Locus 7408

Sequence ID X_DroMel_CAF1
Location 18,474,621 – 18,474,712
Length 91
Max. P 0.994029
window12143 window12144

overview

Window 3

Location 18,474,621 – 18,474,712
Length 91
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 73.14
Mean single sequence MFE -30.53
Consensus MFE -16.75
Energy contribution -18.18
Covariance contribution 1.43
Combinations/Pair 1.09
Mean z-score -2.52
Structure conservation index 0.55
SVM decision value 2.44
SVM RNA-class probability 0.994029
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18474621 91 + 22224390
UGAUCUGG------------AAAGCAAAUGCC-----------CAGAUACAUAAAUGUAUCUGGAAGAGUCGGCCGUCCGGCCGGCCGCA-AACAAUGCUGGGAUUGAGAGUUU--G
.(((((..------------..((((..((((-----------((((((((....)))))))))..(.(((((((....)))))))))))-.....)))).)))))........--. ( -35.10)
>DroPse_CAF1 6490 95 + 1
GCAUCUCGUGCAGAGAGAGAGAAAGAGAU---------------CCAUGCAUAAAUGUAACUGGAGGAAUCGUC------GCUGGGUGCAAAACAAUGCUGGGAUUGAAACCUU-GG
...((((.....))))..(((.....(((---------------((..((((...((((.(..(.((.....))------.)..).)))).....))))..))))).....)))-.. ( -19.60)
>DroSec_CAF1 3321 86 + 1
UGAUCUGG------------AAAGCAAAUGCC-----------CAGAUACAUAAAUGUAUCUGGAGGAGUCGGCCGCCCAGCCGGCCGGA-AACAAUGCUGGGAUUGAGA-------
.(((((..------------..((((.....(-----------((((((((....))))))))).(...(((((((......))))))).-..)..)))).)))))....------- ( -33.00)
>DroSim_CAF1 2448 89 + 1
UGAUCUGG------------AAAGCAAAUGCC-----------CAGAUACAUAAAUGUAUCUGGAGGAGUCGGCCGCCCGGCCGGCCGCA-AACAAUGCUGGGAUUGAGAGUU----
.(((((..------------..((((..((((-----------((((((((....)))))))))..(.(((((((....)))))))))))-.....)))).))))).......---- ( -34.90)
>DroEre_CAF1 3939 90 + 1
UGAUCUGG------------AAAGCAAAUGCCGGUGACAUGCACAGAUACAUAAAUGUAUCUGGAGGAGUCGG--------CCGGCCGCA-AACAAUGCUGGGAUUGAGAG------
.(((((.(------------.........(((((((((.....((((((((....)))))))).....))).)--------))))).(((-.....)))).))))).....------ ( -29.70)
>DroYak_CAF1 3354 96 + 1
UGAUCUGG------------AAACCAAAUGCCGGUGCCAUGCACAGAUACAUAAAUGUAUCUGGAGGAGUCGG--------CCGGCCGCA-AACAAUGCUGGGAUUGAGAGUUUUAG
...(((.(------------(..(((...(((((((((...(.((((((((....)))))))))..).))..)--------))))).(((-.....))))))..)).)))....... ( -30.90)
>consensus
UGAUCUGG____________AAAGCAAAUGCC___________CAGAUACAUAAAUGUAUCUGGAGGAGUCGGC______GCCGGCCGCA_AACAAUGCUGGGAUUGAGAGUU____
.(((((.....................................((((((((....)))))))).....(((((((....))))))).(((......)))..)))))........... (-16.75 = -18.18 +   1.43)

alignment

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secondary structure

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dotplot

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Window 4

Location 18,474,621 – 18,474,712
Length 91
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 73.14
Mean single sequence MFE -26.08
Consensus MFE -12.34
Energy contribution -13.91
Covariance contribution 1.57
Combinations/Pair 1.13
Mean z-score -2.40
Structure conservation index 0.47
SVM decision value 1.95
SVM RNA-class probability 0.983489
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18474621 91 - 22224390
C--AAACUCUCAAUCCCAGCAUUGUU-UGCGGCCGGCCGGACGGCCGACUCUUCCAGAUACAUUUAUGUAUCUG-----------GGCAUUUGCUUU------------CCAGAUCA
.--..............((((.(((.-..((((((......))))))......(((((((((....))))))))-----------))))..))))..------------........ ( -30.60)
>DroPse_CAF1 6490 95 - 1
CC-AAGGUUUCAAUCCCAGCAUUGUUUUGCACCCAGC------GACGAUUCCUCCAGUUACAUUUAUGCAUGG---------------AUCUCUUUCUCUCUCUCUGCACGAGAUGC
..-..((........)).(((((....((((...((.------((.((....((((((.........)).)))---------------)......)))).))...))))...))))) ( -13.90)
>DroSec_CAF1 3321 86 - 1
-------UCUCAAUCCCAGCAUUGUU-UCCGGCCGGCUGGGCGGCCGACUCCUCCAGAUACAUUUAUGUAUCUG-----------GGCAUUUGCUUU------------CCAGAUCA
-------..........((((.(((.-..((((((......))))))......(((((((((....))))))))-----------))))..))))..------------........ ( -29.70)
>DroSim_CAF1 2448 89 - 1
----AACUCUCAAUCCCAGCAUUGUU-UGCGGCCGGCCGGGCGGCCGACUCCUCCAGAUACAUUUAUGUAUCUG-----------GGCAUUUGCUUU------------CCAGAUCA
----.............((((.....-(((((.(((((....)))))...)).(((((((((....))))))))-----------))))..))))..------------........ ( -30.00)
>DroEre_CAF1 3939 90 - 1
------CUCUCAAUCCCAGCAUUGUU-UGCGGCCGG--------CCGACUCCUCCAGAUACAUUUAUGUAUCUGUGCAUGUCACCGGCAUUUGCUUU------------CCAGAUCA
------............(((.....-))).(((((--------..(((.....((((((((....)))))))).....))).)))))(((((....------------.))))).. ( -26.20)
>DroYak_CAF1 3354 96 - 1
CUAAAACUCUCAAUCCCAGCAUUGUU-UGCGGCCGG--------CCGACUCCUCCAGAUACAUUUAUGUAUCUGUGCAUGGCACCGGCAUUUGGUUU------------CCAGAUCA
.......(((..(..((((((.....-))).(((((--------..........((((((((....))))))))(((...))))))))...)))..)------------..)))... ( -26.10)
>consensus
____AACUCUCAAUCCCAGCAUUGUU_UGCGGCCGGC______GCCGACUCCUCCAGAUACAUUUAUGUAUCUG___________GGCAUUUGCUUU____________CCAGAUCA
..................(((......))).(((((((....))))........((((((((....))))))))...........)))(((((.................))))).. (-12.34 = -13.91 +   1.57)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:08 2006