Locus 8670

Sequence ID	3R_DroMel_CAF1
Location	23,157,674 – 23,157,834
Length	160
Max. P	0.963005

overview

Window 3

Location	23,157,674 – 23,157,794
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	91.32
Mean single sequence MFE	-24.42
Consensus MFE	-22.24
Energy contribution	-22.05
Covariance contribution	-0.19
Combinations/Pair	1.03
Mean z-score	-2.07
Structure conservation index	0.91
SVM decision value	1.55
SVM RNA-class probability	0.963005
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23157674 120 - 27905053
AACUUGGCCAACAUGCCAAGUCGGGCCCAAGACAAACGUUUUGUUAGCUAAACAAAAUGAACUUUUAAUAAAUUCAUUACCCAACCACUUUAUGACUACAGCUCGCUACCCCAUCCGCAG
.(((((((......))))))).(((..((((((....)))))).((((.......((((((.((.....)).))))))...............(((....).)))))).)))........ ( -22.70)
>DroSec_CAF1 8304 114 - 1
AACUUGGCCAACAUGCCAAGUCGGGCCCAAGACAAACGUUUUGCUAGCUAAACAAAAUGAACUUUUAAUAAAUUCAUUACCCAGCCAGUUUAUGACUACAGCUGACUACCCCGG------
.(((((((......)))))))((((..((((((....)))))).(((((......((((((.((.....)).))))))........((((...))))..))))).....)))).------ ( -26.60)
>DroSim_CAF1 12863 114 - 1
AACUUGGCCAACAUGCCAGGUCGGGCCCAAGACAAACGUUUUGCUAGCUAAACAAAAUGAACUUUUAAUAAAUUCAUUACCCAGCCAGUUUAUGACUACAGCUGACUACCCCAG------
.(((((((......))))))).(((..((((((....)))))).(((((......((((((.((.....)).))))))........((((...))))..))))).....)))..------ ( -24.50)
>DroYak_CAF1 12888 118 - 1
AACUUGGCCAACAUGCCAAGUCGGGCCCAAGACAAACGUUUUGCUAGCUAAACAAAAUGAACUUUUAAUAAAUUCAUUACCCUGCCACUUUAUGACUACAGCU--CUGCCCCAUCCACCG
.(((((((......))))))).((((.((((((....))))))..((((......((((((.((.....)).)))))).........(.....).....))))--..))))......... ( -23.90)
>consensus
AACUUGGCCAACAUGCCAAGUCGGGCCCAAGACAAACGUUUUGCUAGCUAAACAAAAUGAACUUUUAAUAAAUUCAUUACCCAGCCACUUUAUGACUACAGCUGACUACCCCAG______
.(((((((......))))))).(((..((((((....))))))..((((......((((((.((.....)).)))))).......((.....)).....))))......)))........ (-22.24 = -22.05 +  -0.19)

alignment

secondary structure

dotplot

Window 4

Location	23,157,714 – 23,157,834
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	99.17
Mean single sequence MFE	-34.48
Consensus MFE	-34.69
Energy contribution	-34.75
Covariance contribution	0.06
Combinations/Pair	1.03
Mean z-score	-1.75
Structure conservation index	1.01
SVM decision value	0.13
SVM RNA-class probability	0.599643
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23157714 120 + 27905053
GUAAUGAAUUUAUUAAAAGUUCAUUUUGUUUAGCUAACAAAACGUUUGUCUUGGGCCCGACUUGGCAUGUUGGCCAAGUUUACGUAAAUGGCCCACUGCAUGCGACUCGAAAAUGGUGAG
....(((((((.....)))))))(((((((.....)))))))(((.(((..((((((.((((((((......)))))))).........))))))..))).))).((((.......)))) ( -35.50)
>DroSec_CAF1 8338 120 + 1
GUAAUGAAUUUAUUAAAAGUUCAUUUUGUUUAGCUAGCAAAACGUUUGUCUUGGGCCCGACUUGGCAUGUUGGCCAAGUUUACGUAAAUGGCCCACUGCAUGCGACUCGAAAAUGGUGAG
....(((((((.....)))))))(((((((.....)))))))(((.(((..((((((.((((((((......)))))))).........))))))..))).))).((((.......)))) ( -35.50)
>DroSim_CAF1 12897 120 + 1
GUAAUGAAUUUAUUAAAAGUUCAUUUUGUUUAGCUAGCAAAACGUUUGUCUUGGGCCCGACCUGGCAUGUUGGCCAAGUUUACGUAAAUGGCCCACUGCAUGCGACUCGAAAAUGGUGAG
....(((((((.....)))))))(((((((.....)))))))(((.(((..((((((.(((.((((......)))).))).........))))))..))).))).((((.......)))) ( -31.40)
>DroYak_CAF1 12926 120 + 1
GUAAUGAAUUUAUUAAAAGUUCAUUUUGUUUAGCUAGCAAAACGUUUGUCUUGGGCCCGACUUGGCAUGUUGGCCAAGUUUACGUAAAUGGCCCACUGCAUGCGACUCGAAAAUGGUGAG
....(((((((.....)))))))(((((((.....)))))))(((.(((..((((((.((((((((......)))))))).........))))))..))).))).((((.......)))) ( -35.50)
>consensus
GUAAUGAAUUUAUUAAAAGUUCAUUUUGUUUAGCUAGCAAAACGUUUGUCUUGGGCCCGACUUGGCAUGUUGGCCAAGUUUACGUAAAUGGCCCACUGCAUGCGACUCGAAAAUGGUGAG
....(((((((.....)))))))(((((((.....)))))))(((.(((..((((((.((((((((......)))))))).........))))))..))).))).((((.......)))) (-34.69 = -34.75 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:50 2006