Locus 2952

Sequence ID 3L_DroMel_CAF1
Location 8,428,857 – 8,428,973
Length 116
Max. P 0.998320
window4617 window4618

overview

Window 7

Location 8,428,857 – 8,428,973
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 78.34
Mean single sequence MFE -27.93
Consensus MFE -17.53
Energy contribution -17.53
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.16
Structure conservation index 0.63
SVM decision value 1.17
SVM RNA-class probability 0.925333
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8428857 116 + 23771897
AGAAUAUCAGACAGAAUU----CGGCUUGACUUUUGUGUUCGAAACUUAGCUUGAAAAAGCCUGUGAGAUUUGCUUUUGUUUUUUCAAACACUCGCGAGGAAAAUUCCUGGCGAGGAGUU
.((((.....((((((.(----(.....)).))))))))))..(((((.(.((((((((((....(((.....)))..)))))))))).).(((((.((((....)))).)))))))))) ( -31.80)
>DroSec_CAF1 10721 97 + 1
AGAAUAUCAGACAGAAUUGAAUCGGAUUGACUUUUGUGUUGGAAA-----------------------AUAUGUUUUUGUUUUUUCGAACACUCGCAAGGAAAAUUCCUGGCGAGGAGUU
.........(((.........(((((..(((...((((((....)-----------------------))))).....)))..)))))...(((((.((((....)))).)))))..))) ( -24.10)
>DroSim_CAF1 17325 97 + 1
AGAAUAGCAGACAGAAUUCAAUCAGAUUGACUUUUGUGUUCGAAA-----------------------AUUUGUUUUUGUUUUUUCGAAAACUCGCGAGGAAAAUUCCUGGCGAGGAGUU
..........((((((.(((((...))))).)))))).(((((((-----------------------(..(......)..))))))))..(((((.((((....)))).)))))..... ( -27.90)
>consensus
AGAAUAUCAGACAGAAUU_AAUCGGAUUGACUUUUGUGUUCGAAA_______________________AUUUGUUUUUGUUUUUUCGAACACUCGCGAGGAAAAUUCCUGGCGAGGAGUU
.(((....((((((((..........................................................)))))))).))).....(((((.((((....)))).)))))..... (-17.53 = -17.53 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 8,428,857 – 8,428,973
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 78.34
Mean single sequence MFE -21.98
Consensus MFE -16.93
Energy contribution -18.16
Covariance contribution 1.22
Combinations/Pair 1.04
Mean z-score -2.72
Structure conservation index 0.77
SVM decision value 3.07
SVM RNA-class probability 0.998320
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8428857 116 - 23771897
AACUCCUCGCCAGGAAUUUUCCUCGCGAGUGUUUGAAAAAACAAAAGCAAAUCUCACAGGCUUUUUCAAGCUAAGUUUCGAACACAAAAGUCAAGCCG----AAUUCUGUCUGAUAUUCU
......((((.((((....)))).))))((((((((((....((((((...........))))))..........))))))))))....((((..(.(----....).)..))))..... ( -26.74)
>DroSec_CAF1 10721 97 - 1
AACUCCUCGCCAGGAAUUUUCCUUGCGAGUGUUCGAAAAAACAAAAACAUAU-----------------------UUUCCAACACAAAAGUCAAUCCGAUUCAAUUCUGUCUGAUAUUCU
......((((.((((....)))).))))(((((.(((((............)-----------------------)))).)))))....((((..(.((......)).)..))))..... ( -20.00)
>DroSim_CAF1 17325 97 - 1
AACUCCUCGCCAGGAAUUUUCCUCGCGAGUUUUCGAAAAAACAAAAACAAAU-----------------------UUUCGAACACAAAAGUCAAUCUGAUUGAAUUCUGUCUGCUAUUCU
.....(((((.((((....)))).)))))..((((((((............)-----------------------))))))).(((.((.(((((...))))).)).))).......... ( -19.20)
>consensus
AACUCCUCGCCAGGAAUUUUCCUCGCGAGUGUUCGAAAAAACAAAAACAAAU_______________________UUUCGAACACAAAAGUCAAUCCGAUU_AAUUCUGUCUGAUAUUCU
......((((.((((....)))).))))((((((((((.....................................))))))))))....((((..(.((......)).)..))))..... (-16.93 = -18.16 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:00 2006