Locus 637

Sequence ID	3L_DroMel_CAF1
Location	1,882,119 – 1,882,210
Length	91
Max. P	0.998191

overview

Window 6

Location	1,882,119 – 1,882,210
Length	91
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	76.27
Mean single sequence MFE	-27.42
Consensus MFE	-9.52
Energy contribution	-10.78
Covariance contribution	1.26
Combinations/Pair	1.11
Mean z-score	-2.89
Structure conservation index	0.35
SVM decision value	3.03
SVM RNA-class probability	0.998191
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1882119 91 + 23771897
ACGGCUAUUGCAAAUCG------GGU-UUCUCAGCCCGAUGGGAAGAUACAUACAUAUAGCAAUAUA--UUCAGGUAUGUAGGCAUAUAGGCAUAUAGUC
..(((((((((..((((------(((-......))))))).....(.((((((((((((....))))--)....)))))))..)......))).)))))) ( -27.80)
>DroSec_CAF1 4655 82 + 1
ACGGCUAUUGCGAAUCG------GGUUUUCUCAGCCCGAUGGGAAGAUAC----AUAUAGCCAUAUACAAUGUAGUAUGUAGGC--------AUAUAGCC
..((((((..(..((((------((((.....))))))))..).......----.....(((((((((......)))))).)))--------..)))))) ( -27.40)
>DroSim_CAF1 4680 90 + 1
ACGGCUAUUGCGAAUCG------GGUUUUCUCAGCCCGAUGCGAAGAUAC----AUAUAGCCAUAUACAUUGUAGUAUGUAGGCAUAUAGGCAUAUAGCC
..((((((((((.((((------((((.....)))))))).)........----.(((((((((((((......)))))).))).)))).))).)))))) ( -32.90)
>DroEre_CAF1 4565 88 + 1
ACGCCUAUUGCAAAUCGAGCGAGGGU-UUCCGAGCGCCAUGGGAAGAUAC----AUAUAGCCAUAUAG------GCAUAU-GCCAUAUAGGCAUAUAGCC
..((((((.((.....(.(((.((..-..))...))))(((........)----))...))...))))------))((((-(((.....))))))).... ( -26.10)
>DroYak_CAF1 4699 75 + 1
ACGGCUAUUGCAAAUCG------GGU-UUCUGAGCGCGCUGGGAAGAUAC----AUAUAGCCAUAUAG------GCA--------UAUAGGCAUAUAGCC
..(((((((((.....(------..(-((((.((....)).)))))...)----.(((((((.....)------)).--------)))).))).)))))) ( -22.90)
>consensus
ACGGCUAUUGCAAAUCG______GGU_UUCUCAGCCCGAUGGGAAGAUAC____AUAUAGCCAUAUAC__U___GUAUGUAGGCAUAUAGGCAUAUAGCC
..(((((((((................((((((......))))))..........((((....)))).......................))).)))))) ( -9.52 = -10.78 +   1.26)

alignment

secondary structure

dotplot

Window 7

Location	1,882,119 – 1,882,210
Length	91
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	76.27
Mean single sequence MFE	-23.72
Consensus MFE	-4.62
Energy contribution	-5.66
Covariance contribution	1.04
Combinations/Pair	1.06
Mean z-score	-2.41
Structure conservation index	0.19
SVM decision value	1.99
SVM RNA-class probability	0.984879
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1882119 91 - 23771897
GACUAUAUGCCUAUAUGCCUACAUACCUGAA--UAUAUUGCUAUAUGUAUGUAUCUUCCCAUCGGGCUGAGAA-ACC------CGAUUUGCAAUAGCCGU
......(((.((((.(((.(((((((....(--((((....)))))))))))).......((((((.......-.))------))))..))))))).))) ( -19.10)
>DroSec_CAF1 4655 82 - 1
GGCUAUAU--------GCCUACAUACUACAUUGUAUAUGGCUAUAU----GUAUCUUCCCAUCGGGCUGAGAAAACC------CGAUUCGCAAUAGCCGU
((((((.(--------((.((((((...(((.....)))....)))----))).......((((((.........))------))))..))))))))).. ( -23.40)
>DroSim_CAF1 4680 90 - 1
GGCUAUAUGCCUAUAUGCCUACAUACUACAAUGUAUAUGGCUAUAU----GUAUCUUCGCAUCGGGCUGAGAAAACC------CGAUUCGCAAUAGCCGU
((((((((((.((((.(((...((((......))))..))))))).----))))....((((((((.........))------))))..)).)))))).. ( -29.00)
>DroEre_CAF1 4565 88 - 1
GGCUAUAUGCCUAUAUGGC-AUAUGC------CUAUAUGGCUAUAU----GUAUCUUCCCAUGGCGCUCGGAA-ACCCUCGCUCGAUUUGCAAUAGGCGU
(((.(((((((.....)))-))))))------)...(((.((((.(----(((...((....((((...(...-.)...)))).))..)))))))).))) ( -28.50)
>DroYak_CAF1 4699 75 - 1
GGCUAUAUGCCUAUA--------UGC------CUAUAUGGCUAUAU----GUAUCUUCCCAGCGCGCUCAGAA-ACC------CGAUUUGCAAUAGCCGU
((((((((((.((((--------.((------(.....))))))).----)))).........(((.((....-...------.))..))).)))))).. ( -18.60)
>consensus
GGCUAUAUGCCUAUAUGCCUACAUAC___A__CUAUAUGGCUAUAU____GUAUCUUCCCAUCGGGCUGAGAA_ACC______CGAUUUGCAAUAGCCGU
((((((.(((.......................((((....))))........((((..(.....)..)))).................))))))))).. ( -4.62 =  -5.66 +   1.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:20 2006