Locus 7486

Sequence ID X_DroMel_CAF1
Location 18,670,654 – 18,670,786
Length 132
Max. P 0.980473
window12279 window12280

overview

Window 9

Location 18,670,654 – 18,670,746
Length 92
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 74.43
Mean single sequence MFE -19.52
Consensus MFE -11.90
Energy contribution -11.65
Covariance contribution -0.25
Combinations/Pair 1.22
Mean z-score -2.18
Structure conservation index 0.61
SVM decision value 1.86
SVM RNA-class probability 0.980473
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18670654 92 + 22224390
------------------UCUGCAGUUGAUUAAUUUUACCUAUAAUUUCAUUUUCGACCAAUUAUUGCACUUUUCCUUCGAGUGCAACAUAAUCAGUAGCUGAG-------UCUUAC
------------------((.((..(((((((..........(((((((......))..)))))((((((((.......))))))))..)))))))..)).)).-------...... ( -17.40)
>DroSec_CAF1 15590 89 + 1
------------------UCUUCGGUUGGCUAAUUUUACCUAUGAUUUCAUUUUCGACCAA---UUGCACUUUUCCUUCGAGUGCAACAUAAUCAGUAGCUGAA-------GCUUAC
------------------.(((((((((.((...........(((........))).....---((((((((.......)))))))).......))))))))))-------)..... ( -18.70)
>DroSim_CAF1 13744 89 + 1
------------------UCUUCAGUUGGCUAAUUUUACCUAUGAUUUCAUUUUCGAUGAA---UUGCACUUUUCCUUCGAGUGCAACAUAAUCAGUAGCUGAA-------GCUUAC
------------------.(((((((((.((...............((((((...))))))---((((((((.......)))))))).......))))))))))-------)..... ( -21.40)
>DroYak_CAF1 15767 114 + 1
UACAAGCCAAACUCAAAUUCUUUAGUUGCCUCAUGUUACCCAAGAUUUCCUUUCCGAACAA---UUGCACUUUUUUUUCGAGUGCAGCAUAAUCAGUGGCUUAAUGCUCACUGCUAC
....(((...................(((....((((....(((.....)))....)))).---.(((((((.......)))))))))).....((((((.....)).))))))).. ( -20.60)
>consensus
__________________UCUUCAGUUGGCUAAUUUUACCUAUGAUUUCAUUUUCGACCAA___UUGCACUUUUCCUUCGAGUGCAACAUAAUCAGUAGCUGAA_______GCUUAC
....................((((((((...................((......)).......((((((((.......)))))))).........))))))))............. (-11.90 = -11.65 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,670,676 – 18,670,786
Length 110
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 83.93
Mean single sequence MFE -28.20
Consensus MFE -17.55
Energy contribution -19.18
Covariance contribution 1.63
Combinations/Pair 1.03
Mean z-score -2.14
Structure conservation index 0.62
SVM decision value 0.48
SVM RNA-class probability 0.751793
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18670676 110 - 22224390
CUAAGUGCGUAGGGAGUUUAAUAUUUCCUGCAUAUGAAAAGUAAGA-------CUCAGCUACUGAUUAUGUUGCACUCGAAGGAAAAGUGCAAUAAUUGGUCGAAAAUGAAAUUAUA
...((((((((((((((.....)))))))))...(((.........-------.))))).)))(((((((((((((((....))...))))))))..)))))............... ( -27.30)
>DroSec_CAF1 15612 107 - 1
CUAAGUGCGUAGGGUGUUUAAUAUUUCCUGCAUAUGGAAAGUAAGC-------UUCAGCUACUGAUUAUGUUGCACUCGAAGGAAAAGUGCAA---UUGGUCGAAAAUGAAAUCAUA
...((((.((.(((.(((((...(((((.......))))).)))))-------))).))))))(((((.(((((((((....))...))))))---))))))....(((....))). ( -26.10)
>DroSim_CAF1 13766 107 - 1
CUAAGUGCGUAGGGAGUUUAAUAUUUCCUGCAUAUGGAGAGUAAGC-------UUCAGCUACUGAUUAUGUUGCACUCGAAGGAAAAGUGCAA---UUCAUCGAAAAUGAAAUCAUA
...((((((((((((((.....)))))))))...(((((......)-------)))))).)))((((..(((((((((....))...))))))---)((((.....))))))))... ( -30.00)
>DroYak_CAF1 15807 113 - 1
CCAAGUGCGUAUGCAGCUUAGUAUUUCCUGCAUAUGAA-AGUAGCAGUGAGCAUUAAGCCACUGAUUAUGCUGCACUCGAAAAAAAAGUGCAA---UUGUUCGGAAAGGAAAUCUUG
((.(((((((((((((...........))))))))...-((((.(((((.((.....)))))))....)))))))))((((....((......---)).))))....))........ ( -29.40)
>consensus
CUAAGUGCGUAGGGAGUUUAAUAUUUCCUGCAUAUGAAAAGUAAGA_______UUCAGCUACUGAUUAUGUUGCACUCGAAGGAAAAGUGCAA___UUGGUCGAAAAUGAAAUCAUA
...((((((((((((((.....))))))))).(((.....)))..............)).)))(((((..(((((((.........)))))))....)))))............... (-17.55 = -19.18 +   1.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:07 2006