Locus 46

Sequence ID	2L_DroMel_CAF1
Location	198,281 – 198,435
Length	154
Max. P	0.967144

overview

Window 5

Location	198,281 – 198,401
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.06
Mean single sequence MFE	-54.93
Consensus MFE	-33.52
Energy contribution	-33.44
Covariance contribution	-0.08
Combinations/Pair	1.50
Mean z-score	-2.44
Structure conservation index	0.61
SVM decision value	1.61
SVM RNA-class probability	0.967144
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 198281 120 + 22407834
ACCGGUGGGGUUGCGGAUGCGGUCAGCAAGGCUCUAGUUGAUCCAGUUACUGGAGUUAUCACCGCUGGAAUGCCCCAGGGCAAAGAGGGUAAUCUUCCAGCAGCUACCGCUGCUGCACCU
...((((.(((.((((..(((((.(....(((((((((..........))))))))).).)))(((((((((((....))))..((......))))))))).))..)))).))).)))). ( -51.40)
>DroVir_CAF1 13837 120 + 1
ACAGGUGGUGCCGCGGAUGCAGUUAGCAAGGCUUUAAUUGAUCCCGUUACGGGUGUCAUUACUGCGGGCAUGCCGCAGGGCAAGGAGGGCAAUUUGCCGGCUGCGAAUGCGGCGGCGCCC
...((((.(((((((..((((((..((((.(((((..(((..((((...))))........((((((.....))))))..)))..)))))...))))..))))))..))))))).)))). ( -60.20)
>DroGri_CAF1 14027 120 + 1
ACUGGCGGUGCAGCGGAUGCGGUCAGCAAGGCUCUGAUUGACCCGGUCACAGGCAUAAUUACGGCCGGAAUGCCGCAGGGCAAGGAAGGUAAUUUGCCGGCAGCGAAUGCGGCGGCGCCC
...((((.(((.(((..(((((((((((......)).))))))..(((...((((.((((((..((....((((....)))).))...))))))))))))).)))..))).))).)))). ( -47.10)
>DroWil_CAF1 14741 120 + 1
ACUGGCGGAGCGGCAGAUGCUGUUAGCAAGGCAUUGGUGGAUCCUGUGACGGGUGUUAUAACCGCUGGCAUGCCACAGGGCAAAGAGGGUAAUCUGCCAGCAGCAACAGCUGCUGCUCCA
......(((((((((...((((((.((........(((.(((((((...)))).)))...)))((((((.((((....)))).(((......))))))))).))))))))))))))))). ( -54.30)
>DroMoj_CAF1 13952 120 + 1
ACAGGCGGCGCCGCAGAUGCGGUGAGCAAGGCGCUGAUUGAUCCGGUUACGGGCGUCAUUACGGCGGGCAUGCCGCAGGGCAAGGAGGGCAAUUUGCCGGCUGCCAAUGCAGCGGCGCCA
......((((((((.((((((((.(((.....))).)))...(((....)))))))).....(((((.(.((((....)))).....(((.....)))).)))))......)))))))). ( -58.30)
>DroAna_CAF1 13481 120 + 1
ACCGGCGGAGCAGCCGACGCGGUUAGCAAGGCUCUGGUGGAUCCUGUCACGGGCGUCAUCACAGCCGGCAUGCCUCAGGGCAAGGAGGGCAACCUCCCAGCAGCUACGGCCGCUGCUUCA
......((((((((....((.((.(((..((((.((((((..((((...))))..)))))).)))).((.((((....)))).(((((....)))))..)).))))).)).)))))))). ( -58.30)
>consensus
ACAGGCGGAGCAGCGGAUGCGGUUAGCAAGGCUCUGAUUGAUCCGGUUACGGGCGUCAUUACCGCCGGCAUGCCGCAGGGCAAGGAGGGCAAUCUGCCAGCAGCGAAUGCGGCGGCGCCA
...((((.(((.(((...((.(((.(((..(((((.......(((((................)))))..((((....))))...)))))....))).))).))...))).))).)))). (-33.52 = -33.44 +  -0.08)

alignment

secondary structure

dotplot

Window 6

Location	198,321 – 198,435
Length	114
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	76.75
Mean single sequence MFE	-47.28
Consensus MFE	-24.77
Energy contribution	-25.00
Covariance contribution	0.23
Combinations/Pair	1.45
Mean z-score	-2.05
Structure conservation index	0.52
SVM decision value	0.82
SVM RNA-class probability	0.858394
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 198321 114 + 22407834
AUCCAGUUACUGGAGUUAUCACCGCUGGAAUGCCCCAGGGCAAAGAGGGUAAUCUUCCAGCAGCUACCGCUGCUGCACCUGCCAACAGCAGCAAUGAAGACGGUCAAGCAGCUC
.(((((...)))))(((...((((((((((((((....))))..((......))))))))).......(((((((..........))))))).........)))..)))..... ( -38.80)
>DroVir_CAF1 13877 106 + 1
AUCCCGUUACGGGUGUCAUUACUGCGGGCAUGCCGCAGGGCAAGGAGGGCAAUUUGCCGGCUGCGAAUGCGGCGGCGCCCGCCAACAGCAGCAAUGAAA-CGGUGCC-------
...(((((.((((((((....((((((.....))))))((((((........)))))).(((((....))))))))))))).......((....)).))-)))....------- ( -46.50)
>DroPse_CAF1 15603 110 + 1
AUCCCGUCACGGGAGUUAUCACCGCGGGCAUGCCGCAGGGCAAGGAGGGCAACCUCCCGGCAGCCACGGCUGCAGCUCCCACCAACAGCAGCAAUGAGG-CGGCACCGCAG---
.(((((...))))).........((((...((((((.((((..(((((....)))))..(((((....))))).))))..........((....))..)-)))))))))..--- ( -52.50)
>DroMoj_CAF1 13992 106 + 1
AUCCGGUUACGGGCGUCAUUACGGCGGGCAUGCCGCAGGGCAAGGAGGGCAAUUUGCCGGCUGCCAAUGCAGCGGCGCCAGCUAACAGCAGCAAUGAGG-UGACGCC-------
..(((....)))((((((((..(((.(((..(((....((((((........)))))).(((((....))))))))))).))).....((....)).))-)))))).------- ( -44.20)
>DroAna_CAF1 13521 114 + 1
AUCCUGUCACGGGCGUCAUCACAGCCGGCAUGCCUCAGGGCAAGGAGGGCAACCUCCCAGCAGCUACGGCCGCUGCUUCAGCCAACAGCAGCAGCGACAUGGGACCACUGGGUC
..((((((..((.(((......(((..((.((((....)))).(((((....)))))..)).)))))).))((((((...((.....)))))))))))).))((((....)))) ( -49.20)
>DroPer_CAF1 15789 110 + 1
AUCCCGUCACGGGAGUUAUCACCGCGGGCAUGCCGCAGGGCAAGGAGGGCAACCUCCCGGCAGCCACGGCUGCAGCUCCCACCAACAGCAGCAAUGAGG-CGGCACCGCAG---
.(((((...))))).........((((...((((((.((((..(((((....)))))..(((((....))))).))))..........((....))..)-)))))))))..--- ( -52.50)
>consensus
AUCCCGUCACGGGAGUCAUCACCGCGGGCAUGCCGCAGGGCAAGGAGGGCAACCUCCCGGCAGCCACGGCUGCAGCUCCCGCCAACAGCAGCAAUGAGG_CGGCACCGCAG___
...........((((((.............((((....)))).(((((....)))))..(((((....)))))))))))................................... (-24.77 = -25.00 +   0.23)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:06 2006