Locus 3097

Sequence ID 3R_DroMel_CAF1
Location 8,185,196 – 8,185,304
Length 108
Max. P 0.948157
window5026 window5027

overview

Window 6

Location 8,185,196 – 8,185,304
Length 108
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 70.72
Mean single sequence MFE -20.33
Consensus MFE -13.00
Energy contribution -13.12
Covariance contribution 0.12
Combinations/Pair 1.18
Mean z-score -1.34
Structure conservation index 0.64
SVM decision value 0.49
SVM RNA-class probability 0.756037
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8185196 108 + 27905053
UGGGUUACAGAUUGCUCUUAAAAUAUAUACAUACAUAGGUGCAAAUUCACGAGUAUCUACUUAAAUCAAAAAUUCUAGCAAGUCGCUAGAAUUCUAC------U-AAUCUACUAA
(((((((.((((.((((........(((......))).(((......)))))))))))............(((((((((.....)))))))))....------)-)))))).... ( -19.90)
>DroSec_CAF1 7053 95 + 1
UGGGCUACAGAUUGCUCCUAAAAUGUGUAUGUACUUAGGUGCAAAUUCUCGAGUACGUACUCAAAUCAAA--------------------AAGCAGCCGCAAUUAAGAAUACGUA
((((((.......(((.......((.(((((((((..((........))..))))))))).)).......--------------------.))))))).)).............. ( -21.27)
>DroSim_CAF1 6953 115 + 1
UGGGCUACAGAUUGCUCCUAAAAUAUGUAUUUACUUAGGUGCAAAUUCUCGAGUACGUACUCAAAUCAUAAAUUCUAGUAAGUCACUUCAAAGCAGCCGCAAUUAAAAAUACGUA
((((((.(...((((.(((((.............))))).))))......((((((.((((..(((.....)))..)))).)).))))....).)))).)).............. ( -19.82)
>consensus
UGGGCUACAGAUUGCUCCUAAAAUAUGUAUAUACUUAGGUGCAAAUUCUCGAGUACGUACUCAAAUCAAAAAUUCUAG_AAGUC_CU__AAAGCAGCCGCAAUUAAAAAUACGUA
..((((.....((((.(((((.............))))).))))......((((....))))................................))))................. (-13.00 = -13.12 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 8,185,196 – 8,185,304
Length 108
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 70.72
Mean single sequence MFE -25.60
Consensus MFE -13.94
Energy contribution -15.83
Covariance contribution 1.89
Combinations/Pair 1.04
Mean z-score -2.00
Structure conservation index 0.54
SVM decision value 1.38
SVM RNA-class probability 0.948157
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8185196 108 - 27905053
UUAGUAGAUU-A------GUAGAAUUCUAGCGACUUGCUAGAAUUUUUGAUUUAAGUAGAUACUCGUGAAUUUGCACCUAUGUAUGUAUAUAUUUUAAGAGCAAUCUGUAACCCA
....((((((-.------((.((((((((((.....))))))))))((((..((.(((.((((..(((......)))....)))).))).))..))))..))))))))....... ( -23.70)
>DroSec_CAF1 7053 95 - 1
UACGUAUUCUUAAUUGCGGCUGCUU--------------------UUUGAUUUGAGUACGUACUCGAGAAUUUGCACCUAAGUACAUACACAUUUUAGGAGCAAUCUGUAGCCCA
...(((........)))((((((..--------------------.....(((((((....)))))))...((((.((((((...........)))))).))))...)))))).. ( -25.50)
>DroSim_CAF1 6953 115 - 1
UACGUAUUUUUAAUUGCGGCUGCUUUGAAGUGACUUACUAGAAUUUAUGAUUUGAGUACGUACUCGAGAAUUUGCACCUAAGUAAAUACAUAUUUUAGGAGCAAUCUGUAGCCCA
...(((........)))((((((...((..((.(((.((((((..((((.(((((((....))))))).((((((......)))))).))))))))))))))).)).)))))).. ( -27.60)
>consensus
UACGUAUUUUUAAUUGCGGCUGCUUU__AG_GACUU_CUAGAAUUUUUGAUUUGAGUACGUACUCGAGAAUUUGCACCUAAGUAAAUACAUAUUUUAGGAGCAAUCUGUAGCCCA
.................((((((...........................(((((((....)))))))...((((.((((((...........)))))).))))...)))))).. (-13.94 = -15.83 +   1.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:01 2006