Locus 5645

Sequence ID 2L_DroMel_CAF1
Location 16,018,753 – 16,018,853
Length 100
Max. P 0.858299
window8952 window8953

overview

Window 2

Location 16,018,753 – 16,018,853
Length 100
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 82.15
Mean single sequence MFE -30.48
Consensus MFE -19.07
Energy contribution -19.27
Covariance contribution 0.19
Combinations/Pair 1.27
Mean z-score -2.45
Structure conservation index 0.63
SVM decision value 0.52
SVM RNA-class probability 0.768916
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16018753 100 + 22407834
-UGUUGUUGCUCGACUAUUGAUAAGCAUCGAAUUCAUUAAUUUAUAUGUUCGAUGAGUAUCAAGCGAGGAAUCGCACAAGCAG------A-AAGGAGUU-CGCCUCCUU----------
-(((.(((.((((....((((((..((((((((..((......))..))))))))..)))))).)))).))).))).......------.-((((((..-...))))))---------- ( -32.90)
>DroPse_CAF1 218951 106 + 1
-UGUUGUUGGCUGACUAUUGAUAAGCAUCGAAUUCAUUAAUUUAUAUGUUCGAUGAGUAUCAGGCGCAGAAUCACACAAGCAGAAGCCGA-AAGGAGUC-UGCCUCCUU----------
-..((((((.(((....((((((..((((((((..((......))..))))))))..))))))...)))...)).))))(((((..((..-..))..))-)))......---------- ( -36.00)
>DroEre_CAF1 183365 99 + 1
-UGUUGUUGCUCUACUAUUGAUAAGAAUCGAAUUCAUUAAUUUAUAUGUUCGAUGAGUAUCA-GCGAGGAGUCGCACAAGCAG------A-AAGGAGUU-CGCCUGCCU----------
-(((.((.(((((....((((((...(((((((..((......))..)))))))...)))))-)...))))).))))).((((------.-........-...))))..---------- ( -23.60)
>DroWil_CAF1 183679 98 + 1
GUUUUGUUGG-----UAUUGAUAAGCAUCGAAUUCAUUAAUUUAUAUGUUCGACGAGUAUCAAGCGUAGAAUCACAGUAGCAG------AAAAGGAGUUGUUUCUCCUU----------
.((((((((.-----(.((((((..(.((((((..((......))..)))))).)..))))))..((......))).))))))------))((((((......))))))---------- ( -23.50)
>DroAna_CAF1 128155 110 + 1
-GGUUGUUGGUUGACUAUUGAUAAGCAUCGAAUUCAUUAAUUUAUAUGUUCGAUGAGUAUCAAGCGUGGAAUCGCACAAGCAU------G-AAGGAGUU-CGCCUCCGUCCGUCCUCGG
-((.((..(((.((((.((((((..((((((((..((......))..))))))))..))))))(((......)))........------.-....))))-.)))..)).))........ ( -30.90)
>DroPer_CAF1 248419 106 + 1
-UGUUGUUGGCUGACUAUUGAUAAGCAUCGAAUUCAUUAAUUUAUAUGUUCGAUGAGUAUCAGGCGCAGAAUCACACAAGCAGAAGCCGA-AAGGAGUC-UGCCUCCUU----------
-..((((((.(((....((((((..((((((((..((......))..))))))))..))))))...)))...)).))))(((((..((..-..))..))-)))......---------- ( -36.00)
>consensus
_UGUUGUUGGUUGACUAUUGAUAAGCAUCGAAUUCAUUAAUUUAUAUGUUCGAUGAGUAUCAAGCGAAGAAUCACACAAGCAG______A_AAGGAGUU_CGCCUCCUU__________
....(((...(((....((((((..((((((((..((......))..))))))))..))))))...)))....))).................((((......))))............ (-19.07 = -19.27 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,018,753 – 16,018,853
Length 100
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 82.15
Mean single sequence MFE -25.77
Consensus MFE -18.65
Energy contribution -18.98
Covariance contribution 0.34
Combinations/Pair 1.11
Mean z-score -2.41
Structure conservation index 0.72
SVM decision value 0.82
SVM RNA-class probability 0.858299
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16018753 100 - 22407834
----------AAGGAGGCG-AACUCCUU-U------CUGCUUGUGCGAUUCCUCGCUUGAUACUCAUCGAACAUAUAAAUUAAUGAAUUCGAUGCUUAUCAAUAGUCGAGCAACAACA-
----------((((((...-..))))))-.------.((((((.((((....))))((((((..((((((((((........)))..)))))))..))))))....))))))......- ( -30.60)
>DroPse_CAF1 218951 106 - 1
----------AAGGAGGCA-GACUCCUU-UCGGCUUCUGCUUGUGUGAUUCUGCGCCUGAUACUCAUCGAACAUAUAAAUUAAUGAAUUCGAUGCUUAUCAAUAGUCAGCCAACAACA-
----------((((((...-..))))))-..((((.(((...((((......)))).(((((..((((((((((........)))..)))))))..))))).)))..)))).......- ( -28.60)
>DroEre_CAF1 183365 99 - 1
----------AGGCAGGCG-AACUCCUU-U------CUGCUUGUGCGACUCCUCGC-UGAUACUCAUCGAACAUAUAAAUUAAUGAAUUCGAUUCUUAUCAAUAGUAGAGCAACAACA-
----------(((.((...-..)))))(-(------(((((...((((....))))-(((((...(((((((((........)))..))))))...)))))..)))))))........- ( -20.50)
>DroWil_CAF1 183679 98 - 1
----------AAGGAGAAACAACUCCUUUU------CUGCUACUGUGAUUCUACGCUUGAUACUCGUCGAACAUAUAAAUUAAUGAAUUCGAUGCUUAUCAAUA-----CCAACAAAAC
----------((((((......))))))..------........(((......)))((((((..((((((((((........)))..)))))))..))))))..-----.......... ( -19.00)
>DroAna_CAF1 128155 110 - 1
CCGAGGACGGACGGAGGCG-AACUCCUU-C------AUGCUUGUGCGAUUCCACGCUUGAUACUCAUCGAACAUAUAAAUUAAUGAAUUCGAUGCUUAUCAAUAGUCAACCAACAACC-
.....((((((.((((...-..))))..-.------.(((....)))..)))....((((((..((((((((((........)))..)))))))..))))))..)))...........- ( -27.30)
>DroPer_CAF1 248419 106 - 1
----------AAGGAGGCA-GACUCCUU-UCGGCUUCUGCUUGUGUGAUUCUGCGCCUGAUACUCAUCGAACAUAUAAAUUAAUGAAUUCGAUGCUUAUCAAUAGUCAGCCAACAACA-
----------((((((...-..))))))-..((((.(((...((((......)))).(((((..((((((((((........)))..)))))))..))))).)))..)))).......- ( -28.60)
>consensus
__________AAGGAGGCA_AACUCCUU_U______CUGCUUGUGCGAUUCCACGCUUGAUACUCAUCGAACAUAUAAAUUAAUGAAUUCGAUGCUUAUCAAUAGUCAACCAACAACA_
..........((((((......))))))............(((((((......))).(((((..((((((((((........)))..)))))))..)))))...........))))... (-18.65 = -18.98 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:16 2006