Locus 73

Sequence ID	X_DroMel_CAF1
Location	319,349 – 319,493
Length	144
Max. P	0.789227

overview

Window 1

Location	319,349 – 319,453
Length	104
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	96.17
Mean single sequence MFE	-21.72
Consensus MFE	-20.38
Energy contribution	-20.42
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.20
Structure conservation index	0.94
SVM decision value	0.41
SVM RNA-class probability	0.724112
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 319349 104 - 22224390
ACAGCAAAGGUAUAUAAGCUUCGGCUGGCCGAAGUUAUCCUCCUUUCUCGGCUUAAAUUGAUAUUUACACAAUGACUCAGUCAUGGCUUGAUUAAAA-AAAACUU
..((((((((......((((((((....)))))))).....)))))...((((...((((.........)))).....))))...))).........-....... ( -20.80)
>DroSec_CAF1 62304 104 - 1
ACAGCAAAGGUAUAUAAGCUUCGGCUGGCCGAAGUUAUCUUCCUUUAUCGGCUUAAAUUGAUAUUUACACAAUGACUCAGUCACGGCUUGAUUAAAA-AAAACUU
..((((((((......((((((((....)))))))).....)))))...((((...((((.........)))).....))))...))).........-....... ( -21.40)
>DroSim_CAF1 82949 104 - 1
ACAGCAAAGGUAUAUAAGCUUCGGCUGGCCGAAGUUAUCUUCCUUUAUCGGCUUAAAUUGAUAUUUACACAAUGACUCAGUCACGGCUUGAUUAAAA-AAAACUU
..((((((((......((((((((....)))))))).....)))))...((((...((((.........)))).....))))...))).........-....... ( -21.40)
>DroEre_CAF1 62927 105 - 1
ACAGCAAAGGUACAUAAACUUCGGCUGGCCGCAGUUAUCUUCCUUUCUCGGCUUAAAUUGCUAUUUACACAAUGACUCAGUCACGGCUUGAUUAAAAAAAAACUU
.((((..((((......))))..))))(((((((((.....((......))....))))))...........((((...)))).))).................. ( -21.00)
>DroYak_CAF1 83716 104 - 1
ACAGCAAAGGUAUAUAAGCUUCGGCUGGCCGAAGUUAUCUUCCUUUCUCGGCUUAAAUUGCUAUUUACACAAUGACUCAGUCACGGCUUGGUUAAAA-AAAACUU
..((.(((((......((((((((....)))))))).....))))))).(((.......)))..........(((((.(((....))).)))))...-....... ( -24.00)
>consensus
ACAGCAAAGGUAUAUAAGCUUCGGCUGGCCGAAGUUAUCUUCCUUUCUCGGCUUAAAUUGAUAUUUACACAAUGACUCAGUCACGGCUUGAUUAAAA_AAAACUU
.(((((((((......((((((((....)))))))).....)))))...((((...((((.........)))).....))))...)).))............... (-20.38 = -20.42 +   0.04)

alignment

secondary structure

dotplot

Window 2

Location	319,373 – 319,493
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.50
Mean single sequence MFE	-27.76
Consensus MFE	-23.54
Energy contribution	-24.18
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.52
Structure conservation index	0.85
SVM decision value	0.58
SVM RNA-class probability	0.789227
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 319373 120 + 22224390
CUGAGUCAUUGUGUAAAUAUCAAUUUAAGCCGAGAAAGGAGGAUAACUUCGGCCAGCCGAAGCUUAUAUACCUUUGCUGUUAAAACCAUGUAUUUAAUAUGAAAGUUCGCACAAUUUCGA
.((((..((((((..(((.........(((....(((((...((((((((((....)))))).))))...))))))))........(((((.....)))))...)))..)))))))))). ( -28.10)
>DroSec_CAF1 62328 120 + 1
CUGAGUCAUUGUGUAAAUAUCAAUUUAAGCCGAUAAAGGAAGAUAACUUCGGCCAGCCGAAGCUUAUAUACCUUUGCUGUUAAAACCAUGUAUUUAAUAUGAAAGUUCGCACACUUUCGA
.((((....((((..(((.........(((.(.((((((...((((((((((....)))))).))))...))))))).))).....(((((.....)))))...)))..))))..)))). ( -27.20)
>DroSim_CAF1 82973 120 + 1
CUGAGUCAUUGUGUAAAUAUCAAUUUAAGCCGAUAAAGGAAGAUAACUUCGGCCAGCCGAAGCUUAUAUACCUUUGCUGUUAAAACCAUGUAUUUAAUAUGAAAGUUCGCACAAUUUCGA
.((((..((((((..(((.........(((.(.((((((...((((((((((....)))))).))))...))))))).))).....(((((.....)))))...)))..)))))))))). ( -29.10)
>DroEre_CAF1 62952 120 + 1
CUGAGUCAUUGUGUAAAUAGCAAUUUAAGCCGAGAAAGGAAGAUAACUGCGGCCAGCCGAAGUUUAUGUACCUUUGCUGUUAAAACCAUGUCUUUAAUAUGAAAGGUCGCACAAUUUCGA
.((((..(((((((.((((((((.............(((.(.((((((.(((....))).)).)))).).)))))))))))...(((...((........))..))).))))))))))). ( -26.11)
>DroYak_CAF1 83740 120 + 1
CUGAGUCAUUGUGUAAAUAGCAAUUUAAGCCGAGAAAGGAAGAUAACUUCGGCCAGCCGAAGCUUAUAUACCUUUGCUGUUAAAACCAUGUCUUUAAUAUGAAAGGUCACACACUUUGGA
.....(((..((((.((((((((......((......))...((((((((((....)))))).))))......))))))))...(((...((........))..)))...))))..))). ( -28.30)
>consensus
CUGAGUCAUUGUGUAAAUAUCAAUUUAAGCCGAGAAAGGAAGAUAACUUCGGCCAGCCGAAGCUUAUAUACCUUUGCUGUUAAAACCAUGUAUUUAAUAUGAAAGUUCGCACAAUUUCGA
.((((..(((((((.............(((....(((((...((((((((((....)))))).))))...))))))))........(((((.....))))).......))))))))))). (-23.54 = -24.18 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:10 2006