Locus 7151

Sequence ID	2L_DroMel_CAF1
Location	20,031,101 – 20,031,244
Length	143
Max. P	0.987232

overview

Window 6

Location	20,031,101 – 20,031,210
Length	109
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	82.37
Mean single sequence MFE	-24.30
Consensus MFE	-14.32
Energy contribution	-15.52
Covariance contribution	1.20
Combinations/Pair	1.07
Mean z-score	-2.00
Structure conservation index	0.59
SVM decision value	0.22
SVM RNA-class probability	0.639933
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20031101 109 + 22407834
CAGCAGAGCUGGCGGAAGAUGUUUCAAUUAUAU----UCUCAUUAAUUUUCAAACAUUUUCAUAUUUUCAUUUGCCUGCCGCAAUGGCAGCGGUUAAAUGAAAUCGGAAUAAA
((((...)))).((((((((((((.(((((...----......)))))...))))))))))....(((((((((.((((.((....)).)))).))))))))).))....... ( -27.90)
>DroSec_CAF1 213503 109 + 1
CAGCAGAGCUGGCGGAAGAUGUUUCAAUUACAU----UCUCAUUAAUUUUCAAACUUUUUCAUAUUUUCAUUUGCCUGCCGCAAUGGCAGCGGUAAAAUGAAAUCGCAAUACA
((((...))))(((((..((((.......))))----..))........................((((((((..((((.((....)).))))..)))))))).)))...... ( -26.40)
>DroSim_CAF1 210837 109 + 1
CAGCAGAGCUGGCGGAAGAUGUUUCAAUUAUAU----UCUCAUUAAUUAACAAACUUUUUCAUAUUUUCAUUUGUCUGCCGCAAUGGCAGCGGUUAAAUGAAAUCGCAAUACA
((((...))))((((((((.((((.(((((...----......)))))...)))).)))))....(((((((((.((((.((....)).)))).))))))))).)))...... ( -27.20)
>DroEre_CAF1 207988 109 + 1
CAGCAGUGCUUUCGGAAAUUGUUUCAAUUAUGU----UCUCAUUCAAUUUCAAACUUUUUCAUAUUUUCAUUUGCCUGCCGCAGAAGCUGCGGUUAAAUGAAAUCGCAAUGUA
..(((.(((.....((((..((((.(((((((.----...)))..))))..))))..))))....(((((((((...(((((((...))))))))))))))))..))).))). ( -26.80)
>DroYak_CAF1 206842 108 + 1
C---AUUAUUUUCU--CAUUGUUUCAAUUAUGUAUAUUAAAAUUAAUUUUCAAACUUUUUCUUAUUUUUAUUUGGCAGCCGCAAUAGCAGCGGUUAAAUGAAAUCCCAACGUA
.---..........--.................................................(((((((((((.((.((....)).)).))))))))))).......... ( -13.20)
>consensus
CAGCAGAGCUGGCGGAAGAUGUUUCAAUUAUAU____UCUCAUUAAUUUUCAAACUUUUUCAUAUUUUCAUUUGCCUGCCGCAAUGGCAGCGGUUAAAUGAAAUCGCAAUACA
..............(((((.((((.(((((.............)))))...)))).)))))....((((((((..((((.((....)).))))..)))))))).......... (-14.32 = -15.52 +   1.20)

