Locus 6031

Sequence ID	X_DroMel_CAF1
Location	15,493,927 – 15,494,114
Length	187
Max. P	0.997206

overview

Window 0

Location	15,493,927 – 15,494,041
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.50
Mean single sequence MFE	-40.20
Consensus MFE	-32.90
Energy contribution	-33.54
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.70
Structure conservation index	0.82
SVM decision value	0.73
SVM RNA-class probability	0.836194
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15493927 114 + 22224390
CCUGUUUCUUCCUGU-----UUAGUCGGCAAAUGGGUCGGGAAAGUGCCGCAAUUUAUGCGUCAGUUGCAGCGAAGCGGAAAACUGGUUCGCAUUCGACACAGGAC-AGUGAAGGAAUCC
...((((((((((((-----((.((((((((.((((((......).)))(((.....)))..)).)))).(((((.(((....))).)))))...))))...))))-)).)))))))).. ( -38.90)
>DroSec_CAF1 54070 114 + 1
CCUGUUUCGUCCUGU-----UUAGUCGGCAAAUGGGUCGGGAAAGUGCCGCAAUUUAUGCGUCAGUUGCAGCGAAGCGGAAAACUGGUUCGCAUUCGACACAGGAC-AGUGAAGGAAUCC
(((.....(((((((-----...((((((((.((((((......).)))(((.....)))..)).)))).(((((.(((....))).)))))...)))))))))))-.....)))..... ( -39.30)
>DroEre_CAF1 55322 114 + 1
CCUGUUUCGUCCUGU-----UUAGUCGGCAAAUGGGUCGGGAAAGUGGCGCAAUUUAUGCGUCAGUUGCAGCGAAGCGGAAAACUGGUUCGCAUUCGACACAGGAC-AGUGAAGGAAUCC
(((.....(((((((-----...((((((......))).(((((.(((((((.....))))))).))...(((((.(((....))).))))).)))))))))))))-.....)))..... ( -41.00)
>DroYak_CAF1 60744 114 + 1
CCUGUUUGGUCCUGU-----UUAGUCGGCAAAUGGGUCGGGAAAGUGCCGCAAUUUAUGCGUCAGUUGCAGCGAAGCGGAAAACUGGUUCGCAUUCGACACAGGAC-AGUGAAGGAAUCC
(((.....(((((((-----...((((((((.((((((......).)))(((.....)))..)).)))).(((((.(((....))).)))))...)))))))))))-.....)))..... ( -40.40)
>DroAna_CAF1 86746 120 + 1
CCUGUUUCGUCCUGUUUCGCUUAAGGAGCAAAUGGGACGGGAAAGUGCCGCAAUUUAUGCGUCAGUUGCAGCGAAGCGGAAAACUGGUUCGCAUUCGACACAGGACUUGCGAAGGAAUCC
(((((..((((((((((.((((...))))))))))))))..)...((.((((.....)))).))((((..(((((.(((....))).)))))...)))).)))).(((....)))..... ( -41.40)
>consensus
CCUGUUUCGUCCUGU_____UUAGUCGGCAAAUGGGUCGGGAAAGUGCCGCAAUUUAUGCGUCAGUUGCAGCGAAGCGGAAAACUGGUUCGCAUUCGACACAGGAC_AGUGAAGGAAUCC
(((.....(((((((.........(((.....)))((((((.((.((.((((.....)))).)).))...(((((.(((....))).))))).)))))))))))))......)))..... (-32.90 = -33.54 +   0.64)

