Locus 3745

Sequence ID	X_DroMel_CAF1
Location	9,957,120 – 9,957,264
Length	144
Max. P	0.973978

overview

Window 2

Location	9,957,120 – 9,957,224
Length	104
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.39
Mean single sequence MFE	-18.98
Consensus MFE	-16.98
Energy contribution	-17.18
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.75
Structure conservation index	0.89
SVM decision value	1.72
SVM RNA-class probability	0.973978
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9957120 104 - 22224390
CAAGUUGACACAAUCGUGGACAACCUUUUUCGUACACAAGCCAAUCAACUGUGGCAAAGCAGAAAGCUCAAA----------------AAAAGAGGAAAUAAUUAUGGAAAAACAAUUUU
...((((.(((....)))..)))).(((((((((.....((((........))))...........(((...----------------....)))........)))))))))........ ( -18.00)
>DroSec_CAF1 25166 104 - 1
CAAGUUGACACAAUCGUGGACAACCUUUUUCGUACACAAGCCAAUCAACUGUGGCACAGCAGAAAGCUCAAA----------------AAAAGCGGAAAUAAUUAUGGAAAAACAAUUUU
...((((.(((....)))..)))).(((((((((......((......((((......))))...(((....----------------...))))).......)))))))))........ ( -18.62)
>DroSim_CAF1 6332 104 - 1
CAAGUUGACACAAUCGUGGACAACUUUUUUCGUACACAAGCCAAUCAACUGUGGCACAGCAGAAAGCUCAAA----------------AAAAGAGGAAAUAAUUAUGGAAAAACAAUUUU
.((((((.(((....)))..))))))((((((((.....((((........))))...........(((...----------------....)))........))))))))......... ( -19.10)
>DroEre_CAF1 19796 119 - 1
CAAGUUGACACAAUCGUGAACAACCUUUUUCGUACACAAGCCAAUCAACUGCGGCAGAGCAGAAGGCUAAAAAAAAACAAAACAAAAAAAAAGAGUAAAUAAUUAUGGAAAAACAAUU-U
.((((((.(((....))).......(((((((((....((((......((((......))))..)))).............((...........)).......))))))))).)))))-) ( -17.10)
>DroYak_CAF1 19540 103 - 1
CAAGUUGACACAAUCGUGGACAACCUUUUUCGUACACAAGCCAAUCAACUGUGGCAGAGCAGAAAGCUCAAA----------------AAAAGAGGAAAUAAUUAUGGAAAAACAAUU-U
...((((.(((....)))..)))).(((((((((.....((((........)))).((((.....))))...----------------...............)))))))))......-. ( -22.10)
>consensus
CAAGUUGACACAAUCGUGGACAACCUUUUUCGUACACAAGCCAAUCAACUGUGGCACAGCAGAAAGCUCAAA________________AAAAGAGGAAAUAAUUAUGGAAAAACAAUUUU
...((((.(((....)))..)))).(((((((((.....((((........))))..(((.....)))...................................)))))))))........ (-16.98 = -17.18 +   0.20)

alignment

secondary structure

dotplot

Window 3

Location	9,957,152 – 9,957,264
Length	112
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.80
Mean single sequence MFE	-25.24
Consensus MFE	-18.86
Energy contribution	-19.98
Covariance contribution	1.12
Combinations/Pair	1.03
Mean z-score	-1.71
Structure conservation index	0.75
SVM decision value	0.07
SVM RNA-class probability	0.566817
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9957152 112 - 22224390
UAUCUUUUGUUUUACCCAGUGUCCGAAAAAACGAGAGCGACAAGUUGACACAAUCGUGGACAACCUUUUUCGUACACAAGCCAAUCAACUGUGGCAAAGCAGAAAGCUCAAA--------
....(((((((((.....((((.(((((((.((....))....((((.(((....)))..)))).))))))).))))..((((........)))))))))))))........-------- ( -28.10)
>DroSec_CAF1 25198 111 - 1
UAUCUUUUGUUUUAUACAGUGUCCGAA-AAACGAGAGCGACAAGUUGACACAAUCGUGGACAACCUUUUUCGUACACAAGCCAAUCAACUGUGGCACAGCAGAAAGCUCAAA--------
....(((((((.......((((.((((-(((((....))....((((.(((....)))..)))).))))))).))))..((((........))))..)))))))........-------- ( -25.40)
>DroSim_CAF1 6364 111 - 1
UAUCUUUUGUUUUAUACAGUGUCCGAA-AAACGAGAGCGACAAGUUGACACAAUCGUGGACAACUUUUUUCGUACACAAGCCAAUCAACUGUGGCACAGCAGAAAGCUCAAA--------
....(((((((.......((((.((((-((.((....))..((((((.(((....)))..)))))))))))).))))..((((........))))..)))))))........-------- ( -26.80)
>DroEre_CAF1 19835 119 - 1
UAUCUUUUGUUUUACCCAGUGUCCAAA-AAACAAGAGCGACAAGUUGACACAAUCGUGAACAACCUUUUUCGUACACAAGCCAAUCAACUGCGGCAGAGCAGAAGGCUAAAAAAAAACAA
..(((((((((((.((((((.......-........((((...((((.(((....)))..)))).....))))..............)))).)).))))))))))).............. ( -23.75)
>DroYak_CAF1 19571 111 - 1
UAUCUUUUGUUUAACUCAGUGUCCAAA-AAACAAGAGCGACAAGUUGACACAAUCGUGGACAACCUUUUUCGUACACAAGCCAAUCAACUGUGGCAGAGCAGAAAGCUCAAA--------
...(((((((((...............-)))))))))(((...((((.(((....)))..)))).....))).......((((........)))).((((.....))))...-------- ( -22.16)
>consensus
UAUCUUUUGUUUUACACAGUGUCCGAA_AAACGAGAGCGACAAGUUGACACAAUCGUGGACAACCUUUUUCGUACACAAGCCAAUCAACUGUGGCACAGCAGAAAGCUCAAA________
....(((((((((.....((((.((((....(....)......((((.(((....)))..))))....)))).))))..((((........)))))))))))))................ (-18.86 = -19.98 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:23 2006