Locus 709

Sequence ID 3L_DroMel_CAF1
Location 2,133,377 – 2,133,512
Length 135
Max. P 0.919020
window1085 window1086

overview

Window 5

Location 2,133,377 – 2,133,485
Length 108
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 80.59
Mean single sequence MFE -39.49
Consensus MFE -29.82
Energy contribution -30.83
Covariance contribution 1.01
Combinations/Pair 1.10
Mean z-score -1.90
Structure conservation index 0.76
SVM decision value 0.88
SVM RNA-class probability 0.872435
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2133377 108 + 23771897
UGGUGCCGGUG------CCGGUGCCCGUGCCCGUGGACAUGGCUGUGGACAUGGCCUGACUUGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCU
.((..(((...------.)))..))((((.(((..(......)..))).))))((((.........((((((((((((....))))))))))))........))))........ ( -45.13)
>DroGri_CAF1 180921 87 + 1
UGUUGCU------------GGUGCUGGUG---------------AUGUUCGUUGCCUGGCUCGGCGUUGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCU
....(((------------((((((..((---------------((((((...(((......)))...((((((((((....)))))))))))))).))))..)))).))))). ( -32.60)
>DroSec_CAF1 185434 102 + 1
UGGUGCC------------GGUGCCCGUUCCCGUGGACAUGGCUGUGGACAUGGCCUGACUUGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCU
....((.------------.(((((..((((...((.((.((((((....)))))))).)).))))((((((((((((....)))))))))))).........)))).)..)). ( -36.50)
>DroEre_CAF1 190308 102 + 1
UGGUGCCG------------GUGCCCGUGCCCGUGGACAUGGCCGUGGACAUGGCCUGGCUUGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCU
.((.((((------------(...))).)))).(((((..((((((....)))))).(.(((.((.((((((((((((....))))))))))))....)).))).))))))... ( -44.20)
>DroYak_CAF1 183203 114 + 1
UGGUGCCGGUGCCGUUGCCGGUGCCCGUGCCCGUGGACAUGGCUGUGGACAUGGCCUGACUUGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCU
.((..(.((..(((....)))..)).)..))..(((((..((((((....))))))...(((.((.((((((((((((....))))))))))))....)).)))..)))))... ( -49.80)
>DroAna_CAF1 184621 84 + 1
UGGAGGU------------GGUGCCC------------------GUGGACAUGGCCUGGCUCGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCU
(((((((------------.(((((.------------------..)).))).))).(.(((((..((((((((((((....))))))))))))....))).)).).))))... ( -28.70)
>consensus
UGGUGCC____________GGUGCCCGUGCCCGUGGACAUGGCUGUGGACAUGGCCUGACUUGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCU
.((((((((........))))))))....................(((((...((((.........((((((((((((....))))))))))))........)))))))))... (-29.82 = -30.83 +   1.01)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,133,411 – 2,133,512
Length 101
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 76.89
Mean single sequence MFE -31.52
Consensus MFE -22.99
Energy contribution -23.13
Covariance contribution 0.14
Combinations/Pair 1.10
Mean z-score -1.55
Structure conservation index 0.73
SVM decision value 1.12
SVM RNA-class probability 0.919020
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2133411 101 + 23771897
GGCUGUGGACAUGGCCUGACUUGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCUGGGACUGC---UGAGAUUGCUGGGAUUGCU
((((((....))))))...((..(..((((((((((((....)))))))))))).(((((...(((((((.....)))).))---)..))))))..))...... ( -35.60)
>DroVir_CAF1 205185 87 + 1
--------UC---GCCUGGCUUGGCGUUGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCUGGGAUUGUGACUGAGAGUGU---G---ACU
--------..---.((..(((.((((((((((((((((....))))))))))...........)))))).)))..))...((.((.......))---.---)). ( -30.50)
>DroGri_CAF1 180938 94 + 1
----AUGUUCGUUGCCUGGCUCGGCGUUGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCUGCGACUGCGACUGUAACUGC---A---ACU
----......(((((..((((.((((((((((((((((....))))))))))...........)))))).)))))))))((((........)))---)---... ( -30.40)
>DroYak_CAF1 183243 83 + 1
GGCUGUGGACAUGGCCUGACUUGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCUGGGA---------------------CUGCU
((((((....))))))...(((.((.((((((((((((....))))))))))))....)).)))((((((.....)))---------------------).)). ( -31.20)
>DroMoj_CAF1 183937 90 + 1
--------UCGUGGCCUGGCUCGGCGUUGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCUGCGACUGCGAGUGCGAGUGC---G---ACU
--------..((.((((.((.(.(((((((((((((((....)))))))))............(((.....))).)))).))..).)).)).))---.---)). ( -30.90)
>DroAna_CAF1 184635 97 + 1
----GUGGACAUGGCCUGGCUCGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCUGGGACUGU---UGAGAUUGCUGCGACUGCU
----(..(.(..(((....(((((((((((((((((((....))))))))))...........(((.....)))..)))).)---))))...)))..).)..). ( -30.50)
>consensus
____GUGGACAUGGCCUGGCUCGGAGUCGGCGACGAUGAUGACAUUGUUGCUGAAUAAUUGAAGGCGUCUAGCUGGGACUGC___UGAGAGUGC___G___ACU
.............((((.........((((((((((((....))))))))))))........))))((((.....))))......................... (-22.99 = -23.13 +   0.14)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:07 2006