Locus 2704

Sequence ID 2R_DroMel_CAF1
Location 9,512,672 – 9,512,803
Length 131
Max. P 0.797468
window4468 window4469

overview

Window 8

Location 9,512,672 – 9,512,792
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.28
Mean single sequence MFE -25.92
Consensus MFE -13.44
Energy contribution -15.24
Covariance contribution 1.80
Combinations/Pair 1.00
Mean z-score -2.11
Structure conservation index 0.52
SVM decision value 0.61
SVM RNA-class probability 0.797468
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9512672 120 - 20766785
UGCCUCUGAUUUUUUGUAAAACAAAGAAAGGCAACUGUUAUGGGCGACUUGUGAUUGCUCUCACAAUAAAAUCGCUCAAAUGUAAGCUUAACAAUCUUUAACCUUCAUUAUGAAUUUCAA
(((((....(((((((.....)))))))))))).......(((((((.((((((......)))))).....)))))))((((.(((.((((......)))).)))))))........... ( -26.30)
>DroSec_CAF1 9733 120 - 1
UGCCUCUGAUUUGUUGUAAAACAAAGAAAGGCAACUGUUAUGGGCGACUUUUGAAUGCUCUCACAGUAAAAUCCCAUGAAAGUAAGCUUAACAUUCUUUAAGCUUCAUUAUGAAUUUCAA
(((((....((((((....))))))...)))))(((.(((((((..(((..(((......))).))).....))))))).)))((((((((......))))))))............... ( -29.30)
>DroSim_CAF1 9766 120 - 1
UGCCUCUGAUUUGUUGUAAAACAAAGAAAGGCAACUGUUAUGGGCGACUUUUGAUUGCUCUCACAGAAAAAUACCAUGAAAGUAAGCUUAACAUUCUUUAAGCUUCAUUAUGAAUUUCAA
(((((....((((((....))))))...))))).((((...(((((((....).))))))..))))........(((((....((((((((......))))))))..)))))........ ( -30.10)
>DroEre_CAF1 9957 116 - 1
UGCCUCUGAUUUGUUGUAAAACAAAGAAAGACAACUGUUAUG-GCGACUUUGCAUUGCUCUGACAGUAAAAUGGCUAACAAGUAAGCUUAACUAA---AAUCCUUGUUUAUGGAGUAUAA
.((((((..((((((....))))))...)))..(((((((.(-((((.......))))).))))))).....)))....(((....)))......---..(((........)))...... ( -25.30)
>DroYak_CAF1 9869 102 - 1
UGCCUCUGAUUUUUUGUAAAACAAAGAAAGGCAACUGUUAUAUGCGACUUUUCAUUGCUCUCACAGUAAAUCG-C-----------AUUAACCAA---AAUCCUUGUUUAUCGAAUG---
(((((....(((((((.....))))))))))))...((((.((((((..(((.((((......))))))))))-)-----------))))))...---...................--- ( -18.60)
>consensus
UGCCUCUGAUUUGUUGUAAAACAAAGAAAGGCAACUGUUAUGGGCGACUUUUGAUUGCUCUCACAGUAAAAUCCCAUAAAAGUAAGCUUAACAAUCUUUAACCUUCAUUAUGAAUUUCAA
(((((....((((((....))))))...)))))(((((...((((((.......))))))..)))))..................................................... (-13.44 = -15.24 +   1.80)

alignment

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secondary structure

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dotplot

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Window 9

Location 9,512,712 – 9,512,803
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 87.14
Mean single sequence MFE -22.28
Consensus MFE -13.54
Energy contribution -15.34
Covariance contribution 1.80
Combinations/Pair 1.00
Mean z-score -2.74
Structure conservation index 0.61
SVM decision value 0.16
SVM RNA-class probability 0.613133
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9512712 91 - 20766785
CCCAUAAUCACUGCCUCUGAUUUUUUGUAAAACAAAGAAAGGCAACUGUUAUGGGCGACUUGUGAUUGCUCUCACAAUAAAAUCGCUCAAA
.(((((((...(((((....(((((((.....))))))))))))...)))))))((((.((((((......)))))).....))))..... ( -26.20)
>DroSec_CAF1 9773 91 - 1
CCCAUAAUCACUGCCUCUGAUUUGUUGUAAAACAAAGAAAGGCAACUGUUAUGGGCGACUUUUGAAUGCUCUCACAGUAAAAUCCCAUGAA
((((((((...(((((....((((((....))))))...)))))...))))))))..(((..(((......))).)))............. ( -21.90)
>DroSim_CAF1 9806 91 - 1
CCCAUAAUCACUGCCUCUGAUUUGUUGUAAAACAAAGAAAGGCAACUGUUAUGGGCGACUUUUGAUUGCUCUCACAGAAAAAUACCAUGAA
.......(((.(((((....((((((....))))))...))))).((((...(((((((....).))))))..))))..........))). ( -22.10)
>DroEre_CAF1 9994 90 - 1
CCGAUAAUCACUGCCUCUGAUUUGUUGUAAAACAAAGAAAGACAACUGUUAUG-GCGACUUUGCAUUGCUCUGACAGUAAAAUGGCUAACA
............((((((..((((((....))))))...)))..(((((((.(-((((.......))))).))))))).....)))..... ( -22.50)
>DroYak_CAF1 9897 85 - 1
CCGAUAAUCACUGCCUCUGAUUUUUUGUAAAACAAAGAAAGGCAACUGUUAUAUGCGACUUUUCAUUGCUCUCACAGUAAAUCG-C-----
.((((......(((((....(((((((.....))))))))))))(((((.....((((.......))))....)))))..))))-.----- ( -18.70)
>consensus
CCCAUAAUCACUGCCUCUGAUUUGUUGUAAAACAAAGAAAGGCAACUGUUAUGGGCGACUUUUGAUUGCUCUCACAGUAAAAUCCCAUAAA
...........(((((....((((((....))))))...)))))(((((...((((((.......))))))..)))))............. (-13.54 = -15.34 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:07 2006