Locus 6307

Sequence ID 2R_DroMel_CAF1
Location 19,754,610 – 19,754,729
Length 119
Max. P 0.915940
window10081 window10082

overview

Window 1

Location 19,754,610 – 19,754,729
Length 119
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 97.05
Mean single sequence MFE -40.50
Consensus MFE -36.95
Energy contribution -36.95
Covariance contribution -0.00
Combinations/Pair 1.03
Mean z-score -2.35
Structure conservation index 0.91
SVM decision value 1.10
SVM RNA-class probability 0.915940
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19754610 119 + 20766785
GUGGCAGAAUGUUGUUAAUAUGUUGAUGCUGUUGUUUGAUUGUUGUUGGCGUUGCAUUUUUAUGUGCGCCUCAGGCUCGGGCGUGUAAACAACUUUUAUUGCCGGCCGGCACUCGGCAA
.((((((...((((((.((((((.....(((..((((((........(((((.((((....))))))))))))))).))))))))).)))))).....))))))((((.....)))).. ( -37.80)
>DroSec_CAF1 7409 119 + 1
GAGGCAGAAUGCUGUUAAUAUGUUGAUGCUGUUGUUUGAUUGUUGUUGGCGUUGCAUUUUUAUGUGCGCCGCAGGCUCGGGCGUGUAAACAACUUUUAUUGCCGGCCGGCACUCGGCAA
..(((((....)))))....((((((((((((((..(((..(((((((((((.((((....)))))))))(((.((....)).))).))))))..)))....))).))))).)))))). ( -39.00)
>DroEre_CAF1 7551 118 + 1
GAGGCAAAAUGUUGUUAAUAUGUUGAUGCUGUUGUUUGAUUGUUGUUGGCGUUGCAUUUUUAUGUGCGCCGCAGGCUCG-GCGUGUAAACAACUUUUAUUGCCGGCCGACACUCGGCAA
..(((((...((((((.(((((((((.((((((....)))...(((.(((((.((((....))))))))))))))))))-)))))).)))))).....))))).((((.....)))).. ( -42.60)
>DroYak_CAF1 10253 118 + 1
GAGGCAAAAUGUUGUUAAUAUGUUGAUGCUGUUGUUUGAUUGUUGUUGGCGUUGCAUUUUUAUGUGCGCCGCAGGCUCG-GCGUGUAAACAACUUUUAUUGCCGGCCGACACUCGGCAA
..(((((...((((((.(((((((((.((((((....)))...(((.(((((.((((....))))))))))))))))))-)))))).)))))).....))))).((((.....)))).. ( -42.60)
>consensus
GAGGCAAAAUGUUGUUAAUAUGUUGAUGCUGUUGUUUGAUUGUUGUUGGCGUUGCAUUUUUAUGUGCGCCGCAGGCUCG_GCGUGUAAACAACUUUUAUUGCCGGCCGACACUCGGCAA
..(((((...((((((.(((((((((.(((.......(((....)))(((((.((((....)))))))))...)))))).)))))).)))))).....))))).((((.....)))).. (-36.95 = -36.95 +  -0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 19,754,610 – 19,754,729
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 97.05
Mean single sequence MFE -26.34
Consensus MFE -24.23
Energy contribution -24.22
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.69
Structure conservation index 0.92
SVM decision value 0.21
SVM RNA-class probability 0.633920
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19754610 119 - 20766785
UUGCCGAGUGCCGGCCGGCAAUAAAAGUUGUUUACACGCCCGAGCCUGAGGCGCACAUAAAAAUGCAACGCCAACAACAAUCAAACAACAGCAUCAACAUAUUAACAACAUUCUGCCAC
..((((.....)))).((((......(((((((.((.((....)).)).((((..(((....)))...))))..........))))))).(......)...............)))).. ( -25.20)
>DroSec_CAF1 7409 119 - 1
UUGCCGAGUGCCGGCCGGCAAUAAAAGUUGUUUACACGCCCGAGCCUGCGGCGCACAUAAAAAUGCAACGCCAACAACAAUCAAACAACAGCAUCAACAUAUUAACAGCAUUCUGCCUC
..((((.....)))).((((......(((((((.((.((....)).)).((((..(((....)))...))))..........))))))).((...............))....)))).. ( -26.36)
>DroEre_CAF1 7551 118 - 1
UUGCCGAGUGUCGGCCGGCAAUAAAAGUUGUUUACACGC-CGAGCCUGCGGCGCACAUAAAAAUGCAACGCCAACAACAAUCAAACAACAGCAUCAACAUAUUAACAACAUUUUGCCUC
..((((.....)))).(((((.....(((((((....((-((......))))(((........)))................))))))).(......)..............))))).. ( -26.90)
>DroYak_CAF1 10253 118 - 1
UUGCCGAGUGUCGGCCGGCAAUAAAAGUUGUUUACACGC-CGAGCCUGCGGCGCACAUAAAAAUGCAACGCCAACAACAAUCAAACAACAGCAUCAACAUAUUAACAACAUUUUGCCUC
..((((.....)))).(((((.....(((((((....((-((......))))(((........)))................))))))).(......)..............))))).. ( -26.90)
>consensus
UUGCCGAGUGCCGGCCGGCAAUAAAAGUUGUUUACACGC_CGAGCCUGCGGCGCACAUAAAAAUGCAACGCCAACAACAAUCAAACAACAGCAUCAACAUAUUAACAACAUUCUGCCUC
..((((.....)))).((((......(((((((.((.((....)).)).((((..(((....)))...))))..........))))))).(......)...............)))).. (-24.23 = -24.22 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:54 2006