Locus 1608

Sequence ID 2R_DroMel_CAF1
Location 6,030,774 – 6,030,869
Length 95
Max. P 0.988650
window2695 window2696

overview

Window 5

Location 6,030,774 – 6,030,869
Length 95
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 67.10
Mean single sequence MFE -16.92
Consensus MFE -5.69
Energy contribution -5.58
Covariance contribution -0.11
Combinations/Pair 1.12
Mean z-score -1.85
Structure conservation index 0.34
SVM decision value 0.24
SVM RNA-class probability 0.649657
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6030774 95 + 20766785
UGCGCAUCGGAACAUUACUUCAAGCAAAU---AUAGGUAUUAAAAUCGAUACAAAUUAGUU---AUAUACUUUACUGUAAUGCCAU-CCCGAAACGCACUAU
((((..((((..((((((...........---....(((((......))))).....(((.---....))).....))))))....-.))))..)))).... ( -16.40)
>DroPse_CAF1 47692 73 + 1
UGCGAAACAGAACUAGAG--------------------AUUCAGUUUCAUAUGAAUAGGAU---AUAGGAUACCUUCUAGUU------CCGUUUCGCACAGU
((((((((.(((((((((--------------------(((((........))))).((((---.....)).))))))))))------).)))))))).... ( -25.70)
>DroSec_CAF1 49022 97 + 1
UGCGCAUCGGUACUUUACUUCAAGCCAAA---A--GGUAUUGAAAUCGACACAAUUUAGUUAUUAUAUACUUUACUGUAAUACCAUUCCCGAAACGCACUGU
((((..((((........((((((((...---.--))).)))))..............(.(((((((........))))))).)....))))..)))).... ( -18.10)
>DroSim_CAF1 48749 89 + 1
UGCGCAUCGGUACUUUACUUCAAGCCAAA---A--UUUAUUGAAAUC-----AAUUUAGUU---AUAUACUUUACUGUAAUACCAUUCCCGAAACGCACUGU
((((..((((........(((((......---.--....)))))...-----......(((---(((........)))))).......))))..)))).... ( -12.80)
>DroEre_CAF1 49281 96 + 1
UGCGCAUCGGAACUUCGAAUCAAUCAAAUUUUAUUCAAAUUGAAAUCGACACAAUUCAGUU---AUA--UUCUACUUUAAUACCAU-CCCGAAACGCACUGU
((((..((((......((((.((......)).)))).(((((((..........)))))))---...--.................-.))))..)))).... ( -14.80)
>DroYak_CAF1 48586 96 + 1
UGCGCAUCGGAACUUUAAAUCAAUCAAAAGGCAUUGCAAUUGAAAUCGACACAAUUUAGCU---AUA--UUUUACUUUAGUACCAU-CCCGAAACGCACUGU
((((..((((.............((((...((...))..))))...............(((---(..--........)))).....-.))))..)))).... ( -13.70)
>consensus
UGCGCAUCGGAACUUUACUUCAAGCAAAA___A__GGUAUUGAAAUCGACACAAUUUAGUU___AUAUACUUUACUGUAAUACCAU_CCCGAAACGCACUGU
((((..((((..............................................................................))))..)))).... ( -5.69 =  -5.58 +  -0.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 6,030,774 – 6,030,869
Length 95
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 67.10
Mean single sequence MFE -23.23
Consensus MFE -9.62
Energy contribution -9.15
Covariance contribution -0.47
Combinations/Pair 1.44
Mean z-score -2.42
Structure conservation index 0.41
SVM decision value 2.13
SVM RNA-class probability 0.988650
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6030774 95 - 20766785
AUAGUGCGUUUCGGG-AUGGCAUUACAGUAAAGUAUAU---AACUAAUUUGUAUCGAUUUUAAUACCUAU---AUUUGCUUGAAGUAAUGUUCCGAUGCGCA
....(((((.(((((-...(((((((....(((((.((---(........((((........))))...)---)).)))))...)))))))))))).))))) ( -22.40)
>DroPse_CAF1 47692 73 - 1
ACUGUGCGAAACGG------AACUAGAAGGUAUCCUAU---AUCCUAUUCAUAUGAAACUGAAU--------------------CUCUAGUUCUGUUUCGCA
....((((((((((------((((((((((........---..)))(((((........)))))--------------------.))))))))))))))))) ( -28.60)
>DroSec_CAF1 49022 97 - 1
ACAGUGCGUUUCGGGAAUGGUAUUACAGUAAAGUAUAUAAUAACUAAAUUGUGUCGAUUUCAAUACC--U---UUUGGCUUGAAGUAAAGUACCGAUGCGCA
....(((((.(((((((.((((((..(((...(.(((((((......)))))))).)))..))))))--.---))).((((......)))).)))).))))) ( -24.80)
>DroSim_CAF1 48749 89 - 1
ACAGUGCGUUUCGGGAAUGGUAUUACAGUAAAGUAUAU---AACUAAAUU-----GAUUUCAAUAAA--U---UUUGGCUUGAAGUAAAGUACCGAUGCGCA
....(((((.((((...........((((..(((....---.)))..)))-----)(((((((....--.---......)))))))......)))).))))) ( -18.40)
>DroEre_CAF1 49281 96 - 1
ACAGUGCGUUUCGGG-AUGGUAUUAAAGUAGAA--UAU---AACUGAAUUGUGUCGAUUUCAAUUUGAAUAAAAUUUGAUUGAUUCGAAGUUCCGAUGCGCA
....(((((.(((((-((.(((((.......))--)))---.......(((.(((((((..(((((.....))))).))))))).))).))))))).))))) ( -24.10)
>DroYak_CAF1 48586 96 - 1
ACAGUGCGUUUCGGG-AUGGUACUAAAGUAAAA--UAU---AGCUAAAUUGUGUCGAUUUCAAUUGCAAUGCCUUUUGAUUGAUUUAAAGUUCCGAUGCGCA
....(((((.(((((-(((..((...(((....--...---.))).....))..)....(((((..(((......))))))))......))))))).))))) ( -21.10)
>consensus
ACAGUGCGUUUCGGG_AUGGUAUUACAGUAAAGUAUAU___AACUAAAUUGUGUCGAUUUCAAUACC__U___UUUUGCUUGAAGUAAAGUUCCGAUGCGCA
....(((((.((((...............................(((((.....))))).................((.....))......)))).))))) ( -9.62 =  -9.15 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:46 2006