Locus 5753

Sequence ID	2R_DroMel_CAF1
Location	18,210,299 – 18,210,418
Length	119
Max. P	0.825395

overview

Window 6

Location	18,210,299 – 18,210,418
Length	119
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	77.77
Mean single sequence MFE	-39.82
Consensus MFE	-21.04
Energy contribution	-22.43
Covariance contribution	1.39
Combinations/Pair	1.27
Mean z-score	-1.71
Structure conservation index	0.53
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18210299 119 + 20766785
UGAAACAGUUGAUUUUCCUGCUGAUUUGUUUGAGCUGCGGCACCUGCUCCAUUUACGCACUGAAAUGCAGAUCCCAGGAGGGACUAAGUGAAGCGGAGCUCAAGCGAACUGUGCGCAAC
((..((((((((((........))))(((((((((.((((...))))(((.((((((((......)))((.((((....))))))..)))))..))))))))))))))))))...)).. ( -36.40)
>DroSec_CAF1 8165 119 + 1
UGAAACAGUUGAUUUUGCUGUUUAUUUGCUUGAGCUGCGGCACCUGCUCCAUUUUCGCAUUGAAAUGCAGAUCCCAGGAAGGACUAAGUGAAGCGGAGCUCAAGCGAACUGUGCGCAAC
..(((((((.......))))))).((((((((((((.((.(((.((.(((......((((....))))...((....)).))).)).)))...)).))))))))))))........... ( -39.50)
>DroSim_CAF1 8165 119 + 1
UGAAACAGUUGAUUCUGCUGCUGAUUUGCUUGAGCAGCGGCACCUGCUCCAUUUACGCACUGAAAUGCAGAUCCCAGGAAGGACUCAGUGAAGCGGAGCUCAAGCGAACUGUGCGCAAC
((..((((((.....(((((((.(......).)))))))((....(((((.((((((((......))).(((((......))).)).)))))..)))))....)).))))))...)).. ( -39.20)
>DroEre_CAF1 8148 116 + 1
UGAA---UUUAAUUUUGCUGUUGAUUGGCUUGAGCUGCGGCAUCUGCUCCAUUUACGCACUGAAAUGCAGAUCCCAGGAAGGAUUAGGUGAAGCGGAGCUCAAGCGAACUGUGCGCAGC
....---.........((((((..((.(((((((((.((.((((((.(((......(((......)))...((....)).))).))))))...)).))))))))).))..)...))))) ( -39.00)
>DroYak_CAF1 8330 107 + 1
UGAAACAGUUGAUUCUGUUGCUGCUUUGCCUGAGCUG------------CAUUUACGCACUGAAGUGCAGAUCCCAGGAAGGAUUAAGUGAAGCGGAGCUCAAGCGAACUGUGCGCAGU
...(((((......)))))((((((((((.((((((.------------(.(((((((((....)))).(((((......)))))..)))))..).)))))).)))))......))))) ( -39.10)
>DroMoj_CAF1 32060 110 + 1
UGCGCCUGCUGCUGUUGCUUUUACUCAGCUUUAGCUGCAGC---------AUCAACUGCCUCAAGUGUCGCUCGCAGGAUGGCGCCGGCGAUGCGGAGCUGAAGCGGAUUGUGCGCACU
(((((((((.((((..(((.......)))..)))).)))).---------..(((((((.(((.((..(((((((.((......)).)))).)))..))))).)))).))).))))).. ( -45.70)
>consensus
UGAAACAGUUGAUUUUGCUGCUGAUUUGCUUGAGCUGCGGCACCUGCUCCAUUUACGCACUGAAAUGCAGAUCCCAGGAAGGACUAAGUGAAGCGGAGCUCAAGCGAACUGUGCGCAAC
..............((((.((...((((((((((((.((.................(((......)))...(((......)))..........)).))))))))))))....)))))). (-21.04 = -22.43 +   1.39)

alignment

secondary structure

dotplot

Window 7

Location	18,210,299 – 18,210,418
Length	119
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	77.77
Mean single sequence MFE	-36.67
Consensus MFE	-21.10
Energy contribution	-22.30
Covariance contribution	1.20
Combinations/Pair	1.37
Mean z-score	-1.90
Structure conservation index	0.58
SVM decision value	0.70
SVM RNA-class probability	0.825395
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18210299 119 - 20766785
GUUGCGCACAGUUCGCUUGAGCUCCGCUUCACUUAGUCCCUCCUGGGAUCUGCAUUUCAGUGCGUAAAUGGAGCAGGUGCCGCAGCUCAAACAAAUCAGCAGGAAAAUCAACUGUUUCA
((((((((((((((....)))))..((((((.((((((((....)))))..((((....)))).))).))))))..))).))))))...........(((((.........)))))... ( -38.50)
>DroSec_CAF1 8165 119 - 1
GUUGCGCACAGUUCGCUUGAGCUCCGCUUCACUUAGUCCUUCCUGGGAUCUGCAUUUCAAUGCGAAAAUGGAGCAGGUGCCGCAGCUCAAGCAAAUAAACAGCAAAAUCAACUGUUUCA
.((((.....(((.(((((((((.(((((((....(((((....))))).(((((....)))))....)))))).(....)).))))))))).))).....)))).............. ( -35.50)
>DroSim_CAF1 8165 119 - 1
GUUGCGCACAGUUCGCUUGAGCUCCGCUUCACUGAGUCCUUCCUGGGAUCUGCAUUUCAGUGCGUAAAUGGAGCAGGUGCCGCUGCUCAAGCAAAUCAGCAGCAGAAUCAACUGUUUCA
.(((((((((((((....)))))..((......((.((((....)))))).))......)))))))).((((((((.((...(((((...((......)))))))...)).)))))))) ( -37.70)
>DroEre_CAF1 8148 116 - 1
GCUGCGCACAGUUCGCUUGAGCUCCGCUUCACCUAAUCCUUCCUGGGAUCUGCAUUUCAGUGCGUAAAUGGAGCAGAUGCCGCAGCUCAAGCCAAUCAACAGCAAAAUUAAA---UUCA
((((......(((.(((((((((.(((((((....(((((....)))))..((((....)))).....)))))).(....)).))))))))).)))...)))).........---.... ( -34.20)
>DroYak_CAF1 8330 107 - 1
ACUGCGCACAGUUCGCUUGAGCUCCGCUUCACUUAAUCCUUCCUGGGAUCUGCACUUCAGUGCGUAAAUG------------CAGCUCAGGCAAAGCAGCAACAGAAUCAACUGUUUCA
.((((......((.(((((((((..((((.((...(((((....)))))..((((....)))))).)).)------------)))))))))))).)))).(((((......)))))... ( -31.80)
>DroMoj_CAF1 32060 110 - 1
AGUGCGCACAAUCCGCUUCAGCUCCGCAUCGCCGGCGCCAUCCUGCGAGCGACACUUGAGGCAGUUGAU---------GCUGCAGCUAAAGCUGAGUAAAAGCAACAGCAGCAGGCGCA
..(((((.......(((((((...(((.((((.((......)).)))))))....))))))).((((.(---------(((.((((....))))......)))).)))).....))))) ( -42.30)
>consensus
GUUGCGCACAGUUCGCUUGAGCUCCGCUUCACUUAGUCCUUCCUGGGAUCUGCAUUUCAGUGCGUAAAUGGAGCAGGUGCCGCAGCUCAAGCAAAUCAACAGCAAAAUCAACUGUUUCA
.((((.....(((.(((((((((.((.........(((((....)))))..((((....)))).................)).))))))))).))).....)))).............. (-21.10 = -22.30 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:33 2006