Locus 3295

Sequence ID	3L_DroMel_CAF1
Location	9,663,385 – 9,663,486
Length	101
Max. P	0.635265

overview

Window 5

Location	9,663,385 – 9,663,486
Length	101
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	89.79
Mean single sequence MFE	-24.72
Consensus MFE	-19.71
Energy contribution	-19.91
Covariance contribution	0.20
Combinations/Pair	1.08
Mean z-score	-1.49
Structure conservation index	0.80
SVM decision value	0.21
SVM RNA-class probability	0.635265
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9663385 101 + 23771897
AAUUUCCACACUGCAAGAAAACAGAGAGCGGGGGUCAGUUGAUAGGCUGGAUGUGGGCUGGUGGUGCACUGUGGGAAAAUGUCAGCAAGA-AAACGGAUAGA
..((((((((.((((......(((...(((....((((((....)))))).)))...)))....)))).))))))))..((((.(.....-...).)))).. ( -27.40)
>DroSec_CAF1 58917 99 + 1
AAUUUCCACACUGCAAGAAAACAGAGAGCGGGGGUCAGUUGAUAGGCUGCAUGUGGG--GAUGGUGCACUGUGGGAAAAUGUCAGCAAGC-AAAUGGAUAGA
..((((((((.((((......((.(..((((..(((....)))...)))).).))..--.....)))).))))))))..((((.......-.....)))).. ( -23.92)
>DroSim_CAF1 61971 100 + 1
AAUUUCCACACUGCAAGAAAACAGAGAGCGGGGGUCAGUUGAUAGGCUGGAUGUGGG--GAUAGUGCACUGUGGGAAAAUGUCAGCAAGCCAAAUGGAUGGA
..((((((((.((((......(.....(((....((((((....)))))).))).).--.....)))).))))))))............(((......))). ( -23.10)
>DroEre_CAF1 57865 94 + 1
AAUUUCCACACUGCAAGAAAACAGAGAGCGGGGGUCAGUUGGUAGGCUGGAU------GUGGGGUGCACUGUGGGAAAAUAUCAGCAAG--AAAUUGAUAGA
..((((((((.((((.....(((...........((((((....)))))).)------))....)))).))))))))..((((((....--...)))))).. ( -23.40)
>DroYak_CAF1 59136 100 + 1
AAUUUCCACACUGCAAGAAAACAGAGAGCGGGGGUCAGUUGGUAGGCUGGAUGUGGAUGUGGGGUGCACUGUGGGAAAAUAUCAGCAAG--AAAUCGAUAGA
..((((((((.((((.....(((....(((....((((((....)))))).)))...)))....)))).))))))))..((((......--.....)))).. ( -25.80)
>consensus
AAUUUCCACACUGCAAGAAAACAGAGAGCGGGGGUCAGUUGAUAGGCUGGAUGUGGG__GGUGGUGCACUGUGGGAAAAUGUCAGCAAG__AAAUGGAUAGA
..((((((((.((((............(((....((((((....)))))).)))..........)))).))))))))..((((.............)))).. (-19.71 = -19.91 +   0.20)

alignment

secondary structure

dotplot

Window 6

Location	9,663,385 – 9,663,486
Length	101
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	89.79
Mean single sequence MFE	-15.62
Consensus MFE	-14.58
Energy contribution	-14.58
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.16
Structure conservation index	0.93
SVM decision value	-0.01
SVM RNA-class probability	0.527211
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9663385 101 - 23771897
UCUAUCCGUUU-UCUUGCUGACAUUUUCCCACAGUGCACCACCAGCCCACAUCCAGCCUAUCAACUGACCCCCGCUCUCUGUUUUCUUGCAGUGUGGAAAUU
.......(((.-.......)))......(((((.((((...............(((........)))......((.....)).....)))).)))))..... ( -15.30)
>DroSec_CAF1 58917 99 - 1
UCUAUCCAUUU-GCUUGCUGACAUUUUCCCACAGUGCACCAUC--CCCACAUGCAGCCUAUCAACUGACCCCCGCUCUCUGUUUUCUUGCAGUGUGGAAAUU
......((.((-(...((((.(((.........(((.......--..))))))))))....))).))....((((...((((......)))).))))..... ( -15.20)
>DroSim_CAF1 61971 100 - 1
UCCAUCCAUUUGGCUUGCUGACAUUUUCCCACAGUGCACUAUC--CCCACAUCCAGCCUAUCAACUGACCCCCGCUCUCUGUUUUCUUGCAGUGUGGAAAUU
.(((......)))...............(((((.((((.....--........(((........)))......((.....)).....)))).)))))..... ( -16.20)
>DroEre_CAF1 57865 94 - 1
UCUAUCAAUUU--CUUGCUGAUAUUUUCCCACAGUGCACCCCAC------AUCCAGCCUACCAACUGACCCCCGCUCUCUGUUUUCUUGCAGUGUGGAAAUU
..(((((....--.....))))).....(((((.((((....((------(...(((................)))...))).....)))).)))))..... ( -16.29)
>DroYak_CAF1 59136 100 - 1
UCUAUCGAUUU--CUUGCUGAUAUUUUCCCACAGUGCACCCCACAUCCACAUCCAGCCUACCAACUGACCCCCGCUCUCUGUUUUCUUGCAGUGUGGAAAUU
..(((((....--.....))))).....(((((.((((...............(((........)))......((.....)).....)))).)))))..... ( -15.10)
>consensus
UCUAUCCAUUU__CUUGCUGACAUUUUCCCACAGUGCACCACC__CCCACAUCCAGCCUAUCAACUGACCCCCGCUCUCUGUUUUCUUGCAGUGUGGAAAUU
............................(((((.((((...............(((........)))......((.....)).....)))).)))))..... (-14.58 = -14.58 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:11 2006