Locus 614

Sequence ID 3L_DroMel_CAF1
Location 1,782,676 – 1,782,916
Length 240
Max. P 0.728661
window944 window945

overview

Window 4

Location 1,782,676 – 1,782,796
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.05
Mean single sequence MFE -38.40
Consensus MFE -23.26
Energy contribution -23.10
Covariance contribution -0.16
Combinations/Pair 1.29
Mean z-score -1.81
Structure conservation index 0.61
SVM decision value 0.16
SVM RNA-class probability 0.612155
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1782676 120 + 23771897
CAAGAUGCACCUCAGCGCGGAUAUUUCCAGCGCCCUUCAGCAGAUCGAGGCAGUGAAGAAGGGCAUCGAUGAGUCCGACGACCCCAAGCUGCAAAUGCAGACGGCCGAGAGCCUUAGCAC
...(((((.(((..(((((((....))).)))).(((((((........))..))))).)))))))).....(((....))).....(((((....)))).)(((.....)))....... ( -35.70)
>DroVir_CAF1 3692 119 + 1
-AAAAUGCACCUGAGCGCCGAUAUUUCCAGUGCCUUGCAGCAAAUCGAAGCUGUGAAAAAGGGCAUCGACGAGUCCGAGGAUGUGAAGCUGCAAUUGCAAACGGCGGACAGUUUAAAUAC
-.........(((..(((((..........(((.(((((((...((((.(((.(.....).))).))))((.(((....))).))..)))))))..)))..)))))..)))......... ( -34.50)
>DroPse_CAF1 4163 120 + 1
GACCAUGCAUCUGAGUGCAGACAUUUCUAGCGCUUUGCAGCAAAUCGAGGCCGUCAAAAAGGGCAUCGACGAGAGCGAUGACCCCAAACUGCAAAUGCAGACGGCGGAGAGCCUGAGCAC
.....((((...(((((((((....))).))))))))))((........((((((.....((((((((.(....)))))).))).....(((....)))))))))((....))...)).. ( -43.40)
>DroGri_CAF1 3278 119 + 1
-AAAAUGCAUUUGAGUGCGGAUCUGUCAAGUGCGUUGCAGCAAAUCGAGGCCGUGAAGAAGGGCAUCGAUGAGUCGGAGGAUGUCAAGCUGCAAAUGCAAACGGCGGACAGUUUGAAUAC
-....(((((....)))))..((((((...(((((((((((..(((((.(((.(.....).))).)))))(((((....))).))..))))).))))))...))))))............ ( -40.20)
>DroMoj_CAF1 3144 120 + 1
CAAAAUGCACCUGAGUGCCGAUAUUUCCAGUGCCCUACAGCAAAUCGAGGCUGUGAAAAAGGGCAUUGACGAAUCGGAAGAUGCCAAGCUGCAAAUGCAAACGGCGGAUAGUUUAAAUAC
..........(((..(((((.......((((((((((((((........))))).....)))))))))..(.(((....)))..)....(((....)))..)))))..)))......... ( -35.10)
>DroPer_CAF1 4601 120 + 1
GACCAUGCAUCUGAGUGCAGACAUUUCCAGCGCUUUGCAGCAAAUCGAGGCCGUCAAAAAGGGCAUCGACGAGAGCGAUGACCCCAAACUGCAAAUGCAGACGGCGGAGAGCCUGAACAC
...((.((.((((....))))..(((((...(((....)))........((((((.....((((((((.(....)))))).))).....(((....)))))))))))))))).))..... ( -41.50)
>consensus
_AAAAUGCACCUGAGUGCAGAUAUUUCCAGCGCCUUGCAGCAAAUCGAGGCCGUGAAAAAGGGCAUCGACGAGUCCGAGGACCCCAAGCUGCAAAUGCAAACGGCGGAGAGCCUGAACAC
.....((((.....((((...........))))..((((((...((((.(((.(.....).))).))))...(((....))).....))))))..))))...(((.....)))....... (-23.26 = -23.10 +  -0.16) 

