Locus 32

Sequence ID	2R_DroMel_CAF1
Location	1,225,044 – 1,225,156
Length	112
Max. P	0.999965

overview

Window 4

Location	1,225,044 – 1,225,156
Length	112
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	97.56
Mean single sequence MFE	-35.90
Consensus MFE	-34.60
Energy contribution	-34.80
Covariance contribution	0.20
Combinations/Pair	1.06
Mean z-score	-1.50
Structure conservation index	0.96
SVM decision value	2.29
SVM RNA-class probability	0.991815
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1225044 112 + 20766785
UUGUUAUUUGCACCUGCAGCACUGCCACAUUGAUUGCUCCCUUGAUGUGCUACAGGUGGUGUUGGACUUUUCUCCCUUGCGCCGGGCCCAAGAAAUCUUGCGCUCUGCUGCU
...............(((((((((.(((((..(........)..)))))...)))..(((((.(((......)))...)))))((((.((((....)))).)))))))))). ( -36.60)
>DroVir_CAF1 28338 112 + 1
UUGUUAUUUGCACCUGCAGCACUGCCGCAUUGAUUGCUCCCUUGAUGUGCUACAGGUGGUGUUGGACUUUUCUCCCUUGCGCCGGGCCCAAGAAAUCUUGCGCUCUGCUGCU
...............(((((((((.(((((..(........)..)))))...)))..(((((.(((......)))...)))))((((.((((....)))).)))))))))). ( -36.20)
>DroPse_CAF1 17250 112 + 1
UUGUUAUUUGCACCUGCAGCACUGCCACAUUGAUUGCUCCCCUGAUGUGCUACAGGUGGUGUUGGACUUUUCUCCCUUGCGCCGGGCCCAAGAAAUCUUGCGCUCUGCUGCU
...............(((((((((.((((((............))))))...)))..(((((.(((......)))...)))))((((.((((....)))).)))))))))). ( -34.30)
>DroGri_CAF1 19182 112 + 1
UUGUUAUUUGCACCUGCAGCACUGCCGCAUUGAUUGCUCCCUUGAUGUGCUACAGGUGGUGUUGGACUUUUCUCCCUUGCGCCGGGCCCAAGAAAUCUUGCGCUCUGCUGCU
...............(((((((((.(((((..(........)..)))))...)))..(((((.(((......)))...)))))((((.((((....)))).)))))))))). ( -36.20)
>DroAna_CAF1 17014 112 + 1
UUGGUACUUGCACCUGCAGCACUGCCACAGUGGUUGCUCCCUUGAUGUGCUACAGGUGGUGUUGGACUUUUUUCCCUUGCGCCGGGCCCAAGAAAUCUUGCGCUCUGCUGCU
..((((...(((((((.(((((...((.((.((.....))))))..))))).)))))(((((.(((......)))...)))))((((.((((....)))).)))).)))))) ( -37.80)
>DroPer_CAF1 17285 112 + 1
UUGUUAUUUGCACCUGCAGCACUGCCACAUUGAUUGCUCCCCUGAUGUGCUACAGGUGGUGUUGGACUUUUCUCCCUUGCGCCGGGCCCAAGAAAUCUUGCGCUCUGCUGCU
...............(((((((((.((((((............))))))...)))..(((((.(((......)))...)))))((((.((((....)))).)))))))))). ( -34.30)
>consensus
UUGUUAUUUGCACCUGCAGCACUGCCACAUUGAUUGCUCCCUUGAUGUGCUACAGGUGGUGUUGGACUUUUCUCCCUUGCGCCGGGCCCAAGAAAUCUUGCGCUCUGCUGCU
...............(((((((((.((((((((........))))))))...)))..(((((.(((......)))...)))))((((.((((....)))).)))))))))). (-34.60 = -34.80 +   0.20)

alignment

secondary structure

dotplot

Window 5

Location	1,225,044 – 1,225,156
Length	112
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	97.56
Mean single sequence MFE	-39.57
Consensus MFE	-38.24
Energy contribution	-38.02
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.88
Structure conservation index	0.97
SVM decision value	4.96
SVM RNA-class probability	0.999965
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1225044 112 - 20766785
AGCAGCAGAGCGCAAGAUUUCUUGGGCCCGGCGCAAGGGAGAAAAGUCCAACACCACCUGUAGCACAUCAAGGGAGCAAUCAAUGUGGCAGUGCUGCAGGUGCAAAUAACAA
.((.((.(.((.((((....)))).)).).))))...(((......))).....((((((((((((.(((...((....))....)))..)))))))))))).......... ( -40.20)
>DroVir_CAF1 28338 112 - 1
AGCAGCAGAGCGCAAGAUUUCUUGGGCCCGGCGCAAGGGAGAAAAGUCCAACACCACCUGUAGCACAUCAAGGGAGCAAUCAAUGCGGCAGUGCUGCAGGUGCAAAUAACAA
.((.((.(.((.((((....)))).)).).))))...(((......))).....((((((((((((.((....))(((.....)))....)))))))))))).......... ( -39.50)
>DroPse_CAF1 17250 112 - 1
AGCAGCAGAGCGCAAGAUUUCUUGGGCCCGGCGCAAGGGAGAAAAGUCCAACACCACCUGUAGCACAUCAGGGGAGCAAUCAAUGUGGCAGUGCUGCAGGUGCAAAUAACAA
.((.((.(.((.((((....)))).)).).))))...(((......))).....((((((((((((.(((.(.((....))..).)))..)))))))))))).......... ( -39.30)
>DroGri_CAF1 19182 112 - 1
AGCAGCAGAGCGCAAGAUUUCUUGGGCCCGGCGCAAGGGAGAAAAGUCCAACACCACCUGUAGCACAUCAAGGGAGCAAUCAAUGCGGCAGUGCUGCAGGUGCAAAUAACAA
.((.((.(.((.((((....)))).)).).))))...(((......))).....((((((((((((.((....))(((.....)))....)))))))))))).......... ( -39.50)
>DroAna_CAF1 17014 112 - 1
AGCAGCAGAGCGCAAGAUUUCUUGGGCCCGGCGCAAGGGAAAAAAGUCCAACACCACCUGUAGCACAUCAAGGGAGCAACCACUGUGGCAGUGCUGCAGGUGCAAGUACCAA
.((.((.(.((.((((....)))).)).).))))...(((......))).....((((((((((((.(((((((.....)).)).)))..)))))))))))).......... ( -39.60)
>DroPer_CAF1 17285 112 - 1
AGCAGCAGAGCGCAAGAUUUCUUGGGCCCGGCGCAAGGGAGAAAAGUCCAACACCACCUGUAGCACAUCAGGGGAGCAAUCAAUGUGGCAGUGCUGCAGGUGCAAAUAACAA
.((.((.(.((.((((....)))).)).).))))...(((......))).....((((((((((((.(((.(.((....))..).)))..)))))))))))).......... ( -39.30)
>consensus
AGCAGCAGAGCGCAAGAUUUCUUGGGCCCGGCGCAAGGGAGAAAAGUCCAACACCACCUGUAGCACAUCAAGGGAGCAAUCAAUGUGGCAGUGCUGCAGGUGCAAAUAACAA
.((.((.(.((.((((....)))).)).).))))...(((......))).....((((((((((((.((....))(((.....)))....)))))))))))).......... (-38.24 = -38.02 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:23:58 2006