Locus 5425

Sequence ID	2L_DroMel_CAF1
Location	15,460,593 – 15,460,711
Length	118
Max. P	0.992836

overview

Window 2

Location	15,460,593 – 15,460,711
Length	118
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	94.58
Mean single sequence MFE	-28.32
Consensus MFE	-24.36
Energy contribution	-26.00
Covariance contribution	1.64
Combinations/Pair	1.04
Mean z-score	-2.13
Structure conservation index	0.86
SVM decision value	2.35
SVM RNA-class probability	0.992836
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15460593 118 + 22407834
UUCAAAAGAAAUGGCCUUUCUUAUGGGCUUACCCGCAAGAUCAAUGAUCUGCGAUCGACCCAAGAUUUACGACAGCAUUUCAUAAUUUAUGUCACAUUCUAGGGCCAAACCGAACCAU
...........((((((((((..((((.((...((((.((((...))))))))...))))))))).....((((..(((....)))...)))).......)))))))........... ( -27.00)
>DroSec_CAF1 198640 118 + 1
UCCAAGAGAAAUGGCCUUUCUUAUGGGCUUACCCGCAAGAUCAAUGUUCUGCGAUCGACCCAAGAUUUACGAUCGCAUUUCAUAAUUUAUGUCACAUUCUAGGGCCAAACCGAACCAU
...........(((((((((((.((((....)))).))))...(((...((((((((............))))))))...))).................)))))))........... ( -30.40)
>DroSim_CAF1 204655 118 + 1
UCCAAGAGAAAUGGCCUUUCUUAUGGGCUUACCCGCAAGAUCAAUGAUCUGCGAUCGACCCAAGAUUUACGAUCGCAUUUCAUAAUUUAUGUCACAUUCUAGGGCCAAACCGAACCAU
...........(((((((((((.((((....)))).))))...((((..((((((((............))))))))..)))).................)))))))........... ( -33.40)
>DroEre_CAF1 209149 118 + 1
CACAGAAGAAAUGGCCUUUCUUAUAGGCUUACCCGCAAGAUCAGUGAUCUGCGAUCGACCCAAGAUUUACGACCGCAUUUCAUAAUUUAUGUCACAUUCUAGGGGCAAACCAAACCAU
...((((((...(((((.......)))))....(....).)).((((..((((.(((............))).))))..)))).............)))).((......))....... ( -22.00)
>DroYak_CAF1 206383 118 + 1
UCCAAGAGAAAUUGCCUUUCUUAUGGGCUUACCCGCAAGAUCAAUGAUCUGCGAUCGACCCAAGAUUUACGAUCGCAUUUCAUAAUUUAUGUCACAUUCUAGGAACAAACCAAACCAU
(((.((((..........((((.((((....)))).))))...((((..((((((((............))))))))..)))).............)))).))).............. ( -28.80)
>consensus
UCCAAGAGAAAUGGCCUUUCUUAUGGGCUUACCCGCAAGAUCAAUGAUCUGCGAUCGACCCAAGAUUUACGAUCGCAUUUCAUAAUUUAUGUCACAUUCUAGGGCCAAACCGAACCAU
...........(((((((((((.((((....)))).))))...((((..((((((((............))))))))..)))).................)))))))........... (-24.36 = -26.00 +   1.64)

alignment

secondary structure

dotplot

Window 3

Location	15,460,593 – 15,460,711
Length	118
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	94.58
Mean single sequence MFE	-33.18
Consensus MFE	-28.16
Energy contribution	-28.80
Covariance contribution	0.64
Combinations/Pair	1.11
Mean z-score	-1.40
Structure conservation index	0.85
SVM decision value	0.38
SVM RNA-class probability	0.713991
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15460593 118 - 22407834
AUGGUUCGGUUUGGCCCUAGAAUGUGACAUAAAUUAUGAAAUGCUGUCGUAAAUCUUGGGUCGAUCGCAGAUCAUUGAUCUUGCGGGUAAGCCCAUAAGAAAGGCCAUUUCUUUUGAA
.......((((((((((.(((...(((((...(((....)))..)))))....))).)))))..(((((((((...)))).)))))..)))))((.((((((.....)))))).)).. ( -31.40)
>DroSec_CAF1 198640 118 - 1
AUGGUUCGGUUUGGCCCUAGAAUGUGACAUAAAUUAUGAAAUGCGAUCGUAAAUCUUGGGUCGAUCGCAGAACAUUGAUCUUGCGGGUAAGCCCAUAAGAAAGGCCAUUUCUCUUGGA
.......((..(((((....(((((..((((...))))...((((((((............))))))))..)))))..(((((.(((....))).)))))..)))))..))....... ( -34.30)
>DroSim_CAF1 204655 118 - 1
AUGGUUCGGUUUGGCCCUAGAAUGUGACAUAAAUUAUGAAAUGCGAUCGUAAAUCUUGGGUCGAUCGCAGAUCAUUGAUCUUGCGGGUAAGCCCAUAAGAAAGGCCAUUUCUCUUGGA
.......((..(((((...................((((..((((((((............))))))))..))))...(((((.(((....))).)))))..)))))..))....... ( -34.90)
>DroEre_CAF1 209149 118 - 1
AUGGUUUGGUUUGCCCCUAGAAUGUGACAUAAAUUAUGAAAUGCGGUCGUAAAUCUUGGGUCGAUCGCAGAUCACUGAUCUUGCGGGUAAGCCUAUAAGAAAGGCCAUUUCUUCUGUG
(((((((((((((((((.(((..((((((((...))))...((((((((............))))))))..))))...))).).)))))))))........))))))).......... ( -35.80)
>DroYak_CAF1 206383 118 - 1
AUGGUUUGGUUUGUUCCUAGAAUGUGACAUAAAUUAUGAAAUGCGAUCGUAAAUCUUGGGUCGAUCGCAGAUCAUUGAUCUUGCGGGUAAGCCCAUAAGAAAGGCAAUUUCUCUUGGA
.......((((((..((.(((..((((((((...))))...((((((((............))))))))..))))...))).).)..))))))((..(((((.....)))))..)).. ( -29.50)
>consensus
AUGGUUCGGUUUGGCCCUAGAAUGUGACAUAAAUUAUGAAAUGCGAUCGUAAAUCUUGGGUCGAUCGCAGAUCAUUGAUCUUGCGGGUAAGCCCAUAAGAAAGGCCAUUUCUCUUGGA
.......((..(((((...................((((..((((((((............))))))))..))))...(((((.(((....))).)))))..)))))..))....... (-28.16 = -28.80 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:51 2006