Locus 4225

Sequence ID	3R_DroMel_CAF1
Location	11,367,040 – 11,367,200
Length	160
Max. P	0.999880

overview

Window 4

Location	11,367,040 – 11,367,160
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.00
Mean single sequence MFE	-44.42
Consensus MFE	-43.68
Energy contribution	-43.56
Covariance contribution	-0.12
Combinations/Pair	1.06
Mean z-score	-1.92
Structure conservation index	0.98
SVM decision value	2.76
SVM RNA-class probability	0.996854
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11367040 120 + 27905053
CGCACCGGCACAUUGGCAAUCAGGUUGAAGUGCUGCCAUAACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACUUGCAUGGCAUCCGUGAGAGUGACAUUACCG
.((..((((((.(..((......))..).))))))(((....)))))....(((((...((((((((....))).(((((((((....))))).))))..))).)))))))......... ( -42.80)
>DroSec_CAF1 114678 120 + 1
CGCACCGGCACAUUGGCAAUCAGGUUGAAGUGCUGCCACAACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACCUGCAUGGCAUCCGUGAGAGUGACAUUCCCG
.....((((((.(..((......))..).))))))........(((.....(((((...((((((((....))).(((((((((....))))).))))..))).))))))).....))). ( -45.90)
>DroSim_CAF1 105711 119 + 1
CGCACCGGCACAUUGGCAAUCAGGUUGAAGUGCUGCCACAACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAG-AAAACCUGCAUGGCAUCCGUGAGAGUGACAUUCGCG
(((...(((((.(..((......))..).)))))(((.(....))))....(((((...((((((((....))).((((((((-.....)))).))))..))).)))))))......))) ( -43.80)
>DroEre_CAF1 102481 120 + 1
CGCACCGGCACAUUGGCAAUCAGGUUGAAGUGCUGCCACAACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACCUGCAUGGCAUCUGUGAGAGUGACAUUCCCG
.....((((((.(..((......))..).))))))........(((.....(((((...((((((((....))).(((((((((....))))).))))..))).))))))).....))). ( -43.70)
>DroYak_CAF1 104780 120 + 1
CGCACCGGCACAUUGGCAAUCAGGUUGAAGUGCUGCCACAACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACCUGCAUGGCAUCCGUGAGAGUGACAUUCCCG
.....((((((.(..((......))..).))))))........(((.....(((((...((((((((....))).(((((((((....))))).))))..))).))))))).....))). ( -45.90)
>consensus
CGCACCGGCACAUUGGCAAUCAGGUUGAAGUGCUGCCACAACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACCUGCAUGGCAUCCGUGAGAGUGACAUUCCCG
.((..((((((.(..((......))..).))))))(((....)))))....(((((...((((((((....))).(((((((((....))))).))))..))).)))))))......... (-43.68 = -43.56 +  -0.12)

alignment

secondary structure

dotplot

Window 5

Location	11,367,080 – 11,367,200
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.83
Mean single sequence MFE	-45.27
Consensus MFE	-43.32
Energy contribution	-43.40
Covariance contribution	0.08
Combinations/Pair	1.06
Mean z-score	-2.60
Structure conservation index	0.96
SVM decision value	4.36
SVM RNA-class probability	0.999880
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11367080 120 + 27905053
ACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACUUGCAUGGCAUCCGUGAGAGUGACAUUACCGCCCAGCAGCAGGUGAUCCGUCUCAAUGCUGUACUGCCUCA
.((((((.......(((..((((((((....))).(((((((((....))))).))))..))).))...))).......))))))(((((..(((......))).))))).......... ( -43.74)
>DroSec_CAF1 114718 120 + 1
ACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACCUGCAUGGCAUCCGUGAGAGUGACAUUCCCGCCCAGCAGCAGAUGAUCCGUCUCAAUGCUGUACUGCCUCA
.((((((.......(((..((((((((....))).(((((((((....))))).))))..))).))...))).......))))))(((((..(((......))).))))).......... ( -45.84)
>DroSim_CAF1 105751 119 + 1
ACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAG-AAAACCUGCAUGGCAUCCGUGAGAGUGACAUUCGCGCCCAGCAGCAGAUGAUCCGAUUCAAUGCUGUACUGCCUCA
.((((((......((((....((((((....))).((((((((-.....)))).))))..))))))).(((.....)))))))))(((((..(((......))).))))).......... ( -46.20)
>DroEre_CAF1 102521 120 + 1
ACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACCUGCAUGGCAUCUGUGAGAGUGACAUUCCCGCCCAGCAGCAGGUGAUCCGUCUCAAUGAUGUACUGCCUCA
.((((((.......(((..((((((((....))).(((((((((....))))).))))..))).))...))).......))))))..(.((((..(.((((.....)))).)..))))). ( -44.14)
>DroYak_CAF1 104820 120 + 1
ACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACCUGCAUGGCAUCCGUGAGAGUGACAUUCCCGCCCAGCAGCAGGUGAUCCGUCUCAAUGCUGUACUGCCUCA
.((((((.......(((..((((((((....))).(((((((((....))))).))))..))).))...))).......))))))(((((..(((......))).))))).......... ( -46.44)
>consensus
ACUGGGCACAAUACUCGAAUCCGGGCCUCUUGGCAGCCAGCAGGAAAACCUGCAUGGCAUCCGUGAGAGUGACAUUCCCGCCCAGCAGCAGGUGAUCCGUCUCAAUGCUGUACUGCCUCA
.((((((.......(((..((((((((....))).(((((((((....))))).))))..))).))...))).......))))))(((((..(((......))).))))).......... (-43.32 = -43.40 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:28 2006