Locus 9631

Sequence ID	3R_DroMel_CAF1
Location	25,445,428 – 25,445,568
Length	140
Max. P	0.723152

overview

Window 8

Location	25,445,428 – 25,445,528
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	85.80
Mean single sequence MFE	-34.75
Consensus MFE	-26.48
Energy contribution	-26.98
Covariance contribution	0.50
Combinations/Pair	1.20
Mean z-score	-2.04
Structure conservation index	0.76
SVM decision value	-0.00
SVM RNA-class probability	0.532079
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25445428 100 + 27905053
AUCCCAAAUCCGCAGGUCAAGACCCGCAUGCAGAUUUCUGGAGCGGGCAGUGGCAAGAAGGAGUACCGCAGCUCAUUGCACUGCAUCCAGACCAUCGUGA
..........(((.((((.....((((.(.(((....))).)))))((((((.(((....((((......)))).))))))))).....))))...))). ( -35.00)
>DroSec_CAF1 128349 100 + 1
AUCCCUAAUCCGCAGGUCAAGACCCGCAUGCAGAUUUCUGGAGCAGGCAGUGGCAAGAAGGAGUACCGCAGCUCCUUGCACUGCAUCCAGACCAUCGUGA
...........((.(((....))).)).....(((.((((((....((((((.((...((((((......)))))))))))))).))))))..))).... ( -35.20)
>DroSim_CAF1 130196 100 + 1
AUCCCCAAUCCGCAGGUCAAGACCCGCAUGCAGAUUUCUGGAGCGGGCAGUGGCAAGAAGGAGUACCGCAGCUCCUUGCACUGCAUCCAGACCAUCGUGA
..........(((.((((.....((((.(.(((....))).)))))((((((.((...((((((......)))))))))))))).....))))...))). ( -37.10)
>DroEre_CAF1 134720 100 + 1
AACUUUGAUUCGCAGGUCAAGACCCGCAUGCAAAUCUCUGGAGCCGGCGGCGGCAAGAAGGAGUACCGCAACUCCUUGCACUGCAUCCAGACCAUCAUGA
.....((((..((.(((....))).)).........((((((....((((..(((...((((((......))))))))).)))).))))))..))))... ( -31.70)
>DroYak_CAF1 138776 100 + 1
AUUAUUGAUUCACAGGUCAAGACGCGCAUGCAAAUCUCUGGAGCCGGCAGUGGCAAGAAGGAGUACCGCAGCUCCUUGCACUGCAUCCAGACCAUCGUGA
....(((((......)))))..((((.(((......((((((....((((((.((...((((((......)))))))))))))).)))))).))))))). ( -34.30)
>DroAna_CAF1 136795 100 + 1
CUCUCUCUUCGAUAGGUGAAAACCCGCAUGCAGAUCUCUGGAGCUGGCAGUGGAAAGAAGGAGUUCAGGAACUCCUUCCAUUGCAUGCAAACGAUUGUCA
..........(((((((....))).((((.(((.((....)).)))((((((((....(((((((....))))))))))))))))))).......)))). ( -35.20)
>consensus
AUCCCUAAUCCGCAGGUCAAGACCCGCAUGCAGAUCUCUGGAGCCGGCAGUGGCAAGAAGGAGUACCGCAGCUCCUUGCACUGCAUCCAGACCAUCGUGA
......((((.((((((....)))....))).))))((((((....((((((.((...((((((......)))))))))))))).))))))......... (-26.48 = -26.98 +   0.50)

alignment

secondary structure

dotplot

Window 9

Location	25,445,448 – 25,445,568
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.28
Mean single sequence MFE	-45.52
Consensus MFE	-22.12
Energy contribution	-23.10
Covariance contribution	0.98
Combinations/Pair	1.36
Mean z-score	-1.89
Structure conservation index	0.49
SVM decision value	0.40
SVM RNA-class probability	0.723152
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25445448 120 + 27905053
GACCCGCAUGCAGAUUUCUGGAGCGGGCAGUGGCAAGAAGGAGUACCGCAGCUCAUUGCACUGCAUCCAGACCAUCGUGAGCAAGGAAGGACCUCUGGCCCUUUACCAGGGCAUCGGAGC
...(((....((((..((((((((((((((((((.....((....))...)).)))))).)))).))))))((.((.(.....).)).))...))))(((((.....)))))..)))... ( -44.30)
>DroGri_CAF1 155226 120 + 1
GAAUCGAAUGCAGAUAGCUGGUGCCGGUAGCGGCAAGAAGGAAUACCGCAAUUCCUUCCACUGCAUUCAGACGGUGGUUAAGCGCGAGGGACCCCUUGCCCUGUACCAGGGCAUUUCAGC
(((..((((((((........(((((....))))).((((((((......))))))))..))))))))....((.((((...(....).)))))).(((((((...))))))).)))... ( -48.90)
>DroWil_CAF1 162576 120 + 1
GACCCGCAUGCAAAUUUCUGGUGCCGGUAGUGGCAAAAAAGAAUUCCGUAAUUCGUUCCACUGCAUACAGACUGUGAUCUGUCGGGAAGGACCGUUGGCUCUGUACCAGGGUAUUGGAGC
..((((((..((....((((......(((((((.((....(((((....))))).)))))))))...))))...))...)).)))).....(((...((((((...))))))..)))... ( -34.00)
>DroMoj_CAF1 153231 120 + 1
GAAUCGAAUGCAAAUCGCUGGAGCGGGUAGCGGCAAAAAGGAAUUUCGUAACUCCUUCCACUGCAUUCAGACGGUGAUCAGCCGCGAAGGACCCCUCGCCCUCUAUCAGGGUAUUUCAGC
................(((((((.((((.(((((...(((((.((....)).))))).(((((........)))))....))))).....)))))))(((((.....)))))....)))) ( -40.40)
>DroAna_CAF1 136815 120 + 1
AACCCGCAUGCAGAUCUCUGGAGCUGGCAGUGGAAAGAAGGAGUUCAGGAACUCCUUCCAUUGCAUGCAAACGAUUGUCAGCAAGGAGGGAGUCCUGGCUCUCUACACGGGAAUCGGAGC
..(((((.(.(((....))).)....)).(((...(((..((((.(((((.((((((((.((((..((((....))))..)))))))))))))))))))))))).))))))......... ( -47.80)
>DroPer_CAF1 138539 120 + 1
GACACGGAUGCAGAUUUCUGGGGCCGGAAGCGGCAAGAAGGAGUUCCGCAACUCCUUCCACUGCAUCCAGCAGAUAGUCGCCCGGGAGGGGCCCCUGUCUCUCUACCAGGGCAUUGGUGC
.....((((((((.........((((....))))..(((((((((....)))))))))..)))))))).(((..((((.((((.((((((((....))))))))....)))))))).))) ( -57.70)
>consensus
GACCCGCAUGCAGAUUUCUGGAGCCGGUAGCGGCAAGAAGGAAUUCCGCAACUCCUUCCACUGCAUCCAGACGAUGGUCAGCCGGGAAGGACCCCUGGCCCUCUACCAGGGCAUUGGAGC
.....((((((((.........((((....))))...((((((((....))))))))...)))))))).............................(((((.....)))))........ (-22.12 = -23.10 +   0.98)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:44 2006