Locus 8192

Sequence ID	3L_DroMel_CAF1
Location	21,545,488 – 21,545,596
Length	108
Max. P	0.961171

overview

Window 6

Location	21,545,488 – 21,545,596
Length	108
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	77.57
Mean single sequence MFE	-25.53
Consensus MFE	-14.45
Energy contribution	-16.12
Covariance contribution	1.67
Combinations/Pair	1.25
Mean z-score	-2.10
Structure conservation index	0.57
SVM decision value	1.03
SVM RNA-class probability	0.903475
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21545488 108 + 23771897
AUG--UUAUCCAAAAUAUAUAUUAUUA-UUAGCAUAUUCAUGGCGAACUUGCAAGUUACA------UUCCACUCCAUGUGGCGUUCGAGGCGGAACCUCGAACACGCCUAAAUAACA
(((--(((.....((((.....)))).-.))))))......((((.........((((((------(........)))))))((((((((.....)))))))).))))......... ( -28.50)
>DroPse_CAF1 46308 105 + 1
AGGAGUUAUGUACU-UAUGUACGAGUACCUUACGU-----UUUUGAGCUUGUAAGUACCG------CAGCACAUCAUACUGUGAGCAAGGCGGAACCUUGAACACACCUAAAUAACA
(((.(((..(((((-(((((.((((.((.....))-----.)))).))..))))))))..------.))).........((((..(((((.....)))))..)))))))........ ( -23.50)
>DroSec_CAF1 17204 108 + 1
AUG--UUAUCAAAUAUAUAUAUUAUUA-UUAGCGUAUUCAUGGCGAACUUGCAAGUUACA------UUCCACUCCAUGUGGCGUUCGAGGCGGAACCUUGAACACGCCUAAAUAACA
(((--(((...((((.......)))).-.))))))......((((.........((((((------(........)))))))((((((((.....)))))))).))))......... ( -27.10)
>DroSim_CAF1 20985 108 + 1
AUG--UUAUCAAAUAUAUAUAUUAUUA-UUAGCGUAUUCAUGGCGAACUUGCAAGUUACA------UUCCACUCCAUGUGGCGUUCGAGGCGGAACCUCGAACACGCCUAAAUAACA
(((--(((...((((.......)))).-.))))))......((((.........((((((------(........)))))))((((((((.....)))))))).))))......... ( -29.20)
>DroEre_CAF1 35156 106 + 1
AUU--UUGUCAAAAAC--ACAUUAUUA-UAAGCACAUUCAUGGCGAACUUGGAAGUUACA------UUCCACUCCAUGUGGCAUUCGAGGCGGAACCUAGGCCACGCCUAAAUAACA
...--...........--.........-.............(((.....(((((......------)))))......(((((.....(((.....)))..))))))))......... ( -21.30)
>DroYak_CAF1 35471 112 + 1
AUA--UUAUCAAAAAC--AUAUUAAUA-UAAACAUUUUCAUGACGAACUUGGAAGUUACAUUCACAUUCCACUCCAUUGGGCGUUCGAGGCGGAACCUCGAACACGCCUGAAUAACA
(((--(((........--....)))))-)....................(((((((.......)).))))).....(..(((((((((((.....))))))..)))))..)...... ( -23.60)
>consensus
AUG__UUAUCAAAAAUAUAUAUUAUUA_UUAGCAUAUUCAUGGCGAACUUGCAAGUUACA______UUCCACUCCAUGUGGCGUUCGAGGCGGAACCUCGAACACGCCUAAAUAACA
.........................................((((.......................((((.....)))).((((((((.....)))))))).))))......... (-14.45 = -16.12 +   1.67)

alignment

secondary structure

dotplot

Window 7

Location	21,545,488 – 21,545,596
Length	108
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	77.57
Mean single sequence MFE	-30.80
Consensus MFE	-17.22
Energy contribution	-18.51
Covariance contribution	1.29
Combinations/Pair	1.37
Mean z-score	-2.43
Structure conservation index	0.56
SVM decision value	1.52
SVM RNA-class probability	0.961171
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21545488 108 - 23771897
UGUUAUUUAGGCGUGUUCGAGGUUCCGCCUCGAACGCCACAUGGAGUGGAA------UGUAACUUGCAAGUUCGCCAUGAAUAUGCUAA-UAAUAAUAUAUAUUUUGGAUAA--CAU
((((((((((((((((((((((.....)))))))).((((.....)))).)------))).....(((.((((.....)))).)))...-..............))))))))--)). ( -32.80)
>DroPse_CAF1 46308 105 - 1
UGUUAUUUAGGUGUGUUCAAGGUUCCGCCUUGCUCACAGUAUGAUGUGCUG------CGGUACUUACAAGCUCAAAA-----ACGUAAGGUACUCGUACAUA-AGUACAUAACUCCU
.(((((.....((((..(((((.....)))))..))))((((..((((.((------((((((((((..........-----..)))).)))).))))))))-.))))))))).... ( -29.40)
>DroSec_CAF1 17204 108 - 1
UGUUAUUUAGGCGUGUUCAAGGUUCCGCCUCGAACGCCACAUGGAGUGGAA------UGUAACUUGCAAGUUCGCCAUGAAUACGCUAA-UAAUAAUAUAUAUAUUUGAUAA--CAU
(((((((..(((((((((((((.....)))(((((.((((.....))))..------(((.....))).)))))...))))))))))..-.)))))))..............--... ( -30.10)
>DroSim_CAF1 20985 108 - 1
UGUUAUUUAGGCGUGUUCGAGGUUCCGCCUCGAACGCCACAUGGAGUGGAA------UGUAACUUGCAAGUUCGCCAUGAAUACGCUAA-UAAUAAUAUAUAUAUUUGAUAA--CAU
(((((((..(((((((((((((.....))))((((.((((.....))))..------(((.....))).)))).....)))))))))..-.)))))))..............--... ( -32.70)
>DroEre_CAF1 35156 106 - 1
UGUUAUUUAGGCGUGGCCUAGGUUCCGCCUCGAAUGCCACAUGGAGUGGAA------UGUAACUUCCAAGUUCGCCAUGAAUGUGCUUA-UAAUAAUGU--GUUUUUGACAA--AAU
(((((((.(((((..((....))..))))).))..(((((((((..(((((------......)))))......)))))..)).))...-.........--.....))))).--... ( -27.00)
>DroYak_CAF1 35471 112 - 1
UGUUAUUCAGGCGUGUUCGAGGUUCCGCCUCGAACGCCCAAUGGAGUGGAAUGUGAAUGUAACUUCCAAGUUCGUCAUGAAAAUGUUUA-UAUUAAUAU--GUUUUUGAUAA--UAU
.........((.((((((((((.....))))))))))))...(((.(((((.((.......)))))))..)))((((.(((.(((((..-....)))))--.))).))))..--... ( -32.80)
>consensus
UGUUAUUUAGGCGUGUUCGAGGUUCCGCCUCGAACGCCACAUGGAGUGGAA______UGUAACUUGCAAGUUCGCCAUGAAUACGCUAA_UAAUAAUAUAUAUAUUUGAUAA__CAU
...(((((((((((((((((((.....)))))))))).((.((((((..............)))).)).))..))).)))))).................................. (-17.22 = -18.51 +   1.29)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:05 2006