Locus 3865

Sequence ID 3R_DroMel_CAF1
Location 10,518,193 – 10,518,353
Length 160
Max. P 0.750422
window6189 window6190

overview

Window 9

Location 10,518,193 – 10,518,288
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 88.00
Mean single sequence MFE -21.90
Consensus MFE -18.23
Energy contribution -18.47
Covariance contribution 0.24
Combinations/Pair 1.09
Mean z-score -1.58
Structure conservation index 0.83
SVM decision value 0.47
SVM RNA-class probability 0.750422
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10518193 95 + 27905053
AAGAAGAGCUCCGAUGAAUUUUCCCCAGUGCAUAUGCAAUGCAUUUCAUCUCCCACGUCAGGCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUA
....((.((...((((((.........((((((.....))))))))))))......((((((((.............)))))))).))))..... ( -19.32)
>DroSec_CAF1 168433 95 + 1
ACCAAGAGCUGCGAUGAAUUUUCCCCAGUGCAACUGCAUUGCAUUUCAUCUCCCACGUCAGGCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUA
.....((((.((((((((.......((((((....))))))...))))))......((((((((.............)))))))).))..)))). ( -23.42)
>DroSim_CAF1 64995 95 + 1
ACUAAGAACUGCGAUGAAUUUUCCCCAGUGCAACUGCACUGCAUUUCAUCUCCCACGUCAGGCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUA
.....((((.((((((((.......((((((....))))))...))))))......((((((((.............)))))))).))..)))). ( -25.72)
>DroEre_CAF1 65205 95 + 1
UAUAAAAGCUGCGAUGAAUCUUGCUCAGUGUAAGUGCACUGCACUUCAUCUCCCACGGCAGGCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUA
.....((((...((((((...(((..(((((....)))))))).))))))......(((((.((.................)).))))).)))). ( -24.03)
>DroYak_CAF1 65384 92 + 1
UAUAU---AUCCCAUGUAUUUCGCUCAGUGUAAGUGCACUGCAUUUCAUCUCCCACGGCAGGCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUA
.....---.................((((((....))))))...............(((((.((.................)).)))))...... ( -17.03)
>consensus
AAUAAGAGCUGCGAUGAAUUUUCCCCAGUGCAACUGCACUGCAUUUCAUCUCCCACGUCAGGCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUA
............((((((.......((((((....))))))...))))))........((((((.......((((......)))))))))).... (-18.23 = -18.47 +   0.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 10,518,253 – 10,518,353
Length 100
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 78.30
Mean single sequence MFE -27.99
Consensus MFE -14.90
Energy contribution -14.96
Covariance contribution 0.06
Combinations/Pair 1.16
Mean z-score -1.84
Structure conservation index 0.53
SVM decision value 0.15
SVM RNA-class probability 0.607470
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10518253 100 + 27905053
G-----GCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUAGAGGAAAUUGCUGCU---GCUGCUGCAAACAAACGUGAUUUCCU-UUGGCUG--------UUGGCAUAAACAAAGUU
.-----......(((((((...((.(..((.(((.....(((((((((..(((.(---((....)))..))...)..)))))))-))))).)--------)..)))..))))))).. ( -28.50)
>DroPse_CAF1 64126 86 + 1
GGCAUCGCAUCUCUUUCUUGUGUAUU--------UGUUUAGAGGAAAUUUCUGCU---GC-----------UACGGAAUUUCCU-CCGGUUC--------CUGGCAUAAACAAAGUC
(((..((((.........))))..((--------(((((((((((((((((....---..-----------...))))))))))-)(((...--------)))...))))))))))) ( -20.70)
>DroSec_CAF1 168493 101 + 1
G-----GCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUAGAGGAAAUUGCUGCU---GCUGCUGCAAACAAACGUGAUUUCCUUUUGGCUG--------UUGGCAUAAACAAAGUU
.-----......(((((((...((.(..((.(((.....(((((((((..(((.(---((....)))..))...)..))))))))).))).)--------)..)))..))))))).. ( -29.70)
>DroSim_CAF1 65055 101 + 1
G-----GCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUAGAGGAAAUUGCUGCU---GCUGCUGCAAACAAACGUGAUUUCCUUUUGGCUG--------UUGGCAUAAACAAAGUU
.-----......(((((((...((.(..((.(((.....(((((((((..(((.(---((....)))..))...)..))))))))).))).)--------)..)))..))))))).. ( -29.70)
>DroEre_CAF1 65265 100 + 1
G-----GCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUAGAGGAAAUUGCUGCU---GCUGCUGCAAACAAACGUGAUUUCCU-UUGGCUG--------CUGGCAUAAACAAAGUU
.-----......(((((((...((.(..((.(((.....(((((((((..(((.(---((....)))..))...)..)))))))-))))).)--------)..)))..))))))).. ( -30.00)
>DroAna_CAF1 54242 99 + 1
G-----GCACUGCUCUGUUGGUUG------------UUUAGAGGAAAUUGCUGCUGGUGCUGGUGCAAACAAACGUGAUUUCCU-CUGGCUGGCUGCUGGAUGGCGUAAACAAAGUU
.-----.....(((.((((((((.------------.(((((((((((..(......(((....))).......)..)))))))-))))..))))(((....)))...)))).))). ( -29.32)
>consensus
G_____GCAUUUCUUUGUUAUUUGUUUGGCUGCCUGUUUAGAGGAAAUUGCUGCU___GCUGCUGCAAACAAACGUGAUUUCCU_UUGGCUG________UUGGCAUAAACAAAGUU
............(((((((...................(((((((((((((.......((....))........)))))))))).)))(((...........)))...))))))).. (-14.90 = -14.96 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:57 2006