alignment

secondary structure

dotplot

Window 1

Location	15,494,002 – 15,494,114
Length	112
Sequences	5
Columns	119
Reading direction	forward
Mean pairwise identity	93.55
Mean single sequence MFE	-29.18
Consensus MFE	-26.04
Energy contribution	-26.28
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.18
Structure conservation index	0.89
SVM decision value	0.13
SVM RNA-class probability	0.598821
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15494002 112 + 22224390
AAACUGGUUCGCAUUCGACACAGGACAGUGAAGGAAUCCUGCGCCAGGAUUAAAAGUCGAGUCAGGUAUGCGAAGGACUUGGAACUAAAACUGCAAAAUUAGA-------AAUGAGAGC
....((((((..(((((((((......)).....(((((((...)))))))....)))))))(((((...(....)))))))))))).....((....(((..-------..)))..)) ( -24.10)
>DroSec_CAF1 54145 112 + 1
AAACUGGUUCGCAUUCGACACAGGACAGUGAAGGAAUCCUGCGCCAGGAUUAAAAGUCGAGUCAGGUAUGCGAAGGACUUGGAACCAGAACUGCAAAAUUGGA-------AAUGAGAGC
...(((((((..(((((((((......)).....(((((((...)))))))....)))))))(((((...(....)))))))))))))...............-------......... ( -29.10)
>DroSim_CAF1 66750 112 + 1
AAACUGGUUCGCAUUCGACACAGGACAGUGAAGGAAUCCUGCGCCAGGAUUAAAAGUCGAGUCAGGUAUGCGAAGGACUUGGAACCAGAACUGCAAAAUUAGA-------AAUGAGAGC
...(((((((..(((((((((......)).....(((((((...)))))))....)))))))(((((...(....)))))))))))))....((....(((..-------..)))..)) ( -29.70)
>DroEre_CAF1 55397 112 + 1
AAACUGGUUCGCAUUCGACACAGGACAGUGAAGGAAUCCUGCGCCAGGAUUAAAAGCCGAGUCAGGUAUGCGGAGGACUUGGAACCAGAACUGCGAAAUUAGA-------AAUGAGAAC
...(((((((((((((..(((......)))..(((((((((...))))))).....(((((((............)))))))..)).))).)))).)))))).-------......... ( -31.60)
>DroYak_CAF1 60819 119 + 1
AAACUGGUUCGCAUUCGACACAGGACAGUGAAGGAAUCCUGCGCCAGGAUUAAAAGUCGAGUCAGGUAUGCGGCGGACUUGGAACCAGAACUGCGGAAUGAGAACUGAUAAAUGAGAAC
.....(((((.(((((...((..(((..(((...(((((((...))))))).....))).)))..)).....((((..(((....)))..)))).))))).)))))............. ( -31.40)
>consensus
AAACUGGUUCGCAUUCGACACAGGACAGUGAAGGAAUCCUGCGCCAGGAUUAAAAGUCGAGUCAGGUAUGCGAAGGACUUGGAACCAGAACUGCAAAAUUAGA_______AAUGAGAGC
...(((((((..(((((((((......)).....(((((((...)))))))....)))))))(((((.........))))))))))))............................... (-26.04 = -26.28 +   0.24)

alignment

secondary structure

dotplot

Window 2

Location	15,494,002 – 15,494,114
Length	112
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	93.55
Mean single sequence MFE	-28.08
Consensus MFE	-26.84
Energy contribution	-26.72
Covariance contribution	-0.12
Combinations/Pair	1.08
Mean z-score	-1.79
Structure conservation index	0.96
SVM decision value	2.82
SVM RNA-class probability	0.997206
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15494002 112 - 22224390
GCUCUCAUU-------UCUAAUUUUGCAGUUUUAGUUCCAAGUCCUUCGCAUACCUGACUCGACUUUUAAUCCUGGCGCAGGAUUCCUUCACUGUCCUGUGUCGAAUGCGAACCAGUUU
.........-------......((((((...........(((((..(((......)))...))))).......(((((((((((.........)))))))))))..))))))....... ( -23.80)
>DroSec_CAF1 54145 112 - 1
GCUCUCAUU-------UCCAAUUUUGCAGUUCUGGUUCCAAGUCCUUCGCAUACCUGACUCGACUUUUAAUCCUGGCGCAGGAUUCCUUCACUGUCCUGUGUCGAAUGCGAACCAGUUU
((.......-------.........))....(((((((((((((..(((......)))...))))........(((((((((((.........)))))))))))..)).)))))))... ( -28.99)
>DroSim_CAF1 66750 112 - 1
GCUCUCAUU-------UCUAAUUUUGCAGUUCUGGUUCCAAGUCCUUCGCAUACCUGACUCGACUUUUAAUCCUGGCGCAGGAUUCCUUCACUGUCCUGUGUCGAAUGCGAACCAGUUU
((.......-------.........))....(((((((((((((..(((......)))...))))........(((((((((((.........)))))))))))..)).)))))))... ( -28.99)
>DroEre_CAF1 55397 112 - 1
GUUCUCAUU-------UCUAAUUUCGCAGUUCUGGUUCCAAGUCCUCCGCAUACCUGACUCGGCUUUUAAUCCUGGCGCAGGAUUCCUUCACUGUCCUGUGUCGAAUGCGAACCAGUUU
.........-------......((((((.(((.((((..(((((.....((....))....)))))..))))..((((((((((.........)))))))))))))))))))....... ( -28.30)
>DroYak_CAF1 60819 119 - 1
GUUCUCAUUUAUCAGUUCUCAUUCCGCAGUUCUGGUUCCAAGUCCGCCGCAUACCUGACUCGACUUUUAAUCCUGGCGCAGGAUUCCUUCACUGUCCUGUGUCGAAUGCGAACCAGUUU
..............((((.(((((((.((((..(((.....(....).....))).))))))............((((((((((.........))))))))))))))).))))...... ( -30.30)
>consensus
GCUCUCAUU_______UCUAAUUUUGCAGUUCUGGUUCCAAGUCCUUCGCAUACCUGACUCGACUUUUAAUCCUGGCGCAGGAUUCCUUCACUGUCCUGUGUCGAAUGCGAACCAGUUU
...............................(((((((((((((.....((....))....))))........(((((((((((.........)))))))))))..)).)))))))... (-26.84 = -26.72 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:29 2006