Locus 2280

Sequence ID	2L_DroMel_CAF1
Location	6,172,886 – 6,173,046
Length	160
Max. P	0.601537

overview

Window 0

Location	6,172,886 – 6,173,006
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.75
Mean single sequence MFE	-23.46
Consensus MFE	-16.00
Energy contribution	-17.20
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-2.26
Structure conservation index	0.68
SVM decision value	0.09
SVM RNA-class probability	0.577513
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6172886 120 + 22407834
UCAUUGCUUGUCCUGCAUUGCCUCAAAUUUGUAAACUAAAAGCGACCACUCACAGCACUUACCACUGAAAACAGUGAAACAACUUUUAUGGCAAUGAACACAAUGAAACCGCAAAACAUA
((((((..(((....(((((((..(((.((((.........((...........))......(((((....)))))..))))..)))..))))))).))))))))).............. ( -25.10)
>DroSec_CAF1 9212 120 + 1
UCAUUGCUGGUUCUGCACUGCCUCAAAUUUGUAAACUCAAAGCGACCACUCACUGCACUUACCACUGGAAACAGUGGAACAACUUUUAUGGCAAUCAACACAAUGAAACCGCAAAACAUA
...((((.((((......((((..(((.((((.........(((.........))).....((((((....)))))).))))..)))..)))).(((......)))))))))))...... ( -29.40)
>DroSim_CAF1 18599 108 + 1
------------CUGCACUGCCUCAAAUUUGUAAACUCAAAGCGACCACUCACAGCACUUACCACUGGAAACAGUGGAACAACUUUUAUGGCAAUGAACACAAUGAAACCGCAAAACAUA
------------.(((..((((..(((.((((.........((...........)).....((((((....)))))).))))..)))..)))).((....))........)))....... ( -23.70)
>DroEre_CAF1 8685 120 + 1
UCGUCGCUGAUCCUGCACUGCCUCAAAUUUGUAAACUCAAAGCGACCACUCACAGCACUUACCACUGGAAACACUGAAACAACUUUAAUGGCAAUGAACACAAUAAAACCGCAAAACAUA
((((.((.......))..((((..(((.((((.........((...........))......((.((....)).))..)))).)))...))))))))....................... ( -15.00)
>DroYak_CAF1 18908 120 + 1
UCAUCGCUGGGGCUGCACUGCCUCAAAUUUGUAAACUAAAAGCGACCACUCGCAGCACUUACCACUGGAAGCUCUGGAACAACUUUUAUGGCAAUGAACACAAUGAAACCGCAAAACAUA
((((.((((((((......)))))....((((.........((((....))))........(((..(....)..))).)))).......))).))))....................... ( -24.10)
>consensus
UCAUCGCUGGUCCUGCACUGCCUCAAAUUUGUAAACUCAAAGCGACCACUCACAGCACUUACCACUGGAAACAGUGGAACAACUUUUAUGGCAAUGAACACAAUGAAACCGCAAAACAUA
.............(((..((((..(((.((((.........((...........)).....((((((....)))))).)))).)))...)))).((....))........)))....... (-16.00 = -17.20 +   1.20)

alignment

secondary structure

dotplot

Window 1

Location	6,172,926 – 6,173,046
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.33
Mean single sequence MFE	-32.28
Consensus MFE	-26.82
Energy contribution	-27.50
Covariance contribution	0.68
Combinations/Pair	1.06
Mean z-score	-1.38
Structure conservation index	0.83
SVM decision value	0.14
SVM RNA-class probability	0.601537
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6172926 120 - 22407834
CAACGAAAAUUGCCGCACAUCGCAUUUGCCAACUAAACAUUAUGUUUUGCGGUUUCAUUGUGUUCAUUGCCAUAAAAGUUGUUUCACUGUUUUCAGUGGUAAGUGCUGUGAGUGGUCGCU
...........(((((.(((.(((((((((((((((((.....))))...(((.....((....))..))).....)))))...(((((....))))))))))))).))).))))).... ( -31.60)
>DroSec_CAF1 9252 120 - 1
CAUCGAAAAUUGCCGCACAUCGCAUUUGCCAACUAAACAUUAUGUUUUGCGGUUUCAUUGUGUUGAUUGCCAUAAAAGUUGUUCCACUGUUUCCAGUGGUAAGUGCAGUGAGUGGUCGCU
...........(((((.(((.(((((((((((((((((.....))))...(((.(((......)))..))).....)))))...(((((....))))))))))))).))).))))).... ( -34.50)
>DroSim_CAF1 18627 120 - 1
CAUCGAAAAUUGCCGCACAUCGCAUUUGCCAACUAAACAUUAUGUUUUGCGGUUUCAUUGUGUUCAUUGCCAUAAAAGUUGUUCCACUGUUUCCAGUGGUAAGUGCUGUGAGUGGUCGCU
...........(((((.(((.(((((((((((((((((.....))))...(((.....((....))..))).....)))))...(((((....))))))))))))).))).))))).... ( -31.30)
>DroEre_CAF1 8725 120 - 1
CAUCGAAAAUGGCCGCACAUUGCAUUUGCAAGCUAAACAUUAUGUUUUGCGGUUUUAUUGUGUUCAUUGCCAUUAAAGUUGUUUCAGUGUUUCCAGUGGUAAGUGCUGUGAGUGGUCGCU
..........((((((.(((.((((((((..(((((((((..((....((..(((((.((.((.....)))).)))))..))..))))))))..))).)))))))).))).))))))... ( -34.50)
>DroYak_CAF1 18948 120 - 1
CAUCGAAAAUUGCCGCACAUCGCAUUUACCAACUAAACAUUAUGUUUUGCGGUUUCAUUGUGUUCAUUGCCAUAAAAGUUGUUCCAGAGCUUCCAGUGGUAAGUGCUGCGAGUGGUCGCU
...(((...((((.((((..((((...(((....((((.....))))...))).....))))....(((((((..(((((.......)))))...))))))))))).))))....))).. ( -29.50)
>consensus
CAUCGAAAAUUGCCGCACAUCGCAUUUGCCAACUAAACAUUAUGUUUUGCGGUUUCAUUGUGUUCAUUGCCAUAAAAGUUGUUCCACUGUUUCCAGUGGUAAGUGCUGUGAGUGGUCGCU
...........(((((.(((.(((((((((((((((((.....))))...(((...............))).....)))))...(((((....))))))))))))).))).))))).... (-26.82 = -27.50 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:55 2006