Locus 3267

Sequence ID 2L_DroMel_CAF1
Location 9,450,462 – 9,450,582
Length 120
Max. P 0.891562
window5186 window5187 window5188

overview

Window 6

Location 9,450,462 – 9,450,559
Length 97
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 83.00
Mean single sequence MFE -23.20
Consensus MFE -14.69
Energy contribution -15.38
Covariance contribution 0.69
Combinations/Pair 1.05
Mean z-score -2.32
Structure conservation index 0.63
SVM decision value 0.21
SVM RNA-class probability 0.633859
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9450462 97 + 22407834
CAAGUCAAAACGAGUUUAUUGUGGUGCAAAAUCAGAUUUGCAUAUA--CAUAUGCAAUUCUUUUACAGCUUUACGCUAGUUGUUGCUGCUUUGACAUUU
...((((((((((.....)))).((((((....(((.(((((((..--..))))))).)))....(((((.......))))))))).)))))))).... ( -22.80)
>DroSec_CAF1 14977 93 + 1
CAAGUUAAAACGAGUUUUUUGUUGUGCAAAAUCAGAUUUGCAUAU------AUGUAAUUCUUGUGCAGCUUUACGCUCGUUGUUGCUGCUUUGACAUUU
..(((...(((((((.....((((..((.....(((.(((((...------.))))).)))))..)))).....)))))))...)))............ ( -25.20)
>DroSim_CAF1 14991 93 + 1
CAAGUCAAAACGAGUUUUUUGUUGUGCAAAAUCAGAUUUGCAUAU------AUGUAAUUCUUGUGCAGCUUUACGCUAGUUGUUGCUGCUUUGACAUUU
...(((((((((((..((....((((((((......)))))))).------....))..)))))(((((...((....))....))))))))))).... ( -27.40)
>DroEre_CAF1 15263 96 + 1
CAAGUCAAAACGAGUUUUUUGUUGUGCAAAA-CAGAUUUGCAUAUA--AGUAUGUAAUUCUUUCACAGCUCUACGGUUGUUGUUGCUGCUUUGACAUUU
...((((((((((........))))(((.((-((((.(((((((..--..))))))).))....((((((....))))))))))..))))))))).... ( -22.30)
>DroYak_CAF1 15318 99 + 1
CAAGUCAAAACGGGUUUUUUGUUGUGCAAAAUCAGAUCUGCAUAUACUCGUAUGUAAUUCUUUCACAGCUUUACGGUUGUUGUUGCUGCUUUGACAUUU
...((((((.(((...(((((.....)))))..(((..(((((((....)))))))..)))...((((((....)))))).....))).)))))).... ( -21.90)
>DroAna_CAF1 14509 83 + 1
CAGGUCAAAACUUGUUUUUUGUUGUGCAAAACACAAUUUGCAUAC----------AGUUCGCGGACAGGUU------UGUUGUUACUGCUUUGACAUUU
...((((((((((((((.((((.(((((((......)))))))))----------)).....)))))))))------)...((....))..)))).... ( -19.60)
>consensus
CAAGUCAAAACGAGUUUUUUGUUGUGCAAAAUCAGAUUUGCAUAU______AUGUAAUUCUUGUACAGCUUUACGCUUGUUGUUGCUGCUUUGACAUUU
...((((((.............((((((((......)))))))).....................((((...((....))....)))).)))))).... (-14.69 = -15.38 +   0.69)

