Locus 7294

Sequence ID 3L_DroMel_CAF1
Location 19,526,717 – 19,526,886
Length 169
Max. P 0.888475
window11852 window11853 window11854

overview

Window 2

Location 19,526,717 – 19,526,824
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.85
Mean single sequence MFE -24.62
Consensus MFE -19.83
Energy contribution -20.22
Covariance contribution 0.39
Combinations/Pair 1.18
Mean z-score -1.11
Structure conservation index 0.81
SVM decision value -0.01
SVM RNA-class probability 0.528241
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19526717 107 + 23771897
----------UUGAGUACGUCAAUCCGUA-AAUGGAUCUCUUGGCCGUAUCCAUAUCUAAGAUCAGCUGUUAAUUUUCACACUCCUCU--UUAUAGAGGAGCAAGAUACCCGGCUAAGUC
----------............(((((..-..)))))..((((((((((((................(((........)))(((((((--....)))))))...)))))..))))))).. ( -26.30)
>DroPse_CAF1 14540 119 + 1
CAUAUCGUAUCAUAUCAUAU-AAUUCUUAUAAGGGAUCCCUGUGCCGUAUCAAUAUCUAAGAUCAGCUGUUAAUUUUCACACUCCCCUCCAUAUAGCGGAGUCUGGGGCCCGGCUAAGUC
....................-....((((...(((.((((.(((....((.((((.((......)).)))).))...)))(((((.((......)).)))))..)))))))...)))).. ( -21.40)
>DroSec_CAF1 14772 107 + 1
----------UAGACCACGUCAAUCCGUA-AAUGGAUCUCUUGGCCGUAUCCAUAUCUAUGAUCAGCUGUUAAUUUUCACACUCCUCU--UUAUAGAGGAGCAAGAUACCCGGCUAAGUC
----------..(((...))).(((((..-..)))))..(((((((((((((((....)))....................(((((((--....)))))))...)))))..))))))).. ( -27.70)
>DroSim_CAF1 18341 107 + 1
----------UAGACCACGUCAAUCCGUA-AAUGGAUCUCUUGGCCGUAUCCAUAUCUAAGAUCAGCUGUUAAUUUUCACACUCCUCU--UUAUAGAGGAGCAAGAUACCCGGCUAAGUC
----------..(((...))).(((((..-..)))))..((((((((((((................(((........)))(((((((--....)))))))...)))))..))))))).. ( -27.10)
>DroEre_CAF1 17575 107 + 1
----------UAGACCGUAUCAAUCCGUA-AAUGGAUAUUUUGGCGGUAUCCAUAUCUAAGAUCAGCUGUUAAUUUUCACACUCCUCU--UUAUAGAGGAGCAAGGUACCCGACUAAGUC
----------......(((((.(((((..-..)))))...(((((((((((.........)))..))))))))........(((((((--....)))))))...)))))........... ( -23.80)
>DroPer_CAF1 14596 116 + 1
--UAUCAUAUCAUAU-GUAU-AAUUCUUAUAAGGGAUCCCUGUGCCGUAUCAAUAUCUAAGAUCAGCUGUUAAUUUUCACACUCCCCUCCAUAUAGCGGAGUCUGGGGCCCGGCUAAGUC
--.............-....-....((((...(((.((((.(((....((.((((.((......)).)))).))...)))(((((.((......)).)))))..)))))))...)))).. ( -21.40)
>consensus
__________UAGACCACAUCAAUCCGUA_AAUGGAUCUCUUGGCCGUAUCCAUAUCUAAGAUCAGCUGUUAAUUUUCACACUCCUCU__UUAUAGAGGAGCAAGAUACCCGGCUAAGUC
......................((((((...))))))..((((((((((((................(((........)))(((((((......)))))))...)))))..))))))).. (-19.83 = -20.22 +   0.39)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,526,717 – 19,526,824
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.85
Mean single sequence MFE -30.69
Consensus MFE -21.33
Energy contribution -21.83
Covariance contribution 0.50
Combinations/Pair 1.13
Mean z-score -1.72
Structure conservation index 0.70
SVM decision value 0.51
SVM RNA-class probability 0.765436
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19526717 107 - 23771897
GACUUAGCCGGGUAUCUUGCUCCUCUAUAA--AGAGGAGUGUGAAAAUUAACAGCUGAUCUUAGAUAUGGAUACGGCCAAGAGAUCCAUU-UACGGAUUGACGUACUCAA----------
.........(((((((((((((((((....--)))))))(((........)))((((((((.......)))).)))))))))(((((...-...)))))....)))))..---------- ( -31.00)
>DroPse_CAF1 14540 119 - 1
GACUUAGCCGGGCCCCAGACUCCGCUAUAUGGAGGGGAGUGUGAAAAUUAACAGCUGAUCUUAGAUAUUGAUACGGCACAGGGAUCCCUUAUAAGAAUU-AUAUGAUAUGAUACGAUAUG
..((((...((((((((.(((((.((......)).))))).))..........(((((((.........))).))))...)))..)))...)))).(((-(((...))))))........ ( -30.60)
>DroSec_CAF1 14772 107 - 1
