Locus 3634

Sequence ID 2L_DroMel_CAF1
Location 10,585,081 – 10,585,238
Length 157
Max. P 0.999432
window5730 window5731

overview

Window 0

Location 10,585,081 – 10,585,201
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.28
Mean single sequence MFE -38.90
Consensus MFE -33.60
Energy contribution -33.77
Covariance contribution 0.17
Combinations/Pair 1.06
Mean z-score -4.11
Structure conservation index 0.86
SVM decision value 3.60
SVM RNA-class probability 0.999432
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10585081 120 + 22407834
AACUGAUUGUAACUGCAAUCAGUUAGCAGACAAAGCAACAGAACUCGACUCGACUCGAGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCC
((((((((((....)))))))))).((.......)).......(((((......)))))...........((((((...((((((((((..(.......)..)))))))))).)))))). ( -39.10)
>DroPse_CAF1 75599 115 + 1
AACUGAUUGUAACUGCAAUCAGUUAGCAGACAAAGCAGGAGCUCUCG-----GCCCGGGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGGCC
((((((((((....)))))))))).((.......)).((.((.....-----)))).((((((((.....(....)...((((((((((..(.......)..)))))))))))))))))) ( -41.90)
>DroSim_CAF1 73095 120 + 1
AACUGAUUGUAACUGCAAUCAGUUAGCAGACAAAGCAACAGAACUCGACUCGACUCGAGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCC
((((((((((....)))))))))).((.......)).......(((((......)))))...........((((((...((((((((((..(.......)..)))))))))).)))))). ( -39.10)
>DroYak_CAF1 75440 115 + 1
AACUGAUUGUAACUGCAAUCAGUUAGCAGACAAAGCAACAGAACUCG-----ACUUGAGCCAUCUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCC
((((((((((....)))))))))).((.......))...(((.(((.-----....)))...))).....((((((...((((((((((..(.......)..)))))))))).)))))). ( -35.70)
>DroAna_CAF1 76324 115 + 1
AACUGAUUGUAACUGCAAUCAGUUAGCAGACAAAGCAACAGAACUCA-----ACUCGAGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCC
((((((((((....))))))))))..........(((((........-----..(((.(((.........)))..))).((((((((((..(.......)..)))))))))).))))).. ( -35.70)
>DroPer_CAF1 77519 115 + 1
AACUGAUUGUAACUGCAAUCAGUUAGCAGACAAAGCAGGAGCUCUCG-----GCCCGGGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGGCC
((((((((((....)))))))))).((.......)).((.((.....-----)))).((((((((.....(....)...((((((((((..(.......)..)))))))))))))))))) ( -41.90)
>consensus
AACUGAUUGUAACUGCAAUCAGUUAGCAGACAAAGCAACAGAACUCG_____ACUCGAGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCC
((((((((((....)))))))))).((.......)).......((((........))))...........((((((...((((((((((..(.......)..)))))))))).)))))). (-33.60 = -33.77 +   0.17)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 10,585,121 – 10,585,238
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.51
Mean single sequence MFE -27.59
Consensus MFE -24.43
Energy contribution -24.48
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -2.31
Structure conservation index 0.89
SVM decision value 2.00
SVM RNA-class probability 0.985383
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10585121 117 + 22407834
GAACUCGACUCGACUCGAGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCCC---ACACACACUUCGGCUCCAAAUCCAACACACAAUAAG
................(((((.........((((((...((((((((((..(.......)..)))))))))).))))))..---...........))))).................... ( -27.75)
>DroSec_CAF1 72619 117 + 1
GAACUCGACUCGACUCGAGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCCC---ACACACACUUCGGCUCCAAAUCCAACACACAAUAAG
................(((((.........((((((...((((((((((..(.......)..)))))))))).))))))..---...........))))).................... ( -27.75)
>DroSim_CAF1 73135 117 + 1
GAACUCGACUCGACUCGAGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCCC---ACACACACUUCGGCUCCAAAUCCAACACACAAUAAG
................(((((.........((((((...((((((((((..(.......)..)))))))))).))))))..---...........))))).................... ( -27.75)
>DroEre_CAF1 73548 112 + 1
GAACUCG-----ACUCGAGCCAUCUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCCC---ACACACACUUCGGCUCCAAGUCCAACACACAAUAAG
......(-----(((.(((((.........((((((...((((((((((..(.......)..)))))))))).))))))..---...........)))))..)))).............. ( -31.45)
>DroYak_CAF1 75480 112 + 1
GAACUCG-----ACUUGAGCCAUCUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCCC---ACACACACUUCGGAUCCGACUCCAACACACAACAAG
.......-----.((((.............((((((...((((((((((..(.......)..)))))))))).))))))..---...........(((......))).........)))) ( -27.00)
>DroAna_CAF1 76364 111 + 1
GAACUCA-----ACUCGAGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCCCAACACACACACUCCUUCUCGAAC----ACACACAAUAAA
.......-----..(((((...........((((((...((((((((((..(.......)..)))))))))).))))))..................)))))..----............ ( -23.85)
>consensus
GAACUCG_____ACUCGAGCCAACUACAAAGGCGACGACUGUUUGCCAAGUUGUAAUAAAGUUUGGUAAACAAGUUGCCCC___ACACACACUUCGGCUCCAAAUCCAACACACAAUAAG
...((((........))))...........((((((...((((((((((..(.......)..)))))))))).))))))......................................... (-24.43 = -24.48 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:19 2006