Locus 2571

Sequence ID	2R_DroMel_CAF1
Location	9,084,024 – 9,084,143
Length	119
Max. P	0.858224

overview

Window 7

Location	9,084,024 – 9,084,143
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	77.72
Mean single sequence MFE	-25.28
Consensus MFE	-14.02
Energy contribution	-13.86
Covariance contribution	-0.16
Combinations/Pair	1.06
Mean z-score	-1.91
Structure conservation index	0.55
SVM decision value	0.51
SVM RNA-class probability	0.762307
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9084024 119 + 20766785
CAGCCUGGGAAACCUUUAUGGACACUUAUCAACUGU-CCUGUAGUCCUGUUAGAAAAUCCCUAAUCUUACAGUCACUUGAGCAAUUUUCCCACAACAUAUUUUGGGAGCAAUUUUCCCAC
.....(((((((((.....)).......((((.((.-.((((((....(((((.......))))).)))))).)).)))).....)))))))..........((((((.....)))))). ( -26.00)
>DroSec_CAF1 48803 107 + 1
CAGCCUGGGAAACAUGUAUGGACACUUGCCCACUGU-CCUGUUGUCCUGUUAGAAAGUCCCUAAUCUUACAGCCACUUGAGCAAUUUUCCCACAACAUCU------------UUUCCCAU
.....(((((((.((((..(((.(.((((.((..((-...(((((...(((((.......)))))...))))).)).)).)))).).)))....))))..------------))))))). ( -23.60)
>DroSim_CAF1 51041 108 + 1
CAGCCUGGGAAAUCUGUAUGGACACUUGCCCACAGAACUUGUUGUCCUGUUAGAAAGUCCUUAAUCUUACAGCCACUUGAGCAAUUUUCCCACAACUUCU------------UUUCCCAU
.....((((((((((((..((.(....))).)))))....(((((..(((.(((..........))).)))(((....).)).........)))))....------------))))))). ( -20.40)
>DroEre_CAF1 56242 107 + 1
CGACUUGGGAAAGGCCUAUGGACACUUGCCAGCCGU-CCUGUUGUCCUGUUAGUUAGUCCCUAAUCCAACAGCCACUUGAGGCCUUUUCCCACGACAACU------------UUGCCCAU
...(.((((((((((((..((((...........))-)).(((((...(((((.......)))))...)))))......))))).))))))).)......------------........ ( -29.40)
>DroYak_CAF1 54085 107 + 1
UCACUUGGGAAACCUUUACGGACACUUGUCAACCGU-CCUGUUGUCCUGUUAGAUAGUUACUAAUCUCAUAGUCACUUCAGGCCGUUUCCCACGGCAACU------------UUUCCCAU
.....(((((((.......((((((..(.(....).-)..).))))).(((.((.(((.((((......)))).)))))..(((((.....)))))))).------------))))))). ( -27.00)
>consensus
CAGCCUGGGAAACCUGUAUGGACACUUGCCAACCGU_CCUGUUGUCCUGUUAGAAAGUCCCUAAUCUUACAGCCACUUGAGCAAUUUUCCCACAACAUCU____________UUUCCCAU
.....(((((((.......((((((...............)).)))).(((((.......)))))....................)))))))............................ (-14.02 = -13.86 +  -0.16)

alignment

secondary structure

dotplot

Window 8

Location	9,084,024 – 9,084,143
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	77.72
Mean single sequence MFE	-33.12
Consensus MFE	-15.38
Energy contribution	-15.54
Covariance contribution	0.16
Combinations/Pair	1.19
Mean z-score	-2.13
Structure conservation index	0.46
SVM decision value	0.82
SVM RNA-class probability	0.858224
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9084024 119 - 20766785
GUGGGAAAAUUGCUCCCAAAAUAUGUUGUGGGAAAAUUGCUCAAGUGACUGUAAGAUUAGGGAUUUUCUAACAGGACUACAGG-ACAGUUGAUAAGUGUCCAUAAAGGUUUCCCAGGCUG
.(((((.......)))))......(((.(((((((........(((..((((.(((..(....)..))).)))).)))...((-(((.(.....).))))).......)))))))))).. ( -30.10)
>DroSec_CAF1 48803 107 - 1
AUGGGAAA------------AGAUGUUGUGGGAAAAUUGCUCAAGUGGCUGUAAGAUUAGGGACUUUCUAACAGGACAACAGG-ACAGUGGGCAAGUGUCCAUACAUGUUUCCCAGGCUG
.(((((((------------..((((.(((((....(((((((..((.((((.(((..........))).))))..)).....-....)))))))...))))))))).)))))))..... ( -32.60)
>DroSim_CAF1 51041 108 - 1
AUGGGAAA------------AGAAGUUGUGGGAAAAUUGCUCAAGUGGCUGUAAGAUUAAGGACUUUCUAACAGGACAACAAGUUCUGUGGGCAAGUGUCCAUACAGAUUUCCCAGGCUG
.(((((((------------.....((((((((...((((((...........(((..........))).(((((((.....)))))))))))))...))).))))).)))))))..... ( -32.40)
>DroEre_CAF1 56242 107 - 1
AUGGGCAA------------AGUUGUCGUGGGAAAAGGCCUCAAGUGGCUGUUGGAUUAGGGACUAACUAACAGGACAACAGG-ACGGCUGGCAAGUGUCCAUAGGCCUUUCCCAAGUCG
...((((.------------...)))).(((((((.(((((....((.(((((((.((((...)))))))))))..))...((-(((.((....)))))))..))))))))))))..... ( -38.50)
>DroYak_CAF1 54085 107 - 1
AUGGGAAA------------AGUUGCCGUGGGAAACGGCCUGAAGUGACUAUGAGAUUAGUAACUAUCUAACAGGACAACAGG-ACGGUUGACAAGUGUCCGUAAAGGUUUCCCAAGUGA
.(((((((------------.((((((((.(....).))..(((((.((((......)))).))).)).....)).)))).((-(((.(.....).))))).......)))))))..... ( -32.00)
>consensus
AUGGGAAA____________AGAUGUUGUGGGAAAAUUGCUCAAGUGGCUGUAAGAUUAGGGACUUUCUAACAGGACAACAGG_ACAGUUGGCAAGUGUCCAUAAAGGUUUCCCAGGCUG
............................(((((((........(((..(((......)))..)))........(((((.(((......))).....))))).......)))))))..... (-15.38 = -15.54 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:26 2006