Locus 5625

Sequence ID 2R_DroMel_CAF1
Location 17,900,164 – 17,900,284
Length 120
Max. P 0.651123
window9017 window9018

overview

Window 7

Location 17,900,164 – 17,900,258
Length 94
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 81.58
Mean single sequence MFE -40.87
Consensus MFE -22.61
Energy contribution -22.57
Covariance contribution -0.05
Combinations/Pair 1.32
Mean z-score -2.33
Structure conservation index 0.55
SVM decision value 0.25
SVM RNA-class probability 0.651123
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17900164 94 + 20766785
CCGGAUGAGAUCGUGCAGGCUGGAAUCAUG--C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGCCUGAACGUGGGAGUGA------UCCUGCUGGCAG-
.............(((.(((.(((.((((.--(-(((((.....(((.((((((((...)))))))).)))...)))))).))))------))).))).))).- ( -42.40)
>DroSec_CAF1 17468 94 + 1
CCGGAUGAGAUCGUGCGGGCUGGAAUCAUG--C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGCCUGAACGUGGGAGUGA------UCCUUCUGGCAG-
(((.(((....))).)))((..(((((((.--(-(((((.....(((.((((((((...)))))))).)))...)))))).))))------)...))..))..- ( -45.30)
>DroSim_CAF1 17948 94 + 1
CCGGAUGAGAUCGUGCGGGCUGGAAUCAUG--C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGCCUGAACGUGGGAGUGA------UCCUGCUGGCAG-
.............(((.(((.(((.((((.--(-(((((.....(((.((((((((...)))))))).)))...)))))).))))------))).))).))).- ( -44.50)
>DroEre_CAF1 17531 94 + 1
CCGGAAGAGAUCGUGCGGGCUGGAAUCAUG--C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGGCUGAAUGUGGCAGUGA------UCCUGCUGGGAG-
((((.((.((((((((((((((....)).)--)-))....(((.((..((((((((...))))))))..))...))).))).)))------)))).))))...- ( -38.80)
>DroYak_CAF1 17866 100 + 1
CCGGAUGAGAUCGUGCGGGCCGGAAUCAUG--C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCAGCUGAAUGUGGGAGUGAUCAUGAUCCUGGUGGGAG-
(((.(((....))).)))(((((.((((((--(-((((......((..((((((((...))))))))..))....)))))......)))))).))))).....- ( -38.40)
>DroPer_CAF1 43866 98 + 1
CCAGACCAGAUCAUGCGGGCCGGCAUCGGGGGCUCAGUGGGAGGUGGAGCAGCAUCAGCGUUACAGCAGUUGCCUGCUGGCUCGU------UCUUCUUGGCAGG
((.(.(((((....(((((((((((..((.((((........((((......)))).((......)))))).)))))))))))))------...)).)))).)) ( -35.80)
>consensus
CCGGAUGAGAUCGUGCGGGCUGGAAUCAUG__C_CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGCCUGAACGUGGGAGUGA______UCCUGCUGGCAG_
.............(((.(((.(((.((((.....(((((..((.....((((((((...))))))))...))..)))))..))))......))).))).))).. (-22.61 = -22.57 +  -0.05)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,900,194 – 17,900,284
Length 90
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 79.37
Mean single sequence MFE -37.18
Consensus MFE -23.56
Energy contribution -23.48
Covariance contribution -0.08
Combinations/Pair 1.32
Mean z-score -1.33
Structure conservation index 0.63
SVM decision value -0.05
SVM RNA-class probability 0.509304
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17900194 90 + 20766785
-C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGCCUGAACGUGGGAGUGA------UCCUGCUGGCAG---------CGCUCCUGCUGCGAGUCCGCCUCUAA
-(-(((((.....(((.((((((((...)))))))).)))...)))))).(((.------....(((.((((---------((....)))))).))).)))...... ( -38.50)
>DroSec_CAF1 17498 90 + 1
-C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGCCUGAACGUGGGAGUGA------UCCUUCUGGCAG---------CGCUCCUGCUGCGAGUCCGCCUCUAA
-.-......(((.(((.((((((((...)))))))).)))....(..((((((.------.((....))...---------))))))..))))(((.....)))... ( -37.20)
>DroSim_CAF1 17978 90 + 1
-C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGCCUGAACGUGGGAGUGA------UCCUGCUGGCAG---------CGCUCCUGCUGCGCGUCCGCCUCUAA
-(-(((((.....(((.((((((((...)))))))).)))...)))))).....------....((.(((.(---------(((.......))))))).))...... ( -37.40)
>DroEre_CAF1 17561 90 + 1
-C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGGCUGAAUGUGGCAGUGA------UCCUGCUGGGAG---------CGCUCCUGCUGCGAGUCCGCCUCUAA
-.-...........(((((((((((...))))))))(((.((.((..((((.((------(((.....))).---------...))))))..))..)).)))))).. ( -32.90)
>DroYak_CAF1 17896 96 + 1
-C-CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCAGCUGAAUGUGGGAGUGAUCAUGAUCCUGGUGGGAG---------CGCUCCUGCUGCGAGUCCACCUCUAA
-(-((((......((..((((((((...))))))))..))....)))))((.(((....)))))((((((..---------(((.......)))..))))))..... ( -36.30)
>DroPer_CAF1 43897 101 + 1
GCUCAGUGGGAGGUGGAGCAGCAUCAGCGUUACAGCAGUUGCCUGCUGGCUCGU------UCUUCUUGGCAGGUCUCAGCGUGCUCUGGCUGCGGCUGCGGCUCUAA
(((((((.(.((.(((((((((....((......)).(..((((((..(.....------.....)..))))))..).)).))))))).)).).)))).)))..... ( -40.80)
>consensus
_C_CCAUGAGCAAAGGAGCUGCGUCAUCGAUGCAGCGCCUGAACGUGGGAGUGA______UCCUGCUGGCAG_________CGCUCCUGCUGCGAGUCCGCCUCUAA
.......(((....(((((((((((...))))))))........(((((((((........((....))............)))))))))......)))..)))... (-23.56 = -23.48 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:22 2006