Locus 2532

Sequence ID 2L_DroMel_CAF1
Location 7,006,853 – 7,006,996
Length 143
Max. P 0.812218
window4048 window4049

overview

Window 8

Location 7,006,853 – 7,006,958
Length 105
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 87.15
Mean single sequence MFE -24.37
Consensus MFE -19.86
Energy contribution -19.42
Covariance contribution -0.44
Combinations/Pair 1.26
Mean z-score -2.06
Structure conservation index 0.82
SVM decision value 0.33
SVM RNA-class probability 0.690521
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7006853 105 - 22407834
UAGAUUCUUCGACCUUUUCUCGAAGUUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGAUACACACAAACACACCCUAAAAAACG-AGCAAUAACAAAG
(((....(((((.......)))))(((((...(((((((.....)))))))(((((........)))))...))))).....))).......-............. ( -22.50)
>DroSec_CAF1 27858 105 - 1
UAGAUUCUUCGACCUUUUCUCGAAGGUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGAUACACAUAAACACACCCUAAAAAACG-AGCUAUAACAAAG
(((.(((.(((((((((....)))))))))..(((((((.....)))))))(((((........)))))......................)-)))))........ ( -25.60)
>DroSim_CAF1 27612 105 - 1
UAGAUUCUUCGACCUUUUCUUGAAGGUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGAUACACACAAACACACCCUAAAAAACG-AGCAAUAACAAAG
(((.....(((((((((....)))))))))..(((((((.....)))))))(((((........))))).............))).......-............. ( -24.70)
>DroEre_CAF1 27889 105 - 1
UAGAUUCUUCGACCUUUUCUCGAAGGUUGAUAAUUGGCAGCCGAUGCCAAAGUAUCGGCAGGUAGAUACUCACGAACACACCCUAAAAAACG-AAGAAUAACAAAG
...((((((((((((((....))))))(((..(((.((.((((((((....))))))))..)).)))..)))..................))-))))))....... ( -28.80)
>DroYak_CAF1 27713 105 - 1
UAGAUUCUUCGACCUUUUCUCAAAGGUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGACACACACAAACACACCCUAAAAAACG-AAGAAUAACAAAA
...((((((((..((((....))))((((((((((((((.....))))))).)))))))...............................))-))))))....... ( -26.20)
>DroAna_CAF1 25917 99 - 1
AAAA----UCUACCUUUUC-CGAGGGUUUAUAACUGGCAGUUGACGCUGAUGUGCCGGCAGGUAGAUAUACACAAAC--ACCCUAAGAAACACAAUAAUAGCAGAA
....----.......((((-..(((((......(((((((((......))).))))))...(((....)))......--)))))..))))................ ( -18.40)
>consensus
UAGAUUCUUCGACCUUUUCUCGAAGGUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGAUACACACAAACACACCCUAAAAAACG_AACAAUAACAAAG
........(((((((((....)))))))))...(((...((((((((....)))))))).(((................)))...................))).. (-19.86 = -19.42 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 7,006,889 – 7,006,996
Length 107
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 85.82
Mean single sequence MFE -30.23
Consensus MFE -25.50
Energy contribution -25.65
Covariance contribution 0.15
Combinations/Pair 1.32
Mean z-score -2.03
Structure conservation index 0.84
SVM decision value 0.65
SVM RNA-class probability 0.812218
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7006889 107 - 22407834
AAAGUCA--UCUAUUAUUUGGGCUAUGACGAGUUCAGCAUUAGAUUCUUCGACCUUUUCUCGAAGUUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGAUAC
......(--((((((...((((((......))))))((........((((((.......))))))..((((((((((((.....))))))).))))))).))))))).. ( -29.40)
>DroSec_CAF1 27894 107 - 1
AAAGUCA--UAUAUUAUUUGGGCUAUGACGAGCUAAGCAUUAGAUUCUUCGACCUUUUCUCGAAGGUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGAUAC
...((((--((............))))))..(((..((....((((..(((((((((....))))))))).)))).)).((((((((....)))))))).)))...... ( -30.00)
>DroSim_CAF1 27648 107 - 1
AAAGUCA--UCUAUUAUUUGGGCUAUGACGAGCUAAGCAUUAGAUUCUUCGACCUUUUCUUGAAGGUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGAUAC
......(--((((((.....((((......))))..((....((((..(((((((((....))))))))).)))).)).((((((((....)))))))).))))))).. ( -33.30)
>DroEre_CAF1 27925 107 - 1
AAAGUCA--UCUAUUAUUUGGGCUAUGGCGAGAAAAGCAUUAGAUUCUUCGACCUUUUCUCGAAGGUUGAUAAUUGGCAGCCGAUGCCAAAGUAUCGGCAGGUAGAUAC
......(--((((((......((((..((.......))..........(((((((((....)))))))))....)))).((((((((....)))))))).))))))).. ( -33.60)
>DroYak_CAF1 27749 107 - 1
AAAGUCA--UCUAUUAUUUGGGCUAUGACGAGUAAAGCAUUAGAUUCUUCGACCUUUUCUCAAAGGUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGACAC
...((((--(((.(((((((........))))))).((....((((..(((((((((....))))))))).)))).)).((((((((....)))))))))))).))).. ( -33.60)
>DroAna_CAF1 25952 101 - 1
AAAGUCAGAUCUCUGAGUCAG---AUGAUGAGUAUUGUAAAAAA----UCUACCUUUUC-CGAGGGUUUAUAACUGGCAGUUGACGCUGAUGUGCCGGCAGGUAGAUAU
....((((....))))(((..---..)))..............(----(((((((..((-....)).......(((((((((......))).)))))).)))))))).. ( -21.50)
>consensus
AAAGUCA__UCUAUUAUUUGGGCUAUGACGAGUAAAGCAUUAGAUUCUUCGACCUUUUCUCGAAGGUUGAUAAUUGGCAGCUGAUGCCAAUGUAUCGGCAGGUAGAUAC
...((((..((((.....))))...)))).......((....((((..(((((((((....))))))))).)))).)).((((((((....)))))))).......... (-25.50 = -25.65 +   0.15)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:07 2006