Locus 3869

Sequence ID 3R_DroMel_CAF1
Location 10,529,180 – 10,529,274
Length 94
Max. P 0.995817
window6198 window6199

overview

Window 8

Location 10,529,180 – 10,529,274
Length 94
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 90.57
Mean single sequence MFE -24.55
Consensus MFE -22.21
Energy contribution -22.21
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.98
Structure conservation index 0.90
SVM decision value 2.62
SVM RNA-class probability 0.995817
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10529180 94 + 27905053
AAAUGCCGCUGGCAAACGUCUAAUCUUAUCGAGGCCAUAACUCGCAUACAUAGUGCGGCAAGAAAGCAAAACAAAA-CCAGCGGACAAAAGUAUA
...(((((((((....((((((....(((((((.......)))).)))..))).)))((......)).........-))))))).))........ ( -24.20)
>DroSec_CAF1 4499 94 + 1
AAAUGCCGCUGGCAAACGUCUAAUCUUAUCGAGGCCAUAACUCGCAUACAUAGUGCGGCAAGAAAGCAAAACAAAA-CCAGCGGACUAAAAUGUA
.....(((((((....((((((....(((((((.......)))).)))..))).)))((......)).........-)))))))........... ( -23.20)
>DroEre_CAF1 4210 89 + 1
AAAUGCCGCUGGCGAACGUCUAAUCUUAUCGAGGCCAUAACUCGCAU----AGUGCGGCAAGAAAGCAAAACAAAA-CCAGCGGGCAAACAAGU-
...(((((((((..............(((((((.......)))).))----)((...((......))...))....-))))).)))).......- ( -23.20)
>DroYak_CAF1 3208 90 + 1
AAAUGCCGCUGGCAAAUGUCUAAUCUUAUCGAGGCCAUAACUCGCAU----AGUGCGGCAAGAAAGCAAAACAAAAGCCAGCGGACAAAUAAGC-
...((((((((((.............(((((((.......)))).))----)((...((......))...))....)))))))).)).......- ( -27.60)
>consensus
AAAUGCCGCUGGCAAACGUCUAAUCUUAUCGAGGCCAUAACUCGCAU____AGUGCGGCAAGAAAGCAAAACAAAA_CCAGCGGACAAAAAAGU_
.....(((((((...........((((..((((.......)))((((.....)))))..))))..............)))))))........... (-22.21 = -22.21 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 10,529,180 – 10,529,274
Length 94
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 90.57
Mean single sequence MFE -27.30
Consensus MFE -23.81
Energy contribution -23.62
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -2.39
Structure conservation index 0.87
SVM decision value 1.78
SVM RNA-class probability 0.976737
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10529180 94 - 27905053
UAUACUUUUGUCCGCUGG-UUUUGUUUUGCUUUCUUGCCGCACUAUGUAUGCGAGUUAUGGCCUCGAUAAGAUUAGACGUUUGCCAGCGGCAUUU
........((.(((((((-(..(((((..(((((..((((.(((.((....)))))..))))...)).)))...)))))...))))))))))... ( -27.20)
>DroSec_CAF1 4499 94 - 1
UACAUUUUAGUCCGCUGG-UUUUGUUUUGCUUUCUUGCCGCACUAUGUAUGCGAGUUAUGGCCUCGAUAAGAUUAGACGUUUGCCAGCGGCAUUU
.........(.(((((((-(..(((((..(((((..((((.(((.((....)))))..))))...)).)))...)))))...))))))))).... ( -26.70)
>DroEre_CAF1 4210 89 - 1
-ACUUGUUUGCCCGCUGG-UUUUGUUUUGCUUUCUUGCCGCACU----AUGCGAGUUAUGGCCUCGAUAAGAUUAGACGUUCGCCAGCGGCAUUU
-.......((((.(((((-(..(((((..(((((..((((.(((----.....)))..))))...)).)))...)))))...))))))))))... ( -26.00)
>DroYak_CAF1 3208 90 - 1
-GCUUAUUUGUCCGCUGGCUUUUGUUUUGCUUUCUUGCCGCACU----AUGCGAGUUAUGGCCUCGAUAAGAUUAGACAUUUGCCAGCGGCAUUU
-.......((.((((((((...(((((..(((((..((((.(((----.....)))..))))...)).)))...)))))...))))))))))... ( -29.30)
>consensus
_ACAUUUUUGUCCGCUGG_UUUUGUUUUGCUUUCUUGCCGCACU____AUGCGAGUUAUGGCCUCGAUAAGAUUAGACGUUUGCCAGCGGCAUUU
.........(.(((((((....(((((.....(((((.((((.......)))(((.......)))).)))))..)))))....)))))))).... (-23.81 = -23.62 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:05 2006