Locus 4993

Sequence ID 3R_DroMel_CAF1
Location 13,150,246 – 13,150,337
Length 91
Max. P 0.942439
window8164 window8165

overview

Window 4

Location 13,150,246 – 13,150,337
Length 91
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.30
Mean single sequence MFE -27.30
Consensus MFE -18.11
Energy contribution -18.17
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -1.90
Structure conservation index 0.66
SVM decision value 0.90
SVM RNA-class probability 0.877442
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13150246 91 + 27905053
--------AAAUUCUGCGUGGCAUUUUUAAGCC-G-ACGCCAAAUGACAUGCAGCAGUUAUUAAUUGGCAAUUUACAUGCCGAAUGAUUAAUGCCUGGGC----------C---------
--------..(((..(((((((........)))-.-))))..)))..((.(((..((((((...((((((.......))))))))))))..))).))...----------.--------- ( -23.70)
>DroPse_CAF1 171471 109 + 1
--------AAAUGCUGCGUAGCAUUUUUAAGCC-A-ACGCCAAAUGACAUGCAGCAGUUAUUAAUUGGCAAUUUACAUGCCAAAUGAUUAAUGCCCGGCC-GGGUCGGGCCGGAUCCGGA
--------...((((((((..(((((....((.-.-..)).)))))..))))))))(((((((.((((((.......)))))).))).))))..((((((-......))))))....... ( -37.00)
>DroGri_CAF1 164811 91 + 1
--------AAAU-UUGCGUAAUAUUUUGAAGCC-GAAUGCCAAAUGACAUGCAGCAGUUAUUAAUUGGCAAUUUACAUGCCAAAUGAUUAAUGCCUGGCC----------C---------
--------....-.................(((-(..(((..........)))(((...((((.((((((.......)))))).))))...))).)))).----------.--------- ( -18.10)
>DroWil_CAF1 164558 109 + 1
GACGCUUAACAUUUUGCGUAGCAUUUUAAAGGCAA-ACGCCAAAUGACAUACAGCAGUUAUUAAUUGGCAAUUUACAUGCCAAAUGAUUAAUGCCUGUGCCUUGUGUGC-C---------
.((((..........)))).((((....((((((.-..((..((((((........))))))..((((((.......)))))).........))...))))))..))))-.--------- ( -28.90)
>DroMoj_CAF1 180602 91 + 1
--------AAAU-UUGCGUAACAUUUUGAAGCC-GAAUGCCAAAUGACAUGCAGCAGUUAUUAAUUGGCAAUUUACAUGCCAAAUGAUUAAUGCCUCGCC----------C---------
--------....-.(((((..(((((....((.-....)).)))))..)))))(((...((((.((((((.......)))))).))))...)))......----------.--------- ( -19.10)
>DroPer_CAF1 237948 109 + 1
--------AAAUGCUGCGUAGCAUUUUUAAGCC-A-ACGCCAAAUGACAUGCAGCAGUUAUUAAUUGGCAAUUUACAUGCCAAAUGAUUAAUGCCCGGCC-GGGUCGGGCCGGAUCCGGA
--------...((((((((..(((((....((.-.-..)).)))))..))))))))(((((((.((((((.......)))))).))).))))..((((((-......))))))....... ( -37.00)
>consensus
________AAAU_CUGCGUAGCAUUUUUAAGCC_A_ACGCCAAAUGACAUGCAGCAGUUAUUAAUUGGCAAUUUACAUGCCAAAUGAUUAAUGCCUGGCC__________C_________
..............(((((..(((((....((......)).)))))..)))))(((...((((.((((((.......)))))).))))...))).......................... (-18.11 = -18.17 +   0.06)

alignment

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secondary structure

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dotplot

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Window 5

Location 13,150,246 – 13,150,337
Length 91
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.30
Mean single sequence MFE -29.40
Consensus MFE -18.01
Energy contribution -17.93
Covariance contribution -0.08
Combinations/Pair 1.15
Mean z-score -2.47
Structure conservation index 0.61
SVM decision value 1.33
SVM RNA-class probability 0.942439
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13150246 91 - 27905053
---------G----------GCCCAGGCAUUAAUCAUUCGGCAUGUAAAUUGCCAAUUAAUAACUGCUGCAUGUCAUUUGGCGU-C-GGCUUAAAAAUGCCACGCAGAAUUU--------
---------.----------((...((((((........((((.......))))...........((((.(((((....)))))-)-))).....))))))..)).......-------- ( -25.20)
>DroPse_CAF1 171471 109 - 1
UCCGGAUCCGGCCCGACCC-GGCCGGGCAUUAAUCAUUUGGCAUGUAAAUUGCCAAUUAAUAACUGCUGCAUGUCAUUUGGCGU-U-GGCUUAAAAAUGCUACGCAGCAUUU--------
....(.(((((((......-)))))))).........((((((.......))))))........(((((((((((....)))))-(-(((........)))).))))))...-------- ( -37.10)
>DroGri_CAF1 164811 91 - 1
---------G----------GGCCAGGCAUUAAUCAUUUGGCAUGUAAAUUGCCAAUUAAUAACUGCUGCAUGUCAUUUGGCAUUC-GGCUUCAAAAUAUUACGCAA-AUUU--------
---------(----------((((.((((........((((((.......))))))........))))(.(((((....))))).)-)))))...............-....-------- ( -21.69)
>DroWil_CAF1 164558 109 - 1
---------G-GCACACAAGGCACAGGCAUUAAUCAUUUGGCAUGUAAAUUGCCAAUUAAUAACUGCUGUAUGUCAUUUGGCGU-UUGCCUUUAAAAUGCUACGCAAAAUGUUAAGCGUC
---------(-(((...(((((((((..((((((....(((((.......)))))))))))..)))....(((((....)))))-.)))))).....))))((((..........)))). ( -27.90)
>DroMoj_CAF1 180602 91 - 1
---------G----------GGCGAGGCAUUAAUCAUUUGGCAUGUAAAUUGCCAAUUAAUAACUGCUGCAUGUCAUUUGGCAUUC-GGCUUCAAAAUGUUACGCAA-AUUU--------
---------.----------.(((..(((((......((((((.......)))))).........((((.(((((....))))).)-))).....)))))..)))..-....-------- ( -27.40)
>DroPer_CAF1 237948 109 - 1
UCCGGAUCCGGCCCGACCC-GGCCGGGCAUUAAUCAUUUGGCAUGUAAAUUGCCAAUUAAUAACUGCUGCAUGUCAUUUGGCGU-U-GGCUUAAAAAUGCUACGCAGCAUUU--------
....(.(((((((......-)))))))).........((((((.......))))))........(((((((((((....)))))-(-(((........)))).))))))...-------- ( -37.10)
>consensus
_________G__________GGCCAGGCAUUAAUCAUUUGGCAUGUAAAUUGCCAAUUAAUAACUGCUGCAUGUCAUUUGGCGU_C_GGCUUAAAAAUGCUACGCAA_AUUU________
.........................((((((......((((((.......)))))).........(((..(((((....)))))...))).....))))))................... (-18.01 = -17.93 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:48 2006