Locus 623

Sequence ID	3L_DroMel_CAF1
Location	1,842,741 – 1,842,846
Length	105
Max. P	0.951549

overview

Window 8

Location	1,842,741 – 1,842,846
Length	105
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	82.53
Mean single sequence MFE	-37.75
Consensus MFE	-22.99
Energy contribution	-22.47
Covariance contribution	-0.52
Combinations/Pair	1.33
Mean z-score	-3.19
Structure conservation index	0.61
SVM decision value	0.84
SVM RNA-class probability	0.864993
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1842741 105 + 23771897
CGACCUACUGCGU-CGCGAAUUCGGGACUGCCAGGAUUCUGAGAUCAGAGGCUCUGUGUGGGGUCCCAAAAACGCGACCAGUAGGGAAACAAGUUCGAAA--AAAUGG
...(((((((.((-((((..((.((((((((((((.(((((....)))))..)))).))..)))))).))..)))))))))))))...............--...... ( -43.70)
>DroSec_CAF1 1952 105 + 1
CGACCUACUGCGU-CUCGAAUUCGGGACUGUCAUGAAUCUGAGAUCAGAGGCUCUGUGUGGGAUCCCAAAAACGCGACCAGUAGGGAAACAAGUUCGAAA--AAAUGG
...(((((((.((-((((....)))))).(((..(..((((....))))..)...((.(((....)))...))..))))))))))...............--...... ( -31.90)
>DroSim_CAF1 1957 105 + 1
CGACCUACUGCGU-CGCGAAUUCGGGACUGCCAGGAAUCUGAGAUCAGAGGCUCUGUGUGGGAUCCCAAAAACGCGACCAGUAGGGAAACAAGUUCGAAA--AAAUGG
...(((((((.((-((((..((.(((((..(((((..((((....))))..).))).)..)..)))).))..)))))))))))))...............--...... ( -41.80)
>DroEre_CAF1 1945 103 + 1
CGACCUACUGCGU-CGCGAAUUCGGGACUGUUAGGAUUCUGAGAUCGGAAGCGCUGUGUG--GUCCCAAAAACGCGACCAGUAGGGAAACAAGUUCGAAA--AAAUGG
...(((((((.((-((((..((.(((((..(((((.(((((....))))).).))).)..--))))).))..)))))))))))))...............--...... ( -40.70)
>DroYak_CAF1 1952 103 + 1
CGACCUACUGCGU-CGCGAAUUCGGGACAGGCAGGAUUCUGAGAUCGGAAGCGCUGUGAG--GUCCCAAAAACGCGACCAGUAGGGAAACAAGUUCGAAA--AAAUGG
...(((((((.((-((((..((.(((((..(((((.(((((....))))).).))))...--))))).))..)))))))))))))...............--...... ( -42.60)
>DroPer_CAF1 2022 104 + 1
UGAGUUACUUCACCCUCGACUUCAGGACUGACAAAACU-UCUGUUCUGAAGUAUCG--CA-GAUCCUGAGCGGACGGCAAGUAAGGAAACAAGUUCGAAAAAAAAUGG
.(((((((((..((.((...((((((((((.....(((-((......)))))....--))-).)))))))..)).)).))))))(....)...)))............ ( -25.80)
>consensus
CGACCUACUGCGU_CGCGAAUUCGGGACUGCCAGGAUUCUGAGAUCAGAAGCUCUGUGUG_GAUCCCAAAAACGCGACCAGUAGGGAAACAAGUUCGAAA__AAAUGG
(((.((((((.((.((((..((.((((....((((..((((....))))..).))).......)))).))..))))))))))))(....)....)))........... (-22.99 = -22.47 +  -0.52)

alignment

secondary structure

dotplot

Window 9

Location	1,842,741 – 1,842,846
Length	105
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	82.53
Mean single sequence MFE	-38.13
Consensus MFE	-27.17
Energy contribution	-26.10
Covariance contribution	-1.07
Combinations/Pair	1.41
Mean z-score	-3.96
Structure conservation index	0.71
SVM decision value	1.41
SVM RNA-class probability	0.951549
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1842741 105 - 23771897
CCAUUU--UUUCGAACUUGUUUCCCUACUGGUCGCGUUUUUGGGACCCCACACAGAGCCUCUGAUCUCAGAAUCCUGGCAGUCCCGAAUUCGCG-ACGCAGUAGGUCG
......--...............(((((((((((((..((((((((......(((.(..((((....))))..))))...))))))))..))))-)).)))))))... ( -43.30)
>DroSec_CAF1 1952 105 - 1
CCAUUU--UUUCGAACUUGUUUCCCUACUGGUCGCGUUUUUGGGAUCCCACACAGAGCCUCUGAUCUCAGAUUCAUGACAGUCCCGAAUUCGAG-ACGCAGUAGGUCG
......--...............((((((((((.((..((((((((....((..(((..((((....))))))).))...))))))))..)).)-)).)))))))... ( -32.70)
>DroSim_CAF1 1957 105 - 1
CCAUUU--UUUCGAACUUGUUUCCCUACUGGUCGCGUUUUUGGGAUCCCACACAGAGCCUCUGAUCUCAGAUUCCUGGCAGUCCCGAAUUCGCG-ACGCAGUAGGUCG
......--...............(((((((((((((..((((((((......(((.(..((((....))))..))))...))))))))..))))-)).)))))))... ( -42.00)
>DroEre_CAF1 1945 103 - 1
CCAUUU--UUUCGAACUUGUUUCCCUACUGGUCGCGUUUUUGGGAC--CACACAGCGCUUCCGAUCUCAGAAUCCUAACAGUCCCGAAUUCGCG-ACGCAGUAGGUCG
......--...............(((((((((((((..((((((((--.....((.(.(((.(....).))).)))....))))))))..))))-)).)))))))... ( -37.40)
>DroYak_CAF1 1952 103 - 1
CCAUUU--UUUCGAACUUGUUUCCCUACUGGUCGCGUUUUUGGGAC--CUCACAGCGCUUCCGAUCUCAGAAUCCUGCCUGUCCCGAAUUCGCG-ACGCAGUAGGUCG
......--...............(((((((((((((..((((((((--....(((.(.(((.(....).))).))))...))))))))..))))-)).)))))))... ( -40.40)
>DroPer_CAF1 2022 104 - 1
CCAUUUUUUUUCGAACUUGUUUCCUUACUUGCCGUCCGCUCAGGAUC-UG--CGAUACUUCAGAACAGA-AGUUUUGUCAGUCCUGAAGUCGAGGGUGAAGUAACUCA
........................(((((((((.((.((((((((.(-((--(((.(((((......))-))).))).)))))))).))).)).))).)))))).... ( -33.00)
>consensus
CCAUUU__UUUCGAACUUGUUUCCCUACUGGUCGCGUUUUUGGGACC_CACACAGAGCCUCUGAUCUCAGAAUCCUGACAGUCCCGAAUUCGCG_ACGCAGUAGGUCG
.......................(((((((((((((..((((((((......(((.(..((........))..))))...))))))))..)))).)).)))))))... (-27.17 = -26.10 +  -1.07)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:01 2006