Locus 8249

Sequence ID X_DroMel_CAF1
Location 20,473,062 – 20,473,199
Length 137
Max. P 0.578952
window13550 window13551

overview

Window 0

Location 20,473,062 – 20,473,163
Length 101
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 85.14
Mean single sequence MFE -31.20
Consensus MFE -21.94
Energy contribution -22.86
Covariance contribution 0.92
Combinations/Pair 1.09
Mean z-score -1.58
Structure conservation index 0.70
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20473062 101 - 22224390
UUAGCUAUUCGCAACCGGUUUUCGCACGAAGAUCGAAAGAUCGAAUGUGAGGUUUGA------ACUUUAAGCUUUGCGGGGGGGAUCAGCAACUGAUUGAA-----CCACA------U
...(((..((.(..(((....(((((....((((....))))...)))))(((((((------...)))))))...)))..).))..)))...........-----.....------. ( -28.20)
>DroSec_CAF1 46532 103 - 1
UUAGCUAUUUGCAACCGGUUUUCGCACGAAGAUCGAAAGAUCGAAU--GAGGUUUGAACUUGAACUUUAAGCUUUGCG--GGGGAUCAGCAACUGGUUGAA-----CCACA------U
(((((((.((((......((..((((....((((....))))(..(--(((((((......))))))))..)..))))--..))....)))).))))))).-----.....------. ( -30.80)
>DroSim_CAF1 51774 102 - 1
UUAGCUAUUUGCAACCGGUUUUCGCACGAAGAUCGAAAGAUCGAAU--GAGGUUUGAACUUGAACUUUAAGCU-UGCG--GGGGAUCAGCAACUGGUUGAA-----CCACU------U
(((((((.((((......((..((((....((((....))))(..(--(((((((......))))))))..).-))))--..))....)))).))))))).-----.....------. ( -30.80)
>DroEre_CAF1 44412 114 - 1
UUAGCUAUUUGCAACCGGUUUUCGCUCGGAGAUCGAAAGAUCGAAU--GAGGUUUGAUCUUGAACUUUAAGCAUUGCG--GGGGAUCAGCAACUGGUUAACUGGCUGAACAGAACUGG
...((.....))..(((((((((.((((.(((((....))))(..(--(((((((......))))))))..)..).))--)).))(((((....(.....)..)))))...))))))) ( -35.60)
>DroYak_CAF1 46984 103 - 1
UUAGCUAUUUGCAACCGGUUUUUGCACGAAGAUCGAACGAUCGAGU--GAGGUUUGAACUUGAACUUUAAGCUUUGCG--GGGGAACAGCAACUGUUUGCC-----CCACA------G
...((.....))...((((((((....)))))))).........(.--.(((((((((.......)))))))))..)(--(((((((((...)))))).))-----))...------. ( -30.60)
>consensus
UUAGCUAUUUGCAACCGGUUUUCGCACGAAGAUCGAAAGAUCGAAU__GAGGUUUGAACUUGAACUUUAAGCUUUGCG__GGGGAUCAGCAACUGGUUGAA_____CCACA______U
(((((((.((((...((((((((....))))))))...((((......(((((((......)))))))..((...))......)))).)))).))))))).................. (-21.94 = -22.86 +   0.92)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,473,091 – 20,473,199
Length 108
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 92.29
Mean single sequence MFE -26.82
Consensus MFE -22.30
Energy contribution -22.58
Covariance contribution 0.28
Combinations/Pair 1.13
Mean z-score -1.32
Structure conservation index 0.83
SVM decision value 0.09
SVM RNA-class probability 0.578952
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20473091 108 - 22224390
ACGCUUCGAUUUAUGGUAAUUUUAAUUGACCACAAAUUAGCUAUUCGCAACCGGUUUUCGCACGAAGAUCGAAAGAUCGAAUGUGAGGUUUGA------ACUUUAAGCUUUGCG
....((((((((.(((((((....))).)))).......((.....))...((((((((....))))))))..)))))))).(..((((((((------...))))))))..). ( -26.70)
>DroSec_CAF1 46559 112 - 1
UCGCUUCGAUUUAUGGUAAUUUUAAUUGACCACAAAUUAGCUAUUUGCAACCGGUUUUCGCACGAAGAUCGAAAGAUCGAAU--GAGGUUUGAACUUGAACUUUAAGCUUUGCG
.(((((((((((.(((((((....))).)))).......((.....))...((((((((....))))))))..)))))))).--((((((((((.......))))))))))))) ( -27.30)
>DroSim_CAF1 51801 111 - 1
ACGCUUCGAUUUAUGGUAAUUUUAAUUGACCACAAAUUAGCUAUUUGCAACCGGUUUUCGCACGAAGAUCGAAAGAUCGAAU--GAGGUUUGAACUUGAACUUUAAGCU-UGCG
.(((((((((((.(((((((....))).)))).......((.....))...((((((((....))))))))..))))))))(--(((((((......))))))))....-.))) ( -27.10)
>DroEre_CAF1 44450 112 - 1
ACGCUUUGAUUUAUGCUAAUUUUAAUUAACCACAAAUUAGCUAUUUGCAACCGGUUUUCGCUCGGAGAUCGAAAGAUCGAAU--GAGGUUUGAUCUUGAACUUUAAGCAUUGCG
.(((..........((((((((...........))))))))....(((..(((((....)).))).((((....))))...(--(((((((......)))))))).)))..))) ( -27.40)
>DroYak_CAF1 47011 112 - 1
ACGCUUUGAUUUAUGCUAAUUUUAAUUGACCACAAAUUAGCUAUUUGCAACCGGUUUUUGCACGAAGAUCGAACGAUCGAGU--GAGGUUUGAACUUGAACUUUAAGCUUUGCG
.((.((((((((..((((((((...........))))))))....(((((.......)))))...)))))))))).....(.--.(((((((((.......)))))))))..). ( -25.60)
>consensus
ACGCUUCGAUUUAUGGUAAUUUUAAUUGACCACAAAUUAGCUAUUUGCAACCGGUUUUCGCACGAAGAUCGAAAGAUCGAAU__GAGGUUUGAACUUGAACUUUAAGCUUUGCG
.(((((((((((...........................((.....))...((((((((....))))))))..))))))))...((((((((((.......))))))))))))) (-22.30 = -22.58 +   0.28)

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 12:59:22 2006