Locus 5299

Sequence ID 2R_DroMel_CAF1
Location 17,200,942 – 17,201,062
Length 120
Max. P 0.550258
window8470

overview

Window 0

Location 17,200,942 – 17,201,062
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.83
Mean single sequence MFE -46.57
Consensus MFE -28.25
Energy contribution -27.12
Covariance contribution -1.13
Combinations/Pair 1.42
Mean z-score -1.85
Structure conservation index 0.61
SVM decision value 0.03
SVM RNA-class probability 0.550258
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17200942 120 - 20766785
AAAGGCGAAGUGGGCAGAGAGAUGUAUAUCGUGAAACUGGGACAGGUUCAAGUGAUGGGUGGUCCUAGUAGCGAUGUAGUGCUGGCCACUCUAACCGAAGGUUCCGUGUUCGGGGAGAUC
.........((((.(((.......((((((((...((((((((..(..((.....))..).)))))))).))))))))...))).))))(((..(((((.(.....).)))))..))).. ( -43.70)
>DroVir_CAF1 4069 120 - 1
AAGGGCGAAGUGGGCCGCGAGAUGUACAUCGUUAAGCUAGGGCAGGUGCAAGUCAUGGGCGGACCCGGCAGCGAUGUUGUCCUGGCCACACUAACCGAGGGCUCCGUUUUCGGAGAAAUC
..((....(((((((((.(.((((.((((((((..(((.((((..((.((.....)).)).).)))))))))))))))))))))))).))))..))((...(((((....)))))...)) ( -45.80)
>DroGri_CAF1 1110 120 - 1
AAGGGCGAAGUGGGUCGGGAGAUGUACAUUGUUAAGCUGGGCCAGGUGCAGGUGAUGGGUGGACCCGGCAGCGAUGUUGUCCUCGCCACUCUCACUGAGGGUUCCGUCUUUGGUGAGAUU
.........((((..((((.((((.((((((((..(((((((((..(.((.....)).)))).))))))))))))))))))))))))))((((((..((((.....))))..)))))).. ( -47.80)
>DroWil_CAF1 621 120 - 1
AAGGGUGAAGUGGGUCGUGAAAUGUAUAUUGUUAAACUGGGUCAAGUCCAGGUGAUGGGUGGACCCAAUAGUGAUGUUGUCUUGGCCACUCUCACCGAGGGAUCCGUCUUCGGAGAGAUC
...((((((((((.(((.((.....((((..(((...((((((...((((.....))))..)))))).)))..))))..)).)))))))).)))))....((((..((....))..)))) ( -42.00)
>DroMoj_CAF1 725 120 - 1
AAGGGUGAGGUGGGUCGCGAGAUGUACAUUGUGAAGCUGGGACAGGUCCAGGUCAUGGGCGGCCCCAGCAGCGAUGUUGUCCUGGCCACCCUCACCGAGGGCUCCGUCUUCGGCGAGAUC
...(((((((..(((((.(.((((.(((((((...((((((.(..(((((.....))))).).)))))).)))))))))))))))))..)))))))((((((...))))))......... ( -56.00)
>DroAna_CAF1 638 120 - 1
AAAGGAGAGGUGGGACGAGAGAUGUACAUCGUGAAGCUGGGCCAAGUGCAGGUAAUGGGUGGCCCCGGCAGCGACGUGGUUCUAGCCACUCUCACCGAAGGCUCUGUUUUCGGGGAAAUC
....(((((...((...((((...(((.((((...(((((((((.((.......))...))).)))))).)))).))).))))..)).))))).((((((((...))))))))....... ( -44.10)
>consensus
AAGGGCGAAGUGGGUCGAGAGAUGUACAUCGUGAAGCUGGGACAGGUGCAGGUGAUGGGUGGACCCAGCAGCGAUGUUGUCCUGGCCACUCUCACCGAGGGCUCCGUCUUCGGAGAGAUC
........(((((.(....((....(((((((...((((((.(..((.((.....)).)).).)))))).)))))))....))).)))))(((.(((((((.....))))))).)))... (-28.25 = -27.12 +  -1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:33 2006