Locus 4216

Sequence ID	X_DroMel_CAF1
Location	11,051,899 – 11,052,016
Length	117
Max. P	0.897030

overview

Window 9

Location	11,051,899 – 11,052,016
Length	117
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	81.55
Mean single sequence MFE	-27.94
Consensus MFE	-18.46
Energy contribution	-18.70
Covariance contribution	0.24
Combinations/Pair	1.28
Mean z-score	-1.90
Structure conservation index	0.66
SVM decision value	0.48
SVM RNA-class probability	0.753218
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11051899 117 + 22224390
UUUUCUGUGCCUG-UCCCCACUCUGGGUUUUCCAAUUUUCCUUUGUGCGUCGAGCACCACAGAUUCUUGCUUAUGAUUGAGCCCAGGGCCAGGCAAAAAAAAAAAAAAAAACAGAAAA
.((((((((((((-.(((...((((((....))...........((((.....))))..)))).....(((((....)))))...))).)))))................))))))). ( -32.79)
>DroSec_CAF1 4105 106 + 1
UUUUCUGUGCCUG-UUCCCACUCUGAGUUUUCCAAUUUUCCUUUGUGCGUCGAGCACCACAGAUUCUUGCUUAUGAUUGAGCCCAGGGCCAGGCCAAAAAA-----------AGAAAA
((((.((.(((((-..(((..((((((((....)))).......((((.....))))..)))).....(((((....)))))...))).))))))).))))-----------...... ( -25.90)
>DroSim_CAF1 2902 106 + 1
UUUUCUGUGCCUG-UUCCCACUCUGAGUUUUCCAAUUUUCCUUUGUGCGUCGAGCACCACAGAUUCUUGCUUAUGAUUGAGCCCAGGGCCAGGCCAAAAAA-----------AGAAAA
((((.((.(((((-..(((..((((((((....)))).......((((.....))))..)))).....(((((....)))))...))).))))))).))))-----------...... ( -25.90)
>DroEre_CAF1 6390 97 + 1
UUUUCUGGCUCUGUCCCCAACUCUG--UGUUCCAAUUUUCCUUUUGGCGUUGAGCACCACAGAUUCUUGCUUAUGAUUCAGCACAGGGCCAGGCCAAAA-------------------
...(((((((((((.......((((--((...(((........)))((.....))..)))))).....(((........))))))))))))))......------------------- ( -28.80)
>DroYak_CAF1 4621 98 + 1
UUUUCUGGGCUUG-CCCCGACUCCG--UUUUCCCAUUUCCCUUUGUGCGUUCAGCACCACAGAUUUUUGCUUAUGAUUGAGCUGAGGGCCAGGCCAAAAAC-----------------
.......((((((-.(((.......--.................((((.....))))...........(((((....)))))...))).))))))......----------------- ( -26.30)
>consensus
UUUUCUGUGCCUG_UCCCCACUCUG_GUUUUCCAAUUUUCCUUUGUGCGUCGAGCACCACAGAUUCUUGCUUAUGAUUGAGCCCAGGGCCAGGCCAAAAAA___________AGAAAA
.......((((((.(((...........................((((.....))))...........(((((....)))))...))).))))))....................... (-18.46 = -18.70 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	11,051,899 – 11,052,016
Length	117
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	81.55
Mean single sequence MFE	-32.55
Consensus MFE	-18.83
Energy contribution	-20.87
Covariance contribution	2.04
Combinations/Pair	1.04
Mean z-score	-2.40
Structure conservation index	0.58
SVM decision value	1.00
SVM RNA-class probability	0.897030
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11051899 117 - 22224390
UUUUCUGUUUUUUUUUUUUUUUUUGCCUGGCCCUGGGCUCAAUCAUAAGCAAGAAUCUGUGGUGCUCGACGCACAAAGGAAAAUUGGAAAACCCAGAGUGGGGA-CAGGCACAGAAAA
.(((((((................(((((.((((..((((...............(((...((((.....))))...)))....(((.....))))))))))).-)))))))))))). ( -34.79)
>DroSec_CAF1 4105 106 - 1
UUUUCU-----------UUUUUUGGCCUGGCCCUGGGCUCAAUCAUAAGCAAGAAUCUGUGGUGCUCGACGCACAAAGGAAAAUUGGAAAACUCAGAGUGGGAA-CAGGCACAGAAAA
......-----------((((((((((((..(((..((((.........(((...(((...((((.....))))...)))...)))((....)).)))))))..-))))).))))))) ( -32.20)
>DroSim_CAF1 2902 106 - 1
UUUUCU-----------UUUUUUGGCCUGGCCCUGGGCUCAAUCAUAAGCAAGAAUCUGUGGUGCUCGACGCACAAAGGAAAAUUGGAAAACUCAGAGUGGGAA-CAGGCACAGAAAA
......-----------((((((((((((..(((..((((.........(((...(((...((((.....))))...)))...)))((....)).)))))))..-))))).))))))) ( -32.20)
>DroEre_CAF1 6390 97 - 1
-------------------UUUUGGCCUGGCCCUGUGCUGAAUCAUAAGCAAGAAUCUGUGGUGCUCAACGCCAAAAGGAAAAUUGGAACA--CAGAGUUGGGGACAGAGCCAGAAAA
-------------------((((((((((.((((.((((........))))....((((((((.....)).((((........))))..))--))))...)))).))).))))))).. ( -34.30)
>DroYak_CAF1 4621 98 - 1
-----------------GUUUUUGGCCUGGCCCUCAGCUCAAUCAUAAGCAAAAAUCUGUGGUGCUGAACGCACAAAGGGAAAUGGGAAAA--CGGAGUCGGGG-CAAGCCCAGAAAA
-----------------.(((((((.((.(((((..((((...............(((...((((.....))))..)))............--..)))).))))-).)).))))))). ( -29.25)
>consensus
UUUUCU___________UUUUUUGGCCUGGCCCUGGGCUCAAUCAUAAGCAAGAAUCUGUGGUGCUCGACGCACAAAGGAAAAUUGGAAAAC_CAGAGUGGGGA_CAGGCACAGAAAA
..................(((((((((((.(((...((((.........(((...(((...((((.....))))...)))...))).........)))))))...))))).)))))). (-18.83 = -20.87 +   2.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:26 2006