Locus 4056

Sequence ID	X_DroMel_CAF1
Location	10,752,115 – 10,752,229
Length	114
Max. P	0.983402

overview

Window 4

Location	10,752,115 – 10,752,229
Length	114
Sequences	4
Columns	114
Reading direction	forward
Mean pairwise identity	95.61
Mean single sequence MFE	-36.88
Consensus MFE	-33.71
Energy contribution	-33.77
Covariance contribution	0.06
Combinations/Pair	1.06
Mean z-score	-3.03
Structure conservation index	0.91
SVM decision value	1.92
SVM RNA-class probability	0.982748
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10752115 114 + 22224390
CAACGAAUUCUGGCCAAAAGCUGUGCAAAUUGAUUGAGUCCAGUGAAAAAUCAGUGGAAAUCAAUUGCCCCAGUCCUUGUGGCAUACGCAACGUGACAGAAAGUGGCCAAAAGU
..........((((((....((((.((..((((((((.((((.(((....))).))))..)))))((((.(((...))).))))....)))..))))))....))))))..... ( -35.10)
>DroSec_CAF1 1567 114 + 1
CAACGAAUUCUGGCCAAAAGCUGUGCAAAUUGAUUGAGUCCAGUGAAAAAUCGGUGGAAAUCAAUUGCCCCAGUCCUUGUGGCAUACGCAACGUGCCAGAUAGUGGCCAAAANN
..........((((((....(((.(((..((((((((.((((.(((....))).))))..)))))((((.(((...))).))))....)))..))))))....))))))..... ( -36.50)
>DroEre_CAF1 851 114 + 1
CAACGAAUUGUGGCCAAAAGCUGUGCAAAUUGAUUGAGUCCAGUGAAAAAUCAGUGGAAAUCAAUUGCCCCAGUCCUUGUGGCACACGCAACGUGCCUGAAAGUGGCCCAAAGU
.......(((.(((((...((((.((((.((((((...((((.(((....))).))))))))))))))..)))).(((..(((((.......)))))...)))))))))))... ( -39.10)
>DroYak_CAF1 750 114 + 1
CAACGAAUUCUGGCCAAAAGCUGUGCAAAUUGAUUGAGUCCAGUGAAAAAUCAGUGGAAAUCAAUUGCCCCAGUCCUUGUGGCACACGCAACGUGCCUGAAAGUGGCCCAAAGU
...........(((((...((((.((((.((((((...((((.(((....))).))))))))))))))..)))).(((..(((((.......)))))...))))))))...... ( -36.80)
>consensus
CAACGAAUUCUGGCCAAAAGCUGUGCAAAUUGAUUGAGUCCAGUGAAAAAUCAGUGGAAAUCAAUUGCCCCAGUCCUUGUGGCACACGCAACGUGCCAGAAAGUGGCCAAAAGU
...........(((((...((((.((((.((((((...((((.(((....))).))))))))))))))..)))).(((..(((((.......)))))...))))))))...... (-33.71 = -33.77 +   0.06)

alignment

secondary structure

dotplot

Window 5

Location	10,752,115 – 10,752,229
Length	114
Sequences	4
Columns	114
Reading direction	reverse
Mean pairwise identity	95.61
Mean single sequence MFE	-36.85
Consensus MFE	-34.25
Energy contribution	-36.00
Covariance contribution	1.75
Combinations/Pair	1.00
Mean z-score	-2.74
Structure conservation index	0.93
SVM decision value	1.94
SVM RNA-class probability	0.983402
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10752115 114 - 22224390
ACUUUUGGCCACUUUCUGUCACGUUGCGUAUGCCACAAGGACUGGGGCAAUUGAUUUCCACUGAUUUUUCACUGGACUCAAUCAAUUUGCACAGCUUUUGGCCAGAAUUCGUUG
..(((((((((....((((((.((((....((((.((.....)).))))(((((..((((.(((....))).)))).))))))))).)).))))....)))))))))....... ( -34.70)
>DroSec_CAF1 1567 114 - 1
NNUUUUGGCCACUAUCUGGCACGUUGCGUAUGCCACAAGGACUGGGGCAAUUGAUUUCCACCGAUUUUUCACUGGACUCAAUCAAUUUGCACAGCUUUUGGCCAGAAUUCGUUG
..(((((((((.....(((((.........))))).((((.(((..((((((((((((((..((....))..))))...)))))).)))).))))))))))))))))....... ( -34.80)
>DroEre_CAF1 851 114 - 1
ACUUUGGGCCACUUUCAGGCACGUUGCGUGUGCCACAAGGACUGGGGCAAUUGAUUUCCACUGAUUUUUCACUGGACUCAAUCAAUUUGCACAGCUUUUGGCCACAAUUCGUUG
...((((((((......((((((.....))))))..((((.(((..((((((((((((((.(((....))).))))...)))))).)))).)))))))))))).)))....... ( -39.50)
>DroYak_CAF1 750 114 - 1
ACUUUGGGCCACUUUCAGGCACGUUGCGUGUGCCACAAGGACUGGGGCAAUUGAUUUCCACUGAUUUUUCACUGGACUCAAUCAAUUUGCACAGCUUUUGGCCAGAAUUCGUUG
......(((((......((((((.....))))))..((((.(((..((((((((((((((.(((....))).))))...)))))).)))).))))))))))))........... ( -38.40)
>consensus
ACUUUGGGCCACUUUCAGGCACGUUGCGUAUGCCACAAGGACUGGGGCAAUUGAUUUCCACUGAUUUUUCACUGGACUCAAUCAAUUUGCACAGCUUUUGGCCAGAAUUCGUUG
..(((((((((......((((((.....))))))..((((.(((..((((((((((((((.(((....))).))))...)))))).)))).))))))))))))))))....... (-34.25 = -36.00 +   1.75)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:15 2006