Locus 9907

Sequence ID 3R_DroMel_CAF1
Location 26,465,356 – 26,465,486
Length 130
Max. P 0.869961
window15798 window15799

overview

Window 8

Location 26,465,356 – 26,465,456
Length 100
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 75.69
Mean single sequence MFE -17.01
Consensus MFE -12.37
Energy contribution -12.82
Covariance contribution 0.44
Combinations/Pair 1.06
Mean z-score -1.14
Structure conservation index 0.73
SVM decision value 0.62
SVM RNA-class probability 0.801497
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26465356 100 - 27905053
UUUAUGUUUGCACACGCAGCAACAAUU--UCAUUGUUUGCAAAAUAAUUGCAAGCCUUCGCA-GCAGCUGUGCCCGCAAAUCCAUCCACCUUC--CGUCCC---C-CUG
.....((((((...((((((.......--.....((((((((.....)))))))).......-...))))))...))))))............--......---.-... ( -20.85)
>DroVir_CAF1 74539 88 - 1
UUUAUGUUUGCACACGCAGCAACAAUUU-UCAUUGUUUGCAAAAUAAUUGCAAAUCUACGCAGGCAGCUGCGUCCCC-------------UGG--AAU--C---UGCUC
....((((.((....)))))).((..((-(((..((((((((.....))))))))..((((((....))))))....-------------)))--)).--.---))... ( -20.30)
>DroPse_CAF1 93195 87 - 1
UUUAUGUUUGCACACGAAGCAACAAUU--UCAUUGUUUGCAAAAUAAUUGCAAACCUUACCA-GCAGCUGCGUCC-------------CGUUC--CGUUUC---C-CCG
...............(((((.......--.....((((((((.....)))))))).......-((....))....-------------.....--.)))))---.-... ( -14.40)
>DroGri_CAF1 151851 92 - 1
UUUAUGUUUGCACACGCAGCAACAAUUUGCCAUUGUUUGGAAAAUAAUUGCAAU-CUACGCAGGCAGCUGCGACCCU-----------CCUUC--UAUCAC---UUCUC
........(((....)))((((..((((.(((.....))).))))..))))...-...(((((....))))).....-----------.....--......---..... ( -17.80)
>DroAna_CAF1 58832 105 - 1
UUUAUGUUUGCACACGCAGCAACAAUU--UCAUUGUUUGCAAAAUAAUUGCAAACCUUCCCA-GCAGAUGUGCCCACAAAUCCUCUGUCAAUCCCCAACCCCAAC-CUA
....((((.((....))))))......--.....((((((((.....)))))))).......-((((((((....))).....))))).................-... ( -15.30)
>DroPer_CAF1 89667 87 - 1
UUUAUGUUUGCACACGAAGCAACAAUU--UCAUUGUUUGCAAAAUAAUUGCAAACCUUACCA-GCAGCUGCGUCC-------------CGUUC--CGUCUC---C-CCG
.............(((.(((.......--.....((((((((.....)))))))).......-((....))....-------------.))).--)))...---.-... ( -13.40)
>consensus
UUUAUGUUUGCACACGCAGCAACAAUU__UCAUUGUUUGCAAAAUAAUUGCAAACCUUCCCA_GCAGCUGCGUCC_C___________CCUUC__CAUCCC___C_CUG
..............((((((((((((.....))))))(((((.....)))))..............))))))..................................... (-12.37 = -12.82 +   0.44)

alignment

Postscript

secondary structure

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dotplot

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Window 9

Location 26,465,379 – 26,465,486
Length 107
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 86.75
Mean single sequence MFE -24.40
Consensus MFE -20.23
Energy contribution -20.95
Covariance contribution 0.72
Combinations/Pair 1.08
Mean z-score -2.41
Structure conservation index 0.83
SVM decision value 0.87
SVM RNA-class probability 0.869961
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26465379 107 - 27905053
ACAGCUGCAC--ACACCU--ACACACAAUUUGAUUUUAUGUUUGCACACGCAGCAACAAUU--UCAUUGUUUGCAAAAUAAUUGCAAGCCUUCGCA-GCAGCUGUGCCCGCAAA
((((((((..--......--..........(((..((.((((.((....))))))..))..--)))..((((((((.....)))))))).......-))))))))......... ( -27.10)
>DroVir_CAF1 74551 106 - 1
ACAGCUGCGC--ACACCU--ACACACAAUUUGAUUUUAUGUUUGCACACGCAGCAACAAUUU-UCAUUGUUUGCAAAAUAAUUGCAAAUCUACGCAGGCAGCUGCGUCCCC---
.(((((((((--......--..........(((.....(((((((....)))..))))....-)))..((((((((.....))))))))....))..))))))).......--- ( -24.30)
>DroPse_CAF1 93210 104 - 1
ACAUCUGCAC--ACACCUCCGCACACAAUUUGAUUUUAUGUUUGCACACGAAGCAACAAUU--UCAUUGUUUGCAAAAUAAUUGCAAACCUUACCA-GCAGCUGCGUCC-----
.((.((((..--........(((.(((...........))).)))....((((......))--))...((((((((.....)))))))).......-)))).)).....----- ( -18.80)
>DroGri_CAF1 151867 108 - 1
GCAGCUGCACACACACCU--ACGAACAAUUUGAUUUUAUGUUUGCACACGCAGCAACAAUUUGCCAUUGUUUGGAAAAUAAUUGCAAU-CUACGCAGGCAGCUGCGACCCU---
((((((((..........--.((((((((.............(((....)))((((....)))).))))))))........((((...-....))))))))))))......--- ( -30.60)
>DroMoj_CAF1 82058 106 - 1
ACAGCUGCAC--ACACCU--ACGCACAAUUUGAUUUUAUGUUUGCACACGCAGCAACAAUUU-UCAUUGUUUGCAAAAUAAUUGCAAGCCACGGCAGGCAGCUGCGACCCA---
...(.((((.--(((...--...((.....))......))).))))).((((((.(((((..-..)))))((((((.....))))))(((......))).)))))).....--- ( -26.80)
>DroPer_CAF1 89682 104 - 1
ACAUCUGCAC--ACACCUCCGCACACAAUUUGAUUUUAUGUUUGCACACGAAGCAACAAUU--UCAUUGUUUGCAAAAUAAUUGCAAACCUUACCA-GCAGCUGCGUCC-----
.((.((((..--........(((.(((...........))).)))....((((......))--))...((((((((.....)))))))).......-)))).)).....----- ( -18.80)
>consensus
ACAGCUGCAC__ACACCU__ACACACAAUUUGAUUUUAUGUUUGCACACGCAGCAACAAUU__UCAUUGUUUGCAAAAUAAUUGCAAACCUUCGCA_GCAGCUGCGUCCC____
.(((((((......................(((.....((((.((.......)))))).....)))..((((((((.....))))))))........))))))).......... (-20.23 = -20.95 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:44:39 2006