Locus 5328

Sequence ID	X_DroMel_CAF1
Location	13,914,739 – 13,914,855
Length	116
Max. P	0.603932

overview

Window 4

Location	13,914,739 – 13,914,855
Length	116
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.70
Mean single sequence MFE	-31.90
Consensus MFE	-30.48
Energy contribution	-30.48
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.17
Structure conservation index	0.96
SVM decision value	0.14
SVM RNA-class probability	0.603932
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13914739 116 + 22224390
UUGAUGGCAGCAGCGACAUGGCUGCGAAAAUUUAUUGAAGCGUUAAGUUGCUGCCUUCGGAGACUCAGUUUAGUUUUCCCCCAAAAUCACUCCGAUUUUCCAUUGCUACCAAUCGG----
..((.(((((((((......(((.(((.......))).))).....))))))))).))(((((((......))))))).............((((((.............))))))---- ( -30.22)
>DroSec_CAF1 14983 116 + 1
UUGAUGGCAGCAGCGACAUGGCUGCGAAAAUUUAUUGAAGCGUUAAGUUGCUGCCUUCGGAGACUCAGUUUAGUUUUCCCCCAAAAUCACUCCGAUUAUCCAUUGCUACCAAUCGG----
..((.(((((((((......(((.(((.......))).))).....))))))))).))(((((((......))))))).............((((((.............))))))---- ( -30.42)
>DroSim_CAF1 36985 116 + 1
UUGAUGGCAGCAGCGACAUGGCUGCGAAAAUUUAUUGAAGCGUUAAGUUGCUGCCUUCGGAGACUCAGUUUAGUUUUCCCCCAAAAUCACUCCGAUUUUCCAUUGCUACCAAUCGG----
..((.(((((((((......(((.(((.......))).))).....))))))))).))(((((((......))))))).............((((((.............))))))---- ( -30.22)
>DroEre_CAF1 10840 120 + 1
UUGAUGGCAGCAGCGACAUGGCUGCGAAAAUUUAUUGAAGCGUUAAGUUGCUGCCUUCGGAGACUCGGUUUAGUUUUCCCCCAAAAUCACUCCGAUUUUCCAUUGCUACCAAUCGGAGCC
..((.(((((((((......(((.(((.......))).))).....))))))))).))(((((.((((....(((((.....)))))....)))).)))))...(((.((....))))). ( -38.40)
>DroYak_CAF1 25576 116 + 1
UUGAUGGCAGCAGCGACAUGGCUGCGAAAAUUUAUUGAAGCGUUAAGUUGCUGCCUUCGGAGACUCCGUUUAGUUUUCCCCCAAAAUCACUCCGAUUUUCCAUUGCUACCAAUCGG----
..((.(((((((((......(((.(((.......))).))).....))))))))).))(((((((......))))))).............((((((.............))))))---- ( -30.22)
>consensus
UUGAUGGCAGCAGCGACAUGGCUGCGAAAAUUUAUUGAAGCGUUAAGUUGCUGCCUUCGGAGACUCAGUUUAGUUUUCCCCCAAAAUCACUCCGAUUUUCCAUUGCUACCAAUCGG____
..((.(((((((((......(((.(((.......))).))).....))))))))).))(((((((......))))))).............((((((.............)))))).... (-30.48 = -30.48 +   0.00)

alignment

secondary structure

dotplot

Window 5

Location	13,914,739 – 13,914,855
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.70
Mean single sequence MFE	-32.67
Consensus MFE	-31.36
Energy contribution	-31.36
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.12
Structure conservation index	0.96
SVM decision value	0.01
SVM RNA-class probability	0.536892
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13914739 116 - 22224390
----CCGAUUGGUAGCAAUGGAAAAUCGGAGUGAUUUUGGGGGAAAACUAAACUGAGUCUCCGAAGGCAGCAACUUAACGCUUCAAUAAAUUUUCGCAGCCAUGUCGCUGCUGCCAUCAA
----..(((.(((((((.(((....((((((....((..(.((....))...)..)).)))))).(((.((........................)).)))...))).)))))))))).. ( -31.36)
>DroSec_CAF1 14983 116 - 1
----CCGAUUGGUAGCAAUGGAUAAUCGGAGUGAUUUUGGGGGAAAACUAAACUGAGUCUCCGAAGGCAGCAACUUAACGCUUCAAUAAAUUUUCGCAGCCAUGUCGCUGCUGCCAUCAA
----..(((.(((((((...((((.((((((....((..(.((....))...)..)).)))))).(((.((........................)).))).))))..)))))))))).. ( -32.06)
>DroSim_CAF1 36985 116 - 1
----CCGAUUGGUAGCAAUGGAAAAUCGGAGUGAUUUUGGGGGAAAACUAAACUGAGUCUCCGAAGGCAGCAACUUAACGCUUCAAUAAAUUUUCGCAGCCAUGUCGCUGCUGCCAUCAA
----..(((.(((((((.(((....((((((....((..(.((....))...)..)).)))))).(((.((........................)).)))...))).)))))))))).. ( -31.36)
>DroEre_CAF1 10840 120 - 1
GGCUCCGAUUGGUAGCAAUGGAAAAUCGGAGUGAUUUUGGGGGAAAACUAAACCGAGUCUCCGAAGGCAGCAACUUAACGCUUCAAUAAAUUUUCGCAGCCAUGUCGCUGCUGCCAUCAA
.(((((((((..((....))...)))))))))((((((((((....(((......))))))))))((((((........))..............(((((......)))))))))))).. ( -35.20)
>DroYak_CAF1 25576 116 - 1
----CCGAUUGGUAGCAAUGGAAAAUCGGAGUGAUUUUGGGGGAAAACUAAACGGAGUCUCCGAAGGCAGCAACUUAACGCUUCAAUAAAUUUUCGCAGCCAUGUCGCUGCUGCCAUCAA
----..(((.(((((((.(((....(((((..(((((((.((.....))...)))))))))))).(((.((........................)).)))...))).)))))))))).. ( -33.36)
>consensus
____CCGAUUGGUAGCAAUGGAAAAUCGGAGUGAUUUUGGGGGAAAACUAAACUGAGUCUCCGAAGGCAGCAACUUAACGCUUCAAUAAAUUUUCGCAGCCAUGUCGCUGCUGCCAUCAA
......(((.(((((((.(((....((((((....(((((.......)))))......)))))).(((.((........................)).)))...))).)))))))))).. (-31.36 = -31.36 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:01 2006