Locus 8449

Sequence ID	X_DroMel_CAF1
Location	21,007,247 – 21,007,409
Length	162
Max. P	0.961800

overview

Window 0

Location	21,007,247 – 21,007,342
Length	95
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	79.62
Mean single sequence MFE	-22.92
Consensus MFE	-14.52
Energy contribution	-14.85
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.52
Structure conservation index	0.63
SVM decision value	0.20
SVM RNA-class probability	0.630200
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21007247 95 - 22224390
AAAUUAUGCAUUCAUAAAGCAGU------UGCAUUCGGAGUGCC-------AGUGCCG-AGCAUGGCCAUAAAACACUCGCUGAAUGCAAUUUUAGCCACC----------UCCACCGC
...(((((....))))).(((((------(((((((((((((..-------.(((((.-.....)).)))....)))))..)))))))))))...))....----------........ ( -22.10)
>DroSec_CAF1 89001 96 - 1
AAAUUAUGCAUUCAUAAAGCAGU------UGCAUUCGGAGUGCCG------AGUACCG-AGCAUGGCCAUAAAACACUCGCUGAAUGCAAUUUUAGCCACC----------UCCACCGC
......((((((((....((...------.))....((.((((((------.....))-.))))..)).............))))))))............----------........ ( -20.60)
>DroSim_CAF1 104529 96 - 1
AAAUUAUGCAUUCAUAAAGCAGU------UGCAUUCGGAGUGCCG------AGUGCCG-AGCAUGGCCAUAAAACACUCGCUGAAUGCAAUUUUAGCCACC----------UCCACCGC
......((((((((....((...------.((((((((....)))------))))).(-((..((.........)))))))))))))))............----------........ ( -24.80)
>DroEre_CAF1 29723 89 - 1
AAAUUAUGCAUUCAUAAAGCAGC------UGCAUUCGGAGUGC-------------CG-AACAUGGCCAUAAAACACUCGCUGAAUGCAAUUUUCGCCACC----------ACCACCAC
......((((((((....((...------.)).....((((((-------------(.-.....)))........))))..))))))))............----------........ ( -17.40)
>DroYak_CAF1 35190 99 - 1
AAAUUAUGCAUUCAUAAAGCAGU------UGCAUUCGGAGUGC-------------CG-AACAUGGCCAUAAAACACUCGCUGAAUGCAAUUUUCGCCACCUCUUACUUCCACCUCCAC
...(((((....))))).(((((------((((((((((((((-------------(.-.....)))........))))..)))))))))))...))...................... ( -18.50)
>DroAna_CAF1 41213 104 - 1
AAAUUAUGCAUUCAUAAAGCAGCUCCAGCUGCAGUCGCAGUCGCAGUUGCAGUUGCAGUCGCAGGACCAUAAAGCACUCGCUGAAUGCAAUUUUCAUU--C----------CCCAC---
......(((((((.....((.(((.(((((((((..((....))..))))))))).))).))..........(((....)))))))))).........--.----------.....--- ( -34.10)
>consensus
AAAUUAUGCAUUCAUAAAGCAGU______UGCAUUCGGAGUGCC_______AGUGCCG_AGCAUGGCCAUAAAACACUCGCUGAAUGCAAUUUUAGCCACC__________UCCACCGC
......((((((((....(((........))).....(((((................................)))))..)))))))).............................. (-14.52 = -14.85 +   0.33)

alignment

secondary structure

dotplot

Window 1

Location	21,007,309 – 21,007,409
Length	100
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	91.51
Mean single sequence MFE	-31.23
Consensus MFE	-25.88
Energy contribution	-25.63
Covariance contribution	-0.25
Combinations/Pair	1.10
Mean z-score	-2.93
Structure conservation index	0.83
SVM decision value	1.53
SVM RNA-class probability	0.961800
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21007309 100 + 22224390
UCCGAAUGCA------ACUGCUUUAUGAAUGCAUAAUUUUAU--UAUGCACAAAUUCUAUUUACAACGCGACACGUUGCGU---GAACGGUUCAUGAGGCGCAAAUGCGAG
......((((------..(((((((((((((((((((...))--)))))................((((((....))))))---.....))))))))))))....)))).. ( -29.30)
>DroSec_CAF1 89064 100 + 1
UCCGAAUGCA------ACUGCUUUAUGAAUGCAUAAUUUUAU--UAUGCACAAAAUCUAUUUACAACGCGACACGUUGCGU---GAACGGUUCAUGAGGCGCAAAUGCGAG
......((((------..(((((((((((((((((((...))--)))))................((((((....))))))---.....))))))))))))....)))).. ( -29.30)
>DroSim_CAF1 104592 100 + 1
UCCGAAUGCA------ACUGCUUUAUGAAUGCAUAAUUUUAU--UAUGCACAAAUUCUAUUUACAACGCGACACGUUGCGU---GAACGGUUCAUGAGGCGCAAAUGCGAG
......((((------..(((((((((((((((((((...))--)))))................((((((....))))))---.....))))))))))))....)))).. ( -29.30)
>DroEre_CAF1 29779 100 + 1
UCCGAAUGCA------GCUGCUUUAUGAAUGCAUAAUUUUAU--UAUGCACAAAUUCUAUUUACAACGCGACACGUUGCGU---GAACGGUUCAUGAGGCGCAAGUGCGAG
......((((------((.((((((((((((((((((...))--)))))................((((((....))))))---.....)))))))))))))...)))).. ( -30.60)
>DroYak_CAF1 35256 103 + 1
UCCGAAUGCA------ACUGCUUUAUGAAUGCAUAAUUUUAU--UAUGCACAAAUUCUAUUUACAACGCGACACGUUGCGUGGUGAACGGUUCAUGAGGCGCACAUGCGAG
......((((------..(((((((((((((((((((...))--))))))......(..(((((.((((((....)))))).)))))..))))))))))))....)))).. ( -33.70)
>DroAna_CAF1 41278 108 + 1
UGCGACUGCAGCUGGAGCUGCUUUAUGAAUGCAUAAUUUUAUUUUAUGCACAAAUUCUAUUUACAACGCGACACGUUGCGU---GAACGGUUCAUAAAGUUGCUAUGCCCG
.(((((((((((....))))).((((((((((((((.......))))))................((((((....))))))---.....))))))))))))))........ ( -35.20)
>consensus
UCCGAAUGCA______ACUGCUUUAUGAAUGCAUAAUUUUAU__UAUGCACAAAUUCUAUUUACAACGCGACACGUUGCGU___GAACGGUUCAUGAGGCGCAAAUGCGAG
.......(((........(((((((((((((((((.........))))))......(..(((...((((((....))))))...)))..))))))))))))....)))... (-25.88 = -25.63 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:18 2006