Locus 7595

Sequence ID 3L_DroMel_CAF1
Location 20,434,849 – 20,435,083
Length 234
Max. P 0.715874
window12340 window12341

overview

Window 0

Location 20,434,849 – 20,434,969
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.89
Mean single sequence MFE -38.13
Consensus MFE -25.41
Energy contribution -24.92
Covariance contribution -0.49
Combinations/Pair 1.46
Mean z-score -1.71
Structure conservation index 0.67
SVM decision value 0.39
SVM RNA-class probability 0.715874
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20434849 120 - 23771897
GGGACUGGCGUAGAUGGAAGCCACCGCAUUAUUGGCAGCGGGUAUAAUUGUUGCCAGUGCGGCCAAGAUACUGCUUAACCAGUACAUCCAAUGAUGGGUUCCAAAGCCGAAGAAGAACAA
.....((((.....(((((.(((((((((...(((((((((......)))))))))))))))......(((((......)))))..........))).)))))..))))........... ( -40.00)
>DroSec_CAF1 45068 120 - 1
GGGACUGGCGUAGAUGGAAGCCACCGCAUUAUUGGCAGCGGGUAUAAUUGUUGCCAGUGCGGCCAAGAUACUGCUUAACCAGUACAUCCAAUGAUGGGUUCCAAAGCCGAAGAAAAGCAU
.....((((.....(((((.(((((((((...(((((((((......)))))))))))))))......(((((......)))))..........))).)))))..))))........... ( -40.00)
>DroSim_CAF1 46740 120 - 1
GGGACUGGCAUAGAUGGAAGCCACCGCAUUAUUGGCAGCGGGAAUAAUUGUUGCCAGUGCGGCCAAGAUACUGCUUAACCAGUACAUCCAAUGAUGGGUUCCACAGCCGAAGAAGAACAA
.....((((...(.(((((.(((((((((...(((((((((......)))))))))))))))......(((((......)))))..........))).)))))).))))........... ( -39.00)
>DroEre_CAF1 40186 120 - 1
GGGACUGGCAUAGAUGGAAGCAACAGCAUUACAGGCAGUAAAAAUUAUUGUUGCAAAGGCGGCGAAAAUACCGCUUAACCAGUACAUCCAAUGAUGAGUUCCAAAUCCGAGGAAGAGCAA
((((((.((((.((((...(((((((..((((.....))))......)))))))..((((((........))))))........))))..))).).))))))...((....))....... ( -30.20)
>DroYak_CAF1 63233 120 - 1
GGGACUGGCAUAGAUGGAAGCCACCGCAUUACUGGCAGCGGGAAUAAUUGUUGCCAUGGCGGCCAAAAUACUGCUUAACCAGUACAUCCAAUGAUGAGUUCCAAAGACGAAGAAUAGCAG
((((((.((((.((((...(((.(((......(((((((((......)))))))))))).))).....(((((......)))))))))..))).).)))))).................. ( -36.40)
>DroAna_CAF1 37422 120 - 1
CGGGGCGGCGUAGAGAGAAGCCACCGUGCUGCAGGCCGCCUGGAUGAUGGUGGACACAGAGGCCAGGAUGCCAGCCAACCACAACACCCAGUGGCUGGUUCCAAAGCCAAAGAGGAGGAG
...((((((.(.........(((((((..(.((((...)))).)..)))))))......).))).(((.((((((((..............)))))))))))...)))............ ( -43.20)
>consensus
GGGACUGGCAUAGAUGGAAGCCACCGCAUUACUGGCAGCGGGAAUAAUUGUUGCCAGUGCGGCCAAGAUACUGCUUAACCAGUACAUCCAAUGAUGGGUUCCAAAGCCGAAGAAGAGCAA
(((((((((..........)))....(((((((((((((((......)))))))....((((........))))..............)))))))))))))).................. (-25.41 = -24.92 +  -0.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 20,434,969 – 20,435,083
