Locus 2162

Sequence ID 2L_DroMel_CAF1
Location 5,824,058 – 5,824,183
Length 125
Max. P 0.717778
window3492 window3493

overview

Window 2

Location 5,824,058 – 5,824,149
Length 91
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 81.52
Mean single sequence MFE -24.48
Consensus MFE -15.00
Energy contribution -15.20
Covariance contribution 0.20
Combinations/Pair 1.22
Mean z-score -2.13
Structure conservation index 0.61
SVM decision value 0.39
SVM RNA-class probability 0.717778
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5824058 91 - 22407834
ACCACGAGCGGUUAUUCCGCUUA-UUCAGUACGAAAACGAGUGAAAAUAUUAUUCAAAUAUCACCCGGAGUUCUGGGUUCGAAUUCCCGCUC
.....((((((..(((((((((.-(((.....)))...)))))...................((((((....))))))..))))..)))))) ( -27.30)
>DroSec_CAF1 23086 91 - 1
ACCACGAGCGGUUAUUCCGCUUA-UUCAGUACGAAAACGAGUGAAAAUAUUAUUCAAAUAUCAACCGGAGUUCUGUGUUCGAAUUCCCGCUC
.....((((((..(((((((..(-(((.((......))((((((.....))))))............))))...)))...))))..)))))) ( -21.50)
>DroSim_CAF1 22298 90 - 1
ACCACGAGCGGUUAUUCCGCUUU-UUCAGUACGAAAACGAGUGA-AAUAUUAUUCAAAUAUCAACCGGAGUUCUAUGUCCGAAUUCCCGCUC
.....((((((..((((((((((-(((.....))))..))))).-.....................(((........)))))))..)))))) ( -22.10)
>DroEre_CAF1 47315 91 - 1
AUCACGAGCGGAUAGUCCGCUACUUUCAGUACGAAAACGAGUGA-AAUAUUAUUCAAAUAACACUCGGAGUUCUGGGCCCGAAUUCCCGCUC
.....((((((......((.(((.....)))))....((((((.-..((((.....)))).))))))((((((.(....))))))))))))) ( -24.30)
>DroYak_CAF1 47788 90 - 1
ACCACGAGCGGAUAUUCCGCUUG-UUCAGUUCGAAAACGAGUGA-AAUAUUAUUCAAAUAUCACUCGGCGUUCUGGGUCCGAGUUCCCGCUC
(((((((((((.....)))))))-).(((..((....(((((((-..((((.....))))))))))).))..))))))..((((....)))) ( -31.90)
>DroAna_CAF1 21115 85 - 1
AGUGCA--CGCUUGUCCGGGUAU-UUCGGUAGAAAAUCGGAUGA-AAUAUUAUCCAAA-AUCACUCGGAGCCUUGG--CCAAUUUCCCGUCC
.....(--((....(((((((.(-(((....))))...((((((-....))))))...-...)))))))((....)--)........))).. ( -19.80)
>consensus
ACCACGAGCGGUUAUUCCGCUUA_UUCAGUACGAAAACGAGUGA_AAUAUUAUUCAAAUAUCACCCGGAGUUCUGGGUCCGAAUUCCCGCUC
.....(((((............................((((((.....))))))...........(((((((.......)))))))))))) (-15.00 = -15.20 +   0.20)

alignment

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secondary structure

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dotplot

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Window 3

Location 5,824,086 – 5,824,183
Length 97
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 82.43
Mean single sequence MFE -21.63
Consensus MFE -14.28
Energy contribution -14.78
Covariance contribution 0.50
Combinations/Pair 1.21
Mean z-score -1.76
Structure conservation index 0.66
SVM decision value 0.10
SVM RNA-class probability 0.581325
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5824086 97 - 22407834
UCUGUCGAAUCCGAACAUUCGGC----GAACUUACACAACCACGAGCGGUUAUUCCGCUUA-UUCAGUACGAAAACGAGUGAAAAUAUUAUUCAAAUAUCAC
...(((((((......)))))))----(((.............((((((.....)))))).-((((.(.((....))).)))).......)))......... ( -20.00)
>DroSec_CAF1 23114 97 - 1
CCUGUCGAAUCCGAACAUUCGGC----GAACUUACACAACCACGAGCGGUUAUUCCGCUUA-UUCAGUACGAAAACGAGUGAAAAUAUUAUUCAAAUAUCAA
...(((((((......)))))))----(((.............((((((.....)))))).-((((.(.((....))).)))).......)))......... ( -20.00)
>DroSim_CAF1 22326 96 - 1
CCUGUAGAAUCCAAACAUUCGGC----GAACUUACACAACCACGAGCGGUUAUUCCGCUUU-UUCAGUACGAAAACGAGUGA-AAUAUUAUUCAAAUAUCAA
......((((.....((((((..----................((((((.....))))))(-(((.....)))).)))))).-......))))......... ( -16.90)
>DroEre_CAF1 47343 97 - 1
CCUGUCGAAUCCGCGCAUUCGGC----GAACUUACACAAUCACGAGCGGAUAGUCCGCUACUUUCAGUACGAAAACGAGUGA-AAUAUUAUUCAAAUAACAC
..((((((((......)))))))----)...........((((.(((((.....)))))..((((.....))))....))))-................... ( -20.70)
>DroYak_CAF1 47816 96 - 1
CCUGUCGAAUCCGCGCAUUCGGC----GAACUUACACAACCACGAGCGGAUAUUCCGCUUG-UUCAGUUCGAAAACGAGUGA-AAUAUUAUUCAAAUAUCAC
......((((.....((((((.(----(((((.........((((((((.....)))))))-)..))))))....)))))).-......))))......... ( -26.50)
>DroAna_CAF1 21141 97 - 1
CAUGUCGAUGCGAAGCAAUCGACAGCCAAACUCACACAAGUGCA--CGCUUGUCCGGGUAU-UUCGGUAGAAAAUCGGAUGA-AAUAUUAUCCAAA-AUCAC
..(((((((((...)).)))))))(((..((((..((((((...--.))))))..))))..-...)))........((((((-....))))))...-..... ( -25.70)
>consensus
CCUGUCGAAUCCGAACAUUCGGC____GAACUUACACAACCACGAGCGGUUAUUCCGCUUA_UUCAGUACGAAAACGAGUGA_AAUAUUAUUCAAAUAUCAC
...(((((((......)))))))....................((((((.....))))))................((((((.....))))))......... (-14.28 = -14.78 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:10 2006