Locus 8628

Sequence ID	3L_DroMel_CAF1
Location	22,431,323 – 22,431,477
Length	154
Max. P	0.725889

overview

Window 5

Location	22,431,323 – 22,431,437
Length	114
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	95.30
Mean single sequence MFE	-38.36
Consensus MFE	-36.46
Energy contribution	-36.10
Covariance contribution	-0.36
Combinations/Pair	1.11
Mean z-score	-1.15
Structure conservation index	0.95
SVM decision value	0.41
SVM RNA-class probability	0.725889
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22431323 114 - 23771897
AUGUAAGCACUUCUCCGCGGUGCGAUGCCUGCUUUCUCCGCUUUCUCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCGCCAUUUGCAGGAUUUGCGCCUGCAAUGGGCGG-GCA
......(((((.......)))))..(((((((......(((......(((((....(....)..))))).......)))(((((.(((((.......))))))))))))))-))) ( -39.82)
>DroSec_CAF1 3040 115 - 1
AUGUAAGCACUUCUCCGCGGUGCGAUGCCUGCUUUCUCCGCUUUCUCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCGCCAUUUGCAGGAUUUGCGCCUGAGAUGGGCGGGGUA
............(((((((((((((..(((((......(((......(((((....(....)..))))).......)))......)))))..)))))))........)))))).. ( -37.02)
>DroSim_CAF1 8171 115 - 1
AUGUAAGCACUUCUCCGCGGUGCGAUGCCUGCUUUCUCCGCUUUCUCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCGCCAUUUGCAGGAUUUGCGCCUGAGAUGGGCGGGGUA
............(((((((((((((..(((((......(((......(((((....(....)..))))).......)))......)))))..)))))))........)))))).. ( -37.02)
>DroEre_CAF1 9256 114 - 1
AUGUAAGCACUUCUCCGCGGUGCGGUGCCUGCUUUCUCCGCUUUCGCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCGCCAUUUGCAGGAUUUGCGCCUGCGAUGGGCGGAGC-
............(((((((((((.(((..((((((((..((....))(((.......)))))).))))).)))...)))))..(((((((.......)))))))...)))))).- ( -40.80)
>DroYak_CAF1 44928 115 - 1
AUGUAAGCACUUCUCCGCGGUGCGGUCCCUGCUUUCUACGUUUUCUCUGCUUUCUCCGCAAGAUAAGCACCACAAUGCGCCAUUUGCAGGAUUUGCGCCUGCGAUGGGCGGAGUA
............(((((((((((((..(((((......(((......(((((....(....)..))))).......)))......)))))..)))))))..(....))))))).. ( -37.12)
>consensus
AUGUAAGCACUUCUCCGCGGUGCGAUGCCUGCUUUCUCCGCUUUCUCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCGCCAUUUGCAGGAUUUGCGCCUGCGAUGGGCGGAGUA
............(((((((((((((..(((((......(((......(((((....(....)..))))).......)))......)))))..)))))))........)))))).. (-36.46 = -36.10 +  -0.36)