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.03
Mean single sequence MFE -39.36
Consensus MFE -27.55
Energy contribution -26.45
Covariance contribution -1.10
Combinations/Pair 1.38
Mean z-score -1.56
Structure conservation index 0.70
SVM decision value 0.34
SVM RNA-class probability 0.693974
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20434969 114 + 23771897
GAUAAUCGGGGUGCUGUCCUGGGCAUUAUCUCUGGAAUUGAGUGCUUGAGCGAGGGUGUGGGACCUGCCUUUUUCGGAGUACUCUUCUUCAUUUUCCAGGAUGAUUCGAAGA------AU
.....((((((.....))))))(.((((((.((((((..(((((((((((.(((((((.(....))))))))))).)))))))).........)))))))))))).).....------.. ( -34.10)
>DroSec_CAF1 45188 120 + 1
GAGAAUCGGGGUGCUGUCCUGGGCAUUAUCUCUGGCAUCGAGUGCUUGAGCGAGGGUUUGGGACCUGCCUUUUUCGGAGUACUCUUCUUCAUUUUCCAGGAUGAUGCGGAUACUGAUCUU
((((.((((.....(((((...((((((((.((((....(((((((((((.((((((..(....).))))))))).))))))))...........))))))))))))))))))))))))) ( -38.36)
>DroSim_CAF1 46860 111 + 1
GAGAAUCGGGGUGCUGUCCUGGGCAUAAUCUCUGGCAUUGAGUGCUUGAGCGAGGGUUUGGGACCUGCCUUUUUCGGAGUACUCUUCUUCAUUUUCCAGGAUGAU---------GAUCUU
((((...((((((((((((..(((.....(((.(((((...))))).))).....)))..))))...((......))))))))))((.((((((....)))))).---------)))))) ( -35.30)
>DroEre_CAF1 40306 120 + 1
GAAAAUCAAGGGGCUGUACUGGGCAUUAUAUCUGGAAUAGAGUGCUUGAGCGAGGGUUUGGGACCUGCCCUUUUCGGAGUACUCUUCUUCAUUUUCCAGGAUGAUGCGGAGAAUAAUCUU
.........(((..(((.((..(((((((.(((((((.((((((((((((.((((((..(....).))))))))).)))))))))........))))))))))))))..)).)))..))) ( -40.70)
>DroYak_CAF1 63353 120 + 1
GAAAAUCUAGGGGCUGUUCUGGGUAUUAUCUCUGGAAUCGAGUGCCUGAGCGAGGGUUUGGGACCAGCCUUUUUCGGAGUACUCUUCUUCAUUUUCCAGGAUGAUUCGGAGAAUAAUCUC
.........(((..((((((..(.((((((.((((((..(((((((((((.(((((((.(....))))))))))))).)))))).........)))))))))))).)..))))))..))) ( -40.70)
>DroAna_CAF1 37542 120 + 1
GAGAACCAAGGAGCUGUCCUGGGAGUCCUCACUGGGAUUGAGAGUCUGUGCGAUGGUCUGGGACCAGCCGUCUUCGGAGUUCUCUUUUAUCUUUUCCAAGAGGAUUCCAAGGAUCCCCAG
.........((.(..(((((.(((((((((..(((((..(((((((((...(((((.(((....))))))))..)))).))))).........))))).))))))))).))))).))).. ( -47.00)
>consensus
GAGAAUCGAGGUGCUGUCCUGGGCAUUAUCUCUGGAAUUGAGUGCUUGAGCGAGGGUUUGGGACCUGCCUUUUUCGGAGUACUCUUCUUCAUUUUCCAGGAUGAUUCGGAGAAUAAUCUU
.....((.(((......))).)).((((((.((((((..(((((((((((.((((((.........))))))))))).)))))).........))))))))))))............... (-27.55 = -26.45 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:10 2006