Locus 4796

Sequence ID 3R_DroMel_CAF1
Location 12,531,036 – 12,531,139
Length 103
Max. P 0.823839
window7869 window7870

overview

Window 9

Location 12,531,036 – 12,531,139
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.30
Mean single sequence MFE -21.97
Consensus MFE -16.17
Energy contribution -16.42
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -2.58
Structure conservation index 0.74
SVM decision value 0.69
SVM RNA-class probability 0.823839
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12531036 103 + 27905053
GUGUGCAUUUGAAGGCACAAUGAUAAAUGUACAAAGCAAAAGG--CAA-AGAAA----AAAUAGAAAUUGGGUGAAUAAAUAGCACAGAUUCCGUUGAGCAAGCAGAAAA----------
.......((((...((.(((((.............((.....)--)..-.....----.....(((.(((.((.........)).))).)))))))).))...))))...---------- ( -13.30)
>DroVir_CAF1 13451 108 + 1
GUGUGCAGCUGAAGGCACAAUGAUAAAUGUGGUAAGCAAAAAC--GAAAAAAAAAAAGGAAAAGAAAUUGGGUGAAUAAAUAGCCCAGAUUCCGUUGAGCAAGCAGAAAA----------
((.(((.(((...(.((((........)))).).)))......--..................(((.((((((.........)))))).)))......))).))......---------- ( -20.60)
>DroPse_CAF1 19593 104 + 1
GUGUGCGACUGAAGGCACAAUGAUAAAUGUGCGGAGCGAAAGGAACAA-CAAAA----AAAUAGAAAUUGGGUGAAUAACUAGCCCAGAUUCCGUCGAGCAAGCAGAAA-----------
.(((.((((.....(((((........)))))(((((....)......-.....----.........((((((.........)))))).)))))))).)))........----------- ( -26.00)
>DroGri_CAF1 10964 104 + 1
GUGUGCAGCUGAAGGCACAAUGAUAAAUGUGGUAAGCAAAAAC--GAGCAGAAA----AAAAAUAAAUUGGGUGAAUAAAUAGCCCAGAUUCCGUUGAGCAAGCAGAAAA----------
........(((...((.(((((.............((......--..)).....----.........((((((.........))))))....))))).))...)))....---------- ( -19.30)
>DroAna_CAF1 19701 112 + 1
UUUUGCAACUGAAGGCACAAUGAUAAAUGUGCG-AGCGAAAGG--CAC-AAAAA----AAAUAGAAAUUGGGUGAAUAAAUAGCCCAGAUUCCGUUGAGCAAGCAAAAAAAAAAAAAGUA
((((((..(....)((.(((((.....(((((.-..(....))--)))-)....----.....(((.((((((.........)))))).)))))))).))..))))))............ ( -26.60)
>DroPer_CAF1 23697 104 + 1
GUGUGCGACUGAAGGCACAAUGAUAAAUGUGCGGAGCGAAAGGAACAA-CAAAA----AAAUAGAAAUUGGGUGAAUAACUAGCCCAGAUUCCGUCGAGCAAGCAGAAA-----------
.(((.((((.....(((((........)))))(((((....)......-.....----.........((((((.........)))))).)))))))).)))........----------- ( -26.00)
>consensus
GUGUGCAACUGAAGGCACAAUGAUAAAUGUGCGAAGCAAAAGG__CAA_AAAAA____AAAUAGAAAUUGGGUGAAUAAAUAGCCCAGAUUCCGUUGAGCAAGCAGAAAA__________
.(((.((((.(((.(((((........)))))...................................((((((.........)))))).))).)))).)))................... (-16.17 = -16.42 +   0.25)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,531,036 – 12,531,139
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.30
Mean single sequence MFE -16.87
Consensus MFE -11.82
Energy contribution -12.35
Covariance contribution 0.53
Combinations/Pair 1.06
Mean z-score -1.75
Structure conservation index 0.70
SVM decision value 0.05
SVM RNA-class probability 0.557531
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12531036 103 - 27905053
----------UUUUCUGCUUGCUCAACGGAAUCUGUGCUAUUUAUUCACCCAAUUUCUAUUU----UUUCU-UUG--CCUUUUGCUUUGUACAUUUAUCAUUGUGCCUUCAAAUGCACAC
----------..(((((.((....)))))))..(((((.((((...................----.....-..(--(.....))...(((((........)))))....))))))))). ( -12.90)
>DroVir_CAF1 13451 108 - 1
----------UUUUCUGCUUGCUCAACGGAAUCUGGGCUAUUUAUUCACCCAAUUUCUUUUCCUUUUUUUUUUUC--GUUUUUGCUUACCACAUUUAUCAUUGUGCCUUCAGCUGCACAC
----------.....(((..(((....((((..((((...........))))..)))).................--............((((........)))).....))).)))... ( -14.80)
>DroPse_CAF1 19593 104 - 1
-----------UUUCUGCUUGCUCGACGGAAUCUGGGCUAGUUAUUCACCCAAUUUCUAUUU----UUUUG-UUGUUCCUUUCGCUCCGCACAUUUAUCAUUGUGCCUUCAGUCGCACAC
-----------........((..((((((((..((((...........))))..))))....----.....-................(((((........))))).....))))..)). ( -19.60)
>DroGri_CAF1 10964 104 - 1
----------UUUUCUGCUUGCUCAACGGAAUCUGGGCUAUUUAUUCACCCAAUUUAUUUUU----UUUCUGCUC--GUUUUUGCUUACCACAUUUAUCAUUGUGCCUUCAGCUGCACAC
----------.....(((..(((.((.((....((((...........))))..........----.....((..--......))....((((........)))))))).))).)))... ( -14.20)
>DroAna_CAF1 19701 112 - 1
UACUUUUUUUUUUUUUGCUUGCUCAACGGAAUCUGGGCUAUUUAUUCACCCAAUUUCUAUUU----UUUUU-GUG--CCUUUCGCU-CGCACAUUUAUCAUUGUGCCUUCAGUUGCAAAA
............((((((..(((....((((..((((...........))))..))))....----.....-(.(--(.....)).-)(((((........)))))....))).)))))) ( -20.10)
>DroPer_CAF1 23697 104 - 1
-----------UUUCUGCUUGCUCGACGGAAUCUGGGCUAGUUAUUCACCCAAUUUCUAUUU----UUUUG-UUGUUCCUUUCGCUCCGCACAUUUAUCAUUGUGCCUUCAGUCGCACAC
-----------........((..((((((((..((((...........))))..))))....----.....-................(((((........))))).....))))..)). ( -19.60)
>consensus
__________UUUUCUGCUUGCUCAACGGAAUCUGGGCUAUUUAUUCACCCAAUUUCUAUUU____UUUUU_UUG__CCUUUCGCUUCGCACAUUUAUCAUUGUGCCUUCAGUUGCACAC
...................(((.....((((..((((...........))))..))))..............................(((((........)))))........)))... (-11.82 = -12.35 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:09 2006