Locus 5297

Sequence ID	2R_DroMel_CAF1
Location	17,198,737 – 17,198,856
Length	119
Max. P	0.507662

overview

Window 7

Location	17,198,737 – 17,198,856
Length	119
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	87.19
Mean single sequence MFE	-36.20
Consensus MFE	-31.42
Energy contribution	-30.77
Covariance contribution	-0.66
Combinations/Pair	1.14
Mean z-score	-1.46
Structure conservation index	0.87
SVM decision value	-0.05
SVM RNA-class probability	0.506901
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17198737 119 + 20766785
GUGCGGGAUUUUUUAUCACUGGCACGUGUGACAGCUGUCACAUAGGG-UUAUUCCUUUCAAUCGAAGUCACUGUAUUGGGAAACUGUGAUUUGAGUUGGUUCGGAAUCAGAGUGAAUCUG
(((((((((.....))).)).))))(((((((....)))))))....-..(((((..(((((..(((((((......((....)))))))))..)))))...)))))((((.....)))) ( -34.60)
>DroSim_CAF1 2104 119 + 1
GUGCGGGAUUUUUUAUCACUGGCACGUGUGACAGCUGUCACGUAGGG-GUACUCCUUCCAAUCGAAGUCACCGUAUUGAGAAACUGUGAUUUGAAUCGGUUCGGAAUCAGAGUGAAUCUG
(((((((((.....))).)).))))..(((((....))))).((((.-.(((((.((((((((((((((((.((........)).))))))....)))))).))))...)))))..)))) ( -36.70)
>DroYak_CAF1 2127 119 + 1
GUGCGGGAUUUUUUAUCACUGGCACGUGUGACAGCUGUCACAUAGGGGGUAUUCCC-UCAAUGAAAGUCACUGAAUAGGGAAUCUGUGACUUGGGUUGGUUAGAAAACAGAGUAGAUCUG
(((((((((.....))).)).))))(((((((....))))))).(((((....)))-))(((..(((((((.((........)).)))))))..)))..........((((.....)))) ( -37.30)
>consensus
GUGCGGGAUUUUUUAUCACUGGCACGUGUGACAGCUGUCACAUAGGG_GUAUUCCUUUCAAUCGAAGUCACUGUAUUGGGAAACUGUGAUUUGAGUUGGUUCGGAAUCAGAGUGAAUCUG
(((((((((.....))).)).))))(((((((....))))))).........(((..(((((..(((((((.((........)).)))))))..)))))...)))..((((.....)))) (-31.42 = -30.77 +  -0.66)

alignment

secondary structure

dotplot

Window 8

Location	17,198,737 – 17,198,856
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	87.19
Mean single sequence MFE	-27.50
Consensus MFE	-20.44
Energy contribution	-19.67
Covariance contribution	-0.77
Combinations/Pair	1.13
Mean z-score	-1.91
Structure conservation index	0.74
SVM decision value	-0.05
SVM RNA-class probability	0.507662
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17198737 119 - 20766785
CAGAUUCACUCUGAUUCCGAACCAACUCAAAUCACAGUUUCCCAAUACAGUGACUUCGAUUGAAAGGAAUAA-CCCUAUGUGACAGCUGUCACACGUGCCAGUGAUAAAAAAUCCCGCAC
((((.....))))(((((....(((.((((.((((.((........)).)))).)).)))))...)))))..-.....((((((....)))))).((((..(.(((.....)))).)))) ( -23.50)
>DroSim_CAF1 2104 119 - 1
CAGAUUCACUCUGAUUCCGAACCGAUUCAAAUCACAGUUUCUCAAUACGGUGACUUCGAUUGGAAGGAGUAC-CCCUACGUGACAGCUGUCACACGUGCCAGUGAUAAAAAAUCCCGCAC
((((.....))))(((((...((((((.((.((((.((........)).)))).)).))))))..)))))..-......(((((....)))))..((((..(.(((.....)))).)))) ( -29.90)
>DroYak_CAF1 2127 119 - 1
CAGAUCUACUCUGUUUUCUAACCAACCCAAGUCACAGAUUCCCUAUUCAGUGACUUUCAUUGA-GGGAAUACCCCCUAUGUGACAGCUGUCACACGUGCCAGUGAUAAAAAAUCCCGCAC
((((.....))))...............(((((((.((........)).)))))))(((((((-(((......)))).((((((....)))))).....))))))............... ( -29.10)
>consensus
CAGAUUCACUCUGAUUCCGAACCAACUCAAAUCACAGUUUCCCAAUACAGUGACUUCGAUUGAAAGGAAUAC_CCCUAUGUGACAGCUGUCACACGUGCCAGUGAUAAAAAAUCCCGCAC
((((.....))))(((((....(((......((((.((........)).))))......)))...))))).........(((((....)))))..((((..(.(((.....)))).)))) (-20.44 = -19.67 +  -0.77)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:31 2006