Locus 1393

Sequence ID 2L_DroMel_CAF1
Location 3,708,011 – 3,708,118
Length 107
Max. P 0.703457
window2271 window2272

overview

Window 1

Location 3,708,011 – 3,708,118
Length 107
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 76.28
Mean single sequence MFE -35.07
Consensus MFE -20.82
Energy contribution -21.85
Covariance contribution 1.03
Combinations/Pair 1.39
Mean z-score -1.55
Structure conservation index 0.59
SVM decision value 0.36
SVM RNA-class probability 0.703457
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3708011 107 + 22407834
CACCUGCUGCUUGGGUGCACU---GUGCAUAUUAGAGGCCGAAAUUGGUUUCGGCUUCAAUGUUUGCAAAUGAUUGGGUAGCUGCGCUGCAGCUC------CUGAUGUCUUCUUUU
(((((.......)))))((..---.((((.((..((((((((((....))))))))))...)).))))..))((..((.((((((...)))))))------)..)).......... ( -38.80)
>DroGri_CAF1 214910 101 + 1
CACUUGCUGUUUGGGUCCACU---GCGCGAACUGAAGUCCGUUACUUGUUUUGGCUUCAAUGUUUGCAAAUGAUUCGGCAGGCGAGCUGCCUC------------CGGUUUCUUCG
((.((((.(((((.((.....---)).)))))(((((.(((..(....)..))))))))......)))).))..((((.((((.....)))))------------)))........ ( -27.80)
>DroEre_CAF1 183684 107 + 1
CACCUGCUGCUUGGGUGCACU---GUGCAUAUUAGAGACCGAAAUUGGUUUCGGCUUCAAUAUUUGCAAAUGAUUGGGUAGCUGCGCUGCUGCUC------CUGAUGGCUUCGUUU
.....((((((..(...((..---.((((((((..((.((((((....))))))))..))))..))))..)).)..)))))).(((..(((((..------..).))))..))).. ( -31.90)
>DroYak_CAF1 184043 107 + 1
CACCUGCUGCUUGGGUGCACU---GUGCAUAUUAGAGGCCGAAAUUGGUUUCGGCUUCAAUGUUUGCAAAUGAUUGGGCAGCUGCGCUGCAGCUC------CUGUUGGCUUCUUUU
.....(((((...((((((((---((.((.((((((((((((((....))))))))))..((....))..)))))).)))).))))))))))).(------(....))........ ( -39.50)
>DroAna_CAF1 193730 98 + 1
CACCUGCUGUUUGGGUGCACU---GUGUGCAUUGGCAGCCGAAAUUGGUUUCGGCUUUAAUGUUUGCAAAUGAUUGGGCAACUGAGGGGCG---------------GACUUCUUUU
...(((((.((..(.(((..(---(((.(((((((.((((((((....))))))))))))))).)))).........))).)..)).))))---------------)......... ( -32.70)
>DroPer_CAF1 195633 116 + 1
CACCUGCUGUUUGGGGGCACUGCUGCGCACAUUUGAAGCGGAAAUUGGUUUCGGUUUCAAUGUUUGCAAAUGAUUGGGCAGAUGCGAAGUGGCUGCGGUCUUAGCUGCCUGCUUCU
..(((.......))).(((((((((((.(((((.(((((.((((....)))).)))))))))).))).........))))).)))((((((((.((.......)).))).))))). ( -39.70)
>consensus
CACCUGCUGCUUGGGUGCACU___GUGCAUAUUAGAGGCCGAAAUUGGUUUCGGCUUCAAUGUUUGCAAAUGAUUGGGCAGCUGCGCUGCAGCUC______CUG_UGGCUUCUUUU
.....((((((..(((((((....))))))....((((((((((....))))))))))...............)..)))))).................................. (-20.82 = -21.85 +   1.03)

alignment

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secondary structure

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dotplot

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Window 2

Location 3,708,011 – 3,708,118
Length 107
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 76.28
Mean single sequence MFE -27.73
Consensus MFE -14.24
Energy contribution -15.35
Covariance contribution 1.11
Combinations/Pair 1.20
Mean z-score -1.73
Structure conservation index 0.51
SVM decision value 0.07
SVM RNA-class probability 0.567377
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3708011 107 - 22407834
AAAAGAAGACAUCAG------GAGCUGCAGCGCAGCUACCCAAUCAUUUGCAAACAUUGAAGCCGAAACCAAUUUCGGCCUCUAAUAUGCAC---AGUGCACCCAAGCAGCAGGUG
..............(------(((((((...)))))).))....(((((((...(((.((.(((((((....))))))).))....)))...---..(((......)))))))))) ( -30.50)
>DroGri_CAF1 214910 101 - 1
CGAAGAAACCG------------GAGGCAGCUCGCCUGCCGAAUCAUUUGCAAACAUUGAAGCCAAAACAAGUAACGGACUUCAGUUCGCGC---AGUGGACCCAAACAGCAAGUG
.........((------------(((((.....)))).)))...(((((((......(((((((............)).)))))((((((..---.)))))).......))))))) ( -28.20)
>DroEre_CAF1 183684 107 - 1
AAACGAAGCCAUCAG------GAGCAGCAGCGCAGCUACCCAAUCAUUUGCAAAUAUUGAAGCCGAAACCAAUUUCGGUCUCUAAUAUGCAC---AGUGCACCCAAGCAGCAGGUG
..............(------(.(.(((......))).)))...(((((((..(((((((..((((((....))))))..)).)))))....---..(((......)))))))))) ( -26.00)
>DroYak_CAF1 184043 107 - 1
AAAAGAAGCCAACAG------GAGCUGCAGCGCAGCUGCCCAAUCAUUUGCAAACAUUGAAGCCGAAACCAAUUUCGGCCUCUAAUAUGCAC---AGUGCACCCAAGCAGCAGGUG
..............(------(((((((...)))))).))....(((((((...(((.((.(((((((....))))))).))....)))...---..(((......)))))))))) ( -30.50)
>DroAna_CAF1 193730 98 - 1
AAAAGAAGUC---------------CGCCCCUCAGUUGCCCAAUCAUUUGCAAACAUUAAAGCCGAAACCAAUUUCGGCUGCCAAUGCACAC---AGUGCACCCAAACAGCAGGUG
..........---------------...................(((((((.........((((((((....)))))))).....(((((..---.)))))........))))))) ( -22.30)
>DroPer_CAF1 195633 116 - 1
AGAAGCAGGCAGCUAAGACCGCAGCCACUUCGCAUCUGCCCAAUCAUUUGCAAACAUUGAAACCGAAACCAAUUUCCGCUUCAAAUGUGCGCAGCAGUGCCCCCAAACAGCAGGUG
.((((..(((.((.......)).))).)))).(((((((........((((..((((((((.(.((((....)))).).))).)))))..))))..((........)).))))))) ( -28.90)
>consensus
AAAAGAAGCCA_CAG______GAGCCGCAGCGCAGCUGCCCAAUCAUUUGCAAACAUUGAAGCCGAAACCAAUUUCGGCCUCUAAUAUGCAC___AGUGCACCCAAACAGCAGGUG
............................................(((((((.......((.(((((((....))))))).))......((((....)))).........))))))) (-14.24 = -15.35 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:31 2006