Locus 2498

Sequence ID	3L_DroMel_CAF1
Location	7,017,419 – 7,017,564
Length	145
Max. P	0.696918

overview

Window 6

Location	7,017,419 – 7,017,534
Length	115
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.15
Mean single sequence MFE	-57.32
Consensus MFE	-38.94
Energy contribution	-39.55
Covariance contribution	0.61
Combinations/Pair	1.35
Mean z-score	-1.50
Structure conservation index	0.68
SVM decision value	0.34
SVM RNA-class probability	0.696918
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7017419 115 + 23771897
AAGGUGCACACGGGCCCAGCGGCGCAAAGGGUGAGCCUGGCGAACCGGGAACACCCGGACUGCCGGGAUUGCCCGGACAGGUCGGACAGCCCGGCGGACUUGAUGGCC-----UCGCCAG
.((((.(.(.(((((....((((.....(((((..(((((....)))))..)))))...((((((((....))))).)))))))....)))))).).))))..((((.-----..)))). ( -55.50)
>DroPse_CAF1 51006 113 + 1
AAGGUGCGCAUGGGUCCAACGGCGCAAAGGGUGAGCCCGGCGAGCCAGGAACUCCCGGACUGCCCGGCCUCCCGGGCCAGGCUGGCCAGCCGGGCGGACUCGAGGGCC-----UUUCC--
(((((.(...(((((((..((((.....(((....)))(((.((((.((.....)).....((((((....))))))..)))).))).))))...))))))).).)))-----))...-- ( -58.80)
>DroSim_CAF1 62350 115 + 1
AAGGUGCACACGGGCCCAGCGGCGCAAAGGGUGAGCCCGGCGAACCGGGAACACCCGGACUGCCGGGAUUGCCCGGACAGGCCGGAACGCCCGGCGGACUUGAGGGCC-----UCGCCAG
..((((.....((((((...(((((...(((((...(((((...(((((....))))).((((((((....))))).))))))))..))))).)))..))...)))))-----))))).. ( -62.60)
>DroEre_CAF1 35124 115 + 1
AAGGUGCACACGGGCCCAGCGGCGCAAAGGGUGAGCCCGGCGAACCGGGAACACCCGGACUGCCGGGAUUGCCGGGUCAGGCCGGACAGCCCGGCGGACUUGAGGGAC-----UCGCCAG
...........(.(((....))).)....(((((((((..(((.(((((....))))).((((((((.(((((((......)))).)))))))))))..))).))).)-----))))).. ( -59.60)
>DroWil_CAF1 65215 120 + 1
AAGGUACGCAUGGCAGCAGCGGCGCAAAGGGUGAACCCGGUGAACCAGGCACACCGGGGUUACCGGGUCUACCCGGUCAAGCGGGAACACCAGGCGGCUUCGAUGGUUUGUCUUCGUCUG
..(((.(((.((((.((......))...(((((.(((((((((.((.((....)).)).))))))))).))))).)))).))).....)))((((((...(((....)))...)))))). ( -49.40)
>DroPer_CAF1 52638 113 + 1
AAGGUGCGCAUGGGUCCAACGGCGCAAAGGGUGAGCCCGGUGAGCCAGGAACUCCCGGACUGCCCGGCCUCCCGGGCCAGGCUGGCCAGCCGGGCGGACUCGAGGGCC-----UUUCC--
(((((.(...(((((((...(((.((..(((....)))..)).))).......(((((.(((.(((((((........))))))).)))))))).))))))).).)))-----))...-- ( -58.00)
>consensus
AAGGUGCACACGGGCCCAGCGGCGCAAAGGGUGAGCCCGGCGAACCAGGAACACCCGGACUGCCGGGACUGCCCGGACAGGCCGGACAGCCCGGCGGACUCGAGGGCC_____UCGCCAG
..((((......(((((.....(((...(((....))).)))..((.((....)).)).((((((((....((((......))))....))))))))......)))))......)))).. (-38.94 = -39.55 +   0.61)

alignment

secondary structure

dotplot

Window 7

Location	7,017,459 – 7,017,564
Length	105
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	82.50
Mean single sequence MFE	-48.87
Consensus MFE	-35.36
Energy contribution	-35.00
Covariance contribution	-0.36
Combinations/Pair	1.25
Mean z-score	-1.42
Structure conservation index	0.72
SVM decision value	0.01
SVM RNA-class probability	0.539718
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7017459 105 + 23771897
CGAACCGGGAACACCCGGACUGCCGGGAUUGCCCGGACAGGUCGGACAGCCCGGCGGACUUGAUGGCCUCGCCAGUGCCAAUGGGACCAAGGGCGAGAAGGGCGA
(((.(((((....))))).((((((((....))))).))).)))....(((((((((.((....)).).))))..((((..((....))..))))....)))).. ( -48.70)
>DroPse_CAF1 51046 98 + 1
CGAGCCAGGAACUCCCGGACUGCCCGGCCUCCCGGGCCAGGCUGGCCAGCCGGGCGGACUCGAGGGCCUUUCC---GCCAACGGAACCAAGGGCGAGAAGG----
((((((.((....)).)).((((((((((.....)))).((((....)))))))))).))))....((((..(---(((...(....)...))))..))))---- ( -48.30)
>DroSim_CAF1 62390 105 + 1
CGAACCGGGAACACCCGGACUGCCGGGAUUGCCCGGACAGGCCGGAACGCCCGGCGGACUUGAGGGCCUCGCCAGUGCCAAUGGGACCAAGGGCGAGAAGGGCGA
....(((((....))))).((((((((....))))).)))(((((.....)))))((.((....))))(((((..((((..((....))..)))).....))))) ( -49.90)
>DroEre_CAF1 35164 105 + 1
CGAACCGGGAACACCCGGACUGCCGGGAUUGCCGGGUCAGGCCGGACAGCCCGGCGGACUUGAGGGACUCGCCAGUGCCAAUGGGACCAAGGGCGAGAGGGGCGA
....(((((....))))).((((((((.(((((((......)))).)))))))))))...........(((((..((((..((....))..)))).....))))) ( -51.60)
>DroAna_CAF1 48206 101 + 1
CGAGCCGGGGACCCCCGGACUGCCGGGUCUGCCCGGACAGGCUGGCCAGCCCGGAGGAAUCGAGGGCCUCGCCAACGUCAACGGGACCAAGGGCGAGAAGG----
(.(((((((....))))..((((((((....))))).)))))).)((.((((.((....))..))))((((((...(((.....)))....))))))..))---- ( -48.20)
>DroPer_CAF1 52678 98 + 1
UGAGCCAGGAACUCCCGGACUGCCCGGCCUCCCGGGCCAGGCUGGCCAGCCGGGCGGACUCGAGGGCCUUUCC---GCCAACGGAACCAAGGGCGAGAAGG----
.(((((.((....)).)).((((((((((.....)))).((((....)))))))))).))).....((((..(---(((...(....)...))))..))))---- ( -46.50)
>consensus
CGAACCGGGAACACCCGGACUGCCGGGACUGCCCGGACAGGCCGGACAGCCCGGCGGACUCGAGGGCCUCGCCAGUGCCAACGGGACCAAGGGCGAGAAGG____
(((.(((((....))))).((((((((....((.((.....))))....))))))))..))).....((((((....((....))......))))))........ (-35.36 = -35.00 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:10 2006