Locus 6081

Sequence ID	3R_DroMel_CAF1
Location	15,961,800 – 15,961,929
Length	129
Max. P	0.871414

overview

Window 8

Location	15,961,800 – 15,961,909
Length	109
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	83.81
Mean single sequence MFE	-27.08
Consensus MFE	-16.62
Energy contribution	-18.46
Covariance contribution	1.84
Combinations/Pair	1.17
Mean z-score	-2.29
Structure conservation index	0.61
SVM decision value	0.53
SVM RNA-class probability	0.771851
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15961800 109 - 27905053
UUUGCCAAUUAUAUUUUUGGCAAAAACGCUUGCCCAACUUUUUGGUGGCGGUGC-------GCGUGUGCUUAUGUAUUUAAAUUUGAUUAGAUUUUGUUUACUGCCAUUUAAUUAG
((((((((........)))))))).........((((....))))((((((((.-------(((.((((....))))..(((((......)))))))).))))))))......... ( -25.20)
>DroSec_CAF1 88093 109 - 1
UUUGCCAAUUAUAUUUUUGGCAAAAACGCUUGCCCAACUUUUUGGUGGCGGUGC-------GCGUGAGCUUAUGUAUUUAAAUUUGAUUAGAUUUUGUGUACUGCCAUUUAAUUAA
((((((((........)))))))).........((((....))))(((((((((-------((....))......((((((......)))))).....)))))))))......... ( -31.00)
>DroSim_CAF1 63943 109 - 1
UUUGCCAAUUAUAUUUUUGGCAAAAACGCUUGCCCAACUUUUUGGUGGCGGUGC-------GCGUGAGCUUAUGUAUUUAAAUUUGAUUAGAUUUUGUGUACUGCCAUUUAAUUAG
((((((((........)))))))).........((((....))))(((((((((-------((....))......((((((......)))))).....)))))))))......... ( -31.00)
>DroYak_CAF1 91942 116 - 1
UUUGCCAAUUAUAUUUUUGGCGAAAACGCUGGUCCAACUUUUAGGUGGCGGUGCGCGGUGCGCGUGAGCUUAUGUAUUUAAAUUUGAUUAGAUUUUGUGUACUGCCAUUUAAUUAG
((((((((........))))))))................((((((((((((((((((((.((....)).)))..((((((......))))))..))))))))))))))))).... ( -38.10)
>DroAna_CAF1 57046 105 - 1
-UUGCCAAUUAUAUUU---ACCAAAAUGCUAACCAAACUUUCAAGUACCUAGCU-------ACGUGUGCUGUUUUAUUUAAACUUGAUUAGAUCUGCCACACUACCAUUUAAUUAG
-.....(((((.....---........((((.....(((....)))...)))).-------..((((((...((((.(((....))).))))...).))))).......))))).. ( -10.10)
>consensus
UUUGCCAAUUAUAUUUUUGGCAAAAACGCUUGCCCAACUUUUUGGUGGCGGUGC_______GCGUGAGCUUAUGUAUUUAAAUUUGAUUAGAUUUUGUGUACUGCCAUUUAAUUAG
((((((((........))))))))...................(((((((((((.......((....)).((...((((((......))))))..)).)))))))))))....... (-16.62 = -18.46 +   1.84)

alignment

secondary structure

dotplot

Window 9

Location	15,961,839 – 15,961,929
Length	90
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	76.81
Mean single sequence MFE	-22.25
Consensus MFE	-12.45
Energy contribution	-12.62
Covariance contribution	0.17
Combinations/Pair	1.32
Mean z-score	-1.96
Structure conservation index	0.56
SVM decision value	0.87
SVM RNA-class probability	0.871414
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15961839 90 - 27905053
------CAACCAUUCAAAAUAUGAUUUUUGCCAAUUAUAUUUUUGGCAAAAACGCUUGCCCAACUUUUUGGUGGCGGUGC-------GCGUGUGCUUAUGUAU
------....(((.....(((((.((((((((((........))))))))))((((((((..(((....)))))))).))-------))))))....)))... ( -24.50)
>DroSec_CAF1 88132 90 - 1
------CAGCCAUUCGAAAUAUGAUUUUUGCCAAUUAUAUUUUUGGCAAAAACGCUUGCCCAACUUUUUGGUGGCGGUGC-------GCGUGAGCUUAUGUAU
------............((((((((((((((((........)))))))))).(((((((..(((....)))))))).))-------((....)))))))).. ( -25.70)
>DroSim_CAF1 63982 90 - 1
------CAACCAUUCGAAAUAUGAUUUUUGCCAAUUAUAUUUUUGGCAAAAACGCUUGCCCAACUUUUUGGUGGCGGUGC-------GCGUGAGCUUAUGUAU
------............((((((((((((((((........)))))))))).(((((((..(((....)))))))).))-------((....)))))))).. ( -25.70)
>DroEre_CAF1 62920 75 - 1
------CAACCAUUCGAAAUAUGAUUUUUGCCAAUUAUAUUUUUGGCGAAAACGCUUGUGCAACUUUUUGGUGGCGGUGCU----------------------
------(..((((.(((((.....((((((((((........)))))))))).((....))....)))))))))..)....---------------------- ( -18.70)
>DroYak_CAF1 91981 97 - 1
------CAACCAUUCGAAAUAUGAUUUUUGCCAAUUAUAUUUUUGGCGAAAACGCUGGUCCAACUUUUAGGUGGCGGUGCGCGGUGCGCGUGAGCUUAUGUAU
------..(((.............((((((((((........))))))))))((((.(.(((.((....)))))).).))).)))..((....))........ ( -25.30)
>DroAna_CAF1 57085 92 - 1
CCUCACCACCAGUUCACAAUAUGAUU-UUGCCAAUUAUAUUU---ACCAAAAUGCUAACCAAACUUUCAAGUACCUAGCU-------ACGUGUGCUGUUUUAU
.........((((.((((((((((((-.....))))))))).---........((((.....(((....)))...)))).-------..))).))))...... ( -13.60)
>consensus
______CAACCAUUCGAAAUAUGAUUUUUGCCAAUUAUAUUUUUGGCAAAAACGCUUGCCCAACUUUUUGGUGGCGGUGC_______GCGUGAGCUUAUGUAU
........(((.............((((((((((........))))))))))((((.............))))..))).........((....))........ (-12.45 = -12.62 +   0.17)

alignment

secondary structure

dotplot

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