Locus 5775

Sequence ID 2L_DroMel_CAF1
Location 16,392,499 – 16,392,630
Length 131
Max. P 0.739895
window9144 window9145

overview

Window 4

Location 16,392,499 – 16,392,596
Length 97
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.20
Mean single sequence MFE -30.52
Consensus MFE -23.28
Energy contribution -24.12
Covariance contribution 0.84
Combinations/Pair 1.05
Mean z-score -1.73
Structure conservation index 0.76
SVM decision value 0.45
SVM RNA-class probability 0.739895
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16392499 97 + 22407834
-----------------------ACGGACGAGGGGCGUAGAGCCCAGAAAUUGACAGACCUCGUGGGUCAUGAGCCACGACCGAAUUCUCGGACUCCUUGGACCCAAAAAAAGUAUAUAU
-----------------------..(..((((((((.....))))...............((((((.(....).))))))((((....))))....))))..)................. ( -27.10)
>DroSec_CAF1 17082 97 + 1
-----------------------ACGGACGAGGGGCGUAGAGCCCAGAAAUUGACAGUCCUCGUGGGUCAUGAGCCACGACCGAAUUCUCGGACUCCUUGGACCCAAAAAAUGUAUAUAU
-----------------------..((.(((.((((.....)))).....)))...((((((((((.(....).))))))((((....)))).......))))))............... ( -29.70)
>DroSim_CAF1 14095 91 + 1
-----------------------------GAGGGGCGUAGAGCCCAGAAAUUGACAGUCCUCGUGGGUCAUGAGCCACGACCGAAUUCUCGGACUCCUUGGACCCAAAAAAUGUAUAUAU
-----------------------------...((((.....))))...........((((((((((.(....).))))))((((....)))).......))))................. ( -27.50)
>DroEre_CAF1 13789 120 + 1
CAACGGACAACGGACAACGAACAACGGACGAGGGGCGUAAAGCCCAGAAAUUGACAGUCCUCGUGGGUCAUGAGCCACGACCGAAUUCUGGAACUUCUUGGACCCAAAGAAGGGAAAUAU
...((((...(((............((((...((((.....))))(....).....))))((((((.(....).)))))))))...))))...(((((((....).))))))........ ( -35.00)
>DroYak_CAF1 17497 94 + 1
-----------------------AAGGACGAGGGGCGUAAAGCUCAGAAAUUGACAGUCCUCGUGGCUCAUGAGCCACGACCGAAUUCUCGGACUACUCGGACCCAAAAA---GAAAUAU
-----------------------..(..((((((((.....))))..........(((((((((((((....))))))))..((....))))))).))))..).......---....... ( -33.30)
>consensus
_______________________ACGGACGAGGGGCGUAGAGCCCAGAAAUUGACAGUCCUCGUGGGUCAUGAGCCACGACCGAAUUCUCGGACUCCUUGGACCCAAAAAAUGUAUAUAU
.........................((.....((((.....))))...........((((((((((.(....).))))))((((....)))).......))))))............... (-23.28 = -24.12 +   0.84)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,392,516 – 16,392,630
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.68
Mean single sequence MFE -32.08
Consensus MFE -22.38
Energy contribution -23.98
Covariance contribution 1.60
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.70
SVM decision value 0.29
SVM RNA-class probability 0.669186
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16392516 114 + 22407834
AGCCCAGAAAUUGACAGACCUCGUGGGUCAUGAGCCACGACCGAAUUCUCGGACUCCUUGGACCCAAAAAAAGUAUAUAUA----UAU--UUAUACCCAAGACGAGGGUGUAAAAUCAAG
......((.....(((..(((((((((((..(((.(.(((........)))).)))....))))).......(((((....----...--.))))).....)))))).)))....))... ( -28.60)
>DroSec_CAF1 17099 116 + 1
AGCCCAGAAAUUGACAGUCCUCGUGGGUCAUGAGCCACGACCGAAUUCUCGGACUCCUUGGACCCAAAAAAUGUAUAUAUAUA--UAU--UUAUACCCACGACGAGGGUGUAAAAUCAAG
..........((((..((((((((((.(....).))))))((((....)))).......))))....................--..(--((((((((.......))))))))).)))). ( -31.40)
>DroSim_CAF1 14106 118 + 1
AGCCCAGAAAUUGACAGUCCUCGUGGGUCAUGAGCCACGACCGAAUUCUCGGACUCCUUGGACCCAAAAAAUGUAUAUAUAUAUGUAU--UUAUACCCACGACGAGGGUGUAAAAUCAAG
..........((((..((((((((((.(....).))))))((((....)))).......))))........................(--((((((((.......))))))))).)))). ( -31.40)
>DroEre_CAF1 13829 111 + 1
AGCCCAGAAAUUGACAGUCCUCGUGGGUCAUGAGCCACGACCGAAUUCUGGAACUUCUUGGACCCAAAGAAGGGAAAUAUGUACAC---------CCAGCGGCGAGGGUGUAAAAUCAAG
...((((((.(((.......((((((.(....).)))))).))).)))))).....(((((.(((......))).......(((((---------((........)))))))...))))) ( -34.00)
>DroYak_CAF1 17514 117 + 1
AGCUCAGAAAUUGACAGUCCUCGUGGCUCAUGAGCCACGACCGAAUUCUCGGACUACUCGGACCCAAAAA---GAAAUAUGUAUAUACUCGUAUACCCGCGACGAGGGUGUAAAAUCAAG
..........((((..((((((((((((....))))))))((((....)))).......)))).......---..................(((((((.......)))))))...)))). ( -35.00)
>consensus
AGCCCAGAAAUUGACAGUCCUCGUGGGUCAUGAGCCACGACCGAAUUCUCGGACUCCUUGGACCCAAAAAAUGUAUAUAUAUA__UAU__UUAUACCCACGACGAGGGUGUAAAAUCAAG
..........((((..((((((((((.(....).))))))((((....)))).......))))............................(((((((.......)))))))...)))). (-22.38 = -23.98 +   1.60)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:23 2006