Locus 4401

Sequence ID	2R_DroMel_CAF1
Location	14,479,605 – 14,479,706
Length	101
Max. P	0.992475

overview

Window 5

Location	14,479,605 – 14,479,706
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	88.12
Mean single sequence MFE	-42.96
Consensus MFE	-33.88
Energy contribution	-34.96
Covariance contribution	1.08
Combinations/Pair	1.14
Mean z-score	-2.81
Structure conservation index	0.79
SVM decision value	2.33
SVM RNA-class probability	0.992475
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14479605 101 + 20766785
CCCCUUAUGGCCGCGAUUGGAAUUGGAGGUGCCCCUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCAAAAGGUUGGCUGGCUAAGUGCUUUGCCAUGGG
((((((.(((((((..(((((.((((..(.(((((....))))).....)..)))).)))))))))))).)))).((((.(((.....)))..)))).)). ( -46.50)
>DroSec_CAF1 111547 94 + 1
-------UGGCCGCGAUUGGAAUUGAAGGUGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCAAAAGGUUGGCUGGCUAAGUGGUUUGCCAUGGG
-------(((((((..(((((.........(((((....)))))((((...))))..))))))))))))......((((..(((....)))..)))).... ( -35.40)
>DroSim_CAF1 112628 101 + 1
CCCCUUAUGGCCGCGAUUGGAAUUGAAGGUGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCAAAAGGUUGGCUGGCUAAGUGGUUUGCCAUGGG
((((((.(((((((..(((((.........(((((....)))))((((...))))..)))))))))))).)))).((((..(((....)))..)))).)). ( -41.40)
>DroEre_CAF1 113199 101 + 1
CCCCUUAUGGCCGCGAUUGGAGCUGGAGGUGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCCAAAGGUUGUCCUGCAAAAUUGUUUGCCAUGGU
....(((((((.((((((...((.(((.(.(((((....)))))(((((((((........))))))))).....).))).))..))))))..))))))). ( -43.30)
>DroYak_CAF1 114649 101 + 1
CCCCUUAUGGCCCCGAUUGGCAGCGCAGUUGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCCAAAGGUUGGCUUGCCAAAUGGUUUGUCAUGAG
...((((((((.(((.((((((((.(((..(((((....)))))(((((((((........)))))))))....))))).)))))).)))...)))))))) ( -48.20)
>consensus
CCCCUUAUGGCCGCGAUUGGAAUUGAAGGUGCCCUUAAUGGGGCUGGGUCACCCAGAUCUAGGUGGCCAAAAGGUUGGCUGGCUAAGUGGUUUGCCAUGGG
..((((.(((((((................(((((....)))))((((((.....)))))).))))))).)))).((((..(((....)))..)))).... (-33.88 = -34.96 +   1.08)

alignment

secondary structure

dotplot

Window 6

Location	14,479,605 – 14,479,706
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	88.12
Mean single sequence MFE	-35.05
Consensus MFE	-25.90
Energy contribution	-27.54
Covariance contribution	1.64
Combinations/Pair	1.05
Mean z-score	-2.84
Structure conservation index	0.74
SVM decision value	1.67
SVM RNA-class probability	0.971181
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14479605 101 - 20766785
CCCAUGGCAAAGCACUUAGCCAGCCAACCUUUUGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAGGGGCACCUCCAAUUCCAAUCGCGGCCAUAAGGGG
.((.((((...((.....))..)))).((((.((((((((((....)))))......(((((....)))))..................))))).)))))) ( -39.00)
>DroSec_CAF1 111547 94 - 1
CCCAUGGCAAACCACUUAGCCAGCCAACCUUUUGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCACCUUCAAUUCCAAUCGCGGCCA-------
....((((..........))))(((........((.((((((....)))))).))..((((......))))..................)))..------- ( -27.00)
>DroSim_CAF1 112628 101 - 1
CCCAUGGCAAACCACUUAGCCAGCCAACCUUUUGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCACCUUCAAUUCCAAUCGCGGCCAUAAGGGG
.((.((((..........)))).....((((.((((((((((....)))))......((((......))))..................))))).)))))) ( -33.40)
>DroEre_CAF1 113199 101 - 1
ACCAUGGCAAACAAUUUUGCAGGACAACCUUUGGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCACCUCCAGCUCCAAUCGCGGCCAUAAGGGG
.(((((((..........((.(((.......((((.((((((....)))))).))))((((......))))...))).))..........)))))..)).. ( -36.35)
>DroYak_CAF1 114649 101 - 1
CUCAUGACAAACCAUUUGGCAAGCCAACCUUUGGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCAACUGCGCUGCCAAUCGGGGCCAUAAGGGG
((.(((.(...((..((((((.((((.....((((.((((((....)))))).))))((((......))))...)).))))))))..)).).))).))... ( -39.50)
>consensus
CCCAUGGCAAACCACUUAGCCAGCCAACCUUUUGGCCACCUAGAUCUGGGUGACCCAGCCCCAUUAAGGGCACCUCCAAUUCCAAUCGCGGCCAUAAGGGG
....((((..........)))).....((((.((((((((((....)))))......((((......))))..................))))).)))).. (-25.90 = -27.54 +   1.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:43 2006