alignment

secondary structure

dotplot

Window 6

Location	22,431,358 – 22,431,477
Length	119
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	97.48
Mean single sequence MFE	-32.18
Consensus MFE	-28.68
Energy contribution	-28.88
Covariance contribution	0.20
Combinations/Pair	1.06
Mean z-score	-1.27
Structure conservation index	0.89
SVM decision value	-0.01
SVM RNA-class probability	0.529181
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22431358 119 + 23771897
CGCAUUGUGUUGCUUAUCUUGCGGAGAAAGCAGAGAAAGCGGAGAAAGCAGGCAUCGCACCGCGGAGAAGUGCUUACAUUUGCGCAAAUGCAGCACAACAAACACAAGCAAACAAGGAC
.((.(((((((((((.((((((.......))).))))))).......((..(((((((...))))....((((........))))...))).))......))))))))).......... ( -31.40)
>DroSec_CAF1 3076 119 + 1
CGCAUUGUGUUGCUUAUCUUGCGGAGAAAGCAGAGAAAGCGGAGAAAGCAGGCAUCGCACCGCGGAGAAGUGCUUACAUUUGCGCAAAUGCAGCACAACAAACACAAGUAAACAAGGAC
....(((((((((...((((((.......))).)))..(((.((((((((..(..(((...)))..)...)))))...))).)))....)))))))))..................... ( -30.40)
>DroSim_CAF1 8207 119 + 1
CGCAUUGUGUUGCUUAUCUUGCGGAGAAAGCAGAGAAAGCGGAGAAAGCAGGCAUCGCACCGCGGAGAAGUGCUUACAUUUGCGCAAAUGCAGCACAACAAACACAAGCAAACAAGGAC
.((.(((((((((((.((((((.......))).))))))).......((..(((((((...))))....((((........))))...))).))......))))))))).......... ( -31.40)
>DroEre_CAF1 9291 119 + 1
CGCAUUGUGUUGCUUAUCUUGCGGAGAAAGCAGCGAAAGCGGAGAAAGCAGGCACCGCACCGCGGAGAAGUGCUUACAUUUGCGCAAAUGCAGCACAACAAACACAAGCAAACAAGGAC
.((.(((((((((((.((((((.......)).((....)).)))))))).....((((...))))....(((((..(((((....))))).)))))....))))))))).......... ( -36.90)
>DroYak_CAF1 44964 119 + 1
CGCAUUGUGGUGCUUAUCUUGCGGAGAAAGCAGAGAAAACGUAGAAAGCAGGGACCGCACCGCGGAGAAGUGCUUACAUUUGCGCAAAUGCAGCACAACAAACACAAGCAAACAAGGAC
.((.(((((((((...((((((.........................))))))...)))))))))....(((((..(((((....))))).)))))...........)).......... ( -30.81)
>consensus
CGCAUUGUGUUGCUUAUCUUGCGGAGAAAGCAGAGAAAGCGGAGAAAGCAGGCAUCGCACCGCGGAGAAGUGCUUACAUUUGCGCAAAUGCAGCACAACAAACACAAGCAAACAAGGAC
.((.(((((((((((.((((((.......)))).)))))).......((..(((((((...))))....((((........))))...))).))......))))))))).......... (-28.68 = -28.88 +   0.20)

alignment

secondary structure

dotplot

Window 7

Location	22,431,358 – 22,431,477
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	97.48
Mean single sequence MFE	-34.12
Consensus MFE	-29.98
Energy contribution	-30.22
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.42
Structure conservation index	0.88
SVM decision value	0.33
SVM RNA-class probability	0.692075
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22431358 119 - 23771897
GUCCUUGUUUGCUUGUGUUUGUUGUGCUGCAUUUGCGCAAAUGUAAGCACUUCUCCGCGGUGCGAUGCCUGCUUUCUCCGCUUUCUCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCG
..........(((((((((....(((((((((((....)))))).)))))......((((.((...)))))).......(((((((.(((.......)))))).))))))))))).)). ( -33.70)
>DroSec_CAF1 3076 119 - 1
GUCCUUGUUUACUUGUGUUUGUUGUGCUGCAUUUGCGCAAAUGUAAGCACUUCUCCGCGGUGCGAUGCCUGCUUUCUCCGCUUUCUCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCG
....(((((((((((((......(((((((((((....)))))).)))))......((((.(((.....))).....))))...............)))))).)))))))......... ( -31.10)
>DroSim_CAF1 8207 119 - 1
GUCCUUGUUUGCUUGUGUUUGUUGUGCUGCAUUUGCGCAAAUGUAAGCACUUCUCCGCGGUGCGAUGCCUGCUUUCUCCGCUUUCUCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCG
..........(((((((((....(((((((((((....)))))).)))))......((((.((...)))))).......(((((((.(((.......)))))).))))))))))).)). ( -33.70)
>DroEre_CAF1 9291 119 - 1
GUCCUUGUUUGCUUGUGUUUGUUGUGCUGCAUUUGCGCAAAUGUAAGCACUUCUCCGCGGUGCGGUGCCUGCUUUCUCCGCUUUCGCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCG
..........(((((((((.((((((((((((((....)))))).))))).(((..((((.((((((...((.......))...)))))).....)))).)))..)))))))))).)). ( -39.60)
>DroYak_CAF1 44964 119 - 1
GUCCUUGUUUGCUUGUGUUUGUUGUGCUGCAUUUGCGCAAAUGUAAGCACUUCUCCGCGGUGCGGUCCCUGCUUUCUACGUUUUCUCUGCUUUCUCCGCAAGAUAAGCACCACAAUGCG
......(((((...((((((((((((((((((((....)))))).)))))......((((.((((.....((.......)).....)))).....))))..)))))))))..))).)). ( -32.50)
>consensus
GUCCUUGUUUGCUUGUGUUUGUUGUGCUGCAUUUGCGCAAAUGUAAGCACUUCUCCGCGGUGCGAUGCCUGCUUUCUCCGCUUUCUCUGCUUUCUCCGCAAGAUAAGCAACACAAUGCG
((..((((((((((((.((....(((((((((((....)))))).)))))......((((.(((......((.......))......))).....)))))).)))))))).)))).)). (-29.98 = -30.22 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:46 2006