alignment

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secondary structure

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Window 7

Location 9,450,462 – 9,450,559
Length 97
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 83.00
Mean single sequence MFE -19.05
Consensus MFE -15.76
Energy contribution -16.15
Covariance contribution 0.39
Combinations/Pair 1.15
Mean z-score -2.26
Structure conservation index 0.83
SVM decision value 0.97
SVM RNA-class probability 0.891562
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9450462 97 - 22407834
AAAUGUCAAAGCAGCAACAACUAGCGUAAAGCUGUAAAAGAAUUGCAUAUG--UAUAUGCAAAUCUGAUUUUGCACCACAAUAAACUCGUUUUGACUUG
....((((((((..........(((.....)))((((((((.(((((((..--..))))))).)))...)))))..............))))))))... ( -23.90)
>DroSec_CAF1 14977 93 - 1
AAAUGUCAAAGCAGCAACAACGAGCGUAAAGCUGCACAAGAAUUACAU------AUAUGCAAAUCUGAUUUUGCACAACAAAAAACUCGUUUUAACUUG
..................((((((.((((..((.....))..))))..------...((((((......))))))..........))))))........ ( -15.20)
>DroSim_CAF1 14991 93 - 1
AAAUGUCAAAGCAGCAACAACUAGCGUAAAGCUGCACAAGAAUUACAU------AUAUGCAAAUCUGAUUUUGCACAACAAAAAACUCGUUUUGACUUG
....((((((((.((........))((((..((.....))..))))..------...((((((......)))))).............))))))))... ( -20.00)
>DroEre_CAF1 15263 96 - 1
AAAUGUCAAAGCAGCAACAACAACCGUAGAGCUGUGAAAGAAUUACAUACU--UAUAUGCAAAUCUG-UUUUGCACAACAAAAAACUCGUUUUGACUUG
....((((((((.............((((..((.....))..)))).....--....((((((....-.)))))).............))))))))... ( -18.70)
>DroYak_CAF1 15318 99 - 1
AAAUGUCAAAGCAGCAACAACAACCGUAAAGCUGUGAAAGAAUUACAUACGAGUAUAUGCAGAUCUGAUUUUGCACAACAAAAAACCCGUUUUGACUUG
....((((((((..........((((((....(((((.....))))))))).))...((((((......)))))).............))))))))... ( -20.50)
>DroAna_CAF1 14509 83 - 1
AAAUGUCAAAGCAGUAACAACA------AACCUGUCCGCGAACU----------GUAUGCAAAUUGUGUUUUGCACAACAAAAAACAAGUUUUGACCUG
....((((((((.((.(((...------....)))..))....(----------((.((((((......))))))..)))........))))))))... ( -16.00)
>consensus
AAAUGUCAAAGCAGCAACAACAAGCGUAAAGCUGUAAAAGAAUUACAU______AUAUGCAAAUCUGAUUUUGCACAACAAAAAACUCGUUUUGACUUG
....((((((((.............((((..((.....))..))))...........((((((......)))))).............))))))))... (-15.76 = -16.15 +   0.39)

alignment

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secondary structure

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dotplot

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Window 8

Location 9,450,486 – 9,450,582
Length 96
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 79.30
Mean single sequence MFE -16.94
Consensus MFE -10.12
Energy contribution -9.93
Covariance contribution -0.19
Combinations/Pair 1.18
Mean z-score -1.73
Structure conservation index 0.60
SVM decision value 0.31
SVM RNA-class probability 0.684293
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9450486 96 - 22407834
-----AAAAAUGA---AUAUUA--UGUUUUUACAAAUGUCAAAGCAGCAACAACUAGCGUAAAGCUGUAAAAGAAUUGCAUAUG--UAUAUGCAAAUCUGAUUUUGCA
-----........---......--((((((.((....)).))))))((((....((((.....))))....(((.(((((((..--..))))))).)))....)))). ( -20.40)
>DroSec_CAF1 15001 92 - 1
-----AAAAAUGC---AUAUUA--UGUUUUUACAAAUGUCAAAGCAGCAACAACGAGCGUAAAGCUGCACAAGAAUUACAU------AUAUGCAAAUCUGAUUUUGCA
-----.....(((---((((.(--(((..((.....(((....(((((....((....))...))))))))..))..))))------))))))).............. ( -17.10)
>DroSim_CAF1 15015 92 - 1
-----AAAAAUGC---AUAUUA--UGUUUUCACAAAUGUCAAAGCAGCAACAACUAGCGUAAAGCUGCACAAGAAUUACAU------AUAUGCAAAUCUGAUUUUGCA
-----.....(((---((((.(--(((.(((((....))....(((((....((....))...)))))....)))..))))------))))))).............. ( -18.30)
>DroEre_CAF1 15287 95 - 1
-----AAAAAUGC---AUAUUA--UGGUUGUACAAAUGUCAAAGCAGCAACAACAACCGUAGAGCUGUGAAAGAAUUACAUACU--UAUAUGCAAAUCUG-UUUUGCA
-----.....(((---((((((--(((((((.....(((....)))......)))))))))(((.(((((.....)))))..))--))))))))......-....... ( -19.90)
>DroYak_CAF1 15342 98 - 1
-----AAAAAUGC---AUAUUA--UGGUUUUACAAAUGUCAAAGCAGCAACAACAACCGUAAAGCUGUGAAAGAAUUACAUACGAGUAUAUGCAGAUCUGAUUUUGCA
-----....((((---...(((--(((((.......(((....)))........))))))))...(((((.....))))).....)))).((((((......)))))) ( -16.36)
>DroAna_CAF1 14533 92 - 1
AAACAAAAAAUGCCAAAUAUUUUCCAUUUCCACAAAUGUCAAAGCAGUAACAACA------AACCUGUCCGCGAACU----------GUAUGCAAAUUGUGUUUUGCA
...................(((..(((((....)))))..)))(((((....(((------....)))......)))----------)).((((((......)))))) (  -9.60)
>consensus
_____AAAAAUGC___AUAUUA__UGUUUUUACAAAUGUCAAAGCAGCAACAACAAGCGUAAAGCUGUAAAAGAAUUACAU______AUAUGCAAAUCUGAUUUUGCA
...........................................(((((...............)))))......................((((((......)))))) (-10.12 =  -9.93 +  -0.19)

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 10:48:24 2006