGAAAGUCGGCAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
...(((.((........)).)))..(((((((.......((((((((....)))))))).(((((((..(.(((.....))))..)))..((((....)))).)))).....))))))). ( -39.20)
>DroYak_CAF1 41643 120 - 1
CAACAUAUAUUGGUAAUUAAAUGGAUGGGCUGAGGUUACCUCAGAGGGAGAUCUUCGGGAGGAGGCCGCGUCCGAAAGUCGGCAAGGCGACGUUGACAAAUGAGUUCAUCAACAGCCCGA
...(((.((........)).)))..(((((((.(((..((((.((((.....))))..))))..)))..(((.....((((......))))...)))...(((.....))).))))))). ( -36.40)
>consensus
CAACAUAUAUUGGUAAUUAAAUAGAUGGGCUGGGGUUACCUCGGAGGCAGAUCUUCAAGAGGAUGCCAGGUCCGAAAGUCGGGAAGGCGACAUUGACAAAUGAGUUCAUCAACAGCCCGA
.........................(((((((..((((((((.((((.....))))..)))).((((...((((.....))))..))))....))))...(((.....))).))))))). (-32.14 = -32.66 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:26:11 2006