Locus 6528

Sequence ID	2L_DroMel_CAF1
Location	18,379,729 – 18,379,829
Length	100
Max. P	0.890574

overview

Window 0

Location	18,379,729 – 18,379,829
Length	100
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	80.13
Mean single sequence MFE	-24.22
Consensus MFE	-16.07
Energy contribution	-18.02
Covariance contribution	1.95
Combinations/Pair	1.09
Mean z-score	-2.14
Structure conservation index	0.66
SVM decision value	0.96
SVM RNA-class probability	0.890574
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18379729 100 + 22407834
UAAAAUACUAACAUAAUUGUUAUCUA------UCCACCUUUC-AGUGCGUCCCCAGCAGCCCAUCAUCGAGCUGUUGUCGCGGCCAAAUCGCGAGGGCUACUUCAAC
........(((((....)))))....------..........-((((.((((.(((((((.(......).)))))))((((((.....))))))))))))))..... ( -26.00)
>DroSec_CAF1 223513 100 + 1
UAAUAUACUAACUUUAUUGUUAUCCA------UCCAACUUUC-AGUGCGUCCCCAGCAGCCCAUCAUCGAGCUGCUGUCGCGGCCAAAUCGCGAGGGCUACUUCAAC
........((((......))))....------..........-((((.((((.(((((((.(......).)))))))((((((.....))))))))))))))..... ( -27.40)
>DroSim_CAF1 232096 100 + 1
UAAUAUACUAACUUUAUUGUUAUCCA------UCCAACUUUC-AGUGCGUCCCCAGCAGCCCAUCAUCGAGCUGCUGUCGCGGCCAAAUCGCGAGGGAUACUUCAAC
........((((......))))....------..........-.....((((((((((((.(......).)))))))((((((.....)))))))))))........ ( -27.50)
>DroEre_CAF1 224005 98 + 1
UA-------AACAUUAUUUUC-UCUAUUUGCUCUCACCUUUC-AGUGCGUCCGCAGCAGCCCAUCAUCGAGCUGCUGUCGCGGCCAAAUCGCGAGGGCUACUUCAAC
..-------............-.......((((((.......-..((((...((((((((.(......).))))))))))))((......))))))))......... ( -28.20)
>DroYak_CAF1 233920 100 + 1
CAAAAUGCUAACAUUAUUGUCAUCUA------CUCACCUUUC-AGUGCGUCCGCAGCAGCCCAUCAUCGAGCUGCUGUCGCGGCCAAAUCGCGAGGGCUACUUCAAC
(((((((....)))).))).......------..........-((((.((((.(((((((.(......).)))))))((((((.....))))))))))))))..... ( -27.30)
>DroAna_CAF1 203608 93 + 1
UAAU-------CAUAACACU-CUCCU------CCUGCCUUUCUAGUGCGUCCCCAGCAACCAAUCAUCGAACUAAUGACCAAACCCAACCGCGAUGGUUUCUUCAAC
....-------.........-.....------.............(((.......)))...((((((((......((........))....))))))))........ (  -8.90)
>consensus
UAAUAUACUAACAUUAUUGUUAUCCA______CCCACCUUUC_AGUGCGUCCCCAGCAGCCCAUCAUCGAGCUGCUGUCGCGGCCAAAUCGCGAGGGCUACUUCAAC
...........................................((((.((((.(((((((.(......).)))))))((((((.....))))))))))))))..... (-16.07 = -18.02 +   1.95)

alignment

secondary structure

dotplot

Window 1

Location	18,379,729 – 18,379,829
Length	100
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	80.13
Mean single sequence MFE	-30.20
Consensus MFE	-20.05
Energy contribution	-19.58
Covariance contribution	-0.47
Combinations/Pair	1.29
Mean z-score	-1.42
Structure conservation index	0.66
SVM decision value	0.17
SVM RNA-class probability	0.618476
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18379729 100 - 22407834
GUUGAAGUAGCCCUCGCGAUUUGGCCGCGACAACAGCUCGAUGAUGGGCUGCUGGGGACGCACU-GAAAGGUGGA------UAGAUAACAAUUAUGUUAGUAUUUUA
(((..((((((((((((((.(((..........))).))).))).))))))))...))).((((-....))))((------((..(((((....))))).))))... ( -30.50)
>DroSec_CAF1 223513 100 - 1
GUUGAAGUAGCCCUCGCGAUUUGGCCGCGACAGCAGCUCGAUGAUGGGCUGCUGGGGACGCACU-GAAAGUUGGA------UGGAUAACAAUAAAGUUAGUAUAUUA
......((..((((((((.......)))))(((((((((......))))))))))))..))(((-((..((((..------.......))))....)))))...... ( -33.70)
>DroSim_CAF1 232096 100 - 1
GUUGAAGUAUCCCUCGCGAUUUGGCCGCGACAGCAGCUCGAUGAUGGGCUGCUGGGGACGCACU-GAAAGUUGGA------UGGAUAACAAUAAAGUUAGUAUAUUA
......(..(((((((((.......)))))(((((((((......)))))))))))))..)(((-((..((((..------.......))))....)))))...... ( -35.60)
>DroEre_CAF1 224005 98 - 1
GUUGAAGUAGCCCUCGCGAUUUGGCCGCGACAGCAGCUCGAUGAUGGGCUGCUGCGGACGCACU-GAAAGGUGAGAGCAAAUAGA-GAAAAUAAUGUU-------UA
.........((.(((((..((..(..(((.(((((((((......)))))))))....))).).-.))..))))).)).......-............-------.. ( -31.30)
>DroYak_CAF1 233920 100 - 1
GUUGAAGUAGCCCUCGCGAUUUGGCCGCGACAGCAGCUCGAUGAUGGGCUGCUGCGGACGCACU-GAAAGGUGAG------UAGAUGACAAUAAUGUUAGCAUUUUG
...(((((.(((((((((.......)))))(((((((((......))))))))).))((.((((-....)))).)------)...(((((....)))))))))))). ( -34.00)
>DroAna_CAF1 203608 93 - 1
GUUGAAGAAACCAUCGCGGUUGGGUUUGGUCAUUAGUUCGAUGAUUGGUUGCUGGGGACGCACUAGAAAGGCAGG------AGGAG-AGUGUUAUG-------AUUA
..........((.((.((((.....(..((((((.....))))))..)..)))).))..((.((....)))).))------.....-.........-------.... ( -16.10)
>consensus
GUUGAAGUAGCCCUCGCGAUUUGGCCGCGACAGCAGCUCGAUGAUGGGCUGCUGGGGACGCACU_GAAAGGUGGA______UAGAUAACAAUAAUGUUAGUAUAUUA
(((..((((((((((((((....((.((....)).))))).))).))))))))...)))................................................ (-20.05 = -19.58 +  -0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:27 2006