Locus 4311

Sequence ID 2R_DroMel_CAF1
Location 14,177,126 – 14,177,247
Length 121
Max. P 0.551511
window6917 window6918

overview

Window 7

Location 14,177,126 – 14,177,227
Length 101
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 75.32
Mean single sequence MFE -24.82
Consensus MFE -13.25
Energy contribution -12.87
Covariance contribution -0.39
Combinations/Pair 1.38
Mean z-score -1.60
Structure conservation index 0.53
SVM decision value 0.04
SVM RNA-class probability 0.551511
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14177126 101 - 20766785
UUC-CUGUAUUCCAGCAUACCCCUCCAUUGCUGGGAGCC-----CAGUUUUCUUCU--CUCUCCUUCGCAGACUUGGCCACACACAACUCGACGUCUUCAGCUGGCGA----U
...-.(((.((((((((...........))))))))(((-----.(((((.(....--.........).))))).))).....)))......((((.......)))).----. ( -21.92)
>DroSec_CAF1 21273 100 - 1
UUC-CUGUAUUCCAGCAUACCCCUCCAUUGCUGGGAGCC-----CAGUUUUCUUCU--CUCUCCUUCGCGGACUUGGCCACACACAA-UCGCCGUCUUCAGCUGGCGA----U
...-.(((.((((((((...........))))))))(((-----.((((..(....--.........)..)))).))).....)))(-((((((.(....).))))))----) ( -27.02)
>DroSim_CAF1 21452 101 - 1
UUC-CUGUAUUCCAGCAUACCCCUUCAUUGCUGGGAGCC-----CAGUUUUCUUCU--CUCUCCUUCGCAGACUUGGCCACACACAACUCGCCGUCUUCAGCUGGCGA----U
...-.(((.((((((((...........))))))))(((-----.(((((.(....--.........).))))).))).....)))..((((((.(....).))))))----. ( -25.92)
>DroEre_CAF1 22177 99 - 1
AUC-CUGGAUUCCAGCAUACCCUUGCAUUGCUAGGAACC-----CAGUUUUCCUCCCCC----CUCCGCAGACUUGGCCACACACAACUCGCCGUCUUCAGCUGGCGA----U
...-((((.((((((((...........)))).)))).)-----)))............----.........................((((((.(....).))))))----. ( -22.40)
>DroYak_CAF1 21827 103 - 1
AUC-CCGAAUUCCAGCAUACCCCUGCAUUGCUGGGAAGC-----CAGUUCUCCUCCCCCUCUCCCCCGCAGACUUGGCCACACACAACUCGCCGUCUUCAGCUGGCGA----U
...-.....((((((((...........)))))))).((-----(((.(((.(..............).))).)))))..........((((((.(....).))))))----. ( -25.64)
>DroAna_CAF1 22471 102 - 1
AACUCCAAAGUCCAGCAUACCCUGGGAGCUCUAGGACCUGGUGGAGGUUUUUCU--------GCUUA-AGUUUUUGGCCACACACCGACCGCUG--CUCCAUUGGCAACAAAG
............(((......)))(((((....((...((((((.((((.....--------((...-.))....)))).).))))).))...)--)))).(((....))).. ( -26.00)
>consensus
AUC_CUGUAUUCCAGCAUACCCCUGCAUUGCUGGGAGCC_____CAGUUUUCCUCU__CUCUCCUUCGCAGACUUGGCCACACACAACUCGCCGUCUUCAGCUGGCGA____U
...........(((((....(((.........)))................................(.((((..(((............))))))).).)))))........ (-13.25 = -12.87 +  -0.39)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,177,155 – 14,177,247
Length 92
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 84.80
Mean single sequence MFE -17.75
Consensus MFE -12.14
Energy contribution -13.02
Covariance contribution 0.88
Combinations/Pair 1.06
Mean z-score -1.63
Structure conservation index 0.68
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14177155 92 - 20766785
UCUUUUGGUAGCUUUAUAUUUUCCUGUAUUCCAGCAUACCCCUCCAUUGCUGGGAGCCCAGUUUUCUUCU--CUCUCCUUCGCAGACUUGGCCA
......(((((((..((((......))))...))).))))...(((((((.(((((...((.......))--..)))))..))))...)))... ( -17.50)
>DroSec_CAF1 21301 92 - 1
UAUUUUGGUAGCUUUAUAUUUUCCUGUAUUCCAGCAUACCCCUCCAUUGCUGGGAGCCCAGUUUUCUUCU--CUCUCCUUCGCGGACUUGGCCA
.....((((..............(((..((((((((...........))))))))...))).........--...(((.....)))....)))) ( -18.70)
>DroSim_CAF1 21481 92 - 1
UAUUUUGGUAGCUUUAUAUUUUCCUGUAUUCCAGCAUACCCCUUCAUUGCUGGGAGCCCAGUUUUCUUCU--CUCUCCUUCGCAGACUUGGCCA
......(((((((..((((......))))...))).))))((....((((.(((((...((.......))--..)))))..))))....))... ( -17.50)
>DroEre_CAF1 22206 90 - 1
UGUCUUAGUUGCCUCAUAUUAUCCUGGAUUCCAGCAUACCCUUGCAUUGCUAGGAACCCAGUUUUCCUCCCCC----CUCCGCAGACUUGGCCA
.(((..((((((........(..((((.((((((((...........)))).)))).))))..).........----....))).))).))).. ( -17.50)
>DroYak_CAF1 21856 94 - 1
UAUUACAGUUGCCUUAUAUUAUCCCGAAUUCCAGCAUACCCCUGCAUUGCUGGGAAGCCAGUUCUCCUCCCCCUCUCCCCCGCAGACUUGGCCA
............................((((((((...........)))))))).(((((.(((.(..............).))).))))).. ( -17.54)
>consensus
UAUUUUGGUAGCUUUAUAUUUUCCUGUAUUCCAGCAUACCCCUCCAUUGCUGGGAGCCCAGUUUUCUUCU__CUCUCCUUCGCAGACUUGGCCA
............................((((((((...........))))))))(((.(((((.(...............).))))).))).. (-12.14 = -13.02 +   0.88)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:48 2006