alignment

secondary structure

dotplot

Window 7

Location	20,031,134 – 20,031,244
Length	110
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	86.00
Mean single sequence MFE	-22.90
Consensus MFE	-20.26
Energy contribution	-19.98
Covariance contribution	-0.28
Combinations/Pair	1.15
Mean z-score	-2.22
Structure conservation index	0.88
SVM decision value	2.07
SVM RNA-class probability	0.987232
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20031134 110 + 22407834
UCUCAUUAAUUUUCAAACAUUUUCAUAUUUUCAUUUGCCUGCCGCAAUGGCAGCGGUUAAAUGAAAUCGGAAUAAAUUUUAUUUCCUAAGGCUUCAUGCCUUCGGCUAAA
.....................(((....(((((((((.((((.((....)).)))).)))))))))...)))............((.(((((.....))))).))..... ( -25.60)
>DroSec_CAF1 213536 110 + 1
UCUCAUUAAUUUUCAAACUUUUUCAUAUUUUCAUUUGCCUGCCGCAAUGGCAGCGGUAAAAUGAAAUCGCAAUACAUUUUAUUUCUUUAGGCUUCUUGCCUUCGGCUAAA
....................................(((((((((.......))))))(((((((((........)))))))))....((((.....))))..))).... ( -20.50)
>DroSim_CAF1 210870 110 + 1
UCUCAUUAAUUAACAAACUUUUUCAUAUUUUCAUUUGUCUGCCGCAAUGGCAGCGGUUAAAUGAAAUCGCAAUACAUUUUAUUUCUUUAGGCUUCUUGCCUUCGGCUACA
............................(((((((((.((((.((....)).)))).)))))))))..................((..((((.....))))..))..... ( -21.00)
>DroEre_CAF1 208021 108 + 1
UCUCAUUCAAUUUCAAACUUUUUCAUAUUUUCAUUUGCCUGCCGCAGAAGCUGCGGUUAAAUGAAAUCGCAAUGUAUU-UAUGUUUUUAGGCUU-CUGCCUUCGGGAAAA
((((..........((((.....(((..(((((((((...(((((((...)))))))))))))))).....)))....-...))))..((((..-..))))..))))... ( -25.20)
>DroYak_CAF1 206874 110 + 1
UAAAAUUAAUUUUCAAACUUUUUCUUAUUUUUAUUUGGCAGCCGCAAUAGCAGCGGUUAAAUGAAAUCCCAACGUAUUUUACAUCUUUAGGCUUUUUGCCUUCGGGUAAA
............................(((((((((((.((.((....)).)).))))))))))).(((...(((...)))......((((.....))))..))).... ( -22.20)
>consensus
UCUCAUUAAUUUUCAAACUUUUUCAUAUUUUCAUUUGCCUGCCGCAAUGGCAGCGGUUAAAUGAAAUCGCAAUACAUUUUAUUUCUUUAGGCUUCUUGCCUUCGGCUAAA
............................((((((((..((((.((....)).))))..))))))))..................((..((((.....))))..))..... (-20.26 = -19.98 +  -0.28)

alignment

secondary structure

dotplot

Window 8

Location	20,031,134 – 20,031,244
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	86.00
Mean single sequence MFE	-22.43
Consensus MFE	-17.40
Energy contribution	-17.80
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.54
Structure conservation index	0.78
SVM decision value	0.06
SVM RNA-class probability	0.565773
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20031134 110 - 22407834
UUUAGCCGAAGGCAUGAAGCCUUAGGAAAUAAAAUUUAUUCCGAUUUCAUUUAACCGCUGCCAUUGCGGCAGGCAAAUGAAAAUAUGAAAAUGUUUGAAAAUUAAUGAGA
((((.((.(((((.....))))).))...)))).((((((......((((((..(.(((((....))))).)..))))))((((((....)))))).......)))))). ( -26.70)
>DroSec_CAF1 213536 110 - 1
UUUAGCCGAAGGCAAGAAGCCUAAAGAAAUAAAAUGUAUUGCGAUUUCAUUUUACCGCUGCCAUUGCGGCAGGCAAAUGAAAAUAUGAAAAAGUUUGAAAAUUAAUGAGA
....(((..((((.....)))).......(((((((...........)))))))..(((((....))))).))).................................... ( -20.60)
>DroSim_CAF1 210870 110 - 1
UGUAGCCGAAGGCAAGAAGCCUAAAGAAAUAAAAUGUAUUGCGAUUUCAUUUAACCGCUGCCAUUGCGGCAGACAAAUGAAAAUAUGAAAAAGUUUGUUAAUUAAUGAGA
.........((((.....)))).....((((((...........((((((((.....(((((.....)))))..))))))))...........))))))........... ( -19.85)
>DroEre_CAF1 208021 108 - 1
UUUUCCCGAAGGCAG-AAGCCUAAAAACAUA-AAUACAUUGCGAUUUCAUUUAACCGCAGCUUCUGCGGCAGGCAAAUGAAAAUAUGAAAAAGUUUGAAAUUGAAUGAGA
.........((((..-..)))).........-....((((.((((((((.....((((((...))))))....((.((....)).))........))))))))))))... ( -23.90)
>DroYak_CAF1 206874 110 - 1
UUUACCCGAAGGCAAAAAGCCUAAAGAUGUAAAAUACGUUGGGAUUUCAUUUAACCGCUGCUAUUGCGGCUGCCAAAUAAAAAUAAGAAAAAGUUUGAAAAUUAAUUUUA
....(((..((((.....))))...((((((...))))))))).((((........(((((....)))))..........((((........)))))))).......... ( -21.10)
>consensus
UUUAGCCGAAGGCAAGAAGCCUAAAGAAAUAAAAUAUAUUGCGAUUUCAUUUAACCGCUGCCAUUGCGGCAGGCAAAUGAAAAUAUGAAAAAGUUUGAAAAUUAAUGAGA
.........((((.....))))......................((((((((..(.(((((....))))).)..))))))))............................ (-17.40 = -17.80 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:43 2006