alignment

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secondary structure

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dotplot

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Window 5

Location 1,782,796 – 1,782,916
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.39
Mean single sequence MFE -39.70
Consensus MFE -20.61
Energy contribution -21.51
Covariance contribution 0.89
Combinations/Pair 1.25
Mean z-score -2.17
Structure conservation index 0.52
SVM decision value 0.42
SVM RNA-class probability 0.728661
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1782796 120 + 23771897
CAUUCUGGGCAUUCUGCAGGAUCCCGUUUUCCGCACCAUCGUCCACGUGCAGGACUCGUUGUCCGAGCUGAACGCCCAGCUGGCUCAGCAUCCGUCCAUGUUGCCCAACGACUUCGACAU
.....(((((.(((.((.((((..((...(((((((..........)))).)))..))..))))..)).))).)))))((((...))))....(((...((((.....))))...))).. ( -39.20)
>DroVir_CAF1 3811 120 + 1
UAUACUGGGCAUACUGACAGAUCCGGUUUUCCGUACCAUUGCCCAUGUGCAGGAGUCGCUGUACGAGCUGGGCAUACAGCUGGGCCAGCAUCCGUCCAUGUUGCCCAACGACUUUGACAU
.....((((((.((.(((.(((.((((.......)))...((((.(((((((......)))))))(((((......)))))))))..).))).)))...))))))))............. ( -41.30)
>DroGri_CAF1 3397 120 + 1
GAUACUGGGCAUAUUAACGGAUCCGGUCUUUCGCACAAUUGCCCAUGUGCAGGAGUCGCUCUAUGAGCUGGGCAUCCAGCUCGGCCAACAUCCGUCCAUGCUGCCUAAUGACUUUGACAU
.....(((((((((..((((((..((((....(((((........))))).((((...))))..(((((((....)))))))))))...))))))..))).))))))............. ( -42.50)
>DroMoj_CAF1 3264 120 + 1
GAUAAUGGGUAUAUUAACGGAUCCCGUUUUUCGUACCAUUGCCCAUGUUCAGGAGUCAUUGUACGAGCUGGGCAUACAGCUUGGCCAACAUCCGUCCAUGUUGCCGAACGACUUCGACAU
((..(((((((.....(((((........))))).....)))))))..)).((((((.......((((((......))))))(((.(((((......))))))))....))))))..... ( -39.70)
>DroAna_CAF1 3660 120 + 1
CAUCCUGGGCAUUCUGCAGGACCCCGUCUUUCGCACCAUCGUCCAUGUGCAAGACUCACUGUCUGAACUUAAUGCCCAACUGGGCCAGCACCCGUCCAUGCUGCCCAACGACUUCGAUAU
.....((((((((..(..((((...(((((..((((..........))))))))).....))))...)..))))))))..(((((.((((........))))))))).((....)).... ( -36.90)
>DroPer_CAF1 4721 120 + 1
CAUUCUGGGAAUCCUGCAAGACCCCGUCUUCCGCACUAUUGUCCAUGUGCAGGACUCUCUCUCCGAGCUGAAUGCCCAGCUGGGCCAGCAUCCGUCCAUGCUGCCCAAUGAUUUCGAUAU
......((((.(((((((((((...))))...(.((....)).)...))))))).))))....(((((((......))))(((((.(((((......))))))))))......))).... ( -38.60)
>consensus
CAUACUGGGCAUACUGAAGGAUCCCGUCUUCCGCACCAUUGCCCAUGUGCAGGACUCGCUGUACGAGCUGAACACCCAGCUGGGCCAGCAUCCGUCCAUGCUGCCCAACGACUUCGACAU
.....((((((.......(((........))).......))))))......(((.((........(((((......)))))(((.((((((......)))))))))...)).)))..... (-20.61 = -21.51 +   0.89) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:48 2006