Locus 4982

Sequence ID 2R_DroMel_CAF1
Location 16,238,819 – 16,238,921
Length 102
Max. P 0.989989
window7977 window7978

overview

Window 7

Location 16,238,819 – 16,238,921
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 77.30
Mean single sequence MFE -18.68
Consensus MFE -11.44
Energy contribution -11.67
Covariance contribution 0.22
Combinations/Pair 1.13
Mean z-score -1.66
Structure conservation index 0.61
SVM decision value 0.59
SVM RNA-class probability 0.793806
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16238819 102 + 20766785
UUUCCUCAGCUUUUGUGCCGCGCAUUUUCCGCUUUUCGAAUUUCCCACGCUUUUCCACGCCAUUUAUGCGCCACGCACGCAUACGUGCAACAUUUCUAAGCU
.......(((((..(((..((((((.....((.....(((............)))...)).....)))))))))(((((....))))).........))))) ( -22.00)
>DroPse_CAF1 32126 79 + 1
-----------------------GGCUCCCGCUCAGUGAGUUUCCCACGCAAUUCCACGCCGCUUAUGUGCCACGCACGCAUACGUGCAACAUUGCUAAGCU
-----------------------((((........(((.......)))(((((.....(.(((....))).)..(((((....)))))...)))))..)))) ( -18.00)
>DroSec_CAF1 19144 102 + 1
UUUCCUCAGCUUUUGUCCUGCGCAUUUUCCGCUUUCCGAAUUUCCCACGCUUUUCCACGCCAUUUAUGCGCCACGCACGCAUACGUGCAACAUUUCUAAGCU
.......(((((.(((...((((((.....((.....(((............)))...)).....))))))...(((((....))))).))).....))))) ( -20.00)
>DroEre_CAF1 24208 93 + 1
---------UCUUUCCCCAGCGCAUUUUCCGCUUUCCGAAUUUCCCACGCUUUUCCACGCCAUUUAUGCGCCACGCACGCAUACGUGCAACAUUUCUAAGCU
---------..........((((((.....((.....(((............)))...)).....))))))...(((((....))))).............. ( -16.30)
>DroYak_CAF1 31935 102 + 1
UUUCCUCAGCCUUUGUCCUGCGCAUUUUCCGCUUUUCGAAUUUCCCACGCUUUUCCACGCCAUUUAUGCGCCACGCACGCAUACGUGCAACAUUUCUAAGCU
.......(((.........((((((.....((.....(((............)))...)).....))))))...(((((....)))))...........))) ( -17.80)
>DroPer_CAF1 32090 79 + 1
-----------------------GGCUCCCGCUCAGUGAGUUUCCCACGCAAUUCCACGCCGCUUAUGUGCCACGCACGCAUACGUGCAACAUUGCUAAGCU
-----------------------((((........(((.......)))(((((.....(.(((....))).)..(((((....)))))...)))))..)))) ( -18.00)
>consensus
_________C_UUUGUCC_GCGCAUUUUCCGCUUUCCGAAUUUCCCACGCUUUUCCACGCCAUUUAUGCGCCACGCACGCAUACGUGCAACAUUUCUAAGCU
..............................((((...(((.................(((.......)))....(((((....))))).....))).)))). (-11.44 = -11.67 +   0.22)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,238,819 – 16,238,921
Length 102
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 77.30
Mean single sequence MFE -29.72
Consensus MFE -18.83
Energy contribution -18.17
Covariance contribution -0.67
Combinations/Pair 1.16
Mean z-score -2.88
Structure conservation index 0.63
SVM decision value 2.19
SVM RNA-class probability 0.989989
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16238819 102 - 20766785
AGCUUAGAAAUGUUGCACGUAUGCGUGCGUGGCGCAUAAAUGGCGUGGAAAAGCGUGGGAAAUUCGAAAAGCGGAAAAUGCGCGGCACAAAAGCUGAGGAAA
..(((((...(((.(((((....)))))((.((((((...(.((((......)))).)....((((.....))))..)))))).)))))....))))).... ( -32.80)
>DroPse_CAF1 32126 79 - 1
AGCUUAGCAAUGUUGCACGUAUGCGUGCGUGGCACAUAAGCGGCGUGGAAUUGCGUGGGAAACUCACUGAGCGGGAGCC-----------------------
.((((((((((...(((((....)))))((.((......)).)).....)))))((((....).)))))))).......----------------------- ( -29.30)
>DroSec_CAF1 19144 102 - 1
AGCUUAGAAAUGUUGCACGUAUGCGUGCGUGGCGCAUAAAUGGCGUGGAAAAGCGUGGGAAAUUCGGAAAGCGGAAAAUGCGCAGGACAAAAGCUGAGGAAA
..(((((...(((((((((....)))))...((((((...(.((((......)))).)....((((.....))))..))))))..))))....))))).... ( -31.10)
>DroEre_CAF1 24208 93 - 1
AGCUUAGAAAUGUUGCACGUAUGCGUGCGUGGCGCAUAAAUGGCGUGGAAAAGCGUGGGAAAUUCGGAAAGCGGAAAAUGCGCUGGGGAAAGA---------
..(((.........(((((....)))))..(((((((...(.((((......)))).)....((((.....))))..))))))).....))).--------- ( -24.80)
>DroYak_CAF1 31935 102 - 1
AGCUUAGAAAUGUUGCACGUAUGCGUGCGUGGCGCAUAAAUGGCGUGGAAAAGCGUGGGAAAUUCGAAAAGCGGAAAAUGCGCAGGACAAAGGCUGAGGAAA
..(((((...(((((((((....)))))...((((((...(.((((......)))).)....((((.....))))..))))))..))))....))))).... ( -31.00)
>DroPer_CAF1 32090 79 - 1
AGCUUAGCAAUGUUGCACGUAUGCGUGCGUGGCACAUAAGCGGCGUGGAAUUGCGUGGGAAACUCACUGAGCGGGAGCC-----------------------
.((((((((((...(((((....)))))((.((......)).)).....)))))((((....).)))))))).......----------------------- ( -29.30)
>consensus
AGCUUAGAAAUGUUGCACGUAUGCGUGCGUGGCGCAUAAAUGGCGUGGAAAAGCGUGGGAAAUUCGAAAAGCGGAAAAUGCGC_GGACAAA_G_________
.((((....((((((((((....))))))....))))...(.((((......)))).)..........)))).............................. (-18.83 = -18.17 +  -0.67)

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 11:33:44 2006