Locus 2520

Sequence ID 3L_DroMel_CAF1
Location 7,073,929 – 7,074,024
Length 95
Max. P 0.669587
window3914 window3915

overview

Window 4

Location 7,073,929 – 7,074,024
Length 95
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 82.20
Mean single sequence MFE -34.63
Consensus MFE -22.46
Energy contribution -22.77
Covariance contribution 0.31
Combinations/Pair 1.10
Mean z-score -2.01
Structure conservation index 0.65
SVM decision value 0.29
SVM RNA-class probability 0.669587
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7073929 95 + 23771897
CGGCUUUGGCCAAAUUUGGCGGCU-----GGCGAAGCCGAUUACCUUGGCCCGACUUGUCAG------------------CAGGUGAAAUU-UUUAUACGCCCGCCUAAUUUGUUUGCU
.(((....)))(((((.(((((((-----(((((.(((((.....))))).....)))))))------------------).((((.....-......)))))))).)))))....... ( -32.30)
>DroSec_CAF1 86455 95 + 1
CGGCUUUGGCCAAAUUUGGCGGCU-----GGCAAAGCCGAUUACCUUGGCCCGACUUGUCAG------------------CAGGUGAAAUU-UUUAUACGCCCGCCUAAUUUGUUUGCU
.(((....)))(((((.(((((((-----(((((.(((((.....))))).....)))))))------------------).((((.....-......)))))))).)))))....... ( -32.60)
>DroSim_CAF1 119147 95 + 1
CGGCUUUGGCCAAAUUUGGCGGCU-----GGCAAAGCCGAUUACCUUGGCCCGACUUGUCAG------------------CAGGUGAAAUU-UUUAUACGCCCGCCUAAUUUGUUUGCU
.(((....)))(((((.(((((((-----(((((.(((((.....))))).....)))))))------------------).((((.....-......)))))))).)))))....... ( -32.60)
>DroEre_CAF1 102664 95 + 1
CGGCUUUGGCCAAAUUUGGCGGCU-----GGCGAAGCCGAUUACCUUGGCCAGAGUUGUCAG------------------CAGGUGAAAUU-UGUAUACGCCCGCCUAAUUUGUUUGCU
(((((((((((((......(((((-----.....)))))......)))))))))))))..((------------------((((..((.(.-.((........))..).))..)))))) ( -35.00)
>DroYak_CAF1 101473 100 + 1
CGGCUUUGGCCAAAUUUGGCGGCUGAUUUGGCAAAGCCGAUUACCUUGGCCCGACUUGUCAG------------------CAGGUGAAAUU-UGUAUGCGCCCGCCUAAUUUGUUUGCU
.(((....)))(((((.((((((((((((((....(((((.....)))))))))...)))))------------------).((((.....-......)))))))).)))))....... ( -32.50)
>DroAna_CAF1 102450 109 + 1
UGG-UCGGGCCAAACUUGGGGG---------CAGAGUCACUUGCCUUGGCCUGCCGUGCCAGCUUGCCAGCUUGCCAGCGCAGGUGAAAUUUUUUAUACGCCCGCCUUGUUUGUCUCUC
...-..(((.(((((..(((((---------(....((((((((.(((((..((.(.((......))).))..))))).))))))))((....))....)))).))..))))).))).. ( -42.80)
>consensus
CGGCUUUGGCCAAAUUUGGCGGCU_____GGCAAAGCCGAUUACCUUGGCCCGACUUGUCAG__________________CAGGUGAAAUU_UUUAUACGCCCGCCUAAUUUGUUUGCU
.(((...((((((..(((((.(((.....)))...))))).....))))))...............................((((............)))).)))............. (-22.46 = -22.77 +   0.31)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 7,073,929 – 7,074,024
Length 95
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 82.20
Mean single sequence MFE -29.99
Consensus MFE -20.63
Energy contribution -21.47
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.69
SVM decision value 0.11
SVM RNA-class probability 0.586815
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7073929 95 - 23771897
AGCAAACAAAUUAGGCGGGCGUAUAAA-AAUUUCACCUG------------------CUGACAAGUCGGGCCAAGGUAAUCGGCUUCGCC-----AGCCGCCAAAUUUGGCCAAAGCCG
.((..........((((((.(......-.....).))))------------------)).........(((((((.....(((((.....-----))))).....)))))))...)).. ( -28.70)
>DroSec_CAF1 86455 95 - 1
AGCAAACAAAUUAGGCGGGCGUAUAAA-AAUUUCACCUG------------------CUGACAAGUCGGGCCAAGGUAAUCGGCUUUGCC-----AGCCGCCAAAUUUGGCCAAAGCCG
.((..........((((((.(......-.....).))))------------------)).........(((((((.....(((((.....-----))))).....)))))))...)).. ( -28.70)
>DroSim_CAF1 119147 95 - 1
AGCAAACAAAUUAGGCGGGCGUAUAAA-AAUUUCACCUG------------------CUGACAAGUCGGGCCAAGGUAAUCGGCUUUGCC-----AGCCGCCAAAUUUGGCCAAAGCCG
.((..........((((((.(......-.....).))))------------------)).........(((((((.....(((((.....-----))))).....)))))))...)).. ( -28.70)
>DroEre_CAF1 102664 95 - 1
AGCAAACAAAUUAGGCGGGCGUAUACA-AAUUUCACCUG------------------CUGACAACUCUGGCCAAGGUAAUCGGCUUCGCC-----AGCCGCCAAAUUUGGCCAAAGCCG
.((..........((((((.(......-.....).))))------------------))........((((((((.....(((((.....-----))))).....))))))))..)).. ( -29.50)
>DroYak_CAF1 101473 100 - 1
AGCAAACAAAUUAGGCGGGCGCAUACA-AAUUUCACCUG------------------CUGACAAGUCGGGCCAAGGUAAUCGGCUUUGCCAAAUCAGCCGCCAAAUUUGGCCAAAGCCG
.((..........((((((.(.(....-....)).))))------------------)).........(((((((.....(((((..........))))).....)))))))...)).. ( -27.00)
>DroAna_CAF1 102450 109 - 1
GAGAGACAAACAAGGCGGGCGUAUAAAAAAUUUCACCUGCGCUGGCAAGCUGGCAAGCUGGCACGGCAGGCCAAGGCAAGUGACUCUG---------CCCCCAAGUUUGGCCCGA-CCA
......(((((..((.(((((...........((((.(((..((((..((((((......)).))))..))))..))).))))...))---------)))))..)))))......-... ( -37.34)
>consensus
AGCAAACAAAUUAGGCGGGCGUAUAAA_AAUUUCACCUG__________________CUGACAAGUCGGGCCAAGGUAAUCGGCUUUGCC_____AGCCGCCAAAUUUGGCCAAAGCCG
.............((((((.(............).)))..............................(((((((.....(((((..........))))).....)))))))...))). (-20.63 = -21.47 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:45 2006