Locus 5884

Sequence ID 3L_DroMel_CAF1
Location 15,828,235 – 15,828,339
Length 104
Max. P 0.599772
window9379 window9380

overview

Window 9

Location 15,828,235 – 15,828,339
Length 104
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 90.15
Mean single sequence MFE -19.74
Consensus MFE -14.22
Energy contribution -14.46
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.88
Structure conservation index 0.72
SVM decision value 0.13
SVM RNA-class probability 0.599077
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15828235 104 + 23771897
UGGUUUGGAAGACUUCGAUUUUUGUUGGGUU--UUCUGU-UUGCUUUAUUGAGAACUUGGAACUUCUUUCGAAAGUUUUCAAUUUGAUUUUAGUCAUUUU------UUUUACG
.(((.(((((((((.((((....))))))))--))))).-..)))..(((((((((((.(((.....)))..))))))))))).((((....))))....------....... ( -21.80)
>DroSec_CAF1 35583 113 + 1
UGGUUUGGAAGACUUCGAUUUUUGUUGGGUUUUUUCUGUUUUGCUUUAUUGAGAACUUGGAAAUUCUUUCGAAAGUUUUCAAUUUGAUUUUAUUCAUUUUUUUAUUUUUUACG
.......(((((((((((......(..(((((((..((........))..)))))))..)........))).))))))))....(((......)))................. ( -18.74)
>DroSim_CAF1 36817 111 + 1
UGGUUUGGAAGACUUCGAUUUUUGUUGGGUUU-UUCUGU-UUGCUUUAUUGAGAACUUGGAACUUCUUUCGAAAGUUUUCAAUUUGAUUUUAUUCAUUUUUUUAUUUUUUACG
.(((.(((((((.((((((....)))))).))-))))).-..)))..(((((((((((.(((.....)))..))))))))))).(((......)))................. ( -19.40)
>DroEre_CAF1 34792 100 + 1
UGGUUUGGAAGACUUCGAUUUUUGUUAGGUU--UUCUGU-UUGCUUUAUUGAGAACUUGGAACUUCUUUCGAAAGUUUUCAGUUUGAUUUUGUUU----G------UUUUACG
.......(((((((((((......(((((((--(((...-..........))))))))))........))).)))))))).((..(((.......----)------))..)). ( -19.46)
>DroYak_CAF1 77097 102 + 1
UGGUUUGGAAGACUUCGAUUUUUGUUAGGUU--UUCUGU-UUGCUUUAUUGAGAACUUGGAACUUCUUUCGAAAGUUUUCAAUUUGAUUUUGUUU----U----UUUUUUACG
.(((.((((((((((.(((....))))))))--))))).-..)))..(((((((((((.(((.....)))..)))))))))))............----.----......... ( -19.30)
>consensus
UGGUUUGGAAGACUUCGAUUUUUGUUGGGUU__UUCUGU_UUGCUUUAUUGAGAACUUGGAACUUCUUUCGAAAGUUUUCAAUUUGAUUUUAUUCAUUUU____UUUUUUACG
.(((.(((((((((.((((....))))))))..)))))....)))..(((((((((((.(((.....)))..))))))))))).............................. (-14.22 = -14.46 +   0.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,828,235 – 15,828,339
Length 104
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 90.15
Mean single sequence MFE -8.34
Consensus MFE -7.40
Energy contribution -7.60
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.26
Structure conservation index 0.89
SVM decision value 0.13
SVM RNA-class probability 0.599772
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15828235 104 - 23771897
CGUAAAA------AAAAUGACUAAAAUCAAAUUGAAAACUUUCGAAAGAAGUUCCAAGUUCUCAAUAAAGCAA-ACAGAA--AACCCAACAAAAAUCGAAGUCUUCCAAACCA
.......------.....((((........(((((.(((((((....))......))))).))))).......-...(..--....)............)))).......... (  -9.80)
>DroSec_CAF1 35583 113 - 1
CGUAAAAAAUAAAAAAAUGAAUAAAAUCAAAUUGAAAACUUUCGAAAGAAUUUCCAAGUUCUCAAUAAAGCAAAACAGAAAAAACCCAACAAAAAUCGAAGUCUUCCAAACCA
.((..............(((......))).(((((.(((((((....))......))))).)))))...)).......................................... (  -8.40)
>DroSim_CAF1 36817 111 - 1
CGUAAAAAAUAAAAAAAUGAAUAAAAUCAAAUUGAAAACUUUCGAAAGAAGUUCCAAGUUCUCAAUAAAGCAA-ACAGAA-AAACCCAACAAAAAUCGAAGUCUUCCAAACCA
.((..............(((......))).(((((.(((((((....))......))))).)))))...))..-......-................................ (  -8.40)
>DroEre_CAF1 34792 100 - 1
CGUAAAA------C----AAACAAAAUCAAACUGAAAACUUUCGAAAGAAGUUCCAAGUUCUCAAUAAAGCAA-ACAGAA--AACCUAACAAAAAUCGAAGUCUUCCAAACCA
.......------.----...........((((...(((((.(....))))))...)))).............-......--............................... (  -7.10)
>DroYak_CAF1 77097 102 - 1
CGUAAAAAA----A----AAACAAAAUCAAAUUGAAAACUUUCGAAAGAAGUUCCAAGUUCUCAAUAAAGCAA-ACAGAA--AACCUAACAAAAAUCGAAGUCUUCCAAACCA
.........----.----............(((((.(((((((....))......))))).))))).......-......--............................... (  -8.00)
>consensus
CGUAAAAAA____AAAAUGAAUAAAAUCAAAUUGAAAACUUUCGAAAGAAGUUCCAAGUUCUCAAUAAAGCAA_ACAGAA__AACCCAACAAAAAUCGAAGUCUUCCAAACCA
..............................(((((.(((((((....))......))))).)))))............................................... ( -7.40 =  -7.60 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:53 2006