Locus 2943

Sequence ID 3L_DroMel_CAF1
Location 8,401,459 – 8,401,586
Length 127
Max. P 0.982965
window4604 window4605

overview

Window 4

Location 8,401,459 – 8,401,553
Length 94
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 98.72
Mean single sequence MFE -14.66
Consensus MFE -14.18
Energy contribution -14.38
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.97
SVM decision value 1.56
SVM RNA-class probability 0.964085
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8401459 94 - 23771897
UGCCACUGCGAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAAAUCUAAAAUAUAUAAUGUAUAUAUAGGCAUAUAUAAC
((((.((((.....))))...............((((((.(((.((...(((...........)))...)).))).))))))))))........ ( -14.70)
>DroSec_CAF1 8719 93 - 1
UGCCACUGCGUACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAUAAUCUAAAA-AUAUAAUGUAUAUAUAGGCAUAUAUAAC
((((.((((.....))))...............((((((.(((.......((((((.........-))))))))).))))))))))........ ( -14.51)
>DroSim_CAF1 8742 94 - 1
UGCCACUGCGAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAAAUCUAAAAUAUAUAAUGUAUAUAUAGGCAUAUAUAAC
((((.((((.....))))...............((((((.(((.((...(((...........)))...)).))).))))))))))........ ( -14.70)
>DroEre_CAF1 6641 94 - 1
UGCCACUGCGAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAAAUCUAAAAUAUAUAAUGUAUAUAUAGGCAUAUAUAAC
((((.((((.....))))...............((((((.(((.((...(((...........)))...)).))).))))))))))........ ( -14.70)
>DroYak_CAF1 7053 94 - 1
UGCCACUGCGAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAAAUCUAAAAUAUAUAAUGUAUAUAUAGGCAUAUAUAAC
((((.((((.....))))...............((((((.(((.((...(((...........)))...)).))).))))))))))........ ( -14.70)
>consensus
UGCCACUGCGAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAAAUCUAAAAUAUAUAAUGUAUAUAUAGGCAUAUAUAAC
((((.((((.....))))...............((((((.(((.((...(((...........)))...)).))).))))))))))........ (-14.18 = -14.38 +   0.20)

alignment

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secondary structure

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dotplot

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Window 5

Location 8,401,483 – 8,401,586
Length 103
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 88.48
Mean single sequence MFE -16.03
Consensus MFE -14.33
Energy contribution -14.50
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.39
Structure conservation index 0.89
SVM decision value 1.93
SVM RNA-class probability 0.982965
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8401483 103 - 23771897
UUACAGCUAA-ACAAACAAA---AUU-AAACUCGA-AACUGCC----ACUGCGAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAAAUCUAA---AAUAUAU
((((((((..-.........---...-........-.......----.((((.....))))((((....(((........)))....)))))))))))).......---....... ( -14.50)
>DroPse_CAF1 1741 115 - 1
UUACAGCUAAAACAAACAAAUUAAUUAAAACUGGA-AACUGCAAGAAACUGCAAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAGAUCUAGUUGUAUAUAU
.((((((((.......................(..-..)(((((....((((.....))))((((....(((........)))....))))..))))).....))))))))..... ( -19.30)
>DroSec_CAF1 8743 102 - 1
UUACAGCUAA-ACAAACAAA---AUU-AAACUCGA-AACUGCC----ACUGCGUACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAUAAUCUAA---AA-AUAU
.(((((((..-.........---...-........-.......----.((((.....))))((((....(((........)))....)))))))))))........---..-.... ( -13.60)
>DroYak_CAF1 7077 103 - 1
UUACAGCUAA-ACAAACAAA---AUU-AAACUCGA-AACUGCC----ACUGCGAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAAAUCUAA---AAUAUAU
((((((((..-.........---...-........-.......----.((((.....))))((((....(((........)))....)))))))))))).......---....... ( -14.50)
>DroAna_CAF1 1904 104 - 1
UUACAGCUAA-AAAACAAAA---AUU-AAACUCGAAAACUGCA----UCUGCAAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAAAUCUAA---AUUAUAU
((((((((..-.........---...-...........(((((----.........)))))((((....(((........)))....)))))))))))).......---....... ( -15.00)
>DroPer_CAF1 1738 115 - 1
UUACAGCUAAAACAAACAAAUUAAUUAAAACUGGA-AACUGCAAGAAACUGCAAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAGAUCUAGUUGUAUAUAU
.((((((((.......................(..-..)(((((....((((.....))))((((....(((........)))....))))..))))).....))))))))..... ( -19.30)
>consensus
UUACAGCUAA_ACAAACAAA___AUU_AAACUCGA_AACUGCA____ACUGCAAACUGCAGGCUAAACAUUAAACUUAUAUAAACAAUAGCAGUUGUAAAAUCUAA___AAUAUAU
((((((((........................................((((.....))))((((....(((........)))....))))))))))))................. (-14.33 = -14.50 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:48 2006