Locus 6439

Sequence ID 3L_DroMel_CAF1
Location 17,223,016 – 17,223,136
Length 120
Max. P 0.999859
window10327 window10328

overview

Window 7

Location 17,223,016 – 17,223,136
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.94
Mean single sequence MFE -35.80
Consensus MFE -34.45
Energy contribution -34.45
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -5.15
Structure conservation index 0.96
SVM decision value 3.62
SVM RNA-class probability 0.999454
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17223016 120 + 23771897
UUUGCCUUUUCAAUUUCGGCUCGUUUUCCUCGUUUGCUCGCCCCAUUCACUUUUUUUUUUUAUAUUGUGUUUUGUGGGUGCACAAUAAAUUGAGCCGAAAUUGCAUCAGCGAAAUUAACA
(((((.....(((((((((((((.(((......(((..(((((((..(((................)))...)).)))))..))).))).))))))))))))).....)))))....... ( -34.59)
>DroSec_CAF1 106556 115 + 1
UUUGCCUUUUCAAUUUCGGCUCGUUUUCCUCGUUUGCUCGCCCCAUUCACUUUU--UUU---UAUUGUGUUUUGUGGGUGCACAAUAAAUUGAGCCGAAAUUGCAUCAGCGAAAUUAACA
(((((.....(((((((((((((.(((......(((..(((((((..(((....--...---....)))...)).)))))..))).))).))))))))))))).....)))))....... ( -35.00)
>DroSim_CAF1 100296 116 + 1
UUUGCCUUUUCAAUUUCGGCUCGUUUUCCUCGGUUGCUCGCCCCAUUCACUUUUUUUUU---UAUUGUGUUUUGUGGGUGCACAAUAAA-UGAGCCGAAAUUGCAUCAGCGAAAUUAACA
(((((.....((((((((((((((((......((((..(((((((..(((.........---....)))...)).)))))..)))))))-))))))))))))).....)))))....... ( -39.32)
>DroEre_CAF1 110101 115 + 1
UUUGCCUUUUCAAUUUCGGCUCGUUUUCCUCGUUUGCUCGCCCCAUUCACUUUU--UUU---UAUUGUGUUUUGUGGGUGCACAAUAAAUUGAGCCGAAAUUGCAUCAGCGAAAUUAACA
(((((.....(((((((((((((.(((......(((..(((((((..(((....--...---....)))...)).)))))..))).))).))))))))))))).....)))))....... ( -35.00)
>DroYak_CAF1 112763 114 + 1
UUUGCCUUUUCAAUUUCGGCUCGUUUUCCUCGUUUGCUCGCCCCAUUCACUUU---UUU---UAUUGUGUUUUGUGGGUGCACAAUAAAUUGAGCCGAAAUUGCAUCAGCGAAAUUAACA
(((((.....(((((((((((((.(((......(((..(((((((..(((...---...---....)))...)).)))))..))).))).))))))))))))).....)))))....... ( -35.10)
>consensus
UUUGCCUUUUCAAUUUCGGCUCGUUUUCCUCGUUUGCUCGCCCCAUUCACUUUU__UUU___UAUUGUGUUUUGUGGGUGCACAAUAAAUUGAGCCGAAAUUGCAUCAGCGAAAUUAACA
(((((.....(((((((((((((.(((......(((..(((((((..(((................)))...)).)))))..))).))).))))))))))))).....)))))....... (-34.45 = -34.45 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,223,016 – 17,223,136
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.94
Mean single sequence MFE -34.60
Consensus MFE -34.03
Energy contribution -34.03
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -4.71
Structure conservation index 0.98
SVM decision value 4.28
SVM RNA-class probability 0.999859
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17223016 120 - 23771897
UGUUAAUUUCGCUGAUGCAAUUUCGGCUCAAUUUAUUGUGCACCCACAAAACACAAUAUAAAAAAAAAAAGUGAAUGGGGCGAGCAAACGAGGAAAACGAGCCGAAAUUGAAAAGGCAAA
..........(((....((((((((((((......((((.(.(((.((...(((................)))..))))).).))))....(.....)))))))))))))....)))... ( -34.09)
>DroSec_CAF1 106556 115 - 1
UGUUAAUUUCGCUGAUGCAAUUUCGGCUCAAUUUAUUGUGCACCCACAAAACACAAUA---AAA--AAAAGUGAAUGGGGCGAGCAAACGAGGAAAACGAGCCGAAAUUGAAAAGGCAAA
..........(((....((((((((((((......((((.(.(((.((...(((....---...--....)))..))))).).))))....(.....)))))))))))))....)))... ( -34.50)
>DroSim_CAF1 100296 116 - 1
UGUUAAUUUCGCUGAUGCAAUUUCGGCUCA-UUUAUUGUGCACCCACAAAACACAAUA---AAAAAAAAAGUGAAUGGGGCGAGCAACCGAGGAAAACGAGCCGAAAUUGAAAAGGCAAA
..........(((....((((((((((((.-(((((((((...........)))))))---)).......((...(.((........)).).....))))))))))))))....)))... ( -35.30)
>DroEre_CAF1 110101 115 - 1
UGUUAAUUUCGCUGAUGCAAUUUCGGCUCAAUUUAUUGUGCACCCACAAAACACAAUA---AAA--AAAAGUGAAUGGGGCGAGCAAACGAGGAAAACGAGCCGAAAUUGAAAAGGCAAA
..........(((....((((((((((((......((((.(.(((.((...(((....---...--....)))..))))).).))))....(.....)))))))))))))....)))... ( -34.50)
>DroYak_CAF1 112763 114 - 1
UGUUAAUUUCGCUGAUGCAAUUUCGGCUCAAUUUAUUGUGCACCCACAAAACACAAUA---AAA---AAAGUGAAUGGGGCGAGCAAACGAGGAAAACGAGCCGAAAUUGAAAAGGCAAA
..........(((....((((((((((((......((((.(.(((.((...(((....---...---...)))..))))).).))))....(.....)))))))))))))....)))... ( -34.60)
>consensus
UGUUAAUUUCGCUGAUGCAAUUUCGGCUCAAUUUAUUGUGCACCCACAAAACACAAUA___AAA__AAAAGUGAAUGGGGCGAGCAAACGAGGAAAACGAGCCGAAAUUGAAAAGGCAAA
..........(((....((((((((((((......((((.(.(((.((...(((................)))..))))).).))))....(.....)))))))))))))....)))... (-34.03 = -34.03 +   0.00)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:44 2006