Locus 5022

Sequence ID 2R_DroMel_CAF1
Location 16,325,848 – 16,326,058
Length 210
Max. P 0.683768
window8030 window8031

overview

Window 0

Location 16,325,848 – 16,325,950
Length 102
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 85.67
Mean single sequence MFE -29.45
Consensus MFE -21.58
Energy contribution -22.07
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.39
Structure conservation index 0.73
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16325848 102 + 20766785
GUGCGUGGAAGUUUGUUGGUAUAGGUGUCGAGGA--GUCUGUGU--------GUGUUUGCU-UGGCCCGGCGGCAAAAGUCUGAUAAGCUGGUAGUUCGCAAAAAA---AAAAAA--A
.((((....(((((((..(......(((((.((.--(((...((--------......)).-.)))))..))))).....)..))))))).......)))).....---......--. ( -27.20)
>DroSec_CAF1 29024 109 + 1
GUGCGUGAAAGUUUGUUGGCAUAGGUGUCGGGGA--GUCUGUGU----GUGUGUGUUUGCUUUCGCCCGGCGGCAAACGUCUGAUAAGCUGGUAGUUCGCAAAAAA---AAAAAAUGA
.((((....(((((((..((...(.(((((((((--((..(..(----....)..)..))))...))))))).)....).)..))))))).......)))).....---......... ( -27.50)
>DroSim_CAF1 29506 114 + 1
GUGCGUGAAAGUUUGUUGGUAUAGGUGUCGGGGA--GUAUGUGU--GUGUGUGUGUUUGCUUUCGCCCGGCGGCAAAAGUCUGAUAAGCUGGUAGUUCGCAAAAAAAAAAAAAAAUGA
.((((....(((((((..(....(.(((((((((--(((.(..(--......)..).)))))...))))))).)......)..))))))).......))))................. ( -28.90)
>DroYak_CAF1 29407 113 + 1
GUGCGUCAAAGUUUGUUGGUAUAGGUGUCGGAGAGAGUCGGUGUAUAAGUGUGUGUUUGCUU-GAGCCGGCGGCAAAAGUCUGAUAAGCUGGUAGUUCGCACAAAA---AAAAGAA-A
(((((....(((((((..(....(.((((((...((((..(..(((....)))..)..))))-...)))))).)......)..))))))).......)))))....---.......-. ( -34.20)
>consensus
GUGCGUGAAAGUUUGUUGGUAUAGGUGUCGGGGA__GUCUGUGU____GUGUGUGUUUGCUUUCGCCCGGCGGCAAAAGUCUGAUAAGCUGGUAGUUCGCAAAAAA___AAAAAAU_A
.((((....(((((((..(....(.(((((((....((..(..(........)..)..)).....))))))).)......)..))))))).......))))................. (-21.58 = -22.07 +   0.50)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,325,950 – 16,326,058
Length 108
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.98
Mean single sequence MFE -23.95
Consensus MFE -18.41
Energy contribution -18.77
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.98
Structure conservation index 0.77
SVM decision value 0.31
SVM RNA-class probability 0.683768
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16325950 108 - 20766785
UACUCG-AACAUCCCCCU-----------UUAGAAGCCAAGGACAUGCAGGAUGUGAGAACUGCACUUAAAUGCAACUCCUGCAAUGUUUUCCUUACACUCGCUUCCAUUUUCCUAUUUU
......-...........-----------...(((((.((((((((((((((.((....))((((......))))..)))))).)))...)))))......))))).............. ( -21.70)
>DroSec_CAF1 29133 107 - 1
UACUCG-AACAUCCUCCU------------CAGAAGCCAAGGACAUGCAGGAUGUGAGAACUGCACUUAAAUGCAACUCCUGCAAUGUUUUCCUUGCACUCGCUUCCUUUUUCCUAUUUU
......-...........------------..((((((((((((((((((((.((....))((((......))))..)))))).)))...)))))).....))))).............. ( -25.20)
>DroSim_CAF1 29620 107 - 1
UACUCG-AACAUCCUCCU------------CAGAAGCCAAGGACAUGCAGGAUGUGAGAACUGCACUUAAAUGCAACUCCUGCAAUGUUUUCCUUGCACUCGCUUCCUUUUUCCUAUUUU
......-...........------------..((((((((((((((((((((.((....))((((......))))..)))))).)))...)))))).....))))).............. ( -25.20)
>DroEre_CAF1 28320 106 - 1
UACUCG-AACAUCCCCCU------------UUGAAGCCAAGGACAUGCAGGAUGUGAGAACUGCACUUAAAUGCAACUCCUGCAAUGUUUUCCUUACACCCGCUUCCCUUCCCCCUCU-C
......-...........------------..(((((.((((((((((((((.((....))((((......))))..)))))).)))...)))))......)))))............-. ( -21.50)
>DroYak_CAF1 29520 107 - 1
UACUCG-AACAUCCCCUU------------CUGAAGCCAAGGACAUGCAGGAUGUGAGAACUGCACUUAAAUGCAACUCCUGCAAUGUUUUCCUUACACUCGCUUCCGUUUCCCCUUUUC
......-...........------------..(((((.((((((((((((((.((....))((((......))))..)))))).)))...)))))......))))).............. ( -21.50)
>DroAna_CAF1 29856 114 - 1
UACUGGGAGCAGCCUCUUGCGCUCGUCCUGUGAAAGCCAAGGACAUGCAGGAUGUGAGAAGUGCACUUAAAUGCAACUCCUUCUAUGUUUUUCUUACAUACUCUUCUUUUUUUU------
..(((.((((.((.....))))))(((((((....))..)))))...))).((((((((((.(((......)))(((.........)))))))))))))...............------ ( -28.60)
>consensus
UACUCG_AACAUCCCCCU____________CAGAAGCCAAGGACAUGCAGGAUGUGAGAACUGCACUUAAAUGCAACUCCUGCAAUGUUUUCCUUACACUCGCUUCCUUUUUCCUAUUUU
................................(((((.((((((((((((((.((......((((......)))))))))))).)))...)))))......))))).............. (-18.41 = -18.77 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:35 2006