Locus 2530

Sequence ID 2R_DroMel_CAF1
Location 8,997,019 – 8,997,125
Length 106
Max. P 0.984472
window4168 window4169

overview

Window 8

Location 8,997,019 – 8,997,125
Length 106
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 72.09
Mean single sequence MFE -27.12
Consensus MFE -16.08
Energy contribution -15.13
Covariance contribution -0.94
Combinations/Pair 1.18
Mean z-score -2.11
Structure conservation index 0.59
SVM decision value 1.98
SVM RNA-class probability 0.984472
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8997019 106 + 20766785
CGCCGAGAAAUUGUCAGCCUUUGGGCUUUGACAACACGAAAAAGAGCUUAAAGGAAAACGCAAAGCGGCAAAGGAAGGGGCUAAAAGGCUGGGCGAGGG------GCGGGGA
((((.............((((((((((((.............))))))))))))....(((..((((((..........))).....)))..)))...)------))).... ( -30.42)
>DroPse_CAF1 25109 81 + 1
CGCACAGAAAUUGUCAGCCAAAGGGCUUUGACAAGAAAAAUGAGAGCUUAAGGCAAAGUAUAAAGCGGC-------------------------GAGAG------GGUGGAA
..(((.....(((((.(((...(((((((.(.........).)))))))..)))...((.....)))))-------------------------))...------.)))... ( -17.50)
>DroSim_CAF1 27623 106 + 1
CGCCGAGAAAUUGUCAGCCUUUGGGCUUUGACAACACGAAAAAGAGCUUAAAGGAAAACGCAAAGCGGCAAAGGAAGGGGCUAAAAGGCUGGGCGAGGG------GCGGGGA
((((.............((((((((((((.............))))))))))))....(((..((((((..........))).....)))..)))...)------))).... ( -30.42)
>DroEre_CAF1 27880 107 + 1
CGCCGAGAAAUUGUCAGCCUUUGGGCUUUGACAACACGAAAAAGAGCUUAAAGGAAAACGCAAAGCGGCAAAG----GGGAUA-AAUGCUGGGCGAGGGGCGAUGGCGGGGA
(.(((....((((((..((((((((((((.............))))))))))))....(((..((((......----......-..))))..)))...))))))..))).). ( -34.36)
>DroYak_CAF1 28374 112 + 1
CGCCGAGAAAUUGUCAGCCUUUGGGCUUUGACAACACGAAAAAGAGCUUAAAGGAAAACGCAAAGCGCCAAAGGAAGGGGCUAAAAUGCUGGACGGGGGAGAGGCGCGGGGA
((((......(((((..((((((((((((.............)))))))))))).....(((.(((.((.......)).)))....)))..)))))......))))...... ( -34.42)
>DroPer_CAF1 24393 81 + 1
CGCACAGAAAUUGUCAGCCAAAGGGCUUUGACAAGAAAAAUGACAACUUAAGGCAAAGUAUAAAGCGGC-------------------------GAGAG------GGUGGAA
..(((.....(((((((((....)))..))))))............(((...((...((.....)).))-------------------------...))------))))... ( -15.60)
>consensus
CGCCGAGAAAUUGUCAGCCUUUGGGCUUUGACAACACGAAAAAGAGCUUAAAGGAAAACGCAAAGCGGCAAAG____GGGCUA_AA_GCUGGGCGAGGG______GCGGGGA
..(((.....(((((((((....)))..))))))...........((((...(.....)...))))........................................)))... (-16.08 = -15.13 +  -0.94)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,997,019 – 8,997,125
Length 106
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 72.09
Mean single sequence MFE -18.85
Consensus MFE -13.19
Energy contribution -12.50
Covariance contribution -0.69
Combinations/Pair 1.18
Mean z-score -1.22
Structure conservation index 0.70
SVM decision value 0.93
SVM RNA-class probability 0.883767
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8997019 106 - 20766785
UCCCCGC------CCCUCGCCCAGCCUUUUAGCCCCUUCCUUUGCCGCUUUGCGUUUUCCUUUAAGCUCUUUUUCGUGUUGUCAAAGCCCAAAGGCUGACAAUUUCUCGGCG
....(((------(...(((..(((.....((.......)).....)))..))).......................(((((((..(((....)))))))))).....)))) ( -19.90)
>DroPse_CAF1 25109 81 - 1
UUCCACC------CUCUC-------------------------GCCGCUUUAUACUUUGCCUUAAGCUCUCAUUUUUCUUGUCAAAGCCCUUUGGCUGACAAUUUCUGUGCG
.......------....(-------------------------(((((((.............))))...........((((((..(((....))))))))).....).))) ( -12.92)
>DroSim_CAF1 27623 106 - 1
UCCCCGC------CCCUCGCCCAGCCUUUUAGCCCCUUCCUUUGCCGCUUUGCGUUUUCCUUUAAGCUCUUUUUCGUGUUGUCAAAGCCCAAAGGCUGACAAUUUCUCGGCG
....(((------(...(((..(((.....((.......)).....)))..))).......................(((((((..(((....)))))))))).....)))) ( -19.90)
>DroEre_CAF1 27880 107 - 1
UCCCCGCCAUCGCCCCUCGCCCAGCAUU-UAUCCC----CUUUGCCGCUUUGCGUUUUCCUUUAAGCUCUUUUUCGUGUUGUCAAAGCCCAAAGGCUGACAAUUUCUCGGCG
....((((.........(((..(((...-......----.......)))..))).......................(((((((..(((....)))))))))).....)))) ( -20.89)
>DroYak_CAF1 28374 112 - 1
UCCCCGCGCCUCUCCCCCGUCCAGCAUUUUAGCCCCUUCCUUUGGCGCUUUGCGUUUUCCUUUAAGCUCUUUUUCGUGUUGUCAAAGCCCAAAGGCUGACAAUUUCUCGGCG
......((((.............(((....(((.((.......)).))).)))((((......))))..........(((((((..(((....)))))))))).....)))) ( -24.90)
>DroPer_CAF1 24393 81 - 1
UUCCACC------CUCUC-------------------------GCCGCUUUAUACUUUGCCUUAAGUUGUCAUUUUUCUUGUCAAAGCCCUUUGGCUGACAAUUUCUGUGCG
.......------.....-------------------------...............(((..(((((((((........((((((....)))))))))))))))..).)). ( -14.60)
>consensus
UCCCCGC______CCCUCGCCCAGC_UU_UAGCCC____CUUUGCCGCUUUGCGUUUUCCUUUAAGCUCUUUUUCGUGUUGUCAAAGCCCAAAGGCUGACAAUUUCUCGGCG
...(((........................................((((.............))))..........(((((((..(((....))))))))))....))).. (-13.19 = -12.50 +  -0.69)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:18 2006