Locus 6645

Sequence ID	2R_DroMel_CAF1
Location	20,759,345 – 20,759,505
Length	160
Max. P	0.875255

overview

Window 5

Location	20,759,345 – 20,759,465
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	86.81
Mean single sequence MFE	-24.88
Consensus MFE	-19.19
Energy contribution	-20.88
Covariance contribution	1.69
Combinations/Pair	1.12
Mean z-score	-1.68
Structure conservation index	0.77
SVM decision value	0.39
SVM RNA-class probability	0.716479
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20759345 120 - 20766785
UCAUUUCGACAGCUGUUAUGGCUUUUUAUUACACACAUCCAAUGUAAUUCGUUACAAAUUUGAUGUGUUUCUAUUUUCUGCAAAACGGGAAAAAUAAAAAAAAAUGUAAUAAAUCCUGAG
(((.......((((.....)))).(((((((((((((((.(((((((....)))))..)).))))))).....(((((((.....))))))).............))))))))...))). ( -22.70)
>DroSec_CAF1 4680 109 - 1
UCAUUUCGACAGCUGUUAUGGCUUUUUAUUACACACAUCAAAUGUAAUUCGUUACAAAUUUGAUGUGUUUCUAU---CCGUAAAACGGGAAA--------AAAUUAUAAUAUAUCCUGGG
.........(((.((((((((.(((((.....(((((((((((((((....)))))..)))))))))).....(---(((.....)))))))--------)).))))))))....))).. ( -24.80)
>DroEre_CAF1 4111 120 - 1
UCAUUUCGACAGCUGUUUUGGCUUUUUAUUACACGCAUCAAAUGUAAUUUGUUACAAAUUUGAUGUGUUUCUUUCUUCUGCAGAACGGAAAAAAUAAAAAAAAUUGAGAUAAAUCCUGGG
..(((((((..(((.....)))((((((((..(((((((((((((((....)))))..)))))))))).......(((((.....)))))..))))))))...))))))).......... ( -25.40)
>DroYak_CAF1 26725 120 - 1
UCAUUUCGACAGCUGUUCUGGCUUUUUAUUACACGCAUCAAAGGUAAUUUGUUACAAAUUUGAUGUGUUUCUAUUUUCUGCCAAACGGGAAAAAUAAAAAAAAUGGAGAUAAAUCCUGGG
............(((((.((((..........((((((((((.((((....))))...))))))))))...........)))))))))................(((......))).... ( -26.60)
>consensus
UCAUUUCGACAGCUGUUAUGGCUUUUUAUUACACACAUCAAAUGUAAUUCGUUACAAAUUUGAUGUGUUUCUAUUUUCUGCAAAACGGGAAAAAUAAAAAAAAUUGAAAUAAAUCCUGGG
..........((((.....)))).(((((((((((((((((((((((....)))))..)))))))))).....(((((((.....))))))).............))))))))....... (-19.19 = -20.88 +   1.69)

alignment

secondary structure

dotplot

Window 6

Location	20,759,385 – 20,759,505
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	93.33
Mean single sequence MFE	-29.43
Consensus MFE	-26.31
Energy contribution	-26.88
Covariance contribution	0.56
Combinations/Pair	1.06
Mean z-score	-1.83
Structure conservation index	0.89
SVM decision value	0.89
SVM RNA-class probability	0.875255
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20759385 120 - 20766785
AAAAUGCGGUGUGAAAGCCUAUUGAUGGAAGAAAGAAGUUUCAUUUCGACAGCUGUUAUGGCUUUUUAUUACACACAUCCAAUGUAAUUCGUUACAAAUUUGAUGUGUUUCUAUUUUCUG
........(((.(((((((...((((((......(((((...))))).....)))))).)))))))...)))(((((((.(((((((....)))))..)).)))))))............ ( -25.30)
>DroSec_CAF1 4712 117 - 1
AAAAUGCGGUGUGAAAGCCUAUUGAUGGACGAGAGAACUUUCAUUUCGACAGCUGUUAUGGCUUUUUAUUACACACAUCAAAUGUAAUUCGUUACAAAUUUGAUGUGUUUCUAU---CCG
........(((.(((((((...((((((.(((((((....)).)))))....)))))).)))))))...)))(((((((((((((((....)))))..))))))))))......---... ( -31.10)
>DroEre_CAF1 4151 120 - 1
AAAAUGCGGUGUGAAAGCCUAUUGAUGGGAGAGAGAACUUUCAUUUCGACAGCUGUUUUGGCUUUUUAUUACACGCAUCAAAUGUAAUUUGUUACAAAUUUGAUGUGUUUCUUUCUUCUG
..((((.(((......)))))))...(((((((((((.............((((.....)))).........(((((((((((((((....)))))..))))))))))))))))))))). ( -31.50)
>DroYak_CAF1 26765 120 - 1
AAAAUGCGGUGUGAAAGCCUAUUGAUGGAAGAGAGAACUUUCAUUUCGACAGCUGUUCUGGCUUUUUAUUACACGCAUCAAAGGUAAUUUGUUACAAAUUUGAUGUGUUUCUAUUUUCUG
........(((.(((((((....((((((((......))))))))..(((....)))..)))))))...)))((((((((((.((((....))))...))))))))))............ ( -29.80)
>consensus
AAAAUGCGGUGUGAAAGCCUAUUGAUGGAAGAGAGAACUUUCAUUUCGACAGCUGUUAUGGCUUUUUAUUACACACAUCAAAUGUAAUUCGUUACAAAUUUGAUGUGUUUCUAUUUUCUG
........(((.(((((((....((((((((......))))))))..(((....)))..)))))))...)))(((((((((((((((....)))))..))))))))))............ (-26.31 = -26.88 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:07 2006