Locus 752

Sequence ID 3L_DroMel_CAF1
Location 2,241,368 – 2,241,499
Length 131
Max. P 0.701189
window1158 window1159

overview

Window 8

Location 2,241,368 – 2,241,459
Length 91
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 82.26
Mean single sequence MFE -26.71
Consensus MFE -18.42
Energy contribution -18.87
Covariance contribution 0.45
Combinations/Pair 1.20
Mean z-score -1.91
Structure conservation index 0.69
SVM decision value 0.35
SVM RNA-class probability 0.701189
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2241368 91 + 23771897
-AUAAUGCGACCACCAAUCUCCCGCCUCAUCCACAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGUCUGCUGCACGAG
-.(((((((.........((((((.((((((....))))))......)))))))))))))............(((((((....)))).))). ( -29.80)
>DroGri_CAF1 8376 91 + 1
AAGCAUUCAAA-GAACGUGUUAUUUCACAAUCGCAGAUCAACUGAAUCGCGAACGAAUCGCACUGAGGUUCAUUGACAGCCUGCUGCACGAG
..(((......-....(((......)))....((((.((((.((((((((((.....)))).....))))))))))....)))))))..... ( -20.40)
>DroSec_CAF1 2253 91 + 1
-CUAAUGCGACCUCCAAUCUCCCUCCUCAUCCACAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGCCUGCUGCACGAG
-.(((((((..((((..........((((((....))))))........)))))))))))............(((((((....)))).))). ( -27.77)
>DroSim_CAF1 4504 91 + 1
-CUAAUGCGACCUCCAAUCUCCCUCCUCAUCCACAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGCCUGCUGCACGAG
-.(((((((..((((..........((((((....))))))........)))))))))))............(((((((....)))).))). ( -27.77)
>DroEre_CAF1 4997 91 + 1
-CUAAUGCAACUCCCCAUCUCCCUCCUCGUCCGCAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGCCUGCUGCACGAG
-.((((((..(((((..........((((((....)))))).......))))).))))))............(((((((....)))).))). ( -27.23)
>DroYak_CAF1 5155 91 + 1
-UUAAUGCAGCUCCCCAUCUCCCUUCUUGACCACAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGUCUGCUGCACGAG
-.((((((.((((((.(((((...(((.......))).)))....)).))))))))))))............(((((((....)))).))). ( -27.30)
>consensus
_CUAAUGCAACCCCCAAUCUCCCUCCUCAUCCACAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGCCUGCUGCACGAG
.........................(((.......((((((((.....(((.((.....)).))).)))))))).((((....))))..))) (-18.42 = -18.87 +   0.45)

alignment

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secondary structure

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dotplot

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Window 9

Location 2,241,393 – 2,241,499
Length 106
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 74.95
Mean single sequence MFE -37.88
Consensus MFE -21.49
Energy contribution -21.47
Covariance contribution -0.02
Combinations/Pair 1.46
Mean z-score -1.53
Structure conservation index 0.57
SVM decision value 0.22
SVM RNA-class probability 0.640806
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2241393 106 + 23771897
UCAU--CC---ACAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGUCUGCUGCACGAGCAGGGACAGGGGGCGGAUACCAUCAAGGCCCUGCCCACCG
....--..---...((((((((.....(((.((.....)))))..))))))))....((((.((((....)))))))).((((((((...((.....))..)))))).)). ( -40.60)
>DroVir_CAF1 8804 103 + 1
--UAUUUU---UCAGAUCAACUAAAUCGCGAACGAAUCGCGCUAAAGUUCAUUGGCAGCCUGCUUCACGAGCAGGGCGAGGGCAAGGA---GAUUAAGACACUGCCAAUUG
--......---.......((((....(((((.....)))))....)))).(((((((((((((((...)))))))((....)).....---..........)))))))).. ( -29.30)
>DroEre_CAF1 5022 106 + 1
UCGU--CC---GCAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGCCUGCUGCACGAGCAGGGACAGGGGGCGGAAACUAUCAAGGCCCUGCCCACCG
..((--((---((.((((((((.....(((.((.....)))))..)))))))).))...(((((.....))))))))).((((((((...((....))...)))))).)). ( -46.50)
>DroYak_CAF1 5180 106 + 1
UUGA--CC---ACAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGUCUGCUGCACGAGCAGGGACAGGGGGCGGAAACCAUCAAGGCCCUGCCCACCG
.((.--((---...((((((((.....(((.((.....)))))..))))))))))))((((.((((....)))))))).((((((((...((.....))..)))))).)). ( -41.00)
>DroAna_CAF1 7937 109 + 1
AAAC--CCUAAAUAGAUGAGCUAAAUCGGGAGCGCCUCGCGCCGAAGUUCAUCGAUGGCCUGUUGCAUGAGCAGGGUCAGGAAGCGGACACCAUCAAGGCCUUGCCCACGG
....--((......((((((((...((((..(((...))).))))))))))))(((((((((((.....))))))(((.(....).))).)))))..(((...)))...)) ( -38.00)
>DroPer_CAF1 2 93 + 1
------------------AACUAAAUCGGGAGCGCAUUGCCCUUAGGUUCAUUGACAGCCUGCUGCACGAGCAGGGGCAGGAGGCGGGCACAAUCAAAACGCUGCCAAUUG
------------------.........((.((((...(((((....(((....))).((((.((((.(.....)..)))).))))))))).........)))).))..... ( -31.90)
>consensus
U_AA__CC___ACAGAUGAGCUAAAUCGGGAGCGCAUUGCCCCCAAGUUCAUCGGCAGCCUGCUGCACGAGCAGGGACAGGGGGCGGAAACCAUCAAGGCCCUGCCCACCG
..............((((((((.....(((.(((...))).))).))))))))(((((((((((.....)))))).....((...(....)..))......)))))..... (-21.49 = -21.47 +  -0.02)

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 09:50:18 2006