Locus 4933

Sequence ID 2L_DroMel_CAF1
Location 14,129,528 – 14,129,634
Length 106
Max. P 0.762312
window7825 window7826

overview

Window 5

Location 14,129,528 – 14,129,618
Length 90
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 79.72
Mean single sequence MFE -19.27
Consensus MFE -12.61
Energy contribution -12.37
Covariance contribution -0.25
Combinations/Pair 1.24
Mean z-score -1.67
Structure conservation index 0.65
SVM decision value 0.51
SVM RNA-class probability 0.762312
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14129528 90 - 22407834
CCAUAUGUAAUUAGAAAUCUUUCACCGUAUCAGUGCGGUUGAUUUCAUUGCGAGUCGCCACUCUUGCAAGCCACCAGUGAGCA--UAAAAAA
...(((((.....((((((....((((((....)))))).)))))).(((((((........)))))))...........)))--))..... ( -23.90)
>DroSec_CAF1 218287 90 - 1
CCAUAUGUAAUUAGAAAUCUUUCACCGUAUCAGUGCGGUUGAUUUCAUUGCGAAUCGCCACUCUUGCAAGCCAACAGUGAGCA--UAAAAAA
.....((((((..((((((....((((((....)))))).))))))))))))....((((((.(((.....))).)))).)).--....... ( -22.70)
>DroSim_CAF1 214763 90 - 1
GCAUAUGUAAUUAGAAAUCUUUCACCGUAUCAGUGCGGUUGAUUUCAUUGCGAGUCGCCACUCUUGCAAGCCAACAGUGAGCA--UAAAAAA
...(((((.....((((((....((((((....)))))).)))))).(((((((........)))))))...........)))--))..... ( -23.90)
>DroEre_CAF1 221010 74 - 1
CCAGAUGUAAUUAGAAAUCUUUCACCGUAUCAAUGUGGUUGAUUUCAUUGCGAGU----------------CACCAGUGAGUA--UAAAAAA
.....((((((..((((((..((((.........))))..))))))))))))(.(----------------((....))).).--....... ( -13.40)
>DroYak_CAF1 231953 88 - 1
C----UGUAAUUAGAAAUCUUUCACCGCAUCAGUGCGGUUGAUUUCAUUGCGAGUCGCCACUCUUGCGAGCCACCAGUAAGUAUAUAAAAAA
(----((......((((((....((((((....)))))).)))))).(((((((........))))))).....)))............... ( -23.20)
>DroAna_CAF1 215635 81 - 1
CCAGAAGUAAUUAGAAAUCCUUCACCGAAUAUGCUUCCUUGAUUUCGUUGCAAAUCUG---------AACCCAUCAGUGAUUA--UAAAAAA
......(((((((((((((.....................)))))).........(((---------(.....))))))))))--)...... (  -8.50)
>consensus
CCAUAUGUAAUUAGAAAUCUUUCACCGUAUCAGUGCGGUUGAUUUCAUUGCGAGUCGCCACUCUUGCAAGCCACCAGUGAGCA__UAAAAAA
......(((((..((((((....((((((....)))))).)))))))))))......................................... (-12.61 = -12.37 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,129,538 – 14,129,634
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 75.49
Mean single sequence MFE -21.67
Consensus MFE -12.61
Energy contribution -12.37
Covariance contribution -0.25
Combinations/Pair 1.24
Mean z-score -1.61
Structure conservation index 0.58
SVM decision value 0.49
SVM RNA-class probability 0.755416
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14129538 96 - 22407834
UGCUUCCUGCAUCUUGCCAUAUGUAAUUAGAAAUCUUUCACCGUAUCAGUGCGGUUGAUUUCAUUGCGAGUCGCCACUCUUGCAAGCCACCAGUGA
....(((((...(((((.....(((((..((((((....((((((....)))))).)))))))))))((((....))))..)))))....))).)) ( -25.20)
>DroSec_CAF1 218297 96 - 1
UGCUCCCUGCAUCUUGCCAUAUGUAAUUAGAAAUCUUUCACCGUAUCAGUGCGGUUGAUUUCAUUGCGAAUCGCCACUCUUGCAAGCCAACAGUGA
(((.....)))....((.((.((((((..((((((....((((((....)))))).)))))))))))).)).))((((.(((.....))).)))). ( -23.10)
>DroSim_CAF1 214773 96 - 1
UGCUUCCUGCAUCUUGGCAUAUGUAAUUAGAAAUCUUUCACCGUAUCAGUGCGGUUGAUUUCAUUGCGAGUCGCCACUCUUGCAAGCCAACAGUGA
(((.....)))..(((((...........((((((....((((((....)))))).)))))).(((((((........))))))))))))...... ( -29.50)
>DroEre_CAF1 221020 80 - 1
UGGUAACUACUCCUUGCCAGAUGUAAUUAGAAAUCUUUCACCGUAUCAAUGUGGUUGAUUUCAUUGCGAGU----------------CACCAGUGA
((((((.......))))))((((((((..((((((..((((.........))))..)))))))))))..))----------------)........ ( -16.80)
>DroYak_CAF1 231965 89 - 1
---UAACUACUUCUUAC----UGUAAUUAGAAAUCUUUCACCGCAUCAGUGCGGUUGAUUUCAUUGCGAGUCGCCACUCUUGCGAGCCACCAGUAA
---...........(((----((......((((((....((((((....)))))).)))))).(((((((........))))))).....))))). ( -26.60)
>DroAna_CAF1 215645 84 - 1
---UGGCCAUUCCUCACCAGAAGUAAUUAGAAAUCCUUCACCGAAUAUGCUUCCUUGAUUUCGUUGCAAAUCUG---------AACCCAUCAGUGA
---..........((((..(((((((((.(((....)))....))).))))))..((((...(((.((....))---------)))..)))))))) (  -8.80)
>consensus
UGCUACCUACAUCUUGCCAUAUGUAAUUAGAAAUCUUUCACCGUAUCAGUGCGGUUGAUUUCAUUGCGAGUCGCCACUCUUGCAAGCCACCAGUGA
......................(((((..((((((....((((((....)))))).)))))))))))............................. (-12.61 = -12.37 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:22 2006