Locus 7708

Sequence ID X_DroMel_CAF1
Location 19,208,167 – 19,208,263
Length 96
Max. P 0.994268
window12639 window12640

overview

Window 9

Location 19,208,167 – 19,208,263
Length 96
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 74.54
Mean single sequence MFE -22.50
Consensus MFE -11.86
Energy contribution -13.80
Covariance contribution 1.94
Combinations/Pair 1.14
Mean z-score -2.74
Structure conservation index 0.53
SVM decision value 2.46
SVM RNA-class probability 0.994268
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19208167 96 + 22224390
AUUUUUGUGUGCAAGAAGAUU--UGUCUUUCUGCCACAAACUGUGGAAUGCUACACCUUGUUUAGUAGGUGAGC-AA--------UUCAUAAUUACCAAACGUUGGU
...((((((.(((..((((..--..))))..))))))))).((((((.((((.(((((........))))))))-).--------))))))...((((.....)))) ( -33.10)
>DroSec_CAF1 29530 94 + 1
AUUUUUGUGUGCGAGAAGACU--UGUCCUUCUGCCACAAACUGUGGAAUUCUUCACCUUGUUUAGUGUGUGAGCCAA--------UUCAUAAUUACCAAUCGUU---
...((((((.((.(((((...--....))))))))))))).((((((...((((((((.....)).))).)))....--------)))))).............--- ( -19.20)
>DroEre_CAF1 26773 96 + 1
AUUUUUG--UGCAAGAAAAUU--UGUCUUUCUACCACAAAA-AUAACAUUCUUCACCUUGA--GGUAGGUGAGC-AAUUCAUAAUUACAUAAUUACUUCCCCUU---
(((((((--((..(((((...--....)))))..)))))))-))...(((.(((((((...--...))))))).-)))..........................--- ( -18.00)
>DroYak_CAF1 27290 91 + 1
AUUUUUG--UGCAUGAAGAUUUCUGUCUCUUUGCCACAAAA-AUAGCAUUCUUCACCUUGA--AUUAGGUGAGC-AAA-------UUCAUAAUUACUAACCUUU---
(((((((--((((...((((....))))...)).)))))))-)).((.....((((((...--...))))))))-...-------...................--- ( -19.70)
>consensus
AUUUUUG__UGCAAGAAGAUU__UGUCUUUCUGCCACAAAA_AUAGAAUUCUUCACCUUGA__AGUAGGUGAGC_AA________UUCAUAAUUACCAACCGUU___
...((((((.(((..(((((....)))))..)))))))))...........(((((((........))))))).................................. (-11.86 = -13.80 +   1.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 19,208,167 – 19,208,263
Length 96
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 74.54
Mean single sequence MFE -22.27
Consensus MFE -11.00
Energy contribution -12.25
Covariance contribution 1.25
Combinations/Pair 1.19
Mean z-score -2.50
Structure conservation index 0.49
SVM decision value 1.42
SVM RNA-class probability 0.952602
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19208167 96 - 22224390
ACCAACGUUUGGUAAUUAUGAA--------UU-GCUCACCUACUAAACAAGGUGUAGCAUUCCACAGUUUGUGGCAGAAAGACA--AAUCUUCUUGCACACAAAAAU
((((.....))))......(((--------(.-((((((((........))))).))))))).....(((((((((..((((..--..))))..))).))))))... ( -27.40)
>DroSec_CAF1 29530 94 - 1
---AACGAUUGGUAAUUAUGAA--------UUGGCUCACACACUAAACAAGGUGAAGAAUUCCACAGUUUGUGGCAGAAGGACA--AGUCUUCUCGCACACAAAAAU
---..(((((.((....)).))--------))).......((((......)))).............((((((((((((((...--..)))))).)).))))))... ( -19.90)
>DroEre_CAF1 26773 96 - 1
---AAGGGGAAGUAAUUAUGUAAUUAUGAAUU-GCUCACCUACC--UCAAGGUGAAGAAUGUUAU-UUUUGUGGUAGAAAGACA--AAUUUUCUUGCA--CAAAAAU
---..(((..((((((((((....)))).)))-)))..)))(((--....)))..........((-(((((((..((((((...--..))))))..))--))))))) ( -21.90)
>DroYak_CAF1 27290 91 - 1
---AAAGGUUAGUAAUUAUGAA-------UUU-GCUCACCUAAU--UCAAGGUGAAGAAUGCUAU-UUUUGUGGCAAAGAGACAGAAAUCUUCAUGCA--CAAAAAU
---..((((.(((((.......-------.))-))).)))).((--((........))))...((-(((((((.((..((((......))))..))))--))))))) ( -19.90)
>consensus
___AACGGUUAGUAAUUAUGAA________UU_GCUCACCUACU__ACAAGGUGAAGAAUGCCAC_GUUUGUGGCAGAAAGACA__AAUCUUCUUGCA__CAAAAAU
..................................(((((((........))))).))..........((((((((((.((((......)))).)))).))))))... (-11.00 = -12.25 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:33 2006