GACUUAGCCGGGUAUCUUGCUCCUCUAUAA--AGAGGAGUGUGAAAAUUAACAGCUGAUCAUAGAUAUGGAUACGGCCAAGAGAUCCAUU-UACGGAUUGACGUGGUCUA----------
...........((((((.((((((((....--))))))))((((..............))))......))))))(((((...(((((...-...)))))....)))))..---------- ( -31.14)
>DroSim_CAF1 18341 107 - 1
GACUUAGCCGGGUAUCUUGCUCCUCUAUAA--AGAGGAGUGUGAAAAUUAACAGCUGAUCUUAGAUAUGGAUACGGCCAAGAGAUCCAUU-UACGGAUUGACGUGGUCUA----------
(((......((((.((((((((((((....--)))))))(((........)))((((((((.......)))).))))))))).))))...-((((......)))))))..---------- ( -32.90)
>DroEre_CAF1 17575 107 - 1
GACUUAGUCGGGUACCUUGCUCCUCUAUAA--AGAGGAGUGUGAAAAUUAACAGCUGAUCUUAGAUAUGGAUACCGCCAAAAUAUCCAUU-UACGGAUUGAUACGGUCUA----------
((((..(((.(((.....((((((((....--))))))))((........)).)))(((((.....(((((((.........))))))).-...))))))))..))))..---------- ( -27.10)
>DroPer_CAF1 14596 116 - 1
GACUUAGCCGGGCCCCAGACUCCGCUAUAUGGAGGGGAGUGUGAAAAUUAACAGCUGAUCUUAGAUAUUGAUACGGCACAGGGAUCCCUUAUAAGAAUU-AUAC-AUAUGAUAUGAUA--
..((((...((((((((.(((((.((......)).))))).))..........(((((((.........))).))))...)))..)))...)))).(((-((((-....).)))))).-- ( -31.40)
>consensus
GACUUAGCCGGGUACCUUGCUCCUCUAUAA__AGAGGAGUGUGAAAAUUAACAGCUGAUCUUAGAUAUGGAUACGGCCAAGAGAUCCAUU_UACGGAUUGACAUGGUCUA__________
.........((((.((((((((((((......)))))))).............(((((((.........))).)))).)))).))))................................. (-21.33 = -21.83 +   0.50)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,526,786 – 19,526,886
Length 100
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 88.67
Mean single sequence MFE -32.35
Consensus MFE -27.67
Energy contribution -28.00
Covariance contribution 0.33
Combinations/Pair 1.10
Mean z-score -2.14
Structure conservation index 0.86
SVM decision value 0.95
SVM RNA-class probability 0.888475
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19526786 100 - 23771897
GCCCGCA-AAUGCCAAGAGAAACUUGAUCAAGAGUUAAGAGGUCGGCCGAAAGUUGUCCAUCUGACUUAGCCGGGUAUCUUGCUCCUCUAUAA--AGAGGAGU
((((((.-.....((((.....)))).....((((((.((((.(((.(....)))).)).)))))))).).))))).....((((((((....--)))))))) ( -33.70)
>DroPse_CAF1 14619 103 - 1
GUCCGAAAAAUAUCAAGAGAAACUUGAUCAAGAGUUAAGAGGUCGGCAGAAAGUUUCGCAUCUGACUUAGCCGGGCCCCAGACUCCGCUAUAUGGAGGGGAGU
(((((......((((((.....)))))).....((((((.((...((.((.....))))..))..))))))))))).....(((((.((......)).))))) ( -27.40)
>DroSec_CAF1 14841 100 - 1
GCCCGCA-AAUGCCAAGAGAAACUUGAUCAAGAGUUAAGAGGUCGGCCGAAAGUUGCCCAUCUGACUUAGCCGGGUAUCUUGCUCCUCUAUAA--AGAGGAGU
(((((..-.....((((.....)))).......((((((((((.((((....)..))).))))..))))))))))).....((((((((....--)))))))) ( -33.80)
>DroSim_CAF1 18410 100 - 1
GCCCGCA-AAUGCCAAGAGAAACUUGAUCAAGAGUUAGGAGGUCGGCCGAAAGUUGCCCAUCUGACUUAGCCGGGUAUCUUGCUCCUCUAUAA--AGAGGAGU
((((((.-.....((((.....)))).....(((((((..((.(((.(....)))).))..))))))).).))))).....((((((((....--)))))))) ( -36.20)
>DroEre_CAF1 17644 100 - 1
GCCCGCA-AAUAUCAAGAGAAACUUGAUCAAGAGUUAAGAGGUCGGCCGAAAGUUGUCCAUCUGACUUAGUCGGGUACCUUGCUCCUCUAUAA--AGAGGAGU
((((((.-...((((((.....))))))...((((((.((((.(((.(....)))).)).)))))))).).))))).....((((((((....--)))))))) ( -35.60)
>DroPer_CAF1 14672 103 - 1
GUCCGAAAAAUAUCAAGAGAAACUUGAUCAAGAGUUAAGAGGUCGGCAGAAAGUUUCGCAUCUGACUUAGCCGGGCCCCAGACUCCGCUAUAUGGAGGGGAGU
(((((......((((((.....)))))).....((((((.((...((.((.....))))..))..))))))))))).....(((((.((......)).))))) ( -27.40)
>consensus
GCCCGCA_AAUACCAAGAGAAACUUGAUCAAGAGUUAAGAGGUCGGCCGAAAGUUGCCCAUCUGACUUAGCCGGGUACCUUGCUCCUCUAUAA__AGAGGAGU
(((((........((((.....)))).....((((((.((((.((((.....)))).)).))))))))...))))).....((((((((......)))))))) (-27.67 = -28.00 +   0.33)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:18 2006