Locus 910

Sequence ID X_DroMel_CAF1
Location 2,542,400 – 2,542,610
Length 210
Max. P 0.825631
window1487 window1488

overview

Window 7

Location 2,542,400 – 2,542,494
Length 94
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 59.01
Mean single sequence MFE -31.62
Consensus MFE -11.94
Energy contribution -10.88
Covariance contribution -1.06
Combinations/Pair 1.58
Mean z-score -2.19
Structure conservation index 0.38
SVM decision value 0.29
SVM RNA-class probability 0.672229
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2542400 94 + 22224390
---CUGCAG---CCG-CUUGCCUUCCGGUCACCUGGAGUGCAGUACUG-CAGCACACUGCGCCUACGUGAAG-UGAACUCAUUCAUAUAUGUAGCUAC-AUAGC
---((((((---..(-((.((.((((((....)))))).))))).)))-)))..((((.(((....))).))-))............(((((....))-))).. ( -28.40)
>DroSec_CAF1 5630 85 + 1
---CUGCAGCCGCCG-CUUGCCUUCCGGUCACCUGGAGUGCAGCAC-----GCACACUGCGGCUACGUGGAG-UGAACUCAC--------AUAGCUGC-ACAAA
---.((((((.((((-(......(((((....)))))((((.....-----))))...)))))...((((((-....))).)--------)).)))))-).... ( -36.60)
>DroSim_CAF1 5606 85 + 1
---CUGCAGUCGCCG-CUUGCCUUCCGGUCACCUGGAGUGCAGCAC-----GCACACUGCGGCUACGUGGAG-UGAACUCAC--------AUAGCUUC-ACCUA
---..(((((.((.(-((.((.((((((....)))))).)))))..-----))..)))))(((((.(((.((-....)))))--------.)))))..-..... ( -31.50)
>DroPer_CAF1 53167 88 + 1
UGUGUGUGG---CCGUUUUGCCCUUCGAACGUUUGAAA-GCUAUAAUGGCAG------------AGAUGAUGCCGUAUUCGUCUCUGUCUGUAGUCACCACGGC
.(((.((((---(......((..(((((....))))).-))......(((((------------((((((........)))))))))))....))))))))... ( -30.00)
>consensus
___CUGCAG___CCG_CUUGCCUUCCGGUCACCUGGAGUGCAGCAC_____GCACACUGCGGCUACGUGAAG_UGAACUCAC________AUAGCUAC_ACAGA
.....(((((.......((((.((((((....)))))).)))).......................((((........))))...........)))))...... (-11.94 = -10.88 +  -1.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 2,542,494 – 2,542,610
Length 116
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 87.46
Mean single sequence MFE -37.00
Consensus MFE -32.37
Energy contribution -32.27
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.01
Structure conservation index 0.87
SVM decision value 0.70
SVM RNA-class probability 0.825631
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2542494 116 + 22224390
UCUAAUCGAUGCCCGGCAUCCAAUCUGGGUCAGAGCAUAUUGCGCAUACGCAGCGUGUUCCCUUUUGGGCAUUGCACCUUGGUAUUUUCAGCUUAUUUGCUGCACACACGCCACGU
......((((((((((.((((.....))))).(((((..(((((....)))))..))))).....))))))))).....((((.....((((......)))).......))))... ( -36.80)
>DroSec_CAF1 5715 103 + 1
GCCAAUCGAUGCCCGCC-GCCAAUCUGGGUCAGAGCACAUUGCGCAUACGCAGCGUGGUCCCUUUUGGGCAUUGCACCUUGGUAUUUUCAGCUUAUUUGCUGCA------------
(((((.((((((((...-(((......)))..((.(((.(((((....))))).))).))......))))))))....))))).....((((......))))..------------ ( -36.00)
>DroSim_CAF1 5691 103 + 1
GCCAAUCGAUGCCCGCC-GCCAAUGUGGGUCAGAGCACAUUGCGCAUACGCAGCGUGGUCCCUUUUGGGCAUUGCACCUUGGUAUUUUCAGCUUAGUUGCUGCA------------
(((((.((((((((.((-((....))))....((.(((.(((((....))))).))).))......))))))))....))))).....((((......))))..------------ ( -38.20)
>consensus
GCCAAUCGAUGCCCGCC_GCCAAUCUGGGUCAGAGCACAUUGCGCAUACGCAGCGUGGUCCCUUUUGGGCAUUGCACCUUGGUAUUUUCAGCUUAUUUGCUGCA____________
(((((.(((((((((....((.....))....((.(((.(((((....))))).))).)).....)))))))))....))))).....((((......)))).............. (-32.37 = -32.27 +  -0.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:57:02 2006