Locus 2598

Sequence ID 3L_DroMel_CAF1
Location 7,208,232 – 7,208,340
Length 108
Max. P 0.965511
window4064 window4065

overview

Window 4

Location 7,208,232 – 7,208,340
Length 108
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 81.52
Mean single sequence MFE -29.41
Consensus MFE -25.02
Energy contribution -24.47
Covariance contribution -0.55
Combinations/Pair 1.19
Mean z-score -2.17
Structure conservation index 0.85
SVM decision value 1.58
SVM RNA-class probability 0.965511
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7208232 108 + 23771897
AGUGGGUCUUUCACCAUA------UUUCUGUGACCUUU-CAUCUCGAUCUGCCCCACGUUUUGGGUCACUCUAGUUGGGCCGAAUCCAAUUAGGUGGCUGUUGUCCACUCAGUUU
((((((.(...((((((.------.....(((((((..-.....((..........))....))))))).(((((((((.....))))))))))))).))..)))))))...... ( -30.10)
>DroEre_CAF1 21671 111 + 1
AGUGGGUCUUUCUCCAUCUCCACUUUUCUGUGACCUUU-CAUCUUGAUCUUC--CAUGU-UGGGGUCACUUCAUUUGGGCCGUACCCAAAUAGUUGGCCGUUGUCCACUCAGUUU
((((((.(.....(((.((..........((((((((.-...(.((......--)).).-.))))))))...(((((((.....))))))))).))).....)))))))...... ( -27.80)
>DroYak_CAF1 18952 112 + 1
AGUGGCUCUUUCUCCAUCUCCCUGCUACUGUGACCUUUCCAUCUUGAUCUUC--CAUGU-UGGGGUCACUUUAUUUGGGCCAUACCCAAAUGGUUGGCCAUUGUCCACUCAGUUU
((((((.................))))))((((((((..(((..........--.))).-.))))))))........(((((.(((.....))))))))((((......)))).. ( -30.33)
>consensus
AGUGGGUCUUUCUCCAUCUCC___UUUCUGUGACCUUU_CAUCUUGAUCUUC__CAUGU_UGGGGUCACUUUAUUUGGGCCGUACCCAAAUAGUUGGCCGUUGUCCACUCAGUUU
((((((.(..(..(((.............(((((((..........................))))))).(((((((((.....))))))))).)))..)..)))))))...... (-25.02 = -24.47 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 7,208,232 – 7,208,340
Length 108
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 81.52
Mean single sequence MFE -28.65
Consensus MFE -23.01
Energy contribution -23.68
Covariance contribution 0.67
Combinations/Pair 1.08
Mean z-score -1.73
Structure conservation index 0.80
SVM decision value 0.59
SVM RNA-class probability 0.792315
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7208232 108 - 23771897
AAACUGAGUGGACAACAGCCACCUAAUUGGAUUCGGCCCAACUAGAGUGACCCAAAACGUGGGGCAGAUCGAGAUG-AAAGGUCACAGAAA------UAUGGUGAAAGACCCACU
......(((((......((((((.....))....((((((.((.((.((.((((.....)))).))..)).)).))-...)))).......------..)))).......))))) ( -24.92)
>DroEre_CAF1 21671 111 - 1
AAACUGAGUGGACAACGGCCAACUAUUUGGGUACGGCCCAAAUGAAGUGACCCCA-ACAUG--GAAGAUCAAGAUG-AAAGGUCACAGAAAAGUGGAGAUGGAGAAAGACCCACU
......(((((.......(((.(((((((((.....)))))))...((((((((.-....)--)....((.....)-)..))))))..........)).)))........))))) ( -28.86)
>DroYak_CAF1 18952 112 - 1
AAACUGAGUGGACAAUGGCCAACCAUUUGGGUAUGGCCCAAAUAAAGUGACCCCA-ACAUG--GAAGAUCAAGAUGGAAAGGUCACAGUAGCAGGGAGAUGGAGAAAGAGCCACU
......(((((.......(((.(((((((((.....)))))))...(((((((((-.(.((--......)).).)))...)))))).......))....)))........))))) ( -32.16)
>consensus
AAACUGAGUGGACAACGGCCAACUAUUUGGGUACGGCCCAAAUAAAGUGACCCCA_ACAUG__GAAGAUCAAGAUG_AAAGGUCACAGAAA___GGAGAUGGAGAAAGACCCACU
......(((((.......(((..((((((((.....))))))))..((((((.....(((.............)))....)))))).............)))........))))) (-23.01 = -23.68 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:05 2006