Locus 3944

Sequence ID 3R_DroMel_CAF1
Location 10,675,745 – 10,675,836
Length 91
Max. P 0.670455
window6322 window6323

overview

Window 2

Location 10,675,745 – 10,675,836
Length 91
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 95.84
Mean single sequence MFE -17.76
Consensus MFE -16.72
Energy contribution -17.36
Covariance contribution 0.64
Combinations/Pair 1.11
Mean z-score -1.15
Structure conservation index 0.94
SVM decision value 0.29
SVM RNA-class probability 0.670455
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10675745 91 + 27905053
GCCCCAUUUUGCGGCUUGUUUACAGAUUUUUCCGUCACAUUCACAAAAGUGUUUCACAGCCAUUUUGGCCAUUGAAUUUGUCAAGCU-CAAA
.......((((.((((((...((((((((....(..(((((......)))))..)...(((.....)))....))))))))))))))-)))) ( -18.80)
>DroSec_CAF1 17116 91 + 1
GCCCCAUUUUGCAGCUUGUUUACAGAUUUUUCCGUCACAUUCACAAAAGUGUUUCACAGCCAUUUUGGCCAUUGAAUUUGUCAGGCU-AAAA
((........))((((((...((((((((....(..(((((......)))))..)...(((.....)))....))))))))))))))-.... ( -18.00)
>DroSim_CAF1 19154 92 + 1
GCCCCAUUUUGCAGCUUGUUUACAGAUUUUUCCGUCACAUUCACAAAAGUGUUUCACAGCCAUUUUGGCCAUUGAAUUUGUCAGGCUCAAAA
......(((((.((((((...((((((((....(..(((((......)))))..)...(((.....)))....))))))))))))))))))) ( -20.40)
>DroEre_CAF1 14338 89 + 1
G-CCCAUUUUGCAGCUUGUUUACAGAUUUUUCCGUCGCAUUCACAAAAGUGUUUCACAGCCAUUUUGGCCAUUGAAUUUGUCA-GCA-CAAA
.-..............((((.((((((((....(..(((((......)))))..)...(((.....)))....)))))))).)-)))-.... ( -14.60)
>DroYak_CAF1 9177 91 + 1
GACCCAUUUUGCAGCUUGUUUACAGAUUUUUCCGUCACAUUCACAAAAGUGUUUCACAGCCAUUUUGGCCAUUGAAUUUGUCAGGCA-CAAA
.............(((((...((((((((....(..(((((......)))))..)...(((.....)))....))))))))))))).-.... ( -17.00)
>consensus
GCCCCAUUUUGCAGCUUGUUUACAGAUUUUUCCGUCACAUUCACAAAAGUGUUUCACAGCCAUUUUGGCCAUUGAAUUUGUCAGGCU_CAAA
.......((((.((((((...((((((((....(..(((((......)))))..)...(((.....)))....)))))))))))))).)))) (-16.72 = -17.36 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 10,675,745 – 10,675,836
Length 91
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 95.84
Mean single sequence MFE -21.66
Consensus MFE -17.48
Energy contribution -17.96
Covariance contribution 0.48
Combinations/Pair 1.03
Mean z-score -1.51
Structure conservation index 0.81
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10675745 91 - 27905053
UUUG-AGCUUGACAAAUUCAAUGGCCAAAAUGGCUGUGAAACACUUUUGUGAAUGUGACGGAAAAAUCUGUAAACAAGCCGCAAAAUGGGGC
((((-.((((((((..((((.(((((.....))))))))).(((....)))..))).(((((....)))))...)))))..))))....... ( -23.00)
>DroSec_CAF1 17116 91 - 1
UUUU-AGCCUGACAAAUUCAAUGGCCAAAAUGGCUGUGAAACACUUUUGUGAAUGUGACGGAAAAAUCUGUAAACAAGCUGCAAAAUGGGGC
....-.((((......((((.(((((.....))))))))).((.(((((((..(((.(((((....)))))..)))..).)))))))))))) ( -22.60)
>DroSim_CAF1 19154 92 - 1
UUUUGAGCCUGACAAAUUCAAUGGCCAAAAUGGCUGUGAAACACUUUUGUGAAUGUGACGGAAAAAUCUGUAAACAAGCUGCAAAAUGGGGC
......((((......((((.(((((.....))))))))).((.(((((((..(((.(((((....)))))..)))..).)))))))))))) ( -22.60)
>DroEre_CAF1 14338 89 - 1
UUUG-UGC-UGACAAAUUCAAUGGCCAAAAUGGCUGUGAAACACUUUUGUGAAUGCGACGGAAAAAUCUGUAAACAAGCUGCAAAAUGGG-C
((((-(((-(......((((.(((((.....))))))))).(((....)))..((..(((((....)))))...))))).))))).....-. ( -19.50)
>DroYak_CAF1 9177 91 - 1
UUUG-UGCCUGACAAAUUCAAUGGCCAAAAUGGCUGUGAAACACUUUUGUGAAUGUGACGGAAAAAUCUGUAAACAAGCUGCAAAAUGGGUC
((((-(((.(((((..((((.(((((.....))))))))).(((....)))..))).(((((....)))))...)).)).)))))....... ( -20.60)
>consensus
UUUG_AGCCUGACAAAUUCAAUGGCCAAAAUGGCUGUGAAACACUUUUGUGAAUGUGACGGAAAAAUCUGUAAACAAGCUGCAAAAUGGGGC
......((((......((((.(((((.....))))))))).((.(((((((..((..(((((....)))))...))..).)))))))))))) (-17.48 = -17.96 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:07 2006