Locus 3881

Sequence ID 3L_DroMel_CAF1
Location 11,245,366 – 11,245,457
Length 91
Max. P 0.689117
window6038 window6039

overview

Window 8

Location 11,245,366 – 11,245,457
Length 91
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 85.94
Mean single sequence MFE -22.37
Consensus MFE -15.15
Energy contribution -15.27
Covariance contribution 0.13
Combinations/Pair 1.11
Mean z-score -1.58
Structure conservation index 0.68
SVM decision value 0.07
SVM RNA-class probability 0.567566
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11245366 91 + 23771897
AUAUCCCAUAUAGGUAC-----AGUUCUAGUUGCAAAGGCUUACUUAUUAUUCUAUCUUCCGAUAGUAAGCGCAAUAGGGAACUGUUUCAGCAAUU
............((.((-----((((((.(((((....(((((((...................))))))))))))..)))))))).))....... ( -22.41)
>DroSec_CAF1 46944 96 + 1
AUAUCCCAUAUAGAUAGAGCGAAGUUCUAGUUGCAAAGGUUUACUUAUUAUUCUAUCUUCCGAUAGUAAGCGCAACGGGGAACUGUUUCAGAAAUU
...((((.......((((((...))))))(((((.(((.....)))......(((((....))))).....))))).)))).(((...)))..... ( -22.20)
>DroSim_CAF1 48617 94 + 1
AUAUCCCAUAUAGAUAGAGCGAAGUUCUAGUUGGGAAGGUUUACUUAUUAUUCUAUCUUCCGAUAGUAAGCGCAACGGGGAACUGUUUCAGAAU--
...(((((......((((((...))))))..)))))..(((((((...................)))))))(.(((((....))))).).....-- ( -21.71)
>DroYak_CAF1 50266 96 + 1
AUAGUCCAUAUAGAUGGAACGAAGUUCCAGUUGCAAAGGUCUACUUAUUAUACUAUCUUCCGAUAGCGAGCUCAACAGGGAACUGUUUGAGAAAUU
.(((.((.......((((((...))))))........)).))).........(((((....)))))....((((((((....))).)))))..... ( -23.16)
>consensus
AUAUCCCAUAUAGAUAGAGCGAAGUUCUAGUUGCAAAGGUUUACUUAUUAUUCUAUCUUCCGAUAGUAAGCGCAACAGGGAACUGUUUCAGAAAUU
......................((((((.(((((.(((.....)))......(((((....))))).....)))))..))))))............ (-15.15 = -15.27 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 11,245,366 – 11,245,457
Length 91
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 85.94
Mean single sequence MFE -21.46
Consensus MFE -13.96
Energy contribution -14.40
Covariance contribution 0.44
Combinations/Pair 1.13
Mean z-score -1.98
Structure conservation index 0.65
SVM decision value 0.32
SVM RNA-class probability 0.689117
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11245366 91 - 23771897
AAUUGCUGAAACAGUUCCCUAUUGCGCUUACUAUCGGAAGAUAGAAUAAUAAGUAAGCCUUUGCAACUAGAACU-----GUACCUAUAUGGGAUAU
..........(((((((....((((((((((((((....))).........)))))))....))))...)))))-----)).(((....))).... ( -23.00)
>DroSec_CAF1 46944 96 - 1
AAUUUCUGAAACAGUUCCCCGUUGCGCUUACUAUCGGAAGAUAGAAUAAUAAGUAAACCUUUGCAACUAGAACUUCGCUCUAUCUAUAUGGGAUAU
...............((((.(((((((((((((((....))))).....)))))........)))))((((.......)))).......))))... ( -19.80)
>DroSim_CAF1 48617 94 - 1
--AUUCUGAAACAGUUCCCCGUUGCGCUUACUAUCGGAAGAUAGAAUAAUAAGUAAACCUUCCCAACUAGAACUUCGCUCUAUCUAUAUGGGAUAU
--..................(((..((((((((((....))))).....))))).)))..(((((..((((...........))))..)))))... ( -18.70)
>DroYak_CAF1 50266 96 - 1
AAUUUCUCAAACAGUUCCCUGUUGAGCUCGCUAUCGGAAGAUAGUAUAAUAAGUAGACCUUUGCAACUGGAACUUCGUUCCAUCUAUAUGGACUAU
.....(((((.(((....))))))))...((((((....)))))).......((((.((........((((((...)))))).......)).)))) ( -24.36)
>consensus
AAUUUCUGAAACAGUUCCCCGUUGCGCUUACUAUCGGAAGAUAGAAUAAUAAGUAAACCUUUGCAACUAGAACUUCGCUCUAUCUAUAUGGGAUAU
............(((((...(((((((((((((((....))))).....)))))........)))))..)))))........(((....))).... (-13.96 = -14.40 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:01 2006