Locus 1866

Sequence ID 2L_DroMel_CAF1
Location 5,122,735 – 5,122,855
Length 120
Max. P 0.995931
window3004 window3005

overview

Window 4

Location 5,122,735 – 5,122,855
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 87.89
Mean single sequence MFE -40.35
Consensus MFE -36.99
Energy contribution -35.83
Covariance contribution -1.16
Combinations/Pair 1.36
Mean z-score -2.69
Structure conservation index 0.92
SVM decision value 2.63
SVM RNA-class probability 0.995931
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5122735 120 + 22407834
CAUCAAGGCGAACCUGGUCAAUUUGGCUGAGCUGAAGAAGACCAGCAACCGUCAGCGUUUGGAGACCGCUUUCGAUGUGGCCGAAAGCAAAUUGGGCAUUGCCAAGCUCCUGGACGCUGA
......((((...((((((..((..((...))..))...))))))....))))(((((((((((...(((((((.......)))))))...((((......)))).)))).))))))).. ( -45.00)
>DroGri_CAF1 30893 120 + 1
AAUCAAAGCGAAUCUGGUCAAUUUAGCUGAGCUAAAGAAGGCCAGCAAUCGUCAGCGUUUAGAGACUGCUUUCGAUGUGGCCGAAAACAAAUUGGGCAUUGCCAAACUUUUAGACGCUGA
.......((((..((((((..((((((...))))))...))))))...))))((((((((((((..((.(((((.......))))).))..((((......))))..)))))))))))). ( -38.10)
>DroWil_CAF1 5542 120 + 1
CAUUAAAGCGAAUUUGGUUAAUUUAGCUGAGCUAAAGAAGGCCAGCAAUCGUCAACGUUUGGAAACUGCUUUCGAUGUGGCCGAAAGUAAAUUAGGUAUUGCCAAACUUUUAGAUGCCGA
.............(((((..(((((((((.(((......)))))))..........((((((..((((((((((.......)))))))......)))....))))))...)))))))))) ( -28.20)
>DroMoj_CAF1 58790 120 + 1
AAUUAAAGCGAAUCUGGUUAAUUUAGCUGAGCUAAAGAAGACCAGCAAUCGUCAGCGUUUGGAAACAGCUUUCGAUGUGGCCGAAAGCAAAUUGGGCAUUGCCAAAAUUUUGGACGCUGA
.......((((..((((((..((((((...))))))...))))))...))))(((((((..(((...(((((((.......)))))))...((((......))))..)))..))))))). ( -43.80)
>DroAna_CAF1 6667 120 + 1
CAUCAAGGCGAACCUGGUCAACUUGGCUGAGUUGAAGAAGACCAGCAACCGUCAGCGAUUGGAGACUGCUUUCGAUGUGGCCGAGAGCAAGCUGGGCAUUGCCAAGCUCCUAGACGCUGA
......((((...((((((..(((.(......).)))..))))))....))))((((.((((.((.((((((((.......)))))))).(((.(((...))).))))))))).)))).. ( -40.90)
>DroPer_CAF1 8772 120 + 1
CAUAAAAGCGAAUCUGGUCAAUUUAGCAGAGCUAAAGAAGACCAGCAAUCGUCAGCGUUUGGAGACAGCUUUCGAUGUGGCCGAAAGCAAGUUGGGCAUUGCCAAACUAUUGGACGCUGA
.......((((..((((((..((((((...))))))...))))))...))))(((((((..(.....(((((((.......))))))).((((.(((...))).)))).)..))))))). ( -46.10)
>consensus
CAUCAAAGCGAAUCUGGUCAAUUUAGCUGAGCUAAAGAAGACCAGCAAUCGUCAGCGUUUGGAGACUGCUUUCGAUGUGGCCGAAAGCAAAUUGGGCAUUGCCAAACUUUUAGACGCUGA
.......((((..((((((..((((((...))))))...))))))...))))((((((((((.....(((((((.......)))))))......(((...)))......)))))))))). (-36.99 = -35.83 +  -1.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 5,122,735 – 5,122,855
