Locus 5053

Sequence ID	2R_DroMel_CAF1
Location	16,423,101 – 16,423,316
Length	215
Max. P	0.869180

overview

Window 4

Location	16,423,101 – 16,423,210
Length	109
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	88.26
Mean single sequence MFE	-30.04
Consensus MFE	-24.46
Energy contribution	-24.42
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-1.50
Structure conservation index	0.81
SVM decision value	0.24
SVM RNA-class probability	0.646684
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16423101 109 - 20766785
UAUUUUCUAAAAACAUUGCAUUGGCCAUUGGAGGUGGAUGCCCUGGAAGGCCACAUCCCACUCGGACACAUCCCACUUCCGACACUUGAUUGUCAGCCGGGUAAUAGAC
..............(((((.(((((....((((((((..(((......)))....(((.....)))......))))))))((((......)))).)))))))))).... ( -31.70)
>DroSec_CAF1 98967 109 - 1
AAUUUUCUAAAAACAUUGCAUUGGCCAUUGGAGGUGGAUGCCCUGGAAGGCCGCAUCCCACUCCGCCACAUCCCACUUCCGACACUUGAUUGUCAGCCGGGUAAUAGAC
..............(((((.(((((....(((((((((((...((((.((.......))..))))...))).))))))))((((......)))).)))))))))).... ( -31.80)
>DroSim_CAF1 94737 109 - 1
AAUUUUCUAAAAACAUUGCAUUGGCCAUUGGAGGUGGAUGCCCUGGGAGGCCACAUCCCACUCCGCCACAUCCCACUUCCGACACUUGAUUGUCAGCCGGGUAAUAGAC
..............(((((.(((((....(((((((((((.....((((...........))))....))).))))))))((((......)))).)))))))))).... ( -33.00)
>DroEre_CAF1 98571 93 - 1
A-UUUUCCAAAAAUAUUGCAUUGGUCAUUGAAGGUGGAUGCCCUGGAAGGCCACAUC---------------CCACUUCCGACACUUGAUUGUCAGCCGGGUAAUAGAC
.-...........((((((.(((((....((((..(((((...(((....)))))))---------------)..)))).((((......)))).)))))))))))... ( -24.30)
>DroYak_CAF1 99076 101 - 1
AAAUUUCUAAAAAUAUUGCAUUGGUCAUUGGAGGUGGAUGCCCUGGAAGGCCAUAUCCCGCU--------UCCCACUUCCGACACUUGAUUGUCAGCCGGGUAAUAGAC
.............((((((.(((((....((((((((..((...(((........))).)).--------..))))))))((((......)))).)))))))))))... ( -29.40)
>consensus
AAUUUUCUAAAAACAUUGCAUUGGCCAUUGGAGGUGGAUGCCCUGGAAGGCCACAUCCCACUC_G_CACAUCCCACUUCCGACACUUGAUUGUCAGCCGGGUAAUAGAC
..............(((((.(((((....((((((((..(((......))).....................))))))))((((......)))).)))))))))).... (-24.46 = -24.42 +  -0.04)

alignment

secondary structure

dotplot

Window 5

Location	16,423,210 – 16,423,316
Length	106
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	74.69
Mean single sequence MFE	-22.67
Consensus MFE	-5.98
Energy contribution	-5.30
Covariance contribution	-0.68
Combinations/Pair	1.38
Mean z-score	-1.92
Structure conservation index	0.26
SVM decision value	0.86
SVM RNA-class probability	0.869180
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16423210 106 + 20766785
AUUCAGCCAACGAUACAAACUUGUCGCGUAAUUUAAACAUUUUGGGCU--------------UUUAAGUAGCUACUCCAUAUACAUACAUGAUUUGCUAGAAAUGUACAGCUGAAUUUGG
(((((((...(((((......)))))..........(((((((.(((.--------------.(((.(((...............))).)))...))).)))))))...))))))).... ( -20.96)
>DroSec_CAF1 99076 102 + 1
AUUCAGCCAACGAUACAAACUUGUCUCGUAAUUAUAACAUUUAAGGCU--------------AAUAAGUAGCCACUGCAGAU----ACAUGAUUUGCUAAAAAUGUACAGCUGAAUUUGG
(((((((..((((.(((....))).)))).......((((((..((((--------------(.....)))))...((((((----.....))))))...))))))...))))))).... ( -27.80)
>DroSim_CAF1 94846 102 + 1
AUUCAGCCAACGAUACAAACUUGUCUCGUAAUUAAAACAUUUAAGGCU--------------AAUAAGUAGCUACUGCAGAU----ACAUGAUUUGCUACAAAUGUACAGCUGAAUUUGG
(((((((..((((.(((....))).)))).......((((((..((((--------------(.....)))))...((((((----.....))))))...))))))...))))))).... ( -25.20)
>DroEre_CAF1 98664 115 + 1
AUUCAGUCAACGACACAAACUUGUCUCGCAACUAAAGCAUUUAAGGCUGACUUCCCACAGCAAAUAAGUAGCUUUU-UACUU----ACAUGAUUUGUUGGAAAUUUCCAGUUUAAUUUGA
..((((((...((((......))))..((.......))......)))))).((((.(((.((..(((((((....)-)))))----)..))...))).)))).................. ( -22.60)
>DroYak_CAF1 99177 110 + 1
AUUAAGCCAACCAUACUAACUUGUCUUGUAAUUAAAACAUUUUAGGCUGAUUUUACUCAACGAAUAAGUAGCUACUACAGAU----ACAUGAUUUGAUAGAAAUUUGCAUGGUA------
.........(((((.((((..(((.(((....))).)))..))))((.(((((((((.........))))....((((((((----.....))))).)))))))).))))))).------ ( -16.80)
>consensus
AUUCAGCCAACGAUACAAACUUGUCUCGUAAUUAAAACAUUUAAGGCU______________AAUAAGUAGCUACUGCAGAU____ACAUGAUUUGCUAGAAAUGUACAGCUGAAUUUGG
....((((...((((......))))..((.......))......))))....................((((.....((..........))....))))..................... ( -5.98 =  -5.30 +  -0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:17 2006