Locus 543

Sequence ID	3L_DroMel_CAF1
Location	1,572,897 – 1,572,994
Length	97
Max. P	0.998284

overview

Window 9

Location	1,572,897 – 1,572,994
Length	97
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	87.61
Mean single sequence MFE	-33.79
Consensus MFE	-30.44
Energy contribution	-30.08
Covariance contribution	-0.36
Combinations/Pair	1.24
Mean z-score	-2.46
Structure conservation index	0.90
SVM decision value	3.06
SVM RNA-class probability	0.998284
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1572897 97 + 23771897
AACUGCCUGGAGGCUCAUCAUUCGAGUGAACAAUUUGCCCAGCAAUUUGUGAGUGC----CCGGCAACUCGUUGCCAUUAUAUUGGCUUGUAUGGCGGAUG
..(((((.((..((((.((((....))))((((.((((...)))).))))))))..----))(((((....))))).................)))))... ( -30.60)
>DroSec_CAF1 17185 97 + 1
AACUGCCUGGAGGCUCAUCAUUCUGGUAAACAAUUUGCCCAGCAAUUUGUGAGUGU----CUGGCCACUCGUUGCUAUUUUAUUGGCUUGUAUGGCGGAUG
..(((((((.((((.((......((((((((((.((((...)))).))))(((((.----.....))))).))))))......)))))).)).)))))... ( -30.50)
>DroSim_CAF1 17568 101 + 1
AACUGCCUGGAGGCUCAUCAUUCUGGUAAACAAUUUGCCCAGCAAUUUGUGAGUGCCCGCCUGGCCACUCGUUGCUAUUUUAUUGGCUUGUAUGGCGGAUG
..(((((((.((((.((......((((((((((.((((...)))).))))(((((.((....)).))))).))))))......)))))).)).)))))... ( -33.30)
>DroEre_CAF1 23700 96 + 1
CACUGCCUGCAGGCUCCUCAUU-UGGCAAACAAUUUGCCCAGCAAUUUGUGAGUGCUC----GGCCACUCAUUGCCAUUAUAUUGGCUUGUAUGGCAGAUG
..(((((((((((((.......-((((((((((.((((...)))).))))(((((...----...))))).)))))).......)))))))).)))))... ( -39.84)
>DroYak_CAF1 18110 100 + 1
CACUGCCUGAGGGCGCAUCAUU-UGGCGAACAAUUUGCCCAGCAAUUUGUGAGUGCUUCACUGGUCACUCGUUGCCAUUAUAUUGGCUUGUAUGGCGGAUG
..(((((...((((.((.....-((((((((((.((((...)))).))))(((((((.....)).))))).))))))......))))))....)))))... ( -34.70)
>consensus
AACUGCCUGGAGGCUCAUCAUUCUGGUAAACAAUUUGCCCAGCAAUUUGUGAGUGC____CUGGCCACUCGUUGCCAUUAUAUUGGCUUGUAUGGCGGAUG
..(((((((.((((.((......((((((((((.((((...)))).))))(((((((.....))).)))).))))))......)))))).)).)))))... (-30.44 = -30.08 +  -0.36)

alignment

secondary structure

dotplot

Window 0

Location	1,572,897 – 1,572,994
Length	97
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	87.61
Mean single sequence MFE	-27.98
Consensus MFE	-21.32
Energy contribution	-22.28
Covariance contribution	0.96
Combinations/Pair	1.08
Mean z-score	-1.76
Structure conservation index	0.76
SVM decision value	0.42
SVM RNA-class probability	0.727334
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1572897 97 - 23771897
CAUCCGCCAUACAAGCCAAUAUAAUGGCAACGAGUUGCCGG----GCACUCACAAAUUGCUGGGCAAAUUGUUCACUCGAAUGAUGAGCCUCCAGGCAGUU
.....(((......((((......))))...((((((((.(----(((.........)))).)))))...(((((.((....))))))))))..))).... ( -29.70)
>DroSec_CAF1 17185 97 - 1
CAUCCGCCAUACAAGCCAAUAAAAUAGCAACGAGUGGCCAG----ACACUCACAAAUUGCUGGGCAAAUUGUUUACCAGAAUGAUGAGCCUCCAGGCAGUU
.....(((................((((((.(((((.....----.))))).....))))))(((..((..(((....)))..))..)))....))).... ( -24.80)
>DroSim_CAF1 17568 101 - 1
CAUCCGCCAUACAAGCCAAUAAAAUAGCAACGAGUGGCCAGGCGGGCACUCACAAAUUGCUGGGCAAAUUGUUUACCAGAAUGAUGAGCCUCCAGGCAGUU
.....(((................((((((.(((((.((....)).))))).....))))))(((..((..(((....)))..))..)))....))).... ( -29.10)
>DroEre_CAF1 23700 96 - 1
CAUCUGCCAUACAAGCCAAUAUAAUGGCAAUGAGUGGCC----GAGCACUCACAAAUUGCUGGGCAAAUUGUUUGCCA-AAUGAGGAGCCUGCAGGCAGUG
...(((((......((((......))))..((((((...----...)))))).....(((.((((...(..((.....-))..)...)))))))))))).. ( -30.20)
>DroYak_CAF1 18110 100 - 1
CAUCCGCCAUACAAGCCAAUAUAAUGGCAACGAGUGACCAGUGAAGCACUCACAAAUUGCUGGGCAAAUUGUUCGCCA-AAUGAUGCGCCCUCAGGCAGUG
.....(((...(((((((......))))...(((((..........))))).....)))..((((..((..((.....-))..))..))))...))).... ( -26.10)
>consensus
CAUCCGCCAUACAAGCCAAUAUAAUGGCAACGAGUGGCCAG____GCACUCACAAAUUGCUGGGCAAAUUGUUUACCAGAAUGAUGAGCCUCCAGGCAGUU
.....(((...(((((((......))))...(((((..........))))).....)))..((((..((..(((....)))..))..))))...))).... (-21.32 = -22.28 +   0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:54 2006