Locus 1438

Sequence ID 2R_DroMel_CAF1
Location 5,511,205 – 5,511,335
Length 130
Max. P 0.965746
window2456 window2457

overview

Window 6

Location 5,511,205 – 5,511,295
Length 90
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 74.67
Mean single sequence MFE -21.17
Consensus MFE -16.13
Energy contribution -16.22
Covariance contribution 0.09
Combinations/Pair 1.23
Mean z-score -1.58
Structure conservation index 0.76
SVM decision value 1.59
SVM RNA-class probability 0.965746
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5511205 90 - 20766785
CGGGUGACUUUAUCAUCCGCCAGGGUGACGACGGCGAUAACUUUUAUGUUAUUGAAUCGUAAGUAAAA----CAAAA------CAAAUUU-CAAUCAAACU
.(..(((......(((((....)))))((((...(((((((......)))))))..))))........----.....------.......-...)))..). ( -19.40)
>DroVir_CAF1 12481 75 - 1
CGGGCGAUUACAUCAUACGCCAGGGCGAUGAUGGCGAUAAUUUUUAUGUUAUUGAAUCGUAAG-------------------------UG-CCAGCAAAUU
..((((.(((((((((.(((....))))))))..(((((((......)))))))....)))).-------------------------))-))........ ( -22.90)
>DroGri_CAF1 11860 96 - 1
CAGGCGAUUUCAUCAUACGCCAGGGCGAUGAUGGUGAUAACUUUUAUGUUAUUGAAUCGUAAGUGCGC----CAAAAUGCUAGAAUAAUG-CUCUUAAAUU
..((((((((((((((.(((....)))))))))..((((((......)))))))))))((....))))----).....((.........)-)......... ( -24.20)
>DroWil_CAF1 13751 94 - 1
CAGGCGAUUAUAUAAUCCGCCAGGGCGAUGAUGGUGAUAAUUUUUAUGUCAUUGAAUCGUAAGUAGACUACCCAAAA------AAAAUUG-UAAUGAAAUU
..(((((((....))).)))).(((((((...(((((((.......)))))))..))))..((....)).)))....------.......-.......... ( -17.50)
>DroMoj_CAF1 12113 96 - 1
CGGGCGAUUUCAUCAUACGCCAGGGUGAUGAUGGCGAUAAUUUUUAUGUUAUUGAAUCGUGAGUACAG----CCAACGAGAAAUAAAAUG-CCAACAAAUU
..((((...(((((((.(((....))))))))))(((((((......)))))))..((((..(.....----)..)))).........))-))........ ( -23.10)
>DroAna_CAF1 13555 91 - 1
CAGGCGAUUAUAUCAUUCGCCAGGGCGACGACGGCGAUAACUUUUAUGUUAUUGAAUCGUAAGUAAAA----CAAAA------CAAAUUUCCAAUCAAACU
..(((((.........))))).(((..((((...(((((((......)))))))..))))..((....----....)------).....)))......... ( -19.90)
>consensus
CAGGCGAUUACAUCAUACGCCAGGGCGAUGAUGGCGAUAACUUUUAUGUUAUUGAAUCGUAAGUAAAA____CAAAA______AAAAUUG_CAAUCAAAUU
...((((((.((((((.(((....))))))))).(((((((......)))))))))))))......................................... (-16.13 = -16.22 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 5,511,222 – 5,511,335
Length 113
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.15
Mean single sequence MFE -33.13
Consensus MFE -24.12
Energy contribution -24.82
Covariance contribution 0.70
Combinations/Pair 1.24
Mean z-score -1.46
Structure conservation index 0.73
SVM decision value 0.12
SVM RNA-class probability 0.591453
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5511222 113 - 20766785
AACCAAGUCCUGGAUGCCAUGUUCGAGCGAAAGGUUCAGCCGGGUGACUUUAUCAUCCGCCAGGGUGACGACGGCGAUAACUUUUAUGUUAUUGAAUCGUAAGUAAAA----CAAAA---
.......((((((.......(((.((.(....).)).)))(((((((.....)))))))))))))..((((...(((((((......)))))))..))))........----.....--- ( -32.20)
>DroVir_CAF1 12493 103 - 1
AAUCAAGUGCUGGACGCGAUGUUCGAGCGGAAGGUGCUGCCGGGCGAUUACAUCAUACGCCAGGGCGAUGAUGGCGAUAAUUUUUAUGUUAUUGAAUCGUAAG-----------------
.....((..((...(((.........)))...))..)).....((((((.((((((.(((....))))))))).(((((((......)))))))))))))...----------------- ( -33.00)
>DroGri_CAF1 11880 116 - 1
AAUCAAGUGCUGGAUGCGAUGUUCGAGCGGAAGGUGGAACCAGGCGAUUUCAUCAUACGCCAGGGCGAUGAUGGUGAUAACUUUUAUGUUAUUGAAUCGUAAGUGCGC----CAAAAUGC
..........(((.((((..((((.(.(....).).))))...(((((((((((((.(((....)))))))))..((((((......)))))))))))))...)))))----))...... ( -36.60)
>DroWil_CAF1 13768 117 - 1
AAUCAAGUGCUGGAUGCCAUGUUUGAGCGUAAAGUGCAGCCAGGCGAUUAUAUAAUCCGCCAGGGCGAUGAUGGUGAUAAUUUUUAUGUCAUUGAAUCGUAAGUAGACUACCCAAAA---
......(..((..((((((....)).))))..))..).(((.(((((((....))).))))..))).(((((.((((((.......))))))...))))).................--- ( -29.70)
>DroMoj_CAF1 12133 116 - 1
AAUCAAGUGCUGGAUGCGAUGUUCGAGCGAAAGGUGCAGCCGGGCGAUUUCAUCAUACGCCAGGGUGAUGAUGGCGAUAAUUUUUAUGUUAUUGAAUCGUGAGUACAG----CCAACGAG
......(((((((.((((...(((....)))...)))).))..(((((((((((((.(((....))))))))))(((((((......))))))))))))).)))))..----........ ( -34.70)
>DroAna_CAF1 13573 113 - 1
AACCAGGUCCUGGAUGCGAUGUUCGAGCGAAAGGUUCAGCCAGGCGAUUAUAUCAUUCGCCAGGGCGACGACGGCGAUAACUUUUAUGUUAUUGAAUCGUAAGUAAAA----CAAAA---
..((((...)))).(((((((((.((((.....)))).(((.(((((.........)))))..)))))).....(((((((......))))))).)))))).......----.....--- ( -32.60)
>consensus
AAUCAAGUGCUGGAUGCGAUGUUCGAGCGAAAGGUGCAGCCAGGCGAUUACAUCAUACGCCAGGGCGAUGAUGGCGAUAACUUUUAUGUUAUUGAAUCGUAAGUAAAA____CAAAA___
.........((((.((((...(((....)))...)))).))))((((((.((((((.(((....))))))))).(((((((......))))))))))))).................... (-24.12 = -24.82 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:51 2006