Locus 1528

Sequence ID X_DroMel_CAF1
Location 4,441,119 – 4,441,279
Length 160
Max. P 0.981172
window2485 window2486 window2487

overview

Window 5

Location 4,441,119 – 4,441,239
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.33
Mean single sequence MFE -24.30
Consensus MFE -19.44
Energy contribution -19.52
Covariance contribution 0.08
Combinations/Pair 1.11
Mean z-score -2.37
Structure conservation index 0.80
SVM decision value 1.88
SVM RNA-class probability 0.981172
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4441119 120 + 22224390
CUAAUUUAAUUUUCUGAUCACUUGAGUGAAUAUAUCUUAGUGCCCGUAUUCACCAUAAAUCUUCUCGACAAAGCAAACACCCGCUUGUGAUCCACGAAAACUGCUAUACCCAAGCAGAUU
.........(((((.((((((.((.((((((((............))))))))))...............((((........))))))))))...)))))(((((.......)))))... ( -25.10)
>DroSec_CAF1 42736 120 + 1
UUAAUUUUAUUUUCUGAUCACUUGAGUGAAUACAUUUUAGAGCCCGUAUUCGCCAUAAAUCUUCUCGACAAAACAAACACCCGCUUGUGAUCCACGAAAACUGCUAUACCCAAGCAGAUU
.........(((((.((((((.((.((((((((............))))))))))....((.....))..................))))))...)))))(((((.......)))))... ( -22.40)
>DroSim_CAF1 43925 120 + 1
AUAAUUUAAUUUUCUGAUCACUUGAGUGAAUACAUUUUACAGCCCGUAUUCGCCAUAAAUCUUCUCGGCAAAACAAACACCCGCUUGUGAUCCACGAAAACUGCUAUACCCAAGCAGAUU
.........(((((.((((((..((((((((((............))))))(((............))).............))))))))))...)))))(((((.......)))))... ( -25.20)
>DroEre_CAF1 44617 119 + 1
CUAAUUUAAU-UUCUGAUCACUUGAGGGAAUACCUUUUAGUGGCUGUAUUCGCCAUAAAUCUUUUCGACAAAACAAACACCCGCUUGUGAUCCACGAAAACUGCUAUACCUUAGCAGAUU
.........(-(((.((((((..(.(((...........(((((.......)))))...((.....))...........))).)..))))))...)))).((((((.....))))))... ( -29.20)
>DroYak_CAF1 43483 118 + 1
CUAAUUUCAUUUUCUGAUCACUUGAGUGAAUAUAUUUUCGUGCCUGUAUUCGCCAUAAAUCUUCUCGACAAAAUAAACACCCGCUUGUGAUCCACGAAAACUGCUAUACCUUCGCAG--U
..........((((.((((((.((.(((((((((..........)))))))))))....((.....))..................))))))...))))(((((.........))))--) ( -19.60)
>consensus
CUAAUUUAAUUUUCUGAUCACUUGAGUGAAUACAUUUUAGUGCCCGUAUUCGCCAUAAAUCUUCUCGACAAAACAAACACCCGCUUGUGAUCCACGAAAACUGCUAUACCCAAGCAGAUU
.........(((((.((((((.((.((((((((............))))))))))....((.....))..................))))))...)))))(((((.......)))))... (-19.44 = -19.52 +   0.08)

