Locus 857

Sequence ID X_DroMel_CAF1
Location 2,434,125 – 2,434,264
Length 139
Max. P 0.915259
window1380 window1381 window1382

overview

Window 0

Location 2,434,125 – 2,434,226
Length 101
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 76.19
Mean single sequence MFE -20.23
Consensus MFE -11.50
Energy contribution -11.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.24
Structure conservation index 0.57
SVM decision value 1.10
SVM RNA-class probability 0.915259
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2434125 101 + 22224390
--AGUUCGAUAAGUCGGAUAUCGAUCGAUACACGACACACACACACGCAUACAUACAUAUAUCCUAUAUUUUUGUAUAUUUACCAACAG----CAGUUGGGCCACAG
--..........((((..((((....))))..))))..........(((((((...(((((...)))))...))))).....(((((..----..)))))))..... ( -21.10)
>DroSec_CAF1 76869 92 + 1
--AGUUCGAUAAGUCGAAUAUCGAUCGAUACACGACACACACACACAUAUACAUA---------UAUAUUUUUGUAUAUUUACCAACAG----CAGUUGGGCCACAG
--..........((((..((((....))))..))))..........(((((((..---------........)))))))...(((((..----..)))))....... ( -18.00)
>DroEre_CAF1 81936 97 + 1
UAGGUUCGAUAAAUCG-AUAUCGAUCGACAUG---CAUACACACAC------AUAUGUAUAUCCUAUAUUUUUGUAUAUUCACCAACAACAAACAGUUGGGUCACCG
..(((((((((.....-.))))))..((((((---((((.......------.)))))))....(((((....)))))....(((((........))))))))))). ( -21.60)
>consensus
__AGUUCGAUAAGUCG_AUAUCGAUCGAUACACGACACACACACAC__AUACAUA__UAUAUCCUAUAUUUUUGUAUAUUUACCAACAG____CAGUUGGGCCACAG
...(.((((((.......)))))).)......................................(((((....)))))....(((((........)))))....... (-11.50 = -11.50 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 2,434,125 – 2,434,226
Length 101
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 76.19
Mean single sequence MFE -24.87
Consensus MFE -15.66
Energy contribution -17.33
Covariance contribution 1.67
Combinations/Pair 1.12
Mean z-score -1.77
Structure conservation index 0.63
SVM decision value 0.73
SVM RNA-class probability 0.836415
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2434125 101 - 22224390
CUGUGGCCCAACUG----CUGUUGGUAAAUAUACAAAAAUAUAGGAUAUAUGUAUGUAUGCGUGUGUGUGUGUCGUGUAUCGAUCGAUAUCCGACUUAUCGAACU--
.((((..(((((..----..)))))......))))...(((((.((((((..((..(....)..))..)))))).)))))...((((((.......))))))...-- ( -24.90)
>DroSec_CAF1 76869 92 - 1
CUGUGGCCCAACUG----CUGUUGGUAAAUAUACAAAAAUAUA---------UAUGUAUAUGUGUGUGUGUGUCGUGUAUCGAUCGAUAUUCGACUUAUCGAACU--
.......(((((..----..)))))...(((((((...(((((---------(....)))))).)))))))((((.(((((....))))).))))..........-- ( -24.00)
>DroEre_CAF1 81936 97 - 1
CGGUGACCCAACUGUUUGUUGUUGGUGAAUAUACAAAAAUAUAGGAUAUACAUAU------GUGUGUGUAUG---CAUGUCGAUCGAUAU-CGAUUUAUCGAACCUA
.(((((((((((........)))))((.(((((((...((((((......).)))------)).))))))).---)).)))..((((((.-.....))))))))).. ( -25.70)
>consensus
CUGUGGCCCAACUG____CUGUUGGUAAAUAUACAAAAAUAUAGGAUAUA__UAUGUAU__GUGUGUGUGUGUCGUGUAUCGAUCGAUAU_CGACUUAUCGAACU__
.......(((((........)))))...(((((((...(((((...........)))))...)))))))..((((.(((((....))))).))))............ (-15.66 = -17.33 +   1.67)

alignment

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secondary structure

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dotplot

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Window 2

Location 2,434,162 – 2,434,264
Length 102
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 81.13
Mean single sequence MFE -22.07
Consensus MFE -15.85
Energy contribution -15.97
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -1.74
Structure conservation index 0.72
SVM decision value 0.37
SVM RNA-class probability 0.708154
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2434162 102 - 22224390
CAUUCAUCAGCGCACUU-CUUACACAUGUGCAAAA-AAAACUGUGGCCCAACUG----CUGUUGGUAAAUAUACAAAAAUAUAGGAUAUAUGUAUGUAUGCGUGUGUG
.........((((((..-....((((.((......-...))))))(((((((..----..))))).....(((((...(((((...)))))...))))))))))))). ( -22.30)
>DroSec_CAF1 76906 94 - 1
CAUUCAUCAGCGCACUCCCUUACACAAGUGCAAAA-AAAACUGUGGCCCAACUG----CUGUUGGUAAAUAUACAAAAAUAUA---------UAUGUAUAUGUGUGUG
.........((((((.......((((.((......-...))))))..(((((..----..)))))...(((((((........---------..))))))))))))). ( -20.30)
>DroEre_CAF1 81971 101 - 1
CAUUCAUCAGCACACUC-CUUACACAUGUGCAAAAAAAAACGGUGACCCAACUGUUUGUUGUUGGUGAAUAUACAAAAAUAUAGGAUAUACAUAU------GUGUGUG
.((((((((((((((..-.........))).......(((((((......)))))))..)))))))))))(((((...((((.(......)))))------.))))). ( -23.60)
>consensus
CAUUCAUCAGCGCACUC_CUUACACAUGUGCAAAA_AAAACUGUGGCCCAACUG____CUGUUGGUAAAUAUACAAAAAUAUAGGAUAUA__UAUGUAU__GUGUGUG
.........((((((.......((((.((..........))))))..(((((........)))))....................................)))))). (-15.85 = -15.97 +   0.11)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:26 2006