Locus 8514

Sequence ID	3L_DroMel_CAF1
Location	22,303,448 – 22,303,648
Length	200
Max. P	0.794239

overview

Window 7

Location	22,303,448 – 22,303,568
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.00
Mean single sequence MFE	-41.80
Consensus MFE	-39.88
Energy contribution	-39.92
Covariance contribution	0.04
Combinations/Pair	1.08
Mean z-score	-1.23
Structure conservation index	0.95
SVM decision value	0.52
SVM RNA-class probability	0.767458
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22303448 120 + 23771897
UAUUAAUUGGACUGUUAUCGCCCGGGGCGGCCGAUUUGGUUUGCUGCUUGCUUAACCUCUGAGCCGCAAAUCUAUCUCCCGGACUCCGCGGACACUGCUGCUUCGGGAAGAAGGUGCCUU
........(((((.......(((((((((((.(((..(((((((.((((...........)))).))))))).)))((((((...))).)))....))))))))))).....))).)).. ( -43.80)
>DroSec_CAF1 62081 120 + 1
UAUUAAUUGGACUGUUAUCGCCCGGGGCAGCCGAUUUGGUUUGCUGCUUGCUUAACCUUUGAGCCGCAAAUCUAUCUCCCGGAUUCCGCGGACACUGCUGCUUCGGGAAGAAGGUGCCUU
........(((((.......(((((((((((.(((..(((((((.((((...........)))).))))))).)))((((((...))).)))....))))))))))).....))).)).. ( -44.50)
>DroSim_CAF1 44141 120 + 1
UAUUAAUUGGACUGUUAUCGCCCGGGGCGGCCGAUUUGGUUUGCUGCUUGCUUAACCUCUGAGCCGCAAAUCUAUCUCCCGGAUUCCGCGGACACUGCUGCUUCGGGAAGAAGGUGCCUU
........(((((.......(((((((((((.(((..(((((((.((((...........)))).))))))).)))((((((...))).)))....))))))))))).....))).)).. ( -43.80)
>DroEre_CAF1 60553 120 + 1
UAUUAAUUGGACUGUUAUCGCCCGGGGCGGCCGAUUUGGUUUGCUGCUUGCUUAACCUCUGAGUCGCAAAUCUAUCUCCCGGAUUCCGCGGACACUGGUGCUUCGGGAAGAAGGUGCCUU
........(((((.......(((((((((.(((((..(((((((.((((...........)))).))))))).)))((((((...))).)))....))))))))))).....))).)).. ( -39.60)
>DroYak_CAF1 37758 120 + 1
UAUUAAUUGGACUGUUAUCGCCCGGGGCGGCCGAUUUGGUUUGCUGCUUGCUUAACCUCUGAGUCGCAAAUAUAUCUCCCGGAUUCCGUGGGCACUGGUGCUUCGGGAAGAAGGUGCCUU
........(((((.......(((((((((.(((((...((((((.((((...........)))).))))))..)))((((((...))).)))....))))))))))).....))).)).. ( -37.30)
>consensus
UAUUAAUUGGACUGUUAUCGCCCGGGGCGGCCGAUUUGGUUUGCUGCUUGCUUAACCUCUGAGCCGCAAAUCUAUCUCCCGGAUUCCGCGGACACUGCUGCUUCGGGAAGAAGGUGCCUU
........(((((.......(((((((((((.(((..(((((((.((((...........)))).))))))).)))((((((...))).)))....))))))))))).....))).)).. (-39.88 = -39.92 +   0.04)

alignment

secondary structure

dotplot

Window 8

Location	22,303,528 – 22,303,648
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.58
Mean single sequence MFE	-36.50
Consensus MFE	-33.14
Energy contribution	-33.18
Covariance contribution	0.04
Combinations/Pair	1.13
Mean z-score	-1.28
Structure conservation index	0.91
SVM decision value	0.60
SVM RNA-class probability	0.794239
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22303528 120 - 23771897
CUCGCCUUUUGUCCGUCGGCAUCGCCUUCCGCCACUGCUUGCGGUUACUGUUCAACGCGGUCAUUGACUCCACUCGGCCGAAGGCACCUUCUUCCCGAAGCAGCAGUGUCCGCGGAGUCC
(((.........((((.((((..((.....))...)))).))))...........(((((.(((((.((.(..((((..((((....))))...)))).).))))))).))))))))... ( -39.00)
>DroSec_CAF1 62161 120 - 1
CUCGCCUUUUGUCCGACGGCAGCGCCUUCCGCCACUGCUUGCGGUUACUUUUCAACACGGUCAUUGACUCCACUCGGCCGAAGGCACCUUCUUCCCGAAGCAGCAGUGUCCGCGGAAUCC
...........((((.(((((((((((((.(((((((....)))).............((((...))))......))).))))))..((((.....))))..))..)).))))))).... ( -36.00)
>DroSim_CAF1 44221 120 - 1
CUCGCCUUUUGUCCGUCGGCAGCGCCUUCCGCCACUGCUUGCGGUUACUUUUCAACACGGUCAUUGACUCCACUCGGCCGAAGGCACCUUCUUCCCGAAGCAGCAGUGUCCGCGGAAUCC
...........(((((.((((((((((((.(((((((....)))).............((((...))))......))).))))))..((((.....))))..))..)))).))))).... ( -36.50)
>DroEre_CAF1 60633 120 - 1
CUCGCCUUUUGUCCGCCGGCAUUGCCUUCCGCCACCGCUUGCGGUUACUUUUCAACACGGUCAUUGACUCCACACAGCCGAAGGCACCUUCUUCCCGAAGCACCAGUGUCCGCGGAAUCC
...........(((((.((((((((((((.((.((((....)))).............((((...)))).......)).))))))..((((.....))))....)))))).))))).... ( -36.20)
>DroYak_CAF1 37838 120 - 1
CUCGCCUUUUGUCCGUCGGCAUUGCCUUCCGCCACUGCCUGCGGUUACUUUUCAACACGGUCAUUGACUCCACACAGCCGAAGGCACCUUCUUCCCGAAGCACCAGUGCCCACGGAAUCC
...........(((((.((((((((((((.((.((((....)))).............((((...)))).......)).))))))..((((.....))))....)))))).))))).... ( -34.80)
>consensus
CUCGCCUUUUGUCCGUCGGCAUCGCCUUCCGCCACUGCUUGCGGUUACUUUUCAACACGGUCAUUGACUCCACUCGGCCGAAGGCACCUUCUUCCCGAAGCAGCAGUGUCCGCGGAAUCC
...........(((((.((((..((((((.(((((((....)))).............((((...))))......))).))))))..((((.....))))......)))).))))).... (-33.14 = -33.18 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:37 2006