Locus 737

Sequence ID X_DroMel_CAF1
Location 1,997,919 – 1,998,079
Length 160
Max. P 0.600365
window1194 window1195

overview

Window 4

Location 1,997,919 – 1,998,039
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.08
Mean single sequence MFE -29.29
Consensus MFE -22.40
Energy contribution -22.57
Covariance contribution 0.17
Combinations/Pair 1.17
Mean z-score -1.56
Structure conservation index 0.76
SVM decision value 0.09
SVM RNA-class probability 0.576970
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1997919 120 + 22224390
CCUUUAGUAACUGCAGUGACACAUCUGAUAUUCGUUUCACAACCGGUUUAUAUAUGUAUGCAGAUGCUGAUAUUGUUUUCGCGCUUAUCAGCUACCUGUUAACCCAGUGUUUCUGUUUGU
.........((.((((.(((((...(((........))).....((((...........((((..(((((((.(((....)))..)))))))...)))).))))..))))).))))..)) ( -25.70)
>DroSec_CAF1 29921 120 + 1
CCUUUAGUAACUGCAGUGACACAUUUGCCAUUCGUUUCACAACCGGUUUACAUUCGUAUGCAGAUGCUGAUAUUGUUUUCGCGCUUAUCAGCUACCUGUUAACCCAGUGUUGCUGUUUGU
.........((.((((..((((...........(((....))).(((((((....))).((((..(((((((.(((....)))..)))))))...)))).))))..))))..))))..)) ( -28.40)
>DroSim_CAF1 24128 120 + 1
CCUUUAGUAACUGCAGUGACACAUCUGUCAUUCGUUUCACAACCGGUUUACAUUCGUAUGCAGAUGCUGAUAUUGUUUUCGCGCUUAUCAGCUACCUGUUAACCCAGUGUUGCUGUUUGU
.........((.((((..(((((((((.(((.((....................)).))))))))(((((((.(((....)))..)))))))..............))))..))))..)) ( -30.15)
>DroEre_CAF1 19703 120 + 1
CUUUUAGUAACUGCAGUGACACAUCUGCCAUUCGUUUUCCAACCGGUUCACAUUCGUAUGCAGAUGCUGAUAUUGUUUUCGCGCUUAUCAGCUACCUGUUAGCCCAGUGUGGCUGUUUGU
......(..(..((((((.(((((((((.((.((....((....))........)).))))))))).)).))))))..)..)((....((((((((((......))).)))))))...)) ( -31.80)
>DroYak_CAF1 30248 113 + 1
CUUUAAUUAACUAGUGGAAAGCUUCUGCCAUUCGUUUCGAAACCGGCUCGCAUUUGAAUGCAGAUGCUGAUAUUA-------GCUUAUCAGCUACCUGUUAACCCAGUGUCGCUGUUUGU
..........((((((...(((.(((((.(((((..((((.......))).)..)))))))))).)))..)))))-------).....((((.(((((......))).)).))))..... ( -30.40)
>consensus
CCUUUAGUAACUGCAGUGACACAUCUGCCAUUCGUUUCACAACCGGUUUACAUUCGUAUGCAGAUGCUGAUAUUGUUUUCGCGCUUAUCAGCUACCUGUUAACCCAGUGUUGCUGUUUGU
.........((.((((..(((((((((.(((.((....................)).))))))))(((((((.(((....)))..)))))))..............))))..))))..)) (-22.40 = -22.57 +   0.17)

alignment

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secondary structure

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dotplot

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Window 5

Location 1,997,959 – 1,998,079
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.44
Mean single sequence MFE -31.11
Consensus MFE -22.76
Energy contribution -23.68
Covariance contribution 0.92
Combinations/Pair 1.07
Mean z-score -1.71
Structure conservation index 0.73
SVM decision value 0.13
SVM RNA-class probability 0.600365
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1997959 120 - 22224390
GGGGGCGGGUGCGAACGCGUGUUGUCUGUAAACAAGCGAGACAAACAGAAACACUGGGUUAACAGGUAGCUGAUAAGCGCGAAAACAAUAUCAGCAUCUGCAUACAUAUAUAAACCGGUU
(...((((((((....((((.((((((((......)).)))))).(((..((.(((......)))))..)))....))))((........)).))))))))...)............... ( -33.90)
>DroSec_CAF1 29961 115 - 1
GG-----GGUGCUAACGCGUGUUGUCUGUAAACAAGCAAGACAAACAGCAACACUGGGUUAACAGGUAGCUGAUAAGCGCGAAAACAAUAUCAGCAUCUGCAUACGAAUGUAAACCGGUU
((-----((((((...((((.((((((((......)).)))))).((((.((.(((......))))).))))....))))((........))))))))(((((....)))))..)).... ( -34.20)
>DroSim_CAF1 24168 114 - 1
GG-----GGUGCGAACGCGUG-UGUCUGUAAACAAGCAAGACAAACAGCAACACUGGGUUAACAGGUAGCUGAUAAGCGCGAAAACAAUAUCAGCAUCUGCAUACGAAUGUAAACCGGUU
((-----..((((..(((((.-(((((((......)).)))))..((((.((.(((......))))).))))....)))))............((....)).......))))..)).... ( -32.90)
>DroEre_CAF1 19743 113 - 1
-------GGUGCGAACGCGUGUUGUCUAUAAACAAGCAAAACAAACAGCCACACUGGGCUAACAGGUAGCUGAUAAGCGCGAAAACAAUAUCAGCAUCUGCAUACGAAUGUGAACCGGUU
-------(((.((....(((((........................((((......))))..(((((.(((((((.............)))))))))))).)))))....)).))).... ( -26.52)
>DroYak_CAF1 30288 106 - 1
-------GGUGCGAACGCGUGUUGUCUAUAAACAAGCAAAACAAACAGCGACACUGGGUUAACAGGUAGCUGAUAAGC-------UAAUAUCAGCAUCUGCAUUCAAAUGCGAGCCGGUU
-------(((.....((((((((((......................)))))))(((((...(((((.(((((((...-------...)))))))))))).)))))...))).))).... ( -28.05)
>consensus
GG_____GGUGCGAACGCGUGUUGUCUGUAAACAAGCAAGACAAACAGCAACACUGGGUUAACAGGUAGCUGAUAAGCGCGAAAACAAUAUCAGCAUCUGCAUACGAAUGUAAACCGGUU
.......(((...(((.(((((((.((((...............)))))))))).).)))..(((((.(((((((.............)))))))))))).............))).... (-22.76 = -23.68 +   0.92)

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 09:52:35 2006