Locus 5565

Sequence ID	3L_DroMel_CAF1
Location	15,254,080 – 15,254,200
Length	120
Max. P	0.999852

overview

Window 1

Location	15,254,080 – 15,254,200
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.33
Mean single sequence MFE	-34.32
Consensus MFE	-30.34
Energy contribution	-30.46
Covariance contribution	0.12
Combinations/Pair	1.05
Mean z-score	-3.60
Structure conservation index	0.88
SVM decision value	4.26
SVM RNA-class probability	0.999852
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15254080 120 + 23771897
UUUCCCAUUCACAUCUGAGUUUGCUUUUCAUUUUUGCUUUCUUUUAUUUCUUUGCCCACAUUUUGUGGCCUCAUUGUGUGGGCUUAAGAAAAGCAGAGGCACGAAAAAAGUUUGCAGUUU
..................((..((((((..(((.(((((.((.((.((((((.((((((((..((......))..))))))))..)))))))).))))))).)))))))))..))..... ( -32.60)
>DroSec_CAF1 143261 120 + 1
UUUCCCAUUCACAUCUGAGUUUGCUUUUCAUUUUUGCUUUCUUUUAUUUCUUUGCCCACAUUUUGUGGCCUCAUUGUGUGGGCUUAAGAAAAGCAGAGGCACGAAAAAAGUUUGCAGUUU
..................((..((((((..(((.(((((.((.((.((((((.((((((((..((......))..))))))))..)))))))).))))))).)))))))))..))..... ( -32.60)
>DroSim_CAF1 151473 120 + 1
UUUCCCAUUCACAUCUGAGUUUGCUUUUCAUUUUUGCUUUCUUUUAUUUCUUUGCCCACAUUUUGUGGCCUCAUUGUGUGGGCUUAAGAAAAGCAGAGGCACGAAAAAAGUUUGCAGUUU
..................((..((((((..(((.(((((.((.((.((((((.((((((((..((......))..))))))))..)))))))).))))))).)))))))))..))..... ( -32.60)
>DroEre_CAF1 143593 119 + 1
UUUCCCAUUCGCAUCCGAGUUUGCUUUUCAUUUUUGCU-UCUUUUAUUUCCUAACCCACAUUUUGUGGUCUCAUUGUGUGGGCUUAAGAAAAGAAGGGGCAGGAAAAAAGUUUGCAGUUU
........(((....)))((..((((((..((((((((-((((((.((((.((((((((((..((......))..))))))).))).))))))))))))))))))))))))..))..... ( -37.60)
>DroYak_CAF1 149642 120 + 1
UUGGCCAUUCACAUCUGAGUUUGCUUUUCAUUUUUGCCUGCUUUUAUUUCUUUGCCCACAUUUUGUGGCCUCAUUGUGUGGGCUUAAGAAAAGCAGAGGCACGAAAAAAGUUUGCAGUUU
..................((..((((((..(((.((((((((((....((((.((((((((..((......))..))))))))..)))))))))..))))).)))))))))..))..... ( -36.20)
>consensus
UUUCCCAUUCACAUCUGAGUUUGCUUUUCAUUUUUGCUUUCUUUUAUUUCUUUGCCCACAUUUUGUGGCCUCAUUGUGUGGGCUUAAGAAAAGCAGAGGCACGAAAAAAGUUUGCAGUUU
........(((....)))((..((((((..((..(((((.((.((.((((((.((((((((..((......))..))))))))..)))))))).)))))))..))))))))..))..... (-30.34 = -30.46 +   0.12)

alignment

secondary structure

dotplot

Window 2

Location	15,254,080 – 15,254,200
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.33
Mean single sequence MFE	-26.94
Consensus MFE	-22.82
Energy contribution	-22.54
Covariance contribution	-0.28
Combinations/Pair	1.10
Mean z-score	-2.40
Structure conservation index	0.85
SVM decision value	2.49
SVM RNA-class probability	0.994612
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15254080 120 - 23771897
AAACUGCAAACUUUUUUCGUGCCUCUGCUUUUCUUAAGCCCACACAAUGAGGCCACAAAAUGUGGGCAAAGAAAUAAAAGAAAGCAAAAAUGAAAAGCAAACUCAGAUGUGAAUGGGAAA
..........((((((...(((.(((...((((((..(((((((...((......))...))))))).))))))....)))..))).....))))))....((((........))))... ( -26.30)
>DroSec_CAF1 143261 120 - 1
AAACUGCAAACUUUUUUCGUGCCUCUGCUUUUCUUAAGCCCACACAAUGAGGCCACAAAAUGUGGGCAAAGAAAUAAAAGAAAGCAAAAAUGAAAAGCAAACUCAGAUGUGAAUGGGAAA
..........((((((...(((.(((...((((((..(((((((...((......))...))))))).))))))....)))..))).....))))))....((((........))))... ( -26.30)
>DroSim_CAF1 151473 120 - 1
AAACUGCAAACUUUUUUCGUGCCUCUGCUUUUCUUAAGCCCACACAAUGAGGCCACAAAAUGUGGGCAAAGAAAUAAAAGAAAGCAAAAAUGAAAAGCAAACUCAGAUGUGAAUGGGAAA
..........((((((...(((.(((...((((((..(((((((...((......))...))))))).))))))....)))..))).....))))))....((((........))))... ( -26.30)
>DroEre_CAF1 143593 119 - 1
AAACUGCAAACUUUUUUCCUGCCCCUUCUUUUCUUAAGCCCACACAAUGAGACCACAAAAUGUGGGUUAGGAAAUAAAAGA-AGCAAAAAUGAAAAGCAAACUCGGAUGCGAAUGGGAAA
..............((((((((..(((..((((((((.((((((...((......))...))))))))))))))...))).-.))...........(((........)))....)))))) ( -26.20)
>DroYak_CAF1 149642 120 - 1
AAACUGCAAACUUUUUUCGUGCCUCUGCUUUUCUUAAGCCCACACAAUGAGGCCACAAAAUGUGGGCAAAGAAAUAAAAGCAGGCAAAAAUGAAAAGCAAACUCAGAUGUGAAUGGCCAA
...(((....((((((...(((((((...((((((..(((((((...((......))...))))))).))))))....)).))))).....))))))......))).............. ( -29.60)
>consensus
AAACUGCAAACUUUUUUCGUGCCUCUGCUUUUCUUAAGCCCACACAAUGAGGCCACAAAAUGUGGGCAAAGAAAUAAAAGAAAGCAAAAAUGAAAAGCAAACUCAGAUGUGAAUGGGAAA
..........((((((...(((..((...((((((..(((((((...((......))...))))))).))))))....))...))).....))))))....((((........))))... (-22.82 = -22.54 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:31 2006