Locus 3624

Sequence ID	3L_DroMel_CAF1
Location	10,672,152 – 10,672,248
Length	96
Max. P	0.768861

overview

Window 0

Location	10,672,152 – 10,672,248
Length	96
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	71.88
Mean single sequence MFE	-24.56
Consensus MFE	-3.32
Energy contribution	-4.36
Covariance contribution	1.04
Combinations/Pair	1.21
Mean z-score	-1.74
Structure conservation index	0.14
SVM decision value	0.52
SVM RNA-class probability	0.768861
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10672152 96 + 23771897
UGUUGUAGUAUGAUUUCAAAUUAUGGCGGGCUUGUUGUUUGC-------------------ACACU---UUACAGCACUAUCUCUCAAAUUUGCGUCCU-UGCAGGCA-AUUGAGUUACA
((((((((((((((.....))))))((((((.....))))))-------------------.....---))))))))......(((((.((((((....-))))))..-.)))))..... ( -21.80)
>DroSec_CAF1 6817 120 + 1
UUUUGUAGAAUGAUUUUAAAUUAUGGCGGGCUUGUUGAUUUGAUUUGAGAGACAGUGCUGUAAAGUCUGCUACAGCACUGUCUCUCAAAUUUGCGUCCUUUUCAGGCAUGUUGAGUUACA
...(((((.(((((.....)))))((((.(((((..(((..(((((((((((((((((((((........)))))))))))))))))))))...))).....))))).))))...))))) ( -45.60)
>DroSim_CAF1 6734 98 + 1
UUUUGUAGAAUAAUUUUAAAUUAUGGCGGGCUUGUUGGUUGC-------------------ACACU---UUACAGCACUGUCUCUCAAAUUUGCGUCCUUUUCAGGCAUGUUGAGUUACA
...(((((................((((((((.((.(((...-------------------..)))---..))))).))))).(((((...(((.(.......).)))..)))))))))) ( -19.10)
>DroEre_CAF1 7311 85 + 1
GUUUGUAAGAUGCUUUUAAAUUAUGGCGGGCUUUUUGUUUGC-------------------ACACU---UUACAGCACUUUCUCUCAAAUUUGCGCAUCUUUUAGCC-------------
(((...(((((((..........((((((((.....))))))-------------------.))..---.....(((..((......))..))))))))))..))).------------- ( -18.80)
>DroYak_CAF1 18144 95 + 1
GUUUGUUUGGUGCUUUUAAAUUAUGGCGGGCU---UGUUUGC-------------------ACACU---UUACAGCACUAUAUCUCAAAUUUGCGUCGUUCUCAAACAUUUUGAGUGAGA
(((((..(((((((..((((...(((((((..---..)))))-------------------.)).)---))).))))))).....))))).....((...(((((.....)))))...)) ( -17.50)
>consensus
UUUUGUAGAAUGAUUUUAAAUUAUGGCGGGCUUGUUGUUUGC___________________ACACU___UUACAGCACUAUCUCUCAAAUUUGCGUCCUUUUCAGGCAUGUUGAGUUACA
...(((((.(((((.....))))).((((((.....))))))...........................)))))(((..............))).......................... ( -3.32 =  -4.36 +   1.04)

alignment

secondary structure

dotplot

Window 1

Location	10,672,152 – 10,672,248
Length	96
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	71.88
Mean single sequence MFE	-19.62
Consensus MFE	-3.32
Energy contribution	-3.16
Covariance contribution	-0.16
Combinations/Pair	1.40
Mean z-score	-1.75
Structure conservation index	0.17
SVM decision value	0.51
SVM RNA-class probability	0.764262
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10672152 96 - 23771897
UGUAACUCAAU-UGCCUGCA-AGGACGCAAAUUUGAGAGAUAGUGCUGUAA---AGUGU-------------------GCAAACAACAAGCCCGCCAUAAUUUGAAAUCAUACUACAACA
((((.(((((.-....(((.-.....)))...))))).(((.(.(((....---..(((-------------------....)))...))).)..((.....))..)))....))))... ( -12.60)
>DroSec_CAF1 6817 120 - 1
UGUAACUCAACAUGCCUGAAAAGGACGCAAAUUUGAGAGACAGUGCUGUAGCAGACUUUACAGCACUGUCUCUCAAAUCAAAUCAACAAGCCCGCCAUAAUUUAAAAUCAUUCUACAAAA
((((..........(((....)))......(((((((((((((((((((((......)))))))))))))))))))))...................................))))... ( -39.20)
>DroSim_CAF1 6734 98 - 1
UGUAACUCAACAUGCCUGAAAAGGACGCAAAUUUGAGAGACAGUGCUGUAA---AGUGU-------------------GCAACCAACAAGCCCGCCAUAAUUUAAAAUUAUUCUACAAAA
(((..(((((..(((((....))).)).....)))))..)))....((((.---.(((.-------------------((.........)).))).(((((.....)))))..))))... ( -13.30)
>DroEre_CAF1 7311 85 - 1
-------------GGCUAAAAGAUGCGCAAAUUUGAGAGAAAGUGCUGUAA---AGUGU-------------------GCAAACAAAAAGCCCGCCAUAAUUUAAAAGCAUCUUACAAAC
-------------......((((((((((..(((....)))..))).....---.(((.-------------------((.........)).)))............)))))))...... ( -18.10)
>DroYak_CAF1 18144 95 - 1
UCUCACUCAAAAUGUUUGAGAACGACGCAAAUUUGAGAUAUAGUGCUGUAA---AGUGU-------------------GCAAACA---AGCCCGCCAUAAUUUAAAAGCACCAAACAAAC
.....(((((...(((((.(.....).)))))))))).....(((((.(((---((((.-------------------((.....---.)).))).....))))..)))))......... ( -14.90)
>consensus
UGUAACUCAACAUGCCUGAAAAGGACGCAAAUUUGAGAGACAGUGCUGUAA___AGUGU___________________GCAAACAACAAGCCCGCCAUAAUUUAAAAUCAUCCUACAAAA
..............(((....)))(((((...((....))...))).))....................................................................... ( -3.32 =  -3.16 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:33 2006