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 87.89
Mean single sequence MFE -35.17
Consensus MFE -29.91
Energy contribution -31.58
Covariance contribution 1.67
Combinations/Pair 1.21
Mean z-score -2.12
Structure conservation index 0.85
SVM decision value 0.83
SVM RNA-class probability 0.861398
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5122735 120 - 22407834
UCAGCGUCCAGGAGCUUGGCAAUGCCCAAUUUGCUUUCGGCCACAUCGAAAGCGGUCUCCAAACGCUGACGGUUGCUGGUCUUCUUCAGCUCAGCCAAAUUGACCAGGUUCGCCUUGAUG
(((((((...((((((.(((...)))......((((((((.....)))))))))).))))..))))))).(((((((((......)))))..)))).......(.(((....))).)... ( -40.40)
>DroGri_CAF1 30893 120 - 1
UCAGCGUCUAAAAGUUUGGCAAUGCCCAAUUUGUUUUCGGCCACAUCGAAAGCAGUCUCUAAACGCUGACGAUUGCUGGCCUUCUUUAGCUCAGCUAAAUUGACCAGAUUCGCUUUGAUU
(((((((.((.(((((.(((...))).)))))((((((((.....))))))))......)).)))))))(((...((((.(...((((((...))))))..).))))..)))........ ( -33.80)
>DroWil_CAF1 5542 120 - 1
UCGGCAUCUAAAAGUUUGGCAAUACCUAAUUUACUUUCGGCCACAUCGAAAGCAGUUUCCAAACGUUGACGAUUGCUGGCCUUCUUUAGCUCAGCUAAAUUAACCAAAUUCGCUUUAAUG
............(((((((...................((((((((((..(((.(((....))))))..))).)).)))))...((((((...))))))....))))))).......... ( -23.10)
>DroMoj_CAF1 58790 120 - 1
UCAGCGUCCAAAAUUUUGGCAAUGCCCAAUUUGCUUUCGGCCACAUCGAAAGCUGUUUCCAAACGCUGACGAUUGCUGGUCUUCUUUAGCUCAGCUAAAUUAACCAGAUUCGCUUUAAUU
(((((((...(((((..(((...))).)))))((((((((.....)))))))).........)))))))(((...(((((....((((((...))))))...)))))..)))........ ( -34.50)
>DroAna_CAF1 6667 120 - 1
UCAGCGUCUAGGAGCUUGGCAAUGCCCAGCUUGCUCUCGGCCACAUCGAAAGCAGUCUCCAAUCGCUGACGGUUGCUGGUCUUCUUCAACUCAGCCAAGUUGACCAGGUUCGCCUUGAUG
((((((....((((((.(((...))).)))(((((.((((.....)))).)))))..)))...)))))).(((..((((((..(((..........)))..))))))....)))...... ( -37.90)
>DroPer_CAF1 8772 120 - 1
UCAGCGUCCAAUAGUUUGGCAAUGCCCAACUUGCUUUCGGCCACAUCGAAAGCUGUCUCCAAACGCUGACGAUUGCUGGUCUUCUUUAGCUCUGCUAAAUUGACCAGAUUCGCUUUUAUG
(((((((.....((((.(((...))).)))).((((((((.....)))))))).........)))))))(((...((((((...((((((...))))))..))))))..)))........ ( -41.30)
>consensus
UCAGCGUCCAAAAGUUUGGCAAUGCCCAAUUUGCUUUCGGCCACAUCGAAAGCAGUCUCCAAACGCUGACGAUUGCUGGUCUUCUUUAGCUCAGCUAAAUUGACCAGAUUCGCUUUGAUG
(((((((....(((((.(((...))).)))))((((((((.....)))))))).........)))))))(((...((((((...((((((...))))))..))))))..)))........ (-29.91 = -31.58 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:20 2006