Locus 4396

Sequence ID 2R_DroMel_CAF1
Location 14,470,540 – 14,470,700
Length 160
Max. P 0.574140
window7029 window7030

overview

Window 9

Location 14,470,540 – 14,470,660
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 87.61
Mean single sequence MFE -43.05
Consensus MFE -33.00
Energy contribution -32.83
Covariance contribution -0.16
Combinations/Pair 1.24
Mean z-score -2.47
Structure conservation index 0.77
SVM decision value 0.08
SVM RNA-class probability 0.574140
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14470540 120 + 20766785
AGCACCGCCCUAUUUCUGAGCGCCGGCAAGAAGUACCAGAUCCUGGCCCAGCCCAUCAAGAUCAAGGAGGGUCGCAAGCCCACCAAUGUGGGCGCCAAGGUGCUCAUCCCGGAGACCUAC
................(((((((((((.....(..((((...))))..).((((((.........((.(((.(....)))).))...)))))))))..))))))))....(....).... ( -41.00)
>DroVir_CAF1 128940 120 + 1
AGCACGGCUCUCUUUUUGAGCGCUGGCAAAAAAUAUCAGAUACUGGCGCAGCCCAUCAAGAUCAAGGAGGGCCGCAAGCCCACUAAUGUGGGCGCCAAGGUGCUCAUACCGGAGACAUAC
.((.((((.(((.....))).))))))................((((((.((((..(........)..)))).))..((((((....)))))))))).((((....))))(....).... ( -47.90)
>DroGri_CAF1 120627 120 + 1
AGCACGGCGCUAUUUCUGAGCGCUGGCAAAAAGUAUCAGAUACUGGCUCAGCCCAUCAAGAUCAAAGAGGGACGCAAGCCCACAAAUGUGGGCGCCAAGGUGCUCAUACCGGAGACCUAC
.((.(((((((.......)))))))))....(((((...)))))(((...((((.((.........))))).)....((((((....))))))))).((((.(((......))))))).. ( -44.10)
>DroWil_CAF1 170088 120 + 1
AGUACGGCAUUAUUUCUAAGCGCUGGUAAAAAAUAUCAAAUCCUAGCGCAACCCAUCAAGAUCAAAGAGGGUCGCAAGCCCACCAAUGUGGGUGCCAAGGUGCUCAUACCCGAGACCUAU
.....(((...........(((((((................))))))).((((.((.........)))))).....((((((....))))))))).((((.(((......))))))).. ( -36.59)
>DroMoj_CAF1 163503 120 + 1
AGCACCGCGCUGUUCUUGAGCGCCGGCAAGAAAUAUCAGAUACUGGCGCAGCCCAUCAAGAUCAAAGAGGGACGCAAGCCCACCAAUGUGGGCGCUAAGGUGCUCAUACCGGAGACCUAU
(((((((((((.(..(((((((((((................)))))))....(.....).))))..).)).)))..((((((....)))))).....))))))......(....).... ( -43.09)
>DroAna_CAF1 115003 120 + 1
AGCACCGCCCUGUUCCUGAGCGCCGGCAAGAAGUACCAGAUCCUGGCCCAGCCGAUCAAGAUCAAGGAGGGUCGCAAGCCCACCAACGUGGGCGCCAAGGUGCUCAUCCCAGAAACCUAC
.........(((....(((((((((((.....(((((...(((((((...)))(((....))).)))).))).))..((((((....)))))))))..))))))))...)))........ ( -45.60)
>consensus
AGCACCGCCCUAUUUCUGAGCGCCGGCAAAAAAUAUCAGAUACUGGCGCAGCCCAUCAAGAUCAAAGAGGGUCGCAAGCCCACCAAUGUGGGCGCCAAGGUGCUCAUACCGGAGACCUAC
................(((((((((((..................((...((((.((.........)))))).))..((((((....)))))))))..)))))))).............. (-33.00 = -32.83 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 14,470,580 – 14,470,700
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.67
Mean single sequence MFE -46.00
Consensus MFE -37.66
Energy contribution -37.00
Covariance contribution -0.66
Combinations/Pair 1.34
Mean z-score -1.84
Structure conservation index 0.82
SVM decision value 0.04
SVM RNA-class probability 0.554277
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14470580 120 + 20766785
UCCUGGCCCAGCCCAUCAAGAUCAAGGAGGGUCGCAAGCCCACCAAUGUGGGCGCCAAGGUGCUCAUCCCGGAGACCUACGGCGGCUACUUCGAGCUCCUCAGCGAGGAUGGUCGCUCCA
....(((...)))............((((((((((..((((((....))))))....((((.(((......)))))))...))))))....(((.((((((...))))).).))))))). ( -45.70)
>DroVir_CAF1 128980 120 + 1
UACUGGCGCAGCCCAUCAAGAUCAAGGAGGGCCGCAAGCCCACUAAUGUGGGCGCCAAGGUGCUCAUACCGGAGACAUACGGCGGCUAUUUUGAGCUGCUCAGCGAGGAUGGACGCUCGA
...((((((.((((..(........)..)))).))..((((((....)))))))))).((((..(((.(((....)....(((((((......)))))))......)))))..))))... ( -51.80)
>DroGri_CAF1 120667 120 + 1
UACUGGCUCAGCCCAUCAAGAUCAAAGAGGGACGCAAGCCCACAAAUGUGGGCGCCAAGGUGCUCAUACCGGAGACCUACGGCGGCUACUUUGAGCUGCUCAGCGAAGAUGGACGCUCCA
....((...((((((((....((((((.(((.(....)))).......(((.((((.((((.(((......)))))))..)))).)))))))))(((....)))...)))))..))))). ( -45.10)
>DroWil_CAF1 170128 120 + 1
UCCUAGCGCAACCCAUCAAGAUCAAAGAGGGUCGCAAGCCCACCAAUGUGGGUGCCAAGGUGCUCAUACCCGAGACCUAUGGCGGUUAUUUUGAGUUACUCAGCGAGGAUGGUCGUUCGA
((((.((((.((((.((.........)))))).))..((((((....))))))((((((((.(((......))))))).))))........((((...)))))).))))........... ( -40.50)
>DroMoj_CAF1 163543 120 + 1
UACUGGCGCAGCCCAUCAAGAUCAAAGAGGGACGCAAGCCCACCAAUGUGGGCGCUAAGGUGCUCAUACCGGAGACCUAUAACGGCUACUUCGAGCUGCUUAGCGAGGAUGGCCGUUCGA
...((((((..(((.((.........)))))..))..((((((....))))))))))((((.(((......)))))))..((((((((.(((..(((....)))..)))))))))))... ( -46.20)
>DroAna_CAF1 115043 120 + 1
UCCUGGCCCAGCCGAUCAAGAUCAAGGAGGGUCGCAAGCCCACCAACGUGGGCGCCAAGGUGCUCAUCCCAGAAACCUACGGCGGCUACUUCGAGCUACUCAGCGAAGAUGGCCGCUCCA
..((((.......(((....)))..((.(((.(....)))).))...((((((((....)))))))).))))........((((((((((((..(((....))))))).))))))))... ( -46.70)
>consensus
UACUGGCGCAGCCCAUCAAGAUCAAAGAGGGUCGCAAGCCCACCAAUGUGGGCGCCAAGGUGCUCAUACCGGAGACCUACGGCGGCUACUUCGAGCUGCUCAGCGAGGAUGGACGCUCCA
...((((...((((.((.........)))))).....((((((....))))))))))((((.(((......)))))))..((((((((((((..(((....))))))).))))))))... (-37.66 = -37.00 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:37 2006