Locus 4304

Sequence ID 3R_DroMel_CAF1
Location 11,423,115 – 11,423,272
Length 157
Max. P 0.997876
window7013 window7014

overview

Window 3

Location 11,423,115 – 11,423,232
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.11
Mean single sequence MFE -35.30
Consensus MFE -30.06
Energy contribution -30.66
Covariance contribution 0.60
Combinations/Pair 1.07
Mean z-score -1.75
Structure conservation index 0.85
SVM decision value 1.43
SVM RNA-class probability 0.953289
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11423115 117 - 27905053
CAGAUGUAAAUAUCUGAGCUUCCUGUGGUGCUGCUGGUGGCCAUUCUGUUAGAAGAUCGGGGUCACCAGUGCCA--CACUUUUGUUAUUAUGUUUUUAUGCGAACUUCCCCUUGCCGCU-
((((((....))))))(((....((((((...((((((((((..(((......)))....))))))))))))))--)).....................((((........)))).)))- ( -36.90)
>DroSec_CAF1 170641 117 - 1
CAGAUGUAAAUAUCUGAGCUUCCUGUGGUGCUGCUGGUGGCCAUUCAGUUAGAAGAUCGGGGUCACCAGUGCCA--CACUUUUGUUAUUAUGCUUUUAUGCGUACUUCCCCUUGCCGCU-
((((((....))))))(((....((((((...((((((((((..((........))....))))))))))))))--))..........(((((......)))))............)))- ( -37.20)
>DroSim_CAF1 164501 117 - 1
CAGAUGUAAAUAUCUGAGCUUCCUGUGGUGCUGCUGGUGGCCAUUCUGUUAGAAGAUCGGGGUCACCAGGACCA--CACUUUUGUUAUUAUGCUUUUAUGCGUACUUCCCCUUGCCGCU-
((((((....))))))(((....((((((....(((((((((..(((......)))....))))))))).))))--))..........(((((......)))))............)))- ( -36.80)
>DroEre_CAF1 160350 119 - 1
CAGAUGUAAAUAUCUGA-UUUCCUGUGGUGCUGCUGGUGGCCAUUCCGUUAGAAGAUCGAGGUCACCAGUGCCACACACUUUUGUUAUUAUCUUUUUAUGCGUACUUCCCCUUGCCGCAC
((((((....)))))).-.....((((((...((((((((((..((.(((....))).))))))))))))))))))......................((((((........)).)))). ( -32.30)
>DroYak_CAF1 162937 119 - 1
CAGAUGUAAAUAUCUGG-UUUCCUGCGGUGCUGCUGGUGGCCAUUCCGUUAGAAGAUCGGGGUCACCAGUGCCACACACUUUUGUUAUUAUCUUUUUAUGCGUACUUCCCCCUGCCGCUC
((((((....)))))).-......(((((((.((((((((((...(((.........))))))))))))))).(((......)))............................))))).. ( -33.30)
>consensus
CAGAUGUAAAUAUCUGAGCUUCCUGUGGUGCUGCUGGUGGCCAUUCCGUUAGAAGAUCGGGGUCACCAGUGCCA__CACUUUUGUUAUUAUGUUUUUAUGCGUACUUCCCCUUGCCGCU_
((((((....))))))........(((((((.((((((((((..((........))....))))))))))))................(((((......))))).........))))).. (-30.06 = -30.66 +   0.60)

alignment

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secondary structure

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dotplot

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Window 4

Location 11,423,154 – 11,423,272
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.79
Mean single sequence MFE -40.08
Consensus MFE -35.02
Energy contribution -35.34
Covariance contribution 0.32
Combinations/Pair 1.13
Mean z-score -2.28
Structure conservation index 0.87
SVM decision value 2.95
SVM RNA-class probability 0.997876
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11423154 118 - 27905053
GAAAAAAGCGCUGCUCCAAGGAAAGCCCUUGCCACCCAUACAGAUGUAAAUAUCUGAGCUUCCUGUGGUGCUGCUGGUGGCCAUUCUGUUAGAAGAUCGGGGUCACCAGUGCCA--CACU
.....((((.......(((((.....))))).........((((((....)))))).))))..((((((...((((((((((..(((......)))....))))))))))))))--)).. ( -41.90)
>DroSec_CAF1 170680 118 - 1
GAAAAAAUCGCUGCUCCAAGGAAAGCCCUUGCCACCCAUACAGAUGUAAAUAUCUGAGCUUCCUGUGGUGCUGCUGGUGGCCAUUCAGUUAGAAGAUCGGGGUCACCAGUGCCA--CACU
.........(((....(((((.....))))).........((((((....)))))))))....((((((...((((((((((..((........))....))))))))))))))--)).. ( -39.10)
>DroSim_CAF1 164540 118 - 1
GAAAAAAUCGCUGCUCCAAGGAAAGCCCUUGCCACCCAUACAGAUGUAAAUAUCUGAGCUUCCUGUGGUGCUGCUGGUGGCCAUUCUGUUAGAAGAUCGGGGUCACCAGGACCA--CACU
.........(((....(((((.....))))).........((((((....)))))))))....((((((....(((((((((..(((......)))....))))))))).))))--)).. ( -38.70)
>DroEre_CAF1 160390 119 - 1
GAAAAAAGCGCCACUCCAAGGAAAGUCCUUGCCACCCAUACAGAUGUAAAUAUCUGA-UUUCCUGUGGUGCUGCUGGUGGCCAUUCCGUUAGAAGAUCGAGGUCACCAGUGCCACACACU
......((((((((..(((((.....))))).........((((((....)))))).-......))))))))((((((((((..((.(((....))).)))))))))))).......... ( -42.30)
>DroYak_CAF1 162977 119 - 1
GGAAAAAGCGCCAUUACGAGAAAAACCCUUGCCACCCAUACAGAUGUAAAUAUCUGG-UUUCCUGCGGUGCUGCUGGUGGCCAUUCCGUUAGAAGAUCGGGGUCACCAGUGCCACACACU
((....((((((....((((.......)))).........((((((....)))))).-........))))))((((((((((...(((.........))))))))))))).))....... ( -38.40)
>consensus
GAAAAAAGCGCUGCUCCAAGGAAAGCCCUUGCCACCCAUACAGAUGUAAAUAUCUGAGCUUCCUGUGGUGCUGCUGGUGGCCAUUCCGUUAGAAGAUCGGGGUCACCAGUGCCA__CACU
......((((((((..(((((.....))))).........((((((....))))))........))))))))((((((((((..((........))....)))))))))).......... (-35.02 = -35.34 +   0.32)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:23 2006