Locus 3996

Sequence ID	3L_DroMel_CAF1
Location	11,646,525 – 11,646,615
Length	90
Max. P	0.755495

overview

Window 8

Location	11,646,525 – 11,646,615
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	93.93
Mean single sequence MFE	-33.43
Consensus MFE	-27.47
Energy contribution	-27.92
Covariance contribution	0.45
Combinations/Pair	1.16
Mean z-score	-1.92
Structure conservation index	0.82
SVM decision value	0.06
SVM RNA-class probability	0.564924
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11646525 90 + 23771897
GUCUGUGUGGUCCAUUUCCGGUGACCCAUGCUGGGCCCCUGGUGGAUUAGGUUGCCAGAUUGCUCGGGAUUGGUCCAUGAAAUGAAUGGA
.((..(((((.(((.((((((..((((.....)))...((((..(......)..)))).)..).))))).))).)))))....))..... ( -31.40)
>DroSec_CAF1 20966 90 + 1
GUUUGUGUGGGCCAUUUCCGGUGACCCAUGCUGGGCCCCUGGUGGAUUAGGUUGCCAGAUUGCUCGGGAUUGGUCCAUGAAAUGAAUGGA
(((..(((((((((.((((((..((((.....)))...((((..(......)..)))).)..).))))).))))))))...)..)))... ( -34.80)
>DroSim_CAF1 21445 90 + 1
GUUUGUGUGGGCCAUUUCCGGUGACCCAUGCUGGGCCCCUGGUGGAUUAGGUUGCCAGAUUGCUCGGGAUUGGUCCAUGAAAUGAAUGGA
(((..(((((((((.((((((..((((.....)))...((((..(......)..)))).)..).))))).))))))))...)..)))... ( -34.80)
>DroEre_CAF1 18951 90 + 1
GUUUGUGUGGGCCAUUUCCGGUGACCCAUGCUGGGCCCCUGGUGGAUUAGGUUCCCAGAUUGCUCGGGAUUGGUCCAUGAAAUGAAUGGA
(((..(((((((((.((((((..(......(((((..(((((....)))))..))))).)..).))))).))))))))...)..)))... ( -35.80)
>DroYak_CAF1 21579 90 + 1
GUUUGUGUGGGCCAUUUCCGGUGACCCAUGCUGGGCCCCUGGUGGAUUAGGUUCCCAGAUUGCUCGGGAUUGGUCCAUGAAAUGAAUGGA
(((..(((((((((.((((((..(......(((((..(((((....)))))..))))).)..).))))).))))))))...)..)))... ( -35.80)
>DroAna_CAF1 17333 86 + 1
GUU----UGCUUCGUUUCCGGUGCCCCAUGCUGGGUCCCUGGUGGAUUAGGCUCGCAGAUUGCUUGGGAUUGGUCCAUGAAAUGAAUGGA
...----...((((((((.((..(((......)))..))..(((((((((.(((((.....))..))).))))))))))))))))).... ( -28.00)
>consensus
GUUUGUGUGGGCCAUUUCCGGUGACCCAUGCUGGGCCCCUGGUGGAUUAGGUUCCCAGAUUGCUCGGGAUUGGUCCAUGAAAUGAAUGGA
......((((((((.((((((((((((.....)))...((((..(......)..)))).)))).))))).))))))))............ (-27.47 = -27.92 +   0.45)

alignment

secondary structure

dotplot

Window 9

Location	11,646,525 – 11,646,615
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	93.93
Mean single sequence MFE	-24.63
Consensus MFE	-20.42
Energy contribution	-20.95
Covariance contribution	0.53
Combinations/Pair	1.05
Mean z-score	-2.09
Structure conservation index	0.83
SVM decision value	0.49
SVM RNA-class probability	0.755495
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11646525 90 - 23771897
UCCAUUCAUUUCAUGGACCAAUCCCGAGCAAUCUGGCAACCUAAUCCACCAGGGGCCCAGCAUGGGUCACCGGAAAUGGACCACACAGAC
....((((((((.((((.....((.((....)).))........))))...(((((((.....))))).)).)))))))).......... ( -24.52)
>DroSec_CAF1 20966 90 - 1
UCCAUUCAUUUCAUGGACCAAUCCCGAGCAAUCUGGCAACCUAAUCCACCAGGGGCCCAGCAUGGGUCACCGGAAAUGGCCCACACAAAC
.....(((((((.((((.....((.((....)).))........))))...(((((((.....))))).)).)))))))........... ( -23.12)
>DroSim_CAF1 21445 90 - 1
UCCAUUCAUUUCAUGGACCAAUCCCGAGCAAUCUGGCAACCUAAUCCACCAGGGGCCCAGCAUGGGUCACCGGAAAUGGCCCACACAAAC
.....(((((((.((((.....((.((....)).))........))))...(((((((.....))))).)).)))))))........... ( -23.12)
>DroEre_CAF1 18951 90 - 1
UCCAUUCAUUUCAUGGACCAAUCCCGAGCAAUCUGGGAACCUAAUCCACCAGGGGCCCAGCAUGGGUCACCGGAAAUGGCCCACACAAAC
.....(((((((.((((....((((((....)).))))......))))...(((((((.....))))).)).)))))))........... ( -27.90)
>DroYak_CAF1 21579 90 - 1
UCCAUUCAUUUCAUGGACCAAUCCCGAGCAAUCUGGGAACCUAAUCCACCAGGGGCCCAGCAUGGGUCACCGGAAAUGGCCCACACAAAC
.....(((((((.((((....((((((....)).))))......))))...(((((((.....))))).)).)))))))........... ( -27.90)
>DroAna_CAF1 17333 86 - 1
UCCAUUCAUUUCAUGGACCAAUCCCAAGCAAUCUGCGAGCCUAAUCCACCAGGGACCCAGCAUGGGGCACCGGAAACGAAGCA----AAC
(((((.......)))))....((((..((.....))((......)).....))))(((.....)))((..((....))..)).----... ( -21.20)
>consensus
UCCAUUCAUUUCAUGGACCAAUCCCGAGCAAUCUGGCAACCUAAUCCACCAGGGGCCCAGCAUGGGUCACCGGAAAUGGCCCACACAAAC
.....(((((((.((((.....((.((....)).))........))))...(((((((.....))))).)).)))))))........... (-20.42 = -20.95 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:01 2006