Locus 4761

Sequence ID	3L_DroMel_CAF1
Location	13,374,285 – 13,374,440
Length	155
Max. P	0.957892

overview

Window 3

Location	13,374,285 – 13,374,405
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.67
Mean single sequence MFE	-31.39
Consensus MFE	-24.86
Energy contribution	-25.17
Covariance contribution	0.31
Combinations/Pair	1.22
Mean z-score	-1.62
Structure conservation index	0.79
SVM decision value	0.30
SVM RNA-class probability	0.679477
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13374285 120 - 23771897
UUUUUGUACAACCCGCUGCUCUACUCGAGUGCCCUACUGUGGCCCCAAUUUUUGUUGUCCUCGGCCACGGCUCUGGGUACACCACUGACCCCCAUGACCCCCAAAUCGCCCGCCUCUGUG
......((((....((.((.........((((((..((((((((.((((....)))).....))))))))....))))))..((.((.....))))...........))..))...)))) ( -27.20)
>DroPse_CAF1 22894 120 - 1
UUUCUCUAUAACCCAUUGCUGUACUCCAGUGCCCUGUUGUGGCCGCAGUUCCUGCUGUCAUCCGCCACAGCCUUGGGGACACCUUUGACACCCAUGACUCCUAAGUCCCCUGCCUCCAUA
.................((.((((....))))...((((((((.(((((....))))).....))))))))...((((((........................)))))).))....... ( -29.46)
>DroEre_CAF1 46070 120 - 1
UUUUUGUACAACCCGCUGCUAUACUCGAGUGCCCUACUGUGGCCCCAAUUCCUGUUGUCCUCGGCCACGGCUCUGGGCACUCCCCUGACCCCCAUGACCCCCAAAUCACCCGCCUCUGUG
.............(((.((.......((((((((..((((((((.((((....)))).....))))))))....))))))))............(((........)))...))....))) ( -32.20)
>DroYak_CAF1 47641 120 - 1
UUUCUGUACAACCCGCUGCUCUACUCGAGUGCCCUGCUGUGGCCCCAAUUCCUGUUGUCCUCGGCCACGGCUCUGGGUACUCCACUGACCCCCAUGACACCCAAAUCACCCGCCUCCGUG
..........................((((((((.(((((((((.((((....)))).....)))))))))...))))))))(((.((......(((........)))......)).))) ( -34.90)
>DroAna_CAF1 45179 120 - 1
UUUUUGUACAACCCAUUGCUCUACUCCAGUGCUCUGCUGUGGCCCCAAUUCCUCCUGUCUUCGGCCACGGCUCUGGGCACGCCCCUGACCCCCAUGACCCCCAAGUCGCCGGCUGGCUUA
.................(((........((((((.(((((((((..................)))))))))...))))))(((..((((...............))))..))).)))... ( -35.13)
>DroPer_CAF1 22949 120 - 1
UUUCUCUAUAACCCAUUGCUGUACUCCAGUGCCCUGUUGUGGCCGCAGUUCCUGCUGUCAUCCGCCACAGCCUUGGGGACACCUUUGACACCCAUGACUCCUAAGUCCCCUGCCUCCAUA
.................((.((((....))))...((((((((.(((((....))))).....))))))))...((((((........................)))))).))....... ( -29.46)
>consensus
UUUCUGUACAACCCACUGCUCUACUCCAGUGCCCUGCUGUGGCCCCAAUUCCUGCUGUCCUCGGCCACGGCUCUGGGCACACCACUGACCCCCAUGACCCCCAAAUCACCCGCCUCCGUA
.................((.........((((((.(((((((((.((((....)))).....)))))))))...))))))...............((........))....))....... (-24.86 = -25.17 +   0.31)

alignment

secondary structure

dotplot

Window 4

Location	13,374,325 – 13,374,440
Length	115
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.75
Mean single sequence MFE	-29.98
Consensus MFE	-23.42
Energy contribution	-23.48
Covariance contribution	0.06
Combinations/Pair	1.33
Mean z-score	-1.94
Structure conservation index	0.78
SVM decision value	1.48
SVM RNA-class probability	0.957892
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13374325 115 - 23771897
CUGAUUCGUUAAAUUUGCAUUU-----CAUAGAUCUGCCCUUUUUGUACAACCCGCUGCUCUACUCGAGUGCCCUACUGUGGCCCCAAUUUUUGUUGUCCUCGGCCACGGCUCUGGGUAC
.......((((((...(((..(-----(...))..)))....)))).)).((((((.((((.....))))))....((((((((.((((....)))).....))))))))....)))).. ( -28.20)
>DroPse_CAF1 22934 115 - 1
UCGAUCCCUUUUGAU--CAUCU---CCCGCAGAUCUGCCCUUUCUCUAUAACCCAUUGCUGUACUCCAGUGCCCUGUUGUGGCCGCAGUUCCUGCUGUCAUCCGCCACAGCCUUGGGGAC
..((((......)))--)....---...(((....))).............((((..(((((((....))))......(((((.(((((....))))).....))))))))..))))... ( -31.40)
>DroEre_CAF1 46110 120 - 1
CUGACCCGUUUAAUUUGCAUUUCCCAUCAUAGAUCUGCCCUUUUUGUACAACCCGCUGCUAUACUCGAGUGCCCUACUGUGGCCCCAAUUCCUGUUGUCCUCGGCCACGGCUCUGGGCAC
.......((.(((...(((..((........))..))).....))).))...................((((((..((((((((.((((....)))).....))))))))....)))))) ( -28.60)
>DroYak_CAF1 47681 120 - 1
CUGAUCCGUUUUAUUCGCAUUUCCCACCGUAGAUCUGCCCUUUCUGUACAACCCGCUGCUCUACUCGAGUGCCCUGCUGUGGCCCCAAUUCCUGUUGUCCUCGGCCACGGCUCUGGGUAC
............................(((((.(.((................)).).)))))....((((((.(((((((((.((((....)))).....)))))))))...)))))) ( -33.29)
>DroAna_CAF1 45219 113 - 1
-------UUAAAACCCACCUUUUAUCCCACAGAUCUGCCCUUUUUGUACAACCCAUUGCUCUACUCCAGUGCUCUGCUGUGGCCCCAAUUCCUCCUGUCUUCGGCCACGGCUCUGGGCAC
-------............................(((((.............(((((........)))))....(((((((((..................)))))))))...))))). ( -26.97)
>DroPer_CAF1 22989 115 - 1
UCGAUCCCUUUUGAU--CAUCU---CCCGCAGAUCUGCCCUUUCUCUAUAACCCAUUGCUGUACUCCAGUGCCCUGUUGUGGCCGCAGUUCCUGCUGUCAUCCGCCACAGCCUUGGGGAC
..((((......)))--)....---...(((....))).............((((..(((((((....))))......(((((.(((((....))))).....))))))))..))))... ( -31.40)
>consensus
CUGAUCCGUUUAAUU_GCAUUU___CCCACAGAUCUGCCCUUUCUGUACAACCCACUGCUCUACUCCAGUGCCCUGCUGUGGCCCCAAUUCCUGCUGUCCUCGGCCACGGCUCUGGGCAC
............................(((((.........))))).....................((((((.(((((((((.((((....)))).....)))))))))...)))))) (-23.42 = -23.48 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:30 2006