Locus 7536

Sequence ID	2L_DroMel_CAF1
Location	20,918,116 – 20,918,236
Length	120
Max. P	0.999689

overview

Window 5

Location	20,918,116 – 20,918,236
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.58
Mean single sequence MFE	-29.37
Consensus MFE	-22.66
Energy contribution	-23.26
Covariance contribution	0.60
Combinations/Pair	1.07
Mean z-score	-1.50
Structure conservation index	0.77
SVM decision value	0.00
SVM RNA-class probability	0.534499
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20918116 120 + 22407834
GUCUGGGGACUCGAAUUCUCCCUCUGCUUCCAGGUGCCUAUAUUCUAGCACUCUUUCCACAGAAGUCAUGGAGUUCUCCAGCUCAGCGGAUUGCCUCAUUCCCCACUGAACAGUCCCCGU
....(((((((.(((((((.(.((((.....((((((..........)))).)).....)))).)....)))))))....(.((((.((.............)).)))).)))))))).. ( -32.82)
>DroSec_CAF1 3470 120 + 1
GUCUGGGGACUCAAAUUCUCCCUCUGCUUCCAGGUGCCUAUAUUCUAAAACUCUUUCCACAGAGGUCAUGGAGUUCUCCAGCUCAGCGGAUUGCCGCAUUCCCCACUGAACAGUCCCCGU
....(((((((.........((((((.....((((..............)).)).....))))))(((((((((......)))).((((....))))......)).)))..))))))).. ( -33.64)
>DroSim_CAF1 2730 120 + 1
CUCUGGGGACUCAAAUUCUUCCUCUGCUUCCAGGUGCCUAUAUUCUAACACUCUUUCCACAGAAGUCAUGGAGUUCUCCAGCUCAGCGGAUUGCCGCAUUCCCCACUGAACAGUCCCCGU
....(((((((........(((...(((((...(((.....................))).)))))...)))((((.........((((....))))..........))))))))))).. ( -31.01)
>DroEre_CAF1 2524 120 + 1
GUCUGCGGACUCAAAUGCUCCUUCUGCUUCCAGGUUUCUGUAUUCCAAUACUCUUUCCACAGAAGUCAUGGAGUUCUCCAGCUCAGCGGAUUGCCUCAUGCCCCACUGAACAGUUCCCGU
....((((........(((((....(((((..((.....((((....)))).....))...)))))...)))))......(.((((.((...((.....)).)).)))).).....)))) ( -26.20)
>DroYak_CAF1 2527 120 + 1
GCCUUCGGACUCAAAUACUCCUUCUGUUUCCAGGUUUCUAUAUUCUAUCACUCUUUCCACAGAAGUCAUGGAGUUCUCCAGUUCAGCGGAUUGCCUCAUUCCCCACUGAACAGUUCCCGU
......(((((.........(((((((....((((..............)).))....)))))))...((((....))))((((((.((.............)).))))))))))).... ( -23.16)
>consensus
GUCUGGGGACUCAAAUUCUCCCUCUGCUUCCAGGUGCCUAUAUUCUAACACUCUUUCCACAGAAGUCAUGGAGUUCUCCAGCUCAGCGGAUUGCCUCAUUCCCCACUGAACAGUCCCCGU
...((((((((.........((((((.....((((..............)).)).....))))))...((((....))))(.((((.((.............)).)))).))))))))). (-22.66 = -23.26 +   0.60)

alignment

secondary structure

dotplot

Window 6

Location	20,918,116 – 20,918,236
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.58
Mean single sequence MFE	-43.20
Consensus MFE	-36.76
Energy contribution	-37.00
Covariance contribution	0.24
Combinations/Pair	1.18
Mean z-score	-3.24
Structure conservation index	0.85
SVM decision value	3.89
SVM RNA-class probability	0.999689
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20918116 120 - 22407834
ACGGGGACUGUUCAGUGGGGAAUGAGGCAAUCCGCUGAGCUGGAGAACUCCAUGACUUCUGUGGAAAGAGUGCUAGAAUAUAGGCACCUGGAAGCAGAGGGAGAAUUCGAGUCCCCAGAC
..(((((((((((((((((...........))))))))))((((....))))...(((((((....((.(((((........)))))))....))))))).........))))))).... ( -50.10)
>DroSec_CAF1 3470 120 - 1
ACGGGGACUGUUCAGUGGGGAAUGCGGCAAUCCGCUGAGCUGGAGAACUCCAUGACCUCUGUGGAAAGAGUUUUAGAAUAUAGGCACCUGGAAGCAGAGGGAGAAUUUGAGUCCCCAGAC
..(((((((((((((((((...........))))))))))((((....))))...(((((((....((.((((((.....)))).))))....))))))).........))))))).... ( -45.70)
>DroSim_CAF1 2730 120 - 1
ACGGGGACUGUUCAGUGGGGAAUGCGGCAAUCCGCUGAGCUGGAGAACUCCAUGACUUCUGUGGAAAGAGUGUUAGAAUAUAGGCACCUGGAAGCAGAGGAAGAAUUUGAGUCCCCAGAG
..(((((((((((((((((...........))))))))))((((....))))...(((((((....((.(((((........)))))))....))))))).........))))))).... ( -47.40)
>DroEre_CAF1 2524 120 - 1
ACGGGAACUGUUCAGUGGGGCAUGAGGCAAUCCGCUGAGCUGGAGAACUCCAUGACUUCUGUGGAAAGAGUAUUGGAAUACAGAAACCUGGAAGCAGAAGGAGCAUUUGAGUCCGCAGAC
.........(((((((((.((.....))...)))))))))((((....)))).....((((((((..((((.(((.....)))....(((....))).......))))...)))))))). ( -36.40)
>DroYak_CAF1 2527 120 - 1
ACGGGAACUGUUCAGUGGGGAAUGAGGCAAUCCGCUGAACUGGAGAACUCCAUGACUUCUGUGGAAAGAGUGAUAGAAUAUAGAAACCUGGAAACAGAAGGAGUAUUUGAGUCCGAAGGC
.((((....((((((((((...........))))))))))(.(((.(((((.....(((((((.....(....)....)))))))..(((....)))..))))).))).).))))..... ( -36.40)
>consensus
ACGGGGACUGUUCAGUGGGGAAUGAGGCAAUCCGCUGAGCUGGAGAACUCCAUGACUUCUGUGGAAAGAGUGUUAGAAUAUAGGCACCUGGAAGCAGAGGGAGAAUUUGAGUCCCCAGAC
..(((((((((((((((((...........))))))))))((((....))))...(((((((....((.((.((........)).))))....))))))).........))))))).... (-36.76 = -37.00 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:16 2006