alignment

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secondary structure

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dotplot

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Window 6

Location 4,441,119 – 4,441,239
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.33
Mean single sequence MFE -29.88
Consensus MFE -23.42
Energy contribution -24.22
Covariance contribution 0.80
Combinations/Pair 1.09
Mean z-score -1.45
Structure conservation index 0.78
SVM decision value 0.02
SVM RNA-class probability 0.545914
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4441119 120 - 22224390
AAUCUGCUUGGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGCUUUGUCGAGAAGAUUUAUGGUGAAUACGGGCACUAAGAUAUAUUCACUCAAGUGAUCAGAAAAUUAAAUUAG
...(((((.......)))))(((((...((((((..((..(((((..((..(((.....)))....))..)))))..)).....((.....))......)))))).)))))......... ( -30.90)
>DroSec_CAF1 42736 120 - 1
AAUCUGCUUGGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGUUUUGUCGAGAAGAUUUAUGGCGAAUACGGGCUCUAAAAUGUAUUCACUCAAGUGAUCAGAAAAUAAAAUUAA
...(((((.......)))))(((((...((((((.(((..(((((((((..(((.....)))....)))))))))..)))......((........)).)))))).)))))......... ( -29.50)
>DroSim_CAF1 43925 120 - 1
AAUCUGCUUGGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGUUUUGCCGAGAAGAUUUAUGGCGAAUACGGGCUGUAAAAUGUAUUCACUCAAGUGAUCAGAAAAUUAAAUUAU
..(((((((((((...(((((((((.(((...((((((....))))))....))).)))))))....))(((((((..........))))))))))))))....))))............ ( -29.60)
>DroEre_CAF1 44617 119 - 1
AAUCUGCUAAGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGUUUUGUCGAAAAGAUUUAUGGCGAAUACAGCCACUAAAAGGUAUUCCCUCAAGUGAUCAGAA-AUUAAAUUAG
...((((((.....)))))).((((...((((((..(.(((((((((((..(((.....)))....))))))))).(((.......)))....)).)..)))))).)))-)......... ( -31.80)
>DroYak_CAF1 43483 118 - 1
A--CUGCGAAGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUAUUUUGUCGAGAAGAUUUAUGGCGAAUACAGGCACGAAAAUAUAUUCACUCAAGUGAUCAGAAAAUGAAAUUAG
(--((((.........)))))((((((.((((((......((((((..(((((((.((....)).)))))))...))))))(((......)))......)))))).....)))))).... ( -27.60)
>consensus
AAUCUGCUUGGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGUUUUGUCGAGAAGAUUUAUGGCGAAUACGGGCACUAAAAUGUAUUCACUCAAGUGAUCAGAAAAUUAAAUUAG
...(((((.......)))))(((((...((((((..((..(((((((((..(((.....)))....)))))))))..)).......((....)).....)))))).)))))......... (-23.42 = -24.22 +   0.80)

alignment

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secondary structure

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dotplot

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Window 7

Location 4,441,159 – 4,441,279
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.00
Mean single sequence MFE -36.82
Consensus MFE -31.62
Energy contribution -32.42
Covariance contribution 0.80
Combinations/Pair 1.11
Mean z-score -1.52
Structure conservation index 0.86
SVM decision value 0.88
SVM RNA-class probability 0.872737
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4441159 120 - 22224390
GGUCAGAACAUGGGAUCAUCGCAAGGUUGGGUUCUGACUAAAUCUGCUUGGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGCUUUGUCGAGAAGAUUUAUGGUGAAUACGGGCA
(((((((((........(((....)))...)))))))))....((((((((((...((.......))..))).)))))))(((((..((..(((.....)))....))..)))))..... ( -37.40)
>DroSec_CAF1 42776 120 - 1
GGUCAGAACAUGGGAUCAUCGCAAGGUUGGGUUCUGGCUAAAUCUGCUUGGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGUUUUGUCGAGAAGAUUUAUGGCGAAUACGGGCU
(((((((((........(((....)))...)))))))))..((((((((((((...((.......))..))).)))))))))(((((((((((((.((....)).))))))).)))))). ( -36.90)
>DroSim_CAF1 43965 120 - 1
GGUCAGAACAUGGGAUCAUCGCAAGGUUGGGUUCUGGCUAAAUCUGCUUGGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGUUUUGCCGAGAAGAUUUAUGGCGAAUACGGGCU
(((((((((........(((....)))...)))))))))..((((((((((((...((.......))..))).)))))))))(((((((((((((.((....)).))))))).)))))). ( -39.60)
>DroEre_CAF1 44656 120 - 1
GGCCAGAACAUGGGAUCAUCGCAAGGUUGUGUUCUGGCUAAAUCUGCUAAGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGUUUUGUCGAAAAGAUUUAUGGCGAAUACAGCCA
((((((((((((.....(((....)))))))))))))))((((((((((.....))))).((((((......((((((....)))))).....))))))))))).((((.......)))) ( -39.50)
>DroYak_CAF1 43523 118 - 1
GGUCAGAACAUGGGAUCAUCGCAAGGUUGGGUUCUGGCUAA--CUGCGAAGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUAUUUUGUCGAGAAGAUUUAUGGCGAAUACAGGCA
(((((((((........(((....)))...)))))))))..--(..((((..(......)..))))..).......((..(((((..((..(((.....)))....))..)))))..)). ( -30.70)
>consensus
GGUCAGAACAUGGGAUCAUCGCAAGGUUGGGUUCUGGCUAAAUCUGCUUGGGUAUAGCAGUUUUCGUGGAUCACAAGCGGGUGUUUGUUUUGUCGAGAAGAUUUAUGGCGAAUACGGGCA
(((((((((........(((....)))...)))))))))....((((((((((...((.......))..))).)))))))(((((((((..(((.....)))....)))))))))..... (-31.62 = -32.42 +   0.80)

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 10:12:21 2006